Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_Position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	A	T	G	C	Cg	cG	tCw	wGa	tCa	tGa	tCt	aGa	tC	Ga	tCh	dGa	cC	Gg	wrC	Gyw	Cc	gG	wA	Tw	tC_mutation	tC_mutation_to_G	tC_mutation_to_T	APOBEC_mutation	APOBEC_mutation_to_G	APOBEC_mutation_to_T	"CONTEXT(+/-20)"	a_counts	t_counts	g_counts	c_counts	cg_counts	tcw_counts	wga_counts	tca_counts	tga_counts	tct_counts	aga_counts	tc_counts	ga_counts	tch_counts	dga_counts	cc_counts	gg_counts	wrc_counts	gyw_counts	cc_counts	gg_counts	wa_counts	tw_counts	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	x	newbase	end	tum_allele1	tum_allele2	start	effect_idx	newbase_idx	pat_idx	is_coding	is_flank	is_indel	is_ins	is_del	is_missense	is_nonsense	is_splice	is_silent	gene_idx	context_and_effect	context65	categ_idx	trackpos	categ	gene	chr	pos	type	classification	ref_allele	patient	DistBetween_Mutations	Distance_to_LT_end	Distance_to_RT_end	Strain_Mutation_ID	Dataset_Mutation_ID	Complex_ID	Complex_Size	StrainCluster_ID	Dataset_Cluster_ID	Distance_Between_Clusters	Cluster_Size_Mutations	Cluster_Size_Complexes	Cluster_Length	Cluster_Coordination	Content_of_non_coordinated_cluster	Cluster_Pvalue
EXOSC10	5394	hgsc.bcm.edu;ucsc.edu	37	chr1	11155902	11155902	+	Frame_Shift_Del	DEL	G	G	-																															ttacttcgatccttaatgttGctgcgacacccatggtactg																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	11155902	G	-	11155902	7	5	1	1	0	1	0	1	0	0	0	0	5314	1310	46	0	2464	0	EXOSC10	1	11155902	Frame_Shift_Del	DEL	G	TCGA-A3-3308-01A-01D-0966-08		11155902	238094719	1	1											
RCC1	1104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28858360	28858360	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccggcttggtgctgacacTaggccagggcgacgtgggcc	6	6	16	13	3	0	1	0	1	0	0	0	2	0	1	3	5	1	2	3	5	1	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	28858360	T	A	28858360	3	1	1	1	0	0	0	0	1	0	0	0	13175	1522	53	5	222	5	RCC1	1	28858360	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	17702458	28858360	220392261	2	2											
MANEAL	149175	broad.mit.edu;hgsc.bcm.edu	37	chr1	38260262	38260262	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgcactgggaccccaaGatctcggccagctacccccg	7	5	11	18	3	1	1	0	0	1	1	2	2	1	2	6	2	3	2	6	2	2	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	38260262	G	T	38260262	3	4	1	1	0	0	0	0	1	0	0	0	9222	933	33	4	410	4	MANEAL	1	38260262	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	9401902	38260262	210990359	3	3											
CDCP2	200008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54610216	54610216	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgacagacatgacatgccagGaggaggtgaagggcggcggg	11	4	19	7	2	0	4	0	3	0	1	0	6	0	6	1	6	1	0	1	6	1	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	54610216	G	A	54610216	3	1	1	1	0	0	0	0	1	0	0	0	3094	1174	41	2	1011	2	CDCP2	1	54610216	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	16349954	54610216	194640405	4	4											
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62288627	62288627	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgctacagctgctgcctaTtcacactctgaggcttggtg	6	14	10	11	0	2	1	1	1	1	0	2	1	2	1	1	2	5	4	1	2	2	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	62288627	T	C	62288627	3	2	1	1	0	0	0	0	1	0	0	0	7731	1493	52	3	1748	3	INADL	1	62288627	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	7678411	62288627	186961994	5	5											
RPE65	6121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	68906539	68906539	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagattggtaaactcacctgCttgcagtggtgggatcttta	9	13	11	8	0	2	1	1	0	1	1	2	2	2	2	1	3	3	3	1	3	3	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	68906539	C	A	68906539	3	1	1	1	0	0	0	0	1	0	0	0	13547	797	28	4	997	4	RPE65	1	68906539	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	6617912	68906539	180344082	6	6											
TDRD10	126668	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154493879	154493879	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtaaactcttccacaagcGaaaactgttcgtgaatacaa	15	10	7	9	2	1	1	0	1	1	0	3	2	2	1	1	1	4	2	1	1	8	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	154493879	G	A	154493879	3	1	1	1	0	0	0	0	1	0	0	0	15730	1058	37	1	311	1	TDRD10	1	154493879	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	85587340	154493879	94756742	7	7											
ATP1A4	480	broad.mit.edu	37	chr1	160143468	160143468	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacggcagaggaagtcgCtgcccggcttaagatcccta	10	7	13	11	3	0	3	0	1	0	3	2	5	1	4	2	3	1	3	2	3	3	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	160143468	G	G	160143468	3	3	1	1	0	0	0	0	1	0	0	0	1131	797	28	4	2002	4	ATP1A4	1	160143468	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	5649589	160143468	89107153	8	8											
C1orf26	0	hgsc.bcm.edu;ucsc.edu	37	chr1	185171842	185171844	+	In_Frame_Del	DEL	AAG	AAG	-																															tggtgtgaagtcactcagtaAagaagaattgagtgcagagt																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	185171844	AAG	-	185171842	7	5	1	1	0	1	0	1	0	0	0	0	2035	14	1	0	1618	0	C1orf26	1	185171842	In_Frame_Del	DEL	AAG	TCGA-A3-3308-01A-01D-0966-08	25028374	185171842	64078779	9	9											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186158774	186158774	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatccggctggttgcatacAcacaggatggagtgatgcat	11	10	12	8	1	0	1	0	1	0	0	1	3	1	3	1	4	3	4	1	4	2	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	186158774	A	G	186158774	3	3	1	1	0	0	0	0	1	0	0	0	7220	159	6	3	17098	3	HMCN1	1	186158774	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	986932	186158774	63091847	10	10											
ASPM	259266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197093276	197093276	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacaaacagcatttacccaAtccatcaataactttatgtt	15	12	3	11	0	1	0	1	0	0	0	2	0	2	0	2	0	4	3	2	0	6	6	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	197093276	A	T	197093276	3	4	1	1	0	0	0	0	1	0	0	0	1056	98	4	5	7143	5	ASPM	1	197093276	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	10934502	197093276	52157345	11	11											
C1orf106	55765	hgsc.bcm.edu;ucsc.edu	37	chr1	200880644	200880647	+	Frame_Shift_Del	DEL	CACT	CACT	-																															gcctttccccgccgccgcccCactcactacacggtgacagt																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	CACT	CACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	200880647	CACT	-	200880644	7	5	1	1	0	1	0	1	0	0	0	0	1980	581	21	0	1312	0	C1orf106	1	200880644	Frame_Shift_Del	DEL	CACT	TCGA-A3-3308-01A-01D-0966-08	3787368	200880644	48369977	12	12											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	215955404	215955404	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctactggtggcacagcCagcaaccgtgcaagctttca	9	9	10	13	1	1	0	1	0	0	0	1	0	1	0	2	2	7	5	2	2	3	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	215955404	C	G	215955404	3	3	1	1	0	0	0	0	1	0	0	0	17035	594	21	4	4964	4	USH2A	1	215955404	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	15074760	215955404	33295217	13	13											
TRIM67	440730	broad.mit.edu	37	chr1	231298765	231298765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctctctgtttcgggagcCtatcatcctgccctgttccc	3	13	9	16	2	2	0	1	0	1	0	6	1	4	1	4	2	2	3	4	2	1	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	231298765	T	T	231298765	3	4	1	1	0	0	0	0	1	0	0	0	16539	681	24	2	52	2	TRIM67	1	231298765	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	15343361	231298765	17951856	14	14											
OR2L2	26246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	248201987	248201987	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtataagcaaaagagtgTgtgtgatgatgataacagga	15	10	12	4	1	0	4	0	3	0	1	1	5	1	5	1	1	2	2	1	1	5	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	248201987	T	C	248201987	3	2	1	1	0	0	0	0	1	0	0	0	11007	1696	59	3	420	3	OR2L2	1	248201987	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	16903222	248201987	1048634	15	15											
YSK4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135744718	135744718	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccacaagtcccaaagccGggaaaatttgtgtttttatg	11	12	10	8	1	0	0	0	0	0	0	2	1	2	1	3	2	1	1	3	2	5	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	135744718	G	A	135744718	3	1	1	1	0	0	0	0	1	0	0	0	17494	1116	39	1	2278	1	YSK4	2	135744718	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08		135744718	107454655	16	16											
RIF1	55183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152324541	152324541	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtctcctttgcagatccaAtataccaagcaggattggca	11	11	9	10	0	1	1	0	0	1	1	3	2	2	2	3	2	3	3	3	2	4	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	152324541	A	C	152324541	3	2	1	1	0	0	0	0	1	0	0	0	13361	101	4	5	6746	5	RIF1	2	152324541	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	16579823	152324541	90874832	17	17											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179566270	179566270	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaccttctggtggcactgCtctgataggcatggttggga	6	13	13	9	0	2	1	0	1	2	0	2	2	2	2	1	5	2	4	1	5	2	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	179566270	C	G	179566270	3	3	1	1	0	0	0	0	1	0	0	0	16734	797	28	4	73958	4	TTN	2	179566270	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	27241729	179566270	63633103	18	18											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179584416	179584416	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgatgaatgtaatgtgatGtttgctgtctgcagacaatt	11	16	10	4	0	1	4	0	3	1	1	1	4	1	4	0	0	2	4	0	0	3	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	179584416	G	A	179584416	3	1	1	1	0	0	0	0	1	0	0	0	16734	1377	48	2	80850	2	TTN	2	179584416	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	18146	179584416	63614957	19	19											
ALS2CR11	151254	hgsc.bcm.edu	37	chr2	202430456	202430456	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttttttttttttttacctttCccggggttgttgctgaagtt	3	24	8	6	1	0	1	0	1	0	0	1	1	1	1	2	2	2	4	2	2	2	11	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	202430456	C	T	202430456	3	4	1	1	0	0	0	0	1	0	0	0	552	864	30	2	4668	2	ALS2CR11	2	202430456	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	22846040	202430456	40768917	20	20											
FN1	2335	broad.mit.edu;hgsc.bcm.edu	37	chr2	216298131	216298131	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttaggacgctcataagTgtcacccactcggtaagtgt	9	12	10	10	2	3	0	2	0	1	0	4	1	3	1	1	2	0	2	1	2	3	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	216298131	T	G	216298131	3	3	1	1	0	0	0	0	1	0	0	0	5962	1696	59	5	7311	5	FN1	2	216298131	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	13867675	216298131	26901242	21	21											
PPP1R7	5510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	242102749	242102749	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggagagtttgtttttggGgaaaaacaaaattactaaac	15	12	9	5	0	0	1	0	0	0	1	0	3	0	2	1	3	3	2	1	3	7	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	242102749	G	C	242102749	3	2	1	1	0	0	0	0	1	0	0	0	12378	1232	43	4	673	4	PPP1R7	2	242102749	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	25804618	242102749	1096624	22	22											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191522	10191525	+	Frame_Shift_Del	DEL	CTGA	CTGA	-																															tgtccggagcctagtcaagcCtgagaattacaggagactgg																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	CTGA	CTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	10191525	CTGA	-	10191522	7	5	1	1	0	1	0	1	0	0	0	0	17161	681	24	0	525	0	VHL	3	10191522	Frame_Shift_Del	DEL	CTGA	TCGA-A3-3308-01A-01D-0966-08		10191522	187830908	23	23											
IL17RB	55540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53898830	53898830	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgccccccattaaggttcTtgtggtttacccatctgaaa	9	13	7	12	0	2	1	0	1	2	0	2	1	2	1	4	2	2	2	4	2	3	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	53898830	T	A	53898830	3	1	1	1	0	0	0	0	1	0	0	0	7640	1609	56	5	1046	5	IL17RB	3	53898830	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	43707308	53898830	144123600	24	24											
OR5H2	79310	broad.mit.edu;hgsc.bcm.edu	37	chr3	98001737	98001737	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttcatttcagggatgtcGaatgaggacatggaacagga	13	10	12	6	1	2	1	2	1	0	0	3	6	2	5	0	4	1	0	0	4	2	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	98001737	G	A	98001737	2	1	1	1	0	0	0	0	0	0	0	1	11162	1045	37	1		1	OR5H2	3	98001737	Silent	SNP	G	TCGA-A3-3308-01A-01D-0966-08	44102907	98001737	100020693	25	25											
IMPG2	50939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	100949947	100949947	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagacacaaattcctcAcagtgcttgcctcggtacca	10	9	8	14	1	2	1	2	0	0	1	4	1	3	1	3	2	3	3	3	2	2	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	100949947	A	G	100949947	2	3	1	1	0	0	0	0	0	0	0	1	7729	157	6	3		3	IMPG2	3	100949947	Silent	SNP	A	TCGA-A3-3308-01A-01D-0966-08	2948210	100949947	97072483	26	26											
CCDC48	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128757716	128757716	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagattttgctgagcacgCtggacgctttcagggacccc	8	9	13	11	2	1	2	1	1	0	1	1	5	1	5	2	3	2	4	2	3	1	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	128757716	C	T	128757716	2	4	1	1	0	0	0	0	0	0	0	1	2819	796	28	2		2	CCDC48	3	128757716	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08	27807769	128757716	69264714	27	27											
TRAM1L1	133022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	118005505	118005505	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtttccactcccactcCgttttctgttctttttttag	5	20	5	11	1	2	1	0	1	2	0	5	1	5	1	3	0	0	3	3	0	2	8	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	118005505	C	T	118005505	3	4	1	1	0	0	0	0	1	0	0	0	16451	661	23	1	68	1	TRAM1L1	4	118005505	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08		118005505	73148771	28	28											
CDH6	1004	hgsc.bcm.edu;ucsc.edu	37	chr5	31305299	31305302	+	Frame_Shift_Del	DEL	AAGA	AAGA	-																															agctcttggactttgaaaagAagaaagtgtatacccttaaa																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	AAGA	AAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	31305302	AAGA	-	31305299	7	5	1	1	0	1	0	1	0	0	0	0	3114	247	9	0	1040	0	CDH6	5	31305299	Frame_Shift_Del	DEL	AAGA	TCGA-A3-3308-01A-01D-0966-08		31305299	149609961	29	29											
ANKRD55	79722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55407417	55407417	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttggtacccacgatgctAtcaaaggtggtgatgatgtc	10	11	12	8	1	1	2	1	2	0	0	2	3	1	2	1	3	2	3	1	3	3	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	55407417	A	G	55407417	2	3	1	1	0	0	0	0	0	0	0	1	681	446	16	3		3	ANKRD55	5	55407417	Silent	SNP	A	TCGA-A3-3308-01A-01D-0966-08	24102118	55407417	125507843	30	30											
HTR1A	3350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	63257288	63257288	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccatgggcagcaccaacaCcgacaccatgaggtcggtga	11	4	13	13	2	0	2	0	2	0	0	1	3	0	2	4	4	2	2	4	4	1	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	63257288	C	G	63257288	3	3	1	1	0	0	0	0	1	0	0	0	7436	507	18	4	1012	4	HTR1A	5	63257288	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	7849871	63257288	117657972	31	31											
SPRY4	81848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141694601	141694601	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccggctgtgggacatccGgctgtcaagaaggggctgga	8	6	18	9	2	1	1	1	0	0	1	2	4	2	3	2	6	1	3	2	6	2	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	141694601	G	A	141694601	3	1	1	1	0	0	0	0	1	0	0	0	15109	1115	39	1	830	1	SPRY4	5	141694601	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	78437313	141694601	39220659	32	32											
SYCP2L	221711	hgsc.bcm.edu;ucsc.edu	37	chr6	10955449	10955449	+	Frame_Shift_Del	DEL	A	A	-																															acagaagaaagagagttgccAggtaacatcatgcacccagc																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	10955449	A	-	10955449	7	5	1	1	0	1	0	1	0	0	0	0	15432	202	7	0	2149	0	SYCP2L	6	10955449	Frame_Shift_Del	DEL	A	TCGA-A3-3308-01A-01D-0966-08		10955449	160159618	33	33											
LGSN	51557	broad.mit.edu;ucsc.edu	37	chr6	63990712	63990712	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacattggctccagtgtgAtacaagccatcaacaagttc	12	10	8	11	1	1	1	1	1	0	0	4	2	2	1	2	1	3	2	2	1	4	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	63990712	C	C	63990712	4	2	1	1	0	0	0	0	0	1	0	0	8759	340	12	5	789	5	LGSN	6	63990712	Nonsense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	53035263	63990712	107124355	34	34											
PPIL4	85313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	149838510	149838510	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgtttgggctttactttAtctttcagaaccaaattagg	9	17	7	8	0	2	1	1	0	1	1	3	1	3	1	2	2	2	2	2	2	5	7	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	149838510	A	C	149838510	3	2	1	1	0	0	0	0	1	0	0	0	12331	446	16	5	431	5	PPIL4	6	149838510	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	85847798	149838510	21276557	35	35											
TFB1M	51106	hgsc.bcm.edu;ucsc.edu	37	chr6	155635515	155635515	+	Frame_Shift_Del	DEL	G	G	-																															ttaatgatttctcgaatcgtGggcaacggagggagacggca																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	155635515	G	-	155635515	7	5	1	1	0	1	0	1	0	0	0	0	15792	1335	47	0	1020	0	TFB1M	6	155635515	Frame_Shift_Del	DEL	G	TCGA-A3-3308-01A-01D-0966-08	5797005	155635515	15479552	36	36											
KIF25	3834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	168440859	168440859	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtctcacctgataattacGgtgactctaaccacagcctc	11	10	7	13	1	2	2	1	2	2	0	4	2	2	2	3	2	3	0	3	2	3	3	rs147571413	byfrequency;alternate_allele	TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	168440859	G	A	168440859	2	1	1	1	0	0	0	0	0	0	0	1	8293	1103	39	1		1	KIF25	6	168440859	Silent	SNP	G	TCGA-A3-3308-01A-01D-0966-08	12805344	168440859	2674208	37	37											
INTS1	26173	broad.mit.edu	37	chr7	1543553	1543553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacctgagggtttggccGcggcgctgggccggcgcacc	4	5	17	15	6	0	1	0	1	0	0	0	1	0	1	4	5	0	4	4	5	0	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	1543553	A	A	1543553	3	1	1	1	0	0	0	0	1	0	0	0	7775	1087	38	1	6716	1	INTS1	7	1543553	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08		1543553	157595110	38	38											
LRRN3	54674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	110764578	110764578	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatataatcttactcatctgAatccatcaactgagtataaa	16	14	3	8	0	4	2	2	2	2	0	5	2	5	2	1	0	2	1	1	0	9	6	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	110764578	A	G	110764578	3	3	1	1	0	0	0	0	1	0	0	0	9036	246	9	3	1752	3	LRRN3	7	110764578	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	109221025	110764578	48374085	39	39											
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121668608	121668608	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgttcttttatttccaggaAatgcttccagactgcacact	9	15	7	10	0	1	1	0	0	1	1	3	2	3	2	2	1	2	3	2	1	2	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	121668608	A	T	121668608	3	4	1	1	0	0	0	0	1	0	0	0	12816	14	1	5	5045	5	PTPRZ1	7	121668608	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	10904030	121668608	37470055	40	40											
WASL	8976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123332672	123332672	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacagatggaggtggtggtGgaggccctgaaggtgctgag	9	7	19	6	0	0	3	0	2	0	1	0	5	0	5	1	7	1	1	1	7	1	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	123332672	G	T	123332672	3	4	1	1	0	0	0	0	1	0	0	0	17255	1348	47	4	453	4	WASL	7	123332672	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	1664064	123332672	35805991	41	41											
ASB10	136371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150873237	150873237	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatccagctgcaggtagcGgagcaggcgcggtggcaggg	10	4	18	9	3	0	0	0	0	0	0	1	1	1	1	1	6	4	5	1	6	3	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	150873237	G	A	150873237	3	1	1	1	0	0	0	0	1	0	0	0	1014	1116	39	1	41	1	ASB10	7	150873237	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	27540565	150873237	8265426	42	42											
NCAPG2	54892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	158447321	158447321	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagactccgctgtaagagTtgcatctgaaactgatggtc	11	10	10	10	1	1	4	0	2	1	2	3	4	2	4	2	1	2	4	2	1	3	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	158447321	T	C	158447321	2	2	1	1	0	0	0	0	0	0	0	1	10208	1722	60	3		3	NCAPG2	7	158447321	Silent	SNP	T	TCGA-A3-3308-01A-01D-0966-08	7574084	158447321	691342	43	43											
MSR1	4481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	15967631	15967631	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcatcttcagaatgtGaacaggctcttgtcccccat	9	11	7	14	0	3	2	1	1	2	1	5	2	5	2	3	1	2	2	3	1	2	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	15967631	G	T	15967631	4	4	1	1	0	0	0	0	0	1	0	0	9886	1294	45	4	40	4	MSR1	8	15967631	Nonsense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08		15967631	130396391	44	44											
PTK2B	2185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27301762	27301762	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccctccgcaaaccaacCtcctggctccaaagctgcag	10	5	7	19	1	0	0	0	0	0	0	3	1	3	0	7	1	4	4	7	1	3	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	27301762	C	T	27301762	3	4	1	1	0	0	0	0	1	0	0	0	12765	681	24	2	2274	2	PTK2B	8	27301762	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	11334131	27301762	119062260	45	45											
RAB11FIP1	80223	broad.mit.edu;hgsc.bcm.edu	37	chr8	37756812	37756812	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacggaggtggcgtacttctCcttgcccacctggatcaccg	6	9	11	15	3	2	0	1	0	1	0	3	2	2	2	4	4	2	1	4	4	1	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	37756812	C	A	37756812	4	1	1	1	0	0	0	0	0	1	0	0	12895	864	30	4	3727	4	RAB11FIP1	8	37756812	Nonsense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	10455050	37756812	108607210	46	46											
ZBTB10	65986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	81399984	81399984	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctgaggcaccacgtctcTaccgagcacaaactccacga	11	6	7	17	3	1	1	0	1	1	0	4	3	3	1	4	1	3	2	4	1	2	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	81399984	T	C	81399984	2	2	1	1	0	0	0	0	0	0	0	1	17522	1509	53	3		3	ZBTB10	8	81399984	Silent	SNP	T	TCGA-A3-3308-01A-01D-0966-08	43643172	81399984	64964038	47	47											
DCAF13	25879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	104427735	104427735	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgcgaaaccaagttggacTtacagagaggtaagataagt	15	8	11	7	2	0	2	0	0	0	2	1	5	1	3	2	2	2	2	2	2	5	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	104427735	T	G	104427735	3	3	1	1	0	0	0	0	1	0	0	0	4266	1606	56	5	519	5	DCAF13	8	104427735	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	23027751	104427735	41936287	48	48											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu	37	chr8	113246594	113246594	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaaataactatacttacAaagccatccattgcccaatt	16	12	3	10	0	0	0	0	0	0	0	1	0	1	0	3	0	5	1	3	0	8	7	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	113246594	A	C	113246594	3	2	1	1	0	0	0	0	1	0	0	0	3946	144	5	5	399	5	CSMD3	8	113246594	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	8818859	113246594	33117428	49	49											
PHF2	5253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	96415638	96415638	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcctctgcctggtaccaCgtgctcaaggtgagccacgc	6	7	13	15	3	2	1	1	1	1	0	2	1	2	1	4	3	4	2	4	3	2	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	96415638	C	T	96415638	2	4	1	1	0	0	0	0	0	0	0	1	11830	535	19	1		1	PHF2	9	96415638	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08		96415638	44797793	50	50											
LRIT1	26103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	85991773	85991773	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagagaagcctgtcagcCtcgctgacactgtgccggga	8	7	14	12	2	1	3	1	2	0	1	2	5	1	4	3	1	3	2	3	1	1	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	85991773	C	T	85991773	2	4	1	1	0	0	0	0	0	0	0	1	8947	680	24	2		2	LRIT1	10	85991773	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08		85991773	49542974	51	51											
PTEN	5728	hgsc.bcm.edu	37	chr10	89692949	89692949	+	Frame_Shift_Del	DEL	T	T	-																															atttattacatcggggcaaaTttttaaaggcacaagaggcc																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	89692949	T	-	89692949	7	5	1	1	0	1	0	1	0	0	0	0	12740	1493	52	0	451	0	PTEN	10	89692949	Frame_Shift_Del	DEL	T	TCGA-A3-3308-01A-01D-0966-08	3701176	89692949	45841798	52	52											
PTEN	5728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	89712017	89712017	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcagtggcggaacttgcaGtaagtgcttgaaattctcat	10	13	11	7	1	2	1	2	1	1	0	3	2	2	2	0	2	3	4	0	2	3	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	89712017	G	A	89712017	5	1	1	1	0	0	0	0	0	0	1	0	12740	1043	36	2	657	2	PTEN	10	89712017	Splice_Site	SNP	G	TCGA-A3-3308-01A-01D-0966-08	19068	89712017	45822730	53	53											
INPP5F	22876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	121587100	121587100	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagcagcagagcagtctcTccctttgccaagattcgaag	11	9	10	11	1	1	2	0	0	1	2	4	3	2	2	2	0	4	4	2	0	3	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	121587100	T	A	121587100	2	1	1	1	0	0	0	0	0	0	0	1	7758	1538	54	5		5	INPP5F	10	121587100	Silent	SNP	T	TCGA-A3-3308-01A-01D-0966-08	31875083	121587100	13947647	54	54											
PRG3	10394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57147060	57147060	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acttcaacaatgtcttcttcCctggggcactggaagtcctt	8	13	8	12	0	3	0	1	0	2	0	5	1	5	1	2	3	1	1	2	3	3	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	57147060	C	T	57147060	2	4	1	1	0	0	0	0	0	0	0	1	12482	622	22	2		2	PRG3	11	57147060	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08		57147060	77859456	55	55											
CAPN1	823	broad.mit.edu	37	chr11	64955442	64955442	+	Frame_Shift_Del	DEL	A	-	-																															ataggtgaactaccgaggccAggtggtgagcctgatccgga																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	64955442	-	-	64955442	7	5	1	1	0	1	0	1	0	0	0	0	2622	188	7	0	886	0	CAPN1	11	64955442	Frame_Shift_Del	DEL	A	TCGA-A3-3308-01A-01D-0966-08	7808382	64955442	70051074	56	56											
MFAP5	8076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	8802129	8802129	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgttccttacagacaagaCgagagcagatctccttgttg	10	11	10	10	2	1	4	0	0	1	4	3	5	2	4	2	0	2	3	2	0	2	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	8802129	C	T	8802129	3	4	1	1	0	0	0	0	1	0	0	0	9518	536	19	1	152	1	MFAP5	12	8802129	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08		8802129	125049766	57	57											
EPS8	2059	broad.mit.edu;hgsc.bcm.edu	37	chr12	15822749	15822749	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttccgatccaggacaaagGtagtcaagtgcttacaattg	12	11	9	9	1	1	0	1	0	0	0	3	2	3	1	2	2	2	2	2	2	5	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	15822749	G	A	15822749	3	1	1	1	0	0	0	0	1	0	0	0	5194	1261	44	2	2321	2	EPS8	12	15822749	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	7020620	15822749	118029146	58	58											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49442951	49442951	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctctaccacgtcctccAtgggctcctccacgaggccg	5	8	9	19	4	1	0	0	0	1	0	6	1	6	0	7	2	1	1	7	2	1	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	49442951	A	T	49442951	3	4	1	1	0	0	0	0	1	0	0	0	9621	214	8	5	12828	5	MLL2	12	49442951	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	33620202	49442951	84408944	59	59											
MAP3K12	7786	broad.mit.edu;hgsc.bcm.edu	37	chr12	53880961	53880961	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttggcaaaaggctcagggGgcggctctccacctggggag	7	7	17	10	1	2	0	1	0	1	0	3	1	2	1	2	7	0	4	2	7	2	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	53880961	G	T	53880961	3	4	1	1	0	0	0	0	1	0	0	0	9246	1247	43	4		4	MAP3K12	12	53880961	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	4438010	53880961	79970934	60	60											
SHMT2	6472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57627609	57627609	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcgggctgagcgggtgctaGagcttgtatccatcactgcc	6	10	13	12	2	1	2	1	1	0	1	3	2	2	2	2	2	4	4	2	2	2	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	57627609	G	A	57627609	3	1	1	1	0	0	0	0	1	0	0	0	14288	943	33	2	1239	2	SHMT2	12	57627609	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	3746648	57627609	76224286	61	61											
CCDC59	29080	broad.mit.edu;hgsc.bcm.edu	37	chr12	82746875	82746875	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcactgctgggaggcacaTgtcacagaagaacctaatag	13	8	11	9	0	2	2	2	0	0	2	2	3	2	3	1	2	2	3	1	2	4	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	82746875	T	A	82746875	1	1	1	0	1	0	0	0	0	0	0	0	2829	1479	51	5		5	CCDC59	12	82746875	RNA	SNP	T	TCGA-A3-3308-01A-01D-0966-08	25119266	82746875	51105020	62	62											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117672374	117672374	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccccgggaatgttacctaaAgccgtgttccgctcctccag	7	10	9	15	3	0	0	0	0	0	0	4	1	4	1	7	1	2	3	7	1	4	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	117672374	A	T	117672374	2	4	1	1	0	0	0	0	0	0	0	1	10541	59	3	5		5	NOS1	12	117672374	Silent	SNP	A	TCGA-A3-3308-01A-01D-0966-08	34925499	117672374	16179521	63	63											
CCDC60	160777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	119909965	119909965	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccactatggggacaccttaTtgaggtaagtggatgcagta	11	11	12	7	0	0	1	0	1	0	0	1	3	1	3	2	4	1	3	2	4	4	5	rs139079166	bycluster;byfrequency;by1000genomes	TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	119909965	T	C	119909965	2	2	1	1	0	0	0	0	0	0	0	1	2831	1490	52	3		3	CCDC60	12	119909965	Silent	SNP	T	TCGA-A3-3308-01A-01D-0966-08	2237591	119909965	13941930	64	64											
RNF17	56163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25353868	25353868	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaccatagtttcgaacagTtaagcattgctggaaaagta	15	10	8	8	1	0	0	0	0	0	0	1	2	0	1	1	1	3	5	1	1	6	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	25353868	T	C	25353868	2	2	1	1	0	0	0	0	0	0	0	1	13463	1722	60	3		3	RNF17	13	25353868	Silent	SNP	T	TCGA-A3-3308-01A-01D-0966-08		25353868	89816010	65	65											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32944606	32944606	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attctttcctgaccctagacCttttcctctgcccttatcat	6	17	3	15	0	3	2	1	1	2	1	5	2	5	2	5	0	1	0	5	0	2	6	rs80359087		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	32944606	C	G	32944606	3	3	1	1	0	0	0	0	1	0	0	0	1499	681	24	4	8469	4	BRCA2	13	32944606	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	7590738	32944606	82225272	66	66											
TPT1	7178	broad.mit.edu;hgsc.bcm.edu	37	chr13	45914269	45914269	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggccttcagcggaggcAtttccaccaatgagcgagtc	8	8	13	12	3	1	1	1	1	0	0	4	3	2	2	3	4	2	1	3	4	1	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	45914269	A	G	45914269	2	3	1	1	0	0	0	0	0	0	0	1	16428	214	8	3		3	TPT1	13	45914269	Silent	SNP	A	TCGA-A3-3308-01A-01D-0966-08	12969663	45914269	69255609	67	67											
LMO7	4008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	76369561	76369561	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagagactgacaggagagtGaaaaatgtaagatacattta	19	8	11	3	0	0	5	0	2	0	3	0	8	0	5	0	1	1	1	0	1	6	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	76369561	G	A	76369561	2	1	1	1	0	0	0	0	0	0	0	1	8855	1277	45	2		2	LMO7	13	76369561	Silent	SNP	G	TCGA-A3-3308-01A-01D-0966-08	30455292	76369561	38800317	68	68											
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24878537	24878537	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggactggaagagggacccGctccagtgctgccaacaggg	10	4	16	11	1	0	1	0	0	0	1	1	4	1	4	3	4	3	2	3	4	2	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	24878537	G	A	24878537	3	1	1	1	0	0	0	0	1	0	0	0	10796	1087	38	1	1547	1	NYNRIN	14	24878537	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08		24878537	82471003	69	69											
ERO1L	30001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	53118958	53118958	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagtataaagtaattaccTttagtttgtgtgcttctttt	10	21	6	4	0	1	0	0	0	1	0	1	0	1	0	1	0	2	4	1	0	7	11	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	53118958	T	G	53118958	3	3	1	1	0	0	0	0	1	0	0	0	5239	1623	56	5	298	5	ERO1L	14	53118958	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	28240421	53118958	54230582	70	70											
WDHD1	11169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55448374	55448374	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaccaagtcctctgttaagCattcgaacaattccttctga	11	14	5	11	1	2	1	0	1	2	0	5	2	4	1	3	0	3	2	3	0	5	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	55448374	C	G	55448374	3	3	1	1	0	0	0	0	1	0	0	0	17270	710	25	4	1486	4	WDHD1	14	55448374	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	2329416	55448374	51901166	71	71											
MED6	10001	broad.mit.edu	37	chr14	71067337	71067337	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagcaatacagtatacctcgGatatccaccgccgccataat	13	9	6	13	3	0	0	0	0	0	0	2	1	1	1	5	1	3	2	5	1	7	6	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	71067337	A	A	71067337	2	1	1	1	0	0	0	0	0	0	0	1	9451	1164	41	2		2	MED6	14	71067337	Silent	SNP	G	TCGA-A3-3308-01A-01D-0966-08	15618963	71067337	36282203	72	72											
MAP3K9	4293	broad.mit.edu	37	chr14	71197381	71197381	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgggcatggctgggggAcacaaaccaccaagggtcca	10	4	15	12	1	0	0	0	0	0	0	1	1	1	1	3	5	2	3	3	5	2	0	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	71197381	G	G	71197381	3	3	1	1	0	0	0	0	1	0	0	0	9257	275	10	3	287	3	MAP3K9	14	71197381	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08	130044	71197381	36152159	73	73											
LEO1	123169	hgsc.bcm.edu	37	chr15	52246708	52246708	+	Frame_Shift_Del	DEL	T	T	-																															accacttgactatccgagcaTtgctttctttaatttcattt																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	52246708	T	-	52246708	7	5	1	1	0	1	0	1	0	0	0	0	8726	1493	52	0	714	0	LEO1	15	52246708	Frame_Shift_Del	DEL	T	TCGA-A3-3308-01A-01D-0966-08		52246708	50284684	74	74											
ZSCAN2	54993	hgsc.bcm.edu;ucsc.edu	37	chr15	85164518	85164519	+	Frame_Shift_Ins	INS	-	-	A																															gagaaaagccctacgaatgtINSaaagaatgcggcgaaagctt																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	85164519	-	A	85164518	7	5	1	1	0	1	1	0	0	0	0	0	18230	1644	57	0	1188	0	ZSCAN2	15	85164518	Frame_Shift_Ins	INS	-	TCGA-A3-3308-01A-01D-0966-08	32917810	85164518	17366874	75	75											
IQGAP1	8826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91025444	91025444	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcagttatgggatgcgcttCattgccaaagtgctgaagga	10	10	13	8	2	1	1	1	1	0	0	1	3	1	3	1	2	3	4	1	2	3	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	91025444	C	T	91025444	2	4	1	1	0	0	0	0	0	0	0	1	7814	825	29	2		2	IQGAP1	15	91025444	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08	5860926	91025444	11505948	76	76											
CACNA1H	8912	broad.mit.edu;hgsc.bcm.edu	37	chr16	1254064	1254064	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgtgccctgccccctgcCcagccccccagcgggcacac	5	4	10	22	1	0	0	0	0	0	0	0	0	0	0	7	1	5	1	7	1	0	0	rs145376050	by1000genomes	TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	1254064	C	T	1254064	3	4	1	1	0	0	0	0	1	0	0	0	2545	623	22	2	2091	2	CACNA1H	16	1254064	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08		1254064	89100689	77	77											
TXNDC11	51061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11773280	11773280	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggtaaggaggttttctgagGcatcggccagctcctgcagc	7	9	14	11	2	1	1	0	1	1	0	3	2	2	2	2	5	3	5	2	5	1	3	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	11773280	G	T	11773280	3	4	1	1	0	0	0	0	1	0	0	0	16791	1203	42	4	232	4	TXNDC11	16	11773280	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	10519216	11773280	78581473	78	78											
MYO1D	4642	broad.mit.edu;hgsc.bcm.edu	37	chr17	30986144	30986144	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgttcttacctattgaaaatCgtctgcagggcctcctcaaa	10	12	7	12	2	3	1	1	1	2	0	5	1	4	1	3	1	2	2	3	1	5	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	30986144	C	T	30986144	2	4	1	1	0	0	0	0	0	0	0	1	10071	871	31	1		1	MYO1D	17	30986144	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08		30986144	50209066	79	79											
CCDC57	284001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80156290	80156290	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggtggtcaatctcaccaTtcttgtcactatggtaataa	10	14	9	8	0	4	0	3	0	2	0	5	0	4	0	1	4	0	1	1	4	4	5	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	80156290	T	C	80156290	3	2	1	1	0	0	0	0	1	0	0	0	2827	1493	52	3	2391	3	CCDC57	17	80156290	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08	49170146	80156290	1038920	80	80											
MYOM1	8736	broad.mit.edu;hgsc.bcm.edu	37	chr18	3155065	3155065	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaagggagcagctggggctCcttcaatctctgcatcagca	9	8	11	13	0	3	0	2	0	1	0	5	1	4	1	2	3	4	5	2	3	2	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	3155065	C	T	3155065	3	4	1	1	0	0	0	0	1	0	0	0	10091	855	30	2	3646	2	MYOM1	18	3155065	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08		3155065	74922183	81	81											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1508527	1508527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccgaagctgtggtagaagGcgtgcccctcagccaggcag	8	5	16	12	2	1	1	1	0	0	1	1	2	1	1	4	4	3	3	4	4	3	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	1508527	A	A	1508527	3	1	1	1	0	0	0	0	1	0	0	0	278	1203	42	2	1039	2	ADAMTSL5	19	1508527	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08		1508527	57620456	82	82											
ILF3	3609	hgsc.bcm.edu	37	chr19	10793910	10793911	+	Frame_Shift_Ins	INS	-	-	C																															ctcatctccgagaccgggggINScagccacgacaagcgcttcg																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	10793911	-	C	10793910	7	5	1	1	0	1	1	0	0	0	0	0	7712	1203	42	0	1708	0	ILF3	19	10793910	Frame_Shift_Ins	INS	-	TCGA-A3-3308-01A-01D-0966-08	9285383	10793910	48335073	83	83											
OR1I1	126370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15198108	15198108	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctattatcctccaccaccGtccccaagatgctagcgaac	10	8	5	18	2	0	1	0	0	0	1	3	2	3	1	7	0	3	1	7	0	5	3	rs146090785	byfrequency	TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	15198108	G	A	15198108	3	1	1	1	0	0	0	0	1	0	0	0	10958	1145	40	1	234	1	OR1I1	19	15198108	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	4404198	15198108	43930875	84	84											
ZFP112	7771	hgsc.bcm.edu;ucsc.edu	37	chr19	44832084	44832084	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacacatctcacatttataCggtttcactctagtgtggac	10	13	6	12	1	3	0	2	0	2	0	4	1	3	1	1	2	1	1	1	2	3	5	rs61733035	bycluster;byfrequency;by1000genomes	TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	44832084	C	T	44832084	2	4	1	1	0	0	0	0	0	0	0	1	17637	523	19	1		1	ZFP112	19	44832084	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08	29633976	44832084	14296899	85	85											
SULT2A1	6822	hgsc.bcm.edu;ucsc.edu	37	chr19	48385414	48385415	+	Frame_Shift_Ins	INS	-	-	A																															taaacttcatgtttttccagINSaaaaaataaccagacaccaa																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	48385415	-	A	48385414	7	5	1	1	0	1	1	0	0	0	0	0	15380	933	33	0	474	0	SULT2A1	19	48385414	Frame_Shift_Ins	INS	-	TCGA-A3-3308-01A-01D-0966-08	3553330	48385414	10743569	86	86											
ZNF347	84671	hgsc.bcm.edu;ucsc.edu	37	chr19	53645671	53645671	+	Frame_Shift_Del	DEL	T	T	-																															gatactcaaggccatgtgtaTttttctggacttccctgaag																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	53645671	T	-	53645671	7	5	1	1	0	1	0	1	0	0	0	0	17860	1493	52	0	2113	0	ZNF347	19	53645671	Frame_Shift_Del	DEL	T	TCGA-A3-3308-01A-01D-0966-08	5260257	53645671	5483312	87	87											
NLRP7	199713	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55451743	55451743	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttctcagagtgacgtcGtcatggaaattgtcaatgtc	9	14	11	7	2	3	2	3	1	1	1	6	3	3	3	0	2	0	1	0	2	2	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		A	55451743	G	A	55451743	2	1	1	1	0	0	0	0	0	0	0	1	10482	1136	40	1		1	NLRP7	19	55451743	Silent	SNP	G	TCGA-A3-3308-01A-01D-0966-08	1806072	55451743	3677240	88	88											
GRIK1	2897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	30961307	30961307	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaggcaatatccttcaaatCtgtcatttccatatagaggc	12	13	6	10	0	3	1	2	0	1	1	5	1	5	1	2	2	0	1	2	2	6	6	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	30961307	C	T	30961307	3	4	1	1	0	0	0	0	1	0	0	0	6773	913	32	2	1523	2	GRIK1	21	30961307	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08		30961307	17168588	89	89											
TMPRSS3	64699	hgsc.bcm.edu;ucsc.edu	37	chr21	43804123	43804130	+	Frame_Shift_Del	DEL	CTAAAGCG	CTAAAGCG	-																															ggccagaggcacatccctccCtaaagcggagaaaaagtagg																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	CTAAAGCG	CTAAAGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		-	43804130	CTAAAGCG	-	43804123	7	5	1	1	0	1	0	1	0	0	0	0	16247	695	24	0	903	0	TMPRSS3	21	43804123	Frame_Shift_Del	DEL	CTAAAGCG	TCGA-A3-3308-01A-01D-0966-08	12842816	43804123	4325772	90	90											
DERL3	91319	broad.mit.edu;ucsc.edu	37	chr22	24179339	24179339	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatatggcccaccgcaaTccctgtgagacagccacgga	11	6	11	13	2	0	2	0	1	0	2	1	4	1	3	4	2	1	2	4	2	3	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	24179339	C	C	24179339	3	2	1	1	0	0	0	0	1	0	0	0	4448	1435	50	3	303	3	DERL3	22	24179339	Missense_Mutation	SNP	T	TCGA-A3-3308-01A-01D-0966-08		24179339	27125227	91	91											
MID1	4281	broad.mit.edu;hgsc.bcm.edu	37	chrX	10437719	10437719	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaaagacagaaataaatAggccatgagatactcactaa	20	6	6	9	0	1	3	1	1	0	3	1	4	1	3	2	1	1	0	2	1	7	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		C	10437719	A	C	10437719	3	2	1	1	0	0	0	0	1	0	0	0	9576	435	15	5		5	MID1	23	10437719	Missense_Mutation	SNP	A	TCGA-A3-3308-01A-01D-0966-08		10437719	144832841	92	92											
MAP3K15	389840	hgsc.bcm.edu	37	chrX	19387229	19387230	+	Frame_Shift_Ins	INS	-	-	G																															caggtgctgctggtggggctINSgggcctcctggccaggtccg																								novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	19387230	-	G	19387229	7	5	1	1	0	1	1	0	0	0	0	0	9249	1580	55	0	452	0	MAP3K15	23	19387229	Frame_Shift_Ins	INS	-	TCGA-A3-3308-01A-01D-0966-08	8949510	19387229	135883331	93	93											
FAM47B	170062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	34962088	34962088	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaccaagcctggtaaataCcatttttgggaatcctgtcc	10	12	7	12	0	1	0	1	0	0	0	3	1	3	1	5	2	2	1	5	2	5	4	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	34962088	C	T	34962088	2	4	1	1	0	0	0	0	0	0	0	1	5570	518	18	2		2	FAM47B	23	34962088	Silent	SNP	C	TCGA-A3-3308-01A-01D-0966-08	15574859	34962088	120308472	94	94											
TAF1	6872	broad.mit.edu;hgsc.bcm.edu	37	chrX	70643015	70643015	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagctatcaaccccttgctgGatgatgatgaccaagtggcg	11	9	11	10	1	1	3	1	3	0	0	1	4	1	4	3	2	3	2	3	2	4	2	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		T	70643015	G	T	70643015	3	4	1	1	0	0	0	0	1	0	0	0	15512	1174	41	4	4679	4	TAF1	23	70643015	Missense_Mutation	SNP	G	TCGA-A3-3308-01A-01D-0966-08	35680927	70643015	84627545	95	95											
CT47B1	643311	broad.mit.edu	37	chrX	120009353	120009353	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctccccgaggccttccaCgggccctgcgactccgacca	5	6	9	21	4	0	0	0	0	0	0	4	3	4	0	8	2	1	0	8	2	0	1	novel		TCGA-A3-3308-01A-01D-0966-08	TCGA-A3-3308-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30f89396-6b77-4592-908c-39cc24a829da	0d282a88-0ebd-4c51-b3f1-72b11dcbcbdb		G	120009353	G	G	120009353	3	3	1	1	0	0	0	0	1	0	0	0	3989	536	19	4	735	4	CT47B1	23	120009353	Missense_Mutation	SNP	C	TCGA-A3-3308-01A-01D-0966-08	49366338	120009353	35261207	96	96											
MMEL1	79258	broad.mit.edu;hgsc.bcm.edu	37	chr1	2530196	2530196	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgattttgacagaggataGcacagtttgtatgaacagag	13	12	11	5	0	0	5	0	3	0	2	0	6	0	6	0	1	2	3	0	1	3	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	2530196	G	C	2530196	3	2	2	1	0	0	0	0	1	0	0	0	9646	962	34	4	1316	4	MMEL1	1	2530196	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08		2530196	246720425	1	97											
C1orf158	93190	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12820749	12820749	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcagctcaagcagagacaGctcacacccaaggctggcct	12	4	11	14	0	2	1	2	0	0	1	2	3	2	1	2	2	4	5	2	2	2	0	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	12820749	G	A	12820749	2	1	2	1	0	0	0	0	0	0	0	1	2007	962	34	2		2	C1orf158	1	12820749	Silent	SNP	G	TCGA-A3-3311-01A-01D-0966-08	10290553	12820749	236429872	2	98											
PDE4B	5142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	66798124	66798124	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaatcagcggtggtagcGgtgactctgctatggacagc	8	8	15	10	3	2	1	1	1	1	0	2	3	2	3	1	5	4	2	1	5	3	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	66798124	G	A	66798124	3	1	2	1	0	0	0	0	1	0	0	0	11640	1116	39	1	952	1	PDE4B	1	66798124	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	53977375	66798124	182452497	3	99											
FCRL4	83417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157556209	157556209	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caacagcctggccccctgagGgctgggtctccaggagcacc	7	5	13	16	0	1	1	0	1	1	0	2	2	1	2	5	4	3	2	5	4	1	0	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	157556209	G	A	157556209	3	1	2	1	0	0	0	0	1	0	0	0	5797	1232	43	2	691	2	FCRL4	1	157556209	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	90758085	157556209	91694412	4	100											
KIF21B	23046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200954092	200954092	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggggtgtgaatcccacaTctgtggacctggtgagtcgg	7	10	16	8	1	1	2	0	2	1	0	3	3	2	3	2	5	0	0	2	5	1	0	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	200954092	T	A	200954092	3	1	2	1	0	0	0	0	1	0	0	0	8289	1435	50	5	1208	5	KIF21B	1	200954092	Missense_Mutation	SNP	T	TCGA-A3-3311-01A-01D-0966-08	43397883	200954092	48296529	5	101											
CYB5R1	51706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202932260	202932260	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atagcgggcctgcagttcctCtaagtcctcccgcaagatga	9	9	10	13	2	1	2	0	1	1	1	4	2	4	2	4	1	2	3	4	1	3	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	202932260	C	T	202932260	3	4	2	1	0	0	0	0	1	0	0	0	4126	922	32	2	246	2	CYB5R1	1	202932260	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	1978168	202932260	46318361	6	102											
OPTC	26254	broad.mit.edu;hgsc.bcm.edu	37	chr1	203465362	203465362	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attatggggaccaactccccGaggtgagggacacagcagac	12	5	13	11	1	0	2	0	1	0	1	1	5	1	4	3	4	2	1	3	4	2	1	rs140125203		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	203465362	G	A	203465362	3	1	2	1	0	0	0	0	1	0	0	0	10888	1059	37	1	231	1	OPTC	1	203465362	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	533102	203465362	45785259	7	103											
PROX1	5629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214170133	214170133	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtatgaagatgccatgatGccttttccaggagcaaccat	11	11	9	10	1	0	3	0	2	0	1	2	4	1	4	4	1	4	2	4	1	3	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	214170133	G	A	214170133	3	1	2	1	0	0	0	0	1	0	0	0	12562	1319	46	2	257	2	PROX1	1	214170133	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	10704771	214170133	35080488	8	104											
CDC42BPA	8476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227213828	227213828	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaactgcattttcactgtaCaccgagagatatggtgcatt	11	13	8	9	1	2	1	2	0	0	1	2	3	2	1	1	1	4	3	1	1	3	5	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	227213828	C	T	227213828	2	4	2	1	0	0	0	0	0	0	0	1	3072	465	17	2		2	CDC42BPA	1	227213828	Silent	SNP	C	TCGA-A3-3311-01A-01D-0966-08	13043695	227213828	22036793	9	105											
TTC15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	3391616	3391616	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcgtcctcatctctgaCtcccccaacagcgagggcga	9	6	11	15	3	2	2	1	1	1	1	5	5	4	2	3	1	3	0	3	1	1	0	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	3391616	C	T	3391616	2	4	2	1	0	0	0	0	0	0	0	1	16681	564	20	2		2	TTC15	2	3391616	Silent	SNP	C	TCGA-A3-3311-01A-01D-0966-08		3391616	239807757	10	106											
DHX57	90957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39075474	39075474	+	Frame_Shift_Del	DEL	C	C	-																															aagctcagcgtttagagttgCactcattaaaataacttgaa																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	39075474	C	-	39075474	7	5	2	1	0	1	0	1	0	0	0	0	4513	710	25	0	2119	0	DHX57	2	39075474	Frame_Shift_Del	DEL	C	TCGA-A3-3311-01A-01D-0966-08	35683858	39075474	204123899	11	107											
CNNM3	26505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97483238	97483238	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggaggaattcaagcgAggtaacggcccgggcatggt	9	7	16	9	3	1	0	1	0	0	0	2	3	2	2	2	6	2	2	2	6	3	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	97483238	A	C	97483238	2	2	2	1	0	0	0	0	0	0	0	1	3614	318	11	5		5	CNNM3	2	97483238	Silent	SNP	A	TCGA-A3-3311-01A-01D-0966-08	58407764	97483238	145716135	12	108											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179399168	179399168	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatgctgtcatgcgagatttCctctctttcactaacaaccg	9	13	7	12	2	3	1	2	0	1	1	5	3	4	1	2	0	4	1	2	0	2	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	179399168	C	T	179399168	2	4	2	1	0	0	0	0	0	0	0	1	16734	854	30	2		2	TTN	2	179399168	Silent	SNP	C	TCGA-A3-3311-01A-01D-0966-08	81915930	179399168	63800205	13	109											
ACCN4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220396729	220396729	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgctgtgcagatgagaCgtcgtttgaggcaggtattc	7	13	13	8	2	1	3	0	2	1	2	4	4	1	3	0	2	2	5	0	2	1	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	220396729	C	G	220396729	3	3	2	1	0	0	0	0	1	0	0	0	131	536	19	4	1125	4	ACCN4	2	220396729	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	40997561	220396729	22802644	14	110											
SETMAR	6419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	4355062	4355062	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaacatttgttgaccctActtatataggaaatattgga	14	14	8	5	0	0	1	0	1	0	0	0	4	0	4	1	3	2	1	1	3	7	8	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	4355062	A	G	4355062	3	3	2	1	0	0	0	0	1	0	0	0	14142	391	14	3	643	3	SETMAR	3	4355062	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08		4355062	193667368	15	111											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu	37	chr3	47059132	47059132	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcaaggggagtaccttgCgagccagatgtttaaagtct	13	9	12	7	1	1	1	0	0	1	1	1	3	1	2	2	2	4	3	2	2	5	4	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	47059132	C	T	47059132	3	4	2	1	0	0	0	0	1	0	0	0	14133	768	27	1	173	1	SETD2	3	47059132	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	42704070	47059132	150963298	16	112											
NICN1	84276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49466658	49466658	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcacatggcaaggcacCaaaacgcgggacatggtgac	12	6	11	12	2	1	1	1	1	0	0	1	2	1	2	2	4	1	2	2	4	3	1	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	49466658	C	T	49466658	2	4	2	1	0	0	0	0	0	0	0	1	10413	593	21	2		2	NICN1	3	49466658	Silent	SNP	C	TCGA-A3-3311-01A-01D-0966-08	2407526	49466658	148555772	17	113											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52598242	52598242	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgaatgacaacacagcAcactttcctgaaagagaaaa	17	8	6	10	0	0	4	0	3	0	1	2	5	2	4	2	0	2	1	2	0	5	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	52598242	A	C	52598242	3	2	2	1	0	0	0	0	1	0	0	0	11491	157	6	5	1233	5	PBRM1	3	52598242	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08	3131584	52598242	145424188	18	114											
MBD4	8930	hgsc.bcm.edu	37	chr3	129152947	129152950	+	Frame_Shift_Del	DEL	TTCT	TTCT	-																															aaaatacaggcttgttttccTtctttctatctgtgttcgtg																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	TTCT	TTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	129152950	TTCT	-	129152947	7	5	2	1	0	1	0	1	0	0	0	0	9346	1608	56	0	528	0	MBD4	3	129152947	Frame_Shift_Del	DEL	TTCT	TCGA-A3-3311-01A-01D-0966-08	76554705	129152947	68869483	19	115											
ECT2	1894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	172480526	172480526	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagatgcactcaccttgTagttgaagagaatatagtaa	16	11	9	5	0	1	4	1	2	0	2	1	5	1	4	1	0	1	4	1	0	7	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	172480526	T	C	172480526	3	2	2	1	0	0	0	0	1	0	0	0	4901	1638	57	3	872	3	ECT2	3	172480526	Missense_Mutation	SNP	T	TCGA-A3-3311-01A-01D-0966-08	43327579	172480526	25541904	20	116											
CCKAR	886	hgsc.bcm.edu;ucsc.edu	37	chr4	26483745	26483745	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcttttgcaggtaacaccCatcgctgtcctcatatttgc	7	14	8	12	1	2	0	1	0	1	0	4	0	3	0	2	2	3	3	2	2	2	5	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	26483745	C	A	26483745	3	1	2	1	0	0	0	0	1	0	0	0	2880	594	21	4	488	4	CCKAR	4	26483745	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		26483745	164670531	21	117											
THAP9	79725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83839153	83839153	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattatgttttcccaaaggtCatgccttttccttatcttct	8	19	4	10	0	3	0	1	0	2	0	5	0	5	0	3	1	1	1	3	1	4	7	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	83839153	C	T	83839153	2	4	2	1	0	0	0	0	0	0	0	1	15850	813	29	2		2	THAP9	4	83839153	Silent	SNP	C	TCGA-A3-3311-01A-01D-0966-08	57355408	83839153	107315123	22	118											
FGF2	2247	hgsc.bcm.edu;ucsc.edu	37	chr4	123813456	123813456	+	Frame_Shift_Del	DEL	G	G	-																															ggaaatacaccagttggtatGtggcactgaaacgaactggg																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	123813456	G	-	123813456	7	5	2	1	0	1	0	1	0	0	0	0	5848	1377	48	0	782	0	FGF2	4	123813456	Frame_Shift_Del	DEL	G	TCGA-A3-3311-01A-01D-0966-08	39974303	123813456	67340820	23	119											
C4orf51	646603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	146650343	146650343	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatcaaatttgggattttgGtgattgttttccgacacctc	9	16	8	8	1	1	1	1	1	0	0	3	3	2	2	2	2	0	1	2	2	1	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	146650343	G	C	146650343	3	2	2	1	0	0	0	0	1	0	0	0	2277	1261	44	4	403	4	C4orf51	4	146650343	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	22836887	146650343	44503933	24	120											
GOLPH3	64083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32126354	32126354	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccaccgcccacagaacCtcattggtgttggccttcag	8	8	9	16	1	2	1	2	0	0	1	2	1	2	1	6	2	1	1	6	2	1	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	32126354	C	A	32126354	3	1	2	1	0	0	0	0	1	0	0	0	6568	680	24	4	39	4	GOLPH3	5	32126354	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		32126354	148788906	25	121											
LIFR	3977	broad.mit.edu;hgsc.bcm.edu	37	chr5	38484964	38484964	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagaatggcaataattaatCccacagctgaaacgagagta	17	8	9	7	1	0	3	0	2	0	2	1	5	1	3	1	1	2	3	1	1	6	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	38484964	C	A	38484964	3	1	2	1	0	0	0	0	1	0	0	0	8780	855	30	4	801	4	LIFR	5	38484964	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	6358610	38484964	142430296	26	122											
WDR36	134430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	110428228	110428228	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccttgggacttttcagcaAcgacattccacacgtggtgc	8	10	11	12	2	1	0	1	0	0	0	2	2	2	1	2	3	3	1	2	3	1	4	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	110428228	A	T	110428228	3	4	2	1	0	0	0	0	1	0	0	0	17289	43	2	5	244	5	WDR36	5	110428228	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08	71943264	110428228	70487032	27	123											
CPNE5	57699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36730739	36730739	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacgggccagctcccggtaActggtggtgaactccccaat	8	7	11	15	2	0	1	0	1	0	0	2	1	2	1	5	4	3	2	5	4	3	1	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	36730739	A	G	36730739	2	3	2	1	0	0	0	0	0	0	0	1	3815	40	2	3		3	CPNE5	6	36730739	Silent	SNP	A	TCGA-A3-3311-01A-01D-0966-08		36730739	134384328	28	124											
MAP3K7	6885	broad.mit.edu;hgsc.bcm.edu	37	chr6	91228282	91228282	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggcacggtgctagaggCtgaaaataatcaggaatgtt	12	11	13	5	1	1	2	1	1	0	1	1	3	1	3	0	4	1	4	0	4	5	4	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	91228282	C	A	91228282	5	1	2	1	0	0	0	0	0	0	1	0	9255	811	28	4	304	4	MAP3K7	6	91228282	Splice_Site	SNP	C	TCGA-A3-3311-01A-01D-0966-08	54497543	91228282	79886785	29	125											
GPR126	57211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	142737063	142737063	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggactttgcattgctgttGcagtcctgttgcatttcttc	5	18	9	9	0	1	0	0	0	1	0	3	1	2	1	1	1	4	6	1	1	0	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	142737063	G	T	142737063	3	4	2	1	0	0	0	0	1	0	0	0	6640	1319	46	4	2878	4	GPR126	6	142737063	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	51508781	142737063	28378004	30	126											
INTS1	26173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	1539240	1539240	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggctgtccacccagatcCgctcccccagggagtcctcg	6	6	12	17	2	0	1	0	0	0	1	5	3	4	2	6	2	0	2	6	2	0	0	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	1539240	C	T	1539240	3	4	2	1	0	0	0	0	1	0	0	0	7775	652	23	1	6031	1	INTS1	7	1539240	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		1539240	157599423	31	127											
KDELR2	11014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6502730	6502730	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggtaagaattctgtcCgagcaccctgaaggacagat	11	9	12	9	1	1	3	0	1	1	2	2	5	2	4	2	2	1	3	2	2	3	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	6502730	C	G	6502730	3	3	2	1	0	0	0	0	1	0	0	0	8120	652	23	4	136	4	KDELR2	7	6502730	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	4963490	6502730	152635933	32	128											
CDK13	8621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	40085608	40085608	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatattaaatgttccaatAtccttctaaataataggtat	16	15	5	5	0	1	1	0	0	1	1	3	2	3	1	2	1	0	2	2	1	10	9	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	40085608	A	T	40085608	3	4	2	1	0	0	0	0	1	0	0	0	3129	449	16	5	2549	5	CDK13	7	40085608	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08	33582878	40085608	119053055	33	129											
ZMIZ2	83637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	44805139	44805139	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccctttgcccccctgcagCccccctcagtccctgccccc	2	7	5	27	0	1	0	1	0	0	0	2	0	2	0	11	0	4	1	11	0	0	1	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	44805139	C	A	44805139	3	1	2	1	0	0	0	0	1	0	0	0	17696	739	26	4	2261	4	ZMIZ2	7	44805139	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	4719531	44805139	114333524	34	130											
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121653811	121653811	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccacagatttcagttttGcagacactaatgaaaaagat	15	12	6	8	0	1	4	1	1	0	3	2	4	2	4	1	0	1	2	1	0	3	5	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	121653811	G	A	121653811	3	1	2	1	0	0	0	0	1	0	0	0	12816	1319	46	2	4757	2	PTPRZ1	7	121653811	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	76848672	121653811	37484852	35	131											
TRPV5	56302	broad.mit.edu;hgsc.bcm.edu	37	chr7	142626641	142626641	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acattctggttcacaacagcGatgtgcagtgcagtctgacc	10	10	10	11	1	3	1	1	1	2	0	3	2	3	1	1	1	4	3	1	1	1	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	142626641	G	A	142626641	2	1	2	1	0	0	0	0	0	0	0	1	16598	1048	37	1		1	TRPV5	7	142626641	Silent	SNP	G	TCGA-A3-3311-01A-01D-0966-08	20972830	142626641	16512022	36	132											
CSMD1	64478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	4495044	4495044	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accctgggctctcaatagtgCcattgggaccctggactaag	9	9	11	12	0	1	0	1	0	1	0	2	2	1	2	3	3	1	1	3	3	3	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	4495044	C	A	4495044	3	1	2	1	0	0	0	0	1	0	0	0	3944	739	26	4	10661	4	CSMD1	8	4495044	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		4495044	141868978	37	133											
ELP3	55140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27970578	27970578	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggataaagtggagtttattGtgatgggtggaacgtttatg	10	15	15	1	1	0	1	0	1	0	0	0	4	0	4	0	4	1	2	0	4	5	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	27970578	G	A	27970578	3	1	2	1	0	0	0	0	1	0	0	0	5081	1377	48	2	531	2	ELP3	8	27970578	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	23475534	27970578	118393444	38	134											
PLEKHA2	59339	hgsc.bcm.edu	37	chr8	38827186	38827186	+	Frame_Shift_Del	DEL	C	C	-																															tcgtcctggggagggcagcgCctcctggggtgctgcccagc																								rs139752038	bycluster;by1000genomes	TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	38827186	C	-	38827186	7	5	2	1	0	1	0	1	0	0	0	0	12056	739	26	0	1205	0	PLEKHA2	8	38827186	Frame_Shift_Del	DEL	C	TCGA-A3-3311-01A-01D-0966-08	10856608	38827186	107536836	39	135											
PXDNL	137902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	52359592	52359592	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacagtcagctgcacagaCacctttttcacccccaacga	11	10	5	15	1	2	1	2	0	0	1	2	2	2	1	3	0	4	2	3	0	2	4	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	52359592	C	A	52359592	2	1	2	1	0	0	0	0	0	0	0	1	12850	465	17	4		4	PXDNL	8	52359592	Silent	SNP	C	TCGA-A3-3311-01A-01D-0966-08	13532406	52359592	94004430	40	136											
SULF1	23213	hgsc.bcm.edu;ucsc.edu	37	chr8	70515859	70515861	+	In_Frame_Del	DEL	AAT	AAT	-																															cgaacaaacaagaaggccaaAatttggcgtgatacattcct																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	70515861	AAT	-	70515859	7	5	2	1	0	1	0	1	0	0	0	0	15371	11	1	0	1245	0	SULF1	8	70515859	In_Frame_Del	DEL	AAT	TCGA-A3-3311-01A-01D-0966-08	18156267	70515859	75848163	41	137											
ZCCHC6	79670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	88938317	88938317	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaaatccaaagtgctctctGactcattattacgtgtgctg	10	14	7	10	1	2	1	1	1	1	0	4	1	3	1	1	0	3	2	1	0	5	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	88938317	G	A	88938317	3	1	2	1	0	0	0	0	1	0	0	0	17591	1294	45	2	2199	2	ZCCHC6	9	88938317	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08		88938317	52275114	42	138											
CERCAM	51148	broad.mit.edu	37	chr9	131196482	131196482	+	Missense_Mutation	SNP	G	T	T																															cggctgatggaggatgtggaGgcagagaaactgtcttggga																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	131196482	T	T	131196482	3	4	2	1	0	0	0	0	1	0	0	0	3266	991	35	4	1343	4	CERCAM	9	131196482	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	42258165	131196482	10016949	43	139	1	2									
CERCAM	51148	broad.mit.edu	37	chr9	131196483	131196483	+	Missense_Mutation	SNP	G	T	T																															ggctgatggaggatgtggagGcagagaaactgtcttgggac																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	131196483	T	T	131196483	3	4	2	1	0	0	0	0	1	0	0	0	3266	1203	42	4	1344	4	CERCAM	9	131196483	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08	1	131196483	10016948	44	140	1	2									
CARD9	64170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139266450	139266450	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtaaggtgtgatgcgtgaGgggtcgatgaccgaggtgag	9	8	20	4	3	0	4	0	4	0	0	1	6	0	4	1	5	1	1	1	5	1	1	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	139266450	G	C	139266450	2	2	2	1	0	0	0	0	0	0	0	1	2652	987	35	4		4	CARD9	9	139266450	Silent	SNP	G	TCGA-A3-3311-01A-01D-0966-08	8069967	139266450	1946981	45	141											
CAMK1D	57118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12833177	12833177	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgaagtcctcgcccagAaaccttacagcaaagccgtt	11	8	7	15	2	0	2	0	1	0	1	3	2	2	2	5	0	4	2	5	0	4	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	12833177	A	C	12833177	3	2	2	1	0	0	0	0	1	0	0	0	2597	247	9	5	608	5	CAMK1D	10	12833177	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08		12833177	122701570	46	142											
C10orf68	79741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	33134530	33134530	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctaatgaaggagtcaaccAcgacacaattaaaaagtcac	18	7	7	9	1	3	1	2	1	1	0	3	3	3	2	1	1	1	0	1	1	7	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	33134530	A	C	33134530	3	2	2	1	0	0	0	0	1	0	0	0	1613	159	6	5	1275	5	C10orf68	10	33134530	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08	20301353	33134530	102400217	47	143											
ITGB1	3688	hgsc.bcm.edu	37	chr10	33199253	33199258	+	In_Frame_Del	DEL	CAGGAT	CAGGAT	-																															cttctccttacaatgggacaCaggatcaggttggaccggct																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	CAGGAT	CAGGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	33199258	CAGGAT	-	33199253	7	5	2	1	0	1	0	1	0	0	0	0	7890	478	17	0	584	0	ITGB1	10	33199253	In_Frame_Del	DEL	CAGGAT	TCGA-A3-3311-01A-01D-0966-08	64723	33199253	102335494	48	144											
AMICA1	120425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118068750	118068750	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaatggcagggtttttctTttatctctggattagtcttc	8	18	8	7	0	3	0	0	0	3	0	5	1	3	1	0	3	0	2	0	3	4	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	118068750	T	G	118068750	3	3	2	1	0	0	0	0	1	0	0	0	574	1841	64	5	228	5	AMICA1	11	118068750	Missense_Mutation	SNP	T	TCGA-A3-3311-01A-01D-0966-08		118068750	16937766	49	145											
KLRC1	3821	broad.mit.edu;hgsc.bcm.edu	37	chr12	10599220	10599220	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaagtcgatttacttgtAgcactgcacagttaagttca	12	15	7	7	1	1	0	1	0	0	0	2	1	1	0	0	0	3	5	0	0	4	8	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	10599220	A	C	10599220	3	2	2	1	0	0	0	0	1	0	0	0	8415	420	15	5	73	5	KLRC1	12	10599220	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08		10599220	123252675	50	146											
XRCC6BP1	91419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58340855	58340855	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttttgatgcttcaacatCtcaggtaggcattattgcca	10	14	9	8	0	2	1	2	1	1	0	3	1	2	1	1	3	3	4	1	3	3	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	58340855	C	A	58340855	3	1	2	1	0	0	0	0	1	0	0	0	17457	913	32	4	321	4	XRCC6BP1	12	58340855	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08	47741635	58340855	75511040	51	147											
EEA1	8411	hgsc.bcm.edu;ucsc.edu	37	chr12	93205170	93205170	+	Frame_Shift_Del	DEL	G	G	-																															cttgcttgtcttgtaactttGcagtgacctgatccaactga																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	93205170	G	-	93205170	7	5	2	1	0	1	0	1	0	0	0	0	4921	1319	46	0	2203	0	EEA1	12	93205170	Frame_Shift_Del	DEL	G	TCGA-A3-3311-01A-01D-0966-08	34864315	93205170	40646725	52	148											
TPTE2	93492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20039633	20039633	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcatcagcttttcaagttgtCttttttgatgaagcagatga	10	17	8	6	0	4	4	3	3	1	1	4	4	4	4	0	0	2	3	0	0	2	6	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	20039633	C	G	20039633	3	3	2	1	0	0	0	0	1	0	0	0	16430	913	32	4	1036	4	TPTE2	13	20039633	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		20039633	95130245	53	149											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32915021	32915021	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtcacttgttgagaacAttcatgttttgggaaaagaa	14	13	10	4	0	2	2	2	1	0	2	2	4	2	3	0	1	1	2	0	1	5	5	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	32915021	A	G	32915021	3	3	2	1	0	0	0	0	1	0	0	0	1499	217	8	3	6567	3	BRCA2	13	32915021	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08	12875388	32915021	82254857	54	150											
CTDSPL2	51496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	44751276	44751276	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaacacaacgcactgccAgagcaaagaggaaatattca	18	5	7	11	1	1	2	1	0	0	2	2	3	2	3	2	1	4	2	2	1	5	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	44751276	A	T	44751276	4	4	2	1	0	0	0	0	0	1	0	0	4006	180	7	5	66	5	CTDSPL2	15	44751276	Nonsense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08		44751276	57780116	55	151											
SPG11	80208	hgsc.bcm.edu	37	chr15	44858098	44858099	+	Frame_Shift_Ins	INS	-	-	G																															acagtccatcagcttgtggcINSggcccaagttgatgagcatt																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	44858099	-	G	44858098	7	5	2	1	0	1	1	0	0	0	0	0	15042	768	27	0	390	0	SPG11	15	44858098	Frame_Shift_Ins	INS	-	TCGA-A3-3311-01A-01D-0966-08	106822	44858098	57673294	56	152											
FANCI	55215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89837084	89837084	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagaataggtttgaggacaTtctgagcttatttatgtgtt	11	17	10	3	0	1	3	0	2	1	1	1	4	1	4	0	2	1	3	0	2	5	8	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	89837084	T	C	89837084	3	2	2	1	0	0	0	0	1	0	0	0	5669	1493	52	3	2398	3	FANCI	15	89837084	Missense_Mutation	SNP	T	TCGA-A3-3311-01A-01D-0966-08	44978986	89837084	12694308	57	153											
FBXL16	146330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	745593	745593	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagaggctgagcgcggtgaGgttgggcaggctgtgcacca	7	6	19	9	3	0	3	0	2	0	1	0	4	0	3	1	5	2	5	1	5	0	1	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		C	745593	G	C	745593	3	2	2	1	0	0	0	0	1	0	0	0	5712	1000	35	4	491	4	FBXL16	16	745593	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08		745593	89609160	58	154											
WSCD1	23302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6021491	6021491	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggatatgcagctgaccGcaactggaagagcaaaggta	13	6	13	9	1	0	2	0	1	0	1	0	4	0	4	2	3	4	5	2	3	5	2	rs112285134	by1000genomes	TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		A	6021491	G	A	6021491	3	1	2	1	0	0	0	0	1	0	0	0	17405	1087	38	1	1384	1	WSCD1	17	6021491	Missense_Mutation	SNP	G	TCGA-A3-3311-01A-01D-0966-08		6021491	75173719	59	155											
ERAL1	26284	hgsc.bcm.edu	37	chr17	27182058	27182059	+	Frame_Shift_Ins	INS	-	-	G																															gccttgcggctgtaatggctINSgcccccagctggcgcggggc																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	27182059	-	G	27182058	7	5	2	1	0	1	1	0	0	0	0	0	5202	1567	55	0	8	0	ERAL1	17	27182058	Frame_Shift_Ins	INS	-	TCGA-A3-3311-01A-01D-0966-08	21160567	27182058	54013152	60	156											
AZI1	22994	hgsc.bcm.edu;ucsc.edu	37	chr17	79168674	79168677	+	Frame_Shift_Del	DEL	GACA	GACA	-																															ggaggggagggcccacctcgGacagtgacctccttgatctt																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	GACA	GACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		-	79168677	GACA	-	79168674	7	5	2	1	0	1	0	1	0	0	0	0	1240	1161	41	0	1167	0	AZI1	17	79168674	Frame_Shift_Del	DEL	GACA	TCGA-A3-3311-01A-01D-0966-08	51986616	79168674	2026536	61	157											
ATP5A1	498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	43666148	43666148	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttgttgagtggcagcatCgaggtcagaaccgaactggg	11	8	15	7	2	1	2	1	1	0	1	2	4	1	2	1	3	3	4	1	3	3	2	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	43666148	C	T	43666148	3	4	2	1	0	0	0	0	1	0	0	0	1147	884	31	1	313	1	ATP5A1	18	43666148	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		43666148	34411100	62	158											
PGLYRP2	114770	broad.mit.edu;hgsc.bcm.edu	37	chr19	15587107	15587107	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcctccagccccgccAgcagaggctccacagccacg	7	3	10	21	2	0	1	0	0	0	1	2	1	2	1	8	1	4	2	8	1	0	0	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	15587107	A	T	15587107	3	4	2	1	0	0	0	0	1	0	0	0	11794	188	7	5	1372	5	PGLYRP2	19	15587107	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08		15587107	43541876	63	159											
ZNF493	284443	broad.mit.edu;hgsc.bcm.edu	37	chr19	21607620	21607620	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgtgaagaatgtggcaAagcttttaaccattcctcaa	15	11	7	8	0	1	2	1	1	0	1	2	2	2	2	2	1	2	2	2	1	6	3	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	21607620	A	G	21607620	3	3	2	1	0	0	0	0	1	0	0	0	17943	14	1	3	2236	3	ZNF493	19	21607620	Missense_Mutation	SNP	A	TCGA-A3-3311-01A-01D-0966-08	6020513	21607620	37521363	64	160											
RPS21	6227	hgsc.bcm.edu	37	chr20	60962917	60962918	+	Frame_Shift_Ins	INS	-	-	G																															ggttgacaaggtcacaggcaINSggtttaatggccagtttaaa																								novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		G	60962918	-	G	60962917	7	5	2	1	0	1	1	0	0	0	0	0	13635	179	7	0	143	0	RPS21	20	60962917	Frame_Shift_Ins	INS	-	TCGA-A3-3311-01A-01D-0966-08		60962917	2062603	65	161											
TLR7	51284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	12906241	12906241	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgtgtggtatatttacCatttctgtaaggccaagata	11	14	11	5	0	1	1	0	0	1	1	1	2	1	2	2	3	1	2	2	3	6	7	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	12906241	C	T	12906241	3	4	2	1	0	0	0	0	1	0	0	0	15955	594	21	2	2620	2	TLR7	23	12906241	Missense_Mutation	SNP	C	TCGA-A3-3311-01A-01D-0966-08		12906241	142364319	66	162											
IKBKG	8517	broad.mit.edu	37	chrX	153770607	153770607	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcgaggtcccatcaggtggGgaaagatgctgttccaggcg	9	8	15	9	2	1	1	1	0	0	1	4	3	3	2	2	5	1	2	2	5	1	1	novel		TCGA-A3-3311-01A-01D-0966-08	TCGA-A3-3311-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9c095b70-9a64-48b0-8a1c-45dd00a70019	9ac1d3b4-17a7-43dd-85fc-e52fb82fe7bf		T	153770607	T	T	153770607	2	4	2	1	0	0	0	0	0	0	0	1	7613	1219	43	4		4	IKBKG	23	153770607	Silent	SNP	G	TCGA-A3-3311-01A-01D-0966-08	140864366	153770607	1499953	67	163											
PRDM16	63976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	3102700	3102700	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctttaggtgacggtgacGttgtaaataatatgtatgag	11	14	11	5	2	0	3	0	3	0	0	1	3	1	3	1	2	0	3	1	2	6	7	rs183153140	by1000genomes	TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	3102700	G	A	3102700	3	1	3	1	0	0	0	0	1	0	0	0	12459	1145	40	1	55	1	PRDM16	1	3102700	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08		3102700	246147921	1	164											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu	37	chr1	39934334	39934334	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgtattctgcgcagcacCgtgatggttcgcgttggtgg	4	12	15	10	5	1	1	0	1	1	0	3	1	2	1	2	3	2	5	2	3	1	4	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	39934334	C	T	39934334	2	4	3	1	0	0	0	0	0	0	0	1	9144	639	23	1		1	MACF1	1	39934334	Silent	SNP	C	TCGA-A3-3316-01A-01D-0966-08	36831634	39934334	209316287	2	165											
C1orf114	57821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169391358	169391358	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctagtttggattcctggAaagagttttcactatctgaa	10	17	8	6	0	3	2	1	1	2	1	4	4	4	4	1	2	0	2	1	2	4	7	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	169391358	A	G	169391358	3	3	3	1	0	0	0	0	1	0	0	0	1987	246	9	3	1231	3	C1orf114	1	169391358	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08	129457024	169391358	79859263	3	166											
CRB1	23418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197390735	197390735	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaaggagaaatgcatcGcgaaagctcctactccactt	12	9	8	12	2	0	1	0	0	0	1	3	3	2	1	3	1	3	3	3	1	4	3	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	197390735	G	A	197390735	3	1	3	1	0	0	0	0	1	0	0	0	3848	1087	38	1	1799	1	CRB1	1	197390735	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	27999377	197390735	51859886	4	167											
ZC3H11A	9877	broad.mit.edu;hgsc.bcm.edu	37	chr1	203816426	203816426	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaagacagaaggaccttCaaaaactgatgattctactt	16	10	6	9	0	3	4	2	2	1	2	3	5	3	5	1	1	2	0	1	1	5	4	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	203816426	C	A	203816426	4	1	3	1	0	0	0	0	0	1	0	0	17559	838	29	4	1199	4	ZC3H11A	1	203816426	Nonsense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08	6425691	203816426	45434195	5	168											
EPHX1	2052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	226032237	226032237	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgaccaacgtcatgcTctactggacaacaggcacca	11	7	8	15	1	2	1	1	1	1	0	2	2	2	2	3	2	5	3	3	2	3	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	226032237	T	C	226032237	3	2	3	1	0	0	0	0	1	0	0	0	5179	1551	54	3	1105	3	EPHX1	1	226032237	Missense_Mutation	SNP	T	TCGA-A3-3316-01A-01D-0966-08	22215811	226032237	23218384	6	169											
EFCAB2	84288	broad.mit.edu;hgsc.bcm.edu	37	chr1	245222709	245222709	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagattggaacaattatcagGtcattaggatgctgtcctac	12	12	10	7	0	2	1	2	0	0	1	3	4	3	3	1	3	3	1	1	3	5	4	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	245222709	G	C	245222709	3	2	3	1	0	0	0	0	1	0	0	0	4934	1252	44	4	142	4	EFCAB2	1	245222709	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	19190472	245222709	4027912	7	170											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52588839	52588839	+	Frame_Shift_Del	DEL	G	G	-																															catgctgcccatgctaacaaGgccatcaactgggccctgca																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		-	52588839	G	-	52588839	7	5	3	1	0	1	0	1	0	0	0	0	11491	1000	35	0	575	0	PBRM1	3	52588839	Frame_Shift_Del	DEL	G	TCGA-A3-3316-01A-01D-0966-08		52588839	145433591	8	171											
KIAA2018	205717	broad.mit.edu;hgsc.bcm.edu	37	chr3	113379013	113379013	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggcaattagtggctgcaTaggtaaagatggacaagaag	14	8	14	5	0	0	2	0	0	0	2	0	3	0	3	0	4	1	4	0	4	7	3	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	113379013	T	C	113379013	3	2	3	1	0	0	0	0	1	0	0	0	8268	1406	49	3	5225	3	KIAA2018	3	113379013	Missense_Mutation	SNP	T	TCGA-A3-3316-01A-01D-0966-08	60790174	113379013	84643417	9	172											
ATP13A4	84239	broad.mit.edu;hgsc.bcm.edu	37	chr3	193177001	193177001	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagcctggcctgaggcaaAgctgtgaacttcctgaaagc	12	7	11	11	0	0	3	0	3	0	0	1	3	1	3	3	2	4	2	3	2	4	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	193177001	A	G	193177001	3	3	3	1	0	0	0	0	1	0	0	0	1126	72	3	3	2115	3	ATP13A4	3	193177001	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08	79797988	193177001	4845429	10	173											
ZDHHC19	131540	broad.mit.edu	37	chr3	195934301	195934301	+	Frame_Shift_Del	DEL	C	-	-																															ggtgcggtcggccgagctcaCggacagtgcctggatcagca																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		-	195934301	-	-	195934301	7	5	3	1	0	1	0	1	0	0	0	0	17608	536	19	0	286	0	ZDHHC19	3	195934301	Frame_Shift_Del	DEL	C	TCGA-A3-3316-01A-01D-0966-08	2757300	195934301	2088129	11	174											
RASGEF1B	153020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	82355851	82355851	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccctcattgaggaaataaAtatctttgattaagagactg	16	12	7	6	0	2	3	1	2	1	1	2	5	2	4	1	1	1	0	1	1	6	5	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	82355851	A	G	82355851	3	3	3	1	0	0	0	0	1	0	0	0	13072	101	4	3	295	3	RASGEF1B	4	82355851	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08		82355851	108798425	12	175											
FGA	2243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	155507521	155507521	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggttccggtactaccagGtctagggctcccagggtttt	6	11	12	12	1	1	0	0	0	1	0	3	0	3	0	4	5	2	4	4	5	3	6	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	155507521	G	T	155507521	3	4	3	1	0	0	0	0	1	0	0	0	5830	1261	44	4	1592	4	FGA	4	155507521	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	73151670	155507521	35646755	13	176											
GUCY1A3	2982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	156632326	156632326	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaaccagacgtttagcGggatcatgactatgttgaat	14	11	9	7	2	2	3	2	2	0	1	2	4	2	4	1	1	2	2	1	1	5	4	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	156632326	G	C	156632326	3	2	3	1	0	0	0	0	1	0	0	0	6894	1116	39	4	1023	4	GUCY1A3	4	156632326	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	1124805	156632326	34521950	14	177											
NNT	23530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43677827	43677827	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttcttaatgttccttgcagGctatggtctctgtgcagcca	6	15	10	10	0	2	0	0	0	2	0	4	0	3	0	2	2	3	5	2	2	2	5	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	43677827	G	A	43677827	3	1	3	1	0	0	0	0	1	0	0	0	10510	1217	42	2	2865	2	NNT	5	43677827	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08		43677827	137237433	15	178											
ABCB5	340273	hgsc.bcm.edu;ucsc.edu	37	chr7	20785034	20785034	+	Frame_Shift_Del	DEL	C	C	-																															gccgcaaatgcagcaaatatCcattcttttattgaaggtct																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		-	20785034	C	-	20785034	7	5	3	1	0	1	0	1	0	0	0	0	44	845	30	0	3541	0	ABCB5	7	20785034	Frame_Shift_Del	DEL	C	TCGA-A3-3316-01A-01D-0966-08		20785034	138353629	16	179											
DNAH11	8701	broad.mit.edu	37	chr7	21908580	21908580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggccctggagaaagctTccaaaggaggacactgggtc	12	6	14	9	0	0	1	0	0	0	1	2	4	1	3	2	5	1	1	2	5	3	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	21908580	C	C	21908580	3	2	3	1	0	0	0	0	1	0	0	0	4599	1783	62	3	12250	3	DNAH11	7	21908580	Missense_Mutation	SNP	T	TCGA-A3-3316-01A-01D-0966-08	1123546	21908580	137230083	17	180											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48556346	48556346	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caactcttccatggatgtacCtgatgtccagaatcttttcc	9	14	6	12	0	2	2	0	1	2	1	5	3	5	3	4	1	2	1	4	1	3	4	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	48556346	C	T	48556346	2	4	3	1	0	0	0	0	0	0	0	1	31	680	24	2		2	ABCA13	7	48556346	Silent	SNP	C	TCGA-A3-3316-01A-01D-0966-08	26647766	48556346	110582317	18	181											
CLDN4	1364	broad.mit.edu;ucsc.edu	37	chr7	73246086	73246086	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgctttgctgcaactgTccaccccgcacagacaagcc	8	7	10	16	1	0	1	0	0	0	1	1	1	1	1	4	1	5	5	4	1	2	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	73246086	G	G	73246086	3	3	3	1	0	0	0	0	1	0	0	0	3487	1673	58	5	557	5	CLDN4	7	73246086	Missense_Mutation	SNP	T	TCGA-A3-3316-01A-01D-0966-08	24689740	73246086	85892577	19	182											
HSPA5	3309	broad.mit.edu;hgsc.bcm.edu	37	chr9	127998975	127998975	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaatttcttccagttcctTcttcttagctttgaagtctt	8	19	4	10	0	4	1	0	1	4	0	6	1	6	1	2	0	2	2	2	0	4	8	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	127998975	T	C	127998975	3	2	3	1	0	0	0	0	1	0	0	0	7414	1792	62	3	107	3	HSPA5	9	127998975	Missense_Mutation	SNP	T	TCGA-A3-3316-01A-01D-0966-08		127998975	13214456	20	183											
ARID5B	84159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	63851221	63851221	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacctgactgggcccatgAacgagaaccatggacttaat	14	7	10	10	1	0	4	0	2	0	2	0	6	0	5	3	2	2	0	3	2	4	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	63851221	A	C	63851221	3	2	3	1	0	0	0	0	1	0	0	0	922	246	9	5	2037	5	ARID5B	10	63851221	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08		63851221	71683526	21	184											
PTEN	5728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	89711891	89711891	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggagtaactattcccaGtcagaggcgctatgtgtatt	10	11	11	9	1	1	1	1	0	0	1	2	2	2	2	2	2	1	3	2	2	4	6	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	89711891	G	A	89711891	3	1	3	1	0	0	0	0	1	0	0	0	12740	1029	36	2	531	2	PTEN	10	89711891	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	25860670	89711891	45822856	22	185											
FANCF	2188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22646829	22646829	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttcggccttccccacCtcctgcagacgctccagcag	5	8	8	20	3	0	1	0	0	0	1	5	1	4	1	7	1	2	4	7	1	0	2	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	22646829	C	T	22646829	2	4	3	1	0	0	0	0	0	0	0	1	5667	680	24	2		2	FANCF	11	22646829	Silent	SNP	C	TCGA-A3-3316-01A-01D-0966-08		22646829	112359687	23	186											
GLYATL1	92292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	58711084	58711084	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcgcgaagtgaacacggaagGtacctgcaggatccaattgt	12	7	13	9	3	0	1	0	1	0	0	1	4	1	3	2	3	3	2	2	3	5	2	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	58711084	G	C	58711084	3	2	3	1	0	0	0	0	1	0	0	0	6480	1252	44	4	99	4	GLYATL1	11	58711084	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	36064255	58711084	76295432	24	187											
SPTBN2	6712	broad.mit.edu	37	chr11	66472256	66472256	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctcctcgtagtgccgctCcagggtgggcacccggctct	4	8	13	16	3	1	0	0	0	1	0	4	0	3	0	4	3	2	5	4	3	1	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	66472256	A	A	66472256	4	1	3	1	0	0	0	0	0	1	0	0	15121	864	30	4	4777	4	SPTBN2	11	66472256	Nonsense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08	7761172	66472256	68534260	25	188											
CUL5	8065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	107974931	107974931	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaggaagctatcatacaAataatgaaaatgagaaagaa	21	10	7	3	0	1	3	1	2	0	2	1	5	1	4	0	1	2	1	0	1	10	5	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	107974931	A	G	107974931	2	3	3	1	0	0	0	0	0	0	0	1	4059	11	1	3		3	CUL5	11	107974931	Silent	SNP	A	TCGA-A3-3316-01A-01D-0966-08	41502675	107974931	27031585	26	189											
RIMBP2	23504	broad.mit.edu;ucsc.edu	37	chr12	130926846	130926846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctccttgtccaccaggaCgttgtagctgctcaccgttc	5	13	9	14	2	2	0	1	0	1	0	5	1	3	1	4	1	2	5	4	1	1	4	rs141970284		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	130926846	T	T	130926846	3	4	3	1	0	0	0	0	1	0	0	0	13365	536	19	1	2206	1	RIMBP2	12	130926846	Missense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08		130926846	2925049	27	190											
MTMR10	54893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	31282988	31282988	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaatgtttacctggcaaaAggactggctccagtttttta	11	14	8	8	0	0	0	0	0	0	0	1	1	1	1	2	3	1	4	2	3	5	6	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	31282988	A	C	31282988	3	2	3	1	0	0	0	0	1	0	0	0	9939	72	3	5	2280	5	MTMR10	15	31282988	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08		31282988	71248404	28	191											
SPTBN5	51332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42173407	42173407	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctgggttcctcaggctttctCctggagggctcagggcagag	5	10	15	11	0	3	1	2	0	1	1	5	2	4	2	2	5	0	4	2	5	0	2	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	42173407	C	G	42173407	3	3	3	1	0	0	0	0	1	0	0	0	15123	855	30	4	8765	4	SPTBN5	15	42173407	Missense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08	10890419	42173407	60357985	29	192											
GRIN2A	2903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	9857569	9857569	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcttgttcttttgtaattGaagggcattgttctgtgccc	6	18	10	7	0	2	1	0	1	2	0	2	1	2	1	1	1	2	5	1	1	3	9	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	9857569	G	T	9857569	3	4	3	1	0	0	0	0	1	0	0	0	6779	1299	45	4	566	4	GRIN2A	16	9857569	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08		9857569	80497184	30	193											
MLX	6945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40720575	40720575	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcttctgtccccaacaCaggtaggcagtaacatcccc	9	9	7	16	0	2	0	0	0	2	0	4	0	4	0	5	2	3	3	5	2	3	3	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	40720575	C	T	40720575	3	4	3	1	0	0	0	0	1	0	0	0	9635	478	17	2	339	2	MLX	17	40720575	Missense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08		40720575	40474635	31	194											
CD300E	342510	broad.mit.edu;hgsc.bcm.edu	37	chr17	72610086	72610086	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgaattttgggtcaacacctCcccggtgctgaggtttcgcc	6	12	11	12	2	1	2	1	2	0	0	3	2	2	2	4	3	2	2	4	3	2	3	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	72610086	C	T	72610086	3	4	3	1	0	0	0	0	1	0	0	0	2998	864	30	2	150	2	CD300E	17	72610086	Missense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08	31889511	72610086	8585124	32	195											
SMCHD1	23347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	2722637	2722637	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagtcaactagtaactgAtattcagccagttcttgaag	13	12	7	9	0	3	2	2	2	1	0	3	2	3	2	2	0	4	2	2	0	6	7	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		G	2722637	A	G	2722637	3	3	3	1	0	0	0	0	1	0	0	0	14790	333	12	3	2657	3	SMCHD1	18	2722637	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08		2722637	75354611	33	196											
LRRC30	339291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7232028	7232028	+	Frame_Shift_Del	DEL	A	A	-																															tcttcggctacctgaaggacAaaaaacacacctgacctggg																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		-	7232028	A	-	7232028	7	5	3	1	0	1	0	1	0	0	0	0	8985	131	5	0	894	0	LRRC30	18	7232028	Frame_Shift_Del	DEL	A	TCGA-A3-3316-01A-01D-0966-08	4509391	7232028	70845220	34	197											
DSG1	1828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	28934518	28934518	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaaccagtttgccttcctCaggaaacagagcccgttgtt	9	11	9	12	1	1	2	1	1	0	1	2	3	2	3	4	1	4	3	4	1	2	4	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	28934518	C	T	28934518	4	4	3	1	0	0	0	0	0	1	0	0	4776	827	29	2	2417	2	DSG1	18	28934518	Nonsense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08	21702490	28934518	49142730	35	198											
DSG2	1829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29116293	29116293	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtatgtgaatgttactgcaGaggacctggatggacaccca	12	9	12	8	0	0	2	0	1	0	1	0	5	0	5	2	3	2	3	2	3	3	2	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	29116293	G	C	29116293	3	2	3	1	0	0	0	0	1	0	0	0	4777	943	33	4	1594	4	DSG2	18	29116293	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	181775	29116293	48960955	36	199											
CYP4F12	66002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15794430	15794430	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgggcggcgcttccacaggGcctgccgcctggtgcatgac	5	6	15	15	4	0	1	0	1	0	0	1	1	1	1	4	4	2	2	4	4	0	1	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	15794430	G	A	15794430	3	1	3	1	0	0	0	0	1	0	0	0	4187	1203	42	2	797	2	CYP4F12	19	15794430	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08		15794430	43334553	37	200											
IGFL4	444882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46543533	46543533	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggcagcagtgctggaagCagggccagaaggtgcagctg	10	4	17	10	0	0	1	0	0	0	1	0	2	0	2	2	4	5	6	2	4	2	0	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	46543533	C	T	46543533	3	4	3	1	0	0	0	0	1	0	0	0	7589	710	25	2	170	2	IGFL4	19	46543533	Missense_Mutation	SNP	C	TCGA-A3-3316-01A-01D-0966-08	30749103	46543533	12585450	38	201											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57335855	57335855	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcttccgaggcccaacaaAttccacatagattaggttcc	11	10	8	12	1	1	1	0	0	1	1	4	2	4	1	4	3	1	1	4	3	4	5	novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	57335855	A	T	57335855	3	4	3	1	0	0	0	0	1	0	0	0	11720	101	4	5		5	PEG3	19	57335855	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08	10792322	57335855	1793128	39	202											
SELO	83642	hgsc.bcm.edu	37	chr22	50655685	50655686	+	Frame_Shift_Ins	INS	-	-	C																															ttaccactgcgaggcgggggINSccgccacagacgccgaggcc																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		C	50655686	-	C	50655685	7	5	3	1	0	1	1	0	0	0	0	0	14020	1203	42	0	1931	0	SELO	22	50655685	Frame_Shift_Ins	INS	-	TCGA-A3-3316-01A-01D-0966-08		50655685	648881	40	203											
ZNF280C	55609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129343630	129343630	+	Missense_Mutation	SNP	A	A	T																															aaaagatcaatgattacctgAgagttcctgaatgcttcttg																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		T	129343630	A	T	129343630	3	4	3	1	0	0	0	0	1	0	0	0	17815	304	11	5	190	5	ZNF280C	23	129343630	Missense_Mutation	SNP	A	TCGA-A3-3316-01A-01D-0966-08		129343630	25926930	41	204	2	2									
ZNF280C	55609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129343631	129343631	+	Missense_Mutation	SNP	G	G	A																															aaagatcaatgattacctgaGagttcctgaatgcttcttga																								novel		TCGA-A3-3316-01A-01D-0966-08	TCGA-A3-3316-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e1241cff-4071-482e-be5b-adb9c46a480a	57bb209a-9a43-48f4-8183-8350bee49508		A	129343631	G	A	129343631	3	1	3	1	0	0	0	0	1	0	0	0	17815	942	33	2	191	2	ZNF280C	23	129343631	Missense_Mutation	SNP	G	TCGA-A3-3316-01A-01D-0966-08	1	129343631	25926929	42	205	2	2									
DMAP1	55929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44684379	44684379	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatgctgggcacgaacgAcggcggaaggaacagcttga	11	7	15	8	4	0	2	0	2	0	0	0	6	0	4	0	4	4	3	0	4	3	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	44684379	A	T	44684379	2	4	4	1	0	0	0	0	0	0	0	1	4576	262	10	5		5	DMAP1	1	44684379	Silent	SNP	A	TCGA-A3-3317-01A-01D-0966-08		44684379	204566242	1	206											
DOCK7	85440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	63084419	63084419	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatcccttgcgggaaacTctaagatttctctggtaggt	11	12	9	9	1	2	1	0	0	2	1	4	2	3	2	1	3	3	1	1	3	4	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	63084419	T	C	63084419	3	2	4	1	0	0	0	0	1	0	0	0	4692	1551	54	3	4833	3	DOCK7	1	63084419	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08	18400040	63084419	186166202	2	207											
LMO4	8543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	87805242	87805242	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttggaaatagcggtgcttGcagcgcttgcggacagtcga	9	10	14	8	4	0	0	0	0	0	0	1	3	0	2	0	3	5	3	0	3	2	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	87805242	G	C	87805242	3	2	4	1	0	0	0	0	1	0	0	0	8854	1319	46	4	266	4	LMO4	1	87805242	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	24720823	87805242	161445379	3	208											
HIST2H2BE	8349	hgsc.bcm.edu	37	chr1	149857934	149857936	+	In_Frame_Del	DEL	TTG	TTG	-																															gggatgtgatggtggagcgcTtgttgtagtgcgccaggcgg																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		-	149857936	TTG	-	149857934	7	5	4	1	0	1	0	1	0	0	0	0	7179	1609	56	0	127	0	HIST2H2BE	1	149857934	In_Frame_Del	DEL	TTG	TCGA-A3-3317-01A-01D-0966-08	62052692	149857934	99392687	4	209											
SELENBP1	8991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151337664	151337664	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtagggggagaggctcttaCcttgaccactaggggctctg	8	9	15	9	0	2	2	0	1	2	1	2	3	2	2	2	5	1	3	2	5	3	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	151337664	C	G	151337664	5	3	4	1	0	0	0	0	0	0	1	0	14016	521	18	4	292	4	SELENBP1	1	151337664	Splice_Site	SNP	C	TCGA-A3-3317-01A-01D-0966-08	1479730	151337664	97912957	5	210											
C1orf114	57821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169391155	169391155	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttcaaaataatttttaaAagtagtagtgtcttctagtg	13	18	7	3	0	3	0	1	0	2	0	3	0	3	0	0	0	0	3	0	0	8	10	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	169391155	A	C	169391155	3	2	4	1	0	0	0	0	1	0	0	0	1987	14	1	5	1028	5	C1orf114	1	169391155	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	18053491	169391155	79859466	6	211											
CHIT1	1118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203186906	203186906	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggatgagggggtatcggcCctggttgcaggagaagccgg	7	7	19	8	2	0	2	0	1	0	1	1	4	0	3	2	7	2	3	2	7	2	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	203186906	C	T	203186906	3	4	4	1	0	0	0	0	1	0	0	0	3346	623	22	2	291	2	CHIT1	1	203186906	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	33795751	203186906	46063715	7	212											
PREPL	9581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44554022	44554022	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccattgagttttttagtTaggcggccatcagcgtgcca	8	12	12	9	2	1	1	1	1	0	0	1	1	1	1	3	3	2	2	3	3	2	5	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	44554022	T	A	44554022	2	1	4	1	0	0	0	0	0	0	0	1	12477	1741	61	5		5	PREPL	2	44554022	Silent	SNP	T	TCGA-A3-3317-01A-01D-0966-08		44554022	198645351	8	213											
SMEK2	57223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	55813757	55813757	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaacggcataattaccatTacaatttcaagagcaggaag	18	8	8	7	1	1	2	1	0	0	2	1	3	1	3	1	2	4	2	1	2	7	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	55813757	T	A	55813757	2	1	4	1	0	0	0	0	0	0	0	1	14796	1741	61	5		5	SMEK2	2	55813757	Silent	SNP	T	TCGA-A3-3317-01A-01D-0966-08	11259735	55813757	187385616	9	214											
ANKRD36	375248	broad.mit.edu;hgsc.bcm.edu	37	chr2	97784175	97784175	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggaaggactgctctgcActacgctgtgtataatgaag	10	12	11	8	1	1	1	0	1	1	0	1	3	1	3	0	2	3	4	0	2	5	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	97784175	A	T	97784175	3	4	4	1	0	0	0	0	1	0	0	0	665	159	6	5	417	5	ANKRD36	2	97784175	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	41970418	97784175	145415198	10	215											
ST6GAL2	84620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	107460218	107460218	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctggcgtgcgtccaggccCccaggcggggagggctcatg	4	5	18	14	3	1	0	1	0	0	0	2	1	2	1	4	6	1	1	4	6	0	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	107460218	C	G	107460218	2	3	4	1	0	0	0	0	0	0	0	1	15223	610	22	4		4	ST6GAL2	2	107460218	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	9676043	107460218	135739155	11	216											
RIF1	55183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152320194	152320194	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatttggaatccaaagagaAtacacccccagtagtaatat	17	10	6	8	0	0	1	0	0	0	1	1	3	1	2	3	1	1	2	3	1	8	6	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	152320194	A	C	152320194	3	2	4	1	0	0	0	0	1	0	0	0	13361	101	4	5	4274	5	RIF1	2	152320194	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	44859976	152320194	90879179	12	217											
CHRNA1	1134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	175612868	175612868	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctcatccttgctgatttAattcaatgagtcgacctgca	9	14	7	11	1	2	2	2	2	0	0	4	3	3	2	2	0	3	3	2	0	2	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	175612868	A	T	175612868	4	4	4	1	0	0	0	0	0	1	0	0	3381	372	13	5	19	5	CHRNA1	2	175612868	Nonsense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	23292674	175612868	67586505	13	218											
PECR	55825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216908708	216908708	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtgatgaaggaagctgcagGagacagtaggaagcagacca	16	4	15	6	0	0	4	0	2	0	2	0	7	0	6	1	3	3	4	1	3	4	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	216908708	G	A	216908708	3	1	4	1	0	0	0	0	1	0	0	0	11717	1174	41	2	174	2	PECR	2	216908708	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	41295840	216908708	26290665	14	219											
ZFAND2B	130617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220072989	220072989	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctacagacttgctgccaTctccagagcacaagctgtgg	9	9	9	14	0	1	2	0	0	1	2	3	2	2	2	3	1	5	3	3	1	2	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	220072989	T	C	220072989	3	2	4	1	0	0	0	0	1	0	0	0	17627	1435	50	3	464	3	ZFAND2B	2	220072989	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08	3164281	220072989	23126384	15	220											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52438515	52438515	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcctcctcgtcatcctCatagtcatcctcatcatctg	7	14	4	16	1	7	0	6	0	1	0	12	0	11	0	4	0	0	0	4	0	1	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	52438515	C	A	52438515	4	1	4	1	0	0	0	0	0	1	0	0	1311	835	29	4	1009	4	BAP1	3	52438515	Nonsense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08		52438515	145583915	16	221											
SAMD7	344658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	169644942	169644942	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaaaagaatggggtttgcCctccagttcctcgaccatct	10	11	9	11	1	1	2	0	1	1	1	4	3	3	2	4	2	1	2	4	2	3	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	169644942	C	A	169644942	3	1	4	1	0	0	0	0	1	0	0	0	13826	623	22	4	906	4	SAMD7	3	169644942	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	117206427	169644942	28377488	17	222											
DOK7	285489	hgsc.bcm.edu;ucsc.edu	37	chr4	3487325	3487325	+	Frame_Shift_Del	DEL	T	T	-																															agatcagcttcctgttcgacTgcatcgtccgaggcatctcc																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		-	3487325	T	-	3487325	7	5	4	1	0	1	0	1	0	0	0	0	4702	1580	55	0	610	0	DOK7	4	3487325	Frame_Shift_Del	DEL	T	TCGA-A3-3317-01A-01D-0966-08		3487325	187666951	18	223											
ENPEP	2028	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	111463966	111463966	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctcaaaataaacccagatCatattgggttttatcgtgta	13	15	6	7	1	2	1	2	0	1	1	4	1	2	1	1	1	1	2	1	1	7	7	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	111463966	C	T	111463966	3	4	4	1	0	0	0	0	1	0	0	0	5128	826	29	2	1913	2	ENPEP	4	111463966	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	107976641	111463966	79690310	19	224											
SPCS3	60559	broad.mit.edu	37	chr4	177248330	177248330	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taggctctgaaccaagttgtCctatgggacaagattgtttt	10	14	10	7	0	1	2	0	1	1	1	2	3	2	3	2	2	1	3	2	2	5	6	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	177248330	T	T	177248330	2	4	4	1	0	0	0	0	0	0	0	1	15026	842	30	2		2	SPCS3	4	177248330	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	65784364	177248330	13905946	20	225											
TTC33	23548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	40716581	40716581	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggatagatgtgaagggctActtgaaaacttcgaattgcc	12	12	11	6	1	0	3	0	2	0	1	1	5	0	4	1	2	3	1	1	2	6	6	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	40716581	A	C	40716581	3	2	4	1	0	0	0	0	1	0	0	0	16701	391	14	5	337	5	TTC33	5	40716581	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08		40716581	140198679	21	226											
ITGA1	3672	broad.mit.edu	37	chr5	52221113	52221113	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcatcatttcagattccCtttgccaaagattgtggaaa	11	14	7	9	0	3	2	3	0	0	2	4	3	4	3	2	1	1	0	2	1	2	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	52221113	G	G	52221113	2	3	4	1	0	0	0	0	0	0	0	1	7872	668	24	4		4	ITGA1	5	52221113	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	11504532	52221113	128694147	22	227											
ARSB	411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	78076227	78076227	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctgaaatcctacatcCaagggccccacaccccagtg	10	6	6	19	0	0	1	0	1	0	0	3	1	3	1	8	1	1	0	8	1	3	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	78076227	C	T	78076227	4	4	4	1	0	0	0	0	0	1	0	0	988	595	21	2	10	2	ARSB	5	78076227	Nonsense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	25855114	78076227	102839033	23	228											
ERAP1	51752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	96139528	96139528	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgttttggagatgcttcagtGctctgacaccatgaaggagt	9	12	12	8	1	2	3	1	2	1	1	2	5	2	4	1	2	2	3	1	2	1	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	96139528	G	A	96139528	2	1	4	1	0	0	0	0	0	0	0	1	5203	1310	46	2		2	ERAP1	5	96139528	Silent	SNP	G	TCGA-A3-3317-01A-01D-0966-08	18063301	96139528	84775732	24	229											
PDLIM4	8572	broad.mit.edu;hgsc.bcm.edu	37	chr5	131607572	131607572	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcctgcaggggctgccCgagtgcacgcgctgcggcca	5	4	17	15	5	0	0	0	0	0	0	0	1	0	0	3	4	5	4	3	4	0	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	131607572	C	T	131607572	2	4	4	1	0	0	0	0	0	0	0	1	11682	639	23	1		1	PDLIM4	5	131607572	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	35468044	131607572	49307688	25	230											
PCDHA5	56143	broad.mit.edu;hgsc.bcm.edu	37	chr5	140202644	140202644	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtgaccgcgcgggaCgggggctcgccttcgctgtg	2	8	19	12	6	0	1	0	1	0	0	2	2	0	2	2	5	0	2	2	5	0	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	140202644	C	T	140202644	2	4	4	1	0	0	0	0	0	0	0	1	11527	535	19	1		1	PCDHA5	5	140202644	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	8595072	140202644	40712616	26	231											
PROP1	5626	broad.mit.edu;hgsc.bcm.edu	37	chr5	177421243	177421243	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtgcggtggcggcgcCgggagtgcgggcggcccctc	2	5	22	12	6	0	0	0	0	0	0	1	1	0	1	3	8	2	0	3	8	0	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	177421243	C	T	177421243	3	4	4	1	0	0	0	0	1	0	0	0	12559	652	23	1	482	1	PROP1	5	177421243	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	37218599	177421243	3494017	27	232											
WDR46	9277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33248690	33248690	+	Missense_Mutation	SNP	G	G	A																															ctccatggggcagggtccgaGtgctcagaggctggtacgtc																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	33248690	G	A	33248690	3	1	4	1	0	0	0	0	1	0	0	0	17298	1029	36	2	662	2	WDR46	6	33248690	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08		33248690	137866377	28	233	3	2									
WDR46	9277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33248691	33248691	+	Missense_Mutation	SNP	T	T	A																															tccatggggcagggtccgagTgctcagaggctggtacgtcc																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	33248691	T	A	33248691	3	1	4	1	0	0	0	0	1	0	0	0	17298	1696	59	5	663	5	WDR46	6	33248691	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08	1	33248691	137866376	29	234	3	2									
KIFC1	3833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33374604	33374604	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgaacatttctccactGgaagagaacgtctccgagtc	10	12	9	10	2	2	2	0	1	2	1	5	5	2	3	2	1	2	0	2	1	3	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	33374604	G	T	33374604	2	4	4	1	0	0	0	0	0	0	0	1	8312	1335	47	4		4	KIFC1	6	33374604	Silent	SNP	G	TCGA-A3-3317-01A-01D-0966-08	125913	33374604	137740463	30	235											
LPA	4018	broad.mit.edu	37	chr6	161032706	161032706	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcctcgataactctgtcCattaccgtggtagcactcct	7	13	8	13	2	1	0	0	0	1	0	4	1	3	0	4	1	4	2	4	1	3	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	161032706	A	A	161032706	4	1	4	1	0	0	0	0	0	1	0	0	8903	603	21	4	3727	4	LPA	6	161032706	Nonsense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	127658102	161032706	10082361	31	236											
RAC1	5879	broad.mit.edu	37	chr7	6442071	6442071	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaagagaaaatgcctgctGttgtaaatgtctcagcccct	12	10	10	9	0	1	1	1	0	1	1	2	3	1	2	3	1	3	3	3	1	5	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	6442071	C	C	6442071	2	2	4	1	0	0	0	0	0	0	0	1	12976	1364	48	4		4	RAC1	7	6442071	Silent	SNP	G	TCGA-A3-3317-01A-01D-0966-08		6442071	152696592	32	237											
ZNF12	7559	broad.mit.edu;hgsc.bcm.edu	37	chr7	6731607	6731607	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattacattcatagggcttCtcccctgtgtgtgttctctg	5	17	8	11	0	4	0	2	0	2	0	6	0	4	0	2	1	1	2	2	1	2	5	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	6731607	C	T	6731607	2	4	4	1	0	0	0	0	0	0	0	1	17717	912	32	2		2	ZNF12	7	6731607	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	289536	6731607	152407056	33	238											
PODXL	5420	hgsc.bcm.edu	37	chr7	131241055	131241055	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgacggcgacggcgacgAcggcagcagcggcggcgttg	6	2	20	13	11	0	0	0	0	0	0	0	4	0	0	0	6	2	3	0	6	0	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	131241055	A	G	131241055	3	3	4	1	0	0	0	0	1	0	0	0	12180	275	10	3	1648	3	PODXL	7	131241055	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	124509448	131241055	27897608	34	239											
TUSC3	7991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	15531300	15531300	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggccagatgtggaaccatatCcgtggacctccatatgctca	10	9	10	12	1	1	1	1	0	0	1	3	3	3	3	5	3	2	1	5	3	3	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	15531300	C	T	15531300	2	4	4	1	0	0	0	0	0	0	0	1	16777	845	30	2		2	TUSC3	8	15531300	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08		15531300	130832722	35	240											
NOTCH1	4851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139410507	139410507	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcagggggtgctggcaCactcgtccacatcgtactgg	6	10	13	12	2	1	0	0	0	1	0	4	0	2	0	1	4	3	4	1	4	1	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	139410507	C	T	139410507	3	4	4	1	0	0	0	0	1	0	0	0	10547	478	17	2	6172	2	NOTCH1	9	139410507	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08		139410507	1802924	36	241											
C10orf76	79591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103750317	103750317	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtacttacatatagagaTccataggaaactccttcatc	13	14	5	9	0	1	1	1	0	0	1	4	3	3	2	2	1	3	1	2	1	6	7	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	103750317	T	C	103750317	3	2	4	1	0	0	0	0	1	0	0	0	1616	1435	50	3	704	3	C10orf76	10	103750317	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08		103750317	31784430	37	242											
VENTX	27287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	135053527	135053527	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctcggggtctctccatgCgcccccagctttctactcaa	5	12	7	17	2	4	0	1	0	3	0	7	0	5	0	3	2	3	1	3	2	2	3	rs150065198	byfrequency;alternate_allele	TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	135053527	C	A	135053527	3	1	4	1	0	0	0	0	1	0	0	0	17152	768	27	4	504	4	VENTX	10	135053527	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	31303210	135053527	481220	38	243											
CARS	833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3050597	3050597	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgggcagcttggagaagatgGaattgtcagtgacatcacag	12	9	14	6	0	2	3	2	1	0	2	2	5	2	4	0	3	1	2	0	3	2	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	3050597	G	C	3050597	3	2	4	1	0	0	0	0	1	0	0	0	2657	1174	41	4	1689	4	CARS	11	3050597	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08		3050597	131955919	39	244											
SLC6A5	9152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	20676346	20676346	+	Missense_Mutation	SNP	C	C	T																															gttacaagaacatgatcgacCccttgggaacctcttccttg																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	20676346	C	T	20676346	3	4	4	1	0	0	0	0	1	0	0	0	14689	623	22	2	2388	2	SLC6A5	11	20676346	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	17625749	20676346	114330170	40	245	4	2									
SLC6A5	9152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	20676347	20676347	+	Missense_Mutation	SNP	C	C	T																															ttacaagaacatgatcgaccCcttgggaacctcttccttgg																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	20676347	C	T	20676347	3	4	4	1	0	0	0	0	1	0	0	0	14689	623	22	2	2389	2	SLC6A5	11	20676347	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	1	20676347	114330169	41	246	4	2									
ACCS	84680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	44096169	44096169	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcttatcttcagcctccggGaggaagtggccaagttcctg	7	11	12	11	1	3	0	1	0	2	0	5	2	5	2	4	3	1	1	4	3	3	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	44096169	G	A	44096169	3	1	4	1	0	0	0	0	1	0	0	0	133	1175	41	2	441	2	ACCS	11	44096169	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	23419822	44096169	90910347	42	247											
GIF	2694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	59611470	59611470	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtaggctgatgaagtcacCgagttctccatgagtacttg	9	11	13	8	1	2	3	1	3	1	0	3	4	2	3	2	2	1	4	2	2	3	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	59611470	C	T	59611470	2	4	4	1	0	0	0	0	0	0	0	1	6376	639	23	1		1	GIF	11	59611470	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	15515301	59611470	75395046	43	248											
ATG2A	23130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64673943	64673943	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagatggttggggccagctGagccgggggagcgaaactgg	8	6	20	7	2	0	2	0	1	0	1	0	4	0	3	2	6	4	3	2	6	2	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	64673943	G	A	64673943	4	1	4	1	0	0	0	0	0	1	0	0	1093	1299	45	2	2854	2	ATG2A	11	64673943	Nonsense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	5062473	64673943	70332573	44	249											
ACCN2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50453582	50453582	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggcagatgaaaagcagCtggagatactgcaggacaaa	17	5	13	6	0	0	4	0	1	0	3	0	6	0	5	0	3	4	4	0	3	4	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	50453582	C	T	50453582	2	4	4	1	0	0	0	0	0	0	0	1	129	796	28	2		2	ACCN2	12	50453582	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08		50453582	83398313	45	250											
TBC1D15	64786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	72278663	72278663	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagacctgaaatcaatcaAgcaaaacaaagagggtatgg	19	5	10	7	0	2	3	2	1	0	2	2	4	2	3	1	2	2	2	1	2	7	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	72278663	A	G	72278663	3	3	4	1	0	0	0	0	1	0	0	0	15603	72	3	3	558	3	TBC1D15	12	72278663	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	21825081	72278663	61573232	46	251											
FARP1	10160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	99098408	99098408	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacagcaacgggtggcagaaGctgtgggtggtgttcacaaa	12	7	15	7	1	1	1	1	0	0	1	1	1	1	1	0	4	4	4	0	4	4	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	99098408	G	A	99098408	2	1	4	1	0	0	0	0	0	0	0	1	5676	962	34	2		2	FARP1	13	99098408	Silent	SNP	G	TCGA-A3-3317-01A-01D-0966-08		99098408	16071470	47	252											
PCCA	5095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	100925589	100925589	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatttcttggaaatgaatAcaagactccaggtaacaaca	16	12	6	7	0	1	2	0	1	1	1	2	3	2	3	1	2	3	1	1	2	7	6	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	100925589	A	T	100925589	3	4	4	1	0	0	0	0	1	0	0	0	11504	391	14	5	1100	5	PCCA	13	100925589	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	1827181	100925589	14244289	48	253											
IPO4	79711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24657425	24657425	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgggtaggtacttactctGtttctctctgcagggccgtc	5	14	12	10	1	3	0	0	0	3	0	5	0	3	0	1	3	3	4	1	3	3	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	24657425	G	C	24657425	3	2	4	1	0	0	0	0	1	0	0	0	7795	1377	48	4	3078	4	IPO4	14	24657425	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08		24657425	82692115	49	254											
TINF2	26277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24710922	24710922	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaggagcctctgacagctGcttcacctgctggtaaaaag	11	8	10	12	0	2	1	1	1	1	0	2	2	2	2	2	2	4	4	2	2	3	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	24710922	G	T	24710922	3	4	4	1	0	0	0	0	1	0	0	0	15922	1328	46	4	1029	4	TINF2	14	24710922	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	53497	24710922	82638618	50	255											
AKAP6	9472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	33068660	33068660	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtgctctcaaggaagcTgtggaggaggaaggacacca	12	7	14	8	0	1	0	1	0	1	0	2	5	1	5	1	5	2	2	1	5	3	1	rs144892695	alternate_allele	TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	33068660	T	A	33068660	2	1	4	1	0	0	0	0	0	0	0	1	455	1567	55	5		5	AKAP6	14	33068660	Silent	SNP	T	TCGA-A3-3317-01A-01D-0966-08	8357738	33068660	74280880	51	256											
SLC8A3	6547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	70633975	70633975	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataaagtcctcaggctcatCggtgtgcacctcgctcatgc	9	10	9	13	2	3	0	3	0	0	0	6	0	4	0	2	2	2	3	2	2	3	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	70633975	C	T	70633975	3	4	4	1	0	0	0	0	1	0	0	0	14710	884	31	1	1757	1	SLC8A3	14	70633975	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	37565315	70633975	36715565	52	257											
AMN	81693	broad.mit.edu	37	chr14	103389067	103389067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgtggctgcagctctgCggtgagccgggaccacaccg	5	7	15	14	3	1	1	0	1	1	0	1	2	1	2	3	3	5	4	3	3	0	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	103389067	T	T	103389067	2	4	4	1	0	0	0	0	0	0	0	1	580	782	27	1		1	AMN	14	103389067	Silent	SNP	C	TCGA-A3-3317-01A-01D-0966-08	32755092	103389067	3960473	53	258											
HERC2	8924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	28514431	28514431	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcctgtgtgtacacgcggCcattgcgtgacagaatcagg	9	8	14	10	3	1	2	1	1	0	1	1	2	1	2	2	3	2	1	2	3	2	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	28514431	C	A	28514431	3	1	4	1	0	0	0	0	1	0	0	0	7058	739	26	4	13427	4	HERC2	15	28514431	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08		28514431	74016961	54	259											
EIF2AK4	440275	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40299227	40299227	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttttcagatcccttttgCaagatatgtggcaagaaata	13	15	7	6	0	1	3	1	0	0	3	2	3	2	3	1	1	1	2	1	1	6	7	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	40299227	C	G	40299227	3	3	4	1	0	0	0	0	1	0	0	0	4999	710	25	4	3462	4	EIF2AK4	15	40299227	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	11784796	40299227	62232165	55	260											
LINGO1	84894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	77906716	77906716	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagtagctgcgcacatgcagGtgggcgggcatggagtcgtt	7	8	18	8	3	0	0	0	0	0	0	1	2	0	1	0	4	3	6	0	4	1	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	77906716	G	T	77906716	3	4	4	1	0	0	0	0	1	0	0	0	8814	1252	44	4	333	4	LINGO1	15	77906716	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	37607489	77906716	24624676	56	261											
DNAJA3	9093	hgsc.bcm.edu;ucsc.edu	37	chr16	4504893	4504893	+	Frame_Shift_Del	DEL	T	T	-																															ggagggattcctttccaaacTtaagaaaatgtttacctcat																								novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		-	4504893	T	-	4504893	7	5	4	1	0	1	0	1	0	0	0	0	4613	1609	56	0	1463	0	DNAJA3	16	4504893	Frame_Shift_Del	DEL	T	TCGA-A3-3317-01A-01D-0966-08		4504893	85849860	57	262											
C16orf71	146562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4794979	4794979	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggtgcctgccgacactcCccaggacaccaaagaggcag	12	3	12	14	1	0	1	0	0	0	1	1	4	1	2	5	3	2	1	5	3	2	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	4794979	C	T	4794979	3	4	4	1	0	0	0	0	1	0	0	0	1830	623	22	2	1028	2	C16orf71	16	4794979	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	290086	4794979	85559774	58	263											
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21033334	21033334	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcattgagaaggcaaggTggatgggagatgtctggaca	12	9	15	5	0	3	2	2	1	1	2	3	6	3	4	0	5	0	1	0	5	2	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	21033334	T	G	21033334	3	3	4	1	0	0	0	0	1	0	0	0	4603	1696	59	5	6706	5	DNAH3	16	21033334	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08	16238355	21033334	69321419	59	264											
CDH8	1006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	61689382	61689382	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatacgtacctaacagcAaaatgatgcatgctaatatg	17	9	8	7	1	0	1	0	1	0	0	0	2	0	2	1	1	6	4	1	1	8	5	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	61689382	A	C	61689382	3	2	4	1	0	0	0	0	1	0	0	0	3116	131	5	5	509	5	CDH8	16	61689382	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	40656048	61689382	28665371	60	265											
MTHFSD	64779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	86565766	86565766	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggccctgccaggtgagccGcaggggcacggagccgagtt	6	4	18	13	4	0	1	0	1	0	0	0	3	0	2	4	5	3	3	4	5	0	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	86565766	G	T	86565766	2	4	4	1	0	0	0	0	0	0	0	1	9933	1086	38	4		4	MTHFSD	16	86565766	Silent	SNP	G	TCGA-A3-3317-01A-01D-0966-08	24876384	86565766	3788987	61	266											
KIF1C	10749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4926964	4926964	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgtcttcgctggctcaagCaggagcagctacggctgcag	7	8	14	12	3	2	0	1	0	1	0	4	1	2	1	0	3	5	7	0	3	2	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	4926964	C	G	4926964	3	3	4	1	0	0	0	0	1	0	0	0	8285	711	25	4	2912	4	KIF1C	17	4926964	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08		4926964	76268246	62	267											
PRPSAP1	5635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74324943	74324943	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctccgcataggactgggcCctagaaggacaaagggaaat	13	6	12	10	1	1	1	0	0	1	1	2	4	1	4	2	4	0	1	2	4	5	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	74324943	C	G	74324943	3	3	4	1	0	0	0	0	1	0	0	0	12583	637	22	4	537	4	PRPSAP1	17	74324943	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	69397979	74324943	6870267	63	268											
CBX8	57332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	77768913	77768913	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggaaggggtgtcgtccaGcttcctgcccttgaggtact	5	10	13	13	2	0	1	0	1	0	0	3	2	2	2	4	4	3	2	4	4	2	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	77768913	G	C	77768913	3	2	4	1	0	0	0	0	1	0	0	0	2724	971	34	4	457	4	CBX8	17	77768913	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	3443970	77768913	3426297	64	269											
FASN	2194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80041257	80041257	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgttgaagaacgcatccaGtaggaccccgtggaatgtca	11	8	11	11	3	1	2	1	1	0	1	3	4	2	4	3	2	1	3	3	2	4	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	80041257	G	T	80041257	3	4	4	1	0	0	0	0	1	0	0	0	5683	1020	36	4	2197	4	FASN	17	80041257	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	2272344	80041257	1153953	65	270											
DSC2	1824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	28651758	28651758	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgttataggtactacAtatgagccaaatggaggatc	13	11	9	8	0	1	1	1	1	0	0	2	3	1	3	1	3	3	2	1	3	6	5	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	28651758	A	G	28651758	2	3	4	1	0	0	0	0	0	0	0	1	4766	224	8	3		3	DSC2	18	28651758	Silent	SNP	A	TCGA-A3-3317-01A-01D-0966-08		28651758	49425490	66	271											
MBD1	4152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47799982	47799982	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggcccggcacctgcacAggactgcttgcgccttcccg	6	6	12	17	3	0	0	0	0	0	0	1	1	1	1	4	3	3	3	4	3	0	2	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	47799982	A	T	47799982	2	4	4	1	0	0	0	0	0	0	0	1	9342	175	7	5		5	MBD1	18	47799982	Silent	SNP	A	TCGA-A3-3317-01A-01D-0966-08	19148224	47799982	30277266	67	272											
KDM4B	23030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5137677	5137677	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgcgctgcagatgaccAccgataggaggtgggtggca	9	6	18	8	2	0	2	0	1	0	1	0	5	0	3	2	5	2	3	2	5	1	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	5137677	A	T	5137677	3	4	4	1	0	0	0	0	1	0	0	0	8129	159	6	5	2489	5	KDM4B	19	5137677	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08		5137677	53991306	68	273											
TNPO2	30000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12813644	12813644	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaggtgcccacctgtgttTtccagcagtgtcttgggtgt	4	13	13	11	0	1	0	0	0	1	0	2	0	2	0	4	2	2	2	4	2	0	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	12813644	T	A	12813644	3	1	4	1	0	0	0	0	1	0	0	0	16335	1838	64	5	415	5	TNPO2	19	12813644	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08	7675967	12813644	46315339	69	274											
CILP2	148113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19653420	19653420	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcccaggcccaggccaacGgatccatctctgtggtcacc	8	6	11	16	1	2	0	1	0	1	0	4	1	3	1	5	5	1	0	5	5	1	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	19653420	G	A	19653420	3	1	4	1	0	0	0	0	1	0	0	0	3430	1117	39	1	847	1	CILP2	19	19653420	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	6839776	19653420	39475563	70	275											
LRFN3	79414	broad.mit.edu;hgsc.bcm.edu	37	chr19	36430547	36430547	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacaacttcatcgcctccGtgcgccgccgcgacctggcc	6	6	10	19	6	1	1	1	0	0	1	3	2	2	1	6	1	2	0	6	1	1	1	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	36430547	G	C	36430547	3	2	4	1	0	0	0	0	1	0	0	0	8939	1145	40	4	222	4	LRFN3	19	36430547	Missense_Mutation	SNP	G	TCGA-A3-3317-01A-01D-0966-08	16777127	36430547	22698436	71	276											
LYPD5	284348	broad.mit.edu	37	chr19	44303017	44303017	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtgggcgttgcatttgTcagttgtgcagccgcgcacc	5	11	15	10	3	1	1	1	1	0	0	1	1	1	1	2	2	3	5	2	2	0	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		A	44303017	A	A	44303017	3	1	4	1	0	0	0	0	1	0	0	0	9113	1667	58	5	450	5	LYPD5	19	44303017	Missense_Mutation	SNP	T	TCGA-A3-3317-01A-01D-0966-08	7872470	44303017	14825966	72	277											
PPP5C	5536	hgsc.bcm.edu;ucsc.edu	37	chr19	46888136	46888136	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttttcggcttcaagctcCtgtacccagatcactttcac	7	13	5	16	1	3	1	3	0	0	1	5	1	4	1	3	1	2	3	3	1	2	5	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	46888136	C	G	46888136	3	3	4	1	0	0	0	0	1	0	0	0	12408	680	24	4	900	4	PPP5C	19	46888136	Missense_Mutation	SNP	C	TCGA-A3-3317-01A-01D-0966-08	2585119	46888136	12240847	73	278											
PLAC4	191585	broad.mit.edu	37	chr21	42551343	42551343	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgagggtgtccagggtgagtGagggtgtcagggtgagtgaa	8	9	21	3	0	1	5	1	5	0	0	2	5	2	5	1	4	0	0	1	4	1	0	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		C	42551343	C	C	42551343	2	2	4	1	0	0	0	0	0	0	0	1	12014	1277	45	4		4	PLAC4	21	42551343	Silent	SNP	G	TCGA-A3-3317-01A-01D-0966-08		42551343	5578552	74	279											
TRAPPC10	7109	broad.mit.edu;ucsc.edu	37	chr21	45522670	45522670	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtttcagttgtcgacaacAgtagcaactgggcagtgtgt	9	12	12	8	2	1	0	1	0	0	0	3	1	1	0	0	1	3	5	0	1	3	3	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		T	45522670	T	T	45522670	3	4	4	1	0	0	0	0	1	0	0	0	16456	188	7	5	3444	5	TRAPPC10	21	45522670	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08	2971327	45522670	2607225	75	280											
BMX	660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	15549469	15549469	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggaaaagaaggagcatttAtggttagaaattcgagccaa	17	8	12	4	1	0	2	0	0	0	2	1	5	0	4	1	3	2	2	1	3	7	4	novel		TCGA-A3-3317-01A-01D-0966-08	TCGA-A3-3317-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd12847f-695b-4b97-9a56-a4a1ddc58ec4	02b0790a-61a7-4917-be68-533c397b2e6b		G	15549469	A	G	15549469	3	3	4	1	0	0	0	0	1	0	0	0	1473	449	16	3	996	3	BMX	23	15549469	Missense_Mutation	SNP	A	TCGA-A3-3317-01A-01D-0966-08		15549469	139721091	76	281											
UBE4B	10277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10238756	10238758	+	In_Frame_Del	DEL	GGG	GGG	-																															tttcaaagatgcggaaggcaGggatcaaatccacaatagca																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	GGG	GGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	10238758	GGG	-	10238756	7	5	5	1	0	1	0	1	0	0	0	0	16882	1000	35	0	3682	0	UBE4B	1	10238756	In_Frame_Del	DEL	GGG	TCGA-A3-3319-01A-01D-0966-08		10238756	239011865	1	282											
YARS	8565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33245096	33245096	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agagcctgccggagggtccaGaggttcaacctggcggttta	8	8	15	10	2	1	2	1	0	0	2	2	3	2	3	4	5	3	2	4	5	2	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	33245096	G	C	33245096	3	2	5	1	0	0	0	0	1	0	0	0	17466	933	33	4	231	4	YARS	1	33245096	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	23006340	33245096	216005525	2	283											
C1orf84	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43868851	43868851	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtctctttgttcccaggtgGaagaagctgggcaggtgttc	6	13	14	8	0	1	1	0	0	1	1	4	2	2	2	1	4	1	4	1	4	2	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	43868851	G	A	43868851	3	1	5	1	0	0	0	0	1	0	0	0	2061	1175	41	2	37	2	C1orf84	1	43868851	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	10623755	43868851	205381770	3	284											
CCDC24	149473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44461642	44461642	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtcctccacacagggccTcagacccccgcttcccctct	5	7	9	20	1	2	1	1	0	1	1	5	1	5	1	7	3	0	1	7	3	0	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	44461642	T	A	44461642	3	1	5	1	0	0	0	0	1	0	0	0	2799	1551	54	5	764	5	CCDC24	1	44461642	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	592791	44461642	204788979	4	285											
LRRC42	115353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54428053	54428053	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaggaatttgatcatagtAactgcaagacagagggctgg	14	9	13	5	0	1	4	1	2	0	2	1	5	1	5	0	3	2	3	0	3	5	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	54428053	A	G	54428053	3	3	5	1	0	0	0	0	1	0	0	0	9000	362	13	3	916	3	LRRC42	1	54428053	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	9966411	54428053	194822568	5	286											
DNAJB4	11080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78470926	78470926	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctcaggcagaggaaaaAtttaaagaggtcgcagaagc	15	7	11	8	1	2	3	1	0	1	3	4	4	2	4	1	3	1	2	1	3	5	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	78470926	A	T	78470926	3	4	5	1	0	0	0	0	1	0	0	0	4622	98	4	5	134	5	DNAJB4	1	78470926	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	24042873	78470926	170779695	6	287											
TARS2	80222	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150459930	150459930	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactggtgtgaaggaacatgGccctgtatcagaggtggcgg	9	8	16	8	1	1	2	1	1	0	1	1	3	1	3	1	6	1	1	1	6	3	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	150459930	G	A	150459930	3	1	5	1	0	0	0	0	1	0	0	0	15559	1203	42	2	6	2	TARS2	1	150459930	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	71989004	150459930	98790691	7	288											
ASH1L	55870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155450216	155450216	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagacaaaaggtcactagaGacacacatactggaggatag	17	6	10	8	0	2	2	2	0	0	2	2	5	2	4	0	3	1	0	0	3	5	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	155450216	G	C	155450216	2	2	5	1	0	0	0	0	0	0	0	1	1041	929	33	4		4	ASH1L	1	155450216	Silent	SNP	G	TCGA-A3-3319-01A-01D-0966-08	4990286	155450216	93800405	8	289											
MEX3A	92312	broad.mit.edu;ucsc.edu	37	chr1	156047265	156047265	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacggatggtcacctggccGggcagagcaggagccacacc	10	3	14	14	2	1	1	1	0	0	1	1	3	1	3	4	5	2	2	4	5	0	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	156047265	A	A	156047265	2	1	5	1	0	0	0	0	0	0	0	1	9509	1103	39	1		1	MEX3A	1	156047265	Silent	SNP	G	TCGA-A3-3319-01A-01D-0966-08	597049	156047265	93203356	9	290											
FAM5B	57795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	177249921	177249921	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcatcagcaatgacatgCggctgggcagctggtttgac	8	11	12	10	1	3	2	2	2	1	0	3	2	3	2	0	3	3	5	0	3	1	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	177249921	C	T	177249921	3	4	5	1	0	0	0	0	1	0	0	0	5593	759	27	1	1635	1	FAM5B	1	177249921	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	21202656	177249921	72000700	10	291											
NFASC	23114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204943409	204943409	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgggtctcccatccccaCactgcgatggtaagttccag	7	11	9	14	1	1	0	0	0	1	0	4	1	3	0	4	2	1	2	4	2	1	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	204943409	C	T	204943409	3	4	5	1	0	0	0	0	1	0	0	0	10359	478	17	2	1479	2	NFASC	1	204943409	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	27693488	204943409	44307212	11	292											
ALLC	55821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	3727534	3727534	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggacgtttcttacttcaCgggagattacgctcctcgag	7	12	11	11	5	2	1	1	0	1	1	4	4	3	2	1	2	2	2	1	2	2	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	3727534	C	T	3727534	3	4	5	1	0	0	0	0	1	0	0	0	534	536	19	1	262	1	ALLC	2	3727534	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		3727534	239471839	12	293											
HS1BP3	64342	broad.mit.edu;ucsc.edu	37	chr2	20823713	20823713	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtgggccctccactcTcacaggcggctggcagcagg	5	7	16	13	1	1	0	1	0	1	0	3	0	2	0	2	6	1	3	2	6	0	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	20823713	A	A	20823713	3	1	5	1	0	0	0	0	1	0	0	0	7361	1551	54	5	323	5	HS1BP3	2	20823713	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	17096179	20823713	222375660	13	294											
AHSA2	130872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61413601	61413601	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttaacaaataagaagatcatCatgaaatggagatgtgggaa	19	9	10	3	0	2	4	2	1	0	3	2	6	2	5	0	2	1	0	0	2	6	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	61413601	C	G	61413601	3	3	5	1	0	0	0	0	1	0	0	0	419	816	29	4	223	4	AHSA2	2	61413601	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	40589888	61413601	181785772	14	295											
LRRTM1	347730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	80530941	80530941	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gagaccgagcagcaggaaatCcattagcgagaatctttcca	14	7	10	10	2	1	2	0	0	1	2	3	6	3	3	3	1	3	2	3	1	3	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	80530941	C	G	80530941	3	3	5	1	0	0	0	0	1	0	0	0	9039	855	30	4	1568	4	LRRTM1	2	80530941	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	19117340	80530941	162668432	15	296											
CNNM4	26504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97475200	97475200	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacgagaccacaactctTctcaacgagcgtaactcctt	11	9	8	13	3	2	1	1	0	2	1	4	4	3	2	2	1	4	1	2	1	3	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	97475200	T	G	97475200	2	3	5	1	0	0	0	0	0	0	0	1	3615	1770	62	5		5	CNNM4	2	97475200	Silent	SNP	T	TCGA-A3-3319-01A-01D-0966-08	16944259	97475200	145724173	16	297											
TMEM182	130827	broad.mit.edu;hgsc.bcm.edu	37	chr2	103380788	103380788	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttttgctgttcttcctagCcaatcagccaccgtccaaga	8	13	7	13	1	2	1	1	0	1	1	4	1	4	1	5	0	3	3	5	0	3	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	103380788	C	T	103380788	3	4	5	1	0	0	0	0	1	0	0	0	16100	753	26	2	243	2	TMEM182	2	103380788	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	5905588	103380788	139818585	17	298											
RAD54L2	23132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51667705	51667705	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggtctggggaaaacttTgcaagtgatctctttcatcg	9	13	11	8	1	3	1	1	1	2	0	5	2	3	2	0	3	2	1	0	3	3	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	51667705	T	A	51667705	4	1	5	1	0	0	0	0	0	1	0	0	12996	1821	63	5	960	5	RAD54L2	3	51667705	Nonsense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08		51667705	146354725	18	299											
PCCB	5096	broad.mit.edu;hgsc.bcm.edu	37	chr3	136046479	136046479	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttggatctgttttaggccTatggaggtgcctatgatgtc	7	16	12	6	0	1	1	0	1	1	0	2	3	1	3	2	4	1	1	2	4	3	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	136046479	T	C	136046479	3	2	5	1	0	0	0	0	1	0	0	0	11505	1522	53	3	1417	3	PCCB	3	136046479	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	84378774	136046479	61975951	19	300											
TBL1XR1	79718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	176769354	176769354	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttctccattttttgcagatCcttgttggctggctgcagct	4	18	9	10	0	1	1	0	0	1	1	3	1	2	1	2	2	3	6	2	2	0	6	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	176769354	C	T	176769354	3	4	5	1	0	0	0	0	1	0	0	0	15639	855	30	2	1227	2	TBL1XR1	3	176769354	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	40722875	176769354	21253076	20	301											
EVC	2121	broad.mit.edu;hgsc.bcm.edu	37	chr4	5733355	5733355	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaccttcctccgggtgaaCgccttccctgaagtgctggc	5	9	11	16	3	0	2	0	2	0	0	3	2	3	2	5	2	2	2	5	2	2	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	5733355	C	T	5733355	2	4	5	1	0	0	0	0	0	0	0	1	5285	535	19	1		1	EVC	4	5733355	Silent	SNP	C	TCGA-A3-3319-01A-01D-0966-08		5733355	185420921	21	302											
CC2D2A	57545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	15556749	15556749	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatcaggactgacagaCatgaaaaaattggccaagtg	16	6	11	8	0	1	3	1	2	0	1	1	4	1	4	1	3	0	1	1	3	4	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	15556749	C	T	15556749	2	4	5	1	0	0	0	0	0	0	0	1	2728	477	17	2		2	CC2D2A	4	15556749	Silent	SNP	C	TCGA-A3-3319-01A-01D-0966-08	9823394	15556749	175597527	22	303											
PCDH7	5099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	30724623	30724623	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgattgtcaaggtgggaGacaccaacgacaacccgccc	11	5	10	15	2	1	2	1	1	0	1	1	4	1	2	4	2	2	0	4	2	3	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	30724623	G	T	30724623	3	4	5	1	0	0	0	0	1	0	0	0	11516	942	33	4	1581	4	PCDH7	4	30724623	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	15167874	30724623	160429653	23	304											
SEC31A	22872	broad.mit.edu;hgsc.bcm.edu	37	chr4	83788105	83788105	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcaagattcccaaaagaTgatgaaagctaaaaaagata	21	7	8	5	0	1	5	1	2	0	3	2	6	2	6	1	1	1	1	1	1	8	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	83788105	T	C	83788105	2	2	5	1	0	0	0	0	0	0	0	1	14000	1451	51	3		3	SEC31A	4	83788105	Silent	SNP	T	TCGA-A3-3319-01A-01D-0966-08	53063482	83788105	107366171	24	305											
ANK2	287	broad.mit.edu;ucsc.edu	37	chr4	114213643	114213643	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaacgtcctgctccagcaTggggccaagcccaacgccac	10	5	9	17	2	1	0	1	0	0	0	3	0	3	0	5	2	5	2	5	2	3	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	114213643	C	C	114213643	2	2	5	1	0	0	0	0	0	0	0	1	621	1461	51	3		3	ANK2	4	114213643	Silent	SNP	T	TCGA-A3-3319-01A-01D-0966-08	30425538	114213643	76940633	25	306											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu	37	chr5	90079095	90079095	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagtcacctttcagcatggGcaaaacttaagttttataaa	15	12	6	8	0	2	0	2	0	0	0	2	0	2	0	1	1	2	3	1	1	6	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	90079095	G	A	90079095	2	1	5	1	0	0	0	0	0	0	0	1	6721	1190	42	2		2	GPR98	5	90079095	Silent	SNP	G	TCGA-A3-3319-01A-01D-0966-08		90079095	90836165	26	307											
RIOK2	55781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	96503556	96503556	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttctgccacttctccatCtgaaaatgagaattcagatc	11	15	5	10	0	4	3	1	2	3	2	6	4	4	3	2	0	1	0	2	0	3	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	96503556	C	T	96503556	3	4	5	1	0	0	0	0	1	0	0	0	13380	913	32	2	686	2	RIOK2	5	96503556	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	6424461	96503556	84411704	27	308											
CHD1	1105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	98228309	98228309	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagagatttttccacatcTttcttaactcggcgtaacag	11	13	8	9	2	2	1	0	0	2	1	4	3	3	2	1	2	2	1	1	2	3	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	98228309	T	C	98228309	2	2	5	1	0	0	0	0	0	0	0	1	3323	1606	56	3		3	CHD1	5	98228309	Silent	SNP	T	TCGA-A3-3319-01A-01D-0966-08	1724753	98228309	82686951	28	309											
RNF14	9604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141362998	141362998	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcggatgaggctaataaaAgacttttggatcaaaggtat	16	10	11	4	1	1	2	1	1	0	1	1	4	1	4	0	4	1	2	0	4	6	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	141362998	A	G	141362998	3	3	5	1	0	0	0	0	1	0	0	0	13445	64	3	3	1135	3	RNF14	5	141362998	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	43134689	141362998	39552262	29	310			1	1		2	2	19	N	T_A	4.535259e-05
RNF14	9604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141363016	141363016	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagacttttggatcaaaggTatggtaagagagtgattcag	15	11	12	3	0	2	3	2	1	0	2	2	5	2	4	0	3	0	2	0	3	4	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	141363016	T	C	141363016	3	2	5	1	0	0	0	0	1	0	0	0	13445	1638	57	3	1153	3	RNF14	5	141363016	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	18	141363016	39552244	30	311			1	1		2	2	19	N	T_A	4.535259e-05
MARCKS	4082	hgsc.bcm.edu	37	chr6	114181301	114181302	+	In_Frame_Ins	INS	-	-	TGAGGC																															aaggaggctggagaaggcggINStgaggctgaggcgcccgctg																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		TGAGGC	114181302	-	TGAGGC	114181301	7	5	5	1	0	1	1	0	0	0	0	0	9309	1261	44	0	551	0	MARCKS	6	114181301	In_Frame_Ins	INS	-	TCGA-A3-3319-01A-01D-0966-08		114181301	56933766	31	312											
C6orf204	0	hgsc.bcm.edu	37	chr6	118812811	118812813	+	In_Frame_Del	DEL	TGT	TGT	-																															ataattatatgctgaggaaaTgttgttgacctaattcaact																								rs71866282	bycluster;by1000genomes	TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	118812813	TGT	-	118812811	7	5	5	1	0	1	0	1	0	0	0	0	2353	1464	51	0	1028	0	C6orf204	6	118812811	In_Frame_Del	DEL	TGT	TCGA-A3-3319-01A-01D-0966-08	4631510	118812811	52302256	32	313											
ELMO1	9844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	37262227	37262227	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgcaacttacctgcctcCtctcatcaggagccttcagg	10	10	7	14	0	3	0	3	0	1	0	5	1	4	1	4	2	5	1	4	2	3	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	37262227	C	G	37262227	3	3	5	1	0	0	0	0	1	0	0	0	5065	681	24	4	1462	4	ELMO1	7	37262227	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		37262227	121876436	33	314											
SGK223	157285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	8233967	8233967	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttggtctctcttccccagCtgtgactcagcaattcctgc	5	15	7	14	0	3	1	1	1	2	0	6	1	5	1	3	1	3	2	3	1	1	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	8233967	C	G	8233967	3	3	5	1	0	0	0	0	1	0	0	0	14212	797	28	4	2272	4	SGK223	8	8233967	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		8233967	138130055	34	315											
MTFR1	9650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	66619369	66619369	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatctgattaaagaacgAagagagaaaagagccaatgc	18	7	11	5	1	1	6	0	2	1	4	1	8	1	6	1	0	3	1	1	0	7	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	66619369	A	G	66619369	2	3	5	1	0	0	0	0	0	0	0	1	9925	233	9	3		3	MTFR1	8	66619369	Silent	SNP	A	TCGA-A3-3319-01A-01D-0966-08	58385402	66619369	79744653	35	316											
SPAG1	6674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	101252794	101252795	+	Frame_Shift_Del	DEL	CT	CT	-																															atttggtcagattataaatgCtctcagtaccaggaaggata																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	101252795	CT	-	101252794	7	5	5	1	0	1	0	1	0	0	0	0	14977	797	28	0	2510	0	SPAG1	8	101252794	Frame_Shift_Del	DEL	CT	TCGA-A3-3319-01A-01D-0966-08	34633425	101252794	45111228	36	317											
ACO1	48	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32433772	32433772	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaccccatcagataagcTgtttttctggaattccaaat	13	12	6	10	0	2	1	1	0	1	1	3	2	3	2	3	1	3	3	3	1	4	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	32433772	T	A	32433772	3	1	5	1	0	0	0	0	1	0	0	0	146	1580	55	5	1956	5	ACO1	9	32433772	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08		32433772	108779659	37	318											
UNC13B	10497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35385805	35385805	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcattactttcttcagaAtgaaggtaagaaatggactg	14	11	9	7	0	2	3	1	1	1	2	2	4	2	4	1	2	2	2	1	2	5	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	35385805	A	T	35385805	3	4	5	1	0	0	0	0	1	0	0	0	16984	101	4	5	2799	5	UNC13B	9	35385805	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	2952033	35385805	105827626	38	319											
TRDMT1	1787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	17195548	17195548	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagatttgctatttctttagGagtgaaatatcgcagtttaa	12	16	9	4	1	1	2	0	1	1	1	2	4	1	3	0	1	1	3	0	1	5	8	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	17195548	G	C	17195548	3	2	5	1	0	0	0	0	1	0	0	0	16466	1174	41	4	150	4	TRDMT1	10	17195548	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08		17195548	118339199	39	320											
AGAP4	119016	hgsc.bcm.edu	37	chr10	46342585	46342585	+	Frame_Shift_Del	DEL	C	C	-																															ctcctcaccttcaggcatctCccggtcacgaacgtggtgca																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	46342585	C	-	46342585	7	5	5	1	0	1	0	1	0	0	0	0	370	864	30	0	1808	0	AGAP4	10	46342585	Frame_Shift_Del	DEL	C	TCGA-A3-3319-01A-01D-0966-08	29147037	46342585	89192162	40	321											
NDST2	8509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75563696	75563696	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgttgaagaactgaatcTcctcaaatgtgctggggcta	10	11	12	8	0	2	3	1	2	1	1	3	3	2	3	1	3	2	4	1	3	5	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	75563696	T	C	75563696	3	2	5	1	0	0	0	0	1	0	0	0	10256	1551	54	3	753	3	NDST2	10	75563696	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	29221111	75563696	59971051	41	322											
TMEM180	79847	broad.mit.edu;ucsc.edu	37	chr10	104231152	104231152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagcatggacctggtgcAggtatggggagcagctcccg	7	7	17	10	2	0	1	0	1	0	0	1	3	1	3	2	5	4	5	2	5	1	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	104231152	G	G	104231152	3	3	5	1	0	0	0	0	1	0	0	0	16098	202	7	3	841	3	TMEM180	10	104231152	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	28667456	104231152	31303595	42	323											
LRP5	4041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68193567	68193567	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgagcgtgtggagaagacCaccggggacaagcggactcg	11	4	16	10	5	0	2	0	0	0	2	2	6	0	4	2	4	2	0	2	4	2	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	68193567	C	G	68193567	2	3	5	1	0	0	0	0	0	0	0	1	8960	581	21	4		4	LRP5	11	68193567	Silent	SNP	C	TCGA-A3-3319-01A-01D-0966-08		68193567	66812949	43	324											
SERPINH1	871	broad.mit.edu;hgsc.bcm.edu	37	chr11	75280027	75280027	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaaggaaaagctgcaaatCgtggagatgcccctggccca	13	5	13	10	1	0	2	0	0	0	2	1	5	0	3	3	3	3	2	3	3	4	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	75280027	C	T	75280027	2	4	5	1	0	0	0	0	0	0	0	1	14119	874	31	1		1	SERPINH1	11	75280027	Silent	SNP	C	TCGA-A3-3319-01A-01D-0966-08	7086460	75280027	59726489	44	325											
ERC1	23085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	1299182	1299182	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggaggtggaaaatgagaAgaatgacaaagataagaaga	22	4	14	1	0	0	6	0	2	0	5	0	10	0	8	0	3	0	0	0	3	8	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	1299182	A	G	1299182	3	3	5	1	0	0	0	0	1	0	0	0	5210	72	3	3	2357	3	ERC1	12	1299182	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08		1299182	132552713	45	326											
C1S	716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7174353	7174353	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tattctccagggacgtgttgGtgcaacatctttctattcga	8	15	9	9	2	3	0	0	0	3	0	5	2	3	1	1	2	2	2	1	2	3	6	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	7174353	G	A	7174353	3	1	5	1	0	0	0	0	1	0	0	0	1974	1261	44	2	1028	2	C1S	12	7174353	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	5875171	7174353	126677542	46	327											
SLCO1B3	28234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21036504	21036504	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctttgttctctgcaacAggaggtaccacatttatctt	10	15	6	10	0	3	0	0	0	3	0	4	1	3	1	1	2	4	3	1	2	4	6	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	21036504	A	G	21036504	2	3	5	1	0	0	0	0	0	0	0	1	14726	175	7	3		3	SLCO1B3	12	21036504	Silent	SNP	A	TCGA-A3-3319-01A-01D-0966-08	13862151	21036504	112815391	47	328											
C12orf35	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32137779	32137779	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcacaaaagaaaaaaatTgaggtttcacgaggtaacct	20	8	7	6	1	2	2	2	1	0	1	2	3	2	2	1	2	1	2	1	2	7	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	32137779	T	G	32137779	3	3	5	1	0	0	0	0	1	0	0	0	1682	1821	63	5	3892	5	C12orf35	12	32137779	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	11101275	32137779	101714116	48	329											
USP15	9958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	62749239	62749239	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgggaaatacgtgtttcAtgaactcagctattcaggta	12	13	9	7	1	3	1	3	1	0	0	3	2	3	2	0	2	3	3	0	2	5	6	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	62749239	A	C	62749239	3	2	5	1	0	0	0	0	1	0	0	0	17045	217	8	5	837	5	USP15	12	62749239	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	30611460	62749239	71102656	49	330											
SLC15A4	121260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	129285429	129285430	+	Frame_Shift_Ins	INS	-	-	A																															gcaaagatctcgctgatcccINSaatcagcaagtactgcggca																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	129285430	-	A	129285429	7	5	5	1	0	1	1	0	0	0	0	0	14403	594	21	0	361	0	SLC15A4	12	129285429	Frame_Shift_Ins	INS	-	TCGA-A3-3319-01A-01D-0966-08	66536190	129285429	4566466	50	331											
B3GALTL	145173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	31903770	31903770	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacgaagacaaagccaggCaggagacacagaaaggtttt	16	5	13	7	1	0	4	0	1	0	3	0	6	0	4	1	3	1	2	1	3	3	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	31903770	C	A	31903770	3	1	5	1	0	0	0	0	1	0	0	0	1252	711	25	4	1520	4	B3GALTL	13	31903770	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		31903770	83266108	51	332											
ATP7B	540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	52518307	52518307	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgctggcctccgcagtccCcaccacagccagaaccttcc	8	6	7	20	1	0	1	0	0	0	1	3	1	3	1	8	1	3	2	8	1	1	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	52518307	C	T	52518307	3	4	5	1	0	0	0	0	1	0	0	0	1191	623	22	2	1248	2	ATP7B	13	52518307	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	20614537	52518307	62651571	52	333											
KLF12	11278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	74420129	74420129	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taaattcatgggacttgaagGcggtacgggatggataatgt	12	11	14	4	2	1	1	1	1	0	0	1	4	1	4	0	5	1	1	0	5	5	5	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	74420129	G	T	74420129	3	4	5	1	0	0	0	0	1	0	0	0	8340	1203	42	4	723	4	KLF12	13	74420129	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	21901822	74420129	40749749	53	334											
DIO2	1734	broad.mit.edu	37	chr14	80669073	80669073	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcatctcttgctgaaatTcttctccagccaatgccgga	8	14	6	13	1	4	1	1	1	3	0	6	2	4	2	3	1	3	1	3	1	2	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	80669073	A	A	80669073	3	1	5	1	0	0	0	0	1	0	0	0	4525	1783	62	5	44	5	DIO2	14	80669073	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08		80669073	26680467	54	335											
MEX3B	84206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	82336581	82336581	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgatccacgttctctggCatgccggtcacctcgaacac	7	8	10	16	5	2	0	1	0	1	0	5	2	3	0	3	2	2	2	3	2	1	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	82336581	C	A	82336581	3	1	5	1	0	0	0	0	1	0	0	0	9510	710	25	4	1083	4	MEX3B	15	82336581	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		82336581	20194811	55	336											
SLC5A11	115584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24869990	24869990	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggcaccagcagccctcAgcctccacagttagatcccc	9	5	9	18	1	1	1	1	0	0	1	3	2	3	1	6	1	4	3	6	1	1	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	24869990	A	G	24869990	3	3	5	1	0	0	0	0	1	0	0	0	14665	188	7	3	28	3	SLC5A11	16	24869990	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08		24869990	65484763	56	337											
CDH11	1009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	65038653	65038653	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctgcccctccttgcccttCtcatggtgcccatggaagga	6	10	9	16	0	1	0	1	0	1	0	3	2	2	2	6	3	3	0	6	3	1	2	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	65038653	C	T	65038653	2	4	5	1	0	0	0	0	0	0	0	1	3097	912	32	2		2	CDH11	16	65038653	Silent	SNP	C	TCGA-A3-3319-01A-01D-0966-08	40168663	65038653	25316100	57	338											
TUBB3	10381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	90001521	90001521	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaagctggccacgcccaCctacggggacctcaaccacc	9	4	8	20	2	2	0	2	0	0	0	2	1	2	1	7	3	3	1	7	3	3	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	90001521	C	T	90001521	3	4	5	1	0	0	0	0	1	0	0	0	16756	507	18	2	676	2	TUBB3	16	90001521	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	24962868	90001521	353232	58	339											
MYO15A	51168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18062259	18062259	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggatggcctcaggctgaaatCcaaggagcctcgggagtcca	10	6	14	11	1	1	1	1	1	0	0	4	4	3	4	4	5	1	1	4	5	2	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	18062259	C	T	18062259	3	4	5	1	0	0	0	0	1	0	0	0	10063	855	30	2	9306	2	MYO15A	17	18062259	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		18062259	63132951	59	340											
ATAD5	79915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29161396	29161396	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcaacaaagactgtacGacacctttggaaatgttctc	14	9	8	10	1	1	1	0	0	1	1	2	4	1	2	1	1	3	3	1	1	4	3	rs114289357	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	29161396	G	T	29161396	2	4	5	1	0	0	0	0	0	0	0	1	1076	1045	37	4		4	ATAD5	17	29161396	Silent	SNP	G	TCGA-A3-3319-01A-01D-0966-08	11099137	29161396	52033814	60	341											
SYNRG	11276	hgsc.bcm.edu;ucsc.edu	37	chr17	35880695	35880695	+	Frame_Shift_Del	DEL	A	A	-																															ccacaggcaagctcctgagcAtttttaatcccaggccgtaa																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	35880695	A	-	35880695	7	5	5	1	0	1	0	1	0	0	0	0	15459	214	8	0	233	0	SYNRG	17	35880695	Frame_Shift_Del	DEL	A	TCGA-A3-3319-01A-01D-0966-08	6719299	35880695	45314515	61	342											
THRA	7067	hgsc.bcm.edu	37	chr17	38245611	38245612	+	Frame_Shift_Ins	INS	-	-	C																															tgacctccgcatgatcggggINScctgccacgccagccgcttc																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	38245612	-	C	38245611	7	5	5	1	0	1	1	0	0	0	0	0	15872	1203	42	0	1165	0	THRA	17	38245611	Frame_Shift_Ins	INS	-	TCGA-A3-3319-01A-01D-0966-08	2364916	38245611	42949599	62	343											
SGCA	6442	hgsc.bcm.edu;ucsc.edu	37	chr17	48243426	48243427	+	Frame_Shift_Ins	INS	-	-	AA																															tgagacactcttctggactcINSctctcctcgtgggcaagttg																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		AA	48243427	-	AA	48243426	7	5	5	1	0	1	1	0	0	0	0	0	14201	855	30	0	27	0	SGCA	17	48243426	Frame_Shift_Ins	INS	-	TCGA-A3-3319-01A-01D-0966-08	9997815	48243426	32951784	63	344											
GPRC5C	55890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72443073	72443073	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactcgaccctgcgggctgAagacatgtactcggcccaga	10	6	11	14	3	0	3	0	1	0	2	2	4	0	3	2	2	3	2	2	2	3	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	72443073	A	G	72443073	3	3	5	1	0	0	0	0	1	0	0	0	6726	246	9	3	1389	3	GPRC5C	17	72443073	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	24199647	72443073	8752137	64	345											
MPND	84954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4352949	4352949	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggaagaggaggaggaggAcgttctggcaggggtctcag	10	6	20	5	1	2	1	1	0	2	1	3	7	2	6	0	8	0	2	0	8	1	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	4352949	A	G	4352949	3	3	5	1	0	0	0	0	1	0	0	0	9731	275	10	3	601	3	MPND	19	4352949	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08		4352949	54776034	65	346											
SMARCA4	6597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11144110	11144110	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaccagaaggtgatccagGccggcatgttcgaccagaag	11	6	14	10	2	0	3	0	1	0	2	2	5	1	4	4	4	0	2	4	4	2	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	11144110	G	A	11144110	3	1	5	1	0	0	0	0	1	0	0	0	14772	1203	42	2	3789	2	SMARCA4	19	11144110	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	6791161	11144110	47984873	66	347											
MAP1S	55201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17838790	17838790	+	Missense_Mutation	SNP	T	T	C																															cagccgcacccggaagccccTggcccgccccaactcacgcg																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	17838790	T	C	17838790	3	2	5	1	0	0	0	0	1	0	0	0	9234	1580	55	3	2615	3	MAP1S	19	17838790	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	6694680	17838790	41290193	67	348	5	2									
MAP1S	55201	broad.mit.edu;hgsc.bcm.edu	37	chr19	17838796	17838796	+	Missense_Mutation	SNP	G	G	C																															cacccggaagcccctggcccGccccaactcacgcgctgccg																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	17838796	G	C	17838796	3	2	5	1	0	0	0	0	1	0	0	0	9234	1087	38	4	2621	4	MAP1S	19	17838796	Missense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	6	17838796	41290187	68	349	5	2									
KIAA0355	9710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	34791500	34791500	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagctgggccgagcacTgagtgctcccctggcatcca	6	7	13	15	1	0	2	0	2	0	0	2	3	2	2	5	2	3	4	5	2	0	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	34791500	T	C	34791500	3	2	5	1	0	0	0	0	1	0	0	0	8170	1580	55	3	124	3	KIAA0355	19	34791500	Missense_Mutation	SNP	T	TCGA-A3-3319-01A-01D-0966-08	16952704	34791500	24337483	69	350											
KLK6	5653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51466690	51466690	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaacagcatgatgtcctGgtcatggctggcggcatcat	8	9	13	11	2	2	1	2	1	0	0	3	1	3	1	1	4	2	4	1	4	1	0	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	51466690	G	A	51466690	4	1	5	1	0	0	0	0	0	1	0	0	8408	1357	47	2	433	2	KLK6	19	51466690	Nonsense_Mutation	SNP	G	TCGA-A3-3319-01A-01D-0966-08	16675190	51466690	7662293	70	351											
ZNF175	7728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52084648	52084648	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtacactgttacaggcatCagtgtcatttgaggacgtga	10	11	13	7	1	2	2	2	2	0	0	2	3	2	3	0	3	2	3	0	3	2	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	52084648	C	T	52084648	3	4	5	1	0	0	0	0	1	0	0	0	17744	838	29	2	83	2	ZNF175	19	52084648	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	617958	52084648	7044335	71	352											
PREX1	57580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47266546	47266546	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaggtaccttgctccgggtCaaggccgatgagggagggtt	8	8	16	9	2	1	1	1	1	0	0	2	3	2	2	3	5	2	3	3	5	2	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		G	47266546	C	G	47266546	3	3	5	1	0	0	0	0	1	0	0	0	12478	826	29	4	2031	4	PREX1	20	47266546	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		47266546	15758974	72	353											
MOCS3	27304	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	49576416	49576416	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactataagcgactgctggAttctggggcattccacctgt	8	11	11	11	2	1	0	0	0	1	0	2	3	2	1	2	3	2	2	2	3	2	4	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	49576416	A	T	49576416	3	4	5	1	0	0	0	0	1	0	0	0	9692	333	12	5	1039	5	MOCS3	20	49576416	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	2309870	49576416	13449104	73	354											
TTC3	7267	broad.mit.edu	37	chr21	38460511	38460517	+	Frame_Shift_Del	DEL	GTATATG	-	-																															ttaagaatttgacatctgcaGtatatggtgtagtaaaccaa																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	GTATATG	GTATATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	38460517	-	-	38460511	7	5	5	1	0	1	0	1	0	0	0	0	16696	1029	36	0	213	0	TTC3	21	38460511	Frame_Shift_Del	DEL	GTATATG	TCGA-A3-3319-01A-01D-0966-08		38460511	9669384	74	355											
MICAL3	57553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	18368682	18368682	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgtgcgggcgcattctCttcaaatttggccagcagct	7	11	12	11	2	2	0	1	0	1	0	3	1	2	1	1	3	3	3	1	3	1	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	18368682	C	A	18368682	4	1	5	1	0	0	0	0	0	1	0	0	9571	922	32	4	4610	4	MICAL3	22	18368682	Nonsense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08		18368682	32935884	75	356											
LARGE	9215	broad.mit.edu;hgsc.bcm.edu	37	chr22	33700423	33700423	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaactgctgggcctcggCgtctgacaggtagagggcca	8	6	17	10	2	1	2	0	1	1	1	2	4	1	3	2	5	2	2	2	5	2	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		T	33700423	C	T	33700423	3	4	5	1	0	0	0	0	1	0	0	0	8627	768	27	1	764	1	LARGE	22	33700423	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	15331741	33700423	17604143	76	357											
MEI1	150365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42172238	42172238	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgatcctgcagcgtCtgctagtggagcatggggca	6	10	14	11	1	1	1	0	1	1	0	3	2	3	2	2	3	5	5	2	3	1	1	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		A	42172238	C	A	42172238	3	1	5	1	0	0	0	0	1	0	0	0	9465	912	32	4	2759	4	MEI1	22	42172238	Missense_Mutation	SNP	C	TCGA-A3-3319-01A-01D-0966-08	8471815	42172238	9132328	77	358											
SMC1B	27127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45745648	45745648	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagggctgcatccacttcAtctaaaacaaagaatggggc	13	9	9	10	0	3	1	1	0	2	1	4	1	4	1	1	3	2	2	1	3	5	3	novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		C	45745648	A	C	45745648	3	2	5	1	0	0	0	0	1	0	0	0	14784	214	8	5	263	5	SMC1B	22	45745648	Missense_Mutation	SNP	A	TCGA-A3-3319-01A-01D-0966-08	3573410	45745648	5558918	78	359											
KLHL4	56062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	86890606	86890606	+	Frame_Shift_Del	DEL	T	T	-																															atggaagttcctgcctcaaaTcaatggaatactttgaccca																								novel		TCGA-A3-3319-01A-01D-0966-08	TCGA-A3-3319-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a771a7ad-8dfa-46ee-849d-4478798c46a6	3cf11e36-4249-4b4d-9def-42e9ec38e274		-	86890606	T	-	86890606	7	5	5	1	0	1	0	1	0	0	0	0	8391	1435	50	0	1790	0	KLHL4	23	86890606	Frame_Shift_Del	DEL	T	TCGA-A3-3319-01A-01D-0966-08		86890606	68379954	79	360											
HNRNPCL1	343069	broad.mit.edu;hgsc.bcm.edu	37	chr1	12907356	12907356	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caactccagctggtcatcccCctgatcttcattaacatcat	10	12	4	15	0	4	1	3	1	1	0	6	1	6	1	3	1	3	1	3	1	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	12907356	C	T	12907356	3	4	6	1	0	0	0	0	1	0	0	0	7263	623	22	2	96	2	HNRNPCL1	1	12907356	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08		12907356	236343265	1	361											
TMCO4	255104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20009748	20009748	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgtctccggatatgggacCctgggtttgcccaacctggt	5	11	14	11	1	1	0	0	0	1	0	2	2	1	2	4	5	2	1	4	5	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	20009748	C	G	20009748	3	3	6	1	0	0	0	0	1	0	0	0	15997	623	22	4	218	4	TMCO4	1	20009748	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	7102392	20009748	229240873	2	362											
ARID1A	8289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27099852	27099852	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagctccagggagtgatcCcttcatgtcctcagggcagg	7	9	12	13	0	3	1	3	1	0	0	6	2	6	2	3	3	1	2	3	3	0	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	27099852	C	A	27099852	3	1	6	1	0	0	0	0	1	0	0	0	913	623	22	4	3789	4	ARID1A	1	27099852	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	7090104	27099852	222150769	3	363											
TXLNA	200081	hgsc.bcm.edu;ucsc.edu	37	chr1	32660776	32660776	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccagactgggcctcaagagCccacctccgccagggcctag	8	4	12	17	1	1	2	1	0	0	2	2	2	2	2	7	2	1	0	7	2	2	1	rs77692511	bycluster;byfrequency;by1000genomes	TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	32660776	C	T	32660776	3	4	6	1	0	0	0	0	1	0	0	0	16786	739	26	2	1659	2	TXLNA	1	32660776	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	5560924	32660776	216589845	4	364											
IPO13	9670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44425962	44425962	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttccagcttatccagaaGgtgctgagcaaatggttgaa	11	11	11	8	0	1	3	0	2	1	1	3	3	3	3	2	2	3	4	2	2	4	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	44425962	G	A	44425962	2	1	6	1	0	0	0	0	0	0	0	1	7794	991	35	2		2	IPO13	1	44425962	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	11765186	44425962	204824659	5	365											
TTC22	55001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55251692	55251692	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgcctgccagttgagttcTggatctcgtaggacatccag	8	11	11	11	2	2	1	0	1	2	0	4	3	3	3	3	2	2	3	3	2	2	4	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	55251692	T	C	55251692	2	2	6	1	0	0	0	0	0	0	0	1	16688	1567	55	3		3	TTC22	1	55251692	Silent	SNP	T	TCGA-A3-3320-01A-01D-0966-08	10825730	55251692	193998929	6	366											
C1orf168	199920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	57258476	57258476	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgaagtttcttaccccttCctaaggcaaagaataatcaa	14	12	5	10	0	2	2	1	1	1	1	3	2	3	2	3	1	1	2	3	1	7	6	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	57258476	C	A	57258476	4	1	6	1	0	0	0	0	0	1	0	0	2012	869	30	4	2252	4	C1orf168	1	57258476	Nonsense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	2006784	57258476	191992145	7	367											
WDR47	22911	broad.mit.edu;hgsc.bcm.edu	37	chr1	109554267	109554267	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcaaacagagcttactaTagtcatctttagaaggacag	17	9	8	7	0	2	2	1	0	1	2	2	3	2	3	0	1	4	2	0	1	7	5	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	109554267	T	C	109554267	3	2	6	1	0	0	0	0	1	0	0	0	17299	1406	49	3	2405	3	WDR47	1	109554267	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08	52295791	109554267	139696354	8	368											
FLG	2312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152279938	152279938	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccaattgctcgtagtgggatCcctgccttcctccactgctt	5	13	8	15	1	0	0	0	0	0	0	4	1	3	1	5	1	3	3	5	1	2	4	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	152279938	C	G	152279938	3	3	6	1	0	0	0	0	1	0	0	0	5922	855	30	4	4765	4	FLG	1	152279938	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	42725671	152279938	96970683	9	369											
PGLYRP3	114771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153274993	153274993	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgtgccagcggtgtggAtgatgatgacatatttggct	8	13	14	6	1	0	3	0	3	0	0	0	4	0	4	1	3	3	2	1	3	1	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	153274993	A	G	153274993	3	3	6	1	0	0	0	0	1	0	0	0	11795	333	12	3	417	3	PGLYRP3	1	153274993	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	995055	153274993	95975628	10	370											
AFTPH	54812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	64779884	64779884	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgactttgtgacttgcaatGatatcaatgaagatgatttt	13	16	8	4	0	1	6	1	5	0	1	1	6	1	6	0	0	1	1	0	0	4	5	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	64779884	G	C	64779884	3	2	6	1	0	0	0	0	1	0	0	0	364	1290	45	4	1278	4	AFTPH	2	64779884	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08		64779884	178419489	11	371											
SLC9A4	389015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	103095413	103095413	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccacaaatcgcctccggtCatggactccagcatctactt	10	9	7	15	2	2	0	1	0	1	0	5	2	4	1	4	2	2	1	4	2	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	103095413	C	A	103095413	2	1	6	1	0	0	0	0	0	0	0	1	14718	813	29	4		4	SLC9A4	2	103095413	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08	38315529	103095413	140103960	12	372											
NFE2L2	4780	broad.mit.edu;hgsc.bcm.edu	37	chr2	178097099	178097099	+	Intron	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atataaaaaaaatctccagtAttacattctattttagttac	17	16	2	6	0	2	0	0	0	2	0	3	0	2	0	1	0	2	2	1	0	10	9	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	178097099	A	G	178097099	1	3	6	0	1	0	0	0	0	0	0	0	10368	464	16	3		3	NFE2L2	2	178097099	Intron	SNP	A	TCGA-A3-3320-01A-01D-0966-08	75001686	178097099	65102274	13	373											
PDE11A	50940	hgsc.bcm.edu	37	chr2	178576587	178576587	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatttccacctcggtcagaAtgtcttgaaacccagcagtc	12	10	7	12	1	2	2	1	1	1	1	5	2	3	2	3	1	2	1	3	1	3	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	178576587	A	T	178576587	3	4	6	1	0	0	0	0	1	0	0	0	11631	101	4	5	770	5	PDE11A	2	178576587	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	479488	178576587	64622786	14	374											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179582323	179582323	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaattatactgccctatGtggctctggtcagtttgtaa	9	14	10	8	0	2	0	1	0	1	0	2	1	2	0	1	2	3	4	1	2	5	5	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	179582323	G	A	179582323	2	1	6	1	0	0	0	0	0	0	0	1	16734	1368	48	2		2	TTN	2	179582323	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	1005736	179582323	63617050	15	375											
COL5A2	1290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	189914113	189914113	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggaccattggagcctgggGgccccacaggtccaggtgga	8	5	16	12	0	0	0	0	0	0	0	1	3	1	3	5	7	1	0	5	7	0	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	189914113	G	A	189914113	3	1	6	1	0	0	0	0	1	0	0	0	3697	1232	43	2	1436	2	COL5A2	2	189914113	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	10331790	189914113	53285260	16	376											
C3orf32	0	hgsc.bcm.edu	37	chr3	8675505	8675506	+	Frame_Shift_Ins	INS	-	-	G																															aggggaccgaacagagaggcINSgggggcttctgggaagggcc																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	8675506	-	G	8675505	7	5	6	1	0	1	1	0	0	0	0	0	2222	755	27	0	977	0	C3orf32	3	8675505	Frame_Shift_Ins	INS	-	TCGA-A3-3320-01A-01D-0966-08		8675505	189346925	17	377											
DLEC1	9940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38163910	38163910	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccagccctgaggctccGccccagccctcagccccagg	6	4	9	22	1	2	1	2	1	0	0	3	1	3	1	8	2	3	1	8	2	0	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	38163910	G	A	38163910	2	1	6	1	0	0	0	0	0	0	0	1	4552	1074	38	1		1	DLEC1	3	38163910	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	29488405	38163910	159858520	18	378											
PBRM1	55193	broad.mit.edu	37	chr3	52649373	52649373	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggctgccttactcagctTgagtttgggagaagccatgt	8	12	13	8	0	1	3	1	2	0	1	1	4	1	3	2	2	4	3	2	2	2	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	52649373	A	A	52649373	4	1	6	1	0	0	0	0	0	1	0	0	11491	1821	63	5	3046	5	PBRM1	3	52649373	Nonsense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08	14485463	52649373	145373057	19	379											
ILDR1	286676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121724198	121724198	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctggttgtcgttgcagTcattggatgggtcctggccc	3	12	14	12	2	1	0	1	0	0	0	3	1	2	1	3	4	1	4	3	4	0	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	121724198	T	A	121724198	3	1	6	1	0	0	0	0	1	0	0	0	7709	1667	58	5	1256	5	ILDR1	3	121724198	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08	69074825	121724198	76298232	20	380											
CNBP	7555	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128890023	128890023	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgcagtcacgagccagatgGcctggtttgccacagttgta	8	10	12	11	2	1	1	1	0	0	1	2	2	1	1	3	2	2	4	3	2	1	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	128890023	G	A	128890023	2	1	6	1	0	0	0	0	0	0	0	1	3592	1190	42	2		2	CNBP	3	128890023	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	7165825	128890023	69132407	21	381											
ATR	545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142168328	142168328	+	Frame_Shift_Del	DEL	T	T	-																															agtaagttttcatcagtagcTtcctgtataaggtaatgcac																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		-	142168328	T	-	142168328	7	5	6	1	0	1	0	1	0	0	0	0	1204	1606	56	0	60	0	ATR	3	142168328	Frame_Shift_Del	DEL	T	TCGA-A3-3320-01A-01D-0966-08	13278305	142168328	55854102	22	382											
P2RY13	53829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151045862	151045862	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcccttgcatacatggtaGcttttctgtgaattttttac	7	19	6	9	0	2	1	0	1	2	0	3	1	2	1	1	1	4	3	1	1	4	8	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	151045862	G	T	151045862	3	4	6	1	0	0	0	0	1	0	0	0	11350	962	34	4	86	4	P2RY13	3	151045862	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	8877534	151045862	46976568	23	383											
SLC33A1	9197	broad.mit.edu;hgsc.bcm.edu	37	chr3	155546088	155546088	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaccaccaaccaaatcCaatgaaaacacaaataatgg	23	4	4	10	0	0	2	0	1	0	1	1	2	1	2	4	1	3	0	4	1	9	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	155546088	C	A	155546088	4	1	6	1	0	0	0	0	0	1	0	0	14568	603	21	4	92	4	SLC33A1	3	155546088	Nonsense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	4500226	155546088	42476342	24	384											
EIF4E	1977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99823113	99823113	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttctgtagtcgggggAttaggagtaggggtggtttc	5	14	16	6	1	2	0	0	0	2	0	5	2	3	2	1	6	0	3	1	6	3	5	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	99823113	A	T	99823113	3	4	6	1	0	0	0	0	1	0	0	0	5028	330	12	5	735	5	EIF4E	4	99823113	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08		99823113	91331163	25	385											
MAST4	375449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66462356	66462356	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgggcagagttctttccGatccacggccctcccggaaa	8	8	10	15	3	1	1	0	0	1	1	4	3	4	2	4	3	0	2	4	3	1	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	66462356	G	A	66462356	3	1	6	1	0	0	0	0	1	0	0	0	9327	1058	37	1	7593	1	MAST4	5	66462356	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08		66462356	114452904	26	386											
C5orf13	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	111071196	111071196	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acccagacaaagagttctggGtaataaacctatagagacac	17	7	8	9	0	1	3	0	0	1	3	1	4	1	3	2	1	1	2	2	1	6	5	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	111071196	G	T	111071196	4	4	6	1	0	0	0	0	0	1	0	0	2282	1256	44	4	202	4	C5orf13	5	111071196	Nonsense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	44608840	111071196	69844064	27	387											
BAT4	0	broad.mit.edu;ucsc.edu	37	chr6	31632107	31632107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaggagcgctgctctcaTccccaatcagggcctcatag	9	8	10	14	1	4	0	4	0	1	0	6	1	5	1	3	2	2	2	3	2	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	31632107	C	C	31632107	3	2	6	1	0	0	0	0	1	0	0	0	1323	1435	50	3	929	3	BAT4	6	31632107	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08		31632107	139482960	28	388											
UHRF1BP1	54887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	34789455	34789455	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagaatctttccccagacAaaatcaacctgagcaccctg	14	8	5	14	0	2	3	1	1	1	2	3	3	3	3	4	0	2	1	4	0	5	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	34789455	A	T	34789455	4	4	6	1	0	0	0	0	0	1	0	0	16967	131	5	5	76	5	UHRF1BP1	6	34789455	Nonsense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	3157348	34789455	136325612	29	389											
XPO5	57510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43515440	43515440	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagcatcaacatctgacaGcactctgaaggttggagggg	13	7	13	8	0	3	2	1	2	2	0	3	4	3	3	0	4	3	3	0	4	3	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	43515440	G	A	43515440	2	1	6	1	0	0	0	0	0	0	0	1	17446	962	34	2		2	XPO5	6	43515440	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	8725985	43515440	127599627	30	390											
SIM1	6492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	100841464	100841464	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggctgcgcgagagcccCaccagggctccctcccggcc	6	3	13	19	3	0	1	0	0	0	1	2	2	2	1	6	3	2	3	6	3	1	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	100841464	C	A	100841464	3	1	6	1	0	0	0	0	1	0	0	0	14325	595	21	4	839	4	SIM1	6	100841464	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	57326024	100841464	70273603	31	391											
SLC13A4	26266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135370277	135370277	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcattactcaccaggctgCacaggatgggcaggaagatg	11	6	13	11	1	1	1	1	0	0	1	1	3	1	3	2	4	2	4	2	4	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	135370277	C	T	135370277	3	4	6	1	0	0	0	0	1	0	0	0	14396	710	25	2	294	2	SLC13A4	7	135370277	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08		135370277	23768386	32	392											
PTK2	5747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141727751	141727751	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggacactgtggcctgtctTctggactccatcctcatgcg	6	11	10	14	1	3	0	1	0	2	0	5	2	5	2	3	3	1	0	3	3	0	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	141727751	T	A	141727751	3	1	6	1	0	0	0	0	1	0	0	0	12764	1780	62	5	1110	5	PTK2	8	141727751	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08		141727751	4636271	33	393											
CPSF1	29894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145623927	145623927	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctcaccatggtggagtcTtcccggctcagaatcaggaa	9	8	10	14	1	4	1	3	0	1	1	5	3	5	3	4	4	0	1	4	4	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	145623927	T	A	145623927	3	1	6	1	0	0	0	0	1	0	0	0	3824	1606	56	5	2675	5	CPSF1	8	145623927	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08	3896176	145623927	740095	34	394											
KIAA0368	23392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114134741	114134741	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccacacttcggtccatAaattacattcttctttttcg	8	16	4	13	2	2	0	0	0	2	0	5	0	3	0	3	1	2	0	3	1	3	7	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	114134741	A	T	114134741	4	4	6	1	0	0	0	0	0	1	0	0	8171	372	13	5	1059	5	KIAA0368	9	114134741	Nonsense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08		114134741	27078690	35	395											
LHX2	9355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	126783560	126783560	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagctcgcgcaaaagacgGgcctcaccaagcgggtcctc	10	4	12	15	4	1	1	1	0	0	1	4	1	2	1	3	2	3	3	3	2	3	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	126783560	G	T	126783560	3	4	6	1	0	0	0	0	1	0	0	0	8771	1232	43	4	924	4	LHX2	9	126783560	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	12648819	126783560	14429871	36	396											
SEC16A	9919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139369264	139369264	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttctggaaccaagttcTctggaactggctgggatggt	8	12	13	8	0	2	0	0	0	2	0	3	4	2	3	1	5	2	2	1	5	3	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	139369264	T	C	139369264	3	2	6	1	0	0	0	0	1	0	0	0	13988	1551	54	3	4389	3	SEC16A	9	139369264	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08	12585704	139369264	1844167	37	397											
PTGDS	5730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139873535	139873535	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtccatgtgcaagtctgtgGtggcccctgccacggatggt	5	11	14	11	1	1	0	0	0	1	0	2	1	2	1	4	4	2	1	4	4	1	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	139873535	G	A	139873535	3	1	6	1	0	0	0	0	1	0	0	0	12744	1261	44	2	211	2	PTGDS	9	139873535	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	504271	139873535	1339896	38	398											
FAM166A	401565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140139965	140139965	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgggcgtccacctccaaggGtgggagctggcccagaatct	7	7	14	13	1	1	1	0	0	1	1	3	2	3	2	4	4	1	1	4	4	2	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	140139965	G	A	140139965	3	1	6	1	0	0	0	0	1	0	0	0	5481	1261	44	2	657	2	FAM166A	9	140139965	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	266430	140139965	1073466	39	399											
SYT15	83849	hgsc.bcm.edu;ucsc.edu	37	chr10	46967610	46967611	+	Frame_Shift_Ins	INS	-	-	C																															ctcagcctcctgctcatattINSccaccgagaaccacagccgc																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	46967611	-	C	46967610	7	5	6	1	0	1	1	0	0	0	0	0	15470	1783	62	0	872	0	SYT15	10	46967610	Frame_Shift_Ins	INS	-	TCGA-A3-3320-01A-01D-0966-08		46967610	88567137	40	400											
OIT3	170392	hgsc.bcm.edu	37	chr10	74684103	74684103	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgatcccggtgacctgCgagtttccacgcctgtacac	6	10	10	15	3	0	2	0	2	0	0	2	3	2	2	4	1	3	3	4	1	1	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	74684103	C	A	74684103	4	1	6	1	0	0	0	0	0	1	0	0	10849	776	27	4	1094	4	OIT3	10	74684103	Nonsense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	27716493	74684103	60850644	41	401											
PCGF5	84333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93011143	93011144	+	Frame_Shift_Del	DEL	TA	TA	-																															agaagtgacccacaaattgcTatctgtctagattgtttacg																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		-	93011144	TA	-	93011143	7	5	6	1	0	1	0	1	0	0	0	0	11577	1509	53	0	438	0	PCGF5	10	93011143	Frame_Shift_Del	DEL	TA	TCGA-A3-3320-01A-01D-0966-08	18327040	93011143	42523604	42	402											
MYOF	26509	broad.mit.edu;hgsc.bcm.edu	37	chr10	95093560	95093560	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctctaagcctcgaacaatGtaaatcctaaccgtgcattc	13	10	6	12	2	1	0	0	0	1	0	4	1	2	0	3	0	5	3	3	0	6	4	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	95093560	G	A	95093560	2	1	6	1	0	0	0	0	0	0	0	1	10089	1372	48	2		2	MYOF	10	95093560	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	2082417	95093560	40441187	43	403											
PGAM1	5223	broad.mit.edu	37	chr10	99186086	99186086	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccgcctacaaactggtgCtgatccggcacggcgagagc	8	6	14	13	4	0	2	0	1	0	1	1	3	1	2	3	4	4	2	3	4	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	99186086	G	G	99186086	3	3	6	1	0	0	0	0	1	0	0	0	11773	796	28	4	24	4	PGAM1	10	99186086	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	4092526	99186086	36348661	44	404											
OR52N2	390077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5841740	5841740	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatgaggaggccctgcacCggcccatgtactacttcctg	7	8	11	15	1	0	1	0	1	0	0	1	2	1	2	5	3	3	2	5	3	2	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	5841740	C	A	5841740	2	1	6	1	0	0	0	0	0	0	0	1	11128	643	23	4		4	OR52N2	11	5841740	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08		5841740	129164776	45	405											
NR1H3	10062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47289515	47289515	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagttctccagggccatgaAtgagctgcaactcaatgatg	11	9	11	10	1	2	3	1	3	1	0	3	4	2	3	2	1	3	3	2	1	3	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	47289515	A	C	47289515	3	2	6	1	0	0	0	0	1	0	0	0	10618	101	4	5	1066	5	NR1H3	11	47289515	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	41447775	47289515	87717001	46	406											
TNKS1BP1	85456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57077336	57077336	+	Frame_Shift_Del	DEL	T	T	-																															aagcgctcttcccaaactccTgttcctgtggctccgcagcc																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		-	57077336	T	-	57077336	7	5	6	1	0	1	0	1	0	0	0	0	16319	1580	55	0	2364	0	TNKS1BP1	11	57077336	Frame_Shift_Del	DEL	T	TCGA-A3-3320-01A-01D-0966-08	9787821	57077336	77929180	47	407											
TMEM132A	54972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60701064	60701064	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcaaggagagccggggCgcccggggggtgcgagtgga	6	3	23	9	4	0	1	0	0	0	1	0	4	0	2	2	8	2	2	2	8	1	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	60701064	C	A	60701064	2	1	6	1	0	0	0	0	0	0	0	1	16044	755	27	4		4	TMEM132A	11	60701064	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08	3623728	60701064	74305452	48	408											
RCOR2	283248	broad.mit.edu;hgsc.bcm.edu	37	chr11	63679957	63679957	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acctgggtcagagtcttgttCccaatcacctctgcaatagc	9	11	8	13	0	4	1	2	0	2	1	5	1	5	1	3	1	2	2	3	1	3	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	63679957	C	T	63679957	2	4	6	1	0	0	0	0	0	0	0	1	13185	842	30	2		2	RCOR2	11	63679957	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08	2978893	63679957	71326559	49	409											
PPFIA1	8500	broad.mit.edu;ucsc.edu	37	chr11	70184559	70184559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggtgcttcacttcatcatgGgtatggtattaaccagtgag	10	13	11	7	0	3	1	3	1	0	0	3	1	3	1	1	3	2	3	1	3	3	5	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	70184559	A	A	70184559	3	1	6	1	0	0	0	0	1	0	0	0	12309	1246	43	2	1617	2	PPFIA1	11	70184559	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	6504602	70184559	64821957	50	410											
CEP164	22897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117280582	117280582	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctacacccacgtccaccCaatgggcctgggattcaggg	8	7	11	15	1	1	0	1	0	0	0	2	1	2	1	4	3	2	1	4	3	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	117280582	C	A	117280582	3	1	6	1	0	0	0	0	1	0	0	0	3249	595	21	4	4107	4	CEP164	11	117280582	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	47096023	117280582	17725934	51	411											
SORL1	6653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	121437700	121437700	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgctgtgcctgcccaaggCcaacaacagtagaagctgca	11	6	10	14	0	0	1	0	0	0	1	0	1	0	1	4	1	7	4	4	1	5	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	121437700	C	A	121437700	3	1	6	1	0	0	0	0	1	0	0	0	14936	739	26	4	3187	4	SORL1	11	121437700	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	4157118	121437700	13568816	52	412											
CHPT1	56994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	102107933	102107933	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagtcactggatgctatTgatgggaaacaagccagaag	14	8	11	8	0	1	2	1	1	0	1	1	4	1	4	2	2	4	1	2	2	5	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	102107933	T	A	102107933	2	1	6	1	0	0	0	0	0	0	0	1	3370	1800	63	5		5	CHPT1	12	102107933	Silent	SNP	T	TCGA-A3-3320-01A-01D-0966-08		102107933	31743962	53	413											
TPTE2	93492	broad.mit.edu;hgsc.bcm.edu	37	chr13	19999143	19999143	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaatggacaattgtcataGtatttaggaagattctaaaa	19	12	7	3	0	2	1	1	0	1	1	2	3	2	3	0	2	0	1	0	2	9	7	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	19999143	G	C	19999143	4	2	6	1	0	0	0	0	0	1	0	0	16430	1024	36	4	166	4	TPTE2	13	19999143	Nonsense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08		19999143	95170735	54	414											
C13orf39	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103343225	103343226	+	Frame_Shift_Ins	INS	-	-	A																															atgacaatctcctttcctgcINSaaaccgataatgctcctgag																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	103343226	-	A	103343225	7	5	6	1	0	1	1	0	0	0	0	0	1732	710	25	0	586	0	C13orf39	13	103343225	Frame_Shift_Ins	INS	-	TCGA-A3-3320-01A-01D-0966-08	83344082	103343225	11826653	55	415											
SLC7A8	23428	broad.mit.edu;hgsc.bcm.edu	37	chr14	23597394	23597394	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaagtagatgatggggaaCagcaggttgatctgtggagc	12	8	16	5	0	1	3	0	2	1	1	1	5	1	5	0	4	4	4	0	4	3	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	23597394	C	G	23597394	2	3	6	1	0	0	0	0	0	0	0	1	14706	465	17	4		4	SLC7A8	14	23597394	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08		23597394	83752146	56	416											
ADAM21	8747	broad.mit.edu;hgsc.bcm.edu	37	chr14	70925009	70925009	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaaatttggaatcaaggaAatgttttcccaatgacaagc	15	12	8	6	0	1	2	1	2	0	0	2	4	2	4	1	2	1	1	1	2	6	4	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	70925009	A	T	70925009	3	4	6	1	0	0	0	0	1	0	0	0	243	14	1	5	795	5	ADAM21	14	70925009	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	47327615	70925009	36424531	57	417											
FLRT2	23768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	86089641	86089641	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcgaggcaggcaccaagAaggacaactccatcctggag	13	5	12	11	1	0	1	0	0	0	1	2	4	2	3	3	4	2	2	3	4	3	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	86089641	A	T	86089641	4	4	6	1	0	0	0	0	0	1	0	0	5939	247	9	5	1785	5	FLRT2	14	86089641	Nonsense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	15164632	86089641	21259899	58	418											
FMN1	342184	broad.mit.edu	37	chr15	33358779	33358779	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacacagctcttagcgacTccttctcatgtctcatcttg	9	13	5	14	1	4	0	2	0	4	0	7	1	5	0	1	0	3	1	1	0	2	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	33358779	G	G	33358779	3	3	6	1	0	0	0	0	1	0	0	0	5949	1551	54	5	2351	5	FMN1	15	33358779	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08		33358779	69172613	59	419											
GCNT3	9245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59910566	59910566	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaccacttgggtctggaGtccagggaatctcaaagcca	10	9	11	11	0	3	1	1	1	3	0	5	3	4	3	3	3	1	0	3	3	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	59910566	G	A	59910566	2	1	6	1	0	0	0	0	0	0	0	1	6302	1020	36	2		2	GCNT3	15	59910566	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	26551787	59910566	42620826	60	420											
HERC1	8925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63915942	63915942	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctggcacatctctgtgatGgtgtcatcaaacactcctcc	9	11	7	14	0	3	1	2	1	1	0	6	1	5	1	3	2	1	1	3	2	1	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	63915942	G	T	63915942	2	4	6	1	0	0	0	0	0	0	0	1	7057	1335	47	4		4	HERC1	15	63915942	Silent	SNP	G	TCGA-A3-3320-01A-01D-0966-08	4005376	63915942	38615450	61	421											
SOLH	6650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	596909	596909	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccggccagcgccagtgctCcatctgcgaggctccccggc	4	5	14	18	4	1	0	0	0	1	0	3	1	3	0	6	4	3	2	6	4	0	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	596909	C	A	596909	3	1	6	1	0	0	0	0	1	0	0	0	14927	855	30	4	73	4	SOLH	16	596909	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08		596909	89757844	62	422											
WDR90	197335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	700616	700616	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgttctcctggtctacCtgaaccggtgctacggccat	7	10	11	13	3	2	1	0	1	2	0	3	2	2	2	4	4	4	2	4	4	3	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	700616	C	G	700616	3	3	6	1	0	0	0	0	1	0	0	0	17336	680	24	4	484	4	WDR90	16	700616	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	103707	700616	89654137	63	423											
PRMT7	54496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68386205	68386205	+	Frame_Shift_Del	DEL	A	A	-																															ccagcctgctgccgtggcacAacctctacttctggtacgtg																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		-	68386205	A	-	68386205	7	5	6	1	0	1	0	1	0	0	0	0	12543	130	5	0	1518	0	PRMT7	16	68386205	Frame_Shift_Del	DEL	A	TCGA-A3-3320-01A-01D-0966-08	67685589	68386205	21968548	64	424											
BCAR1	9564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	75276901	75276901	+	Nonsense_Mutation	SNP	C	C	A																															caggccctgcgtgtcctgctCcagcaccgtcatgatgtcac																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	75276901	C	A	75276901	4	1	6	1	0	0	0	0	0	1	0	0	1348	864	30	4	2597	4	BCAR1	16	75276901	Nonsense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	6890696	75276901	15077852	65	425	6	2									
BCAR1	9564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	75276902	75276902	+	Silent	SNP	C	C	A																															aggccctgcgtgtcctgctcCagcaccgtcatgatgtcacc																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	75276902	C	A	75276902	2	1	6	1	0	0	0	0	0	0	0	1	1348	581	21	4		4	BCAR1	16	75276902	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08	1	75276902	15077851	66	426	6	2									
SPIRE2	84501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89929985	89929985	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaaaagtttttgcagaaCaaggagctcttcagcagtct	13	11	10	7	0	3	1	1	0	2	1	3	3	3	3	0	2	4	4	0	2	4	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	89929985	C	A	89929985	3	1	6	1	0	0	0	0	1	0	0	0	15073	477	17	4	1719	4	SPIRE2	16	89929985	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	14653083	89929985	424768	67	427											
FAM18B2	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	15449215	15449215	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctctgacacagttttatTctcttgagaggactcctata	10	14	7	10	0	2	2	0	2	2	1	4	4	3	3	2	1	1	1	2	1	3	6	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	15449215	T	A	15449215	3	1	6	1	0	0	0	0	1	0	0	0	5520	1783	62	5	646	5	FAM18B2	17	15449215	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08		15449215	65745995	68	428											
TCAP	8557	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37821618	37821618	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgaggagtgatcatggcTacctcagagctgagctgcga	11	8	14	8	1	2	4	2	3	0	1	2	7	2	5	1	2	4	3	1	2	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	37821618	T	A	37821618	2	1	6	1	0	0	0	0	0	0	0	1	15665	1509	53	5		5	TCAP	17	37821618	Silent	SNP	T	TCGA-A3-3320-01A-01D-0966-08	22372403	37821618	43373592	69	429											
KIAA1267	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	44127972	44127981	+	Frame_Shift_Del	DEL	GTGAATTTCG	GTGAATTTCG	-																															tccaacagaggggcttcataGtgaatttcgggaggcatggt																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	GTGAATTTCG	GTGAATTTCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		-	44127981	GTGAATTTCG	-	44127972	7	5	6	1	0	1	0	1	0	0	0	0	8219	1020	36	0	1406	0	KIAA1267	17	44127972	Frame_Shift_Del	DEL	GTGAATTTCG	TCGA-A3-3320-01A-01D-0966-08	6306354	44127972	37067238	70	430											
CA10	56934	broad.mit.edu;hgsc.bcm.edu	37	chr17	49726541	49726541	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaaattgaaccaaacttActtttatatgttattcttgt	13	17	6	5	0	1	1	0	1	1	0	1	3	1	2	1	1	3	1	1	1	7	8	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	49726541	A	G	49726541	5	3	6	1	0	0	0	0	0	0	1	0	2511	405	14	3	366	3	CA10	17	49726541	Splice_Site	SNP	A	TCGA-A3-3320-01A-01D-0966-08	5598569	49726541	31468669	71	431											
KIF19	124602	broad.mit.edu	37	chr17	72343936	72343936	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gactctctgggaggaaacagCcgcacagtgatgatcgctca	11	7	12	11	2	2	2	1	2	1	0	4	5	2	4	1	2	2	2	1	2	1	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	72343936	T	T	72343936	2	4	6	1	0	0	0	0	0	0	0	1	8282	738	26	2		2	KIF19	17	72343936	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08	22617395	72343936	8851274	72	432											
ITGB4	3691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73745083	73745083	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccctaagtttggggcccaCctgggccagccccactccac	8	6	9	18	0	0	0	0	0	0	0	1	0	1	0	7	3	2	1	7	3	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	73745083	C	T	73745083	2	4	6	1	0	0	0	0	0	0	0	1	7897	506	18	2		2	ITGB4	17	73745083	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08	1401147	73745083	7450127	73	433											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76482488	76482488	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttcttgaacccaaagcGcaacttgtccaggcacgtgg	10	9	10	12	2	2	1	0	1	2	0	3	2	3	1	2	2	3	2	2	2	3	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	76482488	G	T	76482488	3	4	6	1	0	0	0	0	1	0	0	0	4601	1087	38	4	6617	4	DNAH17	17	76482488	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	2737405	76482488	4712722	74	434											
AATK	9625	broad.mit.edu;hgsc.bcm.edu	37	chr17	79098648	79098648	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcagtcacgaagtagtcctCctgttggcacagggacgggt	8	8	15	10	2	1	0	1	0	0	0	3	2	3	1	2	4	0	4	2	4	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	79098648	C	T	79098648	3	4	6	1	0	0	0	0	1	0	0	0	26	869	30	2	3307	2	AATK	17	79098648	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	2616160	79098648	2096562	75	435											
GRIN3B	116444	broad.mit.edu;ucsc.edu	37	chr19	1004979	1004979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggcggaggacacgcccttCgacttcgagctgtacctcgt	6	9	12	14	5	0	0	0	0	0	0	3	4	0	2	2	3	2	2	2	3	1	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	1004979	T	T	1004979	2	4	6	1	0	0	0	0	0	0	0	1	6784	883	31	1		1	GRIN3B	19	1004979	Silent	SNP	C	TCGA-A3-3320-01A-01D-0966-08		1004979	58124004	76	436											
P2RY11	5032	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10225224	10225224	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcggggcctcatgccccTggccttctgtgtccaccctc	3	10	11	17	1	2	0	1	0	1	0	4	1	3	0	6	3	2	0	6	3	0	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	10225224	T	C	10225224	3	2	6	1	0	0	0	0	1	0	0	0	11348	1580	55	3		3	P2RY11	19	10225224	Missense_Mutation	SNP	T	TCGA-A3-3320-01A-01D-0966-08	9220245	10225224	48903759	77	437											
RAB3D	9545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11436252	11436252	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggcactggcttcaaagAactcgaaacctggatgaatg	12	9	10	10	1	1	2	1	1	0	1	2	4	1	3	2	3	2	2	2	3	4	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	11436252	A	T	11436252	3	4	6	1	0	0	0	0	1	0	0	0	12936	246	9	5	181	5	RAB3D	19	11436252	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	1211028	11436252	47692731	78	438											
ZNF714	148206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	21300402	21300402	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcattctggagagaaatCttacaaatgtgaacaatgtg	16	12	8	5	0	3	2	1	1	2	1	3	4	3	3	0	1	2	0	0	1	6	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	21300402	C	A	21300402	3	1	6	1	0	0	0	0	1	0	0	0	18117	913	32	4	942	4	ZNF714	19	21300402	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	9864150	21300402	37828581	79	439											
NPAS1	4861	broad.mit.edu;ucsc.edu	37	chr19	47539306	47539306	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaactggggctgcggacgCcgacgcccggccccccaacc	7	2	13	19	5	0	0	0	0	0	0	0	2	0	1	6	4	4	2	6	4	2	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	47539306	A	A	47539306	3	1	6	1	0	0	0	0	1	0	0	0	10562	739	26	4	625	4	NPAS1	19	47539306	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	26238904	47539306	11589677	80	440											
ZNF749	388567	broad.mit.edu;hgsc.bcm.edu	37	chr19	57955937	57955937	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgacctcattcaacacaAgaggattgacattaggccaa	14	9	8	10	0	3	3	2	2	1	1	3	4	3	4	2	2	1	0	2	2	4	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	57955937	A	G	57955937	3	3	6	1	0	0	0	0	1	0	0	0	18130	72	3	3	1431	3	ZNF749	19	57955937	Missense_Mutation	SNP	A	TCGA-A3-3320-01A-01D-0966-08	10416631	57955937	1173046	81	441											
RSPO4	343637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	948634	948634	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccgcggatgccgaagtacCcagggggacagtcgtgcagg	8	4	18	11	4	0	0	0	0	0	0	1	3	0	2	3	5	3	2	3	5	2	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	948634	C	G	948634	3	3	6	1	0	0	0	0	1	0	0	0	13714	623	22	4	493	4	RSPO4	20	948634	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08		948634	62076886	82	442											
XKR7	343702	broad.mit.edu;hgsc.bcm.edu	37	chr20	30556225	30556225	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggcggcctcctactacCtgcagaatcaacacacctac	10	7	8	16	1	1	1	1	0	0	1	2	1	2	1	4	3	5	2	4	3	5	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	30556225	C	G	30556225	3	3	6	1	0	0	0	0	1	0	0	0	17435	680	24	4	249	4	XKR7	20	30556225	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	29607591	30556225	32469295	83	443											
RGS19	10287	hgsc.bcm.edu	37	chr20	62707927	62707928	+	Frame_Shift_Ins	INS	-	-	G																															aggcagcaggggttgcggctINSgggggccgctggagaggctg																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	62707928	-	G	62707927	7	5	6	1	0	1	1	0	0	0	0	0	13303	1580	55	0	566	0	RGS19	20	62707927	Frame_Shift_Ins	INS	-	TCGA-A3-3320-01A-01D-0966-08	32151702	62707927	317593	84	444											
ZDHHC8	29801	hgsc.bcm.edu	37	chr22	20130989	20130990	+	Frame_Shift_Ins	INS	-	-	G																															ccagagacgaccttgtggctINSgggcccggcttcggtggcgc																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		G	20130990	-	G	20130989	7	5	6	1	0	1	1	0	0	0	0	0	17620	1567	55	0	1874	0	ZDHHC8	22	20130989	Frame_Shift_Ins	INS	-	TCGA-A3-3320-01A-01D-0966-08		20130989	31173577	85	445											
TST	7263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37414210	37414210	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggctccggctcggtgcccagGaaccgcccttgagaccttga	6	7	13	15	3	0	2	0	2	0	1	2	4	1	3	5	4	2	2	5	4	1	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	37414210	G	C	37414210	3	2	6	1	0	0	0	0	1	0	0	0	16672	1165	41	4	337	4	TST	22	37414210	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	17283221	37414210	13890356	86	446											
POLR3H	171568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41926704	41926704	+	Frame_Shift_Del	DEL	G	G	-																															cactcaccacaagcgtgtacGgagcctccttctttggcagc																								novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		-	41926704	G	-	41926704	7	5	6	1	0	1	0	1	0	0	0	0	12236	1116	39	0	74	0	POLR3H	22	41926704	Frame_Shift_Del	DEL	G	TCGA-A3-3320-01A-01D-0966-08	4512494	41926704	9377862	87	447											
MEI1	150365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42180387	42180387	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaccaagtattgaaggcTctcagctttccaaagaaaaa	16	9	8	8	0	1	2	1	1	1	1	3	3	2	3	2	2	1	3	2	2	6	3	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		C	42180387	T	C	42180387	2	2	6	1	0	0	0	0	0	0	0	1	9465	1538	54	3		3	MEI1	22	42180387	Silent	SNP	T	TCGA-A3-3320-01A-01D-0966-08	253683	42180387	9124179	88	448											
OFD1	8481	broad.mit.edu	37	chrX	13776512	13776512	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttacaaagcttctgtaaaGagtttaactactcaggttgc	12	13	9	7	0	2	1	1	0	1	1	2	1	2	1	0	2	5	5	0	2	6	7	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	13776512	T	T	13776512	3	4	6	1	0	0	0	0	1	0	0	0	10838	933	33	4	1657	4	OFD1	23	13776512	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08		13776512	141494048	89	449											
MAGEB16	139604	broad.mit.edu	37	chrX	35821205	35821205	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtttgtggccaaagttCatgggtcttacccacattct	8	14	10	9	0	3	0	1	0	2	0	3	1	3	1	2	3	1	2	2	3	2	4	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	35821205	A	A	35821205	3	1	6	1	0	0	0	0	1	0	0	0	9174	826	29	4	894	4	MAGEB16	23	35821205	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	22044693	35821205	119449355	90	450											
ITIH5L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54785300	54785300	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactgggggtcgtcacgcCggccgtgggctccccatccg	4	6	14	17	5	1	0	1	0	0	0	4	0	3	0	5	4	0	1	5	4	0	0	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		T	54785300	C	T	54785300	3	4	6	1	0	0	0	0	1	0	0	0	7908	652	23	1	2758	1	ITIH5L	23	54785300	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	18964095	54785300	100485260	91	451											
PGK1	5230	broad.mit.edu;hgsc.bcm.edu	37	chrX	77380396	77380396	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactgtggtcctgaaagcaGcaagaagtatgctgaggctg	11	8	15	7	0	0	3	0	2	0	1	1	4	1	4	1	3	3	5	1	3	4	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	77380396	G	A	77380396	3	1	6	1	0	0	0	0	1	0	0	0	11790	971	34	2	996	2	PGK1	23	77380396	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	22595096	77380396	77890164	92	452											
ZCCHC5	203430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	77913051	77913051	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagtaagagctggaaccaCcatcctgccctacctgagaa	12	7	8	14	0	0	2	0	1	0	2	2	4	2	3	6	1	4	2	6	1	4	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	77913051	C	A	77913051	3	1	6	1	0	0	0	0	1	0	0	0	17590	508	18	4	564	4	ZCCHC5	23	77913051	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	532655	77913051	77357509	93	453											
SYTL4	94121	broad.mit.edu	37	chrX	99941139	99941139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgggccaggagagattctgGgatctcatactgtgaaggga	10	9	15	7	0	2	2	1	1	2	1	3	6	2	5	1	4	1	0	1	4	2	2	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	99941139	A	A	99941139	3	1	6	1	0	0	0	0	1	0	0	0	15484	1232	43	2	738	2	SYTL4	23	99941139	Missense_Mutation	SNP	G	TCGA-A3-3320-01A-01D-0966-08	22028088	99941139	55329421	94	454											
BCORL1	63035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129148444	129148444	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtgcttccaactccacagCctctgctgccagcccccagt	7	8	8	18	0	1	0	0	0	1	0	3	0	3	0	6	1	6	2	6	1	1	1	novel		TCGA-A3-3320-01A-01D-0966-08	TCGA-A3-3320-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c4cc718-d7b5-453c-89d8-186ab0869e68	94726a4b-14cf-4592-b63c-22a8f994631d		A	129148444	C	A	129148444	3	1	6	1	0	0	0	0	1	0	0	0	1387	739	26	4	1706	4	BCORL1	23	129148444	Missense_Mutation	SNP	C	TCGA-A3-3320-01A-01D-0966-08	29207305	129148444	26122116	95	455											
HMGN2	3151	broad.mit.edu	37	chr1	26801118	26801118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctgatgctggcaaggaggGgaataaccctgcagaaaatg	14	6	14	7	0	0	2	0	1	0	1	0	4	0	4	1	4	4	4	1	4	5	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	26801118	A	A	26801118	3	1	7	1	0	0	0	0	1	0	0	0	7235	1232	43	2	215	2	HMGN2	1	26801118	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08		26801118	222449503	1	456											
SGIP1	84251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67101650	67101650	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcccacacgaaccaccCtacaatagcaaagcagagtg	15	3	7	16	1	0	1	0	0	0	1	0	2	0	1	4	0	5	2	4	0	5	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	67101650	C	T	67101650	2	4	7	1	0	0	0	0	0	0	0	1	14208	668	24	2		2	SGIP1	1	67101650	Silent	SNP	C	TCGA-A3-3322-01A-01D-0966-08	40300532	67101650	182148971	2	457											
IL12RB2	3595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67861487	67861487	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caactggtggatctgtacaaGgtgctggagagcaggggctc	9	8	16	8	0	1	1	0	0	1	1	2	3	1	2	0	6	4	4	0	6	3	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	67861487	G	C	67861487	3	2	7	1	0	0	0	0	1	0	0	0	7627	991	35	4	2362	4	IL12RB2	1	67861487	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	759837	67861487	181389134	3	458											
HIST2H2BF	440689	broad.mit.edu	37	chr1	149398908	149398908	+	RNA	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctggatctcgcgggacGtgatggtggagcgcttgttg	4	11	17	9	5	2	1	0	1	2	0	3	4	2	4	1	4	1	2	1	4	0	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	149398908	C	C	149398908	1	2	7	0	1	0	0	0	0	0	0	0	7180	1145	40	4		4	HIST2H2BF	1	149398908	RNA	SNP	G	TCGA-A3-3322-01A-01D-0966-08	81537421	149398908	99851713	4	459											
NUP210L	91181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154027277	154027277	+	Missense_Mutation	SNP	T	T	G																															tcattggaatcagtgtcattTtctctggaagaagtctgaat																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	154027277	T	G	154027277	3	3	7	1	0	0	0	0	1	0	0	0	10761	1841	64	5	2462	5	NUP210L	1	154027277	Missense_Mutation	SNP	T	TCGA-A3-3322-01A-01D-0966-08	4628369	154027277	95223344	5	460	7	2									
NUP210L	91181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154027278	154027278	+	Nonsense_Mutation	SNP	T	T	A																															cattggaatcagtgtcatttTctctggaagaagtctgaatg																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	154027278	T	A	154027278	4	1	7	1	0	0	0	0	0	1	0	0	10761	1792	62	5	2463	5	NUP210L	1	154027278	Nonsense_Mutation	SNP	T	TCGA-A3-3322-01A-01D-0966-08	1	154027278	95223343	6	461	7	2									
LAD1	3898	broad.mit.edu;ucsc.edu	37	chr1	201354880	201354880	+	Silent	SNP	T	G	G																															ttgagggagctgctgtaggtTcgctgtgtgggtgaggacat																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	201354880	G	G	201354880	2	3	7	1	0	0	0	0	0	0	0	1	8599	1770	62	5		5	LAD1	1	201354880	Silent	SNP	T	TCGA-A3-3322-01A-01D-0966-08	47327602	201354880	47895741	7	462	8	2									
LAD1	3898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201354881	201354881	+	Missense_Mutation	SNP	C	C	A																															tgagggagctgctgtaggttCgctgtgtgggtgaggacata																								rs143101113	alternate_allele	TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	201354881	C	A	201354881	3	1	7	1	0	0	0	0	1	0	0	0	8599	884	31	4	502	4	LAD1	1	201354881	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	1	201354881	47895740	8	463	8	2									
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235922372	235922372	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaacaagacttggccaacGgccaacagctgcagatccgt	13	6	9	13	2	1	2	1	0	0	2	2	2	2	2	3	2	5	2	3	2	4	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	235922372	G	A	235922372	3	1	7	1	0	0	0	0	1	0	0	0	9128	1116	39	1	4748	1	LYST	1	235922372	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	34567491	235922372	13328249	9	464											
AKT3	10000	broad.mit.edu	37	chr1	243859018	243859018	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagttttttatatattctCctacatgaggaaagcacgca	12	14	6	9	1	1	1	0	1	1	0	3	2	2	2	2	1	2	3	2	1	5	7	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	243859018	A	A	243859018	3	1	7	1	0	0	0	0	1	0	0	0	481	869	30	4	1488	4	AKT3	1	243859018	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	7936646	243859018	5391603	10	465											
COLEC11	78989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	3691555	3691555	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtactctgaccactccccCatgcggaccttcaacaagtg	9	9	8	15	1	2	1	1	1	1	0	3	2	3	2	4	1	3	1	4	1	3	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	3691555	C	T	3691555	2	4	7	1	0	0	0	0	0	0	0	1	3711	581	21	2		2	COLEC11	2	3691555	Silent	SNP	C	TCGA-A3-3322-01A-01D-0966-08		3691555	239507818	11	466											
NRBP1	29959	broad.mit.edu;ucsc.edu	37	chr2	27663340	27663340	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgccgtactggctgaaatCcctgcaggaccaggaagaga	12	6	13	10	1	0	2	0	1	0	1	1	5	1	4	3	3	3	3	3	3	3	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	27663340	A	A	27663340	2	1	7	1	0	0	0	0	0	0	0	1	10642	845	30	4		4	NRBP1	2	27663340	Silent	SNP	C	TCGA-A3-3322-01A-01D-0966-08	23971785	27663340	215536033	12	467											
MTA3	57504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	42909669	42909669	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcagcctctgaagctagCttatttgaagaggcactgga	10	11	12	8	0	2	3	1	2	1	1	2	4	2	4	1	3	3	3	1	3	4	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	42909669	C	G	42909669	3	3	7	1	0	0	0	0	1	0	0	0	9910	796	28	4	865	4	MTA3	2	42909669	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	15246329	42909669	200289704	13	468											
MSH6	2956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48032817	48032817	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catactcatgcatgcaacagCacattctctggtgcttgtgg	9	12	9	11	0	2	0	1	0	1	0	3	0	2	0	0	2	6	4	0	2	2	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	48032817	C	A	48032817	3	1	7	1	0	0	0	0	1	0	0	0	9874	710	25	4	3643	4	MSH6	2	48032817	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	5123148	48032817	195166556	14	469											
MPHOSPH10	10199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71368393	71368393	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtacgtaaagaaaaacCtaaagaggatgcatatgaat	19	9	9	4	1	0	3	0	1	0	2	0	4	0	4	1	1	3	4	1	1	10	5	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	71368393	C	G	71368393	3	3	7	1	0	0	0	0	1	0	0	0	9725	681	24	4	1366	4	MPHOSPH10	2	71368393	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	23335576	71368393	171830980	15	470											
SFXN5	94097	hgsc.bcm.edu	37	chr2	73188297	73188298	+	Frame_Shift_Ins	INS	-	-	G																															gaggctgatggccagcggcaINSgggccaggccgaaggctgcc																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	73188298	-	G	73188297	7	5	7	1	0	1	1	0	0	0	0	0	14200	188	7	0	122	0	SFXN5	2	73188297	Frame_Shift_Ins	INS	-	TCGA-A3-3322-01A-01D-0966-08	1819904	73188297	170011076	16	471											
RAPH1	65059	broad.mit.edu;hgsc.bcm.edu	37	chr2	204356027	204356027	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttactggttccatgggctTgtcagaatccaaactcttta	9	16	7	9	0	2	1	1	0	1	1	4	1	4	1	2	2	2	2	2	2	4	6	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	204356027	T	G	204356027	3	3	7	1	0	0	0	0	1	0	0	0	13052	1821	63	5	3835	5	RAPH1	2	204356027	Missense_Mutation	SNP	T	TCGA-A3-3322-01A-01D-0966-08	131167730	204356027	38843346	17	472											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52610585	52610585	+	Frame_Shift_Del	DEL	T	T	-																															catgtcatggggcaggtttcTtccagattactcagaaatac																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		-	52610585	T	-	52610585	7	5	7	1	0	1	0	1	0	0	0	0	11491	1606	56	0	1273	0	PBRM1	3	52610585	Frame_Shift_Del	DEL	T	TCGA-A3-3322-01A-01D-0966-08		52610585	145411845	18	473											
ZNF654	55279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	88189697	88189697	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcttgatagaccaaaagAtgcctgacatagagccaaat	17	8	8	8	0	0	5	0	2	0	3	0	5	0	5	3	0	3	1	3	0	6	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	88189697	A	G	88189697	3	3	7	1	0	0	0	0	1	0	0	0	18066	333	12	3	1239	3	ZNF654	3	88189697	Missense_Mutation	SNP	A	TCGA-A3-3322-01A-01D-0966-08	35579112	88189697	109832733	19	474											
NIT2	56954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	100058770	100058770	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaaggaatgcagcatatatCtcattggaggtaacttccta	14	11	8	8	0	1	0	1	0	1	0	3	2	2	2	1	3	3	3	1	3	6	6	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	100058770	C	G	100058770	3	3	7	1	0	0	0	0	1	0	0	0	10434	913	32	4	248	4	NIT2	3	100058770	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	11869073	100058770	97963660	20	475											
ENPEP	2028	broad.mit.edu;ucsc.edu	37	chr4	111409738	111409745	+	Frame_Shift_Del	DEL	AATCTTTT	-	-																															tgaaccaacagatgccaggaAatcttttccttgttttgatg																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	AATCTTTT	AATCTTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		-	111409745	-	-	111409738	7	5	7	1	0	1	0	1	0	0	0	0	5128	14	1	0	692	0	ENPEP	4	111409738	Frame_Shift_Del	DEL	AATCTTTT	TCGA-A3-3322-01A-01D-0966-08		111409738	79744538	21	476											
RPS3A	6189	broad.mit.edu;hgsc.bcm.edu	37	chr4	152022142	152022142	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtagaaattgcatctgatgGtctcaagggtcgtgtgtttg	8	15	13	5	1	2	2	1	1	2	1	4	2	2	2	0	2	1	3	0	2	3	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	152022142	G	A	152022142	3	1	7	1	0	0	0	0	1	0	0	0	13646	1261	44	2	192	2	RPS3A	4	152022142	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	40612404	152022142	39132134	22	477											
SLC23A1	9963	broad.mit.edu	37	chr5	138715429	138715429	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacgggcatcggttcgtGcctggaagccataggctttt	7	10	12	12	3	0	0	0	0	0	0	2	1	0	1	3	4	2	3	3	4	2	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	138715429	T	T	138715429	3	4	7	1	0	0	0	0	1	0	0	0	14464	1319	46	4	961	4	SLC23A1	5	138715429	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08		138715429	42199831	23	478											
HIST1H2AJ	8331	broad.mit.edu	37	chr6	27782408	27782408	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccgctccgcatagttgccTttgcggagcaggcgatgcac	7	8	12	14	4	0	0	0	0	0	0	1	2	1	1	3	2	4	5	3	2	1	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	27782408	G	G	27782408	3	3	7	1	0	0	0	0	1	0	0	0	7136	1606	56	5	279	5	HIST1H2AJ	6	27782408	Missense_Mutation	SNP	T	TCGA-A3-3322-01A-01D-0966-08		27782408	143332659	24	479											
HLA-F	3134	broad.mit.edu;hgsc.bcm.edu	37	chr6	29694668	29694668	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttcacagcctactcaGtggtcagcggaaacttgatg	9	12	9	11	1	5	1	3	1	2	0	5	2	5	2	1	2	4	0	1	2	2	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	29694668	G	A	29694668	3	1	7	1	0	0	0	0	1	0	0	0	7211	1029	36	2	1080	2	HLA-F	6	29694668	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	1912260	29694668	141420399	25	480											
BAT2	0	broad.mit.edu	37	chr6	31599818	31599818	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctccttcagacaaggAggctcccacacccaaggagg	10	6	11	14	0	2	1	1	0	1	1	4	3	4	3	3	5	0	2	3	5	2	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	31599818	C	C	31599818	3	2	7	1	0	0	0	0	1	0	0	0	1319	304	11	5	3426	5	BAT2	6	31599818	Missense_Mutation	SNP	A	TCGA-A3-3322-01A-01D-0966-08	1905150	31599818	139515249	26	481											
PRIM2	5558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	57185310	57185310	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaaaggaactgaacaataCcagagtaagttggagagtga	17	7	13	4	0	0	5	0	3	0	2	0	7	0	6	1	2	3	2	1	2	6	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	57185310	C	T	57185310	2	4	7	1	0	0	0	0	0	0	0	1	12493	518	18	2		2	PRIM2	6	57185310	Silent	SNP	C	TCGA-A3-3322-01A-01D-0966-08	25585492	57185310	113929757	27	482											
MICALL2	79778	broad.mit.edu	37	chr7	1487214	1487214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggggtgggagcttacagtCttggggggcgggccccctgc	3	8	20	10	1	1	0	0	0	1	0	1	1	1	1	2	7	3	1	2	7	1	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	1487214	T	T	1487214	2	4	7	1	0	0	0	0	0	0	0	1	9574	912	32	2		2	MICALL2	7	1487214	Silent	SNP	C	TCGA-A3-3322-01A-01D-0966-08		1487214	157651449	28	483											
VPS41	27072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	38816289	38816289	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaataattaccgttttttctGaaatctcctttacatacgaa	14	16	3	8	2	2	1	0	1	2	0	3	2	2	1	2	0	3	1	2	0	7	8	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	38816289	G	A	38816289	3	1	7	1	0	0	0	0	1	0	0	0	17209	1294	45	2	1768	2	VPS41	7	38816289	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	37329075	38816289	120322374	29	484											
SGCE	8910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94257637	94257637	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggtaacccattaaattTgtattaaatgttatgggatc	12	16	8	5	0	1	0	0	0	1	0	2	1	1	1	1	2	1	3	1	2	7	6	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	94257637	T	A	94257637	2	1	7	1	0	0	0	0	0	0	0	1	14204	1799	63	5		5	SGCE	7	94257637	Silent	SNP	T	TCGA-A3-3322-01A-01D-0966-08	55441348	94257637	64881026	30	485											
ZNF467	168544	hgsc.bcm.edu	37	chr7	149462196	149462196	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccgcgagccgaagcggcgGtcacactgcgtgcaggcgaa	8	3	17	13	7	1	0	1	0	0	0	1	3	1	0	2	4	4	1	2	4	2	0	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	149462196	G	C	149462196	3	2	7	1	0	0	0	0	1	0	0	0	17926	1252	44	4	396	4	ZNF467	7	149462196	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	55204559	149462196	9676467	31	486											
SDR16C5	195814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	57219234	57219234	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaattaaaggacatacttaCcctgtagtacaaccttcaaa	17	10	5	9	0	1	0	1	0	0	0	1	2	1	1	2	1	4	2	2	1	9	6	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	57219234	C	T	57219234	5	4	7	1	0	0	0	0	0	0	1	0	13973	521	18	2	230	2	SDR16C5	8	57219234	Splice_Site	SNP	C	TCGA-A3-3322-01A-01D-0966-08		57219234	89144788	32	487											
ENPP2	5168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	120569905	120569905	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatcttcatgagttcttcTacccattttgattcgtcctc	6	18	5	12	1	4	2	1	2	3	0	7	2	5	2	2	0	2	2	2	0	1	7	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	120569905	T	C	120569905	2	2	7	1	0	0	0	0	0	0	0	1	5130	1509	53	3		3	ENPP2	8	120569905	Silent	SNP	T	TCGA-A3-3322-01A-01D-0966-08	63350671	120569905	25794117	33	488											
ADCY8	114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	131896886	131896886	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaatttatcgccactcCgcaagtcgatggtatgttct	8	15	7	11	3	2	0	1	0	2	0	6	1	3	0	2	1	0	3	2	1	4	5	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	131896886	C	T	131896886	3	4	7	1	0	0	0	0	1	0	0	0	300	652	23	1	1766	1	ADCY8	8	131896886	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	11326981	131896886	14467136	34	489											
PPAPDC2	403313	hgsc.bcm.edu	37	chr9	4662602	4662603	+	Frame_Shift_Ins	INS	-	-	G																															tccttccccctggccgcggcINSgggcccctcgcagtcgcccg																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	4662603	-	G	4662602	7	5	7	1	0	1	1	0	0	0	0	0	12295	768	27	0	229	0	PPAPDC2	9	4662602	Frame_Shift_Ins	INS	-	TCGA-A3-3322-01A-01D-0966-08		4662602	136550829	35	490											
ZBTB26	57684	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125681478	125681478	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgatgttatcactgcCtgtataagaaagggcataat	14	12	9	6	0	1	3	1	2	0	1	1	3	1	3	1	1	1	3	1	1	5	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	125681478	C	A	125681478	3	1	7	1	0	0	0	0	1	0	0	0	17532	681	24	4	593	4	ZBTB26	9	125681478	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	121018876	125681478	15531953	36	491											
YME1L1	10730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27431334	27431334	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acctggccagtactgaagatCtgaacaaatgctttgaagag	14	9	10	8	0	1	5	0	3	1	2	1	5	1	5	2	1	3	2	2	1	5	2	rs143591480		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	27431334	C	G	27431334	3	3	7	1	0	0	0	0	1	0	0	0	17486	913	32	4	1802	4	YME1L1	10	27431334	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08		27431334	108103413	37	492											
TACC2	10579	hgsc.bcm.edu;ucsc.edu	37	chr10	123844479	123844479	+	Frame_Shift_Del	DEL	C	C	-																															gaggagctgcatccgagtggCccctactatcttctgagaag																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		-	123844479	C	-	123844479	7	5	7	1	0	1	0	1	0	0	0	0	15501	739	26	0	2474	0	TACC2	10	123844479	Frame_Shift_Del	DEL	C	TCGA-A3-3322-01A-01D-0966-08	96413145	123844479	11690268	38	493											
TTC12	54970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	113194723	113194723	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacgtctacagagtgcagAagaaataaactcaggtaagg	16	7	10	8	1	2	3	1	0	1	3	2	3	2	3	1	2	4	2	1	2	7	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	113194723	A	C	113194723	3	2	7	1	0	0	0	0	1	0	0	0	16678	246	9	5	240	5	TTC12	11	113194723	Missense_Mutation	SNP	A	TCGA-A3-3322-01A-01D-0966-08		113194723	21811793	39	494											
FAM55D	0	broad.mit.edu;hgsc.bcm.edu	37	chr11	114451052	114451052	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatttctctttcattgcaaCtgtttcttctgccaaagaat	9	17	5	10	0	4	1	1	0	3	1	5	1	4	1	1	0	3	3	1	0	3	5	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	114451052	C	T	114451052	3	4	7	1	0	0	0	0	1	0	0	0	5587	565	20	2	741	2	FAM55D	11	114451052	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	1256329	114451052	20555464	40	495											
HSP90B1	7184	broad.mit.edu	37	chr12	104332226	104332226	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagaagaaaagaaaccaAagactaaaaaagtaagtctg	25	4	8	4	0	1	5	0	0	1	5	1	5	1	5	1	0	1	1	1	0	11	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	104332226	G	G	104332226	3	3	7	1	0	0	0	0	1	0	0	0	7403	15	1	3	990	3	HSP90B1	12	104332226	Missense_Mutation	SNP	A	TCGA-A3-3322-01A-01D-0966-08		104332226	29519669	41	496											
HHIPL1	84439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	100129224	100129224	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctttgcaggcgtctgatgtCcctccaagagaacccaggga	9	8	11	13	1	1	2	0	1	1	1	3	4	3	3	4	2	2	1	4	2	2	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	100129224	C	G	100129224	3	3	7	1	0	0	0	0	1	0	0	0	7093	855	30	4	1536	4	HHIPL1	14	100129224	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08		100129224	7220316	42	497											
PPP1R13B	23368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	104208221	104208222	+	Frame_Shift_Ins	INS	-	-	G																															acatggagtatatggaacttINSgaattcactgtctggggtcc																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	104208222	-	G	104208221	7	5	7	1	0	1	1	0	0	0	0	0	12359	1799	63	0	1572	0	PPP1R13B	14	104208221	Frame_Shift_Ins	INS	-	TCGA-A3-3322-01A-01D-0966-08	4078997	104208221	3141319	43	498											
KIAA1024	23251	hgsc.bcm.edu;ucsc.edu	37	chr15	79749416	79749416	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctttgaaatgccctataaCagccagtacctgaatccagt	13	10	7	11	0	0	2	0	2	0	0	1	2	1	2	4	0	5	2	4	0	5	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	79749416	C	T	79749416	2	4	7	1	0	0	0	0	0	0	0	1	8205	477	17	2		2	KIAA1024	15	79749416	Silent	SNP	C	TCGA-A3-3322-01A-01D-0966-08		79749416	22781976	44	499											
TSC2	7249	broad.mit.edu;hgsc.bcm.edu	37	chr16	2132493	2132493	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggacagctgcacaggagcGtttcctgggcaggtatcgcc	9	7	14	11	2	0	0	0	0	0	0	2	2	1	2	2	4	3	5	2	4	2	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	2132493	G	A	2132493	3	1	7	1	0	0	0	0	1	0	0	0	16605	1145	40	1	3993	1	TSC2	16	2132493	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08		2132493	88222260	45	500											
GAS8	2622	broad.mit.edu	37	chr16	90099333	90099333	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtgaagaacctgcggctgGtaggtgtggcgggggcacct	6	8	19	8	2	0	2	0	1	0	1	0	2	0	2	2	7	2	3	2	7	3	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	90099333	A	A	90099333	5	1	7	1	0	0	0	0	0	0	1	0	6251	1275	44	2	510	2	GAS8	16	90099333	Splice_Site	SNP	G	TCGA-A3-3322-01A-01D-0966-08	87966840	90099333	255420	46	501											
C17orf75	64149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30665271	30665271	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctaaaaaacagaccacataTtctgaagggttacgttcaga	16	9	7	9	1	2	3	1	1	1	2	2	3	2	3	2	1	2	2	2	1	6	5	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	30665271	T	G	30665271	3	3	7	1	0	0	0	0	1	0	0	0	1880	1490	52	5	771	5	C17orf75	17	30665271	Missense_Mutation	SNP	T	TCGA-A3-3322-01A-01D-0966-08		30665271	50529939	47	502											
CDK12	51755	broad.mit.edu;ucsc.edu	37	chr17	37650846	37650846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccaatcacagccattcGtgaaatcaaaatccttcgtc	12	11	4	14	2	2	1	2	1	0	0	7	1	4	1	3	0	1	0	3	0	4	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	37650846	A	A	37650846	3	1	7	1	0	0	0	0	1	0	0	0	3128	1145	40	1	2336	1	CDK12	17	37650846	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	6985575	37650846	43544364	48	503											
CNTNAP1	8506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40844591	40844591	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtacactcagacgactttGagttcaatgatgacgagtgg	12	10	11	8	2	2	4	2	3	0	1	2	6	2	4	0	1	1	2	0	1	2	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	40844591	G	C	40844591	3	2	7	1	0	0	0	0	1	0	0	0	3646	1291	45	4	2671	4	CNTNAP1	17	40844591	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08	3193745	40844591	40350619	49	504											
HELZ	9931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65184580	65184580	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtaatgatctaatccattTtgggccatctttcctcctat	9	16	5	11	1	2	1	0	1	2	0	5	1	5	1	4	1	0	1	4	1	3	6	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	65184580	T	C	65184580	2	2	7	1	0	0	0	0	0	0	0	1	7049	1838	64	3		3	HELZ	17	65184580	Silent	SNP	T	TCGA-A3-3322-01A-01D-0966-08	24339989	65184580	16010630	50	505											
DLGAP1	9229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	3502638	3502638	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgggtcttggatgagcattAggattctgcacaagagaaag	12	10	14	5	0	2	2	0	1	2	1	2	5	2	4	0	3	2	2	0	3	3	3	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	3502638	A	G	3502638	2	3	7	1	0	0	0	0	0	0	0	1	4559	407	15	3		3	DLGAP1	18	3502638	Silent	SNP	A	TCGA-A3-3322-01A-01D-0966-08		3502638	74574610	51	506											
ZCCHC2	54877	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	60241796	60241796	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatcttctgagagctgcAcagttaacatcccacaacaa	14	8	8	11	0	2	1	0	1	2	1	3	3	3	2	1	1	4	3	1	1	3	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		G	60241796	A	G	60241796	3	3	7	1	0	0	0	0	1	0	0	0	17586	159	6	3	2532	3	ZCCHC2	18	60241796	Missense_Mutation	SNP	A	TCGA-A3-3322-01A-01D-0966-08	56739158	60241796	17835452	52	507											
CDH19	28513	hgsc.bcm.edu;ucsc.edu	37	chr18	64235860	64235860	+	Frame_Shift_Del	DEL	T	T	-																															ggcatatatgtcacctgttcTttcatcaatgataaaagtac																								novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		-	64235860	T	-	64235860	7	5	7	1	0	1	0	1	0	0	0	0	3104	1617	56	0	2075	0	CDH19	18	64235860	Frame_Shift_Del	DEL	T	TCGA-A3-3322-01A-01D-0966-08	3994064	64235860	13841388	53	508											
SMARCA4	6597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11098575	11098575	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgcggggcctcgaccctgtgGagatcctgcaggagcgcgag	6	5	17	13	5	0	1	0	0	0	1	2	5	1	2	3	4	2	1	3	4	0	0	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	11098575	G	C	11098575	3	2	7	1	0	0	0	0	1	0	0	0	14772	1175	41	4	1111	4	SMARCA4	19	11098575	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08		11098575	48030408	54	509											
ZNF615	284370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52496685	52496685	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgactcttctcagtgaaGccttttccacactcattgca	10	13	6	12	0	3	3	2	2	2	1	5	3	4	3	2	0	2	1	2	0	1	4	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	52496685	G	A	52496685	2	1	7	1	0	0	0	0	0	0	0	1	18039	958	34	2		2	ZNF615	19	52496685	Silent	SNP	G	TCGA-A3-3322-01A-01D-0966-08	41398110	52496685	6632298	55	510											
ZNF616	90317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52618981	52618981	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctctgatgagctgcaagtCgtgaatgtatgctgaaaact	11	13	10	7	1	1	4	0	4	1	0	3	4	1	4	0	0	4	4	0	0	5	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	52618981	C	T	52618981	3	4	7	1	0	0	0	0	1	0	0	0	18040	884	31	1	913	1	ZNF616	19	52618981	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08	122296	52618981	6510002	56	511											
ZNF551	90233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58198816	58198816	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctggagaaaggccttaTcagtgctgtgagtgtgggaa	10	10	14	7	0	2	2	1	1	1	1	2	4	2	3	1	3	1	1	1	3	3	1	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		C	58198816	T	C	58198816	2	2	7	1	0	0	0	0	0	0	0	1	17982	1442	50	3		3	ZNF551	19	58198816	Silent	SNP	T	TCGA-A3-3322-01A-01D-0966-08	5579835	58198816	930167	57	512											
PCNT	5116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47769001	47769001	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaactgtctgcaaagcatCaatcagaaatggaggattta	17	9	9	6	0	3	2	2	0	1	2	3	4	3	4	0	2	3	2	0	2	6	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	47769001	C	A	47769001	3	1	7	1	0	0	0	0	1	0	0	0	11590	827	29	4	1134	4	PCNT	21	47769001	Missense_Mutation	SNP	C	TCGA-A3-3322-01A-01D-0966-08		47769001	360894	58	513											
CERK	64781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	47116101	47116101	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctctctttacacaGtgaactgcacagaagcaagc	11	9	9	12	2	1	2	0	1	1	1	3	2	1	2	0	0	6	3	0	0	4	2	novel		TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		A	47116101	G	A	47116101	2	1	7	1	0	0	0	0	0	0	0	1	3267	1020	36	2		2	CERK	22	47116101	Silent	SNP	G	TCGA-A3-3322-01A-01D-0966-08		47116101	4188465	59	514											
TMEM187	8269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153247610	153247610	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattttcgacagtgtttccGtgcaagtgggctatgagcac	8	12	12	9	2	0	1	0	1	0	0	2	2	1	1	1	1	2	5	1	1	2	4	rs139864308	bycluster;byfrequency;by1000genomes	TCGA-A3-3322-01A-01D-0966-08	TCGA-A3-3322-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f82a369-12e0-4c62-9319-35856c2ef8d5	6a5969e6-52fc-42b9-8b42-41b9da41f6b3		T	153247610	G	T	153247610	3	4	7	1	0	0	0	0	1	0	0	0	16108	1145	40	4	99	4	TMEM187	23	153247610	Missense_Mutation	SNP	G	TCGA-A3-3322-01A-01D-0966-08		153247610	2022950	60	515											
VHL	7428	hgsc.bcm.edu	37	chr3	10183844	10183844	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaacgctgccgcctggcAcgggccgccgcatccacagc	7	3	11	20	5	0	0	0	0	0	0	1	0	1	0	6	2	3	3	6	2	1	0	novel		TCGA-A3-3322-01A-01W-0898-10	TCGA-A3-3322-11A-01W-0898-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	954f4f72-3f27-45f5-ae17-1c9f59001b65	c36d4bf1-5b0f-425f-a1cb-990ed388747c		T	10183844	A	T	10183844	3	4	8	1	0	0	0	0	1	0	0	0	17161	159	6	5	315	5	VHL	3	10183844	Missense_Mutation	SNP	A	TCGA-A3-3322-01A-01W-0898-10		10183844	187838586	1	516											
DNAJB4	11080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78481792	78481792	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaacccggaatgaggagaaGaattattggatatgggctgc	14	8	14	5	1	0	3	0	1	0	2	0	7	0	5	1	4	2	1	1	4	6	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	78481792	G	C	78481792	3	2	9	1	0	0	0	0	1	0	0	0	4622	942	33	4	885	4	DNAJB4	1	78481792	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08		78481792	170768829	1	517											
GBP1	2633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89523725	89523725	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagttttagttttggaattaCtaaagatgtaggaacagaag	15	13	11	2	0	0	2	0	0	0	2	0	5	0	4	0	2	2	3	0	2	8	7	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	89523725	C	T	89523725	3	4	9	1	0	0	0	0	1	0	0	0	6273	565	20	2	978	2	GBP1	1	89523725	Missense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	11041933	89523725	159726896	2	518											
OLFML3	56944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114523687	114523687	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagagaagatctacgtgttaGatgggacacagaatgacaca	16	7	11	7	1	1	5	0	1	1	4	1	7	1	6	0	1	1	1	0	1	4	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	114523687	G	A	114523687	3	1	9	1	0	0	0	0	1	0	0	0	10859	942	33	2	527	2	OLFML3	1	114523687	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	24999962	114523687	134726934	3	519											
PTPRC	5788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	198687389	198687389	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgcataagaattgcgatttCcgtgtaaaagatcttcaata	14	13	7	7	3	2	2	1	0	1	2	4	3	3	2	1	0	1	2	1	0	6	6	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	198687389	C	A	198687389	3	1	9	1	0	0	0	0	1	0	0	0	12799	854	30	4	1672	4	PTPRC	1	198687389	Missense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	84163702	198687389	50563232	4	520											
USH2A	7399	hgsc.bcm.edu;ucsc.edu	37	chr1	216051167	216051168	+	Frame_Shift_Ins	INS	-	-	T																															ttgtgccaccgatttaaatcINSttctgggggatttgatgcaa																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	216051168	-	T	216051167	7	5	9	1	0	1	1	0	0	0	0	0	17035	913	32	0	7114	0	USH2A	1	216051167	Frame_Shift_Ins	INS	-	TCGA-A3-3323-01A-01D-0966-08	17363778	216051167	33199454	5	521											
C1orf198	84886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	230991424	230991424	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacttacctttgtttccCaggagaaaggggcagagtgc	10	10	11	10	0	0	2	0	0	0	2	2	3	2	2	3	3	3	2	3	3	3	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	230991424	C	T	230991424	4	4	9	1	0	0	0	0	0	1	0	0	2026	595	21	2	621	2	C1orf198	1	230991424	Nonsense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	14940257	230991424	18259197	6	522											
PSD4	23550	hgsc.bcm.edu	37	chr2	113940101	113940101	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaacctgtacttgggagAcagcctggagccccacccag	9	7	10	15	0	1	1	1	0	1	1	2	3	1	2	5	2	4	1	5	2	2	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	113940101	A	C	113940101	3	2	9	1	0	0	0	0	1	0	0	0	12651	275	10	5	70	5	PSD4	2	113940101	Missense_Mutation	SNP	A	TCGA-A3-3323-01A-01D-0966-08		113940101	129259272	7	523											
MCM6	4175	broad.mit.edu;hgsc.bcm.edu	37	chr2	136633848	136633848	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctccaagaagtccaggaAcagtttctggcacttctcgg	9	10	9	13	1	2	1	0	0	2	1	6	2	5	2	3	3	1	2	3	3	3	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	136633848	A	T	136633848	3	4	9	1	0	0	0	0	1	0	0	0	9391	43	2	5	2445	5	MCM6	2	136633848	Missense_Mutation	SNP	A	TCGA-A3-3323-01A-01D-0966-08	22693747	136633848	106565525	8	524											
SLC4A3	6508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220493280	220493280	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagccgcagctacagcgagCgggactttgagtgtgggtag	8	7	16	10	3	0	1	0	1	0	0	0	3	0	2	2	2	5	3	2	2	2	3	rs150796797	byfrequency	TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	220493280	C	T	220493280	3	4	9	1	0	0	0	0	1	0	0	0	14657	759	27	1	211	1	SLC4A3	2	220493280	Missense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	83859432	220493280	22706093	9	525											
SCN5A	6331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38622777	38622777	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggccagggccagctggaggTtgttcatctctctgtcctca	5	11	13	12	0	4	0	2	0	2	0	6	1	5	1	3	4	1	3	3	4	0	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	38622777	T	C	38622777	3	2	9	1	0	0	0	0	1	0	0	0	13924	1725	60	3	3225	3	SCN5A	3	38622777	Missense_Mutation	SNP	T	TCGA-A3-3323-01A-01D-0966-08		38622777	159399653	10	526											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52685756	52685756	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacttatggtcatcttcatAcctgtatcctctgggcaatg	8	16	7	10	0	4	0	2	0	2	0	5	0	5	0	2	2	2	2	2	2	5	5	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	52685756	A	G	52685756	5	3	9	1	0	0	0	0	0	0	1	0	11491	405	14	3	4284	3	PBRM1	3	52685756	Splice_Site	SNP	A	TCGA-A3-3323-01A-01D-0966-08	14062979	52685756	145336674	11	527											
POPDC2	64091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	119378938	119378938	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaggcacagcgtcttgtaGaggaggtcaaactcctcagg	10	7	14	10	1	3	1	2	0	1	1	4	2	4	2	1	5	2	3	1	5	2	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	119378938	G	A	119378938	2	1	9	1	0	0	0	0	0	0	0	1	12255	929	33	2		2	POPDC2	3	119378938	Silent	SNP	G	TCGA-A3-3323-01A-01D-0966-08	66693182	119378938	78643492	12	528											
LRRC33	375387	hgsc.bcm.edu;ucsc.edu	37	chr3	196386769	196386775	+	Frame_Shift_Del	DEL	CCTCAGC	CCTCAGC	-																															ccttaccctctcctggagagCctcagcctgcacagctgcca																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	CCTCAGC	CCTCAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		-	196386775	CCTCAGC	-	196386769	7	5	9	1	0	1	0	1	0	0	0	0	8988	738	26	0	261	0	LRRC33	3	196386769	Frame_Shift_Del	DEL	CCTCAGC	TCGA-A3-3323-01A-01D-0966-08	77007831	196386769	1635661	13	529											
ATP10D	57205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47538705	47538705	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgtttggatcttcttaggtCttgattcctatttctctcta	5	22	6	8	0	5	1	0	1	5	0	7	2	6	2	1	2	0	1	1	2	3	9	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	47538705	C	G	47538705	2	3	9	1	0	0	0	0	0	0	0	1	1118	900	32	4		4	ATP10D	4	47538705	Silent	SNP	C	TCGA-A3-3323-01A-01D-0966-08		47538705	143615571	14	530											
NKD2	85409	broad.mit.edu;ucsc.edu	37	chr5	1032288	1032288	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcccaatggggaccccAaggaggggcctttccgggag	8	5	16	12	1	0	0	0	0	0	0	1	3	1	3	5	6	2	1	5	6	2	1	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	1032288	C	C	1032288	3	2	9	1	0	0	0	0	1	0	0	0	10442	131	5	5	177	5	NKD2	5	1032288	Missense_Mutation	SNP	A	TCGA-A3-3323-01A-01D-0966-08		1032288	179882972	15	531											
HSPA9	3313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137902359	137902359	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttagccttttcagcagcttCccgtaccctctgaagtgcca	7	13	7	14	1	2	1	1	1	1	0	3	1	3	1	4	0	5	3	4	0	3	6	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	137902359	C	A	137902359	4	1	9	1	0	0	0	0	0	1	0	0	7417	864	30	4	1147	4	HSPA9	5	137902359	Nonsense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	136870071	137902359	43012901	16	532											
ARAP3	64411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141051674	141051674	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccattcctcacctgcaCactgcttgcagatgaccacc	9	8	8	16	0	1	2	1	1	0	1	2	3	2	2	5	1	3	3	5	1	0	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	141051674	C	A	141051674	3	1	9	1	0	0	0	0	1	0	0	0	840	478	17	4	3150	4	ARAP3	5	141051674	Missense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	3149315	141051674	39863586	17	533											
SLC39A7	7922	hgsc.bcm.edu;ucsc.edu	37	chr6	33169301	33169307	+	Frame_Shift_Del	DEL	CCATGGC	CCATGGC	-																															gatttacaccatggccatagCcatggctactcccatgagag																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	CCATGGC	CCATGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		-	33169307	CCATGGC	-	33169301	7	5	9	1	0	1	0	1	0	0	0	0	14625	738	26	0	281	0	SLC39A7	6	33169301	Frame_Shift_Del	DEL	CCATGGC	TCGA-A3-3323-01A-01D-0966-08		33169301	137945766	18	534											
BYSL	705	broad.mit.edu	37	chr6	41889389	41889389	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggctgggaatgcggtgcGggcgggggtccgggagaagc	5	5	22	9	4	0	1	0	0	0	1	1	3	1	2	2	7	3	1	2	7	2	0	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	41889389	T	T	41889389	3	4	9	1	0	0	0	0	1	0	0	0	1576	1116	39	4	91	4	BYSL	6	41889389	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	8720088	41889389	129225678	19	535											
SLC29A4	222962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5330777	5330777	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctccatcgtgtttgacatGagcctcacctacatcttggt	8	13	7	13	1	2	2	1	2	1	0	4	2	3	2	4	1	2	1	4	1	1	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	5330777	G	A	5330777	3	1	9	1	0	0	0	0	1	0	0	0	14539	1290	45	2	334	2	SLC29A4	7	5330777	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08		5330777	153807886	20	536											
HECW1	23072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	43484071	43484071	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accagggcatggtctctgtgGgacctgaaggggctggggag	7	7	19	8	0	1	1	0	1	1	0	2	3	1	3	2	7	0	2	2	7	1	0	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	43484071	G	T	43484071	4	4	9	1	0	0	0	0	0	1	0	0	7042	1233	43	4	1334	4	HECW1	7	43484071	Nonsense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	38153294	43484071	115654592	21	537											
MRPS24	64951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	43906364	43906364	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcgcacaggacatttgtaAaagtaggacagcaaagtttc	15	9	10	7	1	0	0	0	0	0	0	2	2	0	2	0	2	1	5	0	2	4	4	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	43906364	A	C	43906364	3	2	9	1	0	0	0	0	1	0	0	0	9835	11	1	5	69	5	MRPS24	7	43906364	Missense_Mutation	SNP	A	TCGA-A3-3323-01A-01D-0966-08	422293	43906364	115232299	22	538											
MUC17	140453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100686874	100686874	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgtcaacaattacttcTcacaccatcccacctacatt	12	10	3	16	1	2	0	2	0	1	0	4	0	3	0	4	1	3	0	4	1	4	4	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	100686874	T	G	100686874	2	3	9	1	0	0	0	0	0	0	0	1	9974	1538	54	5		5	MUC17	7	100686874	Silent	SNP	T	TCGA-A3-3323-01A-01D-0966-08	56780510	100686874	58451789	23	539											
RELN	5649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	103130250	103130250	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtatccgtgcccgctgcaGagcttggggcaagcctctcc	6	8	12	15	2	1	1	0	0	1	1	3	1	2	1	4	2	4	5	4	2	2	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	103130250	G	T	103130250	2	4	9	1	0	0	0	0	0	0	0	1	13222	929	33	4		4	RELN	7	103130250	Silent	SNP	G	TCGA-A3-3323-01A-01D-0966-08	2443376	103130250	56008413	24	540											
WNT2	7472	broad.mit.edu;hgsc.bcm.edu	37	chr7	116963052	116963052	+	RNA	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggggcgttcatattaacccCcttgcgtctgcatcaggtca	8	11	10	12	2	4	0	3	0	1	0	4	0	4	0	2	3	3	2	2	3	2	4	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	116963052	C	A	116963052	1	1	9	0	1	0	0	0	0	0	0	0	17385	638	22	4		4	WNT2	7	116963052	RNA	SNP	C	TCGA-A3-3323-01A-01D-0966-08	13832802	116963052	42175611	25	541											
ZNF800	168850	broad.mit.edu	37	chr7	127014261	127014261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggacaatttgcatatGtcttttaagcattatttgtg	9	19	8	5	0	1	0	0	0	1	0	1	1	1	1	0	1	2	2	0	1	4	7	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	127014261	A	A	127014261	3	1	9	1	0	0	0	0	1	0	0	0	18168	1377	48	2	873	2	ZNF800	7	127014261	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	10051209	127014261	32124402	26	542											
C7orf45	136263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129847772	129847772	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggagaccttttttccttaTtttgggaggtagatcctccc	6	16	10	9	0	0	2	0	0	0	2	3	4	3	3	4	3	0	1	4	3	2	7	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	129847772	T	G	129847772	3	3	9	1	0	0	0	0	1	0	0	0	2395	1493	52	5	24	5	C7orf45	7	129847772	Missense_Mutation	SNP	T	TCGA-A3-3323-01A-01D-0966-08	2833511	129847772	29290891	27	543											
TRPV5	56302	hgsc.bcm.edu;ucsc.edu	37	chr7	142609708	142609708	+	Frame_Shift_Del	DEL	G	G	-																															cagtgggtgtcgcccatcatGgcgatgaacaagttgagcat																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		-	142609708	G	-	142609708	7	5	9	1	0	1	0	1	0	0	0	0	16598	1335	47	0	473	0	TRPV5	7	142609708	Frame_Shift_Del	DEL	G	TCGA-A3-3323-01A-01D-0966-08	12761936	142609708	16528955	28	544											
AP3M2	10947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	42015561	42015561	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggttttccattggctaccGagtcgaacattcttaaagaa	12	13	8	8	2	1	1	0	0	1	1	3	3	2	1	2	2	2	2	2	2	5	6	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	42015561	G	A	42015561	3	1	9	1	0	0	0	0	1	0	0	0	748	1059	37	1	382	1	AP3M2	8	42015561	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08		42015561	104348461	29	545											
TRPM6	140803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	77417087	77417087	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttatgaaggactatagacTtttcctgttggaaaataaaa	16	14	7	4	0	0	2	0	1	0	1	1	4	1	4	1	2	0	1	1	2	8	8	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	77417087	T	A	77417087	3	1	9	1	0	0	0	0	1	0	0	0	16589	1609	56	5	4428	5	TRPM6	9	77417087	Missense_Mutation	SNP	T	TCGA-A3-3323-01A-01D-0966-08		77417087	63796344	30	546											
PSAT1	29968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	80923397	80923397	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaccgtggtgattgtccGtgatgacctgctggggtttg	4	13	16	8	2	1	3	1	3	0	0	2	3	2	3	3	4	1	2	3	4	0	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	80923397	G	A	80923397	3	1	9	1	0	0	0	0	1	0	0	0	12646	1145	40	1	660	1	PSAT1	9	80923397	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	3506310	80923397	60290034	31	547											
FAM73B	84895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131804663	131804663	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggggactgtggccctggcCctggctgcccaccagctgaa	5	7	14	15	0	0	1	0	1	0	0	0	2	0	2	4	5	2	2	4	5	1	0	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	131804663	C	T	131804663	2	4	9	1	0	0	0	0	0	0	0	1	5618	610	22	2		2	FAM73B	9	131804663	Silent	SNP	C	TCGA-A3-3323-01A-01D-0966-08	50881266	131804663	9408768	32	548											
ITGA5	3678	broad.mit.edu;hgsc.bcm.edu	37	chr12	54798566	54798566	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgtggctggctgcccaCaggggctgcagaacctggga	6	6	19	10	0	0	1	0	0	0	1	0	2	0	2	2	7	3	4	2	7	1	0	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	54798566	C	G	54798566	2	3	9	1	0	0	0	0	0	0	0	1	7879	465	17	4		4	ITGA5	12	54798566	Silent	SNP	C	TCGA-A3-3323-01A-01D-0966-08		54798566	79053329	33	549											
MBD6	114785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57920770	57920770	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaccttcttccacctccTtcagcacctcccagcaacct	8	10	3	20	0	3	1	2	0	1	1	6	1	6	1	7	0	3	2	7	0	1	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	57920770	T	G	57920770	2	3	9	1	0	0	0	0	0	0	0	1	9348	1596	56	5		5	MBD6	12	57920770	Silent	SNP	T	TCGA-A3-3323-01A-01D-0966-08	3122204	57920770	75931125	34	550											
CIT	11113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120196473	120196473	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccacaatcctctgttccaggGatctgatcttggaatccata	10	12	7	12	0	3	1	0	1	3	0	6	3	6	3	4	2	0	1	4	2	3	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	120196473	G	A	120196473	3	1	9	1	0	0	0	0	1	0	0	0	3438	1174	41	2	3868	2	CIT	12	120196473	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	62275703	120196473	13655422	35	551											
DNAH10	196385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124420000	124420000	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttctcactgggtgctgcaagGagtatgcctcaccctgaatt	8	12	10	11	0	2	1	2	1	1	0	3	2	2	2	2	2	3	3	2	2	3	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	124420000	G	C	124420000	3	2	9	1	0	0	0	0	1	0	0	0	4598	1174	41	4	13698	4	DNAH10	12	124420000	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	4223527	124420000	9431895	36	552											
EP400	57634	broad.mit.edu	37	chr12	132445443	132445443	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagatcacactggccccActgccgctccccagccccac	8	4	7	22	1	1	1	1	0	0	1	2	1	2	1	7	1	3	2	7	1	0	0	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	132445443	C	C	132445443	2	2	9	1	0	0	0	0	0	0	0	1	5149	146	6	5		5	EP400	12	132445443	Silent	SNP	A	TCGA-A3-3323-01A-01D-0966-08	8025443	132445443	1406452	37	553											
GOLGA5	9950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	93301996	93301996	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgcaaagctgctagttcaAttgatcagtttaggtaagca	12	13	9	7	1	2	1	2	1	0	0	3	1	2	1	0	1	3	7	0	1	5	7	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	93301996	A	G	93301996	3	3	9	1	0	0	0	0	1	0	0	0	6556	101	4	3	2076	3	GOLGA5	14	93301996	Missense_Mutation	SNP	A	TCGA-A3-3323-01A-01D-0966-08		93301996	14047544	38	554											
DLL4	54567	broad.mit.edu	37	chr15	41222315	41222315	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcaatttcacctggccgGtgagcacagcctgggcgcac	7	8	11	15	2	2	1	2	1	0	0	2	1	2	1	4	3	2	2	4	3	1	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	41222315	T	T	41222315	5	4	9	1	0	0	0	0	0	0	1	0	4568	1275	44	4	343	4	DLL4	15	41222315	Splice_Site	SNP	G	TCGA-A3-3323-01A-01D-0966-08		41222315	61309077	39	555											
CCNB2	9133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59407028	59407028	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actccaagtttaggcttctgCaggagactctgtacatgtgc	9	12	10	10	0	2	1	0	0	2	1	3	2	3	1	1	2	3	4	1	2	3	4	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	59407028	C	T	59407028	4	4	9	1	0	0	0	0	0	1	0	0	2913	711	25	2	568	2	CCNB2	15	59407028	Nonsense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	18184713	59407028	43124364	40	556											
RPL4	6124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	66795006	66795006	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagggcagaacagatggcgTatcgtttttgggttgtgttc	7	13	14	7	2	0	2	0	0	0	2	2	2	0	2	1	3	1	5	1	3	2	5	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	66795006	T	A	66795006	3	1	9	1	0	0	0	0	1	0	0	0	13597	1638	57	5	946	5	RPL4	15	66795006	Missense_Mutation	SNP	T	TCGA-A3-3323-01A-01D-0966-08	7387978	66795006	35736386	41	557											
GOLGA6A	342096	broad.mit.edu	37	chr15	74365099	74365099	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccttctccagggagagcCacgaggcttagctgggtctc	7	9	13	12	1	2	1	0	0	2	1	4	3	2	1	3	3	3	3	3	3	2	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	74365099	A	A	74365099	2	1	9	1	0	0	0	0	0	0	0	1	6557	581	21	4		4	GOLGA6A	15	74365099	Silent	SNP	C	TCGA-A3-3323-01A-01D-0966-08	7570093	74365099	28166293	42	558											
KLHL25	64410	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	86312287	86312287	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatgaggagggcctcgCtggagacggcctcctgcagg	6	6	16	13	2	0	2	0	1	0	1	2	4	1	3	4	5	2	2	4	5	0	0	rs142937016		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	86312287	C	T	86312287	3	4	9	1	0	0	0	0	1	0	0	0	8380	797	28	2	1018	2	KLHL25	15	86312287	Missense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	11947188	86312287	16219105	43	559											
TMEM8A	58986	hgsc.bcm.edu	37	chr16	422040	422041	+	Frame_Shift_Ins	INS	-	-	G																															ttgcagatctgatagtggcaINSggggaatttctgcgagcagg																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	422041	-	G	422040	7	5	9	1	0	1	1	0	0	0	0	0	16213	188	7	0	56	0	TMEM8A	16	422040	Frame_Shift_Ins	INS	-	TCGA-A3-3323-01A-01D-0966-08		422040	89932713	44	560											
CRYM	1428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21272606	21272606	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacacggtggtcttctcacaGtgggctggtttcactccctt	6	13	10	12	1	3	0	2	0	2	0	5	0	4	0	1	4	1	2	1	4	1	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	21272606	G	T	21272606	3	4	9	1	0	0	0	0	1	0	0	0	3921	1020	36	4	103	4	CRYM	16	21272606	Missense_Mutation	SNP	G	TCGA-A3-3323-01A-01D-0966-08	20850566	21272606	69082147	45	561											
USP22	23326	broad.mit.edu;ucsc.edu	37	chr17	20931913	20931913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttctttgtgaaacagccGaagaagacacagtagaggca	14	8	11	8	1	1	4	0	1	1	3	1	5	1	4	1	1	3	3	1	1	4	3	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		A	20931913	A	A	20931913	2	1	9	1	0	0	0	0	0	0	0	1	17053	1049	37	1		1	USP22	17	20931913	Silent	SNP	G	TCGA-A3-3323-01A-01D-0966-08		20931913	60263297	46	562											
AFG3L2	10939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	12367034	12367034	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggatctcttgagcagcAagtaaaacatgactccaccc	12	8	7	14	1	1	2	0	2	1	0	4	3	3	3	3	1	3	3	3	1	3	2	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		T	12367034	A	T	12367034	4	4	9	1	0	0	0	0	0	1	0	0	360	131	5	5	1963	5	AFG3L2	18	12367034	Nonsense_Mutation	SNP	A	TCGA-A3-3323-01A-01D-0966-08		12367034	65710214	47	563											
SERPINB13	5275	hgsc.bcm.edu;ucsc.edu	37	chr18	61255961	61255961	+	Frame_Shift_Del	DEL	G	G	-																															gatcttttcaaagagctgaaGaaaacaaatgatggcaacat																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		-	61255961	G	-	61255961	7	5	9	1	0	1	0	1	0	0	0	0	14102	933	33	0	62	0	SERPINB13	18	61255961	Frame_Shift_Del	DEL	G	TCGA-A3-3323-01A-01D-0966-08	48888927	61255961	16821287	48	564											
ZNF653	115950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11596575	11596575	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctttccgatgcacaagaTtgacgtggttctggagacga	9	12	11	9	3	1	3	0	1	1	2	3	6	3	3	2	2	1	2	2	2	1	4	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		C	11596575	T	C	11596575	3	2	9	1	0	0	0	0	1	0	0	0	18065	1493	52	3	393	3	ZNF653	19	11596575	Missense_Mutation	SNP	T	TCGA-A3-3323-01A-01D-0966-08		11596575	47532408	49	565											
ZFP82	284406	hgsc.bcm.edu;ucsc.edu	37	chr19	36884285	36884292	+	Frame_Shift_Del	DEL	AAAGGCCT	AAAGGCCT	-																															ctaagaccagagccacacaaAaaggccttcccacattcttt																								novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	AAAGGCCT	AAAGGCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		-	36884292	AAAGGCCT	-	36884285	7	5	9	1	0	1	0	1	0	0	0	0	17652	11	1	0	645	0	ZFP82	19	36884285	Frame_Shift_Del	DEL	AAAGGCCT	TCGA-A3-3323-01A-01D-0966-08	25287710	36884285	22244698	50	566											
TTYH1	57348	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54942314	54942314	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagactctgaatgtgaCagaaggaaatttccaccagt	14	8	12	7	0	1	4	0	2	1	2	2	7	2	6	2	3	0	0	2	3	3	1	novel		TCGA-A3-3323-01A-01D-0966-08	TCGA-A3-3323-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21c50574-7496-4be5-b723-1fdb980fb208	2c1405f2-a53e-43b2-843e-eebbfe8074fe		G	54942314	C	G	54942314	3	3	9	1	0	0	0	0	1	0	0	0	16738	478	17	4	1108	4	TTYH1	19	54942314	Missense_Mutation	SNP	C	TCGA-A3-3323-01A-01D-0966-08	18058029	54942314	4186669	51	567											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu	37	chr1	19505691	19505691	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagaaaaaggagccacTcctagctgctgcaacagtgt	12	7	9	13	0	1	1	1	0	0	1	2	2	2	2	3	1	5	3	3	1	4	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	19505691	T	C	19505691	2	2	10	1	0	0	0	0	0	0	0	1	16903	1538	54	3		3	UBR4	1	19505691	Silent	SNP	T	TCGA-A3-3326-01A-01D-0966-08		19505691	229744930	1	568											
AIM1L	55057	hgsc.bcm.edu	37	chr1	26672402	26672403	+	Frame_Shift_Ins	INS	-	-	G																															gcctgggcaggtgactggcaINSggggggctgtgcccagcagg																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	26672403	-	G	26672402	7	5	10	1	0	1	1	0	0	0	0	0	431	203	7	0		0	AIM1L	1	26672402	Frame_Shift_Ins	INS	-	TCGA-A3-3326-01A-01D-0966-08	7166711	26672402	222578219	2	569											
SERINC2	347735	hgsc.bcm.edu	37	chr1	31902299	31902300	+	Frame_Shift_Ins	INS	-	-	G																															gcaacgagacagttgtggcaINSggccccgagggctatgagac																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	31902300	-	G	31902299	7	5	10	1	0	1	1	0	0	0	0	0	14082	175	7	0	957	0	SERINC2	1	31902299	Frame_Shift_Ins	INS	-	TCGA-A3-3326-01A-01D-0966-08	5229897	31902299	217348322	3	570											
BTF3L4	91408	broad.mit.edu;hgsc.bcm.edu	37	chr1	52552415	52552415	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattttgatgaggcatcaaaGaatgaagctaactaaaagtt	18	11	8	4	0	1	4	1	3	0	1	1	4	1	4	0	1	2	3	0	1	7	5	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	52552415	G	A	52552415	2	1	10	1	0	0	0	0	0	0	0	1	1552	933	33	2		2	BTF3L4	1	52552415	Silent	SNP	G	TCGA-A3-3326-01A-01D-0966-08	20650116	52552415	196698206	4	571											
LCE1E	353135	hgsc.bcm.edu	37	chr1	152760113	152760115	+	In_Frame_Del	DEL	ACT	ACT	-																															tggagggggcagcggccagcActctggaggctgctgctgaa																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	ACT	ACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	152760115	ACT	-	152760113	7	5	10	1	0	1	0	1	0	0	0	0	8663	159	6	0	340	0	LCE1E	1	152760113	In_Frame_Del	DEL	ACT	TCGA-A3-3326-01A-01D-0966-08	100207698	152760113	96490508	5	572											
DCST2	127579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154995893	154995893	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgcacacacggagcaGgtattgtccaggaggcggaa	12	5	16	8	2	0	1	0	0	0	1	1	5	1	4	1	6	2	3	1	6	2	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	154995893	G	A	154995893	2	1	10	1	0	0	0	0	0	0	0	1	4303	987	35	2		2	DCST2	1	154995893	Silent	SNP	G	TCGA-A3-3326-01A-01D-0966-08	2235780	154995893	94254728	6	573											
GON4L	54856	broad.mit.edu;hgsc.bcm.edu	37	chr1	155721637	155721637	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccttgctcctggcacatgGtgaggatcacacggtcagct	7	9	11	14	1	2	1	2	1	0	0	3	2	3	2	3	4	2	3	3	4	0	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	155721637	G	C	155721637	3	2	10	1	0	0	0	0	1	0	0	0	6572	1261	44	4	236	4	GON4L	1	155721637	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08	725744	155721637	93528984	7	574											
PAPPA2	60676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	176659299	176659299	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcctcagcccagcatatTatgggatgcctggccacacc	8	10	9	14	0	1	0	1	0	0	0	2	1	2	1	5	2	3	1	5	2	2	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	176659299	T	C	176659299	3	2	10	1	0	0	0	0	1	0	0	0	11433	1754	61	3	2178	3	PAPPA2	1	176659299	Missense_Mutation	SNP	T	TCGA-A3-3326-01A-01D-0966-08	20937662	176659299	72591322	8	575											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179593688	179593688	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgacaggtatatctcccActgtgtccattatccacact	9	13	6	13	0	1	1	0	1	1	0	4	1	3	1	3	1	0	2	3	1	3	4	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	179593688	A	G	179593688	2	3	10	1	0	0	0	0	0	0	0	1	16734	156	6	3		3	TTN	2	179593688	Silent	SNP	A	TCGA-A3-3326-01A-01D-0966-08		179593688	63605685	9	576											
COL5A2	1290	hgsc.bcm.edu;ucsc.edu	37	chr2	189925460	189925464	+	Frame_Shift_Del	DEL	TCACC	TCACC	-																															ttatttaaacacttacttgaTcacctggttttccaccttct																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	TCACC	TCACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	189925464	TCACC	-	189925460	7	5	10	1	0	1	0	1	0	0	0	0	3697	1435	50	0	2514	0	COL5A2	2	189925460	Frame_Shift_Del	DEL	TCACC	TCGA-A3-3326-01A-01D-0966-08	10331772	189925460	53273913	10	577											
COL4A3	1285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228176506	228176506	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgtttttatttcagaaagCctattccatcaactgtgaaa	12	17	5	7	0	2	2	2	1	0	1	3	2	3	2	2	0	2	1	2	0	5	7	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	228176506	C	T	228176506	3	4	10	1	0	0	0	0	1	0	0	0	3691	739	26	2	5139	2	COL4A3	2	228176506	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08	38251046	228176506	15022867	11	578											
NGLY1	55768	broad.mit.edu;hgsc.bcm.edu	37	chr3	25824816	25824816	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaaggtctccggggtgttCtggcagagctcagccacggc	9	7	14	11	2	3	1	1	0	2	1	4	1	3	1	2	5	2	3	2	5	2	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	25824816	C	T	25824816	2	4	10	1	0	0	0	0	0	0	0	1	10398	912	32	2		2	NGLY1	3	25824816	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08		25824816	172197614	12	579											
BSN	8927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49690033	49690033	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccagccgcaggcagcGtctagaagaagcaaagcagc	13	2	12	14	2	1	2	0	0	1	2	1	2	1	2	3	1	6	4	3	1	4	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	49690033	G	A	49690033	3	1	10	1	0	0	0	0	1	0	0	0	1530	1145	40	1	3062	1	BSN	3	49690033	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08	23865217	49690033	148332397	13	580											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52597379	52597379	+	Frame_Shift_Del	DEL	C	C	-																															tagagaaggaggttcaatgaCctcactatcttcttctccca																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	52597379	C	-	52597379	7	5	10	1	0	1	0	1	0	0	0	0	11491	521	18	0	922	0	PBRM1	3	52597379	Frame_Shift_Del	DEL	C	TCGA-A3-3326-01A-01D-0966-08	2907346	52597379	145425051	14	581											
MYH15	22989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	108205348	108205348	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaaagtggaagtctgaGggatttgcagataccaggag	14	7	15	5	0	1	2	0	1	1	1	1	6	1	5	1	3	3	2	1	3	4	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	108205348	G	C	108205348	2	2	10	1	0	0	0	0	0	0	0	1	10034	987	35	4		4	MYH15	3	108205348	Silent	SNP	G	TCGA-A3-3326-01A-01D-0966-08	55607969	108205348	89817082	15	582											
KPNA1	3836	broad.mit.edu;ucsc.edu	37	chr3	122160886	122160886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttaccacttcttcataccTgtgtctgaatatcatcccct	9	15	4	13	0	4	1	2	1	2	0	5	1	5	1	4	0	2	1	4	0	4	5	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	122160886	C	C	122160886	3	2	10	1	0	0	0	0	1	0	0	0	8429	1594	55	3	641	3	KPNA1	3	122160886	Missense_Mutation	SNP	T	TCGA-A3-3326-01A-01D-0966-08	13955538	122160886	75861544	16	583											
CDH10	1008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	24491776	24491776	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcagcactgcaggattgCatgttgccttggctgtcaca	7	12	11	11	0	2	0	2	0	0	0	2	1	2	1	1	2	4	6	1	2	0	4	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	24491776	C	T	24491776	3	4	10	1	0	0	0	0	1	0	0	0	3096	710	25	2	589	2	CDH10	5	24491776	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08		24491776	156423484	17	584											
KDM3B	51780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137708520	137708520	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgagtctccattgcacaatGgccagccctggtgagtggct	7	10	12	12	1	1	1	0	1	1	0	3	2	1	1	3	3	2	2	3	3	1	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	137708520	G	T	137708520	3	4	10	1	0	0	0	0	1	0	0	0	8127	1357	47	4	356	4	KDM3B	5	137708520	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08	113216744	137708520	43206740	18	585											
FAT2	2196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150945790	150945790	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagaagagctggtggccTttgctgggctgatccctggc	7	9	15	10	0	0	3	0	1	0	2	1	4	1	3	2	4	2	3	2	4	1	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	150945790	T	C	150945790	2	2	10	1	0	0	0	0	0	0	0	1	5690	1606	56	3		3	FAT2	5	150945790	Silent	SNP	T	TCGA-A3-3326-01A-01D-0966-08	13237270	150945790	29969470	19	586											
MAK	4117	hgsc.bcm.edu	37	chr6	10796273	10796274	+	Frame_Shift_Ins	INS	-	-	G																															tcgggaatagcgtttgtggcINSggtttctcctgactctgttg																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	10796274	-	G	10796273	7	5	10	1	0	1	1	0	0	0	0	0	9197	755	27	0	794	0	MAK	6	10796273	Frame_Shift_Ins	INS	-	TCGA-A3-3326-01A-01D-0966-08		10796273	160318794	20	587											
NRSN1	140767	hgsc.bcm.edu;ucsc.edu	37	chr6	24145877	24145877	+	Frame_Shift_Del	DEL	T	T	-																															gaagcatttggcgaagccgaTtttgtggtggtcgacacaca																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	24145877	T	-	24145877	7	5	10	1	0	1	0	1	0	0	0	0	10662	1490	52	0	297	0	NRSN1	6	24145877	Frame_Shift_Del	DEL	T	TCGA-A3-3326-01A-01D-0966-08	13349604	24145877	146969190	21	588											
RPL10A	4736	hgsc.bcm.edu	37	chr6	35437244	35437247	+	Frame_Shift_Del	DEL	CCCA	CCCA	-																															ggctaaggccgtggatatccCccacatggacatcgaggcgc																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	CCCA	CCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	35437247	CCCA	-	35437244	7	5	10	1	0	1	0	1	0	0	0	0	13557	623	22	0	262	0	RPL10A	6	35437244	Frame_Shift_Del	DEL	CCCA	TCGA-A3-3326-01A-01D-0966-08	11291367	35437244	135677823	22	589											
TBCC	6903	broad.mit.edu;hgsc.bcm.edu	37	chr6	42713803	42713803	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcggagcaactgacGgactccatattggcttcaag	11	7	12	11	2	1	1	1	1	0	0	2	3	2	3	1	3	4	4	1	3	3	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	42713803	G	A	42713803	2	1	10	1	0	0	0	0	0	0	0	1	15630	1103	39	1		1	TBCC	6	42713803	Silent	SNP	G	TCGA-A3-3326-01A-01D-0966-08	7276559	42713803	128401264	23	590											
ME1	4199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	83963360	83963360	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgttaccttgaatatcatCattgaatgtgcaatactggt	11	17	7	6	0	2	2	2	2	0	0	2	2	2	2	1	1	3	2	1	1	6	6	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	83963360	C	T	83963360	3	4	10	1	0	0	0	0	1	0	0	0	9417	826	29	2	948	2	ME1	6	83963360	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08	41249557	83963360	87151707	24	591											
TMEM181	57583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	159029391	159029391	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttccccctctccttcctgGtcaacagctggctcccaggg	4	11	8	18	0	3	0	1	0	2	0	7	0	6	0	5	3	2	2	5	3	1	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	159029391	G	A	159029391	3	1	10	1	0	0	0	0	1	0	0	0	16099	1261	44	2	1145	2	TMEM181	6	159029391	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08	75066031	159029391	12085676	25	592											
TMEM195	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	15405181	15405181	+	Frame_Shift_Del	DEL	A	A	-																															gggacaagaggcttcaggtgAccaaatcggtacagcattaa																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	15405181	A	-	15405181	7	5	10	1	0	1	0	1	0	0	0	0	16116	262	10	0	124	0	TMEM195	7	15405181	Frame_Shift_Del	DEL	A	TCGA-A3-3326-01A-01D-0966-08		15405181	143733482	26	593											
ZNF679	168417	broad.mit.edu;ucsc.edu	37	chr7	63726378	63726378	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaagtggacatgacaatTtacaagtaaaaacatgtaaa	22	8	7	4	0	0	1	0	1	0	0	0	3	0	2	0	1	2	2	0	1	10	4	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	63726378	A	A	63726378	3	1	10	1	0	0	0	0	1	0	0	0	18085	1838	64	5	381	5	ZNF679	7	63726378	Missense_Mutation	SNP	T	TCGA-A3-3326-01A-01D-0966-08	48321197	63726378	95412285	27	594											
TRPV6	55503	broad.mit.edu;ucsc.edu	37	chr7	142572835	142572835	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatccacacctcacctctAccagcaggatgatgatagcc	11	8	6	16	0	2	2	1	2	1	0	4	3	4	3	6	1	3	1	6	1	2	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	142572835	G	G	142572835	3	3	10	1	0	0	0	0	1	0	0	0	16599	391	14	3	1000	3	TRPV6	7	142572835	Missense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08	78846457	142572835	16565828	28	595											
ZNF425	155054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148801994	148801994	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagggcttctctccgctgtgCagccgcaagtgctccgtgag	6	9	13	13	3	1	1	0	1	1	0	4	1	3	1	3	1	3	5	3	1	2	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	148801994	C	G	148801994	2	3	10	1	0	0	0	0	0	0	0	1	17898	697	25	4		4	ZNF425	7	148801994	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08	6229159	148801994	10336669	29	596											
ABP1	26	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150554284	150554284	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggtacaacgggaagttCtatgggagcccagaggaact	11	8	15	7	1	1	1	0	0	1	1	1	4	1	4	1	4	4	2	1	4	5	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	150554284	C	A	150554284	3	1	10	1	0	0	0	0	1	0	0	0	98	912	32	4	728	4	ABP1	7	150554284	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08	1752290	150554284	8584379	30	597											
BLK	640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11412944	11412944	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagatcccccggcagtctctCaggctggtcaggaaactcgg	8	7	13	13	2	3	1	2	0	1	1	6	3	4	2	2	5	1	2	2	5	1	0	rs149756811	alternate_allele	TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	11412944	C	G	11412944	2	3	10	1	0	0	0	0	0	0	0	1	1444	813	29	4		4	BLK	8	11412944	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08		11412944	134951078	31	598											
FAM135B	51059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	139190851	139190851	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgactgtgtccaggaactggGtccacagagtcatcatgtgg	9	10	13	9	0	2	2	2	1	0	1	4	3	4	3	2	3	1	0	2	3	1	0	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	139190851	G	T	139190851	3	4	10	1	0	0	0	0	1	0	0	0	5449	1261	44	4	3308	4	FAM135B	8	139190851	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08	127777907	139190851	7173171	32	599											
INSC	387755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	15170770	15170770	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggactccgtcaccctgccggGtcagcggtaagtcctacagc	7	7	12	15	3	2	0	2	0	0	0	4	1	4	1	4	3	4	1	4	3	2	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	15170770	G	A	15170770	3	1	10	1	0	0	0	0	1	0	0	0	7764	1261	44	2	197	2	INSC	11	15170770	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08		15170770	119835746	33	600											
WT1	7490	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32421532	32421532	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accgtgcgtgtgtattctgtAttgggctccgcagaggatgg	6	12	15	8	3	1	1	0	0	1	1	2	2	2	2	2	3	1	4	2	3	2	4	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	32421532	A	T	32421532	3	4	10	1	0	0	0	0	1	0	0	0	17407	449	16	5	513	5	WT1	11	32421532	Missense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08	17250762	32421532	102584984	34	601											
ZFP91	80829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	58384897	58384897	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcacagatatcttgggCactaacccagagtccctgac	12	7	8	14	0	1	3	0	1	1	2	2	3	2	3	3	1	2	2	3	1	2	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	58384897	C	A	58384897	2	1	10	1	0	0	0	0	0	0	0	1	17654	697	25	4		4	ZFP91	11	58384897	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08	25963365	58384897	76621619	35	602											
MS4A3	932	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	59837676	59837676	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatgttgttttattttctaGgaaatttcctcacctcccaa	10	18	4	9	0	2	0	1	0	1	0	4	1	4	1	3	1	0	2	3	1	5	8	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	59837676	G	A	59837676	5	1	10	1	0	0	0	0	0	0	1	0	9861	1014	35	2	637	2	MS4A3	11	59837676	Splice_Site	SNP	G	TCGA-A3-3326-01A-01D-0966-08	1452779	59837676	75168840	36	603											
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu	37	chr11	122930668	122930668	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaagattccatcctcaatAgtgaggattgacacatcaaa	16	10	6	9	0	3	3	3	2	0	1	5	4	5	4	2	1	0	0	2	1	4	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	122930668	A	G	122930668	2	3	10	1	0	0	0	0	0	0	0	1	7416	407	15	3		3	HSPA8	11	122930668	Silent	SNP	A	TCGA-A3-3326-01A-01D-0966-08	63092992	122930668	12075848	37	604											
ARHGAP32	9743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	128839969	128839969	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagcataactgtacaagctCtttccttgcagcctaggatt	10	12	7	12	0	1	0	0	0	1	0	2	1	2	1	3	1	6	4	3	1	4	6	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	128839969	C	T	128839969	2	4	10	1	0	0	0	0	0	0	0	1	881	912	32	2		2	ARHGAP32	11	128839969	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08	5909301	128839969	6166547	38	605											
PML	5371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	74336686	74336686	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaggtggggctgcagcacttCctcagctttctgagctccat	6	11	12	12	0	2	1	1	1	1	0	4	2	4	1	2	3	4	5	2	3	0	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	74336686	C	G	74336686	3	3	10	1	0	0	0	0	1	0	0	0	12135	854	30	4	3037	4	PML	15	74336686	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08		74336686	28194706	39	606											
NAT15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3533548	3533548	+	Missense_Mutation	SNP	T	T	C																															gaggggtcctcaaagatggcTtcacctatgtcctctacatc																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	3533548	T	C	3533548	3	2	10	1	0	0	0	0	1	0	0	0	10176	1609	56	3	537	3	NAT15	16	3533548	Missense_Mutation	SNP	T	TCGA-A3-3326-01A-01D-0966-08		3533548	86821205	40	607	9	2									
NAT15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3533549	3533549	+	Missense_Mutation	SNP	T	T	A																															aggggtcctcaaagatggctTcacctatgtcctctacatca																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	3533549	T	A	3533549	3	1	10	1	0	0	0	0	1	0	0	0	10176	1783	62	5	538	5	NAT15	16	3533549	Missense_Mutation	SNP	T	TCGA-A3-3326-01A-01D-0966-08	1	3533549	86821204	41	608	9	2									
ANKS4B	257629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21261382	21261382	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataagatggcccacacctaCagcaaggaggaatccgggac	15	4	11	11	1	0	1	0	0	0	1	1	4	1	4	3	4	2	1	3	4	5	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	21261382	C	G	21261382	4	3	10	1	0	0	0	0	0	1	0	0	691	489	17	4	501	4	ANKS4B	16	21261382	Nonsense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08	17727833	21261382	69093371	42	609											
GTF3C1	2975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27497454	27497454	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggtagcgcagccttttgCttttttctcctgggaactct	5	16	9	11	1	2	0	0	0	2	0	3	1	2	1	2	2	4	3	2	2	2	6	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	27497454	C	A	27497454	3	1	10	1	0	0	0	0	1	0	0	0	6872	797	28	4	2663	4	GTF3C1	16	27497454	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08	6236072	27497454	62857299	43	610											
CHST4	10164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71570851	71570851	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcaccgcctggatgctgCacatggctgtgcgggatctg	7	8	15	11	2	1	1	0	0	1	1	1	3	1	3	2	3	4	4	2	3	0	0	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	71570851	C	T	71570851	3	4	10	1	0	0	0	0	1	0	0	0	3406	710	25	2	273	2	CHST4	16	71570851	Missense_Mutation	SNP	C	TCGA-A3-3326-01A-01D-0966-08	44073397	71570851	18783902	44	611											
SMCR8	140775	broad.mit.edu;ucsc.edu	37	chr17	18219186	18219186	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgagccggccctgcctgAggagtactcggtgccgctct	6	8	13	14	3	1	2	0	2	1	0	2	3	1	3	4	3	4	2	4	3	2	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	18219186	G	G	18219186	3	3	10	1	0	0	0	0	1	0	0	0	14794	304	11	3	85	3	SMCR8	17	18219186	Missense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08		18219186	62976024	45	612											
CYTSB	0	broad.mit.edu;ucsc.edu	37	chr17	20108270	20108270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgatgagtataaaaaaaAcatacatggaaatgcattac	20	10	6	5	0	0	2	0	2	0	0	0	3	0	3	0	1	4	2	0	1	8	5	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	20108270	G	G	20108270	3	3	10	1	0	0	0	0	1	0	0	0	4210	43	2	3	962	3	CYTSB	17	20108270	Missense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08	1889084	20108270	61086940	46	613											
CNTNAP1	8506	broad.mit.edu;hgsc.bcm.edu	37	chr17	40836243	40836243	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctaccagcgagggcacaActcggtactctgggcgccaa	9	7	12	13	3	2	0	0	0	2	0	3	1	2	0	2	3	4	3	2	3	4	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	40836243	A	G	40836243	3	3	10	1	0	0	0	0	1	0	0	0	3646	43	2	3	369	3	CNTNAP1	17	40836243	Missense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08	20727973	40836243	40358967	47	614											
MKS1	54903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56285343	56285343	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacctcacagtagagcacAggccactccgggagtgcatc	11	5	12	13	1	1	1	1	0	0	1	3	3	2	3	3	3	2	3	3	3	1	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	56285343	A	G	56285343	2	3	10	1	0	0	0	0	0	0	0	1	9609	175	7	3		3	MKS1	17	56285343	Silent	SNP	A	TCGA-A3-3326-01A-01D-0966-08	15449100	56285343	24909867	48	615											
CACNG4	27092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65021007	65021007	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcctccagcgtcttccccatCctcagcaccatcctgctcct	5	10	5	21	1	2	0	1	0	1	0	7	0	7	0	8	0	3	2	8	0	0	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	65021007	C	T	65021007	2	4	10	1	0	0	0	0	0	0	0	1	2559	845	30	2		2	CACNG4	17	65021007	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08	8735664	65021007	16174203	49	616											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6966196	6966196	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccattaggtgaaaaggtatTaaaaagcatgattatctggg	15	12	10	4	0	1	2	0	2	1	0	2	2	2	2	1	3	1	2	1	3	8	4	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	6966196	T	A	6966196	3	1	10	1	0	0	0	0	1	0	0	0	8605	1754	61	5	2287	5	LAMA1	18	6966196	Missense_Mutation	SNP	T	TCGA-A3-3326-01A-01D-0966-08		6966196	71111052	50	617											
ME2	4200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	48439249	48439249	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagatgacattgagagtttAatgccaattgtatatacacc	15	12	7	7	0	0	3	0	2	0	2	0	4	0	3	2	0	2	2	2	0	6	7	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		C	48439249	A	C	48439249	3	2	10	1	0	0	0	0	1	0	0	0	9418	359	13	5	331	5	ME2	18	48439249	Missense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08	41473053	48439249	29637999	51	618											
MAST3	23031	broad.mit.edu	37	chr19	18234143	18234143	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgcttgatgaggaaggCggccggtcaccccgcctccg	7	7	14	13	4	1	2	1	2	0	0	2	3	2	3	5	4	1	1	5	4	2	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		A	18234143	A	A	18234143	2	1	10	1	0	0	0	0	0	0	0	1	9326	755	27	4		4	MAST3	19	18234143	Silent	SNP	C	TCGA-A3-3326-01A-01D-0966-08		18234143	40894840	52	619											
CD22	933	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35827039	35827039	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctgctatgggtatccGatccaattgcagtggctcct	6	14	9	12	1	1	0	0	0	1	0	5	1	4	0	4	2	2	4	4	2	3	4	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	35827039	G	T	35827039	2	4	10	1	0	0	0	0	0	0	0	1	2985	1045	37	4		4	CD22	19	35827039	Silent	SNP	G	TCGA-A3-3326-01A-01D-0966-08	17592896	35827039	23301944	53	620											
ZNF773	374928	broad.mit.edu;hgsc.bcm.edu	37	chr19	58018037	58018037	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctggaaaaaggcattacAaatgcagtgaatgtgggaaa	17	8	12	4	0	0	1	0	1	0	0	0	3	0	3	0	3	3	3	0	3	6	1	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	58018037	A	T	58018037	4	4	10	1	0	0	0	0	0	1	0	0	18145	131	5	5	588	5	ZNF773	19	58018037	Nonsense_Mutation	SNP	A	TCGA-A3-3326-01A-01D-0966-08	22190998	58018037	1110946	54	621											
ZNFX1	57169	hgsc.bcm.edu;ucsc.edu	37	chr20	47864087	47864093	+	Frame_Shift_Del	DEL	AGGCCAG	AGGCCAG	-																															gctcttcctctgagatgcccAggccagagcagggaagggtg																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	AGGCCAG	AGGCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	47864093	AGGCCAG	-	47864087	7	5	10	1	0	1	0	1	0	0	0	0	18204	188	7	0	286	0	ZNFX1	20	47864087	Frame_Shift_Del	DEL	AGGCCAG	TCGA-A3-3326-01A-01D-0966-08		47864087	15161433	55	622											
CTCFL	140690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	56099123	56099123	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggtacgctcggcctccaActcactagggctccgatggt	8	8	12	13	3	1	1	1	0	0	1	4	2	3	1	3	4	2	3	3	4	3	2	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		G	56099123	A	G	56099123	2	3	10	1	0	0	0	0	0	0	0	1	4001	40	2	3		3	CTCFL	20	56099123	Silent	SNP	A	TCGA-A3-3326-01A-01D-0966-08	8235036	56099123	6926397	56	623											
PCK1	5105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	56138150	56138150	+	Frame_Shift_Del	DEL	G	G	-																															cgcccacctgcctgaccgcaGagagatcatctcctttggca																								novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		-	56138150	G	-	56138150	7	5	10	1	0	1	0	1	0	0	0	0	11581	942	33	0	691	0	PCK1	20	56138150	Frame_Shift_Del	DEL	G	TCGA-A3-3326-01A-01D-0966-08	39027	56138150	6887370	57	624											
BACH1	571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	30714928	30714928	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agataaaagtactcctgatgGtgaactggcgttaccatcaa	14	10	9	8	1	1	3	1	2	0	1	2	3	2	3	2	2	3	2	2	2	6	3	novel		TCGA-A3-3326-01A-01D-0966-08	TCGA-A3-3326-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60ed222b-cd0c-4bc5-acd0-39f207be3289	51796640-6ad6-4052-94c3-fa285e430708		T	30714928	G	T	30714928	3	4	10	1	0	0	0	0	1	0	0	0	1283	1261	44	4	1999	4	BACH1	21	30714928	Missense_Mutation	SNP	G	TCGA-A3-3326-01A-01D-0966-08		30714928	17414967	58	625											
CELA3B	23436	broad.mit.edu;hgsc.bcm.edu	37	chr1	22304925	22304925	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaatggtgaggatgcggTcccctacagctggccctggc	6	9	14	12	1	1	1	1	1	0	0	2	2	2	2	3	5	3	1	3	5	2	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	22304925	T	A	22304925	3	1	11	1	0	0	0	0	1	0	0	0	3214	1667	58	5	113	5	CELA3B	1	22304925	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08		22304925	226945696	1	626											
HDAC1	3065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32796451	32796451	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggttacaccattcgtaaCgttgcccggtgctggacata	8	11	12	10	3	0	0	0	0	0	0	1	1	0	1	2	4	4	4	2	4	3	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	32796451	C	T	32796451	2	4	11	1	0	0	0	0	0	0	0	1	7004	535	19	1		1	HDAC1	1	32796451	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08	10491526	32796451	216454170	2	627											
KIAA1522	57648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33237800	33237800	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcagaactccggagcatctCagagcagcggccaccccagg	10	3	13	15	2	1	2	1	0	1	2	3	3	2	3	4	4	4	3	4	4	1	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	33237800	C	T	33237800	3	4	11	1	0	0	0	0	1	0	0	0	8238	838	29	2	3042	2	KIAA1522	1	33237800	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	441349	33237800	216012821	3	628											
ZMYM6	9204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35480663	35480663	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaacaacaggttttttctTtagctcataagatgacaagc	13	13	8	7	0	2	2	1	1	1	1	2	2	2	2	0	2	4	3	0	2	5	7	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	35480663	T	C	35480663	3	2	11	1	0	0	0	0	1	0	0	0	17703	1850	64	3	3496	3	ZMYM6	1	35480663	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	2242863	35480663	213769958	4	629											
ZYG11B	79699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53245634	53245634	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttagtctgactcatgTgatggaaaaaacaaagccag	14	12	8	7	0	3	2	1	2	2	0	3	3	3	3	1	1	2	0	1	1	5	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	53245634	T	A	53245634	3	1	11	1	0	0	0	0	1	0	0	0	18252	1696	59	5	1075	5	ZYG11B	1	53245634	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	17764971	53245634	196004987	5	630											
C1orf83	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54562078	54562078	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacattaaagcaccgagctGaaatccgggctcaggtgaag	13	7	11	10	2	2	2	2	2	0	0	3	3	3	2	2	2	2	3	2	2	4	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	54562078	G	A	54562078	3	1	11	1	0	0	0	0	1	0	0	0	2060	1291	45	2	573	2	C1orf83	1	54562078	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	1316444	54562078	194688543	6	631											
MIER1	57708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67450321	67450321	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagttgaagggttacacaTtaatggaccaacaggtggaa	17	8	11	5	0	0	1	0	1	0	0	0	3	0	3	1	4	2	2	1	4	7	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	67450321	T	G	67450321	3	3	11	1	0	0	0	0	1	0	0	0	9580	1493	52	5	1567	5	MIER1	1	67450321	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	12888243	67450321	181800300	7	632											
DENND2D	79961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111734915	111734915	+	Silent	SNP	A	A	C																															gggtagagcagtgcggcagcAgcatggatgcactgagacaa																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	111734915	A	C	111734915	2	2	11	1	0	0	0	0	0	0	0	1	4431	175	7	5		5	DENND2D	1	111734915	Silent	SNP	A	TCGA-A3-3346-01A-01D-0966-08	44284594	111734915	137515706	8	633	10	2									
DENND2D	79961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111734916	111734916	+	Missense_Mutation	SNP	G	G	T																															ggtagagcagtgcggcagcaGcatggatgcactgagacaag																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	111734916	G	T	111734916	3	4	11	1	0	0	0	0	1	0	0	0	4431	971	34	4	617	4	DENND2D	1	111734916	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	1	111734916	137515705	9	634	10	2									
S100A14	57402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153587436	153587436	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcccagaaactcctgaaCtccagtttagagtcattgca	12	10	7	12	0	1	3	1	1	0	2	4	3	4	3	3	0	4	3	3	0	3	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	153587436	C	A	153587436	3	1	11	1	0	0	0	0	1	0	0	0	13778	564	20	4	78	4	S100A14	1	153587436	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	41852520	153587436	95663185	10	635											
GON4L	54856	broad.mit.edu;hgsc.bcm.edu	37	chr1	155753882	155753882	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccatctcatcttggaacTgtgggcaaaggaaagggagg	12	8	13	8	0	2	0	1	0	2	0	4	3	3	3	1	5	1	1	1	5	3	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	155753882	T	G	155753882	5	3	11	1	0	0	0	0	0	0	1	0	6572	1594	55	5	5128	5	GON4L	1	155753882	Splice_Site	SNP	T	TCGA-A3-3346-01A-01D-0966-08	2166446	155753882	93496739	11	636											
KIAA1614	57710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	180904820	180904820	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccccggctccacatggAatggatccgggaaacacaca	13	4	11	13	2	0	1	0	0	0	1	2	4	2	4	4	4	2	1	4	4	2	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	180904820	A	C	180904820	3	2	11	1	0	0	0	0	1	0	0	0	8248	246	9	5	1793	5	KIAA1614	1	180904820	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	25150938	180904820	68345801	12	637											
MARK1	4139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220752837	220752837	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaattaccgtttacaaaaaAcaatagggaagggaaatttt	19	10	8	4	1	0	0	0	0	0	0	0	3	0	2	1	2	3	1	1	2	10	6	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	220752837	A	G	220752837	3	3	11	1	0	0	0	0	1	0	0	0	9312	43	2	3	199	3	MARK1	1	220752837	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	39848017	220752837	28497784	13	638											
ASAP2	8853	broad.mit.edu	37	chr2	9533614	9533614	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccctgtcctccgcagatcCcctgacccccacgccgcccc	4	6	6	25	3	0	2	0	1	0	1	4	2	4	2	10	0	0	1	10	0	0	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	9533614	A	A	9533614	3	1	11	1	0	0	0	0	1	0	0	0	1011	623	22	4	2616	4	ASAP2	2	9533614	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08		9533614	233665759	14	639											
PQLC3	130814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11304356	11304356	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcttcttggttcatccttgCcctgcagaagtggatcatag	7	14	10	10	0	4	1	2	0	2	1	5	2	5	2	2	2	2	2	2	2	2	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	11304356	C	A	11304356	3	1	11	1	0	0	0	0	1	0	0	0	12422	739	26	4	337	4	PQLC3	2	11304356	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	1770742	11304356	231895017	15	640											
IFT172	26160	hgsc.bcm.edu;ucsc.edu	37	chr2	27684150	27684150	+	Frame_Shift_Del	DEL	C	C	-																															gcataccctttcgtagagttCccccttgataagggctgcag																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		-	27684150	C	-	27684150	7	5	11	1	0	1	0	1	0	0	0	0	7557	864	30	0	2929	0	IFT172	2	27684150	Frame_Shift_Del	DEL	C	TCGA-A3-3346-01A-01D-0966-08	16379794	27684150	215515223	16	641											
MDH1	4190	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63834039	63834039	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctccctattaatgattTctcacgtgagaagatggatc	11	13	9	8	1	2	3	1	2	2	2	5	5	2	4	1	2	0	0	1	2	3	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	63834039	T	A	63834039	3	1	11	1	0	0	0	0	1	0	0	0	9408	1783	62	5	957	5	MDH1	2	63834039	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	36149889	63834039	179365334	17	642											
ANXA4	307	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	70045736	70045736	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttattgtctgcagtgtttGatgaatacaaaaggatatca	13	15	9	4	0	2	2	1	2	1	0	2	3	2	3	0	1	2	3	0	1	6	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	70045736	G	A	70045736	3	1	11	1	0	0	0	0	1	0	0	0	720	1290	45	2	668	2	ANXA4	2	70045736	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	6211697	70045736	173153637	18	643											
TMEM131	23505	broad.mit.edu;hgsc.bcm.edu	37	chr2	98418894	98418894	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccaagcaatacttaccttGatactaacttatctacaaac	15	12	2	12	0	1	1	0	1	1	0	2	1	2	1	2	0	7	1	2	0	9	7	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	98418894	G	A	98418894	3	1	11	1	0	0	0	0	1	0	0	0	16043	1294	45	2	3075	2	TMEM131	2	98418894	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	28373158	98418894	144780479	19	644											
SSFA2	6744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	182766972	182766972	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgaaaatgaacaaagtaaaGaaactcaaagtcatgagagt	21	7	8	5	0	2	4	2	3	0	2	2	5	2	4	0	0	2	1	0	0	8	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	182766972	G	C	182766972	3	2	11	1	0	0	0	0	1	0	0	0	15184	943	33	4	1222	4	SSFA2	2	182766972	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	84348078	182766972	60432401	20	645											
NUP35	129401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	184016285	184016285	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagccacgaaagacgacAttatctcctgcccagttgga	11	8	10	12	2	2	1	1	0	1	1	3	4	2	2	3	2	2	1	3	2	2	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	184016285	A	C	184016285	2	2	11	1	0	0	0	0	0	0	0	1	10763	204	8	5		5	NUP35	2	184016285	Silent	SNP	A	TCGA-A3-3346-01A-01D-0966-08	1249313	184016285	59183088	21	646											
KCTD18	130535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201354993	201354993	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatcacccgctggggtgtagGcttcttgtcggagagtagca	7	11	14	9	2	2	1	1	0	1	1	3	2	2	1	1	4	1	5	1	4	3	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	201354993	G	C	201354993	3	2	11	1	0	0	0	0	1	0	0	0	8105	1203	42	4	173	4	KCTD18	2	201354993	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	17338708	201354993	41844380	22	647											
TUBA4A	7277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220116808	220116808	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcacagaagaaggtggTgaaggagtcgtcccctccac	11	8	12	10	1	1	3	1	1	0	2	4	4	3	4	3	3	0	1	3	3	3	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	220116808	T	G	220116808	3	3	11	1	0	0	0	0	1	0	0	0	16748	1696	59	5	1210	5	TUBA4A	2	220116808	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	18761815	220116808	23082565	23	648											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238244811	238244811	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggctggcttggtggcagCtggtttggctgcctgtggcc	1	12	19	9	0	0	0	0	0	0	0	0	0	0	0	2	8	2	6	2	8	0	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	238244811	C	T	238244811	3	4	11	1	0	0	0	0	1	0	0	0	3701	797	28	2	621	2	COL6A3	2	238244811	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	18128003	238244811	4954562	24	649											
CLASP2	23122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33725901	33725901	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcctcactttttctccCacatgtctataaatctccac	9	15	1	16	0	4	0	1	0	3	0	8	0	6	0	4	0	0	0	4	0	3	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	33725901	C	A	33725901	2	1	11	1	0	0	0	0	0	0	0	1	3455	581	21	4		4	CLASP2	3	33725901	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08		33725901	164296529	25	650											
ABHD14A	25864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52012054	52012054	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcacccctggcaactcGcccatcttttaccgcgaggt	6	10	9	16	3	2	0	1	0	2	0	4	1	2	0	4	3	2	1	4	3	2	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	52012054	G	A	52012054	2	1	11	1	0	0	0	0	0	0	0	1	79	1074	38	1		1	ABHD14A	3	52012054	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08	18286153	52012054	146010376	26	651											
POLQ	10721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121187276	121187276	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttctgtaaaggttattcGtcctaaaatcaagcagaata	14	13	8	6	1	2	1	1	0	1	1	4	1	3	1	1	2	1	4	1	2	8	6	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	121187276	G	A	121187276	4	1	11	1	0	0	0	0	0	1	0	0	12208	1153	40	1	1083	1	POLQ	3	121187276	Nonsense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	69175222	121187276	76835154	27	652											
RBM47	54502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	40428110	40428110	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagatcccggcagtaggAattctctgaacgtttggagc	9	10	12	10	3	1	2	0	1	1	1	3	4	2	4	2	3	2	4	2	3	4	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	40428110	A	G	40428110	2	3	11	1	0	0	0	0	0	0	0	1	13143	242	9	3		3	RBM47	4	40428110	Silent	SNP	A	TCGA-A3-3346-01A-01D-0966-08		40428110	150726166	28	653											
RASSF6	166824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	74442420	74442420	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcctctgcagtagcggAatgtctgtcttctttagtcg	7	13	12	9	2	4	0	0	0	4	0	5	2	4	2	1	2	3	2	1	2	3	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	74442420	A	T	74442420	2	4	11	1	0	0	0	0	0	0	0	1	13092	242	9	5		5	RASSF6	4	74442420	Silent	SNP	A	TCGA-A3-3346-01A-01D-0966-08	34014310	74442420	116711856	29	654											
C4orf21	55345	broad.mit.edu	37	chr4	113539199	113539199	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttaattctgacttcttGaataggtttattagcatctt	11	19	6	5	0	3	2	0	2	3	0	3	2	3	2	0	1	1	3	0	1	6	10	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	113539199	T	T	113539199	3	4	11	1	0	0	0	0	1	0	0	0	2254	1299	45	4	4407	4	C4orf21	4	113539199	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	39096779	113539199	77615077	30	655											
FAT1	2195	broad.mit.edu;ucsc.edu	37	chr4	187549318	187549318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaaagtacctgactcgatCgagtacagcacttcagcatt	13	9	7	12	2	1	1	1	1	0	0	3	3	1	1	2	0	4	4	2	0	4	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	187549318	T	T	187549318	2	4	11	1	0	0	0	0	0	0	0	1	5689	871	31	1		1	FAT1	4	187549318	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08	74010119	187549318	3604958	31	656											
IL7R	3575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	35871222	35871222	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccaatgactttgtggtGacatttaatacatcacactt	12	13	8	8	0	1	2	1	2	0	0	1	3	1	3	1	2	2	0	1	2	3	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	35871222	G	T	35871222	2	4	11	1	0	0	0	0	0	0	0	1	7705	1277	45	4		4	IL7R	5	35871222	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08		35871222	145044038	32	657											
PPWD1	23398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64859225	64859225	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaacagaactcagcgaaAgagagctggcagtagcagtg	18	4	12	7	1	1	2	1	0	0	2	1	4	1	2	0	1	5	4	0	1	6	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	64859225	A	T	64859225	4	4	11	1	0	0	0	0	0	1	0	0	12416	64	3	5	90	5	PPWD1	5	64859225	Nonsense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	28988003	64859225	116056035	33	658											
SPZ1	84654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79616637	79616637	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaaccagaactctgagaaCaccgcacaagtttttgcaag	16	7	8	10	1	1	2	0	1	1	2	1	4	1	2	2	0	4	3	2	0	6	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	79616637	C	T	79616637	2	4	11	1	0	0	0	0	0	0	0	1	15128	477	17	2		2	SPZ1	5	79616637	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08	14757412	79616637	101298623	34	659											
TXNDC15	79770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134232036	134232036	+	Missense_Mutation	SNP	G	G	C																															ctaatattttattatttcaaGgagctaaaccaatggccaga																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	134232036	G	C	134232036	3	2	11	1	0	0	0	0	1	0	0	0	16793	1001	35	4	822	4	TXNDC15	5	134232036	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	54615399	134232036	46683224	35	660	11	2									
TXNDC15	79770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134232037	134232037	+	Missense_Mutation	SNP	G	G	A																															taatattttattatttcaagGagctaaaccaatggccagat																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	134232037	G	A	134232037	3	1	11	1	0	0	0	0	1	0	0	0	16793	1174	41	2	823	2	TXNDC15	5	134232037	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	1	134232037	46683223	36	661	11	2									
PCDHGB3	56102	broad.mit.edu	37	chr5	140751901	140751901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctgctggtcactgtgcGtgatggaggacagcagcctc	6	8	15	12	2	1	1	1	1	0	0	2	3	1	3	2	3	4	2	2	3	0	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	140751901	A	A	140751901	3	1	11	1	0	0	0	0	1	0	0	0	11564	1145	40	1	1942	1	PCDHGB3	5	140751901	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	6519864	140751901	40163359	37	662											
LARP1	23367	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154179286	154179286	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttctcaactgccctgaaTttgttccccgtcagcactac	8	12	6	15	1	2	1	2	1	1	0	4	1	3	1	3	0	5	3	3	0	3	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	154179286	T	A	154179286	3	1	11	1	0	0	0	0	1	0	0	0	8628	1493	52	5	1316	5	LARP1	5	154179286	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	13427385	154179286	26735974	38	663											
PRELID1	27166	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176733119	176733119	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaatttggtcttgcccgattCaaaagcaacgtgaccaagac	13	9	9	10	2	2	2	1	1	1	1	2	4	2	2	2	1	3	1	2	1	5	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	176733119	C	G	176733119	3	3	11	1	0	0	0	0	1	0	0	0	12473	825	29	4	467	4	PRELID1	5	176733119	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	22553833	176733119	4182141	39	664											
HIST1H2AK	8330	broad.mit.edu	37	chr6	27805883	27805883	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagtggcgcgggatgaTgcgggtcttcttgttgtcgc	4	12	16	9	4	2	1	0	1	2	0	3	2	2	2	0	3	2	2	0	3	1	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	27805883	G	G	27805883	3	3	11	1	0	0	0	0	1	0	0	0	7137	1464	51	5	161	5	HIST1H2AK	6	27805883	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08		27805883	143309184	40	665											
CCHCR1	54535	broad.mit.edu;hgsc.bcm.edu	37	chr6	31111166	31111166	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttttcctgggcggctctgCgctgaatctggcgtaaggag	5	11	14	11	3	2	1	0	1	2	0	3	2	3	2	2	4	1	3	2	4	2	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	31111166	C	A	31111166	3	1	11	1	0	0	0	0	1	0	0	0	2877	768	27	4	435	4	CCHCR1	6	31111166	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	3305283	31111166	140003901	41	666											
SOBP	55084	broad.mit.edu;hgsc.bcm.edu	37	chr6	107955403	107955403	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacttccagccccatgcAccggcccatgctatcgcccc	6	6	6	23	2	0	0	0	0	0	0	2	0	1	0	9	1	3	2	9	1	1	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	107955403	A	G	107955403	3	3	11	1	0	0	0	0	1	0	0	0	14914	159	6	3	1377	3	SOBP	6	107955403	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	76844237	107955403	63159664	42	667											
HIVEP2	3097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	143081369	143081369	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcctcatccatacaactaGgtatgtccaatctgtctttg	10	14	5	12	0	3	0	1	0	2	0	6	0	6	0	3	1	2	1	3	1	5	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	143081369	G	C	143081369	3	2	11	1	0	0	0	0	1	0	0	0	7187	1000	35	4	1292	4	HIVEP2	6	143081369	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	35125966	143081369	28033698	43	668											
CPSF4	10898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99047957	99047957	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccccgagtccaagatcaaGgactgtccttggtatgaccg	10	8	11	12	2	1	2	1	1	0	1	3	5	3	3	5	2	0	1	5	2	3	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	99047957	G	T	99047957	3	4	11	1	0	0	0	0	1	0	0	0	3828	991	35	4	380	4	CPSF4	7	99047957	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08		99047957	60090706	44	669											
C7orf51	0	hgsc.bcm.edu	37	chr7	100086160	100086161	+	Frame_Shift_Ins	INS	-	-	G																															acccgctgccggaagaggctINSggggaaggccgggccaatgg																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	100086161	-	G	100086160	7	5	11	1	0	1	1	0	0	0	0	0	2400	1567	55	0	826	0	C7orf51	7	100086160	Frame_Shift_Ins	INS	-	TCGA-A3-3346-01A-01D-0966-08	1038203	100086160	59052503	45	670											
NOBOX	135935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	144098145	144098145	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttagggacttacctgagcGgtatagggttcgtgtctttt	6	16	12	7	2	1	1	0	1	1	0	2	2	1	2	1	3	2	2	1	3	4	8	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	144098145	G	C	144098145	3	2	11	1	0	0	0	0	1	0	0	0	10512	1116	39	4	1169	4	NOBOX	7	144098145	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	44011985	144098145	15040518	46	671											
NAT2	10	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	18258243	18258243	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcctcacctatagaaaaTtcaattataaagacaataca	19	11	2	9	0	3	2	3	0	0	2	4	2	4	2	2	0	1	0	2	0	10	6	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	18258243	T	C	18258243	3	2	11	1	0	0	0	0	1	0	0	0	10177	1493	52	3	732	3	NAT2	8	18258243	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08		18258243	128105779	47	672											
TMEM68	137695	hgsc.bcm.edu;ucsc.edu	37	chr8	56675226	56675227	+	Frame_Shift_Ins	INS	-	-	T																															tgcatgtccatcccacagagINSttgccactgttttccttgca																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	56675227	-	T	56675226	7	5	11	1	0	1	1	0	0	0	0	0	16196	1029	36	0	496	0	TMEM68	8	56675226	Frame_Shift_Ins	INS	-	TCGA-A3-3346-01A-01D-0966-08	38416983	56675226	89688796	48	673											
FER1L6	654463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125072866	125072866	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcaggctctcattgagtgCggaggacaaggtgtgaagtc	9	9	14	9	1	2	2	2	2	1	0	4	4	2	4	1	4	1	1	1	4	2	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	125072866	C	T	125072866	2	4	11	1	0	0	0	0	0	0	0	1	5815	776	27	1		1	FER1L6	8	125072866	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08	68397640	125072866	21291156	49	674											
OR1L1	26737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125424612	125424612	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgacagaaggcttggctgtCataatgaccccgttttcatg	10	12	10	9	1	2	3	2	2	0	1	2	3	2	3	2	2	0	3	2	2	2	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	125424612	C	T	125424612	2	4	11	1	0	0	0	0	0	0	0	1	10963	813	29	2		2	OR1L1	9	125424612	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08		125424612	15788819	50	675											
LCN1	3933	broad.mit.edu;hgsc.bcm.edu	37	chr9	138413417	138413417	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacctcctggcctcagAcgaggagattcaggatgtga	10	7	11	13	1	2	3	2	1	0	2	3	6	3	4	5	3	0	0	5	3	0	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	138413417	A	G	138413417	3	3	11	1	0	0	0	0	1	0	0	0	8680	275	10	3	76	3	LCN1	9	138413417	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	12988805	138413417	2800014	51	676											
PITRM1	10531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	3197825	3197825	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctccgggggacagagcctCgaccttctgcttgagcttcg	5	10	13	13	3	2	2	0	1	2	1	5	4	2	3	3	2	3	2	3	2	0	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	3197825	C	T	3197825	3	4	11	1	0	0	0	0	1	0	0	0	11953	893	31	1	1590	1	PITRM1	10	3197825	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08		3197825	132336922	52	677											
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89692920	89692921	+	Frame_Shift_Ins	INS	-	-	A																															ggacgaactggtgtaatgatINSatgtgcatatttattacatc																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	89692921	-	A	89692920	7	5	11	1	0	1	1	0	0	0	0	0	12740	1406	49	0	422	0	PTEN	10	89692920	Frame_Shift_Ins	INS	-	TCGA-A3-3346-01A-01D-0966-08	86495095	89692920	45841827	53	678											
CWF19L1	55280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102006678	102006678	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcttcatgggaacaatactGaacgcgtaaagatactttag	15	10	9	7	2	1	2	1	1	0	1	1	3	1	3	0	1	5	2	0	1	8	6	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	102006678	G	A	102006678	2	1	11	1	0	0	0	0	0	0	0	1	4071	1281	45	2		2	CWF19L1	10	102006678	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08	12313758	102006678	33528069	54	679											
GTF2H1	2965	broad.mit.edu;ucsc.edu	37	chr11	18357301	18357301	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccctcatgcttctttttagGccagaaaattagtccagaag	11	12	8	10	0	2	2	1	0	1	2	3	2	3	2	3	1	1	1	3	1	5	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	18357301	T	T	18357301	3	4	11	1	0	0	0	0	1	0	0	0	6860	1217	42	4	161	4	GTF2H1	11	18357301	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08		18357301	116649215	55	680											
MFRP	83552	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119212284	119212284	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcacaagcttccaggtCagctgcctctggcagcctgt	6	9	12	14	0	2	0	1	0	1	0	3	0	3	0	3	3	4	4	3	3	1	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	119212284	C	A	119212284	3	1	11	1	0	0	0	0	1	0	0	0	9526	826	29	4	29	4	MFRP	11	119212284	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	100854983	119212284	15794232	56	681											
DNM1L	10059	hgsc.bcm.edu;ucsc.edu	37	chr12	32863894	32863894	+	Frame_Shift_Del	DEL	T	T	-																															tgaaccaattcatcttaagaTtttttcacccaacgttgtca																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		-	32863894	T	-	32863894	7	5	11	1	0	1	0	1	0	0	0	0	4671	1493	52	0	419	0	DNM1L	12	32863894	Frame_Shift_Del	DEL	T	TCGA-A3-3346-01A-01D-0966-08		32863894	100988001	57	682											
DIP2B	57609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51084867	51084867	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagggagtgtaatgggagtTacagtatcccggcttgcaat	11	10	14	6	1	0	0	0	0	0	0	1	3	1	2	1	3	2	5	1	3	5	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	51084867	T	C	51084867	2	2	11	1	0	0	0	0	0	0	0	1	4528	1741	61	3		3	DIP2B	12	51084867	Silent	SNP	T	TCGA-A3-3346-01A-01D-0966-08	18220973	51084867	82767028	58	683											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53684167	53684167	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaatgagtttgatgccAtccagaaggcacagaaagag	14	8	11	8	0	0	6	0	3	0	3	2	6	2	6	3	1	1	2	3	1	3	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	53684167	A	T	53684167	3	4	11	1	0	0	0	0	1	0	0	0	5253	217	8	5	5368	5	ESPL1	12	53684167	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	2599300	53684167	80167728	59	684											
HOXC6	3223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54422672	54422672	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaagccagtatccagattTacccctggatgcagcgaatg	13	8	10	10	1	0	2	0	0	0	2	1	4	1	3	4	1	4	2	4	1	4	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	54422672	T	C	54422672	3	2	11	1	0	0	0	0	1	0	0	0	7315	1754	61	3	369	3	HOXC6	12	54422672	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	738505	54422672	79429223	60	685											
ATP5B	506	broad.mit.edu;hgsc.bcm.edu	37	chr12	57033957	57033957	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagggtcagtcaagtcaTcagcaggcacatagatagcc	12	6	13	10	0	4	1	4	0	0	1	4	1	4	1	1	3	2	3	1	3	3	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	57033957	T	C	57033957	3	2	11	1	0	0	0	0	1	0	0	0	1148	1435	50	3	507	3	ATP5B	12	57033957	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	2611285	57033957	76817938	61	686											
PPFIA2	8499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	81675169	81675169	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccccaagctgggaagccattCatttccaatccactcatgat	11	10	6	14	0	2	1	2	1	0	0	4	2	4	2	5	1	2	1	5	1	3	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	81675169	C	T	81675169	3	4	11	1	0	0	0	0	1	0	0	0	12310	835	29	2	718	2	PPFIA2	12	81675169	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	24641212	81675169	52176726	62	687											
UBE2N	7334	hgsc.bcm.edu	37	chr12	93804524	93804532	+	In_Frame_Del	DEL	TGGGCTTCG	TGGGCTTCG	-																															agatacctgtttctatggctTgggcttcgttggtcttccac																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	TGGGCTTCG	TGGGCTTCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		-	93804532	TGGGCTTCG	-	93804524	7	5	11	1	0	1	0	1	0	0	0	0	16865	1812	63	0	62	0	UBE2N	12	93804524	In_Frame_Del	DEL	TGGGCTTCG	TCGA-A3-3346-01A-01D-0966-08	12129355	93804524	40047371	63	688											
SMAD9	4093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	37453538	37453538	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgcagatccggccagcGccacacgcgacagtaaatca	12	4	11	14	4	1	1	1	0	0	1	2	3	2	2	3	2	2	2	3	2	2	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	37453538	G	A	37453538	3	1	11	1	0	0	0	0	1	0	0	0	14766	1087	38	1	1138	1	SMAD9	13	37453538	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08		37453538	77716340	64	689											
FAM124A	220108	broad.mit.edu	37	chr13	51825776	51825776	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggcgtcccggcggcggcgGaagccccccaagggcgctca	5	2	17	17	7	1	0	1	0	0	0	2	1	2	1	4	6	1	1	4	6	2	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	51825776	T	T	51825776	2	4	11	1	0	0	0	0	0	0	0	1	5425	1161	41	4		4	FAM124A	13	51825776	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08	14372238	51825776	63344102	65	690											
IPO4	79711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24651164	24651164	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgagccaaggatactccTgggcagggtggcccccatgc	7	6	14	14	1	0	0	0	0	0	0	1	2	1	1	4	4	4	1	4	4	2	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	24651164	T	G	24651164	3	3	11	1	0	0	0	0	1	0	0	0	7795	1580	55	5	461	5	IPO4	14	24651164	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08		24651164	82698376	66	691											
SSTR1	6751	broad.mit.edu;hgsc.bcm.edu	37	chr14	38678641	38678641	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttcctcctctcctagccCcagcccgggcagctgcggcg	3	8	10	20	3	1	0	0	0	1	0	5	0	4	0	7	2	4	2	7	2	1	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	38678641	C	A	38678641	3	1	11	1	0	0	0	0	1	0	0	0	15198	623	22	4	49	4	SSTR1	14	38678641	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	14027477	38678641	68670899	67	692											
FSIP1	161835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40068678	40068678	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggcgtattcttgaattTgaagctggttttgaaattcc	9	15	10	7	1	1	3	0	3	1	0	2	3	2	3	2	2	1	3	2	2	4	7	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	40068678	T	A	40068678	2	1	11	1	0	0	0	0	0	0	0	1	6074	1799	63	5		5	FSIP1	15	40068678	Silent	SNP	T	TCGA-A3-3346-01A-01D-0966-08		40068678	62462714	68	693											
MYO5A	4644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52646191	52646191	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaatgacatgtccagaggTaccttcttctcacttggttc	10	13	7	11	0	2	2	1	1	2	1	5	2	3	2	2	2	2	2	2	2	3	5	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	52646191	T	G	52646191	2	3	11	1	0	0	0	0	0	0	0	1	10078	1625	57	5		5	MYO5A	15	52646191	Silent	SNP	T	TCGA-A3-3346-01A-01D-0966-08	12577513	52646191	49885201	69	694											
TLN2	83660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63000819	63000819	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcggccactaccgataGtgagctcctgaagcaggtca	10	6	12	13	2	1	2	1	2	0	0	2	3	2	2	4	3	3	2	4	3	3	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	63000819	G	C	63000819	3	2	11	1	0	0	0	0	1	0	0	0	15947	1029	36	4	2361	4	TLN2	15	63000819	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08	10354628	63000819	39530573	70	695											
CLEC16A	23274	hgsc.bcm.edu	37	chr16	11260328	11260343	+	Frame_Shift_Del	DEL	AGCGGCAGCGGGAGCA	AGCGGCAGCGGGAGCA	-																															cctccgccagcgggagccccAgcggcagcgggagcaccagc																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	AGCGGCAGCGGGAGCA	AGCGGCAGCGGGAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		-	11260343	AGCGGCAGCGGGAGCA	-	11260328	7	5	11	1	0	1	0	1	0	0	0	0	3500	188	7	0	2811	0	CLEC16A	16	11260328	Frame_Shift_Del	DEL	AGCGGCAGCGGGAGCA	TCGA-A3-3346-01A-01D-0966-08		11260328	79094425	71	696											
ABCC6	368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	16284071	16284071	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacacagagaagaggaggcCggaggtccgcaaggcgccca	12	1	16	12	4	0	2	0	0	0	2	1	6	1	4	3	5	0	1	3	5	2	0	rs140045277		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	16284071	C	T	16284071	3	4	11	1	0	0	0	0	1	0	0	0	57	652	23	1	3006	1	ABCC6	16	16284071	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	5023743	16284071	74070682	72	697											
PLA2G15	23659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68283347	68283347	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gactgctggattgacaatatCaggtgggggctggggcacac	9	8	16	8	0	1	1	1	1	0	0	1	3	1	2	0	6	1	3	0	6	2	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	68283347	C	G	68283347	3	3	11	1	0	0	0	0	1	0	0	0	11992	816	29	4	288	4	PLA2G15	16	68283347	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	51999276	68283347	22071406	73	698											
FANCA	2175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89838183	89838183	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtggcccaggacagccCtcagtctttcagaaatcact	10	10	8	13	0	4	1	3	0	1	1	4	2	4	2	2	2	1	0	2	2	1	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	89838183	C	T	89838183	3	4	11	1	0	0	0	0	1	0	0	0	5662	681	24	2	2397	2	FANCA	16	89838183	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	21554836	89838183	516570	74	699											
ALOX12B	242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7990740	7990740	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtcggtgcctgtggccacCctgactttgtaggtggccat	5	11	14	11	1	0	1	0	1	0	0	1	1	0	1	4	5	1	1	4	5	1	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	7990740	C	T	7990740	2	4	11	1	0	0	0	0	0	0	0	1	537	622	22	2		2	ALOX12B	17	7990740	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08		7990740	73204470	75	700											
RARA	5914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38506145	38506145	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagtactgccgactgcAgaagtgctttgaagtgggca	9	9	13	10	1	0	2	0	1	0	1	0	3	0	2	2	1	5	4	2	1	3	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	38506145	A	G	38506145	3	3	11	1	0	0	0	0	1	0	0	0	13054	188	7	3	614	3	RARA	17	38506145	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	30515405	38506145	42689065	76	701											
DHX8	1659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41585811	41585811	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgttccagagttaattAtcctcccagtgtactctgct	8	15	7	11	0	1	2	0	1	1	1	4	2	4	2	3	0	2	4	3	0	3	4	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	41585811	A	G	41585811	3	3	11	1	0	0	0	0	1	0	0	0	4515	449	16	3	2487	3	DHX8	17	41585811	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	3079666	41585811	39609399	77	702											
EME1	146956	broad.mit.edu;hgsc.bcm.edu	37	chr17	48452557	48452557	+	5'UTR	SNP	A	A	C																															tccttttagggaattatttgAtagcacatactgatggctct																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	48452557	A	C	48452557	1	2	11	0	1	0	0	0	0	0	0	0	5088	348	12	5		5	EME1	17	48452557	5'UTR	SNP	A	TCGA-A3-3346-01A-01D-0966-08	6866746	48452557	32742653	78	703	12	2									
EME1	146956	broad.mit.edu;hgsc.bcm.edu	37	chr17	48452559	48452559	+	5'UTR	SNP	A	A	G																															cttttagggaattatttgatAgcacatactgatggctctaa																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	48452559	A	G	48452559	1	3	11	0	1	0	0	0	0	0	0	0	5088	435	15	3		3	EME1	17	48452559	5'UTR	SNP	A	TCGA-A3-3346-01A-01D-0966-08	2	48452559	32742651	79	704	12	2									
INTS2	57508	broad.mit.edu;hgsc.bcm.edu	37	chr17	60004006	60004006	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacttgtacattcagtcatTattactgtttgttgatccta	10	18	6	7	0	2	2	2	1	0	1	3	2	3	2	1	0	2	3	1	0	4	8	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	60004006	T	G	60004006	2	3	11	1	0	0	0	0	0	0	0	1	7778	1744	61	5		5	INTS2	17	60004006	Silent	SNP	T	TCGA-A3-3346-01A-01D-0966-08	11551447	60004006	21191204	80	705											
SERPINB7	8710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61463591	61463591	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacactagacgtaatattaAtaagtgggttgaaaatgaaa	19	10	9	3	1	0	4	0	2	0	2	0	4	0	4	0	1	0	2	0	1	8	6	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	61463591	A	G	61463591	3	3	11	1	0	0	0	0	1	0	0	0	14108	101	4	3	442	3	SERPINB7	18	61463591	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08		61463591	16613657	81	706											
FZR1	51343	broad.mit.edu;hgsc.bcm.edu	37	chr19	3522955	3522955	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccttcccgctgcaggCtaaccttgccgcgggccgag	4	7	12	18	4	0	0	0	0	0	0	1	1	1	0	6	2	4	3	6	2	1	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	3522955	C	A	3522955	5	1	11	1	0	0	0	0	0	0	1	0	6138	811	28	4		4	FZR1	19	3522955	Splice_Site	SNP	C	TCGA-A3-3346-01A-01D-0966-08		3522955	55606028	82	707											
ZNF846	162993	hgsc.bcm.edu;ucsc.edu	37	chr19	9869150	9869150	+	Frame_Shift_Del	DEL	T	T	-																															agaaaagttctccaacagtcTttgcattcacacaatttctc																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		-	9869150	T	-	9869150	7	5	11	1	0	1	0	1	0	0	0	0	18191	1606	56	0	1002	0	ZNF846	19	9869150	Frame_Shift_Del	DEL	T	TCGA-A3-3346-01A-01D-0966-08	6346195	9869150	49259833	83	708											
ZNF737	100129842	broad.mit.edu	37	chr19	20727828	20727828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacatttgtagggtttcTctccagtatgaattctctta	8	18	6	9	0	3	1	1	1	2	0	6	1	4	1	1	1	0	3	1	1	4	7	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	20727828	C	C	20727828	3	2	11	1	0	0	0	0	1	0	0	0	18125	1551	54	3	433	3	ZNF737	19	20727828	Missense_Mutation	SNP	T	TCGA-A3-3346-01A-01D-0966-08	10858678	20727828	38401155	84	709											
LILRB5	10990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54758770	54758770	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttagacacagcgggggatgGgctgccccctccttggtcaa	7	9	13	12	1	1	1	1	0	0	1	2	2	2	2	3	4	2	1	3	4	2	3	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		C	54758770	G	C	54758770	2	2	11	1	0	0	0	0	0	0	0	1	8794	1219	43	4		4	LILRB5	19	54758770	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08	34030942	54758770	4370213	85	710											
FIZ1	84922	broad.mit.edu;hgsc.bcm.edu	37	chr19	56109181	56109181	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacgggaccctgggggcGgcagcggcgggcggtgctgg	5	4	22	10	5	0	1	0	1	0	0	0	2	0	2	1	8	3	2	1	8	1	0	rs189301284	by1000genomes	TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	56109181	G	A	56109181	2	1	11	1	0	0	0	0	0	0	0	1	5900	1103	39	1		1	FIZ1	19	56109181	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08	1350411	56109181	3019802	86	711											
NCOA5	57727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44693847	44693847	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggtctcgcaccttccgcCccacagactcagcatagtct	8	8	7	18	2	3	1	1	0	2	1	5	1	4	1	5	1	1	2	5	1	1	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	44693847	C	A	44693847	3	1	11	1	0	0	0	0	1	0	0	0	10232	623	22	4	1101	4	NCOA5	20	44693847	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08		44693847	18331673	87	712											
ZNF512B	57473	broad.mit.edu;ucsc.edu	37	chr20	62599261	62599261	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggaccactcttgctggAccccgggagccgacggcctc	5	5	13	18	4	1	0	0	0	1	0	2	4	1	3	6	4	2	1	6	4	0	1	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	62599261	T	T	62599261	3	4	11	1	0	0	0	0	1	0	0	0	17956	275	10	5	2699	5	ZNF512B	20	62599261	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	17905414	62599261	426259	88	713											
TMPRSS15	5651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	19666661	19666661	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagagcagtcggccgccAtaatacagacccacaaccca	13	3	8	17	3	0	2	0	0	0	2	1	2	0	2	5	1	3	2	5	1	3	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	19666661	A	G	19666661	2	3	11	1	0	0	0	0	0	0	0	1	16245	224	8	3		3	TMPRSS15	21	19666661	Silent	SNP	A	TCGA-A3-3346-01A-01D-0966-08		19666661	28463234	89	714											
GCFC1	0	broad.mit.edu	37	chr21	34143766	34143766	+	Missense_Mutation	SNP	C	T	T																															gccgcccccggcctcagcccCgaggcccggggtcagcgcgg																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	34143766	T	T	34143766	3	4	11	1	0	0	0	0	1	0	0	0	6289	652	23	1	2729	1	GCFC1	21	34143766	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	14477105	34143766	13986129	90	715	13	2									
GCFC1	0	broad.mit.edu	37	chr21	34143767	34143767	+	Silent	SNP	G	A	A																															ccgcccccggcctcagccccGaggcccggggtcagcgcgga																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	34143767	A	A	34143767	2	1	11	1	0	0	0	0	0	0	0	1	6289	1045	37	1		1	GCFC1	21	34143767	Silent	SNP	G	TCGA-A3-3346-01A-01D-0966-08	1	34143767	13986128	91	716	13	2									
RCAN1	1827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	35893901	35893901	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggcgggaggggagatcAgaaactgcttgtctggattt	10	9	17	5	1	2	3	1	0	1	3	2	7	2	5	0	5	2	1	0	5	1	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		T	35893901	A	T	35893901	3	4	11	1	0	0	0	0	1	0	0	0	13170	188	7	5	284	5	RCAN1	21	35893901	Missense_Mutation	SNP	A	TCGA-A3-3346-01A-01D-0966-08	1750134	35893901	12235994	92	717											
ZNF295	0	hgsc.bcm.edu;ucsc.edu	37	chr21	43411090	43411098	+	In_Frame_Del	DEL	ATGTGATTG	ATGTGATTG	-																															acacataaactgtcttttaaAtgtgattgctgaaaggggtg																								novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	ATGTGATTG	ATGTGATTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		-	43411098	ATGTGATTG	-	43411090	7	5	11	1	0	1	0	1	0	0	0	0	17826	101	4	0	89	0	ZNF295	21	43411090	In_Frame_Del	DEL	ATGTGATTG	TCGA-A3-3346-01A-01D-0966-08	7517189	43411090	4718805	93	718											
GGA1	26088	broad.mit.edu;hgsc.bcm.edu	37	chr22	38010280	38010280	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctcaacgaggactttgagGggtaggtggccgtccccact	8	8	14	11	2	1	1	1	1	0	0	2	3	2	2	3	5	2	2	3	5	2	2	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	38010280	G	A	38010280	3	1	11	1	0	0	0	0	1	0	0	0	6352	1246	43	2	133	2	GGA1	22	38010280	Missense_Mutation	SNP	G	TCGA-A3-3346-01A-01D-0966-08		38010280	13294286	94	719											
PDXP	57026	broad.mit.edu;hgsc.bcm.edu	37	chr22	38055358	38055358	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgagcgacggcagccggaCccctggtgagcgcgggaatg	7	4	18	12	5	0	2	0	2	0	0	0	5	0	4	3	4	3	2	3	4	1	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	38055358	C	G	38055358	3	3	11	1	0	0	0	0	1	0	0	0	11698	507	18	4	571	4	PDXP	22	38055358	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	45078	38055358	13249208	95	720											
H1F0	3005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38201974	38201974	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accaagaaacccaaagccacCccggtcaagaaggccaagaa	18	1	8	14	1	1	3	1	0	0	3	1	3	1	3	6	2	2	0	6	2	7	0	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	38201974	C	A	38201974	2	1	11	1	0	0	0	0	0	0	0	1	6920	610	22	4		4	H1F0	22	38201974	Silent	SNP	C	TCGA-A3-3346-01A-01D-0966-08	146616	38201974	13102592	96	721											
THOC2	57187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	122758390	122758390	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagggtttttattagtcatAccttttcatatgtggctcta	9	19	7	6	0	3	0	2	0	1	0	3	0	3	0	1	2	1	2	1	2	6	10	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		G	122758390	A	G	122758390	5	3	11	1	0	0	0	0	0	0	1	0	15864	405	14	3	1645	3	THOC2	23	122758390	Splice_Site	SNP	A	TCGA-A3-3346-01A-01D-0966-08		122758390	32512170	97	722											
USP26	83844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132161721	132161721	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcttttcctcttcttgtgCtgattttctgataactctcc	5	21	4	11	0	5	2	0	2	5	0	7	2	6	2	2	0	2	1	2	0	1	8	novel		TCGA-A3-3346-01A-01D-0966-08	TCGA-A3-3346-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c8a52c11-2278-4f15-80bb-c7115c2cd737	4a91a470-3bee-458d-bc64-6d4d99f34620		A	132161721	C	A	132161721	3	1	11	1	0	0	0	0	1	0	0	0	17056	796	28	4	2216	4	USP26	23	132161721	Missense_Mutation	SNP	C	TCGA-A3-3346-01A-01D-0966-08	9403331	132161721	23108839	98	723											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11177096	11177096	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatatacccaaccattgaCatgaccgctaaagaacgggt	17	7	7	10	2	0	3	0	2	0	1	0	3	0	3	3	1	3	1	3	1	8	4	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	11177096	C	T	11177096	3	4	12	1	0	0	0	0	1	0	0	0	9954	478	17	2	704	2	MTOR	1	11177096	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10		11177096	238073525	1	724											
USP48	84196	broad.mit.edu;ucsc.edu	37	chr1	22032266	22032266	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaaatgtaaacatgaggcCcccgtggggacacaaaagag	16	4	12	9	1	0	2	0	1	0	1	0	3	0	3	2	3	2	2	2	3	5	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	22032266	G	G	22032266	3	3	12	1	0	0	0	0	1	0	0	0	17078	623	22	4	805	4	USP48	1	22032266	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	10855170	22032266	227218355	2	725											
THEM5	284486	broad.mit.edu	37	chr1	151820746	151820746	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctcgtccatcatggctgCcagggacccgccgtgagcaa	7	7	13	14	3	2	1	1	1	1	0	4	2	3	2	4	3	2	2	4	3	1	0	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	151820746	G	G	151820746	3	3	12	1	0	0	0	0	1	0	0	0	15858	739	26	4	268	4	THEM5	1	151820746	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	129788480	151820746	97429875	3	726											
PLEKHA6	22874	broad.mit.edu;ucsc.edu	37	chr1	204236640	204236640	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcgatccaccaggacgaaCcagcgcttgttccactgctt	9	8	9	15	3	0	0	0	0	0	0	2	3	2	1	4	1	4	3	4	1	1	3	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	204236640	A	A	204236640	3	1	12	1	0	0	0	0	1	0	0	0	12060	508	18	4	2975	4	PLEKHA6	1	204236640	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	52415894	204236640	45013981	4	727											
FAM110C	642273	broad.mit.edu	37	chr2	46063	46063	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccgatcctcgcacgaatTcgcatttctgccggtagatg	7	10	10	14	6	1	1	0	0	1	1	4	3	2	1	3	1	1	3	3	1	2	3	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	46063	A	A	46063	3	1	12	1	0	0	0	0	1	0	0	0	5398	1783	62	5	650	5	FAM110C	2	46063	Missense_Mutation	SNP	T	TCGA-A3-3347-01A-02D-1386-10		46063	243153310	5	728											
PER2	8864	broad.mit.edu;ucsc.edu	37	chr2	239181739	239181739	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaatgtgctcagaggtaAcgctctccatctcctccacg	9	10	7	15	2	4	1	2	0	2	1	7	1	5	1	3	1	2	3	3	1	2	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	239181739	T	T	239181739	3	4	12	1	0	0	0	0	1	0	0	0	11730	43	2	5	3301	5	PER2	2	239181739	Missense_Mutation	SNP	A	TCGA-A3-3347-01A-02D-1386-10	239135676	239181739	4017634	6	729											
ITIH4	3700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52858939	52858939	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgtggttaggccctcGggggcaaagtagtgtacaaa	10	9	15	7	1	0	0	0	0	0	0	1	0	0	0	1	5	1	5	1	5	5	4	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	52858939	G	A	52858939	2	1	12	1	0	0	0	0	0	0	0	1	7906	1103	39	1		1	ITIH4	3	52858939	Silent	SNP	G	TCGA-A3-3347-01A-02D-1386-10		52858939	145163491	7	730											
BOC	91653	broad.mit.edu	37	chr3	112993348	112993348	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctccccagacccccaacgtCagtggggcctgcttccccgc	5	6	10	20	2	1	1	1	0	0	1	3	1	3	1	7	2	2	2	7	2	1	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	112993348	G	G	112993348	4	3	12	1	0	0	0	0	0	1	0	0	1481	838	29	4	1387	4	BOC	3	112993348	Nonsense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	60134409	112993348	85029082	8	731											
EIF2A	83939	broad.mit.edu;ucsc.edu	37	chr3	150264607	150264607	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatggcgccgtccacgccGctcttgacaggtgagttctg	7	9	12	13	4	2	2	0	2	2	0	3	2	3	2	3	2	1	2	3	2	1	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	150264607	C	C	150264607	2	2	12	1	0	0	0	0	0	0	0	1	4995	1074	38	4		4	EIF2A	3	150264607	Silent	SNP	G	TCGA-A3-3347-01A-02D-1386-10	37271259	150264607	47757823	9	732											
C3orf70	285382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184801259	184801259	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggtgagcgagactgagaTctgaatggtgtttgtgggtt	7	14	16	4	2	1	4	0	3	1	2	2	6	1	4	0	3	1	2	0	3	1	3	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	184801259	T	C	184801259	3	2	12	1	0	0	0	0	1	0	0	0	2242	1435	50	3	467	3	C3orf70	3	184801259	Missense_Mutation	SNP	T	TCGA-A3-3347-01A-02D-1386-10	34536652	184801259	13221171	10	733											
QRFPR	84109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	122250674	122250674	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcattgtaattcctgaaTttccatgcctttgtgctgga	8	16	8	9	0	1	1	1	1	0	0	3	2	3	2	3	1	2	3	3	1	2	5	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	122250674	T	C	122250674	3	2	12	1	0	0	0	0	1	0	0	0	12880	1493	52	3	208	3	QRFPR	4	122250674	Missense_Mutation	SNP	T	TCGA-A3-3347-01A-02D-1386-10		122250674	68903602	11	734											
PCDHGA1	56114	broad.mit.edu;ucsc.edu	37	chr5	140712672	140712672	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaggaaccattttctcaGgtaaacttttgtgatgaatg	15	13	8	5	0	1	2	1	2	1	0	2	3	1	3	1	2	2	1	1	2	6	5	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	140712672	C	C	140712672	3	2	12	1	0	0	0	0	1	0	0	0	11550	1014	35	4	2423	4	PCDHGA1	5	140712672	Missense_Mutation	SNP	G	TCGA-A3-3347-01A-02D-1386-10		140712672	40202588	12	735											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56506875	56506875	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcattctgaaactgcaCtcctgattctaatcttttag	9	17	5	10	0	4	2	1	2	3	0	5	2	5	2	1	0	3	2	1	0	3	6	rs183335254	by1000genomes;alternate_allele	TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	56506875	C	T	56506875	3	4	12	1	0	0	0	0	1	0	0	0	4783	565	20	2	20197	2	DST	6	56506875	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10		56506875	114608192	13	736											
GIMAP8	155038	hgsc.bcm.edu;ucsc.edu	37	chr7	150174278	150174278	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcacctctcggctccggGcccagccagtcaccaagacc	7	7	8	19	2	4	1	2	0	2	1	6	1	5	1	6	2	1	1	6	2	1	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	150174278	G	A	150174278	3	1	12	1	0	0	0	0	1	0	0	0	6385	1203	42	2	1422	2	GIMAP8	7	150174278	Missense_Mutation	SNP	G	TCGA-A3-3347-01A-02D-1386-10		150174278	8964385	14	737											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113392679	113392679	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattcaaaagatggggtattGttgttcctgaaatgatatat	13	16	9	3	0	1	3	1	2	0	1	2	3	2	3	1	2	0	3	1	2	7	8	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	113392679	G	A	113392679	3	1	12	1	0	0	0	0	1	0	0	0	3946	1377	48	2	5221	2	CSMD3	8	113392679	Missense_Mutation	SNP	G	TCGA-A3-3347-01A-02D-1386-10		113392679	32971343	15	738											
FAM83H	286077	broad.mit.edu	37	chr8	144810219	144810219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgaagcttctcgaacaggCcttgcgggcgcgccggcgtg	5	6	16	14	8	1	0	0	0	1	0	2	2	1	0	2	3	3	1	2	3	2	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	144810219	T	T	144810219	3	4	12	1	0	0	0	0	1	0	0	0	5640	739	26	2	2131	2	FAM83H	8	144810219	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	31417540	144810219	1553803	16	739											
TLL2	7093	broad.mit.edu;ucsc.edu	37	chr10	98133425	98133425	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctgagaaacatactgcTgccggaagccaccgtggggt	12	6	12	11	2	0	1	0	1	0	1	0	3	0	2	4	3	6	1	4	3	4	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	98133425	G	G	98133425	3	3	12	1	0	0	0	0	1	0	0	0	15945	1580	55	5	469	5	TLL2	10	98133425	Missense_Mutation	SNP	T	TCGA-A3-3347-01A-02D-1386-10		98133425	37401322	17	740											
ABCC2	1244	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	101552068	101552068	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagactctggacaagccacAgtccctgctgttcgatatac	11	9	9	12	1	1	1	0	0	1	1	3	4	2	2	2	1	3	2	2	1	4	3	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	101552068	A	G	101552068	2	3	12	1	0	0	0	0	0	0	0	1	53	175	7	3		3	ABCC2	10	101552068	Silent	SNP	A	TCGA-A3-3347-01A-02D-1386-10	3418643	101552068	33982679	18	741											
TRIM21	6737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4411235	4411235	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtctcttaggcctcacctgGtactcctgtgcagcctcctc	4	13	8	16	0	2	0	1	0	1	0	6	0	4	0	5	2	3	2	5	2	2	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	4411235	G	A	4411235	2	1	12	1	0	0	0	0	0	0	0	1	16494	1256	44	2		2	TRIM21	11	4411235	Silent	SNP	G	TCGA-A3-3347-01A-02D-1386-10		4411235	130595281	19	742											
OR51B4	79339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5322438	5322438	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcacagtgatgtgaaataCtaggacacagctaatatggg	15	9	10	7	0	1	2	1	2	0	0	1	3	1	3	0	2	2	1	0	2	5	4	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	5322438	C	G	5322438	3	3	12	1	0	0	0	0	1	0	0	0	11090	565	20	4	196	4	OR51B4	11	5322438	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	911203	5322438	129684078	20	743											
CCDC88B	283234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64111336	64111336	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccttgagagggagaacCgggagcttcgggggctgctt	7	7	18	9	2	0	2	0	1	0	2	1	6	0	4	2	5	3	3	2	5	1	3	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	64111336	C	A	64111336	2	1	12	1	0	0	0	0	0	0	0	1	2864	643	23	4		4	CCDC88B	11	64111336	Silent	SNP	C	TCGA-A3-3347-01A-02D-1386-10	58788898	64111336	70895180	21	744											
OR2AT4	341152	broad.mit.edu;ucsc.edu	37	chr11	74800063	74800063	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccttctagggaactgatGcgaagcactgaggccaggat	10	8	13	10	2	1	2	0	2	1	0	2	5	2	4	2	3	3	1	2	3	3	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	74800063	C	C	74800063	2	2	12	1	0	0	0	0	0	0	0	1	10987	1306	46	4		4	OR2AT4	11	74800063	Silent	SNP	G	TCGA-A3-3347-01A-02D-1386-10	10688727	74800063	60206453	22	745											
DSCAML1	57453	broad.mit.edu	37	chr11	117299207	117299208	+	Frame_Shift_Del	DEL	CT	-	-																															tgggggccggaggggcagcgCtgggggcggtgggtggctca																								novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		-	117299208	-	-	117299207	7	5	12	1	0	1	0	1	0	0	0	0	4769	797	28	0	166	0	DSCAML1	11	117299207	Frame_Shift_Del	DEL	CT	TCGA-A3-3347-01A-02D-1386-10	42499144	117299207	17707309	23	746											
PCNX	22990	broad.mit.edu;ucsc.edu	37	chr14	71462632	71462632	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggcggtagcagtttgcaCgatgaacttggtatgcaggc	9	10	15	7	2	0	1	0	1	0	0	0	2	0	1	0	4	4	7	0	4	4	5	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	71462632	G	G	71462632	3	3	12	1	0	0	0	0	1	0	0	0	11591	535	19	4	2649	4	PCNX	14	71462632	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10		71462632	35886908	24	747											
PAFAH1B1	5048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	2570313	2570313	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattagaatcaaagctaaatGaagcaaaagaagaatttacg	22	8	7	4	1	1	4	1	1	0	3	1	4	1	4	0	0	3	2	0	0	12	4	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	2570313	G	A	2570313	3	1	12	1	0	0	0	0	1	0	0	0	11384	1291	45	2	234	2	PAFAH1B1	17	2570313	Missense_Mutation	SNP	G	TCGA-A3-3347-01A-02D-1386-10		2570313	78624897	25	748											
DERL2	51009	hgsc.bcm.edu;ucsc.edu	37	chr17	5383897	5383897	+	Frame_Shift_Del	DEL	A	A	-																															actaagctcacaaacagaccAaaaagctagcagatggcatt																								novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		-	5383897	A	-	5383897	7	5	12	1	0	1	0	1	0	0	0	0	4447	127	5	0	398	0	DERL2	17	5383897	Frame_Shift_Del	DEL	A	TCGA-A3-3347-01A-02D-1386-10	2813584	5383897	75811313	26	749											
MED24	9862	broad.mit.edu;ucsc.edu	37	chr17	38182523	38182523	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatccggacgtgggccacaAgccaagccacagcacacacc	12	2	10	17	2	0	0	0	0	0	0	1	1	1	1	5	2	3	2	5	2	2	0	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	38182523	C	C	38182523	3	2	12	1	0	0	0	0	1	0	0	0	9442	72	3	5	1130	5	MED24	17	38182523	Missense_Mutation	SNP	A	TCGA-A3-3347-01A-02D-1386-10	32798626	38182523	43012687	27	750											
STAT5B	6777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40371847	40371847	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggggctcagctgggccagCgggccaaactgagctagagg	8	5	18	10	1	1	2	1	1	0	1	1	2	1	2	2	5	4	3	2	5	2	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	40371847	C	T	40371847	2	4	12	1	0	0	0	0	0	0	0	1	15270	755	27	1		1	STAT5B	17	40371847	Silent	SNP	C	TCGA-A3-3347-01A-02D-1386-10	2189324	40371847	40823363	28	751											
ST6GALNAC1	55808	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74622132	74622132	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgggtgcagcaacaggtaCctgtccatgtgcagggcttc	7	10	13	11	0	1	0	0	0	1	0	3	0	2	0	2	3	5	5	2	3	2	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	74622132	C	T	74622132	2	4	12	1	0	0	0	0	0	0	0	1	15224	506	18	2		2	ST6GALNAC1	17	74622132	Silent	SNP	C	TCGA-A3-3347-01A-02D-1386-10	34250285	74622132	6573078	29	752											
SF3A2	8175	broad.mit.edu	37	chr19	2245452	2245452	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtccgcagggcccggCgagcagccaaggaggccaag	9	3	15	14	3	0	0	0	0	0	0	2	2	2	1	5	4	2	2	5	4	2	0	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	2245452	A	A	2245452	2	1	12	1	0	0	0	0	0	0	0	1	14149	760	27	4		4	SF3A2	19	2245452	Silent	SNP	C	TCGA-A3-3347-01A-02D-1386-10		2245452	56883531	30	753											
CHAF1A	10036	broad.mit.edu;ucsc.edu	37	chr19	4433326	4433326	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggatgtgctggtacgtgcaCccgcaggtgctacagagctt	8	9	14	10	2	0	1	0	0	0	1	0	2	0	2	1	3	6	6	1	3	2	3	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		T	4433326	T	T	4433326	2	4	12	1	0	0	0	0	0	0	0	1	3311	506	18	2		2	CHAF1A	19	4433326	Silent	SNP	C	TCGA-A3-3347-01A-02D-1386-10	2187874	4433326	54695657	31	754											
GRIK5	2901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42507514	42507514	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagctgacctccgtgtggaCcatatgaattccatgaccgc	9	10	9	13	2	1	3	1	3	0	0	3	4	3	4	5	1	1	1	5	1	2	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	42507514	C	A	42507514	3	1	12	1	0	0	0	0	1	0	0	0	6777	508	18	4	466	4	GRIK5	19	42507514	Missense_Mutation	SNP	C	TCGA-A3-3347-01A-02D-1386-10	38074188	42507514	16621469	32	755											
CARD10	29775	broad.mit.edu;ucsc.edu	37	chr22	37893039	37893039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcacctctcttggttccAtcctggcggacccaggccca	5	9	9	18	1	2	0	1	0	1	0	5	1	4	1	6	4	0	1	6	4	0	2	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		G	37893039	G	G	37893039	3	3	12	1	0	0	0	0	1	0	0	0	2644	217	8	3	1200	3	CARD10	22	37893039	Missense_Mutation	SNP	A	TCGA-A3-3347-01A-02D-1386-10		37893039	13411527	33	756											
PLA2G6	8398	broad.mit.edu	37	chr22	38516843	38516843	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctccaggggccccgactcGtagggcctggagccccggaa	6	5	14	16	3	0	0	0	0	0	0	3	3	2	2	7	5	1	1	7	5	2	1	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	38516843	A	A	38516843	2	1	12	1	0	0	0	0	0	0	0	1	12008	1140	40	1		1	PLA2G6	22	38516843	Silent	SNP	G	TCGA-A3-3347-01A-02D-1386-10	623804	38516843	12787723	34	757											
MAGED1	9500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	51638670	51638670	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttggaatgataccactaaGgccccaacagctgataccca	13	7	8	13	0	0	2	0	2	0	0	0	3	0	3	4	2	4	2	4	2	5	4	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		A	51638670	G	A	51638670	2	1	12	1	0	0	0	0	0	0	0	1	9183	991	35	2		2	MAGED1	23	51638670	Silent	SNP	G	TCGA-A3-3347-01A-02D-1386-10		51638670	103631890	35	758											
KLF8	11279	broad.mit.edu;hgsc.bcm.edu	37	chrX	56295819	56295819	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttgcttttagtgaaagttGaccccacctccatgtctcca	8	14	6	13	0	1	2	0	2	1	0	3	2	2	2	5	0	1	2	5	0	2	4	novel		TCGA-A3-3347-01A-02D-1386-10	TCGA-A3-3347-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f4a6bd7-16ff-4689-b41d-c5fabb87823b	faae36b9-3b70-4f6c-bc9b-45dbf2114b52		C	56295819	G	C	56295819	3	2	12	1	0	0	0	0	1	0	0	0	8352	1290	45	4	669	4	KLF8	23	56295819	Missense_Mutation	SNP	G	TCGA-A3-3347-01A-02D-1386-10	4657149	56295819	98974741	36	759											
CYP4B1	1580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47279221	47279221	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgatgtgggtcacatggCgctgaacacactcatgaagt	10	9	12	10	2	2	2	2	2	0	0	2	3	2	2	0	2	2	1	0	2	2	0	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	47279221	C	T	47279221	3	4	13	1	0	0	0	0	1	0	0	0	4185	768	27	1	581	1	CYP4B1	1	47279221	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10		47279221	201971400	1	760											
DDAH1	23576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85817252	85817252	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttggaaaggcccacaaaAaattctctgcctgtaataga	14	11	7	9	0	1	1	0	0	1	1	2	2	1	2	2	2	1	1	2	2	6	5	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	85817252	A	C	85817252	3	2	13	1	0	0	0	0	1	0	0	0	4321	11	1	5	459	5	DDAH1	1	85817252	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10	38538031	85817252	163433369	2	761											
AGL	178	broad.mit.edu;ucsc.edu	37	chr1	100368332	100368332	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	atgctggtccccagatagatCgaaacatgaaggacgaaggt	14	7	12	8	2	0	3	0	1	0	2	2	6	1	4	2	3	2	1	2	3	4	1	rs113994131	alternate_allele	TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	100368332	G	G	100368332	3	3	13	1	0	0	0	0	1	0	0	0	384	876	31	4	3853	4	AGL	1	100368332	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10	14551080	100368332	148882289	3	762											
DCAF6	55827	broad.mit.edu;ucsc.edu	37	chr1	168034953	168034953	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagctgataatcatgtggtAaactgcctgcagccacatcc	12	9	9	11	0	1	1	1	1	0	0	2	2	2	1	3	1	5	3	3	1	4	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	168034953	T	T	168034953	2	4	13	1	0	0	0	0	0	0	0	1	4274	349	13	5		5	DCAF6	1	168034953	Silent	SNP	A	TCGA-A3-3349-01A-01D-1251-10	67666621	168034953	81215668	4	763											
THADA	63892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43801938	43801938	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaccttccacagtgagccgGtgcatttggagaaggttttt	8	12	12	9	1	0	2	0	1	0	1	1	3	1	2	3	3	2	3	3	3	1	4	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	43801938	G	C	43801938	3	2	13	1	0	0	0	0	1	0	0	0	15839	1252	44	4	4707	4	THADA	2	43801938	Missense_Mutation	SNP	G	TCGA-A3-3349-01A-01D-1251-10		43801938	199397435	5	764											
NRXN1	9378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	50723141	50723141	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtcccttgatatcatcAcgttgtgccactgattgtca	7	15	9	10	1	3	2	3	2	0	0	4	2	4	2	2	1	1	1	2	1	1	4	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	50723141	A	C	50723141	3	2	13	1	0	0	0	0	1	0	0	0	10665	159	6	5	1850	5	NRXN1	2	50723141	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10	6921203	50723141	192476232	6	765											
AFTPH	54812	hgsc.bcm.edu;ucsc.edu	37	chr2	64808374	64808374	+	Frame_Shift_Del	DEL	G	G	-																															atttctttgggcccgtggatGacagtagctctagcagcagc																								novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		-	64808374	G	-	64808374	7	5	13	1	0	1	0	1	0	0	0	0	364	1290	45	0	2532	0	AFTPH	2	64808374	Frame_Shift_Del	DEL	G	TCGA-A3-3349-01A-01D-1251-10	14085233	64808374	178390999	7	766											
ARPC2	10109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219093573	219093573	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcacatggtgctgatgaGgtaagatccacatcattttc	11	11	10	9	0	1	3	1	2	0	1	3	3	2	3	1	3	1	3	1	3	1	3	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	219093573	G	T	219093573	3	4	13	1	0	0	0	0	1	0	0	0	971	1014	35	4	232	4	ARPC2	2	219093573	Missense_Mutation	SNP	G	TCGA-A3-3349-01A-01D-1251-10	154285199	219093573	24105800	8	767											
COL6A3	1293	broad.mit.edu	37	chr2	238280926	238280926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacgtactggaactcaggcCcggcactttgggacccatcg	9	7	12	13	3	1	0	1	0	0	0	2	3	1	2	2	4	3	2	2	4	3	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	238280926	T	T	238280926	3	4	13	1	0	0	0	0	1	0	0	0	3701	623	22	2	5990	2	COL6A3	2	238280926	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10	19187353	238280926	4918447	9	768											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191540	10191540	+	Frame_Shift_Del	DEL	T	T	-																															gcctgagaattacaggagacTggacatcgtcaggtcgctct																								novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		-	10191540	T	-	10191540	7	5	13	1	0	1	0	1	0	0	0	0	17161	1580	55	0	543	0	VHL	3	10191540	Frame_Shift_Del	DEL	T	TCGA-A3-3349-01A-01D-1251-10		10191540	187830890	10	769											
GALNTL2	117248	broad.mit.edu;ucsc.edu	37	chr3	16237362	16237362	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctcctgcggactgtacAcagcatcctcgacacagtgc	9	8	8	16	2	1	0	0	0	1	0	4	2	2	1	2	1	4	2	2	1	1	1	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	16237362	G	G	16237362	3	3	13	1	0	0	0	0	1	0	0	0	6222	159	6	3	641	3	GALNTL2	3	16237362	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10	6045822	16237362	181785068	11	770											
PODXL2	50512	hgsc.bcm.edu;ucsc.edu	37	chr3	127390442	127390442	+	Frame_Shift_Del	DEL	A	A	-																															gctggcagcgccggctgcccAagctcaagcacgtggtgagt																								novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		-	127390442	A	-	127390442	7	5	13	1	0	1	0	1	0	0	0	0	12181	131	5	0	1617	0	PODXL2	3	127390442	Frame_Shift_Del	DEL	A	TCGA-A3-3349-01A-01D-1251-10	111153080	127390442	70631988	12	771											
IQCG	84223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	197652965	197652965	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgatattatctgttttcttCctttttcctccctagaagat	7	20	5	9	0	2	3	0	1	2	2	5	3	5	3	3	0	0	1	3	0	4	8	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		A	197652965	C	A	197652965	3	1	13	1	0	0	0	0	1	0	0	0	7810	855	30	4	699	4	IQCG	3	197652965	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10	70262523	197652965	369465	13	772											
TEC	100124696	hgsc.bcm.edu;ucsc.edu	37	chr4	48147535	48147535	+	Frame_Shift_Del	DEL	A	A	-																															ttgccaagcctcaccactccAaacagtccacttcccaattc																								novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		-	48147535	A	-	48147535	7	5	13	1	0	1	0	1	0	0	0	0	15741	127	5	0	776	0	TEC	4	48147535	Frame_Shift_Del	DEL	A	TCGA-A3-3349-01A-01D-1251-10		48147535	143006741	14	773											
ADAMTS12	81792	broad.mit.edu;ucsc.edu	37	chr5	33683970	33683970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagtctggcataccatgttCatgatggtgaggatgtagga	10	12	14	5	0	2	2	1	2	1	0	2	4	2	4	1	4	1	4	1	4	3	4	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	33683970	T	T	33683970	3	4	13	1	0	0	0	0	1	0	0	0	257	826	29	2	4043	2	ADAMTS12	5	33683970	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10		33683970	147231290	15	774											
MSX2	4488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	174156377	174156377	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accgaagggccaaggcgaaaAgactgcaggaggcagaactg	15	2	15	9	2	0	2	0	0	0	2	0	5	0	3	2	4	2	2	2	4	5	0	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	174156377	A	T	174156377	4	4	13	1	0	0	0	0	0	1	0	0	9896	64	3	5	601	5	MSX2	5	174156377	Nonsense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10	140472407	174156377	6758883	16	775											
C6orf97	0	broad.mit.edu;hgsc.bcm.edu	37	chr6	151894314	151894314	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtaatcattttaggacctGctcagtgctgtagaagcaaa	12	12	9	8	0	2	1	2	0	0	1	2	2	2	2	1	1	3	5	1	1	5	4	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		A	151894314	G	A	151894314	2	1	13	1	0	0	0	0	0	0	0	1	2374	1306	46	2		2	C6orf97	6	151894314	Silent	SNP	G	TCGA-A3-3349-01A-01D-1251-10		151894314	19220753	17	776											
PMS2	5395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6042192	6042192	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtagggggttttctggatAattttcccattgtgatcaaa	9	15	12	5	0	2	1	1	1	1	0	3	2	3	2	1	4	0	2	1	4	3	7	rs35650314		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	6042192	A	G	6042192	2	3	13	1	0	0	0	0	0	0	0	1	12143	358	13	3		3	PMS2	7	6042192	Silent	SNP	A	TCGA-A3-3349-01A-01D-1251-10		6042192	153096471	18	777											
CHRNA2	1135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27321118	27321118	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaccagcacagtgaggCaggagatgagcaggcagggg	14	2	18	7	0	0	5	0	2	0	3	0	6	0	5	1	5	2	4	1	5	1	0	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	27321118	C	G	27321118	3	3	13	1	0	0	0	0	1	0	0	0	3383	710	25	4	755	4	CHRNA2	8	27321118	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10		27321118	119042904	19	778											
CRISPLD1	83690	broad.mit.edu;ucsc.edu	37	chr8	75927084	75927084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccccttacaaacatgggCggccctgttctgcttgccca	7	10	9	15	1	1	0	0	0	1	0	1	0	1	0	4	2	5	2	4	2	2	3	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	75927084	T	T	75927084	3	4	13	1	0	0	0	0	1	0	0	0	3882	759	27	1	682	1	CRISPLD1	8	75927084	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10	48605966	75927084	70436938	20	779											
RGS3	5998	broad.mit.edu;ucsc.edu	37	chr9	116267783	116267783	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctgctgcgactctccagttcGagtccaggccgtggattccg	5	10	12	14	4	1	0	0	0	1	0	5	3	3	1	4	2	2	2	4	2	0	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	116267783	C	C	116267783	3	2	13	1	0	0	0	0	1	0	0	0	13308	1058	37	4	1142	4	RGS3	9	116267783	Missense_Mutation	SNP	G	TCGA-A3-3349-01A-01D-1251-10		116267783	24945648	21	780											
ACSL5	51703	hgsc.bcm.edu;ucsc.edu	37	chr10	114164332	114164332	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggctatcttacaaacAggtaagttgagtccatgttt	12	13	9	7	0	1	2	0	1	1	1	2	2	2	2	1	2	2	4	1	2	4	5	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	114164332	A	T	114164332	3	4	13	1	0	0	0	0	1	0	0	0	180	202	7	5	511	5	ACSL5	10	114164332	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10		114164332	21370415	22	781											
TRIM21	6737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4411299	4411299	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtttccgagactgggcaCatacccagcaaagggccttc	9	8	12	12	1	0	1	0	0	0	1	2	2	1	1	3	3	2	3	3	3	2	3	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	4411299	C	T	4411299	3	4	13	1	0	0	0	0	1	0	0	0	16494	478	17	2	1110	2	TRIM21	11	4411299	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10		4411299	130595217	23	782											
ABTB2	25841	hgsc.bcm.edu	37	chr11	34174107	34174107	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagccctcacagaacaGggccagttctggggcattgt	11	7	13	10	0	2	2	1	0	1	2	2	3	2	2	2	3	2	2	2	3	3	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	34174107	G	T	34174107	3	4	13	1	0	0	0	0	1	0	0	0	103	991	35	4	176	4	ABTB2	11	34174107	Missense_Mutation	SNP	G	TCGA-A3-3349-01A-01D-1251-10	29762808	34174107	100832409	24	783											
BEST1	7439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61730491	61730491	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccagagcacactggaccTacgcccagcactggcttggg	8	6	12	15	1	0	1	0	0	0	1	0	2	0	2	3	3	4	3	3	3	1	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	61730491	T	C	61730491	3	2	13	1	0	0	0	0	1	0	0	0	1404	1522	53	3	1899	3	BEST1	11	61730491	Missense_Mutation	SNP	T	TCGA-A3-3349-01A-01D-1251-10	27556384	61730491	73276025	25	784											
SYT12	91683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66807536	66807536	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtggaggtgagcatggaGtacgacactgcctcccacac	10	6	13	12	1	0	1	0	1	0	0	1	4	1	3	2	4	3	2	2	4	1	1	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		A	66807536	G	A	66807536	2	1	13	1	0	0	0	0	0	0	0	1	15467	1020	36	2		2	SYT12	11	66807536	Silent	SNP	G	TCGA-A3-3349-01A-01D-1251-10	5077045	66807536	68198980	26	785											
ACAD10	80724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112193484	112193484	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccttacaggctgcagccttgGatatagccatgattaaaatg	12	11	9	9	0	0	1	0	1	0	0	0	2	0	2	3	2	4	2	3	2	5	5	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		A	112193484	G	A	112193484	3	1	13	1	0	0	0	0	1	0	0	0	108	1174	41	2	3145	2	ACAD10	12	112193484	Missense_Mutation	SNP	G	TCGA-A3-3349-01A-01D-1251-10		112193484	21658411	27	786											
C14orf174	0	broad.mit.edu	37	chr14	77844367	77844367	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacttagagtgcaacatgaAgagacaggtctagagcctcc	13	8	10	10	0	2	4	1	1	1	3	3	5	3	4	2	1	3	1	2	1	4	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	77844367	G	G	77844367	2	3	13	1	0	0	0	0	0	0	0	1	1759	69	3	3		3	C14orf174	14	77844367	Silent	SNP	A	TCGA-A3-3349-01A-01D-1251-10		77844367	29505173	28	787											
ZFHX3	463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	72829790	72829790	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatcctttgggtaagcaTtggcatcgaagaagtcctgt	10	12	10	9	1	1	1	1	0	0	1	4	2	3	1	2	2	1	3	2	2	3	3	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	72829790	T	G	72829790	3	3	13	1	0	0	0	0	1	0	0	0	17633	1493	52	5	4328	5	ZFHX3	16	72829790	Missense_Mutation	SNP	T	TCGA-A3-3349-01A-01D-1251-10		72829790	17524963	29	788											
ERBB2	2064	broad.mit.edu	37	chr17	37883729	37883729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctacagcggtacagtgAggaccccacagtacccctgc	9	6	9	17	1	1	1	0	1	1	0	1	2	1	2	5	2	5	2	5	2	3	3	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	37883729	G	G	37883729	3	3	13	1	0	0	0	0	1	0	0	0	5206	304	11	3	3443	3	ERBB2	17	37883729	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10		37883729	43311481	30	789											
SCPEP1	59342	hgsc.bcm.edu;ucsc.edu	37	chr17	55072362	55072362	+	Frame_Shift_Del	DEL	C	C	-																															attcggtgctctcctggggaCcttacctgtacagcatggta																								novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		-	55072362	C	-	55072362	7	5	13	1	0	1	0	1	0	0	0	0	13937	507	18	0	666	0	SCPEP1	17	55072362	Frame_Shift_Del	DEL	C	TCGA-A3-3349-01A-01D-1251-10	17188633	55072362	26122848	31	790											
BCAS3	54828	broad.mit.edu;ucsc.edu	37	chr17	59155722	59155722	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaacacacactggaccccAtagacgtctgtggatgggtc	10	9	11	11	1	1	1	0	0	1	1	2	3	1	3	2	3	1	1	2	3	2	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		G	59155722	G	G	59155722	3	3	13	1	0	0	0	0	1	0	0	0	1352	217	8	3	2286	3	BCAS3	17	59155722	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10	4083360	59155722	22039488	32	791											
USP36	57602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76795062	76795062	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgtctgctgtcttcaatAgcatcctgactgaccgccga	7	11	9	14	2	3	2	1	2	2	0	4	3	4	2	4	0	2	2	4	0	2	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	76795062	A	C	76795062	2	2	13	1	0	0	0	0	0	0	0	1	17066	407	15	5		5	USP36	17	76795062	Silent	SNP	A	TCGA-A3-3349-01A-01D-1251-10	17639340	76795062	4400148	33	792											
ATP5A1	498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	43668204	43668204	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctggttaatgattgtgtCaatagcaattgaggttttcc	9	18	9	5	0	2	2	1	2	1	0	3	2	3	2	1	2	1	3	1	2	4	7	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		A	43668204	C	A	43668204	3	1	13	1	0	0	0	0	1	0	0	0	1147	826	29	4	1019	4	ATP5A1	18	43668204	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10		43668204	34409044	34	793											
LRRC8E	80131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7964495	7964495	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgacgtcaagaatgactTcgccttcatgctgcacctca	9	11	7	14	2	3	3	3	2	0	1	5	3	4	3	3	0	2	2	3	0	2	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		C	7964495	T	C	7964495	3	2	13	1	0	0	0	0	1	0	0	0	9025	1783	62	3	1094	3	LRRC8E	19	7964495	Missense_Mutation	SNP	T	TCGA-A3-3349-01A-01D-1251-10		7964495	51164488	35	794											
RGL3	57139	broad.mit.edu	37	chr19	11529441	11529441	+	Frame_Shift_Del	DEL	C	-	-																															cgccgtcctcggtctcttcaCcccagtcctgcagcggtgcc																								novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		-	11529441	-	-	11529441	7	5	13	1	0	1	0	1	0	0	0	0	13280	507	18	0	2169	0	RGL3	19	11529441	Frame_Shift_Del	DEL	C	TCGA-A3-3349-01A-01D-1251-10	3564946	11529441	47599542	36	795											
EPS8L1	54869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55597327	55597327	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagctgtcggtcaagcagCgggacgtactggaggttaga	9	8	17	7	3	1	2	1	1	0	1	2	4	1	4	0	4	4	4	0	4	3	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	55597327	C	T	55597327	3	4	13	1	0	0	0	0	1	0	0	0	5195	759	27	1	1610	1	EPS8L1	19	55597327	Missense_Mutation	SNP	C	TCGA-A3-3349-01A-01D-1251-10	44067886	55597327	3531656	37	796											
SIRPG	55423	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	1616066	1616066	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggaaccagcttgtccAgttgtaggtaccatccttgt	9	11	9	12	0	0	0	0	0	0	0	2	1	2	1	5	2	3	4	5	2	3	5	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	1616066	A	T	1616066	3	4	13	1	0	0	0	0	1	0	0	0	14338	188	7	5	243	5	SIRPG	20	1616066	Missense_Mutation	SNP	A	TCGA-A3-3349-01A-01D-1251-10		1616066	61409454	38	797											
RGL4	266747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24034361	24034361	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagccctgctgtatggccaGgtctgccccttccaggacag	7	8	11	15	0	1	0	0	0	1	0	2	1	2	1	5	3	3	2	5	3	1	2	novel		TCGA-A3-3349-01A-01D-1251-10	TCGA-A3-3349-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2b257f6-9cb5-4598-89c7-f0b55e24dbb3	aa4a92b2-92ab-48d5-a8e5-9e84319e1799		T	24034361	G	T	24034361	3	4	13	1	0	0	0	0	1	0	0	0	13281	991	35	4	146	4	RGL4	22	24034361	Missense_Mutation	SNP	G	TCGA-A3-3349-01A-01D-1251-10		24034361	27270205	39	798											
AK2	204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33487201	33487201	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagctacccaccatttctGcctgcctcacagtccgaggg	8	9	8	16	1	2	0	1	0	1	0	3	1	3	0	5	1	4	1	5	1	2	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	33487201	G	T	33487201	3	4	14	1	0	0	0	0	1	0	0	0	440	1319	46	4	421	4	AK2	1	33487201	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08		33487201	215763420	1	799											
TMEM48	55706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54262374	54262374	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcctacctgttcacgtttAttctgaatccatgaataaat	12	15	4	10	1	2	2	1	2	1	0	4	2	4	2	3	0	1	2	3	0	6	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	54262374	A	C	54262374	3	2	14	1	0	0	0	0	1	0	0	0	16171	446	16	5	476	5	TMEM48	1	54262374	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	20775173	54262374	194988247	2	800											
C1orf56	54964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151021076	151021076	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaagccttgcacctatcaAcaatgtccctgcaaccgact	12	8	5	16	1	1	0	1	0	0	0	2	1	2	0	4	0	5	2	4	0	5	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	151021076	A	G	151021076	2	3	14	1	0	0	0	0	0	0	0	1	2048	40	2	3		3	C1orf56	1	151021076	Silent	SNP	A	TCGA-A3-3357-01A-02D-1421-08	96758702	151021076	98229545	3	801											
FCRL3	115352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157650775	157650775	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctagggagtcctcaccattGctgtacattggctccagctc	7	11	9	14	0	1	0	1	0	0	0	4	1	3	1	4	2	3	4	4	2	2	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	157650775	G	A	157650775	2	1	14	1	0	0	0	0	0	0	0	1	5796	1310	46	2		2	FCRL3	1	157650775	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	6629699	157650775	91599846	4	802											
SELL	6402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169677787	169677787	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtagtaagaacgactgaaAggcagagtcttctccagata	15	8	10	8	1	2	4	0	1	2	3	3	5	2	4	1	1	1	3	1	1	5	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	169677787	A	T	169677787	2	4	14	1	0	0	0	0	0	0	0	1	14018	59	3	5		5	SELL	1	169677787	Silent	SNP	A	TCGA-A3-3357-01A-02D-1421-08	12027012	169677787	79572834	5	803											
TNR	7143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	175299227	175299227	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacccgcagtgccgttgtagCttcctatgcggagtttgtac	6	13	11	11	3	0	0	0	0	0	0	1	1	1	1	3	1	5	6	3	1	4	7	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	175299227	C	A	175299227	3	1	14	1	0	0	0	0	1	0	0	0	16337	797	28	4	312	4	TNR	1	175299227	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	5621440	175299227	73951394	6	804											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186064396	186064396	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accaccaaatatggacaattCaatggggacagaggaaatca	18	6	9	8	0	2	1	2	0	0	1	2	4	2	4	2	4	0	0	2	4	5	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	186064396	C	G	186064396	4	3	14	1	0	0	0	0	0	1	0	0	7220	838	29	4	10586	4	HMCN1	1	186064396	Nonsense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	10765169	186064396	63186225	7	805											
TAF1A	9015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222743918	222743918	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtcccaaactccaggaaTtttaatcaatgcagaaatat	16	10	7	8	0	1	1	1	0	0	1	3	2	3	2	2	2	2	1	2	2	6	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	222743918	T	C	222743918	3	2	14	1	0	0	0	0	1	0	0	0	15518	1493	52	3	682	3	TAF1A	1	222743918	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	36679522	222743918	26506703	8	806											
ZNF496	84838	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247463962	247463962	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcaggtgaaagtggctGcggtgccgagccaggtggtc	6	9	16	10	2	1	1	1	1	0	0	3	2	2	1	3	5	3	1	3	5	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	247463962	G	C	247463962	2	2	14	1	0	0	0	0	0	0	0	1	17944	1306	46	4		4	ZNF496	1	247463962	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	24720044	247463962	1786659	9	807											
GCC2	9648	hgsc.bcm.edu;ucsc.edu	37	chr2	109104197	109104197	+	Frame_Shift_Del	DEL	G	G	-																															ctgaattcgagagctacaaaGtccgagttcataatgttcta																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		-	109104197	G	-	109104197	7	5	14	1	0	1	0	1	0	0	0	0	6286	1029	36	0	4039	0	GCC2	2	109104197	Frame_Shift_Del	DEL	G	TCGA-A3-3357-01A-02D-1421-08		109104197	134095176	10	808											
IFIH1	64135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	163144684	163144684	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttttccaggctcagatgcTtttttcttcttgtctaagtg	6	19	7	9	0	4	1	1	0	3	1	5	1	5	1	1	1	1	2	1	1	1	8	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	163144684	T	G	163144684	3	3	14	1	0	0	0	0	1	0	0	0	7520	1606	56	5	2069	5	IFIH1	2	163144684	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	54040487	163144684	80054689	11	809											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	168104032	168104032	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctctggagaaaagccttAgaagactatctaattcacac	15	10	7	9	0	3	3	1	0	2	3	3	4	3	3	1	1	2	1	1	1	6	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	168104032	A	G	168104032	3	3	14	1	0	0	0	0	1	0	0	0	17429	412	15	3	6160	3	XIRP2	2	168104032	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	4959348	168104032	75095341	12	810											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179466064	179466064	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaaaacggttttctgctcGcacacggaagaaatattgct	13	10	8	10	3	1	1	0	0	1	1	2	2	1	2	1	2	3	4	1	2	5	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	179466064	G	A	179466064	4	1	14	1	0	0	0	0	0	1	0	0	16734	1095	38	1	52337	1	TTN	2	179466064	Nonsense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	11362032	179466064	63733309	13	811											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179571302	179571302	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacgcatcggtataaccCagaatcagtttttgtggtgt	9	13	10	9	2	1	1	1	0	0	1	2	1	1	1	2	2	2	3	2	2	3	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	179571302	C	A	179571302	3	1	14	1	0	0	0	0	1	0	0	0	16734	594	21	4	75274	4	TTN	2	179571302	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	105238	179571302	63628071	14	812											
OBFC2A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	192546733	192546733	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggggtggtgaacttcaaAaaattggggagtaagtatta	15	10	14	2	0	1	1	1	1	0	0	1	3	1	2	0	5	1	2	0	5	8	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	192546733	A	C	192546733	3	2	14	1	0	0	0	0	1	0	0	0	10808	15	1	5	302	5	OBFC2A	2	192546733	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	12975431	192546733	50652640	15	813											
COL4A4	1286	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	227919340	227919340	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcagtccccggtctccagGaaggccagacatgcccttct	7	9	9	16	1	3	1	1	0	3	1	6	2	4	2	5	3	1	0	5	3	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	227919340	G	T	227919340	3	4	14	1	0	0	0	0	1	0	0	0	3693	1174	41	4	2314	4	COL4A4	2	227919340	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	35372607	227919340	15280033	16	814											
GIGYF2	26058	hgsc.bcm.edu;ucsc.edu	37	chr2	233708765	233708767	+	In_Frame_Del	DEL	CAG	CAG	-																															ttatgcaacagcaaaggcgcCagcagagggagttgatgaaa																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		-	233708767	CAG	-	233708765	7	5	14	1	0	1	0	1	0	0	0	0	6378	595	21	0	3055	0	GIGYF2	2	233708765	In_Frame_Del	DEL	CAG	TCGA-A3-3357-01A-02D-1421-08	5789425	233708765	9490608	17	815											
RFTN1	23180	broad.mit.edu;ucsc.edu	37	chr3	16535237	16535237	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccatgtactcaccagcaCtcagagtcgtgaactccagg	11	7	8	15	1	2	2	2	1	0	1	4	2	3	2	4	1	3	2	4	1	2	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	16535237	A	A	16535237	3	1	14	1	0	0	0	0	1	0	0	0	13260	565	20	4	1632	4	RFTN1	3	16535237	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		16535237	181487193	18	816											
ARHGAP31	57514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	119099820	119099820	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atgttatccaggagcttcctCcatcccactataggtaagaa	12	11	7	11	0	0	1	0	0	0	1	4	2	4	2	4	2	1	3	4	2	5	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	119099820	C	G	119099820	3	3	14	1	0	0	0	0	1	0	0	0	880	855	30	4	432	4	ARHGAP31	3	119099820	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	102564583	119099820	78922610	19	817											
COPG	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128986841	128986841	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccttctacctaaatgtcctgGagcagaagcagaaggccctt	11	9	9	12	0	1	2	0	0	1	2	2	3	2	3	4	2	3	2	4	2	5	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	128986841	G	C	128986841	3	2	14	1	0	0	0	0	1	0	0	0	3731	1175	41	4	1668	4	COPG	3	128986841	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	9887021	128986841	69035589	20	818											
COL6A5	256076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130162331	130162331	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctcaatagggggattcaatCagtacccaccaccgatgctt	11	10	8	12	1	3	0	3	0	1	0	4	2	3	1	3	2	2	2	3	2	4	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	130162331	C	G	130162331	3	3	14	1	0	0	0	0	1	0	0	0	3702	827	29	4	6637	4	COL6A5	3	130162331	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	1175490	130162331	67860099	21	819											
TBL1XR1	79718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	176768295	176768295	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagatcactaacagggttCcaggcacagataaaaacttc	16	7	9	9	0	1	2	1	0	0	2	3	3	2	2	1	3	2	2	1	3	4	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	176768295	C	A	176768295	3	1	14	1	0	0	0	0	1	0	0	0	15639	856	30	4	1057	4	TBL1XR1	3	176768295	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	46605964	176768295	21254135	22	820											
PIK3CA	5290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	178952090	178952090	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaatgatgcacatcatGgtggctggacaacaaaaatg	17	8	10	6	0	1	2	1	2	0	0	1	3	1	3	0	3	2	2	0	3	5	0	rs121913277	bycluster	TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	178952090	G	C	178952090	3	2	14	1	0	0	0	0	1	0	0	0	11913	1348	47	4	3223	4	PIK3CA	3	178952090	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	2183795	178952090	19070340	23	821											
EIF4A2	1974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186505363	186505363	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcgtgttctgatcactaCtgacttgttggtaagtctct	8	16	9	8	1	3	2	1	2	2	0	5	2	3	2	0	1	1	3	0	1	3	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	186505363	C	T	186505363	3	4	14	1	0	0	0	0	1	0	0	0	5025	565	20	2	1023	2	EIF4A2	3	186505363	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	7553273	186505363	11517067	24	822											
OPA1	4976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193366636	193366636	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatgaagttatcagtcTgagccaggttacaccaaaac	13	10	8	10	0	2	3	1	3	1	0	2	3	2	3	3	1	3	2	3	1	5	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	193366636	T	C	193366636	3	2	14	1	0	0	0	0	1	0	0	0	10871	1580	55	3	2070	3	OPA1	3	193366636	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	6861273	193366636	4655794	25	823											
RNF4	6047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2515531	2515531	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcaaccacaaacggtaccaCcccatttatatatgaagtat	16	10	4	11	1	1	1	1	1	0	0	1	1	1	1	4	1	3	2	4	1	8	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	2515531	C	A	2515531	3	1	14	1	0	0	0	0	1	0	0	0	13494	506	18	4	584	4	RNF4	4	2515531	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		2515531	188638745	26	824											
SEPSECS	51091	broad.mit.edu	37	chr4	25160704	25160704	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttcaagtgtactttcaTcccagccattctctggacac	10	12	7	12	0	3	1	2	0	1	1	5	2	4	2	2	1	2	2	2	1	2	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	25160704	C	C	25160704	3	2	14	1	0	0	0	0	1	0	0	0	14060	1435	50	3	1405	3	SEPSECS	4	25160704	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	22645173	25160704	165993572	27	825											
RFC1	5981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39324978	39324978	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctttttggtcttgggttcTtcatccaacatggctaatgt	7	17	8	9	0	3	0	1	0	2	0	4	0	4	0	2	3	1	2	2	3	2	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	39324978	T	C	39324978	2	2	14	1	0	0	0	0	0	0	0	1	13246	1606	56	3		3	RFC1	4	39324978	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08	14164274	39324978	151829298	28	826											
FIP1L1	81608	hgsc.bcm.edu;ucsc.edu	37	chr4	54256754	54256755	+	Frame_Shift_Ins	INS	-	-	AG																															ggagttccactcttagaggtINSagatttggattcttttgaag																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		AG	54256755	-	AG	54256754	7	5	14	1	0	1	1	0	0	0	0	0	5896	1638	57	0	490	0	FIP1L1	4	54256754	Frame_Shift_Ins	INS	-	TCGA-A3-3357-01A-02D-1421-08	14931776	54256754	136897522	29	827											
CEP135	9662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	56890684	56890684	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaacgagcaatccaagAgatgcgtcgacatggtcttg	13	7	12	9	3	1	2	0	0	1	2	3	6	2	2	1	1	3	1	1	1	3	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	56890684	A	C	56890684	3	2	14	1	0	0	0	0	1	0	0	0	3247	304	11	5	3432	5	CEP135	4	56890684	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	2633930	56890684	134263592	30	828											
HELQ	113510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	84374451	84374451	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctgggtaatgaataaaaAggaccaaggtcatttgatga	15	11	11	4	0	1	3	1	3	0	0	1	4	1	4	1	3	1	2	1	3	6	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	84374451	A	C	84374451	2	2	14	1	0	0	0	0	0	0	0	1	7047	59	3	5		5	HELQ	4	84374451	Silent	SNP	A	TCGA-A3-3357-01A-02D-1421-08	27483767	84374451	106779825	31	829											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33751536	33751536	+	Frame_Shift_Del	DEL	T	T	-																															tccacaggttggctccttggTttctggaactttctgcctcc																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		-	33751536	T	-	33751536	7	5	14	1	0	1	0	1	0	0	0	0	257	1725	60	0	4265	0	ADAMTS12	5	33751536	Frame_Shift_Del	DEL	T	TCGA-A3-3357-01A-02D-1421-08		33751536	147163724	32	830											
GCNT4	51301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	74325838	74325838	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgctgtagggtatgttTaaaataacatttgaatatct	12	18	7	4	0	2	1	0	1	2	0	2	1	2	1	0	1	2	4	0	1	7	8	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	74325838	T	G	74325838	3	3	14	1	0	0	0	0	1	0	0	0	6303	1763	61	5	1340	5	GCNT4	5	74325838	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	40574302	74325838	106589422	33	831											
FCHSD1	89848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141025713	141025713	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgttctatgcttggagcctCccgctctgaagcctgctgcc	4	12	10	15	1	2	1	0	1	2	0	3	2	3	2	4	1	5	4	4	1	2	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	141025713	C	A	141025713	4	1	14	1	0	0	0	0	0	1	0	0	5789	864	30	4	1018	4	FCHSD1	5	141025713	Nonsense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	66699875	141025713	39889547	34	832											
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141243421	141243421	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgtccaggctgtggcccagGagggtctccagcagcgtgcg	5	7	17	12	2	1	0	0	0	1	0	3	1	2	1	3	4	3	2	3	4	0	0	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	141243421	G	A	141243421	2	1	14	1	0	0	0	0	0	0	0	1	11506	1161	41	2		2	PCDH1	5	141243421	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	217708	141243421	39671839	35	833											
DPYSL3	1809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	146792202	146792202	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatccccattctcagcatgaActtgagcaatggcccccagc	10	9	7	15	0	1	2	1	2	1	0	3	2	2	2	4	1	4	2	4	1	3	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	146792202	A	G	146792202	3	3	14	1	0	0	0	0	1	0	0	0	4748	43	2	3	1158	3	DPYSL3	5	146792202	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	5548781	146792202	34123058	36	834											
SH3TC2	79628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	148406556	148406556	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actaattccatgtctgtctcCttactggcctgaagttcaca	9	14	6	12	0	3	1	1	1	2	0	5	1	4	1	3	1	1	1	3	1	3	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	148406556	C	G	148406556	3	3	14	1	0	0	0	0	1	0	0	0	14264	680	24	4	1155	4	SH3TC2	5	148406556	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	1614354	148406556	32508704	37	835											
FBXW11	23291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	171299957	171299957	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccgcttgtgcccattgAgagtacgaacaaattcacag	11	9	9	12	2	1	1	1	1	0	1	1	3	1	1	3	0	4	2	3	0	3	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	171299957	A	G	171299957	3	3	14	1	0	0	0	0	1	0	0	0	5764	304	11	3	448	3	FBXW11	5	171299957	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	22893401	171299957	9615303	38	836											
KIAA0319	9856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24547467	24547467	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaaacctttggattccCtctctccatcttttctcggc	6	15	6	14	1	3	0	0	0	3	0	7	2	5	2	3	3	1	0	3	3	1	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	24547467	C	G	24547467	3	3	14	1	0	0	0	0	1	0	0	0	8168	681	24	4	77	4	KIAA0319	6	24547467	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		24547467	146567600	39	837											
COL9A1	1297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	71004163	71004163	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgctccttcccagaggaatCctgaatctgccaaatgttcc	9	12	7	13	0	1	2	0	1	1	1	5	3	5	3	5	1	2	2	5	1	3	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	71004163	C	T	71004163	3	4	14	1	0	0	0	0	1	0	0	0	3707	855	30	2	2574	2	COL9A1	6	71004163	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	46456696	71004163	100110904	40	838											
ZUFSP	221302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	116987929	116987929	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcataaacagatccttTtatttcggtcaggctggact	9	16	8	8	1	2	1	2	0	0	1	4	2	3	2	1	3	1	2	1	3	3	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	116987929	T	G	116987929	3	3	14	1	0	0	0	0	1	0	0	0	18245	1850	64	5	1345	5	ZUFSP	6	116987929	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	45983766	116987929	54127138	41	839											
FOXK1	221937	broad.mit.edu;hgsc.bcm.edu	37	chr7	4794095	4794095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttctctctcctcagtgtccCcaactcctgcccagccagtc	5	11	5	20	0	3	0	1	0	2	0	8	0	5	0	6	0	3	0	6	0	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	4794095	C	T	4794095	3	4	14	1	0	0	0	0	1	0	0	0	6014	623	22	2	762	2	FOXK1	7	4794095	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		4794095	154344568	42	840											
SP4	6671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21469100	21469100	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaacgcttggcaacttgttgCctccactcctcctgcttcaa	8	12	6	15	1	1	0	1	0	0	0	4	0	4	0	4	1	4	4	4	1	3	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	21469100	C	T	21469100	3	4	14	1	0	0	0	0	1	0	0	0	14968	739	26	2	327	2	SP4	7	21469100	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	16675005	21469100	137669563	43	841											
TAX1BP1	8887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	27868314	27868314	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaactatgatcagagcaaaTttgaagaacatgttgaaagt	17	11	8	5	0	1	5	1	3	0	2	1	5	1	5	0	0	3	2	0	0	6	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	27868314	T	A	27868314	3	1	14	1	0	0	0	0	1	0	0	0	15593	1493	52	5	2298	5	TAX1BP1	7	27868314	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	6399214	27868314	131270349	44	842											
CLIP2	7461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	73790732	73790732	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctggagctgggtaacttGcaggccaagcatgacctgga	10	7	14	10	0	0	1	0	1	0	0	0	3	0	3	2	4	5	5	2	4	2	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	73790732	G	T	73790732	3	4	14	1	0	0	0	0	1	0	0	0	3533	1310	46	4	2035	4	CLIP2	7	73790732	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	45922418	73790732	85347931	45	843											
KRIT1	889	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91842561	91842561	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatattcactcctacatacAcagggatgactttatgattg	12	15	6	8	0	1	2	1	2	0	0	2	3	2	3	1	1	2	0	1	1	5	8	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	91842561	A	T	91842561	3	4	14	1	0	0	0	0	1	0	0	0	8445	159	6	5	249	5	KRIT1	7	91842561	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	18051829	91842561	67296102	46	844											
WASL	8976	broad.mit.edu;ucsc.edu	37	chr7	123329154	123329154	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattaatgcacccacaatTcctgaagtgggtgcaggtgt	10	11	10	10	0	0	1	0	1	0	0	2	1	2	1	3	2	2	2	3	2	3	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	123329154	C	C	123329154	2	2	14	1	0	0	0	0	0	0	0	1	17255	1770	62	3		3	WASL	7	123329154	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08	31486593	123329154	35809509	47	845											
EPHA1	2041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	143096499	143096499	+	Frame_Shift_Del	DEL	A	A	-																															tccatccggtaggagccgctAgggcaggctggagagagaac																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		-	143096499	A	-	143096499	7	5	14	1	0	1	0	1	0	0	0	0	5165	407	15	0	2143	0	EPHA1	7	143096499	Frame_Shift_Del	DEL	A	TCGA-A3-3357-01A-02D-1421-08	19767345	143096499	16042164	48	846											
WHSC1L1	54904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38189086	38189086	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgctaaaaaactggaCatgatattctcgggcacctg	11	11	10	9	1	1	1	0	1	1	0	2	2	1	2	1	3	2	3	1	3	4	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	38189086	C	A	38189086	3	1	14	1	0	0	0	0	1	0	0	0	17362	478	17	4	3552	4	WHSC1L1	8	38189086	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		38189086	108174936	49	847											
FRMD3	257019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	85950490	85950490	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcttctgtgactgcttgggGaaaatctcaaactcactgat	11	12	9	9	0	3	2	2	2	2	0	4	3	3	3	0	2	3	2	0	2	3	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	85950490	G	T	85950490	3	4	14	1	0	0	0	0	1	0	0	0	6050	1165	41	4	1292	4	FRMD3	9	85950490	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08		85950490	55262941	50	848											
DAPK1	1612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	90255297	90255297	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaactacgaatttgaggaTgaatacttcagtaataccag	15	11	8	7	1	2	2	2	2	0	0	2	4	2	3	1	1	4	1	1	1	7	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	90255297	T	C	90255297	2	2	14	1	0	0	0	0	0	0	0	1	4235	1461	51	3		3	DAPK1	9	90255297	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08	4304807	90255297	50958134	51	849											
ODF2	4957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131256864	131256864	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagatcacggaggcgaagCtggctgagtgccaagaccaa	13	5	14	9	2	1	4	1	2	0	2	1	6	1	5	2	3	2	2	2	3	4	0	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	131256864	C	T	131256864	2	4	14	1	0	0	0	0	0	0	0	1	10827	796	28	2		2	ODF2	9	131256864	Silent	SNP	C	TCGA-A3-3357-01A-02D-1421-08	41001567	131256864	9956567	52	850											
NEBL	10529	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	21076186	21076186	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacactggtctggtgcatgTagccatagccttgggaatgg	9	10	13	9	0	1	0	0	0	1	0	1	1	1	1	2	4	3	2	2	4	3	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	21076186	T	C	21076186	3	2	14	1	0	0	0	0	1	0	0	0	10303	1638	57	3	239	3	NEBL	10	21076186	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08		21076186	114458561	53	851											
ERCC6	2074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50678573	50678573	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taacttttcatcaatgctttCatcaccagatggcatagaag	13	13	6	9	0	4	2	4	0	0	2	4	2	4	2	1	1	2	2	1	1	4	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	50678573	C	T	50678573	3	4	14	1	0	0	0	0	1	0	0	0	5217	835	29	2	1064	2	ERCC6	10	50678573	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	29602387	50678573	84856174	54	852											
JMJD1C	221037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	64954117	64954117	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccttcacacacttcatcCaagcatatagttctttatct	10	15	3	13	0	4	0	2	0	2	0	6	0	6	0	2	0	1	2	2	0	4	7	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	64954117	C	G	64954117	3	3	14	1	0	0	0	0	1	0	0	0	7950	595	21	4	2011	4	JMJD1C	10	64954117	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	14275544	64954117	70580630	55	853											
OR2AG1	144125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6806547	6806547	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagagaaaacaccatctcCtttggaggctgtgcccttca	10	9	9	13	1	2	1	1	0	1	1	3	3	2	2	3	2	2	2	3	2	2	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	6806547	C	T	6806547	2	4	14	1	0	0	0	0	0	0	0	1	10984	668	24	2		2	OR2AG1	11	6806547	Silent	SNP	C	TCGA-A3-3357-01A-02D-1421-08		6806547	128199969	56	854											
CCDC73	493860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32657351	32657351	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataattcatttttaatcttaTtaatttctccattaagttct	12	22	1	6	0	4	0	1	0	3	0	5	0	4	0	1	0	0	1	1	0	5	10	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	32657351	T	C	32657351	3	2	14	1	0	0	0	0	1	0	0	0	2846	1493	52	3	2183	3	CCDC73	11	32657351	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	25850804	32657351	102349165	57	855											
SLC29A2	3177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66136951	66136951	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggacccgtgtggttggtgCtcaggatcctggctgtgctg	3	11	17	10	2	1	0	1	0	0	0	2	2	2	2	2	5	2	4	2	5	0	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	66136951	C	G	66136951	3	3	14	1	0	0	0	0	1	0	0	0	14537	797	28	4	1246	4	SLC29A2	11	66136951	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	33479600	66136951	68869565	58	856											
IL18BP	10068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	71711432	71711432	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcctgctcctgtgtgccCacgtcgtcactctcctggtc	2	12	11	16	2	2	0	1	0	1	0	7	0	4	0	4	2	2	1	4	2	0	0	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	71711432	C	T	71711432	3	4	14	1	0	0	0	0	1	0	0	0	7646	594	21	2	70	2	IL18BP	11	71711432	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	5574481	71711432	63295084	59	857											
FAM55B	0	broad.mit.edu;ucsc.edu	37	chr11	114568953	114568953	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccatgtgaataccaccAccagtgccacacacagcaca	14	5	5	17	0	1	1	1	1	0	0	1	1	1	1	5	0	3	1	5	0	2	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	114568953	T	T	114568953	3	4	14	1	0	0	0	0	1	0	0	0	5585	159	6	5	329	5	FAM55B	11	114568953	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	42857521	114568953	20437563	60	858											
C3AR1	719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	8212018	8212018	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtttaaatacattagaaTacagattttgacttgttaac	15	15	6	5	0	0	3	0	1	0	2	0	3	0	3	0	1	3	2	0	1	7	9	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	8212018	T	A	8212018	3	1	14	1	0	0	0	0	1	0	0	0	2205	1406	49	5	688	5	C3AR1	12	8212018	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08		8212018	125639877	61	859											
SYT10	341359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	33579108	33579108	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcagtaatttgtctttgCacacgtgcatgtttaattaa	10	16	8	7	1	2	0	1	0	1	0	2	0	2	0	0	1	2	5	0	1	3	6	rs111713819		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	33579108	C	T	33579108	2	4	14	1	0	0	0	0	0	0	0	1	15465	697	25	2		2	SYT10	12	33579108	Silent	SNP	C	TCGA-A3-3357-01A-02D-1421-08	25367090	33579108	100272787	62	860											
POC1B	282809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	89885862	89885862	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacttcgaactggagctgtAtgagctttaaattctgagaa	13	12	9	7	1	1	2	0	2	1	1	2	5	1	3	0	1	3	3	0	1	5	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	89885862	A	G	89885862	2	3	14	1	0	0	0	0	0	0	0	1	12176	446	16	3		3	POC1B	12	89885862	Silent	SNP	A	TCGA-A3-3357-01A-02D-1421-08	56306754	89885862	43966033	63	861											
C12orf48	0	hgsc.bcm.edu	37	chr12	102559621	102559621	+	Frame_Shift_Del	DEL	G	G	-																															ctaattttattaatttcattGacaaattagatgagattctt																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		-	102559621	G	-	102559621	7	5	14	1	0	1	0	1	0	0	0	0	1692	1290	45	0	552	0	C12orf48	12	102559621	Frame_Shift_Del	DEL	G	TCGA-A3-3357-01A-02D-1421-08	12673759	102559621	31292274	64	862											
ACACB	32	broad.mit.edu;hgsc.bcm.edu	37	chr12	109660697	109660697	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacatgtacggccaccagTtctgccccgagaacctcaag	10	8	9	14	2	2	2	1	1	1	1	2	3	2	2	5	1	3	2	5	1	3	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	109660697	T	C	109660697	3	2	14	1	0	0	0	0	1	0	0	0	107	1725	60	3	3870	3	ACACB	12	109660697	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	7101076	109660697	24191198	65	863											
UBE3B	89910	broad.mit.edu;hgsc.bcm.edu	37	chr12	109935725	109935725	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcagcacagtgaccccTgaggtaagcaggctctgtga	10	8	11	12	0	2	3	1	3	2	0	3	3	2	3	2	2	2	4	2	2	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	109935725	T	C	109935725	2	2	14	1	0	0	0	0	0	0	0	1	16879	1567	55	3		3	UBE3B	12	109935725	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08	275028	109935725	23916170	66	864											
DCT	1638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95092274	95092274	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccaaccaaagccaccaGtgttcccatgactactaaga	16	6	6	13	0	0	3	0	1	0	2	1	3	1	3	5	0	3	1	5	0	5	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	95092274	G	C	95092274	3	2	14	1	0	0	0	0	1	0	0	0	4304	1020	36	4	125	4	DCT	13	95092274	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08		95092274	20077604	67	865											
CCNB1IP1	57820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	20779855	20779855	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgaactgaaaatctccatCtccatcgccccgatttcgaa	11	11	5	14	3	3	2	0	2	3	0	7	4	3	2	4	0	1	0	4	0	4	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	20779855	C	T	20779855	3	4	14	1	0	0	0	0	1	0	0	0	2912	913	32	2	149	2	CCNB1IP1	14	20779855	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		20779855	86569685	68	866											
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71479737	71479737	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attcgattgaatagactattGaccattgatacagatttgtt	13	16	7	5	1	0	5	0	3	0	2	1	6	0	5	1	0	1	1	1	0	4	9	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	71479737	G	A	71479737	2	1	14	1	0	0	0	0	0	0	0	1	11591	1281	45	2		2	PCNX	14	71479737	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	50699882	71479737	35869803	69	867											
RBM25	58517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	73570036	73570036	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aagggaaagagaacgtgaacGagaaaaggagaaagaacggg	21	1	16	3	3	0	5	0	1	0	4	0	9	0	6	0	3	3	0	0	3	8	0	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	73570036	G	C	73570036	3	2	14	1	0	0	0	0	1	0	0	0	13127	1058	37	4	1038	4	RBM25	14	73570036	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	2090299	73570036	33779504	70	868											
FLRT2	23768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	86088731	86088731	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaccaactgcggatgctGactcaaggggtttttgataa	13	10	10	8	1	1	2	1	2	0	0	1	3	1	3	1	3	5	2	1	3	5	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	86088731	G	T	86088731	2	4	14	1	0	0	0	0	0	0	0	1	5939	1277	45	4		4	FLRT2	14	86088731	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	12518695	86088731	21260809	71	869											
RIN3	79890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	93118453	93118453	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccactgcaggcctgggcccCctcagggaggaagcgatgaa	9	4	14	14	1	1	1	1	1	0	0	1	4	1	3	4	4	2	1	4	4	2	0	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	93118453	C	A	93118453	2	1	14	1	0	0	0	0	0	0	0	1	13375	610	22	4		4	RIN3	14	93118453	Silent	SNP	C	TCGA-A3-3357-01A-02D-1421-08	7029722	93118453	14231087	72	870											
ATP8B4	79895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50336887	50336887	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaggaaatttctggaatTagctgaaacaaacattccaa	18	9	8	6	0	1	1	0	1	1	0	2	4	2	4	1	3	3	1	1	3	7	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	50336887	T	A	50336887	2	1	14	1	0	0	0	0	0	0	0	1	1197	1741	61	5		5	ATP8B4	15	50336887	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08		50336887	52194505	73	871											
HERC1	8925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63950916	63950916	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctacggagccatggcaAcctgaaaaacataattctgt	13	12	7	9	1	2	1	0	1	2	0	2	2	2	2	2	2	4	1	2	2	5	5	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	63950916	A	T	63950916	2	4	14	1	0	0	0	0	0	0	0	1	7057	57	2	5		5	HERC1	15	63950916	Silent	SNP	A	TCGA-A3-3357-01A-02D-1421-08	13614029	63950916	38580476	74	872											
IREB2	3658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78765670	78765670	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttggatgtgagttaactGggtcatcaaacccttttgtt	8	16	11	6	0	2	1	2	1	0	0	2	2	2	2	1	3	2	3	1	3	2	5	rs149685388	alternate_allele	TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	78765670	G	T	78765670	3	4	14	1	0	0	0	0	1	0	0	0	7826	1348	47	4	1000	4	IREB2	15	78765670	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	14814754	78765670	23765722	75	873											
MYH11	4629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15854414	15854414	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgttcttttgtctgagCtttctgtaccacatctcgcc	5	17	6	13	1	4	1	0	1	4	0	5	1	4	1	3	0	3	3	3	0	2	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	15854414	C	A	15854414	3	1	14	1	0	0	0	0	1	0	0	0	10031	797	28	4	4846	4	MYH11	16	15854414	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		15854414	74500339	76	874											
MYLK3	91807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	46743538	46743538	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagctttggcaggcaaattAttcagccactcgtgtttcag	10	12	10	9	1	2	0	2	0	0	0	3	1	2	0	1	2	2	4	1	2	3	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	46743538	A	T	46743538	3	4	14	1	0	0	0	0	1	0	0	0	10058	446	16	5	154	5	MYLK3	16	46743538	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	30889124	46743538	43611215	77	875											
RPGRIP1L	23322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53692370	53692370	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caattcatcagcattaatatCattctcctgcaatagattaa	15	14	3	9	0	4	1	3	0	1	1	5	1	4	1	1	0	2	2	1	0	6	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	53692370	C	G	53692370	3	3	14	1	0	0	0	0	1	0	0	0	13552	826	29	4	2654	4	RPGRIP1L	16	53692370	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	6948832	53692370	36662383	78	876											
FBXO31	79791	broad.mit.edu;hgsc.bcm.edu	37	chr16	87394002	87394002	+	RNA	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaacatttgcagaaatttaAgatcaacaactcataacgcg	18	9	6	8	2	2	2	2	0	0	2	2	3	2	2	0	0	5	1	0	0	6	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	87394002	A	T	87394002	1	4	14	0	1	0	0	0	0	0	0	0	5741	87	3	5		5	FBXO31	16	87394002	RNA	SNP	A	TCGA-A3-3357-01A-02D-1421-08	33701632	87394002	2960751	79	877											
C17orf68	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8141397	8141397	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtagaggacagggataGgcgtgacggggccaggactg	9	5	20	7	2	0	2	0	1	0	1	0	5	0	5	1	7	0	1	1	7	2	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	8141397	G	A	8141397	3	1	14	1	0	0	0	0	1	0	0	0	1876	1000	35	2	3134	2	C17orf68	17	8141397	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08		8141397	73053813	80	878											
NCOR1	9611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15961009	15961009	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggctgctggggagtctGcgaggaaacttgatttctag	9	10	16	6	1	2	1	0	1	2	0	2	5	2	4	0	5	3	2	0	5	2	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	15961009	G	T	15961009	3	4	14	1	0	0	0	0	1	0	0	0	10235	1328	46	4	1139	4	NCOR1	17	15961009	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	7819612	15961009	65234201	81	879											
SLFN11	91607	broad.mit.edu;hgsc.bcm.edu	37	chr17	33689790	33689790	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtcatcatgcctacccatTtctcggttgtcaggctgcag	6	13	9	13	1	4	0	3	0	1	0	5	0	4	0	2	2	3	3	2	2	1	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	33689790	T	G	33689790	3	3	14	1	0	0	0	0	1	0	0	0	14735	1841	64	5	1684	5	SLFN11	17	33689790	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	17728781	33689790	47505420	82	880											
PLXDC1	57125	broad.mit.edu	37	chr17	37265509	37265509	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggcactcaccgaagcctGccggtgggtgttggagagta	7	8	17	9	2	1	1	1	0	0	1	1	3	1	1	3	5	2	3	3	5	2	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	37265509	A	A	37265509	4	1	14	1	0	0	0	0	0	1	0	0	12117	1328	46	2	1159	2	PLXDC1	17	37265509	Nonsense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	3575719	37265509	43929701	83	881											
TUBG1	7283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40764111	40764111	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agggagaaaagatccatgagGacatttttgacatcatagac	16	9	10	6	0	1	5	1	2	0	3	2	7	2	6	1	2	0	0	1	2	3	3	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	40764111	G	A	40764111	3	1	14	1	0	0	0	0	1	0	0	0	16763	1174	41	2	363	2	TUBG1	17	40764111	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	3498602	40764111	40431099	84	882											
IMP5	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	43923235	43923235	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctctgggcctctctgccGctgcctctgctgctgctggc	1	11	12	17	1	3	0	0	0	3	0	4	0	3	0	4	2	6	4	4	2	0	0	rs140813443	bycluster;by1000genomes	TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	43923235	G	A	43923235	2	1	14	1	0	0	0	0	0	0	0	1	7721	1074	38	1		1	IMP5	17	43923235	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	3159124	43923235	37271975	85	883											
PAF1	54623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39880356	39880356	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctcagtcaggaggtcAtgtttgtgctgtttctccaa	6	15	11	9	0	5	0	3	0	2	0	6	1	5	1	1	3	1	4	1	3	1	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	39880356	A	G	39880356	2	3	14	1	0	0	0	0	0	0	0	1	11383	214	8	3		3	PAF1	19	39880356	Silent	SNP	A	TCGA-A3-3357-01A-02D-1421-08		39880356	19248627	86	884											
ZNF284	342909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44589959	44589959	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgggaacaaactgcaagtGagttaactagacctcaagac	15	8	9	9	0	2	3	1	1	1	2	2	4	2	4	1	1	4	2	1	1	6	2	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	44589959	G	A	44589959	3	1	14	1	0	0	0	0	1	0	0	0	17820	1291	45	2	342	2	ZNF284	19	44589959	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	4709603	44589959	14539024	87	885											
SPHK2	56848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49129392	49129392	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtggcctggtcccgttggCcgaggtctcaggctgctgca	3	9	17	12	2	1	0	1	0	1	0	3	1	2	0	3	6	2	4	3	6	0	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	49129392	C	T	49129392	3	4	14	1	0	0	0	0	1	0	0	0	15048	739	26	2	290	2	SPHK2	19	49129392	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	4539433	49129392	9999591	88	886											
SYT3	84258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51140596	51140596	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgttggtgtcagcatctcGgacccgcgcacagaggtccg	6	8	14	13	5	2	1	1	0	1	1	5	2	3	2	2	3	1	3	2	3	0	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	51140596	G	T	51140596	2	4	14	1	0	0	0	0	0	0	0	1	15474	1124	39	4		4	SYT3	19	51140596	Silent	SNP	G	TCGA-A3-3357-01A-02D-1421-08	2011204	51140596	7988387	89	887											
ZNF610	162963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52869689	52869689	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgaatgtggcaaggtctTtagtctgctttcataccttg	9	16	9	7	0	3	1	1	1	2	0	3	1	3	1	1	2	2	2	1	2	5	6	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		A	52869689	T	A	52869689	3	1	14	1	0	0	0	0	1	0	0	0	18035	1841	64	5	1072	5	ZNF610	19	52869689	Missense_Mutation	SNP	T	TCGA-A3-3357-01A-02D-1421-08	1729093	52869689	6259294	90	888											
SYT5	6861	broad.mit.edu	37	chr19	55686593	55686593	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcactggccgccccaGgtccacggagctcataggga	7	5	14	15	2	1	0	1	0	0	0	2	2	2	2	5	5	2	2	5	5	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	55686593	T	T	55686593	3	4	14	1	0	0	0	0	1	0	0	0	15476	991	35	4	521	4	SYT5	19	55686593	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	2816904	55686593	3442390	91	889											
C20orf141	128653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2795845	2795845	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctccatgacccggctctgCttacccagacccgaagcacg	8	7	8	18	3	2	2	0	1	2	1	3	3	2	2	4	1	3	3	4	1	2	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	2795845	C	T	2795845	2	4	14	1	0	0	0	0	0	0	0	1	2089	805	28	2		2	C20orf141	20	2795845	Silent	SNP	C	TCGA-A3-3357-01A-02D-1421-08		2795845	60229675	92	890											
KIF16B	55614	broad.mit.edu;hgsc.bcm.edu	37	chr20	16316573	16316573	+	Missense_Mutation	SNP	C	C	T																															aataatttcataacttacctCtgcatactttaacttcaatg																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	16316573	C	T	16316573	3	4	14	1	0	0	0	0	1	0	0	0	8278	922	32	2	256	2	KIF16B	20	16316573	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08	13520728	16316573	46708947	93	891	14	2									
KIF16B	55614	broad.mit.edu;hgsc.bcm.edu	37	chr20	16316574	16316574	+	Silent	SNP	T	T	G																															ataatttcataacttacctcTgcatactttaacttcaatgt																								novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	16316574	T	G	16316574	2	3	14	1	0	0	0	0	0	0	0	1	8278	1567	55	5		5	KIF16B	20	16316574	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08	1	16316574	46708946	94	892	14	2									
GGT7	2686	broad.mit.edu;hgsc.bcm.edu	37	chr20	33433135	33433135	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaccccgctgctctacAggatggtggctccagctgca	6	7	11	17	1	1	0	0	0	1	0	2	1	2	1	5	3	4	5	5	3	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	33433135	A	C	33433135	3	2	14	1	0	0	0	0	1	0	0	0	6364	188	7	5	7	5	GGT7	20	33433135	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	17116561	33433135	29592385	95	893											
BRWD1	54014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	40636400	40636400	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttacttgttgccacatagCccagctgtggaatcaaatgt	11	12	8	10	0	1	0	1	0	0	0	1	1	1	1	2	1	4	2	2	1	4	4	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		G	40636400	C	G	40636400	3	3	14	1	0	0	0	0	1	0	0	0	1525	739	26	4	5434	4	BRWD1	21	40636400	Missense_Mutation	SNP	C	TCGA-A3-3357-01A-02D-1421-08		40636400	7493495	96	894											
TOM1	10043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	35719146	35719146	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccacccaccatcgtgcaTgacaaagtgctcaacctcat	13	7	5	16	1	2	1	2	1	0	0	3	1	2	1	4	0	4	2	4	0	3	0	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	35719146	T	C	35719146	2	2	14	1	0	0	0	0	0	0	0	1	16350	1461	51	3		3	TOM1	22	35719146	Silent	SNP	T	TCGA-A3-3357-01A-02D-1421-08		35719146	15585420	97	895											
TNRC6B	23112	broad.mit.edu	37	chr22	40662297	40662297	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctctcagcctctacagAgtggaaagaccccaagaaca	14	5	10	12	0	2	3	1	0	2	3	3	5	2	5	3	2	4	1	3	2	4	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		C	40662297	C	C	40662297	3	2	14	1	0	0	0	0	1	0	0	0	16340	304	11	5	2202	5	TNRC6B	22	40662297	Missense_Mutation	SNP	A	TCGA-A3-3357-01A-02D-1421-08	4943151	40662297	10642269	98	896											
TCF20	6942	broad.mit.edu;ucsc.edu	37	chr22	42607966	42607966	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcttccgtggcccctcctGcctgtgctgtgctgcagcaa	4	11	10	16	1	1	0	0	0	1	0	3	0	3	0	5	1	5	4	5	1	1	1	novel		TCGA-A3-3357-01A-02D-1421-08	TCGA-A3-3357-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	db6f5ad9-ae6e-4689-b146-f733f8352c54	48b92145-0704-4f2e-aebf-fcbff040dfe1		T	42607966	T	T	42607966	3	4	14	1	0	0	0	0	1	0	0	0	15689	1328	46	4	2574	4	TCF20	22	42607966	Missense_Mutation	SNP	G	TCGA-A3-3357-01A-02D-1421-08	1945669	42607966	8696600	99	897											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16255505	16255505	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaggtctctcagacggagCctgcaaaatctgacttgtct	9	12	9	11	1	5	2	2	1	3	1	6	3	5	3	1	2	2	1	1	2	2	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	16255505	C	T	16255505	3	4	15	1	0	0	0	0	1	0	0	0	15039	739	26	2	2812	2	SPEN	1	16255505	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10		16255505	232995116	1	898											
CDC7	8317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	91978791	91978791	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taaggagctggatcagcagtCcaccacaaaagcttctgtta	13	9	9	10	0	2	0	1	0	1	0	3	2	3	2	2	2	3	4	2	2	4	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	91978791	C	T	91978791	3	4	15	1	0	0	0	0	1	0	0	0	3084	855	30	2	771	2	CDC7	1	91978791	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	75723286	91978791	157271830	2	899											
PIP5K1A	8394	hgsc.bcm.edu	37	chr1	151206687	151206687	+	Frame_Shift_Del	DEL	C	C	-																															tctcagaacctcaaccagaaCcctcggactttgctgcctaa																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		-	151206687	C	-	151206687	7	5	15	1	0	1	0	1	0	0	0	0	11939	506	18	0	684	0	PIP5K1A	1	151206687	Frame_Shift_Del	DEL	C	TCGA-A3-3358-01A-01D-1534-10	59227896	151206687	98043934	3	900											
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158609713	158609713	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgttgaacctctgttgacGactggcctcattgagcttct	6	15	10	10	1	3	3	1	3	2	0	3	4	3	3	2	1	2	3	2	1	1	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	158609713	G	A	158609713	3	1	15	1	0	0	0	0	1	0	0	0	15117	1058	37	1	2513	1	SPTA1	1	158609713	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	7403026	158609713	90640908	4	901											
C1orf129	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	170914714	170914714	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgttgacaaggaatcCaaaaacaagtaaggctttag	17	8	9	7	0	0	1	0	1	0	0	1	2	1	2	1	2	2	4	1	2	7	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	170914714	C	T	170914714	3	4	15	1	0	0	0	0	1	0	0	0	1996	594	21	2	19	2	C1orf129	1	170914714	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	12305001	170914714	78335907	5	902											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	185985179	185985179	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactggagtgcaaagctgctGgaaacccttctcccattctc	9	10	8	14	0	2	0	0	0	2	0	4	2	2	2	2	2	4	3	2	2	2	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	185985179	G	T	185985179	4	4	15	1	0	0	0	0	0	1	0	0	7220	1349	47	4	5125	4	HMCN1	1	185985179	Nonsense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	15070465	185985179	63265442	6	903											
KIF21B	23046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200943295	200943295	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggggtgagtccagggacGtaattccacaactttacccg	10	8	12	11	2	0	1	0	1	0	0	2	2	2	2	3	3	2	1	3	3	3	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	200943295	G	A	200943295	2	1	15	1	0	0	0	0	0	0	0	1	8289	1140	40	1		1	KIF21B	1	200943295	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10	14958116	200943295	48307326	7	904											
NENF	29937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	212619210	212619210	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactggaggccctggatgaGgtcttcaccaaagtgtacaa	12	8	12	9	0	2	1	1	1	1	0	2	4	2	3	2	4	2	1	2	4	4	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	212619210	G	A	212619210	2	1	15	1	0	0	0	0	0	0	0	1	10335	991	35	2		2	NENF	1	212619210	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10	11675915	212619210	36631411	8	905											
PPPDE1	0	broad.mit.edu	37	chr1	244868992	244868992	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtctagtgtcagccaagaActccaggatgaactggagga	13	7	12	9	0	2	2	1	1	1	1	3	5	3	5	2	3	3	0	2	3	4	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	244868992	G	G	244868992	2	3	15	1	0	0	0	0	0	0	0	1	12410	40	2	3		3	PPPDE1	1	244868992	Silent	SNP	A	TCGA-A3-3358-01A-01D-1534-10	32249782	244868992	4381629	9	906											
OR6F1	343169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247875599	247875599	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcactgcaatggccacGaaaccacacacccaggagcc	12	3	11	15	1	0	0	0	0	0	0	0	2	0	1	4	3	3	2	4	3	2	0	rs144440883	byfrequency;alternate_allele	TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	247875599	G	T	247875599	3	4	15	1	0	0	0	0	1	0	0	0	11201	1049	37	4	471	4	OR6F1	1	247875599	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	3006607	247875599	1375022	10	907											
YIPF4	84272	broad.mit.edu;ucsc.edu	37	chr2	32517399	32517399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcttttccatgatatcAttatatggacagtttagggt	9	19	7	6	0	2	1	1	1	1	0	3	2	3	2	1	2	0	1	1	2	4	9	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	32517399	G	G	32517399	2	3	15	1	0	0	0	0	0	0	0	1	17479	204	8	3		3	YIPF4	2	32517399	Silent	SNP	A	TCGA-A3-3358-01A-01D-1534-10		32517399	210681974	11	908											
TMEM150A	129303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	85828190	85828190	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaggtcttgggaccccCttgctcagcagggtcaggag	7	7	15	12	0	3	0	2	0	1	0	3	2	3	2	2	4	3	4	2	4	0	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	85828190	C	T	85828190	3	4	15	1	0	0	0	0	1	0	0	0	16066	681	24	2	681	2	TMEM150A	2	85828190	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	53310791	85828190	157371183	12	909											
ERCC3	2071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128036918	128036918	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttttgattgccacatattCccggtaaaattcaggagaca	12	12	9	8	1	1	2	1	1	0	1	2	3	2	2	2	3	1	2	2	3	3	7	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	128036918	C	A	128036918	4	1	15	1	0	0	0	0	0	1	0	0	5214	864	30	4	811	4	ERCC3	2	128036918	Nonsense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	42208728	128036918	115162455	13	910											
GPD2	2820	broad.mit.edu;ucsc.edu	37	chr2	157426664	157426664	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggccaaaatggcaagtgtGactggcaaaaggtggcctat	12	8	14	7	0	0	1	0	1	0	0	0	1	0	1	2	5	0	2	2	5	6	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	157426664	A	A	157426664	2	1	15	1	0	0	0	0	0	0	0	1	6606	1277	45	2		2	GPD2	2	157426664	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10	29389746	157426664	85772709	14	911											
C2orf67	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	210889861	210889861	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccacttgctttgctccCatagtgaccacctggcttgc	5	13	9	14	0	0	1	0	1	0	0	1	1	1	1	4	1	4	3	4	1	1	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	210889861	C	T	210889861	4	4	15	1	0	0	0	0	0	1	0	0	2186	595	21	2	444	2	C2orf67	2	210889861	Nonsense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	53463197	210889861	32309512	15	912											
FN1	2335	broad.mit.edu;ucsc.edu	37	chr2	216274775	216274775	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaccaggcttcaggcctttGatggtgtaggagtttaagtg	9	12	13	7	0	1	1	1	1	0	0	1	2	1	2	2	4	0	3	2	4	2	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	216274775	C	C	216274775	3	2	15	1	0	0	0	0	1	0	0	0	5962	1280	45	4	5561	4	FN1	2	216274775	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	5384914	216274775	26924598	16	913											
SETD2	29072	broad.mit.edu;ucsc.edu	37	chr3	47079269	47079269	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatcccactgagtctgccTagaaagagacaaaaacagcc	16	5	9	11	0	1	3	0	1	1	2	2	5	2	4	3	1	3	0	3	1	4	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	47079269	A	A	47079269	5	1	15	1	0	0	0	0	0	0	1	0	14133	1536	53	5	473	5	SETD2	3	47079269	Splice_Site	SNP	T	TCGA-A3-3358-01A-01D-1534-10		47079269	150943161	17	914											
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79420893	79420893	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccccaccattgagtttgAagaagctgcataccaagtcc	12	8	8	13	0	0	3	0	2	0	1	1	3	1	3	5	0	4	3	5	0	4	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	79420893	A	C	79420893	3	2	15	1	0	0	0	0	1	0	0	0	6042	246	9	5	9451	5	FRAS1	4	79420893	Missense_Mutation	SNP	A	TCGA-A3-3358-01A-01D-1534-10		79420893	111733383	18	915											
ANXA10	11199	broad.mit.edu;ucsc.edu	37	chr4	169085402	169085402	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactagcttcaagaacaaaTggagaaattttccagatgcg	16	10	8	7	1	1	3	1	0	0	3	2	4	2	3	1	1	4	1	1	1	6	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	169085402	C	C	169085402	2	2	15	1	0	0	0	0	0	0	0	1	715	1461	51	3		3	ANXA10	4	169085402	Silent	SNP	T	TCGA-A3-3358-01A-01D-1534-10	89664509	169085402	22068874	19	916											
CSNK1G3	1456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	122923847	122923847	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccttggcaaggcttaaaGgtaattgtttttgtgtttct	7	19	9	6	0	1	0	0	0	1	0	2	0	2	0	1	3	0	5	1	3	4	8	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	122923847	G	T	122923847	3	4	15	1	0	0	0	0	1	0	0	0	3956	1014	35	4	781	4	CSNK1G3	5	122923847	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10		122923847	57991413	20	917											
PCDHB5	26167	broad.mit.edu;hgsc.bcm.edu	37	chr5	140517263	140517263	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctatcccagagctaccaCtacgaggtgtgtttgaccgg	9	9	10	13	2	0	2	0	1	0	1	1	3	1	2	4	2	3	2	4	2	3	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	140517263	C	A	140517263	3	1	15	1	0	0	0	0	1	0	0	0	11545	564	20	4	2249	4	PCDHB5	5	140517263	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	17593416	140517263	40397997	21	918											
HLA-C	3107	hgsc.bcm.edu	37	chr6	31238126	31238126	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggtctccacaagctcGgtgtcctgggtctggtcctc	3	11	13	14	1	2	0	0	0	2	0	7	0	4	0	4	5	1	1	4	5	1	0	rs79295030		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	31238126	G	A	31238126	2	1	15	1	0	0	0	0	0	0	0	1	7197	1103	39	1		1	HLA-C	6	31238126	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10		31238126	139876941	22	919											
HTR1E	3354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	87725923	87725923	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggaacggaaggcagcaCgcatcctggggctgattctg	9	6	15	11	2	1	1	0	1	1	0	2	3	2	3	2	5	2	4	2	5	2	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	87725923	C	T	87725923	3	4	15	1	0	0	0	0	1	0	0	0	7439	536	19	1	873	1	HTR1E	6	87725923	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	56487797	87725923	83389144	23	920											
EPM2A	7957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	145948647	145948647	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcgtcaatgtagacagccgGcctcttggccatgaggaaat	10	10	11	10	2	2	2	1	1	1	1	3	3	2	3	3	3	1	1	3	3	3	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	145948647	G	T	145948647	3	4	15	1	0	0	0	0	1	0	0	0	5183	1203	42	4	132	4	EPM2A	6	145948647	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	58222724	145948647	25166420	24	921											
TYW1	55253	broad.mit.edu	37	chr7	66582492	66582492	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctcgagccggttactcagCtgtatgtcagtgtggatgcc	7	11	12	11	2	2	0	2	0	0	0	3	2	2	1	3	2	4	3	3	2	2	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	66582492	T	T	66582492	2	4	15	1	0	0	0	0	0	0	0	1	16817	796	28	2		2	TYW1	7	66582492	Silent	SNP	C	TCGA-A3-3358-01A-01D-1534-10		66582492	92556171	25	922											
MCM7	4176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99695276	99695276	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagactggtccacaccccCgactagcaggagcagcagtg	11	4	13	13	1	0	1	0	0	0	1	1	4	1	2	3	3	3	3	3	3	1	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	99695276	C	T	99695276	3	4	15	1	0	0	0	0	1	0	0	0	9392	652	23	1	1109	1	MCM7	7	99695276	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	33112784	99695276	59443387	26	923											
DENND2A	27147	broad.mit.edu	37	chr7	140301430	140301430	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaagggctttgtgggggaAccctccgagcccctatacac	9	8	12	12	1	0	1	0	1	0	0	1	3	1	2	4	3	3	1	4	3	4	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	140301430	C	C	140301430	2	2	15	1	0	0	0	0	0	0	0	1	4429	30	2	5		5	DENND2A	7	140301430	Silent	SNP	A	TCGA-A3-3358-01A-01D-1534-10	40606154	140301430	18837233	27	924											
CHMP7	91782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	23116262	23116262	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggtttttaacgcctaccaGgctggggtaggagcactcaa	10	10	12	9	1	1	0	1	0	0	0	1	1	1	1	2	5	3	4	2	5	5	6	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	23116262	G	A	23116262	2	1	15	1	0	0	0	0	0	0	0	1	3361	991	35	2		2	CHMP7	8	23116262	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10		23116262	123247760	28	925											
CCL27	10850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34662409	34662409	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagtgctgggtggcagtagGaatgctaggggcaacagggc	9	6	19	7	0	0	0	0	0	0	0	0	1	0	1	0	6	3	6	0	6	4	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	34662409	G	T	34662409	3	4	15	1	0	0	0	0	1	0	0	0	2899	1165	41	4	271	4	CCL27	9	34662409	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10		34662409	106551022	29	926											
KIAA0913	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75545700	75545700	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcgaggattcggaccgtTttgaggaggattcactctgt	8	13	12	8	3	2	1	1	1	1	0	4	6	2	5	1	4	0	1	1	4	0	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	75545700	T	G	75545700	3	3	15	1	0	0	0	0	1	0	0	0	8200	1841	64	5	66	5	KIAA0913	10	75545700	Missense_Mutation	SNP	T	TCGA-A3-3358-01A-01D-1534-10		75545700	59989047	30	927											
CPXM2	119587	broad.mit.edu	37	chr10	125651046	125651046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgggcgcgcgtagtagggctCccggctccagatctcctgcc	4	7	14	16	5	1	1	0	0	1	1	4	1	3	1	4	3	1	4	4	3	2	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	125651046	T	T	125651046	3	4	15	1	0	0	0	0	1	0	0	0	3838	864	30	2	2196	2	CPXM2	10	125651046	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	50105346	125651046	9883701	31	928											
BCCIP	56647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	127520153	127520153	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtccctccacagatcgcTctgcccatgtaccagcagct	9	9	7	16	1	1	1	0	0	1	1	4	1	3	1	4	0	4	4	4	0	2	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	127520153	T	G	127520153	2	3	15	1	0	0	0	0	0	0	0	1	1356	1538	54	5		5	BCCIP	10	127520153	Silent	SNP	T	TCGA-A3-3358-01A-01D-1534-10	1869107	127520153	8014594	32	929											
MICAL2	9645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	12278355	12278355	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctatgcgaaagtcatttccCcttaacctgggaggcagcga	10	10	10	11	2	2	0	1	0	1	0	3	3	3	1	3	2	3	1	3	2	3	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	12278355	C	T	12278355	2	4	15	1	0	0	0	0	0	0	0	1	9570	610	22	2		2	MICAL2	11	12278355	Silent	SNP	C	TCGA-A3-3358-01A-01D-1534-10		12278355	122728161	33	930											
MRPL48	51642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73555925	73555925	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgaatatggggttttaaAtattcatctgactgcatatg	12	17	8	4	0	2	2	1	2	1	0	2	2	2	2	0	2	1	2	0	2	7	7	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	73555925	A	G	73555925	3	3	15	1	0	0	0	0	1	0	0	0	9812	101	4	3	293	3	MRPL48	11	73555925	Missense_Mutation	SNP	A	TCGA-A3-3358-01A-01D-1534-10	61277570	73555925	61450591	34	931											
CSDA	8531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10865871	10865871	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaacggcgccgatctgcaGcgtaacgactcccttccaca	9	8	9	15	5	1	0	0	0	1	0	3	2	3	0	3	1	4	3	3	1	2	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	10865871	G	A	10865871	3	1	15	1	0	0	0	0	1	0	0	0	3927	971	34	2	626	2	CSDA	12	10865871	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10		10865871	122986024	35	932											
FAM71C	196472	broad.mit.edu;ucsc.edu	37	chr12	100042248	100042248	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtctgtgacaatgccaGgtgtggtcctgccacccaga	7	10	12	12	0	1	2	0	1	1	1	2	2	2	2	4	2	3	1	4	2	1	0	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	100042248	C	C	100042248	3	2	15	1	0	0	0	0	1	0	0	0	5609	1000	35	4	298	4	FAM71C	12	100042248	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	89176377	100042248	33809647	36	933											
NUAK1	9891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	106466600	106466600	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatccttctggtacaggtTggaaagcccaaagtcagcaa	12	10	9	10	0	2	0	1	0	1	0	3	1	3	1	2	3	3	3	2	3	5	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	106466600	T	C	106466600	3	2	15	1	0	0	0	0	1	0	0	0	10712	1812	63	3	1396	3	NUAK1	12	106466600	Missense_Mutation	SNP	T	TCGA-A3-3358-01A-01D-1534-10	6424352	106466600	27385295	37	934											
LMO7	4008	hgsc.bcm.edu;ucsc.edu	37	chr13	76427480	76427480	+	Frame_Shift_Del	DEL	C	C	-																															cagtcccccaccccgagaagCcattccccttcagcttcaca																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		-	76427480	C	-	76427480	7	5	15	1	0	1	0	1	0	0	0	0	8855	738	26	0	4887	0	LMO7	13	76427480	Frame_Shift_Del	DEL	C	TCGA-A3-3358-01A-01D-1534-10		76427480	38742398	38	935											
G2E3	55632	broad.mit.edu;hgsc.bcm.edu	37	chr14	31074726	31074726	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataggcaaggcagcaaattTagaagaaatgtatcaacact	18	9	8	6	0	1	2	1	0	0	2	1	2	1	2	0	2	2	4	0	2	9	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	31074726	T	G	31074726	3	3	15	1	0	0	0	0	1	0	0	0	6140	1751	61	5	1064	5	G2E3	14	31074726	Missense_Mutation	SNP	T	TCGA-A3-3358-01A-01D-1534-10		31074726	76274814	39	936											
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75248651	75248651	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcctccaggaatacctccCcctggagttccacaagggat	9	8	8	16	0	0	0	0	0	0	0	4	3	4	3	7	3	1	1	7	3	3	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	75248651	C	T	75248651	2	4	15	1	0	0	0	0	0	0	0	1	17485	610	22	2		2	YLPM1	14	75248651	Silent	SNP	C	TCGA-A3-3358-01A-01D-1534-10	44173925	75248651	32100889	40	937											
GLDN	342035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51692438	51692438	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttggttggaaaagctgaTgagaaagccagtgaacacca	15	7	11	8	0	0	3	0	3	0	1	0	5	0	4	3	2	3	2	3	2	4	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	51692438	T	A	51692438	3	1	15	1	0	0	0	0	1	0	0	0	6434	1461	51	5	893	5	GLDN	15	51692438	Missense_Mutation	SNP	T	TCGA-A3-3358-01A-01D-1534-10		51692438	50838954	41	938											
CPEB1	64506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83221251	83221251	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccttgcagcgcatccttcgGctggacatcttgaaataata	10	12	8	11	2	1	1	0	1	1	0	4	2	3	2	2	2	2	3	2	2	3	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	83221251	G	C	83221251	3	2	15	1	0	0	0	0	1	0	0	0	3800	1194	42	4	526	4	CPEB1	15	83221251	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	31528813	83221251	19310141	42	939											
FAM57B	83723	broad.mit.edu	37	chr16	30036624	30036624	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggagcagcgcagcgcccagGttgacgtgggcagggatggc	8	4	19	10	3	0	1	0	1	0	0	0	3	0	3	1	5	3	4	1	5	0	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	30036624	A	A	30036624	2	1	15	1	0	0	0	0	0	0	0	1	5589	1252	44	2		2	FAM57B	16	30036624	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10		30036624	60318129	43	940											
SLC12A4	6560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67983803	67983803	+	Missense_Mutation	SNP	C	C	G																															ccatgtgggttcaccattcaCcttcccgtggccaaacacct																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	67983803	C	G	67983803	3	3	15	1	0	0	0	0	1	0	0	0	14387	507	18	4	1657	4	SLC12A4	16	67983803	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	37947179	67983803	22370950	44	941	15	2									
SLC12A4	6560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67983804	67983804	+	Missense_Mutation	SNP	C	C	A																															catgtgggttcaccattcacCttcccgtggccaaacacctg																								rs184951084	by1000genomes	TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	67983804	C	A	67983804	3	1	15	1	0	0	0	0	1	0	0	0	14387	680	24	4	1658	4	SLC12A4	16	67983804	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	1	67983804	22370949	45	942	15	2									
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11583161	11583161	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttccaaggcttggttgaGatcatgggacaccttatggc	9	12	12	8	0	1	1	1	1	0	1	2	4	2	2	2	4	0	2	2	4	2	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	11583161	G	T	11583161	3	4	15	1	0	0	0	0	1	0	0	0	4608	933	33	4	3511	4	DNAH9	17	11583161	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10		11583161	69612049	46	943											
LLGL1	3996	broad.mit.edu;ucsc.edu	37	chr17	18141525	18141526	+	Frame_Shift_Ins	INS	-	A	A																															gggctgctaatgccagcagcINSaaggtgagctggggtgggct																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	18141526	A	A	18141525	7	5	15	1	0	1	1	0	0	0	0	0	8833	709	25	0	2107	0	LLGL1	17	18141525	Frame_Shift_Ins	INS	-	TCGA-A3-3358-01A-01D-1534-10	6558364	18141525	63053685	47	944											
SSH2	85464	hgsc.bcm.edu;ucsc.edu	37	chr17	27958639	27958642	+	Frame_Shift_Del	DEL	CTGA	CTGA	-																															ccactggagagagggctctcCtgactttcttcccagctaac																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	CTGA	CTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		-	27958642	CTGA	-	27958639	7	5	15	1	0	1	0	1	0	0	0	0	15186	680	24	0	783	0	SSH2	17	27958639	Frame_Shift_Del	DEL	CTGA	TCGA-A3-3358-01A-01D-1534-10	9817114	27958639	53236571	48	945											
UNC45B	146862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33495265	33495265	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggccgtggaggccctcaTccatgcctccacgaagctca	7	7	12	15	2	2	0	2	0	0	0	4	2	4	1	5	4	2	1	5	4	1	0	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	33495265	T	G	33495265	3	3	15	1	0	0	0	0	1	0	0	0	16988	1435	50	5	1371	5	UNC45B	17	33495265	Missense_Mutation	SNP	T	TCGA-A3-3358-01A-01D-1534-10	5536626	33495265	47699945	49	946											
PCGF2	7703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36892363	36892363	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgccgccaggggtagatgtAggcgatgtccatgagggtgt	7	8	17	9	3	0	2	0	1	0	1	1	3	1	2	4	4	0	2	4	4	2	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	36892363	A	T	36892363	3	4	15	1	0	0	0	0	1	0	0	0	11575	420	15	5	405	5	PCGF2	17	36892363	Missense_Mutation	SNP	A	TCGA-A3-3358-01A-01D-1534-10	3397098	36892363	44302847	50	947											
CCDC45	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62512882	62512882	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaatctgatcgaggagaaCgtttggaagagccagaaagt	16	7	13	5	2	1	5	0	1	1	4	2	8	1	6	1	2	2	1	1	2	5	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	62512882	C	A	62512882	3	1	15	1	0	0	0	0	1	0	0	0	2816	536	19	4	427	4	CCDC45	17	62512882	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	25620519	62512882	18682328	51	948											
EXOC7	23265	broad.mit.edu	37	chr17	74093949	74093949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcacgctctcgggcaggtGctccagggtcacgtcctcct	5	8	13	15	3	2	0	1	0	1	0	6	1	5	0	3	3	2	4	3	3	0	0	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	74093949	A	A	74093949	3	1	15	1	0	0	0	0	1	0	0	0	5310	1319	46	2	1703	2	EXOC7	17	74093949	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	11581067	74093949	7101261	52	949											
SETBP1	26040	broad.mit.edu;hgsc.bcm.edu	37	chr18	42530495	42530495	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtaatcctgaaaatgactCaagtcatgtccggattacta	14	11	7	9	1	2	2	2	2	0	0	4	3	4	3	2	1	1	1	2	1	6	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	42530495	C	T	42530495	3	4	15	1	0	0	0	0	1	0	0	0	14131	838	29	2	1393	2	SETBP1	18	42530495	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10		42530495	35546753	53	950											
GPX4	2879	broad.mit.edu;ucsc.edu	37	chr19	1106418	1106418	+	Missense_Mutation	SNP	G	C	C																															gttcctcatcgacaagaacgGctgcgtggtgaagcgctacg																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	1106418	C	C	1106418	3	2	15	1	0	0	0	0	1	0	0	0	6742	1203	42	4	764	4	GPX4	19	1106418	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10		1106418	58022565	54	951	16	2									
GPX4	2879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1106419	1106419	+	Silent	SNP	C	C	T																															ttcctcatcgacaagaacggCtgcgtggtgaagcgctacgg																								novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	1106419	C	T	1106419	2	4	15	1	0	0	0	0	0	0	0	1	6742	796	28	2		2	GPX4	19	1106419	Silent	SNP	C	TCGA-A3-3358-01A-01D-1534-10	1	1106419	58022564	55	952	16	2									
UHRF1	29128	broad.mit.edu;hgsc.bcm.edu	37	chr19	4950899	4950899	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactggcccgagaaggggaAgtccgggtttctcgtgtggc	7	9	16	9	3	1	1	0	0	1	1	3	3	2	2	2	5	1	1	2	5	3	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	4950899	A	G	4950899	3	3	15	1	0	0	0	0	1	0	0	0	16966	72	3	3	1794	3	UHRF1	19	4950899	Missense_Mutation	SNP	A	TCGA-A3-3358-01A-01D-1534-10	3844480	4950899	54178084	56	953											
UNC13A	23025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17756598	17756598	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgcgggatttgatgtcGtcatcctcgtcccagacgcg	6	11	11	13	6	2	2	2	1	0	1	6	3	4	3	2	1	0	0	2	1	0	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	17756598	G	A	17756598	2	1	15	1	0	0	0	0	0	0	0	1	16983	1136	40	1		1	UNC13A	19	17756598	Silent	SNP	G	TCGA-A3-3358-01A-01D-1534-10	12805699	17756598	41372385	57	954											
ZNF429	353088	broad.mit.edu;hgsc.bcm.edu	37	chr19	21720845	21720845	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggcagaggtgggcggAtcacgaggtcaggagatcga	10	5	20	6	3	2	2	2	0	0	2	3	7	2	4	0	7	0	1	0	7	0	0	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	21720845	A	T	21720845	3	4	15	1	0	0	0	0	1	0	0	0	17901	333	12	5	2004	5	ZNF429	19	21720845	Missense_Mutation	SNP	A	TCGA-A3-3358-01A-01D-1534-10	3964247	21720845	37408138	58	955											
RAB4B	53916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41286335	41286335	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcgtggagtttggatcccGggtggtcaacgtgggtggga	5	9	20	7	4	1	0	1	0	0	0	2	3	2	3	1	7	1	1	1	7	1	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	41286335	G	A	41286335	3	1	15	1	0	0	0	0	1	0	0	0	12949	1116	39	1	153	1	RAB4B	19	41286335	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	19565490	41286335	17842648	59	956			1	2		2	2	16	G		3.391773e-05
RAB4B	53916	broad.mit.edu;ucsc.edu	37	chr19	41286350	41286350	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcccgggtggtcaacgtggGtgggaagactgtgaagctac	9	8	16	8	2	1	2	1	1	0	1	2	3	2	3	1	4	3	1	1	4	4	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	41286350	T	T	41286350	3	4	15	1	0	0	0	0	1	0	0	0	12949	1261	44	4	168	4	RAB4B	19	41286350	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	15	41286350	17842633	60	957			1	2		2	2	16	G		3.391773e-05
PSG5	5673	broad.mit.edu;hgsc.bcm.edu	37	chr19	43680096	43680096	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcacattcatagggtcctGtttcatttctcgtgacactg	7	17	7	10	1	4	1	3	1	1	0	6	1	5	1	1	1	0	1	1	1	1	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		C	43680096	G	C	43680096	3	2	15	1	0	0	0	0	1	0	0	0	12660	1377	48	4	384	4	PSG5	19	43680096	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	2393746	43680096	15448887	61	958											
A1BG	1	broad.mit.edu	37	chr19	58863915	58863915	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagagccagggagcaggcAaggactctgtgggtggggtg	8	6	20	7	1	1	1	0	0	1	1	2	4	1	3	1	6	2	2	1	6	1	0	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	58863915	T	T	58863915	4	4	15	1	0	0	0	0	0	1	0	0	1	131	5	5	1160	5	A1BG	19	58863915	Nonsense_Mutation	SNP	A	TCGA-A3-3358-01A-01D-1534-10	15183819	58863915	265068	62	959											
SUN5	140732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31572986	31572986	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccttgggggagccctcCatgccctgtggaaccagaac	7	8	11	15	0	0	1	0	0	0	1	3	3	3	3	6	3	4	0	6	3	2	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	31572986	C	T	31572986	3	4	15	1	0	0	0	0	1	0	0	0	15393	594	21	2	244	2	SUN5	20	31572986	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10		31572986	31452534	63	960											
ZNF512B	57473	broad.mit.edu;hgsc.bcm.edu	37	chr20	62596015	62596015	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggggccgtactccccattCtctggcctggcctgcttggg	3	10	14	14	1	1	0	0	0	1	0	3	1	2	0	5	5	2	2	5	5	1	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	62596015	C	T	62596015	2	4	15	1	0	0	0	0	0	0	0	1	17956	912	32	2		2	ZNF512B	20	62596015	Silent	SNP	C	TCGA-A3-3358-01A-01D-1534-10	31023029	62596015	429505	64	961											
PKNOX1	5316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	44427621	44427621	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcaagtagtaacagagttAaagacagaacaagatccaaa	21	6	8	6	0	0	4	0	0	0	4	1	4	1	4	1	0	3	4	1	0	8	3	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		G	44427621	A	G	44427621	2	3	15	1	0	0	0	0	0	0	0	1	11982	359	13	3		3	PKNOX1	21	44427621	Silent	SNP	A	TCGA-A3-3358-01A-01D-1534-10		44427621	3702274	65	962											
MAGEB10	139422	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	27840135	27840135	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttatatgacggaattgagCacttcatgtttggggagccc	9	12	13	7	1	1	2	1	2	0	0	1	4	1	4	1	4	2	3	1	4	3	5	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	27840135	C	A	27840135	3	1	15	1	0	0	0	0	1	0	0	0	9173	710	25	4	714	4	MAGEB10	23	27840135	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10		27840135	127430425	66	963											
WAS	7454	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48544489	48544489	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaagaggagggctcccAcccctgcccctgcatccagg	9	4	13	15	0	0	2	0	0	0	2	2	5	2	3	6	3	2	2	6	3	1	0	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	48544489	A	T	48544489	2	4	15	1	0	0	0	0	0	0	0	1	17250	146	6	5		5	WAS	23	48544489	Silent	SNP	A	TCGA-A3-3358-01A-01D-1534-10	20704354	48544489	106726071	67	964											
WNK3	65267	hgsc.bcm.edu;ucsc.edu	37	chrX	54276546	54276546	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccgaccaactggggatGactgaggagcagattcatct	11	7	12	11	1	2	3	1	2	1	1	2	6	2	5	3	3	2	1	3	3	1	1	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	54276546	G	T	54276546	4	4	15	1	0	0	0	0	0	1	0	0	17378	1294	45	4	2844	4	WNK3	23	54276546	Nonsense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	5732057	54276546	100994014	68	965											
ERCC6L	54821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	71426172	71426172	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacacttccaaaccccttTggtaaagtagctatagagtc	12	12	6	11	0	1	1	0	0	1	1	3	1	2	1	3	1	3	3	3	1	7	7	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	71426172	T	A	71426172	2	1	15	1	0	0	0	0	0	0	0	1	5218	1799	63	5		5	ERCC6L	23	71426172	Silent	SNP	T	TCGA-A3-3358-01A-01D-1534-10	17149626	71426172	83844388	69	966											
ATRX	546	broad.mit.edu	37	chrX	76777788	76777788	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagggctcccaaattgaaagGaatataaggagtttgagagt	15	9	12	5	0	0	2	0	2	0	1	1	5	1	4	1	3	0	2	1	3	5	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	76777788	T	T	76777788	3	4	15	1	0	0	0	0	1	0	0	0	1208	1174	41	4	566	4	ATRX	23	76777788	Missense_Mutation	SNP	G	TCGA-A3-3358-01A-01D-1534-10	5351616	76777788	78492772	70	967											
GPC3	2719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132834052	132834052	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagaatgggcacataacttgCcaatctgaaaaaagaaatgc	18	7	9	7	0	1	3	0	1	1	2	1	4	1	3	1	1	3	1	1	1	7	2	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		A	132834052	C	A	132834052	3	1	15	1	0	0	0	0	1	0	0	0	6599	739	26	4	725	4	GPC3	23	132834052	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	56056264	132834052	22436508	71	968											
ZNF75D	7626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	134427883	134427883	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatagtctcaagcggtcCggttgcttcatgataacgga	9	11	12	9	3	2	2	2	2	1	0	4	3	3	3	1	3	3	3	1	3	3	4	novel		TCGA-A3-3358-01A-01D-1534-10	TCGA-A3-3358-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fd42afa7-6f0f-48e8-a947-bb9c9f4770ef	a7a2b9c5-641d-4644-99d2-a4beeac3aa0e		T	134427883	C	T	134427883	3	4	15	1	0	0	0	0	1	0	0	0	18133	661	23	1	1368	1	ZNF75D	23	134427883	Missense_Mutation	SNP	C	TCGA-A3-3358-01A-01D-1534-10	1593831	134427883	20842677	72	969											
KIAA0467	0	broad.mit.edu;ucsc.edu	37	chr1	43897031	43897031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcccccactgccaccccCagaagaggagaggtacttct	9	5	11	16	1	1	3	0	0	1	3	1	4	1	3	5	3	2	1	5	3	2	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	43897031	T	T	43897031	3	4	16	1	0	0	0	0	1	0	0	0	8178	594	21	2	2381	2	KIAA0467	1	43897031	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		43897031	205353590	1	970											
CYP2J2	1573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	60359336	60359336	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaatattacacctgaggaAcagcgcagaggcggtgactg	14	6	12	9	2	0	3	0	2	0	1	0	4	0	4	1	3	4	1	1	3	5	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	60359336	A	T	60359336	3	4	16	1	0	0	0	0	1	0	0	0	4172	43	2	5	16	5	CYP2J2	1	60359336	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	16462305	60359336	188891285	2	971											
ILF2	3608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153637769	153637769	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttcactgtagcatcagaAgaactgatttcaaagccagt	14	11	7	9	0	4	3	3	1	1	2	4	3	4	3	1	0	3	2	1	0	4	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	153637769	A	G	153637769	2	3	16	1	0	0	0	0	0	0	0	1	7711	59	3	3		3	ILF2	1	153637769	Silent	SNP	A	TCGA-A3-3362-01A-02D-1386-10	93278433	153637769	95612852	3	972											
NUP210L	91181	broad.mit.edu;ucsc.edu	37	chr1	154031095	154031095	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacaccctgaggtgggcTgttgctggacccaagaaagc	9	8	13	11	0	1	3	0	2	1	1	1	4	1	4	2	3	2	3	2	3	2	1	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	154031095	A	A	154031095	2	1	16	1	0	0	0	0	0	0	0	1	10761	1567	55	5		5	NUP210L	1	154031095	Silent	SNP	T	TCGA-A3-3362-01A-02D-1386-10	393326	154031095	95219526	4	973											
TAF5L	27097	broad.mit.edu;hgsc.bcm.edu	37	chr1	229738474	229738474	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagttagataggatgtccTggatggtttgagtggtctgt	8	15	15	3	0	1	3	0	2	1	1	2	5	2	5	1	4	0	2	1	4	3	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	229738474	T	G	229738474	3	3	16	1	0	0	0	0	1	0	0	0	15528	1580	55	5	1343	5	TAF5L	1	229738474	Missense_Mutation	SNP	T	TCGA-A3-3362-01A-02D-1386-10	75707379	229738474	19512147	5	974											
HPCAL1	3241	broad.mit.edu	37	chr2	10560058	10560058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgccaacttcttcccctacGgcgacgcttccaagttcgcc	7	9	7	18	5	1	0	0	0	1	0	4	1	3	0	5	1	2	2	5	1	3	5	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	10560058	A	A	10560058	3	1	16	1	0	0	0	0	1	0	0	0	7330	1116	39	1	177	1	HPCAL1	2	10560058	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10		10560058	232639315	6	975											
SCN9A	6335	hgsc.bcm.edu;ucsc.edu	37	chr2	167055463	167055463	+	Frame_Shift_Del	DEL	T	T	-																															acgtctataagcacgctgaaTgacagtagcagacacatcct																								novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		-	167055463	T	-	167055463	7	5	16	1	0	1	0	1	0	0	0	0	13927	1464	51	0	284	0	SCN9A	2	167055463	Frame_Shift_Del	DEL	T	TCGA-A3-3362-01A-02D-1386-10	156495405	167055463	76143910	7	976											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179468975	179468975	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactcatcactgattccatAtttattcactgccctgactc	9	14	4	14	0	3	2	3	2	0	0	5	2	4	2	2	0	1	1	2	0	2	5	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	179468975	A	G	179468975	3	3	16	1	0	0	0	0	1	0	0	0	16734	449	16	3	53578	3	TTN	2	179468975	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	12413512	179468975	63730398	8	977											
NHEJ1	79840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219942000	219942000	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcaggtgctgagagggttgGggctgaggagaccagttgtt	7	10	18	6	0	1	3	1	2	0	2	1	5	1	3	1	5	1	5	1	5	0	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	219942000	G	A	219942000	3	1	16	1	0	0	0	0	1	0	0	0	10402	1232	43	2	114	2	NHEJ1	2	219942000	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10	40473025	219942000	23257373	9	978											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228882779	228882779	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaccgtgtctgctaattcttCcgcaaagtctgtaatgcagt	9	13	9	10	2	3	0	0	0	3	0	4	1	4	0	2	0	2	4	2	0	3	4	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	228882779	C	T	228882779	3	4	16	1	0	0	0	0	1	0	0	0	15049	864	30	2	2335	2	SPHKAP	2	228882779	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10	8940779	228882779	14316594	10	979											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188321	10188321	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccaatatcacactgccagGtactgacgttttacttttta	10	15	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	5	7	rs5030814	bycluster	TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		C	10188321	C	C	10188321	5	2	16	1	0	0	0	0	0	0	1	0	17161	1275	44	4	470	4	VHL	3	10188321	Splice_Site	SNP	G	TCGA-A3-3362-01A-02D-1386-10		10188321	187834109	11	980											
LAMB2	3913	broad.mit.edu	37	chr3	49168474	49168474	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccacgtacaaccagctcaTagagggcatagtagtacttc	12	9	9	11	1	1	1	1	0	0	1	2	1	1	1	2	1	5	5	2	1	6	6	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		C	49168474	C	C	49168474	3	2	16	1	0	0	0	0	1	0	0	0	8611	1406	49	3	4676	3	LAMB2	3	49168474	Missense_Mutation	SNP	T	TCGA-A3-3362-01A-02D-1386-10	38980153	49168474	148853956	12	981											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52649414	52649414	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcatcatcaggcagtgggCccagctctttccttttctcc	6	13	7	15	0	5	0	3	0	2	0	7	0	6	0	3	2	1	2	3	2	0	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	52649414	C	A	52649414	3	1	16	1	0	0	0	0	1	0	0	0	11491	739	26	4	3087	4	PBRM1	3	52649414	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10	3480940	52649414	145373016	13	982											
IGSF10	285313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151160939	151160939	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcactcgctcttccattgtAagcattactactcttcgctc	7	15	5	14	2	3	0	1	0	2	0	7	0	4	0	1	0	3	4	1	0	3	6	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		C	151160939	A	C	151160939	2	2	16	1	0	0	0	0	0	0	0	1	7597	349	13	5		5	IGSF10	3	151160939	Silent	SNP	A	TCGA-A3-3362-01A-02D-1386-10	98511525	151160939	46861491	14	983											
KCNAB1	7881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	156009745	156009745	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaatttgaagagtcggaatGgtgaggaccgacttctgagc	12	9	13	7	2	1	4	0	3	1	1	2	7	1	6	1	3	1	0	1	3	3	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	156009745	G	T	156009745	3	4	16	1	0	0	0	0	1	0	0	0	8009	1348	47	4	576	4	KCNAB1	3	156009745	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10	4848806	156009745	42012685	15	984											
MUC4	4585	hgsc.bcm.edu	37	chr3	195507129	195507129	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgacaggaagaggcgtGgcgtgacctgtggacactga	9	7	17	8	3	0	4	0	3	0	1	1	6	0	6	1	5	0	0	1	5	1	0	rs74201433	byfrequency;by1000genomes	TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	195507129	G	T	195507129	2	4	16	1	0	0	0	0	0	0	0	1	9978	1335	47	4		4	MUC4	3	195507129	Silent	SNP	G	TCGA-A3-3362-01A-02D-1386-10	39497384	195507129	2515301	16	985											
LPHN3	23284	hgsc.bcm.edu	37	chr4	62936198	62936198	+	Frame_Shift_Del	DEL	C	C	-																															ttcatgaggaatctgatgctCctttgctgcccccaagagta																								novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		-	62936198	C	-	62936198	7	5	16	1	0	1	0	1	0	0	0	0	8917	855	30	0	4072	0	LPHN3	4	62936198	Frame_Shift_Del	DEL	C	TCGA-A3-3362-01A-02D-1386-10		62936198	128218078	17	986											
HSPA4L	22824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	128729255	128729255	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcattttatactaatttacAtgaagtgccttatcctgatg	12	16	6	7	0	0	2	0	2	0	0	1	2	1	2	2	0	4	1	2	0	6	7	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	128729255	A	T	128729255	3	4	16	1	0	0	0	0	1	0	0	0	7413	217	8	5	1391	5	HSPA4L	4	128729255	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	65793057	128729255	62425021	18	987											
PAIP1	10605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43555944	43555944	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacttactgtgtaactggaAgaataacctgaagggtaaaa	16	10	10	5	0	0	2	0	1	0	1	0	3	0	3	1	2	4	3	1	2	9	5	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	43555944	A	T	43555944	2	4	16	1	0	0	0	0	0	0	0	1	11396	59	3	5		5	PAIP1	5	43555944	Silent	SNP	A	TCGA-A3-3362-01A-02D-1386-10		43555944	137359316	19	988											
LNPEP	4012	broad.mit.edu	37	chr5	96350753	96350753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagacagacctcatctataAcctccttgaaaaactgggat	14	10	6	11	0	3	3	2	1	1	2	4	4	4	4	3	1	2	0	3	1	4	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	96350753	G	G	96350753	3	3	16	1	0	0	0	0	1	0	0	0	8864	43	2	3	2380	3	LNPEP	5	96350753	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	52794809	96350753	84564507	20	989											
MCC	4163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112458491	112458491	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgttggctctggctgagtTctgatcgcagttctgagtac	5	14	13	9	2	3	3	0	3	3	0	4	3	3	3	0	2	1	7	0	2	1	4	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	112458491	T	G	112458491	3	3	16	1	0	0	0	0	1	0	0	0	9373	1783	62	5	2198	5	MCC	5	112458491	Missense_Mutation	SNP	T	TCGA-A3-3362-01A-02D-1386-10	16107738	112458491	68456769	21	990											
YTHDC2	64848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112899071	112899071	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgttttggtttataggAactttgcttacataccaagc	10	17	7	7	0	0	0	0	0	0	0	0	1	0	1	1	2	6	3	1	2	7	9	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	112899071	A	T	112899071	3	4	16	1	0	0	0	0	1	0	0	0	17496	260	9	5	2398	5	YTHDC2	5	112899071	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	440580	112899071	68016189	22	991											
SKIV2L	6499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31928300	31928300	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtccttatggggaaatcCaactcagtatcccttctggc	9	11	8	13	0	2	0	1	0	1	0	5	1	5	1	4	3	1	1	4	3	4	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	31928300	C	T	31928300	3	4	16	1	0	0	0	0	1	0	0	0	14361	594	21	2	464	2	SKIV2L	6	31928300	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		31928300	139186767	23	992											
MCM3	4172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	52129392	52129392	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagacgaggcctcctcagatGaggaagatgatgccctcaga	12	6	13	10	1	2	6	2	2	0	4	3	9	3	7	3	2	1	0	3	2	1	0	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	52129392	G	A	52129392	2	1	16	1	0	0	0	0	0	0	0	1	9387	1277	45	2		2	MCM3	6	52129392	Silent	SNP	G	TCGA-A3-3362-01A-02D-1386-10	20201092	52129392	118985675	24	993											
C7orf46	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23728936	23728936	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgattcctcagcagtgcccCattgatctgccctgccaagt	7	10	9	15	1	2	1	1	1	1	0	3	2	3	1	5	0	4	1	5	0	1	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	23728936	C	T	23728936	2	4	16	1	0	0	0	0	0	0	0	1	2396	581	21	2		2	C7orf46	7	23728936	Silent	SNP	C	TCGA-A3-3362-01A-02D-1386-10		23728936	135409727	25	994											
SPDYE6	729597	broad.mit.edu	37	chr7	101991206	101991206	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcgttggtattgccaggaGgggaagccagcccggctgaa	9	7	16	9	2	0	1	0	1	0	0	0	3	0	3	3	5	4	3	3	5	3	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	101991206	A	A	101991206	2	1	16	1	0	0	0	0	0	0	0	1	15034	987	35	2		2	SPDYE6	7	101991206	Silent	SNP	G	TCGA-A3-3362-01A-02D-1386-10	78262270	101991206	57147457	26	995											
POT1	25913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	124487019	124487019	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagatagctgttgacatCtttctacctcgtataatgat	11	15	7	8	1	2	3	0	2	2	1	3	3	2	3	1	0	3	4	1	0	5	7	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	124487019	C	A	124487019	3	1	16	1	0	0	0	0	1	0	0	0	12260	913	32	4	953	4	POT1	7	124487019	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10	22495813	124487019	34651644	27	996											
UHRF2	115426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	6420988	6420988	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctagttcgcccagaccCtgatcatcttcctggcacat	7	11	8	15	1	2	2	1	1	1	1	4	2	3	2	3	1	1	4	3	1	1	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	6420988	C	G	6420988	3	3	16	1	0	0	0	0	1	0	0	0	16969	681	24	4	236	4	UHRF2	9	6420988	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		6420988	134792443	28	997											
TLN1	7094	broad.mit.edu;ucsc.edu	37	chr9	35704041	35704041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcacccagcttgaccacatCagcgaggcgggtgatggtcg	8	7	14	12	3	1	2	1	2	0	0	2	3	1	2	2	3	3	2	2	3	0	1	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	35704041	T	T	35704041	3	4	16	1	0	0	0	0	1	0	0	0	15946	826	29	2	1495	2	TLN1	9	35704041	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10	29283053	35704041	105509390	29	998											
CNTNAP3	79937	hgsc.bcm.edu	37	chr9	39103777	39103777	+	Frame_Shift_Del	DEL	G	G	-																															gatgaaatctgtgatccccaGgttctccataaacaccccgg																								novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		-	39103777	G	-	39103777	7	5	16	1	0	1	0	1	0	0	0	0	3648	991	35	0	1402	0	CNTNAP3	9	39103777	Frame_Shift_Del	DEL	G	TCGA-A3-3362-01A-02D-1386-10	3399736	39103777	102109654	30	999											
ZNF483	158399	hgsc.bcm.edu;ucsc.edu	37	chr9	114305026	114305026	+	Frame_Shift_Del	DEL	A	A	-																															tcagagaattcacactggagAaaaaccatatttgtgtaatg																								novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		-	114305026	A	-	114305026	7	5	16	1	0	1	0	1	0	0	0	0	17935	246	9	0	1829	0	ZNF483	9	114305026	Frame_Shift_Del	DEL	A	TCGA-A3-3362-01A-02D-1386-10	75201249	114305026	26908405	31	1000											
DDX50	79009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70670871	70670871	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttcaagttaagacctttggtCctgtatatgaaggaaaagat	14	13	9	5	0	1	3	1	1	0	2	2	4	2	4	2	2	0	2	2	2	7	5	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	70670871	C	G	70670871	3	3	16	1	0	0	0	0	1	0	0	0	4368	855	30	4	522	4	DDX50	10	70670871	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		70670871	64863876	32	1001											
NKX2-3	159296	broad.mit.edu	37	chr10	101294877	101294877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtcttcgagctggaacGcaggttcaagcagcagcggt	9	7	14	11	3	2	0	1	0	1	0	3	2	2	1	1	4	5	5	1	4	2	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	101294877	A	A	101294877	3	1	16	1	0	0	0	0	1	0	0	0	10451	1087	38	1	500	1	NKX2-3	10	101294877	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10	30624006	101294877	34239870	33	1002											
FZD4	8322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	86662562	86662562	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgaccgaattttgaacaaGgccaccaaacctgcagcaat	14	9	7	11	1	0	2	0	2	0	0	0	3	0	2	4	1	4	2	4	1	5	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		C	86662562	G	C	86662562	2	2	16	1	0	0	0	0	0	0	0	1	6132	987	35	4		4	FZD4	11	86662562	Silent	SNP	G	TCGA-A3-3362-01A-02D-1386-10		86662562	48343954	34	1003											
CAPRIN2	65981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	30868061	30868061	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttacttgaatagttccatCaggatgataatttgctgctt	10	16	8	7	0	1	2	1	2	0	0	2	3	2	3	1	1	3	4	1	1	4	7	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	30868061	C	T	30868061	3	4	16	1	0	0	0	0	1	0	0	0	2636	826	29	2	917	2	CAPRIN2	12	30868061	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		30868061	102983834	35	1004											
ACVR1B	91	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52374878	52374878	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatgtggctgtgaaaataTtctcttctcgtgaagaacgg	10	13	12	6	2	2	4	0	3	2	1	4	4	2	4	0	2	1	1	0	2	5	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		C	52374878	T	C	52374878	3	2	16	1	0	0	0	0	1	0	0	0	221	1493	52	3	720	3	ACVR1B	12	52374878	Missense_Mutation	SNP	T	TCGA-A3-3362-01A-02D-1386-10	21506817	52374878	81477017	36	1005											
OR10A7	121364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55614840	55614840	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcacaccagagtcactgAatttattcttcttggtttta	12	16	5	8	0	4	2	2	1	2	1	4	2	4	2	1	1	0	1	1	1	4	7	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	55614840	A	T	55614840	3	4	16	1	0	0	0	0	1	0	0	0	10895	246	9	5	34	5	OR10A7	12	55614840	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	3239962	55614840	78237055	37	1006											
R3HDM2	22864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57648628	57648628	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcgaagtttgaagcgactCacggagttgttgagacgaag	12	10	13	6	4	1	2	1	2	0	1	2	7	1	3	0	1	1	3	0	1	3	4	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	57648628	C	G	57648628	2	3	16	1	0	0	0	0	0	0	0	1	12890	813	29	4		4	R3HDM2	12	57648628	Silent	SNP	C	TCGA-A3-3362-01A-02D-1386-10	2033788	57648628	76203267	38	1007											
SLC5A8	160728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	101584327	101584327	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtagatgctggtccatgtgAaggtccctcctataataatt	10	13	9	9	1	0	2	0	1	0	1	3	2	3	2	3	2	1	2	3	2	5	5	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	101584327	A	G	101584327	3	3	16	1	0	0	0	0	1	0	0	0	14673	246	9	3	1120	3	SLC5A8	12	101584327	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	43935699	101584327	32267568	39	1008											
TMEM55B	90809	broad.mit.edu	37	chr14	20927414	20927414	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagccaagcaagaagcagCagatacatctcttacgtggg	14	6	11	10	1	1	2	0	0	1	2	2	2	1	2	1	1	6	4	1	1	6	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	20927414	A	A	20927414	3	1	16	1	0	0	0	0	1	0	0	0	16181	710	25	4	200	4	TMEM55B	14	20927414	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		20927414	86422126	40	1009											
AHNAK2	113146	broad.mit.edu	37	chr14	105413709	105413709	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaatgctgatgtcagtGgtcttaaggtccccttgcat	7	13	12	9	0	2	2	1	2	1	0	3	2	3	2	2	3	2	3	2	3	2	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	105413709	T	T	105413709	2	4	16	1	0	0	0	0	0	0	0	1	415	1335	47	4		4	AHNAK2	14	105413709	Silent	SNP	G	TCGA-A3-3362-01A-02D-1386-10	84486295	105413709	1935831	41	1010											
CTDSPL2	51496	broad.mit.edu;ucsc.edu	37	chr15	44776439	44776439	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaagagagagaaaatccTtcaaaacggagtagaattga	20	6	11	4	1	1	4	1	1	0	3	2	8	2	6	1	2	1	1	1	2	8	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	44776439	G	G	44776439	2	3	16	1	0	0	0	0	0	0	0	1	4006	1596	56	5		5	CTDSPL2	15	44776439	Silent	SNP	T	TCGA-A3-3362-01A-02D-1386-10		44776439	57754953	42	1011											
AKAP13	11214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	86279333	86279333	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttatagggtggaaatgctAacctggtatttatgcttaaa	12	16	9	4	0	0	0	0	0	0	0	0	1	0	1	1	3	3	3	1	3	8	8	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	86279333	A	T	86279333	3	4	16	1	0	0	0	0	1	0	0	0	449	362	13	5	7721	5	AKAP13	15	86279333	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10	41502894	86279333	16252059	43	1012											
PAQR4	124222	broad.mit.edu	37	chr16	3021699	3021699	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctactggtatttggggcccGgggagtgggtctgggttcag	4	11	18	8	1	2	0	1	0	1	0	2	1	2	1	2	7	1	2	2	7	2	4	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	3021699	T	T	3021699	3	4	16	1	0	0	0	0	1	0	0	0	11437	1116	39	4	582	4	PAQR4	16	3021699	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10		3021699	87333054	44	1013											
C17orf53	78995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42225574	42225574	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctcagtcctcagccttaCaccccctactcacctttgag	8	10	5	18	0	3	1	3	1	0	0	4	2	4	1	6	0	3	0	6	0	2	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	42225574	C	T	42225574	3	4	16	1	0	0	0	0	1	0	0	0	1862	478	17	2	413	2	C17orf53	17	42225574	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		42225574	38969636	45	1014											
C17orf80	55028	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	71232490	71232490	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagctcattaggtaaaaTccaagtcatggagaaacaag	18	8	9	6	0	2	2	2	1	0	1	3	3	3	2	1	2	2	2	1	2	7	2	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	71232490	T	G	71232490	3	3	16	1	0	0	0	0	1	0	0	0	1885	1435	50	5	871	5	C17orf80	17	71232490	Missense_Mutation	SNP	T	TCGA-A3-3362-01A-02D-1386-10	29006916	71232490	9962720	46	1015											
OR10H4	126541	hgsc.bcm.edu;ucsc.edu	37	chr19	16060085	16060085	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgatctgctttccaccCatcattccatcacctttgtg	6	15	6	14	0	3	1	2	1	1	0	5	1	5	1	4	1	1	2	4	1	0	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	16060085	C	A	16060085	3	1	16	1	0	0	0	0	1	0	0	0	10908	594	21	4	270	4	OR10H4	19	16060085	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		16060085	43068898	47	1016											
ZNF91	7644	broad.mit.edu	37	chr19	23543539	23543539	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccagttaaatgctttgcCacattcttcacacttgtaag	11	13	7	10	0	2	0	1	0	1	0	2	1	2	1	2	1	2	3	2	1	3	6	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	23543539	A	A	23543539	3	1	16	1	0	0	0	0	1	0	0	0	18199	594	21	4	1337	4	ZNF91	19	23543539	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10	7483454	23543539	35585444	48	1017											
GYS1	2997	broad.mit.edu;ucsc.edu	37	chr19	49477487	49477487	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccggtgtgtagccccaaGgctcatagtaggaggggaag	10	6	15	10	1	1	0	1	0	0	0	1	2	1	2	3	5	1	3	3	5	5	3	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		C	49477487	C	C	49477487	3	2	16	1	0	0	0	0	1	0	0	0	6912	1000	35	4	701	4	GYS1	19	49477487	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10	25933948	49477487	9651496	49	1018											
CBFA2T2	9139	broad.mit.edu	37	chr20	32198915	32198915	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagtaagcaatggcatcaAccattctcctcctaccctga	11	12	5	13	0	2	1	1	1	1	0	4	1	3	1	4	1	3	3	4	1	5	5	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		G	32198915	G	G	32198915	3	3	16	1	0	0	0	0	1	0	0	0	2697	43	2	3	269	3	CBFA2T2	20	32198915	Missense_Mutation	SNP	A	TCGA-A3-3362-01A-02D-1386-10		32198915	30826605	50	1019											
COL6A1	1291	broad.mit.edu	37	chr21	47409686	47409686	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagaaaaagggagccgtggGgagaaggtgagtgaggctcg	12	4	21	4	2	0	4	0	2	0	2	1	7	0	5	1	6	1	1	1	6	3	0	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	47409686	T	T	47409686	2	4	16	1	0	0	0	0	0	0	0	1	3699	1219	43	4		4	COL6A1	21	47409686	Silent	SNP	G	TCGA-A3-3362-01A-02D-1386-10		47409686	720209	51	1020											
FAM47B	170062	broad.mit.edu	37	chrX	34961787	34961787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcctcctgatactggagCgtcccatctctgcccggagc	7	8	11	15	2	1	2	0	1	1	1	4	4	3	4	4	2	5	0	4	2	1	1	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		T	34961787	T	T	34961787	3	4	16	1	0	0	0	0	1	0	0	0	5570	768	27	1	841	1	FAM47B	23	34961787	Missense_Mutation	SNP	C	TCGA-A3-3362-01A-02D-1386-10		34961787	120308773	52	1021											
COL4A6	1288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107457373	107457373	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcccaggatagccatcaGggcctggaaatccaacagct	13	5	11	12	0	1	0	1	0	0	0	2	3	2	2	4	3	4	1	4	3	4	1	novel		TCGA-A3-3362-01A-02D-1386-10	TCGA-A3-3362-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	03c9042a-0206-4f12-b444-62f435140e8d	0ec37c53-395f-4201-92d3-fbaa43f84e51		A	107457373	G	A	107457373	3	1	16	1	0	0	0	0	1	0	0	0	3695	1000	35	2	4822	2	COL4A6	23	107457373	Missense_Mutation	SNP	G	TCGA-A3-3362-01A-02D-1386-10	72495586	107457373	47813187	53	1022											
RERE	473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	8419828	8419828	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccctggactcacagccGcccgctctgcctcgcgctcc	5	6	8	22	4	2	0	1	0	1	0	4	1	3	1	6	1	3	2	6	1	1	0	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	8419828	G	A	8419828	3	1	17	1	0	0	0	0	1	0	0	0	13233	1087	38	1	1106	1	RERE	1	8419828	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08		8419828	240830793	1	1023											
BTF3L4	91408	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	52525496	52525496	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactttaacaaatctattttTccccccctagatttaccaac	12	14	2	13	0	1	1	0	0	1	1	2	2	2	1	4	0	3	0	4	0	6	8	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	52525496	T	C	52525496	1	2	17	0	1	0	0	0	0	0	0	0	1552	1798	62	3		3	BTF3L4	1	52525496	RNA	SNP	T	TCGA-A3-3363-01A-01D-0966-08	44105668	52525496	196725125	2	1024											
WLS	79971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	68611602	68611602	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggcaggctggactgctTcccactgatgttccgaaaca	9	9	11	12	1	0	1	0	1	0	0	2	3	2	2	2	3	3	5	2	3	1	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	68611602	T	C	68611602	3	2	17	1	0	0	0	0	1	0	0	0	17375	1792	62	3	539	3	WLS	1	68611602	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	16086106	68611602	180639019	3	1025											
CDC14A	8556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100964760	100964760	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcacaccaccatcctccGaccctcctacaccgggcttt	8	7	7	19	2	0	0	0	0	0	0	3	2	3	1	7	2	2	2	7	2	1	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	100964760	G	A	100964760	3	1	17	1	0	0	0	0	1	0	0	0	3056	1058	37	1	1770	1	CDC14A	1	100964760	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	32353158	100964760	148285861	4	1026											
ANKRD34A	284615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	145474166	145474166	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaattcaatggcctgaccCtgaccggtcgaccccgtctt	7	9	9	16	4	2	2	1	2	1	0	3	4	2	2	6	2	0	0	6	2	2	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	145474166	C	G	145474166	3	3	17	1	0	0	0	0	1	0	0	0	662	680	24	4	840	4	ANKRD34A	1	145474166	Missense_Mutation	SNP	C	TCGA-A3-3363-01A-01D-0966-08	44509406	145474166	103776455	5	1027											
SETDB1	9869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150923430	150923430	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagatgttcccctatccTgtgtcaatgagattgacaca	12	11	9	9	0	1	3	1	2	0	2	3	5	3	4	3	1	0	1	3	1	3	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	150923430	T	C	150923430	3	2	17	1	0	0	0	0	1	0	0	0	14140	1580	55	3	2123	3	SETDB1	1	150923430	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	5449264	150923430	98327191	6	1028											
IGSF9	57549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159897631	159897631	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagcaattccatgtccccagGgaattctgagtcccactcat	10	10	7	14	0	2	1	1	1	1	0	5	2	5	2	4	1	1	1	4	1	2	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	159897631	G	A	159897631	3	1	17	1	0	0	0	0	1	0	0	0	7605	1232	43	2	270	2	IGSF9	1	159897631	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	8974201	159897631	89352990	7	1029											
OBSCN	84033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	228400286	228400286	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaccggcgagcccaagcccGagacggtgtggaagaaggac	11	3	16	11	4	0	3	0	1	0	2	0	7	0	5	3	4	2	0	3	4	3	0	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	228400286	G	A	228400286	3	1	17	1	0	0	0	0	1	0	0	0	10812	1059	37	1	804	1	OBSCN	1	228400286	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	68502655	228400286	20850335	8	1030											
RHOB	388	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20647327	20647327	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacgagttccccgaggtgtAcgtgcccaccgtcttcgaga	7	8	13	13	5	1	1	0	0	1	1	3	5	2	2	4	2	2	2	4	2	1	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	20647327	A	G	20647327	3	3	17	1	0	0	0	0	1	0	0	0	13334	391	14	3	103	3	RHOB	2	20647327	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08		20647327	222552046	9	1031											
TP53I3	9540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24307066	24307066	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagccctgggtacctgcattAagtccgcccggttcagggcg	6	8	14	13	3	1	0	1	0	0	0	2	1	2	0	4	3	3	3	4	3	2	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	24307066	A	G	24307066	3	3	17	1	0	0	0	0	1	0	0	0	16386	372	13	3	887	3	TP53I3	2	24307066	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08	3659739	24307066	218892307	10	1032											
TMEM214	54867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27258869	27258869	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catggttaccgcatctgtatCcaggccatcctgcaagacaa	11	9	8	13	1	1	1	0	0	1	1	3	1	3	1	4	2	2	4	4	2	4	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	27258869	C	T	27258869	2	4	17	1	0	0	0	0	0	0	0	1	16136	845	30	2		2	TMEM214	2	27258869	Silent	SNP	C	TCGA-A3-3363-01A-01D-0966-08	2951803	27258869	215940504	11	1033											
GPR155	151556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	175301104	175301104	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattagccagctcaccaggtCacagccacagaaagttccag	14	6	8	13	0	2	1	2	0	0	1	3	1	3	1	4	1	3	2	4	1	3	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	175301104	C	A	175301104	3	1	17	1	0	0	0	0	1	0	0	0	6660	826	29	4	263	4	GPR155	2	175301104	Missense_Mutation	SNP	C	TCGA-A3-3363-01A-01D-0966-08	148042235	175301104	67898269	12	1034											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196729403	196729403	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcttcaggatcctggaaaTtctgctgatgtgctctatgg	7	14	11	9	0	3	1	1	1	2	0	4	3	4	3	1	3	3	3	1	3	2	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	196729403	T	C	196729403	3	2	17	1	0	0	0	0	1	0	0	0	4606	1493	52	3	5198	3	DNAH7	2	196729403	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	21428299	196729403	46469970	13	1035											
DNAH1	25981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52387249	52387249	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatcgatgctgagcagcTggagaagaacgtggttgaag	11	8	15	7	2	0	4	0	2	0	2	1	6	0	4	1	2	5	4	1	2	3	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	52387249	T	C	52387249	3	2	17	1	0	0	0	0	1	0	0	0	4597	1580	55	3	3228	3	DNAH1	3	52387249	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08		52387249	145635181	14	1036											
CACNA1D	776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53845394	53845394	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccctgggagggatgaggaGgacctggcggatgaaatgat	11	6	18	6	1	0	3	0	3	0	0	0	9	0	8	2	6	0	0	2	6	1	0	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	53845394	G	C	53845394	3	2	17	1	0	0	0	0	1	0	0	0	2541	991	35	4	6809	4	CACNA1D	3	53845394	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	1458145	53845394	144177036	15	1037											
ZNF732	654254	broad.mit.edu;ucsc.edu	37	chr4	265156	265156	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcgtaaggtttctctccaGtatgaattgtcttatgttta	9	19	7	6	1	2	1	0	1	2	0	5	1	3	1	1	1	0	4	1	1	5	8	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	265156	C	C	265156	3	2	17	1	0	0	0	0	1	0	0	0	18122	1029	36	4	271	4	ZNF732	4	265156	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08		265156	190889120	16	1038											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33576716	33576716	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attgtaaaatggagtcacagGccaagtgatagggttgcggg	12	9	15	5	1	1	1	1	1	0	0	1	2	1	2	1	4	1	2	1	4	4	4	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	33576716	G	A	33576716	3	1	17	1	0	0	0	0	1	0	0	0	257	1203	42	2	1393	2	ADAMTS12	5	33576716	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08		33576716	147338544	17	1039											
PCDHA6	56142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140209828	140209828	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcctcacgctactgctgTacacagcgctgcggtgctcg	5	10	12	14	4	1	0	1	0	0	0	3	0	2	0	1	2	6	5	1	2	2	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	140209828	T	C	140209828	3	2	17	1	0	0	0	0	1	0	0	0	11528	1638	57	3	2154	3	PCDHA6	5	140209828	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	106633112	140209828	40705432	18	1040											
HIST1H4E	8367	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	26205069	26205069	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtgtttctggaaaacgTgattcgtgatgctgtgactt	9	14	13	5	2	1	3	0	3	1	0	2	5	1	4	0	2	2	2	0	2	3	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	26205069	T	C	26205069	3	2	17	1	0	0	0	0	1	0	0	0	7169	1696	59	3	199	3	HIST1H4E	6	26205069	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08		26205069	144909998	19	1041											
TUBB	203068	hgsc.bcm.edu;ucsc.edu	37	chr6	30691536	30691543	+	Frame_Shift_Del	DEL	ATGAGTGG	ATGAGTGG	-																															accaccttgtctcagccaccAtgagtggtgtcaccacctgc																								novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	ATGAGTGG	ATGAGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		-	30691543	ATGAGTGG	-	30691536	7	5	17	1	0	1	0	1	0	0	0	0	16751	217	8	0	711	0	TUBB	6	30691536	Frame_Shift_Del	DEL	ATGAGTGG	TCGA-A3-3363-01A-01D-0966-08	4486467	30691536	140423531	20	1042											
UNC5CL	222643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41002736	41002736	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgaaggcattgggccagAaggaggacacttgccactgg	11	6	14	10	1	0	1	0	0	0	1	1	4	0	3	2	5	1	1	2	5	2	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	41002736	A	G	41002736	2	3	17	1	0	0	0	0	0	0	0	1	16993	233	9	3		3	UNC5CL	6	41002736	Silent	SNP	A	TCGA-A3-3363-01A-01D-0966-08	10311200	41002736	130112331	21	1043											
GPR110	266977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46977033	46977033	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaatggtaatgacagatAtaatgagagggcacccataa	17	7	10	7	0	0	3	0	2	0	2	0	4	0	3	1	2	1	3	1	2	5	4	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	46977033	A	T	46977033	3	4	17	1	0	0	0	0	1	0	0	0	6627	449	16	5	614	5	GPR110	6	46977033	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08	5974297	46977033	124138034	22	1044											
RBM16	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	155123148	155123148	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagatacaacaacagaagcCccagccttccattctgcagg	14	6	7	14	0	1	2	0	0	1	2	2	2	2	2	4	1	6	1	4	1	4	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	155123148	C	A	155123148	3	1	17	1	0	0	0	0	1	0	0	0	13120	623	22	4	676	4	RBM16	6	155123148	Missense_Mutation	SNP	C	TCGA-A3-3363-01A-01D-0966-08	108146115	155123148	15991919	23	1045											
ARID1B	57492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	157511244	157511244	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccgaaacggaactccatGactccaaacgccccctacca	12	6	5	18	3	0	1	0	1	0	0	3	3	3	2	6	1	4	0	6	1	4	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	157511244	G	A	157511244	3	1	17	1	0	0	0	0	1	0	0	0	914	1290	45	2	3820	2	ARID1B	6	157511244	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	2388096	157511244	13603823	24	1046											
COL1A2	1278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94055151	94055151	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtcctgctggcaaacaTggaaaccgtggtgaaactgt	10	9	14	8	1	0	1	0	1	0	0	1	2	1	2	2	4	4	2	2	4	3	0	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	94055151	T	A	94055151	3	1	17	1	0	0	0	0	1	0	0	0	3678	1461	51	5	3099	5	COL1A2	7	94055151	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08		94055151	65083512	25	1047											
NRCAM	4897	hgsc.bcm.edu	37	chr7	107848033	107848033	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggggttgccattagctctGcagatcaaggtcccatcctc	7	12	10	12	0	2	1	1	0	1	1	5	1	4	1	3	3	3	3	3	3	2	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	107848033	G	T	107848033	4	4	17	1	0	0	0	0	0	1	0	0	10644	1311	46	4	2882	4	NRCAM	7	107848033	Nonsense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	13792882	107848033	51290630	26	1048											
RBM28	55131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127965927	127965927	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgcttcttgagtcatgaActgggcaaatgcacaacctg	11	10	10	10	0	2	2	1	2	1	0	2	2	2	2	1	1	5	4	1	1	3	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	127965927	A	C	127965927	3	2	17	1	0	0	0	0	1	0	0	0	13130	43	2	5	1168	5	RBM28	7	127965927	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08	20117894	127965927	31172736	27	1049											
ATG9B	285973	broad.mit.edu	37	chr7	150715068	150715068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgataatctccagggcacGagggcggaaccagaaaagca	14	4	13	10	3	1	1	0	0	1	1	3	4	1	2	2	3	2	2	2	3	4	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	150715068	A	A	150715068	3	1	17	1	0	0	0	0	1	0	0	0	1103	1058	37	1	855	1	ATG9B	7	150715068	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	22749141	150715068	8423595	28	1050											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu	37	chr8	86019572	86019572	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcggcagaggcggaagtGgaaaacgaagacggcgacag	13	2	19	7	5	0	2	0	0	0	2	0	6	0	4	0	6	1	1	0	6	4	0	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	86019572	G	T	86019572	2	4	17	1	0	0	0	0	0	0	0	1	9026	1335	47	4		4	LRRCC1	8	86019572	Silent	SNP	G	TCGA-A3-3363-01A-01D-0966-08		86019572	60344450	29	1051											
FREM1	158326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	14846003	14846003	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccaccaacggtgactaGccggacagcaccaatgtcgt	11	5	11	14	3	0	1	0	1	0	0	1	2	0	2	4	3	3	1	4	3	3	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	14846003	G	A	14846003	2	1	17	1	0	0	0	0	0	0	0	1	6044	962	34	2		2	FREM1	9	14846003	Silent	SNP	G	TCGA-A3-3363-01A-01D-0966-08		14846003	126367428	30	1052											
CREB3	10488	broad.mit.edu;ucsc.edu	37	chr9	35736669	35736669	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcacaaggaagggaggAtggcttcctactggtagccc	11	8	12	10	0	1	0	1	0	1	0	3	3	2	3	2	5	2	2	2	5	5	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	35736669	G	G	35736669	2	3	17	1	0	0	0	0	0	0	0	1	3855	320	12	3		3	CREB3	9	35736669	Silent	SNP	A	TCGA-A3-3363-01A-01D-0966-08	20890666	35736669	105476762	31	1053											
VAV2	7410	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136649535	136649535	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctttgtctggcttgatgTttgacctggcaggagggaaa	7	13	15	6	0	1	2	0	2	1	0	1	4	1	4	1	5	0	4	1	5	1	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	136649535	T	C	136649535	3	2	17	1	0	0	0	0	1	0	0	0	17131	1725	60	3	1150	3	VAV2	9	136649535	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	100912866	136649535	4563896	32	1054											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	17110165	17110165	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgaacattaaatgaatcAggtgattaggttggactaat	14	14	9	4	1	1	2	1	2	0	0	2	4	1	3	0	3	1	1	0	3	6	5	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	17110165	A	G	17110165	3	3	17	1	0	0	0	0	1	0	0	0	4051	188	7	3	8153	3	CUBN	10	17110165	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08		17110165	118424582	33	1055											
PLCE1	51196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96043555	96043555	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttattttcagacaacattCtggaagacagacctgaaaat	16	11	6	8	0	2	4	1	1	1	3	2	5	2	5	1	1	1	0	1	1	5	4	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	96043555	C	T	96043555	2	4	17	1	0	0	0	0	0	0	0	1	12034	912	32	2		2	PLCE1	10	96043555	Silent	SNP	C	TCGA-A3-3363-01A-01D-0966-08	78933390	96043555	39491192	34	1056											
MUC2	4583	broad.mit.edu	37	chr11	1093448	1093448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccaccacggtgaccccaaCcccgacacccaccggcacac	11	1	6	23	3	0	1	0	1	0	0	0	2	0	1	8	2	1	1	8	2	1	0	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	1093448	A	A	1093448	3	1	17	1	0	0	0	0	1	0	0	0	9975	507	18	4	5385	4	MUC2	11	1093448	Missense_Mutation	SNP	C	TCGA-A3-3363-01A-01D-0966-08		1093448	133913068	35	1057											
NUCB2	4925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17351711	17351711	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcttcacagaggaagaacTaaaagaatatgaaaatatta	20	10	7	4	0	2	4	1	1	1	3	2	5	2	5	0	1	1	1	0	1	10	6	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	17351711	T	C	17351711	3	2	17	1	0	0	0	0	1	0	0	0	10719	1522	53	3	1078	3	NUCB2	11	17351711	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	16258263	17351711	117654805	36	1058											
DYRK4	8798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	4702286	4702286	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgacacggctcctgagaaAtttagcaagacgagttttga	12	10	10	9	3	0	3	0	2	0	2	2	6	1	3	1	1	1	3	1	1	3	4	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	4702286	A	T	4702286	3	4	17	1	0	0	0	0	1	0	0	0	4858	98	4	5	243	5	DYRK4	12	4702286	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08		4702286	129149609	37	1059											
LOH12CR1	118426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	12618552	12618552	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatacgccaagtatgccgagCagatccagaaagtgaacgag	15	5	12	9	3	0	3	0	1	0	2	1	6	1	3	3	0	4	2	3	0	5	2	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	12618552	C	T	12618552	4	4	17	1	0	0	0	0	0	1	0	0	8891	711	25	2	447	2	LOH12CR1	12	12618552	Nonsense_Mutation	SNP	C	TCGA-A3-3363-01A-01D-0966-08	7916266	12618552	121233343	38	1060											
PLEKHA9	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	45568052	45568052	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaaagttcccacatcaaTtccctcctcagaattggaca	13	9	5	14	0	2	1	2	0	0	1	5	2	5	2	3	1	1	2	3	1	3	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	45568052	T	C	45568052	1	2	17	0	1	0	0	0	0	0	0	0	12063	1493	52	3		3	PLEKHA9	12	45568052	RNA	SNP	T	TCGA-A3-3363-01A-01D-0966-08	32949500	45568052	88283843	39	1061											
GOLGA3	2802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133384990	133384990	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagccccaggctgcccaccTtaggcccccgagggacactg	8	4	12	17	1	0	0	0	0	0	0	0	3	0	1	6	3	2	1	6	3	2	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	133384990	T	G	133384990	3	3	17	1	0	0	0	0	1	0	0	0	6554	1609	56	5	4049	5	GOLGA3	12	133384990	Missense_Mutation	SNP	T	TCGA-A3-3363-01A-01D-0966-08	87816938	133384990	466905	40	1062											
LMO7	4008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	76335071	76335071	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccacttcttttcacaggatAatataaacgttttcttgaaa	13	16	4	8	1	3	1	1	1	2	0	4	2	4	2	1	1	1	1	1	1	5	9	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	76335071	A	G	76335071	3	3	17	1	0	0	0	0	1	0	0	0	8855	362	13	3	388	3	LMO7	13	76335071	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08		76335071	38834807	41	1063											
CHD8	57680	broad.mit.edu;hgsc.bcm.edu	37	chr14	21873953	21873953	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattgtgacggttccaagAaatgaagcaagctaaacagt	17	8	10	6	1	0	3	0	2	0	1	1	4	1	3	1	1	3	3	1	1	7	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	21873953	A	G	21873953	3	3	17	1	0	0	0	0	1	0	0	0	3331	246	9	3	4863	3	CHD8	14	21873953	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08		21873953	85475587	42	1064											
KIAA0247	9766	broad.mit.edu;hgsc.bcm.edu	37	chr14	70170292	70170292	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaccagccatggagattaGctgccgtctcaacgagggtc	11	7	12	11	2	1	1	1	0	1	1	3	4	1	1	3	2	5	1	3	2	3	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	70170292	G	A	70170292	3	1	17	1	0	0	0	0	1	0	0	0	8165	971	34	2	308	2	KIAA0247	14	70170292	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	48296339	70170292	37179248	43	1065											
ARHGAP11A	9824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	32928531	32928531	+	Frame_Shift_Del	DEL	G	G	-																															gttggaacaaattaccggatGtcttggacaggacctaataa																								novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		-	32928531	G	-	32928531	7	5	17	1	0	1	0	1	0	0	0	0	863	1377	48	0	1626	0	ARHGAP11A	15	32928531	Frame_Shift_Del	DEL	G	TCGA-A3-3363-01A-01D-0966-08		32928531	69602861	44	1066											
ANPEP	290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90349564	90349564	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtctcagcgtcacccggtagGaatcgggtttcagcgtgttg	6	11	14	10	4	3	0	3	0	1	0	5	1	3	1	1	3	2	3	1	3	2	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	90349564	G	T	90349564	3	4	17	1	0	0	0	0	1	0	0	0	710	1174	41	4	2732	4	ANPEP	15	90349564	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	57421033	90349564	12181828	45	1067											
MPG	4350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	133207	133207	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccggggaccctgtacGtgtacatcatttacggcatg	9	10	12	10	3	1	1	1	1	0	0	1	2	1	2	2	3	4	3	2	3	4	4	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	133207	G	A	133207	3	1	17	1	0	0	0	0	1	0	0	0	9724	1145	40	1	510	1	MPG	16	133207	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08		133207	90221546	46	1068											
CNOT1	23019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58589212	58589212	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatacattttggatccaaaaGgcttgcgtaaggcttcaaga	14	11	9	7	1	1	1	1	0	0	1	2	2	2	2	1	3	2	3	1	3	6	6	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	58589212	G	C	58589212	3	2	17	1	0	0	0	0	1	0	0	0	3617	1000	35	4	4634	4	CNOT1	16	58589212	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08	58456005	58589212	31765541	47	1069											
PFAS	5198	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8168629	8168629	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtgaagtgtagcgggaactgGatgtgggcagccaagctccc	9	7	16	9	1	0	1	0	1	0	0	1	3	1	3	2	3	4	3	2	3	4	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		C	8168629	G	C	8168629	3	2	17	1	0	0	0	0	1	0	0	0	11754	1183	41	4	2374	4	PFAS	17	8168629	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08		8168629	73026581	48	1070											
AKAP8L	26993	broad.mit.edu;hgsc.bcm.edu	37	chr19	15491165	15491165	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccgcttcgccctgcgccCcctcgtccagggcaccgccc	2	6	10	23	5	0	0	0	0	0	0	3	0	1	0	7	1	2	2	7	1	0	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		T	15491165	C	T	15491165	3	4	17	1	0	0	0	0	1	0	0	0	458	623	22	2	235	2	AKAP8L	19	15491165	Missense_Mutation	SNP	C	TCGA-A3-3363-01A-01D-0966-08		15491165	43637818	49	1071											
PRODH2	58510	broad.mit.edu;ucsc.edu	37	chr19	36303703	36303703	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcacgtaacaggtccggAgcatcctgggtccctggctg	8	7	14	12	2	0	1	0	0	0	1	3	2	3	2	3	4	3	4	3	4	1	1	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		G	36303703	G	G	36303703	3	3	17	1	0	0	0	0	1	0	0	0	12551	304	11	3	1417	3	PRODH2	19	36303703	Missense_Mutation	SNP	A	TCGA-A3-3363-01A-01D-0966-08	20812538	36303703	22825280	50	1072											
SRC	6714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	36024642	36024642	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actacaagatccgcaagctgGacagcggcggcttctacatc	11	7	10	13	3	1	1	0	0	1	1	3	2	2	2	1	3	4	3	1	3	4	3	novel		TCGA-A3-3363-01A-01D-0966-08	TCGA-A3-3363-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34dac639-c2e5-447d-99c5-c6a3e15538fe	fecea611-a48c-4eb9-bd43-c8f829d9ddaf		A	36024642	G	A	36024642	3	1	17	1	0	0	0	0	1	0	0	0	15135	1174	41	2	649	2	SRC	20	36024642	Missense_Mutation	SNP	G	TCGA-A3-3363-01A-01D-0966-08		36024642	27000878	51	1073											
DNAJC16	23341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	15855691	15855691	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcgttggattttgacccaTacagagtcctaggggtcagc	8	11	12	10	1	1	2	1	1	0	1	2	3	2	3	2	3	3	1	2	3	2	5	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	15855691	T	C	15855691	3	2	18	1	0	0	0	0	1	0	0	0	4635	1406	49	3	93	3	DNAJC16	1	15855691	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08		15855691	233394930	1	1074											
CYP4A11	1579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47403749	47403749	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccatagccaatgaggacAggcacttgggaatgtctcca	11	8	10	12	0	1	1	0	1	1	0	3	3	2	3	4	3	1	1	4	3	3	2	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	47403749	A	G	47403749	3	3	18	1	0	0	0	0	1	0	0	0	4183	188	7	3	1347	3	CYP4A11	1	47403749	Missense_Mutation	SNP	A	TCGA-A3-3365-01A-01D-0966-08	31548058	47403749	201846872	2	1075											
BCAN	63827	hgsc.bcm.edu;ucsc.edu	37	chr1	156627509	156627509	+	Frame_Shift_Del	DEL	C	C	-																															gatcggactcaacgacaggaCcatcgaaggcgacttcttgt																								novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		-	156627509	C	-	156627509	7	5	18	1	0	1	0	1	0	0	0	0	1345	507	18	0	2364	0	BCAN	1	156627509	Frame_Shift_Del	DEL	C	TCGA-A3-3365-01A-01D-0966-08	109223760	156627509	92623112	3	1076											
SIPA1L2	57568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	232650730	232650730	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaccttcactctggtcaCtctgcccattctgcaggaca	7	11	8	15	0	5	1	2	1	3	0	5	2	5	2	2	2	2	2	2	2	0	2	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	232650730	C	G	232650730	3	3	18	1	0	0	0	0	1	0	0	0	14332	565	20	4	4896	4	SIPA1L2	1	232650730	Missense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08	76023221	232650730	16599891	4	1077											
RTN4	57142	broad.mit.edu;ucsc.edu	37	chr2	55253832	55253832	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctcagttgctgctgggTtaaagggagcacatgtgata	9	12	13	7	0	1	1	1	1	1	0	2	2	1	2	0	2	4	6	0	2	3	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	55253832	G	G	55253832	3	3	18	1	0	0	0	0	1	0	0	0	13730	1725	60	5	2241	5	RTN4	2	55253832	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08		55253832	187945541	5	1078											
EN1	2019	broad.mit.edu	37	chr2	119604102	119604103	+	Frame_Shift_Del	DEL	CG	-	-																															gagggcttggctgctgcggcCgccgccgccgccgccactgc																								novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		-	119604103	-	-	119604102	7	5	18	1	0	1	0	1	0	0	0	0	5109	639	23	0	544	0	EN1	2	119604102	Frame_Shift_Del	DEL	CG	TCGA-A3-3365-01A-01D-0966-08	64350270	119604102	123595271	6	1079											
FN1	2335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216236992	216236992	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ataccatttccagtgtcataCccagggtgggtgacgaaagg	11	9	12	9	1	1	1	1	1	0	0	2	2	2	1	3	3	2	0	3	3	3	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	216236992	C	A	216236992	2	1	18	1	0	0	0	0	0	0	0	1	5962	494	18	4		4	FN1	2	216236992	Silent	SNP	C	TCGA-A3-3365-01A-01D-0966-08	96632890	216236992	26962381	7	1080											
PSMD6	9861	broad.mit.edu;hgsc.bcm.edu	37	chr3	64007994	64007994	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaaccatctctactcacTttgtcacctatccggcagag	11	10	7	13	1	3	1	2	0	1	1	5	2	4	2	3	2	2	1	3	2	4	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	64007994	T	G	64007994	3	3	18	1	0	0	0	0	1	0	0	0	12704	1623	56	5	846	5	PSMD6	3	64007994	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08		64007994	134014436	8	1081											
SLC9A9	285195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	143297454	143297454	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgatgatggcatacgcagaCcccattgcaaatgagccagc	12	7	11	11	1	0	4	0	3	0	1	0	4	0	4	3	1	4	3	3	1	2	2	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	143297454	C	A	143297454	2	1	18	1	0	0	0	0	0	0	0	1	14723	494	18	4		4	SLC9A9	3	143297454	Silent	SNP	C	TCGA-A3-3365-01A-01D-0966-08	79289460	143297454	54724976	9	1082											
GAK	2580	broad.mit.edu;ucsc.edu	37	chr4	843678	843678	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctggcagctctgctcAccttgtcggggtgcacagcc	4	8	13	16	2	2	0	1	0	1	0	3	0	2	0	4	3	4	4	4	3	0	1	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	843678	G	G	843678	5	3	18	1	0	0	0	0	0	0	1	0	6195	173	6	3	107	3	GAK	4	843678	Splice_Site	SNP	A	TCGA-A3-3365-01A-01D-0966-08		843678	190310598	10	1083											
GAK	2580	hgsc.bcm.edu	37	chr4	884397	884397	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcgctcccgtagcctccaTtctgctccaggagctgtgac	5	10	11	15	2	1	1	0	1	1	0	4	2	4	2	4	2	3	4	4	2	1	2	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	884397	T	C	884397	3	2	18	1	0	0	0	0	1	0	0	0	6195	1493	52	3	3007	3	GAK	4	884397	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08	40719	884397	190269879	11	1084											
COPS4	51138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83970374	83970374	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttgctgactgatttttgCacacatcttcctaacttgcc	8	15	6	12	0	1	2	0	2	1	0	2	2	2	2	2	0	4	3	2	0	1	6	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	83970374	C	A	83970374	4	1	18	1	0	0	0	0	0	1	0	0	3735	718	25	4	220	4	COPS4	4	83970374	Nonsense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08	83085977	83970374	107183902	12	1085											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87653571	87653571	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatttctttggccctgagTttgtgaaaatgacaattgaa	13	14	9	5	0	1	5	0	4	1	1	1	5	1	5	1	1	0	1	1	1	5	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	87653571	T	C	87653571	3	2	18	1	0	0	0	0	1	0	0	0	12784	1725	60	3	1665	3	PTPN13	4	87653571	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08	3683197	87653571	103500705	13	1086											
ADAMTS16	170690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	5209271	5209271	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatacaagtatcctgagaAattgccaggagaattatatg	16	10	10	5	0	0	2	0	1	0	2	1	5	1	3	2	2	2	1	2	2	8	5	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		T	5209271	A	T	5209271	3	4	18	1	0	0	0	0	1	0	0	0	261	14	1	5	1555	5	ADAMTS16	5	5209271	Missense_Mutation	SNP	A	TCGA-A3-3365-01A-01D-0966-08		5209271	175705989	14	1087											
MYO10	4651	broad.mit.edu	37	chr5	16671643	16671643	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtccccaacctcggatgtgGcagccagcctacagagagga	10	5	13	13	1	0	1	0	0	0	1	2	4	1	3	5	4	4	1	5	4	2	1	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	16671643	C	C	16671643	3	2	18	1	0	0	0	0	1	0	0	0	10062	1203	42	4	874	4	MYO10	5	16671643	Missense_Mutation	SNP	G	TCGA-A3-3365-01A-01D-0966-08	11462372	16671643	164243617	15	1088											
CAMLG	819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134079711	134079711	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttcttactttacaacttgCgtacatgggattatacaaat	13	16	5	7	1	1	0	0	0	1	0	1	1	1	1	0	1	6	1	0	1	7	8	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		T	134079711	C	T	134079711	3	4	18	1	0	0	0	0	1	0	0	0	2609	768	27	1	678	1	CAMLG	5	134079711	Missense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08	117408068	134079711	46835549	16	1089											
PCDHGC5	56097	broad.mit.edu;ucsc.edu	37	chr5	140869551	140869551	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaatcctcagttctacgTgtgggaatcccagagaatgc	10	11	9	11	1	2	1	1	0	1	1	5	3	5	2	3	1	2	1	3	1	4	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	140869551	A	A	140869551	2	1	18	1	0	0	0	0	0	0	0	1	11571	1683	59	5		5	PCDHGC5	5	140869551	Silent	SNP	T	TCGA-A3-3365-01A-01D-0966-08	6789840	140869551	40045709	17	1090											
JAKMIP2	9832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147009293	147009293	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcaagctgctttatgagaTcagggatgttcacatcctgc	10	13	9	9	0	3	1	3	1	0	1	4	3	4	2	1	1	3	3	1	1	3	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	147009293	T	G	147009293	3	3	18	1	0	0	0	0	1	0	0	0	7941	1435	50	5	568	5	JAKMIP2	5	147009293	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08	6139742	147009293	33905967	18	1091											
ZNF292	23036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	87966445	87966445	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttgatgaccttttctgTgcaaaatcaggcagcatttc	11	13	7	10	0	2	2	1	2	1	0	3	2	2	2	1	1	3	3	1	1	3	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	87966445	T	A	87966445	3	1	18	1	0	0	0	0	1	0	0	0	17825	1696	59	5	3128	5	ZNF292	6	87966445	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08		87966445	83148622	19	1092											
GPR126	57211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	142691426	142691426	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttcacactctgctttgaaGcaaccaaagttggccatgaa	12	11	7	11	0	2	2	1	2	1	0	2	2	2	2	2	1	3	3	2	1	4	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	142691426	G	A	142691426	3	1	18	1	0	0	0	0	1	0	0	0	6640	971	34	2	579	2	GPR126	6	142691426	Missense_Mutation	SNP	G	TCGA-A3-3365-01A-01D-0966-08	54724981	142691426	28423641	20	1093											
BAZ1B	9031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	72856668	72856668	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtttatgcaacagagccActagacactgttctgtcttc	9	13	9	10	0	2	2	0	0	2	2	3	2	2	2	1	1	3	3	1	1	3	5	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	72856668	A	G	72856668	3	3	18	1	0	0	0	0	1	0	0	0	1330	159	6	3	145	3	BAZ1B	7	72856668	Missense_Mutation	SNP	A	TCGA-A3-3365-01A-01D-0966-08		72856668	86281995	21	1094											
ZAN	7455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100361427	100361427	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggggtgggtctcttgcAggtgtcagaagtaccaggtg	6	12	17	6	0	2	1	1	0	1	1	3	1	2	1	1	5	2	3	1	5	2	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	100361427	A	G	100361427	5	3	18	1	0	0	0	0	0	0	1	0	17512	202	7	3	4063	3	ZAN	7	100361427	Splice_Site	SNP	A	TCGA-A3-3365-01A-01D-0966-08	27504759	100361427	58777236	22	1095											
NFIB	4781	hgsc.bcm.edu;ucsc.edu	37	chr9	14307384	14307385	+	Frame_Shift_Del	DEL	CT	CT	-																															gagaagctcatctttgactgCtctttcttcatcctttgaca																								novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		-	14307385	CT	-	14307384	7	5	18	1	0	1	0	1	0	0	0	0	10371	797	28	0	1128	0	NFIB	9	14307384	Frame_Shift_Del	DEL	CT	TCGA-A3-3365-01A-01D-0966-08		14307384	126906047	23	1096											
CBARA1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	74128087	74128087	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcttcatgatggaaacaaAttccttattgctcagttcgc	10	15	7	9	1	2	1	2	1	0	0	4	2	3	2	1	1	3	3	1	1	3	6	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	74128087	A	G	74128087	3	3	18	1	0	0	0	0	1	0	0	0	2696	101	4	3	137	3	CBARA1	10	74128087	Missense_Mutation	SNP	A	TCGA-A3-3365-01A-01D-0966-08		74128087	61406660	24	1097											
ANKRD42	338699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	82905759	82905759	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacttcctctagggagaCtgcaaacccctgtgagtcag	9	9	9	14	0	2	2	1	1	1	1	4	3	4	2	4	1	2	1	4	1	2	2	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		T	82905759	C	T	82905759	3	4	18	1	0	0	0	0	1	0	0	0	670	565	20	2	49	2	ANKRD42	11	82905759	Missense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08		82905759	52100757	25	1098											
SIK2	23235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111591712	111591712	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagttgttgtatgaacaaAtaggaccggaggcagaccct	12	9	12	8	1	0	2	0	1	0	1	0	4	0	4	2	3	2	5	2	3	4	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	111591712	A	C	111591712	3	2	18	1	0	0	0	0	1	0	0	0	14320	101	4	5	1916	5	SIK2	11	111591712	Missense_Mutation	SNP	A	TCGA-A3-3365-01A-01D-0966-08	28685953	111591712	23414804	26	1099											
MLL2	8085	broad.mit.edu;ucsc.edu	37	chr12	49447312	49447312	+	Silent	SNP	G	A	A																															tgccagccagcacgtttgcgGgcagtcagagcagtgtccag																								novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	49447312	A	A	49447312	2	1	18	1	0	0	0	0	0	0	0	1	9621	1219	43	2		2	MLL2	12	49447312	Silent	SNP	G	TCGA-A3-3365-01A-01D-0966-08		49447312	84404583	27	1100	17	2									
MLL2	8085	broad.mit.edu;ucsc.edu	37	chr12	49447313	49447313	+	Missense_Mutation	SNP	G	T	T																															gccagccagcacgtttgcggGcagtcagagcagtgtccagg																								novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		T	49447313	T	T	49447313	3	4	18	1	0	0	0	0	1	0	0	0	9621	1203	42	4	16024	4	MLL2	12	49447313	Missense_Mutation	SNP	G	TCGA-A3-3365-01A-01D-0966-08	1	49447313	84404582	28	1101	17	2									
EFHA1	221154	broad.mit.edu	37	chr13	22067484	22067484	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattcttgtatactctgatgTtgtggtacctgttaaccgaa	9	17	8	7	1	2	1	0	1	2	0	2	2	2	1	2	1	3	4	2	1	6	8	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	22067484	C	C	22067484	2	2	18	1	0	0	0	0	0	0	0	1	4943	1722	60	3		3	EFHA1	13	22067484	Silent	SNP	T	TCGA-A3-3365-01A-01D-0966-08		22067484	93102394	29	1102											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32910986	32910986	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaaaattataaaaacgttGagctgttgccacctgaaaaa	18	10	7	6	1	0	3	0	3	0	0	0	3	0	3	2	0	3	3	2	0	8	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	32910986	G	A	32910986	3	1	18	1	0	0	0	0	1	0	0	0	1499	1291	45	2	2532	2	BRCA2	13	32910986	Missense_Mutation	SNP	G	TCGA-A3-3365-01A-01D-0966-08	10843502	32910986	82258892	30	1103											
ITM2B	9445	hgsc.bcm.edu	37	chr13	48835350	48835350	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgccgtggaaactttaaTttgttcttgaacagtcaaga	12	15	8	6	1	2	2	1	1	1	1	2	3	2	3	1	1	3	1	1	1	4	6	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	48835350	T	G	48835350	3	3	18	1	0	0	0	0	1	0	0	0	7913	1493	52	5	813	5	ITM2B	13	48835350	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08	15924364	48835350	66334528	31	1104											
JKAMP	51528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59954452	59954452	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtcagccttgcacagaatctCctgaactttatgattggctc	9	13	8	11	0	2	3	1	2	1	1	4	3	2	3	2	1	3	2	2	1	3	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	59954452	C	G	59954452	3	3	18	1	0	0	0	0	1	0	0	0	7949	855	30	4	167	4	JKAMP	14	59954452	Missense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08		59954452	47395088	32	1105											
GSPT1	2935	broad.mit.edu	37	chr16	11984971	11984971	+	Frame_Shift_Del	DEL	T	-	-																															ttcatacttttcaagcgtccTtttgtcaaccattccagtca																								novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		-	11984971	-	-	11984971	7	5	18	1	0	1	0	1	0	0	0	0	6826	1608	56	0	1229	0	GSPT1	16	11984971	Frame_Shift_Del	DEL	T	TCGA-A3-3365-01A-01D-0966-08		11984971	78369782	33	1106											
JUP	3728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39919273	39919273	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgggctggttgagcagctTcacgatggctgggatgccat	6	11	16	8	1	1	1	1	1	0	0	1	3	1	2	1	4	3	6	1	4	0	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	39919273	T	G	39919273	3	3	18	1	0	0	0	0	1	0	0	0	7972	1792	62	5	806	5	JUP	17	39919273	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08		39919273	41275937	34	1107											
SGCA	6442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48252717	48252717	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccactctccaccctgccCatgttcaatgtgcacacagg	8	8	8	17	1	2	0	1	0	1	0	3	0	2	0	4	2	2	2	4	2	1	1	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		G	48252717	C	G	48252717	2	3	18	1	0	0	0	0	0	0	0	1	14201	581	21	4		4	SGCA	17	48252717	Silent	SNP	C	TCGA-A3-3365-01A-01D-0966-08	8333444	48252717	32942493	35	1108											
CBLC	23624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45284600	45284600	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccatcttcgagttcgacGtcttcaccaggctctttcag	6	14	8	13	3	5	0	2	0	3	0	8	2	6	0	2	1	0	2	2	1	0	4	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	45284600	G	C	45284600	3	2	18	1	0	0	0	0	1	0	0	0	2702	1145	40	4	647	4	CBLC	19	45284600	Missense_Mutation	SNP	G	TCGA-A3-3365-01A-01D-0966-08		45284600	13844383	36	1109											
ZNF324B	388569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58967919	58967919	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgccggggagggaagccaagCccagtcctgaagccagcgaa	11	2	15	13	3	0	1	0	1	0	0	1	4	1	3	5	3	4	0	5	3	4	0	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		A	58967919	C	A	58967919	3	1	18	1	0	0	0	0	1	0	0	0	17844	738	26	4	1618	4	ZNF324B	19	58967919	Missense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08	13683319	58967919	161064	37	1110											
VAPB	9217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	57015985	57015985	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtagaaataaataaaaTtatatccacaactgcatcaa	20	11	4	6	0	1	2	1	1	0	1	2	2	2	2	1	0	2	2	1	0	10	5	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	57015985	T	C	57015985	3	2	18	1	0	0	0	0	1	0	0	0	17121	1493	52	3	437	3	VAPB	20	57015985	Missense_Mutation	SNP	T	TCGA-A3-3365-01A-01D-0966-08		57015985	6009535	38	1111											
BID	637	broad.mit.edu;hgsc.bcm.edu	37	chr22	18220987	18220987	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcagtggccaggtccctGttccggtcctgcacagaggg	6	7	16	12	1	0	1	0	0	0	1	3	1	3	1	4	5	1	3	4	5	0	1	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		C	18220987	G	C	18220987	3	2	18	1	0	0	0	0	1	0	0	0	1430	1368	48	4	223	4	BID	22	18220987	Missense_Mutation	SNP	G	TCGA-A3-3365-01A-01D-0966-08		18220987	33083579	39	1112											
L1CAM	3897	broad.mit.edu	37	chrX	153135050	153135050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acattgggtcaccattgtgtCactgggctgcacgttgctca	7	12	11	11	1	3	0	3	0	0	0	3	0	3	0	1	2	2	4	1	2	0	3	novel		TCGA-A3-3365-01A-01D-0966-08	TCGA-A3-3365-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5062d743-a97a-4586-9567-19eeae9aceca	36b9ccc1-3562-4b95-92ce-4bc4ea3f3d81		T	153135050	T	T	153135050	3	4	18	1	0	0	0	0	1	0	0	0	8588	826	29	2	2657	2	L1CAM	23	153135050	Missense_Mutation	SNP	C	TCGA-A3-3365-01A-01D-0966-08		153135050	2135510	40	1113											
VHL	7428	hgsc.bcm.edu	37	chr3	10183872	10183872	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgcatccacagctaccgagGtacgggcccggcgcttaggc	7	5	13	16	5	0	0	0	0	0	0	1	1	1	0	4	4	3	4	4	4	3	3	novel		TCGA-A3-3365-01A-01W-0898-10	TCGA-A3-3365-11A-01W-0898-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq	.	.	PacBio RS	7dba232b-ab48-41ce-a119-dc32fca0bc02	50cddd20-179b-4139-8615-1ea1213d84b4		A	10183872	G	A	10183872	5	1	19	1	0	0	0	0	0	0	1	0	17161	1275	44	2	343	2	VHL	3	10183872	Splice_Site	SNP	G	TCGA-A3-3365-01A-01W-0898-10		10183872	187838558	1	1114											
RPL22	6146	broad.mit.edu;hgsc.bcm.edu	37	chr1	6246862	6246862	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaaatattttttggtgAgatatttcaaatacctgcag	12	17	6	6	0	3	1	2	1	1	1	3	2	3	1	1	1	2	1	1	1	5	8	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	6246862	A	G	6246862	3	3	20	1	0	0	0	0	1	0	0	0	13570	304	11	3	133	3	RPL22	1	6246862	Missense_Mutation	SNP	A	TCGA-A3-3367-01A-02D-1421-08		6246862	243003759	1	1115											
EPHA2	1969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16458586	16458586	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaggtggcctcggggtcGtcctccagcacgcgggacag	5	7	17	12	4	0	0	0	0	0	0	4	1	2	1	3	5	1	2	3	5	1	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	16458586	G	A	16458586	2	1	20	1	0	0	0	0	0	0	0	1	5167	1136	40	1		1	EPHA2	1	16458586	Silent	SNP	G	TCGA-A3-3367-01A-02D-1421-08	10211724	16458586	232792035	2	1116											
SNX7	51375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	99156689	99156689	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagacgatatcaagattTcctttggttgaagggaaaac	14	11	11	5	1	1	3	1	1	0	2	2	6	2	4	1	3	1	1	1	3	6	5	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	99156689	T	A	99156689	3	1	20	1	0	0	0	0	1	0	0	0	14909	1783	62	5	432	5	SNX7	1	99156689	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	82698103	99156689	150093932	3	1117											
OLFML3	56944	hgsc.bcm.edu	37	chr1	114522961	114522962	+	Frame_Shift_Ins	INS	-	-	G																															ccatcccttcaggaacggctINSggcccagtgccaggaccaga																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	114522962	-	G	114522961	7	5	20	1	0	1	1	0	0	0	0	0	10859	1580	55	0	128	0	OLFML3	1	114522961	Frame_Shift_Ins	INS	-	TCGA-A3-3367-01A-02D-1421-08	15366272	114522961	134727660	4	1118											
RC3H1	149041	hgsc.bcm.edu;ucsc.edu	37	chr1	173950062	173950074	+	Frame_Shift_Del	DEL	GAGTCATGTTCTC	GAGTCATGTTCTC	-																															tagcaatctgcactatctggGagtcatgttctcgccgcaga																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	GAGTCATGTTCTC	GAGTCATGTTCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	173950074	GAGTCATGTTCTC	-	173950062	7	5	20	1	0	1	0	1	0	0	0	0	13168	1174	41	0	2607	0	RC3H1	1	173950062	Frame_Shift_Del	DEL	GAGTCATGTTCTC	TCGA-A3-3367-01A-02D-1421-08	59427101	173950062	75300559	5	1119											
KIF21B	23046	hgsc.bcm.edu;ucsc.edu	37	chr1	200956041	200956046	+	In_Frame_Del	DEL	CTAGGG	CTAGGG	-																															tctctgtggctcgagattgcCtagggctacaacagaagagt																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	CTAGGG	CTAGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	200956046	CTAGGG	-	200956041	7	5	20	1	0	1	0	1	0	0	0	0	8289	681	24	0	1290	0	KIF21B	1	200956041	In_Frame_Del	DEL	CTAGGG	TCGA-A3-3367-01A-02D-1421-08	27005979	200956041	48294580	6	1120											
SRP9	6726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	225971002	225971002	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatatgtatttttgtttcagGcacgtgtggttctcaaatat	10	18	8	5	1	2	0	2	0	1	0	3	0	2	0	0	2	0	4	0	2	5	7	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	225971002	G	A	225971002	3	1	20	1	0	0	0	0	1	0	0	0	15159	1217	42	2	79	2	SRP9	1	225971002	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	25014961	225971002	23279619	7	1121											
ZP4	57829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	238048491	238048491	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagggcctgtttctccaCtgtagggttcacaaagctga	8	11	11	11	0	2	2	1	2	1	0	3	2	2	2	3	2	1	4	3	2	2	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	238048491	C	A	238048491	3	1	20	1	0	0	0	0	1	0	0	0	18217	565	20	4	353	4	ZP4	1	238048491	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	12077489	238048491	11202130	8	1122											
GREB1	9687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11772090	11772090	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaccggccgtcacgaacAtgggctctttaatctgtacc	10	9	8	14	3	3	0	1	0	2	0	3	1	3	0	4	2	3	2	4	2	4	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	11772090	A	G	11772090	3	3	20	1	0	0	0	0	1	0	0	0	6760	217	8	3	4877	3	GREB1	2	11772090	Missense_Mutation	SNP	A	TCGA-A3-3367-01A-02D-1421-08		11772090	231427283	9	1123											
CHRNA1	1134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	175614794	175614794	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaacagcatgtattttccAatcaagggcacagcactgga	13	9	10	9	0	1	1	1	1	0	0	2	2	2	2	1	2	3	4	1	2	4	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	175614794	A	G	175614794	2	3	20	1	0	0	0	0	0	0	0	1	3381	126	5	3		3	CHRNA1	2	175614794	Silent	SNP	A	TCGA-A3-3367-01A-02D-1421-08	163842704	175614794	67584579	10	1124											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238249699	238249699	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgtctaagatgaaagcCatgtcgatgtccacatcgct	10	10	10	11	3	1	2	0	1	1	1	4	3	2	2	2	0	1	2	2	0	2	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	238249699	C	T	238249699	3	4	20	1	0	0	0	0	1	0	0	0	3701	594	21	2	1701	2	COL6A3	2	238249699	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	62634905	238249699	4949674	11	1125											
CXCR6	10663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	45988808	45988808	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagaggccatcgcatacCtgagggcctgccttaaccct	9	8	10	14	1	0	3	0	2	0	1	1	3	0	3	5	2	3	1	5	2	2	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	45988808	C	T	45988808	2	4	20	1	0	0	0	0	0	0	0	1	4095	680	24	2		2	CXCR6	3	45988808	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08		45988808	152033622	12	1126											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52651339	52651339	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttcatgtcttctatcAttccctcttcaccagcatat	8	16	3	14	0	7	0	4	0	3	0	8	0	8	0	2	0	2	2	2	0	2	6	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	52651339	A	G	52651339	3	3	20	1	0	0	0	0	1	0	0	0	11491	217	8	3	3211	3	PBRM1	3	52651339	Missense_Mutation	SNP	A	TCGA-A3-3367-01A-02D-1421-08	6662531	52651339	145371091	13	1127											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130286060	130286063	+	Frame_Shift_Del	DEL	GAAA	GAAA	-																															gtgcatgactttgatgcattGaaagacataagaaaccaagt																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	GAAA	GAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	130286063	GAAA	-	130286060	7	5	20	1	0	1	0	1	0	0	0	0	3703	1281	45	0	1811	0	COL6A6	3	130286060	Frame_Shift_Del	DEL	GAAA	TCGA-A3-3367-01A-02D-1421-08	77634721	130286060	67736370	14	1128											
MME	4311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154862150	154862150	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgttctgatttgaggtCgaggatttgattgcacagat	8	16	11	6	1	2	4	0	3	2	1	3	6	2	5	0	2	1	2	0	2	0	5	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	154862150	C	A	154862150	2	1	20	1	0	0	0	0	0	0	0	1	9645	871	31	4		4	MME	3	154862150	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08	24576090	154862150	43160280	15	1129											
UGT2A3	79799	broad.mit.edu;hgsc.bcm.edu	37	chr4	69817503	69817503	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttccctcacacactgaTctgcaatggttttgtagtta	9	14	8	10	0	2	1	1	1	1	0	3	1	3	1	1	1	1	6	1	1	3	5	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	69817503	T	A	69817503	1	1	20	0	1	0	0	0	0	0	0	0	16954	1450	50	5		5	UGT2A3	4	69817503	RNA	SNP	T	TCGA-A3-3367-01A-02D-1421-08		69817503	121336773	16	1130											
NUDT6	11162	broad.mit.edu	37	chr4	123843511	123843511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaagcccttctggaaggCggcagcgtccaggcggtcca	7	6	14	14	3	1	0	0	0	1	0	3	1	3	1	3	5	3	2	3	5	2	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	123843511	T	T	123843511	3	4	20	1	0	0	0	0	1	0	0	0	10743	768	27	1	753	1	NUDT6	4	123843511	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	54026008	123843511	67310765	17	1131											
IL3	3562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131396700	131396700	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaccaagacattctgaTggtaagagctcagcccgtgg	12	7	13	9	1	2	4	1	1	1	3	2	5	2	5	2	3	2	2	2	3	3	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	131396700	T	A	131396700	3	1	20	1	0	0	0	0	1	0	0	0	7689	1478	51	5	209	5	IL3	5	131396700	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08		131396700	49518560	18	1132											
PPP2R2B	5521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	146236091	146236091	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cataggtgttttcatctggaTaattcatgcttcattattgg	9	18	8	6	0	4	0	3	0	1	0	4	1	4	1	0	3	1	2	0	3	3	8	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	146236091	T	A	146236091	3	1	20	1	0	0	0	0	1	0	0	0	12387	1406	49	5	1326	5	PPP2R2B	5	146236091	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	14839391	146236091	34679169	19	1133											
GM2A	2760	broad.mit.edu	37	chr5	150646946	150646946	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaactaccgcatagagagCgtcctgagcagcagtgggaa	12	5	15	9	2	0	2	0	1	0	1	1	5	1	4	2	2	5	3	2	2	4	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	150646946	T	T	150646946	2	4	20	1	0	0	0	0	0	0	0	1	6484	767	27	1		1	GM2A	5	150646946	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08	4410855	150646946	30268314	20	1134											
C6orf222	389384	broad.mit.edu;ucsc.edu	37	chr6	36294388	36294388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gactggaaacatctgcagccCccctcttggcctcctcggag	7	8	10	16	1	2	0	0	0	2	0	4	3	3	2	5	3	3	1	5	3	1	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	36294388	T	T	36294388	3	4	20	1	0	0	0	0	1	0	0	0	2356	623	22	2	1055	2	C6orf222	6	36294388	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08		36294388	134820679	21	1135											
BACH2	60468	broad.mit.edu	37	chr6	90660625	90660625	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgaagttggacacctcCttctggcccacgtggggctg	6	10	14	11	1	1	1	0	1	1	0	2	2	2	2	3	5	0	2	3	5	1	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	90660625	A	A	90660625	3	1	20	1	0	0	0	0	1	0	0	0	1284	680	24	4	1337	4	BACH2	6	90660625	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	54366237	90660625	80454442	22	1136											
MCHR2	84539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	100395756	100395756	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctccccctcgggcccattGgtgaataagaaaaggcattc	10	9	9	13	1	1	2	0	1	1	1	4	2	1	2	3	3	0	1	3	3	4	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	100395756	G	T	100395756	3	4	20	1	0	0	0	0	1	0	0	0	9383	1357	47	4	764	4	MCHR2	6	100395756	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	9735131	100395756	70719311	23	1137											
STAG3L2	442582	broad.mit.edu	37	chr7	74299903	74299903	+	Frame_Shift_Del	DEL	C	-	-																															cctacacaatggggtagacgCtctcacagtccacgtccatc																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	74299903	-	-	74299903	7	5	20	1	0	1	0	1	0	0	0	0	15246	797	28	0	22	0	STAG3L2	7	74299903	Frame_Shift_Del	DEL	C	TCGA-A3-3367-01A-02D-1421-08		74299903	84838760	24	1138											
MTUS1	57509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17612685	17612685	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgcgtcttatcagaatggGaagatgtccaagtggaatag	13	10	12	6	1	2	2	1	0	1	2	3	4	3	4	1	2	1	0	1	2	6	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	17612685	G	T	17612685	3	4	20	1	0	0	0	0	1	0	0	0	9965	1174	41	4	3555	4	MTUS1	8	17612685	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08		17612685	128751337	25	1139											
CLVS1	157807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	62212689	62212689	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcagtatttccagtaccgCcagctaaacctggacatgtt	10	11	8	12	1	1	0	1	0	0	0	2	1	2	1	4	1	3	5	4	1	4	5	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	62212689	C	T	62212689	2	4	20	1	0	0	0	0	0	0	0	1	3571	726	26	2		2	CLVS1	8	62212689	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08	44600004	62212689	84151333	26	1140											
FAM82B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87500826	87500826	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gataaagtttttctgtttctCcgctttcatacaggtagtct	8	18	7	8	1	4	0	1	0	3	0	5	1	4	0	1	1	1	4	1	1	4	7	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	87500826	C	G	87500826	3	3	20	1	0	0	0	0	1	0	0	0	5632	855	30	4	686	4	FAM82B	8	87500826	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	25288137	87500826	58863196	27	1141											
KLHL38	340359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	124664647	124664647	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caactccaaggcacagagctCcttcaggtcggccgatgcgg	9	6	12	14	3	1	1	1	0	0	1	4	2	3	1	3	4	3	2	3	4	2	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	124664647	C	G	124664647	3	3	20	1	0	0	0	0	1	0	0	0	8390	864	30	4	1237	4	KLHL38	8	124664647	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	37163821	124664647	21699375	28	1142											
FAM75A6	0	broad.mit.edu	37	chr9	43627074	43627074	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaaaggccattcagggTgctgagtttcaggtagggag	11	9	14	7	0	3	1	3	1	0	0	3	2	3	2	1	4	2	3	1	4	3	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		C	43627074	C	C	43627074	3	2	20	1	0	0	0	0	1	0	0	0	5622	1696	59	3	2422	3	FAM75A6	9	43627074	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08		43627074	97586357	29	1143											
GBGT1	26301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136029294	136029294	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctgcgctcataggggaaCtgctggcggggaacggcgta	7	6	17	11	5	1	0	1	0	0	0	1	2	1	2	1	6	4	3	1	6	4	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	136029294	C	G	136029294	3	3	20	1	0	0	0	0	1	0	0	0	6272	564	20	4	333	4	GBGT1	9	136029294	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	92402220	136029294	5184137	30	1144											
ATP5C1	509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7839091	7839091	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcagcaaaatatgcccGagctgagagagagctgaaac	15	4	13	9	2	0	3	0	2	0	2	0	6	0	3	1	1	6	4	1	1	4	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	7839091	G	T	7839091	3	4	20	1	0	0	0	0	1	0	0	0	1149	1058	37	4	183	4	ATP5C1	10	7839091	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08		7839091	127695656	31	1145											
ARMC4	55130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	28233812	28233812	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcctccaacatctctgatgGccaactggcaggtttcttga	8	11	10	12	0	2	2	0	2	2	0	4	2	3	2	3	4	2	2	3	4	2	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	28233812	G	T	28233812	3	4	20	1	0	0	0	0	1	0	0	0	953	1203	42	4	1708	4	ARMC4	10	28233812	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	20394721	28233812	107300935	32	1146											
JMJD1C	221037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	64936178	64936178	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgttcacataccaacttTggtcacgtattggatcatgt	9	17	7	8	1	3	0	3	0	0	0	3	1	3	1	1	2	2	2	1	2	3	7	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	64936178	T	A	64936178	3	1	20	1	0	0	0	0	1	0	0	0	7950	1812	63	5	354	5	JMJD1C	10	64936178	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	36702366	64936178	70598569	33	1147											
CDH23	64072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	73544690	73544690	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggacatcaacgacaacgacCctgtgctgctgaacctgccc	10	7	9	15	2	1	1	1	1	0	0	1	4	1	2	3	1	6	2	3	1	3	0	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	73544690	C	T	73544690	3	4	20	1	0	0	0	0	1	0	0	0	3108	623	22	2	6056	2	CDH23	10	73544690	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	8608512	73544690	61990057	34	1148											
ABCC8	6833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17418564	17418564	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatctggatcttcccttggtCtggccagttctttgggatca	5	15	11	10	0	5	0	1	0	4	0	6	3	6	2	2	4	0	1	2	4	0	4	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	17418564	C	G	17418564	3	3	20	1	0	0	0	0	1	0	0	0	58	913	32	4	755	4	ABCC8	11	17418564	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08		17418564	117587952	35	1149											
CAT	847	hgsc.bcm.edu;ucsc.edu	37	chr11	34489943	34489946	+	Frame_Shift_Del	DEL	GTGA	GTGA	-																															ttttcatccagaagaaagcgGtgagtctttgtaagctgaag																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	GTGA	GTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	34489946	GTGA	-	34489943	7	5	20	1	0	1	0	1	0	0	0	0	2686	1275	44	0	1477	0	CAT	11	34489943	Frame_Shift_Del	DEL	GTGA	TCGA-A3-3367-01A-02D-1421-08	17071379	34489943	100516573	36	1150											
FNBP4	23360	hgsc.bcm.edu	37	chr11	47774573	47774573	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatgttgctgcttcctttgGctctggtcgaggtggagttg	4	15	15	7	1	1	1	0	0	1	1	3	3	2	2	1	4	2	5	1	4	0	4	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	47774573	G	A	47774573	3	1	20	1	0	0	0	0	1	0	0	0	5967	1203	42	2	2577	2	FNBP4	11	47774573	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	13284630	47774573	87231943	37	1151											
GANAB	23193	broad.mit.edu;ucsc.edu	37	chr11	62396249	62396249	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgcctcacctcatgacAggaatgccttcccgatgggc	9	9	10	13	1	2	2	2	2	0	0	3	4	3	3	4	2	2	0	4	2	2	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	62396249	G	G	62396249	2	3	20	1	0	0	0	0	0	0	0	1	6233	175	7	3		3	GANAB	11	62396249	Silent	SNP	A	TCGA-A3-3367-01A-02D-1421-08	14621676	62396249	72610267	38	1152											
SLC22A8	9376	hgsc.bcm.edu;ucsc.edu	37	chr11	62762194	62762195	+	Frame_Shift_Ins	INS	-	-	A																															ccaaattcttccacacccatINSagccaaactatagtaggcaa																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	62762195	-	A	62762194	7	5	20	1	0	1	1	0	0	0	0	0	14462	1406	49	0	608	0	SLC22A8	11	62762194	Frame_Shift_Ins	INS	-	TCGA-A3-3367-01A-02D-1421-08	365945	62762194	72244322	39	1153											
ANO1	55107	broad.mit.edu;ucsc.edu	37	chr11	70017113	70017113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagtttgtcactgagctccGaaggccggtagctgtcagag	10	9	13	9	2	2	2	2	1	0	1	3	3	3	2	2	2	2	4	2	2	3	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	70017113	A	A	70017113	3	1	20	1	0	0	0	0	1	0	0	0	695	1058	37	1	2404	1	ANO1	11	70017113	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	7254919	70017113	64989403	40	1154											
ANO1	55107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	70031793	70031793	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggctggcgtttgtcatcGtcttccaggtgcggtgggtc	2	12	15	12	4	2	0	1	0	1	0	5	0	3	0	2	5	1	2	2	5	0	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	70031793	G	A	70031793	3	1	20	1	0	0	0	0	1	0	0	0	695	1145	40	1	2784	1	ANO1	11	70031793	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	14680	70031793	64974723	41	1155											
MAP6	4135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	75298336	75298336	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggactatacgaccttgaTtctttggaggctgtaggact	9	12	12	8	1	1	1	0	1	1	0	1	5	1	4	1	4	1	2	1	4	3	6	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		C	75298336	T	C	75298336	3	2	20	1	0	0	0	0	1	0	0	0	9264	1493	52	3	235	3	MAP6	11	75298336	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	5266543	75298336	59708180	42	1156											
EXPH5	23086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108381263	108381263	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccgttctcactcaacctGctttcgccaatggactctgc	6	14	6	15	2	3	0	2	0	2	0	6	1	4	1	3	1	3	2	3	1	2	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	108381263	G	A	108381263	2	1	20	1	0	0	0	0	0	0	0	1	5322	1310	46	2		2	EXPH5	11	108381263	Silent	SNP	G	TCGA-A3-3367-01A-02D-1421-08	33082927	108381263	26625253	43	1157											
LAYN	143903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111431066	111431066	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatcagaaagtgggtttgtGactctggtgagcgtggagag	9	10	16	6	1	2	4	1	2	1	2	2	5	2	4	1	3	1	1	1	3	1	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	111431066	G	A	111431066	2	1	20	1	0	0	0	0	0	0	0	1	8649	1277	45	2		2	LAYN	11	111431066	Silent	SNP	G	TCGA-A3-3367-01A-02D-1421-08	3049803	111431066	23575450	44	1158											
GPHN	10243	hgsc.bcm.edu;ucsc.edu	37	chr14	67390942	67390943	+	Frame_Shift_Ins	INS	-	-	C																															tacaccagtcctgctgttgtINScatggcacacggtgaacagc																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		C	67390943	-	C	67390942	7	5	20	1	0	1	1	0	0	0	0	0	6610	1667	58	0	791	0	GPHN	14	67390942	Frame_Shift_Ins	INS	-	TCGA-A3-3367-01A-02D-1421-08		67390942	39958598	45	1159											
PGF	5228	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75416059	75416059	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgggcagggtatggacctaCctgcatggtgacattggccg	7	9	15	10	1	0	1	0	1	0	0	0	2	0	2	3	5	2	3	3	5	2	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	75416059	C	T	75416059	5	4	20	1	0	0	0	0	0	0	1	0	11788	521	18	2	216	2	PGF	14	75416059	Splice_Site	SNP	C	TCGA-A3-3367-01A-02D-1421-08	8025117	75416059	31933481	46	1160											
ONECUT1	3175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	53081592	53081592	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggtagggggtatagaGgttattcatggaggccagcc	8	11	16	6	0	1	1	1	0	0	1	1	2	1	2	2	6	1	3	2	6	4	6	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	53081592	G	T	53081592	3	4	20	1	0	0	0	0	1	0	0	0	10868	1000	35	4	915	4	ONECUT1	15	53081592	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08		53081592	49449800	47	1161											
SH2D7	646892	broad.mit.edu	37	chr15	78393441	78393441	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggcagggaggcccaaagGagactctcagatggagaaca	14	3	14	10	0	1	3	1	0	1	3	2	6	1	4	2	5	1	1	2	5	2	0	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	78393441	T	T	78393441	3	4	20	1	0	0	0	0	1	0	0	0	14241	1165	41	4	864	4	SH2D7	15	78393441	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	25311849	78393441	24137951	48	1162											
NMRAL1	57407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4511892	4511892	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtcgggtctcagggcataGaaacggaacatgttggccag	10	7	15	9	3	1	1	1	0	1	1	3	2	1	2	1	5	2	2	1	5	3	2	rs1043380		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	4511892	G	A	4511892	2	1	20	1	0	0	0	0	0	0	0	1	10501	933	33	2		2	NMRAL1	16	4511892	Silent	SNP	G	TCGA-A3-3367-01A-02D-1421-08		4511892	85842861	49	1163											
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21147728	21147728	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctccaggaagggactcGtcagcagcgtgttagaaatc	10	7	15	9	2	1	1	1	0	0	1	4	3	2	3	1	4	2	3	1	4	3	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	21147728	G	A	21147728	3	1	20	1	0	0	0	0	1	0	0	0	4603	1145	40	1	11774	1	DNAH3	16	21147728	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	16635836	21147728	69207025	50	1164											
CHRNB1	1140	hgsc.bcm.edu;ucsc.edu	37	chr17	7350241	7350245	+	Frame_Shift_Del	DEL	TGACG	TGACG	-																															gcggaatccgtgtggctcccTgacgtggtgctactgaacaa																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	TGACG	TGACG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	7350245	TGACG	-	7350241	7	5	20	1	0	1	0	1	0	0	0	0	3390	1567	55	0	347	0	CHRNB1	17	7350241	Frame_Shift_Del	DEL	TGACG	TCGA-A3-3367-01A-02D-1421-08		7350241	73844969	51	1165											
ALOX15B	247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7942501	7942501	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcagggtcagggtgtccAccggagaagccttcggggct	7	8	16	10	2	2	1	2	0	0	1	4	2	3	1	3	5	1	2	3	5	1	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	7942501	A	G	7942501	3	3	20	1	0	0	0	0	1	0	0	0	539	159	6	3	30	3	ALOX15B	17	7942501	Missense_Mutation	SNP	A	TCGA-A3-3367-01A-02D-1421-08	592260	7942501	73252709	52	1166											
PIRT	644139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10728814	10728814	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgggcttgcggtagattTcccagttactcctgggggtg	5	12	15	9	2	0	1	0	0	0	1	2	2	2	1	2	4	2	3	2	4	2	4	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	10728814	T	A	10728814	3	1	20	1	0	0	0	0	1	0	0	0	11945	1783	62	5	268	5	PIRT	17	10728814	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	2786313	10728814	70466396	53	1167											
AOC3	8639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41004871	41004871	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcattcctctttggtgctaCtgggaagtacgggaaccaag	9	10	13	9	1	1	0	0	0	1	0	2	2	2	2	2	4	4	3	2	4	5	4	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	41004871	C	A	41004871	3	1	20	1	0	0	0	0	1	0	0	0	728	565	20	4	1513	4	AOC3	17	41004871	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	30276057	41004871	40190339	54	1168											
DBF4B	80174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42828502	42828502	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacatccgtgtacccttGccttcccctcctatctcaat	6	13	3	19	1	2	0	2	0	1	0	6	0	5	0	7	0	2	1	7	0	3	4	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	42828502	G	A	42828502	3	1	20	1	0	0	0	0	1	0	0	0	4249	1319	46	2	1828	2	DBF4B	17	42828502	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08	1823631	42828502	38366708	55	1169											
ROCK1	6093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	18549140	18549140	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcttaatatttcaatatcTttggttagcatgctgtttgc	8	20	6	7	0	3	0	1	0	2	0	3	0	3	0	0	1	3	4	0	1	5	8	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	18549140	T	G	18549140	3	3	20	1	0	0	0	0	1	0	0	0	13519	1606	56	5	1254	5	ROCK1	18	18549140	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08		18549140	59528108	56	1170											
DSG1	1828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	28898303	28898303	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtagttgcaatgctgttcAtttttctggtgagtggattc	7	17	12	5	0	2	1	1	1	1	0	3	3	2	2	0	2	2	5	0	2	2	6	rs141269991	byfrequency;alternate_allele	TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	28898303	A	G	28898303	3	3	20	1	0	0	0	0	1	0	0	0	4776	217	8	3	42	3	DSG1	18	28898303	Missense_Mutation	SNP	A	TCGA-A3-3367-01A-02D-1421-08	10349163	28898303	49178945	57	1171											
CDH7	1005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	63547734	63547734	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatattgtgagatacgaTgacgagggcgggggagagga	14	6	18	3	3	0	3	0	2	0	2	0	9	0	4	0	4	1	0	0	4	4	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	63547734	T	A	63547734	3	1	20	1	0	0	0	0	1	0	0	0	3115	1461	51	5	2004	5	CDH7	18	63547734	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	34649431	63547734	14529514	58	1172											
HMHA1	23526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1074198	1074198	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaacatggccaagtacAtgaaggacctcatcagctac	15	6	8	12	0	2	2	2	1	0	1	2	3	2	3	3	2	4	2	3	2	6	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	1074198	A	T	1074198	3	4	20	1	0	0	0	0	1	0	0	0	7240	217	8	5	912	5	HMHA1	19	1074198	Missense_Mutation	SNP	A	TCGA-A3-3367-01A-02D-1421-08		1074198	58054785	59	1173											
ZNF333	84449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14829357	14829357	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaagccttcaaatattcCtcgaatctccggcgacacat	11	9	8	13	3	2	0	1	0	1	0	5	2	3	0	3	2	1	1	3	2	4	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	14829357	C	T	14829357	2	4	20	1	0	0	0	0	0	0	0	1	17849	668	24	2		2	ZNF333	19	14829357	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08	13755159	14829357	44299626	60	1174											
NDUFA13	51079	broad.mit.edu	37	chr19	19627139	19627139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgccgcgtcgaggactgtCgggtcagtatcactctgcgc	5	10	13	13	5	3	0	2	0	1	0	5	2	3	1	1	2	2	1	1	2	1	2	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	19627139	T	T	19627139	3	4	20	1	0	0	0	0	1	0	0	0	10263	893	31	1	94	1	NDUFA13	19	19627139	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	4797782	19627139	39501844	61	1175											
ZNF91	7644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	23545331	23545331	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccacattgaaatactttgctCtgggcagttgtgagacactg	10	12	10	9	0	1	2	0	2	1	1	1	3	1	2	1	1	2	3	1	1	2	4	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	23545331	C	G	23545331	3	3	20	1	0	0	0	0	1	0	0	0	18199	912	32	4	3129	4	ZNF91	19	23545331	Missense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	3918192	23545331	35583652	62	1176											
NUP62	23636	hgsc.bcm.edu	37	chr19	50411672	50411673	+	Frame_Shift_Ins	INS	-	-	G																															agtgggtcactggtgtcggcINSgggggccccggacgtgttca																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	50411673	-	G	50411672	7	5	20	1	0	1	1	0	0	0	0	0	10768	768	27	0	179	0	NUP62	19	50411672	Frame_Shift_Ins	INS	-	TCGA-A3-3367-01A-02D-1421-08	26866341	50411672	8717311	63	1177											
SIGLEC8	27181	hgsc.bcm.edu;ucsc.edu	37	chr19	51957520	51957520	+	Frame_Shift_Del	DEL	C	C	-																															tgcatcttccatgcctgtatCccccacgcccgctgctggcc																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		-	51957520	C	-	51957520	7	5	20	1	0	1	0	1	0	0	0	0	14316	855	30	0	309	0	SIGLEC8	19	51957520	Frame_Shift_Del	DEL	C	TCGA-A3-3367-01A-02D-1421-08	1545848	51957520	7171463	64	1178											
NLRP9	338321	broad.mit.edu;hgsc.bcm.edu	37	chr19	56244059	56244059	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaggtggaaaactctgacTtcctgctttgaatacagttg	10	14	9	8	0	1	2	0	2	1	0	2	3	2	3	1	2	3	2	1	2	5	5	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	56244059	T	A	56244059	3	1	20	1	0	0	0	0	1	0	0	0	10484	1609	56	5	1869	5	NLRP9	19	56244059	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	4286539	56244059	2884924	65	1179											
ZNF584	201514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58921394	58921394	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagtgggggctccttaaTgtgacccagaagggcctata	10	8	15	8	0	0	2	0	1	0	1	1	4	1	3	3	4	0	1	3	4	4	3	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	58921394	T	G	58921394	3	3	20	1	0	0	0	0	1	0	0	0	18015	1461	51	5	111	5	ZNF584	19	58921394	Missense_Mutation	SNP	T	TCGA-A3-3367-01A-02D-1421-08	2677335	58921394	207589	66	1180											
RASSF2	9770	broad.mit.edu	37	chr20	4771138	4771138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgatggagaagcggtggcGtctgattcgccgctggtcac	6	10	16	9	4	2	3	1	2	1	1	3	4	2	3	1	4	1	2	1	4	1	2	rs147789166	bycluster;by1000genomes	TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	4771138	A	A	4771138	3	1	20	1	0	0	0	0	1	0	0	0	13088	1145	40	1	508	1	RASSF2	20	4771138	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08		4771138	58254382	67	1181											
ZNF341	84905	broad.mit.edu;hgsc.bcm.edu	37	chr20	32379290	32379290	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagggcccatgtgccatgctCgctgtgcccgtctacatcca	6	9	11	15	2	1	0	0	0	1	0	3	1	2	0	4	1	4	2	4	1	1	1	rs148919836		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	32379290	C	T	32379290	2	4	20	1	0	0	0	0	0	0	0	1	17856	871	31	1		1	ZNF341	20	32379290	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08	27608152	32379290	30646230	68	1182											
MYT1	4661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62850364	62850364	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcctgagaacctcagcacGaagccacaggacctccccag	12	4	9	16	1	1	1	1	1	0	1	2	4	2	2	6	1	4	1	6	1	2	0	rs142303893		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	62850364	G	A	62850364	2	1	20	1	0	0	0	0	0	0	0	1	10106	1045	37	1		1	MYT1	20	62850364	Silent	SNP	G	TCGA-A3-3367-01A-02D-1421-08	30471074	62850364	175156	69	1183											
GNB1L	54584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	19776236	19776236	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggagtgggtgagtcatGcgcgtgggtagagtgaccag	9	7	20	5	2	1	3	1	2	0	1	1	5	1	4	1	3	1	1	1	3	2	1	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		T	19776236	G	T	19776236	3	4	20	1	0	0	0	0	1	0	0	0	6516	1319	46	4	7	4	GNB1L	22	19776236	Missense_Mutation	SNP	G	TCGA-A3-3367-01A-02D-1421-08		19776236	31528330	70	1184											
MYH9	4627	broad.mit.edu;ucsc.edu	37	chr22	36723503	36723504	+	Splice_Site	INS	-	A	A																															acccagacggagaaatacttINSacgtgcacaagatggattga																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	36723504	A	A	36723503	8	5	20	1	0	1	1	0	0	0	1	0	10042	1769	61	0		0	MYH9	22	36723503	Splice_Site	INS	-	TCGA-A3-3367-01A-02D-1421-08	16947267	36723503	14581063	71	1185											
SH3KBP1	30011	hgsc.bcm.edu	37	chrX	19560246	19560247	+	Frame_Shift_Ins	INS	-	-	G																															ccgctgaggacagaggggctINSggcccaccgccacctgctgc																								novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		G	19560247	-	G	19560246	7	5	20	1	0	1	1	0	0	0	0	0	14257	1567	55	0	320	0	SH3KBP1	23	19560246	Frame_Shift_Ins	INS	-	TCGA-A3-3367-01A-02D-1421-08		19560246	135710314	72	1186											
KLHL15	80311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	24006422	24006422	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcttgtgaaagcatctCgcgtaattcatcttgctctt	9	16	6	10	2	6	1	2	1	4	0	7	1	6	1	0	0	2	3	0	0	2	5	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	24006422	C	A	24006422	2	1	20	1	0	0	0	0	0	0	0	1	8371	871	31	4		4	KLHL15	23	24006422	Silent	SNP	C	TCGA-A3-3367-01A-02D-1421-08	4446176	24006422	131264138	73	1187											
FRMD7	90167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	131234681	131234681	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaattctaatccaaaatattCcttttcagcaagatttagat	15	15	4	7	0	2	2	1	0	1	2	4	3	4	2	2	0	1	1	2	0	7	8	novel		TCGA-A3-3367-01A-02D-1421-08	TCGA-A3-3367-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	83a091b9-35cc-4f3b-9d5f-d699b79ac421	c0f55242-222d-4d61-bc5e-389f605e31bf		A	131234681	C	A	131234681	4	1	20	1	0	0	0	0	0	1	0	0	6055	864	30	4	2067	4	FRMD7	23	131234681	Nonsense_Mutation	SNP	C	TCGA-A3-3367-01A-02D-1421-08	107228259	131234681	24035879	74	1188											
PRDX1	5052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45984673	45984673	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cataacagctgtggctttgaAgttgggggcagggtgcccaa	9	9	15	8	0	0	1	0	1	0	0	0	1	0	1	1	4	3	4	1	4	3	3	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	45984673	A	G	45984673	3	3	21	1	0	0	0	0	1	0	0	0	12466	72	3	3	576	3	PRDX1	1	45984673	Missense_Mutation	SNP	A	TCGA-A3-3370-01A-02D-1421-08		45984673	203265948	1	1189											
LRRC8B	23507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	90049715	90049715	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttactgaaatgggaaaaatCccacgctgggtatttcacct	12	12	8	9	1	1	1	1	1	0	0	2	2	2	2	2	2	1	2	2	2	5	4	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	90049715	C	T	90049715	2	4	21	1	0	0	0	0	0	0	0	1	9022	845	30	2		2	LRRC8B	1	90049715	Silent	SNP	C	TCGA-A3-3370-01A-02D-1421-08	44065042	90049715	159200906	2	1190											
C2orf78	388960	broad.mit.edu;ucsc.edu	37	chr2	74043728	74043728	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcagccaaagcaacccAacccagttcagccaacccta	15	6	4	16	0	2	0	2	0	0	0	2	0	2	0	5	0	6	2	5	0	6	3	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	74043728	C	C	74043728	3	2	21	1	0	0	0	0	1	0	0	0	2195	130	5	5	2388	5	C2orf78	2	74043728	Missense_Mutation	SNP	A	TCGA-A3-3370-01A-02D-1421-08		74043728	169155645	3	1191											
ZNF2	7549	hgsc.bcm.edu;ucsc.edu	37	chr2	95847736	95847736	+	Frame_Shift_Del	DEL	A	A	-																															gcggtgccggctcacgcggcAtcagcgtgtccacacgggag																								novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		-	95847736	A	-	95847736	7	5	21	1	0	1	0	1	0	0	0	0	17759	217	8	0	1177	0	ZNF2	2	95847736	Frame_Shift_Del	DEL	A	TCGA-A3-3370-01A-02D-1421-08	21804008	95847736	147351637	4	1192											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141143576	141143576	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaggtccacaagtcttttTatctgtaatggaaagaacca	14	12	8	7	0	2	2	0	1	2	1	3	3	3	3	2	2	1	1	2	2	5	4	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	141143576	T	C	141143576	3	2	21	1	0	0	0	0	1	0	0	0	8955	1763	61	3	3482	3	LRP1B	2	141143576	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	45295840	141143576	102055797	5	1193											
ALS2	57679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202590152	202590152	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctttgttcattgcctTgtttgggattctgtattctc	3	22	8	8	0	5	0	1	0	4	0	6	1	5	1	1	1	1	3	1	1	1	9	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	202590152	T	C	202590152	3	2	21	1	0	0	0	0	1	0	0	0	550	1821	63	3	1759	3	ALS2	2	202590152	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	61446576	202590152	40609221	6	1194											
OSBPL10	114884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	31774806	31774806	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtttggtaaaattgcccaGgttatgttggcactggctga	9	13	13	6	0	0	1	0	1	0	0	0	2	0	1	1	4	1	6	1	4	3	5	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	31774806	G	T	31774806	2	4	21	1	0	0	0	0	0	0	0	1	11275	987	35	4		4	OSBPL10	3	31774806	Silent	SNP	G	TCGA-A3-3370-01A-02D-1421-08		31774806	166247624	7	1195											
TBCK	93627	broad.mit.edu;hgsc.bcm.edu	37	chr4	107157650	107157650	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcagacaactcattattgCtgtttgaatgaggtaaatta	13	14	8	6	0	1	3	1	2	0	1	1	3	1	3	0	1	3	4	0	1	6	5	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	107157650	C	T	107157650	3	4	21	1	0	0	0	0	1	0	0	0	15635	797	28	2	1486	2	TBCK	4	107157650	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08		107157650	83996626	8	1196											
SLC25A4	291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	186066922	186066922	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtccacagggatgctgcCtgaccccaagaacgtgcaca	10	7	10	14	1	1	2	0	1	1	1	2	3	2	3	4	1	4	2	4	1	2	0	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	186066922	C	G	186066922	3	3	21	1	0	0	0	0	1	0	0	0	14506	681	24	4	618	4	SLC25A4	4	186066922	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08	78909272	186066922	5087354	9	1197											
SNX18	112574	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	53814577	53814577	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtggtgctggggccctaTggccccgagtggcaggagaa	6	7	18	10	2	0	1	0	0	0	1	0	3	0	1	3	6	2	2	3	6	2	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	53814577	T	A	53814577	4	1	21	1	0	0	0	0	0	1	0	0	14891	1471	51	5	797	5	SNX18	5	53814577	Nonsense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08		53814577	127100683	10	1198											
CRHBP	1393	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	76249908	76249908	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttcaccgccgaccggcCgcagctgcactgcgcagcct	6	5	10	20	5	1	0	1	0	0	0	1	1	1	0	6	1	4	4	6	1	0	1	rs79810800		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	76249908	C	T	76249908	3	4	21	1	0	0	0	0	1	0	0	0	3870	652	23	1	240	1	CRHBP	5	76249908	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08	22435331	76249908	104665352	11	1199											
SLC23A1	9963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138707793	138707793	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaaaatcctttgaagaCtgggcagataggaatgtatt	15	11	11	4	0	0	5	0	2	0	3	1	6	1	6	1	2	0	2	1	2	7	4	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	138707793	C	A	138707793	3	1	21	1	0	0	0	0	1	0	0	0	14464	565	20	4	101	4	SLC23A1	5	138707793	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08	62457885	138707793	42207467	12	1200											
PI16	221476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36922553	36922553	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccatgcacggctcctgcaGtttcctgatgcttctgctgc	5	12	9	15	1	1	1	0	1	1	0	3	1	3	1	3	1	5	6	3	1	0	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	36922553	G	T	36922553	3	4	21	1	0	0	0	0	1	0	0	0	11869	1029	36	4	19	4	PI16	6	36922553	Missense_Mutation	SNP	G	TCGA-A3-3370-01A-02D-1421-08		36922553	134192514	13	1201											
REPS1	85021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	139233902	139233902	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagccctcgaaaactgacCggcaggacttctggatgttt	10	9	10	12	2	1	1	0	1	1	0	2	4	1	3	3	3	2	2	3	3	3	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	139233902	C	T	139233902	2	4	21	1	0	0	0	0	0	0	0	1	13230	666	23	1		1	REPS1	6	139233902	Silent	SNP	C	TCGA-A3-3370-01A-02D-1421-08	102311349	139233902	31881165	14	1202											
DDC	1644	broad.mit.edu	37	chr7	50607651	50607651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaatggccccgcacagcaTgtccgcaagcatggccgggt	8	5	13	15	3	0	0	0	0	0	0	1	0	1	0	5	3	2	4	5	3	2	0	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	50607651	C	C	50607651	3	2	21	1	0	0	0	0	1	0	0	0	4325	1464	51	3	1213	3	DDC	7	50607651	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08		50607651	108531012	15	1203											
ABP1	26	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150554402	150554402	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacagaggagccgcccctcTtctcctcccacaagccccgc	7	5	8	21	2	2	1	0	0	2	1	4	2	3	2	7	1	2	1	7	1	1	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	150554402	T	C	150554402	3	2	21	1	0	0	0	0	1	0	0	0	98	1609	56	3	846	3	ABP1	7	150554402	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	99946751	150554402	8584261	16	1204											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151879304	151879304	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggacccaggtgaaaacaCttgcggtgagggtggctgag	11	6	17	7	1	0	4	0	3	0	1	0	5	0	5	1	5	2	1	1	5	2	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	151879304	C	G	151879304	3	3	21	1	0	0	0	0	1	0	0	0	9622	565	20	4	9190	4	MLL3	7	151879304	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08	1324902	151879304	7259359	17	1205											
MRPL15	29088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55055338	55055338	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacagccttctatgatccaaGaagtctgggtaagtttgttc	10	14	9	8	0	2	2	0	1	2	1	4	2	3	2	2	1	2	3	2	1	5	6	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	55055338	G	A	55055338	3	1	21	1	0	0	0	0	1	0	0	0	9780	942	33	2	559	2	MRPL15	8	55055338	Missense_Mutation	SNP	G	TCGA-A3-3370-01A-02D-1421-08		55055338	91308684	18	1206											
CAMSAP1	157922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138703212	138703212	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcttgggctgccacaggtgGttgtggattgtgagtgcgtc	4	12	17	8	2	0	1	0	1	0	0	1	2	0	2	1	4	2	3	1	4	0	3	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	138703212	G	A	138703212	2	1	21	1	0	0	0	0	0	0	0	1	2611	1252	44	2		2	CAMSAP1	9	138703212	Silent	SNP	G	TCGA-A3-3370-01A-02D-1421-08		138703212	2510219	19	1207											
RSU1	6251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	16737058	16737058	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggatatactcaaaaacaTgggacacgccaagctggaac	17	5	9	10	2	1	0	1	0	0	0	1	3	1	3	1	3	5	1	1	3	7	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	16737058	T	A	16737058	3	1	21	1	0	0	0	0	1	0	0	0	13718	1464	51	5	146	5	RSU1	10	16737058	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08		16737058	118797689	20	1208											
SORBS1	10580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97135759	97135759	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactccaattccgaaaagaAtttataccaaggttcattct	16	12	4	9	1	2	1	1	0	1	1	4	2	4	1	3	1	2	1	3	1	8	6	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	97135759	A	G	97135759	3	3	21	1	0	0	0	0	1	0	0	0	14929	101	4	3	2294	3	SORBS1	10	97135759	Missense_Mutation	SNP	A	TCGA-A3-3370-01A-02D-1421-08	80398701	97135759	38398988	21	1209											
COMMD9	29099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	36302301	36302301	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacagacaagctggaacaTgtaacatccaagagtttttt	14	11	8	8	0	1	2	1	0	0	2	2	3	2	3	1	1	3	3	1	1	4	4	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	36302301	T	G	36302301	2	3	21	1	0	0	0	0	0	0	0	1	3723	1451	51	5		5	COMMD9	11	36302301	Silent	SNP	T	TCGA-A3-3370-01A-02D-1421-08		36302301	98704215	22	1210											
BTG1	694	broad.mit.edu;hgsc.bcm.edu	37	chr12	92539272	92539272	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacacggcggcggcgatctCgcctatcatggtggcggccc	5	6	16	14	6	2	0	1	0	1	0	3	2	2	1	2	7	0	0	2	7	1	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	92539272	C	T	92539272	3	4	21	1	0	0	0	0	1	0	0	0	1553	893	31	1	483	1	BTG1	12	92539272	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08		92539272	41312623	23	1211											
POLE	5426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133220012	133220012	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggttccaggtagctgaaCtgggccagagagcgcatctc	8	8	13	12	1	1	2	0	1	1	1	3	3	2	2	3	3	3	4	3	3	2	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	133220012	C	G	133220012	3	3	21	1	0	0	0	0	1	0	0	0	12196	564	20	4	2499	4	POLE	12	133220012	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08	40680740	133220012	631883	24	1212											
OR4K1	79544	broad.mit.edu;hgsc.bcm.edu	37	chr14	20403973	20403973	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaattattgtcattattTcttttgactcccatttgaac	9	21	3	8	0	3	2	1	2	2	0	4	2	4	2	1	0	1	0	1	0	4	8	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	20403973	T	A	20403973	3	1	21	1	0	0	0	0	1	0	0	0	11067	1783	62	5	150	5	OR4K1	14	20403973	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08		20403973	86945567	25	1213											
OR4K1	79544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	20404157	20404157	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagttttgttgggagtgAgatgatgttgcttgtagcta	8	16	13	4	0	1	2	1	2	0	1	1	4	1	3	0	1	2	6	0	1	2	7	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	20404157	A	G	20404157	3	3	21	1	0	0	0	0	1	0	0	0	11067	304	11	3	334	3	OR4K1	14	20404157	Missense_Mutation	SNP	A	TCGA-A3-3370-01A-02D-1421-08	184	20404157	86945383	26	1214											
AMN	81693	broad.mit.edu	37	chr14	103394801	103394801	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcgtcctggcttcaggAgccggattcggcgtctcaga	7	9	13	12	4	2	1	2	0	1	1	6	4	3	3	2	4	2	1	2	4	1	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	103394801	T	T	103394801	2	4	21	1	0	0	0	0	0	0	0	1	580	291	11	5		5	AMN	14	103394801	Silent	SNP	A	TCGA-A3-3370-01A-02D-1421-08	82990644	103394801	3954739	27	1215											
AP4E1	23431	hgsc.bcm.edu;ucsc.edu	37	chr15	51276219	51276221	+	Frame_Shift_Del	DEL	TTC	TTC	-																															ttattattttaaaattctagTtctcaattttgaaccatatg																								novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		-	51276221	TTC	-	51276219	7	5	21	1	0	1	0	1	0	0	0	0	752	1739	60	0	2029	0	AP4E1	15	51276219	Frame_Shift_Del	DEL	TTC	TCGA-A3-3370-01A-02D-1421-08		51276219	51255173	28	1216											
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51837940	51837940	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccatcatgacatgaagttAacaacacattacagacagaa	19	7	5	10	0	1	4	1	2	0	2	1	4	1	4	1	0	3	1	1	0	5	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	51837940	A	C	51837940	4	2	21	1	0	0	0	0	0	1	0	0	4595	372	13	5	8487	5	DMXL2	15	51837940	Nonsense_Mutation	SNP	A	TCGA-A3-3370-01A-02D-1421-08	561721	51837940	50693452	29	1217											
LYSMD4	145748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	100269538	100269538	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaggcaagacaataccaatCagcagcatgatgaaaacagc	19	4	8	10	0	1	3	1	2	0	1	1	3	1	3	1	1	5	3	1	1	6	1	rs150607972		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	100269538	C	T	100269538	2	4	21	1	0	0	0	0	0	0	0	1	9127	813	29	2		2	LYSMD4	15	100269538	Silent	SNP	C	TCGA-A3-3370-01A-02D-1421-08	48431598	100269538	2261854	30	1218											
CACNG3	10368	broad.mit.edu;ucsc.edu	37	chr16	24268220	24268220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaaatctacaagtgataatGaaaccagcaggaagaatgaa	20	7	8	6	0	1	4	0	3	1	1	1	5	1	5	1	1	3	1	1	1	9	3	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	24268220	A	A	24268220	3	1	21	1	0	0	0	0	1	0	0	0	2558	1291	45	2	147	2	CACNG3	16	24268220	Missense_Mutation	SNP	G	TCGA-A3-3370-01A-02D-1421-08		24268220	66086533	31	1219											
NLRC5	84166	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57060312	57060312	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattgctccacccttgatagCttttggggccactcacagcc	7	12	8	14	0	1	1	1	1	0	0	2	1	2	1	4	2	3	2	4	2	2	6	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	57060312	C	G	57060312	3	3	21	1	0	0	0	0	1	0	0	0	10470	797	28	4	1471	4	NLRC5	16	57060312	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08	32792092	57060312	33294441	32	1220											
SLFN11	91607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33679558	33679558	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcacccaacatatcacaTgcatcactgagctgcaccac	13	8	5	15	0	3	2	3	2	0	0	3	2	3	2	2	0	4	3	2	0	2	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	33679558	T	C	33679558	2	2	21	1	0	0	0	0	0	0	0	1	14735	1451	51	3		3	SLFN11	17	33679558	Silent	SNP	T	TCGA-A3-3370-01A-02D-1421-08		33679558	47515652	33	1221											
AOC2	314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40997011	40997011	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgggaggcactggccaTcgtcctctttggtggacaac	6	9	13	13	2	1	0	0	0	1	0	3	2	2	2	3	5	2	1	3	5	1	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		C	40997011	T	C	40997011	3	2	21	1	0	0	0	0	1	0	0	0	727	1435	50	3	370	3	AOC2	17	40997011	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	7317453	40997011	40198199	34	1222											
CLTC	1213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57737836	57737836	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgatttggctctgagaatgGctgtacgtaataacttagcc	10	13	10	8	1	1	2	0	2	1	1	1	3	1	2	1	2	3	4	1	2	5	5	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	57737836	G	A	57737836	3	1	21	1	0	0	0	0	1	0	0	0	3566	1203	42	2	1080	2	CLTC	17	57737836	Missense_Mutation	SNP	G	TCGA-A3-3370-01A-02D-1421-08	16740825	57737836	23457374	35	1223											
CCDC40	55036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78059827	78059827	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagtggggcccctggagcTtgaaatcaaaaggctgagca	13	6	14	8	0	1	3	1	2	0	1	1	4	1	4	2	4	2	3	2	4	4	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	78059827	T	A	78059827	3	1	21	1	0	0	0	0	1	0	0	0	2812	1609	56	5	2315	5	CCDC40	17	78059827	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	20321991	78059827	3135383	36	1224											
PAX1	5075	broad.mit.edu	37	chr20	21690005	21690005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaaggtcctcctctggCgccccccggggccggcgtag	3	6	15	17	5	1	0	0	0	1	0	3	0	3	0	6	5	1	2	6	5	2	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		T	21690005	T	T	21690005	3	4	21	1	0	0	0	0	1	0	0	0	11478	768	27	1	1219	1	PAX1	20	21690005	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08		21690005	41335515	37	1225											
SLC2A10	81031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	45355557	45355557	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatacgaggaagagcctTcgccttctgcaacagcttca	11	8	11	11	2	2	2	1	0	1	2	3	5	2	3	2	2	5	2	2	2	3	4	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	45355557	T	A	45355557	3	1	21	1	0	0	0	0	1	0	0	0	14541	1783	62	5	1353	5	SLC2A10	20	45355557	Missense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	23665552	45355557	17669963	38	1226											
TIAM1	7074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	32638828	32638828	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccatgaaagtgggcccattgGatgtataggaatgctgcctc	10	10	12	9	0	0	1	0	1	0	0	1	3	0	3	3	3	2	2	3	3	4	3	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	32638828	G	A	32638828	3	1	21	1	0	0	0	0	1	0	0	0	15889	1174	41	2	4414	2	TIAM1	21	32638828	Missense_Mutation	SNP	G	TCGA-A3-3370-01A-02D-1421-08		32638828	15491067	39	1227											
SFRS15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33043798	33043798	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtaactcttcagaaggctTtaggactgcagcctcagaca	12	9	10	10	0	3	2	2	0	1	2	3	3	3	3	1	3	3	3	1	3	3	4	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	33043798	T	A	33043798	4	1	21	1	0	0	0	0	0	1	0	0	14173	1850	64	5	89	5	SFRS15	21	33043798	Nonsense_Mutation	SNP	T	TCGA-A3-3370-01A-02D-1421-08	404970	33043798	15086097	40	1228											
USP9X	8239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	41091721	41091721	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaactggccaacgagcaCaagaaaattatgaaggcagt	18	5	11	7	1	0	3	0	1	0	2	0	5	0	3	1	2	3	2	1	2	7	1	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		G	41091721	C	G	41091721	3	3	21	1	0	0	0	0	1	0	0	0	17089	479	17	4	7831	4	USP9X	23	41091721	Missense_Mutation	SNP	C	TCGA-A3-3370-01A-02D-1421-08		41091721	114178839	41	1229											
MSN	4478	broad.mit.edu	37	chrX	64958995	64958995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgctatggccaaggaccGcagtgaggaggaacgtacca	12	6	14	9	2	0	2	0	2	0	0	0	5	0	5	3	4	3	3	3	4	4	2	novel		TCGA-A3-3370-01A-02D-1421-08	TCGA-A3-3370-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	21ce7121-87b4-4686-9bf6-aff71d8b2223	969705aa-a77d-4084-a692-59819d33068e		A	64958995	A	A	64958995	3	1	21	1	0	0	0	0	1	0	0	0	9885	1087	38	1	1554	1	MSN	23	64958995	Missense_Mutation	SNP	G	TCGA-A3-3370-01A-02D-1421-08	23867274	64958995	90311565	42	1230											
GLTPD1	80772	hgsc.bcm.edu;ucsc.edu	37	chr1	1262701	1262701	+	Frame_Shift_Del	DEL	G	G	-																															gcggatcatggagcgcctcaGgggcggcccgcagagcgagc																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	1262701	G	-	1262701	7	5	22	1	0	1	0	1	0	0	0	0	6472	1000	35	0	209	0	GLTPD1	1	1262701	Frame_Shift_Del	DEL	G	TCGA-A3-3372-01A-01D-0966-08		1262701	247987920	1	1231											
GRIK3	2899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	37335385	37335385	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagtggtagtactcagtcatCatgcccatggccatggcctg	9	10	11	11	0	3	0	3	0	0	0	3	0	3	0	3	3	2	2	3	3	3	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	37335385	C	T	37335385	3	4	22	1	0	0	0	0	1	0	0	0	6775	826	29	2	2057	2	GRIK3	1	37335385	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	36072684	37335385	211915236	2	1232											
ASH1L	55870	broad.mit.edu;hgsc.bcm.edu	37	chr1	155491017	155491017	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctccaagttctttggaggTtttttagttctcttagcctg	5	20	8	8	0	3	0	0	0	3	0	5	1	3	1	2	2	1	3	2	2	3	8	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	155491017	T	C	155491017	2	2	22	1	0	0	0	0	0	0	0	1	1041	1722	60	3		3	ASH1L	1	155491017	Silent	SNP	T	TCGA-A3-3372-01A-01D-0966-08	118155632	155491017	93759604	3	1233											
PRELP	5549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203452939	203452939	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacaacaggctgagcgaCggcgtcttcaagcccgacac	11	4	11	15	4	2	1	1	1	1	0	2	3	2	1	1	2	4	2	1	2	2	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	203452939	C	T	203452939	2	4	22	1	0	0	0	0	0	0	0	1	12475	535	19	1		1	PRELP	1	203452939	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08	47961922	203452939	45797682	4	1234											
PCNXL2	80003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	233386509	233386509	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgagagagacagtcattaTttgatggtagaggctgtaaa	13	11	12	5	0	1	4	1	2	0	3	1	6	1	4	1	2	0	3	1	2	4	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	233386509	T	C	233386509	3	2	22	1	0	0	0	0	1	0	0	0	11592	1493	52	3	4323	3	PCNXL2	1	233386509	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08	29933570	233386509	15864112	5	1235											
ITGB1BP1	9270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	9548243	9548243	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataaattatattacttacaTattgatctgatgttgatact	15	18	4	4	0	1	3	0	3	1	0	1	3	1	3	0	0	3	1	0	0	9	9	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	9548243	T	C	9548243	3	2	22	1	0	0	0	0	1	0	0	0	7891	1420	49	3	234	3	ITGB1BP1	2	9548243	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08		9548243	233651130	6	1236											
WDR35	57539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20162080	20162080	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccaaatgtctccatctcGttctcctcctttgaagcaat	9	13	5	14	1	3	1	0	1	3	0	7	1	4	1	4	0	1	3	4	0	3	2	rs142103808		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	20162080	G	A	20162080	2	1	22	1	0	0	0	0	0	0	0	1	17288	1136	40	1		1	WDR35	2	20162080	Silent	SNP	G	TCGA-A3-3372-01A-01D-0966-08	10613837	20162080	223037293	7	1237											
C2orf55	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	99448880	99448880	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcctgggcagcccgtcGtcctcagagctcatgccggc	4	7	14	16	3	2	1	2	0	0	1	5	1	4	1	4	3	3	3	4	3	0	0	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	99448880	G	A	99448880	2	1	22	1	0	0	0	0	0	0	0	1	2176	1136	40	1		1	C2orf55	2	99448880	Silent	SNP	G	TCGA-A3-3372-01A-01D-0966-08	79286800	99448880	143750493	8	1238											
FASTKD1	79675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170416921	170416921	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttcttcaggtcctgcaAtgggtcccaatgctacaaac	9	13	7	12	0	3	0	1	0	2	0	5	0	5	0	2	2	4	2	2	2	4	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	170416921	A	G	170416921	3	3	22	1	0	0	0	0	1	0	0	0	5685	101	4	3	1640	3	FASTKD1	2	170416921	Missense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08	70968041	170416921	72782452	9	1239											
BMPR2	659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	203421005	203421005	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgagcctttactgagaCgagagcaacaagctggccat	13	7	11	10	1	0	3	0	2	0	2	0	5	0	3	2	1	6	3	2	1	3	2	rs137852748		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	203421005	C	T	203421005	4	4	22	1	0	0	0	0	0	1	0	0	1471	528	19	1	2663	1	BMPR2	2	203421005	Nonsense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	33004084	203421005	39778368	10	1240											
SPAG16	79582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	214239769	214239769	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagaaaatgcaccagaaGgtcctactcagaaaggtctt	18	7	8	8	0	2	3	1	0	1	3	3	3	3	3	2	2	2	1	2	2	7	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	214239769	G	A	214239769	3	1	22	1	0	0	0	0	1	0	0	0	14980	1000	35	2	918	2	SPAG16	2	214239769	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	10818764	214239769	28959604	11	1241											
IRS1	3667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	227662870	227662870	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgcctccgagttcagcttCacgaagctgatggtcttgct	6	12	11	12	2	3	1	2	1	1	0	4	3	4	1	2	1	4	5	2	1	1	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	227662870	C	T	227662870	2	4	22	1	0	0	0	0	0	0	0	1	7840	813	29	2		2	IRS1	2	227662870	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08	13423101	227662870	15536503	12	1242											
CYP8B1	1582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42915969	42915969	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagagcttcacctcactgAgtgcaaagaacctcccaggg	13	7	9	12	0	2	3	2	1	0	2	3	3	3	3	3	1	3	2	3	1	4	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	42915969	A	T	42915969	3	4	22	1	0	0	0	0	1	0	0	0	4198	304	11	5	169	5	CYP8B1	3	42915969	Missense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08		42915969	155106461	13	1243											
KIF15	56992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	44816791	44816791	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgcgaattcgtcctccTgcagaaagatctgggtcagc	8	12	11	10	2	2	2	1	0	1	2	5	3	4	2	2	1	3	1	2	1	2	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	44816791	T	C	44816791	2	2	22	1	0	0	0	0	0	0	0	1	8277	1567	55	3		3	KIF15	3	44816791	Silent	SNP	T	TCGA-A3-3372-01A-01D-0966-08	1900822	44816791	153205639	14	1244											
COL7A1	1294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48607732	48607732	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctggctccccacgctcGcctcggggcccaggcagccc	4	5	12	20	3	0	0	0	0	0	0	3	0	1	0	6	4	2	3	6	4	0	0	rs142651194	byfrequency	TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	48607732	G	A	48607732	2	1	22	1	0	0	0	0	0	0	0	1	3704	1074	38	1		1	COL7A1	3	48607732	Silent	SNP	G	TCGA-A3-3372-01A-01D-0966-08	3790941	48607732	149414698	15	1245											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52651419	52651419	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attggctccaagatgattttAtaataatcaggatagtcctt	13	15	7	6	0	1	2	1	1	0	1	3	3	3	3	2	2	0	1	2	2	5	7	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	52651419	A	T	52651419	4	4	22	1	0	0	0	0	0	1	0	0	11491	456	16	5	3291	5	PBRM1	3	52651419	Nonsense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08	4043687	52651419	145371011	16	1246											
CCNL1	57018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	156867954	156867954	+	Frame_Shift_Del	DEL	G	G	-																															aatggggacgagttggcaacGgaatctaaaccataagaaca																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	156867954	G	-	156867954	7	5	22	1	0	1	0	1	0	0	0	0	2931	1116	39	0	821	0	CCNL1	3	156867954	Frame_Shift_Del	DEL	G	TCGA-A3-3372-01A-01D-0966-08	104216535	156867954	41154476	17	1247											
ENAM	10117	hgsc.bcm.edu;ucsc.edu	37	chr4	71500242	71500242	+	Frame_Shift_Del	DEL	C	C	-																															gcggcctttgaagcagccatCacataatcaacctcagcccg																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	71500242	C	-	71500242	7	5	22	1	0	1	0	1	0	0	0	0	5112	838	29	0	446	0	ENAM	4	71500242	Frame_Shift_Del	DEL	C	TCGA-A3-3372-01A-01D-0966-08		71500242	119654034	18	1248											
C4orf37	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99049685	99049685	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaccatatgactttccaCaagaaggaattgaaggaaca	18	8	8	7	0	0	3	0	2	0	1	1	6	1	5	2	2	2	0	2	2	7	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	99049685	C	A	99049685	3	1	22	1	0	0	0	0	1	0	0	0	2267	478	17	4	1134	4	C4orf37	4	99049685	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	27549443	99049685	92104591	19	1249											
GPM6A	2823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	176622807	176622807	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgacagttccagaaagcGcttcatgaccgcagccacag	11	8	10	12	2	1	3	1	2	0	1	2	3	2	3	3	0	2	4	3	0	1	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	176622807	G	A	176622807	3	1	22	1	0	0	0	0	1	0	0	0	6615	1087	38	1	711	1	GPM6A	4	176622807	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	77573122	176622807	14531469	20	1250											
RNF180	285671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	63509694	63509694	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctggaagattaacagaaGcactctgcctggaggtgcga	12	7	12	10	1	1	2	0	0	1	2	1	5	1	4	2	3	4	1	2	3	3	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	63509694	G	T	63509694	3	4	22	1	0	0	0	0	1	0	0	0	13466	971	34	4	551	4	RNF180	5	63509694	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08		63509694	117405566	21	1251											
CMYA5	202333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79031741	79031741	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgatgtagtagataaggtgCcacaacagccaaaatcagct	15	9	9	8	0	1	2	1	1	0	1	1	2	1	2	2	1	4	3	2	1	6	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	79031741	C	T	79031741	3	4	22	1	0	0	0	0	1	0	0	0	3590	739	26	2	7159	2	CMYA5	5	79031741	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	15522047	79031741	101883519	22	1252											
PCDHGA11	56105	broad.mit.edu;hgsc.bcm.edu	37	chr5	140802703	140802703	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgcgggcactgctggacagaGacgcgctcaagcagagcctc	9	4	14	14	4	1	2	1	0	0	2	2	4	1	3	1	2	3	4	1	2	1	0	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	140802703	G	C	140802703	3	2	22	1	0	0	0	0	1	0	0	0	11552	942	33	4	1911	4	PCDHGA11	5	140802703	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	61770962	140802703	40112557	23	1253											
FAM50B	26240	broad.mit.edu	37	chr6	3850384	3850384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcagcggcgcgagcgCaagcgtaagatctcctgcct	9	5	14	13	5	1	1	0	0	1	1	2	3	1	2	2	2	5	3	2	2	2	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	3850384	T	T	3850384	2	4	22	1	0	0	0	0	0	0	0	1	5578	697	25	2		2	FAM50B	6	3850384	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08		3850384	167264683	24	1254											
BTN1A1	696	hgsc.bcm.edu	37	chr6	26509395	26509395	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccaacccagccaaggggCaccttaaggaatatctcagc	13	6	8	14	0	1	0	1	0	1	0	2	1	1	1	4	3	4	1	4	3	6	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	26509395	C	T	26509395	3	4	22	1	0	0	0	0	1	0	0	0	1559	710	25	2	1600	2	BTN1A1	6	26509395	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	22659011	26509395	144605672	25	1255											
GABBR1	2550	broad.mit.edu;hgsc.bcm.edu	37	chr6	29573438	29573438	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataagcaaggaagattcccaGcagcagcagcagccccttgt	13	6	10	12	0	0	1	0	0	0	1	1	2	1	2	3	1	6	5	3	1	3	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	29573438	G	T	29573438	3	4	22	1	0	0	0	0	1	0	0	0	6155	962	34	4	554	4	GABBR1	6	29573438	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	3064043	29573438	141541629	26	1256											
PBX2	5089	broad.mit.edu	37	chr6	32156550	32156550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaagagagcaggcttcattCggtggcagtttagggcgtgt	9	11	15	6	2	1	1	1	0	0	1	2	2	1	1	0	4	1	4	0	4	3	5	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	32156550	T	T	32156550	3	4	22	1	0	0	0	0	1	0	0	0	11493	884	31	1	1079	1	PBX2	6	32156550	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	2583112	32156550	138958517	27	1257											
RGL2	5863	broad.mit.edu;hgsc.bcm.edu	37	chr6	33259865	33259865	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accatgacttctgtaagccaAcggggcttcctcctcagaac	10	9	8	14	1	2	2	1	1	1	1	4	2	4	2	4	2	3	2	4	2	3	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	33259865	A	G	33259865	1	3	22	0	1	0	0	0	0	0	0	0	13279	58	2	3		3	RGL2	6	33259865	RNA	SNP	A	TCGA-A3-3372-01A-01D-0966-08	1103315	33259865	137855202	28	1258											
MOCS1	4337	hgsc.bcm.edu	37	chr6	39895285	39895285	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccccctcccttactctGacatctgtgcggagcttcca	5	11	7	18	1	2	1	0	1	2	0	4	2	4	2	5	1	4	1	5	1	1	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	39895285	G	T	39895285	2	4	22	1	0	0	0	0	0	0	0	1	9690	1277	45	4		4	MOCS1	6	39895285	Silent	SNP	G	TCGA-A3-3372-01A-01D-0966-08	6635420	39895285	131219782	29	1259											
PLA2G7	7941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46684241	46684241	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcgatcattatcttgggatgGataatataaacgcaagaagg	15	10	11	5	2	2	1	1	0	1	1	2	4	2	3	0	3	1	1	0	3	7	5	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	46684241	G	C	46684241	3	2	22	1	0	0	0	0	1	0	0	0	12009	1174	41	4	1105	4	PLA2G7	6	46684241	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	6788956	46684241	124430826	30	1260											
LAMA2	3908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	129799907	129799907	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcaagaactccgtacaaTatactcagtagtcccgatta	14	12	5	10	2	2	1	2	0	0	1	4	2	4	1	2	0	3	2	2	0	8	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	129799907	T	C	129799907	2	2	22	1	0	0	0	0	0	0	0	1	8606	1403	49	3		3	LAMA2	6	129799907	Silent	SNP	T	TCGA-A3-3372-01A-01D-0966-08	83115666	129799907	41315160	31	1261											
TNRC18	84629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5391579	5391579	+	Missense_Mutation	SNP	C	C	A																															agtccggggggccgccaggcCcctcttggtcagcttggggc																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	5391579	C	A	5391579	3	1	22	1	0	0	0	0	1	0	0	0	16338	623	22	4	3621	4	TNRC18	7	5391579	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		5391579	153747084	32	1262	18	2									
TNRC18	84629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5391580	5391580	+	Missense_Mutation	SNP	C	C	A																															gtccggggggccgccaggccCctcttggtcagcttggggcc																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	5391580	C	A	5391580	3	1	22	1	0	0	0	0	1	0	0	0	16338	622	22	4	3622	4	TNRC18	7	5391580	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	1	5391580	153747083	33	1263	18	2									
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82430893	82430893	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaggctcttgtccattcTgtcccatcttccctctgttt	4	18	5	14	0	4	0	0	0	4	0	7	0	7	0	3	1	1	2	3	1	1	5	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	82430893	T	A	82430893	3	1	22	1	0	0	0	0	1	0	0	0	11583	1580	55	5	496	5	PCLO	7	82430893	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08	77039313	82430893	76707770	34	1264											
MUC17	140453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100685938	100685938	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccatgtctgtgtcaatGcccatggaaataagcaccct	12	9	7	13	0	2	0	1	0	1	0	2	1	2	1	4	1	2	1	4	1	3	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	100685938	G	T	100685938	3	4	22	1	0	0	0	0	1	0	0	0	9974	1319	46	4	11251	4	MUC17	7	100685938	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	18255045	100685938	58452725	35	1265											
RBM33	155435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	155473515	155473515	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttgacagaagaccaaatAgaatatgtggaagagccaga	18	6	12	5	0	0	6	0	1	0	5	0	8	0	7	2	1	1	1	2	1	6	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	155473515	A	T	155473515	2	4	22	1	0	0	0	0	0	0	0	1	13132	410	15	5		5	RBM33	7	155473515	Silent	SNP	A	TCGA-A3-3372-01A-01D-0966-08	54787577	155473515	3665148	36	1266											
ZDHHC2	51201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17067943	17067943	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttgccttgttaaccaggatCctgaacaagcatctactcct	10	12	6	13	0	1	1	0	1	1	0	3	2	3	2	4	1	5	2	4	1	4	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	17067943	C	T	17067943	3	4	22	1	0	0	0	0	1	0	0	0	17609	855	30	2	942	2	ZDHHC2	8	17067943	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		17067943	129296079	37	1267											
NBN	4683	broad.mit.edu;ucsc.edu	37	chr8	90955480	90955481	+	Splice_Site	DEL	CC	-	-																															tgggcctcacttcctactaaCctccatttcctgccttagcc																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	90955481	-	-	90955480	8	5	22	1	0	1	0	1	0	0	1	0	10191	521	18	0	91	0	NBN	8	90955480	Splice_Site	DEL	CC	TCGA-A3-3372-01A-01D-0966-08	73887537	90955480	55408542	38	1268											
FAM120AOS	158293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	96209937	96209937	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgttggtggttttgtggTtttctttgagactttgttat	4	23	12	2	0	1	1	0	1	1	1	1	2	1	1	0	3	0	4	0	3	2	9	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	96209937	T	G	96209937	3	3	22	1	0	0	0	0	1	0	0	0	5416	1725	60	5	47	5	FAM120AOS	9	96209937	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08		96209937	45003494	39	1269											
ABLIM1	3983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	116201492	116201492	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcttacccggtgaagccCatttcttccatagccaggga	11	10	8	12	1	2	1	0	1	2	0	3	2	3	2	4	2	3	0	4	2	4	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	116201492	C	A	116201492	3	1	22	1	0	0	0	0	1	0	0	0	94	594	21	4	369	4	ABLIM1	10	116201492	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		116201492	19333255	40	1270											
SPTY2D1	144108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18636763	18636763	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggggtgaccatgggcccaGgcctggaatggctaggatgg	7	7	19	8	0	0	1	0	1	0	0	0	3	0	3	3	8	0	1	3	8	2	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	18636763	G	A	18636763	3	1	22	1	0	0	0	0	1	0	0	0	15127	1000	35	2	1015	2	SPTY2D1	11	18636763	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08		18636763	116369753	41	1271											
TTC17	55761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	43429097	43429097	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgatgccactaagctgctActtcaagctttggccatcaa	10	12	7	12	0	2	1	2	1	0	0	2	1	2	1	2	1	5	3	2	1	4	5	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	43429097	A	G	43429097	2	3	22	1	0	0	0	0	0	0	0	1	16683	378	14	3		3	TTC17	11	43429097	Silent	SNP	A	TCGA-A3-3372-01A-01D-0966-08	24792334	43429097	91577419	42	1272											
OR4P4	81300	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55405910	55405910	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacattgaagtcctctgctTtgtattatttttgttttgct	7	21	7	6	0	1	1	0	1	1	0	2	2	2	1	1	0	3	4	1	0	4	8	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	55405910	T	C	55405910	3	2	22	1	0	0	0	0	1	0	0	0	11080	1841	64	3	79	3	OR4P4	11	55405910	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08	11976813	55405910	79600606	43	1273											
MS4A7	58475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60150630	60150630	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcatgctattacaatccCaaaccatgggggtttctcac	11	11	7	12	0	2	0	2	0	1	0	4	0	3	0	2	2	3	3	2	2	4	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	60150630	C	A	60150630	3	1	22	1	0	0	0	0	1	0	0	0	9866	595	21	4	18	4	MS4A7	11	60150630	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	4744720	60150630	74855886	44	1274											
PEX5	5830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7360264	7360264	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcttgtaggggtaccagTttgaggaggagaaccccttg	8	13	13	7	0	1	2	0	1	1	1	1	4	1	3	3	4	2	3	3	4	3	7	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	7360264	T	G	7360264	3	3	22	1	0	0	0	0	1	0	0	0	11748	1725	60	5	1059	5	PEX5	12	7360264	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08		7360264	126491631	45	1275											
ANO6	196527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	45810629	45810629	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaccagagaaagcccaagAcattggagcatggcagccca	14	4	12	11	0	0	2	0	0	0	2	0	4	0	3	3	3	4	3	3	3	3	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	45810629	A	G	45810629	3	3	22	1	0	0	0	0	1	0	0	0	701	275	10	3	2245	3	ANO6	12	45810629	Missense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08	38450365	45810629	88041266	46	1276											
TBX3	6926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	115117393	115117393	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtactataagggagtttcaAgatgtcattggctcttacaa	12	14	9	6	0	3	1	2	0	1	1	3	2	3	2	0	2	2	3	0	2	6	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	115117393	A	G	115117393	2	3	22	1	0	0	0	0	0	0	0	1	15658	69	3	3		3	TBX3	12	115117393	Silent	SNP	A	TCGA-A3-3372-01A-01D-0966-08	69306764	115117393	18734502	47	1277											
ATP12A	479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25272913	25272913	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatcaacggcgaggagcacCcactggacaagagcactgcc	12	4	12	13	2	1	2	1	1	0	1	1	5	1	4	2	3	4	2	2	3	2	0	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	25272913	C	T	25272913	3	4	22	1	0	0	0	0	1	0	0	0	1122	623	22	2	1694	2	ATP12A	13	25272913	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		25272913	89896965	48	1278											
TRPC4	7223	broad.mit.edu;ucsc.edu	37	chr13	38320157	38320157	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgagactattgtcatctcGgtaattaagaatgatttcca	13	15	7	6	1	2	3	1	2	1	2	4	4	3	3	1	1	0	1	1	1	5	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	38320157	T	T	38320157	2	4	22	1	0	0	0	0	0	0	0	1	16579	1124	39	4		4	TRPC4	13	38320157	Silent	SNP	G	TCGA-A3-3372-01A-01D-0966-08	13047244	38320157	76849721	49	1279											
MYCBP2	23077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	77835374	77835374	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccatcttctgcaactaaaAgggcgtgagagccatcgtgt	10	10	10	11	2	2	1	0	1	2	1	4	2	3	1	2	1	3	1	2	1	3	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	77835374	A	T	77835374	3	4	22	1	0	0	0	0	1	0	0	0	10018	72	3	5	12540	5	MYCBP2	13	77835374	Missense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08	39515217	77835374	37334504	50	1280											
HECTD1	25831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31576011	31576011	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcttttaaaaatctggctCtgtgtgggtttactaattca	9	19	7	6	0	4	0	1	0	3	0	4	0	4	0	0	2	1	2	0	2	5	7	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	31576011	C	T	31576011	3	4	22	1	0	0	0	0	1	0	0	0	7039	913	32	2	789	2	HECTD1	14	31576011	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		31576011	75773529	51	1281											
LRFN5	145581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	42356025	42356025	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaattttgttacaaataTtaaaaggaaagattttgcca	18	13	6	4	0	0	2	0	0	0	2	0	3	0	3	1	1	2	1	1	1	7	7	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	42356025	T	G	42356025	3	3	22	1	0	0	0	0	1	0	0	0	8941	1493	52	5	199	5	LRFN5	14	42356025	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08	10780014	42356025	64993515	52	1282											
BTBD7	55727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	93761005	93761005	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtccgggcttctggtctagCcaaactggcttgtagagaaa	9	11	12	9	1	2	1	0	0	2	1	3	2	3	1	2	3	2	3	2	3	4	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	93761005	C	A	93761005	3	1	22	1	0	0	0	0	1	0	0	0	1546	739	26	4	3148	4	BTBD7	14	93761005	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	51404980	93761005	13588535	53	1283											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105415541	105415541	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcccttgaggtccacttTgggcatcttcaaactgggca	7	10	13	11	0	2	1	1	1	1	0	3	1	3	1	2	5	1	2	2	5	1	3	rs150617757	by1000genomes	TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	105415541	T	C	105415541	3	2	22	1	0	0	0	0	1	0	0	0	415	1821	63	3	11144	3	AHNAK2	14	105415541	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08	11654536	105415541	1933999	54	1284											
MAP1A	4130	hgsc.bcm.edu	37	chr15	43816122	43816123	+	Frame_Shift_Ins	INS	-	-	G																															accccactaacatagtggctINSgcccctttggctgaagagga																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	43816123	-	G	43816122	7	5	22	1	0	1	1	0	0	0	0	0	9227	1567	55	0	2453	0	MAP1A	15	43816122	Frame_Shift_Ins	INS	-	TCGA-A3-3372-01A-01D-0966-08		43816122	58715270	55	1285											
SPG11	80208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	44858475	44858475	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccttcagcagcagttgtttCagctggtgcccatccttgag	6	12	11	12	0	2	1	2	1	0	0	3	1	3	1	3	1	4	5	3	1	0	4	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	44858475	C	T	44858475	2	4	22	1	0	0	0	0	0	0	0	1	15042	813	29	2		2	SPG11	15	44858475	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08	1042353	44858475	57672917	56	1286											
RORA	6095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	60789779	60789779	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattagcttttctgtatgtcGtccacataaggctcttaagg	9	15	8	9	1	2	0	0	0	2	0	4	0	3	0	1	2	1	3	1	2	4	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	60789779	G	A	60789779	4	1	22	1	0	0	0	0	0	1	0	0	13530	1153	40	1	128	1	RORA	15	60789779	Nonsense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	15931304	60789779	41741613	57	1287											
VPS13C	54832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	62241747	62241747	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcagcagatgataaaaaatCcatgaaggaaagtaaagctt	20	7	9	5	0	0	3	0	2	0	1	1	4	1	4	1	1	3	4	1	1	7	3	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	62241747	C	T	62241747	3	4	22	1	0	0	0	0	1	0	0	0	17190	855	30	2	6811	2	VPS13C	15	62241747	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	1451968	62241747	40289645	58	1288											
CPNE7	27132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89657453	89657453	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaatttcaaccctgaggaCgatgagtgtgaaggtaggag	13	9	13	6	1	2	3	2	3	0	0	2	6	2	5	1	3	1	1	1	3	4	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	89657453	C	A	89657453	3	1	22	1	0	0	0	0	1	0	0	0	3817	535	19	4	1434	4	CPNE7	16	89657453	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		89657453	697300	59	1289											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11650990	11650990	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacctatcagatcatgaaaCggcgccccgtctggactgac	11	7	10	13	3	3	4	2	2	1	2	3	5	3	5	3	2	1	0	3	2	2	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	11650990	C	T	11650990	3	4	22	1	0	0	0	0	1	0	0	0	4608	527	19	1	6643	1	DNAH9	17	11650990	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		11650990	69544220	60	1290											
LRRC37B	114659	broad.mit.edu	37	chr17	30357718	30357718	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatattgaaagacaaacaTttgaatcactaccatttttg	16	14	5	6	0	1	3	1	2	0	1	1	4	1	3	1	0	2	0	1	0	6	7	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	30357718	G	G	30357718	3	3	22	1	0	0	0	0	1	0	0	0	8994	1493	52	5	1881	5	LRRC37B	17	30357718	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08	18706728	30357718	50837492	61	1291											
AMAC1	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	33520557	33520557	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcgaggatccccactgccCccacacaactccaactcagg	11	4	8	18	1	1	0	1	0	0	0	3	2	3	1	5	3	3	0	5	3	2	0	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	33520557	C	T	33520557	3	4	22	1	0	0	0	0	1	0	0	0	559	623	22	2	250	2	AMAC1	17	33520557	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	3162839	33520557	47674653	62	1292											
BECN1	8678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40970428	40970428	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgctctaagatctccaaaCagcgtctgccaaagacacag	13	9	7	12	1	3	2	0	0	3	2	4	2	3	2	2	0	4	1	2	0	3	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	40970428	C	A	40970428	3	1	22	1	0	0	0	0	1	0	0	0	1396	478	17	4	882	4	BECN1	17	40970428	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	7449871	40970428	40224782	63	1293											
SAMD14	201191	broad.mit.edu;ucsc.edu	37	chr17	48195543	48195543	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgcctccgggcccatcCgagccttcaccatcctccgc	5	8	7	21	3	1	0	1	0	0	0	5	1	5	0	9	1	2	0	9	1	0	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	48195543	T	T	48195543	2	4	22	1	0	0	0	0	0	0	0	1	13821	639	23	1		1	SAMD14	17	48195543	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08	7225115	48195543	32999667	64	1294											
DTNA	1837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	32405233	32405233	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttcgctgccaaaagtgAtacttggtaagtagtgcagt	11	13	10	7	1	1	1	0	1	1	0	2	1	1	1	1	1	3	4	1	1	5	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	32405233	A	T	32405233	3	4	22	1	0	0	0	0	1	0	0	0	4788	333	12	5	1038	5	DTNA	18	32405233	Missense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08		32405233	45672015	65	1295											
SKA1	220134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47906545	47906545	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaaataggagatgagatCattgtaataaatgaacttct	19	12	7	3	0	2	3	1	2	1	2	2	5	2	3	0	1	1	1	0	1	8	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	47906545	C	A	47906545	2	1	22	1	0	0	0	0	0	0	0	1	14354	816	29	4		4	SKA1	18	47906545	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08	15501312	47906545	30170703	66	1296											
NETO1	81832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	70417575	70417575	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgcatttggaagatgacctCcgcagtttatggtaattttc	10	15	9	7	1	0	2	0	1	0	1	2	3	1	3	2	2	1	4	2	2	3	6	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	70417575	C	T	70417575	2	4	22	1	0	0	0	0	0	0	0	1	10339	842	30	2		2	NETO1	18	70417575	Silent	SNP	C	TCGA-A3-3372-01A-01D-0966-08	22511030	70417575	7659673	67	1297											
LSM7	51690	broad.mit.edu;hgsc.bcm.edu	37	chr19	2321719	2321719	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggggttggggatggccTccatgccgtcctgcgggcag	5	8	18	10	2	0	1	0	1	0	0	2	2	2	2	4	6	2	2	4	6	1	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	2321719	T	A	2321719	3	1	22	1	0	0	0	0	1	0	0	0	9061	1551	54	5	43	5	LSM7	19	2321719	Missense_Mutation	SNP	T	TCGA-A3-3372-01A-01D-0966-08		2321719	56807264	68	1298											
FUT6	2528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5832203	5832203	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccatcgctgcccctgccGcctcggggagcgtgggagct	4	7	15	15	4	0	0	0	0	0	0	3	3	1	2	5	3	4	2	5	3	0	0	rs111589452	byfrequency	TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	5832203	G	A	5832203	3	1	22	1	0	0	0	0	1	0	0	0	6108	1086	38	1	707	1	FUT6	19	5832203	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	3510484	5832203	53296780	69	1299											
PNPLA6	10908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7605595	7605595	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcatcctggatgtcatcaCcgtgagtgaccagtttctga	9	11	10	11	1	3	3	2	3	1	0	4	4	4	4	3	1	1	2	3	1	0	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		G	7605595	C	G	7605595	3	3	22	1	0	0	0	0	1	0	0	0	12169	521	18	4	847	4	PNPLA6	19	7605595	Missense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08	1773392	7605595	51523388	70	1300											
OR7D2	162998	hgsc.bcm.edu;ucsc.edu	37	chr19	9297034	9297034	+	Frame_Shift_Del	DEL	T	T	-																															agctggcctgctctgataccTtcctgaacagcacgttgata																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	9297034	T	-	9297034	7	5	22	1	0	1	0	1	0	0	0	0	11219	1609	56	0	579	0	OR7D2	19	9297034	Frame_Shift_Del	DEL	T	TCGA-A3-3372-01A-01D-0966-08	1691439	9297034	49831949	71	1301											
TMEM145	284339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42820894	42820894	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggattcacggtgacacggTgcccgggcagggcgtgctcg	6	6	18	11	5	1	1	1	1	0	0	2	2	1	2	1	5	2	2	1	5	0	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	42820894	T	C	42820894	5	2	22	1	0	0	0	0	0	0	1	0	16058	1710	59	3	846	3	TMEM145	19	42820894	Splice_Site	SNP	T	TCGA-A3-3372-01A-01D-0966-08	33523860	42820894	16308089	72	1302											
BCL3	602	hgsc.bcm.edu;ucsc.edu	37	chr19	45262806	45262807	+	Frame_Shift_Del	DEL	CT	CT	-																															tctccacccgccttcctgccCtttgctggggtcctccgagg																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	45262807	CT	-	45262806	7	5	22	1	0	1	0	1	0	0	0	0	1375	668	24	0	1333	0	BCL3	19	45262806	Frame_Shift_Del	DEL	CT	TCGA-A3-3372-01A-01D-0966-08	2441912	45262806	13866177	73	1303											
NLRP8	126205	hgsc.bcm.edu;ucsc.edu	37	chr19	56487556	56487557	+	Frame_Shift_Ins	INS	-	-	A																															atatgatctctgcgctctgtINSaaaaataaaaccctgaaaag																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		A	56487557	-	A	56487556	7	5	22	1	0	1	1	0	0	0	0	0	10483	1644	57	0	2793	0	NLRP8	19	56487556	Frame_Shift_Ins	INS	-	TCGA-A3-3372-01A-01D-0966-08	11224750	56487556	2641427	74	1304											
KIF16B	55614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	16509021	16509021	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtcatgacttgcctttaAgtttgtgattgtcgttttgc	6	18	10	7	1	1	2	1	2	0	0	2	2	1	2	1	1	2	2	1	1	1	7	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		C	16509021	A	C	16509021	3	2	22	1	0	0	0	0	1	0	0	0	8278	69	3	5	3941	5	KIF16B	20	16509021	Missense_Mutation	SNP	A	TCGA-A3-3372-01A-01D-0966-08		16509021	46516499	75	1305											
AIRE	326	hgsc.bcm.edu	37	chr21	45711063	45711075	+	Frame_Shift_Del	DEL	GCCTGTCCCCTCC	GCCTGTCCCCTCC	-																															tcgggccttccacctggcctGcctgtcccctccgctccggg																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	GCCTGTCCCCTCC	GCCTGTCCCCTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	45711075	GCCTGTCCCCTCC	-	45711063	7	5	22	1	0	1	0	1	0	0	0	0	437	1319	46	0	1283	0	AIRE	21	45711063	Frame_Shift_Del	DEL	GCCTGTCCCCTCC	TCGA-A3-3372-01A-01D-0966-08		45711063	2418832	76	1306											
COL6A1	1291	hgsc.bcm.edu;ucsc.edu	37	chr21	47402547	47402549	+	Frame_Shift_Del	DEL	GAC	GAC	-																															ctctcctccatcttcggccaGactgccccgtggacctgttc																								novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	GAC	GAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		-	47402549	GAC	-	47402547	7	5	22	1	0	1	0	1	0	0	0	0	3699	956	33	0	103	0	COL6A1	21	47402547	Frame_Shift_Del	DEL	GAC	TCGA-A3-3372-01A-01D-0966-08	1691484	47402547	727348	77	1307											
NYX	60506	broad.mit.edu	37	chrX	41307152	41307152	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgggtggatgaaaggcCgagggatgttggtcctgctt	7	10	16	8	1	0	1	0	1	0	0	1	4	1	3	3	5	1	2	3	5	1	2	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	41307152	T	T	41307152	4	4	22	1	0	0	0	0	0	1	0	0	10797	644	23	1	12	1	NYX	23	41307152	Nonsense_Mutation	SNP	C	TCGA-A3-3372-01A-01D-0966-08		41307152	113963408	78	1308											
EDA	1896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	69255287	69255287	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcctgcagtgcacacgcaGcatcgagacgggcaagacca	11	5	11	14	3	0	2	0	0	0	2	2	3	1	2	2	1	3	5	2	1	1	1	novel		TCGA-A3-3372-01A-01D-0966-08	TCGA-A3-3372-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f9f50073-a1d3-4c52-be78-529bd05cbce4	eabe41f2-bf96-48bd-98c1-9a001b92bf85		T	69255287	G	T	69255287	3	4	22	1	0	0	0	0	1	0	0	0	4903	971	34	4	1170	4	EDA	23	69255287	Missense_Mutation	SNP	G	TCGA-A3-3372-01A-01D-0966-08	27948135	69255287	86015273	79	1309											
CD101	9398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	117564261	117564261	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaactccaacactgataTagaatgtagcatcttgtccc	13	11	5	12	0	2	2	1	1	1	1	4	2	4	2	2	0	3	2	2	0	6	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	117564261	T	C	117564261	3	2	23	1	0	0	0	0	1	0	0	0	2962	1406	49	3	2110	3	CD101	1	117564261	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08		117564261	131686360	1	1310											
C1orf156	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169762230	169762230	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcccttgaatgcagttaTacctagtaaacctgatccac	11	11	5	14	0	0	2	0	2	0	0	2	2	2	2	5	0	3	3	5	0	6	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	169762230	T	G	169762230	3	3	23	1	0	0	0	0	1	0	0	0	2006	1406	49	5	515	5	C1orf156	1	169762230	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	52197969	169762230	79488391	2	1311											
TMEM206	55248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	212538685	212538685	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaggcgccacagagaaGagcaattgtgttccaaggat	15	6	12	8	1	0	3	0	0	0	3	1	5	1	4	2	2	1	2	2	2	5	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	212538685	G	T	212538685	3	4	23	1	0	0	0	0	1	0	0	0	16130	942	33	4	131	4	TMEM206	1	212538685	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	42776455	212538685	36711936	3	1312											
NOL10	79954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	10811743	10811743	+	Frame_Shift_Del	DEL	G	G	-																															agaaatctctcccaaactttGgtattctggttttgtagtaa																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		-	10811743	G	-	10811743	7	5	23	1	0	1	0	1	0	0	0	0	10520	1348	47	0	1729	0	NOL10	2	10811743	Frame_Shift_Del	DEL	G	TCGA-A3-3373-01A-02D-1421-08		10811743	232387630	4	1313											
SLC8A1	6546	broad.mit.edu;hgsc.bcm.edu	37	chr2	40342426	40342426	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgtggcagtaggcctccagGgaggagaagaaaatgtacaa	15	6	14	6	0	0	2	0	0	0	2	1	4	1	3	2	4	1	3	2	4	6	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	40342426	G	A	40342426	2	1	23	1	0	0	0	0	0	0	0	1	14708	1219	43	2		2	SLC8A1	2	40342426	Silent	SNP	G	TCGA-A3-3373-01A-02D-1421-08	29530683	40342426	202856947	5	1314											
EHBP1	23301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63169917	63169917	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtcagtctttgcttgtatGgtgtaaagaagttacaaaga	13	14	10	4	0	2	2	1	0	1	2	2	2	2	2	0	1	2	4	0	1	7	6	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	63169917	G	A	63169917	4	1	23	1	0	0	0	0	0	1	0	0	4975	1357	47	2	1397	2	EHBP1	2	63169917	Nonsense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	22827491	63169917	180029456	6	1315											
MBD5	55777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	149227852	149227852	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtccccaaccaccatctTgcaggtttaataaatcagat	13	10	5	13	0	2	1	1	0	1	1	3	1	3	1	5	1	2	2	5	1	4	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	149227852	T	G	149227852	2	3	23	1	0	0	0	0	0	0	0	1	9347	1799	63	5		5	MBD5	2	149227852	Silent	SNP	T	TCGA-A3-3373-01A-02D-1421-08	86057935	149227852	93971521	7	1316											
SCN1A	6323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166898839	166898839	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgctggctatactcatTgctcgttgcctttgggaagg	8	13	12	8	1	1	1	1	0	0	1	2	2	1	2	1	3	4	4	1	3	4	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	166898839	T	C	166898839	2	2	23	1	0	0	0	0	0	0	0	1	13916	1799	63	3		3	SCN1A	2	166898839	Silent	SNP	T	TCGA-A3-3373-01A-02D-1421-08	17670987	166898839	76300534	8	1317											
MAP2	4133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	210561004	210561004	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataagacagaaacctatgaCgattacaaagatgagaccac	19	7	7	8	1	0	5	0	2	0	4	0	7	0	5	2	0	2	0	2	0	6	4	rs147926728		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	210561004	C	T	210561004	2	4	23	1	0	0	0	0	0	0	0	1	9235	535	19	1		1	MAP2	2	210561004	Silent	SNP	C	TCGA-A3-3373-01A-02D-1421-08	43662165	210561004	32638369	9	1318											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183794	10183794	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtcgtgctgcccgtatGgctcaacttcgacggcgagc	5	8	14	14	7	1	0	1	0	0	0	3	2	1	0	1	2	4	3	1	2	2	2	rs119103277	alternate_allele	TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	10183794	G	A	10183794	4	1	23	1	0	0	0	0	0	1	0	0	17161	1357	47	2	265	2	VHL	3	10183794	Nonsense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08		10183794	187838636	10	1319											
CYP8B1	1582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42917124	42917124	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaacacatccccatgcttgGtcctcatgcgcttcagaaat	10	11	7	13	1	2	2	2	1	0	1	4	2	4	2	3	1	3	2	3	1	2	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	42917124	G	C	42917124	3	2	23	1	0	0	0	0	1	0	0	0	4198	1261	44	4	1324	4	CYP8B1	3	42917124	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	32733330	42917124	155105306	11	1320											
SLC25A20	788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48900024	48900024	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagatgcctcggatcccaaaCtcctggtacagcttctttgc	8	12	8	13	1	1	1	0	0	1	1	4	2	3	2	3	2	5	2	3	2	3	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	48900024	C	T	48900024	2	4	23	1	0	0	0	0	0	0	0	1	14485	564	20	2		2	SLC25A20	3	48900024	Silent	SNP	C	TCGA-A3-3373-01A-02D-1421-08	5982900	48900024	149122406	12	1321											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52682446	52682446	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccattgcatgaatactttTgtagcttccattctacaata	11	15	6	9	0	1	1	0	1	1	0	2	1	2	1	2	1	4	3	2	1	6	9	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	52682446	T	A	52682446	4	1	23	1	0	0	0	0	0	1	0	0	11491	1821	63	5	4269	5	PBRM1	3	52682446	Nonsense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	3782422	52682446	145339984	13	1322											
C3orf63	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	56667576	56667576	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagtatttagcttctcatgCaaaccatctacaaactcctg	13	13	4	11	0	2	0	1	0	2	0	4	0	3	0	2	0	5	3	2	0	6	6	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	56667576	C	A	56667576	3	1	23	1	0	0	0	0	1	0	0	0	2239	709	25	4	1857	4	C3orf63	3	56667576	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08	3985130	56667576	141354854	14	1323											
SLC15A2	6565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121647359	121647359	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggtgacagtggtgggaaAtgaaaacaattctctgttga	14	10	13	4	0	1	3	0	3	1	0	2	5	1	4	0	3	1	1	0	3	5	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	121647359	A	C	121647359	3	2	23	1	0	0	0	0	1	0	0	0	14401	101	4	5	1356	5	SLC15A2	3	121647359	Missense_Mutation	SNP	A	TCGA-A3-3373-01A-02D-1421-08	64979783	121647359	76375071	15	1324											
TFDP2	7029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141697381	141697381	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaatcagcagccaaatggTtatttgaattggtgaactct	12	12	9	8	1	2	2	1	2	1	0	2	3	2	2	2	2	3	2	2	2	5	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	141697381	T	G	141697381	3	3	23	1	0	0	0	0	1	0	0	0	15797	1725	60	5	871	5	TFDP2	3	141697381	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	20050022	141697381	56325049	16	1325											
ATP13A3	79572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	194149610	194149610	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatgattgccagatcaaTgaagagaaactggaagtctc	17	8	9	7	0	2	4	1	2	1	2	3	6	2	5	1	1	2	0	1	1	6	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	194149610	T	A	194149610	3	1	23	1	0	0	0	0	1	0	0	0	1125	1464	51	5	793	5	ATP13A3	3	194149610	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	52452229	194149610	3872820	17	1326											
SH3TC1	54436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8224578	8224578	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttccaggttggaaagtgCgatttttctcaatgaggaag	10	15	11	5	1	1	1	1	1	1	0	3	4	2	3	1	3	1	1	1	3	3	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	8224578	C	T	8224578	3	4	23	1	0	0	0	0	1	0	0	0	14263	768	27	1	1158	1	SH3TC1	4	8224578	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08		8224578	182929698	18	1327											
UGT2B11	10720	broad.mit.edu;hgsc.bcm.edu	37	chr4	70066177	70066177	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaatctctttttcccttcTtcccttttctagcaaacttc	7	19	1	14	0	3	0	0	0	3	0	7	0	5	0	2	0	2	1	2	0	3	9	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	70066177	T	G	70066177	3	3	23	1	0	0	0	0	1	0	0	0	16956	1609	56	5	22	5	UGT2B11	4	70066177	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	61841599	70066177	121088099	19	1328											
FNIP2	57600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159750366	159750366	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atcatgctaaggaacagcttCcaaagtaccaggtacaacca	16	7	7	11	0	1	0	1	0	0	0	2	1	2	1	3	2	6	4	3	2	6	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	159750366	C	G	159750366	3	3	23	1	0	0	0	0	1	0	0	0	5976	855	30	4	380	4	FNIP2	4	159750366	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08	89684189	159750366	31403910	20	1329											
TARS	6897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33467768	33467768	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaactatcgagcggctacaGcagctcaaagagttccgcag	13	6	11	11	3	1	1	1	0	0	1	3	3	2	1	1	1	5	5	1	1	4	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	33467768	G	T	33467768	3	4	23	1	0	0	0	0	1	0	0	0	15558	962	34	4	2201	4	TARS	5	33467768	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08		33467768	147447492	21	1330											
SLC38A9	153129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54965131	54965131	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcagtatgatgacacacaTtccagtagtaaatccagcct	14	10	6	11	0	1	2	1	2	0	0	3	2	3	2	3	0	1	3	3	0	4	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	54965131	T	G	54965131	3	3	23	1	0	0	0	0	1	0	0	0	14613	1493	52	5	1274	5	SLC38A9	5	54965131	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	21497363	54965131	125950129	22	1331											
ELOVL2	54898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	11005769	11005769	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggtaagagtccaacaTgaaccaccctctgactcgag	14	6	10	11	1	1	3	0	2	1	1	3	5	2	4	3	2	2	1	3	2	4	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	11005769	T	G	11005769	3	3	23	1	0	0	0	0	1	0	0	0	5074	1464	51	5	823	5	ELOVL2	6	11005769	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08		11005769	160109298	23	1332											
CTGF	1490	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132270523	132270523	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgttcttcttcatgacctCgccgtcagggcacttgaact	7	13	8	13	2	4	2	2	2	2	0	5	2	4	2	2	1	1	2	2	1	1	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	132270523	C	T	132270523	3	4	23	1	0	0	0	0	1	0	0	0	4008	893	31	1	122	1	CTGF	6	132270523	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08	121264754	132270523	38844544	24	1333											
UTRN	7402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	144806603	144806603	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactttggaagagcggatgaAgagcacagaggtcctgcctg	11	7	14	9	1	0	4	0	1	0	3	1	6	1	6	2	3	3	1	2	3	2	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	144806603	A	G	144806603	3	3	23	1	0	0	0	0	1	0	0	0	17102	72	3	3	3876	3	UTRN	6	144806603	Missense_Mutation	SNP	A	TCGA-A3-3373-01A-02D-1421-08	12536080	144806603	26308464	25	1334											
POM121C	100101267	broad.mit.edu;hgsc.bcm.edu	37	chr7	75066894	75066894	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaaggagctcatggaagAgcttcgggatctcttattca	10	12	11	8	1	4	1	3	0	1	1	6	4	4	4	0	3	2	2	0	3	3	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	75066894	A	G	75066894	3	3	23	1	0	0	0	0	1	0	0	0	12240	304	11	3	2620	3	POM121C	7	75066894	Missense_Mutation	SNP	A	TCGA-A3-3373-01A-02D-1421-08		75066894	84071769	26	1335											
MFHAS1	9258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	8749927	8749927	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaggcaggccccgcagccgGttgctggacacgtccagctc	6	6	13	16	3	1	0	1	0	0	0	3	1	2	1	4	4	3	5	4	4	0	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	8749927	G	C	8749927	3	2	23	1	0	0	0	0	1	0	0	0	9521	1252	44	4	2528	4	MFHAS1	8	8749927	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08		8749927	137614095	27	1336											
TRIM32	22954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	119460981	119460981	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgctgcctctacctctgtTacttttagagagatggacat	8	15	8	10	0	3	2	0	0	3	2	3	4	3	3	2	1	4	2	2	1	3	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	119460981	T	C	119460981	2	2	23	1	0	0	0	0	0	0	0	1	16505	1741	61	3		3	TRIM32	9	119460981	Silent	SNP	T	TCGA-A3-3373-01A-02D-1421-08		119460981	21752450	28	1337											
TLR4	7099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	120476405	120476405	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgctggctgcataaagTatggtagaggtgaaaacatc	12	12	11	6	0	1	2	0	1	1	1	2	2	1	2	0	3	3	5	0	3	6	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	120476405	T	A	120476405	3	1	23	1	0	0	0	0	1	0	0	0	15952	1638	57	5	2009	5	TLR4	9	120476405	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	1015424	120476405	20737026	29	1338											
VAV2	7410	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136642527	136642527	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccttccatccacagggCagggcttcacagatgagctg	9	8	10	14	0	2	2	2	1	0	1	4	2	4	2	3	2	1	3	3	2	0	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	136642527	C	T	136642527	3	4	23	1	0	0	0	0	1	0	0	0	17131	710	25	2	719	2	VAV2	9	136642527	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08	16166122	136642527	4570904	30	1339											
TNKS2	80351	hgsc.bcm.edu;ucsc.edu	37	chr10	93622703	93622703	+	Frame_Shift_Del	DEL	G	G	-																															ttctcttccaggcttatcctGagtatttaattacttaccag																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		-	93622703	G	-	93622703	7	5	23	1	0	1	0	1	0	0	0	0	16320	1291	45	0	3554	0	TNKS2	10	93622703	Frame_Shift_Del	DEL	G	TCGA-A3-3373-01A-02D-1421-08		93622703	41912044	31	1340											
AFAP1L2	84632	hgsc.bcm.edu;ucsc.edu	37	chr10	116075322	116075322	+	Frame_Shift_Del	DEL	A	A	-																															acgtaaggcagactgaccagAagcctgttgtccttgatgac																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		-	116075322	A	-	116075322	7	5	23	1	0	1	0	1	0	0	0	0	355	233	9	0	1903	0	AFAP1L2	10	116075322	Frame_Shift_Del	DEL	A	TCGA-A3-3373-01A-02D-1421-08	22452619	116075322	19459425	32	1341											
EIF3A	8661	broad.mit.edu;hgsc.bcm.edu	37	chr10	120801706	120801706	+	Missense_Mutation	SNP	G	G	A																															catcatccaaccctcgcctgGgaccccggtcatcatccatg																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	120801706	G	A	120801706	3	1	23	1	0	0	0	0	1	0	0	0	5012	1232	43	2	838	2	EIF3A	10	120801706	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	4726384	120801706	14733041	33	1342	19	2									
EIF3A	8661	broad.mit.edu;hgsc.bcm.edu	37	chr10	120801712	120801712	+	Missense_Mutation	SNP	C	C	T																															ccaaccctcgcctgggacccCggtcatcatccatgcctcgc																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	120801712	C	T	120801712	3	4	23	1	0	0	0	0	1	0	0	0	5012	652	23	1	844	1	EIF3A	10	120801712	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08	6	120801712	14733035	34	1343	19	2									
SYT7	9066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61323583	61323583	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggagcctcaccagtttgCgctgacaccagtggcagagg	9	7	13	12	1	2	2	2	1	0	1	2	3	2	3	3	3	2	3	3	3	0	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	61323583	C	G	61323583	3	3	23	1	0	0	0	0	1	0	0	0	15478	768	27	4	1115	4	SYT7	11	61323583	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08		61323583	73682933	35	1344											
PICALM	8301	hgsc.bcm.edu;ucsc.edu	37	chr11	85742542	85742550	+	In_Frame_Del	DEL	GTAATGAGA	GTAATGAGA	-																															acaccatcaaatgatgagttGtaatgagagatttgaagacc																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	GTAATGAGA	GTAATGAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		-	85742550	GTAATGAGA	-	85742542	7	5	23	1	0	1	0	1	0	0	0	0	11880	1377	48	0	1820	0	PICALM	11	85742542	In_Frame_Del	DEL	GTAATGAGA	TCGA-A3-3373-01A-02D-1421-08	24418959	85742542	49263974	36	1345											
ATF7IP	55729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14578241	14578241	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccaatcgatgagacaaaTccagatttggaagagaaaat	17	9	8	7	1	0	3	0	1	0	3	3	7	2	4	2	1	0	0	2	1	5	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	14578241	T	G	14578241	3	3	23	1	0	0	0	0	1	0	0	0	1087	1432	50	5	1394	5	ATF7IP	12	14578241	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08		14578241	119273654	37	1346											
SRGAP1	57522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	64536075	64536075	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttccgattattcttcaatagGatattgaagaaacgatgaac	15	13	7	6	2	2	3	1	2	1	1	3	6	3	4	1	1	2	0	1	1	7	7	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	64536075	G	C	64536075	3	2	23	1	0	0	0	0	1	0	0	0	15146	1188	41	4	2967	4	SRGAP1	12	64536075	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	49957834	64536075	69315820	38	1347											
EEA1	8411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	93210026	93210026	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttcatttaattgactatTtaattcattgacactagttt	11	20	4	6	0	2	2	2	2	0	0	2	2	2	2	0	0	0	2	0	0	4	11	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	93210026	T	G	93210026	3	3	23	1	0	0	0	0	1	0	0	0	4921	1841	64	5	2416	5	EEA1	12	93210026	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	28673951	93210026	40641869	39	1348											
SLC46A3	283537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	29287320	29287320	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctaataaaatagccagatGacagtcctgttagtccagta	14	11	7	9	0	1	2	0	1	1	1	3	2	3	2	3	0	1	2	3	0	6	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	29287320	G	A	29287320	3	1	23	1	0	0	0	0	1	0	0	0	14648	1294	45	2	858	2	SLC46A3	13	29287320	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08		29287320	85882558	40	1349											
C14orf126	0	broad.mit.edu;hgsc.bcm.edu	37	chr14	31917639	31917639	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttctgtctcacttaatTtcacatttaacagtgtatta	11	19	3	8	0	3	0	2	0	2	0	4	0	3	0	0	0	1	1	0	0	4	8	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	31917639	T	A	31917639	3	1	23	1	0	0	0	0	1	0	0	0	1743	1841	64	5	307	5	C14orf126	14	31917639	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08		31917639	75431901	41	1350											
DAAM1	23002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59835514	59835514	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattgaaacggaatcgcaaAcgtattaccaaccagatgac	18	7	7	9	3	0	3	0	2	0	1	1	4	0	4	2	1	4	2	2	1	7	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	59835514	A	G	59835514	2	3	23	1	0	0	0	0	0	0	0	1	4215	40	2	3		3	DAAM1	14	59835514	Silent	SNP	A	TCGA-A3-3373-01A-02D-1421-08	27917875	59835514	47514026	42	1351											
DYNC1H1	1778	broad.mit.edu	37	chr14	102431128	102431132	+	Frame_Shift_Del	DEL	CTGCG	-	-																															tgtcggtgctgcagaagcacCtgcgcaagctggtgccgctg																								novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	CTGCG	CTGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		-	102431132	-	-	102431128	7	5	23	1	0	1	0	1	0	0	0	0	4841	680	24	0	102	0	DYNC1H1	14	102431128	Frame_Shift_Del	DEL	CTGCG	TCGA-A3-3373-01A-02D-1421-08	42595614	102431128	4918412	43	1352											
KIF26A	26153	broad.mit.edu	37	chr14	104643367	104643367	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctgaccactctgtccccagGgccacgtccagcctgaaggc	7	6	11	17	1	1	2	0	2	1	0	3	2	3	2	6	2	1	1	6	2	1	0	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	104643367	A	A	104643367	2	1	23	1	0	0	0	0	0	0	0	1	8294	1223	43	2		2	KIF26A	14	104643367	Silent	SNP	G	TCGA-A3-3373-01A-02D-1421-08	2212239	104643367	2706173	44	1353											
AQP9	366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	58471498	58471498	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acccagctcgagacctgagtCccagacttttcactgccttg	8	10	8	15	1	1	3	1	1	0	2	3	4	2	3	4	0	2	1	4	0	0	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	58471498	C	T	58471498	3	4	23	1	0	0	0	0	1	0	0	0	833	855	30	2	685	2	AQP9	15	58471498	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08		58471498	44059894	45	1354											
MAPK8IP3	23162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1793404	1793404	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtacgtgcacagatcggggGcaagctcgtgcctgcggggg	6	6	19	10	4	0	1	0	0	0	1	2	1	0	1	1	5	5	4	1	5	2	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	1793404	G	A	1793404	3	1	23	1	0	0	0	0	1	0	0	0	9286	1203	42	2	689	2	MAPK8IP3	16	1793404	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08		1793404	88561349	46	1355											
TUFM	7284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28857318	28857318	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgtggcttgtcgcgcacGtaagtcttcttggcctccac	6	12	10	13	3	2	0	0	0	2	0	4	0	3	0	2	2	0	3	2	2	1	4	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		A	28857318	G	A	28857318	2	1	23	1	0	0	0	0	0	0	0	1	16770	1140	40	1		1	TUFM	16	28857318	Silent	SNP	G	TCGA-A3-3373-01A-02D-1421-08	27063914	28857318	61497435	47	1356											
EIF5A	1984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7214802	7214802	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggagaagagatcctggTatggtgcctccctccctgct	6	11	12	12	0	0	2	0	0	0	2	3	4	3	2	4	3	2	2	4	3	2	1	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	7214802	T	C	7214802	5	2	23	1	0	0	0	0	0	0	1	0	5041	1652	57	3	508	3	EIF5A	17	7214802	Splice_Site	SNP	T	TCGA-A3-3373-01A-02D-1421-08		7214802	73980408	48	1357											
CHAF1A	10036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4408962	4408962	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgatgacatgtcagacGatcagggtacttctgtgcaa	12	9	11	9	2	3	2	2	1	1	1	3	4	3	2	1	1	3	2	1	1	3	2	rs61729782	alternate_allele	TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	4408962	G	T	4408962	3	4	23	1	0	0	0	0	1	0	0	0	3311	1058	37	4	176	4	CHAF1A	19	4408962	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08		4408962	54720021	49	1358											
PLIN4	729359	hgsc.bcm.edu	37	chr19	4511539	4511539	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccatctggacggccccCttggccacattcgcagcacc	8	6	8	19	2	1	0	0	0	1	0	2	1	1	1	5	3	1	2	5	3	0	2	rs111868968	bycluster;byfrequency;alternate_allele	TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	4511539	C	G	4511539	3	3	23	1	0	0	0	0	1	0	0	0	12092	680	24	4	1698	4	PLIN4	19	4511539	Missense_Mutation	SNP	C	TCGA-A3-3373-01A-02D-1421-08	102577	4511539	54617444	50	1359											
JOSD2	126119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51010902	51010902	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatcacattgacatcataGttgccggtgcccaggaggct	10	10	11	10	1	2	2	2	2	0	0	2	3	2	3	2	3	2	2	2	3	1	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	51010902	G	T	51010902	3	4	23	1	0	0	0	0	1	0	0	0	7959	1020	36	4	377	4	JOSD2	19	51010902	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	46499363	51010902	8118081	51	1360											
PRPF31	26121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54625914	54625914	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgggataagtactcaaagAgattccctgaactggagtcc	12	9	10	10	1	1	2	1	1	0	1	4	5	4	4	3	2	2	1	3	2	4	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	54625914	A	C	54625914	2	2	23	1	0	0	0	0	0	0	0	1	12568	296	11	5		5	PRPF31	19	54625914	Silent	SNP	A	TCGA-A3-3373-01A-02D-1421-08	3615012	54625914	4503069	52	1361											
SIRPD	128646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	1532510	1532510	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatctcttttactctgggaAagttaccttgtttgaaattg	10	17	7	7	0	2	1	0	1	2	0	3	2	2	2	1	1	2	2	1	1	5	6	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	1532510	A	G	1532510	3	3	23	1	0	0	0	0	1	0	0	0	14337	14	1	3	357	3	SIRPD	20	1532510	Missense_Mutation	SNP	A	TCGA-A3-3373-01A-02D-1421-08		1532510	61493010	53	1362											
RBM12	10137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34242653	34242653	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcattggtggcagagAtggcatcgctggaattggag	9	9	18	5	1	0	1	0	0	0	1	1	5	0	4	0	7	0	4	0	7	1	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		G	34242653	A	G	34242653	3	3	23	1	0	0	0	0	1	0	0	0	13115	333	12	3	2210	3	RBM12	20	34242653	Missense_Mutation	SNP	A	TCGA-A3-3373-01A-02D-1421-08	32710143	34242653	28782867	54	1363											
R3HDML	140902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	42965937	42965937	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcggctcctgagtggccTggaggtgcccaggtaccgcc	5	8	15	13	2	0	1	0	1	0	0	1	2	1	2	5	5	3	2	5	5	2	2	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	42965937	T	C	42965937	3	2	23	1	0	0	0	0	1	0	0	0	12891	1580	55	3	142	3	R3HDML	20	42965937	Missense_Mutation	SNP	T	TCGA-A3-3373-01A-02D-1421-08	8723284	42965937	20059583	55	1364											
NCOA3	8202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	46256718	46256718	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcattactacaggagaaagAacatttccatcaaaccctga	16	8	6	11	1	1	3	1	1	0	2	2	4	2	3	2	1	4	1	2	1	5	3	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		T	46256718	A	T	46256718	3	4	23	1	0	0	0	0	1	0	0	0	10230	243	9	5	796	5	NCOA3	20	46256718	Missense_Mutation	SNP	A	TCGA-A3-3373-01A-02D-1421-08	3290781	46256718	16768802	56	1365											
DMD	1756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	32862975	32862975	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggatcctttttctttTggctgagaacaaaacaaaag	12	14	8	7	0	1	1	0	1	1	1	2	3	2	2	1	2	2	1	1	2	5	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	32862975	T	C	32862975	2	2	23	1	0	0	0	0	0	0	0	1	4580	1799	63	3		3	DMD	23	32862975	Silent	SNP	T	TCGA-A3-3373-01A-02D-1421-08		32862975	122407585	57	1366											
DIAPH2	1730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	96369939	96369939	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagaaatgcccagtctttggGatttaagatcaacttccttt	12	14	7	8	0	2	2	1	0	1	2	3	3	3	3	2	1	2	0	2	1	4	5	novel		TCGA-A3-3373-01A-02D-1421-08	TCGA-A3-3373-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6cbaac72-ca6e-4c4b-a016-1836959344c8	0cc2be61-ac32-46b9-864f-1092faa4f1c8		C	96369939	G	C	96369939	3	2	23	1	0	0	0	0	1	0	0	0	4519	1174	41	4	2646	4	DIAPH2	23	96369939	Missense_Mutation	SNP	G	TCGA-A3-3373-01A-02D-1421-08	63506964	96369939	58900621	58	1367											
SPEN	23013	broad.mit.edu	37	chr1	16257104	16257104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctaaatccctctcttcaTctcgtgaagaaaattggtct	11	13	7	10	1	4	2	1	1	3	1	7	3	5	2	1	1	1	1	1	1	5	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	16257104	G	G	16257104	3	3	24	1	0	0	0	0	1	0	0	0	15039	1435	50	5	4411	5	SPEN	1	16257104	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08		16257104	232993517	1	1368											
SDHB	6390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17350478	17350478	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacctcacctgcataagaActgcaggccccagatatttg	12	8	8	13	0	1	2	1	0	0	2	1	2	1	2	4	1	4	3	4	1	3	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	17350478	A	G	17350478	3	3	24	1	0	0	0	0	1	0	0	0	13967	43	2	3	222	3	SDHB	1	17350478	Missense_Mutation	SNP	A	TCGA-A3-3376-01A-02D-1421-08	1093374	17350478	231900143	2	1369											
EPHA10	284656	broad.mit.edu	37	chr1	38227126	38227126	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccgcgctgcagctgcagcgGcccacaggcaccagccactc	7	3	11	20	3	0	0	0	0	0	0	1	0	0	0	4	2	5	5	4	2	0	0	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	38227126	T	T	38227126	2	4	24	1	0	0	0	0	0	0	0	1	5166	1190	42	4		4	EPHA10	1	38227126	Silent	SNP	G	TCGA-A3-3376-01A-02D-1421-08	20876648	38227126	211023495	3	1370											
NEGR1	257194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	72400804	72400804	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgttctgggtgtatgttGagtctgaacagaacacgtgt	9	14	12	6	1	2	3	0	2	2	1	2	3	2	3	0	1	2	3	0	1	3	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	72400804	G	T	72400804	3	4	24	1	0	0	0	0	1	0	0	0	10317	1299	45	4	721	4	NEGR1	1	72400804	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08	34173678	72400804	176849817	4	1371											
HIAT1	64645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100546150	100546150	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatattccatgtggaacttAaagaactgccaataacagga	17	9	7	8	0	0	1	0	0	0	1	1	3	1	3	2	2	4	0	2	2	7	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	100546150	A	C	100546150	3	2	24	1	0	0	0	0	1	0	0	0	7097	363	13	5	1243	5	HIAT1	1	100546150	Missense_Mutation	SNP	A	TCGA-A3-3376-01A-02D-1421-08	28145346	100546150	148704471	5	1372											
C1orf162	128346	broad.mit.edu;ucsc.edu	37	chr1	112019442	112019442	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaaggcactctctccacAgcagccccaacaactagccc	13	4	6	18	0	1	1	0	0	1	1	3	1	2	1	4	1	5	2	4	1	4	1	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	112019442	C	C	112019442	2	2	24	1	0	0	0	0	0	0	0	1	2010	175	7	5		5	C1orf162	1	112019442	Silent	SNP	A	TCGA-A3-3376-01A-02D-1421-08	11473292	112019442	137231179	6	1373											
TATDN3	128387	hgsc.bcm.edu;ucsc.edu	37	chr1	212981154	212981154	+	Frame_Shift_Del	DEL	C	C	-																															ggagtaagagctgggtacttCttctcaattcccccttctat																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		-	212981154	C	-	212981154	7	5	24	1	0	1	0	1	0	0	0	0	15592	912	32	0	594	0	TATDN3	1	212981154	Frame_Shift_Del	DEL	C	TCGA-A3-3376-01A-02D-1421-08	100961712	212981154	36269467	7	1374											
RAPGEF4	11069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	173879257	173879257	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgccctcaacaataagaGgcgagtcatccgcctggttc	10	10	9	12	2	2	1	2	0	0	1	4	2	3	1	3	2	2	1	3	2	4	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	173879257	G	A	173879257	3	1	24	1	0	0	0	0	1	0	0	0	13048	1000	35	2	1810	2	RAPGEF4	2	173879257	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08		173879257	69320116	8	1375											
VHL	7428	broad.mit.edu	37	chr3	10183872	10183872	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgcatccacagctaccgagGtacgggcccggcgcttaggc	7	5	13	16	5	0	0	0	0	0	0	1	1	1	0	4	4	3	4	4	4	3	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	10183872	C	C	10183872	5	2	24	1	0	0	0	0	0	0	1	0	17161	1275	44	4	343	4	VHL	3	10183872	Splice_Site	SNP	G	TCGA-A3-3376-01A-02D-1421-08		10183872	187838558	9	1376											
LEPREL1	55214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	189689771	189689771	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcatggatgggatgactGaggtcatttcttctatcctg	8	14	11	8	0	4	2	2	2	2	0	5	4	5	4	1	3	1	1	1	3	1	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	189689771	G	T	189689771	2	4	24	1	0	0	0	0	0	0	0	1	8730	1277	45	4		4	LEPREL1	3	189689771	Silent	SNP	G	TCGA-A3-3376-01A-02D-1421-08	179505899	189689771	8332659	10	1377											
PIK3R1	5295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	67590479	67590479	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatagaaaagtttaaacGtgaaggcaatgagaaagaaa	22	7	9	3	1	0	4	0	2	0	3	0	5	0	4	0	1	2	2	0	1	10	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	67590479	G	T	67590479	3	4	24	1	0	0	0	0	1	0	0	0	11918	1145	40	4	1713	4	PIK3R1	5	67590479	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08		67590479	113324781	11	1378											
AP3B1	8546	hgsc.bcm.edu	37	chr5	77396836	77396838	+	In_Frame_Del	DEL	TTC	TTC	-																															gagttctatcttgctttgttTtcttttctttctcctataaa																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		-	77396838	TTC	-	77396836	7	5	24	1	0	1	0	1	0	0	0	0	744	1841	64	0	901	0	AP3B1	5	77396836	In_Frame_Del	DEL	TTC	TCGA-A3-3376-01A-02D-1421-08	9806357	77396836	103518424	12	1379											
DOPEY1	23033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	83823121	83823121	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacctcatactcttctgttTtccattccacatgagtcagg	8	14	7	12	0	4	1	2	1	2	0	6	2	6	2	3	2	1	1	3	2	1	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	83823121	T	C	83823121	3	2	24	1	0	0	0	0	1	0	0	0	4707	1841	64	3	779	3	DOPEY1	6	83823121	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08		83823121	87291946	13	1380											
EPHA7	2045	broad.mit.edu;hgsc.bcm.edu	37	chr6	93969181	93969181	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagggtcaatgtaggttttGgtgcctggaaatttaactgt	9	15	12	5	0	2	0	2	0	0	0	2	1	2	1	1	4	2	2	1	4	4	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	93969181	G	C	93969181	2	2	24	1	0	0	0	0	0	0	0	1	5172	1335	47	4		4	EPHA7	6	93969181	Silent	SNP	G	TCGA-A3-3376-01A-02D-1421-08	10146060	93969181	77145886	14	1381											
QRSL1	55278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	107088233	107088233	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacactataggtttctgcgGcactgaaacaaggccaaatt	14	10	8	9	1	1	1	0	1	1	0	1	1	1	1	1	3	3	2	1	3	6	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	107088233	G	A	107088233	3	1	24	1	0	0	0	0	1	0	0	0	12883	1203	42	2	40	2	QRSL1	6	107088233	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08	13119052	107088233	64026834	15	1382											
TNRC18	84629	broad.mit.edu	37	chr7	5347894	5347894	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaggcacttgtgcgacAccgtctgcacgtcattttcg	7	10	9	15	4	2	0	1	0	1	0	3	1	2	0	3	1	2	2	3	1	0	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	5347894	G	G	5347894	3	3	24	1	0	0	0	0	1	0	0	0	16338	159	6	3	160	3	TNRC18	7	5347894	Missense_Mutation	SNP	A	TCGA-A3-3376-01A-02D-1421-08		5347894	153790769	16	1383											
ANKIB1	54467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92027912	92027912	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaatcttctcggcaacatCatggcttggtttcatgacat	10	13	8	10	1	4	1	2	1	2	0	5	2	4	1	0	3	1	3	0	3	2	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	92027912	C	A	92027912	2	1	24	1	0	0	0	0	0	0	0	1	630	816	29	4		4	ANKIB1	7	92027912	Silent	SNP	C	TCGA-A3-3376-01A-02D-1421-08	86680018	92027912	67110751	17	1384											
LMTK2	22853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	97822827	97822827	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactctttaggatctcacaCtccccagaaactagtgcccc	10	9	7	15	0	2	1	1	0	2	1	4	3	3	3	4	2	2	0	4	2	3	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	97822827	C	G	97822827	3	3	24	1	0	0	0	0	1	0	0	0	8859	565	20	4	3092	4	LMTK2	7	97822827	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	5794915	97822827	61315836	18	1385											
MLL5	55904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	104749515	104749515	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaacaatggtgatggcTgtgccagcagtaatgacaat	13	9	12	7	0	0	3	0	3	0	0	0	3	0	3	1	2	4	4	1	2	4	1	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	104749515	T	C	104749515	3	2	24	1	0	0	0	0	1	0	0	0	9624	1580	55	3	3677	3	MLL5	7	104749515	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08	6926688	104749515	54389148	19	1386											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151873357	151873357	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgttcttgcctttcttGatccaaaagatcctgtagaa	9	15	7	10	0	2	3	0	1	2	2	4	3	4	3	3	0	2	3	3	0	4	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	151873357	G	T	151873357	3	4	24	1	0	0	0	0	1	0	0	0	9622	1299	45	4	5642	4	MLL3	7	151873357	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08	47123842	151873357	7265306	20	1387											
LSM1	27257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38029515	38029515	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttcttaaaaagcctataAgtgtccttccatctcgaagc	11	13	6	11	1	2	0	0	0	2	0	5	1	4	0	3	0	3	1	3	0	6	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	38029515	A	G	38029515	3	3	24	1	0	0	0	0	1	0	0	0	9050	72	3	3	330	3	LSM1	8	38029515	Missense_Mutation	SNP	A	TCGA-A3-3376-01A-02D-1421-08		38029515	108334507	21	1388											
E2F5	1875	broad.mit.edu	37	chr8	86119690	86119690	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggccattcaggcaccttCtggtacacaactggaggtac	9	11	10	11	0	2	0	1	0	1	0	2	1	2	1	2	5	3	3	2	5	3	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	86119690	A	A	86119690	3	1	24	1	0	0	0	0	1	0	0	0	4870	913	32	4	599	4	E2F5	8	86119690	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	48090175	86119690	60244332	22	1389											
KLF10	7071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	103663602	103663602	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacgggctggggtaccaCaaacatgacagcgcctttgg	11	6	12	12	2	0	1	0	1	0	0	0	1	0	1	2	4	4	2	2	4	3	2	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	103663602	C	T	103663602	3	4	24	1	0	0	0	0	1	0	0	0	8338	478	17	2	492	2	KLF10	8	103663602	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	17543912	103663602	42700420	23	1390											
DOCK8	81704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	406989	406989	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagcatgttcgatctgacTtccgagtaccgccagcagca	9	8	10	14	3	1	1	0	1	1	0	3	3	2	1	4	0	4	5	4	0	1	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	406989	T	A	406989	2	1	24	1	0	0	0	0	0	0	0	1	4693	1596	56	5		5	DOCK8	9	406989	Silent	SNP	T	TCGA-A3-3376-01A-02D-1421-08		406989	140806442	24	1391											
ZNF510	22869	broad.mit.edu;ucsc.edu	37	chr9	99538291	99538291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccagcttaccaccttctgCaagttggcccacagtgttca	8	10	7	16	0	2	0	1	0	1	0	2	0	2	0	5	1	3	4	5	1	2	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	99538291	A	A	99538291	3	1	24	1	0	0	0	0	1	0	0	0	17953	710	25	4	2010	4	ZNF510	9	99538291	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	99131302	99538291	41675140	25	1392											
SLC25A25	114789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130868093	130868093	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggccaggtcactctggcGgggcaatggcatcaacgtcc	8	6	15	12	2	3	0	2	0	1	0	4	0	4	0	2	7	1	2	2	7	2	0	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	130868093	G	A	130868093	3	1	24	1	0	0	0	0	1	0	0	0	14490	1116	39	1	1241	1	SLC25A25	9	130868093	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08	31329802	130868093	10345338	26	1393											
CCDC3	83643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12940511	12940511	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgagtttctggttcgccaGctccaggtggcggcccttct	4	12	12	13	2	2	1	0	1	2	0	4	1	3	1	3	4	1	3	3	4	0	3	rs150259960	alternate_allele	TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	12940511	G	T	12940511	3	4	24	1	0	0	0	0	1	0	0	0	2804	962	34	4	98	4	CCDC3	10	12940511	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08		12940511	122594236	27	1394											
SFXN2	118980	broad.mit.edu;hgsc.bcm.edu	37	chr10	104489089	104489089	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaggcagatggcccttTcctacttcacagccacaacc	9	7	6	19	0	1	1	1	0	0	1	2	1	2	1	6	2	3	1	6	2	2	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	104489089	T	C	104489089	3	2	24	1	0	0	0	0	1	0	0	0	14197	1783	62	3	459	3	SFXN2	10	104489089	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08	91548578	104489089	31045658	28	1395											
SORCS1	114815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	108366996	108366996	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggacaaagagttcagcAgtggtgggtaagccagggag	12	6	18	5	0	1	1	1	0	0	1	1	3	1	3	1	5	2	4	1	5	3	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	108366996	A	G	108366996	2	3	24	1	0	0	0	0	0	0	0	1	14932	175	7	3		3	SORCS1	10	108366996	Silent	SNP	A	TCGA-A3-3376-01A-02D-1421-08	3877907	108366996	27167751	29	1396											
HBE1	3046	broad.mit.edu	37	chr11	5291073	5291073	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttccacattcatcttgctCcacaggctagtgacggcagc	8	11	8	14	1	3	1	1	1	2	0	5	1	5	1	2	2	2	3	2	2	1	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	5291073	A	A	5291073	3	1	24	1	0	0	0	0	1	0	0	0	6980	856	30	4	407	4	HBE1	11	5291073	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08		5291073	129715443	30	1397											
SLC6A5	9152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	20629130	20629130	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctcctttgtgtctgtacTaccctggggctcctgcaaca	5	13	9	14	0	1	0	0	0	1	0	3	0	3	0	4	2	5	3	4	2	3	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	20629130	T	C	20629130	3	2	24	1	0	0	0	0	1	0	0	0	14689	1522	53	3	935	3	SLC6A5	11	20629130	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08	15338057	20629130	114377386	31	1398											
PTPRJ	5795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	48166241	48166241	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttagctggtcacccttctGcagatgtcctgaaatacacg	9	12	8	12	1	3	2	1	1	2	1	4	2	4	2	2	1	3	2	2	1	3	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	48166241	G	A	48166241	3	1	24	1	0	0	0	0	1	0	0	0	12806	1319	46	2	2649	2	PTPRJ	11	48166241	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08	27537111	48166241	86840275	32	1399											
PPP2R5B	5526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64695788	64695788	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctggagctatttgatagtGaggatccccgggagcgtgag	8	10	15	8	2	0	3	0	3	0	0	2	6	2	6	3	3	2	1	3	3	2	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	64695788	G	A	64695788	3	1	24	1	0	0	0	0	1	0	0	0	12395	1291	45	2	631	2	PPP2R5B	11	64695788	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08	16529547	64695788	70310728	33	1400											
DIXDC1	85458	hgsc.bcm.edu	37	chr11	111865799	111865800	+	Frame_Shift_Ins	INS	-	-	G																															gttttctccttccaacggcaINSggaaaaggagctacttcagt																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	111865800	-	G	111865799	7	5	24	1	0	1	1	0	0	0	0	0	4541	175	7	0	1578	0	DIXDC1	11	111865799	Frame_Shift_Ins	INS	-	TCGA-A3-3376-01A-02D-1421-08	47170011	111865799	23140717	34	1401											
SOAT2	8435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53512684	53512684	+	Missense_Mutation	SNP	G	G	T																															gccgctgcaggacgccctatGtcaggtggaattatgtggcc																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	53512684	G	T	53512684	3	4	24	1	0	0	0	0	1	0	0	0	14913	1377	48	4	908	4	SOAT2	12	53512684	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08		53512684	80339211	35	1402	20	2									
SOAT2	8435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53512685	53512685	+	Missense_Mutation	SNP	T	T	G																															ccgctgcaggacgccctatgTcaggtggaattatgtggcca																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	53512685	T	G	53512685	3	3	24	1	0	0	0	0	1	0	0	0	14913	1667	58	5	909	5	SOAT2	12	53512685	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08	1	53512685	80339210	36	1403	20	2									
CDC16	8881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	115004884	115004884	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatggaagagcccatcaaTaaaagattatttgaaaaata	20	9	7	5	0	1	3	1	1	0	2	1	5	1	4	1	1	1	0	1	1	8	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	115004884	T	G	115004884	3	3	24	1	0	0	0	0	1	0	0	0	3058	1403	49	5	318	5	CDC16	13	115004884	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08		115004884	164994	37	1404											
C14orf39	317761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	60928115	60928115	+	Silent	SNP	C	C	T																															tgattggaatttgattgtttCtgtggggttaacaatctaaa																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	60928115	C	T	60928115	2	4	24	1	0	0	0	0	0	0	0	1	1772	912	32	2		2	C14orf39	14	60928115	Silent	SNP	C	TCGA-A3-3376-01A-02D-1421-08		60928115	46421425	38	1405	21	2									
C14orf39	317761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	60928116	60928116	+	Missense_Mutation	SNP	T	T	C																															gattggaatttgattgtttcTgtggggttaacaatctaaaa																								novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	60928116	T	C	60928116	3	2	24	1	0	0	0	0	1	0	0	0	1772	1580	55	3	714	3	C14orf39	14	60928116	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08	1	60928116	46421424	39	1406	21	2									
UBR1	197131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43317589	43317589	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactttttaccttcatctttGttttcttgttttctcctttt	3	26	2	10	0	4	0	1	0	3	0	5	0	4	0	2	0	1	2	2	0	1	12	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		C	43317589	G	C	43317589	3	2	24	1	0	0	0	0	1	0	0	0	16900	1368	48	4	2771	4	UBR1	15	43317589	Missense_Mutation	SNP	G	TCGA-A3-3376-01A-02D-1421-08		43317589	59213803	40	1407											
DENND4A	10260	broad.mit.edu;hgsc.bcm.edu	37	chr15	65983198	65983198	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttcagctaaatcacgcCtagcagatggtgttgaaatg	11	13	9	8	1	3	2	2	1	1	1	3	2	3	2	1	1	2	3	1	1	4	5	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	65983198	C	G	65983198	3	3	24	1	0	0	0	0	1	0	0	0	4433	681	24	4	2033	4	DENND4A	15	65983198	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	22665609	65983198	36548194	41	1408											
CYLD	1540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50783997	50783997	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccaaatagacgtgggctgtCctgtgaaagtacagctgaga	12	9	12	8	1	0	3	0	2	0	2	2	4	2	3	2	1	2	3	2	1	4	2	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	50783997	C	A	50783997	3	1	24	1	0	0	0	0	1	0	0	0	4143	855	30	4	390	4	CYLD	16	50783997	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08		50783997	39570756	42	1409											
FAM96B	51647	broad.mit.edu;hgsc.bcm.edu	37	chr16	66966160	66966160	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaagaggtgggtgttctcCagggcagctgccacccgctc	6	8	13	14	1	1	1	0	0	1	1	4	1	2	1	4	3	2	4	4	3	1	1	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	66966160	C	T	66966160	2	4	24	1	0	0	0	0	0	0	0	1	5655	581	21	2		2	FAM96B	16	66966160	Silent	SNP	C	TCGA-A3-3376-01A-02D-1421-08	16182163	66966160	23388593	43	1410											
NUP85	79902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73204674	73204674	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtattttgactggggtcCaggggagatgctggtatgtg	8	13	16	4	0	0	2	0	1	0	1	1	3	1	2	1	5	1	3	1	5	3	4	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	73204674	C	T	73204674	3	4	24	1	0	0	0	0	1	0	0	0	10770	594	21	2	92	2	NUP85	17	73204674	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08		73204674	7990536	44	1411											
KIAA0195	9772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73488654	73488654	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggaccagcagaaccccTcctgcatccagtttgatgac	10	7	8	16	0	0	3	0	2	0	1	2	4	2	4	6	1	3	3	6	1	1	1	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	73488654	T	A	73488654	3	1	24	1	0	0	0	0	1	0	0	0	8160	1551	54	5	1750	5	KIAA0195	17	73488654	Missense_Mutation	SNP	T	TCGA-A3-3376-01A-02D-1421-08	283980	73488654	7706556	45	1412											
SPIB	6689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50926246	50926246	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcccccagcctggaggcCccggggcctggcctccctgc	2	5	14	20	1	0	0	0	0	0	0	1	1	1	1	8	6	2	0	8	6	0	0	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		A	50926246	C	A	50926246	2	1	24	1	0	0	0	0	0	0	0	1	15051	610	22	4		4	SPIB	19	50926246	Silent	SNP	C	TCGA-A3-3376-01A-02D-1421-08		50926246	8202737	46	1413											
TOX2	84969	broad.mit.edu;hgsc.bcm.edu	37	chr20	42680130	42680130	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgccggggagcaagtcagCgaccccctctccctccagct	7	5	10	19	3	2	0	1	0	1	0	4	2	3	1	6	2	3	2	6	2	1	0	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	42680130	C	T	42680130	3	4	24	1	0	0	0	0	1	0	0	0	16377	768	27	1	740	1	TOX2	20	42680130	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08		42680130	20345390	47	1414											
SEMG2	6407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	43850086	43850086	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttatcttggagaagcaagCagctgtgatgggacaaaaag	14	8	12	7	0	1	2	0	1	1	1	1	4	1	3	1	2	3	3	1	2	5	2	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	43850086	C	T	43850086	3	4	24	1	0	0	0	0	1	0	0	0	14047	710	25	2	58	2	SEMG2	20	43850086	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	1169956	43850086	19175434	48	1415											
STMN3	50861	broad.mit.edu;hgsc.bcm.edu	37	chr20	62275107	62275107	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggatggaggactccttGccttcctccgctcctcggct	3	11	13	14	2	0	0	0	0	0	0	5	3	4	3	5	5	1	2	5	5	0	2	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	62275107	G	T	62275107	5	4	24	1	0	0	0	0	0	0	1	0	15311	1333	46	4	261	4	STMN3	20	62275107	Splice_Site	SNP	G	TCGA-A3-3376-01A-02D-1421-08	18425021	62275107	750413	49	1416											
DYRK1A	1859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38845082	38845082	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggctggacagatgccccAttcacatcagtacagtgacc	11	8	10	12	0	2	2	2	1	0	1	2	4	2	3	3	2	2	2	3	2	1	2	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	38845082	A	G	38845082	3	3	24	1	0	0	0	0	1	0	0	0	4854	217	8	3	113	3	DYRK1A	21	38845082	Missense_Mutation	SNP	A	TCGA-A3-3376-01A-02D-1421-08		38845082	9284813	50	1417											
DYRK1A	1859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38862648	38862648	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcttttccttgcgactcCagaacttagtatcattcact	9	15	5	12	1	2	1	2	0	0	1	4	2	4	1	2	0	3	2	2	0	3	6	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	38862648	C	G	38862648	3	3	24	1	0	0	0	0	1	0	0	0	4854	594	21	4	858	4	DYRK1A	21	38862648	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08	17566	38862648	9267247	51	1418											
CCT8L2	150160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	17073177	17073177	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtcctgcttcccggaggagCcatgctgctgggtgctccag	4	10	14	13	1	0	0	0	0	0	0	3	2	3	2	4	3	5	4	4	3	0	1	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		G	17073177	C	G	17073177	3	3	24	1	0	0	0	0	1	0	0	0	2961	740	26	4	1413	4	CCT8L2	22	17073177	Missense_Mutation	SNP	C	TCGA-A3-3376-01A-02D-1421-08		17073177	34231389	52	1419											
TEX13A	56157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	104464656	104464656	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccaactcaccttgtctctCtctttctgcacctccacgag	6	14	4	17	1	4	0	1	0	3	0	8	1	6	0	4	0	2	1	4	0	1	3	novel		TCGA-A3-3376-01A-02D-1421-08	TCGA-A3-3376-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	31031387-393f-4bf9-ba87-cfe7330afc13	030e8c64-a55c-4996-9372-ad45846be7c0		T	104464656	C	T	104464656	2	4	24	1	0	0	0	0	0	0	0	1	15775	912	32	2		2	TEX13A	23	104464656	Silent	SNP	C	TCGA-A3-3376-01A-02D-1421-08		104464656	50805904	53	1420											
ZDHHC18	84243	broad.mit.edu	37	chr1	27176851	27176851	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggagacggaactatcgcTtcttctacgcgtttattctc	7	14	10	10	4	3	1	0	0	3	1	5	3	3	2	0	3	2	2	0	3	4	7	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	27176851	A	A	27176851	3	1	25	1	0	0	0	0	1	0	0	0	17607	1609	56	5	720	5	ZDHHC18	1	27176851	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08		27176851	222073770	1	1421											
USP24	23358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55622657	55622657	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtgagttcatctaacgaCaatttactacccaagagttc	13	13	6	9	1	2	2	1	1	1	1	3	3	2	2	1	0	3	2	1	0	6	7	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	55622657	C	T	55622657	2	4	25	1	0	0	0	0	0	0	0	1	17054	477	17	2		2	USP24	1	55622657	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	28445806	55622657	193627964	2	1422											
SYDE2	84144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85648743	85648743	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcattttcatggaaagttTcctcacagttcgtggagatt	9	17	8	7	1	3	1	3	0	0	1	5	3	4	2	1	2	0	2	1	2	1	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	85648743	T	C	85648743	3	2	25	1	0	0	0	0	1	0	0	0	15435	1792	62	3	2022	3	SYDE2	1	85648743	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08	30026086	85648743	163601878	3	1423											
FMO5	2330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	146696569	146696569	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttctacgcagcacttgatgGaagagagcccgctcactcct	9	9	9	14	2	2	2	1	1	1	1	3	4	3	3	2	1	3	3	2	1	2	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	146696569	G	A	146696569	3	1	25	1	0	0	0	0	1	0	0	0	5958	1174	41	2	1723	2	FMO5	1	146696569	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	61047826	146696569	102554052	4	1424											
LELP1	149018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153177408	153177408	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctccccagccctgcacCaagccctgtcctcctaaatg	7	8	6	20	0	0	0	0	0	0	0	3	0	3	0	8	0	4	1	8	0	3	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	153177408	C	A	153177408	2	1	25	1	0	0	0	0	0	0	0	1	8718	581	21	4		4	LELP1	1	153177408	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	6480839	153177408	96073213	5	1425											
KCNN3	3782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154744736	154744736	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggagaaggccaggcgtGccgtccagaagaacttgtac	11	7	14	9	2	0	3	0	0	0	3	1	4	1	3	3	3	3	2	3	3	5	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	154744736	G	A	154744736	3	1	25	1	0	0	0	0	1	0	0	0	8080	1319	46	2	1056	2	KCNN3	1	154744736	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	1567328	154744736	94505885	6	1426											
FMO1	2326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171244561	171244561	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtcactatgcatgaagAgaagcaagagtcagccatct	13	8	12	8	0	3	3	2	1	1	2	3	4	3	3	1	2	3	2	1	2	4	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	171244561	A	C	171244561	3	2	25	1	0	0	0	0	1	0	0	0	5954	304	11	5	408	5	FMO1	1	171244561	Missense_Mutation	SNP	A	TCGA-A3-3378-01A-01D-0966-08	16499825	171244561	78006060	7	1427											
ASTN1	460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	176993851	176993851	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaggtggtcttattcacagGacttcggggagaacccactg	10	9	12	10	1	2	1	1	0	1	1	3	3	2	2	1	5	1	0	1	5	3	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	176993851	G	A	176993851	3	1	25	1	0	0	0	0	1	0	0	0	1064	1174	41	2	2822	2	ASTN1	1	176993851	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	5749290	176993851	72256770	8	1428											
PDC	5132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186415580	186415580	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgctgactcgttcctttGaatctttgccattcctactc	5	18	5	13	1	2	2	0	2	2	0	6	2	4	2	3	0	3	2	3	0	2	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	186415580	G	A	186415580	3	1	25	1	0	0	0	0	1	0	0	0	11614	1294	45	2	557	2	PDC	1	186415580	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	9421729	186415580	62835041	9	1429											
PXDN	7837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1677555	1677555	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtccagcaagtttaggCgggaatctgtcttcatgctc	8	12	10	11	2	3	0	1	0	2	0	6	1	4	1	1	2	2	3	1	2	3	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	1677555	C	T	1677555	3	4	25	1	0	0	0	0	1	0	0	0	12849	768	27	1	3621	1	PXDN	2	1677555	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08		1677555	241521818	10	1430											
CTNNA2	1496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	80097056	80097056	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgtagcagcaagaagaCaacaggtgggaaagatttta	17	8	11	5	0	0	3	0	0	0	3	0	4	0	4	0	2	3	3	0	2	7	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	80097056	C	T	80097056	4	4	25	1	0	0	0	0	0	1	0	0	4013	479	17	2	594	2	CTNNA2	2	80097056	Nonsense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	78419501	80097056	163102317	11	1431											
CHRNA1	1134	broad.mit.edu	37	chr2	175612767	175612767	+	3'UTR	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgtttgataagtgcgagTggagcaagtagacaaatctt	14	10	11	6	2	1	2	0	1	1	1	1	4	1	3	0	1	2	3	0	1	4	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	175612767	A	A	175612767	1	1	25	0	1	0	0	0	0	0	0	0	3381	1711	59	5		5	CHRNA1	2	175612767	3'UTR	SNP	T	TCGA-A3-3378-01A-01D-0966-08	95515711	175612767	67586606	12	1432											
FRZB	2487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	183731161	183731161	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcagggacttgcacaggggGatgcggacgggctcacaggc	8	4	19	10	2	1	0	1	0	0	0	1	3	1	3	0	7	2	3	0	7	0	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	183731161	G	T	183731161	2	4	25	1	0	0	0	0	0	0	0	1	6065	1164	41	4		4	FRZB	2	183731161	Silent	SNP	G	TCGA-A3-3378-01A-01D-0966-08	8118394	183731161	59468212	13	1433											
SATB2	23314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	200213434	200213434	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaattgtacctgtgtgcggTtgaatgccactcttgcaaag	9	13	10	9	1	1	1	0	1	1	0	1	1	1	1	2	1	4	3	2	1	4	5	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	200213434	T	C	200213434	3	2	25	1	0	0	0	0	1	0	0	0	13856	1725	60	3	1058	3	SATB2	2	200213434	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08	16482273	200213434	42985939	14	1434											
C2orf47	79568	broad.mit.edu;hgsc.bcm.edu	37	chr2	200826508	200826508	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atgttttttctctaaggaagGaagtttgttaacatcctgat	11	17	8	5	0	1	1	0	1	1	0	3	3	2	3	1	2	1	3	1	2	4	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	200826508	G	C	200826508	3	2	25	1	0	0	0	0	1	0	0	0	2169	1165	41	4	668	4	C2orf47	2	200826508	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	613074	200826508	42372865	15	1435											
PDCD6IP	10015	broad.mit.edu;hgsc.bcm.edu	37	chr3	33887039	33887039	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgagctgaatgctgccAtcccttctgctaatccagca	9	10	8	14	0	1	2	0	2	1	0	3	2	3	2	4	0	6	4	4	0	2	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	33887039	A	T	33887039	3	4	25	1	0	0	0	0	1	0	0	0	11624	217	8	5	1661	5	PDCD6IP	3	33887039	Missense_Mutation	SNP	A	TCGA-A3-3378-01A-01D-0966-08		33887039	164135391	16	1436											
ZNF445	353274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	44488853	44488853	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaatgagtgattgcggaaGgccttgccacactggctgca	10	8	14	9	1	0	2	0	2	0	0	0	4	0	4	2	4	3	2	2	4	2	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	44488853	G	A	44488853	2	1	25	1	0	0	0	0	0	0	0	1	17917	987	35	2		2	ZNF445	3	44488853	Silent	SNP	G	TCGA-A3-3378-01A-01D-0966-08	10601814	44488853	153533577	17	1437											
MITF	4286	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	69928509	69928509	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacccttccctctgccaCgcaggtgccgatggaagtcc	7	7	9	18	2	1	0	0	0	1	0	3	2	3	1	6	2	2	1	6	2	1	1	rs190215588	by1000genomes	TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	69928509	C	T	69928509	3	4	25	1	0	0	0	0	1	0	0	0	9596	536	19	1	500	1	MITF	3	69928509	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	25439656	69928509	128093921	18	1438											
BDH1	622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	197238941	197238941	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagccactgctgcagtagGtctccatcttggcgatcttt	6	13	11	11	1	3	0	0	0	3	0	4	2	3	1	2	3	3	3	2	3	1	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	197238941	G	A	197238941	3	1	25	1	0	0	0	0	1	0	0	0	1390	1261	44	2	178	2	BDH1	3	197238941	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	127310432	197238941	783489	19	1439											
GPR125	166647	broad.mit.edu;hgsc.bcm.edu	37	chr4	22437012	22437012	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatataacatccattttgtcAgaaaagttggctgcttccac	13	13	6	9	0	1	1	1	0	0	1	3	1	3	1	2	1	2	3	2	1	5	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	22437012	A	T	22437012	2	4	25	1	0	0	0	0	0	0	0	1	6639	175	7	5		5	GPR125	4	22437012	Silent	SNP	A	TCGA-A3-3378-01A-01D-0966-08		22437012	168717264	20	1440											
PI4K2B	55300	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	25258214	25258214	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctataatgcgattgaccgtgCaaaatcaagaggcaaaaagt	17	8	9	7	2	1	2	1	1	0	1	1	3	1	2	1	1	2	2	1	1	7	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	25258214	C	T	25258214	3	4	25	1	0	0	0	0	1	0	0	0	11872	710	25	2	688	2	PI4K2B	4	25258214	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	2821202	25258214	165896062	21	1441											
BMP3	651	broad.mit.edu;hgsc.bcm.edu	37	chr4	81952663	81952663	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtccaggcggcccggacAccgggctccctggagggagg	6	3	18	14	4	0	0	0	0	0	0	2	3	2	3	4	8	0	1	4	8	0	0	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	81952663	A	T	81952663	2	4	25	1	0	0	0	0	0	0	0	1	1461	146	6	5		5	BMP3	4	81952663	Silent	SNP	A	TCGA-A3-3378-01A-01D-0966-08	56694449	81952663	109201613	22	1442											
PRSS12	8492	hgsc.bcm.edu;ucsc.edu	37	chr4	119239601	119239601	+	Frame_Shift_Del	DEL	T	T	-																															tatgctctccccaggagctcTttggacactgctcaattgaa																								novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		-	119239601	T	-	119239601	7	5	25	1	0	1	0	1	0	0	0	0	12617	1609	56	0	1581	0	PRSS12	4	119239601	Frame_Shift_Del	DEL	T	TCGA-A3-3378-01A-01D-0966-08	37286938	119239601	71914675	23	1443											
LRBA	987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	151511932	151511932	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgccttccaggaggatCtcgttttctgagttctgatt	6	16	9	10	2	4	2	1	2	3	0	7	4	5	4	2	2	0	2	2	2	0	5	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	151511932	C	A	151511932	3	1	25	1	0	0	0	0	1	0	0	0	8931	912	32	4	2508	4	LRBA	4	151511932	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	32272331	151511932	39642344	24	1444											
ANKH	56172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	14751238	14751238	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgttcttgtagtagcccagGcacagggtggtgcagcgcac	8	9	14	10	1	1	0	0	0	1	0	1	0	1	0	1	3	3	6	1	3	2	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	14751238	G	A	14751238	2	1	25	1	0	0	0	0	0	0	0	1	627	1195	42	2		2	ANKH	5	14751238	Silent	SNP	G	TCGA-A3-3378-01A-01D-0966-08		14751238	166164022	25	1445											
PPWD1	23398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64867889	64867889	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaatctgggatgattgaaTactggactgggcctcctcat	11	11	10	9	0	2	2	1	2	1	0	3	4	3	4	2	3	1	0	2	3	3	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	64867889	T	C	64867889	3	2	25	1	0	0	0	0	1	0	0	0	12416	1406	49	3	763	3	PPWD1	5	64867889	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08	50116651	64867889	116047371	26	1446											
FAM50B	26240	broad.mit.edu;ucsc.edu	37	chr6	3850568	3850568	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctgcgccaagagtgggagGcgcagcgcgagaaagtgaag	12	3	18	8	4	0	3	0	1	0	2	0	5	0	4	1	2	3	2	1	2	3	0	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	3850568	T	T	3850568	3	4	25	1	0	0	0	0	1	0	0	0	5578	1203	42	4	525	4	FAM50B	6	3850568	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08		3850568	167264499	27	1447											
OR2J3	442186	broad.mit.edu;hgsc.bcm.edu	37	chr6	29079901	29079901	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatctctgctacaccacCagctctatccctcagttgct	7	12	6	16	0	3	0	1	0	2	0	5	1	4	1	3	1	4	4	3	1	2	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		G	29079901	C	G	29079901	2	3	25	1	0	0	0	0	0	0	0	1	11004	581	21	4		4	OR2J3	6	29079901	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	25229333	29079901	142035166	28	1448											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51524031	51524031	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacgttgaccaactcttctAtaatgactagtgcaagtcac	12	12	6	11	1	3	2	1	2	2	0	3	2	3	2	1	0	3	2	1	0	6	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		G	51524031	A	G	51524031	2	3	25	1	0	0	0	0	0	0	0	1	11971	456	16	3		3	PKHD1	6	51524031	Silent	SNP	A	TCGA-A3-3378-01A-01D-0966-08	22444130	51524031	119591036	29	1449											
PLG	5340	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161152232	161152232	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacctccgcctgttgtccTgcttccagatgtagagactc	7	11	9	14	1	0	2	0	0	0	2	4	3	3	2	5	0	2	4	5	0	1	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	161152232	T	C	161152232	3	2	25	1	0	0	0	0	1	0	0	0	12086	1580	55	3	1452	3	PLG	6	161152232	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08	109628201	161152232	9962835	30	1450											
ZNF107	51427	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	64166913	64166913	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaagcaaaatattccaGtgtaataaatatgtgaaagt	18	10	6	7	0	0	1	0	1	0	0	1	1	1	1	3	0	1	2	3	0	9	5	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	64166913	G	C	64166913	3	2	25	1	0	0	0	0	1	0	0	0	17714	1020	36	4	237	4	ZNF107	7	64166913	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08		64166913	94971750	31	1451											
EPHB4	2050	broad.mit.edu;hgsc.bcm.edu	37	chr7	100401094	100401094	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctgcaggtcagtactgcgGggccggtcctcctgtcccac	4	9	12	16	2	1	0	1	0	0	0	5	0	5	0	5	4	3	2	5	4	1	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	100401094	G	C	100401094	3	2	25	1	0	0	0	0	1	0	0	0	5177	1232	43	4	14	4	EPHB4	7	100401094	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	36234181	100401094	58737569	32	1452											
HIPK2	28996	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	139281488	139281488	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggggcgtgtttctgttcctCctcctcgtccgtgtcactgc	1	14	12	14	3	2	0	1	0	1	0	7	0	6	0	4	2	1	2	4	2	0	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	139281488	C	T	139281488	3	4	25	1	0	0	0	0	1	0	0	0	7117	864	30	2	920	2	HIPK2	7	139281488	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	38880394	139281488	19857175	33	1453											
LRRC61	65999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150034457	150034457	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcgtgtgattgggcgtggTagtgagttctaccagctgtg	6	12	17	6	2	1	2	0	2	1	0	1	3	1	2	1	2	3	3	1	2	2	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	150034457	T	A	150034457	2	1	25	1	0	0	0	0	0	0	0	1	9017	1625	57	5		5	LRRC61	7	150034457	Silent	SNP	T	TCGA-A3-3378-01A-01D-0966-08	10752969	150034457	9104206	34	1454											
SLC20A2	6575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	42317465	42317465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgattgctatggtagcagCatagaatactgggagtgccc	11	11	12	7	0	0	2	0	1	0	1	0	3	0	3	1	2	5	4	1	2	5	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	42317465	C	T	42317465	3	4	25	1	0	0	0	0	1	0	0	0	14441	710	25	2	1424	2	SLC20A2	8	42317465	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08		42317465	104046557	35	1455											
ASTN2	23245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	119204736	119204736	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgggttacctaccttcTgccttgttgtcatctaccag	8	14	7	12	0	3	0	1	0	2	0	3	0	3	0	4	1	5	2	4	1	4	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	119204736	T	C	119204736	2	2	25	1	0	0	0	0	0	0	0	1	1065	1567	55	3		3	ASTN2	9	119204736	Silent	SNP	T	TCGA-A3-3378-01A-01D-0966-08		119204736	22008695	36	1456											
NMT2	9397	hgsc.bcm.edu	37	chr10	15151779	15151779	+	Frame_Shift_Del	DEL	T	T	-																															tctcctataccaaacttgagTttttccaagaatgtcttatt																								novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		-	15151779	T	-	15151779	7	5	25	1	0	1	0	1	0	0	0	0	10504	1722	60	0	106	0	NMT2	10	15151779	Frame_Shift_Del	DEL	T	TCGA-A3-3378-01A-01D-0966-08		15151779	120382968	37	1457											
C10orf35	219738	broad.mit.edu;hgsc.bcm.edu	37	chr10	71392632	71392632	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctgggtgctgctcaGtcccccttcaatgacctcaa	7	9	10	15	0	3	1	3	1	0	0	4	1	4	1	4	2	2	3	4	2	2	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	71392632	G	T	71392632	3	4	25	1	0	0	0	0	1	0	0	0	1603	1020	36	4	189	4	C10orf35	10	71392632	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	56240853	71392632	64142115	38	1458											
IFIT1	3434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91162071	91162071	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatcaggtcaaggatagTctggagcaattgagatgtca	13	10	12	6	0	5	1	4	1	1	1	5	5	5	3	0	3	1	1	0	3	3	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	91162071	T	A	91162071	3	1	25	1	0	0	0	0	1	0	0	0	7521	1664	58	5	45	5	IFIT1	10	91162071	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08	19769439	91162071	44372676	39	1459											
JAKMIP3	282973	broad.mit.edu	37	chr10	133961472	133961472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatcaaacaaatggagaCggaagaggctcggctcagac	15	4	13	9	2	2	4	2	0	0	4	3	6	2	5	0	4	1	3	0	4	3	0	rs138739966	by1000genomes	TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	133961472	T	T	133961472	3	4	25	1	0	0	0	0	1	0	0	0	7942	536	19	1	1816	1	JAKMIP3	10	133961472	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	42799401	133961472	1573275	40	1460											
LRDD	0	broad.mit.edu;hgsc.bcm.edu	37	chr11	803579	803579	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacccagtgtgtcccggcGttgccctcctgggaaggggg	4	7	17	13	2	0	0	0	0	0	0	2	1	2	1	4	5	1	2	4	5	1	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	803579	G	A	803579	3	1	25	1	0	0	0	0	1	0	0	0	8936	1145	40	1	2484	1	LRDD	11	803579	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08		803579	134202937	41	1461											
MUC2	4583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1087470	1087470	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccaagcccttctacgaggCctgtgtgcacgactcgtgct	6	9	10	16	3	1	0	0	0	1	0	2	2	1	0	4	1	4	2	4	1	2	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	1087470	C	A	1087470	3	1	25	1	0	0	0	0	1	0	0	0	9975	739	26	4	3315	4	MUC2	11	1087470	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	283891	1087470	133919046	42	1462											
GALNTL4	374378	hgsc.bcm.edu;ucsc.edu	37	chr11	11470318	11470318	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaggtcaggcaggggcCggtccaggggcaggcggtcg	5	5	21	10	3	2	1	1	1	1	0	4	1	3	1	2	9	0	2	2	9	0	0	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	11470318	C	A	11470318	3	1	25	1	0	0	0	0	1	0	0	0	6223	652	23	4	1462	4	GALNTL4	11	11470318	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	10382848	11470318	123536198	43	1463											
IGSF22	283284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18736130	18736130	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggctcccagtggccgCgtgcacgtcggacatcccgc	5	6	14	16	5	0	0	0	0	0	0	3	1	2	1	3	3	2	3	3	3	0	0	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	18736130	C	T	18736130	3	4	25	1	0	0	0	0	1	0	0	0	7600	768	27	1	2455	1	IGSF22	11	18736130	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	7265812	18736130	116270386	44	1464											
TNKS1BP1	85456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57077445	57077445	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgtacctaccatggtGgtccctcttccccaaatctt	6	13	7	15	0	2	0	0	0	2	0	4	0	4	0	5	2	3	3	5	2	3	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	57077445	G	A	57077445	3	1	25	1	0	0	0	0	1	0	0	0	16319	1348	47	2	2473	2	TNKS1BP1	11	57077445	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	38341315	57077445	77929071	45	1465											
SERPING1	710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57373959	57373959	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaactcagttataaaagtgcCcatgatgaatagcaagaagt	18	9	8	6	0	1	3	1	2	0	1	1	3	1	3	1	0	3	2	1	0	8	3	rs61761890	bycluster;alternate_allele	TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		G	57373959	C	G	57373959	3	3	25	1	0	0	0	0	1	0	0	0	14118	623	22	4	986	4	SERPING1	11	57373959	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	296514	57373959	77632557	46	1466											
SENP1	29843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48442848	48442848	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagaaaaaggtattaaatGcatgcacacttggcaagccc	16	8	9	8	0	0	2	0	1	0	1	0	2	0	2	1	2	3	4	1	2	7	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	48442848	G	A	48442848	3	1	25	1	0	0	0	0	1	0	0	0	14048	1319	46	2	476	2	SENP1	12	48442848	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08		48442848	85409047	47	1467											
KRT82	3888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52793886	52793886	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccggctgttgtccatcttCacaatgaccgaggtctcaga	8	11	9	13	2	3	2	2	1	2	1	6	3	5	2	3	2	0	2	3	2	1	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	52793886	C	T	52793886	2	4	25	1	0	0	0	0	0	0	0	1	8496	813	29	2		2	KRT82	12	52793886	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	4351038	52793886	81058009	48	1468											
MYO1A	4640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57437906	57437906	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacctgtacagccctgaagCtggaggcgtcgtccatgcca	8	7	11	15	2	0	1	0	1	0	0	2	2	1	2	5	2	4	2	5	2	2	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	57437906	C	T	57437906	3	4	25	1	0	0	0	0	1	0	0	0	10068	797	28	2	2483	2	MYO1A	12	57437906	Missense_Mutation	SNP	C	TCGA-A3-3378-01A-01D-0966-08	4644020	57437906	76413989	49	1469											
LRRIQ1	84125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	85546098	85546098	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctagcattagattccacccGcttcccttcacaaacactgc	10	10	5	16	1	1	1	1	0	0	1	3	1	3	1	3	0	3	3	3	0	3	5	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	85546098	G	A	85546098	3	1	25	1	0	0	0	0	1	0	0	0	9029	1087	38	1	4448	1	LRRIQ1	12	85546098	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	28108192	85546098	48305797	50	1470											
MTUS2	23281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	29608253	29608253	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagtctctacagttccGatccttcaggtaaccgatcc	9	10	6	16	2	2	0	1	0	1	0	6	2	5	0	6	1	2	2	6	1	2	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	29608253	G	T	29608253	3	4	25	1	0	0	0	0	1	0	0	0	9966	1058	37	4	2473	4	MTUS2	13	29608253	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08		29608253	85561625	51	1471											
PDS5B	23047	broad.mit.edu	37	chr13	33332255	33332255	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgttctggaaatattaatGgctaaaaatgaaaataacag	18	13	7	3	0	1	1	0	1	1	0	1	2	1	2	0	2	1	2	0	2	9	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	33332255	C	C	33332255	3	2	25	1	0	0	0	0	1	0	0	0	11692	1348	47	4	3189	4	PDS5B	13	33332255	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	3724002	33332255	81837623	52	1472											
ZBTB1	22890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64988623	64988623	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctgcttccagcaaacAgaacagcaaaatgatatttg	14	11	6	10	0	2	2	0	1	2	1	3	2	3	2	1	0	5	3	1	0	5	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	64988623	A	T	64988623	3	4	25	1	0	0	0	0	1	0	0	0	17521	188	7	5	403	5	ZBTB1	14	64988623	Missense_Mutation	SNP	A	TCGA-A3-3378-01A-01D-0966-08		64988623	42360917	53	1473											
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51758414	51758414	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttggtgctcctgtattTgtgtatctgaaaaaaaggca	11	14	10	6	0	2	1	0	1	2	0	3	2	3	1	1	2	1	4	1	2	5	4	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	51758414	T	C	51758414	3	2	25	1	0	0	0	0	1	0	0	0	4595	1812	63	3	1682	3	DMXL2	15	51758414	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08		51758414	50772978	54	1474											
CYP1A1	1543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75013623	75013623	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatagggcagatgggatctGtcagagagccggggccgccg	9	6	17	9	3	2	2	1	0	1	2	2	4	2	3	3	4	1	1	3	4	2	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	75013623	G	C	75013623	3	2	25	1	0	0	0	0	1	0	0	0	4149	1368	48	4	467	4	CYP1A1	15	75013623	Missense_Mutation	SNP	G	TCGA-A3-3378-01A-01D-0966-08	23255209	75013623	27517769	55	1475											
DNAJA4	55466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78572439	78572439	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgcgatgaaggaatgccCatctacaaagcacccctgga	12	6	11	12	2	1	1	0	1	1	0	1	4	1	3	3	2	4	1	3	2	4	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		G	78572439	C	G	78572439	2	3	25	1	0	0	0	0	0	0	0	1	4614	581	21	4		4	DNAJA4	15	78572439	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	3558816	78572439	23958953	56	1476											
RHCG	51458	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90039695	90039695	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtcgtagcgcacgaacacCccgaagagaatcaccataat	16	5	8	12	4	1	1	1	0	0	1	2	4	1	1	3	0	2	2	3	0	6	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	90039695	C	T	90039695	2	4	25	1	0	0	0	0	0	0	0	1	13328	610	22	2		2	RHCG	15	90039695	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	11467256	90039695	12491697	57	1477											
POLR2A	5430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7417116	7417116	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacaccccaaccagtcctTcttacagtcccagctcccca	10	8	4	19	0	1	0	0	0	1	0	4	0	4	0	7	0	4	2	7	0	3	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	7417116	T	C	7417116	3	2	25	1	0	0	0	0	1	0	0	0	12214	1783	62	3	5647	3	POLR2A	17	7417116	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08		7417116	73778094	58	1478											
DNAH2	146754	broad.mit.edu;ucsc.edu	37	chr17	7630455	7630455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagaagcccctcttccttTcccgagctgcgctgacagga	7	10	10	14	2	1	2	0	1	1	1	3	4	3	3	4	1	3	3	4	1	2	3	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	7630455	C	C	7630455	3	2	25	1	0	0	0	0	1	0	0	0	4602	1783	62	3	254	3	DNAH2	17	7630455	Missense_Mutation	SNP	T	TCGA-A3-3378-01A-01D-0966-08	213339	7630455	73564755	59	1479											
HSF5	124535	broad.mit.edu	37	chr17	56565201	56565201	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcggttgggcgggcggcaGggcacctccaggccggccgc	5	3	19	14	5	0	0	0	0	0	0	1	0	1	0	4	7	1	3	4	7	1	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	56565201	T	T	56565201	2	4	25	1	0	0	0	0	0	0	0	1	7399	987	35	4		4	HSF5	17	56565201	Silent	SNP	G	TCGA-A3-3378-01A-01D-0966-08	48934746	56565201	24630009	60	1480											
USP32	84669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	58282987	58282987	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccattggtagttagggtgaAcatttcatttgtagatggcg	9	14	12	6	1	1	2	1	1	0	1	1	2	1	2	1	3	1	3	1	3	4	6	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	58282987	A	C	58282987	3	2	25	1	0	0	0	0	1	0	0	0	17062	43	2	5	1780	5	USP32	17	58282987	Missense_Mutation	SNP	A	TCGA-A3-3378-01A-01D-0966-08	1717786	58282987	22912223	61	1481											
ANGPTL4	51129	broad.mit.edu	37	chr19	8429515	8429515	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccctgaggtccttcacAgcctgcaggtacgtgtcccc	6	9	11	15	1	1	1	1	1	0	0	3	2	3	2	5	3	3	2	5	3	1	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	8429515	T	T	8429515	3	4	25	1	0	0	0	0	1	0	0	0	616	188	7	5	312	5	ANGPTL4	19	8429515	Missense_Mutation	SNP	A	TCGA-A3-3378-01A-01D-0966-08		8429515	50699468	62	1482											
B3GNT8	374907	hgsc.bcm.edu	37	chr19	41931983	41931984	+	Frame_Shift_Ins	INS	-	-	G																															actcacggtggggcagtggcINSggcccagccaggccagcagc																								novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		G	41931984	-	G	41931983	7	5	25	1	0	1	1	0	0	0	0	0	1263	768	27	0	496	0	B3GNT8	19	41931983	Frame_Shift_Ins	INS	-	TCGA-A3-3378-01A-01D-0966-08	33502468	41931983	17197000	63	1483											
ERCC2	2068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45857991	45857991	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtggccaggcgtacctgCtcataccaggaggccacggt	7	6	16	12	2	1	0	1	0	0	0	1	1	1	1	4	7	3	2	4	7	2	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	45857991	C	T	45857991	2	4	25	1	0	0	0	0	0	0	0	1	5213	796	28	2		2	ERCC2	19	45857991	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08	3926008	45857991	13270992	64	1484											
ZNF543	125919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57839655	57839655	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacctcacacggcaccagcgGattcacagtggagagaagcc	12	4	11	14	2	2	1	2	0	0	1	2	4	2	3	3	3	2	1	3	3	1	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		A	57839655	G	A	57839655	2	1	25	1	0	0	0	0	0	0	0	1	17975	1161	41	2		2	ZNF543	19	57839655	Silent	SNP	G	TCGA-A3-3378-01A-01D-0966-08	11981664	57839655	1289328	65	1485											
CCT8	10694	broad.mit.edu;hgsc.bcm.edu	37	chr21	30442608	30442608	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtggtttgggcaagctcCttgcaagcttgtatgtttct	6	15	12	8	1	1	0	0	0	1	0	2	1	2	0	1	2	3	7	1	2	3	5	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	30442608	C	T	30442608	2	4	25	1	0	0	0	0	0	0	0	1	2960	680	24	2		2	CCT8	21	30442608	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08		30442608	17687287	66	1486											
EP300	2033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41566499	41566499	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgaccagaagatacccaAgcccaagcgactgcaggaat	14	5	9	13	1	0	3	0	1	0	2	1	5	1	4	4	1	4	1	4	1	5	1	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		T	41566499	A	T	41566499	3	4	25	1	0	0	0	0	1	0	0	0	5148	72	3	5	4482	5	EP300	22	41566499	Missense_Mutation	SNP	A	TCGA-A3-3378-01A-01D-0966-08		41566499	9738067	67	1487											
MAGEB6	158809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	26212326	26212326	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgcaggtgtttcaggCtcaaaatatgatgtggctgc	9	12	12	8	0	2	2	2	2	0	0	2	2	2	2	1	3	2	4	1	3	3	2	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		G	26212326	C	G	26212326	2	3	25	1	0	0	0	0	0	0	0	1	9179	784	28	4		4	MAGEB6	23	26212326	Silent	SNP	C	TCGA-A3-3378-01A-01D-0966-08		26212326	129058234	68	1488											
ZNF182	7569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	47836772	47836772	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgaaggttttcctacaTgcagtacattcaaagggttt	10	15	9	7	0	1	1	1	1	0	0	2	1	2	1	1	2	4	5	1	2	4	7	novel		TCGA-A3-3378-01A-01D-0966-08	TCGA-A3-3378-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f04f3a00-e743-4fed-a0b0-e6a81bdd6ddd	eacc4f56-30de-4978-a291-68a378436c34		C	47836772	T	C	47836772	2	2	25	1	0	0	0	0	0	0	0	1	17749	1451	51	3		3	ZNF182	23	47836772	Silent	SNP	T	TCGA-A3-3378-01A-01D-0966-08	21624446	47836772	107433788	69	1489											
CYB5RL	606495	broad.mit.edu	37	chr1	54661136	54661136	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgtccttgctggcttGggctgcctcccaccttgcca	2	12	10	17	0	0	0	0	0	0	0	3	0	3	0	6	2	3	4	6	2	0	3	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	54661136	T	T	54661136	3	4	26	1	0	0	0	0	1	0	0	0	4130	1357	47	4	817	4	CYB5RL	1	54661136	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08		54661136	194589485	1	1490											
PRCC	5546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156767110	156767110	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcagcggcggaaacacCagatcacatatcttattcat	13	8	8	12	2	3	1	2	0	1	1	3	2	3	2	2	2	3	1	2	2	3	3	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	156767110	C	A	156767110	3	1	26	1	0	0	0	0	1	0	0	0	12449	595	21	4	1388	4	PRCC	1	156767110	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	102105974	156767110	92483511	2	1491											
PROKR1	10887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	68882419	68882419	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctacgtgctatgctgggCgcccttctacggcttcacca	5	10	10	16	4	2	0	1	0	1	0	2	0	2	0	3	2	4	3	3	2	3	5	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	68882419	C	T	68882419	3	4	26	1	0	0	0	0	1	0	0	0	12554	768	27	1	899	1	PROKR1	2	68882419	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08		68882419	174316954	3	1492											
DQX1	165545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74745642	74745642	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgctgtagaatctgcCattccttcccttagctggtt	5	15	7	14	0	1	1	0	0	1	1	4	1	4	1	4	1	3	4	4	1	3	5	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	74745642	C	T	74745642	3	4	26	1	0	0	0	0	1	0	0	0	4751	594	21	2	72	2	DQX1	2	74745642	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	5863223	74745642	168453731	4	1493											
IDH1	3417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	209104723	209104723	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcatgccgagagagccAtaccctgtaagtagtggagc	11	8	12	10	1	2	1	2	0	0	1	2	4	2	2	3	1	4	2	3	1	3	3	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		C	209104723	A	C	209104723	4	2	26	1	0	0	0	0	0	1	0	0	7494	224	8	5	401	5	IDH1	2	209104723	Nonsense_Mutation	SNP	A	TCGA-A3-3380-01A-01D-0966-08	134359081	209104723	34094650	5	1494											
C2orf67	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	211018808	211018808	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatttacagttttgtagttGtactttatctacattagtgt	9	20	6	6	0	1	0	0	0	1	0	1	0	1	0	1	0	3	4	1	0	6	11	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	211018808	G	T	211018808	3	4	26	1	0	0	0	0	1	0	0	0	2186	1386	48	4	2520	4	C2orf67	2	211018808	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08	1914085	211018808	32180565	6	1495											
VHL	7428	hgsc.bcm.edu	37	chr3	10183851	10183851	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgcctggcacgggccGccgcatccacagctaccgag	6	4	13	18	5	0	0	0	0	0	0	1	1	1	0	6	2	3	4	6	2	1	1	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		C	10183851	G	C	10183851	3	2	26	1	0	0	0	0	1	0	0	0	17161	1087	38	4	322	4	VHL	3	10183851	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08		10183851	187838579	7	1496											
ZBTB49	166793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	4322531	4322531	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgacgagagcccagatgtgCtggaggagctcagccaagcc	10	5	15	11	1	1	3	1	1	0	2	1	6	1	5	3	2	5	2	3	2	1	0	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	4322531	C	A	4322531	3	1	26	1	0	0	0	0	1	0	0	0	17549	796	28	4	1812	4	ZBTB49	4	4322531	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08		4322531	186831745	8	1497											
KIAA0947	23379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	5462929	5462929	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctctgcaagattttaacaTaagtactttttctgagctgg	11	15	8	7	0	2	2	0	1	2	1	2	2	2	2	0	1	5	4	0	1	4	6	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	5462929	T	G	5462929	3	3	26	1	0	0	0	0	1	0	0	0	8202	1406	49	5	3532	5	KIAA0947	5	5462929	Missense_Mutation	SNP	T	TCGA-A3-3380-01A-01D-0966-08		5462929	175452331	9	1498											
ISOC1	51015	broad.mit.edu	37	chr5	128430566	128430566	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgtttctcagtcttcgCgcgaccctcgtcggtgccac	3	13	9	16	5	3	0	1	0	3	0	7	1	3	0	2	1	1	1	2	1	0	3	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	128430566	A	A	128430566	3	1	26	1	0	0	0	0	1	0	0	0	7862	768	27	4	109	4	ISOC1	5	128430566	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	122967637	128430566	52484694	10	1499											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725628	140725628	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcctggccgacctgggCagcctcgagccctccgccaa	7	5	11	18	3	0	0	0	0	0	0	3	3	2	0	7	2	2	1	7	2	1	0	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	140725628	G	G	140725628	2	3	26	1	0	0	0	0	0	0	0	1	11555	697	25	4		4	PCDHGA3	5	140725628	Silent	SNP	C	TCGA-A3-3380-01A-01D-0966-08	12295062	140725628	40189632	11	1500											
B3GAT2	135152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	71665632	71665632	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctggtgcctctggcgCagccaggcgaggcccgcgtt	3	8	17	13	4	1	0	0	0	1	0	1	1	1	0	3	5	3	3	3	5	0	1	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	71665632	C	T	71665632	2	4	26	1	0	0	0	0	0	0	0	1	1254	697	25	2		2	B3GAT2	6	71665632	Silent	SNP	C	TCGA-A3-3380-01A-01D-0966-08		71665632	99449435	12	1501											
PTPN12	5782	hgsc.bcm.edu;ucsc.edu	37	chr7	77256343	77256343	+	Frame_Shift_Del	DEL	T	T	-																															ctccaagagggaccaaaaagTtttgatgggaacacactttt																								novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		-	77256343	T	-	77256343	7	5	26	1	0	1	0	1	0	0	0	0	12783	1722	60	0	1397	0	PTPN12	7	77256343	Frame_Shift_Del	DEL	T	TCGA-A3-3380-01A-01D-0966-08		77256343	81882320	13	1502											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82583288	82583288	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactttttgttcgttcggcCtccaactcctttttatctct	4	20	4	13	2	1	0	0	0	1	0	6	0	3	0	3	1	2	2	3	1	3	8	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	82583288	C	A	82583288	3	1	26	1	0	0	0	0	1	0	0	0	11583	680	24	4	8548	4	PCLO	7	82583288	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	5326945	82583288	76555375	14	1503											
CTSB	1508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11703250	11703250	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactccccagcccaggatgCggatggcatggccacccatc	8	5	10	18	1	0	0	0	0	0	0	2	2	1	2	6	4	2	1	6	4	0	0	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	11703250	C	T	11703250	3	4	26	1	0	0	0	0	1	0	0	0	4030	768	27	1	185	1	CTSB	8	11703250	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08		11703250	134660772	15	1504											
PLAG1	5324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	57080032	57080032	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcacaataattacacttgtgGgttttctcaggagaatgagt	12	14	9	6	0	2	2	2	1	1	1	3	3	2	2	0	2	1	1	0	2	4	5	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	57080032	G	T	57080032	2	4	26	1	0	0	0	0	0	0	0	1	12018	1219	43	4		4	PLAG1	8	57080032	Silent	SNP	G	TCGA-A3-3380-01A-01D-0966-08	45376782	57080032	89283990	16	1505											
KCNK18	338567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118969176	118969176	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattccctttctttacccGccccctcctctccaagtggt	7	13	4	17	1	2	0	0	0	2	0	5	0	4	0	6	1	1	0	6	1	4	4	rs139101102		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	118969176	G	A	118969176	3	1	26	1	0	0	0	0	1	0	0	0	8065	1087	38	1	531	1	KCNK18	10	118969176	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08		118969176	16565571	17	1506											
OR4C13	283092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	49974717	49974717	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catcacagttgtcatcttatCctttataccctgcatatttg	9	17	4	11	0	3	0	2	0	1	0	4	0	4	0	2	0	2	2	2	0	4	7	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	49974717	C	T	49974717	3	4	26	1	0	0	0	0	1	0	0	0	11047	855	30	2	745	2	OR4C13	11	49974717	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08		49974717	85031799	18	1507											
C2CD3	26005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73850649	73850649	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtattaggtatggtaattaCctcggagtggttgatctact	9	15	12	5	1	1	1	0	1	1	0	2	2	1	2	1	5	2	4	1	5	6	7	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	73850649	C	T	73850649	5	4	26	1	0	0	0	0	0	0	1	0	2154	521	18	2	5295	2	C2CD3	11	73850649	Splice_Site	SNP	C	TCGA-A3-3380-01A-01D-0966-08	23875932	73850649	61155867	19	1508											
LPCAT3	10162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7087581	7087581	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgtttcaaagagccacAccttcatgttggcacaggca	10	11	10	10	0	2	1	2	0	0	1	2	1	2	1	2	3	1	5	2	3	1	4	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	7087581	A	G	7087581	3	3	26	1	0	0	0	0	1	0	0	0	8912	159	6	3	517	3	LPCAT3	12	7087581	Missense_Mutation	SNP	A	TCGA-A3-3380-01A-01D-0966-08		7087581	126764314	20	1509											
CLSTN3	9746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7288076	7288076	+	Missense_Mutation	SNP	G	G	T																															tgctccccccagtacagccaGatctgctactatgagattct																								novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	7288076	G	T	7288076	3	4	26	1	0	0	0	0	1	0	0	0	3563	933	33	4	551	4	CLSTN3	12	7288076	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08	200495	7288076	126563819	21	1510	22	2									
CLSTN3	9746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7288077	7288077	+	Missense_Mutation	SNP	A	A	G																															gctccccccagtacagccagAtctgctactatgagattctc																								novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	7288077	A	G	7288077	3	3	26	1	0	0	0	0	1	0	0	0	3563	333	12	3	552	3	CLSTN3	12	7288077	Missense_Mutation	SNP	A	TCGA-A3-3380-01A-01D-0966-08	1	7288077	126563818	22	1511	22	2									
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	13769424	13769424	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttggcaggggactgtgttCctcatgcaggttccactcag	6	13	12	10	0	2	0	2	0	0	0	4	1	4	1	2	4	1	4	2	4	0	4	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	13769424	C	A	13769424	3	1	26	1	0	0	0	0	1	0	0	0	6780	854	30	4	3197	4	GRIN2B	12	13769424	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	6481347	13769424	120082471	23	1512											
OR10AD1	121275	hgsc.bcm.edu	37	chr12	48596138	48596139	+	Frame_Shift_Ins	INS	-	-	G																															ctgctagacagactgtggctINSgggccagcctggttcttcca																								novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	48596139	-	G	48596138	7	5	26	1	0	1	1	0	0	0	0	0	10896	1580	55	0	19	0	OR10AD1	12	48596138	Frame_Shift_Ins	INS	-	TCGA-A3-3380-01A-01D-0966-08	34826714	48596138	85255757	24	1513											
RND1	27289	hgsc.bcm.edu	37	chr12	49259528	49259529	+	Frame_Shift_Ins	INS	-	-	G																															acatctggccacgactggctINSggggggcccgtctctccttc																								novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	49259529	-	G	49259528	7	5	26	1	0	1	1	0	0	0	0	0	13421	1580	55	0	695	0	RND1	12	49259528	Frame_Shift_Ins	INS	-	TCGA-A3-3380-01A-01D-0966-08	663390	49259528	84592367	25	1514											
KCNRG	283518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	50594550	50594550	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgaaacaccaaaaccagAgactatcatcataccagagc	19	5	6	11	0	2	3	2	1	0	2	2	5	2	3	3	0	4	0	3	0	6	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	50594550	A	G	50594550	3	3	26	1	0	0	0	0	1	0	0	0	8087	304	11	3	887	3	KCNRG	13	50594550	Missense_Mutation	SNP	A	TCGA-A3-3380-01A-01D-0966-08		50594550	64575328	26	1515											
OR10G2	26534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	22102295	22102295	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccggcgcctcccatcagcgGtgcgtatcttcaggatggca	6	8	12	15	4	3	0	2	0	1	0	4	1	4	1	3	4	2	2	3	4	1	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		C	22102295	G	C	22102295	3	2	26	1	0	0	0	0	1	0	0	0	10899	1261	44	4	231	4	OR10G2	14	22102295	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08		22102295	85247245	27	1516											
RNF151	146310	broad.mit.edu	37	chr16	2018623	2018623	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcgctgccccctgggCtgcggggccaccctggaccc	4	4	14	19	2	0	0	0	0	0	0	0	1	0	1	5	4	4	3	5	4	0	0	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	2018623	A	A	2018623	2	1	26	1	0	0	0	0	0	0	0	1	13454	784	28	4		4	RNF151	16	2018623	Silent	SNP	C	TCGA-A3-3380-01A-01D-0966-08		2018623	88336130	28	1517											
PKD1	5310	broad.mit.edu	37	chr16	2168149	2168149	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccagaggccagaggtcCgtggggccccaccagggtgg	6	4	18	13	1	0	2	0	0	0	2	1	2	1	2	6	7	0	0	6	7	0	0	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	2168149	G	G	2168149	3	3	26	1	0	0	0	0	1	0	0	0	11963	661	23	4	12235	4	PKD1	16	2168149	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	149526	2168149	88186604	29	1518											
ACSF3	197322	broad.mit.edu;hgsc.bcm.edu	37	chr16	89167563	89167563	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctggagctcctgagcccGgtggtcaggaagctgggggt	6	8	17	10	1	1	1	1	1	0	0	2	3	2	3	3	6	4	2	3	6	2	1	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	89167563	G	A	89167563	2	1	26	1	0	0	0	0	0	0	0	1	176	1103	39	1		1	ACSF3	16	89167563	Silent	SNP	G	TCGA-A3-3380-01A-01D-0966-08	86999414	89167563	1187190	30	1519											
ACLY	47	broad.mit.edu;hgsc.bcm.edu	37	chr17	40049295	40049295	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtaactcacgtgaaagggTagaccatggcagccactgag	12	6	14	9	1	1	3	1	2	0	1	1	3	1	3	2	3	2	3	2	3	3	2	rs144101604	alternate_allele	TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	40049295	T	G	40049295	3	3	26	1	0	0	0	0	1	0	0	0	143	1638	57	5	1773	5	ACLY	17	40049295	Missense_Mutation	SNP	T	TCGA-A3-3380-01A-01D-0966-08		40049295	41145915	31	1520											
SPAG9	9043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	49098649	49098649	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggagtatcagtaggaatTgttgccacatctgaattagc	13	11	11	6	0	2	1	1	1	1	0	2	3	2	3	1	2	2	3	1	2	6	5	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		C	49098649	T	C	49098649	2	2	26	1	0	0	0	0	0	0	0	1	14987	1799	63	3		3	SPAG9	17	49098649	Silent	SNP	T	TCGA-A3-3380-01A-01D-0966-08	9049354	49098649	32096561	32	1521											
CNDP1	84735	broad.mit.edu	37	chr18	72201786	72201786	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccttccgggggacaacGtgggtcagggcacagagaga	9	7	15	10	2	2	2	1	0	1	2	4	4	4	3	2	4	1	1	2	4	1	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	72201786	A	A	72201786	1	1	26	1	0	0	0	0	0	0	0	0	3593	1160	40	1		1	CNDP1	18	72201786	Translation_Start_Site	SNP	G	TCGA-A3-3380-01A-01D-0966-08		72201786	5875462	33	1522											
WIZ	58525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15537959	15537959	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccaggcctgggaacatCtttcgggccgtaggaggagg	8	6	17	10	2	1	0	0	0	1	0	2	3	1	3	3	6	2	2	3	6	2	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		A	15537959	C	A	15537959	3	1	26	1	0	0	0	0	1	0	0	0	17374	912	32	4	1489	4	WIZ	19	15537959	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08		15537959	43591024	34	1523											
ZNF836	162962	broad.mit.edu;hgsc.bcm.edu	37	chr19	52658790	52658790	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtgtggtttctccccagtagGatttctgtgatatcttgcaa	7	16	10	8	0	3	1	0	1	3	0	4	2	3	2	2	2	1	3	2	2	3	5	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		C	52658790	G	C	52658790	3	2	26	1	0	0	0	0	1	0	0	0	18186	1174	41	4	666	4	ZNF836	19	52658790	Missense_Mutation	SNP	G	TCGA-A3-3380-01A-01D-0966-08	37120831	52658790	6470193	35	1524											
TOB2	10766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41832382	41832382	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttcaggttgtagctgAggccttccacaaagggtgtc	7	12	14	8	0	1	1	1	1	0	0	3	1	2	1	2	4	1	4	2	4	2	4	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	41832382	A	G	41832382	3	3	26	1	0	0	0	0	1	0	0	0	16347	304	11	3	70	3	TOB2	22	41832382	Missense_Mutation	SNP	A	TCGA-A3-3380-01A-01D-0966-08		41832382	9472184	36	1525											
SBF1	6305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50893343	50893343	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcacggcacctggcccCtgcgttcccccttctcctca	4	9	7	21	2	2	0	1	0	1	0	4	0	3	0	7	2	2	3	7	2	0	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	50893343	C	T	50893343	3	4	26	1	0	0	0	0	1	0	0	0	13860	681	24	2	997	2	SBF1	22	50893343	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	9060961	50893343	411223	37	1526											
PRICKLE3	4007	hgsc.bcm.edu	37	chrX	49032303	49032304	+	In_Frame_Ins	INS	-	-	GTGATG																															cgtctgcttgggtggcggttINSgtgatggtgatggtgattat																								novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		GTGATG	49032304	-	GTGATG	49032303	7	5	26	1	0	1	1	0	0	0	0	0	12490	1812	63	0	284	0	PRICKLE3	23	49032303	In_Frame_Ins	INS	-	TCGA-A3-3380-01A-01D-0966-08		49032303	106238257	38	1527											
FGD1	2245	broad.mit.edu	37	chrX	54491893	54491893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacacactcactttgggcatCcttgctgtccggggagccat	7	10	10	14	1	1	0	1	0	0	0	3	1	3	1	3	3	2	2	3	3	0	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	54491893	T	T	54491893	3	4	26	1	0	0	0	0	1	0	0	0	5832	855	30	2	1302	2	FGD1	23	54491893	Missense_Mutation	SNP	C	TCGA-A3-3380-01A-01D-0966-08	5459590	54491893	100778667	39	1528											
ZXDB	158586	broad.mit.edu	37	chrX	57619421	57619421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggtggctgcggctggAccttcaccacctcttacaag	6	9	11	15	1	2	0	1	0	1	0	2	1	2	1	4	4	2	2	4	4	2	2	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		G	57619421	G	G	57619421	3	3	26	1	0	0	0	0	1	0	0	0	18250	275	10	3	942	3	ZXDB	23	57619421	Missense_Mutation	SNP	A	TCGA-A3-3380-01A-01D-0966-08	3127528	57619421	97651139	40	1529											
ABCD1	215	broad.mit.edu	37	chrX	153008982	153008982	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagttcgatggggagggCggctggaagttcgagaagct	9	8	17	7	3	0	1	0	0	0	1	2	5	0	3	0	5	2	4	0	5	3	3	novel		TCGA-A3-3380-01A-01D-0966-08	TCGA-A3-3380-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	269d4e2a-a425-4fde-bb51-5880f7f8b2b9	2664fe7c-61ae-40cc-9411-7b4cd795169a		T	153008982	T	T	153008982	2	4	26	1	0	0	0	0	0	0	0	1	60	755	27	1		1	ABCD1	23	153008982	Silent	SNP	C	TCGA-A3-3380-01A-01D-0966-08	95389561	153008982	2261578	41	1530											
CHD5	26038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	6170533	6170533	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacttgaagggctcgttgAggatcatgtaccgtgggtca	9	10	14	8	2	2	3	2	2	0	1	3	4	2	4	1	3	1	3	1	3	2	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	6170533	A	T	6170533	3	4	27	1	0	0	0	0	1	0	0	0	3328	304	11	5	581	5	CHD5	1	6170533	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08		6170533	243080088	1	1531											
ENO1	2023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	8926510	8926510	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaggatcatgaactcctgCatggccagcttgttgccagc	8	9	13	11	0	1	1	1	1	0	0	2	3	2	3	3	3	5	3	3	3	1	2	rs11544509	alternate_allele	TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	8926510	C	A	8926510	3	1	27	1	0	0	0	0	1	0	0	0	5121	710	25	4	833	4	ENO1	1	8926510	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	2755977	8926510	240324111	2	1532											
ANGPTL7	10218	hgsc.bcm.edu;ucsc.edu	37	chr1	11249984	11249984	+	Frame_Shift_Del	DEL	A	A	-																															gacatcatgcagctgcaggcAgcacagacggtcactcagac																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	11249984	A	-	11249984	7	5	27	1	0	1	0	1	0	0	0	0	619	175	7	0	350	0	ANGPTL7	1	11249984	Frame_Shift_Del	DEL	A	TCGA-A3-3382-01A-01D-0966-08	2323474	11249984	238000637	3	1533											
AADACL3	126767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12785730	12785730	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgcccctgattgcagaagatGacatagtgtctcagctcccg	9	9	10	13	2	1	4	1	2	1	2	3	4	2	4	3	0	2	2	3	0	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	12785730	G	C	12785730	3	2	27	1	0	0	0	0	1	0	0	0	12	1290	45	4	838	4	AADACL3	1	12785730	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	1535746	12785730	236464891	4	1534											
PRAMEF10	343071	broad.mit.edu	37	chr1	12954436	12954436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgagcaggtgctccaggtGctctttgatattactgatct	7	14	10	10	0	2	3	0	3	2	0	3	3	3	3	2	2	4	3	2	2	2	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	12954436	A	A	12954436	3	1	27	1	0	0	0	0	1	0	0	0	12428	1319	46	2	585	2	PRAMEF10	1	12954436	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	168706	12954436	236296185	5	1535											
C1orf63	57035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	25573155	25573160	+	In_Frame_Del	DEL	GAACCC	GAACCC	-																															gaccggtagtatctcctggtGaacccgtagcgcctctctcg																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	GAACCC	GAACCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	25573160	GAACCC	-	25573155	7	5	27	1	0	1	0	1	0	0	0	0	2053	1281	45	0	588	0	C1orf63	1	25573155	In_Frame_Del	DEL	GAACCC	TCGA-A3-3382-01A-01D-0966-08	12618719	25573155	223677466	6	1536											
WDTC1	23038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27621085	27621085	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtgaccttcagccccaatGgcacagagctactagtcaac	12	8	8	13	0	2	2	2	1	0	1	2	2	2	2	3	1	4	2	3	1	4	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	27621085	G	C	27621085	3	2	27	1	0	0	0	0	1	0	0	0	17341	1348	47	4	868	4	WDTC1	1	27621085	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	2047930	27621085	221629536	7	1537											
C1orf94	84970	broad.mit.edu	37	chr1	34666597	34666597	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcgggcagccgagacttCgaaacaaagtggaagtggat	14	5	14	8	3	0	1	0	0	0	1	1	5	0	3	1	3	3	1	1	3	4	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	34666597	T	T	34666597	4	4	27	1	0	0	0	0	0	1	0	0	2071	876	31	1	1244	1	C1orf94	1	34666597	Nonsense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	7045512	34666597	214584024	8	1538											
IPP	3652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46180107	46180115	+	In_Frame_Del	DEL	ATTGCTGAT	ATTGCTGAT	-																															gaacgaagttctattccttcAttgctgatgcccccaattac																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	ATTGCTGAT	ATTGCTGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	46180115	ATTGCTGAT	-	46180107	7	5	27	1	0	1	0	1	0	0	0	0	7800	214	8	0	523	0	IPP	1	46180107	In_Frame_Del	DEL	ATTGCTGAT	TCGA-A3-3382-01A-01D-0966-08	11513510	46180107	203070514	9	1539											
DNAJB4	11080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78478852	78478852	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtccaacccctttgaaaTtttctttggaagacgaatgg	11	12	10	8	1	1	2	0	1	1	1	2	4	2	3	3	3	1	0	3	3	4	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	78478852	T	C	78478852	3	2	27	1	0	0	0	0	1	0	0	0	4622	1493	52	3	335	3	DNAJB4	1	78478852	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08	32298745	78478852	170771769	10	1540											
HFM1	164045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	91818686	91818686	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccataccagcatgatgatAagcagcaccatcttttaaga	14	10	6	11	0	1	3	0	2	1	1	2	3	2	3	3	0	4	3	3	0	3	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	91818686	A	G	91818686	3	3	27	1	0	0	0	0	1	0	0	0	7083	362	13	3	2654	3	HFM1	1	91818686	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	13339834	91818686	157431935	11	1541											
PHTF1	10745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114252891	114252891	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacctgctgaaaaacatcCtctttggggtcacgtttggt	9	12	10	10	1	2	2	1	1	1	1	3	2	3	2	2	3	2	2	2	3	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	114252891	C	A	114252891	3	1	27	1	0	0	0	0	1	0	0	0	11862	680	24	4	1070	4	PHTF1	1	114252891	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	22434205	114252891	134997730	12	1542											
ATP1A1	476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	116932982	116932982	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggatgacagtggcccacAtgtggtttgacaatcaaatc	12	9	10	10	1	1	2	1	2	0	0	2	3	1	3	2	3	0	1	2	3	2	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	116932982	A	G	116932982	3	3	27	1	0	0	0	0	1	0	0	0	1128	217	8	3	1221	3	ATP1A1	1	116932982	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	2680091	116932982	132317639	13	1543											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu	37	chr1	144857634	144857634	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctctgttgattatgggCgtttctgagccaggagtaga	7	15	13	6	1	2	3	0	2	2	1	2	4	2	4	1	2	2	4	1	2	2	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	144857634	C	T	144857634	2	4	27	1	0	0	0	0	0	0	0	1	11643	755	27	1		1	PDE4DIP	1	144857634	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	27924652	144857634	104392987	14	1544											
TARS2	80222	broad.mit.edu;hgsc.bcm.edu	37	chr1	150476838	150476838	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcacctccacgatgccctgGgccggccacatcagtgtggg	6	7	13	15	2	1	0	1	0	0	0	2	1	2	0	5	3	2	1	5	3	0	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	150476838	G	A	150476838	3	1	27	1	0	0	0	0	1	0	0	0	15559	1232	43	2	1699	2	TARS2	1	150476838	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	5619204	150476838	98773783	15	1545											
CTSE	1510	broad.mit.edu;hgsc.bcm.edu	37	chr1	206325277	206325277	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggccagcagtttggagaaAgtgtcacagagccaggccag	11	7	14	9	0	1	2	1	0	0	2	1	3	1	2	3	3	2	2	3	3	1	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	206325277	A	T	206325277	3	4	27	1	0	0	0	0	1	0	0	0	4033	72	3	5	520	5	CTSE	1	206325277	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	55848439	206325277	42925344	16	1546											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	216380760	216380760	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgtcctctgggcggaggTtgctggaatggagctaaatt	8	12	14	7	1	1	0	0	0	1	0	2	3	2	3	1	5	2	3	1	5	3	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	216380760	T	G	216380760	3	3	27	1	0	0	0	0	1	0	0	0	17035	1722	60	5	12679	5	USH2A	1	216380760	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08	10055483	216380760	32869861	17	1547											
OR2L8	391190	broad.mit.edu;hgsc.bcm.edu	37	chr1	248112339	248112339	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctccacacacccatgtatttCctactgagtcagctctccct	8	12	4	17	0	2	1	1	1	1	0	5	1	4	1	4	0	2	2	4	0	2	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	248112339	C	G	248112339	3	3	27	1	0	0	0	0	1	0	0	0	11009	854	30	4	182	4	OR2L8	1	248112339	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	31731579	248112339	1138282	18	1548											
OR2T27	403239	broad.mit.edu;hgsc.bcm.edu	37	chr1	248813490	248813490	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacagcctttcccctcccCtctgcctcgctcatcctata	5	11	4	21	1	2	0	1	0	1	0	6	0	5	0	8	0	2	1	8	0	2	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	248813490	C	T	248813490	2	4	27	1	0	0	0	0	0	0	0	1	11021	680	24	2		2	OR2T27	1	248813490	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	701151	248813490	437131	19	1549											
NCOA1	8648	hgsc.bcm.edu;ucsc.edu	37	chr2	24929598	24929598	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatccaccagaataaaccGccagcagagctcagaccttc	13	6	8	14	1	1	3	1	0	0	3	3	3	2	3	5	1	3	3	5	1	4	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	24929598	G	A	24929598	3	1	27	1	0	0	0	0	1	0	0	0	10228	1087	38	1	1293	1	NCOA1	2	24929598	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08		24929598	218269775	20	1550											
OTOF	9381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	26703722	26703722	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagctcagggttggaggtgtCtacgatctccacagccaggc	8	8	14	11	1	3	0	1	0	2	0	4	3	3	1	2	4	3	2	2	4	1	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	26703722	C	G	26703722	3	3	27	1	0	0	0	0	1	0	0	0	11303	913	32	4	4715	4	OTOF	2	26703722	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	1774124	26703722	216495651	21	1551											
EHD3	30845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	31484438	31484438	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcctacatcatcagctcTctgaagaaggagatgccctc	11	8	8	14	1	3	3	2	1	1	2	5	4	3	3	2	1	3	1	2	1	3	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	31484438	T	C	31484438	2	2	27	1	0	0	0	0	0	0	0	1	4979	1538	54	3		3	EHD3	2	31484438	Silent	SNP	T	TCGA-A3-3382-01A-01D-0966-08	4780716	31484438	211714935	22	1552											
STARD7	56910	broad.mit.edu;hgsc.bcm.edu	37	chr2	96861119	96861119	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcctgtaattgggcgccgCcacagcttaaagtgtttctt	7	13	11	10	2	1	0	0	0	1	0	1	0	1	0	3	1	2	3	3	1	3	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	96861119	C	T	96861119	4	4	27	1	0	0	0	0	0	1	0	0	15263	740	26	2	681	2	STARD7	2	96861119	Nonsense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	65376681	96861119	146338254	23	1553											
GALNT3	2591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166611170	166611170	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtccatgacatgtatacatAattaatggtttgcctccttg	11	15	7	8	0	0	1	0	1	0	0	2	1	2	1	3	1	2	2	3	1	4	6	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	166611170	A	T	166611170	2	4	27	1	0	0	0	0	0	0	0	1	6214	358	13	5		5	GALNT3	2	166611170	Silent	SNP	A	TCGA-A3-3382-01A-01D-0966-08	69750051	166611170	76588203	24	1554											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179600277	179600277	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagcaggagctgcttccagCctcatttgaagctgtacaga	10	10	11	10	0	1	3	1	2	0	1	2	4	2	4	2	1	6	5	2	1	2	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	179600277	C	T	179600277	3	4	27	1	0	0	0	0	1	0	0	0	16734	739	26	2	89885	2	TTN	2	179600277	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	12989107	179600277	63599096	25	1555											
GULP1	51454	broad.mit.edu;hgsc.bcm.edu	37	chr2	189458666	189458666	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttattttattctgttttacaGgaggggttcaaaatgggact	10	17	10	4	0	2	0	1	0	1	0	2	2	2	2	0	4	1	2	0	4	5	7	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	189458666	G	A	189458666	5	1	27	1	0	0	0	0	0	0	1	0	6901	1014	35	2	881	2	GULP1	2	189458666	Splice_Site	SNP	G	TCGA-A3-3382-01A-01D-0966-08	9858389	189458666	53740707	26	1556											
MFSD6	54842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191301590	191301590	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaccaagtcatgcttgttTatgatcaacaagaagttgaa	14	12	8	7	0	2	4	2	3	0	1	2	4	2	4	1	0	2	3	1	0	6	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	191301590	T	C	191301590	3	2	27	1	0	0	0	0	1	0	0	0	9535	1754	61	3	837	3	MFSD6	2	191301590	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08	1842924	191301590	51897783	27	1557											
ANKRD44	91526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197953472	197953473	+	Frame_Shift_Ins	INS	-	-	T																															tgaaggcacgttcttccaaaINStttatctggggtgtctattt																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	197953473	-	T	197953472	7	5	27	1	0	1	1	0	0	0	0	0	672	101	4	0	1684	0	ANKRD44	2	197953472	Frame_Shift_Ins	INS	-	TCGA-A3-3382-01A-01D-0966-08	6651882	197953472	45245901	28	1558											
CASP10	843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202060612	202060612	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggaagccgagtcgtatCaaggagaggaagaactagtt	16	6	13	6	2	1	2	1	0	0	2	2	6	1	4	1	3	2	2	1	3	7	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	202060612	C	A	202060612	3	1	27	1	0	0	0	0	1	0	0	0	2669	827	29	4	639	4	CASP10	2	202060612	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	4107140	202060612	41138761	29	1559											
ABCA12	26154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215868936	215868936	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgaatttggactcaccgaGttcatctatctgtttcaata	10	16	7	8	1	5	1	3	1	2	0	5	3	5	2	1	1	0	2	1	1	4	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	215868936	G	T	215868936	3	4	27	1	0	0	0	0	1	0	0	0	30	1029	36	4	5243	4	ABCA12	2	215868936	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	13808324	215868936	27330437	30	1560											
SNED1	25992	broad.mit.edu;hgsc.bcm.edu	37	chr2	241974046	241974046	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggctcgcgcacagcagAcatggccgaggtggagacca	9	3	14	15	4	0	2	0	0	0	2	1	4	0	2	4	4	1	3	4	4	0	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	241974046	A	G	241974046	3	3	27	1	0	0	0	0	1	0	0	0	14847	275	10	3	718	3	SNED1	2	241974046	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	26105110	241974046	1225327	31	1561											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188200	10188200	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcttgtcccgataggtCacctttggctcttcagagat	6	15	9	11	1	3	1	2	0	1	1	4	3	4	1	2	2	1	2	2	2	1	5	rs5030811	bycluster;alternate_allele	TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	10188200	C	A	10188200	3	1	27	1	0	0	0	0	1	0	0	0	17161	826	29	4	349	4	VHL	3	10188200	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08		10188200	187834230	32	1562											
SCN10A	6336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38797338	38797338	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtcttctgtggagccctCtgacactcttggctttattc	4	17	9	11	0	4	1	0	1	4	0	5	2	4	2	1	2	1	2	1	2	1	6	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	38797338	C	A	38797338	4	1	27	1	0	0	0	0	0	1	0	0	13914	922	32	4	4540	4	SCN10A	3	38797338	Nonsense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	28609138	38797338	159225092	33	1563											
MAP4	4134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48019414	48019414	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaggagtgttggtttagaaGatggagtatctgcaacaatg	12	12	13	4	0	1	2	0	0	1	2	1	4	1	4	0	3	2	4	0	3	6	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	48019414	G	A	48019414	3	1	27	1	0	0	0	0	1	0	0	0	9258	942	33	2	4664	2	MAP4	3	48019414	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	9222076	48019414	150003016	34	1564											
UBA7	7318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49847308	49847308	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttcttcaaactcatgccggGcccactgtggaggagggagg	8	8	15	10	1	3	0	2	0	1	0	3	3	3	3	2	5	2	1	2	5	1	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	49847308	G	T	49847308	3	4	27	1	0	0	0	0	1	0	0	0	16832	1203	42	4	1234	4	UBA7	3	49847308	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	1827894	49847308	148175122	35	1565											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52662912	52662912	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaacaataaatcacacctGcataacttgctgcaatttta	18	11	3	9	0	1	0	1	0	0	0	1	0	1	0	1	0	5	3	1	0	8	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	52662912	G	A	52662912	4	1	27	1	0	0	0	0	0	1	0	0	11491	1328	46	2	3535	2	PBRM1	3	52662912	Nonsense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	2815604	52662912	145359518	36	1566											
GOLIM4	27333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167750471	167750471	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagggcctttctgtgcTcctcttccacctgatgctcc	3	13	7	18	0	2	1	0	1	2	0	6	1	6	1	7	1	2	2	7	1	0	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	167750471	T	G	167750471	3	3	27	1	0	0	0	0	1	0	0	0	6566	1551	54	5	1109	5	GOLIM4	3	167750471	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08	115087559	167750471	30271959	37	1567											
HTT	3064	hgsc.bcm.edu;ucsc.edu	37	chr4	3117148	3117160	+	Frame_Shift_Del	DEL	AGTTGGCTACTAA	AGTTGGCTACTAA	-																															gaaggacacaatatttctatAgttggctactaaatgtgctc																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	AGTTGGCTACTAA	AGTTGGCTACTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	3117160	AGTTGGCTACTAA	-	3117148	7	5	27	1	0	1	0	1	0	0	0	0	7457	420	15	0	891	0	HTT	4	3117148	Frame_Shift_Del	DEL	AGTTGGCTACTAA	TCGA-A3-3382-01A-01D-0966-08		3117148	188037128	38	1568											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85731357	85731357	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcaaacacttgattctggttCactttctcccagccattctt	8	16	4	13	0	5	1	2	1	3	0	6	1	5	1	2	1	2	1	2	1	1	6	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	85731357	C	G	85731357	2	3	27	1	0	0	0	0	0	0	0	1	17269	813	29	4		4	WDFY3	4	85731357	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	82614209	85731357	105422919	39	1569											
SPEF2	79925	hgsc.bcm.edu;ucsc.edu	37	chr5	35700726	35700726	+	Frame_Shift_Del	DEL	A	A	-																															agtggaaagaaaaaaagcacAaaaatccacattggctattg																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	35700726	A	-	35700726	7	5	27	1	0	1	0	1	0	0	0	0	15036	130	5	0	2353	0	SPEF2	5	35700726	Frame_Shift_Del	DEL	A	TCGA-A3-3382-01A-01D-0966-08		35700726	145214534	40	1570											
POLK	51426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	74889874	74889874	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccttgagattaaggcttatgGgtatgactttttcatttttt	8	20	8	5	0	1	2	1	2	0	1	1	3	1	2	1	2	0	2	1	2	3	9	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	74889874	G	A	74889874	3	1	27	1	0	0	0	0	1	0	0	0	12204	1246	43	2	1570	2	POLK	5	74889874	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	39189148	74889874	106025386	41	1571											
PDLIM4	8572	broad.mit.edu;hgsc.bcm.edu	37	chr5	131598428	131598428	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcatcaagggctgccacGatcacctcacactgtctgtg	9	8	9	15	2	4	0	3	0	1	0	4	1	4	0	3	1	1	2	3	1	1	0	rs138635559	alternate_allele	TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	131598428	G	T	131598428	3	4	27	1	0	0	0	0	1	0	0	0	11682	1058	37	4	226	4	PDLIM4	5	131598428	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	56708554	131598428	49316832	42	1572											
TRPC7	57113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	135692925	135692925	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgggatgttgccatactcagCcgagtccaggaagcgctcct	8	8	12	13	3	1	0	1	0	0	0	3	3	3	2	4	2	4	2	4	2	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	135692925	C	T	135692925	3	4	27	1	0	0	0	0	1	0	0	0	16583	739	26	2	2481	2	TRPC7	5	135692925	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	4094497	135692925	45222335	43	1573											
TCOF1	6949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149749096	149749096	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtccgatcctcagggatGgtgtcagcgggccaggccga	6	7	16	12	4	2	0	2	0	0	0	4	3	4	1	4	4	1	0	4	4	0	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	149749096	G	T	149749096	3	4	27	1	0	0	0	0	1	0	0	0	15707	1348	47	4	592	4	TCOF1	5	149749096	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	14056171	149749096	31166164	44	1574											
CYFIP2	26999	broad.mit.edu;hgsc.bcm.edu	37	chr5	156746796	156746796	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatgatcaaaggcctgcaGgtgctcatgggcaggatgga	10	7	15	9	0	2	1	2	1	0	0	2	3	2	3	2	5	2	3	2	5	1	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	156746796	G	A	156746796	2	1	27	1	0	0	0	0	0	0	0	1	4138	991	35	2		2	CYFIP2	5	156746796	Silent	SNP	G	TCGA-A3-3382-01A-01D-0966-08	6997700	156746796	24168464	45	1575											
CPLX2	10814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	175306865	175306865	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagtatgggctgaagaaGaaggaggagaaggaagcaga	16	3	16	6	0	0	5	0	1	0	4	0	8	0	7	2	4	1	3	2	4	6	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	175306865	G	T	175306865	3	4	27	1	0	0	0	0	1	0	0	0	3805	933	33	4	232	4	CPLX2	5	175306865	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	18560069	175306865	5608395	46	1576											
HSP90AB1	3326	broad.mit.edu;hgsc.bcm.edu	37	chr6	44218220	44218220	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaaatacattgatcaggaaGaactaaacaagaccaagcct	20	6	7	8	0	1	4	1	1	0	3	1	5	1	5	2	1	4	0	2	1	8	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	44218220	G	A	44218220	3	1	27	1	0	0	0	0	1	0	0	0	7402	943	33	2	859	2	HSP90AB1	6	44218220	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08		44218220	126896847	47	1577											
ZNF451	26036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	57013213	57013213	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatatccatcaagtgcacaAagaaaagagtgatgaggagg	17	7	11	6	0	2	4	2	2	0	2	3	5	3	5	1	2	1	1	1	2	5	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	57013213	A	C	57013213	3	2	27	1	0	0	0	0	1	0	0	0	17921	14	1	5	2368	5	ZNF451	6	57013213	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	12794993	57013213	114101854	48	1578											
ZNF292	23036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	87970890	87970890	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaatgtaagtaatgattttCaggaagataacctctgccag	15	11	8	7	0	2	2	1	1	1	1	2	3	2	3	2	1	2	2	2	1	5	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	87970890	C	T	87970890	4	4	27	1	0	0	0	0	0	1	0	0	17825	827	29	2	7573	2	ZNF292	6	87970890	Nonsense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	30957677	87970890	83144177	49	1579											
ZUFSP	221302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	116979974	116979974	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatctttgtacctgcagctTctgaaattcttctatttctt	8	20	4	9	0	5	1	0	1	5	0	5	1	5	1	1	0	3	3	1	0	4	9	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	116979974	T	C	116979974	3	2	27	1	0	0	0	0	1	0	0	0	18245	1792	62	3	980	3	ZUFSP	6	116979974	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08	29009084	116979974	54135093	50	1580											
UTRN	7402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	144780343	144780343	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcttggccttcaccccAaaattgaaatggctcgtgca	10	12	7	12	1	3	1	1	1	2	0	4	1	3	1	3	2	1	2	3	2	3	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	144780343	A	G	144780343	3	3	27	1	0	0	0	0	1	0	0	0	17102	131	5	3	2638	3	UTRN	6	144780343	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	27800369	144780343	26334724	51	1581											
FNDC1	84624	broad.mit.edu	37	chr6	159653887	159653887	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcaggtctctgagggagcGgaggcttctgatggtgaaag	9	8	17	7	2	2	3	0	3	2	0	3	5	2	5	0	5	1	2	0	5	1	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	159653887	T	T	159653887	2	4	27	1	0	0	0	0	0	0	0	1	5968	1103	39	4		4	FNDC1	6	159653887	Silent	SNP	G	TCGA-A3-3382-01A-01D-0966-08	14873544	159653887	11461180	52	1582											
FTSJ2	29960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	2274853	2274853	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcaggtttgatgatcctTacattctggaattcctctgt	7	17	8	9	0	3	2	1	2	2	0	5	3	5	3	2	2	1	2	2	2	2	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	2274853	T	A	2274853	2	1	27	1	0	0	0	0	0	0	0	1	6088	1741	61	5		5	FTSJ2	7	2274853	Silent	SNP	T	TCGA-A3-3382-01A-01D-0966-08		2274853	156863810	53	1583											
FOXK1	221937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	4796681	4796681	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttatcaaagtcccacgttcCcaggaggagcctgggaaggg	10	8	13	10	1	1	0	1	0	0	0	3	3	3	3	3	4	1	1	3	4	3	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	4796681	C	G	4796681	2	3	27	1	0	0	0	0	0	0	0	1	6014	610	22	4		4	FOXK1	7	4796681	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	2521828	4796681	154341982	54	1584											
WIPI2	26100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5270558	5270558	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagcgagcacccgcccAtgattcttcggactgactga	10	7	11	13	3	1	3	0	3	1	0	2	6	1	5	2	2	2	1	2	2	0	2	rs144773383	byfrequency;alternate_allele	TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	5270558	A	G	5270558	3	3	27	1	0	0	0	0	1	0	0	0	17370	217	8	3	1429	3	WIPI2	7	5270558	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	473877	5270558	153868105	55	1585											
GLCCI1	113263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	8126006	8126006	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttggcaactctgaccgtTgagcagctctcatcccgggt	6	11	11	13	2	2	2	1	2	2	0	4	2	3	2	2	2	3	5	2	2	1	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	8126006	T	G	8126006	2	3	27	1	0	0	0	0	0	0	0	1	6431	1799	63	5		5	GLCCI1	7	8126006	Silent	SNP	T	TCGA-A3-3382-01A-01D-0966-08	2855448	8126006	151012657	56	1586											
ADCYAP1R1	117	hgsc.bcm.edu;ucsc.edu	37	chr7	31142950	31142959	+	Frame_Shift_Del	DEL	CGTGTTTGAG	CGTGTTTGAG	-																															gtcagcaaaagggaaagactCgtgtttgagctggggctggg																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	CGTGTTTGAG	CGTGTTTGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	31142959	CGTGTTTGAG	-	31142950	7	5	27	1	0	1	0	1	0	0	0	0	303	871	31	0	1196	0	ADCYAP1R1	7	31142950	Frame_Shift_Del	DEL	CGTGTTTGAG	TCGA-A3-3382-01A-01D-0966-08	23016944	31142950	127995713	57	1587											
SLC26A4	5172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107329537	107329537	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgtgagcttgttctcGgagatgctggctgcatcatt	6	13	11	11	1	2	2	1	1	1	1	3	3	2	2	2	2	3	5	2	2	0	3	rs140778437		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	107329537	G	A	107329537	2	1	27	1	0	0	0	0	0	0	0	1	14521	1103	39	1		1	SLC26A4	7	107329537	Silent	SNP	G	TCGA-A3-3382-01A-01D-0966-08	76186587	107329537	51809126	58	1588											
MSC	9242	broad.mit.edu;hgsc.bcm.edu	37	chr8	72756043	72756043	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcctggagaaggctttgCtcagcacgcgcatccgggca	8	7	14	12	3	1	2	1	1	0	1	2	3	2	2	2	3	3	5	2	3	1	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	72756043	C	G	72756043	3	3	27	1	0	0	0	0	1	0	0	0	9868	797	28	4	257	4	MSC	8	72756043	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08		72756043	73607979	59	1589											
ENHO	375704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34521629	34521629	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacccagagcagcagcagcAagaagcccacgagaccgttg	13	3	12	13	2	0	4	0	1	0	3	0	5	0	4	3	0	5	5	3	0	2	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	34521629	A	C	34521629	3	2	27	1	0	0	0	0	1	0	0	0	5119	131	5	5	169	5	ENHO	9	34521629	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08		34521629	106691802	60	1590											
STRBP	55342	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125936121	125936121	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgtccgaccaccttgatcCctaaaaataaaagtctgcat	15	10	5	11	1	1	1	0	1	1	0	3	2	3	1	4	0	1	1	4	0	6	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	125936121	C	A	125936121	3	1	27	1	0	0	0	0	1	0	0	0	15328	637	22	4	1853	4	STRBP	9	125936121	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	91414492	125936121	15277310	61	1591											
SOHLH1	402381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138586216	138586216	+	Silent	SNP	C	C	A																															gcggggggaccagccctgaaCccagggccccactcacccgg																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	138586216	C	A	138586216	2	1	27	1	0	0	0	0	0	0	0	1	14925	494	18	4		4	SOHLH1	9	138586216	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	12650095	138586216	2627215	62	1592	23	2									
SOHLH1	402381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138586217	138586217	+	Missense_Mutation	SNP	C	C	T																															cggggggaccagccctgaacCcagggccccactcacccggc																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	138586217	C	T	138586217	3	4	27	1	0	0	0	0	1	0	0	0	14925	623	22	2	250	2	SOHLH1	9	138586217	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	1	138586217	2627214	63	1593	23	2									
ABCA2	20	broad.mit.edu;hgsc.bcm.edu	37	chr9	139916407	139916407	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgacccttgtggaggccaGactgtgaatccagggcagat	9	8	13	11	0	0	4	0	2	0	2	1	5	1	5	4	3	0	1	4	3	1	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	139916407	G	C	139916407	3	2	27	1	0	0	0	0	1	0	0	0	32	942	33	4	6868	4	ABCA2	9	139916407	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	1330190	139916407	1297024	64	1594											
MYST4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	76748798	76748798	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagctttgccagcagaagTataatgtctcctgcataatg	14	11	8	8	0	1	1	0	0	1	1	2	1	1	1	2	0	4	4	2	0	6	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	76748798	T	A	76748798	3	1	27	1	0	0	0	0	1	0	0	0	10105	1638	57	5	2599	5	MYST4	10	76748798	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08		76748798	58785949	65	1595											
SMC3	9126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	112335137	112335137	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttagtcatcttcgtccAgaacagcggttggctttatt	8	15	10	8	2	2	1	1	0	1	1	4	2	3	1	1	2	2	3	1	2	3	7	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	112335137	A	G	112335137	2	3	27	1	0	0	0	0	0	0	0	1	14786	175	7	3		3	SMC3	10	112335137	Silent	SNP	A	TCGA-A3-3382-01A-01D-0966-08	35586339	112335137	23199610	66	1596											
HSPA12A	259217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118434631	118434631	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtcaaagacgtcggtgcaCcaccgagtgccatccttcac	9	9	9	14	3	2	1	2	0	0	1	4	2	3	1	4	1	2	1	4	1	1	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	118434631	C	G	118434631	3	3	27	1	0	0	0	0	1	0	0	0	7404	508	18	4	342	4	HSPA12A	10	118434631	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	6099494	118434631	17100116	67	1597											
RNH1	6050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	499015	499015	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaaggcccagtgcctacTtgagcgcctccagctggcag	7	6	11	17	1	0	1	0	1	0	0	1	1	1	1	6	2	4	2	6	2	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	499015	T	C	499015	3	2	27	1	0	0	0	0	1	0	0	0	13506	1623	56	3	795	3	RNH1	11	499015	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08		499015	134507501	68	1598											
ARNTL	406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	13375946	13375946	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagctctcttggtaccAgtggtgtggattgcaaccgc	6	13	11	11	1	1	0	0	0	1	0	3	1	2	1	3	3	4	3	3	3	2	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	13375946	A	G	13375946	3	3	27	1	0	0	0	0	1	0	0	0	967	188	7	3	93	3	ARNTL	11	13375946	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	12876931	13375946	121630570	69	1599											
E2F8	79733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19247052	19247052	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgagagccgggctgttccCgacaggtacggctgccacgg	7	5	16	13	5	0	1	0	0	0	1	1	3	1	1	3	4	4	4	3	4	1	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	19247052	C	T	19247052	3	4	27	1	0	0	0	0	1	0	0	0	4873	652	23	1	474	1	E2F8	11	19247052	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	5871106	19247052	115759464	70	1600											
LRRC32	2615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	76371567	76371567	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcagggagcctaagcgcCgggcctcaaaggtccgcaag	10	3	16	12	3	1	0	1	0	0	0	2	1	2	1	4	4	2	2	4	4	3	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	76371567	C	T	76371567	3	4	27	1	0	0	0	0	1	0	0	0	8987	652	23	1	922	1	LRRC32	11	76371567	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	57124515	76371567	58634949	71	1601											
FOLH1B	219595	hgsc.bcm.edu	37	chr11	89424222	89424223	+	Frame_Shift_Ins	INS	-	-	T																															ctcccttttgattgtcgagaINSttatgctgtagttttaagaa																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	89424223	-	T	89424222	7	5	27	1	0	1	1	0	0	0	0	0	5980	333	12	0	906	0	FOLH1B	11	89424222	Frame_Shift_Ins	INS	-	TCGA-A3-3382-01A-01D-0966-08	13052655	89424222	45582294	72	1602											
VPS11	55823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118948939	118948939	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccgcgagagctgaaagcCttcctagagcacatgagtga	13	6	11	11	2	0	5	0	3	0	2	1	6	1	5	3	0	4	2	3	0	3	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	118948939	C	T	118948939	3	4	27	1	0	0	0	0	1	0	0	0	17187	668	24	2	1859	2	VPS11	11	118948939	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	29524717	118948939	16057577	73	1603											
OR10S1	219873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123848361	123848361	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggttggggttctccgttGtcatggtcatcttctcacac	4	16	10	11	1	6	0	3	0	4	0	8	0	6	0	1	4	0	3	1	4	0	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	123848361	G	T	123848361	3	4	27	1	0	0	0	0	1	0	0	0	10918	1377	48	4	961	4	OR10S1	11	123848361	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	4899422	123848361	11158155	74	1604											
SCNN1A	6337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6457292	6457292	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtatcggcttcggaaccttCggagcagcatgaggaacatg	11	8	13	9	3	0	1	0	1	0	0	3	4	0	4	1	4	4	4	1	4	3	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	6457292	C	T	6457292	3	4	27	1	0	0	0	0	1	0	0	0	13929	884	31	1	256	1	SCNN1A	12	6457292	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08		6457292	127394603	75	1605											
AICDA	57379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	8758017	8758017	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaggtgacgcggtagcagCggccagggtctaggtcccag	8	5	16	12	3	1	1	0	1	1	0	2	1	2	1	3	5	2	2	3	5	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	8758017	C	T	8758017	3	4	27	1	0	0	0	0	1	0	0	0	422	768	27	1	387	1	AICDA	12	8758017	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	2300725	8758017	125093878	76	1606											
CDK2	1017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56363264	56363265	+	Frame_Shift_Del	DEL	GA	GA	-																															attcccgtccctcaggtggtGaccctgtggtaccgagctcc																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	56363265	GA	-	56363264	7	5	27	1	0	1	0	1	0	0	0	0	3136	1277	45	0	510	0	CDK2	12	56363264	Frame_Shift_Del	DEL	GA	TCGA-A3-3382-01A-01D-0966-08	47605247	56363264	77488631	77	1607	24	2									
CDK2	1017	hgsc.bcm.edu	37	chr12	56363267	56363267	+	Silent	SNP	C	C	A																															cccgtccctcaggtggtgacCctgtggtaccgagctcctga																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	56363267	C	A	56363267	2	1	27	1	0	0	0	0	0	0	0	1	3136	610	22	4		4	CDK2	12	56363267	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	3	56363267	77488628	78	1608	24	2									
FRS2	10818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	69965989	69965989	+	Frame_Shift_Del	DEL	T	T	-																															catccgtcaagcagacatccTtctgtgggaagtgctcgcct																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	69965989	T	-	69965989	7	5	27	1	0	1	0	1	0	0	0	0	6061	1596	56	0	518	0	FRS2	12	69965989	Frame_Shift_Del	DEL	T	TCGA-A3-3382-01A-01D-0966-08	13602722	69965989	63885906	79	1609											
EPYC	1833	broad.mit.edu;hgsc.bcm.edu	37	chr12	91366748	91366748	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacaagtacacaaaagacagGttggaaagtctaaaagataa	21	7	8	5	0	1	2	0	0	1	2	1	3	1	3	0	2	2	2	0	2	9	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	91366748	G	C	91366748	3	2	27	1	0	0	0	0	1	0	0	0	5201	1261	44	4	634	4	EPYC	12	91366748	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	21400759	91366748	42485147	80	1610											
CCDC41	51134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	94772668	94772668	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctccttttcagcctttaAttccgctacttcagcctcta	7	17	3	14	1	4	0	2	0	2	0	6	0	5	0	4	0	3	1	4	0	3	9	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	94772668	A	T	94772668	3	4	27	1	0	0	0	0	1	0	0	0	2813	98	4	5	1449	5	CCDC41	12	94772668	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	3405920	94772668	39079227	81	1611											
SORD	6652	hgsc.bcm.edu	37	chr15	45361216	45361216	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtcaccatcgagtgcaCgggggcagaggcctccatcc	9	5	14	13	2	1	1	1	0	0	1	4	3	3	2	4	4	1	2	4	4	1	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	45361216	C	T	45361216	3	4	27	1	0	0	0	0	1	0	0	0	14935	536	19	1	778	1	SORD	15	45361216	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08		45361216	57170176	82	1612											
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51791649	51791649	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcctaccaccaatatccCatctcttacccaagagagag	13	9	4	15	0	1	2	0	0	1	2	4	3	3	2	5	0	2	0	5	0	5	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	51791649	C	G	51791649	3	3	27	1	0	0	0	0	1	0	0	0	4595	594	21	4	5445	4	DMXL2	15	51791649	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	6430433	51791649	50739743	83	1613											
LDHAL6B	92483	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59499176	59499176	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgtgcgggccagccagAgagtgagctcggtgggagcg	6	7	19	9	3	0	2	0	1	0	1	1	4	0	3	2	3	4	2	2	3	0	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	59499176	A	T	59499176	4	4	27	1	0	0	0	0	0	1	0	0	8700	296	11	5	39	5	LDHAL6B	15	59499176	Nonsense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	7707527	59499176	43032216	84	1614											
ADAMTS7	11173	broad.mit.edu;hgsc.bcm.edu	37	chr15	79058756	79058756	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggggagcccaagatctgggGcccctatgggggtgtcttcc	5	9	16	11	0	2	1	0	0	2	1	3	2	3	2	4	6	1	0	4	6	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	79058756	G	C	79058756	3	2	27	1	0	0	0	0	1	0	0	0	271	1203	42	4	1587	4	ADAMTS7	15	79058756	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	19559580	79058756	23472636	85	1615											
C16orf71	146562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4787820	4787820	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggactatggggaagaggAgctgttcatcttccagcgaa	10	9	14	8	2	2	1	1	0	1	1	4	5	3	4	1	4	2	2	1	4	3	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	4787820	A	C	4787820	3	2	27	1	0	0	0	0	1	0	0	0	1830	304	11	5	155	5	C16orf71	16	4787820	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08		4787820	85566933	86	1616											
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21123085	21123085	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggcacggtgatgttcatgGatgcaatttcatttctccgt	9	14	10	8	2	3	1	2	1	1	0	4	2	3	2	1	3	1	3	1	3	2	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	21123085	G	T	21123085	3	4	27	1	0	0	0	0	1	0	0	0	4603	1174	41	4	10584	4	DNAH3	16	21123085	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	16335265	21123085	69231668	87	1617											
TNK1	8711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7291835	7291835	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgccccagggacctccaGgcctgcctccacgcccacct	5	6	9	21	1	0	0	0	0	0	0	2	1	2	1	9	2	2	0	9	2	0	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	7291835	G	T	7291835	3	4	27	1	0	0	0	0	1	0	0	0	16316	1000	35	4	1626	4	TNK1	17	7291835	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08		7291835	73903375	88	1618											
ATPAF2	91647	hgsc.bcm.edu;ucsc.edu	37	chr17	17927959	17927961	+	In_Frame_Del	DEL	ATT	ATT	-																															ttttctcagcccattcgatgAttggatcccactcattcctt																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	ATT	ATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	17927961	ATT	-	17927959	7	5	27	1	0	1	0	1	0	0	0	0	1201	333	12	0	403	0	ATPAF2	17	17927959	In_Frame_Del	DEL	ATT	TCGA-A3-3382-01A-01D-0966-08	10636124	17927959	63267251	89	1619											
B9D1	27077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	19250621	19250621	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagacgtagattctgggacaAacatggggatggtccttttg	10	12	13	6	1	1	2	0	0	1	2	2	4	2	4	1	4	1	1	1	4	3	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	19250621	A	C	19250621	3	2	27	1	0	0	0	0	1	0	0	0	1277	14	1	5	261	5	B9D1	17	19250621	Missense_Mutation	SNP	A	TCGA-A3-3382-01A-01D-0966-08	1322662	19250621	61944589	90	1620											
PHF12	57649	broad.mit.edu;hgsc.bcm.edu	37	chr17	27250942	27250942	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgacctggtagtgcagtggTacaagtcagttcattgggca	9	11	13	8	0	2	1	2	1	0	0	2	1	2	1	1	3	2	5	1	3	3	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	27250942	T	C	27250942	3	2	27	1	0	0	0	0	1	0	0	0	11823	1638	57	3	2388	3	PHF12	17	27250942	Missense_Mutation	SNP	T	TCGA-A3-3382-01A-01D-0966-08	8000321	27250942	53944268	91	1621											
NF1	4763	broad.mit.edu;hgsc.bcm.edu	37	chr17	29556075	29556075	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcacaagaccattgttaaGaggcgaatgtcccatgtgag	12	10	10	9	1	1	3	1	1	0	2	2	4	2	3	2	1	0	1	2	1	3	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	29556075	G	A	29556075	2	1	27	1	0	0	0	0	0	0	0	1	10356	933	33	2		2	NF1	17	29556075	Silent	SNP	G	TCGA-A3-3382-01A-01D-0966-08	2305133	29556075	51639135	92	1622											
NF1	4763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29687570	29687570	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgccttgattgacacgtaCctgcctggaattgatgaaga	11	11	11	8	1	0	5	0	4	0	1	0	7	0	6	3	1	3	1	3	1	3	4	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		G	29687570	C	G	29687570	4	3	27	1	0	0	0	0	0	1	0	0	10356	518	18	4	8513	4	NF1	17	29687570	Nonsense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	131495	29687570	51507640	93	1623											
CDC27	996	broad.mit.edu	37	chr17	45234696	45234696	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagttgggcagacagttgCtaaagttctgtaaagatgtg	13	11	13	4	0	1	3	0	0	1	3	1	3	1	3	0	1	1	6	0	1	5	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	45234696	A	A	45234696	3	1	27	1	0	0	0	0	1	0	0	0	3066	797	28	4	2018	4	CDC27	17	45234696	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	15547126	45234696	35960514	94	1624											
FBF1	85302	broad.mit.edu;hgsc.bcm.edu	37	chr17	73913852	73913852	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcattcagccgtgcctcCatcttcccgatgacctcctg	5	12	7	17	2	3	1	2	1	1	0	6	2	6	1	6	0	3	1	6	0	0	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	73913852	C	T	73913852	3	4	27	1	0	0	0	0	1	0	0	0	5695	594	21	2	1012	2	FBF1	17	73913852	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	28679156	73913852	7281358	95	1625											
SALL3	27164	hgsc.bcm.edu	37	chr18	76752151	76752151	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgaggagaccagcgtgtgcGagaaatgctgcgccgagttc	9	6	16	10	5	0	2	0	0	0	2	1	6	0	2	2	1	4	2	2	1	1	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	76752151	G	A	76752151	3	1	27	1	0	0	0	0	1	0	0	0	13814	1059	37	1	166	1	SALL3	18	76752151	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08		76752151	1325097	96	1626											
MAP2K7	5609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7977212	7977212	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaagcgctacgagacgCtggaggtggacgtggcgtcc	8	7	15	11	5	2	1	2	0	0	1	3	4	3	3	1	4	2	2	1	4	2	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	7977212	C	A	7977212	3	1	27	1	0	0	0	0	1	0	0	0	9242	796	28	4	1198	4	MAP2K7	19	7977212	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08		7977212	51151771	97	1627											
KLHL26	55295	hgsc.bcm.edu	37	chr19	18778933	18778937	+	Frame_Shift_Del	DEL	GCGCG	GCGCG	-																															catgacccggcccggcggccGcgcgccagccacgtgctctg																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	GCGCG	GCGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		-	18778937	GCGCG	-	18778933	7	5	27	1	0	1	0	1	0	0	0	0	8381	1074	38	0	736	0	KLHL26	19	18778933	Frame_Shift_Del	DEL	GCGCG	TCGA-A3-3382-01A-01D-0966-08	10801721	18778933	40350050	98	1628											
ZNF347	84671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53644453	53644453	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctttgccgcactcattaCacatataaggcttcactcca	11	11	6	13	1	2	0	2	0	0	0	3	0	3	0	2	2	2	3	2	2	3	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	53644453	C	A	53644453	3	1	27	1	0	0	0	0	1	0	0	0	17860	478	17	4	895	4	ZNF347	19	53644453	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	34865520	53644453	5484530	99	1629											
SNRPB	6628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2448399	2448399	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcttgctgctcttgccCaccgtctgcaaggagaaatg	9	10	10	12	1	3	1	0	0	3	1	3	2	3	1	2	1	5	4	2	1	2	2	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		A	2448399	C	A	2448399	2	1	27	1	0	0	0	0	0	0	0	1	14863	581	21	4		4	SNRPB	20	2448399	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08		2448399	60577121	100	1630											
MAVS	57506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3845153	3845153	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcagaggcacctgccaaCtctctgccctccaaagtgcc	8	6	11	16	0	1	1	0	0	1	1	3	1	2	1	5	3	4	2	5	3	2	0	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	3845153	C	T	3845153	2	4	27	1	0	0	0	0	0	0	0	1	9338	564	20	2		2	MAVS	20	3845153	Silent	SNP	C	TCGA-A3-3382-01A-01D-0966-08	1396754	3845153	59180367	101	1631											
KIF16B	55614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	16359478	16359478	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccttctccagggcttcctGctcagcctccaggctagcct	4	11	9	17	0	2	0	1	0	1	0	6	0	5	0	6	2	3	3	6	2	1	3	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	16359478	G	C	16359478	3	2	27	1	0	0	0	0	1	0	0	0	8278	1328	46	4	816	4	KIF16B	20	16359478	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08	12514325	16359478	46666042	102	1632											
PLTP	5360	broad.mit.edu;hgsc.bcm.edu	37	chr20	44531163	44531163	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgacagagatggtggtGccagagggcttgatggtgca	9	8	18	6	0	0	4	0	2	0	2	0	5	0	4	1	4	2	3	1	4	0	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	44531163	G	T	44531163	2	4	27	1	0	0	0	0	0	0	0	1	12114	1306	46	4		4	PLTP	20	44531163	Silent	SNP	G	TCGA-A3-3382-01A-01D-0966-08	28171685	44531163	18494357	103	1633											
TUBB1	81027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	57599336	57599336	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagcagtaccgagccctctCcgtggccgagctcacccagc	7	5	10	19	3	2	0	1	0	1	0	3	2	2	0	6	1	5	3	6	1	1	1	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	57599336	C	T	57599336	3	4	27	1	0	0	0	0	1	0	0	0	16752	855	30	2	868	2	TUBB1	20	57599336	Missense_Mutation	SNP	C	TCGA-A3-3382-01A-01D-0966-08	13068173	57599336	5426184	104	1634											
DMD	1756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	31241191	31241191	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttctgcagtcttcggaGtttcatggcagtcctataag	7	13	11	10	1	3	0	1	0	2	0	5	1	4	1	2	3	1	3	2	3	2	5	novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		T	31241191	G	T	31241191	3	4	27	1	0	0	0	0	1	0	0	0	4580	1029	36	4	1877	4	DMD	23	31241191	Missense_Mutation	SNP	G	TCGA-A3-3382-01A-01D-0966-08		31241191	124029369	105	1635											
HEPH	9843	hgsc.bcm.edu	37	chrX	65393494	65393495	+	Frame_Shift_Ins	INS	-	-	C																															gactctgttcccccggggggINScagccatatctacaactgga																								novel		TCGA-A3-3382-01A-01D-0966-08	TCGA-A3-3382-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f10e1718-6fb8-4c08-bc28-439f26355cd2	9e5e7403-d655-4c63-b938-e8140224dd7a		C	65393495	-	C	65393494	7	5	27	1	0	1	1	0	0	0	0	0	7054	1203	42	0	652	0	HEPH	23	65393494	Frame_Shift_Ins	INS	-	TCGA-A3-3382-01A-01D-0966-08	34152303	65393494	89877066	106	1636											
CTPS	0	hgsc.bcm.edu	37	chr1	41471734	41471734	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatttcagatgccaattctAcagagtttgaccctacgacc	11	12	7	11	1	2	3	1	1	1	2	2	4	2	3	3	0	3	2	3	0	4	6	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		G	41471734	A	G	41471734	3	3	28	1	0	0	0	0	1	0	0	0	4022	391	14	3	1310	3	CTPS	1	41471734	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08		41471734	207778887	1	1637											
TRIM33	51592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114967253	114967253	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatcatggaatattgagggCcgctgtgcctgggtatccct	7	11	13	10	1	1	1	1	1	0	0	2	2	2	2	3	3	1	3	3	3	3	3	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	114967253	C	A	114967253	3	1	28	1	0	0	0	0	1	0	0	0	16506	739	26	4	1607	4	TRIM33	1	114967253	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	73495519	114967253	134283368	2	1638											
GRHL1	29841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	10101473	10101473	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcgatcggaatctcaatactGaccagttcagctctggtgct	9	12	9	11	2	3	1	2	1	2	0	6	3	3	2	1	2	3	3	1	2	3	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	10101473	G	C	10101473	3	2	28	1	0	0	0	0	1	0	0	0	6763	1290	45	4	591	4	GRHL1	2	10101473	Missense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08		10101473	233097900	3	1639											
TMEM214	54867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27256957	27256957	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaatccagaccacaagcacCctttatgagcggggctttga	11	8	10	12	1	0	3	0	2	0	1	1	3	1	3	3	2	2	3	3	2	3	3	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	27256957	C	A	27256957	2	1	28	1	0	0	0	0	0	0	0	1	16136	610	22	4		4	TMEM214	2	27256957	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08	17155484	27256957	215942416	4	1640											
PPM1B	5495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44457623	44457623	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcaaatgagaattaaTcataggggaaactaccgaca	17	7	9	8	1	2	1	2	1	0	1	2	4	2	2	1	3	2	1	1	3	6	3	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		G	44457623	T	G	44457623	3	3	28	1	0	0	0	0	1	0	0	0	12338	1432	50	5	1257	5	PPM1B	2	44457623	Missense_Mutation	SNP	T	TCGA-A3-3383-01A-01D-0966-08	17200666	44457623	198741750	5	1641											
UXS1	80146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	106717553	106717553	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgttgctgttcatgagagcCacgaggccattcactagatc	10	10	10	11	2	2	2	2	1	0	2	3	4	2	2	2	1	2	3	2	1	1	4	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	106717553	C	A	106717553	2	1	28	1	0	0	0	0	0	0	0	1	17108	581	21	4		4	UXS1	2	106717553	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08	62259930	106717553	136481820	6	1642											
RBM43	375287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152112099	152112099	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccttggttcttgtcggataTatcacatcttcaacatctcc	8	15	5	13	1	5	0	2	0	3	0	7	1	5	1	2	2	1	1	2	2	3	6	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	152112099	T	C	152112099	3	2	28	1	0	0	0	0	1	0	0	0	13139	1396	49	3	923	3	RBM43	2	152112099	Missense_Mutation	SNP	T	TCGA-A3-3383-01A-01D-0966-08	45394546	152112099	91087274	7	1643											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191488	10191488	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgtatactctgaaagagCgatgcctccaggttgtccgg	9	10	12	10	2	1	2	0	1	1	1	3	3	3	2	3	2	3	2	3	2	3	3	rs5030818	bycluster	TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	10191488	C	T	10191488	4	4	28	1	0	0	0	0	0	1	0	0	17161	760	27	1	491	1	VHL	3	10191488	Nonsense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08		10191488	187830942	8	1644											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47162162	47162162	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtacttgtccttgagttcGatcatacacaaccccagttc	9	13	7	12	1	1	1	1	1	0	0	4	2	2	1	3	1	3	3	3	1	3	6	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	47162162	G	A	47162162	4	1	28	1	0	0	0	0	0	1	0	0	14133	1066	37	1	3806	1	SETD2	3	47162162	Nonsense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08	36970674	47162162	150860268	9	1645											
COPB2	9276	hgsc.bcm.edu;ucsc.edu	37	chr3	139090606	139090606	+	Frame_Shift_Del	DEL	A	A	-																															gcaaactcctgagcagatccAaagctcttgtttctcaatgc																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		-	139090606	A	-	139090606	7	5	28	1	0	1	0	1	0	0	0	0	3729	127	5	0	1608	0	COPB2	3	139090606	Frame_Shift_Del	DEL	A	TCGA-A3-3383-01A-01D-0966-08	91928444	139090606	58931824	10	1646											
MAEA	10296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1305934	1305934	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgtggtggagaagctcagCgtcctcaagaggaaggttgg	9	7	18	7	2	2	2	2	0	0	2	3	4	3	3	1	6	2	2	1	6	3	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	1305934	C	T	1305934	2	4	28	1	0	0	0	0	0	0	0	1	9153	767	27	1		1	MAEA	4	1305934	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08		1305934	189848342	11	1647											
GRPEL1	80273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	7062876	7062876	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcttttggaacacactGtgttgccttctccagaacgt	7	16	7	11	1	3	1	0	0	3	1	4	2	3	2	2	1	3	1	2	1	2	6	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	7062876	G	A	7062876	4	1	28	1	0	0	0	0	0	1	0	0	6806	1386	48	2	290	2	GRPEL1	4	7062876	Nonsense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08	5756942	7062876	184091400	12	1648											
SLIT2	9353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	20599967	20599967	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaactctatcgggggcGtgttcgtgccagctatgaca	8	10	14	9	3	1	2	0	1	1	1	3	2	1	2	1	3	3	3	1	3	4	4	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	20599967	G	A	20599967	3	1	28	1	0	0	0	0	1	0	0	0	14742	1145	40	1	3771	1	SLIT2	4	20599967	Missense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08	13537091	20599967	170554309	13	1649											
PITX2	5308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	111539589	111539589	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctcatggacgagatagAgttgggtggggaaaacatgc	12	8	15	6	1	1	2	1	0	0	2	1	5	1	4	0	4	3	2	0	4	3	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	111539589	A	T	111539589	3	4	28	1	0	0	0	0	1	0	0	0	11955	304	11	5	311	5	PITX2	4	111539589	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08	90939622	111539589	79614687	14	1650											
NUP153	9972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	17662260	17662260	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacagtacctttctcgttgTtctctattttgtccgggtgt	4	19	9	9	2	2	1	0	1	2	0	5	1	3	1	2	1	1	3	2	1	2	7	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	17662260	T	C	17662260	2	2	28	1	0	0	0	0	0	0	0	1	10755	1722	60	3		3	NUP153	6	17662260	Silent	SNP	T	TCGA-A3-3383-01A-01D-0966-08		17662260	153452807	15	1651											
ZKSCAN3	80317	hgsc.bcm.edu;ucsc.edu	37	chr6	28334004	28334004	+	Frame_Shift_Del	DEL	T	T	-																															tggaaaaggcttcacccgaaTttcataccttgttcaacatc																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		-	28334004	T	-	28334004	7	5	28	1	0	1	0	1	0	0	0	0	17687	1493	52	0	1577	0	ZKSCAN3	6	28334004	Frame_Shift_Del	DEL	T	TCGA-A3-3383-01A-01D-0966-08	10671744	28334004	142781063	16	1652											
COL11A2	1302	broad.mit.edu;hgsc.bcm.edu	37	chr6	33140387	33140387	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctgggtgacctctctcccCcatagggccggtttctcctg	3	11	11	16	1	2	1	0	1	2	0	5	1	3	1	6	3	0	1	6	3	1	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	33140387	C	A	33140387	3	1	28	1	0	0	0	0	1	0	0	0	3668	623	22	4	2504	4	COL11A2	6	33140387	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	4806383	33140387	137974680	17	1653											
WDR46	9277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33254931	33254931	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcataacatcgagccgccCagctcgagcattcagagctg	11	7	9	14	3	2	1	2	0	0	1	4	3	2	1	2	0	5	3	2	0	1	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	33254931	C	T	33254931	3	4	28	1	0	0	0	0	1	0	0	0	17298	594	21	2	908	2	WDR46	6	33254931	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	114544	33254931	137860136	18	1654											
ASCC3	10973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	101095127	101095127	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctttcctcatgtctttCagcttatccacagtaagctt	8	17	4	12	0	5	0	3	0	2	0	7	0	7	0	2	0	2	3	2	0	2	5	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	101095127	C	A	101095127	2	1	28	1	0	0	0	0	0	0	0	1	1033	813	29	4		4	ASCC3	6	101095127	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08	67840196	101095127	70019940	19	1655											
AIM1	202	hgsc.bcm.edu;ucsc.edu	37	chr6	107011654	107011655	+	Frame_Shift_Del	DEL	TG	TG	-																															agcagatagcagaagactgcTgcctgacgattgtgggcagc																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		-	107011655	TG	-	107011654	7	5	28	1	0	1	0	1	0	0	0	0	430	1580	55	0	5004	0	AIM1	6	107011654	Frame_Shift_Del	DEL	TG	TCGA-A3-3383-01A-01D-0966-08	5916527	107011654	64103413	20	1656											
POM121C	100101267	broad.mit.edu;ucsc.edu	37	chr7	75054987	75054987	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaatgatgacacagctcttCttctctgttgggaaaaaagg	12	11	11	7	0	3	2	0	2	3	0	4	4	3	4	0	3	1	2	0	3	4	3	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		G	75054987	G	G	75054987	3	3	28	1	0	0	0	0	1	0	0	0	12240	922	32	4	2414	4	POM121C	7	75054987	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08		75054987	84083676	21	1657											
DOCK4	9732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	111555908	111555908	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatactgatgaatattccCttctgatttgttcaatgtct	12	17	5	7	0	3	3	1	3	2	0	4	3	4	3	1	0	1	1	1	0	6	6	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	111555908	C	T	111555908	3	4	28	1	0	0	0	0	1	0	0	0	4689	681	24	2	4942	2	DOCK4	7	111555908	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	36500921	111555908	47582755	22	1658											
NUP205	23165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135307659	135307659	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcgagatgcttgtgatggtCatgagattggaagggtaaag	11	11	16	3	1	1	3	1	2	0	2	2	6	1	4	0	3	1	2	0	3	3	3	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	135307659	C	T	135307659	3	4	28	1	0	0	0	0	1	0	0	0	10759	826	29	2	4587	2	NUP205	7	135307659	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	23751751	135307659	23831004	23	1659											
PTGES	9536	broad.mit.edu	37	chr9	132502051	132502051	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaccaggaagtgcatccAggcgacaaaagggttaggac	15	4	14	8	1	0	1	0	0	0	1	1	5	1	3	2	4	1	2	2	4	5	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	132502051	C	C	132502051	3	2	28	1	0	0	0	0	1	0	0	0	12748	188	7	5	164	5	PTGES	9	132502051	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08		132502051	8711380	24	1660											
TAF3	83860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	8006092	8006092	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaaaggggacacgctagatGttgtgttattggaagctcga	11	11	13	6	2	0	1	0	0	0	1	1	4	0	3	0	3	1	4	0	3	5	5	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	8006092	G	T	8006092	3	4	28	1	0	0	0	0	1	0	0	0	15524	1377	48	4	629	4	TAF3	10	8006092	Missense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08		8006092	127528655	25	1661											
GPR158	57512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	25887796	25887796	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagagccaaggccagtccAttttggaagatgagaagctt	12	8	14	7	0	0	3	0	1	0	3	1	6	1	4	3	3	2	1	3	3	3	3	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	25887796	A	C	25887796	3	2	28	1	0	0	0	0	1	0	0	0	6663	217	8	5	3283	5	GPR158	10	25887796	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08	17881704	25887796	109646951	26	1662											
RHOBTB1	9886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	62670706	62670706	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatcccaaagcctgagagAaacactcacttcatcaacaa	17	7	5	12	0	3	2	3	1	0	1	4	3	4	2	2	0	3	1	2	0	5	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	62670706	A	T	62670706	3	4	28	1	0	0	0	0	1	0	0	0	13335	246	9	5	1887	5	RHOBTB1	10	62670706	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08	36782910	62670706	72864041	27	1663											
DNAJB12	54788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	74100574	74100574	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggttgtccctgcggtcctgCctttgctggtaggtatagcg	3	14	14	10	2	0	0	0	0	0	0	2	0	2	0	3	4	4	4	3	4	3	5	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	74100574	C	T	74100574	2	4	28	1	0	0	0	0	0	0	0	1	4617	738	26	2		2	DNAJB12	10	74100574	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08	11429868	74100574	61434173	28	1664											
GRID1	2894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	87966299	87966299	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccgggttgcgctggacaaaGaggtgtgggatgtgcatggc	7	8	18	8	2	0	1	0	0	0	1	0	3	0	3	1	5	2	3	1	5	1	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	87966299	G	C	87966299	2	2	28	1	0	0	0	0	0	0	0	1	6771	929	33	4		4	GRID1	10	87966299	Silent	SNP	G	TCGA-A3-3383-01A-01D-0966-08	13865725	87966299	47568448	29	1665											
B4GALNT4	338707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	375649	375649	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccccagatgagtcagcCttgaagatggaccacgtggc	9	7	12	13	1	1	4	1	2	0	2	1	5	1	5	4	2	2	0	4	2	1	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	375649	C	T	375649	2	4	28	1	0	0	0	0	0	0	0	1	1269	668	24	2		2	B4GALNT4	11	375649	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08		375649	134630867	30	1666											
TRIM3	10612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6479378	6479378	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccgggtcgtgggccccatCaggtgcctgctgcattgcct	3	10	13	15	2	1	0	1	0	0	0	3	0	2	0	5	3	4	2	5	3	0	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	6479378	C	T	6479378	3	4	28	1	0	0	0	0	1	0	0	0	16503	826	29	2	1994	2	TRIM3	11	6479378	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	6103729	6479378	128527138	31	1667											
CSTF3	1479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33123767	33123767	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgtacgaagagggttgCtcttttcccactgtatatat	8	15	8	10	1	2	1	0	0	2	1	3	2	3	1	2	1	2	4	2	1	5	7	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	33123767	C	T	33123767	3	4	28	1	0	0	0	0	1	0	0	0	3986	797	28	2	1419	2	CSTF3	11	33123767	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	26644389	33123767	101882749	32	1668											
PCF11	51585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	82877725	82877725	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagttccaagtctgccaaaAgatggaaatctggttgggaa	15	9	11	6	0	2	1	0	0	2	1	3	3	3	3	2	3	1	2	2	3	6	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		G	82877725	A	G	82877725	3	3	28	1	0	0	0	0	1	0	0	0	11573	64	3	3	1804	3	PCF11	11	82877725	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08	49753958	82877725	52128791	33	1669											
OR8G1	26494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124121146	124121146	+	Missense_Mutation	SNP	A	A	T																															ccaaagccttcagcacttgtAgctcccacatgttggcggtt																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	124121146	A	T	124121146	3	4	28	1	0	0	0	0	1	0	0	0	11234	420	15	5	726	5	OR8G1	11	124121146	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08	41243421	124121146	10885370	34	1670	25	2									
OR8G1	26494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124121147	124121147	+	Missense_Mutation	SNP	G	G	A																															caaagccttcagcacttgtaGctcccacatgttggcggttg																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	124121147	G	A	124121147	3	1	28	1	0	0	0	0	1	0	0	0	11234	971	34	2	727	2	OR8G1	11	124121147	Missense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08	1	124121147	10885369	35	1671	25	2									
STYK1	55359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10783738	10783738	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacagctaccactgcaaatCtgctccagaacttcagagag	13	7	7	14	0	2	2	1	0	1	2	3	3	3	2	3	0	5	3	3	0	3	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	10783738	C	T	10783738	2	4	28	1	0	0	0	0	0	0	0	1	15360	912	32	2		2	STYK1	12	10783738	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08		10783738	123068157	36	1672											
ITPR2	3709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	26848561	26848561	+	Missense_Mutation	SNP	G	G	C																															cattttttccttcattttggGcatctcgataatcaggatta																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	26848561	G	C	26848561	3	2	28	1	0	0	0	0	1	0	0	0	7921	1203	42	4	7323	4	ITPR2	12	26848561	Missense_Mutation	SNP	G	TCGA-A3-3383-01A-01D-0966-08	16064823	26848561	107003334	37	1673	26	2									
ITPR2	3709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	26848562	26848562	+	Missense_Mutation	SNP	C	C	T																															attttttccttcattttgggCatctcgataatcaggattaa																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	26848562	C	T	26848562	3	4	28	1	0	0	0	0	1	0	0	0	7921	710	25	2	7324	2	ITPR2	12	26848562	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	1	26848562	107003333	38	1674	26	2									
WDR66	144406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122369710	122369710	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttactatattcgagaggAaaggcagagagttcttctgt	11	14	11	5	1	2	2	0	0	2	2	3	5	2	3	0	2	1	3	0	2	4	7	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	122369710	A	T	122369710	3	4	28	1	0	0	0	0	1	0	0	0	17316	246	9	5	816	5	WDR66	12	122369710	Missense_Mutation	SNP	A	TCGA-A3-3383-01A-01D-0966-08	95521148	122369710	11482185	39	1675											
BUB1B	701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40505655	40505655	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catggtgacttgagtccaagGtgtctgattctcagaaacag	11	11	11	8	0	2	4	1	3	2	1	4	4	3	4	1	2	1	0	1	2	2	2	rs146821149	alternate_allele	TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	40505655	G	A	40505655	2	1	28	1	0	0	0	0	0	0	0	1	1571	1252	44	2		2	BUB1B	15	40505655	Silent	SNP	G	TCGA-A3-3383-01A-01D-0966-08		40505655	62025737	40	1676											
CORO7	79585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4412076	4412076	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtcactctcaccaggtgtGgtgaggttgagccccttgag	6	10	13	12	1	2	3	2	3	1	0	3	3	2	3	4	3	1	1	4	3	0	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	4412076	G	T	4412076	2	4	28	1	0	0	0	0	0	0	0	1	3759	1335	47	4		4	CORO7	16	4412076	Silent	SNP	G	TCGA-A3-3383-01A-01D-0966-08		4412076	85942677	41	1677											
RBBP6	5930	broad.mit.edu;hgsc.bcm.edu	37	chr16	24564874	24564874	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttctctggcccagcttaCaaaggtatatatatatatat	13	16	5	7	0	1	0	0	0	1	0	2	0	1	0	1	2	2	2	1	2	10	10	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	24564874	C	A	24564874	3	1	28	1	0	0	0	0	1	0	0	0	13105	478	17	4	412	4	RBBP6	16	24564874	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	20152798	24564874	65789879	42	1678											
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31089750	31089751	+	Frame_Shift_Ins	INS	-	-	T																															acccgggagctagaagacaaINStgaaggcctggagtctcccc																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	31089751	-	T	31089750	7	5	28	1	0	1	1	0	0	0	0	0	18061	101	4	0	2107	0	ZNF646	16	31089750	Frame_Shift_Ins	INS	-	TCGA-A3-3383-01A-01D-0966-08	6524876	31089750	59265003	43	1679											
MYH2	4620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10442759	10442759	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaatttgaattatgcacctAcctgttctacagtctggcct	9	16	6	10	0	2	1	0	1	2	0	2	1	2	1	3	1	3	2	3	1	5	6	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		G	10442759	A	G	10442759	5	3	28	1	0	0	0	0	0	0	1	0	10035	405	14	3	4669	3	MYH2	17	10442759	Splice_Site	SNP	A	TCGA-A3-3383-01A-01D-0966-08		10442759	70752451	44	1680											
ACLY	47	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40028034	40028034	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataatgccactgtcaaaggCtttactgaacatcttggctg	11	12	9	9	0	2	1	1	1	1	0	2	2	2	1	1	2	3	2	1	2	4	4	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	40028034	C	T	40028034	3	4	28	1	0	0	0	0	1	0	0	0	143	797	28	2	480	2	ACLY	17	40028034	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	29585275	40028034	41167176	45	1681											
COL5A3	50509	broad.mit.edu	37	chr19	10116808	10116808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccaattctgaatgccCggtcaccctctggagtcctc	6	10	9	16	1	3	1	1	1	2	0	5	2	4	2	5	3	1	0	5	3	2	1	rs144021089	byfrequency	TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	10116808	T	T	10116808	3	4	28	1	0	0	0	0	1	0	0	0	3698	652	23	1	5313	1	COL5A3	19	10116808	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08		10116808	49012175	46	1682											
LDLR	3949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11224382	11224382	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggcgtgaagaggaaaacGttattcagggagaacggctc	14	6	15	6	3	1	3	1	1	0	2	2	5	1	4	0	4	2	2	0	4	6	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	11224382	G	A	11224382	2	1	28	1	0	0	0	0	0	0	0	1	8704	1132	40	1		1	LDLR	19	11224382	Silent	SNP	G	TCGA-A3-3383-01A-01D-0966-08	1107574	11224382	47904601	47	1683											
WDR83	84292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12783897	12783897	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggactccacattgcggcTcctggacaaagacacagggg	10	6	12	13	1	0	1	0	0	0	1	2	3	2	3	3	5	1	1	3	5	1	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		A	12783897	T	A	12783897	3	1	28	1	0	0	0	0	1	0	0	0	17331	1551	54	5	676	5	WDR83	19	12783897	Missense_Mutation	SNP	T	TCGA-A3-3383-01A-01D-0966-08	1559515	12783897	46345086	48	1684											
SIPA1L3	23094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38573642	38573642	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcggtgttggaagttccCaaggagcagcagcggacgca	10	7	14	10	3	1	0	0	0	1	0	3	3	2	3	1	4	3	5	1	4	2	2	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	38573642	C	T	38573642	2	4	28	1	0	0	0	0	0	0	0	1	14333	581	21	2		2	SIPA1L3	19	38573642	Silent	SNP	C	TCGA-A3-3383-01A-01D-0966-08	25789745	38573642	20555341	49	1685											
ZNF600	162966	hgsc.bcm.edu;ucsc.edu	37	chr19	53270877	53270877	+	Frame_Shift_Del	DEL	A	A	-																															tcttcttgacactgaaactcAatatcatgaatttctttctc																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		-	53270877	A	-	53270877	7	5	28	1	0	1	0	1	0	0	0	0	18029	126	5	0	2040	0	ZNF600	19	53270877	Frame_Shift_Del	DEL	A	TCGA-A3-3383-01A-01D-0966-08	14697235	53270877	5858106	50	1686											
FCAR	2204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55399613	55399613	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acggttggtacaacaggagcCcctacctgtggtccttcccc	7	9	10	15	1	0	0	0	0	0	0	2	1	2	1	6	4	4	2	6	4	3	4	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	55399613	C	T	55399613	3	4	28	1	0	0	0	0	1	0	0	0	5773	623	22	2	615	2	FCAR	19	55399613	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08	2128736	55399613	3729370	51	1687											
EYA2	2139	hgsc.bcm.edu;ucsc.edu	37	chr20	45771755	45771757	+	In_Frame_Del	DEL	GCA	GCA	-																															aagagatgatcttcaaccttGcagatacacatctgttcttc																								novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	GCA	GCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		-	45771757	GCA	-	45771755	7	5	28	1	0	1	0	1	0	0	0	0	5329	1319	46	0	980	0	EYA2	20	45771755	In_Frame_Del	DEL	GCA	TCGA-A3-3383-01A-01D-0966-08		45771755	17253765	52	1688											
NCAPH2	29781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50954874	50954874	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctttgtgttgtttcttgcAgctggatcagatctgcattt	5	19	10	7	0	4	1	1	0	3	1	4	2	4	2	0	1	3	5	0	1	0	5	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		C	50954874	A	C	50954874	5	2	28	1	0	0	0	0	0	0	1	0	10210	202	7	5	113	5	NCAPH2	22	50954874	Splice_Site	SNP	A	TCGA-A3-3383-01A-01D-0966-08		50954874	349692	53	1689											
SHROOM2	357	broad.mit.edu;hgsc.bcm.edu	37	chrX	9914789	9914789	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggagaacctggaccgcCgcgagcgcatcgtctttgac	9	7	12	13	5	2	2	1	1	1	1	3	5	2	3	3	2	2	1	3	2	2	1	novel		TCGA-A3-3383-01A-01D-0966-08	TCGA-A3-3383-11A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ea06f57-c7fa-4881-b9c0-dd3f9c1c4ca0	c1c63fb7-47c4-4d5c-ad01-6a51f605475e		T	9914789	C	T	9914789	3	4	28	1	0	0	0	0	1	0	0	0	14296	652	23	1	4701	1	SHROOM2	23	9914789	Missense_Mutation	SNP	C	TCGA-A3-3383-01A-01D-0966-08		9914789	145355771	54	1690											
FAM40A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110589317	110589317	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcacaagtacacgtcgAttgcagaggtccaggcacag	13	5	11	12	2	0	1	0	0	0	1	2	2	1	1	2	2	3	4	2	2	2	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	110589317	A	C	110589317	3	2	29	1	0	0	0	0	1	0	0	0	5560	333	12	5	1482	5	FAM40A	1	110589317	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08		110589317	138661304	1	1691											
SLC6A17	388662	broad.mit.edu;ucsc.edu	37	chr1	110709707	110709708	+	Frame_Shift_Del	DEL	GG	-	-																															ggcaagcagaaggcggtggaGgaggagctggatgcagagga																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	110709708	-	-	110709707	7	5	29	1	0	1	0	1	0	0	0	0	14682	991	35	0	158	0	SLC6A17	1	110709707	Frame_Shift_Del	DEL	GG	TCGA-A3-3385-01A-02D-1421-08	120390	110709707	138540914	2	1692											
ASH1L	55870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155308160	155308160	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttaggggtggctttgaGcgctcagacttccaggatga	7	13	13	8	1	2	3	1	2	1	1	3	4	3	4	1	4	1	2	1	4	1	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	155308160	G	C	155308160	2	2	29	1	0	0	0	0	0	0	0	1	1041	958	34	4		4	ASH1L	1	155308160	Silent	SNP	G	TCGA-A3-3385-01A-02D-1421-08	44598453	155308160	93942461	3	1693											
TBX19	9095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	168269666	168269666	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttactctttcagaaatcaCctaagagacgtaccggaggc	12	10	8	11	2	3	2	2	0	1	2	3	4	3	3	2	2	2	1	2	2	4	5	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	168269666	C	T	168269666	2	4	29	1	0	0	0	0	0	0	0	1	15653	506	18	2		2	TBX19	1	168269666	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08	12961506	168269666	80980955	4	1694											
DDX59	83479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200617572	200617572	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataaagctccttacctgatGgacatactcatccatacttg	12	13	5	11	0	1	1	1	1	0	0	3	2	3	2	3	1	4	1	3	1	6	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	200617572	G	A	200617572	3	1	29	1	0	0	0	0	1	0	0	0	4376	1348	47	2	276	2	DDX59	1	200617572	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	32347906	200617572	48633049	5	1695											
TIMM17A	10440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201926640	201926640	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttccttttttttgttataggGagtaaaccacagactacgag	11	15	8	7	1	0	1	0	0	0	1	1	3	1	2	2	1	2	2	2	1	5	9	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	201926640	G	T	201926640	3	4	29	1	0	0	0	0	1	0	0	0	15907	1188	41	4	138	4	TIMM17A	1	201926640	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	1309068	201926640	47323981	6	1696											
MSH2	4436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	47703619	47703619	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagtgtccattgtggacTgcatcttagcccgagtaggg	9	10	13	9	1	1	1	0	0	1	1	2	3	2	2	2	2	2	2	2	2	3	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	47703619	T	C	47703619	3	2	29	1	0	0	0	0	1	0	0	0	9870	1580	55	3	2169	3	MSH2	2	47703619	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08		47703619	195495754	7	1697											
VPS54	51542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	64196097	64196097	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagctttgttaccttaggTacttgctccagatctgtcct	7	17	7	10	0	1	1	0	0	1	1	3	1	3	1	3	1	4	4	3	1	4	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	64196097	T	A	64196097	2	1	29	1	0	0	0	0	0	0	0	1	17215	1625	57	5		5	VPS54	2	64196097	Silent	SNP	T	TCGA-A3-3385-01A-02D-1421-08	16492478	64196097	179003276	8	1698											
TGFBRAP1	9392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	105914998	105914998	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaggatatggccctcctTaaagggcagcgtctgcttct	7	12	11	11	1	2	0	0	0	2	0	3	1	3	1	2	3	2	3	2	3	4	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	105914998	T	C	105914998	3	2	29	1	0	0	0	0	1	0	0	0	15823	1763	61	3	1769	3	TGFBRAP1	2	105914998	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08	41718901	105914998	137284375	9	1699											
DPP10	57628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	116485484	116485484	+	Missense_Mutation	SNP	T	T	A																															ggaaaagaagaaataattttTaatgggattgctgactggtt																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	116485484	T	A	116485484	3	1	29	1	0	0	0	0	1	0	0	0	4727	1751	61	5	870	5	DPP10	2	116485484	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08	10570486	116485484	126713889	10	1700	27	2									
DPP10	57628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	116485485	116485485	+	Missense_Mutation	SNP	A	A	C																															gaaaagaagaaataatttttAatgggattgctgactggtta																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	116485485	A	C	116485485	3	2	29	1	0	0	0	0	1	0	0	0	4727	362	13	5	871	5	DPP10	2	116485485	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08	1	116485485	126713888	11	1701	27	2									
ZEB2	9839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	145157350	145157350	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgcctggaaacagtattGtccacaatctgtagaacctt	11	14	7	9	0	1	1	0	0	1	1	2	2	2	2	3	1	3	2	3	1	5	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	145157350	G	T	145157350	3	4	29	1	0	0	0	0	1	0	0	0	17623	1368	48	4	2252	4	ZEB2	2	145157350	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	28671865	145157350	98042023	12	1702											
CWC22	57703	hgsc.bcm.edu	37	chr2	180851432	180851432	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacactaaccgtgactccaTgctactatcataagaacgtc	14	9	5	13	2	1	2	1	1	0	1	3	2	2	2	2	0	5	1	2	0	6	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	180851432	T	A	180851432	3	1	29	1	0	0	0	0	1	0	0	0	4068	1464	51	5	2598	5	CWC22	2	180851432	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08	35694082	180851432	62347941	13	1703											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228881372	228881372	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaagtttcttttttagaatCtaaagggctgtggtttgtaa	10	17	11	3	0	2	1	0	0	2	1	2	2	2	2	0	3	0	4	0	3	6	7	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		G	228881372	C	G	228881372	3	3	29	1	0	0	0	0	1	0	0	0	15049	913	32	4	928	4	SPHKAP	2	228881372	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	48029940	228881372	14318001	14	1704											
VHL	7428	broad.mit.edu	37	chr3	10183829	10183830	+	Frame_Shift_Del	DEL	AC	-	-																															gcgagccgcagccctacccaAcgctgccgcctggcacgggc																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	AC	AC	AC	-	AC	AC	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina GAIIx	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	10183830	-	-	10183829	7	5	29	1	0	1	0	1	0	0	0	0	17161	43	2	0	300	0	VHL	3	10183829	Frame_Shift_Del	DEL	AC	TCGA-A3-3385-01A-02D-1421-08		10183829	187838601	15	1705											
CAPN7	23473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	15292631	15292631	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctaaatataggtgtgggtTttgctacctggaattagaaa	12	14	10	5	0	1	1	0	0	1	1	1	2	1	2	1	3	2	2	1	3	8	7	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	15292631	T	A	15292631	3	1	29	1	0	0	0	0	1	0	0	0	2631	1841	64	5	2388	5	CAPN7	3	15292631	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08	5108802	15292631	182729799	16	1706											
TPPP	11076	broad.mit.edu;hgsc.bcm.edu	37	chr5	678108	678108	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggctgcccggtccttcGaggggtcccccggggacttg	2	10	15	14	3	1	0	0	0	1	0	4	2	3	1	4	6	1	1	4	6	0	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	678108	G	T	678108	4	4	29	1	0	0	0	0	0	1	0	0	16412	1059	37	4	603	4	TPPP	5	678108	Nonsense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08		678108	180237152	17	1707											
LMBRD2	92255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	36117868	36117868	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataattatatgttttttctGccagctgtatgaagaccgca	11	16	7	7	1	1	2	0	1	1	1	1	2	1	2	2	0	2	4	2	0	6	8	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	36117868	G	A	36117868	3	1	29	1	0	0	0	0	1	0	0	0	8843	1319	46	2	852	2	LMBRD2	5	36117868	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	35439760	36117868	144797392	18	1708											
NIPBL	25836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37006527	37006527	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagagttacaaaatcagcGgatgcttgtcttacaactat	14	11	9	7	1	2	1	1	0	1	1	2	4	2	2	0	1	5	2	0	1	6	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	37006527	G	A	37006527	2	1	29	1	0	0	0	0	0	0	0	1	10428	1103	39	1		1	NIPBL	5	37006527	Silent	SNP	G	TCGA-A3-3385-01A-02D-1421-08	888659	37006527	143908733	19	1709											
RICTOR	253260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	38955727	38955727	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgacgaacatagttatcaCcatcaacaggcttccggtaa	13	9	7	12	3	2	0	2	0	0	0	4	2	4	0	3	2	2	3	3	2	5	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	38955727	C	T	38955727	3	4	29	1	0	0	0	0	1	0	0	0	13360	507	18	2	2599	2	RICTOR	5	38955727	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	1949200	38955727	141959533	20	1710											
C5orf44	80006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64933559	64933559	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaccttttccagttatatCagcgttcataatgatagcaa	13	13	7	8	1	2	2	2	1	0	1	3	3	3	2	2	0	2	3	2	0	5	7	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	64933559	C	T	64933559	2	4	29	1	0	0	0	0	0	0	0	1	2303	816	29	2		2	C5orf44	5	64933559	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08	25977832	64933559	115981701	21	1711											
PCDHGB4	8641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140768184	140768184	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgctccagtgttcagtcaaGacgtatacagggtgagcctt	10	11	11	9	1	2	2	2	1	0	1	3	2	3	2	2	1	3	3	2	1	3	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	140768184	G	C	140768184	3	2	29	1	0	0	0	0	1	0	0	0	11565	942	33	4	735	4	PCDHGB4	5	140768184	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	75834625	140768184	40147076	22	1712											
BEND6	221336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56883335	56883335	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaaaaatcttaactctcagGatattaaatagatccttttg	15	14	5	7	0	2	1	1	0	2	1	4	2	3	2	1	1	1	1	1	1	7	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	56883335	G	T	56883335	3	4	29	1	0	0	0	0	1	0	0	0	1402	1174	41	4	847	4	BEND6	6	56883335	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08		56883335	114231732	23	1713											
C6orf221	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	74073548	74073548	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcagtgacccagcggtttCgcgaggatgcccgggaccca	8	5	15	13	4	0	1	0	1	0	0	1	4	0	3	3	4	2	2	3	4	0	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	74073548	C	T	74073548	3	4	29	1	0	0	0	0	1	0	0	0	2355	884	31	1	629	1	C6orf221	6	74073548	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	17190213	74073548	97041519	24	1714											
LCA5	167691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	80203392	80203392	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattttcatcatgagcctCatatgcccttttcctttcag	7	19	4	11	0	4	1	4	1	0	0	5	1	5	1	3	0	2	0	3	0	2	8	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	80203392	C	A	80203392	4	1	29	1	0	0	0	0	0	1	0	0	8656	835	29	4	1317	4	LCA5	6	80203392	Nonsense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	6129844	80203392	90911675	25	1715											
HACE1	57531	broad.mit.edu;hgsc.bcm.edu	37	chr6	105192486	105192486	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccagaaagcagtagctcCttgggggaagaagaaaaata	17	6	12	6	0	0	3	0	0	0	3	1	4	1	4	2	2	3	3	2	2	7	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	105192486	C	A	105192486	5	1	29	1	0	0	0	0	0	0	1	0	6940	695	24	4	402	4	HACE1	6	105192486	Splice_Site	SNP	C	TCGA-A3-3385-01A-02D-1421-08	24989094	105192486	65922581	26	1716											
LAMA2	3908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	129663519	129663519	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacactgctggtgacttctGtgaacgatgtgctcttggat	7	14	11	9	1	3	2	1	2	2	0	3	4	3	3	0	2	3	2	0	2	1	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	129663519	G	C	129663519	3	2	29	1	0	0	0	0	1	0	0	0	8606	1377	48	4	4461	4	LAMA2	6	129663519	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	24471033	129663519	41451548	27	1717											
EPB41L2	2037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	131190764	131190764	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgggacacctctccgttaActttctgtggctcttcctct	5	15	7	14	1	4	0	0	0	4	0	6	1	5	1	3	2	1	2	3	2	1	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	131190764	A	C	131190764	3	2	29	1	0	0	0	0	1	0	0	0	5153	43	2	5	491	5	EPB41L2	6	131190764	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08	1527245	131190764	39924303	28	1718											
HERPUD2	64224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	35678058	35678058	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatccaggtggagcagcttgCccaggaaattggttgtctac	10	10	12	9	0	1	0	0	0	1	0	2	2	2	2	2	4	4	3	2	4	3	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	35678058	C	A	35678058	2	1	29	1	0	0	0	0	0	0	0	1	7064	726	26	4		4	HERPUD2	7	35678058	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08		35678058	123460605	29	1719											
BAZ1B	9031	broad.mit.edu;hgsc.bcm.edu	37	chr7	72892732	72892732	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggaattctttgagttcttCactttgagtggcgagccact	7	16	10	8	1	3	2	1	2	2	0	3	4	3	3	1	2	1	1	1	2	1	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		G	72892732	C	G	72892732	2	3	29	1	0	0	0	0	0	0	0	1	1330	813	29	4		4	BAZ1B	7	72892732	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08	37214674	72892732	86245931	30	1720											
ZSCAN21	7589	hgsc.bcm.edu;ucsc.edu	37	chr7	99661552	99661552	+	Frame_Shift_Del	DEL	A	A	-																															gaggcagtgcgtaaaccttgAaaatgaaaaaggaacaaaac																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	99661552	A	-	99661552	7	5	29	1	0	1	0	1	0	0	0	0	18232	246	9	0	744	0	ZSCAN21	7	99661552	Frame_Shift_Del	DEL	A	TCGA-A3-3385-01A-02D-1421-08	26768820	99661552	59477111	31	1721											
TFEC	22797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	115624462	115624462	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcaggttgtgaccatttaaGagttggattgatgatctgat	10	15	12	4	0	1	5	0	4	1	1	1	6	1	6	1	2	1	3	1	2	1	5	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	115624462	G	C	115624462	3	2	29	1	0	0	0	0	1	0	0	0	15801	942	33	4	1037	4	TFEC	7	115624462	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	15962910	115624462	43514201	32	1722											
KIF13B	23303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	29018370	29018370	+	Frame_Shift_Del	DEL	C	C	-																															gatattccaagactctcaagCtgtttctgtcgttcctgtaa																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	29018370	C	-	29018370	7	5	29	1	0	1	0	1	0	0	0	0	8275	796	28	0	4308	0	KIF13B	8	29018370	Frame_Shift_Del	DEL	C	TCGA-A3-3385-01A-02D-1421-08		29018370	117345652	33	1723											
FGFR1	2260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38314935	38314935	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggctgtgaccagcacagcCcagaagaggaggcacttcca	11	5	13	12	0	0	3	0	1	0	2	1	4	1	4	3	3	2	3	3	3	1	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	38314935	C	A	38314935	3	1	29	1	0	0	0	0	1	0	0	0	5863	624	22	4	2817	4	FGFR1	8	38314935	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	9296565	38314935	108049087	34	1724											
PENK	5179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	57353861	57353861	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaatcctccgtatcttttTtccatttcaggaacttcttt	9	19	3	10	1	3	0	1	0	2	0	6	1	6	1	3	1	1	1	3	1	4	8	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		G	57353861	T	G	57353861	3	3	29	1	0	0	0	0	1	0	0	0	11727	1838	64	5	33	5	PENK	8	57353861	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08	19038926	57353861	89010161	35	1725											
ZFAND1	79752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	82626242	82626242	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatttttggcacctttccAtcgtttacttgctgtttctc	5	20	5	11	1	1	0	0	0	1	0	4	0	2	0	2	1	2	4	2	1	2	8	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		G	82626242	A	G	82626242	3	3	29	1	0	0	0	0	1	0	0	0	17625	217	8	3	475	3	ZFAND1	8	82626242	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08	25272381	82626242	63737780	36	1726											
RNF20	56254	broad.mit.edu	37	chr9	104324630	104324630	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgaagacacgctatgacAcccgccagcgcaaatgtccc	11	6	10	14	3	0	3	0	2	0	1	1	3	1	3	3	0	1	2	3	0	3	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	104324630	C	C	104324630	3	2	29	1	0	0	0	0	1	0	0	0	13475	159	6	5	2928	5	RNF20	9	104324630	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08		104324630	36888801	37	1727											
NOTCH1	4851	broad.mit.edu	37	chr9	139396756	139396756	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtcctcgccgaggggctcCcgccgcttcttcttgctggc	2	10	13	16	4	2	0	0	0	2	0	5	2	4	0	4	3	1	3	4	3	0	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	139396756	A	A	139396756	2	1	29	1	0	0	0	0	0	0	0	1	10547	610	22	4		4	NOTCH1	9	139396756	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08	35072126	139396756	1816675	38	1728											
SVIL	6840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	29769552	29769552	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtttggggagcctgctaTagtcgaattccaggatgtgc	7	14	13	7	1	0	0	0	0	0	0	2	3	1	2	2	3	3	2	2	3	3	5	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	29769552	T	C	29769552	3	2	29	1	0	0	0	0	1	0	0	0	15420	1406	49	3	1393	3	SVIL	10	29769552	Missense_Mutation	SNP	T	TCGA-A3-3385-01A-02D-1421-08		29769552	105765195	39	1729											
SIRT1	23411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	69676090	69676091	+	Frame_Shift_Ins	INS	-	-	A																															tgaggtatattcagactctgINSaagatgacgtcttatcctct																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	69676091	-	A	69676090	7	5	29	1	0	1	1	0	0	0	0	0	14339	1291	45	0	2018	0	SIRT1	10	69676090	Frame_Shift_Ins	INS	-	TCGA-A3-3385-01A-02D-1421-08	39906538	69676090	65858657	40	1730											
NLRP10	338322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	7981799	7981799	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcttgatggcaagtcccaAttggtagtcgttactactca	9	14	8	10	1	2	1	1	1	1	0	4	1	3	1	1	2	2	3	1	2	5	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	7981799	A	C	7981799	3	2	29	1	0	0	0	0	1	0	0	0	10472	98	4	5	611	5	NLRP10	11	7981799	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08		7981799	127024717	41	1731											
DEPDC4	120863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100660755	100660755	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggaacttggcccgttcaGccctgggcccggaagctcgt	5	8	13	15	3	1	0	1	0	0	0	2	2	1	2	4	4	3	2	4	4	2	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	100660755	G	A	100660755	2	1	29	1	0	0	0	0	0	0	0	1	4441	962	34	2		2	DEPDC4	12	100660755	Silent	SNP	G	TCGA-A3-3385-01A-02D-1421-08		100660755	33191140	42	1732											
NCOR2	9612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124858994	124858994	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccctctgggcacctcattcCcagaggcatgtaaggctgga	8	8	11	14	0	2	1	1	0	1	1	3	2	3	2	4	4	0	4	4	4	1	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	124858994	C	T	124858994	3	4	29	1	0	0	0	0	1	0	0	0	10236	623	22	2	5501	2	NCOR2	12	124858994	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	24198239	124858994	8992901	43	1733											
SCARB1	949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	125267275	125267275	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccttgggagctgatgtcAtcagggattcagaataggcc	10	9	13	9	0	3	2	3	1	0	1	3	4	3	4	2	3	2	1	2	3	2	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		G	125267275	A	G	125267275	3	3	29	1	0	0	0	0	1	0	0	0	13883	217	8	3	173	3	SCARB1	12	125267275	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08	408281	125267275	8584620	44	1734											
SHISA2	387914	hgsc.bcm.edu	37	chr13	26624935	26624935	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcagatggtggcgtcgccgCcgtcgaagcgctcgggacac	7	5	16	13	7	0	1	0	0	0	1	3	3	0	2	2	3	2	2	2	3	1	0	rs111516934	bycluster;byfrequency;by1000genomes	TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	26624935	C	T	26624935	3	4	29	1	0	0	0	0	1	0	0	0	14282	739	26	2	716	2	SHISA2	13	26624935	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08		26624935	88544943	45	1735											
NDRG2	57447	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21486946	21486946	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcatcttcatgaggtgcttgGtctcctaccaccagcatcac	8	11	8	14	0	4	1	2	1	2	0	5	1	4	1	3	2	3	3	3	2	1	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	21486946	G	T	21486946	3	4	29	1	0	0	0	0	1	0	0	0	10252	1252	44	4	346	4	NDRG2	14	21486946	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08		21486946	85862594	46	1736											
GTF2A1	2957	broad.mit.edu;hgsc.bcm.edu	37	chr14	81659180	81659180	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctccaggaagaggagccaGcacctaaagcaaaagaaaac	18	2	9	12	0	0	2	0	0	0	2	1	4	1	4	4	2	4	2	4	2	7	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	81659180	G	T	81659180	3	4	29	1	0	0	0	0	1	0	0	0	6852	962	34	4	526	4	GTF2A1	14	81659180	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	60172234	81659180	25690360	47	1737											
C15orf52	388115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40628801	40628801	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgccagtcagcctctcCttgccccgggctttgctgcc	2	10	10	19	1	2	0	1	0	1	0	3	0	2	0	7	1	5	2	7	1	0	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	40628801	C	T	40628801	2	4	29	1	0	0	0	0	0	0	0	1	1800	680	24	2		2	C15orf52	15	40628801	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08		40628801	61902591	48	1738											
TNK1	8711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7291994	7291994	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctggaggcctcttgtccGatcctgagttgcagaggaag	7	11	13	10	1	2	2	0	1	2	1	5	5	4	4	3	3	1	2	3	3	1	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	7291994	G	A	7291994	3	1	29	1	0	0	0	0	1	0	0	0	16316	1058	37	1	1785	1	TNK1	17	7291994	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08		7291994	73903216	49	1739											
MYH2	4620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10447217	10447217	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgtgacaatcagactcAcctgtattttgccagaagta	12	12	8	9	0	2	4	2	2	0	2	2	4	2	4	2	0	1	2	2	0	4	4	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	10447217	A	T	10447217	5	4	29	1	0	0	0	0	0	0	1	0	10035	173	6	5	5311	5	MYH2	17	10447217	Splice_Site	SNP	A	TCGA-A3-3385-01A-02D-1421-08	3155223	10447217	70747993	50	1740											
MYH3	4621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10535182	10535182	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaggagctcctgttccGccagtttccgggccctctcc	4	10	10	17	2	1	0	0	0	1	0	6	1	5	1	7	2	1	3	7	2	0	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	10535182	G	A	10535182	3	1	29	1	0	0	0	0	1	0	0	0	10036	1087	38	1	742	1	MYH3	17	10535182	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	87965	10535182	70660028	51	1741											
ERBB2	2064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37876087	37876087	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgccgagcagagagccaGgttggcctggaccccaggat	8	4	14	15	2	0	1	0	0	0	1	0	5	0	3	7	4	2	2	7	4	0	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	37876087	G	C	37876087	3	2	29	1	0	0	0	0	1	0	0	0	5206	1014	35	4	2008	4	ERBB2	17	37876087	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	27340905	37876087	43319123	52	1742											
MIDN	90007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1257108	1257108	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgggacgcgcggggtcCgtaccactggtcacccagcc	5	4	15	17	6	1	0	1	0	0	0	2	1	2	1	5	5	2	1	5	5	1	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	1257108	C	T	1257108	3	4	29	1	0	0	0	0	1	0	0	0	9579	652	23	1	1270	1	MIDN	19	1257108	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08		1257108	57871875	53	1743											
NOTCH3	4854	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15298087	15298087	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccatccacgcagcgacCatggtggcatgggtcagggg	8	6	16	11	2	1	0	1	0	0	0	2	2	2	0	3	5	2	2	3	5	0	0	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	15298087	C	A	15298087	3	1	29	1	0	0	0	0	1	0	0	0	10550	594	21	4	5388	4	NOTCH3	19	15298087	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	14040979	15298087	43830896	54	1744											
ZFP82	284406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36884269	36884269	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtttgtgatgtactctaaGaccagagccacacaaaaagg	16	8	9	8	0	1	3	0	1	1	2	1	3	1	3	2	1	2	2	2	1	5	3	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		C	36884269	G	C	36884269	3	2	29	1	0	0	0	0	1	0	0	0	17652	942	33	4	629	4	ZFP82	19	36884269	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	21586182	36884269	22244714	55	1745											
ZNF260	339324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37005751	37005751	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatagggtttggttcctgtAtgatttttctggtgtctgat	5	19	12	5	0	2	2	0	2	2	0	3	2	3	2	1	3	0	4	1	3	2	6	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		G	37005751	A	G	37005751	2	3	29	1	0	0	0	0	0	0	0	1	17801	446	16	3		3	ZNF260	19	37005751	Silent	SNP	A	TCGA-A3-3385-01A-02D-1421-08	121482	37005751	22123232	56	1746											
PRX	57716	broad.mit.edu	37	chr19	40900148	40900148	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggacccggacccggccccGgcgacccgaggccccttccc	4	2	13	22	6	0	0	0	0	0	0	1	4	1	2	8	5	0	0	8	5	0	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	40900148	T	T	40900148	2	4	29	1	0	0	0	0	0	0	0	1	12644	1115	39	4		4	PRX	19	40900148	Silent	SNP	G	TCGA-A3-3385-01A-02D-1421-08	3894397	40900148	18228835	57	1747											
GPR4	2828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46094848	46094848	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtagaagatgaacccaaAgagcttgcaggacccggggc	12	5	15	9	1	0	4	0	1	0	3	0	5	0	5	2	4	3	3	2	4	4	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	46094848	A	T	46094848	3	4	29	1	0	0	0	0	1	0	0	0	6694	72	3	5	815	5	GPR4	19	46094848	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08	5194700	46094848	13034135	58	1748											
CCDC9	26093	hgsc.bcm.edu	37	chr19	47774666	47774668	+	In_Frame_Del	DEL	GAG	GAG	-																															tcgaggtggaagaaggtgatGaggaggaaccagcccaagac																								rs138370983	bycluster;by1000genomes	TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	47774668	GAG	-	47774666	7	5	29	1	0	1	0	1	0	0	0	0	2867	1291	45	0	1369	0	CCDC9	19	47774666	In_Frame_Del	DEL	GAG	TCGA-A3-3385-01A-02D-1421-08	1679818	47774666	11354317	59	1749											
TUBB1	81027	broad.mit.edu;ucsc.edu	37	chr20	57598805	57598805	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaaggccactacacggAgggagccgagctgatcgaga	12	3	15	11	3	0	2	0	1	0	1	1	6	0	4	3	4	3	1	3	4	2	1	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	57598805	T	T	57598805	3	4	29	1	0	0	0	0	1	0	0	0	16752	304	11	5	337	5	TUBB1	20	57598805	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08		57598805	5426715	60	1750											
ZDHHC8	29801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	20127299	20127299	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgggcgtcgaaactatcgCtacttcttcctgttcctgct	6	14	8	13	4	1	0	0	0	1	0	6	1	3	0	2	1	3	3	2	1	3	5	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	20127299	C	A	20127299	2	1	29	1	0	0	0	0	0	0	0	1	17620	784	28	4		4	ZDHHC8	22	20127299	Silent	SNP	C	TCGA-A3-3385-01A-02D-1421-08		20127299	31177267	61	1751											
HMGXB4	10042	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	35659854	35659854	+	Frame_Shift_Del	DEL	T	T	-																															aggaagcactcctctgatgaTtactactatggaggtgagga																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	35659854	T	-	35659854	7	5	29	1	0	1	0	1	0	0	0	0	7239	1490	52	0	256	0	HMGXB4	22	35659854	Frame_Shift_Del	DEL	T	TCGA-A3-3385-01A-02D-1421-08	15532555	35659854	15644712	62	1752											
LDOC1L	84247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	44893405	44893405	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacgctgccaaggctgggCtttcagctttggacgtctgc	6	10	14	11	2	2	1	1	0	1	1	2	3	2	2	1	3	3	4	1	3	1	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	44893405	C	T	44893405	3	4	29	1	0	0	0	0	1	0	0	0	8710	797	28	2	691	2	LDOC1L	22	44893405	Missense_Mutation	SNP	C	TCGA-A3-3385-01A-02D-1421-08	9233551	44893405	6411161	63	1753											
MAP7D2	256714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	20081684	20081684	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttctccaggatctgttGctcccgagcagctggggaag	6	11	13	11	1	2	0	0	0	2	0	4	3	3	2	2	3	3	5	2	3	1	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		A	20081684	G	A	20081684	4	1	29	1	0	0	0	0	0	1	0	0	9268	1328	46	2	2157	2	MAP7D2	23	20081684	Nonsense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08		20081684	135188876	64	1754											
GPR174	84636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	78427224	78427224	+	Frame_Shift_Del	DEL	A	A	-																															acctgtgcaggggtattcctAatttgctttgcaccttatca																								novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		-	78427224	A	-	78427224	7	5	29	1	0	1	0	1	0	0	0	0	6672	349	13	0	722	0	GPR174	23	78427224	Frame_Shift_Del	DEL	A	TCGA-A3-3385-01A-02D-1421-08	58345540	78427224	76843336	65	1755											
ZCCHC12	170261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	117960298	117960298	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaacctgtgacaacgagaGtgacaaggcccaggtttttg	13	8	12	8	1	0	4	0	2	0	2	0	5	0	4	2	2	2	1	2	2	3	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	117960298	G	T	117960298	3	4	29	1	0	0	0	0	1	0	0	0	17580	1029	36	4	1093	4	ZCCHC12	23	117960298	Missense_Mutation	SNP	G	TCGA-A3-3385-01A-02D-1421-08	39533074	117960298	37310262	66	1756											
PRRG3	79057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	150868604	150868604	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctacgaggaggtcaaggaAgtgtttgagaacaaagagaa	17	6	14	4	1	1	2	1	1	0	2	1	7	1	4	0	3	3	2	0	3	6	2	novel		TCGA-A3-3385-01A-02D-1421-08	TCGA-A3-3385-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0eb5edde-0ee0-4fc9-bc23-3015fc05258b	dad5faae-e650-4b72-8baa-5a7f732a136d		T	150868604	A	T	150868604	3	4	29	1	0	0	0	0	1	0	0	0	12609	69	3	5	150	5	PRRG3	23	150868604	Missense_Mutation	SNP	A	TCGA-A3-3385-01A-02D-1421-08	32908306	150868604	4401956	67	1757											
PPP1R13B	23368	hgsc.bcm.edu	37	chr14	104206456	104206456	+	Frame_Shift_Del	DEL	T	T	-																															ggagctcttccaggtttccaTtggcattggtgtttccattg																								novel		TCGA-A3-3385-01A-02W-1475-10	TCGA-A3-3385-11A-01W-1475-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	b1764a44-9403-49f3-bc2b-058664033927	d39be864-eb2d-4c56-8179-a567e6ad49c0		-	104206456	T	-	104206456	7	5	30	1	0	1	0	1	0	0	0	0	12359	1493	52	0	999	0	PPP1R13B	14	104206456	Frame_Shift_Del	DEL	T	TCGA-A3-3385-01A-02W-1475-10		104206456	3143084	1	1758											
UBE2J2	118424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1198752	1198752	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggggtcatctctgggcctCggacgacatagtgcctaagg	9	8	14	10	2	2	0	1	0	1	0	4	2	2	1	2	5	1	0	2	5	3	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	1198752	C	T	1198752	3	4	31	1	0	0	0	0	1	0	0	0	16860	884	31	1	653	1	UBE2J2	1	1198752	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10		1198752	248051869	1	1759											
UBE4B	10277	broad.mit.edu;ucsc.edu	37	chr1	10221342	10221342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtgggaccagttgcccCgggtgaggacgtggtccaga	9	6	16	10	2	0	2	0	1	0	1	1	4	1	4	4	4	2	1	4	4	1	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	10221342	T	T	10221342	3	4	31	1	0	0	0	0	1	0	0	0	16882	643	23	1	3286	1	UBE4B	1	10221342	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	9022590	10221342	239029279	2	1760											
PADI6	353238	broad.mit.edu;ucsc.edu	37	chr1	17720899	17720899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccacctgtcaaggtccaagGgaaagagtacccgctgggca	11	5	12	13	1	1	1	1	0	0	1	2	2	2	2	4	3	1	3	4	3	4	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	17720899	A	A	17720899	3	1	31	1	0	0	0	0	1	0	0	0	11381	1232	43	2	1329	2	PADI6	1	17720899	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10	7499557	17720899	231529722	3	1761											
AHDC1	27245	broad.mit.edu;ucsc.edu	37	chr1	27874531	27874531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacccaggctgggcgagtCgcagtggaagccttggccaa	9	5	15	12	2	0	0	0	0	0	0	1	2	0	1	3	4	2	3	3	4	2	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	27874531	T	T	27874531	3	4	31	1	0	0	0	0	1	0	0	0	412	884	31	1	719	1	AHDC1	1	27874531	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	10153632	27874531	221376090	4	1762											
ZSCAN20	7579	broad.mit.edu;ucsc.edu	37	chr1	33960693	33960693	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcttcagtaagagctccAccctggccaaccaccagcgc	12	5	8	16	1	1	1	1	0	0	1	2	1	2	1	5	1	4	3	5	1	3	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	33960693	G	G	33960693	3	3	31	1	0	0	0	0	1	0	0	0	18231	159	6	3	2775	3	ZSCAN20	1	33960693	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	6086162	33960693	215289928	5	1763											
C1orf94	84970	broad.mit.edu;ucsc.edu	37	chr1	34684328	34684328	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccttgatgcacagcccctAtttttcttccagtgggaatg	7	13	9	12	0	1	1	0	1	1	0	2	2	2	2	4	1	2	1	4	1	2	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	34684328	G	G	34684328	3	3	31	1	0	0	0	0	1	0	0	0	2071	449	16	3	1789	3	C1orf94	1	34684328	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	723635	34684328	214566293	6	1764											
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35578915	35578915	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctgtggaagagagtcatTtgcaacccacggaacttcta	12	10	10	9	1	2	1	1	0	1	1	2	4	2	3	1	2	4	2	1	2	5	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	35578915	T	A	35578915	3	1	31	1	0	0	0	0	1	0	0	0	17698	1841	64	5	1518	5	ZMYM1	1	35578915	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	894587	35578915	213671706	7	1765											
CSF3R	1441	broad.mit.edu;ucsc.edu	37	chr1	36939104	36939104	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcattctctgcctgcaccCagatgcccatattctggtac	7	11	8	15	1	2	1	0	0	2	1	3	1	2	1	3	1	4	3	3	1	2	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	36939104	G	G	36939104	3	3	31	1	0	0	0	0	1	0	0	0	3937	595	21	4	2143	4	CSF3R	1	36939104	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	1360189	36939104	212311517	8	1766											
GJA9	81025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39340771	39340771	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactagtactaagtgtggAaatctcattagaaagtacag	17	10	8	6	0	1	1	1	0	1	1	2	2	1	2	0	1	3	2	0	1	8	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	39340771	A	C	39340771	3	2	31	1	0	0	0	0	1	0	0	0	6406	246	9	5	551	5	GJA9	1	39340771	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	2401667	39340771	209909850	9	1767											
ZNF684	127396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	41012841	41012841	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgggaaaaccttcaggtaTagttcatccctttataaaca	13	13	7	8	0	2	0	2	0	0	0	3	1	3	1	2	2	2	2	2	2	7	7	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	41012841	T	C	41012841	2	2	31	1	0	0	0	0	0	0	0	1	18090	1413	49	3		3	ZNF684	1	41012841	Silent	SNP	T	TCGA-A3-3387-01A-01D-1534-10	1672070	41012841	208237780	10	1768											
DOCK7	85440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62979390	62979390	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacaatgaccacttactttAtactcaaagcaagacacaca	17	9	4	11	0	1	2	1	1	0	1	1	2	1	2	1	0	4	2	1	0	7	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	62979390	A	G	62979390	2	3	31	1	0	0	0	0	0	0	0	1	4692	456	16	3		3	DOCK7	1	62979390	Silent	SNP	A	TCGA-A3-3387-01A-01D-1534-10	21966549	62979390	186271231	11	1769											
INSRR	3645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156814334	156814334	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccctaaccctggcagagTagtttccagggggcagcagg	8	8	14	11	0	0	1	0	0	0	1	1	1	1	1	3	4	3	5	3	4	2	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	156814334	T	C	156814334	3	2	31	1	0	0	0	0	1	0	0	0	7774	1638	57	3	1271	3	INSRR	1	156814334	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	93834944	156814334	92436287	12	1770											
C1orf129	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	170985418	170985418	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttaaacgaactggacAaagtgacctactctttgggt	11	12	10	8	1	1	1	0	1	1	0	1	3	1	2	1	3	3	1	1	3	5	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	170985418	A	C	170985418	3	2	31	1	0	0	0	0	1	0	0	0	1996	131	5	5	2037	5	C1orf129	1	170985418	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	14171084	170985418	78265203	13	1771											
HMCN1	83872	broad.mit.edu	37	chr1	185964002	185964002	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtccaagttggtcaaagAgtggatattccatgtaatgc	14	11	10	6	0	1	1	1	0	0	1	3	2	3	2	2	2	1	2	2	2	5	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	185964002	T	T	185964002	3	4	31	1	0	0	0	0	1	0	0	0	7220	301	11	5	3655	5	HMCN1	1	185964002	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	14978584	185964002	63286619	14	1772											
PGBD5	79605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	230461073	230461073	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttgctgtatttgtcatcGtatctgcagatgtagctcag	8	16	9	8	1	3	1	2	0	1	1	4	1	3	1	0	0	4	6	0	0	4	6	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	230461073	G	A	230461073	2	1	31	1	0	0	0	0	0	0	0	1	11784	1140	40	1		1	PGBD5	1	230461073	Silent	SNP	G	TCGA-A3-3387-01A-01D-1534-10	44497071	230461073	18789548	15	1773											
SNTG2	54221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1094047	1094047	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtctttcagggaggttcTgagcacaacgtccctgtcgt	6	14	11	10	2	3	1	1	1	2	0	5	2	4	2	1	2	2	2	1	2	1	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	1094047	T	G	1094047	2	3	31	1	0	0	0	0	0	0	0	1	14877	1567	55	5		5	SNTG2	2	1094047	Silent	SNP	T	TCGA-A3-3387-01A-01D-1534-10		1094047	242105326	16	1774											
VSNL1	7447	broad.mit.edu;ucsc.edu	37	chr2	17773470	17773470	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgtccaagtgggaggctAaatctcgaggaatttcagca	12	9	12	8	1	2	0	1	0	1	0	4	4	3	2	1	3	1	2	1	3	4	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	17773470	G	G	17773470	2	3	31	1	0	0	0	0	0	0	0	1	17226	349	13	3		3	VSNL1	2	17773470	Silent	SNP	A	TCGA-A3-3387-01A-01D-1534-10	16679423	17773470	225425903	17	1775											
ABI2	10152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	204267389	204267389	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccctatagacgccctcCttccattacttcacaaacaa	11	11	4	15	1	1	1	1	0	0	1	3	1	3	1	4	0	3	1	4	0	5	6	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	204267389	C	A	204267389	3	1	31	1	0	0	0	0	1	0	0	0	89	681	24	4	949	4	ABI2	2	204267389	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	186493919	204267389	38931984	18	1776											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643561	52643561	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagattgtggataagctcttGaatcagcaaagtcacatttg	14	12	9	6	0	3	2	2	1	1	1	3	3	3	3	0	1	2	2	0	1	4	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	52643561	G	A	52643561	4	1	31	1	0	0	0	0	0	1	0	0	11491	1299	45	2	2625	2	PBRM1	3	52643561	Nonsense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		52643561	145378869	19	1777											
CASR	846	broad.mit.edu;hgsc.bcm.edu	37	chr3	122003164	122003164	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggctgccatctgctTcttctttgccttcaagtccc	3	15	7	16	0	4	0	1	0	3	0	5	0	5	0	4	1	4	3	4	1	1	4	rs104893701	bycluster;alternate_allele	TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	122003164	T	A	122003164	3	1	31	1	0	0	0	0	1	0	0	0	2682	1783	62	5	2415	5	CASR	3	122003164	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	69359603	122003164	76019266	20	1778											
PARP14	54625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122418640	122418640	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacaatgtgggacaccatAaaaaatgatgtgaaagatga	19	7	9	6	0	0	4	0	3	0	1	0	5	0	5	2	1	1	0	2	1	6	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	122418640	A	T	122418640	2	4	31	1	0	0	0	0	0	0	0	1	11458	352	13	5		5	PARP14	3	122418640	Silent	SNP	A	TCGA-A3-3387-01A-01D-1534-10	415476	122418640	75603790	21	1779											
SLC33A1	9197	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	155571204	155571204	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaaccatcgacggcaaTgtcctgagtggcggccaaga	10	5	12	14	4	0	2	0	1	0	1	2	3	1	2	4	3	1	1	4	3	3	0	rs148999356	alternate_allele	TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	155571204	T	A	155571204	3	1	31	1	0	0	0	0	1	0	0	0	14568	1464	51	5	1090	5	SLC33A1	3	155571204	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	33152564	155571204	42451226	22	1780											
LAMP3	27074	broad.mit.edu;ucsc.edu	37	chr3	182871951	182871951	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggctggtggttgcagtgTtttttgtagtcgctggggta	3	17	17	4	1	0	0	0	0	0	0	1	0	0	0	0	5	1	7	0	5	2	7	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	182871951	C	C	182871951	3	2	31	1	0	0	0	0	1	0	0	0	8619	1725	60	3	992	3	LAMP3	3	182871951	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	27300747	182871951	15150479	23	1781											
BCL6	604	broad.mit.edu	37	chr3	187446247	187446247	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctgcatgctgtggggactGagagccgcaggacgtgcact	7	8	15	11	2	1	1	0	1	1	1	1	4	1	3	1	3	4	4	1	3	0	0	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	187446247	A	A	187446247	4	1	31	1	0	0	0	0	0	1	0	0	1376	1299	45	2	699	2	BCL6	3	187446247	Nonsense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10	4574296	187446247	10576183	24	1782											
MUC4	4585	hgsc.bcm.edu	37	chr3	195513158	195513158	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggatactgaggaagtgtCggtgacaggaagaggggtgg	10	8	20	3	1	0	3	0	2	0	1	1	6	0	6	0	7	1	0	0	7	3	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	195513158	C	A	195513158	3	1	31	1	0	0	0	0	1	0	0	0	9978	884	31	4		4	MUC4	3	195513158	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	8066911	195513158	2509272	25	1783											
C3orf34	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196434643	196434643	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtttcccgttgaatttgttCcattgtttctgccagactct	5	19	7	10	1	2	2	0	1	2	1	4	2	4	2	3	0	1	4	3	0	1	6	rs139813132	by1000genomes;alternate_allele	TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	196434643	C	A	196434643	4	1	31	1	0	0	0	0	0	1	0	0	2224	864	30	4	224	4	C3orf34	3	196434643	Nonsense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	921485	196434643	1587787	26	1784											
CPLX1	10815	broad.mit.edu	37	chr4	780370	780370	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgtcctcctcctccacCtcgtccccgcagcccggcgg	2	8	8	23	5	1	0	0	0	1	0	8	0	6	0	8	2	1	1	8	2	0	0	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	780370	T	T	780370	2	4	31	1	0	0	0	0	0	0	0	1	3804	680	24	2		2	CPLX1	4	780370	Silent	SNP	C	TCGA-A3-3387-01A-01D-1534-10		780370	190373906	27	1785											
PDE5A	8654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	120442144	120442144	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagctgtattaaaggcAtgtctccaattatgataggc	12	12	9	8	0	1	2	0	2	1	0	2	2	1	2	1	2	1	3	1	2	6	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	120442144	A	G	120442144	2	3	31	1	0	0	0	0	0	0	0	1	11644	214	8	3		3	PDE5A	4	120442144	Silent	SNP	A	TCGA-A3-3387-01A-01D-1534-10	119661774	120442144	70712132	28	1786											
ACCN5	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	156757933	156757933	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagaaatagtggccgggtaTtctatttcttcacaagaaac	14	12	8	7	1	3	2	1	0	2	2	3	2	3	2	1	2	1	1	1	2	7	7	rs142739848	alternate_allele	TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	156757933	T	G	156757933	3	3	31	1	0	0	0	0	1	0	0	0	132	1490	52	5	386	5	ACCN5	4	156757933	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	36315789	156757933	34396343	29	1787											
TRIO	7204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	14497119	14497119	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactcagcaacaaggtatCtgtgaaggtgtgttcggggg	10	9	16	6	1	2	1	1	1	1	0	3	2	2	2	0	5	2	3	0	5	4	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	14497119	C	A	14497119	3	1	31	1	0	0	0	0	1	0	0	0	16551	913	32	4	8210	4	TRIO	5	14497119	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10		14497119	166418141	30	1788											
RANBP3L	202151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	36255599	36255599	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgtaatgttccacagtCagtgcttgctgtgtcattca	8	15	9	9	0	3	1	3	1	0	0	4	1	4	1	1	0	2	4	1	0	1	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	36255599	C	A	36255599	3	1	31	1	0	0	0	0	1	0	0	0	13032	826	29	4	416	4	RANBP3L	5	36255599	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	21758480	36255599	144659661	31	1789											
HEATR7B2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41045851	41045851	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagctgaaaaaccaaccttCtcagtggagttattgctgta	12	12	8	9	0	2	1	2	1	1	0	3	2	2	2	2	1	4	4	2	1	5	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	41045851	C	T	41045851	2	4	31	1	0	0	0	0	0	0	0	1	7035	912	32	2		2	HEATR7B2	5	41045851	Silent	SNP	C	TCGA-A3-3387-01A-01D-1534-10	4790252	41045851	139869409	32	1790											
CDC25C	995	broad.mit.edu	37	chr5	137621505	137621505	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgatgatgcatagggCagtagctctgtggttcacac	8	11	13	9	0	2	2	1	2	1	0	3	2	3	2	1	3	2	5	1	3	2	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	137621505	A	A	137621505	3	1	31	1	0	0	0	0	1	0	0	0	3064	710	25	4	127	4	CDC25C	5	137621505	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	96575654	137621505	43293755	33	1791											
ANKHD1	54882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139876554	139876554	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttttcagagttacctcagGttgacacaatcttatttaaa	13	15	5	8	0	3	2	2	1	1	1	3	2	3	2	1	1	1	2	1	1	5	7	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	139876554	G	T	139876554	3	4	31	1	0	0	0	0	1	0	0	0	628	1261	44	4	2859	4	ANKHD1	5	139876554	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10	2255049	139876554	41038706	34	1792											
CRISP1	167	broad.mit.edu;ucsc.edu	37	chr6	49819726	49819726	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttaccatcttcagcatGttgctggctggtggaactac	8	13	10	10	0	3	0	1	0	2	0	3	2	3	1	1	3	5	4	1	3	3	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	49819726	T	T	49819726	3	4	31	1	0	0	0	0	1	0	0	0	3879	1368	48	4	590	4	CRISP1	6	49819726	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		49819726	121295341	35	1793											
EEF1A1	1915	broad.mit.edu;hgsc.bcm.edu	37	chr6	74227570	74227570	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctgggcagacttggtgAccttgccagctccagcagcc	6	10	11	14	0	1	2	0	1	1	1	2	2	2	2	4	2	4	3	4	2	0	3	rs11556678	alternate_allele	TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	74227570	A	T	74227570	3	4	31	1	0	0	0	0	1	0	0	0	4923	275	10	5	40	5	EEF1A1	6	74227570	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	24407844	74227570	96887497	36	1794											
ROS1	6098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117674152	117674152	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttacgaatgtgactttattaCctggaaaaggctgcataact	13	13	8	7	1	0	1	0	1	0	0	0	3	0	2	1	2	4	2	1	2	7	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	117674152	C	A	117674152	5	1	31	1	0	0	0	0	0	0	1	0	13533	521	18	4	2793	4	ROS1	6	117674152	Splice_Site	SNP	C	TCGA-A3-3387-01A-01D-1534-10	43446582	117674152	53440915	37	1795											
ECT2L	345930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	139206666	139206666	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagaaatgataccagcattCcgaactttcctgaagaggca	15	8	9	9	1	0	4	0	2	0	2	2	6	2	4	3	1	3	2	3	1	4	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	139206666	C	A	139206666	3	1	31	1	0	0	0	0	1	0	0	0	4902	854	30	4	2110	4	ECT2L	6	139206666	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	21532514	139206666	31908401	38	1796											
RAET1E	135250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150210680	150210680	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagggatttctctccattGgtggcgaactgccaggatgc	8	10	14	9	1	1	0	0	0	1	0	3	4	2	3	2	5	3	0	2	5	1	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	150210680	G	A	150210680	2	1	31	1	0	0	0	0	0	0	0	1	13001	1335	47	2		2	RAET1E	6	150210680	Silent	SNP	G	TCGA-A3-3387-01A-01D-1534-10	11004014	150210680	20904387	39	1797											
HECW1	23072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	43548639	43548639	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcttcaacccttactatgGactctttgagtactcggcaa	9	13	7	12	1	3	1	1	1	2	0	4	2	3	2	1	2	3	3	1	2	5	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	43548639	G	T	43548639	3	4	31	1	0	0	0	0	1	0	0	0	7042	1174	41	4	4024	4	HECW1	7	43548639	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		43548639	115590024	40	1798											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48353926	48353926	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcattccttagcgattCtaatatgtttattaatttgc	11	18	5	7	1	2	0	1	0	1	0	3	1	3	0	1	0	3	2	1	0	5	9	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	48353926	C	A	48353926	3	1	31	1	0	0	0	0	1	0	0	0	31	913	32	4	9710	4	ABCA13	7	48353926	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	4805287	48353926	110784737	41	1799											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82545945	82545945	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttttcttcttcatcaagcTctgcttgtttctttcgaagt	5	20	5	11	1	6	0	2	0	4	0	7	1	6	0	1	0	2	3	1	0	2	7	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	82545945	T	G	82545945	3	3	31	1	0	0	0	0	1	0	0	0	11583	1551	54	5	4164	5	PCLO	7	82545945	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	34192019	82545945	76592718	42	1800											
ZNF804B	219578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	88965798	88965798	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacagctacaagcccagcagCatatgcagaagcaactccta	15	6	7	13	0	0	1	0	0	0	1	1	1	1	1	2	0	9	5	2	0	7	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	88965798	C	T	88965798	3	4	31	1	0	0	0	0	1	0	0	0	18170	710	25	2	3516	2	ZNF804B	7	88965798	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	6419853	88965798	70172865	43	1801											
CLEC2L	154790	broad.mit.edu;ucsc.edu	37	chr7	139221070	139221070	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcggtccttctgttcgccAtcttggtggtgatgagcatc	4	14	12	11	3	2	2	0	2	2	0	6	2	3	2	2	3	1	2	2	3	0	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	139221070	C	C	139221070	3	2	31	1	0	0	0	0	1	0	0	0	3509	217	8	5	247	5	CLEC2L	7	139221070	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	50255272	139221070	19917593	44	1802											
MKRN1	23608	broad.mit.edu;hgsc.bcm.edu	37	chr7	140155662	140155662	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacccagtactcacttggaAtgacaaagttagatgtgatc	13	10	8	10	0	1	3	1	2	0	1	2	4	1	4	2	1	1	2	2	1	4	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	140155662	A	G	140155662	3	3	31	1	0	0	0	0	1	0	0	0	9606	101	4	3	435	3	MKRN1	7	140155662	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	934592	140155662	18983001	45	1803											
CUL1	8454	hgsc.bcm.edu;ucsc.edu	37	chr7	148486899	148486899	+	Frame_Shift_Del	DEL	C	C	-																															gcccttccagcagtcttgtaCatttgccttgccgtcagagg																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		-	148486899	C	-	148486899	7	5	31	1	0	1	0	1	0	0	0	0	4054	478	17	0	1709	0	CUL1	7	148486899	Frame_Shift_Del	DEL	C	TCGA-A3-3387-01A-01D-1534-10	8331237	148486899	10651764	46	1804											
TRAM1	23471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	71508498	71508498	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgctaaaaatgacttacGtcatcaggttatggggataa	13	11	11	6	1	2	1	2	1	0	0	2	2	2	2	0	4	2	3	0	4	6	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	71508498	G	A	71508498	3	1	31	1	0	0	0	0	1	0	0	0	16450	1159	40	1	667	1	TRAM1	8	71508498	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		71508498	74855524	47	1805											
TG	7038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	133911118	133911118	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctagatcccaagaaaaccCatctccaaaagacctgttcg	14	7	7	13	1	1	3	0	0	1	3	4	3	2	3	4	1	1	2	4	1	6	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	133911118	C	A	133911118	3	1	31	1	0	0	0	0	1	0	0	0	15812	594	21	4	3347	4	TG	8	133911118	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	62402620	133911118	12452904	48	1806											
KIAA1432	57589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5763718	5763718	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcactgagttccccctcttCctgcagacagttgtccattg	7	13	7	14	0	2	2	1	1	1	1	5	2	5	2	4	0	1	3	4	0	0	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	5763718	C	T	5763718	2	4	31	1	0	0	0	0	0	0	0	1	8233	854	30	2		2	KIAA1432	9	5763718	Silent	SNP	C	TCGA-A3-3387-01A-01D-1534-10		5763718	135449713	49	1807											
GOLM1	51280	broad.mit.edu;ucsc.edu	37	chr9	88648293	88648293	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagtcatcttctcctctcaGtttctgctggtttctccctg	3	18	7	13	0	6	0	2	0	5	0	9	0	6	0	2	1	1	4	2	1	1	4	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	88648293	A	A	88648293	2	1	31	1	0	0	0	0	0	0	0	1	6567	1020	36	2		2	GOLM1	9	88648293	Silent	SNP	G	TCGA-A3-3387-01A-01D-1534-10	82884575	88648293	52565138	50	1808											
GPSM1	26086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139228923	139228923	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggatggaggcgtcctgcctaGagctggcgctggagggcgag	6	6	20	9	3	0	1	0	0	0	1	1	5	1	4	2	6	2	2	2	6	1	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	139228923	G	C	139228923	3	2	31	1	0	0	0	0	1	0	0	0	6734	943	33	4	94	4	GPSM1	9	139228923	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10	50580630	139228923	1984508	51	1809											
PTCHD3	374308	broad.mit.edu	37	chr10	27702296	27702296	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaagccggtcaggtagAggggatgcctgccgtggttg	8	7	18	8	3	1	2	1	0	0	2	1	4	1	3	3	5	3	2	3	5	3	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	27702296	G	G	27702296	3	3	31	1	0	0	0	0	1	0	0	0	12736	304	11	3	1435	3	PTCHD3	10	27702296	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10		27702296	107832451	52	1810											
ZDHHC6	64429	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	114201991	114201991	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catagtcatcacaaaaatgaAagcagcatggatacaaccca	19	6	6	10	0	2	1	2	1	0	0	2	2	2	2	1	1	4	2	1	1	6	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	114201991	A	G	114201991	3	3	31	1	0	0	0	0	1	0	0	0	17618	14	1	3	795	3	ZDHHC6	10	114201991	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	86499695	114201991	21332756	53	1811											
OR5D18	219438	hgsc.bcm.edu;ucsc.edu	37	chr11	55587894	55587896	+	In_Frame_Del	DEL	CAA	CAA	-																															ctcttcctttactgtgtgccCaactccaaaaactccaggca																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		-	55587896	CAA	-	55587894	7	5	31	1	0	1	0	1	0	0	0	0	11157	581	21	0	791	0	OR5D18	11	55587894	In_Frame_Del	DEL	CAA	TCGA-A3-3387-01A-01D-1534-10		55587894	79418622	54	1812											
APOA5	116519	hgsc.bcm.edu;ucsc.edu	37	chr11	116660943	116660944	+	Frame_Shift_Ins	INS	-	-	C																															gcagcttgctcagaaccttgINSccactgtctgtttgttgaaa																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	116660944	-	C	116660943	7	5	31	1	0	1	1	0	0	0	0	0	784	1306	46	0	102	0	APOA5	11	116660943	Frame_Shift_Ins	INS	-	TCGA-A3-3387-01A-01D-1534-10	61073049	116660943	18345573	55	1813											
SLC6A12	6539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	300301	300301	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggagggcccaaagttccggCcagcactgccatccaagcag	10	4	13	14	1	0	0	0	0	0	0	2	1	2	1	5	3	3	3	5	3	2	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	300301	C	T	300301	3	4	31	1	0	0	0	0	1	0	0	0	14677	739	26	2	70	2	SLC6A12	12	300301	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10		300301	133551594	56	1814											
SLC6A13	6540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	336752	336752	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagcagttgttgtggtacTtgttgtagctgcccagggct	5	15	14	7	0	0	0	0	0	0	0	0	0	0	0	1	2	4	9	1	2	3	7	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	336752	T	C	336752	3	2	31	1	0	0	0	0	1	0	0	0	14678	1609	56	3	926	3	SLC6A13	12	336752	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	36451	336752	133515143	57	1815											
MANSC1	54682	hgsc.bcm.edu;ucsc.edu	37	chr12	12491487	12491487	+	Frame_Shift_Del	DEL	T	T	-																															aagatcatcaagttacatgcTttgtcccctgcaatgaaagg																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		-	12491487	T	-	12491487	7	5	31	1	0	1	0	1	0	0	0	0	9224	1606	56	0	1072	0	MANSC1	12	12491487	Frame_Shift_Del	DEL	T	TCGA-A3-3387-01A-01D-1534-10	12154735	12491487	121360408	58	1816											
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	13906469	13906469	+	Silent	SNP	C	C	A																															gcaggcactgtgtctgtatcCcctgccaccagactgggcac																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	13906469	C	A	13906469	2	1	31	1	0	0	0	0	0	0	0	1	6780	610	22	4		4	GRIN2B	12	13906469	Silent	SNP	C	TCGA-A3-3387-01A-01D-1534-10	1414982	13906469	119945426	59	1817	28	2									
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	13906470	13906470	+	Missense_Mutation	SNP	C	C	T																															caggcactgtgtctgtatccCctgccaccagactgggcacg																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	13906470	C	T	13906470	3	4	31	1	0	0	0	0	1	0	0	0	6780	623	22	2	3707	2	GRIN2B	12	13906470	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	1	13906470	119945425	60	1818	28	2									
UBC	7316	broad.mit.edu;hgsc.bcm.edu	37	chr12	125397153	125397153	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagtgatggtcttaccagTcagggtcttcacgaagatct	10	11	12	8	1	5	3	2	1	3	2	5	5	5	3	1	2	1	0	1	2	2	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	125397153	T	C	125397153	3	2	31	1	0	0	0	0	1	0	0	0	16841	1667	58	3	896	3	UBC	12	125397153	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	111490683	125397153	8454742	61	1819											
COL4A1	1282	broad.mit.edu	37	chr13	110833684	110833684	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtaagccattaaatccCgggcgacctggagtccccgg	9	6	12	14	3	0	0	0	0	0	0	2	2	2	1	6	4	1	1	6	4	3	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	110833684	T	T	110833684	2	4	31	1	0	0	0	0	0	0	0	1	3689	639	23	1		1	COL4A1	13	110833684	Silent	SNP	C	TCGA-A3-3387-01A-01D-1534-10		110833684	4336194	62	1820											
PSMB5	5693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23504076	23504076	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtagcggtctctccaacacGctggcaagcgccatgtctag	8	8	12	13	3	2	0	0	0	2	0	4	0	3	0	2	3	3	3	2	3	4	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	23504076	G	T	23504076	3	4	31	1	0	0	0	0	1	0	0	0	12682	1078	38	4	877	4	PSMB5	14	23504076	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		23504076	83845464	63	1821											
JAG2	3714	broad.mit.edu	37	chr14	105624079	105624079	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgtcccagtcccaggcctCcacgatgagggtaaaggagc	9	7	13	12	1	0	1	0	1	0	0	3	3	3	2	4	3	1	2	4	3	2	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	105624079	A	A	105624079	4	1	31	1	0	0	0	0	0	1	0	0	7935	864	30	4	3373	4	JAG2	14	105624079	Nonsense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	82120003	105624079	1725461	64	1822											
AKAP13	11214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	86123604	86123604	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatccagttgtccctaaaAtggagaaagaactggtgcca	14	8	9	10	0	0	2	0	0	0	2	2	3	2	2	3	2	2	1	3	2	4	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	86123604	A	G	86123604	3	3	31	1	0	0	0	0	1	0	0	0	449	101	4	3	2327	3	AKAP13	15	86123604	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10		86123604	16407788	65	1823											
ZC3H7A	29066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11845212	11845212	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaactatattttccaaaGtcattatcatttgggccaat	16	14	4	7	0	2	0	2	0	0	0	3	0	3	0	2	1	1	0	2	1	8	6	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	11845212	G	C	11845212	3	2	31	1	0	0	0	0	1	0	0	0	17571	1020	36	4	42	4	ZC3H7A	16	11845212	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		11845212	78509541	66	1824											
RSL1D1	26156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11935566	11935566	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaacttttttcttcttatTaagcaaagatcttttggtgg	10	19	6	6	0	3	1	0	0	3	1	3	1	3	1	0	2	2	1	0	2	4	9	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	11935566	T	G	11935566	3	3	31	1	0	0	0	0	1	0	0	0	13702	1754	61	5	643	5	RSL1D1	16	11935566	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	90354	11935566	78419187	67	1825											
ZC3H18	124245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88690383	88690383	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggtcccggtccttctcttCgtccccgtccccgtccccaa	3	11	7	20	4	1	0	0	0	1	0	8	0	6	0	8	2	0	0	8	2	2	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	88690383	C	T	88690383	3	4	31	1	0	0	0	0	1	0	0	0	17567	893	31	1	1849	1	ZC3H18	16	88690383	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	76754817	88690383	1664370	68	1826											
FANCA	2175	broad.mit.edu;ucsc.edu	37	chr16	89836339	89836339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaccaggtgcaggaggacCcacatccacctctgggagcg	10	4	13	14	1	1	0	0	0	1	0	2	3	2	3	4	4	3	2	4	4	0	0	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	89836339	T	T	89836339	3	4	31	1	0	0	0	0	1	0	0	0	5662	623	22	2	2029	2	FANCA	16	89836339	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10	1145956	89836339	518414	69	1827											
MYH13	8735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10261145	10261145	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgatcctctagggttccCtaataataaacaagaagagg	15	10	8	8	0	2	3	0	1	2	2	4	3	4	3	2	2	1	1	2	2	7	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	10261145	C	T	10261145	5	4	31	1	0	0	0	0	0	0	1	0	10032	695	24	2	5307	2	MYH13	17	10261145	Splice_Site	SNP	C	TCGA-A3-3387-01A-01D-1534-10		10261145	70934065	70	1828											
HEXIM1	10614	broad.mit.edu	37	chr17	43226612	43226612	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctcaaactagcaactgtAcaggtgctgctgctgtccag	10	9	10	12	0	1	0	1	0	0	0	2	0	2	0	2	1	8	5	2	1	4	2	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	43226612	C	C	43226612	3	2	31	1	0	0	0	0	1	0	0	0	7076	391	14	5	57	5	HEXIM1	17	43226612	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	32965467	43226612	37968598	71	1829											
DSEL	92126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	65181609	65181609	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcaaatggcttgcacgAgacttttgtctcattgcttg	9	14	10	8	1	1	2	1	0	1	2	2	3	1	2	0	1	3	4	0	1	1	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	65181609	A	T	65181609	2	4	31	1	0	0	0	0	0	0	0	1	4775	291	11	5		5	DSEL	18	65181609	Silent	SNP	A	TCGA-A3-3387-01A-01D-1534-10		65181609	12895639	72	1830											
TUBB4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6496076	6496076	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagcagcgtgcccattccgGaccccgtgccaccccccagc	6	5	10	20	3	0	1	0	1	0	0	1	2	1	2	8	1	5	1	8	1	0	1	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	6496076	G	T	6496076	3	4	31	1	0	0	0	0	1	0	0	0	16757	1174	41	4	904	4	TUBB4	19	6496076	Missense_Mutation	SNP	G	TCGA-A3-3387-01A-01D-1534-10		6496076	52632907	73	1831											
FAM187B	148109	broad.mit.edu	37	chr19	35716084	35716084	+	Frame_Shift_Del	DEL	G	-	-																															gagctggctctcccacgtcaGgggggtgtcgttggcacgcc																								novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		-	35716084	-	-	35716084	7	5	31	1	0	1	0	1	0	0	0	0	5513	991	35	0	359	0	FAM187B	19	35716084	Frame_Shift_Del	DEL	G	TCGA-A3-3387-01A-01D-1534-10	29220008	35716084	23412899	74	1832											
ZNF570	148268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37975663	37975663	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtacatcagagaatacAtactggagagagaccctatg	15	9	9	8	0	1	3	1	0	0	3	1	6	1	3	1	1	4	1	1	1	6	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		G	37975663	A	G	37975663	3	3	31	1	0	0	0	0	1	0	0	0	18001	217	8	3	1153	3	ZNF570	19	37975663	Missense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	2259579	37975663	21153320	75	1833											
PSG11	5680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43519423	43519423	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaattgtccaagaatacTgtgctggtgggttagagttt	10	15	11	5	0	0	2	0	0	0	2	1	2	1	2	1	2	2	3	1	2	5	5	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		C	43519423	T	C	43519423	3	2	31	1	0	0	0	0	1	0	0	0	12656	1580	55	3	206	3	PSG11	19	43519423	Missense_Mutation	SNP	T	TCGA-A3-3387-01A-01D-1534-10	5543760	43519423	15609560	76	1834											
ZFP112	7771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44833539	44833539	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattactgaaggcttttctAtacccagtacatggataggg	11	13	9	8	0	2	1	1	1	1	0	2	2	2	2	1	3	3	2	1	3	6	7	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	44833539	A	T	44833539	4	4	31	1	0	0	0	0	0	1	0	0	17637	456	16	5	1956	5	ZFP112	19	44833539	Nonsense_Mutation	SNP	A	TCGA-A3-3387-01A-01D-1534-10	1314116	44833539	14295444	77	1835											
PCNA	5111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	5099285	5099285	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagttgttcaacatctaaatCcatcaacttcatttcatagt	14	15	3	9	0	5	0	4	0	1	0	6	0	6	0	1	0	2	2	1	0	6	6	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	5099285	C	T	5099285	3	4	31	1	0	0	0	0	1	0	0	0	11588	855	30	2	443	2	PCNA	20	5099285	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10		5099285	57926235	78	1836											
BAGE2	85319	broad.mit.edu	37	chr21	11026722	11026722	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatacatgaagcaagcctcaCcccaggcaatacaacagctc	15	6	6	14	0	1	1	1	1	0	0	2	1	1	1	3	1	6	3	3	1	7	3	rs2698612		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		A	11026722	A	A	11026722	5	1	31	1	0	0	0	0	0	0	1	0	1292	521	18	4		4	BAGE2	21	11026722	Splice_Site	SNP	C	TCGA-A3-3387-01A-01D-1534-10		11026722	37103173	79	1837											
MICAL3	57553	broad.mit.edu;ucsc.edu	37	chr22	18382309	18382309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaacgatgttctccaagtCaatacctggggccagaagac	13	8	10	10	1	2	2	1	0	1	2	3	3	2	2	3	2	2	2	3	2	6	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	18382309	T	T	18382309	3	4	31	1	0	0	0	0	1	0	0	0	9571	826	29	2	5996	2	MICAL3	22	18382309	Missense_Mutation	SNP	C	TCGA-A3-3387-01A-01D-1534-10		18382309	32922257	80	1838											
GPR64	10149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	19026097	19026097	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcagtgagcagcagttttaCctgaaacaaagcaggtgttt	13	10	11	7	0	0	2	0	2	0	0	0	2	0	2	1	1	6	6	1	1	3	3	novel		TCGA-A3-3387-01A-01D-1534-10	TCGA-A3-3387-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e9e149ff-79e0-48f9-9262-1fbbad865e77	e6bb2386-fa1d-4b73-b853-ce904e1fd667		T	19026097	C	T	19026097	5	4	31	1	0	0	0	0	0	0	1	0	6705	521	18	2	1530	2	GPR64	23	19026097	Splice_Site	SNP	C	TCGA-A3-3387-01A-01D-1534-10		19026097	136244463	81	1839											
HDAC1	3065	hgsc.bcm.edu;ucsc.edu	37	chr1	32797118	32797118	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaatactttggaccagatttCaagctccacatcagtccttc	11	12	6	12	0	2	1	2	0	0	1	5	3	4	2	3	1	2	1	3	1	3	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	32797118	C	G	32797118	3	3	32	1	0	0	0	0	1	0	0	0	7004	825	29	4	1061	4	HDAC1	1	32797118	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10		32797118	216453503	1	1840											
CYP2J2	1573	hgsc.bcm.edu	37	chr1	60392210	60392210	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttctcccactcctaccAgctgaacctccaggtgcgac	8	8	6	19	1	1	1	0	1	1	0	4	2	3	1	6	1	4	1	6	1	2	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	60392210	A	T	60392210	3	4	32	1	0	0	0	0	1	0	0	0	4172	202	7	5	1335	5	CYP2J2	1	60392210	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	27595092	60392210	188858411	2	1841											
TARBP1	6894	hgsc.bcm.edu	37	chr1	234553902	234553902	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaatataataatccattcTataaaatattttatggatgc	17	16	3	5	0	2	0	1	0	1	0	3	1	3	1	1	1	1	0	1	1	9	9	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	234553902	T	C	234553902	3	2	32	1	0	0	0	0	1	0	0	0	15554	1512	53	3	1268	3	TARBP1	1	234553902	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	174161692	234553902	14696719	3	1842											
ANAPC1	64682	hgsc.bcm.edu;ucsc.edu	37	chr2	112638368	112638370	+	In_Frame_Del	DEL	ATC	ATC	-																															cctgcaaatcccttgctgcaAtcatcgttgtcctttcttca																								novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		-	112638370	ATC	-	112638368	7	5	32	1	0	1	0	1	0	0	0	0	598	101	4	0	5987	0	ANAPC1	2	112638368	In_Frame_Del	DEL	ATC	TCGA-AK-3425-01A-02D-1361-10		112638368	130561005	4	1843											
BIN1	274	hgsc.bcm.edu	37	chr2	127808049	127808049	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccacatcaccagccttgAgctgcagctcgtctgtgtca	8	9	9	15	1	3	1	2	1	1	0	4	1	3	1	3	0	4	4	3	0	0	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	127808049	A	C	127808049	3	2	32	1	0	0	0	0	1	0	0	0	1432	304	11	5	167	5	BIN1	2	127808049	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	15169681	127808049	115391324	5	1844											
DNAH7	56171	hgsc.bcm.edu	37	chr2	196753531	196753531	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggagaacttacagtggcagGggaagcaacttctaaatcca	14	8	11	8	0	1	1	0	0	1	1	2	3	2	2	1	4	4	2	1	4	6	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	196753531	G	A	196753531	3	1	32	1	0	0	0	0	1	0	0	0	4606	1232	43	2	6989	2	DNAH7	2	196753531	Missense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10	68945482	196753531	46445842	6	1845											
GLB1L	79411	hgsc.bcm.edu	37	chr2	220102299	220102299	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaattggaaatgttttggAgtagaatgtggggccagaag	14	11	14	2	0	0	2	0	0	0	2	0	4	0	4	1	4	0	2	1	4	6	5	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	220102299	A	G	220102299	3	3	32	1	0	0	0	0	1	0	0	0	6428	304	11	3	348	3	GLB1L	2	220102299	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	23348768	220102299	23097074	7	1846											
PBRM1	55193	ucsc.edu	37	chr3	52676048	52676048	+	Frame_Shift_Del	DEL	C	C	-																															tgataaacgacctccttgtaCtgctcttttattactacaaa																								novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	C	-	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		-	52676048	C	-	52676048	7	5	32	1	0	1	0	1	0	0	0	0	11491	565	20	0	3975	0	PBRM1	3	52676048	Frame_Shift_Del	DEL	C	TCGA-AK-3425-01A-02D-1361-10		52676048	145346382	8	1847											
SI	6476	hgsc.bcm.edu;ucsc.edu	37	chr3	164741459	164741459	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatttgcagtatttagttGgaggtcagctgttataccca	9	14	11	7	0	1	0	1	0	0	0	1	1	1	1	1	3	3	6	1	3	4	7	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	164741459	G	A	164741459	4	1	32	1	0	0	0	0	0	1	0	0	14299	1357	47	2	2577	2	SI	3	164741459	Nonsense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10	112065411	164741459	33280971	9	1848											
GYPA	2993	hgsc.bcm.edu	37	chr4	145038027	145038027	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatcagtcggcgaatacCgtaagaaattaagaggatcg	14	10	10	7	4	1	2	1	0	0	2	3	4	1	3	1	2	1	1	1	2	6	5	rs146754148	bycluster;byfrequency;by1000genomes	TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	145038027	C	T	145038027	3	4	32	1	0	0	0	0	1	0	0	0	6908	652	23	1	127	1	GYPA	4	145038027	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10		145038027	46116249	10	1849											
KIAA1430	57587	hgsc.bcm.edu;ucsc.edu	37	chr4	186085307	186085307	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcataccaactgttggtttCacggcctcaagccttttcaa	9	14	6	12	1	4	0	4	0	0	0	4	0	4	0	3	2	3	2	3	2	4	6	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	186085307	C	A	186085307	2	1	32	1	0	0	0	0	0	0	0	1	8232	813	29	4		4	KIAA1430	4	186085307	Silent	SNP	C	TCGA-AK-3425-01A-02D-1361-10	41047280	186085307	5068969	11	1850											
IL6ST	3572	hgsc.bcm.edu	37	chr5	55264141	55264141	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtttgtctccaagtgtgTttcccttccaccatcccact	7	14	6	14	0	1	0	0	0	1	0	5	1	4	0	5	0	0	2	5	0	2	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	55264141	T	C	55264141	3	2	32	1	0	0	0	0	1	0	0	0	7703	1725	60	3	2354	3	IL6ST	5	55264141	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10		55264141	125651119	12	1851											
SLU7	10569	hgsc.bcm.edu	37	chr5	159840612	159840612	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacctgtaaatttggctcCaactcgcctaggtctctaaa	11	12	7	11	1	1	0	0	0	1	0	4	0	2	0	3	2	2	3	3	2	7	5	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	159840612	C	T	159840612	3	4	32	1	0	0	0	0	1	0	0	0	14757	603	21	2	1387	2	SLU7	5	159840612	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	104576471	159840612	21074648	13	1852											
FLT4	2324	hgsc.bcm.edu	37	chr5	180053263	180053263	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtgcctttccatccttgTacctggccagggaagggagg	8	9	13	11	0	0	0	0	0	0	0	2	2	2	2	5	4	2	1	5	4	2	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	180053263	T	A	180053263	3	1	32	1	0	0	0	0	1	0	0	0	5944	1638	57	5	3081	5	FLT4	5	180053263	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	20212651	180053263	861997	14	1853											
FTSJD2	23070	hgsc.bcm.edu	37	chr6	37429369	37429369	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacctgcaggagatcctcagCaagcagctgcttctgtgtca	10	9	10	12	0	3	1	2	0	1	1	4	2	4	1	2	1	6	5	2	1	2	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	37429369	C	G	37429369	3	3	32	1	0	0	0	0	1	0	0	0	6091	709	25	4	1178	4	FTSJD2	6	37429369	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10		37429369	133685698	15	1854											
SLC22A7	10864	hgsc.bcm.edu	37	chr6	43271898	43271898	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttatggggggatcgcccTgctggctgccggcaccgccc	4	8	14	15	3	0	0	0	0	0	0	1	1	0	1	4	5	3	3	4	5	2	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	43271898	T	C	43271898	3	2	32	1	0	0	0	0	1	0	0	0	14461	1580	55	3	1542	3	SLC22A7	6	43271898	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	5842529	43271898	127843169	16	1855											
CD2AP	23607	hgsc.bcm.edu	37	chr6	47541956	47541956	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcggacaagaacatccaGtagtgaaacagaagagaaaa	20	5	9	7	1	0	4	0	1	0	3	2	6	1	5	1	1	2	1	1	1	7	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	47541956	G	C	47541956	3	2	32	1	0	0	0	0	1	0	0	0	2994	1029	36	4	720	4	CD2AP	6	47541956	Missense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10	4270058	47541956	123573111	17	1856											
SERAC1	84947	hgsc.bcm.edu	37	chr6	158565367	158565367	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggaggtggtaggagaaaAaagcgaagatcactctcttc	16	7	12	6	1	2	2	1	0	1	2	4	5	2	3	0	4	1	1	0	4	6	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	158565367	A	G	158565367	2	3	32	1	0	0	0	0	0	0	0	1	14076	11	1	3		3	SERAC1	6	158565367	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	111023411	158565367	12549700	18	1857											
STK31	56164	hgsc.bcm.edu;ucsc.edu	37	chr7	23821077	23821077	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaattgagaaaataaaaGaagaaataactcagctgcgc	20	7	7	7	1	2	3	2	1	0	3	2	4	2	3	0	0	3	1	0	0	8	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	23821077	G	T	23821077	4	4	32	1	0	0	0	0	0	1	0	0	15297	943	33	4	2067	4	STK31	7	23821077	Nonsense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10		23821077	135317586	19	1858											
SMO	6608	hgsc.bcm.edu	37	chr7	128849218	128849218	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaggctgagtgggagcgCagcttccgggactatgtgct	8	8	15	10	2	0	1	0	1	0	0	1	3	1	3	2	3	4	4	2	3	2	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	128849218	C	G	128849218	2	3	32	1	0	0	0	0	0	0	0	1	14802	697	25	4		4	SMO	7	128849218	Silent	SNP	C	TCGA-AK-3425-01A-02D-1361-10	105028141	128849218	30289445	20	1859											
TSGA14	0	hgsc.bcm.edu;ucsc.edu	37	chr7	130056770	130056770	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgttacttacttttcttaatCtcttcgagcttctcagtata	8	20	4	9	1	3	0	1	0	3	0	6	1	3	0	0	0	3	3	0	0	5	9	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	130056770	C	G	130056770	3	3	32	1	0	0	0	0	1	0	0	0	16619	912	32	4	1022	4	TSGA14	7	130056770	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	1207552	130056770	29081893	21	1860											
KIAA1549	57670	hgsc.bcm.edu;ucsc.edu	37	chr7	138556052	138556052	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggagatcctgtccacgtGctcgaagatggaggctgatg	8	8	16	9	3	0	3	0	1	0	2	3	6	2	4	2	3	1	2	2	3	1	0	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	138556052	G	A	138556052	3	1	32	1	0	0	0	0	1	0	0	0	8244	1319	46	2	1482	2	KIAA1549	7	138556052	Missense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10	8499282	138556052	20582611	22	1861											
FAM115C	285966	hgsc.bcm.edu	37	chr7	143400301	143400301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgagggctacctgtcgcatActggcttggctccatttctc	6	13	10	12	1	1	1	0	1	1	0	4	1	2	1	2	3	2	4	2	3	2	4	rs80035595		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	143400301	G	G	143400301	3	3	32	1	0	0	0	0	1	0	0	0	5406	391	14	3	216	3	FAM115C	7	143400301	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	4844249	143400301	15738362	23	1862											
NUB1	51667	hgsc.bcm.edu;ucsc.edu	37	chr7	151042440	151042440	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttgctttcagggatggCacaaaagaaatatcttcaag	13	13	9	6	0	3	1	2	0	1	1	3	2	3	2	0	2	1	3	0	2	5	5	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	151042440	C	A	151042440	3	1	32	1	0	0	0	0	1	0	0	0	10714	710	25	4	7	4	NUB1	7	151042440	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	7642139	151042440	8096223	24	1863											
PSD3	23362	hgsc.bcm.edu	37	chr8	18662356	18662356	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttttccaaaatttcagTgctccccatttcagaatgag	10	14	5	12	0	2	2	2	1	0	1	5	2	5	2	4	0	1	1	4	0	3	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	18662356	T	G	18662356	3	3	32	1	0	0	0	0	1	0	0	0	12650	1696	59	5	1504	5	PSD3	8	18662356	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10		18662356	127701666	25	1864											
CCDC25	55246	hgsc.bcm.edu;ucsc.edu	37	chr8	27622729	27622729	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaaaacttactttcatatTtatcttttcccatgtaaata	13	19	2	7	0	2	1	1	1	1	0	3	1	3	1	1	0	2	1	1	0	8	10	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	27622729	T	C	27622729	3	2	32	1	0	0	0	0	1	0	0	0	2800	1841	64	3	590	3	CCDC25	8	27622729	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	8960373	27622729	118741293	26	1865											
ECM2	1842	hgsc.bcm.edu	37	chr9	95267851	95267851	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccctgcggtataattctAaatttattttttcccagacg	11	15	6	9	2	1	2	0	0	1	2	2	2	2	2	2	1	1	1	2	1	5	9	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	95267851	A	T	95267851	3	4	32	1	0	0	0	0	1	0	0	0	4898	359	13	5	687	5	ECM2	9	95267851	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10		95267851	45945580	27	1866											
OLFM1	10439	hgsc.bcm.edu	37	chr9	137982084	137982084	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagctggcaggtgtacagctCtgcccaggacagcgagggca	9	5	16	11	1	1	0	0	0	1	0	1	3	1	1	1	4	5	5	1	4	1	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	137982084	C	G	137982084	3	3	32	1	0	0	0	0	1	0	0	0	10852	913	32	4	146	4	OLFM1	9	137982084	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	42714233	137982084	3231347	28	1867											
DNTT	1791	hgsc.bcm.edu	37	chr10	98064300	98064300	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagccctcggaagaagagaCcccggcagacgggtgccttg	9	5	15	12	3	0	4	0	1	0	3	1	6	0	5	4	3	2	1	4	3	2	1	rs148791733	byfrequency;alternate_allele	TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	98064300	C	G	98064300	3	3	32	1	0	0	0	0	1	0	0	0	4680	507	18	4	48	4	DNTT	10	98064300	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10		98064300	37470447	29	1868											
C10orf118	55088	hgsc.bcm.edu;ucsc.edu	37	chr10	115895715	115895715	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctcttcagatcttctagttCctttattttggcatgatgca	7	19	6	9	0	4	2	1	1	3	1	6	2	5	2	1	1	1	3	1	1	2	8	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	115895715	C	G	115895715	3	3	32	1	0	0	0	0	1	0	0	0	1587	864	30	4	1281	4	C10orf118	10	115895715	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	17831415	115895715	19639032	30	1869											
MUC6	4588	hgsc.bcm.edu	37	chr11	1016991	1016991	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgtgtttgggggtgatgTtggtggtagaagttggggtg	4	15	22	0	0	0	2	0	1	0	1	0	2	0	2	0	7	0	4	0	7	2	4	rs74788171	bycluster;byfrequency	TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	1016991	T	G	1016991	3	3	32	1	0	0	0	0	1	0	0	0	9980	1725	60	5	1521	5	MUC6	11	1016991	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10		1016991	133989525	31	1870											
STIM1	6786	hgsc.bcm.edu;ucsc.edu	37	chr11	3988829	3988829	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcacagtgaggatgagaaaCtcagcttcgaggcagtccgt	11	8	13	9	2	2	2	2	2	0	1	4	5	3	3	1	2	2	2	1	2	1	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	3988829	C	G	3988829	3	3	32	1	0	0	0	0	1	0	0	0	15284	565	20	4	193	4	STIM1	11	3988829	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	2971838	3988829	131017687	32	1871											
OR52R1	119695	hgsc.bcm.edu	37	chr11	4825594	4825594	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggatgagaagagctgttcCctgaagccagcaccatggac	12	6	12	11	0	0	3	0	2	0	2	1	6	1	5	3	2	3	3	3	2	2	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	4825594	C	G	4825594	3	3	32	1	0	0	0	0	1	0	0	0	11131	623	22	4	933	4	OR52R1	11	4825594	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	836765	4825594	130180922	33	1872											
EIF4G2	1982	hgsc.bcm.edu	37	chr11	10825488	10825488	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagattcgtgaataagatcAagcttgccaagctctccaat	14	11	7	9	1	2	3	1	1	1	2	4	3	2	3	2	0	3	2	2	0	6	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	10825488	A	C	10825488	2	2	32	1	0	0	0	0	0	0	0	1	5037	117	5	5		5	EIF4G2	11	10825488	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	5999894	10825488	124181028	34	1873											
EXT2	2132	hgsc.bcm.edu	37	chr11	44130770	44130770	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggtacgaatcacctgtTgttcaacatgttgcctggag	9	12	11	9	2	2	0	2	0	0	0	3	3	2	1	2	2	3	4	2	2	3	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	44130770	T	G	44130770	3	3	32	1	0	0	0	0	1	0	0	0	5324	1821	63	5	672	5	EXT2	11	44130770	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	33305282	44130770	90875746	35	1874											
ITPR2	3709	hgsc.bcm.edu;ucsc.edu	37	chr12	26703220	26703220	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctctaacatttctcgtAatgtctgaagaattttaatg	11	18	5	7	1	4	2	0	1	4	1	6	2	4	2	0	0	1	1	0	0	5	6	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	26703220	A	G	26703220	3	3	32	1	0	0	0	0	1	0	0	0	7921	372	13	3	3156	3	ITPR2	12	26703220	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10		26703220	107148675	36	1875											
DIP2B	57609	hgsc.bcm.edu	37	chr12	51072503	51072503	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaagccggagggacggCagatgacccctgtgaaagga	12	3	15	11	2	0	3	0	2	0	1	0	6	0	6	4	4	2	1	4	4	2	0	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	51072503	C	G	51072503	3	3	32	1	0	0	0	0	1	0	0	0	4528	711	25	4	988	4	DIP2B	12	51072503	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	24369283	51072503	82779392	37	1876											
CPSF6	11052	hgsc.bcm.edu;ucsc.edu	37	chr12	69644959	69644959	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttgtatgacgatgtcatAtctccatctgcaaataatgg	12	14	8	7	1	3	1	1	1	2	0	4	3	3	1	1	1	1	2	1	1	4	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	69644959	A	G	69644959	3	3	32	1	0	0	0	0	1	0	0	0	3829	439	16	3	117	3	CPSF6	12	69644959	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	18572456	69644959	64206936	38	1877											
PPP1R12A	4659	hgsc.bcm.edu;ucsc.edu	37	chr12	80214666	80214666	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttgttccagagattcAatacgggatgcatttttctc	8	18	7	8	1	3	1	1	0	2	1	5	3	4	2	1	1	2	2	1	1	2	8	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	80214666	A	G	80214666	2	3	32	1	0	0	0	0	0	0	0	1	12356	126	5	3		3	PPP1R12A	12	80214666	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	10569707	80214666	53637229	39	1878											
OAS1	4938	hgsc.bcm.edu;ucsc.edu	37	chr12	113357353	113357353	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactggacctgcaccatcCtctgaatgccagtgcatctt	9	10	9	13	0	2	1	0	1	2	0	3	3	3	3	4	2	3	2	4	2	1	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	113357353	C	T	113357353	3	4	32	1	0	0	0	0	1	0	0	0	10799	681	24	2	1277	2	OAS1	12	113357353	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	33142687	113357353	20494542	40	1879											
FBXW8	26259	hgsc.bcm.edu	37	chr12	117448164	117448164	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaagcaggacgccgcctcTtgaagctgggtaacgttctc	8	9	13	11	3	2	1	0	1	2	0	3	3	2	3	2	3	3	4	2	3	3	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	117448164	T	A	117448164	3	1	32	1	0	0	0	0	1	0	0	0	5770	1606	56	5	1306	5	FBXW8	12	117448164	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	4090811	117448164	16403731	41	1880											
RFC5	5985	hgsc.bcm.edu;ucsc.edu	37	chr12	118462688	118462688	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagaaaataccagattcTgcctcatctgtaactatctg	13	12	5	11	0	5	2	2	0	3	2	5	2	5	2	2	0	3	1	2	0	5	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	118462688	T	A	118462688	3	1	32	1	0	0	0	0	1	0	0	0	13250	1580	55	5	482	5	RFC5	12	118462688	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	1014524	118462688	15389207	42	1881											
PCDH17	27253	hgsc.bcm.edu;ucsc.edu	37	chr13	58299308	58299308	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggtgctgttcttgagcaGcttgaccaccccaacaggga	9	9	12	11	0	1	2	0	2	1	0	1	3	1	3	3	2	4	4	3	2	1	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	58299308	G	A	58299308	2	1	32	1	0	0	0	0	0	0	0	1	11512	962	34	2		2	PCDH17	13	58299308	Silent	SNP	G	TCGA-AK-3425-01A-02D-1361-10		58299308	56870570	43	1882											
DIAPH3	81624	hgsc.bcm.edu	37	chr13	60616944	60616944	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagatctgtcggcttctcTtaagacttccctataaaata	11	14	7	9	1	2	2	0	1	2	2	5	3	3	2	1	1	0	1	1	1	5	6	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	60616944	T	G	60616944	3	3	32	1	0	0	0	0	1	0	0	0	4520	1609	56	5	3191	5	DIAPH3	13	60616944	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	2317636	60616944	54552934	44	1883											
PELI2	57161	hgsc.bcm.edu	37	chr14	56746421	56746421	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcaaaggtcaacacagtAtatcctacactttgtcaagg	13	10	8	10	0	2	0	2	0	0	0	3	0	3	0	1	2	3	3	1	2	6	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	56746421	A	G	56746421	3	3	32	1	0	0	0	0	1	0	0	0	11722	449	16	3	245	3	PELI2	14	56746421	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10		56746421	50603119	45	1884											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105406727	105406727	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaagttttggcatggcaaAgccaggctttgtgctcctcc	7	12	11	11	0	0	0	0	0	0	0	2	0	2	0	3	3	3	6	3	3	2	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	105406727	A	G	105406727	3	3	32	1	0	0	0	0	1	0	0	0	415	72	3	3	2330	3	AHNAK2	14	105406727	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	48660306	105406727	1942813	46	1885											
MAGEL2	54551	hgsc.bcm.edu;ucsc.edu	37	chr15	23890714	23890714	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggagcccctgcggtctaTagaagaggccctgcattctc	9	8	12	12	1	2	3	0	0	2	3	3	4	2	4	3	3	3	1	3	3	3	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	23890714	T	C	23890714	3	2	32	1	0	0	0	0	1	0	0	0	9189	1406	49	3	1577	3	MAGEL2	15	23890714	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10		23890714	78640678	47	1886											
APBA2	321	hgsc.bcm.edu;ucsc.edu	37	chr15	29385399	29385399	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatcagaatgatgcaagcGcaggaggccgtcagccgggt	12	5	14	10	3	2	2	2	1	0	1	2	3	2	3	2	3	4	2	2	3	3	0	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	29385399	G	T	29385399	2	4	32	1	0	0	0	0	0	0	0	1	757	1074	38	4		4	APBA2	15	29385399	Silent	SNP	G	TCGA-AK-3425-01A-02D-1361-10	5494685	29385399	73145993	48	1887											
TP53BP1	7158	hgsc.bcm.edu	37	chr15	43738686	43738686	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacgtctggggcagccccaGaatccccttttccactccca	7	8	7	19	1	1	1	0	0	1	1	4	1	4	1	7	2	1	1	7	2	1	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	43738686	G	A	43738686	3	1	32	1	0	0	0	0	1	0	0	0	16382	942	33	2	3054	2	TP53BP1	15	43738686	Missense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10	14353287	43738686	58792706	49	1888											
AP3B2	8120	hgsc.bcm.edu	37	chr15	83332659	83332660	+	Frame_Shift_Ins	INS	-	-	A																															gctgccctcatcagaggatgINSacgcttctccttttctctct																								novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	83332660	-	A	83332659	7	5	32	1	0	1	1	0	0	0	0	0	745	1294	45	0	1007	0	AP3B2	15	83332659	Frame_Shift_Ins	INS	-	TCGA-AK-3425-01A-02D-1361-10	39593973	83332659	19198733	50	1889											
LRRK1	79705	hgsc.bcm.edu	37	chr15	101595297	101595297	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggtcccttgacgtcaagGagcacatcaacatcaagcta	12	9	9	11	1	3	1	3	1	0	0	4	2	4	2	1	2	3	2	1	2	4	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	101595297	G	T	101595297	4	4	32	1	0	0	0	0	0	1	0	0	9032	1175	41	4	4303	4	LRRK1	15	101595297	Nonsense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10	18262638	101595297	936095	51	1890											
ATP2A1	487	hgsc.bcm.edu	37	chr16	28909647	28909647	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggtgaaggaaaagatcatgGcggtgatcaaggagtggggc	12	6	18	5	2	2	3	2	2	0	1	2	5	2	5	0	7	0	0	0	7	4	0	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	28909647	G	T	28909647	3	4	32	1	0	0	0	0	1	0	0	0	1136	1203	42	4	1693	4	ATP2A1	16	28909647	Missense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10		28909647	61445106	52	1891											
ITGAL	3683	hgsc.bcm.edu	37	chr16	30495168	30495168	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagaggtgttccgggaggAgctgggggcccggccagatg	7	5	20	9	2	0	2	0	0	0	2	1	5	1	4	3	6	1	2	3	6	0	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	30495168	A	G	30495168	3	3	32	1	0	0	0	0	1	0	0	0	7886	304	11	3	773	3	ITGAL	16	30495168	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	1585521	30495168	59859585	53	1892											
CNOT1	23019	hgsc.bcm.edu	37	chr16	58577565	58577565	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagatatgctcatgagcaaAggttccctgcatgtaatcat	12	12	9	8	0	2	2	2	1	0	1	3	2	3	2	1	1	3	6	1	1	4	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	58577565	A	G	58577565	2	3	32	1	0	0	0	0	0	0	0	1	3617	59	3	3		3	CNOT1	16	58577565	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	28082397	58577565	31777188	54	1893											
TMEM102	284114	hgsc.bcm.edu	37	chr17	7339626	7339626	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacccctgggtccctacGcccggggacctcactacgat	7	7	10	17	3	1	0	1	0	0	0	2	2	2	1	5	3	3	1	5	3	2	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	7339626	G	C	7339626	3	2	32	1	0	0	0	0	1	0	0	0	16016	1087	38	4	334	4	TMEM102	17	7339626	Missense_Mutation	SNP	G	TCGA-AK-3425-01A-02D-1361-10		7339626	73855584	55	1894											
USP43	124739	hgsc.bcm.edu	37	chr17	9631914	9631916	+	In_Frame_Del	DEL	GGG	GGG	-																															gagctagacagacccctgcaGgggacactcacccttctgag																								novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	GGG	GGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		-	9631916	GGG	-	9631914	7	5	32	1	0	1	0	1	0	0	0	0	17073	991	35	0	3037	0	USP43	17	9631914	In_Frame_Del	DEL	GGG	TCGA-AK-3425-01A-02D-1361-10	2292288	9631914	71563296	56	1895											
PHF12	57649	hgsc.bcm.edu	37	chr17	27233226	27233226	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacagagttggagcgcagcAcagggccctggtggggcttg	8	6	18	9	1	0	1	0	0	0	1	0	3	0	2	1	5	3	4	1	5	1	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	27233226	A	G	27233226	3	3	32	1	0	0	0	0	1	0	0	0	11823	159	6	3	28	3	PHF12	17	27233226	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	17601312	27233226	53961984	57	1896											
AP2B1	163	hgsc.bcm.edu;ucsc.edu	37	chr17	33921080	33921080	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagtatttcacaaccaatAaaaaaggtaagtatgagaat	20	9	6	6	0	1	1	1	1	0	1	1	2	1	1	2	1	1	3	2	1	10	5	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	33921080	A	C	33921080	3	2	32	1	0	0	0	0	1	0	0	0	741	363	13	5	33	5	AP2B1	17	33921080	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	6687854	33921080	47274130	58	1897											
HELZ	9931	hgsc.bcm.edu;ucsc.edu	37	chr17	65110477	65110477	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttttctctggtgttcgaAtcttattaatttcaggtccg	6	19	8	8	2	3	0	1	0	2	0	6	1	4	0	1	2	0	2	1	2	3	6	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	65110477	A	C	65110477	3	2	32	1	0	0	0	0	1	0	0	0	7049	101	4	5	1971	5	HELZ	17	65110477	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	31189397	65110477	16084733	59	1898											
SPIRE1	56907	hgsc.bcm.edu	37	chr18	12454459	12454459	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacagtaagagcgaggcaTtccactgggtagcagaattc	12	8	11	10	1	0	2	0	0	0	2	3	3	2	2	2	2	2	4	2	2	3	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	12454459	T	C	12454459	2	2	32	1	0	0	0	0	0	0	0	1	15072	1490	52	3		3	SPIRE1	18	12454459	Silent	SNP	T	TCGA-AK-3425-01A-02D-1361-10		12454459	65622789	60	1899											
FECH	2235	hgsc.bcm.edu;ucsc.edu	37	chr18	55238682	55238682	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctctccctgcttggaagtCcatatcttgatgggggatcc	6	12	10	13	0	2	1	0	1	2	0	5	3	4	3	4	3	1	1	4	3	2	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	55238682	C	A	55238682	3	1	32	1	0	0	0	0	1	0	0	0	5808	856	30	4	898	4	FECH	18	55238682	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	42784223	55238682	22838566	61	1900											
ALPK2	115701	hgsc.bcm.edu;ucsc.edu	37	chr18	56171280	56171280	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagtttatttctttcccatCcctgatggaatacttcacaa	11	15	5	10	0	2	1	1	1	1	0	4	3	4	2	2	1	1	1	2	1	5	6	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	56171280	C	A	56171280	3	1	32	1	0	0	0	0	1	0	0	0	545	855	30	4	394	4	ALPK2	18	56171280	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	932598	56171280	21905968	62	1901											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9057886	9057886	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggatttgatgtgaaaaCagtggtatcgtccacagcgg	11	9	14	7	2	0	2	0	2	0	0	2	3	1	3	1	4	2	2	1	4	3	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	9057886	C	G	9057886	3	3	32	1	0	0	0	0	1	0	0	0	9973	478	17	4	14291	4	MUC16	19	9057886	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10		9057886	50071097	63	1902											
KANK2	25959	hgsc.bcm.edu;ucsc.edu	37	chr19	11277265	11277265	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggatgatgtagggctcTcgtcatctgacattggggca	8	10	14	9	2	3	2	1	2	2	0	4	4	3	3	1	4	0	3	1	4	1	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		C	11277265	T	C	11277265	3	2	32	1	0	0	0	0	1	0	0	0	7977	1551	54	3	34	3	KANK2	19	11277265	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	2219379	11277265	47851718	64	1903											
CYP4F12	66002	hgsc.bcm.edu;ucsc.edu	37	chr19	15794425	15794425	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgacgggcggcgcttccAcagggcctgccgcctggtgc	4	6	15	16	4	0	1	0	1	0	0	1	1	1	1	5	4	2	1	5	4	0	1	rs116788636	byfrequency;by1000genomes	TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	15794425	A	G	15794425	3	3	32	1	0	0	0	0	1	0	0	0	4187	159	6	3	792	3	CYP4F12	19	15794425	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10	4517160	15794425	43334558	65	1904											
ZNF682	91120	hgsc.bcm.edu;ucsc.edu	37	chr19	20117844	20117844	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctatttagatttgatgatTtactaaagactttcacacat	13	17	4	7	0	2	4	1	2	1	2	2	4	2	4	0	0	1	0	0	0	5	8	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	20117844	T	A	20117844	3	1	32	1	0	0	0	0	1	0	0	0	18088	1841	64	5	1033	5	ZNF682	19	20117844	Missense_Mutation	SNP	T	TCGA-AK-3425-01A-02D-1361-10	4323419	20117844	39011139	66	1905											
FBXO27	126433	hgsc.bcm.edu;ucsc.edu	37	chr19	39517640	39517640	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agccgctgtcgtgtcgggctCcccacctgtgggaggaagga	6	7	16	12	3	0	0	0	0	0	0	3	3	1	3	4	4	1	2	4	4	1	0	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	39517640	C	T	39517640	3	4	32	1	0	0	0	0	1	0	0	0	5737	855	30	2	281	2	FBXO27	19	39517640	Missense_Mutation	SNP	C	TCGA-AK-3425-01A-02D-1361-10	19399796	39517640	19611343	67	1906											
ZNF845	91664	hgsc.bcm.edu	37	chr19	53856496	53856496	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcaattcatactggagaAaaaccttacaagtgtagtga	17	9	9	6	0	1	2	1	1	0	1	1	3	1	2	1	2	3	2	1	2	8	4	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	53856496	A	G	53856496	2	3	32	1	0	0	0	0	0	0	0	1	18190	11	1	3		3	ZNF845	19	53856496	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	14338856	53856496	5272487	68	1907											
ZNF337	26152	hgsc.bcm.edu	37	chr20	25655968	25655968	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacacacgaagggcttctcCcctgagtgtgtcctctggtg	6	12	11	12	1	2	1	0	1	2	0	4	2	3	1	3	2	1	1	3	2	2	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	25655968	C	T	25655968	2	4	32	1	0	0	0	0	0	0	0	1	17852	610	22	2		2	ZNF337	20	25655968	Silent	SNP	C	TCGA-AK-3425-01A-02D-1361-10		25655968	37369552	69	1908											
TRPM2	7226	hgsc.bcm.edu	37	chr21	45798894	45798894	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagaccatcgacaacgcCaccaccaacggcaccccctg	11	4	7	19	3	0	1	0	0	0	1	1	2	0	1	6	1	3	2	6	1	2	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	45798894	C	A	45798894	2	1	32	1	0	0	0	0	0	0	0	1	16585	581	21	4		4	TRPM2	21	45798894	Silent	SNP	C	TCGA-AK-3425-01A-02D-1361-10		45798894	2331001	70	1909											
MICAL3	57553	hgsc.bcm.edu	37	chr22	18389489	18389489	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagagctcctggaaagcCttgagggttcccttgcaggt	8	10	12	11	0	1	2	1	1	0	1	3	3	3	3	3	3	3	3	3	3	1	3	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		T	18389489	C	T	18389489	2	4	32	1	0	0	0	0	0	0	0	1	9571	680	24	2		2	MICAL3	22	18389489	Silent	SNP	C	TCGA-AK-3425-01A-02D-1361-10		18389489	32915077	71	1910											
SLC7A4	6545	hgsc.bcm.edu	37	chr22	21385634	21385634	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctgccaagaacccacGtgggtctcagtgaagttgcg	9	7	13	12	2	1	2	1	1	1	1	2	2	1	2	3	2	3	2	3	2	3	1	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	21385634	G	A	21385634	2	1	32	1	0	0	0	0	0	0	0	1	14701	1136	40	1		1	SLC7A4	22	21385634	Silent	SNP	G	TCGA-AK-3425-01A-02D-1361-10	2996145	21385634	29918932	72	1911											
SMARCB1	6598	hgsc.bcm.edu	37	chr22	24159114	24159114	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagtcagaccagcgcgtCatcatcaaggtaggtgactt	11	8	11	11	2	4	2	4	1	0	1	4	3	4	2	2	2	1	1	2	2	2	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		A	24159114	C	A	24159114	2	1	32	1	0	0	0	0	0	0	0	1	14776	813	29	4		4	SMARCB1	22	24159114	Silent	SNP	C	TCGA-AK-3425-01A-02D-1361-10	2773480	24159114	27145452	73	1912											
CCDC120	90060	hgsc.bcm.edu	37	chrX	48919829	48919829	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtcaaaggtcagctgAtcagctctcctaccttcaat	11	11	8	11	0	5	1	4	1	1	0	6	2	5	2	2	2	3	2	2	2	4	2	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	48919829	A	G	48919829	3	3	32	1	0	0	0	0	1	0	0	0	2756	333	12	3	24	3	CCDC120	23	48919829	Missense_Mutation	SNP	A	TCGA-AK-3425-01A-02D-1361-10		48919829	106350731	74	1913											
ACSL4	2182	hgsc.bcm.edu;ucsc.edu	37	chrX	108912271	108912271	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgtacttacagattgcaAagaggtgcatcatatccctt	14	12	7	8	0	1	2	1	0	0	2	2	2	2	2	1	1	4	3	1	1	5	5	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	108912271	A	G	108912271	2	3	32	1	0	0	0	0	0	0	0	1	179	1	1	3		3	ACSL4	23	108912271	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	59992442	108912271	46358289	75	1914											
CXorf66	347487	hgsc.bcm.edu	37	chrX	139038424	139038424	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggattaaaatgtttgggAggcttagccaattcctgtgg	9	15	12	5	0	0	0	0	0	0	0	1	2	1	2	2	4	1	2	2	4	4	5	novel		TCGA-AK-3425-01A-02D-1361-10	TCGA-AK-3425-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a806567e-5877-4a25-964b-34fd55c2dc53	0d33d80e-21da-45e8-b3bc-1b9084b8043a		G	139038424	A	G	139038424	2	3	32	1	0	0	0	0	0	0	0	1	4118	291	11	3		3	CXorf66	23	139038424	Silent	SNP	A	TCGA-AK-3425-01A-02D-1361-10	30126153	139038424	16232136	76	1915											
KIAA1751	85452	hgsc.bcm.edu	37	chr1	1897857	1897857	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccagagatctcgggctCagctaacgtttcctcctctg	8	10	9	14	2	3	1	1	0	2	1	6	2	5	1	3	1	3	3	3	1	2	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	1897857	C	A	1897857	4	1	33	1	0	0	0	0	0	1	0	0	8256	835	29	4	962	4	KIAA1751	1	1897857	Nonsense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10		1897857	247352764	1	1916											
PADI2	11240	hgsc.bcm.edu;ucsc.edu	37	chr1	17396596	17396596	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaccatgtttgggaagAaggctctggcacggtggtcc	7	9	14	11	1	2	1	1	0	1	1	3	2	3	2	3	5	0	3	3	5	2	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	17396596	A	C	17396596	3	2	33	1	0	0	0	0	1	0	0	0	11378	246	9	5	254	5	PADI2	1	17396596	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	15498739	17396596	231854025	2	1917											
MECR	51102	hgsc.bcm.edu	37	chr1	29528533	29528533	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccagactcttcagtctGtcactcagcttctggatatc	7	12	7	15	0	6	1	3	0	3	1	7	2	6	2	2	1	1	1	2	1	1	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	29528533	G	C	29528533	3	2	33	1	0	0	0	0	1	0	0	0	9424	1368	48	4	463	4	MECR	1	29528533	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	12131937	29528533	219722088	3	1918											
ZMYM1	79830	hgsc.bcm.edu	37	chr1	35570190	35570190	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaaataccaaaatgtgaaAcataatctttgcagtaatgc	18	11	6	6	0	1	1	0	1	1	0	1	1	1	1	1	0	4	3	1	0	8	5	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	35570190	A	C	35570190	3	2	33	1	0	0	0	0	1	0	0	0	17698	40	2	5	645	5	ZMYM1	1	35570190	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	6041657	35570190	213680431	4	1919											
EIF2C1	26523	hgsc.bcm.edu	37	chr1	36372708	36372708	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcatcctgccagggaagAcgccggtgtatggtacagtt	8	11	13	9	2	1	1	1	0	0	1	2	2	2	2	3	3	2	3	3	3	3	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	36372708	A	C	36372708	3	2	33	1	0	0	0	0	1	0	0	0	5005	275	10	5	1616	5	EIF2C1	1	36372708	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	802518	36372708	212877913	5	1920											
GIPC2	54810	hgsc.bcm.edu	37	chr1	78601425	78601425	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaaacgaagaggattaTgatgtgtacactccatctct	13	11	8	9	1	1	2	0	1	1	1	3	4	2	3	2	1	3	1	2	1	4	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	78601425	T	C	78601425	3	2	33	1	0	0	0	0	1	0	0	0	6393	1477	51	3	968	3	GIPC2	1	78601425	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	42228717	78601425	170649196	6	1921											
GBP5	115362	hgsc.bcm.edu;ucsc.edu	37	chr1	89732723	89732723	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccaggcctaagcagaaatctCtcagagtccacactaagtct	13	8	7	13	0	3	2	1	0	2	2	5	2	4	2	3	1	1	1	3	1	3	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	89732723	C	G	89732723	3	3	33	1	0	0	0	0	1	0	0	0	6277	913	32	4	1246	4	GBP5	1	89732723	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	11131298	89732723	159517898	7	1922											
CCDC18	343099	hgsc.bcm.edu;ucsc.edu	37	chr1	93672797	93672798	+	Frame_Shift_Ins	INS	-	-	A																															gagtgagttagagaacaaagINSacgaaatacttagagacaaa																								novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	93672798	-	A	93672797	7	5	33	1	0	1	1	0	0	0	0	0	2794	942	33	0	1439	0	CCDC18	1	93672797	Frame_Shift_Ins	INS	-	TCGA-AK-3428-01A-02D-1361-10	3940074	93672797	155577824	8	1923											
SARS	6301	hgsc.bcm.edu;ucsc.edu	37	chr1	109773533	109773533	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtagagaggatttggggtGattgtacagtcaggaagaag	14	9	16	2	0	1	3	1	1	0	2	1	6	1	5	0	4	1	2	0	4	5	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	109773533	G	T	109773533	3	4	33	1	0	0	0	0	1	0	0	0	13846	1290	45	4	499	4	SARS	1	109773533	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	16100736	109773533	139477088	9	1924											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144906486	144906486	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catatcagcagcctgcacctGcagctcttcttcctgcacag	8	10	7	16	0	3	0	1	0	2	0	4	0	4	0	3	0	6	5	3	0	1	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	144906486	G	A	144906486	4	1	33	1	0	0	0	0	0	1	0	0	11643	1328	46	2	4787	2	PDE4DIP	1	144906486	Nonsense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	35132953	144906486	104344135	10	1925											
TDRKH	11022	hgsc.bcm.edu;ucsc.edu	37	chr1	151751697	151751697	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgccttacagatagaaCgaattgtctcgccgcctctc	10	10	8	13	3	2	3	0	0	2	3	4	4	2	3	3	0	3	0	3	0	4	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	151751697	C	T	151751697	3	4	33	1	0	0	0	0	1	0	0	0	15736	536	19	1	1278	1	TDRKH	1	151751697	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	6845211	151751697	97498924	11	1926											
POGK	57645	hgsc.bcm.edu	37	chr1	166818812	166818812	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgccccagcacctgccGgaagacctgactgagaaact	10	5	10	16	2	0	3	0	2	0	2	0	5	0	4	6	1	4	1	6	1	2	0	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	166818812	G	T	166818812	2	4	33	1	0	0	0	0	0	0	0	1	12185	1103	39	4		4	POGK	1	166818812	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	15067115	166818812	82431809	12	1927											
TAF1A	9015	hgsc.bcm.edu;ucsc.edu	37	chr1	222736578	222736578	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagttatattcttagtgcatCcggcaaaatctaagactcca	13	12	6	10	1	2	1	0	0	2	1	4	1	4	1	2	1	1	3	2	1	6	5	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	222736578	C	T	222736578	3	4	33	1	0	0	0	0	1	0	0	0	15518	855	30	2	342	2	TAF1A	1	222736578	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	55917766	222736578	26514043	13	1928											
OR2T27	403239	hgsc.bcm.edu	37	chr1	248814052	248814052	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatgtggatgagaatgatcTtgaccacgttgctggctatg	9	13	12	7	1	1	3	0	3	1	1	1	5	1	4	1	2	1	3	1	2	3	4	rs61834486	bycluster	TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	248814052	T	A	248814052	3	1	33	1	0	0	0	0	1	0	0	0	11021	1609	56	5	822	5	OR2T27	1	248814052	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	26077474	248814052	436569	14	1929											
SMC6	79677	hgsc.bcm.edu	37	chr2	17922877	17922877	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagaagggaaaaaacacttActtccattgttgccaacaac	16	8	7	10	1	0	1	0	0	0	1	1	3	1	2	2	1	5	1	2	1	7	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	17922877	A	G	17922877	5	3	33	1	0	0	0	0	0	0	1	0	14789	405	14	3	3135	3	SMC6	2	17922877	Splice_Site	SNP	A	TCGA-AK-3428-01A-02D-1361-10		17922877	225276496	15	1930											
HADHB	3032	hgsc.bcm.edu;ucsc.edu	37	chr2	26505782	26505782	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatgggttataagccgaagGcatatttgaggtaaagtaaa	15	10	11	5	1	0	1	0	1	0	0	0	2	0	1	2	3	1	4	2	3	8	6	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	26505782	G	A	26505782	3	1	33	1	0	0	0	0	1	0	0	0	6944	1203	42	2	1041	2	HADHB	2	26505782	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	8582905	26505782	216693591	16	1931											
NCAPH	23397	hgsc.bcm.edu;ucsc.edu	37	chr2	97020027	97020027	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttccccgatgggtccctggGggatgactttgatgccaacg	6	10	13	12	2	0	2	0	2	0	0	2	4	2	3	4	3	2	0	4	3	1	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	97020027	G	A	97020027	3	1	33	1	0	0	0	0	1	0	0	0	10209	1232	43	2	1143	2	NCAPH	2	97020027	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	70514245	97020027	146179346	17	1932											
UXS1	80146	hgsc.bcm.edu;ucsc.edu	37	chr2	106729163	106729163	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactactcgcccatcgttcAtgtgcatgcgtggcccaaag	8	10	10	13	3	1	1	1	1	0	0	3	1	1	1	2	1	3	2	2	1	2	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	106729163	A	G	106729163	3	3	33	1	0	0	0	0	1	0	0	0	17108	217	8	3	483	3	UXS1	2	106729163	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	9709136	106729163	136470210	18	1933											
TTN	7273	hgsc.bcm.edu	37	chr2	179429258	179429258	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaatataacctgttatttTgctaccaccatcataggcag	13	13	5	10	0	1	0	1	0	0	0	1	0	1	0	3	1	4	3	3	1	7	8	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	179429258	T	G	179429258	3	3	33	1	0	0	0	0	1	0	0	0	16734	1821	63	5	26526	5	TTN	2	179429258	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	72700095	179429258	63770115	19	1934											
ZNF385B	151126	hgsc.bcm.edu;ucsc.edu	37	chr2	180310276	180310276	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactaattcaggatacgttaCctgtttgagttgaatttctg	10	17	8	6	1	2	2	1	2	1	0	2	3	2	3	1	1	3	3	1	1	5	8	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	180310276	C	T	180310276	5	4	33	1	0	0	0	0	0	0	1	0	17876	521	18	2	331	2	ZNF385B	2	180310276	Splice_Site	SNP	C	TCGA-AK-3428-01A-02D-1361-10	881018	180310276	62889097	20	1935											
C2orf80	389073	hgsc.bcm.edu	37	chr2	209051692	209051692	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagctttttcatttccttctTtatgagccttctttccatgt	5	21	5	10	0	3	1	1	1	2	0	5	2	5	1	3	0	2	1	3	0	1	8	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	209051692	T	C	209051692	3	2	33	1	0	0	0	0	1	0	0	0	2197	1850	64	3	594	3	C2orf80	2	209051692	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	28741416	209051692	34147681	21	1936											
STK11IP	114790	hgsc.bcm.edu	37	chr2	220466798	220466798	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagcaggagcctccaggCattagaggtaaggagagtga	12	7	15	7	0	0	3	0	1	0	2	1	5	1	4	2	4	3	4	2	4	2	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	220466798	C	A	220466798	3	1	33	1	0	0	0	0	1	0	0	0	15289	710	25	4	482	4	STK11IP	2	220466798	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	11415106	220466798	22732575	22	1937											
ITIH1	3697	hgsc.bcm.edu;ucsc.edu	37	chr3	52825566	52825566	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccccatcggttttgaagtgtCtgacatccacccaggctctg	7	11	9	14	1	2	2	0	2	2	0	4	2	3	2	4	2	0	2	4	2	1	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	52825566	C	G	52825566	3	3	33	1	0	0	0	0	1	0	0	0	7903	913	32	4	2610	4	ITIH1	3	52825566	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10		52825566	145196864	23	1938											
DNAH12	201625	hgsc.bcm.edu	37	chr3	57488136	57488136	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccagtgtaacacgtgtTcaggaagttctgtgtcaaga	11	10	11	9	1	3	1	2	0	1	1	3	2	3	2	1	1	2	3	1	1	3	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	57488136	T	G	57488136	3	3	33	1	0	0	0	0	1	0	0	0	4600	1783	62	5	8364	5	DNAH12	3	57488136	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	4662570	57488136	140534294	24	1939											
MAN2B2	23324	hgsc.bcm.edu	37	chr4	6588812	6588812	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctctgccacgacgcccAccctatttgcgctggcgggc	4	7	12	18	5	1	0	0	0	1	0	1	1	1	0	4	2	2	1	4	2	1	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	6588812	A	G	6588812	3	3	33	1	0	0	0	0	1	0	0	0	9217	159	6	3	495	3	MAN2B2	4	6588812	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10		6588812	184565464	25	1940											
GSTCD	79807	hgsc.bcm.edu	37	chr4	106766678	106766678	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccgttcaagtgatatccAtggagccagagagctgctct	10	10	10	11	1	2	2	1	1	1	1	4	4	4	3	3	1	3	3	3	1	2	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	106766678	A	C	106766678	3	2	33	1	0	0	0	0	1	0	0	0	6835	217	8	5	1888	5	GSTCD	4	106766678	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	100177866	106766678	84387598	26	1941											
FAT4	79633	hgsc.bcm.edu	37	chr4	126336940	126336940	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgagaatttagggacActacccagaacaattcttca	13	10	7	11	0	2	2	1	1	1	2	3	4	3	3	2	1	2	0	2	1	5	5	rs192467233	by1000genomes;alternate_allele	TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	126336940	A	C	126336940	2	2	33	1	0	0	0	0	0	0	0	1	5692	146	6	5		5	FAT4	4	126336940	Silent	SNP	A	TCGA-AK-3428-01A-02D-1361-10	19570262	126336940	64817336	27	1942											
DEPDC1B	55789	hgsc.bcm.edu	37	chr5	59982922	59982922	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacttcagggccgaagttttGactgcacctcagcagctcat	9	10	9	13	1	3	1	3	1	0	0	3	2	3	1	2	1	3	4	2	1	1	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	59982922	G	C	59982922	3	2	33	1	0	0	0	0	1	0	0	0	4440	1299	45	4	1448	4	DEPDC1B	5	59982922	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10		59982922	120932338	28	1943											
PCDHB7	56129	hgsc.bcm.edu	37	chr5	140553822	140553822	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacaacagccccgccctgcCcatcggcagtgtcagcgcca	9	4	10	18	3	1	0	1	0	0	0	2	1	1	0	5	1	5	1	5	1	2	0	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	140553822	C	A	140553822	3	1	33	1	0	0	0	0	1	0	0	0	11547	623	22	4	1408	4	PCDHB7	5	140553822	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	80570900	140553822	40361438	29	1944											
TNIP1	10318	hgsc.bcm.edu;ucsc.edu	37	chr5	150422134	150422134	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atcttggacttggccaggagGagcttgcggtcaaagtcacg	9	9	14	9	2	3	0	2	0	1	0	3	3	3	3	1	5	2	1	1	5	1	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	150422134	G	C	150422134	2	2	33	1	0	0	0	0	0	0	0	1	16313	1161	41	4		4	TNIP1	5	150422134	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	9868312	150422134	30493126	30	1945											
SERPINB1	1992	hgsc.bcm.edu	37	chr6	2834179	2834179	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaagctgacattaactTcaatgaaatcgagattctca	14	11	8	8	1	2	3	2	2	1	1	4	4	2	3	0	1	2	2	0	1	4	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	2834179	T	C	2834179	3	2	33	1	0	0	0	0	1	0	0	0	14098	1783	62	3	340	3	SERPINB1	6	2834179	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10		2834179	168280888	31	1946											
DNAH8	1769	hgsc.bcm.edu;ucsc.edu	37	chr6	38994431	38994431	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccaaggaggagatcacGtcaccccctggggtaggcgt	10	5	14	12	2	2	2	2	0	0	2	2	4	2	3	3	5	0	1	3	5	2	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	38994431	G	A	38994431	2	1	33	1	0	0	0	0	0	0	0	1	4607	1132	40	1		1	DNAH8	6	38994431	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	36160252	38994431	132120636	32	1947											
CUL9	23113	hgsc.bcm.edu	37	chr6	43174214	43174214	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccacagaattctgtgaTgcccttgaccgtttctccag	7	13	7	14	1	2	3	0	2	2	1	4	3	3	3	4	0	1	1	4	0	1	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	43174214	T	G	43174214	3	3	33	1	0	0	0	0	1	0	0	0	4061	1461	51	5	5276	5	CUL9	6	43174214	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	4179783	43174214	127940853	33	1948											
RHAG	6005	hgsc.bcm.edu	37	chr6	49587014	49587014	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acactgctgaagccatatttCttcaggaaggtcatgaggaa	13	10	10	8	0	3	2	2	2	1	0	3	4	3	4	1	3	2	1	1	3	4	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	49587014	C	T	49587014	2	4	33	1	0	0	0	0	0	0	0	1	13317	912	32	2		2	RHAG	6	49587014	Silent	SNP	C	TCGA-AK-3428-01A-02D-1361-10	6412800	49587014	121528053	34	1949											
CRHR2	1395	hgsc.bcm.edu;ucsc.edu	37	chr7	30706864	30706864	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcatccaaaatgggctCacactgtgagtagttgatct	10	13	9	9	0	3	2	2	2	1	0	4	2	4	2	1	1	0	3	1	1	3	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	30706864	C	A	30706864	4	1	33	1	0	0	0	0	0	1	0	0	3872	835	29	4	980	4	CRHR2	7	30706864	Nonsense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10		30706864	128431799	35	1950											
POP7	10248	hgsc.bcm.edu	37	chr7	100304816	100304816	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accgacacacgggagccactGactcggatccgcaacaactc	12	4	9	16	4	0	1	0	1	0	0	3	4	1	3	3	2	3	1	3	2	2	0	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	100304816	G	A	100304816	2	1	33	1	0	0	0	0	0	0	0	1	12254	1277	45	2		2	POP7	7	100304816	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	69597952	100304816	58833847	36	1951											
GPR37	2861	hgsc.bcm.edu;ucsc.edu	37	chr7	124404891	124404891	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccgcggcgctggatcactGtaggtgcacagctctccccc	5	8	12	16	3	2	0	1	0	1	0	3	1	2	1	3	3	3	4	3	3	1	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	124404891	G	A	124404891	3	1	33	1	0	0	0	0	1	0	0	0	6691	1377	48	2	1709	2	GPR37	7	124404891	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	24100075	124404891	34733772	37	1952											
KIAA1549	57670	hgsc.bcm.edu;ucsc.edu	37	chr7	138595936	138595936	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcacaaggaaagaaggtTtcacagacaggattaaagga	17	6	12	6	0	1	2	1	0	0	2	1	5	1	5	0	5	0	2	0	5	5	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	138595936	T	G	138595936	3	3	33	1	0	0	0	0	1	0	0	0	8244	1841	64	5	2819	5	KIAA1549	7	138595936	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10	14191045	138595936	20542727	38	1953											
NRG1	3084	hgsc.bcm.edu;ucsc.edu	37	chr8	32600253	32600253	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaatggccagcttctacagTacgtccactccctttctgtc	7	13	7	14	1	2	0	0	0	2	0	5	0	4	0	3	1	3	3	3	1	3	5	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	32600253	T	A	32600253	3	1	33	1	0	0	0	0	1	0	0	0	10647	1652	57	5	2261	5	NRG1	8	32600253	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10		32600253	113763769	39	1954											
ADAM9	8754	hgsc.bcm.edu;ucsc.edu	37	chr8	38869228	38869228	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatattattcacttggaaAggaacaagtaagacatttaa	18	11	7	5	0	1	1	1	0	0	1	1	3	1	3	0	2	2	2	0	2	7	7	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	38869228	A	T	38869228	3	4	33	1	0	0	0	0	1	0	0	0	253	63	3	5	257	5	ADAM9	8	38869228	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	6268975	38869228	107494794	40	1955											
TGS1	96764	hgsc.bcm.edu	37	chr8	56711602	56711602	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaagacatgtctgttaaaAaaggtgatgacctactggag	16	9	10	6	0	1	3	0	2	1	1	1	4	1	4	1	2	2	1	1	2	6	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	56711602	A	C	56711602	3	2	33	1	0	0	0	0	1	0	0	0	15836	15	1	5	1702	5	TGS1	8	56711602	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	17842374	56711602	89652420	41	1956											
ZFPM2	23414	hgsc.bcm.edu;ucsc.edu	37	chr8	106815608	106815608	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaattccctcagcagaggaaCagttgtctagtatagcaaaa	15	9	9	8	0	2	1	1	0	1	1	3	3	3	2	1	1	3	4	1	1	7	5	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	106815608	C	G	106815608	3	3	33	1	0	0	0	0	1	0	0	0	17657	479	17	4	3328	4	ZFPM2	8	106815608	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	50104006	106815608	39548414	42	1957											
ZHX1	11244	hgsc.bcm.edu	37	chr8	124267674	124267674	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagatattcccgaagaagaAacttctgtagattctgcttg	13	13	8	7	1	2	4	0	0	2	4	3	5	3	4	1	0	2	2	1	0	6	7	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	124267674	A	G	124267674	2	3	33	1	0	0	0	0	0	0	0	1	17674	1	1	3		3	ZHX1	8	124267674	Silent	SNP	A	TCGA-AK-3428-01A-02D-1361-10	17452066	124267674	22096348	43	1958											
SVEP1	79987	hgsc.bcm.edu	37	chr9	113169538	113169538	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgatggatccattcatgActggatttggctttttgcat	7	18	9	7	0	1	2	1	2	0	0	2	4	2	4	1	3	1	2	1	3	0	5	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	113169538	A	G	113169538	3	3	33	1	0	0	0	0	1	0	0	0	15419	275	10	3	2417	3	SVEP1	9	113169538	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10		113169538	28043893	44	1959											
PDCD11	22984	hgsc.bcm.edu;ucsc.edu	37	chr10	105164925	105164925	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agagtgctgagtgctgaggcCctgaagcctggcatggtagg	8	8	17	8	0	0	4	0	3	0	1	0	4	0	4	2	4	3	4	2	4	2	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	105164925	C	T	105164925	2	4	33	1	0	0	0	0	0	0	0	1	11617	610	22	2		2	PDCD11	10	105164925	Silent	SNP	C	TCGA-AK-3428-01A-02D-1361-10		105164925	30369822	45	1960											
DHX32	55760	hgsc.bcm.edu;ucsc.edu	37	chr10	127548370	127548370	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgatcaggtgaggtgaGgagttaattatgagcttcag	10	13	14	4	0	2	4	2	4	0	0	2	5	2	5	0	3	2	3	0	3	2	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	127548370	G	C	127548370	2	2	33	1	0	0	0	0	0	0	0	1	4505	987	35	4		4	DHX32	10	127548370	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	22383445	127548370	7986377	46	1961											
SOX6	55553	hgsc.bcm.edu	37	chr11	16010675	16010675	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctgctggcacggccgcGggcgtccctgtagactcgtg	3	8	15	15	6	0	1	0	0	0	1	3	1	1	1	2	3	1	4	2	3	1	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	16010675	G	A	16010675	3	1	33	1	0	0	0	0	1	0	0	0	14957	1116	39	1	664	1	SOX6	11	16010675	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10		16010675	118995841	47	1962											
HINFP	25988	hgsc.bcm.edu	37	chr11	119005189	119005189	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggaatagctgaggagcCagagatccagatggtttgaa	14	8	13	6	0	1	4	1	2	0	2	2	7	2	6	2	3	2	2	2	3	4	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	119005189	C	T	119005189	3	4	33	1	0	0	0	0	1	0	0	0	7110	594	21	2	1569	2	HINFP	11	119005189	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	102994514	119005189	16001327	48	1963											
LRMP	4033	hgsc.bcm.edu;ucsc.edu	37	chr12	25232386	25232386	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcgacagacggtactatAacttcaagtggtaagtggat	13	11	10	7	2	2	1	2	0	0	1	3	3	2	2	0	3	2	2	0	3	5	5	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	25232386	A	G	25232386	3	3	33	1	0	0	0	0	1	0	0	0	8950	352	13	3	136	3	LRMP	12	25232386	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10		25232386	108619509	49	1964											
KLHDC5	57542	hgsc.bcm.edu	37	chr12	27950786	27950786	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggggggtgtctccacgAgctggggcccaaccgcagga	6	5	18	12	3	1	0	0	0	1	0	2	2	1	1	3	6	2	2	3	6	1	0	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	27950786	A	T	27950786	3	4	33	1	0	0	0	0	1	0	0	0	8359	304	11	5	1215	5	KLHDC5	12	27950786	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	2718400	27950786	105901109	50	1965											
UNG	7374	hgsc.bcm.edu;ucsc.edu	37	chr12	109541417	109541417	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggcagtgccattgataggGtatgttttgttttctttctt	6	19	11	5	0	2	1	0	1	2	0	2	1	2	1	1	2	1	4	1	2	2	9	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	109541417	G	A	109541417	5	1	33	1	0	0	0	0	0	0	1	0	16998	1275	44	2	929	2	UNG	12	109541417	Splice_Site	SNP	G	TCGA-AK-3428-01A-02D-1361-10	81590631	109541417	24310478	51	1966											
ACAD10	80724	hgsc.bcm.edu	37	chr12	112186271	112186271	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggtgtatggactggaagAtgcaccaggtgagacctcca	11	7	14	9	1	0	2	0	1	0	2	1	6	1	4	3	4	1	2	3	4	2	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	112186271	A	T	112186271	3	4	33	1	0	0	0	0	1	0	0	0	108	333	12	5	2795	5	ACAD10	12	112186271	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	2644854	112186271	21665624	52	1967											
HSPH1	10808	hgsc.bcm.edu	37	chr13	31711636	31711636	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtttcggttgtgttacaAcgggttcacatgtgttgttc	5	18	12	6	2	1	0	1	0	0	0	3	0	1	0	0	3	2	6	0	3	2	7	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	31711636	A	C	31711636	3	2	33	1	0	0	0	0	1	0	0	0	7431	43	2	5	184	5	HSPH1	13	31711636	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10		31711636	83458242	53	1968											
KIAA1409	0	hgsc.bcm.edu	37	chr14	93994955	93994955	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtgataaaccacccccgTtgtatctctgtgaagaatgc	10	11	10	10	1	1	3	0	2	1	1	2	3	1	3	3	1	2	2	3	1	5	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	93994955	T	C	93994955	2	2	33	1	0	0	0	0	0	0	0	1	8230	1722	60	3		3	KIAA1409	14	93994955	Silent	SNP	T	TCGA-AK-3428-01A-02D-1361-10		93994955	13354585	54	1969											
DUOX2	50506	hgsc.bcm.edu;ucsc.edu	37	chr15	45388135	45388135	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgagtgtgtcctcatggGgcgcggaggtcagtgtgaag	6	9	19	7	2	2	2	2	2	0	0	3	3	3	3	1	5	0	1	1	5	1	0	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	45388135	G	A	45388135	3	1	33	1	0	0	0	0	1	0	0	0	4801	1232	43	2	695	2	DUOX2	15	45388135	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10		45388135	57143257	55	1970											
CHSY1	22856	hgsc.bcm.edu;ucsc.edu	37	chr15	101717750	101717750	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtcaagattgggatcaCaaaagacaggatggtggacg	13	7	16	5	1	2	2	2	0	0	2	2	5	2	5	0	6	0	0	0	6	3	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	101717750	C	G	101717750	3	3	33	1	0	0	0	0	1	0	0	0	3412	478	17	4	160	4	CHSY1	15	101717750	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	56329615	101717750	813642	56	1971											
SEZ6L2	26470	hgsc.bcm.edu;ucsc.edu	37	chr16	29884668	29884668	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagcagaagaagcgcagaGactcgcccgcctggtagtgg	11	5	14	11	3	0	3	0	0	0	3	1	4	0	3	2	2	2	3	2	2	4	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	29884668	G	T	29884668	3	4	33	1	0	0	0	0	1	0	0	0	14146	942	33	4	410	4	SEZ6L2	16	29884668	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10		29884668	60470085	57	1972											
WWOX	51741	hgsc.bcm.edu;ucsc.edu	37	chr16	78466519	78466519	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccaacgagctgcaccGtcgcctctccccacgcgggg	5	7	10	19	5	2	0	0	0	2	0	5	1	2	0	5	2	3	2	5	2	1	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	78466519	G	T	78466519	3	4	33	1	0	0	0	0	1	0	0	0	17413	1145	40	4	1018	4	WWOX	16	78466519	Missense_Mutation	SNP	G	TCGA-AK-3428-01A-02D-1361-10	48581851	78466519	11888234	58	1973											
GLP2R	9340	hgsc.bcm.edu;ucsc.edu	37	chr17	9745863	9745863	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaggggacttggcagaCgatagagaacgccacggata	12	5	15	9	3	1	2	1	0	0	2	1	6	1	4	1	5	1	2	1	5	3	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	9745863	C	T	9745863	3	4	33	1	0	0	0	0	1	0	0	0	6453	536	19	1	448	1	GLP2R	17	9745863	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10		9745863	71449347	59	1974											
TRIM16	10626	hgsc.bcm.edu	37	chr17	15539426	15539426	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccatctcggcactcCtgtactccaggtgggccttg	4	13	9	15	1	3	0	0	0	3	0	7	0	5	0	4	3	1	2	4	3	1	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	15539426	C	T	15539426	3	4	33	1	0	0	0	0	1	0	0	0	16490	681	24	2	937	2	TRIM16	17	15539426	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	5793563	15539426	65655784	60	1975											
FLII	2314	hgsc.bcm.edu;ucsc.edu	37	chr17	18156764	18156764	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagcttgctcagcttgcaAatggctgactggagggggaa	9	10	14	8	0	2	1	2	1	0	0	2	3	2	3	0	4	4	5	0	4	2	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	18156764	A	T	18156764	2	4	33	1	0	0	0	0	0	0	0	1	5925	10	1	5		5	FLII	17	18156764	Silent	SNP	A	TCGA-AK-3428-01A-02D-1361-10	2617338	18156764	63038446	61	1976											
ELP2	55250	hgsc.bcm.edu	37	chr18	33709981	33709981	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactggagctctgggcccAgaggacttctggcctttggc	6	10	14	11	0	2	2	0	1	2	1	2	4	2	4	2	5	2	1	2	5	1	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	33709981	A	T	33709981	4	4	33	1	0	0	0	0	0	1	0	0	5080	180	7	5	87	5	ELP2	18	33709981	Nonsense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10		33709981	44367267	62	1977											
SH3GL1	6455	hgsc.bcm.edu	37	chr19	4363421	4363421	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcacggcctgccggtggTagtccagctgtgcatccacc	5	9	12	15	2	1	0	0	0	1	0	3	0	3	0	5	3	4	4	5	3	1	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	4363421	T	C	4363421	3	2	33	1	0	0	0	0	1	0	0	0	14252	1638	57	3	448	3	SH3GL1	19	4363421	Missense_Mutation	SNP	T	TCGA-AK-3428-01A-02D-1361-10		4363421	54765562	63	1978											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9074828	9074828	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccaagcttatcctcgaCatgtctgtggtcttccccag	6	13	9	13	1	2	0	0	0	2	0	6	1	5	0	4	2	1	2	4	2	2	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	9074828	C	T	9074828	3	4	33	1	0	0	0	0	1	0	0	0	9973	478	17	2	31233	2	MUC16	19	9074828	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	4711407	9074828	50054155	64	1979											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9091029	9091029	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagaggagaagggataTccagtggttgatagaatcag	14	8	15	4	0	2	4	2	1	0	3	3	7	3	5	1	4	0	1	1	4	4	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	9091029	T	C	9091029	2	2	33	1	0	0	0	0	0	0	0	1	9973	1422	50	3		3	MUC16	19	9091029	Silent	SNP	T	TCGA-AK-3428-01A-02D-1361-10	16201	9091029	50037954	65	1980											
BRD4	23476	hgsc.bcm.edu;ucsc.edu	37	chr19	15360094	15360095	+	Frame_Shift_Del	DEL	GG	GG	-																															gagtccgtgtccaatgattaGgcaggacctacgtagaggga																								novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		-	15360095	GG	-	15360094	7	5	33	1	0	1	0	1	0	0	0	0	1504	987	35	0	1973	0	BRD4	19	15360094	Frame_Shift_Del	DEL	GG	TCGA-AK-3428-01A-02D-1361-10	6269065	15360094	43768889	66	1981											
CYP4F11	57834	hgsc.bcm.edu	37	chr19	16035643	16035643	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgaggctgatgtgttcaAacatgtccagtctggcgctg	8	12	12	9	1	3	2	2	2	1	0	4	2	4	2	1	2	1	3	1	2	1	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	16035643	A	C	16035643	3	2	33	1	0	0	0	0	1	0	0	0	4186	14	1	5	1031	5	CYP4F11	19	16035643	Missense_Mutation	SNP	A	TCGA-AK-3428-01A-02D-1361-10	675549	16035643	43093340	67	1982											
PDE4C	5143	hgsc.bcm.edu	37	chr19	18329004	18329004	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccccaggatggtccacgtCgtggatggcgcttgcaaaga	9	7	14	11	3	0	1	0	0	0	1	2	4	1	3	3	4	1	2	3	4	1	1	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	18329004	C	T	18329004	3	4	33	1	0	0	0	0	1	0	0	0	11641	884	31	1	873	1	PDE4C	19	18329004	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	2293361	18329004	40799979	68	1983											
MKKS	8195	hgsc.bcm.edu;ucsc.edu	37	chr20	10393758	10393758	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgggattcgacaaccacaGgtctcagacttgagataact	13	9	9	10	1	1	2	1	1	1	2	3	5	1	3	1	2	2	0	1	2	2	3	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	10393758	G	A	10393758	2	1	33	1	0	0	0	0	0	0	0	1	9600	987	35	2		2	MKKS	20	10393758	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10		10393758	52631762	69	1984											
DHX35	60625	hgsc.bcm.edu	37	chr20	37597791	37597791	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaaactctgggacaacGgttgtttacaacccttatgc	11	11	9	10	1	1	1	0	1	1	0	1	2	1	2	1	2	5	3	1	2	6	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	37597791	G	T	37597791	2	4	33	1	0	0	0	0	0	0	0	1	4508	1103	39	4		4	DHX35	20	37597791	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	27204033	37597791	25427729	70	1985											
CHD6	84181	hgsc.bcm.edu;ucsc.edu	37	chr20	40081483	40081483	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cgtgggcctttcgtctgagtCgctgtctaactctgaaaact	7	13	10	11	3	3	2	0	2	3	0	5	2	3	2	1	1	2	1	1	1	3	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		G	40081483	C	G	40081483	3	3	33	1	0	0	0	0	1	0	0	0	3329	884	31	4	4995	4	CHD6	20	40081483	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	2483692	40081483	22944037	71	1986											
EIF4ENIF1	56478	hgsc.bcm.edu;ucsc.edu	37	chr22	31851207	31851207	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctttctgtagcatttctaaAatatccactttattttcagc	10	18	4	9	0	3	0	1	0	2	0	4	0	4	0	1	0	2	3	1	0	5	9	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	31851207	A	T	31851207	2	4	33	1	0	0	0	0	0	0	0	1	5035	10	1	5		5	EIF4ENIF1	22	31851207	Silent	SNP	A	TCGA-AK-3428-01A-02D-1361-10		31851207	19453359	72	1987											
EP300	2033	hgsc.bcm.edu;ucsc.edu	37	chr22	41536219	41536219	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacctagttgcatatgcTcggaaagttgaaggggacat	14	9	12	6	1	0	1	0	1	0	0	1	4	0	3	1	3	3	4	1	3	6	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	41536219	T	C	41536219	2	2	33	1	0	0	0	0	0	0	0	1	5148	1538	54	3		3	EP300	22	41536219	Silent	SNP	T	TCGA-AK-3428-01A-02D-1361-10	9685012	41536219	9768347	73	1988											
TUBGCP6	85378	hgsc.bcm.edu;ucsc.edu	37	chr22	50665215	50665215	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagcagtacagggtagtgCtcgttgctgcagttgtgcag	8	10	15	8	1	0	0	0	0	0	0	1	1	0	0	0	1	6	9	0	1	2	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		T	50665215	C	T	50665215	2	4	33	1	0	0	0	0	0	0	0	1	16769	796	28	2		2	TUBGCP6	22	50665215	Silent	SNP	C	TCGA-AK-3428-01A-02D-1361-10	9128996	50665215	639351	74	1989											
EIF2S3	1968	hgsc.bcm.edu;ucsc.edu	37	chrX	24086218	24086218	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatatgctgctccaggcggTcttattggtaaggatttttt	8	16	10	7	1	1	0	0	0	1	0	2	1	2	1	1	4	2	3	1	4	4	7	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		C	24086218	T	C	24086218	2	2	33	1	0	0	0	0	0	0	0	1	5011	1654	58	3		3	EIF2S3	23	24086218	Silent	SNP	T	TCGA-AK-3428-01A-02D-1361-10		24086218	131184342	75	1990											
TRMT2B	79979	hgsc.bcm.edu;ucsc.edu	37	chrX	100265618	100265618	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgtggggtgtgagggaaCaaatccacaggtacagcttg	12	8	14	7	0	0	1	0	1	0	0	1	2	1	2	1	4	3	2	1	4	4	2	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	100265618	C	A	100265618	3	1	33	1	0	0	0	0	1	0	0	0	16565	477	17	4	51	4	TRMT2B	23	100265618	Missense_Mutation	SNP	C	TCGA-AK-3428-01A-02D-1361-10	76179400	100265618	55004942	76	1991											
COL4A5	1287	hgsc.bcm.edu;ucsc.edu	37	chrX	107930860	107930860	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccacagggaacacttcaGgtctatgaaggcttttctct	9	12	9	11	0	3	1	1	1	2	0	4	2	3	2	1	3	2	1	1	3	3	4	novel		TCGA-AK-3428-01A-02D-1361-10	TCGA-AK-3428-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6fc3e193-399a-4434-9aef-8eab73ad7b4d	621bf83f-cd42-415e-92df-6f77ac4ccbbc		A	107930860	G	A	107930860	2	1	33	1	0	0	0	0	0	0	0	1	3694	991	35	2		2	COL4A5	23	107930860	Silent	SNP	G	TCGA-AK-3428-01A-02D-1361-10	7665242	107930860	47339700	77	1992											
DVL1	1855	broad.mit.edu	37	chr1	1275427	1275427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagacacacctgcagcaaCatgtcgccgggctcgatgcg	10	5	11	15	4	0	1	0	0	0	1	2	2	0	1	2	1	4	3	2	1	1	0	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	1275427	A	A	1275427	3	1	34	1	0	0	0	0	1	0	0	0	4835	478	17	4	1144	4	DVL1	1	1275427	Missense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10		1275427	247975194	1	1993											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu	37	chr1	11319454	11319454	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtggcggcggcaggtcCggttccaagcatcttgccct	4	9	16	12	3	1	0	0	0	1	0	3	0	3	0	3	7	2	3	3	7	1	2	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	11319454	C	G	11319454	3	3	34	1	0	0	0	0	1	0	0	0	9954	661	23	4	7864	4	MTOR	1	11319454	Missense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10	10044027	11319454	237931167	2	1994											
PRAMEF6	440561	broad.mit.edu	37	chr1	13001258	13001258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtcaagggctgctgtcctCtcatccttggacagtcctgc	6	11	10	14	0	2	0	2	0	1	0	6	1	5	1	3	2	2	2	3	2	1	1	rs3927874		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	13001258	T	T	13001258	3	4	34	1	0	0	0	0	1	0	0	0	12440	913	32	2	1013	2	PRAMEF6	1	13001258	Missense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10	1681804	13001258	236249363	3	1995											
PRDM2	7799	hgsc.bcm.edu	37	chr1	14075880	14075880	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgccgggcgaggagctcCtggtctggtacaatggggaa	7	7	17	10	4	1	0	0	0	1	0	3	3	2	2	2	6	2	2	2	6	3	1	rs75417771	bycluster;byfrequency;by1000genomes	TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	14075880	C	T	14075880	2	4	34	1	0	0	0	0	0	0	0	1	12460	680	24	2		2	PRDM2	1	14075880	Silent	SNP	C	TCGA-AK-3429-01A-02D-1386-10	1074622	14075880	235174741	4	1996											
DEM1	0	broad.mit.edu;ucsc.edu	37	chr1	40980259	40980259	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagtgtcagcagaagccTcagggttctcagacttgagt	11	9	12	9	0	3	4	3	1	1	3	4	4	3	4	1	1	2	2	1	1	1	2	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	40980259	G	G	40980259	3	3	34	1	0	0	0	0	1	0	0	0	4425	1551	54	5	45	5	DEM1	1	40980259	Missense_Mutation	SNP	T	TCGA-AK-3429-01A-02D-1386-10	26904379	40980259	208270362	5	1997											
NAB1	4664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191524231	191524231	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accaacatggctgggaatatCctgcagtagttatgaaagga	14	9	11	7	0	0	1	0	1	0	0	1	3	1	3	2	3	2	4	2	3	6	3	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	191524231	C	T	191524231	3	4	34	1	0	0	0	0	1	0	0	0	10131	855	30	2	331	2	NAB1	2	191524231	Missense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10		191524231	51675142	6	1998											
SETD2	29072	broad.mit.edu	37	chr3	47058513	47058513	+	3'UTR	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacaggggtgggacagaaaGgcccacaggatttcctctcc	10	7	13	11	0	1	2	0	1	1	1	3	4	2	4	3	5	0	0	3	5	1	1	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	47058513	A	A	47058513	1	1	34	0	1	0	0	0	0	0	0	0	14133	1015	35	2		2	SETD2	3	47058513	3'UTR	SNP	G	TCGA-AK-3429-01A-02D-1386-10		47058513	150963917	7	1999											
GATA2	2624	broad.mit.edu	37	chr3	128205185	128205185	+	Frame_Shift_Del	DEL	G	-	-																															gctgtgcaacaagtgtgggcGgcacatctggcctccggtca																								novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		-	128205185	-	-	128205185	7	5	34	1	0	1	0	1	0	0	0	0	6254	1116	39	0	1202	0	GATA2	3	128205185	Frame_Shift_Del	DEL	G	TCGA-AK-3429-01A-02D-1386-10	81146672	128205185	69817245	8	2000											
XRN1	54464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142037709	142037709	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtggcccatgtaccagtaAgccattagataattttactt	11	14	7	9	0	0	1	0	0	0	1	0	1	0	1	3	1	3	2	3	1	5	7	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	142037709	A	G	142037709	2	3	34	1	0	0	0	0	0	0	0	1	17458	69	3	3		3	XRN1	3	142037709	Silent	SNP	A	TCGA-AK-3429-01A-02D-1386-10	13832524	142037709	55984721	9	2001											
MUC4	4585	hgsc.bcm.edu	37	chr3	195513694	195513694	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaagtgtcggtgacaGgaagaggggtggtgtgacct	9	8	19	5	1	0	4	0	3	0	1	1	6	0	6	1	6	0	0	1	6	2	0	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	195513694	G	A	195513694	3	1	34	1	0	0	0	0	1	0	0	0	9978	1000	35	2		2	MUC4	3	195513694	Missense_Mutation	SNP	G	TCGA-AK-3429-01A-02D-1386-10	53475985	195513694	2508736	10	2002											
TRPC7	57113	broad.mit.edu;hgsc.bcm.edu	37	chr5	135692564	135692564	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactcctggcagtgcgccGccaggatgatgggcgtgatg	7	8	15	11	3	0	2	0	2	0	0	1	3	1	3	3	3	2	1	3	3	1	1	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	135692564	G	A	135692564	3	1	34	1	0	0	0	0	1	0	0	0	16583	1087	38	1	2120	1	TRPC7	5	135692564	Missense_Mutation	SNP	G	TCGA-AK-3429-01A-02D-1386-10		135692564	45222696	11	2003											
SGK1	6446	hgsc.bcm.edu;ucsc.edu	37	chr6	134495942	134495943	+	Frame_Shift_Del	DEL	TC	TC	-																															agcagcctcagttttcaccgTcatcaccaccgcggggagac																								novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		-	134495943	TC	-	134495942	7	5	34	1	0	1	0	1	0	0	0	0	14209	1667	58	0	1339	0	SGK1	6	134495942	Frame_Shift_Del	DEL	TC	TCGA-AK-3429-01A-02D-1386-10		134495942	36619125	12	2004											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82580448	82580448	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccagttactgcaatgtcCgtttcagatgcacctgttgt	9	14	8	10	1	1	1	1	0	0	1	2	1	2	1	3	0	4	5	3	0	3	4	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	82580448	C	T	82580448	2	4	34	1	0	0	0	0	0	0	0	1	11583	639	23	1		1	PCLO	7	82580448	Silent	SNP	C	TCGA-AK-3429-01A-02D-1386-10		82580448	76558215	13	2005											
ANGPT1	284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	108334357	108334357	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattttatgttctaataaaCtacaaggaagtgaaaataaa	20	12	6	3	0	1	2	0	1	1	1	1	3	1	3	0	1	2	1	0	1	11	7	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	108334357	C	G	108334357	5	3	34	1	0	0	0	0	0	0	1	0	610	579	20	4	945	4	ANGPT1	8	108334357	Splice_Site	SNP	C	TCGA-AK-3429-01A-02D-1386-10		108334357	38029665	14	2006											
RECQL4	9401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145737152	145737152	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggatgtcgcagcggacCtggtcctcccaatcctggag	6	8	14	13	3	0	0	0	0	0	0	4	3	3	3	4	5	1	1	4	5	1	0	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	145737152	C	A	145737152	3	1	34	1	0	0	0	0	1	0	0	0	13204	680	24	4	220	4	RECQL4	8	145737152	Missense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10	37402795	145737152	626870	15	2007											
C9orf93	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	15777711	15777711	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatacctctgcacagtagcAggagtattacatatgtagaa	14	11	9	7	0	1	1	0	0	1	1	1	2	1	2	1	1	4	6	1	1	8	7	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	15777711	A	G	15777711	3	3	34	1	0	0	0	0	1	0	0	0	2506	179	7	3	2855	3	C9orf93	9	15777711	Missense_Mutation	SNP	A	TCGA-AK-3429-01A-02D-1386-10		15777711	125435720	16	2008											
NOL8	55035	hgsc.bcm.edu;ucsc.edu	37	chr9	95069939	95069939	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctaagcctgtatgactcTttcaacttactgcaggatat	11	14	7	9	0	3	1	1	1	2	0	3	2	3	2	1	1	4	2	1	1	5	5	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		C	95069939	T	C	95069939	1	2	34	0	1	0	0	0	0	0	0	0	10527	1624	56	3		3	NOL8	9	95069939	RNA	SNP	T	TCGA-AK-3429-01A-02D-1386-10	79292228	95069939	46143492	17	2009											
DBC1	1620	broad.mit.edu;hgsc.bcm.edu	37	chr9	121929960	121929960	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgctaaaggggttgacaTagacaaagaacatggggtcc	13	7	12	9	1	0	3	0	1	0	2	2	3	2	3	2	4	1	2	2	4	5	3	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	121929960	T	A	121929960	3	1	34	1	0	0	0	0	1	0	0	0	4247	1406	49	5	601	5	DBC1	9	121929960	Missense_Mutation	SNP	T	TCGA-AK-3429-01A-02D-1386-10	26860021	121929960	19283471	18	2010											
C11orf57	55216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111946306	111946306	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagattgaagaatgtcccGgattccactggggaaggtcc	10	10	12	9	1	1	3	1	1	0	2	4	5	4	5	3	4	0	0	3	4	3	3	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	111946306	G	A	111946306	3	1	34	1	0	0	0	0	1	0	0	0	1650	1116	39	1	10	1	C11orf57	11	111946306	Missense_Mutation	SNP	G	TCGA-AK-3429-01A-02D-1386-10		111946306	23060210	19	2011											
NOP2	4839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6669891	6669891	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcacggctggatccttGgagatgaccccagtgccact	7	10	11	13	1	2	2	1	1	1	1	3	4	3	3	4	3	1	1	4	3	0	2	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	6669891	G	T	6669891	2	4	34	1	0	0	0	0	0	0	0	1	10538	1335	47	4		4	NOP2	12	6669891	Silent	SNP	G	TCGA-AK-3429-01A-02D-1386-10		6669891	127182004	20	2012											
NCOR2	9612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124841254	124841254	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccttgatcacctcacgggGgggcacggggaagggcaggc	7	4	19	11	2	2	1	2	1	0	0	2	2	2	2	2	8	0	2	2	8	1	1	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	124841254	G	A	124841254	3	1	34	1	0	0	0	0	1	0	0	0	10236	1232	43	2	4469	2	NCOR2	12	124841254	Missense_Mutation	SNP	G	TCGA-AK-3429-01A-02D-1386-10	118171363	124841254	9010641	21	2013											
ATP12A	479	broad.mit.edu;ucsc.edu	37	chr13	25276072	25276072	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgttgtctttgctctaGgttattatggttactggtga	5	20	10	6	1	3	1	0	1	3	0	4	1	3	1	0	3	2	4	0	3	4	7	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	25276072	T	T	25276072	5	4	34	1	0	0	0	0	0	0	1	0	1122	1014	35	4	1953	4	ATP12A	13	25276072	Splice_Site	SNP	G	TCGA-AK-3429-01A-02D-1386-10		25276072	89893806	22	2014											
FLT3	2322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	28608527	28608527	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagaatgagatgttgtcttGgatgaaagggaaggggcctg	12	10	16	3	0	1	3	0	2	1	2	1	6	1	5	1	4	0	1	1	4	4	3	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	28608527	G	T	28608527	3	4	34	1	0	0	0	0	1	0	0	0	5942	1357	47	4	1414	4	FLT3	13	28608527	Missense_Mutation	SNP	G	TCGA-AK-3429-01A-02D-1386-10	3332455	28608527	86561351	23	2015											
HERC2	8924	broad.mit.edu;ucsc.edu	37	chr15	28446698	28446698	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgtcacaacagcaccagtAgactgcaagaaataaataca	18	6	6	11	1	1	2	1	0	0	2	2	2	2	2	2	0	4	3	2	0	7	3	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	28446698	G	G	28446698	2	3	34	1	0	0	0	0	0	0	0	1	7058	407	15	3		3	HERC2	15	28446698	Silent	SNP	A	TCGA-AK-3429-01A-02D-1386-10		28446698	74084694	24	2016											
UBR1	197131	broad.mit.edu;ucsc.edu	37	chr15	43299453	43299453	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgtttaggacccaaagcaAttctagagtagtcactgact	12	10	8	11	1	2	2	1	1	1	1	2	3	2	3	2	1	1	3	2	1	5	5	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		C	43299453	C	C	43299453	3	2	34	1	0	0	0	0	1	0	0	0	16900	101	4	5	2082	5	UBR1	15	43299453	Missense_Mutation	SNP	A	TCGA-AK-3429-01A-02D-1386-10	14852755	43299453	59231939	25	2017											
SYNM	23336	broad.mit.edu;ucsc.edu	37	chr15	99670374	99670374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgcctgtgaaggatgcTggtggtgggaccggtagaga	9	7	18	7	2	0	3	0	1	0	2	0	6	0	5	2	5	1	2	2	5	2	1	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		C	99670374	C	C	99670374	2	2	34	1	0	0	0	0	0	0	0	1	15454	1567	55	3		3	SYNM	15	99670374	Silent	SNP	T	TCGA-AK-3429-01A-02D-1386-10	56370921	99670374	2861018	26	2018											
RUNDC2A	0	broad.mit.edu;ucsc.edu	37	chr16	12142415	12142415	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcctctgccgtctccaTcctcatcaaacctgaacagg	9	9	6	17	1	4	1	2	1	2	0	7	1	6	1	6	1	4	0	6	1	2	0	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		C	12142415	C	C	12142415	3	2	34	1	0	0	0	0	1	0	0	0	13745	1435	50	3	712	3	RUNDC2A	16	12142415	Missense_Mutation	SNP	T	TCGA-AK-3429-01A-02D-1386-10		12142415	78212338	27	2019											
METT10D	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	2323872	2323872	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacttcctcttttccacaggGaactcgtttatgctggacct	7	14	8	12	1	1	0	0	0	1	0	4	3	3	2	3	2	2	2	3	2	2	5	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	2323872	G	A	2323872	3	1	34	1	0	0	0	0	1	0	0	0	9490	1174	41	2	611	2	METT10D	17	2323872	Missense_Mutation	SNP	G	TCGA-AK-3429-01A-02D-1386-10		2323872	78871338	28	2020											
ADNP2	22850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	77894266	77894266	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagcctcactcattcccccCctgctgctggccaatcccac	7	8	6	20	0	2	0	2	0	0	0	4	1	4	0	6	1	3	2	6	1	2	1	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	77894266	C	A	77894266	3	1	34	1	0	0	0	0	1	0	0	0	324	623	22	4	980	4	ADNP2	18	77894266	Missense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10		77894266	182982	29	2021											
LRRC8E	80131	broad.mit.edu	37	chr19	7964517	7964517	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccttcatgctgcacctcatCgatcagtacgactccctcta	8	11	6	16	2	4	0	3	0	1	0	6	2	5	0	3	0	3	3	3	0	2	3	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	7964517	T	T	7964517	2	4	34	1	0	0	0	0	0	0	0	1	9025	874	31	1		1	LRRC8E	19	7964517	Silent	SNP	C	TCGA-AK-3429-01A-02D-1386-10		7964517	51164466	30	2022											
DDA1	79016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17425185	17425185	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacctgcctacccgcgagtaCccgtctgaacagagtaagtg	10	8	10	13	3	1	2	0	1	1	1	1	3	1	2	4	0	5	2	4	0	5	4	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		A	17425185	C	A	17425185	4	1	34	1	0	0	0	0	0	1	0	0	4320	518	18	4	133	4	DDA1	19	17425185	Nonsense_Mutation	SNP	C	TCGA-AK-3429-01A-02D-1386-10	9460668	17425185	41703798	31	2023											
ZNF43	7594	broad.mit.edu	37	chr19	21992038	21992038	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaggattgaggacttgttAaaagctttgccacattcttc	11	14	9	7	0	1	1	0	1	1	0	2	3	1	3	1	2	2	3	1	2	3	7	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		G	21992038	G	G	21992038	2	3	34	1	0	0	0	0	0	0	0	1	17902	359	13	3		3	ZNF43	19	21992038	Silent	SNP	A	TCGA-AK-3429-01A-02D-1386-10	4566853	21992038	37136945	32	2024											
PCK1	5105	hgsc.bcm.edu;ucsc.edu	37	chr20	56138155	56138157	+	In_Frame_Del	DEL	ATC	ATC	-																															acctgcctgaccgcagagagAtcatctcctttggcagtggg																								novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	ATC	ATC	ATC	-	ATC	ATC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		-	56138157	ATC	-	56138155	7	5	34	1	0	1	0	1	0	0	0	0	11581	333	12	0	696	0	PCK1	20	56138155	In_Frame_Del	DEL	ATC	TCGA-AK-3429-01A-02D-1386-10		56138155	6887365	33	2025											
FAM3A	60343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153736831	153736831	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctcgaggcagatcttgggCccaatgacgttggcggcccc	6	8	13	14	3	1	2	0	1	1	1	3	3	2	2	4	4	0	2	4	4	1	2	novel		TCGA-AK-3429-01A-02D-1386-10	TCGA-AK-3429-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fa51dce9-2101-4af7-9280-4bad56b6848e	e287ef35-f81a-4d6f-a4d7-13871b8bf821		T	153736831	C	T	153736831	2	4	34	1	0	0	0	0	0	0	0	1	5556	726	26	2		2	FAM3A	23	153736831	Silent	SNP	C	TCGA-AK-3429-01A-02D-1386-10		153736831	1533729	34	2026											
KIAA1751	85452	broad.mit.edu;ucsc.edu	37	chr1	1919956	1919956	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccccagctcacctcatCttctcagtgaaaagctcttg	9	11	6	15	0	6	1	4	1	3	0	7	1	6	1	3	0	3	2	3	0	2	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	1919956	A	A	1919956	3	1	35	1	0	0	0	0	1	0	0	0	8256	912	32	4	2057	4	KIAA1751	1	1919956	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10		1919956	247330665	1	2027											
NBPF1	55672	broad.mit.edu;hgsc.bcm.edu	37	chr1	16913638	16913638	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcttcctcaaaggtgaTgttgatgttcttgtgaggct	6	18	11	6	0	3	3	1	3	2	0	4	3	4	3	1	2	0	3	1	2	1	5	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	16913638	T	G	16913638	3	3	35	1	0	0	0	0	1	0	0	0	10192	1464	51	5	2815	5	NBPF1	1	16913638	Missense_Mutation	SNP	T	TCGA-AK-3430-01A-01D-1251-10	14993682	16913638	232336983	2	2028											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19499967	19499967	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataggagctgatccggagcCgagaagaccatcgcagagtg	12	5	14	10	3	0	4	0	1	0	3	2	7	1	6	3	2	2	2	3	2	2	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	19499967	C	A	19499967	3	1	35	1	0	0	0	0	1	0	0	0	16903	652	23	4	12756	4	UBR4	1	19499967	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	2586329	19499967	229750654	3	2029											
ZCCHC17	51538	hgsc.bcm.edu;ucsc.edu	37	chr1	31836865	31836884	+	Frame_Shift_Del	DEL	AATTTTCTTTTCAGGAGAAG	AATTTTCTTTTCAGGAGAAG	-																															catacagtgttgatttttaaAattttcttttcaggagaaga																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	AATTTTCTTTTCAGGAGAAG	AATTTTCTTTTCAGGAGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	31836884	AATTTTCTTTTCAGGAGAAG	-	31836865	7	5	35	1	0	1	0	1	0	0	0	0	17584	29	1	0		0	ZCCHC17	1	31836865	Frame_Shift_Del	DEL	AATTTTCTTTTCAGGAGAAG	TCGA-AK-3430-01A-01D-1251-10	12336898	31836865	217413756	4	2030											
SGIP1	84251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67147913	67147913	+	Frame_Shift_Del	DEL	T	T	-																															cagaccttcattaaagatgaTtacttagaaacaatctcatc																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	67147913	T	-	67147913	7	5	35	1	0	1	0	1	0	0	0	0	14208	1490	52	0	1234	0	SGIP1	1	67147913	Frame_Shift_Del	DEL	T	TCGA-AK-3430-01A-01D-1251-10	35311048	67147913	182102708	5	2031											
WDR77	79084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111990200	111990200	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacaattcaacagcaccTgttgggggtagggtaaggaa	12	8	12	9	0	1	0	1	0	0	0	2	1	2	1	2	4	2	4	2	4	5	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	111990200	T	A	111990200	5	1	35	1	0	0	0	0	0	0	1	0	17326	1594	55	5	760	5	WDR77	1	111990200	Splice_Site	SNP	T	TCGA-AK-3430-01A-01D-1251-10	44842287	111990200	137260421	6	2032											
ROBLD3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156025137	156025137	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgctgccatagccagtaAcatctgggccgcctacgacc	9	6	9	17	3	1	0	0	0	1	0	1	1	1	0	6	1	4	2	6	1	3	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	156025137	A	C	156025137	3	2	35	1	0	0	0	0	1	0	0	0	13514	43	2	5	158	5	ROBLD3	1	156025137	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10	44034937	156025137	93225484	7	2033											
TDRD5	163589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	179620176	179620176	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacagagggccatgctattGtatgccgagaaaatatctct	13	10	10	8	1	1	2	0	0	1	2	2	4	1	2	2	1	3	2	2	1	6	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	179620176	G	C	179620176	3	2	35	1	0	0	0	0	1	0	0	0	15732	1377	48	4	2017	4	TDRD5	1	179620176	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	23595039	179620176	69630445	8	2034											
PTPRC	5788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	198723495	198723495	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttttcaagtggtaaaaGctctacgcaaagctaggcca	14	11	8	8	1	2	0	1	0	1	0	2	0	2	0	1	2	3	4	1	2	7	6	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	198723495	G	T	198723495	3	4	35	1	0	0	0	0	1	0	0	0	12799	971	34	4	3734	4	PTPRC	1	198723495	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	19103319	198723495	50527126	9	2035											
USH2A	7399	hgsc.bcm.edu;ucsc.edu	37	chr1	215823997	215823998	+	Frame_Shift_Ins	INS	-	-	T																															gactgacgatcccgttgggcINSttcccaggggcactgatgtt																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	215823998	-	T	215823997	7	5	35	1	0	1	1	0	0	0	0	0	17035	796	28	0	1360	0	USH2A	1	215823997	Frame_Shift_Ins	INS	-	TCGA-AK-3430-01A-01D-1251-10	17100502	215823997	33426624	10	2036											
ITSN2	50618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24469086	24469086	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatctctccttgccaccaAtcaggatcatctttgttcat	8	16	5	12	0	5	1	3	1	2	0	7	2	6	2	3	1	1	1	3	1	1	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	24469086	A	G	24469086	2	3	35	1	0	0	0	0	0	0	0	1	7927	98	4	3		3	ITSN2	2	24469086	Silent	SNP	A	TCGA-AK-3430-01A-01D-1251-10		24469086	218730287	11	2037											
ITGB6	3694	broad.mit.edu;ucsc.edu	37	chr2	160983104	160983104	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattcaccacagtcacagtCgccgttacctgtaacacaaa	14	8	5	14	2	2	0	2	0	0	0	3	0	2	0	3	0	2	2	3	0	3	3	rs143914557		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	160983104	A	A	160983104	3	1	35	1	0	0	0	0	1	0	0	0	7899	884	31	4	717	4	ITGB6	2	160983104	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	136514018	160983104	82216269	12	2038											
DHX15	1665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	24572443	24572443	+	Nonsense_Mutation	SNP	G	G	A																															cttgggtcctggtaatgatcGcatgtactccacacaccact																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	24572443	G	A	24572443	4	1	35	1	0	0	0	0	0	1	0	0	4501	1095	38	1	1900	1	DHX15	4	24572443	Nonsense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10		24572443	166581833	13	2039	29	2									
DHX15	1665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	24572444	24572444	+	Missense_Mutation	SNP	C	C	T																															ttgggtcctggtaatgatcgCatgtactccacacaccactg																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	24572444	C	T	24572444	3	4	35	1	0	0	0	0	1	0	0	0	4501	710	25	2	1901	2	DHX15	4	24572444	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	1	24572444	166581832	14	2040	29	2									
EGF	1950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	110909739	110909739	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcataattttgcccacaGatatagatgaatgtgagatg	14	13	9	5	0	1	4	1	2	0	3	1	5	1	4	1	0	1	1	1	0	4	6	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	110909739	G	T	110909739	5	4	35	1	0	0	0	0	0	0	1	0	4962	956	33	4	2678	4	EGF	4	110909739	Splice_Site	SNP	G	TCGA-AK-3430-01A-01D-1251-10	86337295	110909739	80244537	15	2041											
C4orf31	0	broad.mit.edu;ucsc.edu	37	chr4	121958431	121958431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataaaagcatcatctgcaCtcagttttgcttccactgca	11	13	5	12	0	4	0	3	0	1	0	5	0	5	0	1	0	4	5	1	0	2	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	121958431	A	A	121958431	3	1	35	1	0	0	0	0	1	0	0	0	2261	565	20	4	1015	4	C4orf31	4	121958431	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	11048692	121958431	69195845	16	2042											
C5orf42	65250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37168941	37168941	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaatgacaatcttgggtaTtttctttcttctgctatagg	9	18	8	6	0	4	1	0	1	4	0	4	1	4	1	0	2	1	3	0	2	5	9	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	37168941	T	C	37168941	2	2	35	1	0	0	0	0	0	0	0	1	2301	1490	52	3		3	C5orf42	5	37168941	Silent	SNP	T	TCGA-AK-3430-01A-01D-1251-10		37168941	143746319	17	2043											
CD180	4064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66479407	66479407	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaaatcgaggagttctaGctgaggacattctttgaatg	11	12	11	7	1	2	2	0	2	2	0	3	5	2	4	1	2	2	2	1	2	3	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	66479407	G	A	66479407	2	1	35	1	0	0	0	0	0	0	0	1	2972	962	34	2		2	CD180	5	66479407	Silent	SNP	G	TCGA-AK-3430-01A-01D-1251-10	29310466	66479407	114435853	18	2044											
JMY	133746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	78573870	78573870	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacagccattccgagacatGagagaacttgccatgctacg	12	8	9	12	2	0	3	0	1	0	2	1	5	1	3	3	0	6	1	3	0	3	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	78573870	G	A	78573870	3	1	35	1	0	0	0	0	1	0	0	0	7957	1290	45	2	1176	2	JMY	5	78573870	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	12094463	78573870	102341390	19	2045											
SHROOM1	134549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132160424	132160424	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccaggcaggcacaatgcagGtctctgagaccctctgttca	9	8	11	13	0	3	1	1	1	2	1	4	2	3	1	2	3	1	4	2	3	1	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	132160424	G	A	132160424	3	1	35	1	0	0	0	0	1	0	0	0	14295	1261	44	2	1454	2	SHROOM1	5	132160424	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	53586554	132160424	48754836	20	2046											
PCDHB3	56132	hgsc.bcm.edu	37	chr5	140481633	140481633	+	Frame_Shift_Del	DEL	C	C	-																															ccgcgagaacaacagccccgCcctgcacatcggcagtgtca																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	140481633	C	-	140481633	7	5	35	1	0	1	0	1	0	0	0	0	11543	739	26	0	1402	0	PCDHB3	5	140481633	Frame_Shift_Del	DEL	C	TCGA-AK-3430-01A-01D-1251-10	8321209	140481633	40433627	21	2047											
PPARGC1B	133522	broad.mit.edu;hgsc.bcm.edu	37	chr5	149212567	149212567	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcccccacagacccctgagCcactccccaaggcctgcagc	8	4	8	21	0	0	2	0	1	0	1	1	2	1	2	8	1	4	1	8	1	1	0	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	149212567	C	T	149212567	3	4	35	1	0	0	0	0	1	0	0	0	12301	739	26	2	956	2	PPARGC1B	5	149212567	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	8730934	149212567	31702693	22	2048											
EBF1	1879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	158250251	158250251	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctccgcccatgcttggaAttattatggacaaacatgtt	10	12	8	11	1	0	0	0	0	0	0	1	2	1	2	3	2	2	2	3	2	4	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	158250251	A	G	158250251	2	3	35	1	0	0	0	0	0	0	0	1	4880	98	4	3		3	EBF1	5	158250251	Silent	SNP	A	TCGA-AK-3430-01A-01D-1251-10	9037684	158250251	22665009	23	2049											
UBLCP1	134510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	158710292	158710292	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaattaactcagtacctcAaggagatagcaaaattagat	19	10	6	6	0	2	2	2	0	0	2	2	3	2	2	1	1	3	2	1	1	9	5	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	158710292	A	C	158710292	3	2	35	1	0	0	0	0	1	0	0	0	16890	131	5	5	908	5	UBLCP1	5	158710292	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10	460041	158710292	22204968	24	2050											
SLC17A3	10786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25850134	25850134	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgctgtgatatagccggaAttgaggtaaggcagagacac	12	9	14	6	1	0	3	0	2	0	1	0	5	0	4	1	3	2	4	1	3	4	5	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	25850134	A	G	25850134	2	3	35	1	0	0	0	0	0	0	0	1	14420	98	4	3		3	SLC17A3	6	25850134	Silent	SNP	A	TCGA-AK-3430-01A-01D-1251-10		25850134	145264933	25	2051											
IL6	3569	hgsc.bcm.edu;ucsc.edu	37	chr7	22771126	22771126	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgcaggacatgacaacTcatctcattctgcgcagctt	9	11	9	12	1	3	1	2	1	2	0	4	2	3	2	0	2	4	4	0	2	1	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	22771126	T	G	22771126	2	3	35	1	0	0	0	0	0	0	0	1	7701	1538	54	5		5	IL6	7	22771126	Silent	SNP	T	TCGA-AK-3430-01A-01D-1251-10		22771126	136367537	26	2052											
PTPN12	5782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	77256021	77256021	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttaaatgtttgtttttcaGttgccttgttgaaggggatg	7	20	11	3	0	1	1	1	1	0	0	1	2	1	2	1	2	1	4	1	2	3	8	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	77256021	G	A	77256021	5	1	35	1	0	0	0	0	0	0	1	0	12783	1043	36	2	1075	2	PTPN12	7	77256021	Splice_Site	SNP	G	TCGA-AK-3430-01A-01D-1251-10	54484895	77256021	81882642	27	2053											
CNTNAP2	26047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	147336210	147336210	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccacagaggacaaagtgtGgaccatagtgtctcatgact	12	8	10	11	0	1	2	1	1	1	1	2	4	1	4	3	2	0	0	3	2	2	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	147336210	G	A	147336210	4	1	35	1	0	0	0	0	0	1	0	0	3647	1357	47	2	1960	2	CNTNAP2	7	147336210	Nonsense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	70080189	147336210	11802453	28	2054											
LONRF1	91694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	12592860	12592860	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacaacgctcaagacaatTcttacagaacgaatgtccgc	16	8	6	11	3	2	2	1	0	1	2	3	3	3	2	1	0	4	1	1	0	8	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	12592860	T	G	12592860	3	3	35	1	0	0	0	0	1	0	0	0	8894	1783	62	5	844	5	LONRF1	8	12592860	Missense_Mutation	SNP	T	TCGA-AK-3430-01A-01D-1251-10		12592860	133771162	29	2055											
MSR1	4481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	15977930	15977930	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttctttaaattaccttGtccaaagtgagctgccttgt	9	17	7	8	0	1	1	0	1	1	0	2	2	2	1	3	0	3	1	3	0	4	7	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	15977930	G	C	15977930	3	2	35	1	0	0	0	0	1	0	0	0	9886	1386	48	4	144	4	MSR1	8	15977930	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	3385070	15977930	130386092	30	2056											
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	61763106	61763106	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcgctgtgctttctggaacGagtcggtatgcctgatgcca	6	11	13	11	4	1	1	0	1	1	0	2	3	1	2	2	2	4	3	2	2	2	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	61763106	G	A	61763106	3	1	35	1	0	0	0	0	1	0	0	0	3330	1058	37	1	5557	1	CHD7	8	61763106	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	45785176	61763106	84600916	31	2057											
SYBU	55638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110587762	110587762	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggaatgcacaagctccagGtcaccagattctgtggtggt	9	10	13	9	0	2	1	1	0	1	1	3	2	3	2	2	4	2	2	2	4	2	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	110587762	G	A	110587762	2	1	35	1	0	0	0	0	0	0	0	1	15426	1252	44	2		2	SYBU	8	110587762	Silent	SNP	G	TCGA-AK-3430-01A-01D-1251-10	48824656	110587762	35776260	32	2058											
ZMYND11	10771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	225962	225962	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaacaggtcatggcacgtTtaacaaaaagacgacaggcg	16	6	11	8	3	1	1	1	0	0	1	1	2	1	1	0	3	2	3	0	3	5	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	225962	T	C	225962	2	2	35	1	0	0	0	0	0	0	0	1	17705	1838	64	3		3	ZMYND11	10	225962	Silent	SNP	T	TCGA-AK-3430-01A-01D-1251-10		225962	135308785	33	2059											
DRGX	644168	broad.mit.edu;ucsc.edu	37	chr10	50574424	50574424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcaagagcacagtgggcCccctggaaaaggaaaaacaa	17	2	12	10	0	0	1	0	0	0	1	0	3	0	3	2	3	3	3	2	3	6	0	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	50574424	A	A	50574424	3	1	35	1	0	0	0	0	1	0	0	0	4763	623	22	4	265	4	DRGX	10	50574424	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	50348462	50574424	84960323	34	2060											
CDHR1	92211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	85960393	85960393	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcatctttaaggtccatGcagtggacagggacacaggc	11	8	12	10	0	2	0	1	0	1	0	3	2	3	2	1	4	1	2	1	4	1	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	85960393	G	T	85960393	3	4	35	1	0	0	0	0	1	0	0	0	3118	1319	46	4	497	4	CDHR1	10	85960393	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	35385969	85960393	49574354	35	2061											
EXOC6	54536	hgsc.bcm.edu;ucsc.edu	37	chr10	94669364	94669364	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcgaaaacattctgacaaAataggtgaaacagcaatgaa	20	8	7	6	1	1	3	0	3	1	0	2	4	1	3	0	1	3	1	0	1	8	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	94669364	A	C	94669364	3	2	35	1	0	0	0	0	1	0	0	0	5308	11	1	5	751	5	EXOC6	10	94669364	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10	8708971	94669364	40865383	36	2062											
LRP4	4038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46898361	46898361	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatcctgtgcagtgtgcTgtcagaccagtacacctttc	8	12	9	12	0	1	2	1	1	0	1	3	2	2	2	3	0	3	3	3	0	1	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	46898361	T	G	46898361	3	3	35	1	0	0	0	0	1	0	0	0	8959	1580	55	5	2479	5	LRP4	11	46898361	Missense_Mutation	SNP	T	TCGA-AK-3430-01A-01D-1251-10		46898361	88108155	37	2063											
ZFP91	80829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	58381764	58381764	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccccatccctcctgtggAcgactcttcaggcttcagaa	7	11	8	15	1	3	1	2	0	1	1	6	3	6	2	4	2	0	1	4	2	1	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	58381764	A	G	58381764	2	3	35	1	0	0	0	0	0	0	0	1	17654	262	10	3		3	ZFP91	11	58381764	Silent	SNP	A	TCGA-AK-3430-01A-01D-1251-10	11483403	58381764	76624752	38	2064											
POLD3	10714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	74340306	74340306	+	Frame_Shift_Del	DEL	A	A	-																															tgatgagacaaaggaaactgAaaacatgaggaaaaagagga																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	74340306	A	-	74340306	7	5	35	1	0	1	0	1	0	0	0	0	12192	246	9	0	978	0	POLD3	11	74340306	Frame_Shift_Del	DEL	A	TCGA-AK-3430-01A-01D-1251-10	15958542	74340306	60666210	39	2065											
SLCO2B1	11309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	74876867	74876867	+	Frame_Shift_Del	DEL	T	T	-																															ttgattgtgtttgtgagctaTtttggcagccgggtgcaccg																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	74876867	T	-	74876867	7	5	35	1	0	1	0	1	0	0	0	0	14729	1500	52	0	335	0	SLCO2B1	11	74876867	Frame_Shift_Del	DEL	T	TCGA-AK-3430-01A-01D-1251-10	536561	74876867	60129649	40	2066											
BCO2	83875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	112072899	112072899	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agaatctcaggaaggctgggGaagggcttgatcaggtaaac	13	7	15	6	0	2	2	2	1	1	1	3	4	2	4	0	6	1	3	0	6	5	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	112072899	G	C	112072899	3	2	35	1	0	0	0	0	1	0	0	0	1385	1175	41	4	1210	4	BCO2	11	112072899	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	37196032	112072899	22933617	41	2067											
HYOU1	10525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118916498	118916498	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctccatcctcacctgctCcaggacctcctaactccaaa	9	8	5	19	1	1	0	1	0	0	0	6	1	6	1	7	2	2	2	7	2	2	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	118916498	C	A	118916498	3	1	35	1	0	0	0	0	1	0	0	0	7470	855	30	4	74	4	HYOU1	11	118916498	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	6843599	118916498	16090018	42	2068											
OR10G4	390264	broad.mit.edu;hgsc.bcm.edu	37	chr11	123886795	123886795	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctactgtggacccaacCagatccagcactacttctgt	9	10	7	15	0	1	1	0	0	1	1	2	2	2	2	4	1	5	1	4	1	3	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	123886795	C	T	123886795	4	4	35	1	0	0	0	0	0	1	0	0	10901	595	21	2	516	2	OR10G4	11	123886795	Nonsense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	4970297	123886795	11119721	43	2069											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu	37	chr12	49444844	49444844	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcagctcctcaggtgcaggGcattggcctggctcctcagg	5	8	15	13	0	2	0	2	0	0	0	4	0	4	0	3	6	2	5	3	6	0	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	49444844	G	T	49444844	4	4	35	1	0	0	0	0	0	1	0	0	9621	1195	42	4	14171	4	MLL2	12	49444844	Nonsense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10		49444844	84407051	44	2070											
PDE1B	5153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54967242	54967242	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagatgaacattttcatcAacctcaccaaggatgagttt	14	12	7	8	0	3	3	3	3	0	1	3	5	3	4	2	1	2	1	2	1	3	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	54967242	A	T	54967242	3	4	35	1	0	0	0	0	1	0	0	0	11634	130	5	5	1027	5	PDE1B	12	54967242	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10	5522398	54967242	78884653	45	2071											
RASSF9	9182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	86199472	86199472	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgcatattgggctgctCatctccccacgctttccaaa	10	12	6	13	1	2	0	1	0	1	0	4	0	3	0	3	1	2	4	3	1	3	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	86199472	C	A	86199472	4	1	35	1	0	0	0	0	0	1	0	0	13095	835	29	4	995	4	RASSF9	12	86199472	Nonsense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	31232230	86199472	47652423	46	2072											
FREM2	341640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	39452971	39452971	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttactgcttaaaggacAaagctcagccagagacacaa	15	8	7	11	0	1	1	1	0	0	1	2	3	2	2	2	1	4	2	2	1	5	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	39452971	A	G	39452971	3	3	35	1	0	0	0	0	1	0	0	0	6045	131	5	3	8953	3	FREM2	13	39452971	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10		39452971	75716907	47	2073											
TPP2	7174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103275378	103275378	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaacctgctctccattGtgaccagtggaggtatccca	10	10	10	11	0	1	1	0	1	1	0	3	3	2	3	4	3	2	2	4	3	2	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	103275378	G	T	103275378	3	4	35	1	0	0	0	0	1	0	0	0	16411	1377	48	4	794	4	TPP2	13	103275378	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	63822407	103275378	11894500	48	2074											
RPGRIP1	57096	hgsc.bcm.edu;ucsc.edu	37	chr14	21793467	21793467	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaacccagcctacaggcGtgcaataaacgaaagaaagc	19	4	8	10	2	0	1	0	0	0	1	0	2	0	1	2	1	6	1	2	1	8	3	rs35207255	bycluster;by1000genomes	TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	21793467	G	A	21793467	2	1	35	1	0	0	0	0	0	0	0	1	13551	1132	40	1		1	RPGRIP1	14	21793467	Silent	SNP	G	TCGA-AK-3430-01A-01D-1251-10		21793467	85556073	49	2075											
PRKD1	5587	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	30132916	30132916	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagccataccagaaggggctCatcaggggcacttgtagaga	13	6	13	9	0	2	2	2	0	0	2	2	3	2	2	2	4	2	3	2	4	4	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	30132916	C	T	30132916	3	4	35	1	0	0	0	0	1	0	0	0	12520	835	29	2	2113	2	PRKD1	14	30132916	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	8339449	30132916	77216624	50	2076											
STON2	85439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	81736986	81736986	+	Missense_Mutation	SNP	G	G	A																															gtgaacaaatggagttggaaGcattagccagatgcttccca																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	81736986	G	A	81736986	3	1	35	1	0	0	0	0	1	0	0	0	15319	971	34	2	78	2	STON2	14	81736986	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	51604070	81736986	25612554	51	2077	30	2									
STON2	85439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	81736987	81736987	+	Missense_Mutation	SNP	C	C	T																															tgaacaaatggagttggaagCattagccagatgcttcccaa																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	81736987	C	T	81736987	3	4	35	1	0	0	0	0	1	0	0	0	15319	710	25	2	79	2	STON2	14	81736987	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	1	81736987	25612553	52	2078	30	2									
FBN1	2200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48764807	48764807	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcgcattcacagcggtatCctcctggtgcattgaggcac	7	11	11	12	2	1	1	1	1	0	0	4	1	3	1	2	3	2	4	2	3	1	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	48764807	C	A	48764807	3	1	35	1	0	0	0	0	1	0	0	0	5702	855	30	4	4466	4	FBN1	15	48764807	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10		48764807	53766585	53	2079											
KIF22	3835	broad.mit.edu;hgsc.bcm.edu	37	chr16	29810383	29810383	+	Frame_Shift_Del	DEL	A	A	-																															tgattccgggtctctcccagAagcccatcagtagctttgct																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	29810383	A	-	29810383	7	5	35	1	0	1	0	1	0	0	0	0	8290	247	9	0	655	0	KIF22	16	29810383	Frame_Shift_Del	DEL	A	TCGA-AK-3430-01A-01D-1251-10		29810383	60544370	54	2080											
RAB11FIP4	84440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29857420	29857420	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcctctacgaagcaaaaaAcctctttgctgcccagacta	13	8	6	14	1	2	1	0	0	2	1	2	2	2	1	3	0	6	2	3	0	6	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	29857420	A	G	29857420	3	3	35	1	0	0	0	0	1	0	0	0	12898	43	2	3	1784	3	RAB11FIP4	17	29857420	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10		29857420	51337790	55	2081											
GGNBP2	79893	hgsc.bcm.edu;ucsc.edu	37	chr17	34913158	34913158	+	Frame_Shift_Del	DEL	C	C	-																															tgatgcaaagaagctttataCattattttatgtacatgggt																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	34913158	C	-	34913158	7	5	35	1	0	1	0	1	0	0	0	0	6359	478	17	0	420	0	GGNBP2	17	34913158	Frame_Shift_Del	DEL	C	TCGA-AK-3430-01A-01D-1251-10	5055738	34913158	46282052	56	2082											
HAP1	9001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39889026	39889026	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtgatctttttgactGgcggaggtaggttaggacac	7	12	15	7	1	1	2	0	2	1	0	1	4	1	4	1	6	0	2	1	6	2	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	39889026	G	A	39889026	3	1	35	1	0	0	0	0	1	0	0	0	6953	1348	47	2	1429	2	HAP1	17	39889026	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	4975868	39889026	41306184	57	2083											
MTMR4	9110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56581545	56581546	+	Frame_Shift_Ins	INS	-	-	GT																															ttgttggccaggaaggtgccINSgtagaggcaggagtatgtgt																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		GT	56581546	-	GT	56581545	7	5	35	1	0	1	1	0	0	0	0	0	9946	652	23	0	2089	0	MTMR4	17	56581545	Frame_Shift_Ins	INS	-	TCGA-AK-3430-01A-01D-1251-10	16692519	56581545	24613665	58	2084											
LONP1	9361	broad.mit.edu;hgsc.bcm.edu	37	chr19	5699170	5699170	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggccatagaagcagaggAtcttgccctgggtggagccg	8	6	18	9	1	1	2	0	0	1	2	1	4	1	4	3	5	3	1	3	5	2	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	5699170	A	T	5699170	3	4	35	1	0	0	0	0	1	0	0	0	8892	333	12	5	1362	5	LONP1	19	5699170	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10		5699170	53429813	59	2085											
TMEM145	284339	hgsc.bcm.edu;ucsc.edu	37	chr19	42821885	42821886	+	Frame_Shift_Ins	INS	-	-	AC																															tgacccaggccaggtactgtINSacacgtatgagtcgccggcc																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		AC	42821886	-	AC	42821885	7	5	35	1	0	1	1	0	0	0	0	0	16058	1638	57	0	971	0	TMEM145	19	42821885	Frame_Shift_Ins	INS	-	TCGA-AK-3430-01A-01D-1251-10	37122715	42821885	16307098	60	2086											
CYTH2	9266	broad.mit.edu	37	chr19	48977567	48977567	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaacgagggcggggacCtgcctgaggagctgctcagg	8	5	17	11	2	2	1	2	1	0	0	2	4	2	3	2	5	4	3	2	5	1	0	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	48977567	T	T	48977567	2	4	35	1	0	0	0	0	0	0	0	1	4204	680	24	2		2	CYTH2	19	48977567	Silent	SNP	C	TCGA-AK-3430-01A-01D-1251-10	6155682	48977567	10151416	61	2087											
KIR3DL3	100133046	broad.mit.edu	37	chr19	55239272	55239272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcaactattccatgggtcCcatgacacctgcccttgcag	8	10	9	14	0	1	1	1	1	0	0	3	1	3	1	4	2	3	1	4	2	2	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	55239272	T	T	55239272	3	4	35	1	0	0	0	0	1	0	0	0	8322	623	22	2	565	2	KIR3DL3	19	55239272	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	6261705	55239272	3889711	62	2088											
ZNF548	147694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57910589	57910590	+	Frame_Shift_Ins	INS	-	-	T																															agaaaggccgtatgagtgcaINSgggaatgtgggaaattcttt																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	57910590	-	T	57910589	7	5	35	1	0	1	1	0	0	0	0	0	17979	179	7	0	984	0	ZNF548	19	57910589	Frame_Shift_Ins	INS	-	TCGA-AK-3430-01A-01D-1251-10	2671317	57910589	1218394	63	2089											
ZNF343	79175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2464292	2464292	+	Frame_Shift_Del	DEL	A	A	-																															gcctcgcccacactccctgcAaacataaggcttctcatcca																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	2464292	A	-	2464292	7	5	35	1	0	1	0	1	0	0	0	0	17857	130	5	0	488	0	ZNF343	20	2464292	Frame_Shift_Del	DEL	A	TCGA-AK-3430-01A-01D-1251-10		2464292	60561228	64	2090											
C20orf94	0	broad.mit.edu;hgsc.bcm.edu	37	chr20	10603312	10603312	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtttgtttcagtgtgaAaagaactgaaacaaaaagca	16	13	8	4	0	1	3	1	2	0	1	1	3	1	3	0	0	3	3	0	0	6	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	10603312	A	C	10603312	3	2	35	1	0	0	0	0	1	0	0	0	2121	14	1	5	538	5	C20orf94	20	10603312	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10	8139020	10603312	52422208	65	2091											
NKX2-2	4821	broad.mit.edu	37	chr20	21493005	21493005	+	Frame_Shift_Del	DEL	G	-	-																															actcgccgctttcgcttcttGccggcgtcccccccgccgcc																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		-	21493005	-	-	21493005	7	5	35	1	0	1	0	1	0	0	0	0	10450	1306	46	0	447	0	NKX2-2	20	21493005	Frame_Shift_Del	DEL	G	TCGA-AK-3430-01A-01D-1251-10	10889693	21493005	41532515	66	2092											
GNAS	2778	broad.mit.edu	37	chr20	57429460	57429460	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctctccggggtacggatcCcctgccgccggggcagcctc	3	6	13	19	4	1	0	0	0	1	0	4	1	2	1	7	5	3	2	7	5	1	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	57429460	A	A	57429460	2	1	35	1	0	0	0	0	0	0	0	1	6510	623	22	4		4	GNAS	20	57429460	Silent	SNP	C	TCGA-AK-3430-01A-01D-1251-10	35936455	57429460	5596060	67	2093											
TMPRSS15	5651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	19725219	19725219	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgaattaaatgaattataCctgaagcattgccaaaagtg	16	12	7	6	0	1	3	0	3	1	0	1	3	1	3	2	0	3	1	2	0	9	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	19725219	C	A	19725219	5	1	35	1	0	0	0	0	0	0	1	0	16245	521	18	4	1951	4	TMPRSS15	21	19725219	Splice_Site	SNP	C	TCGA-AK-3430-01A-01D-1251-10		19725219	28404676	68	2094											
GAB4	128954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	17472966	17472966	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggttcaggttgatggtgCgcaggggcttcttggagcca	7	10	17	7	1	2	2	1	1	1	1	2	3	2	3	1	6	2	4	1	6	0	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	17472966	C	G	17472966	3	3	35	1	0	0	0	0	1	0	0	0	6151	768	27	4	1485	4	GAB4	22	17472966	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10		17472966	33831600	69	2095											
IGLL1	3543	broad.mit.edu;ucsc.edu	37	chr22	23915501	23915501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccacggtgctcccttcGtgcatgacctggcagctgta	5	12	10	14	2	1	1	0	1	1	0	4	1	2	1	3	2	3	5	3	2	1	3	rs1064418	bycluster;byfrequency	TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	23915501	A	A	23915501	2	1	35	1	0	0	0	0	0	0	0	1	7593	1136	40	1		1	IGLL1	22	23915501	Silent	SNP	G	TCGA-AK-3430-01A-01D-1251-10	6442535	23915501	27389065	70	2096											
SGSM1	129049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	25282686	25282686	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcgggatgacggaaacagaAaggaaagaggtcggttacct	14	7	14	6	3	0	3	0	1	0	2	2	6	0	6	1	5	2	1	1	5	4	2	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		C	25282686	A	C	25282686	3	2	35	1	0	0	0	0	1	0	0	0	14224	11	1	5	1992	5	SGSM1	22	25282686	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10	1367185	25282686	26021880	71	2097											
HDAC10	83933	broad.mit.edu	37	chr22	50689480	50689480	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgcgccgtggtcaccCtgggttcccaaacgccctcg	5	8	12	16	4	1	0	1	0	0	0	3	0	2	0	4	3	2	2	4	3	1	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	50689480	A	A	50689480	1	1	35	1	0	0	0	0	0	0	0	0	7005	696	24	4		4	HDAC10	22	50689480	Translation_Start_Site	SNP	C	TCGA-AK-3430-01A-01D-1251-10	25406794	50689480	615086	72	2098											
EGFL6	25975	broad.mit.edu;hgsc.bcm.edu	37	chrX	13636139	13636139	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagccctgaagaatgacAtagaggagcgaagcctgcga	16	4	13	8	2	0	5	0	2	0	3	0	8	0	6	2	1	4	0	2	1	5	1	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	13636139	A	T	13636139	3	4	35	1	0	0	0	0	1	0	0	0	4963	217	8	5	1099	5	EGFL6	23	13636139	Missense_Mutation	SNP	A	TCGA-AK-3430-01A-01D-1251-10		13636139	141634421	73	2099											
SHROOM4	57477	hgsc.bcm.edu	37	chrX	50350758	50350759	+	In_Frame_Ins	INS	-	-	TGCTGCTGCTGT																															cctcctcctcctgttgcttcINStgctgctgctgttgctgctt																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		TGCTGCTGCTGT	50350759	-	TGCTGCTGCTGT	50350758	7	5	35	1	0	1	1	0	0	0	0	0	14298	912	32	0	1113	0	SHROOM4	23	50350758	In_Frame_Ins	INS	-	TCGA-AK-3430-01A-01D-1251-10	36714619	50350758	104919802	74	2100											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53223905	53223905	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttctccttctgttccccctCcttgaaggccacgatctgcc	4	13	6	18	1	3	1	0	1	3	0	6	2	5	1	6	1	1	1	6	1	1	4	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	53223905	C	T	53223905	3	4	35	1	0	0	0	0	1	0	0	0	8135	864	30	2	1342	2	KDM5C	23	53223905	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	2873147	53223905	102046655	75	2101											
BHLHB9	80823	broad.mit.edu;hgsc.bcm.edu	37	chrX	102004560	102004560	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgaaaaaaataggcccaagGactggtctgaggtaactatc	16	8	10	7	0	1	2	0	2	1	0	2	3	1	3	1	4	1	1	1	4	7	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		A	102004560	G	A	102004560	3	1	35	1	0	0	0	0	1	0	0	0	1420	1174	41	2	639	2	BHLHB9	23	102004560	Missense_Mutation	SNP	G	TCGA-AK-3430-01A-01D-1251-10	48780655	102004560	53266000	76	2102											
HCFC1	3054	hgsc.bcm.edu	37	chrX	153222971	153222972	+	Frame_Shift_Ins	INS	-	-	G																															caggattgttcccgctggcaINSggggccctttggtctgaaag																								novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		G	153222972	-	G	153222971	7	5	35	1	0	1	1	0	0	0	0	0	6991	188	7	0	4016	0	HCFC1	23	153222971	Frame_Shift_Ins	INS	-	TCGA-AK-3430-01A-01D-1251-10	51218411	153222971	2047589	77	2103											
RAB39B	116442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	154490261	154490261	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttctccacattaatggCatctcgggctgacgtttcaa	8	13	9	11	2	3	1	1	1	2	0	5	1	3	1	1	3	0	4	1	3	2	3	novel		TCGA-AK-3430-01A-01D-1251-10	TCGA-AK-3430-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d9a311d-7ca1-4021-95dc-0d6716917938	239a2754-4a2e-48d1-89eb-3c91161fb67e		T	154490261	C	T	154490261	3	4	35	1	0	0	0	0	1	0	0	0	12932	710	25	2	176	2	RAB39B	23	154490261	Missense_Mutation	SNP	C	TCGA-AK-3430-01A-01D-1251-10	1267290	154490261	780299	78	2104											
VHL	7428	hgsc.bcm.edu	37	chr3	10183746	10183746	+	Frame_Shift_Del	DEL	C	C	-																															ggtgaactcgcgcgagccctCccaggtcatcttctgcaatc																								novel		TCGA-AK-3430-01A-01W-1244-10	TCGA-AK-3430-10A-01W-1244-10	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	e06607ae-d7b1-4109-9e18-f42b3cc518e2	012aa7b4-8d61-4f85-9a3a-64cdb9f62ac0		-	10183746	C	-	10183746	7	5	36	1	0	1	0	1	0	0	0	0	17161	855	30	0	217	0	VHL	3	10183746	Frame_Shift_Del	DEL	C	TCGA-AK-3430-01A-01W-1244-10		10183746	187838684	1	2105											
MED18	54797	hgsc.bcm.edu;ucsc.edu	37	chr1	28657186	28657186	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagacaccatggaggcacctCcagtcaccatgatgcctgtc	10	8	9	14	0	1	2	1	1	0	1	3	3	2	3	5	2	1	1	5	2	1	1	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	28657186	C	A	28657186	3	1	37	1	0	0	0	0	1	0	0	0	9436	855	30	4	15	4	MED18	1	28657186	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10		28657186	220593435	1	2106											
AK5	26289	hgsc.bcm.edu	37	chr1	77759516	77759516	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttccatatcggcggtatGaccggctccctccaatccat	8	11	7	15	3	0	1	0	1	0	0	5	1	4	1	5	3	0	2	5	3	3	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	77759516	G	T	77759516	3	4	37	1	0	0	0	0	1	0	0	0	443	1290	45	4	296	4	AK5	1	77759516	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	49102330	77759516	171491105	2	2107											
GBP4	115361	hgsc.bcm.edu;ucsc.edu	37	chr1	89656967	89656967	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagtgacaatgattcccTctctcagggtcttggtcttt	6	16	8	11	0	4	2	1	2	3	0	7	2	6	2	2	2	0	0	2	2	1	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	89656967	T	A	89656967	3	1	37	1	0	0	0	0	1	0	0	0	6276	1551	54	5	1053	5	GBP4	1	89656967	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	11897451	89656967	159593654	3	2108											
CCDC18	343099	hgsc.bcm.edu	37	chr1	93672722	93672722	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggatcatggcagtgaaaAattcagaagtcatggcacaa	17	8	10	6	0	3	2	3	1	0	1	3	3	3	3	0	3	0	2	0	3	5	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	93672722	A	C	93672722	3	2	37	1	0	0	0	0	1	0	0	0	2794	14	1	5	1364	5	CCDC18	1	93672722	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	4015755	93672722	155577899	4	2109											
C1orf161	0	hgsc.bcm.edu	37	chr1	116670806	116670806	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgttcaaattatcactGgcagctgagcttcctccgtg	7	12	10	12	1	2	1	2	1	0	0	4	1	4	1	3	2	2	4	3	2	2	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	116670806	G	A	116670806	4	1	37	1	0	0	0	0	0	1	0	0	2009	1357	47	2	719	2	C1orf161	1	116670806	Nonsense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	22998084	116670806	132579815	5	2110											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144864284	144864284	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtgggatcgagaggaCagcagagcctccctcaggct	10	6	15	10	1	1	3	1	1	0	2	3	6	2	5	2	4	2	2	2	4	1	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	144864284	C	G	144864284	2	3	37	1	0	0	0	0	0	0	0	1	11643	465	17	4		4	PDE4DIP	1	144864284	Silent	SNP	C	TCGA-AK-3431-01A-02D-1361-10	28193478	144864284	104386337	6	2111											
NCSTN	23385	hgsc.bcm.edu	37	chr1	160313253	160313253	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctccttcgccttctgtctTtctgcgtcctactagcaggt	3	16	8	14	2	4	0	0	0	4	0	7	0	5	0	3	1	3	1	3	1	2	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	160313253	T	A	160313253	3	1	37	1	0	0	0	0	1	0	0	0	10241	1841	64	5	69	5	NCSTN	1	160313253	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	15448969	160313253	88937368	7	2112											
PIK3C2B	5287	hgsc.bcm.edu	37	chr1	204399130	204399130	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctcggccaccgcctcTccccgggagcggccgatcac	4	4	12	21	7	2	0	1	0	1	0	4	2	2	1	7	3	1	1	7	3	0	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	204399130	T	G	204399130	2	3	37	1	0	0	0	0	0	0	0	1	11910	1538	54	5		5	PIK3C2B	1	204399130	Silent	SNP	T	TCGA-AK-3431-01A-02D-1361-10	44085877	204399130	44851491	8	2113											
LPIN1	23175	hgsc.bcm.edu;ucsc.edu	37	chr2	11932122	11932122	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaggggaagaaacaccaCaatcaaggaggtaagcccag	17	3	13	8	0	1	1	1	0	0	1	1	4	1	4	2	5	2	1	2	5	5	1	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	11932122	C	T	11932122	3	4	37	1	0	0	0	0	1	0	0	0	8918	478	17	2	1730	2	LPIN1	2	11932122	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10		11932122	231267251	9	2114											
ZC3H6	376940	hgsc.bcm.edu;ucsc.edu	37	chr2	113080286	113080286	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaattagaggaacttagaAagcgtggcataactcctctt	14	10	10	7	1	1	3	0	0	1	3	2	5	2	4	1	2	3	1	1	2	6	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	113080286	A	G	113080286	3	3	37	1	0	0	0	0	1	0	0	0	17570	15	1	3	1181	3	ZC3H6	2	113080286	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	101148164	113080286	130119087	10	2115											
ZNF804A	91752	hgsc.bcm.edu;ucsc.edu	37	chr2	185800961	185800961	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaaaactaactcttttcatCcaccagaggcaatgtgcaga	15	9	7	10	0	2	3	1	0	1	3	3	3	3	3	2	1	3	2	2	1	4	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	185800961	C	A	185800961	3	1	37	1	0	0	0	0	1	0	0	0	18169	855	30	4	852	4	ZNF804A	2	185800961	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	72720675	185800961	57398412	11	2116											
MOBKL3	0	hgsc.bcm.edu	37	chr2	198380863	198380863	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggaacaggccgggcaccaAggcgcaggtaccatgtctgc	9	4	15	13	3	1	0	0	0	1	0	1	1	1	1	3	5	3	3	3	5	3	1	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	198380863	A	T	198380863	3	4	37	1	0	0	0	0	1	0	0	0	9687	72	3	5	55	5	MOBKL3	2	198380863	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	12579902	198380863	44818510	12	2117											
STRADB	55437	hgsc.bcm.edu;ucsc.edu	37	chr2	202340447	202340447	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggttgaactatctgcaccAaaatggctgtattcacaggt	12	11	10	8	0	2	1	1	1	1	0	2	1	2	1	1	3	2	4	1	3	5	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	202340447	A	T	202340447	3	4	37	1	0	0	0	0	1	0	0	0	15326	130	5	5	552	5	STRADB	2	202340447	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	3959584	202340447	40858926	13	2118											
ZNF142	7701	hgsc.bcm.edu;ucsc.edu	37	chr2	219508795	219508795	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctagcaccaatgcctctGcttgttctttgtcctgtctc	4	16	6	15	0	4	0	0	0	4	0	6	0	5	0	4	0	3	3	4	0	2	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	219508795	G	C	219508795	3	2	37	1	0	0	0	0	1	0	0	0	17730	1319	46	4	2631	4	ZNF142	2	219508795	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	17168348	219508795	23690578	14	2119											
SETD2	29072	ucsc.edu	37	chr3	47058655	47058661	+	Frame_Shift_Del	DEL	CTTGGTT	CTTGGTT	-																															atgtacttcttaatgtactcCttggttttgtgtttcacatt																								novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	CTTGGTT	CTTGGTT	CTTGGTT	-	CTTGGTT	CTTGGTT	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		-	47058661	CTTGGTT	-	47058655	7	5	37	1	0	1	0	1	0	0	0	0	14133	680	24	0	75	0	SETD2	3	47058655	Frame_Shift_Del	DEL	CTTGGTT	TCGA-AK-3431-01A-02D-1361-10		47058655	150963775	15	2120											
ATRIP	84126	hgsc.bcm.edu	37	chr3	48506401	48506401	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttcatgatgcactgcgtgGaggtcctgcatcagtttgac	7	13	11	10	1	3	2	2	2	1	0	4	3	4	3	1	2	3	3	1	2	0	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	48506401	G	T	48506401	4	4	37	1	0	0	0	0	0	1	0	0	1205	1175	41	4	2273	4	ATRIP	3	48506401	Nonsense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	1447746	48506401	149516029	16	2121											
PBRM1	55193	ucsc.edu	37	chr3	52702574	52702574	+	Frame_Shift_Del	DEL	A	A	-																															tcagcagtcagcaaattaacAtcatcatactcttccatttt																								novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	A	-	A	A	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		-	52702574	A	-	52702574	7	5	37	1	0	1	0	1	0	0	0	0	11491	214	8	0	4688	0	PBRM1	3	52702574	Frame_Shift_Del	DEL	A	TCGA-AK-3431-01A-02D-1361-10	4196173	52702574	145319856	17	2122											
CHDH	55349	hgsc.bcm.edu;ucsc.edu	37	chr3	53851850	53851850	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgtagacagggacatctTtgtcccagagtgcaggctgc	8	10	13	10	0	1	2	0	0	1	2	2	3	2	3	1	2	2	4	1	2	1	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	53851850	T	G	53851850	3	3	37	1	0	0	0	0	1	0	0	0	3333	1841	64	5	49	5	CHDH	3	53851850	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	1149276	53851850	144170580	18	2123											
CCDC80	151887	hgsc.bcm.edu;ucsc.edu	37	chr3	112357946	112357946	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctgcctgatcttctcGatcctacggatggggccttg	4	13	10	14	2	3	1	0	1	3	0	5	3	4	2	4	3	2	0	4	3	1	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	112357946	G	T	112357946	2	4	37	1	0	0	0	0	0	0	0	1	2854	1048	37	4		4	CCDC80	3	112357946	Silent	SNP	G	TCGA-AK-3431-01A-02D-1361-10	58506096	112357946	85664484	19	2124											
FETUB	26998	hgsc.bcm.edu;ucsc.edu	37	chr3	186370105	186370105	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagaaacctacaaacctTcccaaggtggaagaatccca	17	5	6	13	0	0	2	0	0	0	2	2	3	2	3	5	2	4	0	5	2	7	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	186370105	T	G	186370105	2	3	37	1	0	0	0	0	0	0	0	1	5821	1770	62	5		5	FETUB	3	186370105	Silent	SNP	T	TCGA-AK-3431-01A-02D-1361-10	74012159	186370105	11652325	20	2125											
PDE6B	5158	hgsc.bcm.edu;ucsc.edu	37	chr4	628559	628559	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaatggcaaagacgtcgtgGcggtgatcatggcagtgaac	11	8	15	7	3	1	4	1	3	0	1	2	4	1	4	0	4	1	2	0	4	3	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	628559	G	T	628559	3	4	37	1	0	0	0	0	1	0	0	0	11646	1203	42	4	568	4	PDE6B	4	628559	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10		628559	190525717	21	2126											
CMYA5	202333	hgsc.bcm.edu;ucsc.edu	37	chr5	79031960	79031960	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtccaactgagaagaaaGataatttggaaaacagatca	19	9	8	5	0	1	4	1	1	0	4	2	6	2	5	1	1	2	0	1	1	7	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	79031960	G	T	79031960	3	4	37	1	0	0	0	0	1	0	0	0	3590	942	33	4	7378	4	CMYA5	5	79031960	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10		79031960	101883300	22	2127											
FBXO9	26268	hgsc.bcm.edu	37	chr6	52945852	52945852	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcaggagtctgtgcttaAactgtgtcagcctgagcttg	8	14	11	8	0	3	1	2	1	1	0	3	2	3	2	1	1	4	2	1	1	2	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	52945852	A	C	52945852	3	2	37	1	0	0	0	0	1	0	0	0	5762	14	1	5	549	5	FBXO9	6	52945852	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		52945852	118169215	23	2128											
FAM184A	79632	hgsc.bcm.edu	37	chr6	119399382	119399382	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgctgtgcccagccagcTgtgcggtggccggcgagggc	4	6	17	14	3	0	0	0	0	0	0	0	1	0	0	4	4	5	2	4	4	0	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	119399382	T	G	119399382	3	3	37	1	0	0	0	0	1	0	0	0	5511	1580	55	5	3411	5	FAM184A	6	119399382	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	66453530	119399382	51715685	24	2129											
PEX3	8504	hgsc.bcm.edu;ucsc.edu	37	chr6	143780242	143780242	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtatatattctggggaaaTatggacagaagaaaatcaga	18	9	11	3	0	2	3	1	0	1	3	2	6	2	5	0	3	0	1	0	3	8	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	143780242	T	C	143780242	3	2	37	1	0	0	0	0	1	0	0	0	11747	1406	49	3	100	3	PEX3	6	143780242	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	24380860	143780242	27334825	25	2130											
CARD11	84433	hgsc.bcm.edu;ucsc.edu	37	chr7	2951854	2951854	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcgatgcattcgaacgcGttggggttcttctctcggga	5	11	16	9	5	2	0	0	0	2	0	5	3	2	1	0	5	2	3	0	5	1	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	2951854	G	A	2951854	2	1	37	1	0	0	0	0	0	0	0	1	2645	1136	40	1		1	CARD11	7	2951854	Silent	SNP	G	TCGA-AK-3431-01A-02D-1361-10		2951854	156186809	26	2131											
SNX13	23161	hgsc.bcm.edu;ucsc.edu	37	chr7	17915357	17915357	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaatactcgtaagtgtgtgCcaaagtcatctacaatgcgt	12	12	9	8	2	2	1	1	1	1	0	3	1	2	1	1	0	4	1	1	0	6	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	17915357	C	A	17915357	3	1	37	1	0	0	0	0	1	0	0	0	14886	739	26	4	2460	4	SNX13	7	17915357	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	14963503	17915357	141223306	27	2132											
DMTF1	9988	hgsc.bcm.edu;ucsc.edu	37	chr7	86802901	86802901	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcccttgggtaacgaggaAgtttcagcagttagccaagc	10	10	11	10	1	2	0	1	0	1	0	3	2	2	1	2	2	4	4	2	2	4	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	86802901	A	T	86802901	3	4	37	1	0	0	0	0	1	0	0	0	4592	69	3	5	392	5	DMTF1	7	86802901	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	68887544	86802901	72335762	28	2133											
GTPBP10	85865	hgsc.bcm.edu;ucsc.edu	37	chr7	89983809	89983809	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctccaaaggaaaagactgtGaaatccctgtgcctgtgggt	11	9	12	9	0	0	2	0	1	0	1	2	3	2	3	3	2	1	1	3	2	4	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	89983809	G	C	89983809	3	2	37	1	0	0	0	0	1	0	0	0	6879	1291	45	4	275	4	GTPBP10	7	89983809	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	3180908	89983809	69154854	29	2134											
SLC12A9	56996	hgsc.bcm.edu	37	chr7	100459532	100459532	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgtcaccctgggagacctCggtgagctgccctcccactc	6	7	10	18	2	1	2	1	1	0	1	4	3	2	2	4	2	2	1	4	2	0	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	100459532	C	T	100459532	2	4	37	1	0	0	0	0	0	0	0	1	14392	898	31	1		1	SLC12A9	7	100459532	Silent	SNP	C	TCGA-AK-3431-01A-02D-1361-10	10475723	100459532	58679131	30	2135											
KIAA1549	57670	hgsc.bcm.edu;ucsc.edu	37	chr7	138603070	138603070	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttctccatgaggctcgtGgccagaacttgctgaggtga	7	12	12	10	1	2	4	0	3	2	1	4	4	2	4	2	3	2	2	2	3	1	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	138603070	G	T	138603070	2	4	37	1	0	0	0	0	0	0	0	1	8244	1335	47	4		4	KIAA1549	7	138603070	Silent	SNP	G	TCGA-AK-3431-01A-02D-1361-10	38143538	138603070	20535593	31	2136											
CNTNAP2	26047	hgsc.bcm.edu;ucsc.edu	37	chr7	147869410	147869410	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgacacttgacctggaGgaaagagcaaaggtcacatc	13	6	14	8	0	1	3	1	2	0	1	2	5	1	5	1	5	1	1	1	5	2	1	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	147869410	G	T	147869410	3	4	37	1	0	0	0	0	1	0	0	0	3647	991	35	4	2920	4	CNTNAP2	7	147869410	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	9266340	147869410	11269253	32	2137											
MYOM2	9172	hgsc.bcm.edu	37	chr8	2064039	2064039	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgctggaagaggctgagTttcaaaggaaagaatttctc	12	11	12	6	0	2	3	1	1	1	2	3	5	2	5	0	3	1	3	0	3	4	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	2064039	T	C	2064039	3	2	37	1	0	0	0	0	1	0	0	0	10092	1725	60	3	3457	3	MYOM2	8	2064039	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10		2064039	144299983	33	2138											
ADHFE1	137872	hgsc.bcm.edu	37	chr8	67380563	67380563	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggatctggctgctctgttTgaagcttcaatgaaactgta	10	13	11	7	0	3	2	1	2	2	0	3	4	3	3	0	2	3	5	0	2	4	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	67380563	T	A	67380563	3	1	37	1	0	0	0	0	1	0	0	0	314	1809	63	5	1434	5	ADHFE1	8	67380563	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	65316524	67380563	78983459	34	2139											
CNBD1	168975	hgsc.bcm.edu;ucsc.edu	37	chr8	87878755	87878755	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttccagcagctatttTgtctcacatgacagctatta	9	16	5	11	0	2	1	1	1	2	0	5	1	3	1	1	0	3	3	1	0	3	7	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	87878755	T	C	87878755	3	2	37	1	0	0	0	0	1	0	0	0	3591	1821	63	3	34	3	CNBD1	8	87878755	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	20498192	87878755	58485267	35	2140											
DCAF13	25879	hgsc.bcm.edu	37	chr8	104444937	104444937	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttggaaccctatggaagcTttcatttttacagcagcaaa	12	13	8	8	0	1	0	1	0	0	0	1	2	1	2	1	2	5	4	1	2	5	6	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	104444937	T	C	104444937	2	2	37	1	0	0	0	0	0	0	0	1	4266	1596	56	3		3	DCAF13	8	104444937	Silent	SNP	T	TCGA-AK-3431-01A-02D-1361-10	16566182	104444937	41919085	36	2141											
SNAPC3	6619	hgsc.bcm.edu;ucsc.edu	37	chr9	15453105	15453105	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagactgctagaatggaAgatttcaccttcaatgactt	12	14	7	8	0	3	4	3	1	0	3	3	5	3	5	1	1	1	1	1	1	4	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	15453105	A	T	15453105	3	4	37	1	0	0	0	0	1	0	0	0	14838	69	3	5	908	5	SNAPC3	9	15453105	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		15453105	125760326	37	2142											
IFNA8	3445	hgsc.bcm.edu	37	chr9	21409246	21409246	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcattcagctctctgggctGtgatctgcctcagactcaca	7	12	9	13	0	6	2	4	1	2	1	7	2	6	2	1	1	2	2	1	1	0	1	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	21409246	G	C	21409246	3	2	37	1	0	0	0	0	1	0	0	0	7543	1377	48	4	73	4	IFNA8	9	21409246	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	5956141	21409246	119804185	38	2143											
C9orf153	389766	hgsc.bcm.edu;ucsc.edu	37	chr9	88844486	88844486	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggcttctctattgtcCtcagctggactggtgtctcc	4	14	12	11	0	3	0	1	0	2	0	6	1	4	1	2	4	1	2	2	4	1	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	88844486	C	T	88844486	2	4	37	1	0	0	0	0	0	0	0	1	2464	680	24	2		2	C9orf153	9	88844486	Silent	SNP	C	TCGA-AK-3431-01A-02D-1361-10	67435240	88844486	52368945	39	2144											
CEP110	0	hgsc.bcm.edu;ucsc.edu	37	chr9	123930585	123930585	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgagagcctggagaagaCactctcccaaactagtatgt	12	9	11	9	0	1	3	0	1	1	3	2	5	1	3	2	1	2	1	2	1	4	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	123930585	C	G	123930585	3	3	37	1	0	0	0	0	1	0	0	0	3245	478	17	4	6198	4	CEP110	9	123930585	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	35086099	123930585	17282846	40	2145											
CERCAM	51148	hgsc.bcm.edu	37	chr9	131185208	131185208	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagtggctggcggctGtgggcgatgactatgctgct	5	10	18	8	2	0	1	0	1	0	0	0	3	0	2	0	5	3	5	0	5	1	1	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	131185208	G	A	131185208	3	1	37	1	0	0	0	0	1	0	0	0	3266	1377	48	2	265	2	CERCAM	9	131185208	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	7254623	131185208	10028223	41	2146											
ARHGAP12	94134	hgsc.bcm.edu;ucsc.edu	37	chr10	32098041	32098041	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccatttactgtcattcAagtccaatttctcatctgaa	10	16	3	12	0	4	1	3	1	2	0	7	1	6	1	2	0	1	0	2	0	4	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	32098041	A	C	32098041	3	2	37	1	0	0	0	0	1	0	0	0	865	131	5	5	408	5	ARHGAP12	10	32098041	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		32098041	103436706	42	2147											
UNC5B	219699	hgsc.bcm.edu	37	chr10	73057821	73057821	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggggcaatgactggcggatGttagcacagaagctctctat	10	9	13	9	2	1	2	0	1	1	1	2	3	1	3	0	4	2	4	0	4	4	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	73057821	G	A	73057821	3	1	37	1	0	0	0	0	1	0	0	0	16991	1377	48	2	2708	2	UNC5B	10	73057821	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	40959780	73057821	62476926	43	2148											
POLR3A	11128	hgsc.bcm.edu	37	chr10	79781733	79781733	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacactgcagctgcaggaaAtcccagtcctccatgatcat	11	8	8	14	0	1	1	1	1	0	0	4	2	4	2	3	1	3	4	3	1	1	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	79781733	A	C	79781733	3	2	37	1	0	0	0	0	1	0	0	0	12228	98	4	5	3339	5	POLR3A	10	79781733	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	6723912	79781733	55753014	44	2149											
RAB11FIP2	22841	hgsc.bcm.edu;ucsc.edu	37	chr10	119798634	119798634	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattgttaagtttatcagAtcttctgctatctttttttc	7	21	4	9	0	4	1	1	0	3	1	5	1	4	1	1	0	1	3	1	0	3	9	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	119798634	A	C	119798634	3	2	37	1	0	0	0	0	1	0	0	0	12896	333	12	5	436	5	RAB11FIP2	10	119798634	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	40016901	119798634	15736113	45	2150											
USH1C	10083	hgsc.bcm.edu;ucsc.edu	37	chr11	17523523	17523523	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccttcctcatatttccggAaatcctggaagcaaagggag	12	9	10	10	1	1	0	1	0	0	0	4	3	4	3	4	3	2	1	4	3	4	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	17523523	A	G	17523523	3	3	37	1	0	0	0	0	1	0	0	0	17033	246	9	3	538	3	USH1C	11	17523523	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		17523523	117482993	46	2151											
DDB1	1642	hgsc.bcm.edu	37	chr11	61081149	61081149	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacggtgggctgggtgcccaAagtcaccttcttacggtcgc	6	10	13	12	3	2	0	1	0	1	0	3	0	2	0	2	4	3	1	2	4	3	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	61081149	A	C	61081149	3	2	37	1	0	0	0	0	1	0	0	0	4323	11	1	5	1579	5	DDB1	11	61081149	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	43557626	61081149	73925367	47	2152											
FERMT3	83706	hgsc.bcm.edu	37	chr11	63979193	63979193	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggctgcgcttcaagtacTacagcttcttcgatttggat	7	15	9	10	2	3	0	1	0	2	0	4	2	3	1	0	2	4	4	0	2	3	6	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	63979193	T	G	63979193	3	3	37	1	0	0	0	0	1	0	0	0	5819	1522	53	5	778	5	FERMT3	11	63979193	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	2898044	63979193	71027323	48	2153											
SYTL2	54843	hgsc.bcm.edu;ucsc.edu	37	chr11	85435949	85435949	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgggttgaacaattgtttcCctcacaatttcttccacttc	8	17	5	11	0	2	1	1	1	1	0	5	1	4	1	2	1	1	2	2	1	3	7	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	85435949	C	A	85435949	3	1	37	1	0	0	0	0	1	0	0	0	15482	622	22	4	2319	4	SYTL2	11	85435949	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	21456756	85435949	49570567	49	2154											
DYNC2H1	79659	hgsc.bcm.edu;ucsc.edu	37	chr11	102991435	102991435	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcccttgtggaaagctgcGgtgtctcaatatgaaaagat	12	11	11	7	1	1	2	1	1	1	1	2	3	1	3	1	2	3	1	1	2	6	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	102991435	G	C	102991435	2	2	37	1	0	0	0	0	0	0	0	1	4846	1103	39	4		4	DYNC2H1	11	102991435	Silent	SNP	G	TCGA-AK-3431-01A-02D-1361-10	17555486	102991435	32015081	50	2155											
BCAT1	586	hgsc.bcm.edu;ucsc.edu	37	chr12	24985748	24985748	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgttcccctccagggctGttgtcaagtcatccatggtg	5	13	10	13	0	3	0	2	0	1	0	6	0	6	0	4	2	0	3	4	2	1	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	24985748	G	T	24985748	3	4	37	1	0	0	0	0	1	0	0	0	1354	1377	48	4	219	4	BCAT1	12	24985748	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10		24985748	108866147	51	2156											
C12orf50	160419	hgsc.bcm.edu	37	chr12	88388466	88388466	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccatgcaatgatgtttttAtttcaccttgcctttcatat	8	19	4	10	0	2	1	2	1	0	0	3	1	3	1	3	0	2	2	3	0	3	7	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	88388466	A	G	88388466	3	3	37	1	0	0	0	0	1	0	0	0	1695	449	16	3	736	3	C12orf50	12	88388466	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	63402718	88388466	45463429	52	2157											
FREM2	341640	hgsc.bcm.edu;ucsc.edu	37	chr13	39265788	39265788	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccttgaaagaaggtggcaAagtcactcttacaacagacc	14	8	9	10	0	2	3	1	1	1	2	3	3	3	3	2	2	2	1	2	2	5	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	39265788	A	C	39265788	3	2	37	1	0	0	0	0	1	0	0	0	6045	14	1	5	4309	5	FREM2	13	39265788	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		39265788	75904090	53	2158											
MYO1E	4643	hgsc.bcm.edu	37	chr15	59528837	59528837	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtagctcatgatatattTggcagccactgtttttccag	9	15	9	8	0	1	1	1	1	0	0	2	2	2	1	2	1	2	4	2	1	3	6	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	59528837	T	C	59528837	3	2	37	1	0	0	0	0	1	0	0	0	10072	1821	63	3	3055	3	MYO1E	15	59528837	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10		59528837	43002555	54	2159											
VPS13C	54832	hgsc.bcm.edu	37	chr15	62238606	62238606	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagaaatagaggcatccAttcctataggaaacataaca	18	8	6	9	0	1	2	1	0	0	2	3	3	3	3	2	2	2	1	2	2	6	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	62238606	A	G	62238606	3	3	37	1	0	0	0	0	1	0	0	0	17190	217	8	3	6577	3	VPS13C	15	62238606	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	2709769	62238606	40292786	55	2160											
BAIAP3	8938	hgsc.bcm.edu	37	chr16	1394310	1394310	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaacatggacattgctgcgGccctgaaggtgtgttccaaa	10	10	12	9	1	0	2	0	2	0	0	1	3	1	3	2	3	3	2	2	3	3	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	1394310	G	T	1394310	3	4	37	1	0	0	0	0	1	0	0	0	1304	1203	42	4	1765	4	BAIAP3	16	1394310	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10		1394310	88960443	56	2161											
SRRM2	23524	hgsc.bcm.edu	37	chr16	2816400	2816400	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccagtgactcgcagaagGtccagatccaggactccacc	11	5	9	16	1	0	3	0	1	0	2	4	4	3	4	6	2	0	1	6	2	1	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	2816400	G	A	2816400	2	1	37	1	0	0	0	0	0	0	0	1	15170	1252	44	2		2	SRRM2	16	2816400	Silent	SNP	G	TCGA-AK-3431-01A-02D-1361-10	1422090	2816400	87538353	57	2162											
NFATC3	4775	hgsc.bcm.edu;ucsc.edu	37	chr16	68200896	68200896	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtcctttctctgcagatAgcctctatacccgttgagtg	9	13	8	11	1	2	2	0	1	2	1	4	2	3	2	3	0	3	2	3	0	4	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	68200896	A	T	68200896	2	4	37	1	0	0	0	0	0	0	0	1	10364	410	15	5		5	NFATC3	16	68200896	Silent	SNP	A	TCGA-AK-3431-01A-02D-1361-10	65384496	68200896	22153857	58	2163											
NFAT5	10725	hgsc.bcm.edu	37	chr16	69726498	69726498	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcaacagagtatctgcCaggcagctgcccagattcag	12	7	11	11	0	2	3	1	0	1	3	2	3	2	3	2	1	5	4	2	1	2	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	69726498	C	G	69726498	3	3	37	1	0	0	0	0	1	0	0	0	10360	595	21	4	2820	4	NFAT5	16	69726498	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	1525602	69726498	20628255	59	2164											
C16orf55	124045	hgsc.bcm.edu	37	chr16	89735835	89735835	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccattcgggagccggaggActggggcccctaccggcggc	7	4	16	14	4	0	0	0	0	0	0	1	3	0	3	5	7	3	0	5	7	2	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	89735835	A	C	89735835	3	2	37	1	0	0	0	0	1	0	0	0	1820	275	10	5	360	5	C16orf55	16	89735835	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	20009337	89735835	618918	60	2165											
SLFN5	162394	hgsc.bcm.edu;ucsc.edu	37	chr17	33586478	33586478	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttgagggcttctattgatGgctgtattaagaagctacct	9	14	11	7	0	1	3	0	2	1	1	1	3	1	3	1	2	2	5	1	2	5	7	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	33586478	G	T	33586478	3	4	37	1	0	0	0	0	1	0	0	0	14739	1348	47	4	771	4	SLFN5	17	33586478	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10		33586478	47608732	61	2166											
SDK2	54549	hgsc.bcm.edu	37	chr17	71418510	71418510	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagcgtgcaggaaccaggCccttgactgtcactgaggta	10	7	14	10	1	1	2	1	2	0	0	1	4	1	4	2	4	3	2	2	4	2	2	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	71418510	C	T	71418510	3	4	37	1	0	0	0	0	1	0	0	0	13971	739	26	2	4681	2	SDK2	17	71418510	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	37832032	71418510	9776700	62	2167											
NDC80	10403	hgsc.bcm.edu	37	chr18	2587917	2587917	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgcagagctgcagtcaaAactgagtaagtgttctcgtt	12	11	11	7	1	2	2	1	1	1	1	3	3	2	2	0	0	4	6	0	0	4	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	2587917	A	G	2587917	3	3	37	1	0	0	0	0	1	0	0	0	10242	14	1	3	784	3	NDC80	18	2587917	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		2587917	75489331	63	2168											
CD97	976	hgsc.bcm.edu;ucsc.edu	37	chr19	14512530	14512530	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcagagcagcgcacgcAtgaagctgaattgggctgtg	9	8	16	8	2	1	3	1	2	0	1	1	3	1	3	0	2	3	5	0	2	2	1	rs145167749	byfrequency	TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	14512530	A	G	14512530	3	3	37	1	0	0	0	0	1	0	0	0	3049	217	8	3	1183	3	CD97	19	14512530	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		14512530	44616453	64	2169											
ERCC2	2068	hgsc.bcm.edu	37	chr19	45872351	45872351	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtatgccatgatcagggCcaacagggatactgtcttcc	9	10	11	11	0	2	1	1	1	1	0	3	2	3	2	3	3	3	1	3	3	3	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	45872351	C	T	45872351	3	4	37	1	0	0	0	0	1	0	0	0	5213	739	26	2	2263	2	ERCC2	19	45872351	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	31359821	45872351	13256632	65	2170											
ZNF577	84765	hgsc.bcm.edu;ucsc.edu	37	chr19	52376920	52376920	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catatccaccaaatgcatcaGaatcttttcctgcatatctt	12	14	3	12	0	3	1	1	0	2	1	5	1	5	1	3	0	2	2	3	0	4	5	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	52376920	G	C	52376920	3	2	37	1	0	0	0	0	1	0	0	0	18008	942	33	4	1138	4	ZNF577	19	52376920	Missense_Mutation	SNP	G	TCGA-AK-3431-01A-02D-1361-10	6504569	52376920	6752063	66	2171											
C20orf30	0	hgsc.bcm.edu	37	chr20	5081570	5081570	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcactggaacggcccggTctgccccctggtggcagaag	7	6	14	14	2	2	1	1	0	1	1	2	2	2	2	3	5	3	2	3	5	2	0	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	5081570	T	C	5081570	3	2	37	1	0	0	0	0	1	0	0	0	2110	1667	58	3	136	3	C20orf30	20	5081570	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10		5081570	57943950	67	2172											
C20orf26	26074	hgsc.bcm.edu;ucsc.edu	37	chr20	20269500	20269500	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatgctacatctctttgAtccaacccttgagcctgtga	9	13	7	12	0	1	3	0	3	1	0	3	3	2	3	3	0	5	2	3	0	3	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	20269500	A	G	20269500	3	3	37	1	0	0	0	0	1	0	0	0	2106	333	12	3	3162	3	C20orf26	20	20269500	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10	15187930	20269500	42756020	68	2173											
NCOA6	23054	hgsc.bcm.edu	37	chr20	33356290	33356290	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaccacttgccataggaaatCccgcctccatcctaactgaa	12	8	6	15	1	0	1	0	1	0	0	3	3	3	2	6	1	2	0	6	1	4	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	33356290	C	T	33356290	3	4	37	1	0	0	0	0	1	0	0	0	10233	855	30	2	5744	2	NCOA6	20	33356290	Missense_Mutation	SNP	C	TCGA-AK-3431-01A-02D-1361-10	13086790	33356290	29669230	69	2174											
TAF4	6874	hgsc.bcm.edu	37	chr20	60551323	60551323	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggttgacccgcgtgattctTtgtcgcgtgaactgtctggg	5	13	14	9	4	2	3	0	3	2	0	3	3	2	3	1	2	1	1	1	2	1	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		A	60551323	T	A	60551323	3	1	37	1	0	0	0	0	1	0	0	0	15525	1838	64	5	102	5	TAF4	20	60551323	Missense_Mutation	SNP	T	TCGA-AK-3431-01A-02D-1361-10	27195033	60551323	2474197	70	2175											
MICAL3	57553	hgsc.bcm.edu	37	chr22	18389489	18389489	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagagctcctggaaagcCttgagggttcccttgcaggt	8	10	12	11	0	1	2	1	1	0	1	3	3	3	3	3	3	3	3	3	3	1	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		T	18389489	C	T	18389489	2	4	37	1	0	0	0	0	0	0	0	1	9571	680	24	2		2	MICAL3	22	18389489	Silent	SNP	C	TCGA-AK-3431-01A-02D-1361-10		18389489	32915077	71	2176											
MTMR3	8897	hgsc.bcm.edu	37	chr22	30403925	30403925	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcttcaggagcagagagtTtagccatccaaccgcagaag	13	7	11	10	1	1	2	1	0	0	2	2	4	2	3	3	1	4	4	3	1	3	3	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		C	30403925	T	C	30403925	2	2	37	1	0	0	0	0	0	0	0	1	9945	1838	64	3		3	MTMR3	22	30403925	Silent	SNP	T	TCGA-AK-3431-01A-02D-1361-10	12014436	30403925	20900641	72	2177											
PLXNA3	55558	hgsc.bcm.edu;ucsc.edu	37	chrX	153699964	153699964	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagctgtatttctatgtcAccaagtaccgccaggaggtg	10	10	11	10	2	2	0	1	0	1	0	2	2	2	1	3	2	2	3	3	2	4	4	novel		TCGA-AK-3431-01A-02D-1361-10	TCGA-AK-3431-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3edc98c2-fa19-4304-b755-eaa3c7977058	bcfea68f-0d4d-44f2-8d20-41bd03b717cb		G	153699964	A	G	153699964	3	3	37	1	0	0	0	0	1	0	0	0	12121	159	6	3	5625	3	PLXNA3	23	153699964	Missense_Mutation	SNP	A	TCGA-AK-3431-01A-02D-1361-10		153699964	1570596	73	2178											
KIAA1751	85452	hgsc.bcm.edu	37	chr1	1897857	1897857	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccagagatctcgggctCagctaacgtttcctcctctg	8	10	9	14	2	3	1	1	0	2	1	6	2	5	1	3	1	3	3	3	1	2	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	1897857	C	A	1897857	4	1	38	1	0	0	0	0	0	1	0	0	8256	835	29	4	962	4	KIAA1751	1	1897857	Nonsense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10		1897857	247352764	1	2179											
TCEA3	6920	hgsc.bcm.edu;ucsc.edu	37	chr1	23751094	23751094	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accatcttctccagctttttGgcgatcctcagcagctcctc	6	13	6	16	1	3	0	1	0	2	0	7	1	5	0	4	1	3	3	4	1	0	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	23751094	G	A	23751094	2	1	38	1	0	0	0	0	0	0	0	1	15668	1335	47	2		2	TCEA3	1	23751094	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10	21853237	23751094	225499527	2	2180											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144864284	144864284	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtgggatcgagaggaCagcagagcctccctcaggct	10	6	15	10	1	1	3	1	1	0	2	3	6	2	5	2	4	2	2	2	4	1	0	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	144864284	C	G	144864284	2	3	38	1	0	0	0	0	0	0	0	1	11643	465	17	4		4	PDE4DIP	1	144864284	Silent	SNP	C	TCGA-AK-3434-01A-02D-1361-10	121113190	144864284	104386337	3	2181											
ANKRD35	148741	hgsc.bcm.edu	37	chr1	145562502	145562504	+	In_Frame_Del	DEL	GGC	GGC	-																															gagtccctggaggagctgcgGgcctgcatcagcaccctggt																								novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		-	145562504	GGC	-	145562502	7	5	38	1	0	1	0	1	0	0	0	0	664	1219	43	0	2228	0	ANKRD35	1	145562502	In_Frame_Del	DEL	GGC	TCGA-AK-3434-01A-02D-1361-10	698218	145562502	103688119	4	2182											
DISP1	84976	hgsc.bcm.edu	37	chr1	223116653	223116653	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagcatcagcctgtgcAacagcacatagccaacataa	14	9	6	12	0	2	0	2	0	0	0	2	0	2	0	2	0	7	3	2	0	4	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	223116653	A	G	223116653	3	3	38	1	0	0	0	0	1	0	0	0	4539	130	5	3	490	3	DISP1	1	223116653	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	77554151	223116653	26133968	5	2183											
PDIA6	10130	hgsc.bcm.edu;ucsc.edu	37	chr2	10924442	10924442	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaggtcaatgtcatccTccacgggaagctgggagacg	10	7	13	11	2	2	2	2	1	0	1	4	4	4	3	2	3	1	1	2	3	2	0	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	10924442	T	A	10924442	3	1	38	1	0	0	0	0	1	0	0	0	11672	1551	54	5	61	5	PDIA6	2	10924442	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10		10924442	232274931	6	2184											
NCOA1	8648	hgsc.bcm.edu;ucsc.edu	37	chr2	24933874	24933874	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagttgccaggcttatgTgagacagacaggatggatgg	11	8	15	7	0	0	2	0	1	0	2	0	5	0	4	1	4	1	3	1	4	1	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	24933874	T	G	24933874	3	3	38	1	0	0	0	0	1	0	0	0	10228	1702	59	5	2531	5	NCOA1	2	24933874	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10	14009432	24933874	218265499	7	2185											
OTOF	9381	hgsc.bcm.edu	37	chr2	26687848	26687848	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtctttgcagaggcgggTcaggatctggctgggcttca	5	10	16	10	2	4	1	2	0	2	1	4	2	4	2	1	5	1	3	1	5	0	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	26687848	T	G	26687848	3	3	38	1	0	0	0	0	1	0	0	0	11303	1667	58	5	1361	5	OTOF	2	26687848	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10	1753974	26687848	216511525	8	2186											
MAT2A	4144	hgsc.bcm.edu;ucsc.edu	37	chr2	85768223	85768223	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagataagatttgtgaccaaAtcagtgatgctgtccttgat	12	13	9	7	0	1	5	1	3	0	2	2	5	2	5	2	0	1	1	2	0	2	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	85768223	A	C	85768223	3	2	38	1	0	0	0	0	1	0	0	0	9330	101	4	5	115	5	MAT2A	2	85768223	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	59080375	85768223	157431150	9	2187											
SNRNP200	23020	hgsc.bcm.edu;ucsc.edu	37	chr2	96959208	96959208	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggccactaaagcttctaAgacaggacctctgtcatcgt	10	10	8	13	1	3	1	1	0	2	1	4	2	3	2	3	2	1	1	3	2	3	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	96959208	A	G	96959208	2	3	38	1	0	0	0	0	0	0	0	1	14854	69	3	3		3	SNRNP200	2	96959208	Silent	SNP	A	TCGA-AK-3434-01A-02D-1361-10	11190985	96959208	146240165	10	2188											
ITGA6	3655	hgsc.bcm.edu;ucsc.edu	37	chr2	173349850	173349850	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatgcttttcatgcaggAtaatatcagagataaactgc	13	12	8	8	0	2	1	2	0	0	1	2	3	2	2	0	1	5	3	0	1	4	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	173349850	A	T	173349850	3	4	38	1	0	0	0	0	1	0	0	0	7880	347	12	5	1762	5	ITGA6	2	173349850	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	76390642	173349850	69849523	11	2189											
SLC4A3	6508	hgsc.bcm.edu	37	chr2	220497112	220497112	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggggaagccccatgtTgcctcgctctccttccgtag	4	10	12	15	3	1	0	0	0	1	0	4	1	2	1	5	2	2	4	5	2	2	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	220497112	T	C	220497112	2	2	38	1	0	0	0	0	0	0	0	1	14657	1799	63	3		3	SLC4A3	2	220497112	Silent	SNP	T	TCGA-AK-3434-01A-02D-1361-10	47147262	220497112	22702261	12	2190											
KIAA1486	0	hgsc.bcm.edu	37	chr2	226273688	226273688	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatatggggatgaaggcctAtgatggcttggttattcaga	10	12	15	4	0	1	3	1	2	0	1	1	5	1	5	1	6	0	2	1	6	4	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	226273688	A	G	226273688	3	3	38	1	0	0	0	0	1	0	0	0	8237	449	16	3	94	3	KIAA1486	2	226273688	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	5776576	226273688	16925685	13	2191											
MTERFD2	130916	hgsc.bcm.edu;ucsc.edu	37	chr2	242038907	242038907	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttcttcaagaccacacAcacaggctctggattcagac	12	10	6	13	0	4	2	2	0	2	2	4	3	4	3	1	2	0	1	1	2	1	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	242038907	A	T	242038907	3	4	38	1	0	0	0	0	1	0	0	0	9920	159	6	5	733	5	MTERFD2	2	242038907	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	15765219	242038907	1160466	14	2192											
NR2C2	7182	hgsc.bcm.edu;ucsc.edu	37	chr3	15076190	15076190	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctaggcaggactgcaacAccagccttgtgcgggcctgc	7	8	12	14	1	0	0	0	0	0	0	1	1	1	1	4	3	5	2	4	3	2	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	15076190	A	C	15076190	3	2	38	1	0	0	0	0	1	0	0	0	10623	159	6	5	1345	5	NR2C2	3	15076190	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10		15076190	182946240	15	2193											
KBTBD5	0	hgsc.bcm.edu	37	chr3	42727420	42727420	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaggcgagcgtgcaggatTtgttcgccgcggcacaccgc	7	7	15	12	6	0	1	0	1	0	0	1	3	0	2	2	3	2	3	2	3	0	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	42727420	T	A	42727420	3	1	38	1	0	0	0	0	1	0	0	0	7996	1838	64	5	312	5	KBTBD5	3	42727420	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10	27651230	42727420	155295010	16	2194											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52610695	52610695	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatatgcagctccatctcGaacccatactttttcaattc	13	13	3	12	1	2	0	1	0	1	0	5	1	3	0	2	0	4	2	2	0	6	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	52610695	G	A	52610695	4	1	38	1	0	0	0	0	0	1	0	0	11491	1066	37	1	1383	1	PBRM1	3	52610695	Nonsense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	9883275	52610695	145411735	17	2195											
MUC4	4585	hgsc.bcm.edu	37	chr3	195509374	195509374	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaagggctggtgacaTgaagaggggtggcgtgacct	9	7	19	6	1	0	5	0	4	0	1	0	6	0	6	1	6	0	1	1	6	2	0	rs62282479		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	195509374	T	G	195509374	3	3	38	1	0	0	0	0	1	0	0	0	9978	1464	51	5		5	MUC4	3	195509374	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10	142898679	195509374	2513056	18	2196											
TBC1D14	57533	hgsc.bcm.edu	37	chr4	7012491	7012491	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtcaaatggcgttttttAgagtggaccatggccttgtg	7	14	12	8	1	1	1	1	0	0	1	1	2	1	2	3	3	0	1	3	3	2	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	7012491	A	G	7012491	3	3	38	1	0	0	0	0	1	0	0	0	15602	412	15	3	1675	3	TBC1D14	4	7012491	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10		7012491	184141785	19	2197											
TMEM33	55161	hgsc.bcm.edu	37	chr4	41941346	41941346	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggctttgttagaggacAgctgccactacctgttgtat	8	12	10	11	0	0	1	0	0	0	1	0	2	0	2	3	2	3	5	3	2	3	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	41941346	A	G	41941346	3	3	38	1	0	0	0	0	1	0	0	0	16155	188	7	3	284	3	TMEM33	4	41941346	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	34928855	41941346	149212930	20	2198											
GUF1	60558	hgsc.bcm.edu	37	chr4	44700675	44700675	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatgcttttataaaagttCtgaaaacacaatcttctaaa	18	13	4	6	0	3	2	0	1	3	1	3	2	3	2	0	0	2	2	0	0	9	6	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	44700675	C	T	44700675	2	4	38	1	0	0	0	0	0	0	0	1	6899	912	32	2		2	GUF1	4	44700675	Silent	SNP	C	TCGA-AK-3434-01A-02D-1361-10	2759329	44700675	146453601	21	2199											
NUDT9	53343	hgsc.bcm.edu;ucsc.edu	37	chr4	88359433	88359433	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtattctcattacagtgaaAgtaatttttctcccaagttt	11	17	6	7	0	2	1	1	1	2	0	4	1	2	1	1	1	1	3	1	1	5	7	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	88359433	A	C	88359433	3	2	38	1	0	0	0	0	1	0	0	0	10746	72	3	5	362	5	NUDT9	4	88359433	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	43658758	88359433	102794843	22	2200											
TRIM2	23321	hgsc.bcm.edu;ucsc.edu	37	chr4	154197264	154197264	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgggaaagcctctctcttgCccaaaccacgatgggaatgt	10	8	11	12	2	2	0	0	0	2	0	3	3	2	2	3	2	3	0	3	2	3	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	154197264	C	T	154197264	2	4	38	1	0	0	0	0	0	0	0	1	16493	747	26	2		2	TRIM2	4	154197264	Silent	SNP	C	TCGA-AK-3434-01A-02D-1361-10	65837831	154197264	36957012	23	2201											
KIF2A	3796	hgsc.bcm.edu	37	chr5	61659522	61659522	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttaatcacattgtagAacatccggtcaaacatctgc	12	12	6	11	1	3	1	2	0	1	1	5	1	5	1	2	1	3	1	2	1	4	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	61659522	A	C	61659522	3	2	38	1	0	0	0	0	1	0	0	0	8297	260	9	5	1317	5	KIF2A	5	61659522	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10		61659522	119255738	24	2202											
MAN2A1	4124	hgsc.bcm.edu;ucsc.edu	37	chr5	109049281	109049281	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgtttgctagctgagaatAatgagatcatctcaaatatt	14	13	8	6	1	2	2	2	2	1	2	3	4	2	2	0	0	3	3	0	0	5	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	109049281	A	G	109049281	3	3	38	1	0	0	0	0	1	0	0	0	9214	362	13	3	202	3	MAN2A1	5	109049281	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	47389759	109049281	71865979	25	2203											
NUDCD2	134492	hgsc.bcm.edu;ucsc.edu	37	chr5	162881024	162881024	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttagtgtagtttcctgaGatttctgctccactgaagtc	7	16	8	10	0	1	2	0	2	1	1	4	3	3	2	3	0	1	3	3	0	3	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	162881024	G	T	162881024	2	4	38	1	0	0	0	0	0	0	0	1	10723	932	33	4		4	NUDCD2	5	162881024	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10	53831743	162881024	18034236	26	2204											
ADAMTS2	9509	hgsc.bcm.edu	37	chr5	178559878	178559878	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcctgcttgctggagccGatcacaccgtcacagcccac	7	9	8	17	2	3	0	2	0	1	0	4	2	4	1	4	1	4	2	4	1	0	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	178559878	G	A	178559878	2	1	38	1	0	0	0	0	0	0	0	1	265	1048	37	1		1	ADAMTS2	5	178559878	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10	15678854	178559878	2355382	27	2205											
RASGEF1C	255426	hgsc.bcm.edu	37	chr5	179555487	179555487	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccctgtggatggaggCtggtggcttggtcctgtagg	4	11	18	8	0	0	0	0	0	0	0	2	3	2	2	2	7	1	4	2	7	1	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	179555487	C	T	179555487	3	4	38	1	0	0	0	0	1	0	0	0	13073	797	28	2	878	2	RASGEF1C	5	179555487	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10	995609	179555487	1359773	28	2206											
RPP21	79897	hgsc.bcm.edu	37	chr6	30314294	30314294	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgatcccgggcatttactCtggggagacaggcctgaggc	9	8	14	10	1	1	3	0	2	1	1	2	4	2	3	2	5	1	1	2	5	2	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	30314294	C	T	30314294	2	4	38	1	0	0	0	0	0	0	0	1	13612	900	32	2		2	RPP21	6	30314294	Silent	SNP	C	TCGA-AK-3434-01A-02D-1361-10		30314294	140800773	29	2207											
TDRD6	221400	hgsc.bcm.edu	37	chr6	46659688	46659688	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacagcaagagtagaagctActctttcagagagaaaaata	20	7	8	6	0	2	4	1	0	1	4	2	5	2	4	0	0	4	3	0	0	8	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	46659688	A	C	46659688	3	2	38	1	0	0	0	0	1	0	0	0	15733	391	14	5	3825	5	TDRD6	6	46659688	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	16345394	46659688	124455379	30	2208											
SFRS18	0	hgsc.bcm.edu	37	chr6	99860572	99860572	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgtcctgaagcttctctTtgggcaatccaagcttgggc	6	13	11	11	0	1	1	0	1	1	0	4	1	3	1	2	2	3	4	2	2	3	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	99860572	T	A	99860572	3	1	38	1	0	0	0	0	1	0	0	0	14176	1838	64	5	2321	5	SFRS18	6	99860572	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10	53200884	99860572	71254495	31	2209											
SMPD2	6610	hgsc.bcm.edu	37	chr6	109764751	109764751	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtcgccgttgatgtgtgtGctaaaggaggcctggacgga	8	9	17	7	3	0	1	0	1	0	0	1	4	0	4	2	5	1	2	2	5	2	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	109764751	G	T	109764751	2	4	38	1	0	0	0	0	0	0	0	1	14807	1306	46	4		4	SMPD2	6	109764751	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10	9904179	109764751	61350316	32	2210											
LAMA2	3908	hgsc.bcm.edu	37	chr6	129796548	129796548	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatctagtatgaaagcaaggTaaaatttaaatttatgcatg	17	14	7	3	0	1	1	0	1	1	0	1	1	1	1	0	1	2	4	0	1	10	8	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	129796548	T	C	129796548	5	2	38	1	0	0	0	0	0	0	1	0	8606	1652	57	3	7663	3	LAMA2	6	129796548	Splice_Site	SNP	T	TCGA-AK-3434-01A-02D-1361-10	20031797	129796548	41318519	33	2211											
ECT2L	345930	hgsc.bcm.edu;ucsc.edu	37	chr6	139222225	139222225	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcatcagtggcccttcatcGgttactcatagaaaatattc	11	13	7	10	1	3	1	3	0	0	1	5	1	3	1	1	2	2	2	1	2	5	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	139222225	G	A	139222225	3	1	38	1	0	0	0	0	1	0	0	0	4902	1116	39	1	2629	1	ECT2L	6	139222225	Missense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	9425677	139222225	31892842	34	2212											
MLLT4	4301	hgsc.bcm.edu	37	chr6	168271097	168271097	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatatagatgagaaacctctAgttgtacaactgaattggaa	16	11	9	5	0	1	3	0	2	1	2	1	6	1	4	1	1	3	2	1	1	8	6	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	168271097	A	G	168271097	2	3	38	1	0	0	0	0	0	0	0	1	9629	407	15	3		3	MLLT4	6	168271097	Silent	SNP	A	TCGA-AK-3434-01A-02D-1361-10	29048872	168271097	2843970	35	2213											
MCPH1	79648	hgsc.bcm.edu	37	chr8	6312675	6312675	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggttttaggtgttaaaaatAgaccaacaaggcatgatgtt	14	12	11	4	0	0	2	0	1	0	1	0	2	0	2	1	3	1	4	1	3	7	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	6312675	A	G	6312675	3	3	38	1	0	0	0	0	1	0	0	0	9398	412	15	3	1879	3	MCPH1	8	6312675	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10		6312675	140051347	36	2214											
ZHX2	22882	hgsc.bcm.edu	37	chr8	123964182	123964182	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttcaagctgaagttaatTaaacgcaataatcaaactgt	18	11	5	7	1	2	1	2	1	0	0	2	1	2	1	0	0	4	3	0	0	9	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	123964182	T	A	123964182	2	1	38	1	0	0	0	0	0	0	0	1	17675	1742	61	5		5	ZHX2	8	123964182	Silent	SNP	T	TCGA-AK-3434-01A-02D-1361-10	117651507	123964182	22399840	37	2215											
PCDH15	65217	hgsc.bcm.edu	37	chr10	55849761	55849761	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacgtttctgaaagattaaaAactctctgaggatctccatt	13	14	6	8	1	3	3	0	2	3	1	5	4	3	4	1	1	2	1	1	1	5	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	55849761	A	G	55849761	2	3	38	1	0	0	0	0	0	0	0	1	11511	1	1	3		3	PCDH15	10	55849761	Silent	SNP	A	TCGA-AK-3434-01A-02D-1361-10		55849761	79684986	38	2216											
RBP4	5950	hgsc.bcm.edu	37	chr10	95353602	95353602	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtggacgatcagcctgtaCtgcctggccaggcacagctc	7	9	12	13	1	1	0	1	0	0	0	2	2	1	1	3	3	4	3	3	3	1	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	95353602	C	G	95353602	3	3	38	1	0	0	0	0	1	0	0	0	13160	564	20	4	67	4	RBP4	10	95353602	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10	39503841	95353602	40181145	39	2217											
MUC2	4583	hgsc.bcm.edu	37	chr11	1092238	1092238	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttggagcagctaggcCagaaggtgcagtgtgatgtc	9	9	15	8	0	1	2	1	1	0	1	2	3	1	3	1	3	4	4	1	3	2	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	1092238	C	T	1092238	4	4	38	1	0	0	0	0	0	1	0	0	9975	595	21	2	4175	2	MUC2	11	1092238	Nonsense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10		1092238	133914278	40	2218											
TYR	7299	hgsc.bcm.edu;ucsc.edu	37	chr11	88911155	88911155	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtactgcctgctgtggAgtttccagacctccgctggc	4	14	11	12	1	0	1	0	0	0	1	2	2	2	2	4	2	3	4	4	2	1	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	88911155	A	T	88911155	3	4	38	1	0	0	0	0	1	0	0	0	16812	304	11	5	36	5	TYR	11	88911155	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	87818917	88911155	46095361	41	2219											
ALKBH8	91801	hgsc.bcm.edu;ucsc.edu	37	chr11	107375723	107375723	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggacagaagatgccgaGtctcgactgcccatgtcacg	9	6	14	12	4	2	2	1	0	1	2	3	5	2	3	2	2	2	0	2	2	1	0	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	107375723	G	C	107375723	3	2	38	1	0	0	0	0	1	0	0	0	533	1020	36	4	342	4	ALKBH8	11	107375723	Missense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	18464568	107375723	27630793	42	2220											
CRTAM	56253	hgsc.bcm.edu;ucsc.edu	37	chr11	122733210	122733210	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcagatgctctggagagaAactctctatcctctcaagac	11	11	7	12	0	4	3	2	0	3	3	7	5	5	4	1	1	2	1	1	1	3	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	122733210	A	G	122733210	3	3	38	1	0	0	0	0	1	0	0	0	3897	14	1	3	713	3	CRTAM	11	122733210	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	15357487	122733210	12273306	43	2221											
FAIM2	23017	hgsc.bcm.edu	37	chr12	50284501	50284501	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaggttccaggggaaatGcctcctgcaaggcaagccac	12	6	11	12	0	1	0	1	0	0	0	3	1	3	1	4	4	3	3	4	4	4	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	50284501	G	T	50284501	3	4	38	1	0	0	0	0	1	0	0	0	5376	1319	46	4	484	4	FAIM2	12	50284501	Missense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10		50284501	83567394	44	2222											
SLC4A8	9498	hgsc.bcm.edu	37	chr12	51851247	51851247	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaatgaaaagaagagaaaCaacctcattcccattgttcg	17	8	7	9	1	1	4	1	1	0	3	3	5	2	4	2	0	2	1	2	0	6	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	51851247	C	G	51851247	3	3	38	1	0	0	0	0	1	0	0	0	14661	477	17	4	709	4	SLC4A8	12	51851247	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10	1566746	51851247	82000648	45	2223											
STAT2	6773	hgsc.bcm.edu	37	chr12	56744656	56744656	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgactcattgccttcctGgagtctcaccagcagcctgg	7	10	10	14	0	2	1	2	1	1	0	4	2	3	2	4	2	3	1	4	2	0	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	56744656	G	A	56744656	4	1	38	1	0	0	0	0	0	1	0	0	15266	1357	47	2	1560	2	STAT2	12	56744656	Nonsense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	4893409	56744656	77107239	46	2224											
GOLGA3	2802	hgsc.bcm.edu	37	chr12	133393164	133393164	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taggaagactgagtctgagaGactgcaaagcttcttttcta	12	12	10	7	0	3	4	0	2	3	2	3	6	3	5	0	1	2	2	0	1	4	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	133393164	G	C	133393164	3	2	38	1	0	0	0	0	1	0	0	0	6554	942	33	4	4354	4	GOLGA3	12	133393164	Missense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	76648508	133393164	458731	47	2225											
CCNA1	8900	hgsc.bcm.edu	37	chr13	37015358	37015358	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaaactatactgtgaacaAgcacttttgggtaagattct	13	12	9	7	0	1	2	0	1	1	1	1	2	1	2	0	2	4	3	0	2	6	6	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	37015358	A	G	37015358	3	3	38	1	0	0	0	0	1	0	0	0	2909	72	3	3	1228	3	CCNA1	13	37015358	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10		37015358	78154520	48	2226											
SYNE2	23224	hgsc.bcm.edu	37	chr14	64554560	64554560	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagccttccacagattCagcgaatggctgatgtaagt	12	10	11	8	1	1	2	1	1	0	1	2	4	2	3	2	2	2	2	2	2	3	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	64554560	C	A	64554560	3	1	38	1	0	0	0	0	1	0	0	0	15445	827	29	4	11882	4	SYNE2	14	64554560	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10		64554560	42794980	49	2227											
CHRNA7	1139	hgsc.bcm.edu	37	chr15	32449875	32449876	+	Frame_Shift_Del	DEL	TG	TG	-																															tgatgtgcagcactgcaaacTgaagtttgggtcctggtctt																								rs67158670	bycluster;byfrequency	TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		-	32449876	TG	-	32449875	7	5	38	1	0	1	0	1	0	0	0	0	3388	1580	55	0	519	0	CHRNA7	15	32449875	Frame_Shift_Del	DEL	TG	TCGA-AK-3434-01A-02D-1361-10		32449875	70081517	50	2228											
FAM82A2	0	hgsc.bcm.edu	37	chr15	41037298	41037298	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctgaggaacctccagcCtccagggcactggaggcacc	10	4	12	15	0	0	1	0	1	0	0	2	3	2	3	6	4	3	2	6	4	2	0	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	41037298	C	T	41037298	2	4	38	1	0	0	0	0	0	0	0	1	5631	680	24	2		2	FAM82A2	15	41037298	Silent	SNP	C	TCGA-AK-3434-01A-02D-1361-10	8587423	41037298	61494094	51	2229											
LCMT2	9836	hgsc.bcm.edu;ucsc.edu	37	chr15	43621583	43621583	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcctgcactgagaataaCgtctgggctcaagaagacag	12	8	10	11	1	2	3	1	1	1	3	4	4	4	3	2	1	2	2	2	1	4	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	43621583	C	T	43621583	3	4	38	1	0	0	0	0	1	0	0	0	8679	536	19	1	959	1	LCMT2	15	43621583	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10	2584285	43621583	58909809	52	2230											
ZKSCAN2	342357	hgsc.bcm.edu;ucsc.edu	37	chr16	25264266	25264266	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaagacaattacaatgtaCctgggacccagcaggaagcc	17	5	9	10	0	0	1	0	0	0	1	0	3	0	3	3	2	4	2	3	2	7	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	25264266	C	T	25264266	5	4	38	1	0	0	0	0	0	0	1	0	17686	521	18	2	2244	2	ZKSCAN2	16	25264266	Splice_Site	SNP	C	TCGA-AK-3434-01A-02D-1361-10		25264266	65090487	53	2231											
CNTNAP4	85445	hgsc.bcm.edu;ucsc.edu	37	chr16	76482716	76482716	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcaatctcaccctgggcagCctgctagatgatcagcattg	9	10	10	12	0	3	2	3	1	1	1	4	2	3	2	2	1	3	3	2	1	2	2	rs139295295	by1000genomes;alternate_allele	TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	76482716	C	A	76482716	3	1	38	1	0	0	0	0	1	0	0	0	3649	738	26	4	830	4	CNTNAP4	16	76482716	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10	51218450	76482716	13872037	54	2232											
C16orf55	124045	hgsc.bcm.edu	37	chr16	89735835	89735835	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccattcgggagccggaggActggggcccctaccggcggc	7	4	16	14	4	0	0	0	0	0	0	1	3	0	3	5	7	3	0	5	7	2	2	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	89735835	A	C	89735835	3	2	38	1	0	0	0	0	1	0	0	0	1820	275	10	5	360	5	C16orf55	16	89735835	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	13253119	89735835	618918	55	2233											
VTN	7448	hgsc.bcm.edu;ucsc.edu	37	chr17	26697201	26697201	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccagcagggccagtatGagaaggggtctcaggggtgc	9	6	17	9	0	1	1	1	1	1	1	2	2	1	1	2	5	3	2	2	5	2	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	26697201	G	T	26697201	2	4	38	1	0	0	0	0	0	0	0	1	17236	1277	45	4		4	VTN	17	26697201	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10		26697201	54498009	56	2234											
KCNH4	23415	hgsc.bcm.edu	37	chr17	40327694	40327694	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggaggccaatggaacgaGgagcagagattacctggccg	12	5	16	8	2	0	1	0	0	0	1	0	6	0	4	3	5	3	1	3	5	3	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	40327694	G	T	40327694	3	4	38	1	0	0	0	0	1	0	0	0	8034	1000	35	4	2207	4	KCNH4	17	40327694	Missense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	13630493	40327694	40867516	57	2235											
C1QL1	10882	hgsc.bcm.edu	37	chr17	43037729	43037729	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctgggcaatagcactggCccgcacctgcgggtggggga	6	6	17	12	2	0	0	0	0	0	0	1	1	1	1	3	5	2	3	3	5	2	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	43037729	C	T	43037729	3	4	38	1	0	0	0	0	1	0	0	0	1958	739	26	2	176	2	C1QL1	17	43037729	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10	2710035	43037729	38157481	58	2236											
ABCA8	10351	hgsc.bcm.edu	37	chr17	66933090	66933090	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattttagagccataaaattAcctgtatggtccttgtgctc	11	15	7	8	0	0	1	0	0	0	1	2	1	1	1	3	1	3	2	3	1	6	6	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	66933090	A	G	66933090	5	3	38	1	0	0	0	0	0	0	1	0	38	405	14	3	4417	3	ABCA8	17	66933090	Splice_Site	SNP	A	TCGA-AK-3434-01A-02D-1361-10	23895361	66933090	14262120	59	2237											
GRIN2C	2905	hgsc.bcm.edu	37	chr17	72842988	72842988	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacggtagttactgcggatGttccgctccgtgctgccgtt	4	13	12	12	5	1	0	1	0	0	0	3	1	3	1	3	2	4	6	3	2	2	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	72842988	G	A	72842988	2	1	38	1	0	0	0	0	0	0	0	1	6781	1368	48	2		2	GRIN2C	17	72842988	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10	5909898	72842988	8352222	60	2238											
MOCOS	55034	hgsc.bcm.edu	37	chr18	33848514	33848514	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaactttggcatgtacCtgatgcatgcatcattggat	10	13	11	7	0	1	2	1	2	0	0	1	3	1	3	1	3	4	4	1	3	2	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	33848514	C	G	33848514	3	3	38	1	0	0	0	0	1	0	0	0	9689	680	24	4	2591	4	MOCOS	18	33848514	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10		33848514	44228734	61	2239											
KLK10	5655	hgsc.bcm.edu	37	chr19	51519366	51519366	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtccggcggagctgctctcCctgaagaagcagcaggtggt	7	7	16	11	2	1	2	0	1	1	1	3	3	2	3	2	5	4	4	2	5	2	0	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	51519366	C	T	51519366	3	4	38	1	0	0	0	0	1	0	0	0	8398	632	22	2	526	2	KLK10	19	51519366	Missense_Mutation	SNP	C	TCGA-AK-3434-01A-02D-1361-10		51519366	7609617	62	2240											
SYNJ1	8867	hgsc.bcm.edu;ucsc.edu	37	chr21	34053894	34053894	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgaccgaaaaacttctTgaaagcgagtcaccaactga	16	8	7	10	2	2	3	1	3	1	0	2	5	2	3	2	0	3	0	2	0	4	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	34053894	T	G	34053894	3	3	38	1	0	0	0	0	1	0	0	0	15451	1812	63	5	3578	5	SYNJ1	21	34053894	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10		34053894	14076001	63	2241											
SGSM3	27352	hgsc.bcm.edu;ucsc.edu	37	chr22	40803848	40803848	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagctcaacggcctgcgagGtggggtccttggtctgctct	4	10	16	11	2	3	0	1	0	2	0	4	2	4	1	2	6	4	2	2	6	1	1	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	40803848	G	C	40803848	5	2	38	1	0	0	0	0	0	0	1	0	14226	1275	44	4	1630	4	SGSM3	22	40803848	Splice_Site	SNP	G	TCGA-AK-3434-01A-02D-1361-10		40803848	10500718	64	2242											
SREBF2	6721	hgsc.bcm.edu	37	chr22	42269953	42269953	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacccataatatcattgagaAacgatatcgctcctccatca	15	10	4	12	2	2	1	2	1	0	1	5	3	4	1	3	0	2	1	3	0	5	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	42269953	A	T	42269953	3	4	38	1	0	0	0	0	1	0	0	0	15143	14	1	5	1037	5	SREBF2	22	42269953	Missense_Mutation	SNP	A	TCGA-AK-3434-01A-02D-1361-10	1466105	42269953	9034613	65	2243											
TCF20	6942	hgsc.bcm.edu;ucsc.edu	37	chr22	42609902	42609902	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagaaagtaacatgtgctgGacagtgttaggaagattggc	13	10	13	5	0	1	2	1	0	0	2	1	4	1	4	0	3	2	3	0	3	4	3	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		T	42609902	G	T	42609902	2	4	38	1	0	0	0	0	0	0	0	1	15689	1161	41	4		4	TCF20	22	42609902	Silent	SNP	G	TCGA-AK-3434-01A-02D-1361-10	339949	42609902	8694664	66	2244											
RPGR	6103	hgsc.bcm.edu;ucsc.edu	37	chrX	38180284	38180284	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgagcactatacctgtTgacaccagggtgtggttcct	8	12	12	9	0	0	2	0	2	0	0	1	2	1	2	3	3	2	4	3	3	2	5	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		G	38180284	T	G	38180284	2	3	38	1	0	0	0	0	0	0	0	1	13550	1799	63	5		5	RPGR	23	38180284	Silent	SNP	T	TCGA-AK-3434-01A-02D-1361-10		38180284	117090276	67	2245											
ALAS2	212	hgsc.bcm.edu	37	chrX	55051156	55051156	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacttgactccaacctgtcTtgaaagccttcacatcttcc	10	12	5	14	0	3	2	1	2	2	0	5	3	5	2	4	0	3	0	4	0	3	4	novel		TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		C	55051156	T	C	55051156	3	2	38	1	0	0	0	0	1	0	0	0	485	1609	56	3	1500	3	ALAS2	23	55051156	Missense_Mutation	SNP	T	TCGA-AK-3434-01A-02D-1361-10	16870872	55051156	100219404	68	2246											
CXorf40B	541578	hgsc.bcm.edu;ucsc.edu	37	chrX	149100904	149100904	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcttcaggttggtcagtGcagcttgattttctagttcc	5	17	10	9	0	4	1	2	1	2	0	5	1	5	1	1	2	3	5	1	2	1	7	rs151337313	byfrequency	TCGA-AK-3434-01A-02D-1361-10	TCGA-AK-3434-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d2b9053e-2461-4bd1-b205-ae2c7b9c5289	d2ac612a-347f-4541-b95d-973e85021530		A	149100904	G	A	149100904	3	1	38	1	0	0	0	0	1	0	0	0	4109	1319	46	2	145	2	CXorf40B	23	149100904	Missense_Mutation	SNP	G	TCGA-AK-3434-01A-02D-1361-10	94049748	149100904	6169656	69	2247											
ATAD3C	219293	hgsc.bcm.edu	37	chr1	1391612	1391612	+	Frame_Shift_Del	DEL	C	C	-																															tcttcttgtccagaaactcgCcctgcactcaggcatggact																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		-	1391612	C	-	1391612	7	5	39	1	0	1	0	1	0	0	0	0	1075	739	26	0	598	0	ATAD3C	1	1391612	Frame_Shift_Del	DEL	C	TCGA-AK-3436-01A-02D-1386-10		1391612	247859009	1	2248											
RCC2	55920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17739593	17739593	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaggctccggattctcCagccgcagaggtcctgcact	8	7	11	15	2	1	1	0	0	1	1	4	2	3	2	5	3	3	3	5	3	1	1	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	17739593	C	T	17739593	4	4	39	1	0	0	0	0	0	1	0	0	13176	595	21	2	295	2	RCC2	1	17739593	Nonsense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10	16347981	17739593	231511028	2	2249											
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62288675	62288675	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattcctttgatgggcaccAttatatttcttcaattgttt	8	19	7	7	0	2	1	1	1	1	0	3	2	3	2	2	2	0	2	2	2	3	8	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	62288675	A	G	62288675	3	3	39	1	0	0	0	0	1	0	0	0	7731	217	8	3	1796	3	INADL	1	62288675	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10	44549082	62288675	186961946	3	2250											
ELTD1	64123	broad.mit.edu;ucsc.edu	37	chr1	79387470	79387470	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcctatacctatctgtgAcctgaaaaaaagatacttta	15	12	5	9	0	1	3	0	2	1	1	2	4	2	3	3	0	2	0	3	0	8	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	79387470	C	C	79387470	3	2	39	1	0	0	0	0	1	0	0	0	5084	289	10	5	1015	5	ELTD1	1	79387470	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10	17098795	79387470	169863151	4	2251											
PGLYRP3	114771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153271694	153271694	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatacacgccaccatcctGgcccaccaggaagcttaggt	10	8	8	15	1	1	0	1	0	0	0	2	1	2	1	5	3	2	1	5	3	3	3	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	153271694	G	A	153271694	4	1	39	1	0	0	0	0	0	1	0	0	11795	1357	47	2	291	2	PGLYRP3	1	153271694	Nonsense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	73884224	153271694	95978927	5	2252											
ASH1L	55870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155449218	155449218	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccttcttcattgcaagaGtctgaatcatactgccctgt	9	13	8	11	0	4	2	2	1	2	1	4	2	4	2	2	1	3	1	2	1	3	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	155449218	G	A	155449218	3	1	39	1	0	0	0	0	1	0	0	0	1041	1029	36	2	5555	2	ASH1L	1	155449218	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	2177524	155449218	93801403	6	2253											
NRXN1	9378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	50149352	50149352	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatcacttctgctgagccTggatacggctctctgccgcc	5	10	11	15	3	3	1	1	1	2	0	4	3	3	3	3	3	4	2	3	3	1	2	rs55923848	bycluster;byfrequency;alternate_allele	TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	50149352	T	A	50149352	2	1	39	1	0	0	0	0	0	0	0	1	10665	1567	55	5		5	NRXN1	2	50149352	Silent	SNP	T	TCGA-AK-3436-01A-02D-1386-10		50149352	193050021	7	2254											
SNRNP27	11017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	70122252	70122252	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttcccggtccacatccCgggagagagaacgcaggcgc	8	4	15	14	5	0	2	0	0	0	2	3	4	3	2	3	4	1	2	3	4	1	1	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	70122252	C	T	70122252	3	4	39	1	0	0	0	0	1	0	0	0	14856	643	23	1	67	1	SNRNP27	2	70122252	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10	19972900	70122252	173077121	8	2255											
STAMBP	10617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74087228	74087228	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactagaggagatttcttccTgtcgccagaaaggatttcat	11	12	10	8	1	2	3	1	0	1	3	4	6	3	4	2	2	0	0	2	2	2	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	74087228	T	C	74087228	3	2	39	1	0	0	0	0	1	0	0	0	15251	1580	55	3	1198	3	STAMBP	2	74087228	Missense_Mutation	SNP	T	TCGA-AK-3436-01A-02D-1386-10	3964976	74087228	169112145	9	2256											
SLC9A2	6549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	103281704	103281704	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttatagcggcatttactaCtcgattcacccataatatcc	11	14	4	12	2	1	0	1	0	0	0	3	1	2	0	2	1	3	1	2	1	6	9	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	103281704	C	G	103281704	3	3	39	1	0	0	0	0	1	0	0	0	14714	565	20	4	909	4	SLC9A2	2	103281704	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10	29194476	103281704	139917669	10	2257											
UBR3	130507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170885902	170885902	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgcggctttatagcatTgactctgagtataatccctg	10	13	8	10	1	1	2	0	2	1	0	2	2	2	2	1	1	2	3	1	1	4	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	170885902	T	A	170885902	2	1	39	1	0	0	0	0	0	0	0	1	16902	1800	63	5		5	UBR3	2	170885902	Silent	SNP	T	TCGA-AK-3436-01A-02D-1386-10	67604198	170885902	72313471	11	2258											
PDE11A	50940	hgsc.bcm.edu	37	chr2	178936994	178936994	+	Frame_Shift_Del	DEL	A	A	-																															ctgtgagccaagctgctggtAccagccaaagagggccttgg																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		-	178936994	A	-	178936994	7	5	39	1	0	1	0	1	0	0	0	0	11631	378	14	0	2710	0	PDE11A	2	178936994	Frame_Shift_Del	DEL	A	TCGA-AK-3436-01A-02D-1386-10	8051092	178936994	64262379	12	2259											
AOX1	316	broad.mit.edu;ucsc.edu	37	chr2	201533423	201533423	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcattctgcacactcgtgGtccagaccaatataaaatcc	12	9	8	12	1	1	1	0	0	1	1	4	1	3	1	3	2	1	2	3	2	4	3	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	201533423	T	T	201533423	3	4	39	1	0	0	0	0	1	0	0	0	729	1261	44	4	3825	4	AOX1	2	201533423	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	22596429	201533423	41665950	13	2260											
IDH1	3417	broad.mit.edu;ucsc.edu	37	chr2	209108295	209108295	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttcaattgacttatctTgattatacatccccatggca	12	15	4	10	0	3	2	1	2	2	0	4	2	4	2	2	1	1	1	2	1	5	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	209108295	G	G	209108295	3	3	39	1	0	0	0	0	1	0	0	0	7494	1812	63	5	710	5	IDH1	2	209108295	Missense_Mutation	SNP	T	TCGA-AK-3436-01A-02D-1386-10	7574872	209108295	34091078	14	2261											
C2orf67	0	broad.mit.edu;ucsc.edu	37	chr2	210889826	210889826	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttttaaatttgtaacctGcctgctgtttcttctgtgcc	5	18	9	9	0	2	0	0	0	2	0	2	0	2	0	3	1	4	4	3	1	3	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	210889826	A	A	210889826	5	1	39	1	0	0	0	0	0	0	1	0	2186	1333	46	2	409	2	C2orf67	2	210889826	Splice_Site	SNP	G	TCGA-AK-3436-01A-02D-1386-10	1781531	210889826	32309547	15	2262											
ALPPL2	251	hgsc.bcm.edu	37	chr2	233271669	233271669	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccctgggcatcatccCaggtaatgaggctcccccag	7	8	10	16	0	2	1	1	1	1	0	5	1	4	1	4	3	0	4	4	3	1	1	rs41415150		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	233271669	C	T	233271669	3	4	39	1	0	0	0	0	1	0	0	0	549	594	21	2	67	2	ALPPL2	2	233271669	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10	22381843	233271669	9927704	16	2263											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52621464	52621464	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttctagaaattttcGtgtagccaggtggaatgttt	8	19	9	5	1	2	1	0	0	2	1	3	2	2	2	1	2	1	2	1	2	4	8	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	52621464	G	A	52621464	4	1	39	1	0	0	0	0	0	1	0	0	11491	1153	40	1	1920	1	PBRM1	3	52621464	Nonsense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10		52621464	145400966	17	2264											
CLRN1	7401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150659493	150659493	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaataaggatggcagagaaGagaatgacattgacgtggat	17	7	13	4	1	0	4	0	2	0	2	0	8	0	6	0	3	0	1	0	3	4	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	150659493	G	T	150659493	2	4	39	1	0	0	0	0	0	0	0	1	3557	929	33	4		4	CLRN1	3	150659493	Silent	SNP	G	TCGA-AK-3436-01A-02D-1386-10	98038029	150659493	47362937	18	2265											
TRIM59	286827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	160156326	160156326	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatttgtggagtatattcttGattaattagattgccaacat	13	17	7	4	0	1	2	0	1	1	1	1	3	1	3	1	1	2	1	1	1	6	8	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	160156326	G	C	160156326	3	2	39	1	0	0	0	0	1	0	0	0	16531	1299	45	4	569	4	TRIM59	3	160156326	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	9496833	160156326	37866104	19	2266											
MUC4	4585	broad.mit.edu	37	chr3	195510192	195510192	+	Silent	SNP	A	C	C																															gaggaagtgtcggtgacaggAagaggggtggtgtcacctgt																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	195510192	C	C	195510192	2	2	39	1	0	0	0	0	0	0	0	1	9978	233	9	5		5	MUC4	3	195510192	Silent	SNP	A	TCGA-AK-3436-01A-02D-1386-10	35353866	195510192	2512238	20	2267	31	2									
MUC4	4585	broad.mit.edu	37	chr3	195510194	195510194	+	Missense_Mutation	SNP	G	C	C																															ggaagtgtcggtgacaggaaGaggggtggtgtcacctgtgg																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	195510194	C	C	195510194	3	2	39	1	0	0	0	0	1	0	0	0	9978	942	33	4		4	MUC4	3	195510194	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	2	195510194	2512236	21	2268	31	2									
UBE2D3	7323	broad.mit.edu;ucsc.edu	37	chr4	103723780	103723780	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaaaagaatacaccgccttGatatgggctgtcattctgta	13	11	8	9	1	2	2	1	1	1	1	2	2	2	2	2	1	1	2	2	1	6	5	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	103723780	A	A	103723780	4	1	39	1	0	0	0	0	0	1	0	0	16849	1299	45	2	376	2	UBE2D3	4	103723780	Nonsense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10		103723780	87430496	22	2269											
PAPSS1	9061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	108608293	108608293	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatacttcaaaaaacggtAaacttgcaccttcatgaatt	17	11	4	9	1	2	1	2	1	0	0	2	1	2	1	1	1	4	2	1	1	8	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	108608293	A	C	108608293	4	2	39	1	0	0	0	0	0	1	0	0	11434	372	13	5	1458	5	PAPSS1	4	108608293	Nonsense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10	4884513	108608293	82545983	23	2270											
TMEM154	201799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	153564272	153564272	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgttcatccatttatcaAgctcttccatttcaatttcc	8	18	3	12	0	4	0	3	0	1	0	7	0	7	0	3	0	2	3	3	0	3	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	153564272	A	T	153564272	3	4	39	1	0	0	0	0	1	0	0	0	16070	72	3	5	117	5	TMEM154	4	153564272	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10	44955979	153564272	37590004	24	2271											
FNIP2	57600	broad.mit.edu;ucsc.edu	37	chr4	159789371	159789371	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctactttctccgttgctCtgagctacaagagaaccagc	10	10	8	13	1	2	2	0	1	2	1	3	4	2	2	3	0	6	3	3	0	4	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	159789371	A	A	159789371	3	1	39	1	0	0	0	0	1	0	0	0	5976	913	32	4	1633	4	FNIP2	4	159789371	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10	6225099	159789371	31364905	25	2272											
CDH12	1010	broad.mit.edu;ucsc.edu	37	chr5	21760751	21760751	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgcccagcaggtgaaaGatctcggtctgcagcactga	9	10	12	10	1	2	3	0	2	2	1	3	3	2	3	1	2	4	4	1	2	1	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	21760751	T	T	21760751	3	4	39	1	0	0	0	0	1	0	0	0	3098	942	33	4	847	4	CDH12	5	21760751	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10		21760751	159154509	26	2273											
URGCP	55665	broad.mit.edu;hgsc.bcm.edu	37	chr7	43918173	43918173	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	attggtgcccaagttgaggtCccgatgccagaagcagtccc	9	8	12	12	1	0	2	0	1	0	1	2	3	2	2	4	2	3	2	4	2	2	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	43918173	C	G	43918173	3	3	39	1	0	0	0	0	1	0	0	0	17025	855	30	4	1910	4	URGCP	7	43918173	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10		43918173	115220490	27	2274											
PHTF2	57157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	77469587	77469587	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaataaatggcgtccaaagtCacagatgctatagtctggta	14	10	10	7	1	2	1	1	0	1	1	3	2	3	1	1	2	1	2	1	2	7	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	77469587	C	G	77469587	2	3	39	1	0	0	0	0	0	0	0	1	11863	813	29	4		4	PHTF2	7	77469587	Silent	SNP	C	TCGA-AK-3436-01A-02D-1386-10	33551414	77469587	81669076	28	2275											
ANGPT1	284	broad.mit.edu;hgsc.bcm.edu	37	chr8	108348486	108348486	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtatctcaagtcgagaaGtttgatttagtaccttaaga	12	14	9	6	1	1	3	1	1	1	2	3	4	1	3	1	0	1	4	1	0	6	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	108348486	G	T	108348486	3	4	39	1	0	0	0	0	1	0	0	0	610	1029	36	4	1057	4	ANGPT1	8	108348486	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10		108348486	38015536	29	2276											
NET1	10276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5494480	5494480	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaccagggagatcagaCggcaggaggtatgctggcac	11	5	14	11	1	2	2	2	0	0	2	2	4	2	3	2	5	1	4	2	5	1	1	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	5494480	C	T	5494480	3	4	39	1	0	0	0	0	1	0	0	0	10338	527	19	1	638	1	NET1	10	5494480	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10		5494480	130040267	30	2277											
CUEDC2	79004	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104184284	104184284	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcatcgctcagctgcccTgagagcttctgcatcatgtc	6	11	10	14	1	3	1	2	1	1	1	5	2	3	1	1	1	4	5	1	1	0	1	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	104184284	T	A	104184284	2	1	39	1	0	0	0	0	0	0	0	1	4053	1567	55	5		5	CUEDC2	10	104184284	Silent	SNP	T	TCGA-AK-3436-01A-02D-1386-10	98689804	104184284	31350463	31	2278											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92088147	92088147	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttggcactgtcattgctTggcttgagacccatgatcca	7	13	10	11	0	1	2	1	2	0	1	2	3	2	2	2	2	1	4	2	2	0	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	92088147	T	C	92088147	3	2	39	1	0	0	0	0	1	0	0	0	5691	1812	63	3	2871	3	FAT3	11	92088147	Missense_Mutation	SNP	T	TCGA-AK-3436-01A-02D-1386-10		92088147	42918369	32	2279											
KRT6B	3854	broad.mit.edu;hgsc.bcm.edu	37	chr12	52842629	52842629	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcccctcaccatacctgCttcttgacgtggtcgatctc	6	13	7	15	2	3	1	1	1	2	0	5	2	3	1	4	1	3	1	4	1	1	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	52842629	C	A	52842629	3	1	39	1	0	0	0	0	1	0	0	0	8481	796	28	4	510	4	KRT6B	12	52842629	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10		52842629	81009266	33	2280											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu	37	chr12	57577934	57577934	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctcaatggctccttccGctacgtggtgatctcccagg	5	10	11	15	3	2	1	1	1	1	0	5	1	4	1	4	4	1	3	4	4	2	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	57577934	G	A	57577934	3	1	39	1	0	0	0	0	1	0	0	0	8951	1087	38	1	6142	1	LRP1	12	57577934	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	4735305	57577934	76273961	34	2281											
NAV3	89795	broad.mit.edu;ucsc.edu	37	chr12	78392214	78392214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcagagctttaacagcattGacaaaaacaagcctccaaat	17	8	6	10	0	1	2	1	1	0	1	2	2	2	2	2	0	5	2	2	0	5	3	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	78392214	A	A	78392214	3	1	39	1	0	0	0	0	1	0	0	0	10185	1290	45	2	864	2	NAV3	12	78392214	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	20814280	78392214	55459681	35	2282											
ATXN2	6311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	111923629	111923629	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatagatgggctaggttgtGcttgaggccgaggtgaagtt	8	11	16	6	1	0	3	0	2	0	1	0	4	0	3	2	4	1	4	2	4	3	5	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	111923629	G	A	111923629	3	1	39	1	0	0	0	0	1	0	0	0	1211	1319	46	2	1152	2	ATXN2	12	111923629	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	33531415	111923629	21928266	36	2283											
SPPL3	121665	broad.mit.edu;ucsc.edu	37	chr12	121206288	121206288	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatgtaggctgagaaaaAtacctgccgagttggagaga	15	7	14	5	1	0	3	0	1	0	3	0	8	0	4	2	2	2	3	2	2	5	3	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	121206288	T	T	121206288	3	4	39	1	0	0	0	0	1	0	0	0	15091	101	4	5	557	5	SPPL3	12	121206288	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10	9282659	121206288	12645607	37	2284											
RSRC2	65117	broad.mit.edu;ucsc.edu	37	chr12	123003401	123003401	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctttcacgagacctaGatcttgagtgacttctgcct	8	14	7	12	1	3	4	1	2	2	2	3	5	3	4	3	0	2	0	3	0	2	5	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	123003401	T	T	123003401	3	4	39	1	0	0	0	0	1	0	0	0	13717	942	33	4	949	4	RSRC2	12	123003401	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	1797113	123003401	10848494	38	2285											
FREM2	341640	broad.mit.edu;ucsc.edu	37	chr13	39451341	39451341	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggttgtctgatggatccAtgggattcgggcaagagagt	8	12	15	6	1	2	2	0	1	2	1	4	5	3	4	1	4	0	2	1	4	1	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	39451341	G	G	39451341	3	3	39	1	0	0	0	0	1	0	0	0	6045	217	8	3	8714	3	FREM2	13	39451341	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10		39451341	75718537	39	2286											
STK24	8428	hgsc.bcm.edu;ucsc.edu	37	chr13	99118770	99118771	+	Frame_Shift_Ins	INS	-	-	A																															tcggaatgaggtggttccccINStcttgcaagttcaatagctg																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	99118771	-	A	99118770	7	5	39	1	0	1	1	0	0	0	0	0	15294	681	24	0	676	0	STK24	13	99118770	Frame_Shift_Ins	INS	-	TCGA-AK-3436-01A-02D-1386-10	59667429	99118770	16051108	40	2287											
TCF12	6938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57458628	57458628	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagagagaggctcattttcCctgtacagcagagatactgg	11	10	11	9	0	2	3	2	0	0	3	3	5	3	3	1	2	3	3	1	2	2	4	rs147522860	alternate_allele	TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	57458628	C	A	57458628	2	1	39	1	0	0	0	0	0	0	0	1	15686	610	22	4		4	TCF12	15	57458628	Silent	SNP	C	TCGA-AK-3436-01A-02D-1386-10		57458628	45072764	41	2288											
FAH	2184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	80452758	80452758	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttctgtgtttcagtgcattCatctcccaggcttctgccac	5	15	8	13	0	5	0	2	0	3	0	6	0	5	0	2	1	2	4	2	1	0	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	80452758	C	T	80452758	2	4	39	1	0	0	0	0	0	0	0	1	5371	825	29	2		2	FAH	15	80452758	Silent	SNP	C	TCGA-AK-3436-01A-02D-1386-10	22994130	80452758	22078634	42	2289											
MSLNL	401827	hgsc.bcm.edu	37	chr16	830807	830829	+	Frame_Shift_Del	DEL	AGCTGTGTGCACGGGTAGGTGAA	AGCTGTGTGCACGGGTAGGTGAA	-																															ggtgtgcacgggtaggtgacAgctgtgtgcacgggtaggtg																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	AGCTGTGTGCACGGGTAGGTGAA	AGCTGTGTGCACGGGTAGGTGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		-	830829	AGCTGTGTGCACGGGTAGGTGAA	-	830807	7	5	39	1	0	1	0	1	0	0	0	0	9882	188	7	0	3023	0	MSLNL	16	830807	Frame_Shift_Del	DEL	AGCTGTGTGCACGGGTAGGTGAA	TCGA-AK-3436-01A-02D-1386-10		830807	89523946	43	2290											
MYH1	4619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10408350	10408350	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcacattcatgaaggcaCggacattgtactggatgcag	11	10	11	9	1	2	1	2	1	0	0	2	3	2	3	0	3	2	4	0	3	2	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	10408350	C	T	10408350	3	4	39	1	0	0	0	0	1	0	0	0	10029	536	19	1	3427	1	MYH1	17	10408350	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10		10408350	70786860	44	2291											
MYH1	4619	broad.mit.edu;hgsc.bcm.edu	37	chr17	10409332	10409332	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tatcagaaatgtcttaccagGagttttagtttcattgggga	11	15	10	5	0	3	1	2	0	1	1	3	3	3	3	1	3	1	2	1	3	4	6	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	10409332	G	C	10409332	3	2	39	1	0	0	0	0	1	0	0	0	10029	1174	41	4	3858	4	MYH1	17	10409332	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	982	10409332	70785878	45	2292											
RPL19	6143	hgsc.bcm.edu	37	chr17	37360844	37360844	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccgtgaagagcgcctccaGgccaagaaggaggagatcat	12	4	14	11	3	1	4	1	1	0	3	2	6	2	5	4	3	1	0	4	3	3	0	rs72823350	bycluster;by1000genomes	TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	37360844	G	A	37360844	2	1	39	1	0	0	0	0	0	0	0	1	13568	991	35	2		2	RPL19	17	37360844	Silent	SNP	G	TCGA-AK-3436-01A-02D-1386-10	26951512	37360844	43834366	46	2293											
KRTAP9-4	85280	hgsc.bcm.edu	37	chr17	39406343	39406343	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccagagctgtggctccaActgctgccagccctgctgcc	8	7	10	16	0	0	1	0	0	0	1	1	1	1	1	5	1	8	4	5	1	2	0	rs76766237		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	39406343	A	G	39406343	3	3	39	1	0	0	0	0	1	0	0	0	8575	43	2	3	373	3	KRTAP9-4	17	39406343	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10	2045499	39406343	41788867	47	2294											
ZNF519	162655	hgsc.bcm.edu	37	chr18	14105166	14105249	+	In_Frame_Del	DEL	TTCTCTCCAGTATGGATTCTTTGATGTCGAGTAAGGTGTGAGCCCCTGTTAAAGGCTTTGCCACATTCTTTACATTTGAAGTGT	TTCTCTCCAGTATGGATTCTTTGATGTCGAGTAAGGTGTGAGCCCCTGTTAAAGGCTTTGCCACATTCTTTACATTTGAAGTGT	-																															attcttcacatttgaaagacTtctctccagtatggattctt																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	TTCTCTCCAGTATGGATTCTTTGATGTCGAGTAAGGTGTGAGCCCCTGTTAAAGGCTTTGCCACATTCTTTACATTTGAAGTGT	TTCTCTCCAGTATGGATTCTTTGATGTCGAGTAAGGTGTGAGCCCCTGTTAAAGGCTTTGCCACATTCTTTACATTTGAAGTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		-	14105249	TTCTCTCCAGTATGGATTCTTTGATGTCGAGTAAGGTGTGAGCCCCTGTTAAAGGCTTTGCCACATTCTTTACATTTGAAGTGT	-	14105166	7	5	39	1	0	1	0	1	0	0	0	0	17963	1609	56	0	253	0	ZNF519	18	14105166	In_Frame_Del	DEL	TTCTCTCCAGTATGGATTCTTTGATGTCGAGTAAGGTGTGAGCCCCTGTTAAAGGCTTTGCCACATTCTTTACATTTGAAGTGT	TCGA-AK-3436-01A-02D-1386-10		14105166	63972082	48	2295											
OR7D4	125958	broad.mit.edu;hgsc.bcm.edu	37	chr19	9325393	9325393	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaatgatgagcaggttccCcagcaccgtgaccaggtaca	12	6	11	12	1	0	4	0	3	0	1	1	4	1	4	4	2	3	4	4	2	2	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	9325393	C	T	9325393	3	4	39	1	0	0	0	0	1	0	0	0	11220	623	22	2	821	2	OR7D4	19	9325393	Missense_Mutation	SNP	C	TCGA-AK-3436-01A-02D-1386-10		9325393	49803590	49	2296											
SIGLEC5	8778	hgsc.bcm.edu	37	chr19	52131256	52131257	+	Frame_Shift_Ins	INS	-	-	G																															ggaaccagctcaggtgtgcaINSggggggttgctgggagcatc																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		G	52131257	-	G	52131256	7	5	39	1	0	1	1	0	0	0	0	0	14313	175	7	0	847	0	SIGLEC5	19	52131256	Frame_Shift_Ins	INS	-	TCGA-AK-3436-01A-02D-1386-10	42805863	52131256	6997727	50	2297											
C19orf51	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55670934	55670934	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcaagttccctccgggtGccacacaggccccaagctca	10	6	8	17	1	2	0	2	0	0	0	4	0	4	0	5	2	2	2	5	2	3	1	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	55670934	G	T	55670934	3	4	39	1	0	0	0	0	1	0	0	0	1933	1319	46	4	428	4	C19orf51	19	55670934	Missense_Mutation	SNP	G	TCGA-AK-3436-01A-02D-1386-10	3539678	55670934	3458049	51	2298											
SYT5	6861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55686305	55686305	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagcctccaggacgatgacGgtgagcttcccggccgtggg	6	8	15	12	4	0	2	0	2	0	0	2	4	2	3	4	4	2	1	4	4	1	2	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	55686305	G	A	55686305	2	1	39	1	0	0	0	0	0	0	0	1	15476	1103	39	1		1	SYT5	19	55686305	Silent	SNP	G	TCGA-AK-3436-01A-02D-1386-10	15371	55686305	3442678	52	2299											
B4GALT5	9334	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	48273175	48273175	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctcataaacctgagcaccGattgttctcacgttgtcccg	8	12	8	13	3	2	1	2	1	1	0	4	2	3	1	3	0	3	4	3	0	2	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	48273175	G	A	48273175	2	1	39	1	0	0	0	0	0	0	0	1	1274	1048	37	1		1	B4GALT5	20	48273175	Silent	SNP	G	TCGA-AK-3436-01A-02D-1386-10		48273175	14752345	53	2300											
RBM11	54033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	15592035	15592035	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagaccaattaacgtgcAgtatcgatttggtaggtcct	11	12	11	7	2	0	1	0	0	0	1	2	3	1	2	2	3	2	3	2	3	5	4	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		T	15592035	A	T	15592035	3	4	39	1	0	0	0	0	1	0	0	0	13114	188	7	5	254	5	RBM11	21	15592035	Missense_Mutation	SNP	A	TCGA-AK-3436-01A-02D-1386-10		15592035	32537860	54	2301											
CELSR1	9620	hgsc.bcm.edu	37	chr22	46759085	46759111	+	Frame_Shift_Del	DEL	CTGATGGTTCAAATTGAAGTTTCATTA	CTGATGGTTCAAATTGAAGTTTCATTA	-																															cgggcttgcctcacggtttcCtgatggttcaaattgaagtt																								novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	CTGATGGTTCAAATTGAAGTTTCATTA	CTGATGGTTCAAATTGAAGTTTCATTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		-	46759111	CTGATGGTTCAAATTGAAGTTTCATTA	-	46759085	7	5	39	1	0	1	0	1	0	0	0	0	3221	695	24	0	13	0	CELSR1	22	46759085	Frame_Shift_Del	DEL	CTGATGGTTCAAATTGAAGTTTCATTA	TCGA-AK-3436-01A-02D-1386-10		46759085	4545481	55	2302											
PPP1R3F	89801	broad.mit.edu;hgsc.bcm.edu	37	chrX	49143162	49143162	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagtccctgggggaggccggGacagaagcccagatagaggt	10	4	18	9	1	0	3	0	0	0	3	1	6	1	5	3	5	1	0	3	5	2	1	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		A	49143162	G	A	49143162	2	1	39	1	0	0	0	0	0	0	0	1	12377	1161	41	2		2	PPP1R3F	23	49143162	Silent	SNP	G	TCGA-AK-3436-01A-02D-1386-10		49143162	106127398	56	2303											
XIAP	331	broad.mit.edu	37	chrX	123025168	123025168	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacttgaggagtgtctggTaagtctcatataatttatat	11	17	8	5	0	3	1	2	1	2	0	4	2	3	2	0	2	0	1	0	2	5	8	novel		TCGA-AK-3436-01A-02D-1386-10	TCGA-AK-3436-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	714cd118-7f2b-47a5-83f6-41b20674ad03	593c9ff9-5933-4eed-9477-3c0fa7c9dc95		C	123025168	C	C	123025168	5	2	39	1	0	0	0	0	0	0	1	0	17427	1652	57	3	1068	3	XIAP	23	123025168	Splice_Site	SNP	T	TCGA-AK-3436-01A-02D-1386-10	73882006	123025168	32245392	57	2304											
GNB1	2782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1721888	1721888	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtctgccggcacatgccTtctcgcacatcccagagttt	8	10	9	14	2	2	1	0	0	2	1	4	1	3	1	3	2	2	3	3	2	1	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	1721888	T	G	1721888	3	3	40	1	0	0	0	0	1	0	0	0	6515	1606	56	5	389	5	GNB1	1	1721888	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08		1721888	247528733	1	2305											
ARID1A	8289	broad.mit.edu;hgsc.bcm.edu	37	chr1	27097703	27097703	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgaaaaagcagtatatcCagtgtctctatgcctttgaa	12	13	7	9	0	1	2	0	2	1	0	3	2	2	2	3	0	2	2	3	0	6	5	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	27097703	C	T	27097703	4	4	40	1	0	0	0	0	0	1	0	0	913	595	21	2	3338	2	ARID1A	1	27097703	Nonsense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	25375815	27097703	222152918	2	2306											
DLGAP3	58512	hgsc.bcm.edu;ucsc.edu	37	chr1	35365794	35365799	+	In_Frame_Del	DEL	GCTGCC	GCTGCC	-																															tcccccatggctttgatgtaGctgccgctccgcatcctgcg																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	GCTGCC	GCTGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	35365799	GCTGCC	-	35365794	7	5	40	1	0	1	0	1	0	0	0	0	4561	962	34	0	1787	0	DLGAP3	1	35365794	In_Frame_Del	DEL	GCTGCC	TCGA-AK-3444-01A-01D-0966-08	8268091	35365794	213884827	3	2307											
KLF17	128209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44596402	44596402	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaacaacaatggagagcagGacagtcctcctgctgctggt	12	7	11	11	0	0	1	0	0	0	1	2	3	2	2	2	3	5	3	2	3	3	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	44596402	G	T	44596402	3	4	40	1	0	0	0	0	1	0	0	0	8345	1174	41	4	1154	4	KLF17	1	44596402	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	9230608	44596402	204654219	4	2308											
TMEM61	199964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55457606	55457606	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcataccctacggaggaaGccctggagccaagtggatcg	10	6	13	12	2	0	0	0	0	0	0	1	4	0	4	3	4	5	1	3	4	4	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	55457606	G	T	55457606	3	4	40	1	0	0	0	0	1	0	0	0	16187	971	34	4	473	4	TMEM61	1	55457606	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	10861204	55457606	193793015	5	2309											
ALG6	29929	hgsc.bcm.edu;ucsc.edu	37	chr1	63902501	63902506	+	In_Frame_Del	DEL	TCTCAG	TCTCAG	-																															tttttccttgcagtttcttaTctcagtcatcactatggtgc																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	TCTCAG	TCTCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	63902506	TCTCAG	-	63902501	7	5	40	1	0	1	0	1	0	0	0	0	522	1435	50	0	1388	0	ALG6	1	63902501	In_Frame_Del	DEL	TCTCAG	TCGA-AK-3444-01A-01D-0966-08	8444895	63902501	185348120	6	2310											
PTPN22	26191	broad.mit.edu;hgsc.bcm.edu	37	chr1	114394727	114394727	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagttctcaggaattatCtatcaaattaaaggggaaaa	17	11	8	5	0	3	1	2	1	2	0	4	3	3	3	0	3	0	1	0	3	9	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	114394727	C	A	114394727	5	1	40	1	0	0	0	0	0	0	1	0	12789	927	32	4	1744	4	PTPN22	1	114394727	Splice_Site	SNP	C	TCGA-AK-3444-01A-01D-0966-08	50492226	114394727	134855894	7	2311											
PGLYRP4	57115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153303264	153303264	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtttgaaatgaggccaGgtgctgatgatgttgtacaa	11	12	13	5	0	0	4	0	4	0	0	0	4	0	4	1	2	2	4	1	2	3	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	153303264	G	C	153303264	2	2	40	1	0	0	0	0	0	0	0	1	11796	987	35	4		4	PGLYRP4	1	153303264	Silent	SNP	G	TCGA-AK-3444-01A-01D-0966-08	38908537	153303264	95947357	8	2312											
SOS1	6654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39281850	39281850	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atattgtcgaatttctgccaTaaatgcttttaccaaatcat	13	16	4	8	1	2	0	1	0	1	0	3	1	2	0	2	0	3	1	2	0	6	6	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	39281850	T	G	39281850	3	3	40	1	0	0	0	0	1	0	0	0	14938	1406	49	5	3452	5	SOS1	2	39281850	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08		39281850	203917523	9	2313											
SRBD1	55133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	45832575	45832575	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgctcttcttggcaatgaTgacatctagaagaaacagaa	14	11	8	8	1	3	5	0	2	3	3	4	5	3	5	0	1	1	2	0	1	5	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	45832575	T	A	45832575	2	1	40	1	0	0	0	0	0	0	0	1	15134	1451	51	5		5	SRBD1	2	45832575	Silent	SNP	T	TCGA-AK-3444-01A-01D-0966-08	6550725	45832575	197366798	10	2314											
DYSF	8291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71909676	71909676	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggcgccccgacacctccTtcctgtggtttacctcccca	5	9	7	20	2	0	0	0	0	0	0	3	1	3	0	9	2	1	1	9	2	1	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	71909676	T	A	71909676	3	1	40	1	0	0	0	0	1	0	0	0	4859	1609	56	5	6546	5	DYSF	2	71909676	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08	26077101	71909676	171289697	11	2315											
PCDP1	200373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	120388454	120388454	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccttagccatgtctctaGattatgatcctctgtatgtt	8	16	8	9	0	2	2	0	1	2	1	4	2	3	2	3	1	1	2	3	1	4	5	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	120388454	G	T	120388454	3	4	40	1	0	0	0	0	1	0	0	0	11572	942	33	4	1135	4	PCDP1	2	120388454	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	48478778	120388454	122810919	12	2316											
SAP130	79595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128757928	128757928	+	Missense_Mutation	SNP	G	G	A																															tggcgtccctaatgcagggtGagatggtagtgtgattcttg																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	128757928	G	A	128757928	3	1	40	1	0	0	0	0	1	0	0	0	13833	1290	45	2	2259	2	SAP130	2	128757928	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	8369474	128757928	114441445	13	2317	32	2									
SAP130	79595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128757929	128757929	+	Silent	SNP	A	A	G																															ggcgtccctaatgcagggtgAgatggtagtgtgattcttgt																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	128757929	A	G	128757929	2	3	40	1	0	0	0	0	0	0	0	1	13833	291	11	3		3	SAP130	2	128757929	Silent	SNP	A	TCGA-AK-3444-01A-01D-0966-08	1	128757929	114441444	14	2318	32	2									
TTN	7273	broad.mit.edu;hgsc.bcm.edu	37	chr2	179460510	179460510	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttaggttgtgagctaggaAtggtgttccaacgggacctg	8	11	16	6	1	0	1	0	1	0	0	1	3	1	3	2	5	2	4	2	5	4	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	179460510	A	G	179460510	3	3	40	1	0	0	0	0	1	0	0	0	16734	101	4	3	50680	3	TTN	2	179460510	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	50702581	179460510	63738863	15	2319											
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	212530141	212530141	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctgtaagccatctggaCatttttccacacagtttggg	8	12	8	13	0	1	0	0	0	1	0	2	1	2	1	4	2	1	2	4	2	1	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	212530141	C	A	212530141	3	1	40	1	0	0	0	0	1	0	0	0	5209	478	17	4	2204	4	ERBB4	2	212530141	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	33069631	212530141	30669232	16	2320											
ANKMY1	51281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241465702	241465702	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccacgtcagcactagcaaAgttgtccttcaggatcctac	10	9	8	14	2	2	0	2	0	0	0	4	1	4	1	3	1	3	3	3	1	3	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	241465702	A	G	241465702	3	3	40	1	0	0	0	0	1	0	0	0	634	72	3	3	2030	3	ANKMY1	2	241465702	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	28935561	241465702	1733671	17	2321											
C3orf32	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	8673776	8673776	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgcttatcctggattcaCtaaaggtctccagacggtac	10	11	8	12	2	2	1	1	0	1	1	5	2	3	2	2	3	1	2	2	3	4	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	8673776	C	A	8673776	3	1	40	1	0	0	0	0	1	0	0	0	2222	565	20	4	800	4	C3orf32	3	8673776	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08		8673776	189348654	18	2322											
VHL	7428	broad.mit.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	10183725	A	A	10183725	4	1	40	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	1509949	10183725	187838705	19	2323											
KALRN	8997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	124211627	124211627	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggagtggatcaagaacaTtcgagaagtgattcaagaaa	17	7	12	5	1	2	4	2	1	0	3	3	7	2	6	0	2	1	1	0	2	5	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	124211627	T	G	124211627	3	3	40	1	0	0	0	0	1	0	0	0	7975	1493	52	5	4850	5	KALRN	3	124211627	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08	114027902	124211627	73810803	20	2324											
PLXND1	23129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	129324804	129324804	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaagcggtggtcctccaGgctgcggttgcgcgggaaga	6	7	17	11	5	0	1	0	0	0	1	3	3	2	2	2	5	3	2	2	5	2	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	129324804	G	A	129324804	2	1	40	1	0	0	0	0	0	0	0	1	12127	991	35	2		2	PLXND1	3	129324804	Silent	SNP	G	TCGA-AK-3444-01A-01D-0966-08	5113177	129324804	68697626	21	2325											
FAM194A	131831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150398270	150398270	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccatcttcagagaaatGagtctgttcccttgatatta	11	14	6	10	0	4	3	2	2	2	1	5	4	5	3	2	0	0	1	2	0	3	5	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	150398270	G	T	150398270	3	4	40	1	0	0	0	0	1	0	0	0	5526	1290	45	4	919	4	FAM194A	3	150398270	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	21073466	150398270	47624160	22	2326											
B3GNT5	84002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182987783	182987783	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataccctgtctcttaagcAcacctcagcggggcctcgct	7	10	9	15	2	2	1	1	1	1	0	4	1	2	1	3	2	3	2	3	2	2	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	182987783	A	G	182987783	3	3	40	1	0	0	0	0	1	0	0	0	1260	159	6	3	199	3	B3GNT5	3	182987783	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	32589513	182987783	15034647	23	2327											
EHHADH	1962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184922240	184922240	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagacaggccgcgctgatgCtgttttccacgatgctccgg	6	9	14	12	4	0	2	0	1	0	1	2	4	2	2	3	3	2	4	3	3	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	184922240	C	T	184922240	3	4	40	1	0	0	0	0	1	0	0	0	4982	797	28	2	1305	2	EHHADH	3	184922240	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	1934457	184922240	13100190	24	2328											
TMEM184C	55751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148555434	148555434	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcaatttccattgcttcttCtatgccaccttcacccatgg	7	15	5	14	0	3	0	1	0	2	0	4	0	4	0	4	1	3	2	4	1	2	6	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	148555434	C	T	148555434	3	4	40	1	0	0	0	0	1	0	0	0	16105	913	32	2	1204	2	TMEM184C	4	148555434	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08		148555434	42598842	25	2329											
DNAH5	1767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	13865955	13865955	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atactgtgtagctggcaggcCaaaaagctcctctcctccag	10	9	9	13	0	1	0	0	0	1	0	4	0	3	0	4	2	3	4	4	2	4	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	13865955	C	A	13865955	3	1	40	1	0	0	0	0	1	0	0	0	4604	594	21	4	9909	4	DNAH5	5	13865955	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08		13865955	167049305	26	2330											
ZNF474	133923	hgsc.bcm.edu	37	chr5	121488450	121488461	+	In_Frame_Del	DEL	TGTGGAGCTCCA	TGTGGAGCTCCA	-																															atggaaaatgaccggctcccTgtggagctccaccagccact																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	TGTGGAGCTCCA	TGTGGAGCTCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	121488461	TGTGGAGCTCCA	-	121488450	7	5	40	1	0	1	0	1	0	0	0	0	17931	1567	55	0	767	0	ZNF474	5	121488450	In_Frame_Del	DEL	TGTGGAGCTCCA	TCGA-AK-3444-01A-01D-0966-08	107622495	121488450	59426810	27	2331											
PCDHGA3	56112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140724196	140724196	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagctggtgctggagcgggCcctggaccgtgagaaaaaag	11	5	17	8	2	0	2	0	1	0	2	0	5	0	4	2	4	3	2	2	4	3	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	140724196	C	T	140724196	3	4	40	1	0	0	0	0	1	0	0	0	11555	739	26	2	598	2	PCDHGA3	5	140724196	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	19235746	140724196	40191064	28	2332											
FGFR4	2264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176524604	176524604	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacctgctcctccagcgAttctgtcttcagccacgacc	7	9	7	18	2	3	0	1	0	2	0	5	2	5	0	5	0	4	2	5	0	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	176524604	A	C	176524604	3	2	40	1	0	0	0	0	1	0	0	0	5868	333	12	5	2472	5	FGFR4	5	176524604	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	35800408	176524604	4390656	29	2333											
CDSN	1041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31084879	31084879	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gttggcagagcagagccattCcctacttggaagctgctgct	8	10	12	11	0	0	2	0	0	0	2	1	3	1	3	2	2	6	6	2	2	2	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	31084879	C	G	31084879	2	3	40	1	0	0	0	0	0	0	0	1	3179	842	30	4		4	CDSN	6	31084879	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08		31084879	140030188	30	2334											
FBXO9	26268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	52943655	52943655	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatagagttcaagattacTtatacccggtctccagatgg	12	12	9	8	1	2	3	1	0	1	3	3	4	2	3	2	2	2	1	2	2	6	6	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	52943655	T	C	52943655	2	2	40	1	0	0	0	0	0	0	0	1	5762	1596	56	3		3	FBXO9	6	52943655	Silent	SNP	T	TCGA-AK-3444-01A-01D-0966-08	21858776	52943655	118171412	31	2335											
COL12A1	1303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	75827250	75827250	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcagccacaccaactacaAagacactgaaccctgcaaag	17	4	5	15	0	1	2	1	1	0	1	1	2	1	2	3	0	5	1	3	0	5	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	75827250	A	T	75827250	3	4	40	1	0	0	0	0	1	0	0	0	3669	14	1	5	1904	5	COL12A1	6	75827250	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	22883595	75827250	95287817	32	2336											
BACH2	60468	hgsc.bcm.edu	37	chr6	90660846	90660856	+	Frame_Shift_Del	DEL	CGGCCCCAGCT	CGGCCCCAGCT	-																															cctggatctctccaggcaggCggccccagctggggccgtgg																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	CGGCCCCAGCT	CGGCCCCAGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	90660856	CGGCCCCAGCT	-	90660846	7	5	40	1	0	1	0	1	0	0	0	0	1284	768	27	0	1558	0	BACH2	6	90660846	Frame_Shift_Del	DEL	CGGCCCCAGCT	TCGA-AK-3444-01A-01D-0966-08	14833596	90660846	80454221	33	2337											
RAET1G	353091	hgsc.bcm.edu	37	chr6	150240945	150240945	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgtcatagcaaagagaGtgagggtctgtggagaaagg	13	8	17	3	0	2	4	1	2	1	2	2	6	2	4	0	3	1	1	0	3	3	1	rs189388116	by1000genomes	TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	150240945	G	A	150240945	2	1	40	1	0	0	0	0	0	0	0	1	13002	1020	36	2		2	RAET1G	6	150240945	Silent	SNP	G	TCGA-AK-3444-01A-01D-0966-08	59580099	150240945	20874122	34	2338											
ARID1B	57492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	157522543	157522543	+	Frame_Shift_Del	DEL	G	G	-																															ccacccccaatcagaagggaGatcacctttcctcctggctc																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	157522543	G	-	157522543	7	5	40	1	0	1	0	1	0	0	0	0	914	933	33	0	4885	0	ARID1B	6	157522543	Frame_Shift_Del	DEL	G	TCGA-AK-3444-01A-01D-0966-08	7281598	157522543	13592524	35	2339											
SYNJ2	8871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	158464376	158464376	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggacgatggagtgtcatCttttgtccagatcagaggct	9	12	12	8	1	3	2	2	0	1	2	4	5	4	4	1	3	0	1	1	3	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	158464376	C	A	158464376	3	1	40	1	0	0	0	0	1	0	0	0	15452	913	32	4	758	4	SYNJ2	6	158464376	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	941833	158464376	12650691	36	2340											
TAGAP	117289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	159457430	159457430	+	Frame_Shift_Del	DEL	C	C	-																															gctggctttcctttctgacaCccctcgggacgtggtccctg																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	159457430	C	-	159457430	7	5	40	1	0	1	0	1	0	0	0	0	15536	507	18	0	574	0	TAGAP	6	159457430	Frame_Shift_Del	DEL	C	TCGA-AK-3444-01A-01D-0966-08	993054	159457430	11657637	37	2341											
FAM120B	84498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	170627090	170627090	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagagagcctggacaccgtCatgctctgcagagagaagct	11	7	12	11	1	2	3	1	0	1	3	2	6	2	4	2	1	4	3	2	1	2	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	170627090	C	T	170627090	2	4	40	1	0	0	0	0	0	0	0	1	5417	813	29	2		2	FAM120B	6	170627090	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	11169660	170627090	487977	38	2342											
KIAA0415	0	broad.mit.edu;ucsc.edu	37	chr7	4830219	4830219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcgagcctcgtcaccagCgtggtaaggcgggcgctggc	6	5	18	12	5	1	0	1	0	0	0	2	1	1	0	2	5	2	2	2	5	1	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	4830219	T	T	4830219	2	4	40	1	0	0	0	0	0	0	0	1	8175	767	27	1		1	KIAA0415	7	4830219	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08		4830219	154308444	39	2343											
PMS2	5395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6029494	6029494	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcactatcaaacattcCtatcaaagaggtctttaaaa	17	11	4	9	0	4	1	3	0	1	1	5	2	5	1	1	1	1	0	1	1	6	5	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	6029494	C	G	6029494	3	3	40	1	0	0	0	0	1	0	0	0	12143	690	24	4	1531	4	PMS2	7	6029494	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	1199275	6029494	153109169	40	2344											
VPS41	27072	broad.mit.edu	37	chr7	38807138	38807138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaaatgtcatcattaccGtgctgctatgtcatagtctc	10	14	8	9	1	4	1	3	1	1	0	5	1	4	1	1	0	3	2	1	0	5	3	rs139485137	bycluster;byfrequency;by1000genomes	TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	38807138	A	A	38807138	3	1	40	1	0	0	0	0	1	0	0	0	17209	1159	40	1	1378	1	VPS41	7	38807138	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	32777644	38807138	120331525	41	2345											
IKZF1	10320	broad.mit.edu;hgsc.bcm.edu	37	chr7	50467916	50467916	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggccaagttggtgccctCggagcgcgaggcgtccccga	7	5	15	14	5	0	0	0	0	0	0	2	3	1	1	4	4	2	1	4	4	2	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	50467916	C	T	50467916	3	4	40	1	0	0	0	0	1	0	0	0	7614	893	31	1	1177	1	IKZF1	7	50467916	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	11660778	50467916	108670747	42	2346											
STAG3	10734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99801730	99801730	+	Silent	SNP	G	G	A																															cattgttcccgaatcctgctGctgagcctcaagcaggtgcg																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	99801730	G	A	99801730	2	1	40	1	0	0	0	0	0	0	0	1	15245	1306	46	2		2	STAG3	7	99801730	Silent	SNP	G	TCGA-AK-3444-01A-01D-0966-08	49333814	99801730	59336933	43	2347	33	2									
STAG3	10734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99801731	99801731	+	Silent	SNP	C	C	T																															attgttcccgaatcctgctgCtgagcctcaagcaggtgcgc																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	99801731	C	T	99801731	2	4	40	1	0	0	0	0	0	0	0	1	15245	796	28	2		2	STAG3	7	99801731	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	1	99801731	59336932	44	2348	33	2									
SORBS3	10174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22414254	22414254	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtatcagacctggccaGgccctgggagcaagccctct	7	7	13	14	1	2	1	1	0	1	1	2	2	2	2	4	4	2	2	4	4	2	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	22414254	G	C	22414254	3	2	40	1	0	0	0	0	1	0	0	0	14931	1000	35	4	257	4	SORBS3	8	22414254	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08		22414254	123949768	45	2349											
ZBTB10	65986	broad.mit.edu;hgsc.bcm.edu	37	chr8	81412314	81412314	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtaaagattgaaaatgatGgttgtaatgtcgacgagggc	14	11	13	3	2	0	3	0	2	0	1	1	5	0	3	0	2	0	3	0	2	5	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	81412314	G	A	81412314	3	1	40	1	0	0	0	0	1	0	0	0	17522	1348	47	2	1564	2	ZBTB10	8	81412314	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	58998060	81412314	64951708	46	2350											
TOP1MT	116447	hgsc.bcm.edu	37	chr8	144403383	144403383	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcaccggcttctccacCggcactctgttgtagtagcg	6	10	10	15	3	3	0	1	0	2	0	4	0	3	0	3	2	1	6	3	2	2	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	144403383	C	A	144403383	2	1	40	1	0	0	0	0	0	0	0	1	16363	639	23	4		4	TOP1MT	8	144403383	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	62991069	144403383	1960639	47	2351											
KIAA1161	57462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34371724	34371724	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacgaacagctcgcgctcCacgccctcgccgaagcgcga	8	3	11	19	9	0	0	0	0	0	0	3	3	1	0	3	0	3	3	3	0	2	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	34371724	C	T	34371724	2	4	40	1	0	0	0	0	0	0	0	1	8211	581	21	2		2	KIAA1161	9	34371724	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08		34371724	106841707	48	2352											
FRMPD1	22844	broad.mit.edu;ucsc.edu	37	chr9	37708465	37708465	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaatgagcctgctgaagAcctttcctgggaacgagcag	12	7	12	10	1	0	3	0	2	0	1	1	6	1	4	3	1	5	2	3	1	4	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	37708465	G	G	37708465	3	3	40	1	0	0	0	0	1	0	0	0	6057	275	10	3	339	3	FRMPD1	9	37708465	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	3336741	37708465	103504966	49	2353											
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101765861	101765861	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggagaacccagaggaagggGtcactccagtaagtagctca	13	5	13	10	1	2	2	2	0	0	2	3	4	3	3	2	4	2	3	2	4	4	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	101765861	G	A	101765861	3	1	40	1	0	0	0	0	1	0	0	0	3672	1261	44	2	1222	2	COL15A1	9	101765861	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	64057396	101765861	39447570	50	2354											
RGS3	5998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116356377	116356377	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcctggctcctcctgtctGagtcccagccccggcttgtg	2	13	10	16	1	1	1	0	1	1	0	5	1	5	1	6	2	1	2	6	2	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	116356377	G	C	116356377	3	2	40	1	0	0	0	0	1	0	0	0	13308	1291	45	4	3597	4	RGS3	9	116356377	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	14590516	116356377	24857054	51	2355											
SARDH	1757	broad.mit.edu;ucsc.edu	37	chr9	136578237	136578237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggggcttgtggtcgggcGtgaaggattctgaaagaagg	9	9	18	5	2	2	3	1	2	1	1	3	4	2	4	0	6	0	1	0	6	3	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	136578237	A	A	136578237	3	1	40	1	0	0	0	0	1	0	0	0	13843	1145	40	1	1648	1	SARDH	9	136578237	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	20221860	136578237	4635194	52	2356											
WDR5	11091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	137007540	137007540	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtccaaccttattgtctcagGatccgtaagtgtggctgggg	7	12	13	9	1	1	0	1	0	1	0	4	1	3	1	3	4	1	2	3	4	3	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	137007540	G	A	137007540	3	1	40	1	0	0	0	0	1	0	0	0	17302	1174	41	2	458	2	WDR5	9	137007540	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	429303	137007540	4205891	53	2357											
PFKP	5214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	3151561	3151561	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaggccagccgcatgggAgtggaggcagtcatcgcctt	7	8	14	12	2	1	0	1	0	0	0	3	2	2	2	4	4	1	2	4	4	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	3151561	A	G	3151561	2	3	40	1	0	0	0	0	0	0	0	1	11766	291	11	3		3	PFKP	10	3151561	Silent	SNP	A	TCGA-AK-3444-01A-01D-0966-08		3151561	132383186	54	2358											
FGFBP3	143282	broad.mit.edu;hgsc.bcm.edu	37	chr10	93668183	93668183	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtcccagcggctgggcCggacgcacgctcccgggtcc	3	4	17	17	6	0	0	0	0	0	0	3	1	3	1	4	6	1	3	4	6	0	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	93668183	C	T	93668183	3	4	40	1	0	0	0	0	1	0	0	0	5862	652	23	1	236	1	FGFBP3	10	93668183	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	90516622	93668183	41866564	55	2359											
NOC3L	64318	hgsc.bcm.edu;ucsc.edu	37	chr10	96112093	96112093	+	Frame_Shift_Del	DEL	A	A	-																															ccatttgttccagattttccAaataaaacttgtattggcta																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	96112093	A	-	96112093	7	5	40	1	0	1	0	1	0	0	0	0	10514	131	5	0	1532	0	NOC3L	10	96112093	Frame_Shift_Del	DEL	A	TCGA-AK-3444-01A-01D-0966-08	2443910	96112093	39422654	56	2360											
MGEA5	10724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103565869	103565869	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaaatatggagactgagaCacatttggataacagaaagt	17	10	9	5	0	0	3	0	1	0	3	0	6	0	4	0	2	1	0	0	2	5	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	103565869	C	T	103565869	2	4	40	1	0	0	0	0	0	0	0	1	9555	465	17	2		2	MGEA5	10	103565869	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	7453776	103565869	31968878	57	2361											
OR51E1	143503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4674702	4674702	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgtggccacacacgctTcagagccctaggtgtcagtg	8	9	11	13	1	2	1	2	0	0	1	3	1	3	1	3	2	1	1	3	2	1	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	4674702	T	G	4674702	3	3	40	1	0	0	0	0	1	0	0	0	11094	1783	62	5	948	5	OR51E1	11	4674702	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08		4674702	130331814	58	2362											
OR2AG1	144125	broad.mit.edu;hgsc.bcm.edu	37	chr11	6806985	6806985	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaggaagaaagcccttgtCacctgctcttcccacctgac	9	8	10	14	0	2	2	1	1	1	1	3	4	3	4	4	2	2	1	4	2	2	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	6806985	C	T	6806985	2	4	40	1	0	0	0	0	0	0	0	1	10984	813	29	2		2	OR2AG1	11	6806985	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	2132283	6806985	128199531	59	2363											
SLC17A6	57084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22364829	22364829	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacccggaaaccgtggggAtgatccacggttccttcttt	7	10	13	11	3	1	1	0	1	1	0	3	4	3	4	4	5	1	1	4	5	1	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	22364829	A	C	22364829	3	2	40	1	0	0	0	0	1	0	0	0	14423	333	12	5	386	5	SLC17A6	11	22364829	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	15557844	22364829	112641687	60	2364											
OR9G9	504191	broad.mit.edu	37	chr11	56468430	56468430	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtggagctggcctgtggCgagaagggcggctataaaat	9	9	17	6	2	0	1	0	0	0	1	0	3	0	2	1	6	1	2	1	6	4	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	56468430	T	T	56468430	2	4	40	1	0	0	0	0	0	0	0	1	11252	755	27	1		1	OR9G9	11	56468430	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	34103601	56468430	78538086	61	2365											
INCENP	3619	broad.mit.edu;ucsc.edu	37	chr11	61908398	61908398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggtggtacggccccTccggacctttctgcacacag	6	9	11	15	2	2	0	0	0	2	0	3	1	3	1	4	4	3	3	4	4	1	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	61908398	C	C	61908398	3	2	40	1	0	0	0	0	1	0	0	0	7733	1551	54	3	1509	3	INCENP	11	61908398	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08	5439968	61908398	73098118	62	2366											
HEPHL1	341208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	93779079	93779079	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttctacaacaaagattcAgaaggtaaatatcaatcctt	16	13	5	7	0	3	2	2	0	1	2	4	2	4	2	1	1	2	2	1	1	8	7	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	93779079	A	C	93779079	2	2	40	1	0	0	0	0	0	0	0	1	7055	175	7	5		5	HEPHL1	11	93779079	Silent	SNP	A	TCGA-AK-3444-01A-01D-0966-08	31870681	93779079	41227437	63	2367											
CADM1	23705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	115102194	115102194	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctttctggatatcgatcatCagattacgtggtgggactac	9	14	10	8	2	4	1	2	0	2	1	5	4	4	3	0	3	2	0	0	3	3	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	115102194	C	T	115102194	2	4	40	1	0	0	0	0	0	0	0	1	2566	813	29	2		2	CADM1	11	115102194	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	21323115	115102194	19904322	64	2368											
TNFRSF1A	7132	hgsc.bcm.edu	37	chr12	6442919	6442919	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaccctttcggcatttggaGcagctgaggcagtgtctgag	7	11	13	10	1	2	2	1	2	1	0	3	3	2	3	1	3	2	4	1	3	0	2	rs104895249	alternate_allele	TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	6442919	G	A	6442919	2	1	40	1	0	0	0	0	0	0	0	1	16292	963	34	2		2	TNFRSF1A	12	6442919	Silent	SNP	G	TCGA-AK-3444-01A-01D-0966-08		6442919	127408976	65	2369											
PZP	5858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9305466	9305466	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggtgtgggctttgtgtccatCgcaagtttggggcacagtct	5	13	15	8	1	1	0	0	0	1	0	3	0	2	0	1	4	0	4	1	4	1	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	9305466	C	G	9305466	3	3	40	1	0	0	0	0	1	0	0	0	12871	884	31	4	397	4	PZP	12	9305466	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	2862547	9305466	124546429	66	2370											
LRP6	4040	broad.mit.edu;hgsc.bcm.edu	37	chr12	12278312	12278312	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtcataggggggtccaCtgcttccccccatgatactg	6	10	11	14	1	1	1	1	1	0	0	4	1	3	1	4	4	2	1	4	4	2	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	12278312	C	T	12278312	3	4	40	1	0	0	0	0	1	0	0	0	8962	565	20	2	486	2	LRP6	12	12278312	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	2972846	12278312	121573583	67	2371											
ST8SIA1	6489	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	22354654	22354654	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgggctgctcatgcatAttcacagagaagggccagaa	12	8	12	9	0	2	3	2	1	0	2	2	4	2	3	1	2	2	3	1	2	3	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	22354654	A	T	22354654	3	4	40	1	0	0	0	0	1	0	0	0	15232	446	16	5	171	5	ST8SIA1	12	22354654	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	10076342	22354654	111497241	68	2372											
NAV3	89795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	78362323	78362323	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagaaatggaaacttaaaagCcattctagggctgtttttca	15	12	8	6	0	2	1	1	0	1	1	2	2	2	2	1	2	2	2	1	2	6	5	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	78362323	C	G	78362323	3	3	40	1	0	0	0	0	1	0	0	0	10185	739	26	4	530	4	NAV3	12	78362323	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	56007669	78362323	55489572	69	2373											
POLR3B	55703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	106772092	106772092	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaaagttattcttatccaaGagcagctgtctaagaacagg	16	10	8	7	0	2	2	0	0	2	2	3	2	3	2	1	1	3	3	1	1	7	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	106772092	G	C	106772092	3	2	40	1	0	0	0	0	1	0	0	0	12229	943	33	4	574	4	POLR3B	12	106772092	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	28409769	106772092	27079803	70	2374											
POLE	5426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133226298	133226298	+	Frame_Shift_Del	DEL	T	T	-																															ggcgggaggctgccccaagaTttcctgccagggcacagtcg																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	133226298	T	-	133226298	7	5	40	1	0	1	0	1	0	0	0	0	12196	1493	52	0	3180	0	POLE	12	133226298	Frame_Shift_Del	DEL	T	TCGA-AK-3444-01A-01D-0966-08	26454206	133226298	625597	71	2375											
CARS2	79587	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	111335435	111335435	+	Frame_Shift_Del	DEL	T	T	-																															ccagggaccacgccgaccaaTttgccatacttgtctcctct																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	111335435	T	-	111335435	7	5	40	1	0	1	0	1	0	0	0	0	2658	1490	52	0	1116	0	CARS2	13	111335435	Frame_Shift_Del	DEL	T	TCGA-AK-3444-01A-01D-0966-08		111335435	3834443	72	2376											
NID2	22795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	52472479	52472479	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggcagtaggggtagactgCagttatcccgtagaggtgag	9	9	17	6	1	0	3	0	1	0	2	1	3	1	3	1	4	1	6	1	4	4	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	52472479	C	T	52472479	3	4	40	1	0	0	0	0	1	0	0	0	10415	710	25	2	42	2	NID2	14	52472479	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08		52472479	54877061	73	2377											
DYNC1H1	1778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102516411	102516411	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttccgcctcacaggttTgaaacttcaaggggccacgt	8	10	11	12	2	2	1	2	1	0	0	3	1	3	1	3	4	1	2	3	4	2	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	102516411	T	G	102516411	3	3	40	1	0	0	0	0	1	0	0	0	4841	1821	63	5	13994	5	DYNC1H1	14	102516411	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08	50043932	102516411	4833129	74	2378											
GJD2	57369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35045023	35045023	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaacccaatttccagggCatttcggaacaccacttgga	12	8	9	12	1	0	0	0	0	0	0	2	3	1	3	3	4	2	1	3	4	3	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	35045023	C	T	35045023	3	4	40	1	0	0	0	0	1	0	0	0	6417	710	25	2	347	2	GJD2	15	35045023	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08		35045023	67486369	75	2379											
SPINT1	6692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41136788	41136788	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgatggcccgcgcccgcctCgccccggccggcatccctgc	3	4	12	22	7	0	0	0	0	0	0	2	1	1	0	7	3	1	1	7	3	0	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	41136788	C	T	41136788	2	4	40	1	0	0	0	0	0	0	0	1	15069	871	31	1		1	SPINT1	15	41136788	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08	6091765	41136788	61394604	76	2380											
TGM5	9333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43552757	43552757	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctggagctctggaggtCtgtgagggccacttctagcc	6	12	13	10	0	4	1	0	1	4	0	4	3	4	3	2	4	2	1	2	4	1	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	43552757	C	A	43552757	3	1	40	1	0	0	0	0	1	0	0	0	15832	913	32	4	2179	4	TGM5	15	43552757	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	2415969	43552757	58978635	77	2381											
MCTP2	55784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	95001402	95001402	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgattgaaagaatctatAtggtacaggatattgtttca	13	15	10	3	0	2	3	1	2	1	1	2	4	2	4	0	3	1	3	0	3	6	8	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	95001402	A	G	95001402	3	3	40	1	0	0	0	0	1	0	0	0	9401	449	16	3	2437	3	MCTP2	15	95001402	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	51448645	95001402	7529990	78	2382											
CES2	8824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66976070	66976070	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attggggacaatggggatccCcagaccctccaagcgcagtt	10	7	12	12	1	0	1	0	0	0	1	2	3	2	3	4	4	1	2	4	4	2	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	66976070	C	G	66976070	2	3	40	1	0	0	0	0	0	0	0	1	3270	610	22	4		4	CES2	16	66976070	Silent	SNP	C	TCGA-AK-3444-01A-01D-0966-08		66976070	23378683	79	2383											
WSCD1	23302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6023803	6023803	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgagcgaggagcggcTgctctgcgtggagaacaaca	9	7	16	9	3	2	2	0	1	2	1	2	5	2	3	0	3	6	2	0	3	2	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	6023803	T	A	6023803	3	1	40	1	0	0	0	0	1	0	0	0	17405	1580	55	5	1580	5	WSCD1	17	6023803	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08		6023803	75171407	80	2384											
TOP3A	7156	broad.mit.edu;ucsc.edu	37	chr17	18188466	18188466	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggacttacttctttgcttTagccaccgcttcaatgaaaa	12	13	6	10	1	2	1	1	1	1	0	2	2	2	2	2	1	3	2	2	1	6	6	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	18188466	A	A	18188466	4	1	40	1	0	0	0	0	0	1	0	0	16366	1763	61	5	1158	5	TOP3A	17	18188466	Nonsense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08	12164663	18188466	63006744	81	2385											
DCAKD	79877	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	43112204	43112204	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggaacacctggatcActgagctcttgcctgaggca	8	9	12	12	0	2	2	1	2	1	0	2	4	2	4	2	3	4	4	2	3	1	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	43112204	A	G	43112204	3	3	40	1	0	0	0	0	1	0	0	0	4279	159	6	3	661	3	DCAKD	17	43112204	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	24923738	43112204	38083006	82	2386											
SNX11	29916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46198653	46198653	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctcaccgcctcccagtgAagaaaaggaccatttagaag	13	7	8	13	1	1	3	1	1	0	2	3	4	3	4	5	1	0	0	5	1	5	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	46198653	A	C	46198653	3	2	40	1	0	0	0	0	1	0	0	0	14884	246	9	5	618	5	SNX11	17	46198653	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08	3086449	46198653	34996557	83	2387											
HLF	3131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	53398085	53398085	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaagcgctcccgcgacGcccggaggctgaaagagaac	11	2	13	15	5	0	2	0	1	0	1	1	5	1	3	3	2	3	2	3	2	3	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	53398085	G	A	53398085	3	1	40	1	0	0	0	0	1	0	0	0	7214	1087	38	1	747	1	HLF	17	53398085	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	7199432	53398085	27797125	84	2388											
MRPL38	64978	broad.mit.edu	37	chr17	73898001	73898001	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggcatccagcgggacactgGctagacaggaataaggccag	12	4	14	11	2	0	1	0	0	0	1	1	3	1	3	2	5	1	2	2	5	3	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	73898001	C	C	73898001	3	2	40	1	0	0	0	0	1	0	0	0	9801	1217	42	4	783	4	MRPL38	17	73898001	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	20499916	73898001	7297209	85	2389											
TMC6	11322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76116777	76116777	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtccagcaacatgaggaCgaagtccatcaccaggaacc	13	5	10	13	2	1	1	1	1	0	0	3	4	3	3	4	2	3	1	4	2	3	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	76116777	C	T	76116777	3	4	40	1	0	0	0	0	1	0	0	0	15988	536	19	1	777	1	TMC6	17	76116777	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	2218776	76116777	5078433	86	2390											
RALBP1	10928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	9516929	9516929	+	Frame_Shift_Del	DEL	G	G	-																															agaggtccaagggaatccatGttttcaagaagcccagcttt																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	9516929	G	-	9516929	7	5	40	1	0	1	0	1	0	0	0	0	13014	1377	48	0	337	0	RALBP1	18	9516929	Frame_Shift_Del	DEL	G	TCGA-AK-3444-01A-01D-0966-08		9516929	68560319	87	2391											
CTAGE1	64693	hgsc.bcm.edu;ucsc.edu	37	chr18	19996490	19996491	+	Frame_Shift_Ins	INS	-	-	T																															gccgaccaattatcatgtgcINSttttttctcatggagaataa																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	19996491	-	T	19996490	7	5	40	1	0	1	1	0	0	0	0	0	3992	797	28	0	956	0	CTAGE1	18	19996490	Frame_Shift_Ins	INS	-	TCGA-AK-3444-01A-01D-0966-08	10479561	19996490	58080758	88	2392											
WDR18	57418	broad.mit.edu	37	chr19	994079	994079	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgtcctgtgcagcaccAtggagaaggtgggcggggcc	7	5	18	11	2	0	1	0	0	0	1	1	2	1	1	4	6	2	2	4	6	1	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		G	994079	G	G	994079	3	3	40	1	0	0	0	0	1	0	0	0	17277	217	8	3	1193	3	WDR18	19	994079	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08		994079	58134904	89	2393											
TMIGD2	126259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4298004	4298004	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtccacaaagagccttgTtatgttgccctcagcctcct	7	12	9	13	0	1	1	1	0	0	1	3	1	3	1	5	1	3	2	5	1	2	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	4298004	T	C	4298004	3	2	40	1	0	0	0	0	1	0	0	0	16230	1725	60	3	479	3	TMIGD2	19	4298004	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08	3303925	4298004	54830979	90	2394											
RNASEH2A	10535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12921170	12921170	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgaagaaatggcagttcgtgGagaaactgcaggacttggat	13	9	14	5	1	0	3	0	1	0	2	1	6	0	5	0	4	2	3	0	4	3	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	12921170	G	C	12921170	3	2	40	1	0	0	0	0	1	0	0	0	13414	1175	41	4	611	4	RNASEH2A	19	12921170	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	8623166	12921170	46207813	91	2395											
NUDT19	390916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	33183154	33183154	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgggcccggcgccattCagccgcaccgctttcccgtc	3	7	12	19	5	1	0	1	0	0	0	3	0	2	0	6	3	1	2	6	3	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	33183154	C	A	33183154	3	1	40	1	0	0	0	0	1	0	0	0	10736	825	29	4	290	4	NUDT19	19	33183154	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	20261984	33183154	25945829	92	2396											
MEGF8	1954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42848626	42848626	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgggcctgggccgcCtcctgggtgactgccaggcc	2	7	16	16	1	0	1	0	1	0	0	1	1	1	1	7	4	2	1	7	4	0	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	42848626	C	A	42848626	3	1	40	1	0	0	0	0	1	0	0	0	9463	681	24	4	1864	4	MEGF8	19	42848626	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	9665472	42848626	16280357	93	2397											
LIPE	3991	broad.mit.edu;hgsc.bcm.edu	37	chr19	42912198	42912198	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccaggttctgtgtgatcCgctcaaactcagccccacgc	7	9	9	16	3	3	1	2	1	1	0	5	1	5	1	4	1	2	2	4	1	1	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	42912198	C	T	42912198	3	4	40	1	0	0	0	0	1	0	0	0	8821	652	23	1	1672	1	LIPE	19	42912198	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	63572	42912198	16216785	94	2398											
KCNA7	3743	broad.mit.edu	37	chr19	49575301	49575301	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctcaccgggccggctgcgGctgcagcagcaagccccgtg	5	5	14	17	4	1	0	1	0	1	0	2	0	1	0	4	3	5	5	4	3	1	0	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	49575301	T	T	49575301	3	4	40	1	0	0	0	0	1	0	0	0	8008	1203	42	4	836	4	KCNA7	19	49575301	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	6663103	49575301	9553682	95	2399											
PRR12	57479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50098148	50098148	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacgggctcctgtcccctCatgacgtgctgcacctgaag	7	9	10	15	2	1	2	1	2	0	0	3	2	3	2	4	1	3	3	4	1	2	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	50098148	C	A	50098148	3	1	40	1	0	0	0	0	1	0	0	0	12586	826	29	4	570	4	PRR12	19	50098148	Missense_Mutation	SNP	C	TCGA-AK-3444-01A-01D-0966-08	522847	50098148	9030835	96	2400											
BACE2	25825	hgsc.bcm.edu	37	chr21	42598262	42598262	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgcactcctacatagacAcgtactttgacacagagagg	12	7	8	14	2	0	3	0	1	0	2	1	4	1	3	3	1	2	2	3	1	3	4	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	42598262	A	T	42598262	3	4	40	1	0	0	0	0	1	0	0	0	1282	159	6	5	388	5	BACE2	21	42598262	Missense_Mutation	SNP	A	TCGA-AK-3444-01A-01D-0966-08		42598262	5531633	97	2401											
UMODL1	89766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	43529671	43529671	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattgtgtctccccctggcaGactgggacgagtgtgtggac	6	10	15	10	1	1	1	0	0	1	1	2	5	1	3	2	3	0	1	2	3	0	1	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	43529671	G	A	43529671	5	1	40	1	0	0	0	0	0	0	1	0	16979	956	33	2	1557	2	UMODL1	21	43529671	Splice_Site	SNP	G	TCGA-AK-3444-01A-01D-0966-08	931409	43529671	4600224	98	2402											
MLC1	23209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50518782	50518782	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctagactcaccacattggcGttcctcctggagacggtgaa	9	9	11	12	2	1	3	1	1	0	2	3	4	3	3	3	3	0	2	3	3	2	3	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		T	50518782	G	T	50518782	3	4	40	1	0	0	0	0	1	0	0	0	9612	1136	40	4	857	4	MLC1	22	50518782	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08		50518782	785784	99	2403											
NHS	4810	broad.mit.edu;hgsc.bcm.edu	37	chrX	17742451	17742451	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagaggctagtatacgcTgctctctggttcattcacaa	11	11	9	10	1	3	1	2	0	1	1	4	2	3	1	0	2	2	5	0	2	4	5	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	17742451	T	C	17742451	3	2	40	1	0	0	0	0	1	0	0	0	10411	1580	55	3	1201	3	NHS	23	17742451	Missense_Mutation	SNP	T	TCGA-AK-3444-01A-01D-0966-08		17742451	137528109	100	2404											
PHKA2	5256	hgsc.bcm.edu;ucsc.edu	37	chrX	18961909	18961920	+	In_Frame_Del	DEL	AATTGCCTCAAG	AATTGCCTCAAG	-																															ccaaaaaggtccagttcatcAattgcctcaagagctgccta																								novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	AATTGCCTCAAG	AATTGCCTCAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		-	18961920	AATTGCCTCAAG	-	18961909	7	5	40	1	0	1	0	1	0	0	0	0	11844	126	5	0	3179	0	PHKA2	23	18961909	In_Frame_Del	DEL	AATTGCCTCAAG	TCGA-AK-3444-01A-01D-0966-08	1219458	18961909	136308651	101	2405											
VSIG4	11326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	65253460	65253460	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatctcctggaaccttgtGgctcacatgcaggcggccct	7	10	10	14	1	2	0	1	0	1	0	3	1	2	1	3	4	3	2	3	4	2	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		A	65253460	G	A	65253460	3	1	40	1	0	0	0	0	1	0	0	0	17224	1348	47	2	963	2	VSIG4	23	65253460	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	46291551	65253460	90017100	102	2406											
IDS	3423	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	148586585	148586585	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggtcgagttggcctgcGtttcggatccgagggcgacg	4	10	17	10	6	0	0	0	0	0	0	3	4	1	1	2	4	1	2	2	4	0	2	novel		TCGA-AK-3444-01A-01D-0966-08	TCGA-AK-3444-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ea794170-156d-4251-b899-abfd60b213b0	333c5bbe-e69c-408e-ac80-91b0d8ad44c1		C	148586585	G	C	148586585	3	2	40	1	0	0	0	0	1	0	0	0	7503	1145	40	4	1635	4	IDS	23	148586585	Missense_Mutation	SNP	G	TCGA-AK-3444-01A-01D-0966-08	83333125	148586585	6683975	103	2407											
SLC2A7	155184	hgsc.bcm.edu;ucsc.edu	37	chr1	9083076	9083076	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accatagaagcagcatgagcTtcccgtccatgaatgttgcg	11	9	10	11	2	0	3	0	2	0	1	2	3	2	3	3	0	4	4	3	0	3	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	9083076	T	G	9083076	3	3	41	1	0	0	0	0	1	0	0	0	14552	1609	56	5	1366	5	SLC2A7	1	9083076	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10		9083076	240167545	1	2408											
AKR7A3	22977	hgsc.bcm.edu	37	chr1	19612806	19612806	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacgtctccagctggaacCggagactgtcaggcttcagg	8	8	14	11	2	3	2	2	1	1	1	4	4	3	3	2	4	2	2	2	4	1	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	19612806	C	T	19612806	3	4	41	1	0	0	0	0	1	0	0	0	476	652	23	1	744	1	AKR7A3	1	19612806	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	10529730	19612806	229637815	2	2409											
PTAFR	5724	hgsc.bcm.edu	37	chr1	28476738	28476738	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaatggcctggtggaatttGctgtcctggaagcccagctc	7	12	12	10	0	0	0	0	0	0	0	2	2	1	2	3	4	3	2	3	4	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	28476738	G	C	28476738	3	2	41	1	0	0	0	0	1	0	0	0	12725	1310	46	4	237	4	PTAFR	1	28476738	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	8863932	28476738	220773883	3	2410											
TIE1	7075	hgsc.bcm.edu;ucsc.edu	37	chr1	43770962	43770962	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggtgacaccgctgtactTtctgcacgtgtgcacaagga	11	9	11	10	2	1	1	0	1	1	0	1	2	1	2	1	2	3	4	1	2	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	43770962	T	G	43770962	2	3	41	1	0	0	0	0	0	0	0	1	15892	1828	64	5		5	TIE1	1	43770962	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	15294224	43770962	205479659	4	2411											
MMACHC	25974	hgsc.bcm.edu	37	chr1	45966075	45966075	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttttggcttcgaggtttAccccttccaggttagtttat	5	18	8	10	1	0	0	0	0	0	0	3	1	2	0	4	3	1	4	4	3	3	9	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	45966075	A	C	45966075	3	2	41	1	0	0	0	0	1	0	0	0	9641	391	14	5	73	5	MMACHC	1	45966075	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	2195113	45966075	203284546	5	2412											
RBM15	64783	hgsc.bcm.edu	37	chr1	110883662	110883662	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcctctgcccttgactcaTtatgagctggtgacagatgc	8	11	10	12	0	2	4	1	3	1	1	2	4	2	4	2	1	4	1	2	1	1	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	110883662	T	G	110883662	3	3	41	1	0	0	0	0	1	0	0	0	13118	1490	52	5	1637	5	RBM15	1	110883662	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	64917587	110883662	138366959	6	2413											
CHI3L2	1117	hgsc.bcm.edu	37	chr1	111773534	111773534	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacaagagtgaagtgatgCtctaccagaccatcaacagt	15	7	10	9	0	2	4	1	2	1	2	2	5	2	5	2	1	3	1	2	1	4	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	111773534	C	T	111773534	3	4	41	1	0	0	0	0	1	0	0	0	3341	797	28	2	251	2	CHI3L2	1	111773534	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	889872	111773534	137477087	7	2414											
DISP1	84976	hgsc.bcm.edu;ucsc.edu	37	chr1	223116621	223116621	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctgcctgcatcatccGtggcctgaccattttcagca	6	13	7	15	1	3	1	2	1	1	0	5	1	5	1	5	1	3	2	5	1	0	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	223116621	G	A	223116621	2	1	41	1	0	0	0	0	0	0	0	1	4539	1132	40	1		1	DISP1	1	223116621	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10	111343087	223116621	26134000	8	2415											
KIF26B	55083	hgsc.bcm.edu	37	chr1	245850299	245850299	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccaaggccagccccgaCaacttgctcatcctgtctga	10	7	8	16	1	2	1	1	1	1	0	3	2	3	1	5	1	4	1	5	1	3	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	245850299	C	A	245850299	3	1	41	1	0	0	0	0	1	0	0	0	8295	477	17	4	4060	4	KIF26B	1	245850299	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	22733678	245850299	3400322	9	2416											
OR1C1	26188	hgsc.bcm.edu;ucsc.edu	37	chr1	247921568	247921568	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagtcaaagccaatcgtCgcaatgatgagcatgttccc	12	9	10	10	2	1	3	1	3	0	1	4	4	2	3	2	0	2	3	2	0	3	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	247921568	C	A	247921568	2	1	41	1	0	0	0	0	0	0	0	1	10952	871	31	4		4	OR1C1	1	247921568	Silent	SNP	C	TCGA-AK-3445-01A-02D-1361-10	2071269	247921568	1329053	10	2417											
GREB1	9687	hgsc.bcm.edu	37	chr2	11725903	11725903	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctagagagcgcaggcatgtCctgcgtgccgcaggttggct	6	8	15	12	3	0	1	0	0	0	1	1	2	1	1	3	3	3	5	3	3	1	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	11725903	C	A	11725903	3	1	41	1	0	0	0	0	1	0	0	0	6760	855	30	4	1061	4	GREB1	2	11725903	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10		11725903	231473470	11	2418											
ADCY3	109	hgsc.bcm.edu	37	chr2	25141268	25141268	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgtgtgcaccacacaggAgaccacggagatgatcacga	14	4	11	12	3	1	3	1	1	0	2	1	6	1	3	2	2	2	1	2	2	1	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	25141268	A	T	25141268	3	4	41	1	0	0	0	0	1	0	0	0	295	304	11	5	2929	5	ADCY3	2	25141268	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	13415365	25141268	218058105	12	2419											
TMEM17	200728	hgsc.bcm.edu	37	chr2	62733189	62733189	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcattggactctggacCggtccgattggaatcactga	9	10	10	12	2	3	1	2	1	1	0	4	5	4	4	3	4	0	0	3	4	1	2	rs17854454	bycluster;byfrequency;by1000genomes	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	62733189	C	T	62733189	3	4	41	1	0	0	0	0	1	0	0	0	16084	652	23	1	536	1	TMEM17	2	62733189	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	37591921	62733189	180466184	13	2420											
TRIM43	129868	hgsc.bcm.edu;ucsc.edu	37	chr2	96260870	96260870	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagaaatctatatgaggagGgaagaacagccttcctctgg	14	8	12	7	0	2	3	0	1	2	2	3	6	3	5	2	3	2	0	2	3	5	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	96260870	G	A	96260870	3	1	41	1	0	0	0	0	1	0	0	0	16517	1233	43	2	490	2	TRIM43	2	96260870	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	33527681	96260870	146938503	14	2421											
TGFBRAP1	9392	hgsc.bcm.edu;ucsc.edu	37	chr2	105889469	105889469	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtgggtgtgatactcttcTttctgcaggaaacaggggga	10	11	14	6	0	3	1	0	1	3	0	3	3	3	3	0	4	3	1	0	4	3	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	105889469	T	A	105889469	3	1	41	1	0	0	0	0	1	0	0	0	15823	1606	56	5	779	5	TGFBRAP1	2	105889469	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	9628599	105889469	137309904	15	2422											
STAT1	6772	hgsc.bcm.edu;ucsc.edu	37	chr2	191874614	191874614	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttaccagtcttgctttTctaaccactgtgccaggtac	7	15	6	13	0	2	0	0	0	2	0	3	0	3	0	4	1	5	2	4	1	3	7	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	191874614	T	A	191874614	3	1	41	1	0	0	0	0	1	0	0	0	15265	1783	62	5	2232	5	STAT1	2	191874614	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	85985145	191874614	51324759	16	2423											
DNAH7	56171	hgsc.bcm.edu;ucsc.edu	37	chr2	196753009	196753009	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttctaataaattcaacCgaaacagggaccattctgtc	13	12	6	10	1	3	0	1	0	2	0	4	2	3	1	2	1	3	1	2	1	5	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	196753009	C	T	196753009	2	4	41	1	0	0	0	0	0	0	0	1	4606	639	23	1		1	DNAH7	2	196753009	Silent	SNP	C	TCGA-AK-3445-01A-02D-1361-10	4878395	196753009	46446364	17	2424											
ESPNL	339768	hgsc.bcm.edu	37	chr2	239038912	239038912	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgcagacctgcagctTcggcgccgctgtcaggagta	8	8	13	12	3	1	2	1	0	0	2	2	3	1	3	2	2	3	5	2	2	1	3	rs57813708	bycluster;byfrequency;by1000genomes	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	239038912	T	C	239038912	2	2	41	1	0	0	0	0	0	0	0	1	5255	1770	62	3		3	ESPNL	2	239038912	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	42285903	239038912	4160461	18	2425											
ARPP21	10777	hgsc.bcm.edu;ucsc.edu	37	chr3	35835347	35835347	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagaacaaccttaggcTgattggcccacactgcccct	9	8	7	17	0	1	2	1	1	0	1	1	2	1	2	5	2	3	1	5	2	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	35835347	T	G	35835347	3	3	41	1	0	0	0	0	1	0	0	0	978	1580	55	5	2419	5	ARPP21	3	35835347	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10		35835347	162187083	19	2426											
PLXNB1	5364	hgsc.bcm.edu;ucsc.edu	37	chr3	48457028	48457028	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggccagcagaggtgatgTtggggtccaaggtatacttg	8	10	17	6	0	0	2	0	1	0	1	1	2	1	2	2	6	2	3	2	6	3	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	48457028	T	C	48457028	3	2	41	1	0	0	0	0	1	0	0	0	12123	1725	60	3	2729	3	PLXNB1	3	48457028	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	12621681	48457028	149565402	20	2427											
NPRL2	10641	hgsc.bcm.edu	37	chr3	50387111	50387111	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacctctagtgtggtcagAtagccagccagctttttaac	10	11	9	11	0	2	2	1	0	1	2	2	2	2	2	3	1	4	1	3	1	3	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	50387111	A	G	50387111	2	3	41	1	0	0	0	0	0	0	0	1	10597	340	12	3		3	NPRL2	3	50387111	Silent	SNP	A	TCGA-AK-3445-01A-02D-1361-10	1930083	50387111	147635319	21	2428											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52668676	52668676	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaataatcagggtatttttTctttgaaggcaaatggtaaa	14	15	9	3	0	2	1	1	1	1	0	2	1	2	1	0	3	0	4	0	3	7	8	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	52668676	T	A	52668676	4	1	41	1	0	0	0	0	0	1	0	0	11491	1792	62	5	3737	5	PBRM1	3	52668676	Nonsense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	2281565	52668676	145353754	22	2429											
ITIH3	3699	hgsc.bcm.edu	37	chr3	52833444	52833444	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggccttccagtggtgccTaagaacgtggcctttgtgat	8	11	12	10	1	0	2	0	1	0	1	1	2	1	2	4	3	2	0	4	3	3	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	52833444	T	C	52833444	2	2	41	1	0	0	0	0	0	0	0	1	7905	1509	53	3		3	ITIH3	3	52833444	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	164768	52833444	145188986	23	2430											
MAGI1	9223	hgsc.bcm.edu	37	chr3	65415780	65415780	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagcatgtgtgtgtcccaAaacacaggtgtcattcacac	11	11	9	10	0	2	1	2	1	0	0	3	1	3	1	1	1	2	1	1	1	2	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	65415780	A	C	65415780	3	2	41	1	0	0	0	0	1	0	0	0	9190	11	1	5	3088	5	MAGI1	3	65415780	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	12582336	65415780	132606650	24	2431											
COPB2	9276	hgsc.bcm.edu	37	chr3	139085577	139085577	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttatcccccagataaaGcctgttgtctttaggaatgt	9	16	7	9	0	2	1	0	0	2	1	3	2	3	2	3	1	1	1	3	1	5	7	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	139085577	G	C	139085577	3	2	41	1	0	0	0	0	1	0	0	0	3729	971	34	4	1035	4	COPB2	3	139085577	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	73669797	139085577	58936853	25	2432											
LRRIQ4	344657	hgsc.bcm.edu	37	chr3	169540305	169540305	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgacctggacgagaacaAaataggtgccatcccagaag	15	6	10	10	1	0	3	0	1	0	2	1	5	1	4	3	2	2	0	3	2	5	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	169540305	A	G	169540305	3	3	41	1	0	0	0	0	1	0	0	0	9031	14	1	3	598	3	LRRIQ4	3	169540305	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	30454728	169540305	28482125	26	2433											
MUC4	4585	hgsc.bcm.edu	37	chr3	195509459	195509459	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctatggatgctgaggaagTgtcggtgacaggaagaaggg	12	7	17	5	1	0	3	0	2	0	1	1	6	0	6	1	5	1	1	1	5	4	1	rs71187738	alternate_allele	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	195509459	T	C	195509459	3	2	41	1	0	0	0	0	1	0	0	0	9978	1696	59	3		3	MUC4	3	195509459	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	25969154	195509459	2512971	27	2434											
FGFR3	2261	hgsc.bcm.edu	37	chr4	1808389	1808389	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggccaccgcatggacaagcCcgccaactgcacacacgacc	11	2	10	18	3	0	0	0	0	0	0	0	2	0	1	5	2	3	2	5	2	2	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	1808389	C	A	1808389	3	1	41	1	0	0	0	0	1	0	0	0	5867	623	22	4	2360	4	FGFR3	4	1808389	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10		1808389	189345887	28	2435											
ARAP2	116984	hgsc.bcm.edu	37	chr4	36118735	36118735	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctacatatacttcaattAacaaatctccagcctgggaa	14	13	4	10	0	3	0	1	0	2	0	4	1	3	1	2	1	4	0	2	1	7	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	36118735	A	T	36118735	4	4	41	1	0	0	0	0	0	1	0	0	839	372	13	5	1164	5	ARAP2	4	36118735	Nonsense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	34310346	36118735	155035541	29	2436											
FAT4	79633	hgsc.bcm.edu	37	chr4	126400930	126400930	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggcgcttgtactcgcagcCcatgccaacatggtggcaca	10	7	11	13	2	0	0	0	0	0	0	1	0	0	0	2	3	4	4	2	3	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	126400930	C	G	126400930	3	3	41	1	0	0	0	0	1	0	0	0	5692	623	22	4	12562	4	FAT4	4	126400930	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	90282195	126400930	64753346	30	2437											
GTF2H2	2966	hgsc.bcm.edu	37	chr5	70343884	70343884	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctagcaggaggaggactaaCatgatgtgtgagcaactctt	12	9	13	7	0	1	2	0	2	1	0	1	5	1	5	0	3	4	3	0	3	3	3	rs162956	byfrequency	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	70343884	C	G	70343884	3	3	41	1	0	0	0	0	1	0	0	0	6861	478	17	4	505	4	GTF2H2	5	70343884	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10		70343884	110571376	31	2438											
CDKL3	51265	hgsc.bcm.edu	37	chr5	133644047	133644047	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttgcatcctgttgaccAagtccaccttcatactcttt	8	16	4	13	0	3	1	2	1	1	0	5	1	5	1	4	0	2	2	4	0	2	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	133644047	A	C	133644047	2	2	41	1	0	0	0	0	0	0	0	1	3155	117	5	5		5	CDKL3	5	133644047	Silent	SNP	A	TCGA-AK-3445-01A-02D-1361-10	63300163	133644047	47271213	32	2439											
EGR1	1958	hgsc.bcm.edu	37	chr5	137803671	137803671	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttcccggcccaggtcagCagcttcccttcctcagctgt	4	11	9	17	1	2	0	2	0	0	0	5	0	5	0	4	2	3	4	4	2	0	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	137803671	C	G	137803671	3	3	41	1	0	0	0	0	1	0	0	0	4971	709	25	4	1539	4	EGR1	5	137803671	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	4159624	137803671	43111589	33	2440											
PAIP2	51247	hgsc.bcm.edu	37	chr5	138699539	138699539	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgtgattattaacggTcattctcatgaagatgacaa	15	12	9	5	1	2	5	2	3	1	2	3	6	2	5	0	1	1	0	0	1	5	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	138699539	T	C	138699539	2	2	41	1	0	0	0	0	0	0	0	1	11397	1654	58	3		3	PAIP2	5	138699539	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	895868	138699539	42215721	34	2441											
SLC34A1	6569	hgsc.bcm.edu;ucsc.edu	37	chr5	176813287	176813287	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggtgccactgatgctcAccttcctctacctcttcgtc	6	13	6	16	1	4	1	2	1	2	0	7	1	5	1	4	1	3	1	4	1	2	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	176813287	A	G	176813287	3	3	41	1	0	0	0	0	1	0	0	0	14569	159	6	3	335	3	SLC34A1	5	176813287	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	38113748	176813287	4101973	35	2442											
GNL1	2794	hgsc.bcm.edu	37	chr6	30520388	30520388	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagagccattaccccaggTggccccagccacatcccgag	9	4	9	19	1	0	1	0	0	0	1	1	2	1	1	8	2	3	0	8	2	1	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	30520388	T	G	30520388	3	3	41	1	0	0	0	0	1	0	0	0	6535	1696	59	5	888	5	GNL1	6	30520388	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10		30520388	140594679	36	2443											
SCUBE3	222663	hgsc.bcm.edu	37	chr6	35210009	35210009	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgctgtccattaaacaacgGgcctccttcaagatcaagga	12	9	9	11	1	2	1	2	0	0	1	4	2	4	2	3	2	3	1	3	2	5	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	35210009	G	A	35210009	2	1	41	1	0	0	0	0	0	0	0	1	13948	1219	43	2		2	SCUBE3	6	35210009	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10	4689621	35210009	135905058	37	2444											
TTBK1	84630	hgsc.bcm.edu	37	chr6	43251671	43251671	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctctctgaggaggacAcgggctcggagccctcaggc	6	7	14	14	2	2	1	1	1	1	0	5	4	3	4	2	5	2	2	2	5	0	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	43251671	T	T	43251671	3	4	41	1	0	0	0	0	1	0	0	0	16675	159	6	5	3243	5	TTBK1	6	43251671	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	8041662	43251671	127863396	38	2445											
SMPD2	6610	hgsc.bcm.edu	37	chr6	109762784	109762784	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcaggacttccagtacctGagacagaagctgtcacctac	12	7	10	12	0	1	2	1	1	0	2	2	5	2	3	3	1	4	3	3	1	3	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	109762784	G	A	109762784	2	1	41	1	0	0	0	0	0	0	0	1	14807	1277	45	2		2	SMPD2	6	109762784	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10	66511113	109762784	61352283	39	2446											
ECHDC1	55862	hgsc.bcm.edu;ucsc.edu	37	chr6	127611269	127611269	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaccattcctatgtttagAgcattttttgaatccagttt	10	18	5	8	0	1	2	1	1	0	1	3	2	3	2	3	0	2	3	3	0	4	8	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	127611269	A	G	127611269	2	3	41	1	0	0	0	0	0	0	0	1	4893	291	11	3		3	ECHDC1	6	127611269	Silent	SNP	A	TCGA-AK-3445-01A-02D-1361-10	17848485	127611269	43503798	40	2447											
ICA1	3382	hgsc.bcm.edu	37	chr7	8167605	8167605	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctggctctcccagggccaTagtgggcactggctccttca	5	10	12	14	0	3	0	1	0	2	0	5	0	4	0	3	4	0	3	3	4	1	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	8167605	T	A	8167605	3	1	41	1	0	0	0	0	1	0	0	0	7477	1406	49	5	231	5	ICA1	7	8167605	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10		8167605	150971058	41	2448											
PHKG1	5260	hgsc.bcm.edu;ucsc.edu	37	chr7	56156620	56156620	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagagtccggcagtgcCtcgtcccgggtcatgctcag	7	8	14	12	3	2	1	2	1	0	1	5	3	4	1	3	2	2	2	3	2	1	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	56156620	C	G	56156620	3	3	41	1	0	0	0	0	1	0	0	0	11846	680	24	4	1184	4	PHKG1	7	56156620	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	47989015	56156620	102982043	42	2449											
PEX1	5189	hgsc.bcm.edu	37	chr7	92147480	92147480	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggataaatatgtacgtttgTtgatcaacccaaacaggaaa	16	11	8	6	1	1	1	1	1	0	0	1	3	1	3	1	2	3	3	1	2	7	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	92147480	T	A	92147480	3	1	41	1	0	0	0	0	1	0	0	0	11735	1722	60	5	3488	5	PEX1	7	92147480	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	35990860	92147480	66991183	43	2450											
MGAM	8972	hgsc.bcm.edu;ucsc.edu	37	chr7	141755356	141755356	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctgcgtttttgtgtttcAgttgggactctcagctcctt	5	18	9	9	1	3	0	2	0	2	0	5	1	4	1	1	1	2	4	1	1	1	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	141755356	A	G	141755356	5	3	41	1	0	0	0	0	0	0	1	0	9541	202	7	3	3419	3	MGAM	7	141755356	Splice_Site	SNP	A	TCGA-AK-3445-01A-02D-1361-10	49607876	141755356	17383307	44	2451											
ZDHHC2	51201	hgsc.bcm.edu	37	chr8	17067950	17067950	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttaaccaggatcctgaacAagcatctactcctgcagggc	11	9	9	12	0	1	1	0	1	1	0	3	2	3	2	3	2	5	3	3	2	4	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	17067950	A	G	17067950	3	3	41	1	0	0	0	0	1	0	0	0	17609	130	5	3	949	3	ZDHHC2	8	17067950	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10		17067950	129296072	45	2452											
INTS9	55756	hgsc.bcm.edu	37	chr8	28645359	28645359	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttacctctgcatgaggaAaaggtggttctggaagatac	11	12	11	7	0	3	2	0	1	3	1	3	4	3	4	1	4	3	2	1	4	5	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	28645359	A	C	28645359	3	2	41	1	0	0	0	0	1	0	0	0	7785	14	1	5	919	5	INTS9	8	28645359	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	11577409	28645359	117718663	46	2453											
RUNX1T1	862	hgsc.bcm.edu	37	chr8	92972623	92972623	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctgctgctgggcctgcagGgtctgtccacagatgtgatg	5	10	14	12	0	1	2	0	1	1	1	2	2	2	2	3	2	3	3	3	2	0	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	92972623	G	T	92972623	2	4	41	1	0	0	0	0	0	0	0	1	13749	1219	43	4		4	RUNX1T1	8	92972623	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10	64327264	92972623	53391399	47	2454											
KIAA1429	25962	hgsc.bcm.edu	37	chr8	95518778	95518778	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaagaaacatcattgtTctgacacatgtcagtaaaca	15	11	6	9	0	4	2	2	1	2	1	4	2	4	2	0	0	3	3	0	0	4	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	95518778	T	G	95518778	3	3	41	1	0	0	0	0	1	0	0	0	8231	1780	62	5	1427	5	KIAA1429	8	95518778	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	2546155	95518778	50845244	48	2455											
PABPC1	26986	hgsc.bcm.edu	37	chr8	101717834	101717834	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaacatttgcttttgcTcttgaggaggggcagatgcc	8	11	11	11	0	1	2	0	1	1	1	1	3	1	3	2	3	4	3	2	3	1	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	101717834	T	C	101717834	3	2	41	1	0	0	0	0	1	0	0	0	11363	1551	54	3	252	3	PABPC1	8	101717834	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	6199056	101717834	44646188	49	2456											
KANK1	23189	hgsc.bcm.edu;ucsc.edu	37	chr9	745201	745201	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcttggaaggaagacgtCtcctggccccacccaccgag	9	6	12	14	2	1	1	0	0	1	1	2	4	1	3	5	4	0	1	5	4	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	745201	C	A	745201	3	1	41	1	0	0	0	0	1	0	0	0	7976	913	32	4	4067	4	KANK1	9	745201	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10		745201	140468230	50	2457											
C9orf5	0	hgsc.bcm.edu	37	chr9	111798562	111798562	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaacagtaaaatggcctTgcatcctaacccttgtgtca	13	11	6	11	0	2	0	2	0	0	0	3	0	3	0	3	1	3	2	3	1	5	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	111798562	T	G	111798562	3	3	41	1	0	0	0	0	1	0	0	0	2486	1821	63	5	328	5	C9orf5	9	111798562	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	111053361	111798562	29414869	51	2458											
RGS3	5998	hgsc.bcm.edu;ucsc.edu	37	chr9	116291500	116291500	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttactttttgttccctcaaaGgttcttcagaagacctgaaa	11	15	6	9	0	3	3	2	1	1	2	4	3	4	3	2	1	1	2	2	1	4	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	116291500	G	C	116291500	5	2	41	1	0	0	0	0	0	0	1	0	13308	1014	35	4	2081	4	RGS3	9	116291500	Splice_Site	SNP	G	TCGA-AK-3445-01A-02D-1361-10	4492938	116291500	24921931	52	2459											
KIAA1217	56243	hgsc.bcm.edu	37	chr10	24832825	24832825	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaaatgaacagaacggaGctgaacaagttcagccacgt	16	5	11	9	2	1	3	1	2	0	1	1	5	1	5	1	2	5	2	1	2	5	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	24832825	G	A	24832825	2	1	41	1	0	0	0	0	0	0	0	1	8216	962	34	2		2	KIAA1217	10	24832825	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10		24832825	110701922	53	2460											
BMS1	9790	hgsc.bcm.edu;ucsc.edu	37	chr10	43293976	43293976	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcttggagggttgtttcGtgtcaaccagcctgacagag	9	10	14	8	1	1	3	1	1	0	2	2	4	1	4	2	2	3	3	2	2	1	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	43293976	G	A	43293976	3	1	41	1	0	0	0	0	1	0	0	0	1472	1145	40	1	2192	1	BMS1	10	43293976	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	18461151	43293976	92240771	54	2461											
TACR2	6865	hgsc.bcm.edu	37	chr10	71164734	71164734	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttagtgtgacacctgtTgactctcgtggagagggagg	7	11	14	9	1	1	3	0	2	1	1	3	5	2	4	2	3	0	1	2	3	1	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	71164734	T	G	71164734	3	3	41	1	0	0	0	0	1	0	0	0	15505	1812	63	5	155	5	TACR2	10	71164734	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	27870758	71164734	64370013	55	2462											
UNC5B	219699	hgsc.bcm.edu	37	chr10	73044586	73044586	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggagctccgcgggcacCaccaagagtcgccgagccta	8	4	13	16	4	0	1	0	0	0	1	2	3	1	2	6	2	2	2	6	2	2	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	73044586	C	T	73044586	2	4	41	1	0	0	0	0	0	0	0	1	16991	581	21	2		2	UNC5B	10	73044586	Silent	SNP	C	TCGA-AK-3445-01A-02D-1361-10	1879852	73044586	62490161	56	2463											
ANKRD1	27063	hgsc.bcm.edu	37	chr10	92675943	92675943	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataccttatctcgggcgctAatttttgctcctttattcag	8	17	6	10	2	2	0	1	0	1	0	4	0	3	0	2	1	2	2	2	1	5	8	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	92675943	A	T	92675943	2	4	41	1	0	0	0	0	0	0	0	1	637	358	13	5		5	ANKRD1	10	92675943	Silent	SNP	A	TCGA-AK-3445-01A-02D-1361-10	19631357	92675943	42858804	57	2464											
GPR120	0	hgsc.bcm.edu;ucsc.edu	37	chr10	95347225	95347225	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcacatttgctaattcagcCctaaaccccatcctctacaa	12	12	2	15	0	3	0	2	0	1	0	4	0	4	0	4	0	4	1	4	0	5	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	95347225	C	T	95347225	2	4	41	1	0	0	0	0	0	0	0	1	6636	610	22	2		2	GPR120	10	95347225	Silent	SNP	C	TCGA-AK-3445-01A-02D-1361-10	2671282	95347225	40187522	58	2465											
APIP	51074	hgsc.bcm.edu	37	chr11	34909860	34909860	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctataataccctccggaagtAcatttctttattccttttat	10	18	3	10	1	1	0	0	0	1	0	3	1	3	1	3	1	2	1	3	1	7	10	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	34909860	A	T	34909860	4	4	41	1	0	0	0	0	0	1	0	0	774	389	14	5	299	5	APIP	11	34909860	Nonsense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10		34909860	100096656	59	2466											
CKAP5	9793	hgsc.bcm.edu	37	chr11	46804895	46804895	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgatttttgggattcttTtgtgagaaagccattgacac	10	15	10	6	0	1	3	0	3	1	1	1	6	1	4	1	1	1	0	1	1	1	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	46804895	T	A	46804895	3	1	41	1	0	0	0	0	1	0	0	0	3445	1838	64	5	4028	5	CKAP5	11	46804895	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	11895035	46804895	88201621	60	2467											
GLYAT	10249	hgsc.bcm.edu;ucsc.edu	37	chr11	58482811	58482811	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctgagggcagacaaccActgtattaaaatcaggccac	13	7	9	12	0	1	2	1	1	0	1	2	2	2	2	3	2	1	3	3	2	4	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	58482811	A	G	58482811	3	3	41	1	0	0	0	0	1	0	0	0	6479	159	6	3	743	3	GLYAT	11	58482811	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	11677916	58482811	76523705	61	2468											
SHANK2	22941	hgsc.bcm.edu;ucsc.edu	37	chr11	70331568	70331568	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagagaatcgggcttttgatCtctgtgacgtcgccccacaa	9	10	11	11	3	1	3	0	2	1	1	4	5	1	3	2	1	0	1	2	1	2	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	70331568	C	T	70331568	2	4	41	1	0	0	0	0	0	0	0	1	14267	912	32	2		2	SHANK2	11	70331568	Silent	SNP	C	TCGA-AK-3445-01A-02D-1361-10	11848757	70331568	64674948	62	2469											
PCF11	51585	hgsc.bcm.edu;ucsc.edu	37	chr11	82877339	82877339	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagaagagtcagaaaaacAggggacaaaaccagggagat	21	2	12	6	0	1	4	1	0	0	4	1	6	1	5	1	3	3	0	1	3	6	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	82877339	A	G	82877339	3	3	41	1	0	0	0	0	1	0	0	0	11573	188	7	3	1418	3	PCF11	11	82877339	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	12545771	82877339	52129177	63	2470											
OR6M1	390261	hgsc.bcm.edu;ucsc.edu	37	chr11	123676859	123676859	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtgtataagatatccaGaaaggacaaattactgagga	17	9	11	4	0	0	3	0	1	0	2	1	5	1	5	1	3	1	1	1	3	6	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	123676859	G	T	123676859	3	4	41	1	0	0	0	0	1	0	0	0	11205	933	33	4	745	4	OR6M1	11	123676859	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	40799520	123676859	11329657	64	2471											
TP53AIP1	63970	hgsc.bcm.edu	37	chr11	128807594	128807594	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaggtgtgtgtgtctgAgccctgccattcggaggcat	6	10	14	11	1	1	1	0	1	1	0	2	2	1	2	3	3	3	1	3	3	0	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	128807594	A	T	128807594	2	4	41	1	0	0	0	0	0	0	0	1	16381	291	11	5		5	TP53AIP1	11	128807594	Silent	SNP	A	TCGA-AK-3445-01A-02D-1361-10	5130735	128807594	6198922	65	2472											
ZNF641	121274	hgsc.bcm.edu;ucsc.edu	37	chr12	48737149	48737149	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggtgggttttctggtgcctGatgaggtgatgtcttcgccc	4	14	15	8	1	2	3	0	3	2	0	3	3	2	3	2	4	1	1	2	4	0	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	48737149	G	C	48737149	3	2	41	1	0	0	0	0	1	0	0	0	18056	1280	45	4	396	4	ZNF641	12	48737149	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10		48737149	85114746	66	2473											
RHEBL1	121268	hgsc.bcm.edu	37	chr12	49463534	49463534	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctacacagcggtatccgAggatgaccaccttcctgtag	10	8	9	14	2	0	1	0	1	0	0	2	3	2	2	5	2	2	2	5	2	3	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	49463534	A	C	49463534	3	2	41	1	0	0	0	0	1	0	0	0	13331	304	11	5	548	5	RHEBL1	12	49463534	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	726385	49463534	84388361	67	2474											
KCNH3	23416	hgsc.bcm.edu;ucsc.edu	37	chr12	49950162	49950162	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggttcacagggtagtagaTggcattgaagacggctgtgg	9	10	17	5	1	1	3	1	1	0	2	1	3	1	3	0	5	0	5	0	5	3	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	49950162	T	C	49950162	2	2	41	1	0	0	0	0	0	0	0	1	8033	1461	51	3		3	KCNH3	12	49950162	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	486628	49950162	83901733	68	2475											
HIGD1C	613227	hgsc.bcm.edu	37	chr12	51354786	51354786	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgactgtggtgtcctgtggtCtttacaagctaaagtacaga	10	13	11	7	0	1	2	0	1	1	1	2	2	2	2	1	2	3	2	1	2	5	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	51354786	C	G	51354786	3	3	41	1	0	0	0	0	1	0	0	0	7108	913	32	4	136	4	HIGD1C	12	51354786	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	1404624	51354786	82497109	69	2476											
SLC4A8	9498	hgsc.bcm.edu	37	chr12	51851247	51851247	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaatgaaaagaagagaaaCaacctcattcccattgttcg	17	8	7	9	1	1	4	1	1	0	3	3	5	2	4	2	0	2	1	2	0	6	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	51851247	C	G	51851247	3	3	41	1	0	0	0	0	1	0	0	0	14661	477	17	4	709	4	SLC4A8	12	51851247	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	496461	51851247	82000648	70	2477											
IL22	50616	hgsc.bcm.edu	37	chr12	68647211	68647211	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataaggaaagagctcacagaTttctgcagggcggccattgc	12	8	12	9	1	2	2	1	0	1	2	2	3	2	3	1	3	3	2	1	3	2	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	68647211	T	C	68647211	2	2	41	1	0	0	0	0	0	0	0	1	7672	1490	52	3		3	IL22	12	68647211	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	16795964	68647211	65204684	71	2478											
NUPL1	9818	hgsc.bcm.edu;ucsc.edu	37	chr13	25876007	25876007	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttttctccttcggaacGggagcgtctaggtaaccgca	7	10	13	11	5	2	0	0	0	2	0	4	2	2	2	2	4	3	3	2	4	3	5	rs112477650	bycluster;byfrequency;by1000genomes	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	25876007	G	C	25876007	2	2	41	1	0	0	0	0	0	0	0	1	10774	1103	39	4		4	NUPL1	13	25876007	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10		25876007	89293871	72	2479											
CCNA1	8900	hgsc.bcm.edu;ucsc.edu	37	chr13	37012826	37012826	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaagaagcagccagacAtcacggaaggcatgcgcacg	15	3	12	11	3	1	3	1	1	0	2	1	4	1	4	1	2	3	3	1	2	3	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	37012826	A	C	37012826	3	2	41	1	0	0	0	0	1	0	0	0	2909	217	8	5	733	5	CCNA1	13	37012826	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	11136819	37012826	78157052	73	2480											
C13orf30	0	hgsc.bcm.edu	37	chr13	43358245	43358245	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaaaagctttggaatgtTccacaacttccttttattcg	12	14	5	10	1	0	0	0	0	0	0	3	1	2	1	2	1	3	2	2	1	6	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	43358245	T	C	43358245	2	2	41	1	0	0	0	0	0	0	0	1	1725	1770	62	3		3	C13orf30	13	43358245	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	6345419	43358245	71811633	74	2481											
LRCH1	23143	hgsc.bcm.edu;ucsc.edu	37	chr13	47279242	47279242	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagaagtgttttaaacctAtatcctatgggatcagcaga	14	11	10	6	0	1	2	1	0	0	2	2	5	2	3	2	1	2	2	2	1	6	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	47279242	A	T	47279242	2	4	41	1	0	0	0	0	0	0	0	1	8932	436	16	5		5	LRCH1	13	47279242	Silent	SNP	A	TCGA-AK-3445-01A-02D-1361-10	3920997	47279242	67890636	75	2482											
FNDC3A	22862	hgsc.bcm.edu;ucsc.edu	37	chr13	49775997	49775997	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacaaagacttaatgagtcaAcatcctataaattctgtatt	16	14	4	7	0	2	2	1	1	1	1	3	2	3	2	1	0	2	1	1	0	8	7	rs45604939	bycluster;byfrequency;by1000genomes	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	49775997	A	G	49775997	3	3	41	1	0	0	0	0	1	0	0	0	5969	43	2	3	3150	3	FNDC3A	13	49775997	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	2496755	49775997	65393881	76	2483											
PHF11	51131	hgsc.bcm.edu;ucsc.edu	37	chr13	50100561	50100561	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcactttttgactgtagaTtgttcgaagacacatttgta	10	16	9	6	1	0	3	0	1	0	2	1	4	0	3	0	0	1	4	0	0	3	7	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	50100561	T	G	50100561	3	3	41	1	0	0	0	0	1	0	0	0	11822	1490	52	5	842	5	PHF11	13	50100561	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	324564	50100561	65069317	77	2484											
ATP7B	540	hgsc.bcm.edu	37	chr13	52509781	52509781	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagaggaggctgccatggCcgctgagcccatccagggct	8	5	14	14	1	0	2	0	1	0	1	1	3	1	3	4	4	2	3	4	4	0	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	52509781	C	T	52509781	3	4	41	1	0	0	0	0	1	0	0	0	1191	739	26	2	333	2	ATP7B	13	52509781	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	2409220	52509781	62660097	78	2485											
TDRD3	81550	hgsc.bcm.edu;ucsc.edu	37	chr13	61084777	61084777	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaaggtagaggaaaaggCagggggcgaataagatctga	16	6	15	4	1	2	3	0	1	2	2	2	5	2	4	0	5	0	2	0	5	7	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	61084777	C	T	61084777	2	4	41	1	0	0	0	0	0	0	0	1	15731	697	25	2		2	TDRD3	13	61084777	Silent	SNP	C	TCGA-AK-3445-01A-02D-1361-10	8574996	61084777	54085101	79	2486											
TBC1D4	9882	hgsc.bcm.edu;ucsc.edu	37	chr13	75936579	75936579	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctccatgcagtcatcgatGaggcttgagggggccttctt	6	13	12	10	1	3	2	1	2	2	0	5	3	3	2	2	3	1	2	2	3	0	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	75936579	G	C	75936579	2	2	41	1	0	0	0	0	0	0	0	1	15621	1277	45	4		4	TBC1D4	13	75936579	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10	14851802	75936579	39233299	80	2487											
WDR89	112840	hgsc.bcm.edu	37	chr14	64065889	64065889	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgacatcctggatgttcaAacgtgtaactggttcatcag	10	13	9	9	1	4	1	3	1	1	0	5	2	5	2	1	2	2	3	1	2	2	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	64065889	A	C	64065889	3	2	41	1	0	0	0	0	1	0	0	0	17335	11	1	5	395	5	WDR89	14	64065889	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10		64065889	43283651	81	2488											
TRPM1	4308	hgsc.bcm.edu	37	chr15	31294459	31294459	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgctggtccgtgattgAactgtactctacatcctggt	8	14	9	10	1	1	2	0	2	1	0	3	2	3	2	2	2	4	2	2	2	4	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	31294459	A	T	31294459	3	4	41	1	0	0	0	0	1	0	0	0	16584	246	9	5	437	5	TRPM1	15	31294459	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10		31294459	71236933	82	2489											
IQCH	64799	hgsc.bcm.edu;ucsc.edu	37	chr15	67553613	67553613	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttttatacctatagatcCatgaagacctttatcagtta	13	17	4	7	0	1	3	1	1	0	2	2	3	2	3	3	0	1	1	3	0	7	9	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	67553613	C	A	67553613	3	1	41	1	0	0	0	0	1	0	0	0	7811	594	21	4	61	4	IQCH	15	67553613	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	36259154	67553613	34977779	83	2490											
UBN1	29855	hgsc.bcm.edu	37	chr16	4923048	4923048	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagggccaagaagaaagttAtggccccttctaaaatcaag	16	7	9	9	0	2	2	1	0	1	2	2	2	2	2	3	2	0	1	3	2	7	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	4923048	A	T	4923048	3	4	41	1	0	0	0	0	1	0	0	0	16891	449	16	5	1824	5	UBN1	16	4923048	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10		4923048	85431705	84	2491											
PDZD9	255762	hgsc.bcm.edu;ucsc.edu	37	chr16	22000067	22000067	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtaaaaattctcgaagaGtatatcctaacacattggca	15	11	7	8	1	1	1	0	0	1	1	3	2	2	1	1	1	1	4	1	1	7	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	22000067	G	A	22000067	3	1	41	1	0	0	0	0	1	0	0	0	11706	1029	36	2	545	2	PDZD9	16	22000067	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	17077019	22000067	68354686	85	2492											
ZNF771	51333	hgsc.bcm.edu	37	chr16	30419384	30419384	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aggacaccaagatgcctggcGaacagcaggcagaggaagag	15	2	15	9	1	0	3	0	0	0	3	0	6	0	5	2	4	3	2	2	4	3	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	30419384	G	C	30419384	3	2	41	1	0	0	0	0	1	0	0	0	18143	1059	37	4	12	4	ZNF771	16	30419384	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	8419317	30419384	59935369	86	2493											
CHD9	80205	hgsc.bcm.edu;ucsc.edu	37	chr16	53352213	53352213	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaatagtctcactggagaAgaacgtgttcaactgattaa	14	11	10	6	1	2	4	2	2	1	2	3	5	2	4	0	1	2	1	0	1	6	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	53352213	A	C	53352213	3	2	41	1	0	0	0	0	1	0	0	0	3332	69	3	5	7768	5	CHD9	16	53352213	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	22932829	53352213	37002540	87	2494											
FHOD1	29109	hgsc.bcm.edu	37	chr16	67272131	67272131	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtagctctggtagttgTggtcggcagcagcacccaca	8	9	14	10	1	1	0	0	0	1	0	2	1	1	1	1	4	3	7	1	4	2	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	67272131	T	A	67272131	3	1	41	1	0	0	0	0	1	0	0	0	5882	1696	59	5	3045	5	FHOD1	16	67272131	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	13919918	67272131	23082622	88	2495											
PRPF8	10594	hgsc.bcm.edu;ucsc.edu	37	chr17	1559949	1559949	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaccctcttacctccagtGggtccagcatgcccttcctg	5	10	7	19	0	1	0	0	0	1	0	4	0	4	0	7	1	3	1	7	1	1	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	1559949	G	A	1559949	3	1	41	1	0	0	0	0	1	0	0	0	12577	1348	47	2	1431	2	PRPF8	17	1559949	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10		1559949	79635261	89	2496											
USP6	9098	hgsc.bcm.edu	37	chr17	5033964	5033964	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcaacagcagcattgatcGttttggcattttgcagtgag	11	13	10	7	1	1	2	1	2	0	0	2	2	1	2	0	1	4	5	0	1	2	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	5033964	G	A	5033964	3	1	41	1	0	0	0	0	1	0	0	0	17085	1145	40	1	146	1	USP6	17	5033964	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	3474015	5033964	76161246	90	2497											
MYO15A	51168	hgsc.bcm.edu;ucsc.edu	37	chr17	18082103	18082103	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggactggaactgtgtcgtgtGgtggccgtgcacgtggagaa	7	9	18	7	3	0	1	0	0	0	1	1	4	0	3	1	5	2	1	1	5	2	0	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	18082103	G	C	18082103	2	2	41	1	0	0	0	0	0	0	0	1	10063	1335	47	4		4	MYO15A	17	18082103	Silent	SNP	G	TCGA-AK-3445-01A-02D-1361-10	13048139	18082103	63113107	91	2498											
EME1	146956	hgsc.bcm.edu;ucsc.edu	37	chr17	48456247	48456247	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgattgtggatcaggagaAatgcttcaggtttggatttg	9	14	15	3	0	2	2	2	1	0	1	2	5	2	4	0	5	1	2	0	5	1	4	rs186599955	by1000genomes	TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	48456247	A	T	48456247	3	4	41	1	0	0	0	0	1	0	0	0	5088	14	1	5	1117	5	EME1	17	48456247	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	30374144	48456247	32738963	92	2499											
MRC2	9902	hgsc.bcm.edu;ucsc.edu	37	chr17	60769793	60769793	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgtcagacatggaaaTgaatgagcaacaagaataga	17	7	11	6	0	1	5	1	2	0	3	1	6	1	6	1	2	2	1	1	2	6	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	60769793	T	A	60769793	3	1	41	1	0	0	0	0	1	0	0	0	9758	1464	51	5	4539	5	MRC2	17	60769793	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	12313546	60769793	20425417	93	2500											
USP36	57602	hgsc.bcm.edu;ucsc.edu	37	chr17	76824985	76824985	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattgatgcttacttttcaGgtctcggatgaaggagacgg	9	12	14	6	2	2	3	1	2	1	1	3	6	2	5	0	5	2	1	0	5	2	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	76824985	G	T	76824985	3	4	41	1	0	0	0	0	1	0	0	0	17066	991	35	4	2855	4	USP36	17	76824985	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	16055192	76824985	4370225	94	2501											
KIAA1012	0	hgsc.bcm.edu;ucsc.edu	37	chr18	29488925	29488925	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tactgttagaagggtcactgGattgctccaactgaagtggg	10	11	13	7	0	1	2	1	1	0	1	2	3	2	3	1	3	3	2	1	3	5	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	29488925	G	T	29488925	3	4	41	1	0	0	0	0	1	0	0	0	8204	1174	41	4	3485	4	KIAA1012	18	29488925	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10		29488925	48588323	95	2502											
PEX11G	92960	hgsc.bcm.edu	37	chr19	7550828	7550828	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgggtggacaccaccaacaGacgtgtccccacttcggacc	9	7	10	15	2	0	1	0	0	0	1	2	3	1	3	5	3	1	0	5	3	1	2	rs139507247		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	7550828	G	C	7550828	3	2	41	1	0	0	0	0	1	0	0	0	11739	933	33	4	596	4	PEX11G	19	7550828	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10		7550828	51578155	96	2503											
GALP	85569	hgsc.bcm.edu	37	chr19	56693586	56693586	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagacggaaagagggagaCagcccttgagatcctagacc	14	4	12	11	1	0	5	0	1	0	5	1	8	1	6	4	2	1	0	4	2	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	56693586	C	A	56693586	3	1	41	1	0	0	0	0	1	0	0	0	6226	479	17	4	192	4	GALP	19	56693586	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	49142758	56693586	2435397	97	2504											
ZNF547	284306	hgsc.bcm.edu;ucsc.edu	37	chr19	57889395	57889395	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagttcacactggagaacggCcttatgaatgcagtgagtgt	11	10	13	7	1	1	3	1	2	0	1	1	5	1	3	1	2	2	2	1	2	3	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	57889395	C	A	57889395	3	1	41	1	0	0	0	0	1	0	0	0	17978	739	26	4	1061	4	ZNF547	19	57889395	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	1195809	57889395	1239588	98	2505											
TMC2	117532	hgsc.bcm.edu;ucsc.edu	37	chr20	2577820	2577820	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagcaatacccaaggaaGcacaggcgaaggggagagtg	14	2	16	9	1	0	1	0	0	0	1	0	4	0	2	2	5	3	2	2	5	5	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	2577820	G	T	2577820	3	4	41	1	0	0	0	0	1	0	0	0	15984	971	34	4	1138	4	TMC2	20	2577820	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10		2577820	60447700	99	2506											
FASTKD5	60493	hgsc.bcm.edu;ucsc.edu	37	chr20	3129208	3129208	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgcaggcaaagagctcAgcttacacaaataatcaaca	16	7	7	11	0	3	1	2	0	1	1	3	1	3	1	0	1	5	5	0	1	5	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	3129208	A	T	3129208	3	4	41	1	0	0	0	0	1	0	0	0	5688	188	7	5	1789	5	FASTKD5	20	3129208	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	551388	3129208	59896312	100	2507											
PROKR2	128674	hgsc.bcm.edu	37	chr20	5294732	5294732	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaagtcggagatggccAggttggcaatgagcagattg	11	7	16	7	1	0	3	0	1	0	2	1	5	0	4	2	5	1	3	2	5	2	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	5294732	A	G	5294732	3	3	41	1	0	0	0	0	1	0	0	0	12555	188	7	3	877	3	PROKR2	20	5294732	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	2165524	5294732	57730788	101	2508											
OSBPL2	9885	hgsc.bcm.edu	37	chr20	60859155	60859155	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacggaatgtttgtggggcaTagatcctgtttcgtatgaat	9	14	13	5	2	0	2	0	1	0	1	2	4	1	3	1	3	0	4	1	3	4	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	60859155	T	A	60859155	3	1	41	1	0	0	0	0	1	0	0	0	11278	1406	49	5	960	5	OSBPL2	20	60859155	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	55564423	60859155	2166365	102	2509											
PRDM15	63977	hgsc.bcm.edu	37	chr21	43240050	43240050	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactgctcgcaggcgtggctCttcacacctgagaacacagg	9	7	11	14	2	2	1	1	1	1	1	3	2	2	1	1	3	2	3	1	3	1	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	43240050	C	G	43240050	3	3	41	1	0	0	0	0	1	0	0	0	12458	912	32	4	1305	4	PRDM15	21	43240050	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10		43240050	4889845	103	2510											
ZNF295	0	hgsc.bcm.edu	37	chr21	43412175	43412175	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagagaaagcggtacgctTttccgcagtaagtacaaatg	14	8	12	7	3	0	2	0	0	0	2	1	4	1	2	1	1	3	5	1	1	5	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	43412175	T	A	43412175	3	1	41	1	0	0	0	0	1	0	0	0	17826	1841	64	5	1174	5	ZNF295	21	43412175	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	172125	43412175	4717720	104	2511											
UPB1	51733	hgsc.bcm.edu	37	chr22	24916410	24916410	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgccaatcactgcttcAcctgcgccatcaatcgagtg	9	10	7	15	2	3	0	3	0	0	0	4	1	3	0	4	0	3	1	4	0	2	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		G	24916410	A	G	24916410	3	3	41	1	0	0	0	0	1	0	0	0	17001	159	6	3	873	3	UPB1	22	24916410	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10		24916410	26388156	105	2512											
CSF2RB	1439	hgsc.bcm.edu;ucsc.edu	37	chr22	37326520	37326520	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccagctcggtctccttTggcctattctacaagcccag	6	11	10	14	1	2	0	0	0	2	0	4	0	2	0	4	3	3	1	4	3	3	4	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	37326520	T	C	37326520	2	2	41	1	0	0	0	0	0	0	0	1	3935	1809	63	3		3	CSF2RB	22	37326520	Silent	SNP	T	TCGA-AK-3445-01A-02D-1361-10	12410110	37326520	13978046	106	2513											
CSF2RA	1438	hgsc.bcm.edu	37	chrX	1407729	1407729	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaactgtacctgggcgaggGgtccgacggccccccgtgac	6	6	15	14	4	0	2	0	2	0	0	1	4	1	2	5	4	2	1	5	4	2	1	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		C	1407729	G	C	1407729	3	2	41	1	0	0	0	0	1	0	0	0	3934	1232	43	4	435	4	CSF2RA	23	1407729	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10		1407729	153862831	107	2514											
FAAH2	158584	hgsc.bcm.edu	37	chrX	57313272	57313272	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgcgatggcaccttcatTtaccgcccgcattcagttgt	6	12	10	13	3	2	0	2	0	0	0	2	1	2	0	3	2	2	4	3	2	1	5	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	57313272	T	A	57313272	3	1	41	1	0	0	0	0	1	0	0	0	5354	1841	64	5	16	5	FAAH2	23	57313272	Missense_Mutation	SNP	T	TCGA-AK-3445-01A-02D-1361-10	55905543	57313272	97957288	108	2515											
AMOT	154796	hgsc.bcm.edu	37	chrX	112048196	112048196	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttccagctttaccacCttggcctgggcattactcag	6	14	7	14	0	3	0	1	0	2	0	4	0	4	0	4	2	3	2	4	2	2	6	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	112048196	C	A	112048196	3	1	41	1	0	0	0	0	1	0	0	0	582	680	24	4	1527	4	AMOT	23	112048196	Missense_Mutation	SNP	C	TCGA-AK-3445-01A-02D-1361-10	54734924	112048196	43222364	109	2516											
ZDHHC9	51114	hgsc.bcm.edu;ucsc.edu	37	chrX	128946779	128946779	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accagagtgtaaagaagcaaAtgaggacttctagaacagtg	17	7	11	6	0	1	4	0	1	1	3	1	5	1	5	1	1	2	2	1	1	6	3	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	128946779	A	T	128946779	3	4	41	1	0	0	0	0	1	0	0	0	17621	101	4	5	418	5	ZDHHC9	23	128946779	Missense_Mutation	SNP	A	TCGA-AK-3445-01A-02D-1361-10	16898583	128946779	26323781	110	2517											
MAGEA4	4103	hgsc.bcm.edu;ucsc.edu	37	chrX	151092605	151092605	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatcttcggcaaagcctccGagtccctgaagatgatcttt	9	12	9	11	2	2	4	0	3	2	1	5	5	4	4	3	1	1	1	3	1	2	2	novel		TCGA-AK-3445-01A-02D-1361-10	TCGA-AK-3445-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	86a1ec02-2857-4a51-ab98-ffdfe76908d7	1dbf1726-2813-45cc-b2d5-7f57d57a1028		A	151092605	G	A	151092605	3	1	41	1	0	0	0	0	1	0	0	0	9168	1059	37	1	471	1	MAGEA4	23	151092605	Missense_Mutation	SNP	G	TCGA-AK-3445-01A-02D-1361-10	22145826	151092605	4177955	111	2518											
VHL	7428	hgsc.bcm.edu	37	chr3	10183817	10183817	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttcgacggcgagccgCagccctacccaacgctgccg	8	5	10	18	6	1	0	1	0	0	0	2	2	1	0	4	1	6	2	4	1	3	2	novel		TCGA-AK-3445-01A-02W-1359-10	TCGA-AK-3445-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	e787f715-4ee4-406a-aba0-f83a2c48726f	1dbf1726-2813-45cc-b2d5-7f57d57a1028		T	10183817	C	T	10183817	4	4	42	1	0	0	0	0	0	1	0	0	17161	711	25	2	288	2	VHL	3	10183817	Nonsense_Mutation	SNP	C	TCGA-AK-3445-01A-02W-1359-10		10183817	187838613	1	2519											
NBPF1	55672	hgsc.bcm.edu	37	chr1	16890598	16890598	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagtcaggtagttcaaagTacattgacggagtcgaataa	15	10	11	5	2	2	2	2	2	0	0	3	4	2	3	0	2	1	3	0	2	5	5	rs71228893	alternate_allele	TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	16890598	T	A	16890598	3	1	43	1	0	0	0	0	1	0	0	0	10192	1638	57	5	163	5	NBPF1	1	16890598	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10		16890598	232360023	1	2520											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21809750	21809750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcctcattccagcagtaTagaagtgccttttactcatt	10	14	6	11	0	2	1	2	0	0	1	3	1	3	1	3	0	4	2	3	0	4	6	rs2651399	bycluster;byfrequency;bysubmitter	TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	21809750	C	C	21809750	2	2	43	1	0	0	0	0	0	0	0	1	10197	1413	49	3		3	NBPF3	1	21809750	Silent	SNP	T	TCGA-AK-3450-01A-02D-1361-10	4919152	21809750	227440871	2	2521											
PLK3	1263	hgsc.bcm.edu	37	chr1	45268708	45268708	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatcaagcaggttcactaCacgctgcctgccagcctctc	8	9	8	16	1	3	0	2	0	1	0	4	0	3	0	3	1	6	4	3	1	2	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	45268708	C	T	45268708	2	4	43	1	0	0	0	0	0	0	0	1	12097	489	17	2		2	PLK3	1	45268708	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10	23458958	45268708	203981913	3	2522											
DAB1	1600	hgsc.bcm.edu	37	chr1	57491680	57491680	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggttatatcagggggtgTggacatgtccccaaaaagtt	12	10	13	6	0	1	1	1	0	0	1	2	2	2	2	2	4	0	2	2	4	4	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	57491680	T	G	57491680	3	3	43	1	0	0	0	0	1	0	0	0	4217	1696	59	5	927	5	DAB1	1	57491680	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	12222972	57491680	191758941	4	2523											
SLC44A5	204962	hgsc.bcm.edu	37	chr1	75805277	75805277	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgcttacctgttggcaaCaggccccttgaaatctgggt	9	12	10	10	0	1	1	0	1	1	0	1	1	1	1	3	3	3	3	3	3	4	4	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	75805277	C	A	75805277	3	1	43	1	0	0	0	0	1	0	0	0	14641	478	17	4	2263	4	SLC44A5	1	75805277	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	18313597	75805277	173445344	5	2524											
ASH1L	55870	hgsc.bcm.edu;ucsc.edu	37	chr1	155449150	155449150	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagttcactcaagtgcgaagGagaatttggcaacaaagtag	15	8	12	6	1	2	1	2	0	0	1	2	4	2	1	0	2	2	3	0	2	6	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	155449150	G	A	155449150	3	1	43	1	0	0	0	0	1	0	0	0	1041	1174	41	2	5487	2	ASH1L	1	155449150	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	79643873	155449150	93801471	6	2525											
TOMM40L	84134	hgsc.bcm.edu	37	chr1	161198049	161198049	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagagctagtttatcaccgGcggccaggcgaagagggggc	9	5	18	9	3	1	2	1	0	0	2	1	4	1	2	2	6	1	2	2	6	3	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	161198049	G	A	161198049	2	1	43	1	0	0	0	0	0	0	0	1	16358	1190	42	2		2	TOMM40L	1	161198049	Silent	SNP	G	TCGA-AK-3450-01A-02D-1361-10	5748899	161198049	88052572	7	2526											
TNN	63923	hgsc.bcm.edu	37	chr1	175054573	175054573	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggactgagtataagatcacgGtggtgcccatgagaggagag	12	7	16	6	1	1	4	1	2	0	3	1	7	1	5	1	4	1	1	1	4	2	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	175054573	G	C	175054573	3	2	43	1	0	0	0	0	1	0	0	0	16322	1261	44	4	1285	4	TNN	1	175054573	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	13856524	175054573	74196048	8	2527											
RNASEL	6041	hgsc.bcm.edu	37	chr1	182555819	182555819	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccaccttccagcaattgctgGaccaggtcaacatcttcgtt	9	11	7	14	1	2	0	1	0	1	0	4	1	3	1	4	2	3	3	4	2	2	4	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	182555819	G	A	182555819	2	1	43	1	0	0	0	0	0	0	0	1	13418	1161	41	2		2	RNASEL	1	182555819	Silent	SNP	G	TCGA-AK-3450-01A-02D-1361-10	7501246	182555819	66694802	9	2528											
PTPN14	5784	hgsc.bcm.edu;ucsc.edu	37	chr1	214557759	214557759	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtacaccagatcctctGgctggttgtaggcatgggtg	6	11	15	9	0	1	1	0	0	1	1	2	1	2	1	2	5	1	6	2	5	2	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	214557759	G	A	214557759	3	1	43	1	0	0	0	0	1	0	0	0	12785	1348	47	2	2152	2	PTPN14	1	214557759	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	32001940	214557759	34692862	10	2529											
OR2T29	343563	hgsc.bcm.edu	37	chr1	248722671	248722671	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatttccagacaacgccTtcaggaaaaccacaaagatg	16	6	7	12	1	1	2	1	0	0	2	2	3	2	3	3	1	3	1	3	1	4	2	rs9439338	bycluster	TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	248722671	T	A	248722671	3	1	43	1	0	0	0	0	1	0	0	0	11022	1609	56	5	829	5	OR2T29	1	248722671	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	34164912	248722671	527950	11	2530											
OR2T35	403244	hgsc.bcm.edu;ucsc.edu	37	chr1	248801912	248801912	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggatgtgcgtgtaggaCacagagatgacagatagagg	14	6	17	4	1	0	4	0	1	0	3	0	8	0	7	0	4	1	1	0	4	2	2	rs1770044	byfrequency	TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	248801912	C	G	248801912	2	3	43	1	0	0	0	0	0	0	0	1	11026	465	17	4		4	OR2T35	1	248801912	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10	79241	248801912	448709	12	2531											
COL3A1	1281	hgsc.bcm.edu	37	chr2	189863429	189863429	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgccggtgcacctggAgctccaggaggcaaggtagt	8	7	17	9	1	0	1	0	1	0	0	1	3	1	3	3	6	3	4	3	6	2	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	189863429	A	G	189863429	2	3	43	1	0	0	0	0	0	0	0	1	3688	291	11	3		3	COL3A1	2	189863429	Silent	SNP	A	TCGA-AK-3450-01A-02D-1361-10		189863429	53335944	13	2532											
MPP4	58538	hgsc.bcm.edu;ucsc.edu	37	chr2	202549860	202549860	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatctcgtggcgcttgatGgtggctccctgaagagagaa	8	10	14	9	2	2	4	1	2	1	2	4	5	3	4	1	3	0	2	1	3	2	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	202549860	G	T	202549860	2	4	43	1	0	0	0	0	0	0	0	1	9736	1335	47	4		4	MPP4	2	202549860	Silent	SNP	G	TCGA-AK-3450-01A-02D-1361-10	12686431	202549860	40649513	14	2533											
CRYGA	1418	hgsc.bcm.edu;ucsc.edu	37	chr2	209028271	209028271	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagcacctccacaggctcaCcttccccatggttgttgaca	9	9	7	16	0	1	1	1	1	0	0	3	1	3	1	5	2	1	4	5	2	0	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	209028271	C	T	209028271	5	4	43	1	0	0	0	0	0	0	1	0	3914	521	18	2	526	2	CRYGA	2	209028271	Splice_Site	SNP	C	TCGA-AK-3450-01A-02D-1361-10	6478411	209028271	34171102	15	2534											
NDUFA10	4705	hgsc.bcm.edu	37	chr2	240958036	240958036	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtcactgaagatggagcGctccaacacaacaccttgtc	14	7	8	12	1	1	2	1	1	0	1	3	3	2	3	2	1	3	1	2	1	4	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	240958036	G	C	240958036	3	2	43	1	0	0	0	0	1	0	0	0	10260	1087	38	4	614	4	NDUFA10	2	240958036	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	31929765	240958036	2241337	16	2535											
SETD5	55209	hgsc.bcm.edu;ucsc.edu	37	chr3	9517397	9517397	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccccatttacggggacAccagggtattttagcagcca	9	10	11	11	1	0	0	0	0	0	0	0	1	0	1	4	4	3	2	4	4	3	6	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	9517397	A	C	9517397	2	2	43	1	0	0	0	0	0	0	0	1	14136	146	6	5		5	SETD5	3	9517397	Silent	SNP	A	TCGA-AK-3450-01A-02D-1361-10		9517397	188505033	17	2536											
MUC4	4585	hgsc.bcm.edu	37	chr3	195507950	195507950	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacaggaagagtgctggtgtCacctgtggatgctgaggaag	10	8	17	6	0	1	2	1	1	0	1	1	6	1	5	1	4	2	2	1	4	2	0	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	195507950	C	G	195507950	3	3	43	1	0	0	0	0	1	0	0	0	9978	826	29	4		4	MUC4	3	195507950	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	185990553	195507950	2514480	18	2537											
OTOP1	133060	hgsc.bcm.edu	37	chr4	4199808	4199808	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgggggcgtgcagttacaCtgcggtgtgtggtcatctaa	6	12	16	7	2	2	0	1	0	1	0	2	0	2	0	0	4	3	3	0	4	2	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	4199808	C	T	4199808	2	4	43	1	0	0	0	0	0	0	0	1	11305	564	20	2		2	OTOP1	4	4199808	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10		4199808	186954468	19	2538											
LYAR	55646	hgsc.bcm.edu	37	chr4	4285456	4285456	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcaccacatgcattgcatGtaaaaaataccatttttagg	15	13	5	8	0	1	0	1	0	0	0	1	0	1	0	2	1	3	3	2	1	5	7	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	4285456	G	T	4285456	3	4	43	1	0	0	0	0	1	0	0	0	9103	1377	48	4	1157	4	LYAR	4	4285456	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	85648	4285456	186868820	20	2539											
FRYL	285527	hgsc.bcm.edu	37	chr4	48530033	48530033	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggaccacagagagaaagCacattcattagcttttctct	12	12	7	10	0	3	2	1	0	2	2	4	4	3	3	1	1	2	2	1	1	2	4	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	48530033	C	G	48530033	2	3	43	1	0	0	0	0	0	0	0	1	6064	697	25	4		4	FRYL	4	48530033	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10	44244577	48530033	142624243	21	2540											
LRRC66	339977	hgsc.bcm.edu	37	chr4	52861963	52861963	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcttttgctctggcActttttttgccacagtctgt	4	16	10	11	0	2	0	0	0	2	0	2	0	2	0	2	2	2	3	2	2	0	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	52861963	A	C	52861963	3	2	43	1	0	0	0	0	1	0	0	0	9018	159	6	5	1421	5	LRRC66	4	52861963	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10	4331930	52861963	138292313	22	2541											
KIT	3815	hgsc.bcm.edu	37	chr4	55593646	55593646	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaaacaattatgtttacaTagacccaacacaacttcctt	15	12	4	10	0	0	1	0	0	0	1	1	2	1	2	2	1	4	1	2	1	7	6	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	55593646	T	A	55593646	3	1	43	1	0	0	0	0	1	0	0	0	8329	1406	49	5	1754	5	KIT	4	55593646	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	2731683	55593646	135560630	23	2542											
LPHN3	23284	hgsc.bcm.edu;ucsc.edu	37	chr4	62936168	62936168	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgaggagagtttgggcCtggaactcattcatgaggaa	12	8	13	8	1	2	2	2	1	0	1	2	6	2	4	2	4	1	1	2	4	2	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	62936168	C	G	62936168	3	3	43	1	0	0	0	0	1	0	0	0	8917	680	24	4	4042	4	LPHN3	4	62936168	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	7342522	62936168	128218108	24	2543											
USP53	54532	hgsc.bcm.edu;ucsc.edu	37	chr4	120214163	120214163	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagctcctcaactaacgatTttcaggcaaactcaggtgcc	11	9	7	14	1	3	0	3	0	0	0	4	1	4	0	3	2	5	2	3	2	3	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	120214163	T	A	120214163	3	1	43	1	0	0	0	0	1	0	0	0	17083	1841	64	5	3077	5	USP53	4	120214163	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	57277995	120214163	70940113	25	2544											
ZFP42	132625	hgsc.bcm.edu;ucsc.edu	37	chr4	188923991	188923991	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caactgaagaaacgggcaaaGacaagacaccagaaaggcct	19	2	10	10	1	0	5	0	1	0	4	0	5	0	5	2	2	2	1	2	2	6	0	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	188923991	G	C	188923991	3	2	43	1	0	0	0	0	1	0	0	0	17649	933	33	4	32	4	ZFP42	4	188923991	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	68709828	188923991	2230285	26	2545											
HEATR7B2	0	hgsc.bcm.edu	37	chr5	41039597	41039597	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgattttggaatgttttaaGaacttttaaaacaatatcca	15	16	5	5	0	0	2	0	1	0	1	1	3	1	3	1	1	2	1	1	1	7	7	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	41039597	G	A	41039597	3	1	43	1	0	0	0	0	1	0	0	0	7035	942	33	2	2835	2	HEATR7B2	5	41039597	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10		41039597	139875663	27	2546											
THBS4	7060	hgsc.bcm.edu	37	chr5	79351746	79351746	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccggctccctagagctctAcctggactgcatccaggtgg	6	8	13	14	1	1	1	0	0	1	1	3	2	3	2	4	5	3	3	4	5	2	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	79351746	A	G	79351746	3	3	43	1	0	0	0	0	1	0	0	0	15855	391	14	3	441	3	THBS4	5	79351746	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10	38312149	79351746	101563514	28	2547											
SPATA9	83890	hgsc.bcm.edu	37	chr5	94994526	94994526	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagaaaaggcttttctaCaattttcactctcctctctg	9	15	5	12	0	5	1	2	0	3	1	7	1	5	1	1	1	1	2	1	1	4	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	94994526	C	A	94994526	3	1	43	1	0	0	0	0	1	0	0	0	15017	478	17	4	202	4	SPATA9	5	94994526	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	15642780	94994526	85920734	29	2548											
FBXO38	81545	hgsc.bcm.edu	37	chr5	147821561	147821561	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctcctagaaggaaaggaCagctgtctgcagacatctgt	12	9	11	9	0	2	2	0	0	2	2	3	4	3	4	1	2	3	3	1	2	3	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	147821561	C	A	147821561	3	1	43	1	0	0	0	0	1	0	0	0	5746	479	17	4	3500	4	FBXO38	5	147821561	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	52827035	147821561	33093699	30	2549											
EHMT2	10919	hgsc.bcm.edu	37	chr6	31851591	31851591	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccctactcacctgcaggtGggtgatgttgcgatcgatgt	6	11	12	12	2	1	1	1	1	0	0	2	3	1	1	3	2	3	2	3	2	1	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	31851591	G	C	31851591	3	2	43	1	0	0	0	0	1	0	0	0	4984	1348	47	4	752	4	EHMT2	6	31851591	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10		31851591	139263476	31	2550											
SYNGAP1	8831	hgsc.bcm.edu	37	chr6	33411251	33411251	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagagccccctggggaCacctttgccccattccatgg	6	8	13	14	0	0	1	0	0	0	1	1	3	1	2	6	5	2	0	6	5	0	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	33411251	C	A	33411251	3	1	43	1	0	0	0	0	1	0	0	0	15446	477	17	4	2980	4	SYNGAP1	6	33411251	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	1559660	33411251	137703816	32	2551											
TULP4	56995	hgsc.bcm.edu;ucsc.edu	37	chr6	158873196	158873196	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatatcccatcccagtgcAgaacatcaagcctctgctca	12	8	6	15	0	3	1	2	0	1	1	5	1	5	1	3	0	5	3	3	0	3	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	158873196	A	T	158873196	3	4	43	1	0	0	0	0	1	0	0	0	16775	188	7	5	773	5	TULP4	6	158873196	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10	125461945	158873196	12241871	33	2552											
DGKB	1607	hgsc.bcm.edu;ucsc.edu	37	chr7	14880860	14880860	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaaattccgaagggctgAggtgggcccatttttcctgg	8	10	15	8	1	0	1	0	1	0	0	2	3	2	2	3	5	0	1	3	5	3	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	14880860	A	G	14880860	3	3	43	1	0	0	0	0	1	0	0	0	4466	304	11	3	2500	3	DGKB	7	14880860	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10		14880860	144257803	34	2553											
TRA2A	29896	hgsc.bcm.edu;ucsc.edu	37	chr7	23545398	23545398	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgagatcttgatcgtgatcTatatcgactataataaggag	14	12	9	6	3	2	3	0	2	2	1	4	6	2	4	0	1	0	0	0	1	5	6	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	23545398	T	C	23545398	3	2	43	1	0	0	0	0	1	0	0	0	16432	1530	53	3	51	3	TRA2A	7	23545398	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	8664538	23545398	135593265	35	2554											
BMPER	168667	hgsc.bcm.edu	37	chr7	34118573	34118573	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgttttgacaaaagactgcTcctcccctgcctcgcccttc	7	11	6	17	2	0	2	0	1	0	1	4	2	2	2	5	0	2	2	5	0	2	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	34118573	T	C	34118573	3	2	43	1	0	0	0	0	1	0	0	0	1468	1551	54	3	1229	3	BMPER	7	34118573	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	10573175	34118573	125020090	36	2555											
PTPN12	5782	hgsc.bcm.edu	37	chr7	77256330	77256330	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaaggtccctctccaagAgggaccaaaaagttttgatg	14	9	10	8	0	1	3	0	1	1	2	3	4	2	4	3	2	0	1	3	2	5	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	77256330	A	G	77256330	3	3	43	1	0	0	0	0	1	0	0	0	12783	304	11	3	1384	3	PTPN12	7	77256330	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10	43137757	77256330	81882333	37	2556											
PUS7	54517	hgsc.bcm.edu	37	chr7	105135690	105135690	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagattttggccaagaatgTtttcttggatcttgaaagca	11	15	9	6	0	2	3	0	1	2	2	2	4	2	4	1	2	1	2	1	2	4	7	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	105135690	T	C	105135690	2	2	43	1	0	0	0	0	0	0	0	1	12835	1722	60	3		3	PUS7	7	105135690	Silent	SNP	T	TCGA-AK-3450-01A-02D-1361-10	27879360	105135690	54002973	38	2557											
RHEB	6009	hgsc.bcm.edu	37	chr7	151188050	151188050	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttctatggttggatcgtAggagtccacaaattggcctt	8	15	11	7	1	1	0	0	0	1	0	3	2	2	2	2	4	0	3	2	4	3	7	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	151188050	A	G	151188050	3	3	43	1	0	0	0	0	1	0	0	0	13330	420	15	3	479	3	RHEB	7	151188050	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10	46052360	151188050	7950613	39	2558											
GFRA2	2675	hgsc.bcm.edu	37	chr8	21560322	21560322	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacacaccctcacctggaCagacgtgcaggtggtgatga	10	6	12	13	1	1	3	1	2	0	1	1	4	1	4	3	3	1	1	3	3	0	0	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	21560322	C	G	21560322	3	3	43	1	0	0	0	0	1	0	0	0	6348	478	17	4	193	4	GFRA2	8	21560322	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10		21560322	124803700	40	2559											
MAK16	84549	hgsc.bcm.edu	37	chr8	33346635	33346635	+	Frame_Shift_Del	DEL	A	A	-																															cccaatacctaattcgaattAgaaaacttacactaaagcga																								novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		-	33346635	A	-	33346635	7	5	43	1	0	1	0	1	0	0	0	0	9198	412	15	0	388	0	MAK16	8	33346635	Frame_Shift_Del	DEL	A	TCGA-AK-3450-01A-02D-1361-10	11786313	33346635	113017387	41	2560											
ATP6V1H	51606	hgsc.bcm.edu	37	chr8	54727237	54727237	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacctgtgaactcagctgAgtttttatccaattgaaata	12	16	6	7	0	1	3	1	3	0	0	2	3	2	3	2	0	3	2	2	0	6	7	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	54727237	A	G	54727237	2	3	43	1	0	0	0	0	0	0	0	1	1189	291	11	3		3	ATP6V1H	8	54727237	Silent	SNP	A	TCGA-AK-3450-01A-02D-1361-10	21380602	54727237	91636785	42	2561											
DNAI1	27019	hgsc.bcm.edu	37	chr9	34514473	34514473	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acactgtgtcctggaacccaTaccacaccaaggtcttcatg	11	9	7	14	0	2	0	1	0	1	0	3	1	3	1	4	2	2	0	4	2	3	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	34514473	T	C	34514473	3	2	43	1	0	0	0	0	1	0	0	0	4609	1406	49	3	1717	3	DNAI1	9	34514473	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10		34514473	106698958	43	2562											
RALGDS	5900	hgsc.bcm.edu	37	chr9	135985694	135985694	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgctcaccttttgaacagCaggtccaggacctgttgggt	8	11	11	11	0	1	1	1	1	0	0	2	2	2	2	3	3	3	3	3	3	1	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	135985694	C	A	135985694	2	1	43	1	0	0	0	0	0	0	0	1	13018	697	25	4		4	RALGDS	9	135985694	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10	101471221	135985694	5227737	44	2563											
KCNMA1	3778	hgsc.bcm.edu	37	chr10	78647067	78647067	+	Frame_Shift_Del	DEL	T	T	-																															acttctgtttgtcccgggacTccctggacttgggccggttc																								novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		-	78647067	T	-	78647067	7	5	43	1	0	1	0	1	0	0	0	0	8073	1551	54	0	75	0	KCNMA1	10	78647067	Frame_Shift_Del	DEL	T	TCGA-AK-3450-01A-02D-1361-10		78647067	56887680	45	2564											
LIPJ	142910	hgsc.bcm.edu	37	chr10	90356597	90356597	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaacctcatttaaaaaattCattggttcaaagctgtgtcc	15	13	5	8	0	3	0	3	0	0	0	4	0	4	0	2	1	2	2	2	1	6	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	90356597	C	T	90356597	2	4	43	1	0	0	0	0	0	0	0	1	8826	825	29	2		2	LIPJ	10	90356597	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10	11709530	90356597	45178150	46	2565											
DNMBP	23268	hgsc.bcm.edu;ucsc.edu	37	chr10	101728908	101728908	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatccaactcttgggatgTgaattcacaaatgcacacaa	15	11	6	9	0	2	1	1	1	1	0	3	2	3	2	1	1	2	1	1	1	5	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	101728908	T	G	101728908	3	3	43	1	0	0	0	0	1	0	0	0	4674	1696	59	5	4561	5	DNMBP	10	101728908	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	11372311	101728908	33805839	47	2566											
METTL10	399818	hgsc.bcm.edu;ucsc.edu	37	chr10	126477708	126477708	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccaccttattagtcgattCatactctcttctccaaacct	10	15	2	14	1	3	0	1	0	2	0	7	1	4	0	4	0	2	0	4	0	4	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	126477708	C	T	126477708	3	4	43	1	0	0	0	0	1	0	0	0	9494	826	29	2	700	2	METTL10	10	126477708	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	24748800	126477708	9057039	48	2567											
STK33	65975	hgsc.bcm.edu	37	chr11	8457118	8457118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcataagttgtttcaaaaCacttttagctaaaaataaga	17	15	4	5	0	2	1	2	0	0	1	2	1	2	1	0	0	2	3	0	0	8	8	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	8457118	C	T	8457118	3	4	43	1	0	0	0	0	1	0	0	0	15301	478	17	2	487	2	STK33	11	8457118	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10		8457118	126549398	49	2568											
SOX6	55553	hgsc.bcm.edu	37	chr11	16010638	16010639	+	Frame_Shift_Del	DEL	GG	GG	-																															aaaccatgaatgcattcattGgtcgcttaatgtgtggctcg																								novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		-	16010639	GG	-	16010638	7	5	43	1	0	1	0	1	0	0	0	0	14957	1348	47	0	627	0	SOX6	11	16010638	Frame_Shift_Del	DEL	GG	TCGA-AK-3450-01A-02D-1361-10	7553520	16010638	118995878	50	2569											
ABTB2	25841	hgsc.bcm.edu	37	chr11	34186251	34186251	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctgtggccgtgggcagctGagtggctgaagcagttcatg	7	9	16	9	1	1	2	1	2	0	0	1	2	1	2	2	3	2	5	2	3	1	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	34186251	G	A	34186251	3	1	43	1	0	0	0	0	1	0	0	0	103	1294	45	2	1143	2	ABTB2	11	34186251	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	18175613	34186251	100820265	51	2570											
PRDM10	56980	hgsc.bcm.edu;ucsc.edu	37	chr11	129772385	129772385	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttttcttccaattctgaTtgactttctgataacacata	10	18	4	9	0	3	3	0	3	3	0	4	3	4	3	1	0	2	1	1	0	3	8	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	129772385	T	C	129772385	2	2	43	1	0	0	0	0	0	0	0	1	12453	1490	52	3		3	PRDM10	11	129772385	Silent	SNP	T	TCGA-AK-3450-01A-02D-1361-10	95586134	129772385	5234131	52	2571											
RAD51AP1	10635	hgsc.bcm.edu;ucsc.edu	37	chr12	4655496	4655496	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggctttagatgacaagctCtaccagagagacttagaagt	14	10	10	7	0	1	5	0	1	1	4	1	6	1	5	1	1	2	2	1	1	5	4	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	4655496	C	T	4655496	2	4	43	1	0	0	0	0	0	0	0	1	12988	900	32	2		2	RAD51AP1	12	4655496	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10		4655496	129196399	53	2572											
THAP2	83591	hgsc.bcm.edu	37	chr12	72068032	72068032	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgggttcgcctggttaggCgcaaaaattttgtgccagga	10	11	13	7	2	0	0	0	0	0	0	1	1	0	1	2	4	1	3	2	4	4	4	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	72068032	C	G	72068032	3	3	43	1	0	0	0	0	1	0	0	0	15843	768	27	4	127	4	THAP2	12	72068032	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	67412536	72068032	61783863	54	2573											
C12orf63	374467	hgsc.bcm.edu	37	chr12	97102553	97102553	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagacagtaattaccaacaaGagcaaaccaaacctaccaaa	22	4	4	11	0	0	2	0	0	0	2	0	2	0	2	4	0	6	2	4	0	9	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	97102553	G	A	97102553	2	1	43	1	0	0	0	0	0	0	0	1	1706	933	33	2		2	C12orf63	12	97102553	Silent	SNP	G	TCGA-AK-3450-01A-02D-1361-10	25034521	97102553	36749342	55	2574											
DNAH10	196385	hgsc.bcm.edu;ucsc.edu	37	chr12	124416393	124416393	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctctggctgaacttcaaaGggtgagcctgtctctcatgt	7	13	11	10	0	4	2	2	2	2	0	6	2	4	2	1	2	2	1	1	2	2	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	124416393	G	T	124416393	3	4	43	1	0	0	0	0	1	0	0	0	4598	1014	35	4	13067	4	DNAH10	12	124416393	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	27313840	124416393	9435502	56	2575											
C13orf1	0	hgsc.bcm.edu	37	chr13	50505170	50505170	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caacctgtggactggattttGaattcaaaatagcttttgtt	11	16	8	6	0	1	1	1	1	0	0	1	3	1	3	1	2	2	2	1	2	5	7	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	50505170	G	C	50505170	3	2	43	1	0	0	0	0	1	0	0	0	1717	1281	45	4	399	4	C13orf1	13	50505170	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10		50505170	64664708	57	2576											
MYO16	23026	hgsc.bcm.edu	37	chr13	109318342	109318342	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtctagtgaagcgcatgcGctgtgagcaaatcaaagcct	11	8	12	10	3	2	2	1	2	1	0	2	2	2	2	1	0	4	3	1	0	4	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	109318342	G	C	109318342	3	2	43	1	0	0	0	0	1	0	0	0	10064	1087	38	4	73	4	MYO16	13	109318342	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	58813172	109318342	5851536	58	2577											
DHRS4L2	317749	hgsc.bcm.edu;ucsc.edu	37	chr14	24464310	24464310	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaccctttctttggaagcCtaatggatgtcaccgaggag	10	11	10	10	1	3	0	2	0	1	0	3	4	3	3	3	3	2	0	3	3	3	3	rs61999853	bycluster;byfrequency;by1000genomes	TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	24464310	C	A	24464310	3	1	43	1	0	0	0	0	1	0	0	0	4494	680	24	4	386	4	DHRS4L2	14	24464310	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10		24464310	82885230	59	2578											
NIN	51199	hgsc.bcm.edu	37	chr14	51206109	51206109	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttgccaaagcagctgctGttcctcattcatcagatgat	9	13	7	12	0	4	2	3	1	1	1	5	2	5	2	2	0	4	4	2	0	1	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	51206109	G	C	51206109	3	2	43	1	0	0	0	0	1	0	0	0	10417	1386	48	4	1028	4	NIN	14	51206109	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10	26741799	51206109	56143431	60	2579											
CATSPERB	79820	hgsc.bcm.edu	37	chr14	92074657	92074657	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgacatgtgaaacatgTttcttggtatgggtttgcta	8	17	10	6	0	1	2	0	2	1	0	1	2	1	2	1	2	2	4	1	2	3	6	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	92074657	T	G	92074657	3	3	43	1	0	0	0	0	1	0	0	0	2691	1725	60	5	684	5	CATSPERB	14	92074657	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	40868548	92074657	15274883	61	2580											
HERC2	8924	hgsc.bcm.edu;ucsc.edu	37	chr15	28420762	28420762	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggtttccgcacgtgcaCgtcagagccgtggcccaatc	6	9	12	14	4	1	1	1	0	0	1	3	1	2	1	3	2	2	3	3	2	1	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	28420762	C	G	28420762	3	3	43	1	0	0	0	0	1	0	0	0	7058	536	19	4	4897	4	HERC2	15	28420762	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10		28420762	74110630	62	2581											
NUSAP1	51203	hgsc.bcm.edu	37	chr15	41650369	41650369	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaagaagcttcatgaagcTcattttaaggaaatggagtc	14	13	9	5	0	2	2	2	1	0	1	3	4	2	4	0	2	2	2	0	2	5	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	41650369	T	C	41650369	2	2	43	1	0	0	0	0	0	0	0	1	10778	1538	54	3		3	NUSAP1	15	41650369	Silent	SNP	T	TCGA-AK-3450-01A-02D-1361-10	13229607	41650369	60881023	63	2582											
BLM	641	hgsc.bcm.edu	37	chr15	91306293	91306293	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgatgaagatttttcaTaaaaaatttggcctgcataa	17	13	7	4	0	1	3	1	2	0	1	1	4	1	3	1	1	1	1	1	1	6	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	91306293	T	A	91306293	3	1	43	1	0	0	0	0	1	0	0	0	1445	1403	49	5	2006	5	BLM	15	91306293	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	49655924	91306293	11225099	64	2583											
SRRM2	23524	hgsc.bcm.edu	37	chr16	2807932	2807932	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaaccagctcctgagccTcccaaaccttacaggtatac	14	7	5	15	0	0	1	0	1	0	0	2	1	2	1	5	1	7	2	5	1	6	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	2807932	T	C	2807932	2	2	43	1	0	0	0	0	0	0	0	1	15170	1538	54	3		3	SRRM2	16	2807932	Silent	SNP	T	TCGA-AK-3450-01A-02D-1361-10		2807932	87546821	65	2584											
TNFRSF17	608	hgsc.bcm.edu;ucsc.edu	37	chr16	12061465	12061465	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctaacattgacctggaaAagagcaggactggtgatgaa	14	8	13	6	0	0	4	0	3	0	1	0	6	0	6	1	4	2	2	1	4	4	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	12061465	A	C	12061465	3	2	43	1	0	0	0	0	1	0	0	0	16289	15	1	5	326	5	TNFRSF17	16	12061465	Missense_Mutation	SNP	A	TCGA-AK-3450-01A-02D-1361-10	9253533	12061465	78293288	66	2585											
SALL1	6299	hgsc.bcm.edu	37	chr16	51174659	51174659	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgctgaaagtggactttcaGattccccttggtggagaacc	9	10	12	10	1	1	3	1	1	0	2	2	5	2	4	3	3	1	1	3	3	2	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	51174659	G	A	51174659	2	1	43	1	0	0	0	0	0	0	0	1	13812	933	33	2		2	SALL1	16	51174659	Silent	SNP	G	TCGA-AK-3450-01A-02D-1361-10	39113194	51174659	39180094	67	2586											
TMEM132E	124842	hgsc.bcm.edu	37	chr17	32961826	32961826	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccaccccaggtcagtccGggaaagcgaggatgaggatg	10	5	14	12	2	1	1	1	1	0	0	3	5	3	4	5	4	1	0	5	4	1	0	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	32961826	G	A	32961826	3	1	43	1	0	0	0	0	1	0	0	0	16047	1116	39	1	1457	1	TMEM132E	17	32961826	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10		32961826	48233384	68	2587											
MAP2K6	5608	hgsc.bcm.edu	37	chr17	67537827	67537827	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttccagcaacatccatTtttcaccctacatgaatcca	11	14	2	14	0	2	1	1	1	1	0	5	1	5	1	4	0	3	1	4	0	3	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	67537827	T	G	67537827	3	3	43	1	0	0	0	0	1	0	0	0	9241	1841	64	5	984	5	MAP2K6	17	67537827	Missense_Mutation	SNP	T	TCGA-AK-3450-01A-02D-1361-10	34576001	67537827	13657383	69	2588											
L3MBTL4	91133	hgsc.bcm.edu;ucsc.edu	37	chr18	5960153	5960153	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagactgtacaaactcagcCacctacagtgcgagatgaaa	16	6	9	10	1	1	3	1	1	0	2	1	5	1	3	2	0	5	1	2	0	4	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	5960153	C	G	5960153	2	3	43	1	0	0	0	0	0	0	0	1	8594	581	21	4		4	L3MBTL4	18	5960153	Silent	SNP	C	TCGA-AK-3450-01A-02D-1361-10		5960153	72117095	70	2589											
SLC25A23	79085	hgsc.bcm.edu;ucsc.edu	37	chr19	6444252	6444252	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaccgcaggccaggagcaCgaggatgcctgggtctgccg	7	5	17	12	3	1	0	0	0	1	0	1	3	1	2	4	5	4	3	4	5	1	1	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		A	6444252	C	A	6444252	3	1	43	1	0	0	0	0	1	0	0	0	14488	536	19	4	282	4	SLC25A23	19	6444252	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10		6444252	52684731	71	2590											
SPAG4	6676	hgsc.bcm.edu	37	chr20	34208697	34208697	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagactttccacctgcaggTgtgtttgtctctagggtgaa	7	14	11	9	0	2	2	1	1	1	1	4	2	3	2	2	2	1	2	2	2	2	3	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		G	34208697	T	G	34208697	5	3	43	1	0	0	0	0	0	0	1	0	14982	1710	59	5	1211	5	SPAG4	20	34208697	Splice_Site	SNP	T	TCGA-AK-3450-01A-02D-1361-10		34208697	28816823	72	2591											
ZNF217	7764	hgsc.bcm.edu	37	chr20	52192307	52192307	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactaccagcaggcacaCaagtgtaaagtggcccggag	12	5	13	11	1	0	0	0	0	0	0	0	2	0	2	2	4	2	3	2	4	4	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	52192307	C	T	52192307	3	4	43	1	0	0	0	0	1	0	0	0	17771	478	17	2	158	2	ZNF217	20	52192307	Missense_Mutation	SNP	C	TCGA-AK-3450-01A-02D-1361-10	17983610	52192307	10833213	73	2592											
SEC14L3	266629	hgsc.bcm.edu;ucsc.edu	37	chr22	30866555	30866555	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggcaggaagcacatcctgGacgttttctcggaactggca	10	8	13	10	2	1	0	0	0	1	0	3	3	2	3	1	5	2	4	1	5	2	2	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		T	30866555	G	T	30866555	2	4	43	1	0	0	0	0	0	0	0	1	13985	1161	41	4		4	SEC14L3	22	30866555	Silent	SNP	G	TCGA-AK-3450-01A-02D-1361-10		30866555	20438011	74	2593											
USP26	83844	hgsc.bcm.edu;ucsc.edu	37	chrX	132160053	132160053	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtctgttcagacactttttgGaatctttctggaattctgat	8	18	8	7	0	5	2	1	1	4	1	5	4	5	4	0	2	0	1	0	2	2	5	novel		TCGA-AK-3450-01A-02D-1361-10	TCGA-AK-3450-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	1e9e638b-f766-4e2a-bfa1-b63721920186	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	132160053	G	C	132160053	3	2	43	1	0	0	0	0	1	0	0	0	17056	1165	41	4	548	4	USP26	23	132160053	Missense_Mutation	SNP	G	TCGA-AK-3450-01A-02D-1361-10		132160053	23110507	75	2594											
VHL	7428	hgsc.bcm.edu	37	chr3	10183873	10183873	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcatccacagctaccgaggTacgggcccggcgcttaggcc	7	5	13	16	5	0	0	0	0	0	0	1	1	1	0	4	4	3	4	4	4	3	3	novel		TCGA-AK-3450-01A-02W-1359-10	TCGA-AK-3450-10A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	ea3eb63e-3ce6-4865-8c38-1e20a4fba26e	309f8d72-a55d-4b31-bd5a-18a624cf2347		C	10183873	T	C	10183873	5	2	44	1	0	0	0	0	0	0	1	0	17161	1652	57	3	344	3	VHL	3	10183873	Splice_Site	SNP	T	TCGA-AK-3450-01A-02W-1359-10		10183873	187838557	1	2595											
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu	37	chr1	35578967	35578967	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accctggaaaaattcagaaaGcatgaaaaaagtgaaatgca	21	6	8	6	0	1	3	1	2	0	1	1	4	1	4	1	1	2	2	1	1	7	1	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	35578967	G	A	35578967	2	1	45	1	0	0	0	0	0	0	0	1	17698	962	34	2		2	ZMYM1	1	35578967	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10		35578967	213671654	1	2596											
FAM183A	440585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43616487	43616487	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataacctggaggaacctgcAgatggtaagtcctgggcttt	10	10	13	8	0	0	1	0	0	0	1	1	4	1	3	3	4	3	3	3	4	3	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	43616487	A	C	43616487	2	2	45	1	0	0	0	0	0	0	0	1	5510	175	7	5		5	FAM183A	1	43616487	Silent	SNP	A	TCGA-AK-3451-01A-02D-1251-10	8037520	43616487	205634134	2	2597											
CYP4A11	1579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47402390	47402390	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatagggcttcaggatgtcAtagtggaaggctggggtcag	10	9	16	6	0	3	0	3	0	0	0	3	2	3	2	0	6	0	2	0	6	3	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	47402390	A	C	47402390	4	2	45	1	0	0	0	0	0	1	0	0	4183	224	8	5	1139	5	CYP4A11	1	47402390	Nonsense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	3785903	47402390	201848231	3	2598											
SCP2	6342	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53516318	53516318	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaaaatcactggcaacaTgggtctcgctatgaagttac	13	11	9	8	1	2	2	1	2	1	0	3	2	2	2	0	2	2	3	0	2	6	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	53516318	T	A	53516318	3	1	45	1	0	0	0	0	1	0	0	0	13936	1464	51	5	1672	5	SCP2	1	53516318	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	6113928	53516318	195734303	4	2599											
LRRC8D	55144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	90400298	90400298	+	Frame_Shift_Del	DEL	T	T	-																															gaaattcctgcctgggtgtaTttgctcaaaaaccttcgaga																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	90400298	T	-	90400298	7	5	45	1	0	1	0	1	0	0	0	0	9024	1500	52	0	1673	0	LRRC8D	1	90400298	Frame_Shift_Del	DEL	T	TCGA-AK-3451-01A-02D-1251-10	36883980	90400298	158850323	5	2600											
EVI5	7813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	93089777	93089777	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgttttatttctcttatttCtgcttgtgtttcagcttctc	3	25	5	8	0	4	0	1	0	3	0	6	0	4	0	0	0	2	4	0	0	2	9	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	93089777	C	T	93089777	3	4	45	1	0	0	0	0	1	0	0	0	5289	922	32	2	717	2	EVI5	1	93089777	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	2689479	93089777	156160844	6	2601											
KCNT2	343450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196250087	196250087	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaagtctggcataagttCtgatccataagtcatctgca	13	12	8	8	0	4	1	1	1	3	0	5	2	5	1	1	1	1	3	1	1	4	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	196250087	C	A	196250087	3	1	45	1	0	0	0	0	1	0	0	0	8092	913	32	4	610	4	KCNT2	1	196250087	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	103160310	196250087	53000534	7	2602											
KIF21B	23046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200960791	200960791	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgagtgagctcacctcctgGgtcttcctcctcaggaccat	6	11	9	15	1	3	1	2	1	1	0	7	3	6	2	5	2	1	1	5	2	0	1	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	200960791	G	T	200960791	2	4	45	1	0	0	0	0	0	0	0	1	8289	1219	43	4		4	KIF21B	1	200960791	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10	4710704	200960791	48289830	8	2603											
URB2	9816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	229773365	229773365	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaattcctccaagtgatagGgacgttcttagaggagctaa	12	10	12	7	1	1	2	0	1	1	1	3	5	3	5	2	3	1	2	2	3	5	5	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	229773365	G	A	229773365	3	1	45	1	0	0	0	0	1	0	0	0	17024	1232	43	2	3015	2	URB2	1	229773365	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	28812574	229773365	19477256	9	2604											
SEMA4F	10505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74902021	74902021	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgtgaattccagggagggGgctactatctctgctgtctg	6	12	13	10	0	2	1	0	1	2	0	4	2	3	2	2	3	2	2	2	3	3	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	74902021	G	T	74902021	2	4	45	1	0	0	0	0	0	0	0	1	14037	1219	43	4		4	SEMA4F	2	74902021	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10		74902021	168297352	10	2605											
TSGA10	80705	broad.mit.edu;hgsc.bcm.edu	37	chr2	99725301	99725301	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttgtaagtttacctgttCataaagaaggaagatcttgt	12	17	8	4	0	2	2	1	0	1	2	2	3	2	3	1	1	1	3	1	1	6	8	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	99725301	C	T	99725301	3	4	45	1	0	0	0	0	1	0	0	0	16616	835	29	2	1951	2	TSGA10	2	99725301	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	24823280	99725301	143474072	11	2606											
GALNT5	11227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158114785	158114785	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagagttcagccagaccaagGaaaaattttttacagcagca	16	8	8	9	0	1	2	1	0	0	2	1	3	1	3	2	1	4	3	2	1	4	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	158114785	G	A	158114785	3	1	45	1	0	0	0	0	1	0	0	0	6216	1174	41	2	193	2	GALNT5	2	158114785	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	58389484	158114785	85084588	12	2607											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	167760143	167760143	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcgcctgaaggagaggtaGtatcagcacctcaatctttg	10	11	11	9	1	3	2	2	1	1	1	3	3	3	2	2	2	2	3	2	2	4	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	167760143	G	T	167760143	3	4	45	1	0	0	0	0	1	0	0	0	17429	1029	36	4	153	4	XIRP2	2	167760143	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	9645358	167760143	75439230	13	2608											
SPC25	57405	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	169745777	169745777	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaccattcgttcttctTcctttaatttcacagacagc	9	16	3	13	1	4	1	2	0	3	1	7	1	5	1	2	0	2	1	2	0	2	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	169745777	T	G	169745777	3	3	45	1	0	0	0	0	1	0	0	0	15023	1783	62	5	536	5	SPC25	2	169745777	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	1985634	169745777	73453596	14	2609											
ITGA6	3655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	173352130	173352130	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggctaaactgattgcaacGtttccagacactttaaccta	13	11	7	10	1	0	2	0	1	0	1	1	3	1	2	2	1	4	3	2	1	5	6	rs141344340		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	173352130	G	A	173352130	2	1	45	1	0	0	0	0	0	0	0	1	7880	1132	40	1		1	ITGA6	2	173352130	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10	3606353	173352130	69847243	15	2610											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179582267	179582267	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacctgagagaatgagcttgGcactggatgaagcagtccca	12	7	12	10	0	0	4	0	3	0	1	1	6	1	5	2	2	2	3	2	2	2	1	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	179582267	G	A	179582267	3	1	45	1	0	0	0	0	1	0	0	0	16734	1203	42	2	79299	2	TTN	2	179582267	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	6230137	179582267	63617106	16	2611											
AOX1	316	hgsc.bcm.edu;ucsc.edu	37	chr2	201533350	201533350	+	Frame_Shift_Del	DEL	T	T	-																															tgcctcagattgaaggtgcaTttattcaaggcatgggactt																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	201533350	T	-	201533350	7	5	45	1	0	1	0	1	0	0	0	0	729	1493	52	0	3752	0	AOX1	2	201533350	Frame_Shift_Del	DEL	T	TCGA-AK-3451-01A-02D-1251-10	21951083	201533350	41666023	17	2612											
CCDC108	255101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219900064	219900064	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcataattattcatacTgcacgtattttaaacactca	14	14	4	9	1	2	0	2	0	0	0	2	0	2	0	0	0	5	4	0	0	6	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	219900064	T	G	219900064	3	3	45	1	0	0	0	0	1	0	0	0	2743	1580	55	5	5369	5	CCDC108	2	219900064	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	18366714	219900064	23299309	18	2613											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228883640	228883640	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttccatgattctcctgtTcatggagtccagaaagtctc	9	14	8	10	0	3	2	1	1	2	1	7	3	5	3	3	1	0	2	3	1	1	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	228883640	T	C	228883640	3	2	45	1	0	0	0	0	1	0	0	0	15049	1783	62	3	3196	3	SPHKAP	2	228883640	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	8983576	228883640	14315733	19	2614											
UGT1A7	54577	broad.mit.edu	37	chr2	234591037	234591037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctcgatccttttgatGcctgtggcttaattgttgcc	4	19	9	9	1	1	1	0	1	1	0	3	2	2	1	3	1	2	3	3	1	1	6	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	234591037	A	A	234591037	3	1	45	1	0	0	0	0	1	0	0	0	16949	1319	46	2	456	2	UGT1A7	2	234591037	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	5707397	234591037	8608336	20	2615											
UGT1A7	54577	broad.mit.edu;hgsc.bcm.edu	37	chr2	234591142	234591142	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgcacagtgccctgctcctCtttcctatgtccccagactt	5	13	7	16	0	1	1	0	0	1	1	4	1	4	1	5	0	3	2	5	0	1	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	234591142	C	G	234591142	3	3	45	1	0	0	0	0	1	0	0	0	16949	913	32	4	561	4	UGT1A7	2	234591142	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	105	234591142	8608231	21	2616											
RFTN1	23180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	16368331	16368331	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaggtgagctgccagccaTaggccgccagcgagttcagc	9	5	13	14	2	1	1	1	1	0	0	1	2	1	1	4	2	5	2	4	2	1	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	16368331	T	C	16368331	3	2	45	1	0	0	0	0	1	0	0	0	13260	1406	49	3	549	3	RFTN1	3	16368331	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10		16368331	181654099	22	2617											
NEK10	152110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	27332981	27332982	+	Frame_Shift_Ins	INS	-	-	AA																															actcaggacttaccactaatINSaaattcagcttggataccaa																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		AA	27332982	-	AA	27332981	7	5	45	1	0	1	1	0	0	0	0	0	10322	1403	49	0	700	0	NEK10	3	27332981	Frame_Shift_Ins	INS	-	TCGA-AK-3451-01A-02D-1251-10	10964650	27332981	170689449	23	2618											
PLXNB1	5364	broad.mit.edu	37	chr3	48463743	48463743	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtgcctggcactcactgtGctctgggtcatgacatacag	7	12	11	11	0	3	1	2	1	1	0	3	1	3	1	1	2	3	2	1	2	1	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	48463743	T	T	48463743	3	4	45	1	0	0	0	0	1	0	0	0	12123	1310	46	4	5127	4	PLXNB1	3	48463743	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	21130762	48463743	149558687	24	2619											
MST1R	4486	broad.mit.edu	37	chr3	49940468	49940476	+	In_Frame_Del	DEL	CCTTGCTCA	-	-																															cgtagaaataggaggcctggCcttgctcaaccacagttaca																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	CCTTGCTCA	CCTTGCTCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	49940476	-	-	49940468	7	5	45	1	0	1	0	1	0	0	0	0	9891	739	26	0	3707	0	MST1R	3	49940468	In_Frame_Del	DEL	CCTTGCTCA	TCGA-AK-3451-01A-02D-1251-10	1476725	49940468	148081962	25	2620											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52442521	52442521	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacatgttattcacaataTcatcatcaatcacggacgta	16	11	5	9	2	5	1	5	0	0	1	5	2	5	2	0	1	1	2	0	1	6	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	52442521	T	C	52442521	3	2	45	1	0	0	0	0	1	0	0	0	1311	1435	50	3	2021	3	BAP1	3	52442521	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	2502053	52442521	145579909	26	2621											
PTPRG	5793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	62258667	62258667	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattgtaatagacagcatgCtgcaacagataaaagacaaa	20	8	7	6	0	0	3	0	0	0	3	0	3	0	3	0	0	4	4	0	0	7	5	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	62258667	C	G	62258667	3	3	45	1	0	0	0	0	1	0	0	0	12804	796	28	4	3315	4	PTPRG	3	62258667	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	9816146	62258667	135763763	27	2622											
DPPA2	151871	hgsc.bcm.edu;ucsc.edu	37	chr3	109031461	109031461	+	Frame_Shift_Del	DEL	C	C	-																															aacgcttggttccatttgttCcatatttgcgtcatctttaa																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	109031461	C	-	109031461	7	5	45	1	0	1	0	1	0	0	0	0	4734	864	30	0	808	0	DPPA2	3	109031461	Frame_Shift_Del	DEL	C	TCGA-AK-3451-01A-02D-1251-10	46772794	109031461	88990969	28	2623											
MME	4311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154856020	154856020	+	Missense_Mutation	SNP	G	G	T																															tggaattggaaaaagaaattGccaatgtaaaacacattttt																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	154856020	G	T	154856020	3	4	45	1	0	0	0	0	1	0	0	0	9645	1319	46	4	880	4	MME	3	154856020	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	45824559	154856020	43166410	29	2624	34	2									
MME	4311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154856021	154856021	+	Missense_Mutation	SNP	C	C	G																															ggaattggaaaaagaaattgCcaatgtaaaacacatttttt																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	154856021	C	G	154856021	3	3	45	1	0	0	0	0	1	0	0	0	9645	739	26	4	881	4	MME	3	154856021	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	1	154856021	43166409	30	2625	34	2									
MUC4	4585	broad.mit.edu	37	chr3	195507059	195507059	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggatgctgaggaagTgtcggtgacaggaagagggg	10	7	19	5	1	0	3	0	2	0	1	1	6	0	6	1	6	1	1	1	6	2	0	rs76367261		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	195507059	C	C	195507059	3	2	45	1	0	0	0	0	1	0	0	0	9978	1696	59	3		3	MUC4	3	195507059	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	40651038	195507059	2515371	31	2626											
CTNND2	1501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	11018139	11018139	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatgctgttgaggacctGagatgcagccttgaccactt	9	10	10	12	0	0	3	0	3	0	1	0	5	0	4	4	1	3	3	4	1	0	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	11018139	G	T	11018139	3	4	45	1	0	0	0	0	1	0	0	0	4020	1299	45	4	666	4	CTNND2	5	11018139	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10		11018139	169897121	32	2627											
MTMR12	54545	broad.mit.edu;hgsc.bcm.edu	37	chr5	32242165	32242165	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcttcctatatattacctAaaagaagaacattcatgttt	14	15	5	7	0	1	2	1	0	0	2	2	2	2	2	2	0	3	2	2	0	8	8	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	32242165	A	G	32242165	3	3	45	1	0	0	0	0	1	0	0	0	9941	372	13	3	1094	3	MTMR12	5	32242165	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	21224026	32242165	148673095	33	2628											
AFF4	27125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132270528	132270528	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtactgtaggcttgggaaTtgcaacaagctttggtatag	10	13	13	5	0	0	0	0	0	0	0	0	1	0	1	0	4	4	6	0	4	7	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	132270528	T	C	132270528	3	2	45	1	0	0	0	0	1	0	0	0	359	1493	52	3	3338	3	AFF4	5	132270528	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	100028363	132270528	48644732	34	2629											
PCDHA12	56137	broad.mit.edu	37	chr5	140256584	140256584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcactgtcgagctacgtgtcGgtgcacgcggagagcggcaa	8	6	16	11	6	0	1	0	0	0	1	2	3	0	1	0	3	4	4	0	3	2	1	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	140256584	A	A	140256584	2	1	45	1	0	0	0	0	0	0	0	1	11522	1103	39	1		1	PCDHA12	5	140256584	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10	7986056	140256584	40658676	35	2630											
GEMIN5	25929	hgsc.bcm.edu;ucsc.edu	37	chr5	154287300	154287300	+	Frame_Shift_Del	DEL	A	A	-																															ccagctttacaggagttctcAaggtgggctttttcttcttt																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	154287300	A	-	154287300	7	5	45	1	0	1	0	1	0	0	0	0	6331	131	5	0	2332	0	GEMIN5	5	154287300	Frame_Shift_Del	DEL	A	TCGA-AK-3451-01A-02D-1251-10	14030716	154287300	26627960	36	2631											
GABRG2	2566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	161524855	161524855	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgatggtcgagtgctctAcaccctaaggtattcttttg	9	14	10	8	1	2	1	0	1	2	0	3	3	2	1	1	2	2	2	1	2	4	6	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	161524855	A	G	161524855	3	3	45	1	0	0	0	0	1	0	0	0	6172	391	14	3	553	3	GABRG2	5	161524855	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	7237555	161524855	19390405	37	2632											
CYP21A2	1589	broad.mit.edu	37	chr6	32006526	32006526	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgctgaactccaagaggaCcattgaggaagccatggtca	12	7	13	9	0	1	3	1	2	0	1	2	5	2	5	3	4	3	1	3	4	3	1	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	32006526	A	A	32006526	3	1	45	1	0	0	0	0	1	0	0	0	4153	507	18	4	1757	4	CYP21A2	6	32006526	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10		32006526	139108541	38	2633											
IGF2R	3482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160468352	160468352	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatcgagacgcgggagtggGcttccctgaatatcaggtag	9	9	15	8	3	1	3	1	2	0	1	3	5	2	4	1	3	0	2	1	3	3	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	160468352	G	A	160468352	3	1	45	1	0	0	0	0	1	0	0	0	7576	1203	42	2	2275	2	IGF2R	6	160468352	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	128461826	160468352	10646715	39	2634											
CARD11	84433	broad.mit.edu;ucsc.edu	37	chr7	2954892	2954892	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctgcttctcagtcaagaGcttggtggcgtccagcgagg	6	11	13	11	2	2	1	2	0	1	1	5	2	4	1	2	3	3	2	2	3	1	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	2954892	C	C	2954892	3	2	45	1	0	0	0	0	1	0	0	0	2645	971	34	4	666	4	CARD11	7	2954892	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10		2954892	156183771	40	2635											
DDC	1644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	50611748	50611748	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggccatgtaatccaccatCtccttccctctccttcggaa	7	13	5	16	1	2	0	0	0	2	0	7	1	4	1	6	2	0	1	6	2	2	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	50611748	C	G	50611748	3	3	45	1	0	0	0	0	1	0	0	0	4325	912	32	4	1458	4	DDC	7	50611748	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	47656856	50611748	108526915	41	2636											
C7orf23	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	86826037	86826037	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatagtaaattagctttctaAatttcggttctaagtctcct	11	18	5	7	1	3	0	0	0	3	0	5	0	3	0	1	1	1	3	1	1	8	9	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	86826037	A	T	86826037	3	4	45	1	0	0	0	0	1	0	0	0	2379	14	1	5	88	5	C7orf23	7	86826037	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	36214289	86826037	72312626	42	2637											
CAPZA2	830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116556165	116556165	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattgtagaagctgcagaaAatgaataccaggtatgattt	16	11	10	4	0	0	5	0	2	0	3	0	5	0	5	1	1	3	4	1	1	7	5	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	116556165	A	T	116556165	3	4	45	1	0	0	0	0	1	0	0	0	2641	14	1	5	743	5	CAPZA2	7	116556165	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	29730128	116556165	42582498	43	2638											
FAM71F1	84691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	128358917	128358917	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggtttgtggagctccaggTatgtgaccactatcaacgca	10	10	12	9	1	1	1	1	1	0	0	2	3	2	2	2	3	2	4	2	3	3	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	128358917	T	C	128358917	3	2	45	1	0	0	0	0	1	0	0	0	5612	1638	57	3	477	3	FAM71F1	7	128358917	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	11802752	128358917	30779746	44	2639											
NAT1	9	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	18079815	18079815	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactattggttttgagaccAcgatgttgggagggtatgtt	8	14	13	6	1	0	1	0	1	0	1	0	4	0	2	2	3	0	4	2	3	2	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	18079815	A	T	18079815	3	4	45	1	0	0	0	0	1	0	0	0	10173	159	6	5	455	5	NAT1	8	18079815	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10		18079815	128284207	45	2640											
HOOK3	84376	broad.mit.edu;ucsc.edu	37	chr8	42828459	42828459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactacaaaacagattatccGaagaatcaaagaaagcagat	22	6	6	7	1	1	4	1	0	0	4	2	5	2	4	1	0	4	1	1	0	9	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	42828459	A	A	42828459	3	1	45	1	0	0	0	0	1	0	0	0	7284	1059	37	1	1196	1	HOOK3	8	42828459	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	24748644	42828459	103535563	46	2641											
PKHD1L1	93035	hgsc.bcm.edu;ucsc.edu	37	chr8	110523095	110523095	+	Frame_Shift_Del	DEL	G	G	-																															tggctctgaacaaatcttatGaagtttacttcactggcacc																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	110523095	G	-	110523095	7	5	45	1	0	1	0	1	0	0	0	0	11972	1291	45	0	11767	0	PKHD1L1	8	110523095	Frame_Shift_Del	DEL	G	TCGA-AK-3451-01A-02D-1251-10	67694636	110523095	35840927	47	2642											
SLC18A3	6572	broad.mit.edu;ucsc.edu	37	chr10	50819157	50819157	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagcgaagacgtgaagaTcggggtgctgtttgcttcca	9	9	16	7	3	0	4	0	1	0	3	2	6	1	4	1	3	3	3	1	3	2	2	rs142721677	alternate_allele	TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	50819157	G	G	50819157	3	3	45	1	0	0	0	0	1	0	0	0	14429	1435	50	5	373	5	SLC18A3	10	50819157	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10		50819157	84715590	48	2643											
KIF20B	9585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91469205	91469205	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcagatggcacagaaatTcagtttttccaaggtaaaac	15	9	10	7	0	1	2	1	0	0	2	2	2	2	2	1	3	1	4	1	3	4	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	91469205	T	G	91469205	3	3	45	1	0	0	0	0	1	0	0	0	8287	1783	62	5	348	5	KIF20B	10	91469205	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	40650048	91469205	44065542	49	2644											
AFAP1L2	84632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	116082996	116082996	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagactccgtctttgggaTggcaagctgtttccgttctg	5	14	13	9	2	2	1	0	0	2	1	4	3	4	2	2	3	1	4	2	3	1	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	116082996	T	G	116082996	3	3	45	1	0	0	0	0	1	0	0	0	355	1464	51	5	2176	5	AFAP1L2	10	116082996	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	24613791	116082996	19451751	50	2645											
MUC2	4583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1097746	1097746	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcccagcggggagatcgtctCcaactgtgaggctgcggctg	6	7	16	12	3	1	2	0	1	1	1	3	3	1	2	2	4	3	2	2	4	1	0	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	1097746	C	T	1097746	3	4	45	1	0	0	0	0	1	0	0	0	9975	855	30	2	6973	2	MUC2	11	1097746	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10		1097746	133908770	51	2646											
TSPAN32	10077	hgsc.bcm.edu;ucsc.edu	37	chr11	2329985	2329985	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcttcctgtgcttctcccTggcgttctgcgcacaggtgc	2	12	13	14	2	2	0	0	0	2	0	4	0	3	0	2	3	3	4	2	3	0	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	2329985	T	A	2329985	3	1	45	1	0	0	0	0	1	0	0	0	16646	1580	55	5	313	5	TSPAN32	11	2329985	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	1232239	2329985	132676531	52	2647											
ZDHHC5	25921	broad.mit.edu;ucsc.edu	37	chr11	57440598	57440598	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaagagattcaaacccagCaagtatgtcccggtctctgc	12	8	10	11	1	2	1	1	0	1	1	4	3	3	2	2	2	3	2	2	2	4	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	57440598	A	A	57440598	3	1	45	1	0	0	0	0	1	0	0	0	17617	709	25	4	38	4	ZDHHC5	11	57440598	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	55110613	57440598	77565918	53	2648											
PRPF19	27339	broad.mit.edu;ucsc.edu	37	chr11	60658678	60658678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttctgtccatgcctgttGaagcgatgaacttggcgtga	7	12	13	9	2	1	3	0	3	1	0	2	4	2	3	2	2	3	2	2	2	2	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	60658678	A	A	60658678	3	1	45	1	0	0	0	0	1	0	0	0	12566	1294	45	2	43	2	PRPF19	11	60658678	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	3218080	60658678	74347838	54	2649											
KDM4D	55693	broad.mit.edu;hgsc.bcm.edu	37	chr11	94730799	94730799	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcaggggtgtttactcAataccataaaaaaaagaaag	17	7	11	6	1	1	1	1	0	0	1	1	1	1	1	1	3	2	2	1	3	8	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	94730799	A	G	94730799	3	3	45	1	0	0	0	0	1	0	0	0	8131	130	5	3	265	3	KDM4D	11	94730799	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	34072121	94730799	40275717	55	2650											
ALKBH8	91801	hgsc.bcm.edu;ucsc.edu	37	chr11	107375782	107375782	+	Frame_Shift_Del	DEL	T	T	-																															cctctgcactgaggtatcacTgttcatctcctctttctttc																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	107375782	T	-	107375782	7	5	45	1	0	1	0	1	0	0	0	0	533	1580	55	0	401	0	ALKBH8	11	107375782	Frame_Shift_Del	DEL	T	TCGA-AK-3451-01A-02D-1251-10	12644983	107375782	27630734	56	2651											
ABCG4	64137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119031335	119031335	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaccatccccacttacCtgcaatggagctcctatctc	10	10	5	16	0	2	1	1	0	1	1	5	2	4	2	5	1	3	2	5	1	4	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	119031335	C	A	119031335	3	1	45	1	0	0	0	0	1	0	0	0	70	680	24	4	1734	4	ABCG4	11	119031335	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	11655553	119031335	15975181	57	2652											
OR8B12	219858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124413242	124413242	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagacgacaaagaagcaGaagaagaagagctgagtcat	19	4	12	6	1	2	7	2	1	0	6	2	9	2	7	0	0	2	2	0	0	5	0	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	124413242	G	T	124413242	3	4	45	1	0	0	0	0	1	0	0	0	11226	933	33	4	625	4	OR8B12	11	124413242	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	5381907	124413242	10593274	58	2653											
CLEC9A	283420	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10217396	10217396	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactgggtggggttgtctcaGgatggacacagcggacgctg	7	9	17	8	2	1	0	1	0	1	0	2	3	1	3	0	6	2	2	0	6	1	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	10217396	G	C	10217396	3	2	45	1	0	0	0	0	1	0	0	0	3522	991	35	4	555	4	CLEC9A	12	10217396	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10		10217396	123634499	59	2654											
ZNF641	121274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48737147	48737147	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggtgggttttctggtgcCtgatgaggtgatgtcttcgc	4	15	16	6	1	2	3	0	3	2	0	3	3	2	3	1	4	1	2	1	4	1	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	48737147	C	T	48737147	3	4	45	1	0	0	0	0	1	0	0	0	18056	681	24	2	394	2	ZNF641	12	48737147	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	38519751	48737147	85114748	60	2655											
MBD6	114785	broad.mit.edu;ucsc.edu	37	chr12	57921633	57921633	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actataatttctcaacaggtGacctgtcttcactgaccagc	11	12	6	12	0	3	2	2	2	2	0	4	2	3	2	2	1	2	0	2	1	3	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	57921633	T	T	57921633	3	4	45	1	0	0	0	0	1	0	0	0	9348	1290	45	4	2265	4	MBD6	12	57921633	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	9184486	57921633	75930262	61	2656											
CAND1	55832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	67700071	67700071	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagtgaagaagtcaaatcaGctgcatcctatgcattaggc	13	10	9	9	0	2	2	2	1	0	1	3	2	3	2	1	1	3	3	1	1	6	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	67700071	G	A	67700071	3	1	45	1	0	0	0	0	1	0	0	0	2615	971	34	2	2661	2	CAND1	12	67700071	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	9778438	67700071	66151824	62	2657											
DYRK2	8445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	68052356	68052356	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaggataactgagagcAccggtgctatcacatctata	15	9	9	8	1	2	2	1	2	1	1	2	4	2	3	1	2	3	2	1	2	6	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	68052356	A	C	68052356	3	2	45	1	0	0	0	0	1	0	0	0	4856	159	6	5	1679	5	DYRK2	12	68052356	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	352285	68052356	65799539	63	2658											
STX2	2054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	131311785	131311785	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctttctcaaccacaacaaCtgtgtctccatcatcattct	11	14	2	14	0	6	0	3	0	4	0	8	0	6	0	2	0	3	0	2	0	3	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	131311785	C	G	131311785	3	3	45	1	0	0	0	0	1	0	0	0	15346	565	20	4	926	4	STX2	12	131311785	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	63259429	131311785	2540110	64	2659											
NBEA	26960	broad.mit.edu	37	chr13	35738588	35738588	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttcccaaatggtagacaAcatcatcattgcttgtggag	12	12	8	9	0	2	1	2	0	0	1	3	2	3	2	1	2	2	2	1	2	3	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	35738588	G	G	35738588	3	3	45	1	0	0	0	0	1	0	0	0	10187	43	2	3	4269	3	NBEA	13	35738588	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10		35738588	79431290	65	2660											
KIAA0564	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42263606	42263606	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgttcagatgatagttGatcactggaaattttatgag	13	15	10	3	0	2	5	2	3	0	2	2	6	2	6	0	1	0	2	0	1	4	6	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	42263606	G	T	42263606	3	4	45	1	0	0	0	0	1	0	0	0	8185	1299	45	4	1750	4	KIAA0564	13	42263606	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02D-1251-10	6525018	42263606	72906272	66	2661											
RBM23	55147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23371499	23371499	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgccaccatccagtcgCtcagtcacatggccaaccct	8	9	7	17	1	3	0	2	0	1	0	5	0	4	0	5	1	2	1	5	1	1	0	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	23371499	C	A	23371499	3	1	45	1	0	0	0	0	1	0	0	0	13125	796	28	4	312	4	RBM23	14	23371499	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10		23371499	83978041	67	2662											
PIAS1	8554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	68445966	68445966	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttgtaaaacagttgtcCtcaacagttcttcttcagag	11	15	6	9	0	5	1	2	0	3	1	6	1	6	1	1	0	2	3	1	0	4	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	68445966	C	T	68445966	2	4	45	1	0	0	0	0	0	0	0	1	11875	668	24	2		2	PIAS1	15	68445966	Silent	SNP	C	TCGA-AK-3451-01A-02D-1251-10		68445966	34085426	68	2663											
PKD1	5310	broad.mit.edu;hgsc.bcm.edu	37	chr16	2158399	2158399	+	Missense_Mutation	SNP	C	C	A																															gccaccctcaatgatgggcaCcaggcgctcgggggccaccg																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	2158399	C	A	2158399	3	1	45	1	0	0	0	0	1	0	0	0	11963	507	18	4	6270	4	PKD1	16	2158399	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10		2158399	88196354	69	2664	35	2									
PKD1	5310	broad.mit.edu;hgsc.bcm.edu	37	chr16	2158400	2158400	+	Silent	SNP	C	C	A																															ccaccctcaatgatgggcacCaggcgctcgggggccaccgt																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	2158400	C	A	2158400	2	1	45	1	0	0	0	0	0	0	0	1	11963	581	21	4		4	PKD1	16	2158400	Silent	SNP	C	TCGA-AK-3451-01A-02D-1251-10	1	2158400	88196353	70	2665	35	2									
OR1F1	4992	hgsc.bcm.edu;ucsc.edu	37	chr16	3254418	3254418	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagactcctgcctgcacaccCccatgtacttcttcctcagc	7	11	5	18	0	2	1	1	0	1	1	4	1	4	1	5	0	4	2	5	0	2	4	rs61731432	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	3254418	C	A	3254418	3	1	45	1	0	0	0	0	1	0	0	0	10956	623	22	4	174	4	OR1F1	16	3254418	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	1096018	3254418	87100335	71	2666											
KARS	3735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	75678248	75678248	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaagttgacccagtcgcaGttccctgtgaccccactctg	8	9	9	15	1	1	2	0	2	1	0	3	2	2	2	4	0	1	4	4	0	1	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	75678248	G	A	75678248	2	1	45	1	0	0	0	0	0	0	0	1	7980	1020	36	2		2	KARS	16	75678248	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10	72423830	75678248	14676505	72	2667											
CHD3	1107	broad.mit.edu;ucsc.edu	37	chr17	7805978	7805978	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttagactatgaaggctaCaagtatgagcgcatcgatgg	12	11	11	7	2	1	3	0	2	1	1	2	4	1	3	0	2	2	3	0	2	6	5	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	7805978	A	A	7805978	4	1	45	1	0	0	0	0	0	1	0	0	3326	489	17	4	3666	4	CHD3	17	7805978	Nonsense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10		7805978	73389232	73	2668											
ABHD15	116236	broad.mit.edu	37	chr17	27893483	27893483	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgttgcgggtgaggcgacCccacgcattggggatcacca	8	6	14	13	4	1	1	1	1	0	0	1	3	1	2	3	4	1	2	3	4	0	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	27893483	G	G	27893483	3	3	45	1	0	0	0	0	1	0	0	0	81	623	22	4	912	4	ABHD15	17	27893483	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	20087505	27893483	53301727	74	2669											
CCDC40	55036	broad.mit.edu	37	chr17	78039368	78039368	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggtgggcatgaagcacCgcgacgaggcgcacagggcg	8	3	18	12	5	0	1	0	1	0	0	0	3	0	1	2	4	1	3	2	4	1	0	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	78039368	G	G	78039368	3	3	45	1	0	0	0	0	1	0	0	0	2812	652	23	4	1563	4	CCDC40	17	78039368	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10	50145885	78039368	3155842	75	2670											
CCDC40	55036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78058619	78058619	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccagcagcaggctggaCgcacaccagaagaccctggt	12	3	11	15	1	0	2	0	0	0	2	0	3	0	3	3	3	2	4	3	3	1	0	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	78058619	C	T	78058619	2	4	45	1	0	0	0	0	0	0	0	1	2812	535	19	1		1	CCDC40	17	78058619	Silent	SNP	C	TCGA-AK-3451-01A-02D-1251-10	19251	78058619	3136591	76	2671											
RNF213	57674	broad.mit.edu;hgsc.bcm.edu	37	chr17	78337077	78337077	+	Missense_Mutation	SNP	A	A	C																															ggttctccacagcctgatggAagcccgttggaaccatgagc																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	78337077	A	C	78337077	3	2	45	1	0	0	0	0	1	0	0	0	13479	246	9	5	12004	5	RNF213	17	78337077	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	278458	78337077	2858133	77	2672	36	2									
RNF213	57674	broad.mit.edu	37	chr17	78337081	78337081	+	Silent	SNP	C	G	G																															ctccacagcctgatggaagcCcgttggaaccatgagctggc																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	78337081	G	G	78337081	2	3	45	1	0	0	0	0	0	0	0	1	13479	610	22	4		4	RNF213	17	78337081	Silent	SNP	C	TCGA-AK-3451-01A-02D-1251-10	4	78337081	2858129	78	2673	36	2									
PTPRM	5797	broad.mit.edu;ucsc.edu	37	chr18	8113697	8113697	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataatggatactggaacacTccccttctcccctataaaag	13	11	5	12	0	1	0	0	0	1	0	3	2	2	2	4	2	2	0	4	2	7	6	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	8113697	A	A	8113697	2	1	45	1	0	0	0	0	0	0	0	1	12808	1538	54	5		5	PTPRM	18	8113697	Silent	SNP	T	TCGA-AK-3451-01A-02D-1251-10		8113697	69963551	79	2674											
CDH19	28513	hgsc.bcm.edu;ucsc.edu	37	chr18	64211271	64211273	+	In_Frame_Del	DEL	GGG	GGG	-																															cgcctacaaatgatccctgtGgggtttcttcaaaaacttca																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	GGG	GGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	64211273	GGG	-	64211271	7	5	45	1	0	1	0	1	0	0	0	0	3104	1348	47	0	1191	0	CDH19	18	64211271	In_Frame_Del	DEL	GGG	TCGA-AK-3451-01A-02D-1251-10	56097574	64211271	13865977	80	2675											
RINL	126432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39362295	39362295	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgcctcacctgtgtgtTcatctctgggccctagagtg	5	12	11	13	1	3	1	2	0	1	1	4	1	3	1	4	1	1	1	4	1	1	2	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	39362295	T	G	39362295	3	3	45	1	0	0	0	0	1	0	0	0	13377	1783	62	5	1285	5	RINL	19	39362295	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10		39362295	19766688	81	2676											
ZNF224	7767	broad.mit.edu;hgsc.bcm.edu	37	chr19	44610924	44610924	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacatgggagagaaatgctAtaagtgtgacgtgtgtggta	12	10	14	5	1	0	2	0	1	0	1	0	4	0	3	1	2	1	2	1	2	4	3	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	44610924	A	G	44610924	3	3	45	1	0	0	0	0	1	0	0	0	17777	449	16	3	625	3	ZNF224	19	44610924	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	5248629	44610924	14518059	82	2677											
ZNF235	9310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44792129	44792129	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacactcttcacatttatAtggtttttctcctgtgtgga	8	17	6	10	0	3	0	1	0	2	0	4	1	3	1	2	2	0	1	2	2	2	6	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	44792129	A	T	44792129	3	4	45	1	0	0	0	0	1	0	0	0	17787	449	16	5	761	5	ZNF235	19	44792129	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10	181205	44792129	14336854	83	2678											
ERCC1	2067	hgsc.bcm.edu	37	chr19	45916986	45916986	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttctcttgatgcggcGatgagctgttccagagactg	8	12	12	9	2	2	4	0	2	2	2	4	6	3	4	1	1	2	2	1	1	0	3	rs3212976	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		T	45916986	G	T	45916986	2	4	45	1	0	0	0	0	0	0	0	1	5212	1048	37	4		4	ERCC1	19	45916986	Silent	SNP	G	TCGA-AK-3451-01A-02D-1251-10	1124857	45916986	13211997	84	2679											
RALGAPA2	57186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	20493446	20493446	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggccaatgttttcaagtaAtttgtcaagaacatcatccc	13	13	6	9	0	3	1	3	0	0	1	4	1	4	1	2	1	1	2	2	1	5	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		C	20493446	A	C	20493446	3	2	45	1	0	0	0	0	1	0	0	0	13016	98	4	5	1086	5	RALGAPA2	20	20493446	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10		20493446	42532074	85	2680											
ADAMTS1	9510	hgsc.bcm.edu;ucsc.edu	37	chr21	28213405	28213407	+	In_Frame_Del	DEL	CAT	CAT	-																															aggttggaaagcattgacgcCatcatgtgggaatcctggtt																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		-	28213407	CAT	-	28213405	7	5	45	1	0	1	0	1	0	0	0	0	255	594	21	0	1637	0	ADAMTS1	21	28213405	In_Frame_Del	DEL	CAT	TCGA-AK-3451-01A-02D-1251-10		28213405	19916490	86	2681											
EWSR1	2130	broad.mit.edu;ucsc.edu	37	chr22	29668371	29668371	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttaattcttttgcagctAcagtgcttacaccgcccagc	9	13	6	13	1	1	0	0	0	1	0	1	0	1	0	2	0	6	3	2	0	3	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	29668371	G	G	29668371	3	3	45	1	0	0	0	0	1	0	0	0	5296	391	14	3	63	3	EWSR1	22	29668371	Missense_Mutation	SNP	A	TCGA-AK-3451-01A-02D-1251-10		29668371	21636195	87	2682											
NEFH	4744	hgsc.bcm.edu	37	chr22	29885580	29885581	+	In_Frame_Ins	INS	-	-	AGGCCAAGTCCCCTGAGA																															ggaagcaaagtcccctgagaINSaggccaagtccccagagaag																								novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		AGGCCAAGTCCCCTGAGA	29885581	-	AGGCCAAGTCCCCTGAGA	29885580	7	5	45	1	0	1	1	0	0	0	0	0	10314	247	9	0	1965	0	NEFH	22	29885580	In_Frame_Ins	INS	-	TCGA-AK-3451-01A-02D-1251-10	217209	29885580	21418986	88	2683											
SYTL5	94122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	37984722	37984722	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggaggccttttccagcaaCatctttctgggaggagttcg	9	11	12	9	1	2	0	0	0	2	0	4	3	3	3	2	4	2	2	2	4	2	4	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		A	37984722	C	A	37984722	3	1	45	1	0	0	0	0	1	0	0	0	15485	477	17	4	2141	4	SYTL5	23	37984722	Missense_Mutation	SNP	C	TCGA-AK-3451-01A-02D-1251-10		37984722	117285838	89	2684											
MED14	9282	broad.mit.edu;hgsc.bcm.edu	37	chrX	40568603	40568603	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttaaaagaacctacagtTttcattggcattgaagcctc	14	13	6	8	0	1	2	1	1	0	1	2	2	1	2	2	1	3	2	2	1	6	7	novel		TCGA-AK-3451-01A-02D-1251-10	TCGA-AK-3451-10A-01D-1251-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5e77e3d0-35a7-4555-a0b4-236630d71f61	f9333599-d814-44d9-a58f-9c6fb78b15d1		G	40568603	T	G	40568603	3	3	45	1	0	0	0	0	1	0	0	0	9432	1841	64	5	3170	5	MED14	23	40568603	Missense_Mutation	SNP	T	TCGA-AK-3451-01A-02D-1251-10	2583881	40568603	114701957	90	2685											
VHL	7428	hgsc.bcm.edu	37	chr3	10183646	10183646	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcgggcgccgaggagtccGgcccggaagagtccggcccg	6	3	18	14	7	0	1	0	0	0	1	3	4	2	3	5	5	0	0	5	5	1	0	novel		TCGA-AK-3451-01A-02W-1244-10	TCGA-AK-3451-10A-01W-1244-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	5a465db8-051b-4d67-960b-5adc49b55fd9	a3aaf8f7-1dee-45f5-81da-6fceecc116c8		A	10183646	G	A	10183646	3	1	46	1	0	0	0	0	1	0	0	0	17161	1116	39	1	117	1	VHL	3	10183646	Missense_Mutation	SNP	G	TCGA-AK-3451-01A-02W-1244-10		10183646	187838784	1	2686			1	3		2	2	90	N	G	5.749937e-06
VHL	7428	hgsc.bcm.edu	37	chr3	10183735	10183735	+	Frame_Shift_Del	DEL	G	G	-																															gtgctgcgctcggtgaactcGcgcgagccctcccaggtcat																								novel		TCGA-AK-3451-01A-02W-1244-10	TCGA-AK-3451-10A-01W-1244-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	5a465db8-051b-4d67-960b-5adc49b55fd9	a3aaf8f7-1dee-45f5-81da-6fceecc116c8		-	10183735	G	-	10183735	7	5	46	1	0	1	0	1	0	0	0	0	17161	1074	38	0	206	0	VHL	3	10183735	Frame_Shift_Del	DEL	G	TCGA-AK-3451-01A-02W-1244-10	89	10183735	187838695	2	2687			1	3		2	2	90	N	G	5.749937e-06
TMEM51	55092	hgsc.bcm.edu	37	chr1	15546034	15546034	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggccagccctgggaaccCccctgacaggcagaactcta	10	4	12	15	0	1	2	0	1	1	1	1	4	1	4	5	4	3	1	5	4	3	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	15546034	C	T	15546034	3	4	47	1	0	0	0	0	1	0	0	0	16176	623	22	2	563	2	TMEM51	1	15546034	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10		15546034	233704587	1	2688											
ATP13A2	23400	hgsc.bcm.edu	37	chr1	17331235	17331235	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggagctgggccgtatcCttccaggcaccctctggtac	5	11	12	13	1	1	0	0	0	1	0	3	1	3	1	4	4	2	4	4	4	2	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	17331235	C	A	17331235	3	1	47	1	0	0	0	0	1	0	0	0	1124	680	24	4	3449	4	ATP13A2	1	17331235	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	1785201	17331235	231919386	2	2689											
THRAP3	9967	hgsc.bcm.edu	37	chr1	36755272	36755272	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgagacaagctgggagcgaAaggagattttcccacaggaa	14	5	13	9	2	0	2	0	0	0	2	1	7	1	4	2	3	2	1	2	3	3	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	36755272	A	G	36755272	3	3	47	1	0	0	0	0	1	0	0	0	15873	14	1	3	1662	3	THRAP3	1	36755272	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	19424037	36755272	212495349	3	2690											
KIAA0754	643314	hgsc.bcm.edu;ucsc.edu	37	chr1	39877885	39877885	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgaggagtgcattgagaggGtcaccttcagttttgctttt	7	15	13	6	0	2	2	2	2	0	1	2	4	2	3	1	2	2	3	1	2	0	6	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	39877885	G	A	39877885	3	1	47	1	0	0	0	0	1	0	0	0	8192	1261	44	2	1950	2	KIAA0754	1	39877885	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	3122613	39877885	209372736	4	2691											
ORC1L	0	hgsc.bcm.edu	37	chr1	52849148	52849148	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaggtccattgtgttggCaattgccaggaccacaagcc	9	9	12	11	0	0	0	0	0	0	0	1	1	1	1	4	4	2	3	4	4	2	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	52849148	C	T	52849148	3	4	47	1	0	0	0	0	1	0	0	0	11261	710	25	2	648	2	ORC1L	1	52849148	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	12971263	52849148	196401473	5	2692											
C1orf52	148423	hgsc.bcm.edu;ucsc.edu	37	chr1	85724326	85724326	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgccatgtcaagctctggaGgcggaggcttcttctcagtg	6	12	13	10	1	4	0	2	0	3	0	5	2	4	2	1	4	2	2	1	4	1	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	85724326	G	A	85724326	3	1	47	1	0	0	0	0	1	0	0	0	2044	1000	35	2	200	2	C1orf52	1	85724326	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	32875178	85724326	163526295	6	2693											
PHGDH	26227	hgsc.bcm.edu	37	chr1	120277939	120277939	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgctgaatgacaacacctTtgcccagtgcaagaaggggg	11	8	12	10	0	0	3	0	2	0	1	0	3	0	3	2	2	4	2	2	2	4	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	120277939	T	G	120277939	3	3	47	1	0	0	0	0	1	0	0	0	11841	1841	64	5	691	5	PHGDH	1	120277939	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10	34553613	120277939	128972682	7	2694											
ARV1	64801	hgsc.bcm.edu	37	chr1	231131724	231131724	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacatcaaattttcaggcaAttagaggtatgtttatgtgt	12	17	8	4	0	2	1	2	0	0	1	2	1	2	1	0	2	1	3	0	2	6	7	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	231131724	A	G	231131724	3	3	47	1	0	0	0	0	1	0	0	0	1002	101	4	3	681	3	ARV1	1	231131724	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	110853785	231131724	18118897	8	2695											
STON1	11037	hgsc.bcm.edu;ucsc.edu	37	chr2	48807891	48807891	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgtagaccaaatggacTgaagctgaaccttcctggcc	10	10	10	11	0	1	3	0	2	1	1	2	4	2	4	4	2	2	2	4	2	4	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	48807891	T	C	48807891	3	2	47	1	0	0	0	0	1	0	0	0	15317	1580	55	3	121	3	STON1	2	48807891	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10		48807891	194391482	9	2696											
MRPL53	116540	hgsc.bcm.edu	37	chr2	74699716	74699716	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcgtcgattccacgtttttCtcgaagggacagaactgaac	10	11	9	11	4	1	2	0	1	1	1	5	5	2	3	1	1	2	1	1	1	3	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	74699716	C	T	74699716	2	4	47	1	0	0	0	0	0	0	0	1	9817	912	32	2		2	MRPL53	2	74699716	Silent	SNP	C	TCGA-AK-3454-01A-02D-1361-10	25891825	74699716	168499657	10	2697											
TMEM131	23505	hgsc.bcm.edu;ucsc.edu	37	chr2	98429106	98429106	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacaggtttttacctcaAttggattgctgtttataatt	13	17	6	5	0	1	0	1	0	0	0	1	1	1	1	1	2	3	3	1	2	6	9	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	98429106	A	T	98429106	3	4	47	1	0	0	0	0	1	0	0	0	16043	101	4	5	4031	5	TMEM131	2	98429106	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	23729390	98429106	144770267	11	2698											
CFC1B	653275	hgsc.bcm.edu	37	chr2	131279423	131279423	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggcattacagatcatcAatttgggaaacagtaagaaa	16	11	9	5	0	2	2	2	0	0	2	2	3	2	3	0	2	2	3	0	2	5	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	131279423	A	C	131279423	3	2	47	1	0	0	0	0	1	0	0	0	3280	130	5	5	67	5	CFC1B	2	131279423	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	32850317	131279423	111919950	12	2699											
NEB	4703	hgsc.bcm.edu;ucsc.edu	37	chr2	152347020	152347020	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactgctcccggctccggCgctgagcttggactgggaga	5	8	16	12	3	0	3	0	2	0	1	2	5	2	4	2	4	2	4	2	4	0	1	rs139333406	by1000genomes;alternate_allele	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	152347020	C	A	152347020	3	1	47	1	0	0	0	0	1	0	0	0	10302	768	27	4	426	4	NEB	2	152347020	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	21067597	152347020	90852353	13	2700											
TBR1	10716	hgsc.bcm.edu	37	chr2	162273245	162273245	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatcgctacctcctctcTcagtccagccagccacagtc	8	8	7	18	1	2	1	1	0	1	1	7	1	4	1	5	0	3	2	5	0	1	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	162273245	T	G	162273245	2	3	47	1	0	0	0	0	0	0	0	1	15646	1538	54	5		5	TBR1	2	162273245	Silent	SNP	T	TCGA-AK-3454-01A-02D-1361-10	9926225	162273245	80926128	14	2701											
SOX14	8403	hgsc.bcm.edu	37	chr3	137483860	137483860	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgactacaagtaccgAcctcggcgcaagcccaagaa	13	4	8	16	3	0	2	0	1	0	1	1	3	0	2	4	1	3	2	4	1	6	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	137483860	A	T	137483860	2	4	47	1	0	0	0	0	0	0	0	1	14947	262	10	5		5	SOX14	3	137483860	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10		137483860	60538570	15	2702											
OTOP1	133060	hgsc.bcm.edu	37	chr4	4190683	4190683	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactcaggtcgacagccaaaGgcgggaggtatccaaagctg	12	6	13	10	2	1	0	1	0	0	0	3	2	2	1	2	4	3	2	2	4	4	2	rs116072164	byfrequency	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	4190683	G	A	4190683	2	1	47	1	0	0	0	0	0	0	0	1	11305	987	35	2		2	OTOP1	4	4190683	Silent	SNP	G	TCGA-AK-3454-01A-02D-1361-10		4190683	186963593	16	2703											
UGT3A1	133688	hgsc.bcm.edu	37	chr5	35965615	35965615	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgctttcagtagaagaTgagacaaaactggcctagag	14	9	10	8	0	2	4	1	1	1	4	2	5	2	4	1	1	2	2	1	1	5	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	35965615	T	C	35965615	3	2	47	1	0	0	0	0	1	0	0	0	16962	1464	51	3	953	3	UGT3A1	5	35965615	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10		35965615	144949645	17	2704											
NIPBL	25836	hgsc.bcm.edu;ucsc.edu	37	chr5	37064853	37064853	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcgccgtgatggccgcaaActggtgccttgggtagacac	9	7	14	11	3	0	2	0	1	0	1	0	2	0	2	3	3	3	2	3	3	3	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	37064853	A	G	37064853	2	3	47	1	0	0	0	0	0	0	0	1	10428	40	2	3		3	NIPBL	5	37064853	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10	1099238	37064853	143850407	18	2705											
PPP2CA	5515	hgsc.bcm.edu;ucsc.edu	37	chr5	133533531	133533531	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgaggtgctgggtcaaactGcaagctgaaaaacaagaccg	15	5	12	9	2	1	2	1	1	0	1	1	3	1	2	1	2	5	3	1	2	5	0	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	133533531	G	A	133533531	4	1	47	1	0	0	0	0	0	1	0	0	12382	1328	46	2	71	2	PPP2CA	5	133533531	Nonsense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	96468678	133533531	47381729	19	2706											
HMP19	51617	hgsc.bcm.edu;ucsc.edu	37	chr5	173534370	173534370	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactactcctcccaggacccCaattccagaagccgcttcta	10	9	5	17	1	1	1	0	0	1	1	4	2	4	2	6	1	3	1	6	1	5	5	rs11557147	alternate_allele	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	173534370	C	T	173534370	2	4	47	1	0	0	0	0	0	0	0	1	7245	581	21	2		2	HMP19	5	173534370	Silent	SNP	C	TCGA-AK-3454-01A-02D-1361-10	40000839	173534370	7380890	20	2707											
BTNL3	10917	hgsc.bcm.edu;ucsc.edu	37	chr5	180429757	180429759	+	In_Frame_Del	DEL	GAT	GAT	-																															ctgtgtggtgttgtcatgggGatgataattgttttcttcaa																								novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	GAT	GAT	GAT	-	GAT	GAT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		-	180429759	GAT	-	180429757	7	5	47	1	0	1	0	1	0	0	0	0	1566	1161	41	0	773	0	BTNL3	5	180429757	In_Frame_Del	DEL	GAT	TCGA-AK-3454-01A-02D-1361-10	6895387	180429757	485503	21	2708											
TXNDC5	81567	hgsc.bcm.edu;ucsc.edu	37	chr6	7904905	7904905	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcttccatgctgttgtaTttgtctcccaggtcattcca	6	16	7	12	0	3	0	1	0	2	0	6	0	5	0	3	1	1	4	3	1	1	5	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	7904905	T	G	7904905	3	3	47	1	0	0	0	0	1	0	0	0	16798	1490	52	5	1019	5	TXNDC5	6	7904905	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10		7904905	163210162	22	2709											
TFEB	7942	hgsc.bcm.edu;ucsc.edu	37	chr6	41655521	41655521	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgtctttcttctgccgctCcttggccagggccctgctct	2	15	9	15	1	4	0	0	0	4	0	5	0	5	0	4	2	2	2	4	2	0	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	41655521	C	A	41655521	4	1	47	1	0	0	0	0	0	1	0	0	15800	864	30	4	749	4	TFEB	6	41655521	Nonsense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	33750616	41655521	129459546	23	2710											
SLC35B2	347734	hgsc.bcm.edu;ucsc.edu	37	chr6	44224154	44224154	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccgcctctgttcggggCgccaggggaacctcatcaga	6	8	13	14	3	4	1	2	0	2	1	5	2	4	2	4	4	2	1	4	4	1	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	44224154	C	T	44224154	2	4	47	1	0	0	0	0	0	0	0	1	14578	755	27	1		1	SLC35B2	6	44224154	Silent	SNP	C	TCGA-AK-3454-01A-02D-1361-10	2568633	44224154	126890913	24	2711											
EYS	346007	hgsc.bcm.edu	37	chr6	64776299	64776299	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagtcaaaatattttgAgaatttccacacccatattt	16	13	4	8	0	1	1	1	1	0	1	2	3	2	1	2	0	1	0	2	0	6	6	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	64776299	A	G	64776299	2	3	47	1	0	0	0	0	0	0	0	1	5332	291	11	3		3	EYS	6	64776299	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10	20552145	64776299	106338768	25	2712											
BAI3	577	hgsc.bcm.edu;ucsc.edu	37	chr6	69943308	69943308	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcagcaacctagagaaatAgtaagtaacaaagggaaaac	20	5	9	7	0	1	1	1	0	0	1	1	3	1	2	1	1	4	4	1	1	9	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	69943308	A	T	69943308	2	4	47	1	0	0	0	0	0	0	0	1	1300	434	15	5		5	BAI3	6	69943308	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10	5167009	69943308	101171759	26	2713											
PHKG1	5260	hgsc.bcm.edu	37	chr7	56155465	56155465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcctgaccacactgctaaCgcccctgggagtgcagagga	9	6	12	14	2	0	2	0	1	0	1	1	4	0	4	4	2	3	2	4	2	1	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	56155465	C	T	56155465	3	4	47	1	0	0	0	0	1	0	0	0	11846	536	19	1	1107	1	PHKG1	7	56155465	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10		56155465	102983198	27	2714											
MLXIPL	51085	hgsc.bcm.edu	37	chr7	73020298	73020298	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcatggtgaagagagtGtctgagatgtcggacaaaaa	14	9	14	4	1	2	4	1	3	1	2	3	7	2	5	0	2	0	0	0	2	3	0	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	73020298	G	C	73020298	3	2	47	1	0	0	0	0	1	0	0	0	9637	1368	48	4	1844	4	MLXIPL	7	73020298	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	16864833	73020298	86118365	28	2715											
ZNF596	169270	hgsc.bcm.edu;ucsc.edu	37	chr8	195934	195934	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacaatggagagaaaccaCatggatgtcatctatgtggg	13	9	12	7	0	3	1	2	0	1	1	3	4	3	3	1	3	1	0	1	3	3	1	rs188238096	by1000genomes	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	195934	C	T	195934	3	4	47	1	0	0	0	0	1	0	0	0	18025	478	17	2	1105	2	ZNF596	8	195934	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10		195934	146168088	29	2716											
EGR3	1960	hgsc.bcm.edu	37	chr8	22550417	22550417	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagttggtttagcaaactgCtcatggtcaccggcagcttc	8	11	11	11	1	2	0	2	0	0	0	3	0	2	0	1	3	4	7	1	3	2	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	22550417	C	T	22550417	3	4	47	1	0	0	0	0	1	0	0	0	4973	797	28	2	1130	2	EGR3	8	22550417	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	22354483	22550417	123813605	30	2717											
RBPMS	11030	hgsc.bcm.edu;ucsc.edu	37	chr8	30361883	30361883	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgaagatggccaagaacaaActcgtagggactccaaaccc	16	4	9	12	2	0	2	0	0	0	2	2	4	1	3	3	2	3	1	3	2	6	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	30361883	A	G	30361883	2	3	47	1	0	0	0	0	0	0	0	1	13165	40	2	3		3	RBPMS	8	30361883	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10	7811466	30361883	116002139	31	2718											
BICD2	23299	hgsc.bcm.edu	37	chr9	95481408	95481408	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgacgtcgctcaccttctTtagctccttctccagccggg	4	11	10	16	4	3	0	1	0	2	0	6	1	4	0	4	2	2	2	4	2	1	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	95481408	T	C	95481408	3	2	47	1	0	0	0	0	1	0	0	0	1429	1850	64	3	1070	3	BICD2	9	95481408	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10		95481408	45732023	32	2719											
ASS1	445	hgsc.bcm.edu;ucsc.edu	37	chr9	133339550	133339550	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactcactggccccccagaTaaaggtaggatgtggctcct	9	9	10	13	0	1	1	1	0	0	1	2	2	2	2	4	4	1	2	4	4	4	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	133339550	T	C	133339550	3	2	47	1	0	0	0	0	1	0	0	0	1061	1406	49	3	430	3	ASS1	9	133339550	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10	37858142	133339550	7873881	33	2720											
HK1	3098	hgsc.bcm.edu	37	chr10	71146158	71146158	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcaccttactaagggatgCgataaaaaggagagaggtaa	17	7	12	5	1	1	1	1	0	0	1	1	5	1	3	1	3	2	1	1	3	6	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	71146158	C	G	71146158	3	3	47	1	0	0	0	0	1	0	0	0	7190	768	27	4	2147	4	HK1	10	71146158	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10		71146158	64388589	34	2721											
SLC22A6	9356	hgsc.bcm.edu;ucsc.edu	37	chr11	62751128	62751128	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgacacagctgtctgcAggtagttcaagatgagtacc	10	10	10	11	0	2	3	1	2	1	1	3	3	3	3	2	1	3	5	2	1	3	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	62751128	A	G	62751128	3	3	47	1	0	0	0	0	1	0	0	0	14460	188	7	3	1214	3	SLC22A6	11	62751128	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10		62751128	72255388	35	2722											
PTPN6	5777	hgsc.bcm.edu	37	chr12	7061265	7061265	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtactacactcagcagcaggGtgtcctgcaggaccgcgacg	9	6	13	13	3	1	0	1	0	0	0	2	2	2	1	2	2	5	4	2	2	2	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	7061265	G	A	7061265	3	1	47	1	0	0	0	0	1	0	0	0	12794	1261	44	2	279	2	PTPN6	12	7061265	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10		7061265	126790630	36	2723											
PARP4	143	hgsc.bcm.edu	37	chr13	25044068	25044068	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcccattgatgaaggcttcGaagccacacacagcggcctt	10	9	9	13	2	0	2	0	2	0	0	2	3	1	2	3	2	2	1	3	2	2	4	rs72627334		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	25044068	G	A	25044068	2	1	47	1	0	0	0	0	0	0	0	1	11463	1049	37	1		1	PARP4	13	25044068	Silent	SNP	G	TCGA-AK-3454-01A-02D-1361-10		25044068	90125810	37	2724											
PCNX	22990	hgsc.bcm.edu;ucsc.edu	37	chr14	71444859	71444859	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attttgtcatgacgaagactCtagtgatcagagtgacttga	12	13	10	6	1	3	6	2	4	1	2	3	7	3	6	0	0	0	0	0	0	2	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	71444859	C	G	71444859	3	3	47	1	0	0	0	0	1	0	0	0	11591	913	32	4	1827	4	PCNX	14	71444859	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10		71444859	35904681	38	2725											
WARS	7453	hgsc.bcm.edu	37	chr14	100801317	100801317	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgatcaagggctgcagAacctctatgagtgccttctt	8	12	10	11	1	4	2	1	1	3	1	4	3	4	2	2	1	4	2	2	1	3	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	100801317	A	C	100801317	2	2	47	1	0	0	0	0	0	0	0	1	17248	233	9	5		5	WARS	14	100801317	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10	29356458	100801317	6548223	39	2726											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105415748	105415748	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcctccaccttgggtgcagGcacatccaccgaggcctcga	7	6	12	16	2	0	0	0	0	0	0	3	2	2	0	6	4	1	2	6	4	0	1	rs118171013	byfrequency;by1000genomes	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	105415748	G	A	105415748	3	1	47	1	0	0	0	0	1	0	0	0	415	1203	42	2	11351	2	AHNAK2	14	105415748	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	4614431	105415748	1933792	40	2727											
ANPEP	290	hgsc.bcm.edu	37	chr15	90342493	90342493	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcggagcactcacctGgccaggttgaaggcgtcatt	9	7	14	11	2	2	1	2	1	0	0	2	2	2	2	2	5	2	3	2	5	1	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	90342493	G	C	90342493	2	2	47	1	0	0	0	0	0	0	0	1	710	1335	47	4		4	ANPEP	15	90342493	Silent	SNP	G	TCGA-AK-3454-01A-02D-1361-10		90342493	12188899	41	2728											
ACSM2B	348158	hgsc.bcm.edu	37	chr16	20570686	20570686	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgctggctgttttcActcagttctctgaaattcca	6	15	8	12	0	3	1	2	1	1	0	5	1	4	1	2	1	2	5	2	1	1	4	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	20570686	A	G	20570686	2	3	47	1	0	0	0	0	0	0	0	1	184	156	6	3		3	ACSM2B	16	20570686	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10		20570686	69784067	42	2729											
WWP2	11060	hgsc.bcm.edu	37	chr16	69964089	69964089	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgaaatacaccagcgaggGggtgcgatactttgtggacc	11	8	14	8	2	0	1	0	1	0	0	0	5	0	2	2	3	4	0	2	3	3	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	69964089	G	C	69964089	3	2	47	1	0	0	0	0	1	0	0	0	17415	1232	43	4	1423	4	WWP2	16	69964089	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	49393403	69964089	20390664	43	2730											
ITGAE	3682	hgsc.bcm.edu;ucsc.edu	37	chr17	3663516	3663516	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgttggagatgaagtcttTggctctctgaaagtctgggg	8	13	14	6	0	3	3	0	2	3	1	4	4	3	3	0	4	0	2	0	4	2	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	3663516	T	C	3663516	3	2	47	1	0	0	0	0	1	0	0	0	7885	1821	63	3	2975	3	ITGAE	17	3663516	Missense_Mutation	SNP	T	TCGA-AK-3454-01A-02D-1361-10		3663516	77531694	44	2731											
EIF5A	1984	hgsc.bcm.edu;ucsc.edu	37	chr17	7213099	7213099	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgtctacttcgaagactGgcaagcacggccacgccaag	12	6	11	12	3	1	2	0	0	1	2	2	3	1	2	2	2	2	2	2	2	4	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	7213099	G	T	7213099	3	4	47	1	0	0	0	0	1	0	0	0	5041	1348	47	4	241	4	EIF5A	17	7213099	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	3549583	7213099	73982111	45	2732											
KDM6B	23135	hgsc.bcm.edu	37	chr17	7753474	7753474	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcacagtgatccggggcCtggcgggctccctgcggctc	4	7	14	16	3	1	1	1	1	0	0	4	1	3	1	4	5	1	2	4	5	0	0	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	7753474	C	A	7753474	3	1	47	1	0	0	0	0	1	0	0	0	8138	680	24	4	3690	4	KDM6B	17	7753474	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	540375	7753474	73441736	46	2733											
SSH2	85464	hgsc.bcm.edu;ucsc.edu	37	chr17	28022502	28022502	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgttgtcttctgggcggAgtaaaatgaacattgcttgg	9	14	13	5	1	2	2	0	2	2	0	2	3	2	3	0	3	2	3	0	3	3	5	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	28022502	A	T	28022502	3	4	47	1	0	0	0	0	1	0	0	0	15186	304	11	5	4068	5	SSH2	17	28022502	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	20269028	28022502	53172708	47	2734											
C17orf82	388407	hgsc.bcm.edu	37	chr17	59489427	59489427	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaaggacccaaaatccAgtcccgcttcctccccctcc	8	7	7	19	1	0	0	0	0	0	0	5	2	5	2	7	2	0	1	7	2	3	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		C	59489427	A	C	59489427	3	2	47	1	0	0	0	0	1	0	0	0	1887	188	7	5	93	5	C17orf82	17	59489427	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	31466925	59489427	21705783	48	2735											
ZNF121	7675	hgsc.bcm.edu;ucsc.edu	37	chr19	9676687	9676687	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacattcgttacatatatAgggtttctctccagtgtgaa	10	14	7	10	1	1	1	0	1	1	0	4	1	2	1	2	1	1	2	2	1	5	6	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	9676687	A	T	9676687	3	4	47	1	0	0	0	0	1	0	0	0	17718	420	15	5	74	5	ZNF121	19	9676687	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10		9676687	49452296	49	2736											
LPPR2	64748	hgsc.bcm.edu	37	chr19	11473235	11473235	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagggctcccgcctggtcaAaccctcgctctgcctggcct	5	8	11	17	2	2	0	1	0	1	0	4	1	3	0	5	3	2	2	5	3	2	0	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	11473235	A	G	11473235	3	3	47	1	0	0	0	0	1	0	0	0	8925	14	1	3	728	3	LPPR2	19	11473235	Missense_Mutation	SNP	A	TCGA-AK-3454-01A-02D-1361-10	1796548	11473235	47655748	50	2737											
KLK2	3817	hgsc.bcm.edu	37	chr19	51378101	51378101	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggtgtcctggtgcacccCcagtgggtgctcacagctgc	4	8	16	13	0	1	0	1	0	0	0	2	0	2	0	3	4	4	3	3	4	0	0	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	51378101	C	A	51378101	2	1	47	1	0	0	0	0	0	0	0	1	8404	610	22	4		4	KLK2	19	51378101	Silent	SNP	C	TCGA-AK-3454-01A-02D-1361-10	39904866	51378101	7750882	51	2738											
ZNF417	147687	hgsc.bcm.edu	37	chr19	58421128	58421128	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgtccttcccaaactcgCggaagacaaatggctcctgt	11	8	9	13	3	0	1	0	0	0	1	4	3	3	2	3	2	2	1	3	2	4	1	rs3826671	bycluster	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	58421128	C	T	58421128	3	4	47	1	0	0	0	0	1	0	0	0	17893	768	27	1	1213	1	ZNF417	19	58421128	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	7043027	58421128	707855	52	2739											
FAM83C	128876	hgsc.bcm.edu;ucsc.edu	37	chr20	33875700	33875700	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacagacagcggaactcccgGtcaaagtcttccacgatgcg	11	7	10	13	4	2	1	1	0	1	1	4	3	4	2	2	2	4	0	2	2	3	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	33875700	G	A	33875700	2	1	47	1	0	0	0	0	0	0	0	1	5635	1252	44	2		2	FAM83C	20	33875700	Silent	SNP	G	TCGA-AK-3454-01A-02D-1361-10		33875700	29149820	53	2740											
AIFM3	150209	hgsc.bcm.edu;ucsc.edu	37	chr22	21332000	21332000	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtcaggtgcagtgcccGccacaggcttcctgaggcaa	7	8	12	14	1	1	1	1	1	0	0	3	1	3	1	4	3	2	3	4	3	1	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	21332000	G	A	21332000	3	1	47	1	0	0	0	0	1	0	0	0	428	1087	38	1	1366	1	AIFM3	22	21332000	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10		21332000	29972566	54	2741											
RFPL2	10739	hgsc.bcm.edu	37	chr22	32587023	32587023	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggaaagtcagcggcacCgtggtggcagagaggcggcc	11	3	18	9	3	1	2	1	0	0	2	1	4	1	3	2	6	1	2	2	6	2	0	rs55974778	bycluster;by1000genomes	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	32587023	C	G	32587023	2	3	47	1	0	0	0	0	0	0	0	1	13256	639	23	4		4	RFPL2	22	32587023	Silent	SNP	C	TCGA-AK-3454-01A-02D-1361-10	11255023	32587023	18717543	55	2742											
TNRC6B	23112	hgsc.bcm.edu	37	chr22	40719130	40719130	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttcattgtgggggccccCaaactattcttctagcttat	7	14	8	12	1	3	0	1	0	2	0	3	0	3	0	2	2	2	2	2	2	4	7	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		T	40719130	C	T	40719130	3	4	47	1	0	0	0	0	1	0	0	0	16340	594	21	2	5598	2	TNRC6B	22	40719130	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	8132107	40719130	10585436	56	2743											
FRMPD4	9758	hgsc.bcm.edu	37	chrX	12734645	12734645	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaagcagagaaatctctaCattggcagtgccaatgacat	15	8	10	8	0	1	3	0	1	1	2	2	5	1	3	1	1	3	2	1	1	4	2	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	12734645	C	G	12734645	4	3	47	1	0	0	0	0	0	1	0	0	6059	489	17	4	2125	4	FRMPD4	23	12734645	Nonsense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10		12734645	142535915	57	2744											
TBC1D25	4943	hgsc.bcm.edu	37	chrX	48418768	48418768	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttgaccacctggccacagCcagtcaggggcctggtggtg	6	8	15	12	0	1	1	1	1	0	0	1	1	1	1	5	5	1	1	5	5	0	1	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	48418768	C	A	48418768	3	1	47	1	0	0	0	0	1	0	0	0	15614	739	26	4	1494	4	TBC1D25	23	48418768	Missense_Mutation	SNP	C	TCGA-AK-3454-01A-02D-1361-10	35684123	48418768	106851792	58	2745											
RLIM	51132	hgsc.bcm.edu;ucsc.edu	37	chrX	73811648	73811648	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacctgatgagcctgatgatGagcttccttcattactgcct	8	13	8	12	0	1	5	1	5	0	0	2	5	2	5	4	0	4	1	4	0	1	3	novel		TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		A	73811648	G	A	73811648	3	1	47	1	0	0	0	0	1	0	0	0	13392	1294	45	2	376	2	RLIM	23	73811648	Missense_Mutation	SNP	G	TCGA-AK-3454-01A-02D-1361-10	25392880	73811648	81458912	59	2746											
NXF2	56001	hgsc.bcm.edu	37	chrX	101581404	101581404	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagggcaagatccccgcAgaggccttcaagcaaatctc	12	5	10	14	2	2	2	1	0	1	2	4	3	3	2	4	2	1	3	4	2	3	1	rs13944	bycluster	TCGA-AK-3454-01A-02D-1361-10	TCGA-AK-3454-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ce4fe755-1381-4c6d-a2a4-5cdefe317aa8	f9afd382-cf74-4984-88a6-d035d83dd2d6		G	101581404	G	G	101581404	2	3	47	1	0	0	0	0	0	0	0	1	10783	175	7	3		3	NXF2	23	101581404	Silent	SNP	A	TCGA-AK-3454-01A-02D-1361-10	27769756	101581404	53689156	60	2747											
FPGT	8790	broad.mit.edu;ucsc.edu	37	chr1	74670342	74670342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacgataggtaccacacatgGagtatttgtcttagatcctt	11	13	9	8	1	1	1	0	0	1	1	2	4	2	2	2	2	1	2	2	2	4	6	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	74670342	A	A	74670342	3	1	48	1	0	0	0	0	1	0	0	0	6037	1174	41	2	625	2	FPGT	1	74670342	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08		74670342	174580279	1	2748											
CASQ2	845	hgsc.bcm.edu;ucsc.edu	37	chr1	116243990	116243991	+	Frame_Shift_Ins	INS	-	-	CA																															tcctcaatccagtcctccagINSctcctcagcagttggaagat																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		CA	116243991	-	CA	116243990	7	5	48	1	0	1	1	0	0	0	0	0	2681	962	34	0	131	0	CASQ2	1	116243990	Frame_Shift_Ins	INS	-	TCGA-AK-3455-01A-01D-0966-08	41573648	116243990	133006631	2	2749											
PIP5K1A	8394	hgsc.bcm.edu;ucsc.edu	37	chr1	151209067	151209068	+	Frame_Shift_Del	DEL	CT	CT	-																															tcaagataatggattacagcCtcttgatgtcaatccataat																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		-	151209068	CT	-	151209067	7	5	48	1	0	1	0	1	0	0	0	0	11939	681	24	0	1007	0	PIP5K1A	1	151209067	Frame_Shift_Del	DEL	CT	TCGA-AK-3455-01A-01D-0966-08	34965077	151209067	98041554	3	2750											
FAM58B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200183197	200183197	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagctggcagcggacccCcgttgccgtcactgcctggg	5	6	13	17	3	1	0	1	0	0	0	1	1	1	1	5	3	4	3	5	3	0	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	200183197	C	G	200183197	3	3	48	1	0	0	0	0	1	0	0	0	5591	623	22	4	508	4	FAM58B	1	200183197	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	48974130	200183197	49067424	4	2751											
RPS6KC1	26750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	213302912	213302912	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatctcttactgttgatgTggattctcttgctgagttag	6	18	11	6	0	2	2	0	2	2	0	4	3	2	3	0	2	2	4	0	2	3	6	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	213302912	T	C	213302912	3	2	48	1	0	0	0	0	1	0	0	0	13660	1696	59	3	537	3	RPS6KC1	1	213302912	Missense_Mutation	SNP	T	TCGA-AK-3455-01A-01D-0966-08	13119715	213302912	35947709	5	2752											
PLD5	200150	broad.mit.edu;hgsc.bcm.edu	37	chr1	242428747	242428747	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttttcaaaaagacgttGaccctggaaaaaatattcag	17	10	6	8	1	2	2	2	1	0	1	2	3	2	3	1	1	1	1	1	1	7	5	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	242428747	G	T	242428747	3	4	48	1	0	0	0	0	1	0	0	0	12049	1299	45	4	1139	4	PLD5	1	242428747	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	29125835	242428747	6821874	6	2753											
KIDINS220	57498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	8871251	8871251	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggacatccgagctataaTtggatcttgcaggccactca	12	10	9	10	1	2	0	1	0	1	0	3	3	3	2	2	3	2	2	2	3	3	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	8871251	T	C	8871251	3	2	48	1	0	0	0	0	1	0	0	0	8271	1493	52	3	404	3	KIDINS220	2	8871251	Missense_Mutation	SNP	T	TCGA-AK-3455-01A-01D-0966-08		8871251	234328122	7	2754											
RAD51AP2	729475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	17698328	17698328	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgttcttcatatgcattgAtgacttttgcacagtggtaa	10	17	8	6	0	2	2	1	2	1	0	2	2	2	2	0	1	2	4	0	1	2	8	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	17698328	A	G	17698328	3	3	48	1	0	0	0	0	1	0	0	0	12989	333	12	3	2136	3	RAD51AP2	2	17698328	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	8827077	17698328	225501045	8	2755											
ANKRD36B	57730	hgsc.bcm.edu	37	chr2	98124519	98124519	+	Frame_Shift_Del	DEL	T	T	-																															agctgtaagttgatcctgtaTttcttgaaactgaaacaaag																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		-	98124519	T	-	98124519	7	5	48	1	0	1	0	1	0	0	0	0	666	1493	52	0	190	0	ANKRD36B	2	98124519	Frame_Shift_Del	DEL	T	TCGA-AK-3455-01A-01D-0966-08	80426191	98124519	145074854	9	2756											
PDK1	5163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	173435508	173435508	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagaggtgtttacccccctAttcaagttcatgtcacgctg	9	12	8	12	1	3	1	3	0	0	1	3	1	3	1	3	1	1	3	3	1	3	5	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	173435508	A	G	173435508	3	3	48	1	0	0	0	0	1	0	0	0	11675	449	16	3	931	3	PDK1	2	173435508	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	75310989	173435508	69763865	10	2757											
SPATS2L	26010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201304031	201304031	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcttgaaataaagccagAtgagttggcaaagaaaagag	18	8	10	5	0	2	5	1	2	1	3	2	5	2	5	1	1	1	2	1	1	6	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	201304031	A	G	201304031	3	3	48	1	0	0	0	0	1	0	0	0	15021	333	12	3	650	3	SPATS2L	2	201304031	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	27868523	201304031	41895342	11	2758											
DOCK10	55619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225637922	225637922	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagtctgatcatgtcCacttcttccattgtgcaaag	9	13	8	11	0	3	1	1	1	2	0	5	1	5	1	2	0	3	3	2	0	1	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	225637922	C	T	225637922	2	4	48	1	0	0	0	0	0	0	0	1	4685	581	21	2		2	DOCK10	2	225637922	Silent	SNP	C	TCGA-AK-3455-01A-01D-0966-08	24333891	225637922	17561451	12	2759											
SNED1	25992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241989270	241989270	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgactcggacccctgcttcaAcggaggctcctgcgatgccc	6	7	11	17	4	1	0	1	0	0	0	3	4	2	2	4	3	4	2	4	3	1	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	241989270	A	G	241989270	3	3	48	1	0	0	0	0	1	0	0	0	14847	43	2	3	1701	3	SNED1	2	241989270	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	16351348	241989270	1210103	13	2760											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188204	10188204	+	Frame_Shift_Del	DEL	T	T	-																															gcttgtcccgataggtcaccTttggctcttcagagatgcag																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		-	10188204	T	-	10188204	7	5	48	1	0	1	0	1	0	0	0	0	17161	1609	56	0	353	0	VHL	3	10188204	Frame_Shift_Del	DEL	T	TCGA-AK-3455-01A-01D-0966-08		10188204	187834226	14	2761											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47143014	47143014	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaccagtttggtggtaaaaAacccaaccctcagttgtccg	12	9	9	11	1	1	0	1	0	0	0	2	1	2	0	4	2	3	3	4	2	5	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	47143014	A	G	47143014	3	3	48	1	0	0	0	0	1	0	0	0	14133	14	1	3	2801	3	SETD2	3	47143014	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	36954810	47143014	150879416	15	2762											
NFKBIZ	64332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	101570960	101570960	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgggggttggcaggcagcaGagaggcccctttcaaggtgt	8	8	17	8	0	1	1	1	0	0	1	1	2	1	1	2	6	1	4	2	6	1	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	101570960	G	C	101570960	3	2	48	1	0	0	0	0	1	0	0	0	10383	933	33	4	327	4	NFKBIZ	3	101570960	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	54427946	101570960	96451470	16	2763											
MYH15	22989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	108117669	108117669	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gttcagttgtgtgctgtcatCcagctgcatttgaaggtcct	6	15	11	9	0	2	1	2	1	0	0	4	1	4	1	2	1	3	5	2	1	1	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	108117669	C	G	108117669	3	3	48	1	0	0	0	0	1	0	0	0	10034	855	30	4	860	4	MYH15	3	108117669	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	6546709	108117669	89904761	17	2764											
PARP14	54625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122447427	122447427	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcatacccagagtaccttAttacgtttagaaaataacac	17	10	5	9	1	0	2	0	0	0	2	0	2	0	2	2	0	5	3	2	0	9	7	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	122447427	A	C	122447427	3	2	48	1	0	0	0	0	1	0	0	0	11458	449	16	5	5455	5	PARP14	3	122447427	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	14329758	122447427	75575003	18	2765											
SI	6476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	164767593	164767593	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttaccaggagtaaacggtGgataattcaatttgtttaca	13	15	8	5	1	1	0	1	0	0	0	1	2	1	2	1	3	3	2	1	3	6	8	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	164767593	G	A	164767593	3	1	48	1	0	0	0	0	1	0	0	0	14299	1348	47	2	4040	2	SI	3	164767593	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	42320166	164767593	33254837	19	2766											
TBL1XR1	79718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	176767807	176767807	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaatctagagatgtgacaTccttgttgcttggaacatct	10	14	8	9	0	2	2	0	1	2	1	4	4	4	3	2	1	2	2	2	1	3	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	176767807	T	C	176767807	3	2	48	1	0	0	0	0	1	0	0	0	15639	1435	50	3	904	3	TBL1XR1	3	176767807	Missense_Mutation	SNP	T	TCGA-AK-3455-01A-01D-0966-08	12000214	176767807	21254623	20	2767											
PHF17	79960	broad.mit.edu;ucsc.edu	37	chr4	129782923	129782923	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaccggggcctggagaTgaagaccatcttagcagaga	11	9	13	8	1	1	5	0	2	1	3	1	7	1	5	3	3	1	1	3	3	2	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	129782923	G	G	129782923	3	3	48	1	0	0	0	0	1	0	0	0	11828	1464	51	5	1076	5	PHF17	4	129782923	Missense_Mutation	SNP	T	TCGA-AK-3455-01A-01D-0966-08		129782923	61371353	21	2768											
CDH18	1016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	19747190	19747190	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacgtctatcaatagcttgAgcatgaagcacatagtgggt	12	11	11	7	1	2	2	1	2	1	0	2	2	2	2	0	1	4	4	0	1	6	5	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	19747190	A	C	19747190	2	2	48	1	0	0	0	0	0	0	0	1	3103	291	11	5		5	CDH18	5	19747190	Silent	SNP	A	TCGA-AK-3455-01A-01D-0966-08		19747190	161168070	22	2769											
DMGDH	29958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	78350168	78350168	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acctggctgatggaatcccaCcacctgtgacaataattcca	12	9	7	13	0	0	2	0	2	0	0	2	3	2	3	5	2	0	1	5	2	3	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	78350168	C	G	78350168	3	3	48	1	0	0	0	0	1	0	0	0	4581	507	18	4	2273	4	DMGDH	5	78350168	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	58602978	78350168	102565092	23	2770											
TSLP	85480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	110407687	110407687	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaacttacgacttcactaaCtgtgactttgagaagattaa	14	14	6	7	1	1	3	1	2	0	2	1	5	1	3	0	0	3	0	0	0	5	6	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	110407687	C	T	110407687	2	4	48	1	0	0	0	0	0	0	0	1	16627	564	20	2		2	TSLP	5	110407687	Silent	SNP	C	TCGA-AK-3455-01A-01D-0966-08	32057519	110407687	70507573	24	2771											
ARHGAP26	23092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	142526819	142526819	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaaggaacagcatcatcAactccagtttggaatctgtc	15	9	7	10	0	3	0	2	0	1	0	5	2	4	2	1	2	4	2	1	2	5	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	142526819	A	T	142526819	3	4	48	1	0	0	0	0	1	0	0	0	875	130	5	5	1939	5	ARHGAP26	5	142526819	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	32119132	142526819	38388441	25	2772											
IP6K3	117283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33693343	33693343	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccccatcttcagatccaGgacacagggatgcgtgtact	9	9	11	12	1	2	1	1	0	1	1	4	3	4	3	3	3	2	1	3	3	1	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	33693343	G	C	33693343	3	2	48	1	0	0	0	0	1	0	0	0	7790	991	35	4	600	4	IP6K3	6	33693343	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08		33693343	137421724	26	2773											
UHRF1BP1	54887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	34826414	34826414	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttttggaagtcctgtcCagtctgaggctcttgcccct	5	13	10	13	0	2	1	0	1	2	0	4	2	4	2	5	2	1	2	5	2	1	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	34826414	C	T	34826414	4	4	48	1	0	0	0	0	0	1	0	0	16967	595	21	2	2335	2	UHRF1BP1	6	34826414	Nonsense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	1133071	34826414	136288653	27	2774											
TAAR5	9038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132910010	132910010	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaggaggctgtcgaccatCgtgtctatggtgaagggcag	9	9	16	7	2	1	2	0	2	1	0	3	4	1	3	1	4	0	2	1	4	3	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	132910010	C	T	132910010	2	4	48	1	0	0	0	0	0	0	0	1	15490	871	31	1		1	TAAR5	6	132910010	Silent	SNP	C	TCGA-AK-3455-01A-01D-0966-08	98083596	132910010	38205057	28	2775											
MTRF1L	54516	broad.mit.edu	37	chr6	153323724	153323724	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtgaacagctcctccaGcggcgggctaccggagctca	7	5	14	15	4	1	1	1	1	0	0	3	2	3	2	4	4	5	3	4	4	2	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	153323724	A	A	153323724	2	1	48	1	0	0	0	0	0	0	0	1	9960	962	34	2		2	MTRF1L	6	153323724	Silent	SNP	G	TCGA-AK-3455-01A-01D-0966-08	20413714	153323724	17791343	29	2776											
CCDC146	57639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	76891575	76891575	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgctcttgaaagtgtcctGggatgcacttaggcaaactc	10	11	10	10	0	1	1	0	1	1	0	3	2	2	2	1	2	3	3	1	2	3	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	76891575	G	T	76891575	3	4	48	1	0	0	0	0	1	0	0	0	2780	1357	47	4	1154	4	CCDC146	7	76891575	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08		76891575	82247088	30	2777											
ZNF804B	219578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	88963296	88963296	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaacattcatctttcagatGtagattttactcctaccagc	11	15	4	11	0	3	2	2	0	1	2	4	2	4	2	2	0	4	1	2	0	4	7	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	88963296	G	A	88963296	3	1	48	1	0	0	0	0	1	0	0	0	18170	1377	48	2	1014	2	ZNF804B	7	88963296	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	12071721	88963296	70175367	31	2778											
CUX1	1523	hgsc.bcm.edu;ucsc.edu	37	chr7	101844801	101844802	+	Frame_Shift_Ins	INS	-	-	C																															gagtgacatcaccatcctcaINScccccaagcttctgtccacc																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	101844802	-	C	101844801	7	5	48	1	0	1	1	0	0	0	0	0	4064	159	6	0	2361	0	CUX1	7	101844801	Frame_Shift_Ins	INS	-	TCGA-AK-3455-01A-01D-0966-08	12881505	101844801	57293862	32	2779											
CUX1	1523	broad.mit.edu	37	chr7	101891738	101891738	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggaaattcaggccgggAgtcagggccaggcgggcgcc	8	5	18	10	3	2	1	2	1	0	0	2	3	2	3	3	6	0	0	3	6	1	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	101891738	G	G	101891738	3	3	48	1	0	0	0	0	1	0	0	0	4064	304	11	3	4095	3	CUX1	7	101891738	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	46937	101891738	57246925	33	2780											
DOCK4	9732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	111509659	111509659	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctggatatgctcttgccGctctgcttctgtgatccggt	3	15	10	13	2	3	1	0	1	3	0	5	2	5	2	3	2	3	3	3	2	1	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	111509659	G	A	111509659	3	1	48	1	0	0	0	0	1	0	0	0	4689	1086	38	1	3948	1	DOCK4	7	111509659	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	9617921	111509659	47629004	34	2781											
C7orf58	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	120765873	120765873	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttgtgttttcattttaGatgcagattctgctttcaac	8	19	6	8	0	3	2	2	0	1	2	3	2	3	2	1	0	4	3	1	0	3	8	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	120765873	G	T	120765873	5	4	48	1	0	0	0	0	0	0	1	0	2405	956	33	4	1091	4	C7orf58	7	120765873	Splice_Site	SNP	G	TCGA-AK-3455-01A-01D-0966-08	9256214	120765873	38372790	35	2782											
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu	37	chr8	77616514	77616514	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaagccttgctgggttTcagcgttgagaatgcagctg	9	11	14	7	1	1	2	1	2	0	1	1	3	1	2	1	1	5	5	1	1	3	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	77616514	T	G	77616514	3	3	48	1	0	0	0	0	1	0	0	0	17634	1783	62	5	193	5	ZFHX4	8	77616514	Missense_Mutation	SNP	T	TCGA-AK-3455-01A-01D-0966-08		77616514	68747508	36	2783											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106801068	106801068	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactctcacagaagggatgTaccctgcacgcctgctggac	9	8	11	13	1	1	2	1	1	1	1	2	4	1	4	2	2	3	3	2	2	2	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	106801068	T	G	106801068	3	3	48	1	0	0	0	0	1	0	0	0	17657	1638	57	5	677	5	ZFPM2	8	106801068	Missense_Mutation	SNP	T	TCGA-AK-3455-01A-01D-0966-08	29184554	106801068	39562954	37	2784											
ZFP37	7539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	115806234	115806234	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccagtttgctttttgcCtttccttgtatcagataagc	6	19	6	10	0	1	1	1	0	0	1	3	1	3	1	3	0	3	3	3	0	2	8	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	115806234	C	G	115806234	3	3	48	1	0	0	0	0	1	0	0	0	17647	681	24	4	1232	4	ZFP37	9	115806234	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08		115806234	25407197	38	2785											
FCN1	2219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	137805435	137805435	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatcagtcacctgtcgcaCacgactgagactgcccagcg	9	7	11	14	3	2	2	2	2	0	1	3	4	2	2	2	0	2	1	2	0	0	0	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	137805435	C	G	137805435	3	3	48	1	0	0	0	0	1	0	0	0	5791	478	17	4	668	4	FCN1	9	137805435	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	21999201	137805435	3407996	39	2786											
CAMK2G	818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75612974	75612974	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaacacgaggtagtgaaacCcttcttcagaaatactgtca	15	9	7	10	1	3	2	2	1	1	1	3	3	3	2	1	1	3	1	1	1	5	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	75612974	C	G	75612974	3	3	48	1	0	0	0	0	1	0	0	0	2602	623	22	4	1591	4	CAMK2G	10	75612974	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08		75612974	59921773	40	2787											
KCNQ1	3784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	2606466	2606466	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggctcggggtttgccCtgaaggtgcagcagaagcag	7	10	15	9	1	1	2	0	1	1	1	2	2	1	2	1	4	4	5	1	4	2	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	2606466	C	T	2606466	2	4	48	1	0	0	0	0	0	0	0	1	8082	680	24	2		2	KCNQ1	11	2606466	Silent	SNP	C	TCGA-AK-3455-01A-01D-0966-08		2606466	132400050	41	2788											
DCDC1	341019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	31327871	31327871	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcttggttgaagtttgtGtctttgagacaatttctgcc	7	17	9	8	0	3	2	0	2	3	1	3	3	3	2	1	1	1	2	1	1	2	5	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	31327871	G	T	31327871	3	4	48	1	0	0	0	0	1	0	0	0	4284	1377	48	4	585	4	DCDC1	11	31327871	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	28721405	31327871	103678645	42	2789											
ZNF408	79797	hgsc.bcm.edu;ucsc.edu	37	chr11	46726914	46726914	+	Frame_Shift_Del	DEL	T	T	-																															ggaggcccacttgtgcccggTgtgtggcaaggccctccgag																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		-	46726914	T	-	46726914	7	5	48	1	0	1	0	1	0	0	0	0	17887	1696	59	0	1714	0	ZNF408	11	46726914	Frame_Shift_Del	DEL	T	TCGA-AK-3455-01A-01D-0966-08	15399043	46726914	88279602	43	2790											
LRP4	4038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46916747	46916747	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagctgcgccggtcgggccGtagttcatagcctgtttcac	5	10	13	13	4	2	0	2	0	0	0	3	0	2	0	3	2	3	5	3	2	2	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	46916747	G	A	46916747	3	1	48	1	0	0	0	0	1	0	0	0	8959	1144	40	1	4550	1	LRP4	11	46916747	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	189833	46916747	88089769	44	2791											
RTN3	10313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63487838	63487838	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtctccaaatgtttttaatGagacagaattctcattaaat	14	16	5	6	0	2	2	1	1	2	2	4	3	2	2	1	0	0	1	1	0	5	5	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	63487838	G	A	63487838	3	1	48	1	0	0	0	0	1	0	0	0	13729	1291	45	2	1874	2	RTN3	11	63487838	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	16571091	63487838	71518678	45	2792											
AGAP2	116986	hgsc.bcm.edu;ucsc.edu	37	chr12	58126199	58126199	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactcacctggccagctaccGgagtggatgcagctgagtgg	9	7	14	11	1	1	1	1	1	0	0	1	3	1	3	3	4	5	3	3	4	2	1	rs138992134	alternate_allele	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	58126199	G	A	58126199	3	1	48	1	0	0	0	0	1	0	0	0	368	1116	39	1	1849	1	AGAP2	12	58126199	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08		58126199	75725696	46	2793											
SLITRK6	84189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	86368512	86368512	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagatgttttgcatcacttCcttctttctcattcctctct	5	19	5	12	0	4	1	2	0	3	1	8	2	6	1	2	1	1	2	2	1	0	6	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	86368512	C	T	86368512	3	4	48	1	0	0	0	0	1	0	0	0	14749	855	30	2	397	2	SLITRK6	13	86368512	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08		86368512	28801366	47	2794											
GABRA5	2558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	27193284	27193284	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgacaaaatgtcccgaatCgtattcccagtcttgttcgg	10	13	8	10	3	1	1	0	1	1	0	5	2	3	1	2	1	0	2	2	1	4	5	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	27193284	C	A	27193284	2	1	48	1	0	0	0	0	0	0	0	1	6164	874	31	4		4	GABRA5	15	27193284	Silent	SNP	C	TCGA-AK-3455-01A-01D-0966-08		27193284	75338108	48	2795											
VPS39	23339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42479524	42479524	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatagaattttcacaccacGccatggacttgggcacatct	12	10	8	11	1	2	2	1	0	1	2	2	3	2	3	2	2	0	1	2	2	2	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	42479524	G	A	42479524	3	1	48	1	0	0	0	0	1	0	0	0	17208	1087	38	1	2224	1	VPS39	15	42479524	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	15286240	42479524	60051868	49	2796											
TGM7	116179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43571460	43571460	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgctgtagggcaggaggAgcggccactgtgtctctaag	9	9	15	8	1	1	0	0	0	1	0	2	2	1	2	1	4	2	3	1	4	3	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	43571460	A	C	43571460	3	2	48	1	0	0	0	0	1	0	0	0	15834	304	11	5	450	5	TGM7	15	43571460	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	1091936	43571460	58959932	50	2797											
MAN2C1	4123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75655087	75655087	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgaagggccaaagccAggctatacggggagtgaggt	10	8	15	8	1	1	2	0	2	1	0	1	3	1	3	2	5	2	1	2	5	4	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	75655087	A	G	75655087	3	3	48	1	0	0	0	0	1	0	0	0	9218	188	7	3	2409	3	MAN2C1	15	75655087	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	32083627	75655087	26876305	51	2798											
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31094339	31094339	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggggacttgccattgcccCctccacccacccccacgacc	7	5	8	21	1	0	0	0	0	0	0	1	3	1	1	8	2	2	0	8	2	0	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	31094339	C	G	31094339	3	3	48	1	0	0	0	0	1	0	0	0	18061	623	22	4	5431	4	ZNF646	16	31094339	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08		31094339	59260414	52	2799											
ALOXE3	59344	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8021249	8021249	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtgtgacagagatgttGtccagtgtgccggccctcag	8	9	13	11	1	1	2	1	1	0	1	2	3	2	2	4	1	1	1	4	1	0	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	8021249	G	T	8021249	3	4	48	1	0	0	0	0	1	0	0	0	542	1368	48	4	2135	4	ALOXE3	17	8021249	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08		8021249	73173961	53	2800											
MFSD6L	162387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8701942	8701942	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagtagacgtgcagatcaCggaaagtttctcggtcactt	11	11	10	9	3	3	2	2	0	1	2	4	3	3	3	0	2	1	3	0	2	3	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	8701942	C	T	8701942	3	4	48	1	0	0	0	0	1	0	0	0	9536	536	19	1	1267	1	MFSD6L	17	8701942	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	680693	8701942	72493268	54	2801											
TEX14	56155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56638955	56638955	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatctttccaggtcctcAtccagagtagagtgagctct	9	11	9	12	0	3	3	1	1	2	2	6	3	6	3	4	1	2	2	4	1	1	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		C	56638955	A	C	56638955	3	2	48	1	0	0	0	0	1	0	0	0	15777	214	8	5	288	5	TEX14	17	56638955	Missense_Mutation	SNP	A	TCGA-AK-3455-01A-01D-0966-08	47937013	56638955	24556255	55	2802											
MED13	9969	hgsc.bcm.edu;ucsc.edu	37	chr17	60039068	60039073	+	In_Frame_Del	DEL	ATTTTA	ATTTTA	-																															aaaggccgaaaaagccagggAttttaaatgctggggataga																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	ATTTTA	ATTTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		-	60039073	ATTTTA	-	60039068	7	5	48	1	0	1	0	1	0	0	0	0	9430	333	12	0	1423	0	MED13	17	60039068	In_Frame_Del	DEL	ATTTTA	TCGA-AK-3455-01A-01D-0966-08	3400113	60039068	21156142	56	2803											
KCNJ2	3759	broad.mit.edu;ucsc.edu	37	chr17	68171679	68171679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtgttccagtcaatcGtgggctgcatcatcgatgct	6	13	13	9	2	2	0	2	0	0	0	5	1	3	0	1	3	2	4	1	3	1	1	rs140147979		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	68171679	A	A	68171679	3	1	48	1	0	0	0	0	1	0	0	0	8051	1145	40	1	501	1	KCNJ2	17	68171679	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	8132611	68171679	13023531	57	2804											
METRNL	284207	hgsc.bcm.edu	37	chr17	81043052	81043053	+	Frame_Shift_Ins	INS	-	-	G																															ggtaccagacggggacggcaINSggcccggccgggtgcagtgt																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	81043053	-	G	81043052	7	5	48	1	0	1	1	0	0	0	0	0	9489	179	7	0	415	0	METRNL	17	81043052	Frame_Shift_Ins	INS	-	TCGA-AK-3455-01A-01D-0966-08	12871373	81043052	152158	58	2805											
AQP4	361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	24436385	24436385	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgtttgaattcaacatcTggacagaagacatactcata	15	10	7	9	2	3	3	2	1	1	2	3	5	3	4	0	1	2	1	0	1	5	4	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	24436385	T	A	24436385	2	1	48	1	0	0	0	0	0	0	0	1	828	1567	55	5		5	AQP4	18	24436385	Silent	SNP	T	TCGA-AK-3455-01A-01D-0966-08		24436385	53640863	59	2806											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9064631	9064631	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagaggaggcagaaatcctGgggatggttcctatggagat	12	8	15	6	0	0	3	0	0	0	3	2	6	2	5	2	6	0	2	2	6	2	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		A	9064631	G	A	9064631	2	1	48	1	0	0	0	0	0	0	0	1	9973	1335	47	2		2	MUC16	19	9064631	Silent	SNP	G	TCGA-AK-3455-01A-01D-0966-08		9064631	50064352	60	2807											
NLRP8	126205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56473595	56473595	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccctcagtgcaaactgcaAaagctactgtgagtataaca	15	8	7	11	0	1	1	1	1	0	0	1	1	1	1	1	0	6	4	1	0	6	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	56473595	A	G	56473595	2	3	48	1	0	0	0	0	0	0	0	1	10483	11	1	3		3	NLRP8	19	56473595	Silent	SNP	A	TCGA-AK-3455-01A-01D-0966-08	47408964	56473595	2655388	61	2808											
ZNF805	390980	broad.mit.edu	37	chr19	57764639	57764639	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaaaaggagaagcttcCtggaaaaatgagccccaaac	16	6	8	11	0	0	2	0	1	0	1	2	4	2	3	4	2	3	1	4	2	6	2	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		G	57764639	G	G	57764639	3	3	48	1	0	0	0	0	1	0	0	0	18171	681	24	4	466	4	ZNF805	19	57764639	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08	1291044	57764639	1364344	62	2809											
SAMHD1	25939	hgsc.bcm.edu;ucsc.edu	37	chr20	35563478	35563478	+	Frame_Shift_Del	DEL	A	A	-																															tgaagctcctggaaaaacatAgtaaccacctcccagctgtt																								novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		-	35563478	A	-	35563478	7	5	48	1	0	1	0	1	0	0	0	0	13830	420	15	0	1469	0	SAMHD1	20	35563478	Frame_Shift_Del	DEL	A	TCGA-AK-3455-01A-01D-0966-08		35563478	27462042	63	2810											
OGFR	11054	broad.mit.edu;hgsc.bcm.edu	37	chr20	61444100	61444100	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataggccggagcccttaaGccccaaagagagcaagaaga	16	3	12	10	1	0	4	0	0	0	4	0	6	0	5	4	2	3	1	4	2	5	2	rs6122312		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	61444100	G	T	61444100	3	4	48	1	0	0	0	0	1	0	0	0	10843	971	34	4	1159	4	OGFR	20	61444100	Missense_Mutation	SNP	G	TCGA-AK-3455-01A-01D-0966-08	25880622	61444100	1581420	64	2811											
SMARCB1	6598	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24175874	24175874	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaagaagatccgcgacCaggacaggaacacgaggtac	15	3	14	9	3	0	3	0	0	0	3	1	8	1	5	2	4	2	1	2	4	4	1	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	24175874	C	T	24175874	4	4	48	1	0	0	0	0	0	1	0	0	14776	595	21	2	1132	2	SMARCB1	22	24175874	Nonsense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08		24175874	27128692	65	2812											
MAGEB16	139604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	35820494	35820494	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgctgctaaggcagagagtCctcttgaggttcctcagagt	8	11	12	10	0	2	3	1	1	1	2	4	4	4	3	2	2	2	4	2	2	1	3	novel		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3fbeeda4-a6c4-45a4-a963-dc6ca3f7e0ba	0294e2fd-2f19-4fea-9001-b3fc49f9022f		T	35820494	C	T	35820494	3	4	48	1	0	0	0	0	1	0	0	0	9174	855	30	2	183	2	MAGEB16	23	35820494	Missense_Mutation	SNP	C	TCGA-AK-3455-01A-01D-0966-08		35820494	119450066	66	2813											
TAS1R3	83756	broad.mit.edu;hgsc.bcm.edu	37	chr1	1268924	1268924	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtggccaggatgagtggTccccggagcgaagcacacgc	8	7	15	11	3	0	1	0	1	0	0	1	4	1	3	3	4	2	1	3	4	1	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	1268924	T	G	1268924	3	3	49	1	0	0	0	0	1	0	0	0	15563	1667	58	5	1661	5	TAS1R3	1	1268924	Missense_Mutation	SNP	T	TCGA-AK-3456-01A-02D-1386-10		1268924	247981697	1	2814											
CTSK	1513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150778608	150778608	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggttcatagccagttcAtatgtatggacaccaagaga	13	10	11	7	0	2	1	2	0	0	1	2	3	2	2	2	3	1	3	2	3	4	5	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	150778608	A	T	150778608	4	4	49	1	0	0	0	0	0	1	0	0	4037	224	8	5	800	5	CTSK	1	150778608	Nonsense_Mutation	SNP	A	TCGA-AK-3456-01A-02D-1386-10	149509684	150778608	98472013	2	2815											
COBLL1	22837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	165561492	165561492	+	Missense_Mutation	SNP	G	G	A																															actattttcatcactttgatGcgggggtattttggagggtg																								rs149060063		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	165561492	G	A	165561492	3	1	49	1	0	0	0	0	1	0	0	0	3654	1319	46	2	2412	2	COBLL1	2	165561492	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10		165561492	77637881	3	2816	37	2									
COBLL1	22837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	165561493	165561493	+	Silent	SNP	C	C	A																															ctattttcatcactttgatgCgggggtattttggagggtgg																								rs138711091	byfrequency;alternate_allele	TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	165561493	C	A	165561493	2	1	49	1	0	0	0	0	0	0	0	1	3654	755	27	4		4	COBLL1	2	165561493	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	1	165561493	77637880	4	2817	37	2									
NDUFS1	4719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207011714	207011714	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgatattcccagacagtTcagacatgaacatcttttca	14	12	5	10	0	3	4	2	2	1	2	4	4	4	4	1	0	1	1	1	0	3	5	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	207011714	T	G	207011714	3	3	49	1	0	0	0	0	1	0	0	0	10291	1783	62	5	1581	5	NDUFS1	2	207011714	Missense_Mutation	SNP	T	TCGA-AK-3456-01A-02D-1386-10	41450221	207011714	36187659	5	2818											
SCN11A	11280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38888542	38888542	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcgatcttcactcaccatGggcaagtccattactagaaa	13	9	8	11	1	3	1	2	0	1	1	4	2	4	1	2	2	1	1	2	2	4	3	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	38888542	G	T	38888542	2	4	49	1	0	0	0	0	0	0	0	1	13915	1335	47	4		4	SCN11A	3	38888542	Silent	SNP	G	TCGA-AK-3456-01A-02D-1386-10		38888542	159133888	6	2819											
KIAA2018	205717	hgsc.bcm.edu	37	chr3	113376125	113376125	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgttgctgctgctgctgCtgctgctgctgctgctgctg	0	15	14	12	0	0	0	0	0	0	0	0	0	0	0	0	0	12	13	0	0	0	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	113376125	C	T	113376125	2	4	49	1	0	0	0	0	0	0	0	1	8268	796	28	2		2	KIAA2018	3	113376125	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	74487583	113376125	84646305	7	2820											
MUC4	4585	broad.mit.edu	37	chr3	195506373	195506373	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaggggtggcgtgacctgtGgatgctgaggaagggctggt	7	8	20	6	1	0	2	0	2	0	0	0	4	0	4	1	7	1	2	1	7	1	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	195506373	A	A	195506373	2	1	49	1	0	0	0	0	0	0	0	1	9978	1335	47	2		2	MUC4	3	195506373	Silent	SNP	G	TCGA-AK-3456-01A-02D-1386-10	82130248	195506373	2516057	8	2821											
ATP8A1	10396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	42509034	42509034	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgaactaggtgaattaccGatgttaatggcagtttcttg	10	15	11	5	1	1	2	0	2	1	0	1	3	1	2	1	2	2	3	1	2	5	5	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	42509034	G	A	42509034	2	1	49	1	0	0	0	0	0	0	0	1	1192	1072	37	1		1	ATP8A1	4	42509034	Silent	SNP	G	TCGA-AK-3456-01A-02D-1386-10		42509034	148645242	9	2822											
PDCL2	132954	broad.mit.edu	37	chr4	56448342	56448342	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcatcttttgactcttcTttaggaggaagaatgccgaa	11	15	8	7	1	4	2	1	1	3	1	4	5	4	4	1	2	1	0	1	2	4	6	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	56448342	C	C	56448342	2	2	49	1	0	0	0	0	0	0	0	1	11627	1606	56	3		3	PDCL2	4	56448342	Silent	SNP	T	TCGA-AK-3456-01A-02D-1386-10	13939308	56448342	134705934	10	2823											
NHEDC2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	103947531	103947531	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctctcttttcacctctaaActtgcacagaagtctctcct	8	15	3	15	0	5	1	1	0	4	1	8	1	6	1	2	0	2	1	2	0	3	4	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	103947531	A	T	103947531	3	4	49	1	0	0	0	0	1	0	0	0	10401	43	2	5	7	5	NHEDC2	4	103947531	Missense_Mutation	SNP	A	TCGA-AK-3456-01A-02D-1386-10	47499189	103947531	87206745	11	2824											
CARD6	84674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	40843666	40843666	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccactgtggaagaggaggtTtatgatgacccagagcacgt	11	8	14	8	1	0	4	0	2	0	2	0	6	0	6	2	3	1	2	2	3	2	2	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	40843666	T	G	40843666	2	3	49	1	0	0	0	0	0	0	0	1	2650	1828	64	5		5	CARD6	5	40843666	Silent	SNP	T	TCGA-AK-3456-01A-02D-1386-10		40843666	140071594	12	2825											
HIVEP1	3096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	12123871	12123871	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagaaactgccacccaaaaaGaaaaggctccgtctggctga	15	5	10	11	1	1	3	0	1	1	2	2	4	2	3	3	2	2	2	3	2	5	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	12123871	G	C	12123871	3	2	49	1	0	0	0	0	1	0	0	0	7186	933	33	4	3853	4	HIVEP1	6	12123871	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10		12123871	158991196	13	2826											
SLC29A1	2030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44197391	44197391	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgaactgagcaaggaCgcccaggcgtcagccgcccc	9	4	12	16	3	1	2	1	2	0	0	1	3	1	3	4	2	4	2	4	2	2	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	44197391	C	T	44197391	2	4	49	1	0	0	0	0	0	0	0	1	14536	535	19	1		1	SLC29A1	6	44197391	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	32073520	44197391	126917676	14	2827											
AARS2	57505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44274036	44274036	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagggaacatatctgaaggCcccagggtcctcagagtccg	10	6	12	13	1	2	2	1	1	1	1	4	3	4	3	5	3	1	0	5	3	3	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	44274036	C	A	44274036	2	1	49	1	0	0	0	0	0	0	0	1	20	726	26	4		4	AARS2	6	44274036	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	76645	44274036	126841031	15	2828											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82579567	82579567	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatcttcgtcatccgttTgtacaccactgtccactatc	7	14	6	14	2	2	0	1	0	1	0	6	0	4	0	3	1	1	3	3	1	2	4	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	82579567	T	C	82579567	3	2	49	1	0	0	0	0	1	0	0	0	11583	1812	63	3	5188	3	PCLO	7	82579567	Missense_Mutation	SNP	T	TCGA-AK-3456-01A-02D-1386-10		82579567	76559096	16	2829											
NPTX2	4885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	98256632	98256632	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccatcaagcccgggggCgtgctgatccttggacaaga	9	6	12	14	2	1	2	1	1	0	1	2	3	2	3	4	3	2	1	4	3	2	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	98256632	C	T	98256632	2	4	49	1	0	0	0	0	0	0	0	1	10603	755	27	1		1	NPTX2	7	98256632	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	15677065	98256632	60882031	17	2830											
SGK223	157285	hgsc.bcm.edu;ucsc.edu	37	chr8	8185255	8185256	+	Frame_Shift_Ins	INS	-	-	AA																															taggtgctgccggggtcctcINSagagcaggtggcacagtaat																								novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		AA	8185256	-	AA	8185255	7	5	49	1	0	1	1	0	0	0	0	0	14212	835	29	0	1179	0	SGK223	8	8185255	Frame_Shift_Ins	INS	-	TCGA-AK-3456-01A-02D-1386-10		8185255	138178767	18	2831											
COL27A1	85301	hgsc.bcm.edu	37	chr9	117026664	117026664	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaccggacggaccagctggGgagcaagggtccaggggcct	8	3	19	11	2	0	0	0	0	0	0	1	4	1	4	4	8	2	2	4	8	1	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	117026664	G	T	117026664	2	4	49	1	0	0	0	0	0	0	0	1	3685	1219	43	4		4	COL27A1	9	117026664	Silent	SNP	G	TCGA-AK-3456-01A-02D-1386-10		117026664	24186767	19	2832											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61831542	61831542	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagaggtgggcataaacCtacataactctggtgtttgg	10	11	12	8	1	1	1	0	0	1	1	2	2	1	1	1	4	3	2	1	4	4	4	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	61831542	C	G	61831542	3	3	49	1	0	0	0	0	1	0	0	0	622	681	24	4	4377	4	ANK3	10	61831542	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10		61831542	73703205	20	2833											
DUPD1	338599	broad.mit.edu	37	chr10	76797800	76797800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggaccagggtggctgaccGgctgcggcccatgacgcagt	7	5	16	13	3	0	2	0	2	0	0	0	3	0	3	3	5	1	3	3	5	0	0	rs148261941	by1000genomes	TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	76797800	A	A	76797800	3	1	49	1	0	0	0	0	1	0	0	0	4804	1115	39	1	209	1	DUPD1	10	76797800	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10	14966258	76797800	58736947	21	2834											
RRP12	23223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99145673	99145673	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatgatctgggcgttgagCtctgctgacagggtgctcag	6	11	16	8	1	3	4	1	4	2	0	3	4	3	4	0	2	3	4	0	2	0	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	99145673	C	T	99145673	2	4	49	1	0	0	0	0	0	0	0	1	13688	796	28	2		2	RRP12	10	99145673	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	22347873	99145673	36389074	22	2835											
LOXL4	84171	broad.mit.edu;hgsc.bcm.edu	37	chr10	100022771	100022771	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggctggtggggaccaCgccatggtgacttcaaggac	8	7	17	9	1	1	1	1	1	0	0	1	3	1	3	2	7	0	1	2	7	1	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	100022771	C	T	100022771	2	4	49	1	0	0	0	0	0	0	0	1	8902	523	19	1		1	LOXL4	10	100022771	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	877098	100022771	35511976	23	2836											
ZNF215	7762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6964378	6964378	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agagtgggggcaactggactCtgctgtaaagaacctgtaca	12	8	13	8	0	1	2	0	0	1	2	1	3	1	3	1	3	4	4	1	3	5	2	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	6964378	C	G	6964378	3	3	49	1	0	0	0	0	1	0	0	0	17770	913	32	4	558	4	ZNF215	11	6964378	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10		6964378	128042138	24	2837											
KRTAP5-8	57830	hgsc.bcm.edu	37	chr11	71249532	71249532	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctgctgcaagccctgctgttCccagtccagctgctgtaagc	6	10	10	15	0	0	0	0	0	0	0	2	0	2	0	3	0	7	7	3	0	2	2	rs11234084		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	71249532	C	G	71249532	3	3	49	1	0	0	0	0	1	0	0	0	8567	855	30	4	433	4	KRTAP5-8	11	71249532	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10	64285154	71249532	63756984	25	2838											
CEP164	22897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117263760	117263760	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagcgccaggaagtggaagGggagcatgagaggaggttgg	12	4	21	4	1	0	1	0	1	0	1	0	7	0	5	1	7	2	2	1	7	3	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	117263760	G	A	117263760	3	1	49	1	0	0	0	0	1	0	0	0	3249	1232	43	2	2604	2	CEP164	11	117263760	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10	46014228	117263760	17742756	26	2839											
PRB1	5542	hgsc.bcm.edu	37	chr12	11506336	11506336	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggctttcctggaggaggtGggggaccttggggctggttg	3	11	21	6	0	0	0	0	0	0	0	1	3	1	3	2	9	0	3	2	9	0	3	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	11506336	G	T	11506336	3	4	49	1	0	0	0	0	1	0	0	0	12444	1348	47	4	298	4	PRB1	12	11506336	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10		11506336	122345559	27	2840											
MCRS1	10445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49954117	49954117	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtcctctgcatcagagAagttcagcacttggtcccct	8	11	9	13	0	4	1	3	0	1	1	6	2	6	1	3	2	2	3	3	2	1	2	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	49954117	A	T	49954117	3	4	49	1	0	0	0	0	1	0	0	0	9399	246	9	5	574	5	MCRS1	12	49954117	Missense_Mutation	SNP	A	TCGA-AK-3456-01A-02D-1386-10	38447781	49954117	83897778	28	2841											
FREM2	341640	hgsc.bcm.edu	37	chr13	39262990	39262990	+	Silent	SNP	T	T	C																															gcttccagtggcagctctgcTcccaagagctttacagtggc																								novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	39262990	T	C	39262990	2	2	49	1	0	0	0	0	0	0	0	1	6045	1538	54	3		3	FREM2	13	39262990	Silent	SNP	T	TCGA-AK-3456-01A-02D-1386-10		39262990	75906888	29	2842	38	2									
FREM2	341640	hgsc.bcm.edu	37	chr13	39262991	39262991	+	Missense_Mutation	SNP	C	C	T																															cttccagtggcagctctgctCccaagagctttacagtggct																								novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	39262991	C	T	39262991	3	4	49	1	0	0	0	0	1	0	0	0	6045	855	30	2	1512	2	FREM2	13	39262991	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10	1	39262991	75906887	30	2843	38	2									
FAM70B	0	broad.mit.edu	37	chr13	114469190	114469190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggctgccaccaccaggaCggagaatgtgaccgttgggg	8	6	16	11	2	0	2	0	1	0	1	0	4	0	3	4	5	1	3	4	5	1	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	114469190	T	T	114469190	3	4	49	1	0	0	0	0	1	0	0	0	5606	536	19	1	155	1	FAM70B	13	114469190	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10	75206199	114469190	700688	31	2844											
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24886608	24886608	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtctgatgaaggcctttGccaagagtggcaccccgctg	8	8	13	12	1	1	3	0	2	1	1	1	3	1	3	4	2	1	3	4	2	2	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	24886608	G	A	24886608	3	1	49	1	0	0	0	0	1	0	0	0	10796	1319	46	2	5683	2	NYNRIN	14	24886608	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10		24886608	82462932	32	2845											
PTGDR	5729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	52741643	52741643	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agacctcttaggtacaggagCcggtgcagcaattccactaa	12	8	10	11	1	1	1	0	0	1	1	2	2	2	2	3	3	4	3	3	3	4	4	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	52741643	C	T	52741643	2	4	49	1	0	0	0	0	0	0	0	1	12743	738	26	2		2	PTGDR	14	52741643	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	27855035	52741643	54607897	33	2846											
ABCD4	5826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74763075	74763075	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtagacgagggtgaacGgggagatgatgagcttgctg	10	9	18	4	2	0	5	0	3	0	2	0	7	0	5	0	3	3	4	0	3	3	3	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	74763075	G	C	74763075	3	2	49	1	0	0	0	0	1	0	0	0	63	1116	39	4	1377	4	ABCD4	14	74763075	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10	22021432	74763075	32586465	34	2847											
DIO2	1734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	80669169	80669169	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgcacaatgcacacacGttcaaaggctaccccgtaag	12	8	7	14	2	2	0	1	0	1	0	3	0	2	0	2	1	3	5	2	1	4	3	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	80669169	G	A	80669169	3	1	49	1	0	0	0	0	1	0	0	0	4525	1145	40	1	140	1	DIO2	14	80669169	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10	5906094	80669169	26680371	35	2848											
SMEK1	55671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	91942217	91942217	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcattctgttgtgcctcctGcatgacaaactctcgtacca	9	13	6	13	1	3	1	1	1	2	0	5	1	4	1	3	0	4	3	3	0	2	3	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	91942217	G	C	91942217	3	2	49	1	0	0	0	0	1	0	0	0	14795	1328	46	4	1294	4	SMEK1	14	91942217	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10	11273048	91942217	15407323	36	2849											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105416254	105416254	+	Missense_Mutation	SNP	G	G	A																															tcggcgcagacacatccaccGaggcctcgatggacttgcct																								novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		A	105416254	G	A	105416254	3	1	49	1	0	0	0	0	1	0	0	0	415	1059	37	1	11857	1	AHNAK2	14	105416254	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10	13474037	105416254	1933286	37	2850	39	2									
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105416255	105416255	+	Missense_Mutation	SNP	A	A	T																															cggcgcagacacatccaccgAggcctcgatggacttgcctg																								novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	105416255	A	T	105416255	3	4	49	1	0	0	0	0	1	0	0	0	415	304	11	5	11858	5	AHNAK2	14	105416255	Missense_Mutation	SNP	A	TCGA-AK-3456-01A-02D-1386-10	1	105416255	1933285	38	2851	39	2									
SQRDL	58472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45965852	45965852	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcccaaaatagggtcgaaTtattcagttaagactgtaga	15	11	8	7	1	1	2	1	0	0	2	3	3	2	2	1	1	0	2	1	1	7	5	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	45965852	T	G	45965852	3	3	49	1	0	0	0	0	1	0	0	0	15130	1490	52	5	521	5	SQRDL	15	45965852	Missense_Mutation	SNP	T	TCGA-AK-3456-01A-02D-1386-10		45965852	56565540	39	2852											
NLRC5	84166	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57088695	57088695	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggactgtccccgaaaagccCcttcctgctggccaacacct	8	7	9	17	1	0	0	0	0	0	0	2	2	2	1	7	2	3	1	7	2	3	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	57088695	C	G	57088695	3	3	49	1	0	0	0	0	1	0	0	0	10470	623	22	4	3629	4	NLRC5	16	57088695	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10		57088695	33266058	40	2853											
KATNB1	10300	broad.mit.edu	37	chr16	57775693	57775693	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcggggatgactgccgcgtCaacctgtggtccatcaacaa	9	7	13	12	3	2	1	2	1	0	0	3	2	3	2	3	4	3	0	3	4	3	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	57775693	T	T	57775693	2	4	49	1	0	0	0	0	0	0	0	1	7987	813	29	2		2	KATNB1	16	57775693	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	686998	57775693	32579060	41	2854											
RLTPR	146206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67690372	67690372	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagccaggggcctgagtctgCcacctggaagacactggggc	8	5	16	12	0	1	2	0	1	1	1	1	4	1	3	4	5	2	0	4	5	1	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	67690372	C	T	67690372	3	4	49	1	0	0	0	0	1	0	0	0	13396	739	26	2	3998	2	RLTPR	16	67690372	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10	9914679	67690372	22664381	42	2855											
ZNF844	284391	broad.mit.edu;hgsc.bcm.edu	37	chr19	12187458	12187458	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccctatgagtgtaagcaAtgtgggaaagccttcacatc	14	9	9	9	0	1	1	1	1	0	0	2	2	1	2	2	1	3	2	2	1	5	3	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	12187458	A	T	12187458	3	4	49	1	0	0	0	0	1	0	0	0	18189	101	4	5	1537	5	ZNF844	19	12187458	Missense_Mutation	SNP	A	TCGA-AK-3456-01A-02D-1386-10		12187458	46941525	43	2856											
ITPKC	80271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41243662	41243662	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggagatctcccccttcttCaagacccacgaggtgcgagc	8	8	10	15	2	3	2	1	0	2	2	4	5	3	2	3	2	2	0	3	2	1	2	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		T	41243662	C	T	41243662	2	4	49	1	0	0	0	0	0	0	0	1	7919	825	29	2		2	ITPKC	19	41243662	Silent	SNP	C	TCGA-AK-3456-01A-02D-1386-10	29056204	41243662	17885321	44	2857											
NUCB1	4924	broad.mit.edu;hgsc.bcm.edu	37	chr19	49404186	49404186	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agacccctgcgactgagagtCccgtgagtggccctgccctg	6	7	13	15	2	0	3	0	2	0	2	1	5	1	3	5	1	2	0	5	1	0	0	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	49404186	C	G	49404186	3	3	49	1	0	0	0	0	1	0	0	0	10718	855	30	4	135	4	NUCB1	19	49404186	Missense_Mutation	SNP	C	TCGA-AK-3456-01A-02D-1386-10	8160524	49404186	9724797	45	2858											
C21orf56	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47588323	47588323	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctccctgggctccagcaggGtcttgtccaccagtgagtct	5	11	11	14	0	3	1	0	1	3	0	6	1	5	1	4	2	1	2	4	2	0	1	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		C	47588323	G	C	47588323	3	2	49	1	0	0	0	0	1	0	0	0	2127	1261	44	4	591	4	C21orf56	21	47588323	Missense_Mutation	SNP	G	TCGA-AK-3456-01A-02D-1386-10		47588323	541572	46	2859											
TCEAL6	158931	hgsc.bcm.edu	37	chrX	101396082	101396082	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccttgtggcttgccctcAccttcggacttgccctgctt	2	14	9	16	2	1	0	1	0	0	0	3	1	1	1	4	2	3	2	4	2	0	5	novel		TCGA-AK-3456-01A-02D-1386-10	TCGA-AK-3456-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d36fe1be-96a5-4001-a95e-d499a6087146	0545b2bd-bb06-4ffd-a1d1-dbc3ff486024		G	101396082	A	G	101396082	2	3	49	1	0	0	0	0	0	0	0	1	15674	146	6	3		3	TCEAL6	23	101396082	Silent	SNP	A	TCGA-AK-3456-01A-02D-1386-10		101396082	53874478	47	2860											
C1orf91	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32682463	32682463	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcggcccactcaaagggtAgactgttgcccctgggtctt	6	11	12	12	1	2	1	1	0	1	1	3	1	2	1	3	3	1	3	3	3	2	4	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		T	32682463	A	T	32682463	2	4	50	1	0	0	0	0	0	0	0	1	2068	407	15	5		5	C1orf91	1	32682463	Silent	SNP	A	TCGA-AK-3458-01A-01D-1501-10		32682463	216568158	1	2861											
CYB5R1	51706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202932810	202932810	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcactgggttggatcttcaGggactttcaggatggcccgg	7	10	15	9	1	3	0	2	0	1	0	3	3	3	3	1	6	1	2	1	6	0	3	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		C	202932810	G	C	202932810	3	2	50	1	0	0	0	0	1	0	0	0	4126	1000	35	4	324	4	CYB5R1	1	202932810	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10	170250347	202932810	46317811	2	2862											
PLXNA2	5362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	208215470	208215470	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagcagcttggggtggttcTtgttctccaggttcttatcg	4	16	13	8	1	3	0	0	0	3	0	5	0	3	0	1	4	2	6	1	4	2	7	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		C	208215470	T	C	208215470	3	2	50	1	0	0	0	0	1	0	0	0	12120	1609	56	3	1469	3	PLXNA2	1	208215470	Missense_Mutation	SNP	T	TCGA-AK-3458-01A-01D-1501-10	5282660	208215470	41035151	3	2863											
EPHX1	2052	broad.mit.edu	37	chr1	226032308	226032308	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggacagggctggatgAcccagaagcatgagcggtga	11	5	16	9	1	0	4	0	3	0	1	0	6	0	6	2	4	2	2	2	4	1	0	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		G	226032308	G	G	226032308	3	3	50	1	0	0	0	0	1	0	0	0	5179	275	10	3	1176	3	EPHX1	1	226032308	Missense_Mutation	SNP	A	TCGA-AK-3458-01A-01D-1501-10	17816838	226032308	23218313	4	2864											
HEATR1	55127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	236740185	236740185	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgagggcctggagacaCtgaatggcagccctacgaac	11	5	12	13	1	0	3	0	2	0	1	0	5	0	3	3	3	3	1	3	3	3	1	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	236740185	C	A	236740185	3	1	50	1	0	0	0	0	1	0	0	0	7027	564	20	4	3714	4	HEATR1	1	236740185	Missense_Mutation	SNP	C	TCGA-AK-3458-01A-01D-1501-10	10707877	236740185	12510436	5	2865											
C2orf39	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	26647271	26647271	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatacccaacagctgcaCtgtgctggactcttagaaga	12	9	8	12	0	2	2	1	0	1	2	2	3	2	3	1	1	5	3	1	1	5	2	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	26647271	C	A	26647271	3	1	50	1	0	0	0	0	1	0	0	0	2164	564	20	4	503	4	C2orf39	2	26647271	Missense_Mutation	SNP	C	TCGA-AK-3458-01A-01D-1501-10		26647271	216552102	6	2866											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188203	10188205	+	In_Frame_Del	DEL	CTT	CTT	-																															tgcttgtcccgataggtcacCtttggctcttcagagatgca																								novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		-	10188205	CTT	-	10188203	7	5	50	1	0	1	0	1	0	0	0	0	17161	681	24	0	352	0	VHL	3	10188203	In_Frame_Del	DEL	CTT	TCGA-AK-3458-01A-01D-1501-10		10188203	187834227	7	2867											
PRSS45	377047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	46783933	46783933	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccattgctcatttgcttCttgatccatttggtgtattt	5	20	7	9	0	2	1	1	1	1	0	4	1	4	1	2	1	2	4	2	1	1	7	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	46783933	C	A	46783933	3	1	50	1	0	0	0	0	1	0	0	0	12631	912	32	4	96	4	PRSS45	3	46783933	Missense_Mutation	SNP	C	TCGA-AK-3458-01A-01D-1501-10	36595730	46783933	151238497	8	2868											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52620525	52620525	+	Frame_Shift_Del	DEL	A	A	-																															tcacctttatctgcatttgcAaatacagaggccacgcgaac																								novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		-	52620525	A	-	52620525	7	5	50	1	0	1	0	1	0	0	0	0	11491	127	5	0	1641	0	PBRM1	3	52620525	Frame_Shift_Del	DEL	A	TCGA-AK-3458-01A-01D-1501-10	5836592	52620525	145401905	9	2869											
RPL34	6164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	109543328	109543328	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggaaagcaccaaaatctGcatgtggtgtgtgcccaggc	10	9	13	9	0	1	0	0	0	1	0	1	1	1	1	2	3	3	2	2	3	3	1	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	109543328	G	A	109543328	3	1	50	1	0	0	0	0	1	0	0	0	13585	1319	46	2	139	2	RPL34	4	109543328	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10		109543328	81610948	10	2870											
ELL2	22936	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	95242241	95242241	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcacctgttgcagaattgCtcccagggagttcttgtctt	6	14	9	12	0	3	1	1	0	2	1	4	2	4	2	3	1	2	4	3	1	1	5	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	95242241	C	A	95242241	3	1	50	1	0	0	0	0	1	0	0	0	5063	797	28	4	1227	4	ELL2	5	95242241	Missense_Mutation	SNP	C	TCGA-AK-3458-01A-01D-1501-10		95242241	85673019	11	2871											
TIGD6	81789	broad.mit.edu;ucsc.edu	37	chr5	149375454	149375454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccactcattaatcttaTctattcctagaccattcatt	11	16	2	12	0	4	1	2	0	2	1	5	1	5	1	3	0	1	0	3	0	4	7	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		C	149375454	C	C	149375454	3	2	50	1	0	0	0	0	1	0	0	0	15899	1435	50	3	1111	3	TIGD6	5	149375454	Missense_Mutation	SNP	T	TCGA-AK-3458-01A-01D-1501-10	54133213	149375454	31539806	12	2872											
BTNL8	79908	broad.mit.edu;hgsc.bcm.edu	37	chr5	180377117	180377117	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgcgtgggagtgtgccGggatgatgtggacaggagga	7	7	22	5	3	0	1	0	1	0	0	0	6	0	6	1	6	1	0	1	6	0	0	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	180377117	G	A	180377117	3	1	50	1	0	0	0	0	1	0	0	0	1567	1116	39	1	1262	1	BTNL8	5	180377117	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10	31001663	180377117	538143	13	2873											
SLC13A4	26266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135370372	135370372	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcagggtgacagcccaCggtgggaggctgctcaggga	8	4	18	11	1	1	1	1	1	0	0	1	3	1	3	2	5	3	3	2	5	0	0	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		T	135370372	C	T	135370372	2	4	50	1	0	0	0	0	0	0	0	1	14396	523	19	1		1	SLC13A4	7	135370372	Silent	SNP	C	TCGA-AK-3458-01A-01D-1501-10		135370372	23768291	14	2874											
PLIN2	123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	19116637	19116637	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcaattgcaagagtacgtGactcaatgtgctaaaaataa	16	9	10	6	1	1	2	1	1	0	1	1	2	1	2	0	1	3	4	0	1	8	4	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	19116637	G	A	19116637	3	1	50	1	0	0	0	0	1	0	0	0	12090	1294	45	2	394	2	PLIN2	9	19116637	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10		19116637	122096794	15	2875											
UBE2R2	54926	broad.mit.edu;ucsc.edu	37	chr9	33817901	33817901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggccatcttcggaccccCcaacaccctctacgaaggcg	8	6	10	17	3	2	0	0	0	2	0	3	2	2	1	5	4	2	0	5	4	3	2	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		T	33817901	T	T	33817901	3	4	50	1	0	0	0	0	1	0	0	0	16870	623	22	2	148	2	UBE2R2	9	33817901	Missense_Mutation	SNP	C	TCGA-AK-3458-01A-01D-1501-10	14701264	33817901	107395530	16	2876											
TNFSF15	9966	hgsc.bcm.edu;ucsc.edu	37	chr9	117552995	117552995	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcggcctgcttgtctgaTttcactgcactcagaggtca	6	13	11	11	1	4	2	3	1	1	1	5	2	4	2	1	3	2	2	1	3	0	2	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	117552995	T	A	117552995	3	1	50	1	0	0	0	0	1	0	0	0	16307	1493	52	5	266	5	TNFSF15	9	117552995	Missense_Mutation	SNP	T	TCGA-AK-3458-01A-01D-1501-10	83735094	117552995	23660436	17	2877											
GTF3C4	9329	broad.mit.edu	37	chr9	135555166	135555166	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactttttaatgtctgatgaAgagtatgatgacagaactgc	14	13	9	5	0	1	6	0	4	1	2	1	6	1	6	0	0	3	1	0	0	5	4	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		G	135555166	G	G	135555166	2	3	50	1	0	0	0	0	0	0	0	1	6875	69	3	3		3	GTF3C4	9	135555166	Silent	SNP	A	TCGA-AK-3458-01A-01D-1501-10	18002171	135555166	5658265	18	2878											
FRMPD2	143162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	49420118	49420118	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagactcgctgggatgtaaTcttcaacgtgaaagtatggc	11	11	11	8	2	3	2	2	1	1	1	4	3	3	3	0	2	1	3	0	2	4	3	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	49420118	T	A	49420118	3	1	50	1	0	0	0	0	1	0	0	0	6058	1435	50	5	2507	5	FRMPD2	10	49420118	Missense_Mutation	SNP	T	TCGA-AK-3458-01A-01D-1501-10		49420118	86114629	19	2879											
PTPRCAP	5790	broad.mit.edu	37	chr11	67203476	67203476	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggccaccatccgcgacgtGgtcatagtctgtgtcctgct	6	10	11	14	3	2	0	1	0	1	0	4	1	4	0	4	2	1	1	4	2	1	1	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		T	67203476	T	T	67203476	3	4	50	1	0	0	0	0	1	0	0	0	12800	1348	47	4	275	4	PTPRCAP	11	67203476	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10		67203476	67803040	20	2880											
BTG4	54766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111368759	111368759	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatctacccatatggtcAtctccttcggaagtcccagg	9	10	10	12	1	3	0	1	0	2	0	6	2	4	2	3	4	1	0	3	4	3	3	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		G	111368759	A	G	111368759	3	3	50	1	0	0	0	0	1	0	0	0	1556	217	8	3	412	3	BTG4	11	111368759	Missense_Mutation	SNP	A	TCGA-AK-3458-01A-01D-1501-10	44165283	111368759	23637757	21	2881											
USP28	57646	broad.mit.edu;ucsc.edu	37	chr11	113701632	113701632	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtaccatagaacagctgCaccattggattttcagattt	14	12	7	8	0	1	2	1	0	0	2	1	3	1	3	2	1	4	3	2	1	4	6	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	113701632	A	A	113701632	2	1	50	1	0	0	0	0	0	0	0	1	17057	697	25	4		4	USP28	11	113701632	Silent	SNP	C	TCGA-AK-3458-01A-01D-1501-10	2332873	113701632	21304884	22	2882											
TECTA	7007	hgsc.bcm.edu;ucsc.edu	37	chr11	121030869	121030870	+	Frame_Shift_Ins	INS	-	-	AT																															ggcacacaagtgaatgttccINSatttataactggtttggcaa																								novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		AT	121030870	-	AT	121030869	7	5	50	1	0	1	1	0	0	0	0	0	15746	594	21	0	4769	0	TECTA	11	121030869	Frame_Shift_Ins	INS	-	TCGA-AK-3458-01A-01D-1501-10	7329237	121030869	13975647	23	2883											
PLXNC1	10154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	94673352	94673352	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaccattggccaagccaaAgaaaagattttccaagcatt	16	8	7	10	0	0	2	0	0	0	2	1	3	1	2	4	1	2	1	4	1	5	4	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		C	94673352	A	C	94673352	3	2	50	1	0	0	0	0	1	0	0	0	12126	69	3	5	3788	5	PLXNC1	12	94673352	Missense_Mutation	SNP	A	TCGA-AK-3458-01A-01D-1501-10		94673352	39178543	24	2884											
HAUS4	54930	hgsc.bcm.edu;ucsc.edu	37	chr14	23421803	23421806	+	Frame_Shift_Del	DEL	GTGA	GTGA	-																															gccactctcatccacatgctGtgagagattcaggagaagct																								novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	GTGA	GTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		-	23421806	GTGA	-	23421803	7	5	50	1	0	1	0	1	0	0	0	0	6968	1386	48	0	978	0	HAUS4	14	23421803	Frame_Shift_Del	DEL	GTGA	TCGA-AK-3458-01A-01D-1501-10		23421803	83927737	25	2885											
ADCK1	57143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	78365584	78365584	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtcccagatgctcaggCattttgacttcttgaaggta	9	13	11	8	0	2	3	1	2	1	1	3	3	3	3	1	3	1	3	1	3	2	5	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		G	78365584	C	G	78365584	3	3	50	1	0	0	0	0	1	0	0	0	288	710	25	4	742	4	ADCK1	14	78365584	Missense_Mutation	SNP	C	TCGA-AK-3458-01A-01D-1501-10	54943781	78365584	28983956	26	2886											
HERC2	8924	broad.mit.edu;hgsc.bcm.edu	37	chr15	28515959	28515959	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcaagctcgttgtcttgtGgaagggtgaggtacctcagg	7	11	16	7	1	2	1	1	1	1	0	3	2	2	2	1	5	2	4	1	5	3	3	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	28515959	G	A	28515959	3	1	50	1	0	0	0	0	1	0	0	0	7058	1348	47	2	13701	2	HERC2	15	28515959	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10		28515959	74015433	27	2887											
CCDC144A	9720	broad.mit.edu	37	chr17	16664760	16664760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgaccttacagaagcacagGaaactgtaccttcacgatgt	13	10	8	10	1	1	2	1	1	0	1	1	4	1	3	2	1	4	2	2	1	4	4	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	16664760	A	A	16664760	3	1	50	1	0	0	0	0	1	0	0	0	2777	1175	41	2	3444	2	CCDC144A	17	16664760	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10		16664760	64530450	28	2888											
RIOK3	8780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21043937	21043937	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattttgaatagtgttgcTgaaggaccatttattactgg	10	17	9	5	0	0	2	0	2	0	0	0	3	0	3	1	2	2	2	1	2	6	8	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		C	21043937	T	C	21043937	2	2	50	1	0	0	0	0	0	0	0	1	13381	1567	55	3		3	RIOK3	18	21043937	Silent	SNP	T	TCGA-AK-3458-01A-01D-1501-10		21043937	57033311	29	2889											
CNDP1	84735	broad.mit.edu	37	chr18	72234669	72234669	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagctacttcatggtggagGtatccacagagagcagtgca	12	8	12	9	0	1	1	1	0	0	1	2	3	2	2	1	3	4	4	1	3	2	3	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		T	72234669	T	T	72234669	5	4	50	1	0	0	0	0	0	0	1	0	3593	1275	44	4	779	4	CNDP1	18	72234669	Splice_Site	SNP	G	TCGA-AK-3458-01A-01D-1501-10	51190732	72234669	5842579	30	2890											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57329187	57329187	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgtgggagtggccatcGtcttcagcaagctgcactcc	7	10	12	12	1	3	0	2	0	1	0	5	1	4	1	2	2	3	3	2	2	1	1	rs142177720	by1000genomes	TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		A	57329187	G	A	57329187	2	1	50	1	0	0	0	0	0	0	0	1	11720	1136	40	1		1	PEG3	19	57329187	Silent	SNP	G	TCGA-AK-3458-01A-01D-1501-10		57329187	1799796	31	2891											
KDM5C	8242	broad.mit.edu;ucsc.edu	37	chrX	53244975	53244975	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtcagggctgggtccttAcaaactgggcattgctgtgg	8	10	15	8	0	1	0	1	0	0	0	2	1	2	0	1	4	3	3	1	4	3	2	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		G	53244975	G	G	53244975	5	3	50	1	0	0	0	0	0	0	1	0	8135	405	14	3	3895	3	KDM5C	23	53244975	Splice_Site	SNP	A	TCGA-AK-3458-01A-01D-1501-10		53244975	102025585	32	2892											
AMOT	154796	broad.mit.edu	37	chrX	112048309	112048309	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcttctccttctcacgctGgctttctttatctgtcagga	5	16	7	13	1	5	0	2	0	4	0	7	1	5	1	1	2	1	3	1	2	1	5	novel		TCGA-AK-3458-01A-01D-1501-10	TCGA-AK-3458-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0198f3c3-78f2-4c19-90d5-c77b74044ca2	30e43131-d7aa-407d-9bed-28ae34db1b68		C	112048309	C	C	112048309	3	2	50	1	0	0	0	0	1	0	0	0	582	1357	47	4	1640	4	AMOT	23	112048309	Missense_Mutation	SNP	G	TCGA-AK-3458-01A-01D-1501-10	58803334	112048309	43222251	33	2893											
MSH4	4438	hgsc.bcm.edu	37	chr1	76282224	76282224	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgttaattaataatcaaGactataggtaagatcatcca	18	13	5	5	0	2	2	2	0	0	2	3	2	3	2	1	1	0	2	1	1	8	7	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	76282224	G	T	76282224	3	4	51	1	0	0	0	0	1	0	0	0	9872	942	33	4	1004	4	MSH4	1	76282224	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10		76282224	172968397	1	2894											
AP4B1	10717	hgsc.bcm.edu;ucsc.edu	37	chr1	114447239	114447239	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatacctaatcactcgcTggatgacattccggtagcgc	9	10	11	11	3	1	2	1	2	0	0	3	3	2	3	2	3	2	2	2	3	3	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	114447239	T	A	114447239	3	1	51	1	0	0	0	0	1	0	0	0	751	1580	55	5	2158	5	AP4B1	1	114447239	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	38165015	114447239	134803382	2	2895											
NES	10763	hgsc.bcm.edu	37	chr1	156640157	156640157	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcctccccttcctcctgggGgccctcggggatctccccag	2	9	10	20	1	1	0	0	0	1	0	7	1	5	1	8	4	0	0	8	4	0	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	156640157	G	A	156640157	3	1	51	1	0	0	0	0	1	0	0	0	10337	1232	43	2	1046	2	NES	1	156640157	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	42192918	156640157	92610464	3	2896											
OLFML2B	25903	hgsc.bcm.edu;ucsc.edu	37	chr1	161953696	161953696	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagatgacgaagcagttGccgtagaaattcctccggag	12	7	11	11	3	0	3	0	1	0	2	2	5	2	4	4	1	2	3	4	1	3	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	161953696	G	A	161953696	2	1	51	1	0	0	0	0	0	0	0	1	10858	1306	46	2		2	OLFML2B	1	161953696	Silent	SNP	G	TCGA-AK-3460-01A-02D-1361-10	5313539	161953696	87296925	4	2897											
RXRG	6258	hgsc.bcm.edu	37	chr1	165398156	165398156	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattggcttccctgtggacaAggctgctgatgggctcatgg	6	11	14	10	0	1	1	1	1	0	0	2	2	2	2	1	5	1	4	1	5	1	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	165398156	A	C	165398156	3	2	51	1	0	0	0	0	1	0	0	0	13767	69	3	5	1330	5	RXRG	1	165398156	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	3444460	165398156	83852465	5	2898											
RFWD2	64326	hgsc.bcm.edu;ucsc.edu	37	chr1	176132093	176132093	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttggtcagttcccaacCaatcttgaaatatctgccac	11	13	5	12	0	4	1	1	1	3	0	5	1	5	1	3	1	2	1	3	1	5	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	176132093	C	A	176132093	3	1	51	1	0	0	0	0	1	0	0	0	13262	595	21	4	1585	4	RFWD2	1	176132093	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10	10733937	176132093	73118528	6	2899											
TP53BP2	7159	hgsc.bcm.edu	37	chr1	223986157	223986157	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaagggtctggtcttGgccaaccgaaggtatgctgg	9	9	16	7	1	2	1	0	0	2	1	2	3	2	1	2	6	2	2	2	6	4	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	223986157	G	T	223986157	3	4	51	1	0	0	0	0	1	0	0	0	16383	1357	47	4	1724	4	TP53BP2	1	223986157	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	47854064	223986157	25264464	7	2900											
THNSL2	55258	hgsc.bcm.edu	37	chr2	88485426	88485426	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catccccacagcactccccgGtgctgcctcgcccctgcctc	4	7	7	23	2	0	0	0	0	0	0	4	0	2	0	8	1	4	2	8	1	0	0	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	88485426	G	T	88485426	2	4	51	1	0	0	0	0	0	0	0	1	15862	1248	44	4		4	THNSL2	2	88485426	Silent	SNP	G	TCGA-AK-3460-01A-02D-1361-10		88485426	154713947	8	2901											
ZEB2	9839	hgsc.bcm.edu	37	chr2	145155963	145155963	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaggccatatgtggtaggaAgctcatctgatccagtcctg	9	11	12	9	0	2	1	1	1	1	0	4	2	4	2	3	3	1	3	3	3	4	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	145155963	A	C	145155963	3	2	51	1	0	0	0	0	1	0	0	0	17623	72	3	5	865	5	ZEB2	2	145155963	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	56670537	145155963	98043410	9	2902											
AOX1	316	hgsc.bcm.edu	37	chr2	201515874	201515874	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaagaaaggactggccAtggtccccctgaagtttcct	11	8	12	10	0	0	3	0	1	0	2	2	5	2	5	4	4	0	1	4	4	4	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	201515874	A	T	201515874	3	4	51	1	0	0	0	0	1	0	0	0	729	217	8	5	3127	5	AOX1	2	201515874	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	56359911	201515874	41683499	10	2903											
FYCO1	79443	hgsc.bcm.edu	37	chr3	46009603	46009603	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccctttctagggctTgaagcttctcccctagctcc	4	15	6	16	0	3	1	0	1	3	0	7	1	5	1	4	1	2	3	4	1	3	6	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	46009603	T	A	46009603	3	1	51	1	0	0	0	0	1	0	0	0	6125	1812	63	5	3257	5	FYCO1	3	46009603	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10		46009603	152012827	11	2904											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52621464	52621464	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttctagaaattttcGtgtagccaggtggaatgttt	8	19	9	5	1	2	1	0	0	2	1	3	2	2	2	1	2	1	2	1	2	4	8	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	52621464	G	A	52621464	4	1	51	1	0	0	0	0	0	1	0	0	11491	1153	40	1	1920	1	PBRM1	3	52621464	Nonsense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	6611861	52621464	145400966	12	2905											
ROBO2	6092	hgsc.bcm.edu	37	chr3	77626662	77626662	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccaagtgccccaccacagtCtgtcactgtactgacagttg	9	9	8	15	0	2	1	1	1	1	0	2	1	2	1	4	0	2	2	4	0	2	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	77626662	C	G	77626662	3	3	51	1	0	0	0	0	1	0	0	0	13516	913	32	4	2285	4	ROBO2	3	77626662	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10	25005198	77626662	120395768	13	2906											
FGFBP1	9982	hgsc.bcm.edu;ucsc.edu	37	chr4	15937909	15937909	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgagcgcagattccgggcaActtgtttccaatagactctc	9	11	10	11	2	1	3	0	1	1	2	4	3	3	3	2	1	2	3	2	1	3	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	15937909	A	G	15937909	3	3	51	1	0	0	0	0	1	0	0	0	5860	43	2	3	361	3	FGFBP1	4	15937909	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10		15937909	175216367	14	2907											
PDGFRA	5156	hgsc.bcm.edu	37	chr4	55133800	55133800	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaaacattttgttgtagAggtgcgggcctacccacctc	9	11	10	11	1	1	1	1	0	0	1	2	1	1	1	3	2	3	2	3	2	3	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	55133800	A	G	55133800	3	3	51	1	0	0	0	0	1	0	0	0	11661	304	11	3	1035	3	PDGFRA	4	55133800	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	39195891	55133800	136020476	15	2908											
LPHN3	23284	hgsc.bcm.edu;ucsc.edu	37	chr4	62849248	62849248	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatacttttatctggtcGgctatgggatgcctgcactc	8	13	11	9	1	1	0	0	0	1	0	3	2	1	2	1	4	3	2	1	4	4	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	62849248	G	A	62849248	3	1	51	1	0	0	0	0	1	0	0	0	8917	1116	39	1	3021	1	LPHN3	4	62849248	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	7715448	62849248	128305028	16	2909											
ENPEP	2028	hgsc.bcm.edu;ucsc.edu	37	chr4	111412268	111412268	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcacgtacctggtgtgctTtgctgtacatcaatttgact	8	14	10	9	1	1	1	1	1	0	0	1	2	1	1	1	1	5	5	1	1	3	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	111412268	T	G	111412268	3	3	51	1	0	0	0	0	1	0	0	0	5128	1841	64	5	876	5	ENPEP	4	111412268	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	48563020	111412268	79742008	17	2910											
STOX2	56977	hgsc.bcm.edu;ucsc.edu	37	chr4	184930539	184930539	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatcacgccctctgcctCaggctgtgtcagggaaagga	9	7	12	13	1	4	0	3	0	1	0	4	3	4	2	3	3	1	1	3	3	1	0	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	184930539	C	A	184930539	4	1	51	1	0	0	0	0	0	1	0	0	15321	838	29	4	558	4	STOX2	4	184930539	Nonsense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10	73518271	184930539	6223737	18	2911											
CCDC111	201973	hgsc.bcm.edu;ucsc.edu	37	chr4	185599419	185599419	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatagaaactttcggctatAtaaatcatcaaaaattggaa	20	11	5	5	1	2	1	2	0	0	1	3	2	2	2	0	2	1	1	0	2	10	6	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	185599419	A	G	185599419	3	3	51	1	0	0	0	0	1	0	0	0	2748	449	16	3	900	3	CCDC111	4	185599419	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	668880	185599419	5554857	19	2912											
ROPN1L	83853	hgsc.bcm.edu	37	chr5	10461349	10461350	+	Frame_Shift_Del	DEL	GG	GG	-																															atcctcacggacgatccggaGggcgggcccgctcgcatccc																								novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		-	10461350	GG	-	10461349	7	5	51	1	0	1	0	1	0	0	0	0	13527	991	35	0	485	0	ROPN1L	5	10461349	Frame_Shift_Del	DEL	GG	TCGA-AK-3460-01A-02D-1361-10		10461349	170453911	20	2913											
GOLPH3	64083	hgsc.bcm.edu;ucsc.edu	37	chr5	32126658	32126658	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtttctctgttgtcaatAcacccttttccaccaggttt	6	18	5	12	0	3	0	1	0	2	0	5	0	4	0	3	1	1	3	3	1	2	6	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	32126658	A	T	32126658	3	4	51	1	0	0	0	0	1	0	0	0	6568	391	14	5	343	5	GOLPH3	5	32126658	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	21665309	32126658	148788602	21	2914											
SFRS12	0	hgsc.bcm.edu;ucsc.edu	37	chr5	65455094	65455094	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctctttattggctcctgctCcaaccatgacaagtctgatg	8	14	7	12	0	2	2	0	2	2	0	5	2	4	2	3	1	2	2	3	1	3	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	65455094	C	T	65455094	3	4	51	1	0	0	0	0	1	0	0	0	14169	855	30	2	353	2	SFRS12	5	65455094	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10	33328436	65455094	115460166	22	2915											
SLC12A2	6558	hgsc.bcm.edu;ucsc.edu	37	chr5	127477609	127477609	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttctgcagcctgcaaatTaaactttgatttttcatctt	10	18	4	9	0	3	1	1	1	2	0	3	1	3	1	1	0	5	2	1	0	4	7	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	127477609	T	G	127477609	4	3	51	1	0	0	0	0	0	1	0	0	14385	1764	61	5	1747	5	SLC12A2	5	127477609	Nonsense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	62022515	127477609	53437651	23	2916											
FLT4	2324	hgsc.bcm.edu	37	chr5	180048826	180048826	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtacttgtagctgtcggctTggcagctcaggagcaccggc	6	9	14	12	3	1	0	1	0	0	0	2	1	1	1	1	4	4	7	1	4	2	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	180048826	T	C	180048826	3	2	51	1	0	0	0	0	1	0	0	0	5944	1812	63	3	2435	3	FLT4	5	180048826	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	52571217	180048826	866434	24	2917											
ITPR3	3710	hgsc.bcm.edu	37	chr6	33635706	33635706	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagaccgaggtggagacCttcgtcagccttgtgcgcaa	10	7	12	12	3	1	2	1	0	0	2	2	4	1	2	4	2	2	1	4	2	2	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	33635706	C	T	33635706	2	4	51	1	0	0	0	0	0	0	0	1	7922	668	24	2		2	ITPR3	6	33635706	Silent	SNP	C	TCGA-AK-3460-01A-02D-1361-10		33635706	137479361	25	2918											
PPARD	5467	hgsc.bcm.edu	37	chr6	35392338	35392338	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctcaagtatggcgtgcAcgaggccatcttcgccatgc	7	10	10	14	3	2	0	1	0	2	0	4	1	2	0	3	2	2	2	3	2	2	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	35392338	A	G	35392338	3	3	51	1	0	0	0	0	1	0	0	0	12298	159	6	3	895	3	PPARD	6	35392338	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	1756632	35392338	135722729	26	2919											
CUL9	23113	hgsc.bcm.edu	37	chr6	43174215	43174215	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccacagaattctgtgatGcccttgaccgtttctccagt	7	14	7	13	1	2	3	0	2	2	1	4	3	3	3	4	0	1	1	4	0	1	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	43174215	G	A	43174215	3	1	51	1	0	0	0	0	1	0	0	0	4061	1319	46	2	5277	2	CUL9	6	43174215	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	7781877	43174215	127940852	27	2920											
GPR116	221395	hgsc.bcm.edu;ucsc.edu	37	chr6	46856140	46856140	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatgaattggaaaactgAggctgttcaagtaggctttg	11	12	11	7	0	1	2	1	2	0	0	2	3	2	3	1	3	1	4	1	3	5	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	46856140	A	C	46856140	3	2	51	1	0	0	0	0	1	0	0	0	6633	304	11	5	3852	5	GPR116	6	46856140	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	3681925	46856140	124258927	28	2921											
KATNA1	11104	hgsc.bcm.edu	37	chr6	149918641	149918641	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaagattgaaaggaagatAcctgacggcaaaggaatata	19	6	11	5	1	0	4	0	2	0	2	0	7	0	6	1	3	1	1	1	3	8	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	149918641	A	C	149918641	5	2	51	1	0	0	0	0	0	0	1	0	7984	405	14	5	335	5	KATNA1	6	149918641	Splice_Site	SNP	A	TCGA-AK-3460-01A-02D-1361-10	103062501	149918641	21196426	29	2922											
RGS17	26575	hgsc.bcm.edu;ucsc.edu	37	chr6	153332893	153332894	+	Frame_Shift_Ins	INS	-	-	T																															tctaactcgagaatcaagacINStgacctaaaaagaaacaaga																								novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	153332894	-	T	153332893	7	5	51	1	0	1	1	0	0	0	0	0	13301	565	20	0	187	0	RGS17	6	153332893	Frame_Shift_Ins	INS	-	TCGA-AK-3460-01A-02D-1361-10	3414252	153332893	17782174	30	2923											
BRP44L	0	hgsc.bcm.edu	37	chr6	166780320	166780320	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgataatctctggagacttTttcatatcattgatggcagc	10	15	8	8	0	3	3	2	2	1	1	4	4	3	3	0	2	1	1	0	2	2	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	166780320	T	C	166780320	2	2	51	1	0	0	0	0	0	0	0	1	1519	1841	64	3		3	BRP44L	6	166780320	Silent	SNP	T	TCGA-AK-3460-01A-02D-1361-10	13447427	166780320	4334747	31	2924											
IQCE	23288	hgsc.bcm.edu	37	chr7	2632756	2632756	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagagagcgagaggaggttTtgaggtatgtgacccgggtc	9	8	19	5	2	0	4	0	2	0	2	1	8	0	6	1	5	1	2	1	5	1	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	2632756	T	C	2632756	2	2	51	1	0	0	0	0	0	0	0	1	7806	1838	64	3		3	IQCE	7	2632756	Silent	SNP	T	TCGA-AK-3460-01A-02D-1361-10		2632756	156505907	32	2925											
TMEM196	256130	hgsc.bcm.edu;ucsc.edu	37	chr7	19765340	19765340	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccggaggaactgaaaatTcaggatgcccccaataagtc	13	7	10	11	1	1	1	1	1	0	0	2	4	1	4	3	3	3	0	3	3	5	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	19765340	T	A	19765340	3	1	51	1	0	0	0	0	1	0	0	0	16117	1783	62	5	270	5	TMEM196	7	19765340	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	17132584	19765340	139373323	33	2926											
ZNF273	10793	hgsc.bcm.edu	37	chr7	64388663	64388663	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggaacaaaaccctacaaTtgtgaagaatgtggcaaagg	18	6	10	7	0	0	2	0	1	0	1	0	3	0	3	1	3	3	1	1	3	8	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	64388663	T	A	64388663	3	1	51	1	0	0	0	0	1	0	0	0	17807	1490	52	5	971	5	ZNF273	7	64388663	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	44623323	64388663	94750000	34	2927											
SLC7A2	6542	hgsc.bcm.edu;ucsc.edu	37	chr8	17401011	17401011	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggccggggtttatgtcCtcgctggggaggtggccaag	4	10	19	8	2	0	0	0	0	0	0	2	1	1	1	3	8	0	2	3	8	2	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	17401011	C	A	17401011	3	1	51	1	0	0	0	0	1	0	0	0	14699	681	24	4	289	4	SLC7A2	8	17401011	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10		17401011	128963011	35	2928											
CSGALNACT1	55790	hgsc.bcm.edu	37	chr8	19263531	19263531	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtggagatacttgcgataAaggtgcacatcctctccgcc	9	10	10	12	2	1	1	0	0	1	1	3	3	2	1	3	2	3	1	3	2	3	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	19263531	A	T	19263531	2	4	51	1	0	0	0	0	0	0	0	1	3938	1	1	5		5	CSGALNACT1	8	19263531	Silent	SNP	A	TCGA-AK-3460-01A-02D-1361-10	1862520	19263531	127100491	36	2929											
CDCA2	157313	hgsc.bcm.edu;ucsc.edu	37	chr8	25341648	25341648	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaaagacttcagtggtctCagttccctgctgcttgagca	11	11	9	10	0	2	2	2	1	1	1	4	2	3	2	1	1	3	4	1	1	3	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	25341648	C	T	25341648	2	4	51	1	0	0	0	0	0	0	0	1	3086	813	29	2		2	CDCA2	8	25341648	Silent	SNP	C	TCGA-AK-3460-01A-02D-1361-10	6078117	25341648	121022374	37	2930											
ZNF462	58499	hgsc.bcm.edu	37	chr9	109688141	109688141	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagacagacagccaccccTcttccagcaacactgtgaag	13	6	8	14	0	1	3	0	2	1	2	2	4	2	3	4	0	3	1	4	0	2	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	109688141	T	A	109688141	3	1	51	1	0	0	0	0	1	0	0	0	17925	1551	54	5	1954	5	ZNF462	9	109688141	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10		109688141	31525290	38	2931											
C5	727	hgsc.bcm.edu	37	chr9	123742419	123742419	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacgaaactgtgggtgagtTttatctcccagggaaagagc	12	9	13	7	1	1	2	0	1	1	1	2	5	1	3	1	2	3	1	1	2	4	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	123742419	T	G	123742419	3	3	51	1	0	0	0	0	1	0	0	0	2280	1838	64	5	1486	5	C5	9	123742419	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	14054278	123742419	17471012	39	2932											
FPGS	2356	hgsc.bcm.edu	37	chr9	130566577	130566577	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccaggatgccgtgcgcaTgctcaataccctgcagacca	9	8	10	14	2	1	1	1	0	0	1	1	2	1	2	4	1	6	3	4	1	2	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	130566577	T	C	130566577	3	2	51	1	0	0	0	0	1	0	0	0	6036	1464	51	3	158	3	FPGS	9	130566577	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	6824158	130566577	10646854	40	2933											
TUBAL3	79861	hgsc.bcm.edu;ucsc.edu	37	chr10	5442885	5442885	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctcacagaagaaggtatCgaaagatgcatttgtgtgct	12	12	11	6	1	1	3	1	0	1	3	3	4	1	3	0	1	2	3	0	1	4	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	5442885	C	T	5442885	3	4	51	1	0	0	0	0	1	0	0	0	16750	884	31	1	1183	1	TUBAL3	10	5442885	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10		5442885	130091862	41	2934											
SVIL	6840	hgsc.bcm.edu	37	chr10	29840075	29840075	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagactgtgggtgtccAtggtacccgaaccatagggt	9	9	12	11	1	0	1	0	0	0	1	2	2	2	1	4	3	2	1	4	3	3	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	29840075	A	G	29840075	3	3	51	1	0	0	0	0	1	0	0	0	15420	217	8	3	6498	3	SVIL	10	29840075	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	24397190	29840075	105694672	42	2935											
LIPN	643418	hgsc.bcm.edu	37	chr10	90521220	90521220	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaactttaaatgctggtGgattccttgatttggaaaat	11	15	11	4	0	0	1	0	1	0	0	1	4	1	4	1	4	2	1	1	4	5	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	90521220	G	A	90521220	3	1	51	1	0	0	0	0	1	0	0	0	8828	1349	47	2	60	2	LIPN	10	90521220	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	60681145	90521220	45013527	43	2936											
LGI1	9211	hgsc.bcm.edu;ucsc.edu	37	chr10	95557392	95557392	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactcctttactcaagtgtaTaactgggatgcagagaaagc	13	11	9	8	0	1	1	1	0	0	1	2	3	2	2	1	1	5	2	1	1	6	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	95557392	T	C	95557392	2	2	51	1	0	0	0	0	0	0	0	1	8751	1413	49	3		3	LGI1	10	95557392	Silent	SNP	T	TCGA-AK-3460-01A-02D-1361-10	5036172	95557392	39977355	44	2937											
MTG1	92170	hgsc.bcm.edu;ucsc.edu	37	chr10	135209280	135209280	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcgaggtccacgatgcccGgatatcctttcacagagcag	10	8	10	13	3	1	1	1	0	0	1	4	4	3	2	3	2	2	1	3	2	1	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	135209280	G	A	135209280	3	1	51	1	0	0	0	0	1	0	0	0	9926	1130	39	1	182	1	MTG1	10	135209280	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10	39651888	135209280	325467	45	2938											
OR5F1	338674	hgsc.bcm.edu	37	chr11	55761256	55761256	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagaggattcaacatgggAatcaccactgtgtagaacac	15	8	9	9	0	3	2	3	0	0	2	3	4	3	4	1	2	2	1	1	2	4	2	rs77110658	bycluster;byfrequency;by1000genomes	TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	55761256	A	G	55761256	2	3	51	1	0	0	0	0	0	0	0	1	11158	242	9	3		3	OR5F1	11	55761256	Silent	SNP	A	TCGA-AK-3460-01A-02D-1361-10		55761256	79245260	46	2939											
MED17	9440	hgsc.bcm.edu;ucsc.edu	37	chr11	93521254	93521254	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagagatgtgtgttctctAtgatgttctcagtattgtta	9	17	10	5	0	2	2	1	1	2	1	4	4	2	2	0	0	0	4	0	0	3	6	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	93521254	A	G	93521254	3	3	51	1	0	0	0	0	1	0	0	0	9435	449	16	3	344	3	MED17	11	93521254	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	37759998	93521254	41485262	47	2940											
CACNA1C	775	hgsc.bcm.edu	37	chr12	2719719	2719719	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcccagcgacagtgcgtgGaatacgccctcaaggcccgg	8	5	12	16	4	1	0	1	0	0	0	2	2	2	1	4	3	3	0	4	3	3	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	2719719	G	T	2719719	4	4	51	1	0	0	0	0	0	1	0	0	2540	1175	41	4	3853	4	CACNA1C	12	2719719	Nonsense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10		2719719	131132176	48	2941											
DIP2B	57609	hgsc.bcm.edu;ucsc.edu	37	chr12	51138438	51138438	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggctctgaacaggaagcccTagatctggtcccattagtga	10	9	11	11	1	2	3	0	2	2	1	3	4	3	4	2	3	2	1	2	3	4	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	51138438	T	C	51138438	3	2	51	1	0	0	0	0	1	0	0	0	4528	1522	53	3	4697	3	DIP2B	12	51138438	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10	48418719	51138438	82713457	49	2942											
KRT2	3849	hgsc.bcm.edu	37	chr12	53042852	53042852	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtccaccttggactgcAactccacctttatcatgtag	9	11	8	13	0	1	0	1	0	0	0	3	1	3	1	4	2	2	3	4	2	3	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	53042852	A	C	53042852	3	2	51	1	0	0	0	0	1	0	0	0	8457	131	5	5	1047	5	KRT2	12	53042852	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	1904414	53042852	80809043	50	2943											
ACACB	32	hgsc.bcm.edu	37	chr12	109661640	109661640	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattaatactttcggaaacAaccatcttcgacgtcctgcc	13	11	5	12	3	1	0	0	0	1	0	4	2	2	1	3	1	4	0	3	1	5	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	109661640	A	G	109661640	2	3	51	1	0	0	0	0	0	0	0	1	107	117	5	3		3	ACACB	12	109661640	Silent	SNP	A	TCGA-AK-3460-01A-02D-1361-10	56618788	109661640	24190255	51	2944											
PTPN11	5781	hgsc.bcm.edu	37	chr12	112893798	112893798	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgaaatagaaagcagAgttcgagaactaagcaaatt	17	8	10	6	1	0	4	0	1	0	3	1	5	0	4	0	0	4	5	0	0	6	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	112893798	A	G	112893798	2	3	51	1	0	0	0	0	0	0	0	1	12782	301	11	3		3	PTPN11	12	112893798	Silent	SNP	A	TCGA-AK-3460-01A-02D-1361-10	3232158	112893798	20958097	52	2945											
PXN	5829	hgsc.bcm.edu	37	chr12	120650285	120650285	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgggcttctggcagccAgaacacagcgagccgcgccg	8	5	15	13	4	1	2	0	1	1	1	1	3	1	2	3	2	4	2	3	2	1	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	120650285	A	G	120650285	2	3	51	1	0	0	0	0	0	0	0	1	12854	175	7	3		3	PXN	12	120650285	Silent	SNP	A	TCGA-AK-3460-01A-02D-1361-10	7756487	120650285	13201610	53	2946											
FBXL3	26224	hgsc.bcm.edu	37	chr13	77581415	77581415	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataattgagataggcggccAccacacatcttcacaaactc	14	8	7	12	1	2	1	1	1	1	1	3	3	2	1	2	2	1	0	2	2	3	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	77581415	A	G	77581415	2	3	51	1	0	0	0	0	0	0	0	1	5720	146	6	3		3	FBXL3	13	77581415	Silent	SNP	A	TCGA-AK-3460-01A-02D-1361-10		77581415	37588463	54	2947											
KIAA0586	9786	hgsc.bcm.edu	37	chr14	58954742	58954742	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaggtatcaagcccagagCttcccaagccatggggtgat	11	8	12	10	0	1	3	1	2	0	1	2	3	2	3	3	3	3	2	3	3	4	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	58954742	C	G	58954742	3	3	51	1	0	0	0	0	1	0	0	0	8186	797	28	4	3300	4	KIAA0586	14	58954742	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10		58954742	48394798	55	2948											
SMEK1	55671	hgsc.bcm.edu;ucsc.edu	37	chr14	91937228	91937228	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccataagaactagcactctcCggaggatatccttattaata	14	11	6	10	1	1	1	0	0	1	1	3	3	2	3	3	2	2	1	3	2	7	6	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	91937228	C	A	91937228	3	1	51	1	0	0	0	0	1	0	0	0	14795	652	23	4	912	4	SMEK1	14	91937228	Missense_Mutation	SNP	C	TCGA-AK-3460-01A-02D-1361-10	32982486	91937228	15412312	56	2949											
UBR1	197131	hgsc.bcm.edu;ucsc.edu	37	chr15	43367229	43367229	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttacacaaaaagggccaGttttccatgcctctgtgtct	10	13	8	10	0	2	0	0	0	2	0	3	1	3	0	3	1	2	1	3	1	3	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	43367229	G	C	43367229	3	2	51	1	0	0	0	0	1	0	0	0	16900	1029	36	4	4949	4	UBR1	15	43367229	Missense_Mutation	SNP	G	TCGA-AK-3460-01A-02D-1361-10		43367229	59164163	57	2950											
LINGO1	84894	hgsc.bcm.edu	37	chr15	77907534	77907534	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaagaccttgagtcggtAcagcctcttgaaggagtagt	10	10	11	10	1	1	3	0	2	1	1	3	4	2	4	3	2	2	2	3	2	4	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	77907534	A	T	77907534	3	4	51	1	0	0	0	0	1	0	0	0	8814	391	14	5	1151	5	LINGO1	15	77907534	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	34540305	77907534	24623858	58	2951											
PSMD7	5713	hgsc.bcm.edu;ucsc.edu	37	chr16	74334042	74334042	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttggaaaccagaagcgtgTtgttggtgtgcttttggggt	6	14	17	4	1	0	1	0	0	0	1	0	2	0	2	1	5	3	4	1	5	2	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	74334042	T	G	74334042	3	3	51	1	0	0	0	0	1	0	0	0	12705	1725	60	5	110	5	PSMD7	16	74334042	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10		74334042	16020711	59	2952											
ADAMTS18	170692	hgsc.bcm.edu	37	chr16	77398222	77398222	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcttctgggtcgcccagAgctcccatattcatcaaacc	9	11	7	14	1	4	2	2	1	2	1	6	2	5	2	3	1	2	1	3	1	2	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	77398222	A	G	77398222	3	3	51	1	0	0	0	0	1	0	0	0	263	304	11	3	2906	3	ADAMTS18	16	77398222	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	3064180	77398222	12956531	60	2953											
MAP2K3	5606	hgsc.bcm.edu	37	chr17	21207795	21207795	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgtgaagatgtgtgactTtggcatcagtggctacttgg	8	13	13	7	0	1	3	1	2	0	1	1	3	1	3	1	3	1	2	1	3	2	3	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	21207795	T	G	21207795	3	3	51	1	0	0	0	0	1	0	0	0	9238	1841	64	5	656	5	MAP2K3	17	21207795	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10		21207795	59987415	61	2954											
NF1	4763	hgsc.bcm.edu	37	chr17	29528456	29528456	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctcagaattcaccttctAcatttcactatgtgctggta	9	15	7	10	0	4	1	3	0	1	1	4	1	4	1	1	2	2	3	1	2	4	6	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	A	G	A	A	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	29528456	A	G	29528456	3	3	51	1	0	0	0	0	1	0	0	0	10356	391	14	3	1255	3	NF1	17	29528456	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	8320661	29528456	51666754	62	2955											
CCDC45	0	hgsc.bcm.edu;ucsc.edu	37	chr17	62506379	62506379	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttggactacttgcaggtCagcttgtctcacataacagg	9	11	10	11	0	2	0	2	0	1	0	3	1	2	1	1	3	4	2	1	3	2	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	62506379	C	A	62506379	2	1	51	1	0	0	0	0	0	0	0	1	2816	813	29	4		4	CCDC45	17	62506379	Silent	SNP	C	TCGA-AK-3460-01A-02D-1361-10	32977923	62506379	18688831	63	2956											
CYGB	114757	hgsc.bcm.edu	37	chr17	74527607	74527607	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacaagggcgagcacagAggacaccttgtcggggtcat	10	5	13	13	2	1	1	1	0	0	1	2	3	1	2	3	4	1	1	3	4	1	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	74527607	A	T	74527607	3	4	51	1	0	0	0	0	1	0	0	0	4139	304	11	5	274	5	CYGB	17	74527607	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	12021228	74527607	6667603	64	2957											
SAFB2	9667	hgsc.bcm.edu;ucsc.edu	37	chr19	5621374	5621374	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttctaactcgatgccaaTttcatcaggatcttgcccct	8	13	7	13	1	4	0	2	0	2	0	5	2	4	1	3	2	3	1	3	2	2	4	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	5621374	T	C	5621374	3	2	51	1	0	0	0	0	1	0	0	0	13809	1493	52	3	2721	3	SAFB2	19	5621374	Missense_Mutation	SNP	T	TCGA-AK-3460-01A-02D-1361-10		5621374	53507609	65	2958											
GPR108	56927	hgsc.bcm.edu;ucsc.edu	37	chr19	6731511	6731511	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtaatgccggaacagcttCagcttggccaggttcactgc	9	10	11	11	1	2	0	2	0	0	0	2	1	2	1	2	3	5	4	2	3	3	5	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		T	6731511	C	T	6731511	2	4	51	1	0	0	0	0	0	0	0	1	6624	813	29	2		2	GPR108	19	6731511	Silent	SNP	C	TCGA-AK-3460-01A-02D-1361-10	1110137	6731511	52397472	66	2959											
PPP1R15A	23645	hgsc.bcm.edu	37	chr19	49377208	49377208	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggataaaagaacagaaagaAgtaaaggagccaggaagacc	22	2	12	5	0	0	4	0	0	0	4	0	7	0	7	2	3	2	1	2	3	8	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	49377208	A	G	49377208	3	3	51	1	0	0	0	0	1	0	0	0	12365	72	3	3	720	3	PPP1R15A	19	49377208	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	42645697	49377208	9751775	67	2960											
MYH14	79784	hgsc.bcm.edu	37	chr19	50813031	50813033	+	In_Frame_Del	DEL	CAG	CAG	-																															ggagcctgaggggtccccacCagcccacccccagtgaccct																								novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		-	50813033	CAG	-	50813031	7	5	51	1	0	1	0	1	0	0	0	0	10033	594	21	0	6261	0	MYH14	19	50813031	In_Frame_Del	DEL	CAG	TCGA-AK-3460-01A-02D-1361-10	1435823	50813031	8315952	68	2961											
PHACTR3	116154	hgsc.bcm.edu	37	chr20	58322874	58322874	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcaagaaggggctgctGgagatgatggagcagggtaa	12	7	16	6	0	2	3	2	1	0	2	2	5	2	4	0	5	2	4	0	5	3	1	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		A	58322874	G	A	58322874	2	1	51	1	0	0	0	0	0	0	0	1	11811	1335	47	2		2	PHACTR3	20	58322874	Silent	SNP	G	TCGA-AK-3460-01A-02D-1361-10		58322874	4702646	69	2962											
WDR13	64743	hgsc.bcm.edu;ucsc.edu	37	chrX	48462751	48462751	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatcttctgtcccctcAtgtccttccgccagggggcc	4	10	10	17	1	3	0	1	0	2	0	6	0	6	0	6	2	1	2	6	2	0	2	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		C	48462751	A	C	48462751	3	2	51	1	0	0	0	0	1	0	0	0	17274	217	8	5	1276	5	WDR13	23	48462751	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10		48462751	106807809	70	2963											
RPS6KA6	27330	hgsc.bcm.edu;ucsc.edu	37	chrX	83320077	83320077	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatatttgttcagcagtatAccgctgatgtgggtccatat	10	15	9	7	1	1	1	1	1	0	0	2	1	2	1	2	1	2	4	2	1	5	7	novel		TCGA-AK-3460-01A-02D-1361-10	TCGA-AK-3460-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	bcd65e5d-a076-4c08-994a-78979a212d5b	40b5509c-dc6b-4999-a1ff-8218cdb5e9e2		G	83320077	A	G	83320077	3	3	51	1	0	0	0	0	1	0	0	0	13657	391	14	3	231	3	RPS6KA6	23	83320077	Missense_Mutation	SNP	A	TCGA-AK-3460-01A-02D-1361-10	34857326	83320077	71950483	71	2964											
RCC2	55920	hgsc.bcm.edu	37	chr1	17743003	17743003	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcgccacaggccacgtcTcgtacaaccacgtttggtac	9	9	9	14	4	1	0	0	0	1	0	2	0	1	0	3	2	4	3	3	2	4	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	17743003	T	A	17743003	2	1	52	1	0	0	0	0	0	0	0	1	13176	1538	54	5		5	RCC2	1	17743003	Silent	SNP	T	TCGA-AK-3461-01A-02D-1361-10		17743003	231507618	1	2965											
C1orf216	127703	hgsc.bcm.edu;ucsc.edu	37	chr1	36181451	36181451	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcctgctctttgtagcgctCctggacttgtaagtgctgca	5	14	10	12	1	1	0	0	0	1	0	3	1	3	1	2	1	4	6	2	1	2	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	36181451	C	T	36181451	3	4	52	1	0	0	0	0	1	0	0	0	2031	864	30	2	221	2	C1orf216	1	36181451	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10	18438448	36181451	213069170	2	2966											
ZC3H12A	80149	hgsc.bcm.edu	37	chr1	37949076	37949076	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccaaggagcaggccaGcgtgtatactaagctgtgtg	9	8	14	10	1	0	0	0	0	0	0	0	1	0	1	3	3	4	3	3	3	4	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	37949076	G	C	37949076	3	2	52	1	0	0	0	0	1	0	0	0	17560	971	34	4	1682	4	ZC3H12A	1	37949076	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	1767625	37949076	211301545	3	2967											
STXBP3	6814	hgsc.bcm.edu	37	chr1	109325070	109325070	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagatggaaaagaaaaggAggccatccttgaagaagaag	20	4	12	5	0	0	5	0	1	0	4	1	7	1	7	2	3	1	0	2	3	8	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	109325070	A	G	109325070	3	3	52	1	0	0	0	0	1	0	0	0	15355	304	11	3	874	3	STXBP3	1	109325070	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10	71375994	109325070	139925551	4	2968											
TLR5	7100	hgsc.bcm.edu;ucsc.edu	37	chr1	223284977	223284977	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctctgaaggggtttgaTctccactacaggaggagaag	11	10	13	7	0	2	3	0	2	2	1	4	6	2	4	1	4	1	1	1	4	3	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	223284977	T	C	223284977	3	2	52	1	0	0	0	0	1	0	0	0	15953	1435	50	3	1183	3	TLR5	1	223284977	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	113959907	223284977	25965644	5	2969											
GREB1	9687	hgsc.bcm.edu	37	chr2	11777871	11777871	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactctgccgcggtcgtgccGgcccagtacatctgtgcccc	5	8	11	17	4	2	0	0	0	2	0	3	0	2	0	5	2	5	1	5	2	2	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	11777871	G	A	11777871	2	1	52	1	0	0	0	0	0	0	0	1	6760	1103	39	1		1	GREB1	2	11777871	Silent	SNP	G	TCGA-AK-3461-01A-02D-1361-10		11777871	231421502	6	2970											
UGP2	7360	hgsc.bcm.edu;ucsc.edu	37	chr2	64083539	64083539	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaactagaaaaaatacTcaccacagcatcatcacatg	19	6	6	10	0	3	1	3	0	0	1	3	3	3	2	1	1	3	1	1	1	7	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	64083539	T	C	64083539	3	2	52	1	0	0	0	0	1	0	0	0	16942	1551	54	3	125	3	UGP2	2	64083539	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	52305668	64083539	179115834	7	2971											
AOX1	316	hgsc.bcm.edu	37	chr2	201474078	201474078	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcattagcaggcatccagAttcagatctgaatcccatcc	12	10	6	13	0	3	3	2	1	1	2	6	3	6	3	3	1	1	2	3	1	2	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	201474078	A	C	201474078	3	2	52	1	0	0	0	0	1	0	0	0	729	333	12	5	1140	5	AOX1	2	201474078	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10	137390539	201474078	41725295	8	2972											
TRIP12	9320	hgsc.bcm.edu	37	chr2	230675716	230675716	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtcactaccaacagctgttGaacatttgtaagcagatctt	13	12	7	9	0	2	2	1	1	1	1	2	2	2	2	1	0	5	4	1	0	4	5	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	230675716	G	A	230675716	4	1	52	1	0	0	0	0	0	1	0	0	16555	1299	45	2	4133	2	TRIP12	2	230675716	Nonsense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	29201638	230675716	12523657	9	2973											
EFHD1	80303	hgsc.bcm.edu	37	chr2	233527579	233527579	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatgatggagaagctggggGccccccagacccacctgggc	8	5	15	13	0	0	4	0	2	0	2	0	5	0	4	5	4	1	1	5	4	1	0	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	233527579	G	A	233527579	3	1	52	1	0	0	0	0	1	0	0	0	4948	1203	42	2	376	2	EFHD1	2	233527579	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	2851863	233527579	9671794	10	2974											
ANKRD28	23243	hgsc.bcm.edu	37	chr3	15755032	15755032	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacacctcggtaagtacttActttgcagtgtcagcaccac	11	10	7	13	1	1	0	1	0	0	0	2	0	1	0	2	1	5	4	2	1	4	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	15755032	A	G	15755032	5	3	52	1	0	0	0	0	0	0	1	0	656	405	14	3	2135	3	ANKRD28	3	15755032	Splice_Site	SNP	A	TCGA-AK-3461-01A-02D-1361-10		15755032	182267398	11	2975											
DNAH12	201625	hgsc.bcm.edu	37	chr3	57389197	57389197	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	accagattgctttagaactcGacatattcttgataaatgtt	13	15	6	7	1	1	3	0	1	1	2	2	4	1	3	1	0	2	2	1	0	5	8	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	57389197	G	C	57389197	3	2	52	1	0	0	0	0	1	0	0	0	4600	1066	37	4	2616	4	DNAH12	3	57389197	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	41634165	57389197	140633233	12	2976											
PVRL3	25945	hgsc.bcm.edu	37	chr3	110831084	110831084	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatcagggaagagtcttgtTtaaaaattactcacttaatg	15	14	7	5	0	3	1	2	0	1	1	3	2	3	2	0	1	1	1	0	1	7	6	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	110831084	T	C	110831084	3	2	52	1	0	0	0	0	1	0	0	0	12843	1841	64	3	374	3	PVRL3	3	110831084	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	53441887	110831084	87191346	13	2977											
KALRN	8997	hgsc.bcm.edu	37	chr3	124369683	124369683	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaagctcataccgggggaGcttgaaagaccctgcaggct	11	6	14	10	1	1	2	1	1	0	1	1	4	1	4	2	4	4	4	2	4	3	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	124369683	G	C	124369683	3	2	52	1	0	0	0	0	1	0	0	0	7975	971	34	4	5996	4	KALRN	3	124369683	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	13538599	124369683	73652747	14	2978											
MED12L	116931	hgsc.bcm.edu	37	chr3	151134118	151134118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agatgcagcagccccagcagCcccagccccagcagcctccc	9	2	9	21	0	0	1	0	0	0	1	1	1	1	1	8	0	8	4	8	0	0	0	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	151134118	C	T	151134118	3	4	52	1	0	0	0	0	1	0	0	0	9429	739	26	2	6373	2	MED12L	3	151134118	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10	26764435	151134118	46888312	15	2979											
LRRC66	339977	hgsc.bcm.edu;ucsc.edu	37	chr4	52862202	52862202	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagtagaaatgcccgtgTgccttcctccctggggcctc	6	9	11	15	1	0	2	0	0	0	2	3	2	2	2	6	2	2	1	6	2	2	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	52862202	T	G	52862202	3	3	52	1	0	0	0	0	1	0	0	0	9018	1696	59	5	1660	5	LRRC66	4	52862202	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10		52862202	138292074	16	2980											
SLC4A4	8671	hgsc.bcm.edu	37	chr4	72423512	72423512	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatgttcctctgcgcagAgtccacctgttcactttcct	5	14	7	15	2	3	1	2	0	1	1	6	1	6	1	4	0	1	3	4	0	0	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	72423512	A	T	72423512	3	4	52	1	0	0	0	0	1	0	0	0	14658	301	11	5	3050	5	SLC4A4	4	72423512	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10	19561310	72423512	118730764	17	2981											
SYNPO2	171024	hgsc.bcm.edu	37	chr4	119948178	119948178	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtggccctttagtggctctCccgggagctgaaaaatctaa	10	10	11	10	1	2	1	0	1	2	0	3	2	2	2	2	3	1	2	2	3	4	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	119948178	C	T	119948178	2	4	52	1	0	0	0	0	0	0	0	1	15456	842	30	2		2	SYNPO2	4	119948178	Silent	SNP	C	TCGA-AK-3461-01A-02D-1361-10	47524666	119948178	71206098	18	2982											
FAM105A	54491	hgsc.bcm.edu	37	chr5	14602319	14602319	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctattttggcggcatCacattaaatgtgttcgacaa	12	12	10	7	2	1	0	1	0	0	0	2	2	1	1	0	3	1	3	0	3	4	5	rs144733724		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	14602319	C	A	14602319	3	1	52	1	0	0	0	0	1	0	0	0	5387	826	29	4	394	4	FAM105A	5	14602319	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10		14602319	166312941	19	2983											
NIPBL	25836	hgsc.bcm.edu	37	chr5	37051934	37051934	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagaacctgctatgcggaaCaaggctgatcagcaacttgt	12	8	10	11	1	1	2	1	1	0	1	1	3	1	3	2	2	6	3	2	2	5	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	37051934	C	T	37051934	2	4	52	1	0	0	0	0	0	0	0	1	10428	477	17	2		2	NIPBL	5	37051934	Silent	SNP	C	TCGA-AK-3461-01A-02D-1361-10	22449615	37051934	143863326	20	2984											
DNAH8	1769	hgsc.bcm.edu;ucsc.edu	37	chr6	38997960	38997960	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagctcatggaatccacccCcaaggtactcttcacgcagt	11	8	8	14	1	3	0	2	0	1	0	4	2	4	1	3	2	2	3	3	2	4	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	38997960	C	T	38997960	3	4	52	1	0	0	0	0	1	0	0	0	4607	623	22	2	13619	2	DNAH8	6	38997960	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10		38997960	132117107	21	2985											
DPY19L1	23333	hgsc.bcm.edu	37	chr7	35057542	35057542	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaatgttgagaggtgagaAaaatgacggtcattttcaaa	15	11	10	5	1	2	3	2	3	0	2	3	5	3	3	1	2	0	1	1	2	4	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	35057542	A	C	35057542	3	2	52	1	0	0	0	0	1	0	0	0	4740	11	1	5	1963	5	DPY19L1	7	35057542	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10		35057542	124081121	22	2986											
GUSB	2990	hgsc.bcm.edu;ucsc.edu	37	chr7	65441161	65441161	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgaacaggttactgccCttgacagagatctggtaatt	12	12	9	8	0	1	3	0	2	1	1	1	4	1	3	1	2	4	2	1	2	4	5	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	65441161	C	T	65441161	2	4	52	1	0	0	0	0	0	0	0	1	6902	680	24	2		2	GUSB	7	65441161	Silent	SNP	C	TCGA-AK-3461-01A-02D-1361-10	30383619	65441161	93697502	23	2987											
COPS6	10980	hgsc.bcm.edu;ucsc.edu	37	chr7	99689085	99689086	+	Frame_Shift_Del	DEL	CT	CT	-																															gatcctgcgggaggcctatgCtctgtgtcactgtctcccgg																								novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		-	99689086	CT	-	99689085	7	5	52	1	0	1	0	1	0	0	0	0	3737	797	28	0	819	0	COPS6	7	99689085	Frame_Shift_Del	DEL	CT	TCGA-AK-3461-01A-02D-1361-10	34247924	99689085	59449578	24	2988											
CNOT4	4850	hgsc.bcm.edu;ucsc.edu	37	chr7	135095315	135095315	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttatttttatcaactgaAcccgtagatagctgaagaaa	14	14	6	7	1	2	4	1	2	1	2	2	4	2	4	1	0	3	2	1	0	8	7	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	135095315	A	T	135095315	2	4	52	1	0	0	0	0	0	0	0	1	3621	30	2	5		5	CNOT4	7	135095315	Silent	SNP	A	TCGA-AK-3461-01A-02D-1361-10	35406230	135095315	24043348	25	2989											
SSPO	23145	hgsc.bcm.edu;ucsc.edu	37	chr7	149502986	149502986	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcttcctggcagtgccAagcatctggggtctgtgggc	4	10	16	11	0	3	0	0	0	3	0	4	0	4	0	2	5	2	3	2	5	1	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	149502986	A	G	149502986	2	3	52	1	0	0	0	0	0	0	0	1	15190	117	5	3		3	SSPO	7	149502986	Silent	SNP	A	TCGA-AK-3461-01A-02D-1361-10	14407671	149502986	9635677	26	2990											
AGPAT5	55326	hgsc.bcm.edu	37	chr8	6588326	6588326	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggttaaaatggctgccattGtatgggtgttactttgctca	8	15	12	6	0	1	0	1	0	0	0	1	0	1	0	1	3	3	5	1	3	4	5	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	6588326	G	T	6588326	3	4	52	1	0	0	0	0	1	0	0	0	390	1368	48	4	394	4	AGPAT5	8	6588326	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10		6588326	139775696	27	2991											
ZFYVE27	118813	hgsc.bcm.edu	37	chr10	99510142	99510142	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaacccaaagcaggaagAgcatgcctttgagagtcctc	13	7	11	10	0	0	3	0	2	0	2	2	6	1	4	3	1	4	2	3	1	3	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	99510142	A	T	99510142	3	4	52	1	0	0	0	0	1	0	0	0	17668	304	11	5	741	5	ZFYVE27	10	99510142	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10		99510142	36024605	28	2992											
BTRC	8945	hgsc.bcm.edu	37	chr10	103294568	103294568	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcctccccaactgacatTaccctccggagggtgctggt	7	9	11	14	1	0	1	0	1	0	0	2	2	2	2	5	4	3	1	5	4	2	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	103294568	T	G	103294568	3	3	52	1	0	0	0	0	1	0	0	0	1569	1742	61	5	1286	5	BTRC	10	103294568	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	3784426	103294568	32240179	29	2993											
PCNXL3	399909	hgsc.bcm.edu	37	chr11	65384727	65384727	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcaccgccagggacccCggagtggagatgacagtgtt	8	10	13	10	2	1	2	1	1	0	1	1	5	1	4	4	3	0	1	4	3	0	3	rs12790427	bycluster;byfrequency;by1000genomes	TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	65384727	C	T	65384727	2	4	52	1	0	0	0	0	0	0	0	1	11593	639	23	1		1	PCNXL3	11	65384727	Silent	SNP	C	TCGA-AK-3461-01A-02D-1361-10		65384727	69621789	30	2994											
ALDH3B2	222	hgsc.bcm.edu;ucsc.edu	37	chr11	67431199	67431199	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattgcctccaaagctgcCgctgctggtccgctccagca	6	9	9	17	2	1	0	1	0	0	0	4	0	4	0	5	1	5	5	5	1	1	1	rs180859869	by1000genomes	TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	67431199	C	T	67431199	3	4	52	1	0	0	0	0	1	0	0	0	500	652	23	1	258	1	ALDH3B2	11	67431199	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10	2046472	67431199	67575317	31	2995											
TMEM45B	120224	hgsc.bcm.edu	37	chr11	129728512	129728512	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggaaggggagaaatcattGgaattcagaagctgaattca	16	8	12	5	1	3	3	3	1	0	2	3	6	3	5	0	4	1	1	0	4	5	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	129728512	G	A	129728512	3	1	52	1	0	0	0	0	1	0	0	0	16169	1349	47	2	778	2	TMEM45B	11	129728512	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	62297313	129728512	5278004	32	2996											
NR2C1	7181	hgsc.bcm.edu	37	chr12	95445694	95445694	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaccacattggccaatgtaCttaaatctccctgacatgat	13	12	5	11	0	1	2	0	2	1	0	2	2	1	2	3	1	2	1	3	1	5	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	95445694	C	A	95445694	3	1	52	1	0	0	0	0	1	0	0	0	10622	565	20	4	1108	4	NR2C1	12	95445694	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10		95445694	38406201	33	2997											
GLT8D2	83468	hgsc.bcm.edu	37	chr12	104387233	104387233	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatgaaacacaatcagcaTtggggaggtggccacccctc	11	6	10	14	0	1	1	1	1	0	0	2	2	1	2	4	4	2	1	4	4	2	1	rs145520946	bycluster;byfrequency;by1000genomes	TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	104387233	T	C	104387233	3	2	52	1	0	0	0	0	1	0	0	0	6470	1493	52	3	240	3	GLT8D2	12	104387233	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	8941539	104387233	29464662	34	2998											
TEP1	7011	hgsc.bcm.edu	37	chr14	20864870	20864870	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttccgaagcatggccatGaagggaagcttcccattttc	10	10	11	10	1	0	1	0	1	0	0	3	3	2	2	3	3	2	3	3	3	3	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	20864870	G	T	20864870	3	4	52	1	0	0	0	0	1	0	0	0	15758	1281	45	4	6498	4	TEP1	14	20864870	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10		20864870	86484670	35	2999											
FANCM	57697	hgsc.bcm.edu	37	chr14	45658098	45658098	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtgaagaagaagtttgtGttgattttaacttaataact	15	15	8	3	0	0	4	0	2	0	2	0	4	0	4	0	0	2	2	0	0	7	6	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	45658098	G	T	45658098	3	4	52	1	0	0	0	0	1	0	0	0	5671	1377	48	4	4951	4	FANCM	14	45658098	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	24793228	45658098	61691442	36	3000											
ONECUT1	3175	hgsc.bcm.edu	37	chr15	53049880	53049880	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgacagtgctcagctccaAccccagctgctgggaaatgg	9	7	12	13	0	1	1	1	1	0	0	2	2	2	2	3	2	5	5	3	2	2	0	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	53049880	A	T	53049880	3	4	52	1	0	0	0	0	1	0	0	0	10868	40	2	5	131	5	ONECUT1	15	53049880	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10		53049880	49481512	37	3001											
SPG21	51324	hgsc.bcm.edu;ucsc.edu	37	chr15	65266968	65266968	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccaagtttggttgaagaTagaggtgtcactgaaggaat	13	11	13	4	0	1	4	1	2	0	2	2	5	2	5	1	3	0	2	1	3	5	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	65266968	T	C	65266968	3	2	52	1	0	0	0	0	1	0	0	0	15044	1406	49	3	522	3	SPG21	15	65266968	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	12217088	65266968	37264424	38	3002											
SIN3A	25942	hgsc.bcm.edu	37	chr15	75702579	75702579	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacacctcctgctctgtcaAtgctggagtgtagtttcctc	7	14	8	12	0	2	0	1	0	1	0	5	1	4	1	3	1	3	4	3	1	3	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	75702579	A	G	75702579	2	3	52	1	0	0	0	0	0	0	0	1	14327	98	4	3		3	SIN3A	15	75702579	Silent	SNP	A	TCGA-AK-3461-01A-02D-1361-10	10435611	75702579	26828813	39	3003											
OTOA	146183	hgsc.bcm.edu	37	chr16	21712268	21712268	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggacatggtctatgacatCacacctgagctggcccaggc	9	8	11	13	0	2	2	1	2	1	0	2	3	2	3	2	4	1	1	2	4	1	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	21712268	C	G	21712268	3	3	52	1	0	0	0	0	1	0	0	0	11302	816	29	4	972	4	OTOA	16	21712268	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10		21712268	68642485	40	3004											
CSNK2A2	1459	hgsc.bcm.edu;ucsc.edu	37	chr16	58220677	58220677	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacggggtcctttacagtGtcaatcagcttaatgatatt	11	13	8	9	1	2	1	2	1	0	0	3	1	3	1	2	2	2	1	2	2	4	5	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	58220677	G	C	58220677	3	2	52	1	0	0	0	0	1	0	0	0	3958	1368	48	4	788	4	CSNK2A2	16	58220677	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	36508409	58220677	32134076	41	3005											
USP10	9100	hgsc.bcm.edu	37	chr16	84773939	84773939	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctccatacagtggaacagttCtgtgtggcacacaggctgtg	9	10	12	10	0	1	0	0	0	1	0	2	1	2	1	1	3	2	3	1	3	2	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	84773939	C	G	84773939	3	3	52	1	0	0	0	0	1	0	0	0	17040	912	32	4	125	4	USP10	16	84773939	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10	26553262	84773939	5580814	42	3006											
UBTF	7343	hgsc.bcm.edu	37	chr17	42286826	42286826	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctgccagcgactgccgAtctccaccatgcgctccttc	5	9	9	18	4	1	0	0	0	1	0	4	2	2	0	5	0	5	2	5	0	0	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	42286826	A	G	42286826	3	3	52	1	0	0	0	0	1	0	0	0	16908	333	12	3	515	3	UBTF	17	42286826	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10		42286826	38908384	43	3007											
PPP1R9B	84687	hgsc.bcm.edu	37	chr17	48226734	48226734	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgagaagtcctccttcttgGattcatctacctcctcaggg	7	12	8	14	1	4	1	2	0	2	1	7	3	7	2	5	2	1	0	5	2	2	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	48226734	G	T	48226734	3	4	52	1	0	0	0	0	1	0	0	0	12381	1174	41	4	1348	4	PPP1R9B	17	48226734	Missense_Mutation	SNP	G	TCGA-AK-3461-01A-02D-1361-10	5939908	48226734	32968476	44	3008											
ABCC3	8714	hgsc.bcm.edu	37	chr17	48735824	48735824	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgagaccagcgctggctTtctctcccgcctgtttttct	3	14	8	16	2	2	1	0	1	2	1	4	2	3	1	4	1	1	3	4	1	0	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	48735824	T	C	48735824	3	2	52	1	0	0	0	0	1	0	0	0	54	1841	64	3	663	3	ABCC3	17	48735824	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	509090	48735824	32459386	45	3009											
TGIF1	7050	hgsc.bcm.edu	37	chr18	3447755	3447755	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatatgacttgctcgggcaaAagttgtgcattggcccgatc	9	11	12	9	2	0	1	0	1	0	0	2	3	0	1	1	2	2	4	1	2	3	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		C	3447755	A	C	3447755	3	2	52	1	0	0	0	0	1	0	0	0	15824	11	1	5	20	5	TGIF1	18	3447755	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10		3447755	74629493	46	3010											
SH3GL1	6455	hgsc.bcm.edu	37	chr19	4363420	4363420	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atctgcacggcctgccggtgGtagtccagctgtgcatccac	6	9	12	14	2	1	0	0	0	1	0	3	0	3	0	4	3	4	4	4	3	1	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	4363420	G	A	4363420	2	1	52	1	0	0	0	0	0	0	0	1	14252	1256	44	2		2	SH3GL1	19	4363420	Silent	SNP	G	TCGA-AK-3461-01A-02D-1361-10		4363420	54765563	47	3011											
ATP1A3	478	hgsc.bcm.edu;ucsc.edu	37	chr19	42473672	42473672	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaggttgccgggcaagAagccattttctgccaggatc	9	8	11	13	1	1	1	0	0	1	1	2	2	1	2	5	3	3	2	5	3	2	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	42473672	A	G	42473672	3	3	52	1	0	0	0	0	1	0	0	0	1130	246	9	3	458	3	ATP1A3	19	42473672	Missense_Mutation	SNP	A	TCGA-AK-3461-01A-02D-1361-10	38110252	42473672	16655311	48	3012											
BCAM	4059	hgsc.bcm.edu	37	chr19	45322915	45322915	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcctgctcctcgtcgtTgctgtcttctactgcgtgag	2	14	11	14	3	2	1	0	1	2	0	6	1	4	1	3	1	4	3	3	1	1	3	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	45322915	T	A	45322915	2	1	52	1	0	0	0	0	0	0	0	1	1344	1799	63	5		5	BCAM	19	45322915	Silent	SNP	T	TCGA-AK-3461-01A-02D-1361-10	2849243	45322915	13806068	49	3013											
HIF3A	64344	hgsc.bcm.edu	37	chr19	46828841	46828841	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgagaatgtgcacagacTcttcacctccgggaaagaca	13	6	9	13	2	2	3	1	0	1	3	3	5	3	4	3	1	1	1	3	1	2	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	46828841	T	A	46828841	3	1	52	1	0	0	0	0	1	0	0	0	7105	1551	54	5	1451	5	HIF3A	19	46828841	Missense_Mutation	SNP	T	TCGA-AK-3461-01A-02D-1361-10	1505926	46828841	12300142	50	3014											
CARD8	22900	hgsc.bcm.edu	37	chr19	48715114	48715114	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtgtcttttcctgctcCaccagctccttctcattctc	3	16	5	17	1	3	0	1	0	3	0	8	0	6	0	5	0	3	2	5	0	0	4	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		A	48715114	C	A	48715114	2	1	52	1	0	0	0	0	0	0	0	1	2651	581	21	4		4	CARD8	19	48715114	Silent	SNP	C	TCGA-AK-3461-01A-02D-1361-10	1886273	48715114	10413869	51	3015											
ZNFX1	57169	hgsc.bcm.edu	37	chr20	47886860	47886860	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaagagtcagagggctggaCctctgctagcagctgttggc	9	8	15	9	0	2	2	1	0	1	2	2	4	2	3	1	3	3	5	1	3	2	2	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		T	47886860	C	T	47886860	3	4	52	1	0	0	0	0	1	0	0	0	18204	507	18	2	4315	2	ZNFX1	20	47886860	Missense_Mutation	SNP	C	TCGA-AK-3461-01A-02D-1361-10		47886860	15138660	52	3016											
MICAL3	57553	hgsc.bcm.edu	37	chr22	18304890	18304890	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcagctgggcacggcaaAcgcagctctctgtcagcatc	8	7	10	16	2	3	0	2	0	1	0	5	0	3	0	1	2	4	6	1	2	1	0	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	18304890	A	G	18304890	2	3	52	1	0	0	0	0	0	0	0	1	9571	30	2	3		3	MICAL3	22	18304890	Silent	SNP	A	TCGA-AK-3461-01A-02D-1361-10		18304890	32999676	53	3017											
GTSE1	51512	hgsc.bcm.edu	37	chr22	46719127	46719127	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccaaagctttcgcgggcAcagcggccgcagtcgtgcac	9	5	12	15	5	0	0	0	0	0	0	2	0	0	0	2	2	3	4	2	2	1	1	novel		TCGA-AK-3461-01A-02D-1361-10	TCGA-AK-3461-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d173f94f-7c73-4d87-a536-9bb8fea88017	1db1d58a-85dc-4471-9c76-9e5d6d46aba7		G	46719127	A	G	46719127	2	3	52	1	0	0	0	0	0	0	0	1	6885	146	6	3		3	GTSE1	22	46719127	Silent	SNP	A	TCGA-AK-3461-01A-02D-1361-10	28414237	46719127	4585439	54	3018											
ZMYM4	9202	broad.mit.edu	37	chr1	35836039	35836039	+	Nonsense_Mutation	SNP	C	A	A																															catgaataaaatgcttccttCagttccagccacagctgttc																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	35836039	A	A	35836039	4	1	53	1	0	0	0	0	0	1	0	0	17701	838	29	4	1018	4	ZMYM4	1	35836039	Nonsense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08		35836039	213414582	1	3019	40	2									
ZMYM4	9202	broad.mit.edu;hgsc.bcm.edu	37	chr1	35836041	35836041	+	Missense_Mutation	SNP	G	G	T																															tgaataaaatgcttccttcaGttccagccacagctgttcga																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	35836041	G	T	35836041	3	4	53	1	0	0	0	0	1	0	0	0	17701	1029	36	4	1020	4	ZMYM4	1	35836041	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	2	35836041	213414580	2	3020	40	2									
THRAP3	9967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36755101	36755101	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaggagctggaggaggagtCtttcccagagagatccaaaa	14	6	14	7	0	1	3	0	0	1	3	3	8	3	7	2	4	1	1	2	4	2	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	36755101	C	T	36755101	3	4	53	1	0	0	0	0	1	0	0	0	15873	913	32	2	1491	2	THRAP3	1	36755101	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	919060	36755101	212495520	3	3021											
SARS	6301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109772058	109772058	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaaagtctcacaaatcaAaaaagtccgactcctcattg	15	9	5	12	1	3	1	3	1	1	0	6	2	5	1	3	0	0	0	3	0	5	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	109772058	A	G	109772058	3	3	53	1	0	0	0	0	1	0	0	0	13846	14	1	3	325	3	SARS	1	109772058	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	73016957	109772058	139478563	4	3022											
RUSC1	23623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155300229	155300229	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgatcacactgctgcaaGacctgaccagttgagcttcc	9	10	9	13	0	1	4	1	3	0	1	2	4	2	4	3	0	3	4	3	0	1	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	155300229	G	T	155300229	3	4	53	1	0	0	0	0	1	0	0	0	13752	942	33	4	2741	4	RUSC1	1	155300229	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	45528171	155300229	93950392	5	3023											
ZBTB41	360023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197168567	197168567	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccactggagttaaccccTcatgaacatttcctacagaa	13	10	6	12	0	1	3	1	2	0	1	2	4	2	4	4	1	3	1	4	1	4	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	197168567	T	C	197168567	3	2	53	1	0	0	0	0	1	0	0	0	17542	1551	54	3	1732	3	ZBTB41	1	197168567	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	41868338	197168567	52082054	6	3024											
PPP1R15B	84919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204378920	204378920	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactagattcccagtcatcTtcctccccagaactatgctc	9	11	5	16	0	2	2	1	0	1	2	6	2	5	2	4	0	2	2	4	0	3	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	204378920	T	A	204378920	3	1	53	1	0	0	0	0	1	0	0	0	12366	1606	56	5	529	5	PPP1R15B	1	204378920	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	7210353	204378920	44871701	7	3025											
ITPKB	3707	broad.mit.edu;hgsc.bcm.edu	37	chr1	226834969	226834969	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccttcaccacatccccatgGtaggcaggtacgaagggcct	9	8	10	14	1	1	0	1	0	0	0	3	1	3	0	5	4	1	3	5	4	3	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	226834969	G	A	226834969	2	1	53	1	0	0	0	0	0	0	0	1	7918	1256	44	2		2	ITPKB	1	226834969	Silent	SNP	G	TCGA-AS-3778-01A-01D-0966-08	22456049	226834969	22415652	8	3026											
EHD3	30845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	31484489	31484489	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggacaacaagaagaaggaGctggtcaacaacctggccga	17	3	12	9	1	1	2	1	0	0	2	1	5	1	4	2	4	4	1	2	4	7	0	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	31484489	G	A	31484489	2	1	53	1	0	0	0	0	0	0	0	1	4979	962	34	2		2	EHD3	2	31484489	Silent	SNP	G	TCGA-AS-3778-01A-01D-0966-08		31484489	211714884	9	3027											
CTNNA2	1496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	80136837	80136837	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgactcctcctgcacgCgagacgaccggcgcgagagg	7	4	15	15	7	0	2	0	0	0	2	2	6	2	2	4	3	1	1	4	3	0	0	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	80136837	C	A	80136837	2	1	53	1	0	0	0	0	0	0	0	1	4013	760	27	4		4	CTNNA2	2	80136837	Silent	SNP	C	TCGA-AS-3778-01A-01D-0966-08	48652348	80136837	163062536	10	3028											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188268	10188269	+	Frame_Shift_Ins	INS	-	-	C																															accaaactgaattatttgtgINSccatctctcaatgttgacgg																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	10188269	-	C	10188268	7	5	53	1	0	1	1	0	0	0	0	0	17161	1306	46	0	417	0	VHL	3	10188268	Frame_Shift_Ins	INS	-	TCGA-AS-3778-01A-01D-0966-08		10188268	187834162	11	3029											
XPC	7508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	14200007	14200007	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagggccaggttcggaaTcctcatcagagggatcagag	10	8	15	8	1	3	2	3	0	0	2	5	5	4	5	2	5	0	1	2	5	1	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	14200007	T	A	14200007	3	1	53	1	0	0	0	0	1	0	0	0	17440	1435	50	5		5	XPC	3	14200007	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	4011739	14200007	183822423	12	3030											
STAG1	10274	hgsc.bcm.edu;ucsc.edu	37	chr3	136141378	136141379	+	Frame_Shift_Del	DEL	AC	AC	-																															cataagatactataggttttActgcaggcttctagaacatc																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	136141379	AC	-	136141378	7	5	53	1	0	1	0	1	0	0	0	0	15243	388	14	0	1929	0	STAG1	3	136141378	Frame_Shift_Del	DEL	AC	TCGA-AS-3778-01A-01D-0966-08	121941371	136141378	61881052	13	3031											
BCHE	590	hgsc.bcm.edu;ucsc.edu	37	chr3	165547909	165547915	+	Frame_Shift_Del	DEL	CTTCATT	CTTCATT	-																															cccataggggacaacaaatgCttcattcagaagaatttctt																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	CTTCATT	CTTCATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	165547915	CTTCATT	-	165547909	7	5	53	1	0	1	0	1	0	0	0	0	1358	797	28	0	907	0	BCHE	3	165547909	Frame_Shift_Del	DEL	CTTCATT	TCGA-AS-3778-01A-01D-0966-08	29406531	165547909	32474521	14	3032											
PCDHB7	56129	broad.mit.edu;hgsc.bcm.edu	37	chr5	140554161	140554161	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccccgggcggccgagcCgggctacctggtgaccaagg	5	5	17	14	4	0	1	0	1	0	0	0	2	0	1	6	5	3	2	6	5	2	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	140554161	C	T	140554161	3	4	53	1	0	0	0	0	1	0	0	0	11547	652	23	1	1747	1	PCDHB7	5	140554161	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08		140554161	40361099	15	3033											
GPR115	221393	hgsc.bcm.edu;ucsc.edu	37	chr6	47680115	47680115	+	Frame_Shift_Del	DEL	T	T	-																															ctcaactggtgcatctcgccTttctgtagcagcaccatcta																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	47680115	T	-	47680115	7	5	53	1	0	1	0	1	0	0	0	0	6632	1609	56	0	337	0	GPR115	6	47680115	Frame_Shift_Del	DEL	T	TCGA-AS-3778-01A-01D-0966-08		47680115	123434952	16	3034											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51935825	51935825	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtagtcgccttccacatGgcactgcagagtcccaagac	10	8	10	13	1	0	2	0	0	0	2	3	3	2	2	3	1	1	3	3	1	2	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	51935825	G	T	51935825	3	4	53	1	0	0	0	0	1	0	0	0	11971	1348	47	4	11853	4	PKHD1	6	51935825	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	4255710	51935825	119179242	17	3035											
TBX18	9096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	85447027	85447027	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggtgttgggccccagatgGaaggcaggagaggagcaaga	11	5	18	7	0	0	3	0	0	0	3	0	6	0	5	2	6	1	3	2	6	2	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	85447027	G	T	85447027	3	4	53	1	0	0	0	0	1	0	0	0	15652	1165	41	4	627	4	TBX18	6	85447027	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	33511202	85447027	85668040	18	3036											
RAET1G	353091	broad.mit.edu;hgsc.bcm.edu	37	chr6	150240312	150240312	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacttttctttcatcttTctggctccaggatgaaccgt	6	16	6	13	1	4	1	1	1	3	0	6	2	6	2	3	2	1	1	3	2	1	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	150240312	T	A	150240312	3	1	53	1	0	0	0	0	1	0	0	0	13002	1780	62	5	518	5	RAET1G	6	150240312	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	64793285	150240312	20874755	19	3037											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152711518	152711518	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctttgttgctacttctcaAggcctgttcccccttgccaa	5	16	6	14	0	2	0	1	0	2	0	4	0	3	0	4	1	3	3	4	1	3	7	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	152711518	A	T	152711518	3	4	53	1	0	0	0	0	1	0	0	0	15444	69	3	5	18768	5	SYNE1	6	152711518	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	2471206	152711518	18403549	20	3038											
MIOS	54468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	7636022	7636022	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcacaagttgtcctggCtgtcgaaaaccacttcctcg	11	10	8	12	2	1	0	1	0	0	0	5	1	3	0	3	1	1	2	3	1	4	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	7636022	C	T	7636022	2	4	53	1	0	0	0	0	0	0	0	1	9589	784	28	2		2	MIOS	7	7636022	Silent	SNP	C	TCGA-AS-3778-01A-01D-0966-08		7636022	151502641	21	3039											
DPY19L1	23333	broad.mit.edu;hgsc.bcm.edu	37	chr7	34981390	34981390	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttacctgtcttgagcagAtcagtgatgccataacacac	12	11	8	10	0	2	3	1	2	1	1	2	3	2	3	2	0	4	2	2	0	2	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	34981390	A	G	34981390	3	3	53	1	0	0	0	0	1	0	0	0	4740	333	12	3	590	3	DPY19L1	7	34981390	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	27345368	34981390	124157273	22	3040											
LMOD2	442721	broad.mit.edu	37	chr7	123302309	123302309	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttgaacaacattgagaaCatcacaacacagacccttac	18	8	4	11	0	1	3	1	2	0	2	1	4	1	3	1	0	5	0	1	0	6	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	123302309	A	A	123302309	3	1	53	1	0	0	0	0	1	0	0	0	8857	477	17	4	675	4	LMOD2	7	123302309	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	88320919	123302309	35836354	23	3041											
NOS3	4846	broad.mit.edu	37	chr7	150693876	150693876	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcccaggcccacgaacagCggcttcaagaggtggaagcc	10	4	13	14	2	1	1	1	0	0	1	2	3	2	2	3	4	3	2	3	4	3	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	150693876	A	A	150693876	2	1	53	1	0	0	0	0	0	0	0	1	10544	759	27	4		4	NOS3	7	150693876	Silent	SNP	C	TCGA-AS-3778-01A-01D-0966-08	27391567	150693876	8444787	24	3042											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	100887766	100887766	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaaataccatgccctgtgGtggctgcagaacctcccccc	8	8	9	16	0	0	1	0	0	0	1	1	1	1	1	6	2	5	3	6	2	3	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	100887766	G	T	100887766	3	4	53	1	0	0	0	0	1	0	0	0	17189	1261	44	4	12377	4	VPS13B	8	100887766	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08		100887766	45476256	25	3043											
PKHD1L1	93035	broad.mit.edu	37	chr8	110441591	110441591	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taatgattccaacattattgGagaaaaggctaatatgacag	17	11	8	5	0	0	3	0	2	0	1	1	4	1	3	1	2	1	1	1	2	7	6	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	110441591	T	T	110441591	3	4	53	1	0	0	0	0	1	0	0	0	11972	1174	41	4	3125	4	PKHD1L1	8	110441591	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	9553825	110441591	35922431	26	3044											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	114448936	114448936	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaccgtcaataaaaagaCgaggttccaaaacgtaaatc	19	6	7	9	3	1	2	1	0	0	2	3	3	2	2	2	1	1	2	2	1	8	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	114448936	C	A	114448936	3	1	53	1	0	0	0	0	1	0	0	0	3946	536	19	4	11321	4	CSMD3	8	114448936	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	4007345	114448936	31915086	27	3045											
LRRC19	64922	hgsc.bcm.edu	37	chr9	26998211	26998211	+	Frame_Shift_Del	DEL	T	T	-																															ctgctggaatcaaggtataaTttttttcagtaaaattacat																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	26998211	T	-	26998211	7	5	53	1	0	1	0	1	0	0	0	0	8975	1493	52	0	1014	0	LRRC19	9	26998211	Frame_Shift_Del	DEL	T	TCGA-AS-3778-01A-01D-0966-08		26998211	114215220	28	3046											
SVIL	6840	hgsc.bcm.edu;ucsc.edu	37	chr10	29762797	29762805	+	In_Frame_Del	DEL	CGTCATCAG	CGTCATCAG	-																															ctttcctcgtccagctccacCgtcatcagcgccgacgtgcc																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	CGTCATCAG	CGTCATCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	29762805	CGTCATCAG	-	29762797	7	5	53	1	0	1	0	1	0	0	0	0	15420	639	23	0	1181	0	SVIL	10	29762797	In_Frame_Del	DEL	CGTCATCAG	TCGA-AS-3778-01A-01D-0966-08		29762797	105771950	29	3047											
ZFYVE27	118813	hgsc.bcm.edu;ucsc.edu	37	chr10	99504492	99504499	+	Frame_Shift_Del	DEL	GGTACTCA	GGTACTCA	-																															ttttgattctgcaggtgcatGgtactcagtaggtgccctga																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	GGTACTCA	GGTACTCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	99504499	GGTACTCA	-	99504492	7	5	53	1	0	1	0	1	0	0	0	0	17668	1357	47	0	285	0	ZFYVE27	10	99504492	Frame_Shift_Del	DEL	GGTACTCA	TCGA-AS-3778-01A-01D-0966-08	69741695	99504492	36030255	30	3048											
SMC3	9126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	112356197	112356197	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgctctaactgggggttatTatgacacaaggaagtctcga	11	11	12	7	1	2	1	0	1	2	0	3	3	2	2	0	3	2	2	0	3	5	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	112356197	T	G	112356197	3	3	53	1	0	0	0	0	1	0	0	0	14786	1754	61	5	2079	5	SMC3	10	112356197	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	12851705	112356197	23178550	31	3049											
KCNC1	3746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17793714	17793714	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccttgggcgtgctgaTcttcgccaccatgatctact	5	12	10	14	2	2	2	0	2	2	0	3	2	2	2	4	2	2	1	4	2	1	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	17793714	T	C	17793714	3	2	53	1	0	0	0	0	1	0	0	0	8014	1435	50	3	1079	3	KCNC1	11	17793714	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08		17793714	117212802	32	3050											
FNBP4	23360	broad.mit.edu	37	chr11	47738988	47738988	+	Missense_Mutation	SNP	C	A	A																															taaaaactatgtgtttggagCcattttccttctcttcagcc																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	47738988	A	A	47738988	3	1	53	1	0	0	0	0	1	0	0	0	5967	739	26	4	17	4	FNBP4	11	47738988	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	29945274	47738988	87267528	33	3051	41	2									
FNBP4	23360	broad.mit.edu	37	chr11	47738989	47738989	+	Missense_Mutation	SNP	C	T	T																															aaaaactatgtgtttggagcCattttccttctcttcagcct																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	47738989	T	T	47738989	3	4	53	1	0	0	0	0	1	0	0	0	5967	594	21	2	18	2	FNBP4	11	47738989	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	1	47738989	87267527	34	3052	41	2									
RASGRP2	10235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64507132	64507132	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccacgtggacaaagtgtgtGatgaccagggcccgctgcgg	8	6	16	11	3	0	2	0	2	0	0	0	3	0	3	3	3	1	1	3	3	1	0	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	64507132	G	C	64507132	3	2	53	1	0	0	0	0	1	0	0	0	13077	1280	45	4	1197	4	RASGRP2	11	64507132	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	16768143	64507132	70499384	35	3053											
PCNXL3	399909	broad.mit.edu;hgsc.bcm.edu	37	chr11	65392741	65392741	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcagagcagcgaccccAccgtgctctggtgggtgtgc	5	6	16	14	3	1	1	0	0	1	1	1	2	1	1	4	3	4	3	4	3	0	0	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	65392741	A	T	65392741	3	4	53	1	0	0	0	0	1	0	0	0	11593	159	6	5	3085	5	PCNXL3	11	65392741	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	885609	65392741	69613775	36	3054											
CSDA	8531	hgsc.bcm.edu	37	chr12	10862578	10862579	+	Frame_Shift_Ins	INS	-	-	C																															cccacgtggtaaggcgggaaINSccgccgctgccggtactgag																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	10862579	-	C	10862578	7	5	53	1	0	1	1	0	0	0	0	0	3927	43	2	0	425	0	CSDA	12	10862578	Frame_Shift_Ins	INS	-	TCGA-AS-3778-01A-01D-0966-08		10862578	122989317	37	3055											
KRT76	51350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53162498	53162498	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagatttggaacagtagatCacttggtggagctatgctgg	11	11	14	5	0	1	2	1	0	0	2	1	5	1	4	0	4	3	3	0	4	3	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	53162498	C	T	53162498	2	4	53	1	0	0	0	0	0	0	0	1	8489	837	29	2		2	KRT76	12	53162498	Silent	SNP	C	TCGA-AS-3778-01A-01D-0966-08	42299920	53162498	80689397	38	3056											
KRT4	3851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53207418	53207418	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacttgttgttgaggagcTtgatctgttcgcgctcttcc	6	15	10	10	2	2	2	0	2	2	0	4	3	3	3	1	1	2	5	1	1	1	6	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	53207418	T	C	53207418	3	2	53	1	0	0	0	0	1	0	0	0	8477	1609	56	3	1173	3	KRT4	12	53207418	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	44920	53207418	80644477	39	3057											
XPOT	11260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	64827305	64827305	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtctgctgctttagagaagCagatgttgcggaggagttac	10	11	14	6	1	1	2	0	0	1	2	1	5	1	4	0	2	5	5	0	2	3	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	64827305	C	T	64827305	2	4	53	1	0	0	0	0	0	0	0	1	17449	711	25	2		2	XPOT	12	64827305	Silent	SNP	C	TCGA-AS-3778-01A-01D-0966-08	11619887	64827305	69024590	40	3058											
TRHDE	29953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	73056887	73056887	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgcttctttctcacgagCtgtggaaactgtcgaagcca	8	12	10	11	2	2	0	1	0	2	0	4	3	2	1	1	1	5	3	1	1	2	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	73056887	C	T	73056887	3	4	53	1	0	0	0	0	1	0	0	0	16478	797	28	2	3061	2	TRHDE	12	73056887	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	8229582	73056887	60795008	41	3059											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117681127	117681127	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagttctggagcttcggcCacaaaggtgaggcggaactt	9	9	15	8	2	1	2	0	2	1	0	2	4	1	4	1	5	2	2	1	5	2	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	117681127	C	T	117681127	2	4	53	1	0	0	0	0	0	0	0	1	10541	581	21	2		2	NOS1	12	117681127	Silent	SNP	C	TCGA-AS-3778-01A-01D-0966-08	44624240	117681127	16170768	42	3060											
NCOR2	9612	broad.mit.edu;ucsc.edu	37	chr12	124968161	124968161	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttggtgaggtcttcagatCccgcaggctggcccgtggcc	4	9	14	14	2	2	2	1	1	1	1	3	2	3	2	4	5	0	2	4	5	0	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	124968161	A	A	124968161	3	1	53	1	0	0	0	0	1	0	0	0	10236	855	30	4	7356	4	NCOR2	12	124968161	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	7287034	124968161	8883734	43	3061											
POLE	5426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133219900	133219900	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtgcgtggtggtacaggtaGatatggcggatactccctgg	7	11	16	7	2	0	1	0	0	0	1	1	2	1	2	1	6	3	2	1	6	4	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	133219900	G	C	133219900	3	2	53	1	0	0	0	0	1	0	0	0	12196	932	33	4	2459	4	POLE	12	133219900	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	8251739	133219900	631995	44	3062											
NYNRIN	57523	hgsc.bcm.edu;ucsc.edu	37	chr14	24885703	24885708	+	In_Frame_Del	DEL	GCAGGA	GCAGGA	-																															ggagcatgtgaaagattactGcaggagctgcttgttctgca																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	GCAGGA	GCAGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	24885708	GCAGGA	-	24885703	7	5	53	1	0	1	0	1	0	0	0	0	10796	1319	46	0	4778	0	NYNRIN	14	24885703	In_Frame_Del	DEL	GCAGGA	TCGA-AS-3778-01A-01D-0966-08		24885703	82463837	45	3063											
RPS29	6235	broad.mit.edu;hgsc.bcm.edu	37	chr14	50053045	50053045	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attttcgcgggtggctccagTacagctgctggtgacccatc	6	11	12	12	2	0	1	0	1	0	0	3	1	1	1	2	3	3	4	2	3	1	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	50053045	T	C	50053045	3	2	53	1	0	0	0	0	1	0	0	0	13644	1638	57	3	208	3	RPS29	14	50053045	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	25167342	50053045	57296495	46	3064											
DLGAP5	9787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55625310	55625310	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actattttatcaacttccttTggtatcacagaaactgctgt	11	16	5	9	0	2	1	2	0	0	1	3	1	3	1	1	1	3	2	1	1	5	6	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	55625310	T	C	55625310	2	2	53	1	0	0	0	0	0	0	0	1	4563	1799	63	3		3	DLGAP5	14	55625310	Silent	SNP	T	TCGA-AS-3778-01A-01D-0966-08	5572265	55625310	51724230	47	3065											
C14orf149	0	hgsc.bcm.edu;ucsc.edu	37	chr14	59939728	59939729	+	Frame_Shift_Ins	INS	-	-	ATAAA																															atgggtcgtcatcttctattINSataaagcttgctgtacccgt																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		ATAAA	59939729	-	ATAAA	59939728	7	5	53	1	0	1	1	0	0	0	0	0	1752	1744	61	0	48	0	C14orf149	14	59939728	Frame_Shift_Ins	INS	-	TCGA-AS-3778-01A-01D-0966-08	4314418	59939728	47409812	48	3066											
DYNC1H1	1778	broad.mit.edu;hgsc.bcm.edu	37	chr14	102466737	102466737	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttcagtacagcctcgaaagGtatatcatgaaatcggtgtt	12	13	9	7	2	2	1	2	1	0	0	4	2	2	1	1	2	2	3	1	2	5	5	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	102466737	G	A	102466737	5	1	53	1	0	0	0	0	0	0	1	0	4841	1275	44	2	4145	2	DYNC1H1	14	102466737	Splice_Site	SNP	G	TCGA-AS-3778-01A-01D-0966-08	42527009	102466737	4882803	49	3067											
RPUSD2	27079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40866017	40866017	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctggggtccttctcgaGgccggggcggctacattccc	3	10	14	14	3	1	0	0	0	1	0	4	1	3	0	4	6	2	1	4	6	1	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	40866017	G	C	40866017	3	2	53	1	0	0	0	0	1	0	0	0	13669	1000	35	4	1205	4	RPUSD2	15	40866017	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08		40866017	61665375	50	3068											
GCOM1	145781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57913819	57913819	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacaggtgagagccacttTggaaaaggtgagaaagcgaa	15	6	14	6	1	0	2	0	2	0	2	0	6	0	3	1	3	3	1	1	3	5	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	57913819	T	C	57913819	3	2	53	1	0	0	0	0	1	0	0	0	6304	1821	63	3	346	3	GCOM1	15	57913819	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08	17047802	57913819	44617573	51	3069											
TLN2	83660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63030443	63030443	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtctcacactccttgaatAactgcgtaaattgcctccct	9	12	5	15	2	1	1	1	1	1	0	4	1	3	1	4	0	3	1	4	0	4	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	63030443	A	G	63030443	3	3	53	1	0	0	0	0	1	0	0	0	15947	362	13	3	3704	3	TLN2	15	63030443	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	5116624	63030443	39500949	52	3070											
MEF2A	4205	broad.mit.edu	37	chr15	100252892	100252892	+	Frame_Shift_Del	DEL	A	-	-																															cggggcgacttccattctccAattgtgcttggccgaccccc																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	100252892	-	-	100252892	7	5	53	1	0	1	0	1	0	0	0	0	9455	117	5	0	1614	0	MEF2A	15	100252892	Frame_Shift_Del	DEL	A	TCGA-AS-3778-01A-01D-0966-08	37222449	100252892	2278500	53	3071											
PHLPP2	23035	broad.mit.edu;ucsc.edu	37	chr16	71682850	71682850	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatcctcttcatggggctcAggctcgagccggctgtcctg	4	10	13	14	3	3	0	2	0	1	0	6	2	5	0	3	4	1	3	3	4	0	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	71682850	G	G	71682850	2	3	53	1	0	0	0	0	0	0	0	1	11855	175	7	3		3	PHLPP2	16	71682850	Silent	SNP	A	TCGA-AS-3778-01A-01D-0966-08		71682850	18671903	54	3072											
CHRNE	1145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4804298	4804298	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcttaccctgcgccggcagGaagtaggcgagcagcaccag	9	5	14	13	3	0	0	0	0	0	0	0	2	0	1	3	3	5	5	3	3	3	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	4804298	G	A	4804298	2	1	53	1	0	0	0	0	0	0	0	1	3395	1165	41	2		2	CHRNE	17	4804298	Silent	SNP	G	TCGA-AS-3778-01A-01D-0966-08		4804298	76390912	55	3073											
GUCY2D	3000	broad.mit.edu;ucsc.edu	37	chr17	7909785	7909785	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggtgtccggagcagcTgtggcccgccacatccggga	7	6	16	12	3	0	1	0	0	0	1	2	3	2	3	4	4	2	2	4	4	0	0	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	7909785	A	A	7909785	2	1	53	1	0	0	0	0	0	0	0	1	6897	1567	55	5		5	GUCY2D	17	7909785	Silent	SNP	T	TCGA-AS-3778-01A-01D-0966-08	3105487	7909785	73285425	56	3074											
SRCIN1	80725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36708271	36708271	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggggggtggcatttcgaAgtccacgctcttgttgaagt	6	12	15	8	2	1	1	0	1	1	0	3	2	2	1	1	4	0	4	1	4	2	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		C	36708271	A	C	36708271	3	2	53	1	0	0	0	0	1	0	0	0	15137	72	3	5	997	5	SRCIN1	17	36708271	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	28798486	36708271	44486939	57	3075											
UTP18	51096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	49340732	49340732	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgggtggatgaagaagAtgaagatgaggaaatgtaag	16	9	16	0	0	0	6	0	3	0	3	0	8	0	8	0	3	0	2	0	3	5	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	49340732	A	G	49340732	3	3	53	1	0	0	0	0	1	0	0	0	17097	333	12	3	446	3	UTP18	17	49340732	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	12632461	49340732	31854478	58	3076											
CLTC	1213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57733326	57733327	+	Frame_Shift_Ins	INS	-	-	T																															tagaatcagtggagaaacaaINStttttgttactgcacctcat																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	57733327	-	T	57733326	7	5	53	1	0	1	1	0	0	0	0	0	3566	101	4	0	929	0	CLTC	17	57733326	Frame_Shift_Ins	INS	-	TCGA-AS-3778-01A-01D-0966-08	8392594	57733326	23461884	59	3077											
SLC26A11	284129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78196561	78196561	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgtccctcctggtctccttCtacaccttccatgagcccgc	5	12	6	18	1	2	1	0	1	2	0	6	1	5	1	6	1	2	0	6	1	1	3	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	78196561	C	G	78196561	3	3	53	1	0	0	0	0	1	0	0	0	14518	912	32	4	348	4	SLC26A11	17	78196561	Missense_Mutation	SNP	C	TCGA-AS-3778-01A-01D-0966-08	20463235	78196561	2998649	60	3078											
CASP14	23581	broad.mit.edu	37	chr19	15164766	15164766	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcatacaggcctgtcgaGgaggtggggacagatccaag	12	6	14	9	1	1	1	1	0	0	1	3	4	2	3	2	5	1	0	2	5	2	1	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	15164766	T	T	15164766	4	4	53	1	0	0	0	0	0	1	0	0	2670	1001	35	4	410	4	CASP14	19	15164766	Nonsense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08		15164766	43964217	61	3079											
SLC7A10	56301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	33702235	33702235	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcagcttctccccgaaggtCtgggtgggcacagtagagag	9	7	15	10	1	2	1	0	0	2	1	3	3	2	1	2	3	2	4	2	3	2	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	33702235	C	G	33702235	5	3	53	1	0	0	0	0	0	0	1	0	14695	927	32	4	679	4	SLC7A10	19	33702235	Splice_Site	SNP	C	TCGA-AS-3778-01A-01D-0966-08	18537469	33702235	25426748	62	3080											
CYTH2	9266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	48977501	48977501	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtctccacaatcccaatGtccgggacaagccgggcctg	9	6	10	16	2	1	0	0	0	1	0	4	1	3	1	6	2	1	0	6	2	3	0	rs1804728	alternate_allele	TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	48977501	G	A	48977501	3	1	53	1	0	0	0	0	1	0	0	0	4204	1377	48	2	636	2	CYTH2	19	48977501	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	15275266	48977501	10151482	63	3081											
ACSS1	84532	broad.mit.edu	37	chr20	25038626	25038633	+	Frame_Shift_Del	DEL	GCCGCCCT	-	-																															cgctgcccgagggtcccgagGccgccctgcgcggcgcgctc																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	GCCGCCCT	GCCGCCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		-	25038633	-	-	25038626	7	5	53	1	0	1	0	1	0	0	0	0	188	1203	42	0	2012	0	ACSS1	20	25038626	Frame_Shift_Del	DEL	GCCGCCCT	TCGA-AS-3778-01A-01D-0966-08		25038626	37986894	64	3082											
KIF3B	9371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30918079	30918079	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatgagatacaggtggatGcatcatcatttgaaagcact	15	10	10	6	0	2	3	2	2	0	2	2	5	2	4	0	2	3	2	0	2	3	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		A	30918079	G	A	30918079	3	1	53	1	0	0	0	0	1	0	0	0	8301	1319	46	2	2130	2	KIF3B	20	30918079	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08	5879453	30918079	32107441	65	3083											
KCNQ2	3785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62038115	62038115	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctgactctccctccgcaAtgtagggcctgactttggca	6	12	10	13	1	2	2	0	2	2	0	4	2	3	2	3	2	0	3	3	2	2	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	62038115	A	G	62038115	3	3	53	1	0	0	0	0	1	0	0	0	8083	101	4	3	121	3	KCNQ2	20	62038115	Missense_Mutation	SNP	A	TCGA-AS-3778-01A-01D-0966-08	31120036	62038115	987405	66	3084											
PLA2G6	8398	broad.mit.edu	37	chr22	38536025	38536025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggccgagtggatggggTagccgttggggcccatgatg	6	9	18	8	2	1	1	1	1	0	0	1	3	1	2	3	6	1	2	3	6	1	2	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		G	38536025	G	G	38536025	3	3	53	1	0	0	0	0	1	0	0	0	12008	1638	57	5	1711	5	PLA2G6	22	38536025	Missense_Mutation	SNP	T	TCGA-AS-3778-01A-01D-0966-08		38536025	12768541	67	3085											
CT47B1	643311	broad.mit.edu	37	chrX	120009111	120009111	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgctatctggatgtggtcGttgtgatagaggcggcggag	6	12	17	6	4	1	2	0	1	1	1	3	4	1	4	0	5	0	2	0	5	2	4	novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		T	120009111	T	T	120009111	3	4	53	1	0	0	0	0	1	0	0	0	3989	1136	40	4	493	4	CT47B1	23	120009111	Missense_Mutation	SNP	G	TCGA-AS-3778-01A-01D-0966-08		120009111	35261449	68	3086											
RBMX	27316	hgsc.bcm.edu	37	chrX	135956571	135956572	+	Frame_Shift_Ins	INS	-	-	GG																															gactgcttccaccataagatINSggcgggggccctcgtgtagg																								novel		TCGA-AS-3778-01A-01D-0966-08	TCGA-AS-3778-10A-01D-0966-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7b56e923-2bc5-4368-8e28-42649d3bf169	69e373e0-a10b-4728-af8d-a45ecdb39353		GG	135956572	-	GG	135956571	7	5	53	1	0	1	1	0	0	0	0	0	13153	1451	51	0	328	0	RBMX	23	135956571	Frame_Shift_Ins	INS	-	TCGA-AS-3778-01A-01D-0966-08	15947460	135956571	19313989	69	3087											
GMEB1	10691	hgsc.bcm.edu;ucsc.edu	37	chr1	29018200	29018200	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtttgtatgtccaggAataaacgtgaagtgtgtcaa	15	11	11	4	1	1	2	1	1	0	1	2	3	2	3	1	1	1	2	1	1	8	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	29018200	A	T	29018200	2	4	54	1	0	0	0	0	0	0	0	1	6487	233	9	5		5	GMEB1	1	29018200	Silent	SNP	A	TCGA-B0-4690-01A-01D-1361-10		29018200	220232421	1	3088											
SLC44A5	204962	hgsc.bcm.edu	37	chr1	75805277	75805277	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgcttacctgttggcaaCaggccccttgaaatctgggt	9	12	10	10	0	1	1	0	1	1	0	1	1	1	1	3	3	3	3	3	3	4	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	75805277	C	A	75805277	3	1	54	1	0	0	0	0	1	0	0	0	14641	478	17	4	2263	4	SLC44A5	1	75805277	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	46787077	75805277	173445344	2	3089											
ATXN7L2	127002	hgsc.bcm.edu	37	chr1	110029637	110029637	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtgacagaaagaagaCatgggcccctcagcaagctt	12	7	11	11	0	1	4	1	1	0	3	2	4	2	4	3	2	2	2	3	2	3	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	110029637	C	A	110029637	3	1	54	1	0	0	0	0	1	0	0	0	1217	478	17	4	321	4	ATXN7L2	1	110029637	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	34224360	110029637	139220984	3	3090											
ATP6V1B1	525	hgsc.bcm.edu	37	chr2	71186165	71186165	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgggttttcaatggcTccggcaagcccattgacaag	9	9	12	11	2	1	1	1	1	0	0	3	1	2	1	2	4	1	3	2	4	3	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	71186165	T	C	71186165	3	2	54	1	0	0	0	0	1	0	0	0	1178	1551	54	3	403	3	ATP6V1B1	2	71186165	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10		71186165	172013208	4	3091											
BIN1	274	hgsc.bcm.edu	37	chr2	127808049	127808049	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccacatcaccagccttgAgctgcagctcgtctgtgtca	8	9	9	15	1	3	1	2	1	1	0	4	1	3	1	3	0	4	4	3	0	0	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	127808049	A	T	127808049	3	4	54	1	0	0	0	0	1	0	0	0	1432	304	11	5	167	5	BIN1	2	127808049	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	56621884	127808049	115391324	5	3092											
BZW1	9689	hgsc.bcm.edu;ucsc.edu	37	chr2	201678003	201678003	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttttaaaactagaaaaagAggtaaatatttacgttttaa	18	14	6	3	2	0	2	0	0	0	2	0	2	0	2	0	1	2	3	0	1	10	9	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	201678003	A	G	201678003	2	3	54	1	0	0	0	0	0	0	0	1	1578	318	11	3		3	BZW1	2	201678003	Silent	SNP	A	TCGA-B0-4690-01A-01D-1361-10	73869954	201678003	41521370	6	3093											
SGPP2	130367	hgsc.bcm.edu	37	chr2	223386613	223386613	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatccacccacgccatggCggccactgccattgccttca	7	7	8	19	2	1	0	1	0	0	0	2	0	2	0	7	2	2	0	7	2	0	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	223386613	C	T	223386613	3	4	54	1	0	0	0	0	1	0	0	0	14222	768	27	1	516	1	SGPP2	2	223386613	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	21708610	223386613	19812760	7	3094											
SETD5	55209	hgsc.bcm.edu;ucsc.edu	37	chr3	9515023	9515023	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagcaagtctgcaggagctgGgcaaggcagcagtaactccg	12	5	14	10	1	1	0	0	0	1	0	2	1	2	1	1	3	5	7	1	3	4	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	9515023	G	T	9515023	3	4	54	1	0	0	0	0	1	0	0	0	14136	1232	43	4	3369	4	SETD5	3	9515023	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10		9515023	188507407	8	3095											
RRP9	9136	hgsc.bcm.edu	37	chr3	51972151	51972151	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtagagcttggccaagcgCagcttcttttcctgtgcagt	7	12	12	10	1	1	1	0	0	1	1	2	1	2	1	2	2	4	5	2	2	2	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	51972151	C	G	51972151	2	3	54	1	0	0	0	0	0	0	0	1	13693	697	25	4		4	RRP9	3	51972151	Silent	SNP	C	TCGA-B0-4690-01A-01D-1361-10	42457128	51972151	146050279	9	3096											
C3orf63	0	hgsc.bcm.edu;ucsc.edu	37	chr3	56662597	56662597	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgatcttctttccaaaaActgttcaggatgacattctg	10	17	6	8	0	4	2	1	2	3	0	5	3	5	3	1	1	1	1	1	1	2	6	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	56662597	A	G	56662597	3	3	54	1	0	0	0	0	1	0	0	0	2239	43	2	3	1303	3	C3orf63	3	56662597	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	4690446	56662597	141359833	10	3097											
GPR128	84873	hgsc.bcm.edu	37	chr3	100349643	100349643	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcaaacatgtggcaaggaTactccaaatggtatgtgttt	12	13	10	6	0	0	0	0	0	0	0	1	1	1	1	1	3	3	4	1	3	5	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	100349643	T	A	100349643	3	1	54	1	0	0	0	0	1	0	0	0	6641	1403	49	5	334	5	GPR128	3	100349643	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	43687046	100349643	97672787	11	3098											
SOX14	8403	hgsc.bcm.edu;ucsc.edu	37	chr3	137483822	137483822	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagccaagcggctacgcGcccagcacatgaaggagcac	13	3	12	13	3	0	2	0	2	0	0	0	3	0	3	2	2	5	3	2	2	4	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	137483822	G	A	137483822	3	1	54	1	0	0	0	0	1	0	0	0	14947	1087	38	1	198	1	SOX14	3	137483822	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	37134179	137483822	60538608	12	3099											
MED12L	116931	hgsc.bcm.edu	37	chr3	151134118	151134118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agatgcagcagccccagcagCcccagccccagcagcctccc	9	2	9	21	0	0	1	0	0	0	1	1	1	1	1	8	0	8	4	8	0	0	0	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	151134118	C	T	151134118	3	4	54	1	0	0	0	0	1	0	0	0	9429	739	26	2	6373	2	MED12L	3	151134118	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	13650296	151134118	46888312	13	3100											
HELQ	113510	hgsc.bcm.edu	37	chr4	84376821	84376821	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggagagacacccgccggCggatgcgggaaccacattca	10	4	15	12	4	1	1	1	0	0	1	1	5	1	4	3	5	2	0	3	5	1	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	84376821	C	G	84376821	3	3	54	1	0	0	0	0	1	0	0	0	7047	768	27	4	3351	4	HELQ	4	84376821	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		84376821	106777455	14	3101											
TTC23L	153657	hgsc.bcm.edu	37	chr5	34867107	34867107	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagatctgatcagcctgtAcgaggaagctgctcagatag	11	9	12	9	1	4	3	3	1	1	2	4	5	4	4	1	1	4	3	1	1	3	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	34867107	A	T	34867107	3	4	54	1	0	0	0	0	1	0	0	0	16690	391	14	5	795	5	TTC23L	5	34867107	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10		34867107	146048153	15	3102											
CENPH	64946	hgsc.bcm.edu	37	chr5	68505568	68505568	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaagtcaattgggcagAggatcctgcccttaaggaaa	14	8	12	7	0	1	1	1	0	0	1	2	4	2	3	2	3	1	2	2	3	5	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	68505568	A	G	68505568	3	3	54	1	0	0	0	0	1	0	0	0	3232	304	11	3	720	3	CENPH	5	68505568	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	33638461	68505568	112409692	16	3103											
SPATA9	83890	hgsc.bcm.edu	37	chr5	94994526	94994526	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagaaaaggcttttctaCaattttcactctcctctctg	9	15	5	12	0	5	1	2	0	3	1	7	1	5	1	1	1	1	2	1	1	4	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	94994526	C	A	94994526	3	1	54	1	0	0	0	0	1	0	0	0	15017	478	17	4	202	4	SPATA9	5	94994526	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	26488958	94994526	85920734	17	3104											
ADAMTS19	171019	hgsc.bcm.edu	37	chr5	128994340	128994340	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgatggtttattagggtctCttgcaagagaagatcattgt	10	15	12	4	0	2	3	1	1	1	2	3	4	2	3	0	2	1	2	0	2	4	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	128994340	C	T	128994340	3	4	54	1	0	0	0	0	1	0	0	0	264	913	32	2	2375	2	ADAMTS19	5	128994340	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	33999814	128994340	51920920	18	3105											
FBXO38	81545	hgsc.bcm.edu	37	chr5	147821566	147821566	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagaaggaaaggacagctGtctgcagacatctgtatgga	13	8	12	8	0	2	2	0	0	2	2	2	5	2	5	1	3	2	3	1	3	4	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	147821566	G	T	147821566	2	4	54	1	0	0	0	0	0	0	0	1	5746	1364	48	4		4	FBXO38	5	147821566	Silent	SNP	G	TCGA-B0-4690-01A-01D-1361-10	18827226	147821566	33093694	19	3106											
DOK3	79930	hgsc.bcm.edu	37	chr5	176932106	176932107	+	Frame_Shift_Del	DEL	TG	TG	-																															gatcctgaggaggcctccccTgtcccctggggaatgagttc																								novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		-	176932107	TG	-	176932106	7	5	54	1	0	1	0	1	0	0	0	0	4698	1567	55	0	1308	0	DOK3	5	176932106	Frame_Shift_Del	DEL	TG	TCGA-B0-4690-01A-01D-1361-10	29110540	176932106	3983154	20	3107											
ZNF192	0	hgsc.bcm.edu	37	chr6	28116327	28116327	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtaaccctcttggccaaGaagtgttccgcctgcgcttc	9	10	9	13	2	1	1	0	0	1	1	3	1	2	1	4	1	2	3	4	1	4	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	28116327	G	T	28116327	4	4	54	1	0	0	0	0	0	1	0	0	17755	943	33	4	144	4	ZNF192	6	28116327	Nonsense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10		28116327	142998740	21	3108											
CUL9	23113	hgsc.bcm.edu	37	chr6	43154085	43154085	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggagaatatgtgcagcaGacactccagccagggatgcg	12	7	13	9	1	0	2	0	0	0	2	1	4	1	3	2	2	4	2	2	2	3	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	43154085	G	T	43154085	3	4	54	1	0	0	0	0	1	0	0	0	4061	933	33	4	1153	4	CUL9	6	43154085	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	15037758	43154085	127960982	22	3109											
C6orf138	0	hgsc.bcm.edu	37	chr6	47846493	47846493	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagcccagaacgcccagcTcaattgaggtgacgctaaga	13	7	10	11	2	1	4	1	2	0	2	1	4	1	4	2	1	3	2	2	1	4	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	47846493	T	C	47846493	3	2	54	1	0	0	0	0	1	0	0	0	2332	1551	54	3	457	3	C6orf138	6	47846493	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	4692408	47846493	123268574	23	3110											
ZNF292	23036	hgsc.bcm.edu	37	chr6	87970404	87970404	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagattgtgcagattgaaGaaaataagccttattctctg	15	12	8	6	0	1	4	0	1	1	3	2	4	1	4	1	0	2	1	1	0	6	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	87970404	G	T	87970404	4	4	54	1	0	0	0	0	0	1	0	0	17825	943	33	4	7087	4	ZNF292	6	87970404	Nonsense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	40123911	87970404	83144663	24	3111											
LAMA4	3910	hgsc.bcm.edu	37	chr6	112455692	112455692	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgtaagatttctggaggAgctcctccaatgtatatatc	11	14	9	7	0	1	1	0	0	1	1	4	4	3	3	2	2	1	3	2	2	5	6	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	112455692	A	G	112455692	2	3	54	1	0	0	0	0	0	0	0	1	8608	291	11	3		3	LAMA4	6	112455692	Silent	SNP	A	TCGA-B0-4690-01A-01D-1361-10	24485288	112455692	58659375	25	3112											
C7orf28B	0	hgsc.bcm.edu	37	chr7	6844681	6844681	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatccaacgttgggtggaCagaggctggcaagtcatgac	13	7	13	8	1	1	2	1	1	0	1	2	3	2	3	1	4	1	3	1	4	4	1	rs8058		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	6844681	C	T	6844681	3	4	54	1	0	0	0	0	1	0	0	0	2384	478	17	2	470	2	C7orf28B	7	6844681	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		6844681	152293982	26	3113											
POR	5447	hgsc.bcm.edu;ucsc.edu	37	chr7	75615694	75615695	+	Frame_Shift_Ins	INS	-	-	T																															gggatgtgcagaacaccttcINStacgacatcgtggctgagct																								novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	75615695	-	T	75615694	7	5	54	1	0	1	1	0	0	0	0	0	12257	912	32	0	1996	0	POR	7	75615694	Frame_Shift_Ins	INS	-	TCGA-B0-4690-01A-01D-1361-10	68771013	75615694	83522969	27	3114											
PRSS37	136242	hgsc.bcm.edu	37	chr7	141536964	141536964	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacataaggaattcctgTggctttttccttgttctgtt	7	18	7	9	0	2	0	1	0	1	0	4	1	4	1	2	2	0	3	2	2	2	7	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	141536964	T	G	141536964	3	3	54	1	0	0	0	0	1	0	0	0	12628	1696	59	5	200	5	PRSS37	7	141536964	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	65921270	141536964	17601699	28	3115											
PSD3	23362	hgsc.bcm.edu	37	chr8	18662356	18662356	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttttccaaaatttcagTgctccccatttcagaatgag	10	14	5	12	0	2	2	2	1	0	1	5	2	5	2	4	0	1	1	4	0	3	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	18662356	T	G	18662356	3	3	54	1	0	0	0	0	1	0	0	0	12650	1696	59	5	1504	5	PSD3	8	18662356	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10		18662356	127701666	29	3116											
PGCP	0	hgsc.bcm.edu;ucsc.edu	37	chr8	97892231	97892231	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggagcaaatatccagaaCaggtgagtgaaggagaaggc	15	5	15	6	0	0	4	0	2	0	2	1	6	1	5	1	4	2	1	1	4	5	1	rs149951331	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	97892231	C	A	97892231	3	1	54	1	0	0	0	0	1	0	0	0	11786	479	17	4	857	4	PGCP	8	97892231	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	79229875	97892231	48471791	30	3117											
FAM135B	51059	hgsc.bcm.edu;ucsc.edu	37	chr8	139180173	139180173	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtatctgtcctcaaagAtcaccggcagggtgttccaa	10	9	9	13	2	3	1	2	0	1	1	5	1	5	1	4	2	0	3	4	2	3	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	139180173	A	G	139180173	3	3	54	1	0	0	0	0	1	0	0	0	5449	333	12	3	3033	3	FAM135B	8	139180173	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	41287942	139180173	7183849	31	3118											
CTSL1	1514	hgsc.bcm.edu	37	chr9	90344590	90344590	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaaggcagttgcaactGtggggcccatttctgttgct	7	13	13	8	0	1	2	0	2	1	0	1	2	1	2	1	3	3	5	1	3	2	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	90344590	G	T	90344590	3	4	54	1	0	0	0	0	1	0	0	0	4038	1377	48	4	742	4	CTSL1	9	90344590	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10		90344590	50868841	32	3119											
C9orf91	203197	hgsc.bcm.edu;ucsc.edu	37	chr9	117386654	117386654	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaatggccaggtcctcaCtgttctccggattgacaata	10	10	8	13	1	2	1	1	1	1	0	4	2	3	2	4	3	0	1	4	3	3	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	117386654	C	T	117386654	3	4	54	1	0	0	0	0	1	0	0	0	2505	565	20	2	137	2	C9orf91	9	117386654	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	27042064	117386654	23826777	33	3120											
TNFSF8	944	hgsc.bcm.edu	37	chr9	117692493	117692493	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggctcgtggtccccaGgtggctggccacggagcccg	3	6	17	15	4	0	0	0	0	0	0	2	1	1	1	4	6	2	3	4	6	0	0	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	117692493	G	T	117692493	3	4	54	1	0	0	0	0	1	0	0	0	16310	991	35	4	629	4	TNFSF8	9	117692493	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	305839	117692493	23520938	34	3121											
SFMBT2	57713	hgsc.bcm.edu	37	chr10	7212905	7212905	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtacctgctcctgaaatatCttggccaagggggcacagtc	9	9	11	12	1	1	1	0	1	1	0	3	1	2	1	3	3	2	3	3	3	4	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	7212905	C	T	7212905	2	4	54	1	0	0	0	0	0	0	0	1	14160	912	32	2		2	SFMBT2	10	7212905	Silent	SNP	C	TCGA-B0-4690-01A-01D-1361-10		7212905	128321842	35	3122											
NSUN6	221078	hgsc.bcm.edu	37	chr10	18837163	18837163	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctggcttcagcagctgaaCcgcctaaagaaaactgtgat	12	9	9	11	1	2	3	1	2	1	1	2	3	2	3	2	1	4	3	2	1	5	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	18837163	C	G	18837163	3	3	54	1	0	0	0	0	1	0	0	0	10682	507	18	4	342	4	NSUN6	10	18837163	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	11624258	18837163	116697584	36	3123											
PCDH15	65217	hgsc.bcm.edu	37	chr10	55582369	55582369	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgaagaatgtaaaacaCaaggccttgaaggagaaagt	19	6	12	4	0	0	5	0	2	0	3	0	6	0	5	1	2	1	1	1	2	7	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	55582369	C	A	55582369	3	1	54	1	0	0	0	0	1	0	0	0	11511	478	17	4	2360	4	PCDH15	10	55582369	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	36745206	55582369	79952378	37	3124											
DNMBP	23268	hgsc.bcm.edu	37	chr10	101728908	101728908	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatccaactcttgggatgTgaattcacaaatgcacacaa	15	11	6	9	0	2	1	1	1	1	0	3	2	3	2	1	1	2	1	1	1	5	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	101728908	T	G	101728908	3	3	54	1	0	0	0	0	1	0	0	0	4674	1696	59	5	4561	5	DNMBP	10	101728908	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	46146539	101728908	33805839	38	3125											
DHX32	55760	hgsc.bcm.edu;ucsc.edu	37	chr10	127530464	127530464	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattatccagtgctgccagaTaatctaagtcttccaatgcc	11	12	6	12	0	2	1	0	0	2	1	4	1	4	1	4	0	3	1	4	0	4	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	127530464	T	C	127530464	3	2	54	1	0	0	0	0	1	0	0	0	4505	1406	49	3	860	3	DHX32	10	127530464	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	25801556	127530464	8004283	39	3126											
SNX15	29907	hgsc.bcm.edu	37	chr11	64799919	64799919	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggtggtggtctggaagcGgtacagcgacttccgcaagc	9	8	15	9	3	1	0	0	0	1	0	2	2	2	1	1	5	4	2	1	5	4	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	64799919	G	A	64799919	3	1	54	1	0	0	0	0	1	0	0	0	14888	1116	39	1	162	1	SNX15	11	64799919	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10		64799919	70206597	40	3127											
GDPD4	220032	hgsc.bcm.edu;ucsc.edu	37	chr11	76969447	76969447	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctctggttttacaaacCatttgcctgcattcagagtc	9	15	6	11	0	2	1	1	0	1	1	3	1	2	1	3	1	5	2	3	1	3	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	76969447	C	A	76969447	3	1	54	1	0	0	0	0	1	0	0	0	6326	595	21	4	742	4	GDPD4	11	76969447	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	12169528	76969447	58037069	41	3128											
ALG8	79053	hgsc.bcm.edu	37	chr11	77850613	77850613	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaattgccagtacccgTggcaattgtgagcgccgcca	11	7	10	13	3	0	1	0	1	0	0	0	1	0	1	5	1	4	2	5	1	4	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	77850613	T	G	77850613	3	3	54	1	0	0	0	0	1	0	0	0	523	1696	59	5	1669	5	ALG8	11	77850613	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	881166	77850613	57155903	42	3129											
ATM	472	ucsc.edu	37	chr11	108183185	108183185	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacaactatttctagctTgagtgaaaaaagtaaagaag	19	10	8	4	0	1	3	0	2	1	1	1	4	1	3	0	0	3	2	0	0	11	6	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	108183185	T	C	108183185	3	2	54	1	0	0	0	0	1	0	0	0	1109	1821	63	3	6120	3	ATM	11	108183185	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	30332572	108183185	26823331	43	3130											
DSCAML1	57453	hgsc.bcm.edu	37	chr11	117351250	117351250	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcatgctccgggccttcAcctcccggatctccagctct	4	11	9	17	2	4	0	2	0	2	0	7	1	6	1	5	3	2	3	5	3	0	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	117351250	A	C	117351250	3	2	54	1	0	0	0	0	1	0	0	0	4769	159	6	5	3548	5	DSCAML1	11	117351250	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	9168065	117351250	17655266	44	3131											
CACNA1C	775	hgsc.bcm.edu;ucsc.edu	37	chr12	2702386	2702386	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcttcttacaggagaagaGgatgaggaggagccagagat	13	8	15	5	0	2	4	0	1	2	3	2	9	2	7	1	4	2	1	1	4	2	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	2702386	G	C	2702386	3	2	54	1	0	0	0	0	1	0	0	0	2540	991	35	4	2720	4	CACNA1C	12	2702386	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10		2702386	131149509	45	3132											
DDX47	51202	hgsc.bcm.edu	37	chr12	12974952	12974952	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgaaaggtttcaacttgAgagctctcaaatacttggtc	13	12	8	8	1	2	1	2	1	1	1	4	3	2	1	0	2	4	2	0	2	5	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	12974952	A	G	12974952	3	3	54	1	0	0	0	0	1	0	0	0	4365	296	11	3	514	3	DDX47	12	12974952	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	10272566	12974952	120876943	46	3133											
GYS2	2998	hgsc.bcm.edu;ucsc.edu	37	chr12	21711188	21711188	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atccgtctaatggtgctgagGatggggtcggtggagtcatc	7	11	16	7	2	2	1	1	1	1	0	5	3	3	3	1	6	1	1	1	6	1	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	21711188	G	A	21711188	2	1	54	1	0	0	0	0	0	0	0	1	6913	1164	41	2		2	GYS2	12	21711188	Silent	SNP	G	TCGA-B0-4690-01A-01D-1361-10	8736236	21711188	112140707	47	3134											
OVCH1	341350	hgsc.bcm.edu	37	chr12	29597203	29597203	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtctggttattttactGtcctttggacctaaaagaac	12	14	8	7	0	1	1	0	0	1	1	2	3	2	2	2	2	2	1	2	2	6	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	29597203	G	T	29597203	3	4	54	1	0	0	0	0	1	0	0	0	11323	1368	48	4	532	4	OVCH1	12	29597203	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	7886015	29597203	104254692	48	3135											
NR2C1	7181	hgsc.bcm.edu	37	chr12	95445691	95445691	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtaaccacattggccaatGtacttaaatctccctgacat	13	12	5	11	0	1	1	0	1	1	0	2	1	1	1	3	1	2	2	3	1	5	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	95445691	G	T	95445691	3	4	54	1	0	0	0	0	1	0	0	0	10622	1377	48	4	1105	4	NR2C1	12	95445691	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	65848488	95445691	38406204	49	3136											
ALDH2	217	hgsc.bcm.edu	37	chr12	112228280	112228280	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcatggaagctgggcccaGccttggcaactggaaacgtg	11	6	14	10	1	0	0	0	0	0	0	0	2	0	2	2	4	5	3	2	4	4	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	112228280	G	C	112228280	3	2	54	1	0	0	0	0	1	0	0	0	496	971	34	4	617	4	ALDH2	12	112228280	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	16782589	112228280	21623615	50	3137											
CCDC62	84660	hgsc.bcm.edu	37	chr12	123285867	123285867	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgtttggggagaaaagtGtaattacgctgtcatccata	11	13	11	6	1	1	1	1	0	0	1	2	2	2	1	1	2	1	3	1	2	5	4	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	123285867	G	T	123285867	3	4	54	1	0	0	0	0	1	0	0	0	2833	1377	48	4	1208	4	CCDC62	12	123285867	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10	11057587	123285867	10566028	51	3138											
GRTP1	79774	hgsc.bcm.edu	37	chr13	113978880	113978880	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catggataagcttccaggttCtgaaaatattttctggaagg	12	13	10	6	0	2	1	0	1	2	0	3	3	3	3	1	4	1	2	1	4	5	6	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	113978880	C	T	113978880	3	4	54	1	0	0	0	0	1	0	0	0	6810	922	32	2	80	2	GRTP1	13	113978880	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		113978880	1190998	52	3139											
PLIN1	5346	hgsc.bcm.edu	37	chr15	90212792	90212792	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccagggcccgggccAtggtctgcacggtgtatcga	5	8	14	14	3	1	0	0	0	1	0	3	1	2	0	4	4	2	3	4	4	1	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	90212792	A	T	90212792	3	4	54	1	0	0	0	0	1	0	0	0	12089	217	8	5	874	5	PLIN1	15	90212792	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10		90212792	12318600	53	3140											
AXIN1	8312	hgsc.bcm.edu	37	chr16	347908	347908	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacgtggtggtggacgtgtCggtggtggtgcaggccggcc	3	8	22	8	4	0	0	0	0	0	0	1	2	0	2	2	9	1	1	2	9	0	0	rs146189916		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	347908	C	T	347908	3	4	54	1	0	0	0	0	1	0	0	0	1236	884	31	1	1014	1	AXIN1	16	347908	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		347908	90006845	54	3141											
APOB48R	0	hgsc.bcm.edu	37	chr16	28509409	28509409	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttcctgcaggccccgcTccccgggtccctcctagacg	3	8	9	21	3	0	1	0	0	0	1	4	1	4	1	8	2	1	2	8	2	1	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	28509409	T	C	28509409	3	2	54	1	0	0	0	0	1	0	0	0	786	1551	54	3	2950	3	APOB48R	16	28509409	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	28161501	28509409	61845344	55	3142											
SALL1	6299	hgsc.bcm.edu	37	chr16	51174659	51174659	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgctgaaagtggactttcaGattccccttggtggagaacc	9	10	12	10	1	1	3	1	1	0	2	2	5	2	4	3	3	1	1	3	3	2	3	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	51174659	G	A	51174659	2	1	54	1	0	0	0	0	0	0	0	1	13812	933	33	2		2	SALL1	16	51174659	Silent	SNP	G	TCGA-B0-4690-01A-01D-1361-10	22665250	51174659	39180094	56	3143											
GINS3	64785	hgsc.bcm.edu	37	chr16	58437164	58437165	+	Frame_Shift_Del	DEL	TA	TA	-																															acaaaatggggccccatttcTacgggtttggctcccagctc																								novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		-	58437165	TA	-	58437164	7	5	54	1	0	1	0	1	0	0	0	0	6389	1522	53	0	476	0	GINS3	16	58437164	Frame_Shift_Del	DEL	TA	TCGA-B0-4690-01A-01D-1361-10	7262505	58437164	31917589	57	3144											
ABCA9	10350	hgsc.bcm.edu;ucsc.edu	37	chr17	67039701	67039701	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtctttcttgtgtaacattGactgatacatagtatataaa	13	17	6	5	0	2	2	0	2	2	0	2	2	2	2	0	0	2	2	0	0	7	9	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	67039701	G	C	67039701	2	2	54	1	0	0	0	0	0	0	0	1	39	1277	45	4		4	ABCA9	17	67039701	Silent	SNP	G	TCGA-B0-4690-01A-01D-1361-10		67039701	14155509	58	3145											
LAMA1	284217	hgsc.bcm.edu	37	chr18	7023198	7023198	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcacagcgtccccatagAacccgtcagcacacctttca	10	8	6	17	2	3	1	3	0	0	1	4	1	4	1	4	0	3	1	4	0	2	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	7023198	A	C	7023198	3	2	54	1	0	0	0	0	1	0	0	0	8605	246	9	5	6741	5	LAMA1	18	7023198	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10		7023198	71054050	59	3146											
TWSG1	57045	hgsc.bcm.edu	37	chr18	9399343	9399343	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttaaatttttgtttttcaGaacacatgtgtactgtggtt	9	20	7	5	0	2	1	1	0	1	1	2	1	2	1	0	1	2	3	0	1	4	7	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	9399343	G	A	9399343	5	1	54	1	0	0	0	0	0	0	1	0	16784	956	33	2	504	2	TWSG1	18	9399343	Splice_Site	SNP	G	TCGA-B0-4690-01A-01D-1361-10	2376145	9399343	68677905	60	3147											
NFIX	4784	hgsc.bcm.edu	37	chr19	13189496	13189496	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctcagggcagctcccCgcgcatggctttcacccacc	5	8	8	20	2	2	0	2	0	1	0	5	0	4	0	5	2	1	4	5	2	0	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	13189496	C	T	13189496	3	4	54	1	0	0	0	0	1	0	0	0	10374	652	23	1	1051	1	NFIX	19	13189496	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		13189496	45939487	61	3148											
ZNF780B	163131	hgsc.bcm.edu	37	chr19	40542428	40542428	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaaataaaaggcctcgAggccaagtgttttacttatt	13	14	7	7	1	1	0	0	0	1	0	2	1	1	0	2	2	1	1	2	2	7	7	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	40542428	A	G	40542428	3	3	54	1	0	0	0	0	1	0	0	0	18152	304	11	3	2167	3	ZNF780B	19	40542428	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	27352932	40542428	18586555	62	3149											
C20orf7	0	hgsc.bcm.edu	37	chr20	13797851	13797851	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccggggaaaaaatcaCaataaatatttattcagtgt	16	11	7	7	1	2	0	2	0	0	0	2	1	2	1	2	2	1	0	2	2	8	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	13797851	C	A	13797851	3	1	54	1	0	0	0	0	1	0	0	0	2115	479	17	4	1095	4	C20orf7	20	13797851	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		13797851	49227669	63	3150											
RBBP9	10741	hgsc.bcm.edu	37	chr20	18477770	18477770	+	Frame_Shift_Del	DEL	T	T	-																															tgggtggtcacatccccgccTccgttcccgggaacaatcac																								novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		-	18477770	T	-	18477770	7	5	54	1	0	1	0	1	0	0	0	0	13108	1538	54	0	538	0	RBBP9	20	18477770	Frame_Shift_Del	DEL	T	TCGA-B0-4690-01A-01D-1361-10	4679919	18477770	44547750	64	3151											
CEP250	11190	hgsc.bcm.edu;ucsc.edu	37	chr20	34050332	34050332	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgaagaactcccaggAggcccagcagagacaagcaa	16	2	12	11	0	0	3	0	1	0	2	1	6	1	4	2	2	4	3	2	2	5	0	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	34050332	A	G	34050332	3	3	54	1	0	0	0	0	1	0	0	0	3252	304	11	3	142	3	CEP250	20	34050332	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	15572562	34050332	28975188	65	3152											
ZNF831	128611	hgsc.bcm.edu	37	chr20	57782030	57782030	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgcacaccaacctgggtgCgaagaagaagccgccaccct	11	5	10	15	3	0	2	0	0	0	2	1	3	0	2	5	1	3	1	5	1	4	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	57782030	C	G	57782030	3	3	54	1	0	0	0	0	1	0	0	0	18184	760	27	4	3956	4	ZNF831	20	57782030	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	23731698	57782030	5243490	66	3153											
BCL2L13	23786	hgsc.bcm.edu	37	chr22	18210157	18210157	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcccgtgccgccgtctgagGgcaagtctagactgtccccc	6	7	12	16	3	2	2	0	1	2	1	3	2	3	2	5	1	2	1	5	1	2	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		A	18210157	G	A	18210157	3	1	54	1	0	0	0	0	1	0	0	0	1371	1232	43	2	1337	2	BCL2L13	22	18210157	Missense_Mutation	SNP	G	TCGA-B0-4690-01A-01D-1361-10		18210157	33094409	67	3154											
SRRD	402055	hgsc.bcm.edu	37	chr22	26886035	26886035	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacggagtattcgcggggAgcctaccatcttttacatgc	10	10	11	10	3	1	0	0	0	1	0	2	3	1	2	2	3	5	1	2	3	4	5	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	26886035	A	C	26886035	3	2	54	1	0	0	0	0	1	0	0	0	15168	304	11	5	653	5	SRRD	22	26886035	Missense_Mutation	SNP	A	TCGA-B0-4690-01A-01D-1361-10	8675878	26886035	24418531	68	3155											
MN1	4330	hgsc.bcm.edu	37	chr22	28146982	28146982	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gccaggtgggcacggaggctCgagccttggcgtcacccacg	6	5	16	14	4	1	0	1	0	0	0	2	2	1	1	3	5	1	2	3	5	0	1	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		G	28146982	C	G	28146982	3	3	54	1	0	0	0	0	1	0	0	0	9673	884	31	4	82	4	MN1	22	28146982	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10	1260947	28146982	23157584	69	3156											
SEPT3	55964	hgsc.bcm.edu	37	chr22	42388735	42388735	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaatggcaagagggtccTcggccgaaaaactccatggg	12	6	14	9	2	0	2	0	1	0	1	3	3	2	2	3	4	1	1	3	4	4	0	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		C	42388735	T	C	42388735	3	2	54	1	0	0	0	0	1	0	0	0	14067	1551	54	3	863	3	SEPT3	22	42388735	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01D-1361-10	14241753	42388735	8915831	70	3157											
ZCCHC12	170261	hgsc.bcm.edu	37	chrX	117959578	117959578	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaattggtgtttggggagtCtgaaagcagtgtgactgccc	9	11	15	6	0	1	2	0	2	1	0	1	4	1	3	1	3	2	2	1	3	2	2	novel		TCGA-B0-4690-01A-01D-1361-10	TCGA-B0-4690-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c850b39-135b-40e7-a23f-89b210cf8c0c	4478e8fc-6432-477e-8de5-3f15d3e0ad44		T	117959578	C	T	117959578	3	4	54	1	0	0	0	0	1	0	0	0	17580	913	32	2	373	2	ZCCHC12	23	117959578	Missense_Mutation	SNP	C	TCGA-B0-4690-01A-01D-1361-10		117959578	37310982	71	3158											
VHL	7428	hgsc.bcm.edu	37	chr3	10183857	10183857	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcacgggccgccgcaTccacagctaccgaggtacgg	7	4	14	16	5	0	0	0	0	0	0	1	1	1	0	5	4	3	4	5	4	2	2	novel		TCGA-B0-4690-01A-01W-1359-10	TCGA-B0-4690-11A-01W-1359-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	3d37e399-27f4-4e5c-ad28-263eeafa5f07	d61e871d-a7b0-4dd2-9e71-19b3bb6033e9		A	10183857	T	A	10183857	3	1	55	1	0	0	0	0	1	0	0	0	17161	1435	50	5	328	5	VHL	3	10183857	Missense_Mutation	SNP	T	TCGA-B0-4690-01A-01W-1359-10		10183857	187838573	1	3159											
GNL2	29889	hgsc.bcm.edu	37	chr1	38056444	38056444	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcttaatcacacgtgtgtTtcctgttttacaaataaaga	12	15	6	8	1	1	1	1	0	0	1	2	1	2	1	1	0	2	3	1	0	5	5	rs112315084		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	38056444	T	G	38056444	3	3	56	1	0	0	0	0	1	0	0	0	6536	1841	64	5	2000	5	GNL2	1	38056444	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10		38056444	211194177	1	3160											
ZNF642	0	hgsc.bcm.edu	37	chr1	40945114	40945114	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccaaagaaggccgtggaGggggcgcccctgtgggagga	9	4	18	10	2	0	1	0	0	0	1	1	4	1	4	4	6	0	0	4	6	2	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	40945114	G	T	40945114	3	4	56	1	0	0	0	0	1	0	0	0	18057	991	35	4	83	4	ZNF642	1	40945114	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	2888670	40945114	208305507	2	3161											
KANK4	163782	hgsc.bcm.edu	37	chr1	62740019	62740019	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagcacattctggaatgAgaaaggagggcctgggagag	14	6	15	6	0	1	2	0	1	1	2	1	6	1	4	1	4	2	1	1	4	4	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	62740019	A	G	62740019	3	3	56	1	0	0	0	0	1	0	0	0	7979	304	11	3	2262	3	KANK4	1	62740019	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	21794905	62740019	186510602	3	3162											
BCL10	8915	hgsc.bcm.edu	37	chr1	85736490	85736490	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgttcgacaagaaatttcttCagtgtcttctctactgagta	10	16	7	8	1	4	2	1	1	3	1	6	3	4	2	0	0	1	2	0	0	4	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	85736490	C	G	85736490	3	3	56	1	0	0	0	0	1	0	0	0	1362	835	29	4	552	4	BCL10	1	85736490	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	22996471	85736490	163514131	4	3163											
NTNG1	22854	hgsc.bcm.edu	37	chr1	107867021	107867021	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacattttggcagtctgccActtggaaggagtatcccaag	10	10	10	11	0	1	0	0	0	1	0	2	2	2	2	3	3	1	2	3	3	3	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	107867021	A	T	107867021	3	4	56	1	0	0	0	0	1	0	0	0	10704	159	6	5	370	5	NTNG1	1	107867021	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	22130531	107867021	141383600	5	3164											
NOTCH2	4853	hgsc.bcm.edu;ucsc.edu	37	chr1	120539837	120539837	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgacatcagtctcacaTttctgccctgtgaagcctgt	8	14	7	12	0	4	2	3	2	2	0	5	2	4	2	2	0	2	0	2	0	1	2	rs1616532	bycluster;byfrequency	TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	120539837	T	C	120539837	2	2	56	1	0	0	0	0	0	0	0	1	10548	1490	52	3		3	NOTCH2	1	120539837	Silent	SNP	T	TCGA-B0-4691-01A-01D-1361-10	12672816	120539837	128710784	6	3165											
ITGA10	8515	hgsc.bcm.edu	37	chr1	145532550	145532550	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccagatgagcgattctttTtcaatgtcacagatgaggct	11	13	9	8	1	3	4	2	2	1	2	4	5	4	4	1	1	1	1	1	1	1	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	145532550	T	C	145532550	3	2	56	1	0	0	0	0	1	0	0	0	7873	1841	64	3	1037	3	ITGA10	1	145532550	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	24992713	145532550	103718071	7	3166											
TDRD10	126668	hgsc.bcm.edu;ucsc.edu	37	chr1	154517301	154517301	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggacagggtggacacctgGgctgtggtcatgttcattga	7	11	15	8	0	2	1	2	1	0	0	2	3	2	3	1	5	0	2	1	5	0	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	154517301	G	T	154517301	3	4	56	1	0	0	0	0	1	0	0	0	15730	1241	43	4	866	4	TDRD10	1	154517301	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	8984751	154517301	94733320	8	3167											
IL24	11009	hgsc.bcm.edu;ucsc.edu	37	chr1	207072689	207072689	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgccctcctttgctggcGacagcctctcaaatgcagat	7	12	8	14	1	2	1	1	0	2	1	4	2	3	1	3	1	4	2	3	1	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	207072689	G	A	207072689	2	1	56	1	0	0	0	0	0	0	0	1	7677	1045	37	1		1	IL24	1	207072689	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	52555388	207072689	42177932	9	3168											
EPHX1	2052	hgsc.bcm.edu	37	chr1	226027044	226027044	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taatatggcccagctggtgcCcaggtgaggtcactgttggg	7	10	15	9	0	1	1	1	1	0	0	1	1	1	1	2	5	2	2	2	5	2	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	226027044	C	A	226027044	3	1	56	1	0	0	0	0	1	0	0	0	5179	623	22	4	733	4	EPHX1	1	226027044	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	18954355	226027044	23223577	10	3169											
GPR113	165082	hgsc.bcm.edu	37	chr2	26540932	26540932	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggcccacattgtctggcCcttgggccatcggccaaagc	6	8	12	15	1	1	0	0	0	1	0	2	0	1	0	4	4	1	0	4	4	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	26540932	C	T	26540932	3	4	56	1	0	0	0	0	1	0	0	0	6630	623	22	2	3138	2	GPR113	2	26540932	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10		26540932	216658441	11	3170											
WDR43	23160	hgsc.bcm.edu	37	chr2	29164351	29164351	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgacctggtaccccagctgGggacactctaccagttaatg	9	9	10	13	0	1	1	0	1	1	0	1	2	1	2	4	3	3	3	4	3	3	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	29164351	G	T	29164351	3	4	56	1	0	0	0	0	1	0	0	0	17294	1232	43	4	1703	4	WDR43	2	29164351	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	2623419	29164351	214035022	12	3171											
XPO1	7514	hgsc.bcm.edu	37	chr2	61717806	61717806	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggattatactatcccAcacttgattagggagtaaca	12	12	8	9	0	0	1	0	1	0	0	1	3	1	3	1	2	3	2	1	2	5	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	61717806	A	G	61717806	3	3	56	1	0	0	0	0	1	0	0	0	17444	159	6	3	1258	3	XPO1	2	61717806	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	32553455	61717806	181481567	13	3172											
DUSP11	8446	hgsc.bcm.edu	37	chr2	74001019	74001019	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgatgtccaactgtaaaaAtttttaagtaaggaacagtt	15	14	7	5	0	0	1	0	1	0	0	1	2	1	2	1	1	2	3	1	1	7	7	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	74001019	A	G	74001019	3	3	56	1	0	0	0	0	1	0	0	0	4811	101	4	3	675	3	DUSP11	2	74001019	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	12283213	74001019	169198354	14	3173											
ZC3H6	376940	hgsc.bcm.edu	37	chr2	113089834	113089834	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaggggccagctgacccAcaggcggacgttcccaggag	8	5	15	13	2	0	2	0	2	0	0	1	4	1	4	3	5	1	2	3	5	0	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	113089834	A	G	113089834	2	3	56	1	0	0	0	0	0	0	0	1	17570	146	6	3		3	ZC3H6	2	113089834	Silent	SNP	A	TCGA-B0-4691-01A-01D-1361-10	39088815	113089834	130109539	15	3174											
PSD4	23550	hgsc.bcm.edu	37	chr2	113942954	113942954	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcaacaggcctctctcagcCctgagggctggcagagagga	9	6	13	13	0	3	2	2	1	1	1	4	4	3	3	2	4	2	2	2	4	1	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	113942954	C	T	113942954	3	4	56	1	0	0	0	0	1	0	0	0	12651	623	22	2	1196	2	PSD4	2	113942954	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	853120	113942954	129256419	16	3175											
SP3	6670	hgsc.bcm.edu	37	chr2	174819867	174819867	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgccaagttacctgtccaGaaggggtcactgtctgtgcc	7	12	11	11	0	2	1	1	0	1	1	3	1	3	1	4	2	3	1	4	2	3	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	174819867	G	A	174819867	3	1	56	1	0	0	0	0	1	0	0	0	14967	942	33	2	988	2	SP3	2	174819867	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	60876913	174819867	68379506	17	3176											
NAB1	4664	hgsc.bcm.edu	37	chr2	191524675	191524675	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagtgcaatatatggcaGatttgactcaaagaggaagg	16	9	11	5	0	1	3	1	1	0	2	1	4	1	4	0	3	2	2	0	3	6	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	191524675	G	T	191524675	3	4	56	1	0	0	0	0	1	0	0	0	10131	942	33	4	775	4	NAB1	2	191524675	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	16704808	191524675	51674698	18	3177											
MARS2	92935	hgsc.bcm.edu	37	chr2	198571043	198571043	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttggtggccggccacctCtcatatcataggtaaggaca	10	10	10	11	1	3	0	2	0	2	0	4	1	3	1	3	5	0	1	3	5	3	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	198571043	C	A	198571043	3	1	56	1	0	0	0	0	1	0	0	0	9317	913	32	4	916	4	MARS2	2	198571043	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	7046368	198571043	44628330	19	3178											
ALS2	57679	hgsc.bcm.edu	37	chr2	202593234	202593234	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggttaggaatccagcctaCctgggcatggaccagggcat	11	7	13	10	0	0	0	0	0	0	0	1	2	1	2	4	5	2	3	4	5	4	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	202593234	C	G	202593234	5	3	56	1	0	0	0	0	0	0	1	0	550	521	18	4	2211	4	ALS2	2	202593234	Splice_Site	SNP	C	TCGA-B0-4691-01A-01D-1361-10	4022191	202593234	40606139	20	3179											
ZDBF2	57683	hgsc.bcm.edu	37	chr2	207170632	207170632	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgatgacattcttcacttGgttaccaaccaatcccaaat	12	13	5	11	0	2	2	1	2	1	0	3	2	3	2	3	1	2	1	3	1	4	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	207170632	G	T	207170632	3	4	56	1	0	0	0	0	1	0	0	0	17598	1339	47	4	1390	4	ZDBF2	2	207170632	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	4577398	207170632	36028741	21	3180											
ANO7	50636	hgsc.bcm.edu	37	chr2	242154264	242154264	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctggcacaggagctcctGgtcatcatggtgggcaagca	9	7	15	10	0	2	0	2	0	0	0	3	2	3	1	1	5	3	5	1	5	1	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	242154264	G	A	242154264	2	1	56	1	0	0	0	0	0	0	0	1	702	1335	47	2		2	ANO7	2	242154264	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	34983632	242154264	1045109	22	3181											
TMEM111	0	hgsc.bcm.edu	37	chr3	10011439	10011439	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctgcgggcatggccatGgctgctcccgtcatctgctc	3	11	13	14	2	3	0	1	0	2	0	5	0	4	0	2	3	3	4	2	3	0	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	10011439	G	A	10011439	2	1	56	1	0	0	0	0	0	0	0	1	16027	1335	47	2		2	TMEM111	3	10011439	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10		10011439	188010991	23	3182											
HDAC11	79885	hgsc.bcm.edu;ucsc.edu	37	chr3	13522780	13522780	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agctgtaccagcatgtgccaGagacacgctggccaatcgtg	10	7	12	12	2	0	1	0	0	0	1	1	2	0	1	3	1	4	4	3	1	2	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	13522780	G	C	13522780	3	2	56	1	0	0	0	0	1	0	0	0	7006	943	33	4	43	4	HDAC11	3	13522780	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	3511341	13522780	184499650	24	3183											
RNF123	63891	hgsc.bcm.edu	37	chr3	49737755	49737755	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacagtccgtggtgcaccaGgtcctggacctcttgtggct	5	10	13	13	1	1	0	0	0	1	0	3	1	3	1	4	4	1	3	4	4	0	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	49737755	G	T	49737755	3	4	56	1	0	0	0	0	1	0	0	0	13435	991	35	4	1126	4	RNF123	3	49737755	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	36214975	49737755	148284675	25	3184											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52441470	52441470	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattgccaatcgcatatcCtttgctctacggggaagaaa	11	10	10	10	2	1	1	0	0	1	1	3	2	2	2	2	3	3	3	2	3	5	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	52441470	C	A	52441470	4	1	56	1	0	0	0	0	0	1	0	0	1311	690	24	4	1855	4	BAP1	3	52441470	Nonsense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	2703715	52441470	145580960	26	3185											
CHDH	55349	hgsc.bcm.edu;ucsc.edu	37	chr3	53853013	53853013	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggtcttggggattggCacttctcagtttgagccagc	6	12	15	8	0	2	1	1	1	2	0	3	2	2	2	1	5	2	2	1	5	0	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	53853013	C	T	53853013	3	4	56	1	0	0	0	0	1	0	0	0	3333	710	25	2	474	2	CHDH	3	53853013	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	1411543	53853013	144169417	27	3186											
FLNB	2317	hgsc.bcm.edu	37	chr3	58088038	58088038	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caccaaagctgcaggaagtgGggagctcggtgtaaccatga	12	6	14	9	1	0	1	0	1	0	0	1	3	0	3	2	4	4	4	2	4	3	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	58088038	G	T	58088038	3	4	56	1	0	0	0	0	1	0	0	0	5934	1232	43	4	1488	4	FLNB	3	58088038	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	4235025	58088038	139934392	28	3187											
RG9MTD1	0	hgsc.bcm.edu	37	chr3	101284157	101284157	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagataaacagaaaaactttCtatttttacgactttgggat	16	14	6	5	1	1	2	0	0	1	2	1	4	1	3	0	1	3	0	0	1	7	7	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	101284157	C	A	101284157	3	1	56	1	0	0	0	0	1	0	0	0	13273	912	32	4	534	4	RG9MTD1	3	101284157	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	43196119	101284157	96738273	29	3188											
ARHGAP31	57514	hgsc.bcm.edu	37	chr3	119134491	119134491	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggagggacccagctcaAccagtgggaccactcagaaa	13	3	12	13	0	2	1	2	0	0	1	2	4	2	4	4	3	2	1	4	3	2	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	119134491	A	G	119134491	3	3	56	1	0	0	0	0	1	0	0	0	880	43	2	3	3761	3	ARHGAP31	3	119134491	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	17850334	119134491	78887939	30	3189											
CLSTN2	64084	hgsc.bcm.edu	37	chr3	140281788	140281788	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctacactagcaatgagtTcaacttggaggtgagtgggt	10	10	14	7	1	1	2	1	2	0	0	1	3	1	3	0	3	3	3	0	3	4	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	140281788	T	C	140281788	3	2	56	1	0	0	0	0	1	0	0	0	3562	1783	62	3	2402	3	CLSTN2	3	140281788	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	21147297	140281788	57740642	31	3190											
TBC1D1	23216	hgsc.bcm.edu	37	chr4	38016542	38016542	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccacctcattagcggacAcaatattgtgcagcccacag	13	7	8	13	1	1	0	1	0	0	0	1	2	1	1	3	1	4	1	3	1	4	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	38016542	A	G	38016542	3	3	56	1	0	0	0	0	1	0	0	0	15596	159	6	3	836	3	TBC1D1	4	38016542	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10		38016542	153137734	32	3191											
EXOC1	55763	hgsc.bcm.edu	37	chr4	56738088	56738088	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagagctttttgcccggagActggccagtcacctcaacaa	10	8	10	13	2	2	2	2	0	0	2	2	4	2	2	3	2	3	1	3	2	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	56738088	A	G	56738088	2	3	56	1	0	0	0	0	0	0	0	1	5301	272	10	3		3	EXOC1	4	56738088	Silent	SNP	A	TCGA-B0-4691-01A-01D-1361-10	18721546	56738088	134416188	33	3192											
LPHN3	23284	hgsc.bcm.edu;ucsc.edu	37	chr4	62935947	62935947	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcaactgtgtgcaaatcaTagaccgtggctataaccata	14	9	9	9	1	1	1	1	0	0	1	1	2	1	1	2	1	4	3	2	1	6	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	62935947	T	A	62935947	3	1	56	1	0	0	0	0	1	0	0	0	8917	1406	49	5	3821	5	LPHN3	4	62935947	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	6197859	62935947	128218329	34	3193											
SYNPO2	171024	hgsc.bcm.edu;ucsc.edu	37	chr4	119978853	119978853	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgaaagactgtcctatattCctcaaacccagaaggcctat	14	10	6	11	0	1	3	1	1	0	2	3	3	3	3	4	1	1	0	4	1	6	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	119978853	C	T	119978853	3	4	56	1	0	0	0	0	1	0	0	0	15456	855	30	2	3680	2	SYNPO2	4	119978853	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	57042906	119978853	71175423	35	3194											
CCDC110	256309	hgsc.bcm.edu	37	chr4	186380243	186380243	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaagacactctttgctgtAttcttctgttttacttaact	8	21	4	8	0	3	1	0	0	3	1	3	1	3	1	0	0	3	3	0	0	4	9	rs59319722	bycluster;byfrequency;by1000genomes	TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	186380243	A	C	186380243	3	2	56	1	0	0	0	0	1	0	0	0	2747	449	16	5	1011	5	CCDC110	4	186380243	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	66401390	186380243	4774033	36	3195											
GPR98	84059	hgsc.bcm.edu;ucsc.edu	37	chr5	90144583	90144583	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcactttgctgaagtgactGagaattttgccttttctctg	7	17	9	8	0	2	3	1	3	1	1	3	4	2	3	1	0	2	1	1	0	2	5	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	90144583	G	A	90144583	3	1	56	1	0	0	0	0	1	0	0	0	6721	1291	45	2	17463	2	GPR98	5	90144583	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10		90144583	90770677	37	3196											
RAD50	10111	hgsc.bcm.edu;ucsc.edu	37	chr5	131973813	131973813	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctgatgccgatgaaaaTgtatcagcttctgataaaag	13	11	10	7	2	3	3	1	3	2	0	3	4	3	3	1	1	2	2	1	1	5	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	131973813	T	G	131973813	3	3	56	1	0	0	0	0	1	0	0	0	12986	1461	51	5	3606	5	RAD50	5	131973813	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	41829230	131973813	48941447	38	3197											
FLT4	2324	hgsc.bcm.edu;ucsc.edu	37	chr5	180057623	180057623	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgatgtacttgtagtagCagacgtagctgcctgtgtcg	7	13	12	9	2	0	2	0	1	0	1	1	2	0	2	2	0	4	6	2	0	4	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	180057623	C	T	180057623	3	4	56	1	0	0	0	0	1	0	0	0	5944	710	25	2	3879	2	FLT4	5	180057623	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	48083810	180057623	857637	39	3198											
HSPA1L	3305	hgsc.bcm.edu	37	chr6	31778695	31778695	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccattgaagtagtcctgaAgcagccgctgcaccttgggg	8	9	13	11	1	0	2	0	2	0	0	2	2	2	2	4	2	3	4	4	2	3	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	31778695	A	G	31778695	3	3	56	1	0	0	0	0	1	0	0	0	7410	72	3	3	874	3	HSPA1L	6	31778695	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10		31778695	139336372	40	3199											
LRRC1	55227	hgsc.bcm.edu	37	chr6	53787551	53787551	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggactcaaacaaaaacgAggtcaatcatgccattgacc	16	7	7	11	1	3	1	3	1	0	0	3	3	3	2	2	2	3	0	2	2	4	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	53787551	A	G	53787551	3	3	56	1	0	0	0	0	1	0	0	0	8966	304	11	3	1589	3	LRRC1	6	53787551	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	22008856	53787551	117327516	41	3200											
ZNF292	23036	hgsc.bcm.edu	37	chr6	87970404	87970404	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagattgtgcagattgaaGaaaataagccttattctctg	15	12	8	6	0	1	4	0	1	1	3	2	4	1	4	1	0	2	1	1	0	6	5	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	87970404	G	T	87970404	4	4	56	1	0	0	0	0	0	1	0	0	17825	943	33	4	7087	4	ZNF292	6	87970404	Nonsense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	34182853	87970404	83144663	42	3201											
USP45	85015	hgsc.bcm.edu	37	chr6	99924089	99924089	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtcctgttgctggaaaTctttaaatcgaggtgccctg	8	13	11	9	1	1	0	0	0	1	0	3	3	2	1	2	2	2	2	2	2	3	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	99924089	T	C	99924089	3	2	56	1	0	0	0	0	1	0	0	0	17075	1435	50	3	1621	3	USP45	6	99924089	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	11953685	99924089	71190978	43	3202											
CTTNBP2	83992	hgsc.bcm.edu	37	chr7	117431331	117431331	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtccgggggttgcagcaGgccaggcacccacctgagac	8	5	14	14	1	1	1	1	1	0	1	2	2	2	1	4	4	2	4	4	4	0	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	117431331	G	T	117431331	3	4	56	1	0	0	0	0	1	0	0	0	4045	1000	35	4	3152	4	CTTNBP2	7	117431331	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10		117431331	41707332	44	3203											
TRPV6	55503	hgsc.bcm.edu	37	chr7	142571254	142571254	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactcgccagtgagtgtcgcCcatcatggcaatgaggaggt	9	8	13	11	2	1	2	1	2	0	0	3	3	1	3	2	3	0	1	2	3	1	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	142571254	C	A	142571254	3	1	56	1	0	0	0	0	1	0	0	0	16599	623	22	4	454	4	TRPV6	7	142571254	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	25139923	142571254	16567409	45	3204											
PIP	5304	hgsc.bcm.edu	37	chr7	142832380	142832380	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagttcaaacagaattgaaAgaatgcatggtggtaagtag	16	9	12	4	0	1	3	1	1	0	2	1	3	1	3	0	2	2	5	0	2	6	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	142832380	A	G	142832380	2	3	56	1	0	0	0	0	0	0	0	1	11935	69	3	3		3	PIP	7	142832380	Silent	SNP	A	TCGA-B0-4691-01A-01D-1361-10	261126	142832380	16306283	46	3205											
EZH2	2146	hgsc.bcm.edu	37	chr7	148512045	148512045	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttttcacaaaaattttGtgctatcacacaagggcacg	15	11	6	9	1	2	0	2	0	0	0	2	0	2	0	0	1	2	2	0	1	5	5	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	148512045	G	A	148512045	4	1	56	1	0	0	0	0	0	1	0	0	5334	1386	48	2	650	2	EZH2	7	148512045	Nonsense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	5679665	148512045	10626618	47	3206											
ZNF777	27153	hgsc.bcm.edu;ucsc.edu	37	chr7	149133877	149133877	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaactttctgagccctcgtcGttggtctgtacctcgatctt	6	15	8	12	3	3	1	0	1	3	0	6	2	3	1	2	1	3	2	2	1	2	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	149133877	G	T	149133877	3	4	56	1	0	0	0	0	1	0	0	0	18149	1136	40	4	1375	4	ZNF777	7	149133877	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	621832	149133877	10004786	48	3207											
PRKAG2	51422	hgsc.bcm.edu;ucsc.edu	37	chr7	151483611	151483611	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccgtccaggagcggcatgGcgaaggagctcaggtcctag	8	6	15	12	3	1	0	1	0	0	0	4	3	4	2	3	5	2	2	3	5	2	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	151483611	G	A	151483611	3	1	56	1	0	0	0	0	1	0	0	0	12503	1203	42	2	1638	2	PRKAG2	7	151483611	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	2349734	151483611	7655052	49	3208											
CSMD1	64478	hgsc.bcm.edu	37	chr8	3265502	3265502	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aactatatgcccactgctggCcagctgggaaggcacttcat	10	9	10	12	0	1	0	1	0	0	0	1	1	1	1	2	3	4	3	2	3	4	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	3265502	C	A	3265502	3	1	56	1	0	0	0	0	1	0	0	0	3944	739	26	4	8932	4	CSMD1	8	3265502	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10		3265502	143098520	50	3209											
RLN1	6013	hgsc.bcm.edu	37	chr9	5339628	5339629	+	Frame_Shift_Del	DEL	AC	AC	-																															aaatggcaatctgcgcgcgaActaattcgcggccgcataat																								novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		-	5339629	AC	-	5339628	7	5	56	1	0	1	0	1	0	0	0	0	13393	43	2	0	446	0	RLN1	9	5339628	Frame_Shift_Del	DEL	AC	TCGA-B0-4691-01A-01D-1361-10		5339628	135873803	51	3210											
RALGDS	5900	hgsc.bcm.edu	37	chr9	135985694	135985694	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgctcaccttttgaacagCaggtccaggacctgttgggt	8	11	11	11	0	1	1	1	1	0	0	2	2	2	2	3	3	3	3	3	3	1	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	135985694	C	A	135985694	2	1	56	1	0	0	0	0	0	0	0	1	13018	697	25	4		4	RALGDS	9	135985694	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	130646066	135985694	5227737	52	3211											
PITRM1	10531	hgsc.bcm.edu;ucsc.edu	37	chr10	3200259	3200259	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcatcaatcgttctgtctAtgaggcttctgacggtctca	7	15	8	11	2	6	2	3	2	4	0	8	2	6	2	0	2	0	2	0	2	2	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	3200259	A	G	3200259	3	3	56	1	0	0	0	0	1	0	0	0	11953	449	16	3	1958	3	PITRM1	10	3200259	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10		3200259	132334488	53	3212											
HSPA14	51182	hgsc.bcm.edu;ucsc.edu	37	chr10	14893312	14893312	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattggacaagactcccctActggaaaaaggtaaagatca	17	7	9	8	0	1	2	1	0	0	2	2	5	2	4	2	3	1	1	2	3	7	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	14893312	A	T	14893312	3	4	56	1	0	0	0	0	1	0	0	0	7407	391	14	5	588	5	HSPA14	10	14893312	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	11693053	14893312	120641435	54	3213											
P4HA1	5033	hgsc.bcm.edu;ucsc.edu	37	chr10	74806681	74806681	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaaagaaaacattatttAcccttggttttgctaggtct	14	14	7	6	0	1	2	0	0	1	2	1	2	1	2	1	2	3	2	1	2	7	7	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	74806681	A	C	74806681	5	2	56	1	0	0	0	0	0	0	1	0	11356	405	14	5	632	5	P4HA1	10	74806681	Splice_Site	SNP	A	TCGA-B0-4691-01A-01D-1361-10	59913369	74806681	60728066	55	3214											
MMS19	64210	hgsc.bcm.edu	37	chr10	99220744	99220744	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtccacagctagctgtaGgaattcatccagctgctgcc	8	12	9	12	0	1	0	1	0	0	0	3	1	3	1	3	1	5	5	3	1	3	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	99220744	G	A	99220744	2	1	56	1	0	0	0	0	0	0	0	1	9672	991	35	2		2	MMS19	10	99220744	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	24414063	99220744	36314003	56	3215											
MKI67	4288	hgsc.bcm.edu	37	chr10	129903530	129903530	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcaagccagccaagtcttCtaggggttgggcttttccct	6	14	10	11	0	3	0	1	0	2	0	4	0	4	0	3	3	2	2	3	3	3	6	rs139058203	alternate_allele	TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	129903530	C	T	129903530	3	4	56	1	0	0	0	0	1	0	0	0	9598	922	32	2	3208	2	MKI67	10	129903530	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	30682786	129903530	5631217	57	3216											
COPB1	1315	hgsc.bcm.edu;ucsc.edu	37	chr11	14510041	14510041	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagattatcattcttaccttAtaaatcagttcaacaataac	16	15	2	8	0	4	1	3	0	1	1	4	1	4	1	1	0	3	1	1	0	9	8	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	14510041	A	C	14510041	4	2	56	1	0	0	0	0	0	1	0	0	3728	456	16	5	2233	5	COPB1	11	14510041	Nonsense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10		14510041	120496475	58	3217											
GTF2H1	2965	hgsc.bcm.edu	37	chr11	18359819	18359819	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcatttctgctgcatttCtggtatgtgagccttctaga	6	17	10	8	0	3	2	0	1	3	1	3	2	3	2	1	2	3	4	1	2	2	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	18359819	C	A	18359819	3	1	56	1	0	0	0	0	1	0	0	0	6860	912	32	4	521	4	GTF2H1	11	18359819	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	3849778	18359819	116646697	59	3218											
DYNC2H1	79659	hgsc.bcm.edu	37	chr11	103025274	103025274	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtgcccaaatttgggccTtttatgaagagtttcaacaa	11	13	9	8	0	1	2	1	1	0	1	1	2	1	2	2	1	2	2	2	1	5	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	103025274	T	G	103025274	3	3	56	1	0	0	0	0	1	0	0	0	4846	1609	56	5	3487	5	DYNC2H1	11	103025274	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	84665455	103025274	31981242	60	3219											
SORL1	6653	hgsc.bcm.edu;ucsc.edu	37	chr11	121498365	121498365	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcctgggggtggggtttGccatcctgtacacgaagcac	7	9	15	10	1	0	1	0	1	0	0	1	2	1	1	3	4	4	3	3	4	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	121498365	G	C	121498365	3	2	56	1	0	0	0	0	1	0	0	0	14936	1319	46	4	6652	4	SORL1	11	121498365	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	18473091	121498365	13508151	61	3220											
GRAMD1B	57476	hgsc.bcm.edu	37	chr11	123477468	123477468	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caatgacaatgaggacatccCcactgagctcagtgactctt	12	9	8	12	0	2	4	1	4	1	0	3	5	3	5	2	1	1	1	2	1	2	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	123477468	C	A	123477468	3	1	56	1	0	0	0	0	1	0	0	0	6748	623	22	4	1084	4	GRAMD1B	11	123477468	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	1979103	123477468	11529048	62	3221											
OR10G7	390265	hgsc.bcm.edu	37	chr11	123909172	123909172	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcaggatgggcggtgcGtcacagaagtagtgctggat	9	10	16	6	2	2	1	2	0	0	1	2	3	2	3	0	4	2	3	0	4	2	2	rs78239494		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	123909172	G	A	123909172	2	1	56	1	0	0	0	0	0	0	0	1	10902	1136	40	1		1	OR10G7	11	123909172	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	431704	123909172	11097344	63	3222											
PLEKHA5	54477	hgsc.bcm.edu	37	chr12	19440437	19440437	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctgacagaaggtcagtgCcagctggcctgactttacag	9	9	12	11	0	1	3	1	2	0	1	1	3	1	3	3	2	4	1	3	2	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	19440437	C	A	19440437	3	1	56	1	0	0	0	0	1	0	0	0	12059	739	26	4	1838	4	PLEKHA5	12	19440437	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10		19440437	114411458	64	3223											
FAM113B	0	hgsc.bcm.edu	37	chr12	47630058	47630058	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggttttggcaggtatcgTccccgtggcccctatacgcc	5	10	13	13	3	0	0	0	0	0	0	2	0	1	0	5	5	1	3	5	5	3	5	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	47630058	T	A	47630058	2	1	56	1	0	0	0	0	0	0	0	1	5402	1654	58	5		5	FAM113B	12	47630058	Silent	SNP	T	TCGA-B0-4691-01A-01D-1361-10	28189621	47630058	86221837	65	3224											
ITGB7	3695	hgsc.bcm.edu	37	chr12	53586257	53586257	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagggtcacattggtatggGcacaagctgtactgcagttg	9	10	13	9	0	1	0	1	0	0	0	1	0	1	0	1	3	3	6	1	3	3	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	53586257	G	C	53586257	3	2	56	1	0	0	0	0	1	0	0	0	7900	1203	42	4	396	4	ITGB7	12	53586257	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	5956199	53586257	80265638	66	3225											
LRRIQ1	84125	hgsc.bcm.edu;ucsc.edu	37	chr12	85439805	85439805	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttaacctcttagatattatCtgaaatagaaaaagaagaat	19	13	5	4	0	2	5	0	1	2	4	2	5	2	5	1	0	1	0	1	0	10	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	85439805	C	G	85439805	3	3	56	1	0	0	0	0	1	0	0	0	9029	913	32	4	358	4	LRRIQ1	12	85439805	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	31853548	85439805	48412090	67	3226											
P2RX2	22953	hgsc.bcm.edu	37	chr12	133198303	133198303	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtacgccgagccacccCtcaggtagctggcctgtgac	6	8	13	14	2	1	1	1	1	0	0	1	2	1	1	5	2	3	3	5	2	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	133198303	C	A	133198303	2	1	56	1	0	0	0	0	0	0	0	1	11340	668	24	4		4	P2RX2	12	133198303	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	47758498	133198303	653592	68	3227											
C1QTNF9	338872	hgsc.bcm.edu	37	chr13	24895240	24895240	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcccatgggagagaaGggcctccgaggagagactgg	10	3	19	9	1	0	2	0	0	0	2	1	7	1	4	3	5	0	1	3	5	1	0	rs3751354	bycluster;byfrequency	TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	24895240	G	A	24895240	2	1	56	1	0	0	0	0	0	0	0	1	1970	991	35	2		2	C1QTNF9	13	24895240	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10		24895240	90274638	69	3228											
FRY	10129	hgsc.bcm.edu	37	chr13	32836597	32836597	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatgaataatctgcagatTtctgagggttcaaaggtgaa	14	12	11	4	0	3	4	1	3	2	1	3	5	3	4	0	2	1	2	0	2	5	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	32836597	T	C	32836597	2	2	56	1	0	0	0	0	0	0	0	1	6063	1829	64	3		3	FRY	13	32836597	Silent	SNP	T	TCGA-B0-4691-01A-01D-1361-10	7941357	32836597	82333281	70	3229											
KIAA0564	0	hgsc.bcm.edu	37	chr13	42460952	42460952	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggctccaattgaatataaCaacttaagttggtcctaaag	14	13	7	7	0	0	1	0	1	0	0	2	1	2	1	2	2	2	2	2	2	8	7	rs138269345	by1000genomes;alternate_allele	TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	42460952	C	T	42460952	2	4	56	1	0	0	0	0	0	0	0	1	8185	477	17	2		2	KIAA0564	13	42460952	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	9624355	42460952	72708926	71	3230											
MYCBP2	23077	hgsc.bcm.edu;ucsc.edu	37	chr13	77669615	77669615	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtaacacagaatgctcggTtctgctgcactgctcaggga	9	10	12	10	1	2	1	1	0	1	1	3	2	2	2	0	3	5	6	0	3	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	77669615	T	C	77669615	2	2	56	1	0	0	0	0	0	0	0	1	10018	1722	60	3		3	MYCBP2	13	77669615	Silent	SNP	T	TCGA-B0-4691-01A-01D-1361-10	35208663	77669615	37500263	72	3231											
COL4A2	1284	hgsc.bcm.edu	37	chr13	111156500	111156500	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtggcttgcaggtttcCgtggggctccagggaaagct	5	12	16	8	1	0	0	0	0	0	0	2	1	2	1	2	6	2	5	2	6	1	3	rs139124960		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	111156500	C	T	111156500	3	4	56	1	0	0	0	0	1	0	0	0	3690	652	23	1	4465	1	COL4A2	13	111156500	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	33486885	111156500	4013378	73	3232											
DHRS4L1	728635	hgsc.bcm.edu	37	chr14	24513063	24513063	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctgcagactgcagaagAagcatggtgccagtatctgc	11	9	11	10	0	2	3	0	0	2	3	2	3	2	3	1	1	5	4	1	1	3	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	24513063	A	C	24513063	3	2	56	1	0	0	0	0	1	0	0	0	4493	246	9	5	418	5	DHRS4L1	14	24513063	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10		24513063	82836477	74	3233											
PNN	5411	hgsc.bcm.edu	37	chr14	39650383	39650383	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcagcttcaatcccagtcCcaaccagtactccagtccca	10	9	4	18	0	2	0	2	0	0	0	6	0	6	0	5	0	3	2	5	0	3	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	39650383	C	T	39650383	2	4	56	1	0	0	0	0	0	0	0	1	12160	610	22	2		2	PNN	14	39650383	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	15137320	39650383	67699157	75	3234											
CDAN1	146059	hgsc.bcm.edu	37	chr15	43017754	43017754	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagctgcagcggaaccGgcccctgaaagtcttccttc	8	7	11	15	2	1	1	0	1	1	0	3	2	2	2	4	2	5	4	4	2	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	43017754	G	A	43017754	3	1	56	1	0	0	0	0	1	0	0	0	3054	1116	39	1	312	1	CDAN1	15	43017754	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10		43017754	59513638	76	3235											
ONECUT1	3175	hgsc.bcm.edu	37	chr15	53049880	53049880	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgacagtgctcagctccaAccccagctgctgggaaatgg	9	7	12	13	0	1	1	1	1	0	0	2	2	2	2	3	2	5	5	3	2	2	0	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	53049880	A	T	53049880	3	4	56	1	0	0	0	0	1	0	0	0	10868	40	2	5	131	5	ONECUT1	15	53049880	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	10032126	53049880	49481512	77	3236											
HERC1	8925	hgsc.bcm.edu	37	chr15	63932415	63932415	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacggtaaaagattctggaAactgggctccattggtcagg	12	9	13	7	1	2	1	1	0	1	1	3	3	3	2	1	5	2	2	1	5	4	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	63932415	A	G	63932415	3	3	56	1	0	0	0	0	1	0	0	0	7057	14	1	3	2820	3	HERC1	15	63932415	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	10882535	63932415	38598977	78	3237											
SLC28A1	9154	hgsc.bcm.edu	37	chr15	85451987	85451987	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggctggctccagcttcgtGtttggggaggcgctggtcaa	6	10	16	9	2	1	0	1	0	0	0	3	1	2	1	1	6	1	5	1	6	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	85451987	G	T	85451987	2	4	56	1	0	0	0	0	0	0	0	1	14533	1364	48	4		4	SLC28A1	15	85451987	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	21519572	85451987	17079405	79	3238											
CHD2	1106	hgsc.bcm.edu;ucsc.edu	37	chr15	93567834	93567834	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccccttctcagaaatctCctcacgattccaagtcaccc	10	9	3	19	1	4	1	3	0	2	1	7	2	5	1	5	0	0	0	5	0	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	93567834	C	A	93567834	3	1	56	1	0	0	0	0	1	0	0	0	3325	855	30	4	5540	4	CHD2	15	93567834	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	8115847	93567834	8963558	80	3239											
LRRK1	79705	hgsc.bcm.edu	37	chr15	101595284	101595284	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacaacattctggtgtggtcCcttgacgtcaaggagcacat	10	10	11	10	1	2	1	1	1	1	0	3	3	3	2	1	3	2	1	1	3	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	101595284	C	A	101595284	2	1	56	1	0	0	0	0	0	0	0	1	9032	610	22	4		4	LRRK1	15	101595284	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	8027450	101595284	936108	81	3240											
PHKB	5257	hgsc.bcm.edu;ucsc.edu	37	chr16	47622841	47622841	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgctgccctgctcccctGcatcagttatcctgcatttg	6	13	8	14	0	1	1	1	0	0	1	3	1	3	1	4	0	5	5	4	0	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	47622841	G	A	47622841	3	1	56	1	0	0	0	0	1	0	0	0	11845	1319	46	2	993	2	PHKB	16	47622841	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10		47622841	42731912	82	3241											
SCARF1	8578	hgsc.bcm.edu	37	chr17	1538815	1538815	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctaggctggaggtgcgcGggatggcgaatggcgtggag	7	6	22	6	4	0	0	0	0	0	0	0	5	0	3	0	7	2	2	0	7	2	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	1538815	G	A	1538815	3	1	56	1	0	0	0	0	1	0	0	0	13885	1116	39	1	766	1	SCARF1	17	1538815	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10		1538815	79656395	83	3242											
PNMT	5409	hgsc.bcm.edu	37	chr17	37826360	37826360	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttggaggctgtgagcccAgatcttgccagctttcagcg	6	11	13	11	1	2	2	1	1	1	1	2	3	2	3	2	2	5	3	2	2	0	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	37826360	A	G	37826360	2	3	56	1	0	0	0	0	0	0	0	1	12159	175	7	3		3	PNMT	17	37826360	Silent	SNP	A	TCGA-B0-4691-01A-01D-1361-10	36287545	37826360	43368850	84	3243											
TNS4	84951	hgsc.bcm.edu;ucsc.edu	37	chr17	38643651	38643651	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggaagagttggctggacTttccaaggatctggaagatg	11	9	16	5	0	1	2	0	0	1	2	2	7	2	7	1	6	0	2	1	6	3	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	38643651	T	A	38643651	3	1	56	1	0	0	0	0	1	0	0	0	16344	1609	56	5	1262	5	TNS4	17	38643651	Missense_Mutation	SNP	T	TCGA-B0-4691-01A-01D-1361-10	817291	38643651	42551559	85	3244											
PSME3	10197	hgsc.bcm.edu	37	chr17	40990734	40990734	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcaaaggtcctcatatatGttttgacctccaggtcaaaa	13	11	8	9	0	2	1	2	1	0	0	4	1	4	1	3	3	0	2	3	3	5	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	40990734	G	A	40990734	3	1	56	1	0	0	0	0	1	0	0	0	12710	1377	48	2	457	2	PSME3	17	40990734	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	2347083	40990734	40204476	86	3245											
TMUB2	79089	hgsc.bcm.edu	37	chr17	42265113	42265113	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaaacaacctcatgaggTaggtactgtttttaacccca	13	12	6	10	0	2	1	2	1	0	0	2	1	2	1	3	2	4	3	3	2	6	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	42265113	T	C	42265113	5	2	56	1	0	0	0	0	0	0	1	0	16264	1652	57	3	39	3	TMUB2	17	42265113	Splice_Site	SNP	T	TCGA-B0-4691-01A-01D-1361-10	1274379	42265113	38930097	87	3246											
MED13	9969	hgsc.bcm.edu	37	chr17	60023848	60023848	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcacagcatattcataataAagttatataactgattcagc	17	13	4	7	0	3	1	3	1	0	0	3	1	3	1	0	0	3	2	0	0	7	8	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	60023848	A	T	60023848	3	4	56	1	0	0	0	0	1	0	0	0	9430	14	1	5	22	5	MED13	17	60023848	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	17758735	60023848	21171362	88	3247											
HEXDC	284004	hgsc.bcm.edu	37	chr17	80391635	80391635	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctggcgctggtgggcgcCatgattgaccaggtcctgga	5	9	15	12	2	0	2	0	2	0	0	2	3	2	3	4	5	0	1	4	5	0	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	80391635	C	A	80391635	2	1	56	1	0	0	0	0	0	0	0	1	7075	581	21	4		4	HEXDC	17	80391635	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	20367787	80391635	803575	89	3248											
MYOM1	8736	hgsc.bcm.edu;ucsc.edu	37	chr18	3154964	3154964	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatcaataaaatatccgaGaataggactccctccatcga	15	10	5	11	2	1	1	1	0	0	1	5	4	4	2	3	1	0	0	3	1	7	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	3154964	G	T	3154964	3	4	56	1	0	0	0	0	1	0	0	0	10091	942	33	4	3545	4	MYOM1	18	3154964	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10		3154964	74922284	90	3249											
SPIRE1	56907	hgsc.bcm.edu;ucsc.edu	37	chr18	12463349	12463349	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagtctttcctgtacttaCaagagagcgggaactctgcc	11	10	9	11	1	2	1	0	0	2	1	3	3	3	2	2	1	5	1	2	1	5	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	12463349	C	G	12463349	5	3	56	1	0	0	0	0	0	0	1	0	15072	492	17	4	655	4	SPIRE1	18	12463349	Splice_Site	SNP	C	TCGA-B0-4691-01A-01D-1361-10	9308385	12463349	65613899	91	3250											
ASXL3	80816	hgsc.bcm.edu;ucsc.edu	37	chr18	31311982	31311982	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcagctctaaataatgaAttctttgcatatgcagcaca	14	13	5	9	0	3	1	1	1	2	0	3	1	3	1	0	0	4	4	0	0	5	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	31311982	A	T	31311982	3	4	56	1	0	0	0	0	1	0	0	0	1068	98	4	5	964	5	ASXL3	18	31311982	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	18848633	31311982	46765266	92	3251											
NOL4	8715	hgsc.bcm.edu;ucsc.edu	37	chr18	31538245	31538245	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaacgccgtctgtctcAttaactttctccgaatcgtc	7	14	6	14	4	4	0	2	0	3	0	8	1	4	0	2	0	2	1	2	0	3	3	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	31538245	A	T	31538245	3	4	56	1	0	0	0	0	1	0	0	0	10524	214	8	5	742	5	NOL4	18	31538245	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	226263	31538245	46539003	93	3252											
MYO5B	4645	hgsc.bcm.edu;ucsc.edu	37	chr18	47518664	47518664	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcctcccactcacctggaaGaccactctggacttctccaa	10	9	5	17	0	3	1	1	0	2	1	6	3	5	3	5	2	0	0	5	2	2	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	47518664	G	C	47518664	2	2	56	1	0	0	0	0	0	0	0	1	10079	929	33	4		4	MYO5B	18	47518664	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	15980419	47518664	30558584	94	3253											
ANGPTL4	51129	hgsc.bcm.edu;ucsc.edu	37	chr19	8438683	8438683	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagaagcttaagaagggaatCttctggaagacctggcgggg	12	7	15	7	1	2	3	0	0	2	3	2	5	2	5	1	5	1	1	1	5	5	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	8438683	C	G	8438683	3	3	56	1	0	0	0	0	1	0	0	0	616	903	32	4	1160	4	ANGPTL4	19	8438683	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10		8438683	50690300	95	3254											
DOCK6	57572	hgsc.bcm.edu;ucsc.edu	37	chr19	11314960	11314960	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacggtgggcttccaggatGgggatgaggttcttgtagac	7	11	16	7	1	2	2	1	1	1	1	3	4	3	4	1	6	0	3	1	6	1	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	11314960	G	A	11314960	2	1	56	1	0	0	0	0	0	0	0	1	4691	1335	47	2		2	DOCK6	19	11314960	Silent	SNP	G	TCGA-B0-4691-01A-01D-1361-10	2876277	11314960	47814023	96	3255											
SYCE2	256126	hgsc.bcm.edu	37	chr19	13011345	13011345	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtttgagctctgtctccaAatggctgatctttgccattt	6	18	8	9	0	3	2	0	2	3	0	4	2	3	2	2	1	2	3	2	1	1	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	13011345	A	G	13011345	2	3	56	1	0	0	0	0	0	0	0	1	15428	11	1	3		3	SYCE2	19	13011345	Silent	SNP	A	TCGA-B0-4691-01A-01D-1361-10	1696385	13011345	46117638	97	3256											
DNAJB1	3337	hgsc.bcm.edu	37	chr19	14627478	14627478	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	caatattttgtcttcgtttcGaatgctctttccgtcggggt	5	18	9	9	4	2	0	0	0	2	0	6	1	3	0	1	2	1	2	1	2	3	6	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	14627478	G	C	14627478	3	2	56	1	0	0	0	0	1	0	0	0	4615	1066	37	4	438	4	DNAJB1	19	14627478	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	1616133	14627478	44501505	98	3257											
TMEM38A	79041	hgsc.bcm.edu	37	chr19	16793274	16793274	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	caactttgagcagctgctccGaggggtctggaagccagaga	10	7	14	10	1	1	2	0	1	1	1	2	5	2	3	2	3	5	3	2	3	2	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	16793274	G	C	16793274	3	2	56	1	0	0	0	0	1	0	0	0	16158	1058	37	4	523	4	TMEM38A	19	16793274	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	2165796	16793274	42335709	99	3258											
PLAUR	5329	hgsc.bcm.edu	37	chr19	44153251	44153251	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcatgttggcacattgAggcggttgcacagcctctta	7	11	14	9	1	1	1	0	1	1	0	1	1	1	1	1	4	2	5	1	4	1	4	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	44153251	A	T	44153251	3	4	56	1	0	0	0	0	1	0	0	0	12023	304	11	5	308	5	PLAUR	19	44153251	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	27359977	44153251	14975732	100	3259											
SIGLEC12	89858	hgsc.bcm.edu;ucsc.edu	37	chr19	52001300	52001300	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttttgcagggagaggctCagggaaatgtgctgggagcc	8	9	17	7	1	1	1	1	0	0	1	2	4	1	3	1	4	3	4	1	4	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	52001300	C	A	52001300	2	1	56	1	0	0	0	0	0	0	0	1	14310	813	29	4		4	SIGLEC12	19	52001300	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	7848049	52001300	7127683	101	3260											
LILRA1	11024	hgsc.bcm.edu	37	chr19	55106622	55106622	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctgtggtgacctcaggagGgaacgtgaccctccattgtg	7	9	13	12	1	1	2	1	2	0	0	2	4	2	4	4	3	1	0	4	3	1	1	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	55106622	G	T	55106622	3	4	56	1	0	0	0	0	1	0	0	0	8784	1232	43	4	430	4	LILRA1	19	55106622	Missense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	3105322	55106622	4022361	102	3261											
ZNF544	27300	hgsc.bcm.edu	37	chr19	58772926	58772926	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttgtacaaacagaaagAagtggccctggagagacccc	13	6	11	11	0	0	3	0	0	0	3	0	5	0	4	4	2	3	1	4	2	4	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	58772926	A	C	58772926	3	2	56	1	0	0	0	0	1	0	0	0	17976	243	9	5	968	5	ZNF544	19	58772926	Missense_Mutation	SNP	A	TCGA-B0-4691-01A-01D-1361-10	3666304	58772926	356057	103	3262											
ZNFX1	57169	hgsc.bcm.edu;ucsc.edu	37	chr20	47874148	47874148	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcagcttcctctgcgatctCtatcagcgaactctcctcct	6	13	6	16	2	5	0	2	0	3	0	9	2	7	0	3	0	4	1	3	0	2	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		G	47874148	C	G	47874148	3	3	56	1	0	0	0	0	1	0	0	0	18204	922	32	4	3314	4	ZNFX1	20	47874148	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10		47874148	15151372	104	3263											
SETD4	54093	hgsc.bcm.edu;ucsc.edu	37	chr21	37416207	37416207	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctttctccaacgtgaagtCgttctaatttcgtaagaatg	10	15	8	8	3	2	2	0	1	2	1	5	2	2	2	1	0	2	3	1	0	5	5	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	37416207	C	T	37416207	2	4	56	1	0	0	0	0	0	0	0	1	14135	871	31	1		1	SETD4	21	37416207	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10		37416207	10713688	105	3264											
ARSF	416	hgsc.bcm.edu	37	chrX	3007543	3007543	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtcttctcaggcacagTaaggaaactttccttctctt	9	15	7	10	0	3	1	1	1	3	0	6	2	4	2	1	2	1	2	1	2	2	5	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		C	3007543	T	C	3007543	2	2	56	1	0	0	0	0	0	0	0	1	991	1635	57	3		3	ARSF	23	3007543	Silent	SNP	T	TCGA-B0-4691-01A-01D-1361-10		3007543	152263017	106	3265											
DIAPH2	1730	hgsc.bcm.edu	37	chrX	96212938	96212938	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacctctacccggaggagctCctcttcctcctccaccacct	6	9	5	21	1	2	0	0	0	2	0	6	2	6	2	8	2	2	1	8	2	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	96212938	C	T	96212938	3	4	56	1	0	0	0	0	1	0	0	0	4519	855	30	2	1788	2	DIAPH2	23	96212938	Missense_Mutation	SNP	C	TCGA-B0-4691-01A-01D-1361-10	93205395	96212938	59057622	107	3266											
TMEM164	84187	hgsc.bcm.edu	37	chrX	109247114	109247114	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttcctctcttggcagcagCggctgctggaaagtgtggtg	5	11	14	11	1	1	0	0	0	1	0	3	1	2	1	2	4	3	4	2	4	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		A	109247114	C	A	109247114	2	1	56	1	0	0	0	0	0	0	0	1	16078	759	27	4		4	TMEM164	23	109247114	Silent	SNP	C	TCGA-B0-4691-01A-01D-1361-10	13034176	109247114	46023446	108	3267											
BCORL1	63035	hgsc.bcm.edu	37	chrX	129148822	129148822	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctttgtcatctttcccGagatcgtgaggaatggggac	7	11	12	11	3	2	2	1	1	1	1	4	5	3	4	2	3	0	0	2	3	1	2	novel		TCGA-B0-4691-01A-01D-1361-10	TCGA-B0-4691-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	349d9df2-d3d8-46ba-b3d6-f34692b1f9fd	dd70d55f-aea5-4de6-89bf-e4e6cd32f2f3		T	129148822	G	T	129148822	4	4	56	1	0	0	0	0	0	1	0	0	1387	1059	37	4	2084	4	BCORL1	23	129148822	Nonsense_Mutation	SNP	G	TCGA-B0-4691-01A-01D-1361-10	19901708	129148822	26121738	109	3268											
AURKAIP1	54998	hgsc.bcm.edu	37	chr1	1309259	1309259	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgccttcagccagatgcgCctcaggtctttctcgaactt	6	11	8	16	3	4	1	2	0	2	1	5	2	4	1	4	1	3	0	4	1	1	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	1309259	C	A	1309259	3	1	57	1	0	0	0	0	1	0	0	0	1222	738	26	4	81	4	AURKAIP1	1	1309259	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10		1309259	247941362	1	3269											
SPSB1	80176	hgsc.bcm.edu;ucsc.edu	37	chr1	9416577	9416577	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactcaagggcaaaaaactGtatcctgtagtgagtgccgt	12	9	12	8	1	1	1	1	1	0	0	2	2	2	2	2	2	2	3	2	2	6	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	9416577	G	A	9416577	2	1	57	1	0	0	0	0	0	0	0	1	15113	1364	48	2		2	SPSB1	1	9416577	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	8107318	9416577	239834044	2	3270											
GJB4	127534	hgsc.bcm.edu;ucsc.edu	37	chr1	35226981	35226981	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgtggtggcagcggaggaGgtgtgggacgatgagcagaa	10	6	20	5	3	0	2	0	1	0	1	0	6	0	5	0	6	3	2	0	6	2	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	35226981	G	A	35226981	2	1	57	1	0	0	0	0	0	0	0	1	6410	991	35	2		2	GJB4	1	35226981	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	25810404	35226981	214023640	3	3271											
MAP7D1	55700	hgsc.bcm.edu	37	chr1	36644627	36644627	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcggcaagagcgcagaaagGtgtgcggacctgggcgggga	10	3	20	8	4	0	2	0	0	0	2	0	4	0	4	1	6	3	2	1	6	2	0	rs111254290	alternate_allele	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	36644627	G	A	36644627	5	1	57	1	0	0	0	0	0	0	1	0	9267	1275	44	2	2177	2	MAP7D1	1	36644627	Splice_Site	SNP	G	TCGA-B0-4693-01A-01D-1361-10	1417646	36644627	212605994	4	3272											
CTTNBP2NL	55917	hgsc.bcm.edu;ucsc.edu	37	chr1	112997122	112997122	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgcacaggatacggctGaaggagatgatgtcacctac	12	7	13	9	1	1	3	1	2	0	1	1	5	1	4	1	4	3	3	1	4	3	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	112997122	G	T	112997122	4	4	57	1	0	0	0	0	0	1	0	0	4046	1291	45	4	392	4	CTTNBP2NL	1	112997122	Nonsense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	76352495	112997122	136253499	5	3273											
CRNN	49860	hgsc.bcm.edu	37	chr1	152384629	152384629	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagctcccctcgggtgagCgctgtgcagttgccctccgt	3	11	12	15	3	1	1	1	1	0	0	4	1	3	1	4	1	4	4	4	1	0	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	152384629	C	T	152384629	2	4	57	1	0	0	0	0	0	0	0	1	3892	755	27	1		1	CRNN	1	152384629	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	39387507	152384629	96865992	6	3274											
ZBTB37	84614	hgsc.bcm.edu;ucsc.edu	37	chr1	173854955	173854955	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggggatcacaccattcgTctgccgcatgtgtggcaaga	9	9	12	11	2	2	1	1	0	1	1	3	2	2	2	2	3	1	2	2	3	1	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	173854955	T	A	173854955	3	1	57	1	0	0	0	0	1	0	0	0	17537	1667	58	5	1278	5	ZBTB37	1	173854955	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	21470326	173854955	75395666	7	3275											
PLA2G4A	5321	hgsc.bcm.edu	37	chr1	186916003	186916003	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctgttttattttaggtGtctggggcagtgccttttcc	3	20	11	7	0	2	0	0	0	2	0	3	0	3	0	2	3	1	3	2	3	2	7	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	186916003	G	T	186916003	3	4	57	1	0	0	0	0	1	0	0	0	12001	1377	48	4	1216	4	PLA2G4A	1	186916003	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	13061048	186916003	62334618	8	3276											
TFB2M	64216	hgsc.bcm.edu	37	chr1	246720752	246720752	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagacatagcaggtggttTtattactccaccacttctag	12	12	8	9	0	1	2	0	0	1	2	2	2	2	2	2	2	2	2	2	2	5	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	246720752	T	G	246720752	3	3	57	1	0	0	0	0	1	0	0	0	15793	1850	64	5	727	5	TFB2M	1	246720752	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	59804749	246720752	2529869	9	3277											
PREB	10113	hgsc.bcm.edu;ucsc.edu	37	chr2	27355147	27355147	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacaggacttggtccgaaGgggcaagaagttggagccat	11	6	15	9	1	0	1	0	0	0	1	1	4	1	3	3	5	1	2	3	5	3	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	27355147	G	T	27355147	3	4	57	1	0	0	0	0	1	0	0	0	12472	1000	35	4	392	4	PREB	2	27355147	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10		27355147	215844226	10	3278											
NEB	4703	hgsc.bcm.edu	37	chr2	152554080	152554080	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactactgaagttctgcagaAcagtatcgagcttgaatttg	12	12	9	8	1	1	3	0	2	1	1	2	4	1	3	0	0	4	4	0	0	5	5	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	152554080	A	G	152554080	3	3	57	1	0	0	0	0	1	0	0	0	10302	43	2	3	25127	3	NEB	2	152554080	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	125198933	152554080	90645293	11	3279											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179401198	179401198	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgcttctcaaggtagtaatTtctaatctttgcacctccat	10	15	5	11	1	3	0	1	0	3	0	5	0	4	0	2	1	1	4	2	1	4	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	179401198	T	A	179401198	3	1	57	1	0	0	0	0	1	0	0	0	16734	1841	64	5	7727	5	TTN	2	179401198	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	26847118	179401198	63798175	12	3280											
DNAJC10	54431	hgsc.bcm.edu;ucsc.edu	37	chr2	183640093	183640093	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgcaaaagcaatcgcTgccttaataagtgaaaaatt	18	9	8	6	1	0	2	0	1	0	1	1	3	0	2	1	0	3	3	1	0	7	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	183640093	T	C	183640093	2	2	57	1	0	0	0	0	0	0	0	1	4629	1567	55	3		3	DNAJC10	2	183640093	Silent	SNP	T	TCGA-B0-4693-01A-01D-1361-10	4238895	183640093	59559280	13	3281											
SATB2	23314	hgsc.bcm.edu	37	chr2	200193590	200193590	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaagagactgagaggctGtccgagggtcttcttcctta	9	11	12	9	1	2	3	0	1	2	3	4	6	4	3	2	2	0	1	2	2	3	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	200193590	G	C	200193590	3	2	57	1	0	0	0	0	1	0	0	0	13856	1377	48	4	1000	4	SATB2	2	200193590	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	16553497	200193590	43005783	14	3282											
PAX3	5077	hgsc.bcm.edu;ucsc.edu	37	chr2	223066781	223066781	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtccaagctcttcatatgGtctagtctctgactgcagct	7	14	8	12	0	4	1	1	1	3	0	6	1	5	1	1	1	3	3	1	1	3	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	223066781	G	C	223066781	3	2	57	1	0	0	0	0	1	0	0	0	11480	1252	44	4	255	4	PAX3	2	223066781	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	22873191	223066781	20132592	15	3283											
SLC16A14	151473	hgsc.bcm.edu;ucsc.edu	37	chr2	230914571	230914571	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ttgacgagccctccaatgatCgcagtctggcggcacccaca	9	7	10	15	3	1	2	0	2	1	0	3	3	2	2	3	2	1	2	3	2	1	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	230914571	C	G	230914571	2	3	57	1	0	0	0	0	0	0	0	1	14409	871	31	4		4	SLC16A14	2	230914571	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	7847790	230914571	12284802	16	3284											
C3orf10	0	hgsc.bcm.edu;ucsc.edu	37	chr3	10167959	10167959	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcctttcacaggtgacaAaaggtgagacactcacctag	12	10	8	11	0	2	2	2	2	0	1	3	3	3	2	2	2	0	0	2	2	3	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	10167959	A	C	10167959	3	2	57	1	0	0	0	0	1	0	0	0	2207	15	1	5	218	5	C3orf10	3	10167959	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		10167959	187854471	17	3285											
MLH1	4292	hgsc.bcm.edu;ucsc.edu	37	chr3	37067407	37067407	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcccagcccctgctgaaGtggctgccaaaaatcagagc	12	6	9	14	0	1	2	1	1	0	1	2	2	2	2	4	1	5	2	4	1	4	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	37067407	G	A	37067407	3	1	57	1	0	0	0	0	1	0	0	0	9617	1029	36	2	1364	2	MLH1	3	37067407	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	26899448	37067407	160955023	18	3286											
RBM6	10180	hgsc.bcm.edu;ucsc.edu	37	chr3	50006037	50006037	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaggcggtctggacttTcttgggcggcaagacaccga	10	7	15	9	3	2	2	0	0	2	2	2	5	2	3	1	5	0	1	1	5	3	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	50006037	T	A	50006037	3	1	57	1	0	0	0	0	1	0	0	0	13146	1780	62	5	1185	5	RBM6	3	50006037	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	12938630	50006037	148016393	19	3287											
ADAMTS9	56999	hgsc.bcm.edu	37	chr3	64607988	64607988	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatcggggttgtacaactTtcccaccgacaaaacctaga	13	9	7	12	2	0	1	0	0	0	1	2	2	1	1	3	2	4	2	3	2	6	5	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	64607988	T	G	64607988	3	3	57	1	0	0	0	0	1	0	0	0	273	1850	64	5	3323	5	ADAMTS9	3	64607988	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	14601951	64607988	133414442	20	3288											
ARHGAP31	57514	hgsc.bcm.edu	37	chr3	119133104	119133104	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtaggaggcccaggcaaTctgtctcctccactcccacc	9	7	9	16	0	2	0	0	0	2	0	5	2	4	1	5	3	0	2	5	3	3	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	119133104	T	C	119133104	2	2	57	1	0	0	0	0	0	0	0	1	880	1432	50	3		3	ARHGAP31	3	119133104	Silent	SNP	T	TCGA-B0-4693-01A-01D-1361-10	54525116	119133104	78889326	21	3289											
PIK3CA	5290	hgsc.bcm.edu;ucsc.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003	bycluster	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	178936091	G	A	178936091	3	1	57	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	59802987	178936091	19086339	22	3290											
IL1RAP	3556	hgsc.bcm.edu;ucsc.edu	37	chr3	190322001	190322001	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcatcaagtgcccactctTtgaacacttcttgaaattca	11	13	5	12	1	4	2	2	2	2	0	5	2	4	2	1	0	2	1	1	0	3	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	190322001	T	G	190322001	3	3	57	1	0	0	0	0	1	0	0	0	7660	1841	64	5	155	5	IL1RAP	3	190322001	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	11385910	190322001	7700429	23	3291											
TBC1D19	55296	hgsc.bcm.edu;ucsc.edu	37	chr4	26640457	26640457	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgggaactgatgaaccagGtatgtgaacaattttttctg	13	13	10	5	0	1	3	0	3	1	0	1	4	1	4	1	2	3	1	1	2	6	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	26640457	G	A	26640457	5	1	57	1	0	0	0	0	0	0	1	0	15606	1275	44	2	456	2	TBC1D19	4	26640457	Splice_Site	SNP	G	TCGA-B0-4693-01A-01D-1361-10		26640457	164513819	24	3292											
NFXL1	152518	hgsc.bcm.edu;ucsc.edu	37	chr4	47877157	47877157	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttacctacattccacatAcaggcttgtgatcttacagt	11	14	5	11	0	1	1	0	1	1	0	2	1	2	1	2	1	5	1	2	1	5	7	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	47877157	A	G	47877157	3	3	57	1	0	0	0	0	1	0	0	0	10388	391	14	3	526	3	NFXL1	4	47877157	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	21236700	47877157	143277119	25	3293											
NFXL1	152518	hgsc.bcm.edu;ucsc.edu	37	chr4	47877194	47877194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgacattttattctaagCatctgaacacaaggtggaca	14	11	8	8	0	2	2	0	2	2	0	2	3	2	3	0	2	2	1	0	2	4	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	47877194	C	T	47877194	3	4	57	1	0	0	0	0	1	0	0	0	10388	710	25	2	563	2	NFXL1	4	47877194	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	37	47877194	143277082	26	3294											
DDIT4L	115265	hgsc.bcm.edu	37	chr4	101109221	101109221	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtttgctttgatttggaCagacagttctccagcatttt	8	18	8	7	0	1	2	0	1	1	1	2	3	1	3	1	1	2	4	1	1	1	7	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	101109221	C	A	101109221	2	1	57	1	0	0	0	0	0	0	0	1	4332	465	17	4		4	DDIT4L	4	101109221	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	53232027	101109221	90045055	27	3295											
AHRR	57491	hgsc.bcm.edu	37	chr5	413518	413518	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatattttatgcatcagcAacgatcgtggactatctggg	11	12	10	8	3	2	0	1	0	1	0	3	3	2	1	0	2	3	2	0	2	4	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	413518	A	G	413518	2	3	57	1	0	0	0	0	0	0	0	1	417	117	5	3		3	AHRR	5	413518	Silent	SNP	A	TCGA-B0-4693-01A-01D-1361-10		413518	180501742	28	3296											
DNAH5	1767	hgsc.bcm.edu;ucsc.edu	37	chr5	13793789	13793789	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccccaggcttctctagatTatagaatccattttgttcca	9	15	5	12	0	1	2	0	0	1	2	5	2	4	2	4	1	0	2	4	1	4	7	rs139797525		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	13793789	T	C	13793789	3	2	57	1	0	0	0	0	1	0	0	0	4604	1754	61	3	5939	3	DNAH5	5	13793789	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	13380271	13793789	167121471	29	3297											
ZFR	51663	hgsc.bcm.edu	37	chr5	32390431	32390431	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcggactcccagaaggcCtaatgggcctggaggaccat	9	7	14	11	1	0	1	0	0	0	1	2	4	1	4	4	6	0	0	4	6	2	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	32390431	C	T	32390431	3	4	57	1	0	0	0	0	1	0	0	0	17658	681	24	2	1168	2	ZFR	5	32390431	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	18596642	32390431	148524829	30	3298											
FYB	2533	hgsc.bcm.edu	37	chr5	39137714	39137714	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcccttactttaaatttcttCtttatttcttgttctttctt	5	25	2	9	0	5	0	0	0	5	0	5	0	5	0	1	0	1	1	1	0	4	12	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	39137714	C	G	39137714	3	3	57	1	0	0	0	0	1	0	0	0	6124	912	32	4	1038	4	FYB	5	39137714	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	6747283	39137714	141777546	31	3299											
MAP1B	4131	hgsc.bcm.edu;ucsc.edu	37	chr5	71495734	71495734	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgactctgaagacgagtcGgaaaccatccccacagacaa	15	5	8	13	3	1	3	0	1	1	2	4	6	2	4	3	1	1	0	3	1	3	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	71495734	G	A	71495734	2	1	57	1	0	0	0	0	0	0	0	1	9228	1103	39	1		1	MAP1B	5	71495734	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	32358020	71495734	109419526	32	3300											
ST8SIA4	7903	hgsc.bcm.edu;ucsc.edu	37	chr5	100192026	100192026	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgctctttgtacaactGatggattcatggtaataaaa	15	13	7	6	0	2	1	1	1	1	0	2	2	2	2	0	2	3	3	0	2	6	5	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	100192026	G	T	100192026	4	4	57	1	0	0	0	0	0	1	0	0	15235	1294	45	4	509	4	ST8SIA4	5	100192026	Nonsense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	28696292	100192026	80723234	33	3301											
PCDHB11	56125	hgsc.bcm.edu;ucsc.edu	37	chr5	140580452	140580452	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccgtggttatggtttttAgtatccaagatatagactct	11	15	9	6	1	1	3	0	0	1	3	2	3	2	3	2	2	0	3	2	2	6	7	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	140580452	A	G	140580452	3	3	57	1	0	0	0	0	1	0	0	0	11536	420	15	3	1107	3	PCDHB11	5	140580452	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	40388426	140580452	40334808	34	3302											
FAM83B	222584	hgsc.bcm.edu;ucsc.edu	37	chr6	54791190	54791190	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattgctttagtgatggatAtatttacagatgtggacatt	11	17	9	4	0	1	2	1	1	0	1	1	4	1	4	0	2	2	1	0	2	4	8	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	54791190	A	T	54791190	3	4	57	1	0	0	0	0	1	0	0	0	5634	449	16	5	472	5	FAM83B	6	54791190	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		54791190	116323877	35	3303											
COL21A1	81578	hgsc.bcm.edu;ucsc.edu	37	chr6	55942327	55942327	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taactctcatgaatacttacCttttggcccattaatcctcg	10	15	4	12	1	1	1	1	1	1	0	4	1	2	1	3	1	3	0	3	1	5	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	55942327	C	A	55942327	3	1	57	1	0	0	0	0	1	0	0	0	3680	695	24	4	1068	4	COL21A1	6	55942327	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	1151137	55942327	115172740	36	3304											
MANEA	79694	hgsc.bcm.edu	37	chr6	96053922	96053922	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgggctagcctaaaattaTtttgtgataaatacaactta	15	15	6	5	0	0	1	0	1	0	0	0	1	0	1	1	1	3	1	1	1	9	9	rs35772543	bycluster;byfrequency;by1000genomes	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	96053922	T	A	96053922	3	1	57	1	0	0	0	0	1	0	0	0	9221	1493	52	5	1044	5	MANEA	6	96053922	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	40111595	96053922	75061145	37	3305											
MACC1	346389	hgsc.bcm.edu	37	chr7	20199087	20199087	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgacttggctgaaaggAtcctttcttacttcagcccc	8	13	8	12	0	3	2	2	2	1	0	4	3	4	3	3	2	2	1	3	2	2	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	20199087	A	T	20199087	3	4	57	1	0	0	0	0	1	0	0	0	9143	330	12	5	1673	5	MACC1	7	20199087	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		20199087	138939576	38	3306											
PTPN12	5782	hgsc.bcm.edu;ucsc.edu	37	chr7	77256100	77256100	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccacccatcttgacaccTtctcccccttcagcttttcc	5	13	4	19	0	3	1	1	1	2	0	5	1	4	1	6	0	2	1	6	0	0	5	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	77256100	T	G	77256100	2	3	57	1	0	0	0	0	0	0	0	1	12783	1596	56	5		5	PTPN12	7	77256100	Silent	SNP	T	TCGA-B0-4693-01A-01D-1361-10	57057013	77256100	81882563	39	3307											
C7orf61	402573	hgsc.bcm.edu;ucsc.edu	37	chr7	100061219	100061219	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcaaagtctcaaccacctGgagagtcttctccatcttct	9	12	5	15	0	6	1	2	0	5	1	8	2	6	1	4	1	1	0	4	1	2	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	100061219	G	A	100061219	4	1	57	1	0	0	0	0	0	1	0	0	2408	1357	47	2	474	2	C7orf61	7	100061219	Nonsense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	22805119	100061219	59077444	40	3308											
SPAG11A	653423	hgsc.bcm.edu	37	chr8	7706329	7706329	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctacgccacgcagtgaaaCgggacctcttaccaccgcgc	9	6	10	16	5	1	1	0	1	1	0	1	2	1	2	4	1	4	2	4	1	3	2	rs78995392	byfrequency	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	7706329	C	T	7706329	3	4	57	1	0	0	0	0	1	0	0	0	14978	527	19	1	184	1	SPAG11A	8	7706329	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10		7706329	138657693	41	3309											
UBR5	51366	hgsc.bcm.edu;ucsc.edu	37	chr8	103266717	103266717	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcactggctggcagtGatgggcttgatgtccaaaag	8	12	12	9	0	2	2	1	2	1	0	3	2	3	2	1	3	0	3	1	3	2	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	103266717	G	T	103266717	4	4	57	1	0	0	0	0	0	1	0	0	16904	1294	45	4	190	4	UBR5	8	103266717	Nonsense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	95560388	103266717	43097305	42	3310											
PKHD1L1	93035	hgsc.bcm.edu;ucsc.edu	37	chr8	110464467	110464467	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactctatcagggtgggcTccagtttgtgtccacatcag	8	12	10	11	0	3	0	2	0	1	0	5	0	5	0	2	2	1	2	2	2	2	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	110464467	T	A	110464467	2	1	57	1	0	0	0	0	0	0	0	1	11972	1538	54	5		5	PKHD1L1	8	110464467	Silent	SNP	T	TCGA-B0-4693-01A-01D-1361-10	7197750	110464467	35899555	43	3311											
NCBP1	4686	hgsc.bcm.edu;ucsc.edu	37	chr9	100409780	100409780	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atttttatctttagaagacgCcaaaagactcatgtacccat	14	13	5	9	1	2	3	1	0	1	3	2	3	2	3	2	0	1	1	2	0	6	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	100409780	C	T	100409780	2	4	57	1	0	0	0	0	0	0	0	1	10211	726	26	2		2	NCBP1	9	100409780	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10		100409780	40803651	44	3312											
EXOSC2	23404	hgsc.bcm.edu	37	chr9	133578519	133578519	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaactcagaggatgatgcTgtatgataccagcatcctgt	11	11	11	8	0	1	3	1	2	0	1	2	4	2	4	2	2	4	4	2	2	3	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	133578519	T	A	133578519	3	1	57	1	0	0	0	0	1	0	0	0	5315	1580	55	5	782	5	EXOSC2	9	133578519	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	33168739	133578519	7634912	45	3313											
LAMC3	10319	hgsc.bcm.edu	37	chr9	133928345	133928345	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcgtcagtcccggccccagCcctgccggtcagtaaagaca	8	5	11	17	4	2	1	2	0	0	1	3	1	3	1	5	2	2	1	5	2	2	1	rs12349966	bycluster;byfrequency;by1000genomes	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	133928345	C	T	133928345	2	4	57	1	0	0	0	0	0	0	0	1	8616	738	26	2		2	LAMC3	9	133928345	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	349826	133928345	7285086	46	3314											
FAM78A	286336	hgsc.bcm.edu	37	chr9	134136486	134136486	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgttggtggccaccagcCaggtggtgaagctctggtcc	6	9	16	10	0	1	1	0	1	1	0	2	1	2	1	4	6	2	2	4	6	1	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	134136486	C	A	134136486	3	1	57	1	0	0	0	0	1	0	0	0	5626	595	21	4	280	4	FAM78A	9	134136486	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	208141	134136486	7076945	47	3315											
PITRM1	10531	hgsc.bcm.edu	37	chr10	3187802	3187802	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatacctcgaccgtgtgtgGgcgcacaggcctccgttcct	5	9	12	15	4	0	0	0	0	0	0	3	1	2	0	5	2	1	3	5	2	1	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	3187802	G	T	3187802	3	4	57	1	0	0	0	0	1	0	0	0	11953	1232	43	4	698	4	PITRM1	10	3187802	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10		3187802	132346945	48	3316											
CDH23	64072	hgsc.bcm.edu	37	chr10	73483833	73483833	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacgcagatgagggcgagtTtgggcgtgtgtggtaccgca	7	8	19	7	4	0	2	0	1	0	1	0	4	0	3	1	4	1	4	1	4	1	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	73483833	T	A	73483833	3	1	57	1	0	0	0	0	1	0	0	0	3108	1841	64	5	3818	5	CDH23	10	73483833	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	70296031	73483833	62050914	49	3317											
HBB	3043	hgsc.bcm.edu	37	chr11	5247865	5247865	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctcactcagtgtggcaAaggtgcccttgaggttgtcc	7	10	13	11	0	2	1	2	1	0	0	3	1	3	1	2	3	2	4	2	3	1	2	rs35693898	bycluster;alternate_allele	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	5247865	A	C	5247865	3	2	57	1	0	0	0	0	1	0	0	0	6978	14	1	5	194	5	HBB	11	5247865	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		5247865	129758651	50	3318											
SLC39A13	91252	hgsc.bcm.edu	37	chr11	47434010	47434010	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagcaaggaggaggggAccagccaggtgggccccaca	11	2	17	11	0	0	0	0	0	0	0	0	4	0	4	4	7	2	1	4	7	1	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	47434010	A	T	47434010	3	4	57	1	0	0	0	0	1	0	0	0	14618	275	10	5	539	5	SLC39A13	11	47434010	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	42186145	47434010	87572506	51	3319											
DHCR7	1717	hgsc.bcm.edu	37	chr11	71152418	71152418	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggacaggagatgagcgtTtgcaaaccagagcaggtgcg	12	5	15	9	2	0	3	0	1	0	2	0	5	0	4	2	3	5	3	2	3	1	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	71152418	T	C	71152418	3	2	57	1	0	0	0	0	1	0	0	0	4477	1841	64	3	962	3	DHCR7	11	71152418	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	23718408	71152418	63854098	52	3320											
KCTD21	283219	hgsc.bcm.edu;ucsc.edu	37	chr11	77885169	77885169	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgctgaagatgttggcgttGaagacctccatgctggaaga	10	10	14	7	1	0	5	0	2	0	3	1	6	1	6	2	2	2	4	2	2	3	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	77885169	G	A	77885169	2	1	57	1	0	0	0	0	0	0	0	1	8109	1281	45	2		2	KCTD21	11	77885169	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	6732751	77885169	57121347	53	3321											
CCDC82	79780	hgsc.bcm.edu	37	chr11	96104275	96104275	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagatgttagcatatcttTtgcatatgatttttgccttg	10	18	8	5	0	1	2	0	1	1	1	1	3	1	2	1	0	3	3	1	0	4	8	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	96104275	T	A	96104275	4	1	57	1	0	0	0	0	0	1	0	0	2856	1850	64	5	539	5	CCDC82	11	96104275	Nonsense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	18219106	96104275	38902241	54	3322											
ATM	472	hgsc.bcm.edu;ucsc.edu	37	chr11	108153496	108153496	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagaagactttatggcatcTcatttagattatctggtttt	10	19	7	5	0	2	3	1	0	2	3	3	3	2	3	0	2	0	2	0	2	5	8	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	108153496	T	A	108153496	2	1	57	1	0	0	0	0	0	0	0	1	1109	1538	54	5		5	ATM	11	108153496	Silent	SNP	T	TCGA-B0-4693-01A-01D-1361-10	12049221	108153496	26853020	55	3323											
USP28	57646	hgsc.bcm.edu	37	chr11	113684670	113684670	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtacttgcaatacaagtCtttaaatctgtttggaaaaa	15	14	7	5	0	2	0	0	0	2	0	2	1	2	1	0	1	3	4	0	1	9	7	rs137875806		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	113684670	C	A	113684670	3	1	57	1	0	0	0	0	1	0	0	0	17057	912	32	4	1597	4	USP28	11	113684670	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	5531174	113684670	21321846	56	3324											
B4GALNT3	283358	hgsc.bcm.edu;ucsc.edu	37	chr12	657254	657254	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgaggagggcaccgacCacgtggaagttgcagtgagt	12	6	16	7	2	0	3	0	2	0	1	0	6	0	5	2	3	1	3	2	3	2	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	657254	C	A	657254	3	1	57	1	0	0	0	0	1	0	0	0	1268	594	21	4	802	4	B4GALNT3	12	657254	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10		657254	133194641	57	3325											
PTPRO	5800	hgsc.bcm.edu	37	chr12	15661567	15661567	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacgtgagtgtccacgttTtaagctcaaccactgccttg	9	11	9	12	2	1	1	1	1	0	0	2	1	2	1	3	0	4	3	3	0	2	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	15661567	T	G	15661567	3	3	57	1	0	0	0	0	1	0	0	0	12811	1838	64	5	1356	5	PTPRO	12	15661567	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	15004313	15661567	118190328	58	3326											
MFSD5	84975	hgsc.bcm.edu	37	chr12	53647204	53647204	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgaggctgtagccagctgGatagggctggggcctgtagc	6	8	18	9	0	0	1	0	1	0	0	0	2	0	2	2	5	3	6	2	5	3	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	53647204	G	T	53647204	3	4	57	1	0	0	0	0	1	0	0	0	9534	1183	41	4	912	4	MFSD5	12	53647204	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	37985637	53647204	80204691	59	3327											
ITGA5	3678	hgsc.bcm.edu;ucsc.edu	37	chr12	54798984	54798984	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtccaggtcccccaggggGgtcaaggagctgccaaatcg	8	6	15	12	1	1	0	1	0	0	0	4	1	3	1	4	6	2	1	4	6	2	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	54798984	G	T	54798984	2	4	57	1	0	0	0	0	0	0	0	1	7879	1219	43	4		4	ITGA5	12	54798984	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	1151780	54798984	79052911	60	3328											
CDK2	1017	hgsc.bcm.edu	37	chr12	56363324	56363324	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatattattccacagctgtGgacatctggagcctgggctg	10	11	11	9	0	1	0	0	0	1	0	2	2	2	2	2	3	2	2	2	3	3	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	56363324	G	A	56363324	2	1	57	1	0	0	0	0	0	0	0	1	3136	1335	47	2		2	CDK2	12	56363324	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	1564340	56363324	77488571	61	3329											
WSCD2	9671	hgsc.bcm.edu;ucsc.edu	37	chr12	108641973	108641973	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagccagaaggatggcaaCttcaagcgctcagggctccg	11	5	14	11	2	2	2	2	0	0	2	3	4	3	3	2	3	3	3	2	3	3	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	108641973	C	A	108641973	3	1	57	1	0	0	0	0	1	0	0	0	17406	564	20	4	1581	4	WSCD2	12	108641973	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	52278649	108641973	25209922	62	3330											
DDX54	79039	hgsc.bcm.edu	37	chr12	113603616	113603616	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaaggactcactgaagagggGgtgcaggcccagccccacaa	12	3	14	12	0	1	2	1	1	0	1	1	4	1	3	3	4	2	1	3	4	3	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	113603616	G	A	113603616	3	1	57	1	0	0	0	0	1	0	0	0	4372	1232	43	2	1044	2	DDX54	12	113603616	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	4961643	113603616	20248279	63	3331											
CLIP1	6249	hgsc.bcm.edu;ucsc.edu	37	chr12	122812834	122812834	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgacaatttcctctccaattCtttcttttcttcctcatgct	6	19	2	14	1	5	0	1	0	4	0	8	1	7	0	3	0	1	1	3	0	2	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	122812834	C	G	122812834	3	3	57	1	0	0	0	0	1	0	0	0	3532	922	32	4	1353	4	CLIP1	12	122812834	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	9209218	122812834	11039061	64	3332											
SOHLH2	54937	hgsc.bcm.edu	37	chr13	36767945	36767945	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttagcaggtacatacctTtaaaattttcagggattata	14	16	6	5	0	1	0	1	0	0	0	1	1	1	1	1	2	3	2	1	2	8	11	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	36767945	T	A	36767945	3	1	57	1	0	0	0	0	1	0	0	0	14926	1841	64	5	990	5	SOHLH2	13	36767945	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10		36767945	78401933	65	3333											
FOXO1	2308	hgsc.bcm.edu	37	chr13	41134062	41134062	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagcatgtccagggtgggtAtgggagctgggattcatcat	8	11	16	6	0	2	1	2	1	0	0	3	3	3	3	1	4	2	3	1	4	1	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	41134062	A	G	41134062	2	3	57	1	0	0	0	0	0	0	0	1	6023	446	16	3		3	FOXO1	13	41134062	Silent	SNP	A	TCGA-B0-4693-01A-01D-1361-10	4366117	41134062	74035816	66	3334											
SLITRK6	84189	hgsc.bcm.edu;ucsc.edu	37	chr13	86370165	86370165	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattaacactttgagtctgTtgagcttgctaaaggcactt	12	14	8	7	0	1	2	0	2	1	0	1	2	1	2	0	1	3	4	0	1	4	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	86370165	T	G	86370165	3	3	57	1	0	0	0	0	1	0	0	0	14749	1725	60	5	2050	5	SLITRK6	13	86370165	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	45236103	86370165	28799713	67	3335											
ADAM21	8747	hgsc.bcm.edu	37	chr14	70925438	70925438	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaaatctttatgctaaagCgctgtgggaatggtgtggtt	9	13	15	4	1	1	0	0	0	1	0	1	2	1	2	0	4	2	3	0	4	5	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	70925438	C	T	70925438	3	4	57	1	0	0	0	0	1	0	0	0	243	768	27	1	1224	1	ADAM21	14	70925438	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10		70925438	36424102	68	3336											
SORD	6652	hgsc.bcm.edu	37	chr15	45364534	45364534	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccactcgctctggtgggaAcctcgtgcttgtggggctgg	3	10	17	11	2	1	0	0	0	1	0	3	1	1	1	2	6	2	3	2	6	1	1	rs930337	bycluster;bysubmitter	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	45364534	A	C	45364534	3	2	57	1	0	0	0	0	1	0	0	0	14935	43	2	5	836	5	SORD	15	45364534	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		45364534	57166858	69	3337											
NOMO2	283820	hgsc.bcm.edu	37	chr16	18544484	18544484	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcgaatgattgatatcCgaccacagacactgaacctg	14	7	10	10	2	0	4	0	3	0	1	1	7	1	5	3	1	2	0	3	1	4	2	rs453341	bycluster;by2hit2allele;byhapmap	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	18544484	C	T	18544484	3	4	57	1	0	0	0	0	1	0	0	0	10532	652	23	1	2653	1	NOMO2	16	18544484	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10		18544484	71810269	70	3338											
N4BP1	9683	hgsc.bcm.edu;ucsc.edu	37	chr16	48596217	48596217	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccaagaaggccaatgtccaGaatgcagaggtcagcacaag	15	4	12	10	0	1	3	1	0	0	3	2	3	2	3	3	2	2	2	3	2	5	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	48596217	G	A	48596217	2	1	57	1	0	0	0	0	0	0	0	1	10109	933	33	2		2	N4BP1	16	48596217	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	30051733	48596217	41758536	71	3339											
NUP93	9688	hgsc.bcm.edu;ucsc.edu	37	chr16	56871614	56871614	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacaaggagaggctgaagaAcatggcactctccattgccg	13	6	11	11	1	1	3	0	1	1	2	2	4	1	3	2	3	3	2	2	3	4	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	56871614	A	C	56871614	3	2	57	1	0	0	0	0	1	0	0	0	10772	43	2	5	2060	5	NUP93	16	56871614	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	8275397	56871614	33483139	72	3340											
TCF25	22980	hgsc.bcm.edu	37	chr16	89977623	89977623	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgccgcacgaggacgacgctGagggggagggggagtgggac	8	2	22	9	5	0	1	0	1	0	0	0	7	0	5	1	6	0	2	1	6	0	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	89977623	G	A	89977623	3	1	57	1	0	0	0	0	1	0	0	0	15692	1291	45	2	2078	2	TCF25	16	89977623	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	33106009	89977623	377130	73	3341											
USP6	9098	hgsc.bcm.edu;ucsc.edu	37	chr17	5048736	5048736	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagaagaaatagatcaattAttgtggatttgttccatggg	14	14	10	3	0	1	3	1	0	0	3	2	4	2	4	1	2	0	1	1	2	6	6	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	5048736	A	G	5048736	3	3	57	1	0	0	0	0	1	0	0	0	17085	449	16	3	2099	3	USP6	17	5048736	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		5048736	76146474	74	3342											
TXNDC17	84817	hgsc.bcm.edu;ucsc.edu	37	chr17	6545596	6545596	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaaataatgacttcagAaaaaacttgaaagtaacagc	20	8	6	7	0	1	3	1	2	0	1	2	4	2	3	1	0	3	1	1	0	7	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	6545596	A	C	6545596	3	2	57	1	0	0	0	0	1	0	0	0	16795	243	9	5	265	5	TXNDC17	17	6545596	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	1496860	6545596	74649614	75	3343											
STARD3	10948	hgsc.bcm.edu;ucsc.edu	37	chr17	37816464	37816464	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttctgtccctgccatagGaatatggggacaccgtgtac	9	10	10	12	1	1	0	0	0	1	0	2	2	2	2	4	3	2	1	4	3	4	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	37816464	G	T	37816464	4	4	57	1	0	0	0	0	0	1	0	0	15258	1188	41	4	843	4	STARD3	17	37816464	Nonsense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	31270868	37816464	43378746	76	3344											
DHX40	79665	hgsc.bcm.edu	37	chr17	57656854	57656854	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgtggtagatggtggcttCgtgaagcagttaaatcacaa	12	12	12	5	1	1	2	1	1	0	1	2	2	1	2	0	3	1	4	0	3	6	4	rs2697409		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	57656854	C	T	57656854	2	4	57	1	0	0	0	0	0	0	0	1	4512	883	31	1		1	DHX40	17	57656854	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	19840390	57656854	23538356	77	3345											
TLK2	11011	hgsc.bcm.edu	37	chr17	60689867	60689867	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcagtctctacaagtagcCctgctggagctgctattgca	9	11	10	11	0	2	0	1	0	1	0	3	1	2	1	1	1	6	5	1	1	4	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	60689867	C	A	60689867	3	1	57	1	0	0	0	0	1	0	0	0	15943	623	22	4	2276	4	TLK2	17	60689867	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	3033013	60689867	20505343	78	3346											
CD300E	342510	hgsc.bcm.edu	37	chr17	72619748	72619748	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagagaaggagtagagctgGgagcagccacatgttcctgt	11	7	15	8	0	0	2	0	0	0	2	1	5	1	4	2	2	3	5	2	2	2	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	72619748	G	A	72619748	3	1	57	1	0	0	0	0	1	0	0	0	2998	1232	43	2	620	2	CD300E	17	72619748	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10	11929881	72619748	8575462	79	3347											
HEXDC	284004	hgsc.bcm.edu	37	chr17	80399717	80399717	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctaccaccgccagcggaAgctcatccacccggtcatgg	8	5	9	19	3	2	0	2	0	0	0	3	1	3	1	7	3	3	1	7	3	2	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	80399717	A	C	80399717	3	2	57	1	0	0	0	0	1	0	0	0	7075	72	3	5	1332	5	HEXDC	17	80399717	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	7779969	80399717	795493	80	3348											
CLUL1	27098	hgsc.bcm.edu	37	chr18	644931	644931	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagttccaaggattcatgaaGgaaatatttccaaacaagat	17	11	7	6	0	1	2	1	1	0	1	3	4	3	4	2	2	1	1	2	2	7	5	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	644931	G	C	644931	3	2	57	1	0	0	0	0	1	0	0	0	3570	1001	35	4	1257	4	CLUL1	18	644931	Missense_Mutation	SNP	G	TCGA-B0-4693-01A-01D-1361-10		644931	77432317	81	3349											
CABYR	26256	hgsc.bcm.edu	37	chr18	21735912	21735912	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccagccacccctaagacTactaccccaccctcatcacc	13	5	2	21	0	2	1	2	0	0	1	2	1	2	1	8	0	4	0	8	0	4	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	21735912	T	A	21735912	2	1	57	1	0	0	0	0	0	0	0	1	2536	1509	53	5		5	CABYR	18	21735912	Silent	SNP	T	TCGA-B0-4693-01A-01D-1361-10	21090981	21735912	56341336	82	3350											
MOCOS	55034	hgsc.bcm.edu	37	chr18	33848526	33848526	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtacctgatgcatgcaTcattggatttatcctcccca	9	13	7	12	0	1	1	1	1	0	0	3	2	3	2	4	1	3	4	4	1	2	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	33848526	T	C	33848526	3	2	57	1	0	0	0	0	1	0	0	0	9689	1435	50	3	2603	3	MOCOS	18	33848526	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	12112614	33848526	44228722	83	3351											
FAM69C	125704	hgsc.bcm.edu	37	chr18	72103854	72103854	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccccagggtctgcacatTcctgcaccgcctcctgtaac	7	8	9	17	1	1	0	0	0	1	0	3	1	3	1	6	2	3	3	6	2	1	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	72103854	T	A	72103854	3	1	57	1	0	0	0	0	1	0	0	0	5604	1783	62	5	121	5	FAM69C	18	72103854	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	38255328	72103854	5973394	84	3352											
ZFR2	23217	hgsc.bcm.edu	37	chr19	3833722	3833722	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggcagcagactggaagtAcggcctgtcctcatagctcc	9	7	13	12	1	1	1	1	0	0	1	3	3	3	2	3	3	3	4	3	3	3	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	3833722	A	T	3833722	3	4	57	1	0	0	0	0	1	0	0	0	17659	391	14	5	2568	5	ZFR2	19	3833722	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		3833722	55295261	85	3353											
RANBP3	8498	hgsc.bcm.edu	37	chr19	5923257	5923257	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgacttccactttttccAacaaacacttccgcgctgtt	9	14	5	13	2	0	2	0	2	0	0	3	2	3	2	3	0	2	2	3	0	2	5	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	5923257	A	C	5923257	3	2	57	1	0	0	0	0	1	0	0	0	13031	131	5	5	566	5	RANBP3	19	5923257	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	2089535	5923257	53205726	86	3354											
TRIP10	9322	hgsc.bcm.edu	37	chr19	6744909	6744909	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgaaccgtgcaccctcCgacagcagtctgggcacccc	8	5	9	19	2	1	1	0	1	1	0	2	2	2	1	6	1	3	3	6	1	1	0	rs62125119	bycluster;byfrequency;by1000genomes	TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	6744909	C	T	6744909	2	4	57	1	0	0	0	0	0	0	0	1	16553	639	23	1		1	TRIP10	19	6744909	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	821652	6744909	52384074	87	3355											
BEST2	54831	hgsc.bcm.edu	37	chr19	12867047	12867047	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgaggctcgcgccccataCacagcggctactgtcttcca	7	7	10	17	4	1	0	0	0	1	0	3	1	2	0	4	2	3	2	4	2	2	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	12867047	C	T	12867047	2	4	57	1	0	0	0	0	0	0	0	1	1405	489	17	2		2	BEST2	19	12867047	Silent	SNP	C	TCGA-B0-4693-01A-01D-1361-10	6122138	12867047	46261936	88	3356											
KPTN	11133	hgsc.bcm.edu	37	chr19	47980067	47980067	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcaggtcccacctgtccaTaggtggccaccaggacttct	7	10	10	14	0	2	0	1	0	1	0	4	1	4	1	5	4	0	0	5	4	1	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	47980067	T	C	47980067	3	2	57	1	0	0	0	0	1	0	0	0	8437	1406	49	3	330	3	KPTN	19	47980067	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10	35113020	47980067	11148916	89	3357											
RASIP1	54922	hgsc.bcm.edu	37	chr19	49224073	49224073	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaggagacgtggccacGggaggcccatggcgataatt	10	7	14	10	3	1	1	1	0	1	1	2	4	1	2	2	5	0	0	2	5	2	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	49224073	G	C	49224073	2	2	57	1	0	0	0	0	0	0	0	1	13080	1103	39	4		4	RASIP1	19	49224073	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	1244006	49224073	9904910	90	3358											
PYGB	5834	hgsc.bcm.edu;ucsc.edu	37	chr20	25260932	25260932	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacgaagaagacctgtgcaTacaccaaccacactgtgctg	13	7	8	13	1	1	2	1	0	0	2	1	3	1	2	3	0	4	2	3	0	4	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		C	25260932	T	C	25260932	3	2	57	1	0	0	0	0	1	0	0	0	12862	1406	49	3	1161	3	PYGB	20	25260932	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10		25260932	37764588	91	3359											
GGT7	2686	hgsc.bcm.edu	37	chr20	33437824	33437824	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcggccgcgggccaggctgtCactcaggttccggttcaagg	5	7	16	13	4	3	0	3	0	0	0	4	0	4	0	3	6	0	3	3	6	1	2	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		T	33437824	C	T	33437824	3	4	57	1	0	0	0	0	1	0	0	0	6364	826	29	2	231	2	GGT7	20	33437824	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	8176892	33437824	29587696	92	3360											
MYH7B	57644	hgsc.bcm.edu	37	chr20	33567548	33567548	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggccatgatgacgcacCtgaacgaggcctctgtgctg	9	8	12	12	2	1	3	0	3	1	0	1	4	1	3	3	2	2	2	3	2	1	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	33567548	C	A	33567548	3	1	57	1	0	0	0	0	1	0	0	0	10040	680	24	4	427	4	MYH7B	20	33567548	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	129724	33567548	29457972	93	3361											
C20orf132	0	hgsc.bcm.edu	37	chr20	35752076	35752077	+	Frame_Shift_Del	DEL	CA	CA	-																															gccacttgggatgtcgacatCagacatggtgaggccgatgc																								novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		-	35752077	CA	-	35752076	7	5	57	1	0	1	0	1	0	0	0	0	2086	826	29	0	1256	0	C20orf132	20	35752076	Frame_Shift_Del	DEL	CA	TCGA-B0-4693-01A-01D-1361-10	2184528	35752076	27273444	94	3362											
L3MBTL	0	hgsc.bcm.edu	37	chr20	42162041	42162041	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgccagaagcaaggaaagcCcctcacccctccacaaggtg	12	4	10	15	0	1	1	1	0	0	1	2	2	2	2	6	2	3	1	6	2	4	0	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	42162041	C	A	42162041	3	1	57	1	0	0	0	0	1	0	0	0	8591	623	22	4	1264	4	L3MBTL	20	42162041	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10	6409965	42162041	20863479	95	3363											
TMPRSS2	7113	hgsc.bcm.edu	37	chr21	42861492	42861492	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acgaggaaggtccccagggtCaaggtgatgcacagtgcttt	10	8	14	9	1	1	1	1	1	0	0	2	3	2	2	2	4	2	2	2	4	2	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	42861492	C	G	42861492	3	3	57	1	0	0	0	0	1	0	0	0	16246	825	29	4	1255	4	TMPRSS2	21	42861492	Missense_Mutation	SNP	C	TCGA-B0-4693-01A-01D-1361-10		42861492	5268403	96	3364											
AIFM3	150209	hgsc.bcm.edu	37	chr22	21332205	21332205	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccaatgtcccaggcgtgtTtgcagctggcgatgctgtca	7	10	13	11	2	1	0	1	0	0	0	2	2	2	0	2	2	3	4	2	2	1	1	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	21332205	T	A	21332205	3	1	57	1	0	0	0	0	1	0	0	0	428	1841	64	5	1464	5	AIFM3	22	21332205	Missense_Mutation	SNP	T	TCGA-B0-4693-01A-01D-1361-10		21332205	29972361	97	3365											
GPR112	139378	hgsc.bcm.edu	37	chrX	135498624	135498624	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactgcagatgactttgacAaagatccttactgttcctct	10	15	6	10	0	1	4	0	2	1	2	3	4	3	4	2	0	3	2	2	0	3	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	135498624	A	G	135498624	3	3	57	1	0	0	0	0	1	0	0	0	6629	131	5	3	9307	3	GPR112	23	135498624	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10		135498624	19771936	98	3366											
CDR1	1038	hgsc.bcm.edu;ucsc.edu	37	chrX	139865947	139865947	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaatatatgtcttcctgaaGatccacgtcttccagaaaat	13	12	5	11	1	2	3	0	1	2	2	5	3	5	3	4	0	0	0	4	0	6	4	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		A	139865947	G	A	139865947	2	1	57	1	0	0	0	0	0	0	0	1	3171	932	33	2		2	CDR1	23	139865947	Silent	SNP	G	TCGA-B0-4693-01A-01D-1361-10	4367323	139865947	15404613	99	3367											
G6PD	2539	hgsc.bcm.edu	37	chrX	153763534	153763534	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaggaggctgcatcatcgtActggccagccacataggagt	10	8	13	10	1	1	0	1	0	0	0	2	2	1	2	2	4	3	4	2	4	3	3	novel		TCGA-B0-4693-01A-01D-1361-10	TCGA-B0-4693-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a4700126-bb06-4618-9aa9-555139e4403a	819dd79c-b4d5-49c4-9b60-4c652ab13a5f		G	153763534	A	G	153763534	3	3	57	1	0	0	0	0	1	0	0	0	6146	391	14	3	1249	3	G6PD	23	153763534	Missense_Mutation	SNP	A	TCGA-B0-4693-01A-01D-1361-10	13897587	153763534	1507026	100	3368											
RCC2	55920	hgsc.bcm.edu	37	chr1	17743003	17743003	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcgccacaggccacgtcTcgtacaaccacgtttggtac	9	9	9	14	4	1	0	0	0	1	0	2	0	1	0	3	2	4	3	3	2	4	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	17743003	T	A	17743003	2	1	58	1	0	0	0	0	0	0	0	1	13176	1538	54	5		5	RCC2	1	17743003	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10		17743003	231507618	1	3369											
THBS3	7059	hgsc.bcm.edu	37	chr1	155174663	155174663	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgcactgtggatggacTcgtccccttggaatggacac	8	10	11	12	1	0	0	0	0	0	0	2	4	1	4	3	4	2	1	3	4	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	155174663	T	A	155174663	3	1	58	1	0	0	0	0	1	0	0	0	15854	1551	54	5	2321	5	THBS3	1	155174663	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	137431660	155174663	94075958	2	3370											
GON4L	54856	hgsc.bcm.edu	37	chr1	155735259	155735259	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctcaggggatccactgatTtcctctctagcttcttcagg	6	13	9	13	1	4	1	2	1	2	0	7	2	6	2	2	3	1	2	2	3	1	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	155735259	T	C	155735259	2	2	58	1	0	0	0	0	0	0	0	1	6572	1838	64	3		3	GON4L	1	155735259	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10	560596	155735259	93515362	3	3371											
FCRLB	127943	hgsc.bcm.edu	37	chr1	161693269	161693269	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgctcctggagctccaGcccatcagcactctctggta	7	9	8	17	0	2	0	1	0	1	0	5	1	4	1	4	2	4	4	4	2	1	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	161693269	G	T	161693269	3	4	58	1	0	0	0	0	1	0	0	0	5801	962	34	4	175	4	FCRLB	1	161693269	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	5958010	161693269	87557352	4	3372											
XPR1	9213	hgsc.bcm.edu;ucsc.edu	37	chr1	180651511	180651511	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataggctttcaaggatatgCtgtattcagctcaggaccag	12	11	10	8	0	3	0	3	0	0	0	3	2	3	2	1	3	2	4	1	3	5	5	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	180651511	C	A	180651511	3	1	58	1	0	0	0	0	1	0	0	0	17450	796	28	4	91	4	XPR1	1	180651511	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	18958242	180651511	68599110	5	3373											
PROX1	5629	hgsc.bcm.edu	37	chr1	214170552	214170552	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagtttccagcagctggTttcagcccgaaaagaacaga	14	7	10	10	1	1	3	1	0	0	3	2	4	2	3	2	1	4	4	2	1	3	2	rs146788962	alternate_allele	TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	214170552	T	A	214170552	3	1	58	1	0	0	0	0	1	0	0	0	12562	1725	60	5	676	5	PROX1	1	214170552	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	33519041	214170552	35080069	6	3374											
PLB1	151056	hgsc.bcm.edu;ucsc.edu	37	chr2	28812901	28812901	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccagaagacgactcgTcataagtttgaaaacaagat	15	9	10	7	2	1	4	1	1	0	3	2	5	1	4	1	1	1	2	1	1	5	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	28812901	T	C	28812901	2	2	58	1	0	0	0	0	0	0	0	1	12024	1654	58	3		3	PLB1	2	28812901	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10		28812901	214386472	7	3375											
NFU1	27247	hgsc.bcm.edu	37	chr2	69650833	69650833	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggtatcttgtgtttgAataaacatgtatctcactaa	11	17	8	5	0	2	1	1	1	2	0	3	1	2	1	0	2	1	3	0	2	6	7	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	69650833	A	C	69650833	3	2	58	1	0	0	0	0	1	0	0	0	10386	242	9	5	605	5	NFU1	2	69650833	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	40837932	69650833	173548540	8	3376											
KIAA1310	0	hgsc.bcm.edu;ucsc.edu	37	chr2	97278654	97278654	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgatgagaatcagcggAgagccagggagtttgctcta	11	7	16	7	2	2	2	1	1	1	2	2	7	2	3	1	3	3	2	1	3	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	97278654	A	G	97278654	2	3	58	1	0	0	0	0	0	0	0	1	8222	291	11	3		3	KIAA1310	2	97278654	Silent	SNP	A	TCGA-B0-4694-01A-01D-1361-10	27627821	97278654	145920719	9	3377											
FER1L5	90342	hgsc.bcm.edu;ucsc.edu	37	chr2	97366098	97366098	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccctactgttcatggtttgGgacccaagaaggaacgcctt	9	10	10	12	1	1	1	1	0	0	1	1	3	1	3	4	3	2	2	4	3	4	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	97366098	G	A	97366098	3	1	58	1	0	0	0	0	1	0	0	0	5814	1233	43	2	5215	2	FER1L5	2	97366098	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	87444	97366098	145833275	10	3378											
ALS2CR11	151254	hgsc.bcm.edu	37	chr2	202352345	202352345	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacatttttcaatatcctCttttaattttttttggccgc	8	20	4	9	2	2	0	1	0	1	0	3	1	3	0	2	1	1	0	2	1	4	9	rs149841146	alternate_allele	TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	202352345	C	A	202352345	3	1	58	1	0	0	0	0	1	0	0	0	552	913	32	4	13	4	ALS2CR11	2	202352345	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	104986247	202352345	40847028	11	3379											
GNAI2	2771	hgsc.bcm.edu	37	chr3	50295032	50295032	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctacacgcacttcacgtgCgccaccgacaccaagaacgt	12	6	7	16	5	2	1	1	0	1	1	2	2	2	1	3	0	3	1	3	0	3	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	50295032	C	T	50295032	2	4	58	1	0	0	0	0	0	0	0	1	6505	776	27	1		1	GNAI2	3	50295032	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10		50295032	147727398	12	3380											
DCP1A	55802	hgsc.bcm.edu;ucsc.edu	37	chr3	53326738	53326738	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggctctttctgggaggcAtctcctggcaacctctccat	5	13	10	13	0	4	0	0	0	4	0	6	1	4	1	3	4	1	3	3	4	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	53326738	A	C	53326738	3	2	58	1	0	0	0	0	1	0	0	0	4298	214	8	5	1020	5	DCP1A	3	53326738	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	3031706	53326738	144695692	13	3381											
WDR5B	54554	hgsc.bcm.edu	37	chr3	122133767	122133767	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatcgtcatcaacgagcgtTtttaaacactgacctgatgc	11	13	7	10	3	2	2	2	2	0	0	3	3	2	2	1	0	4	1	1	0	4	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	122133767	T	C	122133767	2	2	58	1	0	0	0	0	0	0	0	1	17308	1838	64	3		3	WDR5B	3	122133767	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10	68807029	122133767	75888663	14	3382											
ARMC8	25852	hgsc.bcm.edu;ucsc.edu	37	chr3	137963939	137963939	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttccccatagcttgatcatGatttaaaacatgctcacgaa	13	13	5	10	1	2	2	2	2	0	0	3	3	3	2	2	0	3	2	2	0	4	5	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	137963939	G	A	137963939	3	1	58	1	0	0	0	0	1	0	0	0	957	1290	45	2	1052	2	ARMC8	3	137963939	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	15830172	137963939	60058491	15	3383											
IGSF10	285313	hgsc.bcm.edu	37	chr3	151164336	151164336	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtatggatgttggagcatAtgtcatgactgcaccagttg	9	12	14	6	0	1	1	1	1	0	0	1	3	1	3	1	3	2	5	1	3	2	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	151164336	A	C	151164336	3	2	58	1	0	0	0	0	1	0	0	0	7597	449	16	5	4498	5	IGSF10	3	151164336	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	13200397	151164336	46858094	16	3384											
LRRC15	131578	hgsc.bcm.edu	37	chr3	194080112	194080112	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agccgacgcaggcagccaggGagcaggccagggcgacaatg	11	1	17	12	3	0	0	0	0	0	0	0	3	0	1	3	4	3	3	3	4	1	0	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	194080112	G	A	194080112	3	1	58	1	0	0	0	0	1	0	0	0	8970	1174	41	2	88	2	LRRC15	3	194080112	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	42915776	194080112	3942318	17	3385											
ANKRD56	0	hgsc.bcm.edu	37	chr4	77817362	77817362	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctctgcaagttttagtgaTaaacctgcatcaacccttgg	11	12	7	11	0	2	1	1	1	1	0	2	1	2	1	3	1	4	3	3	1	5	4	rs2703131	bycluster;byfrequency;by1000genomes	TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	77817362	T	C	77817362	2	2	58	1	0	0	0	0	0	0	0	1	682	1403	49	3		3	ANKRD56	4	77817362	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10		77817362	113336914	18	3386											
GALNT7	51809	hgsc.bcm.edu	37	chr4	174219388	174219388	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggattggagtatgctctggaAacgggtgcctctgacccctc	7	10	13	11	1	2	1	0	1	2	0	3	4	2	4	3	4	3	2	3	4	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	174219388	A	G	174219388	3	3	58	1	0	0	0	0	1	0	0	0	6218	14	1	3	1110	3	GALNT7	4	174219388	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	96402026	174219388	16934888	19	3387											
DDX4	54514	hgsc.bcm.edu;ucsc.edu	37	chr5	55109576	55109576	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttttctttgtcaagaaaAaatatcaactacaagtattc	17	14	3	7	0	3	1	2	0	1	1	4	1	3	1	0	0	3	1	0	0	10	7	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	55109576	A	C	55109576	3	2	58	1	0	0	0	0	1	0	0	0	4360	14	1	5	1802	5	DDX4	5	55109576	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10		55109576	125805684	20	3388											
IL4	3565	hgsc.bcm.edu	37	chr5	132018257	132018257	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagacgatcatgagagagaAatattcaaagtgttcgagct	17	9	10	5	2	2	3	2	1	0	3	3	7	2	3	0	0	1	2	0	0	4	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	132018257	A	G	132018257	3	3	58	1	0	0	0	0	1	0	0	0	7696	14	1	3	454	3	IL4	5	132018257	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	76908681	132018257	48897003	21	3389											
TCERG1	10915	hgsc.bcm.edu	37	chr5	145862191	145862191	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacattgactcagagaaagaAgctgccatggaagctgaaat	16	7	11	7	0	1	4	1	2	0	2	1	7	1	5	1	1	3	2	1	1	4	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	145862191	A	G	145862191	2	3	58	1	0	0	0	0	0	0	0	1	15684	69	3	3		3	TCERG1	5	145862191	Silent	SNP	A	TCGA-B0-4694-01A-01D-1361-10	13843934	145862191	35053069	22	3390											
NDST1	3340	hgsc.bcm.edu	37	chr5	149921139	149921139	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgttgttttaggacccctGcgaggacaaacgtcacaaag	12	9	10	10	2	1	0	1	0	0	0	1	3	1	2	2	2	2	2	2	2	3	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	149921139	G	T	149921139	3	4	58	1	0	0	0	0	1	0	0	0	10255	1319	46	4	1787	4	NDST1	5	149921139	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	4058948	149921139	30994121	23	3391											
FAM65B	9750	hgsc.bcm.edu	37	chr6	24828489	24828489	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaaagcagaggctcagcCcggtccagaatttgggacac	12	5	14	10	1	1	2	1	0	0	2	2	5	2	4	2	4	2	2	2	4	2	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	24828489	C	T	24828489	2	4	58	1	0	0	0	0	0	0	0	1	5600	610	22	2		2	FAM65B	6	24828489	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10		24828489	146286578	24	3392											
HIST1H2BD	3017	hgsc.bcm.edu	37	chr6	26158751	26158751	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggagggcaccaaggcCgtcaccaagtacaccagttc	10	6	12	13	2	1	0	1	0	0	0	3	1	1	1	4	3	1	3	4	3	3	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	26158751	C	T	26158751	2	4	58	1	0	0	0	0	0	0	0	1	7143	639	23	1		1	HIST1H2BD	6	26158751	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10	1330262	26158751	144956316	25	3393											
PRPH2	5961	hgsc.bcm.edu	37	chr6	42690020	42690020	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcatgagccagagccctTgggccaacttgacccgcttc	8	9	10	14	1	1	3	1	2	0	1	2	3	1	3	4	1	3	2	4	1	1	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	42690020	T	C	42690020	3	2	58	1	0	0	0	0	1	0	0	0	12579	1812	63	3	999	3	PRPH2	6	42690020	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	16531269	42690020	128425047	26	3394											
GPR31	2853	hgsc.bcm.edu	37	chr6	167570628	167570628	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcagaaagcacagagcaAacagcaccaccaccaaggtg	17	1	11	12	0	0	2	0	0	0	2	0	2	0	2	3	2	4	4	3	2	3	0	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	167570628	A	G	167570628	3	3	58	1	0	0	0	0	1	0	0	0	6687	14	1	3	270	3	GPR31	6	167570628	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	124880608	167570628	3544439	27	3395											
RABL5	64792	hgsc.bcm.edu	37	chr7	100959746	100959746	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctccatttccttccggTggcttgggatgtcagcattg	6	14	10	11	1	2	0	1	0	1	0	5	1	4	1	3	3	1	2	3	3	0	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	100959746	T	G	100959746	3	3	58	1	0	0	0	0	1	0	0	0	12975	1696	59	5	281	5	RABL5	7	100959746	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10		100959746	58178917	28	3396											
JHDM1D	80853	hgsc.bcm.edu	37	chr7	139826594	139826594	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggaaagttttttggctAtatcagggacctccaccaat	11	11	8	11	0	1	0	1	0	0	0	2	2	2	2	4	3	0	2	4	3	4	5	rs182952796	by1000genomes	TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	139826594	A	G	139826594	3	3	58	1	0	0	0	0	1	0	0	0	7948	449	16	3	2154	3	JHDM1D	7	139826594	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	38866848	139826594	19312069	29	3397											
RARRES2	5919	hgsc.bcm.edu	37	chr7	150037576	150037576	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaggcccactgcacgggCgggtgcttgtgaaattcctc	7	9	14	11	2	0	1	0	1	0	0	2	2	1	2	2	4	2	2	2	4	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	150037576	C	A	150037576	2	1	58	1	0	0	0	0	0	0	0	1	13058	755	27	4		4	RARRES2	7	150037576	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10	10210982	150037576	9101087	30	3398											
ADAM18	8749	hgsc.bcm.edu	37	chr8	39537679	39537679	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatctatagccactggttcCtccatgagatcagatggaac	11	11	9	10	0	2	2	1	1	1	2	4	4	4	3	3	2	2	2	3	2	4	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	39537679	C	G	39537679	2	3	58	1	0	0	0	0	0	0	0	1	239	668	24	4		4	ADAM18	8	39537679	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10		39537679	106826343	31	3399											
CHRNA6	8973	hgsc.bcm.edu;ucsc.edu	37	chr8	42611131	42611131	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttctcttgcttgtggcaAgctcatttgatttgtgacaa	8	17	8	8	0	3	2	1	2	2	0	4	2	3	2	0	1	2	3	0	1	2	5	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	42611131	A	C	42611131	3	2	58	1	0	0	0	0	1	0	0	0	3387	72	3	5	281	5	CHRNA6	8	42611131	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	3073452	42611131	103752891	32	3400											
ZNF250	58500	hgsc.bcm.edu;ucsc.edu	37	chr8	146107413	146107413	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactcatagggcttctccccGgtgtgcacgttgtggtgctg	4	12	13	12	2	2	0	1	0	1	0	3	0	2	0	2	3	2	4	2	3	1	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	146107413	G	A	146107413	2	1	58	1	0	0	0	0	0	0	0	1	17794	1103	39	1		1	ZNF250	8	146107413	Silent	SNP	G	TCGA-B0-4694-01A-01D-1361-10	103496282	146107413	256609	33	3401											
NOL6	65083	hgsc.bcm.edu	37	chr9	33463856	33463856	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaggtccccggggatcCatgagctgcttctctaacat	7	10	9	15	1	1	1	0	1	1	0	5	2	4	2	5	3	3	2	5	3	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	33463856	C	T	33463856	3	4	58	1	0	0	0	0	1	0	0	0	10525	594	21	2	489	2	NOL6	9	33463856	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10		33463856	107749575	34	3402											
ASPN	54829	hgsc.bcm.edu;ucsc.edu	37	chr9	95233022	95233022	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgttttgaagatcaagcaTtcgagtatcaaatggaatgt	14	14	9	4	1	2	2	2	1	0	1	3	4	2	3	0	1	1	3	0	1	5	5	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	95233022	T	C	95233022	3	2	58	1	0	0	0	0	1	0	0	0	1057	1493	52	3	850	3	ASPN	9	95233022	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	61769166	95233022	45980409	35	3403											
WNK2	65268	hgsc.bcm.edu	37	chr9	96002138	96002138	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacggcaggaagtccaccatCgccctgaggctctgggtgga	8	6	14	13	2	1	1	0	1	1	0	3	3	2	3	3	5	0	2	3	5	1	0	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	96002138	C	T	96002138	2	4	58	1	0	0	0	0	0	0	0	1	17377	874	31	1		1	WNK2	9	96002138	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10	769116	96002138	45211293	36	3404											
KIAA0368	23392	hgsc.bcm.edu;ucsc.edu	37	chr9	114133030	114133030	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaccacacaggcaatggCtttcaatagctcctcctaag	11	10	7	13	0	2	0	2	0	0	0	4	0	4	0	3	2	1	3	3	2	4	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	114133030	C	T	114133030	3	4	58	1	0	0	0	0	1	0	0	0	8171	797	28	2	794	2	KIAA0368	9	114133030	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	18130892	114133030	27080401	37	3405											
ZNF483	158399	hgsc.bcm.edu;ucsc.edu	37	chr9	114305082	114305082	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagccattttacgtctgtgAtttatcatcaaagacttcat	11	17	5	8	1	4	2	3	1	1	1	4	2	4	2	1	0	2	0	1	0	4	6	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	114305082	A	C	114305082	3	2	58	1	0	0	0	0	1	0	0	0	17935	333	12	5	1885	5	ZNF483	9	114305082	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	172052	114305082	26908349	38	3406											
SETX	23064	hgsc.bcm.edu;ucsc.edu	37	chr9	135203821	135203821	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggattcttttcctccttaCtattaactgttgaaacgtgc	8	17	6	10	1	1	1	0	1	1	0	3	2	3	2	2	1	4	1	2	1	4	7	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	135203821	C	T	135203821	3	4	58	1	0	0	0	0	1	0	0	0	14143	565	20	2	4937	2	SETX	9	135203821	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	20898739	135203821	6009610	39	3407											
AKR1C1	1645	hgsc.bcm.edu;ucsc.edu	37	chr10	5009193	5009193	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaaaatcttcaattggaTtatgttgacctctaccttat	12	16	5	8	0	3	2	1	2	2	0	3	3	3	3	2	1	1	1	2	1	6	6	rs11548049	bycluster;byfrequency	TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	5009193	T	C	5009193	2	2	58	1	0	0	0	0	0	0	0	1	469	1490	52	3		3	AKR1C1	10	5009193	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10		5009193	130525554	40	3408											
TAF3	83860	hgsc.bcm.edu	37	chr10	8055709	8055709	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcagatccgagatgagtggGgcaatcagatctggatctgc	11	9	13	8	1	4	4	2	1	2	3	5	6	5	5	1	3	1	1	1	3	1	0	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	8055709	G	A	8055709	3	1	58	1	0	0	0	0	1	0	0	0	15524	1232	43	2	2606	2	TAF3	10	8055709	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	3046516	8055709	127479038	41	3409											
LRIT1	26103	hgsc.bcm.edu	37	chr10	85992243	85992243	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgctgtggtaagtgtcccCcaccaccttcacagacctca	9	8	7	17	1	2	1	2	0	0	1	3	1	3	1	5	1	0	2	5	1	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	85992243	C	A	85992243	3	1	58	1	0	0	0	0	1	0	0	0	8947	623	22	4	563	4	LRIT1	10	85992243	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	77936534	85992243	49542504	42	3410											
PTEN	5728	hgsc.bcm.edu	37	chr10	89692884	89692884	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcatgttgcagcaattcActgtaaagctggaaagggac	14	9	10	8	0	2	0	2	0	0	0	2	2	2	2	0	2	3	5	0	2	5	3	rs121909222	alternate_allele	TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	89692884	A	T	89692884	3	4	58	1	0	0	0	0	1	0	0	0	12740	159	6	5	386	5	PTEN	10	89692884	Missense_Mutation	SNP	A	TCGA-B0-4694-01A-01D-1361-10	3700641	89692884	45841863	43	3411											
BHLHE41	79365	hgsc.bcm.edu	37	chr12	26277067	26277067	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgcattcattaattcggtCtcttcttttcttttctatta	8	22	3	8	1	5	0	1	0	4	0	7	0	5	0	0	1	1	1	0	1	4	10	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	26277067	C	T	26277067	3	4	58	1	0	0	0	0	1	0	0	0	1424	913	32	2	1288	2	BHLHE41	12	26277067	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10		26277067	107574828	44	3412											
SLC4A8	9498	hgsc.bcm.edu	37	chr12	51868167	51868167	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatccaaacaatcacacccTccagtactggaaggaccaca	16	5	6	14	0	1	0	1	0	0	0	3	3	3	2	4	2	2	1	4	2	5	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	51868167	T	A	51868167	3	1	58	1	0	0	0	0	1	0	0	0	14661	1551	54	5	2004	5	SLC4A8	12	51868167	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	25591100	51868167	81983728	45	3413											
ATF7	11016	hgsc.bcm.edu;ucsc.edu	37	chr12	53937186	53937186	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctagttcattgaagagtccCacctcctcacagttcttcag	9	12	7	13	0	4	2	3	1	1	1	6	2	6	2	3	0	0	3	3	0	2	5	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	53937186	C	G	53937186	2	3	58	1	0	0	0	0	0	0	0	1	1086	581	21	4		4	ATF7	12	53937186	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10	2069019	53937186	79914709	46	3414											
KSR2	283455	hgsc.bcm.edu	37	chr12	118105409	118105409	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagaggggatgttctcgcaGctgcctacgctgctgtggat	6	11	15	9	2	1	1	0	1	1	1	2	4	1	3	1	3	4	5	1	3	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	118105409	G	T	118105409	3	4	58	1	0	0	0	0	1	0	0	0	8582	962	34	4	1875	4	KSR2	12	118105409	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	64168223	118105409	15746486	47	3415											
CENPJ	55835	hgsc.bcm.edu;ucsc.edu	37	chr13	25457359	25457359	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaccctccttgtccttaaCtcttatccgaccggatctgt	7	15	5	14	2	2	0	0	0	2	0	5	2	5	1	5	1	2	0	5	1	3	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	25457359	C	G	25457359	3	3	58	1	0	0	0	0	1	0	0	0	3234	565	20	4	47	4	CENPJ	13	25457359	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10		25457359	89712519	48	3416											
CENPJ	55835	hgsc.bcm.edu	37	chr13	25486101	25486101	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacctggaagtgtgcactgcCcagacaccatggtgagcagc	10	7	12	12	0	0	2	0	1	0	1	0	3	0	3	3	2	5	2	3	2	2	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	25486101	C	A	25486101	3	1	58	1	0	0	0	0	1	0	0	0	3234	623	22	4	3525	4	CENPJ	13	25486101	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	28742	25486101	89683777	49	3417											
RNASE1	6035	hgsc.bcm.edu	37	chr14	21270037	21270037	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtttgcaccgcccctgtGtcatattccggcgcctcatc	4	12	9	16	3	2	0	2	0	0	0	4	0	3	0	5	2	1	2	5	2	1	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	21270037	G	A	21270037	3	1	58	1	0	0	0	0	1	0	0	0	13401	1377	48	2	283	2	RNASE1	14	21270037	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10		21270037	86079503	50	3418											
SEC23A	10484	hgsc.bcm.edu;ucsc.edu	37	chr14	39555078	39555078	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccagaagatctgtgagaTtcatgtctattttctgtact	9	16	7	9	0	4	3	1	1	3	3	5	4	5	3	1	0	1	1	1	0	3	5	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	39555078	T	C	39555078	3	2	58	1	0	0	0	0	1	0	0	0	13993	1493	52	3	1637	3	SEC23A	14	39555078	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	18285041	39555078	67794462	51	3419											
KTN1	3895	hgsc.bcm.edu;ucsc.edu	37	chr14	56137506	56137506	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaatgtatggctggaacTtcagggtcagaggaggttaa	14	9	14	4	0	2	2	2	0	0	2	2	4	2	4	0	5	1	3	0	5	5	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	56137506	T	A	56137506	2	1	58	1	0	0	0	0	0	0	0	1	8585	1596	56	5		5	KTN1	14	56137506	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10	16582428	56137506	51212034	52	3420											
LARP6	55323	hgsc.bcm.edu	37	chr15	71125110	71125110	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcactcctgggtccccaCttggctgtagcggctgctga	4	9	14	14	2	0	1	0	1	0	0	2	1	2	1	3	4	2	5	3	4	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	71125110	C	G	71125110	3	3	58	1	0	0	0	0	1	0	0	0	8632	565	20	4	722	4	LARP6	15	71125110	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10		71125110	31406282	53	3421											
SGK269	0	hgsc.bcm.edu	37	chr15	77406808	77406808	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggttgggattcaggaggCagctggccagctgctgcaga	9	7	17	8	0	1	1	1	0	0	1	1	3	1	3	1	5	4	6	1	5	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	77406808	C	A	77406808	3	1	58	1	0	0	0	0	1	0	0	0	14213	710	25	4	313	4	SGK269	15	77406808	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	6281698	77406808	25124584	54	3422											
UQCRC2	7385	hgsc.bcm.edu	37	chr16	21982911	21982911	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgaggggtgggcttggtTtatctggtgcaaaggccaac	9	10	15	7	0	1	1	0	1	1	0	1	1	1	1	1	6	2	3	1	6	3	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	21982911	T	C	21982911	2	2	58	1	0	0	0	0	0	0	0	1	17019	1838	64	3		3	UQCRC2	16	21982911	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10		21982911	68371842	55	3423											
MMP2	4313	hgsc.bcm.edu;ucsc.edu	37	chr16	55519658	55519658	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacctacaactttgagaaGgatggcaagtacggcttctg	12	9	10	10	1	1	1	0	1	1	1	1	3	1	2	2	3	3	3	2	3	5	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	55519658	G	C	55519658	3	2	58	1	0	0	0	0	1	0	0	0	9658	991	35	4	826	4	MMP2	16	55519658	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	33536747	55519658	34835095	56	3424											
SLC12A3	6559	hgsc.bcm.edu;ucsc.edu	37	chr16	56938335	56938335	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggtgaggctgaatgagaTtgtgctggattactcccgag	9	10	15	7	1	0	3	0	3	0	1	1	6	1	4	1	3	2	3	1	3	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	56938335	T	G	56938335	3	3	58	1	0	0	0	0	1	0	0	0	14386	1493	52	5	3010	5	SLC12A3	16	56938335	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	1418677	56938335	33416418	57	3425											
FAM57A	79850	hgsc.bcm.edu;ucsc.edu	37	chr17	641269	641269	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catgcggtcattctctttgtCcttgtgccagtcgcacaggt	5	14	10	12	2	2	0	1	0	1	0	5	0	3	0	2	2	2	1	2	2	0	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	641269	C	A	641269	2	1	58	1	0	0	0	0	0	0	0	1	5588	842	30	4		4	FAM57A	17	641269	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10		641269	80553941	58	3426											
ZMYND15	84225	hgsc.bcm.edu	37	chr17	4645276	4645276	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaatgcggacatggggTccccggccaggcttcacctt	7	7	11	16	2	1	0	1	0	0	0	2	1	2	1	6	5	1	1	6	5	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	4645276	T	C	4645276	2	2	58	1	0	0	0	0	0	0	0	1	17707	1654	58	3		3	ZMYND15	17	4645276	Silent	SNP	T	TCGA-B0-4694-01A-01D-1361-10	4004007	4645276	76549934	59	3427											
NF1	4763	hgsc.bcm.edu;ucsc.edu	37	chr17	29665755	29665755	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttaaaaggacctgacactTacaacagtcaagttctgata	15	10	7	9	0	2	2	1	2	1	0	2	3	2	3	1	1	2	2	1	1	6	4	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	29665755	T	C	29665755	3	2	58	1	0	0	0	0	1	0	0	0	10356	1754	61	3	7096	3	NF1	17	29665755	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	25020479	29665755	51529455	60	3428											
NLE1	54475	hgsc.bcm.edu	37	chr17	33463419	33463419	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggattaactgaggcctcaGcaggttcaaaggccccagtg	10	7	14	10	0	2	1	2	1	0	0	2	2	2	2	3	5	2	2	3	5	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	33463419	G	C	33463419	3	2	58	1	0	0	0	0	1	0	0	0	10460	971	34	4	555	4	NLE1	17	33463419	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	3797664	33463419	47731791	61	3429											
VPS25	84313	hgsc.bcm.edu	37	chr17	40925801	40925801	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcagctggccgcctggtgctCgctggtcctgtccttctgcc	1	11	13	16	2	1	0	0	0	1	0	4	0	3	0	5	3	3	4	5	3	0	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	40925801	C	G	40925801	3	3	58	1	0	0	0	0	1	0	0	0	17195	893	31	4	110	4	VPS25	17	40925801	Missense_Mutation	SNP	C	TCGA-B0-4694-01A-01D-1361-10	7462382	40925801	40269409	62	3430											
GPATCH8	23131	hgsc.bcm.edu;ucsc.edu	37	chr17	42475564	42475564	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcatcctcagccccatctGttgactcaatactaggatcc	11	10	6	14	0	3	1	2	1	1	0	5	2	5	2	4	1	3	2	4	1	4	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	42475564	G	C	42475564	3	2	58	1	0	0	0	0	1	0	0	0	6594	1377	48	4	631	4	GPATCH8	17	42475564	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	1549763	42475564	38719646	63	3431											
ACE	1636	hgsc.bcm.edu;ucsc.edu	37	chr17	61557828	61557828	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttcgtccgccgcgcactGcatcgccgatacggagacag	7	6	12	16	7	0	1	0	0	0	1	3	3	1	1	4	1	2	2	4	1	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	61557828	G	A	61557828	2	1	58	1	0	0	0	0	0	0	0	1	136	1306	46	2		2	ACE	17	61557828	Silent	SNP	G	TCGA-B0-4694-01A-01D-1361-10	19082264	61557828	19637382	64	3432											
SLC16A6	9120	hgsc.bcm.edu;ucsc.edu	37	chr17	66268860	66268860	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtcttttgccaaaatatTgtgataggatggttacagtt	12	15	9	5	1	1	1	0	1	1	0	1	2	1	2	1	2	3	2	1	2	6	7	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	66268860	T	A	66268860	3	1	58	1	0	0	0	0	1	0	0	0	14414	1812	63	5	1158	5	SLC16A6	17	66268860	Missense_Mutation	SNP	T	TCGA-B0-4694-01A-01D-1361-10	4711032	66268860	14926350	65	3433											
LAMA1	284217	hgsc.bcm.edu;ucsc.edu	37	chr18	7008502	7008502	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtacctgacatgagaatccCacagtgccaggaggacagac	13	5	11	12	1	0	3	0	2	0	2	1	6	1	5	3	2	2	1	3	2	2	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	7008502	C	T	7008502	2	4	58	1	0	0	0	0	0	0	0	1	8605	581	21	2		2	LAMA1	18	7008502	Silent	SNP	C	TCGA-B0-4694-01A-01D-1361-10		7008502	71068746	66	3434											
C18orf55	0	hgsc.bcm.edu	37	chr18	71825486	71825486	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctctgagccagggaagcaagGaacggtgtatgcgcaagtga	12	6	15	8	2	1	2	0	2	1	0	1	4	1	4	1	3	4	3	1	3	5	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	71825486	G	A	71825486	3	1	58	1	0	0	0	0	1	0	0	0	1905	1174	41	2	635	2	C18orf55	18	71825486	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	64816984	71825486	6251762	67	3435											
IL12RB1	3594	hgsc.bcm.edu	37	chr19	18174754	18174754	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgctcgcacctgcaccGtgtaggctacaccagcccgc	6	8	10	17	3	1	0	0	0	1	0	2	0	1	0	4	1	4	5	4	1	2	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	18174754	G	A	18174754	3	1	58	1	0	0	0	0	1	0	0	0	7626	1145	40	1	458	1	IL12RB1	19	18174754	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10		18174754	40954229	68	3436											
WDR62	284403	hgsc.bcm.edu	37	chr19	36575625	36575625	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgctgaggtgctgtgcctgGagtactccaagccagagacg	9	8	14	10	1	0	2	0	1	0	1	1	4	1	3	3	2	5	3	3	2	2	1	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	36575625	G	T	36575625	4	4	58	1	0	0	0	0	0	1	0	0	17312	1175	41	4	1667	4	WDR62	19	36575625	Nonsense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	18400871	36575625	22553358	69	3437											
ZNF787	126208	hgsc.bcm.edu;ucsc.edu	37	chr19	56614566	56614566	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcggccccggagaccaGgcttcttcccgcagctccat	6	7	10	18	3	1	1	0	0	1	1	4	2	4	1	6	3	2	3	6	3	0	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	56614566	G	C	56614566	2	2	58	1	0	0	0	0	0	0	0	1	18158	987	35	4		4	ZNF787	19	56614566	Silent	SNP	G	TCGA-B0-4694-01A-01D-1361-10	20038941	56614566	2514417	70	3438											
DDX27	55661	hgsc.bcm.edu	37	chr20	47835898	47835898	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacggaagtgacgcatggtActtgcgcaaagacgacgagg	13	5	15	8	5	0	2	0	1	0	1	0	6	0	3	0	3	3	3	0	3	4	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		G	47835898	A	G	47835898	2	3	58	1	0	0	0	0	0	0	0	1	4354	378	14	3		3	DDX27	20	47835898	Silent	SNP	A	TCGA-B0-4694-01A-01D-1361-10		47835898	15189622	71	3439											
SLC7A4	6545	hgsc.bcm.edu;ucsc.edu	37	chr22	21383473	21383473	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccctggcagctcccgctgGttctccttgctatgccggat	4	11	11	15	2	1	0	0	0	1	0	3	1	2	1	4	3	4	5	4	3	1	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		T	21383473	G	T	21383473	3	4	58	1	0	0	0	0	1	0	0	0	14701	1252	44	4	132	4	SLC7A4	22	21383473	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10		21383473	29921093	72	3440											
PLA2G6	8398	hgsc.bcm.edu;ucsc.edu	37	chr22	38509556	38509556	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtcttggccagctcccaggGgttgctgggacggaagacat	8	8	15	10	1	1	1	0	0	1	1	2	3	2	3	2	5	2	3	2	5	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	38509556	G	A	38509556	3	1	58	1	0	0	0	0	1	0	0	0	12008	1232	43	2	292	2	PLA2G6	22	38509556	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	17126083	38509556	12795010	73	3441											
POLDIP3	84271	hgsc.bcm.edu;ucsc.edu	37	chr22	42992326	42992326	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attctgaaccactttggtgaGagggagggccttggacatgg	9	10	15	7	0	1	2	0	2	1	1	1	5	1	4	2	5	1	0	2	5	1	3	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	42992326	G	C	42992326	3	2	58	1	0	0	0	0	1	0	0	0	12195	942	33	4	606	4	POLDIP3	22	42992326	Missense_Mutation	SNP	G	TCGA-B0-4694-01A-01D-1361-10	4482770	42992326	8312240	74	3442											
FRMPD4	9758	hgsc.bcm.edu;ucsc.edu	37	chrX	12736245	12736245	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tatgtggccactgaaggtggGatggctgaaaaaagtggatt	12	10	15	4	0	0	2	0	2	0	0	0	4	0	4	1	5	0	1	1	5	5	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		C	12736245	G	C	12736245	2	2	58	1	0	0	0	0	0	0	0	1	6059	1161	41	4		4	FRMPD4	23	12736245	Silent	SNP	G	TCGA-B0-4694-01A-01D-1361-10		12736245	142534315	75	3443											
KDM5C	8242	ucsc.edu	37	chrX	53240028	53240031	+	Frame_Shift_Del	DEL	GGTA	GGTA	-																															acatttaggttccaaccactGgtagcatactcctgccaggt																								novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	GGTA	GGTA	GGTA	-	GGTA	GGTA	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		-	53240031	GGTA	-	53240028	7	5	58	1	0	1	0	1	0	0	0	0	8135	1335	47	0	3431	0	KDM5C	23	53240028	Frame_Shift_Del	DEL	GGTA	TCGA-B0-4694-01A-01D-1361-10	40503783	53240028	102030532	76	3444											
L1CAM	3897	hgsc.bcm.edu	37	chrX	153131183	153131183	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatccgcggaggtggcccttGacctgggccaggtccaccgg	5	7	15	14	3	0	1	0	1	0	0	2	2	2	2	6	6	0	0	6	6	1	2	novel		TCGA-B0-4694-01A-01D-1361-10	TCGA-B0-4694-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	41bb1730-882b-4f39-9152-fbb07c030941	5aa17238-3462-4d47-b59d-459418de9e98		A	153131183	G	A	153131183	2	1	58	1	0	0	0	0	0	0	0	1	8588	1277	45	2		2	L1CAM	23	153131183	Silent	SNP	G	TCGA-B0-4694-01A-01D-1361-10	99891155	153131183	2139377	77	3445											
NPHS2	7827	hgsc.bcm.edu	37	chr1	179521759	179521759	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcactttggcttgtctttgCgcttcagcctccacagccag	5	12	9	15	2	2	0	1	0	1	0	3	0	3	0	3	1	3	3	3	1	0	4	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	179521759	C	A	179521759	2	1	59	1	0	0	0	0	0	0	0	1	10583	755	27	4		4	NPHS2	1	179521759	Silent	SNP	C	TCGA-B0-4697-01A-01D-1361-10		179521759	69728862	1	3446											
C1orf65	164127	hgsc.bcm.edu	37	chr1	223568115	223568115	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcaattaccaggcccGgaaggtcctcatggactgcc	9	8	9	15	1	3	0	3	0	0	0	4	2	4	2	5	4	2	0	5	4	3	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	223568115	G	T	223568115	3	4	59	1	0	0	0	0	1	0	0	0	2055	1116	39	4	1300	4	C1orf65	1	223568115	Missense_Mutation	SNP	G	TCGA-B0-4697-01A-01D-1361-10	44046356	223568115	25682506	2	3447											
RHOB	388	hgsc.bcm.edu	37	chr2	20647607	20647607	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcgcagcgacgagcatgtCcgcacagagctggcccgcat	8	5	13	15	5	0	1	0	0	0	1	1	3	1	1	2	1	4	5	2	1	0	0	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	20647607	C	A	20647607	2	1	59	1	0	0	0	0	0	0	0	1	13334	842	30	4		4	RHOB	2	20647607	Silent	SNP	C	TCGA-B0-4697-01A-01D-1361-10		20647607	222551766	3	3448											
SPTBN1	6711	hgsc.bcm.edu	37	chr2	54753688	54753688	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttttgagcggtcccgcAtcaaggctctggcaggtgag	6	10	15	10	2	2	2	1	2	1	0	3	2	3	2	1	5	1	4	1	5	1	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	54753688	A	T	54753688	3	4	59	1	0	0	0	0	1	0	0	0	15120	217	8	5	135	5	SPTBN1	2	54753688	Missense_Mutation	SNP	A	TCGA-B0-4697-01A-01D-1361-10	34106081	54753688	188445685	4	3449											
SULT1C2	6819	hgsc.bcm.edu	37	chr2	108910186	108910186	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtggaggggaccctcctGcagcctgcaactgtggacaa	9	6	15	11	0	0	0	0	0	0	0	1	4	1	3	3	5	4	2	3	5	2	0	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	108910186	G	T	108910186	2	4	59	1	0	0	0	0	0	0	0	1	15376	1306	46	4		4	SULT1C2	2	108910186	Silent	SNP	G	TCGA-B0-4697-01A-01D-1361-10	54156498	108910186	134289187	5	3450											
PRKRA	8575	hgsc.bcm.edu	37	chr2	179307992	179307992	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaattgtaagaaataagtAccagtttccataaatgactc	16	14	5	6	0	0	2	0	1	0	1	2	2	1	2	2	0	1	3	2	0	7	8	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	179307992	A	T	179307992	5	4	59	1	0	0	0	0	0	0	1	0	12526	405	14	5	441	5	PRKRA	2	179307992	Splice_Site	SNP	A	TCGA-B0-4697-01A-01D-1361-10	70397806	179307992	63891381	6	3451											
ZNF385D	79750	hgsc.bcm.edu	37	chr3	21706406	21706406	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattggggaagaggttgactGcagctgcagtgtcaagagga	12	8	16	5	0	1	3	1	1	0	2	1	5	1	5	0	4	3	4	0	4	3	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	21706406	G	T	21706406	3	4	59	1	0	0	0	0	1	0	0	0	17877	1319	46	4	1078	4	ZNF385D	3	21706406	Missense_Mutation	SNP	G	TCGA-B0-4697-01A-01D-1361-10		21706406	176316024	7	3452											
MST1	4485	hgsc.bcm.edu	37	chr3	49725086	49725086	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaaccatggctgctcacGttgtagtggaaggccctgga	8	9	14	10	1	1	0	1	0	0	0	1	2	1	2	2	5	2	5	2	5	3	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	49725086	G	A	49725086	2	1	59	1	0	0	0	0	0	0	0	1	9890	1136	40	1		1	MST1	3	49725086	Silent	SNP	G	TCGA-B0-4697-01A-01D-1361-10	28018680	49725086	148297344	8	3453											
PRKCD	5580	hgsc.bcm.edu	37	chr3	53213676	53213676	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccacatctatgaggggCgcgtcatccagattgtgcta	9	10	11	11	2	2	2	1	1	1	1	3	2	3	2	2	2	2	1	2	2	2	3	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	53213676	C	A	53213676	3	1	59	1	0	0	0	0	1	0	0	0	12511	768	27	4	205	4	PRKCD	3	53213676	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10	3488590	53213676	144808754	9	3454											
SLC15A2	6565	hgsc.bcm.edu	37	chr3	121613338	121613338	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagccatgaatcctttccaGaaaaatgagtccaaggaaac	16	7	7	11	0	0	3	0	2	0	1	3	4	3	4	5	1	2	0	5	1	5	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	121613338	G	A	121613338	2	1	59	1	0	0	0	0	0	0	0	1	14401	933	33	2		2	SLC15A2	3	121613338	Silent	SNP	G	TCGA-B0-4697-01A-01D-1361-10	68399662	121613338	76409092	10	3455											
SH3TC1	54436	hgsc.bcm.edu	37	chr4	8229881	8229881	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccagtgctattgccggAgtccgtgccatcgtggacca	8	8	13	12	3	0	0	0	0	0	0	2	3	1	2	5	2	4	1	5	2	2	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	8229881	A	T	8229881	2	4	59	1	0	0	0	0	0	0	0	1	14263	291	11	5		5	SH3TC1	4	8229881	Silent	SNP	A	TCGA-B0-4697-01A-01D-1361-10		8229881	182924395	11	3456											
ANXA6	309	hgsc.bcm.edu	37	chr5	150514009	150514009	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggacatcctgttgtaccagGtcctcgctcactacgtcatc	7	12	8	14	2	2	0	2	0	0	0	6	1	4	1	3	2	2	3	3	2	2	3	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	150514009	G	A	150514009	2	1	59	1	0	0	0	0	0	0	0	1	722	1252	44	2		2	ANXA6	5	150514009	Silent	SNP	G	TCGA-B0-4697-01A-01D-1361-10		150514009	30401251	12	3457											
TSPAN17	26262	hgsc.bcm.edu	37	chr5	176084585	176084585	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttccgaggtcctgtccacGgcggggcctcagcagaactc	7	8	12	14	3	1	1	1	0	0	1	5	2	4	1	4	4	2	1	4	4	1	1	rs150851795		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	176084585	G	A	176084585	2	1	59	1	0	0	0	0	0	0	0	1	16640	1103	39	1		1	TSPAN17	5	176084585	Silent	SNP	G	TCGA-B0-4697-01A-01D-1361-10	25570576	176084585	4830675	13	3458											
CUL9	23113	hgsc.bcm.edu	37	chr6	43174214	43174214	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccacagaattctgtgaTgcccttgaccgtttctccag	7	13	7	14	1	2	3	0	2	2	1	4	3	3	3	4	0	1	1	4	0	1	4	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	43174214	T	G	43174214	3	3	59	1	0	0	0	0	1	0	0	0	4061	1461	51	5	5276	5	CUL9	6	43174214	Missense_Mutation	SNP	T	TCGA-B0-4697-01A-01D-1361-10		43174214	127940853	14	3459											
ELN	2006	hgsc.bcm.edu	37	chr7	73471995	73471995	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccccagcagctgcagcTgctaaagcagccgccaaagc	11	3	12	15	1	0	0	0	0	0	0	0	1	0	1	4	1	8	6	4	1	3	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	73471995	T	C	73471995	2	2	59	1	0	0	0	0	0	0	0	1	5071	1567	55	3		3	ELN	7	73471995	Silent	SNP	T	TCGA-B0-4697-01A-01D-1361-10		73471995	85666668	15	3460											
GRM8	2918	hgsc.bcm.edu	37	chr7	126883113	126883113	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtggacagggaagagacccCccaaaataatgtccccatcc	13	5	9	14	1	0	1	0	0	0	1	2	4	2	3	6	2	0	0	6	2	4	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	126883113	C	A	126883113	3	1	59	1	0	0	0	0	1	0	0	0	6803	623	22	4	2670	4	GRM8	7	126883113	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10	53411118	126883113	32255550	16	3461											
SH2D4A	63898	hgsc.bcm.edu	37	chr8	19252099	19252099	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggggaaggagctccttctCtatccctgtggtcagcagga	7	10	13	11	0	2	0	1	0	1	0	5	3	4	3	2	5	2	2	2	5	2	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	19252099	C	T	19252099	2	4	59	1	0	0	0	0	0	0	0	1	14237	900	32	2		2	SH2D4A	8	19252099	Silent	SNP	C	TCGA-B0-4697-01A-01D-1361-10		19252099	127111923	17	3462											
VCPIP1	80124	hgsc.bcm.edu	37	chr8	67576661	67576661	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaatttctattgtaattcTgtcgccatgctgtaaaggaa	12	15	8	6	1	2	1	0	0	2	1	3	2	2	2	1	1	1	3	1	1	7	7	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	67576661	T	G	67576661	2	3	59	1	0	0	0	0	0	0	0	1	17140	1588	55	5		5	VCPIP1	8	67576661	Silent	SNP	T	TCGA-B0-4697-01A-01D-1361-10	48324562	67576661	78787361	18	3463											
PABPC1	26986	hgsc.bcm.edu	37	chr8	101725374	101725374	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcctttggattttccacTttcatcagtcattactttca	10	18	3	10	0	4	0	4	0	0	0	6	1	6	1	2	1	1	0	2	1	2	6	rs72681440	bycluster	TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	101725374	T	C	101725374	3	2	59	1	0	0	0	0	1	0	0	0	11363	1609	56	3	1271	3	PABPC1	8	101725374	Missense_Mutation	SNP	T	TCGA-B0-4697-01A-01D-1361-10	34148713	101725374	44638648	19	3464											
BTRC	8945	hgsc.bcm.edu;ucsc.edu	37	chr10	103294568	103294568	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcctccccaactgacatTaccctccggagggtgctggt	7	9	11	14	1	0	1	0	1	0	0	2	2	2	2	5	4	3	1	5	4	2	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	103294568	T	G	103294568	3	3	59	1	0	0	0	0	1	0	0	0	1569	1742	61	5	1286	5	BTRC	10	103294568	Missense_Mutation	SNP	T	TCGA-B0-4697-01A-01D-1361-10		103294568	32240179	20	3465											
KRTAP5-1	387264	hgsc.bcm.edu	37	chr11	1606138	1606138	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccacagccacccttggaTcccccacaagagccacagcc	12	3	7	19	0	0	1	0	0	0	1	1	3	1	2	7	1	4	0	7	1	2	1	rs80025267	bycluster;byfrequency;by1000genomes	TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	1606138	T	G	1606138	2	3	59	1	0	0	0	0	0	0	0	1	8558	1422	50	5		5	KRTAP5-1	11	1606138	Silent	SNP	T	TCGA-B0-4697-01A-01D-1361-10		1606138	133400378	21	3466											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6578588	6578588	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggccagggccccagcAcctgggcaaggaccatcagg	8	4	15	14	0	1	0	1	0	0	0	1	1	1	1	5	5	1	2	5	5	1	0	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	6578588	A	C	6578588	3	2	59	1	0	0	0	0	1	0	0	0	4668	159	6	5	8162	5	DNHD1	11	6578588	Missense_Mutation	SNP	A	TCGA-B0-4697-01A-01D-1361-10	4972450	6578588	128427928	22	3467											
PITPNM1	9600	hgsc.bcm.edu	37	chr11	67269466	67269466	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcatcagacagtggcccTcggcccgtcttgaccgagtg	7	8	12	14	3	3	2	2	1	1	1	4	3	3	2	3	2	0	0	3	2	0	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	67269466	T	C	67269466	2	2	59	1	0	0	0	0	0	0	0	1	11950	1538	54	3		3	PITPNM1	11	67269466	Silent	SNP	T	TCGA-B0-4697-01A-01D-1361-10	60690878	67269466	67737050	23	3468											
ACAD8	27034	hgsc.bcm.edu	37	chr11	134131683	134131683	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggctggtggccgcgcggCtgatggtccgcaatgcagca	7	6	16	12	4	0	1	0	1	0	0	1	1	1	1	2	5	2	5	2	5	2	0	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	134131683	C	T	134131683	2	4	59	1	0	0	0	0	0	0	0	1	110	796	28	2		2	ACAD8	11	134131683	Silent	SNP	C	TCGA-B0-4697-01A-01D-1361-10	66862217	134131683	874833	24	3469											
GXYLT1	283464	hgsc.bcm.edu	37	chr12	42491287	42491287	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaaatgctggttgcttaTcgtcatggtaaacacctctg	9	14	8	10	1	3	0	1	0	2	0	4	0	3	0	1	2	3	4	1	2	5	4	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	42491287	T	C	42491287	3	2	59	1	0	0	0	0	1	0	0	0	6903	1435	50	3	212	3	GXYLT1	12	42491287	Missense_Mutation	SNP	T	TCGA-B0-4697-01A-01D-1361-10		42491287	91360608	25	3470											
USP15	9958	hgsc.bcm.edu	37	chr12	62777762	62777762	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatacaattaaaagatgcaGatggaaggccagataaggta	19	8	10	4	0	0	3	0	0	0	3	0	4	0	4	1	3	2	2	1	3	8	5	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	62777762	G	T	62777762	3	4	59	1	0	0	0	0	1	0	0	0	17045	942	33	4	1178	4	USP15	12	62777762	Missense_Mutation	SNP	G	TCGA-B0-4697-01A-01D-1361-10	20286475	62777762	71074133	26	3471											
ZFYVE26	23503	hgsc.bcm.edu	37	chr14	68251809	68251809	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaactttgaaggagaactgCagcaagggtgctgcagtaac	14	7	12	8	0	0	2	0	1	0	1	0	3	0	2	0	2	7	5	0	2	5	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	68251809	C	G	68251809	3	3	59	1	0	0	0	0	1	0	0	0	17667	710	25	4	4225	4	ZFYVE26	14	68251809	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10		68251809	39097731	27	3472											
CCDC33	80125	hgsc.bcm.edu;ucsc.edu	37	chr15	74625025	74625025	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggccgtgtctctaggcttcCctatgctctcagcctctggc	3	13	10	15	1	3	0	1	0	3	0	6	0	4	0	3	3	2	2	3	3	2	3	rs146131430		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	74625025	C	T	74625025	3	4	59	1	0	0	0	0	1	0	0	0	2806	623	22	2	1912	2	CCDC33	15	74625025	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10		74625025	27906367	28	3473											
SIAH1	6477	hgsc.bcm.edu	37	chr16	48396058	48396058	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatatttacaggggaaaagTactgaattagccactttctc	13	12	8	8	0	1	1	0	1	1	0	2	2	1	2	1	2	3	2	1	2	7	6	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	48396058	T	A	48396058	2	1	59	1	0	0	0	0	0	0	0	1	14301	1625	57	5		5	SIAH1	16	48396058	Silent	SNP	T	TCGA-B0-4697-01A-01D-1361-10		48396058	41958695	29	3474											
TOM1L2	146691	hgsc.bcm.edu	37	chr17	17772713	17772713	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatgcagcagctcctcggtGacctcctcattggacacgcg	8	8	10	15	3	1	1	1	1	0	0	4	2	3	2	3	2	3	3	3	2	0	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	17772713	G	A	17772713	2	1	59	1	0	0	0	0	0	0	0	1	16352	1277	45	2		2	TOM1L2	17	17772713	Silent	SNP	G	TCGA-B0-4697-01A-01D-1361-10		17772713	63422497	30	3475											
DHX40	79665	hgsc.bcm.edu	37	chr17	57676168	57676168	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaaagctggaggatttaaTgactttgcaactttagctgt	11	14	10	6	0	0	1	0	1	0	0	0	3	0	3	0	2	4	4	0	2	5	6	rs139117700	byfrequency	TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	57676168	T	C	57676168	2	2	59	1	0	0	0	0	0	0	0	1	4512	1461	51	3		3	DHX40	17	57676168	Silent	SNP	T	TCGA-B0-4697-01A-01D-1361-10	39903455	57676168	23519042	31	3476											
CHMP1B	57132	hgsc.bcm.edu	37	chr18	11851896	11851896	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagactctggacgtccagaCgcagcaaatggaagacacga	14	5	12	10	3	1	3	0	1	1	3	2	7	2	5	1	2	1	2	1	2	2	0	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	11851896	C	T	11851896	3	4	59	1	0	0	0	0	1	0	0	0	3353	536	19	1	388	1	CHMP1B	18	11851896	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10		11851896	66225352	32	3477											
MOCOS	55034	hgsc.bcm.edu	37	chr18	33848526	33848526	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtacctgatgcatgcaTcattggatttatcctcccca	9	13	7	12	0	1	1	1	1	0	0	3	2	3	2	4	1	3	4	4	1	2	4	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		C	33848526	T	C	33848526	3	2	59	1	0	0	0	0	1	0	0	0	9689	1435	50	3	2603	3	MOCOS	18	33848526	Missense_Mutation	SNP	T	TCGA-B0-4697-01A-01D-1361-10	21996630	33848526	44228722	33	3478											
STK11	6794	hgsc.bcm.edu	37	chr19	1220429	1220429	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagccagggcattgtgcaCaaggacatcaagccggggaa	13	5	13	10	1	1	0	1	0	0	0	1	2	1	2	2	4	3	2	2	4	4	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	1220429	C	T	1220429	2	4	59	1	0	0	0	0	0	0	0	1	15288	477	17	2		2	STK11	19	1220429	Silent	SNP	C	TCGA-B0-4697-01A-01D-1361-10		1220429	57908554	34	3479											
ANKRD24	170961	hgsc.bcm.edu	37	chr19	4200138	4200138	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtgatgatagctcatGgcagcaatgtcatgagcgcg	10	9	15	7	2	2	3	2	3	0	0	2	4	2	4	0	3	3	3	0	3	2	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	4200138	G	A	4200138	3	1	59	1	0	0	0	0	1	0	0	0	653	1348	47	2	327	2	ANKRD24	19	4200138	Missense_Mutation	SNP	G	TCGA-B0-4697-01A-01D-1361-10	2979709	4200138	54928845	35	3480											
KLK10	5655	hgsc.bcm.edu	37	chr19	51519365	51519365	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtccggcggagctgctctCcctgaagaagcagcaggtgg	7	7	16	11	2	1	2	0	1	1	1	3	3	2	3	2	5	4	4	2	5	2	0	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	51519365	C	A	51519365	3	1	59	1	0	0	0	0	1	0	0	0	8398	855	30	4	525	4	KLK10	19	51519365	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10	47319227	51519365	7609618	36	3481											
ZNF578	147660	hgsc.bcm.edu	37	chr19	53014787	53014787	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgtttggtcaaaattcaAcccttgtaattcataaggca	14	13	7	7	0	3	1	3	0	0	1	3	1	3	1	1	2	1	3	1	2	5	6	rs35356792	bycluster;byfrequency;by1000genomes	TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	53014787	A	G	53014787	3	3	59	1	0	0	0	0	1	0	0	0	18009	43	2	3	1163	3	ZNF578	19	53014787	Missense_Mutation	SNP	A	TCGA-B0-4697-01A-01D-1361-10	1495422	53014787	6114196	37	3482											
DDX27	55661	hgsc.bcm.edu;ucsc.edu	37	chr20	47835943	47835943	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgaaaagttaagggccggAccgcaggctgtgctcgcttc	8	8	14	11	4	0	0	0	0	0	0	2	2	0	1	2	3	2	5	2	3	3	2	rs139847823	alternate_allele	TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		G	47835943	A	G	47835943	2	3	59	1	0	0	0	0	0	0	0	1	4354	262	10	3		3	DDX27	20	47835943	Silent	SNP	A	TCGA-B0-4697-01A-01D-1361-10		47835943	15189577	38	3483											
TFF2	7032	hgsc.bcm.edu	37	chr21	43771056	43771056	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaggagctgggcgtctCgccgtcccatgtctagctca	5	9	12	15	3	3	0	1	0	2	0	5	1	4	1	3	2	3	2	3	2	1	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	43771056	C	A	43771056	3	1	59	1	0	0	0	0	1	0	0	0	15803	884	31	4	394	4	TFF2	21	43771056	Missense_Mutation	SNP	C	TCGA-B0-4697-01A-01D-1361-10		43771056	4358839	39	3484											
TAB1	10454	hgsc.bcm.edu	37	chr22	39826038	39826038	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccaaagcccgaccttaacCctgcagtccaccaacacgca	13	4	6	18	2	0	0	0	0	0	0	1	1	1	0	6	0	5	2	6	0	3	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	39826038	C	A	39826038	2	1	59	1	0	0	0	0	0	0	0	1	15494	610	22	4		4	TAB1	22	39826038	Silent	SNP	C	TCGA-B0-4697-01A-01D-1361-10		39826038	11478528	40	3485											
ARAF	369	hgsc.bcm.edu	37	chrX	47428171	47428171	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcatgacccggccgggAtttgccatcatcacacagtg	8	9	11	13	2	3	1	3	1	0	0	3	2	3	2	3	3	1	1	3	3	0	2	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		T	47428171	A	T	47428171	2	4	59	1	0	0	0	0	0	0	0	1	837	320	12	5		5	ARAF	23	47428171	Silent	SNP	A	TCGA-B0-4697-01A-01D-1361-10		47428171	107842389	41	3486											
CFP	5199	hgsc.bcm.edu	37	chrX	47489070	47489070	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaagcagagcacggggtctGagcctgtaacagggccaggg	10	5	17	9	1	1	3	0	2	1	1	1	3	1	3	2	4	4	3	2	4	2	1	novel		TCGA-B0-4697-01A-01D-1361-10	TCGA-B0-4697-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ea00776-e949-4f43-a9d7-5c722cc5afaf	c6fb9835-49b2-4762-b302-f8f7e050f43c		A	47489070	G	A	47489070	3	1	59	1	0	0	0	0	1	0	0	0	3293	1294	45	2	1361	2	CFP	23	47489070	Missense_Mutation	SNP	G	TCGA-B0-4697-01A-01D-1361-10	60899	47489070	107781490	42	3487											
AHDC1	27245	broad.mit.edu	37	chr1	27874970	27874970	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgaaagaggacactctggttCcagttgtagccgggggcaga	10	8	15	8	1	1	3	0	1	1	2	2	4	2	4	2	4	1	4	2	4	2	3	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	27874970	T	T	27874970	4	4	60	1	0	0	0	0	0	1	0	0	412	856	30	2	1158	2	AHDC1	1	27874970	Nonsense_Mutation	SNP	C	TCGA-B0-4700-01A-02D-1534-10		27874970	221375651	1	3488											
GPR148	344561	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	131486857	131486857	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcctgggggacctcagggtgCccagctccatgctgtactgg	5	8	15	13	0	1	0	1	0	0	0	2	1	2	1	4	4	4	3	4	4	1	1	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	131486857	C	T	131486857	3	4	60	1	0	0	0	0	1	0	0	0	6653	739	26	2	135	2	GPR148	2	131486857	Missense_Mutation	SNP	C	TCGA-B0-4700-01A-02D-1534-10		131486857	111712516	2	3489											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188197	10188197	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctttgcttgtcccgataGgtcacctttggctcttcaga	7	14	8	12	1	3	1	2	0	1	1	4	2	4	1	3	2	2	2	3	2	2	5	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	10188197	G	T	10188197	5	4	60	1	0	0	0	0	0	0	1	0	17161	1014	35	4	346	4	VHL	3	10188197	Splice_Site	SNP	G	TCGA-B0-4700-01A-02D-1534-10		10188197	187834233	3	3490											
STAG1	10274	broad.mit.edu;ucsc.edu	37	chr3	136062774	136062774	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtacagtggatgtgagttGtggtgctggcagggggccag	7	9	19	6	0	0	1	0	1	0	0	0	2	0	2	1	5	2	4	1	5	1	2	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	136062774	A	A	136062774	4	1	60	1	0	0	0	0	0	1	0	0	15243	1386	48	2	450	2	STAG1	3	136062774	Nonsense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10	125874577	136062774	61959656	4	3491											
MYO10	4651	broad.mit.edu	37	chr5	16675008	16675008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaatccctcgactcggcaGgaaggtgcagctcaggcatg	10	6	14	11	2	1	1	1	0	0	1	4	4	2	2	1	4	2	4	1	4	2	0	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	16675008	T	T	16675008	3	4	60	1	0	0	0	0	1	0	0	0	10062	991	35	4	1286	4	MYO10	5	16675008	Missense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10		16675008	164240252	5	3492											
FAM153A	285596	broad.mit.edu;hgsc.bcm.edu	37	chr5	177166139	177166139	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgggtgcctgcgtctgcCtgcgtttagagaaagaaaaa	10	11	13	7	2	1	2	0	0	1	2	1	3	1	2	2	1	4	2	2	1	4	3	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	177166139	C	A	177166139	5	1	60	1	0	0	0	0	0	0	1	0	5460	695	24	4	674	4	FAM153A	5	177166139	Splice_Site	SNP	C	TCGA-B0-4700-01A-02D-1534-10	160491131	177166139	3749121	6	3493											
TAAR5	9038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132910004	132910004	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagtgaaggaggctgtcGaccatcgtgtctatggtgaa	12	10	13	6	2	1	2	0	2	1	0	3	4	1	3	1	3	0	1	1	3	5	2	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	132910004	G	T	132910004	2	4	60	1	0	0	0	0	0	0	0	1	15490	1045	37	4		4	TAAR5	6	132910004	Silent	SNP	G	TCGA-B0-4700-01A-02D-1534-10		132910004	38205063	7	3494											
OR2F2	135948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	143633180	143633180	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccattgttatgcctctgctGaaccctgtgatttatagtct	7	16	8	10	0	2	2	0	2	2	0	2	2	2	2	3	0	3	2	3	0	4	5	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	143633180	G	A	143633180	2	1	60	1	0	0	0	0	0	0	0	1	10997	1277	45	2		2	OR2F2	7	143633180	Silent	SNP	G	TCGA-B0-4700-01A-02D-1534-10		143633180	15505483	8	3495											
OR13C8	138802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	107332250	107332250	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctgagtctaaagcctctGttgattcaggtaatgaagac	12	11	10	8	0	3	4	1	3	2	1	3	4	3	4	2	1	2	2	2	1	4	4	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	107332250	G	T	107332250	3	4	60	1	0	0	0	0	1	0	0	0	10938	1377	48	4	804	4	OR13C8	9	107332250	Missense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10		107332250	33881181	9	3496											
OR51L1	119682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5020987	5020987	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttctttgtgccagttattGgggtgtcaatggtccatcgc	5	16	11	9	1	3	0	1	0	2	0	5	0	4	0	2	3	1	1	2	3	2	4	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	5020987	G	A	5020987	3	1	60	1	0	0	0	0	1	0	0	0	11102	1348	47	2	777	2	OR51L1	11	5020987	Missense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10		5020987	129985529	10	3497											
OR52E8	390079	broad.mit.edu;hgsc.bcm.edu	37	chr11	5878479	5878479	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctcaggacagcaatgcCtgcaatgaggctgatgattt	10	10	11	10	0	1	3	1	3	0	0	2	4	2	4	2	2	3	4	2	2	2	1	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	5878479	C	T	5878479	3	4	60	1	0	0	0	0	1	0	0	0	11118	681	24	2	501	2	OR52E8	11	5878479	Missense_Mutation	SNP	C	TCGA-B0-4700-01A-02D-1534-10	857492	5878479	129128037	11	3498											
WNT5B	81029	broad.mit.edu	37	chr12	1755046	1755046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctggctgcagctggcCgagttccgcaaggtcgggga	6	7	16	12	3	0	0	0	0	0	0	2	2	1	1	3	5	3	6	3	5	1	1	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	1755046	T	T	1755046	2	4	60	1	0	0	0	0	0	0	0	1	17391	639	23	1		1	WNT5B	12	1755046	Silent	SNP	C	TCGA-B0-4700-01A-02D-1534-10		1755046	132096849	12	3499											
BICD1	636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32490734	32490734	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaacattcgggtcagcagtGgcactcagaggaaaaggtat	13	7	12	9	1	2	1	2	0	0	1	3	2	2	2	1	4	2	3	1	4	4	2	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	32490734	G	A	32490734	3	1	60	1	0	0	0	0	1	0	0	0	1428	1348	47	2	2580	2	BICD1	12	32490734	Missense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10	30735688	32490734	101361161	13	3500											
AMN	81693	broad.mit.edu	37	chr14	103396005	103396005	+	Frame_Shift_Del	DEL	G	-	-																															gccgcaggagccgttgtgttGctgacccacggccccgcatt																								novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		-	103396005	-	-	103396005	7	5	60	1	0	1	0	1	0	0	0	0	580	1310	46	0	804	0	AMN	14	103396005	Frame_Shift_Del	DEL	G	TCGA-B0-4700-01A-02D-1534-10		103396005	3953535	14	3501											
IL4R	3566	broad.mit.edu;hgsc.bcm.edu	37	chr16	27367167	27367167	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcacctcctgctgggcGtcagcgtttcctgcattgtc	5	11	11	14	2	1	0	1	0	0	0	4	0	3	0	3	1	5	5	3	1	0	2	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	27367167	G	A	27367167	3	1	60	1	0	0	0	0	1	0	0	0	7698	1145	40	1	749	1	IL4R	16	27367167	Missense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10		27367167	62987586	15	3502											
SULT1A2	6799	broad.mit.edu;hgsc.bcm.edu	37	chr16	28607132	28607132	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtaggtgctgatgagcagGtcatcaggccgggcctggaa	8	7	18	8	1	2	2	2	2	0	0	2	3	2	3	2	6	2	3	2	6	2	1	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	28607132	G	A	28607132	2	1	60	1	0	0	0	0	0	0	0	1	15374	1252	44	2		2	SULT1A2	16	28607132	Silent	SNP	G	TCGA-B0-4700-01A-02D-1534-10	1239965	28607132	61747621	16	3503											
DAZAP1	26528	hgsc.bcm.edu	37	chr19	1432568	1432569	+	Frame_Shift_Ins	INS	-	-	C																															agtttgcccctccgggggttINScctcctccaccagccactcc																								novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		C	1432569	-	C	1432568	7	5	60	1	0	1	1	0	0	0	0	0	4244	1770	62	0	969	0	DAZAP1	19	1432568	Frame_Shift_Ins	INS	-	TCGA-B0-4700-01A-02D-1534-10		1432568	57696415	17	3504											
ETHE1	23474	hgsc.bcm.edu	37	chr19	44030464	44030465	+	Frame_Shift_Ins	INS	-	-	G																															ggagggaacggagcagccccINSgagcctgtaatgtggtccgc																								novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		G	44030465	-	G	44030464	7	5	60	1	0	1	1	0	0	0	0	0	5272	639	23	0	520	0	ETHE1	19	44030464	Frame_Shift_Ins	INS	-	TCGA-B0-4700-01A-02D-1534-10	42597896	44030464	15098519	18	3505											
TRPC4AP	26133	broad.mit.edu;ucsc.edu	37	chr20	33596526	33596526	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcagacgagttaataagccCctcttcccatcacacaccaa	14	7	5	15	1	2	1	1	0	1	1	3	2	3	1	4	0	2	2	4	0	3	3	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		G	33596526	G	G	33596526	3	3	60	1	0	0	0	0	1	0	0	0	16580	622	22	4	885	4	TRPC4AP	20	33596526	Missense_Mutation	SNP	C	TCGA-B0-4700-01A-02D-1534-10		33596526	29428994	19	3506											
MOCS3	27304	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	49576093	49576093	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcggagacagtgaccaaCtgcgcggacggcggggtgct	8	4	17	12	5	0	2	0	1	0	1	0	4	0	3	2	5	4	1	2	5	1	0	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	49576093	C	T	49576093	2	4	60	1	0	0	0	0	0	0	0	1	9692	564	20	2		2	MOCS3	20	49576093	Silent	SNP	C	TCGA-B0-4700-01A-02D-1534-10	15979567	49576093	13449427	20	3507											
RAB22A	57403	broad.mit.edu	37	chr20	56886167	56886167	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agttttgatccaaacatcaaCccaacaatagggtaagagac	17	8	7	9	0	1	2	1	1	0	1	2	3	2	2	2	1	3	2	2	1	6	4	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		A	56886167	A	A	56886167	3	1	60	1	0	0	0	0	1	0	0	0	12911	506	18	4	111	4	RAB22A	20	56886167	Missense_Mutation	SNP	C	TCGA-B0-4700-01A-02D-1534-10	7310074	56886167	6139353	21	3508											
CACNA1F	778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	49072841	49072841	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagggccctgtccctcaCgcaggccagccttcaaaggt	8	6	10	17	1	2	0	2	0	0	0	3	0	3	0	5	3	1	1	5	3	1	1	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	49072841	C	T	49072841	5	4	60	1	0	0	0	0	0	0	1	0	2543	550	19	1	2751	1	CACNA1F	23	49072841	Splice_Site	SNP	C	TCGA-B0-4700-01A-02D-1534-10		49072841	106197719	22	3509											
TAF7L	54457	hgsc.bcm.edu	37	chrX	100531461	100531461	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcatcctcatcctcAtcatcatcattgttacttct	8	18	1	14	0	9	0	7	0	2	0	11	0	11	0	2	0	1	1	2	0	1	4	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		C	100531461	A	C	100531461	3	2	60	1	0	0	0	0	1	0	0	0	15532	214	8	5	399	5	TAF7L	23	100531461	Missense_Mutation	SNP	A	TCGA-B0-4700-01A-02D-1534-10	51458620	100531461	54739099	23	3510											
STAG2	10735	broad.mit.edu	37	chrX	123191777	123191777	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aaagaagaggaagacaaggtCcaaatgccaaccttgttaag	18	6	10	7	0	0	3	0	0	0	3	1	4	1	4	3	2	2	1	3	2	7	2	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		G	123191777	G	G	123191777	3	3	60	1	0	0	0	0	1	0	0	0	15244	855	30	4	1416	4	STAG2	23	123191777	Missense_Mutation	SNP	C	TCGA-B0-4700-01A-02D-1534-10	22660316	123191777	32078783	24	3511											
FMR1	2332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	147014114	147014114	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatttcatatttatggagaGgtaaatattttactgcatag	14	16	7	4	0	1	1	1	0	0	1	1	2	1	1	0	2	2	2	0	2	7	9	novel		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		T	147014114	G	T	147014114	3	4	60	1	0	0	0	0	1	0	0	0	5960	1014	35	4	831	4	FMR1	23	147014114	Missense_Mutation	SNP	G	TCGA-B0-4700-01A-02D-1534-10	23822337	147014114	8256446	25	3512											
MECP2	4204	broad.mit.edu;ucsc.edu	37	chrX	153296886	153296886	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactccactttagagcgaaaGgcttttccctggggactgtg	9	11	11	10	1	0	1	0	0	0	1	2	3	2	2	2	3	2	1	2	3	3	4	rs61748385		TCGA-B0-4700-01A-02D-1534-10	TCGA-B0-4700-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32cb433f-359c-44c3-b2df-d2a64df90175	19aa82fd-3e4f-4313-bd96-53da79284a94		C	153296886	C	C	153296886	2	2	60	1	0	0	0	0	0	0	0	1	9423	987	35	4		4	MECP2	23	153296886	Silent	SNP	G	TCGA-B0-4700-01A-02D-1534-10	6282772	153296886	1973674	26	3513											
KCNAB2	8514	hgsc.bcm.edu	37	chr1	6101899	6101899	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgtccgaagtactcggtAtgggagtcccaaaagacagc	11	8	12	10	2	0	1	0	0	0	1	3	3	2	2	2	2	3	3	2	2	5	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	6101899	A	C	6101899	3	2	61	1	0	0	0	0	1	0	0	0	8010	449	16	5	92	5	KCNAB2	1	6101899	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10		6101899	243148722	1	3514											
GJA4	2701	hgsc.bcm.edu	37	chr1	35259857	35259857	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttgctggaccaggtcCaggagcactcgaccgtggtg	9	7	15	10	2	0	1	0	0	0	1	2	4	1	3	3	4	2	3	3	4	1	1	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	35259857	C	T	35259857	4	4	61	1	0	0	0	0	0	1	0	0	6403	595	21	2	45	2	GJA4	1	35259857	Nonsense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10	29157958	35259857	213990764	2	3515											
MCOLN3	55283	hgsc.bcm.edu	37	chr1	85494842	85494842	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatggaaatgtcattatctAaacttattttaattcttcca	13	18	4	6	0	3	1	1	1	2	0	4	2	4	2	1	1	1	0	1	1	6	7	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	85494842	A	T	85494842	4	4	61	1	0	0	0	0	0	1	0	0	9397	372	13	5	910	5	MCOLN3	1	85494842	Nonsense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10	50234985	85494842	163755779	3	3516											
GSTM1	2944	hgsc.bcm.edu	37	chr1	110233138	110233138	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgtatatttgagcccaaGtgcttggacgccttcccaaa	10	10	8	13	2	0	1	0	1	0	0	1	2	1	2	4	1	2	2	4	1	4	5	rs74837985	by1000genomes	TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	110233138	G	C	110233138	3	2	61	1	0	0	0	0	1	0	0	0	6837	1020	36	4	545	4	GSTM1	1	110233138	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10	24738296	110233138	139017483	4	3517											
NTRK1	4914	hgsc.bcm.edu	37	chr1	156843698	156843698	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcctccgcctccatcaTggctgccttcatggacaacc	7	8	8	18	1	2	0	2	0	0	0	4	1	4	1	7	3	2	1	7	3	1	1	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	156843698	T	C	156843698	3	2	61	1	0	0	0	0	1	0	0	0	10706	1464	51	3	1284	3	NTRK1	1	156843698	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	46610560	156843698	92406923	5	3518											
PPFIA4	8497	hgsc.bcm.edu	37	chr1	203033069	203033069	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctggtggacgcccgcatGctggaccacctcaccaagaa	9	6	11	15	2	1	1	1	0	0	1	1	3	1	3	5	3	2	2	5	3	2	0	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	203033069	G	T	203033069	3	4	61	1	0	0	0	0	1	0	0	0	12312	1319	46	4	1516	4	PPFIA4	1	203033069	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10	46189371	203033069	46217552	6	3519											
PSEN2	5664	hgsc.bcm.edu	37	chr1	227076706	227076706	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttcatcaagtacctccCagagtggtccgcgtgggtca	8	10	12	11	2	3	1	3	0	0	1	5	1	5	1	3	2	1	2	3	2	2	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	227076706	C	A	227076706	3	1	61	1	0	0	0	0	1	0	0	0	12653	594	21	4	761	4	PSEN2	1	227076706	Missense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10	24043637	227076706	22173915	7	3520											
ALK	238	hgsc.bcm.edu	37	chr2	29443697	29443697	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaatgttctggtggttgaAtttgctgcagagcagagagg	11	11	14	5	0	1	3	0	1	1	2	1	4	1	3	0	3	4	5	0	3	3	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		G	29443697	A	G	29443697	3	3	61	1	0	0	0	0	1	0	0	0	525	101	4	3	1370	3	ALK	2	29443697	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10		29443697	213755676	8	3521											
ANKRD53	79998	hgsc.bcm.edu	37	chr2	71212405	71212405	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaaggactccccacccTgccctccccacaaaccaacc	11	5	3	22	0	2	0	2	0	0	0	4	1	4	1	8	1	3	0	8	1	3	0	rs61732279	bycluster;byfrequency;by1000genomes	TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	71212405	T	C	71212405	3	2	61	1	0	0	0	0	1	0	0	0	679	1580	55	3	1721	3	ANKRD53	2	71212405	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	41768708	71212405	171986968	9	3522											
CHRNA1	1134	hgsc.bcm.edu;ucsc.edu	37	chr2	175614777	175614777	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgacgaacaccatggtgAacagcatgtattttccaatc	14	10	7	10	1	0	2	0	2	0	0	2	3	1	2	2	1	3	2	2	1	5	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	175614777	A	C	175614777	3	2	61	1	0	0	0	0	1	0	0	0	3381	246	9	5	486	5	CHRNA1	2	175614777	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10	104402372	175614777	67584596	10	3523											
NBEAL1	65065	hgsc.bcm.edu	37	chr2	203976709	203976709	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcactttaccagcacaacaTaactgttgtccacatgcctg	11	12	5	13	0	1	0	1	0	0	0	2	0	2	0	3	0	5	2	3	0	3	5	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	203976709	T	C	203976709	3	2	61	1	0	0	0	0	1	0	0	0	10188	1406	49	3	2057	3	NBEAL1	2	203976709	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	28361932	203976709	39222664	11	3524											
C2orf67	0	hgsc.bcm.edu	37	chr2	211018604	211018604	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttcttctagcctggctaaGtaaaattttctgtttgctta	9	18	7	7	0	3	0	0	0	3	0	3	0	3	0	1	1	2	5	1	1	5	9	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	211018604	G	A	211018604	3	1	61	1	0	0	0	0	1	0	0	0	2186	1029	36	2	2316	2	C2orf67	2	211018604	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10	7041895	211018604	32180769	12	3525											
SETD2	29072	ucsc.edu	37	chr3	47125222	47125222	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccttacctttaggtctttCcaactgtccaggagtttggt	6	17	8	10	0	1	0	0	0	1	0	4	1	4	1	4	3	2	1	4	3	3	6	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	47125222	C	A	47125222	3	1	61	1	0	0	0	0	1	0	0	0	14133	856	30	4	1686	4	SETD2	3	47125222	Missense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10		47125222	150897208	13	3526											
DNAH1	25981	hgsc.bcm.edu	37	chr3	52418904	52418904	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacccccaagagctacttgGagctgcttcatattttctcc	8	13	7	13	0	2	2	1	1	1	1	3	3	2	3	3	1	4	3	3	1	3	6	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	52418904	G	T	52418904	4	4	61	1	0	0	0	0	0	1	0	0	4597	1175	41	4	8631	4	DNAH1	3	52418904	Nonsense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10	5293682	52418904	145603526	14	3527											
BAP1	8314	ucsc.edu	37	chr3	52443728	52443728	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagggagaaaaggctcttAccgaaatcttccacgagcag	13	6	12	10	2	2	1	0	0	2	1	3	4	3	1	2	3	2	3	2	3	4	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	A	C	A	A	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	52443728	A	C	52443728	5	2	61	1	0	0	0	0	0	0	1	0	1311	405	14	5	2184	5	BAP1	3	52443728	Splice_Site	SNP	A	TCGA-B0-4703-01A-01D-1361-10	24824	52443728	145578702	15	3528											
SGEF	0	hgsc.bcm.edu;ucsc.edu	37	chr3	153912433	153912433	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttttatttcattacagActatctgtcaaaaaacacct	14	15	2	10	0	4	1	3	0	1	1	4	1	4	1	1	0	2	0	1	0	6	5	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	153912433	A	C	153912433	3	2	61	1	0	0	0	0	1	0	0	0	14207	289	10	5	1801	5	SGEF	3	153912433	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10	101468705	153912433	44109997	16	3529											
RSPH10B	222967	hgsc.bcm.edu	37	chr7	6000354	6000354	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccattgcaccagtggcCgatgtaggacacaggctggg	8	8	14	11	1	0	0	0	0	0	0	0	2	0	1	3	4	2	3	3	4	1	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	6000354	C	T	6000354	3	4	61	1	0	0	0	0	1	0	0	0	13705	652	23	1	2135	1	RSPH10B	7	6000354	Missense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10		6000354	153138309	17	3530											
RSPH10B2	728194	hgsc.bcm.edu	37	chr7	6816032	6816032	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attacagaattaagaagaatTtacagcttttacagcagcct	16	12	6	7	0	0	3	0	0	0	3	0	3	0	3	1	0	6	2	1	0	7	6	rs17853307		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	6816032	T	C	6816032	2	2	61	1	0	0	0	0	0	0	0	1	13706	1829	64	3		3	RSPH10B2	7	6816032	Silent	SNP	T	TCGA-B0-4703-01A-01D-1361-10	815678	6816032	152322631	18	3531											
DBNL	28988	hgsc.bcm.edu	37	chr7	44098492	44098493	+	Frame_Shift_Ins	INS	-	-	CC																															gcaggggtcaacatgtgcttINSccctccaggagtctgccgtg																								novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		CC	44098493	-	CC	44098492	7	5	61	1	0	1	1	0	0	0	0	0	4255	1783	62	0	806	0	DBNL	7	44098492	Frame_Shift_Ins	INS	-	TCGA-B0-4703-01A-01D-1361-10	37282460	44098492	115040171	19	3532											
ZPBP	11055	hgsc.bcm.edu	37	chr7	50057912	50057912	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagtgtctagagatgaaActgagaaaatatattatatt	16	15	7	3	0	2	3	1	2	1	2	2	5	2	3	0	0	1	0	0	0	8	7	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		G	50057912	A	G	50057912	3	3	61	1	0	0	0	0	1	0	0	0	18218	57	2	3	360	3	ZPBP	7	50057912	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10	5959420	50057912	109080751	20	3533											
ZNF273	10793	hgsc.bcm.edu;ucsc.edu	37	chr7	64388663	64388663	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggaacaaaaccctacaaTtgtgaagaatgtggcaaagg	18	6	10	7	0	0	2	0	1	0	1	0	3	0	3	1	3	3	1	1	3	8	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	64388663	T	A	64388663	3	1	61	1	0	0	0	0	1	0	0	0	17807	1490	52	5	971	5	ZNF273	7	64388663	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	14330751	64388663	94750000	21	3534											
UBR5	51366	hgsc.bcm.edu	37	chr8	103266717	103266717	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcactggctggcagtGatgggcttgatgtccaaaag	8	12	12	9	0	2	2	1	2	1	0	3	2	3	2	1	3	0	3	1	3	2	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	103266717	G	T	103266717	4	4	61	1	0	0	0	0	0	1	0	0	16904	1294	45	4	190	4	UBR5	8	103266717	Nonsense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10		103266717	43097305	22	3535											
TATDN1	83940	hgsc.bcm.edu	37	chr8	125516567	125516567	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcagctgctgcttcctTggtaccatcaaatgaatgca	12	10	8	11	0	1	1	1	1	0	0	2	1	2	1	2	1	6	6	2	1	4	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		G	125516567	T	G	125516567	3	3	61	1	0	0	0	0	1	0	0	0	15590	1821	63	5	371	5	TATDN1	8	125516567	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	22249850	125516567	20847455	23	3536											
FAM120A	23196	hgsc.bcm.edu	37	chr9	96320124	96320124	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggctgatcaggctgccAaggtagagaagatgcgccag	11	6	14	10	1	1	3	1	1	0	2	2	4	2	3	3	3	2	3	3	3	3	1	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		G	96320124	A	G	96320124	3	3	61	1	0	0	0	0	1	0	0	0	5415	131	5	3	2554	3	FAM120A	9	96320124	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10		96320124	44893307	24	3537											
OLFML2A	169611	hgsc.bcm.edu;ucsc.edu	37	chr9	127566584	127566584	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccaccagtctcctgccCaccgagccaccttcaggtcc	7	6	6	22	1	2	0	1	0	1	0	4	1	3	0	9	1	2	0	9	1	0	1	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	127566584	C	T	127566584	2	4	61	1	0	0	0	0	0	0	0	1	10857	581	21	2		2	OLFML2A	9	127566584	Silent	SNP	C	TCGA-B0-4703-01A-01D-1361-10	31246460	127566584	13646847	25	3538											
PCSK7	9159	hgsc.bcm.edu	37	chr11	117076875	117076875	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctctgtttccacttcGtctggatccttgctgctgca	3	16	8	14	1	2	0	0	0	2	0	6	1	4	1	2	1	4	5	2	1	0	3	rs62001039	byfrequency	TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	117076875	G	A	117076875	2	1	61	1	0	0	0	0	0	0	0	1	11605	1136	40	1		1	PCSK7	11	117076875	Silent	SNP	G	TCGA-B0-4703-01A-01D-1361-10		117076875	17929641	26	3539											
PTPRR	5801	hgsc.bcm.edu	37	chr12	71314149	71314149	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggagcaggcacagcgcagGgaagcagactgctctccgca	12	3	14	12	2	1	1	0	0	1	1	2	3	1	3	1	3	4	6	1	3	2	0	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	71314149	G	C	71314149	3	2	61	1	0	0	0	0	1	0	0	0	12812	1232	43	4	2007	4	PTPRR	12	71314149	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10		71314149	62537746	27	3540											
IKBIP	121457	hgsc.bcm.edu	37	chr12	99007637	99007637	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcaccttctaagcttagaAatctatctgtatgtttgtcg	9	17	7	8	1	4	1	1	0	3	1	5	1	4	1	1	0	1	3	1	0	5	6	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	99007637	A	T	99007637	3	4	61	1	0	0	0	0	1	0	0	0	7609	14	1	5	277	5	IKBIP	12	99007637	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10	27693488	99007637	34844258	28	3541											
NCOR2	9612	hgsc.bcm.edu	37	chr12	124817812	124817812	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccaagaccgacgtcttgtTtggctctggagacctggatg	8	10	12	11	2	2	2	0	0	2	2	2	5	2	3	3	3	0	2	3	3	1	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	124817812	T	C	124817812	3	2	61	1	0	0	0	0	1	0	0	0	10236	1841	64	3	949	3	NCOR2	12	124817812	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	25810175	124817812	9034083	29	3542											
SLITRK5	26050	hgsc.bcm.edu;ucsc.edu	37	chr13	88329682	88329682	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatcatgtccgtcttcgTggccgccgggctcttcgtgc	2	14	11	14	5	4	0	2	0	2	0	7	0	5	0	3	2	1	1	3	2	0	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	88329682	T	C	88329682	3	2	61	1	0	0	0	0	1	0	0	0	14748	1696	59	3	2041	3	SLITRK5	13	88329682	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10		88329682	26840196	30	3543											
SNAPC1	6617	hgsc.bcm.edu;ucsc.edu	37	chr14	62249031	62249031	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgattctgcatctggtCaagggcaagtcaaagcaact	12	10	9	10	0	5	1	2	1	3	0	5	1	5	1	0	2	3	3	0	2	4	1	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	62249031	C	A	62249031	3	1	61	1	0	0	0	0	1	0	0	0	14836	827	29	4	922	4	SNAPC1	14	62249031	Missense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10		62249031	45100509	31	3544											
UBR7	55148	hgsc.bcm.edu;ucsc.edu	37	chr14	93678384	93678384	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atattatatttcaggacaaaGcaaaggtaaattctggcaat	17	12	7	5	0	2	0	1	0	1	0	2	1	2	1	0	3	1	3	0	3	8	6	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	93678384	G	A	93678384	3	1	61	1	0	0	0	0	1	0	0	0	16905	971	34	2	366	2	UBR7	14	93678384	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10	31429353	93678384	13671156	32	3545											
KIAA1370	0	hgsc.bcm.edu;ucsc.edu	37	chr15	52897437	52897437	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacatttgaatgtttcagtgTagtcctctgttaggaaaata	12	15	8	6	0	2	1	1	1	1	0	3	2	3	2	1	1	0	3	1	1	6	5	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	52897437	T	C	52897437	3	2	61	1	0	0	0	0	1	0	0	0	8226	1638	57	3	905	3	KIAA1370	15	52897437	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10		52897437	49633955	33	3546											
FSD2	123722	hgsc.bcm.edu	37	chr15	83438529	83438529	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacactgcacgctcgctagAggggctggggccagccctgt	6	7	15	13	2	0	1	0	0	0	1	1	1	0	1	2	4	3	5	2	4	2	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	83438529	A	C	83438529	3	2	61	1	0	0	0	0	1	0	0	0	6071	304	11	5	898	5	FSD2	15	83438529	Missense_Mutation	SNP	A	TCGA-B0-4703-01A-01D-1361-10	30541092	83438529	19092863	34	3547											
ACSM2B	348158	hgsc.bcm.edu	37	chr16	20576048	20576048	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagttaaacttggccggCacttcctggtggccccactg	8	9	11	13	1	0	0	0	0	0	0	1	0	1	0	4	4	1	3	4	4	3	3	rs78729855	bycluster	TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	20576048	C	A	20576048	2	1	61	1	0	0	0	0	0	0	0	1	184	697	25	4		4	ACSM2B	16	20576048	Silent	SNP	C	TCGA-B0-4703-01A-01D-1361-10		20576048	69778705	35	3548											
ACSM1	116285	hgsc.bcm.edu;ucsc.edu	37	chr16	20696630	20696630	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgaagacgttggctacacgGcgggttaggtctcccatctc	7	10	13	11	3	2	2	0	1	2	1	4	2	2	2	1	4	1	3	1	4	3	3	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	20696630	G	A	20696630	2	1	61	1	0	0	0	0	0	0	0	1	182	1190	42	2		2	ACSM1	16	20696630	Silent	SNP	G	TCGA-B0-4703-01A-01D-1361-10	120582	20696630	69658123	36	3549											
TP53	7157	ucsc.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	6	9	15	11	2	1	2	1	2	0	0	2	3	2	3	4	4	2	2	4	4	0	1	rs11540652	bycluster	TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	7577538	C	T	7577538	3	4	61	1	0	0	0	0	1	0	0	0	16380	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10		7577538	73617672	37	3550											
CD209	30835	hgsc.bcm.edu	37	chr19	7808097	7808097	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttcctccccaacgttgttgGgctctcctctgttccaatac	5	14	6	16	1	2	0	0	0	2	0	6	0	5	0	5	1	2	4	5	1	3	5	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	7808097	G	A	7808097	3	1	61	1	0	0	0	0	1	0	0	0	2984	1232	43	2	175	2	CD209	19	7808097	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10		7808097	51320886	38	3551											
DNMT1	1786	hgsc.bcm.edu	37	chr19	10273416	10273416	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttttcttcgggcctccgtTtggcagctctgcagggtgaa	4	14	12	11	2	2	1	0	1	2	0	4	1	3	1	2	3	2	4	2	3	1	4	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		C	10273416	T	C	10273416	3	2	61	1	0	0	0	0	1	0	0	0	4675	1841	64	3	4079	3	DNMT1	19	10273416	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10	2465319	10273416	48855567	39	3552											
MAP4K1	11184	hgsc.bcm.edu	37	chr19	39108207	39108207	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctccatgttccctcctcaCcaggctccatcttcaccatc	7	11	4	19	0	3	0	2	0	1	0	8	0	7	0	6	1	1	3	6	1	0	2	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	39108207	C	T	39108207	5	4	61	1	0	0	0	0	0	0	1	0	9259	521	18	2	2529	2	MAP4K1	19	39108207	Splice_Site	SNP	C	TCGA-B0-4703-01A-01D-1361-10	28834791	39108207	20020776	40	3553											
TP53TG5	27296	hgsc.bcm.edu	37	chr20	44002597	44002597	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcctccccttcagctgatGgcgcgatctccaccctctgc	5	11	7	18	2	3	1	1	1	2	0	6	2	5	1	5	1	2	1	5	1	0	2	rs2231628	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	44002597	G	A	44002597	3	1	61	1	0	0	0	0	1	0	0	0	16390	1348	47	2	53	2	TP53TG5	20	44002597	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01D-1361-10		44002597	19022923	41	3554											
GGA1	26088	hgsc.bcm.edu	37	chr22	38027029	38027029	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccgtgtccccagagccccCcaggcctccgcagcagcccg	6	3	10	22	3	0	1	0	0	0	1	2	1	2	1	9	1	3	2	9	1	0	0	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		T	38027029	C	T	38027029	3	4	61	1	0	0	0	0	1	0	0	0	6352	623	22	2	1571	2	GGA1	22	38027029	Missense_Mutation	SNP	C	TCGA-B0-4703-01A-01D-1361-10		38027029	13277537	42	3555											
ZBTB33	10009	hgsc.bcm.edu	37	chrX	119388522	119388522	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtcagaagatcattactTtagatacagctactgaaatt	15	12	8	6	0	2	4	2	1	0	3	2	4	2	4	0	1	4	1	0	1	6	6	novel		TCGA-B0-4703-01A-01D-1361-10	TCGA-B0-4703-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	14e3b48e-8013-44a9-aa0d-5a7d385e53c4	4c79ff8a-cd9d-485b-a012-26bb206d018c		A	119388522	T	A	119388522	3	1	61	1	0	0	0	0	1	0	0	0	17535	1838	64	5	1254	5	ZBTB33	23	119388522	Missense_Mutation	SNP	T	TCGA-B0-4703-01A-01D-1361-10		119388522	35882038	43	3556											
VHL	7428	hgsc.bcm.edu	37	chr3	10183863	10183863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggccgccgcatccacaGctaccgaggtacgggcccgg	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-B0-4703-01A-01W-1359-10	TCGA-B0-4703-11A-01W-1359-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	7de1248d-d072-482c-b2c0-3101aebf3c9d	0fbd7142-f929-46d1-bb7a-1d50350da63b		A	10183863	G	A	10183863	3	1	62	1	0	0	0	0	1	0	0	0	17161	971	34	2	334	2	VHL	3	10183863	Missense_Mutation	SNP	G	TCGA-B0-4703-01A-01W-1359-10		10183863	187838567	1	3557											
TPRG1L	127262	broad.mit.edu;hgsc.bcm.edu	37	chr1	3545080	3545080	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctggagcgccccctgctCatcgagacctacgtgggact	7	8	11	15	3	1	1	1	0	0	1	3	4	2	3	4	2	3	1	4	2	1	1	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	3545080	C	T	3545080	2	4	63	1	0	0	0	0	0	0	0	1	16418	813	29	2		2	TPRG1L	1	3545080	Silent	SNP	C	TCGA-B0-4706-01A-01D-1501-10		3545080	245705541	1	3558											
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35580687	35580687	+	Missense_Mutation	SNP	T	T	A																															cttcagcaagtactgagaacTcattttctaccctgcctcgt																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	35580687	T	A	35580687	3	1	63	1	0	0	0	0	1	0	0	0	17698	1551	54	5	3290	5	ZMYM1	1	35580687	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10	32035607	35580687	213669934	2	3559	42	2									
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35580688	35580688	+	Missense_Mutation	SNP	C	C	T																															ttcagcaagtactgagaactCattttctaccctgcctcgtc																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	35580688	C	T	35580688	3	4	63	1	0	0	0	0	1	0	0	0	17698	838	29	2	3291	2	ZMYM1	1	35580688	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	1	35580688	213669933	3	3560	42	2									
NTRK1	4914	broad.mit.edu	37	chr1	156843581	156843581	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagttcctggagccggCagccaatgagaccgtgcggc	8	6	14	13	3	0	2	0	2	0	1	1	4	1	3	4	3	3	2	4	3	1	1	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	156843581	A	A	156843581	3	1	63	1	0	0	0	0	1	0	0	0	10706	710	25	4	1167	4	NTRK1	1	156843581	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	121262893	156843581	92407040	4	3561											
SPTBN1	6711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	54871514	54871514	+	Frame_Shift_Del	DEL	A	A	-																															cggaagctgtggtgaaggagAaactcactggtttacataaa																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		-	54871514	A	-	54871514	7	5	63	1	0	1	0	1	0	0	0	0	15120	247	9	0	4247	0	SPTBN1	2	54871514	Frame_Shift_Del	DEL	A	TCGA-B0-4706-01A-01D-1501-10		54871514	188327859	5	3562											
MRPS5	64969	broad.mit.edu;hgsc.bcm.edu	37	chr2	95773989	95773989	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttccactccatcctcgctCccgtttaaccttcatcttct	5	16	3	17	2	3	0	1	0	2	0	8	0	7	0	5	0	1	3	5	0	1	5	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	95773989	C	A	95773989	4	1	63	1	0	0	0	0	0	1	0	0	9846	864	30	4	756	4	MRPS5	2	95773989	Nonsense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	40902475	95773989	147425384	6	3563											
FAM123C	0	broad.mit.edu	37	chr2	131520998	131520998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagagtctgtcagggccGgccctggggacgccactgtc	5	8	15	13	2	3	1	1	1	2	1	4	3	3	2	3	4	0	0	3	4	0	0	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	131520998	A	A	131520998	2	1	63	1	0	0	0	0	0	0	0	1	5424	1103	39	1		1	FAM123C	2	131520998	Silent	SNP	G	TCGA-B0-4706-01A-01D-1501-10	35747009	131520998	111678375	7	3564											
DNAJC10	54431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	183623959	183623959	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttctacaagggaaaaatcaTtgggtgattgatttctatgc	12	14	10	5	0	3	2	1	2	2	0	3	3	3	3	0	2	2	1	0	2	5	6	rs140227116	bycluster;by1000genomes	TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	183623959	T	C	183623959	2	2	63	1	0	0	0	0	0	0	0	1	4629	1490	52	3		3	DNAJC10	2	183623959	Silent	SNP	T	TCGA-B0-4706-01A-01D-1501-10	52102961	183623959	59575414	8	3565											
GAL3ST2	64090	broad.mit.edu;hgsc.bcm.edu	37	chr2	242741353	242741353	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccggctcacgcgtccacctgGgctacccctggctcttcctg	3	9	10	19	3	2	0	1	0	1	0	4	0	4	0	6	3	1	3	6	3	1	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	242741353	G	T	242741353	3	4	63	1	0	0	0	0	1	0	0	0	6198	1232	43	4	287	4	GAL3ST2	2	242741353	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10	59117394	242741353	458020	9	3566											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191501	10191501	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagagcgatgcctccaggTtgtccggagcctagtcaagc	10	7	13	11	2	1	1	1	0	0	1	3	4	3	2	4	2	4	1	4	2	3	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	10191501	T	A	10191501	3	1	63	1	0	0	0	0	1	0	0	0	17161	1725	60	5	504	5	VHL	3	10191501	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10		10191501	187830929	10	3567											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47108557	47108557	+	Intron	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagtatctctgaataccTacttgtgttttccttttcag	9	17	6	9	0	2	2	1	1	1	1	4	2	3	2	2	0	2	2	2	0	4	8	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	47108557	T	A	47108557	1	1	63	0	1	0	0	0	0	0	0	0	14133	1537	53	5		5	SETD2	3	47108557	Intron	SNP	T	TCGA-B0-4706-01A-01D-1501-10	36917056	47108557	150913873	11	3568											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52598097	52598102	+	In_Frame_Del	DEL	TAGCAG	TAGCAG	-																															aatttcatcatctaccacttTagcagagagtgaaaacctct																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	TAGCAG	TAGCAG	TAGCAG	-	TAGCAG	TAGCAG	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		-	52598102	TAGCAG	-	52598097	7	5	63	1	0	1	0	1	0	0	0	0	11491	1763	61	0	1088	0	PBRM1	3	52598097	In_Frame_Del	DEL	TAGCAG	TCGA-B0-4706-01A-01D-1501-10	5489540	52598097	145424333	12	3569											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508415	195508462	+	In_Frame_Del	DEL	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-																															tgaggaagtgtcggtgacagGcacaggggtggtgtcacctg																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		-	195508462	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-	195508415	7	5	63	1	0	1	0	1	0	0	0	0	9978	1203	42	0		0	MUC4	3	195508415	In_Frame_Del	DEL	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	TCGA-B0-4706-01A-01D-1501-10	142910318	195508415	2514015	13	3570											
NCAPG	64151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	17826669	17826670	+	Frame_Shift_Del	DEL	AA	AA	-																															atccagctgatgtaagaaagAaagaactcaaggtaagtctc																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		-	17826670	AA	-	17826669	7	5	63	1	0	1	0	1	0	0	0	0	10207	247	9	0	1500	0	NCAPG	4	17826669	Frame_Shift_Del	DEL	AA	TCGA-B0-4706-01A-01D-1501-10		17826669	173327607	14	3571											
NPNT	255743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106863727	106863727	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagagctcagaacacctctaCcacctacaaccccagaaagg	15	4	6	16	0	2	3	1	0	1	3	2	3	2	3	5	1	5	1	5	1	5	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	106863727	C	A	106863727	3	1	63	1	0	0	0	0	1	0	0	0	10590	507	18	4	1206	4	NPNT	4	106863727	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	89037058	106863727	84290549	15	3572											
DCHS2	54798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	155156296	155156296	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgctgcagccttcccCttgatctccttccccaaatg	5	12	9	15	0	1	1	0	1	1	0	4	1	3	1	6	2	3	2	6	2	1	3	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		G	155156296	C	G	155156296	3	3	63	1	0	0	0	0	1	0	0	0	4288	681	24	4	611	4	DCHS2	4	155156296	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	48292569	155156296	35997980	16	3573											
HEATR7B2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41012760	41012760	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggcctttgtacaagtgggGttgaggctctccagaccgtc	7	10	13	11	1	1	2	0	1	1	1	3	2	1	2	3	4	1	3	3	4	2	3	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	41012760	G	C	41012760	3	2	63	1	0	0	0	0	1	0	0	0	7035	1252	44	4	1749	4	HEATR7B2	5	41012760	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10		41012760	139902500	17	3574											
IQGAP2	10788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	75866461	75866461	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtggttaagagcgatGgagtctattggtctacccaa	10	11	12	8	1	2	1	0	0	2	1	3	3	3	2	2	3	2	1	2	3	4	4	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	75866461	G	T	75866461	3	4	63	1	0	0	0	0	1	0	0	0	7815	1348	47	4	374	4	IQGAP2	5	75866461	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10	34853701	75866461	105048799	18	3575											
ATF6B	1388	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	32084267	32084267	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagttaccattgggggcCatggcaggcatcaccaggga	12	6	14	9	0	1	1	1	0	0	1	1	2	1	2	3	5	1	3	3	5	2	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	32084267	C	T	32084267	3	4	63	1	0	0	0	0	1	0	0	0	1085	594	21	2	247	2	ATF6B	6	32084267	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10		32084267	139030800	19	3576											
SNX14	57231	hgsc.bcm.edu	37	chr6	86303401	86303401	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagtcgcagccgctgcttCagcttctgccccatcgtccg	4	10	9	18	4	2	0	1	0	1	0	6	0	4	0	5	0	4	4	5	0	0	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	86303401	C	T	86303401	2	4	63	1	0	0	0	0	0	0	0	1	14887	813	29	2		2	SNX14	6	86303401	Silent	SNP	C	TCGA-B0-4706-01A-01D-1501-10	54219134	86303401	84811666	20	3577											
SEMA3E	9723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	83021907	83021907	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgttgggtaataccgggagCaggatatgccatcccaggca	10	8	13	10	1	0	0	0	0	0	0	1	2	1	2	3	4	3	4	3	4	3	4	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	83021907	C	A	83021907	3	1	63	1	0	0	0	0	1	0	0	0	14030	710	25	4	712	4	SEMA3E	7	83021907	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10		83021907	76116756	21	3578											
CTTNBP2	83992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117417736	117417736	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgaaagaatttccatgAgctggtattctatggtacat	12	15	8	6	0	2	3	1	2	1	1	3	3	3	3	1	2	2	3	1	2	5	6	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	117417736	A	T	117417736	2	4	63	1	0	0	0	0	0	0	0	1	4045	291	11	5		5	CTTNBP2	7	117417736	Silent	SNP	A	TCGA-B0-4706-01A-01D-1501-10	34395829	117417736	41720927	22	3579											
TYRP1	7306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	12698513	12698513	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgcaacggggaaaaatgtCtgtgatatctgcacggatga	12	11	12	6	2	2	2	0	2	2	0	2	4	2	4	0	3	3	2	0	3	4	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	12698513	C	T	12698513	2	4	63	1	0	0	0	0	0	0	0	1	16815	900	32	2		2	TYRP1	9	12698513	Silent	SNP	C	TCGA-B0-4706-01A-01D-1501-10		12698513	128514918	23	3580											
LCN12	286256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139849846	139849846	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaccccaggccagcgtcTgttgaaggatgaagcagctc	9	7	13	12	1	2	2	1	2	1	0	3	3	2	3	3	3	3	3	3	3	2	1	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	139849846	T	C	139849846	3	2	63	1	0	0	0	0	1	0	0	0	8682	1580	55	3	596	3	LCN12	9	139849846	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10	127151333	139849846	1363585	24	3581											
C9orf173	441476	broad.mit.edu	37	chr9	140147247	140147247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctggggctagggggctggGcctcagggtgcagccccagt	4	6	19	12	0	1	0	1	0	0	0	1	0	1	0	4	6	2	3	4	6	1	1	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	140147247	A	A	140147247	3	1	63	1	0	0	0	0	1	0	0	0	2472	1203	42	2	644	2	C9orf173	9	140147247	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10	297401	140147247	1066184	25	3582											
KIAA1279	26128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70748679	70748679	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcataaaaatccggagaagGaaccatacaagtccaaatac	19	6	7	9	1	0	1	0	0	0	1	2	3	2	2	3	2	4	1	3	2	9	3	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	70748679	G	A	70748679	3	1	63	1	0	0	0	0	1	0	0	0	8221	1175	41	2	93	2	KIAA1279	10	70748679	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10		70748679	64786068	26	3583											
AIFM2	84883	broad.mit.edu	37	chr10	71874016	71874016	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagccgaaccatgagccggCccacatagaagccactgatt	12	6	9	14	2	1	3	1	2	0	1	1	4	1	3	5	1	4	0	5	1	3	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	71874016	A	A	71874016	3	1	63	1	0	0	0	0	1	0	0	0	427	739	26	4	85	4	AIFM2	10	71874016	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	1125337	71874016	63660731	27	3584											
C10orf27	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	72541707	72541707	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatccacaatccctgggaTcaccagttctttctgtggcc	9	11	8	13	0	3	0	1	0	2	0	5	2	5	1	4	2	0	1	4	2	2	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	72541707	T	C	72541707	3	2	63	1	0	0	0	0	1	0	0	0	1600	1435	50	3	960	3	C10orf27	10	72541707	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10	667691	72541707	62993040	28	3585											
GBF1	8729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104111129	104111129	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtcctgatgaaaatccttCaggtaagcgagagggaaata	14	10	11	6	1	1	3	1	2	0	1	3	5	3	4	2	2	1	1	2	2	5	4	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	104111129	C	T	104111129	4	4	63	1	0	0	0	0	0	1	0	0	6271	827	29	2	426	2	GBF1	10	104111129	Nonsense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	31569422	104111129	31423618	29	3586											
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129911780	129911780	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccttttgagaggcgtattagGaggcaagttttcatcaaata	12	13	10	6	1	2	1	2	1	0	1	2	3	2	2	1	3	0	3	1	3	5	7	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	129911780	G	C	129911780	3	2	63	1	0	0	0	0	1	0	0	0	9598	1174	41	4	8235	4	MKI67	10	129911780	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10	25800651	129911780	5622967	30	3587											
NUMA1	4926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	71735322	71735322	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataagaaaggtgcttactcTgcagaaaactgcacacaaag	17	7	9	8	0	1	2	0	0	1	2	1	3	1	2	0	1	5	3	0	1	6	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	71735322	T	C	71735322	3	2	63	1	0	0	0	0	1	0	0	0	10750	1580	55	3	6233	3	NUMA1	11	71735322	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10		71735322	63271194	31	3588											
PKP2	5318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32975511	32975511	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaatatttctctgggagctCtgcctccagctggtaggaga	8	11	13	9	0	2	1	0	0	2	1	4	4	3	3	2	4	3	3	2	4	3	3	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	32975511	C	T	32975511	3	4	63	1	0	0	0	0	1	0	0	0	11985	922	32	2	808	2	PKP2	12	32975511	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10		32975511	100876384	32	3589											
HOXC8	3224	hgsc.bcm.edu;ucsc.edu	37	chr12	54403321	54403328	+	Frame_Shift_Del	DEL	GCCTCCAA	GCCTCCAA	-																															cgcttagctgccacggagacGcctccaaattctatggctac																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	GCCTCCAA	GCCTCCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		-	54403328	GCCTCCAA	-	54403321	7	5	63	1	0	1	0	1	0	0	0	0	7316	1087	38	0	255	0	HOXC8	12	54403321	Frame_Shift_Del	DEL	GCCTCCAA	TCGA-B0-4706-01A-01D-1501-10	21427810	54403321	79448574	33	3590											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57554852	57554852	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctactgggtggatgcctTctacgaccgcatcgagacga	8	9	11	13	4	2	1	0	0	2	1	3	5	2	2	3	2	3	1	3	2	2	3	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	57554852	T	C	57554852	3	2	63	1	0	0	0	0	1	0	0	0	8951	1783	62	3	2206	3	LRP1	12	57554852	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10	3151531	57554852	76297043	34	3591											
DGKH	160851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42773767	42773767	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggattagatgcaaaaatttCattagaatttaataataaaa	20	14	5	2	0	1	2	1	0	0	2	1	3	1	3	0	1	1	1	0	1	9	7	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	42773767	C	T	42773767	3	4	63	1	0	0	0	0	1	0	0	0	4470	838	29	2	2425	2	DGKH	13	42773767	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10		42773767	72396111	35	3592											
SETD3	84193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	99932102	99932102	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagttgctgtagcaccaGtgccagatttctgagttttt	9	14	9	9	0	1	2	0	1	1	1	1	2	1	2	2	0	3	5	2	0	1	5	rs186182372	by1000genomes;alternate_allele	TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	99932102	G	A	99932102	3	1	63	1	0	0	0	0	1	0	0	0	14134	1029	36	2	1837	2	SETD3	14	99932102	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10		99932102	7417438	36	3593											
ZSCAN29	146050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43653850	43653850	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagaagggagtttggaccAaagcttttgctgtatttgag	11	13	13	4	0	0	2	0	2	0	1	0	5	0	4	1	2	2	4	1	2	3	5	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		G	43653850	A	G	43653850	2	3	63	1	0	0	0	0	0	0	0	1	18235	127	5	3		3	ZSCAN29	15	43653850	Silent	SNP	A	TCGA-B0-4706-01A-01D-1501-10		43653850	58877542	37	3594											
FBXO22	26263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	76222396	76222396	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgacttctgaaaagtatgTcttgtgtgcttctgatttcg	8	17	9	7	1	3	3	0	3	3	0	4	3	3	3	0	0	1	2	0	0	3	5	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	76222396	T	A	76222396	3	1	63	1	0	0	0	0	1	0	0	0	5734	1667	58	5	822	5	FBXO22	15	76222396	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10	32568546	76222396	26308996	38	3595											
SCAPER	49855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	77059317	77059317	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgttttcttcagcttcaAtttctctagttaactgttct	7	21	4	9	0	5	0	2	0	3	0	6	0	5	0	0	0	2	4	0	0	3	9	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		G	77059317	A	G	77059317	3	3	63	1	0	0	0	0	1	0	0	0	13880	101	4	3	2929	3	SCAPER	15	77059317	Missense_Mutation	SNP	A	TCGA-B0-4706-01A-01D-1501-10	836921	77059317	25472075	39	3596											
MAN2A2	4122	broad.mit.edu	37	chr15	91454153	91454153	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctgggggacaaggagAcctaccactttgaccctgag	9	8	14	10	0	0	3	0	2	0	1	0	5	0	4	3	4	2	1	3	4	2	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	91454153	C	C	91454153	3	2	63	1	0	0	0	0	1	0	0	0	9215	275	10	5	1879	5	MAN2A2	15	91454153	Missense_Mutation	SNP	A	TCGA-B0-4706-01A-01D-1501-10	14394836	91454153	11077239	40	3597											
FZR1	51343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3533336	3533336	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccagatccttgtctggaaGtacccctccctgacccaggt	9	9	8	15	0	1	2	0	1	1	1	3	3	3	3	6	2	2	1	6	2	3	2	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	3533336	G	A	3533336	2	1	63	1	0	0	0	0	0	0	0	1	6138	1020	36	2		2	FZR1	19	3533336	Silent	SNP	G	TCGA-B0-4706-01A-01D-1501-10		3533336	55595647	41	3598											
ALKBH7	84266	broad.mit.edu	37	chr19	6374925	6374925	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcatctccgtgatctgcCgctccctccctgagggcatg	4	9	12	16	3	2	2	0	2	2	0	5	2	4	2	4	2	1	3	4	2	0	0	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	6374925	A	A	6374925	3	1	63	1	0	0	0	0	1	0	0	0	532	652	23	4	621	4	ALKBH7	19	6374925	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	2841589	6374925	52754058	42	3599											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9089041	9089041	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagtttgtaactgaggtaCtgctcgtagctctgagctca	8	14	11	8	1	2	3	1	3	1	0	3	3	2	3	0	1	5	7	0	1	3	5	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	9089041	C	A	9089041	3	1	63	1	0	0	0	0	1	0	0	0	9973	565	20	4	41085	4	MUC16	19	9089041	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	2714116	9089041	50039942	43	3600											
DKKL1	27120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49869088	49869088	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaggtgctgatctccgaGaatgtggtggcatccattca	9	10	14	8	1	2	3	1	1	1	2	4	5	3	3	2	4	1	2	2	4	1	1	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	49869088	G	T	49869088	3	4	63	1	0	0	0	0	1	0	0	0	4548	933	33	4	377	4	DKKL1	19	49869088	Missense_Mutation	SNP	G	TCGA-B0-4706-01A-01D-1501-10	40780047	49869088	9259895	44	3601											
KLK10	5655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51518692	51518692	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcaagggtcctggcccCggtccagtccagcacatatc	7	7	11	16	1	0	0	0	0	0	0	4	0	3	0	6	4	1	2	6	4	2	1	rs142960865		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	51518692	C	T	51518692	3	4	63	1	0	0	0	0	1	0	0	0	8398	652	23	1	179	1	KLK10	19	51518692	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	1649604	51518692	7610291	45	3602											
GPCPD1	56261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	5559074	5559074	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatctggttccatcgtctgTatgctgtactctgtccaacg	6	16	8	11	2	3	0	0	0	3	0	6	0	5	0	2	1	3	4	2	1	4	4	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		C	5559074	T	C	5559074	3	2	63	1	0	0	0	0	1	0	0	0	6603	1628	57	3	1413	3	GPCPD1	20	5559074	Missense_Mutation	SNP	T	TCGA-B0-4706-01A-01D-1501-10		5559074	57466446	46	3603											
ACTR5	79913	broad.mit.edu;hgsc.bcm.edu	37	chr20	37383750	37383750	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcggctgcaggagctcaAtgcccggcggcgggaggaga	7	3	20	11	5	1	1	1	0	0	1	1	4	1	3	1	7	3	3	1	7	1	0	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		G	37383750	A	G	37383750	3	3	63	1	0	0	0	0	1	0	0	0	215	101	4	3	940	3	ACTR5	20	37383750	Missense_Mutation	SNP	A	TCGA-B0-4706-01A-01D-1501-10	31824676	37383750	25641770	47	3604											
KRTAP10-6	386674	broad.mit.edu	37	chr21	46011526	46011526	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagactgctggcagcatgaTgtggaagccccagagcagac	11	6	13	11	0	0	4	0	1	0	3	0	5	0	5	2	2	4	4	2	2	2	1	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		A	46011526	A	A	46011526	2	1	63	1	0	0	0	0	0	0	0	1	8513	1451	51	5		5	KRTAP10-6	21	46011526	Silent	SNP	T	TCGA-B0-4706-01A-01D-1501-10		46011526	2118369	48	3605											
NEFH	4744	hgsc.bcm.edu	37	chr22	29885575	29885576	+	In_Frame_Ins	INS	-	-	TGAGAAGGCCAAGTCCCC																															aaggaggaagcaaagtccccINStgagaaggccaagtccccag																								novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		TGAGAAGGCCAAGTCCCC	29885576	-	TGAGAAGGCCAAGTCCCC	29885575	7	5	63	1	0	1	1	0	0	0	0	0	10314	681	24	0	1960	0	NEFH	22	29885575	In_Frame_Ins	INS	-	TCGA-B0-4706-01A-01D-1501-10		29885575	21418991	49	3606											
TCF20	6942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42607162	42607162	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcttcaaagacagtatatCatcaagcgtaaccgtgtctc	13	11	6	11	2	5	1	3	0	2	1	6	1	5	1	1	0	2	2	1	0	5	4	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	42607162	C	T	42607162	3	4	63	1	0	0	0	0	1	0	0	0	15689	826	29	2	1770	2	TCF20	22	42607162	Missense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10	12721587	42607162	8697404	50	3607											
MAGEB4	4115	broad.mit.edu;hgsc.bcm.edu	37	chrX	30260747	30260747	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggtctttggccttgcCttgaaggaggtcaaccccac	7	10	12	12	0	2	1	1	1	1	0	2	3	2	2	4	4	3	1	4	4	2	3	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		G	30260747	C	G	30260747	2	3	63	1	0	0	0	0	0	0	0	1	9178	668	24	4		4	MAGEB4	23	30260747	Silent	SNP	C	TCGA-B0-4706-01A-01D-1501-10		30260747	125009813	51	3608											
ZFY	7544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrY	2829144	2829144	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacacatggatggtgatCagattgttgtggaaatacaa	14	11	10	6	0	1	2	1	1	0	1	1	4	1	4	0	3	2	1	0	3	4	4	novel		TCGA-B0-4706-01A-01D-1501-10	TCGA-B0-4706-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	040fdd9b-db76-4357-9aed-77a8cbde058d	c9228cb8-9a17-422d-b984-881a1cd1c4e8		T	2829144	C	T	2829144	4	4	63	1	0	0	0	0	0	1	0	0	17661	827	29	2	97	2	ZFY	24	2829144	Nonsense_Mutation	SNP	C	TCGA-B0-4706-01A-01D-1501-10		2829144	56544422	52	3609											
CATSPER4	378807	hgsc.bcm.edu	37	chr1	26527920	26527920	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ttgaacaggcgctcgtcgacGagcgggtcgttggagactac	8	8	15	10	6	0	2	0	1	0	1	3	5	0	2	0	3	3	2	0	3	2	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	26527920	G	C	26527920	2	2	64	1	0	0	0	0	0	0	0	1	2690	1045	37	4		4	CATSPER4	1	26527920	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10		26527920	222722701	1	3610											
THRAP3	9967	hgsc.bcm.edu	37	chr1	36755272	36755272	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgagacaagctgggagcgaAaggagattttcccacaggaa	14	5	13	9	2	0	2	0	0	0	2	1	7	1	4	2	3	2	1	2	3	3	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	36755272	A	G	36755272	3	3	64	1	0	0	0	0	1	0	0	0	15873	14	1	3	1662	3	THRAP3	1	36755272	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	10227352	36755272	212495349	2	3611											
ORC1L	0	hgsc.bcm.edu	37	chr1	52847347	52847347	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggatggcatcatcttcAaaggcctttagatgcttgag	10	12	11	8	0	3	2	2	1	1	1	3	3	3	3	1	3	2	3	1	3	2	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	52847347	A	G	52847347	2	3	64	1	0	0	0	0	0	0	0	1	11261	127	5	3		3	ORC1L	1	52847347	Silent	SNP	A	TCGA-B0-4707-01A-01D-1361-10	16092075	52847347	196403274	3	3612											
PRKACB	5567	hgsc.bcm.edu	37	chr1	84544032	84544032	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaacgcggcgaccgccaaGaaaggcagcgaggtggagag	12	1	19	9	5	0	2	0	0	0	2	0	6	0	3	2	5	2	1	2	5	3	0	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	84544032	G	T	84544032	3	4	64	1	0	0	0	0	1	0	0	0	12500	933	33	4	26	4	PRKACB	1	84544032	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	31696685	84544032	164706589	4	3613											
DPH5	51611	hgsc.bcm.edu;ucsc.edu	37	chr1	101487262	101487262	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcctttaaaatattatcTgcttcttgttccacttcttc	8	19	3	11	0	3	0	0	0	3	0	6	0	5	0	2	0	1	3	2	0	4	9	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	101487262	T	A	101487262	2	1	64	1	0	0	0	0	0	0	0	1	4723	1567	55	5		5	DPH5	1	101487262	Silent	SNP	T	TCGA-B0-4707-01A-01D-1361-10	16943230	101487262	147763359	5	3614											
CSDE1	7812	hgsc.bcm.edu	37	chr1	115276689	115276689	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttaaattcactatagtgaAagaatatctcttttacaaca	16	14	3	8	0	2	2	1	1	1	1	3	2	2	2	1	0	2	0	1	0	9	7	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	115276689	A	T	115276689	3	4	64	1	0	0	0	0	1	0	0	0	3929	14	1	5	1816	5	CSDE1	1	115276689	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	13789427	115276689	133973932	6	3615											
NES	10763	hgsc.bcm.edu	37	chr1	156642149	156642149	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaggcttaagttggcctaCagcctctttttctagaggtc	7	15	10	9	0	2	1	0	0	2	1	3	1	2	1	2	3	2	3	2	3	4	7	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	156642149	C	G	156642149	3	3	64	1	0	0	0	0	1	0	0	0	10337	478	17	4	3038	4	NES	1	156642149	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	41365460	156642149	92608472	7	3616											
CEP350	9857	hgsc.bcm.edu;ucsc.edu	37	chr1	180065296	180065296	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atttccgacgagtgaaaaatCcaaataaccttgatgaaatc	17	10	6	8	2	0	3	0	3	0	0	3	5	2	3	3	0	1	0	3	0	5	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	180065296	C	T	180065296	3	4	64	1	0	0	0	0	1	0	0	0	3254	855	30	2	9181	2	CEP350	1	180065296	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	23423147	180065296	69185325	8	3617											
MOSC1	0	hgsc.bcm.edu;ucsc.edu	37	chr1	220978582	220978582	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacccagacaccggtgtcAtgagcaggaaggaaccgctg	11	5	14	11	2	1	2	1	1	0	1	1	5	1	5	3	4	2	2	3	4	2	0	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	220978582	A	G	220978582	3	3	64	1	0	0	0	0	1	0	0	0	9713	217	8	3	875	3	MOSC1	1	220978582	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	40913286	220978582	28272039	9	3618											
GREB1	9687	hgsc.bcm.edu	37	chr2	11725903	11725903	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctagagagcgcaggcatgtCctgcgtgccgcaggttggct	6	8	15	12	3	0	1	0	0	0	1	1	2	1	1	3	3	3	5	3	3	1	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	11725903	C	A	11725903	3	1	64	1	0	0	0	0	1	0	0	0	6760	855	30	4	1061	4	GREB1	2	11725903	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10		11725903	231473470	10	3619											
C2orf70	339778	hgsc.bcm.edu	37	chr2	26800423	26800423	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtactatcaagacaagacgGgcacagtgcctcgagtcccc	12	6	10	13	2	1	2	1	0	0	2	3	3	2	2	3	1	2	2	3	1	4	2	rs182524035	by1000genomes	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	26800423	G	A	26800423	3	1	64	1	0	0	0	0	1	0	0	0	2190	1232	43	2	398	2	C2orf70	2	26800423	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	15074520	26800423	216398950	11	3620											
HEATR5B	54497	hgsc.bcm.edu	37	chr2	37297442	37297442	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacatttctccaccgctcttTaagaaacctgaccctccacg	11	10	4	16	2	2	2	0	1	2	1	4	2	3	2	5	0	2	1	5	0	3	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	37297442	T	A	37297442	3	1	64	1	0	0	0	0	1	0	0	0	7032	1751	61	5	5477	5	HEATR5B	2	37297442	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	10497019	37297442	205901931	12	3621											
PLEKHH2	130271	hgsc.bcm.edu;ucsc.edu	37	chr2	43969891	43969891	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtattacaggacagaatttgGaaaatatgccatttactgcc	14	12	8	7	0	0	1	0	0	0	1	0	3	0	3	2	2	4	1	2	2	7	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	43969891	G	C	43969891	3	2	64	1	0	0	0	0	1	0	0	0	12077	1174	41	4	3315	4	PLEKHH2	2	43969891	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	6672449	43969891	199229482	13	3622											
SCTR	6344	hgsc.bcm.edu;ucsc.edu	37	chr2	120221705	120221705	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccagacatattaccctgtgGgcatcgcagtaggtgacatc	10	9	10	12	1	0	2	0	1	0	1	2	2	0	2	2	2	1	3	2	2	3	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	120221705	G	A	120221705	2	1	64	1	0	0	0	0	0	0	0	1	13945	1219	43	2		2	SCTR	2	120221705	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	76251814	120221705	122977668	14	3623											
ZNF804A	91752	hgsc.bcm.edu;ucsc.edu	37	chr2	185731108	185731109	+	Frame_Shift_Del	DEL	AA	AA	-																															tttttcaggactatgctgagAaggaaaataccatagcaaaa																								novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		-	185731109	AA	-	185731108	7	5	64	1	0	1	0	1	0	0	0	0	18169	247	9	0	130	0	ZNF804A	2	185731108	Frame_Shift_Del	DEL	AA	TCGA-B0-4707-01A-01D-1361-10	65509403	185731108	57468265	15	3624											
VIL1	7429	hgsc.bcm.edu	37	chr2	219301349	219301349	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctactagatgtctgggaccaGgtaggaccaagggcctgggg	9	7	16	9	0	1	1	0	0	1	1	1	3	1	3	3	6	1	1	3	6	4	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	219301349	G	A	219301349	2	1	64	1	0	0	0	0	0	0	0	1	17163	1014	35	2		2	VIL1	2	219301349	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	33570241	219301349	23898024	16	3625											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191542	10191543	+	Frame_Shift_Del	DEL	GA	GA	-																															ctgagaattacaggagactgGacatcgtcaggtcgctctac																								novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		-	10191543	GA	-	10191542	7	5	64	1	0	1	0	1	0	0	0	0	17161	1174	41	0	545	0	VHL	3	10191542	Frame_Shift_Del	DEL	GA	TCGA-B0-4707-01A-01D-1361-10		10191542	187830888	17	3626											
CDHR4	389118	hgsc.bcm.edu	37	chr3	49836830	49836830	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggactgtgccagggccctgGctctcagagacatttataaa	11	9	11	10	0	1	1	1	0	1	1	2	3	1	2	2	3	1	1	2	3	3	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	49836830	G	A	49836830	2	1	64	1	0	0	0	0	0	0	0	1	3121	1194	42	2		2	CDHR4	3	49836830	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	39645288	49836830	148185600	18	3627											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52442513	52442516	+	Frame_Shift_Del	DEL	TCAC	TCAC	-																															gtgggcaaagaacatgttatTcacaatatcatcatcaatca																								novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	TCAC	TCAC	TCAC	-	TCAC	TCAC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		-	52442516	TCAC	-	52442513	7	5	64	1	0	1	0	1	0	0	0	0	1311	1783	62	0	2013	0	BAP1	3	52442513	Frame_Shift_Del	DEL	TCAC	TCGA-B0-4707-01A-01D-1361-10	2605683	52442513	145579917	19	3628											
GLT8D1	55830	hgsc.bcm.edu	37	chr3	52730619	52730619	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttccaaaagtttagggTcaaaattgacaattttgtat	13	16	6	6	0	1	1	1	1	0	0	3	1	3	1	2	1	0	2	2	1	7	8	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	52730619	T	G	52730619	3	3	64	1	0	0	0	0	1	0	0	0	6469	1667	58	5	753	5	GLT8D1	3	52730619	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	288106	52730619	145291811	20	3629											
ALCAM	214	hgsc.bcm.edu;ucsc.edu	37	chr3	105269022	105269022	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatagtaaaattatcattTcccctgaagagaatgttaca	16	14	5	6	0	1	2	1	1	0	1	2	3	2	2	2	0	1	2	2	0	8	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	105269022	T	G	105269022	3	3	64	1	0	0	0	0	1	0	0	0	487	1783	62	5	1472	5	ALCAM	3	105269022	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	52538403	105269022	92753408	21	3630											
BTLA	151888	hgsc.bcm.edu;ucsc.edu	37	chr3	112185075	112185075	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaacaatgcctggtttgttTtcttccaggcatggattaga	10	15	9	7	0	1	1	0	0	1	1	2	2	2	2	2	3	2	3	2	3	4	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	112185075	T	G	112185075	3	3	64	1	0	0	0	0	1	0	0	0	1558	1838	64	5	123	5	BTLA	3	112185075	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	6916053	112185075	85837355	22	3631											
HSPBAP1	79663	hgsc.bcm.edu;ucsc.edu	37	chr3	122459679	122459679	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaaaatgcagaaacagctGcatttaagtagcaacagttg	18	8	8	7	0	0	1	0	0	0	1	0	1	0	1	0	0	6	6	0	0	7	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	122459679	G	T	122459679	3	4	64	1	0	0	0	0	1	0	0	0	7425	1319	46	4	490	4	HSPBAP1	3	122459679	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	10274604	122459679	75562751	23	3632											
YEATS2	55689	hgsc.bcm.edu;ucsc.edu	37	chr3	183525823	183525823	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctgcttttccagattggGatcaccctgcagcccgtggc	5	12	10	14	1	2	1	1	0	1	1	3	2	3	2	3	2	3	2	3	2	0	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	183525823	G	T	183525823	2	4	64	1	0	0	0	0	0	0	0	1	17471	1161	41	4		4	YEATS2	3	183525823	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	61066144	183525823	14496607	24	3633											
EPHB3	2049	hgsc.bcm.edu	37	chr3	184294703	184294703	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcctcgagtggagtgagccCcgggacctgggtggccggga	6	6	18	11	3	0	1	0	1	0	0	2	5	1	4	5	5	1	0	5	5	0	0	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	184294703	C	A	184294703	2	1	64	1	0	0	0	0	0	0	0	1	5176	610	22	4		4	EPHB3	3	184294703	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10	768880	184294703	13727727	25	3634											
EVC2	132884	hgsc.bcm.edu;ucsc.edu	37	chr4	5567008	5567008	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttctcttgcgggcccaCagcatcttttctaatcctct	5	16	6	14	1	4	0	0	0	4	0	6	0	5	0	2	1	3	2	2	1	1	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	5567008	C	A	5567008	2	1	64	1	0	0	0	0	0	0	0	1	5286	465	17	4		4	EVC2	4	5567008	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10		5567008	185587268	26	3635											
TMEM156	80008	hgsc.bcm.edu	37	chr4	39000337	39000337	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacacgaggagcacattttaAattcacctgtgatgtcttgg	12	12	9	8	1	2	1	1	1	1	0	2	3	2	2	1	2	2	1	1	2	3	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	39000337	A	C	39000337	3	2	64	1	0	0	0	0	1	0	0	0	16072	14	1	5	629	5	TMEM156	4	39000337	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	33433329	39000337	152153939	27	3636											
IL31RA	133396	hgsc.bcm.edu	37	chr5	55164729	55164729	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacccagtacacagttaagAgaacttagtaagtacaggag	17	8	9	7	0	0	1	0	0	0	1	0	3	0	2	1	1	4	4	1	1	7	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	55164729	A	C	55164729	2	2	64	1	0	0	0	0	0	0	0	1	7691	296	11	5		5	IL31RA	5	55164729	Silent	SNP	A	TCGA-B0-4707-01A-01D-1361-10		55164729	125750531	28	3637											
VCAN	1462	hgsc.bcm.edu;ucsc.edu	37	chr5	82834378	82834378	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaccactgtttcttcattTtcattaaacgtagagtatgc	11	15	5	10	1	3	1	2	0	1	1	3	1	3	1	2	0	2	3	2	0	4	7	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	82834378	T	G	82834378	3	3	64	1	0	0	0	0	1	0	0	0	17137	1838	64	5	5582	5	VCAN	5	82834378	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	27669649	82834378	98080882	29	3638											
PCDHB11	56125	hgsc.bcm.edu;ucsc.edu	37	chr5	140580255	140580255	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagtctggagaaattacttTaagagcacctctggattttg	13	13	9	6	0	2	2	0	0	2	2	2	4	2	3	1	2	2	1	1	2	4	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	140580255	T	C	140580255	3	2	64	1	0	0	0	0	1	0	0	0	11536	1764	61	3	910	3	PCDHB11	5	140580255	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	57745877	140580255	40335005	30	3639											
DCTN4	51164	hgsc.bcm.edu;ucsc.edu	37	chr5	150138487	150138487	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaagtagagttgcgagagCggggcccgaaccttcttttc	9	9	13	10	3	1	3	0	0	1	3	2	5	1	3	2	2	3	2	2	2	3	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	150138487	C	T	150138487	2	4	64	1	0	0	0	0	0	0	0	1	4309	755	27	1		1	DCTN4	5	150138487	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10	9558232	150138487	30776773	31	3640											
HLA-DRB5	3127	hgsc.bcm.edu	37	chr6	32485527	32485527	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcacttcagctcacgaGtcctgcagagagagaggaaa	13	7	11	10	1	3	2	2	0	1	2	4	6	4	3	1	1	3	3	1	1	1	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	32485527	G	A	32485527	3	1	64	1	0	0	0	0	1	0	0	0	7209	1029	36	2	14	2	HLA-DRB5	6	32485527	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10		32485527	138629540	32	3641											
MED20	9477	hgsc.bcm.edu;ucsc.edu	37	chr6	41884633	41884633	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccgggtaaggagctctacgGtttgctgaacactcttgccc	7	11	11	12	2	2	1	0	1	2	0	3	2	3	2	2	3	5	4	2	3	3	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	41884633	G	C	41884633	3	2	64	1	0	0	0	0	1	0	0	0	9438	1261	44	4	591	4	MED20	6	41884633	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	9399106	41884633	129230434	33	3642											
REV3L	5980	hgsc.bcm.edu;ucsc.edu	37	chr6	111621271	111621271	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccttggacaattctctaTttactcgggagagtttgaaa	10	14	10	7	1	1	2	0	1	1	1	3	4	1	3	1	2	2	1	1	2	4	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	111621271	T	C	111621271	3	2	64	1	0	0	0	0	1	0	0	0	13242	1493	52	3	55	3	REV3L	6	111621271	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	69736638	111621271	59493796	34	3643											
FYN	2534	hgsc.bcm.edu;ucsc.edu	37	chr6	112017520	112017520	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgtagatgggctcctcAgacaccactgcatagagctg	11	8	11	11	1	1	3	1	0	0	3	2	4	2	3	2	1	2	4	2	1	2	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	112017520	A	T	112017520	2	4	64	1	0	0	0	0	0	0	0	1	6126	175	7	5		5	FYN	6	112017520	Silent	SNP	A	TCGA-B0-4707-01A-01D-1361-10	396249	112017520	59097547	35	3644											
KDELR2	11014	hgsc.bcm.edu	37	chr7	6505900	6505900	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagtcttgctgatcataaAtagctgcggaaggatagcca	12	9	10	10	1	2	1	1	1	1	0	2	3	2	3	2	2	4	2	2	2	5	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	6505900	A	G	6505900	3	3	64	1	0	0	0	0	1	0	0	0	8120	101	4	3	415	3	KDELR2	7	6505900	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10		6505900	152632763	36	3645											
AEBP1	165	hgsc.bcm.edu;ucsc.edu	37	chr7	44152202	44152202	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcctggatggagaagaacCccttcgtgctgggagcaaat	10	9	13	9	1	0	2	0	0	0	2	1	5	0	4	3	3	4	2	3	3	3	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	44152202	C	A	44152202	3	1	64	1	0	0	0	0	1	0	0	0	349	623	22	4	2333	4	AEBP1	7	44152202	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	37646302	44152202	114986461	37	3646											
MLXIPL	51085	hgsc.bcm.edu	37	chr7	73008676	73008676	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcggagggtgtgcacacTtgccgtggacaccatcccgt	6	8	14	13	3	0	0	0	0	0	0	1	2	1	2	3	4	2	1	3	4	0	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	73008676	T	G	73008676	3	3	64	1	0	0	0	0	1	0	0	0	9637	1609	56	5	198	5	MLXIPL	7	73008676	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	28856474	73008676	86129987	38	3647											
ELN	2006	hgsc.bcm.edu;ucsc.edu	37	chr7	73452038	73452038	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttctcttccctctgcagcGctggggcctggaggcaaacc	5	10	11	15	1	3	0	0	0	3	0	5	1	4	1	3	4	3	3	3	4	1	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	73452038	G	A	73452038	2	1	64	1	0	0	0	0	0	0	0	1	5071	1101	38	1		1	ELN	7	73452038	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	443362	73452038	85686625	39	3648											
PCLO	27445	hgsc.bcm.edu	37	chr7	82474791	82474791	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatcaacccctggggatttCgccttatccactacaacaaa	12	9	7	13	1	1	0	1	0	0	0	3	2	2	2	4	3	3	0	4	3	5	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	82474791	C	T	82474791	2	4	64	1	0	0	0	0	0	0	0	1	11583	871	31	1		1	PCLO	7	82474791	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10	9022753	82474791	76663872	40	3649											
MUC17	140453	hgsc.bcm.edu	37	chr7	100684143	100684143	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattcatctcctacaacttCtgaaggtaccagcatgccaa	12	10	5	14	0	3	1	1	1	2	0	4	1	3	1	4	1	5	2	4	1	5	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	100684143	C	A	100684143	3	1	64	1	0	0	0	0	1	0	0	0	9974	913	32	4	9456	4	MUC17	7	100684143	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	18209352	100684143	58454520	41	3650											
FOXP2	93986	hgsc.bcm.edu	37	chr7	114282645	114282645	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcatcattccatagtgaatgGacagtcttcagttctaagtg	11	14	8	8	0	5	1	3	1	2	0	6	2	6	2	1	1	0	1	1	1	3	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	114282645	G	C	114282645	3	2	64	1	0	0	0	0	1	0	0	0	6027	1174	41	4	1112	4	FOXP2	7	114282645	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	13598502	114282645	44856018	42	3651											
CSGALNACT1	55790	hgsc.bcm.edu;ucsc.edu	37	chr8	19263569	19263569	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccccagcctttgatgtccaGatcaaacccacctgtcggga	9	8	9	15	1	1	2	1	1	0	1	3	3	2	3	6	1	2	0	6	1	1	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	19263569	G	C	19263569	3	2	64	1	0	0	0	0	1	0	0	0	3938	933	33	4	281	4	CSGALNACT1	8	19263569	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10		19263569	127100453	43	3652											
NSMAF	8439	hgsc.bcm.edu;ucsc.edu	37	chr8	59515834	59515834	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtactgggagaggtcgttgCagctgcggtcggccaggttg	5	9	19	8	3	0	1	0	0	0	1	2	2	0	1	1	6	4	5	1	6	1	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	59515834	C	T	59515834	3	4	64	1	0	0	0	0	1	0	0	0	10674	710	25	2	1849	2	NSMAF	8	59515834	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	40252265	59515834	86848188	44	3653											
PLEC	5339	hgsc.bcm.edu;ucsc.edu	37	chr8	145000956	145000956	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaacgggctgtacctccTcctcctccatgcgccgcaga	6	7	9	19	3	0	1	0	0	0	1	4	1	4	1	7	1	3	3	7	1	2	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	145000956	T	A	145000956	3	1	64	1	0	0	0	0	1	0	0	0	12052	1551	54	5	9615	5	PLEC	8	145000956	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	85485122	145000956	1363066	45	3654											
SHARPIN	81858	hgsc.bcm.edu;ucsc.edu	37	chr8	145154874	145154874	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctcctaggaagatctgcctCaggtggagggcccttgagtg	7	9	15	10	0	2	2	1	1	1	1	3	4	3	4	3	4	1	1	3	4	2	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	145154874	C	T	145154874	3	4	64	1	0	0	0	0	1	0	0	0	14269	835	29	2	712	2	SHARPIN	8	145154874	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	153918	145154874	1209148	46	3655											
FOXH1	8928	hgsc.bcm.edu;ucsc.edu	37	chr8	145701057	145701057	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcttgtcatgtcgcaggTacctcttcttcctcctctta	4	15	9	13	1	4	0	1	0	3	0	7	0	6	0	3	3	1	3	3	3	2	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	145701057	T	A	145701057	3	1	64	1	0	0	0	0	1	0	0	0	6008	1638	57	5	1026	5	FOXH1	8	145701057	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	546183	145701057	662965	47	3656											
KIAA1529	0	hgsc.bcm.edu;ucsc.edu	37	chr9	100053695	100053695	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagcctatgtggcatggCaatcatgtacagcctggtgc	10	9	12	10	0	1	1	1	0	0	1	1	1	1	1	2	3	4	3	2	3	3	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	100053695	C	G	100053695	2	3	64	1	0	0	0	0	0	0	0	1	8240	697	25	4		4	KIAA1529	9	100053695	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10		100053695	41159736	48	3657											
AKR1C2	1646	hgsc.bcm.edu;ucsc.edu	37	chr10	5042784	5042784	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagatagaggtcaacataGtccaattgaagatttttcag	16	12	8	5	0	2	4	2	1	0	3	3	4	3	4	1	1	1	0	1	1	6	6	rs13945	bycluster;byfrequency;by1000genomes	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	5042784	G	A	5042784	2	1	64	1	0	0	0	0	0	0	0	1	470	1020	36	2		2	AKR1C2	10	5042784	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10		5042784	130491963	49	3658											
MYO3A	53904	hgsc.bcm.edu	37	chr10	26385321	26385321	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttccagtggagaaaaaaAttttcatattttttactaca	14	18	4	5	0	1	1	1	0	0	1	2	2	2	1	1	1	2	0	1	1	6	9	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	26385321	A	G	26385321	3	3	64	1	0	0	0	0	1	0	0	0	10076	101	4	3	1628	3	MYO3A	10	26385321	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	21342537	26385321	109149426	50	3659											
CRTAC1	55118	hgsc.bcm.edu	37	chr10	99642574	99642574	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattttcctgctgggagaaTccttggccacactgtaaggt	8	12	10	11	0	0	1	0	0	0	1	2	2	2	1	4	3	1	2	4	3	2	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	99642574	T	C	99642574	2	2	64	1	0	0	0	0	0	0	0	1	3896	1422	50	3		3	CRTAC1	10	99642574	Silent	SNP	T	TCGA-B0-4707-01A-01D-1361-10	73257253	99642574	35892173	51	3660											
COL17A1	1308	hgsc.bcm.edu;ucsc.edu	37	chr10	105792704	105792704	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atctctcctttttgcccaggGggtccttgaatggctccata	6	14	9	12	0	1	1	0	1	1	0	5	1	4	1	4	3	1	1	4	3	2	4	rs143826232	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	105792704	G	T	105792704	2	4	64	1	0	0	0	0	0	0	0	1	3674	1219	43	4		4	COL17A1	10	105792704	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	6150130	105792704	29742043	52	3661											
FAM160B1	57700	hgsc.bcm.edu	37	chr10	116602698	116602698	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattccttttcagaataagAtgaaatcattggcttccaaa	15	14	5	7	0	2	3	2	1	0	2	4	3	4	3	2	1	0	1	2	1	5	7	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	116602698	A	G	116602698	3	3	64	1	0	0	0	0	1	0	0	0	5470	333	12	3	551	3	FAM160B1	10	116602698	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	10809994	116602698	18932049	53	3662											
EIF3A	8661	hgsc.bcm.edu	37	chr10	120820287	120820287	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggcggaggatggtgttgtTttgcagttgtggcacatact	8	13	15	5	1	0	0	0	0	0	0	0	2	0	2	0	5	2	5	0	5	2	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	120820287	T	G	120820287	3	3	64	1	0	0	0	0	1	0	0	0	5012	1841	64	5	2907	5	EIF3A	10	120820287	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	4217589	120820287	14714460	54	3663											
DUSP8	1850	hgsc.bcm.edu	37	chr11	1579466	1579466	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggagttgctggcgttGaggacgtagcttattccatt	7	12	15	7	2	0	1	0	1	0	0	1	3	1	3	1	4	2	6	1	4	2	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	1579466	G	T	1579466	2	4	64	1	0	0	0	0	0	0	0	1	4831	1277	45	4		4	DUSP8	11	1579466	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10		1579466	133427050	55	3664											
RRM1	6240	hgsc.bcm.edu;ucsc.edu	37	chr11	4144587	4144587	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagcaacctgtgcacagaAatagtggagtacaccagcaa	15	6	10	10	0	0	1	0	0	0	1	0	2	0	2	2	1	6	5	2	1	5	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	4144587	A	C	4144587	3	2	64	1	0	0	0	0	1	0	0	0	13683	11	1	5	1339	5	RRM1	11	4144587	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	2565121	4144587	130861929	56	3665											
ARFIP2	23647	hgsc.bcm.edu;ucsc.edu	37	chr11	6500117	6500117	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcacgcagcaactcaaTctgcagctctagctccaggt	9	9	8	15	2	4	0	2	0	3	0	6	0	5	0	1	1	5	5	1	1	3	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	6500117	T	A	6500117	3	1	64	1	0	0	0	0	1	0	0	0	855	1435	50	5	653	5	ARFIP2	11	6500117	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	2355530	6500117	128506399	57	3666											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6554304	6554304	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattcttgcacacgtgcaaAatgagtgctggaacctcagt	12	10	9	10	1	2	1	1	1	1	0	2	2	2	2	1	1	4	3	1	1	3	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	6554304	A	C	6554304	3	2	64	1	0	0	0	0	1	0	0	0	4668	14	1	5	2446	5	DNHD1	11	6554304	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	54187	6554304	128452212	58	3667											
PITPNM1	9600	hgsc.bcm.edu	37	chr11	67269868	67269868	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatggagaatttctccaCgaaagggcaggtgtacctgg	11	10	12	8	1	2	1	1	0	1	1	3	3	2	1	2	4	1	2	2	4	4	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	67269868	C	G	67269868	3	3	64	1	0	0	0	0	1	0	0	0	11950	536	19	4	3508	4	PITPNM1	11	67269868	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	60715564	67269868	67736648	59	3668											
CCDC89	220388	hgsc.bcm.edu;ucsc.edu	37	chr11	85396614	85396614	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgtttctagctccccaGtgagggcctcacaccggact	7	9	10	15	2	3	1	2	1	1	0	4	2	4	2	4	2	2	2	4	2	1	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	85396614	G	C	85396614	3	2	64	1	0	0	0	0	1	0	0	0	2866	1029	36	4	568	4	CCDC89	11	85396614	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	18126746	85396614	49609902	60	3669											
FAM55D	0	hgsc.bcm.edu	37	chr11	114453112	114453112	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtgttgaggcctcacaCagtagaagccttcttggtct	8	12	11	10	0	3	2	1	1	2	1	3	2	3	2	2	2	1	3	2	2	2	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	114453112	C	G	114453112	3	3	64	1	0	0	0	0	1	0	0	0	5587	478	17	4	922	4	FAM55D	11	114453112	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	29056498	114453112	20553404	61	3670											
ACAD8	27034	hgsc.bcm.edu	37	chr11	134131674	134131674	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atatggcaacaaggctggtgGccgcgcggctgatggtccgc	7	7	16	11	4	0	1	0	1	0	0	1	1	1	1	2	6	1	3	2	6	3	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	134131674	G	A	134131674	3	1	64	1	0	0	0	0	1	0	0	0	110	1203	42	2	1016	2	ACAD8	11	134131674	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	19678562	134131674	874842	62	3671											
C1RL	51279	hgsc.bcm.edu	37	chr12	7261734	7261734	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggacagcctttggagtgagGgcttctccagagatatttcc	8	12	12	9	0	1	2	0	1	1	1	3	5	2	4	3	3	1	1	3	3	1	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	7261734	G	A	7261734	3	1	64	1	0	0	0	0	1	0	0	0	1973	1232	43	2	1444	2	C1RL	12	7261734	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10		7261734	126590161	63	3672											
TUBA1C	84790	hgsc.bcm.edu	37	chr12	49666182	49666182	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttctccatttacccggcGccccaggtttccacagctgt	6	11	9	15	2	1	0	0	0	1	0	3	1	2	0	5	2	2	3	5	2	1	4	rs17123575	byfrequency	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	49666182	G	A	49666182	2	1	64	1	0	0	0	0	0	0	0	1	16744	1074	38	1		1	TUBA1C	12	49666182	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	42404448	49666182	84185713	64	3673											
COPZ1	22818	hgsc.bcm.edu	37	chr12	54741560	54741560	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggactcaggaaaaatgtAgaaaagcgagcactgctgga	15	6	14	6	1	1	1	1	0	0	1	1	5	1	4	0	4	3	3	0	4	5	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	54741560	A	G	54741560	2	3	64	1	0	0	0	0	0	0	0	1	3741	407	15	3		3	COPZ1	12	54741560	Silent	SNP	A	TCGA-B0-4707-01A-01D-1361-10	5075378	54741560	79110335	65	3674											
LRIG3	121227	hgsc.bcm.edu;ucsc.edu	37	chr12	59280606	59280606	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacagtcgcctcagtttGtcaagcccagagaaagcacc	12	7	8	14	1	3	1	3	0	0	1	4	2	3	1	3	0	2	2	3	0	2	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	59280606	G	C	59280606	3	2	64	1	0	0	0	0	1	0	0	0	8946	1368	48	4	2245	4	LRIG3	12	59280606	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	4539046	59280606	74571289	66	3675											
FLT1	2321	hgsc.bcm.edu;ucsc.edu	37	chr13	28979950	28979950	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattattgccatgcgctgAgtgatgctctcaattctgtt	7	17	8	9	1	3	2	1	2	3	0	4	2	3	2	1	0	3	3	1	0	3	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	28979950	A	T	28979950	2	4	64	1	0	0	0	0	0	0	0	1	5941	291	11	5		5	FLT1	13	28979950	Silent	SNP	A	TCGA-B0-4707-01A-01D-1361-10		28979950	86189928	67	3676											
MTUS2	23281	hgsc.bcm.edu;ucsc.edu	37	chr13	29600572	29600572	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctactgatagtgcacgCttgttgaacacgtcccccaa	9	9	7	16	2	0	2	0	2	0	0	1	2	1	2	4	0	3	3	4	0	4	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	29600572	C	G	29600572	2	3	64	1	0	0	0	0	0	0	0	1	9966	784	28	4		4	MTUS2	13	29600572	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10	620622	29600572	85569306	68	3677											
TNFSF11	8600	hgsc.bcm.edu;ucsc.edu	37	chr13	43155267	43155267	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcctcctcagatggaTcctaatagaatatcagaaga	13	12	7	9	0	3	4	2	0	1	4	6	5	5	5	3	1	0	1	3	1	5	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	43155267	T	C	43155267	2	2	64	1	0	0	0	0	0	0	0	1	16301	1432	50	3		3	TNFSF11	13	43155267	Silent	SNP	T	TCGA-B0-4707-01A-01D-1361-10	13554695	43155267	72014611	69	3678											
HECTD1	25831	hgsc.bcm.edu	37	chr14	31626470	31626470	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaacagtgcttcagagcaAaaatgaatcatttttcgaat	15	14	6	6	1	2	2	2	1	0	1	3	3	2	2	0	0	3	2	0	0	5	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	31626470	A	G	31626470	2	3	64	1	0	0	0	0	0	0	0	1	7039	11	1	3		3	HECTD1	14	31626470	Silent	SNP	A	TCGA-B0-4707-01A-01D-1361-10		31626470	75723070	70	3679											
SPTBN5	51332	hgsc.bcm.edu	37	chr15	42165753	42165753	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatagtcccgactgctcacCagcggccgcttctcctccac	6	8	7	20	3	2	0	1	0	1	0	5	1	4	0	6	1	2	2	6	1	1	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	42165753	C	G	42165753	2	3	64	1	0	0	0	0	0	0	0	1	15123	581	21	4		4	SPTBN5	15	42165753	Silent	SNP	C	TCGA-B0-4707-01A-01D-1361-10		42165753	60365639	71	3680											
MAP2K5	5607	hgsc.bcm.edu	37	chr15	68099075	68099075	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagaggcggagccagcAggggcccccgtgaggctgcc	7	2	20	12	2	0	2	0	1	0	1	0	5	0	4	4	7	3	2	4	7	0	0	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	68099075	A	G	68099075	3	3	64	1	0	0	0	0	1	0	0	0	9240	188	7	3	1420	3	MAP2K5	15	68099075	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	25933322	68099075	34432317	72	3681											
KIAA1199	57214	hgsc.bcm.edu;ucsc.edu	37	chr15	81173292	81173292	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatggtctgaagtacattggGgttggtaaaggaggcgctct	9	12	15	5	1	2	1	0	1	2	0	2	2	2	2	0	6	1	4	0	6	5	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	81173292	G	A	81173292	2	1	64	1	0	0	0	0	0	0	0	1	8213	1219	43	2		2	KIAA1199	15	81173292	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	13074217	81173292	21358100	73	3682											
BNC1	646	hgsc.bcm.edu;ucsc.edu	37	chr15	83932843	83932843	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttacacccttcgatggtgCacttatgcttgatcttcaag	8	15	8	10	1	2	1	1	1	1	0	3	2	2	1	1	1	3	3	1	1	3	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	83932843	C	T	83932843	3	4	64	1	0	0	0	0	1	0	0	0	1474	710	25	2	1832	2	BNC1	15	83932843	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	2759551	83932843	18598549	74	3683											
NTRK3	4916	hgsc.bcm.edu;ucsc.edu	37	chr15	88476290	88476290	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtattcaaagaccatGatgagggggtccccatcgcc	10	10	10	11	1	2	3	2	2	0	1	4	3	3	3	4	2	0	1	4	2	2	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	88476290	G	T	88476290	2	4	64	1	0	0	0	0	0	0	0	1	10708	1280	45	4		4	NTRK3	15	88476290	Silent	SNP	G	TCGA-B0-4707-01A-01D-1361-10	4543447	88476290	14055102	75	3684											
HMOX2	3163	hgsc.bcm.edu;ucsc.edu	37	chr16	4558089	4558089	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtttgagaatgtggacAatgcccagcagttcaagcag	12	9	11	9	0	1	1	1	1	0	1	1	3	1	2	2	1	3	4	2	1	3	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	4558089	A	T	4558089	3	4	64	1	0	0	0	0	1	0	0	0	7244	130	5	5	590	5	HMOX2	16	4558089	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10		4558089	85796664	76	3685											
BFAR	51283	hgsc.bcm.edu;ucsc.edu	37	chr16	14758726	14758726	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctgtgtgttattttttaagGatcttaaggagcctacgtgg	8	17	11	5	1	2	0	0	0	2	0	2	2	2	2	1	3	2	1	1	3	4	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	14758726	G	A	14758726	3	1	64	1	0	0	0	0	1	0	0	0	1414	1188	41	2	980	2	BFAR	16	14758726	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	10200637	14758726	75596027	77	3686											
ZNF423	23090	hgsc.bcm.edu	37	chr16	49670845	49670845	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcattgctgtgcttcaccgCcaggtgcacctggatggaca	7	10	11	13	1	2	0	2	0	0	0	2	2	2	2	3	3	3	3	3	3	0	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	49670845	C	A	49670845	3	1	64	1	0	0	0	0	1	0	0	0	17897	739	26	4	1656	4	ZNF423	16	49670845	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	34912119	49670845	40683908	78	3687											
NFAT5	10725	hgsc.bcm.edu	37	chr16	69726498	69726498	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcaacagagtatctgcCaggcagctgcccagattcag	12	7	11	11	0	2	3	1	0	1	3	2	3	2	3	2	1	5	4	2	1	2	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	69726498	C	G	69726498	3	3	64	1	0	0	0	0	1	0	0	0	10360	595	21	4	2820	4	NFAT5	16	69726498	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	20055653	69726498	20628255	79	3688											
YWHAE	7531	hgsc.bcm.edu;ucsc.edu	37	chr17	1248776	1248776	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttccacgtcctgcagcgcttCtttattctgctcttcacctg	4	16	6	15	2	4	0	1	0	3	0	6	0	6	0	3	0	3	3	3	0	1	6	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	1248776	C	G	1248776	3	3	64	1	0	0	0	0	1	0	0	0	17501	922	32	4	38	4	YWHAE	17	1248776	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10		1248776	79946434	80	3689											
TAF15	8148	hgsc.bcm.edu;ucsc.edu	37	chr17	34171159	34171159	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggattgggtttgccctaAtccgtaagtgtcttgtttac	6	16	12	7	1	1	0	0	0	1	0	2	1	2	1	2	3	2	3	2	3	3	7	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	34171159	A	C	34171159	3	2	64	1	0	0	0	0	1	0	0	0	15517	101	4	5	1135	5	TAF15	17	34171159	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	32922383	34171159	47024051	81	3690											
STAC2	342667	hgsc.bcm.edu	37	chr17	37369807	37369807	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagcatgatccgatctcCaggcctggggaggacagagc	10	5	13	13	1	1	2	0	1	1	1	3	5	2	4	4	4	2	1	4	4	0	0	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	37369807	C	T	37369807	3	4	64	1	0	0	0	0	1	0	0	0	15241	603	21	2	301	2	STAC2	17	37369807	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	3198648	37369807	43825403	82	3691											
KRT26	353288	hgsc.bcm.edu;ucsc.edu	37	chr17	38925284	38925284	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacccctatctgatcctgaAtttgctggagttgattgcag	8	14	9	10	0	2	3	1	3	1	0	3	4	3	4	3	1	2	3	3	1	2	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	38925284	A	G	38925284	3	3	64	1	0	0	0	0	1	0	0	0	8463	101	4	3	384	3	KRT26	17	38925284	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	1555477	38925284	42269926	83	3692											
ABCC3	8714	hgsc.bcm.edu	37	chr17	48741136	48741136	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctccatgatgcagtcgCtgatcttacaacactattac	10	13	7	11	1	1	2	0	2	1	0	3	2	2	2	1	0	5	3	1	0	4	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	48741136	C	G	48741136	3	3	64	1	0	0	0	0	1	0	0	0	54	796	28	4	1127	4	ABCC3	17	48741136	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	9815852	48741136	32454074	84	3693											
JMJD6	23210	hgsc.bcm.edu;ucsc.edu	37	chr17	74717895	74717895	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcacctataccatttccttGataactttggtctccctctt	7	17	3	14	0	3	1	1	1	2	0	5	1	4	1	4	1	2	0	4	1	3	7	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	74717895	G	C	74717895	4	2	64	1	0	0	0	0	0	1	0	0	7953	1294	45	4	338	4	JMJD6	17	74717895	Nonsense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	25976759	74717895	6477315	85	3694											
TSHZ3	57616	hgsc.bcm.edu;ucsc.edu	37	chr19	31770448	31770448	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctttcaaagtcagccattCggtcactggtctcactgatg	8	12	9	12	2	4	1	4	1	1	0	6	1	4	1	1	2	1	1	1	2	1	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	31770448	C	A	31770448	3	1	64	1	0	0	0	0	1	0	0	0	16624	884	31	4	2998	4	TSHZ3	19	31770448	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10		31770448	27358535	86	3695											
PLEKHG2	64857	hgsc.bcm.edu	37	chr19	39911720	39911720	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgtcctccccgcagagccgGtgaaggacccttatgtcatg	7	9	12	13	2	1	2	1	1	0	1	3	3	3	3	5	2	1	1	5	2	2	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	39911720	G	A	39911720	3	1	64	1	0	0	0	0	1	0	0	0	12069	1261	44	2	1507	2	PLEKHG2	19	39911720	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	8141272	39911720	19217263	87	3696											
CIC	23152	hgsc.bcm.edu;ucsc.edu	37	chr19	42791498	42791498	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatcatgtctcctgagaTccagttgcctctaccgcccg	6	11	7	17	2	3	1	1	1	2	1	6	2	5	1	6	0	2	1	6	0	1	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	42791498	T	A	42791498	3	1	64	1	0	0	0	0	1	0	0	0	3424	1435	50	5	493	5	CIC	19	42791498	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	2879778	42791498	16337485	88	3697											
PSG4	5672	hgsc.bcm.edu;ucsc.edu	37	chr19	43699379	43699379	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaagacatccttattctcTctggggtttaagttgttgat	8	18	9	6	0	2	2	0	1	2	1	4	2	3	2	1	2	0	4	1	2	3	7	rs3928381	by1000genomes	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	43699379	T	C	43699379	2	2	64	1	0	0	0	0	0	0	0	1	12659	1548	54	3		3	PSG4	19	43699379	Silent	SNP	T	TCGA-B0-4707-01A-01D-1361-10	907881	43699379	15429604	89	3698											
CCDC155	147872	hgsc.bcm.edu	37	chr19	49913125	49913125	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccatctgaagccccagctgGgggacaggtgagcacaggaa	11	5	14	11	0	1	2	0	2	1	0	2	4	2	4	3	4	3	2	3	4	2	0	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	49913125	G	T	49913125	3	4	64	1	0	0	0	0	1	0	0	0	2788	1232	43	4	1316	4	CCDC155	19	49913125	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	6213746	49913125	9215858	90	3699											
LENG8	114823	hgsc.bcm.edu	37	chr19	54969354	54969354	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagaacttgcctggcaatGtgggcgagtttactgcctac	8	10	12	11	2	0	1	0	0	0	1	0	3	0	1	3	2	5	2	3	2	4	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	54969354	G	A	54969354	3	1	64	1	0	0	0	0	1	0	0	0	8724	1377	48	2	2025	2	LENG8	19	54969354	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	5056229	54969354	4159629	91	3700											
CENPB	1059	hgsc.bcm.edu	37	chr20	3765902	3765902	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcttcttcctcctccTcctcctcttcctctccctca	1	16	0	24	0	5	0	1	0	4	0	13	0	12	0	9	0	0	0	9	0	0	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	3765902	T	A	3765902	3	1	64	1	0	0	0	0	1	0	0	0	3227	1551	54	5	574	5	CENPB	20	3765902	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10		3765902	59259618	92	3701											
BMP2	650	hgsc.bcm.edu	37	chr20	6758921	6758921	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaactaccagaaacgagtGggaaaacaacccggagattc	18	4	10	9	2	0	3	0	0	0	3	1	6	0	4	2	2	5	0	2	2	7	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	6758921	G	A	6758921	3	1	64	1	0	0	0	0	1	0	0	0	1459	1348	47	2	382	2	BMP2	20	6758921	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	2993019	6758921	56266599	93	3702											
POTED	317754	hgsc.bcm.edu;ucsc.edu	37	chr21	15013721	15013721	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgaaaacagcgtgttgcAggaagaaattgccatgctaa	14	8	12	7	2	0	2	0	1	0	1	0	3	0	3	1	1	5	3	1	1	5	3	rs2334582		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		G	15013721	A	G	15013721	3	3	64	1	0	0	0	0	1	0	0	0	12263	188	7	3	1631	3	POTED	21	15013721	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10		15013721	33116174	94	3703											
GGTLC2	91227	hgsc.bcm.edu	37	chr22	22989281	22989281	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcaatgatgaaatggaTgacttcagctctcccaacat	12	12	7	10	0	3	3	2	3	1	0	4	4	3	4	1	1	2	2	1	1	3	2	rs3966363	bycluster;byfrequency;by1000genomes	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	22989281	T	C	22989281	2	2	64	1	0	0	0	0	0	0	0	1	6366	1461	51	3		3	GGTLC2	22	22989281	Silent	SNP	T	TCGA-B0-4707-01A-01D-1361-10		22989281	28315285	95	3704											
BAIAP2L2	80115	hgsc.bcm.edu	37	chr22	38483174	38483174	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatgggtgtcatgggggAcatggaggtcatggaggtca	8	10	18	5	0	4	0	4	0	0	0	4	3	4	3	0	7	0	1	0	7	0	1	rs78489217	byfrequency;by1000genomes	TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	38483174	A	T	38483174	3	4	64	1	0	0	0	0	1	0	0	0	1303	275	10	5	389	5	BAIAP2L2	22	38483174	Missense_Mutation	SNP	A	TCGA-B0-4707-01A-01D-1361-10	15493893	38483174	12821392	96	3705											
APOBEC3D	140564	hgsc.bcm.edu;ucsc.edu	37	chr22	39421350	39421350	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgaagatcatggactaTgaaggtgagaggtgcagggg	11	8	18	4	1	1	4	1	3	0	2	1	6	1	5	0	5	1	1	0	5	3	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	39421350	T	C	39421350	2	2	64	1	0	0	0	0	0	0	0	1	792	1471	51	3		3	APOBEC3D	22	39421350	Silent	SNP	T	TCGA-B0-4707-01A-01D-1361-10	938176	39421350	11883216	97	3706											
BEND2	139105	hgsc.bcm.edu	37	chrX	18234663	18234663	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatgacatttggagtggacgGtgatggccatcattgccgcc	8	11	13	9	2	1	2	1	2	0	0	1	4	1	4	3	4	1	0	3	4	1	3	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	18234663	G	T	18234663	3	4	64	1	0	0	0	0	1	0	0	0	1398	1252	44	4	2261	4	BEND2	23	18234663	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10		18234663	137035897	98	3707											
FAM47C	442444	hgsc.bcm.edu	37	chrX	37027645	37027645	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacctcccaagactcgcgtaCctcctctccgcccagagacc	9	6	6	20	3	1	2	0	0	1	2	5	3	3	2	7	0	2	1	7	0	3	1	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	37027645	C	T	37027645	3	4	64	1	0	0	0	0	1	0	0	0	5571	507	18	2	1164	2	FAM47C	23	37027645	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	18792982	37027645	118242915	99	3708											
SRPX	8406	hgsc.bcm.edu;ucsc.edu	37	chrX	38024095	38024095	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggactgtcagtttgttggGttctgcaatgcgttccttca	5	15	11	10	2	3	0	2	0	1	0	4	1	4	1	2	2	2	5	2	2	1	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	38024095	G	C	38024095	3	2	64	1	0	0	0	0	1	0	0	0	15165	1261	44	4	838	4	SRPX	23	38024095	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	996450	38024095	117246465	100	3709											
FAM123B	0	hgsc.bcm.edu	37	chrX	63411177	63411177	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccctgctgccaggcccaTcactgatgggcctaagggcc	7	7	11	16	0	1	1	1	1	0	0	1	1	1	1	6	3	3	1	6	3	2	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	63411177	T	A	63411177	3	1	64	1	0	0	0	0	1	0	0	0	5423	1435	50	5	1421	5	FAM123B	23	63411177	Missense_Mutation	SNP	T	TCGA-B0-4707-01A-01D-1361-10	25387082	63411177	91859383	101	3710											
ZNF711	7552	hgsc.bcm.edu	37	chrX	84526414	84526414	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattttcctcacaaatgtgaGgtctgtgataaaggttttca	11	15	9	6	0	3	2	2	2	1	0	4	3	4	2	1	2	0	1	1	2	3	5	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		C	84526414	G	C	84526414	3	2	64	1	0	0	0	0	1	0	0	0	18115	991	35	4	1892	4	ZNF711	23	84526414	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	21115237	84526414	70744146	102	3711											
PCDH11X	27328	hgsc.bcm.edu;ucsc.edu	37	chrX	91133589	91133589	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaatgctacactgattaatGaactggtgcgcaaaagcact	14	9	8	10	1	0	2	0	2	0	0	0	2	0	2	1	1	5	3	1	1	6	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	91133589	G	A	91133589	3	1	64	1	0	0	0	0	1	0	0	0	11508	1291	45	2	2356	2	PCDH11X	23	91133589	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	6607175	91133589	64136971	103	3712											
COL4A5	1287	hgsc.bcm.edu	37	chrX	107865065	107865065	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaatgggtatgatgggacctCcaggcccaccaggacctttg	10	8	12	11	0	0	1	0	1	0	0	1	3	1	3	5	4	0	1	5	4	2	2	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		T	107865065	C	T	107865065	3	4	64	1	0	0	0	0	1	0	0	0	3694	855	30	2	2836	2	COL4A5	23	107865065	Missense_Mutation	SNP	C	TCGA-B0-4707-01A-01D-1361-10	16731476	107865065	47405495	104	3713											
FMR1NB	158521	hgsc.bcm.edu;ucsc.edu	37	chrX	147088324	147088324	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgctgtttttcatcatcggGgaccacgagcttcaaatgtt	9	14	9	9	2	3	0	3	0	0	0	4	2	3	1	1	2	2	4	1	2	1	4	novel		TCGA-B0-4707-01A-01D-1361-10	TCGA-B0-4707-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	35aae57d-66e3-41e2-903c-1d690b589281	7304b89e-62e6-49ef-bcfb-385bae77ff52		A	147088324	G	A	147088324	3	1	64	1	0	0	0	0	1	0	0	0	5961	1232	43	2	510	2	FMR1NB	23	147088324	Missense_Mutation	SNP	G	TCGA-B0-4707-01A-01D-1361-10	39223259	147088324	8182236	105	3714											
CDKN2A	1029	hgsc.bcm.edu	37	chr9	21971000	21971000	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacatcgcgatggcccagctCctcagccaggtccacgggca	8	5	12	16	3	1	0	1	0	0	0	4	2	3	0	4	3	2	2	4	3	0	0	novel		TCGA-B0-4707-01A-01W-1359-10	TCGA-B0-4707-11A-01W-1359-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	f63a8eac-4ea2-46a4-821d-89432eda8a8e	dec40479-9b0c-4c4c-8c39-5379b44e4fb7		A	21971000	C	A	21971000	4	1	65	1	0	0	0	0	0	1	0	0	3161	864	30	4	120	4	CDKN2A	9	21971000	Nonsense_Mutation	SNP	C	TCGA-B0-4707-01A-01W-1359-10		21971000	119242431	1	3715											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10318553	10318553	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttttactctttacagccCgaagatccctgttttgcatc	7	16	5	13	1	1	1	0	0	1	1	4	2	3	1	3	0	4	2	3	0	3	6	rs141998703	bycluster;byfrequency;by1000genomes	TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	10318553	C	T	10318553	2	4	66	1	0	0	0	0	0	0	0	1	8284	639	23	1		1	KIF1B	1	10318553	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10		10318553	238932068	1	3716											
HECTD3	79654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45471468	45471468	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttccaggtcctactcaccaGcacagagtccacagctggga	10	7	10	14	0	1	1	1	0	0	1	4	2	4	2	4	2	3	3	4	2	1	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	45471468	G	T	45471468	3	4	66	1	0	0	0	0	1	0	0	0	7041	962	34	4	680	4	HECTD3	1	45471468	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	35152915	45471468	203779153	2	3717											
ZYG11B	79699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53245564	53245564	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcagattgcagaagcaCtgaagcgttacagtgaacgg	15	7	11	8	2	1	4	1	2	0	2	1	4	1	4	0	1	6	3	0	1	5	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	53245564	C	A	53245564	3	1	66	1	0	0	0	0	1	0	0	0	18252	564	20	4	1005	4	ZYG11B	1	53245564	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	7774096	53245564	196005057	3	3718											
POGZ	23126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151400320	151400320	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcattgaagactcaggtcCgctggttctttgagagccat	8	14	10	9	1	3	3	2	2	1	2	4	4	4	3	2	2	1	2	2	2	1	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	151400320	C	T	151400320	3	4	66	1	0	0	0	0	1	0	0	0	12186	661	23	1	3241	1	POGZ	1	151400320	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	98154756	151400320	97850301	4	3719											
YY1AP1	55249	broad.mit.edu	37	chr1	155642422	155642422	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtcttcaatcagctgcAtagctcccatcaagttacag	12	11	7	11	0	4	1	3	1	1	0	5	1	5	1	1	0	4	4	1	0	5	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	155642422	G	G	155642422	3	3	66	1	0	0	0	0	1	0	0	0	17507	217	8	3	1760	3	YY1AP1	1	155642422	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	4242102	155642422	93608199	5	3720											
TTC24	164118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156552877	156552877	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagggccggagctttggcagCctggcctttgcattgagcca	6	9	14	12	1	0	1	0	1	0	0	0	2	0	2	4	4	4	3	4	4	0	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	156552877	C	T	156552877	2	4	66	1	0	0	0	0	0	0	0	1	16691	738	26	2		2	TTC24	1	156552877	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10	910455	156552877	92697744	6	3721											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	216219777	216219777	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctagaggtcttacctgtGactatgtagttctcctcact	8	15	7	11	0	4	2	1	1	3	1	5	2	4	2	2	1	1	2	2	1	4	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	216219777	G	T	216219777	2	4	66	1	0	0	0	0	0	0	0	1	17035	1277	45	4		4	USH2A	1	216219777	Silent	SNP	G	TCGA-B0-4710-01A-01D-1501-10	59666900	216219777	33030844	7	3722											
FMN2	56776	broad.mit.edu	37	chr1	240370978	240370978	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggagcggcaataccccctCcgccccctcttcccggggca	5	5	10	21	4	1	0	0	0	1	0	3	1	3	1	7	4	2	2	7	4	2	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	240370978	A	A	240370978	3	1	66	1	0	0	0	0	1	0	0	0	5950	855	30	4	2884	4	FMN2	1	240370978	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	24151201	240370978	8879643	8	3723											
MYT1L	23040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1927018	1927018	+	Frame_Shift_Del	DEL	A	A	-																															cattattcgagtattgtgacAattcatttgatggtcttctg																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	1927018	A	-	1927018	7	5	66	1	0	1	0	1	0	0	0	0	10107	130	5	0	3095	0	MYT1L	2	1927018	Frame_Shift_Del	DEL	A	TCGA-B0-4710-01A-01D-1501-10		1927018	241272355	9	3724											
MGAT4A	11320	broad.mit.edu;ucsc.edu	37	chr2	99272830	99272830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctcaccttactctttctttgGagtctccaaatgtctccttt	6	18	4	13	0	5	0	1	0	4	0	7	1	5	1	3	1	1	0	3	1	2	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	99272830	A	A	99272830	3	1	66	1	0	0	0	0	1	0	0	0	9545	1174	41	2	1043	2	MGAT4A	2	99272830	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	97345812	99272830	143926543	10	3725											
NPHP1	4867	hgsc.bcm.edu;ucsc.edu	37	chr2	110922107	110922107	+	Frame_Shift_Del	DEL	G	G	-																															gaaatgttacttggagcacaGgcttagaaaccagaaatata																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	110922107	G	-	110922107	7	5	66	1	0	1	0	1	0	0	0	0	10579	1000	35	0	1324	0	NPHP1	2	110922107	Frame_Shift_Del	DEL	G	TCGA-B0-4710-01A-01D-1501-10	11649277	110922107	132277266	11	3726											
IL1F9	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	113736198	113736198	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgtctgctttcacaggTgctgagacaaccacactatg	10	12	8	11	0	3	1	1	1	2	1	3	2	3	1	1	1	3	2	1	1	3	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	113736198	T	A	113736198	5	1	66	1	0	0	0	0	0	0	1	0	7657	1710	59	5		5	IL1F9	2	113736198	Splice_Site	SNP	T	TCGA-B0-4710-01A-01D-1501-10	2814091	113736198	129463175	12	3727											
ACVR1C	130399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158412667	158412667	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagagtttttccagcatttAccagattgcactcagagagt	11	13	8	9	0	2	3	2	0	0	3	3	4	3	3	2	0	3	3	2	0	1	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	158412667	A	G	158412667	3	3	66	1	0	0	0	0	1	0	0	0	222	391	14	3	1027	3	ACVR1C	2	158412667	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	44676469	158412667	84786706	13	3728											
SCN9A	6335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	167055543	167055543	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactttggaaggatttgcaGacatgaacctttcttccatc	11	13	7	10	0	1	2	0	1	1	1	3	4	2	4	2	2	2	1	2	2	2	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	G	T	G	G	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	167055543	G	T	167055543	3	4	66	1	0	0	0	0	1	0	0	0	13927	942	33	4	364	4	SCN9A	2	167055543	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	8642876	167055543	76143830	14	3729											
TRIP12	9320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	230675664	230675665	+	Frame_Shift_Ins	INS	-	-	T																															agaaaacatgcgaaccaccaINSttataaacatcccagaactt																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	230675665	-	T	230675664	7	5	66	1	0	1	1	0	0	0	0	0	16555	217	8	0	4081	0	TRIP12	2	230675664	Frame_Shift_Ins	INS	-	TCGA-B0-4710-01A-01D-1501-10	63620121	230675664	12523709	15	3730											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47143045	47143045	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgtccgttcacagtccActgagatgatgtttgaaaac	11	12	9	9	1	1	3	1	3	0	1	3	4	3	3	2	0	1	3	2	0	2	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	47143045	A	T	47143045	3	4	66	1	0	0	0	0	1	0	0	0	14133	173	6	5	2832	5	SETD2	3	47143045	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10		47143045	150879385	16	3731											
KBTBD8	84541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	67049417	67049417	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctcctagatttaagtaagtCttccccaacaccgaatggga	12	10	7	12	1	1	1	0	0	1	1	3	3	3	2	5	1	1	1	5	1	5	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	67049417	C	G	67049417	3	3	66	1	0	0	0	0	1	0	0	0	7999	913	32	4	35	4	KBTBD8	3	67049417	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	19906372	67049417	130973013	17	3732			1	4		3	3	174	C		1.095109e-07
KBTBD8	84541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	67049444	67049444	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacaccgaatgggattccatCttcagacccagccagcgatg	12	7	9	13	2	2	1	1	0	1	1	3	4	3	2	4	1	3	0	4	1	2	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	67049444	C	G	67049444	3	3	66	1	0	0	0	0	1	0	0	0	7999	913	32	4	62	4	KBTBD8	3	67049444	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	27	67049444	130972986	18	3733			1	4		3	3	174	C		1.095109e-07
KBTBD8	84541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	67049590	67049590	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcctgtcatagaaacgttCttgctgcaatcagcccttac	9	14	6	12	1	3	1	2	0	1	1	4	1	4	1	2	0	5	3	2	0	4	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	67049590	C	G	67049590	3	3	66	1	0	0	0	0	1	0	0	0	7999	913	32	4	208	4	KBTBD8	3	67049590	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	146	67049590	130972840	19	3734			1	4		3	3	174	C		1.095109e-07
GPR27	2850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	71804019	71804019	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgccgcctcctcgtgctGgaagaattcaagacggagaa	10	6	13	12	5	1	3	1	0	0	3	3	5	2	4	3	2	1	1	3	2	4	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	71804019	G	T	71804019	2	4	66	1	0	0	0	0	0	0	0	1	6685	1335	47	4		4	GPR27	3	71804019	Silent	SNP	G	TCGA-B0-4710-01A-01D-1501-10	4754429	71804019	126218411	20	3735											
CHRD	8646	broad.mit.edu	37	chr3	184100196	184100196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgtggggtgtggcgggCagtgcctcggttgtctctgc	1	12	19	9	2	2	0	0	0	2	0	4	0	2	0	1	6	2	2	1	6	0	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	184100196	T	T	184100196	3	4	66	1	0	0	0	0	1	0	0	0	3372	710	25	2	745	2	CHRD	3	184100196	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	112296177	184100196	13922234	21	3736											
METAP1	23173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99955422	99955422	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtgtcttcctggactgtgGaaggtgatattaatactgac	11	13	11	6	0	1	2	0	2	1	0	2	4	2	4	1	3	1	0	1	3	5	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	99955422	G	T	99955422	4	4	66	1	0	0	0	0	0	1	0	0	9486	1175	41	4	218	4	METAP1	4	99955422	Nonsense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10		99955422	91198854	22	3737											
PRLR	5618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	35084671	35084671	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcctccacatggaggtgtActgcttgccaaagtggcagg	8	10	13	10	0	0	0	0	0	0	0	2	1	2	1	3	4	3	3	3	4	2	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	35084671	A	G	35084671	3	3	66	1	0	0	0	0	1	0	0	0	12533	391	14	3	1618	3	PRLR	5	35084671	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10		35084671	145830589	23	3738											
ARL15	54622	hgsc.bcm.edu;ucsc.edu	37	chr5	53409047	53409047	+	Frame_Shift_Del	DEL	A	A	-																															catacctcttgtactgagcgAgctgctggcttgtcttgatg																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	53409047	A	-	53409047	7	5	66	1	0	1	0	1	0	0	0	0	931	291	11	0	175	0	ARL15	5	53409047	Frame_Shift_Del	DEL	A	TCGA-B0-4710-01A-01D-1501-10	18324376	53409047	127506213	24	3739	43	2									
ARL15	54622	hgsc.bcm.edu;ucsc.edu	37	chr5	53409049	53409049	+	Frame_Shift_Del	DEL	C	C	-																															tacctcttgtactgagcgagCtgctggcttgtcttgatgat																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	53409049	C	-	53409049	7	5	66	1	0	1	0	1	0	0	0	0	931	797	28	0	177	0	ARL15	5	53409049	Frame_Shift_Del	DEL	C	TCGA-B0-4710-01A-01D-1501-10	2	53409049	127506211	25	3740	43	2									
MBLAC2	153364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89757120	89757120	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaaagcctttcagcaccaAaggtattgaagtgcccagga	15	7	10	9	0	1	1	1	1	0	0	1	3	1	2	3	2	3	2	3	2	5	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	89757120	A	C	89757120	3	2	66	1	0	0	0	0	1	0	0	0	9352	14	1	5	139	5	MBLAC2	5	89757120	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	36348071	89757120	91158140	26	3741											
C5orf13	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	111310973	111310973	+	Frame_Shift_Del	DEL	A	A	-																															gatagcagtttgtcttacacAattcagaacagaaatctggc																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	111310973	A	-	111310973	7	5	66	1	0	1	0	1	0	0	0	0	2282	130	5	0	224	0	C5orf13	5	111310973	Frame_Shift_Del	DEL	A	TCGA-B0-4710-01A-01D-1501-10	21553853	111310973	69604287	27	3742											
TCP11	6954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35087006	35087006	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccacaagcatactcaccAataacactgcagacacagtt	16	6	4	15	0	1	1	1	0	0	1	1	1	1	1	3	0	4	3	3	0	4	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	35087006	A	T	35087006	2	4	66	1	0	0	0	0	0	0	0	1	15712	144	5	5		5	TCP11	6	35087006	Silent	SNP	A	TCGA-B0-4710-01A-01D-1501-10		35087006	136028061	28	3743											
GSTA3	2940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	52764813	52764813	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttttcctcaggtcgacaTaagggcagaagaaggatcat	12	11	10	8	1	3	2	2	0	1	2	5	4	4	3	1	3	0	1	1	3	3	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	52764813	T	C	52764813	2	2	66	1	0	0	0	0	0	0	0	1	6832	1403	49	3		3	GSTA3	6	52764813	Silent	SNP	T	TCGA-B0-4710-01A-01D-1501-10	17677807	52764813	118350254	29	3744											
C7orf10	79783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	40900017	40900017	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaggtcctgagatacgAtgacagggccatcggggagc	11	5	17	8	2	0	2	0	2	0	1	2	7	1	4	2	5	2	0	2	5	2	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	40900017	A	G	40900017	3	3	66	1	0	0	0	0	1	0	0	0	2376	333	12	3	1302	3	C7orf10	7	40900017	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10		40900017	118238646	30	3745											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48315960	48315961	+	Frame_Shift_Ins	INS	-	-	A																															cttaaatgatactgaccttcINSaaataatgaatttcattaac																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	48315961	-	A	48315960	7	5	66	1	0	1	1	0	0	0	0	0	31	827	29	0	6592	0	ABCA13	7	48315960	Frame_Shift_Ins	INS	-	TCGA-B0-4710-01A-01D-1501-10	7415943	48315960	110822703	31	3746											
UPK3B	80761	broad.mit.edu;hgsc.bcm.edu	37	chr7	76140064	76140064	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgagcctgggtgagtgggGgtcctggatggacgcgtcca	5	8	18	10	2	0	2	0	2	0	0	2	4	2	4	4	5	1	0	4	5	0	0	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	76140064	G	T	76140064	3	4	66	1	0	0	0	0	1	0	0	0	17010	1232	43	4	97	4	UPK3B	7	76140064	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	27824104	76140064	82998599	32	3747											
PEX1	5189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92136429	92136429	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccaaggaggatacgcctaagGaattcactcctctgtaaaaa	15	8	8	10	1	2	0	1	0	1	0	3	3	3	3	3	3	1	1	3	3	7	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	92136429	G	C	92136429	3	2	66	1	0	0	0	0	1	0	0	0	11735	1174	41	4	2229	4	PEX1	7	92136429	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	15996365	92136429	67002234	33	3748											
FAM200A	221786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99144587	99144587	+	Missense_Mutation	SNP	A	A	C																															attctttagtgtgaatgatgAactgagctgcaataattcat																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	99144587	A	C	99144587	3	2	66	1	0	0	0	0	1	0	0	0	5536	246	9	5	281	5	FAM200A	7	99144587	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	7008158	99144587	59994076	34	3749	44	2									
FAM200A	221786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99144589	99144589	+	Missense_Mutation	SNP	C	C	T																															tctttagtgtgaatgatgaaCtgagctgcaataattcattc																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	99144589	C	T	99144589	3	4	66	1	0	0	0	0	1	0	0	0	5536	565	20	2	283	2	FAM200A	7	99144589	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	2	99144589	59994074	35	3750	44	2									
C7orf49	78996	broad.mit.edu;ucsc.edu	37	chr7	134853617	134853617	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacattctttgtagccacctGggctgtcagccatgagggaa	9	10	11	11	0	2	1	1	1	1	0	2	2	2	2	3	2	2	2	3	2	2	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	134853617	T	T	134853617	3	4	66	1	0	0	0	0	1	0	0	0	2398	1357	47	4	427	4	C7orf49	7	134853617	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	35709028	134853617	24285046	36	3751											
TRIM24	8805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138265317	138265317	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctaacagtggagagtggAtttgcactttctgccgagac	9	10	11	11	1	1	2	0	0	1	2	1	5	1	3	3	2	3	1	3	2	1	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	138265317	A	C	138265317	3	2	66	1	0	0	0	0	1	0	0	0	16497	333	12	5	2658	5	TRIM24	7	138265317	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	3411700	138265317	20873346	37	3752											
PRSS3	5646	hgsc.bcm.edu	37	chr9	33799094	33799094	+	Frame_Shift_Del	DEL	T	T	-																															gtctcctggggccatggctgTgcctggaagaacaggcctgg																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	33799094	T	-	33799094	7	5	66	1	0	1	0	1	0	0	0	0	12624	1702	59	0	893	0	PRSS3	9	33799094	Frame_Shift_Del	DEL	T	TCGA-B0-4710-01A-01D-1501-10		33799094	107414337	38	3753											
FAM120A	23196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	96318810	96318810	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tattttgatgggaagctcttCcaatccaaactcctcaaagc	12	12	6	11	0	2	1	1	1	1	0	5	2	5	2	3	1	3	1	3	1	5	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	96318810	C	G	96318810	3	3	66	1	0	0	0	0	1	0	0	0	5415	854	30	4	2471	4	FAM120A	9	96318810	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	62519716	96318810	44894621	39	3754											
KIAA0368	23392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114159361	114159361	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgccaggcatctcgggcagCcacagaactagttcctattg	9	10	10	12	1	1	1	0	0	1	1	3	1	2	1	3	2	3	3	3	2	3	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	114159361	C	A	114159361	3	1	66	1	0	0	0	0	1	0	0	0	8171	739	26	4	2898	4	KIAA0368	9	114159361	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	17840551	114159361	27054070	40	3755											
NR6A1	2649	hgsc.bcm.edu;ucsc.edu	37	chr9	127298262	127298262	+	Frame_Shift_Del	DEL	T	T	-																															aagacagcaggattagctccTgccacgtagagctcaagagg																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	127298262	T	-	127298262	7	5	66	1	0	1	0	1	0	0	0	0	10637	1580	55	0	484	0	NR6A1	9	127298262	Frame_Shift_Del	DEL	T	TCGA-B0-4710-01A-01D-1501-10	13138901	127298262	13915169	41	3756											
ARMC3	219681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	23321851	23321851	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aactacctgatttcagctggGaacttcacataagtgaactg	13	11	8	9	0	2	2	2	2	0	0	2	3	2	3	1	1	5	1	1	1	5	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	23321851	G	C	23321851	3	2	66	1	0	0	0	0	1	0	0	0	952	1175	41	4	2374	4	ARMC3	10	23321851	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10		23321851	112212896	42	3757											
ZNF22	7570	broad.mit.edu;ucsc.edu	37	chr10	45499247	45499247	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctatcagtgtgatgagtGtggccggtgtttcagccaga	8	11	13	9	1	2	3	2	2	0	1	2	3	2	3	3	2	1	1	3	2	1	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	45499247	T	T	45499247	3	4	66	1	0	0	0	0	1	0	0	0	17773	1377	48	4	433	4	ZNF22	10	45499247	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	22177396	45499247	90035500	43	3758											
CDH23	64072	broad.mit.edu	37	chr10	73442209	73442209	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtcattgcagtgatcagCgtcagtcgccccctggatta	7	11	10	13	2	3	1	3	1	0	0	4	2	3	2	3	1	2	1	3	1	1	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	73442209	T	T	73442209	2	4	66	1	0	0	0	0	0	0	0	1	3108	767	27	1		1	CDH23	10	73442209	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10	27942962	73442209	62092538	44	3759											
ASCC1	51008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	73912709	73912709	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcatgtattctatccctgCcatctccacttctaggggtt	7	16	6	12	0	4	0	1	0	3	0	6	0	5	0	3	2	1	2	3	2	3	7	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	73912709	C	A	73912709	3	1	66	1	0	0	0	0	1	0	0	0	1031	739	26	4	425	4	ASCC1	10	73912709	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	470500	73912709	61622038	45	3760											
CYP2R1	120227	hgsc.bcm.edu	37	chr11	14913615	14913616	+	Frame_Shift_Ins	INS	-	-	G																															gatgttgccgataaatggcaINSgccccggcggccccgggggg																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	14913616	-	G	14913615	7	5	66	1	0	1	1	0	0	0	0	0	4173	188	7	0	1388	0	CYP2R1	11	14913615	Frame_Shift_Ins	INS	-	TCGA-B0-4710-01A-01D-1501-10		14913615	120092901	46	3761											
CHST1	8534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	45671655	45671655	+	Frame_Shift_Del	DEL	G	G	-																															gagaagtcctcgcacaccgtGgtcagctgcgtcacgtccag																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	45671655	G	-	45671655	7	5	66	1	0	1	0	1	0	0	0	0	3397	1335	47	0	420	0	CHST1	11	45671655	Frame_Shift_Del	DEL	G	TCGA-B0-4710-01A-01D-1501-10	30758040	45671655	89334861	47	3762											
OR5T3	390154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56020415	56020415	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcctgattgtcctcatttCctgtgatttcattctgttgt	5	21	6	9	0	3	2	2	2	1	0	6	2	6	2	3	0	0	1	3	0	1	6	rs149435695	alternate_allele	TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	56020415	C	A	56020415	3	1	66	1	0	0	0	0	1	0	0	0	11183	855	30	4	742	4	OR5T3	11	56020415	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	10348760	56020415	78986101	48	3763											
MOGAT2	80168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	75439854	75439854	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcacccctggtgccaatcTtctccttcggggagaatgac	7	9	12	13	1	2	2	0	1	2	1	4	3	2	2	4	4	1	1	4	4	2	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	75439854	T	C	75439854	3	2	66	1	0	0	0	0	1	0	0	0	9695	1609	56	3	688	3	MOGAT2	11	75439854	Missense_Mutation	SNP	T	TCGA-B0-4710-01A-01D-1501-10	19419439	75439854	59566662	49	3764											
CLNS1A	1207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77348740	77348742	+	In_Frame_Del	DEL	AAA	AAA	-																															ccgctggcccaggcggcgggAaacttttgaggaagctcata																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	AAA	AAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	77348742	AAA	-	77348740	7	5	66	1	0	1	0	1	0	0	0	0	3548	246	9	0	717	0	CLNS1A	11	77348740	In_Frame_Del	DEL	AAA	TCGA-B0-4710-01A-01D-1501-10	1908886	77348740	57657776	50	3765											
MTNR1B	4544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92714908	92714908	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgtggtggccttgctGcccaacttctttgtggggtc	3	13	12	13	1	2	0	1	0	1	0	3	0	2	0	3	4	3	1	3	4	1	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	92714908	G	C	92714908	2	2	66	1	0	0	0	0	0	0	0	1	9952	1306	46	4		4	MTNR1B	11	92714908	Silent	SNP	G	TCGA-B0-4710-01A-01D-1501-10	15366168	92714908	42291608	51	3766											
DDX6	1656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118635936	118635937	+	Frame_Shift_Ins	INS	-	-	A																															ctgtatcatcaagcctcattINSatgtcatctcgtaaattggt																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	118635937	-	A	118635936	7	5	66	1	0	1	1	0	0	0	0	0	4377	1744	61	0	856	0	DDX6	11	118635936	Frame_Shift_Ins	INS	-	TCGA-B0-4710-01A-01D-1501-10	25921028	118635936	16370580	52	3767											
PLEKHA5	54477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	19436378	19436378	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgacaagacattaggacccgGagcggaggagaaacggaggt	14	4	16	7	3	0	3	0	1	0	2	0	8	0	7	1	6	2	0	1	6	3	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	19436378	G	C	19436378	3	2	66	1	0	0	0	0	1	0	0	0	12059	1174	41	4	1502	4	PLEKHA5	12	19436378	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10		19436378	114415517	53	3768											
TRHDE	29953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	73012774	73012774	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccgagctctttatcctCtagataaattactggaccgc	10	11	7	13	2	2	1	0	0	2	1	3	3	3	2	4	1	3	1	4	1	5	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	73012774	C	A	73012774	3	1	66	1	0	0	0	0	1	0	0	0	16478	912	32	4	2340	4	TRHDE	12	73012774	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	53576396	73012774	60839121	54	3769											
ATP12A	479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25266644	25266644	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggaggctgtggagaccctCggctccacctccatcatctg	6	9	11	15	1	2	1	1	0	1	1	5	3	4	2	4	4	0	2	4	4	0	0	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	25266644	C	T	25266644	2	4	66	1	0	0	0	0	0	0	0	1	1122	871	31	1		1	ATP12A	13	25266644	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10		25266644	89903234	55	3770											
DCAF11	80344	hgsc.bcm.edu;ucsc.edu	37	chr14	24590696	24590697	+	Frame_Shift_Ins	INS	-	-	AC																															cactggccagcagttcatctINSacagtggctgctccactggc																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		AC	24590697	-	AC	24590696	7	5	66	1	0	1	1	0	0	0	0	0	4262	1522	53	0	1415	0	DCAF11	14	24590696	Frame_Shift_Ins	INS	-	TCGA-B0-4710-01A-01D-1501-10		24590696	82758844	56	3771											
AHNAK2	113146	broad.mit.edu;ucsc.edu	37	chr14	105420074	105420074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttctgtgtcttccctgcCcttgtcctgttcctcagtga	2	17	7	15	0	3	1	1	1	2	0	7	1	7	1	5	0	1	1	5	0	0	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	105420074	T	T	105420074	3	4	66	1	0	0	0	0	1	0	0	0	415	623	22	2	15677	2	AHNAK2	14	105420074	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	80829378	105420074	1929466	57	3772											
JAG2	3714	broad.mit.edu	37	chr14	105618587	105618587	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcagccggggtaggggAcacactcatcgcagaacctc	10	4	13	14	3	1	1	1	0	0	1	3	2	1	2	2	4	2	4	2	4	2	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	105618587	G	G	105618587	3	3	66	1	0	0	0	0	1	0	0	0	7935	275	10	3	2970	3	JAG2	14	105618587	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	198513	105618587	1730953	58	3773											
BRF1	2972	hgsc.bcm.edu;ucsc.edu	37	chr14	105684036	105684049	+	Frame_Shift_Del	DEL	ATTGATCTTGCTGG	ATTGATCTTGCTGG	-																															aggccccggagcacgctataAttgatcttgctggagatctt																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	ATTGATCTTGCTGG	ATTGATCTTGCTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	105684049	ATTGATCTTGCTGG	-	105684036	7	5	66	1	0	1	0	1	0	0	0	0	1510	98	4	0	432	0	BRF1	14	105684036	Frame_Shift_Del	DEL	ATTGATCTTGCTGG	TCGA-B0-4710-01A-01D-1501-10	65449	105684036	1665504	59	3774											
ULK3	25989	hgsc.bcm.edu	37	chr15	75134624	75134624	+	Frame_Shift_Del	DEL	A	A	-																															ccgccccaggctcacacctgAaagtctttcagctgcacaat																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	75134624	A	-	75134624	7	5	66	1	0	1	0	1	0	0	0	0	16976	243	9	0	1238	0	ULK3	15	75134624	Frame_Shift_Del	DEL	A	TCGA-B0-4710-01A-01D-1501-10		75134624	27396768	60	3775											
SLC16A11	162515	broad.mit.edu	37	chr17	6946682	6946682	+	Frame_Shift_Del	DEL	G	-	-																															gctgatccacgcagtgtcctGggcgcttcggtcaaagtgct																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	6946682	-	-	6946682	7	5	66	1	0	1	0	1	0	0	0	0	14406	1357	47	0	1208	0	SLC16A11	17	6946682	Frame_Shift_Del	DEL	G	TCGA-B0-4710-01A-01D-1501-10		6946682	74248528	61	3776											
TP53	7157	broad.mit.edu;ucsc.edu	37	chr17	7578211	7578211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcaccaccacactatgtCgaaaagtgtttctgtcatcc	11	10	8	12	1	2	0	1	0	1	0	4	1	3	0	3	1	0	2	3	1	3	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	7578211	T	T	7578211	3	4	66	1	0	0	0	0	1	0	0	0	16380	884	31	1	656	1	TP53	17	7578211	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	631529	7578211	73616999	62	3777											
CCDC42	146849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8638483	8638483	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggtgcttgctcacgatCtggaagaggttcagcgtggc	7	11	14	9	2	4	1	3	0	1	1	4	3	4	2	0	4	3	3	0	4	1	3	rs147736220	byfrequency;alternate_allele	TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	8638483	C	A	8638483	3	1	66	1	0	0	0	0	1	0	0	0	2814	912	32	4	154	4	CCDC42	17	8638483	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	1060272	8638483	72556727	63	3778											
SCO1	6341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10596183	10596183	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	taaccactgacccaagtagtCcttgtcagttttacgctccc	9	12	6	14	1	1	1	1	1	0	0	3	1	3	1	4	0	2	3	4	0	4	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	10596183	C	G	10596183	3	3	66	1	0	0	0	0	1	0	0	0	13933	855	30	4	461	4	SCO1	17	10596183	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	1957700	10596183	70599027	64	3779											
MYO19	80179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34857066	34857066	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggcttcctcgctgtgtGgacaccattctgggggaggg	4	10	17	10	2	1	0	0	0	1	0	3	2	2	2	2	5	0	2	2	5	0	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	34857066	G	T	34857066	3	4	66	1	0	0	0	0	1	0	0	0	10067	1348	47	4	842	4	MYO19	17	34857066	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	24260883	34857066	46338144	65	3780											
EFTUD2	9343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42936450	42936450	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagatactgctgtacctTgatgtctatctctgagtaca	9	13	9	10	1	2	3	0	2	2	1	3	3	2	3	1	1	4	4	1	1	4	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	42936450	T	C	42936450	3	2	66	1	0	0	0	0	1	0	0	0	4961	1821	63	3	998	3	EFTUD2	17	42936450	Missense_Mutation	SNP	T	TCGA-B0-4710-01A-01D-1501-10	8079384	42936450	38258760	66	3781											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76491993	76491993	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctcaggcagctccgcgCgtccggcgtacccagggttc	4	8	14	15	5	1	0	1	0	1	0	5	0	3	0	3	4	2	5	3	4	1	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	76491993	C	T	76491993	3	4	66	1	0	0	0	0	1	0	0	0	4601	768	27	1	7697	1	DNAH17	17	76491993	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	33555543	76491993	4703217	67	3782											
WDR18	57418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	994289	994289	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgcgcaacctgcgcaagatCaatcgggacctgttcgactt	9	9	11	12	4	1	1	1	0	0	1	3	3	1	2	2	1	3	3	2	1	3	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	994289	C	T	994289	2	4	66	1	0	0	0	0	0	0	0	1	17277	816	29	2		2	WDR18	19	994289	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10		994289	58134694	68	3783											
IFI30	10437	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18286174	18286174	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagcatggagaagaggaGtgcaaattcaacaaggtgga	15	6	14	6	0	1	2	1	0	0	2	1	5	1	4	1	4	4	2	1	4	4	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	18286174	G	A	18286174	2	1	66	1	0	0	0	0	0	0	0	1	7515	1020	36	2		2	IFI30	19	18286174	Silent	SNP	G	TCGA-B0-4710-01A-01D-1501-10	17291885	18286174	40842809	69	3784											
ARMC6	93436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19166161	19166161	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttgtccgtgctggtgggacgGagtccatcgtggctgctatg	4	12	16	9	3	0	0	0	0	0	0	3	2	2	2	2	4	2	3	2	4	1	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	19166161	G	C	19166161	3	2	66	1	0	0	0	0	1	0	0	0	955	1175	41	4	1054	4	ARMC6	19	19166161	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	879987	19166161	39962822	70	3785											
CCNE1	898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	30303636	30303636	+	Missense_Mutation	SNP	G	G	C																															ccatgaaggaggacggcggcGcggagttctcggctcgctcc																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	30303636	G	C	30303636	3	2	66	1	0	0	0	0	1	0	0	0	2920	1087	38	4	70	4	CCNE1	19	30303636	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	11137475	30303636	28825347	71	3786	45	2									
CCNE1	898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	30303637	30303637	+	Missense_Mutation	SNP	C	C	T																															catgaaggaggacggcggcgCggagttctcggctcgctcca																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	30303637	C	T	30303637	3	4	66	1	0	0	0	0	1	0	0	0	2920	768	27	1	71	1	CCNE1	19	30303637	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	1	30303637	28825346	72	3787	45	2									
ZNF607	84775	hgsc.bcm.edu;ucsc.edu	37	chr19	38189521	38189521	+	Frame_Shift_Del	DEL	G	G	-																															cacattccttacattcataaGgtttctcaccagtatgaact																								novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		-	38189521	G	-	38189521	7	5	66	1	0	1	0	1	0	0	0	0	18032	1000	35	0	583	0	ZNF607	19	38189521	Frame_Shift_Del	DEL	G	TCGA-B0-4710-01A-01D-1501-10	7885884	38189521	20939462	73	3788											
ZNF221	7638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44470618	44470618	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtaagagcttccgtgttAgatcaagacttaataggcat	12	12	11	6	1	1	3	1	0	0	3	2	3	2	3	1	2	1	4	1	2	5	5	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	44470618	A	C	44470618	2	2	66	1	0	0	0	0	0	0	0	1	17774	412	15	5		5	ZNF221	19	44470618	Silent	SNP	A	TCGA-B0-4710-01A-01D-1501-10	6281097	44470618	14658365	74	3789											
MYH14	79784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50812921	50812921	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccccctcaccttcaccacCcgcacggtgcgccaggtctt	5	7	9	20	3	3	0	2	0	1	0	3	0	3	0	6	3	1	1	6	3	0	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		G	50812921	C	G	50812921	2	3	66	1	0	0	0	0	0	0	0	1	10033	610	22	4		4	MYH14	19	50812921	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10	6342303	50812921	8316062	75	3790											
LILRA2	11027	broad.mit.edu;ucsc.edu	37	chr19	55085835	55085835	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atccagggaagtcctgtgacCctcaggtgtcaggggagcct	8	8	14	11	0	2	1	2	1	0	0	4	3	4	3	4	4	1	0	4	4	1	0	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	55085835	A	A	55085835	2	1	66	1	0	0	0	0	0	0	0	1	8785	610	22	4		4	LILRA2	19	55085835	Silent	SNP	C	TCGA-B0-4710-01A-01D-1501-10	4272914	55085835	4043148	76	3791											
FCAR	2204	broad.mit.edu;hgsc.bcm.edu	37	chr19	55396904	55396904	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatagggcactacagattcCggtacagtgacaccctggag	11	7	13	10	1	0	2	0	1	0	1	1	4	1	4	2	4	2	2	2	4	3	4	rs143972917		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	55396904	C	T	55396904	3	4	66	1	0	0	0	0	1	0	0	0	5773	643	23	1	338	1	FCAR	19	55396904	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	311069	55396904	3732079	77	3792											
NLRP5	126206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56552314	56552314	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgtggcatcacagccaCgggttgccagagtctggcct	7	8	14	12	1	2	1	1	0	1	1	2	2	2	2	3	4	2	2	3	4	0	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	56552314	C	T	56552314	3	4	66	1	0	0	0	0	1	0	0	0	10480	536	19	1	2855	1	NLRP5	19	56552314	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10	1155410	56552314	2576669	78	3793											
PLCB4	5332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	9382178	9382178	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accccgaattcaaatttggaAatgaactttctgctgatgac	13	12	7	9	1	2	3	1	3	1	0	2	5	2	4	2	1	2	1	2	1	4	3	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	9382178	A	C	9382178	3	2	66	1	0	0	0	0	1	0	0	0	12030	14	1	5	1618	5	PLCB4	20	9382178	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10		9382178	53643342	79	3794											
MAOA	4128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	43571201	43571201	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaataatctgtggaggaCaatagataacatggggaagg	16	9	12	4	0	1	1	0	0	1	1	1	4	1	4	0	5	2	0	0	5	7	4	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	43571201	C	T	43571201	3	4	66	1	0	0	0	0	1	0	0	0	9225	478	17	2	403	2	MAOA	23	43571201	Missense_Mutation	SNP	C	TCGA-B0-4710-01A-01D-1501-10		43571201	111699359	80	3795											
ZMYM3	9203	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70467240	70467240	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtatccaggttgggttGgttctgctggctatagaaac	7	13	14	7	0	1	1	0	0	1	1	2	1	2	1	1	5	2	6	1	5	4	6	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	70467240	G	T	70467240	3	4	66	1	0	0	0	0	1	0	0	0	17700	1357	47	4	1895	4	ZMYM3	23	70467240	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	26896039	70467240	84803320	81	3796											
PABPC5	140886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	90691460	90691460	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacggctgaggttaaaagAaaaaagtcggcccccagggg	14	5	14	8	2	0	3	0	2	0	1	1	3	0	3	2	5	1	2	2	5	6	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	90691460	A	C	90691460	3	2	66	1	0	0	0	0	1	0	0	0	11367	246	9	5	886	5	PABPC5	23	90691460	Missense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	20224220	90691460	64579100	82	3797											
RPA4	29935	broad.mit.edu;hgsc.bcm.edu	37	chrX	96139817	96139817	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcacacatgatgctggatAaagcccgtcgtgataccact	12	9	9	11	2	0	2	0	2	0	0	1	3	0	3	2	1	4	2	2	1	3	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	96139817	A	T	96139817	4	4	66	1	0	0	0	0	0	1	0	0	13541	363	13	5	510	5	RPA4	23	96139817	Nonsense_Mutation	SNP	A	TCGA-B0-4710-01A-01D-1501-10	5448357	96139817	59130743	83	3798											
ARMCX2	9823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	100912452	100912452	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagccacagcccggtttttGggcttggccattctcttctt	4	14	9	14	1	2	0	0	0	2	0	3	0	2	0	4	3	2	2	4	3	0	6	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	100912452	G	A	100912452	2	1	66	1	0	0	0	0	0	0	0	1	960	1335	47	2		2	ARMCX2	23	100912452	Silent	SNP	G	TCGA-B0-4710-01A-01D-1501-10	4772635	100912452	54358108	84	3799											
MAGEC1	9947	broad.mit.edu;ucsc.edu	37	chrX	140996270	140996270	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggatgtgctgagtggaatagGggtgcgtgctgggagggagc	7	8	22	4	1	0	1	0	1	0	0	0	5	0	5	0	6	4	2	0	6	2	1	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		C	140996270	C	C	140996270	3	2	66	1	0	0	0	0	1	0	0	0	9180	1232	43	4	3086	4	MAGEC1	23	140996270	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	40083818	140996270	14274290	85	3800											
MAGEA10	4109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151303633	151303633	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttctgcctttgtgatcgGctccttcatttgatacttga	6	19	7	9	1	2	3	1	3	1	0	4	3	3	3	2	1	2	1	2	1	2	7	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		T	151303633	G	T	151303633	3	4	66	1	0	0	0	0	1	0	0	0	9164	1203	42	4	653	4	MAGEA10	23	151303633	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	10307363	151303633	3966927	86	3801											
F8	2157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	154194857	154194857	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctgaccacatccatttcaGaatcagtaagatcatcatca	15	10	4	12	0	5	3	5	1	0	2	6	3	6	3	3	0	0	1	3	0	2	2	novel		TCGA-B0-4710-01A-01D-1501-10	TCGA-B0-4710-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4ab8d170-2b88-47a1-9a56-ec0007652446	a1ec1a7d-b4b7-42f9-84eb-94a3d23b4d81		A	154194857	G	A	154194857	3	1	66	1	0	0	0	0	1	0	0	0	5350	942	33	2	6044	2	F8	23	154194857	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01D-1501-10	2891224	154194857	1075703	87	3802											
VHL	7428	hgsc.bcm.edu	37	chr3	10183776	10183776	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcaatcgcagtccgcGcgtcgtgctgcccgtatggc	4	10	12	15	6	1	0	0	0	1	0	4	0	2	0	2	1	3	4	2	1	2	2	novel		TCGA-B0-4710-01A-01W-1528-10	TCGA-B0-4710-11A-02W-1528-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	0a4d83b9-b7a5-4ab4-b9ca-92627f361b07	d71c3e47-a16b-4744-94f8-301369d6774b		C	10183776	G	C	10183776	3	2	67	1	0	0	0	0	1	0	0	0	17161	1087	38	4	247	4	VHL	3	10183776	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01W-1528-10		10183776	187838654	1	3803											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53222460	53222460	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaccttccgccgccgccGcctctccagggcccggcccc	3	5	9	24	5	1	0	0	0	1	0	4	0	3	0	11	2	0	0	11	2	0	1	novel		TCGA-B0-4710-01A-01W-1528-10	TCGA-B0-4710-11A-02W-1528-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	0a4d83b9-b7a5-4ab4-b9ca-92627f361b07	d71c3e47-a16b-4744-94f8-301369d6774b		A	53222460	G	A	53222460	3	1	67	1	0	0	0	0	1	0	0	0	8135	1086	38	1	412	1	KDM5C	23	53222460	Missense_Mutation	SNP	G	TCGA-B0-4710-01A-01W-1528-10		53222460	102048100	2	3804											
C1orf213	148898	broad.mit.edu	37	chr1	23696047	23696047	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcaggcgaagcccagatAtcgtaggctgatcctaaaga	12	8	11	10	2	0	3	0	1	0	2	2	4	1	3	2	2	2	3	2	2	5	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	23696047	G	G	23696047	3	3	68	1	0	0	0	0	1	0	0	0	2030	449	16	3	259	3	C1orf213	1	23696047	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10		23696047	225554574	1	3805											
PHC2	1912	hgsc.bcm.edu	37	chr1	33820749	33820769	+	In_Frame_Del	DEL	GGCTGCTGCTGTTGTGGCTGT	GGCTGCTGCTGTTGTGGCTGT	-																															gccgtgactgctggggcggcGgctgctgctgttgtggctgt																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	GGCTGCTGCTGTTGTGGCTGT	GGCTGCTGCTGTTGTGGCTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		-	33820769	GGCTGCTGCTGTTGTGGCTGT	-	33820749	7	5	68	1	0	1	0	1	0	0	0	0	11817	1116	39	0	1526	0	PHC2	1	33820749	In_Frame_Del	DEL	GGCTGCTGCTGTTGTGGCTGT	TCGA-B0-4712-01A-01D-1501-10	10124702	33820749	215429872	2	3806											
C1orf173	127254	broad.mit.edu;ucsc.edu	37	chr1	75102000	75102000	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcattttccagcaatgaGgtttttgatctggaccttga	8	16	9	8	0	2	3	1	3	1	0	3	4	3	4	2	2	1	3	2	2	1	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	75102000	T	T	75102000	2	4	68	1	0	0	0	0	0	0	0	1	2014	987	35	4		4	C1orf173	1	75102000	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10	41281251	75102000	174148621	3	3807											
COL24A1	255631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86315055	86315055	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccttttttcctggacgacctCtttgccctggaattcccaca	6	14	6	15	1	1	0	0	0	1	0	3	3	3	2	5	2	1	0	5	2	1	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	86315055	C	G	86315055	3	3	68	1	0	0	0	0	1	0	0	0	3683	913	32	4	1901	4	COL24A1	1	86315055	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	11213055	86315055	162935566	4	3808											
SLC16A4	9122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110921782	110921782	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtagtccagccttctgcgtAgtactgtccttgatggtaga	7	13	12	9	1	1	2	0	1	1	1	3	2	3	2	3	2	3	4	3	2	4	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	110921782	A	C	110921782	2	2	68	1	0	0	0	0	0	0	0	1	14412	407	15	5		5	SLC16A4	1	110921782	Silent	SNP	A	TCGA-B0-4712-01A-01D-1501-10	24606727	110921782	138328839	5	3809											
DENND2C	163259	broad.mit.edu	37	chr1	115151368	115151368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctgatggtttcttctgtAgagacaccaccacaaaaagt	12	12	7	10	0	2	2	0	1	2	1	3	3	3	2	3	1	0	2	3	1	3	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	115151368	G	G	115151368	3	3	68	1	0	0	0	0	1	0	0	0	4430	420	15	3	1338	3	DENND2C	1	115151368	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	4229586	115151368	134099253	6	3810											
PRPF3	9129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150312943	150312943	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgaacatccagcccagctCaatcctccaggtaatgtata	12	10	7	12	0	1	1	1	1	0	0	4	1	4	1	4	1	3	4	4	1	5	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	150312943	C	T	150312943	2	4	68	1	0	0	0	0	0	0	0	1	12567	813	29	2		2	PRPF3	1	150312943	Silent	SNP	C	TCGA-B0-4712-01A-01D-1501-10	35161575	150312943	98937678	7	3811											
TADA1	117143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	166833059	166833059	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctattaaagaacaacctAcatcaaatttctgacgaaca	18	9	4	10	1	2	2	1	1	1	1	2	4	2	2	2	0	4	0	2	0	8	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	166833059	A	T	166833059	5	4	68	1	0	0	0	0	0	0	1	0	15508	405	14	5	695	5	TADA1	1	166833059	Splice_Site	SNP	A	TCGA-B0-4712-01A-01D-1501-10	16520116	166833059	82417562	8	3812											
C1orf124	0	broad.mit.edu;hgsc.bcm.edu	37	chr1	231489083	231489083	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgaaggtgacagcatcaaAgtcaaaagcgaagaaagtct	17	7	10	7	1	3	3	2	2	1	1	3	4	3	3	0	1	2	1	0	1	6	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	231489083	A	G	231489083	2	3	68	1	0	0	0	0	0	0	0	1	1992	69	3	3		3	C1orf124	1	231489083	Silent	SNP	A	TCGA-B0-4712-01A-01D-1501-10	64656024	231489083	17761538	9	3813											
PLD5	200150	broad.mit.edu;hgsc.bcm.edu	37	chr1	242253369	242253369	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgataacaaggcccgtGccagcattctgagtgaaatc	11	10	11	9	1	1	3	0	3	1	0	2	3	1	3	2	2	3	2	2	2	3	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	242253369	G	A	242253369	2	1	68	1	0	0	0	0	0	0	0	1	12049	1306	46	2		2	PLD5	1	242253369	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10	10764286	242253369	6997252	10	3814											
C2orf18	0	broad.mit.edu	37	chr2	27001276	27001276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctacaatgggctacaccGtccgctgctgggccgcctgt	5	9	11	16	3	1	0	0	0	1	0	2	0	2	0	5	2	3	3	5	2	3	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	27001276	A	A	27001276	3	1	68	1	0	0	0	0	1	0	0	0	2158	1145	40	1	1035	1	C2orf18	2	27001276	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		27001276	216198097	11	3815											
DHX57	90957	broad.mit.edu	37	chr2	39088979	39088979	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgttcagtattgaaaccataCctgtcaagggcaaaacatga	15	9	8	9	1	2	2	2	2	0	0	2	2	2	2	2	1	3	3	2	1	6	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	39088979	A	A	39088979	3	1	68	1	0	0	0	0	1	0	0	0	4513	521	18	4	3667	4	DHX57	2	39088979	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	12087703	39088979	204110394	12	3816											
B3GNT2	10678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	62450134	62450134	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacatcctgaattacttgaAtagtttatccaagaccaaag	15	12	5	9	0	1	3	1	2	0	1	3	3	3	3	3	0	1	1	3	0	7	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	62450134	A	G	62450134	3	3	68	1	0	0	0	0	1	0	0	0	1257	101	4	3	781	3	B3GNT2	2	62450134	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	23361155	62450134	180749239	13	3817											
SCN2A	6326	broad.mit.edu;hgsc.bcm.edu	37	chr2	166201197	166201197	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatttttgctgtggtcGgcatgcagctctttggtaag	5	17	11	8	1	3	0	1	0	2	0	4	0	3	0	0	3	3	5	0	3	1	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	166201197	G	A	166201197	3	1	68	1	0	0	0	0	1	0	0	0	13918	1116	39	1	2849	1	SCN2A	2	166201197	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	103751063	166201197	76998176	14	3818											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170028541	170028541	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacagttttcctcatcTgagttatctccacagtcatt	9	15	4	13	0	5	1	3	1	2	0	7	1	6	1	3	0	0	2	3	0	1	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	170028541	T	C	170028541	2	2	68	1	0	0	0	0	0	0	0	1	8956	1567	55	3		3	LRP2	2	170028541	Silent	SNP	T	TCGA-B0-4712-01A-01D-1501-10	3827344	170028541	73170832	15	3819											
TTN	7273	broad.mit.edu;ucsc.edu	37	chr2	179575503	179575503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactaatctggtactttcCgccacttcgtatttctctgc	8	16	5	12	2	2	0	0	0	2	0	5	0	3	0	2	1	3	2	2	1	4	7	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	179575503	T	T	179575503	3	4	68	1	0	0	0	0	1	0	0	0	16734	661	23	1	76268	1	TTN	2	179575503	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	9546962	179575503	63623870	16	3820											
CFLAR	8837	broad.mit.edu;hgsc.bcm.edu	37	chr2	202025389	202025389	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggatgttcatgggagAttcatgcccttatctagcag	10	11	12	8	0	3	1	2	0	1	1	3	4	3	3	1	3	2	2	1	3	2	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	202025389	A	G	202025389	3	3	68	1	0	0	0	0	1	0	0	0	3292	333	12	3	1122	3	CFLAR	2	202025389	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	22449886	202025389	41173984	17	3821											
NCL	4691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	232322358	232322358	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aagcctaatttcttaccactCcaagtgctattctttccacc	10	14	3	14	0	2	0	0	0	2	0	4	0	4	0	5	0	3	1	5	0	5	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	232322358	C	G	232322358	3	3	68	1	0	0	0	0	1	0	0	0	10226	856	30	4	713	4	NCL	2	232322358	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	30296969	232322358	10877015	18	3822											
TTLL3	26140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9868880	9868880	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttctaccgcgacagctaTatccgcttttccacgcagcc	7	11	8	15	4	1	0	0	0	1	0	3	1	3	0	4	1	3	4	4	1	3	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	9868880	T	C	9868880	2	2	68	1	0	0	0	0	0	0	0	1	16727	1413	49	3		3	TTLL3	3	9868880	Silent	SNP	T	TCGA-B0-4712-01A-01D-1501-10		9868880	188153550	19	3823											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191570	10191570	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgctctacgaagatcTggaagaccacccaaatgtgc	12	7	10	12	2	2	2	0	0	2	2	3	4	2	3	2	2	2	1	2	2	4	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	10191570	G	G	10191570	3	3	68	1	0	0	0	0	1	0	0	0	17161	1580	55	5	573	5	VHL	3	10191570	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10	322690	10191570	187830860	20	3824											
SETD2	29072	broad.mit.edu;ucsc.edu	37	chr3	47165360	47165360	+	Nonsense_Mutation	SNP	G	A	A																															actattagatatagtgtcctGcttagtatctgcttctaaag																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	47165360	A	A	47165360	4	1	68	1	0	0	0	0	0	1	0	0	14133	1328	46	2	7004	2	SETD2	3	47165360	Nonsense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	36973790	47165360	150857070	21	3825	46	2									
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47165361	47165361	+	Missense_Mutation	SNP	C	C	G																															ctattagatatagtgtcctgCttagtatctgcttctaaaga																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	47165361	C	G	47165361	3	3	68	1	0	0	0	0	1	0	0	0	14133	796	28	4	7005	4	SETD2	3	47165361	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	1	47165361	150857069	22	3826	46	2									
WDR52	55779	broad.mit.edu;ucsc.edu	37	chr3	113022837	113022837	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctccattctttgttaagtTtttgctgcttggaattttcc	5	21	6	9	0	2	0	0	0	2	0	4	1	3	1	2	1	2	4	2	1	2	8	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	113022837	G	G	113022837	3	3	68	1	0	0	0	0	1	0	0	0	17303	1841	64	5	577	5	WDR52	3	113022837	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10	65857476	113022837	84999593	23	3827											
ARGFX	503582	broad.mit.edu;hgsc.bcm.edu	37	chr3	121305227	121305227	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcctgatgagaatgagatatCcagctcttctttccactgtc	9	14	7	11	0	2	3	0	3	2	2	6	5	5	3	3	0	1	1	3	0	2	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	121305227	C	G	121305227	3	3	68	1	0	0	0	0	1	0	0	0	859	855	30	4	742	4	ARGFX	3	121305227	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	8282390	121305227	76717203	24	3828											
GOLGB1	2804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121412704	121412704	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctttgctttgaatcgcAtcactaaacttcctctccca	8	16	3	14	1	4	1	1	1	3	0	7	1	5	1	2	0	2	2	2	0	3	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	121412704	A	G	121412704	2	3	68	1	0	0	0	0	0	0	0	1	6565	214	8	3		3	GOLGB1	3	121412704	Silent	SNP	A	TCGA-B0-4712-01A-01D-1501-10	107477	121412704	76609726	25	3829											
SLC15A2	6565	broad.mit.edu;hgsc.bcm.edu	37	chr3	121613330	121613330	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtaaggagccagccatgaatCctttccagaaaaatgagtcc	14	8	9	10	0	0	3	0	2	0	1	3	4	3	4	5	1	2	1	5	1	4	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	121613330	C	G	121613330	3	3	68	1	0	0	0	0	1	0	0	0	14401	855	30	4	9	4	SLC15A2	3	121613330	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	200626	121613330	76409100	26	3830											
MYLK	4638	broad.mit.edu;hgsc.bcm.edu	37	chr3	123418999	123418999	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccctctgccacatgaacatCttgcagcttctgcttgaagg	8	11	9	13	0	3	2	0	2	3	0	3	2	3	2	2	1	5	3	2	1	2	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	123418999	C	T	123418999	3	4	68	1	0	0	0	0	1	0	0	0	10056	913	32	2	2496	2	MYLK	3	123418999	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	1805669	123418999	74603431	27	3831											
COL6A6	131873	broad.mit.edu;hgsc.bcm.edu	37	chr3	130380932	130380932	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atatctgctggggaaaccagCcacttagatggggaaatctt	12	10	11	8	0	2	1	0	0	2	1	2	3	2	3	2	4	3	1	2	4	4	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	130380932	C	G	130380932	3	3	68	1	0	0	0	0	1	0	0	0	3703	738	26	4	6416	4	COL6A6	3	130380932	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	6961933	130380932	67641498	28	3832											
P2RY12	64805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151056476	151056476	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagtttgatttactccggAtttgaaagaaaatcctcatc	14	14	6	7	1	1	3	1	2	0	1	4	4	3	4	2	1	1	1	2	1	6	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	151056476	A	G	151056476	3	3	68	1	0	0	0	0	1	0	0	0	11349	333	12	3	874	3	P2RY12	3	151056476	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	20675544	151056476	46965954	29	3833											
MUC4	4585	broad.mit.edu	37	chr3	195507324	195507324	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaggaagaggggtggtGtgacctgaggatgatgagga	11	7	20	3	0	0	6	0	5	0	1	0	9	0	9	1	6	0	0	1	6	1	0	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	195507324	C	C	195507324	3	2	68	1	0	0	0	0	1	0	0	0	9978	1368	48	4		4	MUC4	3	195507324	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	44450848	195507324	2515106	30	3834											
MUC4	4585	broad.mit.edu	37	chr3	195509127	195509127	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggatgctgaggaagggctAgtgacaggaagaggcgtggt	10	7	20	4	1	0	3	0	2	0	1	0	6	0	6	0	6	1	2	0	6	3	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	195509127	G	G	195509127	2	3	68	1	0	0	0	0	0	0	0	1	9978	407	15	3		3	MUC4	3	195509127	Silent	SNP	A	TCGA-B0-4712-01A-01D-1501-10	1803	195509127	2513303	31	3835											
HTRA3	94031	broad.mit.edu	37	chr4	8288470	8288470	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccatcaaagacatcgAcaagaagtcggacattgcca	15	5	9	12	2	1	2	1	0	0	2	3	4	1	3	3	2	1	0	3	2	3	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	8288470	G	G	8288470	3	3	68	1	0	0	0	0	1	0	0	0	7455	275	10	3	678	3	HTRA3	4	8288470	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10		8288470	182865806	32	3836											
FRYL	285527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48525026	48525026	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctgggggtgctactagaGcactggtactcctggaggga	8	8	17	8	0	0	1	0	0	0	1	1	3	1	3	1	6	4	4	1	6	3	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	48525026	G	C	48525026	3	2	68	1	0	0	0	0	1	0	0	0	6064	963	34	4	1672	4	FRYL	4	48525026	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	40236556	48525026	142629250	33	3837											
KDR	3791	broad.mit.edu;hgsc.bcm.edu	37	chr4	55973949	55973949	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactgccaataccagtggAtgtgatgcgggggaggaatg	11	7	15	8	1	0	1	0	1	0	0	0	4	0	4	3	4	4	0	3	4	4	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	55973949	A	C	55973949	3	2	68	1	0	0	0	0	1	0	0	0	8139	333	12	5	2787	5	KDR	4	55973949	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	7448923	55973949	135180327	34	3838											
REST	5978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57797456	57797456	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccttcacatggagccaatttCcaaaaagcctcctctccgaa	12	9	5	15	1	2	0	1	0	1	0	5	2	4	1	6	1	2	0	6	1	4	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	57797456	C	T	57797456	3	4	68	1	0	0	0	0	1	0	0	0	13236	855	30	2	2442	2	REST	4	57797456	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	1823507	57797456	133356820	35	3839											
RAP1GDS1	5910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99355174	99355174	+	Missense_Mutation	SNP	G	G	A																															atgtaataatgcagaatgaaGctcttgttgctttggcatta																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	99355174	G	A	99355174	3	1	68	1	0	0	0	0	1	0	0	0	13041	971	34	2	1581	2	RAP1GDS1	4	99355174	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	41557718	99355174	91799102	36	3840	47	2									
RAP1GDS1	5910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99355175	99355175	+	Missense_Mutation	SNP	C	C	G																															tgtaataatgcagaatgaagCtcttgttgctttggcattaa																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	99355175	C	G	99355175	3	3	68	1	0	0	0	0	1	0	0	0	13041	797	28	4	1582	4	RAP1GDS1	4	99355175	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	1	99355175	91799101	37	3841	47	2									
UTP15	84135	broad.mit.edu;ucsc.edu	37	chr5	72864335	72864335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctacttttcgacaagatGgtagattgcttgtggctggc	7	14	13	7	1	0	2	0	0	0	2	1	3	0	2	0	3	3	4	0	3	3	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	72864335	A	A	72864335	3	1	68	1	0	0	0	0	1	0	0	0	17096	1348	47	2	284	2	UTP15	5	72864335	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		72864335	108050925	38	3842											
CHSY3	337876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	129520692	129520692	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgggagggcacaatgaaaaGaaagtacacattctcgttcc	15	8	10	8	1	1	2	0	1	1	1	3	3	2	3	1	2	1	3	1	2	5	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	129520692	G	C	129520692	3	2	68	1	0	0	0	0	1	0	0	0	3413	933	33	4	1867	4	CHSY3	5	129520692	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	56656357	129520692	51394568	39	3843											
FNIP1	96459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131042127	131042127	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggaaataccccattttcCaaacttgttgtttggctgcg	9	14	8	10	1	0	0	0	0	0	0	1	1	1	1	3	2	3	3	3	2	4	7	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	131042127	C	G	131042127	3	3	68	1	0	0	0	0	1	0	0	0	5975	593	21	4	2649	4	FNIP1	5	131042127	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	1521435	131042127	49873133	40	3844											
SPRY4	81848	hgsc.bcm.edu	37	chr5	141694415	141694415	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaggagatccaatggtGggtgacatcctggtcacagc	10	8	14	9	0	1	3	1	2	0	1	3	4	3	3	2	4	1	1	2	4	2	0	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	141694415	G	A	141694415	3	1	68	1	0	0	0	0	1	0	0	0	15109	1348	47	2	644	2	SPRY4	5	141694415	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	10652288	141694415	39220845	41	3845											
CSF1R	1436	broad.mit.edu;hgsc.bcm.edu	37	chr5	149449864	149449864	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgacgcttacctctgggggGtctgaggaagaaaggaggag	11	7	17	6	1	2	3	0	2	2	1	2	6	2	6	1	6	1	1	1	6	3	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	149449864	G	T	149449864	4	4	68	1	0	0	0	0	0	1	0	0	3932	1275	44	4	1774	4	CSF1R	5	149449864	Nonsense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	7755449	149449864	31465396	42	3846											
NSD1	64324	broad.mit.edu;ucsc.edu	37	chr5	176636690	176636690	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgttggacttgcagaacaGtatgatgttcccaaggggtc	10	11	13	7	0	0	2	0	1	0	1	2	3	1	3	1	3	2	4	1	3	3	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	176636690	A	A	176636690	2	1	68	1	0	0	0	0	0	0	0	1	10669	1020	36	2		2	NSD1	5	176636690	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10	27186826	176636690	4278570	43	3847											
OSBPL3	26031	hgsc.bcm.edu;ucsc.edu	37	chr7	24839885	24839885	+	Frame_Shift_Del	DEL	C	C	-																															gccgttgctcacccaagagtCatcgtcggatttcctgtgaa																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		-	24839885	C	-	24839885	7	5	68	1	0	1	0	1	0	0	0	0	11279	826	29	0	86	0	OSBPL3	7	24839885	Frame_Shift_Del	DEL	C	TCGA-B0-4712-01A-01D-1501-10		24839885	134298778	44	3848											
MRPL32	64983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	42974658	42974658	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggacagtatcttttggatgGcagctcccaaaaatagacgc	12	10	10	9	1	1	1	0	0	1	1	2	3	2	3	1	3	1	3	1	3	4	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	42974658	G	A	42974658	3	1	68	1	0	0	0	0	1	0	0	0	9795	1203	42	2	241	2	MRPL32	7	42974658	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	18134773	42974658	116164005	45	3849											
PRKAR2B	5577	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	106799894	106799894	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaatcttctcttttctcagCaatggatgtgcaagcatttg	11	15	7	8	0	3	0	1	0	3	0	5	1	3	1	0	1	3	3	0	1	4	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	106799894	C	G	106799894	3	3	68	1	0	0	0	0	1	0	0	0	12508	724	25	4	1166	4	PRKAR2B	7	106799894	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	63825236	106799894	52338769	46	3850											
LRRC4	64101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127669258	127669258	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctggtaaccagtggacGtggtaggaacaggcttgtac	9	8	15	9	2	0	0	0	0	0	0	0	2	0	2	2	6	3	5	2	6	4	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	127669258	G	A	127669258	3	1	68	1	0	0	0	0	1	0	0	0	8997	1145	40	1	529	1	LRRC4	7	127669258	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	20869364	127669258	31469405	47	3851											
TNPO3	23534	broad.mit.edu;ucsc.edu	37	chr7	128607436	128607436	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaggaattttctaaccatCgacaaaaagtctgtatagga	16	12	7	6	1	2	0	0	0	2	0	3	3	2	2	1	2	1	1	1	2	7	6	rs188168905	by1000genomes;alternate_allele	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	128607436	A	A	128607436	3	1	68	1	0	0	0	0	1	0	0	0	16336	884	31	4	170	4	TNPO3	7	128607436	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	938178	128607436	30531227	48	3852											
CSMD1	64478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	3253877	3253877	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccatctctgacctccaagGtgtcataattgacctctgtc	8	12	7	14	0	3	2	1	2	2	0	6	2	4	2	4	1	0	0	4	1	2	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	3253877	G	A	3253877	3	1	68	1	0	0	0	0	1	0	0	0	3944	1261	44	2	8478	2	CSMD1	8	3253877	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		3253877	143110145	49	3853											
PRDM14	63978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	70978469	70978469	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggcgagggtgtgcactcaCcttcagagggcccagatggc	9	6	15	11	1	2	2	2	0	0	2	2	3	2	2	2	4	1	1	2	4	1	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	70978469	C	A	70978469	5	1	68	1	0	0	0	0	0	0	1	0	12457	521	18	4	547	4	PRDM14	8	70978469	Splice_Site	SNP	C	TCGA-B0-4712-01A-01D-1501-10	67724592	70978469	75385553	50	3854											
TAF2	6873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	120814248	120814248	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaattcagagtatgaatcaAcacaagggaaccaaaatcta	20	7	6	8	0	3	2	2	1	1	1	3	3	3	3	1	1	2	1	1	1	9	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	120814248	A	G	120814248	3	3	68	1	0	0	0	0	1	0	0	0	15523	43	2	3	3105	3	TAF2	8	120814248	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	49835779	120814248	25549774	51	3855											
COL22A1	169044	broad.mit.edu;hgsc.bcm.edu	37	chr8	139824101	139824101	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccaatctgttcactgcCtggggtgggaggccgctggg	7	8	15	11	1	2	0	1	0	1	0	2	1	2	1	3	5	2	2	3	5	2	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	139824101	C	T	139824101	3	4	68	1	0	0	0	0	1	0	0	0	3681	681	24	2	3718	2	COL22A1	8	139824101	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	19009853	139824101	6539921	52	3856											
IL33	90865	broad.mit.edu;ucsc.edu	37	chr9	6252967	6252967	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttatgagatatatgttgaaGacttgaaaaaagatgaaaag	19	11	10	1	0	0	6	0	4	0	3	0	7	0	6	0	0	0	2	0	0	9	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	6252967	C	C	6252967	3	2	68	1	0	0	0	0	1	0	0	0	7693	942	33	4	459	4	IL33	9	6252967	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		6252967	134960464	53	3857											
C9orf93	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	15724841	15724841	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacactaaatgtgcagaccGagaggctttaataagcactt	15	9	8	9	1	0	2	0	0	0	2	0	3	0	2	1	1	2	3	1	1	4	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	15724841	G	A	15724841	3	1	68	1	0	0	0	0	1	0	0	0	2506	1058	37	1	1609	1	C9orf93	9	15724841	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	9471874	15724841	125488590	54	3858											
AQP7	364	hgsc.bcm.edu	37	chr9	33395108	33395108	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctcatgaactcggccaGgaactctcgcaccatcttcc	8	10	8	15	2	3	1	1	1	2	0	6	2	4	2	3	2	3	2	3	2	2	1	rs2381003	byfrequency	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	33395108	G	A	33395108	2	1	68	1	0	0	0	0	0	0	0	1	831	991	35	2		2	AQP7	9	33395108	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10	17670267	33395108	107818323	55	3859											
SMC2	10592	broad.mit.edu;ucsc.edu	37	chr9	106864804	106864804	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatctcaagaagaaaaatCtggcatgtgaggaaagcaaa	18	8	10	5	0	2	4	1	2	2	2	3	5	2	5	0	2	1	2	0	2	6	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	106864804	A	A	106864804	3	1	68	1	0	0	0	0	1	0	0	0	14785	912	32	4	1000	4	SMC2	9	106864804	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	73469696	106864804	34348627	56	3860											
CDK5RAP2	55755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123205921	123205921	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgtagcttctttgctgaTcactgtccatttccttgtct	4	19	6	12	1	4	1	1	1	3	0	7	1	6	1	2	0	2	3	2	0	1	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	123205921	T	A	123205921	3	1	68	1	0	0	0	0	1	0	0	0	3146	1435	50	5	2620	5	CDK5RAP2	9	123205921	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10	16341117	123205921	18007510	57	3861											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	390776	390776	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctagcatcccagttgtGgacacgctgaagtcgagata	11	8	11	11	2	0	2	0	1	0	1	2	4	1	3	2	1	2	4	2	1	3	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	390776	G	T	390776	2	4	68	1	0	0	0	0	0	0	0	1	4529	1335	47	4		4	DIP2C	10	390776	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10		390776	135143971	58	3862											
NRBF2	29982	hgsc.bcm.edu	37	chr10	64913306	64913306	+	Frame_Shift_Del	DEL	T	T	-																															gaattgcaaagggatagccaTatgaaacagctcctcctcat																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		-	64913306	T	-	64913306	7	5	68	1	0	1	0	1	0	0	0	0	10641	1403	49	0	206	0	NRBF2	10	64913306	Frame_Shift_Del	DEL	T	TCGA-B0-4712-01A-01D-1501-10	64522530	64913306	70621441	59	3863											
CRTAC1	55118	hgsc.bcm.edu	37	chr10	99683108	99683108	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatcgctcaggatgtcttcCcaccggttattgcggaactt	7	13	9	12	3	3	0	2	0	1	0	5	2	4	2	2	3	2	2	2	3	2	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	99683108	C	A	99683108	3	1	68	1	0	0	0	0	1	0	0	0	3896	624	22	4	1562	4	CRTAC1	10	99683108	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	34769802	99683108	35851639	60	3864											
ATRNL1	26033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	116881513	116881513	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattttgctacagaatgtaGctgggatcatatgtatgttt	10	17	9	5	0	2	1	2	0	0	1	2	2	2	2	0	1	3	5	0	1	5	7	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	116881513	G	C	116881513	3	2	68	1	0	0	0	0	1	0	0	0	1207	971	34	4	438	4	ATRNL1	10	116881513	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	17198405	116881513	18653234	61	3865											
DMBT1	1755	hgsc.bcm.edu	37	chr10	124345866	124345866	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggctctcccataactgtGgccatagtgaagacgctggt	8	10	12	11	1	1	2	0	1	1	1	2	2	1	2	2	3	1	3	2	3	3	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	124345866	G	C	124345866	3	2	68	1	0	0	0	0	1	0	0	0	4577	1348	47	4	1812	4	DMBT1	10	124345866	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	7464353	124345866	11188881	62	3866											
MUC6	4588	broad.mit.edu	37	chr11	1021245	1021245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacaccccctcctcgtggtCgaagtactcatcctgggagc	7	8	10	16	2	1	0	1	0	0	0	5	2	3	1	4	2	2	2	4	2	2	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	1021245	T	T	1021245	3	4	68	1	0	0	0	0	1	0	0	0	9980	884	31	1	3788	1	MUC6	11	1021245	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10		1021245	133985271	63	3867											
OR51T1	401665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4903717	4903717	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acatattccaaaccttggatCagcagtttttggggactgtt	10	14	9	8	0	1	0	1	0	0	0	2	2	2	2	2	3	2	3	2	3	2	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	4903717	C	T	4903717	2	4	68	1	0	0	0	0	0	0	0	1	11106	816	29	2		2	OR51T1	11	4903717	Silent	SNP	C	TCGA-B0-4712-01A-01D-1501-10	3882472	4903717	130102799	64	3868											
SLC17A6	57084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22364813	22364813	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagccaaattcaactgggaCccggaaaccgtggggatgat	14	6	12	9	2	1	1	1	1	0	0	1	4	1	4	3	4	3	0	3	4	4	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	22364813	C	A	22364813	3	1	68	1	0	0	0	0	1	0	0	0	14423	506	18	4	370	4	SLC17A6	11	22364813	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	17461096	22364813	112641703	65	3869											
GLYAT	10249	broad.mit.edu;ucsc.edu	37	chr11	58477555	58477555	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaatgaatctctggctcCtctcattaccaccaaaatgc	11	11	5	14	0	3	1	2	1	2	0	6	1	4	1	3	1	2	2	3	1	5	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	58477555	A	A	58477555	3	1	68	1	0	0	0	0	1	0	0	0	6479	681	24	4	319	4	GLYAT	11	58477555	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	36112742	58477555	76528961	66	3870											
MS4A6E	245802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60102420	60102420	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataatgctcccatcaaatGtcatcaacttctcccaagca	13	11	3	14	0	5	0	4	0	1	0	7	0	6	0	2	0	3	2	2	0	4	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	60102420	G	C	60102420	3	2	68	1	0	0	0	0	1	0	0	0	9865	1377	48	4	54	4	MS4A6E	11	60102420	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	1624865	60102420	74904096	67	3871											
MTA2	9219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62362921	62362921	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttgtgtaaggagagagaCtttgagcttcaggtctggat	9	13	15	4	0	2	3	1	1	1	2	2	6	2	4	0	4	1	3	0	4	1	4	rs139421444		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	62362921	C	T	62362921	3	4	68	1	0	0	0	0	1	0	0	0	9909	565	20	2	728	2	MTA2	11	62362921	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	2260501	62362921	72643595	68	3872											
NNMT	4837	broad.mit.edu;hgsc.bcm.edu	37	chr11	114183068	114183068	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccctgggccgggaggcagtaGaggctgctgtgaaagaggct	8	6	18	9	1	0	3	0	1	0	2	0	4	0	4	2	5	1	5	2	5	2	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	114183068	G	C	114183068	3	2	68	1	0	0	0	0	1	0	0	0	10509	943	33	4	674	4	NNMT	11	114183068	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	51820147	114183068	20823448	69	3873											
SLC6A12	6539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	319083	319083	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtcttcctggtccaactTctctccctcctcggggaccc	3	12	7	19	2	2	0	0	0	2	0	9	1	6	1	5	3	1	0	5	3	1	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	319083	T	C	319083	3	2	68	1	0	0	0	0	1	0	0	0	14677	1792	62	3	1830	3	SLC6A12	12	319083	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10		319083	133532812	70	3874											
UHRF1BP1L	23074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100478292	100478292	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaggcatgtgttggggatTtaggaggtgaacctacatta	11	11	15	4	0	0	2	0	1	0	1	0	5	0	4	1	5	2	2	1	5	4	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	100478292	T	A	100478292	3	1	68	1	0	0	0	0	1	0	0	0	16968	1841	64	5	3216	5	UHRF1BP1L	12	100478292	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10	100159209	100478292	33373603	71	3875											
SLC17A8	246213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100813894	100813894	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatgaggaagagctgaCatcctaccagaatgaagaga	15	7	11	8	0	0	7	0	4	0	3	1	9	1	8	3	1	2	1	3	1	4	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	100813894	C	T	100813894	3	4	68	1	0	0	0	0	1	0	0	0	14425	478	17	2	1773	2	SLC17A8	12	100813894	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	335602	100813894	33038001	72	3876											
NT5DC3	51559	broad.mit.edu;hgsc.bcm.edu	37	chr12	104208888	104208888	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaagttgctcataatggAaggaaccaattctggaaata	17	9	8	7	0	2	0	1	0	1	0	2	3	2	3	1	3	3	2	1	3	8	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	104208888	A	C	104208888	3	2	68	1	0	0	0	0	1	0	0	0	10692	246	9	5	1478	5	NT5DC3	12	104208888	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	3394994	104208888	29643007	73	3877											
STARD13	90627	broad.mit.edu;hgsc.bcm.edu	37	chr13	33684212	33684212	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccttccacagcttcagcgGgttcccgtcgcccaccttgg	5	9	10	17	3	1	0	1	0	0	0	4	0	3	0	5	2	3	2	5	2	0	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	33684212	G	T	33684212	3	4	68	1	0	0	0	0	1	0	0	0	15257	1232	43	4	508	4	STARD13	13	33684212	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		33684212	81485666	74	3878											
SUGT1	10910	broad.mit.edu;hgsc.bcm.edu	37	chr13	53231666	53231666	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacatgtttgtttttgtaGgagctgactaaggctttgga	8	16	11	6	0	0	1	0	1	0	0	1	3	1	3	1	3	1	5	1	3	2	6	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	53231666	G	C	53231666	5	2	68	1	0	0	0	0	0	0	1	0	15370	1014	35	4	106	4	SUGT1	13	53231666	Splice_Site	SNP	G	TCGA-B0-4712-01A-01D-1501-10	19547454	53231666	61938212	75	3879											
DOCK9	23348	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	99505670	99505670	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaacctaccatcagacAtgctctttaagatgtagagg	12	14	7	8	0	2	3	1	0	1	3	2	3	2	3	2	1	3	2	2	1	4	7	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	99505670	A	T	99505670	3	4	68	1	0	0	0	0	1	0	0	0	4694	217	8	5	2352	5	DOCK9	13	99505670	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	46274004	99505670	15664208	76	3880											
OR4N2	390429	broad.mit.edu	37	chr14	20296229	20296229	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacagtggcctgatgacaCtcctgtgctttctggggctt	6	13	11	11	0	2	2	1	2	1	0	3	2	3	2	2	3	2	2	2	3	1	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	20296229	A	A	20296229	3	1	68	1	0	0	0	0	1	0	0	0	11077	565	20	4	624	4	OR4N2	14	20296229	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10		20296229	87053311	77	3881											
ATP5S	27109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	50779730	50779730	+	RNA	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagtactgaaccgagataCagttttaaatgtgctgtgcg	11	13	11	6	2	0	3	0	2	0	1	0	4	0	3	1	0	5	3	1	0	5	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	50779730	C	T	50779730	1	4	68	0	1	0	0	0	0	0	0	0	1163	493	17	2		2	ATP5S	14	50779730	RNA	SNP	C	TCGA-B0-4712-01A-01D-1501-10	30483501	50779730	56569810	78	3882											
FBXO34	55030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55817459	55817459	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaacctggaaataccaaGgaaaaaattgcattctttgc	16	10	8	7	0	1	1	0	1	1	0	1	3	1	3	2	2	4	1	2	2	7	4	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	55817459	G	T	55817459	3	4	68	1	0	0	0	0	1	0	0	0	5744	991	35	4	353	4	FBXO34	14	55817459	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	5037729	55817459	51532081	79	3883											
WARS	7453	broad.mit.edu	37	chr14	100809696	100809696	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgctgaaggagggagcAgcctggatggcaggaaaact	12	6	17	6	0	0	1	0	1	0	0	0	6	0	5	1	5	4	4	1	5	3	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	100809696	G	G	100809696	2	3	68	1	0	0	0	0	0	0	0	1	17248	175	7	3		3	WARS	14	100809696	Silent	SNP	A	TCGA-B0-4712-01A-01D-1501-10	44992237	100809696	6539844	80	3884											
TECPR2	9895	broad.mit.edu;hgsc.bcm.edu	37	chr14	102916037	102916037	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataatccatgccactcactcGgtggccacagcagcccaagc	11	6	8	16	1	1	0	1	0	0	0	3	0	2	0	4	2	4	1	4	2	2	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	102916037	G	A	102916037	2	1	68	1	0	0	0	0	0	0	0	1	15743	1103	39	1		1	TECPR2	14	102916037	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10	2106341	102916037	4433503	81	3885											
DLL4	54567	broad.mit.edu;hgsc.bcm.edu	37	chr15	41223809	41223809	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccctcacaaggctgcGctactcttaccgggtcatct	8	9	8	16	2	4	0	2	0	2	0	4	0	4	0	2	2	4	3	2	2	3	2	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	41223809	G	A	41223809	3	1	68	1	0	0	0	0	1	0	0	0	4568	1087	38	1	517	1	DLL4	15	41223809	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		41223809	61307583	82	3886											
PIF1	80119	hgsc.bcm.edu	37	chr15	65114484	65114484	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaaaggcatggagggtGgtgcccccgatgtggcaggc	7	6	17	11	1	0	0	0	0	0	0	0	2	0	1	3	6	2	3	3	6	1	0	rs8031690	bycluster;byfrequency;by1000genomes	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	65114484	G	A	65114484	2	1	68	1	0	0	0	0	0	0	0	1	11883	1335	47	2		2	PIF1	15	65114484	Silent	SNP	G	TCGA-B0-4712-01A-01D-1501-10	23890675	65114484	37416908	83	3887											
TSC2	7249	hgsc.bcm.edu;ucsc.edu	37	chr16	2112006	2112006	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagagatgtgcggaccagagGcctgtgagaccccctcctgg	8	6	15	12	1	0	3	0	1	0	3	1	7	1	4	5	3	1	0	5	3	0	0	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	2112006	G	T	2112006	3	4	68	1	0	0	0	0	1	0	0	0	16605	1194	42	4	1296	4	TSC2	16	2112006	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		2112006	88242747	84	3888											
HIRIP3	8479	broad.mit.edu;hgsc.bcm.edu	37	chr16	30006027	30006027	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgggcaggtccctctgccGttcctcatcactgctctcct	3	12	9	17	2	4	0	2	0	2	0	7	0	6	0	4	2	3	3	4	2	0	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	30006027	G	A	30006027	3	1	68	1	0	0	0	0	1	0	0	0	7121	1144	40	1	1247	1	HIRIP3	16	30006027	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	27894021	30006027	60348726	85	3889											
NLRC5	84166	hgsc.bcm.edu;ucsc.edu	37	chr16	57065327	57065327	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgcagggaggcggaccTcatcttccttctttccccgc	5	11	9	16	2	3	0	1	0	2	0	6	2	6	2	5	3	1	1	5	3	0	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	57065327	T	G	57065327	3	3	68	1	0	0	0	0	1	0	0	0	10470	1551	54	5	2463	5	NLRC5	16	57065327	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10	27059300	57065327	33289426	86	3890											
CHD3	1107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7797756	7797756	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgtcctgcagtggccGgggaggaggaggttgatggc	5	8	21	7	1	0	1	0	1	0	0	1	4	1	4	2	8	1	3	2	8	0	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	7797756	G	A	7797756	3	1	68	1	0	0	0	0	1	0	0	0	3326	1116	39	1	1410	1	CHD3	17	7797756	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		7797756	73397454	87	3891											
C17orf104	284071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42745374	42745374	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccacccatttggccatTcagttgttccactgttggat	7	13	7	14	0	1	0	1	0	0	0	2	1	2	1	5	2	0	3	5	2	0	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	42745374	T	G	42745374	3	3	68	1	0	0	0	0	1	0	0	0	1851	1783	62	5	2113	5	C17orf104	17	42745374	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10	34947618	42745374	38449836	88	3892											
EMILIN2	84034	broad.mit.edu;hgsc.bcm.edu	37	chr18	2891708	2891708	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcagccctgccaggagtgtCagggtcaggagatgaacggg	10	5	17	9	1	2	2	2	1	0	1	2	4	2	3	2	4	4	1	2	4	1	0	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	2891708	C	G	2891708	4	3	68	1	0	0	0	0	0	1	0	0	5094	838	29	4	1597	4	EMILIN2	18	2891708	Nonsense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10		2891708	75185540	89	3893											
DNMT1	1786	broad.mit.edu	37	chr19	10257171	10257171	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttctttttgcctcatcTcagccagacgggcacagctc	7	12	9	13	1	3	1	2	0	2	1	5	2	3	2	2	2	3	2	2	2	0	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	10257171	G	G	10257171	3	3	68	1	0	0	0	0	1	0	0	0	4675	1551	54	5	2204	5	DNMT1	19	10257171	Missense_Mutation	SNP	T	TCGA-B0-4712-01A-01D-1501-10		10257171	48871812	90	3894											
EMR3	84658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14758037	14758037	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagacttggagagagacaCgttccttttgggtccaatag	11	10	11	9	1	0	3	0	0	0	3	2	5	2	3	2	2	0	1	2	2	2	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	14758037	C	T	14758037	3	4	68	1	0	0	0	0	1	0	0	0	5106	536	19	1	1156	1	EMR3	19	14758037	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	4500866	14758037	44370946	91	3895											
OR7A10	390892	hgsc.bcm.edu	37	chr19	14952560	14952560	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattgtggccaggatgatgaGcaggttcccgagcacagtga	10	8	15	8	1	0	3	0	3	0	0	1	6	1	4	2	3	2	3	2	3	0	2	rs12985894	bycluster;byfrequency;by1000genomes	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	14952560	G	T	14952560	3	4	68	1	0	0	0	0	1	0	0	0	11214	971	34	4	803	4	OR7A10	19	14952560	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	194523	14952560	44176423	92	3896											
OR1I1	126370	hgsc.bcm.edu;ucsc.edu	37	chr19	15198241	15198241	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagtaatggccatcgaccGcttcgtggccattgtccacc	7	9	11	14	3	0	0	0	0	0	0	3	1	1	0	5	3	0	3	5	3	1	3	rs75278395	bycluster;byfrequency;by1000genomes	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	15198241	G	A	15198241	3	1	68	1	0	0	0	0	1	0	0	0	10958	1087	38	1	367	1	OR1I1	19	15198241	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	245681	15198241	43930742	93	3897											
ZNF208	7757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	22170044	22170044	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcttccaccatctcatgtCtcttcatattccaggactct	8	16	3	14	0	5	0	2	0	4	0	9	1	7	1	3	1	0	0	3	1	1	5	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	22170044	C	G	22170044	3	3	68	1	0	0	0	0	1	0	0	0	17765	913	32	4	3650	4	ZNF208	19	22170044	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	6971803	22170044	36958939	94	3898											
PSMC4	5704	hgsc.bcm.edu	37	chr19	40480501	40480501	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaggaggtgcgggaggcCgtggagctcccgctcacgca	8	4	17	12	4	1	0	1	0	0	0	2	3	2	3	2	5	3	4	2	5	1	0	rs11542840	bycluster;byfrequency;by1000genomes	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	40480501	C	T	40480501	2	4	68	1	0	0	0	0	0	0	0	1	12691	639	23	1		1	PSMC4	19	40480501	Silent	SNP	C	TCGA-B0-4712-01A-01D-1501-10	18310457	40480501	18648482	95	3899											
GRWD1	83743	broad.mit.edu;hgsc.bcm.edu	37	chr19	48954349	48954349	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggacatccgggcagcccCcagcaaggcctgcatgctca	8	5	12	16	1	1	0	1	0	0	0	2	1	2	1	4	3	4	4	4	3	1	0	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	48954349	C	T	48954349	3	4	68	1	0	0	0	0	1	0	0	0	6811	623	22	2	906	2	GRWD1	19	48954349	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	8473848	48954349	10174634	96	3900											
AP2A1	160	broad.mit.edu;hgsc.bcm.edu	37	chr19	50309986	50309986	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcccgtctcccgtcacCtgtgtgagctgctggcacag	6	8	13	14	2	2	1	1	1	1	0	3	2	2	2	3	2	3	3	3	2	0	0	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	50309986	C	A	50309986	3	1	68	1	0	0	0	0	1	0	0	0	739	680	24	4	2999	4	AP2A1	19	50309986	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10	1355637	50309986	8818997	97	3901											
LILRB4	11006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55177763	55177763	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggacgggggcctacagaGgaggtaattctgcccaaaga	13	5	14	9	1	1	2	0	0	1	2	1	4	1	4	2	5	2	1	2	5	4	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	55177763	G	A	55177763	3	1	68	1	0	0	0	0	1	0	0	0	8793	1000	35	2	977	2	LILRB4	19	55177763	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10	4867777	55177763	3951220	98	3902											
ZNF544	27300	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58772269	58772269	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattctgaaaaagatcgagcTagggaagaactatcccacca	17	7	8	9	1	1	3	0	1	1	2	3	5	2	4	2	1	2	1	2	1	7	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	58772269	T	C	58772269	2	2	68	1	0	0	0	0	0	0	0	1	17976	1509	53	3		3	ZNF544	19	58772269	Silent	SNP	T	TCGA-B0-4712-01A-01D-1501-10	3594506	58772269	356714	99	3903											
C20orf194	25943	broad.mit.edu;hgsc.bcm.edu	37	chr20	3355713	3355713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgccaattctactacagtCtcgaaccatgtccacaaagc	14	9	5	13	1	2	0	0	0	2	0	4	1	3	0	3	0	5	0	3	0	6	3	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		T	3355713	C	T	3355713	3	4	68	1	0	0	0	0	1	0	0	0	2099	913	32	2	3196	2	C20orf194	20	3355713	Missense_Mutation	SNP	C	TCGA-B0-4712-01A-01D-1501-10		3355713	59669807	100	3904											
ARFGEF2	10564	hgsc.bcm.edu;ucsc.edu	37	chr20	47601976	47601982	+	Frame_Shift_Del	DEL	CAAGGTT	CAAGGTT	-																															cgattttctgggagatagcgCaaggttcaacaaggaggtga																								novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	CAAGGTT	CAAGGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		-	47601982	CAAGGTT	-	47601976	7	5	68	1	0	1	0	1	0	0	0	0	853	710	25	0	2164	0	ARFGEF2	20	47601976	Frame_Shift_Del	DEL	CAAGGTT	TCGA-B0-4712-01A-01D-1501-10	44246263	47601976	15423544	101	3905											
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21192985	21192985	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaactggaagatcccatggAaatccactggacacatgcaa	15	7	8	11	0	0	1	0	0	0	1	2	4	2	4	2	3	2	1	2	3	4	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		C	21192985	A	C	21192985	3	2	68	1	0	0	0	0	1	0	0	0	11873	246	9	5	6333	5	PI4KA	22	21192985	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10		21192985	30111581	102	3906											
CDX4	1046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	72673463	72673463	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaccatccagagaaaatcaGagctggcagttaacctgggc	13	7	10	11	0	2	2	2	0	0	2	3	3	3	2	3	2	2	3	3	2	3	1	novel		TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		A	72673463	G	A	72673463	3	1	68	1	0	0	0	0	1	0	0	0	3184	943	33	2	619	2	CDX4	23	72673463	Missense_Mutation	SNP	G	TCGA-B0-4712-01A-01D-1501-10		72673463	82597097	103	3907											
RBMX	27316	hgsc.bcm.edu	37	chrX	135957716	135957716	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttcgaggtggacctccAtaactatctcttccacgtga	8	12	7	14	2	1	1	0	1	1	0	6	3	4	2	4	2	1	0	4	2	2	4	rs142284545	byfrequency	TCGA-B0-4712-01A-01D-1501-10	TCGA-B0-4712-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	032b33f8-ff79-47de-8cb2-d744eab8bd1a	b7ef4bb0-2d50-47f1-80df-3aae8da90df4		G	135957716	A	G	135957716	3	3	68	1	0	0	0	0	1	0	0	0	13153	227	8	3	676	3	RBMX	23	135957716	Missense_Mutation	SNP	A	TCGA-B0-4712-01A-01D-1501-10	63284253	135957716	19312844	104	3908											
ATP13A2	23400	hgsc.bcm.edu;ucsc.edu	37	chr1	17332192	17332192	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacttaccacggatgaaactGaggagctgaggggatctatt	12	9	12	8	1	1	3	0	3	1	0	1	6	1	6	1	4	3	1	1	4	3	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	17332192	G	A	17332192	3	1	69	1	0	0	0	0	1	0	0	0	1124	1294	45	2	3798	2	ATP13A2	1	17332192	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10		17332192	231918429	1	3909											
KCNN3	3782	hgsc.bcm.edu	37	chr1	154705507	154705507	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgaggagacagacacctTtcccacagtatgtgtggggc	10	8	13	10	0	0	3	0	1	0	2	1	4	1	3	2	3	0	1	2	3	1	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	154705507	T	G	154705507	3	3	69	1	0	0	0	0	1	0	0	0	8080	1841	64	5	653	5	KCNN3	1	154705507	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	137373315	154705507	94545114	2	3910											
INSRR	3645	hgsc.bcm.edu	37	chr1	156823640	156823640	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagcacccagcacaccagGgcacacgtcagcacactcct	12	3	8	18	1	1	0	1	0	0	0	2	0	2	0	3	1	4	5	3	1	0	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	156823640	G	T	156823640	3	4	69	1	0	0	0	0	1	0	0	0	7774	1232	43	4	3435	4	INSRR	1	156823640	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	2118133	156823640	92426981	3	3911											
DHX9	1660	hgsc.bcm.edu;ucsc.edu	37	chr1	182841491	182841491	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgacttccttttggtagTactgcgtgatgttgttcagg	6	16	12	7	1	1	2	1	2	0	0	2	3	2	2	1	2	2	4	1	2	2	7	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	182841491	T	G	182841491	3	3	69	1	0	0	0	0	1	0	0	0	4516	1638	57	5	1631	5	DHX9	1	182841491	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	26017851	182841491	66409130	4	3912											
SLC45A3	85414	hgsc.bcm.edu	37	chr1	205631992	205631992	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctccgggcctcggtgccCggctcagctctgggcacgcc	2	8	14	17	4	3	0	1	0	2	0	5	0	3	0	4	4	2	3	4	4	0	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	205631992	C	A	205631992	2	1	69	1	0	0	0	0	0	0	0	1	14644	639	23	4		4	SLC45A3	1	205631992	Silent	SNP	C	TCGA-B0-4713-01A-01D-1361-10	22790501	205631992	43618629	5	3913											
FMN2	56776	hgsc.bcm.edu	37	chr1	240256745	240256745	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccccaggatcaagaggCggccggaaccctccctgagc	10	3	13	15	2	1	3	1	1	0	2	2	5	2	5	5	4	3	0	5	4	2	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	240256745	C	T	240256745	3	4	69	1	0	0	0	0	1	0	0	0	5950	759	27	1	1338	1	FMN2	1	240256745	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	34624753	240256745	8993876	6	3914											
LTBP1	4052	hgsc.bcm.edu	37	chr2	33412083	33412083	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagccaggcaaggcgttgggGacgcatgtcatccattcaac	10	7	12	12	2	2	0	2	0	0	0	3	1	3	1	2	4	2	3	2	4	2	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	33412083	G	T	33412083	2	4	69	1	0	0	0	0	0	0	0	1	9073	1161	41	4		4	LTBP1	2	33412083	Silent	SNP	G	TCGA-B0-4713-01A-01D-1361-10		33412083	209787290	7	3915											
LRPPRC	10128	hgsc.bcm.edu	37	chr2	44190792	44190792	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacataatctgtatatgtttCctgatcaggatgtactccca	11	14	6	10	0	2	1	1	1	1	0	4	2	4	2	2	1	1	3	2	1	4	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	44190792	C	A	44190792	4	1	69	1	0	0	0	0	0	1	0	0	8965	864	30	4	2869	4	LRPPRC	2	44190792	Nonsense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	10778709	44190792	199008581	8	3916											
C2orf65	130951	hgsc.bcm.edu;ucsc.edu	37	chr2	74787365	74787365	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgtgagtacaggtggctTtgaacatgcaaggggttgta	10	11	16	4	0	0	2	0	2	0	0	0	2	0	2	0	5	3	5	0	5	4	4	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	74787365	T	G	74787365	3	3	69	1	0	0	0	0	1	0	0	0	2184	1838	64	5	269	5	C2orf65	2	74787365	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	30596573	74787365	168412008	9	3917											
ITPRIPL1	150771	hgsc.bcm.edu;ucsc.edu	37	chr2	96993827	96993827	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttgggccgtggcctccaGcaaaggtccctccatcattt	6	12	9	14	1	2	0	1	0	1	0	5	0	5	0	5	3	1	1	5	3	1	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	96993827	G	A	96993827	2	1	69	1	0	0	0	0	0	0	0	1	7924	962	34	2		2	ITPRIPL1	2	96993827	Silent	SNP	G	TCGA-B0-4713-01A-01D-1361-10	22206462	96993827	146205546	10	3918											
IFIH1	64135	hgsc.bcm.edu;ucsc.edu	37	chr2	163150172	163150172	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttctgccaaacttgtgTctgattctgcaaaggaaaac	11	13	7	10	0	3	1	0	1	3	0	4	2	4	2	2	1	4	1	2	1	4	4	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	163150172	T	C	163150172	3	2	69	1	0	0	0	0	1	0	0	0	7520	1667	58	3	2353	3	IFIH1	2	163150172	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	66156345	163150172	80049201	11	3919											
SCN7A	6332	hgsc.bcm.edu;ucsc.edu	37	chr2	167262931	167262931	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcttcttttttaacatagGcaaaattatacattccaaat	15	15	3	8	0	1	0	0	0	1	0	2	0	2	0	1	1	3	2	1	1	7	8	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	167262931	G	A	167262931	3	1	69	1	0	0	0	0	1	0	0	0	13925	1203	42	2	844	2	SCN7A	2	167262931	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	4112759	167262931	75936442	12	3920											
ZDBF2	57683	hgsc.bcm.edu;ucsc.edu	37	chr2	207171516	207171516	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagttgacttttgattctgAcccgcctcttctgtcagtta	6	17	8	10	1	4	4	1	4	3	0	4	4	4	4	2	0	0	2	2	0	1	6	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	207171516	A	T	207171516	3	4	69	1	0	0	0	0	1	0	0	0	17598	275	10	5	2274	5	ZDBF2	2	207171516	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	39908585	207171516	36027857	13	3921											
ERBB4	2066	hgsc.bcm.edu;ucsc.edu	37	chr2	212530139	212530139	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccccctgtaagccatctgGacatttttccacacagtttg	8	13	7	13	0	1	0	0	0	1	0	2	1	2	1	4	1	2	2	4	1	1	4	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	212530139	G	T	212530139	3	4	69	1	0	0	0	0	1	0	0	0	5209	1174	41	4	2202	4	ERBB4	2	212530139	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	5358623	212530139	30669234	14	3922											
STK11IP	114790	hgsc.bcm.edu	37	chr2	220466798	220466798	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagcaggagcctccaggCattagaggtaaggagagtga	12	7	15	7	0	0	3	0	1	0	2	1	5	1	4	2	4	3	4	2	4	2	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	220466798	C	A	220466798	3	1	69	1	0	0	0	0	1	0	0	0	15289	710	25	4	482	4	STK11IP	2	220466798	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	7936659	220466798	22732575	15	3923											
SLC16A14	151473	hgsc.bcm.edu	37	chr2	230923815	230923815	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacatgaacatacccactAtcaaggtgatgcccatgctg	13	8	7	13	0	1	2	1	2	0	0	1	2	1	2	2	1	4	1	2	1	4	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	230923815	A	G	230923815	3	3	69	1	0	0	0	0	1	0	0	0	14409	449	16	3	1294	3	SLC16A14	2	230923815	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	10457017	230923815	12275558	16	3924											
VHL	7428	hgsc.bcm.edu	37	chr3	10183734	10183734	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgcgctcggtgaactCgcgcgagccctcccaggtca	5	7	13	16	6	1	1	1	1	0	0	4	2	2	1	2	2	4	2	2	2	1	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01W-1359-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	130b417a-452b-41fc-b2d9-50b221ecc0d2	84f4e51b-ab14-48f2-a230-bb5c15195caa		A	10183734	C	A	10183734	4	1	69	1	0	0	0	0	0	1	0	0	17161	893	31	4	205	4	VHL	3	10183734	Nonsense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10		10183734	187838696	17	3925											
SCN10A	6336	hgsc.bcm.edu;ucsc.edu	37	chr3	38797358	38797358	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgacactcttggctttattCtatgccttctctcactggca	6	16	6	13	0	4	1	1	1	3	0	5	1	4	1	1	2	1	2	1	2	2	6	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	38797358	C	T	38797358	3	4	69	1	0	0	0	0	1	0	0	0	13914	913	32	2	4560	2	SCN10A	3	38797358	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	28613624	38797358	159225072	18	3926											
PTH1R	5745	hgsc.bcm.edu	37	chr3	46939910	46939910	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttacaccgtgggctacTccgtgtccctggcgtccctc	4	12	10	15	3	0	1	0	1	0	0	4	1	3	1	4	2	2	1	4	2	2	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	46939910	T	A	46939910	3	1	69	1	0	0	0	0	1	0	0	0	12760	1551	54	5	608	5	PTH1R	3	46939910	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	8142552	46939910	151082520	19	3927											
BAP1	8314	ucsc.edu	37	chr3	52443729	52443729	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagggagaaaaggctcttaCcgaaatcttccacgagcagg	13	6	12	10	2	2	1	0	0	2	1	3	4	3	1	2	3	2	3	2	3	4	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	C	G	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	52443729	C	G	52443729	5	3	69	1	0	0	0	0	0	0	1	0	1311	521	18	4	2185	4	BAP1	3	52443729	Splice_Site	SNP	C	TCGA-B0-4713-01A-01D-1361-10	5503819	52443729	145578701	20	3928											
ROBO2	6092	hgsc.bcm.edu	37	chr3	77626662	77626662	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccaagtgccccaccacagtCtgtcactgtactgacagttg	9	9	8	15	0	2	1	1	1	1	0	2	1	2	1	4	0	2	2	4	0	2	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	77626662	C	G	77626662	3	3	69	1	0	0	0	0	1	0	0	0	13516	913	32	4	2285	4	ROBO2	3	77626662	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	25182933	77626662	120395768	21	3929											
CCDC14	64770	hgsc.bcm.edu;ucsc.edu	37	chr3	123663774	123663774	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatatctgtgtttccacttActgttggaagtacagatata	12	15	8	6	0	1	1	0	0	1	1	2	3	2	2	1	1	2	3	1	1	7	7	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	123663774	A	C	123663774	3	2	69	1	0	0	0	0	1	0	0	0	2773	391	14	5	1472	5	CCDC14	3	123663774	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	46037112	123663774	74358656	22	3930											
ARFIP1	27236	hgsc.bcm.edu;ucsc.edu	37	chr4	153784771	153784771	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaaggatttgaagcattCattaccatctggacttggtc	10	14	9	8	0	2	1	1	1	1	0	3	3	2	3	1	3	3	2	1	3	3	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	153784771	C	A	153784771	4	1	69	1	0	0	0	0	0	1	0	0	854	838	29	4	113	4	ARFIP1	4	153784771	Nonsense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10		153784771	37369505	23	3931											
ETF1	2107	hgsc.bcm.edu	37	chr5	137853329	137853329	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagtcaatgttgactttcTtttcctttccttcttctgtt	6	21	4	10	0	4	1	1	1	3	0	6	1	6	1	2	0	0	2	2	0	2	8	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	137853329	T	C	137853329	3	2	69	1	0	0	0	0	1	0	0	0	5268	1609	56	3	1022	3	ETF1	5	137853329	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10		137853329	43061931	24	3932											
PCYOX1L	78991	hgsc.bcm.edu	37	chr5	148747050	148747050	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccacagtgacctctgtgacCctgcacagcacaggtgagta	10	7	11	13	0	1	3	0	3	1	0	1	3	1	3	3	1	2	3	3	1	1	1	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	148747050	C	A	148747050	2	1	69	1	0	0	0	0	0	0	0	1	11609	610	22	4		4	PCYOX1L	5	148747050	Silent	SNP	C	TCGA-B0-4713-01A-01D-1361-10	10893721	148747050	32168210	25	3933											
ITK	3702	hgsc.bcm.edu;ucsc.edu	37	chr5	156641211	156641215	+	Frame_Shift_Del	DEL	ATAAT	ATAAT	-																															acctgtttcagaaacgaggaAtaataacagtttggtgccta																								novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	ATAAT	ATAAT	ATAAT	-	ATAAT	ATAAT	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		-	156641215	ATAAT	-	156641211	7	5	69	1	0	1	0	1	0	0	0	0	7909	101	4	0	349	0	ITK	5	156641211	Frame_Shift_Del	DEL	ATAAT	TCGA-B0-4713-01A-01D-1361-10	7894161	156641211	24274049	26	3934											
KIAA0319	9856	hgsc.bcm.edu	37	chr6	24596479	24596479	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatctttgcctagaaaggtCaagtcctttctgatatcctc	10	14	6	11	0	3	2	1	1	2	1	6	2	5	2	3	1	1	0	3	1	5	4	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	24596479	C	A	24596479	3	1	69	1	0	0	0	0	1	0	0	0	8168	825	29	4	2871	4	KIAA0319	6	24596479	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10		24596479	146518588	27	3935											
CUL9	23113	hgsc.bcm.edu	37	chr6	43174224	43174224	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctgtgatgcccttgacCgtttctccagtttctacagc	7	15	7	12	1	3	2	0	2	3	0	4	2	3	2	3	0	3	2	3	0	2	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	43174224	C	T	43174224	3	4	69	1	0	0	0	0	1	0	0	0	4061	652	23	1	5286	1	CUL9	6	43174224	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	18577745	43174224	127940843	28	3936											
TRDN	10345	hgsc.bcm.edu;ucsc.edu	37	chr6	123539746	123539746	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagggtcatacatgtgtgtTtactgtccttgttgcttctg	6	18	10	7	0	2	0	1	0	1	0	3	0	3	0	1	1	3	3	1	1	3	7	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	123539746	T	G	123539746	3	3	69	1	0	0	0	0	1	0	0	0	16467	1848	64	5	3	5	TRDN	6	123539746	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	80365522	123539746	47575321	29	3937											
SYNE1	23345	hgsc.bcm.edu;ucsc.edu	37	chr6	152621860	152621860	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcactgttggttccctcCtccccagactcctcagtgac	6	12	6	17	0	2	2	2	1	1	1	7	2	6	2	5	1	0	2	5	1	0	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	152621860	C	A	152621860	3	1	69	1	0	0	0	0	1	0	0	0	15444	680	24	4	9084	4	SYNE1	6	152621860	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	29082114	152621860	18493207	30	3938											
EIF2AK1	27102	hgsc.bcm.edu	37	chr7	6068611	6068611	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctgtgcaggccagaccaAagtctcctatttttacttgc	8	14	8	11	0	2	1	0	0	2	1	3	1	2	1	3	1	3	1	3	1	3	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	6068611	A	G	6068611	3	3	69	1	0	0	0	0	1	0	0	0	4996	14	1	3	523	3	EIF2AK1	7	6068611	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10		6068611	153070052	31	3939											
ABCA13	154664	hgsc.bcm.edu;ucsc.edu	37	chr7	48654937	48654937	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatggttaacggcagctTcaaatgtcttggttctcctc	9	14	8	10	1	3	0	1	0	2	0	5	0	3	0	1	3	2	4	1	3	3	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	48654937	T	A	48654937	3	1	69	1	0	0	0	0	1	0	0	0	31	1783	62	5	14864	5	ABCA13	7	48654937	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	42586326	48654937	110483726	32	3940											
TMEM66	51669	hgsc.bcm.edu;ucsc.edu	37	chr8	29931544	29931544	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcatagtggagggtaagaGcttttacatcccgcagcaac	11	9	12	9	1	1	1	1	0	0	1	2	2	2	2	1	3	4	4	1	3	4	4	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	29931544	G	A	29931544	3	1	69	1	0	0	0	0	1	0	0	0	16194	971	34	2	908	2	TMEM66	8	29931544	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10		29931544	116432478	33	3941											
PGCP	0	hgsc.bcm.edu;ucsc.edu	37	chr8	97892144	97892144	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgggatcaaaattgtcAttcagctaaagatgggggca	13	10	11	7	0	4	1	4	0	0	1	4	2	4	2	0	3	1	2	0	3	4	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	97892144	A	C	97892144	3	2	69	1	0	0	0	0	1	0	0	0	11786	217	8	5	770	5	PGCP	8	97892144	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	67960600	97892144	48471878	34	3942											
BAI1	575	hgsc.bcm.edu	37	chr8	143570438	143570438	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggtgggcaccgtgctctAcaggaacctgggcagcttcc	6	9	14	12	1	1	0	0	0	1	0	2	1	2	1	3	4	4	4	3	4	2	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	143570438	A	C	143570438	3	2	69	1	0	0	0	0	1	0	0	0	1298	391	14	5	2549	5	BAI1	8	143570438	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	45678294	143570438	2793584	35	3943											
SCRIB	23513	hgsc.bcm.edu;ucsc.edu	37	chr8	144877694	144877694	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggttggcaatgacacctgGggacacctgagaagaggggt	10	6	18	7	0	0	3	0	2	0	2	0	5	0	4	2	7	0	2	2	7	2	1	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	144877694	G	T	144877694	3	4	69	1	0	0	0	0	1	0	0	0	13939	1232	43	4	1409	4	SCRIB	8	144877694	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	1307256	144877694	1486328	36	3944											
PTCH1	5727	hgsc.bcm.edu;ucsc.edu	37	chr9	98240433	98240433	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggtgaaggaaagcaccttTtgagtggagttctgtgcgac	9	11	15	6	1	1	2	0	2	1	0	1	5	1	4	1	3	2	2	1	3	2	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	98240433	T	G	98240433	3	3	69	1	0	0	0	0	1	0	0	0	12732	1838	64	5	3152	5	PTCH1	9	98240433	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10		98240433	42972998	37	3945											
NEBL	10529	hgsc.bcm.edu;ucsc.edu	37	chr10	21098771	21098771	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acttctagactgaatattgtCttccaggggatcaaggtcga	11	12	10	8	1	3	2	1	1	2	1	5	4	4	3	1	3	0	0	1	3	4	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	21098771	C	G	21098771	3	3	69	1	0	0	0	0	1	0	0	0	10303	913	32	4	485	4	NEBL	10	21098771	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10		21098771	114435976	38	3946											
OR51S1	119692	hgsc.bcm.edu	37	chr11	4870047	4870047	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcggcagatggccagtGcccgatcaatggacatggcg	9	6	16	10	3	1	1	1	0	0	1	2	4	1	2	2	5	1	1	2	5	1	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	4870047	G	A	4870047	3	1	69	1	0	0	0	0	1	0	0	0	11105	1319	46	2	582	2	OR51S1	11	4870047	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10		4870047	130136469	39	3947											
TRIM6	117854	hgsc.bcm.edu	37	chr11	5632213	5632213	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaagactgcctggatcctgGgggtatgcagcaattcactg	10	9	13	9	0	1	2	1	0	0	2	2	3	2	3	2	3	3	3	2	3	3	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	5632213	G	A	5632213	3	1	69	1	0	0	0	0	1	0	0	0	16532	1232	43	2	1222	2	TRIM6	11	5632213	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	762166	5632213	129374303	40	3948											
GIF	2694	hgsc.bcm.edu	37	chr11	59610539	59610539	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccatttgtctttgtagaatgGatactttatccccagggtct	8	16	8	9	0	2	1	0	0	2	1	3	2	3	2	3	2	1	1	3	2	4	6	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	59610539	G	A	59610539	3	1	69	1	0	0	0	0	1	0	0	0	6376	1174	41	2	949	2	GIF	11	59610539	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	53978326	59610539	75395977	41	3949											
RIN1	9610	hgsc.bcm.edu	37	chr11	66100041	66100041	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgtgggccagggccccAgggggcaggcggtggtagcc	5	4	20	12	1	0	0	0	0	0	0	0	0	0	0	5	7	2	2	5	7	1	1	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	66100041	A	C	66100041	2	2	69	1	0	0	0	0	0	0	0	1	13373	175	7	5		5	RIN1	11	66100041	Silent	SNP	A	TCGA-B0-4713-01A-01D-1361-10	6489502	66100041	68906475	42	3950											
RSF1	51773	hgsc.bcm.edu;ucsc.edu	37	chr11	77378369	77378369	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgtcacaactctcctcctCatccgtctcaatccggtgta	8	13	5	15	2	4	0	3	0	2	0	9	0	7	0	4	1	1	1	4	1	3	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	77378369	C	T	77378369	3	4	69	1	0	0	0	0	1	0	0	0	13701	835	29	2	410	2	RSF1	11	77378369	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	11278328	77378369	57628147	43	3951											
OR8D2	283160	hgsc.bcm.edu;ucsc.edu	37	chr11	124189235	124189235	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcaggctatagattagagGattcagcatggggattattg	11	12	12	6	0	2	2	2	0	0	2	2	4	2	4	1	4	1	2	1	4	4	6	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	124189235	G	T	124189235	3	4	69	1	0	0	0	0	1	0	0	0	11232	1174	41	4	79	4	OR8D2	11	124189235	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	46810866	124189235	10817281	44	3952											
TRHDE	29953	hgsc.bcm.edu	37	chr12	73056937	73056937	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaaatgctttaccaagacGagcttttccaatggttagga	13	11	10	7	1	0	1	0	0	0	1	1	4	1	3	2	3	3	3	2	3	6	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	73056937	G	A	73056937	3	1	69	1	0	0	0	0	1	0	0	0	16478	1059	37	1	3111	1	TRHDE	12	73056937	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10		73056937	60794958	45	3953											
PAH	5053	hgsc.bcm.edu;ucsc.edu	37	chr12	103246684	103246684	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacccaagaaatcccgagAggaaagcaggccagccacag	15	1	11	14	1	0	2	0	0	0	2	1	4	1	3	5	2	2	1	5	2	3	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	103246684	A	G	103246684	3	3	69	1	0	0	0	0	1	0	0	0	11394	304	11	3	635	3	PAH	12	103246684	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	30189747	103246684	30605211	46	3954											
MDGA2	161357	hgsc.bcm.edu;ucsc.edu	37	chr14	47613397	47613397	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaattggcaacacaccggaGgaacactgttctctcatagt	12	9	10	10	1	2	0	1	0	1	0	3	3	2	3	1	4	2	2	1	4	4	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	47613397	G	A	47613397	3	1	69	1	0	0	0	0	1	0	0	0	9407	1000	35	2	2457	2	MDGA2	14	47613397	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10		47613397	59736143	47	3955											
GPHN	10243	hgsc.bcm.edu	37	chr14	67647611	67647611	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagtacgtggagctccAcaaaggcgaggtggtggatg	12	6	16	7	2	0	1	0	0	0	1	1	4	1	3	1	5	3	2	1	5	3	1	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	67647611	A	G	67647611	3	3	69	1	0	0	0	0	1	0	0	0	6610	159	6	3	2357	3	GPHN	14	67647611	Missense_Mutation	SNP	A	TCGA-B0-4713-01A-01D-1361-10	20034214	67647611	39701929	48	3956											
EML5	161436	hgsc.bcm.edu	37	chr14	89202868	89202868	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgtcctgtgttccaactaGaatgtggtcacctcgccaac	9	11	8	13	1	1	1	1	0	0	1	4	1	3	1	4	1	2	1	4	1	4	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	89202868	G	C	89202868	3	2	69	1	0	0	0	0	1	0	0	0	5100	933	33	4	5192	4	EML5	14	89202868	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	21555257	89202868	18146672	49	3957											
C14orf79	122616	hgsc.bcm.edu;ucsc.edu	37	chr14	105452999	105452999	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggggaacacagcagcacTtggggggagtttgaaggctt	9	8	16	8	0	0	1	0	1	0	0	0	3	0	3	1	6	3	4	1	6	2	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	105452999	T	C	105452999	2	2	69	1	0	0	0	0	0	0	0	1	1780	1596	56	3		3	C14orf79	14	105452999	Silent	SNP	T	TCGA-B0-4713-01A-01D-1361-10	16250131	105452999	1896541	50	3958											
ALDH1A3	220	hgsc.bcm.edu	37	chr15	101440802	101440802	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacttggcagtggagtgtgcCcatcagggagtgttcttcaa	8	11	14	8	0	3	0	2	0	1	0	3	3	3	2	1	3	1	2	1	3	1	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	101440802	C	A	101440802	2	1	69	1	0	0	0	0	0	0	0	1	492	610	22	4		4	ALDH1A3	15	101440802	Silent	SNP	C	TCGA-B0-4713-01A-01D-1361-10		101440802	1090590	51	3959											
PRRT2	112476	hgsc.bcm.edu	37	chr16	29825764	29825764	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcctcatcatcatcgcCtcctgcgtcatcaacttagg	8	11	8	14	2	5	0	5	0	0	0	8	1	7	1	3	2	2	0	3	2	2	1	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	29825764	C	A	29825764	2	1	69	1	0	0	0	0	0	0	0	1	12612	668	24	4		4	PRRT2	16	29825764	Silent	SNP	C	TCGA-B0-4713-01A-01D-1361-10		29825764	60528989	52	3960											
NDRG4	65009	hgsc.bcm.edu	37	chr16	58542877	58542877	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcctcaggtggagtgcaaCtccaaactggacccgaccac	10	7	10	14	1	1	0	1	0	0	0	3	3	3	2	4	3	3	1	4	3	2	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	58542877	C	T	58542877	2	4	69	1	0	0	0	0	0	0	0	1	10254	564	20	2		2	NDRG4	16	58542877	Silent	SNP	C	TCGA-B0-4713-01A-01D-1361-10	28717113	58542877	31811876	53	3961											
FAM64A	54478	hgsc.bcm.edu	37	chr17	6348463	6348464	+	Frame_Shift_Del	DEL	CG	CG	-																															tggcagaacatggggacctcCgtgcgccggagatctctcca																								novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		-	6348464	CG	-	6348463	7	5	69	1	0	1	0	1	0	0	0	0	5598	639	23	0	35	0	FAM64A	17	6348463	Frame_Shift_Del	DEL	CG	TCGA-B0-4713-01A-01D-1361-10		6348463	74846747	54	3962											
SYNRG	11276	hgsc.bcm.edu;ucsc.edu	37	chr17	35937592	35937592	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccattaaactgggatactTcttactggaacctgggccta	10	11	10	10	0	1	0	0	0	1	0	1	2	1	2	3	4	4	0	3	4	6	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		G	35937592	T	G	35937592	3	3	69	1	0	0	0	0	1	0	0	0	15459	1792	62	5	3372	5	SYNRG	17	35937592	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	29589129	35937592	45257618	55	3963											
SLC4A1	6521	hgsc.bcm.edu	37	chr17	42328876	42328876	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgccgctgagcgacgTgacccccatgtagaggaaga	10	6	14	11	3	0	4	0	2	0	2	0	7	0	6	3	2	2	2	3	2	2	1	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	42328876	T	C	42328876	3	2	69	1	0	0	0	0	1	0	0	0	14652	1696	59	3	355	3	SLC4A1	17	42328876	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10	6391284	42328876	38866334	56	3964											
EME1	146956	hgsc.bcm.edu;ucsc.edu	37	chr17	48458125	48458125	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatctaccacttccaggCttatcagcagtgtttttcgg	7	14	9	11	1	3	0	2	0	1	0	5	0	4	0	2	3	2	3	2	3	2	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	48458125	C	T	48458125	3	4	69	1	0	0	0	0	1	0	0	0	5088	811	28	2	1607	2	EME1	17	48458125	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	6129249	48458125	32737085	57	3965											
INSR	3643	hgsc.bcm.edu;ucsc.edu	37	chr19	7141807	7141807	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttcatgcgtcacagggcCaacaatgtcatcagccttgg	10	10	10	11	1	4	0	4	0	0	0	4	1	4	0	2	2	3	0	2	2	2	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	7141807	C	T	7141807	3	4	69	1	0	0	0	0	1	0	0	0	7773	594	21	2	1625	2	INSR	19	7141807	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10		7141807	51987176	58	3966											
ZNF493	284443	hgsc.bcm.edu	37	chr19	21606276	21606277	+	Frame_Shift_Ins	INS	-	-	A																															aaatgtgaagaatgtggcacINSatctttctaccaattctcat																								novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	21606277	-	A	21606276	7	5	69	1	0	1	1	0	0	0	0	0	17943	478	17	0	892	0	ZNF493	19	21606276	Frame_Shift_Ins	INS	-	TCGA-B0-4713-01A-01D-1361-10	14464469	21606276	37522707	59	3967											
ZNF329	79673	hgsc.bcm.edu	37	chr19	58640668	58640668	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caatcaaatgctccccaaaaCcaggatattcacaaattgct	16	9	4	12	0	2	0	2	0	0	0	3	1	3	1	3	1	3	2	3	1	6	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	58640668	C	A	58640668	3	1	69	1	0	0	0	0	1	0	0	0	17846	507	18	4	1426	4	ZNF329	19	58640668	Missense_Mutation	SNP	C	TCGA-B0-4713-01A-01D-1361-10	37034392	58640668	488315	60	3968											
C20orf30	0	hgsc.bcm.edu	37	chr20	5081570	5081570	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcactggaacggcccggTctgccccctggtggcagaag	7	6	14	14	2	2	1	1	0	1	1	2	2	2	2	3	5	3	2	3	5	2	0	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	5081570	T	C	5081570	3	2	69	1	0	0	0	0	1	0	0	0	2110	1667	58	3	136	3	C20orf30	20	5081570	Missense_Mutation	SNP	T	TCGA-B0-4713-01A-01D-1361-10		5081570	57943950	61	3969											
PROKR2	128674	hgsc.bcm.edu	37	chr20	5294761	5294761	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcagattggtgaggttGcgcaacttcttatagcgggt	9	12	14	6	2	1	3	0	2	1	1	1	3	1	3	0	3	4	3	0	3	3	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	5294761	G	A	5294761	2	1	69	1	0	0	0	0	0	0	0	1	12555	1306	46	2		2	PROKR2	20	5294761	Silent	SNP	G	TCGA-B0-4713-01A-01D-1361-10	213191	5294761	57730759	62	3970											
DSN1	79980	hgsc.bcm.edu	37	chr20	35395179	35395179	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagcaacttacctttggcTctaaaactttcaagactgaa	13	13	6	9	0	2	2	1	1	1	1	2	2	2	2	1	1	4	3	1	1	7	5	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		C	35395179	T	C	35395179	2	2	69	1	0	0	0	0	0	0	0	1	4780	1548	54	3		3	DSN1	20	35395179	Silent	SNP	T	TCGA-B0-4713-01A-01D-1361-10	30100418	35395179	27630341	63	3971											
ADAMTS5	11096	hgsc.bcm.edu;ucsc.edu	37	chr21	28327065	28327065	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgctgcataccgatttcGtgagccacagtgaaggctgc	9	8	13	11	3	0	2	0	2	0	0	1	3	0	2	2	2	4	3	2	2	2	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	28327065	G	A	28327065	2	1	69	1	0	0	0	0	0	0	0	1	269	1136	40	1		1	ADAMTS5	21	28327065	Silent	SNP	G	TCGA-B0-4713-01A-01D-1361-10		28327065	19802830	64	3972											
ARHGAP6	395	hgsc.bcm.edu;ucsc.edu	37	chrX	11196235	11196235	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttacctcttgcccatctttGctgatgttgtcatcggcatg	5	16	8	12	1	3	1	1	1	2	0	4	1	3	1	2	1	3	3	2	1	1	4	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	11196235	G	A	11196235	2	1	69	1	0	0	0	0	0	0	0	1	887	1310	46	2		2	ARHGAP6	23	11196235	Silent	SNP	G	TCGA-B0-4713-01A-01D-1361-10		11196235	144074325	65	3973											
HUWE1	10075	hgsc.bcm.edu;ucsc.edu	37	chrX	53578289	53578289	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcacttcagtcacaccagGattccccaccactgcaggcg	9	7	8	17	1	3	0	3	0	0	0	4	1	4	1	4	2	1	2	4	2	0	2	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		T	53578289	G	T	53578289	3	4	69	1	0	0	0	0	1	0	0	0	7461	1174	41	4	4174	4	HUWE1	23	53578289	Missense_Mutation	SNP	G	TCGA-B0-4713-01A-01D-1361-10	42382054	53578289	101692271	66	3974											
PCDH19	57526	hgsc.bcm.edu;ucsc.edu	37	chrX	99551677	99551677	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatctttcccaaaggttgcGaaagtccgtttggtggggcc	8	11	12	10	2	1	0	0	0	1	0	3	1	3	0	3	4	1	2	3	4	2	3	novel		TCGA-B0-4713-01A-01D-1361-10	TCGA-B0-4713-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	130b417a-452b-41fc-b2d9-50b221ecc0d2	5a17a19b-3c02-4270-b730-1ab654e6120f		A	99551677	G	A	99551677	2	1	69	1	0	0	0	0	0	0	0	1	11514	1049	37	1		1	PCDH19	23	99551677	Silent	SNP	G	TCGA-B0-4713-01A-01D-1361-10	45973388	99551677	55718883	67	3975											
HIVEP3	59269	hgsc.bcm.edu;ucsc.edu	37	chr1	42045820	42045821	+	Frame_Shift_Del	DEL	CT	CT	-																															tggaatcttctttcttcacgCtcagtggggtcaaccctctt																								novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		-	42045821	CT	-	42045820	7	5	70	1	0	1	0	1	0	0	0	0	7188	797	28	0	2595	0	HIVEP3	1	42045820	Frame_Shift_Del	DEL	CT	TCGA-B0-4714-01A-01D-1361-10		42045820	207204801	1	3976											
STIL	6491	hgsc.bcm.edu	37	chr1	47728583	47728583	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acattttcttaccaataaatCctggtaaattttctggttat	12	18	4	7	0	2	0	0	0	2	0	3	0	3	0	2	2	1	2	2	2	7	8	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	47728583	C	A	47728583	3	1	70	1	0	0	0	0	1	0	0	0	15283	855	30	4	1057	4	STIL	1	47728583	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	5682763	47728583	201522038	2	3977											
ELAVL4	1996	hgsc.bcm.edu;ucsc.edu	37	chr1	50610784	50610784	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgtcaactatttaccccaGaatatgacccaagaagaatt	16	10	5	10	1	1	4	1	1	0	3	2	4	1	4	3	0	2	0	3	0	8	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	50610784	G	A	50610784	2	1	70	1	0	0	0	0	0	0	0	1	5052	933	33	2		2	ELAVL4	1	50610784	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	2882201	50610784	198639837	3	3978											
GJA8	2703	hgsc.bcm.edu	37	chr1	147380453	147380453	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggactaacggcggccCggaccagggcagcgtcaaga	9	2	18	12	5	1	1	1	0	0	1	1	3	1	3	2	7	2	1	2	7	2	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	147380453	C	G	147380453	3	3	70	1	0	0	0	0	1	0	0	0	6405	652	23	4	373	4	GJA8	1	147380453	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	96769669	147380453	101870168	4	3979											
DEDD	9191	hgsc.bcm.edu;ucsc.edu	37	chr1	161094111	161094111	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaatgacatcaacaaagaGgaaagaaagcacgcgcacat	20	4	8	9	2	2	3	2	1	0	2	2	4	2	4	0	1	2	2	0	1	5	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	161094111	G	A	161094111	3	1	70	1	0	0	0	0	1	0	0	0	4384	1000	35	2	830	2	DEDD	1	161094111	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10	13713658	161094111	88156510	5	3980											
SELE	6401	hgsc.bcm.edu	37	chr1	169701931	169701931	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtttctgggttcctacccaGacccacacattgttgacttt	7	14	8	12	0	1	2	0	1	1	1	2	2	2	2	3	2	1	3	3	2	1	6	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	169701931	G	C	169701931	2	2	70	1	0	0	0	0	0	0	0	1	14015	929	33	4		4	SELE	1	169701931	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	8607820	169701931	79548690	6	3981											
WNT9A	7483	hgsc.bcm.edu	37	chr1	228113202	228113202	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcagcgggaggatggtcagGggctcgctgcccgtcagcct	5	7	17	12	3	3	0	3	0	0	0	4	2	3	2	2	5	3	2	2	5	0	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	228113202	G	T	228113202	2	4	70	1	0	0	0	0	0	0	0	1	17397	1219	43	4		4	WNT9A	1	228113202	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	58411271	228113202	21137419	7	3982											
SDCCAG8	10806	hgsc.bcm.edu;ucsc.edu	37	chr1	243480195	243480195	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaattttgaaaaaaccaaGgcaagtctaataagatgcaa	19	8	7	7	0	1	2	0	1	1	1	1	2	1	2	2	1	2	2	2	1	9	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	243480195	G	A	243480195	2	1	70	1	0	0	0	0	0	0	0	1	13961	1014	35	2		2	SDCCAG8	1	243480195	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	15366993	243480195	5770426	8	3983											
XDH	7498	hgsc.bcm.edu	37	chr2	31598370	31598370	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgggaggcagatgcagcTcctctgccagtcctgcacac	8	7	11	15	1	1	1	0	0	1	1	4	2	3	2	3	2	4	4	3	2	0	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	31598370	T	C	31598370	3	2	70	1	0	0	0	0	1	0	0	0	17425	1551	54	3	2611	3	XDH	2	31598370	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10		31598370	211601003	9	3984											
PREPL	9581	hgsc.bcm.edu;ucsc.edu	37	chr2	44549924	44549924	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttgagtttctcagtatAacttacaattcctttcagag	10	17	5	9	0	2	2	2	1	1	1	5	2	4	2	2	0	2	2	2	0	4	8	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	44549924	A	G	44549924	3	3	70	1	0	0	0	0	1	0	0	0	12477	362	13	3	229	3	PREPL	2	44549924	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	12951554	44549924	198649449	10	3985											
C2orf42	54980	hgsc.bcm.edu	37	chr2	70408353	70408354	+	Frame_Shift_Del	DEL	AA	AA	-																															gccagtgtctcatcactggcAaaggcacagatgcaagcaaa																								novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		-	70408354	AA	-	70408353	7	5	70	1	0	1	0	1	0	0	0	0	2166	127	5	0	991	0	C2orf42	2	70408353	Frame_Shift_Del	DEL	AA	TCGA-B0-4714-01A-01D-1361-10	25858429	70408353	172791020	11	3986											
LONRF2	164832	hgsc.bcm.edu	37	chr2	100903525	100903525	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatactctggaccctccaCctgatcagggaaagaggcac	11	8	9	13	0	3	2	2	1	1	1	4	4	4	4	3	3	1	1	3	3	2	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	100903525	C	T	100903525	3	4	70	1	0	0	0	0	1	0	0	0	8895	521	18	2	351	2	LONRF2	2	100903525	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	30495172	100903525	142295848	12	3987											
DDX18	8886	hgsc.bcm.edu;ucsc.edu	37	chr2	118578857	118578857	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcataaaagtatcagacCacttctggaaggcaggtatg	14	9	10	8	0	3	1	2	0	1	1	3	2	3	2	1	3	1	4	1	3	5	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	118578857	C	T	118578857	3	4	70	1	0	0	0	0	1	0	0	0	4345	594	21	2	649	2	DDX18	2	118578857	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	17675332	118578857	124620516	13	3988											
MCM6	4175	hgsc.bcm.edu;ucsc.edu	37	chr2	136608981	136608981	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactctgatacctcatcacaGcagtgcatccgagccatagc	11	8	8	14	1	3	1	2	1	1	0	4	3	4	1	3	0	5	2	3	0	2	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	136608981	G	A	136608981	2	1	70	1	0	0	0	0	0	0	0	1	9391	963	34	2		2	MCM6	2	136608981	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	18030124	136608981	106590392	14	3989											
BAZ2B	29994	hgsc.bcm.edu;ucsc.edu	37	chr2	160285736	160285736	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttccaatggaatacgcagttCacgttcatctgttactcttc	9	15	6	11	2	4	0	2	0	2	0	6	1	5	1	1	1	2	4	1	1	4	6	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	160285736	C	G	160285736	3	3	70	1	0	0	0	0	1	0	0	0	1332	835	29	4	4384	4	BAZ2B	2	160285736	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	23676755	160285736	82913637	15	3990											
NCL	4691	hgsc.bcm.edu	37	chr2	232325415	232325417	+	In_Frame_Del	DEL	TCA	TCA	-																															cttcctcctcctcatcatctTcatcatcatcatcttcatca																								rs139777351	bycluster;by1000genomes	TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		-	232325417	TCA	-	232325415	7	5	70	1	0	1	0	1	0	0	0	0	10226	1783	62	0	1400	0	NCL	2	232325415	In_Frame_Del	DEL	TCA	TCGA-B0-4714-01A-01D-1361-10	72039679	232325415	10873958	16	3991											
CACNA2D2	9254	hgsc.bcm.edu	37	chr3	50513581	50513581	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggacgcctccaaaaatccGcatcacgccgtcgacctcct	9	7	7	18	5	1	0	1	0	0	0	5	2	4	1	6	1	0	1	6	1	2	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	50513581	G	A	50513581	3	1	70	1	0	0	0	0	1	0	0	0	2549	1086	38	1	3354	1	CACNA2D2	3	50513581	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10		50513581	147508849	17	3992											
CADM2	253559	hgsc.bcm.edu	37	chr3	85851255	85851255	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgaaggtggaactgcAattttgacctgcagggttga	9	13	14	5	0	0	3	0	3	0	0	0	4	0	4	1	3	3	5	1	3	3	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	85851255	A	C	85851255	2	2	70	1	0	0	0	0	0	0	0	1	2567	117	5	5		5	CADM2	3	85851255	Silent	SNP	A	TCGA-B0-4714-01A-01D-1361-10	35337674	85851255	112171175	18	3993											
IFT57	55081	hgsc.bcm.edu;ucsc.edu	37	chr3	107910441	107910441	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggctccattctgcagcaTctgttgtggattccaaaata	10	13	8	10	0	2	0	0	0	2	0	4	1	4	1	2	2	2	4	2	2	4	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	107910441	T	C	107910441	3	2	70	1	0	0	0	0	1	0	0	0	7562	1435	50	3	609	3	IFT57	3	107910441	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	22059186	107910441	90111989	19	3994											
ITGB5	3693	hgsc.bcm.edu	37	chr3	124527981	124527981	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctgatcccagactgacAactccactttagaccggata	12	8	8	13	1	0	4	0	2	0	2	2	5	2	5	3	2	1	1	3	2	3	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	124527981	A	C	124527981	3	2	70	1	0	0	0	0	1	0	0	0	7898	131	5	5	1276	5	ITGB5	3	124527981	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	16617540	124527981	73494449	20	3995											
KPNA4	3840	hgsc.bcm.edu;ucsc.edu	37	chr3	160249299	160249299	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgggcaatattccagattTtattaagtcatcaattggtg	13	15	8	5	0	2	1	2	0	0	1	3	1	3	1	1	2	0	1	1	2	6	6	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	160249299	T	G	160249299	3	3	70	1	0	0	0	0	1	0	0	0	8432	1850	64	5	1279	5	KPNA4	3	160249299	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	35721318	160249299	37773131	21	3996											
C3orf21	0	hgsc.bcm.edu;ucsc.edu	37	chr3	194790608	194790612	+	Frame_Shift_Del	DEL	CCATG	CCATG	-																															atggaagagcttggggtgctCcatgccgatcatggtgaaga																								novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	CCATG	CCATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		-	194790612	CCATG	-	194790608	7	5	70	1	0	1	0	1	0	0	0	0	2214	864	30	0	167	0	C3orf21	3	194790608	Frame_Shift_Del	DEL	CCATG	TCGA-B0-4714-01A-01D-1361-10	34541309	194790608	3231822	22	3997											
C4orf44	0	hgsc.bcm.edu	37	chr4	3254960	3254960	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgcatgacagatagcgAgtccgccccgcccgactggc	11	5	11	14	4	0	2	0	1	0	1	1	4	1	2	4	1	2	1	4	1	3	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	3254960	A	C	3254960	3	2	70	1	0	0	0	0	1	0	0	0	2272	304	11	5	353	5	C4orf44	4	3254960	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		3254960	187899316	23	3998											
LIMCH1	22998	hgsc.bcm.edu;ucsc.edu	37	chr4	41694356	41694356	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtgggacggatgttaggattCgaaatggtctcctgaactgt	9	12	14	6	2	1	1	0	1	1	0	3	5	1	4	1	4	1	1	1	4	3	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	41694356	C	G	41694356	3	3	70	1	0	0	0	0	1	0	0	0	8797	876	31	4	3311	4	LIMCH1	4	41694356	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	38439396	41694356	149459920	24	3999											
LRRC66	339977	hgsc.bcm.edu;ucsc.edu	37	chr4	52864031	52864031	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcagccaagtcaaccactaGatggggaaattctagagcta	15	8	9	9	0	3	2	2	0	1	2	3	3	3	3	2	2	3	1	2	2	6	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	52864031	G	C	52864031	3	2	70	1	0	0	0	0	1	0	0	0	9018	933	33	4	1911	4	LRRC66	4	52864031	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10	11169675	52864031	138290245	25	4000											
SV2C	22987	hgsc.bcm.edu;ucsc.edu	37	chr5	75490777	75490777	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgggatgatggtgggggCgttcttctggggaggactgg	4	10	20	7	2	2	1	0	1	2	0	3	4	2	4	1	8	0	1	1	8	0	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	75490777	C	A	75490777	3	1	70	1	0	0	0	0	1	0	0	0	15418	768	27	4	620	4	SV2C	5	75490777	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10		75490777	105424483	26	4001											
SLC23A1	9963	hgsc.bcm.edu;ucsc.edu	37	chr5	138717642	138717642	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtgaagatggtgccgaTgagctgactaaccatgtgct	10	9	13	9	2	0	4	0	3	0	1	0	5	0	4	2	1	4	3	2	1	2	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	138717642	T	C	138717642	3	2	70	1	0	0	0	0	1	0	0	0	14464	1464	51	3	1609	3	SLC23A1	5	138717642	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	63226865	138717642	42197618	27	4002											
YIPF5	81555	hgsc.bcm.edu;ucsc.edu	37	chr5	143541805	143541805	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagaaaatatcactgcaaaGctggaaagtaggatcatggg	18	7	11	5	0	2	1	2	0	0	1	2	3	2	3	0	3	2	3	0	3	7	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	143541805	G	C	143541805	3	2	70	1	0	0	0	0	1	0	0	0	17480	962	34	4	193	4	YIPF5	5	143541805	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10	4824163	143541805	37373455	28	4003											
RAB24	53917	hgsc.bcm.edu;ucsc.edu	37	chr5	176729429	176729429	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggacgtcgtggaagtcCacacgtcgacgcctccggtc	6	8	12	15	6	0	0	0	0	0	0	6	3	3	2	4	3	0	0	4	3	1	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	176729429	C	A	176729429	2	1	70	1	0	0	0	0	0	0	0	1	12913	581	21	4		4	RAB24	5	176729429	Silent	SNP	C	TCGA-B0-4714-01A-01D-1361-10	33187624	176729429	4185831	29	4004											
HIST1H3H	8357	hgsc.bcm.edu;ucsc.edu	37	chr6	27778219	27778219	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgggtgactatcatgcccaAggacatccagctcgcacgtc	9	7	11	14	3	1	1	1	1	0	0	4	2	2	2	2	2	2	2	2	2	2	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	27778219	A	C	27778219	3	2	70	1	0	0	0	0	1	0	0	0	7162	72	3	5	370	5	HIST1H3H	6	27778219	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		27778219	143336848	30	4005											
ZNF318	24149	hgsc.bcm.edu;ucsc.edu	37	chr6	43308576	43308576	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcacatgttgctccccagaAattggatcccccaaaaattc	12	11	5	13	0	1	1	1	0	0	1	4	2	3	2	4	1	1	2	4	1	3	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	43308576	A	T	43308576	2	4	70	1	0	0	0	0	0	0	0	1	17835	10	1	5		5	ZNF318	6	43308576	Silent	SNP	A	TCGA-B0-4714-01A-01D-1361-10	15530357	43308576	127806491	31	4006											
COL21A1	81578	hgsc.bcm.edu;ucsc.edu	37	chr6	55939040	55939040	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatatttaccttagatcccGgtgttccaggctggcctggt	6	14	10	11	1	1	1	1	0	0	1	3	1	3	1	4	4	1	2	4	4	3	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	55939040	G	A	55939040	3	1	70	1	0	0	0	0	1	0	0	0	3680	1116	39	1	962	1	COL21A1	6	55939040	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10	12630464	55939040	115176027	32	4007											
EPB41L2	2037	hgsc.bcm.edu	37	chr6	131186756	131186756	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaacgtgcccgaatcacCaccagccccgccatcaatct	11	6	6	18	3	3	0	2	0	1	0	3	1	3	0	6	0	3	1	6	0	3	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	131186756	C	T	131186756	3	4	70	1	0	0	0	0	1	0	0	0	5153	594	21	2	280	2	EPB41L2	6	131186756	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	75247716	131186756	39928311	33	4008											
UNC93A	54346	hgsc.bcm.edu	37	chr6	167728774	167728774	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgccttcgggtacagcaTgtttttgtgcgtgcacgtca	6	14	11	10	3	1	0	1	0	0	0	2	0	1	0	1	1	5	4	1	1	1	5	rs79485532	bycluster	TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	167728774	T	C	167728774	3	2	70	1	0	0	0	0	1	0	0	0	16995	1464	51	3	1238	3	UNC93A	6	167728774	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	36542018	167728774	3386293	34	4009											
DNAH11	8701	hgsc.bcm.edu	37	chr7	21765574	21765574	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgacaaaattgcccagtTtactatggatccagatgtgc	11	11	10	9	0	0	2	0	1	0	1	1	3	1	3	2	2	3	2	2	2	4	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	21765574	T	A	21765574	3	1	70	1	0	0	0	0	1	0	0	0	4599	1841	64	5	7612	5	DNAH11	7	21765574	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10		21765574	137373089	35	4010											
CASD1	64921	hgsc.bcm.edu;ucsc.edu	37	chr7	94163037	94163037	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgaagcgctttctcaatAtaaaatgaacatcacctcca	15	10	5	11	1	2	2	2	2	1	0	4	2	3	2	2	0	2	1	2	0	6	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	94163037	A	G	94163037	3	3	70	1	0	0	0	0	1	0	0	0	2664	449	16	3	577	3	CASD1	7	94163037	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	72397463	94163037	64975626	36	4011											
MSR1	4481	hgsc.bcm.edu;ucsc.edu	37	chr8	16026149	16026149	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgtcattaaatctttGatcagttgtcatgctgaaat	14	15	7	5	0	4	3	3	2	1	1	4	3	4	3	0	0	1	2	0	0	5	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	16026149	G	T	16026149	3	4	70	1	0	0	0	0	1	0	0	0	9886	1299	45	4	983	4	MSR1	8	16026149	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10		16026149	130337873	37	4012											
ATP6V0D2	245972	hgsc.bcm.edu	37	chr8	87153748	87153748	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgaattgctacgcaataAactatacaaggtaatggttt	15	14	7	5	1	0	1	0	1	0	0	0	1	0	1	0	2	4	4	0	2	10	9	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	87153748	A	T	87153748	3	4	70	1	0	0	0	0	1	0	0	0	1174	14	1	5	565	5	ATP6V0D2	8	87153748	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	71127599	87153748	59210274	38	4013											
RAPGEF1	2889	hgsc.bcm.edu;ucsc.edu	37	chr9	134514117	134514117	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcatcacttggtcagAccagcgaatgaggttggcga	10	9	12	10	2	2	2	2	1	0	1	3	4	3	2	2	3	2	2	2	3	1	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	134514117	A	T	134514117	3	4	70	1	0	0	0	0	1	0	0	0	13045	275	10	5	2808	5	RAPGEF1	9	134514117	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		134514117	6699314	39	4014											
FBXW5	54461	hgsc.bcm.edu	37	chr9	139837370	139837370	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtccgcgctgtgcagcagcGagatggtcaggtcgttgctc	5	10	15	11	4	1	1	1	0	0	1	4	2	2	1	1	2	4	5	1	2	0	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	139837370	G	A	139837370	3	1	70	1	0	0	0	0	1	0	0	0	5768	1059	37	1	1347	1	FBXW5	9	139837370	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10	5323253	139837370	1376061	40	4015											
WAC	51322	hgsc.bcm.edu;ucsc.edu	37	chr10	28872359	28872359	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacaagaaaattcacaCaaccacagtgctcttcatag	15	9	4	13	0	4	1	2	0	2	1	5	1	4	1	2	0	2	1	2	0	5	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	28872359	C	G	28872359	3	3	70	1	0	0	0	0	1	0	0	0	17246	477	17	4	320	4	WAC	10	28872359	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10		28872359	106662388	41	4016											
PCDH15	65217	hgsc.bcm.edu	37	chr10	55566692	55566692	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaacaggggaagcaacttTtaagttgtccgtgaggcagg	11	9	14	7	2	0	1	0	1	0	0	2	3	1	2	1	4	3	3	1	4	4	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	55566692	T	G	55566692	3	3	70	1	0	0	0	0	1	0	0	0	11511	1850	64	5	356	5	PCDH15	10	55566692	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	26694333	55566692	79968055	42	4017											
TECTB	6975	hgsc.bcm.edu	37	chr10	114063068	114063068	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggatttgtgccgtgttaTaggagttagccaggcagctg	7	12	16	6	1	0	0	0	0	0	0	0	2	0	2	2	4	3	4	2	4	3	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	114063068	T	C	114063068	3	2	70	1	0	0	0	0	1	0	0	0	15747	1419	49	3	1026	3	TECTB	10	114063068	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	58496376	114063068	21471679	43	4018											
CDHR5	53841	hgsc.bcm.edu	37	chr11	618013	618013	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgtggacaaggacggCgaggccaaggagagccagca	11	4	17	9	2	0	1	0	0	0	1	0	5	0	3	2	5	3	2	2	5	2	1	rs7108757	bycluster;byfrequency;by1000genomes	TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	618013	C	T	618013	3	4	70	1	0	0	0	0	1	0	0	0	3122	768	27	1	486	1	CDHR5	11	618013	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10		618013	134388503	44	4019											
NAT10	55226	hgsc.bcm.edu	37	chr11	34160752	34160752	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagaatgacctgaccggAgagcactcgtgcatcatgct	10	7	11	13	2	1	4	1	2	0	2	2	5	1	4	3	1	3	3	3	1	1	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	34160752	A	T	34160752	2	4	70	1	0	0	0	0	0	0	0	1	10174	291	11	5		5	NAT10	11	34160752	Silent	SNP	A	TCGA-B0-4714-01A-01D-1361-10	33542739	34160752	100845764	45	4020											
CCDC82	79780	hgsc.bcm.edu	37	chr11	96104275	96104275	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagatgttagcatatcttTtgcatatgatttttgccttg	10	18	8	5	0	1	2	0	1	1	1	1	3	1	2	1	0	3	3	1	0	4	8	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	96104275	T	A	96104275	4	1	70	1	0	0	0	0	0	1	0	0	2856	1850	64	5	539	5	CCDC82	11	96104275	Nonsense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	61943523	96104275	38902241	46	4021											
BIRC2	329	hgsc.bcm.edu;ucsc.edu	37	chr11	102239106	102239106	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacacctgtggttaaatCtgccttggaaatgggcttta	11	13	10	7	0	1	0	0	0	1	0	1	2	1	1	2	3	2	2	2	3	6	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	102239106	C	A	102239106	3	1	70	1	0	0	0	0	1	0	0	0	1435	913	32	4	1211	4	BIRC2	11	102239106	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	6134831	102239106	32767410	47	4022											
DDX6	1656	hgsc.bcm.edu;ucsc.edu	37	chr11	118638975	118638975	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagccgttcaagtaagggaAtgaggtaggcaccgctcttg	10	9	13	9	2	2	1	1	1	1	0	2	2	2	2	2	3	1	5	2	3	5	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	118638975	A	C	118638975	3	2	70	1	0	0	0	0	1	0	0	0	4377	101	4	5	1032	5	DDX6	11	118638975	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	16399869	118638975	16367541	48	4023											
ITFG2	55846	hgsc.bcm.edu;ucsc.edu	37	chr12	2932068	2932068	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatgaaaatatccgtgccTtctgtgcaggtgacccccgc	8	10	11	12	2	1	2	0	2	1	0	2	3	2	3	4	2	2	1	4	2	3	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	2932068	T	C	2932068	3	2	70	1	0	0	0	0	1	0	0	0	7870	1609	56	3	1095	3	ITFG2	12	2932068	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10		2932068	130919827	49	4024											
PZP	5858	hgsc.bcm.edu	37	chr12	9318749	9318749	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatttaagggtatcacattAtatgtgcctaattgaggaac	13	15	8	5	0	1	1	1	1	0	0	1	2	1	2	1	2	2	1	1	2	7	8	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	9318749	A	G	9318749	2	3	70	1	0	0	0	0	0	0	0	1	12871	456	16	3		3	PZP	12	9318749	Silent	SNP	A	TCGA-B0-4714-01A-01D-1361-10	6386681	9318749	124533146	50	4025											
PIK3C2G	5288	hgsc.bcm.edu;ucsc.edu	37	chr12	18552697	18552697	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgcccctggatgggatgAaaggactgtttcagaaatgc	11	10	13	7	0	1	2	1	1	0	1	1	5	1	5	2	3	2	1	2	3	3	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	18552697	A	T	18552697	3	4	70	1	0	0	0	0	1	0	0	0	11911	246	9	5	2162	5	PIK3C2G	12	18552697	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	9233948	18552697	115299198	51	4026											
DENND5B	160518	hgsc.bcm.edu;ucsc.edu	37	chr12	31540692	31540692	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaggacactcagctaacaAtggaatccactgtgggagca	13	6	12	10	0	1	0	1	0	0	0	2	3	2	3	1	4	3	3	1	4	3	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	31540692	A	T	31540692	3	4	70	1	0	0	0	0	1	0	0	0	4437	98	4	5	158	5	DENND5B	12	31540692	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	12987995	31540692	102311203	52	4027											
FREM2	341640	hgsc.bcm.edu	37	chr13	39425218	39425218	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggtgaacaaaatgaaactCtcataaggatccgagatgat	16	10	9	6	1	1	4	1	3	1	1	3	6	2	5	1	2	2	0	1	2	5	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	39425218	C	T	39425218	3	4	70	1	0	0	0	0	1	0	0	0	6045	913	32	2	6753	2	FREM2	13	39425218	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10		39425218	75744660	53	4028											
TTLL5	23093	hgsc.bcm.edu;ucsc.edu	37	chr14	76238174	76238174	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agacgttcagtgccagttggGctgccaaagaggatgaacag	12	7	14	8	1	1	3	1	1	0	2	1	4	1	4	2	2	3	3	2	2	2	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	76238174	G	C	76238174	3	2	70	1	0	0	0	0	1	0	0	0	16729	1203	42	4	2191	4	TTLL5	14	76238174	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10		76238174	31111366	54	4029											
PRTG	283659	hgsc.bcm.edu;ucsc.edu	37	chr15	55912246	55912246	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtacttataactgaggaCagatgtatctcatcgttgga	11	13	11	6	1	1	2	1	1	1	1	3	4	1	4	0	3	2	3	0	3	4	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	55912246	C	G	55912246	2	3	70	1	0	0	0	0	0	0	0	1	12640	465	17	4		4	PRTG	15	55912246	Silent	SNP	C	TCGA-B0-4714-01A-01D-1361-10		55912246	46619146	55	4030											
UBFD1	56061	hgsc.bcm.edu	37	chr16	23573998	23573998	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacaataaatctggaggaaAagtgagactcacctttaaac	17	9	8	7	0	2	1	1	1	1	1	2	4	2	3	1	2	2	1	1	2	8	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	23573998	A	G	23573998	3	3	70	1	0	0	0	0	1	0	0	0	16883	14	1	3	701	3	UBFD1	16	23573998	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		23573998	66780755	56	4031											
ALDOA	226	hgsc.bcm.edu;ucsc.edu	37	chr16	30080933	30080933	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactcagaagttttctcaTgaggagattgccatggcgac	10	11	11	9	1	2	3	2	1	1	2	3	5	2	3	1	2	2	2	1	2	1	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	30080933	T	G	30080933	3	3	70	1	0	0	0	0	1	0	0	0	507	1461	51	5	760	5	ALDOA	16	30080933	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	6506935	30080933	60273820	57	4032											
CNOT1	23019	hgsc.bcm.edu	37	chr16	58589196	58589196	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcaatcccgaaataataCattttggatccaaaaggctt	15	10	7	9	1	0	0	0	0	0	0	2	2	2	1	2	2	2	3	2	2	6	5	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	58589196	C	T	58589196	3	4	70	1	0	0	0	0	1	0	0	0	3617	478	17	2	4618	2	CNOT1	16	58589196	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	28508263	58589196	31765557	58	4033											
CDH1	999	hgsc.bcm.edu;ucsc.edu	37	chr16	68862122	68862122	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcggaggagagcggtggTcaaagagcccttactgcccc	8	8	13	12	2	2	2	1	0	1	2	3	4	2	3	3	4	4	0	3	4	2	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	68862122	T	A	68862122	3	1	70	1	0	0	0	0	1	0	0	0	3095	1667	58	5	2264	5	CDH1	16	68862122	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	10272926	68862122	21492631	59	4034											
PLD2	5338	hgsc.bcm.edu	37	chr17	4711105	4711105	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctcttccccactggggAcgaactggactccagccagc	8	6	11	16	1	1	0	0	0	1	0	3	4	3	2	5	3	4	0	5	3	1	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	4711105	A	T	4711105	3	4	70	1	0	0	0	0	1	0	0	0	12046	275	10	5	40	5	PLD2	17	4711105	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		4711105	76484105	60	4035											
PLD2	5338	hgsc.bcm.edu;ucsc.edu	37	chr17	4722784	4722784	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagtgagctggccgtgcTgatcgaggacacagagacgg	10	5	17	9	3	0	3	0	2	0	1	1	7	0	5	1	4	2	2	1	4	0	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	4722784	T	C	4722784	3	2	70	1	0	0	0	0	1	0	0	0	12046	1580	55	3	2455	3	PLD2	17	4722784	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	11679	4722784	76472426	61	4036											
SAT2	112483	hgsc.bcm.edu	37	chr17	7529914	7529914	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggcggaattgggagcAgcccttatccaaggccacct	9	6	13	13	1	0	0	0	0	0	0	1	2	1	2	5	5	2	1	5	5	3	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	7529914	A	C	7529914	3	2	70	1	0	0	0	0	1	0	0	0	13854	188	7	5	152	5	SAT2	17	7529914	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	2807130	7529914	73665296	62	4037											
SOCS7	30837	hgsc.bcm.edu	37	chr17	36523866	36523866	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagacagttctgatcctcgTtacatcctgagcctcagttt	8	13	8	12	2	2	3	1	2	1	1	5	4	4	3	3	0	2	3	3	0	1	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	36523866	T	C	36523866	2	2	70	1	0	0	0	0	0	0	0	1	14921	1712	60	3		3	SOCS7	17	36523866	Silent	SNP	T	TCGA-B0-4714-01A-01D-1361-10	28993952	36523866	44671344	63	4038											
KRT15	3866	hgsc.bcm.edu	37	chr17	39672246	39672246	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgttggaggccacctctTtgttcagctcctcagtctgt	4	15	10	12	0	4	0	2	0	2	0	5	1	5	1	3	2	1	3	3	2	0	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	39672246	T	C	39672246	3	2	70	1	0	0	0	0	1	0	0	0	8452	1841	64	3	469	3	KRT15	17	39672246	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	3148380	39672246	41522964	64	4039											
C17orf46	0	hgsc.bcm.edu;ucsc.edu	37	chr17	43333216	43333216	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccccatgttggagtggacGgactctatcttgcataccag	9	10	11	11	1	2	0	0	0	2	0	2	3	2	3	3	3	3	2	3	3	2	4	rs148278717	alternate_allele	TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	43333216	G	T	43333216	2	4	70	1	0	0	0	0	0	0	0	1	1857	1103	39	4		4	C17orf46	17	43333216	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	3660970	43333216	37861994	65	4040											
MBTD1	54799	hgsc.bcm.edu;ucsc.edu	37	chr17	49281212	49281212	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaactggatggatatcagAaccacatatattgcaccaga	16	8	7	10	0	1	2	1	0	0	2	1	4	1	4	3	2	3	1	3	2	5	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	49281212	A	C	49281212	3	2	70	1	0	0	0	0	1	0	0	0	9360	246	9	5	1247	5	MBTD1	17	49281212	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10	5947996	49281212	31913998	66	4041											
SERPINB4	6318	hgsc.bcm.edu	37	chr18	61306561	61306561	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgcctcatcatctgtacaGatttgtatgtattctgcaat	10	17	6	8	0	4	1	2	0	2	1	4	1	4	1	1	0	3	4	1	0	4	6	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	61306561	G	C	61306561	3	2	70	1	0	0	0	0	1	0	0	0	14105	942	33	4	554	4	SERPINB4	18	61306561	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10		61306561	16770687	67	4042											
INSR	3643	hgsc.bcm.edu	37	chr19	7184487	7184487	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtcctggaagtggtagtAcgggggcgggcaggtctcca	7	7	17	10	2	1	0	0	0	1	0	3	1	2	1	3	6	1	3	3	6	3	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	7184487	A	G	7184487	3	3	70	1	0	0	0	0	1	0	0	0	7773	391	14	3	3414	3	INSR	19	7184487	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		7184487	51944496	68	4043											
CEBPA	1050	hgsc.bcm.edu	37	chr19	33792421	33792421	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgctgcttggccttgtcGcggctcttgcgcaccgcgat	2	12	13	14	6	1	0	0	0	1	0	2	1	1	0	2	2	3	4	2	2	0	4	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	33792421	G	A	33792421	2	1	70	1	0	0	0	0	0	0	0	1	3199	1074	38	1		1	CEBPA	19	33792421	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	26607934	33792421	25336562	69	4044											
RASGRP4	115727	hgsc.bcm.edu	37	chr19	38907761	38907761	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggcactgtgacacaggccCcctgtgactgccatcagcgt	8	8	11	14	1	1	2	1	2	0	0	1	2	1	2	3	2	2	1	3	2	0	0	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	38907761	C	A	38907761	2	1	70	1	0	0	0	0	0	0	0	1	13079	610	22	4		4	RASGRP4	19	38907761	Silent	SNP	C	TCGA-B0-4714-01A-01D-1361-10	5115340	38907761	20221222	70	4045											
LTBP4	8425	hgsc.bcm.edu	37	chr19	41119376	41119376	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtgcctcaacactgacggctCctttgcctgtacttgtgccc	5	12	9	15	1	1	1	1	1	0	0	2	1	2	1	4	1	5	2	4	1	2	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	41119376	C	G	41119376	3	3	70	1	0	0	0	0	1	0	0	0	9076	855	30	4	3070	4	LTBP4	19	41119376	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10	2211615	41119376	18009607	71	4046											
ELSPBP1	64100	hgsc.bcm.edu;ucsc.edu	37	chr19	48523091	48523091	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctggtgcccaaccacagaGaacatggataaggatggaaa	15	6	11	9	0	1	1	0	0	1	1	1	5	1	4	2	4	3	0	2	4	4	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	48523091	G	A	48523091	2	1	70	1	0	0	0	0	0	0	0	1	5083	933	33	2		2	ELSPBP1	19	48523091	Silent	SNP	G	TCGA-B0-4714-01A-01D-1361-10	7403715	48523091	10605892	72	4047											
SLC27A5	10998	hgsc.bcm.edu;ucsc.edu	37	chr19	59012065	59012065	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggactgtatgtgtccggtcCtctggttgctacaggaatgt	6	13	13	9	2	1	0	0	0	1	0	3	2	3	2	2	4	2	3	2	4	3	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		T	59012065	C	T	59012065	2	4	70	1	0	0	0	0	0	0	0	1	14531	680	24	2		2	SLC27A5	19	59012065	Silent	SNP	C	TCGA-B0-4714-01A-01D-1361-10	10488974	59012065	116918	73	4048											
PROCR	10544	hgsc.bcm.edu	37	chr20	33764589	33764589	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggtgtggctgtaggcatcttCctgtgcacaggtggacggcg	5	10	17	9	2	1	0	0	0	1	0	2	1	2	1	1	6	1	4	1	6	1	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		G	33764589	C	G	33764589	3	3	70	1	0	0	0	0	1	0	0	0	12549	854	30	4	704	4	PROCR	20	33764589	Missense_Mutation	SNP	C	TCGA-B0-4714-01A-01D-1361-10		33764589	29260931	74	4049											
PCNT	5116	hgsc.bcm.edu	37	chr21	47831209	47831209	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcagaggaaattgaacAactccatgaagtcattgaga	18	7	10	6	0	1	4	1	3	0	2	2	7	2	5	1	1	3	1	1	1	5	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	47831209	A	C	47831209	3	2	70	1	0	0	0	0	1	0	0	0	11590	130	5	5	5332	5	PCNT	21	47831209	Missense_Mutation	SNP	A	TCGA-B0-4714-01A-01D-1361-10		47831209	298686	75	4050											
GPR173	54328	hgsc.bcm.edu	37	chrX	53106687	53106687	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctacgcgatcacactgctctTtctgctcctctggtcaccct	5	13	6	17	2	5	0	2	0	3	0	6	1	6	0	2	1	3	2	2	1	1	2	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	53106687	T	C	53106687	3	2	70	1	0	0	0	0	1	0	0	0	6671	1841	64	3	886	3	GPR173	23	53106687	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10		53106687	102163873	76	4051											
KIAA1210	57481	hgsc.bcm.edu	37	chrX	118284272	118284272	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccctgcaccaagtggtagGgaatcgcggtgtgcagggca	9	6	15	11	2	0	0	0	0	0	0	1	1	0	1	3	4	2	4	3	4	3	1	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	118284272	G	A	118284272	3	1	70	1	0	0	0	0	1	0	0	0	8214	1232	43	2	4914	2	KIAA1210	23	118284272	Missense_Mutation	SNP	G	TCGA-B0-4714-01A-01D-1361-10	65177585	118284272	36986288	77	4052											
BCAP31	10134	hgsc.bcm.edu	37	chrX	152981069	152981069	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcttcatgtggaagtgcTccatggccccgggattgttc	8	11	12	10	1	1	0	1	0	0	0	3	2	2	2	3	3	2	3	3	3	2	3	novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		C	152981069	T	C	152981069	3	2	70	1	0	0	0	0	1	0	0	0	1347	1551	54	3	491	3	BCAP31	23	152981069	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01D-1361-10	34696797	152981069	2289491	78	4053											
UTY	7404	hgsc.bcm.edu	37	chrY	15467194	15467195	+	Frame_Shift_Ins	INS	-	-	A																															tgtggttgtcgattagagacINSagagtttgtaggcagtgatg																								novel		TCGA-B0-4714-01A-01D-1361-10	TCGA-B0-4714-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cbfc24fd-bbd6-4015-a74c-3ed78c416869	a6f5f871-a525-49e2-93a9-681b49b38934		A	15467195	-	A	15467194	7	5	70	1	0	1	1	0	0	0	0	0	17106	478	17	0	2903	0	UTY	24	15467194	Frame_Shift_Ins	INS	-	TCGA-B0-4714-01A-01D-1361-10		15467194	43906372	79	4054											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-B0-4714-01A-01W-1359-10	TCGA-B0-4714-11A-01D-2279-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	c67e9881-26a3-412e-aeb4-059d410183a1	0f9e3ab6-6f54-4b0a-9f8a-c1f0b29f1c7d		A	10183797	T	A	10183797	3	1	71	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-B0-4714-01A-01W-1359-10		10183797	187838633	1	4055											
C1orf201	0	hgsc.bcm.edu;ucsc.edu	37	chr1	24710488	24710488	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaacccaggtcctgggatAtcattctgaaagggaagaga	14	8	12	7	0	2	3	1	1	1	2	3	6	3	5	2	3	1	0	2	3	5	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	24710488	A	T	24710488	3	4	72	1	0	0	0	0	1	0	0	0	2027	446	16	5	833	5	C1orf201	1	24710488	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		24710488	224540133	1	4056											
NBPF7	343505	hgsc.bcm.edu	37	chr1	120384017	120384017	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaccttacctgggctgAgcttgtggacaaggtgccgt	6	10	14	11	1	0	1	0	1	0	0	0	2	0	2	4	4	3	2	4	4	2	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	120384017	A	T	120384017	3	4	72	1	0	0	0	0	1	0	0	0	10198	304	11	5	743	5	NBPF7	1	120384017	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	95673529	120384017	128866604	2	4057											
PARP1	142	hgsc.bcm.edu	37	chr1	226566974	226566974	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcgcagagtgttccagTcctgtcccagaggaaaagca	12	7	11	11	1	0	2	0	0	0	2	3	3	3	3	3	1	2	3	3	1	2	1	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	226566974	T	A	226566974	2	1	72	1	0	0	0	0	0	0	0	1	11454	1681	58	5		5	PARP1	1	226566974	Silent	SNP	T	TCGA-B0-4718-01A-01D-1361-10	106182957	226566974	22683647	3	4058											
SIPA1L2	57568	hgsc.bcm.edu	37	chr1	232650234	232650234	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgtttccaccgactcTgatttcaacctccgtttgaa	10	13	7	11	2	2	3	1	2	1	1	4	5	4	3	4	0	1	2	4	0	2	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	232650234	T	G	232650234	2	3	72	1	0	0	0	0	0	0	0	1	14332	1567	55	5		5	SIPA1L2	1	232650234	Silent	SNP	T	TCGA-B0-4718-01A-01D-1361-10	6083260	232650234	16600387	4	4059											
THADA	63892	hgsc.bcm.edu;ucsc.edu	37	chr2	43735802	43735802	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacctgtatgtagaaaggAattccagcactgcgccttgt	12	11	9	9	1	0	1	0	0	0	1	1	2	1	2	3	1	3	3	3	1	6	5	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	43735802	A	C	43735802	3	2	72	1	0	0	0	0	1	0	0	0	15839	242	9	5	2433	5	THADA	2	43735802	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		43735802	199463571	5	4060											
USP34	9736	hgsc.bcm.edu;ucsc.edu	37	chr2	61441707	61441707	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgttgtagacctgatgtaGgactactgttgtgtctggac	8	13	12	8	1	1	2	0	1	1	1	1	4	1	4	1	2	1	4	1	2	3	5	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	61441707	G	A	61441707	2	1	72	1	0	0	0	0	0	0	0	1	17064	991	35	2		2	USP34	2	61441707	Silent	SNP	G	TCGA-B0-4718-01A-01D-1361-10	17705905	61441707	181757666	6	4061											
CCDC93	54520	hgsc.bcm.edu;ucsc.edu	37	chr2	118732771	118732771	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaccacacacctcttcaGctgctcgaagctcatcttcc	9	10	6	16	1	4	0	2	0	2	0	6	2	5	1	3	1	3	3	3	1	1	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	118732771	G	C	118732771	3	2	72	1	0	0	0	0	1	0	0	0	2872	971	34	4	1216	4	CCDC93	2	118732771	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	57291064	118732771	124466602	7	4062			1	5		2	2	27	G		6.046966e-05
CCDC93	54520	hgsc.bcm.edu;ucsc.edu	37	chr2	118732797	118732797	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgaagctcatcttcctcgtgGgcatcagctttttctgtagc	6	14	9	12	2	4	0	2	0	2	0	6	1	5	0	1	1	3	4	1	1	2	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	118732797	G	T	118732797	2	4	72	1	0	0	0	0	0	0	0	1	2872	1219	43	4		4	CCDC93	2	118732797	Silent	SNP	G	TCGA-B0-4718-01A-01D-1361-10	26	118732797	124466576	8	4063			1	5		2	2	27	G		6.046966e-05
GLI2	2736	hgsc.bcm.edu	37	chr2	121708840	121708840	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccctgccctcagcggcagCcctgtcatctctgacatctc	5	9	7	20	1	4	1	2	1	2	0	6	1	4	1	4	1	3	1	4	1	0	0	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	121708840	C	T	121708840	2	4	72	1	0	0	0	0	0	0	0	1	6438	738	26	2		2	GLI2	2	121708840	Silent	SNP	C	TCGA-B0-4718-01A-01D-1361-10	2976043	121708840	121490533	9	4064											
CYBRD1	79901	hgsc.bcm.edu	37	chr2	172409900	172409900	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcttccatgggctccgctTtctctccgagcatttctcat	4	15	7	15	2	2	0	1	0	2	0	7	1	5	0	3	1	2	4	3	1	0	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	172409900	T	C	172409900	3	2	72	1	0	0	0	0	1	0	0	0	4134	1841	64	3	457	3	CYBRD1	2	172409900	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	50701060	172409900	70789473	10	4065											
ABCA12	26154	hgsc.bcm.edu	37	chr2	215845228	215845228	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttcttggtaagcgtgagGtgatacccatcgccaaaggc	9	11	11	10	2	2	2	0	2	2	0	3	2	2	2	2	3	2	1	2	3	3	5	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	215845228	G	A	215845228	2	1	72	1	0	0	0	0	0	0	0	1	30	1252	44	2		2	ABCA12	2	215845228	Silent	SNP	G	TCGA-B0-4718-01A-01D-1361-10	43435328	215845228	27354145	11	4066											
C3orf10	0	hgsc.bcm.edu	37	chr3	10167959	10167959	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcctttcacaggtgacaAaaggtgagacactcacctag	12	10	8	11	0	2	2	2	2	0	1	3	3	3	2	2	2	0	0	2	2	3	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	10167959	A	C	10167959	3	2	72	1	0	0	0	0	1	0	0	0	2207	15	1	5	218	5	C3orf10	3	10167959	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		10167959	187854471	12	4067											
SETD2	29072	hgsc.bcm.edu	37	chr3	47155365	47155365	+	Splice_Site	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtaattaaaaaagaacttaCgaaggaaggtctttggcagc	16	9	11	5	1	1	1	0	0	1	1	1	3	1	2	0	4	3	2	0	4	8	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	47155365	C	A	47155365	5	1	72	1	0	0	0	0	0	0	1	0	14133	550	19	4	3046	4	SETD2	3	47155365	Splice_Site	SNP	C	TCGA-B0-4718-01A-01D-1361-10	36987406	47155365	150867065	13	4068											
PBRM1	55193	ucsc.edu	37	chr3	52643806	52643806	+	Frame_Shift_Del	DEL	T	T	-																															tgggctttttaatagtcagaTagtagtcaggcaactcagat																								novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	T	-	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		-	52643806	T	-	52643806	7	5	72	1	0	1	0	1	0	0	0	0	11491	1406	49	0	2870	0	PBRM1	3	52643806	Frame_Shift_Del	DEL	T	TCGA-B0-4718-01A-01D-1361-10	5488441	52643806	145378624	14	4069											
SLC25A26	115286	hgsc.bcm.edu	37	chr3	66428112	66428112	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatcctgttttttcccctAgattatttgcaggtgtcttc	8	18	6	9	0	1	1	0	0	1	1	4	1	3	1	3	1	1	2	3	1	4	7	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	66428112	A	C	66428112	5	2	72	1	0	0	0	0	0	0	1	0	14491	434	15	5	546	5	SLC25A26	3	66428112	Splice_Site	SNP	A	TCGA-B0-4718-01A-01D-1361-10	13784306	66428112	131594318	15	4070											
POLQ	10721	hgsc.bcm.edu	37	chr3	121158955	121158955	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtctctgtcatgaattGattaatccctacaaagaaaa	15	12	5	9	0	2	3	1	2	1	1	4	3	3	3	1	0	1	0	1	0	6	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	121158955	G	T	121158955	3	4	72	1	0	0	0	0	1	0	0	0	12208	1299	45	4	515	4	POLQ	3	121158955	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	54730843	121158955	76863475	16	4071											
ZBBX	79740	hgsc.bcm.edu	37	chr3	166960361	166960361	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatctgtggaaatctgactTatattcagtgattggctgct	11	15	9	6	0	3	2	1	2	2	0	3	3	3	3	0	2	1	2	0	2	4	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	166960361	T	C	166960361	3	2	72	1	0	0	0	0	1	0	0	0	17515	1744	61	3	202	3	ZBBX	3	166960361	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	45801406	166960361	31062069	17	4072											
SLC25A4	291	hgsc.bcm.edu	37	chr4	186067039	186067039	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcgtagaatgatgatgcagtCcggccggaaagggggtaagc	11	7	16	7	3	0	3	0	2	0	1	2	4	1	4	2	4	2	3	2	4	4	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	186067039	C	G	186067039	3	3	72	1	0	0	0	0	1	0	0	0	14506	855	30	4	735	4	SLC25A4	4	186067039	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10		186067039	5087237	18	4073											
AHRR	57491	hgsc.bcm.edu;ucsc.edu	37	chr5	413518	413518	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatattttatgcatcagcAacgatcgtggactatctggg	11	12	10	8	3	2	0	1	0	1	0	3	3	2	1	0	2	3	2	0	2	4	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	413518	A	G	413518	2	3	72	1	0	0	0	0	0	0	0	1	417	117	5	3		3	AHRR	5	413518	Silent	SNP	A	TCGA-B0-4718-01A-01D-1361-10		413518	180501742	19	4074											
GRIA1	2890	hgsc.bcm.edu;ucsc.edu	37	chr5	153149729	153149729	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttctgtccctaccagaGgtctaaaattgctgtgtttg	7	17	9	8	0	2	1	0	0	2	1	3	1	3	1	2	1	2	3	2	1	3	6	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	153149729	G	A	153149729	3	1	72	1	0	0	0	0	1	0	0	0	6767	1014	35	2	2074	2	GRIA1	5	153149729	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	152736211	153149729	27765531	20	4075											
FGFR4	2264	hgsc.bcm.edu;ucsc.edu	37	chr5	176516674	176516674	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagtcttgtccctggaggCctctgaggaagtggagcttg	6	11	14	10	0	2	1	0	1	2	0	4	4	4	4	3	4	1	1	3	4	1	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	176516674	C	T	176516674	3	4	72	1	0	0	0	0	1	0	0	0	5868	739	26	2	73	2	FGFR4	5	176516674	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10	23366945	176516674	4398586	21	4076											
LRRC16A	55604	hgsc.bcm.edu;ucsc.edu	37	chr6	25538187	25538187	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcagcagagcggctcatGcgtgatgctaagaactctaa	14	8	10	9	2	3	3	2	1	1	2	3	3	3	3	0	1	5	3	0	1	4	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	25538187	G	T	25538187	3	4	72	1	0	0	0	0	1	0	0	0	8971	1319	46	4	2270	4	LRRC16A	6	25538187	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10		25538187	145576880	22	4077											
PTK7	5754	hgsc.bcm.edu;ucsc.edu	37	chr6	43109480	43109480	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgggtgactcgagatgacGctggcaactacacttgcatt	9	9	11	12	3	0	3	0	2	0	1	1	4	0	3	1	2	3	3	1	2	2	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	43109480	G	T	43109480	3	4	72	1	0	0	0	0	1	0	0	0	12767	1087	38	4	1735	4	PTK7	6	43109480	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	17571293	43109480	128005587	23	4078											
SAMD3	154075	hgsc.bcm.edu;ucsc.edu	37	chr6	130505739	130505739	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtccactgtaatgctttgCttcttgctagaatttgtttc	6	19	7	9	1	1	1	0	0	1	1	4	1	2	1	1	0	3	5	1	0	3	7	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	130505739	C	A	130505739	3	1	72	1	0	0	0	0	1	0	0	0	13822	797	28	4	1193	4	SAMD3	6	130505739	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10	87396259	130505739	40609328	24	4079											
C6orf211	79624	hgsc.bcm.edu	37	chr6	151790069	151790069	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaaaatgggagttttctgttCcatttcatcaggctctgaat	10	15	9	7	0	4	1	2	1	2	0	5	3	5	2	1	2	0	3	1	2	3	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	151790069	C	T	151790069	3	4	72	1	0	0	0	0	1	0	0	0	2354	855	30	2	1168	2	C6orf211	6	151790069	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10	21284330	151790069	19324998	25	4080											
POM121C	100101267	hgsc.bcm.edu	37	chr7	75055733	75055733	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggggccatttctcttccaGagctaaaaatcaagagggac	12	9	10	10	0	2	2	1	0	1	2	4	3	3	3	2	3	1	1	2	3	4	3	rs2429596		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	75055733	G	C	75055733	2	2	72	1	0	0	0	0	0	0	0	1	12240	929	33	4		4	POM121C	7	75055733	Silent	SNP	G	TCGA-B0-4718-01A-01D-1361-10		75055733	84082930	26	4081											
CBLL1	79872	hgsc.bcm.edu;ucsc.edu	37	chr7	107393906	107393906	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgactgtaaagggggtgagCtgtttgcaaatcagcgaaga	13	9	14	5	1	1	3	1	2	0	1	1	4	1	3	0	2	3	4	0	2	4	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	107393906	C	G	107393906	3	3	72	1	0	0	0	0	1	0	0	0	2703	796	28	4	242	4	CBLL1	7	107393906	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10	32338173	107393906	51744757	27	4082											
LPL	4023	hgsc.bcm.edu;ucsc.edu	37	chr8	19819627	19819627	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catccattttcttccacaggGtgatcttctgttctagggag	7	15	9	10	0	4	1	0	1	4	0	6	2	6	2	2	2	0	1	2	2	1	6	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	19819627	G	A	19819627	3	1	72	1	0	0	0	0	1	0	0	0	8921	1275	44	2	1358	2	LPL	8	19819627	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10		19819627	126544395	28	4083											
PLAT	5327	hgsc.bcm.edu;ucsc.edu	37	chr8	42046557	42046557	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgactgatgttgctggtAtatcatctgcgttttttcat	7	18	8	8	1	3	2	2	2	1	0	3	2	3	2	1	1	2	4	1	1	2	6	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	42046557	A	G	42046557	3	3	72	1	0	0	0	0	1	0	0	0	12021	449	16	3	1584	3	PLAT	8	42046557	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	22226930	42046557	104317465	29	4084											
CDK20	23552	hgsc.bcm.edu	37	chr9	90585696	90585696	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggccctccctacctggtGgccacctggtgtgtgtagag	4	11	13	13	0	1	1	0	0	1	1	2	1	2	1	5	4	1	1	5	4	2	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	90585696	G	T	90585696	2	4	72	1	0	0	0	0	0	0	0	1	3137	1335	47	4		4	CDK20	9	90585696	Silent	SNP	G	TCGA-B0-4718-01A-01D-1361-10		90585696	50627735	30	4085											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98231217	98231217	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcctgtgtcacggtgacgGgctgcacagagatctcggag	7	9	15	10	3	2	2	1	1	1	1	4	4	3	3	1	3	1	2	1	3	0	0	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	98231217	G	T	98231217	3	4	72	1	0	0	0	0	1	0	0	0	12732	1232	43	4	2317	4	PTCH1	9	98231217	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	7645521	98231217	42982214	31	4086											
ROD1	0	hgsc.bcm.edu;ucsc.edu	37	chr9	114993689	114993689	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaagcccatgtggtgtgAtaagctgtaaagggtaacac	15	9	11	6	0	0	1	0	1	0	0	0	1	0	1	1	2	3	3	1	2	7	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	114993689	A	C	114993689	3	2	72	1	0	0	0	0	1	0	0	0	13521	333	12	5	569	5	ROD1	9	114993689	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	16762472	114993689	26219742	32	4087											
PARD3	56288	hgsc.bcm.edu;ucsc.edu	37	chr10	34671492	34671492	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaagctggatattaagccTcttgcctatttttttggtgt	7	19	8	7	0	1	0	0	0	1	0	1	1	1	1	2	2	3	1	2	2	4	8	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	34671492	T	A	34671492	3	1	72	1	0	0	0	0	1	0	0	0	11443	1550	54	5	2798	5	PARD3	10	34671492	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10		34671492	100863255	33	4088											
ATRNL1	26033	hgsc.bcm.edu;ucsc.edu	37	chr10	117075206	117075206	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgacaccaatctttgcccCaaagaaaagaactatgagtg	15	9	7	10	0	1	4	0	2	1	2	1	4	1	4	3	0	2	0	3	0	6	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	117075206	C	T	117075206	2	4	72	1	0	0	0	0	0	0	0	1	1207	581	21	2		2	ATRNL1	10	117075206	Silent	SNP	C	TCGA-B0-4718-01A-01D-1361-10	82403714	117075206	18459541	34	4089											
DMBT1	1755	hgsc.bcm.edu	37	chr10	124358420	124358420	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gacaccaatgatgccaatgtCgtctgcaggcaactgggctg	10	8	12	11	1	1	1	0	1	1	0	2	2	1	1	2	2	3	3	2	2	3	0	rs2277242	bycluster;byfrequency;by1000genomes	TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	124358420	C	G	124358420	2	3	72	1	0	0	0	0	0	0	0	1	4577	871	31	4		4	DMBT1	10	124358420	Silent	SNP	C	TCGA-B0-4718-01A-01D-1361-10	7283214	124358420	11176327	35	4090											
CHID1	66005	hgsc.bcm.edu;ucsc.edu	37	chr11	902972	902972	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaacttactggagtgacaTagcccagtacatccccagca	12	7	7	15	0	0	1	0	1	0	0	1	2	1	2	4	1	5	2	4	1	4	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	902972	T	C	902972	3	2	72	1	0	0	0	0	1	0	0	0	3345	1406	49	3	974	3	CHID1	11	902972	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10		902972	134103544	36	4091											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6584780	6584780	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaaacagctgttatgcactGaggatttttatcaggtagga	12	12	10	7	0	1	1	1	1	0	0	1	3	1	3	1	3	3	4	1	3	4	5	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	6584780	G	A	6584780	3	1	72	1	0	0	0	0	1	0	0	0	4668	1291	45	2	9957	2	DNHD1	11	6584780	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	5681808	6584780	128421736	37	4092											
USH1C	10083	hgsc.bcm.edu	37	chr11	17523513	17523513	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggggtcaaagccttcctcAtatttccggaaatcctggaa	11	11	9	10	1	2	0	2	0	0	0	5	2	5	2	4	4	1	0	4	4	5	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	17523513	A	C	17523513	4	2	72	1	0	0	0	0	0	1	0	0	17033	224	8	5	528	5	USH1C	11	17523513	Nonsense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	10938733	17523513	117483003	38	4093											
FSHB	2488	hgsc.bcm.edu;ucsc.edu	37	chr11	30253599	30253599	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttggtgtgctggctactgCtacaccagggtaggtaccat	8	11	12	10	0	0	0	0	0	0	0	0	0	0	0	2	4	5	5	2	4	4	5	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	30253599	C	T	30253599	2	4	72	1	0	0	0	0	0	0	0	1	6072	805	28	2		2	FSHB	11	30253599	Silent	SNP	C	TCGA-B0-4718-01A-01D-1361-10	12730086	30253599	104752917	39	4094											
VWCE	220001	hgsc.bcm.edu	37	chr11	61053852	61053852	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcgcacacaaacccaccttCtgtgttcacacagtggccct	9	9	6	17	1	2	0	1	0	1	0	3	0	2	0	3	1	1	2	3	1	1	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	61053852	C	G	61053852	3	3	72	1	0	0	0	0	1	0	0	0	17244	922	32	4	2456	4	VWCE	11	61053852	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10	30800253	61053852	73952664	40	4095											
CLEC1A	51267	hgsc.bcm.edu	37	chr12	10225998	10225998	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcagagtagctctgagAcgcggcaaattcctgtgaaa	14	8	10	9	2	2	3	1	2	1	2	3	4	3	3	1	1	2	3	1	1	4	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	10225998	A	G	10225998	3	3	72	1	0	0	0	0	1	0	0	0	3505	275	10	3	294	3	CLEC1A	12	10225998	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		10225998	123625897	41	4096											
BCL2L14	79370	hgsc.bcm.edu;ucsc.edu	37	chr12	12232325	12232325	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaattcaaaatcctcgcctActacaccagacatcatgtct	14	10	4	13	1	3	2	2	0	1	2	5	2	4	2	3	0	2	0	3	0	5	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	12232325	A	T	12232325	3	4	72	1	0	0	0	0	1	0	0	0	1372	391	14	5	88	5	BCL2L14	12	12232325	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	2006327	12232325	121619570	42	4097											
PRPF40B	25766	hgsc.bcm.edu;ucsc.edu	37	chr12	50029153	50029153	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatatgctccacaggcgggCagaacagacctttggggagc	10	8	13	10	1	0	2	0	0	0	2	1	3	1	3	2	4	3	2	2	4	3	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	50029153	C	T	50029153	3	4	72	1	0	0	0	0	1	0	0	0	12574	710	25	2	1156	2	PRPF40B	12	50029153	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10	37796828	50029153	83822742	43	4098											
XRCC6BP1	91419	hgsc.bcm.edu;ucsc.edu	37	chr12	58347427	58347427	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtggagactgctcacttgtCaatgaaatattcaggttaca	13	12	9	7	0	3	2	3	1	0	1	3	3	3	2	0	2	2	2	0	2	4	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	58347427	C	T	58347427	2	4	72	1	0	0	0	0	0	0	0	1	17457	813	29	2		2	XRCC6BP1	12	58347427	Silent	SNP	C	TCGA-B0-4718-01A-01D-1361-10	8318274	58347427	75504468	44	4099											
E2F7	144455	hgsc.bcm.edu;ucsc.edu	37	chr12	77426862	77426862	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattttctgtctatagacAgctgccaggcttccaatttc	8	16	6	11	0	3	1	0	0	3	1	5	1	4	1	2	1	2	2	2	1	4	7	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	77426862	A	G	77426862	2	3	72	1	0	0	0	0	0	0	0	1	4872	175	7	3		3	E2F7	12	77426862	Silent	SNP	A	TCGA-B0-4718-01A-01D-1361-10	19079435	77426862	56425033	45	4100											
E2F7	144455	hgsc.bcm.edu;ucsc.edu	37	chr12	77427723	77427723	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactgtgttaaaagaaccaTggcgagccagcttctgtttt	11	12	10	8	1	1	1	0	0	1	1	1	3	1	1	2	1	4	3	2	1	4	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	77427723	T	C	77427723	3	2	72	1	0	0	0	0	1	0	0	0	4872	1464	51	3	1536	3	E2F7	12	77427723	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	861	77427723	56424172	46	4101											
ANAPC7	51434	hgsc.bcm.edu	37	chr12	110820691	110820691	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctgatcagagatattgaAaaggcggcatccaaggttct	13	10	11	7	1	2	3	1	2	1	1	3	4	3	3	1	3	1	3	1	3	4	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	110820691	A	T	110820691	3	4	72	1	0	0	0	0	1	0	0	0	606	14	1	5	829	5	ANAPC7	12	110820691	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	33392968	110820691	23031204	47	4102											
GPR133	283383	hgsc.bcm.edu;ucsc.edu	37	chr12	131488769	131488769	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcccaagaccgtgaatTcctcccattaccgcttcccg	7	10	6	18	3	0	2	0	1	0	1	4	2	4	2	7	0	2	1	7	0	3	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	131488769	T	A	131488769	3	1	72	1	0	0	0	0	1	0	0	0	6643	1783	62	5	1225	5	GPR133	12	131488769	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	20668078	131488769	2363126	48	4103											
EP400	57634	hgsc.bcm.edu	37	chr12	132512584	132512584	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaagaccagactcttgaAagagcgcctggatcagattt	14	8	11	8	1	2	5	1	1	1	4	2	7	2	7	2	2	1	0	2	2	3	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	132512584	A	G	132512584	3	3	72	1	0	0	0	0	1	0	0	0	5149	14	1	3	5231	3	EP400	12	132512584	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	1023815	132512584	1339311	49	4104											
PARP4	143	hgsc.bcm.edu;ucsc.edu	37	chr13	25074499	25074499	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtggcactgtccgggCatagaccttctgttttcact	5	14	9	13	1	3	1	1	0	2	1	4	1	4	1	3	2	0	3	3	2	1	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	25074499	C	T	25074499	3	4	72	1	0	0	0	0	1	0	0	0	11463	710	25	2	4942	2	PARP4	13	25074499	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10		25074499	90095379	50	4105											
RNF17	56163	hgsc.bcm.edu;ucsc.edu	37	chr13	25367463	25367463	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgtgataattgaagaaAttattgaagacaacgtggaa	17	11	10	3	1	0	6	0	4	0	2	0	7	0	7	0	1	1	0	0	1	7	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	25367463	A	T	25367463	3	4	72	1	0	0	0	0	1	0	0	0	13463	101	4	5	1257	5	RNF17	13	25367463	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	292964	25367463	89802415	51	4106											
TMEM62	80021	hgsc.bcm.edu;ucsc.edu	37	chr15	43476766	43476766	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttcatggtgcagttaaaAagccacctgagctcctgaag	12	10	9	10	0	2	2	1	2	1	0	3	2	3	2	3	1	3	3	3	1	4	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	43476766	A	C	43476766	3	2	72	1	0	0	0	0	1	0	0	0	16188	11	1	5	1968	5	TMEM62	15	43476766	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		43476766	59054626	52	4107											
COG7	91949	hgsc.bcm.edu;ucsc.edu	37	chr16	23417539	23417539	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaaaaccagccaggctccggGggctgcaggaatcagataga	13	4	14	10	1	1	2	1	0	0	2	2	4	2	3	3	4	3	3	3	4	4	1	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	23417539	G	A	23417539	3	1	72	1	0	0	0	0	1	0	0	0	3663	1232	43	2	816	2	COG7	16	23417539	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10		23417539	66937214	53	4108											
ARHGAP17	55114	hgsc.bcm.edu	37	chr16	24960732	24960732	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcatacatacctaaagtTaacaaaattttgtggtggca	16	12	6	7	0	1	0	1	0	0	0	1	0	1	0	1	2	3	2	1	2	8	6	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	24960732	T	A	24960732	3	1	72	1	0	0	0	0	1	0	0	0	867	1754	61	5	1557	5	ARHGAP17	16	24960732	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	1543193	24960732	65394021	54	4109											
NFAT5	10725	hgsc.bcm.edu	37	chr16	69727924	69727924	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttatctccagcatccaTgtctgccttgcagaccagta	8	13	6	14	0	3	1	0	0	3	1	5	1	4	1	4	0	3	3	4	0	2	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	69727924	T	C	69727924	3	2	72	1	0	0	0	0	1	0	0	0	10360	1464	51	3	4246	3	NFAT5	16	69727924	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	44767192	69727924	20626829	55	4110											
RHBDL3	162494	hgsc.bcm.edu	37	chr17	30621399	30621399	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttgaagaactccctggtTtaccacccacagctgcgagc	10	9	8	14	1	0	2	0	1	0	1	1	3	1	2	3	1	6	2	3	1	4	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	30621399	T	G	30621399	2	3	72	1	0	0	0	0	0	0	0	1	13325	1828	64	5		5	RHBDL3	17	30621399	Silent	SNP	T	TCGA-B0-4718-01A-01D-1361-10		30621399	50573811	56	4111											
MED24	9862	hgsc.bcm.edu;ucsc.edu	37	chr17	38176135	38176135	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgcacgaactgggtgtggGggccagcggtgcgagacccc	7	5	17	12	3	0	1	0	0	0	1	0	3	0	1	3	4	4	1	3	4	1	0	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	38176135	G	T	38176135	3	4	72	1	0	0	0	0	1	0	0	0	9442	1232	43	4	221	4	MED24	17	38176135	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	7554736	38176135	43019075	57	4112											
SGCA	6442	hgsc.bcm.edu	37	chr17	48245918	48245918	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtcccccttcccattgAgggccgaaaagaagggtagg	9	7	13	12	2	0	2	0	1	0	1	2	3	2	2	5	3	0	1	5	3	4	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	48245918	A	G	48245918	3	3	72	1	0	0	0	0	1	0	0	0	14201	304	11	3	587	3	SGCA	17	48245918	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	10069783	48245918	32949292	58	4113											
DHX40	79665	hgsc.bcm.edu	37	chr17	57656854	57656854	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgtggtagatggtggcttCgtgaagcagttaaatcacaa	12	12	12	5	1	1	2	1	1	0	1	2	2	1	2	0	3	1	4	0	3	6	4	rs2697409		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	57656854	C	T	57656854	2	4	72	1	0	0	0	0	0	0	0	1	4512	883	31	1		1	DHX40	17	57656854	Silent	SNP	C	TCGA-B0-4718-01A-01D-1361-10	9410936	57656854	23538356	59	4114											
FTSJ3	117246	hgsc.bcm.edu	37	chr17	61899416	61899416	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatccaggtcactatccagaGatgtgtcatcaccgtcgtcc	9	10	9	13	2	3	1	3	0	0	1	7	3	6	1	4	1	0	0	4	1	1	1	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	61899416	G	C	61899416	3	2	72	1	0	0	0	0	1	0	0	0	6089	942	33	4	1172	4	FTSJ3	17	61899416	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	4242562	61899416	19295794	60	4115											
CHMP1B	57132	hgsc.bcm.edu;ucsc.edu	37	chr18	11851688	11851688	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgccatccgccagaagAaccaggcggtgaatttcttg	13	8	10	10	2	1	3	0	1	1	2	2	3	2	3	4	2	2	0	4	2	5	2	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	11851688	A	C	11851688	3	2	72	1	0	0	0	0	1	0	0	0	3353	246	9	5	180	5	CHMP1B	18	11851688	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		11851688	66225560	61	4116											
SERPINB13	5275	hgsc.bcm.edu	37	chr18	61264230	61264230	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagaaattggtagagtGgactagtccagggcatatgg	11	10	14	6	0	0	2	0	1	0	2	2	4	2	3	2	4	0	2	2	4	4	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	61264230	G	A	61264230	4	1	72	1	0	0	0	0	0	1	0	0	14102	1357	47	2	835	2	SERPINB13	18	61264230	Nonsense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	49412542	61264230	16813018	62	4117											
ADNP2	22850	hgsc.bcm.edu;ucsc.edu	37	chr18	77894041	77894041	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggagaataagcttagaTctgtgatttcagaacatatt	14	15	8	4	0	2	4	1	1	1	3	2	5	2	4	0	1	2	1	0	1	5	6	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	77894041	T	G	77894041	3	3	72	1	0	0	0	0	1	0	0	0	324	1435	50	5	755	5	ADNP2	18	77894041	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	16629811	77894041	183207	63	4118											
DIRAS1	148252	hgsc.bcm.edu	37	chr19	2717570	2717570	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaggatgaaggcgtggcCcttggagatggacaggcgct	9	6	16	10	2	0	2	0	1	0	1	0	5	0	4	2	6	0	1	2	6	1	1	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	2717570	C	A	2717570	3	1	72	1	0	0	0	0	1	0	0	0	4530	623	22	4	365	4	DIRAS1	19	2717570	Missense_Mutation	SNP	C	TCGA-B0-4718-01A-01D-1361-10		2717570	56411413	64	4119											
SLC25A23	79085	hgsc.bcm.edu	37	chr19	6454351	6454351	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacctgttcataggccatgaActtgatagctgactcggggg	9	10	12	10	1	1	3	1	3	0	0	2	3	1	3	2	3	2	2	2	3	3	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	6454351	A	G	6454351	3	3	72	1	0	0	0	0	1	0	0	0	14488	43	2	3	648	3	SLC25A23	19	6454351	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	3736781	6454351	52674632	65	4120											
PRX	57716	hgsc.bcm.edu	37	chr19	40902613	40902613	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttcatctctgacactttcGgcagctgtacctctggaagc	7	13	9	12	1	3	1	1	1	2	0	5	2	3	2	1	2	3	4	1	2	2	3	rs150582069		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	40902613	G	A	40902613	3	1	72	1	0	0	0	0	1	0	0	0	12644	1116	39	1	2743	1	PRX	19	40902613	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10	34448262	40902613	18226370	66	4121											
RALGAPA2	57186	hgsc.bcm.edu;ucsc.edu	37	chr20	20486076	20486076	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatccaagtccagcaacAaagtcttcatatgcttggct	11	11	6	13	0	2	0	1	0	1	0	5	0	5	0	3	1	3	3	3	1	4	3	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	20486076	A	G	20486076	2	3	72	1	0	0	0	0	0	0	0	1	13016	127	5	3		3	RALGAPA2	20	20486076	Silent	SNP	A	TCGA-B0-4718-01A-01D-1361-10		20486076	42539444	67	4122											
CHRNA4	1137	hgsc.bcm.edu	37	chr20	61981763	61981763	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtgtgcgtgcgtggcgAgcggtggtgcacgttgagca	5	9	19	8	5	0	1	0	1	0	0	0	2	0	1	0	4	5	3	0	4	0	1	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		T	61981763	A	T	61981763	3	4	72	1	0	0	0	0	1	0	0	0	3385	304	11	5	891	5	CHRNA4	20	61981763	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10	41495687	61981763	1043757	68	4123											
POTED	317754	hgsc.bcm.edu	37	chr21	15013735	15013735	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgcaggaagaaattgccAtgctaagactggaactagat	14	10	11	6	0	0	3	0	0	0	3	0	5	0	5	1	2	4	3	1	2	5	4	rs9980783	bycluster	TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		G	15013735	A	G	15013735	3	3	72	1	0	0	0	0	1	0	0	0	12263	217	8	3	1645	3	POTED	21	15013735	Missense_Mutation	SNP	A	TCGA-B0-4718-01A-01D-1361-10		15013735	33116160	69	4124											
ARVCF	421	hgsc.bcm.edu;ucsc.edu	37	chr22	19969473	19969473	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccttggtctcggtgcgccGggttgtgccatcttcggatg	3	13	14	11	4	2	0	0	0	2	0	4	1	2	1	3	4	3	1	3	4	1	4	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	19969473	G	C	19969473	3	2	72	1	0	0	0	0	1	0	0	0	1003	1115	39	4	2600	4	ARVCF	22	19969473	Missense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10		19969473	31335093	70	4125											
SRRD	402055	hgsc.bcm.edu;ucsc.edu	37	chr22	26884408	26884408	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtttagccaacttgaaaTtgaagtccttaacacccttg	11	14	6	10	0	1	2	0	2	1	0	2	2	2	2	3	0	3	1	3	0	5	6	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		C	26884408	T	C	26884408	3	2	72	1	0	0	0	0	1	0	0	0	15168	1493	52	3	577	3	SRRD	22	26884408	Missense_Mutation	SNP	T	TCGA-B0-4718-01A-01D-1361-10	6914935	26884408	24420158	71	4126											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53230752	53230752	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctccagcagggcctttcGtagacgccgctcttcttgca	5	12	9	15	3	3	1	0	0	3	1	5	1	3	1	3	1	2	4	3	1	1	5	novel		TCGA-B0-4718-01A-01D-1361-10	TCGA-B0-4718-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	698af929-547a-47d9-b7b6-3c096b1b3c75	d427b9ce-b2aa-4b47-97d5-0a74096d4e02		A	53230752	G	A	53230752	4	1	72	1	0	0	0	0	0	1	0	0	8135	1153	40	1	2791	1	KDM5C	23	53230752	Nonsense_Mutation	SNP	G	TCGA-B0-4718-01A-01D-1361-10		53230752	102039808	72	4127											
CCDC27	148870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	3669160	3669160	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacaaagctcacttggtCtttgcatcccacgcctcatg	9	10	8	14	1	3	0	2	0	1	0	4	0	4	0	2	2	3	3	2	2	2	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	3669160	C	A	3669160	3	1	73	1	0	0	0	0	1	0	0	0	2801	913	32	4	117	4	CCDC27	1	3669160	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		3669160	245581461	1	4128											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11184589	11184589	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagagatgttgggtcattggCcagaagggtgttaaccaggc	11	9	15	6	0	1	2	1	0	0	2	1	3	1	2	2	4	1	2	2	4	3	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	11184589	C	G	11184589	3	3	73	1	0	0	0	0	1	0	0	0	9954	739	26	4	1069	4	MTOR	1	11184589	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	7515429	11184589	238066032	2	4129											
COL11A1	1301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	103468818	103468818	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggacccagcaaacctcGtgggccctaggagaaaaaga	13	5	11	12	1	0	2	0	0	0	2	1	4	0	3	4	3	2	1	4	3	4	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	103468818	G	A	103468818	4	1	73	1	0	0	0	0	0	1	0	0	3667	1153	40	1	3657	1	COL11A1	1	103468818	Nonsense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	92284229	103468818	145781803	3	4130											
TXNIP	10628	broad.mit.edu	37	chr1	145440928	145440928	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctgctatatggatgtcattCctgaagatcaccgattggag	10	12	10	9	1	2	2	2	1	0	1	3	5	3	4	3	2	1	1	3	2	3	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	145440928	G	G	145440928	3	3	73	1	0	0	0	0	1	0	0	0	16802	855	30	4	1041	4	TXNIP	1	145440928	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	41972110	145440928	103809693	4	4131											
FAM49A	81553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	16742257	16742257	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatctctgatttaacttaCggagtttccagcatgacttt	10	16	6	9	1	1	2	0	2	1	0	3	3	2	3	1	1	4	2	1	1	3	6	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	16742257	C	T	16742257	5	4	73	1	0	0	0	0	0	0	1	0	5575	550	19	1	276	1	FAM49A	2	16742257	Splice_Site	SNP	C	TCGA-B0-4810-01A-01D-1501-10		16742257	226457116	5	4132											
MGAT5	4249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135107382	135107382	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttttctttcaggtgcatGctccgagtccttgattcatt	5	19	7	10	1	3	1	2	1	1	0	5	2	5	1	2	1	2	2	2	1	0	7	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	135107382	G	A	135107382	3	1	73	1	0	0	0	0	1	0	0	0	9548	1319	46	2	1153	2	MGAT5	2	135107382	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	118365125	135107382	108091991	6	4133											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141135789	141135789	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaaaatctccatcacacCaaaaccttgaagaaacacag	19	6	4	12	0	3	2	2	1	1	1	4	2	3	2	3	0	2	0	3	0	6	1	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	141135789	C	A	141135789	3	1	73	1	0	0	0	0	1	0	0	0	8955	595	21	4	3297	4	LRP1B	2	141135789	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	6028407	141135789	102063584	7	4134											
CLK1	1195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201721415	201721415	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatactcacctaaaataacTtcaggtgctctataatgtct	14	14	4	9	0	4	0	2	0	2	0	4	0	4	0	1	1	3	1	1	1	7	7	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		C	201721415	T	C	201721415	2	2	73	1	0	0	0	0	0	0	0	1	3536	1606	56	3		3	CLK1	2	201721415	Silent	SNP	T	TCGA-B0-4810-01A-01D-1501-10	60585626	201721415	41477958	8	4135											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188224	10188224	+	Frame_Shift_Del	DEL	G	G	-																															tttggctcttcagagatgcaGggacacacgatgggcttctg																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	10188224	G	-	10188224	7	5	73	1	0	1	0	1	0	0	0	0	17161	1000	35	0	373	0	VHL	3	10188224	Frame_Shift_Del	DEL	G	TCGA-B0-4810-01A-01D-1501-10		10188224	187834206	9	4136											
CCDC13	152206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42781196	42781196	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcccatctgactcttgaggGtcttcatctcacttgacagc	7	14	7	13	0	5	3	2	3	4	0	7	3	6	3	1	1	1	0	1	1	0	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	42781196	G	T	42781196	3	4	73	1	0	0	0	0	1	0	0	0	2765	1261	44	4	1085	4	CCDC13	3	42781196	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	32592972	42781196	155241234	10	4137											
GRM2	2912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51749554	51749555	+	Frame_Shift_Del	DEL	TT	TT	-																															ccctctttgtgctgggtgtcTttgtgcggcacaatgccaca																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	51749555	TT	-	51749554	7	5	73	1	0	1	0	1	0	0	0	0	6797	1609	56	0	1775	0	GRM2	3	51749554	Frame_Shift_Del	DEL	TT	TCGA-B0-4810-01A-01D-1501-10	8968358	51749554	146272876	11	4138											
ANAPC4	29945	hgsc.bcm.edu;ucsc.edu	37	chr4	25418164	25418164	+	Frame_Shift_Del	DEL	A	A	-																															gtccagctgcctttgtctttAgtatataacagtgaagattc																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	25418164	A	-	25418164	7	5	73	1	0	1	0	1	0	0	0	0	604	417	15	0	2121	0	ANAPC4	4	25418164	Frame_Shift_Del	DEL	A	TCGA-B0-4810-01A-01D-1501-10		25418164	165736112	12	4139											
ART3	419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77003637	77003637	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggcaataaccttatcCttcaaagcataaacaagacc	15	8	7	11	0	1	1	1	0	0	1	2	1	2	1	3	2	3	3	3	2	7	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	77003637	C	T	77003637	3	4	73	1	0	0	0	0	1	0	0	0	998	681	24	2	736	2	ART3	4	77003637	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	51585473	77003637	114150639	13	4140											
BMP2K	55589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79831928	79831928	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgatgaatctgaaagtGattttgaatcagatccccct	13	12	9	7	0	2	6	1	5	1	1	3	7	3	7	2	1	0	0	2	1	4	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	79831928	G	T	79831928	3	4	73	1	0	0	0	0	1	0	0	0	1460	1290	45	4	2327	4	BMP2K	4	79831928	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	2828291	79831928	111322348	14	4141											
NHEDC2	0	broad.mit.edu;ucsc.edu	37	chr4	103971409	103971409	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatacctttgaatccagAccaaggccagcacgaaccag	13	8	7	13	1	1	2	1	1	0	1	2	3	2	2	5	1	3	1	5	1	4	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	103971409	G	G	103971409	2	3	73	1	0	0	0	0	0	0	0	1	10401	262	10	3		3	NHEDC2	4	103971409	Silent	SNP	A	TCGA-B0-4810-01A-01D-1501-10	24139481	103971409	87182867	15	4142											
ANKRD50	57182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	125590855	125590855	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtagatgaagtagttcTcaaagatgaattttttgagc	12	15	10	4	0	1	5	1	3	1	2	2	5	1	5	0	0	2	4	0	0	5	6	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		C	125590855	T	C	125590855	3	2	73	1	0	0	0	0	1	0	0	0	677	1559	54	3	716	3	ANKRD50	4	125590855	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10	21619446	125590855	65563421	16	4143											
NEK1	4750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	170510619	170510619	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tattaagaactctagcaattCcaaaatctccaagttgtact	15	13	4	9	0	2	1	0	0	2	1	4	1	3	1	2	0	3	3	2	0	9	6	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	170510619	C	T	170510619	3	4	73	1	0	0	0	0	1	0	0	0	10321	855	30	2	3449	2	NEK1	4	170510619	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	44919764	170510619	20643657	17	4144											
SHROOM1	134549	broad.mit.edu;ucsc.edu	37	chr5	132158628	132158628	+	Missense_Mutation	SNP	C	T	T																															aaggaggcggatgcgctcgtCcaggttgcgctgctgggcca																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	132158628	T	T	132158628	3	4	73	1	0	0	0	0	1	0	0	0	14295	855	30	2	143	2	SHROOM1	5	132158628	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		132158628	48756632	18	4145	48	2									
SHROOM1	134549	broad.mit.edu;ucsc.edu	37	chr5	132158629	132158629	+	Silent	SNP	C	A	A																															aggaggcggatgcgctcgtcCaggttgcgctgctgggccag																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	132158629	A	A	132158629	2	1	73	1	0	0	0	0	0	0	0	1	14295	581	21	4		4	SHROOM1	5	132158629	Silent	SNP	C	TCGA-B0-4810-01A-01D-1501-10	1	132158629	48756631	19	4146	48	2									
FAM114A2	10827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153390869	153390869	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgttatgtccttggtaaAatcttcatcccctaaaaaac	12	14	4	11	0	3	0	1	0	2	0	5	0	5	0	3	1	1	2	3	1	6	5	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	153390869	A	T	153390869	3	4	73	1	0	0	0	0	1	0	0	0	5404	14	1	5	616	5	FAM114A2	5	153390869	Missense_Mutation	SNP	A	TCGA-B0-4810-01A-01D-1501-10	21232240	153390869	27524391	20	4147											
IFNGR1	3459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	137519168	137519168	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgcaacttagctgatcTcatgaaaattctttggaatc	11	15	8	7	0	2	2	1	2	2	0	4	3	2	3	0	2	3	2	0	2	5	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	137519168	T	A	137519168	3	1	73	1	0	0	0	0	1	0	0	0	7549	1564	54	5	3	5	IFNGR1	6	137519168	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10		137519168	33595899	21	4148											
NT5C3	51251	broad.mit.edu;hgsc.bcm.edu	37	chr7	33054375	33054375	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaaaatagagttggctacTtctaatgattcatcttgtac	12	16	7	6	0	3	2	1	1	2	1	3	2	3	2	0	1	2	4	0	1	6	9	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	33054375	T	G	33054375	3	3	73	1	0	0	0	0	1	0	0	0	10688	1606	56	5	36	5	NT5C3	7	33054375	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10		33054375	126084288	22	4149											
MLL3	58508	hgsc.bcm.edu	37	chr7	151921164	151921167	+	Frame_Shift_Del	DEL	AGGA	AGGA	-																															gtttcgatagcagactggacAggaagataagcttgcacaag																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	AGGA	AGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	151921167	AGGA	-	151921164	7	5	73	1	0	1	0	1	0	0	0	0	9622	188	7	0	11636	0	MLL3	7	151921164	Frame_Shift_Del	DEL	AGGA	TCGA-B0-4810-01A-01D-1501-10	118866789	151921164	7217499	23	4150											
XKR6	286046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10782233	10782233	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaaggtctccaggaggCgcagcatgttgacgtctgca	9	7	14	11	2	2	1	0	1	2	0	3	3	2	3	2	4	2	4	2	4	1	1	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	10782233	C	T	10782233	3	4	73	1	0	0	0	0	1	0	0	0	17434	768	27	1	1061	1	XKR6	8	10782233	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		10782233	135581789	24	4151											
RP1	6101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55542355	55542355	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgtgttcagggaagagaaCaataaagcaagtatgagaca	19	7	11	4	0	1	2	1	1	0	2	1	5	1	3	0	1	2	3	0	1	8	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	55542355	C	A	55542355	3	1	73	1	0	0	0	0	1	0	0	0	13534	477	17	4	5923	4	RP1	8	55542355	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	44760122	55542355	90821667	25	4152											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	100711812	100711812	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgagtttcaccaaactgGatcagataaaccttttttta	13	14	5	9	0	2	2	2	1	0	1	2	3	2	3	3	1	2	1	3	1	4	6	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	100711812	G	T	100711812	3	4	73	1	0	0	0	0	1	0	0	0	17189	1174	41	4	6513	4	VPS13B	8	100711812	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	45169457	100711812	45652210	26	4153											
DSCC1	79075	broad.mit.edu;ucsc.edu	37	chr8	120865431	120865431	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacagcacagcttgctcGtctttatcaccacgaatcac	10	10	6	15	2	3	0	2	0	1	0	4	1	3	0	1	0	4	4	1	0	2	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	120865431	T	T	120865431	3	4	73	1	0	0	0	0	1	0	0	0	4770	1136	40	4	1006	4	DSCC1	8	120865431	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	20153619	120865431	25498591	27	4154											
KIAA1045	23349	broad.mit.edu	37	chr9	34971509	34971509	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggtggtccaggaagagAgtagtgccggccgcgcagcc	7	5	16	13	4	0	1	0	0	0	1	2	3	1	2	5	4	2	2	5	4	2	1	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	34971509	G	G	34971509	3	3	73	1	0	0	0	0	1	0	0	0	8207	304	11	3	216	3	KIAA1045	9	34971509	Missense_Mutation	SNP	A	TCGA-B0-4810-01A-01D-1501-10		34971509	106241922	28	4155											
C10orf18	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5789390	5789390	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctctcacagaaagcagaGaagtgagttctgctgacaat	13	9	11	8	0	2	4	1	2	2	2	3	5	2	4	0	1	2	4	0	1	3	1	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	5789390	G	T	5789390	4	4	73	1	0	0	0	0	0	1	0	0	1596	943	33	4	4052	4	C10orf18	10	5789390	Nonsense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10		5789390	129745357	29	4156											
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89725043	89725043	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaattttctttctctaGgtgaagctgtacttcacaaa	11	18	5	7	0	3	1	1	1	2	0	4	1	3	1	0	1	2	2	0	1	6	8	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	89725043	G	A	89725043	5	1	73	1	0	0	0	0	0	0	1	0	12740	1014	35	2	1060	2	PTEN	10	89725043	Splice_Site	SNP	G	TCGA-B0-4810-01A-01D-1501-10	83935653	89725043	45809704	30	4157											
CCDC73	493860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32635626	32635626	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatatttttacacatagtTtttcccccagggcttgagtt	8	17	6	10	0	1	1	1	1	0	0	2	1	2	1	2	1	1	3	2	1	3	9	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	32635626	T	G	32635626	3	3	73	1	0	0	0	0	1	0	0	0	2846	1838	64	5	1013	5	CCDC73	11	32635626	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10		32635626	102370890	31	4158											
OR4C6	219432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55432900	55432900	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtagacaccctctccaaGagcactaccatctctctcaa	12	10	4	15	0	3	2	1	0	3	2	6	2	3	2	3	0	2	2	3	0	4	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	55432900	G	T	55432900	3	4	73	1	0	0	0	0	1	0	0	0	11052	933	33	4	260	4	OR4C6	11	55432900	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	22797274	55432900	79573616	32	4159											
PYGM	5837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64527310	64527310	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtcacgttctccacgcCggccaggccacgcacactga	8	6	9	18	4	3	1	2	1	1	0	4	1	3	1	4	2	0	2	4	2	0	1	rs145881639	byfrequency	TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	64527310	C	T	64527310	3	4	73	1	0	0	0	0	1	0	0	0	12864	652	23	1	2547	1	PYGM	11	64527310	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	9094410	64527310	70479206	33	4160											
LRP5	4041	broad.mit.edu;hgsc.bcm.edu	37	chr11	68216349	68216349	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgacagcgactacagCgccagccgctggaaggccag	9	5	15	12	3	0	1	0	1	0	0	0	3	0	2	3	2	4	1	3	2	2	1	rs112415702	bycluster	TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	68216349	C	T	68216349	2	4	73	1	0	0	0	0	0	0	0	1	8960	767	27	1		1	LRP5	11	68216349	Silent	SNP	C	TCGA-B0-4810-01A-01D-1501-10	3689039	68216349	66790167	34	4161											
PRB3	5544	broad.mit.edu	37	chr12	11420779	11420779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggctttcccggacgaggcGggggaccttgggactggttt	4	10	17	10	3	0	0	0	0	0	0	1	4	1	3	2	7	0	2	2	7	0	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	11420779	A	A	11420779	3	1	73	1	0	0	0	0	1	0	0	0	12446	1116	39	1	533	1	PRB3	12	11420779	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10		11420779	122431116	35	4162											
DENND5B	160518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	31540556	31540556	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacacatccactcctttgAtgagtgatccttctaggact	9	14	7	11	0	1	3	0	3	1	0	4	4	4	4	3	1	1	1	3	1	2	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	31540556	A	T	31540556	3	4	73	1	0	0	0	0	1	0	0	0	4437	333	12	5	22	5	DENND5B	12	31540556	Missense_Mutation	SNP	A	TCGA-B0-4810-01A-01D-1501-10	20119777	31540556	102311339	36	4163											
PRICKLE1	144165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	42864091	42864091	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacaaaagctgtttaatcCgatgcttctctccggggctg	8	12	11	10	2	1	0	0	0	1	0	4	1	3	0	2	3	3	5	2	3	4	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	42864091	C	G	42864091	3	3	73	1	0	0	0	0	1	0	0	0	12488	652	23	4	2316	4	PRICKLE1	12	42864091	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	11323535	42864091	90987804	37	4164											
KCNMB4	27345	hgsc.bcm.edu	37	chr12	70760617	70760617	+	Frame_Shift_Del	DEL	T	T	-																															gcgtcgtgtcgctcttcatcTtcggcttctgctggctgagt																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	70760617	T	-	70760617	7	5	73	1	0	1	0	1	0	0	0	0	8077	1609	56	0	105	0	KCNMB4	12	70760617	Frame_Shift_Del	DEL	T	TCGA-B0-4810-01A-01D-1501-10	27896526	70760617	63091278	38	4165	49	2									
KCNMB4	27345	hgsc.bcm.edu	37	chr12	70760620	70760621	+	Frame_Shift_Del	DEL	GG	GG	-																															tcgtgtcgctcttcatcttcGgcttctgctggctgagtccc																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	70760621	GG	-	70760620	7	5	73	1	0	1	0	1	0	0	0	0	8077	1116	39	0	108	0	KCNMB4	12	70760620	Frame_Shift_Del	DEL	GG	TCGA-B0-4810-01A-01D-1501-10	3	70760620	63091275	39	4166	49	2									
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117728169	117728169	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcccagttcttgaccttgagGaagcgtggacacttggaggg	8	10	14	9	1	1	2	0	2	1	0	2	5	2	5	2	4	1	1	2	4	1	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	117728169	G	T	117728169	3	4	73	1	0	0	0	0	1	0	0	0	10541	1165	41	4	3493	4	NOS1	12	117728169	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	46967549	117728169	16123726	40	4167											
ATP8A2	51761	broad.mit.edu;ucsc.edu	37	chr13	26125480	26125480	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgctgttgtgtagaattCaaccaaagcgcctctcaaga	13	10	8	10	1	2	2	2	0	1	2	3	2	2	2	2	0	3	3	2	0	6	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	26125480	A	A	26125480	4	1	73	1	0	0	0	0	0	1	0	0	1193	838	29	4	938	4	ATP8A2	13	26125480	Nonsense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		26125480	89044398	41	4168											
CDX2	1045	broad.mit.edu	37	chr13	28542693	28542693	+	Frame_Shift_Del	DEL	C	-	-																															agacagctgctcggcggcagCggtggcggcgggcccaggag																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	28542693	-	-	28542693	7	5	73	1	0	1	0	1	0	0	0	0	3183	768	27	0	502	0	CDX2	13	28542693	Frame_Shift_Del	DEL	C	TCGA-B0-4810-01A-01D-1501-10	2417213	28542693	86627185	42	4169											
MED4	29079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	48651403	48651403	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtggtaacatattcaTcgacatgtcatttgactgcc	10	15	8	8	1	2	1	2	1	0	0	3	2	2	1	1	2	2	1	1	2	2	5	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		C	48651403	T	C	48651403	3	2	73	1	0	0	0	0	1	0	0	0	9450	1435	50	3	131	3	MED4	13	48651403	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10	20108710	48651403	66518475	43	4170											
ARHGAP5	394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	32560363	32560363	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatggatttttattatgcaTtgatgtaagtcaaggatgca	13	15	10	3	0	1	2	1	1	0	1	1	4	1	4	0	2	2	3	0	2	4	6	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	32560363	T	G	32560363	3	3	73	1	0	0	0	0	1	0	0	0	886	1493	52	5	490	5	ARHGAP5	14	32560363	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10		32560363	74789177	44	4171											
MDGA2	161357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	47613333	47613333	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatcagatccttgcagcAagacctcctggccacgtctc	8	11	7	15	1	2	2	1	0	1	2	5	2	4	2	4	1	2	2	4	1	2	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	47613333	A	T	47613333	4	4	73	1	0	0	0	0	0	1	0	0	9407	131	5	5	2393	5	MDGA2	14	47613333	Nonsense_Mutation	SNP	A	TCGA-B0-4810-01A-01D-1501-10	15052970	47613333	59736207	45	4172											
SLC5A11	115584	broad.mit.edu;ucsc.edu	37	chr16	24918068	24918068	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtatcccaaactcgtgcTggaactcctgcccacaggta	9	8	9	15	3	0	0	0	0	0	0	3	1	2	1	3	2	4	3	3	2	4	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		C	24918068	C	C	24918068	3	2	73	1	0	0	0	0	1	0	0	0	14665	1580	55	3	1135	3	SLC5A11	16	24918068	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10		24918068	65436685	46	4173											
FHOD1	29109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67264547	67264547	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatccttagcatggcaacacGgcgggcacactggtccagga	10	7	12	12	2	0	0	0	0	0	0	2	1	2	1	2	5	2	3	2	5	3	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	67264547	G	T	67264547	3	4	73	1	0	0	0	0	1	0	0	0	5882	1116	39	4	699	4	FHOD1	16	67264547	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	42346479	67264547	23090206	47	4174											
NLRP1	22861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5462474	5462474	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggcacaagacacagggcCcagagctctttgtttgattt	10	10	11	10	0	1	3	0	1	1	2	1	3	1	3	1	2	1	3	1	2	1	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	5462474	C	T	5462474	4	4	73	1	0	0	0	0	0	1	0	0	10471	624	22	2	3010	2	NLRP1	17	5462474	Nonsense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		5462474	75732736	48	4175											
SHMT1	6470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18250958	18250958	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcagtgtacacagcaaagTttgcaggggagcctgaaacg	12	6	15	8	1	0	1	0	1	0	0	0	2	0	2	1	3	5	5	1	3	3	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	18250958	T	A	18250958	3	1	73	1	0	0	0	0	1	0	0	0	14287	1725	60	5	1112	5	SHMT1	17	18250958	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10	12788484	18250958	62944252	49	4176											
SLC4A1	6521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42335974	42335974	+	Frame_Shift_Del	DEL	G	G	-																															cctcggctctgagccatgtaGgcatctatgcggaacaccta																								novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		-	42335974	G	-	42335974	7	5	73	1	0	1	0	1	0	0	0	0	14652	987	35	0	1885	0	SLC4A1	17	42335974	Frame_Shift_Del	DEL	G	TCGA-B0-4810-01A-01D-1501-10	24085016	42335974	38859236	50	4177											
OR4D2	124538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56247641	56247641	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgggctgctggatgtcGtctggttcttcctcctcctg	3	14	12	12	1	2	0	0	0	2	0	6	1	5	1	3	3	1	3	3	3	0	2	rs149114670		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	56247641	G	A	56247641	3	1	73	1	0	0	0	0	1	0	0	0	11056	1145	40	1	627	1	OR4D2	17	56247641	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	13911667	56247641	24947569	51	4178											
TCF4	6925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	52937099	52937099	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgttggcaggaggcgtacaGgaagaggtgctgtaatggtt	9	9	17	6	2	0	1	0	0	0	1	0	3	0	3	1	6	2	6	1	6	3	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	52937099	G	A	52937099	2	1	73	1	0	0	0	0	0	0	0	1	15694	987	35	2		2	TCF4	18	52937099	Silent	SNP	G	TCGA-B0-4810-01A-01D-1501-10		52937099	25140149	52	4179											
TNFSF14	8740	broad.mit.edu	37	chr19	6665221	6665221	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccacaccgcccagctgcaCcttggagtagatgtagtagt	9	8	11	13	1	0	1	0	0	0	1	0	2	0	2	4	1	2	5	4	1	3	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	6665221	A	A	6665221	3	1	73	1	0	0	0	0	1	0	0	0	16306	507	18	4	287	4	TNFSF14	19	6665221	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		6665221	52463762	53	4180											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9085732	9085732	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaggctgaggaatatggaGaggatgtgctgcttccagaa	11	9	16	5	0	0	4	0	2	0	2	1	7	1	6	1	4	2	3	1	4	3	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	9085732	G	A	9085732	3	1	73	1	0	0	0	0	1	0	0	0	9973	942	33	2	37776	2	MUC16	19	9085732	Missense_Mutation	SNP	G	TCGA-B0-4810-01A-01D-1501-10	2420511	9085732	50043251	54	4181											
OR1I1	126370	broad.mit.edu	37	chr19	15198934	15198934	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctagctgggaacagagAcatggaataaatccttccag	14	8	11	8	0	1	1	0	0	1	1	3	5	3	3	2	2	2	1	2	2	5	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	15198934	G	G	15198934	3	3	73	1	0	0	0	0	1	0	0	0	10958	275	10	3	1060	3	OR1I1	19	15198934	Missense_Mutation	SNP	A	TCGA-B0-4810-01A-01D-1501-10	6113202	15198934	43930049	55	4182											
AKAP8	10270	broad.mit.edu;ucsc.edu	37	chr19	15465831	15465831	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgggcactttctgcctcTgctgccattgtctcggcgcc	2	14	11	14	2	3	0	0	0	3	0	4	0	3	0	3	2	3	3	3	2	0	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		C	15465831	C	C	15465831	2	2	73	1	0	0	0	0	0	0	0	1	457	1567	55	3		3	AKAP8	19	15465831	Silent	SNP	T	TCGA-B0-4810-01A-01D-1501-10	266897	15465831	43663152	56	4183											
PIK3R2	5296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18278085	18278085	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcaagccggacctcatgCagctgcgcaagatccgagac	10	5	11	15	3	2	2	2	0	0	2	3	4	3	3	4	1	4	3	4	1	2	0	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	18278085	C	A	18278085	3	1	73	1	0	0	0	0	1	0	0	0	11919	711	25	4	1751	4	PIK3R2	19	18278085	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	2812254	18278085	40850898	57	4184											
RPL18	6141	broad.mit.edu;hgsc.bcm.edu	37	chr19	49121088	49121088	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatatcctggctcttgggcTccttgcgccgaacctttcgg	5	12	11	13	3	1	1	0	0	1	1	4	2	3	1	4	3	2	2	4	3	2	4	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	49121088	T	G	49121088	3	3	73	1	0	0	0	0	1	0	0	0	13566	1551	54	5	540	5	RPL18	19	49121088	Missense_Mutation	SNP	T	TCGA-B0-4810-01A-01D-1501-10	30843003	49121088	10007895	58	4185											
COMT	1312	broad.mit.edu;ucsc.edu	37	chr22	19956115	19956115	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacaacgtgatctgcccAggtgcgccagacttcctagc	8	8	11	14	2	1	3	0	2	1	1	2	3	2	3	3	1	4	1	3	1	2	2	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		G	19956115	G	G	19956115	2	3	73	1	0	0	0	0	0	0	0	1	3725	175	7	3		3	COMT	22	19956115	Silent	SNP	A	TCGA-B0-4810-01A-01D-1501-10		19956115	31348451	59	4186											
FAM9A	171482	broad.mit.edu;hgsc.bcm.edu	37	chrX	8763259	8763259	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcctcctcttctttctcctCctcctcctccttctcttcct	0	20	0	21	0	4	0	0	0	4	0	13	0	11	0	8	0	0	0	8	0	0	5	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	8763259	C	T	8763259	3	4	73	1	0	0	0	0	1	0	0	0	5659	864	30	2	319	2	FAM9A	23	8763259	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10		8763259	146507301	60	4187											
BMX	660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	15540571	15540571	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaaaaactatggctccCagccaccatcttcaagtacc	15	7	5	14	0	2	1	1	0	1	1	3	1	3	1	4	1	3	2	4	1	6	3	novel		TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		A	15540571	C	A	15540571	3	1	73	1	0	0	0	0	1	0	0	0	1473	595	21	4	635	4	BMX	23	15540571	Missense_Mutation	SNP	C	TCGA-B0-4810-01A-01D-1501-10	6777312	15540571	139729989	61	4188											
RPGR	6103	hgsc.bcm.edu	37	chrX	38145180	38145180	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccttcctccccttccacCtccccttccacttccccttc	2	14	0	25	0	1	0	0	0	1	0	9	0	7	0	11	0	0	0	11	0	0	5	rs139462910	byfrequency	TCGA-B0-4810-01A-01D-1501-10	TCGA-B0-4810-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e014eeeb-c48e-42bb-a683-93299087a3cf	0ca418e3-1de1-40b8-bd40-cb8f47bc0658		T	38145180	C	T	38145180	2	4	73	1	0	0	0	0	0	0	0	1	13550	680	24	2		2	RPGR	23	38145180	Silent	SNP	C	TCGA-B0-4810-01A-01D-1501-10	22604609	38145180	117125380	62	4189											
IPO13	9670	broad.mit.edu	37	chr1	44433044	44433044	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgccgatatcctgttcGccctgaacaagcactgcttc	7	12	8	14	2	0	1	0	1	0	0	3	2	1	1	3	0	4	4	3	0	3	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	44433044	T	T	44433044	3	4	74	1	0	0	0	0	1	0	0	0	7794	1087	38	4	2745	4	IPO13	1	44433044	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10		44433044	204817577	1	4190											
MOBKL2C	0	broad.mit.edu	37	chr1	47075867	47075867	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctggaagttcttagggAagggaactcctagagggcag	10	8	15	8	0	1	1	0	0	1	1	2	4	2	4	2	4	2	3	2	4	5	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	47075867	T	T	47075867	3	4	74	1	0	0	0	0	1	0	0	0	9686	246	9	5	230	5	MOBKL2C	1	47075867	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	2642823	47075867	202174754	2	4191											
NOTCH2	4853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120497758	120497758	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggtgatggggtccctcgggGcatatacagcggaaaccatt	9	8	15	9	2	0	1	0	1	0	0	2	2	1	2	2	6	3	1	2	6	3	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	120497758	G	A	120497758	3	1	74	1	0	0	0	0	1	0	0	0	10548	1195	42	2	5379	2	NOTCH2	1	120497758	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	73421891	120497758	128752863	3	4192											
FLG2	388698	hgsc.bcm.edu;ucsc.edu	37	chr1	152327665	152327670	+	In_Frame_Del	DEL	CCCGAA	CCCGAA	-																															gtccaaagccagatgtctgtCccgaacttgacccatgttga																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	CCCGAA	CCCGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	152327670	CCCGAA	-	152327665	7	5	74	1	0	1	0	1	0	0	0	0	5923	855	30	0	4582	0	FLG2	1	152327665	In_Frame_Del	DEL	CCCGAA	TCGA-B0-4811-01A-01D-1501-10	31829907	152327665	96922956	4	4193											
GATAD2B	57459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153782691	153782691	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggactgcgatatagaccgggGagggatcatgtctaaaaggt	12	8	15	6	2	2	1	1	0	1	1	2	5	2	4	1	5	1	0	1	5	4	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	153782691	G	A	153782691	3	1	74	1	0	0	0	0	1	0	0	0	6261	1174	41	2	41	2	GATAD2B	1	153782691	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	1455026	153782691	95467930	5	4194											
C1orf114	57821	hgsc.bcm.edu;ucsc.edu	37	chr1	169394116	169394117	+	Frame_Shift_Ins	INS	-	-	C																															caggtccttttcaaagtcatINScttcgtattcttcacttttc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	169394117	-	C	169394116	7	5	74	1	0	1	1	0	0	0	0	0	1987	1435	50	0	1496	0	C1orf114	1	169394116	Frame_Shift_Ins	INS	-	TCGA-B0-4811-01A-01D-1501-10	15611425	169394116	79856505	6	4195											
USH2A	7399	hgsc.bcm.edu;ucsc.edu	37	chr1	216595674	216595674	+	Frame_Shift_Del	DEL	T	T	-																															ccaatgaaagaactgggcaaTtcatgtttacaaaaaagcat																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	216595674	T	-	216595674	7	5	74	1	0	1	0	1	0	0	0	0	17035	1493	52	0	15901	0	USH2A	1	216595674	Frame_Shift_Del	DEL	T	TCGA-B0-4811-01A-01D-1501-10	47201558	216595674	32654947	7	4196											
ZNF496	84838	broad.mit.edu;ucsc.edu	37	chr1	247463877	247463877	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtgcaggcgctcgtggcGgaggaggtcatagttctgcg	6	9	17	9	4	2	0	1	0	1	0	3	2	2	2	0	5	2	3	0	5	1	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	247463877	C	C	247463877	3	2	74	1	0	0	0	0	1	0	0	0	17944	1116	39	4	59	4	ZNF496	1	247463877	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	30868203	247463877	1786744	8	4197											
GREB1	9687	broad.mit.edu;hgsc.bcm.edu	37	chr2	11767208	11767208	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcagtgccaccagtacaTgggcttccacccccgctacc	8	7	9	17	1	0	1	0	1	0	0	1	1	1	1	6	1	4	4	6	1	2	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	11767208	T	A	11767208	3	1	74	1	0	0	0	0	1	0	0	0	6760	1464	51	5	4629	5	GREB1	2	11767208	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10		11767208	231432165	9	4198											
ADCY3	109	broad.mit.edu;ucsc.edu	37	chr2	25050900	25050900	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtggctgacctgcaccAgcatgatggtggcgatgagg	8	8	15	10	1	0	3	0	3	0	0	0	4	0	3	3	4	2	3	3	4	0	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	25050900	T	T	25050900	3	4	74	1	0	0	0	0	1	0	0	0	295	188	7	5	1167	5	ADCY3	2	25050900	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	13283692	25050900	218148473	10	4199											
PAPOLG	64895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61021866	61021866	+	Frame_Shift_Del	DEL	T	T	-																															ttattcgacttgaatcaacaTttaaggacccccgcactgct																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	61021866	T	-	61021866	7	5	74	1	0	1	0	1	0	0	0	0	11431	1493	52	0	2089	0	PAPOLG	2	61021866	Frame_Shift_Del	DEL	T	TCGA-B0-4811-01A-01D-1501-10	35970966	61021866	182177507	11	4200											
ALMS1	7840	broad.mit.edu	37	chr2	73680749	73680749	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttagaagtcctctacaggaAgcagagagcaaagtcagtat	15	8	11	7	0	2	2	1	0	1	2	3	4	3	3	1	1	3	4	1	1	6	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	73680749	G	G	73680749	2	3	74	1	0	0	0	0	0	0	0	1	535	69	3	3		3	ALMS1	2	73680749	Silent	SNP	A	TCGA-B0-4811-01A-01D-1501-10	12658883	73680749	169518624	12	4201											
REV1	51455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	100055089	100055089	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttacaacaagtgcagacCtgcctgttttcatttttttt	9	17	6	9	0	1	1	1	0	0	1	1	1	1	1	2	0	4	3	2	0	3	7	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	100055089	C	G	100055089	3	3	74	1	0	0	0	0	1	0	0	0	13241	681	24	4	2640	4	REV1	2	100055089	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	26374340	100055089	143144284	13	4202											
CKAP2L	150468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	113509843	113509843	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcttatcttcttcacttaCcccttcgatgaggttcagac	8	14	7	12	1	4	2	2	1	2	1	5	4	4	2	2	1	2	2	2	1	2	6	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	113509843	C	A	113509843	5	1	74	1	0	0	0	0	0	0	1	0	3443	521	18	4	654	4	CKAP2L	2	113509843	Splice_Site	SNP	C	TCGA-B0-4811-01A-01D-1501-10	13454754	113509843	129689530	14	4203											
SCTR	6344	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	120204412	120204412	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaaggcgaagacgatgtAgtggatgccaaagaggggga	14	4	19	4	2	0	3	0	0	0	3	0	8	0	5	1	5	1	1	1	5	4	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	120204412	A	G	120204412	3	3	74	1	0	0	0	0	1	0	0	0	13945	420	15	3	271	3	SCTR	2	120204412	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	6694569	120204412	122994961	15	4204											
MGAT5	4249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135012082	135012082	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcactttaccatccagcaGcgaactcagcctgaaagcag	12	7	8	14	1	1	1	1	1	0	0	2	2	2	1	3	0	7	3	3	0	3	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	135012082	G	A	135012082	2	1	74	1	0	0	0	0	0	0	0	1	9548	962	34	2		2	MGAT5	2	135012082	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	14807670	135012082	108187291	16	4205											
BAZ2B	29994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160245882	160245882	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtctgctaagcacatgtcttCattaggcttctttagttcct	7	17	7	10	0	4	0	1	0	3	0	5	0	5	0	1	1	2	4	1	1	3	7	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	160245882	C	G	160245882	3	3	74	1	0	0	0	0	1	0	0	0	1332	835	29	4	3384	4	BAZ2B	2	160245882	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	25233800	160245882	82953491	17	4206											
KCNH7	90134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	163241253	163241253	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcctgaggtgggcactgtTtcttcaaaatcgagcccaga	9	11	10	11	1	2	2	1	1	1	1	4	3	3	2	2	2	1	2	2	2	2	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	163241253	T	G	163241253	3	3	74	1	0	0	0	0	1	0	0	0	8037	1838	64	5	699	5	KCNH7	2	163241253	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	2995371	163241253	79958120	18	4207											
ABCB11	8647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	169869900	169869900	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taactcaacgtcgtagtcaaTaaaaacatctgtcattgtgc	14	12	6	9	2	4	0	3	0	1	0	5	0	4	0	0	0	4	1	0	0	7	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	169869900	T	C	169869900	3	2	74	1	0	0	0	0	1	0	0	0	42	1406	49	3	3790	3	ABCB11	2	169869900	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	6628647	169869900	73329473	19	4208											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179516214	179516219	+	In_Frame_Del	DEL	CACCAG	CACCAG	-																															gcttctggctttttgggaacCaccagaggcaccttcttttc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	CACCAG	CACCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	179516219	CACCAG	-	179516214	7	5	74	1	0	1	0	1	0	0	0	0	16734	581	21	0	68382	0	TTN	2	179516214	In_Frame_Del	DEL	CACCAG	TCGA-B0-4811-01A-01D-1501-10	9646314	179516214	63683159	20	4209											
USP37	57695	broad.mit.edu;ucsc.edu	37	chr2	219353073	219353073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaattgaacgaggagggagtGgttttttcctacgaggaagg	11	10	16	4	2	0	1	0	1	0	0	1	7	1	4	1	5	2	1	1	5	4	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	219353073	T	T	219353073	3	4	74	1	0	0	0	0	1	0	0	0	17067	1348	47	4	1443	4	USP37	2	219353073	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	39836859	219353073	23846300	21	4210											
RNF25	64320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219532706	219532706	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcacctgtaagatccTggaggaagagggcaaaccaa	14	4	12	11	0	0	2	0	0	0	2	1	4	1	4	4	3	2	3	4	3	4	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	219532706	T	C	219532706	5	2	74	1	0	0	0	0	0	0	1	0	13487	1594	55	3	1117	3	RNF25	2	219532706	Splice_Site	SNP	T	TCGA-B0-4811-01A-01D-1501-10	179633	219532706	23666667	22	4211											
UGT1A7	54577	broad.mit.edu;hgsc.bcm.edu	37	chr2	234591121	234591121	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgccactatcttgaagaaGgtgcacagtgccctgctcct	8	12	9	12	0	1	2	0	1	1	1	2	2	2	2	3	1	4	2	3	1	3	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	234591121	G	A	234591121	3	1	74	1	0	0	0	0	1	0	0	0	16949	1000	35	2	540	2	UGT1A7	2	234591121	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	15058415	234591121	8608252	23	4212											
ZNF621	285268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	40574189	40574189	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatagcctccattcagcatCagagagttcacactggggag	13	8	10	10	0	3	1	3	0	0	1	4	3	4	2	2	2	2	2	2	2	2	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	40574189	C	A	40574189	3	1	74	1	0	0	0	0	1	0	0	0	18044	827	29	4	942	4	ZNF621	3	40574189	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10		40574189	157448241	24	4213											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47127749	47127749	+	Frame_Shift_Del	DEL	A	A	-																															ctgccatccagatccacaacAaagacagcccatgacgttcc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	A	-	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	47127749	A	-	47127749	7	5	74	1	0	1	0	1	0	0	0	0	14133	131	5	0	2405	0	SETD2	3	47127749	Frame_Shift_Del	DEL	A	TCGA-B0-4811-01A-01D-1501-10	6553560	47127749	150894681	25	4214											
PLXNB1	5364	broad.mit.edu	37	chr3	48461366	48461366	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtggctgagggtctgaagtCagtgggggcagggacagcgg	7	7	21	6	1	2	2	1	2	1	0	2	3	2	3	0	6	1	2	0	6	1	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	48461366	G	G	48461366	3	3	74	1	0	0	0	0	1	0	0	0	12123	826	29	4	4190	4	PLXNB1	3	48461366	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	1333617	48461366	149561064	26	4215											
WDR52	55779	broad.mit.edu	37	chr3	113128137	113128137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagttaccgctgtagttaaAgtccacataagcatatccct	13	11	6	11	1	0	0	0	0	0	0	2	0	2	0	3	0	2	5	3	0	7	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	113128137	G	G	113128137	3	3	74	1	0	0	0	0	1	0	0	0	17303	72	3	3	4989	3	WDR52	3	113128137	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	64666771	113128137	84894293	27	4216											
PIK3R4	30849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130452841	130452841	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgcagaaagaaacgttTccttggcaaactgggccatg	12	9	10	10	1	1	2	0	0	1	2	2	2	2	2	2	2	3	3	2	2	3	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	130452841	T	A	130452841	3	1	74	1	0	0	0	0	1	0	0	0	11921	1783	62	5	3143	5	PIK3R4	3	130452841	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	17324704	130452841	67569589	28	4217											
TBC1D1	23216	broad.mit.edu;ucsc.edu	37	chr4	38023333	38023333	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacaagctctgtgagaggAtagagggtgagtaggggacc	11	7	17	6	0	1	3	0	2	1	2	1	6	1	5	1	4	2	3	1	4	3	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	38023333	T	T	38023333	3	4	74	1	0	0	0	0	1	0	0	0	15596	333	12	5	1222	5	TBC1D1	4	38023333	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10		38023333	153130943	29	4218											
TECRL	253017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	65147225	65147225	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggacatgaaaccaggaaAaacatccatgtgaaggggtt	16	8	11	6	0	0	2	0	2	0	0	1	4	1	4	2	4	2	1	2	4	5	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	65147225	A	G	65147225	2	3	74	1	0	0	0	0	0	0	0	1	15745	11	1	3		3	TECRL	4	65147225	Silent	SNP	A	TCGA-B0-4811-01A-01D-1501-10	27123892	65147225	126007051	30	4219											
NUDT12	83594	hgsc.bcm.edu;ucsc.edu	37	chr5	102894735	102894736	+	In_Frame_Ins	INS	-	-	CAG																															ctcctctctcgggacttcacINScagcataattaagtagtttg																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		CAG	102894736	-	CAG	102894735	7	5	74	1	0	1	1	0	0	0	0	0	10728	507	18	0	767	0	NUDT12	5	102894735	In_Frame_Ins	INS	-	TCGA-B0-4811-01A-01D-1501-10		102894735	78020525	31	4220											
PCDHB6	56130	hgsc.bcm.edu;ucsc.edu	37	chr5	140529900	140529900	+	Frame_Shift_Del	DEL	T	T	-																															tttcttcattttattgatgcTttggggagaggtgggttctg																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	140529900	T	-	140529900	7	5	74	1	0	1	0	1	0	0	0	0	11546	1609	56	0	64	0	PCDHB6	5	140529900	Frame_Shift_Del	DEL	T	TCGA-B0-4811-01A-01D-1501-10	37635165	140529900	40385360	32	4221											
TREML1	340205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41117371	41117371	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagtctgattgttaggtgGattctgggctggcccacacg	6	12	15	8	1	2	1	0	1	2	0	2	3	2	3	1	5	0	2	1	5	1	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	41117371	G	T	41117371	3	4	74	1	0	0	0	0	1	0	0	0	16471	1174	41	4	30	4	TREML1	6	41117371	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10		41117371	129997696	33	4222											
SLC35B2	347734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44224429	44224429	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttcacacaccggtctcCaggtagttcttccgcctgaa	7	13	7	14	2	4	1	1	1	3	0	6	1	5	1	4	2	0	2	4	2	2	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	44224429	C	T	44224429	2	4	74	1	0	0	0	0	0	0	0	1	14578	581	21	2		2	SLC35B2	6	44224429	Silent	SNP	C	TCGA-B0-4811-01A-01D-1501-10	3107058	44224429	126890638	34	4223											
COL12A1	1303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	75864169	75864169	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ataacagttgtgtcggaaagGgttgtcatttcttgtccaac	10	14	10	7	1	2	0	1	0	1	0	4	1	3	1	1	2	2	2	1	2	3	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	75864169	G	C	75864169	2	2	74	1	0	0	0	0	0	0	0	1	3669	1219	43	4		4	COL12A1	6	75864169	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	31639740	75864169	95250898	35	4224											
CTAGE9	643854	hgsc.bcm.edu	37	chr6	132032041	132032041	+	Frame_Shift_Del	DEL	A	A	-																															cataccaccagttccgatggAaaaccataaggattctcatc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	132032041	A	-	132032041	7	5	74	1	0	1	0	1	0	0	0	0	3996	243	9	0	2220	0	CTAGE9	6	132032041	Frame_Shift_Del	DEL	A	TCGA-B0-4811-01A-01D-1501-10	56167872	132032041	39083026	36	4225											
RAET1E	135250	broad.mit.edu	37	chr6	150211277	150211277	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgaagcaaagagagtgAccacctgtgagacaaagatg	17	6	12	6	0	0	5	0	3	0	3	0	7	0	5	2	0	1	2	2	0	4	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	150211277	G	G	150211277	2	3	74	1	0	0	0	0	0	0	0	1	13001	262	10	3		3	RAET1E	6	150211277	Silent	SNP	A	TCGA-B0-4811-01A-01D-1501-10	18179236	150211277	20903790	37	4226											
C6orf118	168090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	165715542	165715542	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcccacctcagaggcgCgctcccccttgggccggtgg	3	7	13	18	3	2	1	1	0	1	1	4	1	3	1	5	4	0	2	5	4	0	1	rs143539145		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	165715542	C	T	165715542	3	4	74	1	0	0	0	0	1	0	0	0	2323	768	27	1	1172	1	C6orf118	6	165715542	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	15504265	165715542	5399525	38	4227											
CALD1	800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134618404	134618404	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagatgaacgagcaagaaTtgaagcagaagaaaaagcag	21	3	12	5	1	0	6	0	2	0	4	0	7	0	6	0	0	5	4	0	0	7	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	134618404	T	G	134618404	3	3	74	1	0	0	0	0	1	0	0	0	2581	1493	52	5	951	5	CALD1	7	134618404	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10		134618404	24520259	39	4228											
CLCN1	1180	hgsc.bcm.edu;ucsc.edu	37	chr7	143048913	143048913	+	Frame_Shift_Del	DEL	C	C	-																															ttccccagagccccctctctCcctggccccaggcaaggtag																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	143048913	C	-	143048913	7	5	74	1	0	1	0	1	0	0	0	0	3462	855	30	0	2912	0	CLCN1	7	143048913	Frame_Shift_Del	DEL	C	TCGA-B0-4811-01A-01D-1501-10	8430509	143048913	16089750	40	4229											
PABPC1	26986	broad.mit.edu;hgsc.bcm.edu	37	chr8	101725345	101725345	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcatgcctttcaaagctTacaaatccaaatcctttgga	12	14	4	11	0	3	0	2	0	1	0	5	1	5	1	3	1	3	1	3	1	4	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	101725345	T	G	101725345	2	3	74	1	0	0	0	0	0	0	0	1	11363	1741	61	5		5	PABPC1	8	101725345	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10		101725345	44638677	41	4230			1	6		2	2	22	T		7.868742e-05
PABPC1	26986	broad.mit.edu;hgsc.bcm.edu	37	chr8	101725366	101725366	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaatccaaatcctttggaTtttccactttcatcagtcat	12	15	3	11	0	3	0	3	0	0	0	6	1	6	1	3	1	0	0	3	1	2	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	101725366	T	A	101725366	3	1	74	1	0	0	0	0	1	0	0	0	11363	1490	52	5	1263	5	PABPC1	8	101725366	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	21	101725366	44638656	42	4231			1	6		2	2	22	T		7.868742e-05
TM7SF4	0	broad.mit.edu;ucsc.edu	37	chr8	105361373	105361373	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagtcctgagcgtcttgtAccagatggcaacaaccacag	12	7	11	11	1	1	2	0	1	1	1	2	3	2	3	3	2	4	2	3	2	4	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	105361373	G	G	105361373	3	3	74	1	0	0	0	0	1	0	0	0	15975	391	14	3	595	3	TM7SF4	8	105361373	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	3636007	105361373	41002649	43	4232											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113349913	113349913	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatcattaccaattacaaAaccatttcgaaacgggcgtg	17	9	6	9	3	1	0	1	0	0	0	2	1	1	0	2	1	4	0	2	1	8	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	113349913	A	C	113349913	3	2	74	1	0	0	0	0	1	0	0	0	3946	14	1	5	4539	5	CSMD3	8	113349913	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	7988540	113349913	33014109	44	4233											
ASAP1	50807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	131136342	131136342	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaactattgtttcctacattCttggccagctgtaacagaaa	13	13	6	9	0	1	1	0	0	1	1	2	1	2	1	2	1	4	3	2	1	5	7	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	131136342	C	G	131136342	3	3	74	1	0	0	0	0	1	0	0	0	1010	912	32	4	1917	4	ASAP1	8	131136342	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	17786429	131136342	15227680	45	4234											
TG	7038	broad.mit.edu;ucsc.edu	37	chr8	134030154	134030154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggaccagttccttggagttCcatatgctgccccgcccctg	5	11	10	15	1	0	0	0	0	0	0	2	2	2	2	7	2	2	3	7	2	1	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	134030154	T	T	134030154	3	4	74	1	0	0	0	0	1	0	0	0	15812	855	30	2	6844	2	TG	8	134030154	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	2893812	134030154	12333868	46	4235											
EEF1D	1936	broad.mit.edu;hgsc.bcm.edu	37	chr8	144668953	144668953	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcgtagaatctcctttcTgcgtcgtcatatttgaactt	7	17	7	10	3	3	2	1	1	2	1	6	2	3	2	1	0	3	2	1	0	4	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	144668953	T	A	144668953	2	1	74	1	0	0	0	0	0	0	0	1	4926	1567	55	5		5	EEF1D	8	144668953	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	10638799	144668953	1695069	47	4236											
PARP10	84875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145059205	145059205	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggttcctggccagagcctGttgtcataatccctctaccc	6	12	8	15	0	2	1	1	0	1	1	4	1	4	1	5	2	2	2	5	2	2	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	145059205	G	A	145059205	3	1	74	1	0	0	0	0	1	0	0	0	11455	1377	48	2	2140	2	PARP10	8	145059205	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	390252	145059205	1304817	48	4237											
TJP2	9414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	71855060	71855060	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacgtgtgcacacctttttAcaggtaagtgaaatgtaaat	15	12	8	6	1	0	1	0	1	0	0	0	1	0	1	1	1	3	3	1	1	6	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	71855060	A	G	71855060	3	3	74	1	0	0	0	0	1	0	0	0	15929	391	14	3	2786	3	TJP2	9	71855060	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10		71855060	69358371	49	4238											
GRIN3A	116443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104499650	104499650	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcgagctccatcatttcGccctggctctgggggaaggc	7	9	13	12	2	2	0	1	0	1	0	5	2	3	1	2	4	1	2	2	4	2	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	104499650	G	T	104499650	2	4	74	1	0	0	0	0	0	0	0	1	6783	1074	38	4		4	GRIN3A	9	104499650	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	32644590	104499650	36713781	50	4239											
SLC44A1	23446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	108147762	108147762	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaagggaggcgtcgctgaTtccagagagctaaagccgat	11	7	15	8	3	0	2	0	1	0	1	2	5	1	3	2	3	2	3	2	3	3	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	108147762	T	A	108147762	3	1	74	1	0	0	0	0	1	0	0	0	14637	1490	52	5	1987	5	SLC44A1	9	108147762	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	3648112	108147762	33065669	51	4240											
PKN3	29941	broad.mit.edu;ucsc.edu	37	chr9	131480826	131480826	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctgcacccttgccctcAgggacctgaagttggataac	9	10	10	12	0	2	2	1	2	1	0	2	4	2	4	3	2	3	2	3	2	2	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	131480826	C	C	131480826	5	2	74	1	0	0	0	0	0	0	1	0	11981	202	7	5	2117	5	PKN3	9	131480826	Splice_Site	SNP	A	TCGA-B0-4811-01A-01D-1501-10	23333064	131480826	9732605	52	4241											
ADAMTSL2	9719	broad.mit.edu;ucsc.edu	37	chr9	136412244	136412244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaacatcgcaggcacggTggtcaagtacaggcggccca	10	6	12	13	3	2	0	2	0	0	0	3	0	2	0	1	5	2	3	1	5	3	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	136412244	C	C	136412244	3	2	74	1	0	0	0	0	1	0	0	0	275	1696	59	3	878	3	ADAMTSL2	9	136412244	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	4931418	136412244	4801187	53	4242											
IDI1	3422	hgsc.bcm.edu;ucsc.edu	37	chr10	1088643	1088643	+	Frame_Shift_Del	DEL	T	T	-																															cctcactccaagggcgtcacTttcctcaagctcggctggat																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	1088643	T	-	1088643	7	5	74	1	0	1	0	1	0	0	0	0	7499	1609	56	0	396	0	IDI1	10	1088643	Frame_Shift_Del	DEL	T	TCGA-B0-4811-01A-01D-1501-10		1088643	134446104	54	4243											
ITGB1	3688	broad.mit.edu;hgsc.bcm.edu	37	chr10	33199330	33199330	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaataggaacattcctgtGtgcatgtgtctttcttttct	9	18	7	7	0	3	0	0	0	3	0	4	1	4	1	1	1	2	1	1	1	4	6	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	33199330	G	A	33199330	3	1	74	1	0	0	0	0	1	0	0	0	7890	1377	48	2	661	2	ITGB1	10	33199330	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	32110687	33199330	102335417	55	4244											
INSC	387755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	15267524	15267524	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actctgactttcagcagttgGtccagcctcggctggtggac	6	11	12	12	1	2	1	1	1	1	0	4	2	3	2	2	4	2	3	2	4	0	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	15267524	G	A	15267524	3	1	74	1	0	0	0	0	1	0	0	0	7764	1261	44	2	1728	2	INSC	11	15267524	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10		15267524	119738992	56	4245											
NAV2	89797	broad.mit.edu;ucsc.edu	37	chr11	20078104	20078104	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaaagttctgtggacaaCtttgtcagccgtcttcacag	11	11	10	9	1	4	1	2	0	2	1	4	3	4	2	1	1	2	1	1	1	3	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	20078104	T	T	20078104	2	4	74	1	0	0	0	0	0	0	0	1	10184	580	20	2		2	NAV2	11	20078104	Silent	SNP	C	TCGA-B0-4811-01A-01D-1501-10	4810580	20078104	114928412	57	4246											
MUC15	143662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	26582750	26582750	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcacatcataaggttcCggtgcattgtctaatcgcag	12	11	8	10	2	3	0	2	0	1	0	5	0	4	0	1	2	2	3	1	2	3	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	26582750	C	T	26582750	2	4	74	1	0	0	0	0	0	0	0	1	9972	639	23	1		1	MUC15	11	26582750	Silent	SNP	C	TCGA-B0-4811-01A-01D-1501-10	6504646	26582750	108423766	58	4247											
DGKZ	8525	broad.mit.edu	37	chr11	46388175	46388175	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgaggaggagggtgtccaGgaggatgtggtagccgaggc	10	6	20	5	1	0	1	0	1	0	0	1	6	1	5	2	7	1	1	2	7	2	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	46388175	A	A	46388175	2	1	74	1	0	0	0	0	0	0	0	1	4474	991	35	2		2	DGKZ	11	46388175	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	19805425	46388175	88618341	59	4248											
DPF2	5977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65113420	65113420	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaaaagggtcctgatggAttggccttgcccaacaacta	12	8	10	11	0	0	1	0	1	0	0	1	2	1	2	4	3	3	0	4	3	5	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	65113420	A	C	65113420	2	2	74	1	0	0	0	0	0	0	0	1	4717	320	12	5		5	DPF2	11	65113420	Silent	SNP	A	TCGA-B0-4811-01A-01D-1501-10	18725245	65113420	69893096	60	4249											
GPR83	10888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94113463	94113463	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaaggaaggaactggggagGgtggcctgtcctcctgaggc	8	7	18	8	0	0	2	0	2	0	0	2	5	2	5	3	7	1	0	3	7	3	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	94113463	G	A	94113463	3	1	74	1	0	0	0	0	1	0	0	0	6713	1232	43	2	151	2	GPR83	11	94113463	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	29000043	94113463	40893053	61	4250											
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103057148	103057148	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agactcctgacatgcaacgaGgtctagattatttcaaacca	14	10	7	10	1	2	3	1	1	1	2	3	4	3	3	2	1	3	1	2	1	4	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	103057148	G	C	103057148	3	2	74	1	0	0	0	0	1	0	0	0	4846	1000	35	4	6977	4	DYNC2H1	11	103057148	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	8943685	103057148	31949368	62	4251											
SLC2A14	144195	broad.mit.edu;hgsc.bcm.edu	37	chr12	7967042	7967042	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcctcaaaagtcctgccaCgggtctcagggactttgaag	10	10	10	11	1	2	1	2	1	1	0	5	2	4	2	3	2	1	0	3	2	4	2	rs140568143	byfrequency	TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	7967042	C	T	7967042	3	4	74	1	0	0	0	0	1	0	0	0	14545	536	19	1	133	1	SLC2A14	12	7967042	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10		7967042	125884853	63	4252											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49436557	49436557	+	Missense_Mutation	SNP	T	T	C																															cctctgcagtggcgtacggcTgccttctaggccaggggttc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	49436557	T	C	49436557	3	2	74	1	0	0	0	0	1	0	0	0	9621	1580	55	3	10980	3	MLL2	12	49436557	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	41469515	49436557	84415338	64	4253	50	2									
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49436558	49436558	+	Silent	SNP	G	G	C																															ctctgcagtggcgtacggctGccttctaggccaggggttcc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	49436558	G	C	49436558	2	2	74	1	0	0	0	0	0	0	0	1	9621	1306	46	4		4	MLL2	12	49436558	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	1	49436558	84415337	65	4254	50	2									
LMBR1L	55716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49495927	49495927	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaccagcaagcacagcatAgccagggggtagcccaggtt	12	4	13	12	0	0	0	0	0	0	0	0	0	0	0	3	3	6	6	3	3	3	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	49495927	A	G	49495927	2	3	74	1	0	0	0	0	0	0	0	1	8841	407	15	3		3	LMBR1L	12	49495927	Silent	SNP	A	TCGA-B0-4811-01A-01D-1501-10	59369	49495927	84355968	66	4255											
NR4A1	3164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52448382	52448382	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcctcctccacatcctcGtcctcagccacctcccctgc	4	9	5	23	2	1	0	1	0	0	0	8	0	6	0	9	1	2	0	9	1	0	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	52448382	G	A	52448382	2	1	74	1	0	0	0	0	0	0	0	1	10632	1132	40	1		1	NR4A1	12	52448382	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	2952455	52448382	81403513	67	4256											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53685805	53685805	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaaagcatgcccagccTccaagcactgcctgtcaccc	9	6	10	16	0	1	0	1	0	0	0	2	1	2	1	5	1	5	2	5	1	2	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	53685805	T	C	53685805	3	2	74	1	0	0	0	0	1	0	0	0	5253	1551	54	3	5831	3	ESPL1	12	53685805	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	1237423	53685805	80166090	68	4257											
NR2C1	7181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	95422176	95422176	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatacctggactgaagagTactattgccttcaggtaggc	11	12	10	8	0	1	2	1	1	0	1	1	3	1	3	2	3	3	2	2	3	7	8	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	95422176	T	C	95422176	2	2	74	1	0	0	0	0	0	0	0	1	10622	1625	57	3		3	NR2C1	12	95422176	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	41736371	95422176	38429719	69	4258											
PSMA6	5687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	35777199	35777199	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaaactgttctgttttccaGaatatgcttttaaggctatt	12	17	6	6	0	1	1	0	0	1	1	2	1	2	1	1	1	2	4	1	1	6	8	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	35777199	G	C	35777199	5	2	74	1	0	0	0	0	0	0	1	0	12673	956	33	4	82	4	PSMA6	14	35777199	Splice_Site	SNP	G	TCGA-B0-4811-01A-01D-1501-10		35777199	71572341	70	4259											
NEK9	91754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75553771	75553771	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcagttgggtaaaaaTctggaggttttcttgctgta	8	16	11	6	0	3	0	0	0	3	0	3	1	3	1	0	3	2	6	0	3	4	7	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	75553771	T	C	75553771	3	2	74	1	0	0	0	0	1	0	0	0	10331	1435	50	3	180	3	NEK9	14	75553771	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	39776572	75553771	31795769	71	4260											
SEMA6D	80031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48063502	48063502	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgctggatcccatgggatcGatgtctgaggtcccacctaa	9	10	11	11	1	1	1	0	1	1	0	4	4	3	3	3	3	1	1	3	3	1	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	48063502	G	A	48063502	2	1	74	1	0	0	0	0	0	0	0	1	14044	1045	37	1		1	SEMA6D	15	48063502	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10		48063502	54467890	72	4261											
VPS13C	54832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	62254726	62254726	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggaaaacttcatttcccatTattgacacagcctgaaaaac	15	10	5	11	1	1	2	1	2	0	0	2	3	2	3	2	1	3	0	2	1	5	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	62254726	T	C	62254726	3	2	74	1	0	0	0	0	1	0	0	0	17190	1744	61	3	8050	3	VPS13C	15	62254726	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	14191224	62254726	40276666	73	4262											
ALPK3	57538	hgsc.bcm.edu;ucsc.edu	37	chr15	85407697	85407697	+	Frame_Shift_Del	DEL	C	C	-																															atcccactgtatctgatctaCcggcctgcaaacaatatccc																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	85407697	C	-	85407697	7	5	74	1	0	1	0	1	0	0	0	0	546	518	18	0	5176	0	ALPK3	15	85407697	Frame_Shift_Del	DEL	C	TCGA-B0-4811-01A-01D-1501-10	23152971	85407697	17123695	74	4263											
OR4F6	390648	hgsc.bcm.edu;ucsc.edu	37	chr15	102346601	102346601	+	Frame_Shift_Del	DEL	A	A	-																															ttattttggtgactgttcagAaaaaatcttcaggtggtata																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	102346601	A	-	102346601	7	5	74	1	0	1	0	1	0	0	0	0	11066	247	9	0	681	0	OR4F6	15	102346601	Frame_Shift_Del	DEL	A	TCGA-B0-4811-01A-01D-1501-10	16938904	102346601	184791	75	4264											
HN1L	90861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1735538	1735538	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggatggcatctaatatttTtggaccaacagaagaacctc	14	11	8	8	0	1	2	0	0	1	2	2	4	1	4	2	3	2	1	2	3	6	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	1735538	T	G	1735538	3	3	74	1	0	0	0	0	1	0	0	0	7250	1841	64	5	149	5	HN1L	16	1735538	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10		1735538	88619215	76	4265											
FAM18A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10864178	10864178	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccaggcttctgaaagtcaCctgggcaggcctgcaagggg	8	6	16	11	0	2	1	1	1	1	0	2	1	2	1	3	6	1	3	3	6	2	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	10864178	C	A	10864178	3	1	74	1	0	0	0	0	1	0	0	0	5518	507	18	4	52	4	FAM18A	16	10864178	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	9128640	10864178	79490575	77	4266											
QPRT	23475	broad.mit.edu;ucsc.edu	37	chr16	29706503	29706503	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggataaccatgtggtggccGccggtggcgtggagaaggtg	8	7	19	7	3	0	1	0	0	0	1	0	3	0	2	3	7	1	0	3	7	2	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	29706503	C	C	29706503	3	2	74	1	0	0	0	0	1	0	0	0	12878	1087	38	4	538	4	QPRT	16	29706503	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	18842325	29706503	60648250	78	4267											
SEPHS2	22928	broad.mit.edu;ucsc.edu	37	chr16	30456187	30456187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgaacatggcttcctgatAggccagctccacctcttctc	8	12	7	14	0	2	2	0	2	2	0	5	2	4	2	4	2	2	2	4	2	2	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	30456187	G	G	30456187	3	3	74	1	0	0	0	0	1	0	0	0	14057	420	15	3	488	3	SEPHS2	16	30456187	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	749684	30456187	59898566	79	4268											
PRR14	78994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30667486	30667486	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgaagaccgtcccgtgggGtccgggctgcagggggcagg	6	4	19	12	4	0	1	0	0	0	1	2	2	2	1	3	6	1	3	3	6	1	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	30667486	G	A	30667486	3	1	74	1	0	0	0	0	1	0	0	0	12588	1261	44	2	1654	2	PRR14	16	30667486	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	211299	30667486	59687267	80	4269											
IRX6	79190	broad.mit.edu	37	chr16	55362619	55362619	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttcctgcagaagttacTgctagccaggaggcccgggg	8	9	14	10	1	0	2	0	1	0	1	1	3	1	3	3	4	4	3	3	4	3	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	55362619	C	C	55362619	2	2	74	1	0	0	0	0	0	0	0	1	7848	1567	55	3		3	IRX6	16	55362619	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	24695133	55362619	34992134	81	4270											
CDH8	1006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	61854956	61854956	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatatcctgatcattggcCttcacccttcctattgcagt	8	14	5	14	0	2	1	2	1	0	0	4	1	4	1	5	1	1	1	5	1	3	6	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	61854956	C	G	61854956	3	3	74	1	0	0	0	0	1	0	0	0	3116	680	24	4	1530	4	CDH8	16	61854956	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	6492337	61854956	28499797	82	4271											
ESRP2	80004	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68264909	68264909	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggggtggcttggaaggtgGtgtaggtaggtggtgagagg	6	11	23	1	0	0	1	0	1	0	1	0	3	0	2	0	10	0	3	0	10	3	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	68264909	G	C	68264909	3	2	74	1	0	0	0	0	1	0	0	0	5259	1261	44	4	432	4	ESRP2	16	68264909	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	6409953	68264909	22089844	83	4272											
FTSJD1	55783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71318090	71318090	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcccaccagcaggcacttTatttgattgctgggtactac	10	11	9	11	0	0	1	0	1	0	0	0	1	0	1	2	2	5	4	2	2	4	6	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	71318090	T	A	71318090	2	1	74	1	0	0	0	0	0	0	0	1	6090	1744	61	5		5	FTSJD1	16	71318090	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	3053181	71318090	19036663	84	4273											
PRPF8	10594	broad.mit.edu;ucsc.edu	37	chr17	1564002	1564002	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacactcacattggctcgaTtaatggtcggggaccaccag	10	9	10	12	2	2	0	2	0	0	0	4	2	2	1	2	4	0	1	2	4	1	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	1564002	A	A	1564002	3	1	74	1	0	0	0	0	1	0	0	0	12577	1493	52	5	2439	5	PRPF8	17	1564002	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10		1564002	79631208	85	4274											
VMO1	284013	broad.mit.edu	37	chr17	4689557	4689557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgatgaccgccgtgtagcCgttccggccatctgtctgtg	4	12	12	13	5	2	1	0	1	2	0	4	2	3	1	5	1	1	2	5	1	1	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	4689557	T	T	4689557	3	4	74	1	0	0	0	0	1	0	0	0	17176	652	23	1	563	1	VMO1	17	4689557	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	3125555	4689557	76505653	86	4275											
CAMTA2	23125	broad.mit.edu;ucsc.edu	37	chr17	4877038	4877038	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagaccactacccgtgcTtcgaacccaggcccctggcc	9	5	8	19	2	0	1	0	0	0	1	1	2	0	1	7	2	3	1	7	2	3	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	4877038	C	C	4877038	2	2	74	1	0	0	0	0	0	0	0	1	2614	1606	56	3		3	CAMTA2	17	4877038	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	187481	4877038	76318172	87	4276											
ZNF232	7775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5009701	5009701	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaaatgtagaggtgtcAgtagcaagtttttctgagaa	12	13	11	5	0	3	2	2	1	1	2	3	3	3	2	0	1	1	5	0	1	5	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	5009701	A	G	5009701	2	3	74	1	0	0	0	0	0	0	0	1	17784	175	7	3		3	ZNF232	17	5009701	Silent	SNP	A	TCGA-B0-4811-01A-01D-1501-10	132663	5009701	76185509	88	4277											
MYH1	4619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10404734	10404734	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgatctcctccagctcccggGagagatcagagcgctgcttc	7	9	11	14	2	2	3	1	1	1	2	6	5	4	4	3	1	3	3	3	1	0	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	10404734	G	A	10404734	3	1	74	1	0	0	0	0	1	0	0	0	10029	1174	41	2	2444	2	MYH1	17	10404734	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	5395033	10404734	70790476	89	4278											
SLC5A10	125206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18863863	18863863	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccatgtgccttcccagatCgtcaccttacctgagtacat	9	11	6	15	1	1	2	1	1	0	1	3	2	2	2	5	0	3	1	5	0	2	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	18863863	C	T	18863863	2	4	74	1	0	0	0	0	0	0	0	1	14664	874	31	1		1	SLC5A10	17	18863863	Silent	SNP	C	TCGA-B0-4811-01A-01D-1501-10	8459129	18863863	62331347	90	4279											
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27438508	27438508	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcttggtgtagttcagcCagccagtcacattgtactct	7	14	9	11	0	4	0	2	0	2	0	4	0	4	0	2	1	4	4	2	1	2	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	27438508	C	A	27438508	3	1	74	1	0	0	0	0	1	0	0	0	10065	595	21	4	3434	4	MYO18A	17	27438508	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	8574645	27438508	53756702	91	4280			2	7		2	2	13	N	T_C	4.4965e-05
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27438520	27438520	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcagccagccagtcacaTtgtactctacccagttggtg	9	11	9	12	0	3	0	2	0	1	0	3	0	3	0	3	1	4	3	3	1	2	5	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	27438520	T	G	27438520	3	3	74	1	0	0	0	0	1	0	0	0	10065	1493	52	5	3446	5	MYO18A	17	27438520	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	12	27438520	53756690	92	4281			2	7		2	2	13	N	T_C	4.4965e-05
TAF15	8148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34147197	34147197	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctatgggcaaacgactgaTtcctcttatggacagaacta	12	10	10	9	1	1	2	0	1	1	1	2	4	2	3	1	3	2	2	1	3	5	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	34147197	T	C	34147197	2	2	74	1	0	0	0	0	0	0	0	1	15517	1490	52	3		3	TAF15	17	34147197	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	6708677	34147197	47048013	93	4282											
COASY	80347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40715165	40715165	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccttaccctccacgatcagGccagcttcccccgtggccgg	5	7	9	20	3	1	0	1	0	0	0	3	1	3	0	7	3	2	1	7	3	1	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	40715165	G	A	40715165	2	1	74	1	0	0	0	0	0	0	0	1	3652	1194	42	2		2	COASY	17	40715165	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	6567968	40715165	40480045	94	4283											
TMUB2	79089	broad.mit.edu	37	chr17	42266658	42266658	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccaactgaactcccccatCcatcagagggtaatgatgag	13	7	9	12	0	1	4	1	3	0	1	3	4	3	4	4	1	3	1	4	1	3	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	42266658	A	A	42266658	3	1	74	1	0	0	0	0	1	0	0	0	16264	855	30	4	310	4	TMUB2	17	42266658	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	1551493	42266658	38928552	95	4284											
CLTC	1213	broad.mit.edu;ucsc.edu	37	chr17	57746161	57746161	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttattttctgggatccAttgttaactttagccaggac	8	18	7	8	0	2	0	0	0	2	0	3	2	3	2	2	2	2	1	2	2	3	8	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	57746161	T	T	57746161	3	4	74	1	0	0	0	0	1	0	0	0	3566	217	8	5	2206	5	CLTC	17	57746161	Missense_Mutation	SNP	A	TCGA-B0-4811-01A-01D-1501-10	15479503	57746161	23449049	96	4285											
RAC3	5881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79990881	79990881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccttcgagaatgttcgtgCcaaggtagggcaaggctggg	8	9	15	9	2	0	1	0	0	0	1	3	2	1	1	2	4	1	4	2	4	4	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	79990881	C	T	79990881	3	4	74	1	0	0	0	0	1	0	0	0	12978	739	26	2	298	2	RAC3	17	79990881	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	22244720	79990881	1204329	97	4286											
EPB41L3	23136	broad.mit.edu;hgsc.bcm.edu	37	chr18	5396318	5396318	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaactgatggtttccgtcTtcaccgttgaggactgtgcc	8	12	10	11	2	2	2	1	2	1	0	3	3	3	3	3	2	2	2	3	2	2	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	5396318	T	A	5396318	3	1	74	1	0	0	0	0	1	0	0	0	5154	1609	56	5	424	5	EPB41L3	18	5396318	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10		5396318	72680930	98	4287											
FAM59A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29847906	29847906	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgctcaatttgaaatcCtctgagaggatttcttccgt	10	16	7	8	1	3	2	1	2	2	1	5	4	5	3	2	1	1	1	2	1	3	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	29847906	C	A	29847906	3	1	74	1	0	0	0	0	1	0	0	0	5592	680	24	4	75	4	FAM59A	18	29847906	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	24451588	29847906	48229342	99	4288											
SERPINB8	5271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61654390	61654390	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgccgcagccactgctgtgGtcaggaattcccggtgcagc	6	8	13	14	2	1	0	1	0	0	0	2	1	2	1	3	3	5	3	3	3	1	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	61654390	G	A	61654390	3	1	74	1	0	0	0	0	1	0	0	0	14109	1261	44	2	1038	2	SERPINB8	18	61654390	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	31806484	61654390	16422858	100	4289											
MUC16	94025	hgsc.bcm.edu	37	chr19	9048364	9048369	+	In_Frame_Del	DEL	AGTTGG	AGTTGG	-																															cctgataccccaggtgaaacAgttggagttggaacagctga																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	AGTTGG	AGTTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	9048369	AGTTGG	-	9048364	7	5	74	1	0	1	0	1	0	0	0	0	9973	175	7	0	10576	0	MUC16	19	9048364	In_Frame_Del	DEL	AGTTGG	TCGA-B0-4811-01A-01D-1501-10		9048364	50080619	101	4290											
ZNF799	90576	broad.mit.edu;hgsc.bcm.edu	37	chr19	12501322	12501322	+	Frame_Shift_Del	DEL	A	A	-																															tgcaaggaactgagagaagcAaatgctttcccacattcctt																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	12501322	A	-	12501322	7	5	74	1	0	1	0	1	0	0	0	0	18165	127	5	0	45	0	ZNF799	19	12501322	Frame_Shift_Del	DEL	A	TCGA-B0-4811-01A-01D-1501-10	3452958	12501322	46627661	102	4291											
SLC27A1	376497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17611618	17611618	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaacgtctccaccaccgaGgtggagggcgtgctgagccg	8	5	16	12	4	1	2	0	1	1	1	2	5	1	3	4	3	3	1	4	3	1	0	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	17611618	G	T	17611618	3	4	74	1	0	0	0	0	1	0	0	0	14527	991	35	4	1607	4	SLC27A1	19	17611618	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	5110296	17611618	41517365	103	4292											
PDE4C	5143	broad.mit.edu	37	chr19	18322678	18322678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggccatgatgcggtccGtccactggcggtacaggggc	6	7	15	13	4	0	1	0	1	0	0	3	1	2	1	3	6	2	1	3	6	1	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	18322678	A	A	18322678	3	1	74	1	0	0	0	0	1	0	0	0	11641	1145	40	1	464	1	PDE4C	19	18322678	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	711060	18322678	40806305	104	4293											
ZNF345	25850	hgsc.bcm.edu	37	chr19	37368165	37368166	+	Frame_Shift_Ins	INS	-	-	T																															aattcatactggtgagaaacINScctatgagtgtaaggaatgt																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	37368166	-	T	37368165	7	5	74	1	0	1	1	0	0	0	0	0	17858	507	18	0	435	0	ZNF345	19	37368165	Frame_Shift_Ins	INS	-	TCGA-B0-4811-01A-01D-1501-10	19045487	37368165	21760818	105	4294	51	2									
ZNF345	25850	hgsc.bcm.edu	37	chr19	37368169	37368169	+	Frame_Shift_Del	DEL	A	A	-																															tcatactggtgagaaaccctAtgagtgtaaggaatgtggga																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		-	37368169	A	-	37368169	7	5	74	1	0	1	0	1	0	0	0	0	17858	449	16	0	439	0	ZNF345	19	37368169	Frame_Shift_Del	DEL	A	TCGA-B0-4811-01A-01D-1501-10	4	37368169	21760814	106	4295	51	2									
LENG9	94059	broad.mit.edu;ucsc.edu	37	chr19	54973869	54973869	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgggcccttttgtcctcggGccaggccgcaggaccccact	4	7	13	17	3	0	0	0	0	0	0	2	1	1	1	6	4	0	1	6	4	0	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	54973869	C	C	54973869	3	2	74	1	0	0	0	0	1	0	0	0	8725	1203	42	4	602	4	LENG9	19	54973869	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	17605700	54973869	4155114	107	4296											
ZNF256	10172	broad.mit.edu	37	chr19	58453894	58453894	+	Silent	SNP	T	A	A																															tgtctcaagactgggccacaTatctcacaggggttggtctt																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	58453894	A	A	58453894	2	1	74	1	0	0	0	0	0	0	0	1	17798	1396	49	5		5	ZNF256	19	58453894	Silent	SNP	T	TCGA-B0-4811-01A-01D-1501-10	3480025	58453894	675089	108	4297	52	2									
ZNF256	10172	broad.mit.edu	37	chr19	58453896	58453896	+	Missense_Mutation	SNP	T	G	G																															tctcaagactgggccacataTctcacaggggttggtcttct																								novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		G	58453896	G	G	58453896	3	3	74	1	0	0	0	0	1	0	0	0	17798	1435	50	5	1607	5	ZNF256	19	58453896	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	2	58453896	675087	109	4298	52	2									
ANGPT4	51378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	896710	896710	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggcagggctcagacttggGcagcaagaaggtgtagctac	11	6	16	8	0	1	2	1	0	0	2	1	2	1	2	0	4	3	6	0	4	4	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	896710	G	A	896710	3	1	74	1	0	0	0	0	1	0	0	0	612	1203	42	2	1399	2	ANGPT4	20	896710	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10		896710	62128810	110	4299											
GZF1	64412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	23345603	23345603	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaatggcatgtcttcaGatttgccaccgaagaagtcc	11	9	9	12	1	2	2	1	0	1	2	3	3	3	2	4	1	2	2	4	1	3	2	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	23345603	G	T	23345603	3	4	74	1	0	0	0	0	1	0	0	0	6914	942	33	4	585	4	GZF1	20	23345603	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	22448893	23345603	39679917	111	4300											
PDRG1	81572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30538174	30538174	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgattctgattccttttaGtgtccaggtccacaatctga	8	15	7	11	1	2	2	0	2	2	0	6	3	5	2	3	1	0	0	3	1	2	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	30538174	G	A	30538174	3	1	74	1	0	0	0	0	1	0	0	0	11690	1029	36	2	313	2	PDRG1	20	30538174	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10	7192571	30538174	32487346	112	4301											
ARFGEF2	10564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47604916	47604916	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgactacagacttgcaCagtcctcaggtaaagcactt	12	10	8	11	0	1	2	1	1	0	1	2	2	2	2	1	1	4	4	1	1	3	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	47604916	C	T	47604916	2	4	74	1	0	0	0	0	0	0	0	1	853	477	17	2		2	ARFGEF2	20	47604916	Silent	SNP	C	TCGA-B0-4811-01A-01D-1501-10	17066742	47604916	15420604	113	4302											
LAMA5	3911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60895846	60895846	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagacgggcccaggccatGgagctggcattgatgccacg	8	6	15	12	2	0	2	0	1	0	1	0	3	0	3	3	4	3	3	3	4	0	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	60895846	G	A	60895846	2	1	74	1	0	0	0	0	0	0	0	1	8609	1335	47	2		2	LAMA5	20	60895846	Silent	SNP	G	TCGA-B0-4811-01A-01D-1501-10	13290930	60895846	2129674	114	4303											
MCM3AP	8888	broad.mit.edu;ucsc.edu	37	chr21	47685911	47685911	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccccgatgtacttgtTctgggagttgaagctgcaca	7	12	11	11	1	2	1	0	1	2	0	3	3	2	2	2	1	3	6	2	1	2	4	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	47685911	A	A	47685911	3	1	74	1	0	0	0	0	1	0	0	0	9388	1783	62	5	3055	5	MCM3AP	21	47685911	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10		47685911	443984	115	4304											
IL2RB	3560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37539570	37539570	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggactcaccgtctgtccGgccaggcatggacttggcag	7	8	14	12	2	2	0	1	0	1	0	3	2	3	2	3	5	0	2	3	5	0	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		A	37539570	G	A	37539570	3	1	74	1	0	0	0	0	1	0	0	0	7687	1116	39	1	1493	1	IL2RB	22	37539570	Missense_Mutation	SNP	G	TCGA-B0-4811-01A-01D-1501-10		37539570	13764996	116	4305											
EP300	2033	broad.mit.edu;ucsc.edu	37	chr22	41573737	41573737	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagccccagcaactacagTctgggatgccaaggccagcc	10	5	10	16	0	2	0	1	0	1	0	2	1	2	1	5	2	6	1	5	2	3	1	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		C	41573737	C	C	41573737	3	2	74	1	0	0	0	0	1	0	0	0	5148	1667	58	3	6144	3	EP300	22	41573737	Missense_Mutation	SNP	T	TCGA-B0-4811-01A-01D-1501-10	4034167	41573737	9730829	117	4306											
DCAF8L2	347442	broad.mit.edu	37	chrX	27765420	27765421	+	In_Frame_Ins	INS	-	ATACAA	ATACAA																															aggaggaggaggaggaggagINSgaggaggaggaggaggagga																								rs34350719	alternate_allele	TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		ATACAA	27765421	ATACAA	ATACAA	27765420	7	5	74	1	0	1	1	0	0	0	0	0	4278	991	35	0	410	0	DCAF8L2	23	27765420	In_Frame_Ins	INS	-	TCGA-B0-4811-01A-01D-1501-10		27765420	127505140	118	4307											
COL4A6	1288	broad.mit.edu	37	chrX	107400258	107400258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttcatacacacctggcagCgactgactcgagtgtggagc	9	10	11	11	2	1	1	1	1	0	0	2	4	1	2	1	2	3	1	1	2	1	3	novel		TCGA-B0-4811-01A-01D-1501-10	TCGA-B0-4811-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a46182dc-2481-4911-9f6b-9532666f9f8c	96a5756f-57e4-4f88-9a51-b92d406a578a		T	107400258	T	T	107400258	3	4	74	1	0	0	0	0	1	0	0	0	3695	768	27	1	31	1	COL4A6	23	107400258	Missense_Mutation	SNP	C	TCGA-B0-4811-01A-01D-1501-10	79634838	107400258	47870302	119	4308											
FCRL5	83416	hgsc.bcm.edu;ucsc.edu	37	chr1	157490914	157490914	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagagagaggtttaaggacGctcctccagagggggacgac	11	6	15	9	2	1	3	1	0	0	3	3	7	3	5	2	4	0	2	2	4	1	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	157490914	G	A	157490914	3	1	75	1	0	0	0	0	1	0	0	0	5798	1087	38	1	553	1	FCRL5	1	157490914	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10		157490914	91759707	1	4309											
TRMT61B	55006	hgsc.bcm.edu	37	chr2	29093128	29093128	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaagacaggaccgcggcAccatgccattagcatagtgt	12	6	11	12	2	0	1	0	0	0	1	0	2	0	2	3	2	3	3	3	2	3	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	29093128	A	G	29093128	3	3	75	1	0	0	0	0	1	0	0	0	16569	159	6	3	1445	3	TRMT61B	2	29093128	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10		29093128	214106245	2	4310											
REL	5966	hgsc.bcm.edu	37	chr2	61147174	61147174	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctggtttctttctaatcAgatacttacggcaataaagc	11	15	6	9	1	3	1	1	0	2	1	4	1	4	1	1	2	3	2	1	2	6	7	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	61147174	A	C	61147174	5	2	75	1	0	0	0	0	0	0	1	0	13217	202	7	5	882	5	REL	2	61147174	Splice_Site	SNP	A	TCGA-B0-4813-01A-01D-1361-10	32054046	61147174	182052199	3	4311											
FABP1	2168	hgsc.bcm.edu	37	chr2	88427489	88427489	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgattgccttcatgaaggcTtcaaagttttcctggctctg	7	14	9	11	1	3	1	2	1	1	0	4	2	4	1	3	2	1	3	3	2	2	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	88427489	T	C	88427489	2	2	75	1	0	0	0	0	0	0	0	1	5355	1606	56	3		3	FABP1	2	88427489	Silent	SNP	T	TCGA-B0-4813-01A-01D-1361-10	27280315	88427489	154771884	4	4312											
CHST10	9486	hgsc.bcm.edu;ucsc.edu	37	chr2	101009958	101009958	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacactgtacattatctCacagggagcacagagctcta	14	9	7	11	0	3	1	2	0	2	1	4	2	3	2	0	1	3	3	0	1	4	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	101009958	C	A	101009958	4	1	75	1	0	0	0	0	0	1	0	0	3398	835	29	4	254	4	CHST10	2	101009958	Nonsense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	12582469	101009958	142189415	5	4313											
PSD4	23550	hgsc.bcm.edu	37	chr2	113940963	113940963	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatttgggggacggcgcTgctatcagtgggcattgtac	7	10	15	9	2	1	1	1	0	0	1	1	2	1	2	1	4	2	4	1	4	2	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	113940963	T	G	113940963	2	3	75	1	0	0	0	0	0	0	0	1	12651	1567	55	5		5	PSD4	2	113940963	Silent	SNP	T	TCGA-B0-4813-01A-01D-1361-10	12931005	113940963	129258410	6	4314											
PROC	5624	hgsc.bcm.edu;ucsc.edu	37	chr2	128178989	128178989	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagatctgtgacttcgaGgaggccaaggaaattttcca	12	9	13	7	1	1	2	0	1	1	1	3	7	2	4	2	4	0	0	2	4	2	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	128178989	G	C	128178989	3	2	75	1	0	0	0	0	1	0	0	0	12547	991	35	4	207	4	PROC	2	128178989	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	14238026	128178989	115020384	7	4315											
CCDC150	284992	hgsc.bcm.edu;ucsc.edu	37	chr2	197530388	197530388	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaaatgggatcaacagTggaggtagaacgaaaacagg	19	4	13	5	1	1	2	1	0	0	2	1	5	1	4	0	4	3	1	0	4	7	1	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	197530388	T	C	197530388	3	2	75	1	0	0	0	0	1	0	0	0	2785	1696	59	3	765	3	CCDC150	2	197530388	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10	69351399	197530388	45668985	8	4316											
AOX1	316	hgsc.bcm.edu	37	chr2	201474083	201474083	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttagcaggcatccagattcaGatctgaatcccatcctggct	10	11	8	12	0	2	3	1	1	1	2	5	3	5	3	3	2	1	3	3	2	2	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	201474083	G	A	201474083	3	1	75	1	0	0	0	0	1	0	0	0	729	942	33	2	1145	2	AOX1	2	201474083	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	3943695	201474083	41725290	9	4317											
PIKFYVE	200576	hgsc.bcm.edu	37	chr2	209190805	209190805	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtttactggtctcctctCctcaataaagaattcaaaga	13	12	6	10	0	4	2	2	0	2	2	6	2	4	2	2	2	1	1	2	2	6	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	209190805	C	A	209190805	2	1	75	1	0	0	0	0	0	0	0	1	11924	842	30	4		4	PIKFYVE	2	209190805	Silent	SNP	C	TCGA-B0-4813-01A-01D-1361-10	7716722	209190805	34008568	10	4318											
IQCB1	9657	hgsc.bcm.edu	37	chr3	121544945	121544945	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taattgtctccccaaaactaGaaaattttctgcagctgatg	13	13	6	9	0	2	2	0	1	2	1	3	2	2	2	2	0	3	2	2	0	6	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	121544945	G	A	121544945	2	1	75	1	0	0	0	0	0	0	0	1	7803	933	33	2		2	IQCB1	3	121544945	Silent	SNP	G	TCGA-B0-4813-01A-01D-1361-10		121544945	76477485	11	4319											
COL6A5	256076	hgsc.bcm.edu	37	chr3	130095639	130095639	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacagatcatcaaggatgtAaccaagtataaggagggagc	17	6	11	7	0	2	1	2	0	0	1	2	4	2	4	1	3	2	2	1	3	5	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	130095639	A	G	130095639	2	3	75	1	0	0	0	0	0	0	0	1	3702	349	13	3		3	COL6A5	3	130095639	Silent	SNP	A	TCGA-B0-4813-01A-01D-1361-10	8550694	130095639	67926791	12	4320											
GAK	2580	hgsc.bcm.edu	37	chr4	860311	860311	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagacggcagaagcgggcCaaaggggtcagctgtgggga	11	4	19	7	2	1	3	1	1	0	2	1	4	1	4	1	6	2	2	1	6	3	0	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	860311	C	G	860311	3	3	75	1	0	0	0	0	1	0	0	0	6195	594	21	4	1079	4	GAK	4	860311	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10		860311	190293965	13	4321											
LIAS	11019	hgsc.bcm.edu;ucsc.edu	37	chr4	39469138	39469138	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attctctcttttccccttagGaatccaaaaatccttgtgga	10	15	5	11	0	2	0	0	0	2	0	6	2	5	2	4	2	0	0	4	2	4	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	39469138	G	T	39469138	3	4	75	1	0	0	0	0	1	0	0	0	8778	1188	41	4	635	4	LIAS	4	39469138	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	38608827	39469138	151685138	14	4322											
LPHN3	23284	hgsc.bcm.edu;ucsc.edu	37	chr4	62801740	62801740	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatccagctgtctgcaaataCcttaaagcaaaatggccgaa	15	9	7	10	1	1	0	0	0	1	0	2	1	2	0	3	1	4	3	3	1	8	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	62801740	C	A	62801740	3	1	75	1	0	0	0	0	1	0	0	0	8917	507	18	4	2238	4	LPHN3	4	62801740	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	23332602	62801740	128352536	15	4323											
MAP9	79884	hgsc.bcm.edu	37	chr4	156276291	156276291	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatttcatgtaaatacaCatttttcttttctaaccact	11	18	3	9	0	3	0	1	0	2	0	3	0	3	0	1	0	3	2	1	0	4	8	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	156276291	C	A	156276291	3	1	75	1	0	0	0	0	1	0	0	0	9270	478	17	4	651	4	MAP9	4	156276291	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	93474551	156276291	34877985	16	4324											
HAPLN1	1404	hgsc.bcm.edu	37	chr5	82937598	82937598	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggtggatcagatagtaaAaacggcctgtagagaaaagg	15	7	15	4	1	1	2	1	0	0	2	1	4	1	3	1	5	1	2	1	5	7	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	82937598	A	T	82937598	3	4	75	1	0	0	0	0	1	0	0	0	6954	14	1	5	286	5	HAPLN1	5	82937598	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10		82937598	97977662	17	4325											
PDSS2	57107	hgsc.bcm.edu	37	chr6	107655456	107655456	+	Frame_Shift_Del	DEL	C	C	-																															gacatgaagtgttcacgctgCtgggcccagctgctttagag																								novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		-	107655456	C	-	107655456	7	5	75	1	0	1	0	1	0	0	0	0	11694	797	28	0	850	0	PDSS2	6	107655456	Frame_Shift_Del	DEL	C	TCGA-B0-4813-01A-01D-1361-10		107655456	63459611	18	4326											
MTHFD1L	25902	hgsc.bcm.edu;ucsc.edu	37	chr6	151358209	151358209	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttacctatcagtgacgtcCgggccagcataggcgctggg	7	9	13	12	3	2	1	1	1	1	0	3	1	3	1	3	3	2	2	3	3	3	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	151358209	C	T	151358209	3	4	75	1	0	0	0	0	1	0	0	0	9928	643	23	1	2905	1	MTHFD1L	6	151358209	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	43702753	151358209	19756858	19	4327											
LPA	4018	hgsc.bcm.edu	37	chr6	161027525	161027525	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccttgttcagaaggagcCtctaggcttggaatcggggt	8	12	13	8	1	2	1	1	0	1	1	3	3	2	3	2	5	2	2	2	5	4	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	161027525	C	T	161027525	2	4	75	1	0	0	0	0	0	0	0	1	8903	680	24	2		2	LPA	6	161027525	Silent	SNP	C	TCGA-B0-4813-01A-01D-1361-10	9669316	161027525	10087542	20	4328											
THBS2	7058	hgsc.bcm.edu;ucsc.edu	37	chr6	169649025	169649025	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttgcggttgatgttgctGatactgaaaaggtcgaaggt	9	13	14	5	2	1	3	0	3	1	0	2	4	1	3	0	3	3	3	0	3	4	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	169649025	G	T	169649025	2	4	75	1	0	0	0	0	0	0	0	1	15853	1280	45	4		4	THBS2	6	169649025	Silent	SNP	G	TCGA-B0-4813-01A-01D-1361-10	8621500	169649025	1466042	21	4329											
RADIL	55698	hgsc.bcm.edu;ucsc.edu	37	chr7	4839090	4839090	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaccgcatcttcttcccGccatgacggatcaggtccac	9	8	9	15	3	3	1	1	1	2	0	5	3	5	3	4	3	1	1	4	3	1	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	4839090	G	A	4839090	2	1	75	1	0	0	0	0	0	0	0	1	12999	1074	38	1		1	RADIL	7	4839090	Silent	SNP	G	TCGA-B0-4813-01A-01D-1361-10		4839090	154299573	22	4330											
MYO1G	64005	hgsc.bcm.edu	37	chr7	45009718	45009718	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgaatagctgctgcagcTtctcgttgcagtagttgatg	8	13	13	7	1	1	2	0	2	1	0	2	3	1	3	0	1	5	8	0	1	3	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	45009718	T	A	45009718	3	1	75	1	0	0	0	0	1	0	0	0	10074	1609	56	5	1855	5	MYO1G	7	45009718	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10	40170628	45009718	114128945	23	4331											
SLC25A13	10165	hgsc.bcm.edu	37	chr7	95799395	95799395	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctgcaagtgggaccgAaccatctttgtgcataaatt	10	13	9	9	1	2	0	0	0	2	0	2	2	2	1	2	1	4	3	2	1	4	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	95799395	A	G	95799395	3	3	75	1	0	0	0	0	1	0	0	0	14477	246	9	3	778	3	SLC25A13	7	95799395	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10	50789677	95799395	63339268	24	4332											
SPAM1	6677	hgsc.bcm.edu	37	chr7	123594531	123594531	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccacttccggtttttgcaTatacccgcatagtttttact	7	17	6	11	2	0	0	0	0	0	0	2	0	2	0	3	1	3	4	3	1	4	9	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	123594531	T	A	123594531	3	1	75	1	0	0	0	0	1	0	0	0	14988	1406	49	5	909	5	SPAM1	7	123594531	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10	27795136	123594531	35544132	25	4333											
CHD7	55636	hgsc.bcm.edu	37	chr8	61763833	61763833	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaaggaatttgcaaatTctccttcagaggataaggaa	14	12	8	7	0	3	1	2	0	1	1	4	4	3	4	1	3	1	1	1	3	5	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	61763833	T	C	61763833	3	2	75	1	0	0	0	0	1	0	0	0	3330	1783	62	3	5726	3	CHD7	8	61763833	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10		61763833	84600189	26	4334											
FER1L6	654463	hgsc.bcm.edu;ucsc.edu	37	chr8	124987507	124987507	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaaggtgatgtcttgaagaCcagccctaaaacttctgaca	15	9	8	9	0	2	4	0	3	2	1	2	4	2	4	2	1	2	0	2	1	5	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	124987507	C	A	124987507	3	1	75	1	0	0	0	0	1	0	0	0	5815	507	18	4	670	4	FER1L6	8	124987507	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	63223674	124987507	21376515	27	4335											
PHF20L1	51105	hgsc.bcm.edu	37	chr8	133816091	133816091	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagctttagtcaaagcagctGctgcagctgcagccaagaac	12	8	10	11	0	1	1	1	0	0	1	1	1	1	1	1	0	9	7	1	0	5	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	133816091	G	A	133816091	3	1	75	1	0	0	0	0	1	0	0	0	11832	1319	46	2	557	2	PHF20L1	8	133816091	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	8828584	133816091	12547931	28	4336											
SVIL	6840	hgsc.bcm.edu	37	chr10	29840075	29840075	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagactgtgggtgtccAtggtacccgaaccatagggt	9	9	12	11	1	0	1	0	0	0	1	2	2	2	1	4	3	2	1	4	3	3	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	29840075	A	G	29840075	3	3	75	1	0	0	0	0	1	0	0	0	15420	217	8	3	6498	3	SVIL	10	29840075	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10		29840075	105694672	29	4337											
KCNMA1	3778	hgsc.bcm.edu;ucsc.edu	37	chr10	78669819	78669819	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatcagggtcatcatcatCgtcttggtccaaaaactgaa	12	12	8	9	1	5	1	4	1	1	0	7	1	6	1	1	2	1	1	1	2	4	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	78669819	C	T	78669819	3	4	75	1	0	0	0	0	1	0	0	0	8073	884	31	1	703	1	KCNMA1	10	78669819	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	48829744	78669819	56864928	30	4338											
SYT12	91683	hgsc.bcm.edu;ucsc.edu	37	chr11	66811136	66811136	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgcctactccatcttcTttgatgagaagttctccatc	10	14	6	11	0	3	2	0	2	3	1	6	4	4	2	3	0	2	1	3	0	3	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	66811136	T	G	66811136	3	3	75	1	0	0	0	0	1	0	0	0	15467	1609	56	5	663	5	SYT12	11	66811136	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10		66811136	68195380	31	4339											
CNTN1	1272	hgsc.bcm.edu	37	chr12	41327530	41327530	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatccgatggcggaaggttCtagaaccaatgccaagcact	13	8	10	10	2	1	1	0	0	1	1	2	3	2	2	3	3	3	2	3	3	6	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	41327530	C	A	41327530	3	1	75	1	0	0	0	0	1	0	0	0	3640	912	32	4	865	4	CNTN1	12	41327530	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10		41327530	92524365	32	4340											
SLC16A7	9194	hgsc.bcm.edu	37	chr12	60165123	60165123	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtggtacagctgtaccTcactatgggattcattacag	10	11	10	10	1	2	0	2	0	0	0	2	1	2	1	1	2	5	3	1	2	4	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	60165123	T	G	60165123	3	3	75	1	0	0	0	0	1	0	0	0	14415	1551	54	5	347	5	SLC16A7	12	60165123	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10	18837593	60165123	73686772	33	4341											
BEST3	144453	hgsc.bcm.edu;ucsc.edu	37	chr12	70048909	70048909	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagtgtggctggaccccagGaatcccggaagactccacct	10	6	12	13	1	0	1	0	0	0	1	2	5	2	4	5	4	0	1	5	4	3	0	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	70048909	G	T	70048909	3	4	75	1	0	0	0	0	1	0	0	0	1406	1165	41	4	225	4	BEST3	12	70048909	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	9883786	70048909	63802986	34	4342											
RBM19	9904	hgsc.bcm.edu;ucsc.edu	37	chr12	114380203	114380203	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggacgagctgggtttcccCcagagccacgcgcacggcca	7	5	13	16	4	0	1	0	0	0	1	1	3	1	2	4	3	2	3	4	3	0	1	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	114380203	C	T	114380203	3	4	75	1	0	0	0	0	1	0	0	0	13123	623	22	2	1263	2	RBM19	12	114380203	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	44331294	114380203	19471692	35	4343											
NOS1	4842	hgsc.bcm.edu	37	chr12	117662919	117662919	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggggacttgggggttcCggggcaggtggaagctgggt	5	8	22	6	1	0	0	0	0	0	0	1	2	1	2	1	9	2	4	1	9	1	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	117662919	C	A	117662919	3	1	75	1	0	0	0	0	1	0	0	0	10541	652	23	4	596	4	NOS1	12	117662919	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	3282716	117662919	16188976	36	4344											
SYNE2	23224	hgsc.bcm.edu;ucsc.edu	37	chr14	64496675	64496675	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataccaggtttgcgtcacAgacctgaatactacattgga	12	11	8	10	1	2	2	2	1	0	1	2	3	2	3	2	2	4	1	2	2	4	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	64496675	A	G	64496675	2	3	75	1	0	0	0	0	0	0	0	1	15445	175	7	3		3	SYNE2	14	64496675	Silent	SNP	A	TCGA-B0-4813-01A-01D-1361-10		64496675	42852865	37	4345											
KIAA0284	0	hgsc.bcm.edu;ucsc.edu	37	chr14	105356097	105356097	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgcggagattgccaggTgagtagcccattcagagtaa	12	9	13	7	1	1	4	1	1	0	3	1	5	1	4	2	2	3	2	2	2	2	5	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	105356097	T	G	105356097	5	3	75	1	0	0	0	0	0	0	1	0	8166	1710	59	5	3926	5	KIAA0284	14	105356097	Splice_Site	SNP	T	TCGA-B0-4813-01A-01D-1361-10	40859422	105356097	1993443	38	4346											
GABRB3	2562	hgsc.bcm.edu;ucsc.edu	37	chr15	26812770	26812770	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatcataattgatccagaAggacacccacgacagaatcg	15	7	8	11	2	1	3	1	1	0	2	3	5	2	4	2	1	1	1	2	1	3	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	26812770	A	C	26812770	3	2	75	1	0	0	0	0	1	0	0	0	6168	72	3	5	640	5	GABRB3	15	26812770	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10		26812770	75718622	39	4347											
GATM	2628	hgsc.bcm.edu;ucsc.edu	37	chr15	45654362	45654362	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatcgcaggtccagcaaTggaagcctcctcccagggaa	11	5	12	13	1	0	0	0	0	0	0	4	3	3	3	4	4	2	2	4	4	3	0	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	45654362	T	C	45654362	3	2	75	1	0	0	0	0	1	0	0	0	6263	1464	51	3	58	3	GATM	15	45654362	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10	18841592	45654362	56877030	40	4348											
RNPS1	10921	hgsc.bcm.edu;ucsc.edu	37	chr16	2314218	2314218	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagcgctgcgcctctttcgGgttttgtcccggccgcgatc	3	11	13	14	6	1	0	0	0	1	0	4	2	2	0	3	2	2	2	3	2	1	3	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	2314218	G	C	2314218	2	2	75	1	0	0	0	0	0	0	0	1	13513	1219	43	4		4	RNPS1	16	2314218	Silent	SNP	G	TCGA-B0-4813-01A-01D-1361-10		2314218	88040535	41	4349											
PRKAR1A	5573	hgsc.bcm.edu;ucsc.edu	37	chr17	66511547	66511547	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgcagagaaccatggagTctggcagtaccgccgccagt	9	7	12	13	3	2	1	0	0	2	1	3	3	2	2	4	2	2	3	4	2	2	1	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	66511547	T	A	66511547	3	1	75	1	0	0	0	0	1	0	0	0	12505	1667	58	5	9	5	PRKAR1A	17	66511547	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10		66511547	14683663	42	4350											
MOCOS	55034	hgsc.bcm.edu	37	chr18	33793366	33793366	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctttacaacatccacctgcGaactggctgcttctgtaaca	10	12	6	13	1	2	0	0	0	2	0	3	1	3	0	2	1	6	3	2	1	4	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	33793366	G	A	33793366	3	1	75	1	0	0	0	0	1	0	0	0	9689	1058	37	1	1282	1	MOCOS	18	33793366	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10		33793366	44283882	43	4351											
DCC	1630	hgsc.bcm.edu;ucsc.edu	37	chr18	50923805	50923805	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgactgcacatgccaccaCgtatgaagcaggtatgtgag	12	8	11	10	1	0	3	0	3	0	0	0	3	0	3	2	1	3	4	2	1	3	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	50923805	C	T	50923805	3	4	75	1	0	0	0	0	1	0	0	0	4282	536	19	1	2886	1	DCC	18	50923805	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	17130439	50923805	27153443	44	4352											
ZFR2	23217	hgsc.bcm.edu	37	chr19	3833722	3833722	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggcagcagactggaagtAcggcctgtcctcatagctcc	9	7	13	12	1	1	1	1	0	0	1	3	3	3	2	3	3	3	4	3	3	3	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	3833722	A	T	3833722	3	4	75	1	0	0	0	0	1	0	0	0	17659	391	14	5	2568	5	ZFR2	19	3833722	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10		3833722	55295261	45	4353											
ZNF791	163049	hgsc.bcm.edu;ucsc.edu	37	chr19	12739350	12739350	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtaaagaatgtgggaaatCtttcagtgcacgcccagcct	12	10	10	9	1	2	1	1	0	1	1	2	2	2	2	2	1	2	2	2	1	4	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	12739350	C	T	12739350	3	4	75	1	0	0	0	0	1	0	0	0	18162	913	32	2	1021	2	ZNF791	19	12739350	Missense_Mutation	SNP	C	TCGA-B0-4813-01A-01D-1361-10	8905628	12739350	46389633	46	4354											
PDE4C	5143	hgsc.bcm.edu	37	chr19	18327573	18327573	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaatgaccatcctgcgcAgactcagtcgctgcttggcg	7	10	11	13	3	2	2	2	1	0	1	4	2	3	2	2	1	2	3	2	1	1	1	rs144273719	alternate_allele	TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	18327573	A	T	18327573	3	4	75	1	0	0	0	0	1	0	0	0	11641	188	7	5	691	5	PDE4C	19	18327573	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10	5588223	18327573	40801410	47	4355											
ZNF100	163227	hgsc.bcm.edu	37	chr19	21910451	21910451	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgaaatcttttatgttgAgttaggtgtaaaagcatgca	14	15	9	3	0	1	2	0	2	1	0	1	2	1	2	0	1	2	5	0	1	6	6	rs75062026		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	21910451	A	C	21910451	2	2	75	1	0	0	0	0	0	0	0	1	17712	291	11	5		5	ZNF100	19	21910451	Silent	SNP	A	TCGA-B0-4813-01A-01D-1361-10	3582878	21910451	37218532	48	4356											
ZNF574	64763	hgsc.bcm.edu	37	chr19	42584386	42584386	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctggcccgccaccggcTcacacacacaggagagcggc	10	2	11	18	3	1	1	1	0	0	1	1	2	1	1	4	4	2	1	4	4	1	0	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	42584386	T	G	42584386	3	3	75	1	0	0	0	0	1	0	0	0	18005	1551	54	5	1630	5	ZNF574	19	42584386	Missense_Mutation	SNP	T	TCGA-B0-4813-01A-01D-1361-10	20673935	42584386	16544597	49	4357											
SLC4A11	83959	hgsc.bcm.edu	37	chr20	3210301	3210301	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctggcgaggaagctggcGttgagggcagtgtggaggct	6	7	22	6	2	0	1	0	1	0	0	0	4	0	3	0	7	1	5	0	7	1	1	rs41281860	bycluster;byfrequency;by1000genomes	TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		A	3210301	G	A	3210301	2	1	75	1	0	0	0	0	0	0	0	1	14654	1136	40	1		1	SLC4A11	20	3210301	Silent	SNP	G	TCGA-B0-4813-01A-01D-1361-10		3210301	59815219	50	4358											
PLCB1	23236	hgsc.bcm.edu;ucsc.edu	37	chr20	8713925	8713925	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggggatgtatgaatacaaCgggaagagtggctacagatt	14	9	14	4	1	0	3	0	1	0	2	0	5	0	5	0	4	3	2	0	4	6	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		T	8713925	C	T	8713925	2	4	75	1	0	0	0	0	0	0	0	1	12027	535	19	1		1	PLCB1	20	8713925	Silent	SNP	C	TCGA-B0-4813-01A-01D-1361-10	5503624	8713925	54311595	51	4359											
KRTAP10-8	386681	hgsc.bcm.edu	37	chr21	46032305	46032305	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaccgactcctgcacaccTtcatgctgccagcagtctag	8	9	8	16	1	2	0	1	0	1	0	3	1	3	0	4	0	5	4	4	0	1	2	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	46032305	T	C	46032305	2	2	75	1	0	0	0	0	0	0	0	1	8515	1596	56	3		3	KRTAP10-8	21	46032305	Silent	SNP	T	TCGA-B0-4813-01A-01D-1361-10		46032305	2097590	52	4360											
USP18	11274	hgsc.bcm.edu	37	chr22	18655999	18655999	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttactgtgtctacatccggaAtgctgtggatggaaaatggt	10	13	12	6	1	1	0	0	0	1	0	2	3	2	3	1	4	3	1	1	4	5	2	rs61731585	bycluster;byfrequency	TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	18655999	A	G	18655999	3	3	75	1	0	0	0	0	1	0	0	0	17048	101	4	3	1004	3	USP18	22	18655999	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10		18655999	32648567	53	4361											
CYTH4	27128	hgsc.bcm.edu	37	chr22	37708130	37708130	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaagaccgatggcgacGgcagggtggtggagggcaag	9	4	19	9	3	0	1	0	0	0	1	0	4	0	2	2	6	1	3	2	6	2	0	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	37708130	G	C	37708130	3	2	75	1	0	0	0	0	1	0	0	0	4206	1116	39	4	1073	4	CYTH4	22	37708130	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	19052131	37708130	13596436	54	4362											
PLXNB2	23654	hgsc.bcm.edu;ucsc.edu	37	chr22	50720489	50720489	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccttggtgtcattgtggaAcacgtagtctgtacccacca	9	11	10	11	1	2	0	1	0	1	0	2	2	2	1	3	2	2	2	3	2	3	4	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	50720489	A	G	50720489	3	3	75	1	0	0	0	0	1	0	0	0	12124	43	2	3	2449	3	PLXNB2	22	50720489	Missense_Mutation	SNP	A	TCGA-B0-4813-01A-01D-1361-10	13012359	50720489	584077	55	4363											
ASMTL	8623	hgsc.bcm.edu	37	chrX	1546876	1546876	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgccgcaggtcctccggAcggggcgggtagtagagctt	5	7	16	13	5	0	1	0	0	0	1	3	2	3	2	4	5	1	4	4	5	2	3	rs5948863	bycluster;by1000genomes	TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		G	1546876	A	G	1546876	2	3	75	1	0	0	0	0	0	0	0	1	1046	262	10	3		3	ASMTL	23	1546876	Silent	SNP	A	TCGA-B0-4813-01A-01D-1361-10		1546876	153723684	56	4364											
ARSD	414	hgsc.bcm.edu	37	chrX	2836007	2836007	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaacaggcagcccacgccgGccatgccggtgactgctctc	9	5	11	16	3	1	1	0	1	1	0	2	1	1	1	4	3	4	2	4	3	2	0	novel		TCGA-B0-4813-01A-01D-1361-10	TCGA-B0-4813-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f7a67b2e-6b62-4251-9053-87bf0abb15ef	168bd71c-e04a-41fb-96ce-65bf61c867c6		C	2836007	G	C	2836007	3	2	75	1	0	0	0	0	1	0	0	0	989	1203	42	4	1257	4	ARSD	23	2836007	Missense_Mutation	SNP	G	TCGA-B0-4813-01A-01D-1361-10	1289131	2836007	152434553	57	4365											
TP73	7161	hgsc.bcm.edu	37	chr1	3624323	3624323	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttgaggtcactttccagCagtccagcacggccaagtca	10	9	9	13	1	2	1	2	1	0	0	4	1	4	1	3	2	2	2	3	2	1	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	3624323	C	T	3624323	4	4	76	1	0	0	0	0	0	1	0	0	16392	711	25	2	450	2	TP73	1	3624323	Nonsense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10		3624323	245626298	1	4366											
CATSPER4	378807	hgsc.bcm.edu;ucsc.edu	37	chr1	26520358	26520358	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctccttggctggctcaaTggcttctggattttctggaa	5	16	11	9	0	4	0	1	0	3	0	5	2	4	2	1	5	0	4	1	5	2	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	26520358	T	C	26520358	2	2	76	1	0	0	0	0	0	0	0	1	2690	1461	51	3		3	CATSPER4	1	26520358	Silent	SNP	T	TCGA-B0-4814-01A-01D-1361-10	22896035	26520358	222730263	2	4367											
RLF	6018	hgsc.bcm.edu	37	chr1	40627266	40627266	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgagggagcaagaggtGtcggaggtctcatctttgaa	10	9	16	6	1	2	3	1	2	2	1	4	6	2	5	0	4	2	2	0	4	2	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	40627266	G	C	40627266	2	2	76	1	0	0	0	0	0	0	0	1	13391	1364	48	4		4	RLF	1	40627266	Silent	SNP	G	TCGA-B0-4814-01A-01D-1361-10	14106908	40627266	208623355	3	4368											
ZNF687	57592	hgsc.bcm.edu;ucsc.edu	37	chr1	151261955	151261955	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccagcgtgtcagtgtctTtaagtgcccgtcttgtcctc	4	13	10	14	2	3	0	1	0	2	0	5	0	4	0	4	0	2	0	4	0	1	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	151261955	T	G	151261955	3	3	76	1	0	0	0	0	1	0	0	0	18091	1841	64	5	2587	5	ZNF687	1	151261955	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	110634689	151261955	97988666	4	4369											
BCAN	63827	hgsc.bcm.edu	37	chr1	156626162	156626162	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctatgtctgcctggctatggGggggacctgtgcgatgttgg	4	12	17	8	1	1	0	0	0	1	0	1	2	1	1	2	5	2	2	2	5	2	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	156626162	G	T	156626162	2	4	76	1	0	0	0	0	0	0	0	1	1345	1219	43	4		4	BCAN	1	156626162	Silent	SNP	G	TCGA-B0-4814-01A-01D-1361-10	5364207	156626162	92624459	5	4370											
CDK18	5129	hgsc.bcm.edu;ucsc.edu	37	chr1	205494268	205494268	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctatgtctctccctctcagtCagacattggctttgggaaac	8	13	8	12	0	3	1	2	0	2	1	6	2	4	2	1	2	1	1	1	2	2	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	205494268	C	T	205494268	3	4	76	1	0	0	0	0	1	0	0	0	3134	840	29	2	505	2	CDK18	1	205494268	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	48868106	205494268	43756353	6	4371											
FAM72A	729533	hgsc.bcm.edu	37	chr1	206153974	206153974	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgtaaacgtcctacttTggggcaacttgccagagata	11	10	11	9	1	0	1	0	0	0	1	1	2	1	1	2	3	4	2	2	3	5	5	rs3196187		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	206153974	T	C	206153974	3	2	76	1	0	0	0	0	1	0	0	0	5614	1812	63	3	387	3	FAM72A	1	206153974	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	659706	206153974	43096647	7	4372											
OR2T29	343563	hgsc.bcm.edu	37	chr1	248722722	248722722	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagctggatgtttggatTgtctgaagagtcccatgagg	9	12	15	5	0	1	4	0	2	1	2	2	6	2	6	1	3	1	3	1	3	2	3	rs1629363	bycluster;by2hit2allele	TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	248722722	T	C	248722722	3	2	76	1	0	0	0	0	1	0	0	0	11022	1812	63	3	880	3	OR2T29	1	248722722	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	42568748	248722722	527899	8	4373											
APOB	338	hgsc.bcm.edu;ucsc.edu	37	chr2	21224845	21224845	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaaattattttcttcgtCgcaatggcctggcttttaat	9	17	7	8	2	2	1	1	0	1	1	4	1	2	1	1	2	0	2	1	2	4	6	rs138421941	byfrequency;alternate_allele	TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	21224845	C	A	21224845	2	1	76	1	0	0	0	0	0	0	0	1	785	871	31	4		4	APOB	2	21224845	Silent	SNP	C	TCGA-B0-4814-01A-01D-1361-10		21224845	221974528	9	4374											
IL18R1	8809	hgsc.bcm.edu;ucsc.edu	37	chr2	103013085	103013085	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaatgaggtcaggtatgaActtgaaagtggactccatga	13	11	11	6	0	2	4	1	4	1	0	3	5	3	5	1	3	1	1	1	3	4	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	103013085	A	C	103013085	3	2	76	1	0	0	0	0	1	0	0	0	7647	40	2	5	1403	5	IL18R1	2	103013085	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	81788240	103013085	140186288	10	4375											
COBLL1	22837	hgsc.bcm.edu	37	chr2	165560994	165560994	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagtttgcttctgaagcActgtctggaggaactccatc	9	11	12	9	0	2	2	0	1	2	1	4	5	3	4	1	3	3	3	1	3	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	165560994	A	T	165560994	3	4	76	1	0	0	0	0	1	0	0	0	3654	156	6	5	2343	5	COBLL1	2	165560994	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	62547909	165560994	77638379	11	4376											
DNAJC10	54431	hgsc.bcm.edu	37	chr2	183622513	183622513	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaaagataccctgagataaGattttttcccccaaaatcaa	16	11	4	10	0	2	3	2	1	0	3	3	4	3	3	3	0	1	0	3	0	6	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	183622513	G	A	183622513	3	1	76	1	0	0	0	0	1	0	0	0	4629	942	33	2	1970	2	DNAJC10	2	183622513	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10	18061519	183622513	59576860	12	4377											
ABI2	10152	hgsc.bcm.edu;ucsc.edu	37	chr2	204259531	204259531	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcgcagcagagccctgtGaggacagcttctgtgaatca	9	8	11	13	1	2	3	1	2	1	1	3	4	2	4	2	1	3	3	2	1	1	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	204259531	G	T	204259531	2	4	76	1	0	0	0	0	0	0	0	1	89	1277	45	4		4	ABI2	2	204259531	Silent	SNP	G	TCGA-B0-4814-01A-01D-1361-10	20637018	204259531	38939842	13	4378											
MAP2	4133	hgsc.bcm.edu;ucsc.edu	37	chr2	210559008	210559008	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcatgtcaatcaatttgcCgatgtcttgcctagattcca	11	13	7	10	1	3	1	2	0	1	1	4	2	4	1	3	0	3	1	3	0	4	4	rs146432517		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	210559008	C	T	210559008	3	4	76	1	0	0	0	0	1	0	0	0	9235	652	23	1	2128	1	MAP2	2	210559008	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	6299477	210559008	32640365	14	4379											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188321	10188321	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccaatatcacactgccagGtactgacgttttacttttta	10	15	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	5	7	rs5030814	bycluster;alternate_allele	TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	10188321	G	T	10188321	5	4	76	1	0	0	0	0	0	0	1	0	17161	1275	44	4	470	4	VHL	3	10188321	Splice_Site	SNP	G	TCGA-B0-4814-01A-01D-1361-10		10188321	187834109	15	4380											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47162268	47162269	+	Frame_Shift_Del	DEL	AT	AT	-																															tactgttctgcattttgctgAtacttgtgtccaccacaagc																								novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	AT	AT	AT	-	AT	AT	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		-	47162269	AT	-	47162268	7	5	76	1	0	1	0	1	0	0	0	0	14133	340	12	0	3912	0	SETD2	3	47162268	Frame_Shift_Del	DEL	AT	TCGA-B0-4814-01A-01D-1361-10	36973947	47162268	150860162	16	4381											
POLQ	10721	hgsc.bcm.edu	37	chr3	121207099	121207099	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctgaacagaatccattTctgaaaatataatagattca	17	12	4	8	0	3	4	1	2	2	2	4	4	4	4	2	0	1	0	2	0	7	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	121207099	T	A	121207099	3	1	76	1	0	0	0	0	1	0	0	0	12208	1783	62	5	3153	5	POLQ	3	121207099	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	74044831	121207099	76815331	17	4382											
SLCO2A1	6578	hgsc.bcm.edu	37	chr3	133674025	133674025	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagagctcggcctgcaagCggctgttgttccctgcaacg	6	8	14	13	3	0	1	0	0	0	1	2	1	1	1	2	3	5	7	2	3	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	133674025	C	T	133674025	3	4	76	1	0	0	0	0	1	0	0	0	14728	768	27	1	1565	1	SLCO2A1	3	133674025	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	12466926	133674025	64348405	18	4383											
GK2	2712	hgsc.bcm.edu	37	chr4	80328113	80328113	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgaagtggaattccacaGtcacggttcatggcttccaa	11	10	10	10	2	2	1	2	1	0	0	4	3	4	2	2	3	0	2	2	3	3	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	80328113	G	T	80328113	3	4	76	1	0	0	0	0	1	0	0	0	6421	1020	36	4	423	4	GK2	4	80328113	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10		80328113	110826163	19	4384											
HELQ	113510	hgsc.bcm.edu;ucsc.edu	37	chr4	84362515	84362515	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctttgctgtcaacttcAtatattgtatcatttatttt	9	21	4	7	0	4	0	4	0	0	0	4	0	4	0	0	0	3	3	0	0	5	10	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	84362515	A	C	84362515	4	2	76	1	0	0	0	0	0	1	0	0	7047	224	8	5	1748	5	HELQ	4	84362515	Nonsense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	4034402	84362515	106791761	20	4385											
PAPD7	11044	hgsc.bcm.edu;ucsc.edu	37	chr5	6749688	6749688	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactttaggaagaatcatCaaagtaactcaggaggtgat	16	10	10	5	0	3	2	3	1	0	1	3	4	3	4	0	3	2	2	0	3	6	4	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	6749688	C	A	6749688	2	1	76	1	0	0	0	0	0	0	0	1	11426	816	29	4		4	PAPD7	5	6749688	Silent	SNP	C	TCGA-B0-4814-01A-01D-1361-10		6749688	174165572	21	4386											
NNT	23530	hgsc.bcm.edu;ucsc.edu	37	chr5	43659277	43659277	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattgttgttctagggtgTgactttgacagctgctattg	6	18	12	5	0	1	3	0	3	1	0	1	3	1	3	0	1	2	4	0	1	2	8	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	43659277	T	A	43659277	3	1	76	1	0	0	0	0	1	0	0	0	10510	1696	59	5	2521	5	NNT	5	43659277	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	36909589	43659277	137255983	22	4387											
EDIL3	10085	hgsc.bcm.edu	37	chr5	83402558	83402558	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagtagggataccattttTggagtccaaaaagagctcgg	13	10	11	7	1	0	1	0	0	0	1	2	3	1	3	2	3	2	2	2	3	5	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	83402558	T	C	83402558	3	2	76	1	0	0	0	0	1	0	0	0	4915	1812	63	3	906	3	EDIL3	5	83402558	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	39743281	83402558	97512702	23	4388											
BRD8	10902	hgsc.bcm.edu	37	chr5	137488285	137488285	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttctctctccgggctgctTtcctctagttcctcagcctc	2	15	8	16	1	4	0	1	0	3	0	9	0	6	0	4	2	2	4	4	2	1	4	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	137488285	T	C	137488285	2	2	76	1	0	0	0	0	0	0	0	1	1506	1838	64	3		3	BRD8	5	137488285	Silent	SNP	T	TCGA-B0-4814-01A-01D-1361-10	54085727	137488285	43426975	24	4389											
ANKHD1-EIF4EBP3	404734	hgsc.bcm.edu	37	chr5	139864831	139864831	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccctactcatcgactcAaggtagtctacttaaaaata	14	11	5	11	1	3	1	2	1	1	0	4	2	3	1	1	1	2	1	1	1	8	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	139864831	A	G	139864831	3	3	76	1	0	0	0	0	1	0	0	0	629	131	5	3	2042	3	ANKHD1-EIF4EBP3	5	139864831	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	2376546	139864831	41050429	25	4390											
UIMC1	51720	hgsc.bcm.edu	37	chr5	176338345	176338345	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaagtctgggcagctgtcCcactgtcactcttggtcttg	6	12	12	11	0	4	1	1	0	3	1	5	2	5	1	1	2	1	2	1	2	1	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	176338345	C	A	176338345	3	1	76	1	0	0	0	0	1	0	0	0	16970	623	22	4	536	4	UIMC1	5	176338345	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	36473514	176338345	4576915	26	4391											
SIRT5	23408	hgsc.bcm.edu	37	chr6	13601129	13601129	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtggctgccaggggcGtgccagtggctgaatttaac	7	8	15	11	1	0	1	0	1	0	0	0	1	0	1	3	5	3	2	3	5	2	2	rs146449652		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	13601129	G	A	13601129	3	1	76	1	0	0	0	0	1	0	0	0	14343	1145	40	1	831	1	SIRT5	6	13601129	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10		13601129	157513938	27	4392											
THBS2	7058	hgsc.bcm.edu;ucsc.edu	37	chr6	169634863	169634863	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgttgcacatctgacgCtcctgcacatcccccacgca	7	10	6	18	2	2	1	0	1	2	0	4	1	4	1	3	0	2	5	3	0	0	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	169634863	C	T	169634863	2	4	76	1	0	0	0	0	0	0	0	1	15853	796	28	2		2	THBS2	6	169634863	Silent	SNP	C	TCGA-B0-4814-01A-01D-1361-10	156033734	169634863	1480204	28	4393											
KCNU1	157855	hgsc.bcm.edu;ucsc.edu	37	chr8	36694387	36694387	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctttgctgaattaaaacttgGatttatcgcccaaggctgtt	10	15	8	8	1	0	1	0	1	0	0	1	2	0	2	1	2	2	3	1	2	5	6	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	36694387	G	C	36694387	3	2	76	1	0	0	0	0	1	0	0	0	8093	1174	41	4	1496	4	KCNU1	8	36694387	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10		36694387	109669635	29	4394											
FER1L6	654463	hgsc.bcm.edu	37	chr8	125015549	125015549	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccattcctatggcctccacCactcacccggagaagccact	9	7	6	19	1	1	1	1	0	0	1	3	2	3	1	7	2	1	0	7	2	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	125015549	C	T	125015549	2	4	76	1	0	0	0	0	0	0	0	1	5815	581	21	2		2	FER1L6	8	125015549	Silent	SNP	C	TCGA-B0-4814-01A-01D-1361-10	88321162	125015549	21348473	30	4395											
C9orf131	138724	hgsc.bcm.edu;ucsc.edu	37	chr9	35043871	35043871	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatataagccccagtgggaAtgcagagaaaactcaggaaa	18	5	11	7	0	1	2	1	0	0	2	1	5	1	4	2	2	3	1	2	2	6	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	35043871	A	C	35043871	3	2	76	1	0	0	0	0	1	0	0	0	2457	98	4	5	1267	5	C9orf131	9	35043871	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10		35043871	106169560	31	4396											
VPS13A	23230	hgsc.bcm.edu	37	chr9	79910474	79910474	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggcttttatagataattTtcaggcagctaaacaagcct	14	12	7	8	0	1	1	1	0	0	1	1	1	1	1	1	2	3	3	1	2	6	7	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	79910474	T	A	79910474	3	1	76	1	0	0	0	0	1	0	0	0	17188	1841	64	5	3654	5	VPS13A	9	79910474	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	44866603	79910474	61302957	32	4397											
ZCCHC6	79670	hgsc.bcm.edu;ucsc.edu	37	chr9	88903626	88903626	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtcctcttcgctgaggctTttccctgagtcatatattta	6	16	9	10	1	2	2	1	2	1	0	5	2	4	2	2	2	0	2	2	2	3	7	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	88903626	T	C	88903626	3	2	76	1	0	0	0	0	1	0	0	0	17591	1841	64	3	37	3	ZCCHC6	9	88903626	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	8993152	88903626	52309805	33	4398											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98240363	98240363	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagtagccgctggccacgcGgatgacactgacgtcagaga	11	6	13	11	4	1	3	1	2	0	1	1	5	1	4	2	2	1	2	2	2	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	98240363	G	T	98240363	3	4	76	1	0	0	0	0	1	0	0	0	12732	1116	39	4	3082	4	PTCH1	9	98240363	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10	9336737	98240363	42973068	34	4399											
ASTN2	23245	hgsc.bcm.edu	37	chr9	119976858	119976858	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgaacggaagctctccCgcgcctggggacccagcagc	8	4	15	14	3	1	1	0	1	1	0	2	4	1	4	3	4	4	2	3	4	2	0	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	119976858	C	A	119976858	3	1	76	1	0	0	0	0	1	0	0	0	1065	652	23	4	3384	4	ASTN2	9	119976858	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	21736495	119976858	21236573	35	4400											
ZNF248	57209	hgsc.bcm.edu;ucsc.edu	37	chr10	38121983	38121983	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtggaatagaagctcccaAaaatggtcatcttcattttc	12	14	7	8	0	3	1	2	0	1	1	5	2	4	2	1	2	1	1	1	2	5	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	38121983	A	T	38121983	3	4	76	1	0	0	0	0	1	0	0	0	17792	11	1	5	1443	5	ZNF248	10	38121983	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10		38121983	97412764	36	4401											
TPP1	1200	hgsc.bcm.edu	37	chr11	6638044	6638044	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagttgccaccgaagaggCgcatgaactgagccaggtct	12	6	12	11	2	1	3	0	2	1	1	1	4	1	3	3	2	3	2	3	2	3	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	6638044	C	T	6638044	3	4	76	1	0	0	0	0	1	0	0	0	16410	768	27	1	985	1	TPP1	11	6638044	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10		6638044	128368472	37	4402											
ABTB2	25841	hgsc.bcm.edu	37	chr11	34175904	34175904	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagggcatccagctggaAcaggctggcagctgacagca	10	5	14	12	0	0	1	0	1	0	0	1	2	1	2	1	4	5	7	1	4	1	0	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	34175904	A	T	34175904	3	4	76	1	0	0	0	0	1	0	0	0	103	43	2	5	297	5	ABTB2	11	34175904	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	27537860	34175904	100830612	38	4403											
COMMD9	29099	hgsc.bcm.edu;ucsc.edu	37	chr11	36298648	36298648	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggtactcactctgatttgCctgggcttcggttctccaag	5	15	10	11	1	3	1	1	1	2	0	5	1	3	1	2	3	2	3	2	3	2	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	36298648	C	A	36298648	3	1	76	1	0	0	0	0	1	0	0	0	3723	739	26	4	265	4	COMMD9	11	36298648	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	2122744	36298648	98707868	39	4404											
NOX4	50507	hgsc.bcm.edu	37	chr11	89088168	89088168	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgaagggcagaatttcGgagtcttgactagatggagg	12	10	15	4	1	1	5	0	3	1	2	2	7	1	7	0	4	0	1	0	4	4	3	rs75735530	bycluster;byfrequency;by1000genomes	TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	89088168	G	A	89088168	2	1	76	1	0	0	0	0	0	0	0	1	10558	1103	39	1		1	NOX4	11	89088168	Silent	SNP	G	TCGA-B0-4814-01A-01D-1361-10	52789520	89088168	45918348	40	4405											
ITGB7	3695	hgsc.bcm.edu	37	chr12	53591327	53591327	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccggaccagcagagcgtgcCcgagctggcgcacgcgttcc	6	4	15	16	6	0	1	0	0	0	1	1	3	1	2	4	2	4	4	4	2	0	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	53591327	C	G	53591327	3	3	76	1	0	0	0	0	1	0	0	0	7900	623	22	4	1920	4	ITGB7	12	53591327	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10		53591327	80260568	41	4406											
NR2C1	7181	hgsc.bcm.edu;ucsc.edu	37	chr12	95452258	95452258	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaagttactgctccataAtgacgtcctagagagaaaat	15	10	7	9	1	1	3	1	1	0	2	3	4	3	3	2	0	2	2	2	0	6	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	95452258	A	T	95452258	3	4	76	1	0	0	0	0	1	0	0	0	10622	98	4	5	1557	5	NR2C1	12	95452258	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	41860931	95452258	38399637	42	4407											
OAS1	4938	hgsc.bcm.edu;ucsc.edu	37	chr12	113348901	113348901	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacccccaaatctatgtcaAgctcatcgaggagtgcaccg	12	8	8	13	2	3	0	2	0	1	0	4	2	3	1	3	1	3	2	3	1	4	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	113348901	A	G	113348901	3	3	76	1	0	0	0	0	1	0	0	0	10799	72	3	3	525	3	OAS1	12	113348901	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	17896643	113348901	20502994	43	4408											
EAPP	55837	hgsc.bcm.edu;ucsc.edu	37	chr14	34985595	34985595	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttcagtggaacattcaGtgcacatgactgggtgatag	11	10	11	9	0	2	2	2	2	0	0	2	3	2	3	1	2	2	1	1	2	2	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	34985595	G	C	34985595	3	2	76	1	0	0	0	0	1	0	0	0	4877	1029	36	4	82	4	EAPP	14	34985595	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10		34985595	72363945	44	4409											
UNC13C	440279	hgsc.bcm.edu	37	chr15	54435838	54435838	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaatagtaagtggcaatGatttggatgcttccaaattt	12	14	9	6	1	0	1	0	1	0	0	2	3	1	2	1	2	1	3	1	2	5	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	54435838	G	T	54435838	3	4	76	1	0	0	0	0	1	0	0	0	16985	1290	45	4	3038	4	UNC13C	15	54435838	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10		54435838	48095554	45	4410											
ACAN	176	hgsc.bcm.edu	37	chr15	89398671	89398671	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggctctgcctctggagttgGggatctcagtggacttcctt	4	13	14	10	0	3	0	1	0	3	0	5	3	4	3	2	5	1	2	2	5	0	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	89398671	G	A	89398671	3	1	76	1	0	0	0	0	1	0	0	0	117	1232	43	2	2897	2	ACAN	15	89398671	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10	34962833	89398671	13132721	46	4411											
BTBD12	0	hgsc.bcm.edu;ucsc.edu	37	chr16	3652234	3652234	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcatgtgccgatgctcctaCccgtgcaaactcctgctgca	8	10	8	15	2	1	0	1	0	0	0	3	1	3	0	4	0	7	4	4	0	2	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	3652234	C	T	3652234	3	4	76	1	0	0	0	0	1	0	0	0	1540	507	18	2	4717	2	BTBD12	16	3652234	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10		3652234	86702519	47	4412											
ERCC4	2072	hgsc.bcm.edu	37	chr16	14015889	14015889	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtttgatttgatttaggAgtattttatcaatcagctga	12	17	8	4	0	2	3	2	3	0	0	2	4	2	4	0	1	1	3	0	1	5	7	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	14015889	A	G	14015889	3	3	76	1	0	0	0	0	1	0	0	0	5215	318	11	3	215	3	ERCC4	16	14015889	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	10363655	14015889	76338864	48	4413											
WWP2	11060	hgsc.bcm.edu	37	chr16	69964089	69964089	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgaaatacaccagcgaggGggtgcgatactttgtggacc	11	8	14	8	2	0	1	0	1	0	0	0	5	0	2	2	3	4	0	2	3	3	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	69964089	G	C	69964089	3	2	76	1	0	0	0	0	1	0	0	0	17415	1232	43	4	1423	4	WWP2	16	69964089	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10	55948200	69964089	20390664	49	4414											
CCDC144B	284047	hgsc.bcm.edu;ucsc.edu	37	chr17	18486814	18486815	+	Frame_Shift_Ins	INS	-	-	T																															tatcggcatttcttttctccINScattttcttgttttaaggca																								rs71208410		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	18486815	-	T	18486814	7	5	76	1	0	1	1	0	0	0	0	0	2778	623	22	0	52	0	CCDC144B	17	18486814	Frame_Shift_Ins	INS	-	TCGA-B0-4814-01A-01D-1361-10		18486814	62708396	50	4415											
FAM18B	0	hgsc.bcm.edu	37	chr17	18694277	18694277	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catcgtctatcttctctgtgGgttgctcagcagcagcttta	6	15	9	11	1	4	0	1	0	3	0	6	0	4	0	0	1	4	5	0	1	2	5	rs61075345	bycluster;by1000genomes	TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	18694277	G	A	18694277	3	1	76	1	0	0	0	0	1	0	0	0	5519	1232	43	2	174	2	FAM18B	17	18694277	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10	207463	18694277	62500933	51	4416											
EFCAB3	146779	hgsc.bcm.edu;ucsc.edu	37	chr17	60484560	60484560	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattttttccataaaagagActggaaaacacaggtgagat	16	12	8	5	0	0	2	0	1	0	2	1	5	1	3	1	2	1	0	1	2	5	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	60484560	A	G	60484560	3	3	76	1	0	0	0	0	1	0	0	0	4935	275	10	3	1048	3	EFCAB3	17	60484560	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10	41790283	60484560	20710650	52	4417											
SDK2	54549	hgsc.bcm.edu	37	chr17	71361527	71361527	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttgaccgagctgggagcGctgggggctgcgggagacag	8	5	19	9	3	0	2	0	1	0	1	0	5	0	3	1	4	4	3	1	4	1	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	71361527	G	T	71361527	3	4	76	1	0	0	0	0	1	0	0	0	13971	1078	38	4	1375	4	SDK2	17	71361527	Missense_Mutation	SNP	G	TCGA-B0-4814-01A-01D-1361-10	10876967	71361527	9833683	53	4418											
TTYH2	94015	hgsc.bcm.edu;ucsc.edu	37	chr17	72256287	72256287	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtactctcccagcatgagagCcacctacctgtctgtggcgg	7	9	11	14	1	2	1	0	1	2	1	3	2	2	1	4	2	4	2	4	2	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	72256287	C	T	72256287	3	4	76	1	0	0	0	0	1	0	0	0	16739	739	26	2	1598	2	TTYH2	17	72256287	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10	894760	72256287	8938923	54	4419											
CELF4	56853	hgsc.bcm.edu	37	chr18	35145518	35145518	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccgttcatgtgcccggcActgcccgggctgctgccgag	5	8	13	15	4	1	0	1	0	0	0	2	1	2	0	4	2	4	4	4	2	1	1	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	35145518	A	T	35145518	3	4	76	1	0	0	0	0	1	0	0	0	3218	156	6	5	1421	5	CELF4	18	35145518	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10		35145518	42931730	55	4420											
DCC	1630	hgsc.bcm.edu;ucsc.edu	37	chr18	50918089	50918089	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccacctcggtcccagatctCtccacccccatgctcccacc	6	7	4	24	1	1	1	0	0	1	1	6	1	4	1	8	1	1	1	8	1	0	0	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	50918089	C	G	50918089	2	3	76	1	0	0	0	0	0	0	0	1	4282	900	32	4		4	DCC	18	50918089	Silent	SNP	C	TCGA-B0-4814-01A-01D-1361-10	15772571	50918089	27159159	56	4421											
RANBP3	8498	hgsc.bcm.edu	37	chr19	5923257	5923257	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgacttccactttttccAacaaacacttccgcgctgtt	9	14	5	13	2	0	2	0	2	0	0	3	2	3	2	3	0	2	2	3	0	2	5	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	5923257	A	C	5923257	3	2	76	1	0	0	0	0	1	0	0	0	13031	131	5	5	566	5	RANBP3	19	5923257	Missense_Mutation	SNP	A	TCGA-B0-4814-01A-01D-1361-10		5923257	53205726	57	4422											
ILVBL	10994	hgsc.bcm.edu	37	chr19	15228699	15228699	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaggggctcaccctgcacAgcctcctggggcttccagaa	8	8	11	14	0	1	1	1	0	0	1	3	1	3	1	4	4	2	3	4	4	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	15228699	A	T	15228699	2	4	76	1	0	0	0	0	0	0	0	1	7715	175	7	5		5	ILVBL	19	15228699	Silent	SNP	A	TCGA-B0-4814-01A-01D-1361-10	9305442	15228699	43900284	58	4423											
ZNF43	7594	hgsc.bcm.edu	37	chr19	21992281	21992281	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgttgagctagatgtggAagcatgcaaaatgatttgcc	12	13	11	5	0	0	3	0	2	0	1	0	4	0	4	1	1	4	4	1	1	5	4	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	21992281	A	C	21992281	2	2	76	1	0	0	0	0	0	0	0	1	17902	233	9	5		5	ZNF43	19	21992281	Silent	SNP	A	TCGA-B0-4814-01A-01D-1361-10	6763582	21992281	37136702	59	4424											
CCDC114	93233	hgsc.bcm.edu	37	chr19	48809521	48809521	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagtctctacctgacggcGtaggcagaggtggaggagag	9	6	17	9	3	1	3	0	1	1	2	2	5	1	4	1	5	1	3	1	5	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		A	48809521	G	A	48809521	2	1	76	1	0	0	0	0	0	0	0	1	2751	1140	40	1		1	CCDC114	19	48809521	Silent	SNP	G	TCGA-B0-4814-01A-01D-1361-10	26817240	48809521	10319462	60	4425											
ZNF304	57343	hgsc.bcm.edu	37	chr19	57867886	57867886	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggcaacaccaaggagacTatgatggacagatgcttttc	13	9	10	9	0	1	3	1	1	0	2	2	5	1	4	1	3	2	2	1	3	3	3	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	57867886	T	C	57867886	3	2	76	1	0	0	0	0	1	0	0	0	17832	1522	53	3	659	3	ZNF304	19	57867886	Missense_Mutation	SNP	T	TCGA-B0-4814-01A-01D-1361-10	9058365	57867886	1261097	61	4426											
PIGT	51604	hgsc.bcm.edu	37	chr20	44054403	44054403	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcgaggagccccgcacAggtggcctggccaagcggct	8	4	14	15	3	0	0	0	0	0	0	1	2	0	1	4	5	2	2	4	5	1	0	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	44054403	A	C	44054403	2	2	76	1	0	0	0	0	0	0	0	1	11899	175	7	5		5	PIGT	20	44054403	Silent	SNP	A	TCGA-B0-4814-01A-01D-1361-10		44054403	18971117	62	4427											
DSCAM	1826	hgsc.bcm.edu	37	chr21	41516473	41516474	+	Frame_Shift_Ins	INS	-	-	T																															aaggccccgtgccggcccggINSttacaggcctgcaccaccag																								novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		T	41516474	-	T	41516473	7	5	76	1	0	1	1	0	0	0	0	0	4768	1252	44	0	2902	0	DSCAM	21	41516473	Frame_Shift_Ins	INS	-	TCGA-B0-4814-01A-01D-1361-10		41516473	6613422	63	4428											
AIFM3	150209	hgsc.bcm.edu;ucsc.edu	37	chr22	21331182	21331182	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagaacaaccgggtgaagttCtacatgcagacggaggtgtc	12	7	14	8	2	1	3	0	1	1	2	2	5	1	4	1	3	4	2	1	3	4	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	21331182	C	G	21331182	3	3	76	1	0	0	0	0	1	0	0	0	428	912	32	4	1237	4	AIFM3	22	21331182	Missense_Mutation	SNP	C	TCGA-B0-4814-01A-01D-1361-10		21331182	29973384	64	4429											
EWSR1	2130	hgsc.bcm.edu	37	chr22	29694787	29694787	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccgtggaggagatagAggaggcttccctccaagagg	10	5	18	8	1	0	3	0	0	0	3	2	7	2	6	3	7	0	1	3	7	2	2	novel		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		G	29694787	A	G	29694787	2	3	76	1	0	0	0	0	0	0	0	1	5296	301	11	3		3	EWSR1	22	29694787	Silent	SNP	A	TCGA-B0-4814-01A-01D-1361-10	8363605	29694787	21609779	65	4430											
MTMR3	8897	hgsc.bcm.edu	37	chr22	30408372	30408372	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagttggctatcagctctTgaaagcacaaaatggctcca	13	11	8	9	0	2	1	1	1	1	0	3	1	3	1	1	2	2	5	1	2	6	5	rs147773147		TCGA-B0-4814-01A-01D-1361-10	TCGA-B0-4814-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	434bfcd7-ba14-4ace-8e0d-e78592f0af0d	c063ccb3-5795-44c6-b655-45560b9cd982		C	30408372	T	C	30408372	2	2	76	1	0	0	0	0	0	0	0	1	9945	1799	63	3		3	MTMR3	22	30408372	Silent	SNP	T	TCGA-B0-4814-01A-01D-1361-10	713585	30408372	20896194	66	4431											
EXOSC10	5394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11128077	11128077	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccacatacctgtctgactttCcagttggaaaggacatgctt	10	12	8	11	0	1	1	0	1	1	0	2	3	2	3	3	2	2	2	3	2	2	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	11128077	C	G	11128077	3	3	77	1	0	0	0	0	1	0	0	0	5314	855	30	4	50	4	EXOSC10	1	11128077	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10		11128077	238122544	1	4432											
FAM54B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26153147	26153147	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacacctggaaacccagccCtctgattgtcatgcagcgca	10	7	9	15	1	2	1	1	1	1	0	2	2	2	2	3	1	4	3	3	1	1	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	26153147	C	A	26153147	3	1	77	1	0	0	0	0	1	0	0	0	5583	681	24	4	295	4	FAM54B	1	26153147	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	15025070	26153147	223097474	2	4433											
TMEM59	9528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54506474	54506474	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactttctccatcttcaagaAaattcctgtgcgcttgtgaa	10	14	6	11	1	3	2	1	1	2	1	5	2	4	2	2	0	1	1	2	0	4	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	54506474	A	C	54506474	3	2	77	1	0	0	0	0	1	0	0	0	16184	14	1	5	321	5	TMEM59	1	54506474	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	28353327	54506474	194744147	3	4434											
JUN	3725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	59247909	59247909	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcactttttcctccagccgGgcgattctctccagcttcct	4	15	6	16	2	2	0	1	0	1	0	7	1	6	0	5	1	2	1	5	1	0	5	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	59247909	G	C	59247909	2	2	77	1	0	0	0	0	0	0	0	1	7969	1219	43	4		4	JUN	1	59247909	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10	4741435	59247909	190002712	4	4435											
CCDC18	343099	hgsc.bcm.edu;ucsc.edu	37	chr1	93657661	93657661	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagctcaagataaagttttGaggtaaatatactttttata	15	16	6	4	0	2	2	2	1	0	1	2	2	2	2	0	1	2	3	0	1	9	10	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	93657661	G	C	93657661	3	2	77	1	0	0	0	0	1	0	0	0	2794	1281	45	4	939	4	CCDC18	1	93657661	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	34409752	93657661	155592960	5	4436											
ARHGEF2	9181	broad.mit.edu	37	chr1	155932492	155932492	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtcttacacatctgctcCgcactaggacctgagaacta	11	10	8	12	1	2	1	0	1	2	1	3	3	3	2	2	2	3	2	2	2	5	4	rs75834511	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	155932492	G	G	155932492	2	3	77	1	0	0	0	0	0	0	0	1	903	639	23	4		4	ARHGEF2	1	155932492	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	62274831	155932492	93318129	6	4437											
OR10J5	127385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159505240	159505240	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtggtatcaatgcaagaAagtttcatgactgggtaaat	15	12	10	4	0	2	2	2	1	0	1	2	2	2	2	0	2	1	4	0	2	7	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	159505240	A	C	159505240	2	2	77	1	0	0	0	0	0	0	0	1	10912	1	1	5		5	OR10J5	1	159505240	Silent	SNP	A	TCGA-B0-4815-01A-01D-1501-10	3572748	159505240	89745381	7	4438											
SLC9A11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	173526501	173526501	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtggtacttccacttttCgttcagcgagattataaaca	10	16	7	8	2	1	1	1	0	0	1	3	2	2	1	1	1	3	2	1	1	4	8	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	173526501	C	T	173526501	3	4	77	1	0	0	0	0	1	0	0	0	14713	884	31	1	2257	1	SLC9A11	1	173526501	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	14021261	173526501	75724120	8	4439											
CDC73	79577	broad.mit.edu;ucsc.edu	37	chr1	193181526	193181526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgtctttataggatctcGaacacccattatcataattc	11	17	4	9	1	3	0	1	0	2	0	5	2	3	1	1	1	1	0	1	1	5	8	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	193181526	A	A	193181526	3	1	77	1	0	0	0	0	1	0	0	0	3085	1058	37	1	1123	1	CDC73	1	193181526	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	19655025	193181526	56069095	9	4440											
RBBP5	5929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205084987	205084987	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatactatactcttaccTctggatagttctgcccaaag	12	12	5	12	0	3	0	0	0	3	0	3	1	3	1	2	1	4	1	2	1	7	6	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	205084987	T	C	205084987	3	2	77	1	0	0	0	0	1	0	0	0	13104	1565	54	3	1624	3	RBBP5	1	205084987	Missense_Mutation	SNP	T	TCGA-B0-4815-01A-01D-1501-10	11903461	205084987	44165634	10	4441											
C4BPA	722	broad.mit.edu;ucsc.edu	37	chr1	207304992	207304992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggactgtgttaaggtacCgctgtcatcctggctacaaa	9	12	11	9	1	1	0	1	0	0	0	2	1	2	1	2	3	2	4	2	3	4	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	207304992	T	T	207304992	3	4	77	1	0	0	0	0	1	0	0	0	2249	652	23	1	1017	1	C4BPA	1	207304992	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	2220005	207304992	41945629	11	4442											
SLC35F3	148641	broad.mit.edu;ucsc.edu	37	chr1	234458836	234458836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcggcctgggttttctcctCctgctcctgccagaggagtg	4	12	12	13	1	1	1	0	0	1	1	5	2	3	2	5	3	2	2	5	3	0	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	234458836	T	T	234458836	2	4	77	1	0	0	0	0	0	0	0	1	14592	842	30	2		2	SLC35F3	1	234458836	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	27153844	234458836	14791785	12	4443											
C2orf89	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	85066361	85066361	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctctcattccgcttgtaGatcagctcccggcgtaagta	8	13	8	12	3	3	1	2	0	1	1	6	1	5	1	2	1	1	5	2	1	3	6	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	85066361	G	T	85066361	2	4	77	1	0	0	0	0	0	0	0	1	2203	932	33	4		4	C2orf89	2	85066361	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10		85066361	158133012	13	4444											
PAX8	7849	broad.mit.edu	37	chr2	113999705	113999705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggagttacagctgagctggGgactgcagtgggggagaggg	8	6	22	5	0	0	2	0	1	0	1	0	5	0	4	0	6	4	4	0	6	1	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	113999705	A	A	113999705	3	1	77	1	0	0	0	0	1	0	0	0	11485	1232	43	2	774	2	PAX8	2	113999705	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	28933344	113999705	129199668	14	4445											
POTEF	728378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	130832626	130832626	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttagggttcagggtggcctCggtcagcaggacggggtgct	5	9	18	9	2	2	0	2	0	0	0	3	1	2	1	1	7	2	3	1	7	1	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	130832626	C	T	130832626	3	4	77	1	0	0	0	0	1	0	0	0	12265	893	31	1	812	1	POTEF	2	130832626	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	16832921	130832626	112366747	15	4446											
BAZ2B	29994	broad.mit.edu;ucsc.edu	37	chr2	160206389	160206389	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcatcacagggtgttcGtggcaaaagactaaaccatt	13	10	10	8	1	2	1	2	0	0	1	3	1	2	1	1	2	1	2	1	2	4	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	160206389	C	C	160206389	3	2	77	1	0	0	0	0	1	0	0	0	1332	1153	40	4	1853	4	BAZ2B	2	160206389	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	29373763	160206389	82992984	16	4447											
SLC19A3	80704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228563604	228563604	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaccagtagaaaagacgtTttgaggagtagcactccttc	13	9	11	8	1	0	4	0	1	0	3	2	6	1	5	2	1	1	4	2	1	4	5	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	228563604	T	G	228563604	3	3	77	1	0	0	0	0	1	0	0	0	14432	1841	64	5	679	5	SLC19A3	2	228563604	Missense_Mutation	SNP	T	TCGA-B0-4815-01A-01D-1501-10	68357215	228563604	14635769	17	4448											
IL17RC	84818	hgsc.bcm.edu;ucsc.edu	37	chr3	9965582	9965582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccctgccctggctcaacGtgtcagcagatggtgacaac	9	7	11	14	1	2	2	2	1	0	1	2	2	2	2	2	2	5	2	2	2	2	0	rs75692599	bycluster;byfrequency;by1000genomes	TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	9965582	G	A	9965582	3	1	77	1	0	0	0	0	1	0	0	0	7641	1145	40	1	883	1	IL17RC	3	9965582	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		9965582	188056848	18	4449											
FGD5	152273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	14862883	14862883	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtccatctccttccccagcGctgacacttcagactatgag	8	10	8	15	1	2	3	1	2	1	1	5	3	4	3	4	1	1	1	4	1	1	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	14862883	G	A	14862883	3	1	77	1	0	0	0	0	1	0	0	0	5836	1087	38	1	2307	1	FGD5	3	14862883	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	4897301	14862883	183159547	19	4450											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52668807	52668807	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtgatgctttctgcttctGactctccctcttcatagcgt	6	16	7	12	1	5	2	1	2	4	0	6	2	5	2	1	0	3	2	1	0	2	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	52668807	G	C	52668807	4	2	77	1	0	0	0	0	0	1	0	0	11491	1294	45	4	3868	4	PBRM1	3	52668807	Nonsense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	37805924	52668807	145353623	20	4451											
MFSD1	64747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	158545109	158545109	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagacaaagggaagaaatAaaattttcccatactgagta	19	8	8	6	0	0	3	0	1	0	2	1	4	1	4	1	1	1	2	1	1	8	5	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	158545109	A	T	158545109	2	4	77	1	0	0	0	0	0	0	0	1	9527	352	13	5		5	MFSD1	3	158545109	Silent	SNP	A	TCGA-B0-4815-01A-01D-1501-10	105876302	158545109	39477321	21	4452											
CCDC149	91050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	24810062	24810062	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgggatccctttgccGtcttccggtgtggaagcttt	3	14	11	13	2	2	0	0	0	2	0	4	2	4	2	4	3	2	1	4	3	1	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	24810062	G	A	24810062	2	1	77	1	0	0	0	0	0	0	0	1	2783	1136	40	1		1	CCDC149	4	24810062	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10		24810062	166344214	22	4453											
LGI2	55203	broad.mit.edu;ucsc.edu	37	chr4	25032128	25032128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccactcacagggagctgAtgtcgcccggcacgatcctg	7	7	12	15	3	1	1	1	1	0	0	4	3	3	2	3	2	1	2	3	2	0	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	25032128	G	G	25032128	3	3	77	1	0	0	0	0	1	0	0	0	8752	333	12	3	1481	3	LGI2	4	25032128	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	222066	25032128	166122148	23	4454											
UGT2A3	79799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	69817431	69817431	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaatccacagccaacacaGaagagctgcaggagcagaaa	18	2	10	11	0	0	4	0	0	0	4	1	5	1	5	2	1	5	3	2	1	4	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	69817431	G	A	69817431	2	1	77	1	0	0	0	0	0	0	0	1	16954	933	33	2		2	UGT2A3	4	69817431	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10	44785303	69817431	121336845	24	4455											
SLC9A3	6550	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	482713	482713	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggtggtgctgacgaacaGgttcttctccttgaccttgt	6	14	12	9	1	2	2	0	2	2	0	3	4	2	2	2	3	2	2	2	3	1	4	rs150200197		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	482713	G	A	482713	2	1	77	1	0	0	0	0	0	0	0	1	14715	991	35	2		2	SLC9A3	5	482713	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10		482713	180432547	25	4456											
MED10	84246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	6372701	6372701	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaaagttcttgaatcaacAggcttttaaatttctacaaa	16	14	5	6	0	3	2	1	1	2	1	3	2	3	2	0	1	2	2	0	1	8	7	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	6372701	A	T	6372701	3	4	77	1	0	0	0	0	1	0	0	0	9426	188	7	5	88	5	MED10	5	6372701	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	5889988	6372701	174542559	26	4457											
CDC20B	166979	broad.mit.edu;hgsc.bcm.edu	37	chr5	54415634	54415634	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacccatttgcttaccaaaaAacccacctgacctggacaca	14	7	4	16	0	0	1	0	1	0	0	0	2	0	2	5	1	3	1	5	1	4	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	54415634	A	C	54415634	3	2	77	1	0	0	0	0	1	0	0	0	3060	14	1	5	113	5	CDC20B	5	54415634	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	48042933	54415634	126499626	27	4458											
IQGAP2	10788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	75932958	75932958	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcctgggtcacacctgaatCatgcttgtataaagaatcat	12	13	7	9	0	3	2	3	1	0	1	4	2	4	2	2	1	1	2	2	1	5	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	75932958	C	T	75932958	3	4	77	1	0	0	0	0	1	0	0	0	7815	838	29	2	1942	2	IQGAP2	5	75932958	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	21517324	75932958	104982302	28	4459											
PKD2L2	27039	broad.mit.edu;hgsc.bcm.edu	37	chr5	137257415	137257415	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacccatttacttcatcacTttcatcttttttgtgttctt	6	21	4	10	0	5	0	3	0	2	0	5	1	5	1	1	1	1	1	1	1	1	9	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	137257415	T	G	137257415	2	3	77	1	0	0	0	0	0	0	0	1	11968	1596	56	5		5	PKD2L2	5	137257415	Silent	SNP	T	TCGA-B0-4815-01A-01D-1501-10	61324457	137257415	43657845	29	4460											
GABRA1	2554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	161277823	161277823	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccagcccgcgatgaggAaaagtccaggtctgtctgac	9	8	12	12	2	2	2	0	2	2	0	4	4	4	3	3	2	2	1	3	2	2	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	161277823	A	T	161277823	4	4	77	1	0	0	0	0	0	1	0	0	6160	247	9	5	9	5	GABRA1	5	161277823	Nonsense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	24020408	161277823	19637437	30	4461											
GTPBP2	54676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43592732	43592732	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcctgccaggtcgatgAaggtgatcatcttggagctg	7	10	16	8	1	2	2	1	2	1	0	3	4	2	3	2	5	2	1	2	5	1	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	43592732	A	T	43592732	3	4	77	1	0	0	0	0	1	0	0	0	6880	246	9	5	1063	5	GTPBP2	6	43592732	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10		43592732	127522335	31	4462											
GSTA2	2939	broad.mit.edu;hgsc.bcm.edu	37	chr6	52622679	52622679	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctactccagctgcagccaGgagccaccggatggactcca	9	6	10	16	1	1	0	0	0	1	0	3	3	3	3	5	3	5	2	5	3	1	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	52622679	G	A	52622679	2	1	77	1	0	0	0	0	0	0	0	1	6831	991	35	2		2	GSTA2	6	52622679	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10	9029947	52622679	118492388	32	4463											
FIG4	9896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	110053850	110053850	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttttaggtatctacgaAtatttcaaaatgtggaccta	12	18	6	5	1	2	0	1	0	1	0	2	2	2	1	1	2	1	1	1	2	8	9	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	110053850	A	G	110053850	3	3	77	1	0	0	0	0	1	0	0	0	5888	101	4	3	475	3	FIG4	6	110053850	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	57431171	110053850	61061217	33	4464											
ROS1	6098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117665413	117665413	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtctgaagctagagacAgaaacgctttatctaaaata	16	10	8	7	1	2	3	0	1	2	2	2	4	2	3	0	0	2	2	0	0	7	5	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	117665413	A	T	117665413	3	4	77	1	0	0	0	0	1	0	0	0	13533	188	7	5	2777	5	ROS1	6	117665413	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	7611563	117665413	53449654	34	4465											
TAAR2	9287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132938953	132938953	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccactgagcaaagatgaaaaAtggatgttatgctaagcatc	16	9	9	7	0	0	3	0	2	0	1	1	4	0	4	1	1	3	4	1	1	5	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	132938953	A	G	132938953	3	3	77	1	0	0	0	0	1	0	0	0	15489	101	4	3	667	3	TAAR2	6	132938953	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	15273540	132938953	38176114	35	4466											
MAP3K5	4217	broad.mit.edu;ucsc.edu	37	chr6	136932484	136932484	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttccgaagtcagagatCttgagaacaccactgtaggt	12	10	11	8	1	2	2	1	1	1	2	3	6	3	2	2	1	1	2	2	1	3	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	136932484	A	A	136932484	3	1	77	1	0	0	0	0	1	0	0	0	9253	912	32	4	1719	4	MAP3K5	6	136932484	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	3993531	136932484	34182583	36	4467											
MICALL2	79778	broad.mit.edu;ucsc.edu	37	chr7	1478560	1478560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggggctccggccgaaGccagttgtcacaaacgtcga	9	5	14	13	4	1	0	1	0	0	0	3	2	2	0	4	3	2	2	4	3	2	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	1478560	A	A	1478560	3	1	77	1	0	0	0	0	1	0	0	0	9574	971	34	2	708	2	MICALL2	7	1478560	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		1478560	157660103	37	4468											
GTF2IRD1	9569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	73973274	73973274	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgtgatcatcgaggggCtgcccccaggaatcccgttc	6	8	12	15	3	1	1	1	1	0	0	5	3	3	2	4	3	1	3	4	3	1	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	73973274	C	A	73973274	3	1	77	1	0	0	0	0	1	0	0	0	6868	796	28	4	2314	4	GTF2IRD1	7	73973274	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	72494714	73973274	85165389	38	4469											
RHBDD2	57414	broad.mit.edu;ucsc.edu	37	chr7	75517559	75517559	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgggcacctccctgggCatccagccccccacgcctgt	4	7	10	20	2	1	0	0	0	1	0	3	0	3	0	7	2	2	2	7	2	0	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	75517559	T	T	75517559	2	4	77	1	0	0	0	0	0	0	0	1	13319	697	25	2		2	RHBDD2	7	75517559	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	1544285	75517559	83621104	39	4470											
KRIT1	889	broad.mit.edu;ucsc.edu	37	chr7	91855963	91855963	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggattgcactttcctttctcTaacaatatgcgagtggcctc	8	14	8	11	1	1	0	0	0	1	0	4	2	2	1	2	2	3	1	2	2	3	5	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	91855963	C	C	91855963	2	2	77	1	0	0	0	0	0	0	0	1	8445	1519	53	3		3	KRIT1	7	91855963	Silent	SNP	T	TCGA-B0-4815-01A-01D-1501-10	16338404	91855963	67282700	40	4471											
SLC26A5	375611	hgsc.bcm.edu;ucsc.edu	37	chr7	103018052	103018052	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggatgcttacccctgcCagagttttcactccaacaga	12	9	8	12	0	1	3	1	0	0	3	2	4	2	4	4	1	4	2	4	1	3	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	103018052	C	A	103018052	2	1	77	1	0	0	0	0	0	0	0	1	14522	581	21	4		4	SLC26A5	7	103018052	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	11162089	103018052	56120611	41	4472											
MGAM	8972	broad.mit.edu	37	chr7	141762388	141762388	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatatcgagcttatgtggcCttcccagactttttccgtaa	8	15	7	11	2	0	1	0	0	0	1	3	2	2	1	3	1	1	2	3	1	4	7	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	141762388	T	T	141762388	2	4	77	1	0	0	0	0	0	0	0	1	9541	668	24	2		2	MGAM	7	141762388	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	38744336	141762388	17376275	42	4473											
NDRG1	10397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	134270635	134270635	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagttaggatgtaggcgcCtgctcctgttcccatgccaa	7	11	11	12	2	0	0	0	0	0	0	3	2	2	1	4	2	2	4	4	2	3	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	134270635	C	T	134270635	3	4	77	1	0	0	0	0	1	0	0	0	10251	681	24	2	800	2	NDRG1	8	134270635	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10		134270635	12093387	43	4474											
KIAA0368	23392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114184459	114184459	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcacaagcgctatatccttAgtgaataaatgtggcatccg	12	11	9	9	2	0	1	0	1	0	0	2	1	2	1	2	1	2	3	2	1	7	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	114184459	A	T	114184459	2	4	77	1	0	0	0	0	0	0	0	1	8171	407	15	5		5	KIAA0368	9	114184459	Silent	SNP	A	TCGA-B0-4815-01A-01D-1501-10		114184459	27028972	44	4475											
ENTPD2	954	broad.mit.edu	37	chr9	139944970	139944970	+	Frame_Shift_Del	DEL	G	-	-																															gtggaaaagcccctcggccaGcaggggtggaagccgtgggt																								novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		-	139944970	-	-	139944970	7	5	77	1	0	1	0	1	0	0	0	0	5139	963	34	0	708	0	ENTPD2	9	139944970	Frame_Shift_Del	DEL	G	TCGA-B0-4815-01A-01D-1501-10	25760511	139944970	1268461	45	4476											
C10orf76	79591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103789421	103789421	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacagctccgccttgtcaaAgcccatcagcatgttgataa	11	9	8	13	1	2	1	2	1	0	0	3	1	3	1	3	0	3	4	3	0	2	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	103789421	A	G	103789421	3	3	77	1	0	0	0	0	1	0	0	0	1616	72	3	3	1769	3	C10orf76	10	103789421	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10		103789421	31745326	46	4477											
NRXN2	9379	broad.mit.edu;ucsc.edu	37	chr11	64427892	64427892	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtggtggccatcatgagTccgtaggcccgctgggacat	8	8	15	10	2	1	1	1	1	0	0	2	3	2	2	3	4	0	2	3	4	2	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	64427892	G	G	64427892	2	3	77	1	0	0	0	0	0	0	0	1	10666	1654	58	5		5	NRXN2	11	64427892	Silent	SNP	T	TCGA-B0-4815-01A-01D-1501-10		64427892	70578624	47	4478											
B3GNT6	192134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	76750646	76750646	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccaagactctggcctgcctCctggtgggcgtgagtttctt	4	12	13	12	1	2	2	0	1	2	1	3	2	3	2	4	3	1	1	4	3	1	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	76750646	C	T	76750646	2	4	77	1	0	0	0	0	0	0	0	1	1261	842	30	2		2	B3GNT6	11	76750646	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	12322754	76750646	58255870	48	4479											
CD3E	916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118185183	118185183	+	Missense_Mutation	SNP	C	C	A																															gacaaaacaaggagaggccaCcacctgttcccaacccagac																								novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	118185183	C	A	118185183	3	1	77	1	0	0	0	0	1	0	0	0	3011	507	18	4	567	4	CD3E	11	118185183	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	41434537	118185183	16821333	49	4480	53	2									
CD3E	916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118185184	118185184	+	Missense_Mutation	SNP	C	C	T																															acaaaacaaggagaggccacCacctgttcccaacccagact																								novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	118185184	C	T	118185184	3	4	77	1	0	0	0	0	1	0	0	0	3011	594	21	2	568	2	CD3E	11	118185184	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	1	118185184	16821332	50	4481	53	2									
MCAM	4162	broad.mit.edu	37	chr11	119187759	119187761	+	In_Frame_Del	DEL	CAG	-	-																															actcacccgcgacgcgaggaCagcagcagcaggcggcgagc																								novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		-	119187761	-	-	119187759	7	5	77	1	0	1	0	1	0	0	0	0	9368	478	17	0	1951	0	MCAM	11	119187759	In_Frame_Del	DEL	CAG	TCGA-B0-4815-01A-01D-1501-10	1002575	119187759	15818757	51	4482											
TMEM117	84216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	44537365	44537365	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actatatgggcatccgaaatGaaagtttcatgaaattagct	15	12	8	6	1	1	2	1	2	0	0	2	3	2	2	1	1	1	3	1	1	6	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	44537365	G	A	44537365	3	1	77	1	0	0	0	0	1	0	0	0	16030	1291	45	2	458	2	TMEM117	12	44537365	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		44537365	89314530	52	4483											
KRT79	338785	broad.mit.edu;ucsc.edu	37	chr12	53216799	53216799	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgggcaggaggggccaccaCctgctctcctcgctctccag	5	7	12	17	2	2	0	0	0	2	0	6	1	2	1	5	4	1	3	5	4	0	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	53216799	T	T	53216799	5	4	77	1	0	0	0	0	0	0	1	0	8492	521	18	2	251	2	KRT79	12	53216799	Splice_Site	SNP	C	TCGA-B0-4815-01A-01D-1501-10	8679434	53216799	80635096	53	4484											
ZNF740	283337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53579212	53579212	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcccggagccgcaaagaTgatgacagcttgtctgaggc	11	7	13	10	2	1	4	0	3	1	1	2	5	2	5	2	2	2	2	2	2	2	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	53579212	T	G	53579212	3	3	77	1	0	0	0	0	1	0	0	0	18127	1461	51	5	211	5	ZNF740	12	53579212	Missense_Mutation	SNP	T	TCGA-B0-4815-01A-01D-1501-10	362413	53579212	80272683	54	4485											
P2RX4	5025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121655012	121655012	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacgaccaaggtcaagggCgtggctgtgaccaacacttc	10	8	12	11	2	1	1	1	1	0	0	2	2	1	1	2	3	2	2	2	3	4	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	121655012	C	T	121655012	2	4	77	1	0	0	0	0	0	0	0	1	11342	755	27	1		1	P2RX4	12	121655012	Silent	SNP	C	TCGA-B0-4815-01A-01D-1501-10	68075800	121655012	12196883	55	4486											
PSMB11	122706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23511574	23511574	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatccatggccccagactggCccacggcaccaccactctgg	8	5	10	18	1	1	1	0	0	1	1	2	2	2	1	6	4	0	1	6	4	0	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	23511574	C	A	23511574	3	1	77	1	0	0	0	0	1	0	0	0	12678	739	26	4	142	4	PSMB11	14	23511574	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10		23511574	83837966	56	4487											
MAP4K5	11183	hgsc.bcm.edu;ucsc.edu	37	chr14	50904202	50904202	+	Frame_Shift_Del	DEL	C	C	-																															ccatttactcacctatgcaaCatttgtggcagccttttgta																								novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		-	50904202	C	-	50904202	7	5	77	1	0	1	0	1	0	0	0	0	9263	478	17	0	698	0	MAP4K5	14	50904202	Frame_Shift_Del	DEL	C	TCGA-B0-4815-01A-01D-1501-10	27392628	50904202	56445338	57	4488											
SPRED1	161742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	38643311	38643311	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatacgtcgctatgcagacTacagacatcctgacatgtgg	12	10	9	10	2	0	3	0	1	0	2	2	3	1	3	1	1	3	2	1	1	4	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	38643311	T	C	38643311	3	2	77	1	0	0	0	0	1	0	0	0	15093	1522	53	3	807	3	SPRED1	15	38643311	Missense_Mutation	SNP	T	TCGA-B0-4815-01A-01D-1501-10		38643311	63888081	58	4489											
AAGAB	79719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	67524205	67524205	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcagggcttggacaattCgctttactcctgtagattct	8	15	8	10	1	2	1	1	0	1	1	4	2	3	2	1	2	1	3	1	2	3	7	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	67524205	C	T	67524205	3	4	77	1	0	0	0	0	1	0	0	0	15	884	31	1	489	1	AAGAB	15	67524205	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	28880894	67524205	35007187	59	4490											
PGPEP1L	145814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	99511748	99511748	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccatggttgagttttcttCgaactgggctctgtgcttgg	5	15	13	8	1	2	1	0	1	2	0	3	3	2	1	1	3	2	4	1	3	1	5	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	99511748	C	T	99511748	3	4	77	1	0	0	0	0	1	0	0	0	11804	893	31	1	44	1	PGPEP1L	15	99511748	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	31987543	99511748	3019644	60	4491											
ZNF629	23361	hgsc.bcm.edu;ucsc.edu	37	chr16	30794783	30794783	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcactcggggcacttgtagGgtttctcgcctgtgtgggtg	3	12	16	10	3	1	0	0	0	1	0	3	0	1	0	1	4	0	4	1	4	1	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	30794783	G	C	30794783	3	2	77	1	0	0	0	0	1	0	0	0	18052	1232	43	4	1747	4	ZNF629	16	30794783	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		30794783	59559970	61	4492											
PABPN1L	390748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88931430	88931430	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccaggccccacactgacCccttggggtgtccagagaac	9	5	10	17	0	0	2	0	1	0	1	1	3	1	2	7	3	1	0	7	3	1	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	88931430	C	A	88931430	3	1	77	1	0	0	0	0	1	0	0	0	11369	637	22	4	318	4	PABPN1L	16	88931430	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	58136647	88931430	1423323	62	4493											
WDR81	124997	broad.mit.edu;hgsc.bcm.edu	37	chr17	1633695	1633695	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagcctgcaagatggtccGctggctgtctgccaagctcg	7	9	12	13	2	1	1	0	0	1	1	3	1	2	1	3	2	5	4	3	2	3	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	1633695	G	T	1633695	3	4	77	1	0	0	0	0	1	0	0	0	17329	1087	38	4	3757	4	WDR81	17	1633695	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		1633695	79561515	63	4494											
FBXO39	162517	broad.mit.edu;ucsc.edu	37	chr17	6684202	6684202	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcccaccttccggcacActctgcaggtaggtaggact	7	9	10	15	1	1	0	0	0	1	0	3	1	3	1	4	4	2	4	4	4	2	3	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	6684202	C	C	6684202	3	2	77	1	0	0	0	0	1	0	0	0	5747	159	6	5	1017	5	FBXO39	17	6684202	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	5050507	6684202	74511008	64	4495											
ACACA	31	broad.mit.edu;ucsc.edu	37	chr17	35487038	35487038	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagtgcaggacagtgaaaAccccttcaaagtcatcacac	14	6	8	13	0	3	1	3	1	0	0	3	2	3	2	3	1	2	1	3	1	3	1	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	35487038	G	G	35487038	3	3	77	1	0	0	0	0	1	0	0	0	106	43	2	3	1409	3	ACACA	17	35487038	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	28802836	35487038	45708172	65	4496											
ATP8B3	148229	broad.mit.edu	37	chr19	1792020	1792020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgcagggcctgtgcccGgttctgcagcaggaggctgg	4	9	17	11	1	1	0	0	0	1	0	1	1	1	1	2	5	4	6	2	5	0	2	rs185225335	by1000genomes	TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	1792020	A	A	1792020	3	1	77	1	0	0	0	0	1	0	0	0	1196	1115	39	1	1806	1	ATP8B3	19	1792020	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		1792020	57336963	66	4497											
ZNF846	162993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9868360	9868360	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgttcgcatgtgcatattaaGatttgtggaacgagcaaatg	12	12	11	6	3	0	1	0	0	0	1	1	3	0	2	0	1	3	4	0	1	4	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	9868360	G	C	9868360	3	2	77	1	0	0	0	0	1	0	0	0	18191	942	33	4	212	4	ZNF846	19	9868360	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10	8076340	9868360	49260623	67	4498											
KEAP1	9817	broad.mit.edu;ucsc.edu	37	chr19	10599946	10599946	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggggctacgaaagtccAcgtctctgtttccacatcgt	8	11	10	12	3	1	0	0	0	1	0	5	1	3	0	2	2	1	2	2	2	2	2	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	10599946	G	G	10599946	3	3	77	1	0	0	0	0	1	0	0	0	8141	159	6	3	252	3	KEAP1	19	10599946	Missense_Mutation	SNP	A	TCGA-B0-4815-01A-01D-1501-10	731586	10599946	48529037	68	4499											
PRKACA	5566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14204026	14204026	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatccccagggcctttaaaCtttggtatgaagggagcttc	9	12	11	9	0	0	1	0	1	0	0	2	2	1	2	3	3	2	3	3	3	5	6	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	14204026	C	G	14204026	3	3	77	1	0	0	0	0	1	0	0	0	12499	564	20	4	105	4	PRKACA	19	14204026	Missense_Mutation	SNP	C	TCGA-B0-4815-01A-01D-1501-10	3604080	14204026	44924957	69	4500											
CHD6	84181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	40126106	40126106	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgaggatccttttcgagcTcttccattgtggcccattta	6	15	9	11	2	1	0	0	0	1	0	4	3	3	1	3	2	2	1	3	2	1	6	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		C	40126106	T	C	40126106	3	2	77	1	0	0	0	0	1	0	0	0	3329	1551	54	3	7257	3	CHD6	20	40126106	Missense_Mutation	SNP	T	TCGA-B0-4815-01A-01D-1501-10		40126106	22899414	70	4501											
C21orf59	56683	hgsc.bcm.edu;ucsc.edu	37	chr21	33979947	33979947	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagttttagtgcatcatttAaaaaagccaaccttagatat	16	13	5	7	0	1	1	1	0	0	1	1	1	1	1	2	0	3	2	2	0	8	6	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		G	33979947	A	G	33979947	1	3	77	0	1	0	0	0	0	0	0	0	2130	377	13	3		3	C21orf59	21	33979947	RNA	SNP	A	TCGA-B0-4815-01A-01D-1501-10		33979947	14149948	71	4502											
SCARF2	91179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	20783904	20783904	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgagcaggacgagcagcGcgcccgcgcccatcacgccc	9	1	13	18	7	1	1	1	0	0	1	1	4	1	2	3	1	3	2	3	1	0	0	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		A	20783904	G	A	20783904	3	1	77	1	0	0	0	0	1	0	0	0	13886	1087	38	1	1285	1	SCARF2	22	20783904	Missense_Mutation	SNP	G	TCGA-B0-4815-01A-01D-1501-10		20783904	30520662	72	4503											
DGKK	139189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50147057	50147057	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaggtaccttcacagatGatggcatctctagataaggc	14	9	10	8	0	2	4	1	1	1	3	3	4	2	4	1	3	1	2	1	3	4	4	novel		TCGA-B0-4815-01A-01D-1501-10	TCGA-B0-4815-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe091054-41d3-44fa-86a2-fad3ae58423f	6a44057f-671c-497d-b694-512161943617		T	50147057	G	T	50147057	2	4	77	1	0	0	0	0	0	0	0	1	4472	1280	45	4		4	DGKK	23	50147057	Silent	SNP	G	TCGA-B0-4815-01A-01D-1501-10		50147057	105123503	73	4504											
MACF1	23499	broad.mit.edu;ucsc.edu	37	chr1	39919424	39919424	+	Missense_Mutation	SNP	G	A	A																															agcgagtggacgttaactcaGcagtagccatgggagaagtc																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	39919424	A	A	39919424	3	1	78	1	0	0	0	0	1	0	0	0	9144	971	34	2	21096	2	MACF1	1	39919424	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10		39919424	209331197	1	4505	54	2									
MACF1	23499	broad.mit.edu;ucsc.edu	37	chr1	39919425	39919425	+	Missense_Mutation	SNP	C	T	T																															gcgagtggacgttaactcagCagtagccatgggagaagtca																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	39919425	T	T	39919425	3	4	78	1	0	0	0	0	1	0	0	0	9144	710	25	2	21097	2	MACF1	1	39919425	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	1	39919425	209331196	2	4506	54	2									
KANK4	163782	broad.mit.edu	37	chr1	62740313	62740313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaagagctggggccgtcCactcccaaaagtgagctcgg	9	7	12	13	2	1	2	1	1	1	1	5	2	3	2	3	3	2	2	3	3	3	0	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	62740313	T	T	62740313	3	4	78	1	0	0	0	0	1	0	0	0	7979	603	21	2	2556	2	KANK4	1	62740313	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	22820888	62740313	186510308	3	4507											
WDR78	79819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67340463	67340463	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacaactgaaccatacataCgttactttctcagcttcttc	12	13	4	12	1	2	2	1	1	2	1	4	2	2	2	1	0	6	2	1	0	5	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	67340463	C	T	67340463	5	4	78	1	0	0	0	0	0	0	1	0	17327	550	19	1	1854	1	WDR78	1	67340463	Splice_Site	SNP	C	TCGA-B0-4816-01A-01D-1501-10	4600150	67340463	181910158	4	4508											
FUBP1	8880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78425928	78425928	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttccccatccctggggaGcatatggggctggaggacca	8	8	13	12	0	0	0	0	0	0	0	2	3	2	3	4	6	1	2	4	6	1	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	78425928	G	C	78425928	3	2	78	1	0	0	0	0	1	0	0	0	6092	971	34	4	437	4	FUBP1	1	78425928	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	11085465	78425928	170824693	5	4509											
LPHN2	23266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	82372717	82372717	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaggtttcagcagagcagCtttaccatttgggctggtga	9	13	12	7	0	1	2	1	1	0	1	1	2	1	2	1	3	4	5	1	3	2	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	82372717	C	A	82372717	3	1	78	1	0	0	0	0	1	0	0	0	8916	797	28	4	95	4	LPHN2	1	82372717	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	3946789	82372717	166877904	6	4510											
TGFBR3	7049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	92184975	92184975	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccattcatcttggccttgCaggtaggatccaacagggtg	8	11	12	10	0	2	0	1	0	1	0	3	1	3	1	3	4	3	2	3	4	2	4	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	92184975	C	A	92184975	3	1	78	1	0	0	0	0	1	0	0	0	15822	710	25	4	1127	4	TGFBR3	1	92184975	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	9812258	92184975	157065646	7	4511											
LRIG2	9860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113633959	113633959	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatttcagtcataatcggTtgtctaactggaacatcagc	11	12	10	8	1	4	0	3	0	1	0	5	2	4	2	0	3	3	1	0	3	3	4	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	113633959	T	C	113633959	2	2	78	1	0	0	0	0	0	0	0	1	8945	1722	60	3		3	LRIG2	1	113633959	Silent	SNP	T	TCGA-B0-4816-01A-01D-1501-10	21448984	113633959	135616662	8	4512											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237947442	237947442	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatcatgggaagcgccaaaCgcatcgagagggtctatttt	13	9	11	8	3	2	1	1	0	1	1	3	3	2	2	1	2	2	1	1	2	4	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	237947442	C	T	237947442	3	4	78	1	0	0	0	0	1	0	0	0	13771	536	19	1	12788	1	RYR2	1	237947442	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	124313483	237947442	11303179	9	4513											
THADA	63892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43805654	43805654	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaggagatgcacttaccaAatgaggaatcttttcagacg	16	9	9	7	1	2	3	1	1	1	2	2	5	2	4	1	2	2	1	1	2	5	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	43805654	A	T	43805654	3	4	78	1	0	0	0	0	1	0	0	0	15839	11	1	5	5167	5	THADA	2	43805654	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10		43805654	199393719	10	4514											
DQX1	165545	broad.mit.edu;ucsc.edu	37	chr2	74746760	74746760	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaaggctggtagggacaAgggaagttcaattcgttgca	12	8	14	7	1	1	0	1	0	0	0	2	2	1	2	1	4	1	5	1	4	5	4	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	74746760	C	C	74746760	3	2	78	1	0	0	0	0	1	0	0	0	4751	69	3	5	436	5	DQX1	2	74746760	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10	30941106	74746760	168452613	11	4515											
SF3B1	23451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	198260796	198260796	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctatccattaaagcatCttcaagtaacggtgttacgg	12	13	7	9	2	2	0	1	0	1	0	3	0	3	0	2	2	4	3	2	2	7	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	198260796	C	A	198260796	3	1	78	1	0	0	0	0	1	0	0	0	14151	913	32	4	403	4	SF3B1	2	198260796	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	123514036	198260796	44938577	12	4516											
ALPI	248	broad.mit.edu;ucsc.edu	37	chr2	233322764	233322764	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accgagaccccacactggacCcctccctgatggagatgaca	11	5	9	16	1	0	4	0	2	0	2	1	7	1	5	6	2	0	0	6	2	0	0	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	233322764	A	A	233322764	3	1	78	1	0	0	0	0	1	0	0	0	543	623	22	4	943	4	ALPI	2	233322764	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	35061968	233322764	9876609	13	4517											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52637689	52637689	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttttgcagagttcatcaCgaattttaataaaaaactgc	15	14	5	7	1	2	1	2	0	0	1	2	2	2	1	0	0	3	2	0	0	5	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	52637689	C	A	52637689	3	1	78	1	0	0	0	0	1	0	0	0	11491	536	19	4	2329	4	PBRM1	3	52637689	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10		52637689	145384741	14	4518											
BOD1L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	13610222	13610222	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actttccgttctttaaggacTtctttaattctggcggcttt	6	19	7	9	2	3	0	0	0	3	0	4	1	4	1	1	3	0	2	1	3	2	9	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	13610222	T	A	13610222	3	1	78	1	0	0	0	0	1	0	0	0	1483	1606	56	5	7557	5	BOD1L	4	13610222	Missense_Mutation	SNP	T	TCGA-B0-4816-01A-01D-1501-10		13610222	177544054	15	4519											
SEL1L3	23231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	25819801	25819801	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaatgcctggaacaagctgGggtgtttgtctttcagctcc	7	12	12	10	0	2	0	1	0	1	0	3	1	3	1	2	3	4	4	2	3	3	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	25819801	G	T	25819801	3	4	78	1	0	0	0	0	1	0	0	0	14014	1232	43	4	1939	4	SEL1L3	4	25819801	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	12209579	25819801	165334475	16	4520											
RBPJ	3516	broad.mit.edu;ucsc.edu	37	chr4	26432360	26432360	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagacatttctgcattcCgagaaggttggagatgggtc	9	11	12	9	1	1	3	0	0	1	3	4	5	3	3	2	3	1	2	2	3	1	3	rs1064382	alternate_allele	TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	26432360	G	G	26432360	3	3	78	1	0	0	0	0	1	0	0	0	13163	644	23	4	1339	4	RBPJ	4	26432360	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	612559	26432360	164721916	17	4521											
KLB	152831	broad.mit.edu;hgsc.bcm.edu	37	chr4	39436298	39436298	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaaaacagaagacaccacgGccatctacatgatgaagaat	18	6	8	9	1	1	6	0	3	1	3	1	6	1	6	2	1	2	0	2	1	6	1	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	39436298	G	T	39436298	3	4	78	1	0	0	0	0	1	0	0	0	8332	1203	42	4	1300	4	KLB	4	39436298	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	13003938	39436298	151717978	18	4522											
PTPN13	5783	broad.mit.edu;ucsc.edu	37	chr4	87643378	87643378	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatagcagacaatatgaaAcaccctttgaaggcaactta	17	10	6	8	0	0	3	0	2	0	1	0	3	0	3	1	1	3	2	1	1	9	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	87643378	C	C	87643378	3	2	78	1	0	0	0	0	1	0	0	0	12784	43	2	5	1433	5	PTPN13	4	87643378	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10	48207080	87643378	103510898	19	4523											
SPEF2	79925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	35759818	35759818	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaattctgaaagccagcTtaggtaaggcaggctattat	14	10	10	7	0	1	2	0	1	1	1	1	2	1	2	1	3	2	4	1	3	6	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	35759818	T	C	35759818	3	2	78	1	0	0	0	0	1	0	0	0	15036	1609	56	3	3736	3	SPEF2	5	35759818	Missense_Mutation	SNP	T	TCGA-B0-4816-01A-01D-1501-10		35759818	145155442	20	4524											
RAB3C	115827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	57913493	57913493	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctctgcccaagatgccagGtacggccagaaagactcctc	10	6	10	15	1	1	3	0	0	1	3	3	3	2	3	5	2	3	1	5	2	3	1	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	57913493	G	A	57913493	2	1	78	1	0	0	0	0	0	0	0	1	12935	1252	44	2		2	RAB3C	5	57913493	Silent	SNP	G	TCGA-B0-4816-01A-01D-1501-10	22153675	57913493	123001767	21	4525											
NSA2	10412	broad.mit.edu;hgsc.bcm.edu	37	chr5	74069762	74069762	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttttgcctaccaatacttGgtgtaaagaagaatccctca	12	12	6	11	0	1	2	1	0	0	2	2	2	2	2	4	1	3	1	4	1	7	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	74069762	G	A	74069762	3	1	78	1	0	0	0	0	1	0	0	0	10668	1348	47	2	610	2	NSA2	5	74069762	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	16156269	74069762	106845498	22	4526											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127700355	127700355	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcaattacaacggtaactaCcacgtaagttttcacaaatc	15	11	5	10	2	1	0	1	0	0	0	2	0	1	0	1	1	5	4	1	1	7	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	127700355	C	A	127700355	3	1	78	1	0	0	0	0	1	0	0	0	5703	507	18	4	6564	4	FBN2	5	127700355	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	53630593	127700355	53214905	23	4527											
RAD50	10111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131894990	131894990	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttagaccatcattgaatgTctaaaatatatttgtactgg	13	16	6	6	0	2	2	1	1	1	1	2	2	2	2	1	1	1	1	1	1	7	8	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	131894990	T	C	131894990	2	2	78	1	0	0	0	0	0	0	0	1	12986	1673	58	3		3	RAD50	5	131894990	Silent	SNP	T	TCGA-B0-4816-01A-01D-1501-10	4194635	131894990	49020270	24	4528											
FAT2	2196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150948482	150948482	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atatggcaaaacccagcaggGcaatagtcatggtggaaaac	16	6	11	8	0	1	0	1	0	0	0	1	1	1	1	1	4	3	3	1	4	7	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	150948482	G	A	150948482	3	1	78	1	0	0	0	0	1	0	0	0	5690	1203	42	2	13130	2	FAT2	5	150948482	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	19053492	150948482	29966778	25	4529											
FKBPL	63943	broad.mit.edu;ucsc.edu	37	chr6	32097100	32097100	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctccccccaagtttccTccctccatggccctacgccc	5	9	6	21	1	0	1	0	1	0	0	4	1	4	1	8	1	2	2	8	1	2	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	32097100	C	C	32097100	3	2	78	1	0	0	0	0	1	0	0	0	5916	1551	54	3	595	3	FKBPL	6	32097100	Missense_Mutation	SNP	T	TCGA-B0-4816-01A-01D-1501-10		32097100	139017967	26	4530											
PKHD1	5314	hgsc.bcm.edu;ucsc.edu	37	chr6	51777241	51777241	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttccatcggtttggcaccTttaacacctgttccactgat	7	15	6	13	1	1	1	0	1	1	0	4	1	3	1	4	2	1	3	4	2	1	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	51777241	T	A	51777241	3	1	78	1	0	0	0	0	1	0	0	0	11971	1606	56	5	6128	5	PKHD1	6	51777241	Missense_Mutation	SNP	T	TCGA-B0-4816-01A-01D-1501-10	19680141	51777241	119337826	27	4531											
MTO1	25821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	74192199	74192199	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgctggctgtgtgtcccAacaacgatatgaaagagctt	12	9	11	9	2	0	3	0	1	0	2	1	4	1	3	1	1	3	3	1	1	4	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	74192199	A	T	74192199	3	4	78	1	0	0	0	0	1	0	0	0	9953	130	5	5	1730	5	MTO1	6	74192199	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10	22414958	74192199	96922868	28	4532											
SEC63	11231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	108204350	108204350	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcttcctttactgcagcttCctaaaagggaaaggcaaaca	14	10	7	10	0	1	0	0	0	1	0	3	1	3	1	2	2	4	3	2	2	5	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	108204350	C	T	108204350	3	4	78	1	0	0	0	0	1	0	0	0	14007	869	30	2	627	2	SEC63	6	108204350	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	34012151	108204350	62910717	29	4533											
HOXA2	3199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	27140542	27140542	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaagggcctcaggactgtCattgtttaggccagctccac	8	10	10	13	0	3	0	3	0	0	0	4	1	4	1	3	3	1	2	3	3	2	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	27140542	C	T	27140542	3	4	78	1	0	0	0	0	1	0	0	0	7292	826	29	2	200	2	HOXA2	7	27140542	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10		27140542	131998121	30	4534											
SND1	27044	hgsc.bcm.edu;ucsc.edu	37	chr7	127343341	127343341	+	Frame_Shift_Del	DEL	C	C	-																															cagatcattctggagagctgCcacaaccagaacattctggg																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		-	127343341	C	-	127343341	7	5	78	1	0	1	0	1	0	0	0	0	14846	747	26	0	830	0	SND1	7	127343341	Frame_Shift_Del	DEL	C	TCGA-B0-4816-01A-01D-1501-10	100202799	127343341	31795322	31	4535											
RBM28	55131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127950874	127950874	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctatcaaaccatttgctcctCtttgcaagaggtgctccttt	8	15	6	12	0	2	1	1	0	1	1	4	1	4	1	3	1	4	3	3	1	3	4	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	127950874	C	G	127950874	3	3	78	1	0	0	0	0	1	0	0	0	13130	912	32	4	27	4	RBM28	7	127950874	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	607533	127950874	31187789	32	4536											
FAM160B2	64760	broad.mit.edu;ucsc.edu	37	chr8	21951993	21951994	+	Frame_Shift_Del	DEL	TG	-	-																															tgcaggccttcgtggagcacTggaagggcatcacgcactac																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		-	21951994	-	-	21951993	7	5	78	1	0	1	0	1	0	0	0	0	5471	1580	55	0	94	0	FAM160B2	8	21951993	Frame_Shift_Del	DEL	TG	TCGA-B0-4816-01A-01D-1501-10		21951993	124412029	33	4537											
NDUFB6	4712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32571008	32571008	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccagacaggtacaagtaCatgagtgaaaacaaagatac	20	6	8	7	0	0	4	0	2	0	2	1	4	1	4	1	1	4	2	1	1	8	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	32571008	C	A	32571008	3	1	78	1	0	0	0	0	1	0	0	0	10285	478	17	4	175	4	NDUFB6	9	32571008	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10		32571008	108642423	34	4538											
ZNF169	169841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	97062172	97062172	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagctcctcagacaatatgCgctaagtggccatcccacac	11	7	8	15	1	1	1	1	0	0	1	3	1	3	1	3	1	2	3	3	1	3	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	97062172	C	T	97062172	3	4	78	1	0	0	0	0	1	0	0	0	17741	768	27	1	346	1	ZNF169	9	97062172	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	64491164	97062172	44151259	35	4539											
FKTN	2218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	108363427	108363427	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttctctcaaacagcGtgcagttaaaaaatttatta	13	17	4	7	1	3	0	1	0	2	0	4	0	3	0	0	0	3	2	0	0	6	7	rs146951171	byfrequency	TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	108363427	G	A	108363427	3	1	78	1	0	0	0	0	1	0	0	0	5919	1159	40	1	177	1	FKTN	9	108363427	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	11301255	108363427	32850004	36	4540											
ITIH5	80760	broad.mit.edu	37	chr10	7621991	7621991	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtacttgttgaggagcCtgatggccctctgcagggcc	6	9	13	13	1	1	2	0	2	1	0	1	3	1	3	4	3	3	3	4	3	1	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	7621991	G	G	7621991	3	3	78	1	0	0	0	0	1	0	0	0	7907	681	24	4	1830	4	ITIH5	10	7621991	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10		7621991	127912756	37	4541											
ANKRD26	22852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27324608	27324608	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgtctatttctagtcttAgcatagcaatttcttcctgc	7	19	6	9	0	4	0	0	0	4	0	5	0	5	0	1	0	3	2	1	0	5	8	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	27324608	A	C	27324608	3	2	78	1	0	0	0	0	1	0	0	0	654	420	15	5	2405	5	ANKRD26	10	27324608	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10	19702617	27324608	108210139	38	4542											
ZNF33A	7581	hgsc.bcm.edu	37	chr10	38343924	38343924	+	Frame_Shift_Del	DEL	C	C	-																															atgtgtgaagtccaccctttCtaaacctcatggggtatcta																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		-	38343924	C	-	38343924	7	5	78	1	0	1	0	1	0	0	0	0	17853	913	32	0	886	0	ZNF33A	10	38343924	Frame_Shift_Del	DEL	C	TCGA-B0-4816-01A-01D-1501-10	11019316	38343924	97190823	39	4543											
PANK1	53354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91344174	91344174	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcgtctctacttgtcatCagtcattttgaacagttcca	8	16	6	11	1	4	1	3	1	1	0	7	1	5	1	1	0	3	2	1	0	2	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	91344174	C	A	91344174	3	1	78	1	0	0	0	0	1	0	0	0	11416	826	29	4	14	4	PANK1	10	91344174	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	53000250	91344174	44190573	40	4544											
BTAF1	9044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93784687	93784687	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatttgagattagatggcAgcatacctcctggtcagagg	10	12	11	8	0	1	3	1	1	0	3	2	4	2	3	2	3	2	2	2	3	3	4	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	93784687	A	G	93784687	3	3	78	1	0	0	0	0	1	0	0	0	1536	188	7	3	5176	3	BTAF1	10	93784687	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10	2440513	93784687	41750060	41	4545											
SEMA4G	57715	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102738875	102738875	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagggagacctgggagggaAgaagatcctgcagaagaagt	14	4	16	7	0	0	5	0	0	0	5	1	8	1	7	3	3	1	1	3	3	4	0	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	102738875	A	T	102738875	3	4	78	1	0	0	0	0	1	0	0	0	14038	72	3	5	860	5	SEMA4G	10	102738875	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10	8954188	102738875	32795872	42	4546											
OR51D1	390038	hgsc.bcm.edu;ucsc.edu	37	chr11	4661043	4661044	+	Frame_Shift_Ins	INS	-	-	CC																															cagaagccccagctcttggtINSccctatcatagccacttcaa																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		CC	4661044	-	CC	4661043	7	5	78	1	0	1	1	0	0	0	0	0	11093	1667	58	0	25	0	OR51D1	11	4661043	Frame_Shift_Ins	INS	-	TCGA-B0-4816-01A-01D-1501-10		4661043	130345473	43	4547											
DNHD1	144132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6592961	6592961	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggacccaatagctggagcCttgcaggacagtccttccag	9	8	12	12	0	0	0	0	0	0	0	2	3	2	3	4	3	3	2	4	3	2	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	6592961	C	T	6592961	2	4	78	1	0	0	0	0	0	0	0	1	4668	668	24	2		2	DNHD1	11	6592961	Silent	SNP	C	TCGA-B0-4816-01A-01D-1501-10	1931918	6592961	128413555	44	4548											
NXF1	10482	broad.mit.edu;ucsc.edu	37	chr11	62569079	62569079	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagggcttgttgggagcCatcgtatcgtttgctcatga	7	13	13	8	2	2	1	2	1	0	0	4	2	2	2	1	2	2	5	1	2	2	4	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	62569079	G	G	62569079	3	3	78	1	0	0	0	0	1	0	0	0	10782	594	21	4	1310	4	NXF1	11	62569079	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	55976118	62569079	72437437	45	4549											
CD163L1	283316	broad.mit.edu;ucsc.edu	37	chr12	7527159	7527159	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtcatccagccagatgggCcctgacccctccccaaagtg	9	6	10	16	0	1	2	1	1	0	1	3	2	3	2	7	2	1	0	7	2	1	0	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	7527159	T	T	7527159	2	4	78	1	0	0	0	0	0	0	0	1	2968	726	26	2		2	CD163L1	12	7527159	Silent	SNP	C	TCGA-B0-4816-01A-01D-1501-10		7527159	126324736	46	4550											
RIMBP2	23504	broad.mit.edu	37	chr12	130926698	130926698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccttgcccaccagcagcGtgcactgcagctcatccgag	7	7	10	17	3	1	0	1	0	0	0	3	1	3	0	4	0	6	4	4	0	0	1	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	130926698	A	A	130926698	3	1	78	1	0	0	0	0	1	0	0	0	13365	1145	40	1	2058	1	RIMBP2	12	130926698	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	123399539	130926698	2925197	47	4551											
TECPR2	9895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102906859	102906859	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggaagcggcactggtacGaagccctgccccaggcagtg	9	4	16	12	2	0	0	0	0	0	0	0	2	0	1	3	5	4	3	3	5	3	1	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	102906859	G	A	102906859	3	1	78	1	0	0	0	0	1	0	0	0	15743	1059	37	1	2703	1	TECPR2	14	102906859	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10		102906859	4442681	48	4552											
PPIB	5479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	64448267	64448267	+	Silent	SNP	G	G	A																															ttctccacctcgatcttgccGcagtctgcgatgatcacatc																								rs143287832		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	64448267	G	A	64448267	2	1	78	1	0	0	0	0	0	0	0	1	12321	1079	38	1		1	PPIB	15	64448267	Silent	SNP	G	TCGA-B0-4816-01A-01D-1501-10		64448267	38083125	49	4553	55	2									
PPIB	5479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	64448268	64448268	+	Missense_Mutation	SNP	C	C	T																															tctccacctcgatcttgccgCagtctgcgatgatcacatcc																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	64448268	C	T	64448268	3	4	78	1	0	0	0	0	1	0	0	0	12321	710	25	2	49	2	PPIB	15	64448268	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	1	64448268	38083124	50	4554	55	2									
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3945845	3945845	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgggcttctgagatgacaCttctgaatcttcagcatcta	10	14	8	9	0	5	3	1	3	4	1	5	4	5	3	0	1	1	2	0	1	3	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	3945845	C	T	3945845	3	4	78	1	0	0	0	0	1	0	0	0	18254	565	20	2	2769	2	ZZEF1	17	3945845	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10		3945845	77249365	51	4555											
NEURL4	84461	hgsc.bcm.edu;ucsc.edu	37	chr17	7222420	7222420	+	Frame_Shift_Del	DEL	T	T	-																															cgcagcagccaggctgcccgTttgagggcacaggcagaagc																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		-	7222420	T	-	7222420	7	5	78	1	0	1	0	1	0	0	0	0	10347	1722	60	0	1087	0	NEURL4	17	7222420	Frame_Shift_Del	DEL	T	TCGA-B0-4816-01A-01D-1501-10	3276575	7222420	73972790	52	4556											
MAP3K14	9020	hgsc.bcm.edu;ucsc.edu	37	chr17	43368049	43368049	+	Frame_Shift_Del	DEL	T	T	-																															ttctccttggctttggggagTtccttctgctgccccactgc																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		-	43368049	T	-	43368049	7	5	78	1	0	1	0	1	0	0	0	0	9248	1722	60	0	2839	0	MAP3K14	17	43368049	Frame_Shift_Del	DEL	T	TCGA-B0-4816-01A-01D-1501-10	36145629	43368049	37827161	53	4557											
TMEM100	55273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	53798317	53798317	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcagccatcaactgaatctCactgaccagagggactgtgg	12	7	11	11	0	2	3	2	2	1	1	3	4	2	4	2	2	3	1	2	2	2	0	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	53798317	C	G	53798317	3	3	78	1	0	0	0	0	1	0	0	0	16014	835	29	4	293	4	TMEM100	17	53798317	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10	10430268	53798317	27396893	54	4558											
ZNF57	126295	broad.mit.edu;hgsc.bcm.edu	37	chr19	2917940	2917940	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtttagagaacatgtgagaAttcacacgcaagagcagctc	14	8	10	9	2	1	3	1	1	0	3	2	5	1	3	0	0	3	4	0	0	4	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		T	2917940	A	T	2917940	3	4	78	1	0	0	0	0	1	0	0	0	18000	101	4	5	1335	5	ZNF57	19	2917940	Missense_Mutation	SNP	A	TCGA-B0-4816-01A-01D-1501-10		2917940	56211043	55	4559											
GMIP	51291	broad.mit.edu	37	chr19	19744707	19744708	+	Frame_Shift_Ins	INS	-	A	A																															actgggggctgggagtctggINSgtcaaggtgcgggggtggcg																								novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	19744708	A	A	19744707	7	5	78	1	0	1	1	0	0	0	0	0	6491	1232	43	0	547	0	GMIP	19	19744707	Frame_Shift_Ins	INS	-	TCGA-B0-4816-01A-01D-1501-10	16826767	19744707	39384276	56	4560											
ZNF829	374899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37382715	37382715	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggccttcccacactgcttAcattcataaggtttctcacc	10	12	5	14	0	2	0	2	0	1	0	4	0	3	0	3	2	2	2	3	2	3	5	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	37382715	A	G	37382715	2	3	78	1	0	0	0	0	0	0	0	1	18181	389	14	3		3	ZNF829	19	37382715	Silent	SNP	A	TCGA-B0-4816-01A-01D-1501-10	17638008	37382715	21746268	57	4561											
LTBP4	8425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41105107	41105107	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccactatttatagcgttGctgtttgtcgctgctgcccg	5	15	9	12	3	0	0	0	0	0	0	2	0	1	0	2	0	4	5	2	0	3	6	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	41105107	G	A	41105107	3	1	78	1	0	0	0	0	1	0	0	0	9076	1319	46	2	177	2	LTBP4	19	41105107	Missense_Mutation	SNP	G	TCGA-B0-4816-01A-01D-1501-10	3722392	41105107	18023876	58	4562											
C20orf7	0	hgsc.bcm.edu	37	chr20	13769227	13769227	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcataacctctgtgtctttTtttttagaaatttccccctt	8	19	4	10	0	2	1	0	0	2	1	3	1	3	1	3	0	2	1	3	0	3	8	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		C	13769227	T	C	13769227	1	2	78	0	1	0	0	0	0	0	0	0	2115	1856	64	3		3	C20orf7	20	13769227	RNA	SNP	T	TCGA-B0-4816-01A-01D-1501-10		13769227	49256293	59	4563											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53239736	53239736	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcaagtgagggcacccCataccaggtcttcggctcac	8	8	11	14	1	2	1	1	1	1	0	3	1	2	1	3	3	3	4	3	3	2	2	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		A	53239736	C	A	53239736	3	1	78	1	0	0	0	0	1	0	0	0	8135	594	21	4	3234	4	KDM5C	23	53239736	Missense_Mutation	SNP	C	TCGA-B0-4816-01A-01D-1501-10		53239736	102030824	60	4564											
CYLC1	1538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	83128364	83128364	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacactgaattcctacatacAaagaacaatccaaagaaaga	22	6	4	9	0	0	4	0	1	0	3	2	4	2	4	2	0	4	0	2	0	9	3	novel		TCGA-B0-4816-01A-01D-1501-10	TCGA-B0-4816-11A-02D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aa690c54-aeb4-4aa8-ae5a-5119cdfcf7cf	7a97955f-563e-41e5-b450-2af011108d71		G	83128364	A	G	83128364	2	3	78	1	0	0	0	0	0	0	0	1	4141	117	5	3		3	CYLC1	23	83128364	Silent	SNP	A	TCGA-B0-4816-01A-01D-1501-10	29888628	83128364	72142196	61	4565											
VHL	7428	hgsc.bcm.edu	37	chr3	10183755	10183755	+	Frame_Shift_Del	DEL	T	T	-																															gcgcgagccctcccaggtcaTcttctgcaatcgcagtccgc																								novel		TCGA-B0-4816-01A-01W-1528-10	TCGA-B0-4816-11A-02W-1528-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	d5ee9c73-2794-4e3c-bcaa-9d6b3bd63024	076ea472-3ea0-410f-b24f-f2e5659e0b90		-	10183755	T	-	10183755	7	5	79	1	0	1	0	1	0	0	0	0	17161	1435	50	0	226	0	VHL	3	10183755	Frame_Shift_Del	DEL	T	TCGA-B0-4816-01A-01W-1528-10		10183755	187838675	1	4566											
ATAD3C	219293	hgsc.bcm.edu	37	chr1	1391244	1391244	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaccggggcctgtacaGgcacatcctgctgtacgggc	9	6	14	12	2	0	1	0	0	0	1	1	2	1	1	3	4	4	4	3	4	4	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	1391244	G	C	1391244	3	2	80	1	0	0	0	0	1	0	0	0	1075	1000	35	4	534	4	ATAD3C	1	1391244	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10		1391244	247859377	1	4567											
ANKRD35	148741	hgsc.bcm.edu	37	chr1	145566760	145566760	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggagaaaatgctcgcctTgccctgcagctgcaggtatg	8	8	14	11	2	0	1	0	0	0	1	1	2	0	1	2	3	5	5	2	3	3	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	145566760	T	C	145566760	2	2	80	1	0	0	0	0	0	0	0	1	664	1799	63	3		3	ANKRD35	1	145566760	Silent	SNP	T	TCGA-B0-4817-01A-01D-1361-10	144175516	145566760	103683861	2	4568											
FAM129A	116496	hgsc.bcm.edu	37	chr1	184859343	184859343	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcgacatttaggagcagctCctctctgataggcctgggga	8	11	12	10	1	1	1	0	1	1	0	4	4	2	3	2	4	2	2	2	4	2	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	184859343	C	A	184859343	3	1	80	1	0	0	0	0	1	0	0	0	5436	855	30	4	2498	4	FAM129A	1	184859343	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	39292583	184859343	64391278	3	4569											
IRF2BP2	359948	hgsc.bcm.edu;ucsc.edu	37	chr1	234743339	234743339	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttttgaggcatgactgccCcctgcattgtctgctactaa	7	14	8	12	0	2	2	0	2	2	0	2	2	2	2	2	1	4	3	2	1	2	5	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	234743339	C	A	234743339	2	1	80	1	0	0	0	0	0	0	0	1	7830	610	22	4		4	IRF2BP2	1	234743339	Silent	SNP	C	TCGA-B0-4817-01A-01D-1361-10	49883996	234743339	14507282	4	4570											
CDC42EP3	10602	hgsc.bcm.edu;ucsc.edu	37	chr2	37873389	37873389	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacatgagagcttgggaTcctccaatggtcgggaggga	10	7	16	8	1	0	1	0	1	0	1	3	5	2	4	2	5	2	2	2	5	2	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	37873389	T	A	37873389	2	1	80	1	0	0	0	0	0	0	0	1	3077	1422	50	5		5	CDC42EP3	2	37873389	Silent	SNP	T	TCGA-B0-4817-01A-01D-1361-10		37873389	205325984	5	4571											
SSFA2	6744	hgsc.bcm.edu	37	chr2	182765606	182765606	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgcaacggatggaagtAgaaaacccaaattatgcttt	16	9	9	7	1	0	2	0	0	0	2	0	4	0	4	1	2	4	3	1	2	7	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	182765606	A	T	182765606	2	4	80	1	0	0	0	0	0	0	0	1	15184	407	15	5		5	SSFA2	2	182765606	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	144892217	182765606	60433767	6	4572											
ALPI	248	hgsc.bcm.edu	37	chr2	233322958	233322958	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatggtcatcatgagggTgtggcttaccaggcactcac	9	9	12	11	0	3	1	3	1	0	0	3	2	3	1	2	4	1	2	2	4	1	1	rs41265121	bycluster;byfrequency;by1000genomes	TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	233322958	T	C	233322958	2	2	80	1	0	0	0	0	0	0	0	1	543	1683	59	3		3	ALPI	2	233322958	Silent	SNP	T	TCGA-B0-4817-01A-01D-1361-10	50557352	233322958	9876415	7	4573											
ZNF619	285267	hgsc.bcm.edu	37	chr3	40528385	40528385	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagactgatagtggagggActgctgatggacgttcccca	10	8	13	10	1	0	3	0	2	0	1	1	6	1	6	2	3	1	2	2	3	1	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	40528385	A	T	40528385	2	4	80	1	0	0	0	0	0	0	0	1	18042	262	10	5		5	ZNF619	3	40528385	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10		40528385	157494045	8	4574											
PTPN23	25930	hgsc.bcm.edu	37	chr3	47449932	47449932	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggagaagtgcgcggctCtcagcgtccggcccgacact	7	7	13	14	5	2	1	2	0	1	1	4	3	3	1	2	3	2	1	2	3	1	0	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	47449932	C	A	47449932	3	1	80	1	0	0	0	0	1	0	0	0	12790	913	32	4	1340	4	PTPN23	3	47449932	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	6921547	47449932	150572498	9	4575											
DOCK3	1795	hgsc.bcm.edu	37	chr3	51400103	51400103	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgccccttccagtgcccGaggtaaggatggcagggtgc	6	8	14	13	1	1	0	0	0	1	0	2	2	2	1	4	4	3	2	4	4	1	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	51400103	G	A	51400103	3	1	80	1	0	0	0	0	1	0	0	0	4688	1058	37	1	5485	1	DOCK3	3	51400103	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10	3950171	51400103	146622327	10	4576											
XRN1	54464	hgsc.bcm.edu;ucsc.edu	37	chr3	142051287	142051287	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttagaggaaacagggatTtcattagcaatctgtttgat	12	14	10	5	0	2	2	1	1	1	1	2	4	2	4	0	2	2	3	0	2	4	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	142051287	T	A	142051287	3	1	80	1	0	0	0	0	1	0	0	0	17458	1838	64	5	999	5	XRN1	3	142051287	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10	90651184	142051287	55971143	11	4577											
ATP13A5	344905	hgsc.bcm.edu;ucsc.edu	37	chr3	193036861	193036861	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacacggaagccttgcaccGtgtaactcctcagttcctgt	8	11	9	13	2	1	1	1	1	0	0	3	2	3	2	4	1	3	3	4	1	2	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	193036861	G	A	193036861	3	1	80	1	0	0	0	0	1	0	0	0	1127	1145	40	1	1758	1	ATP13A5	3	193036861	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10	50985574	193036861	4985569	12	4578											
JAKMIP1	152789	hgsc.bcm.edu	37	chr4	6087193	6087193	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgatcccgggcgggagcTctctctttggactactgtgg	4	10	13	14	3	2	0	0	0	2	0	4	3	3	2	3	4	2	1	3	4	1	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	6087193	T	C	6087193	3	2	80	1	0	0	0	0	1	0	0	0	7940	1551	54	3	1854	3	JAKMIP1	4	6087193	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10		6087193	185067083	13	4579											
SAP30	8819	hgsc.bcm.edu	37	chr4	174292632	174292632	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccagaagaaggtgaagaTcgagctggataagagcgtaa	15	6	13	7	2	0	5	0	1	0	4	2	7	1	6	1	2	2	2	1	2	5	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	174292632	T	C	174292632	3	2	80	1	0	0	0	0	1	0	0	0	13835	1435	50	3	301	3	SAP30	4	174292632	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10	168205439	174292632	16861644	14	4580											
MGC42105	0	hgsc.bcm.edu	37	chr5	43280310	43280310	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggtgcttttgtacttcAtggtgactggcaccatgcca	6	13	13	9	0	1	1	1	1	0	0	1	1	1	1	2	4	3	3	2	4	1	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	43280310	A	G	43280310	3	3	80	1	0	0	0	0	1	0	0	0	9552	217	8	3	800	3	MGC42105	5	43280310	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10		43280310	137634950	15	4581											
PWWP2A	114825	hgsc.bcm.edu	37	chr5	159520688	159520688	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacactgtttttacatttAtcacacagaacttgcctggg	12	13	6	10	0	1	1	1	0	0	1	1	1	1	1	1	1	4	1	1	1	4	6	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	159520688	A	T	159520688	3	4	80	1	0	0	0	0	1	0	0	0	12847	446	16	5	1444	5	PWWP2A	5	159520688	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10	116240378	159520688	21394572	16	4582											
MOCS1	4337	hgsc.bcm.edu	37	chr6	39893450	39893450	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaccacgtccggccggatAagcggctctccacctgtgag	7	7	11	16	4	1	1	0	1	1	0	4	2	3	2	6	3	1	1	6	3	1	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	39893450	A	T	39893450	2	4	80	1	0	0	0	0	0	0	0	1	9690	349	13	5		5	MOCS1	6	39893450	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10		39893450	131221617	17	4583											
RIMS1	22999	hgsc.bcm.edu	37	chr6	73000565	73000565	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttctccgcttctgacaagGtcgctattcagtgtccccct	5	13	7	16	2	3	1	1	1	2	0	6	1	4	1	4	1	0	2	4	1	2	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	73000565	G	A	73000565	5	1	80	1	0	0	0	0	0	0	1	0	13369	1275	44	2	3999	2	RIMS1	6	73000565	Splice_Site	SNP	G	TCGA-B0-4817-01A-01D-1361-10	33107115	73000565	98114502	18	4584											
SFRS18	0	hgsc.bcm.edu	37	chr6	99848473	99848473	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcttaccagacctttgAgatttctccacggatcgcga	8	12	8	13	3	2	2	0	1	2	2	4	5	2	3	4	1	1	0	4	1	1	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	99848473	A	T	99848473	2	4	80	1	0	0	0	0	0	0	0	1	14176	291	11	5		5	SFRS18	6	99848473	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	26847908	99848473	71266594	19	4585											
NKAIN2	154215	hgsc.bcm.edu;ucsc.edu	37	chr6	124979433	124979433	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgacacctgccccagaCtgggccccagaagaccatcg	10	5	10	16	1	1	4	1	1	0	3	2	4	1	4	6	1	1	0	6	1	1	0	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	124979433	C	T	124979433	2	4	80	1	0	0	0	0	0	0	0	1	10436	564	20	2		2	NKAIN2	6	124979433	Silent	SNP	C	TCGA-B0-4817-01A-01D-1361-10	25130960	124979433	46135634	20	4586											
FKBP9	11328	hgsc.bcm.edu	37	chr7	33039811	33039811	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggtctcagagagatgtgCgttggcgagaaacggacagt	11	8	16	6	3	1	3	1	0	1	3	2	6	1	4	0	3	2	1	0	3	1	1	rs79110989		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	33039811	C	T	33039811	2	4	80	1	0	0	0	0	0	0	0	1	5915	776	27	1		1	FKBP9	7	33039811	Silent	SNP	C	TCGA-B0-4817-01A-01D-1361-10		33039811	126098852	21	4587											
GTF2I	2969	hgsc.bcm.edu;ucsc.edu	37	chr7	74129238	74129238	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatcgaagcctttgcaaggTataatcttttcacttccatt	10	16	5	10	1	2	0	1	0	1	0	4	1	3	0	2	1	2	2	2	1	5	8	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	74129238	T	C	74129238	5	2	80	1	0	0	0	0	0	0	1	0	6867	1652	57	3	859	3	GTF2I	7	74129238	Splice_Site	SNP	T	TCGA-B0-4817-01A-01D-1361-10	41089427	74129238	85009425	22	4588											
C7orf58	0	hgsc.bcm.edu;ucsc.edu	37	chr7	120907350	120907350	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggatggagtacatttcttAacacaggtaagcacatttcc	12	12	9	8	0	1	0	0	0	1	0	2	2	2	2	1	3	3	3	1	3	3	5	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	120907350	A	G	120907350	2	3	80	1	0	0	0	0	0	0	0	1	2405	359	13	3		3	C7orf58	7	120907350	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	46778112	120907350	38231313	23	4589											
EZH2	2146	hgsc.bcm.edu;ucsc.edu	37	chr7	148506483	148506483	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttgcatccaccacaaaatCtaaaaagaaaaaagtaagca	21	6	6	8	0	1	1	0	0	1	1	2	1	2	1	2	1	2	4	2	1	9	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	148506483	C	T	148506483	5	4	80	1	0	0	0	0	0	0	1	0	5334	927	32	2	238	2	EZH2	7	148506483	Splice_Site	SNP	C	TCGA-B0-4817-01A-01D-1361-10	27599133	148506483	10632180	24	4590											
SSPO	23145	hgsc.bcm.edu	37	chr7	149516805	149516805	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgttctctttcccacaGtgcccgggggctggtcacgc	3	10	13	15	3	2	0	1	0	1	0	4	0	3	0	3	4	1	2	3	4	0	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	149516805	G	A	149516805	5	1	80	1	0	0	0	0	0	0	1	0	15190	1043	36	2	12339	2	SSPO	7	149516805	Splice_Site	SNP	G	TCGA-B0-4817-01A-01D-1361-10	1010322	149516805	9621858	25	4591											
ACTR3B	57180	hgsc.bcm.edu	37	chr7	152522195	152522195	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccccatcgatgtgcggcgCccgctgtataaggtatgagc	7	9	13	12	4	0	1	0	1	0	0	1	2	0	1	3	2	3	3	3	2	3	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	152522195	C	T	152522195	2	4	80	1	0	0	0	0	0	0	0	1	213	726	26	2		2	ACTR3B	7	152522195	Silent	SNP	C	TCGA-B0-4817-01A-01D-1361-10	3005390	152522195	6616468	26	4592											
ESYT2	57488	hgsc.bcm.edu	37	chr7	158529819	158529819	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcctcttgtctggtaataaAtacatgcggacataggggtc	10	11	11	9	2	2	0	0	0	2	0	3	1	2	1	1	4	2	1	1	4	5	5	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	158529819	A	G	158529819	2	3	80	1	0	0	0	0	0	0	0	1	5265	108	4	3		3	ESYT2	7	158529819	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	6007624	158529819	608844	27	4593											
NRG1	3084	hgsc.bcm.edu	37	chr8	32621790	32621790	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaccccctggcagccaGtcttgaggcaacacctgcct	10	6	9	16	0	1	2	0	1	1	1	1	2	1	2	5	2	4	2	5	2	2	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	32621790	G	C	32621790	3	2	80	1	0	0	0	0	1	0	0	0	10647	1029	36	4	3564	4	NRG1	8	32621790	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10		32621790	113742232	28	4594											
C9orf82	0	hgsc.bcm.edu;ucsc.edu	37	chr9	26861129	26861129	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagcagaatctatacagAtgtcttgcctgggaaatgaa	15	10	10	6	0	2	4	0	2	2	2	2	5	2	5	1	1	3	1	1	1	6	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	26861129	A	C	26861129	3	2	80	1	0	0	0	0	1	0	0	0	2499	333	12	5	419	5	C9orf82	9	26861129	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10		26861129	114352302	29	4595											
CH25H	9023	hgsc.bcm.edu;ucsc.edu	37	chr10	90966472	90966472	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgagcgggtggcacccgAgcagtgtgacgttcatcatg	7	9	16	9	3	2	2	2	2	0	0	2	3	2	2	1	3	2	3	1	3	0	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	90966472	A	T	90966472	3	4	80	1	0	0	0	0	1	0	0	0	3307	304	11	5	244	5	CH25H	10	90966472	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10		90966472	44568275	30	4596											
OR10A3	26496	hgsc.bcm.edu;ucsc.edu	37	chr11	7960851	7960851	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgtaatgactgcactgaAactcacctccaccacagata	14	7	7	13	1	1	3	1	2	0	1	2	3	2	3	3	1	2	2	3	1	3	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	7960851	A	C	7960851	3	2	80	1	0	0	0	0	1	0	0	0	10891	14	1	5	730	5	OR10A3	11	7960851	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10		7960851	127045665	31	4597											
LRP4	4038	hgsc.bcm.edu	37	chr11	46914588	46914588	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccacagcaacactttccGgtgggccccatccagattgg	8	8	10	15	1	0	1	0	0	0	1	2	1	2	1	5	3	3	1	5	3	1	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	46914588	G	A	46914588	3	1	80	1	0	0	0	0	1	0	0	0	8959	1115	39	1	4188	1	LRP4	11	46914588	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10	38953737	46914588	88091928	32	4598											
SIAE	54414	hgsc.bcm.edu;ucsc.edu	37	chr11	124509622	124509622	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctgccaaaaggcgagtCtctatcacagagatccatag	14	8	8	11	1	2	1	1	0	1	1	4	3	3	1	3	1	2	0	3	1	5	3	rs146397917	alternate_allele	TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	124509622	C	A	124509622	3	1	80	1	0	0	0	0	1	0	0	0	14300	913	32	4	475	4	SIAE	11	124509622	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	77595034	124509622	10496894	33	4599											
PAN2	9924	hgsc.bcm.edu	37	chr12	56720445	56720445	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccaatcagagagaagTgtgtcagtggtgagtgggac	11	7	17	6	0	2	3	2	1	0	2	2	5	2	4	1	3	0	1	1	3	2	0	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	56720445	T	C	56720445	2	2	80	1	0	0	0	0	0	0	0	1	11414	1683	59	3		3	PAN2	12	56720445	Silent	SNP	T	TCGA-B0-4817-01A-01D-1361-10		56720445	77131450	34	4600											
NXPH4	11247	hgsc.bcm.edu	37	chr12	57619000	57619000	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagatcgtggaccatgtgAacggtaccttcagtgtgtat	10	11	12	8	2	1	2	1	1	0	1	2	3	1	3	2	2	2	3	2	2	4	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	57619000	A	T	57619000	3	4	80	1	0	0	0	0	1	0	0	0	10793	246	9	5	403	5	NXPH4	12	57619000	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10	898555	57619000	76232895	35	4601											
SHMT2	6472	hgsc.bcm.edu;ucsc.edu	37	chr12	57625269	57625269	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaccaccccagaacttCtgcagccgagctgcgctgga	8	5	9	19	2	1	1	0	0	1	1	1	3	1	2	6	1	5	3	6	1	1	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	57625269	C	A	57625269	3	1	80	1	0	0	0	0	1	0	0	0	14288	912	32	4	247	4	SHMT2	12	57625269	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	6269	57625269	76226626	36	4602											
PRDM4	11108	hgsc.bcm.edu	37	chr12	108147767	108147767	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggaggtagggtgtagtTtctttcaggtaacccacaca	9	12	13	7	0	2	0	1	0	1	0	2	1	2	1	1	5	1	4	1	5	3	5	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	108147767	T	G	108147767	3	3	80	1	0	0	0	0	1	0	0	0	12461	1841	64	5	2176	5	PRDM4	12	108147767	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10	50522498	108147767	25704128	37	4603											
KCTD10	83892	hgsc.bcm.edu	37	chr12	109907503	109907503	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagccgctggcaccgctgAgctcaccacactttctcctg	7	8	9	17	2	2	1	1	1	1	0	3	1	2	1	4	1	3	5	4	1	0	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	109907503	A	T	109907503	3	4	80	1	0	0	0	0	1	0	0	0	8097	304	11	5	931	5	KCTD10	12	109907503	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10	1759736	109907503	23944392	38	4604											
ZFYVE26	23503	hgsc.bcm.edu	37	chr14	68251809	68251809	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaactttgaaggagaactgCagcaagggtgctgcagtaac	14	7	12	8	0	0	2	0	1	0	1	0	3	0	2	0	2	7	5	0	2	5	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	68251809	C	A	68251809	3	1	80	1	0	0	0	0	1	0	0	0	17667	710	25	4	4225	4	ZFYVE26	14	68251809	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10		68251809	39097731	39	4605											
PLA2G4B	100137049	hgsc.bcm.edu;ucsc.edu	37	chr15	42133008	42133008	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtctttgaccaggacctgGtgaccggagatgaccctgtg	9	9	13	10	1	1	4	0	3	1	1	1	6	1	5	4	3	0	0	4	3	1	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	42133008	G	A	42133008	3	1	80	1	0	0	0	0	1	0	0	0	12002	1261	44	2	270	2	PLA2G4B	15	42133008	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10		42133008	60398384	40	4606											
DUOX1	53905	hgsc.bcm.edu	37	chr15	45440634	45440634	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctccgcttcacgcagcTctgtgtcaaaggtggggcag	7	8	14	12	3	3	0	2	0	1	0	4	1	4	0	1	3	2	5	1	3	1	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	45440634	T	A	45440634	3	1	80	1	0	0	0	0	1	0	0	0	4800	1551	54	5	2885	5	DUOX1	15	45440634	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10	3307626	45440634	57090758	41	4607											
SCG3	29106	hgsc.bcm.edu	37	chr15	51975597	51975597	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgatcgatgattatgaCtctactaagagtggattgga	14	12	10	5	1	1	4	0	3	1	1	2	7	1	6	0	2	2	0	0	2	4	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	51975597	C	A	51975597	3	1	80	1	0	0	0	0	1	0	0	0	13894	564	20	4	377	4	SCG3	15	51975597	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	6534963	51975597	50555795	42	4608											
LRRK1	79705	hgsc.bcm.edu	37	chr15	101593136	101593136	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtggcaggctcttcctGgagaacagcaagctggagca	9	8	15	9	0	1	1	0	0	1	1	2	3	2	2	1	4	4	5	1	4	2	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	101593136	G	T	101593136	2	4	80	1	0	0	0	0	0	0	0	1	9032	1335	47	4		4	LRRK1	15	101593136	Silent	SNP	G	TCGA-B0-4817-01A-01D-1361-10	49617539	101593136	938256	43	4609											
NOMO2	283820	hgsc.bcm.edu	37	chr16	18528574	18528574	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaacgaaacaggccaccActcagggataagaggactcc	14	5	11	11	1	1	1	1	0	0	1	2	5	2	4	3	4	2	0	3	4	3	2	rs1062415		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	18528574	A	G	18528574	2	3	80	1	0	0	0	0	0	0	0	1	10532	156	6	3		3	NOMO2	16	18528574	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10		18528574	71826179	44	4610											
PPP4C	5531	hgsc.bcm.edu	37	chr16	30096007	30096007	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccacaggctggggcgtgAgcccccgaggagccggctac	8	3	15	15	3	0	1	0	1	0	0	0	3	0	2	4	5	3	2	4	5	1	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	30096007	A	G	30096007	3	3	80	1	0	0	0	0	1	0	0	0	12404	304	11	3	651	3	PPP4C	16	30096007	Missense_Mutation	SNP	A	TCGA-B0-4817-01A-01D-1361-10	11567433	30096007	60258746	45	4611											
DEF8	54849	hgsc.bcm.edu	37	chr16	90025607	90025607	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaggaatgagagagaccaAagttcctgcctccgctgggc	10	7	14	10	1	0	3	0	2	0	2	2	6	2	4	4	2	1	2	4	2	2	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	90025607	A	G	90025607	2	3	80	1	0	0	0	0	0	0	0	1	4387	11	1	3		3	DEF8	16	90025607	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	59929600	90025607	329146	46	4612											
STAT5B	6777	hgsc.bcm.edu	37	chr17	40375493	40375493	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtgtcctgcgtgaccaGtcgcagctcctcaaacgtct	6	11	9	15	3	3	1	1	1	2	0	6	1	5	1	3	0	3	2	3	0	1	0	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		C	40375493	G	C	40375493	3	2	80	1	0	0	0	0	1	0	0	0	15270	1020	36	4	1966	4	STAT5B	17	40375493	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10		40375493	40819717	47	4613											
RGS9	8787	hgsc.bcm.edu	37	chr17	63221255	63221255	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacccagccgcttcatcCggcgacccagcaccaccatc	8	5	6	22	3	2	0	2	0	0	0	4	1	3	0	7	1	2	2	7	1	0	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	63221255	C	T	63221255	3	4	80	1	0	0	0	0	1	0	0	0	13315	643	23	1	1668	1	RGS9	17	63221255	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	22845762	63221255	17973955	48	4614											
SMARCA4	6597	hgsc.bcm.edu	37	chr19	11144113	11144113	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagaaggtgatccaggccGgcatgttcgaccagaagtcc	11	6	12	12	2	0	3	0	1	0	2	3	4	2	3	5	3	0	2	5	3	2	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	11144113	G	T	11144113	3	4	80	1	0	0	0	0	1	0	0	0	14772	1116	39	4	3792	4	SMARCA4	19	11144113	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10		11144113	47984870	49	4615											
UBA2	10054	hgsc.bcm.edu	37	chr19	34935995	34935995	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaggaatgggctaaatcaaCtggatatgatccagttaaac	16	10	9	6	0	1	1	1	1	0	0	2	3	2	3	1	3	2	2	1	3	8	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	34935995	C	A	34935995	3	1	80	1	0	0	0	0	1	0	0	0	16827	565	20	4	770	4	UBA2	19	34935995	Missense_Mutation	SNP	C	TCGA-B0-4817-01A-01D-1361-10	23791882	34935995	24192988	50	4616											
ATP4A	495	hgsc.bcm.edu	37	chr19	36049926	36049927	+	Frame_Shift_Del	DEL	GA	GA	-																															tccgtggtgtcagctgtgtgGatgtggttgtcaaaccacag																								novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		-	36049927	GA	-	36049926	7	5	80	1	0	1	0	1	0	0	0	0	1145	1164	41	0	1943	0	ATP4A	19	36049926	Frame_Shift_Del	DEL	GA	TCGA-B0-4817-01A-01D-1361-10	1113931	36049926	23079057	51	4617											
ZNF780B	163131	hgsc.bcm.edu;ucsc.edu	37	chr19	40540306	40540306	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgttcagtaagttgctactGatgtctgaaggctgtcccac	9	13	10	9	0	2	2	1	2	1	0	3	2	3	2	1	1	2	5	1	1	3	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	40540306	G	A	40540306	2	1	80	1	0	0	0	0	0	0	0	1	18152	1280	45	2		2	ZNF780B	19	40540306	Silent	SNP	G	TCGA-B0-4817-01A-01D-1361-10	4490380	40540306	18588677	52	4618											
ZNF329	79673	hgsc.bcm.edu;ucsc.edu	37	chr19	58639319	58639319	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagctcttttggaacatttTtccacactgaggacaccggc	9	12	9	11	1	1	2	0	2	1	0	2	4	2	4	2	3	2	1	2	3	1	4	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	58639319	T	G	58639319	3	3	80	1	0	0	0	0	1	0	0	0	17846	1850	64	5	77	5	ZNF329	19	58639319	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10	18099013	58639319	489664	53	4619											
PCIF1	63935	hgsc.bcm.edu	37	chr20	44572023	44572023	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagccaagcgcctgctctTtaaatatgcggaggccgcca	10	7	12	12	3	1	0	0	0	1	0	1	2	1	2	4	3	4	1	4	3	5	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	44572023	T	A	44572023	3	1	80	1	0	0	0	0	1	0	0	0	11580	1841	64	5	892	5	PCIF1	20	44572023	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10		44572023	18453497	54	4620											
WDR13	64743	hgsc.bcm.edu	37	chrX	48458031	48458031	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcaagtcgggccatggccgGggacacgtcactgagcgaga	9	4	17	11	4	1	2	1	1	0	1	2	4	1	3	2	5	1	1	2	5	1	0	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	48458031	G	T	48458031	3	4	80	1	0	0	0	0	1	0	0	0	17274	1232	43	4	463	4	WDR13	23	48458031	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10		48458031	106812529	55	4621											
RLIM	51132	hgsc.bcm.edu	37	chrX	73811648	73811648	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacctgatgagcctgatgatGagcttccttcattactgcct	8	13	8	12	0	1	5	1	5	0	0	2	5	2	5	4	0	4	1	4	0	1	3	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	73811648	G	A	73811648	3	1	80	1	0	0	0	0	1	0	0	0	13392	1294	45	2	376	2	RLIM	23	73811648	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10	25353617	73811648	81458912	56	4622											
APOOL	139322	hgsc.bcm.edu;ucsc.edu	37	chrX	84310894	84310894	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaaatgggagttattacAgtttcaggattggcgggctt	10	12	13	6	2	1	0	1	0	0	0	1	3	1	2	1	4	1	3	1	4	4	5	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	84310894	A	G	84310894	2	3	80	1	0	0	0	0	0	0	0	1	814	175	7	3		3	APOOL	23	84310894	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	10499246	84310894	70959666	57	4623											
TCEAL3	85012	hgsc.bcm.edu;ucsc.edu	37	chrX	102864442	102864442	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagatgtgtcaagggctcaAgaggagctaaggaaaaaaca	17	5	14	5	0	2	2	2	0	0	2	2	5	2	4	0	4	2	2	0	4	6	1	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		G	102864442	A	G	102864442	2	3	80	1	0	0	0	0	0	0	0	1	15671	69	3	3		3	TCEAL3	23	102864442	Silent	SNP	A	TCGA-B0-4817-01A-01D-1361-10	18553548	102864442	52406118	58	4624											
DOCK11	139818	hgsc.bcm.edu	37	chrX	117707902	117707902	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcaacccaactggccaGtgacggtagcccaaagggct	10	7	10	14	1	2	1	1	1	1	0	2	1	2	1	3	3	3	2	3	3	4	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		T	117707902	G	T	117707902	3	4	80	1	0	0	0	0	1	0	0	0	4686	1029	36	4	1356	4	DOCK11	23	117707902	Missense_Mutation	SNP	G	TCGA-B0-4817-01A-01D-1361-10	14843460	117707902	37562658	59	4625											
ACTRT1	139741	hgsc.bcm.edu	37	chrX	127185630	127185630	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgctctgtgatgtcccTccctgccatacagagtttgg	6	12	12	11	0	1	2	0	1	1	1	3	3	3	2	3	2	3	2	3	2	1	2	novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		A	127185630	T	A	127185630	3	1	80	1	0	0	0	0	1	0	0	0	218	1550	54	5	578	5	ACTRT1	23	127185630	Missense_Mutation	SNP	T	TCGA-B0-4817-01A-01D-1361-10	9477728	127185630	28084930	60	4626											
GPR50	9248	hgsc.bcm.edu	37	chrX	150349562	150349562	+	Frame_Shift_Del	DEL	A	A	-																															ccagccaccctaaacccaccActggccacatcaagccagct																								novel		TCGA-B0-4817-01A-01D-1361-10	TCGA-B0-4817-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	304941d8-b999-4192-91d7-517f468c4156	27a4c2a2-b90f-4046-b6ca-373e91ba70f3		-	150349562	A	-	150349562	7	5	80	1	0	1	0	1	0	0	0	0	6697	159	6	0	1513	0	GPR50	23	150349562	Frame_Shift_Del	DEL	A	TCGA-B0-4817-01A-01D-1361-10	23163932	150349562	4920998	61	4627											
CASZ1	54897	broad.mit.edu	37	chr1	10699617	10699618	+	Frame_Shift_Ins	INS	-	AA	AA																															cgggcacggcgcagtcggcgINSctggagctgaactggcagaa																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		AA	10699618	AA	AA	10699617	7	5	81	1	0	1	1	0	0	0	0	0	2685	1078	38	0	621	0	CASZ1	1	10699617	Frame_Shift_Ins	INS	-	TCGA-B0-4818-01A-01D-1501-10		10699617	238551004	1	4628											
CCBL2	56267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89454019	89454019	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagagagcagaggctcctCtgggccaaaaacatgctatt	13	8	10	10	0	1	2	0	0	1	2	2	3	2	2	2	2	3	3	2	2	4	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	89454019	C	A	89454019	3	1	81	1	0	0	0	0	1	0	0	0	2733	912	32	4	1401	4	CCBL2	1	89454019	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	78754402	89454019	159796602	2	4629											
SORT1	6272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109884661	109884661	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcatctacatgcatgaaTaccatgtcatcatttgctgc	10	14	7	10	0	4	1	3	1	1	0	4	1	4	1	1	1	5	3	1	1	3	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	109884661	T	C	109884661	2	2	81	1	0	0	0	0	0	0	0	1	14937	1393	49	3		3	SORT1	1	109884661	Silent	SNP	T	TCGA-B0-4818-01A-01D-1501-10	20430642	109884661	139365960	3	4630											
HAO2	51179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	119923771	119923771	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagctgtctaagtcaacTcgggattttattgaaggtgg	10	12	13	6	1	2	1	1	1	1	0	3	3	2	2	0	3	3	2	0	3	4	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	119923771	T	C	119923771	2	2	81	1	0	0	0	0	0	0	0	1	6952	1538	54	3		3	HAO2	1	119923771	Silent	SNP	T	TCGA-B0-4818-01A-01D-1501-10	10039110	119923771	129326850	4	4631											
NOS1AP	9722	broad.mit.edu	37	chr1	162040040	162040040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccttgcacaacgaggacGccttccagcacggcatctgc	8	7	9	17	3	1	0	0	0	1	0	3	2	3	1	4	2	4	3	4	2	1	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	162040040	A	A	162040040	3	1	81	1	0	0	0	0	1	0	0	0	10542	1087	38	1	75	1	NOS1AP	1	162040040	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	42116269	162040040	87210581	5	4632											
FMO2	2327	hgsc.bcm.edu;ucsc.edu	37	chr1	171174636	171174637	+	Frame_Shift_Ins	INS	-	-	A																															gttaaagtagagaataatatINSggtctcactgtataaataca																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	171174637	-	A	171174636	7	5	81	1	0	1	1	0	0	0	0	0	5955	1464	51	0	1068	0	FMO2	1	171174636	Frame_Shift_Ins	INS	-	TCGA-B0-4818-01A-01D-1501-10	9134596	171174636	78075985	6	4633											
HMCN1	83872	hgsc.bcm.edu;ucsc.edu	37	chr1	186114885	186114885	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattccattcttgttcacagTggatggaagttggggaagct	9	13	12	7	0	2	0	1	0	1	0	3	3	3	3	1	4	1	3	1	4	2	5	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	186114885	T	C	186114885	3	2	81	1	0	0	0	0	1	0	0	0	7220	1710	59	3	14808	3	HMCN1	1	186114885	Missense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10	14940249	186114885	63135736	7	4634											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237947723	237947723	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggatggctttcttctcCattctgacggtcaggtcggc	5	12	12	12	3	4	1	1	1	3	0	6	3	4	2	2	5	0	1	2	5	0	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	237947723	C	T	237947723	2	4	81	1	0	0	0	0	0	0	0	1	13771	581	21	2		2	RYR2	1	237947723	Silent	SNP	C	TCGA-B0-4818-01A-01D-1501-10	51832838	237947723	11302898	8	4635											
CEP68	23177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	65298597	65298597	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcattgcaggtggagaagAccaagctttcttcctccgag	10	10	11	10	1	2	2	1	0	1	2	4	5	4	2	3	2	2	2	3	2	2	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	65298597	A	T	65298597	3	4	81	1	0	0	0	0	1	0	0	0	3258	275	10	5	373	5	CEP68	2	65298597	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10		65298597	177900776	9	4636											
EXOC6B	23233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	72411218	72411218	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actcacttctcaagcagggtCagagcagtcactgggtttac	10	10	10	11	0	4	1	4	0	1	1	5	1	4	1	0	2	3	3	0	2	2	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	72411218	C	G	72411218	2	3	81	1	0	0	0	0	0	0	0	1	5309	813	29	4		4	EXOC6B	2	72411218	Silent	SNP	C	TCGA-B0-4818-01A-01D-1501-10	7112621	72411218	170788155	10	4637											
TBC1D8	11138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	101624288	101624288	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctgctgtcttgctacaAgttactcagcttaagttcag	9	13	9	10	0	3	0	2	0	1	0	3	0	3	0	0	0	6	7	0	0	4	5	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	101624288	A	T	101624288	3	4	81	1	0	0	0	0	1	0	0	0	15624	69	3	5	8	5	TBC1D8	2	101624288	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	29213070	101624288	141575085	11	4638											
R3HDM1	23518	broad.mit.edu;hgsc.bcm.edu	37	chr2	136418887	136418887	+	Silent	SNP	T	T	A																															cactatcactccagccaaccTcagtatcgcccagtcccttc																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	136418887	T	A	136418887	2	1	81	1	0	0	0	0	0	0	0	1	12889	1538	54	5		5	R3HDM1	2	136418887	Silent	SNP	T	TCGA-B0-4818-01A-01D-1501-10	34794599	136418887	106780486	12	4639	56	2									
R3HDM1	23518	broad.mit.edu;hgsc.bcm.edu	37	chr2	136418888	136418888	+	Missense_Mutation	SNP	C	C	A																															actatcactccagccaacctCagtatcgcccagtcccttct																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	136418888	C	A	136418888	3	1	81	1	0	0	0	0	1	0	0	0	12889	827	29	4	2034	4	R3HDM1	2	136418888	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	1	136418888	106780485	13	4640	56	2									
ITGA6	3655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	173354378	173354378	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggagataaactccctgAacctaacggtatgtcggtag	15	8	10	8	2	0	2	0	1	0	1	2	3	1	2	2	3	3	2	2	3	8	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	173354378	A	G	173354378	3	3	81	1	0	0	0	0	1	0	0	0	7880	246	9	3	2749	3	ITGA6	2	173354378	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	36935490	173354378	69844995	14	4641											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179438104	179438111	+	Frame_Shift_Del	DEL	CTTCCACC	CTTCCACC	-																															caatataattgatgatttcaCttccaccatcagaatcagga																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	CTTCCACC	CTTCCACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	179438111	CTTCCACC	-	179438104	7	5	81	1	0	1	0	1	0	0	0	0	16734	565	20	0	35372	0	TTN	2	179438104	Frame_Shift_Del	DEL	CTTCCACC	TCGA-B0-4818-01A-01D-1501-10	6083726	179438104	63761269	15	4642											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179472591	179472591	+	Frame_Shift_Del	DEL	T	T	-																															ttgacagcactcacccgaagTttgtaatcagcaccctctcg																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	179472591	T	-	179472591	7	5	81	1	0	1	0	1	0	0	0	0	16734	1722	60	0	55118	0	TTN	2	179472591	Frame_Shift_Del	DEL	T	TCGA-B0-4818-01A-01D-1501-10	34487	179472591	63726782	16	4643											
NEUROD1	4760	hgsc.bcm.edu	37	chr2	182542656	182542657	+	Frame_Shift_Ins	INS	-	-	C																															gattgatccgtggctttgggINScccctgccagtgtcgctgca																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	182542657	-	C	182542656	7	5	81	1	0	1	1	0	0	0	0	0	10348	1203	42	0	142	0	NEUROD1	2	182542656	Frame_Shift_Ins	INS	-	TCGA-B0-4818-01A-01D-1501-10	3070065	182542656	60656717	17	4644											
ABCB6	10058	broad.mit.edu;ucsc.edu	37	chr2	220075789	220075789	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttaaagaggacagtgtcttgGggcacaactccaatgtgaga	13	9	12	7	0	1	2	0	1	1	2	2	4	2	3	1	3	1	1	1	3	4	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	220075789	C	C	220075789	2	2	81	1	0	0	0	0	0	0	0	1	45	1219	43	4		4	ABCB6	2	220075789	Silent	SNP	G	TCGA-B0-4818-01A-01D-1501-10	37533133	220075789	23123584	18	4645											
OBSL1	23363	broad.mit.edu	37	chr2	220435111	220435111	+	Frame_Shift_Del	DEL	C	-	-																															cgggagcagcgggcggccctCccagtgccattcgatctcgg																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	220435111	-	-	220435111	7	5	81	1	0	1	0	1	0	0	0	0	10813	864	30	0	5082	0	OBSL1	2	220435111	Frame_Shift_Del	DEL	C	TCGA-B0-4818-01A-01D-1501-10	359322	220435111	22764262	19	4646											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191645	10191646	+	Frame_Shift_Ins	INS	-	-	T																															gcacatcaacggatgggagaINSttgaagatttctgttgaaac																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	10191646	-	T	10191645	7	5	81	1	0	1	1	0	0	0	0	0	17161	333	12	0	648	0	VHL	3	10191645	Frame_Shift_Ins	INS	-	TCGA-B0-4818-01A-01D-1501-10		10191645	187830785	20	4647											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52637738	52637738	+	Missense_Mutation	SNP	C	T	T																															tactgcatcttcatatatttCtgaatctgtcctataacagc																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	52637738	T	T	52637738	3	4	81	1	0	0	0	0	1	0	0	0	11491	922	32	2	2378	2	PBRM1	3	52637738	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	42446093	52637738	145384692	21	4648	57	2									
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52637740	52637740	+	Nonsense_Mutation	SNP	G	T	T																															ctgcatcttcatatatttctGaatctgtcctataacagcat																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	52637740	T	T	52637740	4	4	81	1	0	0	0	0	0	1	0	0	11491	1294	45	4	2380	4	PBRM1	3	52637740	Nonsense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	2	52637740	145384690	22	4649	57	2									
GPR128	84873	broad.mit.edu;ucsc.edu	37	chr3	100356181	100356181	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atagtaacagtgagtcaactCctagatgccagtgaagatgc	14	9	10	8	0	1	4	1	2	0	2	2	4	2	4	2	0	4	1	2	0	5	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	100356181	T	T	100356181	2	4	81	1	0	0	0	0	0	0	0	1	6641	842	30	2		2	GPR128	3	100356181	Silent	SNP	C	TCGA-B0-4818-01A-01D-1501-10	47718441	100356181	97666249	23	4650											
PTPLB	201562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	123301066	123301066	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaggacctacctccaatAaggctccagtttgaaagaat	13	10	7	11	0	1	2	1	1	1	1	4	3	3	3	4	2	1	2	4	2	5	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	123301066	A	G	123301066	3	3	81	1	0	0	0	0	1	0	0	0	12779	372	13	3	522	3	PTPLB	3	123301066	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	22944885	123301066	74721364	24	4651											
BFSP2	8419	broad.mit.edu	37	chr3	133119014	133119014	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcagggcgtccttcaggggGccacggtcatcatcctccct	5	8	12	16	3	3	0	3	0	0	0	6	0	6	0	4	4	0	1	4	4	0	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	133119014	A	A	133119014	2	1	81	1	0	0	0	0	0	0	0	1	1416	1190	42	2		2	BFSP2	3	133119014	Silent	SNP	G	TCGA-B0-4818-01A-01D-1501-10	9817948	133119014	64903416	25	4652											
EHHADH	1962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184947235	184947235	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgacctgaggtaattaagtCaagtgcagcaggaactccag	13	8	11	9	0	1	2	1	2	0	0	2	3	2	3	2	2	3	3	2	2	4	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	184947235	C	T	184947235	3	4	81	1	0	0	0	0	1	0	0	0	4982	826	29	2	1739	2	EHHADH	3	184947235	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	51828221	184947235	13075195	26	4653											
LPP	4026	broad.mit.edu;hgsc.bcm.edu	37	chr3	188426055	188426055	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgtgctttctgcctttcagGgtggccattcagggcaactg	5	13	13	10	0	3	0	2	0	1	0	3	0	3	0	2	3	3	2	2	3	1	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	188426055	G	T	188426055	3	4	81	1	0	0	0	0	1	0	0	0	8923	1246	43	4	1132	4	LPP	3	188426055	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	3478820	188426055	9596375	27	4654											
PIGG	54872	broad.mit.edu;ucsc.edu	37	chr4	520921	520921	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgctcccctgtgtccaaGgctgccctggcgctggggct	2	9	16	14	1	0	0	0	0	0	0	2	0	2	0	4	5	2	4	4	5	1	0	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	520921	A	A	520921	2	1	81	1	0	0	0	0	0	0	0	1	11888	991	35	2		2	PIGG	4	520921	Silent	SNP	G	TCGA-B0-4818-01A-01D-1501-10		520921	190633355	28	4655											
SEPT11	55752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77949832	77949832	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaattcctgggagaactgcAgaagaaagaagaagaaatga	19	6	12	4	0	0	8	0	2	0	6	1	9	1	8	1	1	2	1	1	1	7	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	77949832	A	G	77949832	3	3	81	1	0	0	0	0	1	0	0	0	14063	188	7	3	1034	3	SEPT11	4	77949832	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	77428911	77949832	113204444	29	4656											
C5orf23	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32789575	32789575	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcttttcttgaaccacaGgaatggttctacagacccta	10	14	7	10	0	3	2	0	1	3	1	3	3	3	3	2	2	2	1	2	2	4	7	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	32789575	G	T	32789575	3	4	81	1	0	0	0	0	1	0	0	0	2286	1000	35	4	70	4	C5orf23	5	32789575	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10		32789575	148125685	30	4657											
SNCAIP	9627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	121759046	121759046	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcatcatccaacatggCaccattttgtgttctttctc	8	15	6	12	0	4	0	2	0	2	0	6	1	5	0	2	1	2	3	2	1	1	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	121759046	C	T	121759046	3	4	81	1	0	0	0	0	1	0	0	0	14843	710	25	2	624	2	SNCAIP	5	121759046	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	88969471	121759046	59156214	31	4658											
SOX30	11063	broad.mit.edu;hgsc.bcm.edu	37	chr5	157078237	157078237	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaccttggtcaatcttaTcagctctgaaggcggagctc	8	10	13	10	1	4	1	2	1	2	0	5	3	4	3	1	5	2	2	1	5	3	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	157078237	T	C	157078237	3	2	81	1	0	0	0	0	1	0	0	0	14954	1435	50	3	1431	3	SOX30	5	157078237	Missense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10	35319191	157078237	23837023	32	4659											
HIST1H1C	3006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	26056217	26056217	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttagcgctcttcttcGgagttgcgccgccagccgcc	3	13	10	15	5	3	0	0	0	3	0	4	1	3	1	4	1	3	2	4	1	1	6	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	26056217	G	A	26056217	3	1	81	1	0	0	0	0	1	0	0	0	7124	1116	39	1	205	1	HIST1H1C	6	26056217	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10		26056217	145058850	33	4660											
VEGFA	7422	broad.mit.edu	37	chr6	43742101	43742101	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggctgcacccatggcAgaaggaggagggcagaatca	12	4	14	11	0	1	2	1	0	0	2	2	4	2	4	2	5	1	4	2	5	2	0	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	43742101	G	G	43742101	2	3	81	1	0	0	0	0	0	0	0	1	17149	175	7	3		3	VEGFA	6	43742101	Silent	SNP	A	TCGA-B0-4818-01A-01D-1501-10	17685884	43742101	127372966	34	4661											
C6orf97	0	hgsc.bcm.edu	37	chr6	151936781	151936781	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatgaagacactaaaaaaAtctctggaagaagcagaaaa	23	5	8	5	0	1	4	0	1	1	3	2	6	1	5	0	1	1	1	0	1	10	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	151936781	A	C	151936781	3	2	81	1	0	0	0	0	1	0	0	0	2374	98	4	5	1952	5	C6orf97	6	151936781	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	108194680	151936781	19178286	35	4662											
BZW2	28969	broad.mit.edu;ucsc.edu	37	chr7	16720980	16720980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaagatgaccaaccactGtgtgttttcagcaaatgaag	14	9	9	9	0	1	3	1	2	0	1	1	4	1	3	3	0	2	2	3	0	4	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	16720980	A	A	16720980	3	1	81	1	0	0	0	0	1	0	0	0	1579	1377	48	2	300	2	BZW2	7	16720980	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10		16720980	142417683	36	4663											
MFHAS1	9258	broad.mit.edu	37	chr8	8749266	8749266	+	Frame_Shift_Del	DEL	C	-	-																															ccctcctcctgggcatccctCcactctctcctcggtgaggc																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	8749266	-	-	8749266	7	5	81	1	0	1	0	1	0	0	0	0	9521	864	30	0	1867	0	MFHAS1	8	8749266	Frame_Shift_Del	DEL	C	TCGA-B0-4818-01A-01D-1501-10		8749266	137614756	37	4664											
PTDSS1	9791	broad.mit.edu;ucsc.edu	37	chr8	97316399	97316399	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgtaccttttcatgaTcatctggcaggtattttttc	7	18	9	7	0	3	1	2	1	1	0	4	2	3	2	1	3	1	3	1	3	2	7	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	97316399	A	A	97316399	3	1	81	1	0	0	0	0	1	0	0	0	12738	1435	50	5	910	5	PTDSS1	8	97316399	Missense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10	88567133	97316399	49047623	38	4665											
MPDZ	8777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	13224388	13224388	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttacctgggccatatttttGataagctgatcaaattcatc	11	15	6	9	0	2	2	2	2	0	0	3	2	2	2	2	1	2	1	2	1	4	6	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	13224388	G	C	13224388	3	2	81	1	0	0	0	0	1	0	0	0	9722	1280	45	4	5919	4	MPDZ	9	13224388	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10		13224388	127989043	39	4666											
TOPORS	10210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32543675	32543675	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttctacggaaaaattcaGctgaaatatccctgtagcgg	13	11	9	8	2	2	1	1	1	1	0	3	3	3	2	1	2	3	2	1	2	6	5	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	32543675	G	A	32543675	3	1	81	1	0	0	0	0	1	0	0	0	16369	971	34	2	2293	2	TOPORS	9	32543675	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	19319287	32543675	108669756	40	4667											
C9orf64	84267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86571091	86571091	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaaccttcgtcgagggCtctgttgacggcggcgcaca	7	7	13	14	5	1	1	0	1	1	0	3	2	1	1	2	3	1	4	2	3	1	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	86571091	C	G	86571091	3	3	81	1	0	0	0	0	1	0	0	0	2489	797	28	4	716	4	C9orf64	9	86571091	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	54027416	86571091	54642340	41	4668											
TDRD7	23424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100234634	100234634	+	Missense_Mutation	SNP	G	G	C																															tggttgaatctttaacttgtGgaaagatctttgcagtggaa																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	100234634	G	C	100234634	3	2	81	1	0	0	0	0	1	0	0	0	15734	1349	47	4	1835	4	TDRD7	9	100234634	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	13663543	100234634	40978797	42	4669	58	2									
TDRD7	23424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100234635	100234635	+	Missense_Mutation	SNP	G	G	T																															ggttgaatctttaacttgtgGaaagatctttgcagtggaaa																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	100234635	G	T	100234635	3	4	81	1	0	0	0	0	1	0	0	0	15734	1174	41	4	1836	4	TDRD7	9	100234635	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	1	100234635	40978796	43	4670	58	2									
TNC	3371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117840320	117840320	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggcttcaggttcccgatgGagtactggttctcgtcctct	5	13	11	12	2	3	0	1	0	2	0	6	2	5	1	2	4	1	4	2	4	1	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	117840320	G	T	117840320	3	4	81	1	0	0	0	0	1	0	0	0	16269	1174	41	4	4117	4	TNC	9	117840320	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	17605685	117840320	23373111	44	4671											
AGAP7	653268	broad.mit.edu;hgsc.bcm.edu	37	chr10	51464817	51464817	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagcttctcctcatattTggaacggatccaccgttcct	10	12	7	12	2	2	1	1	0	1	1	5	3	4	3	4	2	2	2	4	2	3	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	51464817	T	A	51464817	4	1	81	1	0	0	0	0	0	1	0	0	373	1821	63	5	356	5	AGAP7	10	51464817	Nonsense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10		51464817	84069930	45	4672											
SLC16A9	220963	hgsc.bcm.edu	37	chr10	61412636	61412653	+	In_Frame_Del	DEL	CCTCCCAGCAGGACGCAG	CCTCCCAGCAGGACGCAG	-																															ctgccagcagcagaataaaaCctcccagcaggacgcagaag																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	CCTCCCAGCAGGACGCAG	CCTCCCAGCAGGACGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	61412653	CCTCCCAGCAGGACGCAG	-	61412636	7	5	81	1	0	1	0	1	0	0	0	0	14417	507	18	0	109	0	SLC16A9	10	61412636	In_Frame_Del	DEL	CCTCCCAGCAGGACGCAG	TCGA-B0-4818-01A-01D-1501-10	9947819	61412636	74122111	46	4673											
C10orf118	55088	hgsc.bcm.edu;ucsc.edu	37	chr10	115894782	115894782	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttgataattcatcttcTgttcttaatcgttcatcttc	8	22	3	8	1	6	1	2	1	4	0	8	1	6	1	0	0	0	2	0	0	3	10	rs112902585	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	115894782	T	A	115894782	2	1	81	1	0	0	0	0	0	0	0	1	1587	1567	55	5		5	C10orf118	10	115894782	Silent	SNP	T	TCGA-B0-4818-01A-01D-1501-10	54482146	115894782	19639965	47	4674											
NUP98	4928	broad.mit.edu;ucsc.edu	37	chr11	3700799	3700799	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtacctgctgtatatggcgGagcatttcaatgactctaat	10	13	10	8	1	2	1	1	1	1	0	2	2	2	2	1	3	3	4	1	3	5	5	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	3700799	A	A	3700799	2	1	81	1	0	0	0	0	0	0	0	1	10773	1161	41	2		2	NUP98	11	3700799	Silent	SNP	G	TCGA-B0-4818-01A-01D-1501-10		3700799	131305717	48	4675											
TCP11L1	55346	hgsc.bcm.edu;ucsc.edu	37	chr11	33065367	33065367	+	Frame_Shift_Del	DEL	A	A	-																															gtaaatgaagcaggaaaatcAaaatccaatgattctgagga																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	33065367	A	-	33065367	7	5	81	1	0	1	0	1	0	0	0	0	15713	117	5	0	50	0	TCP11L1	11	33065367	Frame_Shift_Del	DEL	A	TCGA-B0-4818-01A-01D-1501-10	29364568	33065367	101941149	49	4676											
OR4C12	283093	broad.mit.edu;hgsc.bcm.edu	37	chr11	50003804	50003804	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaggaatccacaatcaaCttaggagctgaagaagaaga	19	6	10	6	0	1	5	1	2	0	3	2	7	2	7	1	2	2	1	1	2	8	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	50003804	C	A	50003804	3	1	81	1	0	0	0	0	1	0	0	0	11046	564	20	4	699	4	OR4C12	11	50003804	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	16938437	50003804	85002712	50	4677											
PLEKHA5	54477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	19514587	19514587	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggagtaaattctgtggaAatgatggataaagaaagaaa	20	9	11	1	0	1	3	0	1	1	2	1	6	1	6	0	3	0	1	0	3	8	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	19514587	A	T	19514587	3	4	81	1	0	0	0	0	1	0	0	0	12059	11	1	5	3465	5	PLEKHA5	12	19514587	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10		19514587	114337308	51	4678											
CCDC65	85478	hgsc.bcm.edu;ucsc.edu	37	chr12	49312242	49312242	+	Frame_Shift_Del	DEL	T	T	-																															tgaagtacagatgaaaaaaaTacagaaactacaggttagtg																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	49312242	T	-	49312242	7	5	81	1	0	1	0	1	0	0	0	0	2837	1406	49	0	812	0	CCDC65	12	49312242	Frame_Shift_Del	DEL	T	TCGA-B0-4818-01A-01D-1501-10	29797655	49312242	84539653	52	4679											
CRYL1	51084	broad.mit.edu;ucsc.edu	37	chr13	21063530	21063530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatgtgcatggcaccctcTactgcttcttggatattggg	7	14	11	9	0	2	1	0	1	2	0	2	2	2	2	1	3	3	3	1	3	3	5	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	21063530	C	C	21063530	2	2	81	1	0	0	0	0	0	0	0	1	3920	1509	53	3		3	CRYL1	13	21063530	Silent	SNP	T	TCGA-B0-4818-01A-01D-1501-10		21063530	94106348	53	4680											
C13orf18	0	broad.mit.edu;ucsc.edu	37	chr13	46919715	46919715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcaagtgtcccggcaccTgctcgaactcctttaatgca	9	10	8	14	2	1	0	1	0	0	0	4	1	3	0	3	1	3	3	3	1	3	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	46919715	C	C	46919715	3	2	81	1	0	0	0	0	1	0	0	0	1720	1580	55	3	348	3	C13orf18	13	46919715	Missense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10	25856185	46919715	68250163	54	4681											
FAM179B	23116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45433557	45433557	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttacagcccaactatcTgtacccgaagggtattaagt	12	11	8	10	1	2	0	0	0	2	0	2	2	2	0	2	1	4	2	2	1	7	5	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	45433557	T	A	45433557	3	1	81	1	0	0	0	0	1	0	0	0	5506	1580	55	5	1935	5	FAM179B	14	45433557	Missense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10		45433557	61915983	55	4682											
HERC2	8924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	28436294	28436294	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgaattacctgacactaCaaccagggacggcatgtagc	14	7	9	11	1	0	2	0	2	0	0	0	3	0	3	2	2	5	2	2	2	6	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	28436294	C	A	28436294	3	1	81	1	0	0	0	0	1	0	0	0	7058	478	17	4	6116	4	HERC2	15	28436294	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10		28436294	74095098	56	4683											
UBR1	197131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43360146	43360146	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcctctgcgagctcacagtCaagagctctttgtaggctgt	7	11	12	11	1	4	1	2	0	2	1	4	2	4	1	1	2	3	4	1	2	2	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	43360146	C	T	43360146	3	4	81	1	0	0	0	0	1	0	0	0	16900	826	29	2	4669	2	UBR1	15	43360146	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	14923852	43360146	59171246	57	4684											
CELF6	60677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72579669	72579669	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgagcctcttcatgccaatTtgaaagccattcatcgcctg	9	13	7	12	1	3	2	2	2	1	0	4	2	3	2	4	0	3	0	4	0	2	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	72579669	T	A	72579669	3	1	81	1	0	0	0	0	1	0	0	0	3220	1838	64	5	66	5	CELF6	15	72579669	Missense_Mutation	SNP	T	TCGA-B0-4818-01A-01D-1501-10	29219523	72579669	29951723	58	4685											
KLHL25	64410	broad.mit.edu	37	chr15	86312584	86312584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggcgtccgagagcagcAtcatgcccaggcagttggag	8	6	17	10	2	1	1	1	0	0	1	2	3	2	2	2	4	3	4	2	4	0	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	86312584	G	G	86312584	3	3	81	1	0	0	0	0	1	0	0	0	8380	217	8	3	1315	3	KLHL25	15	86312584	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	13732915	86312584	16218808	59	4686											
ACSM3	6296	hgsc.bcm.edu;ucsc.edu	37	chr16	20803368	20803369	+	Frame_Shift_Ins	INS	-	-	AA																															ctctacgaggcaatttctatINSatcactggggacagaggata																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		AA	20803369	-	AA	20803368	7	5	81	1	0	1	1	0	0	0	0	0	185	1413	49	0	1502	0	ACSM3	16	20803368	Frame_Shift_Ins	INS	-	TCGA-B0-4818-01A-01D-1501-10		20803368	69551385	60	4687											
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30747584	30747584	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccaggccaaggctgaacagGtggctgagcttgcagaattt	10	8	13	10	0	0	3	0	2	0	1	0	3	0	3	2	4	3	4	2	4	3	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	30747584	G	T	30747584	3	4	81	1	0	0	0	0	1	0	0	0	15136	1261	44	4	6911	4	SRCAP	16	30747584	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	9944216	30747584	59607169	61	4688											
GPT2	84706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	46950590	46950590	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtgatccactttgcctggGaagagaagctctttctcctg	8	13	10	10	0	2	2	0	1	2	1	4	4	3	3	3	1	2	1	3	1	2	2	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	46950590	G	T	46950590	4	4	81	1	0	0	0	0	0	1	0	0	6738	1175	41	4	893	4	GPT2	16	46950590	Nonsense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	16203006	46950590	43404163	62	4689											
CEP76	79959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	12697299	12697299	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgccattccagaaaatatGatgctactaaagtcgtctca	14	11	6	10	2	1	2	1	1	1	1	5	2	2	2	2	0	2	1	2	0	6	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	12697299	G	A	12697299	3	1	81	1	0	0	0	0	1	0	0	0	3261	1294	45	2	1382	2	CEP76	18	12697299	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10		12697299	65379949	63	4690											
SS18	6760	hgsc.bcm.edu;ucsc.edu	37	chr18	23632629	23632629	+	Frame_Shift_Del	DEL	T	T	-																															tatttggtctgggaccatagTttcccattggttgtccctga																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	23632629	T	-	23632629	7	5	81	1	0	1	0	1	0	0	0	0	15176	1725	60	0	718	0	SS18	18	23632629	Frame_Shift_Del	DEL	T	TCGA-B0-4818-01A-01D-1501-10	10935330	23632629	54444619	64	4691											
ST8SIA3	51046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55027490	55027490	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggctcaccaagctgacTctgtcacactgtgcctaaga	11	8	10	12	0	3	2	2	1	1	1	3	3	3	2	2	1	2	2	2	1	3	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	55027490	T	A	55027490	2	1	81	1	0	0	0	0	0	0	0	1	15234	1538	54	5		5	ST8SIA3	18	55027490	Silent	SNP	T	TCGA-B0-4818-01A-01D-1501-10	31394861	55027490	23049758	65	4692											
ZNF536	9745	broad.mit.edu	37	chr19	30935867	30935867	+	Frame_Shift_Del	DEL	G	-	-																															atgaaggagaaggaagcgctGgggaagctgctgtctcccat																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	30935867	-	-	30935867	7	5	81	1	0	1	0	1	0	0	0	0	17973	1335	47	0	1400	0	ZNF536	19	30935867	Frame_Shift_Del	DEL	G	TCGA-B0-4818-01A-01D-1501-10		30935867	28193116	66	4693											
C19orf46	0	broad.mit.edu;ucsc.edu	37	chr19	36494533	36494533	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctggattcccctccagcCtcacatcctggagatgagga	9	8	9	15	0	1	2	1	1	0	1	4	5	4	4	6	3	1	0	6	3	0	1	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		G	36494533	G	G	36494533	3	3	81	1	0	0	0	0	1	0	0	0	1929	681	24	4	209	4	C19orf46	19	36494533	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	5558666	36494533	22634450	67	4694											
TMEM145	284339	broad.mit.edu;ucsc.edu	37	chr19	42821063	42821063	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccgtgaagttgtctgtctAcatgaccctgtacacgctca	8	12	8	13	2	3	2	1	2	2	0	4	2	4	2	2	0	2	3	2	0	3	3	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		C	42821063	C	C	42821063	3	2	81	1	0	0	0	0	1	0	0	0	16058	391	14	5	890	5	TMEM145	19	42821063	Missense_Mutation	SNP	A	TCGA-B0-4818-01A-01D-1501-10	6326530	42821063	16307920	68	4695											
PROKR2	128674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	5294646	5294646	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcacagagcacgtggcCatgctcccaggagagctgcc	9	4	15	13	1	0	2	0	0	0	2	1	4	1	3	3	4	4	4	3	4	0	0	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	5294646	C	A	5294646	3	1	81	1	0	0	0	0	1	0	0	0	12555	594	21	4	791	4	PROKR2	20	5294646	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10		5294646	57730874	69	4696											
SLC5A3	6526	hgsc.bcm.edu;ucsc.edu	37	chr21	35468377	35468377	+	Frame_Shift_Del	DEL	C	C	-																															ttgcagccaaaaacattgctCatgccaaaggctctactctt																								novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		-	35468377	C	-	35468377	7	5	81	1	0	1	0	1	0	0	0	0	14668	826	29	0	882	0	SLC5A3	21	35468377	Frame_Shift_Del	DEL	C	TCGA-B0-4818-01A-01D-1501-10		35468377	12661518	70	4697											
EFHC2	80258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	44108155	44108155	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgatagactctaggtGggcaattctggaagacaaaa	13	10	12	6	0	2	3	0	1	2	2	2	4	2	4	0	4	0	2	0	4	6	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	44108155	G	T	44108155	3	4	81	1	0	0	0	0	1	0	0	0	4947	1348	47	4	1423	4	EFHC2	23	44108155	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10		44108155	111162405	71	4698											
FAAH2	158584	hgsc.bcm.edu;ucsc.edu	37	chrX	57367784	57367784	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtagcattcgaatgcctGctttcttcaatggtatattt	8	17	9	7	1	2	0	1	0	1	0	3	1	2	0	1	2	3	4	1	2	5	7	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	57367784	G	A	57367784	3	1	81	1	0	0	0	0	1	0	0	0	5354	1319	46	2	721	2	FAAH2	23	57367784	Missense_Mutation	SNP	G	TCGA-B0-4818-01A-01D-1501-10	13259629	57367784	97902776	72	4699											
UTP14A	10813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129045756	129045756	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcagatccacagagaagtAgcattcaataaaaccgcaca	17	7	6	11	1	2	2	2	0	0	2	3	3	3	2	2	0	2	3	2	0	5	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		T	129045756	A	T	129045756	2	4	81	1	0	0	0	0	0	0	0	1	17094	407	15	5		5	UTP14A	23	129045756	Silent	SNP	A	TCGA-B0-4818-01A-01D-1501-10	71677972	129045756	26224804	73	4700											
FGF13	2258	broad.mit.edu;ucsc.edu	37	chrX	137793084	137793084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttgctggggctgctgaCacacttgcaggcgttggatt	5	12	14	10	1	0	1	0	1	0	0	0	2	0	2	1	4	3	5	1	4	0	4	novel		TCGA-B0-4818-01A-01D-1501-10	TCGA-B0-4818-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	213bf382-c2ca-45d4-95ae-329e6653620f	c7fb63a2-c509-4f88-bfcd-53adc064c740		A	137793084	A	A	137793084	3	1	81	1	0	0	0	0	1	0	0	0	5842	478	17	4	675	4	FGF13	23	137793084	Missense_Mutation	SNP	C	TCGA-B0-4818-01A-01D-1501-10	8747328	137793084	17477476	74	4701											
KIF1B	23095	hgsc.bcm.edu;ucsc.edu	37	chr1	10397234	10397234	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaggtcatcactcctccaGaagaaatcagtcgaattaat	14	10	7	10	1	3	3	3	1	0	2	6	4	5	3	2	1	0	0	2	1	4	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	10397234	G	A	10397234	3	1	82	1	0	0	0	0	1	0	0	0	8284	943	33	2	4689	2	KIF1B	1	10397234	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10		10397234	238853387	1	4702											
PRAMEF12	390999	hgsc.bcm.edu	37	chr1	12835193	12835193	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgcaggcctggcccttCacctgccttcctctagggtc	4	11	11	15	0	2	0	1	0	1	0	4	0	3	0	5	4	2	1	5	4	1	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	12835193	C	A	12835193	3	1	82	1	0	0	0	0	1	0	0	0	12430	825	29	4	185	4	PRAMEF12	1	12835193	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10	2437959	12835193	236415428	2	4703											
FAM167B	84734	hgsc.bcm.edu	37	chr1	32713083	32713083	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggacgaggaggatgaggagGgggagagcctggactctgtg	10	5	21	5	1	1	2	0	1	1	1	1	9	1	7	1	7	1	0	1	7	0	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	32713083	G	A	32713083	3	1	82	1	0	0	0	0	1	0	0	0	5484	1232	43	2	63	2	FAM167B	1	32713083	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	19877890	32713083	216537538	3	4704											
MACF1	23499	hgsc.bcm.edu	37	chr1	39900149	39900149	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcaattcagagcgttatGcccgcctagagcgggcccag	9	8	11	13	3	2	2	2	0	0	2	2	2	2	2	3	1	4	1	3	1	4	4	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	39900149	G	A	39900149	3	1	82	1	0	0	0	0	1	0	0	0	9144	1319	46	2	17848	2	MACF1	1	39900149	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	7187066	39900149	209350472	4	4705											
TRIM45	80263	hgsc.bcm.edu	37	chr1	117660996	117660996	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttccagctgcttcagcagCttgtcccgatgctcctcaat	6	13	7	15	1	3	0	2	0	1	0	6	1	6	0	3	0	5	5	3	0	1	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	117660996	C	T	117660996	2	4	82	1	0	0	0	0	0	0	0	1	16519	796	28	2		2	TRIM45	1	117660996	Silent	SNP	C	TCGA-B0-4819-01A-01D-1361-10	77760847	117660996	131589625	5	4706											
FAM78B	149297	hgsc.bcm.edu	37	chr1	166135418	166135418	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggtcgatggtggcgcacAcatcgtacaccacgatgttc	9	9	11	12	4	0	0	0	0	0	0	3	2	0	0	1	3	1	3	1	3	1	2	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	166135418	A	G	166135418	3	3	82	1	0	0	0	0	1	0	0	0	5627	159	6	3	725	3	FAM78B	1	166135418	Missense_Mutation	SNP	A	TCGA-B0-4819-01A-01D-1361-10	48474422	166135418	83115203	6	4707											
CLK1	1195	hgsc.bcm.edu	37	chr2	201718657	201718657	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacagcgtcttgaaacatatCtgccggcagaactgtgttca	11	11	9	10	2	3	2	1	1	2	1	3	2	3	2	1	1	5	2	1	1	4	4	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	201718657	C	G	201718657	3	3	82	1	0	0	0	0	1	0	0	0	3536	913	32	4	182	4	CLK1	2	201718657	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10		201718657	41480716	7	4708											
PLEKHM3	389072	hgsc.bcm.edu	37	chr2	208795801	208795801	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgtcgatgagcggctCttcgtacacgtactccagaa	9	10	11	11	4	1	2	0	1	1	1	4	4	2	3	1	2	3	3	1	2	3	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	208795801	C	A	208795801	4	1	82	1	0	0	0	0	0	1	0	0	12082	922	32	4	566	4	PLEKHM3	2	208795801	Nonsense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10	7077144	208795801	34403572	8	4709											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191470	10191470	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtttttgcccttccaGtgtatactctgaaagagcga	9	15	9	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	3	6	rs5030817		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	10191470	G	A	10191470	5	1	82	1	0	0	0	0	0	0	1	0	17161	1043	36	2	473	2	VHL	3	10191470	Splice_Site	SNP	G	TCGA-B0-4819-01A-01D-1361-10		10191470	187830960	9	4710											
SCN10A	6336	hgsc.bcm.edu;ucsc.edu	37	chr3	38798643	38798643	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggcagatataaccatcagGgcagtggctgcagcaagaac	15	5	12	9	0	1	2	1	0	0	2	1	2	1	2	1	3	4	5	1	3	5	2	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	38798643	G	A	38798643	3	1	82	1	0	0	0	0	1	0	0	0	13914	1232	43	2	4992	2	SCN10A	3	38798643	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	28607173	38798643	159223787	10	4711											
DHX30	22907	hgsc.bcm.edu;ucsc.edu	37	chr3	47891146	47891146	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacggttacggagccgatGgctgacgtatttcatggcag	9	9	13	10	4	1	1	1	1	0	0	1	3	1	2	1	4	2	4	1	4	2	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	47891146	G	A	47891146	4	1	82	1	0	0	0	0	0	1	0	0	4504	1357	47	2	3303	2	DHX30	3	47891146	Nonsense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	9092503	47891146	150131284	11	4712											
SST	6750	hgsc.bcm.edu	37	chr3	187388007	187388007	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtctggggtccgagggagCgccggtgacacagcccaggg	7	4	19	11	3	1	1	0	1	1	0	2	4	2	2	3	5	2	0	3	5	0	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	187388007	C	T	187388007	3	4	82	1	0	0	0	0	1	0	0	0	15197	768	27	1	285	1	SST	3	187388007	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10	139496861	187388007	10634423	12	4713											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506704	195506704	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaagacgggtggtgtcaTctgtggaagctgaggaagtg	10	8	18	5	1	2	2	1	1	1	1	2	5	2	5	0	5	1	1	0	5	3	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		C	195506704	T	C	195506704	3	2	82	1	0	0	0	0	1	0	0	0	9978	1435	50	3		3	MUC4	3	195506704	Missense_Mutation	SNP	T	TCGA-B0-4819-01A-01D-1361-10	8118697	195506704	2515726	13	4714											
GRXCR1	389207	hgsc.bcm.edu;ucsc.edu	37	chr4	42895568	42895568	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagggttttggtacaagAagagtcaacattttaagcaa	16	10	11	4	0	1	3	1	0	0	3	1	4	1	3	0	2	3	3	0	2	7	5	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	42895568	A	T	42895568	3	4	82	1	0	0	0	0	1	0	0	0	6812	243	9	5	287	5	GRXCR1	4	42895568	Missense_Mutation	SNP	A	TCGA-B0-4819-01A-01D-1361-10		42895568	148258708	14	4715											
GALNT7	51809	hgsc.bcm.edu	37	chr4	174223217	174223217	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtccccagccatggctgggGgattatttgccattgaacga	8	10	13	10	1	0	1	0	1	0	0	1	3	1	2	4	4	3	1	4	4	2	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		C	174223217	G	C	174223217	3	2	82	1	0	0	0	0	1	0	0	0	6218	1233	43	4	1194	4	GALNT7	4	174223217	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	131327649	174223217	16931059	15	4716											
RAPGEF6	51735	hgsc.bcm.edu;ucsc.edu	37	chr5	130788816	130788816	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caacttggcggatttccttgGaaatcattcttaacttctca	10	15	6	10	1	3	0	2	0	2	0	5	2	4	2	1	3	2	0	1	3	3	6	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	130788816	G	T	130788816	3	4	82	1	0	0	0	0	1	0	0	0	13050	1174	41	4	2169	4	RAPGEF6	5	130788816	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10		130788816	50126444	16	4717											
ANKRD43	0	hgsc.bcm.edu;ucsc.edu	37	chr5	132150878	132150878	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagacaaagatccgcggtgGtctgccagccttctcagaaa	13	7	10	11	2	2	3	1	0	2	3	4	3	3	3	3	2	2	0	3	2	3	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		C	132150878	G	C	132150878	3	2	82	1	0	0	0	0	1	0	0	0	671	1261	44	4	1567	4	ANKRD43	5	132150878	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	1362062	132150878	48764382	17	4718											
ARAP3	64411	hgsc.bcm.edu	37	chr5	141046056	141046056	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcctgggcccggcgctGagcacaggaagaggtggtca	7	4	20	10	2	1	2	1	1	0	1	1	3	1	3	2	7	1	2	2	7	1	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	141046056	G	T	141046056	4	4	82	1	0	0	0	0	0	1	0	0	840	1294	45	4	2195	4	ARAP3	5	141046056	Nonsense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	8895178	141046056	39869204	18	4719											
C5orf25	0	hgsc.bcm.edu	37	chr5	175740819	175740819	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccattgcaaacatggtgctTtcctgtgacaagcagcccca	10	10	8	13	0	0	1	0	1	0	0	2	1	2	1	4	1	5	3	4	1	2	2	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	175740819	T	G	175740819	2	3	82	1	0	0	0	0	0	0	0	1	2288	1828	64	5		5	C5orf25	5	175740819	Silent	SNP	T	TCGA-B0-4819-01A-01D-1361-10	34694763	175740819	5174441	19	4720											
HLA-C	3107	hgsc.bcm.edu	37	chr6	31237786	31237786	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcggtgaccacagctccAaggacagctaggacaaccag	14	4	11	12	1	0	1	0	1	0	0	1	3	1	3	3	3	4	2	3	3	4	2	rs41556617	bycluster	TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	31237786	A	T	31237786	2	4	82	1	0	0	0	0	0	0	0	1	7197	117	5	5		5	HLA-C	6	31237786	Silent	SNP	A	TCGA-B0-4819-01A-01D-1361-10		31237786	139877281	20	4721											
ZNF704	619279	hgsc.bcm.edu;ucsc.edu	37	chr8	81577134	81577134	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaacttagtctccgttttGgcacaaggagtttctgttcg	8	15	9	9	2	3	0	1	0	2	0	5	1	3	1	1	2	1	4	1	2	3	5	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	81577134	G	T	81577134	2	4	82	1	0	0	0	0	0	0	0	1	18106	1335	47	4		4	ZNF704	8	81577134	Silent	SNP	G	TCGA-B0-4819-01A-01D-1361-10		81577134	64786888	21	4722											
SPAG1	6674	hgsc.bcm.edu	37	chr8	101196265	101196265	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaagtcacacttgtctaaAattgagacaagaatagatac	18	9	7	7	0	2	3	1	1	1	3	2	5	2	3	0	0	1	0	0	0	7	5	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	101196265	A	G	101196265	2	3	82	1	0	0	0	0	0	0	0	1	14977	11	1	3		3	SPAG1	8	101196265	Silent	SNP	A	TCGA-B0-4819-01A-01D-1361-10	19619131	101196265	45167757	22	4723											
SEMA4D	10507	hgsc.bcm.edu	37	chr9	92017852	92017852	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcccgggcacctatgtaCaaggtgtccttgtcctcgct	5	11	10	15	2	0	0	0	0	0	0	4	0	3	0	5	2	1	3	5	2	3	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	92017852	C	T	92017852	2	4	82	1	0	0	0	0	0	0	0	1	14036	477	17	2		2	SEMA4D	9	92017852	Silent	SNP	C	TCGA-B0-4819-01A-01D-1361-10		92017852	49195579	23	4724											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98239880	98239880	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaatgagcacaggcccagTcctgcagccactgacagtgc	11	6	10	14	0	1	2	1	2	0	0	2	2	2	2	3	1	4	2	3	1	1	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		C	98239880	T	C	98239880	2	2	82	1	0	0	0	0	0	0	0	1	12732	1654	58	3		3	PTCH1	9	98239880	Silent	SNP	T	TCGA-B0-4819-01A-01D-1361-10	6222028	98239880	42973551	24	4725											
ALOX5	240	hgsc.bcm.edu	37	chr10	45935953	45935953	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgactggcttttggccaaaAtctgggtgcgttccagtgac	8	11	12	10	2	1	1	0	1	1	0	2	2	2	1	2	3	1	2	2	3	2	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	45935953	A	T	45935953	3	4	82	1	0	0	0	0	1	0	0	0	540	101	4	5	1087	5	ALOX5	10	45935953	Missense_Mutation	SNP	A	TCGA-B0-4819-01A-01D-1361-10		45935953	89598794	25	4726											
GLYAT	10249	hgsc.bcm.edu	37	chr11	58482866	58482866	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagattgaatggatttcCatggtttatgtgaaagacag	12	14	10	5	0	1	4	1	2	0	2	2	5	2	5	1	2	0	1	1	2	3	5	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	58482866	C	T	58482866	3	4	82	1	0	0	0	0	1	0	0	0	6479	603	21	2	798	2	GLYAT	11	58482866	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10		58482866	76523650	26	4727											
HEPHL1	341208	hgsc.bcm.edu	37	chr11	93754553	93754553	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatgcctcggaagcagccaGctggctgcatctttctcctc	8	10	9	14	1	2	0	0	0	2	0	5	1	2	1	3	2	5	4	3	2	2	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	93754553	G	T	93754553	3	4	82	1	0	0	0	0	1	0	0	0	7055	971	34	4	21	4	HEPHL1	11	93754553	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	35271687	93754553	41251963	27	4728											
ATP2A2	488	hgsc.bcm.edu	37	chr12	110778549	110778549	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgaagctgtgccggcaagCaggcatccgggtcatcatga	9	7	14	11	3	2	2	2	2	0	0	3	2	3	2	2	3	3	4	2	3	2	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	110778549	C	T	110778549	3	4	82	1	0	0	0	0	1	0	0	0	1137	710	25	2	1901	2	ATP2A2	12	110778549	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10		110778549	23073346	28	4729											
DHX37	57647	hgsc.bcm.edu	37	chr12	125448980	125448980	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccgtcctgctctgcccgCtcgctggtcagctgatgcct	2	11	11	17	4	2	1	1	1	1	0	5	1	4	1	4	1	4	4	4	1	0	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	125448980	C	T	125448980	3	4	82	1	0	0	0	0	1	0	0	0	4510	797	28	2	1520	2	DHX37	12	125448980	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10	14670431	125448980	8402915	29	4730											
ZBTB25	7597	hgsc.bcm.edu	37	chr14	64953924	64953924	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcttttccttgaaaaaGaaaaattacagtttaattct	14	19	3	5	0	2	2	0	1	2	1	3	2	3	2	1	0	1	1	1	0	6	9	rs142507817	alternate_allele	TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	64953924	G	T	64953924	3	4	82	1	0	0	0	0	1	0	0	0	17531	942	33	4	286	4	ZBTB25	14	64953924	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10		64953924	42395616	30	4731											
SPESP1	246777	hgsc.bcm.edu	37	chr15	69237966	69237966	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgacacctgatgaagagcaAaacttgaatcattatataca	17	10	7	7	0	1	5	1	4	0	1	1	5	1	5	1	0	3	1	1	0	7	4	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	69237966	A	G	69237966	2	3	82	1	0	0	0	0	0	0	0	1	15041	11	1	3		3	SPESP1	15	69237966	Silent	SNP	A	TCGA-B0-4819-01A-01D-1361-10		69237966	33293426	31	4732											
BLM	641	hgsc.bcm.edu	37	chr15	91306293	91306293	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgatgaagatttttcaTaaaaaatttggcctgcataa	17	13	7	4	0	1	3	1	2	0	1	1	4	1	3	1	1	1	1	1	1	6	5	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	91306293	T	A	91306293	3	1	82	1	0	0	0	0	1	0	0	0	1445	1403	49	5	2006	5	BLM	15	91306293	Missense_Mutation	SNP	T	TCGA-B0-4819-01A-01D-1361-10	22068327	91306293	11225099	32	4733											
IFT140	9742	hgsc.bcm.edu	37	chr16	1636198	1636198	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctgtccttgccctctGccccggggctgcccaggaag	4	7	11	19	1	1	0	0	0	1	0	2	1	2	1	7	3	3	1	7	3	1	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	1636198	G	A	1636198	3	1	82	1	0	0	0	0	1	0	0	0	7556	1319	46	2	3388	2	IFT140	16	1636198	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10		1636198	88718555	33	4734											
ATF7IP2	80063	hgsc.bcm.edu;ucsc.edu	37	chr16	10525097	10525097	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttagaaacaaactccaattCagaatcacatgataaaaggc	19	9	5	8	0	2	3	2	1	0	2	3	3	3	3	1	1	2	0	1	1	7	4	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	10525097	C	G	10525097	4	3	82	1	0	0	0	0	0	1	0	0	1088	838	29	4	622	4	ATF7IP2	16	10525097	Nonsense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10	8888899	10525097	79829656	34	4735											
NFATC3	4775	hgsc.bcm.edu	37	chr16	68225473	68225473	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcaccgtctccagccacCagaatgcattctggacagca	11	8	7	15	1	4	1	2	0	2	1	5	2	4	2	4	1	3	2	4	1	1	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	68225473	C	T	68225473	2	4	82	1	0	0	0	0	0	0	0	1	10364	581	21	2		2	NFATC3	16	68225473	Silent	SNP	C	TCGA-B0-4819-01A-01D-1361-10	57700376	68225473	22129280	35	4736											
ADAMTS18	170692	hgsc.bcm.edu	37	chr16	77468336	77468336	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatttaatccgctggcgcCgctgctgctgtcactggcta	6	12	10	13	3	2	0	2	0	0	0	3	0	3	0	2	2	2	5	2	2	2	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	77468336	C	G	77468336	3	3	82	1	0	0	0	0	1	0	0	0	263	652	23	4	3596	4	ADAMTS18	16	77468336	Missense_Mutation	SNP	C	TCGA-B0-4819-01A-01D-1361-10	9242863	77468336	12886417	36	4737											
YWHAE	7531	hgsc.bcm.edu	37	chr17	1257623	1257623	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctgcaattgcatcatcAaaagctgcttttgccaacct	11	13	6	11	0	3	0	2	0	1	0	3	0	3	0	2	0	6	5	2	0	4	4	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	1257623	A	G	1257623	2	3	82	1	0	0	0	0	0	0	0	1	17501	127	5	3		3	YWHAE	17	1257623	Silent	SNP	A	TCGA-B0-4819-01A-01D-1361-10		1257623	79937587	37	4738											
PITPNM3	83394	hgsc.bcm.edu	37	chr17	6367535	6367535	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caccaacccccaggcgccggGgccgcggcacattgtatgtg	7	5	13	16	4	0	0	0	0	0	0	0	0	0	0	5	4	1	2	5	4	2	2	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		C	6367535	G	C	6367535	3	2	82	1	0	0	0	0	1	0	0	0	11952	1232	43	4	833	4	PITPNM3	17	6367535	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	5109912	6367535	74827675	38	4739											
USP32	84669	hgsc.bcm.edu;ucsc.edu	37	chr17	58343414	58343414	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcagttcaaccctggagaGaactccatcacggtcaacat	12	9	7	13	1	4	1	4	0	1	1	6	3	5	2	2	2	3	1	2	2	3	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		A	58343414	G	A	58343414	3	1	82	1	0	0	0	0	1	0	0	0	17062	942	33	2	4072	2	USP32	17	58343414	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10	51975879	58343414	22851796	39	4740											
SLC38A10	124565	hgsc.bcm.edu	37	chr17	79268692	79268692	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcacgatgttcgtgatcagCccccagttggaggcggcggc	6	9	14	12	4	2	1	2	1	0	0	3	3	2	2	2	4	1	2	2	4	0	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	79268692	C	T	79268692	2	4	82	1	0	0	0	0	0	0	0	1	14604	726	26	2		2	SLC38A10	17	79268692	Silent	SNP	C	TCGA-B0-4819-01A-01D-1361-10	20925278	79268692	1926518	40	4741											
DNMT1	1786	hgsc.bcm.edu	37	chr19	10244940	10244940	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatacaaagcttgatctccAagccaatggctttggccagg	12	9	9	11	0	1	1	0	1	1	0	2	1	1	1	3	3	3	2	3	3	4	3	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		G	10244940	A	G	10244940	3	3	82	1	0	0	0	0	1	0	0	0	4675	131	5	3	89	3	DNMT1	19	10244940	Missense_Mutation	SNP	A	TCGA-B0-4819-01A-01D-1361-10		10244940	48884043	41	4742											
NWD1	284434	hgsc.bcm.edu;ucsc.edu	37	chr19	16875873	16875873	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggatttcctgccggggCatctctgggggcattgaaga	7	10	15	9	1	1	2	0	1	1	1	3	3	2	3	2	5	2	3	2	5	1	2	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	16875873	C	T	16875873	2	4	82	1	0	0	0	0	0	0	0	1	10781	697	25	2		2	NWD1	19	16875873	Silent	SNP	C	TCGA-B0-4819-01A-01D-1361-10	6630933	16875873	42253110	42	4743											
TGM6	343641	hgsc.bcm.edu	37	chr20	2375966	2375966	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaccgtcagtctcgccaGccctcccagtgctgtcattg	5	11	9	16	2	4	1	2	1	2	0	6	1	5	1	4	0	2	1	4	0	0	1	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	2375966	G	T	2375966	3	4	82	1	0	0	0	0	1	0	0	0	15833	971	34	4	318	4	TGM6	20	2375966	Missense_Mutation	SNP	G	TCGA-B0-4819-01A-01D-1361-10		2375966	60649554	43	4744											
LSS	4047	hgsc.bcm.edu	37	chr21	47642638	47642638	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgcgtgccacgtggcAagtgatcaggaggcctgtgt	8	8	17	8	2	1	1	1	1	0	0	1	3	1	3	2	4	2	1	2	4	1	0	novel		TCGA-B0-4819-01A-01D-1361-10	TCGA-B0-4819-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5df3f4f0-5000-42a2-9e85-c3b0e93eae49	d02a7555-9cad-43ac-883c-031847eba9e2		T	47642638	A	T	47642638	3	4	82	1	0	0	0	0	1	0	0	0	9065	130	5	5	1940	5	LSS	21	47642638	Missense_Mutation	SNP	A	TCGA-B0-4819-01A-01D-1361-10		47642638	487257	44	4745											
C1orf63	57035	hgsc.bcm.edu	37	chr1	25569164	25569164	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctcttctgtggcagctttAgctgatttttgtattggctt	4	19	10	8	0	2	1	0	1	2	0	2	1	2	1	1	2	2	5	1	2	2	8	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	25569164	A	C	25569164	2	2	83	1	0	0	0	0	0	0	0	1	2053	407	15	5		5	C1orf63	1	25569164	Silent	SNP	A	TCGA-B0-4822-01A-01D-1361-10		25569164	223681457	1	4746											
WDTC1	23038	hgsc.bcm.edu	37	chr1	27587572	27587572	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagtcaacataactagagaCctcatccgtaggcagatcaa	17	7	7	10	1	3	2	3	0	0	2	4	3	4	2	2	1	2	2	2	1	6	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	27587572	C	T	27587572	2	4	83	1	0	0	0	0	0	0	0	1	17341	506	18	2		2	WDTC1	1	27587572	Silent	SNP	C	TCGA-B0-4822-01A-01D-1361-10	2018408	27587572	221663049	2	4747											
C1orf173	127254	hgsc.bcm.edu	37	chr1	75037497	75037497	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccagagtgcactctttGtcctcttcctcctctgggtc	3	15	8	15	0	4	1	0	0	4	1	9	1	7	1	4	1	1	1	4	1	0	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	75037497	G	C	75037497	3	2	83	1	0	0	0	0	1	0	0	0	2014	1368	48	4	699	4	C1orf173	1	75037497	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	47449925	75037497	174213124	3	4748											
ABCB10	23456	hgsc.bcm.edu	37	chr1	229683267	229683267	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatactgatgcctacggaAgcctgggccccggccctgag	8	7	12	14	2	1	2	1	2	0	0	1	3	1	3	5	3	4	0	5	3	3	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	229683267	A	T	229683267	2	4	83	1	0	0	0	0	0	0	0	1	41	59	3	5		5	ABCB10	1	229683267	Silent	SNP	A	TCGA-B0-4822-01A-01D-1361-10	154645770	229683267	19567354	4	4749											
RGS7	6000	hgsc.bcm.edu	37	chr1	240976981	240976981	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttagaagggtcaggtggcAaaagaaacgggtcgtattct	12	9	15	5	2	2	2	1	0	1	2	3	2	2	2	0	5	1	3	0	5	6	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	240976981	A	C	240976981	3	2	83	1	0	0	0	0	1	0	0	0	13312	131	5	5	594	5	RGS7	1	240976981	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	11293714	240976981	8273640	5	4750											
SAP130	79595	hgsc.bcm.edu	37	chr2	128707901	128707901	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggggaggcaccaggtggtAggtcacttgtaggcatggac	8	9	17	7	0	1	0	1	0	0	0	1	2	1	2	1	8	0	4	1	8	2	4	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	128707901	A	G	128707901	3	3	83	1	0	0	0	0	1	0	0	0	13833	420	15	3	689	3	SAP130	2	128707901	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10		128707901	114491472	6	4751											
GORASP2	26003	hgsc.bcm.edu	37	chr2	171804897	171804897	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacacagagctggtttggAgcctttctttgattttattg	8	16	11	6	0	1	2	0	1	1	1	1	4	1	4	1	3	2	2	1	3	1	6	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	171804897	A	T	171804897	3	4	83	1	0	0	0	0	1	0	0	0	6576	304	11	5	107	5	GORASP2	2	171804897	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	43096996	171804897	71394476	7	4752											
CWC22	57703	hgsc.bcm.edu	37	chr2	180815323	180815323	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctatcactgctgtcagaatCagagtcggatgagtcagact	11	10	11	9	1	4	4	4	1	0	3	5	5	4	5	0	1	1	2	0	1	2	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	180815323	C	G	180815323	3	3	83	1	0	0	0	0	1	0	0	0	4068	826	29	4	678	4	CWC22	2	180815323	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	9010426	180815323	62384050	8	4753											
INO80D	54891	hgsc.bcm.edu	37	chr2	206892941	206892941	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctaaacgtatgccggcAtttcttttgacgagattctg	8	16	8	9	3	2	2	0	1	2	1	3	3	3	2	2	1	2	2	2	1	3	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	206892941	A	T	206892941	3	4	83	1	0	0	0	0	1	0	0	0	7749	217	8	5	1915	5	INO80D	2	206892941	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	26077618	206892941	36306432	9	4754											
KLF7	8609	hgsc.bcm.edu	37	chr2	207988751	207988751	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtttcaacgtcaccgtGccatccacggcagagagagt	11	7	10	13	3	2	2	2	0	0	2	3	3	3	2	4	1	2	2	4	1	1	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	207988751	G	A	207988751	2	1	83	1	0	0	0	0	0	0	0	1	8351	1306	46	2		2	KLF7	2	207988751	Silent	SNP	G	TCGA-B0-4822-01A-01D-1361-10	1095810	207988751	35210622	10	4755											
ABCA12	26154	hgsc.bcm.edu	37	chr2	215821424	215821424	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagatacagcgcctaggtTgttttcactgtagaatgcag	11	11	12	7	1	1	2	1	0	0	2	1	4	1	2	1	1	3	4	1	1	4	6	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	215821424	T	C	215821424	3	2	83	1	0	0	0	0	1	0	0	0	30	1812	63	3	1639	3	ABCA12	2	215821424	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	7832673	215821424	27377949	11	4756											
GIGYF2	26058	hgsc.bcm.edu	37	chr2	233697652	233697652	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggatggaagaggaggCagccagactccggcatgagg	10	4	18	9	2	0	3	0	1	0	2	1	6	1	6	2	6	2	3	2	6	1	0	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	233697652	C	A	233697652	3	1	83	1	0	0	0	0	1	0	0	0	6378	710	25	4	2763	4	GIGYF2	2	233697652	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	17876228	233697652	9501721	12	4757											
FGD5	152273	hgsc.bcm.edu	37	chr3	14963963	14963963	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggagaggccccccaccCtggtgcctgtcacacacgtc	6	7	12	16	1	1	1	1	0	0	1	2	2	1	1	5	4	1	0	5	4	0	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	14963963	C	A	14963963	3	1	83	1	0	0	0	0	1	0	0	0	5836	680	24	4	3773	4	FGD5	3	14963963	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10		14963963	183058467	13	4758											
LYZL4	131375	hgsc.bcm.edu	37	chr3	42438812	42438812	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcggagtactggcagtacCgggaccaggtgggcctgtgg	7	8	17	9	2	0	0	0	0	0	0	1	2	0	2	3	6	2	3	3	6	3	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	42438812	C	A	42438812	3	1	83	1	0	0	0	0	1	0	0	0	9133	652	23	4	58	4	LYZL4	3	42438812	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	27474849	42438812	155583618	14	4759											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47158203	47158203	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaaagaggtgtacactcaCactgcattcgcttaatatct	13	12	7	9	1	2	2	1	0	1	2	3	2	2	2	0	1	2	3	0	1	5	5	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	47158203	C	T	47158203	3	4	83	1	0	0	0	0	1	0	0	0	14133	478	17	2	3270	2	SETD2	3	47158203	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	4719391	47158203	150864227	15	4760											
NCKIPSD	51517	hgsc.bcm.edu	37	chr3	48720358	48720358	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggactccacgctgttccaGgctgtacttgccaccatccc	7	9	9	16	1	0	0	0	0	0	0	3	2	3	1	5	2	2	4	5	2	1	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	48720358	G	C	48720358	3	2	83	1	0	0	0	0	1	0	0	0	10225	991	35	4	1957	4	NCKIPSD	3	48720358	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	1562155	48720358	149302072	16	4761											
MST1R	4486	hgsc.bcm.edu;ucsc.edu	37	chr3	49936537	49936537	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcccatccattgtgcccaTgtgtgccactgtgacgttgt	6	12	10	13	2	0	1	0	1	0	0	1	1	1	1	4	0	2	1	4	0	0	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	49936537	T	C	49936537	3	2	83	1	0	0	0	0	1	0	0	0	9891	1464	51	3	2888	3	MST1R	3	49936537	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	1216179	49936537	148085893	17	4762											
PBRM1	55193	ucsc.edu	37	chr3	52598101	52598102	+	Frame_Shift_Del	DEL	AG	AG	-																															tcatcatctaccactttagcAgagagtgaaaacctcttcaa																								novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	AG	AG	AG	-	AG	AG	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		-	52598102	AG	-	52598101	7	5	83	1	0	1	0	1	0	0	0	0	11491	175	7	0	1092	0	PBRM1	3	52598101	Frame_Shift_Del	DEL	AG	TCGA-B0-4822-01A-01D-1361-10	2661564	52598101	145424329	18	4763											
BOC	91653	hgsc.bcm.edu	37	chr3	112998788	112998788	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgtgtacgagaggcccgTggcaggtccttatatcacct	7	10	12	12	4	1	1	1	0	0	1	3	2	2	1	3	3	1	2	3	3	3	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	112998788	T	C	112998788	3	2	83	1	0	0	0	0	1	0	0	0	1481	1696	59	3	2180	3	BOC	3	112998788	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	60400687	112998788	85023642	19	4764											
B4GALT4	8702	hgsc.bcm.edu	37	chr3	118945777	118945779	+	In_Frame_Del	DEL	TGT	TGT	-																															gaacgaggatggcgaccctcTgtaaagctttacattcctga																								novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		-	118945779	TGT	-	118945777	7	5	83	1	0	1	0	1	0	0	0	0	1273	1580	55	0	689	0	B4GALT4	3	118945777	In_Frame_Del	DEL	TGT	TCGA-B0-4822-01A-01D-1361-10	5946989	118945777	79076653	20	4765											
GPR125	166647	hgsc.bcm.edu;ucsc.edu	37	chr4	22394274	22394274	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgtcactcctacccataGtactgtggcaagggtggaat	10	10	11	10	0	1	0	1	0	0	0	2	1	2	1	2	3	3	3	2	3	5	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	22394274	G	C	22394274	3	2	83	1	0	0	0	0	1	0	0	0	6639	1020	36	4	1456	4	GPR125	4	22394274	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10		22394274	168760002	21	4766											
PAQR3	152559	hgsc.bcm.edu	37	chr4	79847693	79847693	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtacaataggagcaccAattcctccattgagccaaac	14	8	6	13	0	0	1	0	1	0	0	2	2	2	2	5	1	4	2	5	1	5	4	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	79847693	A	T	79847693	2	4	83	1	0	0	0	0	0	0	0	1	11436	126	5	5		5	PAQR3	4	79847693	Silent	SNP	A	TCGA-B0-4822-01A-01D-1361-10	57453419	79847693	111306583	22	4767											
ANK2	287	hgsc.bcm.edu	37	chr4	114179539	114179539	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcctccttctgctgcagaAcggagcctctccagatgtca	7	11	9	14	1	3	2	1	0	2	2	6	3	5	3	4	1	4	2	4	1	1	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	114179539	A	G	114179539	3	3	83	1	0	0	0	0	1	0	0	0	621	43	2	3	1433	3	ANK2	4	114179539	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	34331846	114179539	76974737	23	4768											
LNPEP	4012	hgsc.bcm.edu;ucsc.edu	37	chr5	96320855	96320855	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttttgatgaaccagcatTtaaagccacttttatcatca	12	16	5	8	0	2	2	2	2	0	0	2	2	2	2	2	0	3	2	2	0	4	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	96320855	T	G	96320855	3	3	83	1	0	0	0	0	1	0	0	0	8864	1841	64	5	942	5	LNPEP	5	96320855	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10		96320855	84594405	24	4769											
SLC22A4	6583	hgsc.bcm.edu	37	chr5	131662999	131662999	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatctccccgatggctgaTatcccagagaagatttagag	12	10	10	9	1	1	5	0	2	1	3	3	7	2	5	3	1	0	1	3	1	4	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	131662999	T	C	131662999	3	2	83	1	0	0	0	0	1	0	0	0	14458	1406	49	3	872	3	SLC22A4	5	131662999	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	35342144	131662999	49252261	25	4770											
PCDHGA12	26025	hgsc.bcm.edu	37	chr5	140812569	140812570	+	Frame_Shift_Del	DEL	CT	CT	-																															gggcgtggacggggtgcaggCtttcctgcagacctattccc																								novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		-	140812570	CT	-	140812569	7	5	83	1	0	1	0	1	0	0	0	0	11553	797	28	0	2245	0	PCDHGA12	5	140812569	Frame_Shift_Del	DEL	CT	TCGA-B0-4822-01A-01D-1361-10	9149570	140812569	40102691	26	4771											
TCERG1	10915	hgsc.bcm.edu	37	chr5	145862191	145862191	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacattgactcagagaaagaAgctgccatggaagctgaaat	16	7	11	7	0	1	4	1	2	0	2	1	7	1	5	1	1	3	2	1	1	4	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	145862191	A	G	145862191	2	3	83	1	0	0	0	0	0	0	0	1	15684	69	3	3		3	TCERG1	5	145862191	Silent	SNP	A	TCGA-B0-4822-01A-01D-1361-10	5049622	145862191	35053069	27	4772											
HAVCR2	84868	hgsc.bcm.edu;ucsc.edu	37	chr5	156514240	156514240	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtatagatgttttcttctGagcgaattccctctgctact	7	17	8	9	1	3	2	0	1	3	1	4	3	4	2	1	1	3	3	1	1	4	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	156514240	G	T	156514240	4	4	83	1	0	0	0	0	0	1	0	0	6974	1294	45	4	130	4	HAVCR2	5	156514240	Nonsense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	10652049	156514240	24401020	28	4773											
KIAA0408	9729	hgsc.bcm.edu;ucsc.edu	37	chr6	127767753	127767753	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagactctgttgctgtctCataggttttcagcagctttt	6	17	9	9	0	3	1	2	0	2	1	4	1	3	1	0	1	4	6	0	1	1	6	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	127767753	C	T	127767753	3	4	83	1	0	0	0	0	1	0	0	0	8174	835	29	2	381	2	KIAA0408	6	127767753	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10		127767753	43347314	29	4774											
ULBP3	79465	hgsc.bcm.edu	37	chr6	150386572	150386572	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgtgcatcaggaagTccctaagccagctcttgcag	8	11	9	13	0	3	0	1	0	2	0	5	1	5	1	3	1	4	3	3	1	2	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	150386572	T	C	150386572	3	2	83	1	0	0	0	0	1	0	0	0	16973	1667	58	3	151	3	ULBP3	6	150386572	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	22618819	150386572	20728495	30	4775											
RSPH10B2	728194	hgsc.bcm.edu	37	chr7	6820999	6820999	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcggacgctctactctatGagttacatgaataagtgctg	11	11	10	9	2	2	2	0	2	2	0	2	3	2	3	0	1	4	3	0	1	5	4	rs17853305		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	6820999	G	A	6820999	3	1	83	1	0	0	0	0	1	0	0	0	13706	1290	45	2	4389	2	RSPH10B2	7	6820999	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10		6820999	152317664	31	4776											
TMEM196	256130	hgsc.bcm.edu	37	chr7	19765295	19765295	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggcaaggtgcagtgggtAtagggaggaagttttctttg	9	11	18	3	0	1	0	0	0	1	0	1	3	1	3	0	6	1	4	0	6	4	5	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	19765295	A	G	19765295	3	3	83	1	0	0	0	0	1	0	0	0	16117	449	16	3	225	3	TMEM196	7	19765295	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	12944296	19765295	139373368	32	4777											
EGFR	1956	hgsc.bcm.edu	37	chr7	55223609	55223609	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagacggcgtccgcaagTgtaagaagtgcgaagggcct	12	5	16	8	4	0	2	0	0	0	2	1	4	1	3	2	3	1	2	2	3	5	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	55223609	T	C	55223609	3	2	83	1	0	0	0	0	1	0	0	0	4967	1696	59	3	1006	3	EGFR	7	55223609	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	35458314	55223609	103915054	33	4778											
ZNF655	79027	hgsc.bcm.edu	37	chr7	99170266	99170266	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtaaacatgaacacttaAatctaacagaggattttcag	16	11	7	7	0	2	2	1	1	1	1	2	3	2	3	0	2	3	1	0	2	6	5	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	99170266	A	T	99170266	3	4	83	1	0	0	0	0	1	0	0	0	18067	14	1	5	1072	5	ZNF655	7	99170266	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	43946657	99170266	59968397	34	4779											
LAMB4	22798	hgsc.bcm.edu	37	chr7	107748183	107748183	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggaaaggaagtggcacagtCttttgcaaaatatttgaaca	16	10	10	5	0	1	1	0	1	1	0	1	3	1	3	0	3	2	2	0	3	6	4	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	107748183	C	G	107748183	3	3	83	1	0	0	0	0	1	0	0	0	8613	913	32	4	4917	4	LAMB4	7	107748183	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	8577917	107748183	51390480	35	4780											
PTPRZ1	5803	hgsc.bcm.edu	37	chr7	121678852	121678852	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgctgcccaaggcccacTgaaatccacagctgaagatt	12	9	8	12	0	0	3	0	2	0	1	1	3	1	3	3	1	3	2	3	1	4	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	121678852	T	G	121678852	3	3	83	1	0	0	0	0	1	0	0	0	12816	1580	55	5	5485	5	PTPRZ1	7	121678852	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	13930669	121678852	37459811	36	4781											
RNF148	378925	hgsc.bcm.edu	37	chr7	122341888	122341888	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaattctccagatttctTaagttttcaggatgtcacac	13	14	6	8	0	4	2	2	0	2	2	5	3	4	3	1	1	0	1	1	1	3	5	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	122341888	T	A	122341888	3	1	83	1	0	0	0	0	1	0	0	0	13451	1761	61	5	4	5	RNF148	7	122341888	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	663036	122341888	36796775	37	4782											
SLC4A2	6522	hgsc.bcm.edu	37	chr7	150772527	150772527	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagcaaggctgtggcacctgGggacaagcccaagattcagg	11	5	15	10	0	1	1	1	0	0	1	1	3	1	2	2	5	2	3	2	5	3	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	150772527	G	T	150772527	3	4	83	1	0	0	0	0	1	0	0	0	14656	1232	43	4	3307	4	SLC4A2	7	150772527	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	28430639	150772527	8366136	38	4783											
CNGB3	54714	hgsc.bcm.edu	37	chr8	87590984	87590984	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcctgtgcctcctaggAgagttttaaacagtttgggt	7	16	10	8	0	0	1	0	0	0	1	2	2	2	1	3	2	2	2	3	2	3	6	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	87590984	A	G	87590984	3	3	83	1	0	0	0	0	1	0	0	0	3601	304	11	3	401	3	CNGB3	8	87590984	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10		87590984	58773038	39	4784											
IFNB1	3456	hgsc.bcm.edu	37	chr9	21077712	21077712	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagttcatcctgtccttgaGgcagtattcaagcctcccat	10	12	7	12	0	2	1	2	1	0	0	5	1	5	1	4	1	1	3	4	1	3	4	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	21077712	G	A	21077712	3	1	83	1	0	0	0	0	1	0	0	0	7546	1000	35	2	410	2	IFNB1	9	21077712	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10		21077712	120135719	40	4785											
PRUNE2	158471	hgsc.bcm.edu;ucsc.edu	37	chr9	79465427	79465427	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatcgataacttcccttcaTcatttagctgatgcaggtta	10	16	6	9	1	2	1	2	1	0	0	4	2	3	1	1	1	3	3	1	1	4	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	79465427	T	A	79465427	3	1	83	1	0	0	0	0	1	0	0	0	12643	1435	50	5	9038	5	PRUNE2	9	79465427	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	58387715	79465427	61748004	41	4786											
USP6NL	9712	hgsc.bcm.edu	37	chr10	11505110	11505110	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgacttggaggctgtactTtaaaagtaaacttgttggat	12	14	10	5	0	0	1	0	1	0	0	0	3	0	3	0	3	2	4	0	3	5	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	11505110	T	G	11505110	3	3	83	1	0	0	0	0	1	0	0	0	17086	1841	64	5	673	5	USP6NL	10	11505110	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10		11505110	124029637	42	4787											
ARHGAP22	58504	hgsc.bcm.edu;ucsc.edu	37	chr10	49763529	49763529	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggctgatctcaaagaggtGcttccctgggtcctcggggc	5	10	15	11	1	1	2	1	1	1	1	5	2	3	2	2	5	1	2	2	5	1	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	49763529	G	A	49763529	3	1	83	1	0	0	0	0	1	0	0	0	872	1319	46	2	1827	2	ARHGAP22	10	49763529	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	38258419	49763529	85771218	43	4788											
PCDH15	65217	hgsc.bcm.edu	37	chr10	55582369	55582369	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgaagaatgtaaaacaCaaggccttgaaggagaaagt	19	6	12	4	0	0	5	0	2	0	3	0	6	0	5	1	2	1	1	1	2	7	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	55582369	C	A	55582369	3	1	83	1	0	0	0	0	1	0	0	0	11511	478	17	4	2360	4	PCDH15	10	55582369	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	5818840	55582369	79952378	44	4789											
HECTD2	143279	hgsc.bcm.edu	37	chr10	93185116	93185116	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagcccgaagaaagaagctGctgaaaacagaagttcacct	16	7	9	9	1	1	4	1	1	0	3	1	5	1	4	2	0	4	3	2	0	7	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	93185116	G	C	93185116	3	2	83	1	0	0	0	0	1	0	0	0	7040	1319	46	4	223	4	HECTD2	10	93185116	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	37602747	93185116	42349631	45	4790											
TALDO1	6888	hgsc.bcm.edu	37	chr11	755932	755932	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaacccgtccctgatcctgGccgcagcacagatgcccgct	7	6	9	19	3	0	2	0	1	0	1	2	2	2	2	6	1	3	3	6	1	1	0	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	755932	G	T	755932	3	4	83	1	0	0	0	0	1	0	0	0	15542	1203	42	4	157	4	TALDO1	11	755932	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10		755932	134250584	46	4791											
OR10A3	26496	hgsc.bcm.edu	37	chr11	7960851	7960851	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgtaatgactgcactgaAactcacctccaccacagata	14	7	7	13	1	1	3	1	2	0	1	2	3	2	3	3	1	2	2	3	1	3	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	7960851	A	C	7960851	3	2	83	1	0	0	0	0	1	0	0	0	10891	14	1	5	730	5	OR10A3	11	7960851	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	7204919	7960851	127045665	47	4792											
OR10Q1	219960	hgsc.bcm.edu	37	chr11	57996084	57996084	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttctgggcccccaaaatGttggaaagcatcaagggtac	11	8	12	10	0	2	0	1	0	1	0	2	1	2	1	2	4	2	4	2	4	5	3	rs61902844	bycluster;byfrequency;by1000genomes	TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	57996084	G	A	57996084	2	1	83	1	0	0	0	0	0	0	0	1	10916	1368	48	2		2	OR10Q1	11	57996084	Silent	SNP	G	TCGA-B0-4822-01A-01D-1361-10	50035233	57996084	77010432	48	4793											
CDC42BPG	55561	hgsc.bcm.edu	37	chr11	64602848	64602848	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccggctcagcctccggtTttcctcctgcagctggcaca	4	10	9	18	2	1	0	1	0	0	0	5	0	5	0	5	3	3	5	5	3	0	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	64602848	T	C	64602848	3	2	83	1	0	0	0	0	1	0	0	0	3074	1841	64	3	2819	3	CDC42BPG	11	64602848	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10	6606764	64602848	70403668	49	4794											
RBM4	5936	hgsc.bcm.edu	37	chr11	66407209	66407209	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgttcatcggaaacctGccccgggaggctacagagca	11	6	12	12	2	1	1	1	0	0	1	2	3	1	3	3	3	5	4	3	3	3	2	rs61747408		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	66407209	G	T	66407209	2	4	83	1	0	0	0	0	0	0	0	1	13136	1306	46	4		4	RBM4	11	66407209	Silent	SNP	G	TCGA-B0-4822-01A-01D-1361-10	1804361	66407209	68599307	50	4795											
GRM5	2915	hgsc.bcm.edu	37	chr11	88780946	88780946	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaataatgatgtcacccGgcatgtgagccaccaccctc	10	8	7	16	1	1	2	1	2	0	0	3	2	2	2	5	1	1	1	5	1	2	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	88780946	G	A	88780946	3	1	83	1	0	0	0	0	1	0	0	0	6800	1116	39	1	3579	1	GRM5	11	88780946	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	22373737	88780946	46225570	51	4796											
NCAPD3	23310	hgsc.bcm.edu	37	chr11	134051037	134051037	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgttggagaggcggtgctCgcaggtggagagtacatccc	8	8	17	8	2	0	2	0	0	0	2	2	5	1	2	1	5	2	4	1	5	1	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	134051037	C	T	134051037	3	4	83	1	0	0	0	0	1	0	0	0	10206	893	31	1	2066	1	NCAPD3	11	134051037	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	45270091	134051037	955479	52	4797											
C3AR1	719	hgsc.bcm.edu;ucsc.edu	37	chr12	8211783	8211783	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctagtgatcgttattgccacGaggggtgttggcacttgatc	7	13	13	8	2	0	2	0	2	0	0	2	3	0	2	1	3	1	3	1	3	2	5	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	8211783	G	A	8211783	2	1	83	1	0	0	0	0	0	0	0	1	2205	1045	37	1		1	C3AR1	12	8211783	Silent	SNP	G	TCGA-B0-4822-01A-01D-1361-10		8211783	125640112	53	4798											
ABCC9	10060	hgsc.bcm.edu	37	chr12	21997480	21997480	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccaggggtgtggtatcAaaaaacctaggcaataaaca	16	7	10	8	0	1	0	1	0	0	0	2	0	2	0	2	4	2	2	2	4	8	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	21997480	A	C	21997480	3	2	83	1	0	0	0	0	1	0	0	0	59	127	5	5	1591	5	ABCC9	12	21997480	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	13785697	21997480	111854415	54	4799											
RAPGEF3	10411	hgsc.bcm.edu	37	chr12	48143214	48143214	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcttgtccacacgcaggaAatgacagttgtcttctcgca	9	11	9	12	2	2	1	0	1	2	0	4	2	3	2	1	1	1	4	1	1	1	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	48143214	A	C	48143214	3	2	83	1	0	0	0	0	1	0	0	0	13047	14	1	5	1847	5	RAPGEF3	12	48143214	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	26145734	48143214	85708681	55	4800											
MLL2	8085	hgsc.bcm.edu	37	chr12	49442450	49442450	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtatggtacctgcattaGgacaaatttgtctgtgttgg	9	15	11	6	0	1	0	0	0	1	0	1	1	1	1	1	3	2	4	1	3	4	5	rs1368572	bycluster;alternate_allele	TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	49442450	G	T	49442450	3	4	83	1	0	0	0	0	1	0	0	0	9621	991	35	4	12658	4	MLL2	12	49442450	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	1299236	49442450	84409445	56	4801											
CIT	11113	hgsc.bcm.edu	37	chr12	120189889	120189889	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcttcagcttctgctGtggtctcttccagctctgtc	2	17	7	15	0	6	0	1	0	5	0	10	0	7	0	2	1	3	3	2	1	0	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	120189889	G	C	120189889	3	2	83	1	0	0	0	0	1	0	0	0	3438	1377	48	4	3443	4	CIT	12	120189889	Missense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10	70747439	120189889	13662006	57	4802											
FLT1	2321	hgsc.bcm.edu	37	chr13	28886155	28886155	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatttgcttgaagcaaaTcacctagtttttccacaagt	12	14	6	9	0	1	1	1	1	0	0	2	1	2	1	2	0	3	4	2	0	5	6	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	28886155	T	G	28886155	3	3	83	1	0	0	0	0	1	0	0	0	5941	1435	50	5	569	5	FLT1	13	28886155	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10		28886155	86283723	58	4803											
PTGDR	5729	hgsc.bcm.edu	37	chr14	52735100	52735100	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttatccagatggtccacGaggagggctcgctgtcggtg	6	10	15	10	3	0	1	0	0	0	1	4	3	2	2	2	4	0	3	2	4	1	2	rs139745811	alternate_allele	TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	52735100	G	T	52735100	4	4	83	1	0	0	0	0	0	1	0	0	12743	1059	37	4	570	4	PTGDR	14	52735100	Nonsense_Mutation	SNP	G	TCGA-B0-4822-01A-01D-1361-10		52735100	54614440	59	4804											
MTMR10	54893	hgsc.bcm.edu;ucsc.edu	37	chr15	31266580	31266580	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaattctgaaatctttacaAtaaataattaactctgttgg	16	15	4	6	0	3	1	0	1	3	0	3	1	3	1	0	1	2	1	0	1	8	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	31266580	A	G	31266580	2	3	83	1	0	0	0	0	0	0	0	1	9939	108	4	3		3	MTMR10	15	31266580	Silent	SNP	A	TCGA-B0-4822-01A-01D-1361-10		31266580	71264812	60	4805											
IGF1R	3480	hgsc.bcm.edu;ucsc.edu	37	chr15	99482570	99482570	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgcatggtagccgaagaTttcacagtcaaaatcggagg	14	9	11	7	2	2	1	2	0	0	1	3	3	2	2	1	3	2	2	1	3	5	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		C	99482570	T	C	99482570	2	2	83	1	0	0	0	0	0	0	0	1	7571	1490	52	3		3	IGF1R	15	99482570	Silent	SNP	T	TCGA-B0-4822-01A-01D-1361-10	68215990	99482570	3048822	61	4806											
CHSY1	22856	hgsc.bcm.edu	37	chr15	101719144	101719144	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagatctctaatgtacccCtttttgttctgctcgtaatt	7	18	7	9	1	2	1	0	0	2	1	4	2	2	1	2	1	2	4	2	1	3	7	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	101719144	C	A	101719144	3	1	83	1	0	0	0	0	1	0	0	0	3412	680	24	4	1554	4	CHSY1	15	101719144	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	2236574	101719144	812248	62	4807											
SIAH1	6477	hgsc.bcm.edu;ucsc.edu	37	chr16	48396058	48396058	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatatttacaggggaaaagTactgaattagccactttctc	13	12	8	8	0	1	1	0	1	1	0	2	2	1	2	1	2	3	2	1	2	7	6	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	48396058	T	A	48396058	2	1	83	1	0	0	0	0	0	0	0	1	14301	1625	57	5		5	SIAH1	16	48396058	Silent	SNP	T	TCGA-B0-4822-01A-01D-1361-10		48396058	41958695	63	4808											
USP32	84669	hgsc.bcm.edu	37	chr17	58348760	58348760	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaccaatgggccaaatgtCtctaaatcaaatcgtccagt	15	9	7	10	1	2	0	1	0	1	0	5	1	3	0	3	1	1	0	3	1	6	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	58348760	C	T	58348760	2	4	83	1	0	0	0	0	0	0	0	1	17062	912	32	2		2	USP32	17	58348760	Silent	SNP	C	TCGA-B0-4822-01A-01D-1361-10		58348760	22846450	64	4809											
PSMC5	5705	hgsc.bcm.edu	37	chr17	61906877	61906877	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtgaatgataagagccaAaacctccggaggctgcaggc	13	7	12	9	1	0	3	0	2	0	1	1	4	1	4	3	3	3	2	3	3	4	2	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	61906877	A	G	61906877	2	3	83	1	0	0	0	0	0	0	0	1	12692	11	1	3		3	PSMC5	17	61906877	Silent	SNP	A	TCGA-B0-4822-01A-01D-1361-10	3558117	61906877	19288333	65	4810											
CD300E	342510	hgsc.bcm.edu	37	chr17	72613554	72613554	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacaccacactgtcagagAgtcccccgcagtgccagtca	10	6	9	16	1	2	2	2	1	0	1	3	3	3	2	4	0	1	1	4	0	0	0	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		G	72613554	A	G	72613554	3	3	83	1	0	0	0	0	1	0	0	0	2998	304	11	3	538	3	CD300E	17	72613554	Missense_Mutation	SNP	A	TCGA-B0-4822-01A-01D-1361-10	10706677	72613554	8581656	66	4811											
TSHZ1	10194	hgsc.bcm.edu;ucsc.edu	37	chr18	73000294	73000294	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaacgattgtgcctctCagttcagaactgcttctaca	9	14	7	11	1	3	1	2	0	2	1	4	2	3	1	1	0	6	3	1	0	3	5	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	73000294	C	A	73000294	3	1	83	1	0	0	0	0	1	0	0	0	16622	827	29	4	2799	4	TSHZ1	18	73000294	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10		73000294	5076954	67	4812											
SRC	6714	hgsc.bcm.edu	37	chr20	36028584	36028584	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcacgatgtctccagaggCcttcctgcaggaggcccagg	7	7	14	13	1	1	1	0	0	1	1	3	3	2	2	4	5	1	2	4	5	0	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		T	36028584	C	T	36028584	3	4	83	1	0	0	0	0	1	0	0	0	15135	739	26	2	952	2	SRC	20	36028584	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10		36028584	26996936	68	4813											
ZNF831	128611	hgsc.bcm.edu	37	chr20	57769303	57769303	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagccaccgtatccatCgcctctgcatgggcagcact	8	8	10	15	2	1	1	0	1	1	0	3	1	2	1	4	1	3	4	4	1	1	1	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	57769303	C	A	57769303	3	1	83	1	0	0	0	0	1	0	0	0	18184	884	31	4	3231	4	ZNF831	20	57769303	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	21740719	57769303	5256217	69	4814											
TTLL1	25809	hgsc.bcm.edu;ucsc.edu	37	chr22	43464514	43464514	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgccacaaggcttcatgatCcaggtgctggacgggctctt	7	11	12	11	1	2	1	1	1	1	0	3	2	3	2	2	4	2	3	2	4	1	3	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	43464514	C	A	43464514	3	1	83	1	0	0	0	0	1	0	0	0	16721	856	30	4	894	4	TTLL1	22	43464514	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10		43464514	7840052	70	4815											
ZNF673	0	hgsc.bcm.edu;ucsc.edu	37	chrX	46332256	46332256	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttccttggcaagctgcaTtcataggcaaggaaacactg	13	9	9	10	0	1	0	1	0	0	0	2	1	2	1	1	3	4	4	1	3	5	4	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	46332256	T	A	46332256	3	1	83	1	0	0	0	0	1	0	0	0	18079	1493	52	5	387	5	ZNF673	23	46332256	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01D-1361-10		46332256	108938304	71	4816											
CCNB3	85417	hgsc.bcm.edu	37	chrX	50052464	50052464	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tactgagaaggagtccttttCccaggaaccatctgcattgc	10	11	9	11	0	1	1	0	1	1	1	3	4	3	3	3	2	4	1	3	2	3	4	novel		TCGA-B0-4822-01A-01D-1361-10	TCGA-B0-4822-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	f324c16b-40e7-4f30-b25e-d37ff5c4df60	b21d75ea-9540-4570-91e9-aa16a362ec29		A	50052464	C	A	50052464	3	1	83	1	0	0	0	0	1	0	0	0	2914	855	30	4	1309	4	CCNB3	23	50052464	Missense_Mutation	SNP	C	TCGA-B0-4822-01A-01D-1361-10	3720208	50052464	105218096	72	4817											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-B0-4822-01A-01W-1359-10	TCGA-B0-4822-11A-01W-1359-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	fb40db0a-2dc7-4bb4-83e8-dde7422ad257	292bd8b7-b79c-475d-b7e0-b5549a8886d4		A	10183797	T	A	10183797	3	1	84	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-B0-4822-01A-01W-1359-10		10183797	187838633	1	4818											
SDF4	51150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1153053	1153053	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgcgttgtactcgttcaTggggtccatgtagctctgcg	5	12	13	11	4	2	0	1	0	1	0	4	0	3	0	1	2	4	5	1	2	2	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	1153053	T	C	1153053	3	2	85	1	0	0	0	0	1	0	0	0	13964	1464	51	3	164	3	SDF4	1	1153053	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08		1153053	248097568	1	4819											
VPS13D	55187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12409404	12409404	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacgagagtgccactctaTggacacagaaaaaagccgat	17	6	9	9	2	1	2	0	0	1	2	1	5	1	3	2	1	3	0	2	1	6	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	12409404	T	G	12409404	3	3	85	1	0	0	0	0	1	0	0	0	17191	1464	51	5	9582	5	VPS13D	1	12409404	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	11256351	12409404	236841217	2	4820											
TMEM54	113452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33360935	33360935	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgcttttcccccaccaggGcctcagctccagcagctggt	5	9	10	17	0	1	0	1	0	0	0	3	0	3	0	5	2	4	5	5	2	0	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	33360935	G	A	33360935	3	1	85	1	0	0	0	0	1	0	0	0	16179	1203	42	2	111	2	TMEM54	1	33360935	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	20951531	33360935	215889686	3	4821											
EIF2C1	26523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36372683	36372683	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctactcagggctgcagctCattattgtcatcctgccagg	8	11	9	13	0	3	0	3	0	0	0	4	0	4	0	3	2	4	3	3	2	2	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	36372683	C	T	36372683	2	4	85	1	0	0	0	0	0	0	0	1	5005	813	29	2		2	EIF2C1	1	36372683	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	3011748	36372683	212877938	4	4822											
PTPRF	5792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44085866	44085866	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attccaccatcatcgtcatgCtgaccaagcttcgggagatg	10	10	9	12	2	2	2	2	1	0	1	5	3	3	2	3	1	2	2	3	1	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	44085866	C	G	44085866	3	3	85	1	0	0	0	0	1	0	0	0	12803	796	28	4	5322	4	PTPRF	1	44085866	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	7713183	44085866	205164755	5	4823											
DOCK7	85440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	63021612	63021612	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccaagtttttgtgaagtCgatttataattgatgccatg	10	17	8	6	1	0	2	0	2	0	0	2	3	1	2	2	0	1	1	2	0	4	7	rs78144896	bycluster;by1000genomes;alternate_allele	TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	63021612	C	T	63021612	3	4	85	1	0	0	0	0	1	0	0	0	4692	884	31	1	3965	1	DOCK7	1	63021612	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	18935746	63021612	186229009	6	4824											
PRG4	23572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186275897	186275897	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctcaccactcccaaggAgcccacgcccaccactccca	9	5	5	22	1	1	0	1	0	1	0	4	1	3	1	6	1	2	1	6	1	1	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	186275897	A	G	186275897	3	3	85	1	0	0	0	0	1	0	0	0	12483	304	11	3	1068	3	PRG4	1	186275897	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	123254285	186275897	62974724	7	4825											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu	37	chr1	215820889	215820889	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttttgggtggtgaaactgatCcactcggaagccgtactgcc	8	11	12	10	2	0	2	0	2	0	0	2	3	1	3	3	3	4	1	3	3	3	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	215820889	C	T	215820889	4	4	85	1	0	0	0	0	0	1	0	0	17035	856	30	2	866	2	USH2A	1	215820889	Nonsense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	29544992	215820889	33429732	8	4826											
RRP15	51018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	218458677	218458677	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaatggcagccgccgctccgGactcacgtgtgagtgaggaa	10	6	14	11	4	1	2	1	2	0	0	2	4	2	4	3	3	1	2	3	3	2	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	218458677	G	C	218458677	3	2	85	1	0	0	0	0	1	0	0	0	13689	1174	41	4	21	4	RRP15	1	218458677	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	2637788	218458677	30791944	9	4827											
PXDN	7837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1647244	1647244	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacacgtcgctctgcaccCgggtgatgttgtccgcgttg	5	11	13	12	5	1	2	0	2	1	0	3	2	2	2	2	1	2	4	2	1	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	1647244	C	G	1647244	3	3	85	1	0	0	0	0	1	0	0	0	12849	652	23	4	611	4	PXDN	2	1647244	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08		1647244	241552129	10	4828											
ABHD1	84696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27346840	27346840	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgagctccttcctgagcccCcagaatggcacctgggcaga	8	7	11	15	0	0	4	0	2	0	2	2	4	2	4	5	2	2	3	5	2	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	27346840	C	G	27346840	2	3	85	1	0	0	0	0	0	0	0	1	73	610	22	4		4	ABHD1	2	27346840	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	25699596	27346840	215852533	11	4829											
RPIA	22934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	89036070	89036070	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaaagattcgaagaatctCggggatcagtggcacaaggg	14	6	15	6	2	2	2	1	0	1	2	4	5	2	4	0	5	0	1	0	5	4	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	89036070	C	T	89036070	2	4	85	1	0	0	0	0	0	0	0	1	13555	871	31	1		1	RPIA	2	89036070	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	61689230	89036070	154163303	12	4830											
THSD7B	80731	hgsc.bcm.edu;ucsc.edu	37	chr2	138208421	138208421	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttttctgtcaggttacaTtcaagaaaaatgtgtcattc	11	17	6	7	0	5	1	3	0	2	1	6	1	5	1	0	1	1	1	0	1	4	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	138208421	T	G	138208421	3	3	85	1	0	0	0	0	1	0	0	0	15879	1493	52	5	2927	5	THSD7B	2	138208421	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	49172351	138208421	104990952	13	4831											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179481863	179481863	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaaatgcatcgtcagcGgtgagaggaccaagaatttc	13	9	10	9	2	1	2	1	1	0	2	3	4	1	3	2	2	3	1	2	2	4	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	179481863	G	T	179481863	2	4	85	1	0	0	0	0	0	0	0	1	16734	1103	39	4		4	TTN	2	179481863	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	41273442	179481863	63717510	14	4832											
TFPI	7035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	188349545	188349545	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaataaacttacgaccatcTtcacaaatgttcttgcattc	14	13	4	10	1	3	0	1	0	2	0	4	2	3	0	1	0	3	2	1	0	5	6	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	188349545	T	G	188349545	3	3	85	1	0	0	0	0	1	0	0	0	15807	1606	56	5	534	5	TFPI	2	188349545	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	8867682	188349545	54849828	15	4833											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196753118	196753118	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcagtggtctccagcctAacatgtgaggctccatgtaa	11	10	9	11	0	2	1	1	1	1	0	4	1	3	1	3	2	2	2	3	2	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	196753118	A	T	196753118	4	4	85	1	0	0	0	0	0	1	0	0	4606	372	13	5	6936	5	DNAH7	2	196753118	Nonsense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	8403573	196753118	46446255	16	4834											
DOCK10	55619	broad.mit.edu	37	chr2	225661099	225661099	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgttgaaaccgagagccTccaatcccagcatcggctat	12	8	9	12	2	0	2	0	1	0	1	3	4	2	2	4	1	3	3	4	1	4	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	225661099	C	C	225661099	2	2	85	1	0	0	0	0	0	0	0	1	4685	1538	54	3		3	DOCK10	2	225661099	Silent	SNP	T	TCGA-B0-4823-01A-02D-1421-08	28907981	225661099	17538274	17	4835											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238267874	238267874	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caccatccagaccatccagtCcaatttctcctacttcgccc	9	10	3	19	1	1	1	0	0	1	1	6	1	4	1	7	0	1	0	7	0	2	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	238267874	C	G	238267874	3	3	85	1	0	0	0	0	1	0	0	0	3701	855	30	4	3308	4	COL6A3	2	238267874	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	12606775	238267874	4931499	18	4836											
SNED1	25992	broad.mit.edu	37	chr2	241976725	241976725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacggcatcaacagtttcCgctgccagtgcccggctggc	6	8	11	16	3	2	0	2	0	0	0	3	0	3	0	3	3	3	4	3	3	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	241976725	T	T	241976725	3	4	85	1	0	0	0	0	1	0	0	0	14847	652	23	1	1022	1	SNED1	2	241976725	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	3708851	241976725	1222648	19	4837											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188204	10188205	+	Frame_Shift_Del	DEL	TT	TT	-																															gcttgtcccgataggtcaccTttggctcttcagagatgcag																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	TT	TT	TT	-	TT	TT	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	10188205	TT	-	10188204	7	5	85	1	0	1	0	1	0	0	0	0	17161	1609	56	0	353	0	VHL	3	10188204	Frame_Shift_Del	DEL	TT	TCGA-B0-4823-01A-02D-1421-08		10188204	187834226	20	4838											
MCM2	4171	hgsc.bcm.edu	37	chr3	127323892	127323893	+	Frame_Shift_Ins	INS	-	-	G																															cgcgagtgggtgagcatggcINSgggcccccggctggagatcc																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	127323893	-	G	127323892	7	5	85	1	0	1	1	0	0	0	0	0	9386	768	27	0	580	0	MCM2	3	127323892	Frame_Shift_Ins	INS	-	TCGA-B0-4823-01A-02D-1421-08	117135688	127323892	70698538	21	4839											
MCM2	4171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	127325478	127325478	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatctgaaccagctgatcCgcaccagtggggtggtgacc	8	8	13	12	1	1	3	0	3	1	0	2	3	2	3	4	3	3	3	4	3	1	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	127325478	C	A	127325478	3	1	85	1	0	0	0	0	1	0	0	0	9386	652	23	4	941	4	MCM2	3	127325478	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	1586	127325478	70696952	22	4840											
MECOM	2122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	168802758	168802758	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccctggccatactgtgcCacacgttggaagaactgtgg	9	8	12	12	1	0	1	0	0	0	1	0	2	0	2	3	3	4	1	3	3	3	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	168802758	C	T	168802758	4	4	85	1	0	0	0	0	0	1	0	0	9422	595	21	2	64	2	MECOM	3	168802758	Nonsense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	41477280	168802758	29219672	23	4841											
EIF4G1	1981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184049133	184049133	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgaaggccaggacattgGtgcattcgtcgctgaacagg	10	8	13	10	2	0	2	0	2	0	0	2	3	0	3	2	4	2	2	2	4	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	184049133	G	C	184049133	3	2	85	1	0	0	0	0	1	0	0	0	5036	1261	44	4	4347	4	EIF4G1	3	184049133	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	15246375	184049133	13973297	24	4842											
C3orf59	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	192516184	192516184	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagctaacactcagaaaaaTttgtcatcaattctgaaatg	16	12	5	8	0	5	2	4	1	1	1	5	2	5	2	0	0	2	1	0	0	5	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	192516184	T	A	192516184	3	1	85	1	0	0	0	0	1	0	0	0	2237	1490	52	5	12	5	C3orf59	3	192516184	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	8467051	192516184	5506246	25	4843											
CD38	952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	15818217	15818217	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacattactgaagaagactAtcagccactaatgaagttgg	16	9	8	8	0	1	4	1	2	0	2	1	4	1	4	1	1	3	1	1	1	7	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	15818217	A	G	15818217	3	3	85	1	0	0	0	0	1	0	0	0	3009	449	16	3	323	3	CD38	4	15818217	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08		15818217	175336059	26	4844											
UGT2A1	10941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	70464995	70464995	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggcaggtttgcagtgcAatcctccaacaaactcaaaa	13	10	8	10	0	1	0	1	0	0	0	3	0	3	0	2	2	4	5	2	2	5	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	70464995	A	C	70464995	3	2	85	1	0	0	0	0	1	0	0	0	16952	131	5	5	770	5	UGT2A1	4	70464995	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	54646778	70464995	120689281	27	4845											
SHROOM3	57619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77677855	77677855	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagggtttagaaaagaaaGtcagtcctgatcctcagaag	14	9	10	8	0	3	4	3	1	0	3	5	4	5	4	2	1	0	1	2	1	5	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	77677855	G	A	77677855	3	1	85	1	0	0	0	0	1	0	0	0	14297	1029	36	2	4993	2	SHROOM3	4	77677855	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	7212860	77677855	113476421	28	4846											
SCLT1	132320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	129812271	129812271	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagctcttgggtatgaagTttctgtcgactcagctcact	8	13	10	10	1	4	1	2	1	2	0	5	2	4	1	0	1	3	5	0	1	2	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	129812271	T	G	129812271	3	3	85	1	0	0	0	0	1	0	0	0	13908	1722	60	5	227	5	SCLT1	4	129812271	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	52134416	129812271	61342005	29	4847											
ELF2	1998	broad.mit.edu;hgsc.bcm.edu	37	chr4	139980658	139980658	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgttggactagtgctggTtattaatggtgcacctgcat	7	16	12	6	0	0	0	0	0	0	0	0	1	0	1	1	3	3	6	1	3	3	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	139980658	T	C	139980658	3	2	85	1	0	0	0	0	1	0	0	0	5054	1725	60	3	524	3	ELF2	4	139980658	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	10168387	139980658	51173618	30	4848											
SLC12A7	10723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1073766	1073766	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctcggcccgctgagcCtccatgtgcttgtccaggta	5	10	10	16	2	0	1	0	1	0	0	4	1	3	1	6	2	2	3	6	2	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	1073766	C	T	1073766	2	4	85	1	0	0	0	0	0	0	0	1	14390	680	24	2		2	SLC12A7	5	1073766	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08		1073766	179841494	31	4849											
C5orf22	55322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	31538683	31538683	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatcaggaatgccagactGctgccagcactggggaaatt	14	7	11	9	0	1	1	1	0	0	1	1	3	1	3	2	3	4	2	2	3	4	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	31538683	G	T	31538683	3	4	85	1	0	0	0	0	1	0	0	0	2285	1319	46	4	708	4	C5orf22	5	31538683	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	30464917	31538683	149376577	32	4850											
MCCC2	64087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70928000	70928000	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatcttggaggtgctgAtcttcattgcaggtgaaaca	10	12	13	6	0	3	3	1	3	2	0	3	5	3	5	0	4	3	2	0	4	1	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	70928000	A	G	70928000	3	3	85	1	0	0	0	0	1	0	0	0	9375	333	12	3	821	3	MCCC2	5	70928000	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	39389317	70928000	109987260	33	4851											
AFF4	27125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132228042	132228042	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatcttttgaaggaacaggCccagcgggagaaggcaacaa	14	5	14	8	1	1	2	0	1	1	1	1	5	1	4	1	5	3	1	1	5	5	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	132228042	C	T	132228042	2	4	85	1	0	0	0	0	0	0	0	1	359	726	26	2		2	AFF4	5	132228042	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	61300042	132228042	48687218	34	4852											
PCDHGA10	56106	hgsc.bcm.edu	37	chr5	140795208	140795209	+	Frame_Shift_Ins	INS	-	-	A																															ttttcatttttacttttgttINSaaaaaaaaaaagattggttt																								rs113784532		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	140795209	-	A	140795208	7	5	85	1	0	1	1	0	0	0	0	0	11551	1741	61	0	2468	0	PCDHGA10	5	140795208	Frame_Shift_Ins	INS	-	TCGA-B0-4823-01A-02D-1421-08	8567166	140795208	40120052	35	4853											
GALNT10	55568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153755895	153755895	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccagtgtgaggattctTcgaaccaagaaacgggaagg	12	8	12	9	2	1	2	0	1	1	1	3	5	2	4	3	3	2	0	3	3	4	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	153755895	T	G	153755895	2	3	85	1	0	0	0	0	0	0	0	1	6208	1770	62	5		5	GALNT10	5	153755895	Silent	SNP	T	TCGA-B0-4823-01A-02D-1421-08	12960687	153755895	27159365	36	4854											
KIF13A	63971	hgsc.bcm.edu;ucsc.edu	37	chr6	17764666	17764666	+	Frame_Shift_Del	DEL	G	G	-																															aggcatctagttctgaacatGagccagtcctgcacagtgat																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	17764666	G	-	17764666	7	5	85	1	0	1	0	1	0	0	0	0	8274	1294	45	0	353	0	KIF13A	6	17764666	Frame_Shift_Del	DEL	G	TCGA-B0-4823-01A-02D-1421-08		17764666	153350401	37	4855											
MTCH1	23787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36938212	36938212	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagccatgaggtcgccaActagcaggaaggggtaggtc	11	6	14	10	1	1	1	1	1	0	0	3	2	1	2	2	5	3	2	2	5	4	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	36938212	A	G	36938212	3	3	85	1	0	0	0	0	1	0	0	0	9913	43	2	3	189	3	MTCH1	6	36938212	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	19173546	36938212	134176855	38	4856											
TRDN	10345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	123545248	123545248	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaaactcacctttagctttCtttgaagctggtacatcttc	9	15	6	11	0	3	1	1	1	2	0	4	1	3	1	1	1	4	4	1	1	4	6	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	123545248	C	T	123545248	2	4	85	1	0	0	0	0	0	0	0	1	16467	912	32	2		2	TRDN	6	123545248	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	86607036	123545248	47569819	39	4857											
ECHDC1	55862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	127652111	127652111	+	Frame_Shift_Del	DEL	T	T	-																															gtactataaagtgacaatccTgtttgatgtagcaattttgt																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	127652111	T	-	127652111	7	5	85	1	0	1	0	1	0	0	0	0	4893	1567	55	0	862	0	ECHDC1	6	127652111	Frame_Shift_Del	DEL	T	TCGA-B0-4823-01A-02D-1421-08	4106863	127652111	43462956	40	4858											
EPB41L2	2037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	131179363	131179363	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtgctgctctctggcttcCctgatcgcctgagccagtgc	3	11	13	14	1	1	2	0	2	1	0	4	2	2	2	3	2	4	3	3	2	0	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	131179363	C	T	131179363	2	4	85	1	0	0	0	0	0	0	0	1	5153	622	22	2		2	EPB41L2	6	131179363	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	3527252	131179363	39935704	41	4859											
PPIL4	85313	broad.mit.edu;hgsc.bcm.edu	37	chr6	149838586	149838586	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactcttggtgtatttcccaCctatttattaagaaaagaaa	14	14	5	8	0	1	2	0	0	1	2	2	2	2	2	2	1	0	1	2	1	7	7	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	149838586	C	A	149838586	3	1	85	1	0	0	0	0	1	0	0	0	12331	521	18	4	507	4	PPIL4	6	149838586	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	18659223	149838586	21276481	42	4860											
NUPL2	11097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23240190	23240190	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtgacacttttggaaaTagcagcatatccacttctct	11	13	6	11	0	1	1	0	1	1	0	4	2	3	2	2	1	2	2	2	1	3	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	23240190	T	A	23240190	3	1	85	1	0	0	0	0	1	0	0	0	10775	1403	49	5	1124	5	NUPL2	7	23240190	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08		23240190	135898473	43	4861											
NOD1	10392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	30486629	30486629	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccaggattttggtgacgtAcctggctccgacatcggtga	8	11	12	10	3	0	2	0	2	0	0	3	4	2	3	3	4	1	2	3	4	1	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	30486629	A	T	30486629	3	4	85	1	0	0	0	0	1	0	0	0	10516	391	14	5	566	5	NOD1	7	30486629	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	7246439	30486629	128652034	44	4862											
PSMA2	5683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	42964387	42964387	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctagttttcgagctctgtgCacaagcactctaacaaggaa	12	10	9	10	1	2	0	0	0	2	0	3	2	2	1	0	1	4	5	0	1	5	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	42964387	C	A	42964387	2	1	85	1	0	0	0	0	0	0	0	1	12669	697	25	4		4	PSMA2	7	42964387	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	12477758	42964387	116174276	45	4863											
MAGI2	9863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	79082436	79082436	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggggtctcgttcacctcCagcagcagctcctccgacac	7	7	10	17	3	2	0	1	0	1	0	6	1	5	0	4	2	3	4	4	2	0	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	79082436	C	A	79082436	2	1	85	1	0	0	0	0	0	0	0	1	9191	581	21	4		4	MAGI2	7	79082436	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	36118049	79082436	80056227	46	4864											
C7orf63	79846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	89937153	89937153	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttggctagaacatcaaaCgctaaaacgttaaaggtagg	15	10	9	7	2	2	1	1	0	1	1	2	1	2	1	0	3	3	4	0	3	8	6	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	89937153	C	T	89937153	2	4	85	1	0	0	0	0	0	0	0	1	2409	535	19	1		1	C7orf63	7	89937153	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	10854717	89937153	69201510	47	4865											
ZC3HC1	51530	hgsc.bcm.edu;ucsc.edu	37	chr7	129663471	129663471	+	Frame_Shift_Del	DEL	G	G	-																															actgggcgagttctggtggtGgggctagcagcctctggctc																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	129663471	G	-	129663471	7	5	85	1	0	1	0	1	0	0	0	0	17576	1335	47	0	407	0	ZC3HC1	7	129663471	Frame_Shift_Del	DEL	G	TCGA-B0-4823-01A-02D-1421-08	39726318	129663471	29475192	48	4866											
ACCN3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150748965	150748965	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccgtggagcagaagaaggCctatgagatgtcagagctgc	12	6	15	8	1	1	4	1	1	0	4	1	7	1	5	2	2	3	2	2	2	3	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	150748965	C	T	150748965	3	4	85	1	0	0	0	0	1	0	0	0	130	739	26	2	1309	2	ACCN3	7	150748965	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	21085494	150748965	8389698	49	4867											
INSIG1	3638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	155094505	155094505	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttcttggctcccttgtatAtttttctcaggaggcgtcac	5	16	9	11	2	3	0	2	0	2	0	5	1	4	1	1	3	0	3	1	3	2	7	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	155094505	A	G	155094505	3	3	85	1	0	0	0	0	1	0	0	0	7765	449	16	3	767	3	INSIG1	7	155094505	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	4345540	155094505	4044158	50	4868											
CDCA2	157313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	25325823	25325823	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatcctatcagagagactCtgatgaaaatctgacggatg	15	10	9	7	1	3	5	1	3	2	2	4	7	4	6	1	1	0	0	1	1	5	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	25325823	C	A	25325823	3	1	85	1	0	0	0	0	1	0	0	0	3086	913	32	4	647	4	CDCA2	8	25325823	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08		25325823	121038199	51	4869											
IDO2	169355	broad.mit.edu;hgsc.bcm.edu	37	chr8	39836668	39836668	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgagcttcctcaccatggGttatgtctggcaggaaggag	8	10	13	10	0	2	1	1	1	1	0	3	3	3	3	3	4	1	3	3	4	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	39836668	G	C	39836668	3	2	85	1	0	0	0	0	1	0	0	0	7502	1261	44	4	331	4	IDO2	8	39836668	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	14510845	39836668	106527354	52	4870											
ANK1	286	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	41552240	41552240	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctggcagagccgtgacAtgatcacgaagtacagcggg	11	6	14	10	3	1	3	1	2	0	1	2	4	2	3	2	2	3	2	2	2	2	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	41552240	A	C	41552240	3	2	85	1	0	0	0	0	1	0	0	0	620	217	8	5	2834	5	ANK1	8	41552240	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	1715572	41552240	104811782	53	4871											
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	61761689	61761689	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaggaagcagacaaatccCtcttaattggagtgttcaaa	16	10	8	7	0	2	1	1	0	1	1	3	3	3	3	1	2	1	2	1	2	5	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	61761689	C	A	61761689	3	1	85	1	0	0	0	0	1	0	0	0	3330	681	24	4	5474	4	CHD7	8	61761689	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	20209449	61761689	84602333	54	4872											
TSNARE1	203062	broad.mit.edu	37	chr8	143425602	143425602	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acacgcggtacctgcgagtgGgctcggccttcagcagcccc	6	6	13	16	4	1	0	1	0	0	0	2	1	1	0	4	3	4	3	4	3	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	143425602	T	T	143425602	3	4	85	1	0	0	0	0	1	0	0	0	16629	1232	43	4	1111	4	TSNARE1	8	143425602	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	81663913	143425602	2938420	55	4873											
DGAT1	8694	broad.mit.edu;hgsc.bcm.edu	37	chr8	145540325	145540325	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccacacagctgcgttGccatagttgccctggaaaaa	12	7	10	12	1	0	0	0	0	0	0	0	2	0	1	3	1	5	3	3	1	3	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	145540325	G	C	145540325	2	2	85	1	0	0	0	0	0	0	0	1	4457	1306	46	4		4	DGAT1	8	145540325	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	2114723	145540325	823697	56	4874											
RMI1	80010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86616068	86616068	+	Missense_Mutation	SNP	G	G	T																															taaacaagtgtttgagcagtGgctccttactgatctgaggg																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	86616068	G	T	86616068	3	4	85	1	0	0	0	0	1	0	0	0	13397	1357	47	4	169	4	RMI1	9	86616068	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08		86616068	54597363	57	4875	59	2									
RMI1	80010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86616070	86616070	+	Missense_Mutation	SNP	C	C	T																															aacaagtgtttgagcagtggCtccttactgatctgagggat																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	86616070	C	T	86616070	3	4	85	1	0	0	0	0	1	0	0	0	13397	797	28	2	171	2	RMI1	9	86616070	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	2	86616070	54597361	58	4876	59	2									
ABCA1	19	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	107651383	107651383	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatccacagttacttacAttcatgttgttcatagggtg	11	14	7	9	0	2	0	2	0	0	0	3	0	3	0	1	1	3	3	1	1	4	6	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	107651383	A	T	107651383	3	4	85	1	0	0	0	0	1	0	0	0	28	231	8	5	6817	5	ABCA1	9	107651383	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	21035313	107651383	33562048	59	4877											
SEC16A	9919	hgsc.bcm.edu;ucsc.edu	37	chr9	139369004	139369006	+	In_Frame_Del	DEL	TTT	TTT	-																															tctgggatgactggcaacacTttgctgagaagcgaggctgt																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	139369006	TTT	-	139369004	7	5	85	1	0	1	0	1	0	0	0	0	13988	1609	56	0	4129	0	SEC16A	9	139369004	In_Frame_Del	DEL	TTT	TCGA-B0-4823-01A-02D-1421-08	31717621	139369004	1844427	60	4878											
C9orf86	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139722995	139722995	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagatggagaacgacccccaGgaggtgagtgccaggtacac	13	4	14	10	1	0	3	0	1	0	2	0	6	0	4	3	4	3	1	3	4	3	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	139722995	G	A	139722995	2	1	85	1	0	0	0	0	0	0	0	1	2502	991	35	2		2	C9orf86	9	139722995	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	353991	139722995	1490436	61	4879											
MAN1B1	11253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140002045	140002045	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgttctacctgtaccgCgtcacaggggaccgcaaata	10	8	10	13	3	2	0	1	0	1	0	2	1	2	1	4	2	3	3	4	2	4	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	140002045	C	T	140002045	2	4	85	1	0	0	0	0	0	0	0	1	9212	755	27	1		1	MAN1B1	9	140002045	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	279050	140002045	1211386	62	4880											
FBXO18	84893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5948166	5948166	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcctcaggaaggcagTgcagggccgggctcaccagg	8	4	16	13	1	2	0	2	0	0	0	2	1	2	1	3	5	2	4	3	5	1	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	5948166	T	C	5948166	2	2	85	1	0	0	0	0	0	0	0	1	5731	1693	59	3		3	FBXO18	10	5948166	Silent	SNP	T	TCGA-B0-4823-01A-02D-1421-08		5948166	129586581	63	4881											
MYO3A	53904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26414398	26414398	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccactgtgtggtcactagaGgagaaacaattatacgaccc	13	8	9	11	1	1	2	1	0	0	2	1	4	1	2	2	2	2	0	2	2	5	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	26414398	G	A	26414398	3	1	85	1	0	0	0	0	1	0	0	0	10076	1001	35	2	2041	2	MYO3A	10	26414398	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	20466232	26414398	109120349	64	4882											
ANKRD26	22852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27301965	27301967	+	In_Frame_Del	DEL	GTG	GTG	-																															tgactggcctggtagtgagaGtggtgaacaaagatctgctc																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	GTG	GTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	27301967	GTG	-	27301965	7	5	85	1	0	1	0	1	0	0	0	0	654	1029	36	0	345	0	ANKRD26	10	27301965	In_Frame_Del	DEL	GTG	TCGA-B0-4823-01A-02D-1421-08	887567	27301965	108232782	65	4883											
PPRC1	23082	broad.mit.edu;hgsc.bcm.edu	37	chr10	103899302	103899302	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagggctgcgtagtgcTggagattgtggggcaggcag	6	8	20	7	1	0	2	0	1	0	1	0	3	0	2	1	5	2	5	1	5	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	103899302	T	A	103899302	3	1	85	1	0	0	0	0	1	0	0	0	12412	1580	55	5	1055	5	PPRC1	10	103899302	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	76597337	103899302	31635445	66	4884											
SLC22A10	387775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63059039	63059039	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtatgtgattatcagtcaCtgaaatcagtggttcaattc	11	15	9	6	0	4	2	4	2	0	0	5	2	4	2	0	2	0	2	0	2	4	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	63059039	C	A	63059039	3	1	85	1	0	0	0	0	1	0	0	0	14443	564	20	4	436	4	SLC22A10	11	63059039	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08		63059039	71947477	67	4885											
RCOR2	283248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63682222	63682222	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcgtcagggaatggggTgaagttggccaggtcggcca	8	7	16	10	2	1	1	1	1	0	0	3	2	1	2	3	6	0	1	3	6	2	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	63682222	T	C	63682222	3	2	85	1	0	0	0	0	1	0	0	0	13185	1696	59	3	1218	3	RCOR2	11	63682222	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	623183	63682222	71324294	68	4886											
PRDX5	25824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64088367	64088367	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctgatcccactggggccTttgggaaggtgagtgttccc	5	11	15	10	0	0	2	0	2	0	0	2	3	2	3	3	5	0	2	3	5	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	64088367	T	G	64088367	3	3	85	1	0	0	0	0	1	0	0	0	12470	1609	56	5	483	5	PRDX5	11	64088367	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	406145	64088367	70918149	69	4887											
CCDC88B	283234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64111946	64111946	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgggggttgagacaggagGgccctgagcacaagccaggg	9	4	18	10	0	0	2	0	2	0	1	0	4	0	3	3	5	2	2	3	5	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	64111946	G	T	64111946	3	4	85	1	0	0	0	0	1	0	0	0	2864	1232	43	4	1987	4	CCDC88B	11	64111946	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	23579	64111946	70894570	70	4888											
MMP12	4321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102742668	102742668	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacggttcatgtcaggtGtgtaattattgattctttat	8	18	8	7	1	4	1	3	1	1	0	4	1	4	1	1	2	0	2	1	2	3	7	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	102742668	G	C	102742668	3	2	85	1	0	0	0	0	1	0	0	0	9651	1377	48	4	1078	4	MMP12	11	102742668	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	38630722	102742668	32263848	71	4889											
CARD17	440068	hgsc.bcm.edu;ucsc.edu	37	chr11	104971490	104971490	+	Frame_Shift_Del	DEL	C	C	-																															cggataaactgctttctcttCtccttcaggaccttgtctgt																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	104971490	C	-	104971490	7	5	85	1	0	1	0	1	0	0	0	0	2648	912	32	0	316	0	CARD17	11	104971490	Frame_Shift_Del	DEL	C	TCGA-B0-4823-01A-02D-1421-08	2228822	104971490	30035026	72	4890											
ZW10	9183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	113607443	113607443	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcttcttgatatttcttGttcttgctttcttcagataa	7	21	4	9	0	6	2	1	1	5	1	6	2	6	2	1	0	1	2	1	0	2	10	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	113607443	G	T	113607443	3	4	85	1	0	0	0	0	1	0	0	0	18246	1368	48	4	229	4	ZW10	11	113607443	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	8635953	113607443	21399073	73	4891											
CCDC77	84318	broad.mit.edu;ucsc.edu	37	chr12	518533	518533	+	Splice_Site	DEL	G	-	-																															gaatttttgtgtatttgataGgtgtgaaaaagacagcatga																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	518533	-	-	518533	8	5	85	1	0	1	0	1	0	0	1	0	2851	1014	35	0		0	CCDC77	12	518533	Splice_Site	DEL	G	TCGA-B0-4823-01A-02D-1421-08		518533	133333362	74	4892											
A2ML1	144568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9000255	9000255	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcggtggatgagagtgtCttactgcttaggccagacag	8	9	16	8	2	1	2	0	1	1	2	1	4	1	3	1	4	2	1	1	4	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	9000255	C	A	9000255	2	1	85	1	0	0	0	0	0	0	0	1	5	900	32	4		4	A2ML1	12	9000255	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	8481722	9000255	124851640	75	4893											
PZP	5858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9316306	9316306	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgtgtcttttcttttaatCtcagggacctcaacaacctc	9	15	5	12	0	4	0	2	0	3	0	6	1	4	1	2	1	2	0	2	1	3	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	9316306	C	G	9316306	3	3	85	1	0	0	0	0	1	0	0	0	12871	912	32	4	1818	4	PZP	12	9316306	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	316051	9316306	124535589	76	4894											
PLBD1	79887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14689601	14689601	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaatcagatccaatagaTctccaacactattcaggaac	16	8	7	10	0	3	2	2	0	1	2	5	4	4	4	2	2	2	0	2	2	6	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	14689601	T	A	14689601	3	1	85	1	0	0	0	0	1	0	0	0	12025	1435	50	5	1087	5	PLBD1	12	14689601	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	5373295	14689601	119162294	77	4895											
ACVR1B	91	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52374824	52374824	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agattattggcaagggtcggTttggggaagtatggcggggc	8	10	19	4	2	0	1	0	0	0	1	1	2	0	2	0	8	0	3	0	8	4	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	52374824	T	A	52374824	3	1	85	1	0	0	0	0	1	0	0	0	221	1725	60	5	666	5	ACVR1B	12	52374824	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	37685223	52374824	81477071	78	4896											
KRT74	121391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52967395	52967395	+	Missense_Mutation	SNP	T	T	A																															cattgaaagaaatacgccgaTtccctccaaggctatagagg																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	52967395	T	A	52967395	3	1	85	1	0	0	0	0	1	0	0	0	8487	1493	52	5	1458	5	KRT74	12	52967395	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08	592571	52967395	80884500	79	4897	60	2									
KRT74	121391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52967397	52967397	+	Silent	SNP	C	C	A																															ttgaaagaaatacgccgattCcctccaaggctatagaggct																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	52967397	C	A	52967397	2	1	85	1	0	0	0	0	0	0	0	1	8487	842	30	4		4	KRT74	12	52967397	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	2	52967397	80884498	80	4898	60	2									
TENC1	23371	broad.mit.edu;ucsc.edu	37	chr12	53453510	53453510	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccatgcccagcctgcgaggaGaagctggcgctgcctacagc	8	5	13	15	2	0	1	0	0	0	1	0	3	0	1	4	2	7	2	4	2	2	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	53453510	C	C	53453510	3	2	85	1	0	0	0	0	1	0	0	0	15757	933	33	4	2264	4	TENC1	12	53453510	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	486113	53453510	80398385	81	4899											
PRR13	54458	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53837461	53837461	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcatggttggaccagcAgtgatagtagacaagaagat	13	8	13	7	0	0	4	0	1	0	3	0	5	0	5	2	3	1	4	2	3	4	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	53837461	A	G	53837461	2	3	85	1	0	0	0	0	0	0	0	1	12587	175	7	3		3	PRR13	12	53837461	Silent	SNP	A	TCGA-B0-4823-01A-02D-1421-08	383951	53837461	80014434	82	4900											
MON2	23041	hgsc.bcm.edu;ucsc.edu	37	chr12	62892790	62892790	+	Frame_Shift_Del	DEL	T	T	-																															gcgacaagttgttactgttgTttttgagaggatggttgctg																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		-	62892790	T	-	62892790	7	5	85	1	0	1	0	1	0	0	0	0	9700	1725	60	0	545	0	MON2	12	62892790	Frame_Shift_Del	DEL	T	TCGA-B0-4823-01A-02D-1421-08	9055329	62892790	70959105	83	4901											
LTA4H	4048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96421288	96421288	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagtgagccactggagAgcagaagattttggagaggt	12	8	16	5	0	1	5	1	1	0	4	1	8	1	6	1	4	2	1	1	4	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	96421288	A	G	96421288	2	3	85	1	0	0	0	0	0	0	0	1	9069	291	11	3		3	LTA4H	12	96421288	Silent	SNP	A	TCGA-B0-4823-01A-02D-1421-08	33528498	96421288	37430607	84	4902											
ZMYM2	7750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20567391	20567391	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggaagatgatgatgatgTtgtttttatcgaacctgtac	11	15	11	4	1	0	4	0	3	0	1	1	6	0	5	1	1	2	3	1	1	4	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	20567391	T	A	20567391	3	1	85	1	0	0	0	0	1	0	0	0	17699	1725	60	5	181	5	ZMYM2	13	20567391	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08		20567391	94602487	85	4903											
GRTP1	79774	broad.mit.edu;ucsc.edu	37	chr13	114018185	114018185	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttctcgtaggcggcgtCgtcgaagtcctcaggccgct	7	9	12	13	6	2	0	1	0	1	0	6	1	3	0	2	3	1	2	2	3	3	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	114018185	A	A	114018185	3	1	85	1	0	0	0	0	1	0	0	0	6810	884	31	4	965	4	GRTP1	13	114018185	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	93450794	114018185	1151693	86	4904											
MYH6	4624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23872974	23872974	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggccccaaagtggatcCtaatgaatttcccctgggga	10	9	11	11	0	0	1	0	1	0	0	2	3	2	3	5	4	0	0	5	4	3	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	23872974	C	T	23872974	3	4	85	1	0	0	0	0	1	0	0	0	10038	681	24	2	5194	2	MYH6	14	23872974	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08		23872974	83476566	87	4905											
SIX6	4990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	60977812	60977812	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccccgtagactccagcagCaggtcctgtcacagggttcc	7	9	10	15	1	1	1	1	0	0	1	5	1	5	1	5	2	2	4	5	2	1	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	60977812	C	G	60977812	3	3	85	1	0	0	0	0	1	0	0	0	14353	711	25	4	589	4	SIX6	14	60977812	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	37104838	60977812	46371728	88	4906											
ENTPD5	957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74454758	74454758	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagacagcgctgcaaacAcaggataccaccagcatgaa	15	4	11	11	1	0	2	0	1	0	1	0	4	0	3	2	2	5	3	2	2	3	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	74454758	A	G	74454758	2	3	85	1	0	0	0	0	0	0	0	1	5142	157	6	3		3	ENTPD5	14	74454758	Silent	SNP	A	TCGA-B0-4823-01A-02D-1421-08	13476946	74454758	32894782	89	4907											
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105416511	105416511	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggcccttgacgtccatctgGgggcccttgagggccacttt	4	10	14	13	1	1	2	0	2	1	0	2	2	2	2	4	4	0	0	4	4	0	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	105416511	G	C	105416511	2	2	85	1	0	0	0	0	0	0	0	1	415	1219	43	4		4	AHNAK2	14	105416511	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	30961753	105416511	1933029	90	4908											
MTA1	9112	broad.mit.edu	37	chr14	105930474	105930474	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggggctggccgggcctgcgaGagctgttacagtaagtgccc	6	7	17	11	2	0	1	0	0	0	1	0	2	0	1	3	4	4	4	3	4	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	105930474	C	C	105930474	3	2	85	1	0	0	0	0	1	0	0	0	9908	933	33	4	1232	4	MTA1	14	105930474	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	513963	105930474	1419066	91	4909											
PSMA4	5685	broad.mit.edu	37	chr15	78838990	78838990	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcacttgctttagctaTcaaagtactaaataagacca	15	11	6	9	0	2	1	2	0	0	1	2	1	2	1	1	0	4	4	1	0	7	7	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	78838990	G	G	78838990	3	3	85	1	0	0	0	0	1	0	0	0	12671	1435	50	5	607	5	PSMA4	15	78838990	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08		78838990	23692402	92	4910											
ALPK3	57538	broad.mit.edu;ucsc.edu	37	chr15	85360311	85360311	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccgggagccgggtcccggGagctccacgaaggggcctgt	5	4	19	13	4	0	0	0	0	0	0	2	3	2	2	5	6	2	1	5	6	1	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	85360311	T	T	85360311	2	4	85	1	0	0	0	0	0	0	0	1	546	1161	41	4		4	ALPK3	15	85360311	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	6521321	85360311	17171081	93	4911											
PRC1	9055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91517903	91517903	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttctgcccattcaccataAatgcctttgaatgttcctgt	9	16	5	11	0	2	1	1	1	1	0	3	1	3	1	4	0	2	1	4	0	3	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	91517903	A	T	91517903	3	4	85	1	0	0	0	0	1	0	0	0	12448	14	1	5	624	5	PRC1	15	91517903	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	6157592	91517903	11013489	94	4912											
ABCC11	85320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	48256589	48256589	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacagctgctcggaaccTgatggctgtgcgttggttga	8	10	15	8	2	0	2	0	2	0	0	1	4	0	4	1	4	5	5	1	4	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	48256589	T	A	48256589	3	1	85	1	0	0	0	0	1	0	0	0	51	1579	55	5	3551	5	ABCC11	16	48256589	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08		48256589	42098164	95	4913											
NLRC5	84166	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57104485	57104485	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaggagggcaccaaggCgctgatgagggcccttgagg	9	6	18	8	1	0	5	0	5	0	0	0	6	0	6	2	5	0	2	2	5	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	57104485	C	G	57104485	3	3	85	1	0	0	0	0	1	0	0	0	10470	768	27	4	4764	4	NLRC5	16	57104485	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	8847896	57104485	33250268	96	4914											
DUS2L	54920	hgsc.bcm.edu;ucsc.edu	37	chr16	68112666	68112666	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcagggacaagtccaagaAactggcggagcaggctgcag	12	4	15	10	1	1	1	1	0	0	1	2	3	2	3	1	4	3	4	1	4	3	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	68112666	A	C	68112666	3	2	85	1	0	0	0	0	1	0	0	0	4806	14	1	5	1317	5	DUS2L	16	68112666	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	11008181	68112666	22242087	97	4915											
PLA2G15	23659	broad.mit.edu;hgsc.bcm.edu	37	chr16	68283194	68283194	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtcctgtgccccctgcagtCcctggtgatttgggtaacca	5	12	11	13	0	0	1	0	1	0	0	2	1	2	1	5	2	3	2	5	2	1	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	68283194	C	T	68283194	2	4	85	1	0	0	0	0	0	0	0	1	11992	869	30	2		2	PLA2G15	16	68283194	Silent	SNP	C	TCGA-B0-4823-01A-02D-1421-08	170528	68283194	22071559	98	4916											
PIGL	9487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	16120578	16120578	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtgtggcgttggcggTcttggcatggggcttcctct	1	14	16	10	2	2	0	0	0	2	0	3	0	3	0	2	6	0	3	2	6	0	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	16120578	T	C	16120578	3	2	85	1	0	0	0	0	1	0	0	0	11891	1667	58	3	40	3	PIGL	17	16120578	Missense_Mutation	SNP	T	TCGA-B0-4823-01A-02D-1421-08		16120578	65074632	99	4917											
THRA	7067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38243108	38243108	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcccatgttctccgaggTgagtggcagaagtggggaga	9	8	16	8	1	1	3	0	1	1	2	2	5	1	3	2	4	1	2	2	4	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	38243108	T	A	38243108	5	1	85	1	0	0	0	0	0	0	1	0	15872	1710	59	5	747	5	THRA	17	38243108	Splice_Site	SNP	T	TCGA-B0-4823-01A-02D-1421-08	22122530	38243108	42952102	100	4918											
STAT3	6774	broad.mit.edu;hgsc.bcm.edu	37	chr17	40476790	40476790	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcctcgcttggtggtggaGgagaactgccagctcaggac	8	8	15	10	1	1	1	1	0	0	1	3	4	2	3	2	5	3	2	2	5	1	1	rs1064115	bycluster;alternate_allele	TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	40476790	G	A	40476790	2	1	85	1	0	0	0	0	0	0	0	1	15267	987	35	2		2	STAT3	17	40476790	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	2233682	40476790	40718420	101	4919											
FMNL1	752	broad.mit.edu;hgsc.bcm.edu	37	chr17	43318890	43318890	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggggttaatccgtattCtgcgggggccgggggatgct	7	9	18	7	3	1	1	0	0	1	1	2	2	2	2	2	6	2	3	2	6	3	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	43318890	C	A	43318890	3	1	85	1	0	0	0	0	1	0	0	0	5951	912	32	4	1528	4	FMNL1	17	43318890	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	2842100	43318890	37876320	102	4920											
SAMD14	201191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48191795	48191795	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcctgtgcatgagccaGgagctgggcctgcacacagg	7	7	14	13	0	0	1	0	1	0	0	1	2	1	2	4	3	5	3	4	3	0	0	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	48191795	G	T	48191795	3	4	85	1	0	0	0	0	1	0	0	0	13821	991	35	4	521	4	SAMD14	17	48191795	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	4872905	48191795	33003415	103	4921											
BPTF	2186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65909128	65909128	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctctgccatcctatagaAaatttgttaccaagagcagc	13	10	7	11	0	1	2	0	0	1	2	2	2	2	2	3	0	5	3	3	0	6	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	65909128	A	T	65909128	4	4	85	1	0	0	0	0	0	1	0	0	1495	15	1	5	5556	5	BPTF	17	65909128	Nonsense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	17717333	65909128	15286082	104	4922											
CDH2	1000	hgsc.bcm.edu	37	chr18	25570227	25570228	+	Frame_Shift_Ins	INS	-	-	C																															acggttgcagttgactgaggINSggggtgctgaattcccttgg																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	25570228	-	C	25570227	7	5	85	1	0	1	1	0	0	0	0	0	3105	1232	43	0	1316	0	CDH2	18	25570227	Frame_Shift_Ins	INS	-	TCGA-B0-4823-01A-02D-1421-08		25570227	52507021	105	4923											
ASXL3	80816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	31311969	31311969	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttacgcctcagtacttcagCtctaaataatgaattctttg	11	16	5	9	1	4	1	2	1	2	0	4	1	4	1	1	0	3	2	1	0	6	8	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	31311969	C	G	31311969	3	3	85	1	0	0	0	0	1	0	0	0	1068	797	28	4	951	4	ASXL3	18	31311969	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	5741742	31311969	46765279	106	4924											
CELF4	56853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	34833794	34833794	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagtacgggcgattggcgtCtttgggccgcttcagctgca	5	11	14	11	4	3	0	2	0	1	0	3	1	3	0	1	3	3	4	1	3	1	4	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	34833794	C	G	34833794	3	3	85	1	0	0	0	0	1	0	0	0	3218	913	32	4	23	4	CELF4	18	34833794	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	3521825	34833794	43243454	107	4925											
ZNF77	58492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2934740	2934740	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaactcttgtgcacaagaaGgttcgcagtctggctcaagg	10	10	12	9	1	3	1	1	0	2	1	4	1	3	1	0	3	2	5	0	3	4	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	2934740	G	C	2934740	3	2	85	1	0	0	0	0	1	0	0	0	18141	1000	35	4	1256	4	ZNF77	19	2934740	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08		2934740	56194243	108	4926											
SMARCA4	6597	hgsc.bcm.edu;ucsc.edu	37	chr19	11100029	11100030	+	In_Frame_Ins	INS	-	-	GAA																															cacaccgaattcaggaacttINSgaaaaccttcccgggtccct																								novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		GAA	11100030	-	GAA	11100029	7	5	85	1	0	1	1	0	0	0	0	0	14772	1799	63	0	1177	0	SMARCA4	19	11100029	In_Frame_Ins	INS	-	TCGA-B0-4823-01A-02D-1421-08	8165289	11100029	48028954	109	4927											
CHERP	10523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16634081	16634081	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcatgcggtggccagggtGgtggtgagggggccccattt	5	8	20	8	1	0	1	0	1	0	0	0	1	0	1	3	8	1	1	3	8	0	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	16634081	G	T	16634081	3	4	85	1	0	0	0	0	1	0	0	0	3336	1348	47	4	1016	4	CHERP	19	16634081	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	5534052	16634081	42494902	110	4928											
NOP56	10528	hgsc.bcm.edu	37	chr20	2637724	2637724	+	RNA	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagcacttttctttgacCaggcagaggaagcggctgct	8	13	11	9	1	1	2	0	1	1	1	1	3	1	3	1	3	3	4	1	3	2	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	2637724	C	G	2637724	1	3	85	0	1	0	0	0	0	0	0	0	10539	609	21	4		4	NOP56	20	2637724	RNA	SNP	C	TCGA-B0-4823-01A-02D-1421-08		2637724	60387796	111	4929											
SIGLEC1	6614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3677901	3677901	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagaagttagcagggctGccagcagcttcccggctcac	9	6	13	13	1	1	1	1	0	0	1	2	2	2	1	2	3	4	6	2	3	2	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	3677901	G	C	3677901	2	2	85	1	0	0	0	0	0	0	0	1	14307	1306	46	4		4	SIGLEC1	20	3677901	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	1040177	3677901	59347619	112	4930											
HCK	3055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30671834	30671834	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcactctgcaggagctggtgGaccactacaagagtgagtcc	10	7	13	11	0	1	2	0	1	1	1	2	4	2	4	2	3	3	3	2	3	2	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	30671834	G	A	30671834	3	1	85	1	0	0	0	0	1	0	0	0	6994	1174	41	2	702	2	HCK	20	30671834	Missense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	26993933	30671834	32353686	113	4931											
DNMT3B	1789	hgsc.bcm.edu;ucsc.edu	37	chr20	31386266	31386266	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccctgccactgggtccagGtgtttctgtgtggagtgcct	3	13	13	12	0	1	0	0	0	1	0	3	1	3	1	4	3	2	1	4	3	0	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	31386266	G	T	31386266	2	4	85	1	0	0	0	0	0	0	0	1	4677	1275	44	4		4	DNMT3B	20	31386266	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	714432	31386266	31639254	114	4932											
MAP1LC3A	84557	broad.mit.edu;hgsc.bcm.edu	37	chr20	33147238	33147238	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaccatgtcaacatgagcGagttggtcaagatcatccgg	11	8	12	10	3	3	2	3	1	0	1	4	4	4	3	2	3	2	1	2	3	2	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	33147238	G	T	33147238	4	4	85	1	0	0	0	0	0	1	0	0	9230	1059	37	4	250	4	MAP1LC3A	20	33147238	Nonsense_Mutation	SNP	G	TCGA-B0-4823-01A-02D-1421-08	1760972	33147238	29878282	115	4933											
SLC32A1	140679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37356752	37356752	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacatcgcagcctgcgtgCtcaagggcctcttcgcgctc	5	8	11	17	5	2	0	1	0	1	0	5	0	2	0	2	1	3	4	2	1	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		T	37356752	C	T	37356752	3	4	85	1	0	0	0	0	1	0	0	0	14567	797	28	2	1054	2	SLC32A1	20	37356752	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08	4209514	37356752	25668768	116	4934											
RNF114	55905	hgsc.bcm.edu;ucsc.edu	37	chr20	48561952	48561952	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatccggtcccacgtggctActtgttccaaataccagaat	11	10	8	12	2	0	2	0	0	0	2	3	2	3	2	4	2	2	2	4	2	4	4	rs143932352	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	48561952	A	G	48561952	3	3	85	1	0	0	0	0	1	0	0	0	13431	391	14	3	335	3	RNF114	20	48561952	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08	11205200	48561952	14463568	117	4935											
KRTAP10-4	386672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	45993662	45993662	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgctccagcgacctgagCtacagcagccgcgtctgcct	6	8	11	16	3	2	1	0	1	2	0	3	2	3	1	4	0	7	3	4	0	1	1	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		G	45993662	C	G	45993662	3	3	85	1	0	0	0	0	1	0	0	0	8511	796	28	4	29	4	KRTAP10-4	21	45993662	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08		45993662	2136233	118	4936											
FBXO7	25793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32875201	32875201	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactagcatgcaggatgaacAaccaagtgattcattccaag	15	8	9	9	0	1	2	1	2	0	0	2	4	2	3	2	1	4	2	2	1	5	3	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		C	32875201	A	C	32875201	3	2	85	1	0	0	0	0	1	0	0	0	5760	130	5	5	403	5	FBXO7	22	32875201	Missense_Mutation	SNP	A	TCGA-B0-4823-01A-02D-1421-08		32875201	18429365	119	4937											
FIGF	2277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	15402054	15402054	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaaaacattcaccactacCcactctctgtacattttgaa	14	12	3	12	0	2	2	1	2	1	0	3	2	2	2	2	0	3	1	2	0	5	5	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	15402054	C	A	15402054	3	1	85	1	0	0	0	0	1	0	0	0	5889	624	22	4	1077	4	FIGF	23	15402054	Missense_Mutation	SNP	C	TCGA-B0-4823-01A-02D-1421-08		15402054	139868506	120	4938											
HDAC6	10013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48681371	48681371	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaagttggtcaccaagaaGgcaccccaaccagccaaacc	14	5	7	15	0	2	1	1	0	1	1	2	1	2	1	6	2	3	2	6	2	5	2	novel		TCGA-B0-4823-01A-02D-1421-08	TCGA-B0-4823-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9f790e7e-3475-4242-82fc-cbdd461ce5ef	48a6852a-43e1-453d-a792-b46e6d01e275		A	48681371	G	A	48681371	2	1	85	1	0	0	0	0	0	0	0	1	7011	991	35	2		2	HDAC6	23	48681371	Silent	SNP	G	TCGA-B0-4823-01A-02D-1421-08	33279317	48681371	106589189	121	4939											
SPOCD1	90853	hgsc.bcm.edu	37	chr1	32280241	32280241	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggaggttgtccccacgagGgctctgatcaagccacagga	10	6	13	12	1	2	1	1	1	1	0	3	4	3	3	3	4	1	2	3	4	1	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	32280241	G	T	32280241	3	4	86	1	0	0	0	0	1	0	0	0	15079	1232	43	4	3016	4	SPOCD1	1	32280241	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10		32280241	216970380	1	4940											
CSMD2	114784	hgsc.bcm.edu;ucsc.edu	37	chr1	34166201	34166201	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgctggatgtgctgttcaAagtcacccccatcatctcag	9	11	8	13	0	4	0	4	0	1	0	5	1	4	1	2	1	2	3	2	1	1	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	34166201	A	C	34166201	3	2	86	1	0	0	0	0	1	0	0	0	3945	11	1	5	7122	5	CSMD2	1	34166201	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	1885960	34166201	215084420	2	4941											
RLF	6018	hgsc.bcm.edu;ucsc.edu	37	chr1	40702738	40702738	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagtgacttgggacagctTtaccaccatgaagcacaaca	13	9	8	11	0	1	2	1	2	0	0	1	3	1	3	2	1	4	2	2	1	3	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	40702738	T	G	40702738	2	3	86	1	0	0	0	0	0	0	0	1	13391	1828	64	5		5	RLF	1	40702738	Silent	SNP	T	TCGA-B0-4824-01A-01D-1361-10	6536537	40702738	208547883	3	4942											
TAF13	6884	hgsc.bcm.edu	37	chr1	109617620	109617620	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actacttacattctttagaaAaaagtctctttcttttaccc	12	17	2	10	0	3	1	0	0	3	1	4	1	3	1	1	0	3	0	1	0	7	8	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	109617620	A	T	109617620	3	4	86	1	0	0	0	0	1	0	0	0	15516	14	1	5	291	5	TAF13	1	109617620	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	68914882	109617620	139633001	4	4943											
SYT6	148281	hgsc.bcm.edu	37	chr1	114640500	114640500	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatctcattgtggcccactCtgagggagaaacaaaagtcc	12	9	10	10	0	2	3	1	2	2	1	4	4	3	3	2	2	1	0	2	2	3	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	114640500	C	T	114640500	5	4	86	1	0	0	0	0	0	0	1	0	15477	927	32	2	176	2	SYT6	1	114640500	Splice_Site	SNP	C	TCGA-B0-4824-01A-01D-1361-10	5022880	114640500	134610121	5	4944											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144868085	144868085	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttggaggagagtgaggcTgggcagagttgaggtagtag	9	8	19	5	0	0	4	0	2	0	2	0	6	0	5	1	5	0	5	1	5	2	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	144868085	T	A	144868085	3	1	86	1	0	0	0	0	1	0	0	0	11643	1580	55	5	1734	5	PDE4DIP	1	144868085	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	30227585	144868085	104382536	6	4945											
FLG	2312	hgsc.bcm.edu;ucsc.edu	37	chr1	152284057	152284057	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccctgaccagtcacgtgcgGactcttggtggctctgctga	5	10	12	14	2	3	2	1	2	2	0	3	3	3	3	3	3	2	2	3	3	0	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	152284057	G	T	152284057	3	4	86	1	0	0	0	0	1	0	0	0	5922	1174	41	4	8884	4	FLG	1	152284057	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	7415972	152284057	96966564	7	4946											
TDRD10	126668	hgsc.bcm.edu	37	chr1	154517301	154517301	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggacagggtggacacctgGgctgtggtcatgttcattga	7	11	15	8	0	2	1	2	1	0	0	2	3	2	3	1	5	0	2	1	5	0	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	154517301	G	T	154517301	3	4	86	1	0	0	0	0	1	0	0	0	15730	1241	43	4	866	4	TDRD10	1	154517301	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	2233244	154517301	94733320	8	4947											
THBS3	7059	hgsc.bcm.edu	37	chr1	155166922	155166922	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtgggtctgtccacagcAgtcgtacctgatcaggggtg	6	11	14	10	2	2	1	1	1	1	0	5	1	3	1	2	3	2	2	2	3	1	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	155166922	A	T	155166922	3	4	86	1	0	0	0	0	1	0	0	0	15854	188	7	5	300	5	THBS3	1	155166922	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	649621	155166922	94083699	9	4948											
PIK3C2B	5287	hgsc.bcm.edu	37	chr1	204397328	204397328	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccggggcagtgggtggaaGaaggtgtacaccaaatcaca	12	6	14	9	1	1	1	1	0	0	1	2	2	2	2	2	5	1	2	2	5	4	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	204397328	G	C	204397328	3	2	86	1	0	0	0	0	1	0	0	0	11910	933	33	4	501	4	PIK3C2B	1	204397328	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	49230406	204397328	44853293	10	4949											
NUAK2	81788	hgsc.bcm.edu;ucsc.edu	37	chr1	205280933	205280933	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatctttgattttgtccttCcggattgacttgatggccac	6	17	8	10	1	2	3	1	3	1	0	4	4	4	4	3	2	0	0	3	2	0	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	205280933	C	A	205280933	2	1	86	1	0	0	0	0	0	0	0	1	10713	842	30	4		4	NUAK2	1	205280933	Silent	SNP	C	TCGA-B0-4824-01A-01D-1361-10	883605	205280933	43969688	11	4950											
KCNK2	3776	hgsc.bcm.edu	37	chr1	215259812	215259812	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgcttcccgggtggagAgtgacacgaccattaatgtt	8	12	12	9	2	0	2	0	1	0	1	1	4	1	2	2	2	2	3	2	2	1	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	215259812	A	T	215259812	3	4	86	1	0	0	0	0	1	0	0	0	8066	304	11	5	197	5	KCNK2	1	215259812	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	9978879	215259812	33990809	12	4951											
TGFB2	7042	hgsc.bcm.edu	37	chr1	218578652	218578652	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaaagccagagtgcctgAacaacggattgagctatatc	14	7	9	11	1	0	3	0	2	0	1	1	4	0	4	3	1	5	1	3	1	6	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	218578652	A	T	218578652	3	4	86	1	0	0	0	0	1	0	0	0	15817	246	9	5	582	5	TGFB2	1	218578652	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	3318840	218578652	30671969	13	4952											
EPRS	2058	hgsc.bcm.edu	37	chr1	220174554	220174554	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcctttgtgtgcccatcagGaatgtatatcaaaacacacg	12	12	7	10	1	2	0	2	0	0	0	3	1	3	1	2	1	2	1	2	1	5	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	220174554	G	T	220174554	3	4	86	1	0	0	0	0	1	0	0	0	5191	1174	41	4	2495	4	EPRS	1	220174554	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	1595902	220174554	29076067	14	4953											
OR2T29	343563	hgsc.bcm.edu	37	chr1	248722108	248722108	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgagttcatcctgtggaCggtgaggaggatgagtaaat	10	11	15	5	1	1	3	1	3	0	0	2	6	2	6	1	4	1	3	1	4	2	2	rs1981236		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	248722108	C	T	248722108	3	4	86	1	0	0	0	0	1	0	0	0	11022	536	19	1	266	1	OR2T29	1	248722108	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	28547554	248722108	528513	15	4954											
APOB	338	hgsc.bcm.edu;ucsc.edu	37	chr2	21234327	21234327	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgttggtgagatccagagCattgtatttcaggtcactgt	9	15	11	6	0	2	2	2	1	0	2	3	3	3	2	1	2	1	3	1	2	1	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	21234327	C	A	21234327	3	1	86	1	0	0	0	0	1	0	0	0	785	710	25	4	8294	4	APOB	2	21234327	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10		21234327	221965046	16	4955											
SOS1	6654	hgsc.bcm.edu	37	chr2	39214679	39214679	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggaacaggaggagggaCaggcacttcatcagtgcctt	11	7	15	8	0	2	0	2	0	0	0	2	5	2	5	1	6	2	1	1	6	1	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	39214679	C	G	39214679	3	3	86	1	0	0	0	0	1	0	0	0	14938	478	17	4	564	4	SOS1	2	39214679	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	17980352	39214679	203984694	17	4956											
SMEK2	57223	hgsc.bcm.edu	37	chr2	55804449	55804449	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagtatgaattcatacttAccgggacaaattgtgttgtt	13	15	8	5	1	1	1	1	1	0	0	1	2	1	2	1	1	2	3	1	1	7	8	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	55804449	A	T	55804449	5	4	86	1	0	0	0	0	0	0	1	0	14796	405	14	5	969	5	SMEK2	2	55804449	Splice_Site	SNP	A	TCGA-B0-4824-01A-01D-1361-10	16589770	55804449	187394924	18	4957											
USP34	9736	hgsc.bcm.edu	37	chr2	61571101	61571101	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatatttttttctgatttTgcactaacctgggagctact	8	17	7	9	0	1	1	0	1	1	0	1	2	1	2	2	1	4	2	2	1	3	8	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	61571101	T	C	61571101	2	2	86	1	0	0	0	0	0	0	0	1	17064	1799	63	3		3	USP34	2	61571101	Silent	SNP	T	TCGA-B0-4824-01A-01D-1361-10	5766652	61571101	181628272	19	4958											
GFPT1	2673	hgsc.bcm.edu;ucsc.edu	37	chr2	69565625	69565625	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcgaaagactggtgtgtTtctgtccaggaagtcacttg	9	13	11	8	1	3	1	1	0	2	1	5	3	4	2	1	2	0	1	1	2	2	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	69565625	T	G	69565625	3	3	86	1	0	0	0	0	1	0	0	0	6345	1841	64	5	851	5	GFPT1	2	69565625	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	7994524	69565625	173633748	20	4959											
DCTN1	1639	hgsc.bcm.edu	37	chr2	74605251	74605251	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacccatttgccagtggcaAacagtgtggctccaacatag	11	9	9	12	0	0	0	0	0	0	0	1	0	1	0	3	2	4	2	3	2	4	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	74605251	A	C	74605251	3	2	86	1	0	0	0	0	1	0	0	0	4306	14	1	5	3817	5	DCTN1	2	74605251	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	5039626	74605251	168594122	21	4960											
CTNNA2	1496	hgsc.bcm.edu;ucsc.edu	37	chr2	80101323	80101323	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacccagatgtcgccgctaCgagagccaaccgagattatg	11	6	10	14	4	0	3	0	0	0	3	1	5	0	3	5	0	3	1	5	0	3	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	80101323	C	T	80101323	3	4	86	1	0	0	0	0	1	0	0	0	4013	536	19	1	725	1	CTNNA2	2	80101323	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	5496072	80101323	163098050	22	4961											
GLS	2744	hgsc.bcm.edu;ucsc.edu	37	chr2	191759912	191759912	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgttacctagcttggaaGatttgctgttctatacaatt	9	17	8	7	0	2	1	0	0	2	1	2	2	2	2	1	1	4	4	1	1	6	8	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	191759912	G	T	191759912	3	4	86	1	0	0	0	0	1	0	0	0	6463	942	33	4	427	4	GLS	2	191759912	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	111658589	191759912	51439461	23	4962											
C2orf60	0	hgsc.bcm.edu;ucsc.edu	37	chr2	200797973	200797973	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttttatcatagcattcAgatggaaggtgcttccaaaa	12	14	8	7	0	3	1	2	0	1	1	4	2	4	2	1	2	2	3	1	2	5	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	200797973	A	G	200797973	2	3	86	1	0	0	0	0	0	0	0	1	2179	175	7	3		3	C2orf60	2	200797973	Silent	SNP	A	TCGA-B0-4824-01A-01D-1361-10	9038061	200797973	42401400	24	4963											
TOP2B	7155	hgsc.bcm.edu	37	chr3	25678779	25678779	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactgaaaatattacaaagtTttgcaccataaccattacga	17	12	4	8	1	0	1	0	1	0	0	0	2	0	1	2	0	5	2	2	0	8	7	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	25678779	T	G	25678779	3	3	86	1	0	0	0	0	1	0	0	0	16365	1841	64	5	4438	5	TOP2B	3	25678779	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10		25678779	172343651	25	4964											
ARPP21	10777	hgsc.bcm.edu	37	chr3	35780926	35780926	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttatgccacagccggccCagcagcccagctatgtaatc	9	7	8	17	1	0	0	0	0	0	0	1	0	0	0	5	1	5	3	5	1	3	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	35780926	C	T	35780926	4	4	86	1	0	0	0	0	0	1	0	0	978	595	21	2	1833	2	ARPP21	3	35780926	Nonsense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	10102147	35780926	162241504	26	4965											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52682447	52682447	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccattgcatgaatacttttGtagcttccattctacaataa	12	15	5	9	0	1	1	0	1	1	0	2	1	2	1	2	0	4	3	2	0	6	9	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	52682447	G	C	52682447	4	2	86	1	0	0	0	0	0	1	0	0	11491	1372	48	4	4270	4	PBRM1	3	52682447	Nonsense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	16901521	52682447	145339983	27	4966											
KLF15	28999	hgsc.bcm.edu	37	chr3	126070874	126070874	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggagaccggcagggccagGccccaggggtcccgatccaa	9	2	16	14	2	0	1	0	0	0	1	2	4	2	1	6	6	0	1	6	6	1	0	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	126070874	G	T	126070874	3	4	86	1	0	0	0	0	1	0	0	0	8343	1203	42	4	366	4	KLF15	3	126070874	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	73388427	126070874	71951556	28	4967											
ARMC8	25852	hgsc.bcm.edu	37	chr3	138014726	138014726	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggcactgcagcagtacCtggcatgatgggagtgcccc	9	7	14	11	0	0	2	0	1	0	1	0	3	0	3	3	3	4	5	3	3	1	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	138014726	C	A	138014726	3	1	86	1	0	0	0	0	1	0	0	0	957	680	24	4	2124	4	ARMC8	3	138014726	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	11943852	138014726	60007704	29	4968											
SLC33A1	9197	hgsc.bcm.edu;ucsc.edu	37	chr3	155547678	155547678	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccattatagaaacatacatGctgtacactgtaacctacgg	14	10	7	10	1	0	1	0	0	0	1	0	1	0	1	2	1	6	3	2	1	7	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	155547678	G	A	155547678	2	1	86	1	0	0	0	0	0	0	0	1	14568	1310	46	2		2	SLC33A1	3	155547678	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10	17532952	155547678	42474752	30	4969											
PIK3CA	5290	hgsc.bcm.edu;ucsc.edu	37	chr3	178916827	178916827	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatcttcttacattttcgtaAgtgttactcaagaagcagaa	14	14	6	7	1	3	2	1	0	2	2	4	2	3	2	0	0	3	3	0	0	7	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	178916827	A	G	178916827	3	3	86	1	0	0	0	0	1	0	0	0	11913	72	3	3	216	3	PIK3CA	3	178916827	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	23369149	178916827	19105603	31	4970											
MUC4	4585	hgsc.bcm.edu	37	chr3	195509443	195509443	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagagaggtggcgtgacctAtggatgctgaggaagtgtcg	10	8	18	5	2	0	3	0	2	0	1	1	7	0	5	1	4	1	1	1	4	3	1	rs74585045		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	195509443	A	G	195509443	3	3	86	1	0	0	0	0	1	0	0	0	9978	449	16	3		3	MUC4	3	195509443	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	16592616	195509443	2512987	32	4971											
SEL1L3	23231	hgsc.bcm.edu;ucsc.edu	37	chr4	25834645	25834645	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgttaaaagagatatccagtCgaaaccactccttcaaaggt	15	9	7	10	2	1	1	1	0	0	1	4	3	3	1	3	1	1	1	3	1	5	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	25834645	C	T	25834645	3	4	86	1	0	0	0	0	1	0	0	0	14014	884	31	1	2408	1	SEL1L3	4	25834645	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10		25834645	165319631	33	4972											
GABRB1	2560	hgsc.bcm.edu;ucsc.edu	37	chr4	47033727	47033727	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctttccctgtgatgattaCcatggtctgttgtgcacaca	7	15	8	11	0	2	2	0	2	2	0	3	2	3	2	2	1	2	2	2	1	1	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	47033727	C	G	47033727	3	3	86	1	0	0	0	0	1	0	0	0	6166	507	18	4	61	4	GABRB1	4	47033727	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	21199082	47033727	144120549	34	4973											
PCDH10	57575	hgsc.bcm.edu	37	chr4	134071622	134071622	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctgttccaggtggaGatcgaggtgctggacattaa	9	10	15	7	1	0	1	0	0	0	1	2	5	1	3	1	5	2	3	1	5	1	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	134071622	G	T	134071622	3	4	86	1	0	0	0	0	1	0	0	0	11507	933	33	4	329	4	PCDH10	4	134071622	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	87037895	134071622	57082654	35	4974											
NPY1R	4886	hgsc.bcm.edu	37	chr4	164247020	164247020	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttaccttgaagtagcaAataaatataaaacaaagtgg	18	12	6	5	0	1	1	0	1	1	0	1	1	1	1	1	1	3	2	1	1	10	7	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	164247020	A	C	164247020	3	2	86	1	0	0	0	0	1	0	0	0	10608	10	1	5	475	5	NPY1R	4	164247020	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	30175398	164247020	26907256	36	4975											
TKTL2	84076	hgsc.bcm.edu;ucsc.edu	37	chr4	164394547	164394547	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcaacaaacggcaatcgggGggtagggtgtctctccaagt	10	8	14	9	2	2	0	1	0	1	0	5	0	3	0	1	5	2	2	1	5	5	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	164394547	G	T	164394547	3	4	86	1	0	0	0	0	1	0	0	0	15935	1232	43	4	1544	4	TKTL2	4	164394547	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	147527	164394547	26759729	37	4976											
MYO10	4651	hgsc.bcm.edu	37	chr5	16668521	16668521	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacgcttgtagacggaGacggcgtccgcgctgacacc	7	7	12	15	6	1	3	0	1	1	2	3	4	2	3	3	2	0	3	3	2	1	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	16668521	G	T	16668521	2	4	86	1	0	0	0	0	0	0	0	1	10062	929	33	4		4	MYO10	5	16668521	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10		16668521	164246739	38	4977											
MCCC2	64087	hgsc.bcm.edu	37	chr5	70922483	70922483	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagatcgcagtggtcatggGctcctgcaccgcaggaggag	8	6	15	12	2	1	1	1	0	0	1	3	3	2	3	3	4	1	4	3	4	0	0	rs277995	alternate_allele	TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	70922483	G	A	70922483	3	1	86	1	0	0	0	0	1	0	0	0	9375	1203	42	2	667	2	MCCC2	5	70922483	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	54253962	70922483	109992777	39	4978											
MAP1B	4131	hgsc.bcm.edu	37	chr5	71492078	71492078	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaacacgtatgtgtgagcGcctccaagcacagccccact	11	6	10	14	2	0	1	0	1	0	0	1	2	1	2	4	1	4	2	4	1	3	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	71492078	G	A	71492078	3	1	86	1	0	0	0	0	1	0	0	0	9228	1087	38	1	2914	1	MAP1B	5	71492078	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	569595	71492078	109423182	40	4979											
GPR98	84059	hgsc.bcm.edu;ucsc.edu	37	chr5	89989909	89989909	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtgccactttgtgccttaagGaacaagcttgctcagcgttt	8	13	10	10	1	1	0	1	0	0	0	1	1	1	1	2	1	6	3	2	1	3	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	89989909	G	C	89989909	3	2	86	1	0	0	0	0	1	0	0	0	6721	1175	41	4	7466	4	GPR98	5	89989909	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	18497831	89989909	90925351	41	4980											
SEC24A	10802	hgsc.bcm.edu;ucsc.edu	37	chr5	134033690	134033690	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattacagaaggaactacagAgataccttactcggaagatt	17	9	8	7	1	0	3	0	0	0	3	1	6	0	5	1	2	5	0	1	2	8	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	134033690	A	T	134033690	4	4	86	1	0	0	0	0	0	1	0	0	13996	296	11	5	2267	5	SEC24A	5	134033690	Nonsense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	44043781	134033690	46881570	42	4981											
KIAA0319	9856	hgsc.bcm.edu	37	chr6	24596606	24596606	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggagcacaaaagtgagaTaagacctgatggggcccatc	13	5	13	10	1	0	3	0	2	0	2	1	5	0	4	3	3	1	1	3	3	3	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	24596606	T	C	24596606	3	2	86	1	0	0	0	0	1	0	0	0	8168	1406	49	3	2998	3	KIAA0319	6	24596606	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10		24596606	146518461	43	4982											
SYNGAP1	8831	hgsc.bcm.edu;ucsc.edu	37	chr6	33408632	33408632	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcgcttcctctgcccagcGattatgtcgcccagtctctt	4	13	8	16	3	2	0	0	0	2	0	5	1	3	0	3	0	3	1	3	0	1	3	rs77934848	byfrequency;by1000genomes	TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	33408632	G	A	33408632	2	1	86	1	0	0	0	0	0	0	0	1	15446	1045	37	1		1	SYNGAP1	6	33408632	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10	8812026	33408632	137706435	44	4983											
FRS3	10817	hgsc.bcm.edu	37	chr6	41740607	41740607	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggtgatgatgacaggcTcttccatcacattgatgctg	8	12	12	9	1	2	4	1	4	1	0	3	4	3	4	1	2	2	2	1	2	0	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	41740607	T	A	41740607	3	1	86	1	0	0	0	0	1	0	0	0	6062	1551	54	5	1146	5	FRS3	6	41740607	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	8331975	41740607	129374460	45	4984											
TAF8	129685	hgsc.bcm.edu;ucsc.edu	37	chr6	42044898	42044898	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagaacccctccttgtcgGgtagccggaatggggaggag	9	6	16	10	2	0	1	0	0	0	1	2	4	1	4	4	5	3	2	4	5	3	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	42044898	G	T	42044898	3	4	86	1	0	0	0	0	1	0	0	0	15533	1232	43	4	871	4	TAF8	6	42044898	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	304291	42044898	129070169	46	4985											
MEP1A	4224	hgsc.bcm.edu	37	chr6	46787323	46787323	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatttccattggccaaggAtgtgcctataaggccatcat	12	11	8	10	0	1	0	1	0	0	0	2	1	2	1	4	3	2	0	4	3	4	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	46787323	A	G	46787323	2	3	86	1	0	0	0	0	0	0	0	1	9475	320	12	3		3	MEP1A	6	46787323	Silent	SNP	A	TCGA-B0-4824-01A-01D-1361-10	4742425	46787323	124327744	47	4986											
CARD11	84433	hgsc.bcm.edu	37	chr7	2949760	2949760	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggacttgatcaagtctcTtgtgcagccgatcccagcct	7	12	10	12	1	2	1	1	1	1	0	4	3	3	2	3	1	3	2	3	1	1	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	2949760	T	G	2949760	2	3	86	1	0	0	0	0	0	0	0	1	2645	1617	56	5		5	CARD11	7	2949760	Silent	SNP	T	TCGA-B0-4824-01A-01D-1361-10		2949760	156188903	48	4987											
WBSCR17	64409	hgsc.bcm.edu	37	chr7	71130461	71130461	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccacattgagcggaaGaagaagccatataatagcaa	16	6	11	8	1	0	3	0	1	0	2	0	4	0	4	2	2	3	1	2	2	7	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	71130461	G	T	71130461	3	4	86	1	0	0	0	0	1	0	0	0	17263	933	33	4	1172	4	WBSCR17	7	71130461	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	68180701	71130461	88008202	49	4988											
POM121C	100101267	hgsc.bcm.edu	37	chr7	75055733	75055733	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggggccatttctcttccaGagctaaaaatcaagagggac	12	9	10	10	0	2	2	1	0	1	2	4	3	3	3	2	3	1	1	2	3	4	3	rs2429596		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	75055733	G	C	75055733	2	2	86	1	0	0	0	0	0	0	0	1	12240	929	33	4		4	POM121C	7	75055733	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10	3925272	75055733	84082930	50	4989											
AASS	10157	hgsc.bcm.edu	37	chr7	121721615	121721615	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctctgtttataagacctAattttacaaatccattcaaa	14	16	2	9	0	2	1	1	0	1	1	4	1	3	1	2	0	1	1	2	0	6	8	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	121721615	A	T	121721615	4	4	86	1	0	0	0	0	0	1	0	0	24	372	13	5	581	5	AASS	7	121721615	Nonsense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	46665882	121721615	37417048	51	4990											
ZMAT4	79698	hgsc.bcm.edu	37	chr8	40683123	40683123	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacacgctgcgattcggAgatcagctgtgcactgcaca	9	7	12	13	3	1	1	1	0	0	1	2	3	1	1	1	2	4	4	1	2	0	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	40683123	A	C	40683123	3	2	86	1	0	0	0	0	1	0	0	0	17693	304	11	5	640	5	ZMAT4	8	40683123	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10		40683123	105680899	52	4991											
CHRNA6	8973	hgsc.bcm.edu	37	chr8	42611309	42611309	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggggcagcagcttcaggaAaactgtcttcacccacctgg	9	8	11	13	0	3	0	2	0	1	0	3	1	3	1	2	4	3	3	2	4	2	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	42611309	A	C	42611309	3	2	86	1	0	0	0	0	1	0	0	0	3387	14	1	5	459	5	CHRNA6	8	42611309	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	1928186	42611309	103752713	53	4992											
SLCO5A1	81796	hgsc.bcm.edu	37	chr8	70744113	70744113	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatctgcgcgcaaatgaataAagccacgtagacccagtgat	15	7	9	10	3	1	3	0	2	1	1	1	3	1	3	2	0	2	2	2	0	6	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	70744113	A	C	70744113	3	2	86	1	0	0	0	0	1	0	0	0	14733	11	1	5	1786	5	SLCO5A1	8	70744113	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	28132804	70744113	75619909	54	4993											
PKHD1L1	93035	hgsc.bcm.edu;ucsc.edu	37	chr8	110447494	110447494	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgtccatggctgatgttgGactagcacagaatgtagggg	9	11	15	6	0	0	2	0	1	0	1	1	3	1	3	1	4	1	4	1	4	3	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	110447494	G	A	110447494	3	1	86	1	0	0	0	0	1	0	0	0	11972	1174	41	2	3530	2	PKHD1L1	8	110447494	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	39703381	110447494	35916528	55	4994											
KHDRBS3	10656	hgsc.bcm.edu;ucsc.edu	37	chr8	136533552	136533552	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtgattaataagaacaTgaagctgggacagaaagtgt	15	10	13	3	0	0	4	0	2	0	2	0	5	0	5	0	2	2	1	0	2	5	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	136533552	T	C	136533552	3	2	86	1	0	0	0	0	1	0	0	0	8148	1464	51	3	167	3	KHDRBS3	8	136533552	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	26086058	136533552	9830470	56	4995											
UBAP2	55833	hgsc.bcm.edu	37	chr9	33986813	33986813	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtccacttgattgcaatcAattccattttcttcacctct	8	18	3	12	0	4	1	2	1	2	0	6	1	6	1	3	0	1	1	3	0	2	7	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	33986813	A	C	33986813	3	2	86	1	0	0	0	0	1	0	0	0	16836	126	5	5	2990	5	UBAP2	9	33986813	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10		33986813	107226618	57	4996											
ZNF618	114991	hgsc.bcm.edu	37	chr9	116810945	116810945	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccagccactaccagtggtTtaacacccaacagcatgatc	12	8	7	14	0	0	1	0	1	0	0	1	1	0	1	4	1	6	2	4	1	3	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	116810945	T	G	116810945	3	3	86	1	0	0	0	0	1	0	0	0	18041	1838	64	5	1138	5	ZNF618	9	116810945	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	82824132	116810945	24402486	58	4997											
COL5A1	1289	hgsc.bcm.edu	37	chr9	137717654	137717654	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgaatactgggtcgaTcctaaccaaggatgctccag	11	8	11	11	1	0	1	0	1	0	0	3	3	2	2	4	3	3	1	4	3	4	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	137717654	T	A	137717654	3	1	86	1	0	0	0	0	1	0	0	0	3696	1432	50	5	5221	5	COL5A1	9	137717654	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	20906709	137717654	3495777	59	4998											
AKR1E2	83592	hgsc.bcm.edu;ucsc.edu	37	chr10	4873024	4873024	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacgggaggatctgttcaTtgccactaaggtagggcttc	10	10	13	8	1	2	1	1	0	1	1	3	3	2	3	1	4	1	3	1	4	3	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	4873024	T	C	4873024	3	2	86	1	0	0	0	0	1	0	0	0	474	1493	52	3	203	3	AKR1E2	10	4873024	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10		4873024	130661723	60	4999											
CACNB2	783	hgsc.bcm.edu	37	chr10	18629864	18629864	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattggtctagcatgcttgaCagacgccttatagctcctca	10	12	8	11	1	2	2	1	1	1	1	3	2	3	2	2	1	3	3	2	1	4	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	18629864	C	T	18629864	2	4	86	1	0	0	0	0	0	0	0	1	2553	477	17	2		2	CACNB2	10	18629864	Silent	SNP	C	TCGA-B0-4824-01A-01D-1361-10	13756840	18629864	116904883	61	5000											
MYO3A	53904	hgsc.bcm.edu;ucsc.edu	37	chr10	26491897	26491897	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgtgttcatttacagtcagGgaaaattattagatttggaa	14	15	9	3	0	2	1	2	0	0	1	2	3	2	3	0	2	1	1	0	2	6	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	26491897	G	C	26491897	3	2	86	1	0	0	0	0	1	0	0	0	10076	1233	43	4	4717	4	MYO3A	10	26491897	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	7862033	26491897	109042850	62	5001											
KIF5B	3799	hgsc.bcm.edu;ucsc.edu	37	chr10	32304512	32304512	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggctggctgttctgaacaAatgcacctcctccacgaatt	9	11	8	13	1	1	1	0	1	1	0	3	2	3	1	3	2	2	4	3	2	3	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	32304512	A	C	32304512	3	2	86	1	0	0	0	0	1	0	0	0	8306	14	1	5	58	5	KIF5B	10	32304512	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	5812615	32304512	103230235	63	5002											
ARHGAP19	84986	hgsc.bcm.edu;ucsc.edu	37	chr10	99025627	99025628	+	Frame_Shift_Del	DEL	GA	GA	-																															catctcctaccctttcgcttGagagacatgagagaccggaa																								novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		-	99025628	GA	-	99025627	7	5	86	1	0	1	0	1	0	0	0	0	869	1277	45	0	1216	0	ARHGAP19	10	99025627	Frame_Shift_Del	DEL	GA	TCGA-B0-4824-01A-01D-1361-10	66721115	99025627	36509120	64	5003											
USH1C	10083	hgsc.bcm.edu;ucsc.edu	37	chr11	17544782	17544782	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctacaatggagatggtCaggctgcggctactcttcag	9	9	13	10	1	3	1	2	0	1	1	3	2	3	1	0	4	4	4	0	4	3	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	17544782	C	A	17544782	2	1	86	1	0	0	0	0	0	0	0	1	17033	813	29	4		4	USH1C	11	17544782	Silent	SNP	C	TCGA-B0-4824-01A-01D-1361-10		17544782	117461734	65	5004											
KCNK4	50801	hgsc.bcm.edu	37	chr11	64065101	64065101	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagtgacgcttaccaccGtgggctttggcgactatgtg	7	12	12	10	3	1	1	1	1	0	0	1	2	1	1	2	2	1	2	2	2	3	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	64065101	G	T	64065101	3	4	86	1	0	0	0	0	1	0	0	0	8068	1145	40	4	651	4	KCNK4	11	64065101	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	46520319	64065101	70941415	66	5005											
FCHSD2	9873	hgsc.bcm.edu	37	chr11	72600920	72600920	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcacgtgccacacgtgtgGcccattttcgagcttcctta	6	12	9	14	3	1	0	1	0	0	0	3	1	2	0	3	1	2	2	3	1	1	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	72600920	G	C	72600920	3	2	86	1	0	0	0	0	1	0	0	0	5790	1203	42	4	1267	4	FCHSD2	11	72600920	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	8535819	72600920	62405596	67	5006											
GRAMD1B	57476	hgsc.bcm.edu	37	chr11	123477468	123477468	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caatgacaatgaggacatccCcactgagctcagtgactctt	12	9	8	12	0	2	4	1	4	1	0	3	5	3	5	2	1	1	1	2	1	2	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	123477468	C	A	123477468	3	1	86	1	0	0	0	0	1	0	0	0	6748	623	22	4	1084	4	GRAMD1B	11	123477468	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	50876548	123477468	11529048	68	5007											
CHD4	1108	hgsc.bcm.edu;ucsc.edu	37	chr12	6692033	6692033	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaatattcccaccaacaCgggccaacagaggaggcaat	14	6	8	13	1	1	1	1	0	0	1	2	2	2	2	3	3	2	1	3	3	5	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	6692033	C	T	6692033	3	4	86	1	0	0	0	0	1	0	0	0	3327	536	19	1	1573	1	CHD4	12	6692033	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10		6692033	127159862	69	5008											
PRB1	5542	hgsc.bcm.edu	37	chr12	11506669	11506669	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtctgttgcctccttgtGggggtggtccttgtggcttt	1	16	16	8	0	1	0	0	0	1	0	3	1	3	0	3	5	1	2	3	5	0	4	rs74903687	bycluster;byfrequency;by1000genomes	TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	11506669	G	T	11506669	3	4	86	1	0	0	0	0	1	0	0	0	12444	1348	47	4	631	4	PRB1	12	11506669	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	4814636	11506669	122345226	70	5009											
UBE3B	89910	hgsc.bcm.edu;ucsc.edu	37	chr12	109961798	109961798	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggaattgtggtggacGtgccatttgcatccttcttc	6	13	11	11	1	1	0	0	0	1	0	3	2	2	2	3	3	2	1	3	3	1	4	rs150941198		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	109961798	G	A	109961798	3	1	86	1	0	0	0	0	1	0	0	0	16879	1145	40	1	2458	1	UBE3B	12	109961798	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	98455129	109961798	23890097	71	5010											
RNF17	56163	hgsc.bcm.edu	37	chr13	25367296	25367296	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaagaaaaaggttgacatgtCtgtcctaaccagtgaagcac	16	8	9	8	0	1	3	0	2	1	1	2	3	2	3	2	1	2	2	2	1	5	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	25367296	C	G	25367296	3	3	86	1	0	0	0	0	1	0	0	0	13463	913	32	4	1090	4	RNF17	13	25367296	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10		25367296	89802582	72	5011											
SMAD9	4093	hgsc.bcm.edu	37	chr13	37422885	37422885	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtccagccactgcagtggCccatgaagatgaatctcaat	11	10	9	11	0	1	3	1	2	1	1	3	3	2	3	3	1	2	1	3	1	3	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	37422885	C	T	37422885	2	4	86	1	0	0	0	0	0	0	0	1	14766	726	26	2		2	SMAD9	13	37422885	Silent	SNP	C	TCGA-B0-4824-01A-01D-1361-10	12055589	37422885	77746993	73	5012											
PCNX	22990	hgsc.bcm.edu;ucsc.edu	37	chr14	71443721	71443721	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actccttcatctctattcagCcttccttatcctcttgtgga	6	17	4	14	0	4	0	2	0	2	0	8	1	7	1	4	1	1	0	4	1	2	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	71443721	C	T	71443721	3	4	86	1	0	0	0	0	1	0	0	0	11591	739	26	2	689	2	PCNX	14	71443721	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10		71443721	35905819	74	5013											
KIAA1737	85457	hgsc.bcm.edu	37	chr14	77580149	77580149	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgaggactcagctctgcagGgtgtgccctctctggtggca	5	9	14	13	1	3	0	1	0	2	0	4	2	3	1	2	4	3	3	2	4	0	0	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	77580149	G	T	77580149	3	4	86	1	0	0	0	0	1	0	0	0	8255	1232	43	4	698	4	KIAA1737	14	77580149	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	6136428	77580149	29769391	75	5014											
AHSA1	10598	hgsc.bcm.edu;ucsc.edu	37	chr14	77935550	77935550	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcggtactactttgaGggcattaaacagacctttgg	10	11	12	8	1	0	2	0	1	0	1	0	2	0	2	1	4	4	3	1	4	4	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	77935550	G	T	77935550	3	4	86	1	0	0	0	0	1	0	0	0	418	991	35	4	1009	4	AHSA1	14	77935550	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	355401	77935550	29413990	76	5015											
TDP1	55775	hgsc.bcm.edu;ucsc.edu	37	chr14	90459807	90459807	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagacttcagtaaaatTgcttggttccttgtcacaag	10	14	7	10	0	3	1	2	0	1	1	5	1	4	1	2	1	1	3	2	1	3	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	90459807	T	C	90459807	2	2	86	1	0	0	0	0	0	0	0	1	15727	1800	63	3		3	TDP1	14	90459807	Silent	SNP	T	TCGA-B0-4824-01A-01D-1361-10	12524257	90459807	16889733	77	5016											
AQR	9716	hgsc.bcm.edu	37	chr15	35196655	35196655	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatactggtttggatccaaaAacactctaaatgtccttgat	13	13	7	8	0	1	1	0	1	1	0	3	3	3	2	2	2	2	1	2	2	5	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	35196655	A	G	35196655	3	3	86	1	0	0	0	0	1	0	0	0	835	14	1	3	2642	3	AQR	15	35196655	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10		35196655	67334737	78	5017											
TGM5	9333	hgsc.bcm.edu	37	chr15	43525886	43525886	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacggctgctcctagaacCtaaacagaccaggaggggaa	15	4	11	11	1	0	2	0	0	0	2	1	4	1	4	3	4	4	2	3	4	6	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	43525886	C	A	43525886	5	1	86	1	0	0	0	0	0	0	1	0	15832	695	24	4	295	4	TGM5	15	43525886	Splice_Site	SNP	C	TCGA-B0-4824-01A-01D-1361-10	8329231	43525886	59005506	79	5018											
TP53BP1	7158	hgsc.bcm.edu	37	chr15	43714119	43714119	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggttctgtcccgctggttTtccctctgagtggtccggct	1	14	13	13	3	2	1	0	1	2	0	5	1	5	1	3	4	0	4	3	4	0	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	43714119	T	C	43714119	3	2	86	1	0	0	0	0	1	0	0	0	16382	1841	64	3	1939	3	TP53BP1	15	43714119	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	188233	43714119	58817273	80	5019											
CHRNB4	1143	hgsc.bcm.edu	37	chr15	78921843	78921843	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcagtgccagcagcactgaGatgcacagtgtcatcttctc	9	10	10	12	0	4	1	2	1	2	1	5	2	4	1	1	0	4	3	1	0	0	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	78921843	G	C	78921843	3	2	86	1	0	0	0	0	1	0	0	0	3393	932	33	4	700	4	CHRNB4	15	78921843	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	35207724	78921843	23609549	81	5020											
ANPEP	290	hgsc.bcm.edu	37	chr15	90347747	90347747	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggagtgggtagggtgtGtcataatgaccagcaaagaa	12	10	15	4	0	1	2	1	1	0	1	1	3	1	3	1	3	1	2	1	3	4	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	90347747	G	T	90347747	3	4	86	1	0	0	0	0	1	0	0	0	710	1368	48	4	1972	4	ANPEP	15	90347747	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	11425904	90347747	12183645	82	5021											
ATPAF2	91647	hgsc.bcm.edu	37	chr17	17929671	17929671	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaaacttcacggctgcccgGatcagctgatccttgtttct	8	12	9	12	2	3	2	2	1	1	1	4	3	4	3	2	2	3	3	2	2	1	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	17929671	G	T	17929671	2	4	86	1	0	0	0	0	0	0	0	1	1201	1164	41	4		4	ATPAF2	17	17929671	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10		17929671	63265539	83	5022											
EPN2	22905	hgsc.bcm.edu	37	chr17	19232882	19232882	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccacccagggtcctttGagctcttcagtaatctgaat	8	13	9	11	0	3	2	1	2	2	0	5	2	5	2	3	1	1	2	3	1	2	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	19232882	G	T	19232882	4	4	86	1	0	0	0	0	0	1	0	0	5186	1291	45	4	1359	4	EPN2	17	19232882	Nonsense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	1303211	19232882	61962328	84	5023											
ATAD5	79915	hgsc.bcm.edu	37	chr17	29161255	29161255	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctagggaagactagagacagGgtttttgctccaccaaaacc	13	8	10	10	0	0	2	0	0	0	2	1	4	1	3	3	2	2	2	3	2	5	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	29161255	G	A	29161255	2	1	86	1	0	0	0	0	0	0	0	1	1076	1223	43	2		2	ATAD5	17	29161255	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10	9928373	29161255	52033955	85	5024											
BRCA1	672	hgsc.bcm.edu	37	chr17	41246254	41246254	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatgaggatcactggccaGtaagtctattttctctgaag	10	13	9	9	0	4	2	2	2	2	0	5	3	4	3	1	2	0	1	1	2	3	4	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	41246254	G	C	41246254	3	2	86	1	0	0	0	0	1	0	0	0	1498	1020	36	4	4423	4	BRCA1	17	41246254	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	12084999	41246254	39948956	86	5025											
TBX4	9496	hgsc.bcm.edu	37	chr17	59560732	59560732	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaagagagcgcggcctccCccaagggtgtgagaggaagc	10	3	15	13	2	0	2	0	1	0	2	1	5	1	3	4	3	2	0	4	3	3	0	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	59560732	C	T	59560732	3	4	86	1	0	0	0	0	1	0	0	0	15659	623	22	2	1523	2	TBX4	17	59560732	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	18314478	59560732	21634478	87	5026											
PSMC5	5705	hgsc.bcm.edu	37	chr17	61906877	61906877	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtgaatgataagagccaAaacctccggaggctgcaggc	13	7	12	9	1	0	3	0	2	0	1	1	4	1	4	3	3	3	2	3	3	4	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	61906877	A	G	61906877	2	3	86	1	0	0	0	0	0	0	0	1	12692	11	1	3		3	PSMC5	17	61906877	Silent	SNP	A	TCGA-B0-4824-01A-01D-1361-10	2346145	61906877	19288333	88	5027											
ABCA5	23461	hgsc.bcm.edu;ucsc.edu	37	chr17	67243707	67243707	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactctatcttcttgtgttcGttcccaccaaagtgtgctgt	6	17	7	11	1	3	0	0	0	3	0	5	0	4	0	2	0	2	3	2	0	3	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	67243707	G	A	67243707	4	1	86	1	0	0	0	0	0	1	0	0	35	1153	40	1	32	1	ABCA5	17	67243707	Nonsense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	5336830	67243707	13951503	89	5028											
CLUL1	27098	hgsc.bcm.edu	37	chr18	644931	644931	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagttccaaggattcatgaaGgaaatatttccaaacaagat	17	11	7	6	0	1	2	1	1	0	1	3	4	3	4	2	2	1	1	2	2	7	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	644931	G	C	644931	3	2	86	1	0	0	0	0	1	0	0	0	3570	1001	35	4	1257	4	CLUL1	18	644931	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10		644931	77432317	90	5029											
C18orf10	0	hgsc.bcm.edu	37	chr18	34376768	34376768	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagttggagggaggggtgcTcacttccgggtggggtttcc	4	10	20	7	1	1	0	1	0	0	0	3	3	3	3	2	8	1	3	2	8	0	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	34376768	T	C	34376768	3	2	86	1	0	0	0	0	1	0	0	0	1895	1564	54	3	3	3	C18orf10	18	34376768	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	33731837	34376768	43700480	91	5030											
SLC14A2	8170	hgsc.bcm.edu	37	chr18	43258985	43258985	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgccctggctaacatgttatCtgtggtgagtcaacacaggc	9	11	11	10	0	2	1	1	1	1	0	2	1	2	1	1	3	3	2	1	3	3	2	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	43258985	C	G	43258985	3	3	86	1	0	0	0	0	1	0	0	0	14399	913	32	4	2628	4	SLC14A2	18	43258985	Missense_Mutation	SNP	C	TCGA-B0-4824-01A-01D-1361-10	8882217	43258985	34818263	92	5031											
ARID3A	1820	hgsc.bcm.edu	37	chr19	964302	964302	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtccttgacctgttcaTgctgtacgtgctggtgacgg	6	12	13	10	2	1	2	1	2	0	0	2	2	2	2	2	3	3	4	2	3	1	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	964302	T	C	964302	3	2	86	1	0	0	0	0	1	0	0	0	916	1464	51	3	835	3	ARID3A	19	964302	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10		964302	58164681	93	5032											
ZNF98	148198	hgsc.bcm.edu	37	chr19	22574818	22574818	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctacatacttcacattTgtagaatttctctccagcat	10	17	4	10	0	2	1	1	0	1	1	4	1	3	1	1	0	4	3	1	0	4	7	rs78213198	byfrequency	TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		C	22574818	T	C	22574818	3	2	86	1	0	0	0	0	1	0	0	0	18202	1821	63	3	503	3	ZNF98	19	22574818	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	21610516	22574818	36554165	94	5033											
WDR88	126248	hgsc.bcm.edu;ucsc.edu	37	chr19	33663257	33663257	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctatttgttttaggatAggaccatgagactgtggaat	10	16	11	4	0	0	1	0	1	0	1	0	5	0	4	1	3	1	2	1	3	4	6	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	33663257	A	T	33663257	3	4	86	1	0	0	0	0	1	0	0	0	17334	411	15	5	1191	5	WDR88	19	33663257	Missense_Mutation	SNP	A	TCGA-B0-4824-01A-01D-1361-10	11088439	33663257	25465726	95	5034											
PRR12	57479	hgsc.bcm.edu	37	chr19	50117833	50117833	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccacccatctggcgagTccagaaggcccttctgcaga	9	6	9	17	1	2	2	0	0	2	2	3	3	3	2	5	2	1	1	5	2	1	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	50117833	T	G	50117833	3	3	86	1	0	0	0	0	1	0	0	0	12586	1667	58	5	4843	5	PRR12	19	50117833	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	16454576	50117833	9011150	96	5035											
KLK6	5653	hgsc.bcm.edu;ucsc.edu	37	chr19	51462555	51462555	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggtctccacataccagCggacccccagaatcaccctg	10	6	9	16	1	2	1	1	0	1	1	3	2	2	2	5	3	2	0	5	3	2	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		T	51462555	C	T	51462555	2	4	86	1	0	0	0	0	0	0	0	1	8408	755	27	1		1	KLK6	19	51462555	Silent	SNP	C	TCGA-B0-4824-01A-01D-1361-10	1344722	51462555	7666428	97	5036											
ZNF587	84914	hgsc.bcm.edu;ucsc.edu	37	chr19	58370766	58370766	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttatgagtgtagagaatGtgggaaatcttttggtcaaa	12	13	12	4	0	2	2	1	1	1	1	2	4	2	3	1	2	0	1	1	2	5	4	rs77577775	bycluster;byfrequency	TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	58370766	G	A	58370766	3	1	86	1	0	0	0	0	1	0	0	0	18019	1377	48	2	996	2	ZNF587	19	58370766	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	6908211	58370766	758217	98	5037											
PLCB4	5332	hgsc.bcm.edu	37	chr20	9288474	9288474	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atataatcatggccaaacctTatgaatttaactggcagaag	16	11	7	7	0	1	2	1	1	0	1	1	2	1	2	2	2	2	1	2	2	7	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	9288474	T	A	9288474	3	1	86	1	0	0	0	0	1	0	0	0	12030	1754	61	5	15	5	PLCB4	20	9288474	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10		9288474	53737046	99	5038											
ZNFX1	57169	hgsc.bcm.edu	37	chr20	47865261	47865261	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccaagatagtgccacactTtgtggtacacttgactagca	11	11	9	10	0	0	2	0	1	0	1	1	2	1	2	2	1	3	2	2	1	4	5	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	47865261	T	G	47865261	3	3	86	1	0	0	0	0	1	0	0	0	18204	1850	64	5	1460	5	ZNFX1	20	47865261	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	38576787	47865261	15160259	100	5039											
KRTAP13-3	337960	hgsc.bcm.edu	37	chr21	31797889	31797889	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgaggagcagctcctGgatccacagctcagggagca	10	5	13	13	0	1	1	1	1	0	0	3	4	3	4	3	3	4	4	3	3	0	0	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	31797889	G	A	31797889	2	1	86	1	0	0	0	0	0	0	0	1	8524	1335	47	2		2	KRTAP13-3	21	31797889	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10		31797889	16332006	101	5040											
TUBGCP6	85378	hgsc.bcm.edu;ucsc.edu	37	chr22	50664352	50664352	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatccgggggacagggacGtcggaccaacagaggtaatg	12	4	17	8	3	0	2	0	0	0	2	2	6	1	5	2	5	1	1	2	5	2	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	50664352	G	A	50664352	2	1	86	1	0	0	0	0	0	0	0	1	16769	1136	40	1		1	TUBGCP6	22	50664352	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10		50664352	640214	102	5041											
CSF2RA	1438	hgsc.bcm.edu	37	chrX	1409284	1409284	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagactcaggaacccatgtGggatgtcacctggataacct	12	8	10	11	0	2	1	2	0	0	1	2	4	2	4	3	3	2	0	3	3	3	1	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	1409284	G	A	1409284	2	1	86	1	0	0	0	0	0	0	0	1	3934	1335	47	2		2	CSF2RA	23	1409284	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10		1409284	153861276	103	5042											
CXorf65	158830	hgsc.bcm.edu;ucsc.edu	37	chrX	70326251	70326251	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacacgacgacagcacagttGgtattgaccagaaactgctg	14	7	10	10	2	0	2	0	1	0	1	0	4	0	2	1	1	4	4	1	1	3	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	70326251	G	A	70326251	2	1	86	1	0	0	0	0	0	0	0	1	4117	1335	47	2		2	CXorf65	23	70326251	Silent	SNP	G	TCGA-B0-4824-01A-01D-1361-10	68916967	70326251	84944309	104	5043											
ZMYM3	9203	hgsc.bcm.edu	37	chrX	70469018	70469018	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggtacacacgtgtgtttTtctgtgaggatggggaagga	9	12	16	4	1	1	1	0	1	1	0	1	4	1	4	0	5	1	2	0	5	2	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		G	70469018	T	G	70469018	3	3	86	1	0	0	0	0	1	0	0	0	17700	1855	64	5	2712	5	ZMYM3	23	70469018	Missense_Mutation	SNP	T	TCGA-B0-4824-01A-01D-1361-10	142767	70469018	84801542	105	5044											
ODZ1	0	hgsc.bcm.edu	37	chrX	123519821	123519821	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggtttgtaagctgtgacGcaccatgctaggcatggtga	9	11	13	8	1	0	2	0	2	0	0	0	2	0	2	1	3	2	6	1	3	2	3	novel		TCGA-B0-4824-01A-01D-1361-10	TCGA-B0-4824-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0f5a1bd-2c51-4f33-b9c3-c9cb4811904c	f36b4f93-3673-4b9e-9bdf-284cf01a05f2		A	123519821	G	A	123519821	3	1	86	1	0	0	0	0	1	0	0	0	10834	1087	38	1	2432	1	ODZ1	23	123519821	Missense_Mutation	SNP	G	TCGA-B0-4824-01A-01D-1361-10	53050803	123519821	31750739	106	5045											
VHL	7428	hgsc.bcm.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-B0-4824-01A-01W-1359-10	TCGA-B0-4824-11A-01D-2279-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	7161a7de-b571-4937-a5a9-d869dd975912	52b4edfa-cd2c-4197-ad0c-be9c465f7f35		A	10183725	C	A	10183725	4	1	87	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-B0-4824-01A-01W-1359-10		10183725	187838705	1	5046											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11188164	11188164	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagacttagaagccactGtcagtgggtagatgagggcc	10	9	15	7	0	1	4	1	1	0	3	1	4	1	4	2	3	1	2	2	3	4	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	11188164	G	T	11188164	3	4	88	1	0	0	0	0	1	0	0	0	9954	1377	48	4	1783	4	MTOR	1	11188164	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08		11188164	238062457	1	5047											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16259441	16259441	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccagaaaacttcccagcaCctccaccttatcctggagaa	13	7	6	15	0	0	2	0	0	0	2	3	3	3	2	6	1	3	1	6	1	4	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	16259441	C	T	16259441	3	4	88	1	0	0	0	0	1	0	0	0	15039	507	18	2	6748	2	SPEN	1	16259441	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	5071277	16259441	232991180	2	5048											
KIAA0467	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43905719	43905719	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacagaggacacacccacaGgtatgcaagtcaagaggtcc	14	5	11	11	0	1	2	1	0	0	2	2	3	2	3	2	3	2	3	2	3	4	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	43905719	G	A	43905719	3	1	88	1	0	0	0	0	1	0	0	0	8178	1014	35	2	4647	2	KIAA0467	1	43905719	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	27646278	43905719	205344902	3	5049											
PRUNE	58497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151001376	151001376	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactcacaatgagccagtgCggcagttggctattttctgt	9	12	10	10	1	2	1	1	1	1	0	2	1	2	1	1	2	2	3	1	2	2	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	151001376	C	T	151001376	3	4	88	1	0	0	0	0	1	0	0	0	12642	759	27	1	915	1	PRUNE	1	151001376	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	107095657	151001376	98249245	4	5050											
TDRKH	11022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151751219	151751219	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttctgaaagctgtcatcActaggtttctcccaggaacc	10	11	8	12	0	4	1	2	1	2	0	5	3	4	2	2	2	2	2	2	2	3	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	151751219	A	G	151751219	2	3	88	1	0	0	0	0	0	0	0	1	15736	156	6	3		3	TDRKH	1	151751219	Silent	SNP	A	TCGA-B0-4827-01A-02D-1421-08	749843	151751219	97499402	5	5051											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186136027	186136027	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttatcgctgtgtggtccGttgtggaagtggctttcgaa	6	15	13	7	3	1	0	0	0	1	0	4	2	2	1	1	3	0	3	1	3	3	3	rs150494959	byfrequency	TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	186136027	G	A	186136027	3	1	88	1	0	0	0	0	1	0	0	0	7220	1145	40	1	15925	1	HMCN1	1	186136027	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	34384808	186136027	63114594	6	5052											
KIDINS220	57498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	8919170	8919170	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatttatatttgaatcccGaagcacactattgaggttct	11	14	7	9	1	1	2	0	2	1	0	2	3	2	2	2	1	1	2	2	1	5	7	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	8919170	G	T	8919170	2	4	88	1	0	0	0	0	0	0	0	1	8271	1057	37	4		4	KIDINS220	2	8919170	Silent	SNP	G	TCGA-B0-4827-01A-02D-1421-08		8919170	234280203	7	5053											
ASXL2	55252	broad.mit.edu;hgsc.bcm.edu	37	chr2	26029201	26029201	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcatgcaagaggagaaGtcccactgcaaaacaaagaa	18	4	10	9	0	1	3	1	0	0	3	2	4	2	3	1	2	3	3	1	2	6	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	26029201	G	A	26029201	3	1	88	1	0	0	0	0	1	0	0	0	1067	1029	36	2	4198	2	ASXL2	2	26029201	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	17110031	26029201	217170172	8	5054											
NFU1	27247	hgsc.bcm.edu;ucsc.edu	37	chr2	69650750	69650751	+	Frame_Shift_Ins	INS	-	-	T																															aaatgctgcagctggggtggINSgaaaatccatggtccttgtc																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	69650751	-	T	69650750	7	5	88	1	0	1	1	0	0	0	0	0	10386	1232	43	0	522	0	NFU1	2	69650750	Frame_Shift_Ins	INS	-	TCGA-B0-4827-01A-02D-1421-08	43621549	69650750	173548623	9	5055											
SCN2A	6326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166183424	166183424	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttatcatgtttccatggaTttattggaagatcctacatc	10	17	6	8	0	2	1	1	0	1	1	5	3	4	3	2	2	1	1	2	2	4	6	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	166183424	T	G	166183424	3	3	88	1	0	0	0	0	1	0	0	0	13918	1490	52	5	2221	5	SCN2A	2	166183424	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08	96532674	166183424	77015949	10	5056											
ZDBF2	57683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207170060	207170060	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatgaattcagataagttgGttttgtggaaagatgtaaaa	15	13	11	2	0	1	3	1	1	0	2	1	4	1	4	0	2	0	4	0	2	5	6	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	207170060	G	T	207170060	3	4	88	1	0	0	0	0	1	0	0	0	17598	1261	44	4	818	4	ZDBF2	2	207170060	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	40986636	207170060	36029313	11	5057											
MSL3L2	0	broad.mit.edu;ucsc.edu	37	chr2	234775439	234775439	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctcctggctcctattagTatttgtggcactttccttaa	6	18	6	11	0	1	0	0	0	1	0	4	0	3	0	3	2	0	3	3	2	4	7	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	234775439	A	A	234775439	3	1	88	1	0	0	0	0	1	0	0	0	9880	1638	57	5	671	5	MSL3L2	2	234775439	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08	27605379	234775439	8423934	12	5058											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191479	10191479	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcccttccagtgtatactCtgaaagagcgatgcctccag	9	11	9	12	1	1	2	0	1	1	1	3	3	3	2	4	0	4	1	4	0	3	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	10191479	C	G	10191479	3	3	88	1	0	0	0	0	1	0	0	0	17161	912	32	4	482	4	VHL	3	10191479	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08		10191479	187830951	13	5059											
CCDC51	79714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48474087	48474087	+	Missense_Mutation	SNP	G	G	C																															cttttctaggccatcaagctGctctcgtaagccttctagac																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	48474087	G	C	48474087	3	2	88	1	0	0	0	0	1	0	0	0	2821	1328	46	4	272	4	CCDC51	3	48474087	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	38282608	48474087	149548343	14	5060	61	2									
CCDC51	79714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48474088	48474088	+	Silent	SNP	C	C	T																															ttttctaggccatcaagctgCtctcgtaagccttctagaca																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	48474088	C	T	48474088	2	4	88	1	0	0	0	0	0	0	0	1	2821	796	28	2		2	CCDC51	3	48474088	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	1	48474088	149548342	15	5061	61	2									
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52439864	52439864	+	Frame_Shift_Del	DEL	T	T	-																															tgctggctgacttggactccTcaggcagctgtgactcttga																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		-	52439864	T	-	52439864	7	5	88	1	0	1	0	1	0	0	0	0	1311	1551	54	0	1373	0	BAP1	3	52439864	Frame_Shift_Del	DEL	T	TCGA-B0-4827-01A-02D-1421-08	3965776	52439864	145582566	16	5062											
CACNA1D	776	broad.mit.edu;hgsc.bcm.edu	37	chr3	53845422	53845422	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgaaatgatatgcatcAccaccttgtagcccccagcg	11	8	9	13	2	1	2	1	2	0	0	1	3	1	3	4	1	3	2	4	1	3	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	53845422	A	T	53845422	3	4	88	1	0	0	0	0	1	0	0	0	2541	159	6	5	6837	5	CACNA1D	3	53845422	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	1405558	53845422	144177008	17	5063											
SLC7A14	57709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170185029	170185029	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctctcgccctctgtggcGtaggagaaaccctcctccac	6	9	10	16	2	2	1	0	0	2	1	5	2	4	1	4	3	1	2	4	3	2	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	170185029	G	A	170185029	2	1	88	1	0	0	0	0	0	0	0	1	14698	1140	40	1		1	SLC7A14	3	170185029	Silent	SNP	G	TCGA-B0-4827-01A-02D-1421-08	116339607	170185029	27837401	18	5064											
VPS8	23355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184689536	184689536	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatttgaaccagcagcaacGtgaggtaggagaatgactgt	14	9	12	6	1	0	4	0	3	0	1	0	5	0	4	1	2	4	3	1	2	5	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	184689536	G	A	184689536	3	1	88	1	0	0	0	0	1	0	0	0	17217	1145	40	1	3566	1	VPS8	3	184689536	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	14504507	184689536	13332894	19	5065											
NDST4	64579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	115769372	115769372	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgttatttttcttaccAgtctattcctttgtgatagt	6	24	5	6	0	2	1	0	1	2	0	3	1	3	1	2	0	1	1	2	0	4	10	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	115769372	A	C	115769372	3	2	88	1	0	0	0	0	1	0	0	0	10258	202	7	5	703	5	NDST4	4	115769372	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08		115769372	75384904	20	5066											
TRIM2	23321	broad.mit.edu;hgsc.bcm.edu	37	chr4	154216562	154216562	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaaccatggcacggagaCcgaggtcctactggtgaaga	11	6	12	12	2	1	3	1	1	0	2	2	5	2	3	4	4	2	1	4	4	3	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	154216562	C	A	154216562	3	1	88	1	0	0	0	0	1	0	0	0	16493	507	18	4	906	4	TRIM2	4	154216562	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	38447190	154216562	36937714	21	5067											
SNX25	83891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	186188308	186188308	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagttcttgaagcaactaAggtatttggtcttcaattat	11	16	9	5	0	3	1	1	1	2	0	3	2	3	2	0	3	2	3	0	3	6	7	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	186188308	A	T	186188308	3	4	88	1	0	0	0	0	1	0	0	0	14898	86	3	5	612	5	SNX25	4	186188308	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	31971746	186188308	4965968	22	5068											
CCDC125	202243	hgsc.bcm.edu;ucsc.edu	37	chr5	68607025	68607025	+	Frame_Shift_Del	DEL	C	C	-																															aagttcagtttttaacatttCtacctcctgaggacagaaag																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		-	68607025	C	-	68607025	7	5	88	1	0	1	0	1	0	0	0	0	2761	922	32	0	1198	0	CCDC125	5	68607025	Frame_Shift_Del	DEL	C	TCGA-B0-4827-01A-02D-1421-08		68607025	112308235	23	5069											
FCHO2	115548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	72333026	72333026	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaatcattaaaaaggaaAaagatgcagaatctgtgtaa	20	8	9	4	0	2	2	1	0	1	2	2	4	2	4	0	2	1	2	0	2	8	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	72333026	A	G	72333026	3	3	88	1	0	0	0	0	1	0	0	0	5788	15	1	3	936	3	FCHO2	5	72333026	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	3726001	72333026	108582234	24	5070											
MDN1	23195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90388338	90388338	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatttttgcaaggtgtttaAagaggtctgacaaagctcgc	12	12	10	7	1	1	2	0	1	1	1	2	2	1	2	0	2	2	3	0	2	5	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	90388338	A	C	90388338	3	2	88	1	0	0	0	0	1	0	0	0	9415	14	1	5	4510	5	MDN1	6	90388338	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08		90388338	80726729	25	5071											
ROS1	6098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117677884	117677884	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttggcaaagtatatcaatGgtttctctaggttagaggta	11	15	10	5	0	2	1	1	0	1	1	3	1	2	1	0	4	0	5	0	4	7	7	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	117677884	G	T	117677884	3	4	88	1	0	0	0	0	1	0	0	0	13533	1348	47	4	3070	4	ROS1	6	117677884	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	27289546	117677884	53437183	26	5072											
CARD11	84433	broad.mit.edu;ucsc.edu	37	chr7	2946320	2946320	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtcttgcgctgctcctcgccGatcttgtccttgacaacgcg	4	12	10	15	5	2	1	0	1	2	0	5	2	4	1	3	0	3	2	3	0	1	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	2946320	C	C	2946320	3	2	88	1	0	0	0	0	1	0	0	0	2645	1048	37	4	51	4	CARD11	7	2946320	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08		2946320	156192343	27	5073											
PHF14	9678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	11078422	11078422	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaactacaaaacctgaaTggaaaacttcgaagtgaagg	19	6	10	6	1	0	3	0	2	0	1	1	6	0	4	1	2	4	0	1	2	10	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	11078422	T	G	11078422	3	3	88	1	0	0	0	0	1	0	0	0	11825	1461	51	5	2058	5	PHF14	7	11078422	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08	8132102	11078422	148060241	28	5074											
C7orf63	79846	hgsc.bcm.edu;ucsc.edu	37	chr7	89891285	89891285	+	Frame_Shift_Del	DEL	T	T	-																															taagggatttagcacagataTttaaaattctgaatctgtgt																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		-	89891285	T	-	89891285	7	5	88	1	0	1	0	1	0	0	0	0	2409	1493	52	0	285	0	C7orf63	7	89891285	Frame_Shift_Del	DEL	T	TCGA-B0-4827-01A-02D-1421-08	78812863	89891285	69247378	29	5075											
AKAP9	10142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91668040	91668040	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggactgtgtgctgactatttCagaagaaatgttctccaaag	12	12	10	7	0	2	3	1	1	1	2	3	4	2	4	1	1	1	2	1	1	4	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	91668040	C	G	91668040	4	3	88	1	0	0	0	0	0	1	0	0	459	838	29	4	4712	4	AKAP9	7	91668040	Nonsense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	1776755	91668040	67470623	30	5076											
C7orf58	0	broad.mit.edu;hgsc.bcm.edu	37	chr7	120911339	120911339	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgctttccaatcagaGtgaagtacagaacttatgga	12	13	8	8	0	3	3	1	1	2	2	4	4	4	4	1	1	3	2	1	1	5	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	120911339	G	A	120911339	3	1	88	1	0	0	0	0	1	0	0	0	2405	1043	36	2	2851	2	C7orf58	7	120911339	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	29243299	120911339	38227324	31	5077											
EPHB6	2051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	142568043	142568043	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggattacatctacttatgtTggacacttggcagaaggacc	11	12	10	8	0	1	1	0	0	1	1	1	4	1	4	1	4	2	2	1	4	4	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	142568043	T	G	142568043	3	3	88	1	0	0	0	0	1	0	0	0	5178	1821	63	5	2738	5	EPHB6	7	142568043	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08	21656704	142568043	16570620	32	5078											
KCNB2	9312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	73848635	73848635	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccatggggataatgataTtttccagcctggtatttttt	8	17	10	6	0	0	1	0	1	0	0	1	2	1	2	3	4	1	1	3	4	3	8	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	73848635	T	C	73848635	3	2	88	1	0	0	0	0	1	0	0	0	8013	1493	52	3	1051	3	KCNB2	8	73848635	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08		73848635	72515387	33	5079											
RANBP6	26953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	6013437	6013437	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccactcgaacattgtcaTggaaataaaatttcagtaaa	16	11	6	8	1	2	0	2	0	0	0	3	2	2	1	1	1	2	1	1	1	6	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	6013437	T	G	6013437	3	3	88	1	0	0	0	0	1	0	0	0	13033	1464	51	5	1150	5	RANBP6	9	6013437	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08		6013437	135199994	34	5080											
FANCG	2189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35078167	35078167	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcagggtctctagtaacaAggccaggtccccaagacggt	11	8	11	11	1	2	1	1	0	1	1	4	1	3	1	3	4	1	1	3	4	4	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	35078167	A	T	35078167	3	4	88	1	0	0	0	0	1	0	0	0	5668	69	3	5	1431	5	FANCG	9	35078167	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	29064730	35078167	106135264	35	5081											
RNF38	152006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	36376116	36376116	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctcttaggacttggactAtcttcactctgccaatgcaa	9	14	7	11	0	4	0	1	0	3	0	5	2	4	2	1	2	2	1	1	2	4	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	36376116	A	T	36376116	3	4	88	1	0	0	0	0	1	0	0	0	13492	446	16	5	1416	5	RNF38	9	36376116	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	1297949	36376116	104837315	36	5082											
TMOD1	7111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100286582	100286582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaatgagctggatgagctgGaccctgatgtgagtaggtgc	11	9	15	6	0	0	4	0	4	0	0	0	6	0	6	1	3	3	3	1	3	3	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	100286582	G	A	100286582	3	1	88	1	0	0	0	0	1	0	0	0	16232	1174	41	2	114	2	TMOD1	9	100286582	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	63910466	100286582	40926849	37	5083											
GOLGA1	2800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	127690521	127690521	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgccattttggctctgttGgcttggaatgtctcattctg	4	18	10	9	0	4	0	1	0	4	0	5	1	4	1	1	3	1	3	1	3	1	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	127690521	G	A	127690521	2	1	88	1	0	0	0	0	0	0	0	1	6551	1335	47	2		2	GOLGA1	9	127690521	Silent	SNP	G	TCGA-B0-4827-01A-02D-1421-08	27403939	127690521	13522910	38	5084											
LCN1	3933	broad.mit.edu	37	chr9	138416709	138416709	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaacctggaagccttggAggactttgagaaagccgcag	13	6	13	9	1	0	1	0	1	0	1	0	6	0	4	3	3	4	1	3	3	4	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	138416709	G	G	138416709	3	3	88	1	0	0	0	0	1	0	0	0	8680	304	11	3	455	3	LCN1	9	138416709	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	10726188	138416709	2796722	39	5085											
BTAF1	9044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93768666	93768666	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatgggtttaggaaaaacTttacagtccatctgcattct	12	13	8	8	0	2	0	0	0	2	0	3	2	3	1	1	2	3	2	1	2	4	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	93768666	T	G	93768666	2	3	88	1	0	0	0	0	0	0	0	1	1536	1596	56	5		5	BTAF1	10	93768666	Silent	SNP	T	TCGA-B0-4827-01A-02D-1421-08		93768666	41766081	40	5086											
ACTR1A	10121	hgsc.bcm.edu	37	chr10	104248835	104248859	+	Frame_Shift_Del	DEL	AATGAAGATGTCGCCTTCAAGGGCT	AATGAAGATGTCGCCTTCAAGGGCT	-																															attacctcagctttggggccAatgaagatgtcgccttcaag																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	AATGAAGATGTCGCCTTCAAGGGCT	AATGAAGATGTCGCCTTCAAGGGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		-	104248859	AATGAAGATGTCGCCTTCAAGGGCT	-	104248835	7	5	88	1	0	1	0	1	0	0	0	0	209	126	5	0	992	0	ACTR1A	10	104248835	Frame_Shift_Del	DEL	AATGAAGATGTCGCCTTCAAGGGCT	TCGA-B0-4827-01A-02D-1421-08	10480169	104248835	31285912	41	5087											
ABLIM1	3983	hgsc.bcm.edu	37	chr10	116417921	116417922	+	Frame_Shift_Ins	INS	-	-	AAAA																															tgcttttctcagagctgcacINSaatttccccagacactttag																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		AAAA	116417922	-	AAAA	116417921	7	5	88	1	0	1	1	0	0	0	0	0	94	477	17	0	2473	0	ABLIM1	10	116417921	Frame_Shift_Ins	INS	-	TCGA-B0-4827-01A-02D-1421-08	12169086	116417921	19116826	42	5088											
CLRN3	119467	hgsc.bcm.edu;ucsc.edu	37	chr10	129676520	129676523	+	Frame_Shift_Del	DEL	TATT	TATT	-																															gatgatggttacagtgactaTatttagaagaatgacgagca																								novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	TATT	TATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		-	129676523	TATT	-	129676520	7	5	88	1	0	1	0	1	0	0	0	0	3559	1406	49	0	110	0	CLRN3	10	129676520	Frame_Shift_Del	DEL	TATT	TCGA-B0-4827-01A-02D-1421-08	13258599	129676520	5858227	43	5089											
OR51T1	401665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4903629	4903629	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttgtagccataaacaCtgtgtcttttcatgggggtc	7	15	9	10	0	3	0	1	0	2	0	4	0	3	0	2	2	2	1	2	2	3	6	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	4903629	C	T	4903629	3	4	88	1	0	0	0	0	1	0	0	0	11106	565	20	2	583	2	OR51T1	11	4903629	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08		4903629	130102887	44	5090											
OR10A4	283297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6897950	6897950	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccctgtccactgagctTcaggctctactgtttctcct	5	14	7	15	0	4	1	2	1	2	0	6	1	5	1	3	1	3	3	3	1	1	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	6897950	T	G	6897950	2	3	88	1	0	0	0	0	0	0	0	1	10892	1770	62	5		5	OR10A4	11	6897950	Silent	SNP	T	TCGA-B0-4827-01A-02D-1421-08	1994321	6897950	128108566	45	5091											
C11orf41	0	broad.mit.edu;hgsc.bcm.edu	37	chr11	33566496	33566496	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcttgctaaaaatgtcaCaaacaaggccgcatctggcc	13	9	7	12	1	3	0	1	0	2	0	3	0	3	0	2	2	3	2	2	2	6	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	33566496	C	G	33566496	3	3	88	1	0	0	0	0	1	0	0	0	1640	478	17	4	2090	4	C11orf41	11	33566496	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	26668546	33566496	101440020	46	5092											
ABTB2	25841	hgsc.bcm.edu	37	chr11	34378374	34378374	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccggcccctccgccatCagggctgtggctggccatca	4	7	12	18	2	2	0	2	0	0	0	4	0	4	0	7	4	0	2	7	4	0	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	34378374	C	A	34378374	3	1	88	1	0	0	0	0	1	0	0	0	103	826	29	4	2388	4	ABTB2	11	34378374	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	811878	34378374	100628142	47	5093											
TNKS1BP1	85456	broad.mit.edu;ucsc.edu	37	chr11	57076184	57076184	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccccactccacatccccgtAgcccctgagaacctccagag	9	5	7	20	1	0	2	0	1	0	2	3	3	3	2	9	0	2	1	9	0	2	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	57076184	T	T	57076184	3	4	88	1	0	0	0	0	1	0	0	0	16319	420	15	5	1212	5	TNKS1BP1	11	57076184	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	22697810	57076184	77930332	48	5094											
AAAS	8086	broad.mit.edu	37	chr12	53708552	53708552	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgctggcattatacacAcggactgagtcatctagcag	11	9	9	12	1	2	1	1	1	1	0	2	2	2	2	1	2	3	3	1	2	3	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	53708552	T	T	53708552	2	4	88	1	0	0	0	0	0	0	0	1	8	146	6	5		5	AAAS	12	53708552	Silent	SNP	A	TCGA-B0-4827-01A-02D-1421-08		53708552	80143343	49	5095											
CD63	967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56121064	56121064	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtagccccctggattatGgtctgactcaggacaagctg	8	9	14	10	0	2	1	1	1	1	0	2	3	2	3	2	5	2	2	2	5	3	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	56121064	G	A	56121064	2	1	88	1	0	0	0	0	0	0	0	1	3029	1335	47	2		2	CD63	12	56121064	Silent	SNP	G	TCGA-B0-4827-01A-02D-1421-08	2412512	56121064	77730831	50	5096											
IRAK3	11213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	66638963	66638963	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtgcctccctgccctcGgaatttctctgccaagctct	7	11	8	15	1	2	0	0	0	2	0	5	2	3	1	4	1	4	1	4	1	3	1	rs146885838		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	66638963	G	A	66638963	3	1	88	1	0	0	0	0	1	0	0	0	7824	1116	39	1	1277	1	IRAK3	12	66638963	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	10517899	66638963	67212932	51	5097											
NT5DC3	51559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104171814	104171814	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttgggttctggtctgtgcgGaacaggcttccaaactgggc	6	11	15	9	1	2	0	0	0	2	0	3	1	3	1	1	5	3	3	1	5	2	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	104171814	G	T	104171814	3	4	88	1	0	0	0	0	1	0	0	0	10692	1165	41	4	210	4	NT5DC3	12	104171814	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	37532851	104171814	29680081	52	5098											
MYO1H	283446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109826583	109826583	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggattttgtgctattggaCgcgtacaccagcgaatctgc	9	11	11	10	3	1	0	0	0	1	0	1	3	1	2	1	2	4	2	1	2	3	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	109826583	C	T	109826583	2	4	88	1	0	0	0	0	0	0	0	1	10075	535	19	1		1	MYO1H	12	109826583	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	5654769	109826583	24025312	53	5099											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117672492	117672492	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgccagggaagacacccAggtggtccccaggctggtac	8	6	15	12	0	0	1	0	0	0	1	1	2	1	2	4	6	2	3	4	6	2	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	117672492	A	T	117672492	3	4	88	1	0	0	0	0	1	0	0	0	10541	188	7	5	1227	5	NOS1	12	117672492	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	7845909	117672492	16179403	54	5100											
RNF10	9921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121002894	121002894	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgttcgacagcgtcacaGatatctctctcacttgccac	9	11	8	13	2	3	1	2	0	2	1	6	3	3	2	1	1	2	1	1	1	1	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	121002894	G	T	121002894	3	4	88	1	0	0	0	0	1	0	0	0	13424	942	33	4	1727	4	RNF10	12	121002894	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	3330402	121002894	12849001	55	5101											
ATP12A	479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25281239	25281239	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagacattgggattgccatgGggatagcaggttctgatgca	10	10	14	7	0	1	2	0	1	1	1	1	4	1	4	1	4	3	3	1	4	1	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	25281239	G	A	25281239	3	1	88	1	0	0	0	0	1	0	0	0	1122	1232	43	2	2328	2	ATP12A	13	25281239	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08		25281239	89888639	56	5102											
ALG5	29880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	37567752	37567752	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtatttacctttgaggtctGatctttactgccatcatcaa	9	17	6	9	0	4	2	2	2	2	0	4	2	4	2	2	1	3	1	2	1	4	6	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	37567752	G	C	37567752	3	2	88	1	0	0	0	0	1	0	0	0	521	1299	45	4	659	4	ALG5	13	37567752	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	12286513	37567752	77602126	57	5103											
FNTB	2342	broad.mit.edu;hgsc.bcm.edu	37	chr14	65511120	65511120	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctactccttctggcaggCggggctcctgcccctgctcc	2	10	11	18	1	1	0	0	0	1	0	4	0	4	0	5	4	4	4	5	4	1	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	65511120	C	T	65511120	3	4	88	1	0	0	0	0	1	0	0	0	5978	768	27	1	948	1	FNTB	14	65511120	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08		65511120	41838420	58	5104											
ABCD4	5826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74757105	74757105	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggagatctttaggctcagatCcttgattaggggtttgtcag	8	14	13	6	0	3	3	2	1	1	2	4	4	4	3	1	4	0	2	1	4	2	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	74757105	C	G	74757105	3	3	88	1	0	0	0	0	1	0	0	0	63	855	30	4	636	4	ABCD4	14	74757105	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	9245985	74757105	32592435	59	5105											
PPIP5K1	9677	broad.mit.edu	37	chr15	43873430	43873430	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggccctcctctaccttgaAagctacgcagactttcctgg	7	11	9	14	1	1	2	0	1	1	1	3	2	3	2	4	2	3	2	4	2	3	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	43873430	G	G	43873430	3	3	88	1	0	0	0	0	1	0	0	0	12334	14	1	3	3583	3	PPIP5K1	15	43873430	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08		43873430	58657962	60	5106											
PARP6	56965	broad.mit.edu;hgsc.bcm.edu	37	chr15	72542434	72542434	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctcaatgtgggacccaCtgtaaggcagggtagaatac	12	9	12	8	0	1	1	1	0	1	1	2	2	1	2	1	3	1	4	1	3	5	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	72542434	C	T	72542434	5	4	88	1	0	0	0	0	0	0	1	0	11464	579	20	2	498	2	PARP6	15	72542434	Splice_Site	SNP	C	TCGA-B0-4827-01A-02D-1421-08	28669004	72542434	29988958	61	5107											
DCUN1D3	123879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20871576	20871576	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactgaaatgtaaaccggtAgagatccttgaatttatcct	15	12	7	7	1	0	3	0	2	0	1	2	4	2	3	3	1	2	2	3	1	7	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	20871576	A	G	20871576	3	3	88	1	0	0	0	0	1	0	0	0	4315	420	15	3	371	3	DCUN1D3	16	20871576	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08		20871576	69483177	62	5108											
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30734516	30734516	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actctggtgaggcctcttctCaagctggtccacagtccttc	6	12	9	14	0	3	1	1	1	3	0	7	1	5	1	3	3	1	1	3	3	1	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	30734516	C	T	30734516	2	4	88	1	0	0	0	0	0	0	0	1	15136	813	29	2		2	SRCAP	16	30734516	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	9862940	30734516	59620237	63	5109											
LPCAT2	54947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	55565881	55565881	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctgtttgattacttttaAaccaggtgagaaaaattaaa	15	15	6	5	0	0	2	0	2	0	1	1	3	1	2	2	1	2	1	2	1	7	6	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	55565881	A	T	55565881	3	4	88	1	0	0	0	0	1	0	0	0	8911	14	1	5	716	5	LPCAT2	16	55565881	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	24831365	55565881	34788872	64	5110											
RANBP10	57610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67778202	67778202	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcacacaccaaggctgtggCcattcttggtgtagaagcag	10	9	12	10	0	1	1	0	0	1	1	1	1	1	1	2	3	2	4	2	3	3	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	67778202	C	T	67778202	3	4	88	1	0	0	0	0	1	0	0	0	13028	739	26	2	1349	2	RANBP10	16	67778202	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	12212321	67778202	22576551	65	5111											
NFATC3	4775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68208354	68208354	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtaaatggaggtcatgaaAtggttgtgactggatctaat	12	13	12	4	0	2	2	1	2	1	0	2	4	2	4	0	4	0	2	0	4	4	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	68208354	A	G	68208354	3	3	88	1	0	0	0	0	1	0	0	0	10364	101	4	3	1874	3	NFATC3	16	68208354	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	430152	68208354	22146399	66	5112											
POLR2A	5430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7405412	7405412	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggggtcgtgaggggctcaTtgacacggctgtcaagactg	7	8	18	8	2	2	3	2	2	0	1	3	3	2	3	0	6	0	2	0	6	1	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	7405412	T	C	7405412	3	2	88	1	0	0	0	0	1	0	0	0	12214	1493	52	3	2601	3	POLR2A	17	7405412	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08		7405412	73789798	67	5113											
MYH3	4621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10535165	10535165	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaccctctcgttggagtCcaggagctcctgttccgcca	5	10	10	16	2	1	0	0	0	1	0	5	2	4	2	5	2	2	4	5	2	0	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	10535165	C	A	10535165	3	1	88	1	0	0	0	0	1	0	0	0	10036	855	30	4	725	4	MYH3	17	10535165	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	3129753	10535165	70660045	68	5114											
RGS9	8787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	63149596	63149596	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaggggtccgaatgcagaaCcagagggtcctggtcaccag	11	5	14	11	1	1	2	1	0	0	2	3	3	3	2	4	4	2	1	4	4	2	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	63149596	C	A	63149596	3	1	88	1	0	0	0	0	1	0	0	0	13315	506	18	4	120	4	RGS9	17	63149596	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	52614431	63149596	18045614	69	5115											
NOL11	25926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65735643	65735643	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacccagctgtttcttaaGtatttgtatttcctgtacct	7	17	5	12	0	1	0	0	0	1	0	2	0	2	0	4	0	2	5	4	0	4	7	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	65735643	G	C	65735643	3	2	88	1	0	0	0	0	1	0	0	0	10521	1020	36	4	1916	4	NOL11	17	65735643	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	2586047	65735643	15459567	70	5116											
WIPI1	55062	broad.mit.edu;hgsc.bcm.edu	37	chr17	66422217	66422217	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggttcctaatgctcacaGgaggaaactcattctcatca	12	10	8	11	1	4	0	4	0	1	0	6	2	5	2	1	3	2	2	1	3	2	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	66422217	G	A	66422217	3	1	88	1	0	0	0	0	1	0	0	0	17369	1014	35	2	56	2	WIPI1	17	66422217	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	686574	66422217	14772993	71	5117											
ABCA10	10349	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	67189998	67189998	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcccttttattttagcaAataccctgaggttttctctc	9	17	5	10	0	1	1	0	1	1	0	4	2	2	1	2	1	2	2	2	1	5	7	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	67189998	A	T	67189998	3	4	88	1	0	0	0	0	1	0	0	0	29	14	1	5	3261	5	ABCA10	17	67189998	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	767781	67189998	14005212	72	5118											
TSEN54	283989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73519837	73519837	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaataaccctggcaaaccCtatgcccggatgtgcattag	13	8	9	11	1	0	1	0	0	0	1	0	2	0	2	3	2	4	2	3	2	6	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		G	73519837	C	G	73519837	2	3	88	1	0	0	0	0	0	0	0	1	16613	668	24	4		4	TSEN54	17	73519837	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	6329839	73519837	7675373	73	5119											
THEG	51298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	362387	362387	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacctcccagcgaggaTctcggtcaggaacgcacttg	9	6	11	15	3	2	0	1	0	1	0	4	3	3	2	3	3	3	2	3	3	1	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	362387	T	A	362387	3	1	88	1	0	0	0	0	1	0	0	0	15856	1435	50	5	190	5	THEG	19	362387	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08		362387	58766596	74	5120											
C19orf21	126353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	757806	757806	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagtggagtccccggggaCccccaaggagacgcccatcg	8	4	13	16	3	1	1	1	0	0	1	3	4	2	3	5	4	0	0	5	4	1	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	757806	C	T	757806	3	4	88	1	0	0	0	0	1	0	0	0	1913	507	18	2	862	2	C19orf21	19	757806	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	395419	757806	58371177	75	5121											
ATP8B3	148229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1807166	1807166	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcatccaacagcactcaCcatgtcgtccaccaggtccc	9	7	7	18	1	1	0	1	0	0	0	5	0	4	0	5	1	3	3	5	1	1	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	1807166	C	T	1807166	5	4	88	1	0	0	0	0	0	0	1	0	1196	521	18	2	3430	2	ATP8B3	19	1807166	Splice_Site	SNP	C	TCGA-B0-4827-01A-02D-1421-08	1049360	1807166	57321817	76	5122											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9066745	9066745	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagctaggacagaggattGtgacccatgtccagaactgg	11	8	13	9	0	1	3	1	1	0	2	2	5	2	5	2	3	2	1	2	3	2	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	9066745	G	T	9066745	3	4	88	1	0	0	0	0	1	0	0	0	9973	1386	48	4	23150	4	MUC16	19	9066745	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08	7259579	9066745	50062238	77	5123											
OR10H2	26538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15839672	15839672	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactctcaggagggtgacacCctgatggccaccacctacgc	9	6	10	16	1	1	2	1	2	1	0	2	3	1	3	4	3	1	0	4	3	1	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	15839672	C	T	15839672	2	4	88	1	0	0	0	0	0	0	0	1	10906	610	22	2		2	OR10H2	19	15839672	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	6772927	15839672	43289311	78	5124											
RINL	126432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39360340	39360340	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaaggcgtcggcccccagGggatctgggaaaaccagagg	11	3	17	10	2	1	1	0	0	1	1	2	4	1	4	3	7	1	0	3	7	3	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	39360340	G	C	39360340	2	2	88	1	0	0	0	0	0	0	0	1	13377	1219	43	4		4	RINL	19	39360340	Silent	SNP	G	TCGA-B0-4827-01A-02D-1421-08	23520668	39360340	19768643	79	5125											
AKT2	208	broad.mit.edu	37	chr19	40742001	40742001	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccggccatagtcattgTcctccagcacctgaggatgg	7	8	12	14	2	1	1	1	1	0	0	3	2	3	2	5	4	1	1	5	4	1	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	40742001	C	C	40742001	3	2	88	1	0	0	0	0	1	0	0	0	480	1667	58	3	490	3	AKT2	19	40742001	Missense_Mutation	SNP	T	TCGA-B0-4827-01A-02D-1421-08	1381661	40742001	18386982	80	5126											
CYP2A13	1553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41594410	41594410	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcttctggtgaccttgCtggcctgcctgactgtgatg	3	13	14	11	0	1	3	0	3	1	0	1	3	1	3	3	3	3	3	3	3	0	2	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	41594410	C	T	41594410	2	4	88	1	0	0	0	0	0	0	0	1	4161	796	28	2		2	CYP2A13	19	41594410	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	852409	41594410	17534573	81	5127											
C20orf196	149840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	5843933	5843933	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctccgcagttttcaaatgGcccgggtgatcttcaaccgg	7	10	10	14	3	3	1	2	1	1	0	4	1	4	1	4	3	1	2	4	3	2	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	5843933	G	T	5843933	3	4	88	1	0	0	0	0	1	0	0	0	2101	1203	42	4	448	4	C20orf196	20	5843933	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08		5843933	57181587	82	5128											
PLCG1	5335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39798840	39798840	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccctggatgttgctgcCgactcacaggaggagctgca	7	9	14	11	1	1	0	1	0	0	0	2	4	2	3	2	4	4	4	2	4	0	1	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	39798840	C	T	39798840	2	4	88	1	0	0	0	0	0	0	0	1	12035	639	23	1		1	PLCG1	20	39798840	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	33954907	39798840	23226680	83	5129											
SAMD10	140700	broad.mit.edu	37	chr20	62607109	62607109	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcggagcacctgctgcagCacctcctgcctctgggcctc	5	7	12	17	1	1	0	0	0	1	0	3	1	2	1	5	3	5	4	5	3	0	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	62607109	T	T	62607109	2	4	88	1	0	0	0	0	0	0	0	1	13817	697	25	2		2	SAMD10	20	62607109	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08	22808269	62607109	418411	84	5130											
CBR3	874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37518699	37518699	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatgggaaagacagcatCaggactgtggaggagggggc	12	5	19	5	0	1	1	1	0	0	1	1	6	1	6	0	7	1	1	0	7	1	0	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	37518699	C	A	37518699	2	1	88	1	0	0	0	0	0	0	0	1	2709	816	29	4		4	CBR3	21	37518699	Silent	SNP	C	TCGA-B0-4827-01A-02D-1421-08		37518699	10611196	85	5131											
ZFX	7543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	24228654	24228654	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtaaattctgtgaatacGagacagctgaacaagggtta	15	10	11	5	1	1	3	0	2	1	1	1	4	1	3	0	1	3	3	0	1	7	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	24228654	G	A	24228654	3	1	88	1	0	0	0	0	1	0	0	0	17660	1059	37	1	1664	1	ZFX	23	24228654	Missense_Mutation	SNP	G	TCGA-B0-4827-01A-02D-1421-08		24228654	131041906	86	5132											
HDX	139324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	83724059	83724059	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgacctttgaatcccaacTggttcaattttacaaggtcg	11	14	7	9	1	1	2	1	2	0	0	3	2	2	2	2	2	2	1	2	2	6	5	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		C	83724059	T	C	83724059	2	2	88	1	0	0	0	0	0	0	0	1	7026	1567	55	3		3	HDX	23	83724059	Silent	SNP	T	TCGA-B0-4827-01A-02D-1421-08	59495405	83724059	71546501	87	5133											
TBC1D8B	54885	broad.mit.edu;hgsc.bcm.edu	37	chrX	106092530	106092530	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacaatgtgttattggggaGaagtagaaaaaggaaaatct	17	9	13	2	0	1	2	0	0	1	2	1	5	1	4	0	4	0	2	0	4	8	3	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		A	106092530	G	A	106092530	2	1	88	1	0	0	0	0	0	0	0	1	15625	933	33	2		2	TBC1D8B	23	106092530	Silent	SNP	G	TCGA-B0-4827-01A-02D-1421-08	22368471	106092530	49178030	88	5134											
GPR112	139378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135431578	135431578	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattaatgtacctacatccAatgagatggaaacagagact	16	10	7	8	0	0	2	0	1	0	2	1	5	1	3	2	1	3	1	2	1	6	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	135431578	A	T	135431578	3	4	88	1	0	0	0	0	1	0	0	0	6629	130	5	5	5723	5	GPR112	23	135431578	Missense_Mutation	SNP	A	TCGA-B0-4827-01A-02D-1421-08	29339048	135431578	19838982	89	5135											
MAGEC1	9947	broad.mit.edu;hgsc.bcm.edu	37	chrX	140994211	140994211	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccagtctcttctccagattCctatgacctcctccttctcc	5	14	3	19	0	3	2	0	1	3	1	9	2	6	2	7	0	0	0	7	0	1	4	novel		TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	140994211	C	T	140994211	3	4	88	1	0	0	0	0	1	0	0	0	9180	855	30	2	1027	2	MAGEC1	23	140994211	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	5562633	140994211	14276349	90	5136											
GABRE	2564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151123279	151123279	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagacatggatgcagaggCggccctgctgccaggtactg	8	7	16	10	1	0	2	0	0	0	2	0	3	0	3	2	5	4	4	2	5	2	2	rs80186670	bycluster;byfrequency	TCGA-B0-4827-01A-02D-1421-08	TCGA-B0-4827-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02f83f9a-4e4d-44f3-8d67-b4fc2d35102b	bb38d638-fc05-4d25-bbb9-180592399803		T	151123279	C	T	151123279	3	4	88	1	0	0	0	0	1	0	0	0	6170	768	27	1	109	1	GABRE	23	151123279	Missense_Mutation	SNP	C	TCGA-B0-4827-01A-02D-1421-08	10129068	151123279	4147281	91	5137											
PRAMEF7	441871	hgsc.bcm.edu	37	chr1	12980127	12980127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgagctgatgaagacacCgagggacttaaggcagccca	12	5	14	10	1	0	4	0	3	0	1	0	6	0	5	2	3	2	3	2	3	2	1	rs1832597	bycluster;byfrequency	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	12980127	T	T	12980127	3	4	89	1	0	0	0	0	1	0	0	0	12441	652	23	1	1329	1	PRAMEF7	1	12980127	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		12980127	236270494	1	5138											
SRRM1	10250	hgsc.bcm.edu	37	chr1	24995884	24995884	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttccccaagccgctctacCcgggaggcccgatcaccaca	8	6	8	19	3	3	0	1	0	2	0	4	2	4	1	6	2	2	1	6	2	2	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	24995884	C	G	24995884	2	3	89	1	0	0	0	0	0	0	0	1	15169	610	22	4		4	SRRM1	1	24995884	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	12015757	24995884	224254737	2	5139											
ZNHIT6	54680	hgsc.bcm.edu;ucsc.edu	37	chr1	86123567	86123567	+	Missense_Mutation	SNP	C	C	G																															atgtcattattggatcctttCaataccacatgtaatgttgg																								novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	86123567	C	G	86123567	3	3	89	1	0	0	0	0	1	0	0	0	18208	825	29	4	85	4	ZNHIT6	1	86123567	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	61127683	86123567	163127054	3	5140	62	2									
ZNHIT6	54680	hgsc.bcm.edu;ucsc.edu	37	chr1	86123569	86123569	+	Missense_Mutation	SNP	A	A	T																															gtcattattggatcctttcaAtaccacatgtaatgttggat																								novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	86123569	A	T	86123569	3	4	89	1	0	0	0	0	1	0	0	0	18208	98	4	5	87	5	ZNHIT6	1	86123569	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	2	86123569	163127052	4	5141	62	2									
HIAT1	64645	hgsc.bcm.edu;ucsc.edu	37	chr1	100503799	100503799	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggatggtaaaatgacccaggGgaagaagaagaaacgggccg	16	3	16	6	2	0	4	0	1	0	3	0	6	0	6	2	5	1	1	2	5	6	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	100503799	G	C	100503799	3	2	89	1	0	0	0	0	1	0	0	0	7097	1232	43	4	13	4	HIAT1	1	100503799	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	14380230	100503799	148746822	5	5142											
OTUD7B	56957	hgsc.bcm.edu;ucsc.edu	37	chr1	149921598	149921598	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtgggcctgatcataggCgagcaccagaggggagcggt	11	5	17	8	2	1	2	1	1	0	1	1	4	1	3	2	5	2	1	2	5	2	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	149921598	C	T	149921598	3	4	89	1	0	0	0	0	1	0	0	0	11319	768	27	1	1490	1	OTUD7B	1	149921598	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	49417799	149921598	99329023	6	5143											
USP21	27005	hgsc.bcm.edu;ucsc.edu	37	chr1	161134659	161134660	+	Frame_Shift_Ins	INS	-	-	A																															ctgcctcccgaggctccatcINSaaaaaaagttcagtaggtgt																								novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	161134660	-	A	161134659	7	5	89	1	0	1	1	0	0	0	0	0	17052	816	29	0	1457	0	USP21	1	161134659	Frame_Shift_Ins	INS	-	TCGA-B0-4828-01A-01D-1361-10	11213061	161134659	88115962	7	5144											
PLEKHA6	22874	hgsc.bcm.edu	37	chr1	204242841	204242841	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccgggcgtttcccaccTgttttattggacatgtccaa	7	13	10	11	2	0	0	0	0	0	0	2	1	2	1	4	2	1	3	4	2	3	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	204242841	T	C	204242841	2	2	89	1	0	0	0	0	0	0	0	1	12060	1567	55	3		3	PLEKHA6	1	204242841	Silent	SNP	T	TCGA-B0-4828-01A-01D-1361-10	43108182	204242841	45007780	8	5145											
SMC6	79677	hgsc.bcm.edu;ucsc.edu	37	chr2	17877627	17877627	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccaagtgttctttttgttTttcttcataatgtcgtttcc	6	22	5	8	1	3	0	1	0	2	0	6	0	5	0	2	0	0	3	2	0	2	8	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	17877627	T	G	17877627	3	3	89	1	0	0	0	0	1	0	0	0	14789	1850	64	5	842	5	SMC6	2	17877627	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10		17877627	225321746	9	5146											
SDC1	6382	hgsc.bcm.edu;ucsc.edu	37	chr2	20402566	20402566	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttggtgggcttctggtaGgccccgccgttggcttgttt	1	16	15	9	2	1	0	0	0	1	0	1	0	1	0	3	5	0	6	3	5	1	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	20402566	G	C	20402566	2	2	89	1	0	0	0	0	0	0	0	1	13953	987	35	4		4	SDC1	2	20402566	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10	2524939	20402566	222796807	10	5147											
HS1BP3	64342	hgsc.bcm.edu;ucsc.edu	37	chr2	20824634	20824634	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacggccactttgggatgTttcttgggcttcttggagct	4	16	12	9	1	3	0	1	0	2	0	3	2	3	2	1	4	1	3	1	4	0	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	20824634	T	C	20824634	2	2	89	1	0	0	0	0	0	0	0	1	7361	1722	60	3		3	HS1BP3	2	20824634	Silent	SNP	T	TCGA-B0-4828-01A-01D-1361-10	422068	20824634	222374739	11	5148											
LOXL3	84695	hgsc.bcm.edu;ucsc.edu	37	chr2	74763244	74763244	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagagctcctgtccagagCagcgaacttcactcaggtgg	9	7	14	11	1	2	2	2	0	0	2	4	4	4	2	2	3	4	2	2	3	1	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	74763244	C	T	74763244	3	4	89	1	0	0	0	0	1	0	0	0	8901	710	25	2	1166	2	LOXL3	2	74763244	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	53938610	74763244	168436129	12	5149											
LY75	4065	hgsc.bcm.edu	37	chr2	160697359	160697359	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catgttacttttcagacactCccttttagcactgtgccaag	9	14	6	12	0	1	1	1	0	0	1	2	1	2	1	2	0	3	2	2	0	3	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	160697359	C	A	160697359	4	1	89	1	0	0	0	0	0	1	0	0	9099	864	30	4	1824	4	LY75	2	160697359	Nonsense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	85934115	160697359	82502014	13	5150											
GLS	2744	hgsc.bcm.edu	37	chr2	191792046	191792046	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttagctgtgctccattgaAgtgacttgtgaatcagccag	9	13	11	8	0	1	3	1	3	0	0	2	3	2	3	2	0	3	3	2	0	3	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	191792046	A	C	191792046	3	2	89	1	0	0	0	0	1	0	0	0	6463	69	3	5	1309	5	GLS	2	191792046	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	31094687	191792046	51407327	14	5151											
MDH1B	130752	hgsc.bcm.edu	37	chr2	207619861	207619861	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaaactgtcttcaggtttAcaaaggttctccctcccacg	10	12	7	12	1	3	0	1	0	2	0	5	0	4	0	2	2	2	3	2	2	4	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	207619861	A	C	207619861	3	2	89	1	0	0	0	0	1	0	0	0	9409	391	14	5	806	5	MDH1B	2	207619861	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	15827815	207619861	35579512	15	5152											
SLC16A14	151473	hgsc.bcm.edu	37	chr2	230911157	230911157	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtggagtgcgctggcaGgccacgcacatctttctctc	5	12	11	13	2	3	0	0	0	3	0	5	1	3	1	1	3	1	3	1	3	0	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	230911157	G	C	230911157	3	2	89	1	0	0	0	0	1	0	0	0	14409	991	35	4	855	4	SLC16A14	2	230911157	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	23291296	230911157	12288216	16	5153											
VHL	7428	ucsc.edu	37	chr3	10188197	10188197	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctttgcttgtcccgataGgtcacctttggctcttcaga	7	14	8	12	1	3	1	2	0	1	1	4	2	4	1	3	2	2	2	3	2	2	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	10188197	G	C	10188197	5	2	89	1	0	0	0	0	0	0	1	0	17161	1014	35	4	346	4	VHL	3	10188197	Splice_Site	SNP	G	TCGA-B0-4828-01A-01D-1361-10		10188197	187834233	17	5154											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52651528	52651528	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacattgaataagattttcAttcgctgctttcttatgttc	10	18	5	8	1	2	2	1	1	1	1	4	2	2	2	0	0	2	3	0	0	4	8	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	52651528	A	C	52651528	3	2	89	1	0	0	0	0	1	0	0	0	11491	217	8	5	3400	5	PBRM1	3	52651528	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	42463331	52651528	145370902	18	5155											
KIAA2018	205717	hgsc.bcm.edu	37	chr3	113379781	113379782	+	Frame_Shift_Del	DEL	CA	CA	-																															cagtgagccactagtggcacCaagcacatttgattcgcttt																								novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		-	113379782	CA	-	113379781	7	5	89	1	0	1	0	1	0	0	0	0	8268	594	21	0	5993	0	KIAA2018	3	113379781	Frame_Shift_Del	DEL	CA	TCGA-B0-4828-01A-01D-1361-10	60728253	113379781	84642649	19	5156											
PCCB	5096	hgsc.bcm.edu	37	chr3	136012687	136012687	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggagctcggtggtgccaaGacccacaccaccatgtcagg	10	5	13	13	1	1	1	1	0	0	1	2	3	1	2	4	4	2	1	4	4	1	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	136012687	G	C	136012687	3	2	89	1	0	0	0	0	1	0	0	0	11505	933	33	4	834	4	PCCB	3	136012687	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	22632906	136012687	62009743	20	5157											
SI	6476	hgsc.bcm.edu	37	chr3	164776805	164776805	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttatccacacatgttgtgtGtttcccctctcataggttgc	6	17	7	11	0	1	0	1	0	1	0	4	0	3	0	3	1	1	3	3	1	2	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	164776805	G	T	164776805	3	4	89	1	0	0	0	0	1	0	0	0	14299	1368	48	4	4287	4	SI	3	164776805	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	28764118	164776805	33245625	21	5158											
LRRC15	131578	hgsc.bcm.edu	37	chr3	194081358	194081358	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagtgggccggctggatctGcaacagctggttactggaca	9	8	15	9	1	1	0	0	0	1	0	1	3	1	2	1	5	4	4	1	5	3	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	194081358	G	T	194081358	3	4	89	1	0	0	0	0	1	0	0	0	8970	1328	46	4	1334	4	LRRC15	3	194081358	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	29304553	194081358	3941072	22	5159											
TET2	54790	hgsc.bcm.edu;ucsc.edu	37	chr4	106156048	106156048	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctaaatacctgttcctttCagaaaccagaacaactacaa	16	10	4	11	0	1	2	1	0	0	2	2	2	2	2	3	0	6	2	3	0	8	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	106156048	C	A	106156048	3	1	89	1	0	0	0	0	1	0	0	0	15769	827	29	4	951	4	TET2	4	106156048	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		106156048	84998228	23	5160											
GSTCD	79807	hgsc.bcm.edu	37	chr4	106638847	106638847	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaaacagaaggatgcaTctttcctcttcatacatctg	12	12	5	12	0	5	1	2	0	3	1	6	2	6	2	2	1	3	1	2	1	3	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	106638847	T	G	106638847	3	3	89	1	0	0	0	0	1	0	0	0	6835	1435	50	5	79	5	GSTCD	4	106638847	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	482799	106638847	84515429	24	5161											
ODZ3	0	hgsc.bcm.edu	37	chr4	183601821	183601821	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtattgacccacagtgtgggGgtcgtgggatttgtatcatg	7	13	15	6	1	1	1	1	1	0	0	2	2	1	2	1	3	0	2	1	3	2	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	183601821	G	T	183601821	3	4	89	1	0	0	0	0	1	0	0	0	10836	1232	43	4	1799	4	ODZ3	4	183601821	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	76962974	183601821	7552455	25	5162											
DNAH5	1767	hgsc.bcm.edu;ucsc.edu	37	chr5	13922428	13922428	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccgcatctaacatgttaaAactcacctcctggaaaacag	14	9	6	12	1	2	0	1	0	1	0	3	1	3	1	3	1	4	2	3	1	5	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	13922428	A	C	13922428	3	2	89	1	0	0	0	0	1	0	0	0	4604	14	1	5	13726	5	DNAH5	5	13922428	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10		13922428	166992832	26	5163											
FAM105A	54491	hgsc.bcm.edu	37	chr5	14602319	14602319	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctattttggcggcatCacattaaatgtgttcgacaa	12	12	10	7	2	1	0	1	0	0	0	2	2	1	1	0	3	1	3	0	3	4	5	rs144733724		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	14602319	C	A	14602319	3	1	89	1	0	0	0	0	1	0	0	0	5387	826	29	4	394	4	FAM105A	5	14602319	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	679891	14602319	166312941	27	5164											
CDH18	1016	hgsc.bcm.edu;ucsc.edu	37	chr5	19747281	19747281	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcaatgataaatatagtcCcagcaccctctccagtaagg	13	9	7	12	1	2	1	1	1	1	0	4	1	3	1	3	1	1	2	3	1	6	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	19747281	C	T	19747281	3	4	89	1	0	0	0	0	1	0	0	0	3103	623	22	2	2119	2	CDH18	5	19747281	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	5144962	19747281	161167979	28	5165											
AP3B1	8546	hgsc.bcm.edu	37	chr5	77316582	77316582	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagttctccaacaggtggctGaatattaacattgaagcaat	14	11	8	8	0	1	2	0	2	1	0	2	2	1	2	1	2	3	3	1	2	6	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	77316582	G	A	77316582	4	1	89	1	0	0	0	0	0	1	0	0	744	1299	45	2	370	2	AP3B1	5	77316582	Nonsense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	57569301	77316582	103598678	29	5166											
GNPDA1	10007	hgsc.bcm.edu	37	chr5	141391485	141391485	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaacgcaccagtggggAgccccagggtgaagtacttc	11	5	13	12	1	0	2	0	1	0	1	1	3	0	3	4	3	3	2	4	3	4	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	141391485	A	T	141391485	3	4	89	1	0	0	0	0	1	0	0	0	6542	304	11	5	777	5	GNPDA1	5	141391485	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	64074903	141391485	39523775	30	5167											
BTNL8	79908	hgsc.bcm.edu	37	chr5	180377470	180377470	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcttggcaaagggcctctGcaatcccagagacaagcaac	12	6	9	14	0	2	1	0	0	2	1	3	2	3	1	3	2	3	3	3	2	4	1	rs113820381	by1000genomes	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	180377470	G	A	180377470	3	1	89	1	0	0	0	0	1	0	0	0	1567	1319	46	2	1615	2	BTNL8	5	180377470	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	38985985	180377470	537790	31	5168											
TDRD6	221400	hgsc.bcm.edu	37	chr6	46656689	46656689	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgcagcgtctcgcaggAgatccaccgcctctccgaga	7	6	11	17	5	2	2	0	0	2	2	6	4	4	2	5	1	1	3	5	1	0	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	46656689	A	C	46656689	3	2	89	1	0	0	0	0	1	0	0	0	15733	304	11	5	826	5	TDRD6	6	46656689	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10		46656689	124458378	32	5169											
HIVEP2	3097	hgsc.bcm.edu;ucsc.edu	37	chr6	143091371	143091371	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaagccatcttttggctcaGaagcacatccttgtcgaacc	10	10	8	13	1	2	1	1	0	1	1	4	2	3	1	3	1	3	3	3	1	3	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	143091371	G	A	143091371	3	1	89	1	0	0	0	0	1	0	0	0	7187	942	33	2	2859	2	HIVEP2	6	143091371	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	96434682	143091371	28023696	33	5170											
SYNJ2	8871	hgsc.bcm.edu	37	chr6	158499241	158499241	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatctagatgttgacaccaAagtcagacacacctggtctc	12	10	8	11	0	3	4	1	2	2	2	4	4	3	4	2	1	0	1	2	1	2	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	158499241	A	C	158499241	3	2	89	1	0	0	0	0	1	0	0	0	15452	14	1	5	2565	5	SYNJ2	6	158499241	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	15407870	158499241	12615826	34	5171											
SYTL3	94120	hgsc.bcm.edu	37	chr6	159166676	159166676	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatggagaagaaaagaaGaaaaagtgcaatccgtaagt	19	6	11	5	1	0	4	0	0	0	4	1	5	1	4	2	1	1	2	2	1	9	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	159166676	G	T	159166676	3	4	89	1	0	0	0	0	1	0	0	0	15483	933	33	4	842	4	SYTL3	6	159166676	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	667435	159166676	11948391	35	5172											
TCP10	6953	hgsc.bcm.edu	37	chr6	167791530	167791530	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtatttgggcgttgtGtcttcatcagctgacagatg	7	13	12	9	2	3	2	2	1	1	1	3	2	3	2	1	1	2	3	1	1	1	4	rs56018421	bycluster	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	167791530	G	C	167791530	3	2	89	1	0	0	0	0	1	0	0	0	15709	1368	48	4	670	4	TCP10	6	167791530	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	8624854	167791530	3323537	36	5173											
MLLT4	4301	hgsc.bcm.edu	37	chr6	168273013	168273013	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaaaagaggcattgcgAcaggcatctgataaagatga	18	6	12	5	1	1	5	0	2	1	3	1	7	1	5	0	2	1	2	0	2	4	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	168273013	A	T	168273013	2	4	89	1	0	0	0	0	0	0	0	1	9629	262	10	5		5	MLLT4	6	168273013	Silent	SNP	A	TCGA-B0-4828-01A-01D-1361-10	481483	168273013	2842054	37	5174											
ADCYAP1R1	117	hgsc.bcm.edu;ucsc.edu	37	chr7	31121334	31121334	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgtatttttcaggagagtCtgattttggtgacagtaact	9	17	10	5	0	3	3	1	2	2	1	3	4	3	3	0	2	1	2	0	2	2	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	31121334	C	G	31121334	3	3	89	1	0	0	0	0	1	0	0	0	303	913	32	4	311	4	ADCYAP1R1	7	31121334	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		31121334	128017329	38	5175											
TXNDC3	0	hgsc.bcm.edu;ucsc.edu	37	chr7	37903001	37903001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcatttctttttcatagtatCctgaaattccattagtagac	11	17	5	8	0	2	2	1	1	1	1	4	2	4	2	2	0	0	3	2	0	5	8	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	37903001	C	T	37903001	3	4	89	1	0	0	0	0	1	0	0	0	16797	855	30	2	413	2	TXNDC3	7	37903001	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	6781667	37903001	121235662	39	5176											
ZNF716	441234	hgsc.bcm.edu;ucsc.edu	37	chr7	57528629	57528629	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttgtcagctacccaaaaCaaaacatttcagactcataa	16	11	4	10	0	3	1	3	0	0	1	3	1	3	1	1	0	4	2	1	0	6	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	57528629	C	A	57528629	3	1	89	1	0	0	0	0	1	0	0	0	18118	477	17	4	476	4	ZNF716	7	57528629	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	19625628	57528629	101610034	40	5177											
GIGYF1	64599	hgsc.bcm.edu	37	chr7	100282980	100282980	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcctaccttcggccgctggGggctctttctctgcagtttc	2	15	10	14	2	2	0	0	0	2	0	6	0	3	0	3	3	2	4	3	3	1	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	100282980	G	A	100282980	2	1	89	1	0	0	0	0	0	0	0	1	6377	1219	43	2		2	GIGYF1	7	100282980	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10	42754351	100282980	58855683	41	5178											
SLC4A2	6522	hgsc.bcm.edu	37	chr7	150769065	150769065	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggagtacctggtgggcCgtgtgtggatcggcttctgg	4	11	17	9	2	1	0	0	0	1	0	2	2	1	2	3	6	1	2	3	6	1	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	150769065	C	T	150769065	3	4	89	1	0	0	0	0	1	0	0	0	14656	652	23	1	2435	1	SLC4A2	7	150769065	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	50486085	150769065	8369598	42	5179											
EBF2	64641	hgsc.bcm.edu;ucsc.edu	37	chr8	25744374	25744374	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccggggaggagtctgtacTctgatggcatgaggggttat	7	11	17	6	1	2	2	0	2	2	0	2	4	2	4	1	6	2	3	1	6	2	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	25744374	T	C	25744374	2	2	89	1	0	0	0	0	0	0	0	1	4881	1548	54	3		3	EBF2	8	25744374	Silent	SNP	T	TCGA-B0-4828-01A-01D-1361-10		25744374	120619648	43	5180											
PXDNL	137902	hgsc.bcm.edu;ucsc.edu	37	chr8	52320891	52320891	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcccccggagaaccgggTctatcccaccttccttgatt	8	9	8	16	2	1	2	0	1	1	1	3	3	3	2	6	2	2	0	6	2	2	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	52320891	T	A	52320891	3	1	89	1	0	0	0	0	1	0	0	0	12850	1667	58	5	1126	5	PXDNL	8	52320891	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	26576517	52320891	94043131	44	5181											
LAPTM4B	55353	hgsc.bcm.edu	37	chr8	98817636	98817636	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctggctgatccggatcAgtataacttttcaagttctg	8	14	9	10	1	3	1	2	1	1	0	4	2	4	2	2	2	2	3	2	2	3	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	98817636	A	G	98817636	3	3	89	1	0	0	0	0	1	0	0	0	8625	188	7	3	434	3	LAPTM4B	8	98817636	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	46496745	98817636	47546386	45	5182											
PKHD1L1	93035	hgsc.bcm.edu;ucsc.edu	37	chr8	110464467	110464467	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactctatcagggtgggcTccagtttgtgtccacatcag	8	12	10	11	0	3	0	2	0	1	0	5	0	5	0	2	2	1	2	2	2	2	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	110464467	T	A	110464467	2	1	89	1	0	0	0	0	0	0	0	1	11972	1538	54	5		5	PKHD1L1	8	110464467	Silent	SNP	T	TCGA-B0-4828-01A-01D-1361-10	11646831	110464467	35899555	46	5183											
SAMD12	401474	hgsc.bcm.edu;ucsc.edu	37	chr8	119452167	119452167	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacatcctgctgggtccataGagccaccggtttagatagct	9	10	11	11	1	0	2	0	0	0	2	2	3	2	2	4	2	3	3	4	2	3	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	119452167	G	C	119452167	3	2	89	1	0	0	0	0	1	0	0	0	13819	933	33	4	414	4	SAMD12	8	119452167	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	8987700	119452167	26911855	47	5184											
C9orf82	0	hgsc.bcm.edu	37	chr9	26842572	26842572	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggagcagctgcttcttcGttgcatgggccttctatgtc	4	14	12	11	2	2	0	0	0	2	0	5	1	2	1	1	2	4	5	1	2	1	5	rs146970170	byfrequency	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	26842572	G	A	26842572	2	1	89	1	0	0	0	0	0	0	0	1	2499	1136	40	1		1	C9orf82	9	26842572	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10		26842572	114370859	48	5185											
FLJ46321	0	hgsc.bcm.edu	37	chr9	84608502	84608502	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcgaaaaattagattcAacaagctcattccccatcct	16	9	4	12	1	2	1	2	0	0	1	4	2	4	1	3	0	3	1	3	0	6	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	84608502	A	T	84608502	2	4	89	1	0	0	0	0	0	0	0	1	5932	117	5	5		5	FLJ46321	9	84608502	Silent	SNP	A	TCGA-B0-4828-01A-01D-1361-10	57765930	84608502	56604929	49	5186											
SPTLC1	10558	hgsc.bcm.edu	37	chr9	94843154	94843154	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatatgtgctactcacctTaaccctagggttatccaaca	12	11	6	12	0	1	0	1	0	0	0	2	0	2	0	3	1	4	3	3	1	7	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	94843154	T	C	94843154	3	2	89	1	0	0	0	0	1	0	0	0	15124	1763	61	3	1126	3	SPTLC1	9	94843154	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	10234652	94843154	46370277	50	5187											
ZNF782	158431	hgsc.bcm.edu;ucsc.edu	37	chr9	99580432	99580432	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacttctcactgaaagcttTtccacattcattacattcat	11	16	3	11	0	3	2	3	2	1	0	5	2	4	2	1	0	2	1	1	0	2	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	99580432	T	A	99580432	4	1	89	1	0	0	0	0	0	1	0	0	18154	1850	64	5	230	5	ZNF782	9	99580432	Nonsense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	4737278	99580432	41632999	51	5188											
PHF19	26147	hgsc.bcm.edu	37	chr9	123620470	123620470	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctgcactgctgtccgaggGgcagcgtccatccagctcag	6	8	12	15	2	2	0	1	0	1	0	5	1	5	0	3	2	4	4	3	2	0	0	rs150031973	byfrequency;alternate_allele	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	123620470	G	C	123620470	3	2	89	1	0	0	0	0	1	0	0	0	11829	1232	43	4	251	4	PHF19	9	123620470	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	24040038	123620470	17592961	52	5189											
FAM129B	64855	hgsc.bcm.edu;ucsc.edu	37	chr9	130294041	130294041	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aactggaggaactccgtcagGatcttcccggttttttctgg	7	13	11	10	2	3	0	1	0	2	0	5	3	5	3	2	5	2	1	2	5	2	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	130294041	G	A	130294041	2	1	89	1	0	0	0	0	0	0	0	1	5437	1164	41	2		2	FAM129B	9	130294041	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10	6673571	130294041	10919390	53	5190											
SLC39A12	221074	hgsc.bcm.edu	37	chr10	18280180	18280180	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attaattggaggcatccatgGatttttcttgatagaaaaat	14	15	8	4	0	1	2	0	1	1	1	2	4	2	4	1	3	0	1	1	3	4	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	18280180	G	A	18280180	3	1	89	1	0	0	0	0	1	0	0	0	14617	1174	41	2	1396	2	SLC39A12	10	18280180	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10		18280180	117254567	54	5191											
ZNF488	118738	hgsc.bcm.edu;ucsc.edu	37	chr10	48371284	48371284	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggcccaggtgcccccacCctcatcatcctccaccactt	7	7	5	22	0	2	0	2	0	0	0	4	0	4	0	8	2	1	0	8	2	0	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	48371284	C	T	48371284	3	4	89	1	0	0	0	0	1	0	0	0	17939	623	22	2	754	2	ZNF488	10	48371284	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	30091104	48371284	87163463	55	5192											
CDH23	64072	hgsc.bcm.edu	37	chr10	73483833	73483833	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacgcagatgagggcgagtTtgggcgtgtgtggtaccgca	7	8	19	7	4	0	2	0	1	0	1	0	4	0	3	1	4	1	4	1	4	1	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	73483833	T	A	73483833	3	1	89	1	0	0	0	0	1	0	0	0	3108	1841	64	5	3818	5	CDH23	10	73483833	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	25112549	73483833	62050914	56	5193											
C10orf82	143379	hgsc.bcm.edu;ucsc.edu	37	chr10	118424301	118424301	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtttcagatgtgccttcttGgccctctccgtgatctccag	4	14	10	13	1	4	2	1	1	3	1	6	2	4	2	4	2	1	1	4	2	0	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	118424301	G	A	118424301	2	1	89	1	0	0	0	0	0	0	0	1	1620	1335	47	2		2	C10orf82	10	118424301	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10	44940468	118424301	17110446	57	5194											
HSPA12A	259217	hgsc.bcm.edu;ucsc.edu	37	chr10	118435938	118435938	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaatgatgctatcgatggtCggcttaaaaagggcgttcat	11	12	11	7	3	2	1	2	1	0	0	4	2	2	1	0	3	1	3	0	3	5	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	118435938	C	T	118435938	2	4	89	1	0	0	0	0	0	0	0	1	7404	871	31	1		1	HSPA12A	10	118435938	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	11637	118435938	17098809	58	5195											
OVCH2	341277	hgsc.bcm.edu;ucsc.edu	37	chr11	7713157	7713157	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccttcttcctttctacatCgctgtgcactgtcacatagt	6	17	5	13	1	3	0	1	0	2	0	6	0	5	0	2	0	2	2	2	0	2	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	7713157	C	T	7713157	3	4	89	1	0	0	0	0	1	0	0	0	11324	884	31	1	218	1	OVCH2	11	7713157	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		7713157	127293359	59	5196											
SAA1	6288	hgsc.bcm.edu;ucsc.edu	37	chr11	18291358	18291358	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatggggcaggagtggcaaaGaccccaatcacttccgacct	12	6	11	12	1	1	1	1	0	0	1	2	3	2	2	4	4	0	2	4	4	3	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	18291358	G	C	18291358	3	2	89	1	0	0	0	0	1	0	0	0	13800	942	33	4	335	4	SAA1	11	18291358	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	10578201	18291358	116715158	60	5197											
RPUSD4	84881	hgsc.bcm.edu	37	chr11	126080885	126080885	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcacgttggggtggacTcgctgcagctgccgtgtgaa	7	8	16	10	3	0	1	0	1	0	0	1	2	0	2	1	3	4	6	1	3	2	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	126080885	T	A	126080885	2	1	89	1	0	0	0	0	0	0	0	1	13671	1538	54	5		5	RPUSD4	11	126080885	Silent	SNP	T	TCGA-B0-4828-01A-01D-1361-10	107789527	126080885	8925631	61	5198											
CAPRIN2	65981	hgsc.bcm.edu;ucsc.edu	37	chr12	30872063	30872063	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggttactgaactactacTtgctggaggtgactggaagc	11	11	12	7	0	0	2	0	2	0	0	0	4	0	4	0	4	6	2	0	4	6	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	30872063	T	A	30872063	3	1	89	1	0	0	0	0	1	0	0	0	2636	1609	56	5	1162	5	CAPRIN2	12	30872063	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10		30872063	102979832	62	5199											
INHBE	83729	hgsc.bcm.edu;ucsc.edu	37	chr12	57850460	57850460	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccaggcattgctgcctctttCcattctgccgtcttcagcct	4	14	7	16	1	4	0	1	0	3	0	5	0	5	0	5	1	4	2	5	1	0	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	57850460	C	G	57850460	3	3	89	1	0	0	0	0	1	0	0	0	7744	854	30	4	888	4	INHBE	12	57850460	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	26978397	57850460	76001435	63	5200											
LRIG3	121227	hgsc.bcm.edu;ucsc.edu	37	chr12	59271294	59271294	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggctatgatcacgacaccCacagtggcccatccgtcatc	10	7	8	16	3	2	1	2	1	0	0	4	2	3	1	3	2	0	1	3	2	1	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	59271294	C	A	59271294	2	1	89	1	0	0	0	0	0	0	0	1	8946	581	21	4		4	LRIG3	12	59271294	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	1420834	59271294	74580601	64	5201											
E2F7	144455	hgsc.bcm.edu;ucsc.edu	37	chr12	77417897	77417897	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagggtctccaaggctGccgggtgtcttgaaaaacgt	10	8	14	9	2	2	1	0	1	2	0	3	2	2	2	2	4	2	1	2	4	3	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	77417897	G	T	77417897	2	4	89	1	0	0	0	0	0	0	0	1	4872	1306	46	4		4	E2F7	12	77417897	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10	18146603	77417897	56433998	65	5202											
LTA4H	4048	hgsc.bcm.edu	37	chr12	96421314	96421314	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattttggagaggtctcaaAagaaatttctataacaattt	16	14	7	4	0	2	3	1	0	2	3	3	4	2	3	0	2	1	0	0	2	6	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	96421314	A	G	96421314	3	3	89	1	0	0	0	0	1	0	0	0	9069	14	1	3	1584	3	LTA4H	12	96421314	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	19003417	96421314	37430581	66	5203											
NEDD1	121441	hgsc.bcm.edu	37	chr12	97303545	97303545	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggcgcagtcatgcaggAaaacctcagatttgcttcat	11	11	10	9	1	3	1	3	0	0	1	3	2	3	2	1	2	3	4	1	2	3	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	97303545	A	T	97303545	3	4	89	1	0	0	0	0	1	0	0	0	10309	246	9	5	35	5	NEDD1	12	97303545	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	882231	97303545	36548350	67	5204											
RNF17	56163	hgsc.bcm.edu	37	chr13	25367296	25367296	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaagaaaaaggttgacatgtCtgtcctaaccagtgaagcac	16	8	9	8	0	1	3	0	2	1	1	2	3	2	3	2	1	2	2	2	1	5	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	25367296	C	G	25367296	3	3	89	1	0	0	0	0	1	0	0	0	13463	913	32	4	1090	4	RNF17	13	25367296	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		25367296	89802582	68	5205											
FREM2	341640	hgsc.bcm.edu	37	chr13	39264018	39264018	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagaagggtcaccacaTcctgagtgagacagagttgc	12	7	13	9	0	2	4	2	2	0	3	3	6	3	4	2	2	1	1	2	2	1	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	39264018	T	C	39264018	3	2	89	1	0	0	0	0	1	0	0	0	6045	1435	50	3	2539	3	FREM2	13	39264018	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	13896722	39264018	75905860	69	5206											
KTN1	3895	hgsc.bcm.edu;ucsc.edu	37	chr14	56103977	56103977	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgcatagtaagcttacAgataccttggtatcaaaaca	15	11	7	8	0	2	1	1	0	1	1	2	1	2	1	1	1	5	4	1	1	7	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	56103977	A	G	56103977	2	3	89	1	0	0	0	0	0	0	0	1	8585	175	7	3		3	KTN1	14	56103977	Silent	SNP	A	TCGA-B0-4828-01A-01D-1361-10		56103977	51245563	70	5207											
ZFYVE26	23503	hgsc.bcm.edu	37	chr14	68229089	68229089	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggccatgccccaagcaTgccacgccccggtggtatca	8	5	12	16	2	1	0	1	0	0	0	1	0	1	0	6	4	3	3	6	4	2	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	68229089	T	C	68229089	3	2	89	1	0	0	0	0	1	0	0	0	17667	1464	51	3	1455	3	ZFYVE26	14	68229089	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	12125112	68229089	39120451	71	5208											
BRF1	2972	hgsc.bcm.edu	37	chr14	105695184	105695184	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcgtggactcacacactTtgaccacactgatgacctcc	10	8	8	15	1	1	3	1	3	0	0	2	4	2	4	3	1	1	1	3	1	0	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	105695184	T	G	105695184	3	3	89	1	0	0	0	0	1	0	0	0	1510	1841	64	5	1320	5	BRF1	14	105695184	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	37466095	105695184	1654356	72	5209											
DISP2	85455	hgsc.bcm.edu	37	chr15	40661375	40661375	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacactgccgaggccctgtTtctctctgcctcagtgggcc	5	10	10	16	1	3	0	1	0	2	0	4	1	3	0	4	2	3	1	4	2	1	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	40661375	T	C	40661375	3	2	89	1	0	0	0	0	1	0	0	0	4540	1841	64	3	3092	3	DISP2	15	40661375	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10		40661375	61870017	73	5210											
LCMT2	9836	hgsc.bcm.edu	37	chr15	43621544	43621544	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctcactcggcagtgccGcccctcctgctctccaaatc	5	9	8	19	2	2	0	1	0	1	0	6	0	3	0	5	2	2	3	5	2	1	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	43621544	G	T	43621544	2	4	89	1	0	0	0	0	0	0	0	1	8679	1086	38	4		4	LCMT2	15	43621544	Silent	SNP	G	TCGA-B0-4828-01A-01D-1361-10	2960169	43621544	58909848	74	5211											
LMAN1L	79748	hgsc.bcm.edu;ucsc.edu	37	chr15	75115023	75115023	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccatggacagtggaCtctgctccaggccctgcaag	7	8	11	15	0	1	0	0	0	1	0	3	2	3	2	4	3	3	3	4	3	1	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	75115023	C	G	75115023	3	3	89	1	0	0	0	0	1	0	0	0	8837	565	20	4	1214	4	LMAN1L	15	75115023	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	31493479	75115023	27416369	75	5212											
TPSB2	64499	hgsc.bcm.edu	37	chr16	1278744	1278744	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggctgggcacagccctcgCcccagctgaccacgcccgcc	5	4	12	20	3	0	1	0	1	0	0	1	1	0	1	6	2	2	3	6	2	0	0	rs62012862	bycluster;byfrequency;by1000genomes	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	1278744	C	T	1278744	3	4	89	1	0	0	0	0	1	0	0	0	16423	739	26	2	97	2	TPSB2	16	1278744	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		1278744	89076009	76	5213											
UQCRC2	7385	hgsc.bcm.edu	37	chr16	21974117	21974117	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgctcaatgtcaccaCagcaccagaatttcgtcgtt	9	12	7	13	2	2	1	2	0	0	1	5	1	3	1	3	0	2	4	3	0	2	3	rs139500759	by1000genomes;alternate_allele	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	21974117	C	T	21974117	3	4	89	1	0	0	0	0	1	0	0	0	17019	478	17	2	447	2	UQCRC2	16	21974117	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	20695373	21974117	68380636	77	5214											
SF3B3	23450	hgsc.bcm.edu;ucsc.edu	37	chr16	70605091	70605091	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagctttcgctcctactacTtccctgtgaaggtaggttgg	6	14	10	11	1	1	1	1	1	0	0	4	1	3	1	2	3	3	4	2	3	4	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	70605091	T	A	70605091	3	1	89	1	0	0	0	0	1	0	0	0	14154	1609	56	5	3596	5	SF3B3	16	70605091	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	48630974	70605091	19749662	78	5215											
MARVELD3	91862	hgsc.bcm.edu	37	chr16	71663303	71663303	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagatatctgccctcgacCcccaggcctggacgagagga	10	5	13	13	2	1	2	0	0	1	2	2	8	1	4	4	3	1	0	4	3	1	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	71663303	C	T	71663303	2	4	89	1	0	0	0	0	0	0	0	1	9319	610	22	2		2	MARVELD3	16	71663303	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	1058212	71663303	18691450	79	5216											
ALOX15B	247	hgsc.bcm.edu;ucsc.edu	37	chr17	7945736	7945736	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcctggatgaaaagacaGtggaagacttggagctcaat	14	8	12	7	0	1	3	1	1	0	2	1	6	1	6	1	3	2	1	1	3	4	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	7945736	G	T	7945736	3	4	89	1	0	0	0	0	1	0	0	0	539	1029	36	4	513	4	ALOX15B	17	7945736	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10		7945736	73249474	80	5217											
GAS2L2	246176	hgsc.bcm.edu	37	chr17	34071950	34071950	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggccctctggaggttgggGgctgctctccaatggagcgg	5	8	17	11	1	2	0	0	0	2	0	3	2	2	2	2	7	2	3	2	7	1	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	34071950	G	T	34071950	3	4	89	1	0	0	0	0	1	0	0	0	6247	1232	43	4	80	4	GAS2L2	17	34071950	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	26126214	34071950	47123260	81	5218											
ACSF2	80221	hgsc.bcm.edu;ucsc.edu	37	chr17	48549808	48549808	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccggatcatgaacatggAggcagggacgctggcaaagc	11	4	16	10	2	1	1	1	1	0	0	1	4	1	4	1	6	2	3	1	6	2	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	48549808	A	T	48549808	3	4	89	1	0	0	0	0	1	0	0	0	175	304	11	5	1389	5	ACSF2	17	48549808	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	14477858	48549808	32645402	82	5219											
CACNA1G	8913	hgsc.bcm.edu	37	chr17	48680508	48680508	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgacagcggcaccaagAtcctgggcatgctgagggtg	8	8	14	11	1	1	3	0	2	1	1	3	3	2	3	2	3	2	3	2	3	1	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	48680508	A	T	48680508	3	4	89	1	0	0	0	0	1	0	0	0	2544	333	12	5	4199	5	CACNA1G	17	48680508	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	130700	48680508	32514702	83	5220											
ABCA9	10350	hgsc.bcm.edu	37	chr17	67016618	67016618	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctccagagcgccacgccActgattgttttccttgtttc	5	14	8	14	2	0	2	0	1	0	1	3	2	2	2	5	0	2	2	5	0	0	5	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	67016618	A	T	67016618	3	4	89	1	0	0	0	0	1	0	0	0	39	156	6	5	2447	5	ABCA9	17	67016618	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	18336110	67016618	14178592	84	5221											
ASXL3	80816	hgsc.bcm.edu	37	chr18	31324446	31324446	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcattgctgcttcggcagCaaaacaagacagtaaaacat	15	10	7	9	1	1	1	1	0	0	1	2	1	1	1	0	1	5	5	0	1	5	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	31324446	C	A	31324446	3	1	89	1	0	0	0	0	1	0	0	0	1068	710	25	4	4680	4	ASXL3	18	31324446	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10		31324446	46752802	85	5222											
CXXC1	30827	hgsc.bcm.edu	37	chr18	47810394	47810394	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgaatgcgttcgagcagcTtcttgccgtgctcttcagca	6	11	12	12	4	3	0	1	0	2	0	4	2	3	0	1	1	6	5	1	1	1	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	47810394	T	A	47810394	3	1	89	1	0	0	0	0	1	0	0	0	4097	1609	56	5	711	5	CXXC1	18	47810394	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	16485948	47810394	30266854	86	5223											
LONP1	9361	hgsc.bcm.edu	37	chr19	5693589	5693589	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgcaggtggatgtgtgAggtcaccaggtagtcattgg	9	10	15	7	0	2	1	2	1	0	0	2	2	2	2	1	5	1	2	1	5	1	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	5693589	A	T	5693589	3	4	89	1	0	0	0	0	1	0	0	0	8892	304	11	5	379	5	LONP1	19	5693589	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10		5693589	53435394	87	5224											
OR7G3	390883	hgsc.bcm.edu;ucsc.edu	37	chr19	9237030	9237030	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaggctggtcaccaaataCaccaggatgttattgatgag	14	9	10	8	0	1	2	1	2	0	0	1	3	1	3	2	3	2	2	2	3	4	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	9237030	C	A	9237030	2	1	89	1	0	0	0	0	0	0	0	1	11224	465	17	4		4	OR7G3	19	9237030	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	3543441	9237030	49891953	88	5225											
NTN5	126147	hgsc.bcm.edu	37	chr19	49167834	49167834	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtctgcaggccacactcAcctctgcaggccctgcggct	5	8	10	18	1	3	0	1	0	2	0	3	0	3	0	4	3	3	3	4	3	0	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	49167834	A	G	49167834	5	3	89	1	0	0	0	0	0	0	1	0	10703	173	6	3	667	3	NTN5	19	49167834	Splice_Site	SNP	A	TCGA-B0-4828-01A-01D-1361-10	39930804	49167834	9961149	89	5226											
MYH14	79784	hgsc.bcm.edu	37	chr19	50762505	50762505	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttccccaaccgcatcctcttCcaggagttccggcagcggtg	6	9	10	16	3	1	0	0	0	1	0	5	1	5	1	6	3	2	3	6	3	1	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	50762505	C	T	50762505	2	4	89	1	0	0	0	0	0	0	0	1	10033	854	30	2		2	MYH14	19	50762505	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	1594671	50762505	8366478	90	5227											
ZNF587	84914	hgsc.bcm.edu	37	chr19	58370298	58370298	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagccatttgtcttccGcgagtttgggaaggacgttc	8	11	13	9	3	1	0	0	0	1	0	3	4	2	3	2	3	1	2	2	3	1	4	rs3826671	bycluster	TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	58370298	G	A	58370298	3	1	89	1	0	0	0	0	1	0	0	0	18019	1087	38	1	528	1	ZNF587	19	58370298	Missense_Mutation	SNP	G	TCGA-B0-4828-01A-01D-1361-10	7607793	58370298	758685	91	5228											
C20orf107	0	hgsc.bcm.edu	37	chr20	55108625	55108625	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtgatactgcagtgtcaAagagacagtgagaagaataa	16	10	11	4	0	1	4	1	2	0	3	1	6	1	4	0	0	2	1	0	0	5	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	55108625	A	C	55108625	3	2	89	1	0	0	0	0	1	0	0	0	2077	11	1	5	230	5	C20orf107	20	55108625	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10		55108625	7916895	92	5229											
IFNGR2	3460	hgsc.bcm.edu	37	chr21	34809269	34809269	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttctccaaacgctttgAaccaaagcatgggcctagcc	11	9	9	12	1	1	1	0	1	1	0	2	2	1	1	4	1	4	3	4	1	4	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	34809269	A	T	34809269	3	4	89	1	0	0	0	0	1	0	0	0	7550	259	9	5	1040	5	IFNGR2	21	34809269	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10		34809269	13320626	93	5230											
COL6A1	1291	hgsc.bcm.edu	37	chr21	47422537	47422537	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcaccatcccagggcCggcccggcctctcgctggtc	3	6	13	19	3	1	0	0	0	1	0	4	0	2	0	6	5	0	2	6	5	0	0	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	47422537	C	A	47422537	2	1	89	1	0	0	0	0	0	0	0	1	3699	643	23	4		4	COL6A1	21	47422537	Silent	SNP	C	TCGA-B0-4828-01A-01D-1361-10	12613268	47422537	707358	94	5231											
TOB2	10766	hgsc.bcm.edu	37	chr22	41832415	41832415	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgtcttctccaggaagAggctgttggcaccacctcca	8	9	12	12	0	2	1	0	0	2	1	4	2	3	2	4	4	0	3	4	4	1	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	41832415	A	T	41832415	3	4	89	1	0	0	0	0	1	0	0	0	16347	304	11	5	103	5	TOB2	22	41832415	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10		41832415	9472151	95	5232											
POLDIP3	84271	hgsc.bcm.edu	37	chr22	42988071	42988071	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcgagctcgcttgagggccCcacacacacagaaaagctcc	11	5	10	15	2	0	2	0	1	0	1	3	3	1	2	3	1	2	3	3	1	2	1	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	42988071	C	A	42988071	3	1	89	1	0	0	0	0	1	0	0	0	12195	623	22	4	366	4	POLDIP3	22	42988071	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	1155656	42988071	8316495	96	5233											
USP11	8237	hgsc.bcm.edu	37	chrX	47100845	47100845	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccattgtgccacatgtgtTcaaggtgtgactcaaccctg	8	12	9	12	0	2	1	2	1	0	0	3	1	3	1	3	1	2	1	3	1	2	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	47100845	T	A	47100845	3	1	89	1	0	0	0	0	1	0	0	0	17041	1783	62	5	1175	5	USP11	23	47100845	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10		47100845	108169715	97	5234											
GPR173	54328	hgsc.bcm.edu	37	chrX	53106303	53106303	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacgtgggcacctacaagtTtattcgggaggaggaccagt	10	9	14	8	2	0	1	0	1	0	0	1	4	0	4	2	4	1	2	2	4	3	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	53106303	T	G	53106303	3	3	89	1	0	0	0	0	1	0	0	0	6671	1841	64	5	502	5	GPR173	23	53106303	Missense_Mutation	SNP	T	TCGA-B0-4828-01A-01D-1361-10	6005458	53106303	102164257	98	5235											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53245090	53245090	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcttaggcgatgttgactCcaccttcacatccccaccta	8	11	7	15	1	2	1	1	1	1	0	4	2	4	1	5	2	0	1	5	2	2	4	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		A	53245090	C	A	53245090	4	1	89	1	0	0	0	0	0	1	0	0	8135	864	30	4	4010	4	KDM5C	23	53245090	Nonsense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	138787	53245090	102025470	99	5236											
KIF4A	24137	hgsc.bcm.edu	37	chrX	69637742	69637742	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caaacctgttttgcagtgttCctgcaagggctggtgtggaa	8	12	13	8	0	0	0	0	0	0	0	1	1	1	1	2	3	3	5	2	3	3	3	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		T	69637742	C	T	69637742	3	4	89	1	0	0	0	0	1	0	0	0	8303	855	30	2	3370	2	KIF4A	23	69637742	Missense_Mutation	SNP	C	TCGA-B0-4828-01A-01D-1361-10	16392652	69637742	85632818	100	5237											
BRWD3	254065	hgsc.bcm.edu;ucsc.edu	37	chrX	79939596	79939596	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaggactaccatagttTcctgcttccaaagtttcttt	9	15	6	11	0	1	1	0	0	1	1	4	2	4	2	4	1	2	3	4	1	3	6	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		C	79939596	T	C	79939596	2	2	89	1	0	0	0	0	0	0	0	1	1526	1770	62	3		3	BRWD3	23	79939596	Silent	SNP	T	TCGA-B0-4828-01A-01D-1361-10	10301854	79939596	75330964	101	5238											
SLC6A8	6535	hgsc.bcm.edu	37	chrX	152957540	152957540	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctacttctgtgtctggaAgggggtcaaatccacgggaa	9	10	14	8	1	4	0	1	0	3	0	5	2	5	2	1	5	1	0	1	5	4	2	novel		TCGA-B0-4828-01A-01D-1361-10	TCGA-B0-4828-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c2e7f8c5-12bc-45e8-8407-9a39b54f5a4d	ac585f57-7f5d-4217-9022-a618a644f8f7		G	152957540	A	G	152957540	3	3	89	1	0	0	0	0	1	0	0	0	14692	72	3	3	769	3	SLC6A8	23	152957540	Missense_Mutation	SNP	A	TCGA-B0-4828-01A-01D-1361-10	73017944	152957540	2313020	102	5239											
CCDC28B	79140	hgsc.bcm.edu	37	chr1	32669934	32669936	+	In_Frame_Del	DEL	AGA	AGA	-																															tgaggggctgccagaggagcAgaagaagacaatggctgacc																								novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		-	32669936	AGA	-	32669934	7	5	90	1	0	1	0	1	0	0	0	0	2803	188	7	0	489	0	CCDC28B	1	32669934	In_Frame_Del	DEL	AGA	TCGA-B0-4833-01A-01D-1373-10		32669934	216580687	1	5240											
GNG12	55970	hgsc.bcm.edu;ucsc.edu	37	chr1	68173341	68173341	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctccttgcctgggctataTtgttggtgcttgctgttttg	2	20	11	8	0	1	0	0	0	1	0	2	0	1	0	2	2	3	5	2	2	2	9	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	68173341	T	C	68173341	3	2	90	1	0	0	0	0	1	0	0	0	6525	1493	52	3	197	3	GNG12	1	68173341	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	35503407	68173341	181077280	2	5241											
ZZZ3	26009	hgsc.bcm.edu;ucsc.edu	37	chr1	78097613	78097613	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcctcttctgtaatgTgctgactggcactctctttg	5	17	7	12	0	4	1	0	1	4	0	6	1	5	1	1	1	1	3	1	1	1	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	78097613	T	C	78097613	3	2	90	1	0	0	0	0	1	0	0	0	18255	1696	59	3	1328	3	ZZZ3	1	78097613	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	9924272	78097613	171153008	3	5242											
USP33	23032	hgsc.bcm.edu;ucsc.edu	37	chr1	78183671	78183671	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctagcggaaatgaaacatggGtactgattttggtggaaaac	14	10	12	5	1	0	2	0	2	0	0	0	4	0	4	0	4	4	1	0	4	6	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	78183671	G	C	78183671	3	2	90	1	0	0	0	0	1	0	0	0	17063	1261	44	4	980	4	USP33	1	78183671	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	86058	78183671	171066950	4	5243											
NDUFS2	4720	hgsc.bcm.edu	37	chr1	161183974	161183974	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatattgtatttggagaagtAgatcggtgagcaggggagca	12	10	16	3	1	0	3	0	1	0	2	1	6	0	4	0	4	2	4	0	4	4	5	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	161183974	A	T	161183974	2	4	90	1	0	0	0	0	0	0	0	1	10292	407	15	5		5	NDUFS2	1	161183974	Silent	SNP	A	TCGA-B0-4833-01A-01D-1373-10	83000303	161183974	88066647	5	5244											
RCOR3	55758	hgsc.bcm.edu;ucsc.edu	37	chr1	211451524	211451524	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggaaaaaaactcgctctagGacaagtttgatggatcgcca	14	9	10	8	2	1	1	0	1	1	0	3	4	1	4	1	3	1	2	1	3	5	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	211451524	G	A	211451524	2	1	90	1	0	0	0	0	0	0	0	1	13186	1165	41	2		2	RCOR3	1	211451524	Silent	SNP	G	TCGA-B0-4833-01A-01D-1373-10	50267550	211451524	37799097	6	5245											
RBM34	23029	hgsc.bcm.edu	37	chr1	235324285	235324285	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagccgaccggtgccacCtctggaatggtgttcgccgc	5	7	13	16	5	1	0	0	0	1	0	2	2	1	1	6	3	2	1	6	3	1	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	235324285	C	A	235324285	3	1	90	1	0	0	0	0	1	0	0	0	13133	681	24	4	1202	4	RBM34	1	235324285	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	23872761	235324285	13926336	7	5246											
CENPA	1058	hgsc.bcm.edu;ucsc.edu	37	chr2	27015010	27015010	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctcaggcgcttcctccCatcaacacagtcggcggaga	8	9	10	14	3	2	1	2	0	0	1	5	2	4	1	2	3	2	2	2	3	1	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	27015010	C	A	27015010	3	1	90	1	0	0	0	0	1	0	0	0	3226	594	21	4	118	4	CENPA	2	27015010	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		27015010	216184363	8	5247											
XPO1	7514	hgsc.bcm.edu;ucsc.edu	37	chr2	61753621	61753621	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaagcatcaggatgctcCtttaaatgtgtcagtacttc	10	13	8	10	0	2	0	2	0	0	0	5	1	4	1	2	1	3	3	2	1	4	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	61753621	C	G	61753621	3	3	90	1	0	0	0	0	1	0	0	0	17444	680	24	4	3145	4	XPO1	2	61753621	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	34738611	61753621	181445752	9	5248											
EIF2AK3	9451	hgsc.bcm.edu;ucsc.edu	37	chr2	88892812	88892812	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcattgccactgcgaggtcCgacagctctaacagtttttt	8	13	8	12	2	2	0	1	0	1	0	3	2	3	0	2	1	4	2	2	1	1	5	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	88892812	C	T	88892812	3	4	90	1	0	0	0	0	1	0	0	0	4998	661	23	1	2661	1	EIF2AK3	2	88892812	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	27139191	88892812	154306561	10	5249											
CNGA3	1261	hgsc.bcm.edu;ucsc.edu	37	chr2	99013013	99013013	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaggaggtgctcaagagcctCccagacaagctgaaggctga	13	5	13	10	0	1	4	1	2	0	2	2	5	2	5	2	3	3	3	2	3	4	0	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	99013013	C	T	99013013	2	4	90	1	0	0	0	0	0	0	0	1	3598	842	30	2		2	CNGA3	2	99013013	Silent	SNP	C	TCGA-B0-4833-01A-01D-1373-10	10120201	99013013	144186360	11	5250											
MGAT5	4249	hgsc.bcm.edu;ucsc.edu	37	chr2	135160678	135160678	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catggtatcctcagtggacgGgacctgcagttccttcttcg	6	12	11	12	2	2	0	1	0	1	0	5	2	4	2	3	3	1	3	3	3	1	4	rs148494322	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	135160678	G	A	135160678	2	1	90	1	0	0	0	0	0	0	0	1	9548	1219	43	2		2	MGAT5	2	135160678	Silent	SNP	G	TCGA-B0-4833-01A-01D-1373-10	36147665	135160678	108038695	12	5251											
ZRANB3	84083	hgsc.bcm.edu;ucsc.edu	37	chr2	135988351	135988351	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcataatcgatgatatcTcttgcagctgtttttgtagg	8	18	8	7	1	2	1	1	1	1	0	4	2	2	1	0	1	2	4	0	1	3	7	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	135988351	T	C	135988351	2	2	90	1	0	0	0	0	0	0	0	1	18223	1548	54	3		3	ZRANB3	2	135988351	Silent	SNP	T	TCGA-B0-4833-01A-01D-1373-10	827673	135988351	107211022	13	5252											
MBD5	55777	hgsc.bcm.edu;ucsc.edu	37	chr2	149226840	149226840	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccagtgacatcccccgTgcacatgatggggactggaa	9	9	11	12	1	1	2	0	2	1	0	3	4	2	4	3	3	1	1	3	3	1	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	149226840	T	C	149226840	3	2	90	1	0	0	0	0	1	0	0	0	9347	1696	59	3	1342	3	MBD5	2	149226840	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	13238489	149226840	93972533	14	5253											
NEB	4703	hgsc.bcm.edu;ucsc.edu	37	chr2	152580850	152580850	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagcaggtacttatccttgGtgtcttcccagttctgcttg	6	15	10	10	0	2	0	0	0	2	0	4	1	4	0	2	2	3	4	2	2	3	6	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	152580850	G	T	152580850	3	4	90	1	0	0	0	0	1	0	0	0	10302	1261	44	4	25850	4	NEB	2	152580850	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	3354010	152580850	90618523	15	5254											
SLC4A10	57282	hgsc.bcm.edu	37	chr2	162799352	162799352	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatggcacattgaaggaatGgagggaatccaatatttctg	14	10	11	6	0	1	1	0	1	1	0	2	4	2	4	1	4	0	1	1	4	6	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	162799352	G	T	162799352	3	4	90	1	0	0	0	0	1	0	0	0	14653	1357	47	4	2195	4	SLC4A10	2	162799352	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	10218502	162799352	80400021	16	5255											
HGFAC	3083	hgsc.bcm.edu	37	chr4	3444511	3444511	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgacccctgcgatccccaCtatcctggtgacctctgtga	7	9	9	16	2	1	2	0	2	1	0	3	4	3	2	6	1	2	0	6	1	1	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	3444511	C	T	3444511	3	4	90	1	0	0	0	0	1	0	0	0	7086	565	20	2	176	2	HGFAC	4	3444511	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		3444511	187709765	17	5256											
D4S234E	0	hgsc.bcm.edu	37	chr4	4389386	4389386	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggaacaatttcgcagaGaagggcaccaagcagccgct	12	6	13	10	2	0	1	0	0	0	1	1	3	0	2	2	3	3	4	2	3	4	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	4389386	G	T	4389386	3	4	90	1	0	0	0	0	1	0	0	0	4214	933	33	4	32	4	D4S234E	4	4389386	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	944875	4389386	186764890	18	5257											
C4orf19	55286	hgsc.bcm.edu;ucsc.edu	37	chr4	37591832	37591832	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagtgaagtcttggtgcAgaaaaatgaccctcagaggc	13	7	13	8	0	2	4	1	2	1	2	2	5	2	4	1	2	2	2	1	2	3	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	37591832	A	C	37591832	3	2	90	1	0	0	0	0	1	0	0	0	2253	188	7	5	161	5	C4orf19	4	37591832	Missense_Mutation	SNP	A	TCGA-B0-4833-01A-01D-1373-10	33202446	37591832	153562444	19	5258											
ADH1A	124	hgsc.bcm.edu;ucsc.edu	37	chr4	100205772	100205772	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtcccctgaggattgctTacactggacagtgcaataca	11	9	11	10	0	0	1	0	1	0	0	1	3	1	3	2	3	4	2	2	3	3	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	100205772	T	G	100205772	2	3	90	1	0	0	0	0	0	0	0	1	307	1741	61	5		5	ADH1A	4	100205772	Silent	SNP	T	TCGA-B0-4833-01A-01D-1373-10	62613940	100205772	90948504	20	5259											
CCDC111	201973	hgsc.bcm.edu	37	chr4	185599493	185599493	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattttttcctatacagtcaAaagatgtttctgacgaatat	14	16	5	6	1	2	2	1	1	1	1	3	3	3	2	1	0	1	1	1	0	7	7	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	185599493	A	G	185599493	3	3	90	1	0	0	0	0	1	0	0	0	2748	15	1	3	974	3	CCDC111	4	185599493	Missense_Mutation	SNP	A	TCGA-B0-4833-01A-01D-1373-10	85393721	185599493	5554783	21	5260											
HSPB3	8988	hgsc.bcm.edu;ucsc.edu	37	chr5	53751717	53751717	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactgcaggctggatcatgCtttatatgcactgcctgggc	8	11	12	10	0	1	1	1	0	0	1	1	2	1	2	1	3	4	4	1	3	2	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	53751717	C	T	53751717	3	4	90	1	0	0	0	0	1	0	0	0	7421	797	28	2	100	2	HSPB3	5	53751717	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		53751717	127163543	22	5261											
ANKHD1-EIF4EBP3	404734	hgsc.bcm.edu	37	chr5	139865230	139865230	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccatactaatgtagtttcTtatctgttggattatccaaa	11	16	7	7	0	2	0	0	0	2	0	3	1	3	1	2	2	1	3	2	2	6	7	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	139865230	T	A	139865230	2	1	90	1	0	0	0	0	0	0	0	1	629	1596	56	5		5	ANKHD1-EIF4EBP3	5	139865230	Silent	SNP	T	TCGA-B0-4833-01A-01D-1373-10	86113513	139865230	41050030	23	5262											
GABRG2	2566	hgsc.bcm.edu;ucsc.edu	37	chr5	161576189	161576189	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaggtctcctatgtcaCagcgatggatctctttgtat	8	13	8	12	1	3	0	1	0	2	0	5	2	3	1	3	2	1	1	3	2	3	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	161576189	C	T	161576189	3	4	90	1	0	0	0	0	1	0	0	0	6172	478	17	2	1152	2	GABRG2	5	161576189	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	21710959	161576189	19339071	24	5263											
POLH	5429	hgsc.bcm.edu;ucsc.edu	37	chr6	43550136	43550136	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggagcagcggcaaaatcCtcatttgaggaataaacctt	14	9	10	8	1	1	1	1	1	0	0	2	3	2	3	2	3	3	2	2	3	5	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	43550136	C	A	43550136	3	1	90	1	0	0	0	0	1	0	0	0	12202	681	24	4	82	4	POLH	6	43550136	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		43550136	127564931	25	5264											
IYD	389434	hgsc.bcm.edu;ucsc.edu	37	chr6	150719261	150719261	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagggtgctcctgggccGccccgcacatgaaaagctgc	8	6	13	14	2	0	2	0	2	0	0	1	2	1	2	4	2	3	3	4	2	2	0	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	150719261	G	A	150719261	3	1	90	1	0	0	0	0	1	0	0	0	7932	1087	38	1	953	1	IYD	6	150719261	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	107169125	150719261	20395806	26	5265											
SCRN1	9805	hgsc.bcm.edu;ucsc.edu	37	chr7	29994903	29994903	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattggctcccatttctgctCcccagagccaggcgggtctg	5	10	11	15	1	2	1	0	0	2	1	4	1	4	1	4	3	2	2	4	3	0	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	29994903	C	A	29994903	3	1	90	1	0	0	0	0	1	0	0	0	13940	855	30	4	1035	4	SCRN1	7	29994903	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		29994903	129143760	27	5266											
C8orf34	116328	hgsc.bcm.edu;ucsc.edu	37	chr8	69351754	69351754	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattaatgaccaagttaatAactgagacacctgaccagcc	16	8	7	10	0	0	3	0	3	0	1	0	5	0	3	4	0	2	1	4	0	5	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	69351754	A	G	69351754	3	3	90	1	0	0	0	0	1	0	0	0	2422	352	13	3	17	3	C8orf34	8	69351754	Missense_Mutation	SNP	A	TCGA-B0-4833-01A-01D-1373-10		69351754	77012268	28	5267											
UBR5	51366	hgsc.bcm.edu	37	chr8	103283417	103283417	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actactcctcctcatttcccTttctctctccctttcccggt	3	17	2	19	1	3	0	1	0	2	0	9	0	7	0	5	1	1	0	5	1	1	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	103283417	T	C	103283417	3	2	90	1	0	0	0	0	1	0	0	0	16904	1608	56	3	1413	3	UBR5	8	103283417	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	33931663	103283417	43080605	29	5268											
PHRF1	57661	hgsc.bcm.edu;ucsc.edu	37	chr11	611078	611078	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgcgcaaggccgtgcAgaaggtgggctgtgtgcgag	7	7	17	10	3	0	1	0	0	0	1	1	2	1	1	2	3	3	3	2	3	2	0	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	611078	A	C	611078	3	2	90	1	0	0	0	0	1	0	0	0	11861	188	7	5	4861	5	PHRF1	11	611078	Missense_Mutation	SNP	A	TCGA-B0-4833-01A-01D-1373-10		611078	134395438	30	5269											
NAP1L4	4676	hgsc.bcm.edu;ucsc.edu	37	chr11	2997279	2997279	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgtagctggaaggggtgtGagggacattgtcaagtcgct	9	10	17	5	1	1	1	1	1	0	0	2	4	1	3	0	4	1	3	0	4	3	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	2997279	G	A	2997279	3	1	90	1	0	0	0	0	1	0	0	0	10159	1290	45	2	1027	2	NAP1L4	11	2997279	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	2386201	2997279	132009237	31	5270											
LUZP2	338645	hgsc.bcm.edu;ucsc.edu	37	chr11	24753686	24753686	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttaaaaaacgatgagcagtCtgccaaaactgatgttcaga	16	9	8	8	1	2	3	1	2	1	1	2	4	2	3	1	0	4	2	1	0	5	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	24753686	C	G	24753686	3	3	90	1	0	0	0	0	1	0	0	0	9087	913	32	4	213	4	LUZP2	11	24753686	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	21756407	24753686	110252830	32	5271											
MADD	8567	hgsc.bcm.edu;ucsc.edu	37	chr11	47330867	47330867	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttatgggaccaaatgcaaTtctgggaagatgccttctta	11	13	9	8	0	2	1	0	0	2	1	2	3	2	3	2	2	2	1	2	2	5	5	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	47330867	T	G	47330867	3	3	90	1	0	0	0	0	1	0	0	0	9152	1493	52	5	4069	5	MADD	11	47330867	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	22577181	47330867	87675649	33	5272											
MYBPC3	4607	hgsc.bcm.edu;ucsc.edu	37	chr11	47371574	47371574	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcacactcacccacggtcaCctcgccatcctgtggccgca	7	7	7	20	3	3	0	3	0	0	0	5	0	4	0	5	2	0	1	5	2	0	0	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	47371574	C	T	47371574	3	4	90	1	0	0	0	0	1	0	0	0	10013	507	18	2	3445	2	MYBPC3	11	47371574	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	40707	47371574	87634942	34	5273											
GYS2	2998	hgsc.bcm.edu;ucsc.edu	37	chr12	21699315	21699315	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcatagtatgatggaaaTactccaagatgacaacctct	14	11	8	8	0	2	3	1	2	1	1	3	4	3	4	2	2	2	2	2	2	6	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	21699315	T	A	21699315	2	1	90	1	0	0	0	0	0	0	0	1	6913	1393	49	5		5	GYS2	12	21699315	Silent	SNP	T	TCGA-B0-4833-01A-01D-1373-10		21699315	112152580	35	5274											
LIMA1	51474	hgsc.bcm.edu;ucsc.edu	37	chr12	50642463	50642463	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttgttcttgttgacaagAgaaagttctttggctgttac	9	16	10	6	0	2	2	0	1	2	1	2	4	2	2	0	1	1	5	0	1	3	7	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	50642463	A	C	50642463	2	2	90	1	0	0	0	0	0	0	0	1	8796	291	11	5		5	LIMA1	12	50642463	Silent	SNP	A	TCGA-B0-4833-01A-01D-1373-10	28943148	50642463	83209432	36	5275											
ZBTB39	9880	hgsc.bcm.edu;ucsc.edu	37	chr12	57396664	57396664	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcctttgtgcacaccaaCatgtttgctcatgaggttaa	9	13	9	10	0	1	1	1	1	0	0	1	1	1	1	2	1	4	5	2	1	2	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	57396664	C	T	57396664	3	4	90	1	0	0	0	0	1	0	0	0	17539	478	17	2	104	2	ZBTB39	12	57396664	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	6754201	57396664	76455231	37	5276											
SLC41A2	84102	hgsc.bcm.edu;ucsc.edu	37	chr12	105239709	105239709	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgtaaatggaggtaggtAgaaatcctgctagcctgaat	13	11	11	6	0	0	2	0	1	0	1	1	3	1	3	2	3	2	4	2	3	8	5	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	105239709	A	G	105239709	2	3	90	1	0	0	0	0	0	0	0	1	14632	407	15	3		3	SLC41A2	12	105239709	Silent	SNP	A	TCGA-B0-4833-01A-01D-1373-10	47843045	105239709	28612186	38	5277											
TMTC4	84899	hgsc.bcm.edu;ucsc.edu	37	chr13	101277909	101277909	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcactatgcctagattcatCcacgcagcggcaaagtctgg	10	9	10	12	2	2	1	1	0	1	1	3	1	3	1	2	2	3	3	2	2	3	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	101277909	C	T	101277909	4	4	90	1	0	0	0	0	0	1	0	0	16262	856	30	2	586	2	TMTC4	13	101277909	Nonsense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		101277909	13891969	39	5278											
FLJ10357	0	hgsc.bcm.edu;ucsc.edu	37	chr14	21553992	21553992	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggacaagttctattgccCagctgctgtggagacaggca	10	9	13	9	0	1	1	0	0	1	1	1	3	1	2	1	3	3	4	1	3	2	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	21553992	C	A	21553992	3	1	90	1	0	0	0	0	1	0	0	0	5926	595	21	4	4179	4	FLJ10357	14	21553992	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		21553992	85795548	40	5279											
THBS1	7057	hgsc.bcm.edu	37	chr15	39879677	39879677	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccgatgtgagggctcctCggtccagacacggacctgcc	8	6	12	15	3	0	2	0	1	0	1	3	4	2	3	5	3	2	1	5	3	1	0	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	39879677	C	A	39879677	4	1	90	1	0	0	0	0	0	1	0	0	15852	893	31	4	1276	4	THBS1	15	39879677	Nonsense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		39879677	62651715	41	5280											
DMXL2	23312	hgsc.bcm.edu;ucsc.edu	37	chr15	51773209	51773209	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacatcaacttcagtatCaccttcaggatcatcctctt	12	13	3	13	0	7	0	6	0	1	0	8	1	8	1	2	1	1	1	2	1	3	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	51773209	C	A	51773209	3	1	90	1	0	0	0	0	1	0	0	0	4595	826	29	4	3099	4	DMXL2	15	51773209	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	11893532	51773209	50758183	42	5281											
SCG3	29106	hgsc.bcm.edu	37	chr15	51993432	51993432	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acccaggaggaaagacagatGaacccaaaggtatgggattg	16	5	13	7	0	0	3	0	1	0	2	0	6	0	6	2	4	1	1	2	4	4	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	51993432	G	A	51993432	3	1	90	1	0	0	0	0	1	0	0	0	13894	1291	45	2	1236	2	SCG3	15	51993432	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	220223	51993432	50537960	43	5282											
CSNK1G1	53944	hgsc.bcm.edu;ucsc.edu	37	chr15	64472640	64472641	+	Frame_Shift_Ins	INS	-	-	T																															aacattcagctctccattggINSttgagctaaccacctgaaac																								novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	64472641	-	T	64472640	7	5	90	1	0	1	1	0	0	0	0	0	3954	1261	44	0	155	0	CSNK1G1	15	64472640	Frame_Shift_Ins	INS	-	TCGA-B0-4833-01A-01D-1373-10	12479208	64472640	38058752	44	5283											
FAM86A	196483	hgsc.bcm.edu;ucsc.edu	37	chr16	5143526	5143526	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaccgggcatatttgaCggacggcgggtgcttcacac	10	7	13	11	4	1	1	1	1	0	0	1	2	1	2	1	4	2	3	1	4	2	3	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	5143526	C	T	5143526	3	4	90	1	0	0	0	0	1	0	0	0	5643	536	19	1	817	1	FAM86A	16	5143526	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		5143526	85211227	45	5284											
TAOK2	9344	hgsc.bcm.edu;ucsc.edu	37	chr16	29989603	29989603	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcatcaaggaggtgcggTtcttacagaagctccggcat	11	9	11	10	2	3	1	2	0	1	1	4	2	4	2	1	4	3	3	1	4	3	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	29989603	T	C	29989603	3	2	90	1	0	0	0	0	1	0	0	0	15547	1725	60	3	245	3	TAOK2	16	29989603	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	24846077	29989603	60365150	46	5285											
MMP2	4313	hgsc.bcm.edu;ucsc.edu	37	chr16	55525713	55525713	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcctccctgcaaccctcagGgtacagcctgttcctcgtgg	5	10	9	17	1	1	0	1	0	0	0	5	0	4	0	5	2	4	3	5	2	2	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	55525713	G	A	55525713	3	1	90	1	0	0	0	0	1	0	0	0	9658	1246	43	2	1218	2	MMP2	16	55525713	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	25536110	55525713	34829040	47	5286											
KARS	3735	hgsc.bcm.edu;ucsc.edu	37	chr16	75675563	75675563	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttctcactgagctcttTctgtttggcctccttctctg	2	19	7	13	0	4	1	1	1	4	0	7	1	5	1	2	1	1	3	2	1	0	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	75675563	T	A	75675563	4	1	90	1	0	0	0	0	0	1	0	0	7980	1792	62	5	1724	5	KARS	16	75675563	Nonsense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	20149850	75675563	14679190	48	5287											
KSR1	8844	hgsc.bcm.edu;ucsc.edu	37	chr17	25936231	25936231	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtcctccagggcatgggaTatcttcatgccaagggcatc	8	10	12	11	0	2	0	1	0	1	0	5	1	4	1	3	3	1	2	3	3	2	2	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	25936231	T	A	25936231	3	1	90	1	0	0	0	0	1	0	0	0	8581	1406	49	5	1810	5	KSR1	17	25936231	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10		25936231	55258979	49	5288											
KRT35	3886	hgsc.bcm.edu;ucsc.edu	37	chr17	39635663	39635663	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccacctgggcctccaggTcagacttgcacagggtcagg	8	7	12	14	0	2	1	2	0	0	1	4	1	4	1	4	4	1	1	4	4	0	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	39635663	T	C	39635663	3	2	90	1	0	0	0	0	1	0	0	0	8472	1667	58	3	740	3	KRT35	17	39635663	Missense_Mutation	SNP	T	TCGA-B0-4833-01A-01D-1373-10	13699432	39635663	41559547	50	5289											
ACLY	47	hgsc.bcm.edu;ucsc.edu	37	chr17	40039402	40039402	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagaacatggtggcacacgtCccgatgcaccagcagacgat	12	5	12	12	3	0	2	0	0	0	2	1	5	1	2	2	2	3	3	2	2	1	0	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	40039402	C	T	40039402	2	4	90	1	0	0	0	0	0	0	0	1	143	842	30	2		2	ACLY	17	40039402	Silent	SNP	C	TCGA-B0-4833-01A-01D-1373-10	403739	40039402	41155808	51	5290											
CA10	56934	hgsc.bcm.edu;ucsc.edu	37	chr17	49726559	49726559	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttttatatgttattctTgtgatagtatctctgttgag	8	22	7	4	0	2	2	0	2	2	0	3	2	2	2	0	0	1	3	0	0	6	10	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	49726559	T	G	49726559	2	3	90	1	0	0	0	0	0	0	0	1	2511	1799	63	5		5	CA10	17	49726559	Silent	SNP	T	TCGA-B0-4833-01A-01D-1373-10	9687157	49726559	31468651	52	5291											
LPPR3	79948	hgsc.bcm.edu	37	chr19	821530	821530	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcgtcatgctgtccttcggGatcttgttcttctccttggt	3	17	10	11	2	4	0	1	0	3	0	7	1	5	1	2	2	2	2	2	2	0	5	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		A	821530	G	A	821530	2	1	90	1	0	0	0	0	0	0	0	1	8926	1164	41	2		2	LPPR3	19	821530	Silent	SNP	G	TCGA-B0-4833-01A-01D-1373-10		821530	58307453	53	5292											
PIP5K1C	23396	hgsc.bcm.edu;ucsc.edu	37	chr19	3641752	3641752	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccacgctgcacgcaggctCcacctgcactgtaatctgct	7	9	8	17	2	1	0	0	0	1	0	3	0	3	0	3	1	3	7	3	1	1	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	3641752	C	T	3641752	3	4	90	1	0	0	0	0	1	0	0	0	11941	864	30	2	284	2	PIP5K1C	19	3641752	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10	2820222	3641752	55487231	54	5293											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9059304	9059304	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgatgagtccaaggtaaagGtaccctgcgaggtagcccca	11	8	12	10	1	0	2	0	2	0	0	1	3	1	2	4	3	3	3	4	3	5	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	9059304	G	T	9059304	3	4	90	1	0	0	0	0	1	0	0	0	9973	1261	44	4	15709	4	MUC16	19	9059304	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	5417552	9059304	50069679	55	5294											
TNPO2	30000	hgsc.bcm.edu;ucsc.edu	37	chr19	12829966	12829966	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgttgttcttgaggatgaGgccactgagagagcgcgttg	8	10	15	8	3	1	4	0	3	1	1	1	6	1	5	1	2	1	3	1	2	0	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	12829966	G	C	12829966	3	2	90	1	0	0	0	0	1	0	0	0	16335	1000	35	4	2575	4	TNPO2	19	12829966	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	3770662	12829966	46299017	56	5295											
SMOX	54498	hgsc.bcm.edu	37	chr20	4158152	4158152	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattccaagaatggcgtggcCtgctaccttaccaaccacgg	10	9	9	13	2	0	1	0	0	0	1	1	1	1	1	5	3	4	1	5	3	6	4	rs6107418	bycluster;byfrequency;by1000genomes	TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		G	4158152	C	G	4158152	2	3	90	1	0	0	0	0	0	0	0	1	14805	668	24	4		4	SMOX	20	4158152	Silent	SNP	C	TCGA-B0-4833-01A-01D-1373-10		4158152	58867368	57	5296											
C20orf79	0	hgsc.bcm.edu;ucsc.edu	37	chr20	18794787	18794787	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagacactgtctttacaAtcccggagtctgtctttatg	9	13	8	11	1	3	1	0	0	3	1	4	2	4	2	1	1	2	1	1	1	3	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	18794787	A	T	18794787	3	4	90	1	0	0	0	0	1	0	0	0	2119	101	4	5	330	5	C20orf79	20	18794787	Missense_Mutation	SNP	A	TCGA-B0-4833-01A-01D-1373-10	14636635	18794787	44230733	58	5297											
XRN2	22803	hgsc.bcm.edu	37	chr20	21314823	21314823	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagagaaaggatgatgaGgtaaagtgtttctattgcag	17	10	12	2	0	1	3	0	2	1	1	1	5	1	4	0	2	1	3	0	2	6	4	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		C	21314823	G	C	21314823	3	2	90	1	0	0	0	0	1	0	0	0	17459	1014	35	4	1283	4	XRN2	20	21314823	Missense_Mutation	SNP	G	TCGA-B0-4833-01A-01D-1373-10	2520036	21314823	41710697	59	5298											
GAB4	128954	hgsc.bcm.edu	37	chr22	17472817	17472817	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagatgctctggacccactCattcatgtcctccctggtct	7	12	7	15	0	4	1	2	0	2	1	6	2	6	2	3	2	1	1	3	2	0	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	17472817	C	T	17472817	3	4	90	1	0	0	0	0	1	0	0	0	6151	835	29	2	1336	2	GAB4	22	17472817	Missense_Mutation	SNP	C	TCGA-B0-4833-01A-01D-1373-10		17472817	33831749	60	5299											
CD99	4267	hgsc.bcm.edu	37	chrX	2640714	2640714	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggcgtttcaggtggagaAggtacagttatcttgttttc	8	15	13	5	1	2	1	1	0	1	1	3	3	2	1	0	4	1	4	0	4	3	6	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	2640714	A	T	2640714	3	4	90	1	0	0	0	0	1	0	0	0	3050	86	3	5	331	5	CD99	23	2640714	Missense_Mutation	SNP	A	TCGA-B0-4833-01A-01D-1373-10		2640714	152629846	61	5300											
CD99L2	83692	hgsc.bcm.edu;ucsc.edu	37	chrX	149963727	149963727	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcatctcgatcatttcGatcatccagggcatcagcca	10	10	7	14	2	5	0	4	0	1	0	8	2	6	0	3	1	1	1	3	1	0	1	novel		TCGA-B0-4833-01A-01D-1373-10	TCGA-B0-4833-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dcdaa6ac-5b93-4c10-a2e0-2833d22d6e33	1123df3c-3b31-4cbb-a882-62bf66676e1e		T	149963727	G	T	149963727	2	4	90	1	0	0	0	0	0	0	0	1	3051	1066	37	4		4	CD99L2	23	149963727	Silent	SNP	G	TCGA-B0-4833-01A-01D-1373-10	147323013	149963727	5306833	62	5301											
VHL	7428	hgsc.bcm.edu	37	chr3	10183749	10183750	+	Frame_Shift_Ins	INS	-	-	G																															aactcgcgcgagccctcccaINSggtcatcttctgcaatcgca																								novel		TCGA-B0-4833-01A-01W-1369-10	TCGA-B0-4833-11A-01W-1369-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	af3730c7-3843-41a1-ab79-9a4ad490f44f	a66c6d9c-b480-4268-882f-f99d7ff875b9		G	10183750	-	G	10183749	7	5	91	1	0	1	1	0	0	0	0	0	17161	188	7	0	220	0	VHL	3	10183749	Frame_Shift_Ins	INS	-	TCGA-B0-4833-01A-01W-1369-10		10183749	187838681	1	5302											
CHD5	26038	hgsc.bcm.edu;ucsc.edu	37	chr1	6228284	6228284	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcttaggaaggctcaCgggctccacagggaaaaagt	11	9	11	10	1	3	0	1	0	2	0	4	2	4	2	1	4	0	2	1	4	4	3	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	6228284	C	T	6228284	3	4	92	1	0	0	0	0	1	0	0	0	3328	536	19	1	5891	1	CHD5	1	6228284	Missense_Mutation	SNP	C	TCGA-B0-4836-01A-01D-1373-10		6228284	243022337	1	5303											
RTCD1	0	hgsc.bcm.edu;ucsc.edu	37	chr1	100741273	100741273	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcatttggcaatggaaatgGaataatgtgagacaatactt	16	11	10	4	0	0	1	0	1	0	1	0	4	0	3	0	3	2	2	0	3	6	4	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		A	100741273	G	A	100741273	3	1	92	1	0	0	0	0	1	0	0	0	13720	1174	41	2	803	2	RTCD1	1	100741273	Missense_Mutation	SNP	G	TCGA-B0-4836-01A-01D-1373-10	94512989	100741273	148509348	2	5304											
SLC22A15	55356	hgsc.bcm.edu	37	chr1	116534699	116534699	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcactggttggggccacGccatcctaccactgggacct	7	9	11	14	1	0	0	0	0	0	0	1	1	1	1	5	4	2	2	5	4	1	3	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		C	116534699	G	C	116534699	2	2	92	1	0	0	0	0	0	0	0	1	14448	1074	38	4		4	SLC22A15	1	116534699	Silent	SNP	G	TCGA-B0-4836-01A-01D-1373-10	15793426	116534699	132715922	3	5305											
MAT2A	4144	hgsc.bcm.edu;ucsc.edu	37	chr2	85769804	85769804	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtcgaccgttcagctgcTtatgctgctcgttgggtggc	5	12	14	10	3	1	0	1	0	0	0	3	1	1	0	1	3	4	6	1	3	2	3	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		C	85769804	T	C	85769804	2	2	92	1	0	0	0	0	0	0	0	1	9330	1596	56	3		3	MAT2A	2	85769804	Silent	SNP	T	TCGA-B0-4836-01A-01D-1373-10		85769804	157429569	4	5306											
SNED1	25992	hgsc.bcm.edu	37	chr2	241991875	241991875	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagggtacatgggacgccgGtgccaggcaggtgagagggt	8	5	20	8	2	0	1	0	1	0	1	0	3	0	2	2	6	2	3	2	6	1	1	rs57214830	bycluster;by1000genomes	TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		A	241991875	G	A	241991875	2	1	92	1	0	0	0	0	0	0	0	1	14847	1248	44	2		2	SNED1	2	241991875	Silent	SNP	G	TCGA-B0-4836-01A-01D-1373-10	156222071	241991875	1207498	5	5307											
DLEC1	9940	hgsc.bcm.edu	37	chr3	38139284	38139284	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcagtttggtctgctccGcctggggcagaaagccacaa	8	9	11	13	1	2	1	1	0	1	1	3	1	3	1	4	3	2	3	4	3	2	2	rs183009787	by1000genomes;alternate_allele	TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		C	38139284	G	C	38139284	3	2	92	1	0	0	0	0	1	0	0	0	4552	1087	38	4	2685	4	DLEC1	3	38139284	Missense_Mutation	SNP	G	TCGA-B0-4836-01A-01D-1373-10		38139284	159883146	6	5308											
KBTBD12	166348	hgsc.bcm.edu;ucsc.edu	37	chr3	127642834	127642834	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtatcacggaaaacctatttCatctcatctcccaagtacgg	12	11	6	12	2	4	0	3	0	2	0	6	1	4	1	2	2	2	2	2	2	6	4	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	127642834	C	G	127642834	3	3	92	1	0	0	0	0	1	0	0	0	7991	825	29	4	932	4	KBTBD12	3	127642834	Missense_Mutation	SNP	C	TCGA-B0-4836-01A-01D-1373-10	89503550	127642834	70379596	7	5309											
NAA15	80155	hgsc.bcm.edu;ucsc.edu	37	chr4	140282956	140282956	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttacccttagatcatatgtgGacttattaaaactagaagat	15	14	6	6	0	1	3	1	0	0	3	1	4	1	4	1	1	2	0	1	1	8	6	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		A	140282956	G	A	140282956	3	1	92	1	0	0	0	0	1	0	0	0	10118	1174	41	2	1672	2	NAA15	4	140282956	Missense_Mutation	SNP	G	TCGA-B0-4836-01A-01D-1373-10		140282956	50871320	8	5310											
RAPGEF6	51735	hgsc.bcm.edu	37	chr5	130815212	130815212	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggcattacctacctaaatAgctttggaggcaagatacta	13	11	8	9	1	0	1	0	0	0	1	1	2	0	2	2	3	4	3	2	3	8	7	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	130815212	A	G	130815212	3	3	92	1	0	0	0	0	1	0	0	0	13050	420	15	3	3268	3	RAPGEF6	5	130815212	Missense_Mutation	SNP	A	TCGA-B0-4836-01A-01D-1373-10		130815212	50100048	9	5311											
FAM153C	653316	hgsc.bcm.edu	37	chr5	177473898	177473899	+	Frame_Shift_Del	DEL	CT	CT	-																															agcaagtccttcctctgcacCtgcagaagaagcaacagaaa																								novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		-	177473899	CT	-	177473898	7	5	92	1	0	1	0	1	0	0	0	0	5462	681	24	0	329	0	FAM153C	5	177473898	Frame_Shift_Del	DEL	CT	TCGA-B0-4836-01A-01D-1373-10	46658686	177473898	3441362	10	5312											
KIAA0240	0	hgsc.bcm.edu;ucsc.edu	37	chr6	42832830	42832830	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaagcatcctagcagattcGcacttggagatgacgtgtaa	12	10	10	9	2	1	3	1	1	0	2	3	4	2	3	1	1	2	4	1	1	3	4	rs140608307	byfrequency;alternate_allele	TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	42832830	G	T	42832830	2	4	92	1	0	0	0	0	0	0	0	1	8164	1074	38	4		4	KIAA0240	6	42832830	Silent	SNP	G	TCGA-B0-4836-01A-01D-1373-10		42832830	128282237	11	5313											
PKHD1	5314	hgsc.bcm.edu	37	chr6	51524622	51524622	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacatcaacaaaaccactAgtcacagatacaactggata	20	6	5	10	0	2	2	2	0	0	2	2	3	2	3	1	1	4	0	1	1	8	3	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	51524622	A	G	51524622	2	3	92	1	0	0	0	0	0	0	0	1	11971	407	15	3		3	PKHD1	6	51524622	Silent	SNP	A	TCGA-B0-4836-01A-01D-1373-10	8691792	51524622	119590445	12	5314											
UNC93A	54346	hgsc.bcm.edu;ucsc.edu	37	chr6	167705042	167705042	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcttctctttacagcctAtggaggtctgcagagcctgc	6	12	10	13	0	2	1	0	0	2	1	3	2	2	2	3	2	6	2	3	2	2	4	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	167705042	A	G	167705042	3	3	92	1	0	0	0	0	1	0	0	0	16995	449	16	3	67	3	UNC93A	6	167705042	Missense_Mutation	SNP	A	TCGA-B0-4836-01A-01D-1373-10	116180420	167705042	3410025	13	5315											
SLC18A2	6571	hgsc.bcm.edu	37	chr10	119029905	119029905	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggctcatgacaattattggGataattgatattctttttgc	10	18	8	5	0	2	2	1	2	1	0	2	3	2	3	0	2	1	1	0	2	4	8	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	119029905	G	T	119029905	2	4	92	1	0	0	0	0	0	0	0	1	14428	1161	41	4		4	SLC18A2	10	119029905	Silent	SNP	G	TCGA-B0-4836-01A-01D-1373-10		119029905	16504842	14	5316											
TTC17	55761	hgsc.bcm.edu	37	chr11	43427495	43427495	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgccagatgaccatgcAcgaaaagtaaggctcactta	17	7	8	9	1	1	2	1	1	0	1	1	3	1	2	2	1	2	3	2	1	6	2	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		C	43427495	A	C	43427495	2	2	92	1	0	0	0	0	0	0	0	1	16683	146	6	5		5	TTC17	11	43427495	Silent	SNP	A	TCGA-B0-4836-01A-01D-1373-10		43427495	91579021	15	5317											
C11orf85	283129	hgsc.bcm.edu	37	chr11	64717341	64717341	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctctcccatttgcttttatCtggaaaatggtgctaaggag	9	15	9	8	0	2	0	0	0	2	0	4	2	3	2	1	3	2	2	1	3	4	4	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	64717341	C	T	64717341	5	4	92	1	0	0	0	0	0	0	1	0	1668	927	32	2	447	2	C11orf85	11	64717341	Splice_Site	SNP	C	TCGA-B0-4836-01A-01D-1373-10	21289846	64717341	70289175	16	5318											
UHRF1BP1L	23074	hgsc.bcm.edu;ucsc.edu	37	chr12	100433530	100433530	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaatcgcttttgacattTtctttcaaatcatttccagt	10	18	4	9	1	3	2	2	2	1	0	5	2	4	2	1	0	0	1	1	0	2	6	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	100433530	T	G	100433530	3	3	92	1	0	0	0	0	1	0	0	0	16968	1838	64	5	283	5	UHRF1BP1L	12	100433530	Missense_Mutation	SNP	T	TCGA-B0-4836-01A-01D-1373-10		100433530	33418365	17	5319											
SLITRK6	84189	hgsc.bcm.edu;ucsc.edu	37	chr13	86369855	86369855	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtagggcaaatagattcCttctttagtctactgagtat	11	14	10	6	0	2	2	0	1	2	1	3	3	3	3	1	2	1	3	1	2	6	8	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	86369855	C	T	86369855	2	4	92	1	0	0	0	0	0	0	0	1	14749	680	24	2		2	SLITRK6	13	86369855	Silent	SNP	C	TCGA-B0-4836-01A-01D-1373-10		86369855	28800023	18	5320											
FSCB	84075	hgsc.bcm.edu	37	chr14	44973866	44973866	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaccttccaaaacaacCgatcctaattttactgctgg	11	12	5	13	1	1	0	1	0	0	0	3	1	3	0	4	1	4	2	4	1	5	5	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		A	44973866	C	A	44973866	2	1	92	1	0	0	0	0	0	0	0	1	6066	639	23	4		4	FSCB	14	44973866	Silent	SNP	C	TCGA-B0-4836-01A-01D-1373-10		44973866	62375674	19	5321											
CIITA	4261	hgsc.bcm.edu;ucsc.edu	37	chr16	10997702	10997702	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgctccatcagccactgAcctgcccagcatgcctgaac	8	8	7	18	1	1	2	1	2	0	0	3	2	2	2	5	0	5	2	5	0	1	1	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	10997702	A	T	10997702	3	4	92	1	0	0	0	0	1	0	0	0	3428	275	10	5	921	5	CIITA	16	10997702	Missense_Mutation	SNP	A	TCGA-B0-4836-01A-01D-1373-10		10997702	79357051	20	5322											
KCTD19	146212	hgsc.bcm.edu	37	chr16	67327642	67327642	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgggctgggaagcagcctCgcttcccaaggggagctgca	7	6	16	12	1	0	0	0	0	0	0	2	2	1	2	2	4	4	6	2	4	2	1	rs145649592	by1000genomes	TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		T	67327642	C	T	67327642	3	4	92	1	0	0	0	0	1	0	0	0	8106	893	31	1	777	1	KCTD19	16	67327642	Missense_Mutation	SNP	C	TCGA-B0-4836-01A-01D-1373-10	56329940	67327642	23027111	21	5323											
RANGRF	29098	hgsc.bcm.edu	37	chr17	8193196	8193196	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accctggagcctgggtgactTtgaacagctggtgaccagtc	8	9	13	11	0	0	3	0	3	0	0	1	4	0	4	3	3	3	1	3	3	1	1	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	8193196	T	G	8193196	3	3	92	1	0	0	0	0	1	0	0	0	13036	1841	64	5	609	5	RANGRF	17	8193196	Missense_Mutation	SNP	T	TCGA-B0-4836-01A-01D-1373-10		8193196	73002014	22	5324											
FLII	2314	hgsc.bcm.edu	37	chr17	18156613	18156613	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccccagccctgcccagcAcctgcagagactttcaggga	9	6	10	16	0	1	1	1	0	0	1	1	3	1	2	5	1	5	2	5	1	1	2	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		C	18156613	A	C	18156613	5	2	92	1	0	0	0	0	0	0	1	0	5925	173	6	5	2882	5	FLII	17	18156613	Splice_Site	SNP	A	TCGA-B0-4836-01A-01D-1373-10	9963417	18156613	63038597	23	5325											
MYCBPAP	84073	hgsc.bcm.edu;ucsc.edu	37	chr17	48600354	48600354	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccctagaaggcgagaaaAcctcctcagaactgactgtg	15	6	9	11	1	1	4	1	1	0	3	2	5	2	4	3	1	3	0	3	1	6	1	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		C	48600354	A	C	48600354	3	2	92	1	0	0	0	0	1	0	0	0	10019	43	2	5	1483	5	MYCBPAP	17	48600354	Missense_Mutation	SNP	A	TCGA-B0-4836-01A-01D-1373-10	30443741	48600354	32594856	24	5326											
FAM187B	148109	hgsc.bcm.edu	37	chr19	35719577	35719577	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcagcagccacagcatggGtggcatggtggactggggct	8	6	18	9	0	0	0	0	0	0	0	0	2	0	1	1	6	4	5	1	6	0	0	rs34873156	bycluster;byfrequency;by1000genomes	TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		A	35719577	G	A	35719577	3	1	92	1	0	0	0	0	1	0	0	0	5513	1261	44	2	1110	2	FAM187B	19	35719577	Missense_Mutation	SNP	G	TCGA-B0-4836-01A-01D-1373-10		35719577	23409406	25	5327											
ZNF343	79175	hgsc.bcm.edu;ucsc.edu	37	chr20	2464883	2464883	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttcatactctctacagtTgattgctccaaatctcaagg	10	13	7	11	1	3	1	2	1	2	0	6	1	4	1	1	2	3	3	1	2	4	5	novel		TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		A	2464883	T	A	2464883	3	1	92	1	0	0	0	0	1	0	0	0	17857	1812	63	5	1079	5	ZNF343	20	2464883	Missense_Mutation	SNP	T	TCGA-B0-4836-01A-01D-1373-10		2464883	60560637	26	5328											
ASMTL	8623	hgsc.bcm.edu	37	chrX	1537002	1537002	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctcgggccagtgcaccCgtgcagcctgcggggaagca	7	5	15	14	3	1	0	0	0	1	0	2	1	1	1	3	3	6	4	3	3	1	0	rs71298853	alternate_allele	TCGA-B0-4836-01A-01D-1373-10	TCGA-B0-4836-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9ae185e8-5361-48e7-932e-618ffb3fa8a4	797b658e-45e3-4663-a14d-272a16f7e321		G	1537002	C	G	1537002	2	3	92	1	0	0	0	0	0	0	0	1	1046	639	23	4		4	ASMTL	23	1537002	Silent	SNP	C	TCGA-B0-4836-01A-01D-1373-10		1537002	153733558	27	5329											
PLCH2	9651	hgsc.bcm.edu	37	chr1	2421272	2421272	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaggacagtgctgatgAgattgacgatgactgcaagc	12	9	14	6	1	0	6	0	6	0	1	0	9	0	7	0	1	3	2	0	1	1	1	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	2421272	A	T	2421272	3	4	93	1	0	0	0	0	1	0	0	0	12038	304	11	5	1519	5	PLCH2	1	2421272	Missense_Mutation	SNP	A	TCGA-B0-4837-01A-01D-1373-10		2421272	246829349	1	5330											
CHD5	26038	hgsc.bcm.edu	37	chr1	6171886	6171886	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgccggtgccagatgtcgTagattttcccagaggataca	9	9	13	10	3	0	3	0	0	0	3	2	4	1	4	3	3	2	1	3	3	2	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	6171886	T	C	6171886	3	2	93	1	0	0	0	0	1	0	0	0	3328	1638	57	3	690	3	CHD5	1	6171886	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10	3750614	6171886	243078735	2	5331											
ABCA4	24	hgsc.bcm.edu;ucsc.edu	37	chr1	94568673	94568673	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtttcttcatctttcaaGatatcccttattcgtattcc	8	19	4	10	1	4	1	2	0	2	1	7	1	6	1	2	0	0	2	2	0	4	8	rs148091207	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	94568673	G	T	94568673	2	4	93	1	0	0	0	0	0	0	0	1	34	932	33	4		4	ABCA4	1	94568673	Silent	SNP	G	TCGA-B0-4837-01A-01D-1373-10	88396787	94568673	154681948	3	5332											
NRBP1	29959	hgsc.bcm.edu;ucsc.edu	37	chr2	27663325	27663325	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacatggatactagtgcCgtactggctgaaatccctgc	13	9	9	10	1	0	1	0	1	0	0	1	2	1	2	2	2	5	2	2	2	6	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	27663325	C	T	27663325	2	4	93	1	0	0	0	0	0	0	0	1	10642	639	23	1		1	NRBP1	2	27663325	Silent	SNP	C	TCGA-B0-4837-01A-01D-1373-10		27663325	215536048	4	5333											
NFE2L2	4780	hgsc.bcm.edu;ucsc.edu	37	chr2	178098945	178098945	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	actgaagtcaaatacttctcGacttactccaagatctatat	14	13	4	10	1	3	2	1	1	2	1	5	3	4	2	1	0	2	0	1	0	7	5	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	178098945	G	C	178098945	3	2	93	1	0	0	0	0	1	0	0	0	10368	1066	37	4	1733	4	NFE2L2	2	178098945	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10	150435620	178098945	65100428	5	5334											
SETD2	29072	ucsc.edu	37	chr3	47059132	47059132	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcaaggggagtaccttgCgagccagatgtttaaagtct	13	9	12	7	1	1	1	0	0	1	1	1	3	1	2	2	2	4	3	2	2	5	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	47059132	C	G	47059132	3	3	93	1	0	0	0	0	1	0	0	0	14133	768	27	4	173	4	SETD2	3	47059132	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		47059132	150963298	6	5335											
PRKCD	5580	hgsc.bcm.edu	37	chr3	53219628	53219628	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccctccccagagagcctcCcggagatcagactcagcctc	8	6	8	19	1	2	3	2	0	0	3	6	5	5	3	6	1	2	0	6	1	0	0	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	53219628	C	T	53219628	2	4	93	1	0	0	0	0	0	0	0	1	12511	610	22	2		2	PRKCD	3	53219628	Silent	SNP	C	TCGA-B0-4837-01A-01D-1373-10	6160496	53219628	144802802	7	5336											
MASP1	5648	hgsc.bcm.edu;ucsc.edu	37	chr3	186937985	186937985	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgcccaccaggtaccactgGcctctttctctattcagggt	6	12	9	14	0	3	0	1	0	2	0	4	0	3	0	4	3	2	1	4	3	2	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	186937985	G	A	186937985	2	1	93	1	0	0	0	0	0	0	0	1	9322	1190	42	2		2	MASP1	3	186937985	Silent	SNP	G	TCGA-B0-4837-01A-01D-1373-10	133718357	186937985	11084445	8	5337											
RGS12	6002	hgsc.bcm.edu;ucsc.edu	37	chr4	3432133	3432133	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggttttcttccaataGagttttttgagcttatttcc	6	20	7	8	0	2	2	0	1	2	1	4	2	4	2	2	1	1	3	2	1	3	9	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	3432133	G	T	3432133	5	4	93	1	0	0	0	0	0	0	1	0	13297	956	33	4	3685	4	RGS12	4	3432133	Splice_Site	SNP	G	TCGA-B0-4837-01A-01D-1373-10		3432133	187722143	9	5338											
KLHL5	51088	hgsc.bcm.edu;ucsc.edu	37	chr4	39116919	39116919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccttaatactgtggaggCttatgatccccagacaaatg	13	11	8	9	0	0	2	0	1	0	1	1	3	1	3	3	2	2	1	3	2	5	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	39116919	C	T	39116919	3	4	93	1	0	0	0	0	1	0	0	0	8392	797	28	2	2218	2	KLHL5	4	39116919	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10	35684786	39116919	152037357	10	5339											
ANKRD17	26057	hgsc.bcm.edu;ucsc.edu	37	chr4	74021354	74021354	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaataggcatgacctgttgAagactgtgcattaacatctg	13	11	10	7	0	1	3	0	2	1	1	1	4	1	3	1	1	2	3	1	1	4	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	74021354	A	T	74021354	3	4	93	1	0	0	0	0	1	0	0	0	646	246	9	5	6937	5	ANKRD17	4	74021354	Missense_Mutation	SNP	A	TCGA-B0-4837-01A-01D-1373-10	34904435	74021354	117132922	11	5340											
ANK2	287	hgsc.bcm.edu	37	chr4	114179233	114179233	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactccactgcacattgccTgcaagaaaaaccgcatcaaa	15	8	5	13	1	1	1	1	0	0	1	2	1	2	1	3	0	5	3	3	0	5	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	114179233	T	C	114179233	3	2	93	1	0	0	0	0	1	0	0	0	621	1580	55	3	1287	3	ANK2	4	114179233	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10	40157879	114179233	76975043	12	5341											
DNAH5	1767	hgsc.bcm.edu;ucsc.edu	37	chr5	13830726	13830726	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttaaaaatccgtccaagtCctcggaaatccatctggtct	11	11	6	13	2	2	0	0	0	2	0	7	1	6	1	5	2	0	0	5	2	5	1	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	13830726	C	A	13830726	3	1	93	1	0	0	0	0	1	0	0	0	4604	855	30	4	8009	4	DNAH5	5	13830726	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		13830726	167084534	13	5342											
FBXO4	26272	hgsc.bcm.edu;ucsc.edu	37	chr5	41929897	41929897	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactccctgatcattcagaAtgaaccacgatttgctatgt	12	12	6	11	1	2	3	2	2	0	1	3	4	3	3	2	0	2	1	2	0	3	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	41929897	A	G	41929897	3	3	93	1	0	0	0	0	1	0	0	0	5748	101	4	3	534	3	FBXO4	5	41929897	Missense_Mutation	SNP	A	TCGA-B0-4837-01A-01D-1373-10	28099171	41929897	138985363	14	5343											
POLH	5429	hgsc.bcm.edu;ucsc.edu	37	chr6	43550779	43550779	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatgaagctcgtgcatttgGagtcactagaagtatgtggg	10	13	13	5	1	1	2	1	1	0	1	2	3	1	3	0	2	2	3	0	2	5	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	43550779	G	T	43550779	3	4	93	1	0	0	0	0	1	0	0	0	12202	1174	41	4	179	4	POLH	6	43550779	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10		43550779	127564288	15	5344											
ZNF292	23036	hgsc.bcm.edu	37	chr6	87966157	87966157	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatccagtgaagtagctgTgtccattaaggtgtctctca	10	13	9	9	0	3	1	2	1	1	0	6	1	5	1	2	1	1	2	2	1	4	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	87966157	T	A	87966157	3	1	93	1	0	0	0	0	1	0	0	0	17825	1696	59	5	2840	5	ZNF292	6	87966157	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10	44415378	87966157	83148910	16	5345											
IGFBP3	3486	hgsc.bcm.edu	37	chr7	45957039	45957039	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgactcactagcatttcCttaaaacgcccaagagagac	13	8	6	14	2	1	2	1	0	0	2	3	4	3	2	3	0	2	1	3	0	4	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	45957039	C	G	45957039	5	3	93	1	0	0	0	0	0	0	1	0	7580	695	24	4	484	4	IGFBP3	7	45957039	Splice_Site	SNP	C	TCGA-B0-4837-01A-01D-1373-10		45957039	113181624	17	5346											
USP17L2	377630	hgsc.bcm.edu	37	chr8	11995987	11995987	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtatgtcaggcactgcaGggaagcgttctcgtagcagg	8	10	15	8	2	2	0	1	0	1	0	3	1	2	1	0	3	3	6	0	3	3	3	rs3988861	bycluster	TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	11995987	A	A	11995987	2	1	93	1	0	0	0	0	0	0	0	1	17047	991	35	2		2	USP17L2	8	11995987	Silent	SNP	G	TCGA-B0-4837-01A-01D-1373-10		11995987	134368035	18	5347											
PUF60	22827	hgsc.bcm.edu;ucsc.edu	37	chr8	144898831	144898831	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaactccacaaagatcttGacaatgatttctgcatcctc	14	11	5	11	0	2	3	0	2	2	1	5	4	4	3	2	0	2	1	2	0	4	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	144898831	G	C	144898831	2	2	93	1	0	0	0	0	0	0	0	1	12826	1277	45	4		4	PUF60	8	144898831	Silent	SNP	G	TCGA-B0-4837-01A-01D-1373-10	132902844	144898831	1465191	19	5348											
KIAA2026	158358	hgsc.bcm.edu;ucsc.edu	37	chr9	5968196	5968196	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcttttttgccctcatttTagttagtttgagtttcttgt	4	24	6	7	0	3	1	1	1	2	0	3	1	3	1	1	0	1	3	1	0	2	10	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	5968196	T	A	5968196	4	1	93	1	0	0	0	0	0	1	0	0	8270	1763	61	5	4300	5	KIAA2026	9	5968196	Nonsense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10		5968196	135245235	20	5349											
TIMM23	100287932	hgsc.bcm.edu;ucsc.edu	37	chr10	51592504	51592504	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgagttggcaaaatctTcagagtgactgttggagcaa	12	12	11	6	0	3	3	2	2	1	1	3	4	3	4	0	2	1	4	0	2	3	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	51592504	T	C	51592504	3	2	93	1	0	0	0	0	1	0	0	0	15910	1796	62	3	3	3	TIMM23	10	51592504	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10		51592504	83942243	21	5350											
PNLIPRP2	5408	hgsc.bcm.edu	37	chr10	118383462	118383463	+	Frame_Shift_Ins	INS	-	-	A																															gtggctcaccctaggaaaagINSagtctgctacggacaacttg																								novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	118383463	-	A	118383462	7	5	93	1	0	1	1	0	0	0	0	0	12151	943	33	0	68	0	PNLIPRP2	10	118383462	Frame_Shift_Ins	INS	-	TCGA-B0-4837-01A-01D-1373-10	66790958	118383462	17151285	22	5351											
TRIM22	10346	hgsc.bcm.edu;ucsc.edu	37	chr11	5717667	5717667	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccagcctgggaacctcCgacctaatcggcatctggcc	8	8	10	15	2	1	0	0	0	1	0	4	3	3	1	6	3	2	1	6	3	2	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	5717667	C	T	5717667	4	4	93	1	0	0	0	0	0	1	0	0	16495	644	23	1	207	1	TRIM22	11	5717667	Nonsense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		5717667	129288849	23	5352											
FAM160A2	84067	hgsc.bcm.edu	37	chr11	6239139	6239139	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagcggtccacaccacgAcgtgcctcacgcagatactc	11	5	8	17	4	1	1	1	0	0	1	3	2	2	1	3	1	3	1	3	1	1	1	rs11040809	bycluster;byfrequency;by1000genomes	TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	6239139	A	G	6239139	2	3	93	1	0	0	0	0	0	0	0	1	5469	262	10	3		3	FAM160A2	11	6239139	Silent	SNP	A	TCGA-B0-4837-01A-01D-1373-10	521472	6239139	128767377	24	5353											
RTN3	10313	hgsc.bcm.edu;ucsc.edu	37	chr11	63486754	63486754	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcagcatttgacaaagaAtttaaagactcatataagga	20	9	7	5	0	1	3	1	1	0	2	1	4	1	4	0	1	2	2	0	1	7	5	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	63486754	A	C	63486754	3	2	93	1	0	0	0	0	1	0	0	0	13729	98	4	5	790	5	RTN3	11	63486754	Missense_Mutation	SNP	A	TCGA-B0-4837-01A-01D-1373-10	57247615	63486754	71519762	25	5354											
MMP10	4319	hgsc.bcm.edu;ucsc.edu	37	chr11	102650297	102650297	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagctgaagtgaccaacGtcaggaactccacacctggg	13	5	12	11	1	1	2	1	2	0	0	2	4	2	4	3	3	3	1	3	3	4	0	rs140654514	bycluster;byfrequency;by1000genomes	TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	102650297	G	A	102650297	2	1	93	1	0	0	0	0	0	0	0	1	9649	1136	40	1		1	MMP10	11	102650297	Silent	SNP	G	TCGA-B0-4837-01A-01D-1373-10	39163543	102650297	32356219	26	5355											
SORL1	6653	hgsc.bcm.edu	37	chr11	121483478	121483478	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgaaccttttctgggcaTttgacacccacaagcaagag	11	10	10	10	0	1	3	0	2	1	1	1	3	1	3	2	2	2	2	2	2	3	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	121483478	T	C	121483478	3	2	93	1	0	0	0	0	1	0	0	0	14936	1493	52	3	5514	3	SORL1	11	121483478	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10	18833181	121483478	13523038	27	5356											
KIAA1467	57613	hgsc.bcm.edu;ucsc.edu	37	chr12	13208556	13208556	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgatgagagcgaagacgatCtggtgcttaacctgcagaag	12	8	14	7	2	1	4	0	2	1	3	1	7	1	4	1	1	4	2	1	1	3	1	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	13208556	C	G	13208556	3	3	93	1	0	0	0	0	1	0	0	0	8235	912	32	4	115	4	KIAA1467	12	13208556	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		13208556	120643339	28	5357											
KIAA1467	57613	hgsc.bcm.edu;ucsc.edu	37	chr12	13224254	13224254	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catgaaagaaacgccagccaCctcagcagttacttcagacc	14	6	7	14	1	2	3	2	1	0	2	2	3	2	3	4	0	4	2	4	0	3	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	13224254	C	G	13224254	3	3	93	1	0	0	0	0	1	0	0	0	8235	507	18	4	1486	4	KIAA1467	12	13224254	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10	15698	13224254	120627641	29	5358											
DBX2	440097	hgsc.bcm.edu;ucsc.edu	37	chr12	45429899	45429899	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaaggtttggaaggtgcTgcagagaaagcattgatctc	13	9	14	5	0	1	2	0	1	1	1	2	5	1	4	0	4	3	4	0	4	3	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	45429899	T	G	45429899	5	3	93	1	0	0	0	0	0	0	1	0	4260	1594	55	5	629	5	DBX2	12	45429899	Splice_Site	SNP	T	TCGA-B0-4837-01A-01D-1373-10	32205645	45429899	88421996	30	5359											
ESYT1	23344	hgsc.bcm.edu;ucsc.edu	37	chr12	56531335	56531335	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacctgattgccaaagaccGtttcttggggggactggtga	8	10	15	8	1	1	3	0	2	1	1	1	5	1	5	3	5	1	1	3	5	1	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	56531335	G	A	56531335	3	1	93	1	0	0	0	0	1	0	0	0	5264	1145	40	1	2091	1	ESYT1	12	56531335	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10	11101436	56531335	77320560	31	5360											
TIMELESS	8914	hgsc.bcm.edu;ucsc.edu	37	chr12	56814823	56814823	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acttgttctgcttctgagccCccttcttcttcctcttcgct	2	18	5	16	1	5	1	0	1	5	0	7	1	6	1	3	0	2	3	3	0	0	7	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	56814823	C	G	56814823	2	3	93	1	0	0	0	0	0	0	0	1	15903	610	22	4		4	TIMELESS	12	56814823	Silent	SNP	C	TCGA-B0-4837-01A-01D-1373-10	283488	56814823	77037072	32	5361											
MYH11	4629	hgsc.bcm.edu;ucsc.edu	37	chr16	15932004	15932004	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccgaggggacccagaCgagtctcttggcggcccagt	6	8	13	14	3	2	1	0	0	2	1	4	4	2	2	3	4	0	0	3	4	0	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	15932004	C	G	15932004	3	3	93	1	0	0	0	0	1	0	0	0	10031	536	19	4	6032	4	MYH11	16	15932004	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		15932004	74422749	33	5362											
SYT17	51760	hgsc.bcm.edu	37	chr16	19195087	19195087	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgggcatgctgcactTcagcactcagtacgacctgc	8	8	10	15	1	2	0	2	0	0	0	2	1	2	0	2	1	6	6	2	1	1	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	19195087	T	G	19195087	3	3	93	1	0	0	0	0	1	0	0	0	15472	1783	62	5	587	5	SYT17	16	19195087	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10	3263083	19195087	71159666	34	5363											
CDH8	1006	hgsc.bcm.edu;ucsc.edu	37	chr16	61687743	61687743	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagccttacatttataaaTtcatcgacatcaacaccatt	14	13	3	11	1	2	0	2	0	0	0	3	1	2	0	2	0	4	1	2	0	5	6	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	61687743	T	G	61687743	3	3	93	1	0	0	0	0	1	0	0	0	3116	1490	52	5	234	5	CDH8	16	61687743	Missense_Mutation	SNP	T	TCGA-B0-4837-01A-01D-1373-10	42492656	61687743	28667010	35	5364											
PRPF8	10594	hgsc.bcm.edu	37	chr17	1584776	1584776	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctctccaactcactgtaGgttgatgtctcgaacaagag	12	11	8	10	1	3	2	1	1	2	1	6	3	4	2	1	1	2	2	1	1	5	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	1584776	G	C	1584776	3	2	93	1	0	0	0	0	1	0	0	0	12577	991	35	4	6297	4	PRPF8	17	1584776	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10		1584776	79610434	36	5365											
SPEM1	374768	hgsc.bcm.edu;ucsc.edu	37	chr17	7324560	7324560	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctaccgtagaggaaaggcCcctcaaaacaggcatatggt	13	6	11	11	1	1	1	1	0	0	1	1	2	1	2	4	4	2	2	4	4	6	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	7324560	C	T	7324560	3	4	93	1	0	0	0	0	1	0	0	0	15038	623	22	2	576	2	SPEM1	17	7324560	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10	5739784	7324560	73870650	37	5366											
TNS4	84951	hgsc.bcm.edu	37	chr17	38652467	38652467	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctttggcctccacctGtggggcttgctggagtcggc	2	11	17	11	1	0	0	0	0	0	0	2	1	1	1	3	7	1	3	3	7	0	2	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	38652467	G	T	38652467	3	4	93	1	0	0	0	0	1	0	0	0	16344	1386	48	4	1984	4	TNS4	17	38652467	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10	31327907	38652467	42542743	38	5367											
ABCC3	8714	hgsc.bcm.edu;ucsc.edu	37	chr17	48765029	48765029	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggctaccatccgcacccaGtttgatacctgcactgtcct	8	10	7	16	1	0	1	0	1	0	0	2	1	2	1	5	1	3	4	5	1	2	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		C	48765029	G	C	48765029	3	2	93	1	0	0	0	0	1	0	0	0	54	1020	36	4	4615	4	ABCC3	17	48765029	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10	10112562	48765029	32430181	39	5368											
FHOD3	80206	hgsc.bcm.edu	37	chr18	34191947	34191947	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctaccagaccaagacaccttCtacgacgtcgtggactgcct	10	8	8	15	3	1	2	0	0	1	2	2	4	1	3	4	1	3	0	4	1	3	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	34191947	C	G	34191947	3	3	93	1	0	0	0	0	1	0	0	0	5883	912	32	4	880	4	FHOD3	18	34191947	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		34191947	43885301	40	5369											
CCDC68	80323	hgsc.bcm.edu;ucsc.edu	37	chr18	52610015	52610015	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctgtggtcactgtcactGttgtcattgtgaattctggc	5	18	10	8	0	5	1	3	1	2	0	5	1	5	1	0	2	0	1	0	2	1	4	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		T	52610015	G	T	52610015	3	4	93	1	0	0	0	0	1	0	0	0	2840	1377	48	4	1039	4	CCDC68	18	52610015	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10	18418068	52610015	25467233	41	5370											
PRX	57716	hgsc.bcm.edu	37	chr19	40902613	40902613	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttcatctctgacactttcGgcagctgtacctctggaagc	7	13	9	12	1	3	1	1	1	2	0	5	2	3	2	1	2	3	4	1	2	2	3	rs150582069		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	40902613	G	A	40902613	3	1	93	1	0	0	0	0	1	0	0	0	12644	1116	39	1	2743	1	PRX	19	40902613	Missense_Mutation	SNP	G	TCGA-B0-4837-01A-01D-1373-10		40902613	18226370	42	5371											
C20orf26	26074	hgsc.bcm.edu	37	chr20	20140084	20140084	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggaaatgttagtgaacCggaggtagggtttgacgagg	12	9	17	3	2	0	2	0	2	0	0	0	5	0	4	1	5	1	3	1	5	5	3	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		G	20140084	C	G	20140084	3	3	93	1	0	0	0	0	1	0	0	0	2106	652	23	4	1056	4	C20orf26	20	20140084	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10		20140084	42885436	43	5372											
KDM5C	8242	ucsc.edu	37	chrX	53222653	53222656	+	Frame_Shift_Del	DEL	GGCT	GGCT	-																															ggatcctctccaggtctgggGgctgtccagcctgcagcagc																								novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	GGCT	GGCT	GGCT	-	GGCT	GGCT	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		-	53222656	GGCT	-	53222653	7	5	93	1	0	1	0	1	0	0	0	0	8135	1232	43	0	505	0	KDM5C	23	53222653	Frame_Shift_Del	DEL	GGCT	TCGA-B0-4837-01A-01D-1373-10		53222653	102047907	44	5373											
HUWE1	10075	hgsc.bcm.edu	37	chrX	53579772	53579772	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaggaagccaggctgctTgtatccataggagagccttc	10	9	12	10	0	0	1	0	0	0	1	2	3	1	2	3	3	4	4	3	3	4	5	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	53579772	T	A	53579772	2	1	93	1	0	0	0	0	0	0	0	1	7461	1799	63	5		5	HUWE1	23	53579772	Silent	SNP	T	TCGA-B0-4837-01A-01D-1373-10	357119	53579772	101690788	45	5374											
OGT	8473	hgsc.bcm.edu	37	chrX	70775921	70775921	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacattgaagaggcagttCgcttgtatcgtaaagcatta	14	11	10	6	2	0	2	0	1	0	1	2	3	0	2	0	1	2	6	0	1	6	6	novel		TCGA-B0-4837-01A-01D-1373-10	TCGA-B0-4837-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	078b4a67-3a8a-40f4-928c-768fa3c91450	05cbbbd4-67af-4685-b4d8-80ebe715333c		A	70775921	C	A	70775921	3	1	93	1	0	0	0	0	1	0	0	0	10847	884	31	4	1072	4	OGT	23	70775921	Missense_Mutation	SNP	C	TCGA-B0-4837-01A-01D-1373-10	17196149	70775921	84494639	46	5375											
NDUFS2	4720	hgsc.bcm.edu;ucsc.edu	37	chr1	161183209	161183209	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatcactttaagttgtatActgagggctaccaagttcct	10	15	7	9	0	2	1	2	1	0	0	3	1	3	1	2	1	2	4	2	1	5	8	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	161183209	A	C	161183209	3	2	94	1	0	0	0	0	1	0	0	0	10292	391	14	5	1198	5	NDUFS2	1	161183209	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10		161183209	88067412	1	5376											
BAT2L2	0	hgsc.bcm.edu;ucsc.edu	37	chr1	171553099	171553099	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttaatccttatgtagatctCagccagcttttatgcaaagc	11	15	6	9	0	1	1	1	0	1	1	3	1	2	1	2	0	4	3	2	0	5	6	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	171553099	C	G	171553099	3	3	94	1	0	0	0	0	1	0	0	0	1321	827	29	4	7518	4	BAT2L2	1	171553099	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10	10369890	171553099	77697522	2	5377											
LYPLAL1	127018	hgsc.bcm.edu	37	chr1	219347283	219347283	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtatcgtgtcgccggcAgggaggcatagcgcctctct	5	9	14	13	5	1	0	0	0	1	0	4	1	1	1	2	3	1	4	2	3	2	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	219347283	A	G	219347283	2	3	94	1	0	0	0	0	0	0	0	1	9118	175	7	3		3	LYPLAL1	1	219347283	Silent	SNP	A	TCGA-B0-4838-01A-01D-1373-10	47794184	219347283	29903338	3	5378											
EPRS	2058	hgsc.bcm.edu;ucsc.edu	37	chr1	220153534	220153534	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctttaacaacaggaattgCcaggagttcttcatatacct	12	13	6	10	0	2	0	1	0	1	0	3	2	3	2	3	2	4	1	3	2	5	7	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	220153534	C	T	220153534	3	4	94	1	0	0	0	0	1	0	0	0	5191	739	26	2	962	2	EPRS	1	220153534	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10	806251	220153534	29097087	4	5379											
SIPA1L2	57568	hgsc.bcm.edu;ucsc.edu	37	chr1	232600814	232600814	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tcaatgtcagcagactggccGaagtcccgggctatcacgtg	9	8	12	12	3	3	1	3	0	0	1	4	2	4	1	2	2	1	2	2	2	3	1	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	232600814	G	C	232600814	3	2	94	1	0	0	0	0	1	0	0	0	14332	1049	37	4	2636	4	SIPA1L2	1	232600814	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	12447280	232600814	16649807	5	5380											
TANC1	85461	hgsc.bcm.edu;ucsc.edu	37	chr2	159992709	159992709	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttcccactacaggtccCgtcaggaagcccaagtatgt	10	10	8	13	1	2	0	1	0	1	0	4	1	4	1	3	2	2	1	3	2	4	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	159992709	C	G	159992709	2	3	94	1	0	0	0	0	0	0	0	1	15543	639	23	4		4	TANC1	2	159992709	Silent	SNP	C	TCGA-B0-4838-01A-01D-1373-10		159992709	83206664	6	5381											
LTF	4057	hgsc.bcm.edu	37	chr3	46479585	46479585	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggaataagcaaaacttGtccgggcagtcagatccatt	13	9	10	9	1	1	1	1	0	0	1	3	3	3	2	2	2	2	2	2	2	4	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	46479585	G	T	46479585	3	4	94	1	0	0	0	0	1	0	0	0	9079	1368	48	4	196	4	LTF	3	46479585	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10		46479585	151542845	7	5382											
PPP2R3A	5523	hgsc.bcm.edu;ucsc.edu	37	chr3	135820908	135820908	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgtactctccatgtatgAgctggagtacttctatgagg	8	13	12	8	1	2	2	0	2	2	0	3	3	2	3	1	3	3	4	1	3	4	5	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	135820908	A	T	135820908	3	4	94	1	0	0	0	0	1	0	0	0	12390	304	11	5	3161	5	PPP2R3A	3	135820908	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10	89341323	135820908	62201522	8	5383											
SPOCK1	6695	hgsc.bcm.edu	37	chr5	136403473	136403473	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggcccatcacagagggTggcgaggcttttgccagtag	9	7	15	10	1	1	1	1	0	0	1	1	2	1	1	2	4	1	2	2	4	1	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	136403473	T	A	136403473	3	1	94	1	0	0	0	0	1	0	0	0	15080	1696	59	5	823	5	SPOCK1	5	136403473	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10		136403473	44511787	9	5384											
FAM13B	51306	hgsc.bcm.edu;ucsc.edu	37	chr5	137347568	137347568	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaactttaacaaactataaTtaacaggtggaagctgttgc	16	11	8	6	0	0	0	0	0	0	0	0	2	0	1	0	2	6	2	0	2	7	6	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	137347568	T	G	137347568	3	3	94	1	0	0	0	0	1	0	0	0	5453	1493	52	5	2456	5	FAM13B	5	137347568	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10	944095	137347568	43567692	10	5385											
SLC36A1	206358	hgsc.bcm.edu	37	chr5	150847285	150847285	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtgatagaagcggccaaTgggaccaccaataactgcca	14	6	11	10	1	0	2	0	1	0	1	0	3	0	3	4	3	3	0	4	3	6	3	rs144783326	alternate_allele	TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	150847285	T	A	150847285	3	1	94	1	0	0	0	0	1	0	0	0	14595	1461	51	5	544	5	SLC36A1	5	150847285	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10	13499717	150847285	30067975	11	5386											
CACNA2D1	781	hgsc.bcm.edu;ucsc.edu	37	chr7	81594953	81594953	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgccatcagaagaaacccaCcatcatccagaatcacacaa	17	6	4	14	0	3	3	3	0	0	3	4	3	4	3	4	0	2	0	4	0	4	1	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	81594953	C	T	81594953	3	4	94	1	0	0	0	0	1	0	0	0	2548	507	18	2	776	2	CACNA2D1	7	81594953	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10		81594953	77543710	12	5387											
SYPL1	6856	hgsc.bcm.edu;ucsc.edu	37	chr7	105739686	105739686	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacttgaatttctgtttggcCcttaaaacctccacaggtgg	9	13	8	11	0	1	1	0	1	1	0	2	1	2	1	3	3	1	1	3	3	3	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	105739686	C	T	105739686	3	4	94	1	0	0	0	0	1	0	0	0	15461	623	22	2	629	2	SYPL1	7	105739686	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10	24144733	105739686	53398977	13	5388											
PPP1R3A	5506	hgsc.bcm.edu	37	chr7	113518387	113518387	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgacactgaaatttcagtAtgatgtttggaaaaaggaga	15	12	11	3	0	1	4	1	3	0	1	1	6	1	5	0	2	0	3	0	2	4	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	113518387	A	G	113518387	2	3	94	1	0	0	0	0	0	0	0	1	12373	446	16	3		3	PPP1R3A	7	113518387	Silent	SNP	A	TCGA-B0-4838-01A-01D-1373-10	7778701	113518387	45620276	14	5389											
CLEC5A	23601	hgsc.bcm.edu;ucsc.edu	37	chr7	141635627	141635627	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaccagtttctctggcGtgttgacaattgccaatgtg	7	15	9	10	1	2	1	1	1	2	0	4	1	2	1	2	1	1	2	2	1	2	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	141635627	G	A	141635627	3	1	94	1	0	0	0	0	1	0	0	0	3519	1145	40	1	246	1	CLEC5A	7	141635627	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	28117240	141635627	17503036	15	5390											
FGF20	26281	hgsc.bcm.edu;ucsc.edu	37	chr8	16850793	16850793	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataccagttctcttcaaactGctccctaaagatgcattcgg	11	12	6	12	1	2	1	1	0	1	1	5	1	3	1	2	1	4	3	2	1	4	5	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	16850793	G	C	16850793	3	2	94	1	0	0	0	0	1	0	0	0	5849	1328	46	4	215	4	FGF20	8	16850793	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10		16850793	129513229	16	5391											
CCDC107	203260	hgsc.bcm.edu	37	chr9	35660625	35660625	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacaacctgatggcccagCtggaccccctttttgagcgg	8	9	11	13	1	0	3	0	3	0	0	0	4	0	4	4	3	4	1	4	3	2	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	35660625	C	T	35660625	2	4	94	1	0	0	0	0	0	0	0	1	2742	796	28	2		2	CCDC107	9	35660625	Silent	SNP	C	TCGA-B0-4838-01A-01D-1373-10		35660625	105552806	17	5392											
NAA35	60560	hgsc.bcm.edu;ucsc.edu	37	chr9	88631485	88631485	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattcctttacgcatggttgAtgtcaacattgagtcgtgcc	9	14	9	9	2	1	2	1	2	0	0	3	2	2	2	2	1	3	2	2	1	3	5	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	88631485	A	G	88631485	3	3	94	1	0	0	0	0	1	0	0	0	10123	333	12	3	1666	3	NAA35	9	88631485	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10	52970860	88631485	52581946	18	5393											
CDK5RAP2	55755	hgsc.bcm.edu	37	chr9	123169477	123169477	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctccatcaggaggctGtgcaggtccctgaaaggatc	9	9	13	10	0	2	1	1	1	1	0	5	4	3	4	2	5	1	2	2	5	1	0	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	123169477	G	C	123169477	3	2	94	1	0	0	0	0	1	0	0	0	3146	1368	48	4	933	4	CDK5RAP2	9	123169477	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	34537992	123169477	18043954	19	5394											
CDH23	64072	hgsc.bcm.edu;ucsc.edu	37	chr10	73199633	73199633	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacgtggcctggcttttGgtgctgatctctggatgctg	3	14	14	10	1	1	1	0	1	1	0	2	2	1	2	2	4	3	3	2	4	0	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	73199633	G	C	73199633	3	2	94	1	0	0	0	0	1	0	0	0	3108	1339	47	4	47	4	CDH23	10	73199633	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10		73199633	62335114	20	5395											
SMC3	9126	hgsc.bcm.edu;ucsc.edu	37	chr10	112328742	112328742	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatcaaacaattgtagAtcccttcagttcaaaacata	17	10	5	9	0	3	2	3	0	0	2	4	3	4	2	1	0	2	2	1	0	6	5	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	112328742	A	T	112328742	3	4	94	1	0	0	0	0	1	0	0	0	14786	333	12	5	68	5	SMC3	10	112328742	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10	39129109	112328742	23206005	21	5396											
DUSP8	1850	hgsc.bcm.edu;ucsc.edu	37	chr11	1580186	1580186	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcgggtcaggcccacgctgGgcacaggcaggcagggctgg	6	4	19	12	2	1	0	1	0	0	0	1	0	1	0	1	7	1	5	1	7	0	0	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	1580186	G	T	1580186	3	4	94	1	0	0	0	0	1	0	0	0	4831	1232	43	4	1423	4	DUSP8	11	1580186	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10		1580186	133426330	22	5397											
TMPRSS13	84000	hgsc.bcm.edu	37	chr11	117772955	117772955	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcagcaggccagctggtTaggattttctgaatcgcacc	10	9	12	10	1	1	2	0	1	1	1	2	3	1	3	2	3	3	5	2	3	2	3	rs73020481	bycluster;byfrequency;by1000genomes	TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	117772955	T	C	117772955	2	2	94	1	0	0	0	0	0	0	0	1	16244	1761	61	3		3	TMPRSS13	11	117772955	Silent	SNP	T	TCGA-B0-4838-01A-01D-1373-10	116192769	117772955	17233561	23	5398											
DNAJC14	85406	hgsc.bcm.edu	37	chr12	56221611	56221611	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatcactgcttttcagttGcctgcaggcatagatgagat	11	12	9	9	0	2	2	2	1	0	2	2	3	2	2	1	1	3	4	1	1	2	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	56221611	G	A	56221611	4	1	94	1	0	0	0	0	0	1	0	0	4633	1328	46	2	1300	2	DNAJC14	12	56221611	Nonsense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10		56221611	77630284	24	5399											
C12orf64	0	hgsc.bcm.edu;ucsc.edu	37	chr12	80750654	80750654	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatcaattcatgattcaAgttcgacaggaagaaccttg	15	10	9	7	1	3	3	3	1	0	2	4	6	3	4	1	1	1	1	1	1	5	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	80750654	A	G	80750654	2	3	94	1	0	0	0	0	0	0	0	1	1707	69	3	3		3	C12orf64	12	80750654	Silent	SNP	A	TCGA-B0-4838-01A-01D-1373-10	24529043	80750654	53101241	25	5400											
DHX37	57647	hgsc.bcm.edu	37	chr12	125455876	125455876	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagtcacaatgcgggacAggaggccgatgaggatgtcc	11	5	17	8	2	1	2	1	1	0	1	2	7	2	5	2	5	1	0	2	5	1	0	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	125455876	A	G	125455876	3	3	94	1	0	0	0	0	1	0	0	0	4510	188	7	3	2390	3	DHX37	12	125455876	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10	44705222	125455876	8396019	26	5401											
RIMBP2	23504	hgsc.bcm.edu;ucsc.edu	37	chr12	130897239	130897239	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatctcctcatcatctgCttgtatctcagagaccatgt	9	14	5	13	0	6	1	4	0	3	1	8	2	6	1	2	0	1	2	2	0	1	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	130897239	C	T	130897239	3	4	94	1	0	0	0	0	1	0	0	0	13365	797	28	2	432	2	RIMBP2	12	130897239	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10	5441363	130897239	2954656	27	5402											
NBEA	26960	hgsc.bcm.edu;ucsc.edu	37	chr13	35758117	35758117	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgattttctccacagttgtGgtcataccatctatccctca	9	15	5	12	0	4	1	2	1	2	0	6	1	5	1	3	1	1	1	3	1	2	5	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	35758117	G	T	35758117	2	4	94	1	0	0	0	0	0	0	0	1	10187	1335	47	4		4	NBEA	13	35758117	Silent	SNP	G	TCGA-B0-4838-01A-01D-1373-10		35758117	79411761	28	5403											
OR6S1	341799	hgsc.bcm.edu;ucsc.edu	37	chr14	21109071	21109071	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgatggccgcacatagagAaaaatggcacttccatagaa	15	7	10	9	2	0	2	0	0	0	2	1	4	1	2	2	2	1	2	2	2	5	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	21109071	A	T	21109071	3	4	94	1	0	0	0	0	1	0	0	0	11209	243	9	5	219	5	OR6S1	14	21109071	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10		21109071	86240469	29	5404											
MTHFD1	4522	hgsc.bcm.edu;ucsc.edu	37	chr14	64882205	64882205	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattgcacccgagaaggatGtggatgggtaagtgtggctt	9	11	15	6	1	0	1	0	0	0	1	0	4	0	3	1	4	1	3	1	4	3	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	64882205	G	A	64882205	3	1	94	1	0	0	0	0	1	0	0	0	9927	1377	48	2	388	2	MTHFD1	14	64882205	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	43773134	64882205	42467335	30	5405											
POMT2	29954	hgsc.bcm.edu;ucsc.edu	37	chr14	77746380	77746380	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccgggttgccaagcagaTagactcggaaatctgtgtca	11	9	11	10	2	3	2	2	0	1	2	4	3	3	3	2	2	2	2	2	2	3	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	77746380	T	G	77746380	3	3	94	1	0	0	0	0	1	0	0	0	12246	1406	49	5	503	5	POMT2	14	77746380	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10	12864175	77746380	29603160	31	5406											
VWA3A	146177	hgsc.bcm.edu	37	chr16	22135024	22135024	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggggcacagtctgtgaaAaaaggtacctttcttaagca	12	11	10	8	0	3	1	0	1	3	0	3	1	3	1	1	3	2	3	1	3	5	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	22135024	A	C	22135024	3	2	94	1	0	0	0	0	1	0	0	0	17239	15	1	5	1590	5	VWA3A	16	22135024	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10		22135024	68219729	32	5407											
SALL1	6299	hgsc.bcm.edu	37	chr16	51171109	51171109	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcttgccattttctccaGgccggccaggggagcattgg	6	10	13	12	1	1	0	0	0	1	0	2	1	1	1	4	5	3	2	4	5	0	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	51171109	G	T	51171109	3	4	94	1	0	0	0	0	1	0	0	0	13812	991	35	4	89	4	SALL1	16	51171109	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	29036085	51171109	39183644	33	5408											
CES1	1066	hgsc.bcm.edu	37	chr16	55862682	55862682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatgccgcagcttacataGgagggtacgaggtggcattc	10	8	13	10	2	0	0	0	0	0	0	1	2	0	1	1	4	4	4	1	4	3	4	rs144498758	byfrequency	TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	55862682	G	A	55862682	3	1	94	1	0	0	0	0	1	0	0	0	3269	1000	35	2	1501	2	CES1	16	55862682	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	4691573	55862682	34492071	34	5409											
MYO18A	399687	hgsc.bcm.edu;ucsc.edu	37	chr17	27417887	27417887	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	catgtcttcctgatcttcctCcagccggttctggatctcat	5	15	7	14	1	4	1	1	1	4	0	8	2	7	2	4	2	1	1	4	2	0	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	27417887	C	G	27417887	3	3	94	1	0	0	0	0	1	0	0	0	10065	864	30	4	951	4	MYO18A	17	27417887	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10		27417887	53777323	35	5410											
PGS1	9489	hgsc.bcm.edu;ucsc.edu	37	chr17	76396757	76396757	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatcttccctccctgtaGtgcaaacctgagtgactcct	7	12	7	15	0	1	2	0	2	1	0	4	2	4	2	4	0	3	3	4	0	2	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	76396757	G	A	76396757	5	1	94	1	0	0	0	0	0	0	1	0	11808	1043	36	2	723	2	PGS1	17	76396757	Splice_Site	SNP	G	TCGA-B0-4838-01A-01D-1373-10	48978870	76396757	4798453	36	5411											
KIAA0802	0	hgsc.bcm.edu	37	chr18	8819154	8819154	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaggagtcggacaggtgctCggccagtgagaatctctacc	10	7	14	10	2	1	1	0	1	1	1	4	5	1	3	2	4	2	1	2	4	3	1	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	8819154	C	T	8819154	3	4	94	1	0	0	0	0	1	0	0	0	8194	893	31	1	3095	1	KIAA0802	18	8819154	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10		8819154	69258094	37	5412											
SGTA	6449	hgsc.bcm.edu	37	chr19	2769005	2769005	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcggacgagaggcccccgTgccggagctggtcatgcagg	7	5	16	13	4	1	1	1	0	0	1	2	4	1	3	3	5	3	2	3	5	0	0	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		G	2769005	T	G	2769005	3	3	94	1	0	0	0	0	1	0	0	0	14227	1696	59	5	919	5	SGTA	19	2769005	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10		2769005	56359978	38	5413											
COL5A3	50509	hgsc.bcm.edu	37	chr19	10071434	10071434	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggctgtagtcacccgTggcttcgtccagccaggcag	6	8	15	12	2	1	0	1	0	0	0	3	1	2	1	3	4	1	4	3	4	1	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	10071434	T	C	10071434	3	2	94	1	0	0	0	0	1	0	0	0	3698	1696	59	3	261	3	COL5A3	19	10071434	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10	7302429	10071434	49057549	39	5414											
CD97	976	hgsc.bcm.edu	37	chr19	14517988	14517988	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgtgtttaccatcctcAactgcctgcagggcgccttc	6	12	8	15	1	1	0	1	0	0	0	3	0	2	0	5	1	4	2	5	1	3	4	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		C	14517988	A	C	14517988	3	2	94	1	0	0	0	0	1	0	0	0	3049	130	5	5	2393	5	CD97	19	14517988	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10	4446554	14517988	44610995	40	5415											
ZNF574	64763	hgsc.bcm.edu	37	chr19	42584326	42584326	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacacaggggagcggccctTcccctgccctgactgctcca	7	6	10	18	1	0	1	0	1	0	0	2	2	2	2	5	3	3	1	5	3	0	1	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	42584326	T	A	42584326	3	1	94	1	0	0	0	0	1	0	0	0	18005	1783	62	5	1570	5	ZNF574	19	42584326	Missense_Mutation	SNP	T	TCGA-B0-4838-01A-01D-1373-10	28066338	42584326	16544657	41	5416											
PCSK2	5126	hgsc.bcm.edu	37	chr20	17437054	17437054	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggacatctgcagctgcccCcgaggcagctggtgtgtttg	5	10	15	11	1	1	0	0	0	1	0	1	2	1	1	2	3	4	5	2	3	0	1	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		A	17437054	C	A	17437054	3	1	94	1	0	0	0	0	1	0	0	0	11601	623	22	4	1201	4	PCSK2	20	17437054	Missense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10		17437054	45588466	42	5417											
BPI	671	hgsc.bcm.edu;ucsc.edu	37	chr20	36940337	36940337	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaaacaagatgaacagcCaggtaggaggggctcagagc	14	5	14	8	1	1	3	1	1	0	2	2	5	1	4	1	4	4	2	1	4	4	2	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	36940337	C	T	36940337	4	4	94	1	0	0	0	0	0	1	0	0	1490	595	21	2	628	2	BPI	20	36940337	Nonsense_Mutation	SNP	C	TCGA-B0-4838-01A-01D-1373-10	19503283	36940337	26085183	43	5418											
PAGE1	8712	hgsc.bcm.edu	37	chrX	49454063	49454063	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctggatttggcaggcccaActcctggacatcaggaccat	9	9	10	13	0	2	0	1	0	1	0	3	3	3	3	3	5	1	1	3	5	1	1	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	49454063	A	T	49454063	3	4	94	1	0	0	0	0	1	0	0	0	11389	40	2	5	72	5	PAGE1	23	49454063	Missense_Mutation	SNP	A	TCGA-B0-4838-01A-01D-1373-10		49454063	105816497	44	5419											
F9	2158	hgsc.bcm.edu;ucsc.edu	37	chrX	138633386	138633386	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacttcactcgggttgttgGtggagaagatgccaaaccag	10	10	13	8	1	1	3	1	1	0	2	2	4	1	3	2	3	2	2	2	3	2	3	novel		TCGA-B0-4838-01A-01D-1373-10	TCGA-B0-4838-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6e9ffa47-f919-459c-bde8-0384d717db08	a4eff4fa-ce80-4e09-84b5-265feec77f84		T	138633386	G	T	138633386	3	4	94	1	0	0	0	0	1	0	0	0	5351	1261	44	4	708	4	F9	23	138633386	Missense_Mutation	SNP	G	TCGA-B0-4838-01A-01D-1373-10	89179323	138633386	16637174	45	5420											
C1orf135	0	hgsc.bcm.edu	37	chr1	26162205	26162205	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtggttgaagtggctaaaGgggatgccatgcaatcgtgt	10	10	15	6	1	0	1	0	1	0	0	1	2	0	2	1	4	2	3	1	4	4	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	26162205	G	A	26162205	3	1	95	1	0	0	0	0	1	0	0	0	1999	1000	35	2	724	2	C1orf135	1	26162205	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10		26162205	223088416	1	5421											
FRRS1	391059	hgsc.bcm.edu;ucsc.edu	37	chr1	100206440	100206440	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatgcatttggttgtgaaAttataggaccaggaatcttc	13	13	10	5	0	1	1	0	1	1	0	2	4	1	3	1	3	1	2	1	3	5	5	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	100206440	A	G	100206440	3	3	95	1	0	0	0	0	1	0	0	0	6060	101	4	3	1443	3	FRRS1	1	100206440	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	74044235	100206440	149044181	2	5422											
RC3H1	149041	hgsc.bcm.edu;ucsc.edu	37	chr1	173916561	173916561	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggtgccatagcctgcattgGaccagcaccctgatatatag	11	9	10	11	0	0	1	0	1	0	0	0	2	0	2	4	2	4	2	4	2	4	5	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	173916561	G	C	173916561	3	2	95	1	0	0	0	0	1	0	0	0	13168	1174	41	4	742	4	RC3H1	1	173916561	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	73710121	173916561	75334060	3	5423											
NFASC	23114	hgsc.bcm.edu;ucsc.edu	37	chr1	204957785	204957785	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaccaaagtaggaaagcAgatagtggaaaacttctctc	15	7	11	8	1	1	1	0	0	1	1	3	4	1	4	1	3	2	2	1	3	6	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	204957785	A	T	204957785	3	4	95	1	0	0	0	0	1	0	0	0	10359	188	7	5	3113	5	NFASC	1	204957785	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	31041224	204957785	44292836	4	5424											
USH2A	7399	hgsc.bcm.edu;ucsc.edu	37	chr1	216061915	216061915	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatattcatattttgtccaTgggctaagagcagaagtctt	11	14	9	7	1	2	2	1	0	1	2	3	3	3	2	1	1	1	2	1	1	4	7	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	216061915	T	C	216061915	2	2	95	1	0	0	0	0	0	0	0	1	17035	1451	51	3		3	USH2A	1	216061915	Silent	SNP	T	TCGA-B0-4839-01A-01D-1373-10	11104130	216061915	33188706	5	5425											
EPT1	85465	hgsc.bcm.edu;ucsc.edu	37	chr2	26587766	26587766	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgctggtcgtattcaatTttctgctaatggcatacttt	7	19	7	8	1	3	0	1	0	2	0	4	0	3	0	0	2	3	4	0	2	4	8	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	26587766	T	A	26587766	3	1	95	1	0	0	0	0	1	0	0	0	5199	1841	64	5	203	5	EPT1	2	26587766	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10		26587766	216611607	6	5426											
ARHGAP25	9938	hgsc.bcm.edu;ucsc.edu	37	chr2	69034512	69034512	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagttcatcctggagcacGgccggaatgaagagggcatc	11	6	14	10	2	1	3	1	1	0	2	3	5	2	5	2	4	1	3	2	4	2	1	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	69034512	G	A	69034512	3	1	95	1	0	0	0	0	1	0	0	0	874	1116	39	1	632	1	ARHGAP25	2	69034512	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	42446746	69034512	174164861	7	5427											
RTKN	6242	hgsc.bcm.edu	37	chr2	74657145	74657145	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctctaaccgcagttcaaAgtctggccccgcctcagcgc	8	7	9	17	3	4	0	2	0	2	0	4	0	4	0	4	1	3	3	4	1	2	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	74657145	A	T	74657145	3	4	95	1	0	0	0	0	1	0	0	0	13724	72	3	5	1154	5	RTKN	2	74657145	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	5622633	74657145	168542228	8	5428											
ZC3H6	376940	hgsc.bcm.edu;ucsc.edu	37	chr2	113067654	113067654	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgaaacaatacaggcaaGctaaagaaacctcaaatatt	20	7	6	8	0	1	2	1	1	0	1	1	2	1	2	1	1	5	3	1	1	9	4	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	113067654	G	A	113067654	3	1	95	1	0	0	0	0	1	0	0	0	17570	971	34	2	543	2	ZC3H6	2	113067654	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	38410509	113067654	130131719	9	5429											
C2orf67	0	hgsc.bcm.edu	37	chr2	210896230	210896230	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttatttgaggcttacatatAggtgaatatccatttctcca	11	16	6	8	0	1	2	0	2	1	0	3	2	2	2	2	2	1	1	2	2	6	7	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	210896230	A	T	210896230	2	4	95	1	0	0	0	0	0	0	0	1	2186	407	15	5		5	C2orf67	2	210896230	Silent	SNP	A	TCGA-B0-4839-01A-01D-1373-10	97828576	210896230	32303143	10	5430											
SETD2	29072	hgsc.bcm.edu	37	chr3	47122556	47122556	+	Intron	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggtgatgttaacaagctCcttgctgccctgagaagcta	9	11	11	10	0	0	2	0	2	0	1	1	3	1	2	2	1	5	5	2	1	4	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	47122556	C	A	47122556	1	1	95	0	1	0	0	0	0	0	0	0	14133	870	30	4		4	SETD2	3	47122556	Intron	SNP	C	TCGA-B0-4839-01A-01D-1373-10		47122556	150899874	11	5431											
NISCH	11188	hgsc.bcm.edu	37	chr3	52504925	52504925	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagagctctttgagaaaggTatgtggccacatgtccctga	11	10	12	8	0	1	3	0	2	1	2	2	5	2	3	2	2	1	2	2	2	3	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	52504925	T	A	52504925	5	1	95	1	0	0	0	0	0	0	1	0	10432	1652	57	5	425	5	NISCH	3	52504925	Splice_Site	SNP	T	TCGA-B0-4839-01A-01D-1373-10	5382369	52504925	145517505	12	5432											
STX19	415117	hgsc.bcm.edu;ucsc.edu	37	chr3	93733631	93733631	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaaaataaatgtcttgcaCttctcttgctttgctgctat	9	17	6	9	1	2	0	0	0	2	0	3	0	2	0	0	0	4	5	0	0	5	7	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	93733631	C	T	93733631	2	4	95	1	0	0	0	0	0	0	0	1	15343	564	20	2		2	STX19	3	93733631	Silent	SNP	C	TCGA-B0-4839-01A-01D-1373-10	41228706	93733631	104288799	13	5433											
CCDC80	151887	hgsc.bcm.edu;ucsc.edu	37	chr3	112357865	112357865	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgctccccctccaccGtcattcccctccgccaccac	4	9	3	25	2	1	0	1	0	0	0	6	0	6	0	10	0	1	1	10	0	0	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	112357865	G	A	112357865	2	1	95	1	0	0	0	0	0	0	0	1	2854	1136	40	1		1	CCDC80	3	112357865	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10	18624234	112357865	85664565	14	5434											
PPP2R2C	5522	hgsc.bcm.edu	37	chr4	6374376	6374376	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtggccattggcaaagaTcctccgagggctcacctcca	8	8	12	13	1	1	1	1	0	0	1	4	2	4	1	5	4	0	2	5	4	1	1	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	6374376	T	C	6374376	3	2	95	1	0	0	0	0	1	0	0	0	12388	1435	50	3	864	3	PPP2R2C	4	6374376	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10		6374376	184779900	15	5435											
CWH43	80157	hgsc.bcm.edu;ucsc.edu	37	chr4	49005767	49005767	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaggaacagcttcagctgCggggctcctttacctgcaca	10	8	10	13	1	1	0	1	0	0	0	2	1	2	1	2	3	7	4	2	3	3	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	49005767	C	T	49005767	3	4	95	1	0	0	0	0	1	0	0	0	4073	768	27	1	844	1	CWH43	4	49005767	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	42631391	49005767	142148509	16	5436											
ANKRD17	26057	hgsc.bcm.edu;ucsc.edu	37	chr4	73986632	73986632	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacatttgcttttctatcaAgcagaagactaaccacttca	14	12	4	11	0	3	2	2	0	1	2	3	2	3	2	1	0	4	2	1	0	5	6	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	73986632	A	G	73986632	3	3	95	1	0	0	0	0	1	0	0	0	646	72	3	3	4056	3	ANKRD17	4	73986632	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	24980865	73986632	117167644	17	5437											
SDAD1	55153	hgsc.bcm.edu;ucsc.edu	37	chr4	76878693	76878693	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctcttcatcactgtctaTttcaatgtatttcctcttct	6	19	5	11	0	7	0	3	0	4	0	8	0	8	0	1	1	0	2	1	1	3	6	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	76878693	T	C	76878693	3	2	95	1	0	0	0	0	1	0	0	0	13952	1493	52	3	332	3	SDAD1	4	76878693	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10	2892061	76878693	114275583	18	5438											
HNRPDL	9987	hgsc.bcm.edu;ucsc.edu	37	chr4	83347663	83347663	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccatagttcccatagttaTacccagtataatcatatccg	13	13	4	11	1	1	0	1	0	0	0	4	0	4	0	4	0	1	3	4	0	7	8	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	83347663	T	C	83347663	3	2	95	1	0	0	0	0	1	0	0	0	7276	1406	49	3	125	3	HNRPDL	4	83347663	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10	6468970	83347663	107806613	19	5439											
RANBP3L	202151	hgsc.bcm.edu;ucsc.edu	37	chr5	36301485	36301485	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgcaaactgccaggcaGgtggctgctgccttttcttg	5	12	14	10	0	1	0	0	0	1	0	1	0	1	0	2	4	5	4	2	4	1	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	36301485	G	A	36301485	2	1	95	1	0	0	0	0	0	0	0	1	13032	991	35	2		2	RANBP3L	5	36301485	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10		36301485	144613775	20	5440											
FTMT	94033	hgsc.bcm.edu;ucsc.edu	37	chr5	121188165	121188165	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctctactcttggaaaagaaCgtgaaccagtcgttgctgga	11	10	11	9	2	2	2	0	1	2	1	3	4	2	4	1	2	4	3	1	2	5	3	rs180751758	by1000genomes;alternate_allele	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	121188165	C	A	121188165	3	1	95	1	0	0	0	0	1	0	0	0	6085	535	19	4	509	4	FTMT	5	121188165	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	84886680	121188165	59727095	21	5441											
PPARGC1B	133522	hgsc.bcm.edu	37	chr5	149210396	149210396	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccagaaggaagggaccGcctggcgccaggcaggcctc	10	2	14	15	2	0	1	0	0	0	1	1	3	0	3	5	5	0	1	5	5	2	0	rs189353551	by1000genomes;alternate_allele	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	149210396	G	C	149210396	3	2	95	1	0	0	0	0	1	0	0	0	12301	1087	38	4	553	4	PPARGC1B	5	149210396	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	28022231	149210396	31704864	22	5442											
HAND1	9421	hgsc.bcm.edu	37	chr5	153857038	153857038	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggactcaccagctcccttttCcgcttgctctcacggccgcc	4	10	8	19	3	2	0	2	0	1	0	5	1	4	1	5	2	2	3	5	2	0	3	rs34198899	bycluster;byfrequency;by1000genomes	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	153857038	C	G	153857038	2	3	95	1	0	0	0	0	0	0	0	1	6949	842	30	4		4	HAND1	5	153857038	Silent	SNP	C	TCGA-B0-4839-01A-01D-1373-10	4646642	153857038	27058222	23	5443											
ODZ2	0	hgsc.bcm.edu	37	chr5	167689204	167689204	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccatcattggcaaaggcAtcatgtttgccatcaaagaa	13	9	8	11	1	3	1	3	0	0	1	3	1	3	1	2	2	1	3	2	2	3	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	167689204	A	C	167689204	3	2	95	1	0	0	0	0	1	0	0	0	10835	217	8	5	7801	5	ODZ2	5	167689204	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	13832166	167689204	13226056	24	5444											
TCP11	6954	hgsc.bcm.edu;ucsc.edu	37	chr6	35089937	35089937	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttttctagtttctgcaCtgcttcatctcgaactggtg	7	17	8	9	1	4	0	1	0	3	0	5	1	4	0	0	1	3	4	0	1	3	5	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	35089937	C	G	35089937	3	3	95	1	0	0	0	0	1	0	0	0	15712	565	20	4	1000	4	TCP11	6	35089937	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10		35089937	136025130	25	5445											
FAM83B	222584	hgsc.bcm.edu	37	chr6	54804856	54804856	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggatacaaacctcattttGttcctaactttaatggtcca	12	14	5	10	1	1	0	1	0	0	0	3	1	3	1	3	2	3	1	3	2	4	7	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	54804856	G	T	54804856	3	4	95	1	0	0	0	0	1	0	0	0	5634	1377	48	4	1101	4	FAM83B	6	54804856	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	19714919	54804856	116310211	26	5446											
IFNGR1	3459	hgsc.bcm.edu;ucsc.edu	37	chr6	137519571	137519571	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatattttcttcagtagtcAccacttctgttatactagaa	12	16	5	8	0	4	1	2	0	2	1	4	2	4	1	1	0	1	2	1	0	7	9	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	137519571	A	C	137519571	3	2	95	1	0	0	0	0	1	0	0	0	7549	159	6	5	406	5	IFNGR1	6	137519571	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	82714715	137519571	33595496	27	5447											
ABCA13	154664	hgsc.bcm.edu	37	chr7	48428725	48428725	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaggaatatgagggccaCaaggctgtggtccaagacct	13	6	12	10	0	0	2	0	1	0	1	1	3	1	3	4	4	0	1	4	4	5	1	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	48428725	C	A	48428725	3	1	95	1	0	0	0	0	1	0	0	0	31	477	17	4	11537	4	ABCA13	7	48428725	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10		48428725	110709938	28	5448											
STC1	6781	hgsc.bcm.edu	37	chr8	23702339	23702339	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagagtcctcctcacctcGgaggttcctgaggaggactt	7	9	14	11	1	1	2	1	1	0	1	5	6	4	5	4	5	0	1	4	5	0	2	rs143563807	alternate_allele	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	23702339	G	T	23702339	2	4	95	1	0	0	0	0	0	0	0	1	15276	1124	39	4		4	STC1	8	23702339	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10		23702339	122661683	29	5449											
WHSC1L1	54904	hgsc.bcm.edu;ucsc.edu	37	chr8	38205403	38205403	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaccaaagccattggctGacccattaggatactgatta	12	10	8	11	0	0	2	0	2	0	0	0	3	0	3	3	2	3	2	3	2	4	4	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	38205403	G	T	38205403	4	4	95	1	0	0	0	0	0	1	0	0	17362	1294	45	4	4205	4	WHSC1L1	8	38205403	Nonsense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	14503064	38205403	108158619	30	5450											
KCNK9	51305	hgsc.bcm.edu	37	chr8	140631095	140631095	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactcctcacactgggagaaGgcggccgccccgatgcacag	9	4	12	16	3	1	1	1	0	0	1	2	3	2	1	4	3	1	1	4	3	1	0	rs192943243	by1000genomes	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	140631095	G	A	140631095	2	1	95	1	0	0	0	0	0	0	0	1	8072	987	35	2		2	KCNK9	8	140631095	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10	102425692	140631095	5732927	31	5451											
BNC2	54796	hgsc.bcm.edu;ucsc.edu	37	chr9	16419303	16419303	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actccccactgtcactcgccCcgtcaatgtcatcgagaaga	10	8	7	16	3	3	2	3	0	0	2	6	3	4	2	4	0	0	0	4	0	2	0	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	16419303	C	G	16419303	3	3	95	1	0	0	0	0	1	0	0	0	1475	623	22	4	319	4	BNC2	9	16419303	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10		16419303	124794128	32	5452											
AMBP	259	hgsc.bcm.edu	37	chr9	116839007	116839007	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccgatggccaggttgtacCacttcccatagatctaggag	11	9	10	11	1	1	1	0	0	1	1	2	3	2	2	4	3	2	2	4	3	4	5	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	116839007	C	A	116839007	3	1	95	1	0	0	0	0	1	0	0	0	564	595	21	4	963	4	AMBP	9	116839007	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	100419704	116839007	24374424	33	5453											
IL15RA	3601	hgsc.bcm.edu	37	chr10	6001726	6001726	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gacacacttaccagtggtgtCgctgtggccctgtggataca	8	10	12	11	1	0	0	0	0	0	0	1	2	0	1	2	3	2	1	2	3	2	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	6001726	C	G	6001726	3	3	95	1	0	0	0	0	1	0	0	0	7632	884	31	4	208	4	IL15RA	10	6001726	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10		6001726	129533021	34	5454											
ZNF438	220929	hgsc.bcm.edu;ucsc.edu	37	chr10	31137593	31137593	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagatggccaaaatagaCtcggatgtggccaaacactt	13	10	9	9	1	1	2	1	0	0	2	2	3	1	3	2	3	1	0	2	3	4	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	31137593	C	A	31137593	3	1	95	1	0	0	0	0	1	0	0	0	17909	565	20	4	753	4	ZNF438	10	31137593	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	25135867	31137593	104397154	35	5455											
DCLRE1A	9937	hgsc.bcm.edu;ucsc.edu	37	chr10	115609997	115609997	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcactgaagtcattttcTggcaatggcaaatttatgtg	11	14	9	7	0	3	1	2	1	1	0	3	1	3	1	0	2	0	2	0	2	4	4	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	115609997	T	A	115609997	2	1	95	1	0	0	0	0	0	0	0	1	4294	1567	55	5		5	DCLRE1A	10	115609997	Silent	SNP	T	TCGA-B0-4839-01A-01D-1373-10	84472404	115609997	19924750	36	5456											
NLRP10	338322	hgsc.bcm.edu	37	chr11	7981300	7981300	+	Missense_Mutation	SNP	G	G	A																															cctccttctgtccatggacaGaaggacatttttgctcctcc																								novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	7981300	G	A	7981300	3	1	95	1	0	0	0	0	1	0	0	0	10472	942	33	2	112	2	NLRP10	11	7981300	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10		7981300	127025216	37	5457	63	2									
NLRP10	338322	hgsc.bcm.edu	37	chr11	7981306	7981306	+	Missense_Mutation	SNP	C	C	A																															tctgtccatggacagaaggaCatttttgctcctccttaggt																								novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	7981306	C	A	7981306	3	1	95	1	0	0	0	0	1	0	0	0	10472	478	17	4	118	4	NLRP10	11	7981306	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	6	7981306	127025210	38	5458	63	2									
LRP4	4038	hgsc.bcm.edu	37	chr11	46914588	46914588	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccacagcaacactttccGgtgggccccatccagattgg	8	8	10	15	1	0	1	0	0	0	1	2	1	2	1	5	3	3	1	5	3	1	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	46914588	G	T	46914588	2	4	95	1	0	0	0	0	0	0	0	1	8959	1115	39	4		4	LRP4	11	46914588	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10	38933282	46914588	88091928	39	5459											
SSRP1	6749	hgsc.bcm.edu;ucsc.edu	37	chr11	57100524	57100524	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatcgttttggtggaatTccagtgtcacctcattcttg	6	16	9	10	2	4	0	3	0	1	0	6	1	5	1	2	2	0	1	2	2	1	5	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	57100524	T	G	57100524	3	3	95	1	0	0	0	0	1	0	0	0	15195	1783	62	5	1735	5	SSRP1	11	57100524	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10	10185936	57100524	77905992	40	5460											
GRIK4	2900	hgsc.bcm.edu;ucsc.edu	37	chr11	120833224	120833224	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtattccaagcagcccagCgtgttcgtgaagagcacaga	12	8	11	10	2	0	3	0	1	0	2	2	3	1	3	2	0	4	4	2	0	3	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	120833224	C	T	120833224	2	4	95	1	0	0	0	0	0	0	0	1	6776	767	27	1		1	GRIK4	11	120833224	Silent	SNP	C	TCGA-B0-4839-01A-01D-1373-10	63732700	120833224	14173292	41	5461											
HYLS1	219844	hgsc.bcm.edu;ucsc.edu	37	chr11	125769715	125769715	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaatcttcatttgatgtttCacaaaaatttaacctaccac	14	14	4	9	0	3	1	2	1	1	0	3	2	3	2	2	1	2	1	2	1	5	6	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	125769715	C	T	125769715	3	4	95	1	0	0	0	0	1	0	0	0	7469	838	29	2	454	2	HYLS1	11	125769715	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	4936491	125769715	9236801	42	5462											
KRT2	3849	hgsc.bcm.edu	37	chr12	53039079	53039079	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcctccactaccgcctctGgagccagactgtcggcctcc	5	8	8	20	2	1	1	0	0	1	1	5	2	4	2	8	2	2	0	8	2	1	1	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	53039079	G	T	53039079	2	4	95	1	0	0	0	0	0	0	0	1	8457	1335	47	4		4	KRT2	12	53039079	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10		53039079	80812816	43	5463											
ISCU	23479	hgsc.bcm.edu	37	chr12	108959179	108959179	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcaattgcctccagctcatTagccactgaatgggtgaaag	11	9	10	11	1	1	2	1	2	0	0	2	2	2	2	3	1	3	2	3	1	4	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	108959179	T	C	108959179	3	2	95	1	0	0	0	0	1	0	0	0	7852	1764	61	3	246	3	ISCU	12	108959179	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10	55920100	108959179	24892716	44	5464											
PABPC3	5042	hgsc.bcm.edu	37	chr13	25671755	25671755	+	Silent	SNP	G	G	A																															gttccacgagtcatgtcaacGcagcgtgttgctaacacatc																								rs116223079	byfrequency	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	25671755	G	A	25671755	2	1	95	1	0	0	0	0	0	0	0	1	11365	1074	38	1		1	PABPC3	13	25671755	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10		25671755	89498123	45	5465	64	2									
PABPC3	5042	hgsc.bcm.edu	37	chr13	25671759	25671759	+	Missense_Mutation	SNP	C	C	T																															cacgagtcatgtcaacgcagCgtgttgctaacacatcaaca																								rs115121649	byfrequency	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	25671759	C	T	25671759	3	4	95	1	0	0	0	0	1	0	0	0	11365	768	27	1	1425	1	PABPC3	13	25671759	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	4	25671759	89498119	46	5466	64	2									
CDK8	1024	hgsc.bcm.edu;ucsc.edu	37	chr13	26911753	26911753	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatagaaggaactgggatcTctatgtcggcatgtagagaa	15	9	12	5	1	1	2	0	0	1	2	3	5	1	4	0	3	1	2	0	3	7	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	26911753	T	C	26911753	3	2	95	1	0	0	0	0	1	0	0	0	3150	1551	54	3	184	3	CDK8	13	26911753	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10	1239994	26911753	88258125	47	5467											
COMMD6	170622	hgsc.bcm.edu	37	chr13	76101979	76101979	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggagactggaggttgccagGagctgaggctgggggtcaat	9	7	19	6	0	1	2	1	1	0	1	1	5	1	4	1	7	2	3	1	7	1	1	rs77512031	bycluster;byfrequency;by1000genomes	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	76101979	G	A	76101979	2	1	95	1	0	0	0	0	0	0	0	1	3720	1161	41	2		2	COMMD6	13	76101979	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10	49190226	76101979	39067899	48	5468											
NFATC4	4776	hgsc.bcm.edu	37	chr14	24842419	24842419	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaccctacagatgttcAtcggcactgcagatgaaagg	12	8	10	11	1	1	4	1	2	0	2	2	4	1	4	1	2	2	3	1	2	2	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	24842419	A	G	24842419	3	3	95	1	0	0	0	0	1	0	0	0	10365	217	8	3	1609	3	NFATC4	14	24842419	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10		24842419	82507121	49	5469											
SNAP23	8773	hgsc.bcm.edu;ucsc.edu	37	chr15	42822003	42822003	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaaaatccacaaataaaaCgaatcacagacaaggtaaaa	23	5	4	9	1	2	1	2	0	0	1	3	2	3	1	1	1	1	1	1	1	9	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	42822003	C	T	42822003	4	4	95	1	0	0	0	0	0	1	0	0	14831	528	19	1	578	1	SNAP23	15	42822003	Nonsense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10		42822003	59709389	50	5470											
BCL2L10	10017	hgsc.bcm.edu;ucsc.edu	37	chr15	52402092	52402092	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggctgttgttaacaagcAtgacagaaaagcctggacca	15	7	11	8	0	0	2	0	1	0	1	0	4	0	3	2	2	3	4	2	2	5	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	52402092	A	G	52402092	3	3	95	1	0	0	0	0	1	0	0	0	1368	217	8	3	50	3	BCL2L10	15	52402092	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	9580089	52402092	50129300	51	5471											
VPS13C	54832	hgsc.bcm.edu	37	chr15	62243164	62243164	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttgtcagtaacattttcaGaaggggttcgtcagtcacat	10	14	9	8	1	4	1	4	0	0	1	5	1	4	1	0	2	1	2	0	2	2	5	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	62243164	G	A	62243164	2	1	95	1	0	0	0	0	0	0	0	1	17190	933	33	2		2	VPS13C	15	62243164	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10	9841072	62243164	40288228	52	5472											
BBS2	583	hgsc.bcm.edu;ucsc.edu	37	chr16	56535332	56535332	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccccaggctgactgagagCgtggtgtggagcctggtatt	6	11	15	9	1	0	2	0	2	0	1	1	4	1	3	3	4	2	2	3	4	1	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	56535332	C	T	56535332	2	4	95	1	0	0	0	0	0	0	0	1	1338	755	27	1		1	BBS2	16	56535332	Silent	SNP	C	TCGA-B0-4839-01A-01D-1373-10		56535332	33819421	53	5473											
TPPP3	51673	hgsc.bcm.edu;ucsc.edu	37	chr16	67424948	67424948	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcttgcccactggccttggGgtcaccatggatggcaaact	7	10	11	13	0	2	0	1	0	1	0	2	1	2	1	3	5	2	1	3	5	1	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	67424948	G	A	67424948	3	1	95	1	0	0	0	0	1	0	0	0	16414	1232	43	2	475	2	TPPP3	16	67424948	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10	10889616	67424948	22929805	54	5474											
ZNF778	197320	hgsc.bcm.edu	37	chr16	89294595	89294595	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacatcctcacaccttatCgtgcacataagaacccacac	14	7	3	17	1	1	1	1	0	0	1	3	1	2	1	4	0	2	1	4	0	3	2	rs74466939	bycluster;byfrequency;by1000genomes	TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	89294595	C	T	89294595	2	4	95	1	0	0	0	0	0	0	0	1	18150	874	31	1		1	ZNF778	16	89294595	Silent	SNP	C	TCGA-B0-4839-01A-01D-1373-10	21869647	89294595	1060158	55	5475											
FTSJ3	117246	hgsc.bcm.edu;ucsc.edu	37	chr17	61903958	61903958	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcagcacacaggtccagcaAggctcgggctttctgcagga	9	6	13	13	2	1	0	0	0	1	0	3	1	2	1	1	4	3	6	1	4	1	1	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	61903958	A	C	61903958	3	2	95	1	0	0	0	0	1	0	0	0	6089	69	3	5	2477	5	FTSJ3	17	61903958	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10		61903958	19291252	56	5476											
TXNL1	9352	hgsc.bcm.edu	37	chr18	54281810	54281810	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggttgataaaaatttttaCatatttagggccctgaccta	13	15	7	6	0	0	2	0	2	0	0	0	2	0	2	2	2	1	1	2	2	8	10	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	54281810	C	A	54281810	3	1	95	1	0	0	0	0	1	0	0	0	16803	478	17	4	301	4	TXNL1	18	54281810	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10		54281810	23795438	57	5477											
ZNF532	55205	hgsc.bcm.edu;ucsc.edu	37	chr18	56585627	56585627	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgagtctggacacgatgaCcatgaaagccacatgaagca	15	7	10	9	1	1	4	0	4	1	0	1	6	1	5	2	1	2	1	2	1	2	1	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	56585627	C	T	56585627	2	4	95	1	0	0	0	0	0	0	0	1	17971	506	18	2		2	ZNF532	18	56585627	Silent	SNP	C	TCGA-B0-4839-01A-01D-1373-10	2303817	56585627	21491621	58	5478											
PPAP2C	8612	hgsc.bcm.edu	37	chr19	287592	287592	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaagttgggcctcagacGcccaatcatgtacttggcca	10	9	11	11	1	2	1	2	0	0	1	2	2	2	2	3	3	1	2	3	3	4	4	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	287592	G	A	287592	3	1	95	1	0	0	0	0	1	0	0	0	12292	1087	38	1	518	1	PPAP2C	19	287592	Missense_Mutation	SNP	G	TCGA-B0-4839-01A-01D-1373-10		287592	58841391	59	5479											
MUC16	94025	hgsc.bcm.edu	37	chr19	8996451	8996451	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggggtcagggtggtgggtGcagatggcatccactccagt	6	10	17	8	0	1	1	1	0	0	1	3	1	3	1	2	6	1	2	2	6	0	1	rs77062145		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	8996451	G	A	8996451	2	1	95	1	0	0	0	0	0	0	0	1	9973	1311	46	2		2	MUC16	19	8996451	Silent	SNP	G	TCGA-B0-4839-01A-01D-1373-10	8708859	8996451	50132532	60	5480											
BRD4	23476	hgsc.bcm.edu	37	chr19	15364972	15364972	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacctaacctgtttcggAgtcttcgctgtcagaggagc	8	11	11	11	2	3	1	2	0	1	1	5	3	3	3	2	2	2	2	2	2	1	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	15364972	A	G	15364972	3	3	95	1	0	0	0	0	1	0	0	0	1504	304	11	3	1994	3	BRD4	19	15364972	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10	6368521	15364972	43764011	61	5481											
PAF1	54623	hgsc.bcm.edu;ucsc.edu	37	chr19	39876968	39876968	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccctgtcaccttcctccCgttcactctcgctgcccgag	3	11	7	20	4	3	0	2	0	1	0	7	1	6	0	5	0	1	2	5	0	0	2	rs145620122		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	39876968	C	T	39876968	3	4	95	1	0	0	0	0	1	0	0	0	11383	652	23	1	340	1	PAF1	19	39876968	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	24511996	39876968	19252015	62	5482											
CDH4	1002	hgsc.bcm.edu	37	chr20	60348075	60348075	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagccgcagaaaggaaagaAggtcgtggctctggacccct	13	5	13	10	2	1	2	0	0	1	2	2	4	1	4	3	4	1	2	3	4	4	0	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		C	60348075	A	C	60348075	3	2	95	1	0	0	0	0	1	0	0	0	3112	72	3	5	427	5	CDH4	20	60348075	Missense_Mutation	SNP	A	TCGA-B0-4839-01A-01D-1373-10		60348075	2677445	63	5483											
DRP2	1821	hgsc.bcm.edu	37	chrX	100497381	100497381	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgatctggcccaccaacTtgccatttctgatgtgcact	9	12	8	12	0	2	2	0	2	2	0	2	3	2	2	3	1	3	1	3	1	2	2	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		A	100497381	T	A	100497381	3	1	95	1	0	0	0	0	1	0	0	0	4764	1609	56	5	918	5	DRP2	23	100497381	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10		100497381	54773179	64	5484											
GPRASP1	9737	hgsc.bcm.edu	37	chrX	101911560	101911560	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactgaagaggaaaccattTttgggtcctggttctgggat	10	12	13	6	0	1	3	0	1	1	2	2	5	2	5	2	4	1	1	2	4	2	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		G	101911560	T	G	101911560	3	3	95	1	0	0	0	0	1	0	0	0	6722	1841	64	5	2721	5	GPRASP1	23	101911560	Missense_Mutation	SNP	T	TCGA-B0-4839-01A-01D-1373-10	1414179	101911560	53359000	65	5485											
NXF3	56000	hgsc.bcm.edu	37	chrX	102337711	102337711	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtatgttctcttcatggaCgtccagggaggcagccatgc	8	10	13	10	1	2	0	1	0	1	0	4	2	3	2	2	4	2	3	2	4	1	3	novel		TCGA-B0-4839-01A-01D-1373-10	TCGA-B0-4839-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a957c17e-71ed-451a-aad9-a36e82313b3c	63f7be0e-4e73-4ed9-bdc1-2bacda375a40		T	102337711	C	T	102337711	3	4	95	1	0	0	0	0	1	0	0	0	10785	536	19	1	886	1	NXF3	23	102337711	Missense_Mutation	SNP	C	TCGA-B0-4839-01A-01D-1373-10	426151	102337711	52932849	66	5486											
MASP2	10747	hgsc.bcm.edu;ucsc.edu	37	chr1	11087333	11087333	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcataaaggattcagctTcttttcttggcagacaaata	12	14	6	9	0	4	1	2	0	2	1	5	2	5	2	1	2	1	2	1	2	4	7	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	11087333	T	A	11087333	3	1	96	1	0	0	0	0	1	0	0	0	9323	1783	62	5	394	5	MASP2	1	11087333	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10		11087333	238163288	1	5487											
VPS13D	55187	hgsc.bcm.edu;ucsc.edu	37	chr1	12401915	12401915	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacggggtgcactttgtggtTtgccaccctgaccaccacac	7	9	10	15	1	0	1	0	1	0	0	0	1	0	1	4	3	2	2	4	3	0	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	12401915	T	G	12401915	3	3	96	1	0	0	0	0	1	0	0	0	17191	1841	64	5	8863	5	VPS13D	1	12401915	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	1314582	12401915	236848706	2	5488											
TIE1	7075	hgsc.bcm.edu;ucsc.edu	37	chr1	43777725	43777725	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacaggatacagtgttcGtgtgcagctgagccggccag	11	7	14	9	2	0	2	0	1	0	1	1	3	0	3	2	2	4	3	2	2	2	2	rs141628049		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	43777725	G	A	43777725	3	1	96	1	0	0	0	0	1	0	0	0	15892	1145	40	1	1595	1	TIE1	1	43777725	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	31375810	43777725	205472896	3	5489											
C1orf52	148423	hgsc.bcm.edu;ucsc.edu	37	chr1	85718361	85718361	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctactttgcgctttttaGaagtatgctcatctttttca	7	19	6	9	1	4	1	2	0	2	1	4	1	4	1	0	0	3	4	0	0	4	8	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	85718361	G	T	85718361	3	4	96	1	0	0	0	0	1	0	0	0	2044	942	33	4	52	4	C1orf52	1	85718361	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	41940636	85718361	163532260	4	5490											
STXBP3	6814	hgsc.bcm.edu	37	chr1	109325070	109325070	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagatggaaaagaaaaggAggccatccttgaagaagaag	20	4	12	5	0	0	5	0	1	0	4	1	7	1	7	2	3	1	0	2	3	8	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	109325070	A	G	109325070	3	3	96	1	0	0	0	0	1	0	0	0	15355	304	11	3	874	3	STXBP3	1	109325070	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	23606709	109325070	139925551	5	5491											
KCNA10	3744	hgsc.bcm.edu;ucsc.edu	37	chr1	111060345	111060345	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagccccttggagtggcgCgagagcttgaagatgcggaa	9	7	16	9	3	0	3	0	1	0	2	0	6	0	5	2	3	4	2	2	3	2	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	111060345	C	T	111060345	2	4	96	1	0	0	0	0	0	0	0	1	8002	755	27	1		1	KCNA10	1	111060345	Silent	SNP	C	TCGA-B0-4841-01A-01D-1361-10	1735275	111060345	138190276	6	5492											
ADAMTSL4	54507	hgsc.bcm.edu;ucsc.edu	37	chr1	150531786	150531786	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccgaatgtggctctggCacacagcgtagagacatcat	10	9	10	12	2	2	1	1	0	1	1	4	3	4	1	2	2	1	3	2	2	2	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	150531786	C	A	150531786	2	1	96	1	0	0	0	0	0	0	0	1	277	697	25	4		4	ADAMTSL4	1	150531786	Silent	SNP	C	TCGA-B0-4841-01A-01D-1361-10	39471441	150531786	98718835	7	5493											
SETDB1	9869	hgsc.bcm.edu	37	chr1	150923098	150923098	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgtctgcagctatacctGtctgtctcgagtcagaccta	8	13	8	12	1	5	1	2	0	3	1	6	2	5	1	2	0	3	2	2	0	3	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	150923098	G	A	150923098	3	1	96	1	0	0	0	0	1	0	0	0	14140	1377	48	2	1791	2	SETDB1	1	150923098	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	391312	150923098	98327523	8	5494											
POGZ	23126	hgsc.bcm.edu	37	chr1	151377553	151377553	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccaggaaggagcgctGaactagctctggacagtccc	11	5	12	13	1	1	1	0	1	1	0	2	4	2	4	3	3	4	2	3	3	3	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	151377553	G	T	151377553	3	4	96	1	0	0	0	0	1	0	0	0	12186	1299	45	4	278	4	POGZ	1	151377553	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	454455	151377553	97873068	9	5495											
FLG	2312	hgsc.bcm.edu	37	chr1	152281097	152281097	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacctggtagaggaaagAccctgaacgtccagagcttt	11	8	11	11	1	1	4	1	1	0	3	2	5	2	5	3	2	2	3	3	2	3	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	152281097	A	T	152281097	3	4	96	1	0	0	0	0	1	0	0	0	5922	275	10	5	5924	5	FLG	1	152281097	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	903544	152281097	96969524	10	5496											
INTS3	65123	hgsc.bcm.edu	37	chr1	153701140	153701140	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagggaaaaggggcggcAgcagcagcagctgcttcggg	11	3	18	9	2	0	1	0	0	0	1	1	2	0	2	0	5	5	6	0	5	3	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	153701140	A	C	153701140	2	2	96	1	0	0	0	0	0	0	0	1	7779	175	7	5		5	INTS3	1	153701140	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	1420043	153701140	95549481	11	5497											
FCRL4	83417	hgsc.bcm.edu;ucsc.edu	37	chr1	157557715	157557715	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctcgtctccatatccaaTgcatcgataattgccattgt	10	15	5	11	2	2	0	0	0	2	0	6	1	3	0	3	0	2	1	3	0	3	5	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	157557715	T	C	157557715	3	2	96	1	0	0	0	0	1	0	0	0	5797	1464	51	3	1081	3	FCRL4	1	157557715	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	3856575	157557715	91692906	12	5498											
TADA1	117143	hgsc.bcm.edu;ucsc.edu	37	chr1	166839078	166839078	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgaaccacagctttaGgttagcccagtatctgcaga	10	11	9	11	0	1	2	0	1	1	1	1	2	1	2	2	1	5	5	2	1	4	5	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	166839078	G	C	166839078	3	2	96	1	0	0	0	0	1	0	0	0	15508	991	35	4	947	4	TADA1	1	166839078	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	9281363	166839078	82411543	13	5499											
PROX1	5629	hgsc.bcm.edu	37	chr1	214170552	214170552	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagtttccagcagctggTttcagcccgaaaagaacaga	14	7	10	10	1	1	3	1	0	0	3	2	4	2	3	2	1	4	4	2	1	3	2	rs146788962	alternate_allele	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	214170552	T	A	214170552	3	1	96	1	0	0	0	0	1	0	0	0	12562	1725	60	5	676	5	PROX1	1	214170552	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	47331474	214170552	35080069	14	5500											
HS1BP3	64342	hgsc.bcm.edu	37	chr2	20838372	20838372	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgccatccaggacagaggaAtctctgctggtgagccctgc	8	8	13	12	0	1	2	0	1	1	1	3	4	2	4	3	3	4	1	3	3	1	0	rs113332675		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	20838372	A	G	20838372	2	3	96	1	0	0	0	0	0	0	0	1	7361	98	4	3		3	HS1BP3	2	20838372	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10		20838372	222361001	15	5501											
USP34	9736	hgsc.bcm.edu	37	chr2	61571101	61571101	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatatttttttctgatttTgcactaacctgggagctact	8	17	7	9	0	1	1	0	1	1	0	1	2	1	2	2	1	4	2	2	1	3	8	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	61571101	T	C	61571101	2	2	96	1	0	0	0	0	0	0	0	1	17064	1799	63	3		3	USP34	2	61571101	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10	40732729	61571101	181628272	16	5502											
TTN	7273	hgsc.bcm.edu	37	chr2	179648812	179648812	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccttggcttcgcgtccGtgcagtacttcaaagcgctc	7	10	9	15	4	1	0	1	0	0	0	4	0	2	0	3	1	4	4	3	1	3	4	rs138788406	alternate_allele	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	179648812	G	T	179648812	3	4	96	1	0	0	0	0	1	0	0	0	16734	1136	40	4	108616	4	TTN	2	179648812	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	118077711	179648812	63550561	17	5503											
ADAM23	8745	hgsc.bcm.edu	37	chr2	207424812	207424812	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaataccggcagcgcattaAgcagcatgctgatgctgtgc	12	8	11	10	2	0	1	0	1	0	0	0	1	0	1	1	1	7	6	1	1	4	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	207424812	A	T	207424812	3	4	96	1	0	0	0	0	1	0	0	0	245	72	3	5	1181	5	ADAM23	2	207424812	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	27776000	207424812	35774561	18	5504											
C2orf24	0	hgsc.bcm.edu	37	chr2	220038162	220038162	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgtaggtgtaccagccTcgccaccgtccctgctgctc	4	11	10	16	2	1	0	0	0	1	0	4	0	2	0	5	1	4	4	5	1	2	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	220038162	T	A	220038162	2	1	96	1	0	0	0	0	0	0	0	1	2159	1538	54	5		5	C2orf24	2	220038162	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10	12613350	220038162	23161211	19	5505											
CIDEC	63924	hgsc.bcm.edu	37	chr3	9908860	9908860	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgggataagggatgaggcCttgcccttggggggctgccc	5	8	18	10	1	0	1	0	1	0	0	1	3	0	3	3	6	2	1	3	6	1	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	9908860	C	T	9908860	2	4	96	1	0	0	0	0	0	0	0	1	3427	680	24	2		2	CIDEC	3	9908860	Silent	SNP	C	TCGA-B0-4841-01A-01D-1361-10		9908860	188113570	20	5506											
XPC	7508	hgsc.bcm.edu	37	chr3	14193901	14193901	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgtccctggaatgcagAgtgtgcacacaatccctgtg	9	9	11	12	1	0	1	0	0	0	1	2	2	2	2	2	1	2	2	2	1	2	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	14193901	A	T	14193901	2	4	96	1	0	0	0	0	0	0	0	1	17440	291	11	5		5	XPC	3	14193901	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	4285041	14193901	183828529	21	5507											
IL1RAP	3556	hgsc.bcm.edu;ucsc.edu	37	chr3	190322001	190322001	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcatcaagtgcccactctTtgaacacttcttgaaattca	11	13	5	12	1	4	2	2	2	2	0	5	2	4	2	1	0	2	1	1	0	3	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	190322001	T	G	190322001	3	3	96	1	0	0	0	0	1	0	0	0	7660	1841	64	5	155	5	IL1RAP	3	190322001	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	176128100	190322001	7700429	22	5508											
TMPRSS11F	389208	hgsc.bcm.edu	37	chr4	68930482	68930482	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagatgagtctgggaggcaAactctctggactatatttga	12	12	11	6	0	2	3	0	2	2	1	3	5	2	5	0	3	1	1	0	3	4	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	68930482	A	G	68930482	2	3	96	1	0	0	0	0	0	0	0	1	16242	1	1	3		3	TMPRSS11F	4	68930482	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10		68930482	122223794	23	5509											
UGT2B28	54490	hgsc.bcm.edu	37	chr4	70160277	70160277	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgttatgaaattatcaaTaattcaacatgatcaaccag	18	12	5	6	0	3	2	3	2	0	0	3	3	3	2	1	0	2	1	1	0	8	4	rs78792884		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	70160277	T	G	70160277	3	3	96	1	0	0	0	0	1	0	0	0	16959	1406	49	5	1362	5	UGT2B28	4	70160277	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	1229795	70160277	120993999	24	5510											
KLHL8	57563	hgsc.bcm.edu;ucsc.edu	37	chr4	88099693	88099693	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggtccaaagaaccaactGtttttgttgatagaatagca	13	13	8	7	0	1	3	0	1	1	2	2	3	2	3	2	1	3	3	2	1	6	5	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	88099693	G	A	88099693	2	1	96	1	0	0	0	0	0	0	0	1	8395	1368	48	2		2	KLHL8	4	88099693	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	17939416	88099693	103054583	25	5511											
COL25A1	84570	hgsc.bcm.edu;ucsc.edu	37	chr4	109790280	109790280	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggtaagcctggttctccTtgaggaccaatgaaacctgg	9	10	11	11	0	1	2	0	2	1	0	2	3	1	3	5	4	2	2	5	4	3	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	109790280	T	C	109790280	2	2	96	1	0	0	0	0	0	0	0	1	3684	1606	56	3		3	COL25A1	4	109790280	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10	21690587	109790280	81363996	26	5512											
LRIT3	345193	hgsc.bcm.edu	37	chr4	110791088	110791090	+	In_Frame_Del	DEL	TCT	TCT	-																															cctcttccttctcccccacaTcttctttttctgcttctact																								rs147608421	by1000genomes	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		-	110791090	TCT	-	110791088	7	5	96	1	0	1	0	1	0	0	0	0	8949	1435	50	0	1058	0	LRIT3	4	110791088	In_Frame_Del	DEL	TCT	TCGA-B0-4841-01A-01D-1361-10	1000808	110791088	80363188	27	5513											
USP53	54532	hgsc.bcm.edu;ucsc.edu	37	chr4	120192821	120192821	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttagtgaaagtgaaaaAagacagcatagtccaagaca	19	9	8	5	0	0	4	0	2	0	2	1	4	1	4	1	0	1	1	1	0	7	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	120192821	A	C	120192821	3	2	96	1	0	0	0	0	1	0	0	0	17083	11	1	5	1852	5	USP53	4	120192821	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	9401733	120192821	70961455	28	5514											
CCRN4L	25819	hgsc.bcm.edu;ucsc.edu	37	chr4	139965861	139965861	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatgggaagaaaggaaaTgtctcatcctggaagaaatc	17	8	10	6	0	2	2	2	0	1	2	5	5	3	5	1	3	0	0	1	3	6	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	139965861	T	C	139965861	3	2	96	1	0	0	0	0	1	0	0	0	2951	1464	51	3	539	3	CCRN4L	4	139965861	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	19773040	139965861	51188415	29	5515											
C4orf27	54969	hgsc.bcm.edu;ucsc.edu	37	chr4	170671701	170671701	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacctgaaataccccatGtggtactgagttttattatc	10	16	6	9	0	0	2	0	2	0	0	1	2	0	2	3	1	3	2	3	1	6	7	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	170671701	G	A	170671701	2	1	96	1	0	0	0	0	0	0	0	1	2258	1368	48	2		2	C4orf27	4	170671701	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	30705840	170671701	20482575	30	5516											
SKIV2L2	23517	hgsc.bcm.edu;ucsc.edu	37	chr5	54645468	54645468	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttatccgatgaagataaAaaactccctcaggtgagttt	13	12	8	8	1	1	3	1	2	0	1	3	4	3	3	2	1	2	2	2	1	5	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	54645468	A	G	54645468	2	3	96	1	0	0	0	0	0	0	0	1	14362	11	1	3		3	SKIV2L2	5	54645468	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10		54645468	126269792	31	5517											
BDP1	55814	hgsc.bcm.edu;ucsc.edu	37	chr5	70855948	70855948	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcatggacaagaatgtGcctcagttacctcaggatga	12	9	11	9	0	2	2	2	1	0	1	2	4	2	4	2	2	3	3	2	2	3	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	70855948	G	A	70855948	2	1	96	1	0	0	0	0	0	0	0	1	1395	1306	46	2		2	BDP1	5	70855948	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	16210480	70855948	110059312	32	5518											
ADAMTS19	171019	hgsc.bcm.edu	37	chr5	128956323	128956323	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaatcagcatgggcattaaCcatgacaatgaccacccatc	15	7	6	13	0	1	2	1	2	0	0	2	2	1	2	3	1	2	2	3	1	3	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	128956323	C	A	128956323	3	1	96	1	0	0	0	0	1	0	0	0	264	506	18	4	1507	4	ADAMTS19	5	128956323	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	58100375	128956323	51958937	33	5519											
FAM135A	57579	hgsc.bcm.edu;ucsc.edu	37	chr6	71235353	71235353	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcacctgatgaaaattctAagaaatctgttgtacctgaa	14	13	7	7	0	3	4	1	3	2	1	3	4	3	4	2	0	1	2	2	0	6	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	71235353	A	T	71235353	4	4	96	1	0	0	0	0	0	1	0	0	5448	363	13	5	2694	5	FAM135A	6	71235353	Nonsense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10		71235353	99879714	34	5520											
SNX3	8724	hgsc.bcm.edu	37	chr6	108533446	108533446	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcgttctgtgccagaggAtgaccagcgaccctgagaat	9	9	12	11	3	1	3	0	2	1	2	2	6	1	4	3	1	2	2	3	1	1	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	108533446	A	T	108533446	3	4	96	1	0	0	0	0	1	0	0	0	14901	330	12	5	96	5	SNX3	6	108533446	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	37298093	108533446	62581621	35	5521											
TPD52L1	7164	hgsc.bcm.edu;ucsc.edu	37	chr6	125569531	125569531	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagttcggagacatgaggTactgtgggaaaataccatgg	14	8	14	5	1	0	3	0	1	0	2	1	5	0	4	1	4	2	2	1	4	5	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	125569531	T	C	125569531	5	2	96	1	0	0	0	0	0	0	1	0	16397	1652	57	3	402	3	TPD52L1	6	125569531	Splice_Site	SNP	T	TCGA-B0-4841-01A-01D-1361-10	17036085	125569531	45545536	36	5522											
PEX3	8504	hgsc.bcm.edu;ucsc.edu	37	chr6	143792575	143792575	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatcaagtattcagcaccTacttggagatggtaagattc	12	14	8	7	0	2	2	2	0	0	2	3	3	2	2	1	2	2	3	1	2	5	8	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	143792575	T	A	143792575	3	1	96	1	0	0	0	0	1	0	0	0	11747	1522	53	5	534	5	PEX3	6	143792575	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	18223044	143792575	27322492	37	5523											
TCP10L2	401285	hgsc.bcm.edu	37	chr6	167595371	167595371	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttccaggagctctgcaTgccgctccctccagacagga	9	8	10	14	1	1	1	0	0	1	1	4	4	4	3	4	2	3	3	4	2	1	1	rs2989550	bycluster	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	167595371	T	C	167595371	2	2	96	1	0	0	0	0	0	0	0	1	15711	1461	51	3		3	TCP10L2	6	167595371	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10	23802796	167595371	3519696	38	5524											
PMS2	5395	hgsc.bcm.edu	37	chr7	6042131	6042131	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcgcacaggtagtgtggAaaataactgctgcacgctga	12	8	13	8	2	0	1	0	1	0	0	0	2	0	2	0	3	3	5	0	3	4	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	6042131	A	C	6042131	3	2	96	1	0	0	0	0	1	0	0	0	12143	246	9	5	2142	5	PMS2	7	6042131	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10		6042131	153096532	39	5525											
ELMO1	9844	hgsc.bcm.edu;ucsc.edu	37	chr7	37311449	37311449	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacttactggagatgtggtTaatcgaaggatagtgccatt	12	12	11	6	1	0	1	0	0	0	1	1	4	0	2	1	3	3	1	1	3	5	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	37311449	T	C	37311449	2	2	96	1	0	0	0	0	0	0	0	1	5065	1751	61	3		3	ELMO1	7	37311449	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10	31269318	37311449	121827214	40	5526											
RAMP3	10268	hgsc.bcm.edu	37	chr7	45222989	45222989	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggtggtgtggcgcagcaAacgcaccgacacgctgctgt	7	7	14	13	4	0	0	0	0	0	0	0	1	0	0	2	3	3	5	2	3	1	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	45222989	A	C	45222989	3	2	96	1	0	0	0	0	1	0	0	0	13025	14	1	5	435	5	RAMP3	7	45222989	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	7911540	45222989	113915674	41	5527											
ZCWPW1	55063	hgsc.bcm.edu;ucsc.edu	37	chr7	100017327	100017327	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctgcttggaacattctTcatggttgctttttcctctt	4	20	6	11	0	3	0	1	0	2	0	5	1	5	1	2	2	3	3	2	2	1	8	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	100017327	T	A	100017327	4	1	96	1	0	0	0	0	0	1	0	0	17596	1792	62	5	1798	5	ZCWPW1	7	100017327	Nonsense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	54794338	100017327	59121336	42	5528											
ARHGEF5	7984	hgsc.bcm.edu;ucsc.edu	37	chr7	144070338	144070338	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtatgcgacggacagaggaActaatctacctgagccagaa	15	6	11	9	2	1	3	0	1	1	2	1	6	1	5	2	2	4	1	2	2	5	3	rs179371	bysubmitter	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	144070338	A	G	144070338	2	3	96	1	0	0	0	0	0	0	0	1	909	40	2	3		3	ARHGEF5	7	144070338	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	44053011	144070338	15068325	43	5529											
SSPO	23145	hgsc.bcm.edu	37	chr7	149480201	149480201	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcttgtggcccaggtgcagGgtctgtgtggcaccttcacc	4	11	14	12	0	2	0	1	0	1	0	2	0	2	0	3	4	2	3	3	4	0	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	149480201	G	T	149480201	3	4	96	1	0	0	0	0	1	0	0	0	15190	1232	43	4	2143	4	SSPO	7	149480201	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	5409863	149480201	9658462	44	5530											
REPIN1	29803	hgsc.bcm.edu;ucsc.edu	37	chr7	150066808	150066808	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgagctctgccatggggaTaggggtgtctttattactgc	6	14	13	8	0	3	1	0	1	3	0	3	2	3	2	1	4	4	1	1	4	3	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	150066808	T	C	150066808	3	2	96	1	0	0	0	0	1	0	0	0	13229	1406	49	3	10	3	REPIN1	7	150066808	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	586607	150066808	9071855	45	5531											
HMBOX1	79618	hgsc.bcm.edu;ucsc.edu	37	chr8	28827803	28827803	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctacagctacagcttcCacacagacgcagcattcggg	10	8	8	15	2	1	1	0	0	1	1	4	1	3	1	2	1	5	4	2	1	2	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	28827803	C	T	28827803	2	4	96	1	0	0	0	0	0	0	0	1	7218	581	21	2		2	HMBOX1	8	28827803	Silent	SNP	C	TCGA-B0-4841-01A-01D-1361-10		28827803	117536219	46	5532											
RNF19A	25897	hgsc.bcm.edu;ucsc.edu	37	chr8	101271242	101271242	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgtcctctctcgtctcatTtatcttcatgttaccctttt	5	20	3	13	1	4	0	2	0	3	0	8	0	5	0	2	0	1	1	2	0	2	6	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	101271242	T	C	101271242	3	2	96	1	0	0	0	0	1	0	0	0	13472	1841	64	3	461	3	RNF19A	8	101271242	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	72443439	101271242	45092780	47	5533											
GRHL2	79977	hgsc.bcm.edu;ucsc.edu	37	chr8	102586051	102586051	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccccatcagcaaagtcaGggtaggggccacatttctca	12	7	9	13	0	3	0	3	0	1	0	4	0	3	0	3	3	1	2	3	3	2	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	102586051	G	C	102586051	3	2	96	1	0	0	0	0	1	0	0	0	6764	1014	35	4	912	4	GRHL2	8	102586051	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	1314809	102586051	43777971	48	5534											
TM7SF4	0	hgsc.bcm.edu	37	chr8	105360797	105360797	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcatgggtatctggacctCaggcactgatatcttcctaa	10	11	10	10	0	3	1	1	1	2	0	4	3	4	2	2	3	1	3	2	3	3	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	105360797	C	A	105360797	4	1	96	1	0	0	0	0	0	1	0	0	15975	838	29	4	19	4	TM7SF4	8	105360797	Nonsense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	2774746	105360797	41003225	49	5535											
FBP1	2203	hgsc.bcm.edu	37	chr9	97365720	97365720	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagcacgtcgtcgggggaTcccaagatcaccggcgccct	7	6	13	15	6	1	1	1	0	0	1	5	3	2	2	3	3	1	1	3	3	1	0	rs1769257	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	97365720	T	C	97365720	2	2	96	1	0	0	0	0	0	0	0	1	5705	1422	50	3		3	FBP1	9	97365720	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10		97365720	43847711	50	5536											
ZNF618	114991	hgsc.bcm.edu	37	chr9	116770786	116770786	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accaaggtgtcgtggccacgGacgaggtgaaggaggagccc	10	4	17	10	3	0	1	0	1	0	0	1	5	0	4	3	6	1	0	3	6	2	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	116770786	G	A	116770786	3	1	96	1	0	0	0	0	1	0	0	0	18041	1174	41	2	640	2	ZNF618	9	116770786	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	19405066	116770786	24442645	51	5537											
DFNB31	25861	hgsc.bcm.edu	37	chr9	117168640	117168640	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctgtactcactgcgcGtctggggcagcgccctcact	4	10	11	16	3	3	0	2	0	1	0	3	0	3	0	2	2	4	3	2	2	1	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	117168640	G	A	117168640	3	1	96	1	0	0	0	0	1	0	0	0	4455	1145	40	1	508	1	DFNB31	9	117168640	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	397854	117168640	24044791	52	5538											
GAPVD1	26130	hgsc.bcm.edu	37	chr9	128086083	128086083	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatttctctaggtccttCaaatcgctccaattcagtgt	11	14	5	11	1	3	0	2	0	1	0	7	0	5	0	2	1	1	1	2	1	4	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	128086083	C	A	128086083	4	1	96	1	0	0	0	0	0	1	0	0	6239	838	29	4	1769	4	GAPVD1	9	128086083	Nonsense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	10917443	128086083	13127348	53	5539											
MED27	9442	hgsc.bcm.edu	37	chr9	134889741	134889741	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaggtggtaggacaagAgttgtgggctgagcctttgg	8	10	17	6	0	0	3	0	2	0	1	0	4	0	4	1	5	1	3	1	5	2	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	134889741	A	G	134889741	2	3	96	1	0	0	0	0	0	0	0	1	9445	291	11	3		3	MED27	9	134889741	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	6803658	134889741	6323690	54	5540											
HPSE2	60495	hgsc.bcm.edu;ucsc.edu	37	chr10	100503663	100503663	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacccagttcccaagaaatgTtgtactttttgctggcgctg	8	14	9	10	1	0	1	0	0	0	1	1	1	1	1	2	1	3	5	2	1	4	6	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	100503663	T	C	100503663	3	2	96	1	0	0	0	0	1	0	0	0	7345	1725	60	3	1091	3	HPSE2	10	100503663	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10		100503663	35031084	55	5541											
HPSE2	60495	hgsc.bcm.edu	37	chr10	100992144	100992144	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atagtaatccgggcccgggcCcccgcggcttttcgccgggt	4	8	14	15	6	0	0	0	0	0	0	2	0	1	0	5	4	0	2	5	4	2	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	100992144	C	G	100992144	3	3	96	1	0	0	0	0	1	0	0	0	7345	623	22	4	1451	4	HPSE2	10	100992144	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	488481	100992144	34542603	56	5542											
C10orf2	56652	hgsc.bcm.edu	37	chr10	102748452	102748452	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggatctggaaccgagcaaTacctctctgggagctgcctg	9	8	13	11	1	2	0	0	0	2	0	3	5	2	3	3	3	5	2	3	3	3	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	102748452	T	G	102748452	3	3	96	1	0	0	0	0	1	0	0	0	1597	1406	49	5	487	5	C10orf2	10	102748452	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	1756308	102748452	32786295	57	5543											
DMBT1	1755	hgsc.bcm.edu	37	chr10	124340398	124340398	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctccccagtcccggccGacacccagcccaggtaggtc	8	4	10	19	2	0	0	0	0	0	0	3	1	2	0	6	3	2	2	6	3	1	1	rs113864071	alternate_allele	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	124340398	G	T	124340398	2	4	96	1	0	0	0	0	0	0	0	1	4577	1045	37	4		4	DMBT1	10	124340398	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	21591946	124340398	11194349	58	5544											
KRTAP5-1	387264	hgsc.bcm.edu	37	chr11	1606129	1606129	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccggaaccacagccAcccttggatcccccacaaga	12	3	7	19	1	0	1	0	0	0	1	1	3	1	3	7	2	3	0	7	2	2	1	rs76191756	bycluster;byfrequency;by1000genomes	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	1606129	A	C	1606129	2	2	96	1	0	0	0	0	0	0	0	1	8558	146	6	5		5	KRTAP5-1	11	1606129	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10		1606129	133400387	59	5545											
HBB	3043	hgsc.bcm.edu	37	chr11	5247865	5247865	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctcactcagtgtggcaAaggtgcccttgaggttgtcc	7	10	13	11	0	2	1	2	1	0	0	3	1	3	1	2	3	2	4	2	3	1	2	rs35693898	bycluster;alternate_allele	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	5247865	A	C	5247865	3	2	96	1	0	0	0	0	1	0	0	0	6978	14	1	5	194	5	HBB	11	5247865	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	3641736	5247865	129758651	60	5546											
IPO7	10527	hgsc.bcm.edu;ucsc.edu	37	chr11	9424852	9424852	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggcacacaagtctctgAattttgtctcaacactgctc	10	13	7	11	0	2	1	1	1	2	0	5	1	2	1	0	1	2	3	0	1	4	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	9424852	A	C	9424852	3	2	96	1	0	0	0	0	1	0	0	0	7797	246	9	5	106	5	IPO7	11	9424852	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	4176987	9424852	125581664	61	5547											
SAA1	6288	hgsc.bcm.edu;ucsc.edu	37	chr11	18288477	18288477	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttttctgctccttggtcctgGgtgtcagcagccgaagcttc	4	14	11	12	1	2	0	1	0	1	0	5	1	4	0	3	2	4	3	3	2	1	4	rs712021	byfrequency	TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	18288477	G	A	18288477	3	1	96	1	0	0	0	0	1	0	0	0	13800	1232	43	2	45	2	SAA1	11	18288477	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	8863625	18288477	116718039	62	5548											
RTN3	10313	hgsc.bcm.edu;ucsc.edu	37	chr11	63486909	63486909	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaatgtctgcattgctcaGtaggcagttttcacacacaa	11	11	7	12	0	3	0	2	0	1	0	3	0	3	0	1	1	2	5	1	1	3	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	63486909	G	A	63486909	3	1	96	1	0	0	0	0	1	0	0	0	13729	1029	36	2	945	2	RTN3	11	63486909	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	45198432	63486909	71519607	63	5549											
TSGA10IP	254187	hgsc.bcm.edu;ucsc.edu	37	chr11	65715562	65715562	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcctcgggatacgatgaaaCtttcgtgtctgccaacctcc	8	11	9	13	3	1	1	0	1	1	0	4	3	2	2	4	1	5	0	4	1	3	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	65715562	C	G	65715562	3	3	96	1	0	0	0	0	1	0	0	0	16617	565	20	4	1108	4	TSGA10IP	11	65715562	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	2228653	65715562	69290954	64	5550											
NOX4	50507	hgsc.bcm.edu	37	chr11	89059930	89059930	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catggcaaaagttttcagctGaaagactctttattgtattc	12	15	7	7	0	2	2	1	1	1	1	3	2	2	2	0	1	1	4	0	1	5	7	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	89059930	G	C	89059930	3	2	96	1	0	0	0	0	1	0	0	0	10558	1281	45	4	9	4	NOX4	11	89059930	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	23344368	89059930	45946586	65	5551											
MAP3K12	7786	hgsc.bcm.edu	37	chr12	53878111	53878111	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtccagatgcagcaggAtctgtcggaatgatgggcga	11	8	14	8	2	1	2	0	1	1	1	3	5	2	4	1	3	2	2	1	3	2	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	53878111	A	G	53878111	3	3	96	1	0	0	0	0	1	0	0	0	9246	333	12	3	1532	3	MAP3K12	12	53878111	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10		53878111	79973784	66	5552											
DNAJC14	85406	hgsc.bcm.edu	37	chr12	56221621	56221621	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcagttgcctgcaggcAtagatgagatggccacaagt	10	11	11	9	0	1	2	1	1	0	2	1	3	1	2	2	2	2	3	2	2	2	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	56221621	A	G	56221621	2	3	96	1	0	0	0	0	0	0	0	1	4633	224	8	3		3	DNAJC14	12	56221621	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	2343510	56221621	77630274	67	5553											
ESYT1	23344	hgsc.bcm.edu	37	chr12	56524688	56524688	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaaacatttacatttacAcgagtggaactgggtgaaaa	15	10	9	7	1	0	1	0	1	0	0	0	3	0	2	0	2	5	1	0	2	6	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	56524688	A	T	56524688	2	4	96	1	0	0	0	0	0	0	0	1	5264	146	6	5		5	ESYT1	12	56524688	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	303067	56524688	77327207	68	5554											
CHFR	55743	hgsc.bcm.edu	37	chr12	133454224	133454224	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagaccagtttattgctgggGaaggaaaggtcgcaacctaa	13	8	13	7	1	0	1	0	0	0	1	1	4	0	3	2	4	2	3	2	4	5	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	133454224	G	C	133454224	3	2	96	1	0	0	0	0	1	0	0	0	3337	1165	41	4	2005	4	CHFR	12	133454224	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	76929536	133454224	397671	69	5555											
PDS5B	23047	hgsc.bcm.edu	37	chr13	33281137	33281137	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagatgagggtgttccAactgatcaagccatcagagc	13	8	12	8	0	2	5	2	3	0	2	3	6	3	5	2	1	3	1	2	1	3	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	33281137	A	T	33281137	2	4	96	1	0	0	0	0	0	0	0	1	11692	117	5	5		5	PDS5B	13	33281137	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10		33281137	81888741	70	5556											
GMFB	2764	hgsc.bcm.edu;ucsc.edu	37	chr14	54948885	54948885	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acaaacctcaagctcctcatCcagtaccaccaggcgtttat	12	9	5	15	1	2	0	2	0	0	0	4	0	4	0	5	1	3	3	5	1	4	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	54948885	C	T	54948885	3	4	96	1	0	0	0	0	1	0	0	0	6489	855	30	2	312	2	GMFB	14	54948885	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10		54948885	52400655	71	5557											
DACT1	51339	hgsc.bcm.edu	37	chr14	59113726	59113726	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagactctgcccattcaaacGgtaacggccccagaccttca	11	7	7	16	2	3	2	2	0	1	2	3	2	3	2	4	2	3	1	4	2	2	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	59113726	G	A	59113726	2	1	96	1	0	0	0	0	0	0	0	1	4222	1103	39	1		1	DACT1	14	59113726	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	4164841	59113726	48235814	72	5558											
ZBTB1	22890	hgsc.bcm.edu;ucsc.edu	37	chr14	64990159	64990159	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatcaaggaaacttcagaaAacatgaccatgtacggcata	17	8	8	8	1	2	3	2	2	0	1	2	4	2	4	1	2	3	2	1	2	6	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	64990159	A	C	64990159	3	2	96	1	0	0	0	0	1	0	0	0	17521	14	1	5	1939	5	ZBTB1	14	64990159	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	5876433	64990159	42359381	73	5559											
NUMB	8650	hgsc.bcm.edu;ucsc.edu	37	chr14	73822411	73822411	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atgtggacgactggcctctgGaacataaacatccttctttc	10	12	8	11	1	2	0	0	0	2	0	4	3	3	2	2	3	2	0	2	3	3	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	73822411	G	C	73822411	3	2	96	1	0	0	0	0	1	0	0	0	10751	1174	41	4	1946	4	NUMB	14	73822411	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	8832252	73822411	33527129	74	5560											
INO80	54617	hgsc.bcm.edu	37	chr15	41280146	41280146	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctgctggtccacagtgggGttccagtcgctatcatagaa	8	10	12	11	1	1	1	1	0	0	1	4	1	3	1	3	3	1	3	3	3	3	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	41280146	G	T	41280146	3	4	96	1	0	0	0	0	1	0	0	0	7746	1252	44	4	1101	4	INO80	15	41280146	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10		41280146	61251246	75	5561											
PKM2	0	hgsc.bcm.edu	37	chr15	72495427	72495427	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ataagaagcctccacgctgcCcatggccatggcttccatga	10	8	9	14	1	0	2	0	1	0	1	2	2	2	2	5	2	2	2	5	2	2	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	72495427	C	G	72495427	3	3	96	1	0	0	0	0	1	0	0	0	11977	623	22	4	535	4	PKM2	15	72495427	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	31215281	72495427	30035965	76	5562											
PRSS22	64063	hgsc.bcm.edu	37	chr16	2905796	2905796	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgggaccgagagccagggTtccccagctgccaggccccc	6	5	13	17	1	1	1	0	0	1	1	2	3	2	2	7	3	3	2	7	3	0	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	2905796	T	G	2905796	3	3	96	1	0	0	0	0	1	0	0	0	12621	1725	60	5	627	5	PRSS22	16	2905796	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10		2905796	87448957	77	5563											
ATP2A1	487	hgsc.bcm.edu	37	chr16	28913193	28913193	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccctcagacaggtgatGgcgtcaatgacgcccctgcc	7	8	10	16	2	2	3	2	2	0	1	4	3	4	3	5	2	1	0	5	2	1	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	28913193	T	T	28913193	3	4	96	1	0	0	0	0	1	0	0	0	1136	1348	47	4	2172	4	ATP2A1	16	28913193	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	26007397	28913193	61441560	78	5564											
TBX6	6911	hgsc.bcm.edu;ucsc.edu	37	chr16	30097589	30097589	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccagatagcccccaggcGcggtgtatggtagagggaag	10	6	15	10	2	0	2	0	0	0	2	1	3	1	3	3	4	1	2	3	4	4	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	30097589	G	T	30097589	3	4	96	1	0	0	0	0	1	0	0	0	15661	1087	38	4	46	4	TBX6	16	30097589	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	1184396	30097589	60257164	79	5565											
ZNF646	9726	hgsc.bcm.edu	37	chr16	31089315	31089315	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcaggaccatgtgtgcaAacatgaagaagaggccacgg	15	5	13	8	1	1	4	1	1	0	3	1	5	1	5	2	3	2	1	2	3	3	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	31089315	A	C	31089315	3	2	96	1	0	0	0	0	1	0	0	0	18061	14	1	5	1672	5	ZNF646	16	31089315	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	991726	31089315	59265438	80	5566											
MYH4	4622	hgsc.bcm.edu;ucsc.edu	37	chr17	10353952	10353952	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgactgcagggcatgggcCagagtgctcttggcctagac	7	8	15	11	0	1	3	0	1	1	2	1	3	1	3	2	3	2	4	2	3	1	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	10353952	C	T	10353952	2	4	96	1	0	0	0	0	0	0	0	1	10037	581	21	2		2	MYH4	17	10353952	Silent	SNP	C	TCGA-B0-4841-01A-01D-1361-10		10353952	70841258	81	5567											
TRIM16	10626	hgsc.bcm.edu	37	chr17	15539426	15539426	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccatctcggcactcCtgtactccaggtgggccttg	4	13	9	15	1	3	0	0	0	3	0	7	0	5	0	4	3	1	2	4	3	1	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	15539426	C	T	15539426	3	4	96	1	0	0	0	0	1	0	0	0	16490	681	24	2	937	2	TRIM16	17	15539426	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	5185474	15539426	65655784	82	5568											
KIAA0100	9703	hgsc.bcm.edu;ucsc.edu	37	chr17	26966630	26966630	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagttgaggcagacaatgCgttggcgactctgggacaac	10	7	16	8	2	1	2	0	1	1	1	1	5	1	4	0	4	2	3	0	4	2	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	26966630	C	T	26966630	3	4	96	1	0	0	0	0	1	0	0	0	8154	768	27	1	5781	1	KIAA0100	17	26966630	Missense_Mutation	SNP	C	TCGA-B0-4841-01A-01D-1361-10	11427204	26966630	54228580	83	5569											
CCL2	6347	hgsc.bcm.edu	37	chr17	32583304	32583304	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggaagatctcagtgcagaGgctcgcgagctatagaagaa	14	7	13	7	2	1	4	1	0	1	4	3	6	1	5	0	2	2	3	0	2	6	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	32583304	G	C	32583304	3	2	96	1	0	0	0	0	1	0	0	0	2891	1000	35	4	146	4	CCL2	17	32583304	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	5616674	32583304	48611906	84	5570											
AP2B1	163	hgsc.bcm.edu	37	chr17	33951514	33951514	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaacattaataagctgctGacagccctgaatgaatgcac	15	8	8	10	0	0	4	0	3	0	1	0	4	0	4	1	0	5	3	1	0	5	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	33951514	G	A	33951514	2	1	96	1	0	0	0	0	0	0	0	1	741	1277	45	2		2	AP2B1	17	33951514	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	1368210	33951514	47243696	85	5571											
MPO	4353	hgsc.bcm.edu	37	chr17	56351014	56351014	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaccaggggcaggtagTcccggtaagtgatgatctaa	11	7	13	10	1	1	2	0	2	1	0	2	2	2	2	3	4	1	4	3	4	3	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	56351014	T	C	56351014	3	2	96	1	0	0	0	0	1	0	0	0	9732	1667	58	3	871	3	MPO	17	56351014	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	22399500	56351014	24844196	86	5572											
METTL2A	339175	hgsc.bcm.edu	37	chr17	60501288	60501288	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctcctaccctgaaggtGcacctgcagtcctcgccgat	6	8	10	17	3	0	1	0	1	0	0	3	2	2	1	6	2	3	3	6	2	2	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	60501288	G	T	60501288	3	4	96	1	0	0	0	0	1	0	0	0	9499	1319	46	4	27	4	METTL2A	17	60501288	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	4150274	60501288	20693922	87	5573											
ASXL3	80816	hgsc.bcm.edu;ucsc.edu	37	chr18	31319454	31319454	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagaagcatctcttatgTccaacttaccattaacatct	13	14	3	11	0	3	1	1	0	2	1	5	1	4	1	2	0	4	1	2	0	6	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	31319454	T	G	31319454	3	3	96	1	0	0	0	0	1	0	0	0	1068	1667	58	5	2128	5	ASXL3	18	31319454	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10		31319454	46757794	88	5574											
SERPINB7	8710	hgsc.bcm.edu	37	chr18	61471602	61471602	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgaaacaatatttgagAgccctagggctgaaagatat	17	9	10	5	0	0	4	0	3	0	2	0	6	0	4	1	1	2	1	1	1	7	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	61471602	A	G	61471602	2	3	96	1	0	0	0	0	0	0	0	1	14108	301	11	3		3	SERPINB7	18	61471602	Silent	SNP	A	TCGA-B0-4841-01A-01D-1361-10	30152148	61471602	16605646	89	5575											
ZNF823	55552	hgsc.bcm.edu;ucsc.edu	37	chr19	11833073	11833073	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagggaaccggcaagacTgaaggctttaccacattgtt	12	9	11	9	2	0	2	0	1	0	1	1	4	0	3	2	3	2	3	2	3	5	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	11833073	T	A	11833073	3	1	96	1	0	0	0	0	1	0	0	0	18178	1580	55	5	560	5	ZNF823	19	11833073	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10		11833073	47295910	90	5576											
RFX1	5989	hgsc.bcm.edu	37	chr19	14104647	14104647	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagctcagtatacgcctgTgttgccatgccaacggtggg	7	11	13	10	2	1	0	1	0	0	0	1	0	1	0	3	2	5	4	3	2	4	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	14104647	T	C	14104647	2	2	96	1	0	0	0	0	0	0	0	1	13264	1683	59	3		3	RFX1	19	14104647	Silent	SNP	T	TCGA-B0-4841-01A-01D-1361-10	2271574	14104647	45024336	91	5577											
GATAD2A	54815	hgsc.bcm.edu	37	chr19	19616156	19616156	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctctgttctgttgcaggcgGgacccttgcgtttgtcagcc	3	13	13	12	2	3	0	1	0	2	0	3	1	3	1	2	2	3	5	2	2	0	4	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	19616156	G	T	19616156	3	4	96	1	0	0	0	0	1	0	0	0	6260	1232	43	4	1817	4	GATAD2A	19	19616156	Missense_Mutation	SNP	G	TCGA-B0-4841-01A-01D-1361-10	5511509	19616156	39512827	92	5578											
TSHZ3	57616	hgsc.bcm.edu	37	chr19	31770083	31770083	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcccccgtgaagatggAgccatagagcttgctgctct	7	9	13	12	1	1	3	0	1	1	2	1	4	1	4	3	2	4	4	3	2	2	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		G	31770083	A	G	31770083	3	3	96	1	0	0	0	0	1	0	0	0	16624	304	11	3	2633	3	TSHZ3	19	31770083	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	12153927	31770083	27358900	93	5579											
C20orf71	0	hgsc.bcm.edu;ucsc.edu	37	chr20	31815351	31815351	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctccttacagaacaggaGgctgctcatgaaccaaccca	12	8	7	14	0	2	2	1	1	1	1	3	3	2	3	3	2	5	2	3	2	4	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	31815351	G	A	31815351	2	1	96	1	0	0	0	0	0	0	0	1	2117	991	35	2		2	C20orf71	20	31815351	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10		31815351	31210169	94	5580											
RBM39	9584	hgsc.bcm.edu	37	chr20	34292616	34292616	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacctgccatgcaatgcaTtgacagcagcaatagctgca	13	7	8	13	0	0	1	0	1	0	0	0	1	0	1	3	0	7	6	3	0	3	2	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	34292616	T	C	34292616	3	2	96	1	0	0	0	0	1	0	0	0	13135	1493	52	3	134	3	RBM39	20	34292616	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	2477265	34292616	28732904	95	5581											
ZFP64	55734	hgsc.bcm.edu	37	chr20	50768804	50768804	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagaccggtggcgctgTggtggccactgcgatgttct	6	9	17	9	3	1	2	0	0	1	2	1	4	1	2	2	5	1	2	2	5	1	1	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	50768804	T	C	50768804	3	2	96	1	0	0	0	0	1	0	0	0	17651	1696	59	3	1313	3	ZFP64	20	50768804	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	16476188	50768804	12256716	96	5582											
MAPK1	5594	hgsc.bcm.edu;ucsc.edu	37	chr22	22142570	22142570	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcagcatttgggaacaGcctgttccatggcaccttat	9	11	11	10	0	1	0	1	0	0	0	2	2	2	2	3	3	3	3	3	3	2	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	22142570	G	A	22142570	2	1	96	1	0	0	0	0	0	0	0	1	9271	962	34	2		2	MAPK1	22	22142570	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10		22142570	29161996	97	5583											
SEZ6L	23544	hgsc.bcm.edu	37	chr22	26688760	26688760	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctcctctcctcctccacGgagaagcctggcccaccggg	6	7	10	18	2	2	1	0	0	2	1	6	3	4	1	7	3	1	0	7	3	1	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		T	26688760	G	T	26688760	2	4	96	1	0	0	0	0	0	0	0	1	14145	1103	39	4		4	SEZ6L	22	26688760	Silent	SNP	G	TCGA-B0-4841-01A-01D-1361-10	4546190	26688760	24615806	98	5584											
PATZ1	23598	hgsc.bcm.edu	37	chr22	31741483	31741483	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcgcagaagcgcccgccgtTtttgcgctgctggttcaggt	4	11	14	12	5	1	1	1	0	0	1	2	1	1	1	2	2	3	5	2	2	1	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		A	31741483	T	A	31741483	3	1	96	1	0	0	0	0	1	0	0	0	11476	1841	64	5	2260	5	PATZ1	22	31741483	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	5052723	31741483	19563083	99	5585											
SFI1	9814	hgsc.bcm.edu	37	chr22	31998685	31998685	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaggagcaggagtggcaAacagtggcctgtgcccacca	11	4	13	13	0	0	0	0	0	0	0	0	2	0	2	4	4	3	2	4	4	1	0	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	31998685	A	C	31998685	3	2	96	1	0	0	0	0	1	0	0	0	14158	11	1	5	1781	5	SFI1	22	31998685	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10	257202	31998685	19305881	100	5586											
FBXO7	25793	hgsc.bcm.edu;ucsc.edu	37	chr22	32894289	32894290	+	Frame_Shift_Del	DEL	AT	AT	-																															ccaggaattatcgggggtgaAtatgaccaaagaccaacact																								novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		-	32894290	AT	-	32894289	7	5	96	1	0	1	0	1	0	0	0	0	5760	98	4	0	1416	0	FBXO7	22	32894289	Frame_Shift_Del	DEL	AT	TCGA-B0-4841-01A-01D-1361-10	895604	32894289	18410277	101	5587											
GPR174	84636	hgsc.bcm.edu;ucsc.edu	37	chrX	78426650	78426650	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtattctatggttatatgaAagaaacaaaacgagctgtga	16	11	10	4	1	1	3	0	2	1	1	1	4	1	3	0	2	3	3	0	2	8	5	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	78426650	A	C	78426650	3	2	96	1	0	0	0	0	1	0	0	0	6672	14	1	5	148	5	GPR174	23	78426650	Missense_Mutation	SNP	A	TCGA-B0-4841-01A-01D-1361-10		78426650	76843910	102	5588											
FAM50A	9130	hgsc.bcm.edu	37	chrX	153674014	153674014	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccaacattgacaagaagTtctctgcgcactacgacgcg	13	8	8	12	4	1	2	0	1	1	1	3	3	2	2	1	0	3	2	1	0	5	3	novel		TCGA-B0-4841-01A-01D-1361-10	TCGA-B0-4841-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	cd70430c-c9de-4d59-b72c-50e471dbbebb	9542799b-552f-42d3-aa1f-cadfeeffb85d		C	153674014	T	C	153674014	3	2	96	1	0	0	0	0	1	0	0	0	5577	1725	60	3	151	3	FAM50A	23	153674014	Missense_Mutation	SNP	T	TCGA-B0-4841-01A-01D-1361-10	75247364	153674014	1596546	103	5589											
EBNA1BP2	10969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43637236	43637236	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcctcagatccaccgatCtccggtaccggacccagtgt	7	7	11	16	4	2	1	1	0	1	1	4	3	3	2	6	3	1	1	6	3	1	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	43637236	C	A	43637236	3	1	97	1	0	0	0	0	1	0	0	0	4885	912	32	4	711	4	EBNA1BP2	1	43637236	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08		43637236	205613385	1	5590											
FLG2	388698	broad.mit.edu;ucsc.edu	37	chr1	152324635	152324635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcactgtggccagatctcCttcttccagttgtactggat	7	14	8	12	0	3	1	1	0	2	1	5	2	4	2	3	2	1	2	3	2	1	4	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	152324635	A	A	152324635	3	1	97	1	0	0	0	0	1	0	0	0	5923	681	24	4	1552	4	FLG2	1	152324635	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	108687399	152324635	96925986	2	5591											
ARHGAP30	257106	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161018362	161018362	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttctgctgtcttcacCatctccttggtcttttcttg	2	19	8	12	0	6	0	1	0	5	0	7	0	6	0	2	2	1	2	2	2	0	6	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	161018362	C	T	161018362	3	4	97	1	0	0	0	0	1	0	0	0	879	594	21	2	860	2	ARHGAP30	1	161018362	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	8693727	161018362	88232259	3	5592											
CNTN2	6900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205041696	205041696	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctgtggtccctttccgAaatgagtctgcagtcaccgg	7	10	11	13	2	2	1	1	1	1	0	4	3	4	1	4	2	1	1	4	2	1	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		C	205041696	A	C	205041696	2	2	97	1	0	0	0	0	0	0	0	1	3641	233	9	5		5	CNTN2	1	205041696	Silent	SNP	A	TCGA-B0-4842-01A-02D-1421-08	44023334	205041696	44208925	4	5593											
DISP1	84976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223178568	223178568	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtagctgcccagatgccTacaaacacttgaactatggc	12	9	9	11	0	0	2	0	1	0	1	0	3	0	2	2	1	6	2	2	1	5	4	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		C	223178568	T	C	223178568	3	2	97	1	0	0	0	0	1	0	0	0	4539	1522	53	3	3855	3	DISP1	1	223178568	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08	18136872	223178568	26072053	5	5594											
PYCR2	29920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	226109762	226109762	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatcactttgggggctggCtggaatgccatcagcttcta	8	11	12	10	1	3	0	2	0	1	0	3	2	3	1	1	4	2	3	1	4	3	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	226109762	C	A	226109762	3	1	97	1	0	0	0	0	1	0	0	0	12858	796	28	4	642	4	PYCR2	1	226109762	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	2931194	226109762	23140859	6	5595											
PXDN	7837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1664726	1664726	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacactcatagcgacctgcGtctgcagggccaacgtcatt	10	8	9	14	3	3	0	2	0	1	0	3	1	3	0	2	1	4	1	2	1	2	2	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	1664726	G	A	1664726	2	1	97	1	0	0	0	0	0	0	0	1	12849	1136	40	1		1	PXDN	2	1664726	Silent	SNP	G	TCGA-B0-4842-01A-02D-1421-08		1664726	241534647	7	5596											
NRBP1	29959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27663740	27663740	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacagcaggaggaggtgaCatcacctgtcgtgcccccct	8	6	12	15	1	1	1	1	1	0	0	2	3	1	3	5	3	2	1	5	3	0	0	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	27663740	C	T	27663740	3	4	97	1	0	0	0	0	1	0	0	0	10642	478	17	2	1312	2	NRBP1	2	27663740	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	25999014	27663740	215535633	8	5597											
NRXN1	9378	broad.mit.edu	37	chr2	50724852	50724852	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatgatcacctgccatttgaCctaaaagagaagataatata	17	11	6	7	0	1	4	1	2	0	2	1	5	1	4	3	0	1	0	3	0	7	6	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	50724852	G	G	50724852	3	3	97	1	0	0	0	0	1	0	0	0	10665	521	18	4	2328	4	NRXN1	2	50724852	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	23061112	50724852	192474521	9	5598											
SPTBN1	6711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	54883108	54883108	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagaaatgatcgacaagtggGaagaccgatgggaatggtta	16	7	14	4	2	0	3	0	1	0	2	1	7	0	5	1	3	0	1	1	3	6	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	54883108	G	T	54883108	4	4	97	1	0	0	0	0	0	1	0	0	15120	1175	41	4	6242	4	SPTBN1	2	54883108	Nonsense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	4158256	54883108	188316265	10	5599											
VHL	7428	broad.mit.edu	37	chr3	10191470	10191470	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtttttgcccttccaGtgtatactctgaaagagcga	9	15	9	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	3	6	rs5030817		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	10191470	A	A	10191470	5	1	97	1	0	0	0	0	0	0	1	0	17161	1043	36	2	473	2	VHL	3	10191470	Splice_Site	SNP	G	TCGA-B0-4842-01A-02D-1421-08		10191470	187830960	11	5600											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52439306	52439306	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccagccgcctcctctgcAccatctgagacagggcaaga	11	5	10	15	1	2	2	0	1	2	2	3	4	3	2	5	1	3	2	5	1	2	0	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		C	52439306	A	C	52439306	2	2	97	1	0	0	0	0	0	0	0	1	1311	146	6	5		5	BAP1	3	52439306	Silent	SNP	A	TCGA-B0-4842-01A-02D-1421-08	42247836	52439306	145583124	12	5601											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52620674	52620674	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaaaaacatcctcatctcGgaagttttctgggcataact	13	11	7	10	1	3	0	1	0	2	0	5	2	4	1	1	2	2	2	1	2	4	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	52620674	G	A	52620674	4	1	97	1	0	0	0	0	0	1	0	0	11491	1124	39	1	1790	1	PBRM1	3	52620674	Nonsense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	181368	52620674	145401756	13	5602											
IGSF10	285313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151165112	151165112	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtggatgaatgttgattgGttgtgccttgtatttggctt	6	18	13	4	0	0	2	0	2	0	0	0	3	0	3	1	3	1	4	1	3	2	7	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	151165112	G	A	151165112	3	1	97	1	0	0	0	0	1	0	0	0	7597	1261	44	2	5274	2	IGSF10	3	151165112	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	98544438	151165112	46857318	14	5603											
DHX36	170506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154018456	154018456	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatcatcctccatcattTctataacatctacagtactt	11	17	1	12	0	4	0	2	0	2	0	6	0	6	0	2	0	3	1	2	0	5	8	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	154018456	T	A	154018456	3	1	97	1	0	0	0	0	1	0	0	0	4509	1783	62	5	1698	5	DHX36	3	154018456	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08	2853344	154018456	44003974	15	5604											
MFSD1	64747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	158523240	158523240	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctttggtggctttttGatagaccgagtatttggaat	7	19	11	4	1	1	2	0	1	1	1	1	4	1	3	1	3	0	3	1	3	3	7	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	158523240	G	T	158523240	3	4	97	1	0	0	0	0	1	0	0	0	9527	1281	45	4	463	4	MFSD1	3	158523240	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	4504784	158523240	39499190	16	5605											
ATP13A5	344905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193007828	193007828	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctatatggagccagctttgGgtaggcatgagttgaactca	10	12	12	7	0	2	2	1	2	1	0	2	3	2	3	1	3	3	4	1	3	4	5	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	193007828	G	T	193007828	3	4	97	1	0	0	0	0	1	0	0	0	1127	1232	43	4	805	4	ATP13A5	3	193007828	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	34484588	193007828	5014602	17	5606											
NOP14	8602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2955338	2955338	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctagcttctccgtgagcTcgagggcatcttctcgttga	5	13	12	11	3	4	2	0	2	4	0	7	3	4	2	1	2	2	4	1	2	1	4	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		C	2955338	T	C	2955338	3	2	97	1	0	0	0	0	1	0	0	0	10536	1551	54	3	1982	3	NOP14	4	2955338	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08		2955338	188198938	18	5607											
ANKRD50	57182	broad.mit.edu;ucsc.edu	37	chr4	125590998	125590998	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtaacgaaggctgcataTcccctccaccagtactacca	12	7	6	16	2	0	0	0	0	0	0	2	1	2	0	5	1	4	4	5	1	5	4	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	125590998	G	G	125590998	3	3	97	1	0	0	0	0	1	0	0	0	677	1435	50	5	859	5	ANKRD50	4	125590998	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08	122635660	125590998	65563278	19	5608											
TERT	7015	broad.mit.edu	37	chr5	1255447	1255447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagcagagggaggccgtgtCagagatgacgcgcaggaaaa	13	4	17	7	3	1	3	1	1	0	2	1	6	1	5	1	3	1	3	1	3	3	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	1255447	T	T	1255447	3	4	97	1	0	0	0	0	1	0	0	0	15763	826	29	2	298	2	TERT	5	1255447	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08		1255447	179659813	20	5609											
LIFR	3977	hgsc.bcm.edu;ucsc.edu	37	chr5	38486023	38486023	+	Frame_Shift_Del	DEL	C	C	-																															tgttttaccttgaagatcagCaattctcagtgtcttctggg																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		-	38486023	C	-	38486023	7	5	97	1	0	1	0	1	0	0	0	0	8780	710	25	0	914	0	LIFR	5	38486023	Frame_Shift_Del	DEL	C	TCGA-B0-4842-01A-02D-1421-08	37230576	38486023	142429237	21	5610											
HEATR7B2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41064635	41064635	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcatggtttgcatggtGagcagggtcatcatcatgaa	10	11	13	7	0	3	3	3	3	0	0	3	3	3	3	0	3	3	4	0	3	1	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	41064635	G	T	41064635	2	4	97	1	0	0	0	0	0	0	0	1	7035	1277	45	4		4	HEATR7B2	5	41064635	Silent	SNP	G	TCGA-B0-4842-01A-02D-1421-08	2578612	41064635	139850625	22	5611											
SV2C	22987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	75427933	75427933	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgatgagtacaaggacCggcgggagctggaatcagaa	13	4	17	7	3	1	2	1	1	0	1	1	6	1	5	1	5	2	2	1	5	4	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	75427933	C	T	75427933	3	4	97	1	0	0	0	0	1	0	0	0	15418	643	23	1	360	1	SV2C	5	75427933	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	34363298	75427933	105487327	23	5612											
ACSL6	23305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131323842	131323842	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgatcagcttgaggcctgGagtctccttcctctccacat	7	12	9	13	0	3	2	1	2	2	0	6	4	4	3	4	2	1	1	4	2	0	2	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	131323842	G	T	131323842	3	4	97	1	0	0	0	0	1	0	0	0	181	1174	41	4	1580	4	ACSL6	5	131323842	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	55895909	131323842	49591418	24	5613											
PCDHA13	56136	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140263639	140263639	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggtggcgaaggtgcgcGcggtggacgccgattcgggc	5	6	20	10	8	0	0	0	0	0	0	1	3	0	1	1	6	1	0	1	6	1	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	140263639	G	A	140263639	3	1	97	1	0	0	0	0	1	0	0	0	11523	1087	38	1	1788	1	PCDHA13	5	140263639	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	8939797	140263639	40651621	25	5614											
RBM27	54439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145610355	145610355	+	Missense_Mutation	SNP	T	T	C																															tattcccagcactgttactgTgatcgcacctgctcaccact																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		C	145610355	T	C	145610355	3	2	97	1	0	0	0	0	1	0	0	0	13129	1696	59	3	747	3	RBM27	5	145610355	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08	5346716	145610355	35304905	26	5615	65	2									
RBM27	54439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145610357	145610357	+	Missense_Mutation	SNP	A	A	T																															ttcccagcactgttactgtgAtcgcacctgctcaccactct																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	145610357	A	T	145610357	3	4	97	1	0	0	0	0	1	0	0	0	13129	333	12	5	749	5	RBM27	5	145610357	Missense_Mutation	SNP	A	TCGA-B0-4842-01A-02D-1421-08	2	145610357	35304903	27	5616	65	2									
HLA-E	3133	broad.mit.edu;hgsc.bcm.edu	37	chr6	30457316	30457316	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggctgggatcatggtagAtggaaccctccttttactcc	9	11	11	10	0	1	2	1	0	0	2	3	4	3	4	3	4	2	2	3	4	3	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	30457316	A	G	30457316	3	3	97	1	0	0	0	0	1	0	0	0	7210	333	12	3	10	3	HLA-E	6	30457316	Missense_Mutation	SNP	A	TCGA-B0-4842-01A-02D-1421-08		30457316	140657751	28	5617											
ABRA	137735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	107773573	107773573	+	Missense_Mutation	SNP	G	G	A																															atagccctcatctcctttgtGtaggcgggtggacatggcca																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	107773573	G	A	107773573	3	1	97	1	0	0	0	0	1	0	0	0	100	1377	48	2	311	2	ABRA	8	107773573	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08		107773573	38590449	29	5618	66	3									
ABRA	137735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	107773580	107773580	+	Silent	SNP	G	G	A																															tcatctcctttgtgtaggcgGgtggacatggccagctcgta																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	107773580	G	A	107773580	2	1	97	1	0	0	0	0	0	0	0	1	100	1219	43	2		2	ABRA	8	107773580	Silent	SNP	G	TCGA-B0-4842-01A-02D-1421-08	7	107773580	38590442	30	5619	66	3									
ABRA	137735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	107773583	107773583	+	Silent	SNP	G	G	A																															tctcctttgtgtaggcgggtGgacatggccagctcgtaatc																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	107773583	G	A	107773583	2	1	97	1	0	0	0	0	0	0	0	1	100	1335	47	2		2	ABRA	8	107773583	Silent	SNP	G	TCGA-B0-4842-01A-02D-1421-08	3	107773583	38590439	31	5620	66	3									
ANKRD20A1	84210	hgsc.bcm.edu	37	chr9	67938638	67938641	+	Frame_Shift_Del	DEL	TACT	TACT	-																															tttggaacataaaaagaagaTacttaaaaaggagaaatcag																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	TACT	TACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		-	67938641	TACT	-	67938638	7	5	97	1	0	1	0	1	0	0	0	0	648	1406	49	0	795	0	ANKRD20A1	9	67938638	Frame_Shift_Del	DEL	TACT	TCGA-B0-4842-01A-02D-1421-08		67938638	73274793	32	5621											
TSC1	7248	hgsc.bcm.edu;ucsc.edu	37	chr9	135782693	135782693	+	Frame_Shift_Del	DEL	C	C	-																															acgcagaaattttacctgatCctctgtcattcagaagatgg																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		-	135782693	C	-	135782693	7	5	97	1	0	1	0	1	0	0	0	0	16604	855	30	0	2210	0	TSC1	9	135782693	Frame_Shift_Del	DEL	C	TCGA-B0-4842-01A-02D-1421-08	67844055	135782693	5430738	33	5622											
OR51F1	256892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4790883	4790883	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgatttcacgtgcctcaaAccagaggatacctaatgttg	12	11	8	10	1	2	2	2	1	0	1	2	3	2	3	3	1	3	1	3	1	3	4	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	4790883	A	T	4790883	3	4	97	1	0	0	0	0	1	0	0	0	11096	43	2	5	676	5	OR51F1	11	4790883	Missense_Mutation	SNP	A	TCGA-B0-4842-01A-02D-1421-08		4790883	130215633	34	5623											
NELL1	4745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	21250960	21250960	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagggacacagctgcacCtgcaaaccgggctacgtggg	9	5	14	13	2	0	0	0	0	0	0	1	1	1	1	3	3	5	4	3	3	2	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	21250960	C	T	21250960	2	4	97	1	0	0	0	0	0	0	0	1	10333	668	24	2		2	NELL1	11	21250960	Silent	SNP	C	TCGA-B0-4842-01A-02D-1421-08	16460077	21250960	113755556	35	5624											
LARP4	113251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50821653	50821653	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggaactgaaagctctTggcatgaaatagcagctaca	14	9	9	9	0	2	2	1	2	1	0	2	3	2	3	0	2	5	4	0	2	5	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	50821653	T	A	50821653	3	1	97	1	0	0	0	0	1	0	0	0	8630	1812	63	5	133	5	LARP4	12	50821653	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08		50821653	83030242	36	5625											
LETMD1	25875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51450212	51450212	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtttgaagactcatacaaCtgtgattcaccaactggaca	13	11	7	10	1	2	3	2	2	0	1	3	4	2	4	1	1	3	1	1	1	4	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	51450212	C	G	51450212	3	3	97	1	0	0	0	0	1	0	0	0	8736	565	20	4	868	4	LETMD1	12	51450212	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	628559	51450212	82401683	37	5626											
DNAH10	196385	broad.mit.edu;hgsc.bcm.edu	37	chr12	124371778	124371778	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaaacttgggattgagaaCaaagcgatgatctttctgtt	12	14	10	5	1	2	3	0	3	2	1	2	6	2	4	0	1	3	1	0	1	3	5	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	124371778	C	G	124371778	3	3	97	1	0	0	0	0	1	0	0	0	4598	477	17	4	8761	4	DNAH10	12	124371778	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	72921566	124371778	9480117	38	5627											
KLHL1	57626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	70681442	70681442	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggaaagtccatgcctggCaccacctcctcctctagtga	9	8	8	16	0	1	1	0	1	1	0	4	2	4	2	7	2	1	1	7	2	2	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	70681442	C	A	70681442	2	1	97	1	0	0	0	0	0	0	0	1	8365	697	25	4		4	KLHL1	13	70681442	Silent	SNP	C	TCGA-B0-4842-01A-02D-1421-08		70681442	44488436	39	5628											
MEFV	4210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3304667	3304667	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcagctccgcccccgtacGgccgagggccgttcccctcg	3	6	13	19	6	0	0	0	0	0	0	3	1	2	0	7	3	2	4	7	3	1	2	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	3304667	G	A	3304667	3	1	97	1	0	0	0	0	1	0	0	0	9459	1116	39	1	1980	1	MEFV	16	3304667	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08		3304667	87050086	40	5629											
MVP	9961	broad.mit.edu	37	chr16	29853112	29853112	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtggtcagctaccgcgtgCcccacaacgctgcggtgcag	6	7	14	14	4	1	0	1	0	0	0	1	0	1	0	3	2	6	3	3	2	2	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	29853112	A	A	29853112	3	1	97	1	0	0	0	0	1	0	0	0	9996	739	26	4	1417	4	MVP	16	29853112	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	26548445	29853112	60501641	41	5630											
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31087733	31087733	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctcggcaccgagaactgCtccatccatctcccaaccag	9	8	6	18	2	2	1	0	0	2	1	7	2	4	1	5	1	3	2	5	1	2	0	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	31087733	C	G	31087733	3	3	97	1	0	0	0	0	1	0	0	0	18061	797	28	4	90	4	ZNF646	16	31087733	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	1234621	31087733	59267020	42	5631											
PDP2	57546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66919397	66919397	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accacaggctgaggccccagGataagttccttgtgctggcc	8	8	12	13	0	0	1	0	1	0	0	1	2	1	2	5	4	1	3	5	4	1	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	66919397	G	A	66919397	3	1	97	1	0	0	0	0	1	0	0	0	11686	1174	41	2	1212	2	PDP2	16	66919397	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	35831664	66919397	23435356	43	5632											
INPP5K	51763	hgsc.bcm.edu	37	chr17	1401343	1401344	+	Frame_Shift_Ins	INS	-	-	G																															gccggcggtatgggagtgtcINSggggccagcacagggctgcc																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	1401344	-	G	1401343	7	5	97	1	0	1	1	0	0	0	0	0	7760	884	31	0	516	0	INPP5K	17	1401343	Frame_Shift_Ins	INS	-	TCGA-B0-4842-01A-02D-1421-08		1401343	79793867	44	5633											
ASGR2	433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7010447	7010447	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgctccacccagttgaCggggcagcaggtcctttggg	5	10	15	11	1	0	1	0	1	0	0	2	1	2	1	3	5	2	4	3	5	0	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	7010447	C	A	7010447	3	1	97	1	0	0	0	0	1	0	0	0	1040	536	19	4	412	4	ASGR2	17	7010447	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	5609104	7010447	74184763	45	5634											
NCOR1	9611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15964798	15964798	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgggtgatgatcacgtctAtgaagttagctgcagtaatg	10	11	13	7	2	2	3	1	3	1	0	2	3	2	3	1	1	2	4	1	1	4	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	15964798	A	G	15964798	3	3	97	1	0	0	0	0	1	0	0	0	10235	449	16	3	1564	3	NCOR1	17	15964798	Missense_Mutation	SNP	A	TCGA-B0-4842-01A-02D-1421-08	8954351	15964798	65230412	46	5635											
HEXDC	284004	broad.mit.edu;ucsc.edu	37	chr17	80394586	80394586	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccggtgctctgggactaCacggccgacctggatgtgca	7	7	15	12	3	1	0	0	0	1	0	1	4	1	2	3	4	4	2	3	4	1	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	80394586	T	T	80394586	2	4	97	1	0	0	0	0	0	0	0	1	7075	489	17	2		2	HEXDC	17	80394586	Silent	SNP	C	TCGA-B0-4842-01A-02D-1421-08	64429788	80394586	800624	47	5636											
RTTN	25914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	67776858	67776858	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccgctcaagggacggcAggccatagaaatgaggcgca	12	4	15	10	3	1	2	1	1	0	1	2	3	2	3	2	5	0	3	2	5	3	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	67776858	A	G	67776858	3	3	97	1	0	0	0	0	1	0	0	0	13739	188	7	3	2989	3	RTTN	18	67776858	Missense_Mutation	SNP	A	TCGA-B0-4842-01A-02D-1421-08		67776858	10300390	48	5637											
CSNK1G2	1455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1980183	1980183	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaggagaaagagaaaatCgctgcagcgacacaagtgac	18	3	12	8	2	0	4	0	1	0	3	1	7	0	4	0	1	2	2	0	1	5	0	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	1980183	C	A	1980183	4	1	97	1	0	0	0	0	0	1	0	0	3955	893	31	4	1271	4	CSNK1G2	19	1980183	Nonsense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08		1980183	57148800	49	5638											
ZNF91	7644	broad.mit.edu;hgsc.bcm.edu	37	chr19	23543382	23543382	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctttgccacattcttcaCatttgtagggcttctctcca	8	15	6	12	0	3	0	1	0	2	0	5	0	4	0	2	1	2	3	2	1	2	6	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		T	23543382	C	T	23543382	3	4	97	1	0	0	0	0	1	0	0	0	18199	478	17	2	1180	2	ZNF91	19	23543382	Missense_Mutation	SNP	C	TCGA-B0-4842-01A-02D-1421-08	21563199	23543382	35585601	50	5639											
DMPK	1760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46281778	46281778	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtagccaagccggtgcaccGagtctatggccatgacaatc	10	7	11	13	3	1	1	0	1	1	0	2	2	1	1	4	2	3	2	4	2	4	2	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	46281778	G	A	46281778	3	1	97	1	0	0	0	0	1	0	0	0	4584	1059	37	1	1386	1	DMPK	19	46281778	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	22738396	46281778	12847205	51	5640											
CACNA1I	8911	broad.mit.edu;ucsc.edu	37	chr22	40075845	40075845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactcctcgcctgccggctGcaagaagtgtcaccacgaca	9	7	9	16	3	1	1	1	0	0	1	3	2	2	1	4	1	3	2	4	1	3	1	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	40075845	A	A	40075845	3	1	97	1	0	0	0	0	1	0	0	0	2546	1319	46	2	5643	2	CACNA1I	22	40075845	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08		40075845	11228721	52	5641											
ALG12	79087	hgsc.bcm.edu	37	chr22	50297496	50297497	+	Frame_Shift_Ins	INS	-	-	G																															tggtccccctcaggacggccINSgggggagcctctccagaagc																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	50297497	-	G	50297496	7	5	97	1	0	1	1	0	0	0	0	0	514	652	23	0	13	0	ALG12	22	50297496	Frame_Shift_Ins	INS	-	TCGA-B0-4842-01A-02D-1421-08	10221651	50297496	1007070	53	5642											
SH3KBP1	30011	hgsc.bcm.edu	37	chrX	19560246	19560247	+	Frame_Shift_Ins	INS	-	-	G																															ccgctgaggacagaggggctINSggcccaccgccacctgctgc																								novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	19560247	-	G	19560246	7	5	97	1	0	1	1	0	0	0	0	0	14257	1567	55	0	320	0	SH3KBP1	23	19560246	Frame_Shift_Ins	INS	-	TCGA-B0-4842-01A-02D-1421-08		19560246	135710314	54	5643											
TAF1	6872	broad.mit.edu;hgsc.bcm.edu	37	chrX	70613248	70613248	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatgagtaaatttgcccGtggatcaaggttttctgtgg	8	13	12	8	1	2	1	1	1	1	0	2	2	2	2	2	3	1	2	2	3	3	4	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	70613248	G	A	70613248	3	1	97	1	0	0	0	0	1	0	0	0	15512	1145	40	1	3291	1	TAF1	23	70613248	Missense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	51053002	70613248	84657312	55	5644											
ZNF75D	7626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	134427942	134427942	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcgctctcaggaccaagaTtctctatttttgtgctgtat	9	15	8	9	1	2	1	1	0	2	1	4	2	2	2	1	1	2	3	1	1	4	5	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		G	134427942	T	G	134427942	3	3	97	1	0	0	0	0	1	0	0	0	18133	1493	52	5	1427	5	ZNF75D	23	134427942	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08	63814694	134427942	20842618	56	5645											
MCF2	4168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	138713618	138713618	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctaactcaggggttaatTgcttgtcatcaatgtatgtc	9	14	9	9	1	3	0	3	0	0	0	4	0	3	0	1	2	2	3	1	2	4	5	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	138713618	T	A	138713618	3	1	97	1	0	0	0	0	1	0	0	0	9378	1812	63	5	2725	5	MCF2	23	138713618	Missense_Mutation	SNP	T	TCGA-B0-4842-01A-02D-1421-08	4285676	138713618	16556942	57	5646											
IRAK1	3654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153283528	153283528	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggcagtagaagccgttctGagcacagtagccagcaaagt	13	6	12	10	1	1	2	0	1	1	1	1	2	1	2	2	1	4	6	2	1	4	3	novel		TCGA-B0-4842-01A-02D-1421-08	TCGA-B0-4842-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ae765ade-6a06-439c-a1cd-67222a70f44e	fc3394f3-58d8-4886-9c72-d6a8f56887df		A	153283528	G	A	153283528	4	1	97	1	0	0	0	0	0	1	0	0	7821	1299	45	2	1332	2	IRAK1	23	153283528	Nonsense_Mutation	SNP	G	TCGA-B0-4842-01A-02D-1421-08	14569910	153283528	1987032	58	5647											
KIF1B	23095	hgsc.bcm.edu	37	chr1	10318706	10318706	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgatgggtaaacaagaagaAagccaggctggcatcattcc	15	7	11	8	0	1	3	1	1	0	2	2	3	2	3	2	3	2	3	2	3	5	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	10318706	A	C	10318706	3	2	98	1	0	0	0	0	1	0	0	0	8284	11	1	5	349	5	KIF1B	1	10318706	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10		10318706	238931915	1	5648											
SSX2IP	117178	hgsc.bcm.edu;ucsc.edu	37	chr1	85117601	85117601	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaaaagtttcacattttctGagttctggtggtcaaaggta	11	15	10	5	0	4	2	2	2	2	0	4	2	4	2	0	3	0	3	0	3	4	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	85117601	G	C	85117601	4	2	98	1	0	0	0	0	0	1	0	0	15205	1294	45	4	387	4	SSX2IP	1	85117601	Nonsense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	74798895	85117601	164133020	2	5649											
MCOLN3	55283	hgsc.bcm.edu	37	chr1	85487844	85487844	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagaacctgatgacattgGgcagcgctgcctgaagggtc	10	7	14	10	1	0	4	0	3	0	1	1	4	0	4	2	2	4	3	2	2	2	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	85487844	G	T	85487844	3	4	98	1	0	0	0	0	1	0	0	0	9397	1232	43	4	444	4	MCOLN3	1	85487844	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	370243	85487844	163762777	3	5650											
ARNT	405	hgsc.bcm.edu	37	chr1	150789853	150789853	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacctgggaatgattgtagCtggccagtccatctcttcct	7	13	9	12	0	2	1	1	1	1	0	5	2	4	2	4	2	1	2	4	2	2	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	150789853	C	G	150789853	3	3	98	1	0	0	0	0	1	0	0	0	965	797	28	4	835	4	ARNT	1	150789853	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	65302009	150789853	98460768	4	5651											
CGN	57530	hgsc.bcm.edu;ucsc.edu	37	chr1	151498197	151498197	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggagctggaggagacttCagaggagacagggcattggc	11	5	19	6	0	1	3	1	0	0	3	1	8	1	5	0	6	1	2	0	6	0	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	151498197	C	T	151498197	3	4	98	1	0	0	0	0	1	0	0	0	3303	838	29	2	1724	2	CGN	1	151498197	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	708344	151498197	97752424	5	5652											
TDRD5	163589	hgsc.bcm.edu;ucsc.edu	37	chr1	179561765	179561765	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaatgtctgaacaagaGcgtatacaggaatgtctgcg	13	8	12	8	2	2	2	0	1	2	1	2	3	2	3	0	2	4	2	0	2	6	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	179561765	G	T	179561765	3	4	98	1	0	0	0	0	1	0	0	0	15732	962	34	4	17	4	TDRD5	1	179561765	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	28063568	179561765	69688856	6	5653											
PTGS2	5743	hgsc.bcm.edu;ucsc.edu	37	chr1	186646028	186646028	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctagccagagtttcaccGtaaatatgatttaagtccac	12	13	7	9	1	2	2	1	1	1	1	3	2	3	2	3	0	1	2	3	0	5	6	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	186646028	G	A	186646028	2	1	98	1	0	0	0	0	0	0	0	1	12758	1140	40	1		1	PTGS2	1	186646028	Silent	SNP	G	TCGA-B0-4843-01A-01D-1361-10	7084263	186646028	62604593	7	5654											
PROX1	5629	hgsc.bcm.edu	37	chr1	214170598	214170598	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggagcgccgacagctgaaAcagcagctggaggacatgca	13	3	15	10	2	0	1	0	1	0	0	0	6	0	4	1	3	6	4	1	3	1	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	214170598	A	T	214170598	3	4	98	1	0	0	0	0	1	0	0	0	12562	40	2	5	722	5	PROX1	1	214170598	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	27524570	214170598	35080023	8	5655											
OR2T34	127068	hgsc.bcm.edu	37	chr1	248737664	248737664	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggtaatggagaggtctgCaaacagcagcatatcggtca	12	8	14	7	1	2	1	1	0	1	1	3	2	2	1	0	4	4	4	0	4	3	2	rs147489167	byfrequency	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	248737664	C	T	248737664	3	4	98	1	0	0	0	0	1	0	0	0	11025	710	25	2	565	2	OR2T34	1	248737664	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	34567066	248737664	512957	9	5656											
LRP2	4036	hgsc.bcm.edu;ucsc.edu	37	chr2	170027076	170027076	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccacagtcccgttcatCtgagttgtccccacagtcgt	7	12	8	14	2	2	1	1	1	1	0	5	1	4	1	4	0	1	3	4	0	1	3	rs71430659	alternate_allele	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	170027076	C	A	170027076	3	1	98	1	0	0	0	0	1	0	0	0	8956	913	32	4	2686	4	LRP2	2	170027076	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10		170027076	73172297	10	5657											
COL4A3	1285	hgsc.bcm.edu	37	chr2	228131178	228131178	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggagatcacggactgcCaggctatctagggtctccag	9	8	12	12	1	3	1	1	0	2	1	4	3	3	2	3	4	1	1	3	4	2	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	228131178	C	T	228131178	3	4	98	1	0	0	0	0	1	0	0	0	3691	594	21	2	1447	2	COL4A3	2	228131178	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	58104102	228131178	15068195	11	5658											
C3orf67	200844	hgsc.bcm.edu	37	chr3	58739534	58739534	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggaatctggacgctgcTcagccggctgttgactggga	8	8	14	11	2	2	1	1	1	1	0	2	4	2	4	1	4	2	4	1	4	1	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	58739534	T	G	58739534	3	3	98	1	0	0	0	0	1	0	0	0	2241	1551	54	5	158	5	C3orf67	3	58739534	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10		58739534	139282896	12	5659											
KIAA0226	9711	hgsc.bcm.edu;ucsc.edu	37	chr3	197427934	197427934	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggggggcttggatggtttGatcctctgctggtgagacgt	4	13	18	6	1	1	2	0	2	1	1	2	4	2	3	1	6	1	3	1	6	0	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	197427934	G	A	197427934	4	1	98	1	0	0	0	0	0	1	0	0	8162	1299	45	2	2212	2	KIAA0226	3	197427934	Nonsense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	138688400	197427934	594496	13	5660											
UGT3A1	133688	hgsc.bcm.edu;ucsc.edu	37	chr5	35988576	35988576	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatcaaaaactttccactctGatgaagcatagtcacattat	15	12	5	9	0	3	2	2	2	1	0	4	3	4	2	1	0	2	1	1	0	5	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	35988576	G	C	35988576	3	2	98	1	0	0	0	0	1	0	0	0	16962	1299	45	4	1505	4	UGT3A1	5	35988576	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10		35988576	144926684	14	5661											
MRPS36	92259	hgsc.bcm.edu;ucsc.edu	37	chr5	68522165	68522165	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatattacttttcatttagGtagtcaaaccacacactcca	13	13	4	11	0	2	0	2	0	0	0	3	0	3	0	2	1	2	2	2	1	5	7	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	68522165	G	A	68522165	3	1	98	1	0	0	0	0	1	0	0	0	9845	1275	44	2	49	2	MRPS36	5	68522165	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	32533589	68522165	112393095	15	5662											
GPR98	84059	hgsc.bcm.edu	37	chr5	89999583	89999583	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctagaactcaattttgctAactttagcggacaacttttc	12	15	5	9	1	2	1	1	0	1	1	3	2	2	2	0	1	5	1	0	1	6	8	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	89999583	A	T	89999583	3	4	98	1	0	0	0	0	1	0	0	0	6721	362	13	5	8395	5	GPR98	5	89999583	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	21477418	89999583	90915677	16	5663											
ARRDC3	57561	hgsc.bcm.edu;ucsc.edu	37	chr5	90671371	90671371	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttggcacttaaggatatTgggcctgaggtacagaacca	12	11	11	7	0	0	2	0	1	0	1	0	3	0	3	2	4	2	2	2	4	4	6	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	90671371	T	C	90671371	2	2	98	1	0	0	0	0	0	0	0	1	984	1799	63	3		3	ARRDC3	5	90671371	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10	671788	90671371	90243889	17	5664											
APC	324	hgsc.bcm.edu	37	chr5	112177363	112177363	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagtttgtttctcaagaaaCagttctctcagttctcttag	9	16	6	10	0	4	1	2	0	3	1	7	1	4	1	1	0	1	4	1	0	3	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	112177363	C	G	112177363	3	3	98	1	0	0	0	0	1	0	0	0	763	477	17	4	6130	4	APC	5	112177363	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	21505992	112177363	68737897	18	5665											
SLC4A9	83697	hgsc.bcm.edu	37	chr5	139747071	139747071	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acccctggtggtggagtgtgGcagctgccctgcctgccctg	3	9	15	14	0	0	0	0	0	0	0	0	1	0	1	5	4	4	2	5	4	0	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	139747071	G	A	139747071	3	1	98	1	0	0	0	0	1	0	0	0	14662	1203	42	2	2138	2	SLC4A9	5	139747071	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	27569708	139747071	41168189	19	5666											
AFAP1L1	134265	hgsc.bcm.edu	37	chr5	148685879	148685879	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacccacagatggctgcagCccctcacactcgattgtgga	10	7	9	15	1	1	1	1	0	0	1	2	3	1	2	3	2	3	2	3	2	1	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	148685879	C	A	148685879	3	1	98	1	0	0	0	0	1	0	0	0	354	738	26	4	469	4	AFAP1L1	5	148685879	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	8938808	148685879	32229381	20	5667											
ZNF192	0	hgsc.bcm.edu	37	chr6	28116332	28116332	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccctcttggccaagaagtGttccgcctgcgcttcaggca	8	9	10	14	2	2	1	1	0	1	1	3	1	3	1	4	2	2	3	4	2	3	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	28116332	G	A	28116332	2	1	98	1	0	0	0	0	0	0	0	1	17755	1364	48	2		2	ZNF192	6	28116332	Silent	SNP	G	TCGA-B0-4843-01A-01D-1361-10		28116332	142998735	21	5668											
CDC5L	988	hgsc.bcm.edu	37	chr6	44414438	44414438	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaagagactttaaagtCaaaattctgaagtacagttt	17	11	9	4	0	2	3	1	1	1	2	2	5	2	3	0	1	1	2	0	1	7	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	44414438	C	A	44414438	4	1	98	1	0	0	0	0	0	1	0	0	3082	838	29	4	2461	4	CDC5L	6	44414438	Nonsense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	16298106	44414438	126700629	22	5669											
GPR115	221393	hgsc.bcm.edu;ucsc.edu	37	chr6	47681783	47681783	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatgaacaataccacagaaGatatcttaggaatggtacag	17	8	9	7	0	1	3	0	1	1	2	1	4	1	4	1	2	3	2	1	2	8	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	47681783	G	C	47681783	3	2	98	1	0	0	0	0	1	0	0	0	6632	942	33	4	820	4	GPR115	6	47681783	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	3267345	47681783	123433284	23	5670											
CD109	135228	hgsc.bcm.edu;ucsc.edu	37	chr6	74407205	74407205	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagcttctggaacactgcCcttcacaggtgactgtgaag	9	10	12	10	0	2	2	1	2	1	0	2	4	2	4	1	3	3	1	1	3	2	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	74407205	C	A	74407205	3	1	98	1	0	0	0	0	1	0	0	0	2963	623	22	4	163	4	CD109	6	74407205	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	26725422	74407205	96707862	24	5671											
CD109	135228	hgsc.bcm.edu	37	chr6	74517871	74517871	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtagaggaatttcagaCaattatactctagcccttat	13	14	6	8	0	3	2	2	0	1	2	3	3	3	3	1	1	2	1	1	1	7	7	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	74517871	C	T	74517871	2	4	98	1	0	0	0	0	0	0	0	1	2963	477	17	2		2	CD109	6	74517871	Silent	SNP	C	TCGA-B0-4843-01A-01D-1361-10	110666	74517871	96597196	25	5672											
BVES	11149	hgsc.bcm.edu;ucsc.edu	37	chr6	105549032	105549032	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgtcatcatcatcttctgCtccttcttctatcggtttca	7	17	4	13	2	8	0	4	0	4	0	10	0	9	0	1	1	2	2	1	1	2	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	105549032	C	A	105549032	3	1	98	1	0	0	0	0	1	0	0	0	1575	797	28	4	71	4	BVES	6	105549032	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	31031161	105549032	65566035	26	5673											
SERAC1	84947	hgsc.bcm.edu	37	chr6	158565367	158565367	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggaggtggtaggagaaaAaagcgaagatcactctcttc	16	7	12	6	1	2	2	1	0	1	2	4	5	2	3	0	4	1	1	0	4	6	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	158565367	A	G	158565367	2	3	98	1	0	0	0	0	0	0	0	1	14076	11	1	3		3	SERAC1	6	158565367	Silent	SNP	A	TCGA-B0-4843-01A-01D-1361-10	53016335	158565367	12549700	27	5674											
STARD3NL	83930	hgsc.bcm.edu;ucsc.edu	37	chr7	38256830	38256830	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctatgtgctgcccatcatTtcattcatccttgcctggat	6	15	8	12	0	3	0	3	0	0	0	4	1	4	1	3	2	3	2	3	2	1	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	38256830	T	A	38256830	2	1	98	1	0	0	0	0	0	0	0	1	15259	1829	64	5		5	STARD3NL	7	38256830	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10		38256830	120881833	28	5675											
PION	54103	hgsc.bcm.edu	37	chr7	76955572	76955572	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtcttcctcctgcaggAggggtgttaatcttggccct	4	13	13	11	0	2	0	0	0	2	0	4	1	4	1	3	5	1	3	3	5	1	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	76955572	A	T	76955572	3	4	98	1	0	0	0	0	1	0	0	0	11934	304	11	5	816	5	PION	7	76955572	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	38698742	76955572	82183091	29	5676											
MAGI2	9863	hgsc.bcm.edu;ucsc.edu	37	chr7	78119122	78119122	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttagcctttttcgcaagtCgtggatccagccatgatgtt	7	15	10	9	2	0	1	0	1	0	0	3	2	1	2	3	1	2	3	3	1	2	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	78119122	C	T	78119122	3	4	98	1	0	0	0	0	1	0	0	0	9191	884	31	1	3434	1	MAGI2	7	78119122	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	1163550	78119122	81019541	30	5677											
CSGALNACT1	55790	hgsc.bcm.edu	37	chr8	19263574	19263574	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctttgatgtccagatcaAacccacctgtcgggacagaa	12	8	9	12	1	1	3	1	1	0	2	3	4	2	4	4	1	2	0	4	1	2	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	19263574	A	C	19263574	3	2	98	1	0	0	0	0	1	0	0	0	3938	14	1	5	286	5	CSGALNACT1	8	19263574	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10		19263574	127100448	31	5678											
STAU2	27067	hgsc.bcm.edu	37	chr8	74515976	74515976	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacctgcatcacaaattcTcgacgtcgaggcattcctct	11	11	6	13	3	3	0	1	0	2	0	6	2	4	0	2	1	2	2	2	1	3	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	74515976	T	C	74515976	2	2	98	1	0	0	0	0	0	0	0	1	15274	1538	54	3		3	STAU2	8	74515976	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10	55252402	74515976	71848046	32	5679											
LINGO2	158038	hgsc.bcm.edu;ucsc.edu	37	chr9	27948987	27948987	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctccacacaaaaaggagAagaaaacaaaataaaaccac	23	2	6	10	1	0	2	0	0	0	2	1	3	1	2	2	2	2	1	2	2	9	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	27948987	A	C	27948987	2	2	98	1	0	0	0	0	0	0	0	1	8815	233	9	5		5	LINGO2	9	27948987	Silent	SNP	A	TCGA-B0-4843-01A-01D-1361-10		27948987	113264444	33	5680											
KIF27	55582	hgsc.bcm.edu;ucsc.edu	37	chr9	86502010	86502010	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcttgatgttaattgtaaGttctctcattttttgtttag	8	22	6	5	0	3	1	1	1	2	0	4	1	3	1	0	0	0	4	0	0	3	10	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	86502010	G	A	86502010	3	1	98	1	0	0	0	0	1	0	0	0	8296	1029	36	2	2060	2	KIF27	9	86502010	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	58553023	86502010	54711421	34	5681											
C9orf79	0	hgsc.bcm.edu	37	chr9	90498959	90498959	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaagatctcagctctgaAaggtgaggctctgctgcccc	9	8	12	12	0	3	3	1	2	3	1	4	4	3	4	2	3	3	3	2	3	2	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	90498959	A	G	90498959	3	3	98	1	0	0	0	0	1	0	0	0	2497	14	1	3	368	3	C9orf79	9	90498959	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	3996949	90498959	50714472	35	5682											
CDK5RAP2	55755	hgsc.bcm.edu	37	chr9	123307998	123307998	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatggtactcacgaggctTtgatgagcagctgctctctc	8	12	11	10	1	2	3	1	3	1	0	4	4	2	3	0	2	4	5	0	2	1	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	123307998	T	C	123307998	3	2	98	1	0	0	0	0	1	0	0	0	3146	1841	64	3	5440	3	CDK5RAP2	9	123307998	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10	32809039	123307998	17905433	36	5683											
PTEN	5728	ucsc.edu	37	chr10	89685305	89685306	+	Frame_Shift_Ins	INS	-	-	A																															cataaaaaccattacaagatINSatacaatctgtaagtatgtt																								novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	-	-	-	A	-	-	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	89685306	-	A	89685305	7	5	98	1	0	1	1	0	0	0	0	0	12740	1406	49	0	210	0	PTEN	10	89685305	Frame_Shift_Ins	INS	-	TCGA-B0-4843-01A-01D-1361-10		89685305	45849442	37	5684											
CYB5R2	51700	hgsc.bcm.edu;ucsc.edu	37	chr11	7686754	7686754	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgatcatgtcggcagtaaCgaagcctgagctgtacttcc	9	11	10	11	2	1	2	1	2	0	0	3	3	2	2	2	1	4	4	2	1	3	4	rs112522871	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	7686754	C	T	7686754	3	4	98	1	0	0	0	0	1	0	0	0	4127	536	19	1	152	1	CYB5R2	11	7686754	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10		7686754	127319762	38	5685											
PDHX	8050	hgsc.bcm.edu;ucsc.edu	37	chr11	35016578	35016578	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagctcactgaggatgaAgagggaaatgccaaactgca	15	6	12	8	0	1	4	1	3	0	1	1	6	1	6	1	2	4	2	1	2	4	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	35016578	A	C	35016578	3	2	98	1	0	0	0	0	1	0	0	0	11667	69	3	5	1526	5	PDHX	11	35016578	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	27329824	35016578	99989938	39	5686											
CD82	3732	hgsc.bcm.edu	37	chr11	44640632	44640632	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtccatctgcttgtgcCggcacgtccattccgaagac	6	11	9	15	3	1	1	0	0	1	1	5	2	5	1	5	1	2	2	5	1	1	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	44640632	C	T	44640632	3	4	98	1	0	0	0	0	1	0	0	0	3040	643	23	1	790	1	CD82	11	44640632	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	9624054	44640632	90365884	40	5687											
GPR152	390212	hgsc.bcm.edu;ucsc.edu	37	chr11	67218864	67218864	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggcaggaggtgtggctggGtcctcaagggcccctggggt	5	7	20	9	0	1	0	1	0	0	0	2	2	2	1	3	8	0	2	3	8	1	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	67218864	G	A	67218864	2	1	98	1	0	0	0	0	0	0	0	1	6658	1252	44	2		2	GPR152	11	67218864	Silent	SNP	G	TCGA-B0-4843-01A-01D-1361-10	22578232	67218864	67787652	41	5688											
MPZL3	196264	hgsc.bcm.edu	37	chr11	118106270	118106270	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcacaaagacaaggatggaAagaagggccacagaggaaag	19	1	15	6	0	0	3	0	0	0	3	0	6	0	6	1	5	0	1	1	5	5	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	118106270	A	G	118106270	2	3	98	1	0	0	0	0	0	0	0	1	9751	1	1	3		3	MPZL3	11	118106270	Silent	SNP	A	TCGA-B0-4843-01A-01D-1361-10	50887406	118106270	16900246	42	5689											
LRRK2	120892	hgsc.bcm.edu;ucsc.edu	37	chr12	40758835	40758835	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaattcggtcagagtcaTgatgacagcacagctaggca	12	10	11	8	1	2	3	2	2	0	1	3	3	2	3	0	2	2	4	0	2	2	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	40758835	T	G	40758835	3	3	98	1	0	0	0	0	1	0	0	0	9033	1464	51	5	7567	5	LRRK2	12	40758835	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10		40758835	93093060	43	5690											
MLL2	8085	hgsc.bcm.edu	37	chr12	49442448	49442448	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactgtatggtacctgcatTaggacaaatttgtctgtgtt	9	16	9	7	0	2	0	1	0	1	0	2	1	2	1	1	2	2	4	1	2	4	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	49442448	T	C	49442448	2	2	98	1	0	0	0	0	0	0	0	1	9621	1741	61	3		3	MLL2	12	49442448	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10	8683613	49442448	84409447	44	5691											
DNAJC14	85406	hgsc.bcm.edu	37	chr12	56221611	56221611	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatcactgcttttcagttGcctgcaggcatagatgagat	11	12	9	9	0	2	2	2	1	0	2	2	3	2	2	1	1	3	4	1	1	2	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	56221611	G	A	56221611	4	1	98	1	0	0	0	0	0	1	0	0	4633	1328	46	2	1300	2	DNAJC14	12	56221611	Nonsense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	6779163	56221611	77630284	45	5692											
PLEKHG7	440107	hgsc.bcm.edu	37	chr12	93147906	93147906	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagacggctccacgtgcCagagctgctagtggccccac	8	6	12	15	2	0	2	0	0	0	2	1	2	1	2	4	2	4	4	4	2	1	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	93147906	C	G	93147906	3	3	98	1	0	0	0	0	1	0	0	0	12075	594	21	4	374	4	PLEKHG7	12	93147906	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	36926295	93147906	40703989	46	5693											
C12orf51	0	hgsc.bcm.edu	37	chr12	112616787	112616787	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcggcttggtgataggccGcttggtgctcaccaccttca	5	10	14	12	2	2	1	2	1	0	0	2	1	2	1	3	5	1	3	3	5	1	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	112616787	G	A	112616787	3	1	98	1	0	0	0	0	1	0	0	0	1696	1086	38	1	1997	1	C12orf51	12	112616787	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	19468881	112616787	21235108	47	5694											
MSI1	4440	hgsc.bcm.edu;ucsc.edu	37	chr12	120805824	120805824	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcactgttttggagtcgAgctcgtgccgcgattgcgcc	5	11	12	13	5	1	0	1	0	0	0	3	3	1	1	2	1	3	2	2	1	0	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	120805824	A	C	120805824	3	2	98	1	0	0	0	0	1	0	0	0	9875	304	11	5	878	5	MSI1	12	120805824	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	8189037	120805824	13046071	48	5695											
TGM1	7051	hgsc.bcm.edu	37	chr14	24724346	24724346	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atcctgccccatcaccgcgtCctgtgcctccacctgcatgg	5	9	8	19	2	1	0	1	0	0	0	4	0	4	0	8	1	3	1	8	1	0	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	24724346	C	G	24724346	3	3	98	1	0	0	0	0	1	0	0	0	15828	855	30	4	710	4	TGM1	14	24724346	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10		24724346	82625194	49	5696											
YLPM1	56252	hgsc.bcm.edu	37	chr14	75266224	75266224	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagacagatggtacccatcTgatgtggatagacattcccc	11	10	9	11	0	2	4	1	1	1	3	3	5	3	5	3	2	1	1	3	2	2	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	75266224	T	A	75266224	2	1	98	1	0	0	0	0	0	0	0	1	17485	1567	55	5		5	YLPM1	14	75266224	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10	50541878	75266224	32083316	50	5697											
RIN3	79890	hgsc.bcm.edu	37	chr14	93118739	93118739	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctcacagcatgccagagCtgcccaggacagccaaacaa	14	4	8	15	0	1	1	1	0	0	1	2	2	2	2	4	1	6	2	4	1	2	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	93118739	C	G	93118739	3	3	98	1	0	0	0	0	1	0	0	0	13375	796	28	4	1367	4	RIN3	14	93118739	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	17852515	93118739	14230801	51	5698											
SERPINA12	145264	hgsc.bcm.edu;ucsc.edu	37	chr14	94964183	94964183	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttaattttcccatgggtTttttgactgataaagtcatt	9	20	7	5	0	1	2	1	2	0	0	2	2	2	2	1	1	0	2	1	1	3	9	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	94964183	T	G	94964183	3	3	98	1	0	0	0	0	1	0	0	0	14091	1838	64	5	708	5	SERPINA12	14	94964183	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10	1845444	94964183	12385357	52	5699											
DYNC1H1	1778	hgsc.bcm.edu;ucsc.edu	37	chr14	102505179	102505179	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgatctgatcttcttaaaCttcaaggtaggatctggacc	12	12	8	9	1	5	1	1	1	4	0	5	4	5	3	1	3	2	1	1	3	5	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	102505179	C	T	102505179	3	4	98	1	0	0	0	0	1	0	0	0	4841	565	20	2	11434	2	DYNC1H1	14	102505179	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	7540996	102505179	4844361	53	5700											
DISP2	85455	hgsc.bcm.edu;ucsc.edu	37	chr15	40661375	40661375	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacactgccgaggccctgtTtctctctgcctcagtgggcc	5	10	10	16	1	3	0	1	0	2	0	4	1	3	0	4	2	3	1	4	2	1	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	40661375	T	C	40661375	3	2	98	1	0	0	0	0	1	0	0	0	4540	1841	64	3	3092	3	DISP2	15	40661375	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10		40661375	61870017	54	5701											
LEO1	123169	hgsc.bcm.edu;ucsc.edu	37	chr15	52242167	52242167	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagattccctacgtatggAagccctcaaacgttcttctt	9	13	7	12	2	3	1	1	1	2	1	4	3	4	2	2	1	3	2	2	1	4	6	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	52242167	A	G	52242167	3	3	98	1	0	0	0	0	1	0	0	0	8726	246	9	3	376	3	LEO1	15	52242167	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	11580792	52242167	50289225	55	5702											
ZNF598	90850	hgsc.bcm.edu	37	chr16	2050421	2050421	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacacaccctggggcggcTgggcctgtcaccgagaaggc	7	4	14	16	2	1	1	1	0	0	1	1	2	1	1	4	5	0	1	4	5	1	0	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	2050421	T	C	2050421	2	2	98	1	0	0	0	0	0	0	0	1	18027	1567	55	3		3	ZNF598	16	2050421	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10		2050421	88304332	56	5703											
UQCRC2	7385	hgsc.bcm.edu	37	chr16	21982911	21982911	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgaggggtgggcttggtTtatctggtgcaaaggccaac	9	10	15	7	0	1	1	0	1	1	0	1	1	1	1	1	6	2	3	1	6	3	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	21982911	T	C	21982911	2	2	98	1	0	0	0	0	0	0	0	1	17019	1838	64	3		3	UQCRC2	16	21982911	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10	19932490	21982911	68371842	57	5704											
NEURL4	84461	hgsc.bcm.edu	37	chr17	7224230	7224230	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgggtataatacccaCttcattctggccctggtgtg	6	13	13	9	0	2	0	1	0	1	0	2	0	2	0	2	5	1	1	2	5	3	5	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	7224230	C	T	7224230	3	4	98	1	0	0	0	0	1	0	0	0	10347	565	20	2	1351	2	NEURL4	17	7224230	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10		7224230	73970980	58	5705											
LGALS9C	654346	hgsc.bcm.edu;ucsc.edu	37	chr17	18387268	18387268	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatggggccgttctcagctGcagtggaaccaggtgtgtgt	7	10	15	9	1	1	0	1	0	1	0	2	1	1	1	2	4	3	3	2	4	2	1	rs1682207	bycluster	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	18387268	G	C	18387268	3	2	98	1	0	0	0	0	1	0	0	0	8750	1319	46	4	125	4	LGALS9C	17	18387268	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10	11163038	18387268	62807942	59	5706											
PCGF2	7703	hgsc.bcm.edu	37	chr17	36895856	36895856	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgatgctcagcagcggCcgggttttatggacctgcac	7	9	12	13	2	1	1	1	1	0	0	1	2	1	2	3	3	4	4	3	3	1	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	36895856	C	T	36895856	2	4	98	1	0	0	0	0	0	0	0	1	11575	726	26	2		2	PCGF2	17	36895856	Silent	SNP	C	TCGA-B0-4843-01A-01D-1361-10	18508588	36895856	44299354	60	5707											
HELZ	9931	hgsc.bcm.edu	37	chr17	65119196	65119196	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcttggagattttcccaAatttgggtgaggtccaagag	10	11	14	6	0	0	3	0	1	0	2	2	4	2	3	2	4	0	1	2	4	2	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	65119196	A	G	65119196	2	3	98	1	0	0	0	0	0	0	0	1	7049	11	1	3		3	HELZ	17	65119196	Silent	SNP	A	TCGA-B0-4843-01A-01D-1361-10	28223340	65119196	16076014	61	5708											
CD300LB	124599	hgsc.bcm.edu	37	chr17	72527588	72527588	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgagctctggcttgcAccttctgcacatctagaccg	6	11	9	15	1	3	2	0	1	3	1	3	2	3	2	3	1	4	4	3	1	1	3	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	72527588	A	T	72527588	3	4	98	1	0	0	0	0	1	0	0	0	2999	159	6	5	719	5	CD300LB	17	72527588	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	7408392	72527588	8667622	62	5709											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9074004	9074004	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaagaactgaagtcgcaGaaacaggagaggatgtatgt	16	7	14	4	1	0	4	0	1	0	3	1	6	0	5	0	3	2	3	0	3	5	2	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	9074004	G	T	9074004	3	4	98	1	0	0	0	0	1	0	0	0	9973	942	33	4	30409	4	MUC16	19	9074004	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10		9074004	50054979	63	5710											
SMARCA4	6597	hgsc.bcm.edu	37	chr19	11145750	11145750	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagatgttcggccgtggctCccgccaccgcaaggaggtgg	7	6	16	12	4	0	1	0	0	0	1	2	3	1	2	4	5	0	3	4	5	2	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	11145750	C	A	11145750	3	1	98	1	0	0	0	0	1	0	0	0	14772	855	30	4	4222	4	SMARCA4	19	11145750	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	2071746	11145750	47983233	64	5711											
ZNF43	7594	hgsc.bcm.edu;ucsc.edu	37	chr19	21992281	21992281	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgttgagctagatgtggAagcatgcaaaatgatttgcc	12	13	11	5	0	0	3	0	2	0	1	0	4	0	4	1	1	4	4	1	1	5	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	21992281	A	C	21992281	2	2	98	1	0	0	0	0	0	0	0	1	17902	233	9	5		5	ZNF43	19	21992281	Silent	SNP	A	TCGA-B0-4843-01A-01D-1361-10	10846531	21992281	37136702	65	5712											
CEACAM5	1048	hgsc.bcm.edu	37	chr19	42213868	42213868	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccctgctgatccagaacAtcatccagaatgacacagga	14	7	7	13	0	1	4	1	2	0	2	4	5	4	5	3	1	2	1	3	1	2	0	rs34155934	bycluster;byfrequency;by1000genomes	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	42213868	A	G	42213868	3	3	98	1	0	0	0	0	1	0	0	0	3195	217	8	3	340	3	CEACAM5	19	42213868	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	20221587	42213868	16915115	66	5713											
EXOC3L2	90332	hgsc.bcm.edu;ucsc.edu	37	chr19	45731306	45731306	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcctggctgatgcggggTgctcgctctgtgtgctcttc	3	13	13	12	2	2	1	0	1	2	0	5	1	3	1	1	3	4	4	1	3	1	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	45731306	T	C	45731306	2	2	98	1	0	0	0	0	0	0	0	1	5305	1683	59	3		3	EXOC3L2	19	45731306	Silent	SNP	T	TCGA-B0-4843-01A-01D-1361-10	3517438	45731306	13397677	67	5714											
RALGAPB	57148	hgsc.bcm.edu;ucsc.edu	37	chr20	37146211	37146211	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaatagattaagtatgcctCaaagtgctgctgtcagtacc	12	12	9	8	0	2	2	2	1	0	1	2	2	2	2	2	0	4	4	2	0	6	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	37146211	C	G	37146211	3	3	98	1	0	0	0	0	1	0	0	0	13017	827	29	4	1140	4	RALGAPB	20	37146211	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10		37146211	25879309	68	5715											
DPM1	8813	hgsc.bcm.edu	37	chr20	49574946	49574946	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacgatgagcggcaggtTctcgcgctcgttgtaggtag	7	9	14	11	5	1	1	0	1	1	0	3	2	1	1	1	3	1	6	1	3	2	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	49574946	T	A	49574946	3	1	98	1	0	0	0	0	1	0	0	0	4724	1783	62	5	703	5	DPM1	20	49574946	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10	12428735	49574946	13450574	69	5716											
BACH1	571	hgsc.bcm.edu	37	chr21	30714963	30714963	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaattttcagtttatctGaccggcctccagcagtgctg	8	13	8	12	1	3	1	2	1	1	0	4	1	4	1	3	1	2	3	3	1	2	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	30714963	G	T	30714963	3	4	98	1	0	0	0	0	1	0	0	0	1283	1290	45	4	2034	4	BACH1	21	30714963	Missense_Mutation	SNP	G	TCGA-B0-4843-01A-01D-1361-10		30714963	17414932	70	5717											
KRTAP12-3	386683	hgsc.bcm.edu	37	chr21	46078132	46078132	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcggggtgctgccagccccCctgcaccactgccctctgca	4	8	10	19	1	1	0	0	0	1	0	2	0	1	0	6	2	6	3	6	2	0	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	46078132	C	A	46078132	3	1	98	1	0	0	0	0	1	0	0	0	8520	623	22	4	238	4	KRTAP12-3	21	46078132	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	15363169	46078132	2051763	71	5718											
GSTT2B	653689	hgsc.bcm.edu	37	chr22	24300634	24300634	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcacctggaccccaatgagGggccccaacacctgatgggg	9	4	14	14	0	0	2	0	2	0	0	0	3	0	3	6	6	1	1	6	6	2	0	rs56104230	bycluster;byfrequency;by1000genomes	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		T	24300634	G	T	24300634	2	4	98	1	0	0	0	0	0	0	0	1	6847	1219	43	4		4	GSTT2B	22	24300634	Silent	SNP	G	TCGA-B0-4843-01A-01D-1361-10		24300634	27003932	72	5719											
PIWIL3	440822	hgsc.bcm.edu	37	chr22	25145728	25145728	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccgttaggccctttttcCatctgccctggctgaccaaa	7	12	7	15	1	1	1	0	1	1	0	2	1	2	1	5	2	2	2	5	2	3	4	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		A	25145728	C	A	25145728	3	1	98	1	0	0	0	0	1	0	0	0	11959	595	21	4	1548	4	PIWIL3	22	25145728	Missense_Mutation	SNP	C	TCGA-B0-4843-01A-01D-1361-10	845094	25145728	26158838	73	5720											
ASB12	142689	hgsc.bcm.edu	37	chrX	63445177	63445177	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacacgtacacagtccagAtggccatgactgacagcagt	13	6	10	12	1	0	3	0	2	0	1	1	3	1	3	2	1	3	3	2	1	1	1	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		G	63445177	A	G	63445177	2	3	98	1	0	0	0	0	0	0	0	1	1016	330	12	3		3	ASB12	23	63445177	Silent	SNP	A	TCGA-B0-4843-01A-01D-1361-10		63445177	91825383	74	5721											
LRCH2	57631	hgsc.bcm.edu	37	chrX	114357118	114357118	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaactttttacaagcaTcaagaaaattttctacattt	15	14	2	10	0	2	1	1	0	1	1	2	1	2	1	1	0	4	1	1	0	7	7	novel		TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	114357118	T	C	114357118	3	2	98	1	0	0	0	0	1	0	0	0	8933	1435	50	3	155	3	LRCH2	23	114357118	Missense_Mutation	SNP	T	TCGA-B0-4843-01A-01D-1361-10	50911941	114357118	40913442	75	5722											
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140994462	140994462	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctactttattgagtattttAcagagttctcctgagagtgc	9	17	8	7	0	2	3	0	2	2	2	3	4	2	3	1	0	3	2	1	0	4	8	rs56675069	bycluster;byfrequency	TCGA-B0-4843-01A-01D-1361-10	TCGA-B0-4843-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dab75789-3305-4d47-b00e-b3d101f5614e	4a57ef39-f6e4-46d0-8f85-610742d1c89e		C	140994462	C	C	140994462	3	2	98	1	0	0	0	0	1	0	0	0	9180	388	14	5	1278	5	MAGEC1	23	140994462	Missense_Mutation	SNP	A	TCGA-B0-4843-01A-01D-1361-10	26637344	140994462	14276098	76	5723											
ENO1	2023	hgsc.bcm.edu	37	chr1	8925490	8925490	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgtccatgccgatgaccAccttatcagtgtagccagct	9	10	8	14	2	1	1	1	1	0	0	2	2	2	1	5	0	4	2	5	0	3	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	8925490	A	G	8925490	3	3	99	1	0	0	0	0	1	0	0	0	5121	159	6	3	605	3	ENO1	1	8925490	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10		8925490	240325131	1	5724											
ALDH4A1	8659	hgsc.bcm.edu	37	chr1	19212058	19212058	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatctgggcccggtctgcaAtaggcttcaggtcccactct	7	10	11	13	1	4	1	1	0	3	1	5	1	5	1	2	4	1	2	2	4	2	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	19212058	A	G	19212058	3	3	99	1	0	0	0	0	1	0	0	0	501	101	4	3	1373	3	ALDH4A1	1	19212058	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10	10286568	19212058	230038563	2	5725											
ZMPSTE24	10269	hgsc.bcm.edu;ucsc.edu	37	chr1	40735725	40735725	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttgcctgtgtcttcacttCtactttacattattaaaatt	9	20	4	8	0	3	0	1	0	2	0	3	0	3	0	1	0	3	1	1	0	5	9	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	40735725	C	T	40735725	2	4	99	1	0	0	0	0	0	0	0	1	17697	912	32	2		2	ZMPSTE24	1	40735725	Silent	SNP	C	TCGA-B0-4844-01A-01D-1361-10	21523667	40735725	208514896	3	5726											
DOCK7	85440	hgsc.bcm.edu;ucsc.edu	37	chr1	62954615	62954615	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcattacctgatgaacaAttttgctgaatgcttcttga	12	15	7	7	0	2	4	1	4	1	0	2	5	2	4	1	0	4	2	1	0	5	5	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	62954615	A	G	62954615	3	3	99	1	0	0	0	0	1	0	0	0	4692	101	4	3	975	3	DOCK7	1	62954615	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10	22218890	62954615	186296006	4	5727											
MOV10	4343	hgsc.bcm.edu	37	chr1	113234325	113234325	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagttaagtatggcgctggGgacatactacccacctcccc	9	8	11	13	1	0	0	0	0	0	0	1	2	1	2	4	4	2	3	4	4	4	4	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		C	113234325	G	C	113234325	3	2	99	1	0	0	0	0	1	0	0	0	9718	1232	43	4	893	4	MOV10	1	113234325	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10	50279710	113234325	136016296	5	5728											
IQGAP3	128239	hgsc.bcm.edu;ucsc.edu	37	chr1	156501004	156501009	+	In_Frame_Del	DEL	TGGAAC	TGGAAC	-																															ccttgagggtgtccccaggaTggaactgtatgatatcggcc																								novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	TGGAAC	TGGAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		-	156501009	TGGAAC	-	156501004	7	5	99	1	0	1	0	1	0	0	0	0	7816	1464	51	0	780	0	IQGAP3	1	156501004	In_Frame_Del	DEL	TGGAAC	TCGA-B0-4844-01A-01D-1361-10	43266679	156501004	92749617	6	5729											
ATF6	22926	hgsc.bcm.edu;ucsc.edu	37	chr1	161762092	161762092	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaaagcagcaaccaattatCagtttacaacctgcacccac	15	7	5	14	0	1	0	1	0	0	0	1	0	1	0	3	0	6	5	3	0	6	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	161762092	C	T	161762092	2	4	99	1	0	0	0	0	0	0	0	1	1084	816	29	2		2	ATF6	1	161762092	Silent	SNP	C	TCGA-B0-4844-01A-01D-1361-10	5261088	161762092	87488529	7	5730											
OLFML2B	25903	hgsc.bcm.edu	37	chr1	161993198	161993198	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatcagagcgaagtagagaActagcagccgaggcttggcc	13	5	13	10	2	1	2	1	0	0	2	1	5	1	2	2	2	4	3	2	2	5	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	161993198	A	T	161993198	3	4	99	1	0	0	0	0	1	0	0	0	10858	43	2	5	2261	5	OLFML2B	1	161993198	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10	231106	161993198	87257423	8	5731											
RPS27A	6233	hgsc.bcm.edu;ucsc.edu	37	chr2	55462091	55462091	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagctggctgtcctgaaatAttataaggtgagccagttaa	13	12	10	6	0	0	2	0	2	0	0	1	2	1	2	2	2	2	3	2	2	6	5	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	55462091	A	T	55462091	3	4	99	1	0	0	0	0	1	0	0	0	13641	449	16	5	328	5	RPS27A	2	55462091	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10		55462091	187737282	9	5732											
ZC3H6	376940	hgsc.bcm.edu;ucsc.edu	37	chr2	113060908	113060908	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaactggtttctacagggatTatgacattccatttactcag	11	14	8	8	0	2	1	1	1	1	0	3	3	3	2	1	2	3	1	1	2	4	6	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	113060908	T	A	113060908	3	1	99	1	0	0	0	0	1	0	0	0	17570	1754	61	5	326	5	ZC3H6	2	113060908	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10	57598817	113060908	130138465	10	5733											
TTN	7273	hgsc.bcm.edu	37	chr2	179614187	179614187	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtctatttgctcaatagTctcaaggctttgaaaatagt	11	15	8	7	0	3	1	2	1	2	0	4	1	3	1	0	2	1	2	0	2	7	5	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		C	179614187	T	C	179614187	3	2	99	1	0	0	0	0	1	0	0	0	16734	1667	58	3	97357	3	TTN	2	179614187	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10	66553279	179614187	63585186	11	5734											
FRZB	2487	hgsc.bcm.edu;ucsc.edu	37	chr2	183730988	183730988	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggctcgtgctggaagtcaAtggtgcagatgggcgcgtac	7	9	17	8	3	1	1	1	0	0	1	2	2	1	2	0	4	3	4	0	4	3	1	rs139461108	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	183730988	A	T	183730988	3	4	99	1	0	0	0	0	1	0	0	0	6065	101	4	5	708	5	FRZB	2	183730988	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10	4116801	183730988	59468385	12	5735											
PARP9	83666	hgsc.bcm.edu	37	chr3	122277192	122277192	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacctgagcacttgtagggGagacattcttctgtattccc	8	12	10	11	0	2	2	0	1	2	1	3	3	3	2	2	2	1	4	2	2	2	6	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	122277192	G	T	122277192	2	4	99	1	0	0	0	0	0	0	0	1	11466	1161	41	4		4	PARP9	3	122277192	Silent	SNP	G	TCGA-B0-4844-01A-01D-1361-10		122277192	75745238	13	5736											
HLTF	6596	hgsc.bcm.edu	37	chr3	148766680	148766680	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcttctttctgattctaAgtcaagtacagcttttgtct	8	18	5	10	0	6	1	1	1	5	0	6	1	6	1	1	0	2	2	1	0	3	7	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	148766680	A	T	148766680	3	4	99	1	0	0	0	0	1	0	0	0	7215	69	3	5	1343	5	HLTF	3	148766680	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10	26489488	148766680	49255750	14	5737											
WDR49	151790	hgsc.bcm.edu	37	chr3	167250750	167250750	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgttccatagaacaattTctccatcataactccctaca	13	14	2	12	0	2	1	1	0	1	1	5	1	4	1	3	0	3	1	3	0	6	7	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	167250750	T	G	167250750	3	3	99	1	0	0	0	0	1	0	0	0	17301	1783	62	5	1211	5	WDR49	3	167250750	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10	18484070	167250750	30771680	15	5738											
GRIA2	2891	hgsc.bcm.edu	37	chr4	158257863	158257863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagtctctggttttccttggGtgcctttatgcagcaaggat	6	16	11	8	0	1	0	0	0	1	0	3	1	2	1	2	3	3	3	2	3	3	6	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	158257863	G	A	158257863	3	1	99	1	0	0	0	0	1	0	0	0	6768	1261	44	2	1850	2	GRIA2	4	158257863	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10		158257863	32896413	16	5739											
TMEM161B	153396	hgsc.bcm.edu	37	chr5	87516401	87516401	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaaaagacaaaacaagtAggcaccagactaagctgata	19	6	8	8	0	0	3	0	1	0	2	0	3	0	3	1	1	3	4	1	1	8	4	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	87516401	A	G	87516401	3	3	99	1	0	0	0	0	1	0	0	0	16076	420	15	3	1070	3	TMEM161B	5	87516401	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10		87516401	93398859	17	5740											
SEPT8	23176	hgsc.bcm.edu;ucsc.edu	37	chr5	132096903	132096903	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcctcatctcttcctccttCctctgcagctcacttaggaa	6	14	5	16	0	4	0	2	0	2	0	8	1	7	1	4	1	3	2	4	1	2	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	132096903	C	A	132096903	3	1	99	1	0	0	0	0	1	0	0	0	14072	854	30	4	501	4	SEPT8	5	132096903	Missense_Mutation	SNP	C	TCGA-B0-4844-01A-01D-1361-10	44580502	132096903	48818357	18	5741											
SYNE1	23345	hgsc.bcm.edu;ucsc.edu	37	chr6	152779924	152779924	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaaagggcactcgattGtgcctcacgctcaagaactg	12	10	9	10	2	2	1	2	0	0	1	3	2	2	1	1	1	2	2	1	1	5	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	152779924	G	A	152779924	4	1	99	1	0	0	0	0	0	1	0	0	15444	1386	48	2	24430	2	SYNE1	6	152779924	Nonsense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10		152779924	18335143	19	5742											
TTLL2	83887	hgsc.bcm.edu	37	chr6	167753863	167753863	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttaccaggaaagactgtTtggccaaacacctgaagcac	14	7	9	11	0	0	2	0	1	0	1	0	3	0	3	3	2	4	3	3	2	4	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		C	167753863	T	C	167753863	2	2	99	1	0	0	0	0	0	0	0	1	16726	1838	64	3		3	TTLL2	6	167753863	Silent	SNP	T	TCGA-B0-4844-01A-01D-1361-10	14973939	167753863	3361204	20	5743											
DBNL	28988	hgsc.bcm.edu	37	chr7	44099692	44099692	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacattgaccaccacattCagggccaggggctcagtggg	10	6	13	12	0	2	1	2	1	0	0	2	1	2	1	3	4	1	2	3	4	0	2	rs151003280	alternate_allele	TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	44099692	C	A	44099692	3	1	99	1	0	0	0	0	1	0	0	0	4255	827	29	4	1166	4	DBNL	7	44099692	Missense_Mutation	SNP	C	TCGA-B0-4844-01A-01D-1361-10		44099692	115038971	21	5744											
ASB15	142685	hgsc.bcm.edu;ucsc.edu	37	chr7	123257653	123257653	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcctataagacactctggGaattcaagacctgtgatgga	13	10	9	9	0	2	3	1	1	1	2	3	5	3	5	2	2	0	0	2	2	4	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	123257653	G	T	123257653	4	4	99	1	0	0	0	0	0	1	0	0	1019	1175	41	4	327	4	ASB15	7	123257653	Nonsense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10	79157961	123257653	35881010	22	5745											
TACC1	6867	hgsc.bcm.edu;ucsc.edu	37	chr8	38684806	38684806	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctggtgccgaggtgaaaGgtgagccagaggaagacctg	11	5	17	8	1	0	4	0	2	0	2	0	6	0	5	3	4	3	1	3	4	2	0	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	38684806	G	A	38684806	3	1	99	1	0	0	0	0	1	0	0	0	15500	1000	35	2	1591	2	TACC1	8	38684806	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10		38684806	107679216	23	5746											
RCL1	10171	hgsc.bcm.edu;ucsc.edu	37	chr9	4849485	4849485	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaccaaagcctggcgctActactcatgacccttggaca	12	7	7	15	1	1	1	1	1	0	0	1	2	1	2	4	2	4	1	4	2	4	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	4849485	A	G	4849485	2	3	99	1	0	0	0	0	0	0	0	1	13180	378	14	3		3	RCL1	9	4849485	Silent	SNP	A	TCGA-B0-4844-01A-01D-1361-10		4849485	136363946	24	5747											
NOTCH1	4851	hgsc.bcm.edu	37	chr9	139409100	139409100	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgtcctcgcaggtgcccCcgttgtggcaggggttgccc	2	9	15	15	3	0	0	0	0	0	0	2	0	1	0	5	4	3	4	5	4	0	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	139409100	C	A	139409100	3	1	99	1	0	0	0	0	1	0	0	0	10547	623	22	4	5686	4	NOTCH1	9	139409100	Missense_Mutation	SNP	C	TCGA-B0-4844-01A-01D-1361-10	134559615	139409100	1804331	25	5748											
TBC1D12	23232	hgsc.bcm.edu	37	chr10	96281773	96281773	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggaagaggcagatgcctTtatcgcatttgccaatctcc	9	13	9	10	1	1	2	0	0	1	2	3	3	1	3	3	2	2	2	3	2	3	4	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	96281773	T	A	96281773	3	1	99	1	0	0	0	0	1	0	0	0	15600	1841	64	5	1861	5	TBC1D12	10	96281773	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10		96281773	39252974	26	5749											
DPYSL4	10570	hgsc.bcm.edu;ucsc.edu	37	chr10	134013907	134013907	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccagcctgggcaccgacGgttcacactactggagcaag	9	5	12	15	3	1	0	1	0	0	0	1	2	1	1	4	3	3	3	4	3	2	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	134013907	G	A	134013907	3	1	99	1	0	0	0	0	1	0	0	0	4749	1116	39	1	893	1	DPYSL4	10	134013907	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10	37732134	134013907	1520840	27	5750											
OR10W1	81341	hgsc.bcm.edu;ucsc.edu	37	chr11	58035202	58035202	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggatgtgcatagacaggtTtctgtgtgaatggacaccac	11	11	12	7	0	1	2	0	1	1	1	1	4	1	4	1	3	1	2	1	3	2	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	58035202	T	G	58035202	3	3	99	1	0	0	0	0	1	0	0	0	10921	1838	64	5	792	5	OR10W1	11	58035202	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10		58035202	76971314	28	5751											
CTSW	1521	hgsc.bcm.edu	37	chr11	65650835	65650835	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagtctcagcctcagccTccacaccccaccccatactg	8	7	5	21	1	2	0	2	0	1	0	5	0	3	0	7	0	3	1	7	0	1	1	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	65650835	T	A	65650835	2	1	99	1	0	0	0	0	0	0	0	1	4042	1538	54	5		5	CTSW	11	65650835	Silent	SNP	T	TCGA-B0-4844-01A-01D-1361-10	7615633	65650835	69355681	29	5752											
RBM14	10432	hgsc.bcm.edu	37	chr11	66392256	66392256	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcagcttcttcactcggCccatatggtggagcccagcc	6	9	11	15	1	2	0	1	0	1	0	3	1	2	1	3	3	4	3	3	3	1	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	66392256	C	T	66392256	2	4	99	1	0	0	0	0	0	0	0	1	13117	726	26	2		2	RBM14	11	66392256	Silent	SNP	C	TCGA-B0-4844-01A-01D-1361-10	741421	66392256	68614260	30	5753											
CCDC83	220047	hgsc.bcm.edu;ucsc.edu	37	chr11	85630410	85630410	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggattatgtaaacttgggcCccctgggagtgaagcttatg	10	11	13	7	0	0	1	0	1	0	0	0	3	0	3	2	3	2	2	2	3	5	4	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	85630410	C	T	85630410	3	4	99	1	0	0	0	0	1	0	0	0	2857	623	22	2	1234	2	CCDC83	11	85630410	Missense_Mutation	SNP	C	TCGA-B0-4844-01A-01D-1361-10	19238154	85630410	49376106	31	5754											
CACNA1C	775	hgsc.bcm.edu	37	chr12	2786309	2786310	+	Frame_Shift_Del	DEL	GT	GT	-																															gccacgttcctgatccaggaGtacttccggaagttcaagaa																								novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		-	2786310	GT	-	2786309	7	5	99	1	0	1	0	1	0	0	0	0	2540	1020	36	0	5419	0	CACNA1C	12	2786309	Frame_Shift_Del	DEL	GT	TCGA-B0-4844-01A-01D-1361-10		2786309	131065586	32	5755											
LIN7A	8825	hgsc.bcm.edu	37	chr12	81239680	81239680	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttcaactactcgagggtgGgagtggccttcactagctgc	8	10	13	10	1	2	0	2	0	0	0	3	2	2	1	1	3	4	2	1	3	3	4	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		C	81239680	G	C	81239680	2	2	99	1	0	0	0	0	0	0	0	1	8810	1219	43	4		4	LIN7A	12	81239680	Silent	SNP	G	TCGA-B0-4844-01A-01D-1361-10	78453371	81239680	52612215	33	5756											
SPATA13	221178	hgsc.bcm.edu	37	chr13	24860482	24860482	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaacaaggactggtggtGgggccgcagtgaagataagg	11	6	16	8	1	0	2	0	1	0	1	1	3	1	3	2	6	1	1	2	6	4	1	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	24860482	G	T	24860482	3	4	99	1	0	0	0	0	1	0	0	0	15001	1357	47	4	2450	4	SPATA13	13	24860482	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10		24860482	90309396	34	5757											
IL16	3603	hgsc.bcm.edu;ucsc.edu	37	chr15	81582852	81582852	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggaaaacaccaagtttgGaaaggagaggcatcagtgga	15	7	14	5	0	1	1	1	0	0	1	1	5	1	4	1	5	1	2	1	5	4	1	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	81582852	G	T	81582852	3	4	99	1	0	0	0	0	1	0	0	0	7633	1174	41	4	1429	4	IL16	15	81582852	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10		81582852	20948540	35	5758											
ITGAX	3687	hgsc.bcm.edu	37	chr16	31373161	31373161	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgccttcccccaggtacGgagaccacaagcagtagctc	10	7	9	15	1	1	1	1	0	0	1	3	2	2	1	4	2	4	4	4	2	3	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	31373161	G	T	31373161	2	4	99	1	0	0	0	0	0	0	0	1	7889	1103	39	4		4	ITGAX	16	31373161	Silent	SNP	G	TCGA-B0-4844-01A-01D-1361-10		31373161	58981592	36	5759											
GPR179	440435	hgsc.bcm.edu;ucsc.edu	37	chr17	36492024	36492024	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccactccagatgcccagaTcctctgtgaagcaaggagag	12	6	11	12	0	1	4	0	1	1	3	3	6	3	4	4	1	2	1	4	1	2	0	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	36492024	T	A	36492024	3	1	99	1	0	0	0	0	1	0	0	0	6674	1435	50	5	5900	5	GPR179	17	36492024	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10		36492024	44703186	37	5760											
LAMA3	3909	hgsc.bcm.edu;ucsc.edu	37	chr18	21406683	21406683	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taggattacctggtgctgctCcccagggactactatgaagc	9	10	11	11	0	0	1	0	1	0	0	1	3	1	3	3	3	5	2	3	3	5	4	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	21406683	C	A	21406683	2	1	99	1	0	0	0	0	0	0	0	1	8607	842	30	4		4	LAMA3	18	21406683	Silent	SNP	C	TCGA-B0-4844-01A-01D-1361-10		21406683	56670565	38	5761											
LAMA3	3909	hgsc.bcm.edu	37	chr18	21470048	21470048	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgcagttgtaacagcaatGgccagctgggcagctgtcat	10	9	12	10	0	1	0	1	0	0	0	1	0	1	0	1	2	5	7	1	2	2	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		C	21470048	G	C	21470048	3	2	99	1	0	0	0	0	1	0	0	0	8607	1348	47	4	5718	4	LAMA3	18	21470048	Missense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10	63365	21470048	56607200	39	5762											
LASS4	0	hgsc.bcm.edu	37	chr19	8316056	8316056	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagaccgggatggccgtgtCtacccccacccccaggactt	8	6	11	16	2	1	1	0	0	1	1	1	4	1	3	6	3	1	0	6	3	2	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	8316056	C	T	8316056	2	4	99	1	0	0	0	0	0	0	0	1	8641	900	32	2		2	LASS4	19	8316056	Silent	SNP	C	TCGA-B0-4844-01A-01D-1361-10		8316056	50812927	40	5763											
GPCPD1	56261	hgsc.bcm.edu;ucsc.edu	37	chr20	5559154	5559154	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcacttgaactcattgtCgcttattaaggatatctcca	10	14	6	11	1	2	1	1	1	1	0	4	2	2	2	2	1	2	2	2	1	4	5	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	5559154	C	A	5559154	3	1	99	1	0	0	0	0	1	0	0	0	6603	884	31	4	1493	4	GPCPD1	20	5559154	Missense_Mutation	SNP	C	TCGA-B0-4844-01A-01D-1361-10		5559154	57466366	41	5764											
PLAGL2	5326	hgsc.bcm.edu	37	chr20	30785078	30785078	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccaaaccgctgggcacagTactggcacaggaagtcctta	11	6	12	12	1	0	0	0	0	0	0	1	1	1	1	3	4	2	4	3	4	4	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	30785078	T	A	30785078	3	1	99	1	0	0	0	0	1	0	0	0	12020	1638	57	5	826	5	PLAGL2	20	30785078	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10	25225924	30785078	32240442	42	5765											
SAMHD1	25939	hgsc.bcm.edu;ucsc.edu	37	chr20	35547821	35547821	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaatttgttcctttataaaGcaaatatcttcttcagggat	13	16	5	7	0	3	0	1	0	2	0	4	1	4	1	1	1	1	2	1	1	6	8	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	35547821	G	T	35547821	4	4	99	1	0	0	0	0	0	1	0	0	13830	963	34	4	1122	4	SAMHD1	20	35547821	Nonsense_Mutation	SNP	G	TCGA-B0-4844-01A-01D-1361-10	4762743	35547821	27477699	43	5766											
RNF160	0	hgsc.bcm.edu	37	chr21	30331797	30331797	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctggcaaatgtgtttttTctttgctctgagcacataac	9	16	7	9	0	2	1	0	1	2	0	2	1	2	1	1	1	4	4	1	1	3	6	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	30331797	T	G	30331797	3	3	99	1	0	0	0	0	1	0	0	0	13457	1783	62	5	2796	5	RNF160	21	30331797	Missense_Mutation	SNP	T	TCGA-B0-4844-01A-01D-1361-10		30331797	17798098	44	5767											
MICAL3	57553	hgsc.bcm.edu;ucsc.edu	37	chr22	18362165	18362165	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagcatcaagatccctgtAtgtctgttggcaacaaagta	12	11	9	9	0	3	1	2	0	1	1	4	1	4	1	1	1	2	5	1	1	5	3	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	18362165	A	G	18362165	3	3	99	1	0	0	0	0	1	0	0	0	9571	449	16	3	4461	3	MICAL3	22	18362165	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10		18362165	32942401	45	5768											
USP18	11274	hgsc.bcm.edu	37	chr22	18640563	18640563	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagagcagcccagagagcgtCccagggcctgggactaccct	9	4	14	14	1	0	2	0	0	0	2	1	5	1	3	4	2	4	1	4	2	1	1	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		T	18640563	C	T	18640563	3	4	99	1	0	0	0	0	1	0	0	0	17048	855	30	2	135	2	USP18	22	18640563	Missense_Mutation	SNP	C	TCGA-B0-4844-01A-01D-1361-10	278398	18640563	32664003	46	5769											
KDM5C	8242	hgsc.bcm.edu;ucsc.edu	37	chrX	53228214	53228214	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattgatgtgggaaaggcAgacaaggccgtctgggcagt	11	8	15	7	1	2	2	1	1	1	1	2	3	2	3	1	4	0	2	1	4	2	1	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		G	53228214	A	G	53228214	3	3	99	1	0	0	0	0	1	0	0	0	8135	188	7	3	2640	3	KDM5C	23	53228214	Missense_Mutation	SNP	A	TCGA-B0-4844-01A-01D-1361-10		53228214	102042346	47	5770											
LAS1L	81887	hgsc.bcm.edu	37	chrX	64744051	64744051	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctctccaatagggcctgCgtgaagttctgggagtgcag	8	10	13	10	1	2	1	0	1	2	0	4	2	3	2	3	2	2	2	3	2	3	2	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		A	64744051	C	A	64744051	2	1	99	1	0	0	0	0	0	0	0	1	8636	755	27	4		4	LAS1L	23	64744051	Silent	SNP	C	TCGA-B0-4844-01A-01D-1361-10	11515837	64744051	90526509	48	5771											
PAK3	5063	hgsc.bcm.edu;ucsc.edu	37	chrX	110366370	110366370	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagagaaacccccggcTcctccactgaggatgaatag	14	6	10	11	1	0	4	0	3	0	1	2	6	2	5	4	2	1	1	4	2	5	1	novel		TCGA-B0-4844-01A-01D-1361-10	TCGA-B0-4844-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18380381-0840-47ff-994c-65319715a6d4	8921941b-fa48-475f-bb96-633d4b44aca0		C	110366370	T	C	110366370	2	2	99	1	0	0	0	0	0	0	0	1	11402	1538	54	3		3	PAK3	23	110366370	Silent	SNP	T	TCGA-B0-4844-01A-01D-1361-10	45622319	110366370	44904190	49	5772											
PRDM16	63976	hgsc.bcm.edu	37	chr1	3321338	3321338	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatccacacggaggagcGcgagtacaaatgcgaccagt	12	5	13	11	4	1	0	1	0	0	0	2	4	2	2	2	3	3	1	2	3	2	1	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	3321338	G	A	3321338	3	1	100	1	0	0	0	0	1	0	0	0	12459	1087	38	1	946	1	PRDM16	1	3321338	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10		3321338	245929283	1	5773											
LDLRAD2	401944	hgsc.bcm.edu;ucsc.edu	37	chr1	22148091	22148091	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaccccacgagacaagaCgcagctttggaaggttacac	13	5	12	11	2	0	2	0	0	0	2	0	5	0	4	2	3	2	3	2	3	3	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	22148091	C	T	22148091	2	4	100	1	0	0	0	0	0	0	0	1	8706	535	19	1		1	LDLRAD2	1	22148091	Silent	SNP	C	TCGA-B0-4845-01A-01D-1361-10	18826753	22148091	227102530	2	5774											
DAB1	1600	hgsc.bcm.edu;ucsc.edu	37	chr1	57476856	57476856	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgctgggactttcaaagcCctcttcaaagatgtcatctg	9	14	8	10	0	5	1	3	0	2	1	5	2	5	2	1	1	2	1	1	1	2	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	57476856	C	T	57476856	3	4	100	1	0	0	0	0	1	0	0	0	4217	623	22	2	141	2	DAB1	1	57476856	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	35328765	57476856	191773765	3	5775											
JAK1	3716	hgsc.bcm.edu;ucsc.edu	37	chr1	65335066	65335066	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagatggccaggacagccAtccctagacactcgttctca	10	8	10	13	1	1	2	1	1	1	2	4	4	2	3	3	2	1	1	3	2	1	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	65335066	A	T	65335066	3	4	100	1	0	0	0	0	1	0	0	0	7937	217	8	5	2969	5	JAK1	1	65335066	Missense_Mutation	SNP	A	TCGA-B0-4845-01A-01D-1361-10	7858210	65335066	183915555	4	5776											
ATP1A2	477	hgsc.bcm.edu;ucsc.edu	37	chr1	160109458	160109458	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctgatttttgggctcctgGaggagacggcgttggctgcc	4	12	15	10	2	0	2	0	1	0	1	2	4	2	3	3	5	1	3	3	5	0	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	160109458	G	A	160109458	3	1	100	1	0	0	0	0	1	0	0	0	1129	1175	41	2	2951	2	ATP1A2	1	160109458	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10	94774392	160109458	89141163	5	5777											
NUF2	83540	hgsc.bcm.edu	37	chr1	163309266	163309266	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggattttcatcaaaaaaCggtatctgttgtgaggcacc	12	12	9	8	1	4	1	3	1	1	0	4	2	4	2	1	3	1	3	1	3	4	4	rs144627000		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	163309266	C	T	163309266	3	4	100	1	0	0	0	0	1	0	0	0	10747	550	19	1	631	1	NUF2	1	163309266	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	3199808	163309266	85941355	6	5778											
PROM2	150696	hgsc.bcm.edu	37	chr2	95947011	95947011	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtgtgggcctcagcttcctCtttgctgcacccctcatcct	3	13	9	16	0	3	0	2	0	1	0	5	0	5	0	5	2	3	3	5	2	0	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	95947011	C	G	95947011	2	3	100	1	0	0	0	0	0	0	0	1	12558	900	32	4		4	PROM2	2	95947011	Silent	SNP	C	TCGA-B0-4845-01A-01D-1361-10		95947011	147252362	7	5779											
LONRF2	164832	hgsc.bcm.edu;ucsc.edu	37	chr2	100906805	100906805	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcggaaccgactgatgccaAtcgcgtctacaacagaactt	12	8	8	13	4	1	2	0	1	1	1	3	4	1	3	2	1	5	0	2	1	5	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	100906805	A	G	100906805	3	3	100	1	0	0	0	0	1	0	0	0	8895	101	4	3	441	3	LONRF2	2	100906805	Missense_Mutation	SNP	A	TCGA-B0-4845-01A-01D-1361-10	4959794	100906805	142292568	8	5780											
PTPN18	26469	hgsc.bcm.edu;ucsc.edu	37	chr2	131128530	131128530	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccccactaccagaacaTcaaagaggtacagaggctcc	14	4	8	15	0	1	3	1	0	0	3	2	3	2	3	4	2	4	2	4	2	4	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	131128530	T	G	131128530	3	3	100	1	0	0	0	0	1	0	0	0	12786	1435	50	5	959	5	PTPN18	2	131128530	Missense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10	30221725	131128530	112070843	9	5781											
BAZ2B	29994	hgsc.bcm.edu;ucsc.edu	37	chr2	160289731	160289731	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttgtcaagaatggatttggGtggttgttttctaatgtttg	7	20	12	2	0	2	1	1	0	1	1	2	2	2	2	0	3	0	3	0	3	3	7	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	160289731	G	A	160289731	2	1	100	1	0	0	0	0	0	0	0	1	1332	1252	44	2		2	BAZ2B	2	160289731	Silent	SNP	G	TCGA-B0-4845-01A-01D-1361-10	29161201	160289731	82909642	10	5782											
CD302	9936	hgsc.bcm.edu;ucsc.edu	37	chr2	160628387	160628387	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaattgaacaggatattcaTtttcttctccaactaccaaa	15	13	3	10	0	3	1	1	1	2	0	4	2	3	2	2	1	3	0	2	1	6	7	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	160628387	T	C	160628387	3	2	100	1	0	0	0	0	1	0	0	0	3003	1493	52	3	28	3	CD302	2	160628387	Missense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10	338656	160628387	82570986	11	5783											
KIF1A	547	hgsc.bcm.edu;ucsc.edu	37	chr2	241722488	241722488	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcggagatgaccttGcccagggtggtcagcgactt	7	7	16	11	2	1	2	1	1	0	1	1	4	1	2	3	4	2	0	3	4	0	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	241722488	G	A	241722488	2	1	100	1	0	0	0	0	0	0	0	1	8283	1306	46	2		2	KIF1A	2	241722488	Silent	SNP	G	TCGA-B0-4845-01A-01D-1361-10	81094101	241722488	1476885	12	5784											
NEK10	152110	hgsc.bcm.edu	37	chr3	27338698	27338698	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggtgggcattggtgtcaTtgagcaccagctcagtgagg	7	10	15	9	0	2	2	2	2	0	0	2	2	2	2	2	4	2	3	2	4	0	2	rs141057699	by1000genomes	TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	27338698	T	C	27338698	3	2	100	1	0	0	0	0	1	0	0	0	10322	1493	52	3	980	3	NEK10	3	27338698	Missense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10		27338698	170683732	13	5785											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47144879	47144879	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagctgtgattcatgaaaCgagagcaatttcctttttga	12	13	8	8	1	1	4	1	3	0	1	2	5	2	4	1	0	3	2	1	0	2	4	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	47144879	C	T	47144879	3	4	100	1	0	0	0	0	1	0	0	0	14133	536	19	1	2880	1	SETD2	3	47144879	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	19806181	47144879	150877551	14	5786											
PBRM1	55193	ucsc.edu	37	chr3	52661376	52661387	+	Frame_Shift_Del	DEL	TTCTTCTTTGCC	TTCTTCTTTGCC	-																															cgtctctcctggcaagctctTtcttctttgcctaaaacaga																								novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	TTCTTCTTTGCC	TTCTTCTTTGCC	TTCTTCTTTGCC	-	TTCTTCTTTGCC	TTCTTCTTTGCC	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		-	52661387	TTCTTCTTTGCC	-	52661376	7	5	100	1	0	1	0	1	0	0	0	0	11491	1841	64	0	3518	0	PBRM1	3	52661376	Frame_Shift_Del	DEL	TTCTTCTTTGCC	TCGA-B0-4845-01A-01D-1361-10	5516497	52661376	145361054	15	5787			1	8		2	2	13	N	TTCTTCTTTGCC_T	2.015695e-05
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52661388	52661388	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagctctttcttctttgccTaaaacagagcagatctcagg	11	12	7	11	0	4	2	1	0	4	2	5	2	4	2	1	1	4	2	1	1	3	4	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	52661388	T	A	52661388	5	1	100	1	0	0	0	0	0	0	1	0	11491	1536	53	5	3530	5	PBRM1	3	52661388	Splice_Site	SNP	T	TCGA-B0-4845-01A-01D-1361-10	12	52661388	145361042	16	5788			1	8		2	2	13	N	TTCTTCTTTGCC_T	2.015695e-05
CPOX	1371	hgsc.bcm.edu	37	chr3	98311863	98311863	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccagagcctggcacacCtgggcctgggtctccagaat	7	8	13	13	0	1	2	0	0	1	2	2	2	1	2	5	3	2	1	5	3	1	0	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	98311863	C	G	98311863	3	3	100	1	0	0	0	0	1	0	0	0	3821	680	24	4	906	4	CPOX	3	98311863	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	45650475	98311863	99710567	17	5789											
ABLIM2	84448	hgsc.bcm.edu	37	chr4	8108315	8108315	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgttgcacaggatcgcCgtgctgggcgacttctccag	6	9	13	13	4	1	0	0	0	1	0	3	2	1	1	2	2	2	3	2	2	0	2	rs41266521	bycluster;byfrequency;by1000genomes	TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	8108315	C	T	8108315	2	4	100	1	0	0	0	0	0	0	0	1	95	639	23	1		1	ABLIM2	4	8108315	Silent	SNP	C	TCGA-B0-4845-01A-01D-1361-10		8108315	183045961	18	5790											
H2AFZ	3015	hgsc.bcm.edu;ucsc.edu	37	chr4	100869967	100869967	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaatgttagaagttaacataCcaccaccagcaattgtagcc	16	9	6	10	0	0	1	0	0	0	1	0	1	0	1	4	0	4	4	4	0	7	5	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	100869967	C	A	100869967	5	1	100	1	0	0	0	0	0	0	1	0	6931	521	18	4	68	4	H2AFZ	4	100869967	Splice_Site	SNP	C	TCGA-B0-4845-01A-01D-1361-10	92761652	100869967	90284309	19	5791											
DKK2	27123	hgsc.bcm.edu;ucsc.edu	37	chr4	107956637	107956637	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcccagagaggacttgaTggagttgagtttggcccgcg	7	8	15	11	3	0	3	0	2	0	1	0	6	0	5	3	3	0	2	3	3	0	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	107956637	T	C	107956637	3	2	100	1	0	0	0	0	1	0	0	0	4545	1464	51	3	683	3	DKK2	4	107956637	Missense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10	7086670	107956637	83197639	20	5792											
UGT8	7368	hgsc.bcm.edu;ucsc.edu	37	chr4	115597317	115597317	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggtgacaaaatttatctAcagaaaaatcaaaagtctgt	17	12	7	5	0	3	2	1	1	2	1	3	2	3	2	0	1	1	0	0	1	8	4	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	115597317	A	T	115597317	3	4	100	1	0	0	0	0	1	0	0	0	16964	391	14	5	1517	5	UGT8	4	115597317	Missense_Mutation	SNP	A	TCGA-B0-4845-01A-01D-1361-10	7640680	115597317	75556959	21	5793											
RNF150	57484	hgsc.bcm.edu;ucsc.edu	37	chr4	141888943	141888943	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgatggtgatgtacattGtcacggtgatgtttctttcc	6	17	10	8	2	2	2	1	2	1	0	4	3	4	2	2	2	1	2	2	2	1	5	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	141888943	G	T	141888943	3	4	100	1	0	0	0	0	1	0	0	0	13453	1377	48	4	771	4	RNF150	4	141888943	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10	26291626	141888943	49265333	22	5794											
C4orf41	0	hgsc.bcm.edu;ucsc.edu	37	chr4	184615163	184615163	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttactcactgacattcCtgttggagacttacatccag	9	13	8	11	0	1	2	1	1	0	1	3	3	3	2	2	2	2	2	2	2	2	5	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	184615163	C	T	184615163	3	4	100	1	0	0	0	0	1	0	0	0	2270	681	24	2	2562	2	C4orf41	4	184615163	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	42726220	184615163	6539113	23	5795											
COL19A1	1310	hgsc.bcm.edu;ucsc.edu	37	chr6	70852710	70852710	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaggaccgccaggagatGttgtatgtataatgtctttg	10	12	12	7	1	1	2	0	0	1	2	1	4	1	3	3	2	0	3	3	2	3	5	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	70852710	G	A	70852710	3	1	100	1	0	0	0	0	1	0	0	0	3676	1377	48	2	1710	2	COL19A1	6	70852710	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10		70852710	100262357	24	5796											
SNX13	23161	hgsc.bcm.edu;ucsc.edu	37	chr7	17841262	17841262	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgttcagggtctgaatcagtCttaggaattaaaggaggcac	12	11	12	6	0	4	1	2	1	2	0	4	3	4	3	0	4	0	2	0	4	5	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	17841262	C	G	17841262	3	3	100	1	0	0	0	0	1	0	0	0	14886	912	32	4	646	4	SNX13	7	17841262	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10		17841262	141297401	25	5797											
TRIL	9865	hgsc.bcm.edu;ucsc.edu	37	chr7	28997373	28997373	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaaggtcttggggtgcagaGagcggatctggttgtactgc	7	10	17	7	2	2	1	0	0	2	1	2	4	2	2	0	5	4	3	0	5	2	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	28997373	G	A	28997373	3	1	100	1	0	0	0	0	1	0	0	0	16484	942	33	2	2149	2	TRIL	7	28997373	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10	11156111	28997373	130141290	26	5798											
CLDN4	1364	hgsc.bcm.edu	37	chr7	73245846	73245846	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggggggcaagtgtacCaactgcctggaggatgaaag	10	7	18	6	0	0	1	0	1	0	0	0	3	0	3	2	6	3	2	2	6	4	1	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	73245846	C	G	73245846	2	3	100	1	0	0	0	0	0	0	0	1	3487	581	21	4		4	CLDN4	7	73245846	Silent	SNP	C	TCGA-B0-4845-01A-01D-1361-10	44248473	73245846	85892817	27	5799											
TRIM56	81844	hgsc.bcm.edu	37	chr7	100731748	100731748	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggaaagacggagctggTacccagggaggtgaggagag	11	4	21	5	1	0	3	0	1	0	2	0	7	0	6	1	7	2	2	1	7	2	1	rs61730718	byfrequency;by1000genomes	TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	100731748	T	G	100731748	2	3	100	1	0	0	0	0	0	0	0	1	16529	1625	57	5		5	TRIM56	7	100731748	Silent	SNP	T	TCGA-B0-4845-01A-01D-1361-10	27485902	100731748	58406915	28	5800											
ATXN7L1	222255	hgsc.bcm.edu;ucsc.edu	37	chr7	105516948	105516948	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttgttgctttttcccTgttccttcggcagcagcagc	3	16	8	14	1	1	0	0	0	1	0	4	0	3	0	3	1	4	6	3	1	0	7	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	105516948	T	C	105516948	2	2	100	1	0	0	0	0	0	0	0	1	1216	1567	55	3		3	ATXN7L1	7	105516948	Silent	SNP	T	TCGA-B0-4845-01A-01D-1361-10	4785200	105516948	53621715	29	5801											
DOCK4	9732	hgsc.bcm.edu	37	chr7	111508084	111508084	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttgctctcttgcgaaaGaaagaaacggactgacatga	13	9	9	10	2	1	4	0	2	1	2	2	6	1	5	1	1	3	1	1	1	3	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	111508084	G	T	111508084	3	4	100	1	0	0	0	0	1	0	0	0	4689	942	33	4	3788	4	DOCK4	7	111508084	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10	5991136	111508084	47630579	30	5802											
MCPH1	79648	hgsc.bcm.edu;ucsc.edu	37	chr8	6302310	6302310	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggagttcctcagtaaagaGaaaaagagtatcacatggct	16	8	10	7	0	2	2	2	0	0	2	3	4	3	3	1	2	0	4	1	2	5	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	6302310	G	C	6302310	3	2	100	1	0	0	0	0	1	0	0	0	9398	942	33	4	1097	4	MCPH1	8	6302310	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10		6302310	140061712	31	5803											
PCMTD1	115294	hgsc.bcm.edu;ucsc.edu	37	chr8	52773471	52773471	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttaagaaaagacaatcCtggttgaagtttcaatgctt	14	12	9	6	0	1	3	1	1	0	2	2	3	2	3	1	2	1	4	1	2	6	4	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	52773471	C	A	52773471	4	1	100	1	0	0	0	0	0	1	0	0	11586	690	24	4	852	4	PCMTD1	8	52773471	Nonsense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	46471161	52773471	93590551	32	5804											
NBN	4683	hgsc.bcm.edu	37	chr8	90983413	90983413	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataattacctgtttggcattCaaaaatataaatgttttccc	14	16	4	7	0	1	0	1	0	0	0	2	0	2	0	2	1	1	3	2	1	7	8	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	90983413	C	A	90983413	3	1	100	1	0	0	0	0	1	0	0	0	10191	825	29	4	1618	4	NBN	8	90983413	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	38209942	90983413	55380609	33	5805											
KIAA1429	25962	hgsc.bcm.edu;ucsc.edu	37	chr8	95541534	95541534	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgggctcaaagtaatctTctctatgaggagcatcctct	12	12	8	9	0	4	1	1	1	3	0	6	2	5	2	1	2	1	3	1	2	4	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	95541534	T	C	95541534	3	2	100	1	0	0	0	0	1	0	0	0	8231	1783	62	3	4920	3	KIAA1429	8	95541534	Missense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10	4558121	95541534	50822488	34	5806											
MASTL	84930	hgsc.bcm.edu;ucsc.edu	37	chr10	27458935	27458935	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttgaaaagttatgcgcAaaatctgcaaatgccattga	15	10	9	7	1	1	2	0	2	1	0	1	2	1	2	1	0	3	5	1	0	6	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		C	27458935	A	C	27458935	2	2	100	1	0	0	0	0	0	0	0	1	9328	117	5	5		5	MASTL	10	27458935	Silent	SNP	A	TCGA-B0-4845-01A-01D-1361-10		27458935	108075812	35	5807											
ARMC4	55130	hgsc.bcm.edu;ucsc.edu	37	chr10	28233854	28233854	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaagctgaaatccctcattGaacacaacgcaatcactgta	15	9	5	12	1	2	2	2	2	0	0	3	2	3	2	1	0	3	3	1	0	6	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	28233854	G	A	28233854	3	1	100	1	0	0	0	0	1	0	0	0	953	1294	45	2	1750	2	ARMC4	10	28233854	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10	774919	28233854	107300893	36	5808											
F2	2147	hgsc.bcm.edu;ucsc.edu	37	chr11	46760838	46760838	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttaacaaccgctggtaTcaaatgggcatcgtctcatg	10	11	8	12	2	2	0	2	0	1	0	4	0	2	0	2	2	2	3	2	2	4	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	46760838	T	G	46760838	4	3	100	1	0	0	0	0	0	1	0	0	5342	1442	50	5	1803	5	F2	11	46760838	Nonsense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10		46760838	88245678	37	5809											
MAP4K2	5871	hgsc.bcm.edu;ucsc.edu	37	chr11	64564471	64564471	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacatgcaccttgggagttgGggggagcccgtggcaggatg	7	8	18	8	1	0	0	0	0	0	0	0	3	0	3	2	6	3	3	2	6	1	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	64564471	G	T	64564471	3	4	100	1	0	0	0	0	1	0	0	0	9260	1232	43	4	1124	4	MAP4K2	11	64564471	Missense_Mutation	SNP	G	TCGA-B0-4845-01A-01D-1361-10	17803633	64564471	70442045	38	5810											
PCNXL3	399909	hgsc.bcm.edu;ucsc.edu	37	chr11	65396339	65396339	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggggctcttctccacGcctctcaacccactgctagg	5	10	8	18	2	4	0	1	0	4	0	7	0	4	0	3	3	2	2	3	3	2	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	65396339	G	A	65396339	2	1	100	1	0	0	0	0	0	0	0	1	11593	1074	38	1		1	PCNXL3	11	65396339	Silent	SNP	G	TCGA-B0-4845-01A-01D-1361-10	831868	65396339	69610177	39	5811											
KDM5A	5927	hgsc.bcm.edu;ucsc.edu	37	chr12	419082	419082	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttttacttttttcctccTatttttgccactcccatata	6	22	1	12	0	1	0	0	0	1	0	4	0	4	0	4	0	2	0	4	0	4	11	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	419082	T	A	419082	3	1	100	1	0	0	0	0	1	0	0	0	8133	1521	53	5	1835	5	KDM5A	12	419082	Missense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10		419082	133432813	40	5812											
WNK1	65125	hgsc.bcm.edu;ucsc.edu	37	chr12	971279	971279	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttgacagtggtcagggatCctctgtcttcacagaatctc	8	12	11	10	0	5	2	2	1	3	1	7	3	6	3	1	3	0	1	1	3	1	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	971279	C	A	971279	3	1	100	1	0	0	0	0	1	0	0	0	17376	855	30	4	2012	4	WNK1	12	971279	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	552197	971279	132880616	41	5813											
C14orf37	145407	hgsc.bcm.edu;ucsc.edu	37	chr14	58471778	58471778	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccatacctttcttttatgCcttttgaagccatttctcct	6	20	3	12	0	2	1	0	1	2	0	4	1	3	1	5	0	3	0	5	0	3	8	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	58471778	C	A	58471778	3	1	100	1	0	0	0	0	1	0	0	0	1771	738	26	4	88	4	C14orf37	14	58471778	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10		58471778	48877762	42	5814											
NRXN3	9369	hgsc.bcm.edu;ucsc.edu	37	chr14	79432483	79432483	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttattggccatctgcagagCctcatgtttaatggccttct	7	16	8	10	0	3	1	1	0	2	1	3	1	3	1	3	2	2	2	3	2	2	6	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	79432483	C	G	79432483	3	3	100	1	0	0	0	0	1	0	0	0	10667	738	26	4	1418	4	NRXN3	14	79432483	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	20960705	79432483	27917057	43	5815											
RAGE	0	hgsc.bcm.edu;ucsc.edu	37	chr14	102729952	102729952	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaaccagattttctgtCactgaagaagaaagcaagtt	17	9	9	6	0	2	5	1	1	1	4	2	6	2	5	1	0	2	2	1	0	6	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	102729952	C	A	102729952	3	1	100	1	0	0	0	0	1	0	0	0	13008	840	29	4	1081	4	RAGE	14	102729952	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10	23297469	102729952	4619588	44	5816											
CHP	0	hgsc.bcm.edu;ucsc.edu	37	chr15	41571548	41571548	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggttttggagaaggtGgatgtagaacagaaaatgag	14	8	14	5	0	0	4	0	1	0	3	0	6	0	5	2	4	1	2	2	4	5	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	41571548	G	A	41571548	2	1	100	1	0	0	0	0	0	0	0	1	3366	1335	47	2		2	CHP	15	41571548	Silent	SNP	G	TCGA-B0-4845-01A-01D-1361-10		41571548	60959844	45	5817											
PIK3R6	146850	hgsc.bcm.edu;ucsc.edu	37	chr17	8722497	8722497	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaggagcagcaggcaggggGcaatggctagaccctgaaac	13	3	15	10	0	0	2	0	1	0	1	0	3	0	3	1	5	3	5	1	5	3	1	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	8722497	G	A	8722497	2	1	100	1	0	0	0	0	0	0	0	1	11923	1195	42	2		2	PIK3R6	17	8722497	Silent	SNP	G	TCGA-B0-4845-01A-01D-1361-10		8722497	72472713	46	5818											
EVPL	2125	hgsc.bcm.edu	37	chr17	74003640	74003640	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatcaggcccctctccatCgccttgtgcacagagtagcg	7	9	10	15	3	2	1	1	0	1	1	5	2	2	1	4	1	2	2	4	1	1	2	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		T	74003640	C	T	74003640	2	4	100	1	0	0	0	0	0	0	0	1	5292	871	31	1		1	EVPL	17	74003640	Silent	SNP	C	TCGA-B0-4845-01A-01D-1361-10	65281143	74003640	7191570	47	5819											
MALT1	10892	hgsc.bcm.edu;ucsc.edu	37	chr18	56414893	56414893	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtttaccattcacatcCtggtaatccaagtaatgtta	11	15	7	8	0	1	0	1	0	0	0	3	0	3	0	3	2	1	4	3	2	5	6	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	56414893	C	G	56414893	3	3	100	1	0	0	0	0	1	0	0	0	9202	681	24	4	2360	4	MALT1	18	56414893	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10		56414893	21662355	48	5820											
VN1R4	317703	hgsc.bcm.edu;ucsc.edu	37	chr19	53770021	53770021	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagatcttgtcatctttTccaggcaaaacaaaacctgt	13	12	7	9	0	3	1	1	0	2	1	4	2	4	1	2	2	2	1	2	2	5	4	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		A	53770021	T	A	53770021	4	1	100	1	0	0	0	0	0	1	0	0	17179	1792	62	5	10	5	VN1R4	19	53770021	Nonsense_Mutation	SNP	T	TCGA-B0-4845-01A-01D-1361-10		53770021	5358962	49	5821											
CDH4	1002	hgsc.bcm.edu	37	chr20	60498753	60498753	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaccggttcatgcagcAggctgtgaggtgggtgcaca	7	8	15	11	1	1	2	1	2	0	0	1	2	1	2	2	4	3	5	2	4	0	1	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	60498753	A	G	60498753	3	3	100	1	0	0	0	0	1	0	0	0	3112	188	7	3	1657	3	CDH4	20	60498753	Missense_Mutation	SNP	A	TCGA-B0-4845-01A-01D-1361-10		60498753	2526767	50	5822											
BCR	613	hgsc.bcm.edu	37	chr22	23523338	23523338	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacctgcagacgttgctggCcaaggaaaagaagagctatg	13	7	12	9	1	0	3	0	0	0	3	0	4	0	4	2	2	4	4	2	2	6	3	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	23523338	C	G	23523338	3	3	100	1	0	0	0	0	1	0	0	0	1388	739	26	4	193	4	BCR	22	23523338	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10		23523338	27781228	51	5823											
TBC1D8B	54885	hgsc.bcm.edu;ucsc.edu	37	chrX	106116882	106116882	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcattatatcaagccattgCtgttgtaaccagccttttac	11	15	5	10	0	2	0	2	0	0	0	2	0	2	0	3	0	5	3	3	0	5	7	novel		TCGA-B0-4845-01A-01D-1361-10	TCGA-B0-4845-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	058df83c-1fa7-45a8-b55a-dab0cab596c1	2781b569-81d7-4f96-baaf-ca6b30b4baeb		G	106116882	C	G	106116882	3	3	100	1	0	0	0	0	1	0	0	0	15625	797	28	4	3198	4	TBC1D8B	23	106116882	Missense_Mutation	SNP	C	TCGA-B0-4845-01A-01D-1361-10		106116882	49153678	52	5824											
VHL	7428	hgsc.bcm.edu	37	chr3	10183794	10183794	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtcgtgctgcccgtatGgctcaacttcgacggcgagc	5	8	14	14	7	1	0	1	0	0	0	3	2	1	0	1	2	4	3	1	2	2	2	rs119103277	alternate_allele	TCGA-B0-4845-01A-01W-1359-10	TCGA-B0-4845-11A-01D-2279-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	6262bfe5-6b54-4461-a4dd-fe4d910e4164	13825051-a2a4-4f7b-af1b-fb223197630e		A	10183794	G	A	10183794	4	1	101	1	0	0	0	0	0	1	0	0	17161	1357	47	2	265	2	VHL	3	10183794	Nonsense_Mutation	SNP	G	TCGA-B0-4845-01A-01W-1359-10		10183794	187838636	1	5825											
MTOR	2475	hgsc.bcm.edu;ucsc.edu	37	chr1	11189847	11189847	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggagatggaacggaagaAgccctggacggcaggcaccg	13	2	16	10	3	0	2	0	0	0	2	0	6	0	5	2	6	2	2	2	6	4	0	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	11189847	A	T	11189847	3	4	102	1	0	0	0	0	1	0	0	0	9954	72	3	5	2063	5	MTOR	1	11189847	Missense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10		11189847	238060774	1	5826											
FAF1	11124	hgsc.bcm.edu;ucsc.edu	37	chr1	50941223	50941223	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaagacaatctggagcttGttgctggccaggaaacgccg	11	8	12	10	2	2	1	1	0	1	1	2	3	2	3	2	3	3	3	2	3	3	2	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	50941223	G	A	50941223	2	1	102	1	0	0	0	0	0	0	0	1	5369	1368	48	2		2	FAF1	1	50941223	Silent	SNP	G	TCGA-B0-4846-01A-01D-1361-10	39751376	50941223	198309398	2	5827											
PTGFR	5737	hgsc.bcm.edu;ucsc.edu	37	chr1	78958563	78958563	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgggaatcttgtcaaacagCcttgccatcgccattctcat	9	12	8	12	1	3	0	2	0	2	0	5	1	3	1	3	1	3	0	3	1	2	3	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	78958563	C	G	78958563	3	3	102	1	0	0	0	0	1	0	0	0	12751	738	26	4	137	4	PTGFR	1	78958563	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	28017340	78958563	170292058	3	5828											
PKN2	5586	hgsc.bcm.edu;ucsc.edu	37	chr1	89298945	89298945	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctaattgattggagcgcTctgatggacaaaaaagtaaa	16	9	10	6	1	1	2	0	2	1	0	1	4	1	4	0	2	2	3	0	2	6	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	89298945	T	C	89298945	2	2	102	1	0	0	0	0	0	0	0	1	11980	1538	54	3		3	PKN2	1	89298945	Silent	SNP	T	TCGA-B0-4846-01A-01D-1361-10	10340382	89298945	159951676	4	5829											
AMY1B	277	hgsc.bcm.edu	37	chr1	104238207	104238207	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtccttgttgtgtatttgAggaatactgagcccagcaga	9	13	11	8	1	0	3	0	2	0	1	2	4	1	4	2	1	3	3	2	1	3	5	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	104238207	A	G	104238207	3	3	102	1	0	0	0	0	1	0	0	0	592	304	11	3	3096	3	AMY1B	1	104238207	Missense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10	14939262	104238207	145012414	5	5830											
SLC25A44	9673	hgsc.bcm.edu;ucsc.edu	37	chr1	156169866	156169866	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcactggcctctaccgaggGttcctggtcaataccttcac	8	11	8	14	1	4	0	3	0	1	0	5	1	5	0	4	3	2	1	4	3	3	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	156169866	G	T	156169866	2	4	102	1	0	0	0	0	0	0	0	1	14511	1248	44	4		4	SLC25A44	1	156169866	Silent	SNP	G	TCGA-B0-4846-01A-01D-1361-10	51931659	156169866	93080755	6	5831											
TNN	63923	hgsc.bcm.edu	37	chr1	175053032	175053032	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtagctgaggtcactgtgCccaagagcagtgaccccaag	11	6	13	11	0	1	3	1	2	0	1	1	3	1	3	3	2	3	3	3	2	3	1	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	175053032	C	T	175053032	3	4	102	1	0	0	0	0	1	0	0	0	16322	739	26	2	1209	2	TNN	1	175053032	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	18883166	175053032	74197589	7	5832											
MAP4K3	8491	hgsc.bcm.edu;ucsc.edu	37	chr2	39552914	39552914	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtctttttttcggatttttgGtaagtgccattttcacaaag	8	19	8	6	1	2	0	1	0	1	0	3	1	2	1	1	2	1	1	1	2	2	8	rs182117796	by1000genomes	TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	39552914	G	A	39552914	3	1	102	1	0	0	0	0	1	0	0	0	9261	1261	44	2	2016	2	MAP4K3	2	39552914	Missense_Mutation	SNP	G	TCGA-B0-4846-01A-01D-1361-10		39552914	203646459	8	5833											
BBX	56987	hgsc.bcm.edu;ucsc.edu	37	chr3	107429337	107429337	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaatagaaataaggatcaTtcagcagaaggagaaggggt	18	7	13	3	0	2	3	2	0	0	3	2	5	2	4	0	4	1	2	0	4	6	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	107429337	T	G	107429337	3	3	102	1	0	0	0	0	1	0	0	0	1343	1490	52	5	32	5	BBX	3	107429337	Missense_Mutation	SNP	T	TCGA-B0-4846-01A-01D-1361-10		107429337	90593093	9	5834											
PARP15	165631	hgsc.bcm.edu;ucsc.edu	37	chr3	122324838	122324838	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaatcaggaatgttgtagCttcaatccaaaccaaagaag	16	10	7	8	0	3	1	3	0	0	1	4	2	4	2	2	1	2	3	2	1	7	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	122324838	C	A	122324838	3	1	102	1	0	0	0	0	1	0	0	0	11459	797	28	4	248	4	PARP15	3	122324838	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	14895501	122324838	75697592	10	5835											
TOPBP1	11073	hgsc.bcm.edu;ucsc.edu	37	chr3	133347540	133347540	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtttccttttctgttggCtgggacgtcctggagtttcc	2	17	12	10	2	1	0	0	0	1	0	5	2	4	2	3	4	0	4	3	4	0	5	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	133347540	C	T	133347540	3	4	102	1	0	0	0	0	1	0	0	0	16368	797	28	2	2066	2	TOPBP1	3	133347540	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	11022702	133347540	64674890	11	5836											
ADCY2	108	hgsc.bcm.edu;ucsc.edu	37	chr5	7706858	7706858	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttcccttctctttaggAaagtgagggatgctactgga	9	14	10	8	0	1	1	0	1	1	0	3	4	2	4	1	3	3	1	1	3	4	6	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	7706858	A	T	7706858	4	4	102	1	0	0	0	0	0	1	0	0	294	260	9	5	1141	5	ADCY2	5	7706858	Nonsense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10		7706858	173208402	12	5837											
RGNEF	0	hgsc.bcm.edu;ucsc.edu	37	chr5	73144821	73144821	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcactgctttctggagtTcgctcacgttcttattcttg	6	17	8	10	2	5	0	2	0	3	0	6	2	5	1	0	1	1	4	0	1	2	6	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	73144821	T	C	73144821	2	2	102	1	0	0	0	0	0	0	0	1	13285	1770	62	3		3	RGNEF	5	73144821	Silent	SNP	T	TCGA-B0-4846-01A-01D-1361-10	65437963	73144821	107770439	13	5838											
RIOK1	83732	hgsc.bcm.edu;ucsc.edu	37	chr6	7410657	7410657	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaaggaccaaggaagaacgGtctagccaagatcatgtgga	16	5	12	8	1	2	2	1	0	1	2	2	5	2	5	2	4	2	0	2	4	6	1	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	7410657	G	A	7410657	2	1	102	1	0	0	0	0	0	0	0	1	13379	1248	44	2		2	RIOK1	6	7410657	Silent	SNP	G	TCGA-B0-4846-01A-01D-1361-10		7410657	163704410	14	5839											
FBXO9	26268	hgsc.bcm.edu	37	chr6	52957228	52957228	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgcttttattccctagaGaccctgaaatatggcgtctg	8	15	9	9	1	1	2	0	1	1	1	2	3	2	2	2	1	1	1	2	1	4	6	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	52957228	G	T	52957228	3	4	102	1	0	0	0	0	1	0	0	0	5762	956	33	4	718	4	FBXO9	6	52957228	Missense_Mutation	SNP	G	TCGA-B0-4846-01A-01D-1361-10	45546571	52957228	118157839	15	5840											
C7orf11	0	hgsc.bcm.edu;ucsc.edu	37	chr7	40172756	40172756	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggttctaggccagcccaagGatcttcaagcattgaaggct	10	10	11	10	0	3	1	1	1	2	0	3	2	3	2	2	4	2	3	2	4	4	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	40172756	G	T	40172756	3	4	102	1	0	0	0	0	1	0	0	0	2377	1174	41	4	101	4	C7orf11	7	40172756	Missense_Mutation	SNP	G	TCGA-B0-4846-01A-01D-1361-10		40172756	118965907	16	5841											
TGS1	96764	hgsc.bcm.edu	37	chr8	56717519	56717519	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccgtgttagtcagtccttCaagtgtgacgttgtagtaga	8	13	13	7	2	2	2	2	1	0	1	3	2	3	2	2	1	0	4	2	1	4	5	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	56717519	C	T	56717519	2	4	102	1	0	0	0	0	0	0	0	1	15836	825	29	2		2	TGS1	8	56717519	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10		56717519	89646503	17	5842											
WWP1	11059	hgsc.bcm.edu;ucsc.edu	37	chr8	87424056	87424056	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatgggtgtatggatccTgtacggcagcagtctgggaa	9	9	15	8	1	1	1	0	0	1	1	2	3	2	3	2	4	2	4	2	4	3	2	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	87424056	T	C	87424056	2	2	102	1	0	0	0	0	0	0	0	1	17414	1567	55	3		3	WWP1	8	87424056	Silent	SNP	T	TCGA-B0-4846-01A-01D-1361-10	30706537	87424056	58939966	18	5843											
KIAA1797	0	hgsc.bcm.edu;ucsc.edu	37	chr9	20758088	20758088	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactttctgtgtctttcaGaaatcatcctcatcctttga	8	17	6	10	0	5	3	3	2	2	1	7	3	7	3	2	0	0	0	2	0	1	3	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	20758088	G	T	20758088	5	4	102	1	0	0	0	0	0	0	1	0	8258	956	33	4	410	4	KIAA1797	9	20758088	Splice_Site	SNP	G	TCGA-B0-4846-01A-01D-1361-10		20758088	120455343	19	5844											
IARS	3376	hgsc.bcm.edu;ucsc.edu	37	chr9	95050488	95050488	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcatatcttgtaactatatCtttaattgtacccgcaagta	13	15	5	8	1	2	0	0	0	2	0	2	0	2	0	1	0	3	5	1	0	8	10	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	95050488	C	T	95050488	3	4	102	1	0	0	0	0	1	0	0	0	7473	913	32	2	3720	2	IARS	9	95050488	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	74292400	95050488	46162943	20	5845											
SUPV3L1	6832	hgsc.bcm.edu;ucsc.edu	37	chr10	70960220	70960220	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaagatctcagtttattaAaggaaattttgaagaggcct	15	13	9	4	0	1	4	1	2	1	2	2	5	1	5	1	2	0	1	1	2	6	5	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	70960220	A	C	70960220	3	2	102	1	0	0	0	0	1	0	0	0	15401	15	1	5	1525	5	SUPV3L1	10	70960220	Missense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10		70960220	64574527	21	5846											
FAR1	84188	hgsc.bcm.edu;ucsc.edu	37	chr11	13734516	13734516	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctttgtctttgcagaccAagaaacatcatggtgtataa	13	13	7	8	0	3	2	1	0	2	2	3	2	3	2	1	1	2	2	1	1	4	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	13734516	A	T	13734516	2	4	102	1	0	0	0	0	0	0	0	1	5674	117	5	5		5	FAR1	11	13734516	Silent	SNP	A	TCGA-B0-4846-01A-01D-1361-10		13734516	121272000	22	5847											
FERMT3	83706	hgsc.bcm.edu;ucsc.edu	37	chr11	63990880	63990880	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tatatcgggggctacattttCctgtcgacgcgggagcgggc	6	10	15	10	5	0	0	0	0	0	0	3	2	1	1	1	4	2	1	1	4	3	5	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	63990880	C	T	63990880	2	4	102	1	0	0	0	0	0	0	0	1	5819	854	30	2		2	FERMT3	11	63990880	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10	50256364	63990880	71015636	23	5848											
TRIM29	23650	hgsc.bcm.edu	37	chr11	119996484	119996484	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcgcatgcatacattgagCaggtcgtccttgaagttgcc	8	11	12	10	2	0	2	0	2	0	0	2	2	1	2	2	2	4	4	2	2	2	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	119996484	C	G	119996484	2	3	102	1	0	0	0	0	0	0	0	1	16502	697	25	4		4	TRIM29	11	119996484	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10	56005604	119996484	15010032	24	5849											
VPS26B	112936	hgsc.bcm.edu	37	chr11	134095128	134095128	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgggaagaaggagaaatatTtcctcttctacgacggggag	13	8	13	7	3	2	2	0	0	2	2	3	6	3	4	1	4	1	0	1	4	5	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	134095128	T	G	134095128	3	3	102	1	0	0	0	0	1	0	0	0	17197	1841	64	5	114	5	VPS26B	11	134095128	Missense_Mutation	SNP	T	TCGA-B0-4846-01A-01D-1361-10	14098644	134095128	911388	25	5850											
ADAMTS20	80070	hgsc.bcm.edu;ucsc.edu	37	chr12	43819454	43819454	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgggaaattgacatattaCaagtcttgattttattcctc	12	17	6	6	0	1	2	0	2	1	0	3	3	2	3	1	1	1	0	1	1	5	8	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	43819454	C	T	43819454	3	4	102	1	0	0	0	0	1	0	0	0	266	478	17	2	1632	2	ADAMTS20	12	43819454	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10		43819454	90032441	26	5851											
KRT75	9119	hgsc.bcm.edu	37	chr12	52824455	52824455	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggacagcaccacggatGtgtcaccgacctgggtctgc	8	7	12	14	2	2	0	1	0	1	0	2	3	2	2	4	3	2	1	4	3	0	0	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	52824455	G	T	52824455	3	4	102	1	0	0	0	0	1	0	0	0	8488	1377	48	4	770	4	KRT75	12	52824455	Missense_Mutation	SNP	G	TCGA-B0-4846-01A-01D-1361-10	9005001	52824455	81027440	27	5852											
EXOSC8	11340	hgsc.bcm.edu;ucsc.edu	37	chr13	37580087	37580087	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatctaccacccctgtgttCatcgagattccggtctggac	7	11	10	13	2	3	1	1	0	2	1	5	4	4	3	4	3	1	1	4	3	1	3	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	37580087	C	T	37580087	3	4	102	1	0	0	0	0	1	0	0	0	5320	838	29	2	291	2	EXOSC8	13	37580087	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10		37580087	77589791	28	5853											
SYNE2	23224	hgsc.bcm.edu;ucsc.edu	37	chr14	64493398	64493399	+	Frame_Shift_Ins	INS	-	-	G																															ttcagaagaccctcactgacINSatcagcaaccagtgggacaa																								novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	64493399	-	G	64493398	7	5	102	1	0	1	1	0	0	0	0	0	15445	477	17	0	6516	0	SYNE2	14	64493398	Frame_Shift_Ins	INS	-	TCGA-B0-4846-01A-01D-1361-10		64493398	42856142	29	5854											
DICER1	23405	hgsc.bcm.edu;ucsc.edu	37	chr14	95582928	95582928	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcgatattctgtgggcaaAtcaaaacgaaccaccaagtt	15	9	8	9	2	2	0	1	0	1	0	3	3	2	0	2	1	2	2	2	1	6	3	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	95582928	A	G	95582928	2	3	102	1	0	0	0	0	0	0	0	1	4521	98	4	3		3	DICER1	14	95582928	Silent	SNP	A	TCGA-B0-4846-01A-01D-1361-10	31089530	95582928	11766612	30	5855											
C15orf27	123591	hgsc.bcm.edu;ucsc.edu	37	chr15	76449034	76449034	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcaacagtttcctggtagCctgtgtaatattggtggtga	8	15	11	7	0	1	1	1	1	1	0	3	1	2	1	2	3	2	3	2	3	4	5	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	76449034	C	T	76449034	3	4	102	1	0	0	0	0	1	0	0	0	1788	739	26	2	327	2	C15orf27	15	76449034	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10		76449034	26082358	31	5856											
NOMO2	283820	hgsc.bcm.edu	37	chr16	18522873	18522873	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtctggacttacccataaCgtaggaaggtattcagagga	14	9	11	7	1	2	1	1	0	1	1	2	4	2	4	1	4	2	2	1	4	6	5	rs10085	bycluster	TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	18522873	C	T	18522873	2	4	102	1	0	0	0	0	0	0	0	1	10532	523	19	1		1	NOMO2	16	18522873	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10		18522873	71831880	32	5857											
LONP2	83752	hgsc.bcm.edu;ucsc.edu	37	chr16	48385510	48385510	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgggtggaattaaagacAaagtgctggcggcacacaga	14	6	15	6	1	0	2	0	0	0	2	0	3	0	3	0	5	1	2	0	5	4	1	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	48385510	A	G	48385510	3	3	102	1	0	0	0	0	1	0	0	0	8893	131	5	3	2414	3	LONP2	16	48385510	Missense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10	29862637	48385510	41969243	33	5858											
IRX6	79190	hgsc.bcm.edu	37	chr16	55360271	55360271	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcgtcggcaagttccagCaccacatgctgcgaatctac	9	8	10	14	3	1	0	0	0	1	0	3	1	2	0	2	2	4	4	2	2	3	2	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	55360271	C	T	55360271	2	4	102	1	0	0	0	0	0	0	0	1	7848	709	25	2		2	IRX6	16	55360271	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10	6974761	55360271	34994482	34	5859											
ADAMTS18	170692	hgsc.bcm.edu;ucsc.edu	37	chr16	77401389	77401389	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaaccttcgatggtgatActctgtctctcgactctgag	7	14	9	11	2	3	2	0	2	3	0	6	4	3	2	1	1	3	1	1	1	2	3	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	77401389	A	T	77401389	3	4	102	1	0	0	0	0	1	0	0	0	263	391	14	5	3018	5	ADAMTS18	16	77401389	Missense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10	22041118	77401389	12953364	35	5860											
ABCC3	8714	hgsc.bcm.edu;ucsc.edu	37	chr17	48761334	48761334	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatcgtgggccgcactgggGctggcaagtcttccatgacc	6	8	15	12	2	1	1	0	1	1	0	3	2	2	2	3	5	0	3	3	5	1	1	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	48761334	G	T	48761334	3	4	102	1	0	0	0	0	1	0	0	0	54	1203	42	4	4173	4	ABCC3	17	48761334	Missense_Mutation	SNP	G	TCGA-B0-4846-01A-01D-1361-10		48761334	32433876	36	5861											
AKAP1	8165	hgsc.bcm.edu	37	chr17	55184151	55184151	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagctgcctgaagagcctTctgtccagccccaccaagga	9	7	11	14	0	1	3	0	2	1	1	2	4	2	4	6	1	4	1	6	1	2	1	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	55184151	T	C	55184151	2	2	102	1	0	0	0	0	0	0	0	1	445	1770	62	3		3	AKAP1	17	55184151	Silent	SNP	T	TCGA-B0-4846-01A-01D-1361-10	6422817	55184151	26011059	37	5862											
SETBP1	26040	hgsc.bcm.edu;ucsc.edu	37	chr18	42281648	42281648	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agattcagaccacaaagcggGctaagaaacccccaaagaat	18	4	8	11	1	1	4	1	0	0	4	1	4	1	4	3	1	2	1	3	1	5	2	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	42281648	G	T	42281648	3	4	102	1	0	0	0	0	1	0	0	0	14131	1203	42	4	339	4	SETBP1	18	42281648	Missense_Mutation	SNP	G	TCGA-B0-4846-01A-01D-1361-10		42281648	35795600	38	5863											
CPAMD8	27151	hgsc.bcm.edu	37	chr19	17104239	17104239	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccacctccagccacacgTgctgggctgacgtggggatg	7	6	13	15	2	0	1	0	1	0	0	1	2	1	2	4	3	2	2	4	3	0	0	rs151335087	by1000genomes	TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	17104239	T	C	17104239	3	2	102	1	0	0	0	0	1	0	0	0	3795	1696	59	3	4528	3	CPAMD8	19	17104239	Missense_Mutation	SNP	T	TCGA-B0-4846-01A-01D-1361-10		17104239	42024744	39	5864											
PDE4C	5143	hgsc.bcm.edu	37	chr19	18327665	18327665	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccaggtgatggttctcCagcaccgaggcgtcgttgta	8	9	13	11	3	1	1	0	1	1	0	3	2	1	1	3	3	2	4	3	3	1	3	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	18327665	C	A	18327665	2	1	102	1	0	0	0	0	0	0	0	1	11641	581	21	4		4	PDE4C	19	18327665	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10	1223426	18327665	40801318	40	5865											
BFSP1	631	hgsc.bcm.edu;ucsc.edu	37	chr20	17475631	17475631	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggggagggctttttgTcttggttttgctgctgttat	2	21	13	5	0	2	0	0	0	2	0	2	1	2	1	0	4	2	5	0	4	1	8	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	17475631	T	A	17475631	3	1	102	1	0	0	0	0	1	0	0	0	1415	1664	58	5	915	5	BFSP1	20	17475631	Missense_Mutation	SNP	T	TCGA-B0-4846-01A-01D-1361-10		17475631	45549889	41	5866											
C22orf30	0	hgsc.bcm.edu;ucsc.edu	37	chr22	32113207	32113207	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcattattatccgtcttagtCccattgaccttcataccttg	8	17	4	12	1	3	1	2	1	1	0	5	1	5	1	4	0	1	0	4	0	4	7	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		G	32113207	C	G	32113207	2	3	102	1	0	0	0	0	0	0	0	1	2142	842	30	4		4	C22orf30	22	32113207	Silent	SNP	C	TCGA-B0-4846-01A-01D-1361-10		32113207	19191359	42	5867											
P2RY8	286530	hgsc.bcm.edu	37	chrX	1585211	1585211	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcggttgcaatggtagtAgatttggaaaggcaacacgc	11	9	15	6	2	0	1	0	0	0	1	0	2	0	2	0	5	2	5	0	5	5	4	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		C	1585211	A	C	1585211	3	2	102	1	0	0	0	0	1	0	0	0	11355	420	15	5	842	5	P2RY8	23	1585211	Missense_Mutation	SNP	A	TCGA-B0-4846-01A-01D-1361-10		1585211	153685349	43	5868											
UPF3B	65109	hgsc.bcm.edu;ucsc.edu	37	chrX	118974623	118974623	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacatttttctgattcaCagcttgtaacagaaacctgt	11	15	5	10	0	2	2	1	1	1	1	2	2	2	2	2	0	4	2	2	0	3	6	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		T	118974623	C	T	118974623	3	4	102	1	0	0	0	0	1	0	0	0	17005	478	17	2	635	2	UPF3B	23	118974623	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	117389412	118974623	36295937	44	5869											
LAMP2	3920	hgsc.bcm.edu;ucsc.edu	37	chrX	119581775	119581775	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattattaactgaataggttCcagcttctggtttttccttt	8	19	6	8	0	1	1	0	1	1	0	3	1	3	1	2	2	2	3	2	2	4	8	novel		TCGA-B0-4846-01A-01D-1361-10	TCGA-B0-4846-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	808ee2fa-13a3-49c1-9814-622ece3fad6a	0f9057ba-aca4-4d39-b624-9a8e1464beed		A	119581775	C	A	119581775	3	1	102	1	0	0	0	0	1	0	0	0	8618	855	30	4	881	4	LAMP2	23	119581775	Missense_Mutation	SNP	C	TCGA-B0-4846-01A-01D-1361-10	607152	119581775	35688785	45	5870											
LUZP1	7798	hgsc.bcm.edu;ucsc.edu	37	chr1	23418897	23418897	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctttatgtgaggttgAaaatccctgaaggatgttct	9	15	9	8	0	2	3	0	3	2	0	3	4	3	4	2	2	0	2	2	2	4	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	23418897	A	G	23418897	3	3	103	1	0	0	0	0	1	0	0	0	9086	246	9	3	1380	3	LUZP1	1	23418897	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10		23418897	225831724	1	5871											
HS2ST1	9653	hgsc.bcm.edu	37	chr1	87380814	87380814	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttggaaaaccagatccAgaaactggaggagtcccgct	12	8	10	11	1	1	2	0	0	1	2	3	5	3	5	3	3	2	1	3	3	3	2	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	87380814	A	G	87380814	3	3	103	1	0	0	0	0	1	0	0	0	7362	188	7	3	97	3	HS2ST1	1	87380814	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	63961917	87380814	161869807	2	5872											
HCN3	57657	hgsc.bcm.edu;ucsc.edu	37	chr1	155256964	155256964	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcccaatttctgcagAgatctgcctgctaactaggg	8	12	8	13	0	2	1	0	0	2	1	4	2	4	1	3	1	4	2	3	1	3	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	155256964	A	G	155256964	3	3	103	1	0	0	0	0	1	0	0	0	6998	318	11	3	1504	3	HCN3	1	155256964	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	67876150	155256964	93993657	3	5873											
ACTN2	88	hgsc.bcm.edu;ucsc.edu	37	chr1	236912534	236912534	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaggatctgcaagatatGttcattgtccacagcattga	12	12	10	7	0	2	2	1	1	1	1	3	4	3	4	1	2	2	3	1	2	2	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	236912534	G	T	236912534	3	4	103	1	0	0	0	0	1	0	0	0	205	1377	48	4	1680	4	ACTN2	1	236912534	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	81655570	236912534	12338087	4	5874											
WDR35	57539	hgsc.bcm.edu	37	chr2	20133224	20133224	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacatttcaaaaatgcagTcactgcttgttcacacattc	13	13	4	11	0	3	0	3	0	0	0	4	0	3	0	0	0	3	3	0	0	3	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	20133224	T	A	20133224	3	1	103	1	0	0	0	0	1	0	0	0	17288	1667	58	5	940	5	WDR35	2	20133224	Missense_Mutation	SNP	T	TCGA-B0-4847-01A-01D-1361-10		20133224	223066149	5	5875											
PLEKHH2	130271	hgsc.bcm.edu	37	chr2	43991494	43991494	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattactttttgccatggCaaaacccaaggtgagtagaa	15	10	9	7	0	0	2	0	1	0	1	0	3	0	2	2	2	3	2	2	2	7	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	43991494	C	A	43991494	3	1	103	1	0	0	0	0	1	0	0	0	12077	710	25	4	4396	4	PLEKHH2	2	43991494	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	23858270	43991494	199207879	6	5876											
SNRNP27	11017	hgsc.bcm.edu;ucsc.edu	37	chr2	70124540	70124540	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggcaaaacagaggaagaAatagaaatgatgaagttaat	21	6	12	2	0	0	5	0	2	0	3	0	7	0	6	0	2	1	2	0	2	8	2	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	70124540	A	C	70124540	3	2	103	1	0	0	0	0	1	0	0	0	14856	11	1	5	314	5	SNRNP27	2	70124540	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	26133046	70124540	173074833	7	5877											
BAZ2B	29994	hgsc.bcm.edu;ucsc.edu	37	chr2	160289486	160289486	+	Missense_Mutation	SNP	C	C	T																															ctgctttttccttcccttgaCtatgcaggatgggagaggca																								novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	160289486	C	T	160289486	3	4	103	1	0	0	0	0	1	0	0	0	1332	565	20	2	4940	2	BAZ2B	2	160289486	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	90164946	160289486	82909887	8	5878	67	2									
BAZ2B	29994	hgsc.bcm.edu;ucsc.edu	37	chr2	160289488	160289488	+	Missense_Mutation	SNP	A	A	T																															gctttttccttcccttgactAtgcaggatgggagaggcaga																								novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	160289488	A	T	160289488	3	4	103	1	0	0	0	0	1	0	0	0	1332	446	16	5	4942	5	BAZ2B	2	160289488	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	2	160289488	82909885	9	5879	67	2									
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191572	10191572	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcgctctacgaagatctgGaagaccacccaaatgtgcag	12	7	11	11	2	2	2	0	0	2	2	3	4	2	3	2	2	2	2	2	2	4	1	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	10191572	G	T	10191572	4	4	103	1	0	0	0	0	0	1	0	0	17161	1175	41	4	575	4	VHL	3	10191572	Nonsense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10		10191572	187830858	10	5880											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52643328	52643328	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaatggctttgaaaacataCcgattcatccttcttgctcg	12	13	6	10	2	2	1	1	1	1	0	4	2	3	1	2	1	3	2	2	1	5	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	52643328	C	T	52643328	5	4	103	1	0	0	0	0	0	0	1	0	11491	521	18	2	2392	2	PBRM1	3	52643328	Splice_Site	SNP	C	TCGA-B0-4847-01A-01D-1361-10	42451756	52643328	145379102	11	5881											
DZIP1L	199221	hgsc.bcm.edu;ucsc.edu	37	chr3	137787177	137787177	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctggtctttggctgggcctCtctggtgaccagtgtgctct	2	14	13	12	0	3	1	0	1	3	0	4	1	3	1	3	4	1	2	3	4	0	1	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	137787177	C	T	137787177	3	4	103	1	0	0	0	0	1	0	0	0	4864	922	32	2	671	2	DZIP1L	3	137787177	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	85143849	137787177	60235253	12	5882											
MUC4	4585	hgsc.bcm.edu	37	chr3	195510773	195510773	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcggtgacaggaagagAggtggcgtgacctgtggatg	9	8	19	5	2	0	3	0	2	0	1	1	6	0	5	1	5	0	0	1	5	1	0	rs2911272	bycluster;byfrequency	TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	195510773	A	G	195510773	3	3	103	1	0	0	0	0	1	0	0	0	9978	304	11	3		3	MUC4	3	195510773	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	57723596	195510773	2511657	13	5883											
TET2	54790	hgsc.bcm.edu;ucsc.edu	37	chr4	106156075	106156075	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaacaactacaacaacaaAaatcagtttttgagatatgc	19	9	5	8	0	1	2	1	1	0	2	1	3	1	2	0	0	6	1	0	0	8	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	106156075	A	T	106156075	4	4	103	1	0	0	0	0	0	1	0	0	15769	15	1	5	978	5	TET2	4	106156075	Nonsense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10		106156075	84998201	14	5884											
SLC27A6	28965	hgsc.bcm.edu;ucsc.edu	37	chr5	128302059	128302059	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacctttcatcatctatgagGgagacatctacacctatcag	13	11	6	11	0	5	2	3	1	2	1	5	3	5	2	2	1	2	0	2	1	4	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	128302059	G	A	128302059	3	1	103	1	0	0	0	0	1	0	0	0	14532	1233	43	2	231	2	SLC27A6	5	128302059	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10		128302059	52613201	15	5885											
DSP	1832	hgsc.bcm.edu	37	chr6	7559606	7559606	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaacatgtcaccagtgaAtgtttggggtggatgaggca	12	9	13	7	0	1	2	1	2	0	0	1	3	1	3	2	4	1	2	2	4	2	1	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	7559606	A	C	7559606	3	2	103	1	0	0	0	0	1	0	0	0	4781	98	4	5	584	5	DSP	6	7559606	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10		7559606	163555461	16	5886											
FAM65B	9750	hgsc.bcm.edu;ucsc.edu	37	chr6	24843257	24843257	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccaacagaaccctcagAgagcagcctgtctgtggcca	11	6	9	15	0	2	2	1	0	1	2	3	3	3	2	5	1	4	1	5	1	2	0	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	24843257	A	T	24843257	3	4	103	1	0	0	0	0	1	0	0	0	5600	304	11	5	1503	5	FAM65B	6	24843257	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	17283651	24843257	146271810	17	5887											
RSPH10B	222967	hgsc.bcm.edu	37	chr7	5984721	5984721	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcatgataaatgtggtaCgccaaatgcaggaggtaatt	13	12	10	6	1	2	1	1	1	1	0	2	2	2	2	1	3	2	3	1	3	5	5	rs71531348		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	5984721	C	T	5984721	2	4	103	1	0	0	0	0	0	0	0	1	13705	523	19	1		1	RSPH10B	7	5984721	Silent	SNP	C	TCGA-B0-4847-01A-01D-1361-10		5984721	153153942	18	5888											
RSPH10B2	728194	hgsc.bcm.edu	37	chr7	6806405	6806405	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagttataaatctggaaataTatacgaaggccagtgggaag	16	10	11	4	1	1	0	0	0	1	0	1	3	1	2	1	3	1	1	1	3	10	6	rs71531350	bycluster	TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	6806405	T	C	6806405	3	2	103	1	0	0	0	0	1	0	0	0	13706	1406	49	3	3388	3	RSPH10B2	7	6806405	Missense_Mutation	SNP	T	TCGA-B0-4847-01A-01D-1361-10	821684	6806405	152332258	19	5889											
ABCA13	154664	hgsc.bcm.edu;ucsc.edu	37	chr7	48556371	48556371	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccagaatcttttccagttCggacgtggctttcatttcct	6	16	8	11	2	2	1	1	0	1	1	6	2	5	2	3	2	0	2	3	2	1	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	48556371	C	T	48556371	3	4	103	1	0	0	0	0	1	0	0	0	31	893	31	1	13726	1	ABCA13	7	48556371	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	41749966	48556371	110582292	20	5890											
GRM3	2913	hgsc.bcm.edu	37	chr7	86416162	86416162	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccgcaacccctggttcCgggacttctgggagcaaaag	10	6	11	14	2	1	0	0	0	1	0	2	2	2	2	5	3	2	3	5	3	3	2	rs184377536	by1000genomes	TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	86416162	C	T	86416162	3	4	103	1	0	0	0	0	1	0	0	0	6798	643	23	1	1060	1	GRM3	7	86416162	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	37859791	86416162	72722501	21	5891											
EFCAB1	79645	hgsc.bcm.edu;ucsc.edu	37	chr8	49643118	49643118	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttcattttttcttccaaAgatcctcgaagaaacagtga	13	14	5	9	1	2	3	1	1	1	2	5	4	4	3	2	0	1	0	2	0	3	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	49643118	A	T	49643118	2	4	103	1	0	0	0	0	0	0	0	1	4933	59	3	5		5	EFCAB1	8	49643118	Silent	SNP	A	TCGA-B0-4847-01A-01D-1361-10		49643118	96720904	22	5892											
KCNB2	9312	hgsc.bcm.edu	37	chr8	73849010	73849010	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggctgttgagaaggccggaGagtccgccaacacaaaggac	12	5	14	10	2	0	2	0	1	0	2	1	5	1	3	3	4	1	2	3	4	3	1	rs140088625		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	73849010	G	A	73849010	3	1	103	1	0	0	0	0	1	0	0	0	8013	943	33	2	1426	2	KCNB2	8	73849010	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	24205892	73849010	72515012	23	5893											
SNX16	64089	hgsc.bcm.edu;ucsc.edu	37	chr8	82751992	82751992	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaagaagctgtacctgtaAatttagtcctaatgagggga	13	11	12	5	0	0	2	0	1	0	1	1	4	1	4	2	3	2	3	2	3	7	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	82751992	A	T	82751992	3	4	103	1	0	0	0	0	1	0	0	0	14889	14	1	5	832	5	SNX16	8	82751992	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	8902982	82751992	63612030	24	5894											
ADCY8	114	hgsc.bcm.edu;ucsc.edu	37	chr8	131848556	131848556	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaggttgtcataacgcagaAagaggcctgcgtagacggtc	11	8	14	8	3	1	4	1	1	0	3	2	4	1	4	1	3	2	3	1	3	3	3	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	131848556	A	T	131848556	3	4	103	1	0	0	0	0	1	0	0	0	300	14	1	5	1141	5	ADCY8	8	131848556	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	49096564	131848556	14515466	25	5895											
PTPN3	5774	hgsc.bcm.edu	37	chr9	112151594	112151594	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgccaaaactgtgcacaGgtatgcggcaggggcccctg	9	6	13	13	1	0	0	0	0	0	0	0	0	0	0	4	4	4	3	4	4	3	1	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	112151594	G	C	112151594	2	2	103	1	0	0	0	0	0	0	0	1	12791	987	35	4		4	PTPN3	9	112151594	Silent	SNP	G	TCGA-B0-4847-01A-01D-1361-10		112151594	29061837	26	5896											
C5	727	hgsc.bcm.edu;ucsc.edu	37	chr9	123797085	123797085	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aactatttttacatacctagGattagacggaatcttgaagt	14	14	7	6	1	1	2	0	1	1	1	1	4	1	4	1	2	3	0	1	2	8	8	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	123797085	G	C	123797085	3	2	103	1	0	0	0	0	1	0	0	0	2280	1174	41	4	4598	4	C5	9	123797085	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	11645491	123797085	17416346	27	5897											
KRT82	3888	hgsc.bcm.edu	37	chr12	52797691	52797691	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcttctgctccaggaaacgGacctgcagccaagaatggaa	12	8	10	11	1	2	1	0	0	2	1	3	4	3	4	3	3	4	2	3	3	4	2	rs145667835		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	52797691	G	A	52797691	2	1	103	1	0	0	0	0	0	0	0	1	8496	1161	41	2		2	KRT82	12	52797691	Silent	SNP	G	TCGA-B0-4847-01A-01D-1361-10		52797691	81054204	28	5898											
LTA4H	4048	hgsc.bcm.edu	37	chr12	96421314	96421314	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattttggagaggtctcaaAagaaatttctataacaattt	16	14	7	4	0	2	3	1	0	2	3	3	4	2	3	0	2	1	0	0	2	6	6	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	96421314	A	G	96421314	3	3	103	1	0	0	0	0	1	0	0	0	9069	14	1	3	1584	3	LTA4H	12	96421314	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10	43623623	96421314	37430581	29	5899											
DNAH10	196385	hgsc.bcm.edu;ucsc.edu	37	chr12	124317763	124317763	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcctgggttctgttgacGaaattattcagtctcttgat	9	16	8	8	1	3	2	1	2	2	0	5	3	4	2	1	1	0	2	1	1	2	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	124317763	G	A	124317763	3	1	103	1	0	0	0	0	1	0	0	0	4598	1059	37	1	4396	1	DNAH10	12	124317763	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	27896449	124317763	9534132	30	5900											
KDELC1	79070	hgsc.bcm.edu;ucsc.edu	37	chr13	103450921	103450921	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagcccgggtccccataTttcgctcttctccgggctca	4	14	8	15	3	3	0	1	0	2	0	6	0	4	0	4	2	1	2	4	2	2	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	103450921	T	A	103450921	3	1	103	1	0	0	0	0	1	0	0	0	8117	1493	52	5	1448	5	KDELC1	13	103450921	Missense_Mutation	SNP	T	TCGA-B0-4847-01A-01D-1361-10		103450921	11718957	31	5901											
OR10G3	26533	hgsc.bcm.edu	37	chr14	22038056	22038056	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccgtggggactagggCagctgccccatccagggggc	6	5	18	12	1	0	0	0	0	0	0	1	2	1	1	4	6	2	2	4	6	1	1	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	22038056	C	T	22038056	3	4	103	1	0	0	0	0	1	0	0	0	10900	710	25	2	124	2	OR10G3	14	22038056	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10		22038056	85311484	32	5902											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105408995	105408995	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggggcctcgacgtccacctCcatgctgggcagagacacct	7	6	12	16	3	0	1	0	0	0	1	3	3	2	1	5	3	1	2	5	3	0	0	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	105408995	C	A	105408995	4	1	103	1	0	0	0	0	0	1	0	0	415	864	30	4	4598	4	AHNAK2	14	105408995	Nonsense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	83370939	105408995	1940545	33	5903											
GOLGA6A	342096	hgsc.bcm.edu	37	chr15	74370974	74370974	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattctatgttttcattgagTtgactgattgtcactgagct	8	18	9	6	0	3	4	2	4	1	0	3	5	3	4	0	0	1	3	0	0	1	7	rs3869329		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	74370974	T	C	74370974	2	2	103	1	0	0	0	0	0	0	0	1	6557	1722	60	3		3	GOLGA6A	15	74370974	Silent	SNP	T	TCGA-B0-4847-01A-01D-1361-10		74370974	28160418	34	5904											
RASGRF1	5923	hgsc.bcm.edu;ucsc.edu	37	chr15	79356835	79356835	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagctccaaggctttctGgttctcatggctgaagttca	7	13	9	12	0	4	1	3	1	2	0	6	1	5	1	2	3	1	5	2	3	2	3	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	79356835	G	T	79356835	3	4	103	1	0	0	0	0	1	0	0	0	13074	1357	47	4	3619	4	RASGRF1	15	79356835	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	4985861	79356835	23174557	35	5905											
ABCC6	368	hgsc.bcm.edu	37	chr16	16282704	16282704	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctggacgagggagtggAtggagaagggcaggaaagcc	12	4	18	7	1	1	1	1	0	0	1	1	7	1	5	2	6	1	1	2	6	2	0	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	16282704	A	G	16282704	3	3	103	1	0	0	0	0	1	0	0	0	57	333	12	3	2824	3	ABCC6	16	16282704	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10		16282704	74072049	36	5906											
COG7	91949	hgsc.bcm.edu;ucsc.edu	37	chr16	23409386	23409386	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttgctgatgtactcgagaGgggtgagactaaaggcgggc	9	8	17	7	3	0	3	0	2	0	2	1	5	0	3	0	4	2	3	0	4	3	3	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	23409386	G	T	23409386	3	4	103	1	0	0	0	0	1	0	0	0	3663	1000	35	4	460	4	COG7	16	23409386	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	7126682	23409386	66945367	37	5907											
PALB2	79728	hgsc.bcm.edu;ucsc.edu	37	chr16	23634440	23634440	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactttcatcatcagaggaaCaaaacaatgccctaagccaa	17	7	5	12	0	3	1	3	0	0	1	3	2	3	2	2	1	4	0	2	1	6	2	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	23634440	C	G	23634440	3	3	103	1	0	0	0	0	1	0	0	0	11406	478	17	4	734	4	PALB2	16	23634440	Missense_Mutation	SNP	C	TCGA-B0-4847-01A-01D-1361-10	225054	23634440	66720313	38	5908											
MBTD1	54799	hgsc.bcm.edu;ucsc.edu	37	chr17	49281222	49281222	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatatcagaaccacatatAttgcaccagaagtccagacc	15	8	7	11	0	1	3	1	0	0	3	2	4	2	4	4	1	2	1	4	1	5	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	49281222	A	G	49281222	2	3	103	1	0	0	0	0	0	0	0	1	9360	446	16	3		3	MBTD1	17	49281222	Silent	SNP	A	TCGA-B0-4847-01A-01D-1361-10		49281222	31913988	39	5909											
BZRAP1	9256	hgsc.bcm.edu	37	chr17	56386671	56386672	+	Frame_Shift_Ins	INS	-	-	G																															cttgctacagaactgctggaINSggggcagctccaggatctgc																								novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		G	56386672	-	G	56386671	7	5	103	1	0	1	1	0	0	0	0	0	1577	304	11	0	1651	0	BZRAP1	17	56386671	Frame_Shift_Ins	INS	-	TCGA-B0-4847-01A-01D-1361-10	7105449	56386671	24808539	40	5910											
EIF3G	8666	hgsc.bcm.edu;ucsc.edu	37	chr19	10229837	10229837	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttgaggagctcgctggtGacacatttgtctgcaaaagg	9	10	12	10	1	1	2	0	2	1	0	2	3	1	3	1	3	2	3	1	3	2	2	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	10229837	G	T	10229837	2	4	103	1	0	0	0	0	0	0	0	1	5017	1277	45	4		4	EIF3G	19	10229837	Silent	SNP	G	TCGA-B0-4847-01A-01D-1361-10		10229837	48899146	41	5911											
CNOT3	4849	hgsc.bcm.edu	37	chr19	54649542	54649542	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctacgatgacctggaccTcgaggacattcgtgaggccc	8	9	11	13	3	1	2	0	2	1	0	4	6	1	4	3	3	1	0	3	3	1	2	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	54649542	T	A	54649542	3	1	103	1	0	0	0	0	1	0	0	0	3620	1551	54	5	718	5	CNOT3	19	54649542	Missense_Mutation	SNP	T	TCGA-B0-4847-01A-01D-1361-10	44419705	54649542	4479441	42	5912											
PANK2	80025	hgsc.bcm.edu;ucsc.edu	37	chr20	3891254	3891254	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcagctttgcaaactggatGaactagattgcttgatcaaa	13	13	8	7	0	2	3	2	2	0	1	2	4	2	4	0	1	5	3	0	1	4	5	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		A	3891254	G	A	3891254	3	1	103	1	0	0	0	0	1	0	0	0	11417	1291	45	2	1022	2	PANK2	20	3891254	Missense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10		3891254	59134266	43	5913											
MYH7B	57644	hgsc.bcm.edu	37	chr20	33587603	33587603	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtatccacagggggccctgGagctggaggagaccaagacg	10	5	16	10	1	0	2	0	0	0	2	1	5	1	4	3	5	1	2	3	5	2	1	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	33587603	G	T	33587603	4	4	103	1	0	0	0	0	0	1	0	0	10040	1175	41	4	4943	4	MYH7B	20	33587603	Nonsense_Mutation	SNP	G	TCGA-B0-4847-01A-01D-1361-10	29696349	33587603	29437917	44	5914											
ADAMTS1	9510	hgsc.bcm.edu;ucsc.edu	37	chr21	28214876	28214876	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaatctggctgccaccgAaaacaacgtgagaaggtaat	15	7	10	9	2	1	1	0	1	1	1	1	3	1	1	2	2	4	3	2	2	7	2	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		T	28214876	A	T	28214876	3	4	103	1	0	0	0	0	1	0	0	0	255	246	9	5	2076	5	ADAMTS1	21	28214876	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10		28214876	19915019	45	5915											
BCOR	54880	hgsc.bcm.edu	37	chrX	39911578	39911578	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaatttccacgtttggAaaattgcagcgaaatatgcg	13	11	10	7	3	0	1	0	1	0	0	1	3	1	2	1	1	3	2	1	1	5	4	novel		TCGA-B0-4847-01A-01D-1361-10	TCGA-B0-4847-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfeaf113-e264-4df2-8e4f-cde34b625cad	a43f6665-39f0-460f-8b5d-2672f6adc253		C	39911578	A	C	39911578	3	2	103	1	0	0	0	0	1	0	0	0	1386	243	9	5	219	5	BCOR	23	39911578	Missense_Mutation	SNP	A	TCGA-B0-4847-01A-01D-1361-10		39911578	115358982	46	5916											
FAM54B	0	hgsc.bcm.edu	37	chr1	26156098	26156098	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattccactctacaacttccTttgtcattagtgacatcacc	10	14	3	14	0	3	1	2	1	1	0	5	1	5	1	3	0	2	0	3	0	3	5	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	26156098	T	A	26156098	3	1	104	1	0	0	0	0	1	0	0	0	5583	1609	56	5	568	5	FAM54B	1	26156098	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10		26156098	223094523	1	5917											
OLFML2B	25903	hgsc.bcm.edu	37	chr1	161954034	161954034	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctgtgccgatccagcTgtacgggagcttgtaggaat	7	10	15	9	2	0	0	0	0	0	0	1	3	1	2	3	3	4	4	3	3	3	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		G	161954034	T	G	161954034	3	3	104	1	0	0	0	0	1	0	0	0	10858	1580	55	5	572	5	OLFML2B	1	161954034	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10	135797936	161954034	87296587	2	5918											
C1orf74	148304	hgsc.bcm.edu;ucsc.edu	37	chr1	209956952	209956953	+	Frame_Shift_Del	DEL	GT	GT	-																															caccagcagctgagggctcgGtgatgacatgagatctagaa																								novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		-	209956953	GT	-	209956952	7	5	104	1	0	1	0	1	0	0	0	0	2058	1261	44	0	785	0	C1orf74	1	209956952	Frame_Shift_Del	DEL	GT	TCGA-B0-4848-01A-01D-1361-10	48002918	209956952	39293669	3	5919											
BIN1	274	hgsc.bcm.edu;ucsc.edu	37	chr2	127816686	127816686	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggcggcaggggagccAtctggaggcgaagggctctt	6	6	21	8	2	2	0	0	0	2	0	2	3	2	2	1	9	1	2	1	9	1	1	rs141588262	alternate_allele	TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		C	127816686	A	C	127816686	3	2	104	1	0	0	0	0	1	0	0	0	1432	214	8	5	914	5	BIN1	2	127816686	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10		127816686	115382687	4	5920											
ANK2	287	hgsc.bcm.edu	37	chr4	114179539	114179539	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcctccttctgctgcagaAcggagcctctccagatgtca	7	11	9	14	1	3	2	1	0	2	2	6	3	5	3	4	1	4	2	4	1	1	1	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		G	114179539	A	G	114179539	3	3	104	1	0	0	0	0	1	0	0	0	621	43	2	3	1433	3	ANK2	4	114179539	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10		114179539	76974737	5	5921											
GLRB	2743	hgsc.bcm.edu;ucsc.edu	37	chr4	158043499	158043499	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggcattcctgttgatgtaGtagtcaacatttttattaac	11	17	7	6	0	1	1	1	1	0	0	2	1	2	1	1	1	2	4	1	1	6	9	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	158043499	G	A	158043499	3	1	104	1	0	0	0	0	1	0	0	0	6458	1029	36	2	257	2	GLRB	4	158043499	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10	43863960	158043499	33110777	6	5922											
CUL9	23113	hgsc.bcm.edu;ucsc.edu	37	chr6	43166412	43166414	+	In_Frame_Del	DEL	GGG	GGG	-																															tactgattcgatccctggttGggggcccatctgcagaacta																								rs141674093	bycluster;by1000genomes	TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	GGG	GGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		-	43166414	GGG	-	43166412	7	5	104	1	0	1	0	1	0	0	0	0	4061	1348	47	0	2911	0	CUL9	6	43166412	In_Frame_Del	DEL	GGG	TCGA-B0-4848-01A-01D-1361-10		43166412	127948655	7	5923											
DST	667	ucsc.edu	37	chr6	56394436	56394436	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttctcttgaatctcaatgTaccatacttgagagaagtct	11	16	6	8	0	3	3	1	2	3	1	5	4	3	3	1	0	2	1	1	0	5	6	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		C	56394436	T	C	56394436	3	2	104	1	0	0	0	0	1	0	0	0	4783	1638	57	3	6131	3	DST	6	56394436	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10	13228024	56394436	114720631	8	5924											
RBM16	0	hgsc.bcm.edu	37	chr6	155124697	155124697	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagttgatggataggtttgAttttggggaagactctgagc	10	13	15	3	0	1	4	0	3	1	1	1	7	1	6	0	4	1	2	0	4	3	5	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		G	155124697	A	G	155124697	3	3	104	1	0	0	0	0	1	0	0	0	13120	333	12	3	833	3	RBM16	6	155124697	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10	98730261	155124697	15990370	9	5925											
C7orf46	0	hgsc.bcm.edu;ucsc.edu	37	chr7	23737852	23737852	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaatctcccattacggcaGtagacagcccattcctaaaa	14	9	6	12	1	1	2	0	0	1	2	3	2	2	2	3	1	2	2	3	1	6	5	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	23737852	G	A	23737852	3	1	104	1	0	0	0	0	1	0	0	0	2396	1029	36	2	697	2	C7orf46	7	23737852	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10		23737852	135400811	10	5926											
STAG3	10734	hgsc.bcm.edu	37	chr7	99796170	99796170	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtatgcctctcatcgaggCctggcctctgccgcaggcga	5	9	13	14	3	2	0	1	0	2	0	4	2	2	0	4	3	2	2	4	3	1	1	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	99796170	C	T	99796170	2	4	104	1	0	0	0	0	0	0	0	1	15245	726	26	2		2	STAG3	7	99796170	Silent	SNP	C	TCGA-B0-4848-01A-01D-1361-10	76058318	99796170	59342493	11	5927											
CFTR	1080	hgsc.bcm.edu	37	chr7	117188815	117188818	+	Frame_Shift_Del	DEL	ATTA	ATTA	-																															gtactcctgtcctgaaagatAttaatttcaagatagaaaga																								novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	ATTA	ATTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		-	117188818	ATTA	-	117188815	7	5	104	1	0	1	0	1	0	0	0	0	3294	449	16	0	1368	0	CFTR	7	117188815	Frame_Shift_Del	DEL	ATTA	TCGA-B0-4848-01A-01D-1361-10	17392645	117188815	41949848	12	5928											
FLJ43860	0	hgsc.bcm.edu	37	chr8	142488777	142488777	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgttgtccacccacgggAggatgtgggcccgggctttg	5	9	16	11	3	0	0	0	0	0	0	1	3	1	2	3	4	0	2	3	4	0	2	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	142488777	A	T	142488777	3	4	104	1	0	0	0	0	1	0	0	0	5930	304	11	5	2856	5	FLJ43860	8	142488777	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10		142488777	3875245	13	5929											
GTF3C5	9328	hgsc.bcm.edu;ucsc.edu	37	chr9	135932247	135932247	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaccagcgacgagctcaggGacaccatgtccctcatgatc	11	6	10	14	2	2	2	2	1	0	1	4	5	3	3	3	1	2	1	3	1	0	0	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	135932247	G	A	135932247	3	1	104	1	0	0	0	0	1	0	0	0	6876	1174	41	2	1408	2	GTF3C5	9	135932247	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10		135932247	5281184	14	5930											
INPP5E	56623	hgsc.bcm.edu	37	chr9	139324835	139324835	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcacaggacagatgtcacCcttgtggcggcttctgtaca	8	10	11	12	1	3	1	2	0	1	1	3	2	3	2	1	3	1	3	1	3	1	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	139324835	C	A	139324835	3	1	104	1	0	0	0	0	1	0	0	0	7757	623	22	4	246	4	INPP5E	9	139324835	Missense_Mutation	SNP	C	TCGA-B0-4848-01A-01D-1361-10	3392588	139324835	1888596	15	5931											
OR52E8	390079	hgsc.bcm.edu;ucsc.edu	37	chr11	5878042	5878042	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgctttgtcctgactccAtagattacaggattgagggc	9	13	10	9	0	1	3	0	2	1	1	3	4	3	4	2	2	2	1	2	2	2	4	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		G	5878042	A	G	5878042	2	3	104	1	0	0	0	0	0	0	0	1	11118	224	8	3		3	OR52E8	11	5878042	Silent	SNP	A	TCGA-B0-4848-01A-01D-1361-10		5878042	129128474	16	5932											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6592218	6592218	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccgaggctctagaactGagccagttggtgggcacgct	9	7	15	10	2	1	3	0	1	1	2	1	5	1	3	2	3	2	4	2	3	2	2	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	6592218	G	T	6592218	2	4	104	1	0	0	0	0	0	0	0	1	4668	1277	45	4		4	DNHD1	11	6592218	Silent	SNP	G	TCGA-B0-4848-01A-01D-1361-10	714176	6592218	128414298	17	5933											
SOX6	55553	hgsc.bcm.edu	37	chr11	16077420	16077420	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccaggtgacacctgcaTgctggccagctgagcggcat	7	8	13	13	1	0	2	0	2	0	0	1	2	1	2	3	3	5	5	3	3	0	0	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	16077420	T	A	16077420	3	1	104	1	0	0	0	0	1	0	0	0	14957	1464	51	5	1427	5	SOX6	11	16077420	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10	9485202	16077420	118929096	18	5934											
C11orf41	0	hgsc.bcm.edu;ucsc.edu	37	chr11	33566672	33566672	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacttacctccccaggaaaCcacaagccatgcacaccggc	13	4	6	18	1	0	0	0	0	0	0	1	1	1	1	6	2	5	1	6	2	4	1	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	33566672	C	A	33566672	3	1	104	1	0	0	0	0	1	0	0	0	1640	507	18	4	2266	4	C11orf41	11	33566672	Missense_Mutation	SNP	C	TCGA-B0-4848-01A-01D-1361-10	17489252	33566672	101439844	19	5935											
MS4A3	932	hgsc.bcm.edu;ucsc.edu	37	chr11	59834545	59834545	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgtcactcttcatcagAgtcaccggacctatgcaatt	10	12	8	11	1	5	1	4	0	1	1	5	3	5	2	2	1	1	2	2	1	2	4	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	59834545	A	T	59834545	3	4	104	1	0	0	0	0	1	0	0	0	9861	304	11	5	487	5	MS4A3	11	59834545	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10	26267873	59834545	75171971	20	5936											
ARHGEF17	9828	hgsc.bcm.edu;ucsc.edu	37	chr11	73022114	73022114	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcaggggcctggcaccctgGggcgtgtggtggacgacagg	5	7	19	10	2	1	0	1	0	0	0	1	2	1	1	2	8	0	1	2	8	0	1	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	73022114	G	T	73022114	3	4	104	1	0	0	0	0	1	0	0	0	900	1232	43	4	2433	4	ARHGEF17	11	73022114	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10	13187569	73022114	61984402	21	5937											
PKNOX2	63876	hgsc.bcm.edu	37	chr11	125300008	125300008	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggggtgctgcagcagcAgggcggtgccccagggacaa	7	4	19	11	2	0	0	0	0	0	0	0	1	0	1	2	5	6	4	2	5	1	0	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		G	125300008	A	G	125300008	3	3	104	1	0	0	0	0	1	0	0	0	11983	188	7	3	1197	3	PKNOX2	11	125300008	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10	52277894	125300008	9706508	22	5938											
TMTC1	83857	hgsc.bcm.edu;ucsc.edu	37	chr12	29786235	29786235	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcaagcagaagccacaCattgaaggccaagaggtagg	14	4	15	8	0	0	3	0	1	0	2	0	3	0	3	2	4	3	3	2	4	5	2	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	29786235	C	A	29786235	3	1	104	1	0	0	0	0	1	0	0	0	16259	478	17	4	1727	4	TMTC1	12	29786235	Missense_Mutation	SNP	C	TCGA-B0-4848-01A-01D-1361-10		29786235	104065660	23	5939											
DNAH10	196385	hgsc.bcm.edu;ucsc.edu	37	chr12	124352543	124352543	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctggaggctttgtacTgctctctgggagcctccctg	4	13	11	13	0	1	0	0	0	1	0	4	2	3	2	3	3	3	3	3	3	1	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	124352543	T	A	124352543	3	1	104	1	0	0	0	0	1	0	0	0	4598	1580	55	5	7208	5	DNAH10	12	124352543	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10	94566308	124352543	9499352	24	5940											
GOLGA3	2802	hgsc.bcm.edu;ucsc.edu	37	chr12	133351772	133351772	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagcttgagctgctggttCtgctggagcagggtcttcat	5	13	13	10	0	3	1	1	1	2	0	4	2	4	2	1	3	5	6	1	3	0	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	133351772	C	T	133351772	2	4	104	1	0	0	0	0	0	0	0	1	6554	912	32	2		2	GOLGA3	12	133351772	Silent	SNP	C	TCGA-B0-4848-01A-01D-1361-10	8999229	133351772	500123	25	5941											
LMO7	4008	hgsc.bcm.edu	37	chr13	76195901	76195901	+	Frame_Shift_Del	DEL	A	A	-																															tatgatgttctcttccagagAacagagctcggagctctgga																								novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		-	76195901	A	-	76195901	7	5	104	1	0	1	0	1	0	0	0	0	8855	243	9	0	74	0	LMO7	13	76195901	Frame_Shift_Del	DEL	A	TCGA-B0-4848-01A-01D-1361-10		76195901	38973977	26	5942											
FANCM	57697	hgsc.bcm.edu	37	chr14	45606357	45606357	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtcatggtaaatgacctTtctagaggagcttgtcccgc	9	11	11	10	1	2	2	1	1	1	1	3	3	3	3	2	3	1	2	2	3	3	4	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		C	45606357	T	C	45606357	2	2	104	1	0	0	0	0	0	0	0	1	5671	1828	64	3		3	FANCM	14	45606357	Silent	SNP	T	TCGA-B0-4848-01A-01D-1361-10		45606357	61743183	27	5943											
AKT1	207	hgsc.bcm.edu;ucsc.edu	37	chr14	105246445	105246445	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccacagagaagttgttgAggggagcctcacgttggtcc	8	8	15	10	2	1	2	1	1	0	1	2	4	2	3	3	3	1	3	3	3	1	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		C	105246445	A	C	105246445	3	2	104	1	0	0	0	0	1	0	0	0	478	304	11	5	1335	5	AKT1	14	105246445	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10	59640088	105246445	2103095	28	5944											
TTBK2	146057	hgsc.bcm.edu	37	chr15	43067428	43067428	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggagttccagcctatCtgtatattgttctgaagcag	9	13	11	8	0	2	1	0	1	2	0	3	2	3	2	2	2	2	5	2	2	4	6	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	43067428	C	A	43067428	3	1	104	1	0	0	0	0	1	0	0	0	16676	913	32	4	1843	4	TTBK2	15	43067428	Missense_Mutation	SNP	C	TCGA-B0-4848-01A-01D-1361-10		43067428	59463964	29	5945											
MYO5A	4644	hgsc.bcm.edu;ucsc.edu	37	chr15	52720682	52720682	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagatagctgagggctgTgaggtcattttcaccaacaa	13	10	11	7	0	2	4	2	3	0	1	2	4	2	4	1	2	2	2	1	2	4	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		C	52720682	T	C	52720682	3	2	104	1	0	0	0	0	1	0	0	0	10078	1696	59	3	5500	3	MYO5A	15	52720682	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10	9653254	52720682	49810710	30	5946											
COX6A2	1339	hgsc.bcm.edu;ucsc.edu	37	chr16	31439138	31439138	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagagggttcacgtggctaTtgtggaacagagtgtggttg	8	11	17	5	1	1	2	1	0	0	2	1	3	1	3	0	4	1	4	0	4	2	4	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	31439138	T	A	31439138	3	1	104	1	0	0	0	0	1	0	0	0	3775	1493	52	5	46	5	COX6A2	16	31439138	Missense_Mutation	SNP	T	TCGA-B0-4848-01A-01D-1361-10		31439138	58915615	31	5947											
MYH3	4621	hgsc.bcm.edu;ucsc.edu	37	chr17	10541580	10541580	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcagcttcaggaactccGcctcccgcttcttgttgagc	5	11	10	15	3	2	1	1	1	1	0	4	2	4	2	3	1	4	4	3	1	1	4	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	10541580	G	A	10541580	3	1	104	1	0	0	0	0	1	0	0	0	10036	1087	38	1	2373	1	MYH3	17	10541580	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10		10541580	70653630	32	5948											
ZNF507	22847	hgsc.bcm.edu	37	chr19	32844300	32844300	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaatatccacacccaatcCaaagcccaacagtgcgtaag	15	5	6	15	1	0	0	0	0	0	0	2	0	2	0	5	0	3	1	5	0	6	2	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	32844300	C	A	32844300	2	1	104	1	0	0	0	0	0	0	0	1	17952	581	21	4		4	ZNF507	19	32844300	Silent	SNP	C	TCGA-B0-4848-01A-01D-1361-10		32844300	26284683	33	5949											
SUPT5H	6829	hgsc.bcm.edu	37	chr19	39959403	39959403	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catcaaattccaggtccctgGggggtgatgttgcctctgat	7	12	12	10	0	2	2	1	2	1	0	4	2	4	2	3	4	1	1	3	4	1	2	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	39959403	G	T	39959403	3	4	104	1	0	0	0	0	1	0	0	0	15398	1232	43	4	1095	4	SUPT5H	19	39959403	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10	7115103	39959403	19169580	34	5950											
DHDH	27294	hgsc.bcm.edu	37	chr19	49447699	49447699	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccccagtcccaaaggactGcaattttgacaacggggcag	11	6	11	13	1	0	1	0	1	0	0	1	2	1	2	3	3	2	2	3	3	3	2	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	49447699	G	A	49447699	3	1	104	1	0	0	0	0	1	0	0	0	4479	1319	46	2	852	2	DHDH	19	49447699	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10	9488296	49447699	9681284	35	5951											
KLK2	3817	hgsc.bcm.edu	37	chr19	51378100	51378100	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggggtgtcctggtgcaccCccagtgggtgctcacagctg	4	9	16	12	0	1	0	1	0	0	0	2	0	2	0	3	4	3	3	3	4	0	0	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	51378100	C	A	51378100	3	1	104	1	0	0	0	0	1	0	0	0	8404	623	22	4	176	4	KLK2	19	51378100	Missense_Mutation	SNP	C	TCGA-B0-4848-01A-01D-1361-10	1930401	51378100	7750883	36	5952											
SPAG4	6676	hgsc.bcm.edu;ucsc.edu	37	chr20	34206020	34206020	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttctccagcattctggctgGggcttctgtacctggtctct	3	16	10	12	0	4	0	0	0	4	0	6	0	4	0	2	4	2	4	2	4	1	4	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		C	34206020	G	C	34206020	3	2	104	1	0	0	0	0	1	0	0	0	14982	1232	43	4	568	4	SPAG4	20	34206020	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10		34206020	28819500	37	5953											
FITM2	128486	hgsc.bcm.edu;ucsc.edu	37	chr20	42935674	42935674	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctttctgaccccctccAgggctggggactggtagcag	5	10	13	13	0	1	1	0	1	1	0	3	2	3	2	4	4	1	4	4	4	1	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	42935674	A	T	42935674	3	4	104	1	0	0	0	0	1	0	0	0	5899	188	7	5	412	5	FITM2	20	42935674	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01D-1361-10	8729654	42935674	20089846	38	5954											
GRIK1	2897	hgsc.bcm.edu	37	chr21	31311718	31311718	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccgatcctgagtacttgcGgggcggtctgagggaggata	8	8	16	9	3	1	2	0	2	1	0	2	5	2	4	2	5	2	1	2	5	2	3	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		A	31311718	G	A	31311718	3	1	104	1	0	0	0	0	1	0	0	0	6773	1116	39	1	2883	1	GRIK1	21	31311718	Missense_Mutation	SNP	G	TCGA-B0-4848-01A-01D-1361-10		31311718	16818177	39	5955											
FAM47A	158724	hgsc.bcm.edu	37	chrX	34148257	34148257	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagcttggggtcaatcaaAggttcatcacttcttagctt	11	13	9	8	0	5	1	4	0	1	1	5	1	5	1	0	3	2	3	0	3	4	5	novel		TCGA-B0-4848-01A-01D-1361-10	TCGA-B0-4848-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d00e9734-6526-46dc-87a0-db7e9a96dd53	226e2ba9-e35c-4837-8df0-77bfdf4caf40		T	34148257	A	T	34148257	2	4	104	1	0	0	0	0	0	0	0	1	5569	59	3	5		5	FAM47A	23	34148257	Silent	SNP	A	TCGA-B0-4848-01A-01D-1361-10		34148257	121122303	40	5956											
MLL2	8085	hgsc.bcm.edu	37	chr12	49448367	49448367	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggaaaccaatctgtgatAggtcctcactgggcagcact	11	8	11	11	0	2	1	1	1	1	0	3	2	3	2	2	3	2	2	2	3	3	1	novel		TCGA-B0-4848-01A-01W-1359-10	TCGA-B0-4848-11A-01W-1359-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	e1f8ad3f-9bbd-48b1-83bf-13972f408470	d898b6cb-2bd5-4507-ba0a-673510b19be3		T	49448367	A	T	49448367	3	4	105	1	0	0	0	0	1	0	0	0	9621	420	15	5	16477	5	MLL2	12	49448367	Missense_Mutation	SNP	A	TCGA-B0-4848-01A-01W-1359-10		49448367	84403528	1	5957											
WDR47	22911	hgsc.bcm.edu	37	chr1	109553950	109553950	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacagtaaactcagatccaAatcatcacaaccattaccac	17	8	3	13	0	3	2	3	1	0	1	4	2	4	2	3	0	3	1	3	0	5	2	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	109553950	A	T	109553950	3	4	106	1	0	0	0	0	1	0	0	0	17299	11	1	5	2088	5	WDR47	1	109553950	Missense_Mutation	SNP	A	TCGA-B0-4849-01A-01D-1361-10		109553950	139696671	1	5958											
GBA	2629	hgsc.bcm.edu	37	chr1	155209553	155209553	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcagggtcagtagcaggCctgaggacatccacagggaa	11	5	15	10	0	1	1	1	1	0	0	2	3	2	3	2	4	2	4	2	4	2	1	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		G	155209553	C	G	155209553	3	3	106	1	0	0	0	0	1	0	0	0	6266	753	26	4	1334	4	GBA	1	155209553	Missense_Mutation	SNP	C	TCGA-B0-4849-01A-01D-1361-10	45655603	155209553	94041068	2	5959											
F5	2153	hgsc.bcm.edu	37	chr1	169510437	169510437	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagagtcatatggctgagTtctggagagaggtttgtctg	9	12	16	4	0	3	3	1	1	2	2	3	7	3	4	0	3	0	3	0	3	1	3	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		C	169510437	T	C	169510437	2	2	106	1	0	0	0	0	0	0	0	1	5348	1722	60	3		3	F5	1	169510437	Silent	SNP	T	TCGA-B0-4849-01A-01D-1361-10	14300884	169510437	79740184	3	5960											
LAMB3	3914	hgsc.bcm.edu	37	chr1	209807972	209807972	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctcaatcagcatgccggcGggcatgggcccctgtggaga	7	6	15	13	3	2	1	2	0	0	1	2	2	2	1	3	4	2	3	3	4	1	0	rs1130667	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		A	209807972	G	A	209807972	2	1	106	1	0	0	0	0	0	0	0	1	8612	1103	39	1		1	LAMB3	1	209807972	Silent	SNP	G	TCGA-B0-4849-01A-01D-1361-10	40297535	209807972	39442649	4	5961											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52678735	52678735	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctcattcgaagacttGacttagccatttcatgatgt	10	14	6	11	1	2	3	2	2	0	1	3	4	2	3	3	0	2	0	3	0	3	5	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	52678735	G	T	52678735	4	4	106	1	0	0	0	0	0	1	0	0	11491	1294	45	4	4108	4	PBRM1	3	52678735	Nonsense_Mutation	SNP	G	TCGA-B0-4849-01A-01D-1361-10		52678735	145343695	5	5962											
SLC4A4	8671	hgsc.bcm.edu;ucsc.edu	37	chr4	72338634	72338634	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccccatcaactccaactTcaaagtgggctacaacactc	13	8	4	16	0	2	0	2	0	0	0	4	0	3	0	3	1	5	1	3	1	6	3	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		C	72338634	T	C	72338634	3	2	106	1	0	0	0	0	1	0	0	0	14658	1783	62	3	2021	3	SLC4A4	4	72338634	Missense_Mutation	SNP	T	TCGA-B0-4849-01A-01D-1361-10		72338634	118815642	6	5963											
FAT4	79633	hgsc.bcm.edu;ucsc.edu	37	chr4	126373477	126373477	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggcagctgtgaagcgaaAtcataatcagtatgtgaatc	13	12	10	6	1	2	2	2	2	0	0	3	3	2	2	0	1	2	3	0	1	5	3	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		C	126373477	A	C	126373477	3	2	106	1	0	0	0	0	1	0	0	0	5692	101	4	5	11340	5	FAT4	4	126373477	Missense_Mutation	SNP	A	TCGA-B0-4849-01A-01D-1361-10	54034843	126373477	64780799	7	5964											
ASCC3	10973	hgsc.bcm.edu;ucsc.edu	37	chr6	101296058	101296058	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaccacttttaatagaaGcaagcatatcatataaagta	18	11	4	8	0	2	1	2	0	0	1	2	1	2	1	1	0	2	3	1	0	9	7	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		C	101296058	G	C	101296058	3	2	106	1	0	0	0	0	1	0	0	0	1033	971	34	4	5997	4	ASCC3	6	101296058	Missense_Mutation	SNP	G	TCGA-B0-4849-01A-01D-1361-10		101296058	69819009	8	5965											
EGFR	1956	hgsc.bcm.edu	37	chr7	55259454	55259454	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcttggtgcaccgcgacCtggcagccaggaacgtactg	7	7	14	13	4	0	0	0	0	0	0	1	2	0	1	3	3	4	4	3	3	2	2	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		A	55259454	C	A	55259454	3	1	106	1	0	0	0	0	1	0	0	0	4967	680	24	4	2858	4	EGFR	7	55259454	Missense_Mutation	SNP	C	TCGA-B0-4849-01A-01D-1361-10		55259454	103879209	9	5966											
ZNF800	168850	hgsc.bcm.edu;ucsc.edu	37	chr7	127017270	127017270	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggagacttggtgggcagtAgaattttttatgggtaatta	10	15	13	3	0	0	2	0	0	0	2	0	3	0	2	0	4	0	3	0	4	5	7	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	127017270	A	T	127017270	3	4	106	1	0	0	0	0	1	0	0	0	18168	420	15	5	1735	5	ZNF800	7	127017270	Missense_Mutation	SNP	A	TCGA-B0-4849-01A-01D-1361-10	71757816	127017270	32121393	10	5967											
CNTNAP2	26047	hgsc.bcm.edu;ucsc.edu	37	chr7	147092819	147092819	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatacgaagtggcacaaagGaagccgggaagtttcgcgaa	14	7	13	7	4	0	0	0	0	0	0	1	4	0	2	1	3	2	2	1	3	7	3	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	147092819	G	T	147092819	3	4	106	1	0	0	0	0	1	0	0	0	3647	1165	41	4	1655	4	CNTNAP2	7	147092819	Missense_Mutation	SNP	G	TCGA-B0-4849-01A-01D-1361-10	20075549	147092819	12045844	11	5968											
ZNF706	51123	hgsc.bcm.edu;ucsc.edu	37	chr8	102213933	102213933	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgctttttggcattttTctgctgagactgaattttct	6	20	8	7	0	2	2	0	2	2	1	2	3	2	2	0	1	3	4	0	1	1	7	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		C	102213933	T	C	102213933	3	2	106	1	0	0	0	0	1	0	0	0	18109	1792	62	3	201	3	ZNF706	8	102213933	Missense_Mutation	SNP	T	TCGA-B0-4849-01A-01D-1361-10		102213933	44150089	12	5969											
LRSAM1	90678	hgsc.bcm.edu;ucsc.edu	37	chr9	130241215	130241215	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttttttcctcccagaaCaggttctcagactatgagaa	10	14	7	10	0	2	3	1	1	2	3	5	4	4	3	2	1	1	1	2	1	3	5	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	130241215	C	T	130241215	2	4	106	1	0	0	0	0	0	0	0	1	9043	477	17	2		2	LRSAM1	9	130241215	Silent	SNP	C	TCGA-B0-4849-01A-01D-1361-10		130241215	10972216	13	5970											
ZEB1	6935	hgsc.bcm.edu;ucsc.edu	37	chr10	31812969	31812969	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagacagaaaatggaatgTatgcttgtgatttgtgtgac	13	12	13	3	0	0	4	0	2	0	2	0	6	0	6	0	2	1	2	0	2	5	3	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		C	31812969	T	C	31812969	3	2	106	1	0	0	0	0	1	0	0	0	17622	1638	57	3	2754	3	ZEB1	10	31812969	Missense_Mutation	SNP	T	TCGA-B0-4849-01A-01D-1361-10		31812969	103721778	14	5971											
ZNF33A	7581	hgsc.bcm.edu;ucsc.edu	37	chr10	38343549	38343549	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataaactatttaggaaaaaAgtctgatgaatttaatgcct	17	13	7	4	0	1	2	0	2	1	0	1	4	1	3	1	1	2	0	1	1	9	6	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	38343549	A	T	38343549	3	4	106	1	0	0	0	0	1	0	0	0	17853	72	3	5	511	5	ZNF33A	10	38343549	Missense_Mutation	SNP	A	TCGA-B0-4849-01A-01D-1361-10	6530580	38343549	97191198	15	5972											
C10orf118	55088	hgsc.bcm.edu;ucsc.edu	37	chr10	115891000	115891000	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aattcttctacctgggtactCaatgctttaacttctgtttg	8	18	6	9	0	4	0	1	0	3	0	4	0	4	0	1	1	4	3	1	1	5	8	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		G	115891000	C	G	115891000	3	3	106	1	0	0	0	0	1	0	0	0	1587	825	29	4	709	4	C10orf118	10	115891000	Missense_Mutation	SNP	C	TCGA-B0-4849-01A-01D-1361-10	77547451	115891000	19643747	16	5973			1	9		2	2	84	N	C_A	6.702673e-05
C10orf118	55088	hgsc.bcm.edu;ucsc.edu	37	chr10	115891083	115891083	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgcagttcttcctctttcaAcaacctactttcctgaatag	9	15	4	13	1	3	1	1	1	2	0	6	1	5	1	3	0	3	2	3	0	5	6	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		G	115891083	A	G	115891083	2	3	106	1	0	0	0	0	0	0	0	1	1587	40	2	3		3	C10orf118	10	115891083	Silent	SNP	A	TCGA-B0-4849-01A-01D-1361-10	83	115891083	19643664	17	5974			1	9		2	2	84	N	C_A	6.702673e-05
EIF4G2	1982	hgsc.bcm.edu;ucsc.edu	37	chr11	10825559	10825559	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaatggctctctgttcctCctcctcggggaggaggggat	6	10	14	11	1	1	0	0	0	1	0	6	3	4	3	3	6	1	3	3	6	1	1	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		A	10825559	C	A	10825559	4	1	106	1	0	0	0	0	0	1	0	0	5037	864	30	4	2194	4	EIF4G2	11	10825559	Nonsense_Mutation	SNP	C	TCGA-B0-4849-01A-01D-1361-10		10825559	124180957	18	5975											
TPH1	7166	hgsc.bcm.edu;ucsc.edu	37	chr11	18050851	18050851	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgagctcttggaatacGgttccccaggtcttaatctc	7	15	9	10	1	3	1	0	1	3	0	5	2	4	2	2	3	2	3	2	3	3	6	rs150277860	bycluster;byfrequency;by1000genomes	TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		A	18050851	G	A	18050851	2	1	106	1	0	0	0	0	0	0	0	1	16400	1103	39	1		1	TPH1	11	18050851	Silent	SNP	G	TCGA-B0-4849-01A-01D-1361-10	7225292	18050851	116955665	19	5976											
CLEC12A	160364	hgsc.bcm.edu;ucsc.edu	37	chr12	10131627	10131627	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgactcttctgtgccttCtgttgctcattggattggga	4	18	10	9	0	5	1	1	1	4	0	5	3	5	3	1	2	2	2	1	2	0	6	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	10131627	C	T	10131627	2	4	106	1	0	0	0	0	0	0	0	1	3497	912	32	2		2	CLEC12A	12	10131627	Silent	SNP	C	TCGA-B0-4849-01A-01D-1361-10		10131627	123720268	20	5977											
KRT75	9119	hgsc.bcm.edu;ucsc.edu	37	chr12	52818423	52818423	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctcccaggcctgcacccaGgctatgcccaccactggtgg	7	6	10	18	0	0	0	0	0	0	0	1	0	1	0	6	4	2	2	6	4	1	1	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	52818423	G	T	52818423	3	4	106	1	0	0	0	0	1	0	0	0	8488	991	35	4	125	4	KRT75	12	52818423	Missense_Mutation	SNP	G	TCGA-B0-4849-01A-01D-1361-10	42686796	52818423	81033472	21	5978											
TRPC4	7223	hgsc.bcm.edu;ucsc.edu	37	chr13	38266223	38266223	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcgatgtgctgagaggCaagcagcagcaggaacaaaa	14	5	13	9	1	0	1	0	1	0	1	1	4	0	2	1	2	5	5	1	2	4	0	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		A	38266223	C	A	38266223	3	1	106	1	0	0	0	0	1	0	0	0	16579	710	25	4	1833	4	TRPC4	13	38266223	Missense_Mutation	SNP	C	TCGA-B0-4849-01A-01D-1361-10		38266223	76903655	22	5979											
MYH13	8735	hgsc.bcm.edu	37	chr17	10219054	10219054	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaagctcctccagctgctGggtgagggcctgcttgcttt	4	13	12	12	0	0	1	0	1	0	0	2	1	2	1	3	2	5	5	3	2	1	3	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		A	10219054	G	A	10219054	4	1	106	1	0	0	0	0	0	1	0	0	10032	1357	47	2	1928	2	MYH13	17	10219054	Nonsense_Mutation	SNP	G	TCGA-B0-4849-01A-01D-1361-10		10219054	70976156	23	5980											
EMILIN2	84034	hgsc.bcm.edu	37	chr18	2890860	2890860	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttagtggagacacagaaacGggccagagtcctggtgtctt	10	9	14	8	1	1	3	0	0	1	3	2	4	2	3	2	3	1	1	2	3	2	2	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	2890860	G	T	2890860	2	4	106	1	0	0	0	0	0	0	0	1	5094	1103	39	4		4	EMILIN2	18	2890860	Silent	SNP	G	TCGA-B0-4849-01A-01D-1361-10		2890860	75186388	24	5981											
VPS16	64601	hgsc.bcm.edu;ucsc.edu	37	chr20	2844667	2844667	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggggacacgcctggtGtctcttactccgacattgct	6	11	12	12	2	1	0	0	0	1	0	3	2	2	1	2	3	3	2	2	3	1	2	novel		TCGA-B0-4849-01A-01D-1361-10	TCGA-B0-4849-11A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb7a0380-5949-46c4-8f7a-c24f91eb31ff	e72cee0e-92b2-49b4-926d-1f2b0797672b		T	2844667	G	T	2844667	3	4	106	1	0	0	0	0	1	0	0	0	17192	1377	48	4	1611	4	VPS16	20	2844667	Missense_Mutation	SNP	G	TCGA-B0-4849-01A-01D-1361-10		2844667	60180853	25	5982											
MTOR	2475	broad.mit.edu;ucsc.edu	37	chr1	11187799	11187799	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtacaaacgagatgccTcttccaggccttcatgccac	12	8	7	14	1	2	1	1	0	1	1	3	2	3	1	4	1	4	1	4	1	3	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	11187799	A	A	11187799	3	1	107	1	0	0	0	0	1	0	0	0	9954	1551	54	5	1611	5	MTOR	1	11187799	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10		11187799	238062822	1	5983											
BCL9	607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	147096204	147096204	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcccgcattattccatCtgagaagcccagccagacgc	10	9	7	15	2	2	2	0	1	2	2	4	3	4	2	4	0	2	1	4	0	3	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	147096204	C	A	147096204	3	1	107	1	0	0	0	0	1	0	0	0	1381	913	32	4	3751	4	BCL9	1	147096204	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	135908405	147096204	102154417	2	5984											
CD1E	913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158324301	158324301	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggtgacctgcagactCatggctgggacactgtcttg	6	10	15	10	0	2	2	1	1	1	1	2	3	2	3	1	4	1	3	1	4	0	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	158324301	C	A	158324301	3	1	107	1	0	0	0	0	1	0	0	0	2978	826	29	4	199	4	CD1E	1	158324301	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	11228097	158324301	90926320	3	5985											
PPP2R5A	5525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	212506854	212506854	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagatcagtgctaacatcTtccgtacacttcctccaagt	11	12	5	13	1	2	1	1	0	1	1	5	1	5	1	3	0	4	2	3	0	4	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	212506854	T	A	212506854	3	1	107	1	0	0	0	0	1	0	0	0	12394	1609	56	5	404	5	PPP2R5A	1	212506854	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10	54182553	212506854	36743767	4	5986											
OTOF	9381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	26684967	26684967	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccccctcacgaagatgtCactggacttctcccctgtga	8	9	7	17	1	3	2	2	1	1	1	4	4	3	3	5	1	0	0	5	1	1	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	26684967	C	A	26684967	3	1	107	1	0	0	0	0	1	0	0	0	11303	826	29	4	923	4	OTOF	2	26684967	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10		26684967	216514406	5	5987											
KCNG3	170850	hgsc.bcm.edu;ucsc.edu	37	chr2	42671444	42671444	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcaacgtttgagagtcAaaccgagtgtctgaagacca	13	8	12	8	2	2	3	1	2	1	2	2	5	2	3	2	1	3	3	2	1	4	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	42671444	A	G	42671444	3	3	107	1	0	0	0	0	1	0	0	0	8029	131	5	3	373	3	KCNG3	2	42671444	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	15986477	42671444	200527929	6	5988											
AAK1	22848	broad.mit.edu;ucsc.edu	37	chr2	69704092	69704092	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgagccctcagggacatcaAaacctgagatgagattacta	14	7	9	11	1	2	2	2	2	0	2	2	6	2	3	3	1	3	0	3	1	4	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	69704092	G	G	69704092	3	3	107	1	0	0	0	0	1	0	0	0	16	14	1	3	182	3	AAK1	2	69704092	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	27032648	69704092	173495281	7	5989											
AUP1	550	broad.mit.edu;ucsc.edu	37	chr2	74754424	74754424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcccttggtgatgtctTcaggcatgaaagctacggcc	8	11	12	10	1	2	2	1	2	1	0	3	3	3	2	2	3	2	3	2	3	2	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	74754424	C	C	74754424	3	2	107	1	0	0	0	0	1	0	0	0	1220	1783	62	3	216	3	AUP1	2	74754424	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10	5050332	74754424	168444949	8	5990											
CD8A	925	hgsc.bcm.edu	37	chr2	87015623	87015623	+	RNA	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccccagggctggccaagGtgagcaggctgagttcaaaa	11	5	13	12	0	1	2	1	2	0	0	1	2	1	2	4	4	1	4	4	4	3	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	87015623	G	A	87015623	1	1	107	0	1	0	0	0	0	0	0	0	3044	1276	44	2		2	CD8A	2	87015623	RNA	SNP	G	TCGA-B0-4852-01A-01D-1501-10	12261199	87015623	156183750	9	5991											
SCN7A	6332	broad.mit.edu;ucsc.edu	37	chr2	167289087	167289087	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctcatttacatggtccAttgtgtcctttgggacattt	8	17	7	9	0	1	0	1	0	0	0	3	1	3	1	3	2	2	0	3	2	2	6	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	167289087	T	T	167289087	3	4	107	1	0	0	0	0	1	0	0	0	13925	217	8	5	2759	5	SCN7A	2	167289087	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	80273464	167289087	75910286	10	5992											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179622487	179622487	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgggaatgccagaaaccCtcgcatgaaatctgactgtc	11	9	10	11	1	1	3	0	2	1	1	3	4	1	4	2	1	2	2	2	1	3	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	179622487	C	A	179622487	3	1	107	1	0	0	0	0	1	0	0	0	16734	681	24	4	100800	4	TTN	2	179622487	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	12333400	179622487	63576886	11	5993											
ZFAND2B	130617	broad.mit.edu;ucsc.edu	37	chr2	220072989	220072989	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctacagacttgctgccaTctccagagcacaagctgtgg	9	9	9	14	0	1	2	0	0	1	2	3	2	2	2	3	1	5	3	3	1	2	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	220072989	C	C	220072989	3	2	107	1	0	0	0	0	1	0	0	0	17627	1435	50	3	464	3	ZFAND2B	2	220072989	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10	40450502	220072989	23126384	12	5994											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191469	10191469	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttggtttttgcccttccAgtgtatactctgaaagagcg	8	15	10	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	3	6	rs5030816		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	10191469	G	G	10191469	5	3	107	1	0	0	0	0	0	0	1	0	17161	202	7	3	472	3	VHL	3	10191469	Splice_Site	SNP	A	TCGA-B0-4852-01A-01D-1501-10		10191469	187830961	13	5995											
ULK4	54986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	41795894	41795895	+	Frame_Shift_Ins	INS	-	-	A																															acatctcacggttataaatcINSaaaatatatagaagaaccag																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	41795895	-	A	41795894	7	5	107	1	0	1	1	0	0	0	0	0	16977	825	29	0	1611	0	ULK4	3	41795894	Frame_Shift_Ins	INS	-	TCGA-B0-4852-01A-01D-1501-10	31604425	41795894	156226536	14	5996											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47144873	47144873	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttcacagctgtgattcAtgaaacgagagcaatttcct	11	13	9	8	1	2	3	2	2	0	1	3	4	3	3	1	1	3	3	1	1	2	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	47144873	A	C	47144873	3	2	107	1	0	0	0	0	1	0	0	0	14133	217	8	5	2874	5	SETD2	3	47144873	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	5348979	47144873	150877557	15	5997											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52623124	52623124	+	Frame_Shift_Del	DEL	T	T	-																															gtctttcaatacagacgataTgtggttgtaggttggcctct																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	52623124	T	-	52623124	7	5	107	1	0	1	0	1	0	0	0	0	11491	1464	51	0	2025	0	PBRM1	3	52623124	Frame_Shift_Del	DEL	T	TCGA-B0-4852-01A-01D-1501-10	5478251	52623124	145399306	16	5998											
HCLS1	3059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121366274	121366274	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcatgctcctctgatacTttgttcctcagctggtggat	7	15	8	11	0	3	1	2	1	1	0	5	2	5	2	2	2	3	3	2	2	1	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	121366274	T	G	121366274	3	3	107	1	0	0	0	0	1	0	0	0	6995	1606	56	5	1324	5	HCLS1	3	121366274	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10	68743150	121366274	76656156	17	5999											
MED12L	116931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150874118	150874118	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagcatttcacatgttccagGtaaccttttgaagacatgca	12	13	7	9	0	1	2	1	1	0	1	2	2	2	2	2	1	3	4	2	1	3	6	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	150874118	G	T	150874118	5	4	107	1	0	0	0	0	0	0	1	0	9429	1275	44	4	745	4	MED12L	3	150874118	Splice_Site	SNP	G	TCGA-B0-4852-01A-01D-1501-10	29507844	150874118	47148312	18	6000											
ATP13A4	84239	broad.mit.edu;ucsc.edu	37	chr3	193158423	193158423	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagatggtcccattgatcaAtatctgtaaggaacccaaaa	17	9	7	8	0	2	2	1	1	1	1	3	3	3	3	2	2	1	1	2	2	7	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	193158423	C	C	193158423	3	2	107	1	0	0	0	0	1	0	0	0	1126	98	4	5	1187	5	ATP13A4	3	193158423	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	42284305	193158423	4864007	19	6001											
TEC	100124696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48148400	48148400	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacactaactgggtaccgAagcctggtgacaagtcctaa	12	9	9	11	1	1	1	1	1	0	0	2	2	2	1	3	2	3	1	3	2	5	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	48148400	A	T	48148400	2	4	107	1	0	0	0	0	0	0	0	1	15741	233	9	5		5	TEC	4	48148400	Silent	SNP	A	TCGA-B0-4852-01A-01D-1501-10		48148400	143005876	20	6002											
SEC24D	9871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	119718966	119718966	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcgaggactggcatttcCtgaaacattcaaaaggatac	15	9	9	8	1	1	1	1	1	0	0	3	5	2	3	1	3	2	1	1	3	5	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	119718966	C	T	119718966	5	4	107	1	0	0	0	0	0	0	1	0	13999	695	24	2	2249	2	SEC24D	4	119718966	Splice_Site	SNP	C	TCGA-B0-4852-01A-01D-1501-10	71570566	119718966	71435310	21	6003											
GRIA2	2891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	158282180	158282180	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgcggttaacctcgcAgtactaaaactgaatgaaca	17	8	8	8	2	0	3	0	2	0	1	1	3	0	3	1	1	5	3	1	1	7	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	158282180	A	C	158282180	2	2	107	1	0	0	0	0	0	0	0	1	6768	175	7	5		5	GRIA2	4	158282180	Silent	SNP	A	TCGA-B0-4852-01A-01D-1501-10	38563214	158282180	32872096	22	6004											
MARCH1	55016	broad.mit.edu;ucsc.edu	37	chr4	164450028	164450028	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgagaagttcttctccaGttttttggcagtgtctgggc	7	15	11	8	0	3	1	0	1	3	1	4	2	3	1	1	2	0	3	1	2	1	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	164450028	T	T	164450028	3	4	107	1	0	0	0	0	1	0	0	0	9298	1020	36	4	131	4	MARCH1	4	164450028	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	6167848	164450028	26704248	23	6005											
ADAMTS6	11174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64483842	64483842	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatagcctcagatttccttaCctcagaccagtccaaagcca	12	10	5	14	0	2	2	2	0	0	2	4	2	4	2	6	0	3	0	6	0	4	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	64483842	C	G	64483842	5	3	107	1	0	0	0	0	0	0	1	0	270	521	18	4	458	4	ADAMTS6	5	64483842	Splice_Site	SNP	C	TCGA-B0-4852-01A-01D-1501-10		64483842	116431418	24	6006											
DNAH8	1769	hgsc.bcm.edu;ucsc.edu	37	chr6	38957910	38957910	+	Frame_Shift_Del	DEL	C	C	-																															tcactgccatccctagataaCcctgaagtctttgggcttca																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	38957910	C	-	38957910	7	5	107	1	0	1	0	1	0	0	0	0	4607	506	18	0	12859	0	DNAH8	6	38957910	Frame_Shift_Del	DEL	C	TCGA-B0-4852-01A-01D-1501-10		38957910	132157157	25	6007											
OPRM1	4988	broad.mit.edu;hgsc.bcm.edu	37	chr6	154412543	154412543	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcaacaaaactccactcGaattcgtcagaacactagag	16	7	7	11	2	1	3	1	1	0	2	4	4	2	3	1	0	4	1	1	0	6	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	154412543	G	T	154412543	3	4	107	1	0	0	0	0	1	0	0	0	10887	1058	37	4	1444	4	OPRM1	6	154412543	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	115454633	154412543	16702524	26	6008											
KLHL7	55975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23183605	23183605	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacggtacaagctgaaccaCttattcaagacaatcctgaa	17	8	6	10	1	1	3	1	2	0	1	2	3	2	3	2	1	4	2	2	1	8	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	23183605	C	G	23183605	3	3	107	1	0	0	0	0	1	0	0	0	8394	565	20	4	839	4	KLHL7	7	23183605	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10		23183605	135955058	27	6009											
WASL	8976	broad.mit.edu	37	chr7	123332892	123332892	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggaggaggaggtggccCtccccttgatggtggtggag	6	7	21	7	0	0	1	0	1	0	0	1	6	1	6	3	9	0	0	3	9	0	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	123332892	A	A	123332892	3	1	107	1	0	0	0	0	1	0	0	0	17255	681	24	4	673	4	WASL	7	123332892	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	100149287	123332892	35805771	28	6010											
ADCK2	90956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	140387007	140387007	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctgacctgaggaattTccgggcagttttcatggctg	6	11	13	11	1	1	2	1	2	0	0	2	3	2	3	4	4	0	3	4	4	1	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	140387007	T	A	140387007	3	1	107	1	0	0	0	0	1	0	0	0	289	1783	62	5	1541	5	ADCK2	7	140387007	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10	17054115	140387007	18751656	29	6011											
CTSL1	1514	broad.mit.edu;hgsc.bcm.edu	37	chr9	90343025	90343026	+	Frame_Shift_Del	DEL	AC	AC	-																															caggaatacagggaagggaaAcacagcttcacaatggccat																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	90343026	AC	-	90343025	7	5	107	1	0	1	0	1	0	0	0	0	4038	40	2	0	216	0	CTSL1	9	90343025	Frame_Shift_Del	DEL	AC	TCGA-B0-4852-01A-01D-1501-10		90343025	50870406	30	6012											
CEP110	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123870184	123870184	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaattaaaaatcaagatAaattgaataaatcattaaaa	25	10	4	2	0	2	2	2	1	0	1	2	3	2	3	0	1	0	0	0	1	12	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	123870184	A	T	123870184	4	4	107	1	0	0	0	0	0	1	0	0	3245	363	13	5	935	5	CEP110	9	123870184	Nonsense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	33527159	123870184	17343247	31	6013											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu	37	chr10	375486	375486	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcaagaagccacaaggcggGgttggtttccagctcagagg	10	6	16	9	1	1	2	1	0	0	2	2	2	2	2	2	6	2	4	2	6	3	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	375486	G	T	375486	3	4	107	1	0	0	0	0	1	0	0	0	4529	1232	43	4	1062	4	DIP2C	10	375486	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10		375486	135159261	32	6014											
C10orf47	0	broad.mit.edu;hgsc.bcm.edu	37	chr10	11894170	11894170	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcagcagaggcggcagcCtggagagtcgaagcagcagc	10	4	15	12	2	1	2	1	0	0	2	2	4	1	2	2	3	5	4	2	3	1	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	11894170	C	T	11894170	2	4	107	1	0	0	0	0	0	0	0	1	1605	680	24	2		2	C10orf47	10	11894170	Silent	SNP	C	TCGA-B0-4852-01A-01D-1501-10	11518684	11894170	123640577	33	6015											
CCAR1	55749	hgsc.bcm.edu;ucsc.edu	37	chr10	70520853	70520857	+	Frame_Shift_Del	DEL	TAAAG	TAAAG	-																															gcccgattgacaaaacagctTaaagtagaggaacaaaaaga																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	TAAAG	TAAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	70520857	TAAAG	-	70520853	7	5	107	1	0	1	0	1	0	0	0	0	2730	1741	61	0	2068	0	CCAR1	10	70520853	Frame_Shift_Del	DEL	TAAAG	TCGA-B0-4852-01A-01D-1501-10	58626683	70520853	65013894	34	6016											
ITPRIP	85450	hgsc.bcm.edu	37	chr10	106074435	106074435	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaagcacagcaactcgtGcagacgagcgtccagctgcc	11	4	12	14	3	0	1	0	0	0	1	2	3	1	2	2	1	7	4	2	1	2	0	rs145628846	alternate_allele	TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	106074435	G	A	106074435	3	1	107	1	0	0	0	0	1	0	0	0	7923	1319	46	2	272	2	ITPRIP	10	106074435	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	35553582	106074435	29460312	35	6017											
NHLRC2	374354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115664580	115664580	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttcttatttcctagctccCcatcttcagatctgaaaatg	9	17	4	11	0	4	2	1	1	3	1	6	2	6	2	3	0	1	1	3	0	4	6	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	115664580	C	G	115664580	3	3	107	1	0	0	0	0	1	0	0	0	10406	623	22	4	1747	4	NHLRC2	10	115664580	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	9590145	115664580	19870167	36	6018											
BUB3	9184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	124917322	124917322	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatgtgatggtcactggaAgttgggatcagacagttaaa	13	11	13	4	0	2	3	2	2	0	1	2	5	2	5	0	3	0	2	0	3	4	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	124917322	A	G	124917322	3	3	107	1	0	0	0	0	1	0	0	0	1572	72	3	3	353	3	BUB3	10	124917322	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	9252742	124917322	10617425	37	6019											
OR56A3	390083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5969272	5969272	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgagctgtgctgagactCaaggcagagggtgccgtggc	7	7	17	10	2	1	2	1	1	0	2	1	4	1	2	1	3	4	3	1	3	1	0	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	5969272	C	A	5969272	2	1	107	1	0	0	0	0	0	0	0	1	11134	813	29	4		4	OR56A3	11	5969272	Silent	SNP	C	TCGA-B0-4852-01A-01D-1501-10		5969272	129037244	38	6020											
RRP8	23378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6621799	6621800	+	Frame_Shift_Ins	INS	-	-	T																															cggctgctgacctcagccacINStttcaggagacccctgagaa																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	6621800	-	T	6621799	7	5	107	1	0	1	1	0	0	0	0	0	13692	565	20	0	210	0	RRP8	11	6621799	Frame_Shift_Ins	INS	-	TCGA-B0-4852-01A-01D-1501-10	652527	6621799	128384717	39	6021											
GRAMD1B	57476	hgsc.bcm.edu	37	chr11	123480598	123480599	+	Frame_Shift_Ins	INS	-	-	C																															caaccctctggctcccaaaaINSctgccactgtcagggagaca																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	123480599	-	C	123480598	7	5	107	1	0	1	1	0	0	0	0	0	6748	43	2	0	1370	0	GRAMD1B	11	123480598	Frame_Shift_Ins	INS	-	TCGA-B0-4852-01A-01D-1501-10	116858799	123480598	11525918	40	6022											
ADAMTS20	80070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	43769952	43769952	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacatgtctgcacaataaatCtaaagaaaaaatgtaaacat	21	10	4	6	0	2	1	0	0	2	1	2	1	2	1	0	0	3	2	0	0	11	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	43769952	C	T	43769952	5	4	107	1	0	0	0	0	0	0	1	0	266	927	32	2	531	2	ADAMTS20	12	43769952	Splice_Site	SNP	C	TCGA-B0-4852-01A-01D-1501-10		43769952	90081943	41	6023											
AVIL	10677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58202005	58202005	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgttgccatcatcgaccAttctttcctgggcagctacc	6	13	7	15	2	2	0	1	0	1	0	5	1	4	0	5	1	3	3	5	1	1	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	58202005	A	G	58202005	3	3	107	1	0	0	0	0	1	0	0	0	1227	217	8	3	1333	3	AVIL	12	58202005	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	14432053	58202005	75649890	42	6024											
TMCC3	57458	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	94975953	94975953	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctttgagctcctagaggctCcattctgctcgatctctctg	5	14	8	14	1	3	2	0	1	3	1	7	3	5	2	3	1	2	3	3	1	1	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	94975953	C	A	94975953	3	1	107	1	0	0	0	0	1	0	0	0	15993	855	30	4	1005	4	TMCC3	12	94975953	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	36773948	94975953	38875942	43	6025											
NTN4	59277	hgsc.bcm.edu;ucsc.edu	37	chr12	96107078	96107078	+	Frame_Shift_Del	DEL	G	G	-																															gcacagtgctggcagtggctGcctgctgtgttgtgcttaca																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	96107078	G	-	96107078	7	5	107	1	0	1	0	1	0	0	0	0	10702	1306	46	0	1011	0	NTN4	12	96107078	Frame_Shift_Del	DEL	G	TCGA-B0-4852-01A-01D-1501-10	1131125	96107078	37744817	44	6026											
RBM19	9904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	114364985	114364985	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgctgaagagttgtcTgctccttcctctgttggatt	5	18	9	9	0	3	2	0	1	3	1	5	3	5	3	2	1	2	4	2	1	1	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	114364985	T	C	114364985	2	2	107	1	0	0	0	0	0	0	0	1	13123	1567	55	3		3	RBM19	12	114364985	Silent	SNP	T	TCGA-B0-4852-01A-01D-1501-10	18257907	114364985	19486910	45	6027											
PCDH9	5101	broad.mit.edu;ucsc.edu	37	chr13	67801923	67801923	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttgattttcatcacatagGtatctttctgttctctatcc	7	20	4	10	0	5	1	2	1	3	0	7	1	6	1	1	1	0	2	1	1	3	8	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	67801923	T	T	67801923	3	4	107	1	0	0	0	0	1	0	0	0	11518	1261	44	4	3079	4	PCDH9	13	67801923	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10		67801923	47367955	46	6028											
KCTD12	115207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	77459423	77459423	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgccaccatgtggaagccCgactcggacagcttgtcgaa	10	6	11	14	4	0	0	0	0	0	0	2	4	0	2	3	2	2	1	3	2	2	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	77459423	C	G	77459423	2	3	107	1	0	0	0	0	0	0	0	1	8099	639	23	4		4	KCTD12	13	77459423	Silent	SNP	C	TCGA-B0-4852-01A-01D-1501-10	9657500	77459423	37710455	47	6029											
SPTLC2	9517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	78045381	78045381	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacagattggccgattccaGttgtctcttatcctcatgta	8	15	7	11	1	2	1	1	0	1	1	5	2	4	1	3	1	1	2	3	1	3	6	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	78045381	G	A	78045381	2	1	107	1	0	0	0	0	0	0	0	1	15125	1020	36	2		2	SPTLC2	14	78045381	Silent	SNP	G	TCGA-B0-4852-01A-01D-1501-10		78045381	29304159	48	6030											
VPS18	57617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41192166	41192166	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgtgggcctacactgagCgggctgtcttccgctaccac	6	9	12	14	2	1	1	0	1	1	0	2	1	2	1	3	2	4	3	3	2	2	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	41192166	C	T	41192166	3	4	107	1	0	0	0	0	1	0	0	0	17193	759	27	1	1164	1	VPS18	15	41192166	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10		41192166	61339226	49	6031											
TYRO3	7301	hgsc.bcm.edu	37	chr15	41862436	41862436	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatcctgggttttcctttAggcaagcctttgacagtgtc	8	14	9	10	0	0	1	0	1	0	0	3	1	2	1	3	2	1	2	3	2	3	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	41862436	A	G	41862436	5	3	107	1	0	0	0	0	0	0	1	0	16813	434	15	3	1423	3	TYRO3	15	41862436	Splice_Site	SNP	A	TCGA-B0-4852-01A-01D-1501-10	670270	41862436	60668956	50	6032											
PLA2G4D	283748	broad.mit.edu;ucsc.edu	37	chr15	42386652	42386652	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtcccccaggtgacaggctCtccatgctagcccttccagc	6	8	10	17	0	1	1	0	1	1	0	4	1	3	1	5	3	3	2	5	3	1	2	rs148416017		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	42386652	T	T	42386652	2	4	107	1	0	0	0	0	0	0	0	1	12004	912	32	2		2	PLA2G4D	15	42386652	Silent	SNP	C	TCGA-B0-4852-01A-01D-1501-10	524216	42386652	60144740	51	6033											
CDAN1	146059	broad.mit.edu;hgsc.bcm.edu	37	chr15	43021465	43021465	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaaggctgggctcccaGgctggtggtagtggtggggg	4	8	22	7	0	0	0	0	0	0	0	1	1	1	1	1	9	0	4	1	9	2	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	43021465	G	A	43021465	2	1	107	1	0	0	0	0	0	0	0	1	3054	991	35	2		2	CDAN1	15	43021465	Silent	SNP	G	TCGA-B0-4852-01A-01D-1501-10	634813	43021465	59509927	52	6034											
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51741365	51741365	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttttaaatgaatgaattAggccatggcctgtcaatctc	12	13	7	9	0	2	2	1	2	1	0	3	2	2	2	2	2	0	0	2	2	6	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	51741365	A	G	51741365	3	3	107	1	0	0	0	0	1	0	0	0	4595	420	15	3	187	3	DMXL2	15	51741365	Missense_Mutation	SNP	A	TCGA-B0-4852-01A-01D-1501-10	8719900	51741365	50790027	53	6035											
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51839582	51839582	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccaaccagtcataggataCcacactttcaaaagacaatc	16	9	4	12	0	2	1	2	0	0	1	4	2	3	2	3	1	2	0	3	1	6	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	51839582	C	G	51839582	3	3	107	1	0	0	0	0	1	0	0	0	4595	508	18	4	8670	4	DMXL2	15	51839582	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	98217	51839582	50691810	54	6036											
TMOD3	29766	broad.mit.edu	37	chr15	52213781	52213781	+	RNA	DEL	C	-	-																															cccagcagagacttcctcctCcatgcagccttccaagaccc																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	52213781	-	-	52213781	6	5	107	0	1	1	0	1	0	0	0	0	16234	870	30	0		0	TMOD3	15	52213781	RNA	DEL	C	TCGA-B0-4852-01A-01D-1501-10	374199	52213781	50317611	55	6037											
FLYWCH1	84256	hgsc.bcm.edu;ucsc.edu	37	chr16	2983285	2983286	+	Frame_Shift_Del	DEL	CA	CA	-																															ggctgccggagccgggccatCacccagggacagcgggtgac																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	2983286	CA	-	2983285	7	5	107	1	0	1	0	1	0	0	0	0	5947	816	29	0	958	0	FLYWCH1	16	2983285	Frame_Shift_Del	DEL	CA	TCGA-B0-4852-01A-01D-1501-10		2983285	87371468	56	6038											
OR3A2	4995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3181512	3181512	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttctttcggccctccaCtgaacggattcgtagaactg	7	11	10	13	3	1	2	0	1	1	1	4	3	2	3	3	3	2	1	3	3	3	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	3181512	C	A	3181512	3	1	107	1	0	0	0	0	1	0	0	0	11038	565	20	4	251	4	OR3A2	17	3181512	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10		3181512	78013698	57	6039											
ACACA	31	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35640308	35640308	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgttagcaataagaaccTgggagggggaaggagatggg	13	7	17	4	0	0	2	0	0	0	2	0	5	0	4	1	5	2	2	1	5	5	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	35640308	T	C	35640308	5	2	107	1	0	0	0	0	0	0	1	0	106	1594	55	3	6889	3	ACACA	17	35640308	Splice_Site	SNP	T	TCGA-B0-4852-01A-01D-1501-10	32458796	35640308	45554902	58	6040											
NAGS	162417	broad.mit.edu	37	chr17	42083124	42083124	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgccggcccctacggcTccctcgggctgtctttcctt	1	11	12	17	3	1	0	0	0	1	0	4	0	3	0	5	4	2	3	5	4	1	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	42083124	C	C	42083124	2	2	107	1	0	0	0	0	0	0	0	1	10145	1538	54	3		3	NAGS	17	42083124	Silent	SNP	T	TCGA-B0-4852-01A-01D-1501-10	6442816	42083124	39112086	59	6041											
CLTC	1213	broad.mit.edu;ucsc.edu	37	chr17	57754361	57754361	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagaattcatgagggcTgtgaggagcctgctactcac	10	8	13	10	0	2	3	2	2	0	1	2	4	2	4	2	3	3	2	2	3	2	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	57754361	C	C	57754361	3	2	107	1	0	0	0	0	1	0	0	0	3566	1580	55	3	2674	3	CLTC	17	57754361	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10	15671237	57754361	23440849	60	6042											
ACTG1	71	broad.mit.edu	37	chr17	79479120	79479120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgccacgcttgctctgggCctcgtcgcccacgtaggagt	5	9	13	14	4	1	0	0	0	1	0	3	2	1	1	3	2	2	3	3	2	1	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	79479120	T	T	79479120	3	4	107	1	0	0	0	0	1	0	0	0	196	739	26	2	971	2	ACTG1	17	79479120	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	21724759	79479120	1716090	61	6043											
SERPINB11	89778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61390295	61390295	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttctaacatgatggaaagaGaagttgaagtacacctcccc	14	9	8	10	0	1	3	0	2	1	1	2	5	2	4	3	1	2	2	3	1	5	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	61390295	G	C	61390295	3	2	107	1	0	0	0	0	1	0	0	0	14100	943	33	4	867	4	SERPINB11	18	61390295	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10		61390295	16686953	62	6044											
EMR3	84658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14736333	14736333	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgagtcaggacccatctTgctggaaagtgtgtatgtct	8	15	11	7	0	3	1	1	1	2	0	3	3	3	3	1	2	1	2	1	2	2	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		C	14736333	T	C	14736333	3	2	107	1	0	0	0	0	1	0	0	0	5106	1821	63	3	75	3	EMR3	19	14736333	Missense_Mutation	SNP	T	TCGA-B0-4852-01A-01D-1501-10		14736333	44392650	63	6045											
ZNF570	148268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37975687	37975687	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagagagaccctatgaatGtaaggaatgtgggaaggcct	13	8	15	5	0	0	3	0	1	0	2	0	7	0	5	2	4	0	1	2	4	5	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	37975687	G	T	37975687	3	4	107	1	0	0	0	0	1	0	0	0	18001	1377	48	4	1177	4	ZNF570	19	37975687	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	23239354	37975687	21153296	64	6046											
ERF	2077	broad.mit.edu;hgsc.bcm.edu	37	chr19	42753474	42753474	+	Frame_Shift_Del	DEL	G	G	-																															catgggcagagccggggagaGctgagggggcagcagggatc																								novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		-	42753474	G	-	42753474	7	5	107	1	0	1	0	1	0	0	0	0	5221	971	34	0	860	0	ERF	19	42753474	Frame_Shift_Del	DEL	G	TCGA-B0-4852-01A-01D-1501-10	4777787	42753474	16375509	65	6047											
C19orf75	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51767348	51767348	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcttccactgctacagctgGgtaagtaaggtgagaagcag	11	9	13	8	0	0	1	0	1	0	1	1	2	1	1	1	2	5	6	1	2	4	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	51767348	G	T	51767348	3	4	107	1	0	0	0	0	1	0	0	0	1949	1246	43	4	24	4	C19orf75	19	51767348	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	9013874	51767348	7361635	66	6048											
LILRA2	11027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55085805	55085805	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctctgggctgagccaggCtctgtgatcatccagggaag	8	8	13	12	0	3	2	1	2	2	0	4	3	4	3	3	3	1	2	3	3	1	0	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	55085805	C	A	55085805	2	1	107	1	0	0	0	0	0	0	0	1	8785	784	28	4		4	LILRA2	19	55085805	Silent	SNP	C	TCGA-B0-4852-01A-01D-1501-10	3318457	55085805	4043178	67	6049											
SLC13A3	64849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	45192089	45192089	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgtccagaggcgaaggcGatggagttggggggcgttga	9	7	20	5	3	0	2	0	1	0	1	1	5	1	3	1	6	0	2	1	6	2	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	45192089	G	A	45192089	2	1	107	1	0	0	0	0	0	0	0	1	14395	1048	37	1		1	SLC13A3	20	45192089	Silent	SNP	G	TCGA-B0-4852-01A-01D-1501-10		45192089	17833431	68	6050											
ZBTB46	140685	broad.mit.edu;hgsc.bcm.edu	37	chr20	62407316	62407316	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgacggacaggtccgcatCtggggacagagggacacacg	10	4	17	10	3	1	2	0	1	1	1	2	5	2	5	1	6	0	1	1	6	0	0	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	62407316	C	T	62407316	5	4	107	1	0	0	0	0	0	0	1	0	17546	927	32	2	844	2	ZBTB46	20	62407316	Splice_Site	SNP	C	TCGA-B0-4852-01A-01D-1501-10	17215227	62407316	618204	69	6051											
BRWD1	54014	broad.mit.edu;ucsc.edu	37	chr21	40572254	40572254	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactctctttgctttcctcAgaactactggaagctgacga	10	12	8	11	1	2	2	1	1	1	1	4	5	3	3	1	1	5	2	1	1	4	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		G	40572254	G	G	40572254	2	3	107	1	0	0	0	0	0	0	0	1	1525	175	7	3		3	BRWD1	21	40572254	Silent	SNP	A	TCGA-B0-4852-01A-01D-1501-10		40572254	7557641	70	6052											
USP18	11274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	18643020	18643020	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtaatgaatgtggacttcaCcaggatattgaagaggtaag	14	10	12	5	1	1	3	1	2	0	1	1	5	1	5	1	3	0	2	1	3	5	5	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	18643020	C	A	18643020	3	1	107	1	0	0	0	0	1	0	0	0	17048	507	18	4	245	4	USP18	22	18643020	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10		18643020	32661546	71	6053											
FBLN1	2192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45928965	45928965	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggccctgcaagcagcaGtgccgagacacgggtgacga	9	3	17	12	4	0	2	0	1	0	1	0	4	0	2	2	3	4	3	2	3	1	0	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	45928965	G	T	45928965	3	4	107	1	0	0	0	0	1	0	0	0	5698	1020	36	4	589	4	FBLN1	22	45928965	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	27285945	45928965	5375601	72	6054											
GLRA2	2742	broad.mit.edu;ucsc.edu	37	chrX	14748581	14748581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatcacatacaagatcattCggcatgaagatgtccacaag	15	8	9	9	1	2	3	2	1	0	2	4	4	3	4	1	2	1	1	1	2	4	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	14748581	T	T	14748581	3	4	107	1	0	0	0	0	1	0	0	0	6455	875	31	1	1439	1	GLRA2	23	14748581	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10		14748581	140521979	73	6055											
KLHL15	80311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	24007140	24007140	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatctataaaattctgatGtcttaacctaagaacacaag	17	12	5	7	0	3	2	0	1	3	1	3	2	3	2	1	0	2	1	1	0	8	6	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	24007140	G	T	24007140	3	4	107	1	0	0	0	0	1	0	0	0	8371	1377	48	4	1105	4	KLHL15	23	24007140	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	9258559	24007140	131263420	74	6056											
UBA1	7317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	47062342	47062342	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctcccttcccctctccagGcctgctccgggaagttcatg	4	11	8	18	1	3	0	1	0	2	0	7	1	5	1	6	2	1	2	6	2	1	2	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	47062342	G	A	47062342	3	1	107	1	0	0	0	0	1	0	0	0	16826	1217	42	2	1276	2	UBA1	23	47062342	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	23055202	47062342	108208218	75	6057											
PCDH11X	27328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	91137907	91137907	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatttttcttgtcctagaCtgattccaggacatcaacta	10	16	6	9	0	2	2	1	1	1	1	4	3	4	3	2	1	1	1	2	1	4	7	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	91137907	C	A	91137907	3	1	107	1	0	0	0	0	1	0	0	0	11508	579	20	4	3078	4	PCDH11X	23	91137907	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	44075565	91137907	64132653	76	6058											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107929324	107929324	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggctttgatggtgcaggagGgcgcaaaggagacccaggtc	9	7	17	8	1	0	2	0	1	0	1	1	4	0	3	1	6	1	3	1	6	1	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	107929324	G	T	107929324	3	4	107	1	0	0	0	0	1	0	0	0	3694	1232	43	4	4455	4	COL4A5	23	107929324	Missense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	16791417	107929324	47341236	77	6059											
OCRL	4952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	128720994	128720994	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaggagaaatcccttctgCaaatggttcctttggatgaa	12	13	9	7	0	1	2	0	1	1	1	3	4	3	3	2	3	1	2	2	3	4	4	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		T	128720994	C	T	128720994	4	4	107	1	0	0	0	0	0	1	0	0	10823	711	25	2	2233	2	OCRL	23	128720994	Nonsense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	20791670	128720994	26549566	78	6060											
PRRG3	79057	broad.mit.edu;hgsc.bcm.edu	37	chrX	150869198	150869198	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgcgccgggcacaccctccCccgggtcatggtgtaccggg	4	6	14	17	5	1	0	1	0	0	0	3	0	2	0	5	4	1	2	5	4	1	1	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	150869198	C	A	150869198	3	1	107	1	0	0	0	0	1	0	0	0	12609	623	22	4	399	4	PRRG3	23	150869198	Missense_Mutation	SNP	C	TCGA-B0-4852-01A-01D-1501-10	22148204	150869198	4401362	79	6061											
F8	2157	broad.mit.edu;ucsc.edu	37	chrX	154129670	154129670	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtcctgaagctgtaatctGaaaatctctaatgtgtccag	11	14	8	8	0	2	2	0	2	2	0	5	2	4	2	2	0	1	2	2	0	5	3	novel		TCGA-B0-4852-01A-01D-1501-10	TCGA-B0-4852-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	28dbeb57-c919-4f91-aa3c-7b8f3809011e	b19198c1-7ef5-4673-bb17-fbdce6183d7f		A	154129670	A	A	154129670	4	1	107	1	0	0	0	0	0	1	0	0	5350	1299	45	2	948	2	F8	23	154129670	Nonsense_Mutation	SNP	G	TCGA-B0-4852-01A-01D-1501-10	3260472	154129670	1140890	80	6062											
ARHGAP29	9411	broad.mit.edu	37	chr1	94649835	94649835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattttgtttccacacacacGataaattcccttcaatagaa	14	14	3	10	1	1	1	1	0	0	1	3	2	3	1	2	0	0	1	2	0	6	8	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	94649835	A	A	94649835	3	1	108	1	0	0	0	0	1	0	0	0	878	1058	37	1	1686	1	ARHGAP29	1	94649835	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08		94649835	154600786	1	6063											
INSRR	3645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156821582	156821582	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacttgtggcagaatatgcTagcaggagcaagcagatgtc	12	8	13	8	0	0	2	0	0	0	2	1	3	0	3	0	2	4	6	0	2	4	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	156821582	T	C	156821582	5	2	108	1	0	0	0	0	0	0	1	0	7774	1536	53	3	3028	3	INSRR	1	156821582	Splice_Site	SNP	T	TCGA-B0-4945-01A-01D-1421-08	62171747	156821582	92429039	2	6064											
FCRL5	83416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157491077	157491077	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgaggaccgggcgagacaCcggaactgaaagagaacaaa	16	2	15	8	3	0	4	0	2	0	2	0	8	0	6	2	4	2	0	2	4	4	0	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	157491077	C	A	157491077	3	1	108	1	0	0	0	0	1	0	0	0	5798	507	18	4	716	4	FCRL5	1	157491077	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08	669495	157491077	91759544	3	6065											
ITPKB	3707	broad.mit.edu	37	chr1	226836374	226836374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagagctgtgtctaccTgcgtgtcctgccagctggat	5	11	14	11	1	1	1	0	0	1	1	2	3	2	2	3	2	5	2	3	2	1	1	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	226836374	C	C	226836374	2	2	108	1	0	0	0	0	0	0	0	1	7918	1594	55	3		3	ITPKB	1	226836374	Silent	SNP	T	TCGA-B0-4945-01A-01D-1421-08	69345297	226836374	22414247	4	6066											
GALNT5	11227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158167827	158167827	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccagtgaagccatatcaAaagtggaaatttgaaaaata	19	8	8	6	0	1	2	1	2	0	0	1	4	1	3	2	1	1	0	2	1	8	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	158167827	A	T	158167827	3	4	108	1	0	0	0	0	1	0	0	0	6216	11	1	5	2828	5	GALNT5	2	158167827	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08		158167827	85031546	5	6067											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191513	10191513	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccaggttgtccggagccTagtcaagcctgagaattaca	10	9	10	12	1	1	1	1	1	0	1	3	3	3	2	5	2	3	1	5	2	4	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	10191513	T	C	10191513	3	2	108	1	0	0	0	0	1	0	0	0	17161	1522	53	3	516	3	VHL	3	10191513	Missense_Mutation	SNP	T	TCGA-B0-4945-01A-01D-1421-08		10191513	187830917	6	6068											
GRM2	2912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51749885	51749885	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtggtcgcctggctggTggtggaggcaccgggcacag	5	7	18	11	3	0	0	0	0	0	0	2	1	0	1	2	7	0	3	2	7	0	0	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	51749885	T	A	51749885	3	1	108	1	0	0	0	0	1	0	0	0	6797	1696	59	5	2106	5	GRM2	3	51749885	Missense_Mutation	SNP	T	TCGA-B0-4945-01A-01D-1421-08	41558372	51749885	146272545	7	6069											
SLC9A9	285195	broad.mit.edu	37	chr3	143567237	143567237	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaagatttgcctaagacaGtctgactgcctgagaatttc	12	12	8	9	0	2	4	1	2	1	3	3	5	2	4	2	0	2	0	2	0	3	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	143567237	T	T	143567237	1	4	108	1	0	0	0	0	0	0	0	0	14723	1044	36	4		4	SLC9A9	3	143567237	Translation_Start_Site	SNP	G	TCGA-B0-4945-01A-01D-1421-08	91817352	143567237	54455193	8	6070											
OTOP1	133060	broad.mit.edu;hgsc.bcm.edu	37	chr4	4199146	4199146	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggaagaagcaaggggcAtggtgttgccattgcagact	11	7	16	7	0	0	2	0	0	0	2	0	3	0	3	1	5	3	5	1	5	3	2	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	4199146	A	C	4199146	3	2	108	1	0	0	0	0	1	0	0	0	11305	217	8	5	431	5	OTOP1	4	4199146	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08		4199146	186955130	9	6071											
LAP3	51056	broad.mit.edu	37	chr4	17579162	17579162	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagacgtttcgggagccGgagtctctccaccgcagaca	8	7	13	13	5	1	2	0	1	1	2	4	5	2	4	3	2	1	2	3	2	0	1	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	17579162	T	T	17579162	3	4	108	1	0	0	0	0	1	0	0	0	8623	1116	39	4	76	4	LAP3	4	17579162	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	13380016	17579162	173575114	10	6072											
SCFD2	152579	hgsc.bcm.edu;ucsc.edu	37	chr4	53752026	53752026	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtcactaggatgaggcCggctcacctgcaaaacaaaa	14	6	11	10	1	2	1	2	1	0	0	2	2	2	2	2	4	2	3	2	4	6	2	rs141706393	alternate_allele	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	53752026	C	A	53752026	3	1	108	1	0	0	0	0	1	0	0	0	13892	652	23	4	212	4	SCFD2	4	53752026	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08	36172864	53752026	137402250	11	6073											
ADAMTS3	9508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	73175164	73175164	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcacggttcggcagtggGaattatctcctccacagaca	9	10	9	13	2	2	1	1	0	1	1	5	2	3	2	3	3	0	2	3	3	2	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	73175164	G	T	73175164	3	4	108	1	0	0	0	0	1	0	0	0	267	1174	41	4	1520	4	ADAMTS3	4	73175164	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	19423138	73175164	117979112	12	6074											
SEC31A	22872	hgsc.bcm.edu;ucsc.edu	37	chr4	83800058	83800058	+	Frame_Shift_Del	DEL	G	G	-																															ctttggaatccattttataaGgcccccaaatcaacttgtgg																								novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		-	83800058	G	-	83800058	7	5	108	1	0	1	0	1	0	0	0	0	14000	1000	35	0	3531	0	SEC31A	4	83800058	Frame_Shift_Del	DEL	G	TCGA-B0-4945-01A-01D-1421-08	10624894	83800058	107354218	13	6075											
CDKN2AIP	55602	hgsc.bcm.edu;ucsc.edu	37	chr4	184368249	184368249	+	Frame_Shift_Del	DEL	T	T	-																															agagctcctaaatgcagctaTtgaggctctgaaagcaacac																								novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		-	184368249	T	-	184368249	7	5	108	1	0	1	0	1	0	0	0	0	3162	1493	52	0	1422	0	CDKN2AIP	4	184368249	Frame_Shift_Del	DEL	T	TCGA-B0-4945-01A-01D-1421-08	100568191	184368249	6786027	14	6076											
FCHSD1	89848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141027542	141027542	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttaaaactggccttgagcAgagctggcagttcctcctgg	8	10	13	10	0	0	2	0	1	0	1	2	2	2	2	3	4	3	5	3	4	2	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	141027542	A	C	141027542	3	2	108	1	0	0	0	0	1	0	0	0	5789	188	7	5	1426	5	FCHSD1	5	141027542	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08		141027542	39887718	15	6077											
WDR46	9277	broad.mit.edu;ucsc.edu	37	chr6	33255942	33255942	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttggctgcacttgcaaTgtccacagcctccacaatgt	9	10	7	15	0	0	0	0	0	0	0	2	0	2	0	4	1	3	3	4	1	2	2	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		G	33255942	G	G	33255942	3	3	108	1	0	0	0	0	1	0	0	0	17298	1464	51	5	1332	5	WDR46	6	33255942	Missense_Mutation	SNP	T	TCGA-B0-4945-01A-01D-1421-08		33255942	137859125	16	6078											
DAXX	1616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33288852	33288852	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatagtcgcccaaagaggcGgatcagcttacgcttcaacc	12	7	9	13	3	2	1	2	0	0	1	3	2	2	2	2	2	3	2	2	2	4	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	33288852	G	A	33288852	3	1	108	1	0	0	0	0	1	0	0	0	4243	1116	39	1	1546	1	DAXX	6	33288852	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	32910	33288852	137826215	17	6079											
ZNF716	441234	broad.mit.edu	37	chr7	57529077	57529077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtgaagaatgtggcaaaGcctttagccgctcttcaaca	12	10	9	10	1	2	2	1	1	1	1	2	2	2	2	2	1	3	2	2	1	5	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	57529077	A	A	57529077	3	1	108	1	0	0	0	0	1	0	0	0	18118	971	34	2	924	2	ZNF716	7	57529077	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08		57529077	101609586	18	6080											
CCDC132	55610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92921015	92921015	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcttatcattttctttagCatgttacaccagacagctat	10	17	4	10	0	3	1	1	0	2	1	4	1	3	1	1	0	3	3	1	0	4	7	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	92921015	C	A	92921015	3	1	108	1	0	0	0	0	1	0	0	0	2767	724	25	4	1035	4	CCDC132	7	92921015	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08	35391938	92921015	66217648	19	6081											
COG5	10466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	106924166	106924166	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtagtgagtctttcaaaGccttttctggactgtggaaa	9	15	11	6	0	3	1	1	1	2	0	3	3	3	3	1	2	1	2	1	2	3	5	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	106924166	G	A	106924166	3	1	108	1	0	0	0	0	1	0	0	0	3661	971	34	2	1208	2	COG5	7	106924166	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	14003151	106924166	52214497	20	6082											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151878457	151878457	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtaggccggggagttccaGgaggttgagagtaagggtct	9	9	18	5	1	1	1	0	1	1	1	2	4	2	3	2	6	0	4	2	6	3	5	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	151878457	G	T	151878457	3	4	108	1	0	0	0	0	1	0	0	0	9622	1000	35	4	8343	4	MLL3	7	151878457	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	44954291	151878457	7260206	21	6083											
HINT2	84681	hgsc.bcm.edu;ucsc.edu	37	chr9	35813449	35813451	+	In_Frame_Del	DEL	TCT	TCT	-																															ctgttcttcccacctgctggTcttcttcttcagcctggcta																								novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		-	35813451	TCT	-	35813449	7	5	108	1	0	1	0	1	0	0	0	0	7112	1667	58	0	183	0	HINT2	9	35813449	In_Frame_Del	DEL	TCT	TCGA-B0-4945-01A-01D-1421-08		35813449	105399982	22	6084											
HSPA5	3309	broad.mit.edu;hgsc.bcm.edu	37	chr9	128001354	128001354	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttctacctcgcgccggaGtttctgcacagctctattgt	5	15	8	13	3	3	0	0	0	3	0	4	1	3	1	2	1	3	3	2	1	2	6	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	128001354	G	C	128001354	3	2	108	1	0	0	0	0	1	0	0	0	7414	1029	36	4	1118	4	HSPA5	9	128001354	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	92187905	128001354	13212077	23	6085											
AGAP6	414189	broad.mit.edu	37	chr10	51769499	51769499	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtcatctattgtcaatgaCctagccaacagcatctggga	12	11	8	10	0	4	1	2	1	2	0	4	2	4	2	2	1	3	1	2	1	4	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	51769499	T	T	51769499	2	4	108	1	0	0	0	0	0	0	0	1	372	506	18	2		2	AGAP6	10	51769499	Silent	SNP	C	TCGA-B0-4945-01A-01D-1421-08		51769499	83765248	24	6086											
SMC3	9126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	112340772	112340772	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagcatctccttaatgaaAgaaacaggtaaaataaatgt	20	9	7	5	0	1	2	0	1	1	1	2	3	1	2	1	1	2	2	1	1	8	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	112340772	A	T	112340772	3	4	108	1	0	0	0	0	1	0	0	0	14786	69	3	5	570	5	SMC3	10	112340772	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08	60571273	112340772	23193975	25	6087											
ZRANB1	54764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	126671767	126671767	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcaagcttggagcagacGcacatttttgtactggcaca	11	9	12	9	1	0	1	0	0	0	1	0	3	0	3	0	3	4	6	0	3	2	4	rs75293113	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	126671767	G	A	126671767	2	1	108	1	0	0	0	0	0	0	0	1	18221	1074	38	1		1	ZRANB1	10	126671767	Silent	SNP	G	TCGA-B0-4945-01A-01D-1421-08	14330995	126671767	8862980	26	6088											
ARHGAP32	9743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	129062035	129062035	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacctggattataacttcaGactccaaccagaagacactg	14	9	6	12	0	2	3	2	0	0	3	3	4	3	4	3	1	2	0	3	1	4	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	129062035	G	A	129062035	3	1	108	1	0	0	0	0	1	0	0	0	881	942	33	2	6292	2	ARHGAP32	11	129062035	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08		129062035	5944481	27	6089											
DDX23	9416	hgsc.bcm.edu	37	chr12	49233688	49233689	+	Frame_Shift_Ins	INS	-	-	G																															ctcctccagggataatggctINSgggcctgaagataaaacaga																								novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		G	49233689	-	G	49233688	7	5	108	1	0	1	1	0	0	0	0	0	4350	1580	55	0	2095	0	DDX23	12	49233688	Frame_Shift_Ins	INS	-	TCGA-B0-4945-01A-01D-1421-08		49233688	84618207	28	6090											
RIC8B	55188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	107237651	107237651	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagcagctatagagagggtCtaactccagttctcagctta	12	10	10	9	0	2	1	1	0	2	1	4	3	3	1	1	1	4	4	1	1	5	5	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		G	107237651	C	G	107237651	3	3	108	1	0	0	0	0	1	0	0	0	13358	912	32	4	1109	4	RIC8B	12	107237651	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08	58003963	107237651	26614244	29	6091											
TMEM132D	121256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	129559305	129559305	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgtctgctgtcactggtGttggggttagcatcgttttg	3	17	15	6	1	2	0	1	0	1	0	3	0	2	0	0	3	2	5	0	3	1	4	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	129559305	G	T	129559305	3	4	108	1	0	0	0	0	1	0	0	0	16046	1368	48	4	888	4	TMEM132D	12	129559305	Missense_Mutation	SNP	G	TCGA-B0-4945-01A-01D-1421-08	22321654	129559305	4292590	30	6092											
C14orf2	9556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	104381489	104381489	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggtgtagtagggcttcAtggggatccatatgttttta	7	17	12	5	0	1	0	1	0	0	0	2	1	2	1	1	4	0	4	1	4	4	8	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		G	104381489	A	G	104381489	3	3	108	1	0	0	0	0	1	0	0	0	1768	217	8	3	150	3	C14orf2	14	104381489	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08		104381489	2968051	31	6093											
PLA2G4D	283748	hgsc.bcm.edu	37	chr15	42363043	42363043	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcagagccggggctcctTgggggtcagctggctgggca	5	6	19	11	1	1	1	1	0	0	1	2	1	2	1	2	7	2	5	2	7	0	1	rs74678783	bycluster;byfrequency;by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		G	42363043	T	G	42363043	3	3	108	1	0	0	0	0	1	0	0	0	12004	1821	63	5	553	5	PLA2G4D	15	42363043	Missense_Mutation	SNP	T	TCGA-B0-4945-01A-01D-1421-08		42363043	60168349	32	6094											
MPP3	4356	broad.mit.edu	37	chr17	41898423	41898423	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggaagagggcgcgcatgaAcacctgcacaaggagggctc	11	4	16	10	2	0	2	0	1	0	1	1	4	0	4	1	4	2	3	1	4	3	0	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	41898423	T	T	41898423	3	4	108	1	0	0	0	0	1	0	0	0	9735	43	2	5	1109	5	MPP3	17	41898423	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08		41898423	39296787	33	6095											
TCF3	6929	broad.mit.edu	37	chr19	1623968	1623968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgaggatggaagacccggCgggaccttccggaccttctt	8	7	13	13	4	1	1	0	0	1	1	2	6	2	5	5	5	0	0	5	5	1	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	1623968	T	T	1623968	2	4	108	1	0	0	0	0	0	0	0	1	15693	755	27	1		1	TCF3	19	1623968	Silent	SNP	C	TCGA-B0-4945-01A-01D-1421-08		1623968	57505015	34	6096											
UBA2	10054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	34959981	34959981	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctcatagttgattcagAtgaagaagattcttcaaata	14	14	7	6	1	4	5	3	2	2	3	5	5	4	5	0	0	0	2	0	0	5	7	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	34959981	A	C	34959981	3	2	108	1	0	0	0	0	1	0	0	0	16827	333	12	5	1844	5	UBA2	19	34959981	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08	33336013	34959981	24169002	35	6097											
PTGIR	5739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47124908	47124908	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgctgtcaggggcgaCagcctgggtgaagcagcgga	8	6	17	10	2	1	1	1	1	0	0	1	3	1	2	1	4	5	3	1	4	1	0	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		G	47124908	C	G	47124908	3	3	108	1	0	0	0	0	1	0	0	0	12753	478	17	4	374	4	PTGIR	19	47124908	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08	12164927	47124908	12004075	36	6098											
PABPC1L	80336	broad.mit.edu	37	chr20	43564119	43564119	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgtgcaaatgttcctcagCagcacatagcacctatcggg	10	8	10	13	2	1	0	1	0	0	0	3	0	2	0	3	1	4	5	3	1	3	3	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		A	43564119	A	A	43564119	3	1	108	1	0	0	0	0	1	0	0	0	11364	710	25	4	1574	4	PABPC1L	20	43564119	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08		43564119	19461401	37	6099											
RIMBP3	85376	hgsc.bcm.edu	37	chr22	20458121	20458122	+	Frame_Shift_Ins	INS	-	-	C																															acctgcagcaagtcccgtggINScagccgcacctccacccgcg																								novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	20458122	-	C	20458121	7	5	108	1	0	1	1	0	0	0	0	0	13366	1203	42	0	1742	0	RIMBP3	22	20458121	Frame_Shift_Ins	INS	-	TCGA-B0-4945-01A-01D-1421-08		20458121	30846445	38	6100											
LIMK2	3985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	31664140	31664140	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cattctgcaggatccgttccCctggcagcagaaggtcaggt	8	9	12	12	1	2	1	1	0	1	1	4	2	4	2	3	4	2	4	3	4	1	2	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		T	31664140	C	T	31664140	3	4	108	1	0	0	0	0	1	0	0	0	8802	623	22	2	1370	2	LIMK2	22	31664140	Missense_Mutation	SNP	C	TCGA-B0-4945-01A-01D-1421-08	11206019	31664140	19640426	39	6101											
SLC7A3	84889	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70147814	70147814	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgccaaaaagcagacagAcagtgagatcacaatgccca	18	4	8	11	1	1	3	1	1	0	3	1	4	1	3	2	0	3	1	2	0	4	1	novel		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9fae377f-6c63-4f47-a769-a1396fb15f56	c3df2623-db3a-4d8f-a062-5d2a7ec550a7		C	70147814	A	C	70147814	3	2	108	1	0	0	0	0	1	0	0	0	14700	275	10	5	1010	5	SLC7A3	23	70147814	Missense_Mutation	SNP	A	TCGA-B0-4945-01A-01D-1421-08		70147814	85122746	40	6102											
KDM6A	7403	hgsc.bcm.edu	37	chrX	44732886	44732886	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaatggcggcgggaaaagCgagcggcgagagcgaggagg	13	1	21	6	6	0	1	0	0	0	1	0	7	0	3	0	6	3	0	0	6	4	0	novel		TCGA-B0-5075-01A-01D-1392-10	TCGA-B0-5075-11A-01D-1392-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	0807b5fd-c193-41c9-bc78-015db179bafd	a3072f6e-9882-45f3-a3f6-a4e3fa1d71f2		T	44732886	C	T	44732886	3	4	109	1	0	0	0	0	1	0	0	0	8137	768	27	1	91	1	KDM6A	23	44732886	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1392-10		44732886	110537674	1	6103											
UBE4B	10277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10163026	10163026	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagccttcctcgggccctgaAgtgtctgaagagcaggcctt	7	9	13	12	1	1	3	0	2	1	1	3	4	2	3	4	2	2	1	4	2	2	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	10163026	A	T	10163026	3	4	110	1	0	0	0	0	1	0	0	0	16882	69	3	5	474	5	UBE4B	1	10163026	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08		10163026	239087595	1	6104											
PRAMEF4	400735	broad.mit.edu;hgsc.bcm.edu	37	chr1	12943139	12943139	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcctccagggtggacatgGccaaagcttggtcccttagc	7	9	12	13	0	0	0	0	0	0	0	3	1	3	1	4	4	2	2	4	4	2	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	12943139	G	A	12943139	3	1	110	1	0	0	0	0	1	0	0	0	12439	1203	42	2	1371	2	PRAMEF4	1	12943139	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	2780113	12943139	236307482	2	6105											
COL16A1	1307	broad.mit.edu;hgsc.bcm.edu	37	chr1	32149718	32149718	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcaactcacgggtttacCaggtcggcccacgccttcgg	7	7	12	15	4	1	0	1	0	0	0	3	0	1	0	3	5	2	2	3	5	2	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	32149718	C	T	32149718	3	4	110	1	0	0	0	0	1	0	0	0	3673	594	21	2	2699	2	COL16A1	1	32149718	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	19206579	32149718	217100903	3	6106											
PARS2	25973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55224207	55224207	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggaggagtcaaaggtgtAcatatccttcatgtaaaact	13	11	11	6	0	2	0	2	0	0	0	3	2	3	2	1	4	2	2	1	4	5	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	55224207	A	G	55224207	3	3	110	1	0	0	0	0	1	0	0	0	11467	391	14	3	803	3	PARS2	1	55224207	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	23074489	55224207	194026414	4	6107											
ANGPTL3	27329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	63063407	63063407	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcagttgggacatggtcTtaaagactttgtccataaga	11	13	9	8	0	2	2	1	0	1	2	3	3	3	3	2	2	0	1	2	2	3	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	63063407	T	A	63063407	3	1	110	1	0	0	0	0	1	0	0	0	615	1609	56	5	172	5	ANGPTL3	1	63063407	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	7839200	63063407	186187214	5	6108											
LMO4	8543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	87805218	87805218	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccgttattctttgtttcaGgttatttggaaatagcggtg	9	17	10	5	2	2	0	1	0	1	0	2	1	2	1	1	3	2	3	1	3	5	7	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	87805218	G	C	87805218	5	2	110	1	0	0	0	0	0	0	1	0	8854	1014	35	4	242	4	LMO4	1	87805218	Splice_Site	SNP	G	TCGA-B0-5075-01A-01D-1462-08	24741811	87805218	161445403	6	6109											
LPPR4	9890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	99771434	99771434	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatgctagctctctgaCaaatctcaaaagagcaaatg	16	8	8	9	0	2	3	1	1	2	2	4	4	2	3	0	0	3	3	0	0	5	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	99771434	C	G	99771434	3	3	110	1	0	0	0	0	1	0	0	0	8927	478	17	4	1186	4	LPPR4	1	99771434	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	11966216	99771434	149479187	7	6110											
SLC16A4	9122	hgsc.bcm.edu;ucsc.edu	37	chr1	110923620	110923623	+	Frame_Shift_Del	DEL	ATCT	ATCT	-																															gtacctgtccagtcatacagAtctatcaggaattttgtaaa																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	ATCT	ATCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	110923623	ATCT	-	110923620	7	5	110	1	0	1	0	1	0	0	0	0	14412	330	12	0	973	0	SLC16A4	1	110923620	Frame_Shift_Del	DEL	ATCT	TCGA-B0-5075-01A-01D-1462-08	11152186	110923620	138327001	8	6111											
THBS3	7059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155170785	155170785	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccagagttgggtgtcaaaAggcagttgtcctaaagttca	11	10	12	8	0	2	1	2	0	0	1	3	1	3	1	2	2	0	4	2	2	4	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	155170785	A	T	155170785	3	4	110	1	0	0	0	0	1	0	0	0	15854	72	3	5	1463	5	THBS3	1	155170785	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	44247165	155170785	94079836	9	6112											
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183197726	183197726	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctacttcggggacccattGgctcccaacccagcagacaa	10	6	10	15	1	0	1	0	0	0	1	2	2	1	2	3	4	3	3	3	4	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	183197726	G	A	183197726	2	1	110	1	0	0	0	0	0	0	0	1	8615	1339	47	2		2	LAMC2	1	183197726	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	28026941	183197726	66052895	10	6113											
NBAS	51594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	15607839	15607839	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcttcttgagctcctttTcctttttattcttggcaggc	3	20	7	11	0	3	1	0	1	3	0	6	1	5	1	2	2	1	2	2	2	1	9	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	15607839	T	C	15607839	3	2	110	1	0	0	0	0	1	0	0	0	10186	1783	62	3	5288	3	NBAS	2	15607839	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08		15607839	227591534	11	6114											
ANKRD36B	57730	hgsc.bcm.edu	37	chr2	98165911	98165912	+	Frame_Shift_Ins	INS	-	-	C																															tttttctccatcctttttttINSctctggctatattcaaaaca																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	98165912	-	C	98165911	7	5	110	1	0	1	1	0	0	0	0	0	666	1783	62	0	2709	0	ANKRD36B	2	98165911	Frame_Shift_Ins	INS	-	TCGA-B0-5075-01A-01D-1462-08	82558072	98165911	145033462	12	6115											
VHL	7428	broad.mit.edu	37	chr3	10183864	10183865	+	Frame_Shift_Ins	INS	-	A	A																															cgggccgccgcatccacagcINStaccgaggtacgggcccggc																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	-	-	-	A	-	-	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	10183865	A	A	10183864	7	5	110	1	0	1	1	0	0	0	0	0	17161	796	28	0	335	0	VHL	3	10183864	Frame_Shift_Ins	INS	-	TCGA-B0-5075-01A-01D-1462-08		10183864	187838566	13	6116											
TBC1D5	9779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	17279709	17279709	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcagcctctgctgctgctGttgctgttgcaagtgatggc	5	13	12	11	0	2	1	1	1	1	0	2	1	2	1	1	1	6	7	1	1	1	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	17279709	G	A	17279709	4	1	110	1	0	0	0	0	0	1	0	0	15622	1386	48	2	947	2	TBC1D5	3	17279709	Nonsense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	7095845	17279709	180742721	14	6117											
OXSR1	9943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38294372	38294372	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gataggatttgcccagctcaGcatcagctaaaccacaaccc	13	7	7	14	0	2	0	2	0	0	0	2	2	2	1	3	1	6	3	3	1	4	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	38294372	G	A	38294372	3	1	110	1	0	0	0	0	1	0	0	0	11336	971	34	2	1644	2	OXSR1	3	38294372	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	21014663	38294372	159728058	15	6118											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52439219	52439238	+	Frame_Shift_Del	DEL	GCTGCCTGGAGGCTTCACCA	GCTGCCTGGAGGCTTCACCA	-																															gggtgaaccccattgaggctGctgcctggaggcttcaccac																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	GCTGCCTGGAGGCTTCACCA	GCTGCCTGGAGGCTTCACCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	52439238	GCTGCCTGGAGGCTTCACCA	-	52439219	7	5	110	1	0	1	0	1	0	0	0	0	1311	1310	46	0	1194	0	BAP1	3	52439219	Frame_Shift_Del	DEL	GCTGCCTGGAGGCTTCACCA	TCGA-B0-5075-01A-01D-1462-08	14144847	52439219	145583211	16	6119											
COL8A1	1295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	99513362	99513362	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggcctcatggacttcctgGcattgggaagccaggtgggc	7	8	16	10	0	1	0	1	0	0	0	2	2	2	2	3	6	1	1	3	6	1	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	99513362	G	A	99513362	3	1	110	1	0	0	0	0	1	0	0	0	3705	1203	42	2	623	2	COL8A1	3	99513362	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	47074143	99513362	98509068	17	6120											
KIAA2018	205717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113377055	113377055	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggctttgaagcaacttcCcttatatcagcctggaggcc	10	10	10	11	0	1	1	1	1	0	0	2	3	2	2	3	3	3	2	3	3	5	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	113377055	C	A	113377055	3	1	110	1	0	0	0	0	1	0	0	0	8268	622	22	4	3267	4	KIAA2018	3	113377055	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	13863693	113377055	84645375	18	6121											
PIK3R4	30849	hgsc.bcm.edu;ucsc.edu	37	chr3	130463485	130463487	+	In_Frame_Del	DEL	CTC	CTC	-																															caggagcaatatagcaagttCtcctccgtgatgtgtcaaag																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	130463487	CTC	-	130463485	7	5	110	1	0	1	0	1	0	0	0	0	11921	913	32	0	3574	0	PIK3R4	3	130463485	In_Frame_Del	DEL	CTC	TCGA-B0-5075-01A-01D-1462-08	17086430	130463485	67558945	19	6122											
UBA5	79876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132387698	132387698	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacaaggtggaactagccAatatgaatagacttttcttc	14	12	8	7	0	1	3	0	2	1	1	2	4	1	4	1	2	2	0	1	2	7	6	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	132387698	A	G	132387698	3	3	110	1	0	0	0	0	1	0	0	0	16829	130	5	3	348	3	UBA5	3	132387698	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	1924213	132387698	65634732	20	6123											
TFDP2	7029	hgsc.bcm.edu;ucsc.edu	37	chr3	141671843	141671843	+	Frame_Shift_Del	DEL	G	G	-																															gtccctgatttaaccaagaaGgtcctgtggagatatctaaa																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	141671843	G	-	141671843	7	5	110	1	0	1	0	1	0	0	0	0	15797	1000	35	0	281	0	TFDP2	3	141671843	Frame_Shift_Del	DEL	G	TCGA-B0-5075-01A-01D-1462-08	9284145	141671843	56350587	21	6124											
FETUB	26998	broad.mit.edu;ucsc.edu	37	chr3	186364117	186364117	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggccagcagctgttcActtcagtcctccgactctgt	6	11	8	16	1	3	0	2	0	1	0	6	1	6	0	4	1	2	3	4	1	0	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	186364117	T	T	186364117	2	4	110	1	0	0	0	0	0	0	0	1	5821	146	6	5		5	FETUB	3	186364117	Silent	SNP	A	TCGA-B0-5075-01A-01D-1462-08	44692274	186364117	11658313	22	6125											
IDUA	3425	broad.mit.edu	37	chr4	980873	980873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgagcacgcgtggccAtgcgtcccctgcgcccccgc	3	5	12	21	6	0	0	0	0	0	0	2	1	2	0	7	1	3	1	7	1	0	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	980873	G	G	980873	3	3	110	1	0	0	0	0	1	0	0	0	7504	217	8	3	3	3	IDUA	4	980873	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08		980873	190173403	23	6126											
N4BP2	55728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	40122527	40122527	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatgaggcctgttggggCacaagctctcaaaaactaaa	14	7	10	10	0	1	1	1	1	1	0	2	1	1	1	1	3	2	4	1	3	5	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	40122527	C	T	40122527	2	4	110	1	0	0	0	0	0	0	0	1	10110	697	25	2		2	N4BP2	4	40122527	Silent	SNP	C	TCGA-B0-5075-01A-01D-1462-08	39141654	40122527	151031749	24	6127											
HERC5	51191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	89385020	89385020	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttaggatgggctgctgttTactttcggtgctggaaaaca	8	13	12	8	1	0	0	0	0	0	0	1	2	0	2	1	4	4	4	1	4	4	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	89385020	T	G	89385020	3	3	110	1	0	0	0	0	1	0	0	0	7061	1751	61	5	817	5	HERC5	4	89385020	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	49262493	89385020	101769256	25	6128											
LARP1B	55132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	129043237	129043237	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaggcacccacatgtctcGggcaaaaatcacatctgaac	15	6	7	13	1	3	1	1	1	2	0	4	1	3	1	1	2	2	2	1	2	4	0	rs142360155	alternate_allele	TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	129043237	G	C	129043237	3	2	110	1	0	0	0	0	1	0	0	0	8629	1116	39	4	1541	4	LARP1B	4	129043237	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	39658217	129043237	62111039	26	6129											
GPX3	2878	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150407548	150407548	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaaggttcacgacatcCgctggaactttgagaagttc	11	10	10	10	2	1	2	1	2	0	1	3	5	2	3	2	2	1	3	2	2	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	150407548	C	A	150407548	3	1	110	1	0	0	0	0	1	0	0	0	6741	652	23	4	556	4	GPX3	5	150407548	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08		150407548	30507712	27	6130											
ABCF1	23	broad.mit.edu;hgsc.bcm.edu	37	chr6	30548295	30548295	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccaagaaggcagagcAggtgtgtatttggtgttggg	10	9	18	4	0	0	2	0	0	0	2	0	3	0	2	1	5	1	4	1	5	4	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	30548295	A	G	30548295	3	3	110	1	0	0	0	0	1	0	0	0	65	202	7	3	707	3	ABCF1	6	30548295	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08		30548295	140566772	28	6131											
ZNF76	7629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35258122	35258122	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attccgctgtggctacaaggGctgtgggcgtctctacacca	7	10	12	12	2	1	0	0	0	1	0	3	0	2	0	2	3	2	3	2	3	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	35258122	G	T	35258122	3	4	110	1	0	0	0	0	1	0	0	0	18134	1203	42	4	530	4	ZNF76	6	35258122	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	4709827	35258122	135856945	29	6132											
C6orf64	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	39073238	39073238	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggggtctcaactgtaaCtcgcgctccaactgctctgc	7	9	10	15	2	2	0	1	0	2	0	5	0	3	0	2	2	5	3	2	2	3	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	39073238	C	G	39073238	3	3	110	1	0	0	0	0	1	0	0	0	2369	564	20	4	33	4	C6orf64	6	39073238	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	3815116	39073238	132041829	30	6133											
ABCC10	89845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43402438	43402438	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgggagcccgagtagaggCctgccgggctcgagagctgg	7	5	18	11	3	0	2	0	0	0	2	1	5	0	3	3	4	3	3	3	4	1	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	43402438	C	T	43402438	3	4	110	1	0	0	0	0	1	0	0	0	50	739	26	2	1337	2	ABCC10	6	43402438	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	4329200	43402438	127712629	31	6134											
EPHA7	2045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	93964470	93964470	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgatgtgaatttccggtaCtggatggcttcgggtgctgt	5	14	15	7	2	0	2	0	2	0	0	2	3	1	3	1	4	2	4	1	4	2	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	93964470	C	A	93964470	3	1	110	1	0	0	0	0	1	0	0	0	5172	564	20	4	585	4	EPHA7	6	93964470	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	50562032	93964470	77150597	32	6135											
TIAM2	26230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	155498049	155498049	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccactttcaggacaatcacGgagttactgtagggatcaag	12	10	10	9	1	3	0	3	0	0	0	4	3	4	3	1	3	1	2	1	3	4	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	155498049	G	A	155498049	3	1	110	1	0	0	0	0	1	0	0	0	15890	1117	39	1	2487	1	TIAM2	6	155498049	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	61533579	155498049	15617018	33	6136											
TBP	6908	hgsc.bcm.edu;ucsc.edu	37	chr6	170878701	170878703	+	In_Frame_Del	DEL	GAA	GAA	-																															acttttttcctttccctagtGaagaacagtccagactggca																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	170878703	GAA	-	170878701	7	5	110	1	0	1	0	1	0	0	0	0	15643	1304	45	0	697	0	TBP	6	170878701	In_Frame_Del	DEL	GAA	TCGA-B0-5075-01A-01D-1462-08	15380652	170878701	236366	34	6137											
FBXL18	80028	broad.mit.edu;ucsc.edu	37	chr7	5541300	5541300	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcggtccagaatctcgaaGtagagcagcagcttctctag	10	9	12	10	2	2	2	0	0	2	2	5	3	3	2	1	1	4	4	1	1	4	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	5541300	A	A	5541300	2	1	110	1	0	0	0	0	0	0	0	1	5714	1024	36	2		2	FBXL18	7	5541300	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08		5541300	153597363	35	6138											
POU6F2	11281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	39247075	39247075	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaaccagccaatcctcAttcccttcaacatggcggga	10	8	6	17	1	3	0	3	0	0	0	5	1	5	1	5	2	3	0	5	2	3	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	39247075	A	T	39247075	3	4	110	1	0	0	0	0	1	0	0	0	12285	217	8	5	381	5	POU6F2	7	39247075	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	33705775	39247075	119891588	36	6139											
AMAC1L2	0	broad.mit.edu;hgsc.bcm.edu	37	chr8	11188632	11188632	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagatggctggcagtcaccCctacttcaacctgcctgact	10	9	8	14	0	2	2	2	1	0	1	2	2	2	2	4	2	3	2	4	2	3	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	11188632	C	A	11188632	3	1	110	1	0	0	0	0	1	0	0	0	560	623	22	4	19	4	AMAC1L2	8	11188632	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08		11188632	135175390	37	6140											
MTUS1	57509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17612616	17612616	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttgggcttctgatggtGtgacttgagggttttcaaag	6	16	14	5	0	3	3	1	3	2	0	3	3	3	3	0	3	0	2	0	3	1	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	17612616	G	T	17612616	3	4	110	1	0	0	0	0	1	0	0	0	9965	1377	48	4	3486	4	MTUS1	8	17612616	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	6423984	17612616	128751406	38	6141											
XPO7	23039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	21840307	21840307	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatcccggttggaatctGtgcacatcatactgaggtaa	11	11	9	10	1	3	1	2	1	1	0	4	2	4	2	1	3	2	3	1	3	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	21840307	G	C	21840307	3	2	110	1	0	0	0	0	1	0	0	0	17448	1377	48	4	1355	4	XPO7	8	21840307	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	4227691	21840307	124523715	39	6142											
VCPIP1	80124	hgsc.bcm.edu;ucsc.edu	37	chr8	67546975	67546980	+	In_Frame_Del	DEL	CAACTT	CAACTT	-																															agactttgcagaagaactcaCaacttctgttttcctttgag																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	CAACTT	CAACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	67546980	CAACTT	-	67546975	7	5	110	1	0	1	0	1	0	0	0	0	17140	478	17	0	242	0	VCPIP1	8	67546975	In_Frame_Del	DEL	CAACTT	TCGA-B0-5075-01A-01D-1462-08	45706668	67546975	78817047	40	6143											
UQCRB	7381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	97244062	97244062	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcaagttcaggtccagTgccctcttaatgcgaaacat	10	12	8	11	1	3	0	2	0	1	0	4	1	4	0	2	1	4	2	2	1	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	97244062	T	A	97244062	2	1	110	1	0	0	0	0	0	0	0	1	17017	1683	59	5		5	UQCRB	8	97244062	Silent	SNP	T	TCGA-B0-5075-01A-01D-1462-08	29697087	97244062	49119960	41	6144											
UBR5	51366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	103341598	103341598	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaagttcagaatacagAgccccaatacagatgaattt	16	8	8	9	0	1	5	1	1	0	4	1	5	1	5	3	0	3	1	3	0	6	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	103341598	A	G	103341598	2	3	110	1	0	0	0	0	0	0	0	1	16904	291	11	3		3	UBR5	8	103341598	Silent	SNP	A	TCGA-B0-5075-01A-01D-1462-08	6097536	103341598	43022424	42	6145											
DENND3	22898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	142178354	142178354	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgtataaaacagacataCggatctttcccactgatttg	13	13	6	9	1	2	2	0	1	2	1	3	3	3	3	1	1	2	1	1	1	4	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	142178354	C	A	142178354	2	1	110	1	0	0	0	0	0	0	0	1	4432	527	19	4		4	DENND3	8	142178354	Silent	SNP	C	TCGA-B0-5075-01A-01D-1462-08	38836756	142178354	4185668	43	6146											
SPATC1	375686	broad.mit.edu	37	chr8	145096167	145096167	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggagaggctggtgggTgagattgccttccagctgga	6	9	18	8	0	0	2	0	1	0	2	1	5	1	3	3	5	2	2	3	5	0	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	145096167	G	G	145096167	2	3	110	1	0	0	0	0	0	0	0	1	15018	1683	59	5		5	SPATC1	8	145096167	Silent	SNP	T	TCGA-B0-5075-01A-01D-1462-08	2917813	145096167	1267855	44	6147											
TXN	7295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113007067	113007067	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtacgtaccttttgtccCttcttaaaaaactggaatgt	11	15	7	8	1	1	0	0	0	1	0	2	2	2	1	2	1	3	2	2	1	6	6	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	113007067	C	G	113007067	3	3	110	1	0	0	0	0	1	0	0	0	16789	680	24	4	79	4	TXN	9	113007067	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08		113007067	28206364	45	6148											
AKNA	80709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117106062	117106062	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttttgggaccgccttagggGacagaacatggtattcgtgg	8	11	14	8	2	0	1	0	0	0	1	1	3	0	3	2	5	1	1	2	5	3	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	117106062	G	T	117106062	3	4	110	1	0	0	0	0	1	0	0	0	463	1174	41	4	652	4	AKNA	9	117106062	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	4098995	117106062	24107369	46	6149											
DEC1	50514	broad.mit.edu;hgsc.bcm.edu	37	chr9	118163493	118163493	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttactgatgccctgcacAgagagaggtctgtaaagtgg	10	12	12	7	0	1	3	0	1	1	2	1	4	1	3	1	2	3	2	1	2	3	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	118163493	A	G	118163493	3	3	110	1	0	0	0	0	1	0	0	0	4381	180	7	3	119	3	DEC1	9	118163493	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	1057431	118163493	23049938	47	6150											
SLC2A6	11182	hgsc.bcm.edu;ucsc.edu	37	chr9	136340534	136340534	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgcacctgtctccggacGttgtcctggatctgctcgaa	5	12	10	14	3	2	0	0	0	2	0	6	3	4	2	4	2	2	3	4	2	1	1	rs115835881	bycluster;byfrequency;by1000genomes	TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	136340534	G	A	136340534	2	1	110	1	0	0	0	0	0	0	0	1	14551	1136	40	1		1	SLC2A6	9	136340534	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	18177041	136340534	4872897	48	6151											
GRID1	2894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	87407078	87407078	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggttggtgcccttggctcGgaagtactcatatacagcag	8	10	14	9	1	1	0	1	0	0	0	2	1	1	1	1	5	4	4	1	5	4	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	87407078	G	T	87407078	2	4	110	1	0	0	0	0	0	0	0	1	6771	1124	39	4		4	GRID1	10	87407078	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08		87407078	48127669	49	6152											
MMRN2	79812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	88702115	88702115	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaaggcacctggcacaggcCctgtgacccgtatgtccacc	8	6	10	17	1	0	1	0	1	0	0	1	1	1	1	6	3	0	3	6	3	2	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	88702115	C	G	88702115	3	3	110	1	0	0	0	0	1	0	0	0	9671	623	22	4	431	4	MMRN2	10	88702115	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	1295037	88702115	46832632	50	6153											
TLL2	7093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	98273269	98273269	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccagcggcggcacctaccGgctttgcaagggtcgtggta	6	7	14	14	4	0	0	0	0	0	0	1	0	0	0	4	5	3	4	4	5	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	98273269	G	A	98273269	2	1	110	1	0	0	0	0	0	0	0	1	15945	1130	39	1		1	TLL2	10	98273269	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	9571154	98273269	37261478	51	6154											
SFXN4	119559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	120917388	120917388	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcataatactcacgtaacTtctgtttccattgatgctgt	9	17	5	10	1	3	1	2	1	2	0	5	1	4	1	1	0	3	3	1	0	3	6	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	120917388	T	G	120917388	3	3	110	1	0	0	0	0	1	0	0	0	14199	1609	56	5	575	5	SFXN4	10	120917388	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	22644119	120917388	14617359	52	6155											
WDR11	55717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	122663626	122663626	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatgatcatacaaggaaatGtacagaccagctactgctct	14	11	7	9	0	2	2	1	1	1	1	2	3	2	3	1	1	5	3	1	1	6	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	122663626	G	A	122663626	3	1	110	1	0	0	0	0	1	0	0	0	17272	1377	48	2	3093	2	WDR11	10	122663626	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	1746238	122663626	12871121	53	6156											
MUC2	4583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1086012	1086012	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacgtggcctacaccaCgcgggaggtgggccagtacc	8	5	13	15	3	1	0	1	0	0	0	1	1	1	1	5	4	2	1	5	4	2	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	1086012	C	T	1086012	3	4	110	1	0	0	0	0	1	0	0	0	9975	536	19	1	2938	1	MUC2	11	1086012	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08		1086012	133920504	54	6157											
MUC2	4583	broad.mit.edu	37	chr11	1090371	1090371	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcccaagtcgtctgcaggCcggaggaaggtaagctgccc	8	6	13	14	2	1	0	0	0	1	0	3	2	2	2	4	4	3	3	4	4	3	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	1090371	A	A	1090371	3	1	110	1	0	0	0	0	1	0	0	0	9975	739	26	4	3773	4	MUC2	11	1090371	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	4359	1090371	133916145	55	6158											
LDHC	3948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18460186	18460186	+	Frame_Shift_Del	DEL	T	T	-																															aaatatccataaacaagttaTtcaaaggtaatagtacctat																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	18460186	T	-	18460186	7	5	110	1	0	1	0	1	0	0	0	0	8702	1493	52	0	722	0	LDHC	11	18460186	Frame_Shift_Del	DEL	T	TCGA-B0-5075-01A-01D-1462-08	17369815	18460186	116546330	56	6159											
SPRYD5	0	broad.mit.edu;ucsc.edu	37	chr11	55653128	55653128	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttgaagaacatggcttTcattgccagaaaagccagcc	12	11	9	9	0	1	3	1	1	0	2	1	3	1	3	3	1	4	2	3	1	4	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	55653128	A	A	55653128	3	1	110	1	0	0	0	0	1	0	0	0	15112	1783	62	5	226	5	SPRYD5	11	55653128	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	37192942	55653128	79353388	57	6160											
SLC22A9	114571	broad.mit.edu;hgsc.bcm.edu	37	chr11	63175588	63175588	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttcctttctccagaaatGcagacgctgcgtgaggtttt	7	15	9	10	2	2	3	0	1	2	2	4	3	3	3	2	1	2	3	2	1	1	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	63175588	G	A	63175588	3	1	110	1	0	0	0	0	1	0	0	0	14463	1319	46	2	1323	2	SLC22A9	11	63175588	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	7522460	63175588	71830928	58	6161											
TM7SF2	7108	broad.mit.edu	37	chr11	64879505	64879505	+	Frame_Shift_Del	DEL	C	-	-																															accatggcccccactcagggCccccgggccccgctggaatt																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	64879505	-	-	64879505	7	5	110	1	0	1	0	1	0	0	0	0	15973	726	26	0	20	0	TM7SF2	11	64879505	Frame_Shift_Del	DEL	C	TCGA-B0-5075-01A-01D-1462-08	1703917	64879505	70127011	59	6162											
AASDHPPT	60496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	105962108	105962108	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaattgcagcggcttgaAtttgatctatctccattaaa	11	16	7	7	1	2	3	0	3	2	0	3	3	2	3	1	1	2	2	1	1	5	6	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	105962108	A	T	105962108	3	4	110	1	0	0	0	0	1	0	0	0	23	98	4	5	611	5	AASDHPPT	11	105962108	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	41082603	105962108	29044408	60	6163											
C12orf11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27059272	27059272	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgatatagttcagctcTgttattaacagagttcaaac	13	15	7	6	0	3	2	2	1	1	1	3	2	3	2	0	0	3	5	0	0	5	7	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	27059272	T	A	27059272	4	1	110	1	0	0	0	0	0	1	0	0	1675	1588	55	5	84	5	C12orf11	12	27059272	Nonsense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08		27059272	106792623	61	6164											
GNS	2799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	65136922	65136922	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtggtgggggaagctaccGttccatggatgttgaagttc	9	11	15	6	1	0	1	0	1	0	0	2	3	1	3	2	4	2	4	2	4	4	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	65136922	G	A	65136922	3	1	110	1	0	0	0	0	1	0	0	0	6550	1159	40	1	903	1	GNS	12	65136922	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	38077650	65136922	68714973	62	6165											
CAND1	55832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	67696132	67696132	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaatacagtgatgatgatGacatgagttggaaagtgaga	16	10	13	2	0	0	7	0	7	0	1	0	9	0	8	0	1	1	1	0	1	3	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	67696132	G	T	67696132	3	4	110	1	0	0	0	0	1	0	0	0	2615	1290	45	4	1060	4	CAND1	12	67696132	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	2559210	67696132	66155763	63	6166											
ANKS1B	56899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	99793525	99793525	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagatgtgttgatttcaaaaTattcttggttgtgattcatt	10	20	8	3	0	3	3	2	2	1	1	3	3	3	3	0	1	0	2	0	1	4	9	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	99793525	T	C	99793525	3	2	110	1	0	0	0	0	1	0	0	0	689	1406	49	3	2454	3	ANKS1B	12	99793525	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	32097393	99793525	34058370	64	6167											
TRPV4	59341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110240804	110240804	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggggccccacctcgatagTagatgtcacggaagggcgag	9	5	15	12	4	1	1	1	0	0	1	2	4	1	2	4	4	0	1	4	4	3	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	110240804	T	C	110240804	3	2	110	1	0	0	0	0	1	0	0	0	16597	1638	57	3	1963	3	TRPV4	12	110240804	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	10447279	110240804	23611091	65	6168											
EBPL	84650	broad.mit.edu;hgsc.bcm.edu	37	chr13	50243946	50243946	+	Missense_Mutation	SNP	C	C	T																															caagccatcggaatttgcaaCgtttcctactaaagacaagt																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	50243946	C	T	50243946	3	4	110	1	0	0	0	0	1	0	0	0	4887	536	19	1	424	1	EBPL	13	50243946	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08		50243946	64925932	66	6169	68	2									
EBPL	84650	broad.mit.edu;hgsc.bcm.edu	37	chr13	50243947	50243947	+	Missense_Mutation	SNP	G	G	T																															aagccatcggaatttgcaacGtttcctactaaagacaagta																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	50243947	G	T	50243947	3	4	110	1	0	0	0	0	1	0	0	0	4887	1136	40	4	425	4	EBPL	13	50243947	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	1	50243947	64925931	67	6170	68	2									
INSM2	84684	hgsc.bcm.edu;ucsc.edu	37	chr14	36005119	36005119	+	Frame_Shift_Del	DEL	A	A	-																															ccacccctcagaaagccggcAagtgctgctgctgcagatgc																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		-	36005119	A	-	36005119	7	5	110	1	0	1	0	1	0	0	0	0	7772	130	5	0	1663	0	INSM2	14	36005119	Frame_Shift_Del	DEL	A	TCGA-B0-5075-01A-01D-1462-08		36005119	71344421	68	6171											
SEC23A	10484	broad.mit.edu;hgsc.bcm.edu	37	chr14	39511999	39511999	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatcttacctcaccatgAtaaatcaaaatctggaagaa	18	10	5	8	0	4	3	2	2	2	1	4	4	4	4	2	1	1	0	2	1	8	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	39511999	A	C	39511999	4	2	110	1	0	0	0	0	0	1	0	0	13993	340	12	5	336	5	SEC23A	14	39511999	Nonsense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	3506880	39511999	67837541	69	6172											
JMJD7	100137047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42127085	42127085	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaagtggtccctcccctAtttcaggtgggagctgccct	6	10	11	14	0	1	1	1	0	0	1	3	2	3	2	5	3	2	1	5	3	2	2	rs148006565		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	42127085	A	G	42127085	3	3	110	1	0	0	0	0	1	0	0	0	7954	449	16	3	218	3	JMJD7	15	42127085	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08		42127085	60404307	70	6173											
THAP10	56906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	71174954	71174954	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtagttgcattacacaGtctttttccaaacgctttca	10	15	6	10	1	2	1	1	1	1	0	3	1	3	1	1	0	3	4	1	0	3	6	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	71174954	G	T	71174954	3	4	110	1	0	0	0	0	1	0	0	0	15841	1020	36	4	164	4	THAP10	15	71174954	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	29047869	71174954	31356438	71	6174											
CCDC33	80125	broad.mit.edu;ucsc.edu	37	chr15	74622668	74622668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaggaggaagaggggcagGgcaaagccagtgaggcccag	13	1	20	7	0	0	2	0	1	0	1	0	5	0	5	2	7	1	2	2	7	2	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	74622668	A	A	74622668	3	1	110	1	0	0	0	0	1	0	0	0	2806	1232	43	2	1548	2	CCDC33	15	74622668	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	3447714	74622668	27908724	72	6175											
IL16	3603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81601012	81601012	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttacagctgggtggcactgCcatgcagggcctcacacggt	7	8	13	13	1	1	0	1	0	0	0	1	0	1	0	2	4	4	3	2	4	1	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	81601012	C	T	81601012	3	4	110	1	0	0	0	0	1	0	0	0	7633	739	26	2	3942	2	IL16	15	81601012	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	6978344	81601012	20930380	73	6176											
RCCD1	91433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91504264	91504264	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgctttcaggaacaggggAgctctacacctggggctggg	7	10	15	9	0	2	0	1	0	1	0	2	2	2	2	1	6	4	3	1	6	2	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	91504264	A	C	91504264	3	2	110	1	0	0	0	0	1	0	0	0	13177	304	11	5	981	5	RCCD1	15	91504264	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	9903252	91504264	11027128	74	6177											
RHOT2	89941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	720301	720301	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcggtcggggagctccAtggaggccgtgctccccatc	5	7	14	15	3	0	0	0	0	0	0	4	2	2	2	5	5	3	2	5	5	0	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	720301	A	G	720301	3	3	110	1	0	0	0	0	1	0	0	0	13346	217	8	3	408	3	RHOT2	16	720301	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08		720301	89634452	75	6178											
ATXN2L	11273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28841977	28841977	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctcaacgagtccgggaagGtccccggggaggagttcgat	8	6	16	11	4	1	0	1	0	0	0	4	5	3	3	4	5	1	1	4	5	2	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	28841977	G	T	28841977	3	4	110	1	0	0	0	0	1	0	0	0	1212	1261	44	4	1110	4	ATXN2L	16	28841977	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	28121676	28841977	61512776	76	6179											
DCTPP1	79077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30435760	30435760	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggctgctaatgccaccaGgtagatgaggacgtcactaa	11	7	13	10	2	1	2	1	1	0	1	1	3	1	3	2	3	2	3	2	3	3	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	30435760	G	A	30435760	2	1	110	1	0	0	0	0	0	0	0	1	4312	991	35	2		2	DCTPP1	16	30435760	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	1593783	30435760	59918993	77	6180											
CYB5B	80777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69481136	69481136	+	Missense_Mutation	SNP	T	T	A																															gatgtaggacactcttctgaTgccagagaaatgctaaagca																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	69481136	T	A	69481136	3	1	110	1	0	0	0	0	1	0	0	0	4123	1461	51	5	264	5	CYB5B	16	69481136	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	39045376	69481136	20873617	78	6181	69	3									
CYB5B	80777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69481137	69481137	+	Missense_Mutation	SNP	G	G	A																															atgtaggacactcttctgatGccagagaaatgctaaagcag																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	69481137	G	A	69481137	3	1	110	1	0	0	0	0	1	0	0	0	4123	1319	46	2	265	2	CYB5B	16	69481137	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	1	69481137	20873616	79	6182	69	3									
CYB5B	80777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69481138	69481138	+	Missense_Mutation	SNP	C	C	T																															tgtaggacactcttctgatgCcagagaaatgctaaagcagt																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	69481138	C	T	69481138	3	4	110	1	0	0	0	0	1	0	0	0	4123	739	26	2	266	2	CYB5B	16	69481138	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	1	69481138	20873615	80	6183	69	3									
ZC3H18	124245	broad.mit.edu;ucsc.edu	37	chr16	88696911	88696911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggttctcgggaccggaagtCaggtgggagactgggctccc	7	7	17	10	2	2	1	1	0	1	1	4	4	3	3	2	6	0	2	2	6	1	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	88696911	T	T	88696911	3	4	110	1	0	0	0	0	1	0	0	0	17567	838	29	2	2647	2	ZC3H18	16	88696911	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	19215773	88696911	1657842	81	6184											
EFCAB5	374786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	28384816	28384816	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggagacatttgttggtgaaGacgctcccttgagtgtcagc	8	12	13	8	1	1	4	1	2	0	2	2	5	2	4	1	2	1	2	1	2	1	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	28384816	G	C	28384816	3	2	110	1	0	0	0	0	1	0	0	0	4938	942	33	4	2538	4	EFCAB5	17	28384816	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08		28384816	52810394	82	6185											
VAT1	10493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41168133	41168133	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcccacattcttcttcTcctgcatctgtttcatggca	5	16	5	15	0	5	0	1	0	4	0	6	0	5	0	3	1	2	3	3	1	0	5	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	41168133	T	G	41168133	3	3	110	1	0	0	0	0	1	0	0	0	17128	1551	54	5	58	5	VAT1	17	41168133	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	12783317	41168133	40027077	83	6186											
AXIN2	8313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	63532473	63532473	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacacctcagctagcctGcgacaggcctcctccagctg	7	8	9	17	2	1	0	1	0	0	0	4	2	3	0	5	1	4	2	5	1	1	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	63532473	G	T	63532473	2	4	110	1	0	0	0	0	0	0	0	1	1237	1306	46	4		4	AXIN2	17	63532473	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	22364340	63532473	17662737	84	6187											
ABCA8	10351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66878106	66878106	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgcgtagacagctggCaatgatgactggcttctgta	8	12	11	10	1	1	3	0	2	1	1	2	3	2	3	1	2	2	5	1	2	3	4	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	66878106	C	A	66878106	3	1	110	1	0	0	0	0	1	0	0	0	38	710	25	4	1061	4	ABCA8	17	66878106	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	3345633	66878106	14317104	85	6188											
TTC39C	125488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21694593	21694593	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagagagaaattcaacatGtctgtctgtatgaaattggt	14	12	9	6	0	3	3	1	1	2	2	3	4	3	3	1	1	1	1	1	1	4	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	21694593	G	A	21694593	3	1	110	1	0	0	0	0	1	0	0	0	16708	1377	48	2	1086	2	TTC39C	18	21694593	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08		21694593	56382655	86	6189											
CDH2	1000	broad.mit.edu;ucsc.edu	37	chr18	25591824	25591824	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttaccctgacaagctcttGaggaaaaggtcccctggagt	10	9	10	12	0	1	2	0	2	1	0	2	4	2	4	4	3	2	1	4	3	4	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	25591824	A	A	25591824	4	1	110	1	0	0	0	0	0	1	0	0	3105	1299	45	2	2240	2	CDH2	18	25591824	Nonsense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08	3897231	25591824	52485424	87	6190											
ABCA7	10347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1043790	1043790	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgtgggagatgctgggaCcccggatcttcaccttcatg	7	10	14	10	1	3	1	2	0	1	1	3	4	3	3	3	4	1	1	3	4	0	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	1043790	C	G	1043790	3	3	110	1	0	0	0	0	1	0	0	0	37	507	18	4	1031	4	ABCA7	19	1043790	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08		1043790	58085193	88	6191											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9067241	9067241	+	Silent	SNP	G	G	T																															ggaggacctgttcgagtgatGatggtcatatttgaagattc																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	9067241	G	T	9067241	2	4	110	1	0	0	0	0	0	0	0	1	9973	1280	45	4		4	MUC16	19	9067241	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	8023451	9067241	50061742	89	6192	70	2									
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9067242	9067242	+	Missense_Mutation	SNP	A	A	G																															gaggacctgttcgagtgatgAtggtcatatttgaagattct																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	9067242	A	G	9067242	3	3	110	1	0	0	0	0	1	0	0	0	9973	333	12	3	23647	3	MUC16	19	9067242	Missense_Mutation	SNP	A	TCGA-B0-5075-01A-01D-1462-08	1	9067242	50061741	90	6193	70	2									
PDE4A	5141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10568586	10568586	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtggagatcccatcaccCacgatgaaggaacgagaaaa	17	4	11	9	2	1	3	1	1	0	2	2	8	2	4	2	2	1	0	2	2	5	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	10568586	C	T	10568586	2	4	110	1	0	0	0	0	0	0	0	1	11639	581	21	2		2	PDE4A	19	10568586	Silent	SNP	C	TCGA-B0-5075-01A-01D-1462-08	1501344	10568586	48560397	91	6194											
TNPO2	30000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12825697	12825697	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggccagcgtcagccagaaCtcacaggcctcaagggcaac	11	4	11	15	2	3	1	3	0	0	1	4	1	3	1	3	3	4	1	3	3	3	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	12825697	C	T	12825697	2	4	110	1	0	0	0	0	0	0	0	1	16335	564	20	2		2	TNPO2	19	12825697	Silent	SNP	C	TCGA-B0-5075-01A-01D-1462-08	2257111	12825697	46303286	92	6195											
NR2C2AP	126382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19313200	19313200	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggagagcctgagtgccCtgtgaaccttcagcagagaa	10	9	13	9	0	1	4	1	2	0	2	1	6	1	4	3	1	4	1	3	1	2	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	19313200	C	T	19313200	2	4	110	1	0	0	0	0	0	0	0	1	10624	680	24	2		2	NR2C2AP	19	19313200	Silent	SNP	C	TCGA-B0-5075-01A-01D-1462-08	6487503	19313200	39815783	93	6196											
GRAMD1A	57655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35501023	35501023	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgccctgcagcgtgagaTcctgctccagggccgcctct	4	8	12	17	3	1	1	0	1	1	1	3	2	3	1	5	1	4	2	5	1	0	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	35501023	T	G	35501023	3	3	110	1	0	0	0	0	1	0	0	0	6747	1435	50	5	371	5	GRAMD1A	19	35501023	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	16187823	35501023	23627960	94	6197											
FCGBP	8857	broad.mit.edu	37	chr19	40376319	40376319	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactaggttcctacctcataGtagacaccattgtggtagca	11	11	9	10	0	1	1	1	0	0	1	2	2	2	1	3	2	2	4	3	2	5	7	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	40376319	A	A	40376319	2	1	110	1	0	0	0	0	0	0	0	1	5778	1024	36	2		2	FCGBP	19	40376319	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	4875296	40376319	18752664	95	6198											
CEACAM5	1048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42221409	42221409	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatcaccagcaacaacTccaaccccgtggaggatgag	12	6	8	15	1	2	1	2	1	0	0	3	3	3	3	5	2	4	1	5	2	3	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	42221409	T	G	42221409	3	3	110	1	0	0	0	0	1	0	0	0	3195	1551	54	5	1012	5	CEACAM5	19	42221409	Missense_Mutation	SNP	T	TCGA-B0-5075-01A-01D-1462-08	1845090	42221409	16907574	96	6199											
PLEKHA4	57664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49362923	49362923	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgggctggggtcgtgcAggtgacctgggttgcccact	3	9	16	13	2	0	1	0	1	0	0	2	1	1	1	4	5	2	3	4	5	0	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		C	49362923	A	C	49362923	2	2	110	1	0	0	0	0	0	0	0	1	12058	175	7	5		5	PLEKHA4	19	49362923	Silent	SNP	A	TCGA-B0-5075-01A-01D-1462-08	7141514	49362923	9766060	97	6200											
MACROD2	140733	ucsc.edu	37	chr20	15412103	15412103	+	Intron	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgatacagcttttgatgAtgtttgtatttctttatttt	9	22	7	3	0	1	3	0	3	1	0	1	3	1	3	0	0	2	3	0	0	4	10	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	15412103	A	T	15412103	1	4	110	0	1	0	0	0	0	0	0	0	9146	348	12	5		5	MACROD2	20	15412103	Intron	SNP	A	TCGA-B0-5075-01A-01D-1462-08		15412103	47613417	98	6201											
PIGU	128869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33245016	33245016	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctccagaatacggagataCtcccaagtccaacagtgaaa	15	7	8	11	1	0	3	0	1	0	2	3	4	3	3	3	1	4	1	3	1	6	2	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	33245016	C	A	33245016	3	1	110	1	0	0	0	0	1	0	0	0	11900	565	20	4	1188	4	PIGU	20	33245016	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	17832913	33245016	29780504	99	6202											
ZNF831	128611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	57766296	57766296	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggggcctccagccccgCgccccgctagtgacgggcag	4	3	15	19	5	0	1	0	1	0	0	1	1	1	1	7	3	1	2	7	3	1	1	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		T	57766296	C	T	57766296	2	4	110	1	0	0	0	0	0	0	0	1	18184	755	27	1		1	ZNF831	20	57766296	Silent	SNP	C	TCGA-B0-5075-01A-01D-1462-08	24521280	57766296	5259224	100	6203											
ADM2	79924	broad.mit.edu	37	chr22	50921276	50921276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggcaactcatgggaccgGccggccggcaggactcagct	7	6	15	13	3	2	0	2	0	0	0	2	2	2	2	3	6	2	3	3	6	1	0	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	50921276	A	A	50921276	3	1	110	1	0	0	0	0	1	0	0	0	322	1203	42	2	397	2	ADM2	22	50921276	Missense_Mutation	SNP	G	TCGA-B0-5075-01A-01D-1462-08		50921276	383290	101	6204											
ARL13A	392509	hgsc.bcm.edu	37	chrX	100240888	100240889	+	Frame_Shift_Ins	INS	-	-	G																															tgtccgataaaagagtggcaINSgggaaacccatcttaatgta																								novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		G	100240889	-	G	100240888	7	5	110	1	0	1	1	0	0	0	0	0	928	175	7	0	373	0	ARL13A	23	100240888	Frame_Shift_Ins	INS	-	TCGA-B0-5075-01A-01D-1462-08		100240888	55029672	102	6205											
CAPN6	827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	110491970	110491970	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgctcctggatgtagaggtgGtggaggcggaatttgcggtt	6	11	18	6	3	0	1	0	0	0	1	1	4	1	4	1	7	1	3	1	7	2	3	novel		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	110491970	G	A	110491970	2	1	110	1	0	0	0	0	0	0	0	1	2630	1252	44	2		2	CAPN6	23	110491970	Silent	SNP	G	TCGA-B0-5075-01A-01D-1462-08	10251082	110491970	44778590	103	6206											
HPRT1	3251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	133609298	133609298	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaggggggctataaattCtttgctgacctgctggatta	9	13	11	8	0	2	1	1	1	1	0	2	2	2	2	1	4	2	3	1	4	5	5	rs137852481		TCGA-B0-5075-01A-01D-1462-08	TCGA-B0-5075-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93237b8e-c9a1-45dd-b160-cfe97e648598	efae71ac-e747-402b-bb95-346f534076cd		A	133609298	C	A	133609298	3	1	110	1	0	0	0	0	1	0	0	0	7338	912	32	4	232	4	HPRT1	23	133609298	Missense_Mutation	SNP	C	TCGA-B0-5075-01A-01D-1462-08	23117328	133609298	21661262	104	6207											
CA14	23632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150235516	150235516	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcagtacttccgctacaAtggctcgctcacaactcccc	8	8	9	16	2	1	0	1	0	0	0	4	0	3	0	3	3	3	5	3	3	4	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	150235516	A	G	150235516	3	3	111	1	0	0	0	0	1	0	0	0	2515	101	4	3	664	3	CA14	1	150235516	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08		150235516	99015105	1	6208											
MEX3A	92312	broad.mit.edu	37	chr1	156046832	156046832	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggaaagaggtacccgcCgtagccaaagtccccgccct	9	4	11	17	4	0	1	0	0	0	1	1	2	1	2	7	2	2	2	7	2	4	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	156046832	A	A	156046832	3	1	111	1	0	0	0	0	1	0	0	0	9509	652	23	4	470	4	MEX3A	1	156046832	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08	5811316	156046832	93203789	2	6209											
PIGM	93183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160001252	160001252	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagaaactttccaaagAgctcgctgaggtagatgttg	13	10	12	6	1	0	5	0	2	0	3	2	6	1	5	1	1	2	4	1	1	4	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	160001252	A	T	160001252	3	4	111	1	0	0	0	0	1	0	0	0	11892	304	11	5	997	5	PIGM	1	160001252	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08	3954420	160001252	89249369	3	6210											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179642494	179642494	+	Frame_Shift_Del	DEL	T	T	-																															ctttaagtcaaatctggcagTttgcccttctaaacatttga																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		-	179642494	T	-	179642494	7	5	111	1	0	1	0	1	0	0	0	0	16734	1725	60	0	106923	0	TTN	2	179642494	Frame_Shift_Del	DEL	T	TCGA-B0-5077-01A-01D-1462-08		179642494	63556879	4	6211											
SSFA2	6744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	182774683	182774683	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacttaccagctaggtcttAcgaagtcgaaaagaggtaag	14	8	10	9	2	1	1	0	0	1	1	2	3	1	1	2	2	3	2	2	2	7	4	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	182774683	A	G	182774683	3	3	111	1	0	0	0	0	1	0	0	0	15184	391	14	3	1505	3	SSFA2	2	182774683	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08	3132189	182774683	60424690	5	6212											
IRS1	3667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	227661146	227661146	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcgctgggtgtgcttaaagGatcttggcaatgagtagtag	9	11	16	5	1	1	1	0	1	1	0	1	2	1	2	0	4	1	5	0	4	5	4	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	227661146	G	T	227661146	3	4	111	1	0	0	0	0	1	0	0	0	7840	1174	41	4	1423	4	IRS1	2	227661146	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	44886463	227661146	15538227	6	6213											
VHL	7428	broad.mit.edu	37	chr3	10183725	10183725	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826	alternate_allele	TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	10183725	G	G	10183725	3	3	111	1	0	0	0	0	1	0	0	0	17161	893	31	4	196	4	VHL	3	10183725	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08		10183725	187838705	7	6214											
CELSR3	1951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48697119	48697119	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatcccggtcagtggctgaGatctgcaggacactggtgaa	9	8	14	10	1	2	2	1	2	1	1	3	4	3	3	1	4	1	3	1	4	1	0	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	48697119	G	C	48697119	3	2	111	1	0	0	0	0	1	0	0	0	3223	932	33	4	7129	4	CELSR3	3	48697119	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	38513394	48697119	149325311	8	6215											
QRICH1	54870	hgsc.bcm.edu	37	chr3	49094428	49094437	+	Frame_Shift_Del	DEL	ACAGCCTGCA	ACAGCCTGCA	-																															tattctggtacgtgcctgccAcagcctgcacagccactgga																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	ACAGCCTGCA	ACAGCCTGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		-	49094437	ACAGCCTGCA	-	49094428	7	5	111	1	0	1	0	1	0	0	0	0	12881	159	6	0	1157	0	QRICH1	3	49094428	Frame_Shift_Del	DEL	ACAGCCTGCA	TCGA-B0-5077-01A-01D-1462-08	397309	49094428	148928002	9	6216											
HYAL2	8692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50357640	50357640	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaccaccatgcacagacCttccggcagaatcgaagcgt	12	5	9	15	3	0	2	0	0	0	2	2	3	1	2	4	1	2	3	4	1	2	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	50357640	C	G	50357640	3	3	111	1	0	0	0	0	1	0	0	0	7464	681	24	4	1152	4	HYAL2	3	50357640	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08	1263212	50357640	147664790	10	6217											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130287096	130287096	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagattcatgtcccaaagCgacatttcaaatgcaataga	17	9	6	9	1	2	2	2	0	0	2	3	3	3	2	1	0	3	1	1	0	5	3	rs61730501	byfrequency;by1000genomes	TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	130287096	C	T	130287096	2	4	111	1	0	0	0	0	0	0	0	1	3703	767	27	1		1	COL6A6	3	130287096	Silent	SNP	C	TCGA-B0-5077-01A-01D-1462-08	79929456	130287096	67735334	11	6218											
MRAS	22808	broad.mit.edu;ucsc.edu	37	chr3	138117372	138117372	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcacttgaggaagatcAccagggagcaaggaaaagaa	17	5	13	6	0	1	4	1	2	0	2	1	7	1	7	1	3	2	2	1	3	5	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	138117372	T	T	138117372	3	4	111	1	0	0	0	0	1	0	0	0	9755	159	6	5	419	5	MRAS	3	138117372	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08	7830276	138117372	59905058	12	6219											
ADAM29	11086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	175898804	175898804	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caataaaaaagcagcaagatGttcaaactccatctgcaaaa	20	7	5	9	0	2	1	1	0	1	1	3	1	3	1	1	0	4	4	1	0	8	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	175898804	G	T	175898804	3	4	111	1	0	0	0	0	1	0	0	0	247	1377	48	4	2130	4	ADAM29	4	175898804	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08		175898804	15255472	13	6220											
ADAMTS19	171019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	129015555	129015555	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgttcattatgtaagaCgaggcctctgggagaagatc	11	10	11	9	2	2	3	1	0	1	3	3	5	2	3	2	2	1	2	2	2	4	4	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	129015555	C	T	129015555	4	4	111	1	0	0	0	0	0	1	0	0	264	528	19	1	2653	1	ADAMTS19	5	129015555	Nonsense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08		129015555	51899705	14	6221											
F12	2161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176831333	176831333	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggttggggtctggcaCtgtgccaggtcgcagtactc	4	10	16	11	1	1	0	0	0	1	0	3	0	1	0	2	5	2	4	2	5	1	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	176831333	C	A	176831333	3	1	111	1	0	0	0	0	1	0	0	0	5339	564	20	4	989	4	F12	5	176831333	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08	47815778	176831333	4083927	15	6222											
DBN1	1627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176893974	176893974	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgcgctcctcttgctcctgCcgctcctgctccatccgctc	1	12	7	21	4	1	0	0	0	1	0	8	0	6	0	6	0	3	5	6	0	0	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	176893974	C	A	176893974	2	1	111	1	0	0	0	0	0	0	0	1	4252	726	26	4		4	DBN1	5	176893974	Silent	SNP	C	TCGA-B0-5077-01A-01D-1462-08	62641	176893974	4021286	16	6223											
TRIM41	90933	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180651530	180651530	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccccgcctccagccccTcggaggtgcttcacatgccc	4	7	9	21	2	1	0	1	0	0	0	3	1	2	1	7	2	4	1	7	2	0	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	180651530	T	A	180651530	2	1	111	1	0	0	0	0	0	0	0	1	16515	1538	54	5		5	TRIM41	5	180651530	Silent	SNP	T	TCGA-B0-5077-01A-01D-1462-08	3757556	180651530	263730	17	6224											
TDP2	51567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24658870	24658870	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatattccaggtaatgagaGagaacatgctgccattttct	13	12	8	8	0	1	2	0	1	1	2	2	4	2	2	2	1	3	2	2	1	4	5	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	24658870	G	A	24658870	3	1	111	1	0	0	0	0	1	0	0	0	15728	942	33	2	764	2	TDP2	6	24658870	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08		24658870	146456197	18	6225											
LRRC16A	55604	broad.mit.edu;ucsc.edu	37	chr6	25509937	25509937	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcattgctgaaatacacaaCatcaccagcttagacatctc	14	10	5	12	0	2	2	1	1	1	1	3	2	2	2	1	0	5	3	1	0	4	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	25509937	T	T	25509937	2	4	111	1	0	0	0	0	0	0	0	1	8971	477	17	2		2	LRRC16A	6	25509937	Silent	SNP	C	TCGA-B0-5077-01A-01D-1462-08	851067	25509937	145605130	19	6226											
MDN1	23195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90513110	90513110	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatagccgttcatgcagaTcatggttgatttggcctcca	9	12	9	11	1	2	2	2	1	0	1	3	2	3	2	3	2	2	3	3	2	1	4	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	90513110	T	G	90513110	3	3	111	1	0	0	0	0	1	0	0	0	9415	1435	50	5	16928	5	MDN1	6	90513110	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	65003173	90513110	80601957	20	6227											
CAMK2B	816	hgsc.bcm.edu	37	chr7	44266158	44266159	+	Frame_Shift_Ins	INS	-	-	G																															tagtcggagatgggcagggcINSgggggccccactggcgaggg																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	44266159	-	G	44266158	7	5	111	1	0	1	1	0	0	0	0	0	2600	755	27	0	462	0	CAMK2B	7	44266158	Frame_Shift_Ins	INS	-	TCGA-B0-5077-01A-01D-1462-08		44266158	114872505	21	6228											
OR2AE1	81392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99474477	99474477	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagctggctgagcaggaaAtacattggtgtatgaagctg	12	9	15	5	0	0	3	0	2	0	1	0	5	0	4	0	3	4	5	0	3	4	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	99474477	A	G	99474477	2	3	111	1	0	0	0	0	0	0	0	1	10983	108	4	3		3	OR2AE1	7	99474477	Silent	SNP	A	TCGA-B0-5077-01A-01D-1462-08	55208319	99474477	59664186	22	6229											
ZKSCAN1	7586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99631276	99631276	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcacagatgtgatgaatgtgGtaaatgcttcacgagaagtt	13	12	11	5	1	2	4	2	2	0	2	2	5	2	4	0	1	1	3	0	1	4	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	99631276	G	C	99631276	3	2	111	1	0	0	0	0	1	0	0	0	17685	1261	44	4	1166	4	ZKSCAN1	7	99631276	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	156799	99631276	59507387	23	6230											
TNKS	8658	broad.mit.edu;hgsc.bcm.edu	37	chr8	9413533	9413533	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggggcttcagcgccgccGccgccacctcctcccccact	4	5	9	23	4	1	0	1	0	0	0	3	0	3	0	9	2	1	1	9	2	0	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	9413533	G	T	9413533	2	4	111	1	0	0	0	0	0	0	0	1	16318	1074	38	4		4	TNKS	8	9413533	Silent	SNP	G	TCGA-B0-5077-01A-01D-1462-08		9413533	136950489	24	6231											
LOXL2	4017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	23217701	23217701	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgcttgcagtcagtgaCgccccagccattggaggtgc	6	9	14	12	2	1	1	1	1	0	0	1	2	1	2	3	2	4	2	3	2	0	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	23217701	C	T	23217701	3	4	111	1	0	0	0	0	1	0	0	0	8900	536	19	1	1939	1	LOXL2	8	23217701	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08	13804168	23217701	123146321	25	6232											
CPSF1	29894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145634429	145634429	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cggttgaggcggtacacgtaGagctgcgaggtcccggccac	7	6	16	12	5	0	2	0	1	0	1	1	3	1	2	2	5	3	4	2	5	2	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	145634429	G	C	145634429	2	2	111	1	0	0	0	0	0	0	0	1	3824	929	33	4		4	CPSF1	8	145634429	Silent	SNP	G	TCGA-B0-5077-01A-01D-1462-08	122416728	145634429	729593	26	6233											
MPDZ	8777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	13221425	13221427	+	In_Frame_Del	DEL	TCC	TCC	-																															actatcacaccagttgctttTcctcctatgatgccaaatcc																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		-	13221427	TCC	-	13221425	7	5	111	1	0	1	0	1	0	0	0	0	9722	1770	62	0	5463	0	MPDZ	9	13221425	In_Frame_Del	DEL	TCC	TCGA-B0-5077-01A-01D-1462-08		13221425	127992006	27	6234											
TTC39B	158219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	15211317	15211317	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgccgttctggatgtcCtgttgctcgaaggtcaggac	8	11	13	9	2	2	0	1	0	1	0	4	4	3	2	2	3	2	3	2	3	2	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	15211317	C	T	15211317	2	4	111	1	0	0	0	0	0	0	0	1	16707	680	24	2		2	TTC39B	9	15211317	Silent	SNP	C	TCGA-B0-5077-01A-01D-1462-08	1989892	15211317	126002114	28	6235											
SURF4	6836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136233529	136233529	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtactgcacgaagttcctGctcaacaccaggacgcagcc	10	6	10	15	3	1	0	1	0	0	0	2	2	2	1	3	1	5	5	3	1	3	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	136233529	G	A	136233529	2	1	111	1	0	0	0	0	0	0	0	1	15404	1310	46	2		2	SURF4	9	136233529	Silent	SNP	G	TCGA-B0-5077-01A-01D-1462-08	121022212	136233529	4979902	29	6236											
HTR7	3363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	92508881	92508881	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaatggcagccagcacacgGtaaaggccccgacgatgatc	14	4	11	12	3	0	1	0	1	0	0	1	3	0	1	3	3	2	3	3	3	4	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	92508881	G	T	92508881	3	4	111	1	0	0	0	0	1	0	0	0	7452	1261	44	4	445	4	HTR7	10	92508881	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08		92508881	43025866	30	6237											
ZNF518A	9849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97920188	97920188	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaaaactattgctaaattTaatggacatgtacttaaggt	16	14	7	4	0	0	1	0	1	0	0	0	2	0	2	0	2	3	2	0	2	8	7	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	97920188	T	C	97920188	3	2	111	1	0	0	0	0	1	0	0	0	17961	1764	61	3	4111	3	ZNF518A	10	97920188	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	5411307	97920188	37614559	31	6238											
KIAA1598	57698	broad.mit.edu	37	chr10	118645923	118645923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgttttctggttgaatttCgccttcatcctccttgtgtt	3	22	7	9	1	2	1	1	1	1	0	5	1	4	1	3	1	0	3	3	1	1	8	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	118645923	T	T	118645923	3	4	111	1	0	0	0	0	1	0	0	0	8246	893	31	1	71	1	KIAA1598	10	118645923	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08	20725735	118645923	16888824	32	6239											
UBQLNL	143630	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5537653	5537653	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggacatcctggatgttcGagagatggcatgccacatgg	9	9	14	9	1	0	1	0	0	0	1	2	5	1	3	2	4	1	2	2	4	0	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	5537653	G	A	5537653	4	1	111	1	0	0	0	0	0	1	0	0	16899	1066	37	1	1412	1	UBQLNL	11	5537653	Nonsense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08		5537653	129468863	33	6240											
ANO5	203859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22242734	22242734	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctacgttgatgatgtaaAgaaagacgcagagttaaagg	15	10	11	5	2	0	5	0	2	0	3	1	5	1	5	1	1	1	4	1	1	6	5	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	22242734	A	G	22242734	3	3	111	1	0	0	0	0	1	0	0	0	700	72	3	3	290	3	ANO5	11	22242734	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08	16705081	22242734	112763782	34	6241											
MADD	8567	broad.mit.edu;hgsc.bcm.edu	37	chr11	47336865	47336865	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagatacaaacggagataTctttttcatggaggtaggtg	13	11	12	5	1	2	2	1	0	1	2	2	5	2	3	0	4	2	1	0	4	4	5	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	47336865	T	C	47336865	3	2	111	1	0	0	0	0	1	0	0	0	9152	1435	50	3	4478	3	MADD	11	47336865	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	25094131	47336865	87669651	35	6242											
NRXN2	9379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64434814	64434814	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgatgcccccagatcccAtgtccagcagaagatagagg	11	7	11	12	0	0	5	0	1	0	4	2	5	2	5	4	1	2	2	4	1	2	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	64434814	A	C	64434814	3	2	111	1	0	0	0	0	1	0	0	0	10666	217	8	5	3761	5	NRXN2	11	64434814	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08	17097949	64434814	70571702	36	6243											
ARHGEF17	9828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73066597	73066597	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttctccaaggatgtcctagTaaacatctattctgcctata	11	14	6	10	0	3	0	0	0	3	0	5	1	4	1	3	1	2	2	3	1	7	7	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	73066597	T	C	73066597	3	2	111	1	0	0	0	0	1	0	0	0	900	1638	57	3	3487	3	ARHGEF17	11	73066597	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	8631783	73066597	61939919	37	6244											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92590423	92590423	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccttgtgtggagaagccGtgtccaggggacatgcagtg	8	9	16	8	1	0	1	0	0	0	1	2	4	2	2	3	3	2	1	3	3	1	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	92590423	G	A	92590423	2	1	111	1	0	0	0	0	0	0	0	1	5691	1132	40	1		1	FAT3	11	92590423	Silent	SNP	G	TCGA-B0-5077-01A-01D-1462-08	19523826	92590423	42416093	38	6245											
CWC15	51503	hgsc.bcm.edu	37	chr11	94699507	94699508	+	Frame_Shift_Ins	INS	-	-	T																															gctgggatgggccagtgagaINStaaggagagggtttccgctc																								rs34805065	bycluster;by1000genomes	TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	94699508	-	T	94699507	7	5	111	1	0	1	1	0	0	0	0	0	4067	333	12	0	184	0	CWC15	11	94699507	Frame_Shift_Ins	INS	-	TCGA-B0-5077-01A-01D-1462-08	2109084	94699507	40307009	39	6246											
CEP57	9702	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	95564238	95564238	+	Nonsense_Mutation	SNP	A	A	T																															agaaggaattaaaagctaccAaaaagactcttgatgaagaa																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	95564238	A	T	95564238	4	4	111	1	0	0	0	0	0	1	0	0	3256	131	5	5	1363	5	CEP57	11	95564238	Nonsense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08	864731	95564238	39442278	40	6247	71	2									
CEP57	9702	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	95564248	95564248	+	Missense_Mutation	SNP	T	T	C																															aaaagctaccaaaaagactcTtgatgaagaaagaaacagca																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	95564248	T	C	95564248	3	2	111	1	0	0	0	0	1	0	0	0	3256	1609	56	3	1373	3	CEP57	11	95564248	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	10	95564248	39442268	41	6248	71	2									
BACE1	23621	hgsc.bcm.edu;ucsc.edu	37	chr11	117165880	117165894	+	In_Frame_Del	DEL	GCCTTCCCAGTTGGA	GCCTTCCCAGTTGGA	-																															gcataggccagccccaggatGccttcccagttggagccgtt																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	GCCTTCCCAGTTGGA	GCCTTCCCAGTTGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		-	117165894	GCCTTCCCAGTTGGA	-	117165880	7	5	111	1	0	1	0	1	0	0	0	0	1281	1306	46	0	999	0	BACE1	11	117165880	In_Frame_Del	DEL	GCCTTCCCAGTTGGA	TCGA-B0-5077-01A-01D-1462-08	21601632	117165880	17840636	42	6249											
ABCG4	64137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119029566	119029566	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagatggcggtcttcatgaGggagcacctcaactactggt	10	9	13	9	1	3	2	2	1	1	1	3	4	3	3	1	4	3	1	1	4	2	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	119029566	G	T	119029566	3	4	111	1	0	0	0	0	1	0	0	0	70	1000	35	4	1406	4	ABCG4	11	119029566	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	1863686	119029566	15976950	43	6250											
OVCH1	341350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	29629166	29629166	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttttcttcagaatcacCgtaaatcacaacagcatcat	13	12	5	11	1	5	1	4	0	1	1	5	1	5	1	1	0	3	3	1	0	4	4	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	29629166	C	T	29629166	3	4	111	1	0	0	0	0	1	0	0	0	11323	652	23	1	2024	1	OVCH1	12	29629166	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08		29629166	104222729	44	6251											
MBD6	114785	hgsc.bcm.edu;ucsc.edu	37	chr12	57919663	57919663	+	Frame_Shift_Del	DEL	G	G	-																															cccctggtcctggggcccctGggaggggcccccacggtgga																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		-	57919663	G	-	57919663	7	5	111	1	0	1	0	1	0	0	0	0	9348	1335	47	0	926	0	MBD6	12	57919663	Frame_Shift_Del	DEL	G	TCGA-B0-5077-01A-01D-1462-08	28290497	57919663	75932232	45	6252	72	3									
MBD6	114785	hgsc.bcm.edu	37	chr12	57919667	57919667	+	Missense_Mutation	SNP	G	G	A																															tggtcctggggcccctgggaGgggcccccacggtggagggg																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	57919667	G	A	57919667	3	1	111	1	0	0	0	0	1	0	0	0	9348	1000	35	2	930	2	MBD6	12	57919667	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	4	57919667	75932228	46	6253	72	3									
MBD6	114785	broad.mit.edu;hgsc.bcm.edu	37	chr12	57919671	57919671	+	Missense_Mutation	SNP	C	C	T																															cctggggcccctgggaggggCccccacggtggaggggcctg																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	57919671	C	T	57919671	3	4	111	1	0	0	0	0	1	0	0	0	9348	739	26	2	934	2	MBD6	12	57919671	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08	4	57919671	75932224	47	6254	72	3									
NAV3	89795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	78400326	78400326	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccctggcgcagcaagtcCatgaatgtcaaacacagtgc	13	6	10	12	1	1	1	1	1	0	0	2	1	2	1	2	1	4	2	2	1	4	0	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	78400326	C	G	78400326	2	3	111	1	0	0	0	0	0	0	0	1	10185	581	21	4		4	NAV3	12	78400326	Silent	SNP	C	TCGA-B0-5077-01A-01D-1462-08	20480655	78400326	55451569	48	6255											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32899270	32899270	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtgaaaactaaaatggAtcaagcagatgatgtttcct	16	10	8	7	0	1	3	1	2	0	1	2	4	2	4	1	1	2	2	1	1	5	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	32899270	A	G	32899270	3	3	111	1	0	0	0	0	1	0	0	0	1499	333	12	3	384	3	BRCA2	13	32899270	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08		32899270	82270608	49	6256											
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42137191	42137191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaccggcaggagctggccGagcgtgcccgcttgggctac	5	6	17	13	4	0	0	0	0	0	0	0	2	0	1	3	5	5	5	3	5	2	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	42137191	A	A	42137191	3	1	111	1	0	0	0	0	1	0	0	0	7955	1059	37	1	1925	1	JMJD7-PLA2G4B	15	42137191	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08		42137191	60394201	50	6257											
TBX6	6911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30099894	30099894	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttctgccgttctcccggaAgcctttggcaaagggattgg	6	12	13	10	2	2	0	0	0	2	0	3	2	2	2	3	4	2	3	3	4	2	4	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	30099894	A	T	30099894	3	4	111	1	0	0	0	0	1	0	0	0	15661	72	3	5	515	5	TBX6	16	30099894	Missense_Mutation	SNP	A	TCGA-B0-5077-01A-01D-1462-08		30099894	60254859	51	6258											
JPH3	57338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	87677876	87677876	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccccagggacctaccaggGccagtgggtcggtggcatgc	6	6	15	14	1	0	0	0	0	0	0	2	1	1	1	5	5	2	1	5	5	1	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	87677876	G	A	87677876	3	1	111	1	0	0	0	0	1	0	0	0	7962	1203	42	2	401	2	JPH3	16	87677876	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	57577982	87677876	2676877	52	6259											
USP43	124739	broad.mit.edu;ucsc.edu	37	chr17	9559806	9559806	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctggttgctggatcgtgtAcatgaggacctggagggttc	6	12	15	8	1	1	1	0	1	1	0	3	4	1	4	1	5	2	4	1	5	1	3	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	9559806	G	G	9559806	2	3	111	1	0	0	0	0	0	0	0	1	17073	378	14	3		3	USP43	17	9559806	Silent	SNP	A	TCGA-B0-5077-01A-01D-1462-08		9559806	71635404	53	6260											
RAI1	10743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	17696713	17696713	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgatgaaaaagacagcaGtgccccccagcaggcagtat	14	6	10	11	0	0	3	0	2	0	1	0	3	0	3	3	1	3	4	3	1	3	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	17696713	G	A	17696713	3	1	111	1	0	0	0	0	1	0	0	0	13009	1029	36	2	453	2	RAI1	17	17696713	Missense_Mutation	SNP	G	TCGA-B0-5077-01A-01D-1462-08	8136907	17696713	63498497	54	6261											
FAM83G	644815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18907263	18907263	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctccagcgccagccgcTgctcctcgctgtagaagaac	7	6	12	16	3	0	2	0	0	0	2	3	2	2	2	5	1	4	4	5	1	3	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		C	18907263	T	C	18907263	3	2	111	1	0	0	0	0	1	0	0	0	5639	1580	55	3	2399	3	FAM83G	17	18907263	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	1210550	18907263	62287947	55	6262											
ADAT3	113179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1913029	1913029	+	Missense_Mutation	SNP	C	C	G																															cgtcttctacggtgcgccctCgcccgacggcgccctgggca																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		G	1913029	C	G	1913029	3	3	111	1	0	0	0	0	1	0	0	0	286	893	31	4	937	4	ADAT3	19	1913029	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08		1913029	57215954	56	6263	73	2									
ADAT3	113179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1913030	1913030	+	Silent	SNP	G	G	T																															gtcttctacggtgcgccctcGcccgacggcgccctgggcac																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	1913030	G	T	1913030	2	4	111	1	0	0	0	0	0	0	0	1	286	1074	38	4		4	ADAT3	19	1913030	Silent	SNP	G	TCGA-B0-5077-01A-01D-1462-08	1	1913030	57215953	57	6264	73	2									
SLC23A2	9962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	4880292	4880292	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggcccactggtcgtaccCcacacacatggcatcggcca	8	6	11	16	2	0	0	0	0	0	0	2	0	0	0	4	5	1	2	4	5	1	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		T	4880292	C	T	4880292	3	4	111	1	0	0	0	0	1	0	0	0	14465	623	22	2	1609	2	SLC23A2	20	4880292	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08		4880292	58145228	58	6265											
ARSH	347527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	2951181	2951181	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccacgacccaccactcCtctttgacatctcaagagac	11	8	4	18	1	2	2	1	1	2	1	4	4	3	2	5	0	1	0	5	0	2	2	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	2951181	C	A	2951181	3	1	111	1	0	0	0	0	1	0	0	0	993	681	24	4	1478	4	ARSH	23	2951181	Missense_Mutation	SNP	C	TCGA-B0-5077-01A-01D-1462-08		2951181	152319379	59	6266											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53231127	53231127	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggaaggtgatgacaaacTctcctgcacactggtttgtg	9	10	14	8	0	1	2	0	2	1	0	2	3	1	3	1	4	2	2	1	4	2	1	novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		A	53231127	T	A	53231127	3	1	111	1	0	0	0	0	1	0	0	0	8135	1551	54	5	3061	5	KDM5C	23	53231127	Missense_Mutation	SNP	T	TCGA-B0-5077-01A-01D-1462-08	50279946	53231127	102039433	60	6267											
LHFPL1	340596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	111874741	111874741	+	Frame_Shift_Del	DEL	A	A	-																															acaggcttggggtttcttccAgcaaagcaagagagccaggt																								novel		TCGA-B0-5077-01A-01D-1462-08	TCGA-B0-5077-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	587f2bd8-952a-4f31-98e7-7654c80b8a99	7ca07cb9-f606-4911-ad93-3a3dd65a84d2		-	111874741	A	-	111874741	7	5	111	1	0	1	0	1	0	0	0	0	8764	175	7	0	96	0	LHFPL1	23	111874741	Frame_Shift_Del	DEL	A	TCGA-B0-5077-01A-01D-1462-08	58643614	111874741	43395819	61	6268											
C1QC	714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22973841	22973841	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaggggtgcccggcccCatgggcatccctggagagcc	6	5	15	15	1	0	1	0	0	0	1	1	2	1	1	6	5	3	1	6	5	0	0	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	22973841	C	A	22973841	2	1	112	1	0	0	0	0	0	0	0	1	1957	581	21	4		4	C1QC	1	22973841	Silent	SNP	C	TCGA-B0-5080-01A-01D-1501-10		22973841	226276780	1	6269											
RCC1	1104	broad.mit.edu;hgsc.bcm.edu	37	chr1	28862846	28862846	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattccaccaagtcctgggTgggcttctctggtggccagc	6	10	13	12	0	1	0	0	0	1	0	4	1	3	0	4	4	1	1	4	4	2	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	28862846	T	A	28862846	3	1	112	1	0	0	0	0	1	0	0	0	13175	1696	59	5	1013	5	RCC1	1	28862846	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10	5889005	28862846	220387775	2	6270											
CACHD1	57685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	65047954	65047954	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcccctaactgcaattcAagactgctgtactatcccac	10	11	4	16	0	2	1	1	0	1	1	4	1	3	1	3	0	4	3	3	0	5	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	65047954	A	T	65047954	3	4	112	1	0	0	0	0	1	0	0	0	2537	130	5	5	234	5	CACHD1	1	65047954	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10	36185108	65047954	184202667	3	6271											
DDX20	11218	broad.mit.edu;ucsc.edu	37	chr1	112302139	112302139	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattggagggaccccattaTcacaagacaaaaccagactt	15	9	7	10	0	1	2	1	0	0	2	1	4	1	4	3	2	1	0	3	2	5	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	112302139	C	C	112302139	3	2	112	1	0	0	0	0	1	0	0	0	4348	1435	50	3	524	3	DDX20	1	112302139	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10	47254185	112302139	136948482	4	6272											
FCRL4	83417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157566118	157566118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaaaataaggacttacCagattgtccacagactggag	17	7	9	8	0	0	3	0	0	0	3	1	5	1	5	2	2	1	0	2	2	5	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	157566118	C	T	157566118	3	4	112	1	0	0	0	0	1	0	0	0	5797	608	21	2	1539	2	FCRL4	1	157566118	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	45263979	157566118	91684503	5	6273											
CENPF	1063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214802408	214802408	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatactgcattggaacaaaAactgaaaaaattgacggaag	19	8	9	5	1	0	2	0	2	0	0	0	4	0	4	0	2	4	2	0	2	9	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	214802408	A	T	214802408	3	4	112	1	0	0	0	0	1	0	0	0	3231	14	1	5	1114	5	CENPF	1	214802408	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10	57236290	214802408	34448213	6	6274											
GALNT2	2590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	230398728	230398728	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctttcaaatggtacctTgaaaatgtctatccagagtt	13	13	7	8	0	2	2	1	1	1	1	3	2	3	2	3	1	2	2	3	1	6	5	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	230398728	T	A	230398728	2	1	112	1	0	0	0	0	0	0	0	1	6213	1799	63	5		5	GALNT2	1	230398728	Silent	SNP	T	TCGA-B0-5080-01A-01D-1501-10	15596320	230398728	18851893	7	6275											
APOB	338	broad.mit.edu;ucsc.edu	37	chr2	21256217	21256217	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagagatgtgactgcttcatCactgaggcctctcagctcag	9	10	11	11	0	4	3	4	2	1	1	5	5	4	3	1	1	2	2	1	1	0	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	21256217	G	G	21256217	3	3	112	1	0	0	0	0	1	0	0	0	785	826	29	4	12697	4	APOB	2	21256217	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		21256217	221943156	8	6276											
LRPPRC	10128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44201856	44201856	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ataatttgcagtaaatcacgGtccataaggtgaagctcgga	14	10	10	7	2	1	1	1	1	0	0	3	2	2	2	1	3	2	3	1	3	5	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	44201856	G	T	44201856	3	4	112	1	0	0	0	0	1	0	0	0	8965	1252	44	4	3402	4	LRPPRC	2	44201856	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	22945639	44201856	198997517	9	6277											
PAPOLG	64895	broad.mit.edu;ucsc.edu	37	chr2	60987314	60987314	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacaaaagcattatggaatTacctccccaattagtttggc	14	11	6	10	0	0	0	0	0	0	0	1	1	1	1	3	2	3	2	3	2	8	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	60987314	C	C	60987314	2	2	112	1	0	0	0	0	0	0	0	1	11431	1742	61	3		3	PAPOLG	2	60987314	Silent	SNP	T	TCGA-B0-5080-01A-01D-1501-10	16785458	60987314	182212059	10	6278											
THSD7B	80731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	138330034	138330034	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atagcaacctgtgcaaccagGatgaaattcccccagaaacc	15	6	7	13	0	0	2	0	1	0	1	1	3	1	3	5	1	5	2	5	1	5	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	138330034	G	A	138330034	2	1	112	1	0	0	0	0	0	0	0	1	15879	1174	41	2		2	THSD7B	2	138330034	Silent	SNP	G	TCGA-B0-5080-01A-01D-1501-10	77342720	138330034	104869339	11	6279											
PMS1	5378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	190738266	190738266	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaatagaaggaatggctAattgtctcccattctatgga	13	12	10	6	0	2	1	0	0	2	1	3	4	2	4	1	4	0	1	1	4	6	5	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	190738266	A	G	190738266	3	3	112	1	0	0	0	0	1	0	0	0	12142	362	13	3	2560	3	PMS1	2	190738266	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10	52408232	190738266	52461107	12	6280											
DOCK10	55619	broad.mit.edu;ucsc.edu	37	chr2	225637922	225637922	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcagtctgatcatgtcCacttcttccattgtgcaaag	9	13	8	11	0	3	1	1	1	2	0	5	1	5	1	2	0	3	3	2	0	1	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	225637922	G	G	225637922	2	3	112	1	0	0	0	0	0	0	0	1	4685	581	21	4		4	DOCK10	2	225637922	Silent	SNP	C	TCGA-B0-5080-01A-01D-1501-10	34899656	225637922	17561451	13	6281											
STX19	415117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	93733283	93733283	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtactctgcaaggattTctttttttgtattttacagc	9	18	6	8	0	2	0	0	0	2	0	2	1	2	1	0	1	4	3	0	1	4	8	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	93733283	T	G	93733283	3	3	112	1	0	0	0	0	1	0	0	0	15343	1780	62	5	57	5	STX19	3	93733283	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10		93733283	104289147	14	6282											
ABI3BP	25890	broad.mit.edu	37	chr3	100595388	100595388	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttattgggattagtttcCttgggacatatgctggctgc	6	17	12	6	0	0	0	0	0	0	0	1	2	1	2	1	3	2	4	1	3	3	7	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	100595388	G	G	100595388	3	3	112	1	0	0	0	0	1	0	0	0	91	681	24	4	2609	4	ABI3BP	3	100595388	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	6862105	100595388	97427042	15	6283											
TP63	8626	broad.mit.edu;ucsc.edu	37	chr3	189608582	189608582	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcctccctctgcagtttcTtagcgaggttgggctgttca	4	14	10	13	1	3	0	1	0	2	0	5	1	5	0	3	2	2	5	3	2	1	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	189608582	C	C	189608582	2	2	112	1	0	0	0	0	0	0	0	1	16391	1606	56	3		3	TP63	3	189608582	Silent	SNP	T	TCGA-B0-5080-01A-01D-1501-10	89013194	189608582	8413848	16	6284											
CENPC1	1060	broad.mit.edu;hgsc.bcm.edu	37	chr4	68384984	68384984	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgaaggcagcatatttaCtgaattttcaaaagtgtaag	15	13	8	5	0	1	2	1	2	0	0	1	2	1	2	0	1	2	3	0	1	7	7	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	68384984	C	T	68384984	3	4	112	1	0	0	0	0	1	0	0	0	3229	565	20	2	2319	2	CENPC1	4	68384984	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		68384984	122769292	17	6285											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85642627	85642627	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcctcctcttctatggAgctgccctcagcaatctggt	5	15	7	14	0	5	0	1	0	4	0	7	1	6	1	3	2	3	2	3	2	2	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	85642627	A	T	85642627	3	4	112	1	0	0	0	0	1	0	0	0	17269	304	11	5	3128	5	WDFY3	4	85642627	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10	17257643	85642627	105511649	18	6286											
SLC45A2	51151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33951772	33951772	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcactatagggatccccgCggtacacaatctgaaagaga	13	7	11	10	2	1	2	0	1	1	1	2	4	2	3	2	2	2	2	2	2	5	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	33951772	C	T	33951772	3	4	112	1	0	0	0	0	1	0	0	0	14643	768	27	1	576	1	SLC45A2	5	33951772	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		33951772	146963488	19	6287											
IQGAP2	10788	hgsc.bcm.edu;ucsc.edu	37	chr5	75886315	75886315	+	Frame_Shift_Del	DEL	T	T	-																															gtaacactaagaaacccaaaTgcggttttaactttagtgga																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		-	75886315	T	-	75886315	7	5	112	1	0	1	0	1	0	0	0	0	7815	1461	51	0	753	0	IQGAP2	5	75886315	Frame_Shift_Del	DEL	T	TCGA-B0-5080-01A-01D-1501-10	41934543	75886315	105028945	20	6288											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89986798	89986798	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgtgacctttgcccctggGgaaaccattcaaaccttgtt	10	12	8	11	0	1	1	1	1	0	0	1	2	1	2	5	2	3	1	5	2	3	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	89986798	G	A	89986798	2	1	112	1	0	0	0	0	0	0	0	1	6721	1219	43	2		2	GPR98	5	89986798	Silent	SNP	G	TCGA-B0-5080-01A-01D-1501-10	14100483	89986798	90928462	21	6289											
PECI	0	broad.mit.edu;ucsc.edu	37	chr6	4117641	4117641	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtccttgagcacatgcCtctcccgctgttaacttctt	8	13	6	14	1	2	1	0	1	2	0	4	1	3	1	3	0	3	3	3	0	2	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	4117641	G	G	4117641	3	3	112	1	0	0	0	0	1	0	0	0	11716	680	24	4	262	4	PECI	6	4117641	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		4117641	166997426	22	6290											
DPCR1	135656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30919792	30919792	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaaaccacaagaacccCagaaaagcctacgctatact	19	4	6	12	1	0	3	0	0	0	3	0	4	0	3	4	0	5	1	4	0	9	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	30919792	C	T	30919792	3	4	112	1	0	0	0	0	1	0	0	0	4712	594	21	2	3557	2	DPCR1	6	30919792	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	26802151	30919792	140195275	23	6291											
GPR110	266977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46977222	46977222	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactccagaagggttcaccGtggtgtccactgtggcacca	9	8	12	12	1	1	2	1	0	0	2	3	2	3	2	4	3	0	2	4	3	1	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	46977222	G	A	46977222	3	1	112	1	0	0	0	0	1	0	0	0	6627	1145	40	1	803	1	GPR110	6	46977222	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	16057430	46977222	124137845	24	6292											
GLI3	2737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	42003966	42003966	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgctttcttccgctaGggaggtcagcaaagaactca	11	11	10	9	1	3	1	2	0	1	1	4	3	4	2	1	2	3	3	1	2	4	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	42003966	G	C	42003966	3	2	112	1	0	0	0	0	1	0	0	0	6439	991	35	4	41	4	GLI3	7	42003966	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10		42003966	117134697	25	6293											
GRB10	2887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	50660657	50660657	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacatctgcggtcataaggCcactcggatgcagtggtgct	8	9	14	10	2	2	0	1	0	1	0	3	2	2	2	1	5	3	2	1	5	1	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	50660657	C	T	50660657	3	4	112	1	0	0	0	0	1	0	0	0	6756	739	26	2	11	2	GRB10	7	50660657	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	8656691	50660657	108478006	26	6294											
LUC7L2	51631	broad.mit.edu;ucsc.edu	37	chr7	139097305	139097305	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttttaggtcccgatCacacagcaagaatccaaaaa	14	13	5	9	1	1	1	1	0	0	1	3	2	3	1	2	1	1	1	2	1	5	5	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	139097305	A	A	139097305	4	1	112	1	0	0	0	0	0	1	0	0	9083	838	29	4	818	4	LUC7L2	7	139097305	Nonsense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	88436648	139097305	20041358	27	6295											
KIF13B	23303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	29018273	29018273	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaatagtacaccagaagctCattcagagctgggtcagcat	14	9	9	9	0	3	2	3	0	0	2	3	2	3	2	1	1	4	4	1	1	5	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	29018273	C	T	29018273	3	4	112	1	0	0	0	0	1	0	0	0	8275	835	29	2	4211	2	KIF13B	8	29018273	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		29018273	117345749	28	6296											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55663098	55663098	+	Missense_Mutation	SNP	C	C	A																															tgggggatgattattttcatCctgaatctcaatgtatactt																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	55663098	C	A	55663098	3	1	112	1	0	0	0	0	1	0	0	0	11511	855	30	4	4112	4	PCDH15	10	55663098	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		55663098	79871649	29	6297	74	2									
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55663099	55663099	+	Missense_Mutation	SNP	C	C	A																															gggggatgattattttcatcCtgaatctcaatgtatacttt																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	55663099	C	A	55663099	3	1	112	1	0	0	0	0	1	0	0	0	11511	680	24	4	4113	4	PCDH15	10	55663099	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	1	55663099	79871648	30	6298	74	2									
SLC29A3	55315	broad.mit.edu	37	chr10	73121852	73121852	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccccatcctgaagaagacGgccagcctgggcttctgtgt	7	8	12	14	2	1	3	0	1	1	2	2	3	2	3	5	2	1	1	5	2	2	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	73121852	A	A	73121852	2	1	112	1	0	0	0	0	0	0	0	1	14538	1103	39	1		1	SLC29A3	10	73121852	Silent	SNP	G	TCGA-B0-5080-01A-01D-1501-10	17458753	73121852	62412895	31	6299											
RRP12	23223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99156039	99156039	+	Missense_Mutation	SNP	G	G	T																															agcgaatcacctcagtgacaGcagccagaacagcacagatc																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	99156039	G	T	99156039	3	4	112	1	0	0	0	0	1	0	0	0	13688	971	34	4	3632	4	RRP12	10	99156039	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	26034187	99156039	36378708	32	6300	75	2									
RRP12	23223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99156040	99156040	+	Missense_Mutation	SNP	C	C	T																															gcgaatcacctcagtgacagCagccagaacagcacagatct																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	99156040	C	T	99156040	3	4	112	1	0	0	0	0	1	0	0	0	13688	710	25	2	3633	2	RRP12	10	99156040	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	1	99156040	36378707	33	6301	75	2									
CCDC73	493860	broad.mit.edu;ucsc.edu	37	chr11	32697453	32697453	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttgttctaacttttcatGattctcttttaccaatccaa	10	20	2	9	0	3	1	1	1	2	0	5	1	4	1	2	0	2	1	2	0	4	9	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	32697453	T	T	32697453	3	4	112	1	0	0	0	0	1	0	0	0	2846	1290	45	4	2739	4	CCDC73	11	32697453	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10		32697453	102309063	34	6302											
SLC22A20	440044	hgsc.bcm.edu	37	chr11	64988531	64988531	+	RNA	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgctggggtattccttcacCctgggccagctcatcctggc	4	12	11	14	0	2	0	2	0	0	0	4	0	4	0	4	4	2	3	4	4	1	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	64988531	C	T	64988531	1	4	112	0	1	0	0	0	0	0	0	0	14453	638	22	2		2	SLC22A20	11	64988531	RNA	SNP	C	TCGA-B0-5080-01A-01D-1501-10	32291078	64988531	70017985	35	6303											
SYT12	91683	broad.mit.edu;hgsc.bcm.edu	37	chr11	66813240	66813240	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgtcaaggtgtacctgctGcaggatgggaggaagatgag	10	9	16	6	1	1	2	1	1	0	1	2	5	1	5	1	4	3	3	1	4	3	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	66813240	G	T	66813240	2	4	112	1	0	0	0	0	0	0	0	1	15467	1306	46	4		4	SYT12	11	66813240	Silent	SNP	G	TCGA-B0-5080-01A-01D-1501-10	1824709	66813240	68193276	36	6304											
ACSM4	341392	hgsc.bcm.edu;ucsc.edu	37	chr12	7459281	7459281	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaggagaccgtttggcCgtgattctgcccagaatccc	9	8	12	12	2	1	4	0	1	1	3	2	6	2	4	4	2	1	1	4	2	1	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	7459281	C	A	7459281	2	1	112	1	0	0	0	0	0	0	0	1	186	639	23	4		4	ACSM4	12	7459281	Silent	SNP	C	TCGA-B0-5080-01A-01D-1501-10		7459281	126392614	37	6305											
IRAK4	51135	broad.mit.edu	37	chr12	44176279	44176279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacacccaaatctgatattTacagctttggtgtggtaagt	12	14	8	7	0	1	1	0	1	1	0	1	1	1	1	1	2	3	2	1	2	5	6	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	44176279	C	C	44176279	3	2	112	1	0	0	0	0	1	0	0	0	7825	1754	61	3	1141	3	IRAK4	12	44176279	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10	36716998	44176279	89675616	38	6306											
USP15	9958	broad.mit.edu;hgsc.bcm.edu	37	chr12	62798002	62798002	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatatgtactcttctaccaGagacaagacactttcagtgg	12	11	8	10	0	3	2	1	0	2	2	3	3	3	2	1	1	2	2	1	1	4	5	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	62798002	G	C	62798002	3	2	112	1	0	0	0	0	1	0	0	0	17045	933	33	4	2788	4	USP15	12	62798002	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	18621723	62798002	71053893	39	6307											
USP8	9101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50791105	50791105	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtttggcacagaatcaCtacggtgggctggatggagg	8	11	15	7	1	2	1	1	0	1	1	2	3	2	3	0	6	1	3	0	6	2	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	50791105	C	G	50791105	3	3	112	1	0	0	0	0	1	0	0	0	17088	564	20	4	3251	4	USP8	15	50791105	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		50791105	51740287	40	6308											
ADAMTSL3	57188	hgsc.bcm.edu	37	chr15	84705613	84705614	+	Frame_Shift_Ins	INS	-	-	G																															ctgtacagcagcctgtggcaINSggggtttccagtctcggaaa																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	84705614	-	G	84705613	7	5	112	1	0	1	1	0	0	0	0	0	276	179	7	0	4953	0	ADAMTSL3	15	84705613	Frame_Shift_Ins	INS	-	TCGA-B0-5080-01A-01D-1501-10	33914508	84705613	17825779	41	6309											
CDH5	1003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66430033	66430033	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggggacatttacaatgAgaaagaactggacagagaag	19	5	13	4	0	0	3	0	1	0	3	0	7	0	5	0	3	2	0	0	3	6	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	66430033	A	T	66430033	3	4	112	1	0	0	0	0	1	0	0	0	3113	304	11	5	1315	5	CDH5	16	66430033	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10		66430033	23924720	42	6310											
PIRT	644139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10728777	10728777	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaaagcaggatggcaccGcccactgacatgataacgat	14	5	10	12	3	0	2	0	2	0	0	0	5	0	3	3	2	2	2	3	2	3	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	10728777	G	A	10728777	2	1	112	1	0	0	0	0	0	0	0	1	11945	1074	38	1		1	PIRT	17	10728777	Silent	SNP	G	TCGA-B0-5080-01A-01D-1501-10		10728777	70466433	43	6311											
ULK2	9706	broad.mit.edu;ucsc.edu	37	chr17	19705159	19705159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaactgtctgtgctgtgtCtgctggtactggggagcatg	5	13	14	9	0	2	0	0	0	2	0	3	1	3	1	1	3	5	4	1	3	2	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	19705159	T	T	19705159	3	4	112	1	0	0	0	0	1	0	0	0	16975	913	32	2	1786	2	ULK2	17	19705159	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	8976382	19705159	61490051	44	6312											
TADA2A	6871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35804809	35804809	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctaaacaggaatttgacaaTtatgcagaatgggacttgag	15	10	10	6	0	0	3	0	2	0	1	0	5	0	5	1	2	2	1	1	2	6	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	35804809	T	G	35804809	3	3	112	1	0	0	0	0	1	0	0	0	15509	1490	52	5	569	5	TADA2A	17	35804809	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10	16099650	35804809	45390401	45	6313											
SAMD14	201191	broad.mit.edu	37	chr17	48191586	48191586	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacagcgtgtggtaggggtAagaacatttggcctcctgcc	9	9	14	9	1	0	2	0	0	0	2	1	2	1	2	3	4	3	2	3	4	3	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	48191586	G	G	48191586	3	3	112	1	0	0	0	0	1	0	0	0	13821	362	13	3	358	3	SAMD14	17	48191586	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10	12386777	48191586	33003624	46	6314											
KIF19	124602	broad.mit.edu	37	chr17	72342609	72342609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaacgccctgagcgacaaGggtagcaacaagtacatcaa	16	5	9	11	2	2	1	2	1	0	0	2	2	2	1	1	1	5	3	1	1	7	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	72342609	T	T	72342609	3	4	112	1	0	0	0	0	1	0	0	0	8282	991	35	4	900	4	KIF19	17	72342609	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	24151023	72342609	8852601	47	6315											
PTBP1	5725	hgsc.bcm.edu	37	chr19	808433	808433	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctagtgcagatggcggaCggcaaccaggcccagctggg	8	4	16	13	2	0	1	0	0	0	1	0	2	0	2	3	5	3	3	3	5	2	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	808433	C	T	808433	2	4	112	1	0	0	0	0	0	0	0	1	12727	535	19	1		1	PTBP1	19	808433	Silent	SNP	C	TCGA-B0-5080-01A-01D-1501-10		808433	58320550	48	6316											
STX10	8677	broad.mit.edu	37	chr19	13260325	13260325	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgacctggactgcctcTcgcatccgctccacgaacac	7	9	7	18	3	1	1	0	1	1	0	5	3	4	2	5	1	2	2	5	1	1	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	13260325	C	C	13260325	2	2	112	1	0	0	0	0	0	0	0	1	15337	1538	54	3		3	STX10	19	13260325	Silent	SNP	T	TCGA-B0-5080-01A-01D-1501-10	12451892	13260325	45868658	49	6317											
PDE4C	5143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18328978	18328978	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggtgttaatcagaaactgGttggagaccccaggatggtc	10	10	13	8	0	1	2	1	0	0	2	2	4	1	3	2	5	1	2	2	5	2	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	18328978	G	T	18328978	3	4	112	1	0	0	0	0	1	0	0	0	11641	1252	44	4	847	4	PDE4C	19	18328978	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	5068653	18328978	40800005	50	6318											
ZNF792	126375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35449369	35449369	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcgctgatgtttcatgaggtCagagcttcggctgaaggctt	7	13	13	8	2	2	4	2	3	0	1	4	4	2	4	0	3	1	5	0	3	1	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	35449369	C	T	35449369	3	4	112	1	0	0	0	0	1	0	0	0	18163	826	29	2	512	2	ZNF792	19	35449369	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	17120391	35449369	23679614	51	6319											
HNRNPUL1	11100	broad.mit.edu;ucsc.edu	37	chr19	41811645	41811645	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctacacagccccaccgcCtccacctccaccaccacctg	8	4	6	23	1	0	0	0	0	0	0	2	0	2	0	10	1	2	1	10	1	1	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		G	41811645	G	G	41811645	3	3	112	1	0	0	0	0	1	0	0	0	7274	681	24	4	2381	4	HNRNPUL1	19	41811645	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	6362276	41811645	17317338	52	6320											
POLD1	5424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50906786	50906786	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtatcatggaccccgacGtgatcaccggttacaacatc	10	9	8	14	4	2	1	2	1	0	0	4	3	3	2	4	2	2	2	4	2	3	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	50906786	G	A	50906786	3	1	112	1	0	0	0	0	1	0	0	0	12190	1145	40	1	1208	1	POLD1	19	50906786	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	9095141	50906786	8222197	53	6321											
MYBPC2	4606	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50939919	50939919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtggtactgggggacCgtgggtattaccgcctcgag	7	8	18	8	3	0	0	0	0	0	0	1	3	0	2	3	6	2	2	3	6	4	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	50939919	C	T	50939919	3	4	112	1	0	0	0	0	1	0	0	0	10012	652	23	1	409	1	MYBPC2	19	50939919	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	33133	50939919	8189064	54	6322											
SIGLEC8	27181	broad.mit.edu;hgsc.bcm.edu	37	chr19	51958703	51958703	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctgcagggagaggctcagGgaaatgtgctgggagccctg	8	8	17	8	0	2	1	1	0	1	1	2	4	2	3	1	4	3	3	1	4	1	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	51958703	G	A	51958703	2	1	112	1	0	0	0	0	0	0	0	1	14316	1219	43	2		2	SIGLEC8	19	51958703	Silent	SNP	G	TCGA-B0-5080-01A-01D-1501-10	1018784	51958703	7170280	55	6323											
VN1R2	317701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53762336	53762336	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatacaactggcaaatggagCaacaacaacatcacaaagaa	21	5	6	9	0	1	1	1	0	0	1	1	2	1	2	0	2	6	2	0	2	9	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	53762336	C	A	53762336	3	1	112	1	0	0	0	0	1	0	0	0	17178	709	25	4	710	4	VN1R2	19	53762336	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	1803633	53762336	5366647	56	6324											
TMEM50B	757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34841149	34841149	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctctcactccagtcaataCattcacattctggccaacga	11	12	4	14	1	5	0	3	0	2	0	7	1	6	0	2	1	2	0	2	1	3	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	34841149	C	T	34841149	3	4	112	1	0	0	0	0	1	0	0	0	16175	478	17	2	456	2	TMEM50B	21	34841149	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		34841149	13288746	57	6325											
PRDM15	63977	broad.mit.edu	37	chr21	43230601	43230601	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctgcgcctccaccttgTcgtgtgtgagctgaacgtgc	5	11	12	13	3	1	2	0	2	1	0	3	2	2	2	3	0	5	2	3	0	1	1	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	43230601	A	A	43230601	3	1	112	1	0	0	0	0	1	0	0	0	12458	1667	58	5	880	5	PRDM15	21	43230601	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10	8389452	43230601	4899294	58	6326											
TCF20	6942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42609019	42609019	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctagaatatctcctgtCagggtggtggtggtaaccct	8	12	11	10	0	2	1	1	0	1	1	4	1	3	1	3	4	1	1	3	4	4	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	42609019	C	A	42609019	3	1	112	1	0	0	0	0	1	0	0	0	15689	826	29	4	3627	4	TCF20	22	42609019	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		42609019	8695547	59	6327											
FAM118A	55007	broad.mit.edu;ucsc.edu	37	chr22	45726594	45726594	+	Silent	SNP	T	C	C																															tcggggtataaagacgtcacTcaagacgcagaagtcatggt																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	45726594	C	C	45726594	2	2	112	1	0	0	0	0	0	0	0	1	5411	1538	54	3		3	FAM118A	22	45726594	Silent	SNP	T	TCGA-B0-5080-01A-01D-1501-10	3117575	45726594	5577972	60	6328	76	2									
FAM118A	55007	broad.mit.edu;ucsc.edu	37	chr22	45726595	45726595	+	Nonsense_Mutation	SNP	C	T	T																															cggggtataaagacgtcactCaagacgcagaagtcatggta																								novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	45726595	T	T	45726595	4	4	112	1	0	0	0	0	0	1	0	0	5411	827	29	2	648	2	FAM118A	22	45726595	Nonsense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10	1	45726595	5577971	61	6329	76	2									
ZCCHC5	203430	broad.mit.edu;ucsc.edu	37	chrX	77913714	77913714	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggctgctgggggattCatgtgctctgggagcttctg	4	12	15	10	0	3	0	1	0	2	0	4	2	4	2	1	4	3	4	1	4	0	2	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	77913714	A	A	77913714	3	1	112	1	0	0	0	0	1	0	0	0	17590	826	29	4	1227	4	ZCCHC5	23	77913714	Missense_Mutation	SNP	C	TCGA-B0-5080-01A-01D-1501-10		77913714	77356846	62	6330											
IGSF1	3547	broad.mit.edu;ucsc.edu	37	chrX	130409967	130409967	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcataaggggcatactgagaTatgaccccctgtttgacatg	11	11	10	9	0	1	3	1	3	0	1	1	4	1	3	2	2	1	2	2	2	3	4	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		C	130409967	C	C	130409967	3	2	112	1	0	0	0	0	1	0	0	0	7596	1406	49	3	1170	3	IGSF1	23	130409967	Missense_Mutation	SNP	T	TCGA-B0-5080-01A-01D-1501-10	52496253	130409967	24860593	63	6331											
GPR101	83550	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	136112591	136112591	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggactgctaaaaagcagtAgggccccagggatagcacat	14	5	12	10	0	0	0	0	0	0	0	0	2	0	2	2	3	3	4	2	3	5	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		T	136112591	A	T	136112591	3	4	112	1	0	0	0	0	1	0	0	0	6622	420	15	5	286	5	GPR101	23	136112591	Missense_Mutation	SNP	A	TCGA-B0-5080-01A-01D-1501-10	5702624	136112591	19157969	64	6332											
HCFC1	3054	broad.mit.edu	37	chrX	153222975	153222975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gattgttcccgctggcagggGccctttggtctgaaaggggg	5	10	17	9	1	1	1	0	1	1	0	2	2	2	1	2	6	0	3	2	6	1	3	novel		TCGA-B0-5080-01A-01D-1501-10	TCGA-B0-5080-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9adf0a63-1d5c-403a-9e78-cb9d62a249a4	b879cfef-694b-4868-a523-0e9e27486cd7		A	153222975	A	A	153222975	3	1	112	1	0	0	0	0	1	0	0	0	6991	1203	42	2	4020	2	HCFC1	23	153222975	Missense_Mutation	SNP	G	TCGA-B0-5080-01A-01D-1501-10	17110384	153222975	2047585	65	6333											
TEKT2	27285	broad.mit.edu	37	chr1	36553613	36553613	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaagcacctggcccggctGcaggctgacattgcctgcaa	8	7	12	14	1	0	1	0	1	0	0	0	1	0	1	3	3	5	6	3	3	2	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	36553613	T	T	36553613	2	4	113	1	0	0	0	0	0	0	0	1	15752	1306	46	4		4	TEKT2	1	36553613	Silent	SNP	G	TCGA-B0-5081-01A-01D-1462-08		36553613	212697008	1	6334											
CD34	947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	208062095	208062095	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccagtgatgcccaagacagCcagcagggctcccgaggtga	10	4	14	13	1	0	3	0	2	0	1	1	4	1	3	4	2	3	2	4	2	1	0	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	208062095	C	A	208062095	3	1	113	1	0	0	0	0	1	0	0	0	3006	739	26	4	280	4	CD34	1	208062095	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	171508482	208062095	41188526	2	6335											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	216405369	216405369	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcccagcaatggaagcatcTtggcaaacacactgaccagt	13	7	9	12	0	1	1	0	1	1	0	1	2	1	2	2	2	4	3	2	2	3	1	rs138484134	by1000genomes	TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	216405369	T	C	216405369	2	2	113	1	0	0	0	0	0	0	0	1	17035	1606	56	3		3	USH2A	1	216405369	Silent	SNP	T	TCGA-B0-5081-01A-01D-1462-08	8343274	216405369	32845252	3	6336											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179395676	179395676	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcacagccttttcagttacCctggccttttgaatagtcag	8	14	8	11	0	3	1	3	1	0	0	3	1	3	1	3	1	2	1	3	1	3	6	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	179395676	C	T	179395676	2	4	113	1	0	0	0	0	0	0	0	1	16734	622	22	2		2	TTN	2	179395676	Silent	SNP	C	TCGA-B0-5081-01A-01D-1462-08		179395676	63803697	4	6337											
AQP12A	375318	broad.mit.edu;hgsc.bcm.edu	37	chr2	241631447	241631447	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctatgaagtcttcgcccgGgaggcggtgggtgcgggtgc	4	8	19	10	4	1	1	0	1	1	0	2	2	1	2	2	5	2	0	2	5	2	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	241631447	G	C	241631447	2	2	113	1	0	0	0	0	0	0	0	1	824	1219	43	4		4	AQP12A	2	241631447	Silent	SNP	G	TCGA-B0-5081-01A-01D-1462-08	62235771	241631447	1567926	5	6338											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191513	10191513	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccaggttgtccggagccTagtcaagcctgagaattaca	10	9	10	12	1	1	1	1	1	0	1	3	3	3	2	5	2	3	1	5	2	4	3	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	10191513	T	C	10191513	3	2	113	1	0	0	0	0	1	0	0	0	17161	1522	53	3	516	3	VHL	3	10191513	Missense_Mutation	SNP	T	TCGA-B0-5081-01A-01D-1462-08		10191513	187830917	6	6339											
UBE2E2	7325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	23541185	23541185	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatgaaggaggggtgttctTtcttgacattaccttttcac	8	16	9	8	0	3	2	1	2	2	0	3	3	3	3	1	3	1	1	1	3	3	7	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	23541185	T	C	23541185	3	2	113	1	0	0	0	0	1	0	0	0	16852	1841	64	3	324	3	UBE2E2	3	23541185	Missense_Mutation	SNP	T	TCGA-B0-5081-01A-01D-1462-08	13349672	23541185	174481245	7	6340											
SUSD5	26032	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33194429	33194429	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaggccaggacatccGtcccccacacacgactccaa	10	5	8	18	2	0	1	0	1	0	0	3	3	3	2	5	2	1	1	5	2	1	0	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	33194429	G	T	33194429	3	4	113	1	0	0	0	0	1	0	0	0	15410	1136	40	4	198	4	SUSD5	3	33194429	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	9653244	33194429	164828001	8	6341											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu	37	chr3	47163945	47163945	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatccaagtctttttctttGcacctactaatattctgaaa	11	17	3	10	0	4	1	1	1	3	0	5	1	5	1	2	0	2	1	2	0	5	7	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	47163945	G	T	47163945	4	4	113	1	0	0	0	0	0	1	0	0	14133	1311	46	4	5589	4	SETD2	3	47163945	Nonsense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	13969516	47163945	150858485	9	6342											
CCDC51	79714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48475152	48475152	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgagagtagccagttccaAgtactgactgtcctccctgg	8	10	10	13	1	0	2	0	1	0	1	4	3	3	2	4	1	2	3	4	1	3	3	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		G	48475152	A	G	48475152	2	3	113	1	0	0	0	0	0	0	0	1	2821	69	3	3		3	CCDC51	3	48475152	Silent	SNP	A	TCGA-B0-5081-01A-01D-1462-08	1311207	48475152	149547278	10	6343											
CCDC80	151887	broad.mit.edu;ucsc.edu	37	chr3	112357811	112357811	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggacttgtgctctccttggGtcctctttcttcttctcgct	1	18	9	13	1	5	0	0	0	5	0	8	1	6	1	2	2	1	2	2	2	0	5	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	112357811	C	C	112357811	3	2	113	1	0	0	0	0	1	0	0	0	2854	1252	44	4	1938	4	CCDC80	3	112357811	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	63882659	112357811	85664619	11	6344											
COL6A6	131873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130300741	130300741	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagaataaatcagctgctcGaggaaaggtaacatggattt	15	10	10	6	1	2	1	2	0	0	1	3	4	2	3	0	3	3	3	0	3	5	3	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	130300741	G	A	130300741	3	1	113	1	0	0	0	0	1	0	0	0	3703	1058	37	1	3914	1	COL6A6	3	130300741	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	17942930	130300741	67721689	12	6345											
PYDC2	152138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	191178998	191178998	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctgcaggctcttctggAgcagctcagccaggatgagt	9	8	12	12	0	3	1	1	1	2	0	3	3	3	3	2	3	5	4	2	3	1	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		G	191178998	A	G	191178998	3	3	113	1	0	0	0	0	1	0	0	0	12861	304	11	3	49	3	PYDC2	3	191178998	Missense_Mutation	SNP	A	TCGA-B0-5081-01A-01D-1462-08	60878257	191178998	6843432	13	6346											
POLN	353497	broad.mit.edu	37	chr4	2073957	2073957	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acatgggcctggcggagggcCccaggcctcctgcagtggca	6	5	16	14	1	0	0	0	0	0	0	1	1	1	1	5	6	1	2	5	6	0	0	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	2073957	A	A	2073957	3	1	113	1	0	0	0	0	1	0	0	0	12207	623	22	4	119	4	POLN	4	2073957	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08		2073957	189080319	14	6347											
C4orf41	0	broad.mit.edu;ucsc.edu	37	chr4	184600619	184600619	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagctgtcttttgagcaTgatgcatggatgtctaaaca	11	12	11	7	0	2	3	0	2	2	1	2	4	2	4	0	1	4	4	0	1	2	3	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	184600619	C	C	184600619	2	2	113	1	0	0	0	0	0	0	0	1	2270	1461	51	3		3	C4orf41	4	184600619	Silent	SNP	T	TCGA-B0-5081-01A-01D-1462-08	182526662	184600619	6553657	15	6348											
IRX2	153572	broad.mit.edu	37	chr5	2748714	2748714	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgaggcagggtagggcgAgcctcctggcggtgccccgg	4	4	20	13	5	0	0	0	0	0	0	1	2	1	0	4	7	2	2	4	7	1	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	2748714	T	T	2748714	3	4	113	1	0	0	0	0	1	0	0	0	7844	304	11	5	315	5	IRX2	5	2748714	Missense_Mutation	SNP	A	TCGA-B0-5081-01A-01D-1462-08		2748714	178166546	16	6349											
PELO	53918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	52096856	52096856	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgcatcctggtggccagcCcaggatttgtgagggagcag	8	8	16	9	0	0	1	0	1	0	0	1	3	1	3	3	4	3	2	3	4	0	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		G	52096856	C	G	52096856	3	3	113	1	0	0	0	0	1	0	0	0	11724	623	22	4	630	4	PELO	5	52096856	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	49348142	52096856	128818404	17	6350											
IL6ST	3572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55247810	55247810	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagtataatttctgataaatCcattctgaacatcaacagga	16	13	5	7	0	3	2	1	2	2	0	4	3	4	3	1	1	2	1	1	1	7	6	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	55247810	C	A	55247810	3	1	113	1	0	0	0	0	1	0	0	0	7703	855	30	4	1130	4	IL6ST	5	55247810	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	3150954	55247810	125667450	18	6351											
TTC37	9652	broad.mit.edu;hgsc.bcm.edu	37	chr5	94803695	94803695	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagacgccgtgtctctcTggaaaaaaaaaatttacatt	17	10	6	8	2	2	1	0	0	2	1	3	2	2	2	1	1	1	0	1	1	8	3	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	94803695	T	C	94803695	5	2	113	1	0	0	0	0	0	0	1	0	16704	1594	55	3	207	3	TTC37	5	94803695	Splice_Site	SNP	T	TCGA-B0-5081-01A-01D-1462-08	39555885	94803695	86111565	19	6352											
KLHL3	26249	broad.mit.edu;ucsc.edu	37	chr5	136974757	136974757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccactggtccttcacgccGtcatacacatccactgtccg	7	10	7	17	3	2	0	2	0	0	0	6	0	6	0	5	1	1	0	5	1	1	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	136974757	A	A	136974757	2	1	113	1	0	0	0	0	0	0	0	1	8383	1136	40	1		1	KLHL3	5	136974757	Silent	SNP	G	TCGA-B0-5081-01A-01D-1462-08	42171062	136974757	43940503	20	6353											
SENP6	26054	hgsc.bcm.edu	37	chr6	76369015	76369015	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagaagagtccgaatcacaAgtggagcctgaaattaagag	17	6	11	7	1	1	4	1	1	0	3	2	6	2	5	2	1	1	0	2	1	5	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	76369015	A	T	76369015	3	4	113	1	0	0	0	0	1	0	0	0	14052	69	3	5	618	5	SENP6	6	76369015	Missense_Mutation	SNP	A	TCGA-B0-5081-01A-01D-1462-08		76369015	94746052	21	6354											
CCR6	1235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	167550763	167550763	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctcaggcttctcctgtGccgggaggtactcagaaaac	9	9	11	12	1	3	1	2	0	1	1	5	2	4	2	3	3	3	2	3	3	3	2	rs113115632	alternate_allele	TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	167550763	G	A	167550763	3	1	113	1	0	0	0	0	1	0	0	0	2945	1319	46	2	1051	2	CCR6	6	167550763	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	91181748	167550763	3564304	22	6355											
CARD11	84433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	2953040	2953040	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctcgcagtagaaggcgCgtaccaggctgtaggggatg	8	6	18	9	4	0	1	0	0	0	1	1	2	0	2	1	5	1	6	1	5	4	3	rs141751925	by1000genomes;alternate_allele	TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		G	2953040	C	G	2953040	3	3	113	1	0	0	0	0	1	0	0	0	2645	768	27	4	580	4	CARD11	7	2953040	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08		2953040	156185623	23	6356											
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101824283	101824283	+	Missense_Mutation	SNP	C	C	A																															tcagcaacatggatgacatgCtgcagaaagcgcatttggtt																								novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	101824283	C	A	101824283	3	1	113	1	0	0	0	0	1	0	0	0	3672	796	28	4	3579	4	COL15A1	9	101824283	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08		101824283	39389148	24	6357	77	2									
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101824284	101824284	+	Missense_Mutation	SNP	T	T	A																															cagcaacatggatgacatgcTgcagaaagcgcatttggtta																								novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	101824284	T	A	101824284	3	1	113	1	0	0	0	0	1	0	0	0	3672	1580	55	5	3580	5	COL15A1	9	101824284	Missense_Mutation	SNP	T	TCGA-B0-5081-01A-01D-1462-08	1	101824284	39389147	25	6358	77	2									
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113265449	113265449	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataacatttcccttgtagaaCagctgatgtggccatgtttc	10	14	8	9	0	0	2	0	1	0	1	2	2	1	2	2	1	3	3	2	1	3	5	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	113265449	C	A	113265449	3	1	113	1	0	0	0	0	1	0	0	0	15419	478	17	4	9535	4	SVEP1	9	113265449	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	11441165	113265449	27947982	26	6359											
CACNA1B	774	broad.mit.edu;hgsc.bcm.edu	37	chr9	141015984	141015984	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctagcacccccggccgcGgtgggcggaggcagctcccc	4	4	16	17	4	0	0	0	0	0	0	1	1	1	1	5	5	3	4	5	5	1	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	141015984	G	A	141015984	3	1	113	1	0	0	0	0	1	0	0	0	2539	1116	39	1	6735	1	CACNA1B	9	141015984	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	27750535	141015984	197447	27	6360											
KIAA1462	57608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	30316404	30316404	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacatcctcggctgtggCtcaaccctcatttccgggct	6	10	8	17	2	2	0	2	0	0	0	5	0	4	0	4	3	1	3	4	3	1	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	30316404	C	A	30316404	3	1	113	1	0	0	0	0	1	0	0	0	8234	796	28	4	1414	4	KIAA1462	10	30316404	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08		30316404	105218343	28	6361											
USP47	55031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	11964635	11964635	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaaccttatgctgcagatGaaggttctggggaaggacat	11	10	13	7	0	1	3	0	2	1	1	1	5	1	5	1	4	3	3	1	4	4	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	11964635	G	A	11964635	3	1	113	1	0	0	0	0	1	0	0	0	17077	1291	45	2	2937	2	USP47	11	11964635	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08		11964635	123041881	29	6362											
OR8J3	81168	broad.mit.edu	37	chr11	55904779	55904779	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccagcaggaggcagagcCgccgagacaccaccaccatg	13	1	11	16	2	0	2	0	0	0	2	0	4	0	3	6	2	2	2	6	2	0	0	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	55904779	A	A	55904779	3	1	113	1	0	0	0	0	1	0	0	0	11242	652	23	4	533	4	OR8J3	11	55904779	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	43940144	55904779	79101737	30	6363											
MRGPRD	116512	broad.mit.edu	37	chr11	68748065	68748065	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggtgacacttgaaccagaTagggaagaggacagagagac	15	4	14	8	1	0	6	0	2	0	4	0	9	0	8	2	3	1	0	2	3	3	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	68748065	C	C	68748065	3	2	113	1	0	0	0	0	1	0	0	0	9763	1406	49	3	577	3	MRGPRD	11	68748065	Missense_Mutation	SNP	T	TCGA-B0-5081-01A-01D-1462-08	12843286	68748065	66258451	31	6364											
OR8B8	26493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124310503	124310503	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacccatcatgcacgctGtgtgggccatggccccagca	8	7	10	16	1	2	0	2	0	0	0	2	0	2	0	4	2	2	3	4	2	0	0	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	124310503	G	T	124310503	3	4	113	1	0	0	0	0	1	0	0	0	11230	1377	48	4	459	4	OR8B8	11	124310503	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08	55562438	124310503	10696013	32	6365											
CSAD	51380	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53566220	53566220	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttgaagaaccgagggtgaCctggagaaggagagtaagcc	13	5	17	6	1	0	5	0	2	0	3	0	8	0	5	3	4	2	2	3	4	4	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	53566220	C	T	53566220	3	4	113	1	0	0	0	0	1	0	0	0	3925	521	18	2	1275	2	CSAD	12	53566220	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08		53566220	80285675	33	6366											
MMAB	326625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110006594	110006594	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccaatagctgaacttaattCatctgtagttcccacggctt	10	13	6	12	1	2	1	1	1	1	0	3	1	3	1	2	1	2	4	2	1	5	6	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	110006594	C	T	110006594	3	4	113	1	0	0	0	0	1	0	0	0	9640	835	29	2	509	2	MMAB	12	110006594	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	56440374	110006594	23845301	34	6367											
NIPA1	123606	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	23048907	23048907	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aacacctgtataaggacaatCcccacggagacggtcgtgaa	14	6	10	11	3	0	2	0	1	0	1	2	4	1	3	3	3	1	1	3	3	5	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		G	23048907	C	G	23048907	2	3	113	1	0	0	0	0	0	0	0	1	10422	842	30	4		4	NIPA1	15	23048907	Silent	SNP	C	TCGA-B0-5081-01A-01D-1462-08		23048907	79482485	35	6368											
PLA2G4E	123745	hgsc.bcm.edu	37	chr15	42293414	42293414	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccaggcaggagacttgtCgagactgtaaaaaacaaagg	15	6	11	9	1	0	2	0	0	0	2	2	4	1	2	2	3	1	2	2	3	4	2	rs189961279	by1000genomes	TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	42293414	C	T	42293414	3	4	113	1	0	0	0	0	1	0	0	0	12005	884	31	1	2048	1	PLA2G4E	15	42293414	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	19244507	42293414	60237978	36	6369											
RHOT2	89941	broad.mit.edu	37	chr16	720686	720686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccacagttgaggcccgcGtgcgcccaggcgctgacgcg	5	5	14	17	6	0	2	0	2	0	0	1	2	1	2	4	2	1	2	4	2	0	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	720686	A	A	720686	2	1	113	1	0	0	0	0	0	0	0	1	13346	1132	40	1		1	RHOT2	16	720686	Silent	SNP	G	TCGA-B0-5081-01A-01D-1462-08		720686	89634067	37	6370											
NPW	283869	broad.mit.edu	37	chr16	2070178	2070178	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctcctctcctgctgccCtcgtgggttcaggagctgtg	3	11	14	13	1	2	0	1	0	1	0	5	2	3	1	3	3	3	4	3	3	0	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	2070178	A	A	2070178	2	1	113	1	0	0	0	0	0	0	0	1	10606	668	24	4		4	NPW	16	2070178	Silent	SNP	C	TCGA-B0-5081-01A-01D-1462-08	1349492	2070178	88284575	38	6371											
ZNF668	79759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31073518	31073518	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctgtgccgcgtggatgCgctggtggcacgtgagcgag	4	9	18	10	5	1	1	0	1	1	0	1	3	1	2	1	3	3	3	1	3	0	1	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	31073518	C	T	31073518	3	4	113	1	0	0	0	0	1	0	0	0	18074	768	27	1	1132	1	ZNF668	16	31073518	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	29003340	31073518	59281235	39	6372											
EDC4	23644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67909957	67909957	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacctcagcaaacaagacTggtcttcggaccatgccacc	12	7	8	14	1	2	1	1	0	1	1	3	2	2	2	4	2	4	2	4	2	3	2	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	67909957	T	A	67909957	2	1	113	1	0	0	0	0	0	0	0	1	4908	1567	55	5		5	EDC4	16	67909957	Silent	SNP	T	TCGA-B0-5081-01A-01D-1462-08	36836439	67909957	22444796	40	6373											
POLR2A	5430	hgsc.bcm.edu	37	chr17	7416613	7416613	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactcgcccacctctcccaGctactcacccacttccccta	7	9	2	23	1	2	0	1	0	1	0	5	0	3	0	6	0	3	1	6	0	3	4	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	7416613	G	A	7416613	3	1	113	1	0	0	0	0	1	0	0	0	12214	971	34	2	5144	2	POLR2A	17	7416613	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08		7416613	73778597	41	6374											
LLGL1	3996	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18137246	18137246	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgccccaggcgaggttctgCgcaggtaagaggccggtggg	6	7	18	10	3	1	1	0	0	1	1	1	2	1	1	3	6	2	3	3	6	1	3	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	18137246	C	T	18137246	3	4	113	1	0	0	0	0	1	0	0	0	8833	768	27	1	565	1	LLGL1	17	18137246	Missense_Mutation	SNP	C	TCGA-B0-5081-01A-01D-1462-08	10720633	18137246	63057964	42	6375											
C18orf34	0	broad.mit.edu;hgsc.bcm.edu	37	chr18	30795588	30795588	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcctcattcaattcattTatttttgcataaaaaatcat	15	18	1	7	0	4	0	4	0	0	0	5	0	5	0	1	0	1	1	1	0	6	8	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	30795588	T	A	30795588	2	1	113	1	0	0	0	0	0	0	0	1	1902	1744	61	5		5	C18orf34	18	30795588	Silent	SNP	T	TCGA-B0-5081-01A-01D-1462-08		30795588	47281660	43	6376											
IDH3B	3420	broad.mit.edu	37	chr20	2644813	2644813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcactcgggtcagccagcGgactccgctcaatgccgcca	7	6	10	18	4	3	0	3	0	0	0	5	1	4	1	5	2	3	1	5	2	1	0	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		A	2644813	A	A	2644813	3	1	113	1	0	0	0	0	1	0	0	0	7497	1116	39	1	1343	1	IDH3B	20	2644813	Missense_Mutation	SNP	G	TCGA-B0-5081-01A-01D-1462-08		2644813	60380707	44	6377											
ARSF	416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	2990179	2990179	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatggttgatgacctgggtAttggagatctgggctgctac	7	13	14	7	0	2	3	1	2	1	1	2	4	2	3	1	4	2	4	1	4	2	4	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	2990179	A	T	2990179	3	4	113	1	0	0	0	0	1	0	0	0	991	449	16	5	130	5	ARSF	23	2990179	Missense_Mutation	SNP	A	TCGA-B0-5081-01A-01D-1462-08		2990179	152280381	45	6378											
DMD	1756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	31187596	31187596	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatctgctaggattctctctAgctcccctctttcctcactc	5	15	5	16	0	5	0	1	0	4	0	9	2	7	1	3	1	2	2	3	1	2	4	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		T	31187596	A	T	31187596	3	4	113	1	0	0	0	0	1	0	0	0	4580	420	15	5	650	5	DMD	23	31187596	Missense_Mutation	SNP	A	TCGA-B0-5081-01A-01D-1462-08	28197417	31187596	124082964	46	6379											
NOX1	27035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	100117451	100117451	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtataccagaagacttcaaAataactcctccggatgaact	16	9	6	10	1	1	3	1	1	0	2	3	4	3	4	3	1	3	1	3	1	7	4	novel		TCGA-B0-5081-01A-01D-1462-08	TCGA-B0-5081-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	71a9d096-0e27-4585-b54a-48214d83cd6c	5d95ccc5-6f79-404a-b3a7-b726c7f56d30		C	100117451	A	C	100117451	3	2	113	1	0	0	0	0	1	0	0	0	10556	14	1	5	1125	5	NOX1	23	100117451	Missense_Mutation	SNP	A	TCGA-B0-5081-01A-01D-1462-08	68929855	100117451	55153109	47	6380											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10421772	10421772	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcattgcatccagccggCtgtcatcaccaaggatgtgt	9	10	11	11	1	3	0	3	0	0	0	4	2	4	2	3	3	2	2	3	3	1	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	10421772	C	T	10421772	3	4	114	1	0	0	0	0	1	0	0	0	8284	797	28	2	5690	2	KIF1B	1	10421772	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08		10421772	238828849	1	6381											
RNF186	54546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20141319	20141319	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcagatgaggcccccGgggacggcggtgaccttgcg	6	5	18	12	4	0	3	0	2	0	1	0	4	0	4	3	6	2	2	3	6	0	1	rs138663359	alternate_allele	TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	20141319	G	C	20141319	2	2	114	1	0	0	0	0	0	0	0	1	13471	1103	39	4		4	RNF186	1	20141319	Silent	SNP	G	TCGA-B0-5085-01A-01D-1462-08	9719547	20141319	229109302	2	6382											
PTPRU	10076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	29611375	29611375	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccatcattgtcatcatccGcaaagggtgagtgaggccgg	9	9	13	10	2	3	2	3	2	0	0	4	2	4	2	3	3	1	1	3	3	1	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	29611375	G	T	29611375	3	4	114	1	0	0	0	0	1	0	0	0	12815	1087	38	4	2366	4	PTPRU	1	29611375	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	9470056	29611375	219639246	3	6383											
FNDC4	64838	broad.mit.edu;hgsc.bcm.edu	37	chr2	27716993	27716993	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacacgctgcccggggccAttctgccgctgcagggagat	7	7	13	14	3	2	1	1	0	1	1	2	2	2	1	3	3	3	3	3	3	0	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	27716993	A	G	27716993	2	3	114	1	0	0	0	0	0	0	0	1	5971	214	8	3		3	FNDC4	2	27716993	Silent	SNP	A	TCGA-B0-5085-01A-01D-1462-08		27716993	215482380	4	6384											
MCEE	84693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71351338	71351338	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaataattaaaatacctCgatgcagatgtgatgcattc	16	13	6	6	1	0	2	0	1	0	1	2	3	0	2	1	0	3	2	1	0	6	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	71351338	C	A	71351338	4	1	114	1	0	0	0	0	0	1	0	0	9377	893	31	4	162	4	MCEE	2	71351338	Nonsense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	43634345	71351338	171848035	5	6385											
CDCA7	83879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	174223477	174223477	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagaacttaaagaaatTcagatatgtgaagttgattt	19	12	8	2	0	1	6	1	2	0	4	1	6	1	6	0	0	1	1	0	0	8	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	174223477	T	A	174223477	3	1	114	1	0	0	0	0	1	0	0	0	3090	1783	62	5	65	5	CDCA7	2	174223477	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	102872139	174223477	68975896	6	6386											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179435668	179435668	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagttacttcaaaatgaGtgtcaataatatttgtaaaa	16	13	7	5	0	2	1	2	1	0	0	2	1	2	1	1	1	1	2	1	1	8	6	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	179435668	G	C	179435668	3	2	114	1	0	0	0	0	1	0	0	0	16734	1029	36	4	32936	4	TTN	2	179435668	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	5212191	179435668	63763705	7	6387											
BZW1	9689	broad.mit.edu	37	chr2	201684787	201684787	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagattcaggagtattgctAtgacaacattcatttcatga	14	13	8	6	0	3	3	3	2	0	1	3	5	3	4	0	1	2	2	0	1	4	6	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	201684787	C	C	201684787	3	2	114	1	0	0	0	0	1	0	0	0	1578	464	16	5		5	BZW1	2	201684787	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	22249119	201684787	41514586	8	6388											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10183745	10183746	+	Frame_Shift_Ins	INS	-	CC	CC																															ggtgaactcgcgcgagccctINScccaggtcatcttctgcaat																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	-	-	-	CC	-	-	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		CC	10183746	CC	CC	10183745	7	5	114	1	0	1	1	0	0	0	0	0	17161	1551	54	0	216	0	VHL	3	10183745	Frame_Shift_Ins	INS	-	TCGA-B0-5085-01A-01D-1462-08		10183745	187838685	9	6389											
LAMB2	3913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49169156	49169156	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggcagcagggcgaaatgTctgggtaggggggcatagct	9	7	18	7	1	1	0	0	0	1	0	1	1	1	0	0	6	2	5	0	6	3	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	49169156	T	A	49169156	3	1	114	1	0	0	0	0	1	0	0	0	8611	1681	58	5	5048	5	LAMB2	3	49169156	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	38985411	49169156	148853274	10	6390											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643828	52643828	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagtcaggcaactcagatcTagagggaagcctcagaaata	15	7	11	8	0	4	3	3	0	1	3	4	4	4	4	1	2	2	2	1	2	6	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	52643828	T	A	52643828	4	1	114	1	0	0	0	0	0	1	0	0	11491	1530	53	5	2892	5	PBRM1	3	52643828	Nonsense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	3474672	52643828	145378602	11	6391											
ACTR8	93973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53908276	53908276	+	Silent	SNP	G	G	A																															agtttctttaaggtgttgcaGaagaagacaatccattttat																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	53908276	G	A	53908276	2	1	114	1	0	0	0	0	0	0	0	1	217	933	33	2		2	ACTR8	3	53908276	Silent	SNP	G	TCGA-B0-5085-01A-01D-1462-08	1264448	53908276	144114154	12	6392	78	2									
ACTR8	93973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53908279	53908279	+	Missense_Mutation	SNP	G	G	A																															ttctttaaggtgttgcagaaGaagacaatccattttatttg																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	53908279	G	A	53908279	3	1	114	1	0	0	0	0	1	0	0	0	217	942	33	2	874	2	ACTR8	3	53908279	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	3	53908279	144114151	13	6393	78	2									
RAB7A	7879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128516883	128516883	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttctgaccaaggaggtgAtggtggatgacaggctagtc	10	10	14	7	0	1	3	0	3	1	0	2	5	1	5	1	5	0	1	1	5	2	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	128516883	A	T	128516883	3	4	114	1	0	0	0	0	1	0	0	0	12956	333	12	5	157	5	RAB7A	3	128516883	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	74608604	128516883	69505547	14	6394											
ACPL2	92370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141011820	141011820	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagccaggttgatctttGagctttggcaagacagagaa	11	11	12	7	0	1	4	0	2	1	2	1	5	1	4	1	2	3	4	1	2	2	4	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	141011820	G	T	141011820	4	4	114	1	0	0	0	0	0	1	0	0	166	1291	45	4	1234	4	ACPL2	3	141011820	Nonsense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	12494937	141011820	57010610	15	6395											
TIPARP	25976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	156421359	156421359	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcaggacttcatccaagTccctgtttctgcagaggata	10	12	8	11	0	3	1	2	0	2	1	6	3	5	3	2	2	1	2	2	2	2	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	156421359	T	A	156421359	3	1	114	1	0	0	0	0	1	0	0	0	15923	1667	58	5	1408	5	TIPARP	3	156421359	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	15409539	156421359	41601071	16	6396											
NMD3	51068	hgsc.bcm.edu;ucsc.edu	37	chr3	160945064	160945064	+	Frame_Shift_Del	DEL	A	A	-																															accaccaggaacttggatacAgtgtgctttagaatccaggg																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		-	160945064	A	-	160945064	7	5	114	1	0	1	0	1	0	0	0	0	10488	188	7	0	219	0	NMD3	3	160945064	Frame_Shift_Del	DEL	A	TCGA-B0-5085-01A-01D-1462-08	4523705	160945064	37077366	17	6397											
IL6ST	3572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55259325	55259325	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgataaattatgtggcggaTtgggcttcactgaaaaataa	14	12	10	5	1	1	2	1	2	0	0	1	3	1	3	0	3	0	1	0	3	6	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	55259325	T	C	55259325	3	2	114	1	0	0	0	0	1	0	0	0	7703	1493	52	3	2132	3	IL6ST	5	55259325	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08		55259325	125655935	18	6398											
MAST4	375449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66448561	66448561	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttcctctcccagccgagattCctcagcagcttctgccagtc	6	11	7	17	1	3	1	1	0	2	1	7	2	5	1	5	0	4	2	5	0	0	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	66448561	C	G	66448561	3	3	114	1	0	0	0	0	1	0	0	0	9327	855	30	4	3620	4	MAST4	5	66448561	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	11189236	66448561	114466699	19	6399											
CD180	4064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66479404	66479404	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaatgccaaatcgaggagttCtagctgaggacattctttga	13	11	10	7	1	2	2	0	2	2	0	3	5	2	4	1	2	2	2	1	2	3	4	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	66479404	C	T	66479404	3	4	114	1	0	0	0	0	1	0	0	0	2972	922	32	2	722	2	CD180	5	66479404	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	30843	66479404	114435856	20	6400											
PCDHB7	56129	broad.mit.edu;hgsc.bcm.edu	37	chr5	140553926	140553926	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgcccctcgcctccctgGtctccatcaacgcggacaac	7	7	7	20	3	2	0	1	0	1	0	5	1	3	1	6	2	3	0	6	2	2	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	140553926	G	A	140553926	3	1	114	1	0	0	0	0	1	0	0	0	11547	1261	44	2	1512	2	PCDHB7	5	140553926	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	74074522	140553926	40361334	21	6401											
TCERG1	10915	broad.mit.edu	37	chr5	145878250	145878250	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgaagaccagaggtgagaagGtaagatggttttagttccag	13	9	14	5	1	0	4	0	1	0	4	1	6	1	4	2	3	0	3	2	3	4	4	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	145878250	A	A	145878250	5	1	114	1	0	0	0	0	0	0	1	0	15684	1275	44	2	2445	2	TCERG1	5	145878250	Splice_Site	SNP	G	TCGA-B0-5085-01A-01D-1462-08	5324324	145878250	35037010	22	6402											
SLC6A7	6534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149583511	149583511	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgacagctgtgacagatgaGttcccatactacctgcggcc	9	9	11	12	1	0	4	0	3	0	1	1	4	1	4	3	1	4	2	3	1	2	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	149583511	G	C	149583511	3	2	114	1	0	0	0	0	1	0	0	0	14691	1020	36	4	1280	4	SLC6A7	5	149583511	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	3705261	149583511	31331749	23	6403											
GABRG2	2566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	161520982	161520982	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataaacttcggcctgatataGgaggtttgttaaagtctttt	11	16	9	5	1	1	1	0	1	1	0	2	2	1	2	1	3	1	2	1	3	6	8	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	161520982	G	T	161520982	4	4	114	1	0	0	0	0	0	1	0	0	6172	1001	35	4	262	4	GABRG2	5	161520982	Nonsense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	11937471	161520982	19394278	24	6404											
SH3PXD2B	285590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	171789871	171789871	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccactgaggtttggtcacCccctgtggataggaaacaga	10	9	12	10	0	1	2	1	1	0	1	2	4	2	4	3	4	1	1	3	4	2	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	171789871	C	T	171789871	3	4	114	1	0	0	0	0	1	0	0	0	14259	623	22	2	2333	2	SH3PXD2B	5	171789871	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	10268889	171789871	9125389	25	6405											
JARID2	3720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	15496611	15496611	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaaagtagcaatgcaaaAacccgcaaacaggtgctatc	17	6	8	10	1	0	1	0	1	0	0	1	1	0	1	1	1	5	5	1	1	7	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	15496611	A	T	15496611	3	4	114	1	0	0	0	0	1	0	0	0	7945	11	1	5	1181	5	JARID2	6	15496611	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08		15496611	155618456	26	6406											
AARS2	57505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44270802	44270802	+	Splice_Site	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacaaaggagtgactcaCgtcccacagcatagctccac	13	5	8	15	1	1	1	1	1	0	0	3	2	3	2	2	1	3	3	2	1	2	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	44270802	C	A	44270802	5	1	114	1	0	0	0	0	0	0	1	0	20	550	19	4	729	4	AARS2	6	44270802	Splice_Site	SNP	C	TCGA-B0-5085-01A-01D-1462-08	28774191	44270802	126844265	27	6407											
ROS1	6098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117681074	117681074	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaaacggcactgataacTctttctgctgaaaacgtcca	13	10	7	11	2	2	2	0	2	2	0	3	2	3	2	1	1	5	3	1	1	5	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	117681074	T	C	117681074	2	2	114	1	0	0	0	0	0	0	0	1	13533	1548	54	3		3	ROS1	6	117681074	Silent	SNP	T	TCGA-B0-5085-01A-01D-1462-08	73410272	117681074	53433993	28	6408											
THBS2	7058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	169648851	169648851	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggacttgccgtcctgcttGagctgggccgtgaggaagaa	7	9	15	10	2	0	3	0	2	0	1	1	5	1	5	3	3	3	2	3	3	2	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	169648851	G	C	169648851	2	2	114	1	0	0	0	0	0	0	0	1	15853	1277	45	4		4	THBS2	6	169648851	Silent	SNP	G	TCGA-B0-5085-01A-01D-1462-08	51967777	169648851	1466216	29	6409											
GNAI1	2770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	79764504	79764504	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgctgagcgccgaggacAaggcggcggtggagcggagt	8	3	20	10	6	0	1	0	1	0	0	0	5	0	4	1	6	2	2	1	6	1	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	79764504	A	T	79764504	4	4	114	1	0	0	0	0	0	1	0	0	6504	131	5	5	30	5	GNAI1	7	79764504	Nonsense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08		79764504	79374159	30	6410											
RBM28	55131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127975595	127975595	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttatgaaaatccaaacaaAcctttatcctcttgctcctc	13	14	2	12	0	1	1	0	1	1	0	5	1	4	1	4	0	3	1	4	0	6	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	127975595	A	C	127975595	5	2	114	1	0	0	0	0	0	0	1	0	13130	57	2	5	1379	5	RBM28	7	127975595	Splice_Site	SNP	A	TCGA-B0-5085-01A-01D-1462-08	48211091	127975595	31163068	31	6411											
SLC4A2	6522	hgsc.bcm.edu;ucsc.edu	37	chr7	150771368	150771369	+	Frame_Shift_Ins	INS	-	-	T																															aattcaagaacagccggttcINStttcctggccgggtgcgtgg																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	150771369	-	T	150771368	7	5	114	1	0	1	1	0	0	0	0	0	14656	912	32	0	2840	0	SLC4A2	7	150771368	Frame_Shift_Ins	INS	-	TCGA-B0-5085-01A-01D-1462-08	22795773	150771368	8367295	32	6412											
CLN8	2055	broad.mit.edu;ucsc.edu	37	chr8	1728427	1728427	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgcaggcgggctggtcCgagtctctgttttggaagct	5	12	14	10	2	1	0	0	0	1	0	4	2	3	1	2	4	2	4	2	4	1	2	rs145929862	alternate_allele	TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	1728427	G	G	1728427	2	3	114	1	0	0	0	0	0	0	0	1	3546	639	23	4		4	CLN8	8	1728427	Silent	SNP	C	TCGA-B0-5085-01A-01D-1462-08		1728427	144635595	33	6413											
TACC1	6867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38677391	38677391	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctcgaggcctccgcagAagctgatctaaaagctggca	11	6	10	14	2	1	2	0	1	1	1	3	3	2	2	3	2	2	4	3	2	3	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	38677391	A	C	38677391	3	2	114	1	0	0	0	0	1	0	0	0	15500	246	9	5	639	5	TACC1	8	38677391	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	36948964	38677391	107686631	34	6414											
HNF4G	3174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	76456146	76456146	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaaaacactatggggcAtccagctgtgatgggtgcaa	13	7	13	8	0	0	1	0	1	0	0	1	2	1	2	1	4	3	3	1	4	4	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	76456146	A	G	76456146	2	3	114	1	0	0	0	0	0	0	0	1	7254	204	8	3		3	HNF4G	8	76456146	Silent	SNP	A	TCGA-B0-5085-01A-01D-1462-08	37778755	76456146	69907876	35	6415											
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	77617698	77617698	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acgttttacacccaaacgggGagtgccctgtcaaaagtgaa	13	8	10	10	2	1	1	1	1	0	0	1	2	1	2	2	2	3	1	2	2	5	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	77617698	G	A	77617698	3	1	114	1	0	0	0	0	1	0	0	0	17634	1175	41	2	1377	2	ZFHX4	8	77617698	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	1161552	77617698	68746324	36	6416											
GRINA	2907	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145066243	145066243	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccctggaaccttgttgcActggtaacccccaaacctga	10	8	7	16	0	0	1	0	1	0	0	0	2	0	2	6	2	4	3	6	2	3	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	145066243	A	T	145066243	2	4	114	1	0	0	0	0	0	0	0	1	6785	146	6	5		5	GRINA	8	145066243	Silent	SNP	A	TCGA-B0-5085-01A-01D-1462-08	67448545	145066243	1297779	37	6417											
GRHPR	9380	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	37424868	37424868	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggagcagtgggactcggAtgagcccatccctgccaagg	8	6	16	11	1	0	1	0	1	0	0	2	4	1	4	3	5	3	1	3	5	1	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	37424868	A	G	37424868	3	3	114	1	0	0	0	0	1	0	0	0	6766	333	12	3	116	3	GRHPR	9	37424868	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08		37424868	103788563	38	6418											
PNPLA7	375775	broad.mit.edu;ucsc.edu	37	chr9	140379177	140379178	+	Frame_Shift_Ins	INS	-	A	A																															ctgccctccgtggggagcccINSaagctggtggcctgtggagc																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	140379178	A	A	140379177	7	5	114	1	0	1	1	0	0	0	0	0	12170	594	21	0	1879	0	PNPLA7	9	140379177	Frame_Shift_Ins	INS	-	TCGA-B0-5085-01A-01D-1462-08	102954309	140379177	834254	39	6419											
PRKG1	5592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	53667290	53667290	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacattccagagccttcCtgaagagatcctcagcaagc	12	8	7	14	0	1	3	1	1	0	2	5	4	5	3	5	0	4	1	5	0	3	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	53667290	C	T	53667290	3	4	114	1	0	0	0	0	1	0	0	0	12524	681	24	2	1010	2	PRKG1	10	53667290	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08		53667290	81867457	40	6420											
RUFY2	55680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70141061	70141061	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcgaaggcctatcagagtAtcttgtttctcatggatatc	9	15	9	8	1	3	1	2	0	2	1	6	3	3	2	1	2	0	2	1	2	4	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	70141061	A	G	70141061	2	3	114	1	0	0	0	0	0	0	0	1	13741	446	16	3		3	RUFY2	10	70141061	Silent	SNP	A	TCGA-B0-5085-01A-01D-1462-08	16473771	70141061	65393686	41	6421											
PSTK	118672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	124742525	124742525	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgagatatgaagtctacCagctggctcggaaatgtaat	13	11	11	6	1	1	2	0	2	1	1	2	4	1	3	1	2	2	4	1	2	6	4	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	124742525	C	T	124742525	4	4	114	1	0	0	0	0	0	1	0	0	12722	595	21	2	499	2	PSTK	10	124742525	Nonsense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	54601464	124742525	10792222	42	6422											
OR52J3	119679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5068545	5068545	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttctctttccttactcatCgatttggacaccaaatacca	10	15	3	13	1	3	0	1	0	2	0	6	2	4	1	3	1	2	0	3	1	3	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	5068545	C	T	5068545	4	4	114	1	0	0	0	0	0	1	0	0	11122	876	31	1	792	1	OR52J3	11	5068545	Nonsense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08		5068545	129937971	43	6423											
RPS13	6207	broad.mit.edu;hgsc.bcm.edu	37	chr11	17098784	17098784	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacgtcgtcagatgtcaActtcaaccactgttatggaa	11	12	7	11	2	4	1	4	0	0	1	5	2	4	2	1	1	2	1	1	1	4	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	17098784	A	C	17098784	3	2	114	1	0	0	0	0	1	0	0	0	13625	40	2	5	389	5	RPS13	11	17098784	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	12030239	17098784	117907732	44	6424											
KCNC1	3746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17793895	17793895	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcatgctggtgggggcTctgtgtgcgctggcgggcgt	1	10	20	10	4	1	0	0	0	1	0	2	0	2	0	1	6	2	4	1	6	0	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	17793895	T	C	17793895	2	2	114	1	0	0	0	0	0	0	0	1	8014	1538	54	3		3	KCNC1	11	17793895	Silent	SNP	T	TCGA-B0-5085-01A-01D-1462-08	695111	17793895	117212621	45	6425											
VSIG2	23584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124619711	124619711	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcatctcagtgcagtagagCctcccacagaggtttgtcca	9	10	10	12	0	1	2	1	0	1	2	4	2	3	2	3	1	3	4	3	1	1	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	124619711	C	T	124619711	3	4	114	1	0	0	0	0	1	0	0	0	17223	739	26	2	520	2	VSIG2	11	124619711	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	106825816	124619711	10386805	46	6426											
LRRC23	10233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7023184	7023184	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacctgaggcccaggatCtgctctgtgccggtcctctg	6	9	11	15	1	3	1	0	1	3	0	4	2	4	2	4	3	3	1	4	3	1	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	7023184	C	A	7023184	2	1	114	1	0	0	0	0	0	0	0	1	8978	903	32	4		4	LRRC23	12	7023184	Silent	SNP	C	TCGA-B0-5085-01A-01D-1462-08		7023184	126828711	47	6427											
CLEC2D	29121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9822375	9822375	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagacattacaccatctgaAttgcctgcaaacccaggtaa	16	8	6	11	0	1	2	0	1	1	1	1	2	1	2	3	1	4	2	3	1	5	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	9822375	A	C	9822375	3	2	114	1	0	0	0	0	1	0	0	0	3508	98	4	5	47	5	CLEC2D	12	9822375	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	2799191	9822375	124029520	48	6428											
PRPF40B	25766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50037528	50037528	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaactaagaagagaagacAcaagtcggtgagtgaaggaa	20	4	13	4	1	0	5	0	2	0	3	1	8	0	6	0	2	1	0	0	2	8	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	50037528	A	G	50037528	3	3	114	1	0	0	0	0	1	0	0	0	12574	159	6	3	2462	3	PRPF40B	12	50037528	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	40215153	50037528	83814367	49	6429											
PITPNM2	57605	broad.mit.edu;ucsc.edu	37	chr12	123488978	123488978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatctgagctctcatcCgagtccctggcaatactctg	8	12	7	14	1	5	1	3	1	3	0	8	2	7	1	2	1	2	2	2	1	2	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	123488978	T	T	123488978	2	4	114	1	0	0	0	0	0	0	0	1	11951	639	23	1		1	PITPNM2	12	123488978	Silent	SNP	C	TCGA-B0-5085-01A-01D-1462-08	73451450	123488978	10362917	50	6430											
COL4A2	1284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	111102707	111102707	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcttcatcggagacccCggcatccctgcgctctacgg	7	7	12	15	4	2	1	1	0	1	1	4	2	3	1	3	4	2	3	3	4	2	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	111102707	C	A	111102707	2	1	114	1	0	0	0	0	0	0	0	1	3690	639	23	4		4	COL4A2	13	111102707	Silent	SNP	C	TCGA-B0-5085-01A-01D-1462-08		111102707	4067171	51	6431											
MKRN3	7681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	23811752	23811752	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtgggctgcagaccttgCaccccatggatgctgcccag	6	9	13	13	0	0	1	0	0	0	1	0	2	0	2	4	2	4	4	4	2	0	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	23811752	C	A	23811752	3	1	114	1	0	0	0	0	1	0	0	0	9608	710	25	4	825	4	MKRN3	15	23811752	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08		23811752	78719640	52	6432											
SPRED1	161742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	38616982	38616982	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatgccccgaatcaaaaaAtgaagctgaaggggcagatg	16	5	13	7	1	1	3	1	2	0	1	1	5	1	4	2	3	2	2	2	3	6	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	38616982	A	G	38616982	3	3	114	1	0	0	0	0	1	0	0	0	15093	101	4	3	409	3	SPRED1	15	38616982	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	14805230	38616982	63914410	53	6433											
PRM3	58531	hgsc.bcm.edu	37	chr16	11367390	11367401	+	In_Frame_Del	DEL	GCTGTGGCCTGG	GCTGTGGCCTGG	-																															tggccccggccatggcccgtGctgtggcctgggctgtggcc																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	GCTGTGGCCTGG	GCTGTGGCCTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		-	11367401	GCTGTGGCCTGG	-	11367390	7	5	114	1	0	1	0	1	0	0	0	0	12536	1310	46	0	249	0	PRM3	16	11367390	In_Frame_Del	DEL	GCTGTGGCCTGG	TCGA-B0-5085-01A-01D-1462-08		11367390	78987363	54	6434											
PAPD5	64282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50257298	50257298	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagatcctttacaaccaGgtattgaaattaggtaaatt	15	13	7	6	1	0	2	0	1	0	1	2	3	1	2	2	2	2	2	2	2	8	7	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	50257298	G	A	50257298	3	1	114	1	0	0	0	0	1	0	0	0	11425	1014	35	2	1366	2	PAPD5	16	50257298	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	38889908	50257298	40097455	55	6435											
VAC14	55697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	70816984	70816984	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccatctcagcaaactTcacactggaggggttcttct	8	12	10	11	0	4	0	2	0	3	0	5	1	4	1	1	4	2	3	1	4	1	4	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	70816984	T	C	70816984	3	2	114	1	0	0	0	0	1	0	0	0	17110	1792	62	3	1637	3	VAC14	16	70816984	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	20559686	70816984	19537769	56	6436											
MYO15A	51168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18049342	18049342	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaatcacaatgcccacaatGctgagcggggctggctgctg	10	7	12	12	1	1	1	1	1	0	0	1	1	1	1	1	3	4	4	1	3	3	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	18049342	G	A	18049342	3	1	114	1	0	0	0	0	1	0	0	0	10063	1319	46	2	6540	2	MYO15A	17	18049342	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08		18049342	63145868	57	6437											
BTBD17	388419	broad.mit.edu;hgsc.bcm.edu	37	chr17	72353257	72353257	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgggccgggttgttgatgaCccacggggcgccccaggcgg	4	5	19	13	5	0	2	0	2	0	0	0	2	0	2	4	6	0	2	4	6	0	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	72353257	C	T	72353257	3	4	114	1	0	0	0	0	1	0	0	0	1542	507	18	2	464	2	BTBD17	17	72353257	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	54303915	72353257	8841953	58	6438											
CDK3	1018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73998146	73998146	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggaagctctatctggtgTttgagttcctcagccaggac	9	11	12	9	0	3	2	1	1	2	1	4	4	4	4	2	3	2	3	2	3	2	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	73998146	T	A	73998146	3	1	114	1	0	0	0	0	1	0	0	0	3140	1725	60	5	248	5	CDK3	17	73998146	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	1644889	73998146	7197064	59	6439											
STARD6	147323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	51863590	51863590	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaatcagatagtttagctgGtgattctggaattatccctt	11	15	9	6	0	2	2	1	1	1	1	3	4	3	3	1	2	1	2	1	2	5	6	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	51863590	G	T	51863590	3	4	114	1	0	0	0	0	1	0	0	0	15262	1261	44	4	505	4	STARD6	18	51863590	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08		51863590	26213658	60	6440											
TMPRSS9	360200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2422196	2422196	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcaccactgctaggggacaGacgccatttccagacgcccc	10	5	10	16	2	0	2	0	0	0	2	1	3	1	3	5	2	2	2	5	2	1	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	2422196	G	A	2422196	2	1	114	1	0	0	0	0	0	0	0	1	16252	933	33	2		2	TMPRSS9	19	2422196	Silent	SNP	G	TCGA-B0-5085-01A-01D-1462-08		2422196	56706787	61	6441											
CRTC1	23373	broad.mit.edu;hgsc.bcm.edu	37	chr19	18886547	18886547	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggcggccatgatgggcCtcacgggcagccacgggagc	7	3	17	14	4	1	1	1	1	0	0	1	2	1	2	3	5	2	2	3	5	0	0	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	18886547	C	A	18886547	3	1	114	1	0	0	0	0	1	0	0	0	3899	681	24	4	1711	4	CRTC1	19	18886547	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	16464351	18886547	40242436	62	6442											
SPHK2	56848	broad.mit.edu;hgsc.bcm.edu	37	chr19	49129225	49129225	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctaaggccatggccccGcccccaccgccactggctgc	6	4	12	19	2	0	0	0	0	0	0	0	0	0	0	7	4	1	2	7	4	1	1	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	49129225	G	A	49129225	2	1	114	1	0	0	0	0	0	0	0	1	15048	1074	38	1		1	SPHK2	19	49129225	Silent	SNP	G	TCGA-B0-5085-01A-01D-1462-08	30242678	49129225	9999758	63	6443											
TGM3	7053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2312884	2312884	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacatgacagcctggaccAtcatctacaacggcacgctt	12	8	8	13	2	2	2	1	2	1	0	2	3	2	3	2	2	4	2	2	2	3	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	2312884	A	G	2312884	3	3	114	1	0	0	0	0	1	0	0	0	15830	217	8	3	1608	3	TGM3	20	2312884	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08		2312884	60712636	64	6444											
NFATC2	4773	broad.mit.edu;ucsc.edu	37	chr20	50092197	50092197	+	Frame_Shift_Del	DEL	G	-	-																															gttttccatgtagccatggaGctggtgggggagaaaacaaa																								novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		-	50092197	-	-	50092197	7	5	114	1	0	1	0	1	0	0	0	0	10362	985	34	0	1520	0	NFATC2	20	50092197	Frame_Shift_Del	DEL	G	TCGA-B0-5085-01A-01D-1462-08	47779313	50092197	12933323	65	6445											
GRAP2	9402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40343157	40343157	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcttcaggtgaggatgAactgagctttcacactggag	10	10	12	9	0	2	3	2	3	0	0	2	5	2	5	0	3	3	2	0	3	1	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	40343157	A	T	40343157	3	4	114	1	0	0	0	0	1	0	0	0	6754	246	9	5	49	5	GRAP2	22	40343157	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08		40343157	10961409	66	6446											
TTLL1	25809	broad.mit.edu;ucsc.edu	37	chr22	43464519	43464519	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggcttcatgatccaggTgctggacgggctcttccgga	8	9	13	11	2	2	1	1	1	1	0	4	3	4	3	2	5	1	3	2	5	1	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	43464519	G	G	43464519	3	3	114	1	0	0	0	0	1	0	0	0	16721	1696	59	5	899	5	TTLL1	22	43464519	Missense_Mutation	SNP	T	TCGA-B0-5085-01A-01D-1462-08	3121362	43464519	7840047	67	6447											
DDX53	168400	broad.mit.edu;hgsc.bcm.edu	37	chrX	23018221	23018221	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggcggaggctaatccaaGagaccttggggccagctggg	9	5	18	9	1	0	1	0	0	0	1	1	4	1	2	3	6	1	2	3	6	2	2	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	23018221	G	A	23018221	3	1	114	1	0	0	0	0	1	0	0	0	4371	942	33	2	49	2	DDX53	23	23018221	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08		23018221	132252339	68	6448											
DCAF8L2	347442	broad.mit.edu;ucsc.edu	37	chrX	27766433	27766433	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaataataccacagtcaaagGtgttaatttctatggcccca	15	11	6	9	0	2	0	1	0	1	0	2	0	2	0	3	2	1	1	3	2	6	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	27766433	T	T	27766433	3	4	114	1	0	0	0	0	1	0	0	0	4278	1261	44	4	1423	4	DCAF8L2	23	27766433	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	4748212	27766433	127504127	69	6449											
DDX3X	1654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	41203496	41203496	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttttttgcttatagttttCataccgatctagagttcgtc	7	21	6	7	2	2	1	1	0	1	1	4	2	2	1	1	0	2	3	1	0	4	11	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	41203496	C	T	41203496	3	4	114	1	0	0	0	0	1	0	0	0	4358	838	29	2	907	2	DDX3X	23	41203496	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	13437063	41203496	114067064	70	6450											
PHF16	9767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	46917973	46917973	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcttccattgggaatgggAaaagtcagcctaactccaag	13	9	10	9	0	2	0	1	0	1	0	4	2	4	2	3	2	2	0	3	2	5	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		C	46917973	A	C	46917973	3	2	114	1	0	0	0	0	1	0	0	0	11827	247	9	5	2004	5	PHF16	23	46917973	Missense_Mutation	SNP	A	TCGA-B0-5085-01A-01D-1462-08	5714477	46917973	108352587	71	6451											
HUWE1	10075	broad.mit.edu;hgsc.bcm.edu	37	chrX	53674403	53674403	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagaagcattttcagttgctCtctttctggcctatcacata	9	15	7	10	0	4	1	2	0	2	1	5	2	4	1	1	1	2	3	1	1	3	6	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		G	53674403	C	G	53674403	3	3	114	1	0	0	0	0	1	0	0	0	7461	922	32	4	13181	4	HUWE1	23	53674403	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	6756430	53674403	101596157	72	6452											
OGT	8473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70784541	70784541	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttaccagaagatgccatcGtatactgtaactttaatcag	13	12	8	8	1	1	2	1	0	0	2	2	2	1	2	2	1	4	3	2	1	6	6	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	70784541	G	A	70784541	3	1	114	1	0	0	0	0	1	0	0	0	10847	1145	40	1	2601	1	OGT	23	70784541	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	17110138	70784541	84486019	73	6453											
PHKA1	5255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	71831023	71831023	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatacaattcagtgttcCagtcaggtcctctagaattt	11	15	6	9	0	3	1	2	0	1	1	5	1	5	1	2	1	1	1	2	1	5	6	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	71831023	C	A	71831023	3	1	114	1	0	0	0	0	1	0	0	0	11843	595	21	4	1334	4	PHKA1	23	71831023	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	1046482	71831023	83439537	74	6454											
LPAR4	2846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	78011131	78011131	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgatcacagtacatatGgcagtctttgtggtatgctt	12	14	9	6	0	2	1	1	1	1	0	2	1	2	1	0	2	2	4	0	2	5	5	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		T	78011131	G	T	78011131	3	4	114	1	0	0	0	0	1	0	0	0	8907	1348	47	4	767	4	LPAR4	23	78011131	Missense_Mutation	SNP	G	TCGA-B0-5085-01A-01D-1462-08	6180108	78011131	77259429	75	6455											
IGSF1	3547	broad.mit.edu;ucsc.edu	37	chrX	130416649	130416649	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgacaccgtaggctcaCattctgacccatttggacca	9	10	7	15	2	2	1	1	1	1	0	4	3	3	2	4	2	0	2	4	2	1	3	novel		TCGA-B0-5085-01A-01D-1462-08	TCGA-B0-5085-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a36e36ee-48f3-4674-a9f3-a121a09535c5	d83d2175-b165-4ace-82d4-c72083ba8bf2		A	130416649	A	A	130416649	3	1	114	1	0	0	0	0	1	0	0	0	7596	478	17	4	3066	4	IGSF1	23	130416649	Missense_Mutation	SNP	C	TCGA-B0-5085-01A-01D-1462-08	52405518	130416649	24853911	76	6456											
MYOM3	127294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24432548	24432548	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctcagctccttggccTcctggaccttctcctctgtc	2	13	7	19	0	3	0	1	0	2	0	8	1	6	1	6	2	1	2	6	2	0	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	24432548	T	C	24432548	3	2	115	1	0	0	0	0	1	0	0	0	10093	1551	54	3	4023	3	MYOM3	1	24432548	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08		24432548	224818073	1	6457											
GNL2	29889	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38059398	38059398	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctatacatattcaggcgccgGatggtggcccggtccctcat	7	10	11	13	3	2	0	2	0	0	0	3	1	3	1	3	5	1	0	3	5	3	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	38059398	G	A	38059398	2	1	115	1	0	0	0	0	0	0	0	1	6536	1164	41	2		2	GNL2	1	38059398	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08	13626850	38059398	211191223	2	6458											
AKNAD1	254268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109366227	109366227	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaggctcttcgggaggtagGaatcttagtgccacagtcct	8	10	13	10	1	2	0	0	0	2	0	4	2	3	2	2	4	1	3	2	4	3	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	109366227	G	A	109366227	3	1	115	1	0	0	0	0	1	0	0	0	464	1174	41	2	510	2	AKNAD1	1	109366227	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	71306829	109366227	139884394	3	6459											
PSMB4	5692	hgsc.bcm.edu;ucsc.edu	37	chr1	151372944	151372945	+	Frame_Shift_Ins	INS	-	-	T																															gaggagcttctgggagatggINSacacagctatagtcctagag																								novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	151372945	-	T	151372944	7	5	115	1	0	1	1	0	0	0	0	0	12681	1174	41	0	384	0	PSMB4	1	151372944	Frame_Shift_Ins	INS	-	TCGA-B0-5088-01A-01D-1462-08	42006717	151372944	97877677	4	6460											
METTL13	51603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171756920	171756920	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acattggggtccggaccgttCagcaccaagactgcagcccc	9	6	11	15	2	1	1	1	0	0	1	2	2	2	2	5	3	3	3	5	3	1	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	171756920	C	G	171756920	3	3	115	1	0	0	0	0	1	0	0	0	9497	827	29	4	1173	4	METTL13	1	171756920	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	20383976	171756920	77493701	5	6461											
KDM5B	10765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202777266	202777266	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacagatgccagtctgctcGgctatgggccggatcttgtg	6	12	13	10	2	2	1	0	0	2	1	3	2	2	2	2	3	3	2	2	3	2	3	rs150129345	byfrequency;alternate_allele	TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	202777266	G	C	202777266	2	2	115	1	0	0	0	0	0	0	0	1	8134	1103	39	4		4	KDM5B	1	202777266	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08	31020346	202777266	46473355	6	6462											
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235894212	235894212	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaatgagttttgtcttcAaacaggtaagagagtggtgg	13	11	14	3	0	2	3	1	1	1	2	2	5	2	3	0	3	1	2	0	3	4	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	235894212	A	C	235894212	3	2	115	1	0	0	0	0	1	0	0	0	9128	127	5	5	2498	5	LYST	1	235894212	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08	33116946	235894212	13356409	7	6463											
FMN2	56776	broad.mit.edu;ucsc.edu	37	chr1	240370625	240370625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctatttctaccgagtttcAaaccagccacgaacactctg	11	12	5	13	2	4	0	1	0	3	0	4	2	4	0	3	0	4	1	3	0	4	5	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	240370625	G	G	240370625	3	3	115	1	0	0	0	0	1	0	0	0	5950	130	5	3	2531	3	FMN2	1	240370625	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08	4476413	240370625	8879996	8	6464											
KIAA1841	84542	broad.mit.edu	37	chr2	61336340	61336340	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaacttagaaacaacaGtcactgttttcagaagaaga	16	13	6	6	0	2	4	2	0	0	4	2	4	2	4	0	0	3	1	0	0	6	6	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	61336340	C	C	61336340	3	2	115	1	0	0	0	0	1	0	0	0	8261	1020	36	4	1707	4	KIAA1841	2	61336340	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		61336340	181863033	9	6465											
NAGK	55577	broad.mit.edu;hgsc.bcm.edu	37	chr2	71299785	71299785	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggtggagttgtgctcAtatctggaacaggctccaac	9	9	11	12	0	2	0	1	0	1	0	3	2	3	2	3	4	3	3	3	4	3	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	71299785	A	G	71299785	3	3	115	1	0	0	0	0	1	0	0	0	10142	217	8	3	526	3	NAGK	2	71299785	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08	9963445	71299785	171899588	10	6466											
CCNT2	905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135711411	135711411	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatagctgcccaggtagaAcagcagcacaaacaagggca	16	5	10	10	0	0	1	0	0	0	1	0	1	0	1	1	2	6	5	1	2	7	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	135711411	A	G	135711411	2	3	115	1	0	0	0	0	0	0	0	1	2935	40	2	3		3	CCNT2	2	135711411	Silent	SNP	A	TCGA-B0-5088-01A-01D-1462-08	64411626	135711411	107487962	11	6467											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141773379	141773379	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttggccacagcatcttTgaagtcacaaaaatctgccg	11	10	8	12	2	3	1	1	1	2	0	3	1	3	1	3	1	2	2	3	1	3	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	141773379	T	G	141773379	2	3	115	1	0	0	0	0	0	0	0	1	8955	1799	63	5		5	LRP1B	2	141773379	Silent	SNP	T	TCGA-B0-5088-01A-01D-1462-08	6061968	141773379	101425994	12	6468											
KBTBD10	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170371427	170371427	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggccataatgtgatttcAcataaagggatgatatattg	14	14	9	4	0	1	2	1	2	0	0	1	3	1	3	1	2	0	0	1	2	6	7	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	170371427	A	T	170371427	2	4	115	1	0	0	0	0	0	0	0	1	7990	146	6	5		5	KBTBD10	2	170371427	Silent	SNP	A	TCGA-B0-5088-01A-01D-1462-08	28598048	170371427	72827946	13	6469											
OSBPL6	114880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179253841	179253841	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtaaccatcagaaatacCaaaagcagtgtttgcatttg	16	10	8	7	0	1	1	1	0	0	1	1	2	1	1	2	0	4	4	2	0	6	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	179253841	C	G	179253841	2	3	115	1	0	0	0	0	0	0	0	1	11281	581	21	4		4	OSBPL6	2	179253841	Silent	SNP	C	TCGA-B0-5088-01A-01D-1462-08	8882414	179253841	63945532	14	6470											
VIL1	7429	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219296898	219296898	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagcattacctgctctacGtttggcaggtcaggtcccgc	7	10	11	13	2	2	0	1	0	1	0	3	0	3	0	2	3	5	5	2	3	2	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	219296898	G	A	219296898	3	1	115	1	0	0	0	0	1	0	0	0	17163	1145	40	1	1375	1	VIL1	2	219296898	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	40043057	219296898	23902475	15	6471											
CHL1	10752	broad.mit.edu;hgsc.bcm.edu	37	chr3	391066	391066	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actccacaggttgattggaaCaaaattggtggtgacttacc	12	11	10	8	0	0	2	0	2	0	0	1	3	1	3	2	4	2	1	2	4	4	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	391066	C	A	391066	3	1	115	1	0	0	0	0	1	0	0	0	3349	477	17	4	903	4	CHL1	3	391066	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08		391066	197631364	16	6472											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188240	10188240	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagggacacacgatgggcTtctggttaaccaaactgaat	12	9	11	9	1	1	1	0	1	1	0	1	3	1	2	1	3	3	3	1	3	3	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	10188240	T	A	10188240	3	1	115	1	0	0	0	0	1	0	0	0	17161	1609	56	5	389	5	VHL	3	10188240	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08	9797174	10188240	187834190	17	6473											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443866	52443866	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcctcacctgggtcgCtctccagctccagccagccc	4	8	7	22	1	2	0	1	0	1	0	7	0	5	0	8	1	3	2	8	1	0	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	52443866	C	G	52443866	3	3	115	1	0	0	0	0	1	0	0	0	1311	797	28	4	2228	4	BAP1	3	52443866	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	42255626	52443866	145578564	18	6474											
ATXN7	6314	hgsc.bcm.edu;ucsc.edu	37	chr3	63973813	63973813	+	Frame_Shift_Del	DEL	A	A	-																															tattagccgagcacaaaaacAaaaccagggaaaaggaattg																								novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		-	63973813	A	-	63973813	7	5	115	1	0	1	0	1	0	0	0	0	1215	131	5	0	1268	0	ATXN7	3	63973813	Frame_Shift_Del	DEL	A	TCGA-B0-5088-01A-01D-1462-08	11529947	63973813	134048617	19	6475											
OR5H15	403274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	97887843	97887843	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctctgaatgcaagatacaAtttttttccattgcaattgg	11	16	6	8	0	1	2	0	1	1	1	3	2	2	2	1	1	3	2	1	1	5	6	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	97887843	A	G	97887843	2	3	115	1	0	0	0	0	0	0	0	1	11161	98	4	3		3	OR5H15	3	97887843	Silent	SNP	A	TCGA-B0-5088-01A-01D-1462-08	33914030	97887843	100134587	20	6476											
EEFSEC	60678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128060617	128060617	+	Missense_Mutation	SNP	G	G	C																															cattcacaccaacacgtgccGgctagccttccatggcatcc																								novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	128060617	G	C	128060617	3	2	115	1	0	0	0	0	1	0	0	0	4931	1116	39	4	1346	4	EEFSEC	3	128060617	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	30172774	128060617	69961813	21	6477	79	2									
EEFSEC	60678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128060618	128060618	+	Silent	SNP	G	G	T																															attcacaccaacacgtgccgGctagccttccatggcatcct																								novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	128060618	G	T	128060618	2	4	115	1	0	0	0	0	0	0	0	1	4931	1190	42	4		4	EEFSEC	3	128060618	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08	1	128060618	69961812	22	6478	79	2									
SLITRK3	22865	broad.mit.edu;hgsc.bcm.edu	37	chr3	164907318	164907318	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagatgcaagagatccAaggaagaaaaattccaaaaa	20	5	7	9	0	0	3	0	0	0	3	3	5	3	4	4	1	1	1	4	1	7	1	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	164907318	A	G	164907318	3	3	115	1	0	0	0	0	1	0	0	0	14746	131	5	3	1636	3	SLITRK3	3	164907318	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08	36846700	164907318	33115112	23	6479											
IGF2BP2	10644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	185393190	185393190	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcacagtgatggttcttTccgggttgtatatgctcaaa	8	15	9	9	1	3	1	2	1	1	0	4	1	4	1	2	2	1	4	2	2	3	6	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	185393190	T	A	185393190	3	1	115	1	0	0	0	0	1	0	0	0	7574	1783	62	5	866	5	IGF2BP2	3	185393190	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08	20485872	185393190	12629240	24	6480											
SLIT2	9353	broad.mit.edu	37	chr4	20490577	20490577	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggccataatgtagccgaGgttcaaaaacgagaatttgt	15	9	11	6	2	1	2	1	0	0	2	1	4	1	2	2	2	2	2	2	2	5	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	20490577	A	A	20490577	2	1	115	1	0	0	0	0	0	0	0	1	14742	991	35	2		2	SLIT2	4	20490577	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08		20490577	170663699	25	6481											
PCDHA11	56138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140248769	140248769	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctcgaattctgggaggtgggGagcggccagctccactactc	7	8	14	12	2	1	0	0	0	1	0	4	3	2	2	2	5	3	1	2	5	2	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	140248769	G	A	140248769	2	1	115	1	0	0	0	0	0	0	0	1	11521	1161	41	2		2	PCDHA11	5	140248769	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08		140248769	40666491	26	6482											
C6orf142	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54095578	54095578	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agactaaactctatcctcctGctaagtcactgctgcatcca	11	11	5	14	0	2	1	1	0	1	1	5	1	5	1	3	0	4	3	3	0	4	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	54095578	G	T	54095578	3	4	115	1	0	0	0	0	1	0	0	0	2333	1319	46	4	1222	4	C6orf142	6	54095578	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		54095578	117019489	27	6483											
GFRAL	389400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	55214903	55214903	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctagataacgtgaaagaGgataaattcaaatggaatct	17	11	8	5	1	3	3	1	1	2	2	3	5	3	5	0	2	1	0	0	2	7	5	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	55214903	G	T	55214903	3	4	115	1	0	0	0	0	1	0	0	0	6351	991	35	4	344	4	GFRAL	6	55214903	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	1119325	55214903	115900164	28	6484											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56399926	56399926	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgactaacttaccttttgTtcttgtatctgggcctttac	7	18	6	10	0	2	1	0	1	2	0	2	1	2	1	2	1	3	2	2	1	4	9	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	56399926	T	C	56399926	2	2	115	1	0	0	0	0	0	0	0	1	4783	1722	60	3		3	DST	6	56399926	Silent	SNP	T	TCGA-B0-5088-01A-01D-1462-08	1185023	56399926	114715141	29	6485											
SLC22A16	85413	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	110763747	110763747	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcgtccctctgagagaaGccaaaaaggtgtctctggga	12	9	11	9	1	2	2	0	1	2	1	5	4	3	3	2	2	1	0	2	2	4	1	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	110763747	G	T	110763747	3	4	115	1	0	0	0	0	1	0	0	0	14449	971	34	4	870	4	SLC22A16	6	110763747	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	54363821	110763747	60351320	30	6486											
ZNF789	285989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99084910	99084910	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggatctcattcagcaTcaaagaatccatacaaagga	17	9	7	8	0	3	1	3	0	1	1	5	3	4	3	1	2	2	1	1	2	5	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	99084910	T	C	99084910	2	2	115	1	0	0	0	0	0	0	0	1	18159	1432	50	3		3	ZNF789	7	99084910	Silent	SNP	T	TCGA-B0-5088-01A-01D-1462-08		99084910	60053753	31	6487											
STAG3	10734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99811404	99811404	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagcgcgggctggacctctTagattctacagagctggata	9	10	13	9	2	2	3	0	1	2	2	2	5	2	5	1	3	3	2	1	3	3	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	99811404	T	C	99811404	3	2	115	1	0	0	0	0	1	0	0	0	15245	1764	61	3	3770	3	STAG3	7	99811404	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08	726494	99811404	59327259	32	6488											
FLNC	2318	broad.mit.edu;hgsc.bcm.edu	37	chr7	128494133	128494133	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggagatcagcaagacgcGgggcggggagacaaagcgcg	12	1	18	10	6	1	3	1	0	0	3	1	5	1	3	0	5	2	1	0	5	2	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	128494133	G	A	128494133	3	1	115	1	0	0	0	0	1	0	0	0	5935	1116	39	1	6748	1	FLNC	7	128494133	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	28682729	128494133	30644530	33	6489											
PRKAG2	51422	hgsc.bcm.edu;ucsc.edu	37	chr7	151265857	151265862	+	In_Frame_Del	DEL	CCACTG	CCACTG	-																															taagtatataaagtgcattcCcactgatagggtcaataacg																								novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	CCACTG	CCACTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		-	151265862	CCACTG	-	151265857	7	5	115	1	0	1	0	1	0	0	0	0	12503	623	22	0	555	0	PRKAG2	7	151265857	In_Frame_Del	DEL	CCACTG	TCGA-B0-5088-01A-01D-1462-08	22771724	151265857	7872806	34	6490											
GPR172A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145584463	145584463	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgctgtgtccccctcagGtgctgtcgtgggtgctgtgt	1	14	16	10	1	1	0	1	0	0	0	3	0	2	0	2	3	3	3	2	3	0	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	145584463	G	A	145584463	3	1	115	1	0	0	0	0	1	0	0	0	6669	1275	44	2	1140	2	GPR172A	8	145584463	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		145584463	779559	35	6491											
PPP1R16A	84988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145722670	145722670	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catgcccagaagcggcgcgcCcagcaggtgaagatgtgggc	9	4	16	12	3	0	3	0	1	0	2	0	3	0	3	2	3	3	1	2	3	2	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	145722670	C	T	145722670	2	4	115	1	0	0	0	0	0	0	0	1	12367	610	22	2		2	PPP1R16A	8	145722670	Silent	SNP	C	TCGA-B0-5088-01A-01D-1462-08	138207	145722670	641352	36	6492											
KCNV2	169522	broad.mit.edu;hgsc.bcm.edu	37	chr9	2718197	2718197	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgaatacttcttcgaccGcgacccggccgtcttccagc	8	8	9	16	6	2	1	0	0	2	1	4	4	3	1	4	1	2	0	4	1	2	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	2718197	G	A	2718197	3	1	115	1	0	0	0	0	1	0	0	0	8095	1087	38	1	460	1	KCNV2	9	2718197	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		2718197	138495234	37	6493											
MEGF9	1955	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123384993	123384993	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttggcatcggtcacataTagagccaatgacacccactt	12	10	7	12	1	2	2	1	1	1	1	3	2	2	2	2	2	1	1	2	2	3	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	123384993	T	C	123384993	3	2	115	1	0	0	0	0	1	0	0	0	9464	1406	49	3	980	3	MEGF9	9	123384993	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08	120666796	123384993	17828438	38	6494											
C9orf114	51490	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131586388	131586388	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaggccacatctgagcCgcgctctgacgtcccgatgg	7	6	14	14	4	2	3	0	2	2	1	3	4	3	3	3	3	1	2	3	3	0	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	131586388	C	A	131586388	3	1	115	1	0	0	0	0	1	0	0	0	2449	652	23	4	265	4	C9orf114	9	131586388	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	8201395	131586388	9627043	39	6495											
YME1L1	10730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27437878	27437878	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaactacatctcgatgcTggttttgagaaactgacact	12	11	9	9	1	1	2	0	2	1	1	2	5	1	3	0	2	4	2	0	2	3	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	27437878	T	C	27437878	3	2	115	1	0	0	0	0	1	0	0	0	17486	1580	55	3	2272	3	YME1L1	10	27437878	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08		27437878	108096869	40	6496											
PAPSS2	9060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	89473886	89473886	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctctaaatatttgtgAaagcagagacgtaaaaggcc	15	9	9	8	1	1	2	0	1	1	1	1	3	1	2	2	1	2	3	2	1	6	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	89473886	A	G	89473886	3	3	115	1	0	0	0	0	1	0	0	0	11435	246	9	3	481	3	PAPSS2	10	89473886	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08	62036008	89473886	46060861	41	6497											
NSMCE4A	54780	hgsc.bcm.edu;ucsc.edu	37	chr10	123730567	123730569	+	In_Frame_Del	DEL	CTT	CTT	-																															aaagtgggcatccaggactgCttctcttgctcgggacacta																								novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		-	123730569	CTT	-	123730567	7	5	115	1	0	1	0	1	0	0	0	0	10677	797	28	0	801	0	NSMCE4A	10	123730567	In_Frame_Del	DEL	CTT	TCGA-B0-5088-01A-01D-1462-08	34256681	123730567	11804180	42	6498											
CTBP2	1488	broad.mit.edu;hgsc.bcm.edu	37	chr10	126683133	126683133	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatacagcaaatcctgcaGggtgtagaccctctgcacgc	10	8	10	13	1	1	2	0	1	1	1	2	2	2	2	2	1	4	4	2	1	3	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	126683133	G	A	126683133	2	1	115	1	0	0	0	0	0	0	0	1	3998	991	35	2		2	CTBP2	10	126683133	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08	2952566	126683133	8851614	43	6499											
SPRYD5	0	broad.mit.edu;ucsc.edu	37	chr11	55653066	55653066	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcttgctcagtgctctgaAtgcaagaagacaacgcggca	11	9	11	10	2	3	3	1	1	2	2	3	3	3	3	0	1	4	5	0	1	4	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	55653066	T	T	55653066	3	4	115	1	0	0	0	0	1	0	0	0	15112	98	4	5	164	5	SPRYD5	11	55653066	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08		55653066	79353450	44	6500											
EXPH5	23086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108382192	108382192	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacagctgcctcaacagaagCcatttcctgtaatgtaggag	13	9	9	10	0	1	1	1	0	0	1	2	2	2	2	3	1	5	3	3	1	5	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	108382192	C	G	108382192	3	3	115	1	0	0	0	0	1	0	0	0	5322	739	26	4	1931	4	EXPH5	11	108382192	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	52729126	108382192	26624324	45	6501											
ABCC9	10060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21960403	21960403	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaattctccccaccttcagtGacaaccgcatctaaatcaga	14	9	4	14	1	4	2	2	1	2	1	5	2	4	2	4	0	1	1	4	0	4	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	21960403	G	A	21960403	2	1	115	1	0	0	0	0	0	0	0	1	59	1277	45	2		2	ABCC9	12	21960403	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08		21960403	111891492	46	6502											
TBC1D15	64786	broad.mit.edu;hgsc.bcm.edu	37	chr12	72274276	72274276	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttcagttgtagaatggactCaggccccaaaagaaagaggt	14	8	12	7	0	2	3	2	0	0	3	2	4	2	4	2	3	0	3	2	3	5	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	72274276	C	G	72274276	3	3	115	1	0	0	0	0	1	0	0	0	15603	827	29	4	370	4	TBC1D15	12	72274276	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	50313873	72274276	61577619	47	6503											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117768660	117768660	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatagctcaggtccaccAagggccggccgttgaccgca	8	7	12	14	3	2	1	2	1	0	0	3	1	3	1	5	3	1	3	5	3	2	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	117768660	A	G	117768660	3	3	115	1	0	0	0	0	1	0	0	0	10541	131	5	3	4201	3	NOS1	12	117768660	Missense_Mutation	SNP	A	TCGA-B0-5088-01A-01D-1462-08	45494384	117768660	16083235	48	6504											
KIAA0564	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42361642	42361642	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgtagcatctgccagatTtttttctaatgctgacctag	9	17	7	8	0	2	2	0	1	2	1	2	2	2	2	2	0	3	3	2	0	4	8	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		G	42361642	T	G	42361642	3	3	115	1	0	0	0	0	1	0	0	0	8185	1841	64	5	3732	5	KIAA0564	13	42361642	Missense_Mutation	SNP	T	TCGA-B0-5088-01A-01D-1462-08		42361642	72808236	49	6505											
DACT1	51339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59113096	59113096	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaagaactccagcctgaaGcaccgcggcccagccctcca	10	4	10	17	2	0	3	0	2	0	1	2	3	2	3	6	1	4	1	6	1	3	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	59113096	G	A	59113096	2	1	115	1	0	0	0	0	0	0	0	1	4222	962	34	2		2	DACT1	14	59113096	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08		59113096	48236444	50	6506											
CCNB2	9133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59406998	59406998	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatcctagtggattggctgGtacaagtccactccaagttt	9	12	9	11	0	0	0	0	0	0	0	3	1	3	1	4	3	1	3	4	3	4	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	59406998	G	A	59406998	3	1	115	1	0	0	0	0	1	0	0	0	2913	1261	44	2	538	2	CCNB2	15	59406998	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		59406998	43124394	51	6507											
ARIH1	25820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72848195	72848195	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttcaatctttttcagacTatttcgtgtcctgctcatgg	8	18	6	9	1	4	1	3	0	1	1	6	1	5	1	1	1	1	1	1	1	3	5	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	72848195	T	C	72848195	2	2	115	1	0	0	0	0	0	0	0	1	923	1509	53	3		3	ARIH1	15	72848195	Silent	SNP	T	TCGA-B0-5088-01A-01D-1462-08	13441197	72848195	29683197	52	6508											
SIN3A	25942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75682103	75682103	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgagtctatgttgccatCcagcaggctccgcaccatgt	8	11	10	12	1	1	2	0	2	1	0	3	2	3	2	4	1	2	4	4	1	1	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	75682103	C	A	75682103	3	1	115	1	0	0	0	0	1	0	0	0	14327	855	30	4	934	4	SIN3A	15	75682103	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	2833908	75682103	26849289	53	6509											
CNTNAP1	8506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40848118	40848118	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactcgaccagtgaccgatgGccagccccatagcatcaata	12	6	8	15	2	1	1	1	1	0	0	2	3	1	1	5	1	2	1	5	1	3	2	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	40848118	G	C	40848118	3	2	115	1	0	0	0	0	1	0	0	0	3646	1203	42	4	3500	4	CNTNAP1	17	40848118	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		40848118	40347092	54	6510											
COL1A1	1277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48272628	48272628	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accaggagggccgccggggcCctggggtccagaggggcctc	5	3	19	14	2	0	1	0	0	0	1	2	2	1	2	6	8	0	0	6	8	0	0	rs72648328	alternate_allele	TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	48272628	C	T	48272628	3	4	115	1	0	0	0	0	1	0	0	0	3677	623	22	2	3262	2	COL1A1	17	48272628	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	7424510	48272628	32922582	55	6511											
CACNG5	27091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	64875148	64875148	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgcccatgaacacccagctGacatccgagtccacggtcaa	12	6	8	15	2	1	2	1	2	0	0	3	3	3	2	4	1	3	1	4	1	2	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	64875148	G	A	64875148	2	1	115	1	0	0	0	0	0	0	0	1	2560	1277	45	2		2	CACNG5	17	64875148	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08	16602520	64875148	16320062	56	6512											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7009293	7009293	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgaggatgtactcaatatCgctgaggacagacataaaat	16	9	10	6	1	1	3	1	2	0	1	2	6	1	5	0	2	1	2	0	2	5	3	rs149753863	byfrequency	TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	7009293	C	T	7009293	3	4	115	1	0	0	0	0	1	0	0	0	8605	884	31	1	5429	1	LAMA1	18	7009293	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08		7009293	71067955	57	6513											
MAPK4	5596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	48190332	48190332	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agatcactgagcccacaatgGctgagaagggtgactgcatc	12	7	12	10	0	1	4	1	3	0	2	2	5	1	4	1	2	2	2	1	2	2	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	48190332	G	A	48190332	3	1	115	1	0	0	0	0	1	0	0	0	9280	1203	42	2	6	2	MAPK4	18	48190332	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	41181039	48190332	29886916	58	6514											
USHBP1	83878	broad.mit.edu	37	chr19	17370531	17370531	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaagcagggggtgagccaggGagaaggagtcctgccaagaa	13	3	18	7	0	0	3	0	1	0	2	1	6	1	4	3	4	3	1	3	4	4	0	rs150046287	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	17370531	T	T	17370531	3	4	115	1	0	0	0	0	1	0	0	0	17036	1174	41	4	1364	4	USHBP1	19	17370531	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		17370531	41758452	59	6515											
ATP1A3	478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42482093	42482093	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatgggtggctcaccggggGttaacctggctgacgggaat	7	8	18	8	2	1	1	1	1	0	0	1	3	1	3	2	7	1	3	2	7	2	1	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		C	42482093	G	C	42482093	3	2	115	1	0	0	0	0	1	0	0	0	1130	1252	44	4	1143	4	ATP1A3	19	42482093	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	25111562	42482093	16646890	60	6516											
KLK13	26085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51559929	51559929	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggacgtatcttgagacaCgggtgtagacaccaggccgg	11	6	14	10	3	1	2	0	1	1	2	1	4	1	3	2	4	0	2	2	4	2	3	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	51559929	C	T	51559929	3	4	115	1	0	0	0	0	1	0	0	0	8401	536	19	1	88	1	KLK13	19	51559929	Missense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08	9077836	51559929	7569054	61	6517											
FAM83D	81610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37580732	37580732	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtccagatcgaccactactCagactgacatggatgagaac	13	7	10	11	1	1	4	1	2	0	3	3	7	2	5	2	2	2	0	2	2	2	1	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	37580732	C	T	37580732	4	4	115	1	0	0	0	0	0	1	0	0	5636	827	29	2	1431	2	FAM83D	20	37580732	Nonsense_Mutation	SNP	C	TCGA-B0-5088-01A-01D-1462-08		37580732	25444788	62	6518											
NRIP1	8204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	16338035	16338035	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctgccaggtaactatcttGattttgtcttagcaatcgac	10	15	7	9	1	3	1	0	1	3	0	4	2	3	1	1	1	3	2	1	1	4	6	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	16338035	G	A	16338035	4	1	115	1	0	0	0	0	0	1	0	0	10652	1299	45	2	1001	2	NRIP1	21	16338035	Nonsense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		16338035	31791860	63	6519											
SYNJ1	8867	broad.mit.edu;hgsc.bcm.edu	37	chr21	34066598	34066598	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggatttgtatgaaggaagaAactgagtcatctaagtacac	15	10	10	6	1	2	3	1	2	1	1	2	5	2	5	0	2	2	2	0	2	6	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	34066598	A	T	34066598	2	4	115	1	0	0	0	0	0	0	0	1	15451	1	1	5		5	SYNJ1	21	34066598	Silent	SNP	A	TCGA-B0-5088-01A-01D-1462-08	17728563	34066598	14063297	64	6520											
ITGB2	3689	broad.mit.edu;ucsc.edu	37	chr21	46321408	46321408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggcagcggcctcaccGggcaggcggcgacctgcatc	6	3	17	15	4	1	0	1	0	0	0	2	1	1	0	3	6	2	4	3	6	0	0	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	46321408	A	A	46321408	3	1	115	1	0	0	0	0	1	0	0	0	7894	1130	39	1	1613	1	ITGB2	21	46321408	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	12254810	46321408	1808487	65	6521											
SCML1	6322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	17768309	17768309	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccgtattatgcatctgatgGtgcaacgtatggttcttctt	7	16	10	8	2	3	1	0	1	3	0	3	1	3	1	1	2	3	5	1	2	4	6	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		T	17768309	G	T	17768309	3	4	115	1	0	0	0	0	1	0	0	0	13911	1261	44	4	620	4	SCML1	23	17768309	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08		17768309	137502251	66	6522											
RPGR	6103	broad.mit.edu;ucsc.edu	37	chrX	38182653	38182653	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggattgtaatactaaccGgtaacaacagcagaatgttc	15	10	8	8	1	1	1	1	0	0	1	2	2	1	2	1	2	5	4	1	2	6	6	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	38182653	A	A	38182653	2	1	115	1	0	0	0	0	0	0	0	1	13550	1130	39	1		1	RPGR	23	38182653	Silent	SNP	G	TCGA-B0-5088-01A-01D-1462-08	20414344	38182653	117087907	67	6523											
ZNF711	7552	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	84510342	84510342	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaagctgttttagtttctGatgttgtcacagatgatggg	8	16	12	5	0	2	4	1	3	1	1	2	4	2	4	0	1	1	4	0	1	2	4	novel		TCGA-B0-5088-01A-01D-1462-08	TCGA-B0-5088-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56245d6-c681-44e0-9eb2-504bee3e1b32	2543d48c-413b-4ff9-8dc3-125a19829056		A	84510342	G	A	84510342	3	1	115	1	0	0	0	0	1	0	0	0	18115	1290	45	2	163	2	ZNF711	23	84510342	Missense_Mutation	SNP	G	TCGA-B0-5088-01A-01D-1462-08	46327689	84510342	70760218	68	6524											
AADACL4	343066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12711197	12711197	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccaaatttattcgtttttTacatgatagcgtgagaatta	12	16	7	6	2	0	2	0	2	0	1	1	3	0	2	1	0	2	1	1	0	6	8	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	12711197	T	C	12711197	3	2	116	1	0	0	0	0	1	0	0	0	13	1764	61	3	230	3	AADACL4	1	12711197	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08		12711197	236539424	1	6525											
ABCD3	5825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94946103	94946103	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccattggtaagatgacaatAactgagcaaaagtatgaagg	17	8	10	6	0	0	4	0	3	0	1	0	4	0	4	1	2	2	3	1	2	7	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	94946103	A	G	94946103	3	3	116	1	0	0	0	0	1	0	0	0	62	352	13	3	833	3	ABCD3	1	94946103	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	82234906	94946103	154304518	2	6526											
DPYD	1806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	97564120	97564120	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagctacattttgttctttCagtctaatcttgttttctgc	8	20	5	8	0	5	0	1	0	4	0	5	0	5	0	0	0	3	3	0	0	3	9	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	97564120	C	T	97564120	2	4	116	1	0	0	0	0	0	0	0	1	4745	813	29	2		2	DPYD	1	97564120	Silent	SNP	C	TCGA-B0-5092-01A-01D-1421-08	2618017	97564120	151686501	3	6527											
KCNC4	3749	broad.mit.edu;hgsc.bcm.edu	37	chr1	110766481	110766481	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgcagtgataccagccCccctgcccgggaagagggta	9	5	12	15	1	0	2	0	1	0	1	0	3	0	3	6	2	4	2	6	2	3	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	110766481	C	T	110766481	3	4	116	1	0	0	0	0	1	0	0	0	8017	623	22	2	1580	2	KCNC4	1	110766481	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	13202361	110766481	138484140	4	6528											
LRIG2	9860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113616152	113616152	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcccgccgccggagcaggtCtctgccccgcgccctgctcc	2	6	12	21	5	1	0	0	0	1	0	3	1	2	1	7	2	4	2	7	2	0	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	113616152	C	T	113616152	3	4	116	1	0	0	0	0	1	0	0	0	8945	913	32	2	126	2	LRIG2	1	113616152	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	2849671	113616152	135634469	5	6529											
SELP	6403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169565278	169565278	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaagtggtattaaaaccAaaggttcccggatgatgcct	14	10	9	8	1	0	1	0	1	0	0	1	2	1	2	3	3	3	2	3	3	6	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	169565278	A	G	169565278	2	3	116	1	0	0	0	0	0	0	0	1	14021	127	5	3		3	SELP	1	169565278	Silent	SNP	A	TCGA-B0-5092-01A-01D-1421-08	55949126	169565278	79685343	6	6530											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32640716	32640716	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaaaggtgagctggaatCaaatcttgctgtagtgaatg	13	10	13	5	1	2	2	1	2	1	0	2	4	2	4	0	3	2	3	0	3	5	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	32640716	C	A	32640716	4	1	116	1	0	0	0	0	0	1	0	0	1438	838	29	4	2395	4	BIRC6	2	32640716	Nonsense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08		32640716	210558657	7	6531											
ZC3H6	376940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	113074843	113074843	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcagagttggagaaaagaAaagagatctgcaaattttat	18	10	10	3	0	1	4	0	0	1	4	1	6	1	4	0	1	2	3	0	1	6	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	113074843	A	C	113074843	3	2	116	1	0	0	0	0	1	0	0	0	17570	15	1	5	936	5	ZC3H6	2	113074843	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	80434127	113074843	130124530	8	6532											
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128927880	128927880	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaatcaaactgaggccGaaggaaggggagacatactt	15	6	13	7	1	1	2	1	1	0	1	1	5	1	3	1	4	3	1	1	4	5	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	128927880	G	T	128927880	2	4	116	1	0	0	0	0	0	0	0	1	16940	1045	37	4		4	UGGT1	2	128927880	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08	15853037	128927880	114271493	9	6533											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141777522	141777522	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atccaccacaattcctctggGatgagacatttcaccctcta	11	11	5	14	0	3	1	1	1	2	1	5	3	5	2	4	1	0	0	4	1	2	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	141777522	G	A	141777522	3	1	116	1	0	0	0	0	1	0	0	0	8955	1174	41	2	12180	2	LRP1B	2	141777522	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	12849642	141777522	101421851	10	6534											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179474417	179474417	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaacaaaacttaccaatggGatctacagctttggttggag	14	10	10	7	0	1	0	0	0	1	0	1	3	1	2	1	3	5	2	1	3	6	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	179474417	G	T	179474417	3	4	116	1	0	0	0	0	1	0	0	0	16734	1174	41	4	56324	4	TTN	2	179474417	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	37696895	179474417	63724956	11	6535											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52439913	52439913	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgaatcagctctggctGtgttactcttatcagctaac	8	14	9	10	0	5	1	2	1	3	0	5	1	5	1	0	2	4	4	0	2	4	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	52439913	G	A	52439913	4	1	116	1	0	0	0	0	0	1	0	0	1311	1386	48	2	1422	2	BAP1	3	52439913	Nonsense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08		52439913	145582517	12	6536											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu	37	chr3	52440295	52440295	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagagcctctagtactgtctGacggttcaccttcagcacat	9	11	8	13	1	4	2	2	1	2	1	4	2	4	2	2	1	3	3	2	1	2	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	52440295	G	A	52440295	4	1	116	1	0	0	0	0	0	1	0	0	1311	1299	45	2	1468	2	BAP1	3	52440295	Nonsense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	382	52440295	145582135	13	6537											
SORCS2	57537	broad.mit.edu;hgsc.bcm.edu	37	chr4	7533341	7533341	+	Silent	SNP	G	G	T																															gacaatttctacatctgcccGaccaacaagaggaaggtagg																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	7533341	G	T	7533341	2	4	116	1	0	0	0	0	0	0	0	1	14933	1045	37	4		4	SORCS2	4	7533341	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08		7533341	183620935	14	6538	80	2									
SORCS2	57537	broad.mit.edu	37	chr4	7533342	7533342	+	Missense_Mutation	SNP	A	T	T																															acaatttctacatctgcccgAccaacaagaggaaggtaggt																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	7533342	T	T	7533342	3	4	116	1	0	0	0	0	1	0	0	0	14933	275	10	5	644	5	SORCS2	4	7533342	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	1	7533342	183620934	15	6539	80	2									
UGT2A3	79799	broad.mit.edu;hgsc.bcm.edu	37	chr4	69795773	69795773	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctttacaggttgatcatGgtgaattcttgataatctca	10	15	10	6	0	3	3	2	3	2	0	4	3	3	3	0	3	1	2	0	3	3	6	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	69795773	G	C	69795773	3	2	116	1	0	0	0	0	1	0	0	0	16954	1348	47	4	245	4	UGT2A3	4	69795773	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	62262431	69795773	121358503	16	6540											
FAT4	79633	broad.mit.edu;hgsc.bcm.edu	37	chr4	126398472	126398472	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagccaagctttggcagcAcaaggcatcctagatcagta	12	7	9	13	0	1	1	1	0	0	1	2	1	2	1	3	2	3	5	3	2	4	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	126398472	A	G	126398472	2	3	116	1	0	0	0	0	0	0	0	1	5692	146	6	3		3	FAT4	4	126398472	Silent	SNP	A	TCGA-B0-5092-01A-01D-1421-08	56602699	126398472	64755804	17	6541											
CDKN2AIP	55602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184366710	184366710	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctcaaaaagttatggatAaaatacttagtatggctgaa	17	11	7	6	0	1	1	1	1	0	0	1	2	1	2	1	2	1	3	1	2	9	5	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	184366710	A	G	184366710	3	3	116	1	0	0	0	0	1	0	0	0	3162	363	13	3	301	3	CDKN2AIP	4	184366710	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	57968238	184366710	6787566	18	6542											
IRX1	79192	broad.mit.edu;hgsc.bcm.edu	37	chr5	3599934	3599934	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaaggaggccccagagcCgggcagcacgcgcctgctga	9	2	16	14	3	0	2	0	1	0	1	0	3	0	3	4	4	3	4	4	4	1	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	3599934	C	A	3599934	3	1	116	1	0	0	0	0	1	0	0	0	7843	652	23	4	878	4	IRX1	5	3599934	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08		3599934	177315326	19	6543											
TRIM23	373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64892965	64892965	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accatccaatcctaacgtaaCgacccgaatttccatttttg	12	12	4	13	3	0	0	0	0	0	0	3	2	3	0	5	0	2	1	5	0	4	5	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	64892965	C	T	64892965	3	4	116	1	0	0	0	0	1	0	0	0	16496	536	19	1	585	1	TRIM23	5	64892965	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	61293031	64892965	116022295	20	6544											
POC5	134359	broad.mit.edu	37	chr5	74981058	74981058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgatgcagcagtagctgCagatcctgcaccaagagcag	11	8	11	11	0	1	3	0	1	1	2	2	3	2	3	2	0	6	7	2	0	2	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	74981058	A	A	74981058	3	1	116	1	0	0	0	0	1	0	0	0	12177	710	25	4	358	4	POC5	5	74981058	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	10088093	74981058	105934202	21	6545											
GPRIN1	114787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176026768	176026768	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagaagaaggctgtgggtCggggtcctggggggctggaa	7	6	22	6	1	0	2	0	0	0	2	2	3	1	3	1	9	0	3	1	9	3	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	176026768	C	T	176026768	3	4	116	1	0	0	0	0	1	0	0	0	6729	884	31	1	2962	1	GPRIN1	5	176026768	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	101045710	176026768	4888492	22	6546											
EXOC2	55770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	532529	532529	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaattccaggttctaaggAgccaacgatgggatctgctt	12	11	10	8	1	2	0	0	0	2	0	3	3	3	2	2	3	3	2	2	3	4	5	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	532529	A	G	532529	3	3	116	1	0	0	0	0	1	0	0	0	5302	304	11	3	478	3	EXOC2	6	532529	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08		532529	170582538	23	6547											
GCNT2	2651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	10529342	10529342	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacagaaaatgcattgaaAactacccttgatgaagctac	17	8	6	10	0	0	4	0	3	0	1	0	4	0	4	2	0	6	2	2	0	8	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	10529342	A	T	10529342	3	4	116	1	0	0	0	0	1	0	0	0	6301	11	1	5	200	5	GCNT2	6	10529342	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	9996813	10529342	160585725	24	6548											
HIST1H3J	8356	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27858524	27858524	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagctgcttccgcggtGccttgccgccggtagacttg	3	10	14	14	4	0	1	0	0	0	1	1	1	1	1	5	3	4	3	5	3	1	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	27858524	G	A	27858524	3	1	116	1	0	0	0	0	1	0	0	0	7164	1319	46	2	367	2	HIST1H3J	6	27858524	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	17329182	27858524	143256543	25	6549											
ZNF165	7718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28053590	28053590	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaggcctgggtacatgAacattacccagagagtggag	11	9	13	8	0	0	2	0	1	0	1	0	4	0	3	2	3	4	2	2	3	3	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	28053590	A	T	28053590	3	4	116	1	0	0	0	0	1	0	0	0	17739	246	9	5	334	5	ZNF165	6	28053590	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	195066	28053590	143061477	26	6550											
GPR63	81491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	97247000	97247000	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacacaaaaggaagttgccCaagaaactgcaatcagaacc	18	5	7	11	0	1	2	1	0	0	2	1	3	1	3	2	1	5	2	2	1	8	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	97247000	C	A	97247000	3	1	116	1	0	0	0	0	1	0	0	0	6704	595	21	4	655	4	GPR63	6	97247000	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	69193410	97247000	73868067	27	6551											
RAPGEF5	9771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	22165225	22165225	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacttcaattactcaccaaActggttagtcctgcagtgtc	10	13	7	11	0	2	1	2	1	0	0	4	1	3	1	2	1	3	2	2	1	4	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	22165225	A	T	22165225	3	4	116	1	0	0	0	0	1	0	0	0	13049	43	2	5	126	5	RAPGEF5	7	22165225	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08		22165225	136973438	28	6552											
KIAA0895	23366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	36396886	36396886	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccgcctctccaggcagtaCcaagtaccactgcttgtcac	8	8	9	16	1	2	0	1	0	1	0	3	0	2	0	5	2	3	4	5	2	3	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	36396886	C	A	36396886	3	1	116	1	0	0	0	0	1	0	0	0	8197	508	18	4	1090	4	KIAA0895	7	36396886	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	14231661	36396886	122741777	29	6553											
PLOD3	8985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100856398	100856398	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtggcaccttagtgggaCcgtttccatggaccacaatg	8	10	12	11	1	0	0	0	0	0	0	1	2	1	2	4	4	0	2	4	4	2	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	100856398	C	T	100856398	3	4	116	1	0	0	0	0	1	0	0	0	12103	507	18	2	1501	2	PLOD3	7	100856398	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	64459512	100856398	58282265	30	6554											
RELN	5649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	103293158	103293158	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgagacaaaatttggtagCaggagtctgaagttcaggat	13	10	12	6	0	2	2	1	2	1	1	2	5	2	4	1	3	1	3	1	3	4	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	103293158	C	G	103293158	3	3	116	1	0	0	0	0	1	0	0	0	13222	710	25	4	8987	4	RELN	7	103293158	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	2436760	103293158	55845505	31	6555											
ST7	7982	broad.mit.edu	37	chr7	116870009	116870009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagcatgactttgaaaaaggGaagccattccgagattttaa	16	10	9	6	1	0	3	0	2	0	1	1	5	1	4	2	1	2	1	2	1	5	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	116870009	A	A	116870009	2	1	116	1	0	0	0	0	0	0	0	1	15230	1189	41	2		2	ST7	7	116870009	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08	13576851	116870009	42268654	32	6556											
RP1L1	94137	broad.mit.edu;hgsc.bcm.edu	37	chr8	10468848	10468848	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcttctcctcggacagcccCcgagaccccgcaccctggct	5	7	9	20	3	2	1	0	0	2	1	4	3	2	2	6	2	1	2	6	2	0	1	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	10468848	C	T	10468848	2	4	116	1	0	0	0	0	0	0	0	1	13535	610	22	2		2	RP1L1	8	10468848	Silent	SNP	C	TCGA-B0-5092-01A-01D-1421-08		10468848	135895174	33	6557											
PPAPDC1B	84513	broad.mit.edu	37	chr8	38125965	38125965	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagatcagagacagtggagaGagaaatgcaataacctgaat	19	6	11	5	0	1	5	1	1	0	4	1	8	1	5	1	1	2	1	1	1	5	1	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	38125965	C	C	38125965	2	2	116	1	0	0	0	0	0	0	0	1	12294	929	33	4		4	PPAPDC1B	8	38125965	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08	27657117	38125965	108238057	34	6558											
FGFR1	2260	broad.mit.edu;hgsc.bcm.edu	37	chr8	38275767	38275767	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcccgaggcagctcccagCgagggtcttcgggaagctca	7	7	14	13	3	2	0	1	0	1	0	5	3	4	1	2	3	3	3	2	3	1	1	rs121909637	alternate_allele	TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	38275767	C	G	38275767	3	3	116	1	0	0	0	0	1	0	0	0	5863	768	27	4	1095	4	FGFR1	8	38275767	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	149802	38275767	108088255	35	6559											
FAM110B	90362	broad.mit.edu	37	chr8	59059205	59059205	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggctcggggcacaagcAcagctcccgcaactggccgc	7	4	13	17	4	0	0	0	0	0	0	3	0	1	0	2	4	3	5	2	4	2	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	59059205	G	G	59059205	3	3	116	1	0	0	0	0	1	0	0	0	5397	159	6	3	418	3	FAM110B	8	59059205	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	20783438	59059205	87304817	36	6560											
PTAR1	375743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	72338284	72338284	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctgggtaggaatcaataAgatcagtgctgaattcaact	13	11	10	7	0	3	2	3	1	0	1	4	3	4	3	1	2	2	2	1	2	6	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	72338284	A	T	72338284	3	4	116	1	0	0	0	0	1	0	0	0	12726	72	3	5	315	5	PTAR1	9	72338284	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08		72338284	68875147	37	6561											
RGS3	5998	broad.mit.edu;hgsc.bcm.edu	37	chr9	116346645	116346645	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgcccagcaccctcaagaaaGagctgggccgcaatggtggc	10	4	13	14	2	1	2	1	0	0	2	1	2	1	2	3	3	2	3	3	3	3	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	116346645	G	C	116346645	3	2	116	1	0	0	0	0	1	0	0	0	13308	943	33	4	3284	4	RGS3	9	116346645	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	44008361	116346645	24866786	38	6562											
FUBP3	8939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133485350	133485350	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccacagtaggtaaccAgttaggggccttggtacatc	9	11	11	10	0	0	0	0	0	0	0	1	0	0	0	3	4	3	4	3	4	4	6	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	133485350	A	T	133485350	3	4	116	1	0	0	0	0	1	0	0	0	6093	188	7	5	210	5	FUBP3	9	133485350	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	17138705	133485350	7728081	39	6563											
AKR1C1	1645	broad.mit.edu;hgsc.bcm.edu	37	chr10	5011032	5011032	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgtggagaagtgtaaaGatgcaggattggccaagtcc	12	7	15	7	1	0	2	0	0	0	2	1	4	1	3	3	4	1	2	3	4	4	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	5011032	G	T	5011032	3	4	116	1	0	0	0	0	1	0	0	0	469	942	33	4	484	4	AKR1C1	10	5011032	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08		5011032	130523715	40	6564											
CAMK1D	57118	hgsc.bcm.edu;ucsc.edu	37	chr10	12833227	12833228	+	Frame_Shift_Ins	INS	-	-	A																															ccatcggagtgattgcctacINSatcttgtaagtactgcctgc																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	12833228	-	A	12833227	7	5	116	1	0	1	1	0	0	0	0	0	2597	489	17	0	658	0	CAMK1D	10	12833227	Frame_Shift_Ins	INS	-	TCGA-B0-5092-01A-01D-1421-08	7822195	12833227	122701520	41	6565											
CUZD1	50624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	124594540	124594540	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatctggagttgtttctgaCgggtgatcacttcagaagtt	9	15	11	6	1	4	3	2	2	2	1	4	4	4	4	0	2	0	3	0	2	2	5	rs188322992	by1000genomes	TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	124594540	C	T	124594540	3	4	116	1	0	0	0	0	1	0	0	0	4066	536	19	1	771	1	CUZD1	10	124594540	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	111761313	124594540	10940207	42	6566											
TUB	7275	hgsc.bcm.edu	37	chr11	8111676	8111676	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccctgatggtgcaggccAatgcagatgggcggccccgg	7	5	16	13	2	0	2	0	1	0	1	0	2	0	2	5	5	3	2	5	5	1	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	8111676	A	T	8111676	3	4	116	1	0	0	0	0	1	0	0	0	16741	130	5	5	372	5	TUB	11	8111676	Missense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08		8111676	126894840	43	6567											
HIPK3	10114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33363111	33363111	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgctcgttgtttcaggcAttgaccacatctgctcattc	7	15	8	11	1	3	1	2	1	1	0	5	1	3	1	1	1	2	5	1	1	0	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	33363111	A	G	33363111	2	3	116	1	0	0	0	0	0	0	0	1	7118	204	8	3		3	HIPK3	11	33363111	Silent	SNP	A	TCGA-B0-5092-01A-01D-1421-08	25251435	33363111	101643405	44	6568											
SF3B2	10992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65827424	65827424	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaagccccccttcgagctgCcagacttcatcaaacgcaca	12	6	7	16	2	2	2	2	0	0	2	3	3	2	2	4	0	4	2	4	0	2	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	65827424	C	T	65827424	3	4	116	1	0	0	0	0	1	0	0	0	14153	739	26	2	1623	2	SF3B2	11	65827424	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	32464313	65827424	69179092	45	6569											
FOLR4	390243	broad.mit.edu;ucsc.edu	37	chr11	94040428	94040428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcgcatgtcttacacatGcaaatccaactggcgtggtg	9	11	10	11	2	1	0	0	0	1	0	3	0	2	0	1	2	3	2	1	2	3	1	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	94040428	A	A	94040428	3	1	116	1	0	0	0	0	1	0	0	0	5984	1319	46	2	435	2	FOLR4	11	94040428	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08	28213004	94040428	40966088	46	6570											
DDX6	1656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118656898	118656898	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgggtttcacagggcctctCagctgaccattttgactgga	7	12	12	10	0	2	2	2	2	1	0	3	3	2	3	2	3	1	2	2	3	0	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	118656898	C	T	118656898	2	4	116	1	0	0	0	0	0	0	0	1	4377	813	29	2		2	DDX6	11	118656898	Silent	SNP	C	TCGA-B0-5092-01A-01D-1421-08	24616470	118656898	16349618	47	6571											
KLRC2	3822	broad.mit.edu;hgsc.bcm.edu	37	chr12	10588502	10588502	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggttcctgaaatggagctTttattgcctttaggtttcct	6	18	9	8	1	0	1	0	1	0	0	3	2	2	2	3	3	2	3	3	3	3	7	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	10588502	T	A	10588502	3	1	116	1	0	0	0	0	1	0	0	0	8416	1838	64	5	635	5	KLRC2	12	10588502	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08		10588502	123263393	48	6572											
NCKAP1L	3071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54893217	54893217	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaagtatatcaacaagAaatttcccaacatagatgtc	16	11	4	10	0	2	2	2	0	1	2	5	2	3	2	1	0	2	1	1	0	8	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	54893217	A	T	54893217	4	4	116	1	0	0	0	0	0	1	0	0	10222	247	9	5	187	5	NCKAP1L	12	54893217	Nonsense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	44304715	54893217	78958678	49	6573											
PHLDA1	22822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	76424988	76424988	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgggcgggataagcagcagCccttcctcggtgaggatgca	8	8	15	10	2	0	1	0	1	0	0	2	3	1	3	2	4	4	3	2	4	1	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	76424988	C	T	76424988	2	4	116	1	0	0	0	0	0	0	0	1	11848	726	26	2		2	PHLDA1	12	76424988	Silent	SNP	C	TCGA-B0-5092-01A-01D-1421-08	21531771	76424988	57426907	50	6574											
NT5DC3	51559	broad.mit.edu;hgsc.bcm.edu	37	chr12	104182685	104182685	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagacacctttctcattcatCtttcggaaaggcctaacaac	13	11	5	12	1	3	1	2	0	2	1	5	2	3	2	2	2	2	0	2	2	4	4	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	104182685	C	G	104182685	3	3	116	1	0	0	0	0	1	0	0	0	10692	912	32	4	634	4	NT5DC3	12	104182685	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	27757697	104182685	29669210	51	6575											
RASAL1	8437	broad.mit.edu	37	chr12	113565939	113565939	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaggtgcaccgtgtacTcctccccccagaaggggccc	7	5	13	16	1	0	1	0	0	0	1	2	2	2	1	6	4	2	3	6	4	2	1	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	113565939	A	A	113565939	3	1	116	1	0	0	0	0	1	0	0	0	13065	1551	54	5	2323	5	RASAL1	12	113565939	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08	9383254	113565939	20285956	52	6576											
CDADC1	81602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	49852533	49852533	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactttgtaggatgtggttaCaatgcttttcctgttggatc	7	18	10	6	0	0	0	0	0	0	0	2	2	1	2	1	3	3	4	1	3	4	7	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	49852533	C	T	49852533	2	4	116	1	0	0	0	0	0	0	0	1	3053	489	17	2		2	CDADC1	13	49852533	Silent	SNP	C	TCGA-B0-5092-01A-01D-1421-08		49852533	65317345	53	6577											
EIF2AK4	440275	hgsc.bcm.edu;ucsc.edu	37	chr15	40299258	40299258	+	Frame_Shift_Del	DEL	T	T	-																															gcaagaaataatatattgaaTttaaaacggtaagaaacaat																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		-	40299258	T	-	40299258	7	5	116	1	0	1	0	1	0	0	0	0	4999	1490	52	0	3493	0	EIF2AK4	15	40299258	Frame_Shift_Del	DEL	T	TCGA-B0-5092-01A-01D-1421-08		40299258	62232134	54	6578											
TNRC6A	27327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24788568	24788568	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcattttcctgttatagcaGcaaaccttggatctgctgtt	9	15	8	9	0	1	0	0	0	1	0	2	1	2	1	2	1	5	6	2	1	3	6	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	24788568	G	A	24788568	3	1	116	1	0	0	0	0	1	0	0	0	16339	971	34	2	496	2	TNRC6A	16	24788568	Missense_Mutation	SNP	G	TCGA-B0-5092-01A-01D-1421-08		24788568	65566185	55	6579											
ATXN2L	11273	hgsc.bcm.edu;ucsc.edu	37	chr16	28847383	28847383	+	Frame_Shift_Del	DEL	G	G	-																															aaggcgcggtgccccagagtGgggtgcctgcactctcagct																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		-	28847383	G	-	28847383	7	5	116	1	0	1	0	1	0	0	0	0	1212	1348	47	0	3111	0	ATXN2L	16	28847383	Frame_Shift_Del	DEL	G	TCGA-B0-5092-01A-01D-1421-08	4058815	28847383	61507370	56	6580											
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7579396	7579396	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtaggttttctgggaaggGacagaagatgacaggggcca	11	8	17	5	0	1	3	0	1	1	2	1	5	1	5	1	6	0	2	1	6	3	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	7579396	G	A	7579396	2	1	116	1	0	0	0	0	0	0	0	1	16380	1161	41	2		2	TP53	17	7579396	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08		7579396	73615814	57	6581											
SUZ12	23512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30302576	30302576	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctgacctcaatcaaacaAaacccggaaatttcccgtcc	14	8	4	15	2	2	1	2	1	0	0	5	2	5	2	5	1	2	0	5	1	5	1	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	30302576	A	T	30302576	4	4	116	1	0	0	0	0	0	1	0	0	15415	15	1	5	693	5	SUZ12	17	30302576	Nonsense_Mutation	SNP	A	TCGA-B0-5092-01A-01D-1421-08	22723180	30302576	50892634	58	6582											
ACSF2	80221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48538731	48538731	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcgggcatcattctGgtgaggaggggcttgcttgg	5	9	18	9	1	2	1	1	1	1	0	2	2	2	2	1	7	1	3	1	7	0	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	48538731	G	C	48538731	2	2	116	1	0	0	0	0	0	0	0	1	175	1362	47	4		4	ACSF2	17	48538731	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08	18236155	48538731	32656479	59	6583											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9065878	9065878	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggattcatgtccagagcTgggaatctccacattggacg	10	9	13	9	1	2	1	1	0	1	1	4	4	3	4	2	4	1	1	2	4	1	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	9065878	T	C	9065878	3	2	116	1	0	0	0	0	1	0	0	0	9973	1580	55	3	22283	3	MUC16	19	9065878	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08		9065878	50063105	60	6584											
GPATCH1	55094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	33608751	33608751	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtcaacaaagatgtggaCgcacaggctgaaggagaagg	15	4	14	8	2	1	3	1	1	0	2	1	5	1	4	1	4	1	2	1	4	4	0	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	33608751	C	T	33608751	2	4	116	1	0	0	0	0	0	0	0	1	6590	535	19	1		1	GPATCH1	19	33608751	Silent	SNP	C	TCGA-B0-5092-01A-01D-1421-08	24542873	33608751	25520232	61	6585											
SPEF1	25876	broad.mit.edu;hgsc.bcm.edu	37	chr20	3759097	3759097	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcttgagaggccaacagctCctgctccttttcagcgatct	7	12	8	14	1	3	1	1	1	2	1	5	3	5	1	3	1	4	2	3	1	1	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		T	3759097	C	T	3759097	3	4	116	1	0	0	0	0	1	0	0	0	15035	864	30	2	144	2	SPEF1	20	3759097	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08		3759097	59266423	62	6586											
SFRS15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33074643	33074643	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggttgaataatttcaattTtgaacactccatttttttgc	11	18	6	6	0	1	2	1	2	0	0	2	3	2	2	1	1	2	1	1	1	4	8	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	33074643	T	C	33074643	3	2	116	1	0	0	0	0	1	0	0	0	14173	1841	64	3	3136	3	SFRS15	21	33074643	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08		33074643	15055252	63	6587											
CBR1	873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37445149	37445149	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagggtccccatggacaatTtgtttcagagaagagagttg	11	11	13	6	0	1	3	1	1	0	2	2	6	2	4	2	2	0	2	2	2	2	3	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		G	37445149	T	G	37445149	3	3	116	1	0	0	0	0	1	0	0	0	2708	1841	64	5	813	5	CBR1	21	37445149	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08	4370506	37445149	10684746	64	6588											
SLC5A1	6523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32482294	32482294	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcctatccaaccttagTggtggagctcatgcccaatg	9	10	9	13	1	1	0	1	0	0	0	3	1	2	1	4	2	3	1	4	2	4	2	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	32482294	T	C	32482294	3	2	116	1	0	0	0	0	1	0	0	0	14663	1696	59	3	1147	3	SLC5A1	22	32482294	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08		32482294	18822272	65	6589											
TCF20	6942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42605745	42605745	+	Missense_Mutation	SNP	T	T	A																															tggcccagagaatacaacccTcatggacccaaaattcattg																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	42605745	T	A	42605745	3	1	116	1	0	0	0	0	1	0	0	0	15689	1551	54	5	353	5	TCF20	22	42605745	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08	10123451	42605745	8698821	66	6590	81	2									
TCF20	6942	broad.mit.edu;ucsc.edu	37	chr22	42605746	42605746	+	Nonsense_Mutation	SNP	C	A	A																															ggcccagagaatacaaccctCatggacccaaaattcattgc																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	42605746	A	A	42605746	4	1	116	1	0	0	0	0	0	1	0	0	15689	835	29	4	354	4	TCF20	22	42605746	Nonsense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	1	42605746	8698820	67	6591	81	2									
FBLN1	2192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45929741	45929741	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagcgggacagcagctgcggGactggctatgagctcacaga	10	5	15	11	2	1	2	1	1	0	1	1	4	1	4	0	3	5	4	0	3	1	1	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	45929741	G	A	45929741	2	1	116	1	0	0	0	0	0	0	0	1	5698	1161	41	2		2	FBLN1	22	45929741	Silent	SNP	G	TCGA-B0-5092-01A-01D-1421-08	3323995	45929741	5374825	68	6592											
WNK3	65267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54321069	54321069	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttcagtttcttcacatTcagccccagtttgctgagcg	8	13	7	13	1	4	1	3	1	1	0	4	1	4	1	2	0	4	3	2	0	1	5	novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		C	54321069	T	C	54321069	3	2	116	1	0	0	0	0	1	0	0	0	17378	1783	62	3	3860	3	WNK3	23	54321069	Missense_Mutation	SNP	T	TCGA-B0-5092-01A-01D-1421-08		54321069	100949491	69	6593											
TSPAN6	7105	broad.mit.edu	37	chrX	99890219	99890219	+	Missense_Mutation	SNP	C	A	A																															gatggcagcgaccagttcgaCcaaaaaaacgagagtcagaa																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	99890219	A	A	99890219	3	1	116	1	0	0	0	0	1	0	0	0	16650	507	18	4	450	4	TSPAN6	23	99890219	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	45569150	99890219	55380341	70	6594	82	2									
TSPAN6	7105	broad.mit.edu;hgsc.bcm.edu	37	chrX	99890220	99890220	+	Missense_Mutation	SNP	C	C	A																															atggcagcgaccagttcgacCaaaaaaacgagagtcagaaa																								novel		TCGA-B0-5092-01A-01D-1421-08	TCGA-B0-5092-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76b9d9e3-6010-4894-8435-debe95a376b5	36ee6525-023c-42c2-a752-38bc55af5aba		A	99890220	C	A	99890220	3	1	116	1	0	0	0	0	1	0	0	0	16650	593	21	4	451	4	TSPAN6	23	99890220	Missense_Mutation	SNP	C	TCGA-B0-5092-01A-01D-1421-08	1	99890220	55380340	71	6595	82	2									
PTCHD2	57540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11594491	11594491	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tactcggactacctgcgctgGgagagcttcctccagcagca	8	8	11	14	2	0	1	0	0	0	1	3	3	2	2	3	2	6	4	3	2	2	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	11594491	G	T	11594491	3	4	117	1	0	0	0	0	1	0	0	0	12735	1241	43	4	3495	4	PTCHD2	1	11594491	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08		11594491	237656130	1	6596											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19482023	19482023	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcttccataagctgagtaTagatgtacccagccgaagac	12	9	8	12	1	1	3	0	1	1	2	2	4	2	3	4	0	3	3	4	0	5	5	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	19482023	T	C	19482023	3	2	117	1	0	0	0	0	1	0	0	0	16903	1406	49	3	9595	3	UBR4	1	19482023	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	7887532	19482023	229768598	2	6597											
HIVEP3	59269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	42045713	42045713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttctttgagtccgtacCttcttgtgacttggctggtc	4	17	9	11	1	2	2	0	2	2	0	4	2	3	2	3	2	2	2	3	2	2	7	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	42045713	C	T	42045713	3	4	117	1	0	0	0	0	1	0	0	0	7188	681	24	2	2488	2	HIVEP3	1	42045713	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	22563690	42045713	207204908	3	6598											
MCOLN3	55283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85491737	85491737	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcagaaacagaaacttccTtcttataatggaggaggaaa	17	9	9	6	0	2	2	1	0	1	2	3	6	3	5	1	3	2	0	1	3	5	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	85491737	T	C	85491737	3	2	117	1	0	0	0	0	1	0	0	0	9397	1609	56	3	701	3	MCOLN3	1	85491737	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	43446024	85491737	163758884	4	6599											
NOTCH2	4853	broad.mit.edu;hgsc.bcm.edu	37	chr1	120464896	120464896	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcccactggctcacgacGcttgtgattgcttgcatctc	5	13	9	14	2	2	1	1	1	1	0	4	2	3	1	1	1	2	4	1	1	0	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	120464896	G	A	120464896	2	1	117	1	0	0	0	0	0	0	0	1	10548	1087	38	1		1	NOTCH2	1	120464896	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	34973159	120464896	128785725	5	6600											
NR1I3	9970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161200669	161200669	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgccatctcctcttgcAgctgatcaatctcatctctc	7	14	5	15	0	6	1	3	1	4	0	10	1	6	1	2	0	3	2	2	0	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	161200669	A	T	161200669	3	4	117	1	0	0	0	0	1	0	0	0	10621	188	7	5	298	5	NR1I3	1	161200669	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08	40735773	161200669	88049952	6	6601											
C1orf114	57821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169391258	169391258	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggttcttgattctgtagAagcttgttagcttgtacaat	9	16	9	7	1	2	2	0	1	2	1	2	2	2	2	1	1	3	6	1	1	5	8	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	169391258	A	G	169391258	2	3	117	1	0	0	0	0	0	0	0	1	1987	233	9	3		3	C1orf114	1	169391258	Silent	SNP	A	TCGA-B0-5094-01A-01D-1421-08	8190589	169391258	79859363	7	6602											
RNASEL	6041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	182551344	182551344	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgagctttcagatcctcaAatgagatgcttcccttcttt	8	17	6	10	0	3	3	2	2	1	2	5	4	5	3	2	0	2	2	2	0	1	5	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	182551344	A	G	182551344	3	3	117	1	0	0	0	0	1	0	0	0	13418	14	1	3	625	3	RNASEL	1	182551344	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08	13160086	182551344	66699277	8	6603											
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183194784	183194784	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taattggagcccccagctgaGttactttgagtatcgaaggt	10	12	11	8	1	0	2	0	2	0	0	1	4	0	3	2	2	3	3	2	2	4	5	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	183194784	G	C	183194784	3	2	117	1	0	0	0	0	1	0	0	0	8615	1029	36	4	1025	4	LAMC2	1	183194784	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	643440	183194784	66055837	9	6604											
SERTAD4	56256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	210412917	210412917	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagtatgtggaagaagaGgattttcacccaccactcag	14	8	11	8	0	2	2	2	0	0	2	2	5	2	5	2	3	0	1	2	3	4	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	210412917	G	A	210412917	2	1	117	1	0	0	0	0	0	0	0	1	14125	991	35	2		2	SERTAD4	1	210412917	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	27218133	210412917	38837704	10	6605											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu	37	chr1	216595423	216595423	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatctgtatgggcaatcctGaatacaaaaccgctgggtac	13	9	10	9	1	1	2	0	1	1	1	2	2	2	2	2	2	3	4	2	2	7	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	216595423	G	T	216595423	3	4	117	1	0	0	0	0	1	0	0	0	17035	1299	45	4	15650	4	USH2A	1	216595423	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	6182506	216595423	32655198	11	6606											
GJC2	57165	broad.mit.edu	37	chr1	228346349	228346349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggcagcgcgcaggacgCggtgcgcggccgccgcggcc	3	3	19	16	9	0	0	0	0	0	0	0	1	0	1	3	5	2	2	3	5	0	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	228346349	T	T	228346349	3	4	117	1	0	0	0	0	1	0	0	0	6415	768	27	1	892	1	GJC2	1	228346349	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	11750926	228346349	20904272	12	6607											
CPSF3	51692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	9588441	9588441	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataatcctcggaatacagaaGcagtgaccttaaacttcaga	16	9	7	9	1	1	3	1	1	0	2	3	4	2	4	2	1	3	1	2	1	6	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	9588441	G	A	9588441	3	1	117	1	0	0	0	0	1	0	0	0	3826	971	34	2	1399	2	CPSF3	2	9588441	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08		9588441	233610932	13	6608											
LOXL3	84695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74763177	74763177	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggaccccggcatcctggctAtgtgaacaatcctcagctgt	8	9	10	14	2	1	1	1	1	0	0	3	2	3	2	4	3	2	3	4	3	3	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	74763177	A	C	74763177	3	2	117	1	0	0	0	0	1	0	0	0	8901	446	16	5	1099	5	LOXL3	2	74763177	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08	65174736	74763177	168436196	14	6609											
RAB3GAP1	22930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135926185	135926185	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggaaagaaggcagaactCcgtgtcagacttcccacccc	13	5	10	13	1	1	4	1	0	0	4	3	5	3	5	4	2	1	1	4	2	3	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	135926185	C	A	135926185	3	1	117	1	0	0	0	0	1	0	0	0	12937	855	30	4	2899	4	RAB3GAP1	2	135926185	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	61163008	135926185	107273188	15	6610											
EVX2	344191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	176948341	176948341	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcgctgtgcaggggggcaGacggcaggcgcgggcttagg	6	4	22	9	4	0	1	0	0	0	1	0	2	0	1	0	7	2	5	0	7	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	176948341	G	A	176948341	3	1	117	1	0	0	0	0	1	0	0	0	5295	942	33	2	1276	2	EVX2	2	176948341	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	41022156	176948341	66251032	16	6611											
TTN	7273	broad.mit.edu;hgsc.bcm.edu	37	chr2	179441300	179441300	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctgaagcctcactgggtGgaccaattcctgctctgttt	8	13	9	11	0	3	1	1	1	2	0	4	2	4	2	3	2	2	2	3	2	3	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	179441300	G	A	179441300	3	1	117	1	0	0	0	0	1	0	0	0	16734	1348	47	2	38460	2	TTN	2	179441300	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	2492959	179441300	63758073	17	6612											
CRYGB	1419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	209007477	209007477	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgcctccccctgtagttgGgcatctcatagaggatccag	8	10	10	13	0	1	1	1	0	1	1	4	2	3	2	4	2	1	3	4	2	2	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	209007477	G	C	209007477	3	2	117	1	0	0	0	0	1	0	0	0	3915	1232	43	4	118	4	CRYGB	2	209007477	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	29566177	209007477	34191896	18	6613											
PASK	23178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	242063382	242063382	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttccaccaggctgggtccGgtgagctcagcagcggtaga	8	7	14	12	2	1	2	1	1	0	1	3	2	3	2	3	4	3	4	3	4	1	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	242063382	G	C	242063382	2	2	117	1	0	0	0	0	0	0	0	1	11472	1103	39	4		4	PASK	2	242063382	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	33055905	242063382	1135991	19	6614											
ALS2CL	259173	broad.mit.edu;ucsc.edu	37	chr3	46721931	46721931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccactcaccaccgtcttgtCcgcctggaaggtgccctggt	5	10	10	16	2	2	0	1	0	1	0	4	1	4	1	6	3	1	0	6	3	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	46721931	A	A	46721931	3	1	117	1	0	0	0	0	1	0	0	0	551	855	30	4	1376	4	ALS2CL	3	46721931	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		46721931	151300499	20	6615											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52588877	52588877	+	Frame_Shift_Del	DEL	G	G	-																															gcaaaggtggaaggcctggcGgatagccacccatcatgcct																								novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		-	52588877	G	-	52588877	7	5	117	1	0	1	0	1	0	0	0	0	11491	1116	39	0	613	0	PBRM1	3	52588877	Frame_Shift_Del	DEL	G	TCGA-B0-5094-01A-01D-1421-08	5866946	52588877	145433553	21	6616											
ZBBX	79740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	166958709	166958709	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatctcttccagaacagcTgaaaatacataacaagatca	17	9	6	9	0	2	3	1	1	1	2	4	3	3	3	1	1	4	2	1	1	7	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	166958709	T	A	166958709	5	1	117	1	0	0	0	0	0	0	1	0	17515	1594	55	5	131	5	ZBBX	3	166958709	Splice_Site	SNP	T	TCGA-B0-5094-01A-01D-1421-08	114369832	166958709	31063721	22	6617											
ACOX3	8310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8394072	8394072	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctactggccagatagcCgtgtcctccacacgcctccc	9	7	7	18	2	0	1	0	0	0	1	3	1	3	1	7	1	3	0	7	1	3	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	8394072	C	T	8394072	3	4	117	1	0	0	0	0	1	0	0	0	160	652	23	1	846	1	ACOX3	4	8394072	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		8394072	182760204	23	6618											
TLR6	10333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	38830418	38830418	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcattcaatttaatattaGtcagttgtaagcaccctaaa	15	14	4	8	0	3	0	3	0	0	0	3	0	3	0	1	0	1	3	1	0	7	8	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	38830418	G	T	38830418	3	4	117	1	0	0	0	0	1	0	0	0	15954	1029	36	4	1717	4	TLR6	4	38830418	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	30436346	38830418	152323858	24	6619											
RFC1	5981	hgsc.bcm.edu;ucsc.edu	37	chr4	39328257	39328258	+	Frame_Shift_Del	DEL	AA	AA	-																															agactcatctgtattttgtgAaagctatatttcaaagaaaa																								novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		-	39328258	AA	-	39328257	7	5	117	1	0	1	0	1	0	0	0	0	13246	246	9	0	2955	0	RFC1	4	39328257	Frame_Shift_Del	DEL	AA	TCGA-B0-5094-01A-01D-1421-08	497839	39328257	151826019	25	6620											
RUFY3	22902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71634345	71634345	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaatgtcattgatgccaaTttctgtatgaaaggagaaga	14	12	10	5	0	2	5	1	3	1	2	2	6	2	5	1	1	1	1	1	1	5	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	71634345	T	G	71634345	3	3	117	1	0	0	0	0	1	0	0	0	13742	1490	52	5	1043	5	RUFY3	4	71634345	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	32306088	71634345	119519931	26	6621											
DMGDH	29958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	78359437	78359437	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggtgcttttcttactGcgtgccaggtagatccagcc	5	14	12	10	1	1	1	0	0	1	1	2	1	2	1	3	3	5	2	3	3	2	5	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	78359437	G	T	78359437	3	4	117	1	0	0	0	0	1	0	0	0	4581	1333	46	4	2385	4	DMGDH	5	78359437	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08		78359437	102555823	27	6622											
RASA1	5921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	86674302	86674302	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctacacagtttgttcatCatgctttgaaagactctatt	10	16	6	9	0	3	2	2	1	1	1	3	2	3	2	0	0	3	4	0	0	3	6	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	86674302	C	T	86674302	3	4	117	1	0	0	0	0	1	0	0	0	13062	826	29	2	2516	2	RASA1	5	86674302	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	8314865	86674302	94240958	28	6623											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56484745	56484745	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctacctgctgtttgagttCttctgctttctgcttgtcat	4	20	7	10	0	5	1	1	1	4	0	5	1	5	1	1	0	4	5	1	0	1	6	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	56484745	C	A	56484745	4	1	117	1	0	0	0	0	0	1	0	0	4783	922	32	4	16316	4	DST	6	56484745	Nonsense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		56484745	114630322	29	6624											
DOPEY1	23033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	83838711	83838711	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcactgagtttatacaatatCaagcagaccgaactgatgat	15	11	7	8	1	2	4	2	3	0	1	2	5	2	4	1	0	3	2	1	0	6	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	83838711	C	G	83838711	3	3	117	1	0	0	0	0	1	0	0	0	4707	827	29	4	1879	4	DOPEY1	6	83838711	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	27353966	83838711	87276356	30	6625											
THBS2	7058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	169634969	169634969	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaggtgacagtgcaggccGaccacggggaccaggggctc	9	3	16	13	2	0	1	0	1	0	0	1	3	0	2	3	6	1	2	3	6	0	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	169634969	G	A	169634969	3	1	117	1	0	0	0	0	1	0	0	0	15853	1059	37	1	2059	1	THBS2	6	169634969	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	85796258	169634969	1480098	31	6626											
DFNA5	1687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	24758693	24758693	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcttggtctggatgcccacGatgccaccacacttctcctc	6	11	8	16	1	3	0	0	0	3	0	5	2	3	1	4	2	2	0	4	2	0	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	24758693	G	A	24758693	2	1	117	1	0	0	0	0	0	0	0	1	4454	1048	37	1		1	DFNA5	7	24758693	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08		24758693	134379970	32	6627											
CDK14	5218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	90355879	90355879	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaatttcttcttttctcAgatatgtgtcacaaagatgt	11	19	5	6	0	4	2	2	0	3	2	5	2	4	2	0	0	0	0	0	0	3	7	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	90355879	A	T	90355879	5	4	117	1	0	0	0	0	0	0	1	0	3130	202	7	5	74	5	CDK14	7	90355879	Splice_Site	SNP	A	TCGA-B0-5094-01A-01D-1421-08	65597186	90355879	68782784	33	6628											
SLC25A13	10165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	95776002	95776002	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaaaatcacctgggagcCtccagcctaaaaagaacaaa	17	6	8	10	0	1	2	1	1	0	1	2	3	2	3	4	1	3	0	4	1	7	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	95776002	C	T	95776002	3	4	117	1	0	0	0	0	1	0	0	0	14477	681	24	2	729	2	SLC25A13	7	95776002	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	5420123	95776002	63362661	34	6629											
MYL10	93408	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	101256829	101256829	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttgccgcacacatctggggGaaatgctgcaaacatctgct	10	9	11	11	1	2	0	0	0	2	0	2	1	2	1	1	2	5	5	1	2	2	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	101256829	G	A	101256829	3	1	117	1	0	0	0	0	1	0	0	0	10044	1174	41	2	77	2	MYL10	7	101256829	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	5480827	101256829	57881834	35	6630											
CHRM2	1129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	136700642	136700642	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccccaactaataccaccGtggaggtagtggggtcttca	10	9	11	11	1	2	0	1	0	1	0	2	1	2	1	4	4	3	2	4	4	5	5	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	136700642	G	A	136700642	3	1	117	1	0	0	0	0	1	0	0	0	3377	1145	40	1	1032	1	CHRM2	7	136700642	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	35443813	136700642	22438021	36	6631											
XKR4	114786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	56436707	56436707	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctattttagcttttgaatGttccccatctcctccaaggc	7	15	7	12	0	1	1	0	1	1	0	4	1	3	1	4	2	1	3	4	2	4	6	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	56436707	G	A	56436707	3	1	117	1	0	0	0	0	1	0	0	0	17432	1377	48	2	1884	2	XKR4	8	56436707	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08		56436707	89927315	37	6632											
RALYL	138046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	85774642	85774642	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaaaggagtcttttccatGaaaggtggatcgagatctac	12	10	13	6	1	2	2	0	1	2	1	4	6	3	5	1	4	1	0	1	4	3	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	85774642	G	A	85774642	3	1	117	1	0	0	0	0	1	0	0	0	13022	1290	45	2	586	2	RALYL	8	85774642	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	29337935	85774642	60589380	38	6633											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	100515083	100515083	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtttgtatggtcagtgaActagaagatctcagtgcttc	10	13	12	6	0	2	3	2	1	1	2	4	4	2	3	0	2	2	3	0	2	4	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	100515083	A	T	100515083	3	4	117	1	0	0	0	0	1	0	0	0	17189	40	2	5	4287	5	VPS13B	8	100515083	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08	14740441	100515083	45848939	39	6634											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110502193	110502193	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccttaggaaatgcaagaaTaagtaatgtggaattttatc	16	13	8	4	0	0	1	0	0	0	1	1	3	0	3	1	2	2	2	1	2	9	6	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	110502193	T	G	110502193	3	3	117	1	0	0	0	0	1	0	0	0	11972	1406	49	5	10131	5	PKHD1L1	8	110502193	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	9987110	110502193	35861829	40	6635											
AMBP	259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116840415	116840415	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacttggatgttgtcgggCggcgttggcacagggccagc	5	9	17	10	3	0	0	0	0	0	0	1	1	0	1	1	5	2	4	1	5	0	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	116840415	C	T	116840415	2	4	117	1	0	0	0	0	0	0	0	1	564	755	27	1		1	AMBP	9	116840415	Silent	SNP	C	TCGA-B0-5094-01A-01D-1421-08		116840415	24373016	41	6636											
SLC34A3	142680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140129157	140129157	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctgccctggccagccccGcagacaggatgctcagcgcc	6	5	13	17	2	1	1	1	0	0	1	1	2	1	2	5	3	4	3	5	3	0	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	140129157	G	A	140129157	3	1	117	1	0	0	0	0	1	0	0	0	14571	1087	38	1	1351	1	SLC34A3	9	140129157	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	23288742	140129157	1084274	42	6637											
FBXO18	84893	hgsc.bcm.edu;ucsc.edu	37	chr10	5953065	5953070	+	In_Frame_Del	DEL	GGAGAA	GGAGAA	-																															gtgcttctctacgccatgagGgagaaggggattaacatcag																								novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	GGAGAA	GGAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		-	5953070	GGAGAA	-	5953065	7	5	117	1	0	1	0	1	0	0	0	0	5731	1223	43	0	1369	0	FBXO18	10	5953065	In_Frame_Del	DEL	GGAGAA	TCGA-B0-5094-01A-01D-1421-08		5953065	129581682	43	6638											
PRKCQ	5588	hgsc.bcm.edu;ucsc.edu	37	chr10	6553149	6553149	+	Frame_Shift_Del	DEL	C	C	-																															tttttctggatatacatctgCccgttctctaggaacagaaa																								novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		-	6553149	C	-	6553149	7	5	117	1	0	1	0	1	0	0	0	0	12517	726	26	0	2058	0	PRKCQ	10	6553149	Frame_Shift_Del	DEL	C	TCGA-B0-5094-01A-01D-1421-08	600084	6553149	128981598	44	6639											
ARMC4	55130	hgsc.bcm.edu	37	chr10	28250531	28250532	+	Frame_Shift_Ins	INS	-	-	A																															cagcttctgaatttgccaatINSattctgatggcaaatctgca																								novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	28250532	-	A	28250531	7	5	117	1	0	1	1	0	0	0	0	0	953	1406	49	0	1826	0	ARMC4	10	28250531	Frame_Shift_Ins	INS	-	TCGA-B0-5094-01A-01D-1421-08	21697382	28250531	107284216	45	6640											
C10orf129	142827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96967148	96967148	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agataagagctatgatgggtGgttggatttcaagaagttga	13	12	14	2	0	1	5	1	2	0	3	1	6	1	6	0	3	1	3	0	3	4	5	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	96967148	G	A	96967148	4	1	117	1	0	0	0	0	0	1	0	0	1593	1357	47	2	597	2	C10orf129	10	96967148	Nonsense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	68716617	96967148	38567599	46	6641											
ODF3	113746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	199997	199997	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcggcatcaaacactcTgattacatgactcccctgct	10	11	5	15	1	2	2	1	2	1	0	4	2	3	2	3	1	3	2	3	1	2	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	199997	T	C	199997	2	2	117	1	0	0	0	0	0	0	0	1	10829	1567	55	3		3	ODF3	11	199997	Silent	SNP	T	TCGA-B0-5094-01A-01D-1421-08		199997	134806519	47	6642											
OR52B4	143496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4389154	4389154	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtagcatatggcaatataGtggtcaaaggccatcaccag	13	8	12	8	0	2	0	2	0	0	0	2	0	2	0	2	4	1	3	2	4	6	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	4389154	G	C	4389154	3	2	117	1	0	0	0	0	1	0	0	0	11112	1020	36	4	576	4	OR52B4	11	4389154	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	4189157	4389154	130617362	48	6643											
NR1H3	10062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47283271	47283271	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gccctgctgaagacctctgcGatcgaggtggctggagaagg	8	7	16	10	2	1	3	0	1	1	2	2	6	1	3	2	4	2	2	2	4	2	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	47283271	G	C	47283271	2	2	117	1	0	0	0	0	0	0	0	1	10618	1045	37	4		4	NR1H3	11	47283271	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	42894117	47283271	87723245	49	6644											
C1QTNF4	114900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47611595	47611595	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgtcgtcgtaaatcatGgcctgcacctcgtcgcggtt	5	10	12	14	7	1	0	1	0	0	0	5	0	1	0	3	2	1	3	3	2	2	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	47611595	G	C	47611595	2	2	117	1	0	0	0	0	0	0	0	1	1965	1335	47	4		4	C1QTNF4	11	47611595	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	328324	47611595	87394921	50	6645											
SYT7	9066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61295625	61295625	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctcggctgcaaccctcGtgggcctcatcctcctcgga	4	11	9	17	3	2	0	1	0	1	0	8	1	4	1	4	3	2	2	4	3	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	61295625	G	A	61295625	2	1	117	1	0	0	0	0	0	0	0	1	15478	1136	40	1		1	SYT7	11	61295625	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	13684030	61295625	73710891	51	6646											
BEST1	7439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61727371	61727371	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggtgaccaggtgtcccTgttggctgtggatgagatgc	5	11	15	10	0	0	2	0	2	0	1	1	4	1	3	3	4	1	2	3	4	0	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	61727371	T	C	61727371	3	2	117	1	0	0	0	0	1	0	0	0	1404	1580	55	3	986	3	BEST1	11	61727371	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	431746	61727371	73279145	52	6647											
ODZ4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	78380861	78380861	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttcagctccttcttcaCtactcgccccatgttatcat	7	15	3	16	1	4	0	3	0	1	0	6	0	5	0	4	0	3	2	4	0	3	6	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	78380861	C	G	78380861	3	3	117	1	0	0	0	0	1	0	0	0	10837	565	20	4	1792	4	ODZ4	11	78380861	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	16653490	78380861	56625655	53	6648											
CBL	867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119168096	119168096	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttccttctggttcagagCatgtgattgcgaccagcaga	9	12	10	10	1	2	3	1	1	1	2	3	4	3	3	2	1	3	3	2	1	0	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	119168096	C	T	119168096	3	4	117	1	0	0	0	0	1	0	0	0	2700	710	25	2	2210	2	CBL	11	119168096	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	40787235	119168096	15838420	54	6649											
TECTA	7007	broad.mit.edu	37	chr11	121016494	121016494	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggagatgcccatgggtctGcttgcatcgagtgtcaatga	8	11	13	9	1	2	2	1	1	1	1	3	4	2	2	1	2	3	2	1	2	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	121016494	T	T	121016494	2	4	117	1	0	0	0	0	0	0	0	1	15746	1306	46	4		4	TECTA	11	121016494	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	1848398	121016494	13990022	55	6650											
KDM5A	5927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	442697	442697	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggggttcatgatggtaaCtaactgatgcagaagatcag	12	11	13	5	0	2	4	2	2	0	2	2	4	2	4	0	3	3	4	0	3	3	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	442697	C	T	442697	3	4	117	1	0	0	0	0	1	0	0	0	8133	565	20	2	3531	2	KDM5A	12	442697	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		442697	133409198	56	6651											
SCNN1A	6337	broad.mit.edu;hgsc.bcm.edu	37	chr12	6463640	6463640	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtagtcacagtactccaCgttctggggccgcggataga	8	10	12	11	3	3	1	1	0	2	1	4	2	4	2	2	3	1	3	2	3	3	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	6463640	C	T	6463640	3	4	117	1	0	0	0	0	1	0	0	0	13929	536	19	1	709	1	SCNN1A	12	6463640	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	6020943	6463640	127388255	57	6652											
RIMKLB	57494	broad.mit.edu;hgsc.bcm.edu	37	chr12	8902521	8902521	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtggtagtcagagtaccaaCcccttgggtgcaaagtgata	11	9	13	8	0	1	2	1	1	0	1	1	2	1	2	3	3	3	3	3	3	5	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	8902521	C	T	8902521	3	4	117	1	0	0	0	0	1	0	0	0	13368	507	18	2	245	2	RIMKLB	12	8902521	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	2438881	8902521	124949374	58	6653											
KIAA1467	57613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	13233561	13233561	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataactctttttccatagatCtaatctgatggaatcttcag	12	16	5	8	0	5	2	1	1	4	1	6	3	6	3	1	1	1	0	1	1	4	6	rs192853755	by1000genomes	TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	13233561	C	G	13233561	3	3	117	1	0	0	0	0	1	0	0	0	8235	903	32	4	1916	4	KIAA1467	12	13233561	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	4331040	13233561	120618334	59	6654											
CTDSP2	10106	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58217389	58217389	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagcagggcaggctaaGgggcccgcagctgcccaagg	9	4	17	11	1	0	0	0	0	0	0	0	1	0	1	2	6	3	5	2	6	3	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	58217389	G	T	58217389	3	4	117	1	0	0	0	0	1	0	0	0	4004	1000	35	4	7	4	CTDSP2	12	58217389	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	44983828	58217389	75634506	60	6655											
LIN7A	8825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	81239638	81239638	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccatcacattaaaaccAaggccttcatcagtctttgg	11	11	5	14	0	4	0	3	0	1	0	5	0	5	0	4	2	1	0	4	2	3	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	81239638	A	T	81239638	2	4	117	1	0	0	0	0	0	0	0	1	8810	117	5	5		5	LIN7A	12	81239638	Silent	SNP	A	TCGA-B0-5094-01A-01D-1421-08	23022249	81239638	52612257	61	6656											
ANKLE2	23141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133331594	133331594	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcctgagccaattttttctCaaaaatgaaccttgtagttg	12	14	7	8	0	1	2	1	2	1	0	2	2	1	2	3	0	3	2	3	0	5	6	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	133331594	C	G	133331594	3	3	117	1	0	0	0	0	1	0	0	0	633	835	29	4	2557	4	ANKLE2	12	133331594	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	52091956	133331594	520301	62	6657											
RALGAPA1	253959	broad.mit.edu;hgsc.bcm.edu	37	chr14	36104763	36104763	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctttagaggtaaggcCatgatccagtccagaaggca	12	9	12	8	0	1	3	0	1	1	2	3	3	3	3	3	3	0	2	3	3	3	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	36104763	C	G	36104763	3	3	117	1	0	0	0	0	1	0	0	0	13015	594	21	4	2103	4	RALGAPA1	14	36104763	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		36104763	71244777	63	6658											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64568741	64568741	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaagacagagcttcctcatCctctggaacaattgttcagg	12	10	9	10	0	3	3	2	0	1	3	5	4	5	4	2	2	2	2	2	2	3	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	64568741	C	T	64568741	3	4	117	1	0	0	0	0	1	0	0	0	15445	855	30	2	12723	2	SYNE2	14	64568741	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	28463978	64568741	42780799	64	6659											
VPS18	57617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41194909	41194909	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatcgcacggcacgtggtGcaggaagaggaagatgtaca	14	5	15	7	3	0	3	0	0	0	3	1	5	0	5	0	4	2	4	0	4	4	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	41194909	G	T	41194909	2	4	117	1	0	0	0	0	0	0	0	1	17193	1306	46	4		4	VPS18	15	41194909	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08		41194909	61336483	65	6660											
TELO2	9894	broad.mit.edu	37	chr16	1557648	1557648	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctcctccgtcctgctcAgcctgcctgctgcgcgcctg	1	10	10	20	4	2	0	1	0	1	0	5	0	4	0	7	0	5	2	7	0	0	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	1557648	C	C	1557648	3	2	117	1	0	0	0	0	1	0	0	0	15756	188	7	5	2412	5	TELO2	16	1557648	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08		1557648	88797105	66	6661											
C16orf75	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11444604	11444604	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcccatccatgaaagtaTgtgggaactggaggtagaag	14	9	12	6	0	0	2	0	1	0	1	2	4	2	4	2	3	1	2	2	3	6	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	11444604	T	C	11444604	3	2	117	1	0	0	0	0	1	0	0	0	1834	1464	51	3	407	3	C16orf75	16	11444604	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	9886956	11444604	78910149	67	6662											
ATXN2L	11273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28847661	28847661	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagtatgtagggtgggcAgaagccacagtcgccgccgc	9	6	16	10	3	0	2	0	1	0	1	1	2	0	2	3	2	1	3	3	2	4	2	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	28847661	A	T	28847661	4	4	117	1	0	0	0	0	0	1	0	0	1212	180	7	5	3333	5	ATXN2L	16	28847661	Nonsense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08	17403057	28847661	61507092	68	6663											
SALL1	6299	hgsc.bcm.edu	37	chr16	51175664	51175664	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgccgccgctgctgcTgctgctgctgctgctgctgc	0	9	14	18	4	0	0	0	0	0	0	0	0	0	0	4	0	9	9	4	0	0	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	51175664	T	C	51175664	3	2	117	1	0	0	0	0	1	0	0	0	13812	1580	55	3	3513	3	SALL1	16	51175664	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	22328003	51175664	39179089	69	6664											
GNAO1	2775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	56309956	56309956	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgggccatggacactttggGcatcgaatatggtgataagg	10	9	14	8	2	0	1	0	1	0	0	1	3	0	2	2	5	0	1	2	5	3	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	56309956	G	A	56309956	3	1	117	1	0	0	0	0	1	0	0	0	6508	1203	42	2	285	2	GNAO1	16	56309956	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	5134292	56309956	34044797	70	6665											
C18orf8	29919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21084363	21084363	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttcgatctggtggagctaCtggcgtggtagttaaaggcc	7	12	15	7	2	1	0	0	0	1	0	2	2	1	1	1	5	2	4	1	5	4	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	21084363	C	T	21084363	3	4	117	1	0	0	0	0	1	0	0	0	1907	565	20	2	137	2	C18orf8	18	21084363	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		21084363	56992885	71	6666											
ABCA7	10347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1048966	1048966	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcggacctcggccccccaAgagtccagccccttgcccca	6	5	10	20	2	0	1	0	0	0	1	2	2	1	2	9	2	3	0	9	2	1	1	rs145106069	alternate_allele	TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	1048966	A	T	1048966	3	4	117	1	0	0	0	0	1	0	0	0	37	72	3	5	2404	5	ABCA7	19	1048966	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08		1048966	58080017	72	6667											
NCLN	56926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3192504	3192504	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaacacggaggcgcgcaCgatggcggcggaggtgctga	8	4	19	10	6	0	2	0	2	0	0	0	5	0	4	0	6	2	3	0	6	1	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	3192504	C	T	3192504	3	4	117	1	0	0	0	0	1	0	0	0	10227	536	19	1	227	1	NCLN	19	3192504	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	2143538	3192504	55936479	73	6668											
INSR	3643	broad.mit.edu;hgsc.bcm.edu	37	chr19	7152929	7152929	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccaggtcctcgagggcAgcttcagccctggagaaaga	11	5	14	11	1	1	3	1	0	0	3	3	6	2	3	3	3	2	2	3	3	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	7152929	A	G	7152929	3	3	117	1	0	0	0	0	1	0	0	0	7773	188	7	3	2161	3	INSR	19	7152929	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08	3960425	7152929	51976054	74	6669											
GDF15	9518	broad.mit.edu;hgsc.bcm.edu	37	chr19	18499472	18499472	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgcacacggtccgcgcGtcgctggaagacctgggctg	5	7	15	14	6	1	1	0	0	1	1	3	2	2	2	2	3	1	3	2	3	1	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	18499472	G	T	18499472	2	4	117	1	0	0	0	0	0	0	0	1	6313	1132	40	4		4	GDF15	19	18499472	Silent	SNP	G	TCGA-B0-5094-01A-01D-1421-08	11346543	18499472	40629511	75	6670											
PRX	57716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40900919	40900919	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccactgacggccacagcccCctctgccctcccttcctcct	4	9	5	23	1	1	1	0	1	1	0	5	1	5	1	8	1	2	0	8	1	0	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	40900919	C	A	40900919	3	1	117	1	0	0	0	0	1	0	0	0	12644	623	22	4	1049	4	PRX	19	40900919	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	22401447	40900919	18228064	76	6671											
B3GNT8	374907	broad.mit.edu;hgsc.bcm.edu	37	chr19	41931921	41931921	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaggtgagccagcagggCaggggtgtgtacaaaggcat	10	5	17	9	1	0	1	0	1	0	0	0	1	0	1	2	5	3	5	2	5	2	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	41931921	C	T	41931921	3	4	117	1	0	0	0	0	1	0	0	0	1263	710	25	2	434	2	B3GNT8	19	41931921	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	1031002	41931921	17197062	77	6672											
MAFB	9935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39317054	39317054	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggccacgccggcgcccGggtacgcgtggtgcgggtga	3	5	20	13	8	0	1	0	1	0	0	0	1	0	1	3	5	2	1	3	5	1	1	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	39317054	G	A	39317054	3	1	117	1	0	0	0	0	1	0	0	0	9158	1116	39	1	538	1	MAFB	20	39317054	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08		39317054	23708466	78	6673											
ZNFX1	57169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47886935	47886935	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagatcttcctgctcccTgttagatacggtggcaaaaa	11	10	10	10	1	1	2	0	0	1	2	3	3	3	2	2	2	2	4	2	2	4	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		C	47886935	T	C	47886935	3	2	117	1	0	0	0	0	1	0	0	0	18204	1579	55	3	4390	3	ZNFX1	20	47886935	Missense_Mutation	SNP	T	TCGA-B0-5094-01A-01D-1421-08	8569881	47886935	15138585	79	6674											
NRIP1	8204	hgsc.bcm.edu	37	chr21	16338779	16338779	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcagacatatggtggggAattccatttgatgaccagag	12	10	12	7	0	0	4	0	2	0	2	1	5	1	5	2	3	1	1	2	3	2	3	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	16338779	A	T	16338779	3	4	117	1	0	0	0	0	1	0	0	0	10652	246	9	5	1745	5	NRIP1	21	16338779	Missense_Mutation	SNP	A	TCGA-B0-5094-01A-01D-1421-08		16338779	31791116	80	6675											
RFPL3	10738	hgsc.bcm.edu	37	chr22	32754354	32754355	+	Frame_Shift_Ins	INS	-	-	G																															aatcggcagctagagaggctINSggtttcccacatcaaggaac																								novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		G	32754355	-	G	32754354	7	5	117	1	0	1	1	0	0	0	0	0	13257	1580	55	0	298	0	RFPL3	22	32754354	Frame_Shift_Ins	INS	-	TCGA-B0-5094-01A-01D-1421-08		32754354	18550212	81	6676											
KLHDC7B	113730	broad.mit.edu;hgsc.bcm.edu	37	chr22	50987493	50987493	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggggggccgctcagggctcCccaggggccctcgtggcgag	4	4	19	14	3	1	0	1	0	0	0	3	1	2	0	4	7	0	2	4	7	0	0	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	50987493	C	A	50987493	3	1	117	1	0	0	0	0	1	0	0	0	8361	623	22	4	900	4	KLHDC7B	22	50987493	Missense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08	18233139	50987493	317073	82	6677											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu	37	chrX	53227796	53227796	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcacgggcttcagactCtagtgccctcagttcttcaa	7	11	8	15	2	6	1	4	0	2	1	6	1	6	1	2	1	1	3	2	1	2	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		A	53227796	C	A	53227796	4	1	117	1	0	0	0	0	0	1	0	0	8135	922	32	4	2428	4	KDM5C	23	53227796	Nonsense_Mutation	SNP	C	TCGA-B0-5094-01A-01D-1421-08		53227796	102042764	83	6678											
AIFM1	9131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129265667	129265667	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgactgctctgtggcaGatttggggttgtcttgtgca	5	15	13	8	0	2	2	0	1	2	1	2	2	2	2	1	3	3	4	1	3	1	4	novel		TCGA-B0-5094-01A-01D-1421-08	TCGA-B0-5094-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8b910c03-86a9-488d-80b4-1f8c214c2941	b4e4630a-b38c-4b62-b0e8-d73f0e3b4e47		T	129265667	G	T	129265667	3	4	117	1	0	0	0	0	1	0	0	0	426	942	33	4	297	4	AIFM1	23	129265667	Missense_Mutation	SNP	G	TCGA-B0-5094-01A-01D-1421-08	76037871	129265667	26004893	84	6679											
TIE1	7075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43773140	43773140	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgggcagagctgccaggaGcagtgcccaggcatatcagg	9	7	15	10	0	1	1	1	0	0	1	1	2	1	2	2	4	4	4	2	4	1	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	43773140	G	C	43773140	3	2	118	1	0	0	0	0	1	0	0	0	15892	962	34	4	832	4	TIE1	1	43773140	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08		43773140	205477481	1	6680											
SLAMF7	57823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160719769	160719769	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagtcccataatgggtccAtcctccccatctcctggaga	9	10	8	14	0	1	2	0	1	1	1	6	3	5	2	6	2	0	0	6	2	1	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	160719769	A	G	160719769	3	3	118	1	0	0	0	0	1	0	0	0	14371	217	8	3	545	3	SLAMF7	1	160719769	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	116946629	160719769	88530852	2	6681											
C1orf112	55732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169773348	169773348	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgcatggaccctttagtaGatgacaatgatgatattttg	11	16	9	5	0	0	4	0	3	0	1	0	5	0	5	1	1	1	2	1	1	4	7	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	169773348	G	C	169773348	3	2	118	1	0	0	0	0	1	0	0	0	1985	942	33	4	459	4	C1orf112	1	169773348	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	9053579	169773348	79477273	3	6682											
OR2G2	81470	broad.mit.edu;ucsc.edu	37	chr1	247752478	247752478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagagtagatccagggacCagggcaagtttgtttctctc	10	10	11	10	0	1	2	0	0	1	2	4	3	2	3	3	2	0	4	3	2	3	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	247752478	A	A	247752478	3	1	118	1	0	0	0	0	1	0	0	0	10998	595	21	4	819	4	OR2G2	1	247752478	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	77979130	247752478	1498143	4	6683											
OR2W3	343171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	248059809	248059809	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgggaaggttgcttctgggGaagagagagctaggaaagga	12	7	18	4	0	1	2	0	0	1	2	1	7	1	6	0	6	2	3	0	6	4	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	248059809	G	A	248059809	2	1	118	1	0	0	0	0	0	0	0	1	11033	1161	41	2		2	OR2W3	1	248059809	Silent	SNP	G	TCGA-B0-5095-01A-01D-1421-08	307331	248059809	1190812	5	6684											
CAD	790	hgsc.bcm.edu;ucsc.edu	37	chr2	27454852	27454853	+	In_Frame_Ins	INS	-	-	GGA																															ccccctttctatcaggagttINSggagactccaacagataagc																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		GGA	27454853	-	GGA	27454852	7	5	118	1	0	1	1	0	0	0	0	0	2565	1821	63	0	2471	0	CAD	2	27454852	In_Frame_Ins	INS	-	TCGA-B0-5095-01A-01D-1421-08		27454852	215744521	6	6685											
THADA	63892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43800089	43800089	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagctcccagagcccccCtgctattacaagaccctaag	12	7	6	16	0	1	2	1	0	0	2	2	2	2	2	5	0	4	2	5	0	5	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	43800089	C	A	43800089	3	1	118	1	0	0	0	0	1	0	0	0	15839	681	24	4	4197	4	THADA	2	43800089	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	16345237	43800089	199399284	7	6686											
KLRAQ1	0	broad.mit.edu;hgsc.bcm.edu	37	chr2	48681713	48681713	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctaaactgtgaggaccaaTctgttttcactttgatatag	12	14	8	7	0	2	2	1	2	1	0	2	3	2	3	1	1	2	2	1	1	5	6	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	48681713	T	C	48681713	1	2	118	0	1	0	0	0	0	0	0	0	8413	1450	50	3		3	KLRAQ1	2	48681713	RNA	SNP	T	TCGA-B0-5095-01A-01D-1421-08	4881624	48681713	194517660	8	6687											
NEB	4703	broad.mit.edu	37	chr2	152346999	152346999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttagtgcactggcagatCgtgactgctcccggctccgg	5	10	13	13	3	0	2	0	1	0	1	3	2	2	2	2	3	3	5	2	3	1	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	152346999	T	T	152346999	3	4	118	1	0	0	0	0	1	0	0	0	10302	884	31	1	405	1	NEB	2	152346999	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	103665286	152346999	90852374	9	6688											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191470	10191470	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtttttgcccttccaGtgtatactctgaaagagcga	9	15	9	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	3	6	rs5030817	alternate_allele	TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	10191470	C	C	10191470	5	2	118	1	0	0	0	0	0	0	1	0	17161	1043	36	4	473	4	VHL	3	10191470	Splice_Site	SNP	G	TCGA-B0-5095-01A-01D-1421-08		10191470	187830960	10	6689											
FBLN2	2199	broad.mit.edu	37	chr3	13649672	13649672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgaggacaacgtctgcAggtagggtgggctccctgga	8	7	16	10	1	1	1	0	1	1	0	2	3	2	3	1	5	2	4	1	5	2	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	13649672	G	G	13649672	3	3	118	1	0	0	0	0	1	0	0	0	5699	202	7	3	113	3	FBLN2	3	13649672	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	3458202	13649672	184372758	11	6690											
CMC1	152100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	28361101	28361101	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacaaagaaaaggctacagaAgcttccaacaagcatgtagg	18	6	9	8	0	0	2	0	0	0	2	1	2	1	2	1	2	5	4	1	2	9	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	28361101	A	G	28361101	3	3	118	1	0	0	0	0	1	0	0	0	3577	72	3	3	316	3	CMC1	3	28361101	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	14711429	28361101	169661329	12	6691											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52437782	52437782	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttgatggacagaggaattGagaggtccttctgggactct	9	12	13	7	0	3	3	0	2	3	2	4	7	4	6	1	4	0	0	1	4	1	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	52437782	G	C	52437782	4	2	118	1	0	0	0	0	0	1	0	0	1311	1294	45	4	830	4	BAP1	3	52437782	Nonsense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	24076681	52437782	145584648	13	6692											
EAF2	55840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121591511	121591511	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgaagattgcaaatcCtctacttctgatacagggaa	15	10	9	7	0	2	4	0	2	2	2	3	6	3	5	1	1	3	1	1	1	6	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	121591511	C	A	121591511	2	1	118	1	0	0	0	0	0	0	0	1	4876	668	24	4		4	EAF2	3	121591511	Silent	SNP	C	TCGA-B0-5095-01A-01D-1421-08	69153729	121591511	76430919	14	6693											
ANKRD17	26057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	73979600	73979600	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgtactattgactccataCaaagatgacacttcttcagc	12	13	5	11	0	2	3	1	2	1	1	3	3	3	3	1	0	3	1	1	0	4	7	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	73979600	C	G	73979600	3	3	118	1	0	0	0	0	1	0	0	0	646	478	17	4	3545	4	ANKRD17	4	73979600	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		73979600	117174676	15	6694											
TMEM184C	55751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148545244	148545244	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtacctatttacagtttaGatagtgtaagtatgtttcat	11	18	8	4	0	1	1	1	0	0	1	1	1	1	1	1	1	2	5	1	1	7	10	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	148545244	G	A	148545244	3	1	118	1	0	0	0	0	1	0	0	0	16105	942	33	2	296	2	TMEM184C	4	148545244	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	74565644	148545244	42609032	16	6695											
CDKN2AIP	55602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184367368	184367368	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggaaaacagttcaacGtgtatagggtcggccatcaa	14	7	11	9	2	2	0	2	0	0	0	3	1	2	1	1	3	3	3	1	3	6	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	184367368	G	C	184367368	2	2	118	1	0	0	0	0	0	0	0	1	3162	1132	40	4		4	CDKN2AIP	4	184367368	Silent	SNP	G	TCGA-B0-5095-01A-01D-1421-08	35822124	184367368	6786908	17	6696											
GDF9	2661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132197841	132197841	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataagcctgagcacttgtgtCattcaaatataagatcagtg	14	12	8	7	0	3	2	3	1	0	1	3	2	3	2	1	0	2	1	1	0	4	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	132197841	C	T	132197841	3	4	118	1	0	0	0	0	1	0	0	0	6319	826	29	2	563	2	GDF9	5	132197841	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		132197841	48717419	18	6697											
GFRA3	2676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137593484	137593484	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtagcaggccctgcgcgtggGgctcggcggccttctcgaag	4	7	17	13	5	1	0	0	0	1	0	3	1	1	0	2	5	2	3	2	5	2	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	137593484	G	A	137593484	3	1	118	1	0	0	0	0	1	0	0	0	6349	1232	43	2	593	2	GFRA3	5	137593484	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	5395643	137593484	43321776	19	6698											
NR3C1	2908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	142779613	142779613	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattactggggcttgacaaAaccagatctccattatcctt	12	12	6	11	0	1	2	0	1	1	1	3	2	2	2	3	2	2	1	3	2	4	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	142779613	A	C	142779613	2	2	118	1	0	0	0	0	0	0	0	1	10630	1	1	5		5	NR3C1	5	142779613	Silent	SNP	A	TCGA-B0-5095-01A-01D-1421-08	5186129	142779613	38135647	20	6699											
GABRA1	2554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	161302567	161302567	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctatgtttcccttaaggCtgacagtgagagctgaatgt	10	14	10	7	0	1	3	0	3	1	1	2	4	2	3	1	1	1	3	1	1	3	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	161302567	C	T	161302567	2	4	118	1	0	0	0	0	0	0	0	1	6160	811	28	2		2	GABRA1	5	161302567	Silent	SNP	C	TCGA-B0-5095-01A-01D-1421-08	18522954	161302567	19612693	21	6700											
ODZ2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	167687305	167687305	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgtgaaaagctggcttGtgatgtttggatttcagctt	9	16	12	4	0	1	3	1	2	0	1	1	4	1	4	0	2	2	4	0	2	3	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	167687305	G	A	167687305	3	1	118	1	0	0	0	0	1	0	0	0	10835	1377	48	2	7533	2	ODZ2	5	167687305	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	6384738	167687305	13227955	22	6701											
STC2	8614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	172755100	172755100	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctcctgtcttggggacCctcgggtgggttggtggcgt	2	11	19	9	2	1	0	0	0	1	0	3	2	2	2	2	7	1	2	2	7	0	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	172755100	C	A	172755100	3	1	118	1	0	0	0	0	1	0	0	0	15277	623	22	4	827	4	STC2	5	172755100	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	5067795	172755100	8160160	23	6702											
PRELID1	27166	broad.mit.edu;hgsc.bcm.edu	37	chr5	176731056	176731056	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgttcgccgccttctggCagcggtacccgaatccctat	7	10	10	14	4	1	0	0	0	1	0	3	1	2	0	4	2	2	3	4	2	4	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	176731056	C	A	176731056	3	1	118	1	0	0	0	0	1	0	0	0	12473	711	25	4	72	4	PRELID1	5	176731056	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	3975956	176731056	4184204	24	6703											
TBC1D9B	23061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179301968	179301968	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctccatgttggcgtccAggacggccagggccacctgc	5	7	14	15	2	0	0	0	0	0	0	2	1	2	1	5	4	2	3	5	4	0	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	179301968	A	T	179301968	3	4	118	1	0	0	0	0	1	0	0	0	15627	188	7	5	1676	5	TBC1D9B	5	179301968	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	2570912	179301968	1613292	25	6704											
SLC29A1	2030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44198152	44198152	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcctgccagctacacggccCccatcatgagtggccagggc	7	6	12	16	1	1	1	1	1	0	0	1	1	1	1	5	3	4	1	5	3	1	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	44198152	C	T	44198152	3	4	118	1	0	0	0	0	1	0	0	0	14536	623	22	2	541	2	SLC29A1	6	44198152	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		44198152	126916915	26	6705											
TDRD6	221400	broad.mit.edu	37	chr6	46656688	46656688	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctccgcagcgtctcgcagGagatccaccgcctctccgag	7	6	11	17	5	2	1	0	0	2	1	6	3	4	1	5	1	2	3	5	1	0	0	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	46656688	T	T	46656688	4	4	118	1	0	0	0	0	0	1	0	0	15733	1175	41	4	825	4	TDRD6	6	46656688	Nonsense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	2458536	46656688	124458379	27	6706											
FYN	2534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	111983021	111983021	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctgcaagtactcaaaaGtggggcgttcttcagggtcc	9	10	12	10	1	4	0	2	0	2	0	5	0	5	0	1	3	3	4	1	3	4	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	111983021	G	T	111983021	3	4	118	1	0	0	0	0	1	0	0	0	6126	1029	36	4	82	4	FYN	6	111983021	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	65326333	111983021	59132046	28	6707											
SAMD3	154075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	130465867	130465867	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccacctttgtgagcctcTccctttctaaatataaagaa	11	13	5	12	1	2	2	0	1	2	1	4	2	3	2	4	0	1	0	4	0	6	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	130465867	T	A	130465867	3	1	118	1	0	0	0	0	1	0	0	0	13822	1551	54	5	205	5	SAMD3	6	130465867	Missense_Mutation	SNP	T	TCGA-B0-5095-01A-01D-1421-08	18482846	130465867	40649200	29	6708											
GUSB	2990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	65439619	65439619	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagtggctggtacggaaagCgttggcaccaagccagcgaa	11	6	15	9	3	0	0	0	0	0	0	0	2	0	1	2	4	4	5	2	4	5	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	65439619	C	T	65439619	3	4	118	1	0	0	0	0	1	0	0	0	6902	768	27	1	841	1	GUSB	7	65439619	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		65439619	93699044	30	6709											
EXOC4	60412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	133689775	133689775	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtcaagctcaacaaagAtatcagcgccattgaagagg	14	7	12	8	1	3	3	3	1	0	2	3	3	3	3	1	3	3	1	1	3	5	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	133689775	A	C	133689775	3	2	118	1	0	0	0	0	1	0	0	0	5306	333	12	5	2530	5	EXOC4	7	133689775	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	68250156	133689775	25448888	31	6710											
BMP1	649	hgsc.bcm.edu	37	chr8	22037969	22037969	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcacatgcactgcgtgtgGcgcatctctgtcacacccgg	6	9	11	15	3	3	0	2	0	1	0	4	0	3	0	1	2	2	3	1	2	0	0	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	22037969	G	A	22037969	4	1	118	1	0	0	0	0	0	1	0	0	1456	1212	42	2	1080	2	BMP1	8	22037969	Nonsense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08		22037969	124326053	32	6711											
ESRP1	54845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95680227	95680227	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggaaaatcaagtcattGtccgcatgcgggggctccct	10	8	11	12	2	2	0	2	0	0	0	4	1	4	1	3	3	1	2	3	3	4	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	95680227	G	C	95680227	3	2	118	1	0	0	0	0	1	0	0	0	5258	1377	48	4	1020	4	ESRP1	8	95680227	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	73642258	95680227	50683795	33	6712											
ASB6	140459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	132401522	132401522	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagctccaaggtccaggAggcgctgcaggcagggcagg	9	4	16	12	1	1	0	1	0	0	0	3	1	3	1	2	6	2	5	2	6	1	0	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	132401522	A	G	132401522	3	3	118	1	0	0	0	0	1	0	0	0	1027	304	11	3	807	3	ASB6	9	132401522	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08		132401522	8811909	34	6713											
FRMD4A	55691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	13699459	13699459	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgccctgggactccaggctGgagctccggtgcctaaagtg	6	9	14	12	1	0	0	0	0	0	0	2	2	2	2	4	4	3	2	4	4	2	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	13699459	G	A	13699459	2	1	118	1	0	0	0	0	0	0	0	1	6051	1335	47	2		2	FRMD4A	10	13699459	Silent	SNP	G	TCGA-B0-5095-01A-01D-1421-08		13699459	121835288	35	6714											
ZNF438	220929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	31134379	31134379	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctctccatgaacatcaagTaaatgaaattttatttccgc	13	14	4	10	1	2	2	1	2	1	0	5	2	4	2	3	0	1	1	3	0	6	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	31134379	T	C	31134379	2	2	118	1	0	0	0	0	0	0	0	1	17909	1635	57	3		3	ZNF438	10	31134379	Silent	SNP	T	TCGA-B0-5095-01A-01D-1421-08	17434920	31134379	104400368	36	6715											
TM9SF3	56889	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	98312748	98312748	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttaatgttctcattaaAatcattgaaactaagcccac	14	15	3	9	0	3	1	2	1	2	0	4	1	3	1	1	0	2	1	1	0	5	6	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	98312748	A	T	98312748	2	4	118	1	0	0	0	0	0	0	0	1	15978	10	1	5		5	TM9SF3	10	98312748	Silent	SNP	A	TCGA-B0-5095-01A-01D-1421-08	67178369	98312748	37221999	37	6716											
ZRANB1	54764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	126662867	126662867	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaccggactgcaggagacTgcctacttgattcagttcta	10	10	11	10	1	2	2	1	1	1	1	2	5	2	4	2	3	4	2	2	3	3	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	126662867	T	A	126662867	3	1	118	1	0	0	0	0	1	0	0	0	18221	1580	55	5	1345	5	ZRANB1	10	126662867	Missense_Mutation	SNP	T	TCGA-B0-5095-01A-01D-1421-08	28350119	126662867	8871880	38	6717											
FANCF	2188	broad.mit.edu;ucsc.edu	37	chr11	22646676	22646676	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccctctccaggtgatttGtggatgccgggttccaactc	5	12	10	14	1	1	1	0	1	1	0	5	2	3	2	5	3	2	1	5	3	1	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	22646676	C	C	22646676	3	2	118	1	0	0	0	0	1	0	0	0	5667	1368	48	4	447	4	FANCF	11	22646676	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08		22646676	112359840	39	6718											
ROM1	6094	hgsc.bcm.edu	37	chr11	62381083	62381083	+	Frame_Shift_Del	DEL	T	T	-																															ctggtggctggcacggctggTgggggggggctcctggtcgt																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		-	62381083	T	-	62381083	7	5	118	1	0	1	0	1	0	0	0	0	13523	1683	59	0	332	0	ROM1	11	62381083	Frame_Shift_Del	DEL	T	TCGA-B0-5095-01A-01D-1421-08	39734407	62381083	72625433	40	6719											
PDE2A	5138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	72300797	72300797	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacagacgcgggactcacggGaaagctgacctcttccccga	10	5	12	14	4	2	2	1	1	1	1	3	6	3	4	3	2	1	1	3	2	1	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	72300797	G	A	72300797	3	1	118	1	0	0	0	0	1	0	0	0	11636	1174	41	2	2038	2	PDE2A	11	72300797	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	9919714	72300797	62705719	41	6720											
GDPD5	81544	broad.mit.edu	37	chr11	75160647	75160647	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccacatgcaggaatggCgctgtgccctgtttgcaggg	6	8	14	13	1	0	0	0	0	0	0	0	1	0	1	3	3	3	4	3	3	1	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	75160647	T	T	75160647	2	4	118	1	0	0	0	0	0	0	0	1	6327	755	27	1		1	GDPD5	11	75160647	Silent	SNP	C	TCGA-B0-5095-01A-01D-1421-08	2859850	75160647	59845869	42	6721											
MLL	4297	hgsc.bcm.edu;ucsc.edu	37	chr11	118348895	118348896	+	Frame_Shift_Ins	INS	-	-	T																															cccaagtttggtggtcgcaaINStataaagaagcagtgctgca																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	118348896	-	T	118348895	7	5	118	1	0	1	1	0	0	0	0	0	9620	101	4	0	3566	0	MLL	11	118348895	Frame_Shift_Ins	INS	-	TCGA-B0-5095-01A-01D-1421-08	43188248	118348895	16657621	43	6722											
KCNA1	3736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	5021702	5021702	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgacaattggaggcaaGatcgtgggctccttgtgtgc	7	11	14	9	1	0	2	0	1	0	1	2	3	1	3	2	3	1	2	2	3	2	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	5021702	G	T	5021702	3	4	118	1	0	0	0	0	1	0	0	0	8001	933	33	4	1160	4	KCNA1	12	5021702	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08		5021702	128830193	44	6723											
LST-3TM12	0	broad.mit.edu;ucsc.edu	37	chr12	21172281	21172281	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttatgggaactggaagtaTtttgatggctttaccacatt	10	16	9	6	0	1	1	0	1	1	0	1	3	1	3	1	3	2	2	1	3	5	7	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	21172281	C	C	21172281	3	2	118	1	0	0	0	0	1	0	0	0	9066	1493	52	3	191	3	LST-3TM12	12	21172281	Missense_Mutation	SNP	T	TCGA-B0-5095-01A-01D-1421-08	16150579	21172281	112679614	45	6724											
ITPR2	3709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	26540497	26540497	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgctcctcaaatgaaaccGttttattatcaaacttgtct	11	16	5	9	1	3	1	2	1	1	0	4	1	4	1	2	0	3	2	2	0	5	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	26540497	G	T	26540497	3	4	118	1	0	0	0	0	1	0	0	0	7921	1145	40	4	390	4	ITPR2	12	26540497	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	5368216	26540497	107311398	46	6725											
KRT82	3888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52788815	52788815	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcgtcatgctggatttccGcccgctcccacagctcagta	7	10	9	15	3	2	0	2	0	0	0	4	1	4	1	3	1	3	4	3	1	2	3	rs139996519		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	52788815	G	A	52788815	3	1	118	1	0	0	0	0	1	0	0	0	8496	1086	38	1	59	1	KRT82	12	52788815	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	26248318	52788815	81063080	47	6726											
PDE1B	5153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54962995	54962995	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggacacggaggacgagctGcaggagctgcggtcagatgc	9	6	17	9	3	1	1	1	0	0	1	1	6	1	5	0	5	5	3	0	5	0	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	54962995	G	A	54962995	2	1	118	1	0	0	0	0	0	0	0	1	11634	1306	46	2		2	PDE1B	12	54962995	Silent	SNP	G	TCGA-B0-5095-01A-01D-1421-08	2174180	54962995	78888900	48	6727											
MYL6B	140465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56548877	56548877	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agctgtttgaccgagtggggGatggcaagatcctgtacagc	9	9	15	8	1	0	2	0	1	0	1	1	4	1	3	2	3	3	4	2	3	2	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	56548877	G	C	56548877	3	2	118	1	0	0	0	0	1	0	0	0	10052	1174	41	4	251	4	MYL6B	12	56548877	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	1585882	56548877	77303018	49	6728											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100496634	100496634	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccattattactttatccaggGactaataaaaacgttaaaat	17	13	4	7	1	0	0	0	0	0	0	1	1	1	1	2	1	2	1	2	1	9	7	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	100496634	C	C	100496634	3	2	118	1	0	0	0	0	1	0	0	0	16968	1188	41	4	4242	4	UHRF1BP1L	12	100496634	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	43947757	100496634	33355261	50	6729											
MAP1LC3B2	643246	broad.mit.edu;hgsc.bcm.edu	37	chr12	117013990	117013990	+	Frame_Shift_Del	DEL	G	G	-																															gctaatcaggccttcttcctGttggtgaacggacacagcat																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		-	117013990	G	-	117013990	7	5	118	1	0	1	0	1	0	0	0	0	9232	1364	48	0	245	0	MAP1LC3B2	12	117013990	Frame_Shift_Del	DEL	G	TCGA-B0-5095-01A-01D-1421-08	16517356	117013990	16837905	51	6730											
RIN3	79890	hgsc.bcm.edu;ucsc.edu	37	chr14	93043822	93043824	+	Frame_Shift_Del	DEL	AGT	AGT	-																															ccattaaggaagaaaagtcgAgtaagtacccatcttctctg																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	AGT	AGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		-	93043824	AGT	-	93043822	7	5	118	1	0	1	0	1	0	0	0	0	13375	318	11	0	377	0	RIN3	14	93043822	Frame_Shift_Del	DEL	AGT	TCGA-B0-5095-01A-01D-1421-08		93043822	14305718	52	6731											
RTL1	388015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	101351082	101351082	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgatgatggattcttaTgctccatcatcgtctcaaat	9	17	7	8	1	3	2	2	2	2	0	6	3	4	3	1	1	1	2	1	1	2	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	101351082	T	C	101351082	3	2	118	1	0	0	0	0	1	0	0	0	13726	1464	51	3	4036	3	RTL1	14	101351082	Missense_Mutation	SNP	T	TCGA-B0-5095-01A-01D-1421-08	8307260	101351082	5998458	53	6732											
PIAS1	8554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	68434675	68434675	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagtacaggtccagttaaGgtacagtgctgactatagga	13	9	11	8	0	0	1	0	1	0	0	1	2	1	2	1	3	3	4	1	3	5	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	68434675	G	A	68434675	3	1	118	1	0	0	0	0	1	0	0	0	11875	1014	35	2	616	2	PIAS1	15	68434675	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08		68434675	34096717	54	6733											
UACA	55075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	70960389	70960389	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaataattctctgttagtTttggctaacgtgtcattcag	9	18	7	7	1	4	0	2	0	2	0	5	0	4	0	0	1	1	3	0	1	4	8	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	70960389	T	G	70960389	3	3	118	1	0	0	0	0	1	0	0	0	16823	1838	64	5	1632	5	UACA	15	70960389	Missense_Mutation	SNP	T	TCGA-B0-5095-01A-01D-1421-08	2525714	70960389	31571003	55	6734											
CDH8	1006	broad.mit.edu;hgsc.bcm.edu	37	chr16	61851427	61851427	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggtcacgagcagtcacttgCccaatcacggagtttagagc	10	8	12	11	2	3	1	3	0	0	1	3	3	3	2	1	2	3	2	1	2	2	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	61851427	C	A	61851427	2	1	118	1	0	0	0	0	0	0	0	1	3116	726	26	4		4	CDH8	16	61851427	Silent	SNP	C	TCGA-B0-5095-01A-01D-1421-08		61851427	28503326	56	6735											
SCARF1	8578	broad.mit.edu	37	chr17	1540047	1540047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caggaacctcatctgcctctCcagactcaggatcggatgag	10	8	10	13	1	4	2	2	1	2	1	6	5	4	5	3	3	2	0	3	3	1	0	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	1540047	T	T	1540047	3	4	118	1	0	0	0	0	1	0	0	0	13885	864	30	2	911	2	SCARF1	17	1540047	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		1540047	79655163	57	6736											
SLC47A2	146802	hgsc.bcm.edu;ucsc.edu	37	chr17	19606416	19606416	+	Frame_Shift_Del	DEL	A	A	-																															attacctactcatcattggtAaaaatatgccccagctgatt																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		-	19606416	A	-	19606416	7	5	118	1	0	1	0	1	0	0	0	0	14650	359	13	0	641	0	SLC47A2	17	19606416	Frame_Shift_Del	DEL	A	TCGA-B0-5095-01A-01D-1421-08	18066369	19606416	61588794	58	6737											
UNC45B	146862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33501331	33501331	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcatctctgccctggcttGcatggtgaaagcagatagtg	8	12	12	9	0	2	2	1	1	1	1	3	2	2	2	1	2	3	3	1	2	2	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	33501331	G	C	33501331	3	2	118	1	0	0	0	0	1	0	0	0	16988	1319	46	4	1957	4	UNC45B	17	33501331	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	13894915	33501331	47693879	59	6738											
PRPSAP1	5635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74307778	74307778	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggacagtattcgtcaccaCcacctagtcacacagtgatg	12	8	9	12	1	2	1	2	1	0	0	3	2	2	2	3	1	0	1	3	1	2	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	74307778	C	T	74307778	3	4	118	1	0	0	0	0	1	0	0	0	12583	507	18	2	158	2	PRPSAP1	17	74307778	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	40806447	74307778	6887432	60	6739											
NDC80	10403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	2616501	2616501	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaatgcatgtcagaagatctCtcggaaaatattaaagagat	17	10	9	5	1	2	3	1	0	1	3	4	6	2	4	0	1	1	1	0	1	7	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	2616501	C	T	2616501	2	4	118	1	0	0	0	0	0	0	0	1	10242	900	32	2		2	NDC80	18	2616501	Silent	SNP	C	TCGA-B0-5095-01A-01D-1421-08		2616501	75460747	61	6740											
TAF4B	6875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	23872291	23872291	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgaccattcagaaatgtGgacagaagacgatgccagtg	14	8	11	8	1	1	4	1	1	0	3	1	6	1	5	2	1	1	0	2	1	2	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	23872291	G	A	23872291	3	1	118	1	0	0	0	0	1	0	0	0	15526	1349	47	2	1702	2	TAF4B	18	23872291	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	21255790	23872291	54204957	62	6741											
MOCOS	55034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33785102	33785102	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatacctacgtggccctgTcctctctccagtaccccaat	8	11	6	16	1	1	0	0	0	1	0	4	0	3	0	6	1	3	2	6	1	5	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	33785102	T	A	33785102	3	1	118	1	0	0	0	0	1	0	0	0	9689	1667	58	5	1103	5	MOCOS	18	33785102	Missense_Mutation	SNP	T	TCGA-B0-5095-01A-01D-1421-08	9912811	33785102	44292146	63	6742											
ATP8B1	5205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55319399	55319399	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaataagaagtatccaaGccaatctgttgggaaaccag	15	8	9	9	0	1	1	0	0	1	1	3	2	3	2	4	1	2	2	4	1	7	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	55319399	G	A	55319399	2	1	118	1	0	0	0	0	0	0	0	1	1194	958	34	2		2	ATP8B1	18	55319399	Silent	SNP	G	TCGA-B0-5095-01A-01D-1421-08	21534297	55319399	22757849	64	6743											
DUS3L	56931	broad.mit.edu	37	chr19	5785681	5785681	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgccctgcgtgtccgagcCccagtgctccaggccgtagt	5	7	12	17	4	0	0	0	0	0	0	2	1	2	0	6	1	3	2	6	1	1	1	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	5785681	A	A	5785681	3	1	118	1	0	0	0	0	1	0	0	0	4807	623	22	4	280	4	DUS3L	19	5785681	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		5785681	53343302	65	6744											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9067149	9067149	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaattcctgagtcgccatcGagtgtgttcctgccctggag	7	11	12	11	2	0	1	0	1	0	0	4	4	2	2	4	1	1	1	4	1	1	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	9067149	G	A	9067149	3	1	118	1	0	0	0	0	1	0	0	0	9973	1059	37	1	23554	1	MUC16	19	9067149	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	3281468	9067149	50061834	66	6745											
DNMT1	1786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10262203	10262203	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatcgtcatctgcctccttCatggccatattgggacacct	7	13	7	14	1	4	0	3	0	1	0	6	1	5	1	4	2	1	0	4	2	1	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	10262203	C	T	10262203	3	4	118	1	0	0	0	0	1	0	0	0	4675	826	29	2	2834	2	DNMT1	19	10262203	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	1195054	10262203	48866780	67	6746											
ZNF625	90589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12256409	12256409	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacactgtttacattcataCggcttctccccagtgtgagt	8	13	7	13	1	2	1	1	1	1	0	3	1	2	1	3	1	2	2	3	1	2	5	rs188764180	by1000genomes	TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	12256409	C	T	12256409	2	4	118	1	0	0	0	0	0	0	0	1	18048	523	19	1		1	ZNF625	19	12256409	Silent	SNP	C	TCGA-B0-5095-01A-01D-1421-08	1994206	12256409	46872574	68	6747											
CCDC105	126402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15132495	15132495	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtacgaaatataaccaagAgttgtacaccacccacggtc	14	8	8	11	2	0	1	0	0	0	1	1	2	0	1	3	1	3	3	3	1	6	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	15132495	A	G	15132495	3	3	118	1	0	0	0	0	1	0	0	0	2740	304	11	3	1127	3	CCDC105	19	15132495	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	2876086	15132495	43996488	69	6748											
C19orf47	126526	broad.mit.edu;hgsc.bcm.edu	37	chr19	40827909	40827909	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagagtcctcttaatggtGaccttgacctcggctgagga	9	10	11	11	1	1	4	0	3	1	1	3	5	2	5	4	3	0	1	4	3	1	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	40827909	G	T	40827909	2	4	118	1	0	0	0	0	0	0	0	1	1930	1277	45	4		4	C19orf47	19	40827909	Silent	SNP	G	TCGA-B0-5095-01A-01D-1421-08	25695414	40827909	18301074	70	6749											
PLD3	23646	hgsc.bcm.edu;ucsc.edu	37	chr19	40876075	40876075	+	Frame_Shift_Del	DEL	G	G	-																															catggcgtcctgcataccaaGttctgggtggtggaccagac																								novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		-	40876075	G	-	40876075	7	5	118	1	0	1	0	1	0	0	0	0	12047	1020	36	0	631	0	PLD3	19	40876075	Frame_Shift_Del	DEL	G	TCGA-B0-5095-01A-01D-1421-08	48166	40876075	18252908	71	6750											
ZNF530	348327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58118103	58118103	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accaaagatttcacactggaGaaagaccttatgtgtgcagt	14	10	9	8	0	1	3	1	0	0	3	1	4	1	3	2	1	1	1	2	1	3	2	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	58118103	G	C	58118103	3	2	118	1	0	0	0	0	1	0	0	0	17970	943	33	4	1220	4	ZNF530	19	58118103	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	17242028	58118103	1010880	72	6751											
NCOA3	8202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	46277767	46277767	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttttgaatcagagccgaCaggcacttgaattgaaaatg	14	11	10	6	1	1	4	1	3	0	1	1	5	1	4	1	1	1	2	1	1	4	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	46277767	C	G	46277767	3	3	118	1	0	0	0	0	1	0	0	0	10230	479	17	4	3661	4	NCOA3	20	46277767	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		46277767	16747753	73	6752											
C20orf43	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	55049773	55049773	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcattgaatttctcttggaCaaatctgcagaaaaggctct	12	13	8	8	0	4	2	1	1	3	1	5	3	4	3	0	2	1	2	0	2	4	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	55049773	C	A	55049773	3	1	118	1	0	0	0	0	1	0	0	0	2112	477	17	4	214	4	C20orf43	20	55049773	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08	8772006	55049773	7975747	74	6753											
ZGPAT	84619	broad.mit.edu;ucsc.edu	37	chr20	62366756	62366756	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggggccctagaagccGgggcggccccagcggggagg	5	3	19	14	3	0	1	0	0	0	1	1	2	1	2	5	8	2	0	5	8	2	1	rs17855481	bycluster;alternate_allele	TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	62366756	C	C	62366756	3	2	118	1	0	0	0	0	1	0	0	0	17673	1116	39	4	1315	4	ZGPAT	20	62366756	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	7316983	62366756	658764	75	6754											
USP25	29761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	17197352	17197352	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagagactgaaagattacCtcacggtattacaacaaagg	17	8	8	8	1	2	3	2	1	0	2	2	4	2	3	1	2	3	1	1	2	7	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		G	17197352	C	G	17197352	3	3	118	1	0	0	0	0	1	0	0	0	17055	681	24	4	1322	4	USP25	21	17197352	Missense_Mutation	SNP	C	TCGA-B0-5095-01A-01D-1421-08		17197352	30932543	76	6755											
UBE2L3	7332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21968852	21968852	+	RNA	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcccttgtccttagaaacttCagcgttcccaattatggctt	8	14	7	12	1	1	1	1	0	0	1	3	1	3	1	3	1	2	2	3	1	4	6	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		T	21968852	C	T	21968852	1	4	118	0	1	0	0	0	0	0	0	0	16862	841	29	2		2	UBE2L3	22	21968852	RNA	SNP	C	TCGA-B0-5095-01A-01D-1421-08		21968852	29335714	77	6756											
DDTL	100037417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24313566	24313566	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaagaagtcatgtttgaatGaggaagctctcttcatttat	12	15	9	5	0	3	3	2	2	1	1	4	4	3	4	0	1	1	3	0	1	5	5	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	24313566	G	A	24313566	3	1	118	1	0	0	0	0	1	0	0	0	4340	1291	45	2	386	2	DDTL	22	24313566	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	2344714	24313566	26991000	78	6757											
PKDREJ	10343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	46655753	46655753	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttggccatcacatagtggGtatgcaggtgaatgcccgtg	8	10	13	10	1	1	1	1	1	0	0	1	1	1	1	3	3	2	2	3	3	3	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		A	46655753	G	A	46655753	3	1	118	1	0	0	0	0	1	0	0	0	11970	1261	44	2	3298	2	PKDREJ	22	46655753	Missense_Mutation	SNP	G	TCGA-B0-5095-01A-01D-1421-08	22342187	46655753	4648813	79	6758											
MOV10L1	54456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50555733	50555733	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaagcttaaaagttcacaAgcgttaacatccgcaaaaac	20	7	5	9	2	1	0	1	0	0	0	2	0	2	0	1	0	4	4	1	0	8	3	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	50555733	A	C	50555733	3	2	118	1	0	0	0	0	1	0	0	0	9719	69	3	5	1482	5	MOV10L1	22	50555733	Missense_Mutation	SNP	A	TCGA-B0-5095-01A-01D-1421-08	3899980	50555733	748833	80	6759											
KIF4A	24137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	69622533	69622533	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaagtgtgccctgaaataTttgattggagaggtaaacat	13	11	11	6	0	0	3	0	2	0	1	0	4	0	3	2	2	2	1	2	2	5	4	novel		TCGA-B0-5095-01A-01D-1421-08	TCGA-B0-5095-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93c714f8-acea-4550-92fe-aad4aad65ac9	fe1f491c-9dd3-4d5b-9c51-3e3554674e99		C	69622533	T	C	69622533	2	2	118	1	0	0	0	0	0	0	0	1	8303	1500	52	3		3	KIF4A	23	69622533	Silent	SNP	T	TCGA-B0-5095-01A-01D-1421-08		69622533	85648027	81	6760											
VPS13D	55187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12423192	12423192	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtggtgttccactggcCtcggaatgactatgatcagc	8	11	12	10	1	1	2	1	2	0	0	3	3	2	3	2	3	1	1	2	3	2	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	12423192	C	G	12423192	3	3	119	1	0	0	0	0	1	0	0	0	17191	681	24	4	10539	4	VPS13D	1	12423192	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08		12423192	236827429	1	6761											
NFYC	4802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	41218906	41218906	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagagatgaactgaaaccTccaaagcgtcaggtgagctg	14	6	11	10	1	1	4	1	3	0	1	2	5	2	4	3	1	4	1	3	1	4	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	41218906	T	G	41218906	2	3	119	1	0	0	0	0	0	0	0	1	10391	1538	54	5		5	NFYC	1	41218906	Silent	SNP	T	TCGA-B0-5096-01A-01D-1421-08	28795714	41218906	208031715	2	6762											
FNBP1L	54874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	93987691	93987691	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaaagatgaagagccaCggtaaattacatacctgttc	15	9	7	10	1	0	3	0	1	0	2	2	3	1	3	3	1	3	2	3	1	6	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	93987691	C	T	93987691	3	4	119	1	0	0	0	0	1	0	0	0	5966	550	19	1	203	1	FNBP1L	1	93987691	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	52768785	93987691	155262930	3	6763											
GNAI3	2773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110129422	110129422	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtttacagaaacttcaatCattctcttccttaacaagaa	14	14	4	9	0	3	2	2	0	1	2	5	2	4	2	1	1	3	1	1	1	6	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	110129422	C	T	110129422	2	4	119	1	0	0	0	0	0	0	0	1	6506	816	29	2		2	GNAI3	1	110129422	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	16141731	110129422	139121199	4	6764											
RBM15	64783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110883213	110883213	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttaagaagggcgtttgatCgctttggagtcatcacagaa	12	12	11	6	2	2	3	2	1	0	2	3	4	2	4	0	2	0	2	0	2	3	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	110883213	C	T	110883213	3	4	119	1	0	0	0	0	1	0	0	0	13118	884	31	1	1188	1	RBM15	1	110883213	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	753791	110883213	138367408	5	6765											
DUSP27	92235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	167095901	167095901	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacaggagctcagaagcAgggagcagggtgcgggagga	12	2	20	7	1	1	2	1	0	0	2	1	6	1	6	0	5	4	4	0	5	1	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	167095901	A	C	167095901	2	2	119	1	0	0	0	0	0	0	0	1	4824	175	7	5		5	DUSP27	1	167095901	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	56212688	167095901	82154720	6	6766											
CACNA1E	777	hgsc.bcm.edu	37	chr1	181706671	181706672	+	Frame_Shift_Ins	INS	-	-	C																															tgcccgcaggatccggagggINScctgccactacatcgtgaac																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	181706672	-	C	181706671	7	5	119	1	0	1	1	0	0	0	0	0	2542	1203	42	0	3523	0	CACNA1E	1	181706671	Frame_Shift_Ins	INS	-	TCGA-B0-5096-01A-01D-1421-08	14610770	181706671	67543950	7	6767											
LAMB3	3914	hgsc.bcm.edu	37	chr1	209799286	209799286	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcactggtcacagcggggCccggtcaagccagggcggca	7	4	17	13	3	2	0	2	0	0	0	2	0	2	0	2	7	2	2	2	7	1	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	209799286	C	T	209799286	2	4	119	1	0	0	0	0	0	0	0	1	8612	726	26	2		2	LAMB3	1	209799286	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	28092615	209799286	39451335	8	6768											
ZNF124	7678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247322364	247322364	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctctggtcttcccctttGtttcctaaaatgtagaccca	8	15	6	12	0	2	1	0	0	2	1	4	1	4	1	4	1	1	3	4	1	3	5	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	247322364	G	A	247322364	2	1	119	1	0	0	0	0	0	0	0	1	17719	1368	48	2		2	ZNF124	1	247322364	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	37523078	247322364	1928257	9	6769											
OTX1	5013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63282664	63282664	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaccgccgcgccaaatGccgccagcagcagcagagcg	12	1	12	16	5	0	2	0	0	0	2	0	2	0	2	5	0	6	3	5	0	3	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	63282664	G	C	63282664	3	2	119	1	0	0	0	0	1	0	0	0	11320	1319	46	4	288	4	OTX1	2	63282664	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08		63282664	179916709	10	6770											
C2orf89	0	broad.mit.edu;ucsc.edu	37	chr2	85097390	85097390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caatggatggcactgctcttCcaccttttccactgccccag	7	11	7	16	0	1	0	0	0	1	0	3	1	3	1	5	2	2	2	5	2	1	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	85097390	T	T	85097390	3	4	119	1	0	0	0	0	1	0	0	0	2203	864	30	2	762	2	C2orf89	2	85097390	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	21814726	85097390	158101983	11	6771											
GCC2	9648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109100728	109100728	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttggagcaagaaataaaaAttcaaaaacagaaacaagaa	25	6	6	4	0	1	3	1	0	0	3	1	4	1	4	0	1	3	1	0	1	10	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	109100728	A	G	109100728	3	3	119	1	0	0	0	0	1	0	0	0	6286	101	4	3	3624	3	GCC2	2	109100728	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	24003338	109100728	134098645	12	6772											
SLC35F5	80255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	114512805	114512805	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaataacaatcccaagAgccattcgcctgcgctgagt	14	7	9	11	2	0	4	0	1	0	3	2	4	1	4	3	0	3	1	3	0	5	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	114512805	A	C	114512805	2	2	119	1	0	0	0	0	0	0	0	1	14594	291	11	5		5	SLC35F5	2	114512805	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	5412077	114512805	128686568	13	6773											
PROC	5624	broad.mit.edu;hgsc.bcm.edu	37	chr2	128186505	128186505	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacaaggaagccccccagAagagctgggcaccttagcga	13	3	13	12	1	0	3	0	0	0	3	0	6	0	4	4	2	3	2	4	2	4	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	128186505	A	C	128186505	3	2	119	1	0	0	0	0	1	0	0	0	12547	247	9	5	1399	5	PROC	2	128186505	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	13673700	128186505	115012868	14	6774											
KCNH7	90134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	163241431	163241431	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtatctgcagagtcttcaGgatcatttgtactgttttct	7	18	9	7	0	5	1	2	0	3	1	5	2	5	2	0	2	2	4	0	2	2	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	163241431	G	C	163241431	3	2	119	1	0	0	0	0	1	0	0	0	8037	1000	35	4	877	4	KCNH7	2	163241431	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	35054926	163241431	79957942	15	6775											
CYBRD1	79901	broad.mit.edu;hgsc.bcm.edu	37	chr2	172411334	172411334	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgggcagagatctaccatGtaaaatgttgtagagataga	14	10	12	5	0	1	3	0	0	1	3	1	5	1	3	1	1	1	5	1	1	5	5	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	172411334	G	A	172411334	3	1	119	1	0	0	0	0	1	0	0	0	4134	1377	48	2	872	2	CYBRD1	2	172411334	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	9169903	172411334	70788039	16	6776											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179417031	179417031	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaataacagtgtattttcctCcatgctccttcttggcattc	8	16	6	11	0	1	0	0	0	1	0	5	1	4	0	3	1	2	3	3	1	3	7	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	179417031	C	T	179417031	3	4	119	1	0	0	0	0	1	0	0	0	16734	855	30	2	17495	2	TTN	2	179417031	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	7005697	179417031	63782342	17	6777											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179587903	179587903	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttctctgttgtgactatGttacatttttcagaggtagt	7	20	9	5	0	2	2	1	1	1	1	3	2	2	2	0	1	1	4	0	1	3	8	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	179587903	G	A	179587903	2	1	119	1	0	0	0	0	0	0	0	1	16734	1368	48	2		2	TTN	2	179587903	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	170872	179587903	63611470	18	6778											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179665198	179665198	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaataggtccctgagtcCtcagggtatgcttctgcaat	9	12	10	10	0	2	2	1	2	1	0	4	2	4	2	2	2	2	3	2	2	4	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	179665198	C	G	179665198	3	3	119	1	0	0	0	0	1	0	0	0	16734	680	24	4	110917	4	TTN	2	179665198	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	77295	179665198	63534175	19	6779											
SLC39A10	57181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196545178	196545178	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccataatcatttaaattcaGaaaatcaaactgtgaccagt	17	11	4	9	0	3	2	3	1	0	1	3	2	3	2	2	0	1	0	2	0	6	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	196545178	G	T	196545178	4	4	119	1	0	0	0	0	0	1	0	0	14615	943	33	4	414	4	SLC39A10	2	196545178	Nonsense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	16879980	196545178	46654195	20	6780											
USP40	55230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234431845	234431845	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgagaatcctgaattaaAattgagcttccatttctgag	13	14	7	7	0	2	4	1	4	1	1	4	5	4	4	2	0	1	1	2	0	4	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	234431845	A	G	234431845	2	3	119	1	0	0	0	0	0	0	0	1	17071	10	1	3		3	USP40	2	234431845	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	37886667	234431845	8767528	21	6781											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188197	10188197	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctttgcttgtcccgataGgtcacctttggctcttcaga	7	14	8	12	1	3	1	2	0	1	1	4	2	4	1	3	2	2	2	3	2	2	5	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	10188197	G	T	10188197	5	4	119	1	0	0	0	0	0	0	1	0	17161	1014	35	4	346	4	VHL	3	10188197	Splice_Site	SNP	G	TCGA-B0-5096-01A-01D-1421-08		10188197	187834233	22	6782											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443894	52443894	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagccagcccttattcaTcttcccgcggggcggcccct	4	9	9	19	3	2	0	1	0	1	0	4	0	4	0	6	3	2	0	6	3	1	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	52443894	T	C	52443894	3	2	119	1	0	0	0	0	1	0	0	0	1311	1435	50	3	2256	3	BAP1	3	52443894	Missense_Mutation	SNP	T	TCGA-B0-5096-01A-01D-1421-08	42255697	52443894	145578536	23	6783											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52651339	52651339	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttcatgtcttctatcAttccctcttcaccagcatat	8	16	3	14	0	7	0	4	0	3	0	8	0	8	0	2	0	2	2	2	0	2	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	52651339	A	T	52651339	3	4	119	1	0	0	0	0	1	0	0	0	11491	217	8	5	3211	5	PBRM1	3	52651339	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	207445	52651339	145371091	24	6784											
MORC1	27136	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	108788593	108788593	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggctctgaatgaccacCtcgctgggaaactgaaatag	12	9	11	9	1	1	3	0	3	1	0	2	4	1	4	2	2	1	3	2	2	5	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	108788593	C	T	108788593	3	4	119	1	0	0	0	0	1	0	0	0	9701	681	24	2	2333	2	MORC1	3	108788593	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	56137254	108788593	89233837	25	6785											
DNAJC13	23317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132245126	132245126	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagtgaattagtagcacaaGtaagtgactttctagattta	15	13	9	4	0	1	4	0	2	1	2	1	4	1	4	0	0	1	3	0	0	7	7	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	132245126	G	A	132245126	5	1	119	1	0	0	0	0	0	0	1	0	4632	1043	36	2	6588	2	DNAJC13	3	132245126	Splice_Site	SNP	G	TCGA-B0-5096-01A-01D-1421-08	23456533	132245126	65777304	26	6786											
A4GNT	51146	broad.mit.edu;ucsc.edu	37	chr3	137843327	137843327	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcatagtagcgcctccActctcgataggagatggggt	9	10	11	11	2	2	1	1	0	1	1	4	3	3	1	2	3	1	1	2	3	3	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	137843327	C	C	137843327	3	2	119	1	0	0	0	0	1	0	0	0	7	159	6	5	224	5	A4GNT	3	137843327	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	5598201	137843327	60179103	27	6787											
SLC9A9	285195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142987800	142987800	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcagcggaggaccagagtGggttaaaattggtttcagat	12	10	14	5	1	2	2	2	0	0	2	2	4	2	4	1	4	1	2	1	4	2	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	142987800	G	T	142987800	3	4	119	1	0	0	0	0	1	0	0	0	14723	1348	47	4	318	4	SLC9A9	3	142987800	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	5144473	142987800	55034630	28	6788											
OPA1	4976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193355797	193355797	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgtgttggaaatgattgcCcaagctcgaatattcccaag	12	11	10	8	1	0	1	0	1	0	0	2	3	1	2	2	1	2	2	2	1	5	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	193355797	C	G	193355797	2	3	119	1	0	0	0	0	0	0	0	1	10871	610	22	4		4	OPA1	3	193355797	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	50367997	193355797	4666633	29	6789											
WHSC1	7468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1920240	1920240	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaggctgaccccagaagaGgagtagggtctcctcctggg	9	6	15	11	0	1	4	0	1	1	3	3	5	2	5	4	4	0	2	4	4	2	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	1920240	G	C	1920240	3	2	119	1	0	0	0	0	1	0	0	0	17361	1001	35	4	1314	4	WHSC1	4	1920240	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08		1920240	189234036	30	6790											
ALB	213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	74283985	74283985	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattcaccttccatgcagatAtatgcacactttctgagaag	12	12	6	11	0	2	2	1	1	1	2	3	3	3	2	2	0	2	2	2	0	3	5	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	74283985	A	G	74283985	3	3	119	1	0	0	0	0	1	0	0	0	486	449	16	3	1655	3	ALB	4	74283985	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	72363745	74283985	116870291	31	6791											
CCNI	10983	broad.mit.edu;ucsc.edu	37	chr4	77969663	77969663	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcctgggacagaggaGggatgtaatctgaacactcc	10	8	14	9	0	2	2	0	1	2	1	3	5	3	5	2	4	1	1	2	4	2	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	77969663	T	T	77969663	2	4	119	1	0	0	0	0	0	0	0	1	2926	987	35	4		4	CCNI	4	77969663	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	3685678	77969663	113184613	32	6792											
ABCG2	9429	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	89016750	89016750	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgagattgaccaacagAcctgaaaaaatctacaaaaa	19	8	7	7	0	1	4	0	3	1	2	1	5	1	4	2	0	2	1	2	0	7	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	89016750	A	G	89016750	2	3	119	1	0	0	0	0	0	0	0	1	69	262	10	3		3	ABCG2	4	89016750	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	11047087	89016750	102137526	33	6793											
GPX8	493869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54459987	54459987	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcccattgaagtcatcAggcctgacatagcagctctg	11	8	11	11	0	3	2	2	2	1	0	3	3	3	3	2	2	3	2	2	2	2	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	54459987	A	G	54459987	3	3	119	1	0	0	0	0	1	0	0	0	6746	179	7	3	581	3	GPX8	5	54459987	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08		54459987	126455273	34	6794											
LARS	51520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145557190	145557190	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttggatttctttctcaatCttcttcaaaaagtccacttt	9	19	4	9	0	5	0	2	0	4	0	7	1	6	1	1	1	0	1	1	1	3	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	145557190	C	T	145557190	2	4	119	1	0	0	0	0	0	0	0	1	8634	912	32	2		2	LARS	5	145557190	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	91097203	145557190	35358070	35	6795											
THOC3	84321	broad.mit.edu	37	chr5	175387036	175387036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccggctgctgtcatatttgCcgtctttgtcatcacaggca	6	13	9	13	2	4	0	3	0	1	0	4	0	4	0	2	2	2	3	2	2	1	3	rs139761351	alternate_allele	TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	175387036	T	T	175387036	3	4	119	1	0	0	0	0	1	0	0	0	15865	739	26	2	67	2	THOC3	5	175387036	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	29829846	175387036	5528224	36	6796											
SNRNP48	154007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7605680	7605680	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaactcagcaatcattGgcaagaagagcaagagaagg	18	4	13	6	0	2	4	2	0	0	4	2	6	2	5	0	3	3	3	0	3	7	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	7605680	G	A	7605680	4	1	119	1	0	0	0	0	0	1	0	0	14859	1357	47	2	793	2	SNRNP48	6	7605680	Nonsense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08		7605680	163509387	37	6797											
OR12D3	81797	broad.mit.edu;hgsc.bcm.edu	37	chr6	29342284	29342284	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catggaggtggctgaagcagGacgaatatatgtgaagccca	13	7	14	7	1	0	2	0	2	0	0	0	5	0	4	1	4	2	2	1	4	5	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	29342284	G	A	29342284	3	1	119	1	0	0	0	0	1	0	0	0	10932	1174	41	2	173	2	OR12D3	6	29342284	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	21736604	29342284	141772783	38	6798											
VARS2	57176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30884693	30884693	+	Missense_Mutation	SNP	G	G	A																															tgagcagctgcgagctctggGtgcctccctggactgggatc																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	30884693	G	A	30884693	3	1	119	1	0	0	0	0	1	0	0	0	17123	1261	44	2	830	2	VARS2	6	30884693	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	1542409	30884693	140230374	39	6799	83	2									
VARS2	57176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30884694	30884694	+	Silent	SNP	T	T	C																															gagcagctgcgagctctgggTgcctccctggactgggatcg																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	30884694	T	C	30884694	2	2	119	1	0	0	0	0	0	0	0	1	17123	1683	59	3		3	VARS2	6	30884694	Silent	SNP	T	TCGA-B0-5096-01A-01D-1421-08	1	30884694	140230373	40	6800	83	2									
EHMT2	10919	broad.mit.edu;hgsc.bcm.edu	37	chr6	31855386	31855386	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccttctgcagctcgcccTgcttcacggacaggtacaac	8	9	8	16	2	3	0	2	0	1	0	4	1	3	1	2	2	5	4	2	2	2	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	31855386	T	C	31855386	3	2	119	1	0	0	0	0	1	0	0	0	4984	1580	55	3	1709	3	EHMT2	6	31855386	Missense_Mutation	SNP	T	TCGA-B0-5096-01A-01D-1421-08	970692	31855386	139259681	41	6801											
PBX2	5089	hgsc.bcm.edu	37	chr6	32155054	32155054	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcggggagctggtgcggCtgtggcccccctgggtgact	2	9	19	11	2	0	1	0	1	0	0	1	2	0	2	3	6	2	2	3	6	0	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	32155054	C	T	32155054	3	4	119	1	0	0	0	0	1	0	0	0	11493	797	28	2	319	2	PBX2	6	32155054	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	299668	32155054	138960013	42	6802											
NOTCH4	4855	broad.mit.edu;hgsc.bcm.edu	37	chr6	32170158	32170158	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctgggccccccaagccCgtggtctctgagcagctgcc	6	6	12	17	1	1	1	0	1	1	0	2	1	1	1	6	2	5	2	6	2	2	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	32170158	C	T	32170158	2	4	119	1	0	0	0	0	0	0	0	1	10551	639	23	1		1	NOTCH4	6	32170158	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	15104	32170158	138944909	43	6803											
FOXP4	116113	broad.mit.edu;hgsc.bcm.edu	37	chr6	41554889	41554889	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcccctccagacccttcCgcaaggtgagcacccgccac	7	4	11	19	2	0	2	0	1	0	1	2	2	2	2	7	3	1	2	7	3	1	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	41554889	C	T	41554889	3	4	119	1	0	0	0	0	1	0	0	0	6029	652	23	1	671	1	FOXP4	6	41554889	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	9384731	41554889	129560178	44	6804											
COBL	23242	hgsc.bcm.edu	37	chr7	51096357	51096358	+	Frame_Shift_Ins	INS	-	-	T																															tctgctggggcgatattggcINSttggggtctgcttggagtct																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	51096358	-	T	51096357	7	5	119	1	0	1	1	0	0	0	0	0	3653	796	28	0	1365	0	COBL	7	51096357	Frame_Shift_Ins	INS	-	TCGA-B0-5096-01A-01D-1421-08		51096357	108042306	45	6805											
MLXIPL	51085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	73011232	73011232	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggagggtgctggatacaAgtggtggctccagggcttgc	7	8	19	7	0	0	0	0	0	0	0	1	3	1	3	1	7	3	3	1	7	2	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	73011232	A	G	73011232	3	3	119	1	0	0	0	0	1	0	0	0	9637	72	3	3	956	3	MLXIPL	7	73011232	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	21914875	73011232	86127431	46	6806											
LAMB1	3912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107596066	107596066	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggtcgccatagtaaccAgccaagcacctgcatcagtc	11	7	10	13	1	1	0	1	0	0	0	3	0	1	0	4	2	4	3	4	2	3	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	107596066	A	G	107596066	2	3	119	1	0	0	0	0	0	0	0	1	8610	175	7	3		3	LAMB1	7	107596066	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	34584834	107596066	51542597	47	6807											
LAMB4	22798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107720165	107720165	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggtccagtccatgtaacagGgttcccaggaactggctctc	9	9	11	12	0	1	0	0	0	1	0	5	1	4	1	3	4	2	3	3	4	2	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	107720165	G	A	107720165	3	1	119	1	0	0	0	0	1	0	0	0	8613	1232	43	2	3597	2	LAMB4	7	107720165	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	124099	107720165	51418498	48	6808											
CAPZA2	830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116533094	116533094	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttctcagggaaggagcAgcccagtaagtattatttat	13	12	9	7	0	2	0	1	0	2	0	3	2	2	2	1	2	2	3	1	2	6	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	116533094	A	T	116533094	2	4	119	1	0	0	0	0	0	0	0	1	2641	175	7	5		5	CAPZA2	7	116533094	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	8812929	116533094	42605569	49	6809											
ZC3HC1	51530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129666109	129666109	+	Missense_Mutation	SNP	T	T	A																															ttcggtgatcaagttcatctTcaagcaagtgtaggagaaga																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	129666109	T	A	129666109	3	1	119	1	0	0	0	0	1	0	0	0	17576	1783	62	5	863	5	ZC3HC1	7	129666109	Missense_Mutation	SNP	T	TCGA-B0-5096-01A-01D-1421-08	13133015	129666109	29472554	50	6810	84	2									
ZC3HC1	51530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129666110	129666110	+	Nonsense_Mutation	SNP	C	C	A																															tcggtgatcaagttcatcttCaagcaagtgtaggagaagac																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	129666110	C	A	129666110	4	1	119	1	0	0	0	0	0	1	0	0	17576	835	29	4	864	4	ZC3HC1	7	129666110	Nonsense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	1	129666110	29472553	51	6811	84	2									
ERICH1	157697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	623372	623372	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaattgtatcatcttccTcgctggcgtctgcaccgtcc	5	14	9	13	3	3	0	1	0	2	0	6	0	5	0	3	2	1	4	3	2	2	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	623372	T	A	623372	3	1	119	1	0	0	0	0	1	0	0	0	5230	1551	54	5	363	5	ERICH1	8	623372	Missense_Mutation	SNP	T	TCGA-B0-5096-01A-01D-1421-08		623372	145740650	52	6812											
LZTS1	11178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	20107281	20107281	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggggatgtcagccccttcCaggtcaacctccaagggctc	8	8	11	14	0	2	0	2	0	0	0	5	1	4	1	5	4	2	1	5	4	3	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	20107281	C	T	20107281	2	4	119	1	0	0	0	0	0	0	0	1	9138	581	21	2		2	LZTS1	8	20107281	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	19483909	20107281	126256741	53	6813											
CDCA2	157313	broad.mit.edu;hgsc.bcm.edu	37	chr8	25364407	25364407	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtcaagaattttctgctgGtggtcaaaatgcagaaaacc	13	10	11	7	0	3	2	2	0	1	2	3	2	3	2	1	3	3	2	1	3	6	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	25364407	G	T	25364407	3	4	119	1	0	0	0	0	1	0	0	0	3086	1261	44	4	2279	4	CDCA2	8	25364407	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	5257126	25364407	120999615	54	6814											
ASH2L	9070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	37967896	37967896	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataatttggctcttcggcaGatcctgtctacctttcatga	8	16	7	10	1	3	2	1	1	2	1	5	2	4	2	2	2	1	2	2	2	3	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	37967896	G	T	37967896	5	4	119	1	0	0	0	0	0	0	1	0	1042	956	33	4	415	4	ASH2L	8	37967896	Splice_Site	SNP	G	TCGA-B0-5096-01A-01D-1421-08	12603489	37967896	108396126	55	6815											
ADAM32	203102	hgsc.bcm.edu;ucsc.edu	37	chr8	39103665	39103666	+	Frame_Shift_Ins	INS	-	-	A																															ttcagcacatgtttgttcacINSaacagtgttctggacatgga																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	39103666	-	A	39103665	7	5	119	1	0	1	1	0	0	0	0	0	249	479	17	0	1948	0	ADAM32	8	39103665	Frame_Shift_Ins	INS	-	TCGA-B0-5096-01A-01D-1421-08	1135769	39103665	107260357	56	6816											
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	77768068	77768068	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagattggtctgcccaaaCgcgtagtccaggtgtggttc	8	11	13	9	2	1	1	0	1	1	1	3	2	2	1	2	3	2	2	2	3	2	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	77768068	C	T	77768068	3	4	119	1	0	0	0	0	1	0	0	0	17634	536	19	1	8945	1	ZFHX4	8	77768068	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	38664403	77768068	68595954	57	6817											
ZHX2	22882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	123963970	123963970	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaaagccagtccaaaaaaCtccaaggtggttatgagtgc	14	7	12	8	0	0	1	0	1	0	0	2	2	2	2	3	3	3	1	3	3	6	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	123963970	C	G	123963970	3	3	119	1	0	0	0	0	1	0	0	0	17675	565	20	4	222	4	ZHX2	8	123963970	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	46195902	123963970	22400052	58	6818											
TAF3	83860	broad.mit.edu	37	chr10	8051125	8051125	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaccgccggcccccgcGcccgcccccggccccatgct	3	2	9	27	6	0	0	0	0	0	0	0	0	0	0	11	2	1	1	11	2	0	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	8051125	T	T	8051125	2	4	119	1	0	0	0	0	0	0	0	1	15524	1074	38	4		4	TAF3	10	8051125	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08		8051125	127483622	59	6819											
MUC6	4588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1016334	1016334	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aagatgtgccaacagaaggcGatgaagtctggggagaggag	14	5	17	5	1	1	4	0	1	1	3	1	7	1	5	1	4	2	0	1	4	4	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	1016334	G	C	1016334	3	2	119	1	0	0	0	0	1	0	0	0	9980	1059	37	4	864	4	MUC6	11	1016334	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08		1016334	133990182	60	6820											
MPPED2	744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	30557623	30557623	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagaaggatgtccccataAggcatctggataccatctgt	11	10	11	9	0	2	1	0	0	2	1	3	4	3	3	3	4	1	1	3	4	3	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	30557623	A	T	30557623	2	4	119	1	0	0	0	0	0	0	0	1	9742	59	3	5		5	MPPED2	11	30557623	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	29541289	30557623	104448893	61	6821											
CCDC86	79080	hgsc.bcm.edu	37	chr11	60610042	60610043	+	Frame_Shift_Ins	INS	-	-	C																															ggaggagctgaccccgggggINSccccccagcatcagctaccg																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	60610043	-	C	60610042	7	5	119	1	0	1	1	0	0	0	0	0	2861	1203	42	0	447	0	CCDC86	11	60610042	Frame_Shift_Ins	INS	-	TCGA-B0-5096-01A-01D-1421-08	30052419	60610042	74396474	62	6822											
CPSF7	79869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61188976	61188976	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggctcctggcgaacaggAggaggtggttcagtgctgct	7	9	17	8	1	1	0	1	0	0	0	2	4	2	2	1	6	3	4	1	6	1	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	61188976	A	C	61188976	2	2	119	1	0	0	0	0	0	0	0	1	3830	291	11	5		5	CPSF7	11	61188976	Silent	SNP	A	TCGA-B0-5096-01A-01D-1421-08	578934	61188976	73817540	63	6823											
NAALAD2	10003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	89907078	89907078	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgaaaataaaaatttGcctaggtaagttactgatat	16	13	6	6	0	1	2	1	2	0	0	1	2	1	2	2	1	2	2	2	1	9	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	89907078	G	T	89907078	3	4	119	1	0	0	0	0	1	0	0	0	10128	1310	46	4	1551	4	NAALAD2	11	89907078	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	28718102	89907078	45099438	64	6824											
OSBPL8	114882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	76786494	76786494	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtttaagaagactagaacAtttcaaagccaactccaaag	18	8	6	9	1	1	3	1	0	0	3	2	3	2	3	2	0	3	1	2	0	7	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	76786494	A	G	76786494	3	3	119	1	0	0	0	0	1	0	0	0	11283	217	8	3	1933	3	OSBPL8	12	76786494	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08		76786494	57065401	65	6825											
CEP290	80184	hgsc.bcm.edu;ucsc.edu	37	chr12	88482866	88482866	+	Frame_Shift_Del	DEL	T	T	-																															aactcttccaggccctttaaTtttaattccatctccaatgt																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		-	88482866	T	-	88482866	7	5	119	1	0	1	0	1	0	0	0	0	3253	1490	52	0	3563	0	CEP290	12	88482866	Frame_Shift_Del	DEL	T	TCGA-B0-5096-01A-01D-1421-08	11696372	88482866	45369029	66	6826											
BDKRB1	623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	96730316	96730316	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggcagagaatatctggaaCcagtttaactggcctttcgg	10	11	12	8	1	1	1	0	0	1	1	2	3	1	2	2	4	2	2	2	4	4	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	96730316	C	G	96730316	3	3	119	1	0	0	0	0	1	0	0	0	1392	506	18	4	299	4	BDKRB1	14	96730316	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08		96730316	10619224	67	6827											
ARHGAP11B	89839	broad.mit.edu;hgsc.bcm.edu	37	chr15	30919056	30919056	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctggtgaagttggccctGttgcagcatctgcgggcctt	5	11	15	10	1	1	1	0	1	1	0	1	1	1	1	2	4	3	5	2	4	1	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	30919056	G	T	30919056	2	4	119	1	0	0	0	0	0	0	0	1	864	1364	48	4		4	ARHGAP11B	15	30919056	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08		30919056	71612336	68	6828											
PLA2G4D	283748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42363506	42363506	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggtccccgaggtggtcaggGgctccttctctgaagccaga	7	8	14	12	1	2	2	1	1	1	1	5	3	4	2	4	5	1	1	4	5	1	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	42363506	G	A	42363506	3	1	119	1	0	0	0	0	1	0	0	0	12004	1232	43	2	781	2	PLA2G4D	15	42363506	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	11444450	42363506	60167886	69	6829											
TP53BP1	7158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43748161	43748161	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcttctgggcctctgcatctGagcttagctgctttgcatta	5	15	10	11	0	3	1	0	1	3	0	3	1	3	1	1	1	5	6	1	1	2	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	43748161	G	C	43748161	4	2	119	1	0	0	0	0	0	1	0	0	16382	1294	45	4	3356	4	TP53BP1	15	43748161	Nonsense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	1384655	43748161	58783231	70	6830											
TCF12	6938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57565320	57565320	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgccagagaacgcttacGcgtgcgggatattaatgaag	13	8	12	8	4	0	2	0	1	0	1	0	4	0	3	1	1	4	1	1	1	6	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	57565320	G	A	57565320	3	1	119	1	0	0	0	0	1	0	0	0	15686	1087	38	1	1981	1	TCF12	15	57565320	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	13817159	57565320	44966072	71	6831											
CGNL1	84952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57836715	57836715	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccacctggaaggttcctaCaggtccagcaaagaggggct	11	7	12	11	0	0	1	0	0	0	1	3	2	3	2	4	5	2	3	4	5	3	2	rs137878510	by1000genomes;alternate_allele	TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	57836715	C	G	57836715	4	3	119	1	0	0	0	0	0	1	0	0	3304	489	17	4	3478	4	CGNL1	15	57836715	Nonsense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	271395	57836715	44694677	72	6832											
HERC1	8925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63970224	63970224	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctctatgcaaagagtcCtcagctgcagctctgagagg	11	8	10	12	0	3	2	1	1	2	2	4	3	4	2	2	1	4	4	2	1	2	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	63970224	C	A	63970224	3	1	119	1	0	0	0	0	1	0	0	0	7057	681	24	4	7863	4	HERC1	15	63970224	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	6133509	63970224	38561168	73	6833											
HN1L	90861	broad.mit.edu;hgsc.bcm.edu	37	chr16	1748907	1748907	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcccatgcccacagtcGacagccatgagccccggctg	9	4	12	16	2	0	1	0	1	0	0	1	3	0	2	5	2	4	1	5	2	0	0	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	1748907	G	A	1748907	3	1	119	1	0	0	0	0	1	0	0	0	7250	1058	37	1	499	1	HN1L	16	1748907	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08		1748907	88605846	74	6834											
CCNF	899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2506613	2506613	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagaacagcattgctgccaGgaatccagtgatgaggaggc	12	6	13	10	0	0	3	0	2	0	1	1	5	1	5	3	3	4	2	3	3	2	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	2506613	G	A	2506613	2	1	119	1	0	0	0	0	0	0	0	1	2922	991	35	2		2	CCNF	16	2506613	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	757706	2506613	87848140	75	6835											
NLRC3	197358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3614126	3614126	+	Missense_Mutation	SNP	G	G	A																															cccctgggatctggccagatGcactgggacgggaggtgatc																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	3614126	G	A	3614126	3	1	119	1	0	0	0	0	1	0	0	0	10468	1319	46	2	2450	2	NLRC3	16	3614126	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	1107513	3614126	86740627	76	6836	85	2									
NLRC3	197358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3614127	3614127	+	Missense_Mutation	SNP	C	C	T																															ccctgggatctggccagatgCactgggacgggaggtgatcc																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	3614127	C	T	3614127	3	4	119	1	0	0	0	0	1	0	0	0	10468	710	25	2	2451	2	NLRC3	16	3614127	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	1	3614127	86740626	77	6837	85	2									
BBS2	583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	56535341	56535341	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgactgagagcgtggtgtgGagcctggtattggctgggat	6	11	18	6	1	0	2	0	2	0	1	0	5	0	4	1	5	2	2	1	5	1	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	56535341	G	A	56535341	2	1	119	1	0	0	0	0	0	0	0	1	1338	1161	41	2		2	BBS2	16	56535341	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	52921214	56535341	33819412	78	6838											
GOT2	2806	broad.mit.edu;hgsc.bcm.edu	37	chr16	58757714	58757714	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaggcaccaactcccagaTtcatctttttgctattggtg	8	14	9	10	0	2	1	1	0	1	1	3	1	3	1	2	3	2	3	2	3	3	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	58757714	T	C	58757714	3	2	119	1	0	0	0	0	1	0	0	0	6581	1493	52	3	1146	3	GOT2	16	58757714	Missense_Mutation	SNP	T	TCGA-B0-5096-01A-01D-1421-08	2222373	58757714	31597039	79	6839											
CDC27	996	broad.mit.edu;hgsc.bcm.edu	37	chr17	45219300	45219300	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagtggtgagaaggtagAtggctcaaaatatttatagc	13	13	12	3	0	1	2	1	1	0	2	1	3	1	2	0	3	1	3	0	3	8	7	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	45219300	A	T	45219300	3	4	119	1	0	0	0	0	1	0	0	0	3066	330	12	5	1036	5	CDC27	17	45219300	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08		45219300	35975910	80	6840											
DLX4	1748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48050513	48050513	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gccaaaaagctccgcaagccGaggaccatctactccagcct	12	5	8	16	2	1	0	0	0	1	0	3	2	3	1	6	1	4	2	6	1	4	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	48050513	G	C	48050513	2	2	119	1	0	0	0	0	0	0	0	1	4573	1045	37	4		4	DLX4	17	48050513	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	2831213	48050513	33144697	81	6841											
FN3K	64122	hgsc.bcm.edu;ucsc.edu	37	chr17	80706807	80706808	+	Frame_Shift_Ins	INS	-	-	G																															cagctggacctcattgagaaINSggactatgctgaccgagagg																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	80706808	-	G	80706807	7	5	119	1	0	1	1	0	0	0	0	0	5963	72	3	0	563	0	FN3K	17	80706807	Frame_Shift_Ins	INS	-	TCGA-B0-5096-01A-01D-1421-08	32656294	80706807	488403	82	6842											
CELF4	56853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	34855139	34855139	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatgttcccaaaggcctcGaaaaggcggcgcacgtcgtc	9	7	12	13	6	0	0	0	0	0	0	5	2	1	0	2	3	0	2	2	3	3	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	34855139	G	A	34855139	2	1	119	1	0	0	0	0	0	0	0	1	3218	1049	37	1		1	CELF4	18	34855139	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08		34855139	43222109	83	6843											
CCBE1	147372	hgsc.bcm.edu;ucsc.edu	37	chr18	57147435	57147435	+	Frame_Shift_Del	DEL	C	C	-																															taccttctgggatgcattgtCcaagaacaaatttatatcct																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		-	57147435	C	-	57147435	7	5	119	1	0	1	0	1	0	0	0	0	2731	855	30	0	1008	0	CCBE1	18	57147435	Frame_Shift_Del	DEL	C	TCGA-B0-5096-01A-01D-1421-08	22292296	57147435	20929813	84	6844											
GAMT	2593	broad.mit.edu;hgsc.bcm.edu	37	chr19	1398924	1398924	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgggcgcacctcaaacatGatggtgatgtctgagtactt	9	11	13	8	1	2	3	1	3	1	0	2	3	2	3	1	3	2	2	1	3	2	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	1398924	G	A	1398924	2	1	119	1	0	0	0	0	0	0	0	1	6231	1280	45	2		2	GAMT	19	1398924	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08		1398924	57730059	85	6845											
EMR1	2015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6896425	6896425	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggtaataactgtagagaCagtaccttgtgcccagctta	12	11	9	9	0	0	1	0	0	0	1	0	2	0	1	2	1	4	4	2	1	6	7	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	6896425	C	T	6896425	2	4	119	1	0	0	0	0	0	0	0	1	5104	477	17	2		2	EMR1	19	6896425	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	5497501	6896425	52232558	86	6846											
SIGLEC8	27181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51961243	51961243	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttcaactgtgatttgtaactCcatttcatgcttcctctctc	7	18	4	12	0	3	1	2	1	1	0	7	1	5	1	2	0	3	2	2	0	2	5	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	51961243	C	G	51961243	3	3	119	1	0	0	0	0	1	0	0	0	14316	856	30	4	1128	4	SIGLEC8	19	51961243	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08	45064818	51961243	7167740	87	6847											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57327461	57327461	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttctgagcttccacagaGgctaagctatgaataacaga	13	11	8	9	0	1	4	0	2	1	2	2	4	2	4	1	1	3	3	1	1	4	6	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	57327461	G	T	57327461	2	4	119	1	0	0	0	0	0	0	0	1	11720	987	35	4		4	PEG3	19	57327461	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	5366218	57327461	1801522	88	6848											
PDYN	5173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	1961113	1961113	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgccgcaagaagcccccAtagcgtttgtacaggtcctc	9	8	10	14	3	0	1	0	0	0	1	2	1	1	1	4	1	4	3	4	1	4	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	1961113	A	T	1961113	4	4	119	1	0	0	0	0	0	1	0	0	11699	224	8	5	147	5	PDYN	20	1961113	Nonsense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08		1961113	61064407	89	6849											
GSS	2937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33529582	33529582	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccttgctgggattattaGagaggatcttgccagcttct	7	14	11	9	0	2	1	0	0	2	1	3	4	3	3	2	2	3	2	2	2	2	5	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	33529582	G	T	33529582	3	4	119	1	0	0	0	0	1	0	0	0	6829	942	33	4	914	4	GSS	20	33529582	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	31568469	33529582	29495938	90	6850											
SLC37A1	54020	hgsc.bcm.edu	37	chr21	43962544	43962545	+	Frame_Shift_Ins	INS	-	-	G																															gctggtgcagaccaccggctINSggcccagcgtcgtcacctgc																								novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		G	43962545	-	G	43962544	7	5	119	1	0	1	1	0	0	0	0	0	14599	1580	55	0	539	0	SLC37A1	21	43962544	Frame_Shift_Ins	INS	-	TCGA-B0-5096-01A-01D-1421-08		43962544	4167351	91	6851											
PKNOX1	5316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	44448816	44448816	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgttgactccaggttcAtcaatgccagaagacgaatt	11	13	8	9	1	3	3	2	1	1	2	4	4	4	3	2	1	1	2	2	1	3	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	44448816	A	T	44448816	3	4	119	1	0	0	0	0	1	0	0	0	11982	217	8	5	965	5	PKNOX1	21	44448816	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	486272	44448816	3681079	92	6852											
TXNRD2	10587	broad.mit.edu;hgsc.bcm.edu	37	chr22	19883099	19883099	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctatgaccatggaggaCatttgctgcaaagcacaaga	13	9	10	9	0	1	2	0	1	1	1	1	4	1	4	1	2	4	4	1	2	3	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	19883099	C	T	19883099	3	4	119	1	0	0	0	0	1	0	0	0	16807	478	17	2	822	2	TXNRD2	22	19883099	Missense_Mutation	SNP	C	TCGA-B0-5096-01A-01D-1421-08		19883099	31421467	93	6853											
CBX6	23466	hgsc.bcm.edu	37	chr22	39262466	39262466	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagctgtgacctcaggCggtgcccgcttgctggtggc	4	8	16	13	2	1	1	1	1	0	0	1	1	1	1	2	4	4	5	2	4	0	1	rs114863931	byfrequency;by1000genomes;alternate_allele	TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	39262466	C	T	39262466	2	4	119	1	0	0	0	0	0	0	0	1	2722	755	27	1		1	CBX6	22	39262466	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	19379367	39262466	12042100	94	6854											
PNPLA4	8228	broad.mit.edu;hgsc.bcm.edu	37	chrX	7889834	7889834	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtgatggatacgtgcaGtcggttctgggccagctcgt	5	12	16	8	3	1	1	0	1	1	0	3	2	1	2	1	4	3	4	1	4	1	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	7889834	G	T	7889834	3	4	119	1	0	0	0	0	1	0	0	0	12167	1020	36	4	446	4	PNPLA4	23	7889834	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08		7889834	147380726	95	6855											
FAM9A	171482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	8764374	8764374	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttcctgtaagctgctttAtctatttttatcatttctct	6	23	4	8	0	3	0	1	0	2	0	5	0	4	0	1	0	2	4	1	0	4	10	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	8764374	A	T	8764374	3	4	119	1	0	0	0	0	1	0	0	0	5659	446	16	5	591	5	FAM9A	23	8764374	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	874540	8764374	146506186	96	6856											
COL4A6	1288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107431170	107431170	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggagccagaatcaccccGatctcctggcattccttgga	8	9	10	14	1	2	1	1	0	1	1	4	4	3	3	5	3	1	1	5	3	1	2	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		A	107431170	G	A	107431170	3	1	119	1	0	0	0	0	1	0	0	0	3695	1057	37	1	3493	1	COL4A6	23	107431170	Missense_Mutation	SNP	G	TCGA-B0-5096-01A-01D-1421-08	98666796	107431170	47839390	97	6857											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107935977	107935977	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctctccaaatctttctaGggacggctggcagctgcctt	6	14	9	12	1	3	0	0	0	3	0	5	1	4	1	2	3	2	3	2	3	2	4	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	107935977	G	T	107935977	5	4	119	1	0	0	0	0	0	0	1	0	3694	1014	35	4	4711	4	COL4A5	23	107935977	Splice_Site	SNP	G	TCGA-B0-5096-01A-01D-1421-08	504807	107935977	47334583	98	6858											
ATP1B4	23439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	119509282	119509282	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattgtcccccggggcagtaCttcatccaagatggcaatga	10	9	11	11	1	1	2	1	1	0	1	3	3	3	2	3	3	1	3	3	3	3	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	119509282	C	T	119509282	2	4	119	1	0	0	0	0	0	0	0	1	1135	576	20	2		2	ATP1B4	23	119509282	Silent	SNP	C	TCGA-B0-5096-01A-01D-1421-08	11573305	119509282	35761278	99	6859											
CT47B1	643311	broad.mit.edu	37	chrX	120009345	120009345	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaccctcctcctccccgagGccttccacgggccctgcgac	4	7	8	22	3	1	0	1	0	0	0	5	2	5	0	8	2	1	0	8	2	0	1	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		T	120009345	T	T	120009345	2	4	119	1	0	0	0	0	0	0	0	1	3989	1190	42	4		4	CT47B1	23	120009345	Silent	SNP	G	TCGA-B0-5096-01A-01D-1421-08	500063	120009345	35261215	100	6860											
MTMR1	8776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	149900042	149900042	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccaactagtgtaaaagAtgatgacctttcaaaagtgg	14	11	10	6	0	1	3	1	2	0	1	1	3	1	3	2	1	2	1	2	1	6	3	novel		TCGA-B0-5096-01A-01D-1421-08	TCGA-B0-5096-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	261de0a2-6006-4b3b-aac0-37d9b33840aa	4f944901-bdba-4e42-8dcd-bba2dae62b7b		C	149900042	A	C	149900042	3	2	119	1	0	0	0	0	1	0	0	0	9938	333	12	5	848	5	MTMR1	23	149900042	Missense_Mutation	SNP	A	TCGA-B0-5096-01A-01D-1421-08	29890697	149900042	5370518	101	6861											
SPSB1	80176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	9415972	9415972	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcagaaggtcactggaGggatcaagactgtggacatg	11	8	16	6	0	3	2	3	0	0	2	3	5	3	5	0	5	0	0	0	5	2	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	9415972	G	A	9415972	3	1	120	1	0	0	0	0	1	0	0	0	15113	1000	35	2	24	2	SPSB1	1	9415972	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08		9415972	239834649	1	6862											
GCLM	2730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94370100	94370100	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaccaaatctgggttgatTtgggaactccattcattcaa	11	13	8	9	0	3	2	2	2	1	0	4	3	4	3	2	2	1	1	2	2	3	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	94370100	T	C	94370100	2	2	120	1	0	0	0	0	0	0	0	1	6296	1838	64	3		3	GCLM	1	94370100	Silent	SNP	T	TCGA-B0-5097-01A-01D-1421-08	84954128	94370100	154880521	2	6863											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu	37	chr1	144865887	144865887	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttctcattgcagagctgaGgtatggactccaggccctga	8	11	12	10	0	1	3	1	2	1	1	3	4	2	4	2	3	2	4	2	3	1	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	144865887	G	C	144865887	3	2	120	1	0	0	0	0	1	0	0	0	11643	1000	35	4	1387	4	PDE4DIP	1	144865887	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	50495787	144865887	104384734	3	6864											
MAEL	84944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	166962002	166962002	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cattgtgaacagcgcttcctCccttgtgaaattggctgtgt	7	14	10	10	1	0	2	0	2	0	0	2	2	2	2	2	1	2	2	2	1	2	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	166962002	C	T	166962002	2	4	120	1	0	0	0	0	0	0	0	1	9154	842	30	2		2	MAEL	1	166962002	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08	22096115	166962002	82288619	4	6865											
TOR3A	64222	broad.mit.edu;hgsc.bcm.edu	37	chr1	179057211	179057211	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgagtctccatggactatcTttctgtttctcaggtgggtt	5	17	10	9	0	4	1	1	1	4	0	6	2	4	2	1	3	0	2	1	3	1	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	179057211	T	G	179057211	3	3	120	1	0	0	0	0	1	0	0	0	16375	1609	56	5	819	5	TOR3A	1	179057211	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08	12095209	179057211	70193410	5	6866											
WDR64	128025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	241875161	241875161	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actttttgctactgtgttaaGgcaaatgtgattgtcactgg	9	16	10	6	0	1	1	1	1	0	0	1	1	1	1	0	2	2	3	0	2	3	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	241875161	G	A	241875161	2	1	120	1	0	0	0	0	0	0	0	1	17314	991	35	2		2	WDR64	1	241875161	Silent	SNP	G	TCGA-B0-5097-01A-01D-1421-08	62817950	241875161	7375460	6	6867											
ALMS1	7840	broad.mit.edu;hgsc.bcm.edu	37	chr2	73677725	73677725	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatccaactgaagaggcTctgaaaatttcagttgcctc	12	11	8	10	0	3	3	2	2	1	1	5	3	4	3	2	1	2	2	2	1	4	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	73677725	T	A	73677725	2	1	120	1	0	0	0	0	0	0	0	1	535	1538	54	5		5	ALMS1	2	73677725	Silent	SNP	T	TCGA-B0-5097-01A-01D-1421-08		73677725	169521648	7	6868											
ASTL	431705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	96789864	96789864	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcccacccatgtgggctctCcccaggccctgcaggaacgg	6	6	11	18	1	1	0	0	0	1	0	3	1	2	1	5	4	2	2	5	4	1	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	96789864	C	A	96789864	4	1	120	1	0	0	0	0	0	1	0	0	1063	864	30	4	277	4	ASTL	2	96789864	Nonsense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	23112139	96789864	146409509	8	6869											
NFE2L2	4780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178098803	178098803	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgaattgggagaaattcaCctgtctcttcatctagttgt	9	15	9	8	0	4	2	2	1	2	1	5	3	4	2	1	1	0	2	1	1	3	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	178098803	C	T	178098803	3	4	120	1	0	0	0	0	1	0	0	0	10368	507	18	2	1591	2	NFE2L2	2	178098803	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	81308939	178098803	65100570	9	6870											
NAB1	4664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191550288	191550288	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgccgagaggaggttGtctgcagggctttacaggca	9	8	15	9	1	1	1	0	0	1	1	1	3	1	2	1	4	4	5	1	4	1	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	191550288	G	C	191550288	3	2	120	1	0	0	0	0	1	0	0	0	10131	1368	48	4	1200	4	NAB1	2	191550288	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	13451485	191550288	51649085	10	6871											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196642652	196642652	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtcccagtcatcggtcaCtctgcctccgtaattgcatt	6	12	8	15	3	3	0	2	0	1	0	6	0	5	0	4	2	2	2	4	2	1	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	196642652	C	T	196642652	3	4	120	1	0	0	0	0	1	0	0	0	4606	565	20	2	1166	2	DNAH7	2	196642652	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	5092364	196642652	46556721	11	6872											
DOCK10	55619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225729384	225729384	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgtggattgcttacagaAaatacagcctgtgtacaaag	15	10	10	6	0	0	1	0	0	0	1	0	3	0	2	1	1	5	2	1	1	7	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	225729384	A	C	225729384	3	2	120	1	0	0	0	0	1	0	0	0	4685	11	1	5	5248	5	DOCK10	2	225729384	Missense_Mutation	SNP	A	TCGA-B0-5097-01A-01D-1421-08	29086732	225729384	17469989	12	6873											
VHL	7428	broad.mit.edu	37	chr3	10183752	10183752	+	Missense_Mutation	SNP	T	A	A																															ctcgcgcgagccctcccaggTcatcttctgcaatcgcagtc																								rs5030803	alternate_allele	TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	10183752	A	A	10183752	3	1	120	1	0	0	0	0	1	0	0	0	17161	1667	58	5	223	5	VHL	3	10183752	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08		10183752	187838678	13	6874	86	2									
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183753	10183753	+	Silent	SNP	C	C	T																															tcgcgcgagccctcccaggtCatcttctgcaatcgcagtcc																								novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	10183753	C	T	10183753	2	4	120	1	0	0	0	0	0	0	0	1	17161	813	29	2		2	VHL	3	10183753	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08	1	10183753	187838677	14	6875	86	2									
FBLN2	2199	broad.mit.edu;ucsc.edu	37	chr3	13670697	13670697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacaggtgtgcaccgctGcggtgagggccaagtgtgcc	7	7	17	10	2	0	2	0	2	0	1	0	3	0	2	3	3	3	2	3	3	1	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	13670697	T	T	13670697	3	4	120	1	0	0	0	0	1	0	0	0	5699	1319	46	4	1483	4	FBLN2	3	13670697	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	3486944	13670697	184351733	15	6876											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52441262	52441262	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataggcacatagctgacaaAgtggaacgcctccatggtcc	12	7	11	11	1	0	1	0	1	0	0	2	3	2	2	3	3	2	2	3	3	4	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	52441262	A	C	52441262	3	2	120	1	0	0	0	0	1	0	0	0	1311	72	3	5	1725	5	BAP1	3	52441262	Missense_Mutation	SNP	A	TCGA-B0-5097-01A-01D-1421-08	38770565	52441262	145581168	16	6877											
EPHA3	2042	hgsc.bcm.edu;ucsc.edu	37	chr3	89468448	89468448	+	Frame_Shift_Del	DEL	A	A	-																															cctgaaagttggctacacagAaaagcagaggagagacttcc																								novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		-	89468448	A	-	89468448	7	5	120	1	0	1	0	1	0	0	0	0	5168	246	9	0	2050	0	EPHA3	3	89468448	Frame_Shift_Del	DEL	A	TCGA-B0-5097-01A-01D-1421-08	37027186	89468448	108553982	17	6878											
POLR2H	5437	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184082991	184082991	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggatgatggtgaatacaaCcccactgatgataggccttc	11	10	10	10	0	0	4	0	4	0	0	1	5	0	5	3	3	2	0	3	3	4	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	184082991	C	T	184082991	2	4	120	1	0	0	0	0	0	0	0	1	12221	506	18	2		2	POLR2H	3	184082991	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08	94614543	184082991	13939439	18	6879											
PIGG	54872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	515604	515604	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgcacctcagctgaaagTtcgtgctacttctgtggcct	6	13	11	11	1	2	1	1	1	1	0	3	1	2	1	2	1	4	4	2	1	2	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	515604	T	A	515604	3	1	120	1	0	0	0	0	1	0	0	0	11888	1722	60	5	1518	5	PIGG	4	515604	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08		515604	190638672	19	6880											
DCAF4L1	285429	broad.mit.edu;ucsc.edu	37	chr4	41983927	41983927	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctaggtttcctcaacgtcAccagttactcccgtttagcc	8	12	7	14	2	2	0	2	0	0	0	4	0	4	0	4	1	4	4	4	1	4	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	41983927	C	C	41983927	3	2	120	1	0	0	0	0	1	0	0	0	4271	159	6	5	120	5	DCAF4L1	4	41983927	Missense_Mutation	SNP	A	TCGA-B0-5097-01A-01D-1421-08	41468323	41983927	149170349	20	6881											
CLOCK	9575	broad.mit.edu;ucsc.edu	37	chr4	56314944	56314944	+	Splice_Site	SNP	A	G	G																															tgaaacaaaaaccaaaaagtAcctgggacatgccttgtgga																								novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	56314944	G	G	56314944	5	3	120	1	0	0	0	0	0	0	1	0	3549	405	14	3	1023	3	CLOCK	4	56314944	Splice_Site	SNP	A	TCGA-B0-5097-01A-01D-1421-08	14331017	56314944	134839332	21	6882	87	2									
CLOCK	9575	broad.mit.edu;ucsc.edu	37	chr4	56314945	56314945	+	Splice_Site	SNP	C	A	A																															gaaacaaaaaccaaaaagtaCctgggacatgccttgtggaa																								novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	56314945	A	A	56314945	5	1	120	1	0	0	0	0	0	0	1	0	3549	521	18	4	1024	4	CLOCK	4	56314945	Splice_Site	SNP	C	TCGA-B0-5097-01A-01D-1421-08	1	56314945	134839331	22	6883	87	2									
TMPRSS11D	9407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68719845	68719845	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtagctggtgaatttaactGactattatattcaacattta	13	17	6	5	0	1	2	1	2	0	0	1	2	1	2	0	1	3	2	0	1	8	9	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	68719845	G	A	68719845	4	1	120	1	0	0	0	0	0	1	0	0	16240	1299	45	2	1098	2	TMPRSS11D	4	68719845	Nonsense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	12404900	68719845	122434431	23	6884											
CD180	4064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66479940	66479940	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagagactgagtagtagagTtctgcagaccattgaatata	15	10	11	5	0	1	6	0	2	1	4	1	7	1	6	1	0	1	4	1	0	5	6	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	66479940	T	G	66479940	3	3	120	1	0	0	0	0	1	0	0	0	2972	1725	60	5	1258	5	CD180	5	66479940	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08		66479940	114435320	24	6885											
TNPO1	3842	broad.mit.edu;hgsc.bcm.edu	37	chr5	72185719	72185719	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaataccagcataagaacCtgctcattctttacgatgcc	13	11	6	11	1	2	1	1	0	1	1	2	2	2	1	3	0	6	3	3	0	6	6	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	72185719	C	G	72185719	3	3	120	1	0	0	0	0	1	0	0	0	16334	680	24	4	1690	4	TNPO1	5	72185719	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	5705779	72185719	108729541	25	6886											
ATP6AP1L	92270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	81614047	81614047	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagacacagccgaagagaaGgagctgctgaggagccaggg	13	2	17	9	2	0	3	0	1	0	2	0	8	0	5	2	3	4	2	2	3	2	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	81614047	G	T	81614047	3	4	120	1	0	0	0	0	1	0	0	0	1166	991	35	4	617	4	ATP6AP1L	5	81614047	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	9428328	81614047	99301213	26	6887											
MYOT	9499	broad.mit.edu;hgsc.bcm.edu	37	chr5	137213306	137213306	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacagtggtgcacaagactCgcaggtaagttaaaatgctc	13	9	11	8	1	0	2	0	1	0	1	2	2	0	2	0	2	2	5	0	2	4	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	137213306	C	T	137213306	3	4	120	1	0	0	0	0	1	0	0	0	10094	893	31	1	639	1	MYOT	5	137213306	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	55599259	137213306	43701954	27	6888											
KIF4B	285643	broad.mit.edu;hgsc.bcm.edu	37	chr5	154396598	154396598	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagcatgaagatggtgatgGtgatggcgacagtgatgagg	11	9	18	3	1	0	7	0	6	0	1	0	8	0	7	0	4	1	1	0	4	1	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	154396598	G	T	154396598	3	4	120	1	0	0	0	0	1	0	0	0	8304	1261	44	4	3181	4	KIF4B	5	154396598	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	17183292	154396598	26518662	28	6889											
UIMC1	51720	broad.mit.edu;hgsc.bcm.edu	37	chr5	176402397	176402397	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaaaatgaaaacatacGtgcgatttttcttttggcca	14	13	6	8	2	2	1	1	1	1	0	2	2	2	1	1	1	4	0	1	1	6	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	176402397	G	A	176402397	4	1	120	1	0	0	0	0	0	1	0	0	16970	1159	40	1	1979	1	UIMC1	5	176402397	Nonsense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	22005799	176402397	4512863	29	6890											
EYS	346007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	66205260	66205260	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatttatgaaagagctgTgaaaaaccatcaggctcaga	15	10	8	8	0	2	4	2	2	0	2	3	4	3	4	2	1	2	2	2	1	4	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	66205260	T	A	66205260	3	1	120	1	0	0	0	0	1	0	0	0	5332	1696	59	5	9512	5	EYS	6	66205260	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08		66205260	104909807	30	6891											
SNAP91	9892	broad.mit.edu;ucsc.edu	37	chr6	84292066	84292066	+	Frame_Shift_Del	DEL	C	-	-																															gggaaggcgccatgaaagaaCccccaaatcctgaaaaaaag																								novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		-	84292066	-	-	84292066	7	5	120	1	0	1	0	1	0	0	0	0	14835	507	18	0	727	0	SNAP91	6	84292066	Frame_Shift_Del	DEL	C	TCGA-B0-5097-01A-01D-1421-08	18086806	84292066	86823001	31	6892											
TCF21	6943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	134210722	134210722	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggcaagaggaggaaggcgCccaccaagaagagccccctg	12	2	15	12	1	0	3	0	0	0	3	0	5	0	5	4	4	1	1	4	4	4	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	134210722	C	A	134210722	3	1	120	1	0	0	0	0	1	0	0	0	15690	739	26	4	189	4	TCF21	6	134210722	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	49918656	134210722	36904345	32	6893											
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21913067	21913067	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cattaagatcactaatgaacCcccaacagggatgctggcca	14	7	8	12	0	1	2	1	1	0	1	1	3	1	3	3	2	3	1	3	2	4	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	21913067	C	A	21913067	2	1	120	1	0	0	0	0	0	0	0	1	4599	623	22	4		4	DNAH11	7	21913067	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08		21913067	137225596	33	6894											
STK31	56164	broad.mit.edu	37	chr7	23802525	23802525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagtcatctcttaataaaCgcttaaaaacattgcaggtt	15	13	6	7	1	2	1	1	1	1	0	3	1	2	1	0	1	3	3	0	1	6	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	23802525	T	T	23802525	3	4	120	1	0	0	0	0	1	0	0	0	15297	536	19	1	1441	1	STK31	7	23802525	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	1889458	23802525	135336138	34	6895											
HIP1	3092	broad.mit.edu	37	chr7	75182782	75182782	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttgatcttgctcaggcaGttcctcatggctgtgctgtc	4	14	11	12	0	3	1	2	1	1	0	5	1	4	1	2	2	2	5	2	2	0	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	75182782	T	T	75182782	3	4	120	1	0	0	0	0	1	0	0	0	7114	1020	36	4	888	4	HIP1	7	75182782	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	51380257	75182782	83955881	35	6896											
ZNF655	79027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99170286	99170286	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatctaacagaggattttcaGagtagtgaatgtaaggaaag	17	10	11	3	0	2	3	1	1	1	2	2	5	2	5	0	2	1	2	0	2	6	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	99170286	G	A	99170286	2	1	120	1	0	0	0	0	0	0	0	1	18067	933	33	2		2	ZNF655	7	99170286	Silent	SNP	G	TCGA-B0-5097-01A-01D-1421-08	23987504	99170286	59968377	36	6897											
MLL3	58508	hgsc.bcm.edu;ucsc.edu	37	chr7	152012275	152012275	+	Frame_Shift_Del	DEL	T	T	-																															gttttgcattttctcataggTtccattgctgttgtcatcaa																								novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		-	152012275	T	-	152012275	7	5	120	1	0	1	0	1	0	0	0	0	9622	1725	60	0	14421	0	MLL3	7	152012275	Frame_Shift_Del	DEL	T	TCGA-B0-5097-01A-01D-1421-08	52841989	152012275	7126388	37	6898											
CSPP1	79848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	68084731	68084731	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcagaagacagtcccctaAgggcttagacgctgccactt	10	9	10	12	1	1	3	1	0	0	3	2	3	2	3	3	1	1	2	3	1	3	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	68084731	A	T	68084731	3	4	120	1	0	0	0	0	1	0	0	0	3962	72	3	5	3097	5	CSPP1	8	68084731	Missense_Mutation	SNP	A	TCGA-B0-5097-01A-01D-1421-08		68084731	78279291	38	6899											
CYP11B2	1585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	143994011	143994011	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcactggcgcatgccaaAgccaaagggcacgtggtgga	11	4	16	10	2	0	0	0	0	0	0	0	2	0	1	2	5	2	3	2	5	2	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	143994011	A	T	143994011	3	4	120	1	0	0	0	0	1	0	0	0	4146	72	3	5	186	5	CYP11B2	8	143994011	Missense_Mutation	SNP	A	TCGA-B0-5097-01A-01D-1421-08	75909280	143994011	2370011	39	6900											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113241933	113241933	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatttttcccagggtcgtCtcaaatgcttcagaaaactt	11	13	6	11	1	2	1	2	0	1	1	5	1	3	1	2	1	2	1	2	1	3	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	113241933	C	T	113241933	2	4	120	1	0	0	0	0	0	0	0	1	15419	912	32	2		2	SVEP1	9	113241933	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08		113241933	27971498	40	6901											
ALAD	210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116154422	116154422	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactcctgggaggctggtGataggctgtatgtcatcagg	7	10	15	9	0	2	1	2	1	0	0	3	2	3	2	2	5	0	3	2	5	2	2	rs116243288	byfrequency;alternate_allele	TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	116154422	G	T	116154422	2	4	120	1	0	0	0	0	0	0	0	1	483	1280	45	4		4	ALAD	9	116154422	Silent	SNP	G	TCGA-B0-5097-01A-01D-1421-08	2912489	116154422	25059009	41	6902											
SEC61A2	55176	broad.mit.edu;hgsc.bcm.edu	37	chr10	12209851	12209851	+	RNA	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttagatcatgccgttaaGgaaggacaaaacatcttatt	16	11	7	7	1	2	1	1	0	1	1	2	3	2	3	1	2	3	1	1	2	7	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	12209851	G	A	12209851	1	1	120	0	1	0	0	0	0	0	0	0	14003	1015	35	2		2	SEC61A2	10	12209851	RNA	SNP	G	TCGA-B0-5097-01A-01D-1421-08		12209851	123324896	42	6903											
C11orf84	144097	broad.mit.edu	37	chr11	63586459	63586459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaggaggccttccccgggcgGagagcccctctccaggtgag	7	5	15	14	2	1	2	0	1	1	1	3	4	2	3	6	5	1	0	6	5	1	1	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	63586459	A	A	63586459	3	1	120	1	0	0	0	0	1	0	0	0	1667	1175	41	2	937	2	C11orf84	11	63586459	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08		63586459	71420057	43	6904											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108202714	108202714	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaaccagaggtagccagaAgaagcagaataactaaaaat	21	5	8	7	0	0	4	0	0	0	4	0	4	0	4	2	1	4	2	2	1	10	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	108202714	A	T	108202714	4	4	120	1	0	0	0	0	0	1	0	0	1109	64	3	5	7940	5	ATM	11	108202714	Nonsense_Mutation	SNP	A	TCGA-B0-5097-01A-01D-1421-08	44616255	108202714	26803802	44	6905											
NR1H4	9971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100930297	100930297	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgccagtgtaggagaaaaCtgaactcaccccagatcaac	14	7	8	12	0	2	3	2	1	0	2	2	4	2	3	3	1	4	1	3	1	5	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	100930297	C	G	100930297	3	3	120	1	0	0	0	0	1	0	0	0	10619	565	20	4	746	4	NR1H4	12	100930297	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08		100930297	32921598	45	6906											
MTUS2	23281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	29600300	29600300	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgcctgagcccctggacCctcaaagtggccgctcagaa	9	6	12	14	1	2	2	2	1	0	1	2	3	2	3	5	3	2	1	5	3	2	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	29600300	C	A	29600300	3	1	120	1	0	0	0	0	1	0	0	0	9966	623	22	4	1497	4	MTUS2	13	29600300	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08		29600300	85569578	46	6907											
COG6	57511	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	40268842	40268842	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatttctaatctcctcaaAttttatcaccatacaatcag	16	14	1	10	0	5	0	3	0	2	0	6	0	5	0	2	0	1	0	2	0	7	5	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	40268842	A	G	40268842	2	3	120	1	0	0	0	0	0	0	0	1	3662	98	4	3		3	COG6	13	40268842	Silent	SNP	A	TCGA-B0-5097-01A-01D-1421-08	10668542	40268842	74901036	47	6908											
SPRY2	10253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	80911095	80911095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgaccatcgtgtacaaCagtgagactggctgcaagaa	12	8	12	9	1	0	3	0	2	0	2	1	4	0	3	1	2	3	4	1	2	4	1	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	80911095	C	T	80911095	3	4	120	1	0	0	0	0	1	0	0	0	15107	478	17	2	205	2	SPRY2	13	80911095	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	40642253	80911095	34258783	48	6909											
FLVCR2	55640	broad.mit.edu;hgsc.bcm.edu	37	chr14	76045408	76045408	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcgtctcggtccatccCagcgtctcggtccatcccag	5	8	9	19	4	2	0	0	0	2	0	8	0	6	0	5	2	2	0	5	2	0	0	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	76045408	C	A	76045408	2	1	120	1	0	0	0	0	0	0	0	1	5946	581	21	4		4	FLVCR2	14	76045408	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08		76045408	31304132	49	6910											
RABEP2	79874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28916276	28916276	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgacccctcaggtgtccttGatgtccctgacgtccgtgag	5	11	11	14	2	1	4	1	4	0	0	4	4	4	4	5	1	0	0	5	1	0	1	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	28916276	G	C	28916276	3	2	120	1	0	0	0	0	1	0	0	0	12964	1280	45	4	15	4	RABEP2	16	28916276	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08		28916276	61438477	50	6911											
SALL1	6299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	51173795	51173795	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggatgtgctgctgcaggaCcacagcgttcgtgaacttct	7	11	12	11	3	1	1	0	1	1	0	3	3	1	3	1	2	5	4	1	2	1	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	51173795	C	T	51173795	3	4	120	1	0	0	0	0	1	0	0	0	13812	507	18	2	1644	2	SALL1	16	51173795	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	22257519	51173795	39180958	51	6912											
SMARCE1	6605	broad.mit.edu;hgsc.bcm.edu	37	chr17	38798730	38798730	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacccggctgttggtgcccgGgttccctcccagcctgtagt	3	10	13	15	2	0	0	0	0	0	0	2	1	2	0	5	3	2	4	5	3	1	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	38798730	G	A	38798730	3	1	120	1	0	0	0	0	1	0	0	0	14782	1232	43	2	1134	2	SMARCE1	17	38798730	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08		38798730	42396480	52	6913											
SDK2	54549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	71357832	71357832	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctctcctaccttctccggGgcccgtggtgacgttggctt	2	13	12	14	3	2	1	0	1	2	0	4	1	2	1	4	4	2	3	4	4	1	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	71357832	G	T	71357832	3	4	120	1	0	0	0	0	1	0	0	0	13971	1232	43	4	1088	4	SDK2	17	71357832	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	32559102	71357832	9837378	53	6914											
TYK2	7297	broad.mit.edu;ucsc.edu	37	chr19	10463680	10463680	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccttggctaggccaaagTccccgatcttgaccagcctg	7	8	11	15	2	1	1	0	1	1	0	2	2	2	1	6	3	1	1	6	3	2	3	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	10463680	G	G	10463680	3	3	120	1	0	0	0	0	1	0	0	0	16809	1667	58	5	457	5	TYK2	19	10463680	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08		10463680	48665303	54	6915											
EPS15L1	58513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16535940	16535940	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggacaggctccctgtgctgTtgaggctgctgacgctgccg	4	9	16	12	2	0	2	0	2	0	0	1	3	1	3	2	3	3	6	2	3	0	1	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	16535940	T	C	16535940	3	2	120	1	0	0	0	0	1	0	0	0	5193	1725	60	3	1908	3	EPS15L1	19	16535940	Missense_Mutation	SNP	T	TCGA-B0-5097-01A-01D-1421-08	6072260	16535940	42593043	55	6916											
CHERP	10523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16630029	16630029	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtagctcttgttcctgcGgtagttctcataggggtcat	6	14	13	8	1	3	0	2	0	2	0	5	1	4	1	1	4	2	5	1	4	3	6	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	16630029	G	A	16630029	3	1	120	1	0	0	0	0	1	0	0	0	3336	1116	39	1	62	1	CHERP	19	16630029	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	94089	16630029	42498954	56	6917											
SLC27A1	376497	broad.mit.edu;hgsc.bcm.edu	37	chr19	17611525	17611525	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcccctctgccaggtgaCgtgctagtgatggatgagct	6	11	12	12	1	2	3	0	3	2	0	3	4	2	4	3	2	3	2	3	2	1	1	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		G	17611525	C	G	17611525	3	3	120	1	0	0	0	0	1	0	0	0	14527	535	19	4	1514	4	SLC27A1	19	17611525	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	981496	17611525	41517458	57	6918											
PSG3	5671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43228148	43228148	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctgctataatggattaaGgccaggaagatgtcctgttc	10	11	12	8	1	0	1	0	0	0	1	2	3	1	3	2	4	1	3	2	4	4	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	43228148	G	T	43228148	3	4	120	1	0	0	0	0	1	0	0	0	12658	1000	35	4	17	4	PSG3	19	43228148	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08	25616623	43228148	15900835	58	6919											
GZF1	64412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	23347703	23347703	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagattcactcagaaccaCatgctgatttatcataaaag	16	10	6	9	0	3	3	3	1	0	2	3	3	3	3	1	0	2	2	1	0	5	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		T	23347703	C	T	23347703	2	4	120	1	0	0	0	0	0	0	0	1	6914	477	17	2		2	GZF1	20	23347703	Silent	SNP	C	TCGA-B0-5097-01A-01D-1421-08		23347703	39677817	59	6920											
TBC1D25	4943	broad.mit.edu;hgsc.bcm.edu	37	chrX	48403330	48403330	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttacctctcacttctatctGactgggacctcagcacagcc	8	12	6	15	0	4	1	2	1	3	0	5	2	4	2	3	1	3	1	3	1	2	4	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		C	48403330	G	C	48403330	3	2	120	1	0	0	0	0	1	0	0	0	15614	1290	45	4	317	4	TBC1D25	23	48403330	Missense_Mutation	SNP	G	TCGA-B0-5097-01A-01D-1421-08		48403330	106867230	60	6921											
ALAS2	212	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	55039931	55039931	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacttacccacaaaatcttCcatcatctgagggctgtggt	11	11	8	11	0	3	1	1	1	2	0	4	2	4	1	2	2	2	1	2	2	4	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	55039931	C	A	55039931	4	1	120	1	0	0	0	0	0	1	0	0	485	864	30	4	183	4	ALAS2	23	55039931	Nonsense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	6636601	55039931	100230629	61	6922											
TEX13A	56157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	104463697	104463697	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagtcgaagcaagtatcCctccgtgaaaaattcacagc	14	7	7	13	2	1	1	1	1	0	0	4	2	3	1	3	0	2	2	3	0	5	2	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	104463697	C	A	104463697	3	1	120	1	0	0	0	0	1	0	0	0	15775	623	22	4	54	4	TEX13A	23	104463697	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	49423766	104463697	50806863	62	6923											
AFF2	2334	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	148035250	148035250	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgaatctaatgaggcacCtcgtgtggcaactccagagg	11	7	12	11	2	1	2	0	1	1	1	3	3	2	2	2	3	2	2	2	3	3	1	novel		TCGA-B0-5097-01A-01D-1421-08	TCGA-B0-5097-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3af2978e-b892-4817-be05-39f020c06b5e	18771d6c-583c-4b5c-9a3f-1b5ff0c70a17		A	148035250	C	A	148035250	3	1	120	1	0	0	0	0	1	0	0	0	357	681	24	4	1631	4	AFF2	23	148035250	Missense_Mutation	SNP	C	TCGA-B0-5097-01A-01D-1421-08	43571553	148035250	7235310	63	6924											
RAD54L	8438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46726269	46726269	+	Frame_Shift_Del	DEL	C	C	-																															ttctcagtaaggttttgcggCctcatcagagagaggtaaat																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	46726269	C	-	46726269	7	5	121	1	0	1	0	1	0	0	0	0	12995	739	26	0	485	0	RAD54L	1	46726269	Frame_Shift_Del	DEL	C	TCGA-B0-5099-01A-01D-1421-08		46726269	202524352	1	6925											
CRYZ	1429	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	75172631	75172631	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attatactcgactcctttgcCatggtgtctcgtgggtttat	6	17	9	9	2	1	0	0	0	1	0	4	1	2	0	2	2	2	1	2	2	3	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	75172631	C	T	75172631	3	4	121	1	0	0	0	0	1	0	0	0	3922	594	21	2	217	2	CRYZ	1	75172631	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	28446362	75172631	174077990	2	6926											
SASS6	163786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100575995	100575995	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgatggaggatttctaaAtcttttttctgttgttcatg	7	21	9	4	0	4	1	1	1	3	0	4	3	4	3	0	2	0	3	0	2	2	8	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	100575995	A	G	100575995	2	3	121	1	0	0	0	0	0	0	0	1	13852	98	4	3		3	SASS6	1	100575995	Silent	SNP	A	TCGA-B0-5099-01A-01D-1421-08	25403364	100575995	148674626	3	6927											
CADM3	57863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159161760	159161760	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatctgatgaaacagtggtGgctggtggcaccgtggtgct	8	10	15	8	1	1	2	0	2	1	0	1	2	1	2	1	5	2	3	1	5	1	0	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	159161760	G	A	159161760	2	1	121	1	0	0	0	0	0	0	0	1	2568	1335	47	2		2	CADM3	1	159161760	Silent	SNP	G	TCGA-B0-5099-01A-01D-1421-08	58585765	159161760	90088861	4	6928											
VANGL2	57216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160385972	160385972	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccacacgaggggatgagcgGgtgagcactggggatgcggt	8	6	19	8	3	0	2	0	2	0	0	1	5	1	4	1	6	3	1	1	6	0	0	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	160385972	G	C	160385972	2	2	121	1	0	0	0	0	0	0	0	1	17119	1246	43	4		4	VANGL2	1	160385972	Silent	SNP	G	TCGA-B0-5099-01A-01D-1421-08	1224212	160385972	88864649	5	6929											
CENPF	1063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214825173	214825173	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatagctgaatatcagctaCggcttcatgaagctgaaaag	16	9	9	7	1	2	3	2	3	0	0	2	3	2	3	0	1	4	4	0	1	8	4	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	214825173	C	T	214825173	3	4	121	1	0	0	0	0	1	0	0	0	3231	527	19	1	8158	1	CENPF	1	214825173	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	54439201	214825173	34425448	6	6930											
LGALS8	3964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	236711354	236711354	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaattcaaggttgcagtaAatggcgtacacagcctggag	13	8	13	7	1	1	1	1	0	0	1	1	3	1	2	1	3	3	4	1	3	5	4	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	236711354	A	C	236711354	3	2	121	1	0	0	0	0	1	0	0	0	8747	14	1	5	1011	5	LGALS8	1	236711354	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08	21886181	236711354	12539267	7	6931											
CCDC88A	55704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	55570817	55570817	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	actagttctggatatctgttCcagttcccagccaagatgta	10	13	8	10	0	2	1	0	0	2	1	4	2	4	2	3	1	1	4	3	1	4	6	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	55570817	C	G	55570817	3	3	121	1	0	0	0	0	1	0	0	0	2863	864	30	4	4399	4	CCDC88A	2	55570817	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08		55570817	187628556	8	6932											
SCN9A	6335	hgsc.bcm.edu;ucsc.edu	37	chr2	167060645	167060645	+	Frame_Shift_Del	DEL	T	T	-																															accctccttttctaccatcaTggttaccatgttgagacaga																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	167060645	T	-	167060645	7	5	121	1	0	1	0	1	0	0	0	0	13927	1464	51	0	1380	0	SCN9A	2	167060645	Frame_Shift_Del	DEL	T	TCGA-B0-5099-01A-01D-1421-08	111489828	167060645	76138728	9	6933											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191482	10191482	+	Frame_Shift_Del	DEL	A	A	-																															cccttccagtgtatactctgAaagagcgatgcctccaggtt																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	10191482	A	-	10191482	7	5	121	1	0	1	0	1	0	0	0	0	17161	247	9	0	485	0	VHL	3	10191482	Frame_Shift_Del	DEL	A	TCGA-B0-5099-01A-01D-1421-08		10191482	187830948	10	6934											
SFMBT1	51460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52960072	52960072	+	Missense_Mutation	SNP	G	G	C																															ggaagcacctctggggagcaGcttcagcaccacactgtttg																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	52960072	G	C	52960072	3	2	121	1	0	0	0	0	1	0	0	0	14159	971	34	4	1542	4	SFMBT1	3	52960072	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	42768590	52960072	145062358	11	6935	88	2									
SFMBT1	51460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52960073	52960073	+	Missense_Mutation	SNP	C	C	T																															gaagcacctctggggagcagCttcagcaccacactgtttga																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	52960073	C	T	52960073	3	4	121	1	0	0	0	0	1	0	0	0	14159	797	28	2	1543	2	SFMBT1	3	52960073	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	1	52960073	145062357	12	6936	88	2									
YTHDC1	91746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	69204039	69204039	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgttcactctctggattaTacagttcatcatcttgttct	7	19	5	10	0	6	0	3	0	3	0	7	1	6	1	0	1	1	3	0	1	2	7	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	69204039	T	C	69204039	3	2	121	1	0	0	0	0	1	0	0	0	17495	1406	49	3	2155	3	YTHDC1	4	69204039	Missense_Mutation	SNP	T	TCGA-B0-5099-01A-01D-1421-08		69204039	121950237	13	6937											
PPA2	27068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106395063	106395063	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacttactaaagaagaggcGgtaattctgcgagcagggct	12	9	12	8	2	1	2	0	0	1	2	1	3	1	2	0	3	4	3	0	3	6	5	rs142379853		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	106395063	G	A	106395063	3	1	121	1	0	0	0	0	1	0	0	0	12287	1116	39	1	907	1	PPA2	4	106395063	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	37191024	106395063	84759213	14	6938											
NPNT	255743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106848531	106848531	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaacatggtgaatgtatcGggccaaacaagtgcaagtgt	14	8	12	7	1	0	1	0	1	0	0	1	1	0	1	1	2	3	3	1	2	6	1	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	106848531	G	A	106848531	3	1	121	1	0	0	0	0	1	0	0	0	10590	1116	39	1	276	1	NPNT	4	106848531	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	453468	106848531	84305745	15	6939											
IL21	59067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	123542048	123542048	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaatatctataagttgaCgcattctaatcatgtggcga	14	12	7	8	2	3	1	1	1	2	0	3	2	3	1	0	1	1	2	0	1	6	6	rs141748932	bycluster;by1000genomes	TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	123542048	C	T	123542048	3	4	121	1	0	0	0	0	1	0	0	0	7670	536	19	1	389	1	IL21	4	123542048	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	16693517	123542048	67612228	16	6940											
RAI14	26064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	34757614	34757614	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaccggctactgcaggcCgtggagaatggagatgcgga	10	6	17	8	3	0	3	0	1	0	2	0	7	0	4	2	5	3	2	2	5	2	1	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	34757614	C	G	34757614	2	3	121	1	0	0	0	0	0	0	0	1	13010	639	23	4		4	RAI14	5	34757614	Silent	SNP	C	TCGA-B0-5099-01A-01D-1421-08		34757614	146157646	17	6941											
CCDC112	153733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	114620509	114620509	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaaatttttctgctgtgcGtacaaattctgctttcttag	8	20	6	7	1	3	0	0	0	3	0	3	0	3	0	0	0	4	3	0	0	5	8	rs187304678	by1000genomes	TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	114620509	G	A	114620509	3	1	121	1	0	0	0	0	1	0	0	0	2749	1145	40	1	1411	1	CCDC112	5	114620509	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	79862895	114620509	66294751	18	6942											
RAPGEF6	51735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	130764648	130764648	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtttaggatggaatggcTgcaaattatgcctctgaggc	10	12	12	7	0	1	1	0	1	1	0	1	3	1	3	1	4	2	3	1	4	5	4	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	130764648	T	G	130764648	3	3	121	1	0	0	0	0	1	0	0	0	13050	1580	55	5	86	5	RAPGEF6	5	130764648	Missense_Mutation	SNP	T	TCGA-B0-5099-01A-01D-1421-08	16144139	130764648	50150612	19	6943											
P4HA2	8974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131543565	131543565	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacagaaaagcctcttctGtctacggggtgtctggaaag	10	10	11	10	1	4	1	0	0	4	1	4	2	4	2	2	3	3	0	2	3	5	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	131543565	G	A	131543565	4	1	121	1	0	0	0	0	0	1	0	0	11357	1386	48	2	787	2	P4HA2	5	131543565	Nonsense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	778917	131543565	49371695	20	6944											
PCBD2	84105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134294744	134294744	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggcatttggctttatGtcccgagttgccctacaagc	8	12	10	11	1	0	0	0	0	0	0	1	1	1	0	2	2	4	4	2	2	3	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	134294744	G	T	134294744	3	4	121	1	0	0	0	0	1	0	0	0	11499	1377	48	4	241	4	PCBD2	5	134294744	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	2751179	134294744	46620516	21	6945											
PLAC8L1	153770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145477733	145477733	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttacaaattctcctatctCtgcagacactgaagagaccg	13	10	6	12	1	2	3	0	1	2	2	4	4	2	3	2	0	2	1	2	0	4	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	145477733	C	T	145477733	3	4	121	1	0	0	0	0	1	0	0	0	12016	913	32	2	303	2	PLAC8L1	5	145477733	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	11182989	145477733	35437527	22	6946											
BTNL3	10917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180420008	180420008	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagcagatgccacagtatcGagggagaactgagtttgtga	13	9	13	6	1	0	4	0	2	0	2	1	6	0	4	1	1	3	3	1	1	3	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	180420008	G	A	180420008	3	1	121	1	0	0	0	0	1	0	0	0	1566	1058	37	1	251	1	BTNL3	5	180420008	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	34942275	180420008	495252	23	6947											
FANCE	2178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35426171	35426171	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctttcacctgatctcaGcctcagcaatgctactgtgc	7	11	8	15	0	3	1	3	1	1	0	4	1	3	1	3	1	5	2	3	1	2	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	35426171	G	A	35426171	3	1	121	1	0	0	0	0	1	0	0	0	5666	971	34	2	1085	2	FANCE	6	35426171	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08		35426171	135688896	24	6948											
MRPS18A	55168	broad.mit.edu	37	chr6	43655468	43655468	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgggcccgctagtagccCacggagaagccgcccacagc	8	3	13	17	4	0	1	0	0	0	1	0	2	0	1	5	2	4	2	5	2	3	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	43655468	A	A	43655468	3	1	121	1	0	0	0	0	1	0	0	0	9828	594	21	4	565	4	MRPS18A	6	43655468	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	8229297	43655468	127459599	25	6949											
HSP90AB1	3326	hgsc.bcm.edu;ucsc.edu	37	chr6	44219603	44219604	+	Frame_Shift_Ins	INS	-	-	C																															catgaaggagacacagaagtINSccatctattacatcactggt																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	44219604	-	C	44219603	7	5	121	1	0	1	1	0	0	0	0	0	7402	1667	58	0	1474	0	HSP90AB1	6	44219603	Frame_Shift_Ins	INS	-	TCGA-B0-5099-01A-01D-1421-08	564135	44219603	126895464	26	6950											
IGF2R	3482	broad.mit.edu;ucsc.edu	37	chr6	160526024	160526024	+	Frame_Shift_Del	DEL	G	-	-																															ggggtgagaaggcgaggaaaGggaagtccagctctgcacag																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	160526024	-	-	160526024	7	5	121	1	0	1	0	1	0	0	0	0	7576	1000	35	0	7574	0	IGF2R	6	160526024	Frame_Shift_Del	DEL	G	TCGA-B0-5099-01A-01D-1421-08	116306421	160526024	10589043	27	6951											
TSGA14	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	130042593	130042593	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtatggggctctgctttcTtcactggccctttgtctaga	4	16	11	10	0	4	1	1	0	3	1	4	1	4	1	1	4	1	3	1	4	2	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	130042593	T	C	130042593	3	2	121	1	0	0	0	0	1	0	0	0	16619	1609	56	3	671	3	TSGA14	7	130042593	Missense_Mutation	SNP	T	TCGA-B0-5099-01A-01D-1421-08		130042593	29096070	28	6952											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151877175	151877175	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgcaatcttcttctgctGttgctgctggagaatgattt	7	16	9	9	0	3	2	0	1	3	1	3	3	3	2	1	1	4	5	1	1	2	4	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	151877175	G	A	151877175	4	1	121	1	0	0	0	0	0	1	0	0	9622	1386	48	2	7641	2	MLL3	7	151877175	Nonsense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	21834582	151877175	7261488	29	6953											
INTS10	55174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	19687916	19687916	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctccacattctttaagcaGagttcagacgatgaagactg	12	12	8	9	1	3	4	1	1	2	3	4	5	3	4	1	0	1	2	1	0	2	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	19687916	G	C	19687916	5	2	121	1	0	0	0	0	0	0	1	0	7776	956	33	4	1178	4	INTS10	8	19687916	Splice_Site	SNP	G	TCGA-B0-5099-01A-01D-1421-08		19687916	126676106	30	6954											
PURG	29942	hgsc.bcm.edu;ucsc.edu	37	chr8	30889951	30889958	+	Frame_Shift_Del	DEL	CTTCAGCT	CTTCAGCT	-																															atgaagtcccctagacagtcCttcagctccgctgccacaga																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	CTTCAGCT	CTTCAGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	30889958	CTTCAGCT	-	30889951	7	5	121	1	0	1	0	1	0	0	0	0	12831	680	24	0	808	0	PURG	8	30889951	Frame_Shift_Del	DEL	CTTCAGCT	TCGA-B0-5099-01A-01D-1421-08	11202035	30889951	115474071	31	6955											
MYST3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	41836218	41836218	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattggattagtatagcgccGttttatctgtgctgccttct	6	18	9	8	2	2	0	0	0	2	0	2	1	2	1	2	1	3	3	2	1	5	8	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	41836218	G	A	41836218	3	1	121	1	0	0	0	0	1	0	0	0	10104	1144	40	1	5077	1	MYST3	8	41836218	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	10946267	41836218	104527804	32	6956											
ACO1	48	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32408576	32408576	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaaaagttaggaggagatCcagagaaaataaaccctgtc	18	7	10	6	0	0	3	0	1	0	2	2	6	1	4	2	2	1	1	2	2	7	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	32408576	C	A	32408576	3	1	121	1	0	0	0	0	1	0	0	0	146	855	30	4	341	4	ACO1	9	32408576	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08		32408576	108804855	33	6957											
TAF1L	138474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32630843	32630843	+	Missense_Mutation	SNP	G	G	T																															ctcccgactctgatacttgtGcttggagatgttcttacgta																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	32630843	G	T	32630843	3	4	121	1	0	0	0	0	1	0	0	0	15522	1319	46	4	749	4	TAF1L	9	32630843	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	222267	32630843	108582588	34	6958	89	2									
TAF1L	138474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32630844	32630844	+	Missense_Mutation	SNP	C	C	G																															tcccgactctgatacttgtgCttggagatgttcttacgtat																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	32630844	C	G	32630844	3	3	121	1	0	0	0	0	1	0	0	0	15522	796	28	4	750	4	TAF1L	9	32630844	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	1	32630844	108582587	35	6959	89	2									
GCNT1	2650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79117316	79117316	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgctgaggacgttgctgCgaaggagacttttttcttat	10	14	11	6	2	1	2	0	1	1	1	1	5	1	3	0	2	3	3	0	2	3	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	79117316	C	T	79117316	4	4	121	1	0	0	0	0	0	1	0	0	6300	760	27	1	21	1	GCNT1	9	79117316	Nonsense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	46486472	79117316	62096115	36	6960											
ECM2	1842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95272275	95272275	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgaaggaatctgtatcaaAttatttccatccatattcaa	14	15	5	7	0	3	1	2	1	1	0	5	2	5	2	2	1	0	1	2	1	7	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	95272275	A	C	95272275	3	2	121	1	0	0	0	0	1	0	0	0	4898	98	4	5	907	5	ECM2	9	95272275	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08	16154959	95272275	45941156	37	6961											
RNF20	56254	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104316360	104316360	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagacaaagttcagctgatGgcagctgagaagaagtctaa	16	7	12	6	0	2	4	1	2	1	3	2	6	2	4	0	1	2	4	0	1	4	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	104316360	G	T	104316360	3	4	121	1	0	0	0	0	1	0	0	0	13475	1348	47	4	2042	4	RNF20	9	104316360	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	9044085	104316360	36897071	38	6962											
ERCC6	2074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50690813	50690813	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacacaggcaacgtgcctaActttcccgggaagatgaagt	14	7	10	10	2	0	2	0	1	0	1	1	3	1	3	2	2	4	1	2	2	5	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	50690813	A	G	50690813	2	3	121	1	0	0	0	0	0	0	0	1	5217	40	2	3		3	ERCC6	10	50690813	Silent	SNP	A	TCGA-B0-5099-01A-01D-1421-08		50690813	84843934	39	6963											
SLC15A3	51296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60709539	60709539	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgggctctcagggccaCagagatgttggccgggttgg	5	8	17	11	1	1	1	1	0	1	1	2	2	1	1	3	5	0	3	3	5	0	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	60709539	C	T	60709539	3	4	121	1	0	0	0	0	1	0	0	0	14402	478	17	2	690	2	SLC15A3	11	60709539	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08		60709539	74296977	40	6964											
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu	37	chr11	122930262	122930262	+	Nonsense_Mutation	SNP	G	G	A																															gaagtcttggagaagcttctGaatcttggggatacgagtag																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	122930262	G	A	122930262	4	1	121	1	0	0	0	0	0	1	0	0	7416	1299	45	2	921	2	HSPA8	11	122930262	Nonsense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	62220723	122930262	12076254	41	6965	90	2									
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu	37	chr11	122930264	122930264	+	Missense_Mutation	SNP	A	A	T																															agtcttggagaagcttctgaAtcttggggatacgagtagaa																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	122930264	A	T	122930264	3	4	121	1	0	0	0	0	1	0	0	0	7416	101	4	5	923	5	HSPA8	11	122930264	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08	2	122930264	12076252	42	6966	90	2									
TMEM45B	120224	broad.mit.edu;hgsc.bcm.edu	37	chr11	129728494	129728494	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgactcggatgaagagacacGgaaggggagaaatcattgga	15	6	15	5	2	1	4	1	2	0	2	2	9	1	7	0	5	0	0	0	5	3	1	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	129728494	G	A	129728494	3	1	121	1	0	0	0	0	1	0	0	0	16169	1117	39	1	760	1	TMEM45B	11	129728494	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	6798230	129728494	5278022	43	6967											
A2M	2	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9248168	9248168	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacatatccttttcatttgtActtgatactggagtatatgt	10	19	6	6	0	1	1	1	1	0	0	2	2	2	2	1	1	3	2	1	1	6	10	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	9248168	A	T	9248168	3	4	121	1	0	0	0	0	1	0	0	0	4	388	14	5	2528	5	A2M	12	9248168	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08		9248168	124603727	44	6968											
NAV3	89795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	78400974	78400974	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaagcaaagagtctgaGaaattcaggactaccaaggg	17	5	11	8	0	2	2	1	1	1	2	2	4	2	3	1	2	3	2	1	2	5	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	78400974	G	T	78400974	3	4	121	1	0	0	0	0	1	0	0	0	10185	933	33	4	1686	4	NAV3	12	78400974	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	69152806	78400974	55450921	45	6969											
DHX37	57647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	125462030	125462030	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaattgggagcttcagccGttcctcctggaaggagagga	10	8	15	8	1	1	2	1	0	0	2	3	7	3	5	3	4	2	2	3	4	2	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	125462030	G	A	125462030	3	1	121	1	0	0	0	0	1	0	0	0	4510	1144	40	1	2820	1	DHX37	12	125462030	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	47061056	125462030	8389865	46	6970											
GPR180	160897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95271760	95271762	+	In_Frame_Del	DEL	GTT	GTT	-																															aggggtaccatttatgggaaGtttggcagaatgtgagtatc																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	95271762	GTT	-	95271760	7	5	121	1	0	1	0	1	0	0	0	0	6676	1029	36	0	743	0	GPR180	13	95271760	In_Frame_Del	DEL	GTT	TCGA-B0-5099-01A-01D-1421-08		95271760	19898118	47	6971											
IRF9	10379	broad.mit.edu;hgsc.bcm.edu	37	chr14	24635394	24635394	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcaggcagccattctgTccctggtgtagagcctgggg	7	8	15	11	0	1	1	0	0	1	1	2	1	2	1	3	4	4	4	3	4	1	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	24635394	T	C	24635394	3	2	121	1	0	0	0	0	1	0	0	0	7837	1667	58	3	1201	3	IRF9	14	24635394	Missense_Mutation	SNP	T	TCGA-B0-5099-01A-01D-1421-08		24635394	82714146	48	6972											
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu	37	chr14	105414746	105414746	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggctcacgtcggcctccaCcttcaacgcagacacatccg	9	6	9	17	4	2	1	2	0	0	1	5	2	4	1	4	2	1	2	4	2	1	1	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	105414746	C	T	105414746	3	4	121	1	0	0	0	0	1	0	0	0	415	507	18	2	10349	2	AHNAK2	14	105414746	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	80779352	105414746	1934794	49	6973											
THBS1	7057	broad.mit.edu;hgsc.bcm.edu	37	chr15	39882824	39882824	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gataaaattccagatgacagGgtaaaaacagttttctatcc	16	11	7	7	0	1	2	0	1	1	1	3	3	3	2	2	1	1	2	2	1	6	6	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	39882824	G	T	39882824	3	4	121	1	0	0	0	0	1	0	0	0	15852	1246	43	4	2303	4	THBS1	15	39882824	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08		39882824	62648568	50	6974											
SERF2	10169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	44085976	44085976	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaacccaagtagctttGtggcttcgtgtccaaccctc	8	10	11	12	1	0	0	0	0	0	0	3	2	1	2	3	3	3	3	3	3	4	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	44085976	G	C	44085976	3	2	121	1	0	0	0	0	1	0	0	0	14078	1392	48	4		4	SERF2	15	44085976	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	4203152	44085976	58445416	51	6975											
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49284863	49284863	+	Missense_Mutation	SNP	C	C	T																															gcaactgccatccaaagagcCagtctctgtactctgctgtg																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	49284863	C	T	49284863	3	4	121	1	0	0	0	0	1	0	0	0	14009	594	21	2	425	2	SECISBP2L	15	49284863	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	5198887	49284863	53246529	52	6976	91	2									
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49284864	49284864	+	Silent	SNP	A	A	C																															caactgccatccaaagagccAgtctctgtactctgctgtga																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	49284864	A	C	49284864	2	2	121	1	0	0	0	0	0	0	0	1	14009	175	7	5		5	SECISBP2L	15	49284864	Silent	SNP	A	TCGA-B0-5099-01A-01D-1421-08	1	49284864	53246528	53	6977	91	2									
NEO1	4756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	73575304	73575304	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaccatttctctctctgcaGgcagtaacagccctcatggg	8	11	9	13	0	3	0	1	0	2	0	5	0	3	0	2	2	4	4	2	2	2	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	73575304	G	A	73575304	5	1	121	1	0	0	0	0	0	0	1	0	10336	1014	35	2	3352	2	NEO1	15	73575304	Splice_Site	SNP	G	TCGA-B0-5099-01A-01D-1421-08	24290440	73575304	28956088	54	6978											
CNOT1	23019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58572759	58572763	+	Frame_Shift_Del	DEL	GTAGC	GTAGC	-																															accaagaggtggcattccctGtagcgcagcagaaggtcagc																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	GTAGC	GTAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	58572763	GTAGC	-	58572759	7	5	121	1	0	1	0	1	0	0	0	0	3617	1372	48	0	2134	0	CNOT1	16	58572759	Frame_Shift_Del	DEL	GTAGC	TCGA-B0-5099-01A-01D-1421-08		58572759	31781994	55	6979											
TOM1L2	146691	broad.mit.edu;ucsc.edu	37	chr17	17769632	17769632	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctgcaagctgggaggaGagggaagatgggggcgctgt	10	5	20	6	1	0	2	0	0	0	2	0	5	0	4	1	5	3	3	1	5	3	0	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	17769632	T	T	17769632	2	4	121	1	0	0	0	0	0	0	0	1	16352	929	33	4		4	TOM1L2	17	17769632	Silent	SNP	G	TCGA-B0-5099-01A-01D-1421-08		17769632	63425578	56	6980											
DHRS13	147015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27228249	27228249	+	Frame_Shift_Del	DEL	A	A	-																															agcagcagatgtgtcagcagAaagggaccgatatggttcac																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	27228249	A	-	27228249	7	5	121	1	0	1	0	1	0	0	0	0	4489	243	9	0	700	0	DHRS13	17	27228249	Frame_Shift_Del	DEL	A	TCGA-B0-5099-01A-01D-1421-08	9458617	27228249	53966961	57	6981											
GOSR1	9527	broad.mit.edu;hgsc.bcm.edu	37	chr17	28846964	28846964	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccccttgcagcattgctAtggcaacaaaagaaaatatg	14	11	7	9	0	0	1	0	0	0	1	1	1	1	1	2	1	4	4	2	1	7	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	28846964	A	G	28846964	3	3	121	1	0	0	0	0	1	0	0	0	6577	449	16	3	583	3	GOSR1	17	28846964	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08	1618715	28846964	52348246	58	6982											
AP2B1	163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33932800	33932800	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgtgtatctctacttgAtgaactacgccaagagtcag	11	12	9	9	1	2	3	1	2	1	1	3	3	2	3	1	0	4	2	1	0	5	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	33932800	A	T	33932800	3	4	121	1	0	0	0	0	1	0	0	0	741	333	12	5	230	5	AP2B1	17	33932800	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08	5085836	33932800	47262410	59	6983											
TNRC6C	57690	hgsc.bcm.edu	37	chr17	76083029	76083029	+	Frame_Shift_Del	DEL	G	G	-																															aagcagccaccaccgccaccGcccccgccgcacctgtctct																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		-	76083029	G	-	76083029	7	5	121	1	0	1	0	1	0	0	0	0	16341	1074	38	0	3699	0	TNRC6C	17	76083029	Frame_Shift_Del	DEL	G	TCGA-B0-5099-01A-01D-1421-08	42150229	76083029	5112181	60	6984											
ROCK1	6093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	18586538	18586538	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtccgattctgtcctaagTaagtcattggcttcttctag	7	16	9	9	1	4	0	1	0	3	0	6	1	6	0	2	1	0	2	2	1	3	7	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	18586538	T	A	18586538	3	1	121	1	0	0	0	0	1	0	0	0	13519	1635	57	5	2477	5	ROCK1	18	18586538	Missense_Mutation	SNP	T	TCGA-B0-5099-01A-01D-1421-08		18586538	59490710	61	6985											
UBXN6	80700	broad.mit.edu;hgsc.bcm.edu	37	chr19	4446542	4446542	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgctgtgaggttgaagAagtccccaggcagttcgaac	9	9	12	11	1	1	3	0	2	1	1	3	4	2	3	3	2	2	4	3	2	3	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	4446542	A	C	4446542	3	2	121	1	0	0	0	0	1	0	0	0	16916	246	9	5	466	5	UBXN6	19	4446542	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08		4446542	54682441	62	6986											
ARRDC5	645432	broad.mit.edu;hgsc.bcm.edu	37	chr19	4891119	4891119	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgacagctggcagatggcaGagtccactgaggcgctggtg	8	7	16	10	1	0	4	0	2	0	2	1	4	1	4	1	4	1	4	1	4	0	0	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	4891119	G	A	4891119	3	1	121	1	0	0	0	0	1	0	0	0	986	942	33	2	64	2	ARRDC5	19	4891119	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08	444577	4891119	54237864	63	6987											
HPN	3249	broad.mit.edu;ucsc.edu	37	chr19	35540222	35540222	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgccatgctgctccagAcccaaggtggcagctctcac	8	8	10	15	0	1	1	1	0	1	1	3	1	2	1	3	2	4	4	3	2	1	0	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	35540222	G	G	35540222	2	3	121	1	0	0	0	0	0	0	0	1	7336	272	10	3		3	HPN	19	35540222	Silent	SNP	A	TCGA-B0-5099-01A-01D-1421-08	30649103	35540222	23588761	64	6988											
GNAS	2778	broad.mit.edu	37	chr20	57428891	57428891	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctccaggaggcccaggtGctgcaggggtccccggagct	5	7	16	13	1	0	0	0	0	0	0	2	2	2	2	4	6	4	4	4	6	0	1	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	57428891	C	C	57428891	3	2	121	1	0	0	0	0	1	0	0	0	6510	1319	46	4	1315	4	GNAS	20	57428891	Missense_Mutation	SNP	G	TCGA-B0-5099-01A-01D-1421-08		57428891	5596629	65	6989											
CDH4	1002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60499473	60499473	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accacggcggcagtgctggaCcgtgagtccctctacaccaa	9	6	11	15	3	1	1	0	1	1	0	2	2	2	2	4	3	2	2	4	3	2	1	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	60499473	C	A	60499473	3	1	121	1	0	0	0	0	1	0	0	0	3112	506	18	4	1752	4	CDH4	20	60499473	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	3070582	60499473	2526047	66	6990											
NFAM1	150372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42807545	42807546	+	Frame_Shift_Ins	INS	-	-	C																															tccagggtgtggctctggttINSctctgtgcccagtccagggt																								novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		C	42807546	-	C	42807545	7	5	121	1	0	1	1	0	0	0	0	0	10358	1783	62	0	513	0	NFAM1	22	42807545	Frame_Shift_Ins	INS	-	TCGA-B0-5099-01A-01D-1421-08		42807545	8497021	67	6991											
SCUBE1	80274	broad.mit.edu;hgsc.bcm.edu	37	chr22	43625097	43625097	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccgcagtgggttgtcccGtagaggatgtagccgcggtg	5	9	16	11	4	0	1	0	0	0	1	2	2	2	2	4	3	1	4	4	3	2	3	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		A	43625097	G	A	43625097	2	1	121	1	0	0	0	0	0	0	0	1	13946	1140	40	1		1	SCUBE1	22	43625097	Silent	SNP	G	TCGA-B0-5099-01A-01D-1421-08	817552	43625097	7679469	68	6992											
CLCN4	1183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	10176319	10176319	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcgcctggtgcaggaggCgcaagaccaccaggctgggg	9	4	16	12	2	0	1	0	0	0	1	1	2	0	2	3	6	1	3	3	6	1	0	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	10176319	C	T	10176319	3	4	121	1	0	0	0	0	1	0	0	0	3465	768	27	1	1104	1	CLCN4	23	10176319	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08		10176319	145094241	69	6993											
CFP	5199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	47485783	47485783	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgctgttgcccggcacatCgatgtccgtcaaacttgcgg	6	10	11	14	4	1	0	1	0	0	0	3	1	2	0	3	2	4	3	3	2	1	2	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		T	47485783	C	T	47485783	3	4	121	1	0	0	0	0	1	0	0	0	3293	884	31	1	345	1	CFP	23	47485783	Missense_Mutation	SNP	C	TCGA-B0-5099-01A-01D-1421-08	37309464	47485783	107784777	70	6994											
USP26	83844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132160271	132160271	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtgaggtatcttccagatAcgtcattaagtgagctaacg	13	11	10	7	2	2	3	1	2	1	1	3	3	3	3	1	1	3	2	1	1	5	5	novel		TCGA-B0-5099-01A-01D-1421-08	TCGA-B0-5099-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c3150136-ae55-49d0-9212-86728464167d	1b289013-495e-4a64-a3d1-4e5618c62f4c		G	132160271	A	G	132160271	3	3	121	1	0	0	0	0	1	0	0	0	17056	391	14	3	766	3	USP26	23	132160271	Missense_Mutation	SNP	A	TCGA-B0-5099-01A-01D-1421-08	84674488	132160271	23110289	71	6995											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu	37	chr1	11188177	11188177	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccactgtcagtgggtagaTgagggcctgagggaaaaaca	13	6	15	7	0	1	3	1	2	0	1	1	4	1	4	2	3	2	1	2	3	3	1	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	11188177	T	A	11188177	3	1	122	1	0	0	0	0	1	0	0	0	9954	1464	51	5	1796	5	MTOR	1	11188177	Missense_Mutation	SNP	T	TCGA-B0-5100-01A-01D-1421-08		11188177	238062444	1	6996											
APCS	325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159557958	159557958	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtaaacttgatcacaccGctggagaagcctctacagaa	14	8	8	11	1	2	3	1	1	1	2	2	4	2	3	2	1	3	2	2	1	5	3	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	159557958	G	A	159557958	2	1	122	1	0	0	0	0	0	0	0	1	767	1074	38	1		1	APCS	1	159557958	Silent	SNP	G	TCGA-B0-5100-01A-01D-1421-08	148369781	159557958	89692663	2	6997											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237947421	237947421	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccctttctgggccgcatcGaaatcatgggaagcgccaaa	11	7	11	12	3	2	0	1	0	1	0	3	2	2	1	3	2	2	1	3	2	3	1	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	237947421	G	A	237947421	3	1	122	1	0	0	0	0	1	0	0	0	13771	1059	37	1	12767	1	RYR2	1	237947421	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08	78389463	237947421	11303200	3	6998											
NLRP3	114548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247586613	247586613	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggatgggtttactggAgtacctttcgagaatctcta	9	13	13	6	1	1	1	0	0	1	1	3	5	1	4	1	4	2	2	1	4	4	5	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		G	247586613	A	G	247586613	3	3	122	1	0	0	0	0	1	0	0	0	10478	304	11	3	371	3	NLRP3	1	247586613	Missense_Mutation	SNP	A	TCGA-B0-5100-01A-01D-1421-08	9639192	247586613	1664008	4	6999											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179397153	179397153	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttcgttgggatgtgatagGttgaatacctgaagtctttt	8	16	11	6	1	1	3	0	3	1	0	2	4	1	4	2	2	1	2	2	2	4	7	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	179397153	G	A	179397153	3	1	122	1	0	0	0	0	1	0	0	0	16734	1261	44	2	3810	2	TTN	2	179397153	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		179397153	63802220	5	7000											
ZNF385B	151126	broad.mit.edu;hgsc.bcm.edu	37	chr2	180308134	180308134	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctgccgccgctgcgagaGgtgaggacaggaaggctggg	7	4	20	10	4	0	2	0	1	0	1	0	5	0	4	2	6	2	3	2	6	1	0	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		C	180308134	G	C	180308134	3	2	122	1	0	0	0	0	1	0	0	0	17876	1000	35	4	160	4	ZNF385B	2	180308134	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08	910981	180308134	62891239	6	7001											
COL4A3	1285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228173652	228173652	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcgatttaccacaatGccattcttattctgcaatgt	10	14	6	11	1	2	0	0	0	2	0	2	1	2	0	2	0	5	2	2	0	4	5	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	228173652	G	A	228173652	3	1	122	1	0	0	0	0	1	0	0	0	3691	1319	46	2	4694	2	COL4A3	2	228173652	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08	47865518	228173652	15025721	7	7002											
DOCK3	1795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51198060	51198060	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatatggctgtgcggtcCtaagcatcttggatgtccta	8	12	11	10	1	1	0	0	0	1	0	3	2	3	1	3	3	2	2	3	3	3	4	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	51198060	C	T	51198060	2	4	122	1	0	0	0	0	0	0	0	1	4688	680	24	2		2	DOCK3	3	51198060	Silent	SNP	C	TCGA-B0-5100-01A-01D-1421-08		51198060	146824370	8	7003											
CD200	4345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	112054820	112054820	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaattgggggccctctcCttacagctacactcctagga	9	9	10	13	0	1	0	0	0	1	0	3	2	2	2	3	4	3	1	3	4	4	4	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	112054820	C	T	112054820	3	4	122	1	0	0	0	0	1	0	0	0	2980	681	24	2	49	2	CD200	3	112054820	Missense_Mutation	SNP	C	TCGA-B0-5100-01A-01D-1421-08	60856760	112054820	85967610	9	7004											
MASP1	5648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186947662	186947662	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctggccatcagcttccGggagaacttggggagcccac	8	7	13	13	1	1	1	1	0	0	1	3	4	3	2	4	4	3	1	4	4	1	2	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	186947662	G	A	186947662	3	1	122	1	0	0	0	0	1	0	0	0	9322	1115	39	1	796	1	MASP1	3	186947662	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08	74892842	186947662	11074768	10	7005											
ADCY2	108	broad.mit.edu;ucsc.edu	37	chr5	7626320	7626320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatctgtgggaacctggCgggagcctaccataagcacc	9	9	11	12	1	2	0	1	0	1	0	2	2	2	2	4	3	4	1	4	3	3	3	rs188113151	by1000genomes	TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	7626320	T	T	7626320	3	4	122	1	0	0	0	0	1	0	0	0	294	768	27	1	625	1	ADCY2	5	7626320	Missense_Mutation	SNP	C	TCGA-B0-5100-01A-01D-1421-08		7626320	173288940	11	7006											
CDKN2AIPNL	91368	hgsc.bcm.edu;ucsc.edu	37	chr5	133747410	133747410	+	Missense_Mutation	SNP	G	G	A																															gcggtagtcgggcaggtggcGcaggatgaattccatgcggg																								novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	133747410	G	A	133747410	3	1	122	1	0	0	0	0	1	0	0	0	3163	1087	38	1	226	1	CDKN2AIPNL	5	133747410	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08	126121090	133747410	47167850	12	7007	92	2									
CDKN2AIPNL	91368	broad.mit.edu;hgsc.bcm.edu	37	chr5	133747411	133747411	+	Silent	SNP	C	C	A																															cggtagtcgggcaggtggcgCaggatgaattccatgcgggc																								novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	133747411	C	A	133747411	2	1	122	1	0	0	0	0	0	0	0	1	3163	697	25	4		4	CDKN2AIPNL	5	133747411	Silent	SNP	C	TCGA-B0-5100-01A-01D-1421-08	1	133747411	47167849	13	7008	92	2									
PCDHB16	57717	broad.mit.edu;hgsc.bcm.edu	37	chr5	140563511	140563511	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaacctcctacaccctgttCgtccgcgagaacaacagccc	11	6	6	18	3	0	1	0	0	0	1	3	2	2	1	5	0	5	1	5	0	4	2	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	140563511	C	T	140563511	2	4	122	1	0	0	0	0	0	0	0	1	11541	883	31	1		1	PCDHB16	5	140563511	Silent	SNP	C	TCGA-B0-5100-01A-01D-1421-08	6816100	140563511	40351749	14	7009											
MRPS18B	28973	broad.mit.edu;hgsc.bcm.edu	37	chr6	30593435	30593435	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccaccggagagagaacTgtctcgccttcgccggcttt	8	8	11	14	4	1	2	0	0	1	2	3	4	1	2	4	2	2	1	4	2	1	2	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		C	30593435	T	C	30593435	3	2	122	1	0	0	0	0	1	0	0	0	9829	1580	55	3	664	3	MRPS18B	6	30593435	Missense_Mutation	SNP	T	TCGA-B0-5100-01A-01D-1421-08		30593435	140521632	15	7010											
MAP3K4	4216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161530934	161530934	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcatggcatagtccacCgtgacattaaaggtaatccc	13	9	9	10	1	0	2	0	2	0	0	2	2	2	2	3	2	1	3	3	2	4	3	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	161530934	C	T	161530934	3	4	122	1	0	0	0	0	1	0	0	0	9252	652	23	1	4474	1	MAP3K4	6	161530934	Missense_Mutation	SNP	C	TCGA-B0-5100-01A-01D-1421-08	130937499	161530934	9584133	16	7011											
SMURF1	57154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	98639741	98639741	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgttcattcatacttacGgggttgattgaagaatccgg	9	15	10	7	2	2	3	2	2	0	1	3	3	3	3	1	3	2	2	1	3	4	7	rs138664041	alternate_allele	TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		C	98639741	G	C	98639741	2	2	122	1	0	0	0	0	0	0	0	1	14821	1130	39	4		4	SMURF1	7	98639741	Silent	SNP	G	TCGA-B0-5100-01A-01D-1421-08		98639741	60498922	17	7012											
ZNHIT1	10467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100867049	100867049	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgtctgtggcttcccAtccccctacacctgtgtcag	4	13	9	15	0	2	0	1	0	1	0	4	0	4	0	4	1	2	2	4	1	1	2	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	100867049	A	T	100867049	2	4	122	1	0	0	0	0	0	0	0	1	18205	204	8	5		5	ZNHIT1	7	100867049	Silent	SNP	A	TCGA-B0-5100-01A-01D-1421-08	2227308	100867049	58271614	18	7013											
NOS3	4846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150698930	150698930	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtgaagatctccgcctcGctcatgggcacggtgatggc	6	8	14	13	4	2	3	1	2	1	1	4	3	2	3	3	3	0	2	3	3	1	0	rs61734203	bycluster;byfrequency	TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	150698930	G	A	150698930	2	1	122	1	0	0	0	0	0	0	0	1	10544	1074	38	1		1	NOS3	7	150698930	Silent	SNP	G	TCGA-B0-5100-01A-01D-1421-08	49831881	150698930	8439733	19	7014											
UNC5D	137970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	35631934	35631934	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcggatttgtgctacatttGatacccccaatgccaaaggc	11	10	9	11	1	0	1	0	1	0	0	0	2	0	2	3	2	5	1	3	2	4	4	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	35631934	G	A	35631934	3	1	122	1	0	0	0	0	1	0	0	0	16994	1290	45	2	2658	2	UNC5D	8	35631934	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		35631934	110732088	20	7015											
ASPH	444	hgsc.bcm.edu	37	chr8	62588723	62588724	+	In_Frame_Ins	INS	-	-	TTC																															acaccatctgcggtttcgctINSttcttcttcttcttcttcta																								novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		TTC	62588724	-	TTC	62588723	7	5	122	1	0	1	1	0	0	0	0	0	1053	1609	56	0	2553	0	ASPH	8	62588723	In_Frame_Ins	INS	-	TCGA-B0-5100-01A-01D-1421-08	26956789	62588723	83775299	21	7016											
CPSF1	29894	broad.mit.edu	37	chr8	145626349	145626349	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcccctcgtgctcctcagCcaggctctccctgcggaagg	5	7	12	17	2	2	0	1	0	1	0	5	2	3	1	5	3	4	2	5	3	1	0	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	145626349	A	A	145626349	3	1	122	1	0	0	0	0	1	0	0	0	3824	739	26	4	3955	4	CPSF1	8	145626349	Missense_Mutation	SNP	C	TCGA-B0-5100-01A-01D-1421-08	83037626	145626349	737673	22	7017											
UPF2	26019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12071445	12071445	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggctgtccggagcattttgGtttttgctacgaagttcctt	5	16	11	9	3	0	0	0	0	0	0	2	2	2	1	2	3	3	5	2	3	2	7	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	12071445	G	A	12071445	2	1	122	1	0	0	0	0	0	0	0	1	17003	1252	44	2		2	UPF2	10	12071445	Silent	SNP	G	TCGA-B0-5100-01A-01D-1421-08		12071445	123463302	23	7018											
TBC1D12	23232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96291127	96291127	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcatatagcacagtttctAactaaattgccagaagatat	16	13	5	7	0	2	2	1	0	1	2	2	2	2	2	1	0	3	2	1	0	7	8	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		G	96291127	A	G	96291127	2	3	122	1	0	0	0	0	0	0	0	1	15600	349	13	3		3	TBC1D12	10	96291127	Silent	SNP	A	TCGA-B0-5100-01A-01D-1421-08	84219682	96291127	39243620	24	7019											
PCF11	51585	broad.mit.edu;ucsc.edu	37	chr11	82878246	82878246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcactaaaggaattttaTcacctcgagccccaaagcag	15	7	7	12	1	1	0	1	0	0	0	2	2	1	1	3	1	3	2	3	1	6	3	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		C	82878246	C	C	82878246	3	2	122	1	0	0	0	0	1	0	0	0	11573	1435	50	3	1919	3	PCF11	11	82878246	Missense_Mutation	SNP	T	TCGA-B0-5100-01A-01D-1421-08		82878246	52128270	25	7020											
FAM113B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	47629507	47629507	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatttccacttccgccacGcgagggagaacctgcactgg	8	8	11	14	3	0	1	0	0	0	1	2	3	2	1	4	2	3	2	4	2	1	2	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	47629507	G	A	47629507	3	1	122	1	0	0	0	0	1	0	0	0	5402	1087	38	1	663	1	FAM113B	12	47629507	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		47629507	86222388	26	7021											
KRT83	3889	hgsc.bcm.edu	37	chr12	52711741	52711743	+	In_Frame_Del	DEL	CTT	CTT	-																															tgctgtggctcgaagtgctaCttcttcttcatacctgaggt																								rs149269323	by1000genomes	TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		-	52711743	CTT	-	52711741	7	5	122	1	0	1	0	1	0	0	0	0	8497	565	20	0	902	0	KRT83	12	52711741	In_Frame_Del	DEL	CTT	TCGA-B0-5100-01A-01D-1421-08	5082234	52711741	81140154	27	7022											
CNOT2	4848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	70723321	70723321	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacaggggtaccaacaatGtcacttcacacgcctccatc	13	7	6	15	1	2	0	2	0	0	0	4	0	3	0	3	2	3	1	3	2	4	2	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	70723321	G	T	70723321	3	4	122	1	0	0	0	0	1	0	0	0	3619	1377	48	4	371	4	CNOT2	12	70723321	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08	18011580	70723321	63128574	28	7023											
PCDH20	64881	broad.mit.edu;ucsc.edu	37	chr13	61986058	61986058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaattgtgatttttgctGtagaggagagggcaggctca	10	11	16	4	0	1	4	1	1	0	3	1	6	1	4	0	4	1	4	0	4	2	4	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	61986058	A	A	61986058	3	1	122	1	0	0	0	0	1	0	0	0	11515	1377	48	2	685	2	PCDH20	13	61986058	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		61986058	53183820	29	7024											
FERMT2	10979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	53339598	53339598	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggatgtgtctttgaaggTgcaccaatattgtttgtaac	11	15	10	5	0	1	1	0	1	1	0	1	2	1	2	1	2	2	3	1	2	5	5	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	53339598	T	A	53339598	3	1	122	1	0	0	0	0	1	0	0	0	5818	1696	59	5	911	5	FERMT2	14	53339598	Missense_Mutation	SNP	T	TCGA-B0-5100-01A-01D-1421-08		53339598	54009942	30	7025											
CYP11A1	1583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	74636237	74636237	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatggggacgctggtgtggAacatctggtagatggcatca	9	9	16	7	1	2	1	1	0	1	1	2	3	2	3	0	6	1	4	0	6	2	1	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		G	74636237	A	G	74636237	3	3	122	1	0	0	0	0	1	0	0	0	4144	246	9	3	867	3	CYP11A1	15	74636237	Missense_Mutation	SNP	A	TCGA-B0-5100-01A-01D-1421-08		74636237	27895155	31	7026											
CORO7	79585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4405287	4405287	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaggccactcactactcacCcactcgtcctcgtccacgcc	7	8	6	20	3	2	1	2	1	0	0	6	1	4	1	5	1	1	0	5	1	1	1	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	4405287	C	A	4405287	3	1	122	1	0	0	0	0	1	0	0	0	3759	637	22	4	13	4	CORO7	16	4405287	Missense_Mutation	SNP	C	TCGA-B0-5100-01A-01D-1421-08		4405287	85949466	32	7027											
KRTAP4-2	85291	broad.mit.edu;hgsc.bcm.edu	37	chr17	39334330	39334330	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtggtcctgcagcaGgtggtctggcagcagctggg	6	7	18	10	0	1	0	0	0	1	0	2	0	2	0	1	6	5	6	1	6	0	0	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		T	39334330	G	T	39334330	2	4	122	1	0	0	0	0	0	0	0	1	8551	987	35	4		4	KRTAP4-2	17	39334330	Silent	SNP	G	TCGA-B0-5100-01A-01D-1421-08		39334330	41860880	33	7028											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38949888	38949888	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgccgtccatctccttccGcatcaacggctgccccgtgc	4	9	9	19	5	2	0	1	0	1	0	5	0	4	0	6	1	4	2	6	1	1	1	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	38949888	G	A	38949888	3	1	122	1	0	0	0	0	1	0	0	0	13770	1087	38	1	2344	1	RYR1	19	38949888	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		38949888	20179095	34	7029											
PCSK2	5126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	17462428	17462428	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggcgtccaagggatgacGactccaaggtgggctttgac	8	7	15	11	3	0	2	0	2	0	0	2	4	2	3	3	4	0	1	3	4	2	1	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	17462428	G	A	17462428	3	1	122	1	0	0	0	0	1	0	0	0	11601	1058	37	1	1676	1	PCSK2	20	17462428	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		17462428	45563092	35	7030											
KLF8	11279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	56310908	56310908	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgtccctgcatcgccGtcgccatgacaccatgtgag	7	8	9	17	3	0	2	0	2	0	0	3	2	1	2	6	0	1	1	6	0	0	0	novel		TCGA-B0-5100-01A-01D-1421-08	TCGA-B0-5100-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b20bd619-59c9-4e2a-8e64-7bb44eaa75ce	adfc66d6-8278-4574-890d-cb2bb82be8e5		A	56310908	G	A	56310908	3	1	122	1	0	0	0	0	1	0	0	0	8352	1145	40	1	1083	1	KLF8	23	56310908	Missense_Mutation	SNP	G	TCGA-B0-5100-01A-01D-1421-08		56310908	98959652	36	7031											
SLC25A33	84275	broad.mit.edu;hgsc.bcm.edu	37	chr1	9642417	9642417	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtcttttgtccagacggCgcgcctggtgttccgggaag	6	10	14	11	4	1	1	0	0	1	1	3	2	3	2	3	3	0	1	3	3	2	3	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	9642417	C	T	9642417	3	4	123	1	0	0	0	0	1	0	0	0	14499	768	27	1	850	1	SLC25A33	1	9642417	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		9642417	239608204	1	7032											
ARID1A	8289	hgsc.bcm.edu	37	chr1	27087419	27087420	+	Frame_Shift_Del	DEL	GG	GG	-																															gtcctggagtgagcacatcaGggatttccagcagccaagga																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	GG	GG	GG	-	GG	GG	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		-	27087420	GG	-	27087419	7	5	123	1	0	1	0	1	0	0	0	0	913	1000	35	0	2011	0	ARID1A	1	27087419	Frame_Shift_Del	DEL	GG	TCGA-B0-5102-01A-01D-1421-08	17445002	27087419	222163202	2	7033											
PHACTR4	65979	broad.mit.edu	37	chr1	28802704	28802704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcagtcattcctaaattaCcacagtgtctacgggaggaa	12	10	8	11	1	3	0	2	0	1	0	4	2	4	2	3	2	2	0	3	2	5	4	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	28802704	T	T	28802704	3	4	123	1	0	0	0	0	1	0	0	0	11812	507	18	2	1583	2	PHACTR4	1	28802704	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	1715285	28802704	220447917	3	7034											
VCAM1	7412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	101200121	101200121	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaaagaaggagacactgTcatcatctcttgtacatgtg	12	12	9	8	0	4	2	3	0	1	2	5	3	4	2	0	1	1	1	0	1	3	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	101200121	T	G	101200121	3	3	123	1	0	0	0	0	1	0	0	0	17136	1667	58	5	1886	5	VCAM1	1	101200121	Missense_Mutation	SNP	T	TCGA-B0-5102-01A-01D-1421-08	72397417	101200121	148050500	4	7035											
EFNA3	1944	hgsc.bcm.edu	37	chr1	155057646	155057657	+	In_Frame_Del	DEL	GGGGTGGGCCCC	GGGGTGGGCCCC	-																															gcccgcactacaacagctcgGgggtgggccccggggcggga																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	GGGGTGGGCCCC	GGGGTGGGCCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		-	155057657	GGGGTGGGCCCC	-	155057646	7	5	123	1	0	1	0	1	0	0	0	0	4952	1232	43	0	214	0	EFNA3	1	155057646	In_Frame_Del	DEL	GGGGTGGGCCCC	TCGA-B0-5102-01A-01D-1421-08	53857525	155057646	94192975	5	7036											
CR1	1378	broad.mit.edu;hgsc.bcm.edu	37	chr1	207700214	207700214	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggctacgacctcagagggGctgcgtctatgcgctgcaca	7	7	13	14	4	2	1	1	0	1	1	2	2	2	1	2	3	4	4	2	3	2	2	rs56395307	alternate_allele	TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		C	207700214	G	C	207700214	3	2	123	1	0	0	0	0	1	0	0	0	3840	1203	42	4	1025	4	CR1	1	207700214	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	52642568	207700214	41550407	6	7037											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152529113	152529113	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgccacattcatatagtGgaccagcttgggatcatcct	9	13	8	11	0	2	0	2	0	0	0	3	2	3	2	3	2	2	1	3	2	2	5	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	152529113	G	T	152529113	3	4	123	1	0	0	0	0	1	0	0	0	10302	1348	47	4	22201	4	NEB	2	152529113	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08		152529113	90670260	7	7038											
VHL	7428	broad.mit.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina GAIIx	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	10183725	A	A	10183725	4	1	123	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		10183725	187838705	8	7039											
SLITRK3	22865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	164905805	164905805	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgaagccctttccagcCgagaagagaagggtttcttt	9	12	11	9	1	2	3	0	1	2	2	3	5	3	3	3	1	2	1	3	1	3	3	rs145516007	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	164905805	C	G	164905805	2	3	123	1	0	0	0	0	0	0	0	1	14746	639	23	4		4	SLITRK3	3	164905805	Silent	SNP	C	TCGA-B0-5102-01A-01D-1421-08	154722080	164905805	33116625	9	7040											
SERPINI1	5274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167508254	167508254	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaattccttgtttgtgcaAaatggatttcatgtcaatga	11	15	8	7	0	2	1	2	1	0	0	3	2	3	2	2	1	1	2	2	1	4	4	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		C	167508254	A	C	167508254	3	2	123	1	0	0	0	0	1	0	0	0	14120	11	1	5	351	5	SERPINI1	3	167508254	Missense_Mutation	SNP	A	TCGA-B0-5102-01A-01D-1421-08	2602449	167508254	30514176	10	7041											
TMEM155	132332	hgsc.bcm.edu;ucsc.edu	37	chr4	122682726	122682726	+	Frame_Shift_Del	DEL	A	A	-																															tccacccctgcaagcgaaccAaaaacaaatcctggcacctt																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		-	122682726	A	-	122682726	7	5	123	1	0	1	0	1	0	0	0	0	16071	131	5	0	221	0	TMEM155	4	122682726	Frame_Shift_Del	DEL	A	TCGA-B0-5102-01A-01D-1421-08		122682726	68471550	11	7042											
FBXW7	55294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	153332528	153332528	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatactactggagttcgtgAcactgttagtatgtgtatgt	10	15	10	6	1	0	1	0	1	0	0	1	2	0	2	0	1	2	4	0	1	6	6	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	153332528	A	T	153332528	3	4	123	1	0	0	0	0	1	0	0	0	5769	275	10	5	2155	5	FBXW7	4	153332528	Missense_Mutation	SNP	A	TCGA-B0-5102-01A-01D-1421-08	30649802	153332528	37821748	12	7043											
C4orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184585186	184585186	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccaatttctttcaaggtgCtcccaggtgaccatgagtat	10	13	8	10	0	2	2	1	2	1	0	3	2	3	2	3	2	2	2	3	2	4	4	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	184585186	C	T	184585186	3	4	123	1	0	0	0	0	1	0	0	0	2270	797	28	2	168	2	C4orf41	4	184585186	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	31252658	184585186	6569090	13	7044											
ALDH7A1	501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	125891622	125891622	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcagaaggagatactcaCggtcccatgggttcccaact	13	7	10	11	1	1	2	1	0	0	2	3	3	3	2	2	3	3	2	2	3	4	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	125891622	C	T	125891622	5	4	123	1	0	0	0	0	0	0	1	0	504	550	19	1	553	1	ALDH7A1	5	125891622	Splice_Site	SNP	C	TCGA-B0-5102-01A-01D-1421-08		125891622	55023638	14	7045											
PCDHA5	56143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140202183	140202183	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagatgagggcatcaataagGaaatagtgtatttctttagt	14	13	10	4	0	2	2	1	1	1	1	2	3	2	3	0	2	0	2	0	2	6	6	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	140202183	G	T	140202183	4	4	123	1	0	0	0	0	0	1	0	0	11527	1175	41	4	825	4	PCDHA5	5	140202183	Nonsense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	14310561	140202183	40713077	15	7046											
PCDHAC2	56134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140347848	140347848	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacagacccagatgaaaaGgagaatgcagaggtgaccta	16	4	12	9	0	0	6	0	2	0	4	0	7	0	6	3	2	1	1	3	2	4	1	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	140347848	G	A	140347848	2	1	123	1	0	0	0	0	0	0	0	1	11533	991	35	2		2	PCDHAC2	5	140347848	Silent	SNP	G	TCGA-B0-5102-01A-01D-1421-08	145665	140347848	40567412	16	7047											
PCDHB10	56126	broad.mit.edu;hgsc.bcm.edu	37	chr5	140573503	140573503	+	Missense_Mutation	SNP	G	G	T																															aaacctcctacaccctgttcGtccgcgagaacaacagcccc																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	140573503	G	T	140573503	3	4	123	1	0	0	0	0	1	0	0	0	11535	1145	40	4	1380	4	PCDHB10	5	140573503	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	225655	140573503	40341757	17	7048	93	2									
PCDHB10	56126	broad.mit.edu;hgsc.bcm.edu	37	chr5	140573506	140573506	+	Missense_Mutation	SNP	C	C	T																															cctcctacaccctgttcgtcCgcgagaacaacagccccgcc																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	140573506	C	T	140573506	3	4	123	1	0	0	0	0	1	0	0	0	11535	652	23	1	1383	1	PCDHB10	5	140573506	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	3	140573506	40341754	18	7049	93	2									
ZBTB12	221527	broad.mit.edu;hgsc.bcm.edu	37	chr6	31867889	31867889	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcgtgaagggtggacttCtgtgtgaagcacttgccgca	7	11	15	8	2	1	2	0	2	1	0	2	3	1	3	1	3	2	2	1	3	2	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	31867889	C	A	31867889	3	1	123	1	0	0	0	0	1	0	0	0	17524	912	32	4	189	4	ZBTB12	6	31867889	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		31867889	139247178	19	7050											
CAPN11	11131	broad.mit.edu;hgsc.bcm.edu	37	chr6	44141055	44141055	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttccaactccagaggcccCctcagaacctgctcaggctc	8	7	8	18	0	2	2	2	0	0	2	5	2	4	2	5	2	3	3	5	2	2	1	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	44141055	C	A	44141055	3	1	123	1	0	0	0	0	1	0	0	0	2624	623	22	4	789	4	CAPN11	6	44141055	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	12273166	44141055	126974012	20	7051											
SENP6	26054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	76421100	76421100	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgcagttcagaaataggAcagtggcatttaaagcctac	15	9	9	8	0	1	1	1	0	0	1	1	2	1	2	1	2	4	3	1	2	6	5	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	76421100	A	T	76421100	2	4	123	1	0	0	0	0	0	0	0	1	14052	262	10	5		5	SENP6	6	76421100	Silent	SNP	A	TCGA-B0-5102-01A-01D-1421-08	32280045	76421100	94693967	21	7052											
PAX4	5078	hgsc.bcm.edu;ucsc.edu	37	chr7	127252007	127252007	+	Frame_Shift_Del	DEL	A	A	-																															cctcccgagtacctgtgcagAgatgattcctggggcaaccc																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		-	127252007	A	-	127252007	7	5	123	1	0	1	0	1	0	0	0	0	11481	304	11	0	304	0	PAX4	7	127252007	Frame_Shift_Del	DEL	A	TCGA-B0-5102-01A-01D-1421-08		127252007	31886656	22	7053											
CPA2	1358	broad.mit.edu;ucsc.edu	37	chr7	129916502	129916502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaaggacccatccatcaCttccattctggatgccctgg	9	10	9	13	0	2	0	1	0	1	0	4	3	4	3	4	4	1	0	4	4	1	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	129916502	T	T	129916502	3	4	123	1	0	0	0	0	1	0	0	0	3790	565	20	2	646	2	CPA2	7	129916502	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	2664495	129916502	29222161	23	7054											
CLU	1191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27466547	27466547	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctttatctgtttcacccCgttgacagcattttgaattt	8	18	6	9	1	3	2	1	2	2	0	3	2	3	2	2	0	1	3	2	0	2	7	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	27466547	C	T	27466547	3	4	123	1	0	0	0	0	1	0	0	0	3568	652	23	1	1223	1	CLU	8	27466547	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		27466547	118897475	24	7055											
CDH17	1015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95183159	95183159	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattgaaaatgggaatcttgGcagcttctctttgtcaacta	12	14	8	7	0	3	1	1	1	2	0	4	2	3	2	0	2	2	2	0	2	6	5	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	95183159	G	T	95183159	3	4	123	1	0	0	0	0	1	0	0	0	3102	1203	42	4	1704	4	CDH17	8	95183159	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	67716612	95183159	51180863	25	7056											
SLC30A8	169026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	118184908	118184909	+	Frame_Shift_Del	DEL	CC	CC	-																															gactgccttttctgtgaagaCccctgtgactagctcagtca																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		-	118184909	CC	-	118184908	7	5	123	1	0	1	0	1	0	0	0	0	14563	506	18	0	1128	0	SLC30A8	8	118184908	Frame_Shift_Del	DEL	CC	TCGA-B0-5102-01A-01D-1421-08	23001749	118184908	28179114	26	7057											
CA9	768	broad.mit.edu;hgsc.bcm.edu	37	chr9	35676103	35676103	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctagagatggctctgggtcCcgggcgggagtaccgggctc	5	7	18	11	3	1	1	0	0	1	1	3	3	2	2	2	5	1	4	2	5	2	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	35676103	C	G	35676103	3	3	123	1	0	0	0	0	1	0	0	0	2524	623	22	4	661	4	CA9	9	35676103	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		35676103	105537328	27	7058											
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101777786	101777786	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggatgaggaagccagtgggGtccccacagatggcctggct	9	6	16	10	0	0	2	0	1	0	1	1	4	1	4	4	6	1	1	4	6	1	0	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	101777786	G	A	101777786	3	1	123	1	0	0	0	0	1	0	0	0	3672	1261	44	2	1479	2	COL15A1	9	101777786	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	66101683	101777786	39435645	28	7059											
OR1J2	26740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125273604	125273604	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgctgcgaacaccatccCccatgtcttctgtgaccttg	6	12	8	15	1	2	1	0	1	2	0	3	2	3	1	4	0	3	1	4	0	1	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	125273604	C	T	125273604	3	4	123	1	0	0	0	0	1	0	0	0	10960	623	22	2	526	2	OR1J2	9	125273604	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	23495818	125273604	15939827	29	7060											
LCN9	392399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138555246	138555246	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaccgttatgcagaggAactacaacgtggccagggtg	11	6	12	12	2	0	1	0	0	0	1	0	2	0	2	3	3	4	2	3	3	4	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		C	138555246	A	C	138555246	3	2	123	1	0	0	0	0	1	0	0	0	8687	246	9	5	81	5	LCN9	9	138555246	Missense_Mutation	SNP	A	TCGA-B0-5102-01A-01D-1421-08	13281642	138555246	2658185	30	7061											
OR52K1	390036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4510760	4510760	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggccatgtttattgtggtGttggacctgctctttgttat	4	19	12	6	0	1	0	0	0	1	0	1	1	1	1	2	3	1	4	2	3	2	6	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	4510760	G	A	4510760	2	1	123	1	0	0	0	0	0	0	0	1	11123	1364	48	2		2	OR52K1	11	4510760	Silent	SNP	G	TCGA-B0-5102-01A-01D-1421-08		4510760	130495756	31	7062											
OR51V1	283111	broad.mit.edu;ucsc.edu	37	chr11	5221093	5221093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaatgagaacgtgggccaCgggggaaaggtgcttgccaa	11	5	16	9	2	0	1	0	1	0	1	0	3	0	2	3	4	3	1	3	4	4	1	rs182727082	by1000genomes	TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	5221093	T	T	5221093	3	4	123	1	0	0	0	0	1	0	0	0	11107	536	19	1	130	1	OR51V1	11	5221093	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	710333	5221093	129785423	32	7063											
ATP2A2	488	broad.mit.edu;ucsc.edu	37	chr12	110720427	110720427	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagttaccggctgaagaagGtaatcttaacatgctgtttc	12	12	10	7	1	1	3	0	1	1	2	2	3	1	3	1	2	3	5	1	2	5	4	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		C	110720427	C	C	110720427	5	2	123	1	0	0	0	0	0	0	1	0	1137	1275	44	4	143	4	ATP2A2	12	110720427	Splice_Site	SNP	G	TCGA-B0-5102-01A-01D-1421-08		110720427	23131468	33	7064											
PCDH9	5101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	67800364	67800364	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtgctggtttttcttccaGagtaatgttacctgttactg	7	17	10	7	0	1	1	0	0	1	1	2	1	2	1	2	2	3	5	2	2	3	6	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	67800364	G	A	67800364	2	1	123	1	0	0	0	0	0	0	0	1	11518	933	33	2		2	PCDH9	13	67800364	Silent	SNP	G	TCGA-B0-5102-01A-01D-1421-08		67800364	47369514	34	7065											
NIN	51199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	51224783	51224783	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgaatgttctccatggCtagaagcttggacatcattt	9	16	9	7	0	2	2	1	1	1	1	3	3	2	3	1	2	1	3	1	2	3	5	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	51224783	C	T	51224783	3	4	123	1	0	0	0	0	1	0	0	0	10417	797	28	2	3640	2	NIN	14	51224783	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		51224783	56124757	35	7066											
SPTB	6710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	65289684	65289684	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgccaaggcctttatccgGgacctctcaaagagcctggc	8	8	10	15	1	1	1	1	0	1	1	3	2	2	2	6	3	2	0	6	3	3	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	65289684	G	A	65289684	2	1	123	1	0	0	0	0	0	0	0	1	15119	1219	43	2		2	SPTB	14	65289684	Silent	SNP	G	TCGA-B0-5102-01A-01D-1421-08	14064901	65289684	42059856	36	7067											
PNMA1	9240	hgsc.bcm.edu	37	chr14	74179715	74179716	+	Frame_Shift_Ins	INS	-	-	G																															atgcgaataacatcagcggcINSggggcctctaagactctcca																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	74179716	-	G	74179715	7	5	123	1	0	1	1	0	0	0	0	0	12153	768	27	0	437	0	PNMA1	14	74179715	Frame_Shift_Ins	INS	-	TCGA-B0-5102-01A-01D-1421-08	8890031	74179715	33169825	37	7068											
MLH3	27030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75513873	75513873	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccttggagaatggaaacTtctctgagttaaggatgtgg	11	12	12	6	0	1	2	0	1	1	1	3	5	2	4	1	4	1	1	1	4	3	3	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	75513873	T	G	75513873	3	3	123	1	0	0	0	0	1	0	0	0	9618	1609	56	5	1923	5	MLH3	14	75513873	Missense_Mutation	SNP	T	TCGA-B0-5102-01A-01D-1421-08	1334158	75513873	31835667	38	7069											
DUOX2	50506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45398798	45398798	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagcttcttgtgttctcGgccccggaaataggccacca	7	12	10	12	2	2	0	0	0	2	0	3	1	2	1	4	3	1	3	4	3	3	6	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	45398798	G	A	45398798	4	1	123	1	0	0	0	0	0	1	0	0	4801	1124	39	1	2849	1	DUOX2	15	45398798	Nonsense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08		45398798	57132594	39	7070											
SPESP1	246777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	69238414	69238414	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacctcatacaagtcacctGtcaccactttagataagagc	13	11	5	12	0	3	2	3	0	0	2	3	2	3	2	3	0	3	0	3	0	5	5	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		C	69238414	G	C	69238414	3	2	123	1	0	0	0	0	1	0	0	0	15041	1377	48	4	547	4	SPESP1	15	69238414	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	23839616	69238414	33292978	40	7071											
MESP2	145873	broad.mit.edu	37	chr15	90321551	90321551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atctggagggggcccgcctgGgcatcttctactaaatggcc	7	9	13	12	1	3	0	0	0	3	0	3	1	3	1	3	5	1	1	3	5	3	3	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	90321551	A	A	90321551	3	1	123	1	0	0	0	0	1	0	0	0	9483	1232	43	2	1186	2	MESP2	15	90321551	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	21083137	90321551	12209841	41	7072											
RHBDF1	64285	hgsc.bcm.edu	37	chr16	111871	111871	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggtgcggttggtgagcCgtcccaccatgcccagccca	6	7	14	14	2	0	1	0	1	0	0	1	1	1	1	5	4	4	2	5	4	1	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	111871	C	T	111871	3	4	123	1	0	0	0	0	1	0	0	0	13321	652	23	1	1478	1	RHBDF1	16	111871	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08		111871	90242882	42	7073											
TELO2	9894	broad.mit.edu;hgsc.bcm.edu	37	chr16	1557029	1557029	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacaccttaggggccctgAtgtgcctggctgttaacacc	7	9	11	14	1	0	1	0	1	0	0	0	1	0	1	4	3	2	3	4	3	2	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	1557029	A	G	1557029	3	3	123	1	0	0	0	0	1	0	0	0	15756	333	12	3	2269	3	TELO2	16	1557029	Missense_Mutation	SNP	A	TCGA-B0-5102-01A-01D-1421-08	1445158	1557029	88797724	43	7074											
KIAA0430	9665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15706525	15706525	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taggatgggatgaaatgactGatgggtatgacacaagatgg	14	9	15	3	0	0	5	0	4	0	1	0	7	0	7	0	4	0	1	0	4	4	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		C	15706525	G	C	15706525	3	2	123	1	0	0	0	0	1	0	0	0	8177	1280	45	4	1909	4	KIAA0430	16	15706525	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08	14149496	15706525	74648228	44	7075											
BRD7	29117	hgsc.bcm.edu	37	chr16	50383993	50383994	+	Frame_Shift_Ins	INS	-	-	AC																															ttttctttcatggtactaaaINSatccattgggtgtttaatga																								novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		AC	50383994	-	AC	50383993	7	5	123	1	0	1	1	0	0	0	0	0	1505	14	1	0	1478	0	BRD7	16	50383993	Frame_Shift_Ins	INS	-	TCGA-B0-5102-01A-01D-1421-08	34677468	50383993	39970760	45	7076											
HYDIN	54768	broad.mit.edu;hgsc.bcm.edu	37	chr16	70884503	70884503	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttccacattgcagatcaAattaaagttcacatctcctt	12	15	3	11	0	3	1	2	0	1	1	5	1	4	1	2	0	1	2	2	0	3	6	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	70884503	A	G	70884503	2	3	123	1	0	0	0	0	0	0	0	1	7467	11	1	3		3	HYDIN	16	70884503	Silent	SNP	A	TCGA-B0-5102-01A-01D-1421-08	20500510	70884503	19470250	46	7077											
PIK3R5	23533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8793400	8793400	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccagctcctgtgcctctGcggtctccgtgaagatgtcc	5	11	11	14	2	2	2	0	1	2	1	5	2	4	2	5	1	4	1	5	1	1	0	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	8793400	G	A	8793400	3	1	123	1	0	0	0	0	1	0	0	0	11922	1319	46	2	1989	2	PIK3R5	17	8793400	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08		8793400	72401810	47	7078											
ELSPBP1	64100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	48517560	48517560	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggaagtactgccagaGtgaaggtgagtggtatcaca	12	8	14	7	0	1	3	1	2	0	1	1	4	1	4	2	3	2	2	2	3	4	2	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	48517560	G	T	48517560	3	4	123	1	0	0	0	0	1	0	0	0	5083	1029	36	4	209	4	ELSPBP1	19	48517560	Missense_Mutation	SNP	G	TCGA-B0-5102-01A-01D-1421-08		48517560	10611423	48	7079											
CACNA1F	778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	49071691	49071691	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggccttgagggcatatTccacacattgacgctgcata	9	10	11	11	1	0	2	0	2	0	0	1	2	1	2	2	2	1	4	2	2	2	5	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	49071691	T	G	49071691	3	3	123	1	0	0	0	0	1	0	0	0	2543	1783	62	5	2528	5	CACNA1F	23	49071691	Missense_Mutation	SNP	T	TCGA-B0-5102-01A-01D-1421-08		49071691	106198869	49	7080											
SMC1A	8243	hgsc.bcm.edu	37	chrX	53430709	53430709	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcccacaccctaccaacCtggttcatcttctccttcaa	9	11	4	17	0	4	0	2	0	2	0	5	0	4	0	5	2	2	1	5	2	3	4	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		G	53430709	C	G	53430709	3	3	123	1	0	0	0	0	1	0	0	0	14783	695	24	4	1436	4	SMC1A	23	53430709	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	4359018	53430709	101839851	50	7081											
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	chrX	76813066	76813066	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcaacaactcgaaaagaCagtgactgcttagttacttg	14	11	8	8	1	1	3	1	2	0	1	2	4	1	3	0	0	4	2	0	0	6	3	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		T	76813066	C	T	76813066	2	4	123	1	0	0	0	0	0	0	0	1	1208	465	17	2		2	ATRX	23	76813066	Silent	SNP	C	TCGA-B0-5102-01A-01D-1421-08	23382357	76813066	78457494	51	7082											
GABRQ	55879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151821523	151821523	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atactaacagtacctggggcCttaatgatgatgagctcatg	12	11	10	8	0	1	3	1	3	0	0	1	3	1	3	2	2	4	2	2	2	4	4	novel		TCGA-B0-5102-01A-01D-1421-08	TCGA-B0-5102-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	abea5e3e-705a-4d2c-b207-1ab43767a19b	f74efc75-f8a0-4192-ba8c-22922fc44b5c		A	151821523	C	A	151821523	3	1	123	1	0	0	0	0	1	0	0	0	6175	681	24	4	1712	4	GABRQ	23	151821523	Missense_Mutation	SNP	C	TCGA-B0-5102-01A-01D-1421-08	75008457	151821523	3449037	52	7083											
TRIM46	80128	hgsc.bcm.edu	37	chr1	155150596	155150597	+	Frame_Shift_Ins	INS	-	-	G																															gaatgccagcaggagcggctINSggcccgtctcagcgcccaga																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	155150597	-	G	155150596	7	5	124	1	0	1	1	0	0	0	0	0	16520	1580	55	0	1050	0	TRIM46	1	155150596	Frame_Shift_Ins	INS	-	TCGA-B0-5104-01A-01D-1421-08		155150596	94100025	1	7084											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186056587	186056587	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccctcagtgcccccaagcaTtaaagaccatgacagtgaat	13	8	7	13	0	1	3	1	2	0	1	2	3	2	3	4	0	2	1	4	0	4	1	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	186056587	T	G	186056587	3	3	124	1	0	0	0	0	1	0	0	0	7220	1493	52	5	9411	5	HMCN1	1	186056587	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08	30905991	186056587	63194034	2	7085											
NAV1	89796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201779747	201779747	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgctgaagcaccggcGcctcgtcctctcgggcccca	4	7	10	20	4	1	1	0	1	1	0	5	1	3	1	7	2	2	2	7	2	1	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	201779747	G	A	201779747	3	1	124	1	0	0	0	0	1	0	0	0	10183	1087	38	1	4809	1	NAV1	1	201779747	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	15723160	201779747	47470874	3	7086											
PARP1	142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	226551746	226551746	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccatgtcagcgaaatagAtccctttaccaaacatgtag	15	9	7	10	1	1	2	1	0	0	2	2	3	2	2	3	0	3	1	3	0	5	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	226551746	A	G	226551746	3	3	124	1	0	0	0	0	1	0	0	0	11454	333	12	3	376	3	PARP1	1	226551746	Missense_Mutation	SNP	A	TCGA-B0-5104-01A-01D-1421-08	24771999	226551746	22698875	4	7087											
LCLAT1	253558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	30785088	30785088	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagccatttcgaagacatGattgattacttttgtgatat	13	15	8	5	1	0	5	0	3	0	2	1	6	0	5	1	0	2	0	1	0	4	6	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	30785088	G	A	30785088	3	1	124	1	0	0	0	0	1	0	0	0	8677	1290	45	2	569	2	LCLAT1	2	30785088	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08		30785088	212414285	5	7088											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32673959	32673959	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tataacagcagcattggtgtCcagtcagatgaaattgattt	13	13	9	6	0	1	3	1	2	0	1	2	3	2	3	1	1	3	2	1	1	3	5	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	32673959	C	A	32673959	2	1	124	1	0	0	0	0	0	0	0	1	1438	842	30	4		4	BIRC6	2	32673959	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08	1888871	32673959	210525414	6	7089											
LBX2	85474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74725150	74725150	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctggagcgccttcgggCagtgctaagctgcacaggac	8	7	15	11	2	1	0	0	0	1	0	2	3	1	3	1	4	4	4	1	4	1	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	74725150	C	T	74725150	2	4	124	1	0	0	0	0	0	0	0	1	8654	697	25	2		2	LBX2	2	74725150	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08	42051191	74725150	168474223	7	7090											
DARS	1615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	136678172	136678172	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcttccgctctgaatacTgtgaagttaataaaagaaat	15	12	8	6	1	2	3	0	2	2	1	3	4	3	3	1	0	1	2	1	0	7	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		C	136678172	T	C	136678172	5	2	124	1	0	0	0	0	0	0	1	0	4241	1594	55	3	723	3	DARS	2	136678172	Splice_Site	SNP	T	TCGA-B0-5104-01A-01D-1421-08	61953022	136678172	106521201	8	7091											
FSIP2	401024	broad.mit.edu;hgsc.bcm.edu	37	chr2	186669998	186669998	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaattctctgataagggAatttaagaaaagtgatatta	17	13	8	3	0	1	3	0	2	1	1	2	4	1	4	0	1	1	1	0	1	8	6	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	186669998	A	T	186669998	3	4	124	1	0	0	0	0	1	0	0	0	6075	246	9	5	16298	5	FSIP2	2	186669998	Missense_Mutation	SNP	A	TCGA-B0-5104-01A-01D-1421-08	49991826	186669998	56529375	9	7092											
ABCA12	26154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215818763	215818763	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagaaagttcaatcaaaccGtagccaaaacagaattgtgg	17	8	9	7	1	2	2	2	1	0	2	2	3	2	2	2	1	3	2	2	1	7	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	215818763	G	A	215818763	2	1	124	1	0	0	0	0	0	0	0	1	30	1140	40	1		1	ABCA12	2	215818763	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08	29148765	215818763	27380610	10	7093											
IRS1	3667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	227660084	227660084	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccgccaccgccccctactGctgcccccgctccaaagggc	6	5	8	22	3	0	0	0	0	0	0	1	0	1	0	8	1	4	2	8	1	3	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	227660084	G	A	227660084	3	1	124	1	0	0	0	0	1	0	0	0	7840	1319	46	2	361	2	IRS1	2	227660084	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	11841321	227660084	15539289	11	7094											
ALPP	250	broad.mit.edu	37	chr2	233246013	233246013	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctacacggtcctcctataCggaaacggtccaggctatgt	9	9	10	13	3	0	0	0	0	0	0	3	1	3	1	4	4	3	1	4	4	5	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	233246013	A	A	233246013	4	1	124	1	0	0	0	0	0	1	0	0	548	547	19	4	1283	4	ALPP	2	233246013	Nonsense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	5585929	233246013	9953360	12	7095											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52637692	52637694	+	In_Frame_Del	DEL	ATT	ATT	-																															ttttgcagagttcatcacgaAttttaataaaaaactgctga																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	ATT	ATT	ATT	-	ATT	ATT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		-	52637694	ATT	-	52637692	7	5	124	1	0	1	0	1	0	0	0	0	11491	101	4	0	2332	0	PBRM1	3	52637692	In_Frame_Del	DEL	ATT	TCGA-B0-5104-01A-01D-1421-08		52637692	145384738	13	7096											
PDE12	201626	hgsc.bcm.edu;ucsc.edu	37	chr3	57542938	57542938	+	Frame_Shift_Del	DEL	A	A	-																															aggctgggcctggcacctgcActtttgaccaccggcatctc																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		-	57542938	A	-	57542938	7	5	124	1	0	1	0	1	0	0	0	0	11632	159	6	0	834	0	PDE12	3	57542938	Frame_Shift_Del	DEL	A	TCGA-B0-5104-01A-01D-1421-08	4905246	57542938	140479492	14	7097	94	2									
PDE12	201626	hgsc.bcm.edu	37	chr3	57542940	57542940	+	Silent	SNP	T	T	C																															gctgggcctggcacctgcacTtttgaccaccggcatctcta																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		C	57542940	T	C	57542940	2	2	124	1	0	0	0	0	0	0	0	1	11632	1596	56	3		3	PDE12	3	57542940	Silent	SNP	T	TCGA-B0-5104-01A-01D-1421-08	2	57542940	140479490	15	7098	94	2									
HSD17B11	51170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	88303419	88303419	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttcaccttctttgcagaGctgtaaatatcttctcggtt	8	17	6	10	1	4	1	1	0	3	1	5	1	4	1	1	1	2	4	1	1	3	7	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	88303419	G	A	88303419	2	1	124	1	0	0	0	0	0	0	0	1	7380	962	34	2		2	HSD17B11	4	88303419	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08		88303419	102850857	16	7099											
EXOSC9	5393	hgsc.bcm.edu;ucsc.edu	37	chr4	122731151	122731151	+	Frame_Shift_Del	DEL	G	G	-																															attggtggatcccaatgaacGagaagaacgtgtgatggatg																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		-	122731151	G	-	122731151	7	5	124	1	0	1	0	1	0	0	0	0	5321	1058	37	0	661	0	EXOSC9	4	122731151	Frame_Shift_Del	DEL	G	TCGA-B0-5104-01A-01D-1421-08	34427732	122731151	68423125	17	7100											
RAPGEF2	9693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	160264133	160264133	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctttttctcctctcagtgGcctaaacctggcaccagtgg	6	14	8	13	0	3	0	1	0	3	0	5	0	3	0	4	3	1	1	4	3	2	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		C	160264133	G	C	160264133	3	2	124	1	0	0	0	0	1	0	0	0	13046	1203	42	4	2496	4	RAPGEF2	4	160264133	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	37532982	160264133	30890143	18	7101											
CARD6	84674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	40852478	40852478	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattcaatcctcagtcacaaGgttctggatgaagatagcaa	14	10	9	8	0	4	2	3	1	1	1	5	4	5	3	1	2	1	2	1	2	5	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	40852478	G	A	40852478	2	1	124	1	0	0	0	0	0	0	0	1	2650	991	35	2		2	CARD6	5	40852478	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08		40852478	140062782	19	7102											
GRIA1	2890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153077687	153077687	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataattcaagtgttcagaaCagaacatacatcgtcacaac	17	9	6	9	1	3	2	3	0	0	2	4	3	3	2	0	0	4	1	0	0	6	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	153077687	C	A	153077687	3	1	124	1	0	0	0	0	1	0	0	0	6767	477	17	4	1252	4	GRIA1	5	153077687	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	112225209	153077687	27837573	20	7103											
C6orf57	135154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	71289120	71289120	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatctccactcttctaggatCaccccttctgtgtcattctc	6	16	4	15	0	7	0	2	0	5	0	9	1	7	1	3	1	0	0	3	1	2	5	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	71289120	C	T	71289120	3	4	124	1	0	0	0	0	1	0	0	0	2366	838	29	2	74	2	C6orf57	6	71289120	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08		71289120	99825947	21	7104											
EIF2AK1	27102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6094303	6094303	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctgttgtaggggttcttTtaacacctggatttctgctg	5	17	12	7	0	2	0	0	0	2	0	2	1	2	1	1	4	2	5	1	4	2	6	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		C	6094303	T	C	6094303	3	2	124	1	0	0	0	0	1	0	0	0	4996	1850	64	3	1797	3	EIF2AK1	7	6094303	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08		6094303	153044360	22	7105											
HDAC9	9734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	18688092	18688092	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtattttttttttcaggtgGagttcccttacatcctcagt	6	20	7	8	0	2	0	2	0	0	0	4	1	4	1	2	2	1	2	2	2	2	8	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	18688092	G	T	18688092	3	4	124	1	0	0	0	0	1	0	0	0	7014	1174	41	4	1291	4	HDAC9	7	18688092	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	12593789	18688092	140450571	23	7106											
ZKSCAN1	7586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99631582	99631582	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatcagagaattcacacggGggagaaaccctatgaatgta	15	7	11	8	1	2	3	2	1	0	2	2	5	2	3	1	2	1	2	1	2	5	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	99631582	G	T	99631582	3	4	124	1	0	0	0	0	1	0	0	0	17685	1232	43	4	1472	4	ZKSCAN1	7	99631582	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	80943490	99631582	59507081	24	7107											
CSGALNACT1	55790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	19297429	19297429	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggactctcccatcctgctCaatgcacatctccctggaaa	10	10	6	15	0	3	0	1	0	2	0	6	2	4	2	3	2	2	2	3	2	2	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	19297429	C	A	19297429	4	1	124	1	0	0	0	0	0	1	0	0	3938	835	29	4	753	4	CSGALNACT1	8	19297429	Nonsense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08		19297429	127066593	25	7108											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113358405	113358405	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacccaggactgaggatCacaccactgaagtctgacat	14	6	10	11	0	2	3	1	3	1	0	2	6	2	6	2	3	1	0	2	3	2	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	113358405	C	A	113358405	2	1	124	1	0	0	0	0	0	0	0	1	3946	813	29	4		4	CSMD3	8	113358405	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08	94060976	113358405	33005617	26	7109											
ZC3H3	23144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144620458	144620458	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtggctggcttcctgggcTtgggctctgggtcagctatg	3	12	16	10	1	2	0	1	0	1	0	3	0	3	0	1	5	1	5	1	5	1	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	144620458	T	G	144620458	3	3	124	1	0	0	0	0	1	0	0	0	17568	1609	56	5	1811	5	ZC3H3	8	144620458	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08	31262053	144620458	1743564	27	7110											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	16911671	16911671	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacatcttccagccttttgCtgtctgaaatgaatctgtct	9	15	7	10	0	4	3	0	2	4	1	5	3	5	3	2	0	2	1	2	0	2	3	rs148491916	alternate_allele	TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	16911671	C	G	16911671	3	3	124	1	0	0	0	0	1	0	0	0	4051	797	28	4	1489	4	CUBN	10	16911671	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08		16911671	118623076	28	7111											
BMS1	9790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	43292488	43292488	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatctgaagaaagctcctCactcagtgcagaggaagaag	15	7	11	8	0	3	5	2	2	1	3	4	6	4	6	1	1	2	2	1	1	5	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	43292488	C	T	43292488	3	4	124	1	0	0	0	0	1	0	0	0	1472	838	29	2	1830	2	BMS1	10	43292488	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	26380817	43292488	92242259	29	7112											
ERCC6	2074	hgsc.bcm.edu;ucsc.edu	37	chr10	50732227	50732227	+	Frame_Shift_Del	DEL	C	C	-																															atcaatctcctgcactggcaCtttcttctgccgtttcccgc																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		-	50732227	C	-	50732227	7	5	124	1	0	1	0	1	0	0	0	0	5217	565	20	0	3300	0	ERCC6	10	50732227	Frame_Shift_Del	DEL	C	TCGA-B0-5104-01A-01D-1421-08	7439739	50732227	84802520	30	7113	95	2									
ERCC6	2074	hgsc.bcm.edu	37	chr10	50732231	50732231	+	Silent	SNP	C	C	T																															atctcctgcactggcactttCttctgccgtttcccgccctt																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	50732231	C	T	50732231	2	4	124	1	0	0	0	0	0	0	0	1	5217	912	32	2		2	ERCC6	10	50732231	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08	4	50732231	84802516	31	7114	95	2									
NRAP	4892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115356916	115356916	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccactgtggtgaacttgaTactgtctggttttttacggt	8	16	10	7	1	1	2	0	2	1	0	1	2	1	2	1	3	4	1	1	3	4	5	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	115356916	T	G	115356916	3	3	124	1	0	0	0	0	1	0	0	0	10638	1406	49	5	856	5	NRAP	10	115356916	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08	64624685	115356916	20177831	32	7115											
ZNF215	7762	broad.mit.edu;ucsc.edu	37	chr11	6977426	6977426	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacacaggagagaaaccCtataaatgcagtgaatgtgg	16	8	10	7	0	1	2	1	1	0	1	1	4	1	3	1	2	2	1	1	2	5	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	6977426	A	A	6977426	2	1	124	1	0	0	0	0	0	0	0	1	17770	668	24	4		4	ZNF215	11	6977426	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08		6977426	128029090	33	7116											
C11orf30	56946	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	76256949	76256949	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcagttctgtgcctaagCtgacatcaccagttacaagc	10	10	10	11	0	2	1	1	1	1	0	2	1	2	1	2	1	4	4	2	1	3	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	76256949	C	G	76256949	3	3	124	1	0	0	0	0	1	0	0	0	1636	796	28	4	3456	4	C11orf30	11	76256949	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	69279523	76256949	58749567	34	7117											
DLAT	1737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111915861	111915861	+	Splice_Site	SNP	G	G	A																															gctttttctttcctcccataGgctccggcagctgttgtgcc																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	111915861	G	A	111915861	5	1	124	1	0	0	0	0	0	0	1	0	4549	1014	35	2	1231	2	DLAT	11	111915861	Splice_Site	SNP	G	TCGA-B0-5104-01A-01D-1421-08	35658912	111915861	23090655	35	7118	96	2									
DLAT	1737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111915865	111915865	+	Missense_Mutation	SNP	C	C	G																															tttctttcctcccataggctCcggcagctgttgtgcctccc																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	111915865	C	G	111915865	3	3	124	1	0	0	0	0	1	0	0	0	4549	855	30	4	1235	4	DLAT	11	111915865	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	4	111915865	23090651	36	7119	96	2									
VWF	7450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6127762	6127762	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagaggcaggatttccggTgaccatgtagaccaggttgg	10	9	14	8	1	1	3	1	1	0	2	2	4	2	4	3	5	0	3	3	5	1	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		C	6127762	T	C	6127762	3	2	124	1	0	0	0	0	1	0	0	0	17245	1696	59	3	3719	3	VWF	12	6127762	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08		6127762	127724133	37	7120											
ADAMTS20	80070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	43771275	43771275	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcttgataaactataggccGaagtcgatggagcttatgtt	11	14	10	6	2	1	1	0	1	1	0	2	4	1	2	1	2	2	2	1	2	6	7	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	43771275	G	A	43771275	3	1	124	1	0	0	0	0	1	0	0	0	266	1057	37	1	875	1	ADAMTS20	12	43771275	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	37643513	43771275	90080620	38	7121											
RND1	27289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49251928	49251928	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcagacacagcatggAtgccgtccgaaagatgctgt	10	10	11	10	2	1	2	1	0	0	2	2	4	2	3	2	1	3	3	2	1	1	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	49251928	A	T	49251928	3	4	124	1	0	0	0	0	1	0	0	0	13421	333	12	5	152	5	RND1	12	49251928	Missense_Mutation	SNP	A	TCGA-B0-5104-01A-01D-1421-08	5480653	49251928	84599967	39	7122											
SCYL2	55681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100704845	100704845	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgaaggattgtcattcttGcatagcagtgtgaaaatggt	11	14	11	5	0	3	2	1	2	2	0	3	3	3	3	0	2	2	2	0	2	4	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	100704845	G	A	100704845	2	1	124	1	0	0	0	0	0	0	0	1	13950	1310	46	2		2	SCYL2	12	100704845	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08	51452917	100704845	33147050	40	7123											
SDSL	113675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113865886	113865886	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggtggcgggcatgccTgtcttcctcaagtgtgagaa	7	10	13	11	1	2	1	1	1	1	1	4	2	4	1	3	3	1	1	3	3	2	1	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	113865886	T	A	113865886	2	1	124	1	0	0	0	0	0	0	0	1	13978	1567	55	5		5	SDSL	12	113865886	Silent	SNP	T	TCGA-B0-5104-01A-01D-1421-08	13161041	113865886	19986009	41	7124											
RNASE11	122651	hgsc.bcm.edu;ucsc.edu	37	chr14	21052170	21052170	+	Frame_Shift_Del	DEL	T	T	-																															tagtgaactggcacactgtaTtttccagttctaggctctca																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		-	21052170	T	-	21052170	7	5	124	1	0	1	0	1	0	0	0	0	13403	1493	52	0	139	0	RNASE11	14	21052170	Frame_Shift_Del	DEL	T	TCGA-B0-5104-01A-01D-1421-08		21052170	86297370	42	7125											
DHRS4	10901	broad.mit.edu;hgsc.bcm.edu	37	chr14	24424292	24424292	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggacggggcccatgtGgtcgtcagcagccggaagca	8	4	16	13	3	1	0	1	0	0	0	2	2	1	2	3	5	3	2	3	5	1	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	24424292	G	T	24424292	2	4	124	1	0	0	0	0	0	0	0	1	4492	1335	47	4		4	DHRS4	14	24424292	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08	3372122	24424292	82925248	43	7126											
DACT1	51339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59112841	59112841	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgccccgccgcaggagaaCaaagttgtacagcccctgaa	11	5	10	15	2	0	2	0	1	0	1	0	3	0	2	6	1	4	3	6	1	4	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	59112841	C	T	59112841	2	4	124	1	0	0	0	0	0	0	0	1	4222	477	17	2		2	DACT1	14	59112841	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08	34688549	59112841	48236699	44	7127											
PSMC1	5700	broad.mit.edu	37	chr14	90730104	90730104	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccatcgtgtctacatcTgtgggctcagaacactacgt	9	11	9	12	2	3	1	1	0	2	1	4	1	3	1	1	1	4	1	1	1	3	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	90730104	G	G	90730104	2	3	124	1	0	0	0	0	0	0	0	1	12687	1567	55	5		5	PSMC1	14	90730104	Silent	SNP	T	TCGA-B0-5104-01A-01D-1421-08	31617263	90730104	16619436	45	7128											
TGM5	9333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43525807	43525807	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttccacagtcagcacacagtCctcaacctgctccgagaggg	10	7	9	15	1	2	1	2	0	0	1	5	2	5	1	4	1	3	2	4	1	1	1	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	43525807	C	G	43525807	3	3	124	1	0	0	0	0	1	0	0	0	15832	855	30	4	216	4	TGM5	15	43525807	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08		43525807	59005585	46	7129											
CGNL1	84952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57816796	57816796	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagatggcagacattgttgaGgcctcccgtacctcaaccct	9	10	9	13	1	1	3	1	1	0	2	2	3	2	3	4	2	2	3	4	2	3	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	57816796	G	T	57816796	3	4	124	1	0	0	0	0	1	0	0	0	3304	991	35	4	2928	4	CGNL1	15	57816796	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	14290989	57816796	44714596	47	7130											
ADAM10	102	broad.mit.edu;ucsc.edu	37	chr15	58938360	58938360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagttgtacgttttttcCtcagaagttctggaccatta	9	16	8	8	1	2	2	1	1	1	1	3	3	3	3	2	1	1	4	2	1	4	7	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	58938360	T	T	58938360	3	4	124	1	0	0	0	0	1	0	0	0	234	681	24	2	1661	2	ADAM10	15	58938360	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	1121564	58938360	43593032	48	7131											
CCNB2	9133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59409521	59409521	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatccttctaaggtagcagCagctgcttcctgcttgtctc	6	14	8	13	0	3	0	1	0	2	0	6	0	5	0	2	1	5	6	2	1	2	5	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	59409521	C	T	59409521	3	4	124	1	0	0	0	0	1	0	0	0	2913	710	25	2	955	2	CCNB2	15	59409521	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	471161	59409521	43121871	49	7132											
UBN1	29855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4924865	4924865	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcagaaaaacttcacGcccccatctccatttgccaa	13	7	5	16	1	2	1	1	0	1	1	3	1	2	1	4	0	4	2	4	0	3	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	4924865	G	A	4924865	2	1	124	1	0	0	0	0	0	0	0	1	16891	1074	38	1		1	UBN1	16	4924865	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08		4924865	85429888	50	7133											
SH2B1	25970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28878735	28878735	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagatgcctgaccgggaGaacacgtttgtggttaaggt	9	10	15	7	2	0	3	0	1	0	2	0	5	0	3	2	4	2	2	2	4	2	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	28878735	G	T	28878735	3	4	124	1	0	0	0	0	1	0	0	0	14229	933	33	4	1029	4	SH2B1	16	28878735	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	23953870	28878735	61476018	51	7134											
CIAPIN1	57019	hgsc.bcm.edu	37	chr16	57468040	57468041	+	Frame_Shift_Ins	INS	-	-	TACA																															ggttttttgcctgtgatctgINSaacaaacagcaggttgtcac																								novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		TACA	57468041	-	TACA	57468040	7	5	124	1	0	1	1	0	0	0	0	0	3419	1299	45	0	486	0	CIAPIN1	16	57468040	Frame_Shift_Ins	INS	-	TCGA-B0-5104-01A-01D-1421-08	28589305	57468040	32886713	52	7135											
MYH13	8735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10225010	10225010	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagtgctgtcatttcttCggaaagattctttacctggg	8	16	9	8	1	4	1	2	0	2	1	5	2	4	2	1	2	2	1	1	2	3	6	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	10225010	C	A	10225010	4	1	124	1	0	0	0	0	0	1	0	0	10032	893	31	4	2938	4	MYH13	17	10225010	Nonsense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08		10225010	70970200	53	7136											
MMP28	79148	broad.mit.edu	37	chr17	34093633	34093633	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcgaggcgccagtagcgGtcatctcggaagaagatgat	10	8	15	8	4	2	3	1	1	1	2	4	5	2	4	1	4	1	1	1	4	3	1	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	34093633	A	A	34093633	2	1	124	1	0	0	0	0	0	0	0	1	9665	1252	44	2		2	MMP28	17	34093633	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08	23868623	34093633	47101577	54	7137											
G6PC	2538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41052960	41052960	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacattacctccaggtgaatTaccaagactcccaggactgg	12	8	8	13	0	0	2	0	1	0	1	2	3	2	3	4	3	2	0	4	3	4	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	41052960	T	A	41052960	3	1	124	1	0	0	0	0	1	0	0	0	6143	1754	61	5	69	5	G6PC	17	41052960	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08	6959327	41052960	40142250	55	7138											
PPM1E	22843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57058007	57058007	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctggagagtttcccaCtgctttcaatttgggttcaa	7	15	11	8	0	2	1	2	0	0	1	3	2	3	1	1	3	2	4	1	3	2	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	57058007	C	T	57058007	3	4	124	1	0	0	0	0	1	0	0	0	12340	565	20	2	1909	2	PPM1E	17	57058007	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	16005047	57058007	24137203	56	7139											
RAB37	326624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72739479	72739479	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttctttcgacaacatcagGgtaggtcctcccttcccctg	6	13	7	15	1	3	0	1	0	2	0	7	1	6	0	4	2	1	1	4	2	2	4	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	72739479	G	T	72739479	3	4	124	1	0	0	0	0	1	0	0	0	12929	1246	43	4	687	4	RAB37	17	72739479	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08	15681472	72739479	8455731	57	7140											
TSEN54	283989	broad.mit.edu	37	chr17	73518055	73518055	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtaagcggcgctggaactTcgagcagatctccttcccca	8	8	11	14	4	1	1	0	0	1	1	4	3	2	2	3	3	3	3	3	3	2	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	73518055	G	G	73518055	3	3	124	1	0	0	0	0	1	0	0	0	16613	1783	62	5	923	5	TSEN54	17	73518055	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08	778576	73518055	7677155	58	7141											
DSG3	1830	broad.mit.edu;ucsc.edu	37	chr18	29046612	29046612	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttcaccttccgtggttGtctccgctagaacactgaat	7	14	8	12	2	3	2	1	1	2	1	5	2	4	2	3	1	1	3	3	1	3	5	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	29046612	T	T	29046612	3	4	124	1	0	0	0	0	1	0	0	0	4778	1377	48	4	1573	4	DSG3	18	29046612	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08		29046612	49030636	59	7142											
GIPC3	126326	broad.mit.edu;hgsc.bcm.edu	37	chr19	3586520	3586520	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaccctcaacagccacAaagtggacatgcagaagctc	13	6	8	14	0	2	1	1	0	1	1	3	2	2	2	2	1	5	3	2	1	3	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	3586520	A	T	3586520	4	4	124	1	0	0	0	0	0	1	0	0	6394	131	5	5	259	5	GIPC3	19	3586520	Nonsense_Mutation	SNP	A	TCGA-B0-5104-01A-01D-1421-08		3586520	55542463	60	7143											
TYK2	7297	broad.mit.edu;hgsc.bcm.edu	37	chr19	10475698	10475698	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaaacaggctggcttggggGttcctgccactgctgccact	6	9	12	14	0	0	0	0	0	0	0	1	0	1	0	4	4	4	4	4	4	1	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	10475698	G	A	10475698	2	1	124	1	0	0	0	0	0	0	0	1	16809	1252	44	2		2	TYK2	19	10475698	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08	6889178	10475698	48653285	61	7144											
XRN2	22803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	21336744	21336744	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacagccttggaggtgatGtcttatttgtggggaaacat	11	12	13	5	0	1	1	0	1	1	0	1	4	1	3	1	4	3	0	1	4	3	3	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		C	21336744	G	C	21336744	3	2	124	1	0	0	0	0	1	0	0	0	17459	1377	48	4	2133	4	XRN2	20	21336744	Missense_Mutation	SNP	G	TCGA-B0-5104-01A-01D-1421-08		21336744	41688776	62	7145											
TFAP2C	7022	broad.mit.edu	37	chr20	55206674	55206674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctgccccacgcacaCgccctggatgccgcgggcct	4	6	12	19	4	0	0	0	0	0	0	0	1	0	1	5	2	4	3	5	2	0	0	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	55206674	A	A	55206674	3	1	124	1	0	0	0	0	1	0	0	0	15788	535	19	4	468	4	TFAP2C	20	55206674	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08	33869930	55206674	7818846	63	7146											
SLC17A9	63910	broad.mit.edu	37	chr20	61594983	61594983	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgctccttcttcatccTcctctcctggctgcccacct	3	13	5	20	0	3	0	1	0	2	0	7	0	6	0	7	1	3	2	7	1	0	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	61594983	A	A	61594983	3	1	124	1	0	0	0	0	1	0	0	0	14426	1551	54	5	799	5	SLC17A9	20	61594983	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01D-1421-08	6388309	61594983	1430537	64	7147											
KCNJ15	3772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	39671523	39671523	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatcatgaaagtggactctCtcactggggcgtttctcttt	7	14	10	10	1	4	1	2	1	2	0	6	2	4	2	0	3	0	2	0	3	1	2	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		G	39671523	C	G	39671523	3	3	124	1	0	0	0	0	1	0	0	0	8049	913	32	4	342	4	KCNJ15	21	39671523	Missense_Mutation	SNP	C	TCGA-B0-5104-01A-01D-1421-08		39671523	8458372	65	7148											
SLC16A8	23539	broad.mit.edu;hgsc.bcm.edu	37	chr22	38476983	38476983	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccaccatgccgtaggagagGccgaaggcgacgcagaaggc	11	2	15	13	4	0	2	0	0	0	2	0	5	0	2	4	4	1	2	4	4	3	1	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		A	38476983	G	A	38476983	2	1	124	1	0	0	0	0	0	0	0	1	14416	1190	42	2		2	SLC16A8	22	38476983	Silent	SNP	G	TCGA-B0-5104-01A-01D-1421-08		38476983	12827583	66	7149											
OPHN1	4983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	67273543	67273543	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctggctttggttctggCttttggggagtagctgcccg	4	15	14	8	1	2	0	0	0	2	0	2	1	2	1	1	5	2	5	1	5	2	6	novel		TCGA-B0-5104-01A-01D-1421-08	TCGA-B0-5104-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c93a5a8-8c37-4295-b566-cb15edd464a4	d7121c44-3327-411d-a772-ce8d49e3c031		T	67273543	C	T	67273543	2	4	124	1	0	0	0	0	0	0	0	1	10875	796	28	2		2	OPHN1	23	67273543	Silent	SNP	C	TCGA-B0-5104-01A-01D-1421-08		67273543	87997017	67	7150											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-B0-5104-01A-01W-1475-10	TCGA-B0-5104-11A-01W-1475-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	614ee01f-3f1c-4241-8d9c-b6dee2649f1e	1102ff69-bd41-4e6d-9b0d-9e19bd3c3dbb		A	10183797	T	A	10183797	3	1	125	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-B0-5104-01A-01W-1475-10		10183797	187838633	1	7151											
COL8A2	1296	hgsc.bcm.edu	37	chr1	36563461	36563462	+	Frame_Shift_Ins	INS	-	-	G																															aggtgaagatgccagtggctINSgggttgtagccgctgtggcc																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	36563462	-	G	36563461	7	5	126	1	0	1	1	0	0	0	0	0	3706	1567	55	0	294	0	COL8A2	1	36563461	Frame_Shift_Ins	INS	-	TCGA-B0-5106-01A-01D-1421-08		36563461	212687160	1	7152											
ZSWIM5	57643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45506168	45506168	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcttttggataaccatggGaacgcagggcgtcaactcga	10	9	11	11	3	2	0	1	0	1	0	3	3	2	2	2	3	3	1	2	3	3	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	45506168	G	T	45506168	3	4	126	1	0	0	0	0	1	0	0	0	18243	1174	41	4	1937	4	ZSWIM5	1	45506168	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	8942707	45506168	203744453	2	7153											
GLIS1	148979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53972295	53972295	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcatgtgggggctccttcaGgtgtctgtgtagatggaggg	5	11	18	7	1	2	1	1	0	1	1	3	2	3	2	1	5	0	3	1	5	1	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	53972295	G	T	53972295	2	4	126	1	0	0	0	0	0	0	0	1	6445	987	35	4		4	GLIS1	1	53972295	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08	8466127	53972295	195278326	3	7154											
LPPR4	9890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	99771417	99771417	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctcaaccgaaaccacagAgatgctagctctctgacaaa	15	7	6	13	1	2	2	1	1	1	1	4	4	3	2	3	0	4	2	3	0	4	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	99771417	A	T	99771417	3	4	126	1	0	0	0	0	1	0	0	0	8927	301	11	5	1169	5	LPPR4	1	99771417	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	45799122	99771417	149479204	4	7155											
CDC14A	8556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100928332	100928332	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacgctggcttcgagcacTatgacctcttcttcatagat	9	12	8	12	2	3	3	1	1	2	2	4	4	3	3	1	1	1	3	1	1	2	5	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	100928332	T	C	100928332	3	2	126	1	0	0	0	0	1	0	0	0	3056	1522	53	3	767	3	CDC14A	1	100928332	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	1156915	100928332	148322289	5	7156											
HBXIP	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110948984	110948984	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgcacaggactccaacaAtggagggattcttcattcta	11	11	9	10	0	3	0	1	0	2	0	4	3	4	3	1	3	2	1	1	3	3	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	110948984	A	G	110948984	3	3	126	1	0	0	0	0	1	0	0	0	6988	101	4	3	234	3	HBXIP	1	110948984	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	10020652	110948984	138301637	6	7157											
GON4L	54856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155730387	155730387	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattcatagatgacttgaaGgaagtcttcatacttgccag	14	12	8	7	0	3	3	2	2	1	1	3	4	3	4	1	1	2	0	1	1	5	6	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	155730387	G	T	155730387	3	4	126	1	0	0	0	0	1	0	0	0	6572	1000	35	4	1801	4	GON4L	1	155730387	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	44781403	155730387	93520234	7	7158											
C1orf129	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	170965678	170965678	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccctgagagttctgctGaattgttctggactgcaaca	9	12	11	9	0	2	2	0	2	2	1	2	5	2	3	1	1	4	4	1	1	2	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	170965678	G	T	170965678	2	4	126	1	0	0	0	0	0	0	0	1	1996	1277	45	4		4	C1orf129	1	170965678	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08	15235291	170965678	78284943	8	7159											
EPT1	85465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	26587787	26587787	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgctaatggcatactttGatcctgacttttatgcctca	8	17	6	10	0	2	2	1	2	1	0	3	2	3	2	2	1	3	2	2	1	3	6	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	26587787	G	A	26587787	3	1	126	1	0	0	0	0	1	0	0	0	5199	1290	45	2	224	2	EPT1	2	26587787	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08		26587787	216611586	9	7160											
SPTBN1	6711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	54891784	54891784	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggaaggcttcctcaaTcggaaacacgagtgggaggc	12	6	14	9	2	1	1	1	0	0	1	3	5	2	4	1	5	1	1	1	5	3	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	54891784	T	A	54891784	3	1	126	1	0	0	0	0	1	0	0	0	15120	1432	50	5	6941	5	SPTBN1	2	54891784	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	28303997	54891784	188307589	10	7161											
ANKRD39	51239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97514102	97514102	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcacatgctagccgtgccTttcggtcccggatggccttc	4	11	12	14	3	1	0	1	0	0	0	4	1	2	1	4	4	3	1	4	4	1	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	97514102	T	C	97514102	3	2	126	1	0	0	0	0	1	0	0	0	668	1609	56	3	67	3	ANKRD39	2	97514102	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	42622318	97514102	145685271	11	7162											
POTEE	445582	broad.mit.edu	37	chr2	131995769	131995769	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtttttgcctctgcagaaAatgtctcaagaactagaaat	13	13	7	8	0	2	3	1	0	2	3	3	3	2	3	1	0	3	2	1	0	6	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	131995769	C	C	131995769	3	2	126	1	0	0	0	0	1	0	0	0	12264	11	1	5	1230	5	POTEE	2	131995769	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	34481667	131995769	111203604	12	7163											
PLCD4	84812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219498885	219498885	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgtgtatcccagcggccTgaggacagactcttccaact	8	9	10	14	2	1	2	0	1	1	1	3	3	3	3	4	2	2	1	4	2	2	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	219498885	T	C	219498885	3	2	126	1	0	0	0	0	1	0	0	0	12033	1580	55	3	1706	3	PLCD4	2	219498885	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	87503116	219498885	23700488	13	7164											
ALPI	248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	233321772	233321772	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catctccgtgatgaaccgggCcaagcaagcaggtgagctgg	10	6	14	11	2	1	3	0	3	1	0	2	3	1	3	3	3	4	3	3	3	3	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	233321772	C	A	233321772	3	1	126	1	0	0	0	0	1	0	0	0	543	739	26	4	478	4	ALPI	2	233321772	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	13822887	233321772	9877601	14	7165											
UGT1A8	54576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234526875	234526875	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcgccaggggaatagcttgCcactatcttgaagaaggtgc	10	10	12	9	1	1	2	0	1	1	1	2	3	1	3	2	3	3	1	2	3	5	5	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	234526875	C	A	234526875	4	1	126	1	0	0	0	0	0	1	0	0	16950	747	26	4	524	4	UGT1A8	2	234526875	Nonsense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	1205103	234526875	8672498	15	7166											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183867	10183867	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccgccgcatccacagctaCcgaggtacgggcccggcgct	6	4	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	4	5	4	2	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454;Illumina Miseq;PacBio			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	10183867	C	A	10183867	4	1	126	1	0	0	0	0	0	1	0	0	17161	518	18	4	338	4	VHL	3	10183867	Nonsense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08		10183867	187838563	16	7167											
NUP210	23225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	13429823	13429823	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtagacagcctcctggaTgcgagccttgagcttggagc	7	10	13	11	1	0	2	0	1	0	1	1	5	1	4	3	2	5	2	3	2	1	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	13429823	T	A	13429823	3	1	126	1	0	0	0	0	1	0	0	0	10760	1464	51	5	5143	5	NUP210	3	13429823	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	3245956	13429823	184592607	17	7168											
XIRP1	165904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	39225988	39225988	+	Missense_Mutation	SNP	G	G	A																															gagggcacaaatactctcttGatgtctcctgcctcctggtg																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	39225988	G	A	39225988	3	1	126	1	0	0	0	0	1	0	0	0	17428	1294	45	2	586	2	XIRP1	3	39225988	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	25796165	39225988	158796442	18	7169	97	2									
XIRP1	165904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	39225989	39225989	+	Missense_Mutation	SNP	A	A	T																															agggcacaaatactctcttgAtgtctcctgcctcctggtgg																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	39225989	A	T	39225989	3	4	126	1	0	0	0	0	1	0	0	0	17428	333	12	5	587	5	XIRP1	3	39225989	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	1	39225989	158796441	19	7170	97	2									
HTT	3064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	3138012	3138012	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccatttgcttggagatgaAgaccccagggtgcgacatgt	10	10	12	9	1	0	3	0	1	0	2	1	5	1	3	3	2	2	1	3	2	1	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	3138012	A	G	3138012	2	3	126	1	0	0	0	0	0	0	0	1	7457	69	3	3		3	HTT	4	3138012	Silent	SNP	A	TCGA-B0-5106-01A-01D-1421-08		3138012	188016264	20	7171											
DHX15	1665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	24541862	24541862	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaattcagtcagatctccaTcatcatttaaagcagccagg	13	10	6	12	0	5	1	4	0	1	1	6	1	5	1	3	1	2	1	3	1	3	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	24541862	T	A	24541862	3	1	126	1	0	0	0	0	1	0	0	0	4501	1435	50	5	752	5	DHX15	4	24541862	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	21403850	24541862	166612414	21	7172											
NPFFR2	10886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	73013490	73013490	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaacaggaattagtgatGgaagaattaaaagaaactac	19	7	8	7	0	0	3	0	1	0	2	0	5	0	5	2	2	3	0	2	2	9	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	73013490	G	A	73013490	3	1	126	1	0	0	0	0	1	0	0	0	10578	1348	47	2	1550	2	NPFFR2	4	73013490	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	48471628	73013490	118140786	22	7173											
TACR3	6870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	104510994	104510994	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtggtgtctgcatcgttggGgtcaaacacgactgtcatgg	7	11	15	8	2	3	0	2	0	1	0	4	1	3	0	0	5	2	2	0	5	1	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	104510994	G	C	104510994	3	2	126	1	0	0	0	0	1	0	0	0	15506	1232	43	4	158	4	TACR3	4	104510994	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	31497504	104510994	86643282	23	7174											
PALLD	23022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	169633073	169633073	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgcttgccaaaccaaaaCtgtgagtatttctgcatggt	10	13	8	10	0	2	1	0	1	2	0	2	1	2	1	2	1	5	3	2	1	4	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	169633073	C	A	169633073	3	1	126	1	0	0	0	0	1	0	0	0	11407	579	20	4	1997	4	PALLD	4	169633073	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	65122079	169633073	21521203	24	7175											
IRX1	79192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	3599432	3599432	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attacccctacggccagttcCaatacggggaccccgggcgg	8	6	12	15	4	0	0	0	0	0	0	1	1	1	1	6	5	3	1	6	5	4	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	3599432	C	A	3599432	3	1	126	1	0	0	0	0	1	0	0	0	7843	595	21	4	376	4	IRX1	5	3599432	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08		3599432	177315828	25	7176											
PHF15	23338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	133887864	133887864	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaggtgtgcaggtgccTgccggggcagaggccatccc	8	5	17	11	1	0	2	0	0	0	2	1	3	1	2	4	5	3	2	4	5	1	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	133887864	T	C	133887864	2	2	126	1	0	0	0	0	0	0	0	1	11826	1567	55	3		3	PHF15	5	133887864	Silent	SNP	T	TCGA-B0-5106-01A-01D-1421-08	130288432	133887864	47027396	26	7177											
PCDHA5	56143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140203675	140203675	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagacctcatggccttcaGtccaagccttcctcagggtc	9	9	8	15	0	3	1	3	0	0	1	6	1	5	1	5	2	2	0	5	2	2	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	140203675	G	T	140203675	3	4	126	1	0	0	0	0	1	0	0	0	11527	1029	36	4	2317	4	PCDHA5	5	140203675	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	6315811	140203675	40711585	27	7178											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794506	140794506	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccccgctccgcagagccCggctacctggtgaccaaggt	6	5	13	17	4	0	2	0	1	0	1	1	2	1	2	6	3	2	3	6	3	2	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	140794506	T	T	140794506	2	4	126	1	0	0	0	0	0	0	0	1	11551	639	23	1		1	PCDHGA10	5	140794506	Silent	SNP	C	TCGA-B0-5106-01A-01D-1421-08	590831	140794506	40120754	28	7179											
MRPL22	29093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154330404	154330404	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacctcaatcatatatccAcacaagtgcttctcttgaca	12	14	3	12	0	3	1	2	1	1	0	5	1	4	1	2	0	2	1	2	0	5	6	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	154330404	A	T	154330404	3	4	126	1	0	0	0	0	1	0	0	0	9788	159	6	5	111	5	MRPL22	5	154330404	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	13535898	154330404	26584856	29	7180											
FLT4	2324	hgsc.bcm.edu;ucsc.edu	37	chr5	180039595	180039600	+	In_Frame_Del	DEL	TCAGCA	TCAGCA	-																															ggggtctccggaccagcagtTcagcatgatgcggcgtctgc																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	TCAGCA	TCAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	180039600	TCAGCA	-	180039595	7	5	126	1	0	1	0	1	0	0	0	0	5944	1783	62	0	671	0	FLT4	5	180039595	In_Frame_Del	DEL	TCAGCA	TCGA-B0-5106-01A-01D-1421-08	25709191	180039595	875665	30	7181											
PHACTR1	221692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	13206174	13206174	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggtgtcctacacagcccaGaagagtggccagcagggtgt	9	7	14	11	0	0	2	0	0	0	2	1	2	1	2	3	3	3	1	3	3	2	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	13206174	G	A	13206174	2	1	126	1	0	0	0	0	0	0	0	1	11809	933	33	2		2	PHACTR1	6	13206174	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08		13206174	157908893	31	7182											
SLC17A1	6568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25811911	25811911	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaattacgctgagaatatTcctggtcaggaagaagtctg	13	10	11	7	1	2	2	1	1	1	2	3	4	3	3	1	2	2	2	1	2	6	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	25811911	T	A	25811911	3	1	126	1	0	0	0	0	1	0	0	0	14418	1783	62	5	434	5	SLC17A1	6	25811911	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	12605737	25811911	145303156	32	7183											
SLC44A4	80736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31833744	31833744	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcaaaggctccagcgaGgacgcattggcccagggcca	10	3	16	12	2	0	0	0	0	0	0	1	3	1	2	3	6	1	3	3	6	1	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	31833744	G	T	31833744	3	4	126	1	0	0	0	0	1	0	0	0	14640	1000	35	4	771	4	SLC44A4	6	31833744	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	6021833	31833744	139281323	33	7184											
CUL9	23113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43170869	43170869	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtgatgccctctgccaGccgggtgatcctcttggaga	7	10	13	11	1	2	3	0	2	2	1	3	5	3	3	4	2	3	0	4	2	1	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	43170869	G	T	43170869	3	4	126	1	0	0	0	0	1	0	0	0	4061	971	34	4	3842	4	CUL9	6	43170869	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	11337125	43170869	127944198	34	7185											
TSPYL1	7259	hgsc.bcm.edu;ucsc.edu	37	chr6	116599803	116599804	+	Frame_Shift_Del	DEL	TT	TT	-																															ggatttggccacagatcctcTttaataatctcagcaatttt																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	116599804	TT	-	116599803	7	5	126	1	0	1	0	1	0	0	0	0	16658	1606	56	0	126	0	TSPYL1	6	116599803	Frame_Shift_Del	DEL	TT	TCGA-B0-5106-01A-01D-1421-08	73428934	116599803	54515264	35	7186											
STX7	8417	broad.mit.edu;hgsc.bcm.edu	37	chr6	132785212	132785212	+	Missense_Mutation	SNP	T	T	A																															ttccacattggcttctatgcTatctgtaaaataaaacacac																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	132785212	T	A	132785212	3	1	126	1	0	0	0	0	1	0	0	0	15351	1522	53	5	180	5	STX7	6	132785212	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	16185409	132785212	38329855	36	7187	98	2									
STX7	8417	broad.mit.edu;hgsc.bcm.edu	37	chr6	132785213	132785213	+	Missense_Mutation	SNP	A	A	T																															tccacattggcttctatgctAtctgtaaaataaaacacaca																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	132785213	A	T	132785213	3	4	126	1	0	0	0	0	1	0	0	0	15351	463	16	5	181	5	STX7	6	132785213	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	1	132785213	38329854	37	7188	98	2									
MAP7	9053	broad.mit.edu;hgsc.bcm.edu	37	chr6	136683700	136683700	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctgggtcggtggtgcCtgcagaagtcttaacagaag	8	10	13	10	1	2	2	0	0	2	2	4	2	3	2	2	3	3	1	2	3	3	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	136683700	C	A	136683700	3	1	126	1	0	0	0	0	1	0	0	0	9266	681	24	4	867	4	MAP7	6	136683700	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	3898487	136683700	34431367	38	7189											
UTRN	7402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	144812074	144812074	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaaacagaggaaactcCgagaggtgtccacaaagttc	14	7	10	10	1	1	2	0	0	1	2	4	4	3	3	2	2	3	2	2	2	3	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	144812074	C	G	144812074	3	3	126	1	0	0	0	0	1	0	0	0	17102	644	23	4	4395	4	UTRN	6	144812074	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	8128374	144812074	26302993	39	7190											
AKAP12	9590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	151670459	151670459	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggctggcgcaaaaagacCagtttcaggaagccgaagga	13	4	14	10	3	1	1	1	0	0	1	1	4	1	3	3	4	1	3	3	4	4	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	151670459	C	A	151670459	2	1	126	1	0	0	0	0	0	0	0	1	448	581	21	4		4	AKAP12	6	151670459	Silent	SNP	C	TCGA-B0-5106-01A-01D-1421-08	6858385	151670459	19444608	40	7191											
MRPL18	29074	broad.mit.edu	37	chr6	160218317	160218317	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatcttctcaccccatttAggttgcgagttataaggact	10	15	7	9	1	2	0	1	0	2	0	3	2	2	1	2	2	1	2	2	2	4	7	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	160218317	C	C	160218317	5	2	126	1	0	0	0	0	0	0	1	0	9783	434	15	5	248	5	MRPL18	6	160218317	Splice_Site	SNP	A	TCGA-B0-5106-01A-01D-1421-08	8547858	160218317	10896750	41	7192											
EVX1	2128	broad.mit.edu;ucsc.edu	37	chr7	27282680	27282680	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaggacatggttgtgtttCtggatgggggtcagcttggc	7	12	17	5	0	2	0	1	0	1	0	2	3	2	2	0	6	1	3	0	6	1	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	27282680	G	G	27282680	3	3	126	1	0	0	0	0	1	0	0	0	5294	912	32	4	33	4	EVX1	7	27282680	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08		27282680	131855983	42	7193											
PARP12	64761	broad.mit.edu	37	chr7	139741631	139741631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtactggctgactcagagCacaggatcctacagaagaaa	15	6	11	9	0	1	4	1	1	0	3	2	5	2	5	1	3	3	3	1	3	4	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	139741631	A	A	139741631	3	1	126	1	0	0	0	0	1	0	0	0	11457	710	25	4	1138	4	PARP12	7	139741631	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	112458951	139741631	19397032	43	7194											
GIMAP8	155038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150164190	150164190	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcattattgtcttcactcGgaaggatgatttgggggatg	9	14	12	6	1	3	1	2	1	1	0	4	4	3	4	0	4	0	0	0	4	2	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	150164190	G	A	150164190	3	1	126	1	0	0	0	0	1	0	0	0	6385	1116	39	1	406	1	GIMAP8	7	150164190	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	10422559	150164190	8974473	44	7195											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110530496	110530496	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaaggaactatacctgtTgaaattcacactgccacagt	14	11	7	9	0	1	1	1	1	0	0	1	2	1	2	2	1	3	2	2	1	6	5	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	110530496	T	A	110530496	2	1	126	1	0	0	0	0	0	0	0	1	11972	1799	63	5		5	PKHD1L1	8	110530496	Silent	SNP	T	TCGA-B0-5106-01A-01D-1421-08		110530496	35833526	45	7196											
PLEC	5339	broad.mit.edu	37	chr8	145004392	145004392	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggcggcctcgctgccggaGctgctgagcaccttccagtg	5	7	14	15	4	0	1	0	1	0	0	2	2	1	2	4	3	4	4	4	3	0	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	145004392	A	A	145004392	2	1	126	1	0	0	0	0	0	0	0	1	12052	962	34	2		2	PLEC	8	145004392	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08	34473896	145004392	1359630	46	7197											
GRHPR	9380	hgsc.bcm.edu	37	chr9	37424907	37424908	+	Frame_Shift_Ins	INS	-	-	GG																															gagctagagcgaggtgtggcINSgggggcccacggcctgctct																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		GG	37424908	-	GG	37424907	7	5	126	1	0	1	1	0	0	0	0	0	6766	768	27	0	155	0	GRHPR	9	37424907	Frame_Shift_Ins	INS	-	TCGA-B0-5106-01A-01D-1421-08		37424907	103788524	47	7198											
ZCCHC6	79670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	88960584	88960584	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggttacattcaatttacCttaatgtttttcttgtgcct	7	21	6	7	0	2	0	1	0	1	0	2	0	2	0	2	1	3	2	2	1	4	9	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	88960584	C	A	88960584	3	1	126	1	0	0	0	0	1	0	0	0	17591	695	24	4	3764	4	ZCCHC6	9	88960584	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	51535677	88960584	52252847	48	7199											
NIPSNAP3B	55335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	107528730	107528730	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttaagaaaaacattcatcTtcggacctcttactctgaat	13	14	4	10	1	5	2	1	1	4	1	6	3	5	3	1	1	2	0	1	1	5	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	107528730	T	C	107528730	3	2	126	1	0	0	0	0	1	0	0	0	10431	1609	56	3	191	3	NIPSNAP3B	9	107528730	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	18568146	107528730	33684701	49	7200											
DDX50	79009	hgsc.bcm.edu;ucsc.edu	37	chr10	70706119	70706128	+	Frame_Shift_Del	DEL	TGATTCCGAC	TGATTCCGAC	-																															ccctaacaggcagagtggcaTgattccgactggatactctc																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	TGATTCCGAC	TGATTCCGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	70706128	TGATTCCGAC	-	70706119	7	5	126	1	0	1	0	1	0	0	0	0	4368	1461	51	0	2005	0	DDX50	10	70706119	Frame_Shift_Del	DEL	TGATTCCGAC	TCGA-B0-5106-01A-01D-1421-08		70706119	64828628	50	7201											
HECTD2	143279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93220253	93220253	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atctatggatgcatcatcatCcgaaatgaaggccccagtcc	12	9	8	12	1	3	1	2	1	1	0	5	3	5	2	4	2	1	1	4	2	3	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	93220253	C	T	93220253	3	4	126	1	0	0	0	0	1	0	0	0	7040	855	30	2	348	2	HECTD2	10	93220253	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	22514134	93220253	42314494	51	7202											
NT5C2	22978	hgsc.bcm.edu;ucsc.edu	37	chr10	104934672	104934673	+	Frame_Shift_Del	DEL	AT	AT	-																															gcttatccatgttagcaggcAtatctgctgcattctgtaac																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	104934673	AT	-	104934672	7	5	126	1	0	1	0	1	0	0	0	0	10687	217	8	0	1709	0	NT5C2	10	104934672	Frame_Shift_Del	DEL	AT	TCGA-B0-5106-01A-01D-1421-08	11714419	104934672	30600075	52	7203											
MUC5B	727897	broad.mit.edu;hgsc.bcm.edu	37	chr11	1264224	1264224	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaccggctctgtggccacCccctcctccaccccaggaac	6	5	8	22	1	1	0	0	0	1	0	3	1	3	1	9	3	1	1	9	3	1	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	1264224	C	A	1264224	2	1	126	1	0	0	0	0	0	0	0	1	9979	610	22	4		4	MUC5B	11	1264224	Silent	SNP	C	TCGA-B0-5106-01A-01D-1421-08		1264224	133742292	53	7204											
SLC3A2	6520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62650443	62650443	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcgtggttctccactcAggttgacactgtggccacca	8	10	10	13	1	2	1	1	1	1	0	4	2	2	1	3	3	1	2	3	3	1	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	62650443	A	G	62650443	3	3	126	1	0	0	0	0	1	0	0	0	14629	188	7	3	1087	3	SLC3A2	11	62650443	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	61386219	62650443	72356073	54	7205											
YAP1	10413	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102100588	102100588	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaagtctgcaggaagctTtgagttctgacatccttaat	10	13	9	9	0	2	2	0	2	2	0	3	3	3	3	2	1	3	3	2	1	3	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	102100588	T	C	102100588	2	2	126	1	0	0	0	0	0	0	0	1	17465	1838	64	3		3	YAP1	11	102100588	Silent	SNP	T	TCGA-B0-5106-01A-01D-1421-08	39450145	102100588	32905928	55	7206											
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	122931841	122931841	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactcaccaaaaactgtgttGgtggggttcattgcaacttg	11	12	10	8	0	2	0	2	0	0	0	2	0	2	0	1	3	4	3	1	3	4	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	122931841	G	A	122931841	2	1	126	1	0	0	0	0	0	0	0	1	7416	1335	47	2		2	HSPA8	11	122931841	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08	20831253	122931841	12074675	56	7207											
ZBTB44	29068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130131043	130131043	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcttgcttaactttctcAggctgaatccttcgatcaat	8	16	6	11	1	3	1	2	1	2	0	6	2	4	1	1	1	3	3	1	1	3	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	130131043	A	T	130131043	2	4	126	1	0	0	0	0	0	0	0	1	17544	175	7	5		5	ZBTB44	11	130131043	Silent	SNP	A	TCGA-B0-5106-01A-01D-1421-08	7199202	130131043	4875473	57	7208											
PTPN11	5781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112891015	112891015	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaggtggtttcatggacatCtctctgggaaagaagcagag	11	11	13	6	0	3	2	1	0	2	2	4	4	3	4	0	4	1	2	0	4	3	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	112891015	C	T	112891015	3	4	126	1	0	0	0	0	1	0	0	0	12782	913	32	2	363	2	PTPN11	12	112891015	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08		112891015	20960880	58	7209											
SUDS3	64426	hgsc.bcm.edu	37	chr12	118839609	118839609	+	Frame_Shift_Del	DEL	T	T	-																															tgaacagatcatggaggatcTgagaacattaaataaggtac																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	118839609	T	-	118839609	7	5	126	1	0	1	0	1	0	0	0	0	15368	1580	55	0	689	0	SUDS3	12	118839609	Frame_Shift_Del	DEL	T	TCGA-B0-5106-01A-01D-1421-08	5948594	118839609	15012286	59	7210											
PITPNM2	57605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123481921	123481921	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgggcgggcagggcaccaGgcggatggcaaggcggccca	8	1	20	12	4	0	0	0	0	0	0	0	2	0	1	2	8	0	3	2	8	1	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	123481921	G	T	123481921	3	4	126	1	0	0	0	0	1	0	0	0	11951	991	35	4	2690	4	PITPNM2	12	123481921	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	4642312	123481921	10369974	60	7211											
PAN3	255967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	28844883	28844883	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatgctggattattgcCagaatctcttatttgggcat	9	14	10	8	0	1	1	0	0	1	1	2	2	1	2	1	2	3	4	1	2	3	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	28844883	C	A	28844883	3	1	126	1	0	0	0	0	1	0	0	0	11415	594	21	4	1888	4	PAN3	13	28844883	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08		28844883	86324995	61	7212											
UCHL3	7347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	76140954	76140954	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacaattggactgattcatGctattgcaaacaataaagac	17	10	7	7	0	1	2	1	1	0	1	1	4	1	3	0	1	4	2	0	1	7	5	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	76140954	G	A	76140954	3	1	126	1	0	0	0	0	1	0	0	0	16920	1319	46	2	321	2	UCHL3	13	76140954	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	47296071	76140954	39028924	62	7213											
PSMC6	5706	broad.mit.edu;hgsc.bcm.edu	37	chr14	53187597	53187597	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttactgaatcaaatggatGgatttgatactctgcataga	14	13	9	5	0	2	3	1	2	1	1	2	5	2	5	0	2	3	2	0	2	5	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	53187597	G	A	53187597	3	1	126	1	0	0	0	0	1	0	0	0	12693	1349	47	2	880	2	PSMC6	14	53187597	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08		53187597	54161943	63	7214											
FERMT2	10979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	53417220	53417220	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggttcaggtccgtcacatGgacactcagttcccacgtcc	7	9	10	15	3	3	0	3	0	0	0	6	1	6	1	3	3	0	2	3	3	0	2	rs147527926	byfrequency	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	53417220	G	A	53417220	3	1	126	1	0	0	0	0	1	0	0	0	5818	1348	47	2	2068	2	FERMT2	14	53417220	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	229623	53417220	53932320	64	7215											
NDN	4692	broad.mit.edu;hgsc.bcm.edu	37	chr15	23932263	23932263	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgccagggtcgcggaCggaggaaccccctccgaaac	8	4	14	15	4	1	0	0	0	1	0	3	4	2	3	4	5	3	1	4	5	2	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	23932263	C	T	23932263	2	4	126	1	0	0	0	0	0	0	0	1	10247	523	19	1		1	NDN	15	23932263	Silent	SNP	C	TCGA-B0-5106-01A-01D-1421-08		23932263	78599129	65	7216											
LINGO1	84894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	77907673	77907673	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccagcgtcagctgctccagGctgttgaggccgctgaaggc	6	8	14	13	2	1	2	1	2	0	0	3	2	3	2	3	3	3	5	3	3	1	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	77907673	G	C	77907673	3	2	126	1	0	0	0	0	1	0	0	0	8814	1194	42	4	1290	4	LINGO1	15	77907673	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	53975410	77907673	24623719	66	7217											
DNAJA4	55466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78565450	78565450	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctaaggcaagaatgttgtAcaccagttatctgtaactct	12	13	8	8	0	2	1	0	0	2	1	2	1	2	1	1	1	3	6	1	1	6	5	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	78565450	A	G	78565450	2	3	126	1	0	0	0	0	0	0	0	1	4614	378	14	3		3	DNAJA4	15	78565450	Silent	SNP	A	TCGA-B0-5106-01A-01D-1421-08	657777	78565450	23965942	67	7218											
AMDHD2	51005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2579481	2579481	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctctgtcccagacttcGtggtgctcgacgactccctt	4	11	10	16	4	1	1	0	0	1	1	5	3	3	1	3	2	1	2	3	2	0	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	2579481	G	A	2579481	3	1	126	1	0	0	0	0	1	0	0	0	568	1145	40	1	1275	1	AMDHD2	16	2579481	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08		2579481	87775272	68	7219											
NFAT5	10725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69727140	69727140	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccaatgtttcactctCaaagtaccattgctgtgtta	10	14	6	11	0	2	0	2	0	1	0	4	0	3	0	3	0	3	4	3	0	4	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	69727140	C	A	69727140	3	1	126	1	0	0	0	0	1	0	0	0	10360	827	29	4	3462	4	NFAT5	16	69727140	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08	67147659	69727140	20627613	69	7220											
OR1D2	4991	broad.mit.edu;hgsc.bcm.edu	37	chr17	2995985	2995985	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaccaaggagaccaggaaGtagagctgtgtcagacaccc	13	4	12	12	0	1	3	1	0	0	3	1	5	1	4	4	2	1	2	4	2	3	1	rs140264769		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	2995985	G	T	2995985	4	4	126	1	0	0	0	0	0	1	0	0	10953	1024	36	4	635	4	OR1D2	17	2995985	Nonsense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08		2995985	78199225	70	7221											
TIAF1	9220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27401024	27401024	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taacacgctgagacaaagagGgtggggtgggggctggaggt	10	6	20	5	1	0	2	0	1	0	2	0	4	0	3	0	7	1	2	0	7	2	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	27401024	G	T	27401024	3	4	126	1	0	0	0	0	1	0	0	0	15887	1232	43	4	157	4	TIAF1	17	27401024	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	24405039	27401024	53794186	71	7222											
TUBG1	7283	broad.mit.edu;hgsc.bcm.edu	37	chr17	40765980	40765980	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accccacggctccacttcctCatgaccggctacacccctct	7	8	5	21	2	2	1	1	1	1	0	4	1	4	1	7	2	1	2	7	2	1	2	rs145699955		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	40765980	C	T	40765980	2	4	126	1	0	0	0	0	0	0	0	1	16763	813	29	2		2	TUBG1	17	40765980	Silent	SNP	C	TCGA-B0-5106-01A-01D-1421-08	13364956	40765980	40429230	72	7223											
NAT9	26151	broad.mit.edu;ucsc.edu	37	chr17	72769778	72769778	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagggtcagcggctccgAggctgtcaaacgctgcagct	7	7	13	14	3	2	0	2	0	0	0	4	1	4	0	2	3	4	5	2	3	1	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	72769778	G	G	72769778	3	3	126	1	0	0	0	0	1	0	0	0	10182	304	11	3	516	3	NAT9	17	72769778	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	32003798	72769778	8425432	73	7224											
FHOD3	80206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	34156435	34156435	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgggccagattatgttgtAtgtggatggaatgaatggag	10	14	15	2	0	0	2	0	1	0	1	0	5	0	5	1	4	0	2	1	4	4	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	34156435	A	G	34156435	3	3	126	1	0	0	0	0	1	0	0	0	5883	449	16	3	555	3	FHOD3	18	34156435	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08		34156435	43920813	74	7225											
FHOD3	80206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	34192014	34192014	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggcacttgaacaagAaagggactgacctggactta	14	6	11	10	0	0	4	0	2	0	2	0	6	0	6	2	3	1	1	2	3	4	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	34192014	A	T	34192014	4	4	126	1	0	0	0	0	0	1	0	0	5883	247	9	5	947	5	FHOD3	18	34192014	Nonsense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	35579	34192014	43885234	75	7226											
CHAF1A	10036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4409322	4409322	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatttcctggagagaccCtttcagacattccttgcaaa	10	12	8	11	0	1	2	1	0	0	2	3	4	3	3	3	2	1	2	3	2	1	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	4409322	C	G	4409322	3	3	126	1	0	0	0	0	1	0	0	0	3311	681	24	4	536	4	CHAF1A	19	4409322	Missense_Mutation	SNP	C	TCGA-B0-5106-01A-01D-1421-08		4409322	54719661	76	7227											
TYK2	7297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10468695	10468695	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccctccctggagagggcGcccaggcccacgccaggatc	7	4	12	18	2	1	1	1	0	0	1	3	3	2	2	5	4	0	0	5	4	0	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	10468695	G	A	10468695	2	1	126	1	0	0	0	0	0	0	0	1	16809	1074	38	1		1	TYK2	19	10468695	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08	6059373	10468695	48660288	77	7228											
CACNA1A	773	broad.mit.edu;hgsc.bcm.edu	37	chr19	13325351	13325351	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtctagcgtcttctGggacagattgggccaaatcg	9	9	13	10	2	3	1	0	0	3	1	4	2	3	2	1	3	2	1	1	3	2	3	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	13325351	G	A	13325351	4	1	126	1	0	0	0	0	0	1	0	0	2538	1357	47	2	1753	2	CACNA1A	19	13325351	Nonsense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	2856656	13325351	45803632	78	7229											
ZNF91	7644	hgsc.bcm.edu;ucsc.edu	37	chr19	23543184	23543187	+	Frame_Shift_Del	DEL	GATT	GATT	-																															tatgtgtcgtaagatttgaaGattgattaaaagctttgcca																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	GATT	GATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	23543187	GATT	-	23543184	7	5	126	1	0	1	0	1	0	0	0	0	18199	942	33	0	982	0	ZNF91	19	23543184	Frame_Shift_Del	DEL	GATT	TCGA-B0-5106-01A-01D-1421-08	10217833	23543184	35585799	79	7230											
NFKBID	84807	hgsc.bcm.edu	37	chr19	36387710	36387711	+	Frame_Shift_Ins	INS	-	-	G																															tgccgcccagcgcagcccccINSgagccgcaaacaggtgaagg																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		G	36387711	-	G	36387710	7	5	126	1	0	1	1	0	0	0	0	0	10379	652	23	0	793	0	NFKBID	19	36387710	Frame_Shift_Ins	INS	-	TCGA-B0-5106-01A-01D-1421-08	12844526	36387710	22741273	80	7231											
CCDC61	729440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46519960	46519960	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttttcccaggcagcagcAgcggaaccgcttaggcagtg	8	9	12	12	2	0	0	0	0	0	0	1	1	1	1	2	3	4	5	2	3	2	4	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	46519960	A	C	46519960	3	2	126	1	0	0	0	0	1	0	0	0	2832	188	7	5	1199	5	CCDC61	19	46519960	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	10132250	46519960	12609023	81	7232											
HRC	3270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49657389	49657389	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctacaaggccatggtggAcatgttggggaccctggtgc	8	9	14	10	0	1	0	0	0	1	0	1	2	1	2	2	6	2	1	2	6	2	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	49657389	A	T	49657389	3	4	126	1	0	0	0	0	1	0	0	0	7352	275	10	5	1017	5	HRC	19	49657389	Missense_Mutation	SNP	A	TCGA-B0-5106-01A-01D-1421-08	3137429	49657389	9471594	82	7233											
C20orf26	26074	broad.mit.edu;ucsc.edu	37	chr20	20123553	20123553	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaaaatagtcgaggagttGcaggaacctgtctctccaga	14	8	10	9	1	1	1	0	0	1	1	4	4	2	3	2	2	2	2	2	2	5	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	20123553	A	A	20123553	2	1	126	1	0	0	0	0	0	0	0	1	2106	1310	46	2		2	C20orf26	20	20123553	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08		20123553	42901967	83	7234											
WFDC5	149708	broad.mit.edu;hgsc.bcm.edu	37	chr20	43739049	43739049	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagccgtacctctggcaGgatcccggcaatcccgcccg	7	5	12	17	4	1	0	0	0	1	0	3	2	3	2	5	4	2	3	5	4	2	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	43739049	G	T	43739049	3	4	126	1	0	0	0	0	1	0	0	0	17353	1000	35	4	20	4	WFDC5	20	43739049	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	23615496	43739049	19286471	84	7235											
SNAI1	6615	broad.mit.edu	37	chr20	48600840	48600840	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgcggaacctgcgggaagGccttctctaggccctggctg	5	9	14	13	2	2	0	0	0	2	0	3	2	2	2	3	5	3	1	3	5	3	2	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		T	48600840	T	T	48600840	3	4	126	1	0	0	0	0	1	0	0	0	14828	1203	42	4	568	4	SNAI1	20	48600840	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08	4861791	48600840	14424680	85	7236											
C20orf166	128826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	61167749	61167749	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcattctctcagccccaGccccacagtgctccagtgtg	7	8	10	16	0	2	0	1	0	1	0	4	1	3	0	5	1	3	2	5	1	0	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		A	61167749	G	A	61167749	2	1	126	1	0	0	0	0	0	0	0	1	2095	962	34	2		2	C20orf166	20	61167749	Silent	SNP	G	TCGA-B0-5106-01A-01D-1421-08	12566909	61167749	1857771	86	7237											
TRIOBP	11078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38130449	38130449	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaactgacccggcggaGccaagcagagccccctcatc	10	3	12	16	2	1	3	1	1	0	2	2	4	1	4	4	3	4	2	4	3	2	0	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	38130449	G	C	38130449	3	2	126	1	0	0	0	0	1	0	0	0	16552	971	34	4	4132	4	TRIOBP	22	38130449	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08		38130449	13174117	87	7238											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53239905	53239905	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgatcctcaatatgccaGcaaaaggctgagaagaccat	15	7	9	10	0	1	3	1	2	0	2	2	4	2	3	3	1	2	2	3	1	5	1	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	53239905	G	C	53239905	3	2	126	1	0	0	0	0	1	0	0	0	8135	963	34	4	3308	4	KDM5C	23	53239905	Missense_Mutation	SNP	G	TCGA-B0-5106-01A-01D-1421-08		53239905	102030655	88	7239											
KIAA1210	57481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118222879	118222879	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcagcatcaggcttccTtgaggactgaaaaaggcttc	10	12	9	10	0	3	2	2	2	1	0	5	3	4	3	1	3	1	3	1	3	2	5	novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		C	118222879	T	C	118222879	3	2	126	1	0	0	0	0	1	0	0	0	8214	1608	56	3	2831	3	KIAA1210	23	118222879	Missense_Mutation	SNP	T	TCGA-B0-5106-01A-01D-1421-08	64982974	118222879	37047681	89	7240											
MBNL3	55796	hgsc.bcm.edu	37	chrX	131525019	131525019	+	Frame_Shift_Del	DEL	A	A	-																															cagattgtcacagtattatcActcgcttcaatcatggaagc																								novel		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0e28603-7204-416d-ba3d-5377a38f677d	6d436195-d34a-4f6a-83ca-217c4489b212		-	131525019	A	-	131525019	7	5	126	1	0	1	0	1	0	0	0	0	9355	156	6	0	518	0	MBNL3	23	131525019	Frame_Shift_Del	DEL	A	TCGA-B0-5106-01A-01D-1421-08	13302140	131525019	23745541	90	7241											
RSPO1	284654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38079542	38079542	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagggcccccacggagaCcactcgctcatttcacattg	9	7	10	15	2	2	1	2	0	0	1	3	3	2	1	3	2	1	2	3	2	0	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	38079542	C	T	38079542	4	4	127	1	0	0	0	0	0	1	0	0	13711	508	18	2	340	2	RSPO1	1	38079542	Nonsense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		38079542	211171079	1	7242											
TXNDC12	51060	broad.mit.edu;ucsc.edu	37	chr1	52492991	52492991	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgggagagttctgaaatttCcgtagattctgcaaatttgg	11	14	11	5	1	2	3	0	1	2	2	3	4	3	3	1	2	1	3	1	2	3	5	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	52492991	A	A	52492991	4	1	127	1	0	0	0	0	0	1	0	0	16792	864	30	4	293	4	TXNDC12	1	52492991	Nonsense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	14413449	52492991	196757630	2	7243											
SPAG17	200162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	118598450	118598450	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagctctggtcctgatgatTttctcattcattttagattc	7	19	6	9	0	4	3	3	2	2	1	7	3	5	3	1	1	1	1	1	1	1	6	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	118598450	T	A	118598450	3	1	127	1	0	0	0	0	1	0	0	0	14981	1838	64	5	4163	5	SPAG17	1	118598450	Missense_Mutation	SNP	T	TCGA-B0-5107-01A-01D-1421-08	66105459	118598450	130652171	3	7244											
ECM1	1893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150482475	150482475	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccaactccctgctgaaaagGaaggtgagcgcttgcccacc	10	6	10	15	1	0	2	0	2	0	0	1	3	1	3	4	2	4	2	4	2	4	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	150482475	G	A	150482475	3	1	127	1	0	0	0	0	1	0	0	0	4897	1175	41	2	315	2	ECM1	1	150482475	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	31884025	150482475	98768146	4	7245											
FCRLA	84824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161677075	161677075	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagctgggctgtgtcctCatggcctgggccctctacct	5	11	12	13	0	2	1	1	1	1	0	3	1	3	1	4	3	2	2	4	3	2	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	161677075	C	A	161677075	2	1	127	1	0	0	0	0	0	0	0	1	5800	813	29	4		4	FCRLA	1	161677075	Silent	SNP	C	TCGA-B0-5107-01A-01D-1421-08	11194600	161677075	87573546	5	7246											
NVL	4931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	224491542	224491542	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccgggtgacgcatgtgtatGagcatcttgcagacctccta	8	11	11	11	2	1	3	0	2	1	1	3	3	3	3	3	1	2	4	3	1	2	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	224491542	G	A	224491542	2	1	127	1	0	0	0	0	0	0	0	1	10780	1277	45	2		2	NVL	1	224491542	Silent	SNP	G	TCGA-B0-5107-01A-01D-1421-08	62814467	224491542	24759079	6	7247											
OR2T1	26696	hgsc.bcm.edu;ucsc.edu	37	chr1	248569296	248569297	+	Frame_Shift_Ins	INS	-	-	TGTG																															atgctagatatcagtctcaaINStgtggcaagaatactatttt																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		TGTG	248569297	-	TGTG	248569296	7	5	127	1	0	1	1	0	0	0	0	0	11016	115	4	0	3	0	OR2T1	1	248569296	Frame_Shift_Ins	INS	-	TCGA-B0-5107-01A-01D-1421-08	24077754	248569296	681325	7	7248											
CYP26B1	56603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	72359545	72359545	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccaccgccagcaccttcagGaacagcttggccaggtgctt	8	8	10	15	1	1	0	1	0	0	0	2	1	2	1	5	3	4	3	5	3	1	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	72359545	G	T	72359545	3	4	127	1	0	0	0	0	1	0	0	0	4156	1165	41	4	192	4	CYP26B1	2	72359545	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08		72359545	170839828	8	7249											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu	37	chr2	109384143	109384143	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtattaaaactttgtgccaAtcacagaataactccagaca	17	10	5	9	0	1	2	1	0	0	2	2	2	2	2	2	0	3	1	2	0	6	4	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	109384143	A	G	109384143	3	3	127	1	0	0	0	0	1	0	0	0	13030	101	4	3	7226	3	RANBP2	2	109384143	Missense_Mutation	SNP	A	TCGA-B0-5107-01A-01D-1421-08	37024598	109384143	133815230	9	7250											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152352797	152352797	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcgccaagtaccgagctaAtattttcttgattgtgtttg	8	17	8	8	2	2	1	0	1	2	0	3	2	2	1	2	0	2	3	2	0	4	8	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	152352797	A	G	152352797	3	3	127	1	0	0	0	0	1	0	0	0	10302	101	4	3	1138	3	NEB	2	152352797	Missense_Mutation	SNP	A	TCGA-B0-5107-01A-01D-1421-08	42968654	152352797	90846576	10	7251											
CHL1	10752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	443351	443351	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagacccagaaattcagtCagtaaaagatgaaacctttg	16	9	7	9	0	2	4	2	1	0	3	3	4	3	4	3	0	1	1	3	0	4	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	443351	C	T	443351	3	4	127	1	0	0	0	0	1	0	0	0	3349	838	29	2	3526	2	CHL1	3	443351	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		443351	197579079	11	7252											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10183794	10183794	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtcgtgctgcccgtatGgctcaacttcgacggcgagc	5	8	14	14	7	1	0	1	0	0	0	3	2	1	0	1	2	4	3	1	2	2	2	rs119103277	alternate_allele	TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	10183794	G	T	10183794	3	4	127	1	0	0	0	0	1	0	0	0	17161	1357	47	4	265	4	VHL	3	10183794	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	9740443	10183794	187838636	12	7253											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu	37	chr3	52442512	52442512	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggcaaagaacatgttaTtcacaatatcatcatcaatc	15	11	7	8	0	4	1	4	0	0	1	5	1	4	1	0	2	1	2	0	2	6	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	52442512	T	C	52442512	3	2	127	1	0	0	0	0	1	0	0	0	1311	1493	52	3	2012	3	BAP1	3	52442512	Missense_Mutation	SNP	T	TCGA-B0-5107-01A-01D-1421-08	42258718	52442512	145579918	13	7254											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52676063	52676063	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtactgctcttttattacTacaaaaaaaaaaaaagcaat	19	13	3	6	0	1	0	0	0	1	0	1	0	1	0	0	0	5	3	0	0	11	6	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	52676063	T	A	52676063	5	1	127	1	0	0	0	0	0	0	1	0	11491	1536	53	5	3990	5	PBRM1	3	52676063	Splice_Site	SNP	T	TCGA-B0-5107-01A-01D-1421-08	233551	52676063	145346367	14	7255											
ATR	545	hgsc.bcm.edu;ucsc.edu	37	chr3	142266605	142266605	+	Frame_Shift_Del	DEL	A	A	-																															gatatctctcgggccctgatAtggatcatcactggatgcaa																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		-	142266605	A	-	142266605	7	5	127	1	0	1	0	1	0	0	0	0	1204	449	16	0	4743	0	ATR	3	142266605	Frame_Shift_Del	DEL	A	TCGA-B0-5107-01A-01D-1421-08	89590542	142266605	55755825	15	7256											
FGFBP1	9982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	15938034	15938034	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagagatgccctcctcctgCtcagtagcagcccatctgca	9	8	9	15	0	2	2	1	0	1	2	4	3	4	2	4	0	5	4	4	0	1	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	15938034	C	A	15938034	3	1	127	1	0	0	0	0	1	0	0	0	5860	796	28	4	486	4	FGFBP1	4	15938034	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		15938034	175216242	16	7257											
JMY	133746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	78608277	78608277	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaagtgcctgggttagcCaagagagacagagaacactg	16	5	13	7	0	0	3	0	0	0	3	0	6	0	3	2	1	3	1	2	1	5	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	78608277	C	A	78608277	3	1	127	1	0	0	0	0	1	0	0	0	7957	595	21	4	2050	4	JMY	5	78608277	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		78608277	102306983	17	7258											
GPX6	257202	hgsc.bcm.edu;ucsc.edu	37	chr6	28483478	28483478	+	Frame_Shift_Del	DEL	G	G	-																															ctgctgagcaaagccaaccaGgaaaaacaggacaagacagg																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		-	28483478	G	-	28483478	7	5	127	1	0	1	0	1	0	0	0	0	6744	991	35	0	642	0	GPX6	6	28483478	Frame_Shift_Del	DEL	G	TCGA-B0-5107-01A-01D-1421-08		28483478	142631589	18	7259											
C6orf35	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	157744466	157744466	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaccaggaaaagccggtcAttcgtggaccccggagcctc	10	7	11	13	3	1	0	1	0	0	0	3	3	1	3	5	4	3	0	5	4	3	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	157744466	A	G	157744466	2	3	127	1	0	0	0	0	0	0	0	1	2363	214	8	3		3	C6orf35	6	157744466	Silent	SNP	A	TCGA-B0-5107-01A-01D-1421-08	129260988	157744466	13370601	19	7260											
SUN1	23353	broad.mit.edu;ucsc.edu	37	chr7	912892	912892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccaaatagtggaacttcGgattttttctaactggggcc	9	15	9	8	1	1	0	0	0	1	0	3	2	2	2	2	4	2	0	2	4	4	7	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	912892	A	A	912892	3	1	127	1	0	0	0	0	1	0	0	0	15390	1116	39	1	2539	1	SUN1	7	912892	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08		912892	158225771	20	7261											
ADAP1	11033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	939073	939073	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccagggggtctttgaagtAcatgagcctgcggtcatcca	9	10	12	10	1	2	2	1	2	1	0	3	2	3	2	3	3	4	1	3	3	3	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	939073	A	C	939073	3	2	127	1	0	0	0	0	1	0	0	0	279	391	14	5	286	5	ADAP1	7	939073	Missense_Mutation	SNP	A	TCGA-B0-5107-01A-01D-1421-08	26181	939073	158199590	21	7262											
ANLN	54443	broad.mit.edu	37	chr7	36478858	36478858	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcatatttatttaaaaataAaatgtcaagtgaattccagt	17	15	5	4	0	2	1	2	1	0	0	3	1	3	1	1	0	0	0	1	0	9	7	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	36478858	C	C	36478858	3	2	127	1	0	0	0	0	1	0	0	0	694	15	1	5	3011	5	ANLN	7	36478858	Missense_Mutation	SNP	A	TCGA-B0-5107-01A-01D-1421-08	35539785	36478858	122659805	22	7263											
CUX1	1523	hgsc.bcm.edu;ucsc.edu	37	chr7	101845357	101845358	+	Frame_Shift_Ins	INS	-	-	C																															aagcccaccaagccctcggtINSccccccgctgacccccgagc																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	101845358	-	C	101845357	7	5	127	1	0	1	1	0	0	0	0	0	4064	1667	58	0	2917	0	CUX1	7	101845357	Frame_Shift_Ins	INS	-	TCGA-B0-5107-01A-01D-1421-08	65366499	101845357	57293306	23	7264											
NRF1	4899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129297261	129297261	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgcagtggcccagcaaGtgcagcaggtccatgtggct	9	7	13	12	0	0	0	0	0	0	0	1	0	1	0	2	3	4	5	2	3	1	0	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	129297261	G	A	129297261	3	1	127	1	0	0	0	0	1	0	0	0	10646	1029	36	2	72	2	NRF1	7	129297261	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	27451904	129297261	29841402	24	7265											
PRKDC	5591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48694798	48694798	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaacagtattttcaagcCactcaattaatcctaacctg	14	12	5	10	0	2	0	2	0	0	0	3	0	3	0	3	1	3	2	3	1	6	6	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	48694798	C	T	48694798	3	4	127	1	0	0	0	0	1	0	0	0	12523	595	21	2	1000	2	PRKDC	8	48694798	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		48694798	97669224	25	7266											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106813890	106813890	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgaactggtgcatcggcGactgaggcatggcagtagta	9	9	15	8	2	1	2	0	2	1	0	2	3	1	2	0	4	2	5	0	4	3	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	106813890	G	A	106813890	3	1	127	1	0	0	0	0	1	0	0	0	17657	1058	37	1	1610	1	ZFPM2	8	106813890	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	58119092	106813890	39550132	26	7267											
SMARCA2	6595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2116050	2116050	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcatgaggaggaaaatgagGtattagagaaaaccccaagt	18	6	12	5	0	0	3	0	2	0	1	0	6	0	5	2	3	2	2	2	3	7	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	2116050	G	A	2116050	5	1	127	1	0	0	0	0	0	0	1	0	14771	1275	44	2	3779	2	SMARCA2	9	2116050	Splice_Site	SNP	G	TCGA-B0-5107-01A-01D-1421-08		2116050	139097381	27	7268											
TLR4	7099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	120475390	120475390	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtaaaagacttttcttaTaatttcggatggcaacattt	13	15	8	5	1	1	1	0	0	1	1	2	2	1	2	0	3	1	2	0	3	5	7	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	120475390	T	C	120475390	2	2	127	1	0	0	0	0	0	0	0	1	15952	1413	49	3		3	TLR4	9	120475390	Silent	SNP	T	TCGA-B0-5107-01A-01D-1421-08	118359340	120475390	20738041	28	7269											
RABGAP1	23637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125865394	125865394	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacaccatttagggcttGccctcaatgaggtgcaggca	10	9	12	10	0	1	1	1	1	0	0	1	2	1	2	2	4	3	3	2	4	3	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	125865394	G	A	125865394	3	1	127	1	0	0	0	0	1	0	0	0	12966	1319	46	2	3210	2	RABGAP1	9	125865394	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	5390004	125865394	15348037	29	7270											
WDR37	22884	broad.mit.edu;hgsc.bcm.edu	37	chr10	1149775	1149775	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcgttcactctctgacAggtgcctgggttctctgagt	5	13	12	11	1	3	2	1	2	2	0	6	3	3	2	1	2	2	3	1	2	0	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	1149775	A	C	1149775	2	2	127	1	0	0	0	0	0	0	0	1	17290	202	7	5		5	WDR37	10	1149775	Silent	SNP	A	TCGA-B0-5107-01A-01D-1421-08		1149775	134384972	30	7271											
CUZD1	50624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	124593448	124593448	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaccttacaagtttcatctCgactacatctggaacagaat	14	11	5	11	1	3	1	1	0	2	1	4	3	3	2	1	1	3	1	1	1	5	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	124593448	C	T	124593448	3	4	127	1	0	0	0	0	1	0	0	0	4066	884	31	1	440	1	CUZD1	10	124593448	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	123443673	124593448	10941299	31	7272											
MUC5B	727897	broad.mit.edu	37	chr11	1268529	1268529	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgcacagcctggacttcGgccacctcgggcatcttggg	5	8	14	14	3	1	0	0	0	1	0	3	1	1	1	3	4	2	2	3	4	0	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	1268529	A	A	1268529	2	1	127	1	0	0	0	0	0	0	0	1	9979	1103	39	1		1	MUC5B	11	1268529	Silent	SNP	G	TCGA-B0-5107-01A-01D-1421-08		1268529	133737987	32	7273											
RBM14	10432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66391778	66391778	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggcaagcgcatcaacgTggaactctccaccaagggtc	12	5	12	12	2	2	0	1	0	1	0	4	2	2	1	2	3	3	2	2	3	5	0	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	66391778	T	G	66391778	3	3	127	1	0	0	0	0	1	0	0	0	13117	1696	59	5	437	5	RBM14	11	66391778	Missense_Mutation	SNP	T	TCGA-B0-5107-01A-01D-1421-08	65123249	66391778	68614738	33	7274											
SHANK2	22941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	70332433	70332433	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcgttgtccagcttaGtggcgtccacggtgtgcacc	5	9	15	12	3	0	0	0	0	0	0	2	0	2	0	3	3	2	4	3	3	1	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	70332433	G	C	70332433	3	2	127	1	0	0	0	0	1	0	0	0	14267	1029	36	4	1592	4	SHANK2	11	70332433	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	3940655	70332433	64674083	34	7275											
NLRX1	79671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119050726	119050726	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaagaagctgggcaagctgGgccggcaggtgctgccccca	9	4	16	12	1	0	2	0	0	0	2	0	2	0	2	3	4	4	5	3	4	3	0	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	119050726	G	A	119050726	3	1	127	1	0	0	0	0	1	0	0	0	10485	1232	43	2	2018	2	NLRX1	11	119050726	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	48718293	119050726	15955790	35	7276											
CCNT1	904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49110458	49110458	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcttcctctctccctccaTagtgcttcaaccagaaggca	8	12	6	15	0	3	1	1	0	2	1	7	1	6	1	4	1	2	3	4	1	3	4	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	49110458	T	G	49110458	3	3	127	1	0	0	0	0	1	0	0	0	2934	1406	49	5	2215	5	CCNT1	12	49110458	Missense_Mutation	SNP	T	TCGA-B0-5107-01A-01D-1421-08		49110458	84741437	36	7277											
WIF1	11197	hgsc.bcm.edu;ucsc.edu	37	chr12	65461562	65461562	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccatttcggcacccgcctgGgcactcagcttcagcagaga	8	8	10	15	2	2	1	2	0	0	1	4	2	3	1	3	2	2	4	3	2	0	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	65461562	G	T	65461562	3	4	127	1	0	0	0	0	1	0	0	0	17365	1232	43	4	616	4	WIF1	12	65461562	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	16351104	65461562	68390333	37	7278											
POC1B	282809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	89885726	89885726	+	Frame_Shift_Del	DEL	C	C	-																															cacttacttggcacagcgtaCccagtgtgtatgtcgataca																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		-	89885726	C	-	89885726	7	5	127	1	0	1	0	1	0	0	0	0	12176	507	18	0	1033	0	POC1B	12	89885726	Frame_Shift_Del	DEL	C	TCGA-B0-5107-01A-01D-1421-08	24424164	89885726	43966169	38	7279											
NTN4	59277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96181160	96181161	+	Frame_Shift_Del	DEL	AG	AG	-																															accgcaggtggtgtctgcccAgagttttcgccccaaagcca																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		-	96181161	AG	-	96181160	7	5	127	1	0	1	0	1	0	0	0	0	10702	188	7	0	1780	0	NTN4	12	96181160	Frame_Shift_Del	DEL	AG	TCGA-B0-5107-01A-01D-1421-08	6295434	96181160	37670735	39	7280											
MAB21L1	4081	broad.mit.edu;ucsc.edu	37	chr13	36049373	36049373	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataagttgcagcaaaatcccGttcagccgatcacccaggca	13	7	8	13	2	2	0	2	0	0	0	3	1	3	0	3	1	3	5	3	1	3	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	36049373	A	A	36049373	2	1	127	1	0	0	0	0	0	0	0	1	9141	1136	40	1		1	MAB21L1	13	36049373	Silent	SNP	G	TCGA-B0-5107-01A-01D-1421-08		36049373	79120505	40	7281											
CIDEB	27141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24774973	24774973	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccaacgaaggagctcccTgaatggcagagacaagagga	14	4	14	9	1	0	3	0	1	0	2	2	7	2	5	2	4	2	2	2	4	4	0	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		C	24774973	T	C	24774973	5	2	127	1	0	0	0	0	0	0	1	0	3426	1594	55	3	137	3	CIDEB	14	24774973	Splice_Site	SNP	T	TCGA-B0-5107-01A-01D-1421-08		24774973	82574567	41	7282											
ARHGAP5	394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	32560575	32560575	+	Frame_Shift_Del	DEL	A	A	-																															catcagcacgatttaatgtcAacattgaaacatgttttact																								novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		-	32560575	A	-	32560575	7	5	127	1	0	1	0	1	0	0	0	0	886	130	5	0	702	0	ARHGAP5	14	32560575	Frame_Shift_Del	DEL	A	TCGA-B0-5107-01A-01D-1421-08	7785602	32560575	74788965	42	7283											
FLVCR2	55640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	76088434	76088434	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctatagcttggaattgcgAttgggttcttggtccctcct	5	17	10	9	1	2	0	0	0	2	0	4	2	4	1	2	3	2	2	2	3	3	8	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	76088434	A	G	76088434	3	3	127	1	0	0	0	0	1	0	0	0	5946	333	12	3	688	3	FLVCR2	14	76088434	Missense_Mutation	SNP	A	TCGA-B0-5107-01A-01D-1421-08	43527859	76088434	31261106	43	7284											
CAPN3	825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42702005	42702005	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatggagatctgtgcagaTgagctcaagaaggtccttaa	13	9	12	7	0	2	4	1	1	1	3	3	6	3	4	1	2	2	2	1	2	3	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	42702005	T	G	42702005	3	3	127	1	0	0	0	0	1	0	0	0	2628	1461	51	5	2135	5	CAPN3	15	42702005	Missense_Mutation	SNP	T	TCGA-B0-5107-01A-01D-1421-08		42702005	59829387	44	7285											
CPEB1	64506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83226709	83226709	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggttttcctaggacatttCccagtgggttatggagcatg	7	13	14	7	0	0	0	0	0	0	0	2	2	2	2	2	5	1	3	2	5	2	5	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	83226709	C	A	83226709	3	1	127	1	0	0	0	0	1	0	0	0	3800	855	30	4	1329	4	CPEB1	15	83226709	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	40524704	83226709	19304683	45	7286											
ALPK3	57538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	85406027	85406027	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaggccaaggtcatctacGggctggaacccatcttcgag	9	7	11	14	2	3	0	1	0	2	0	4	2	3	1	3	4	2	1	3	4	3	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	85406027	G	A	85406027	3	1	127	1	0	0	0	0	1	0	0	0	546	1116	39	1	4935	1	ALPK3	15	85406027	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	2179318	85406027	17125365	46	7287											
CRK	1398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1326915	1326915	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccactgaccactcacattAatcttcgtaacctttaccag	11	12	3	15	1	2	1	1	1	1	0	4	1	3	1	4	0	2	1	4	0	3	5	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	1326915	A	G	1326915	2	3	127	1	0	0	0	0	0	0	0	1	3884	358	13	3		3	CRK	17	1326915	Silent	SNP	A	TCGA-B0-5107-01A-01D-1421-08		1326915	79868295	47	7288											
OR1A1	8383	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3119395	3119395	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatgccctcccccacactCtgctcacagctagtctgtcc	7	9	5	20	0	3	0	1	0	2	0	5	0	5	0	5	0	3	2	5	0	2	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	3119395	C	A	3119395	3	1	127	1	0	0	0	0	1	0	0	0	10949	912	32	4	483	4	OR1A1	17	3119395	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	1792480	3119395	78075815	48	7289											
C17orf103	256302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	21147503	21147503	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacgatccgcttgcccacGtactcatagagcaggacggc	9	7	10	15	4	1	1	1	0	0	1	3	3	3	2	3	2	3	3	3	2	2	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	21147503	G	A	21147503	3	1	127	1	0	0	0	0	1	0	0	0	1850	1140	40	1	87	1	C17orf103	17	21147503	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	18028108	21147503	60047707	49	7290											
EVPL	2125	broad.mit.edu;hgsc.bcm.edu	37	chr17	74011147	74011147	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcagcgcgcggtgtagcCgcagcacgcaggtctgctgt	5	8	14	14	5	2	0	1	0	1	0	2	0	2	0	2	2	4	5	2	2	1	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	74011147	C	T	74011147	3	4	127	1	0	0	0	0	1	0	0	0	5292	652	23	1	4053	1	EVPL	17	74011147	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	52863644	74011147	7184063	50	7291											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7026067	7026067	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagaagccgggcaagcaCtgctcacagtggacgccggt	9	5	14	13	4	1	1	1	0	0	1	1	2	1	2	3	3	3	4	3	3	3	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	7026067	C	T	7026067	2	4	127	1	0	0	0	0	0	0	0	1	8605	564	20	2		2	LAMA1	18	7026067	Silent	SNP	C	TCGA-B0-5107-01A-01D-1421-08		7026067	71051181	51	7292											
C3	718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6686809	6686809	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggccccttcagcctgcccatCtgggccagagcatagccagc	7	6	11	17	0	2	1	1	0	1	1	2	1	2	1	6	2	5	1	6	2	1	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	6686809	C	G	6686809	3	3	127	1	0	0	0	0	1	0	0	0	2204	912	32	4	1453	4	C3	19	6686809	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		6686809	52442174	52	7293											
FBN3	84467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8165827	8165827	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcagtgaggaatcccggggCctgatttccacacaggatct	9	9	12	11	1	2	2	1	2	1	0	4	4	4	4	3	4	0	0	3	4	1	1	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	8165827	C	T	8165827	3	4	127	1	0	0	0	0	1	0	0	0	5704	739	26	2	3406	2	FBN3	19	8165827	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	1479018	8165827	50963156	53	7294											
RHPN2	85415	broad.mit.edu;hgsc.bcm.edu	37	chr19	33493761	33493761	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccagcatgaagaattcAttccggatcccaggaaggct	12	9	9	11	1	2	2	2	1	0	1	4	4	4	4	3	3	1	2	3	3	3	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	33493761	A	G	33493761	2	3	127	1	0	0	0	0	0	0	0	1	13353	214	8	3		3	RHPN2	19	33493761	Silent	SNP	A	TCGA-B0-5107-01A-01D-1421-08	25327934	33493761	25635222	54	7295											
USP29	57663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57640818	57640818	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggtttgacatctccattgGaaccagagcacagccagggt	11	9	11	10	0	1	2	0	1	1	1	2	3	1	3	3	3	3	2	3	3	1	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	57640818	G	T	57640818	4	4	127	1	0	0	0	0	0	1	0	0	17058	1175	41	4	777	4	USP29	19	57640818	Nonsense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	24147057	57640818	1488165	55	7296											
NPBWR2	2832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62737383	62737383	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccagcagaggaggcacaCggccagcacgacgaggacca	12	1	14	14	4	0	1	0	0	0	1	1	5	1	3	3	4	2	3	3	4	0	0	rs140478149		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	62737383	C	T	62737383	3	4	127	1	0	0	0	0	1	0	0	0	10569	536	19	1	202	1	NPBWR2	20	62737383	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		62737383	288137	56	7297											
TLR8	51311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	12939545	12939545	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacatctgaatgtcaaaattCccagactggtagatgtcatt	14	12	7	8	0	3	3	2	1	1	2	4	3	4	3	1	1	1	1	1	1	5	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	12939545	C	A	12939545	3	1	127	1	0	0	0	0	1	0	0	0	15956	855	30	4	2392	4	TLR8	23	12939545	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08		12939545	142331015	57	7298											
NHS	4810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	17745608	17745608	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aaacactgaggtcgaatcctCcaccgtcccttgcaattaca	12	9	6	14	2	0	1	0	1	0	0	4	2	3	1	4	1	3	1	4	1	4	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		G	17745608	C	G	17745608	3	3	127	1	0	0	0	0	1	0	0	0	10411	855	30	4	3446	4	NHS	23	17745608	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	4806063	17745608	137524952	58	7299											
PPEF1	5475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	18836212	18836212	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagagagagagtgatttcaCgaaaaagtgaccttactcgt	15	10	10	6	2	1	4	1	2	0	2	2	7	1	4	1	0	1	0	1	0	4	3	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		T	18836212	C	T	18836212	4	4	127	1	0	0	0	0	0	1	0	0	12307	528	19	1	1500	1	PPEF1	23	18836212	Nonsense_Mutation	SNP	C	TCGA-B0-5107-01A-01D-1421-08	1090604	18836212	136434348	59	7300											
PHKA2	5256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	18970644	18970644	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactggagaagacctcgcaTcagcttcaccacgttctgtg	9	9	10	13	2	3	2	2	0	1	2	4	3	3	2	2	1	1	4	2	1	1	2	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	18970644	T	A	18970644	3	1	127	1	0	0	0	0	1	0	0	0	11844	1435	50	5	3578	5	PHKA2	23	18970644	Missense_Mutation	SNP	T	TCGA-B0-5107-01A-01D-1421-08	134432	18970644	136299916	60	7301											
CPXCR1	53336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	88009260	88009260	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atacttttgtcccatctgtgGaaggctttttaacacttact	9	17	6	9	0	1	0	0	0	1	0	2	1	2	1	1	2	3	1	1	2	4	7	novel		TCGA-B0-5107-01A-01D-1421-08	TCGA-B0-5107-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2086a2e1-0451-45ba-9ca3-d4e5f61e590b	3120fe95-115c-4fea-acc0-40c37f8c24e8		A	88009260	G	A	88009260	3	1	127	1	0	0	0	0	1	0	0	0	3836	1174	41	2	847	2	CPXCR1	23	88009260	Missense_Mutation	SNP	G	TCGA-B0-5107-01A-01D-1421-08	69038616	88009260	67261300	61	7302											
VHL	7428	hgsc.bcm.edu	37	chr3	10183665	10183665	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccggaagagtccggccCggaggaactgggcgccgagg	7	2	19	13	6	0	1	0	0	0	1	1	5	1	4	4	7	1	0	4	7	2	0	novel		TCGA-B0-5107-01A-01W-1475-10	TCGA-B0-5107-11A-01W-1475-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	12ca17d1-d74d-4927-81c0-16be4ee6febc	6b3be423-aa19-4913-9a56-8e814e0edec2		T	10183665	C	T	10183665	3	4	128	1	0	0	0	0	1	0	0	0	17161	652	23	1	136	1	VHL	3	10183665	Missense_Mutation	SNP	C	TCGA-B0-5107-01A-01W-1475-10		10183665	187838765	1	7303											
EIF2B3	8891	hgsc.bcm.edu;ucsc.edu	37	chr1	45347334	45347334	+	Frame_Shift_Del	DEL	C	C	-																															cctcctctttttcttcttgtCcctgttgtgaggaagctgag																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		-	45347334	C	-	45347334	7	5	129	1	0	1	0	1	0	0	0	0	5002	855	30	0	685	0	EIF2B3	1	45347334	Frame_Shift_Del	DEL	C	TCGA-B0-5108-01A-01D-1421-08		45347334	203903287	1	7304											
AMY2A	279	broad.mit.edu	37	chr1	104160101	104160101	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttcaccattgggttctgCtgggctcagtattccccaaa	7	14	8	12	0	3	0	2	0	1	0	4	0	4	0	3	2	1	4	3	2	2	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	104160101	A	A	104160101	4	1	129	1	0	0	0	0	0	1	0	0	594	805	28	4	41	4	AMY2A	1	104160101	Nonsense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08	58812767	104160101	145090520	2	7305											
IGSF3	3321	hgsc.bcm.edu	37	chr1	117127342	117127343	+	Frame_Shift_Ins	INS	-	-	C																															cacatgccactggggctgggINScagccactcctccacatggc																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	117127343	-	C	117127342	7	5	129	1	0	1	1	0	0	0	0	0	7601	1203	42	0	823	0	IGSF3	1	117127342	Frame_Shift_Ins	INS	-	TCGA-B0-5108-01A-01D-1421-08	12967241	117127342	132123279	3	7306											
S100A12	6283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153346341	153346341	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaatgggcagccttcagcgCaatggctaccagggatatga	11	8	13	9	1	1	1	1	1	0	0	1	2	1	2	2	3	3	4	2	3	4	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	153346341	C	T	153346341	3	4	129	1	0	0	0	0	1	0	0	0	13776	710	25	2	41	2	S100A12	1	153346341	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08	36218999	153346341	95904280	4	7307											
NTRK1	4914	hgsc.bcm.edu;ucsc.edu	37	chr1	156845351	156845351	+	Frame_Shift_Del	DEL	C	C	-																															agaggatgggctggccatgtCcctgcatttcatgacattgg																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		-	156845351	C	-	156845351	7	5	129	1	0	1	0	1	0	0	0	0	10706	855	30	0	1570	0	NTRK1	1	156845351	Frame_Shift_Del	DEL	C	TCGA-B0-5108-01A-01D-1421-08	3499010	156845351	92405270	5	7308											
PTPN7	5778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202117740	202117740	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagggtggcaggggtcagggGctgggttcctcaggcagctg	5	7	21	8	0	2	0	2	0	0	0	3	1	3	0	1	8	1	5	1	8	0	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	202117740	G	C	202117740	3	2	129	1	0	0	0	0	1	0	0	0	12795	1194	42	4	9	4	PTPN7	1	202117740	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	45272389	202117740	47132881	6	7309											
USH2A	7399	broad.mit.edu;ucsc.edu	37	chr1	215987118	215987118	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccagagcagcactgatgAtttggttgtgcctcctgtat	8	13	10	10	0	0	3	0	2	0	1	1	3	1	3	3	1	4	4	3	1	2	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	215987118	C	C	215987118	3	2	129	1	0	0	0	0	1	0	0	0	17035	330	12	5	6005	5	USH2A	1	215987118	Missense_Mutation	SNP	A	TCGA-B0-5108-01A-01D-1421-08	13869378	215987118	33263503	7	7310											
CCDC104	112942	broad.mit.edu;hgsc.bcm.edu	37	chr2	55772134	55772134	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaactcaaagaagaagttaTtaataagtaataattaagaa	23	10	6	2	0	1	3	1	0	0	3	1	4	1	3	0	0	1	2	0	0	11	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	55772134	T	C	55772134	3	2	129	1	0	0	0	0	1	0	0	0	2739	1493	52	3	1057	3	CCDC104	2	55772134	Missense_Mutation	SNP	T	TCGA-B0-5108-01A-01D-1421-08		55772134	187427239	8	7311											
ANKRD36B	57730	broad.mit.edu	37	chr2	98201807	98201807	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcacatcttctggacacCaggagatgtaccatttccgg	10	10	9	12	1	3	1	1	0	2	1	4	3	4	2	3	3	2	2	3	3	1	3	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	98201807	T	T	98201807	2	4	129	1	0	0	0	0	0	0	0	1	666	581	21	2		2	ANKRD36B	2	98201807	Silent	SNP	C	TCGA-B0-5108-01A-01D-1421-08	42429673	98201807	144997566	9	7312											
CWC22	57703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	180818964	180818964	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatcagtgtataaaaggtGagcaaacatcttagcaacat	17	10	8	6	0	2	2	1	2	1	0	2	2	2	2	0	1	4	3	0	1	7	3	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	180818964	G	A	180818964	3	1	129	1	0	0	0	0	1	0	0	0	4068	1290	45	2	1089	2	CWC22	2	180818964	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	82617157	180818964	62380409	10	7313											
PLCD4	84812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219487602	219487602	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctatgaaccttcagacagtgGtaagagaaatcaggtggaga	15	8	12	6	0	2	4	2	1	0	3	2	6	2	4	1	3	1	1	1	3	4	3	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	219487602	G	C	219487602	5	2	129	1	0	0	0	0	0	0	1	0	12033	1275	44	4	791	4	PLCD4	2	219487602	Splice_Site	SNP	G	TCGA-B0-5108-01A-01D-1421-08	38668638	219487602	23711771	11	7314											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188248	10188248	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacgatgggcttctggttAaccaaactgaattatttgtg	11	13	9	8	1	1	1	0	1	1	0	1	2	1	1	1	2	2	2	1	2	4	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	10188248	A	T	10188248	3	4	129	1	0	0	0	0	1	0	0	0	17161	362	13	5	397	5	VHL	3	10188248	Missense_Mutation	SNP	A	TCGA-B0-5108-01A-01D-1421-08		10188248	187834182	12	7315											
FLNB	2317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	58128451	58128451	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttttgacctggtcattccGtttgctgtcaggaaaggaga	8	13	11	9	1	2	2	2	1	0	1	3	4	3	3	3	3	1	2	3	3	1	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	58128451	G	A	58128451	2	1	129	1	0	0	0	0	0	0	0	1	5934	1132	40	1		1	FLNB	3	58128451	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08	47940203	58128451	139893979	13	7316											
MFI2	4241	broad.mit.edu;hgsc.bcm.edu	37	chr3	196753618	196753618	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccatccagagtgatggcgtCagcctcctgggcctgcaagg	7	8	13	13	1	1	2	1	1	0	1	4	2	4	2	5	3	2	1	5	3	1	0	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		G	196753618	C	G	196753618	3	3	129	1	0	0	0	0	1	0	0	0	9522	826	29	4	2256	4	MFI2	3	196753618	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08	138625167	196753618	1268812	14	7317											
GRID2	2895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	94547477	94547477	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtattggaatatgtggctAtcaatgacccagattgttcc	10	14	9	8	0	1	2	1	1	0	1	2	3	2	3	2	2	0	3	2	2	5	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	94547477	A	T	94547477	3	4	129	1	0	0	0	0	1	0	0	0	6772	449	16	5	2305	5	GRID2	4	94547477	Missense_Mutation	SNP	A	TCGA-B0-5108-01A-01D-1421-08		94547477	96606799	15	7318											
CENPE	1062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	104054940	104054940	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgttgaaggtgctgtattTtaattagcaattccttttgc	8	19	8	6	0	0	1	0	1	0	0	1	1	1	1	1	1	3	4	1	1	5	9	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	104054940	T	C	104054940	3	2	129	1	0	0	0	0	1	0	0	0	3230	1841	64	3	1509	3	CENPE	4	104054940	Missense_Mutation	SNP	T	TCGA-B0-5108-01A-01D-1421-08	9507463	104054940	87099336	16	7319											
CEP120	153241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	122685709	122685709	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatctttttcctcagcggcAaggtaacgtagtctcatctg	8	14	9	10	2	4	0	2	0	3	0	6	0	5	0	1	2	2	4	1	2	4	5	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	122685709	A	T	122685709	2	4	129	1	0	0	0	0	0	0	0	1	3246	117	5	5		5	CEP120	5	122685709	Silent	SNP	A	TCGA-B0-5108-01A-01D-1421-08		122685709	58229551	17	7320											
HNRNPH1	3187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179047903	179047903	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactacatacctgagaagaaCtgaacaatttcttccttgct	13	12	6	10	0	1	3	0	2	1	2	2	5	2	3	2	0	5	1	2	0	6	5	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	179047903	C	T	179047903	2	4	129	1	0	0	0	0	0	0	0	1	7266	564	20	2		2	HNRNPH1	5	179047903	Silent	SNP	C	TCGA-B0-5108-01A-01D-1421-08	56362194	179047903	1867357	18	7321											
FAM83B	222584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54791201	54791201	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggatatatttacagaTgtggacattttcaaagaaat	15	14	9	3	0	1	3	1	1	0	2	1	5	1	5	0	2	1	0	0	2	5	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	54791201	T	C	54791201	2	2	129	1	0	0	0	0	0	0	0	1	5634	1461	51	3		3	FAM83B	6	54791201	Silent	SNP	T	TCGA-B0-5108-01A-01D-1421-08		54791201	116323866	19	7322											
DST	667	broad.mit.edu	37	chr6	56394513	56394513	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcaaaacctttaaggactgGccaatgctaacagcctggtg	12	9	9	11	0	1	0	1	0	0	0	1	1	1	1	3	3	4	1	3	3	5	3	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	56394513	T	T	56394513	2	4	129	1	0	0	0	0	0	0	0	1	4783	1190	42	4		4	DST	6	56394513	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08	1603312	56394513	114720554	20	7323											
LAMA4	3910	hgsc.bcm.edu;ucsc.edu	37	chr6	112522880	112522880	+	Frame_Shift_Del	DEL	T	T	-																															ccatttttcctatagcaggaTtctgcaaaactaaaattgga																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		-	112522880	T	-	112522880	7	5	129	1	0	1	0	1	0	0	0	0	8608	1490	52	0	5179	0	LAMA4	6	112522880	Frame_Shift_Del	DEL	T	TCGA-B0-5108-01A-01D-1421-08	56128367	112522880	58592187	21	7324											
RBM16	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	155153658	155153658	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagtcaaccagaaagacCttttttagctcctggaagac	12	13	7	9	0	1	3	1	0	0	3	2	4	2	4	3	1	2	1	3	1	5	5	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	155153658	C	T	155153658	3	4	129	1	0	0	0	0	1	0	0	0	13120	681	24	2	3023	2	RBM16	6	155153658	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08	42630778	155153658	15961409	22	7325											
ELN	2006	broad.mit.edu	37	chr7	73462860	73462860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccccaggcagcagcagcagCggcagctaaagcagcagcaa	13	1	12	15	1	0	0	0	0	0	0	0	0	0	0	2	2	8	9	2	2	3	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	73462860	T	T	73462860	3	4	129	1	0	0	0	0	1	0	0	0	5071	768	27	1	846	1	ELN	7	73462860	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08		73462860	85675803	23	7326											
FBXO43	286151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	101153613	101153613	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcatctgttccacaagttGttccactaacagaggagccc	10	10	7	14	0	2	1	1	0	1	1	4	2	4	2	4	1	2	3	4	1	2	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	101153613	G	C	101153613	3	2	129	1	0	0	0	0	1	0	0	0	5752	1377	48	4	1273	4	FBXO43	8	101153613	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08		101153613	45210409	24	7327											
UHRF2	115426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	6420934	6420934	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaatggatataccttatTtgattatgatgttggactga	13	15	10	3	0	0	3	0	3	0	0	0	6	0	6	1	3	1	1	1	3	6	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	6420934	T	C	6420934	3	2	129	1	0	0	0	0	1	0	0	0	16969	1841	64	3	182	3	UHRF2	9	6420934	Missense_Mutation	SNP	T	TCGA-B0-5108-01A-01D-1421-08		6420934	134792497	25	7328											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	56077194	56077194	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctctcattcagattttggGcacggtcctgttagggagaa	8	12	12	9	1	2	2	2	0	1	2	4	3	3	2	2	3	0	2	2	3	2	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	56077194	G	T	56077194	3	4	129	1	0	0	0	0	1	0	0	0	11511	1203	42	4	6902	4	PCDH15	10	56077194	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08		56077194	79457553	26	7329											
CD44	960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	35208449	35208449	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggaccaattaccataagTatgtctctcttctaatctta	12	15	5	9	0	4	0	0	0	4	0	5	2	4	1	2	1	1	1	2	1	6	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	35208449	T	A	35208449	5	1	129	1	0	0	0	0	0	0	1	0	3017	1652	57	5	452	5	CD44	11	35208449	Splice_Site	SNP	T	TCGA-B0-5108-01A-01D-1421-08		35208449	99798067	27	7330											
SLC22A6	9356	broad.mit.edu;hgsc.bcm.edu	37	chr11	62744780	62744780	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaggcatggaggggtagaGctcggcagtcatgctcacca	10	6	16	9	1	2	2	2	0	0	2	3	4	2	3	1	5	2	5	1	5	1	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	62744780	G	A	62744780	3	1	129	1	0	0	0	0	1	0	0	0	14460	971	34	2	258	2	SLC22A6	11	62744780	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	27536331	62744780	72261736	28	7331											
SIK2	23235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111591281	111591281	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atggggtctgttcagagggaCctgaactttctggaagacaa	11	10	13	7	0	3	3	1	1	2	2	3	5	3	5	1	4	1	1	1	4	3	2	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		G	111591281	C	G	111591281	3	3	129	1	0	0	0	0	1	0	0	0	14320	506	18	4	1617	4	SIK2	11	111591281	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08	48846501	111591281	23415235	29	7332											
IGSF9B	22997	hgsc.bcm.edu	37	chr11	133802056	133802056	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcagcggatgtagccatgGatccccacgggcacgtaaat	10	6	14	11	3	0	0	0	0	0	0	1	2	1	2	3	4	2	4	3	4	3	2	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	133802056	G	T	133802056	2	4	129	1	0	0	0	0	0	0	0	1	7606	1164	41	4		4	IGSF9B	11	133802056	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08	22210775	133802056	1204460	30	7333											
PLBD1	79887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14656715	14656715	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctccctccttcattttatAtcaagtttcaaaattggttt	10	19	3	9	0	4	0	3	0	1	0	6	0	5	0	2	1	0	2	2	1	5	7	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		G	14656715	A	G	14656715	2	3	129	1	0	0	0	0	0	0	0	1	12025	446	16	3		3	PLBD1	12	14656715	Silent	SNP	A	TCGA-B0-5108-01A-01D-1421-08		14656715	119195180	31	7334											
GUCY2C	2984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14832651	14832651	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctcggtcacccttcagcTtgtagaggaactctggacca	8	10	10	13	1	3	1	2	0	1	1	4	3	3	3	2	3	3	3	2	3	2	3	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	14832651	T	A	14832651	3	1	129	1	0	0	0	0	1	0	0	0	6896	1609	56	5	2539	5	GUCY2C	12	14832651	Missense_Mutation	SNP	T	TCGA-B0-5108-01A-01D-1421-08	175936	14832651	119019244	32	7335											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49420872	49420872	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgggcacggggcttgggtcgGgctgattcaggggatgaggc	5	7	21	8	3	1	2	1	2	0	0	2	3	1	3	0	8	0	3	0	8	0	2	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	49420872	G	C	49420872	2	2	129	1	0	0	0	0	0	0	0	1	9621	1219	43	4		4	MLL2	12	49420872	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08	34588221	49420872	84431023	33	7336											
SRGAP1	57522	hgsc.bcm.edu;ucsc.edu	37	chr12	64472751	64472752	+	Frame_Shift_Ins	INS	-	-	C																															atacaagatatggtcaccatINScgaggactatgatgtttctg																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	64472752	-	C	64472751	7	5	129	1	0	1	1	0	0	0	0	0	15146	1435	50	0	1212	0	SRGAP1	12	64472751	Frame_Shift_Ins	INS	-	TCGA-B0-5108-01A-01D-1421-08	15051879	64472751	69379144	34	7337											
C12orf51	0	hgsc.bcm.edu;ucsc.edu	37	chr12	112650435	112650435	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccctcagttctctcccaGccaattcctgccacgtcacc	6	10	5	20	1	3	0	2	0	1	0	7	0	6	0	7	0	2	1	7	0	1	2	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	112650435	G	C	112650435	2	2	129	1	0	0	0	0	0	0	0	1	1696	958	34	4		4	C12orf51	12	112650435	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08	48177684	112650435	21201460	35	7338											
FREM2	341640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	39420850	39420850	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggaaaacagatcctcccTctgcagatggtgagcagttt	10	10	10	11	1	1	3	0	1	1	2	4	4	3	4	2	2	3	3	2	2	2	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	39420850	T	C	39420850	3	2	129	1	0	0	0	0	1	0	0	0	6045	1551	54	3	6186	3	FREM2	13	39420850	Missense_Mutation	SNP	T	TCGA-B0-5108-01A-01D-1421-08		39420850	75749028	36	7339											
TGM1	7051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24731316	24731316	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagtctgagccccgggaGccaggtcttcgagtgccaga	7	6	16	12	3	2	2	0	1	2	1	3	5	2	4	4	3	3	0	4	3	0	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	24731316	G	A	24731316	2	1	129	1	0	0	0	0	0	0	0	1	15828	958	34	2		2	TGM1	14	24731316	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08		24731316	82618224	37	7340											
SOS2	6655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	50626575	50626575	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtaacctggaagccgagTctggccatgattaggtttac	10	11	11	9	1	1	1	0	1	1	0	1	3	1	2	3	3	3	2	3	3	4	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		G	50626575	T	G	50626575	3	3	129	1	0	0	0	0	1	0	0	0	14939	1667	58	5	2628	5	SOS2	14	50626575	Missense_Mutation	SNP	T	TCGA-B0-5108-01A-01D-1421-08	25895259	50626575	56722965	38	7341											
DYNC1LI2	1783	hgsc.bcm.edu	37	chr16	66761652	66761653	+	Frame_Shift_Ins	INS	-	-	G																															aggagctaggcacactggctINSggccctccccgaccctgggt																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		G	66761653	-	G	66761652	7	5	129	1	0	1	1	0	0	0	0	0	4845	1567	55	0	290	0	DYNC1LI2	16	66761652	Frame_Shift_Ins	INS	-	TCGA-B0-5108-01A-01D-1421-08		66761652	23593101	39	7342											
KRT16	3868	broad.mit.edu	37	chr17	39768515	39768515	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttcacttccaggtcggcGttggcctcctccagagcacg	6	10	10	15	3	2	1	1	0	1	1	6	1	5	1	4	3	1	2	4	3	0	3	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	39768515	C	C	39768515	3	2	129	1	0	0	0	0	1	0	0	0	8453	1136	40	4	1027	4	KRT16	17	39768515	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08		39768515	41426695	40	7343											
ASXL3	80816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	31318800	31318800	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agacaatacctgaattttctGaggaggctgaaagtctaacc	14	10	9	8	0	2	4	0	3	2	1	2	5	2	5	2	2	2	1	2	2	5	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	31318800	G	A	31318800	3	1	129	1	0	0	0	0	1	0	0	0	1068	1291	45	2	1474	2	ASXL3	18	31318800	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08		31318800	46758448	41	7344											
APC2	10297	broad.mit.edu	37	chr19	1456344	1456344	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggtgccggtggacgaggacCccgagacagaggtccccaca	9	3	15	14	4	0	2	0	0	0	2	1	6	1	4	5	5	1	0	5	5	0	0	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	1456344	A	A	1456344	3	1	129	1	0	0	0	0	1	0	0	0	764	623	22	4	783	4	APC2	19	1456344	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08		1456344	57672639	42	7345											
C3	718	broad.mit.edu	37	chr19	6694615	6694615	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcagccgttccgcgtcgacgGcatcctctgtcatctgggcc	4	10	11	16	5	4	0	2	0	2	0	7	1	6	0	4	2	1	2	4	2	0	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	6694615	C	C	6694615	3	2	129	1	0	0	0	0	1	0	0	0	2204	1203	42	4	2082	4	C3	19	6694615	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	5238271	6694615	52434368	43	7346											
ZNF302	55900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35175869	35175869	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctaagaattcatacgcaAgaaaaacgctatgagtgtcg	16	9	8	8	3	2	3	1	1	1	2	3	3	2	3	0	0	2	2	0	0	7	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		G	35175869	A	G	35175869	2	3	129	1	0	0	0	0	0	0	0	1	17831	69	3	3		3	ZNF302	19	35175869	Silent	SNP	A	TCGA-B0-5108-01A-01D-1421-08	28481254	35175869	23953114	44	7347											
MEGF8	1954	hgsc.bcm.edu	37	chr19	42830478	42830478	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcccctggggcccgggcggGggactgcaaggggcagcggc	4	3	21	13	3	0	0	0	0	0	0	1	1	1	1	3	8	2	2	3	8	1	0	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	42830478	G	C	42830478	3	2	129	1	0	0	0	0	1	0	0	0	9463	1232	43	4	85	4	MEGF8	19	42830478	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	7654609	42830478	16298505	45	7348											
ZNF528	84436	hgsc.bcm.edu;ucsc.edu	37	chr19	52918827	52918827	+	Frame_Shift_Del	DEL	A	A	-																															gcatactggagagaagccttAcaaatgtcatgaatgtggca																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		-	52918827	A	-	52918827	7	5	129	1	0	1	0	1	0	0	0	0	17968	391	14	0	736	0	ZNF528	19	52918827	Frame_Shift_Del	DEL	A	TCGA-B0-5108-01A-01D-1421-08	10088349	52918827	6210156	46	7349											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57326087	57326087	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaagtctcatatgctcAttaagggcagagctatgaat	13	12	9	7	0	2	3	2	2	1	1	3	3	2	3	0	1	2	3	0	1	6	4	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	57326087	A	C	57326087	3	2	129	1	0	0	0	0	1	0	0	0	11720	214	8	5	1047	5	PEG3	19	57326087	Missense_Mutation	SNP	A	TCGA-B0-5108-01A-01D-1421-08	4407260	57326087	1802896	47	7350											
PLCB4	5332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	9374306	9374306	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcataaaaaacaagcggctGaaacctgaagttgaaaaaag	20	6	8	7	1	1	3	1	3	0	0	1	3	1	3	1	1	3	2	1	1	9	2	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	9374306	G	T	9374306	2	4	129	1	0	0	0	0	0	0	0	1	12030	1277	45	4		4	PLCB4	20	9374306	Silent	SNP	G	TCGA-B0-5108-01A-01D-1421-08		9374306	53651214	48	7351											
NINL	22981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	25442206	25442206	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcagctctgaccatggcagCtgcaggctctgatgttcctg	6	11	12	12	0	3	2	1	2	2	0	4	2	4	2	2	2	3	6	2	2	0	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	25442206	C	A	25442206	3	1	129	1	0	0	0	0	1	0	0	0	10420	796	28	4	516	4	NINL	20	25442206	Missense_Mutation	SNP	C	TCGA-B0-5108-01A-01D-1421-08	16067900	25442206	37583314	49	7352											
ASXL1	171023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31025137	31025137	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtattgtgccttgtggtgaGataataaattatggccatgg	10	15	12	4	0	0	1	0	1	0	1	0	2	0	1	2	3	1	1	2	3	5	6	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		C	31025137	G	C	31025137	3	2	129	1	0	0	0	0	1	0	0	0	1066	942	33	4	4678	4	ASXL1	20	31025137	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	5582931	31025137	32000383	50	7353											
MIOX	55586	broad.mit.edu	37	chr22	50926751	50926751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgacctggggaaggtcctgGccctgttcggggagccccag	6	6	16	13	2	0	0	0	0	0	0	2	3	1	2	5	6	1	1	5	6	1	1	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		A	50926751	A	A	50926751	3	1	129	1	0	0	0	0	1	0	0	0	9590	1203	42	2	406	2	MIOX	22	50926751	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08		50926751	377815	51	7354											
KDM5C	8242	broad.mit.edu;ucsc.edu	37	chrX	53230876	53230877	+	Frame_Shift_Ins	INS	-	T	T																															cctcatgggagaagacgcagINStatctccggagccggcggta																								novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	-	-	-	T	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	53230877	T	T	53230876	7	5	129	1	0	1	1	0	0	0	0	0	8135	1024	36	0	2915	0	KDM5C	23	53230876	Frame_Shift_Ins	INS	-	TCGA-B0-5108-01A-01D-1421-08		53230876	102039684	52	7355											
BHLHB9	80823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	102005104	102005104	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tactctgaatcctccttctgGggatgaaagacaacgcaaaa	14	9	8	10	1	2	3	0	2	2	1	4	4	4	4	2	2	2	1	2	2	6	2	novel		TCGA-B0-5108-01A-01D-1421-08	TCGA-B0-5108-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1d37af8-d2c3-4825-8e47-1a2e52e3acbb	39bbe17d-0e43-43a7-920f-88547ae97ebf		T	102005104	G	T	102005104	3	4	129	1	0	0	0	0	1	0	0	0	1420	1232	43	4	1183	4	BHLHB9	23	102005104	Missense_Mutation	SNP	G	TCGA-B0-5108-01A-01D-1421-08	48774228	102005104	53265456	53	7356											
MEGF6	1953	hgsc.bcm.edu	37	chr1	3413839	3413840	+	Frame_Shift_Ins	INS	-	-	G																															aagccagggggacagcggcaINSggccccagtgacgtggtggc																								novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	3413840	-	G	3413839	7	5	130	1	0	1	1	0	0	0	0	0	9462	188	7	0	1230	0	MEGF6	1	3413839	Frame_Shift_Ins	INS	-	TCGA-B0-5109-01A-02D-1421-08		3413839	245836782	1	7357											
PI4KB	5298	broad.mit.edu;hgsc.bcm.edu	37	chr1	151288136	151288136	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggcatctgacttagaGcgctggtgagtccttttgga	7	12	14	8	1	1	3	0	2	1	1	2	4	2	4	1	3	1	3	1	3	1	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	151288136	G	A	151288136	2	1	130	1	0	0	0	0	0	0	0	1	11874	958	34	2		2	PI4KB	1	151288136	Silent	SNP	G	TCGA-B0-5109-01A-02D-1421-08	147874297	151288136	97962485	2	7358											
ILDR2	387597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	166908755	166908755	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaatgaccgaatacctggCataatctccacagcaaaact	16	9	5	11	1	1	1	0	1	1	0	2	2	1	1	3	1	3	2	3	1	7	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	166908755	C	T	166908755	3	4	130	1	0	0	0	0	1	0	0	0	7710	710	25	2	1395	2	ILDR2	1	166908755	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	15620619	166908755	82341866	3	7359											
ZNF670	93474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247202840	247202840	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaaatgacactgaatcCtagaatatcgcacatatgtg	14	12	6	9	1	2	3	1	2	1	1	4	3	3	3	1	0	0	1	1	0	6	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	247202840	C	T	247202840	5	4	130	1	0	0	0	0	0	0	1	0	18076	695	24	2	1178	2	ZNF670	1	247202840	Splice_Site	SNP	C	TCGA-B0-5109-01A-02D-1421-08	80294085	247202840	2047781	4	7360											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228881360	228881360	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcctggcacgaggaagtttCttttttagaatctaaagggc	10	13	11	7	1	2	1	0	0	2	1	3	3	3	2	1	3	0	2	1	3	5	5	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	228881360	C	G	228881360	3	3	130	1	0	0	0	0	1	0	0	0	15049	922	32	4	916	4	SPHKAP	2	228881360	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08		228881360	14318013	5	7361											
IL17RC	84818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9960258	9960258	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcctgctggaggtgcaaGtgcctgctgcccttgtgcag	4	10	15	12	1	0	0	0	0	0	0	1	1	1	1	3	2	6	4	3	2	1	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	9960258	G	T	9960258	3	4	130	1	0	0	0	0	1	0	0	0	7641	1029	36	4	661	4	IL17RC	3	9960258	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		9960258	188062172	6	7362											
NPHP3	27031	broad.mit.edu;hgsc.bcm.edu	37	chr3	132416207	132416207	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagtgtaggccacaacCttttatgtaaagaaaagaaa	18	9	9	5	0	0	3	0	1	0	2	0	4	0	3	2	1	1	2	2	1	9	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	132416207	C	A	132416207	5	1	130	1	0	0	0	0	0	0	1	0	10580	695	24	4	2063	4	NPHP3	3	132416207	Splice_Site	SNP	C	TCGA-B0-5109-01A-02D-1421-08	122455949	132416207	65606223	7	7363											
RPL22L1	200916	broad.mit.edu;ucsc.edu	37	chr3	170585834	170585834	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctcagaaacaactgtGattttattcttgaagcgttc	10	17	7	7	1	2	3	1	2	2	1	4	3	2	3	0	0	3	2	0	0	4	6	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	170585834	T	T	170585834	2	4	130	1	0	0	0	0	0	0	0	1	13571	1280	45	4		4	RPL22L1	3	170585834	Silent	SNP	G	TCGA-B0-5109-01A-02D-1421-08	38169627	170585834	27436596	8	7364											
CLCN2	1181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184064449	184064449	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccgggggaggccatgaCgggagtggggcccccagagt	6	4	18	13	2	0	2	0	1	0	1	1	4	1	4	5	6	0	0	5	6	0	0	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	184064449	C	T	184064449	3	4	130	1	0	0	0	0	1	0	0	0	3463	536	19	1	58	1	CLCN2	3	184064449	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	13478615	184064449	13957981	9	7365											
FGFR3	2261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1804696	1804696	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcctggccaatgtgtCggagcgggacgggggcgagt	5	6	18	12	5	0	0	0	0	0	0	2	3	1	2	4	5	1	0	4	5	1	0	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	1804696	C	A	1804696	4	1	130	1	0	0	0	0	0	1	0	0	5867	893	31	4	1012	4	FGFR3	4	1804696	Nonsense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08		1804696	189349580	10	7366											
GBA3	57733	broad.mit.edu;hgsc.bcm.edu	37	chr4	22820365	22820365	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatccaacttgataaagtcaAtcttcaagtatattgtgcat	14	15	5	7	0	3	1	2	1	1	0	4	1	4	1	1	0	2	2	1	0	8	7	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	22820365	A	G	22820365	3	3	130	1	0	0	0	0	1	0	0	0	6268	101	4	3	1247	3	GBA3	4	22820365	Missense_Mutation	SNP	A	TCGA-B0-5109-01A-02D-1421-08	21015669	22820365	168333911	11	7367											
PTGER4	5734	hgsc.bcm.edu;ucsc.edu	37	chr5	40692474	40692475	+	Frame_Shift_Del	DEL	TA	TA	-																															ctgaacttatcagaaaaatgTatataataggcaaggaaaga																								novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		-	40692475	TA	-	40692474	7	5	130	1	0	1	0	1	0	0	0	0	12747	1644	57	0	1467	0	PTGER4	5	40692474	Frame_Shift_Del	DEL	TA	TCGA-B0-5109-01A-02D-1421-08		40692474	140222786	12	7368											
TRIM36	55521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	114513529	114513529	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccacctttagaagtcaacCgggaatgctcatgggtttgc	9	11	10	11	1	2	1	2	0	0	1	3	2	3	2	3	2	3	2	3	2	4	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	114513529	C	T	114513529	3	4	130	1	0	0	0	0	1	0	0	0	16509	652	23	1	2369	1	TRIM36	5	114513529	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	73821055	114513529	66401731	13	7369											
PCDHGB3	56102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140750550	140750550	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacccagagctagtactgAaagcacccctggacagggaa	13	5	12	11	0	0	2	0	1	0	1	0	4	0	4	3	3	4	4	3	3	5	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	140750550	A	T	140750550	4	4	130	1	0	0	0	0	0	1	0	0	11564	247	9	5	591	5	PCDHGB3	5	140750550	Nonsense_Mutation	SNP	A	TCGA-B0-5109-01A-02D-1421-08	26237021	140750550	40164710	14	7370											
CCNJL	79616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	159680467	159680467	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtggcgaggcagtgcctgGgctcagctgcaatggccata	7	8	16	10	1	1	0	1	0	0	0	1	1	1	0	2	5	3	4	2	5	2	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	159680467	G	C	159680467	3	2	130	1	0	0	0	0	1	0	0	0	2929	1232	43	4	85	4	CCNJL	5	159680467	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	18929917	159680467	21234793	15	7371											
PNPLA1	285848	broad.mit.edu	37	chr6	36259314	36259314	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttcagagttcacgtccaaGgaggagctcattgaggcaag	11	9	13	8	1	3	2	3	1	0	1	4	4	4	4	1	3	1	4	1	3	2	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	36259314	T	T	36259314	3	4	130	1	0	0	0	0	1	0	0	0	12164	991	35	4	429	4	PNPLA1	6	36259314	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		36259314	134855753	16	7372											
MAP7	9053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	136682267	136682267	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcgactcctcctcacggCgagtcgtcctctcttcagcc	4	10	9	18	5	3	0	2	0	1	0	8	2	6	0	4	1	2	0	4	1	0	1	rs35107962	bycluster;byfrequency;alternate_allele	TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	136682267	C	T	136682267	3	4	130	1	0	0	0	0	1	0	0	0	9266	768	27	1	700	1	MAP7	6	136682267	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	100422953	136682267	34432800	17	7373											
MIOS	54468	hgsc.bcm.edu;ucsc.edu	37	chr7	7635995	7635995	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgagtggctcaccaacGaaatctaaagtcacaagttg	13	9	11	8	1	3	1	2	1	1	0	3	2	3	1	1	2	1	2	1	2	5	2	rs115055951	byfrequency;by1000genomes;alternate_allele	TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	7635995	G	T	7635995	2	4	130	1	0	0	0	0	0	0	0	1	9589	1045	37	4		4	MIOS	7	7635995	Silent	SNP	G	TCGA-B0-5109-01A-02D-1421-08		7635995	151502668	18	7374											
HNRNPA2B1	3181	hgsc.bcm.edu	37	chr7	26235512	26235512	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagccatccccaaatccacGtccactgccatatccatctg	11	9	4	17	1	1	0	0	0	1	0	5	0	5	0	7	0	2	0	7	0	3	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	26235512	G	T	26235512	3	4	130	1	0	0	0	0	1	0	0	0	7259	1145	40	4	365	4	HNRNPA2B1	7	26235512	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	18599517	26235512	132903151	19	7375											
IKZF1	10320	broad.mit.edu	37	chr7	50467716	50467716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaccaagccatcaacaaCgccatcaactacctgggggc	13	5	9	14	1	2	0	2	0	0	0	2	1	2	1	4	3	5	0	4	3	5	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	50467716	T	T	50467716	2	4	130	1	0	0	0	0	0	0	0	1	7614	535	19	1		1	IKZF1	7	50467716	Silent	SNP	C	TCGA-B0-5109-01A-02D-1421-08	24232204	50467716	108670947	20	7376											
FKBP6	8468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	72745747	72745747	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actaccttttccgccagaatCgtttctatgatgccaaagtg	10	13	7	11	2	1	2	0	1	1	1	3	2	2	2	4	0	2	1	4	0	4	5	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	72745747	C	T	72745747	3	4	130	1	0	0	0	0	1	0	0	0	5912	884	31	1	620	1	FKBP6	7	72745747	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	22278031	72745747	86392916	21	7377											
ZSCAN21	7589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99662005	99662005	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtaacgaatgtgggaagaGcttcagtcagcatgcgggcc	10	8	15	8	2	2	1	2	0	0	1	2	3	2	2	1	2	4	3	1	2	3	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	99662005	G	A	99662005	3	1	130	1	0	0	0	0	1	0	0	0	18232	971	34	2	1197	2	ZSCAN21	7	99662005	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	26916258	99662005	59476658	22	7378											
PODXL	5420	broad.mit.edu;hgsc.bcm.edu	37	chr7	131194328	131194328	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtctgttgagttctttgCgagataaccgatgacgctgt	8	13	13	7	3	2	3	0	2	2	1	2	6	2	3	1	1	2	3	1	1	1	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	131194328	C	T	131194328	2	4	130	1	0	0	0	0	0	0	0	1	12180	755	27	1		1	PODXL	7	131194328	Silent	SNP	C	TCGA-B0-5109-01A-02D-1421-08	31532323	131194328	27944335	23	7379											
PRKAG2	51422	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151262817	151262817	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaaacctgactcatccAcaacaggcagagctgatatt	15	7	6	13	0	1	3	1	2	0	1	2	3	2	3	2	1	3	2	2	1	3	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	151262817	A	C	151262817	3	2	130	1	0	0	0	0	1	0	0	0	12503	159	6	5	341	5	PRKAG2	7	151262817	Missense_Mutation	SNP	A	TCGA-B0-5109-01A-02D-1421-08	20068489	151262817	7875846	24	7380											
CHD7	55636	hgsc.bcm.edu	37	chr8	61777948	61777948	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcttgggcgggctgttgaAtaaccctctgtcagctgcta	6	12	13	10	1	2	1	1	1	1	0	2	1	2	1	1	3	3	5	1	3	3	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	61777948	A	G	61777948	3	3	130	1	0	0	0	0	1	0	0	0	3330	101	4	3	8596	3	CHD7	8	61777948	Missense_Mutation	SNP	A	TCGA-B0-5109-01A-02D-1421-08		61777948	84586074	25	7381											
CLVS1	157807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	62212433	62212433	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatcagaagttaaacacttGgaacggagatttggccaaga	16	9	10	6	1	1	3	1	0	0	3	1	5	1	4	1	3	2	1	1	3	6	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	62212433	G	T	62212433	3	4	130	1	0	0	0	0	1	0	0	0	3571	1357	47	4	49	4	CLVS1	8	62212433	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	434485	62212433	84151589	26	7382											
VPS13A	23230	hgsc.bcm.edu;ucsc.edu	37	chr9	79908261	79908261	+	Frame_Shift_Del	DEL	T	T	-																															attttctcttattaaggctgTttatatcactggaaaagaag																								novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		-	79908261	T	-	79908261	7	5	130	1	0	1	0	1	0	0	0	0	17188	1725	60	0	3470	0	VPS13A	9	79908261	Frame_Shift_Del	DEL	T	TCGA-B0-5109-01A-02D-1421-08		79908261	61305170	27	7383											
OMD	4958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95177538	95177538	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgatcttcactttcatCatcatcatctggaaatctcc	10	15	4	12	1	8	1	5	1	3	0	10	2	8	2	1	1	0	0	1	1	1	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	95177538	C	A	95177538	3	1	130	1	0	0	0	0	1	0	0	0	10865	826	29	4	107	4	OMD	9	95177538	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	15269277	95177538	46035893	28	7384											
ABCA1	19	broad.mit.edu;ucsc.edu	37	chr9	107558370	107558370	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagcacaaaggtggccacGctgccattaatgccaatgaa	13	7	9	12	1	0	1	0	1	0	0	1	1	1	1	4	2	3	2	4	2	4	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	107558370	C	C	107558370	3	2	130	1	0	0	0	0	1	0	0	0	28	1078	38	4	1487	4	ABCA1	9	107558370	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	12380832	107558370	33655061	29	7385											
SPTAN1	6709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131345086	131345086	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgatgagctcaagagttgGgtcaatgagaagatgaaaac	15	9	12	5	0	3	6	2	4	1	3	3	7	3	6	0	1	2	2	0	1	5	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	131345086	G	C	131345086	3	2	130	1	0	0	0	0	1	0	0	0	15118	1241	43	4	1814	4	SPTAN1	9	131345086	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	23786716	131345086	9868345	30	7386											
ABCA2	20	broad.mit.edu;hgsc.bcm.edu	37	chr9	139909971	139909971	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcagcacttgagcttccCatgggagatgatggcaatgc	9	8	13	11	1	0	3	0	2	0	1	1	4	1	3	2	2	3	4	2	2	1	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	139909971	C	A	139909971	3	1	130	1	0	0	0	0	1	0	0	0	32	594	21	4	3822	4	ABCA2	9	139909971	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	8564885	139909971	1303460	31	7387											
PCDH15	65217	broad.mit.edu	37	chr10	55944912	55944912	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgaaaaggtgtaagtttgCtgttcttccctgtccactgg	8	13	10	10	1	1	0	0	0	1	0	3	1	3	0	3	2	1	4	3	2	3	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	55944912	A	A	55944912	3	1	130	1	0	0	0	0	1	0	0	0	11511	796	28	4	6152	4	PCDH15	10	55944912	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08		55944912	79589835	32	7388											
HECTD2	143279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93258806	93258806	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaattgcttttcagaatatGtacagctttatactgacttc	13	16	5	7	0	1	2	1	1	0	1	2	2	1	2	0	0	4	3	0	0	7	9	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	93258806	G	A	93258806	3	1	130	1	0	0	0	0	1	0	0	0	7040	1377	48	2	1943	2	HECTD2	10	93258806	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	37313894	93258806	42275941	33	7389											
IPO7	10527	broad.mit.edu;hgsc.bcm.edu	37	chr11	9446754	9446754	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaccaaatgctgaccctcGaaaaaaagatggagccctgc	16	5	9	11	1	0	3	0	1	0	2	1	5	0	4	3	1	4	1	3	1	5	0	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	9446754	G	A	9446754	3	1	130	1	0	0	0	0	1	0	0	0	7797	1058	37	1	1326	1	IPO7	11	9446754	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		9446754	125559762	34	7390											
LRP5	4041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68125161	68125161	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgagacgccccggattgagCgggcagggatggatggcagc	8	5	19	9	3	0	2	0	2	0	1	0	6	0	5	2	5	2	2	2	5	0	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	68125161	C	A	68125161	2	1	130	1	0	0	0	0	0	0	0	1	8960	759	27	4		4	LRP5	11	68125161	Silent	SNP	C	TCGA-B0-5109-01A-02D-1421-08	58678407	68125161	66881355	35	7391											
GPR162	27239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6936017	6936017	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggacgaggaagaggctgAaggtggggggctggccagcc	9	3	22	7	1	0	2	0	1	0	1	0	6	0	5	2	9	1	2	2	9	2	0	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	6936017	A	T	6936017	3	4	130	1	0	0	0	0	1	0	0	0	6666	246	9	5	1448	5	GPR162	12	6936017	Missense_Mutation	SNP	A	TCGA-B0-5109-01A-02D-1421-08		6936017	126915878	36	7392											
LUM	4060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	91502697	91502697	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggaaaatcataatcataGtactggccactggtaccacc	14	8	9	10	0	2	0	2	0	0	0	2	1	2	1	3	4	2	2	3	4	6	4	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	91502697	G	C	91502697	4	2	130	1	0	0	0	0	0	1	0	0	9085	1024	36	4	964	4	LUM	12	91502697	Nonsense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	84566680	91502697	42349198	37	7393											
ANO4	121601	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	101504334	101504334	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaagggccaaagacataGgtaagttggatttgggtatg	12	11	13	5	0	1	1	1	0	0	1	1	2	1	2	1	4	0	3	1	4	5	6	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	101504334	G	C	101504334	3	2	130	1	0	0	0	0	1	0	0	0	699	1014	35	4	2279	4	ANO4	12	101504334	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08	10001637	101504334	32347561	38	7394											
MYCBP2	23077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	77817235	77817235	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttctgattacacgttgcCgtttttcttcttgtcgtaac	5	18	7	11	3	3	1	0	1	3	0	4	1	3	1	2	0	3	3	2	0	2	8	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	77817235	C	G	77817235	3	3	130	1	0	0	0	0	1	0	0	0	10018	652	23	4	11716	4	MYCBP2	13	77817235	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08		77817235	37352643	39	7395											
MYH7	4625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23890215	23890215	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgccgagggcctgttcAtcctcaatccttgcgttgag	5	12	12	12	2	2	1	2	1	0	0	4	2	4	1	4	2	2	3	4	2	1	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	23890215	A	T	23890215	3	4	130	1	0	0	0	0	1	0	0	0	10039	214	8	5	2579	5	MYH7	14	23890215	Missense_Mutation	SNP	A	TCGA-B0-5109-01A-02D-1421-08		23890215	83459325	40	7396											
ARID4A	5926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58831552	58831552	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggaatgccatcattgatAgcagagtcaaaccaatgcat	16	8	9	8	0	2	2	2	1	0	1	2	4	2	3	2	1	4	2	2	1	5	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	58831552	A	C	58831552	2	2	130	1	0	0	0	0	0	0	0	1	919	410	15	5		5	ARID4A	14	58831552	Silent	SNP	A	TCGA-B0-5109-01A-02D-1421-08	34941337	58831552	48517988	41	7397											
CSPG4	1464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75977757	75977757	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagttttgcgcctctagtgGgatggcagcgggcagcacct	7	9	15	10	2	1	0	0	0	1	0	1	2	1	1	2	3	3	4	2	3	2	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	75977757	G	C	75977757	3	2	130	1	0	0	0	0	1	0	0	0	3960	1232	43	4	2921	4	CSPG4	15	75977757	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		75977757	26553635	42	7398											
ATF7IP2	80063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10525162	10525162	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagactcaggttttgtgcctGttgagaaaacacctaatttg	12	13	9	7	0	1	2	1	1	0	2	1	3	1	2	2	1	2	2	2	1	4	5	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	10525162	G	T	10525162	3	4	130	1	0	0	0	0	1	0	0	0	1088	1377	48	4	687	4	ATF7IP2	16	10525162	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		10525162	79829591	43	7399											
DDX28	55794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68055772	68055772	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtatgtctcgggagctcTtctggaaggactggaagatt	10	11	14	6	1	3	1	0	0	3	1	4	6	3	5	0	4	1	2	0	4	4	3	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		C	68055772	T	C	68055772	3	2	130	1	0	0	0	0	1	0	0	0	4355	1609	56	3	292	3	DDX28	16	68055772	Missense_Mutation	SNP	T	TCGA-B0-5109-01A-02D-1421-08	57530610	68055772	22298981	44	7400											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7701105	7701105	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataacctgtcaccctctgtcGtgcccatgcagctagtgctc	7	11	8	15	1	2	0	1	0	1	0	4	0	2	0	3	0	5	3	3	0	2	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	7701105	G	A	7701105	3	1	130	1	0	0	0	0	1	0	0	0	4602	1145	40	1	8394	1	DNAH2	17	7701105	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		7701105	73494105	45	7401											
SOX9	6662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	70119701	70119701	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggcaatcccagggcccaCcgaccccacccaccaccccc	9	1	7	24	1	0	0	0	0	0	0	1	1	1	0	9	2	0	1	9	2	1	0	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	70119701	C	G	70119701	3	3	130	1	0	0	0	0	1	0	0	0	14960	507	18	4	713	4	SOX9	17	70119701	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08	62418596	70119701	11075509	46	7402											
USH1G	124590	broad.mit.edu	37	chr17	72919137	72919137	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggagctccaggtagccaTcccgggctgcccggtggtac	6	7	15	13	2	0	1	0	1	0	0	2	2	2	2	4	5	4	4	4	5	2	2	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		G	72919137	G	G	72919137	3	3	130	1	0	0	0	0	1	0	0	0	17034	1435	50	5	1365	5	USH1G	17	72919137	Missense_Mutation	SNP	T	TCGA-B0-5109-01A-02D-1421-08	2799436	72919137	8276073	47	7403											
SLC39A6	25800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33689577	33689577	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagaaatttatacgaaacacGattttatgttcaaatatgga	17	14	6	4	2	1	1	1	0	0	1	1	4	1	2	0	1	2	1	0	1	8	8	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	33689577	G	A	33689577	2	1	130	1	0	0	0	0	0	0	0	1	14624	1048	37	1		1	SLC39A6	18	33689577	Silent	SNP	G	TCGA-B0-5109-01A-02D-1421-08		33689577	44387671	48	7404											
ZNF180	7733	hgsc.bcm.edu;ucsc.edu	37	chr19	44982265	44982265	+	Frame_Shift_Del	DEL	C	C	-																															tgaagataaccaaggatcatCccttgtaaacctttctatct																								novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		-	44982265	C	-	44982265	7	5	130	1	0	1	0	1	0	0	0	0	17747	855	30	0	1649	0	ZNF180	19	44982265	Frame_Shift_Del	DEL	C	TCGA-B0-5109-01A-02D-1421-08		44982265	14146718	49	7405											
CSE1L	1434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47682942	47682942	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggcagagaagattttcCacagaaatggcctgacttgc	12	11	10	8	0	0	4	0	1	0	3	1	5	1	4	2	2	1	1	2	2	3	5	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	47682942	C	A	47682942	3	1	130	1	0	0	0	0	1	0	0	0	3930	594	21	4	385	4	CSE1L	20	47682942	Missense_Mutation	SNP	C	TCGA-B0-5109-01A-02D-1421-08		47682942	15342578	50	7406											
RSPH1	89765	hgsc.bcm.edu;ucsc.edu	37	chr21	43897417	43897417	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactctcagctcctggagcGtcttggccaggtccatccgt	6	10	10	15	2	2	0	1	0	2	0	6	1	5	1	4	3	2	1	4	3	0	1	rs75626002	byfrequency	TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	43897417	G	A	43897417	2	1	130	1	0	0	0	0	0	0	0	1	13704	1136	40	1		1	RSPH1	21	43897417	Silent	SNP	G	TCGA-B0-5109-01A-02D-1421-08		43897417	4232478	51	7407											
TRIOBP	11078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38151617	38151617	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccggcggaactggatcGaggctctgagaaagaccgta	11	6	14	10	4	1	2	0	1	1	2	3	6	2	4	2	4	1	3	2	4	3	1	rs185078175	by1000genomes;alternate_allele	TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		T	38151617	G	T	38151617	4	4	130	1	0	0	0	0	0	1	0	0	16552	1059	37	4	5875	4	TRIOBP	22	38151617	Nonsense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		38151617	13152949	52	7408											
CHST7	56548	broad.mit.edu	37	chrX	46433704	46433704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatgccacctggcgcaccgGctcgtccttcctgggcgaac	5	7	12	17	4	0	0	0	0	0	0	3	1	2	0	5	3	2	3	5	3	1	1	novel		TCGA-B0-5109-01A-02D-1421-08	TCGA-B0-5109-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	58d6e408-ed00-4e1f-bffa-e73250cfe4a0	d6cfdaff-0147-415a-8b30-aaa03a3a5aee		A	46433704	A	A	46433704	3	1	130	1	0	0	0	0	1	0	0	0	3409	1203	42	2	340	2	CHST7	23	46433704	Missense_Mutation	SNP	G	TCGA-B0-5109-01A-02D-1421-08		46433704	108836856	53	7409											
AGRN	375790	broad.mit.edu	37	chr1	985094	985094	+	Frame_Shift_Del	DEL	C	-	-																															gcggggaccacccctgcctgCccaacccctgccatggcggg																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	985094	-	-	985094	7	5	131	1	0	1	0	1	0	0	0	0	397	739	26	0	4765	0	AGRN	1	985094	Frame_Shift_Del	DEL	C	TCGA-B0-5110-01A-01D-1421-08		985094	248265527	1	7410											
KIAA0319L	79932	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35917273	35917273	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctggctttgcaggttcCtctcatctttgacagtcaag	7	14	9	11	0	4	1	2	1	3	0	6	1	5	1	1	2	2	4	1	2	1	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	35917273	C	T	35917273	3	4	131	1	0	0	0	0	1	0	0	0	8169	681	24	2	1167	2	KIAA0319L	1	35917273	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	34932179	35917273	213333348	2	7411											
CLCA1	1179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86947888	86947888	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccttcctatattttcagAtgttcagcaggtattactgg	10	16	7	8	0	2	1	2	0	0	1	3	1	3	1	2	2	3	3	2	2	5	9	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	86947888	A	G	86947888	2	3	131	1	0	0	0	0	0	0	0	1	3457	347	12	3		3	CLCA1	1	86947888	Silent	SNP	A	TCGA-B0-5110-01A-01D-1421-08	51030615	86947888	162302733	3	7412											
PRMT6	55170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	107599560	107599560	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctaccgcctgggtatcCttcggaactgggcagcactg	7	9	12	13	2	0	0	0	0	0	0	2	1	1	1	4	3	4	3	4	3	3	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	107599560	C	A	107599560	3	1	131	1	0	0	0	0	1	0	0	0	12542	681	24	4	225	4	PRMT6	1	107599560	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	20651672	107599560	141651061	4	7413											
KRTCAP2	200185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155145769	155145771	+	In_Frame_Del	DEL	CTA	CTA	-																															gctgaaccgggtgcggttagCtatgcgcatgcgtcagcgct																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	CTA	CTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	155145771	CTA	-	155145769	7	5	131	1	0	1	0	1	0	0	0	0	8578	797	28	0	498	0	KRTCAP2	1	155145769	In_Frame_Del	DEL	CTA	TCGA-B0-5110-01A-01D-1421-08	47546209	155145769	94104852	5	7414											
GBA	2629	broad.mit.edu	37	chr1	155205493	155205493	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtggccaaggtggtagAacatgggctgtttgtaaaac	12	10	14	5	0	0	2	0	1	0	1	0	2	0	2	1	4	2	4	1	4	6	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	155205493	T	T	155205493	3	4	131	1	0	0	0	0	1	0	0	0	6266	246	9	5	255	5	GBA	1	155205493	Missense_Mutation	SNP	A	TCGA-B0-5110-01A-01D-1421-08	59724	155205493	94045128	6	7415											
FAM5B	57795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	177250548	177250548	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttctcctgcttgctcCggcatcggcttaagctggcc	4	13	9	15	2	1	0	0	0	1	0	4	0	2	0	4	3	3	5	4	3	1	4	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	177250548	C	T	177250548	3	4	131	1	0	0	0	0	1	0	0	0	5593	643	23	1	2262	1	FAM5B	1	177250548	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	22045055	177250548	72000073	7	7416											
SIPA1L2	57568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	232538143	232538143	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccaattgattaccttccGaaggtcggtctggagttgtc	7	14	10	10	2	1	1	0	1	1	0	5	3	3	2	3	3	1	1	3	3	3	5	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	232538143	G	A	232538143	3	1	131	1	0	0	0	0	1	0	0	0	14332	1057	37	1	159	1	SIPA1L2	1	232538143	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	55287595	232538143	16712478	8	7417											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32631593	32631593	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactggaggattcagacaGtgaagagcattccagatcag	13	10	11	7	0	2	4	2	1	0	3	3	6	3	6	1	2	2	1	1	2	2	4	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	32631593	G	A	32631593	3	1	131	1	0	0	0	0	1	0	0	0	1438	1029	36	2	1479	2	BIRC6	2	32631593	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08		32631593	210567780	9	7418											
EHBP1	23301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63101527	63101527	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caactcctcctccaaataatTtggtaaatcctgttcaagaa	14	12	4	11	0	1	1	1	0	0	1	5	1	5	1	4	1	1	2	4	1	7	4	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	63101527	T	A	63101527	3	1	131	1	0	0	0	0	1	0	0	0	4975	1838	64	5	1188	5	EHBP1	2	63101527	Missense_Mutation	SNP	T	TCGA-B0-5110-01A-01D-1421-08	30469934	63101527	180097846	10	7419											
KDM3A	55818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86712976	86712976	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggccccaagatgtataatGcttatggtaaggaggagatg	12	10	14	5	0	0	2	0	0	0	2	0	4	0	3	2	4	1	3	2	4	5	4	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	86712976	G	A	86712976	3	1	131	1	0	0	0	0	1	0	0	0	8126	1319	46	2	3385	2	KDM3A	2	86712976	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	23611449	86712976	156486397	11	7420											
THSD7B	80731	hgsc.bcm.edu;ucsc.edu	37	chr2	137917883	137917884	+	Frame_Shift_Del	DEL	GT	GT	-																															gactgcatagtatcttcctgGtcagcctggggcctgtgcat																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	137917884	GT	-	137917883	7	5	131	1	0	1	0	1	0	0	0	0	15879	1270	44	0	1395	0	THSD7B	2	137917883	Frame_Shift_Del	DEL	GT	TCGA-B0-5110-01A-01D-1421-08	51204907	137917883	105281490	12	7421											
GLB1	2720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33093265	33093265	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaccattccaataggcaaAattggtcccacctataaaca	15	10	4	12	0	0	0	0	0	0	0	2	0	2	0	4	2	2	1	4	2	8	6	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	33093265	A	C	33093265	3	2	131	1	0	0	0	0	1	0	0	0	6427	14	1	5	1125	5	GLB1	3	33093265	Missense_Mutation	SNP	A	TCGA-B0-5110-01A-01D-1421-08		33093265	164929165	13	7422											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52595863	52595864	+	Frame_Shift_Del	DEL	TC	TC	-																															tgagctccccgaaagagtagTctgggtgttgggccttaatc																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	TC	TC	TC	-	TC	TC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	52595864	TC	-	52595863	7	5	131	1	0	1	0	1	0	0	0	0	11491	1667	58	0	716	0	PBRM1	3	52595863	Frame_Shift_Del	DEL	TC	TCGA-B0-5110-01A-01D-1421-08	19502598	52595863	145426567	14	7423											
KLHL6	89857	broad.mit.edu;ucsc.edu	37	chr3	183211912	183211912	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtaggtctccacattgttGattctctgtaagccgtcaaa	9	14	8	10	2	3	1	1	1	2	0	6	1	3	1	2	1	1	3	2	1	3	5	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	183211912	T	T	183211912	2	4	131	1	0	0	0	0	0	0	0	1	8393	1280	45	4		4	KLHL6	3	183211912	Silent	SNP	G	TCGA-B0-5110-01A-01D-1421-08	130616049	183211912	14810518	15	7424											
HGFAC	3083	broad.mit.edu;ucsc.edu	37	chr4	3446996	3446996	+	Frame_Shift_Del	DEL	C	-	-																															cacttatgcaccgcaggaatCcggacaatgacgagaggccc																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	3446996	-	-	3446996	7	5	131	1	0	1	0	1	0	0	0	0	7086	855	30	0	1055	0	HGFAC	4	3446996	Frame_Shift_Del	DEL	C	TCGA-B0-5110-01A-01D-1421-08		3446996	187707280	16	7425											
MAN2B2	23324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	6611625	6611625	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tctgccaccggatagagcagGagtaccaagccggccccctg	9	5	12	15	2	1	1	0	0	1	1	1	3	1	3	6	3	4	2	6	3	3	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	6611625	G	C	6611625	3	2	131	1	0	0	0	0	1	0	0	0	9217	1175	41	4	2157	4	MAN2B2	4	6611625	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	3164629	6611625	184542651	17	7426											
KCTD8	386617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	44450161	44450161	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgcgcagcagccgctccTtctcggggaagtgctccggc	4	7	13	17	5	1	0	0	0	1	0	5	1	3	1	4	3	3	4	4	3	1	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	44450161	T	C	44450161	3	2	131	1	0	0	0	0	1	0	0	0	8115	1609	56	3	1049	3	KCTD8	4	44450161	Missense_Mutation	SNP	T	TCGA-B0-5110-01A-01D-1421-08	37838536	44450161	146704115	18	7427											
OTUD4	54726	broad.mit.edu;hgsc.bcm.edu	37	chr4	146063450	146063450	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctctggagaaactagaagggGagctggatttgacaaagaca	15	7	13	6	0	1	4	0	1	1	3	1	7	1	6	0	4	2	1	0	4	4	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	146063450	G	A	146063450	3	1	131	1	0	0	0	0	1	0	0	0	11314	1174	41	2	1640	2	OTUD4	4	146063450	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	101613289	146063450	45090826	19	7428											
CCNC	892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	100009547	100009547	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttaagatgttcacctaaTgcttggataactaaaaggca	16	12	7	6	0	1	1	1	0	0	1	1	2	1	2	1	2	2	3	1	2	6	7	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	100009547	T	A	100009547	2	1	131	1	0	0	0	0	0	0	0	1	2915	1451	51	5		5	CCNC	6	100009547	Silent	SNP	T	TCGA-B0-5110-01A-01D-1421-08		100009547	71105520	20	7429											
KATNA1	11104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	149944376	149944376	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaccatgtgatttagggtCactgtactgagaagattggc	11	13	11	6	0	1	3	1	2	0	2	1	4	1	3	1	2	2	1	1	2	4	5	rs142263647	alternate_allele	TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	149944376	C	A	149944376	3	1	131	1	0	0	0	0	1	0	0	0	7984	826	29	4	1143	4	KATNA1	6	149944376	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	49934829	149944376	21170691	21	7430											
AKAP9	10142	hgsc.bcm.edu;ucsc.edu	37	chr7	91708532	91708532	+	Frame_Shift_Del	DEL	A	A	-																															gattgaaaaacttcaacaggAattggcaaatattggacaga																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	91708532	A	-	91708532	7	5	131	1	0	1	0	1	0	0	0	0	459	246	9	0	7207	0	AKAP9	7	91708532	Frame_Shift_Del	DEL	A	TCGA-B0-5110-01A-01D-1421-08		91708532	67430131	22	7431											
SOX7	83595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10583337	10583337	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgggacccgttggtgtcaCctgggagaccggaacatgcc	7	8	15	11	2	1	1	1	0	0	1	1	4	1	3	4	4	2	1	4	4	1	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	10583337	C	A	10583337	3	1	131	1	0	0	0	0	1	0	0	0	14958	507	18	4	92	4	SOX7	8	10583337	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08		10583337	135780685	23	7432											
HR	55806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	21985225	21985225	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgcagtgaagggcgttCggcctccccggctctctgca	4	9	14	14	3	1	1	0	1	1	0	4	1	2	1	3	4	2	4	3	4	1	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	21985225	C	A	21985225	4	1	131	1	0	0	0	0	0	1	0	0	7347	893	31	4	2907	4	HR	8	21985225	Nonsense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	11401888	21985225	124378797	24	7433											
PURG	29942	broad.mit.edu	37	chr8	30889379	30889379	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctccccaaaccttgtcCaagctttgaatggaacagta	13	11	6	11	0	1	1	0	1	1	0	3	2	2	2	4	1	3	2	4	1	6	4	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	30889379	G	G	30889379	3	3	131	1	0	0	0	0	1	0	0	0	12831	595	21	4	236	4	PURG	8	30889379	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	8904154	30889379	115474643	25	7434											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	86047101	86047101	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttaaagatggttttgaaaAtgttgcaactgagttagcaa	14	13	11	3	0	0	3	0	2	0	1	0	3	0	3	0	2	3	6	0	2	7	5	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	86047101	A	G	86047101	3	3	131	1	0	0	0	0	1	0	0	0	9026	101	4	3	2038	3	LRRCC1	8	86047101	Missense_Mutation	SNP	A	TCGA-B0-5110-01A-01D-1421-08	55157722	86047101	60316921	26	7435											
BSPRY	54836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116132237	116132237	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttctcacacaatgggcagCacgagcccctggggctgctg	7	8	13	13	1	1	0	1	0	1	0	2	1	1	0	2	3	3	5	2	3	1	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	116132237	C	A	116132237	3	1	131	1	0	0	0	0	1	0	0	0	1532	710	25	4	1046	4	BSPRY	9	116132237	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08		116132237	25081194	27	7436											
FAM21B	55747	hgsc.bcm.edu	37	chr10	47909179	47909181	+	In_Frame_Del	DEL	ATA	ATA	-																															ctgtttgctagatgaagaggAtaacttattcacacccccca																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	ATA	ATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	47909181	ATA	-	47909179	7	5	131	1	0	1	0	1	0	0	0	0	5541	333	12	0	787	0	FAM21B	10	47909179	In_Frame_Del	DEL	ATA	TCGA-B0-5110-01A-01D-1421-08		47909179	87625568	28	7437											
MYOF	26509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	95076526	95076526	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catatctgaatgatcagcctGggtgggattcgaaattccgt	10	12	11	8	2	2	2	1	2	1	0	4	4	3	3	2	2	1	0	2	2	3	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	95076526	G	C	95076526	2	2	131	1	0	0	0	0	0	0	0	1	10089	1335	47	4		4	MYOF	10	95076526	Silent	SNP	G	TCGA-B0-5110-01A-01D-1421-08	47167347	95076526	40458221	29	7438											
PIK3AP1	118788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	98405300	98405300	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcgtcacagccggggttGagcgagcatttcataagcag	9	9	12	11	3	2	1	2	1	0	0	4	2	3	1	2	2	4	3	2	2	1	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	98405300	G	A	98405300	2	1	131	1	0	0	0	0	0	0	0	1	11908	1277	45	2		2	PIK3AP1	10	98405300	Silent	SNP	G	TCGA-B0-5110-01A-01D-1421-08	3328774	98405300	37129447	30	7439											
C10orf62	414157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99350271	99350271	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggccacagtcaccacaGtcaccatggccacccaagcc	11	5	7	18	0	2	0	2	0	0	0	2	0	2	0	6	2	1	0	6	2	2	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	99350271	G	C	99350271	3	2	131	1	0	0	0	0	1	0	0	0	1611	1029	36	4	619	4	C10orf62	10	99350271	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	944971	99350271	36184476	31	7440											
ADD3	120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	111877147	111877147	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attataataattcccagaggCctatctttttctgaagctac	12	15	5	9	0	2	2	0	1	2	1	3	2	3	2	2	1	2	1	2	1	6	8	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	111877147	C	T	111877147	2	4	131	1	0	0	0	0	0	0	0	1	306	726	26	2		2	ADD3	10	111877147	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08	12526876	111877147	23657600	32	7441											
OR5D14	219436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55563209	55563209	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaaccccaaatttcacactCctatgtactttttccttagt	10	17	2	12	0	1	0	1	0	0	0	3	0	3	0	4	0	2	1	4	0	5	7	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	55563209	C	A	55563209	3	1	131	1	0	0	0	0	1	0	0	0	11155	855	30	4	180	4	OR5D14	11	55563209	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08		55563209	79443307	33	7442											
OR5T2	219464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55999686	55999686	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcaaactgtagatgacggGattcagcaagggaatcacaa	15	7	10	9	1	3	2	3	1	0	1	3	4	3	4	1	2	2	2	1	2	5	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	55999686	G	T	55999686	3	4	131	1	0	0	0	0	1	0	0	0	11182	1174	41	4	102	4	OR5T2	11	55999686	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	436477	55999686	79006830	34	7443											
ZFPL1	7542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64854837	64854837	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgaccggacaccaggcctCcatggagactgtgacgatga	11	6	13	11	2	0	4	0	3	0	1	1	8	1	5	4	3	0	0	4	3	0	0	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	64854837	C	A	64854837	2	1	131	1	0	0	0	0	0	0	0	1	17655	842	30	4		4	ZFPL1	11	64854837	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08	8855151	64854837	70151679	35	7444											
OAF	220323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	120096481	120096481	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgagatcatccccagtGaggccatggccaagctccgg	11	6	11	13	1	1	2	1	2	0	1	3	3	3	2	5	3	1	1	5	3	2	0	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	120096481	G	T	120096481	4	4	131	1	0	0	0	0	0	1	0	0	10798	1291	45	4	349	4	OAF	11	120096481	Nonsense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	55241644	120096481	14910035	36	7445											
CCDC15	80071	hgsc.bcm.edu;ucsc.edu	37	chr11	124824706	124824706	+	Frame_Shift_Del	DEL	G	G	-																															ttaaaccccctgaagagcaaGgacgtgttggcagtgctggc																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	124824706	G	-	124824706	7	5	131	1	0	1	0	1	0	0	0	0	2784	991	35	0	80	0	CCDC15	11	124824706	Frame_Shift_Del	DEL	G	TCGA-B0-5110-01A-01D-1421-08	4728225	124824706	10181810	37	7446											
FGF6	2251	broad.mit.edu	37	chr12	4554409	4554409	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtaggggttctcctcgtGggtcccgctgatccggccgt	3	11	14	13	4	1	1	0	1	1	0	5	1	3	1	4	4	0	3	4	4	1	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	4554409	T	T	4554409	3	4	131	1	0	0	0	0	1	0	0	0	5856	1348	47	4	310	4	FGF6	12	4554409	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08		4554409	129297486	38	7447											
ABCC9	10060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21968702	21968702	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgatttcataccttttGtccaggtttgatgtaagcct	8	16	9	8	0	1	2	1	2	0	0	2	2	2	2	3	1	2	3	3	1	2	6	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	21968702	G	T	21968702	3	4	131	1	0	0	0	0	1	0	0	0	59	1386	48	4	801	4	ABCC9	12	21968702	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	17414293	21968702	111883193	39	7448											
BCDIN3D	144233	broad.mit.edu	37	chr12	50236870	50236870	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttccgtgggcaccgccaTtagcctcaacacagcctctg	8	8	9	16	2	2	0	1	0	1	0	3	0	3	0	5	1	3	2	5	1	2	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	50236870	A	A	50236870	3	1	131	1	0	0	0	0	1	0	0	0	1357	1493	52	5	885	5	BCDIN3D	12	50236870	Missense_Mutation	SNP	T	TCGA-B0-5110-01A-01D-1421-08	28268168	50236870	83615025	40	7449											
VEZT	55591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	95676229	95676229	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttatctgatgtgactcaAggtctacctcatgctcattc	9	15	6	11	0	6	2	3	2	3	0	7	2	6	2	1	1	2	1	1	1	3	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	95676229	A	G	95676229	2	3	131	1	0	0	0	0	0	0	0	1	17155	69	3	3		3	VEZT	12	95676229	Silent	SNP	A	TCGA-B0-5110-01A-01D-1421-08	45439359	95676229	38175666	41	7450											
OAS3	4940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113379477	113379477	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtggaccagagggcccgcCgtgcagagatcctcagtgag	9	6	15	11	2	1	3	1	1	0	2	2	5	2	4	4	2	1	1	4	2	0	0	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	113379477	C	T	113379477	3	4	131	1	0	0	0	0	1	0	0	0	10801	652	23	1	286	1	OAS3	12	113379477	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	17703248	113379477	20472418	42	7451											
ANAPC5	51433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121758187	121758187	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccatgcaaaaggcagattaCctgggcgtgctgactattag	11	9	12	9	1	0	2	0	1	0	1	0	2	0	2	2	2	3	3	2	2	5	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	121758187	C	A	121758187	5	1	131	1	0	0	0	0	0	0	1	0	605	521	18	4	775	4	ANAPC5	12	121758187	Splice_Site	SNP	C	TCGA-B0-5110-01A-01D-1421-08	8378710	121758187	12093708	43	7452											
HIP1R	9026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123343990	123343990	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggaactgaaacccaagagCctagatgtgcggcaggagga	14	4	14	9	1	0	3	0	1	0	2	0	6	0	6	2	4	4	1	2	4	4	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	123343990	C	T	123343990	2	4	131	1	0	0	0	0	0	0	0	1	7115	738	26	2		2	HIP1R	12	123343990	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08	1585803	123343990	10507905	44	7453											
SLC7A1	6541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	30098300	30098300	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcagtcaaagcccacgaaGgcatagaagcaagtcgctgc	14	5	11	11	2	1	1	1	0	0	1	2	2	1	1	1	1	4	4	1	1	5	1	rs138795948	byfrequency	TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	30098300	G	A	30098300	2	1	131	1	0	0	0	0	0	0	0	1	14694	987	35	2		2	SLC7A1	13	30098300	Silent	SNP	G	TCGA-B0-5110-01A-01D-1421-08		30098300	85071578	45	7454											
C13orf23	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	39587314	39587314	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggaagagcagtgaatactGgtgcaatgggagtggaggaa	15	6	17	3	0	0	2	0	1	0	1	0	6	0	6	0	5	3	2	0	5	6	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	39587314	G	A	39587314	3	1	131	1	0	0	0	0	1	0	0	0	1721	1348	47	2	771	2	C13orf23	13	39587314	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	9489014	39587314	75582564	46	7455											
KBTBD7	84078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41767262	41767262	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgacagtcttagtgtGagcaaagctggtcaaagggg	11	8	17	5	0	2	2	1	2	1	0	2	3	2	3	0	5	2	2	0	5	3	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	41767262	G	T	41767262	3	4	131	1	0	0	0	0	1	0	0	0	7998	1290	45	4	926	4	KBTBD7	13	41767262	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	2179948	41767262	73402616	47	7456											
MYO16	23026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	109672228	109672228	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccctcaaagaccacggtaCagccttcaccatcatgcact	11	8	6	16	1	3	1	3	0	0	1	3	1	3	1	4	1	4	2	4	1	2	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	109672228	C	T	109672228	3	4	131	1	0	0	0	0	1	0	0	0	10064	478	17	2	2785	2	MYO16	13	109672228	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	67904966	109672228	5497650	48	7457											
EIF5	1983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	103802419	103802419	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagttatagtcaacatggTtgacgttgcaaaggcgctta	12	11	11	7	2	1	1	1	1	0	0	1	2	1	1	0	2	2	5	0	2	5	5	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	103802419	T	C	103802419	3	2	131	1	0	0	0	0	1	0	0	0	5040	1725	60	3	125	3	EIF5	14	103802419	Missense_Mutation	SNP	T	TCGA-B0-5110-01A-01D-1421-08		103802419	3547121	49	7458											
TYRO3	7301	hgsc.bcm.edu	37	chr15	41865311	41865311	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctgctcggaattgcatgTacgaattctggaggactcga	9	11	13	8	3	1	0	0	0	1	0	3	5	1	3	0	4	3	4	0	4	3	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	41865311	T	C	41865311	5	2	131	1	0	0	0	0	0	0	1	0	16813	1652	57	3	2049	3	TYRO3	15	41865311	Splice_Site	SNP	T	TCGA-B0-5110-01A-01D-1421-08		41865311	60666081	50	7459											
AGBL1	123624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	86838616	86838616	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgcctgagtccaacaGtgatgagcatctagagcagt	11	8	12	10	0	1	4	0	3	1	1	2	4	2	4	3	1	4	2	3	1	2	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	86838616	G	C	86838616	3	2	131	1	0	0	0	0	1	0	0	0	375	1029	36	4	2271	4	AGBL1	15	86838616	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	44973305	86838616	15692776	51	7460											
ERI2	112479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20802204	20802204	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaagaaaagcatgctggtcCcctgaggccagatcactgtt	11	9	11	10	0	1	4	1	2	0	2	2	4	2	4	3	2	2	3	3	2	3	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	20802204	C	A	20802204	2	1	131	1	0	0	0	0	0	0	0	1	5228	610	22	4		4	ERI2	16	20802204	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08		20802204	69552549	52	7461											
SBK1	388228	broad.mit.edu	37	chr16	28331871	28331871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactggccctggagcccgagCgccgcggcccagccaaggag	7	3	15	16	4	0	0	0	0	0	0	0	3	0	2	5	4	4	0	5	4	2	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	28331871	T	T	28331871	3	4	131	1	0	0	0	0	1	0	0	0	13862	768	27	1	914	1	SBK1	16	28331871	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	7529667	28331871	62022882	53	7462											
SLC5A2	6524	broad.mit.edu	37	chr16	31496212	31496212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcagggactggcgctgcaAgtggcttggctgttgctgga	5	10	18	8	1	0	0	0	0	0	0	0	2	0	2	0	6	2	7	0	6	1	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	31496212	G	G	31496212	3	3	131	1	0	0	0	0	1	0	0	0	14667	72	3	3	281	3	SLC5A2	16	31496212	Missense_Mutation	SNP	A	TCGA-B0-5110-01A-01D-1421-08	3164341	31496212	58858541	54	7463											
CHD9	80205	hgsc.bcm.edu;ucsc.edu	37	chr16	53296952	53296952	+	Frame_Shift_Del	DEL	C	C	-																															atttctttagatgatcccaaCttctggcaaaaatgggctaa																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	53296952	C	-	53296952	7	5	131	1	0	1	0	1	0	0	0	0	3332	564	20	0	4337	0	CHD9	16	53296952	Frame_Shift_Del	DEL	C	TCGA-B0-5110-01A-01D-1421-08	21800740	53296952	37057801	55	7464											
AMAC1L3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7385621	7385621	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccgaggccgggcctacttCtatgccctgctcaacgtcct	6	10	9	16	3	2	0	1	0	1	0	4	1	4	0	5	2	4	1	5	2	3	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	7385621	C	T	7385621	2	4	131	1	0	0	0	0	0	0	0	1	561	912	32	2		2	AMAC1L3	17	7385621	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08		7385621	73809589	56	7465											
C17orf68	0	hgsc.bcm.edu	37	chr17	8139457	8139458	+	Frame_Shift_Ins	INS	-	-	T																															tgctgggcatggggagtggcINSttggggtcagcctctaagag																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	8139458	-	T	8139457	7	5	131	1	0	1	1	0	0	0	0	0	1876	796	28	0	2729	0	C17orf68	17	8139457	Frame_Shift_Ins	INS	-	TCGA-B0-5110-01A-01D-1421-08	753836	8139457	73055753	57	7466											
MYH2	4620	hgsc.bcm.edu;ucsc.edu	37	chr17	10427079	10427079	+	Frame_Shift_Del	DEL	A	A	-																															gtgtgcctgccactcacatcAgtgatggccttcttggcctt																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	10427079	A	-	10427079	7	5	131	1	0	1	0	1	0	0	0	0	10035	175	7	0	547	0	MYH2	17	10427079	Frame_Shift_Del	DEL	A	TCGA-B0-5110-01A-01D-1421-08	2287622	10427079	70768131	58	7467											
CACNB1	782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37333729	37333729	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caataggcttccaagtactcCgccagatgctcgcaggcatc	10	8	9	14	2	0	1	0	0	0	1	4	1	2	1	3	2	2	5	3	2	4	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	37333729	C	T	37333729	2	4	131	1	0	0	0	0	0	0	0	1	2552	639	23	1		1	CACNB1	17	37333729	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08	26906650	37333729	43861481	59	7468											
ERBB2	2064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37866350	37866350	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaacagtgacgcgcactGtctgtgccggtggctgtgcc	5	8	14	14	3	1	1	0	1	1	0	1	1	1	1	3	2	3	2	3	2	1	0	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	37866350	G	A	37866350	3	1	131	1	0	0	0	0	1	0	0	0	5206	1377	48	2	677	2	ERBB2	17	37866350	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	532621	37866350	43328860	60	7469											
HOXB4	3214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46654154	46654154	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctgccgcaccacccgagCggatcttggtgttgggcaac	7	7	13	14	3	1	0	0	0	1	0	1	2	1	1	4	3	4	3	4	3	1	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	46654154	C	T	46654154	3	4	131	1	0	0	0	0	1	0	0	0	7303	768	27	1	73	1	HOXB4	17	46654154	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	8787804	46654154	34541056	61	7470											
CCBE1	147372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	57136800	57136800	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggccaaagttgtccgtgCactgctgttcacagggagcc	7	9	12	13	2	1	0	1	0	0	0	3	1	2	1	3	2	3	4	3	2	1	2	rs121908251	alternate_allele	TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	57136800	C	T	57136800	3	4	131	1	0	0	0	0	1	0	0	0	2731	710	25	2	947	2	CCBE1	18	57136800	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08		57136800	20940448	62	7471											
QTRT1	81890	hgsc.bcm.edu;ucsc.edu	37	chr19	10818039	10818039	+	Frame_Shift_Del	DEL	G	G	-																															actgtgactgggccacgtgtGgaggaggccatgtacaggtg																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	10818039	G	-	10818039	7	5	131	1	0	1	0	1	0	0	0	0	12887	1335	47	0	527	0	QTRT1	19	10818039	Frame_Shift_Del	DEL	G	TCGA-B0-5110-01A-01D-1421-08		10818039	48310944	63	7472											
OR7A10	390892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14952067	14952067	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatcccagtgaggggaccaCcgcccagcagcgctactgca	9	4	13	15	2	0	1	0	1	0	0	1	3	1	3	4	3	4	3	4	3	1	1	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	14952067	C	G	14952067	3	3	131	1	0	0	0	0	1	0	0	0	11214	507	18	4	310	4	OR7A10	19	14952067	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	4134028	14952067	44176916	64	7473											
ILVBL	10994	broad.mit.edu;hgsc.bcm.edu	37	chr19	15227242	15227242	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggtctgctccttctgccgGtcggcttcccgcagctcctc	3	11	10	17	3	2	0	0	0	2	0	7	0	5	0	4	3	3	4	4	3	1	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	15227242	G	T	15227242	3	4	131	1	0	0	0	0	1	0	0	0	7715	1252	44	4	644	4	ILVBL	19	15227242	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01D-1421-08	275175	15227242	43901741	65	7474											
ZSCAN5A	79149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56732944	56732944	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatagaccggattatgcaaTcactgagaagtagcttctgg	12	10	11	8	1	2	2	1	1	1	2	2	4	2	3	1	2	2	4	1	2	5	4	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	56732944	T	C	56732944	3	2	131	1	0	0	0	0	1	0	0	0	18237	1448	50	3	3	3	ZSCAN5A	19	56732944	Missense_Mutation	SNP	T	TCGA-B0-5110-01A-01D-1421-08	41505702	56732944	2396039	66	7475											
SLC7A4	6545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21385823	21385823	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgtgcgtggcacacgtgcCccaaattctgcatagcatag	9	8	10	14	3	1	0	0	0	1	0	1	0	1	0	3	1	4	3	3	1	3	3	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	21385823	C	T	21385823	2	4	131	1	0	0	0	0	0	0	0	1	14701	610	22	2		2	SLC7A4	22	21385823	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08		21385823	29918743	67	7476											
MXRA5	25878	hgsc.bcm.edu;ucsc.edu	37	chrX	3240485	3240494	+	Frame_Shift_Del	DEL	TGGAGTGTGT	TGGAGTGTGT	-																															gccctcactctcagaacttcTggagtgtgtggggtctccct																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	TGGAGTGTGT	TGGAGTGTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		-	3240494	TGGAGTGTGT	-	3240485	7	5	131	1	0	1	0	1	0	0	0	0	10003	1588	55	0	5257	0	MXRA5	23	3240485	Frame_Shift_Del	DEL	TGGAGTGTGT	TCGA-B0-5110-01A-01D-1421-08		3240485	152030075	68	7477											
BEND2	139105	broad.mit.edu;ucsc.edu	37	chrX	18219956	18219956	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatagggagggatgaagaCagataaagaggcagtatttt	18	8	13	2	0	0	4	0	1	0	3	0	6	0	6	0	3	0	2	0	3	7	5	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	18219956	G	G	18219956	3	3	131	1	0	0	0	0	1	0	0	0	1398	478	17	4	1449	4	BEND2	23	18219956	Missense_Mutation	SNP	C	TCGA-B0-5110-01A-01D-1421-08	14979471	18219956	137050604	69	7478											
PABPC5	140886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	90691350	90691350	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaaaaggctgtgctagaCttgcatggaaagtccatcga	12	8	11	10	1	0	1	0	0	0	1	2	3	1	2	2	2	2	3	2	2	4	2	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		T	90691350	C	T	90691350	2	4	131	1	0	0	0	0	0	0	0	1	11367	564	20	2		2	PABPC5	23	90691350	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08	72471394	90691350	64579210	70	7479											
ODZ1	0	hgsc.bcm.edu	37	chrX	123654451	123654452	+	Frame_Shift_Ins	INS	-	-	G																															tagacaagattaattgcggcINSgggaaaccacttctgtgtga																								novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		G	123654452	-	G	123654451	7	5	131	1	0	1	1	0	0	0	0	0	10834	768	27	0	5041	0	ODZ1	23	123654451	Frame_Shift_Ins	INS	-	TCGA-B0-5110-01A-01D-1421-08	32963101	123654451	31616109	71	7480											
GABRQ	55879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151818948	151818948	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagggaagttaacagctaccTtgtgcaagtctactggccta	11	10	11	9	0	1	0	0	0	1	0	1	2	1	1	2	2	5	3	2	2	6	5	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		C	151818948	T	C	151818948	3	2	131	1	0	0	0	0	1	0	0	0	6175	1609	56	3	832	3	GABRQ	23	151818948	Missense_Mutation	SNP	T	TCGA-B0-5110-01A-01D-1421-08	28164497	151818948	3451612	72	7481											
SLC6A8	6535	broad.mit.edu	37	chrX	152954167	152954167	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggggacacccggcggccgCctggccgtgccgccgcgcga	3	3	17	18	8	0	0	0	0	0	0	0	2	0	1	6	5	1	0	6	5	0	0	novel		TCGA-B0-5110-01A-01D-1421-08	TCGA-B0-5110-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	527f7650-6818-4c7c-8e5f-4c9e8d3c0108	2b88b60a-5378-4380-9f83-10825a34e71c		A	152954167	A	A	152954167	2	1	131	1	0	0	0	0	0	0	0	1	14692	726	26	4		4	SLC6A8	23	152954167	Silent	SNP	C	TCGA-B0-5110-01A-01D-1421-08	1135219	152954167	2316393	73	7482											
VHL	7428	hgsc.bcm.edu	37	chr3	10183794	10183794	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtcgtgctgcccgtatGgctcaacttcgacggcgagc	5	8	14	14	7	1	0	1	0	0	0	3	2	1	0	1	2	4	3	1	2	2	2	rs119103277	alternate_allele	TCGA-B0-5110-01A-01W-1475-10	TCGA-B0-5110-11A-01W-1475-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	0399f90c-5559-4133-bb49-6c173550d76a	5f350c92-67ce-4ba9-91a3-9ea27f65a2e4		T	10183794	G	T	10183794	3	4	132	1	0	0	0	0	1	0	0	0	17161	1357	47	4	265	4	VHL	3	10183794	Missense_Mutation	SNP	G	TCGA-B0-5110-01A-01W-1475-10		10183794	187838636	1	7483											
DNALI1	7802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38022628	38022628	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagactctttgctcaagtaCgacaccccagtgctggtgag	9	9	11	12	1	2	2	1	1	1	1	2	3	2	2	2	1	3	4	2	1	2	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	38022628	C	T	38022628	2	4	133	1	0	0	0	0	0	0	0	1	4659	547	19	1		1	DNALI1	1	38022628	Silent	SNP	C	TCGA-B0-5113-01A-01D-1421-08		38022628	211227993	1	7484											
CACHD1	57685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	65143848	65143848	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttttctggcagggactgTtttggggtgctggattgtga	4	17	16	4	0	1	1	0	1	1	0	1	3	1	3	0	5	1	4	0	5	0	5	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	65143848	T	C	65143848	2	2	133	1	0	0	0	0	0	0	0	1	2537	1731	60	3		3	CACHD1	1	65143848	Silent	SNP	T	TCGA-B0-5113-01A-01D-1421-08	27121220	65143848	184106773	2	7485											
ZZZ3	26009	broad.mit.edu;hgsc.bcm.edu	37	chr1	78045311	78045311	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagtagctgttccagcttTttctaagccatacccaagac	11	12	7	11	0	1	2	0	1	1	1	2	2	2	2	3	0	4	4	3	0	4	6	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	78045311	T	C	78045311	2	2	133	1	0	0	0	0	0	0	0	1	18255	1838	64	3		3	ZZZ3	1	78045311	Silent	SNP	T	TCGA-B0-5113-01A-01D-1421-08	12901463	78045311	171205310	3	7486											
NEXN	91624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78383401	78383401	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaacaaagaagaaaagaaCaatatattagagagagagaa	27	4	8	2	0	0	6	0	0	0	6	0	8	0	6	0	0	2	0	0	0	12	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	78383401	C	A	78383401	3	1	133	1	0	0	0	0	1	0	0	0	10355	479	17	4	184	4	NEXN	1	78383401	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08	338090	78383401	170867220	4	7487											
DNTTIP2	30836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94335473	94335473	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgctgctttttcagccatGatctctgagtacttccttcg	5	18	7	11	1	2	2	1	2	1	0	5	2	3	2	2	0	4	3	2	0	1	6	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	94335473	G	A	94335473	2	1	133	1	0	0	0	0	0	0	0	1	4682	1280	45	2		2	DNTTIP2	1	94335473	Silent	SNP	G	TCGA-B0-5113-01A-01D-1421-08	15952072	94335473	154915148	5	7488											
B4GALT3	8703	hgsc.bcm.edu;ucsc.edu	37	chr1	161141850	161141851	+	Frame_Shift_Ins	INS	-	-	A																															catcccatcttgcgtccaggINSaattctgggtacggaccagg																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	161141851	-	A	161141850	7	5	133	1	0	1	1	0	0	0	0	0	1272	1174	41	0	247	0	B4GALT3	1	161141850	Frame_Shift_Ins	INS	-	TCGA-B0-5113-01A-01D-1421-08	66806377	161141850	88108771	6	7489											
CFH	3075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196695938	196695938	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgaacttgaacatggctggGcccagctttcttcccctcct	6	12	8	15	0	1	2	0	2	1	0	3	2	3	2	4	2	3	2	4	2	2	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	196695938	G	A	196695938	3	1	133	1	0	0	0	0	1	0	0	0	3283	1203	42	2	2176	2	CFH	1	196695938	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08	35554088	196695938	52554683	7	7490											
NR5A2	2494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200014711	200014711	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgttggaatgaagctagaAggtaagattcttctaaagac	15	11	11	4	0	2	4	0	1	2	3	2	5	2	5	0	2	1	3	0	2	7	6	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	200014711	A	C	200014711	3	2	133	1	0	0	0	0	1	0	0	0	10636	86	3	5	476	5	NR5A2	1	200014711	Missense_Mutation	SNP	A	TCGA-B0-5113-01A-01D-1421-08	3318773	200014711	49235910	8	7491											
REG1B	5968	hgsc.bcm.edu;ucsc.edu	37	chr2	79314032	79314032	+	Frame_Shift_Del	DEL	G	G	-																															ggcagctgattcggggattaGgcagctctgtctgggactcc																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		-	79314032	G	-	79314032	7	5	133	1	0	1	0	1	0	0	0	0	13213	1000	35	0	427	0	REG1B	2	79314032	Frame_Shift_Del	DEL	G	TCGA-B0-5113-01A-01D-1421-08		79314032	163885341	9	7492											
NDUFS1	4719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	206997774	206997774	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattgctgctccatcatttCtttggagtgcagaactgcct	8	14	9	10	0	2	1	1	0	1	1	3	3	3	2	2	1	5	3	2	1	2	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	206997774	C	A	206997774	3	1	133	1	0	0	0	0	1	0	0	0	10291	913	32	4	759	4	NDUFS1	2	206997774	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08	127683742	206997774	36201599	10	7493											
SP140L	93349	broad.mit.edu;hgsc.bcm.edu	37	chr2	231254640	231254640	+	Missense_Mutation	SNP	G	G	T																															atcctctctttcagcttcaaGaaagcacaaagatgaaactg																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	231254640	G	T	231254640	3	4	133	1	0	0	0	0	1	0	0	0	14965	942	33	4	908	4	SP140L	2	231254640	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08	24256866	231254640	11944733	11	7494	99	2									
SP140L	93349	broad.mit.edu;hgsc.bcm.edu	37	chr2	231254641	231254641	+	Missense_Mutation	SNP	A	A	T																															tcctctctttcagcttcaagAaagcacaaagatgaaactgt																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	231254641	A	T	231254641	3	4	133	1	0	0	0	0	1	0	0	0	14965	243	9	5	909	5	SP140L	2	231254641	Missense_Mutation	SNP	A	TCGA-B0-5113-01A-01D-1421-08	1	231254641	11944732	12	7495	99	2									
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191470	10191470	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttggtttttgcccttccaGtgtatactctgaaagagcga	9	15	9	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	3	6	rs5030817	alternate_allele	TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	10191470	T	T	10191470	5	4	133	1	0	0	0	0	0	0	1	0	17161	1043	36	4	473	4	VHL	3	10191470	Splice_Site	SNP	G	TCGA-B0-5113-01A-01D-1421-08		10191470	187830960	13	7496											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52621519	52621519	+	Frame_Shift_Del	DEL	T	T	-																															aaccaacagccatacaaccaTttttcacctcaaaaatgggg																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		-	52621519	T	-	52621519	7	5	133	1	0	1	0	1	0	0	0	0	11491	1490	52	0	1975	0	PBRM1	3	52621519	Frame_Shift_Del	DEL	T	TCGA-B0-5113-01A-01D-1421-08	42430049	52621519	145400911	14	7497											
PKD2L2	27039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137275829	137275829	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgagtgcctgacaaaacGaatttaagtaccagccaagt	14	9	8	10	1	1	2	0	2	1	0	1	3	1	2	3	0	4	1	3	0	6	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	137275829	G	T	137275829	3	4	133	1	0	0	0	0	1	0	0	0	11968	1058	37	4	1889	4	PKD2L2	5	137275829	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08		137275829	43639431	15	7498											
RNF145	153830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	158603776	158603776	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caattgtctccaaaggaacaAggcagagtcgtgctagcaga	14	7	11	9	1	1	2	0	0	1	2	3	3	1	3	1	2	3	3	1	2	5	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	158603776	A	C	158603776	3	2	133	1	0	0	0	0	1	0	0	0	13449	72	3	5	1534	5	RNF145	5	158603776	Missense_Mutation	SNP	A	TCGA-B0-5113-01A-01D-1421-08	21327947	158603776	22311484	16	7499											
HIST1H2BO	8348	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27861305	27861305	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagaaagccgtaaccaaggCccagaaaaaggacggcaaga	19	1	11	10	2	0	3	0	0	0	3	0	4	0	4	3	3	2	2	3	3	7	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	27861305	C	T	27861305	3	4	133	1	0	0	0	0	1	0	0	0	7154	739	26	2	67	2	HIST1H2BO	6	27861305	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08		27861305	143253762	17	7500											
COL11A2	1302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33133477	33133477	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccccccaggactgccgggGgctcccccggtcggtatggc	4	5	15	17	3	0	0	0	0	0	0	2	1	1	1	6	6	2	2	6	6	1	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	33133477	G	A	33133477	2	1	133	1	0	0	0	0	0	0	0	1	3668	1219	43	2		2	COL11A2	6	33133477	Silent	SNP	G	TCGA-B0-5113-01A-01D-1421-08	5272172	33133477	137981590	18	7501											
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	77766976	77766976	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaccaacaccgagataaaCgcttgagaaccacgatcacc	17	4	7	13	3	1	3	1	1	0	3	1	6	1	3	4	0	3	1	4	0	5	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		G	77766976	C	G	77766976	3	3	133	1	0	0	0	0	1	0	0	0	17634	536	19	4	7853	4	ZFHX4	8	77766976	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08		77766976	68597046	19	7502											
ANKRD26	22852	hgsc.bcm.edu;ucsc.edu	37	chr10	27303499	27303499	+	Frame_Shift_Del	DEL	T	T	-																															cttatatttttccagttcggTtttattaaagtcttcttgag																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		-	27303499	T	-	27303499	7	5	133	1	0	1	0	1	0	0	0	0	654	1725	60	0	500	0	ANKRD26	10	27303499	Frame_Shift_Del	DEL	T	TCGA-B0-5113-01A-01D-1421-08		27303499	108231248	20	7503											
MYPN	84665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	69926368	69926368	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acggacaggcaacaaaaaccCcagagccttcttcccccgtg	12	5	8	16	2	1	1	0	0	1	1	2	2	2	2	5	2	3	1	5	2	3	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	69926368	C	A	69926368	3	1	133	1	0	0	0	0	1	0	0	0	10098	623	22	4	1952	4	MYPN	10	69926368	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08	42622869	69926368	65608379	21	7504											
C11orf24	53838	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68029634	68029634	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctggggttgtgtttgaggGcatgggtgtggatttatttg	4	17	17	3	0	1	1	0	1	1	0	1	2	1	2	0	5	0	3	0	5	1	5	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	68029634	G	A	68029634	3	1	133	1	0	0	0	0	1	0	0	0	1635	1203	42	2	524	2	C11orf24	11	68029634	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08		68029634	66976882	22	7505											
ODZ4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	78412936	78412936	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgaagacagctcatacatGttctgggtgttgaggaaagg	11	10	15	5	0	2	3	1	2	1	1	2	4	2	4	0	4	2	3	0	4	3	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	78412936	G	A	78412936	2	1	133	1	0	0	0	0	0	0	0	1	10837	1368	48	2		2	ODZ4	11	78412936	Silent	SNP	G	TCGA-B0-5113-01A-01D-1421-08	10383302	78412936	56593580	23	7506											
SLC6A13	6540	hgsc.bcm.edu;ucsc.edu	37	chr12	335652	335652	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacaaagctggtgccgcTgttgaggaagcagagggcga	10	5	17	9	2	0	2	0	1	0	1	0	4	0	3	2	4	3	4	2	4	2	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	335652	T	C	335652	3	2	133	1	0	0	0	0	1	0	0	0	14678	1580	55	3	872	3	SLC6A13	12	335652	Missense_Mutation	SNP	T	TCGA-B0-5113-01A-01D-1421-08		335652	133516243	24	7507											
AP4E1	23431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51216161	51216161	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttatttctacatgaaaGtcatgaattattgcttctcc	10	18	4	9	0	3	2	1	2	2	0	5	2	4	2	2	0	2	1	2	0	5	7	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	51216161	G	T	51216161	3	4	133	1	0	0	0	0	1	0	0	0	752	1029	36	4	394	4	AP4E1	15	51216161	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08		51216161	51315231	25	7508											
AP4E1	23431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51217400	51217400	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttccattaatagaagatAaacttcaacattctaagtaa	17	14	3	7	0	3	2	1	0	2	2	4	2	4	2	1	0	2	1	1	0	8	9	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	51217400	A	T	51217400	4	4	133	1	0	0	0	0	0	1	0	0	752	363	13	5	544	5	AP4E1	15	51217400	Nonsense_Mutation	SNP	A	TCGA-B0-5113-01A-01D-1421-08	1239	51217400	51313992	26	7509											
CBLN1	869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49313372	49313372	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttccagccccccatcaaGtttccccgctccagcttgag	7	10	6	18	1	1	1	1	1	0	0	4	1	4	1	7	0	3	3	7	0	2	4	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	49313372	G	C	49313372	3	2	133	1	0	0	0	0	1	0	0	0	2704	1020	36	4	60	4	CBLN1	16	49313372	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08		49313372	41041381	27	7510											
P2RX1	5023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3807223	3807223	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaggtcagagtgttaccGcgggatgtcgtcatccacct	8	10	13	10	3	2	1	2	0	0	1	4	3	3	3	3	3	1	1	3	3	2	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	3807223	G	A	3807223	3	1	133	1	0	0	0	0	1	0	0	0	11339	1101	38	1	708	1	P2RX1	17	3807223	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08		3807223	77387987	28	7511											
C17orf49	124944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6919830	6919830	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggcccagataaaggccActgtgaaacgcaaggtatat	14	7	11	9	1	1	2	1	1	0	1	1	2	1	2	2	3	1	2	2	3	6	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		G	6919830	A	G	6919830	3	3	133	1	0	0	0	0	1	0	0	0	1860	159	6	3	249	3	C17orf49	17	6919830	Missense_Mutation	SNP	A	TCGA-B0-5113-01A-01D-1421-08	3112607	6919830	74275380	29	7512											
WNT3	7473	hgsc.bcm.edu	37	chr17	44851096	44851097	+	Frame_Shift_Ins	INS	-	-	G																															ggtggtgcagttccagcggcINSggccccggaactggtgctgg																								novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		G	44851097	-	G	44851096	7	5	133	1	0	1	1	0	0	0	0	0	17387	768	27	0	819	0	WNT3	17	44851096	Frame_Shift_Ins	INS	-	TCGA-B0-5113-01A-01D-1421-08	37931266	44851096	36344114	30	7513											
TMEM104	54868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72832324	72832324	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgccatcttctgcttccGcggcgacagcctcatggaca	7	8	9	17	4	3	0	1	0	2	0	4	2	4	1	4	2	2	1	4	2	0	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	72832324	G	T	72832324	3	4	133	1	0	0	0	0	1	0	0	0	16017	1087	38	4	1023	4	TMEM104	17	72832324	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08	27981228	72832324	8362886	31	7514											
CYTH1	9267	broad.mit.edu;ucsc.edu	37	chr17	76677108	76677108	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gattctctaaagggatgattCcacggggctccttatcctac	9	12	9	11	1	1	1	0	1	1	0	5	3	4	2	3	3	1	1	3	3	4	5	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	76677108	A	A	76677108	3	1	133	1	0	0	0	0	1	0	0	0	4203	855	30	4	300	4	CYTH1	17	76677108	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08	3844784	76677108	4518102	32	7515											
TUBB4	0	broad.mit.edu;hgsc.bcm.edu	37	chr19	6501365	6501365	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggacagagtccatggtgccGggttccaggtccaccagcac	8	6	13	14	2	0	1	0	0	0	1	3	2	3	2	5	4	2	2	5	4	0	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	6501365	G	A	6501365	2	1	133	1	0	0	0	0	0	0	0	1	16757	1103	39	1		1	TUBB4	19	6501365	Silent	SNP	G	TCGA-B0-5113-01A-01D-1421-08		6501365	52627618	33	7516											
PRR12	57479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50118189	50118189	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagcgcctctatgtaaagttCctggaaaatgtcaataagaa	15	10	8	8	1	2	1	1	0	1	1	3	2	3	2	2	1	1	2	2	1	8	4	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	50118189	C	T	50118189	2	4	133	1	0	0	0	0	0	0	0	1	12586	854	30	2		2	PRR12	19	50118189	Silent	SNP	C	TCGA-B0-5113-01A-01D-1421-08	43616824	50118189	9010794	34	7517											
C20orf103	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	9496942	9496942	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacctgaggcgacttggAggctgagcaaagtgcagttt	10	8	16	7	1	0	2	0	2	0	0	0	5	0	4	1	4	2	4	1	4	1	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		G	9496942	A	G	9496942	3	3	133	1	0	0	0	0	1	0	0	0	2075	295	11	3	423	3	C20orf103	20	9496942	Missense_Mutation	SNP	A	TCGA-B0-5113-01A-01D-1421-08		9496942	53528578	35	7518											
FAM83C	128876	broad.mit.edu;hgsc.bcm.edu	37	chr20	33875579	33875579	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgacgtggggcttgggaCatcaggcctgaaggctaggg	8	6	19	8	2	1	1	1	1	0	0	1	4	1	3	1	7	0	2	1	7	2	2	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		T	33875579	C	T	33875579	3	4	133	1	0	0	0	0	1	0	0	0	5635	478	17	2	1244	2	FAM83C	20	33875579	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08	24378637	33875579	29149941	36	7519											
CACNG2	10369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	36960524	36960524	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaggtggcggtgggcgtGgtggcggccttcagggggtc	2	10	22	7	3	1	0	1	0	0	0	2	0	1	0	1	9	0	1	1	9	1	3	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		A	36960524	G	A	36960524	2	1	133	1	0	0	0	0	0	0	0	1	2557	1335	47	2		2	CACNG2	22	36960524	Silent	SNP	G	TCGA-B0-5113-01A-01D-1421-08		36960524	14344042	37	7520											
ELFN2	114794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37770000	37770000	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcagccgagccctggccgttCtcgaggtccgggaggtcatc	5	7	15	14	4	2	0	1	0	1	0	5	3	3	1	4	4	2	2	4	4	0	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		G	37770000	C	G	37770000	3	3	133	1	0	0	0	0	1	0	0	0	5058	912	32	4	891	4	ELFN2	22	37770000	Missense_Mutation	SNP	C	TCGA-B0-5113-01A-01D-1421-08	809476	37770000	13534566	38	7521											
GABRQ	55879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151815617	151815617	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacccagatggaacggtgcGgtacggcatccggtgagtcc	8	7	14	12	4	1	2	1	1	0	1	3	3	3	3	3	5	3	2	3	5	2	1	novel		TCGA-B0-5113-01A-01D-1421-08	TCGA-B0-5113-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64b234e0-74f6-453f-b5cb-280e01fba09b	f7b96180-6131-45d9-8a88-771bc7296cde		C	151815617	G	C	151815617	3	2	133	1	0	0	0	0	1	0	0	0	6175	1116	39	4	529	4	GABRQ	23	151815617	Missense_Mutation	SNP	G	TCGA-B0-5113-01A-01D-1421-08		151815617	3454943	39	7522											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu	37	chr1	39788664	39788664	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagtgatgcactccggcGtctggaggaggaggaggtga	9	7	17	8	2	2	2	1	2	1	0	3	6	3	6	1	6	1	1	1	6	0	0	rs148253091	bycluster;by1000genomes	TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	39788664	G	A	39788664	3	1	134	1	0	0	0	0	1	0	0	0	9144	1145	40	1	4361	1	MACF1	1	39788664	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08		39788664	209461957	1	7523											
C1orf104	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155290610	155290610	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgggtgacaaaagacgcTaaacgctgggggcgggtctg	10	6	18	7	3	1	2	0	1	1	1	1	2	1	2	0	5	1	2	0	5	4	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	155290610	T	A	155290610	3	1	134	1	0	0	0	0	1	0	0	0	1978	1522	53	5	44	5	C1orf104	1	155290610	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08	115501946	155290610	93960011	2	7524											
ACTN2	88	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	236891015	236891015	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctgtgccctcatccacCgacaccggcctgacctcatt	7	9	7	18	2	3	1	2	1	1	0	4	3	4	1	6	1	1	0	6	1	0	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	236891015	C	T	236891015	4	4	134	1	0	0	0	0	0	1	0	0	205	644	23	1	596	1	ACTN2	1	236891015	Nonsense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	81600405	236891015	12359606	3	7525											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu	37	chr2	170177379	170177379	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacttccacagcgaaaaTgcgcactgtcacattctgca	11	8	7	15	2	2	0	1	0	1	0	3	1	3	0	2	0	3	2	2	0	2	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	170177379	T	C	170177379	3	2	134	1	0	0	0	0	1	0	0	0	8956	1464	51	3	14184	3	LRP2	2	170177379	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08		170177379	73021994	4	7526											
TMEFF2	23671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	192818523	192818523	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aacgtatagaacactgtagtCctttttttcacagtgttgtc	10	16	7	8	1	1	1	1	0	0	1	3	1	2	1	1	0	2	3	1	0	5	7	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	192818523	C	G	192818523	3	3	134	1	0	0	0	0	1	0	0	0	16013	855	30	4	222	4	TMEFF2	2	192818523	Missense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	22641144	192818523	50380850	5	7527											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188227	10188227	+	Frame_Shift_Del	DEL	A	A	-																															ggctcttcagagatgcagggAcacacgatgggcttctggtt																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	10188227	A	-	10188227	7	5	134	1	0	1	0	1	0	0	0	0	17161	275	10	0	376	0	VHL	3	10188227	Frame_Shift_Del	DEL	A	TCGA-B0-5115-01A-01D-1421-08		10188227	187834203	6	7528											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52662984	52662984	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatagcgtttggcattttCaaacattaaattcagatcac	14	15	5	7	1	3	1	3	0	0	1	3	1	3	1	0	1	2	2	0	1	5	7	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	52662984	C	A	52662984	4	1	134	1	0	0	0	0	0	1	0	0	11491	835	29	4	3607	4	PBRM1	3	52662984	Nonsense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	42474757	52662984	145359446	7	7529											
OR5K2	402135	hgsc.bcm.edu	37	chr3	98216592	98216592	+	Frame_Shift_Del	DEL	T	T	-																															atttacagatcaccctgagcTgaagactctgctgtttgtgg																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	98216592	T	-	98216592	7	5	134	1	0	1	0	1	0	0	0	0	11167	1580	55	0	70	0	OR5K2	3	98216592	Frame_Shift_Del	DEL	T	TCGA-B0-5115-01A-01D-1421-08	45553608	98216592	99805838	8	7530											
STXBP5L	9515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121097679	121097679	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctggaagaccaccatttCgaaaggcccagtcagcagcc	11	6	10	14	1	1	1	1	0	0	1	3	3	2	2	5	2	2	1	5	2	2	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	121097679	C	T	121097679	4	4	134	1	0	0	0	0	0	1	0	0	15358	876	31	1	2447	1	STXBP5L	3	121097679	Nonsense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	22881087	121097679	76924751	9	7531											
TTC14	151613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	180322346	180322346	+	Missense_Mutation	SNP	G	G	C																															ctcttccaccacacctatctGgtattaaattaggtgtaatt																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	180322346	G	C	180322346	3	2	134	1	0	0	0	0	1	0	0	0	16680	1348	47	4	670	4	TTC14	3	180322346	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	59224667	180322346	17700084	10	7532	100	2									
TTC14	151613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	180322347	180322347	+	Missense_Mutation	SNP	G	G	T																															tcttccaccacacctatctgGtattaaattaggtgtaatta																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	180322347	G	T	180322347	3	4	134	1	0	0	0	0	1	0	0	0	16680	1261	44	4	671	4	TTC14	3	180322347	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	1	180322347	17700083	11	7533	100	2									
MXD4	10608	broad.mit.edu;hgsc.bcm.edu	37	chr4	2254186	2254186	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagcgtggtgtggcgggtGctgtcggggcccaggggcac	3	7	20	11	3	1	0	1	0	0	0	2	0	1	0	1	7	2	2	1	7	0	0	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	2254186	G	A	2254186	2	1	134	1	0	0	0	0	0	0	0	1	10001	1310	46	2		2	MXD4	4	2254186	Silent	SNP	G	TCGA-B0-5115-01A-01D-1421-08		2254186	188900090	12	7534											
TET2	54790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106157368	106157368	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaagaataaagaggaaataCtccagacttttcctcacccc	16	9	5	11	0	1	3	1	0	0	3	3	4	3	4	4	1	1	0	4	1	7	5	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	106157368	C	G	106157368	3	3	134	1	0	0	0	0	1	0	0	0	15769	565	20	4	2271	4	TET2	4	106157368	Missense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	103903182	106157368	84996908	13	7535											
ALPK1	80216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	113360933	113360933	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaataacacgaaagtggTgaaaacagaatacaaagcca	21	5	8	7	1	1	2	1	1	0	1	1	3	1	2	1	1	4	0	1	1	8	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	113360933	T	C	113360933	3	2	134	1	0	0	0	0	1	0	0	0	544	1696	59	3	3489	3	ALPK1	4	113360933	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08	7203565	113360933	77793343	14	7536											
KIAA0947	23379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	5464188	5464188	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagttgaaactcatcagAgtgaagttgctcagtcattt	12	12	10	7	0	4	4	4	2	0	2	4	4	4	4	0	0	2	4	0	0	2	3	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	5464188	A	T	5464188	3	4	134	1	0	0	0	0	1	0	0	0	8202	304	11	5	4791	5	KIAA0947	5	5464188	Missense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08		5464188	175451072	15	7537											
CTNND2	1501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	11346669	11346676	+	Frame_Shift_Del	DEL	GGCATTCT	GGCATTCT	-																															ctctggaaggtggccgcggcGgcattctgtgggccgtgctg																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	GGCATTCT	GGCATTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	11346676	GGCATTCT	-	11346669	7	5	134	1	0	1	0	1	0	0	0	0	4020	1103	39	0	2290	0	CTNND2	5	11346669	Frame_Shift_Del	DEL	GGCATTCT	TCGA-B0-5115-01A-01D-1421-08	5882481	11346669	169568591	16	7538											
ITGA2	3673	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	52363017	52363017	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcactttggtcaacaaGaatgctcagataattctcaa	17	11	5	8	0	4	2	4	0	1	2	5	2	4	2	0	1	2	1	0	1	7	3	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	52363017	G	T	52363017	3	4	134	1	0	0	0	0	1	0	0	0	7875	933	33	4	2075	4	ITGA2	5	52363017	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	41016348	52363017	128552243	17	7539											
TRIM36	55521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	114499350	114499350	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggagttcttttacacattTatgacagatactatgttggc	11	15	8	7	0	1	2	0	1	1	1	1	3	1	3	0	2	2	2	0	2	4	8	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	114499350	T	A	114499350	4	1	134	1	0	0	0	0	0	1	0	0	16509	1763	61	5	2059	5	TRIM36	5	114499350	Nonsense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08	62136333	114499350	66415910	18	7540											
JAKMIP2	9832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147040551	147040551	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgactcccacttgatcttcGagatggcttcttggtgggac	6	12	11	12	2	2	2	0	1	2	1	4	5	3	3	2	3	0	1	2	3	0	4	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	147040551	G	A	147040551	3	1	134	1	0	0	0	0	1	0	0	0	7941	1059	37	1	1921	1	JAKMIP2	5	147040551	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	32541201	147040551	33874709	19	7541											
SPINK5	11005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147444913	147444913	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatattttcatcccagatgCtgccagtaagaatgaagatc	13	12	7	9	0	1	4	1	1	0	3	3	4	2	4	2	0	2	2	2	0	5	5	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	147444913	C	T	147444913	3	4	134	1	0	0	0	0	1	0	0	0	15063	797	28	2	65	2	SPINK5	5	147444913	Missense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	404362	147444913	33470347	20	7542											
MED7	9443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156565914	156565914	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcattcctgcttctgaatGaggcaaatcatcaggcaaag	12	11	8	10	0	4	2	3	2	2	0	6	2	5	2	1	2	1	3	1	2	3	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	156565914	G	T	156565914	3	4	134	1	0	0	0	0	1	0	0	0	9452	1290	45	4	176	4	MED7	5	156565914	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	9121001	156565914	24349346	21	7543											
TRIM39	56658	broad.mit.edu;hgsc.bcm.edu	37	chr6	30308093	30308093	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactctcaacgatctgtcCacgggatcataaggctctcc	9	10	7	15	2	5	0	3	0	3	0	8	2	6	1	2	2	1	1	2	2	2	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	30308093	C	T	30308093	3	4	134	1	0	0	0	0	1	0	0	0	16512	594	21	2	866	2	TRIM39	6	30308093	Missense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08		30308093	140806974	22	7544											
MICB	4277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31475252	31475252	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgccatgttttgttattaTtattattctctgtgtccctt	6	23	5	7	0	1	0	0	0	1	0	3	0	2	0	2	0	1	2	2	0	5	9	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	31475252	T	A	31475252	3	1	134	1	0	0	0	0	1	0	0	0	9575	1493	52	5	986	5	MICB	6	31475252	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08	1167159	31475252	139639815	23	7545											
FKBPL	63943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	32097079	32097079	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggactccaagcatttctctAtgagctccccccaagtttcc	8	12	6	15	0	1	1	0	1	1	0	5	2	4	2	5	1	2	3	5	1	3	3	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	32097079	A	C	32097079	3	2	134	1	0	0	0	0	1	0	0	0	5916	449	16	5	574	5	FKBPL	6	32097079	Missense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08	621827	32097079	139017988	24	7546											
DAXX	1616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33286892	33286892	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagagtccaccctcgtggagGaatcagcaactggggccaag	11	5	14	11	1	1	1	1	0	0	1	3	4	2	3	3	4	2	1	3	4	3	0	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	33286892	G	C	33286892	3	2	134	1	0	0	0	0	1	0	0	0	4243	1174	41	4	185	4	DAXX	6	33286892	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	1189813	33286892	137828175	25	7547											
PGC	5225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41712242	41712242	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccgatgctgatctcaccaAagtaggcagcctgggggcca	9	7	12	13	1	1	1	1	1	1	0	3	2	2	1	4	3	2	3	4	3	2	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	41712242	A	C	41712242	3	2	134	1	0	0	0	0	1	0	0	0	11785	14	1	5	1282	5	PGC	6	41712242	Missense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08	8425350	41712242	129402825	26	7548											
IQCE	23288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	2645633	2645633	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccgggccaggcacaggTgagtcagggtcacggggacg	7	4	19	11	3	2	1	2	1	0	0	2	2	2	2	2	7	0	1	2	7	0	0	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	2645633	T	A	2645633	5	1	134	1	0	0	0	0	0	0	1	0	7806	1710	59	5	1945	5	IQCE	7	2645633	Splice_Site	SNP	T	TCGA-B0-5115-01A-01D-1421-08		2645633	156493030	27	7549											
RSBN1L	222194	hgsc.bcm.edu;ucsc.edu	37	chr7	77379172	77379172	+	Frame_Shift_Del	DEL	A	A	-																															tgtctcctatggagatggagAggtttgcagaagagtttgtg																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	77379172	A	-	77379172	7	5	134	1	0	1	0	1	0	0	0	0	13699	295	11	0	1145	0	RSBN1L	7	77379172	Frame_Shift_Del	DEL	A	TCGA-B0-5115-01A-01D-1421-08	74733539	77379172	81759491	28	7550											
ARHGEF5	7984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	144077075	144077075	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agttcatttccaacccagagGtccgtgcacagaacctgaag	12	8	9	12	1	1	3	1	1	0	2	3	3	3	3	4	1	3	2	4	1	3	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	144077075	G	T	144077075	3	4	134	1	0	0	0	0	1	0	0	0	909	1261	44	4	4774	4	ARHGEF5	7	144077075	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	66697903	144077075	15061588	29	7551											
MLL3	58508	broad.mit.edu	37	chr7	151834021	151834022	+	Intron	DEL	AA	-	-																															atagcagagctgcccacggcAaagacacagggtaagaaagg																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	AA	AA	AA	-	AA	AA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	151834022	-	-	151834021	6	5	134	0	1	1	0	1	0	0	0	0	9622	145	5	0		0	MLL3	7	151834021	Intron	DEL	AA	TCGA-B0-5115-01A-01D-1421-08	7756946	151834021	7304642	30	7552											
SORBS3	10174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22423910	22423910	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaccttacctgggttccGcccggtccctgagtccccac	5	9	9	18	2	0	1	0	1	0	0	3	1	3	1	7	2	2	2	7	2	1	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	22423910	G	T	22423910	3	4	134	1	0	0	0	0	1	0	0	0	14931	1087	38	4	1049	4	SORBS3	8	22423910	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08		22423910	123940112	31	7553											
C8orf37	157657	hgsc.bcm.edu;ucsc.edu	37	chr8	96275957	96275962	+	In_Frame_Del	DEL	AATAAG	AATAAG	-																															ggctcttcaagtatttcattAataagactgtcaagatcatc																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	AATAAG	AATAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	96275962	AATAAG	-	96275957	7	5	134	1	0	1	0	1	0	0	0	0	2423	358	13	0	442	0	C8orf37	8	96275957	In_Frame_Del	DEL	AATAAG	TCGA-B0-5115-01A-01D-1421-08	73852047	96275957	50088065	32	7554											
GPR172A	0	hgsc.bcm.edu	37	chr8	145584534	145584535	+	Frame_Shift_Ins	INS	-	-	G																															ccagctccctgctgcatggcINSgggggccggccggcattgct																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	145584535	-	G	145584534	7	5	134	1	0	1	1	0	0	0	0	0	6669	755	27	0	1211	0	GPR172A	8	145584534	Frame_Shift_Ins	INS	-	TCGA-B0-5115-01A-01D-1421-08	49308577	145584534	779488	33	7555											
UBAP1	51271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34241773	34241773	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagatgtcactgtcttcCaaagtgtccctcccccctat	10	11	6	14	0	2	1	1	0	1	1	5	2	5	1	5	0	0	0	5	0	4	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	34241773	C	G	34241773	2	3	134	1	0	0	0	0	0	0	0	1	16835	581	21	4		4	UBAP1	9	34241773	Silent	SNP	C	TCGA-B0-5115-01A-01D-1421-08		34241773	106971658	34	7556											
GBA2	57704	hgsc.bcm.edu;ucsc.edu	37	chr9	35738845	35738845	+	Frame_Shift_Del	DEL	C	C	-																															aacttcaggttcaggtccttCcaatcagcagtatcatggat																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	35738845	C	-	35738845	7	5	134	1	0	1	0	1	0	0	0	0	6267	856	30	0	956	0	GBA2	9	35738845	Frame_Shift_Del	DEL	C	TCGA-B0-5115-01A-01D-1421-08	1497072	35738845	105474586	35	7557											
SEC16A	9919	hgsc.bcm.edu	37	chr9	139370955	139370963	+	In_Frame_Del	DEL	AGCTCCTGA	AGCTCCTGA	-																															ccttggaaaaacatcgccagAgctcctgaagctcctgagtc																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	AGCTCCTGA	AGCTCCTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	139370963	AGCTCCTGA	-	139370955	7	5	134	1	0	1	0	1	0	0	0	0	13988	291	11	0	6080	0	SEC16A	9	139370955	In_Frame_Del	DEL	AGCTCCTGA	TCGA-B0-5115-01A-01D-1421-08	103632110	139370955	1842476	36	7558											
ERLIN1	10613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	101923759	101923759	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttcagagaaatccaagtAcctataactgcctttttcct	12	14	4	11	0	1	1	1	0	0	1	3	2	3	1	4	0	3	1	4	0	5	6	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	101923759	A	G	101923759	5	3	134	1	0	0	0	0	0	0	1	0	5232	405	14	3	405	3	ERLIN1	10	101923759	Splice_Site	SNP	A	TCGA-B0-5115-01A-01D-1421-08		101923759	33610988	37	7559											
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117374716	117374716	+	Missense_Mutation	SNP	A	A	T																															agtgaggggcacagggtggtActgctgggggttcccgctcc																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	117374716	A	T	117374716	3	4	134	1	0	0	0	0	1	0	0	0	4769	391	14	5	4050	5	DSCAML1	11	117374716	Missense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08		117374716	17631800	38	7560	101	2									
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117374717	117374717	+	Missense_Mutation	SNP	C	C	G																															gtgaggggcacagggtggtaCtgctgggggttcccgctccc																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	117374717	C	G	117374717	3	3	134	1	0	0	0	0	1	0	0	0	4769	564	20	4	4051	4	DSCAML1	11	117374717	Missense_Mutation	SNP	C	TCGA-B0-5115-01A-01D-1421-08	1	117374717	17631799	39	7561	101	2									
PRDM10	56980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	129817095	129817095	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcccagtcatccagatcCgtgtcctcaccgtcttcttc	5	12	7	17	2	4	1	2	0	2	1	9	1	8	1	5	1	0	1	5	1	0	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	129817095	C	T	129817095	2	4	134	1	0	0	0	0	0	0	0	1	12453	639	23	1		1	PRDM10	11	129817095	Silent	SNP	C	TCGA-B0-5115-01A-01D-1421-08	12442378	129817095	5189421	40	7562											
VWF	7450	broad.mit.edu;hgsc.bcm.edu	37	chr12	6127588	6127588	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccggagcagcacctctgcaGcaccaggtcaggagcctctc	8	6	11	16	1	3	0	1	0	2	0	5	2	4	2	4	3	5	4	4	3	0	0	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	6127588	G	C	6127588	3	2	134	1	0	0	0	0	1	0	0	0	17245	962	34	4	3545	4	VWF	12	6127588	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08		6127588	127724307	41	7563											
CD163	9332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7636081	7636081	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ttcacttcattgagccatatCggtccagtcccctgaccaaa	10	11	6	14	1	2	2	2	2	0	0	5	2	4	2	5	1	1	0	5	1	2	4	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	7636081	C	G	7636081	2	3	134	1	0	0	0	0	0	0	0	1	2967	871	31	4		4	CD163	12	7636081	Silent	SNP	C	TCGA-B0-5115-01A-01D-1421-08	1508493	7636081	126215814	42	7564											
WBP11	51729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14943423	14943423	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaggaaggcctgtaggtgGcccaggaggccgtaatggtg	9	6	19	7	1	0	0	0	0	0	0	0	3	0	3	3	8	0	2	3	8	3	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	14943423	G	A	14943423	3	1	134	1	0	0	0	0	1	0	0	0	17257	1203	42	2	661	2	WBP11	12	14943423	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	7307342	14943423	118908472	43	7565											
TSPAN19	144448	broad.mit.edu	37	chr12	85423550	85423550	+	Frame_Shift_Del	DEL	A	-	-																															agagccatgcaccaaatcccAtgaataaaagtccaagaacc																								rs59822389		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	85423550	-	-	85423550	7	5	134	1	0	1	0	1	0	0	0	0	16642	217	8	0	688	0	TSPAN19	12	85423550	Frame_Shift_Del	DEL	A	TCGA-B0-5115-01A-01D-1421-08	70480127	85423550	48428345	44	7566											
SART3	9733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108920274	108920274	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctacttctacattttGtgtttctccagctgcaggga	6	16	9	10	0	2	0	0	0	2	0	3	1	2	1	1	1	6	5	1	1	2	6	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	108920274	G	A	108920274	4	1	134	1	0	0	0	0	0	1	0	0	13849	1386	48	2	935	2	SART3	12	108920274	Nonsense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	23496724	108920274	24931621	45	7567											
FZD10	11211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130649146	130649146	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggccagcgtgatcaccagCggtgggatttacaaaaaagc	12	6	12	11	3	1	1	1	1	0	0	1	2	1	2	3	3	4	0	3	3	4	2	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	130649146	C	T	130649146	2	4	134	1	0	0	0	0	0	0	0	1	6129	767	27	1		1	FZD10	12	130649146	Silent	SNP	C	TCGA-B0-5115-01A-01D-1421-08	21728872	130649146	3202749	46	7568											
PKD1	5310	broad.mit.edu	37	chr16	2161786	2161786	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacacccacagccacggAgggcagggaggcgcgcacgc	10	1	14	16	4	1	0	1	0	0	0	1	2	1	2	2	4	1	2	2	4	0	0	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	2161786	T	T	2161786	3	4	134	1	0	0	0	0	1	0	0	0	11963	304	11	5	9657	5	PKD1	16	2161786	Missense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08		2161786	88192967	47	7569											
ZC3H7A	29066	hgsc.bcm.edu;ucsc.edu	37	chr16	11846601	11846602	+	Frame_Shift_Del	DEL	TC	TC	-																															gtcctcggtgtggaaaacctTctctttgtgcttctcggagg																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		-	11846602	TC	-	11846601	7	5	134	1	0	1	0	1	0	0	0	0	17571	1792	62	0	273	0	ZC3H7A	16	11846601	Frame_Shift_Del	DEL	TC	TCGA-B0-5115-01A-01D-1421-08	9684815	11846601	78508152	48	7570											
LRRC36	55282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67404969	67404969	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcccaaacaacgctgtcCtgggaaacaggacaactcct	12	7	8	14	1	0	0	0	0	0	0	3	2	3	2	3	2	4	1	3	2	4	0	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	67404969	C	T	67404969	2	4	134	1	0	0	0	0	0	0	0	1	8990	680	24	2		2	LRRC36	16	67404969	Silent	SNP	C	TCGA-B0-5115-01A-01D-1421-08	55558368	67404969	22949784	49	7571											
C16orf48	0	broad.mit.edu;hgsc.bcm.edu	37	chr16	67697841	67697841	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccatacatcctctcaccTtagcttcgggacctggtggg	6	10	9	16	1	1	0	1	0	1	0	4	1	2	1	5	3	2	1	5	3	2	3	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	67697841	T	G	67697841	3	3	134	1	0	0	0	0	1	0	0	0	1816	1623	56	5	478	5	C16orf48	16	67697841	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08	292872	67697841	22656912	50	7572											
GLG1	2734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	74530491	74530491	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttcttctgcttcttTcaccaggcctttctccaagc	4	18	4	15	0	6	0	1	0	5	0	8	0	6	0	3	1	2	1	3	1	1	6	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	74530491	T	C	74530491	3	2	134	1	0	0	0	0	1	0	0	0	6436	1792	62	3	2881	3	GLG1	16	74530491	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08	6832650	74530491	15824262	51	7573											
FAM64A	54478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6348680	6348680	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggtcagcagggcctccagGctgcagctcgctcagctaag	8	6	13	14	1	2	0	2	0	0	0	4	0	3	0	2	3	4	6	2	3	1	1	rs151147808		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	6348680	G	A	6348680	3	1	134	1	0	0	0	0	1	0	0	0	5598	1203	42	2	252	2	FAM64A	17	6348680	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08		6348680	74846530	52	7574											
SMAD2	4087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	45368211	45368211	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctttatgacatgcttGagcaacgcactgaaggggat	12	10	12	7	1	0	4	0	4	0	0	0	5	0	5	0	2	4	4	0	2	4	3	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	45368211	G	T	45368211	4	4	134	1	0	0	0	0	0	1	0	0	14760	1294	45	4	16	4	SMAD2	18	45368211	Nonsense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08		45368211	32709037	53	7575											
CCDC68	80323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	52575020	52575020	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggacagagaccttaccttGtagagacagccttagatacc	13	8	10	10	0	0	3	0	0	0	3	0	7	0	4	4	1	3	1	4	1	4	5	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	52575020	G	A	52575020	3	1	134	1	0	0	0	0	1	0	0	0	2840	1377	48	2	68	2	CCDC68	18	52575020	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	7206809	52575020	25502228	54	7576											
HMHA1	23526	broad.mit.edu;ucsc.edu	37	chr19	1074667	1074667	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctggagcaggacctggagTtcggccacagcatggtgcag	8	6	15	12	1	0	0	0	0	0	0	1	3	0	3	3	5	3	4	3	5	0	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		A	1074667	A	A	1074667	3	1	134	1	0	0	0	0	1	0	0	0	7240	1725	60	5	1082	5	HMHA1	19	1074667	Missense_Mutation	SNP	T	TCGA-B0-5115-01A-01D-1421-08		1074667	58054316	55	7577											
ZNF20	7568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12243969	12243969	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatctgaaggctttaccAcattgcctacattcataggg	11	12	8	10	0	2	1	1	1	1	0	2	1	2	1	2	2	4	2	2	2	5	7	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	12243969	A	T	12243969	4	4	134	1	0	0	0	0	0	1	0	0	17760	157	6	5	570	5	ZNF20	19	12243969	Nonsense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08	11169302	12243969	46885014	56	7578											
SIPA1L3	23094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38609984	38609984	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagacgctcctcctttcgGcccccccatccccagtggaa	8	7	7	19	2	0	1	0	0	0	1	4	2	3	2	7	2	0	1	7	2	2	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	38609984	G	C	38609984	3	2	134	1	0	0	0	0	1	0	0	0	14333	1203	42	4	2356	4	SIPA1L3	19	38609984	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	26366015	38609984	20518999	57	7579											
ZNF432	9668	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52538204	52538204	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catttagcctggactttctgGagaacacttttgcacacaaa	12	12	7	10	0	1	1	0	0	1	1	1	3	1	2	1	2	3	1	1	2	3	5	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	52538204	G	T	52538204	3	4	134	1	0	0	0	0	1	0	0	0	17905	1174	41	4	1234	4	ZNF432	19	52538204	Missense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08	13928220	52538204	6590779	58	7580											
ZNF320	162967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53384724	53384724	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccttgccacattcattacAtgtgtaatgtttgtctcccc	9	15	5	12	0	2	0	1	0	1	0	3	0	2	0	4	0	3	2	4	0	3	5	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		C	53384724	A	C	53384724	3	2	134	1	0	0	0	0	1	0	0	0	17838	217	8	5	878	5	ZNF320	19	53384724	Missense_Mutation	SNP	A	TCGA-B0-5115-01A-01D-1421-08	846520	53384724	5744259	59	7581											
PTPN1	5770	broad.mit.edu;hgsc.bcm.edu	37	chr20	49196426	49196426	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccatcaaggaagaaaaaGgaagccccttaaatgccgca	16	4	9	12	1	1	1	1	0	0	1	1	3	1	3	5	2	2	1	5	2	7	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		T	49196426	G	T	49196426	4	4	134	1	0	0	0	0	0	1	0	0	12781	1001	35	4	1081	4	PTPN1	20	49196426	Nonsense_Mutation	SNP	G	TCGA-B0-5115-01A-01D-1421-08		49196426	13829094	60	7582											
PEX26	55670	broad.mit.edu;ucsc.edu	37	chr22	18566233	18566233	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcaaaatgcaagagccTggagctgtgctggatgtggt	11	9	14	7	0	0	1	0	0	0	1	0	3	0	3	1	3	6	4	1	3	4	1	novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	18566233	G	G	18566233	2	3	134	1	0	0	0	0	0	0	0	1	11746	1567	55	5		5	PEX26	22	18566233	Silent	SNP	T	TCGA-B0-5115-01A-01D-1421-08		18566233	32738333	61	7583											
GPRASP1	9737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101911040	101911041	+	Frame_Shift_Ins	INS	-	-	G																															cagaagagagtaatatagatINSgggactggagaaaaggccaa																								novel		TCGA-B0-5115-01A-01D-1421-08	TCGA-B0-5115-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f122b61c-d537-4456-84e8-54e541eec531	52d7031e-269c-432a-bbbb-ef02410e2412		G	101911041	-	G	101911040	7	5	134	1	0	1	1	0	0	0	0	0	6722	1461	51	0	2201	0	GPRASP1	23	101911040	Frame_Shift_Ins	INS	-	TCGA-B0-5115-01A-01D-1421-08		101911040	53359520	62	7584											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39823255	39823255	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagacacttcaggatgAgttgcagaaatttctgcagg	11	10	13	7	0	2	3	1	1	1	2	2	4	2	4	0	3	3	4	0	3	1	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	39823255	A	G	39823255	3	3	135	1	0	0	0	0	1	0	0	0	9144	304	11	3	11756	3	MACF1	1	39823255	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08		39823255	209427366	1	7585											
ANKRD13C	81573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70781173	70781173	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atatagcttacctctttcagGgcttttaataatcgaggtcg	10	15	8	8	2	2	0	1	0	1	0	4	1	2	0	1	2	2	2	1	2	5	7	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	70781173	G	C	70781173	2	2	135	1	0	0	0	0	0	0	0	1	643	1219	43	4		4	ANKRD13C	1	70781173	Silent	SNP	G	TCGA-B0-5116-01A-02D-1421-08	30957918	70781173	178469448	2	7586											
TSEN15	116461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	184023905	184023905	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgtaggattaccagaactCcagctcatctgccttgttgg	8	13	10	10	0	2	1	1	0	1	1	3	2	3	2	3	2	4	3	3	2	3	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	184023905	C	A	184023905	2	1	135	1	0	0	0	0	0	0	0	1	16610	842	30	4		4	TSEN15	1	184023905	Silent	SNP	C	TCGA-B0-5116-01A-02D-1421-08	113242732	184023905	65226716	3	7587											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201010703	201010703	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctcttctgggaactccCtttcatagtggacactgaaa	9	13	8	11	0	3	1	1	1	2	0	5	3	4	3	1	2	1	0	1	2	3	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	201010703	C	G	201010703	3	3	135	1	0	0	0	0	1	0	0	0	2547	681	24	4	574	4	CACNA1S	1	201010703	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08	16986798	201010703	48239918	4	7588											
KIAA1383	54627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	232942950	232942950	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtggagtttttgatgaGcccagcacaagtaaagaaac	15	9	10	7	0	1	3	1	2	0	1	1	4	1	4	1	1	3	3	1	1	4	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	232942950	G	C	232942950	3	2	135	1	0	0	0	0	1	0	0	0	8228	962	34	4	2183	4	KIAA1383	1	232942950	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	31932247	232942950	16307671	5	7589											
CLIP4	79745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29383260	29383260	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgagggggaactccgcctCggagagagagtgttagtggt	8	8	18	7	3	0	2	0	0	0	2	2	6	1	3	2	4	2	1	2	4	2	1	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	29383260	C	T	29383260	2	4	135	1	0	0	0	0	0	0	0	1	3535	871	31	1		1	CLIP4	2	29383260	Silent	SNP	C	TCGA-B0-5116-01A-02D-1421-08		29383260	213816113	6	7590											
TACR1	6869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	75278449	75278449	+	Nonsense_Mutation	SNP	G	G	T																															gccagccacatgatggccagGtagacctgctggataaactt																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	75278449	G	T	75278449	4	4	135	1	0	0	0	0	0	1	0	0	15504	1256	44	4	374	4	TACR1	2	75278449	Nonsense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	45895189	75278449	167920924	7	7591	102	2									
TACR1	6869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	75278450	75278450	+	Missense_Mutation	SNP	T	T	A																															ccagccacatgatggccaggTagacctgctggataaacttc																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	75278450	T	A	75278450	3	1	135	1	0	0	0	0	1	0	0	0	15504	1638	57	5	375	5	TACR1	2	75278450	Missense_Mutation	SNP	T	TCGA-B0-5116-01A-02D-1421-08	1	75278450	167920923	8	7592	102	2									
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179587658	179587658	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagttccgtaacaaaataaGgcggttctaaggaagaaagg	16	7	11	7	2	1	1	0	0	1	1	2	2	2	2	2	4	1	3	2	4	7	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	179587658	G	C	179587658	3	2	135	1	0	0	0	0	1	0	0	0	16734	1000	35	4	82709	4	TTN	2	179587658	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	104309208	179587658	63611715	9	7593											
CERKL	375298	hgsc.bcm.edu	37	chr2	182430234	182430234	+	Frame_Shift_Del	DEL	C	C	-																															gcgaacaatggtttccgatgCccactgtgaataacatacct																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		-	182430234	C	-	182430234	7	5	135	1	0	1	0	1	0	0	0	0	3268	726	26	0	1035	0	CERKL	2	182430234	Frame_Shift_Del	DEL	C	TCGA-B0-5116-01A-02D-1421-08	2842576	182430234	60769139	10	7594											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52643368	52643389	+	Frame_Shift_Del	DEL	TGCTCTTGAAATAAATCAAGCC	TGCTCTTGAAATAAATCAAGCC	-																															gttccaatacttcaaacataTgctcttgaaataaatcaagc																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	TGCTCTTGAAATAAATCAAGCC	TGCTCTTGAAATAAATCAAGCC	TGCTCTTGAAATAAATCAAGCC	-	TGCTCTTGAAATAAATCAAGCC	TGCTCTTGAAATAAATCAAGCC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		-	52643389	TGCTCTTGAAATAAATCAAGCC	-	52643368	7	5	135	1	0	1	0	1	0	0	0	0	11491	1464	51	0	2432	0	PBRM1	3	52643368	Frame_Shift_Del	DEL	TGCTCTTGAAATAAATCAAGCC	TCGA-B0-5116-01A-02D-1421-08		52643368	145379062	11	7595											
ALDH1L1	10840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	125828895	125828895	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatggtgattctgcggccCgtggtcggtgtccctgtcca	3	11	15	12	3	1	1	0	1	1	0	4	1	3	1	3	5	1	1	3	5	0	1	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	125828895	C	T	125828895	3	4	135	1	0	0	0	0	1	0	0	0	494	652	23	1	485	1	ALDH1L1	3	125828895	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08	73185527	125828895	72193535	12	7596											
NEK11	79858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130992364	130992364	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggctgaagacatgtccccagGaccaccaattttcaacagtg	12	8	9	12	0	1	2	1	1	0	1	2	3	2	3	4	2	1	1	4	2	3	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	130992364	G	A	130992364	3	1	135	1	0	0	0	0	1	0	0	0	10323	1174	41	2	1740	2	NEK11	3	130992364	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	5163469	130992364	67030066	13	7597											
REST	5978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57798103	57798103	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgacaacatgtcagagggtAgtgatgattctggattgcat	11	12	13	5	0	2	4	1	3	1	1	2	5	2	5	0	2	2	2	0	2	2	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	57798103	A	G	57798103	3	3	135	1	0	0	0	0	1	0	0	0	13236	420	15	3	3089	3	REST	4	57798103	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08		57798103	133356173	14	7598											
PDLIM5	10611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	95583632	95583632	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttcccatagaagctggtGacatgttcctggaagctctg	10	12	10	9	0	1	2	0	1	1	1	3	3	3	3	2	2	2	3	2	2	4	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	95583632	G	A	95583632	3	1	135	1	0	0	0	0	1	0	0	0	11683	1290	45	2	1847	2	PDLIM5	4	95583632	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	37785529	95583632	95570644	15	7599											
INPP4B	8821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	143081662	143081662	+	Frame_Shift_Del	DEL	A	A	-																															gccttgcagtgtagagtgctAaaagagcactcctgacaagt																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		-	143081662	A	-	143081662	7	5	135	1	0	1	0	1	0	0	0	0	7753	372	13	0	1402	0	INPP4B	4	143081662	Frame_Shift_Del	DEL	A	TCGA-B0-5116-01A-02D-1421-08	47498030	143081662	48072614	16	7600											
MATR3	9782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138643267	138643267	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtactgcacgccttgctagtTtaatgaatcttggaatgagt	10	14	10	7	1	1	2	0	2	1	0	1	3	1	3	1	1	3	4	1	1	5	6	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	138643267	T	C	138643267	2	2	135	1	0	0	0	0	0	0	0	1	9337	1838	64	3		3	MATR3	5	138643267	Silent	SNP	T	TCGA-B0-5116-01A-02D-1421-08		138643267	42271993	17	7601											
PTPRK	5796	broad.mit.edu;hgsc.bcm.edu	37	chr6	128318044	128318044	+	Splice_Site	SNP	A	A	G																															caagaattgaatgggaacttAcatgctataatgtttccata																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	128318044	A	G	128318044	5	3	135	1	0	0	0	0	0	0	1	0	12807	405	14	3	1631	3	PTPRK	6	128318044	Splice_Site	SNP	A	TCGA-B0-5116-01A-02D-1421-08		128318044	42797023	18	7602	103	2									
PTPRK	5796	broad.mit.edu	37	chr6	128318045	128318045	+	Splice_Site	SNP	C	T	T																															aagaattgaatgggaacttaCatgctataatgtttccatat																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	128318045	T	T	128318045	5	4	135	1	0	0	0	0	0	0	1	0	12807	492	17	2	1632	2	PTPRK	6	128318045	Splice_Site	SNP	C	TCGA-B0-5116-01A-02D-1421-08	1	128318045	42797022	19	7603	103	2									
ALDH8A1	64577	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	135253987	135253987	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctcaaagatgatggcaGgattcttgccccccagctcc	8	9	9	15	1	2	2	1	1	1	1	4	3	4	3	5	2	2	2	5	2	1	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	135253987	G	C	135253987	3	2	135	1	0	0	0	0	1	0	0	0	505	1000	35	4	699	4	ALDH8A1	6	135253987	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	6935942	135253987	35861080	20	7604											
KIAA0415	0	broad.mit.edu;ucsc.edu	37	chr7	4824670	4824670	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagcgcctcattgagcaaAgtaaccgacgtgagtccccc	10	6	10	15	3	1	2	1	2	0	0	2	3	2	2	5	0	3	2	5	0	2	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	4824670	C	C	4824670	3	2	135	1	0	0	0	0	1	0	0	0	8175	72	3	5	948	5	KIAA0415	7	4824670	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08		4824670	154313993	21	7605											
EGFR	1956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	55269438	55269438	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttcagagtgcaaccaGcaacaattccaccgtggctt	10	12	7	12	1	2	1	1	0	1	1	3	1	3	1	3	1	4	3	3	1	3	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	55269438	G	A	55269438	3	1	135	1	0	0	0	0	1	0	0	0	4967	971	34	2	3491	2	EGFR	7	55269438	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	50444768	55269438	103869225	22	7606											
PPP1R9A	55607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94881092	94881092	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagagcttgatttcatcaaAagacaggaagcagaaagaaa	20	6	10	5	0	2	5	2	1	0	4	2	7	2	6	0	1	2	2	0	1	5	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	94881092	A	T	94881092	3	4	135	1	0	0	0	0	1	0	0	0	12380	11	1	5	2453	5	PPP1R9A	7	94881092	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08	39611654	94881092	64257571	23	7607											
PIK3CG	5294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	106508218	106508218	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcaacgtggagcagatgaAggcccaggtgtggctgcgag	9	5	18	9	3	0	2	0	1	0	1	0	4	0	3	1	5	3	3	1	5	2	0	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	106508218	A	T	106508218	3	4	135	1	0	0	0	0	1	0	0	0	11916	72	3	5	214	5	PIK3CG	7	106508218	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08	11627126	106508218	52630445	24	7608											
C7orf58	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	120773891	120773891	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggaattctttcacagAagataagaacattgaaaaac	18	10	7	6	0	2	4	1	1	1	3	2	5	2	5	0	1	3	1	0	1	6	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	120773891	A	C	120773891	3	2	135	1	0	0	0	0	1	0	0	0	2405	246	9	5	1638	5	C7orf58	7	120773891	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08	14265673	120773891	38364772	25	7609											
GTF2E2	2961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	30492585	30492585	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttagcaagaacaccaaaCttatatccagagcttcctga	15	10	5	11	0	1	3	0	1	1	2	3	3	3	3	3	0	4	2	3	0	6	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	30492585	C	G	30492585	3	3	135	1	0	0	0	0	1	0	0	0	6857	564	20	4	677	4	GTF2E2	8	30492585	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08		30492585	115871437	26	7610											
FKBP15	23307	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	115932898	115932898	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggaacacctggttcatGatcttcttgacctgtgtgaa	9	13	10	9	0	3	3	1	3	2	0	3	5	3	4	2	2	1	1	2	2	2	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	115932898	G	T	115932898	2	4	135	1	0	0	0	0	0	0	0	1	5905	1280	45	4		4	FKBP15	9	115932898	Silent	SNP	G	TCGA-B0-5116-01A-02D-1421-08		115932898	25280533	27	7611											
PDE6C	5146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	95415548	95415548	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccagaacctaaataagcGgcagtttgaaacagttattc	14	11	7	9	1	0	2	0	1	0	1	2	2	1	2	2	1	3	3	2	1	6	6	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	95415548	G	A	95415548	3	1	135	1	0	0	0	0	1	0	0	0	11647	1116	39	1	2029	1	PDE6C	10	95415548	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08		95415548	40119199	28	7612											
NUP98	4928	broad.mit.edu;hgsc.bcm.edu	37	chr11	3797144	3797144	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagtcccagtaggagcagCtgtaaaactacttggcccaa	13	8	10	10	0	0	0	0	0	0	0	1	1	1	1	2	2	4	5	2	2	6	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	3797144	C	G	3797144	3	3	135	1	0	0	0	0	1	0	0	0	10773	797	28	4	5127	4	NUP98	11	3797144	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08		3797144	131209372	29	7613											
OR51I2	390064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5475160	5475160	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgcaatgggtttaggtGcagctgctcgaagcttcatc	7	13	12	9	1	1	0	1	0	0	0	3	1	1	0	0	2	6	7	0	2	3	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	5475160	G	A	5475160	3	1	135	1	0	0	0	0	1	0	0	0	11101	1319	46	2	444	2	OR51I2	11	5475160	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	1678016	5475160	129531356	30	7614											
C11orf16	56673	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	8948498	8948498	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcttacctctctggggaTctctcatctccaagcccaaa	8	13	5	15	0	5	0	1	0	4	0	9	1	5	1	3	2	2	0	3	2	3	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	8948498	T	A	8948498	3	1	135	1	0	0	0	0	1	0	0	0	1631	1435	50	5	867	5	C11orf16	11	8948498	Missense_Mutation	SNP	T	TCGA-B0-5116-01A-02D-1421-08	3473338	8948498	126058018	31	7615											
SLC22A6	9356	hgsc.bcm.edu	37	chr11	62744692	62744693	+	Frame_Shift_Ins	INS	-	-	G																															caccgtgtctggcagtggctINSggcccagggtctctggcagg																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	62744693	-	G	62744692	7	5	135	1	0	1	1	0	0	0	0	0	14460	1580	55	0	170	0	SLC22A6	11	62744692	Frame_Shift_Ins	INS	-	TCGA-B0-5116-01A-02D-1421-08	53796194	62744692	72261824	32	7616											
KRTAP5-9	3846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	71260168	71260168	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctgcaagccctgctgctcCcagtccagatgctgtgtccc	5	10	10	16	0	0	1	0	0	0	1	3	1	3	1	4	0	6	5	4	0	1	0	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	71260168	C	A	71260168	2	1	135	1	0	0	0	0	0	0	0	1	8568	610	22	4		4	KRTAP5-9	11	71260168	Silent	SNP	C	TCGA-B0-5116-01A-02D-1421-08	8515476	71260168	63746348	33	7617											
MCAM	4162	hgsc.bcm.edu;ucsc.edu	37	chr11	119182813	119182813	+	Frame_Shift_Del	DEL	G	G	-																															tggctactctctgcctcacaGgtcagggtgaggctgctgcc																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		-	119182813	G	-	119182813	7	5	135	1	0	1	0	1	0	0	0	0	9368	987	35	0	880	0	MCAM	11	119182813	Frame_Shift_Del	DEL	G	TCGA-B0-5116-01A-02D-1421-08	47922645	119182813	15823703	34	7618											
C12orf57	113246	broad.mit.edu	37	chr12	7054995	7054995	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggatcctgagatcgccagCctgtcaggcaagctgaaggc	10	6	13	12	1	1	2	1	2	0	1	3	4	2	3	3	3	2	2	3	3	2	0	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	7054995	A	A	7054995	3	1	135	1	0	0	0	0	1	0	0	0	1701	738	26	4	301	4	C12orf57	12	7054995	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08		7054995	126796900	35	7619											
EPS8	2059	hgsc.bcm.edu	37	chr12	15784537	15784539	+	In_Frame_Del	DEL	GGA	GGA	-																															caggaacaggagctggtgttGgaggaggtgatggagcaggg																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		-	15784539	GGA	-	15784537	7	5	135	1	0	1	0	1	0	0	0	0	5194	1348	47	0	601	0	EPS8	12	15784537	In_Frame_Del	DEL	GGA	TCGA-B0-5116-01A-02D-1421-08	8729542	15784537	118067358	36	7620											
ALG10	84920	hgsc.bcm.edu	37	chr12	34179315	34179315	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaactattctactttttttCatttactctctttttttcct	6	25	0	10	0	4	0	2	0	2	0	6	0	5	0	1	0	3	0	1	0	4	11	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	34179315	C	A	34179315	4	1	135	1	0	0	0	0	0	1	0	0	511	838	29	4	897	4	ALG10	12	34179315	Nonsense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08	18394778	34179315	99672580	37	7621											
PPFIA2	8499	broad.mit.edu;hgsc.bcm.edu	37	chr12	81675111	81675111	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatctaacattcttgcatctAccaagcattccataaagtaa	15	12	4	10	0	3	0	0	0	3	0	4	1	4	0	2	0	4	3	2	0	6	7	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	81675111	A	G	81675111	3	3	135	1	0	0	0	0	1	0	0	0	12310	391	14	3	660	3	PPFIA2	12	81675111	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08	47495796	81675111	52176784	38	7622											
GLT8D2	83468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104390596	104390596	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccgcgtggcccagggccaAggtggtgtcatacagttctt	6	9	14	12	3	2	0	1	0	1	0	2	0	2	0	3	4	1	1	3	4	2	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	104390596	A	G	104390596	2	3	135	1	0	0	0	0	0	0	0	1	6470	69	3	3		3	GLT8D2	12	104390596	Silent	SNP	A	TCGA-B0-5116-01A-02D-1421-08	22715485	104390596	29461299	39	7623											
ALKBH2	121642	broad.mit.edu	37	chr12	109530325	109530325	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttacctgtaaaatattcTacttctttctccaactcttg	9	18	3	11	0	4	0	0	0	4	0	5	0	4	0	2	0	4	2	2	0	6	8	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	109530325	A	A	109530325	2	1	135	1	0	0	0	0	0	0	0	1	527	1509	53	5		5	ALKBH2	12	109530325	Silent	SNP	T	TCGA-B0-5116-01A-02D-1421-08	5139729	109530325	24321570	40	7624											
ALKBH2	121642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109530381	109530381	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctttgccaaacaggaCtgtgtaactgcagtccaggc	10	9	10	12	0	1	0	1	0	0	0	2	1	2	1	2	2	5	3	2	2	2	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	109530381	C	T	109530381	3	4	135	1	0	0	0	0	1	0	0	0	527	565	20	2	586	2	ALKBH2	12	109530381	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08	56	109530381	24321514	41	7625											
OR4K2	390431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	20344686	20344686	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgattacagattacctaaCaggtcacaaaaccatctctt	15	11	5	10	0	2	2	1	1	1	1	3	3	2	2	2	1	4	0	2	1	5	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	20344686	C	G	20344686	3	3	135	1	0	0	0	0	1	0	0	0	11072	478	17	4	262	4	OR4K2	14	20344686	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08		20344686	87004854	42	7626											
OR4K1	79544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	20403917	20403917	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttcttttttgccatctTctctatagtctatgtgacat	7	21	4	9	0	4	1	0	1	4	0	5	1	4	1	1	0	1	0	1	0	3	9	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	20403917	T	C	20403917	3	2	135	1	0	0	0	0	1	0	0	0	11067	1783	62	3	94	3	OR4K1	14	20403917	Missense_Mutation	SNP	T	TCGA-B0-5116-01A-02D-1421-08	59231	20403917	86945623	43	7627											
KCNH5	27133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	63447836	63447836	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaggaaacattataaggAaccataatggcggtgtagaa	17	9	11	4	1	0	2	0	1	0	1	0	4	0	4	1	4	2	1	1	4	8	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	63447836	A	T	63447836	2	4	135	1	0	0	0	0	0	0	0	1	8035	233	9	5		5	KCNH5	14	63447836	Silent	SNP	A	TCGA-B0-5116-01A-02D-1421-08	43043919	63447836	43901704	44	7628											
DCAF5	8816	broad.mit.edu;hgsc.bcm.edu	37	chr14	69589045	69589045	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggatggcttgttccaTgtgccatagcagaacccggc	8	9	14	10	1	0	1	0	0	0	1	1	3	1	3	3	4	3	3	3	4	2	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	69589045	T	C	69589045	3	2	135	1	0	0	0	0	1	0	0	0	4273	1464	51	3	2613	3	DCAF5	14	69589045	Missense_Mutation	SNP	T	TCGA-B0-5116-01A-02D-1421-08	6141209	69589045	37760495	45	7629											
SPTBN5	51332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42147094	42147094	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgctccagggtgcctgcCaacttcctcagggcatacac	7	7	9	18	1	1	0	1	0	0	0	3	0	3	0	6	2	4	2	6	2	2	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	42147094	C	T	42147094	2	4	135	1	0	0	0	0	0	0	0	1	15123	593	21	2		2	SPTBN5	15	42147094	Silent	SNP	C	TCGA-B0-5116-01A-02D-1421-08		42147094	60384298	46	7630											
USP50	373509	broad.mit.edu;hgsc.bcm.edu	37	chr15	50833303	50833303	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaagacagtgaagacttcGttcttgtaggtgcatttctc	10	13	11	7	1	2	4	0	1	2	3	4	5	2	4	0	1	1	3	0	1	3	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	50833303	G	A	50833303	2	1	135	1	0	0	0	0	0	0	0	1	17081	1136	40	1		1	USP50	15	50833303	Silent	SNP	G	TCGA-B0-5116-01A-02D-1421-08	8686209	50833303	51698089	47	7631											
CORO2B	10391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	69006276	69006276	+	Frame_Shift_Del	DEL	A	A	-																															cctactaggaggccaactgcAaaaaccacagagtgaaccgg																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		-	69006276	A	-	69006276	7	5	135	1	0	1	0	1	0	0	0	0	3757	131	5	0	683	0	CORO2B	15	69006276	Frame_Shift_Del	DEL	A	TCGA-B0-5116-01A-02D-1421-08	18172973	69006276	33525116	48	7632											
RBBP6	5930	hgsc.bcm.edu;ucsc.edu	37	chr16	24551961	24551962	+	Frame_Shift_Ins	INS	-	-	T																															ggcaccatgtcctgtgtgcaINSttataaattttcctctaaac																								novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	24551962	-	T	24551961	7	5	135	1	0	1	1	0	0	0	0	0	13105	217	8	0	16	0	RBBP6	16	24551961	Frame_Shift_Ins	INS	-	TCGA-B0-5116-01A-02D-1421-08		24551961	65802792	49	7633											
SLC12A3	6559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	56904064	56904064	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagcttgggggctccatcGgcctcattttcgctttcgcc	4	12	11	14	3	1	1	1	0	0	1	5	1	2	1	3	3	1	3	3	3	0	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	56904064	G	T	56904064	3	4	135	1	0	0	0	0	1	0	0	0	14386	1116	39	4	676	4	SLC12A3	16	56904064	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	32352103	56904064	33450689	50	7634											
CDRT1	374286	broad.mit.edu;hgsc.bcm.edu	37	chr17	15516051	15516051	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcggatgtttcacacgCatgctcttcccgtcatctac	7	13	6	15	3	4	0	2	0	2	0	6	1	5	1	1	1	2	3	1	1	1	4	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	15516051	C	T	15516051	3	4	135	1	0	0	0	0	1	0	0	0	3174	710	25	2	1204	2	CDRT1	17	15516051	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08		15516051	65679159	51	7635											
C17orf47	284083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56620725	56620725	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaatctttaaggacagagaGtttgagcaatgagtccaagt	15	10	11	5	0	1	4	0	2	1	2	2	6	2	5	1	1	1	2	1	1	4	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	56620725	G	A	56620725	3	1	135	1	0	0	0	0	1	0	0	0	1858	1029	36	2	897	2	C17orf47	17	56620725	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	41104674	56620725	24574485	52	7636											
MUC16	94025	broad.mit.edu;ucsc.edu	37	chr19	9077024	9077024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcctcctgagggattggtGaggcttgtaatgccttggtc	5	15	13	8	0	0	2	0	2	0	0	3	3	2	3	3	4	1	2	3	4	1	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	9077024	A	A	9077024	2	1	135	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9077024	Silent	SNP	G	TCGA-B0-5116-01A-02D-1421-08		9077024	50051959	53	7637											
ZNF561	93134	broad.mit.edu;hgsc.bcm.edu	37	chr19	9720930	9720930	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttctccccagtgtgaatTctttcatgtctacttaggcg	6	16	9	10	1	4	1	1	1	3	0	5	1	4	1	2	2	1	1	2	2	3	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	9720930	T	A	9720930	3	1	135	1	0	0	0	0	1	0	0	0	17991	1780	62	5	57	5	ZNF561	19	9720930	Missense_Mutation	SNP	T	TCGA-B0-5116-01A-02D-1421-08	643906	9720930	49408053	54	7638											
CHST8	64377	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	34263556	34263556	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcttcggcaaggccatccTggcccggtaccgcgccaatg	6	7	13	15	4	1	0	0	0	1	0	3	0	2	0	5	5	1	2	5	5	3	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	34263556	T	A	34263556	3	1	135	1	0	0	0	0	1	0	0	0	3410	1580	55	5	873	5	CHST8	19	34263556	Missense_Mutation	SNP	T	TCGA-B0-5116-01A-02D-1421-08	24542626	34263556	24865427	55	7639											
ATP4A	495	broad.mit.edu;ucsc.edu	37	chr19	36054147	36054147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtatttctgttccagctcCgccactgacagctggtggtc	5	13	11	12	1	1	1	0	1	1	0	4	1	3	1	3	3	2	4	3	3	1	3	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	36054147	T	T	36054147	2	4	135	1	0	0	0	0	0	0	0	1	1145	639	23	1		1	ATP4A	19	36054147	Silent	SNP	C	TCGA-B0-5116-01A-02D-1421-08	1790591	36054147	23074836	56	7640											
RELB	5971	broad.mit.edu;hgsc.bcm.edu	37	chr19	45515352	45515352	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagccacgccgccgccttggGgctgccccctgggccgacta	4	5	13	19	4	0	0	0	0	0	0	0	1	0	0	7	3	2	1	7	3	1	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	45515352	G	T	45515352	2	4	135	1	0	0	0	0	0	0	0	1	13219	1232	43	4		4	RELB	19	45515352	Silent	SNP	G	TCGA-B0-5116-01A-02D-1421-08	9461205	45515352	13613631	57	7641											
MRPS26	64949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3028493	3028493	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagaggggctggtggtcaGgccacaacgcagggactcct	9	5	16	11	1	1	1	1	0	0	1	2	3	2	2	2	6	1	2	2	6	1	0	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	3028493	G	C	3028493	3	2	135	1	0	0	0	0	1	0	0	0	9837	1000	35	4	610	4	MRPS26	20	3028493	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08		3028493	59997027	58	7642											
ACSS2	55902	broad.mit.edu	37	chr20	33508376	33508376	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgggggctacatgctctAtgtagccacaaccttcaagt	10	11	10	10	0	2	0	1	0	1	0	2	0	2	0	2	2	4	4	2	2	5	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		G	33508376	G	G	33508376	3	3	135	1	0	0	0	0	1	0	0	0	189	449	16	3	1084	3	ACSS2	20	33508376	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08	30479883	33508376	29517144	59	7643											
C21orf45	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33642768	33642768	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtctctcttgtaatcaagAttcttgggcgtgcatctgta	9	15	9	8	1	5	1	1	0	4	1	6	1	5	1	0	1	1	3	0	1	4	5	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	33642768	A	C	33642768	3	2	135	1	0	0	0	0	1	0	0	0	2126	330	12	5	239	5	C21orf45	21	33642768	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08		33642768	14487127	60	7644											
C21orf29	0	broad.mit.edu	37	chr21	45950936	45950936	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatactcgccatgaacaggCctttggctctcctccggctg	6	10	9	16	2	1	1	0	1	1	0	4	1	2	1	5	3	2	2	5	3	2	2	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		A	45950936	A	A	45950936	3	1	135	1	0	0	0	0	1	0	0	0	2124	739	26	4	1422	4	C21orf29	21	45950936	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02D-1421-08	12308168	45950936	2178959	61	7645											
SLC25A14	9016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129499647	129499647	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcactgttgatggtattttAaaggtaagtacattgtggat	11	15	12	3	0	0	1	0	1	0	0	0	2	0	2	0	4	1	5	0	4	5	7	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	129499647	A	C	129499647	3	2	135	1	0	0	0	0	1	0	0	0	14478	359	13	5	882	5	SLC25A14	23	129499647	Missense_Mutation	SNP	A	TCGA-B0-5116-01A-02D-1421-08		129499647	25770913	62	7646											
CCDC160	347475	broad.mit.edu;hgsc.bcm.edu	37	chrX	133379666	133379666	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatccgcggagagctcaGtgtcatcaagaatgaactga	15	7	11	8	2	3	5	3	2	0	3	4	6	4	5	1	1	2	1	1	1	4	0	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		T	133379666	G	T	133379666	3	4	135	1	0	0	0	0	1	0	0	0	2792	1029	36	4	838	4	CCDC160	23	133379666	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	3880019	133379666	21890894	63	7647											
MAGEC1	9947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	140995587	140995587	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agttcccatgagagtcctcaGagtcctcctgaggggcctgc	7	9	12	13	0	1	3	1	2	0	2	5	4	5	3	5	2	1	1	5	2	0	1	novel		TCGA-B0-5116-01A-02D-1421-08	TCGA-B0-5116-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb879135-abb3-4415-9de5-6a508b61657d	083104b4-ab47-457f-8009-1c065ce02101		C	140995587	G	C	140995587	3	2	135	1	0	0	0	0	1	0	0	0	9180	933	33	4	2403	4	MAGEC1	23	140995587	Missense_Mutation	SNP	G	TCGA-B0-5116-01A-02D-1421-08	7615921	140995587	14274973	64	7648											
VHL	7428	hgsc.bcm.edu	37	chr3	10183815	10183815	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaacttcgacggcgagcCgcagccctacccaacgctgc	8	5	10	18	5	1	0	1	0	0	0	2	2	1	0	3	1	6	3	3	1	3	2	novel		TCGA-B0-5116-01A-02W-1475-10	TCGA-B0-5116-11A-01W-1475-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	e393f502-8aa5-40fb-8280-a89e36fa87aa	5a6e989a-cfad-46fb-beee-fdfa7b1430bd		A	10183815	C	A	10183815	3	1	136	1	0	0	0	0	1	0	0	0	17161	652	23	4	286	4	VHL	3	10183815	Missense_Mutation	SNP	C	TCGA-B0-5116-01A-02W-1475-10		10183815	187838615	1	7649											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu	37	chr1	11291426	11291426	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctcaagcaaagtagggtaCttcctgtagggctctactac	11	10	9	11	0	2	0	1	0	1	0	3	0	3	0	2	2	4	5	2	2	7	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	11291426	C	A	11291426	3	1	137	1	0	0	0	0	1	0	0	0	9954	564	20	4	5237	4	MTOR	1	11291426	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08		11291426	237959195	1	7650											
COL8A2	1296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36563552	36563552	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggtgagcaccgcagtgAaggccggtgtggcatgggca	8	5	19	9	3	0	2	0	2	0	0	0	3	0	2	2	5	1	4	2	5	1	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	36563552	A	C	36563552	3	2	137	1	0	0	0	0	1	0	0	0	3706	246	9	5	385	5	COL8A2	1	36563552	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	25272126	36563552	212687069	2	7651											
NGF	4803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	115829228	115829228	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgcgggtctgccccgcCacgcgtgcagctatcgccgc	4	8	13	16	6	1	0	0	0	1	0	2	0	1	0	4	1	4	3	4	1	1	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	115829228	C	A	115829228	2	1	137	1	0	0	0	0	0	0	0	1	10395	581	21	4		4	NGF	1	115829228	Silent	SNP	C	TCGA-B0-5119-01A-02D-1421-08	79265676	115829228	133421393	3	7652											
RGL1	23179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183835159	183835159	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacaagcccaaactgtgAagaagatggaagccaaagtt	16	6	10	9	0	0	4	0	2	0	2	0	5	0	5	3	1	3	1	3	1	6	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	183835159	A	G	183835159	3	3	137	1	0	0	0	0	1	0	0	0	13278	246	9	3	496	3	RGL1	1	183835159	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	68005931	183835159	65415462	4	7653											
PPP1R15B	84919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204380314	204380314	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaccttctgaagcaatcCggggagcggcgcaaggagct	10	6	14	11	3	1	1	0	1	1	0	2	3	2	3	2	4	4	4	2	4	4	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	204380314	C	A	204380314	4	1	137	1	0	0	0	0	0	1	0	0	12366	661	23	4	1923	4	PPP1R15B	1	204380314	Nonsense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	20545155	204380314	44870307	5	7654											
RBBP5	5929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205069187	205069187	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaacaacatttcttccatGgggtcctaaaggacaaggaa	16	8	9	8	0	1	1	0	0	1	1	3	3	3	3	2	4	2	0	2	4	6	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	205069187	G	T	205069187	3	4	137	1	0	0	0	0	1	0	0	0	13104	1348	47	4	886	4	RBBP5	1	205069187	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	688873	205069187	44181434	6	7655											
SMYD2	56950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214510074	214510074	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatcatggaagtagctcacGgcaaagatcatccatatatt	15	10	7	9	1	3	1	3	0	0	1	4	2	4	2	1	2	1	3	1	2	6	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	214510074	G	A	214510074	3	1	137	1	0	0	0	0	1	0	0	0	14824	1116	39	1	1295	1	SMYD2	1	214510074	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	9440887	214510074	34740547	7	7656											
TPO	7173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1440117	1440117	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaaacacttgcctggCgaacaaatacaggcccatca	14	6	7	14	1	1	0	1	0	0	0	1	1	1	0	3	2	5	0	3	2	4	2	rs138509145		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	1440117	C	A	1440117	3	1	137	1	0	0	0	0	1	0	0	0	16409	768	27	4	457	4	TPO	2	1440117	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08		1440117	241759256	8	7657											
ASXL2	55252	hgsc.bcm.edu;ucsc.edu	37	chr2	25973133	25973136	+	Frame_Shift_Del	DEL	CACT	CACT	-																															tttgcaatgcttcttctttaCactctgactgggagactact																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	CACT	CACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	25973136	CACT	-	25973133	7	5	137	1	0	1	0	1	0	0	0	0	1067	478	17	0	3023	0	ASXL2	2	25973133	Frame_Shift_Del	DEL	CACT	TCGA-B0-5119-01A-02D-1421-08	24533016	25973133	217226240	9	7658											
FAM179A	165186	broad.mit.edu;ucsc.edu	37	chr2	29221046	29221048	+	In_Frame_Del	DEL	CAT	-	-																															gtggccgtgtactgcgggagCatccctcggaccagtgctgg																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	29221048	-	-	29221046	7	5	137	1	0	1	0	1	0	0	0	0	5505	709	25	0	72	0	FAM179A	2	29221046	In_Frame_Del	DEL	CAT	TCGA-B0-5119-01A-02D-1421-08	3247913	29221046	213978327	10	7659											
PAPOLG	64895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61020826	61020826	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaccaccagcccaaggaCtttccattccagtgattggc	9	10	9	13	0	0	1	0	1	0	0	2	2	2	2	5	2	2	1	5	2	2	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	61020826	C	T	61020826	3	4	137	1	0	0	0	0	1	0	0	0	11431	565	20	2	1814	2	PAPOLG	2	61020826	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	31799780	61020826	182178547	11	7660											
WDR33	55339	hgsc.bcm.edu;ucsc.edu	37	chr2	128481936	128481937	+	Frame_Shift_Ins	INS	-	-	AT																															catttgagcctgagcagagaINSatatgcccaagaggatgcca																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		AT	128481937	-	AT	128481936	7	5	137	1	0	1	1	0	0	0	0	0	17286	242	9	0	2891	0	WDR33	2	128481936	Frame_Shift_Ins	INS	-	TCGA-B0-5119-01A-02D-1421-08	67461110	128481936	114717437	12	7661											
SNED1	25992	broad.mit.edu	37	chr2	241991198	241991199	+	Frame_Shift_Ins	INS	-	G	G																															gctcagggccctgccggaacINSgggggcacgtgcaaggaggc																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	241991199	G	G	241991198	7	5	137	1	0	1	1	0	0	0	0	0	14847	535	19	0	1823	0	SNED1	2	241991198	Frame_Shift_Ins	INS	-	TCGA-B0-5119-01A-02D-1421-08	113509262	241991198	1208175	13	7662											
ANO10	55129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	43618354	43618354	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagtaaatcatcatgacaTacagtgagaaatagaggcag	18	7	10	6	1	2	3	2	2	0	2	2	5	2	3	0	1	1	2	0	1	6	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	43618354	T	C	43618354	3	2	137	1	0	0	0	0	1	0	0	0	696	1406	49	3	1022	3	ANO10	3	43618354	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08		43618354	154404076	14	7663											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52649437	52649437	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctctttccttttctccttGagtaacttctccaggatatg	7	17	6	11	0	3	1	0	1	3	0	6	2	4	2	3	1	2	2	3	1	2	7	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	52649437	G	A	52649437	2	1	137	1	0	0	0	0	0	0	0	1	11491	1277	45	2		2	PBRM1	3	52649437	Silent	SNP	G	TCGA-B0-5119-01A-02D-1421-08	9031083	52649437	145372993	15	7664											
FSTL1	11167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	120130797	120130797	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtaggtcttgccattacTgccacacacaggcctcttgt	8	11	10	12	0	2	0	0	0	2	0	2	1	2	0	3	3	3	1	3	3	2	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	120130797	T	G	120130797	3	3	137	1	0	0	0	0	1	0	0	0	6077	1580	55	5	756	5	FSTL1	3	120130797	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08	67481360	120130797	77891633	16	7665											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130293169	130293169	+	Frame_Shift_Del	DEL	A	A	-																															tacagatggccagtcccaagAcgaggtggcccaggccgcgg																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	130293169	A	-	130293169	7	5	137	1	0	1	0	1	0	0	0	0	3703	275	10	0	3373	0	COL6A6	3	130293169	Frame_Shift_Del	DEL	A	TCGA-B0-5119-01A-02D-1421-08	10162372	130293169	67729261	17	7666											
PLOD2	5352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	145820619	145820619	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agctctggctttgccattttCaaattttaaaacaacttcat	12	16	4	9	0	3	0	2	0	1	0	3	0	3	0	1	1	4	2	1	1	4	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	145820619	C	G	145820619	3	3	137	1	0	0	0	0	1	0	0	0	12102	835	29	4	1632	4	PLOD2	3	145820619	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	15527450	145820619	52201811	18	7667											
MYNN	55892	broad.mit.edu;hgsc.bcm.edu	37	chr3	169492076	169492076	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtaaaattccattctgAtatcaaaatgcagtattcgc	15	12	7	7	1	2	1	1	1	1	0	4	1	3	1	1	1	1	3	1	1	7	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	169492076	A	G	169492076	1	3	137	0	1	0	0	0	0	0	0	0	10061	348	12	3		3	MYNN	3	169492076	RNA	SNP	A	TCGA-B0-5119-01A-02D-1421-08	23671457	169492076	28530354	19	7668											
NAALADL2	254827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	174815003	174815003	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcccttcagatgctccatCttcaggaacagttgatcctc	8	13	7	13	0	3	2	2	1	1	1	6	3	5	3	3	1	3	2	3	1	1	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	174815003	C	G	174815003	3	3	137	1	0	0	0	0	1	0	0	0	10130	913	32	4	473	4	NAALADL2	3	174815003	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	5322927	174815003	23207427	20	7669											
ZBTB49	166793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	4304210	4304210	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaattactattacaaacTcagaaacttttacagtaagc	17	11	4	9	0	1	1	1	0	0	1	1	1	1	1	1	0	6	1	1	0	8	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	4304210	T	G	4304210	3	3	137	1	0	0	0	0	1	0	0	0	17549	1551	54	5	653	5	ZBTB49	4	4304210	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08		4304210	186850066	21	7670											
RICTOR	253260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	38963027	38963027	+	Frame_Shift_Del	DEL	T	T	-																															ggagatactgatcccgtttcTggtgtgttgcaattgctttc																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	38963027	T	-	38963027	7	5	137	1	0	1	0	1	0	0	0	0	13360	1580	55	0	3697	0	RICTOR	5	38963027	Frame_Shift_Del	DEL	T	TCGA-B0-5119-01A-02D-1421-08		38963027	141952233	22	7671											
F2R	2149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	76028881	76028881	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagccttctctgctgtCttcttttttgtgccgctgat	2	20	7	12	1	4	1	1	1	4	0	6	1	4	1	2	0	3	2	2	0	0	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	76028881	C	A	76028881	2	1	137	1	0	0	0	0	0	0	0	1	5343	900	32	4		4	F2R	5	76028881	Silent	SNP	C	TCGA-B0-5119-01A-02D-1421-08	37065854	76028881	104886379	23	7672											
SHROOM1	134549	broad.mit.edu	37	chr5	132158730	132158730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaccagcacctcccgcaCggcccgctcgcgccgcgcta	5	4	10	22	8	0	0	0	0	0	0	3	0	1	0	5	1	1	5	5	1	1	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	132158730	T	T	132158730	3	4	137	1	0	0	0	0	1	0	0	0	14295	536	19	1	245	1	SHROOM1	5	132158730	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	56129849	132158730	48756530	24	7673											
SAR1B	51128	broad.mit.edu;hgsc.bcm.edu	37	chr5	133944073	133944073	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttacctttcctgttgTctgaccatataaaccaaaca	11	17	3	10	0	1	1	0	1	1	0	2	1	2	1	4	0	3	1	4	0	5	8	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	133944073	T	A	133944073	3	1	137	1	0	0	0	0	1	0	0	0	13842	1667	58	5	135	5	SAR1B	5	133944073	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08	1785343	133944073	46971187	25	7674											
OR2W1	26692	broad.mit.edu;hgsc.bcm.edu	37	chr6	29012082	29012082	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtccttatttcttaaggTgtaaatgagcgggttgagac	10	14	11	6	1	1	2	0	2	1	1	2	3	2	2	1	2	1	2	1	2	4	5	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	29012082	T	A	29012082	3	1	137	1	0	0	0	0	1	0	0	0	11032	1696	59	5	95	5	OR2W1	6	29012082	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08		29012082	142102985	26	7675											
ITPR3	3710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33639879	33639879	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgagccgcaagcagtcCgtcttcagtgcccccagcct	6	8	11	16	2	2	1	1	1	1	0	3	1	3	1	5	0	5	3	5	0	1	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	33639879	C	T	33639879	2	4	137	1	0	0	0	0	0	0	0	1	7922	639	23	1		1	ITPR3	6	33639879	Silent	SNP	C	TCGA-B0-5119-01A-02D-1421-08	4627797	33639879	137475188	27	7676											
CDKN1A	1026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36652157	36652157	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgagttgggaggaggcagGcggcctggcacctcacctgc	7	6	17	11	1	1	1	1	1	0	0	1	4	1	3	3	6	1	3	3	6	0	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	36652157	G	C	36652157	3	2	137	1	0	0	0	0	1	0	0	0	3158	1194	42	4	281	4	CDKN1A	6	36652157	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	3012278	36652157	134462910	28	7677											
THEMIS	387357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	128150971	128150971	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctagttttatatccttcTgatgatagaagcaaggatgc	11	15	8	7	0	2	3	0	2	2	1	4	4	3	4	1	1	2	2	1	1	6	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	128150971	T	C	128150971	3	2	137	1	0	0	0	0	1	0	0	0	15859	1580	55	3	1703	3	THEMIS	6	128150971	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08	91498814	128150971	42964096	29	7678											
NRG1	3084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	32505280	32505280	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaggtcgccgccgagaGgtcctccagcccctccactc	5	7	11	18	3	1	2	0	1	1	1	6	3	4	2	7	2	1	0	7	2	0	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	32505280	G	C	32505280	3	2	137	1	0	0	0	0	1	0	0	0	10647	1000	35	4	1319	4	NRG1	8	32505280	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08		32505280	113858742	30	7679											
VCPIP1	80124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67578932	67578932	+	Missense_Mutation	SNP	C	C	A																															cactacgtccgggtcggtcaCctcctcaacccccagcagct																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	67578932	C	A	67578932	3	1	137	1	0	0	0	0	1	0	0	0	17140	507	18	4	3418	4	VCPIP1	8	67578932	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	35073652	67578932	78785090	31	7680	104	2									
VCPIP1	80124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67578933	67578933	+	Missense_Mutation	SNP	C	C	G																															actacgtccgggtcggtcacCtcctcaacccccagcagctg																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	67578933	C	G	67578933	3	3	137	1	0	0	0	0	1	0	0	0	17140	680	24	4	3419	4	VCPIP1	8	67578933	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	1	67578933	78785089	32	7681	104	2									
SULF1	23213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	70512843	70512843	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggatattttcagaactcCtagttataactatgcaccaa	13	14	5	9	0	2	1	1	0	1	1	3	2	3	2	2	1	3	2	2	1	7	7	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	70512843	C	G	70512843	3	3	137	1	0	0	0	0	1	0	0	0	15371	681	24	4	758	4	SULF1	8	70512843	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	2933910	70512843	75851179	33	7682											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu	37	chr8	100847774	100847774	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaatttcagatattccAaagtttgaggtttattgcaa	14	17	6	4	0	1	2	1	1	0	1	2	2	2	2	1	1	1	3	1	1	6	9	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	100847774	A	G	100847774	2	3	137	1	0	0	0	0	0	0	0	1	17189	117	5	3		3	VPS13B	8	100847774	Silent	SNP	A	TCGA-B0-5119-01A-02D-1421-08	30334931	100847774	45516248	34	7683											
FBXO43	286151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	101153402	101153402	+	Frame_Shift_Del	DEL	C	C	-																															ttgggagtccccttatgtttCtgcagtagttcttgaaaaga																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	101153402	C	-	101153402	7	5	137	1	0	1	0	1	0	0	0	0	5752	912	32	0	1062	0	FBXO43	8	101153402	Frame_Shift_Del	DEL	C	TCGA-B0-5119-01A-02D-1421-08	305628	101153402	45210620	35	7684											
LAMC3	10319	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133914596	133914596	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctggaagtgtgaccgctGtctgcccgggttccactcgc	4	10	14	13	3	1	1	0	1	1	0	3	2	2	2	3	3	1	3	3	3	1	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	133914596	G	C	133914596	3	2	137	1	0	0	0	0	1	0	0	0	8616	1377	48	4	1266	4	LAMC3	9	133914596	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08		133914596	7298835	36	7685											
OLFM1	10439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	137990174	137990174	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttaggcctttgatacctGtgttggaagagtacaaggcc	11	11	11	8	0	0	2	0	1	0	1	0	3	0	3	3	3	3	2	3	3	6	5	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	137990174	G	C	137990174	3	2	137	1	0	0	0	0	1	0	0	0	10852	1377	48	4	469	4	OLFM1	9	137990174	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	4075578	137990174	3223257	37	7686											
MLLT10	8028	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	22002761	22002761	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtagtatctggctcgggatCtagtactcctgtctccagct	6	14	10	11	1	3	0	0	0	3	0	6	1	4	1	2	2	2	5	2	2	4	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	22002761	C	T	22002761	3	4	137	1	0	0	0	0	1	0	0	0	9626	913	32	2	1862	2	MLLT10	10	22002761	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08		22002761	113531986	38	7687											
BICC1	80114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	60558280	60558280	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggtacacccagccccacAttatgggcacccccacttgc	8	8	7	18	0	1	0	0	0	1	0	1	0	1	0	5	2	3	2	5	2	2	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	60558280	A	G	60558280	2	3	137	1	0	0	0	0	0	0	0	1	1427	204	8	3		3	BICC1	10	60558280	Silent	SNP	A	TCGA-B0-5119-01A-02D-1421-08	38555519	60558280	74976467	39	7688											
OIT3	170392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	74673124	74673124	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccccagggagctggttggTggcctggagctcttcctgac	5	10	14	12	0	1	1	0	1	1	0	3	3	3	3	4	5	2	3	4	5	0	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	74673124	T	C	74673124	2	2	137	1	0	0	0	0	0	0	0	1	10849	1683	59	3		3	OIT3	10	74673124	Silent	SNP	T	TCGA-B0-5119-01A-02D-1421-08	14114844	74673124	60861623	40	7689											
EIF3M	10480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32610272	32610272	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacgcccgtctctgagacTgcagttgtaagttaagatct	10	12	10	9	2	2	3	0	2	2	2	3	4	2	3	1	0	2	4	1	0	3	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	32610272	T	C	32610272	3	2	137	1	0	0	0	0	1	0	0	0	5023	1580	55	3	318	3	EIF3M	11	32610272	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08		32610272	102396244	41	7690											
C11orf74	119710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	36680650	36680650	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgctaacctccaagtttagtCctgcagagatagagaacatc	13	10	8	10	0	0	2	0	0	0	2	3	4	2	2	3	0	4	3	3	0	5	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	36680650	C	T	36680650	3	4	137	1	0	0	0	0	1	0	0	0	1662	855	30	2	598	2	C11orf74	11	36680650	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	4070378	36680650	98325866	42	7691											
PPP2R1B	5519	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111624212	111624212	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggtagaagatgttcaatGgtattttctttgcccaaaat	13	14	9	5	0	2	3	1	0	1	3	2	3	2	3	1	2	1	3	1	2	6	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	111624212	G	T	111624212	2	4	137	1	0	0	0	0	0	0	0	1	12385	1335	47	4		4	PPP2R1B	11	111624212	Silent	SNP	G	TCGA-B0-5119-01A-02D-1421-08	74943562	111624212	23382304	43	7692											
SLC11A2	4891	hgsc.bcm.edu;ucsc.edu	37	chr12	51384633	51384636	+	Frame_Shift_Del	DEL	AATG	AATG	-																															ccacagcagccaccacatatAatgccacatgccctaggtcc																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	AATG	AATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	51384636	AATG	-	51384633	7	5	137	1	0	1	0	1	0	0	0	0	14383	372	13	0	255	0	SLC11A2	12	51384633	Frame_Shift_Del	DEL	AATG	TCGA-B0-5119-01A-02D-1421-08		51384633	82467262	44	7693											
DCN	1634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	91545456	91545456	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtacttatgctctgccagcCcaccaggtactctggtaagc	8	11	9	13	0	2	0	0	0	2	0	2	0	2	0	3	2	6	4	3	2	4	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	91545456	C	A	91545456	3	1	137	1	0	0	0	0	1	0	0	0	4297	623	22	4	227	4	DCN	12	91545456	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	40160823	91545456	42306439	45	7694											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117703219	117703219	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcacgatccacacccagtCggcagggcagcccccccggc	7	2	13	19	3	0	0	0	0	0	0	2	1	1	0	5	4	1	3	5	4	0	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	117703219	C	T	117703219	3	4	137	1	0	0	0	0	1	0	0	0	10541	884	31	1	2338	1	NOS1	12	117703219	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	26157763	117703219	16148676	46	7695											
DNAH10	196385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124272412	124272412	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaccctcaggctgtggAaaaaggcctattttgacacc	12	8	10	11	0	1	1	1	1	0	0	1	3	1	3	3	4	1	1	3	4	4	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	124272412	A	T	124272412	4	4	137	1	0	0	0	0	0	1	0	0	4598	247	9	5	1338	5	DNAH10	12	124272412	Nonsense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	6569193	124272412	9579483	47	7696											
CHFR	55743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133435664	133435664	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggtcgcacctcacgcagtCgtgcagcaggtcctggcaga	8	6	13	14	4	1	1	1	0	0	1	4	1	2	1	2	3	2	5	2	3	0	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	133435664	C	T	133435664	3	4	137	1	0	0	0	0	1	0	0	0	3337	884	31	1	1101	1	CHFR	12	133435664	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	9163252	133435664	416231	48	7697											
USPL1	10208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	31232080	31232081	+	Frame_Shift_Del	DEL	CA	CA	-																															aatacaggaattctcaaaacCaatactttgctatcacaaga																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	31232081	CA	-	31232080	7	5	137	1	0	1	0	1	0	0	0	0	17091	581	21	0	1896	0	USPL1	13	31232080	Frame_Shift_Del	DEL	CA	TCGA-B0-5119-01A-02D-1421-08		31232080	83937798	49	7698											
C13orf18	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	46919734	46919734	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctcgaactcctttaatgCactgccagagaggaaacaaa	14	8	8	11	1	0	1	0	0	0	1	2	4	1	2	2	1	5	2	2	1	4	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	46919734	C	A	46919734	3	1	137	1	0	0	0	0	1	0	0	0	1720	724	25	4	367	4	C13orf18	13	46919734	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	15687654	46919734	68250144	50	7699											
PCDH20	64881	hgsc.bcm.edu;ucsc.edu	37	chr13	61985426	61985426	+	Frame_Shift_Del	DEL	T	T	-																															ctctcgcatatgcaagtcaaTttttcctttcagtggaatct																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	61985426	T	-	61985426	7	5	137	1	0	1	0	1	0	0	0	0	11515	1493	52	0	53	0	PCDH20	13	61985426	Frame_Shift_Del	DEL	T	TCGA-B0-5119-01A-02D-1421-08	15065692	61985426	53184452	51	7700											
PCDH20	64881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	61985497	61985497	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttttcccctttccttaaaCagatgtatatgcccatccct	8	15	4	14	0	0	1	0	0	0	1	3	1	3	1	5	0	2	2	5	0	4	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	61985497	C	G	61985497	3	3	137	1	0	0	0	0	1	0	0	0	11515	478	17	4	124	4	PCDH20	13	61985497	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	71	61985497	53184381	52	7701											
C13orf34	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	73309117	73309117	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaatagataaagatgtggaaGacaaaagacaaaaagccatt	22	6	9	4	0	0	4	0	0	0	4	0	6	0	5	1	1	1	0	1	1	9	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	73309117	G	C	73309117	3	2	137	1	0	0	0	0	1	0	0	0	1728	942	33	4	290	4	C13orf34	13	73309117	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	11323620	73309117	41860761	53	7702											
AKAP6	9472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	33292027	33292027	+	Missense_Mutation	SNP	G	G	T																															cccaaaagatgtcctttactGgccagatgtcattggacata																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	33292027	G	T	33292027	3	4	137	1	0	0	0	0	1	0	0	0	455	1348	47	4	5054	4	AKAP6	14	33292027	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08		33292027	74057513	54	7703	105	2									
AKAP6	9472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	33292028	33292028	+	Missense_Mutation	SNP	G	G	T																															ccaaaagatgtcctttactgGccagatgtcattggacatag																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	33292028	G	T	33292028	3	4	137	1	0	0	0	0	1	0	0	0	455	1203	42	4	5055	4	AKAP6	14	33292028	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	1	33292028	74057512	55	7704	105	2									
WDR25	79446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	100847489	100847489	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaagacccagggggctaTcgccttccattggctcagct	7	10	12	12	1	1	2	1	1	0	1	3	2	2	2	3	3	1	3	3	3	2	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	100847489	T	A	100847489	4	1	137	1	0	0	0	0	0	1	0	0	17281	1442	50	5	230	5	WDR25	14	100847489	Nonsense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08	67555461	100847489	6502051	56	7705											
TJP1	7082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	30012148	30012148	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttaaatttacattatgatTaacagcagaggttgatgatg	15	14	9	3	0	0	4	0	3	0	1	0	4	0	4	0	1	3	3	0	1	5	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	30012148	T	A	30012148	3	1	137	1	0	0	0	0	1	0	0	0	15928	1754	61	5	2446	5	TJP1	15	30012148	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08		30012148	72519244	57	7706											
RAD51	5888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40993342	40993342	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgttgcctatgcgccAaagaaggagctaataaatat	14	9	11	7	1	0	1	0	0	0	1	0	3	0	2	2	2	3	3	2	2	7	5	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	40993342	A	T	40993342	2	4	137	1	0	0	0	0	0	0	0	1	12987	117	5	5		5	RAD51	15	40993342	Silent	SNP	A	TCGA-B0-5119-01A-02D-1421-08	10981194	40993342	61538050	58	7707											
MYO5C	55930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52510811	52510811	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcaagtggtcactggcctCctgcatttcttgaatcttat	7	16	7	11	0	4	1	2	1	2	0	5	1	5	1	2	2	1	1	2	2	3	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	52510811	C	T	52510811	3	4	137	1	0	0	0	0	1	0	0	0	10080	864	30	2	1409	2	MYO5C	15	52510811	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	11517469	52510811	50020581	59	7708											
ACAN	176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89382024	89382024	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accaccgccccttctaccgcCccactggccccaagaatcaa	10	5	5	21	2	2	1	1	0	1	1	2	1	2	1	9	1	1	0	9	1	4	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	89382024	C	G	89382024	2	3	137	1	0	0	0	0	0	0	0	1	117	610	22	4		4	ACAN	15	89382024	Silent	SNP	C	TCGA-B0-5119-01A-02D-1421-08	36871213	89382024	13149368	60	7709											
POLR3K	51728	hgsc.bcm.edu	37	chr16	103487	103489	+	In_Frame_Del	DEL	TGT	TGT	-																															gggtcccaccttgcgggtgaTgttgtgcacgtaggggcacg																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	103489	TGT	-	103487	7	5	137	1	0	1	0	1	0	0	0	0	12237	1464	51	0	238	0	POLR3K	16	103487	In_Frame_Del	DEL	TGT	TCGA-B0-5119-01A-02D-1421-08		103487	90251266	61	7710											
SOLH	6650	hgsc.bcm.edu	37	chr16	601338	601338	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctgtggcgggggcaacatGaaggtggacgattcggccta	8	8	16	9	3	0	1	0	1	0	0	2	3	1	2	2	6	1	1	2	6	3	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	601338	G	A	601338	3	1	137	1	0	0	0	0	1	0	0	0	14927	1290	45	2	2121	2	SOLH	16	601338	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	497851	601338	89753415	62	7711											
TELO2	9894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1552946	1552946	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaggtggccgactatctGacctcacagttctatgccct	7	11	8	15	1	4	1	2	1	2	0	4	2	4	1	4	2	1	1	4	2	2	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	1552946	G	T	1552946	2	4	137	1	0	0	0	0	0	0	0	1	15756	1277	45	4		4	TELO2	16	1552946	Silent	SNP	G	TCGA-B0-5119-01A-02D-1421-08	951608	1552946	88801807	63	7712											
UBN1	29855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4903144	4903144	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatatccgagggaaggtaAaaggccttcagcctggagat	14	7	13	7	1	1	2	1	0	0	2	2	5	2	3	3	4	1	1	3	4	5	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	4903144	A	C	4903144	3	2	137	1	0	0	0	0	1	0	0	0	16891	15	1	5	228	5	UBN1	16	4903144	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	3350198	4903144	85451609	64	7713											
C16orf62	57020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	19576270	19576270	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaccctctgaaacccataActgtaagttttgttaagggt	12	13	7	9	0	2	1	1	1	1	0	2	1	2	1	2	1	2	3	2	1	4	5	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	19576270	A	C	19576270	3	2	137	1	0	0	0	0	1	0	0	0	1825	43	2	5	121	5	C16orf62	16	19576270	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	14673126	19576270	70778483	65	7714											
LOC81691	81691	broad.mit.edu;ucsc.edu	37	chr16	20851655	20851655	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgtttttcctacagatGaggatcaagtggacagagat	11	13	11	6	0	1	3	1	1	0	2	2	6	2	5	1	2	1	2	1	2	2	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	20851655	T	T	20851655	3	4	137	1	0	0	0	0	1	0	0	0	8890	1290	45	4	1545	4	LOC81691	16	20851655	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	1275385	20851655	69503098	66	7715											
SHCBP1	79801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	46652119	46652119	+	Frame_Shift_Del	DEL	A	A	-																															agcaaaaaacctactcacctAaaatgtaatcttgataggct																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	46652119	A	-	46652119	7	5	137	1	0	1	0	1	0	0	0	0	14276	372	13	0	1797	0	SHCBP1	16	46652119	Frame_Shift_Del	DEL	A	TCGA-B0-5119-01A-02D-1421-08	25800464	46652119	43702634	67	7716											
SPG7	6687	hgsc.bcm.edu;ucsc.edu	37	chr16	89616935	89616935	+	Frame_Shift_Del	DEL	A	A	-																															gagcaagatcctgtccaaggAagaacagaaagtggttgcgt																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	89616935	A	-	89616935	7	5	137	1	0	1	0	1	0	0	0	0	15045	246	9	0	1897	0	SPG7	16	89616935	Frame_Shift_Del	DEL	A	TCGA-B0-5119-01A-02D-1421-08	42964816	89616935	737818	68	7717											
PRPF8	10594	broad.mit.edu;ucsc.edu	37	chr17	1582621	1582621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagggggccgatgcttcaggGcattcagcacatagtactta	10	10	12	9	1	2	0	2	0	0	0	2	1	2	0	1	3	3	4	1	3	4	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	1582621	A	A	1582621	3	1	137	1	0	0	0	0	1	0	0	0	12577	1203	42	2	5770	2	PRPF8	17	1582621	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08		1582621	79612589	69	7718											
CACNA1G	8913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48652948	48652948	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcctggtggtgattgcCacgcagttctcagagaccaa	8	10	12	11	1	1	2	1	1	1	1	2	3	1	2	3	2	2	2	3	2	1	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	48652948	C	T	48652948	2	4	137	1	0	0	0	0	0	0	0	1	2544	581	21	2		2	CACNA1G	17	48652948	Silent	SNP	C	TCGA-B0-5119-01A-02D-1421-08	47070327	48652948	32542262	70	7719											
MRC2	9902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60757631	60757631	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgggtggccatgcagtGcgacacacagctggactgga	9	6	16	10	1	0	0	0	0	0	0	0	3	0	2	1	4	3	3	1	4	0	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	60757631	G	A	60757631	3	1	137	1	0	0	0	0	1	0	0	0	9758	1319	46	2	2457	2	MRC2	17	60757631	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	12104683	60757631	20437579	71	7720											
RECQL5	9400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73624786	73624786	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcttgcccttccatgtgTcctttgcaggggtgggctgg	2	12	15	12	1	0	0	0	0	0	0	2	0	2	0	4	4	2	3	4	4	0	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	73624786	T	A	73624786	3	1	137	1	0	0	0	0	1	0	0	0	13205	1667	58	5	445	5	RECQL5	17	73624786	Missense_Mutation	SNP	T	TCGA-B0-5119-01A-02D-1421-08	12867155	73624786	7570424	72	7721											
B4GALT6	9331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29207086	29207086	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattctttatatggaagacTagaaaagaaagacacagtat	20	10	7	4	0	1	4	0	0	1	4	1	5	1	5	0	1	0	1	0	1	9	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	29207086	T	G	29207086	5	3	137	1	0	0	0	0	0	0	1	0	1275	1536	53	5	385	5	B4GALT6	18	29207086	Splice_Site	SNP	T	TCGA-B0-5119-01A-02D-1421-08		29207086	48870162	73	7722											
STK11	6794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1220429	1220429	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagccagggcattgtgcaCaaggacatcaagccggggaa	13	5	13	10	1	1	0	1	0	0	0	1	2	1	2	2	4	3	2	2	4	4	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	1220429	C	T	1220429	2	4	137	1	0	0	0	0	0	0	0	1	15288	477	17	2		2	STK11	19	1220429	Silent	SNP	C	TCGA-B0-5119-01A-02D-1421-08		1220429	57908554	74	7723											
MYO1F	4542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8592225	8592225	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggacctggcttcacctgAgggagactccccgcagagcc	9	6	12	14	1	1	3	1	1	0	2	2	5	2	4	5	3	1	2	5	3	1	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	8592225	A	T	8592225	3	4	137	1	0	0	0	0	1	0	0	0	10073	304	11	5	853	5	MYO1F	19	8592225	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	7371796	8592225	50536758	75	7724											
OR7G1	125962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9225524	9225524	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaaaggaaacagcctacCaataagtttcctcaaagctt	17	9	5	10	0	1	0	1	0	0	0	2	1	2	1	3	1	4	2	3	1	8	5	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	9225524	C	A	9225524	3	1	137	1	0	0	0	0	1	0	0	0	11222	608	21	4	93	4	OR7G1	19	9225524	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	633299	9225524	49903459	76	7725											
OR7G1	125962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9226001	9226001	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtgctcatgaacatggagaGaagaatcagcaagccccaga	16	5	11	9	0	2	4	2	1	0	3	2	6	2	5	2	1	4	2	2	1	4	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	9226001	G	C	9226001	3	2	137	1	0	0	0	0	1	0	0	0	11222	942	33	4	570	4	OR7G1	19	9226001	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08	477	9226001	49902982	77	7726											
PAK4	10298	broad.mit.edu;ucsc.edu	37	chr19	39664492	39664492	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgcagctggtggtggacCcaggcgacccccgctcctac	5	6	12	18	2	0	0	0	0	0	0	1	2	1	1	5	4	3	3	5	4	1	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	39664492	A	A	39664492	3	1	137	1	0	0	0	0	1	0	0	0	11403	623	22	4	950	4	PAK4	19	39664492	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	30438491	39664492	19464491	78	7727											
PRKD2	25865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47177845	47177845	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggtggacaggccccacCgagatccctgtccgtgggca	6	7	14	14	2	0	1	0	0	0	1	2	3	2	2	5	4	0	1	5	4	0	0	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		G	47177845	C	G	47177845	3	3	137	1	0	0	0	0	1	0	0	0	12521	652	23	4	68	4	PRKD2	19	47177845	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	7513353	47177845	11951138	79	7728											
PTPRH	5794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55693237	55693237	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgactgttggaggaacCgcaggatgcactgatgcagg	9	7	17	8	1	0	2	0	2	0	0	0	5	0	5	1	5	3	5	1	5	1	1	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	55693237	C	T	55693237	3	4	137	1	0	0	0	0	1	0	0	0	12805	652	23	1	118	1	PTPRH	19	55693237	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	8515392	55693237	3435746	80	7729											
ZNF805	390980	broad.mit.edu;ucsc.edu	37	chr19	57765250	57765250	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaaggtcttcaaacacAgatcatacctcatgtggcac	12	9	9	11	0	4	1	3	0	1	1	4	1	4	1	1	3	2	2	1	3	3	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	57765250	T	T	57765250	4	4	137	1	0	0	0	0	0	1	0	0	18171	180	7	5	1077	5	ZNF805	19	57765250	Nonsense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	2072013	57765250	1363733	81	7730											
PCK1	5105	hgsc.bcm.edu;ucsc.edu	37	chr20	56140707	56140709	+	In_Frame_Del	DEL	CAA	CAA	-																															ctgaaaggcctggggcacatCaacatgatggagcttttcag																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	CAA	CAA	CAA	-	CAA	CAA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	56140709	CAA	-	56140707	7	5	137	1	0	1	0	1	0	0	0	0	11581	816	29	0	1750	0	PCK1	20	56140707	In_Frame_Del	DEL	CAA	TCGA-B0-5119-01A-02D-1421-08		56140707	6884813	82	7731											
PI4KA	5297	broad.mit.edu;ucsc.edu	37	chr22	21152931	21152931	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacggagctggccttcacActgatctgctggaagaggtt	10	9	12	10	1	2	2	1	1	1	1	2	4	2	4	1	4	3	3	1	4	2	2	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	21152931	C	C	21152931	3	2	137	1	0	0	0	0	1	0	0	0	11873	156	6	5	4415	5	PI4KA	22	21152931	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08		21152931	30151635	83	7732											
PIWIL3	440822	hgsc.bcm.edu;ucsc.edu	37	chr22	25131751	25131754	+	Frame_Shift_Del	DEL	TGTG	TGTG	-																															ctttaaggacatggcttctcTgtgactgctcctgctataga																								novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	TGTG	TGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		-	25131754	TGTG	-	25131751	7	5	137	1	0	1	0	1	0	0	0	0	11959	1588	55	0	1126	0	PIWIL3	22	25131751	Frame_Shift_Del	DEL	TGTG	TCGA-B0-5119-01A-02D-1421-08	3978820	25131751	26172815	84	7733											
ADSL	158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40742638	40742638	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgctatgccagcccggagAtgtgcttcgtgtttagcgac	6	10	12	13	4	0	1	0	0	0	1	1	3	0	1	3	1	4	3	3	1	2	4	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		C	40742638	A	C	40742638	3	2	137	1	0	0	0	0	1	0	0	0	346	333	12	5	78	5	ADSL	22	40742638	Missense_Mutation	SNP	A	TCGA-B0-5119-01A-02D-1421-08	15610887	40742638	10561928	85	7734											
CELSR1	9620	broad.mit.edu;hgsc.bcm.edu	37	chr22	46807519	46807519	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttggagccggtctgagtGccctgggcagcgcagctgta	5	10	15	11	2	2	1	0	1	2	0	2	2	2	2	2	3	4	4	2	3	1	3	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	46807519	G	T	46807519	2	4	137	1	0	0	0	0	0	0	0	1	3221	1306	46	4		4	CELSR1	22	46807519	Silent	SNP	G	TCGA-B0-5119-01A-02D-1421-08	6064881	46807519	4497047	86	7735											
ATP1B4	23439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	119504657	119504657	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactatttctgaccatcaGtccctatataccaaccttca	12	12	2	15	0	3	1	2	1	1	0	4	1	4	1	4	0	2	0	4	0	5	6	novel		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		A	119504657	G	A	119504657	3	1	137	1	0	0	0	0	1	0	0	0	1135	1029	36	2	426	2	ATP1B4	23	119504657	Missense_Mutation	SNP	G	TCGA-B0-5119-01A-02D-1421-08		119504657	35765903	87	7736											
IRAK1	3654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153278782	153278782	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgccagtgctggacaCgtaggagttctcctgcgggg	5	9	16	11	2	2	0	0	0	2	0	3	2	2	2	2	5	3	4	2	5	1	2	rs140583367		TCGA-B0-5119-01A-02D-1421-08	TCGA-B0-5119-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	414d47c7-41bb-4c83-8cdf-703fa0a46f01	82a1cf74-7f66-443b-8e5b-e72fdd121c94		T	153278782	C	T	153278782	3	4	137	1	0	0	0	0	1	0	0	0	7821	536	19	1	508	1	IRAK1	23	153278782	Missense_Mutation	SNP	C	TCGA-B0-5119-01A-02D-1421-08	33774125	153278782	1991778	88	7737											
ZCCHC17	51538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	31782970	31782970	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaggaaggcctgagaccAtggaaaacttgcctgctctc	11	9	10	11	0	2	1	1	1	1	1	3	4	2	3	3	3	3	1	3	3	3	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	31782970	A	G	31782970	3	3	138	1	0	0	0	0	1	0	0	0	17584	217	8	3	27	3	ZCCHC17	1	31782970	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08		31782970	217467651	1	7738											
SNX27	81609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151611585	151611585	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgtggagcagaatggtgAgaagtttgtggtgagtgtca	11	11	16	3	0	1	3	1	2	0	2	1	5	1	4	0	3	1	2	0	3	2	1	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	151611585	A	G	151611585	3	3	138	1	0	0	0	0	1	0	0	0	14899	304	11	3	539	3	SNX27	1	151611585	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	119828615	151611585	97639036	2	7739											
LAMC1	3915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183086460	183086460	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctctacctgcagatgagGatgggtggcgtgcggaacag	8	9	15	9	2	1	2	0	1	1	1	2	4	1	4	1	4	4	1	1	4	2	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	183086460	G	T	183086460	3	4	138	1	0	0	0	0	1	0	0	0	8614	1174	41	4	1604	4	LAMC1	1	183086460	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	31474875	183086460	66164161	3	7740											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201047117	201047117	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggataccgctacacacCacgaagcagtcgaagcggtt	12	6	10	13	4	0	0	0	0	0	0	2	3	1	1	3	2	4	3	3	2	4	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	201047117	C	A	201047117	2	1	138	1	0	0	0	0	0	0	0	1	2547	581	21	4		4	CACNA1S	1	201047117	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	17960657	201047117	48203504	4	7741											
MIA3	375056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222826645	222826645	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggtcaaaataaaggtggaAatgattcagatgaattagca	18	9	11	3	0	2	3	2	2	0	1	2	4	2	4	0	3	1	1	0	3	7	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	222826645	A	T	222826645	3	4	138	1	0	0	0	0	1	0	0	0	9565	14	1	5	4343	5	MIA3	1	222826645	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	21779528	222826645	26423976	5	7742											
DISP1	84976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223178702	223178702	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaggccacacaccaagcTgtcgagggctttgtgcaccc	9	7	11	14	1	0	1	0	1	0	0	1	2	0	1	3	2	2	3	3	2	2	1	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		C	223178702	T	C	223178702	2	2	138	1	0	0	0	0	0	0	0	1	4539	1567	55	3		3	DISP1	1	223178702	Silent	SNP	T	TCGA-B0-5120-01A-01D-1421-08	352057	223178702	26071919	6	7743											
NUP133	55746	broad.mit.edu;hgsc.bcm.edu	37	chr1	229602504	229602504	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtatctacttgggatacCtgagagaatacacagaagta	15	10	10	6	0	1	3	0	1	1	2	1	5	1	4	1	2	3	2	1	2	7	6	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	229602504	C	A	229602504	5	1	138	1	0	0	0	0	0	0	1	0	10754	695	24	4	1438	4	NUP133	1	229602504	Splice_Site	SNP	C	TCGA-B0-5120-01A-01D-1421-08	6423802	229602504	19648117	7	7744											
WDR35	57539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20138069	20138069	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctatgaactgagatgcatCtttaattccaaccttctcaa	12	14	4	11	0	3	2	1	2	3	1	5	3	4	2	2	0	3	1	2	0	5	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	20138069	C	T	20138069	3	4	138	1	0	0	0	0	1	0	0	0	17288	913	32	2	1532	2	WDR35	2	20138069	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		20138069	223061304	8	7745											
DNMT3A	1788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	25467122	25467122	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacccttgtgcccgcacaTgtagcagttccaggggtctt	6	11	12	12	1	1	0	0	0	1	0	2	0	2	0	3	3	3	5	3	3	2	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	25467122	T	G	25467122	3	3	138	1	0	0	0	0	1	0	0	0	4676	1464	51	5	1021	5	DNMT3A	2	25467122	Missense_Mutation	SNP	T	TCGA-B0-5120-01A-01D-1421-08	5329053	25467122	217732251	9	7746											
EMILIN1	11117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27305157	27305157	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgaaaccctcaatgagAtccagcaccagctgcagctc	12	7	8	14	0	1	2	1	2	0	1	3	3	2	2	3	0	6	5	3	0	2	0	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	27305157	A	T	27305157	3	4	138	1	0	0	0	0	1	0	0	0	5093	333	12	5	732	5	EMILIN1	2	27305157	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	1838035	27305157	215894216	10	7747											
VRK2	7444	broad.mit.edu;hgsc.bcm.edu	37	chr2	58313465	58313465	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttaaaaataaatttgTctttgtagtcaaaaagtgga	15	17	6	3	0	3	0	1	0	2	0	3	1	3	1	0	1	0	1	0	1	8	7	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	58313465	T	A	58313465	1	1	138	0	1	0	0	0	0	0	0	0	17219	1682	58	5		5	VRK2	2	58313465	RNA	SNP	T	TCGA-B0-5120-01A-01D-1421-08	31008308	58313465	184885908	11	7748											
ALMS1	7840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73651718	73651718	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacagctgttgggtctCagtgcccttttttaccttct	5	15	9	12	0	2	0	1	0	2	0	3	0	2	0	2	1	4	4	2	1	1	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	73651718	C	A	73651718	3	1	138	1	0	0	0	0	1	0	0	0	535	827	29	4	943	4	ALMS1	2	73651718	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08	15338253	73651718	169547655	12	7749											
SNRNP200	23020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	96962717	96962717	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccgtctcaagggcagcaCggtagagcttactctggatc	9	9	11	12	2	2	1	1	0	2	1	5	2	3	2	1	3	3	4	1	3	3	2	rs144219123		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	96962717	C	T	96962717	3	4	138	1	0	0	0	0	1	0	0	0	14854	536	19	1	5077	1	SNRNP200	2	96962717	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08	23310999	96962717	146236656	13	7750											
PLA2R1	22925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160813103	160813103	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatgcgtccagttcttccaActgcttgggtctttggggat	5	14	12	10	1	2	0	0	0	2	0	4	1	4	1	2	3	3	3	2	3	1	4	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	160813103	A	G	160813103	2	3	138	1	0	0	0	0	0	0	0	1	12010	40	2	3		3	PLA2R1	2	160813103	Silent	SNP	A	TCGA-B0-5120-01A-01D-1421-08	63850386	160813103	82386270	14	7751											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52696277	52696278	+	Frame_Shift_Ins	INS	-	-	T																															agtttgcaagcggctttataINSttcaggagaatctggctgta																								novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	52696278	-	T	52696277	7	5	138	1	0	1	1	0	0	0	0	0	11491	449	16	0	4608	0	PBRM1	3	52696277	Frame_Shift_Ins	INS	-	TCGA-B0-5120-01A-01D-1421-08		52696277	145326153	15	7752											
UGT2B4	7363	hgsc.bcm.edu	37	chr4	70359429	70359430	+	Frame_Shift_Ins	INS	-	-	G																															ccttcggtaggggtttggcaINSggtttgcagtggagtcctcc																								novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	70359430	-	G	70359429	7	5	138	1	0	1	1	0	0	0	0	0	16960	175	7	0	754	0	UGT2B4	4	70359429	Frame_Shift_Ins	INS	-	TCGA-B0-5120-01A-01D-1421-08		70359429	120794847	16	7753											
PCDHB14	56122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140604554	140604554	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaactactcgctgctgccgCcccaggaccggcacctgccc	6	6	9	20	3	1	0	1	0	0	0	2	1	1	1	6	2	5	3	6	2	2	1	rs150245283	bycluster;byfrequency;by1000genomes	TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	140604554	C	T	140604554	3	4	138	1	0	0	0	0	1	0	0	0	11539	739	26	2	1479	2	PCDHB14	5	140604554	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		140604554	40310706	17	7754											
FLT4	2324	broad.mit.edu;hgsc.bcm.edu	37	chr5	180047687	180047687	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggtaccgacaaggatcacGatctccatgctgcccttatc	9	9	8	15	3	2	0	1	0	1	0	4	3	2	1	4	2	3	2	4	2	3	2	rs139263798	alternate_allele	TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	180047687	G	A	180047687	2	1	138	1	0	0	0	0	0	0	0	1	5944	1048	37	1		1	FLT4	5	180047687	Silent	SNP	G	TCGA-B0-5120-01A-01D-1421-08	39443133	180047687	867573	18	7755											
DDR1	780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30866812	30866812	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccgggaccagggccggCaggtcagagtggaggagagg	8	5	19	9	2	2	2	1	0	1	2	3	5	3	4	3	7	0	1	3	7	0	1	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	30866812	C	T	30866812	4	4	138	1	0	0	0	0	0	1	0	0	4336	711	25	2	2679	2	DDR1	6	30866812	Nonsense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		30866812	140248255	19	7756											
KIAA0776	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	96997453	96997453	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggatgaagttttttgcAggtatacttaatctttgtta	12	17	9	3	0	1	1	0	1	1	0	1	2	1	2	0	2	2	4	0	2	6	8	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	96997453	A	G	96997453	2	3	138	1	0	0	0	0	0	0	0	1	8193	202	7	3		3	KIAA0776	6	96997453	Silent	SNP	A	TCGA-B0-5120-01A-01D-1421-08	66130641	96997453	74117614	20	7757											
STXBP5	134957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	147685200	147685200	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccaatatgcggatagcCagaacgttctgctttaccaa	12	11	7	11	2	1	1	0	0	1	1	1	2	1	2	3	1	6	2	3	1	7	6	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	147685200	C	T	147685200	2	4	138	1	0	0	0	0	0	0	0	1	15357	581	21	2		2	STXBP5	6	147685200	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	50687747	147685200	23429867	21	7758											
SFRP4	6424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	37949276	37949276	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actaagcaattttcaagaagCatcatcctgaaaaaaaatta	20	10	4	7	0	2	2	2	1	0	1	3	2	3	2	1	0	2	2	1	0	9	4	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	37949276	C	A	37949276	3	1	138	1	0	0	0	0	1	0	0	0	14165	710	25	4	250	4	SFRP4	7	37949276	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		37949276	121189387	22	7759											
ZNF680	340252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	63981785	63981785	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaattactttatggttagtAagggttgaaaataaagtaaa	17	14	9	1	0	0	2	0	2	0	0	0	2	0	2	0	2	1	4	0	2	11	8	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	63981785	A	G	63981785	2	3	138	1	0	0	0	0	0	0	0	1	18086	349	13	3		3	ZNF680	7	63981785	Silent	SNP	A	TCGA-B0-5120-01A-01D-1421-08	26032509	63981785	95156878	23	7760											
LAMB4	22798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107763582	107763582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacaaatactcaccaaggtGcaaaaaaagggtcagttgaa	19	6	8	8	0	2	1	2	1	0	0	2	1	2	1	1	2	3	2	1	2	8	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	107763582	G	A	107763582	3	1	138	1	0	0	0	0	1	0	0	0	8613	1319	46	2	5389	2	LAMB4	7	107763582	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	43781797	107763582	51375081	24	7761											
SLC18A1	6570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	20038369	20038369	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccaccacagtaaacagcAtgttgtccaggagcaaagcg	14	6	9	12	1	0	0	0	0	0	0	1	1	1	1	3	1	5	4	3	1	4	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	20038369	A	T	20038369	3	4	138	1	0	0	0	0	1	0	0	0	14427	217	8	5	1530	5	SLC18A1	8	20038369	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08		20038369	126325653	25	7762											
RP1	6101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55539331	55539331	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccatacaaattctggaaaAataagtaattttgttatgga	16	13	6	6	0	1	0	0	0	1	0	1	2	1	2	2	2	1	2	2	2	7	7	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	55539331	A	T	55539331	3	4	138	1	0	0	0	0	1	0	0	0	13534	11	1	5	2899	5	RP1	8	55539331	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	35500962	55539331	90824691	26	7763											
DCAF13	25879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	104444966	104444966	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagcagcaaatgaagattAtaagtaagtttccctctttt	14	14	6	7	0	1	2	0	1	1	1	2	2	2	2	1	0	3	4	1	0	6	7	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	104444966	A	T	104444966	3	4	138	1	0	0	0	0	1	0	0	0	4266	449	16	5	1264	5	DCAF13	8	104444966	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	48905635	104444966	41919056	27	7764											
C9orf66	157983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	214612	214612	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgggcagatggagcttcCggcctgcgcgcagtggtcgc	4	8	16	13	5	0	1	0	0	0	1	3	2	1	2	2	4	2	3	2	4	0	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	214612	C	A	214612	3	1	138	1	0	0	0	0	1	0	0	0	2490	652	23	4	106	4	C9orf66	9	214612	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		214612	140998819	28	7765											
ZNF782	158431	broad.mit.edu;ucsc.edu	37	chr9	99580322	99580322	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagttctctgatgtactctGagattggatttctgactgaa	9	16	10	6	0	3	5	0	5	3	1	4	7	3	6	0	1	1	2	0	1	2	4	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	99580322	A	A	99580322	2	1	138	1	0	0	0	0	0	0	0	1	18154	1277	45	2		2	ZNF782	9	99580322	Silent	SNP	G	TCGA-B0-5120-01A-01D-1421-08	99365710	99580322	41633109	29	7766											
LOXL4	84171	hgsc.bcm.edu;ucsc.edu	37	chr10	100018882	100018882	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggccgcagcttgccccGggctggagccacctgcacct	4	6	14	17	2	0	0	0	0	0	0	0	1	0	1	6	4	4	5	6	4	0	1	rs151150208	alternate_allele	TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		C	100018882	G	C	100018882	3	2	138	1	0	0	0	0	1	0	0	0	8902	1115	39	4	1505	4	LOXL4	10	100018882	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08		100018882	35515865	30	7767											
PDZD8	118987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	119049791	119049791	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgatgacgtgcccagcataCccatcagttgactggacaag	12	8	10	11	1	1	3	1	3	0	0	1	4	1	4	2	1	3	2	2	1	2	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	119049791	C	A	119049791	2	1	138	1	0	0	0	0	0	0	0	1	11705	494	18	4		4	PDZD8	10	119049791	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	19030909	119049791	16484956	31	7768											
NAV2	89797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	20124911	20124911	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacaccacgtgagctctctGggagagatcttcaatgggct	9	10	11	11	1	3	2	1	1	2	1	4	4	3	3	1	2	2	2	1	2	2	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	20124911	G	A	20124911	2	1	138	1	0	0	0	0	0	0	0	1	10184	1335	47	2		2	NAV2	11	20124911	Silent	SNP	G	TCGA-B0-5120-01A-01D-1421-08		20124911	114881605	32	7769											
MS4A14	84689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60164109	60164109	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tcatcactataaaaccaaacGaaactgtattgactgcattt	16	12	4	9	1	2	1	2	1	0	0	2	2	2	1	1	0	4	2	1	0	6	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		C	60164109	G	C	60164109	3	2	138	1	0	0	0	0	1	0	0	0	9858	1059	37	4	60	4	MS4A14	11	60164109	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	40039198	60164109	74842407	33	7770											
SLC22A10	387775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63057715	63057715	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctggtttttattcttccCtctctcatgttattaatccc	6	20	3	12	0	4	0	1	0	3	0	7	0	6	0	2	1	0	2	2	1	3	7	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	63057715	C	G	63057715	2	3	138	1	0	0	0	0	0	0	0	1	14443	668	24	4		4	SLC22A10	11	63057715	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	2893606	63057715	71948801	34	7771											
DRD2	1813	broad.mit.edu;hgsc.bcm.edu	37	chr11	113295088	113295088	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaagcagggggcccacctaCctccaggtagacaacccagg	11	3	12	15	0	0	1	0	0	0	1	1	1	1	1	5	4	3	3	5	4	4	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	113295088	C	T	113295088	5	4	138	1	0	0	0	0	0	0	1	0	4757	521	18	2	1073	2	DRD2	11	113295088	Splice_Site	SNP	C	TCGA-B0-5120-01A-01D-1421-08	50237373	113295088	21711428	35	7772											
SLC2A14	144195	broad.mit.edu;hgsc.bcm.edu	37	chr12	7967026	7967026	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaggcccgtgtgatatcCtcaaaagtcctgccacgggt	10	9	10	12	2	2	1	2	1	0	0	4	1	4	1	4	2	1	0	4	2	4	1	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	7967026	C	A	7967026	3	1	138	1	0	0	0	0	1	0	0	0	14545	680	24	4	117	4	SLC2A14	12	7967026	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		7967026	125884869	36	7773											
M6PR	4074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9098098	9098098	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgcaccaggcctgcccCagaagtgtggttgccagctt	7	10	12	12	0	0	1	0	0	0	1	0	2	0	1	5	2	4	3	5	2	1	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	9098098	C	A	9098098	3	1	138	1	0	0	0	0	1	0	0	0	9140	594	21	4	594	4	M6PR	12	9098098	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08	1131072	9098098	124753797	37	7774											
PPHLN1	51535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	42748967	42748967	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttttatgttacaggatgAatctggttatagatggacaa	12	16	9	4	0	1	2	0	1	1	1	1	4	1	4	0	3	1	2	0	3	6	6	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	42748967	A	T	42748967	3	4	138	1	0	0	0	0	1	0	0	0	12315	246	9	5	277	5	PPHLN1	12	42748967	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	33650869	42748967	91102928	38	7775											
PFKM	5213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48516579	48516579	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacccatgaagagcaccatGcagccaaaaccctggggatt	13	6	10	12	0	0	3	0	2	0	1	0	4	0	4	4	2	4	2	4	2	3	1	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		C	48516579	G	C	48516579	3	2	138	1	0	0	0	0	1	0	0	0	11765	1319	46	4	245	4	PFKM	12	48516579	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	5767612	48516579	85335316	39	7776											
AMHR2	269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53819616	53819616	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttccaggcctacagcacgaCcacattgtccgatttatcac	10	10	6	15	2	1	0	1	0	0	0	3	2	3	0	4	1	2	1	4	1	2	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	53819616	C	A	53819616	3	1	138	1	0	0	0	0	1	0	0	0	573	506	18	4	787	4	AMHR2	12	53819616	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08	5303037	53819616	80032279	40	7777											
TMC3	342125	broad.mit.edu	37	chr15	81633742	81633742	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttactcaccttgaggctcgAaatacttgctggtggggcac	8	11	11	11	1	1	1	1	1	0	0	2	2	1	1	1	4	3	3	1	4	3	4	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	81633742	G	G	81633742	2	3	138	1	0	0	0	0	0	0	0	1	15985	243	9	3		3	TMC3	15	81633742	Silent	SNP	A	TCGA-B0-5120-01A-01D-1421-08		81633742	20897650	41	7778											
RUNDC2A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	12136850	12136850	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcctcagacgtgggccgggGtcgcgcctggctgcgctgtg	2	7	18	14	6	1	1	1	0	0	1	2	1	1	1	3	4	1	2	3	4	0	0	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	12136850	G	T	12136850	3	4	138	1	0	0	0	0	1	0	0	0	13745	1261	44	4	362	4	RUNDC2A	16	12136850	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08		12136850	78217903	42	7779											
CMTM1	113540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66612797	66612797	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggtcaccacgaagatgAggaccaacttgaaaagattc	14	9	10	8	1	1	4	1	2	0	2	2	6	1	5	2	2	1	0	2	2	4	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	66612797	A	G	66612797	3	3	138	1	0	0	0	0	1	0	0	0	3582	295	11	3	768	3	CMTM1	16	66612797	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	54475947	66612797	23741956	43	7780											
SERPINF2	5345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1648687	1648687	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcctcaagttgggcaacCaggtacaaccaggtggggct	9	7	12	13	0	1	0	1	0	0	0	2	0	2	0	4	5	3	4	4	5	4	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	1648687	C	T	1648687	4	4	138	1	0	0	0	0	0	1	0	0	14117	595	21	2	173	2	SERPINF2	17	1648687	Nonsense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		1648687	79546523	44	7781											
SMG6	23293	broad.mit.edu;hgsc.bcm.edu	37	chr17	1964808	1964808	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccacctgggcccacgtgAggaaggctgggatgtcccgt	7	6	15	13	2	0	1	0	1	0	0	1	3	1	3	4	4	1	1	4	4	1	0	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	1964808	A	G	1964808	3	3	138	1	0	0	0	0	1	0	0	0	14799	304	11	3	25	3	SMG6	17	1964808	Missense_Mutation	SNP	A	TCGA-B0-5120-01A-01D-1421-08	316121	1964808	79230402	45	7782											
POLR2A	5430	hgsc.bcm.edu;ucsc.edu	37	chr17	7404417	7404417	+	Frame_Shift_Del	DEL	C	C	-																															actgtcattaacaactggctCctcatcgagggtgagcatgg																								novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		-	7404417	C	-	7404417	7	5	138	1	0	1	0	1	0	0	0	0	12214	842	30	0	2086	0	POLR2A	17	7404417	Frame_Shift_Del	DEL	C	TCGA-B0-5120-01A-01D-1421-08	5439609	7404417	73790793	46	7783											
ABCA10	10349	hgsc.bcm.edu;ucsc.edu	37	chr17	67186562	67186562	+	Frame_Shift_Del	DEL	A	A	-																															ttcattcagagatgtcactgAaacagcataattccttatgc																								novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		-	67186562	A	-	67186562	7	5	138	1	0	1	0	1	0	0	0	0	29	246	9	0	2651	0	ABCA10	17	67186562	Frame_Shift_Del	DEL	A	TCGA-B0-5120-01A-01D-1421-08	59782145	67186562	14008648	47	7784											
CD300E	342510	broad.mit.edu;hgsc.bcm.edu	37	chr17	72613604	72613604	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcccttcagagacaaacagCctggaaaacacaagcccgag	15	3	10	13	1	1	1	1	0	0	1	1	4	1	2	3	2	4	0	3	2	4	1	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		G	72613604	C	G	72613604	3	3	138	1	0	0	0	0	1	0	0	0	2998	753	26	4	588	4	CD300E	17	72613604	Missense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08	5427042	72613604	8581606	48	7785											
COLEC12	81035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	480713	480713	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttaggactcaccaaaccGcttgtaaccgaaggattgca	12	10	9	10	2	1	0	1	0	0	0	1	3	1	2	3	2	3	4	3	2	4	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	480713	G	T	480713	2	4	138	1	0	0	0	0	0	0	0	1	3712	1086	38	4		4	COLEC12	18	480713	Silent	SNP	G	TCGA-B0-5120-01A-01D-1421-08		480713	77596535	49	7786											
USHBP1	83878	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17366335	17366335	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgagctggacccagggctcgGagggcagcctcccgcagctc	6	5	15	15	2	0	1	0	1	0	0	3	3	1	3	3	4	3	5	3	4	0	0	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	17366335	G	A	17366335	2	1	138	1	0	0	0	0	0	0	0	1	17036	1161	41	2		2	USHBP1	19	17366335	Silent	SNP	G	TCGA-B0-5120-01A-01D-1421-08		17366335	41762648	50	7787											
ZNF708	7562	broad.mit.edu;hgsc.bcm.edu	37	chr19	21492050	21492050	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcactctcacctacctGggggtttggctgccatctcg	4	13	11	13	1	3	0	2	0	2	0	5	0	3	0	3	3	2	3	3	3	1	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	21492050	G	A	21492050	3	1	138	1	0	0	0	0	1	0	0	0	18111	1348	47	2	1475	2	ZNF708	19	21492050	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	4125715	21492050	37636933	51	7788											
CD22	933	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35831892	35831892	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtaaccccagtgttacccGgtatgaatggaaaccccatg	12	8	9	12	1	0	1	0	1	0	0	0	2	0	2	5	2	3	3	5	2	5	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		C	35831892	G	C	35831892	3	2	138	1	0	0	0	0	1	0	0	0	2985	1116	39	4	1380	4	CD22	19	35831892	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	14339842	35831892	23297091	52	7789											
PIGP	51227	broad.mit.edu;ucsc.edu	37	chr21	38444809	38444809	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caatggcgacggtgaattttCcaccatttttcctggggctt	7	14	10	10	2	0	1	0	1	0	0	2	2	2	1	3	4	0	1	3	4	2	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	38444809	A	A	38444809	4	1	138	1	0	0	0	0	0	1	0	0	11895	864	30	4	413	4	PIGP	21	38444809	Nonsense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08		38444809	9685086	53	7790											
CCDC157	550631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30766353	30766353	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagactcccacctccaagccCaccaccaagggcgagccagc	11	2	9	19	1	0	1	0	0	0	1	2	3	2	1	7	1	3	0	7	1	2	0	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	30766353	C	A	30766353	2	1	138	1	0	0	0	0	0	0	0	1	2789	581	21	4		4	CCDC157	22	30766353	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08		30766353	20538213	54	7791											
SMCR7L	54471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	39908345	39908345	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacttcttacttactaccGgaaccgggcagccatccctg	10	9	8	14	2	1	0	0	0	1	0	2	2	2	1	4	2	6	1	4	2	5	4	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	39908345	G	A	39908345	3	1	138	1	0	0	0	0	1	0	0	0	14793	1116	39	1	441	1	SMCR7L	22	39908345	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	9141992	39908345	11396221	55	7792											
ALG12	79087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50303615	50303615	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctttcggttgcccaaggcCagcagcagcaggaggcccag	9	5	13	14	1	0	0	0	0	0	0	1	1	0	1	4	4	4	4	4	4	1	2	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	50303615	C	T	50303615	2	4	138	1	0	0	0	0	0	0	0	1	514	581	21	2		2	ALG12	22	50303615	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	10395270	50303615	1000951	56	7793											
MAP3K15	389840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	19410163	19410163	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcacacccgcaagacgtttCgaggttccaaaatcggagat	12	9	9	11	4	1	2	1	0	0	2	4	4	2	2	2	2	0	3	2	2	3	3	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	19410163	C	T	19410163	2	4	138	1	0	0	0	0	0	0	0	1	9249	871	31	1		1	MAP3K15	23	19410163	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08		19410163	135860397	57	7794											
SUV39H1	6839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48557408	48557408	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctctatgactttgaagtCgagtacctgtgcgattacaa	12	12	8	9	2	1	2	0	2	1	0	2	4	1	2	2	0	4	1	2	0	6	4	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	48557408	C	A	48557408	2	1	138	1	0	0	0	0	0	0	0	1	15411	871	31	4		4	SUV39H1	23	48557408	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	29147245	48557408	106713152	58	7795											
PFKFB1	5207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54982603	54982603	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgtccagttcctcatcCaagggttggtagttgacctc	7	13	9	12	0	1	1	1	1	0	0	5	1	4	1	5	2	1	4	5	2	3	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		T	54982603	C	T	54982603	2	4	138	1	0	0	0	0	0	0	0	1	11760	593	21	2		2	PFKFB1	23	54982603	Silent	SNP	C	TCGA-B0-5120-01A-01D-1421-08	6425195	54982603	100287957	59	7796											
TEX11	56159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	69942475	69942475	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcaattctgtacctttcatGatccatcagcagtttagcaa	12	14	5	10	0	4	1	3	1	1	0	5	1	5	1	2	0	3	4	2	0	4	5	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	69942475	G	A	69942475	3	1	138	1	0	0	0	0	1	0	0	0	15773	1290	45	2	1852	2	TEX11	23	69942475	Missense_Mutation	SNP	G	TCGA-B0-5120-01A-01D-1421-08	14959872	69942475	85328085	60	7797											
LRCH2	57631	broad.mit.edu	37	chrX	114400841	114400841	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtggataatcgtttctCtccattatcacttccaattc	8	18	5	10	1	2	0	1	0	1	0	7	1	4	1	2	1	0	2	2	1	3	6	novel		TCGA-B0-5120-01A-01D-1421-08	TCGA-B0-5120-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6ce58fbc-6742-4ade-84b0-cd025266e030	b35280fe-dbfa-4e45-8f49-3d0489e68743		A	114400841	A	A	114400841	4	1	138	1	0	0	0	0	0	1	0	0	8933	922	32	4	1294	4	LRCH2	23	114400841	Nonsense_Mutation	SNP	C	TCGA-B0-5120-01A-01D-1421-08	44458366	114400841	40869719	61	7798											
KIAA0467	0	broad.mit.edu;hgsc.bcm.edu	37	chr1	43914130	43914130	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagcagtccatgccaaatCcattggggacatcgaccccc	12	6	9	14	1	0	1	0	0	0	1	3	3	2	2	5	2	2	1	5	2	2	1	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	43914130	C	A	43914130	3	1	139	1	0	0	0	0	1	0	0	0	8178	855	30	4	7453	4	KIAA0467	1	43914130	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08		43914130	205336491	1	7799											
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62550236	62550236	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccgcaacgtgtcccattgtCcctggacaggaaatgattat	10	10	9	12	2	0	1	0	1	0	0	2	3	2	3	3	2	1	1	3	2	3	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	62550236	C	T	62550236	2	4	139	1	0	0	0	0	0	0	0	1	7731	842	30	2		2	INADL	1	62550236	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08	18636106	62550236	186700385	2	7800											
GPR89B	51463	hgsc.bcm.edu	37	chr1	147415632	147415632	+	Frame_Shift_Del	DEL	A	A	-																															ggtgcctttttacattggctAttttattgtgagcaatatcc																								novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		-	147415632	A	-	147415632	7	5	139	1	0	1	0	1	0	0	0	0	6719	449	16	0	301	0	GPR89B	1	147415632	Frame_Shift_Del	DEL	A	TCGA-B0-5121-01A-02D-1421-08	84865396	147415632	101834989	3	7801											
C1orf25	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	185109279	185109279	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcctgaatcagtgtcacaGaattttcattcaagtcattg	11	16	6	8	0	5	2	5	1	0	1	6	2	6	2	1	0	0	0	1	0	3	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	185109279	G	C	185109279	3	2	139	1	0	0	0	0	1	0	0	0	2034	942	33	4	1298	4	C1orf25	1	185109279	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	37693647	185109279	64141342	4	7802											
SLC41A1	254428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205767800	205767800	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactcttggtggctcactcaGttccaggtagagtccccagc	7	10	10	14	0	3	1	2	0	1	1	5	1	5	1	3	3	1	3	3	3	1	3	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	205767800	G	T	205767800	3	4	139	1	0	0	0	0	1	0	0	0	14631	1020	36	4	724	4	SLC41A1	1	205767800	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	20658521	205767800	43482821	5	7803											
ZNF692	55657	hgsc.bcm.edu;ucsc.edu	37	chr1	249150756	249150764	+	Frame_Shift_Del	DEL	CCAAATCTG	CCAAATCTG	-																															cctctcatcatgctcagattCcaaatctgtgggacaggcaa																								novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	CCAAATCTG	CCAAATCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		-	249150764	CCAAATCTG	-	249150756	7	5	139	1	0	1	0	1	0	0	0	0	18096	864	30	0	1110	0	ZNF692	1	249150756	Frame_Shift_Del	DEL	CCAAATCTG	TCGA-B0-5121-01A-02D-1421-08	43382956	249150756	99865	6	7804											
MYT1L	23040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1983506	1983506	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggacatacctcgaacccctTtggaccgcgtgcgatgccgc	7	7	11	16	6	0	0	0	0	0	0	1	4	0	2	5	2	4	0	5	2	2	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	1983506	T	C	1983506	3	2	139	1	0	0	0	0	1	0	0	0	10107	1841	64	3	3590	3	MYT1L	2	1983506	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08		1983506	241215867	7	7805											
TSPYL6	388951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	54482422	54482422	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacttaaacttgcagcctgtCctagggtgtctgagctcctt	8	13	9	11	0	1	1	0	1	1	0	3	1	3	1	3	1	5	2	3	1	4	4	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	54482422	C	A	54482422	3	1	139	1	0	0	0	0	1	0	0	0	16662	854	30	4	369	4	TSPYL6	2	54482422	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08	52498916	54482422	188716951	8	7806											
PCGF1	84759	broad.mit.edu	37	chr2	74732306	74732306	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacactgtattgtaaaagCaaaggggatggctaaggaga	15	9	12	5	0	1	1	1	0	0	1	1	3	1	2	0	4	1	4	0	4	5	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	74732306	T	T	74732306	2	4	139	1	0	0	0	0	0	0	0	1	11574	709	25	2		2	PCGF1	2	74732306	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08	20249884	74732306	168467067	9	7807											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47162787	47162787	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactttcaaatttttcctcAtacaaatgtctccttgactc	11	17	2	11	0	3	1	2	1	1	0	6	1	4	1	2	0	2	0	2	0	4	6	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	47162787	A	C	47162787	4	2	139	1	0	0	0	0	0	1	0	0	14133	224	8	5	4431	5	SETD2	3	47162787	Nonsense_Mutation	SNP	A	TCGA-B0-5121-01A-02D-1421-08		47162787	150859643	10	7808											
GMPPB	29925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49760159	49760159	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcacacaccaccacaccgTacttggagggttcctccacc	9	7	6	19	1	1	0	1	0	0	0	3	1	3	1	7	2	1	2	7	2	1	3	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	49760159	T	C	49760159	3	2	139	1	0	0	0	0	1	0	0	0	6495	1638	57	3	748	3	GMPPB	3	49760159	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08	2597372	49760159	148262271	11	7809											
GPR171	29909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150917098	150917098	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttccaataattccaacaaGgaaaactaaataaaaaaaat	24	8	2	7	0	0	0	0	0	0	0	2	1	2	1	2	1	2	0	2	1	12	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	150917098	G	A	150917098	3	1	139	1	0	0	0	0	1	0	0	0	6668	1000	35	2	887	2	GPR171	3	150917098	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	101156939	150917098	47105332	12	7810											
LRRC66	339977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	52861345	52861345	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaaaattccatctgcgagtCccaaagtgactgttcagtgc	12	10	9	10	1	2	2	1	1	1	1	4	3	4	2	2	0	2	1	2	0	3	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	52861345	C	A	52861345	3	1	139	1	0	0	0	0	1	0	0	0	9018	855	30	4	803	4	LRRC66	4	52861345	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08		52861345	138292931	13	7811											
PDGFRA	5156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	55156689	55156689	+	Missense_Mutation	SNP	G	G	T																															gacattgaccctgtccctgaGgaggaggacctgggcaagag																								novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	55156689	G	T	55156689	3	4	139	1	0	0	0	0	1	0	0	0	11661	991	35	4	3172	4	PDGFRA	4	55156689	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	2295344	55156689	135997587	14	7812	106	2									
PDGFRA	5156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	55156690	55156690	+	Nonsense_Mutation	SNP	G	G	T																															acattgaccctgtccctgagGaggaggacctgggcaagagg																								novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	55156690	G	T	55156690	4	4	139	1	0	0	0	0	0	1	0	0	11661	1175	41	4	3173	4	PDGFRA	4	55156690	Nonsense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	1	55156690	135997586	15	7813	106	2									
ACSL6	23305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131289980	131289980	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttttgaagtactctctcaGctcaggtctcttagctttta	7	19	6	9	0	4	1	2	1	2	0	6	1	4	1	0	1	3	3	0	1	4	7	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	131289980	G	T	131289980	3	4	139	1	0	0	0	0	1	0	0	0	181	962	34	4	56	4	ACSL6	5	131289980	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08		131289980	49625280	16	7814											
ZNF184	7738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27420988	27420988	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggagatagctcttcttcaGaaatgtcaggctctggggct	8	12	12	9	0	5	2	2	0	3	2	5	3	5	2	0	4	1	3	0	4	2	3	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	27420988	G	A	27420988	3	1	139	1	0	0	0	0	1	0	0	0	17750	942	33	2	1909	2	ZNF184	6	27420988	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08		27420988	143694079	17	7815											
TTBK1	84630	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43230690	43230690	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagcaacgccttccgctcgGtgccgctggctgaggaggag	6	7	16	12	4	0	2	0	2	0	0	2	4	1	4	3	4	3	4	3	4	1	1	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	43230690	G	T	43230690	3	4	139	1	0	0	0	0	1	0	0	0	16675	1261	44	4	1634	4	TTBK1	6	43230690	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	15809702	43230690	127884377	18	7816											
TAAR6	319100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132892288	132892288	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggttaccatatagcatTgattcattaattgatgcctt	11	17	6	7	0	2	2	2	2	0	0	2	2	2	2	2	1	3	2	2	1	4	8	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	132892288	T	A	132892288	2	1	139	1	0	0	0	0	0	0	0	1	15491	1800	63	5		5	TAAR6	6	132892288	Silent	SNP	T	TCGA-B0-5121-01A-02D-1421-08	89661598	132892288	38222779	19	7817											
COL28A1	340267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	7398296	7398296	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggtttcttgacattcctTttcactgttgaatctatttc	7	19	6	9	0	3	2	1	2	2	0	5	2	4	2	1	1	0	3	1	1	2	8	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	7398296	T	G	7398296	3	3	139	1	0	0	0	0	1	0	0	0	3686	1850	64	5	35	5	COL28A1	7	7398296	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08		7398296	151740367	20	7818											
IGF2BP3	10643	broad.mit.edu;hgsc.bcm.edu	37	chr7	23508130	23508130	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgggaccgagtgctcaacTtctatgggtttcccgtgcag	6	13	12	10	2	2	0	1	0	1	0	3	2	3	1	2	2	3	3	2	2	2	4	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	23508130	T	A	23508130	3	1	139	1	0	0	0	0	1	0	0	0	7575	1606	56	5	1588	5	IGF2BP3	7	23508130	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08	16109834	23508130	135630533	21	7819											
FOXP2	93986	broad.mit.edu	37	chr7	114269991	114269991	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacaacaacaacaacagcaGcaacaacagcagcagcagca	21	0	6	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	6	0	0	7	0	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	114269991	A	A	114269991	2	1	139	1	0	0	0	0	0	0	0	1	6027	962	34	2		2	FOXP2	7	114269991	Silent	SNP	G	TCGA-B0-5121-01A-02D-1421-08	90761861	114269991	44868672	22	7820											
NUP205	23165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135277919	135277919	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgattgcttttttgcagctCacgtctaccatcattacttg	7	18	6	10	1	3	1	2	1	1	0	3	1	3	1	1	0	5	3	1	0	2	8	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	135277919	C	A	135277919	2	1	139	1	0	0	0	0	0	0	0	1	10759	813	29	4		4	NUP205	7	135277919	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08	21007928	135277919	23860744	23	7821											
IKBKAP	8518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	111640376	111640376	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttctgtaattcccttcCttgttcatcaaactcaaaga	10	14	5	12	0	4	1	3	0	1	1	6	1	6	1	3	1	1	2	3	1	3	6	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	111640376	C	T	111640376	3	4	139	1	0	0	0	0	1	0	0	0	7610	690	24	2	256	2	IKBKAP	9	111640376	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08		111640376	29573055	24	7822											
CEP110	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123917154	123917154	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagctgaccgactcctggCagaggctgagagtgaacttt	10	8	14	9	1	0	4	0	3	0	2	1	7	1	5	2	3	2	3	2	3	2	1	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	123917154	C	A	123917154	3	1	139	1	0	0	0	0	1	0	0	0	3245	710	25	4	4426	4	CEP110	9	123917154	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08	12276778	123917154	17296277	25	7823											
CARD9	64170	broad.mit.edu;ucsc.edu	37	chr9	139262211	139262211	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctcccgcacctgctTgcgcagcgcgtccttctcct	3	9	9	20	4	1	0	0	0	1	0	4	0	3	0	5	0	4	4	5	0	0	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	139262211	G	G	139262211	3	3	139	1	0	0	0	0	1	0	0	0	2652	1821	63	5	540	5	CARD9	9	139262211	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08	15345057	139262211	1951220	26	7824											
OR9G4	283189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56510375	56510375	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctttgtttctcaggctatAgatgagagggttgagcagtg	9	14	13	5	0	2	3	1	2	2	2	3	4	2	3	0	2	1	4	0	2	2	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	56510375	A	G	56510375	3	3	139	1	0	0	0	0	1	0	0	0	11251	420	15	3	73	3	OR9G4	11	56510375	Missense_Mutation	SNP	A	TCGA-B0-5121-01A-02D-1421-08		56510375	78496141	27	7825											
OR4D9	390199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	59282457	59282457	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actcagtcccgagaactgagCcaggtcttatttaccttcct	9	12	7	13	1	2	2	1	1	1	1	4	3	4	2	4	1	3	0	4	1	3	4	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	59282457	C	T	59282457	2	4	139	1	0	0	0	0	0	0	0	1	11059	738	26	2		2	OR4D9	11	59282457	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08	2772082	59282457	75724059	28	7826											
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62297275	62297275	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgggtcctgaaacaccaagGtcagccttgggcaggttcat	9	10	12	10	0	2	1	2	1	0	0	3	1	3	1	3	4	2	2	3	4	2	3	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	62297275	G	A	62297275	2	1	139	1	0	0	0	0	0	0	0	1	414	1252	44	2		2	AHNAK	11	62297275	Silent	SNP	G	TCGA-B0-5121-01A-02D-1421-08	3014818	62297275	72709241	29	7827											
SLC3A2	6520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62652670	62652670	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttgattgcggggactaaCtcctccgaccttcagcagat	8	11	9	13	2	2	2	1	1	1	1	4	4	4	3	3	2	3	1	3	2	1	4	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	62652670	C	T	62652670	2	4	139	1	0	0	0	0	0	0	0	1	14629	564	20	2		2	SLC3A2	11	62652670	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08	355395	62652670	72353846	30	7828											
PHLDB1	23187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118498567	118498567	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctactgtcttggcggaggCccggagagccactgagagcc	8	6	15	12	2	1	2	0	1	1	2	1	5	1	3	3	4	4	1	3	4	1	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	118498567	C	G	118498567	3	3	139	1	0	0	0	0	1	0	0	0	11851	739	26	4	1046	4	PHLDB1	11	118498567	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08	55845897	118498567	16507949	31	7829											
CHD4	1108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6690533	6690533	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttctttgaggctatttTcctctatttttatcccatct	5	22	3	11	0	4	1	0	1	4	0	6	1	6	1	2	1	0	1	2	1	3	10	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	6690533	T	G	6690533	3	3	139	1	0	0	0	0	1	0	0	0	3327	1783	62	5	1071	5	CHD4	12	6690533	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08		6690533	127161362	32	7830											
BEST3	144453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	70087467	70087467	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtacctgcttcaaccacGtggtccattgtgggaaatct	10	12	9	10	1	2	0	1	0	1	0	3	1	3	1	3	2	3	2	3	2	4	4	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	70087467	G	A	70087467	2	1	139	1	0	0	0	0	0	0	0	1	1406	1136	40	1		1	BEST3	12	70087467	Silent	SNP	G	TCGA-B0-5121-01A-02D-1421-08	63396934	70087467	63764428	33	7831											
TMTC2	160335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	83526102	83526102	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccagacgatgtcatcacAcagtccaatctccgcaaact	14	7	6	14	2	3	1	2	0	1	1	5	2	4	1	3	0	2	1	3	0	3	0	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	83526102	A	G	83526102	2	3	139	1	0	0	0	0	0	0	0	1	16260	146	6	3		3	TMTC2	12	83526102	Silent	SNP	A	TCGA-B0-5121-01A-02D-1421-08	13438635	83526102	50325793	34	7832											
SLC5A8	160728	hgsc.bcm.edu	37	chr12	101560445	101560445	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attccaacccatagagaaatGgcaaatccagccatcagacc	16	6	6	13	0	1	2	1	0	0	2	3	3	3	2	5	1	2	1	5	1	4	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	101560445	G	T	101560445	2	4	139	1	0	0	0	0	0	0	0	1	14673	1335	47	4		4	SLC5A8	12	101560445	Silent	SNP	G	TCGA-B0-5121-01A-02D-1421-08	18034343	101560445	32291450	35	7833											
TPTE2	93492	broad.mit.edu;hgsc.bcm.edu	37	chr13	20025322	20025322	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgcatagattgtagactCgatagtggtttcgatgtttc	9	16	10	6	2	0	2	0	0	0	2	3	4	0	2	0	1	2	4	0	1	4	7	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	20025322	C	A	20025322	3	1	139	1	0	0	0	0	1	0	0	0	16430	884	31	4	823	4	TPTE2	13	20025322	Missense_Mutation	SNP	C	TCGA-B0-5121-01A-02D-1421-08		20025322	95144556	36	7834											
PABPC3	5042	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25670664	25670664	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaaatctggataagtccAttaataataaagcactgtat	18	13	5	5	0	1	0	0	0	1	0	2	1	2	1	1	1	1	2	1	1	9	6	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	25670664	A	C	25670664	3	2	139	1	0	0	0	0	1	0	0	0	11365	217	8	5	330	5	PABPC3	13	25670664	Missense_Mutation	SNP	A	TCGA-B0-5121-01A-02D-1421-08	5645342	25670664	89499214	37	7835											
PDS5B	23047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33261392	33261392	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaaagacaaattgctacAtatatattatcaaaatagta	20	12	4	5	0	2	1	2	0	0	1	2	2	2	1	0	0	2	2	0	0	11	8	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	33261392	A	C	33261392	3	2	139	1	0	0	0	0	1	0	0	0	11692	217	8	5	1367	5	PDS5B	13	33261392	Missense_Mutation	SNP	A	TCGA-B0-5121-01A-02D-1421-08	7590728	33261392	81908486	38	7836											
ABCC4	10257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95830003	95830003	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccgcatctactgcactgAgaggatcgtccaggagatag	10	9	11	11	2	1	2	0	1	1	2	4	5	3	3	2	2	2	2	2	2	2	3	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	95830003	A	C	95830003	3	2	139	1	0	0	0	0	1	0	0	0	55	304	11	5	2417	5	ABCC4	13	95830003	Missense_Mutation	SNP	A	TCGA-B0-5121-01A-02D-1421-08	62568611	95830003	19339875	39	7837											
C14orf149	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59942835	59942835	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctgcaaaaacacaaatgTtggtggttggttccttggta	11	13	10	7	0	1	0	0	0	1	0	2	0	2	0	1	4	2	5	1	4	4	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	59942835	T	G	59942835	3	3	139	1	0	0	0	0	1	0	0	0	1752	1725	60	5	300	5	C14orf149	14	59942835	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08		59942835	47406705	40	7838											
WDR72	256764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	54025233	54025233	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagagacagagctgaccCtcttgacttccagtcacaat	11	10	7	13	0	2	4	1	2	1	2	4	5	4	4	3	0	1	1	3	0	1	3	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	54025233	C	T	54025233	2	4	139	1	0	0	0	0	0	0	0	1	17321	680	24	2		2	WDR72	15	54025233	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08		54025233	48506159	41	7839											
BAIAP3	8938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1389514	1389514	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtggagatgctctacgaGgaggccctgtacacggtgct	8	8	15	10	2	1	1	0	0	1	1	1	4	1	2	1	5	4	3	1	5	2	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	1389514	G	A	1389514	2	1	139	1	0	0	0	0	0	0	0	1	1304	991	35	2		2	BAIAP3	16	1389514	Silent	SNP	G	TCGA-B0-5121-01A-02D-1421-08		1389514	88965239	42	7840											
KIAA0556	23247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27732992	27732992	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctggccaagatcaaggtTcggaattactggacagctga	12	9	11	9	1	2	2	1	1	1	1	3	4	2	4	1	4	2	2	1	4	4	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	27732992	T	C	27732992	2	2	139	1	0	0	0	0	0	0	0	1	8183	1770	62	3		3	KIAA0556	16	27732992	Silent	SNP	T	TCGA-B0-5121-01A-02D-1421-08	26343478	27732992	62621761	43	7841											
ADAMTS18	170692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	77327151	77327151	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccctcgtccacaggtcttgGaacacttgagaagacaaaaa	14	7	8	12	1	1	2	0	1	1	2	3	4	2	3	3	2	1	0	3	2	4	2	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	77327151	G	A	77327151	3	1	139	1	0	0	0	0	1	0	0	0	263	1174	41	2	670	2	ADAMTS18	16	77327151	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	49594159	77327151	13027602	44	7842											
SPATA22	84690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3370723	3370723	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttattaattttcttacctgTaggtagaggaggaaaatcat	13	15	8	5	0	2	1	1	0	1	1	2	3	2	3	1	3	1	2	1	3	7	7	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	3370723	T	C	3370723	3	2	139	1	0	0	0	0	1	0	0	0	15009	1638	57	3	950	3	SPATA22	17	3370723	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08		3370723	77824487	45	7843											
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4017674	4017674	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcttgtcaatgtctgccGagttggaggatgtttctata	8	16	10	7	1	5	0	2	0	3	0	5	3	5	2	1	2	1	2	1	2	3	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	4017674	G	A	4017674	3	1	139	1	0	0	0	0	1	0	0	0	18254	1059	37	1	8308	1	ZZEF1	17	4017674	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08	646951	4017674	77177536	46	7844											
CAMTA2	23125	hgsc.bcm.edu	37	chr17	4872070	4872071	+	Frame_Shift_Ins	INS	-	-	G																															tcatgtggccagtcccggctINSggggaagcccttccagctcc																								novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		G	4872071	-	G	4872070	7	5	139	1	0	1	1	0	0	0	0	0	2614	1580	55	0	72	0	CAMTA2	17	4872070	Frame_Shift_Ins	INS	-	TCGA-B0-5121-01A-02D-1421-08	854396	4872070	76323140	47	7845											
ABCA9	10350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	67023488	67023488	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgaggatctcctaaaaTggcaatcccaaaagttagtt	14	12	7	8	0	1	1	0	1	1	0	3	2	2	2	2	2	1	3	2	2	7	5	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	67023488	T	C	67023488	3	2	139	1	0	0	0	0	1	0	0	0	39	1464	51	3	3084	3	ABCA9	17	67023488	Missense_Mutation	SNP	T	TCGA-B0-5121-01A-02D-1421-08	62151418	67023488	14171722	48	7846											
JMJD6	23210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74719948	74719948	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtccggggataaataacAttaaaccaggtaatagcttc	14	11	9	7	1	0	0	0	0	0	0	2	1	1	1	2	3	3	2	2	3	7	6	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		T	74719948	A	T	74719948	3	4	139	1	0	0	0	0	1	0	0	0	7953	214	8	5	557	5	JMJD6	17	74719948	Missense_Mutation	SNP	A	TCGA-B0-5121-01A-02D-1421-08	7696460	74719948	6475262	49	7847											
DSC1	1823	broad.mit.edu	37	chr18	28720256	28720256	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttggcgattgacttcataGttcaatggctgttaaataag	12	14	9	6	1	2	1	2	1	0	0	2	2	2	1	0	2	0	3	0	2	5	7	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	28720256	A	A	28720256	2	1	139	1	0	0	0	0	0	0	0	1	4765	1020	36	2		2	DSC1	18	28720256	Silent	SNP	G	TCGA-B0-5121-01A-02D-1421-08		28720256	49356992	50	7848											
ZNF430	80264	hgsc.bcm.edu	37	chr19	21216891	21216891	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttatttattttcaataaaGcaggtattgctgtttctaag	11	19	7	4	0	2	0	1	0	1	0	2	0	2	0	0	1	2	5	0	1	7	10	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	21216891	G	A	21216891	5	1	139	1	0	0	0	0	0	0	1	0	17903	985	34	2	237	2	ZNF430	19	21216891	Splice_Site	SNP	G	TCGA-B0-5121-01A-02D-1421-08		21216891	37912092	51	7849											
KRTAP13-1	140258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	31768847	31768847	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggcgttggattctgccGcccaacctacttggcttcta	6	13	9	13	2	2	0	0	0	2	0	2	1	2	1	3	3	3	2	3	3	4	7	rs151147550	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		C	31768847	G	C	31768847	3	2	139	1	0	0	0	0	1	0	0	0	8522	1087	38	4	445	4	KRTAP13-1	21	31768847	Missense_Mutation	SNP	G	TCGA-B0-5121-01A-02D-1421-08		31768847	16361048	52	7850											
DGCR2	9993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	19076918	19076918	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctctcatcctcgcaagtCgcccagccgtcacactgcca	7	8	7	19	4	2	0	2	0	1	0	7	0	3	0	4	0	2	2	4	0	1	0	novel		TCGA-B0-5121-01A-02D-1421-08	TCGA-B0-5121-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a2751cb2-8545-490c-92d9-edb9775d32b8	8020d022-9a26-4683-8cc0-7de39f5b1b38		A	19076918	C	A	19076918	2	1	139	1	0	0	0	0	0	0	0	1	4461	871	31	4		4	DGCR2	22	19076918	Silent	SNP	C	TCGA-B0-5121-01A-02D-1421-08		19076918	32227648	53	7851											
ACTL8	81569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	18149661	18149661	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgtaggcgtgtgagccTgggcatcgacatttgccatc	6	10	13	12	3	0	1	0	1	0	0	2	2	0	1	3	2	3	2	3	2	1	2	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	18149661	T	C	18149661	3	2	140	1	0	0	0	0	1	0	0	0	202	1580	55	3	160	3	ACTL8	1	18149661	Missense_Mutation	SNP	T	TCGA-B0-5399-01A-01D-1501-10		18149661	231100960	1	7852											
COL11A1	1301	broad.mit.edu;ucsc.edu	37	chr1	103404625	103404625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacccttgctgcctttttgtCccggctcaccaatttcaccc	5	13	5	18	1	2	0	2	0	0	0	3	0	3	0	5	1	2	2	5	1	1	4	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	103404625	T	T	103404625	3	4	140	1	0	0	0	0	1	0	0	0	3667	855	30	2	2112	2	COL11A1	1	103404625	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10	85254964	103404625	145845996	2	7853											
XCL1	6375	broad.mit.edu;hgsc.bcm.edu	37	chr1	168550370	168550370	+	Missense_Mutation	SNP	G	G	A																															cgtggtcaggagcatggacaGgaaatccaacaccagaaata																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	168550370	G	A	168550370	3	1	140	1	0	0	0	0	1	0	0	0	17422	1000	35	2	267	2	XCL1	1	168550370	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	65145745	168550370	80700251	3	7854	107	2									
XCL1	6375	broad.mit.edu;hgsc.bcm.edu	37	chr1	168550371	168550371	+	Missense_Mutation	SNP	G	G	C																															gtggtcaggagcatggacagGaaatccaacaccagaaataa																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	168550371	G	C	168550371	3	2	140	1	0	0	0	0	1	0	0	0	17422	1165	41	4	268	4	XCL1	1	168550371	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	1	168550371	80700250	4	7855	107	2									
FAM5C	339479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	190067353	190067353	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctagtagttgcaaaagtGctgaatcctgggatccctga	10	12	10	9	0	1	2	0	2	1	0	4	3	3	3	2	1	2	4	2	1	5	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	190067353	G	T	190067353	3	4	140	1	0	0	0	0	1	0	0	0	5594	1319	46	4	208	4	FAM5C	1	190067353	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	21516982	190067353	59183268	5	7856											
PTPN14	5784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214549669	214549669	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggattcggctgcgctcggCgttttctggcagagctgctg	4	11	15	11	5	1	1	0	0	1	1	3	2	1	2	0	4	3	6	0	4	0	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	214549669	C	T	214549669	3	4	140	1	0	0	0	0	1	0	0	0	12785	768	27	1	783	1	PTPN14	1	214549669	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10	24482316	214549669	34700952	6	7857											
CD207	50489	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71060814	71060814	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctcatattctccaagctGccctggagtgcccggatctt	6	13	9	13	1	3	0	1	0	2	0	4	2	3	2	3	2	4	2	3	2	2	4	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	71060814	G	C	71060814	2	2	140	1	0	0	0	0	0	0	0	1	2983	1306	46	4		4	CD207	2	71060814	Silent	SNP	G	TCGA-B0-5399-01A-01D-1501-10		71060814	172138559	7	7858											
IL1F10	84639	hgsc.bcm.edu	37	chr2	113832829	113832829	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcaggcttgaggctgctgCctggcctggctggttcctgt	2	13	14	12	0	1	1	1	1	0	0	2	1	2	1	3	5	2	5	3	5	0	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	113832829	C	A	113832829	3	1	140	1	0	0	0	0	1	0	0	0	7652	739	26	4	361	4	IL1F10	2	113832829	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10	42772015	113832829	129366544	8	7859											
ASNSD1	54529	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	190532647	190532647	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtcgtgatgacagagttaTtggtgatcatggaaaagaag	13	11	14	3	1	1	5	1	3	0	2	2	6	1	6	0	3	0	1	0	3	4	2	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	190532647	T	A	190532647	3	1	140	1	0	0	0	0	1	0	0	0	1049	1493	52	5	1628	5	ASNSD1	2	190532647	Missense_Mutation	SNP	T	TCGA-B0-5399-01A-01D-1501-10	76699818	190532647	52666726	9	7860											
STAT1	6772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191864399	191864399	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatattcatcttgtaaaTcttccaggctcttgatttca	10	17	5	9	0	6	1	3	1	3	0	7	1	7	1	1	1	0	2	1	1	3	7	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		G	191864399	T	G	191864399	3	3	140	1	0	0	0	0	1	0	0	0	15265	1435	50	5	1838	5	STAT1	2	191864399	Missense_Mutation	SNP	T	TCGA-B0-5399-01A-01D-1501-10	1331752	191864399	51334974	10	7861											
SETD2	29072	broad.mit.edu	37	chr3	47127737	47127737	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcacctagctctgccatcCagatccacaacaaagacagc	13	6	6	16	1	2	2	1	0	1	2	4	2	4	2	4	0	4	1	4	0	3	1	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	47127737	T	T	47127737	4	4	140	1	0	0	0	0	0	1	0	0	14133	595	21	2	2393	2	SETD2	3	47127737	Nonsense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10		47127737	150894693	11	7862											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47164613	47164613	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaatacttgcctcttctttCcatctctaagtaagaggtct	10	15	6	10	0	4	2	0	0	4	2	6	2	5	2	2	1	2	1	2	1	4	6	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	47164613	C	A	47164613	4	1	140	1	0	0	0	0	0	1	0	0	14133	864	30	4	6257	4	SETD2	3	47164613	Nonsense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10	36876	47164613	150857817	12	7863											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52668817	52668817	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcttctgactctccctCttcatagcgtgcagctggaa	6	14	8	13	1	5	1	1	1	4	0	6	2	5	2	1	1	4	3	1	1	2	4	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	52668817	C	A	52668817	4	1	140	1	0	0	0	0	0	1	0	0	11491	922	32	4	3878	4	PBRM1	3	52668817	Nonsense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10	5504204	52668817	145353613	13	7864											
ATP13A5	344905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193052840	193052840	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacatttccaaggcataGtgttctccatctggggcaat	9	13	10	9	0	2	1	0	1	2	0	4	1	3	1	2	3	0	3	2	3	3	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	193052840	G	C	193052840	3	2	140	1	0	0	0	0	1	0	0	0	1127	1029	36	4	2746	4	ATP13A5	3	193052840	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	140384023	193052840	4969590	14	7865											
C5orf44	80006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64960063	64960063	+	Missense_Mutation	SNP	G	G	A																															ttattctgattcctccagcaGtgaaaggactatggatctgg																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	64960063	G	A	64960063	3	1	140	1	0	0	0	0	1	0	0	0	2303	1043	36	2	1047	2	C5orf44	5	64960063	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10		64960063	115955197	15	7866	108	2									
C5orf44	80006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64960070	64960070	+	Missense_Mutation	SNP	G	G	T																															gattcctccagcagtgaaagGactatggatctggttttgga																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	64960070	G	T	64960070	3	4	140	1	0	0	0	0	1	0	0	0	2303	1165	41	4	1054	4	C5orf44	5	64960070	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	7	64960070	115955190	16	7867	108	2									
PCYOX1L	78991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	148742273	148742273	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactttggacctcgggtgcaGatcgacgtgtacgagaaggg	9	8	15	9	4	0	2	0	0	0	2	2	5	0	3	1	3	2	2	1	3	2	2	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	148742273	G	C	148742273	3	2	140	1	0	0	0	0	1	0	0	0	11609	933	33	4	168	4	PCYOX1L	5	148742273	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	83782203	148742273	32172987	17	7868											
ARSI	340075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149677720	149677720	+	Frame_Shift_Del	DEL	C	C	-																															acttccgccgggccacattgCccatggtgcggtagcggtac																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		-	149677720	C	-	149677720	7	5	140	1	0	1	0	1	0	0	0	0	994	739	26	0	946	0	ARSI	5	149677720	Frame_Shift_Del	DEL	C	TCGA-B0-5399-01A-01D-1501-10	935447	149677720	31237540	18	7869											
FGFR4	2264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176520705	176520705	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctttggccaggtagtacGtgcagaggcctttggcatgg	6	11	15	9	1	0	1	0	0	0	1	0	1	0	1	2	5	3	5	2	5	2	4	rs141384037	alternate_allele	TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	176520705	G	T	176520705	3	4	140	1	0	0	0	0	1	0	0	0	5868	1145	40	4	1556	4	FGFR4	5	176520705	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	26842985	176520705	4394555	19	7870											
ROS1	6098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117647553	117647553	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccaccttaaattctggttCtgtaaattatttgaagtgct	10	18	6	7	0	2	1	0	1	2	0	3	1	3	1	2	1	1	3	2	1	6	7	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	117647553	C	T	117647553	2	4	140	1	0	0	0	0	0	0	0	1	13533	912	32	2		2	ROS1	6	117647553	Silent	SNP	C	TCGA-B0-5399-01A-01D-1501-10		117647553	53467514	20	7871											
SAMD5	389432	broad.mit.edu	37	chr6	147830411	147830411	+	Frame_Shift_Del	DEL	C	-	-																															ctctcgcggccacacgaccgCcccccgcagcagggagctgg																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		-	147830411	-	-	147830411	7	5	140	1	0	1	0	1	0	0	0	0	13825	739	26	0	349	0	SAMD5	6	147830411	Frame_Shift_Del	DEL	C	TCGA-B0-5399-01A-01D-1501-10	30182858	147830411	23284656	21	7872											
ULBP2	80328	broad.mit.edu;hgsc.bcm.edu	37	chr6	150267506	150267506	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctctctctgatgggggcAgaacccctcaccctgcaggc	7	8	11	15	0	3	2	1	1	2	1	5	3	3	2	3	3	2	2	3	3	1	0	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		G	150267506	A	G	150267506	5	3	140	1	0	0	0	0	0	0	1	0	16972	202	7	3	358	3	ULBP2	6	150267506	Splice_Site	SNP	A	TCGA-B0-5399-01A-01D-1501-10	2437095	150267506	20847561	22	7873											
NOL8	55035	hgsc.bcm.edu;ucsc.edu	37	chr9	95070141	95070141	+	RNA	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgaatccctagaggtggtagGaaagcatgctaggtgttgga	11	10	15	5	0	0	2	0	1	0	1	1	4	1	4	1	5	2	4	1	5	5	4	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	95070141	G	A	95070141	1	1	140	0	1	0	0	0	0	0	0	0	10527	1189	41	2		2	NOL8	9	95070141	RNA	SNP	G	TCGA-B0-5399-01A-01D-1501-10		95070141	46143290	23	7874											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	375379	375379	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggagctgcttaccttgagGgactctgtttgcgagcccag	7	10	14	10	1	1	1	0	1	1	0	1	4	1	3	2	2	5	3	2	2	1	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	375379	G	T	375379	2	4	140	1	0	0	0	0	0	0	0	1	4529	1219	43	4		4	DIP2C	10	375379	Silent	SNP	G	TCGA-B0-5399-01A-01D-1501-10		375379	135159368	24	7875											
TAF5	6877	broad.mit.edu;hgsc.bcm.edu	37	chr10	105139365	105139365	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggctcttttgacttgtagGtattttttggtttattaaaa	8	22	8	3	0	1	1	0	1	1	0	1	1	1	1	0	3	0	4	0	3	5	12	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	105139365	G	C	105139365	3	2	140	1	0	0	0	0	1	0	0	0	15527	1275	44	4	1128	4	TAF5	10	105139365	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	104763986	105139365	30395382	25	7876											
OR52J3	119679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5068523	5068523	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttttctatatcccttcAgtcttctctttccttactca	5	21	3	12	0	5	0	2	0	3	0	8	0	7	0	2	0	1	1	2	0	3	8	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	5068523	A	T	5068523	2	4	140	1	0	0	0	0	0	0	0	1	11122	175	7	5		5	OR52J3	11	5068523	Silent	SNP	A	TCGA-B0-5399-01A-01D-1501-10		5068523	129937993	26	7877											
IGSF22	283284	broad.mit.edu	37	chr11	18738394	18738394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaccatcttcggacaccGtgatttcatacttgtcatcc	9	13	6	13	2	4	2	3	1	1	1	6	3	5	3	3	1	1	0	3	1	1	4	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	18738394	T	T	18738394	3	4	140	1	0	0	0	0	1	0	0	0	7600	1145	40	4	2909	4	IGSF22	11	18738394	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	13669871	18738394	116268122	27	7878											
SYVN1	84447	hgsc.bcm.edu	37	chr11	64897535	64897536	+	Frame_Shift_Ins	INS	-	-	C																															aggggaaaccaggggcagggINSccagcctctggggcagagcc																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	64897536	-	C	64897535	7	5	140	1	0	1	1	0	0	0	0	0	15486	1190	42	0	522	0	SYVN1	11	64897535	Frame_Shift_Ins	INS	-	TCGA-B0-5399-01A-01D-1501-10	46159141	64897535	70108981	28	7879											
FZD4	8322	hgsc.bcm.edu;ucsc.edu	37	chr11	86663464	86663464	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcatgggccaatggggaTgttgatcttctctgtgcaca	7	11	13	10	1	2	1	0	1	2	0	3	2	2	2	2	3	1	3	2	3	1	2	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	86663464	T	C	86663464	3	2	140	1	0	0	0	0	1	0	0	0	6132	1464	51	3	1283	3	FZD4	11	86663464	Missense_Mutation	SNP	T	TCGA-B0-5399-01A-01D-1501-10	21765929	86663464	48343052	29	7880											
B4GALNT3	283358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	657232	657232	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttcgaggtgctgcacaaGcagaatgaggagggcaccga	12	6	14	9	2	0	2	0	1	0	1	1	5	0	3	1	3	4	4	1	3	3	2	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	657232	G	A	657232	2	1	140	1	0	0	0	0	0	0	0	1	1268	962	34	2		2	B4GALNT3	12	657232	Silent	SNP	G	TCGA-B0-5399-01A-01D-1501-10		657232	133194663	30	7881											
CLEC4C	170482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7890118	7890118	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgcatcccagtagaaatAaagtagcaactagactgaaa	18	8	8	7	0	0	3	0	1	0	2	1	4	1	3	1	0	3	4	1	0	8	5	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	7890118	A	T	7890118	3	4	140	1	0	0	0	0	1	0	0	0	3513	359	13	5	365	5	CLEC4C	12	7890118	Missense_Mutation	SNP	A	TCGA-B0-5399-01A-01D-1501-10	7232886	7890118	125961777	31	7882											
ABCC9	10060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	22068794	22068794	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatctcactcccagatcctgGaggtcttcaggaggctttac	9	11	9	12	0	3	1	2	0	2	1	6	3	5	3	2	4	1	1	2	4	2	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	22068794	G	T	22068794	2	4	140	1	0	0	0	0	0	0	0	1	59	1161	41	4		4	ABCC9	12	22068794	Silent	SNP	G	TCGA-B0-5399-01A-01D-1501-10	14178676	22068794	111783101	32	7883											
ALDH2	217	broad.mit.edu;hgsc.bcm.edu	37	chr12	112221085	112221085	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggccgatctgatcgagcggGaccggacctacctggcggtg	6	7	16	12	5	1	1	0	1	1	0	2	5	1	3	4	5	2	0	4	5	1	1	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	112221085	G	A	112221085	3	1	140	1	0	0	0	0	1	0	0	0	496	1174	41	2	353	2	ALDH2	12	112221085	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	90152291	112221085	21630810	33	7884											
GCN1L1	10985	broad.mit.edu;ucsc.edu	37	chr12	120574466	120574466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcctaaggctttggctGcctcctccttctgctcaggg	5	11	10	15	0	2	0	1	0	1	0	4	0	4	0	5	3	3	3	5	3	2	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	120574466	A	A	120574466	3	1	140	1	0	0	0	0	1	0	0	0	6299	1319	46	2	1199	2	GCN1L1	12	120574466	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	8353381	120574466	13277429	34	7885											
PDS5B	23047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33275559	33275559	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatagcacctgtgcacataGataccgaatctatcaggtat	13	10	9	9	1	2	1	1	0	1	1	2	3	2	2	2	2	3	3	2	2	6	5	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	33275559	G	A	33275559	3	1	140	1	0	0	0	0	1	0	0	0	11692	942	33	2	1902	2	PDS5B	13	33275559	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10		33275559	81894319	35	7886											
IFI27L2	83982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94594972	94594972	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctgccccagtgaagccCatggcactgagcaccacggg	9	6	11	15	1	0	2	0	2	0	0	1	2	1	2	5	2	3	2	5	2	1	1	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	94594972	C	A	94594972	3	1	140	1	0	0	0	0	1	0	0	0	7514	594	21	4	322	4	IFI27L2	14	94594972	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10		94594972	12754568	36	7887											
TLN2	83660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	62978977	62978977	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagcgctgggcagcctcAcccaagagcttcacactggt	9	7	11	14	1	3	1	3	0	0	1	3	1	3	1	2	2	3	3	2	2	2	1	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		G	62978977	A	G	62978977	2	3	140	1	0	0	0	0	0	0	0	1	15947	146	6	3		3	TLN2	15	62978977	Silent	SNP	A	TCGA-B0-5399-01A-01D-1501-10		62978977	39552415	37	7888											
SETD6	79918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58550759	58550759	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggatgaaaaggagcccaactCccccgtgatggtgcctgctg	9	7	13	12	1	0	2	0	2	0	0	1	4	1	4	4	3	4	1	4	3	3	0	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		G	58550759	C	G	58550759	3	3	140	1	0	0	0	0	1	0	0	0	14137	855	30	4	737	4	SETD6	16	58550759	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10		58550759	31803994	38	7889											
MEX3C	51320	hgsc.bcm.edu;ucsc.edu	37	chr18	48703023	48703023	+	Frame_Shift_Del	DEL	C	C	-																															actaggtgggtcgctcctaaCcctccgagcaagtggatgtt																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		-	48703023	C	-	48703023	7	5	140	1	0	1	0	1	0	0	0	0	9511	507	18	0	305	0	MEX3C	18	48703023	Frame_Shift_Del	DEL	C	TCGA-B0-5399-01A-01D-1501-10		48703023	29374225	39	7890											
FBN3	84467	hgsc.bcm.edu;ucsc.edu	37	chr19	8148162	8148162	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagcagtagcatccggtgtGtacccggcctgacagtggca	8	8	14	11	2	0	1	0	1	0	0	1	1	1	1	3	3	3	6	3	3	3	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	8148162	G	A	8148162	2	1	140	1	0	0	0	0	0	0	0	1	5704	1372	48	2		2	FBN3	19	8148162	Silent	SNP	G	TCGA-B0-5399-01A-01D-1501-10		8148162	50980821	40	7891											
BCAM	4059	broad.mit.edu;hgsc.bcm.edu	37	chr19	45324077	45324077	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcgggggcttcggagacGaggtgggtgagggcctgggc	5	5	23	8	3	0	2	0	1	0	1	1	4	0	2	1	7	1	2	1	7	0	1	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	45324077	G	A	45324077	3	1	140	1	0	0	0	0	1	0	0	0	1344	1059	37	1	1937	1	BCAM	19	45324077	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	37175915	45324077	13804906	41	7892											
ADAM33	80332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3655259	3655259	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccatccgaaagatctcGtgggttgagaagtccttgga	9	11	12	9	2	1	2	0	1	1	2	5	5	4	3	3	2	1	2	3	2	2	2	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	3655259	G	A	3655259	2	1	140	1	0	0	0	0	0	0	0	1	250	1136	40	1		1	ADAM33	20	3655259	Silent	SNP	G	TCGA-B0-5399-01A-01D-1501-10		3655259	59370261	42	7893											
CABIN1	23523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24563174	24563174	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagagtcaggcaagacaCttctgttggatgcctaccgt	11	9	10	11	1	2	2	1	0	1	2	2	3	2	3	2	2	2	2	2	2	2	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	24563174	C	A	24563174	3	1	140	1	0	0	0	0	1	0	0	0	2528	565	20	4	5697	4	CABIN1	22	24563174	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01D-1501-10		24563174	26741392	43	7894											
SGSM3	27352	hgsc.bcm.edu	37	chr22	40804077	40804078	+	Frame_Shift_Ins	INS	-	-	G																															gcctgtttttcccacaggctINSggtttccagccaagttcgtg																								novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		G	40804078	-	G	40804077	7	5	140	1	0	1	1	0	0	0	0	0	14226	1580	55	0	1636	0	SGSM3	22	40804077	Frame_Shift_Ins	INS	-	TCGA-B0-5399-01A-01D-1501-10	16240903	40804077	10500489	44	7895											
PDK3	5165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	24537120	24537120	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagagctggaagttgaagaAttcaatggtaaaagaaaact	18	8	10	5	0	1	4	1	1	0	3	1	5	1	5	1	2	2	3	1	2	8	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		C	24537120	A	C	24537120	3	2	140	1	0	0	0	0	1	0	0	0	11677	98	4	5	688	5	PDK3	23	24537120	Missense_Mutation	SNP	A	TCGA-B0-5399-01A-01D-1501-10		24537120	130733440	45	7896											
PGK1	5230	broad.mit.edu;hgsc.bcm.edu	37	chrX	77373615	77373615	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagaaggagctgaactacTttgcaaaggccttggagagc	13	8	13	7	0	0	4	0	2	0	2	0	6	0	5	1	3	5	2	1	3	5	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		A	77373615	T	A	77373615	3	1	140	1	0	0	0	0	1	0	0	0	11790	1609	56	5	611	5	PGK1	23	77373615	Missense_Mutation	SNP	T	TCGA-B0-5399-01A-01D-1501-10	52836495	77373615	77896945	46	7897											
KCNE1L	23630	broad.mit.edu	37	chrX	108868069	108868069	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgagcaggatgtagaGataggcgtcgtcgcccttgg	9	9	15	8	3	0	3	0	2	0	1	2	5	0	4	1	3	1	2	1	3	2	3	novel		TCGA-B0-5399-01A-01D-1501-10	TCGA-B0-5399-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0961a0cf-cc48-4648-899a-6bae189713be	ccca4bdb-ecc3-478a-ab84-47822fc05435		T	108868069	T	T	108868069	3	4	140	1	0	0	0	0	1	0	0	0	8022	942	33	4	251	4	KCNE1L	23	108868069	Missense_Mutation	SNP	G	TCGA-B0-5399-01A-01D-1501-10	31494454	108868069	46402491	47	7898											
VHL	7428	hgsc.bcm.edu	37	chr3	10183864	10183864	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggccgccgcatccacagCtaccgaggtacgggcccggc	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-B0-5399-01A-01W-1528-10	TCGA-B0-5399-10A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	83a76d98-c12a-4fe5-b3a3-9d74a3ae5179	ccca4bdb-ecc3-478a-ab84-47822fc05435		G	10183864	C	G	10183864	3	3	141	1	0	0	0	0	1	0	0	0	17161	796	28	4	335	4	VHL	3	10183864	Missense_Mutation	SNP	C	TCGA-B0-5399-01A-01W-1528-10		10183864	187838566	1	7899											
OTUD3	23252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20233088	20233088	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagtgaagaaaacaaagcAaataaaaaccagctcgcaaa	22	4	6	9	1	0	2	0	1	0	1	1	2	0	2	2	0	4	3	2	0	10	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	20233088	A	G	20233088	2	3	142	1	0	0	0	0	0	0	0	1	11313	117	5	3		3	OTUD3	1	20233088	Silent	SNP	A	TCGA-B0-5400-01A-01D-1501-10		20233088	229017533	1	7900											
RPL5	6125	broad.mit.edu;ucsc.edu	37	chr1	93307322	93307322	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatattcctatcttttgtaGgtggaaccgtcccaaaatgt	11	15	7	8	1	1	0	0	0	1	0	3	1	3	1	3	2	1	1	3	2	7	7	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	93307322	C	C	93307322	5	2	142	1	0	0	0	0	0	0	1	0	13599	1014	35	4	824	4	RPL5	1	93307322	Splice_Site	SNP	G	TCGA-B0-5400-01A-01D-1501-10	73074234	93307322	155943299	2	7901											
SHC1	6464	broad.mit.edu;ucsc.edu	37	chr1	154941261	154941261	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtacctttctcctccttgTcgcccccttagcacccggca	6	11	6	18	2	1	0	0	0	1	0	4	0	2	0	6	1	2	3	6	1	3	4	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	154941261	G	G	154941261	3	3	142	1	0	0	0	0	1	0	0	0	14272	1667	58	5	1178	5	SHC1	1	154941261	Missense_Mutation	SNP	T	TCGA-B0-5400-01A-01D-1501-10	61633939	154941261	94309360	3	7902											
LEMD1	93273	broad.mit.edu	37	chr1	205350814	205350814	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgacttattttccacaGtcaggtagacaaacaccaca	15	8	6	12	1	1	1	1	0	0	1	2	2	2	1	2	1	2	1	2	1	3	4	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	205350814	T	T	205350814	3	4	142	1	0	0	0	0	1	0	0	0	8719	1044	36	4		4	LEMD1	1	205350814	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	50409553	205350814	43899807	4	7903											
TARBP1	6894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234599596	234599596	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatactctttatttcttcTggaagaagagaaatataagt	15	14	6	6	0	3	2	0	0	3	2	3	4	3	3	0	1	1	0	0	1	7	7	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	234599596	T	C	234599596	2	2	142	1	0	0	0	0	0	0	0	1	15554	1567	55	3		3	TARBP1	1	234599596	Silent	SNP	T	TCGA-B0-5400-01A-01D-1501-10	29248782	234599596	14651025	5	7904											
PSD4	23550	hgsc.bcm.edu;ucsc.edu	37	chr2	113943717	113943717	+	Frame_Shift_Del	DEL	A	A	-																															aacagccaagttccttgaagAaaaaggaggcaggggaggcc																								novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		-	113943717	A	-	113943717	7	5	142	1	0	1	0	1	0	0	0	0	12651	247	9	0	1527	0	PSD4	2	113943717	Frame_Shift_Del	DEL	A	TCGA-B0-5400-01A-01D-1501-10		113943717	129255656	6	7905											
IWS1	55677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128263302	128263302	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatgatgtcctttggggagGccatcttctcgatcactagt	8	13	10	10	1	3	1	1	1	2	0	5	3	4	2	2	3	0	0	2	3	1	3	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	128263302	G	T	128263302	2	4	142	1	0	0	0	0	0	0	0	1	7931	1190	42	4		4	IWS1	2	128263302	Silent	SNP	G	TCGA-B0-5400-01A-01D-1501-10	14319585	128263302	114936071	7	7906											
GPR39	2863	broad.mit.edu	37	chr2	133175094	133175094	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgattggcttcgtctGggtcacctccgccctggtgg	2	12	14	13	2	2	1	1	1	1	0	4	1	3	1	3	4	1	3	3	4	0	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	133175094	A	A	133175094	4	1	142	1	0	0	0	0	0	1	0	0	6693	1357	47	2	481	2	GPR39	2	133175094	Nonsense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	4911792	133175094	110024279	8	7907											
MFSD6	54842	hgsc.bcm.edu;ucsc.edu	37	chr2	191334581	191334581	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccatggaagttcttcaaGgtaagttaacagctgggatt	11	12	10	8	0	2	0	1	0	1	0	3	2	3	2	2	3	2	4	2	3	4	5	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	191334581	G	T	191334581	4	4	142	1	0	0	0	0	0	1	0	0	9535	1014	35	4	1636	4	MFSD6	2	191334581	Nonsense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	58159487	191334581	51864792	9	7908											
SLC4A7	9497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	27442256	27442256	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatttcaaaatatactcacaGaaacagtaagatttctccag	17	12	4	8	0	3	2	2	0	1	2	4	2	3	2	1	0	2	1	1	0	7	6	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	27442256	G	A	27442256	3	1	142	1	0	0	0	0	1	0	0	0	14660	956	33	2	1285	2	SLC4A7	3	27442256	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10		27442256	170580174	10	7909											
ALAS1	211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52246387	52246387	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggggagaagagctcctacgGattgcccccacccctcacca	9	5	10	17	2	1	2	1	0	0	2	2	4	2	3	6	3	3	1	6	3	2	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	52246387	G	A	52246387	2	1	142	1	0	0	0	0	0	0	0	1	484	1161	41	2		2	ALAS1	3	52246387	Silent	SNP	G	TCGA-B0-5400-01A-01D-1501-10	24804131	52246387	145776043	11	7910											
FBXW7	55294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	153244135	153244135	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tttgtgtttgaggctctgatCcgccacacaactcccccact	7	12	7	15	1	1	2	0	2	1	0	3	2	3	2	4	1	1	2	4	1	1	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	153244135	C	G	153244135	2	3	142	1	0	0	0	0	0	0	0	1	5769	842	30	4		4	FBXW7	4	153244135	Silent	SNP	C	TCGA-B0-5400-01A-01D-1501-10		153244135	37910141	12	7911											
SNX25	83891	broad.mit.edu;ucsc.edu	37	chr4	186283245	186283245	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagcacagcaaaagctgcTtgaaaacattccaggtgagg	15	6	12	8	0	0	3	0	2	0	1	1	4	1	3	1	2	5	4	1	2	4	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	186283245	C	C	186283245	3	2	142	1	0	0	0	0	1	0	0	0	14898	1609	56	3	2389	3	SNX25	4	186283245	Missense_Mutation	SNP	T	TCGA-B0-5400-01A-01D-1501-10	33039110	186283245	4871031	13	7912											
SEMA3E	9723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82996992	82996992	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcatacttccacttggaGggtgacattttaagcttttt	8	17	9	7	0	0	1	0	1	0	0	1	2	1	2	1	3	2	2	1	3	2	8	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	82996992	G	A	82996992	2	1	142	1	0	0	0	0	0	0	0	1	14030	987	35	2		2	SEMA3E	7	82996992	Silent	SNP	G	TCGA-B0-5400-01A-01D-1501-10		82996992	76141671	14	7913											
NRCAM	4897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107820706	107820706	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gactctgtcagggctggctgGgccctcccctttcccattga	4	11	11	15	0	2	1	1	1	1	0	4	2	4	1	4	3	0	2	4	3	0	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	107820706	G	A	107820706	3	1	142	1	0	0	0	0	1	0	0	0	10644	1232	43	2	1168	2	NRCAM	7	107820706	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	24823714	107820706	51317957	15	7914											
EPB41L4B	54566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	111976002	111976002	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttatgttgatgtgcagaGgaggccagggtccagcagcc	8	10	15	8	0	0	2	0	1	0	1	1	3	1	3	3	3	3	4	3	3	1	3	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	111976002	G	T	111976002	3	4	142	1	0	0	0	0	1	0	0	0	5156	1000	35	4	1012	4	EPB41L4B	9	111976002	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10		111976002	29237429	16	7915											
CUL2	8453	broad.mit.edu;ucsc.edu	37	chr10	35299283	35299283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccgacgcctggctgcgttCtatgtattgtttgtctatca	5	16	10	10	3	3	0	1	0	2	0	3	1	3	0	2	1	2	4	2	1	3	6	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	35299283	T	T	35299283	3	4	142	1	0	0	0	0	1	0	0	0	4055	922	32	2	47	2	CUL2	10	35299283	Missense_Mutation	SNP	C	TCGA-B0-5400-01A-01D-1501-10		35299283	100235464	17	7916											
LRRC18	474354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50121787	50121787	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttcagggcccccagtgtGgtgggcacgctgtccaggtg	4	9	15	13	1	1	0	1	0	0	0	3	0	3	0	4	4	0	2	4	4	0	1	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	50121787	G	A	50121787	2	1	142	1	0	0	0	0	0	0	0	1	8974	1335	47	2		2	LRRC18	10	50121787	Silent	SNP	G	TCGA-B0-5400-01A-01D-1501-10	14822504	50121787	85412960	18	7917											
LRRTM3	347731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	68688186	68688186	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggaccctgcacctataaCaaatcgggctccagggagtg	11	6	12	12	2	0	0	0	0	0	0	2	2	1	2	3	3	2	2	3	3	3	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	68688186	C	A	68688186	3	1	142	1	0	0	0	0	1	0	0	0	9041	477	17	4	1518	4	LRRTM3	10	68688186	Missense_Mutation	SNP	C	TCGA-B0-5400-01A-01D-1501-10	18566399	68688186	66846561	19	7918											
CH25H	9023	broad.mit.edu;ucsc.edu	37	chr10	90966990	90966990	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggtcccagaggggctgCaggaacagctgcccggagct	8	5	17	11	1	0	1	0	0	0	1	1	3	1	3	2	6	5	4	2	6	1	0	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	90966990	T	T	90966990	2	4	142	1	0	0	0	0	0	0	0	1	3307	697	25	2		2	CH25H	10	90966990	Silent	SNP	C	TCGA-B0-5400-01A-01D-1501-10	22278804	90966990	44567757	20	7919											
SFXN4	119559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	120921912	120921912	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcacaatagttgcctcgaGttttctatactttcctaaaa	11	15	6	9	1	1	0	0	0	1	0	3	1	2	0	2	0	3	3	2	0	6	8	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	120921912	G	C	120921912	3	2	142	1	0	0	0	0	1	0	0	0	14199	1020	36	4	869	4	SFXN4	10	120921912	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	29954922	120921912	14612835	21	7920											
TTC17	55761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	43469635	43469635	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtagagctgactgccatcGtgagtacctggcttgcagtt	7	11	14	9	1	0	3	0	2	0	1	1	3	0	3	2	2	4	6	2	2	2	4	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	43469635	G	A	43469635	3	1	142	1	0	0	0	0	1	0	0	0	16683	1145	40	1	2823	1	TTC17	11	43469635	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10		43469635	91536881	22	7921											
TAS2R46	259292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	11214646	11214646	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcccagacattgtaagcaGtaattcttacttctatactg	11	14	6	10	0	2	1	0	0	2	1	2	1	2	1	1	0	4	3	1	0	5	8	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	11214646	G	T	11214646	3	4	142	1	0	0	0	0	1	0	0	0	15581	1029	36	4	685	4	TAS2R46	12	11214646	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10		11214646	122637249	23	7922											
PIK3C2G	5288	broad.mit.edu;ucsc.edu	37	chr12	18649023	18649023	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catattttacatctaatgctTtgccattgaagattactttc	11	18	4	8	0	1	2	0	1	1	1	2	2	1	2	1	0	4	1	1	0	5	8	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	18649023	C	C	18649023	2	2	142	1	0	0	0	0	0	0	0	1	11911	1838	64	3		3	PIK3C2G	12	18649023	Silent	SNP	T	TCGA-B0-5400-01A-01D-1501-10	7434377	18649023	115202872	24	7923											
KRAS	3845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	25380282	25380282	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgtactcctcttgacctGctgtgtcgagaatatccaag	9	12	8	12	1	1	2	0	1	1	1	4	3	3	2	3	0	2	2	3	0	4	3	rs104886029	alternate_allele	TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	25380282	G	C	25380282	3	2	142	1	0	0	0	0	1	0	0	0	8438	1319	46	4	526	4	KRAS	12	25380282	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	6731259	25380282	108471613	25	7924											
LIMA1	51474	broad.mit.edu;ucsc.edu	37	chr12	50616129	50616129	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttcagcaggaggatggTctgctctgtgcctaatctca	8	12	10	11	0	5	0	3	0	3	0	6	2	5	2	1	3	3	2	1	3	1	2	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	50616129	A	A	50616129	3	1	142	1	0	0	0	0	1	0	0	0	8796	1667	58	5	2009	5	LIMA1	12	50616129	Missense_Mutation	SNP	T	TCGA-B0-5400-01A-01D-1501-10	25235847	50616129	83235766	26	7925											
ATP8A2	51761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	26148985	26148985	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcggaatccttaatgtcctgGaattttctaggtatgtttct	8	18	8	7	1	2	0	0	0	2	0	5	2	4	2	2	3	0	2	2	3	5	6	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	26148985	G	T	26148985	4	4	142	1	0	0	0	0	0	1	0	0	1193	1175	41	4	1776	4	ATP8A2	13	26148985	Nonsense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10		26148985	89020893	27	7926											
SEC11A	23478	broad.mit.edu;ucsc.edu	37	chr15	85230906	85230906	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataggaatctctcttccttcTatcctaaaaacaacaatttc	14	14	2	11	0	3	0	0	0	3	0	7	1	5	1	2	1	2	0	2	1	8	6	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	85230906	C	C	85230906	3	2	142	1	0	0	0	0	1	0	0	0	13980	1512	53	3	294	3	SEC11A	15	85230906	Missense_Mutation	SNP	T	TCGA-B0-5400-01A-01D-1501-10		85230906	17300486	28	7927											
GOT2	2806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58743325	58743325	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcagaatcactcacctgtTcaggctttagccctgtgaaa	12	11	7	11	0	4	2	4	1	0	1	4	2	4	2	2	1	1	2	2	1	4	3	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	58743325	T	C	58743325	3	2	142	1	0	0	0	0	1	0	0	0	6581	1783	62	3	134	3	GOT2	16	58743325	Missense_Mutation	SNP	T	TCGA-B0-5400-01A-01D-1501-10		58743325	31611428	29	7928											
DLG4	1742	broad.mit.edu	37	chr17	7111517	7111517	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggaggtgggccgggctGtgctccagagggggcgtgtc	3	8	22	8	2	0	1	0	0	0	1	2	2	1	2	2	7	1	2	2	7	0	1	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	7111517	T	T	7111517	3	4	142	1	0	0	0	0	1	0	0	0	4557	1368	48	4	2178	4	DLG4	17	7111517	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10		7111517	74083693	30	7929											
CHD3	1107	broad.mit.edu;hgsc.bcm.edu	37	chr17	7801818	7801818	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccactctttttccagagaaCtaattatgggggaagaccct	11	11	8	11	0	1	2	0	0	1	2	2	4	2	3	3	2	1	0	3	2	4	4	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	7801818	C	A	7801818	3	1	142	1	0	0	0	0	1	0	0	0	3326	564	20	4	2387	4	CHD3	17	7801818	Missense_Mutation	SNP	C	TCGA-B0-5400-01A-01D-1501-10	690301	7801818	73393392	31	7930											
KRT32	3882	broad.mit.edu;hgsc.bcm.edu	37	chr17	39619147	39619147	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccagccgggcccggacGtccagcagcacctggtactc	6	5	11	19	3	0	0	0	0	0	0	3	1	2	1	6	3	4	3	6	3	1	1	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	39619147	G	A	39619147	2	1	142	1	0	0	0	0	0	0	0	1	8468	1136	40	1		1	KRT32	17	39619147	Silent	SNP	G	TCGA-B0-5400-01A-01D-1501-10	31817329	39619147	41576063	32	7931											
DNAJC7	7266	broad.mit.edu;ucsc.edu	37	chr17	40148366	40148366	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttttatgatccagttctAgggctctctggaagctgcga	8	14	10	9	1	2	1	0	1	2	0	4	3	3	2	1	2	2	3	1	2	3	5	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	40148366	G	G	40148366	3	3	142	1	0	0	0	0	1	0	0	0	4654	420	15	3	1160	3	DNAJC7	17	40148366	Missense_Mutation	SNP	A	TCGA-B0-5400-01A-01D-1501-10	529219	40148366	41046844	33	7932											
PIGN	23556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	59815498	59815498	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatctattcctaataaatgtAagaaaaaaactattttctct	17	16	2	6	0	2	1	0	0	2	1	4	1	3	1	1	0	1	1	1	0	10	9	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	59815498	A	G	59815498	3	3	142	1	0	0	0	0	1	0	0	0	11893	372	13	3	2268	3	PIGN	18	59815498	Missense_Mutation	SNP	A	TCGA-B0-5400-01A-01D-1501-10		59815498	18261750	34	7933											
PAPL	390928	broad.mit.edu	37	chr19	39591391	39591391	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccagctgggatctgggTcccgcccacatcatctcctt	5	11	8	17	1	3	0	1	0	2	0	7	1	6	1	5	2	1	1	5	2	0	1	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	39591391	G	G	39591391	2	3	142	1	0	0	0	0	0	0	0	1	11427	1654	58	5		5	PAPL	19	39591391	Silent	SNP	T	TCGA-B0-5400-01A-01D-1501-10		39591391	19537592	35	7934											
LILRB5	10990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54760570	54760570	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggcccctgacaccagaggGtcacgggcttcccccgagct	6	5	14	16	2	1	2	1	1	0	1	2	3	2	2	5	4	1	2	5	4	0	1	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	54760570	G	A	54760570	3	1	142	1	0	0	0	0	1	0	0	0	8794	1261	44	2	1682	2	LILRB5	19	54760570	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	15169179	54760570	4368413	36	7935											
NLRP9	338321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56243438	56243438	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcgttaaatgttgacaatGcttcaggcagaatgaagcta	13	12	10	6	1	1	3	1	2	0	1	2	3	1	3	0	1	2	5	0	1	6	4	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	56243438	G	A	56243438	3	1	142	1	0	0	0	0	1	0	0	0	10484	1319	46	2	1248	2	NLRP9	19	56243438	Missense_Mutation	SNP	G	TCGA-B0-5400-01A-01D-1501-10	1482868	56243438	2885545	37	7936											
CLIC6	54102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	36081084	36081084	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcgtttataaaaaacaCgaagaaggatgcaaatgaga	19	7	9	6	2	1	2	1	1	0	2	1	5	1	3	0	1	3	2	0	1	7	3	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		T	36081084	C	T	36081084	3	4	142	1	0	0	0	0	1	0	0	0	3530	536	19	1	1711	1	CLIC6	21	36081084	Missense_Mutation	SNP	C	TCGA-B0-5400-01A-01D-1501-10		36081084	12048811	38	7937											
LOC391322	391322	broad.mit.edu;ucsc.edu	37	chr22	24373819	24373819	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaggcccggaatattattcTaaaacacaatcagagtactc	15	10	7	9	1	2	1	1	0	1	1	3	2	2	2	1	2	2	2	1	2	8	6	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	24373819	C	C	24373819	2	2	142	1	0	0	0	0	0	0	0	1	8875	1509	53	3		3	LOC391322	22	24373819	Silent	SNP	T	TCGA-B0-5400-01A-01D-1501-10		24373819	26930747	39	7938											
FRMPD4	9758	broad.mit.edu;ucsc.edu	37	chrX	12736620	12736620	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcaggctgtggcacaggCagcagtggcagtgcctgtgc	7	7	17	10	0	0	0	0	0	0	0	0	1	0	0	1	4	4	6	1	4	0	0	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		A	12736620	A	A	12736620	2	1	142	1	0	0	0	0	0	0	0	1	6059	697	25	4		4	FRMPD4	23	12736620	Silent	SNP	C	TCGA-B0-5400-01A-01D-1501-10		12736620	142533940	40	7939											
PHF8	23133	broad.mit.edu;ucsc.edu	37	chrX	54043171	54043171	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatctctttgtcagaaccTggagtaaagagataggttct	12	13	9	7	0	4	2	2	0	2	2	5	4	4	3	1	2	1	2	1	2	5	4	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		C	54043171	C	C	54043171	5	2	142	1	0	0	0	0	0	0	1	0	11840	1594	55	3	2859	3	PHF8	23	54043171	Splice_Site	SNP	T	TCGA-B0-5400-01A-01D-1501-10	41306551	54043171	101227389	41	7940											
ODZ1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123630881	123630881	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaccttaattccaaaataCtaacggagtttcccgaggga	13	11	7	10	2	0	0	0	0	0	0	2	3	2	2	3	2	3	1	3	2	6	6	novel		TCGA-B0-5400-01A-01D-1501-10	TCGA-B0-5400-11A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e7128330-77b1-48be-b9f0-be986aa63ea8	c580da30-e65c-4abb-9903-3749bde02be4		G	123630881	C	G	123630881	3	3	142	1	0	0	0	0	1	0	0	0	10834	565	20	4	4570	4	ODZ1	23	123630881	Missense_Mutation	SNP	C	TCGA-B0-5400-01A-01D-1501-10	69587710	123630881	31639679	42	7941											
JAK1	3716	hgsc.bcm.edu;ucsc.edu	37	chr1	65330477	65330479	+	In_Frame_Del	DEL	TTG	TTG	-																															gggacaaacttaccattttcTtgttgtcctgcttgttaatg																								novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		-	65330479	TTG	-	65330477	7	5	143	1	0	1	0	1	0	0	0	0	7937	1609	56	0	2367	0	JAK1	1	65330477	In_Frame_Del	DEL	TTG	TCGA-B0-5402-01A-01D-1501-10		65330477	183920144	1	7942											
C1orf103	0	hgsc.bcm.edu;ucsc.edu	37	chr1	111490650	111490652	+	In_Frame_Del	DEL	TCT	TCT	-																															tctctcagcacctgcttaagTcttcttattttttcatctcg																								novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		-	111490652	TCT	-	111490650	7	5	143	1	0	1	0	1	0	0	0	0	1977	1664	58	0	72	0	C1orf103	1	111490650	In_Frame_Del	DEL	TCT	TCGA-B0-5402-01A-01D-1501-10	46160173	111490650	137759971	2	7943											
MAP4K4	9448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	102460601	102460601	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgagtctactcttcgccGagatttcctgagactgcagc	7	12	11	11	2	2	3	0	2	2	2	4	5	3	3	2	1	3	1	2	1	1	3	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	102460601	G	A	102460601	3	1	143	1	0	0	0	0	1	0	0	0	9262	1058	37	1	1107	1	MAP4K4	2	102460601	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		102460601	140738772	3	7944											
TMEM37	140738	broad.mit.edu	37	chr2	120194742	120194742	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcgccttggccgtggTggccgccatttttggcctgg	1	11	17	12	4	0	0	0	0	0	0	0	0	0	0	5	6	0	0	5	6	0	3	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	120194742	C	C	120194742	3	2	143	1	0	0	0	0	1	0	0	0	16157	1696	59	3	305	3	TMEM37	2	120194742	Missense_Mutation	SNP	T	TCGA-B0-5402-01A-01D-1501-10	17734141	120194742	123004631	4	7945											
ZRANB3	84083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135966529	135966529	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccattgaggctacggcaaCatcttctttggttatgtatc	8	15	9	9	1	2	1	0	1	2	0	4	1	3	1	1	3	2	4	1	3	4	6	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	135966529	C	G	135966529	3	3	143	1	0	0	0	0	1	0	0	0	18223	478	17	4	740	4	ZRANB3	2	135966529	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	15771787	135966529	107232844	5	7946											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238277320	238277320	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctctctgaactctcgcaCtgtgaagaccagtctggggt	9	10	11	11	1	3	3	0	2	3	1	5	3	3	3	1	2	2	2	1	2	3	0	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	238277320	C	T	238277320	3	4	143	1	0	0	0	0	1	0	0	0	3701	565	20	2	4887	2	COL6A3	2	238277320	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	102310791	238277320	4922053	6	7947											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191572	10191572	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcgctctacgaagatctgGaagaccacccaaatgtgcag	12	7	11	11	2	2	2	0	0	2	2	3	4	2	3	2	2	2	2	2	2	4	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	10191572	G	T	10191572	4	4	143	1	0	0	0	0	0	1	0	0	17161	1175	41	4	575	4	VHL	3	10191572	Nonsense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		10191572	187830858	7	7948											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47164342	47164343	+	Frame_Shift_Del	DEL	GA	GA	-																															ttcttaattcactaccttttGaacaaggtgtctgtaaacta																								novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	GA	GA	GA	-	GA	GA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		-	47164343	GA	-	47164342	7	5	143	1	0	1	0	1	0	0	0	0	14133	1294	45	0	5986	0	SETD2	3	47164342	Frame_Shift_Del	DEL	GA	TCGA-B0-5402-01A-01D-1501-10	36972770	47164342	150858088	8	7949											
IP6K1	9807	broad.mit.edu;ucsc.edu	37	chr3	49775709	49775709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgccactgcctgaccGgtgcaggctccggcgggagt	5	7	15	14	3	1	1	1	1	0	0	2	2	2	2	4	4	3	2	4	4	0	0	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	49775709	A	A	49775709	3	1	143	1	0	0	0	0	1	0	0	0	7788	1115	39	1	971	1	IP6K1	3	49775709	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	2611367	49775709	148246721	9	7950											
CHMP2B	25978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	87302584	87302584	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttgatgacatctttgacgGttctgatgacgaagaagaaa	14	11	10	6	2	2	7	0	5	2	2	2	8	2	7	0	1	0	1	0	1	3	3	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	87302584	G	A	87302584	3	1	143	1	0	0	0	0	1	0	0	0	3355	1261	44	2	473	2	CHMP2B	3	87302584	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	37526875	87302584	110719846	10	7951											
FAM194A	131831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150384662	150384662	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgttctaagatgcggactCcaatataacggttcaaagcc	12	11	8	10	2	2	1	1	0	1	1	3	2	3	2	2	2	3	2	2	2	5	6	rs150155678	alternate_allele	TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	150384662	C	A	150384662	3	1	143	1	0	0	0	0	1	0	0	0	5526	855	30	4	359	4	FAM194A	3	150384662	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	63082078	150384662	47637768	11	7952											
RARRES1	5918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	158415529	158415529	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcagttccggaggcttcttCtggtgtctgtagctcttgac	4	16	11	10	1	5	1	1	1	4	0	6	2	6	2	1	3	1	4	1	3	1	6	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	158415529	C	G	158415529	3	3	143	1	0	0	0	0	1	0	0	0	13057	922	32	4	65	4	RARRES1	3	158415529	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	8030867	158415529	39606901	12	7953											
NHEDC2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	103988700	103988700	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtaattcttttatcttcaTcccccattatttataattaa	12	20	1	8	0	3	0	1	0	2	0	4	0	4	0	2	0	0	1	2	0	6	10	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	103988700	T	C	103988700	3	2	143	1	0	0	0	0	1	0	0	0	10401	1435	50	3	1649	3	NHEDC2	4	103988700	Missense_Mutation	SNP	T	TCGA-B0-5402-01A-01D-1501-10		103988700	87165576	13	7954											
ADAM29	11086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	175896768	175896768	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaatatcacagccctcCggatgtggtgattcctgtga	8	10	9	14	1	1	2	1	2	0	0	3	3	3	3	5	2	1	0	5	2	2	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	175896768	C	T	175896768	3	4	143	1	0	0	0	0	1	0	0	0	247	652	23	1	94	1	ADAM29	4	175896768	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	71908068	175896768	15257508	14	7955											
FASTKD3	79072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	7867988	7867988	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgagtggatgaaggtcatttCcatttttcgaatgaaacttt	11	15	9	6	2	1	2	1	2	0	0	3	5	2	3	1	2	1	0	1	2	3	4	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	7867988	C	T	7867988	3	4	143	1	0	0	0	0	1	0	0	0	5687	855	30	2	1803	2	FASTKD3	5	7867988	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10		7867988	173047272	15	7956											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32088407	32088407	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgagtcctgctcatcttcCcacccaggctgccatctgtc	5	11	7	18	1	3	0	1	0	2	0	7	1	5	0	4	1	2	2	4	1	0	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	32088407	C	A	32088407	3	1	143	1	0	0	0	0	1	0	0	0	11701	623	22	4	4927	4	PDZD2	5	32088407	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	24220419	32088407	148826853	16	7957											
HCN1	348980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	45262590	45262590	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacaggagggctgcagacCgcggtggtgtaggagcaggg	8	6	20	7	2	0	1	0	0	0	1	0	3	0	3	1	6	3	5	1	6	2	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	45262590	C	T	45262590	2	4	143	1	0	0	0	0	0	0	0	1	6996	639	23	1		1	HCN1	5	45262590	Silent	SNP	C	TCGA-B0-5402-01A-01D-1501-10	13174183	45262590	135652670	17	7958											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127664442	127664442	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccatctcacactcgcagcGatatgcacccgggacattaa	11	7	8	15	3	1	0	1	0	1	0	3	2	1	1	2	1	2	2	2	1	2	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	127664442	G	A	127664442	3	1	143	1	0	0	0	0	1	0	0	0	5703	1058	37	1	4449	1	FBN2	5	127664442	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	82401852	127664442	53250818	18	7959											
PCDHB6	56130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140530050	140530050	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggttgttttcaaagggaacaGacaacatttgcagtttgatc	12	13	10	6	0	1	2	1	1	0	1	2	3	1	3	0	2	3	4	0	2	3	5	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	140530050	G	C	140530050	3	2	143	1	0	0	0	0	1	0	0	0	11546	942	33	4	214	4	PCDHB6	5	140530050	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	12865608	140530050	40385210	19	7960											
DPYSL3	1809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	146798117	146798117	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgagtatggacatcgatgCctccagggatcaccatcttc	10	10	10	11	1	2	1	1	1	1	0	5	4	3	3	3	2	1	1	3	2	1	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	146798117	C	A	146798117	3	1	143	1	0	0	0	0	1	0	0	0	4748	739	26	4	1554	4	DPYSL3	5	146798117	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	6268067	146798117	34117143	20	7961											
PTK7	5754	broad.mit.edu	37	chr6	43107148	43107148	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctgctgaaacagaaaaGctcaagttcacaccaccacc	14	6	5	16	0	3	2	2	1	1	1	3	2	3	2	4	0	3	3	4	0	4	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	43107148	C	C	43107148	3	2	143	1	0	0	0	0	1	0	0	0	12767	962	34	4	1541	4	PTK7	6	43107148	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		43107148	128007919	21	7962											
DFNA5	1687	hgsc.bcm.edu;ucsc.edu	37	chr7	24756899	24756899	+	Frame_Shift_Del	DEL	A	A	-																															ggccgtccagtttcacgtatAactcaatgacaccgtaggca																								novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		-	24756899	A	-	24756899	7	5	143	1	0	1	0	1	0	0	0	0	4454	372	13	0	843	0	DFNA5	7	24756899	Frame_Shift_Del	DEL	A	TCGA-B0-5402-01A-01D-1501-10		24756899	134381764	22	7963											
STEAP1	26872	broad.mit.edu	37	chr7	89791288	89791288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggagaatggagatttatGtgtctctgggaattgtggga	9	15	15	2	0	1	2	0	0	1	2	2	6	1	4	0	4	0	0	0	4	3	4	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	89791288	T	T	89791288	3	4	143	1	0	0	0	0	1	0	0	0	15278	1377	48	4	668	4	STEAP1	7	89791288	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	65034389	89791288	69347375	23	7964											
ZNF467	168544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	149468119	149468119	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agggcctccaaggtctctctCatggtaacccagagtagctc	9	9	10	13	0	2	1	1	0	2	1	6	1	3	1	3	3	2	3	3	3	3	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	149468119	C	G	149468119	3	3	143	1	0	0	0	0	1	0	0	0	17926	826	29	4	1800	4	ZNF467	7	149468119	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	59676831	149468119	9670544	24	7965											
GALNTL5	168391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151684265	151684265	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttgaaagaaaaactagActatcacctggaaacttttc	16	12	6	7	0	1	4	1	2	0	2	2	5	1	5	1	1	2	0	1	1	6	5	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	151684265	A	C	151684265	3	2	143	1	0	0	0	0	1	0	0	0	6224	275	10	5	571	5	GALNTL5	7	151684265	Missense_Mutation	SNP	A	TCGA-B0-5402-01A-01D-1501-10	2216146	151684265	7454398	25	7966											
MAK16	84549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	33354168	33354168	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgacatctacaacttccccaTtcatgccttcgacaaagccc	11	9	4	17	2	2	0	1	0	1	0	4	2	3	0	4	0	4	0	4	0	3	4	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	33354168	T	C	33354168	3	2	143	1	0	0	0	0	1	0	0	0	9198	1493	52	3	578	3	MAK16	8	33354168	Missense_Mutation	SNP	T	TCGA-B0-5402-01A-01D-1501-10		33354168	113009854	26	7967											
COL22A1	169044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	139845296	139845296	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcactcagtactttgcacCacagggaaggatcccatccg	11	8	8	14	1	2	0	2	0	0	0	4	2	4	2	3	2	2	2	3	2	2	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	139845296	C	T	139845296	2	4	143	1	0	0	0	0	0	0	0	1	3681	581	21	2		2	COL22A1	8	139845296	Silent	SNP	C	TCGA-B0-5402-01A-01D-1501-10	106491128	139845296	6518726	27	7968											
GALT	2592	broad.mit.edu;ucsc.edu	37	chr9	34648884	34648884	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagctgacccctgctgaGcgtgatggtcagtctcccaa	7	9	11	14	1	2	4	1	4	1	0	3	4	2	4	4	1	3	2	4	1	1	0	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	34648884	T	T	34648884	3	4	143	1	0	0	0	0	1	0	0	0	6230	962	34	4	843	4	GALT	9	34648884	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		34648884	106564547	28	7969											
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101818627	101818627	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctggctttggaagacctgGtgatcctgggccaccggggc	6	8	15	12	1	0	2	0	1	0	1	1	3	1	3	5	6	0	1	5	6	1	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	101818627	G	T	101818627	3	4	143	1	0	0	0	0	1	0	0	0	3672	1261	44	4	3416	4	COL15A1	9	101818627	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	67169743	101818627	39394804	29	7970											
OR5M8	219484	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56258051	56258051	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttaccctgttcaacagAttcctttgaggggggtctga	8	14	10	9	0	2	3	1	2	1	1	3	3	3	3	2	3	2	1	2	3	2	5	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	56258051	A	C	56258051	3	2	143	1	0	0	0	0	1	0	0	0	11176	333	12	5	143	5	OR5M8	11	56258051	Missense_Mutation	SNP	A	TCGA-B0-5402-01A-01D-1501-10		56258051	78748465	30	7971											
CCDC81	60494	broad.mit.edu;ucsc.edu	37	chr11	86097128	86097128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggaatgtatcagaatttGtgagacggcagttaaccctg	11	10	14	6	1	1	2	1	1	0	2	1	4	1	3	1	3	1	3	1	3	4	3	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	86097128	A	A	86097128	3	1	143	1	0	0	0	0	1	0	0	0	2855	1377	48	2	121	2	CCDC81	11	86097128	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	29839077	86097128	48909388	31	7972											
CEP164	22897	broad.mit.edu	37	chr11	117280564	117280564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttctcagccttatcatctGctacacccacgtccacccaa	9	10	5	17	1	3	0	2	0	2	0	5	0	4	0	4	1	3	2	4	1	3	3	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	117280564	A	A	117280564	3	1	143	1	0	0	0	0	1	0	0	0	3249	1319	46	2	4089	2	CEP164	11	117280564	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	31183436	117280564	17725952	32	7973											
OR10G7	390265	broad.mit.edu;hgsc.bcm.edu	37	chr11	123909221	123909221	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacagtagggcaaatggAaagtcaatatggtctggaca	14	8	12	7	0	2	0	1	0	1	0	3	2	3	2	1	4	0	2	1	4	5	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	123909221	A	T	123909221	3	4	143	1	0	0	0	0	1	0	0	0	10902	246	9	5	451	5	OR10G7	11	123909221	Missense_Mutation	SNP	A	TCGA-B0-5402-01A-01D-1501-10	6628657	123909221	11097295	33	7974											
C11orf45	219833	broad.mit.edu;ucsc.edu	37	chr11	128772493	128772493	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggctgatgggcactgagggGgtagcccaggcggccctctc	6	6	17	12	1	1	2	0	2	1	0	2	2	1	2	2	6	1	3	2	6	1	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	128772493	T	T	128772493	3	4	143	1	0	0	0	0	1	0	0	0	1642	1232	43	4	44	4	C11orf45	11	128772493	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	4863272	128772493	6234023	34	7975											
USP5	8078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6969582	6969582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaggccctcatcggcaaggGccaccctgaattctccacca	10	6	8	17	1	2	1	1	1	1	0	4	1	2	1	5	3	0	1	5	3	3	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	6969582	G	A	6969582	3	1	143	1	0	0	0	0	1	0	0	0	17080	1203	42	2	1313	2	USP5	12	6969582	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		6969582	126882313	35	7976											
PDE3A	5139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	20792854	20792854	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attagggaatttatgaattaTtttcatgctttggagattgg	11	18	10	2	0	1	2	1	1	0	1	1	4	1	3	0	3	1	1	0	3	5	8	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	20792854	T	A	20792854	4	1	143	1	0	0	0	0	0	1	0	0	11637	1500	52	5	2252	5	PDE3A	12	20792854	Nonsense_Mutation	SNP	T	TCGA-B0-5402-01A-01D-1501-10	13823272	20792854	113059041	36	7977											
PDE1B	5153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54970410	54970410	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagaccccaaccctgatGtggtcagctttcgttccacc	7	10	10	14	1	1	2	1	1	0	1	3	3	2	2	5	2	2	2	5	2	1	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	54970410	G	A	54970410	3	1	143	1	0	0	0	0	1	0	0	0	11634	1377	48	2	1539	2	PDE1B	12	54970410	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	34177556	54970410	78881485	37	7978											
TIMELESS	8914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56816773	56816773	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatttggcaaaagtcactaGctcctgtaggagaaggaggt	12	10	13	6	0	1	1	1	0	0	1	2	3	2	2	1	4	1	4	1	4	6	4	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	56816773	G	C	56816773	3	2	143	1	0	0	0	0	1	0	0	0	15903	962	34	4	1374	4	TIMELESS	12	56816773	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	1846363	56816773	77035122	38	7979											
ALDH2	217	hgsc.bcm.edu	37	chr12	112229167	112229168	+	Frame_Shift_Ins	INS	-	-	C																															atttggccccacggctggggINSccgccattgcctcccatgag																								novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		C	112229168	-	C	112229167	7	5	143	1	0	1	1	0	0	0	0	0	496	1203	42	0	765	0	ALDH2	12	112229167	Frame_Shift_Ins	INS	-	TCGA-B0-5402-01A-01D-1501-10	55412394	112229167	21622728	39	7980											
RSRC2	65117	hgsc.bcm.edu	37	chr12	123005002	123005002	+	RNA	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattaaaacccttaactgAtttaagatatatttaaggga	18	13	5	5	0	0	2	0	1	0	1	0	3	0	3	1	1	3	0	1	1	8	8	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	123005002	A	T	123005002	1	4	143	0	1	0	0	0	0	0	0	0	13717	348	12	5		5	RSRC2	12	123005002	RNA	SNP	A	TCGA-B0-5402-01A-01D-1501-10	10775835	123005002	10846893	40	7981											
GOLGA3	2802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133359043	133359043	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtttgactcctcaaggcGttttatcttcttcctaaagc	7	17	6	11	1	3	1	1	1	2	0	5	1	5	1	2	1	1	2	2	1	4	7	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	133359043	G	A	133359043	3	1	143	1	0	0	0	0	1	0	0	0	6554	1145	40	1	1224	1	GOLGA3	12	133359043	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	10354041	133359043	492852	41	7982											
IFT88	8100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	21205163	21205163	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatttctaggctgtagaGatcttaaaagtgttggaaaa	13	14	9	5	0	2	1	0	0	2	1	3	3	3	2	1	2	0	3	1	2	6	6	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	21205163	G	T	21205163	3	4	143	1	0	0	0	0	1	0	0	0	7566	933	33	4	1397	4	IFT88	13	21205163	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		21205163	93964715	42	7983											
LRCH1	23143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	47303069	47303069	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctgccatctggtcaacCacatccgcccacggtcggtt	6	10	8	17	3	3	0	1	0	2	0	6	0	5	0	5	3	2	1	5	3	1	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	47303069	C	T	47303069	3	4	143	1	0	0	0	0	1	0	0	0	8932	594	21	2	2027	2	LRCH1	13	47303069	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	26097906	47303069	67866809	43	7984											
RPL3L	6123	broad.mit.edu;ucsc.edu	37	chr16	1997038	1997038	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcgccaatgcaggccacCttgcgcaggcccttatgggt	7	7	13	14	2	0	0	0	0	0	0	0	0	0	0	4	4	2	2	4	4	2	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		A	1997038	A	A	1997038	3	1	143	1	0	0	0	0	1	0	0	0	13596	680	24	4	493	4	RPL3L	16	1997038	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10		1997038	88357715	44	7985											
HSF4	3299	broad.mit.edu	37	chr16	67200251	67200251	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agatcttgtggcgggaggtgGtgacacttcggcagagccac	8	8	16	9	2	1	3	0	1	1	2	2	4	1	4	1	5	1	1	1	5	0	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	67200251	T	T	67200251	3	4	143	1	0	0	0	0	1	0	0	0	7398	1261	44	4	532	4	HSF4	16	67200251	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10	65203213	67200251	23154502	45	7986											
KLHL10	317719	broad.mit.edu;hgsc.bcm.edu	37	chr17	40001990	40001990	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcgccacaacactttatGggaaggtaaaggaccagggt	14	6	12	9	1	0	0	0	0	0	0	0	2	0	2	2	4	2	1	2	4	6	3	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	40001990	G	T	40001990	3	4	143	1	0	0	0	0	1	0	0	0	8366	1348	47	4	1307	4	KLHL10	17	40001990	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		40001990	41193220	46	7987											
ARHGAP28	79822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6859884	6859884	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggagttttgcggttcccagGagtgactctgtggtaagtca	7	12	15	7	1	2	1	1	1	1	0	3	3	3	3	1	4	1	3	1	4	1	4	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	6859884	G	T	6859884	3	4	143	1	0	0	0	0	1	0	0	0	877	1165	41	4	247	4	ARHGAP28	18	6859884	Missense_Mutation	SNP	G	TCGA-B0-5402-01A-01D-1501-10		6859884	71217364	47	7988											
C19orf39	0	hgsc.bcm.edu;ucsc.edu	37	chr19	11486464	11486464	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtagtggggacgtcctgcaCctggcactgctccagcggta	6	8	15	12	2	0	0	0	0	0	0	2	1	2	1	3	5	3	5	3	5	2	2	rs11542550	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	11486464	C	G	11486464	3	3	143	1	0	0	0	0	1	0	0	0	1922	506	18	4	468	4	C19orf39	19	11486464	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10		11486464	47642519	48	7989											
PEPD	5184	broad.mit.edu	37	chr19	33878351	33878351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtcagcagctctatgcCgctgtcagtcaccacgacgt	8	8	11	14	3	4	0	3	0	1	0	4	1	4	0	2	1	3	4	2	1	1	1	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	33878351	T	T	33878351	3	4	143	1	0	0	0	0	1	0	0	0	11728	652	23	1	104	1	PEPD	19	33878351	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10	22391887	33878351	25250632	49	7990											
RYR1	6261	broad.mit.edu	37	chr19	38976694	38976695	+	Frame_Shift_Ins	INS	-	G	G																															gccccggcccgcctcagcccINStgccatcccgctggaggccc																								novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	38976695	G	G	38976694	7	5	143	1	0	1	1	0	0	0	0	0	13770	681	24	0	5533	0	RYR1	19	38976694	Frame_Shift_Ins	INS	-	TCGA-B0-5402-01A-01D-1501-10	5098343	38976694	20152289	50	7991											
TGM6	343641	broad.mit.edu;ucsc.edu	37	chr20	2398051	2398051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaagttcaaggtgctagagCctcccatgctgggccacgac	9	7	12	13	1	1	1	1	0	0	1	2	2	2	1	3	2	3	4	3	2	3	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	2398051	T	T	2398051	3	4	143	1	0	0	0	0	1	0	0	0	15833	739	26	2	1548	2	TGM6	20	2398051	Missense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10		2398051	60627469	51	7992											
C20orf118	140711	broad.mit.edu;ucsc.edu	37	chr20	35507457	35507457	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagctcagctttcactTcccaccaagagtcaccggcc	8	8	6	19	1	3	1	3	0	0	1	5	1	5	1	6	1	2	2	6	1	1	2	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	35507457	G	G	35507457	3	3	143	1	0	0	0	0	1	0	0	0	2084	1783	62	5	213	5	C20orf118	20	35507457	Missense_Mutation	SNP	T	TCGA-B0-5402-01A-01D-1501-10	33109406	35507457	27518063	52	7993											
NDUFV3	4731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	44323941	44323941	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgcagaaaacatttagAttaaatgaaatagataaaga	22	10	6	3	0	0	5	0	1	0	4	0	5	0	5	0	0	2	1	0	0	10	6	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		G	44323941	A	G	44323941	2	3	143	1	0	0	0	0	0	0	0	1	10301	330	12	3		3	NDUFV3	21	44323941	Silent	SNP	A	TCGA-B0-5402-01A-01D-1501-10		44323941	3805954	53	7994											
ATP1B4	23439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	119500536	119500536	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaggaggaggaagagggtCaaggtcagccaacaggcaat	17	3	15	6	0	2	1	2	0	0	1	2	4	2	4	1	6	2	1	1	6	6	0	novel		TCGA-B0-5402-01A-01D-1501-10	TCGA-B0-5402-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca62bea0-a008-481e-8a91-d0f3a9598255	6e644c17-dc2b-4e7d-a73d-4d4d14695390		T	119500536	C	T	119500536	4	4	143	1	0	0	0	0	0	1	0	0	1135	827	29	2	226	2	ATP1B4	23	119500536	Nonsense_Mutation	SNP	C	TCGA-B0-5402-01A-01D-1501-10		119500536	35770024	54	7995											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11177077	11177077	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacctatctcccaggcctaAaatatacccaaccattgaca	14	9	3	15	0	2	1	1	1	1	0	3	1	2	1	5	1	2	0	5	1	6	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	11177077	A	C	11177077	3	2	144	1	0	0	0	0	1	0	0	0	9954	11	1	5	685	5	MTOR	1	11177077	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10		11177077	238073544	1	7996											
NFIA	4774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	61743222	61743222	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgaaagtcccagccagcCaagtgacgctgacattaagg	13	7	10	11	1	1	3	0	3	1	0	2	3	2	3	3	1	2	1	3	1	3	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	61743222	C	T	61743222	3	4	144	1	0	0	0	0	1	0	0	0	10370	594	21	2	746	2	NFIA	1	61743222	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	50566145	61743222	187507399	2	7997											
WDR78	79819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67358977	67358977	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctataggaagatataaaTtctgatccaagtgatccttc	14	12	8	7	0	1	3	0	2	1	1	4	4	3	4	2	2	0	1	2	2	7	6	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	67358977	T	G	67358977	3	3	144	1	0	0	0	0	1	0	0	0	17327	1490	52	5	2198	5	WDR78	1	67358977	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	5615755	67358977	181891644	3	7998											
RBM8A	9939	broad.mit.edu;hgsc.bcm.edu	37	chr1	145509177	145509177	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccctagaggtggccgaaGacgcagcagaagtccagacc	11	6	12	12	2	0	4	0	0	0	4	2	5	2	4	4	2	1	2	4	2	3	2	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	145509177	G	T	145509177	3	4	144	1	0	0	0	0	1	0	0	0	13148	942	33	4	513	4	RBM8A	1	145509177	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	78150200	145509177	103741444	4	7999											
FCRL5	83416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157497598	157497598	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattgggggagagcctctcGgggcctcacagtgaagctcc	7	7	16	11	1	2	2	1	1	1	1	4	4	3	3	3	5	2	1	3	5	1	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	157497598	G	A	157497598	3	1	144	1	0	0	0	0	1	0	0	0	5798	1116	39	1	1200	1	FCRL5	1	157497598	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	11988421	157497598	91753023	5	8000											
RBM34	23029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235295228	235295228	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttgtttaaatttttcttTattaacagaacgcatgactc	11	19	5	6	1	1	2	0	1	1	1	2	2	1	2	0	0	2	3	0	0	5	9	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	235295228	T	G	235295228	3	3	144	1	0	0	0	0	1	0	0	0	13133	1763	61	5	203	5	RBM34	1	235295228	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	77797630	235295228	13955393	6	8001											
ROCK2	9475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11348011	11348011	+	Missense_Mutation	SNP	T	T	A																															agcgcttctgagtttcttgcTctatttttaatgtcaggttt																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	11348011	T	A	11348011	3	1	144	1	0	0	0	0	1	0	0	0	13520	1551	54	5	1832	5	ROCK2	2	11348011	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10		11348011	231851362	7	8002	109	2									
ROCK2	9475	broad.mit.edu;ucsc.edu	37	chr2	11348012	11348012	+	Missense_Mutation	SNP	C	T	T																															gcgcttctgagtttcttgctCtatttttaatgtcaggtttc																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	11348012	T	T	11348012	3	4	144	1	0	0	0	0	1	0	0	0	13520	922	32	2	1833	2	ROCK2	2	11348012	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	1	11348012	231851361	8	8003	109	2									
LTBP1	4052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	33534615	33534615	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagctagatgacaataaaaCatgtcaaggtatttcttgct	14	13	7	7	0	3	2	2	1	1	1	3	2	3	2	0	1	3	3	0	1	6	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	33534615	C	G	33534615	3	3	144	1	0	0	0	0	1	0	0	0	9073	478	17	4	3741	4	LTBP1	2	33534615	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	22186603	33534615	209664758	9	8004											
DNAH6	1768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84912547	84912547	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttccatgatcgcttgatTaataatgaagataagcacta	14	13	7	7	1	1	4	0	3	1	1	3	4	2	4	1	0	1	2	1	0	5	6	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	84912547	T	C	84912547	2	2	144	1	0	0	0	0	0	0	0	1	4605	1742	61	3		3	DNAH6	2	84912547	Silent	SNP	T	TCGA-B0-5691-01A-11D-1534-10	51377932	84912547	158286826	10	8005											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191499	10191499	+	Frame_Shift_Del	DEL	G	G	-																															ctgaaagagcgatgcctccaGgttgtccggagcctagtcaa																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		-	10191499	G	-	10191499	7	5	144	1	0	1	0	1	0	0	0	0	17161	991	35	0	502	0	VHL	3	10191499	Frame_Shift_Del	DEL	G	TCGA-B0-5691-01A-11D-1534-10		10191499	187830931	11	8006											
BOC	91653	broad.mit.edu;ucsc.edu	37	chr3	112969550	112969550	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggctcggatgatgctctGggtgtcctcatcacccacgg	7	10	12	12	2	3	1	2	1	1	0	5	2	4	2	2	4	1	2	2	4	1	0	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	112969550	T	T	112969550	2	4	144	1	0	0	0	0	0	0	0	1	1481	1335	47	4		4	BOC	3	112969550	Silent	SNP	G	TCGA-B0-5691-01A-11D-1534-10	102778051	112969550	85052880	12	8007											
CDV3	55573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	133302937	133302937	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggaggtatggaaaaaTcttcaggtccctggaataaa	13	10	13	5	0	2	0	1	0	1	0	3	3	3	3	1	6	0	1	1	6	6	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	133302937	T	C	133302937	3	2	144	1	0	0	0	0	1	0	0	0	3181	1435	50	3	419	3	CDV3	3	133302937	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	20333387	133302937	64719493	13	8008											
LRRTM2	26045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138209538	138209538	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttgctgattttgttccAttgtaagaagagcgtgtgca	10	14	11	6	1	0	3	0	1	0	2	1	3	1	3	1	0	3	5	1	0	3	6	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	138209538	A	C	138209538	3	2	144	1	0	0	0	0	1	0	0	0	9040	217	8	5	842	5	LRRTM2	5	138209538	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10		138209538	42705722	14	8009											
GALNT10	55568	broad.mit.edu;ucsc.edu	37	chr5	153709212	153709212	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgagggctggtcctcccTcctccgcaccgtccacagtg	6	7	10	18	3	0	0	0	0	0	0	5	1	5	0	6	2	1	2	6	2	1	0	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	153709212	C	C	153709212	3	2	144	1	0	0	0	0	1	0	0	0	6208	1551	54	3	496	3	GALNT10	5	153709212	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	15499674	153709212	27206048	15	8010											
SERPINB1	1992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	2836102	2836102	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccataccttcttcaggccCgtggactcgtcctcaatgtc	7	11	8	15	2	3	0	2	0	1	0	6	1	4	1	4	2	2	0	4	2	2	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	2836102	C	T	2836102	2	4	144	1	0	0	0	0	0	0	0	1	14098	639	23	1		1	SERPINB1	6	2836102	Silent	SNP	C	TCGA-B0-5691-01A-11D-1534-10		2836102	168278965	16	8011											
OR2J2	26707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	29141782	29141782	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgatgtcatatgatcgtTatgtagctgtgtgtagacct	8	16	12	5	1	1	3	1	2	0	1	2	3	1	3	1	1	1	4	1	1	4	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	29141782	T	C	29141782	3	2	144	1	0	0	0	0	1	0	0	0	11003	1754	61	3	372	3	OR2J2	6	29141782	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	26305680	29141782	141973285	17	8012											
CUL7	9820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43019452	43019452	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtcaaaatccaggtgtttCtcaatggcttcttgttggct	7	16	9	9	0	3	0	2	0	2	0	5	0	4	0	1	3	0	4	1	3	3	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	43019452	C	G	43019452	3	3	144	1	0	0	0	0	1	0	0	0	4060	912	32	4	4562	4	CUL7	6	43019452	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	13877670	43019452	128095615	18	8013											
MLLT4	4301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	168344647	168344647	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaactcatgacaagaacaaGctctgtggtgacactggaag	15	7	11	8	0	2	4	1	2	1	2	2	5	2	5	0	2	3	1	0	2	5	0	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	168344647	G	T	168344647	3	4	144	1	0	0	0	0	1	0	0	0	9629	971	34	4	3343	4	MLLT4	6	168344647	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	125325195	168344647	2770420	19	8014											
CUX1	1523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	101926034	101926034	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggcatggagcgagagcAtggagagggactgtgccacc	10	5	17	9	1	0	2	0	0	0	2	0	6	0	4	2	4	4	3	2	4	0	0	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	101926034	A	T	101926034	3	4	144	1	0	0	0	0	1	0	0	0	4064	217	8	5	5389	5	CUX1	7	101926034	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10		101926034	57212629	20	8015											
C7orf58	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	120782148	120782148	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatctatagagaagaccgcCcaagtctgcccttgtttgag	10	10	9	12	1	2	3	0	1	2	2	2	4	2	3	4	0	1	1	4	0	4	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	120782148	C	T	120782148	3	4	144	1	0	0	0	0	1	0	0	0	2405	623	22	2	2066	2	C7orf58	7	120782148	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	18856114	120782148	38356515	21	8016											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	86037088	86037088	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtaagctcatctttagcaAactgtcctatgttacaagaa	14	13	6	8	0	2	1	1	0	1	1	3	1	3	1	1	0	4	4	1	0	7	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	86037088	A	C	86037088	3	2	144	1	0	0	0	0	1	0	0	0	9026	14	1	5	1216	5	LRRCC1	8	86037088	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10		86037088	60326934	22	8017											
C9orf85	138241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	74526670	74526670	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgagctcccagaaaggcaAcgtggctcgttccagacctc	10	7	11	13	2	0	3	0	1	0	2	4	4	2	3	3	2	2	4	3	2	2	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	74526670	A	T	74526670	3	4	144	1	0	0	0	0	1	0	0	0	2501	43	2	5	22	5	C9orf85	9	74526670	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10		74526670	66686761	23	8018											
POMT1	10585	broad.mit.edu;ucsc.edu	37	chr9	134379711	134379711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggctgtggcgactcaccTacccgcgggctgtggtgtaa	5	8	15	13	4	1	0	1	0	0	0	1	1	1	0	3	4	1	3	3	4	2	2	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	134379711	C	C	134379711	3	2	144	1	0	0	0	0	1	0	0	0	12245	1522	53	3	108	3	POMT1	9	134379711	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	59853041	134379711	6833720	24	8019											
SETX	23064	hgsc.bcm.edu;ucsc.edu	37	chr9	135202188	135202190	+	In_Frame_Del	DEL	AAA	AAA	-																															cgtgaagtactctttgagctAaaaatcttagtggtaggtct																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	AAA	AAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		-	135202190	AAA	-	135202188	7	5	144	1	0	1	0	1	0	0	0	0	14143	359	13	0	3304	0	SETX	9	135202188	In_Frame_Del	DEL	AAA	TCGA-B0-5691-01A-11D-1534-10	822477	135202188	6011243	25	8020											
ARMC4	55130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	28229610	28229610	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcggatggcttctttattcGtatgactcttactgcagctc	6	16	9	10	2	2	1	0	1	2	0	4	2	2	2	0	2	4	4	0	2	3	6	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	28229610	G	A	28229610	3	1	144	1	0	0	0	0	1	0	0	0	953	1145	40	1	1298	1	ARMC4	10	28229610	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10		28229610	107305137	26	8021											
OPN4	94233	broad.mit.edu;hgsc.bcm.edu	37	chr10	88422065	88422065	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgggtgtatcacgccGgcacagtcgcccctacccca	6	7	11	17	3	1	0	1	0	0	0	2	0	1	0	5	2	2	4	5	2	2	2	rs142050572		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	88422065	G	A	88422065	3	1	144	1	0	0	0	0	1	0	0	0	10882	1116	39	1	1197	1	OPN4	10	88422065	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	60192455	88422065	47112682	27	8022											
IPO7	10527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	9459375	9459375	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtgaacttcgaactatGtgtctgcaagttgcaattgc	12	12	9	8	1	1	1	0	1	1	0	2	2	1	1	0	0	5	3	0	0	6	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	9459375	G	A	9459375	3	1	144	1	0	0	0	0	1	0	0	0	7797	1377	48	2	2425	2	IPO7	11	9459375	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10		9459375	125547141	28	8023											
OR10G4	390264	broad.mit.edu;hgsc.bcm.edu	37	chr11	123887117	123887117	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttctacactgtgctgaCgccccttctcaaccctgttg	6	14	6	15	1	2	1	1	1	2	0	3	1	2	1	3	0	3	2	3	0	2	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	123887117	C	T	123887117	3	4	144	1	0	0	0	0	1	0	0	0	10901	536	19	1	838	1	OR10G4	11	123887117	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	114427742	123887117	11119399	29	8024											
A2ML1	144568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9008181	9008181	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaccaaggcttatgttacGgttctgggtaagcagttaga	10	12	12	7	2	1	1	0	0	1	1	2	2	1	1	1	3	2	6	1	3	5	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	9008181	G	A	9008181	2	1	144	1	0	0	0	0	0	0	0	1	5	1103	39	1		1	A2ML1	12	9008181	Silent	SNP	G	TCGA-B0-5691-01A-11D-1534-10		9008181	124843714	30	8025											
PRB4	5545	broad.mit.edu;hgsc.bcm.edu	37	chr12	11461568	11461568	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtctttctggctttcctgGaggaggtggggtaccttggg	3	14	17	7	0	2	0	0	0	2	0	3	2	3	2	2	8	1	2	2	8	1	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	11461568	G	T	11461568	3	4	144	1	0	0	0	0	1	0	0	0	12447	1174	41	4	398	4	PRB4	12	11461568	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	2453387	11461568	122390327	31	8026											
C12orf11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27081163	27081163	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatttgcagcaagcttgtTatgttcatgaatcgtttcct	9	17	8	7	1	1	2	1	2	0	0	3	2	2	2	1	0	3	6	1	0	4	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	27081163	T	C	27081163	3	2	144	1	0	0	0	0	1	0	0	0	1675	1754	61	3	1613	3	C12orf11	12	27081163	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	15619595	27081163	106770732	32	8027											
C12orf35	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32134198	32134198	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgttaatggacccaaacaActaactcacaatttgcagat	17	10	5	9	0	1	1	1	0	0	1	1	2	1	2	1	1	4	2	1	1	6	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	32134198	A	C	32134198	3	2	144	1	0	0	0	0	1	0	0	0	1682	40	2	5	311	5	C12orf35	12	32134198	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10	5053035	32134198	101717697	33	8028											
LMO7	4008	hgsc.bcm.edu;ucsc.edu	37	chr13	76381790	76381791	+	Frame_Shift_Ins	INS	-	-	T																															tggcagccctggatcctgacINSttagagaatgatgatttctt																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	76381791	-	T	76381790	7	5	144	1	0	1	1	0	0	0	0	0	8855	564	20	0	1569	0	LMO7	13	76381790	Frame_Shift_Ins	INS	-	TCGA-B0-5691-01A-11D-1534-10		76381790	38788088	34	8029											
CARS2	79587	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	111340142	111340142	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttatctgaggaatattttcgGttaccctcaggtacaccgtg	9	14	9	9	2	2	1	1	1	1	0	3	2	2	2	2	3	2	2	2	3	5	6	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	111340142	G	T	111340142	3	4	144	1	0	0	0	0	1	0	0	0	2658	1261	44	4	1241	4	CARS2	13	111340142	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	34958352	111340142	3829736	35	8030											
NFATC4	4776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24845299	24845299	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctacccagagtttcaggtTtctgcctggtgcgctctggg	4	13	12	12	1	3	1	1	0	2	1	4	1	4	1	3	3	3	3	3	3	1	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	24845299	T	G	24845299	3	3	144	1	0	0	0	0	1	0	0	0	10365	1841	64	5	2271	5	NFATC4	14	24845299	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10		24845299	82504241	36	8031											
AK7	122481	hgsc.bcm.edu	37	chr14	96949471	96949472	+	Frame_Shift_Ins	INS	-	-	G																															aaggctgcggaggagcggctINSggccagggaggctgctgagg																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	96949472	-	G	96949471	7	5	144	1	0	1	1	0	0	0	0	0	444	1580	55	0	1951	0	AK7	14	96949471	Frame_Shift_Ins	INS	-	TCGA-B0-5691-01A-11D-1534-10	72104172	96949471	10400069	37	8032											
NARG2	79664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	60740179	60740179	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaacttactcttctgattTtcttccgttttttagaacgt	9	19	4	9	2	3	2	0	1	3	1	4	2	4	2	1	0	4	1	1	0	5	8	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	60740179	T	A	60740179	3	1	144	1	0	0	0	0	1	0	0	0	10169	1841	64	5	687	5	NARG2	15	60740179	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10		60740179	41791213	38	8033											
SOLH	6650	broad.mit.edu	37	chr16	603028	603063	+	Splice_Site	DEL	CCACCCCTGCACAGGTGCGCCCCCGCCCCTGCCCCC	-	-																															tgcgtacccaggatagcgtgCcacccctgcacaggtgcgcc																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	CCACCCCTGCACAGGTGCGCCCCCGCCCCTGCCCCC	CCACCCCTGCACAGGTGCGCCCCCGCCCCTGCCCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		-	603063	-	-	603028	8	5	144	1	0	1	0	1	0	0	1	0	14927	739	26	0	3108	0	SOLH	16	603028	Splice_Site	DEL	CCACCCCTGCACAGGTGCGCCCCCGCCCCTGCCCCC	TCGA-B0-5691-01A-11D-1534-10		603028	89751725	39	8034											
MMP2	4313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	55519518	55519518	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttccatgtcactctttagtgGtccgtgtgaagtatgggaac	8	14	11	8	1	2	1	1	1	1	0	4	2	4	2	2	2	1	1	2	2	4	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	55519518	G	A	55519518	3	1	144	1	0	0	0	0	1	0	0	0	9658	1261	44	2	686	2	MMP2	16	55519518	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	54916490	55519518	34835235	40	8035											
ADAMTS18	170692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	77353798	77353798	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtacagacgttccgggCggttgaaagagcgctggtat	8	8	16	9	6	0	3	0	1	0	2	1	3	1	3	1	3	2	5	1	3	3	4	rs149031657	byfrequency;alternate_allele	TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	77353798	C	T	77353798	3	4	144	1	0	0	0	0	1	0	0	0	263	768	27	1	1217	1	ADAMTS18	16	77353798	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	21834280	77353798	13000955	41	8036											
PER1	5187	broad.mit.edu;ucsc.edu	37	chr17	8052099	8052099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctggatcccggtcaggaCctcctctagcaaaggagaga	10	6	12	13	1	2	1	1	0	1	1	4	5	4	4	4	4	1	1	4	4	2	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	8052099	A	A	8052099	3	1	144	1	0	0	0	0	1	0	0	0	11729	507	18	4	3025	4	PER1	17	8052099	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10		8052099	73143111	42	8037											
SMARCE1	6605	hgsc.bcm.edu;ucsc.edu	37	chr17	38793756	38793758	+	In_Frame_Del	DEL	CCT	CCT	-																															gcacctacctttctgctgtaCctcatgtagggcatcagcgg																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		-	38793758	CCT	-	38793756	7	5	144	1	0	1	0	1	0	0	0	0	14782	506	18	0	1038	0	SMARCE1	17	38793756	In_Frame_Del	DEL	CCT	TCGA-B0-5691-01A-11D-1534-10	30741657	38793756	42401454	43	8038											
KRTAP1-1	81851	hgsc.bcm.edu	37	chr17	39197638	39197638	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccacagaagctggtctgAcagcaggccatggtgtcagg	11	7	13	10	0	2	2	1	1	1	1	3	2	3	2	2	4	2	2	2	4	2	0	rs112542604	by1000genomes	TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	39197638	A	G	39197638	2	3	144	1	0	0	0	0	0	0	0	1	8502	273	10	3		3	KRTAP1-1	17	39197638	Silent	SNP	A	TCGA-B0-5691-01A-11D-1534-10	403882	39197638	41997572	44	8039											
KLHL10	317719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40004451	40004451	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctgctgtgtagtaccAgggctggccaatgttgagga	8	10	15	8	0	0	2	0	2	0	0	0	3	0	3	2	3	3	6	2	3	3	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	40004451	A	C	40004451	2	2	144	1	0	0	0	0	0	0	0	1	8366	175	7	5		5	KLHL10	17	40004451	Silent	SNP	A	TCGA-B0-5691-01A-11D-1534-10	806813	40004451	41190759	45	8040											
LAMA3	3909	hgsc.bcm.edu	37	chr18	21353525	21353525	+	Missense_Mutation	SNP	C	C	G																															ttaccgcccttatggggttcCagtggatgcccctgatggct																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	21353525	C	G	21353525	3	3	144	1	0	0	0	0	1	0	0	0	8607	594	21	4	1281	4	LAMA3	18	21353525	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10		21353525	56723723	46	8041	110	2									
LAMA3	3909	hgsc.bcm.edu;ucsc.edu	37	chr18	21353526	21353527	+	Frame_Shift_Ins	INS	-	-	T																															accgcccttatggggttccaINSgtggatgcccctgatggctg																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	21353527	-	T	21353526	7	5	144	1	0	1	1	0	0	0	0	0	8607	175	7	0	1282	0	LAMA3	18	21353526	Frame_Shift_Ins	INS	-	TCGA-B0-5691-01A-11D-1534-10	1	21353526	56723722	47	8042	110	2									
S1PR4	8698	broad.mit.edu	37	chr19	3179916	3179916	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggatgcgggagcccctgTccagcatctccagcgtgcgg	5	8	14	14	4	1	0	0	0	1	0	4	2	2	2	4	3	5	1	4	3	0	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		C	3179916	C	C	3179916	3	2	144	1	0	0	0	0	1	0	0	0	13798	1667	58	3	1128	3	S1PR4	19	3179916	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10		3179916	55949067	48	8043											
GDF15	9518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18497194	18497194	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctacgaggacctgctaacCaggctgcgggccaaccagag	10	4	13	14	3	0	1	0	0	0	1	0	3	0	2	4	3	5	3	4	3	3	2	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	18497194	C	A	18497194	2	1	144	1	0	0	0	0	0	0	0	1	6313	581	21	4		4	GDF15	19	18497194	Silent	SNP	C	TCGA-B0-5691-01A-11D-1534-10	15317278	18497194	40631789	49	8044											
LIG1	3978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	48634399	48634399	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgattcctgctgaagatCttcacctccccgccttccag	6	12	6	17	1	2	3	1	2	1	1	6	3	6	3	7	0	1	1	7	0	1	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	48634399	C	A	48634399	3	1	144	1	0	0	0	0	1	0	0	0	8781	912	32	4	1044	4	LIG1	19	48634399	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	30137205	48634399	10494584	50	8045											
FCGRT	2217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50017370	50017370	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctctttctggaagcttTcaaagctttggggggaaaag	11	11	13	6	0	3	0	1	0	2	0	3	3	3	2	0	4	3	3	0	4	5	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	50017370	T	A	50017370	3	1	144	1	0	0	0	0	1	0	0	0	5786	1783	62	5	311	5	FCGRT	19	50017370	Missense_Mutation	SNP	T	TCGA-B0-5691-01A-11D-1534-10	1382971	50017370	9111613	51	8046											
PRRG2	5639	hgsc.bcm.edu	37	chr19	50093217	50093218	+	In_Frame_Ins	INS	-	-	CCACCC																															gcccaccgacgcccctgcctINSccacccccacccccaccccc																								novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		CCACCC	50093218	-	CCACCC	50093217	7	5	144	1	0	1	1	0	0	0	0	0	12608	1538	54	0	516	0	PRRG2	19	50093217	In_Frame_Ins	INS	-	TCGA-B0-5691-01A-11D-1534-10	75847	50093217	9035766	52	8047											
KIR2DS4	3809	broad.mit.edu;hgsc.bcm.edu	37	chr19	55351066	55351066	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgggccctgccacccaCggagggacctacagatgctt	7	7	11	16	1	1	1	0	0	1	1	1	3	1	3	5	3	3	1	5	3	1	2	rs1130503		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	55351066	C	T	55351066	3	4	144	1	0	0	0	0	1	0	0	0	8319	536	19	1	568	1	KIR2DS4	19	55351066	Missense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	5257849	55351066	3777917	53	8048											
ZSCAN18	65982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58597544	58597544	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attcaacccaacctcacctgGgaggctgcttccttgtggat	8	11	9	13	0	2	0	2	0	0	0	3	2	3	2	4	3	3	2	4	3	2	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	58597544	G	T	58597544	3	4	144	1	0	0	0	0	1	0	0	0	18229	1232	43	4	705	4	ZSCAN18	19	58597544	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	3246478	58597544	531439	54	8049											
MKKS	8195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	10393381	10393381	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaaccccataactgaccAccacagttccttctccagtg	12	8	6	15	0	1	2	0	1	1	1	3	3	2	2	6	0	2	1	6	0	2	3	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		G	10393381	A	G	10393381	3	3	144	1	0	0	0	0	1	0	0	0	9600	159	6	3	946	3	MKKS	20	10393381	Missense_Mutation	SNP	A	TCGA-B0-5691-01A-11D-1534-10		10393381	52632139	55	8050											
XRN2	22803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	21321460	21321460	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtaatccgagacaagcAgcctatgaaatgaggatgca	15	6	11	9	1	0	3	0	2	0	1	1	5	1	4	3	1	3	3	3	1	4	2	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	21321460	A	T	21321460	2	4	144	1	0	0	0	0	0	0	0	1	17459	175	7	5		5	XRN2	20	21321460	Silent	SNP	A	TCGA-B0-5691-01A-11D-1534-10	10928079	21321460	41704060	56	8051											
SUN5	140732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31571646	31571646	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaggctgctctctgggcGgggccacagagccatgcact	6	7	16	12	1	1	2	0	1	1	1	2	2	1	2	2	5	3	3	2	5	0	0	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	31571646	G	A	31571646	3	1	144	1	0	0	0	0	1	0	0	0	15393	1116	39	1	49	1	SUN5	20	31571646	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	10250186	31571646	31453874	57	8052											
ZHX3	23051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39832047	39832047	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagagctgacagctgttCatgagatttcttatttttgt	8	19	8	6	0	3	3	2	2	1	2	3	4	3	3	0	0	2	3	0	0	1	6	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	39832047	C	A	39832047	4	1	144	1	0	0	0	0	0	1	0	0	17676	835	29	4	1368	4	ZHX3	20	39832047	Nonsense_Mutation	SNP	C	TCGA-B0-5691-01A-11D-1534-10	8260401	39832047	23193473	58	8053											
CDH4	1002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60511821	60511821	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgctgctgacaacgacccCacggcacccccctatgactc	8	5	8	20	4	0	2	0	2	0	0	1	3	0	2	5	1	2	3	5	1	2	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	60511821	C	T	60511821	2	4	144	1	0	0	0	0	0	0	0	1	3112	581	21	2		2	CDH4	20	60511821	Silent	SNP	C	TCGA-B0-5691-01A-11D-1534-10	20679774	60511821	2513699	59	8054											
CLCN4	1183	hgsc.bcm.edu;ucsc.edu	37	chrX	10180545	10180545	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccccagcatggctgtgggCgcgatagcgggcaggatggt	7	7	17	10	3	0	0	0	0	0	0	1	2	1	1	2	5	2	3	2	5	1	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	10180545	C	T	10180545	2	4	144	1	0	0	0	0	0	0	0	1	3465	755	27	1		1	CLCN4	23	10180545	Silent	SNP	C	TCGA-B0-5691-01A-11D-1534-10		10180545	145090015	60	8055											
FAM47C	442444	broad.mit.edu;hgsc.bcm.edu	37	chrX	37028223	37028223	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcccgatactggagtgtcCcatctctgcccagagcctcc	6	9	8	18	1	1	1	0	0	1	1	5	3	4	2	6	1	3	0	6	1	1	1	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	37028223	C	A	37028223	2	1	144	1	0	0	0	0	0	0	0	1	5571	610	22	4		4	FAM47C	23	37028223	Silent	SNP	C	TCGA-B0-5691-01A-11D-1534-10	26847678	37028223	118242337	61	8056											
LPAR4	2846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	78011222	78011222	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctattactaattgctttttgGaaagatttgcaaagatcatg	13	16	7	5	0	1	2	1	0	0	2	1	3	1	3	0	1	3	2	0	1	5	7	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		T	78011222	G	T	78011222	4	4	144	1	0	0	0	0	0	1	0	0	8907	1175	41	4	858	4	LPAR4	23	78011222	Nonsense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	40982999	78011222	77259338	62	8057											
NDUFA1	4694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	119005937	119005937	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgttgattccaggactGgctactgcgtacatccacag	8	12	10	11	1	0	1	0	1	0	0	2	2	2	2	2	2	4	4	2	2	2	5	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	119005937	G	A	119005937	2	1	144	1	0	0	0	0	0	0	0	1	10259	1335	47	2		2	NDUFA1	23	119005937	Silent	SNP	G	TCGA-B0-5691-01A-11D-1534-10	40994715	119005937	36264623	63	8058											
CCDC160	347475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	133379666	133379666	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatccgcggagagctcaGtgtcatcaagaatgaactga	15	7	11	8	2	3	5	3	2	0	3	4	6	4	5	1	1	2	1	1	1	4	0	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	133379666	G	A	133379666	3	1	144	1	0	0	0	0	1	0	0	0	2792	1029	36	2	838	2	CCDC160	23	133379666	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	14373729	133379666	21890894	64	8059											
BRCC3	79184	broad.mit.edu	37	chrX	154344345	154344345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcacaggtatgagagaatcGaaatcccaatccatattgta	15	10	7	9	1	1	2	1	1	0	1	4	4	3	2	2	1	0	2	2	1	6	4	novel		TCGA-B0-5691-01A-11D-1534-10	TCGA-B0-5691-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac2e1d29-e239-4dab-9d81-77c8d45970eb	732d3bc7-b0c9-4999-9e3a-3f831f437d85		A	154344345	A	A	154344345	3	1	144	1	0	0	0	0	1	0	0	0	1500	1059	37	1	671	1	BRCC3	23	154344345	Missense_Mutation	SNP	G	TCGA-B0-5691-01A-11D-1534-10	20964679	154344345	926215	65	8060											
AADACL4	343066	broad.mit.edu	37	chr1	12726742	12726742	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcagttatataaagggcaTatgatagtaaccctggggcc	13	10	11	7	0	1	1	1	1	0	0	1	1	1	1	2	3	1	3	2	3	7	6	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		C	12726742	C	C	12726742	3	2	145	1	0	0	0	0	1	0	0	0	13	1406	49	3	1234	3	AADACL4	1	12726742	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10		12726742	236523879	1	8061											
ARID1A	8289	hgsc.bcm.edu;ucsc.edu	37	chr1	27057952	27057952	+	Frame_Shift_Del	DEL	C	C	-																															gccagcccccctactcacagCcacaggctcagtctccttac																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	27057952	C	-	27057952	7	5	145	1	0	1	0	1	0	0	0	0	913	739	26	0	1670	0	ARID1A	1	27057952	Frame_Shift_Del	DEL	C	TCGA-B0-5692-01A-11D-1534-10	14331210	27057952	222192669	2	8062											
FAM76A	199870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28081734	28081734	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagacctggctctggactcaCcaggcactgaccactttgtc	8	9	9	15	0	2	2	1	1	1	1	3	3	2	3	3	3	0	2	3	3	0	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	28081734	C	A	28081734	3	1	145	1	0	0	0	0	1	0	0	0	5624	507	18	4	760	4	FAM76A	1	28081734	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	1023782	28081734	221168887	3	8063											
PTP4A2	8073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32377374	32377374	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggtttttaacaggtttaaCcaatcatctactatctgatt	11	18	5	7	0	3	1	1	1	2	0	3	1	3	1	1	2	3	2	1	2	5	9	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	32377374	C	T	32377374	4	4	145	1	0	0	0	0	0	1	0	0	12773	508	18	2	272	2	PTP4A2	1	32377374	Nonsense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	4295640	32377374	216873247	4	8064											
GJB4	127534	broad.mit.edu;hgsc.bcm.edu	37	chr1	35227533	35227533	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcaccggcggcctcggtgCcgggaatgcctacccgatac	7	5	14	15	5	0	0	0	0	0	0	1	2	0	1	5	5	4	1	5	5	3	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	35227533	C	T	35227533	2	4	145	1	0	0	0	0	0	0	0	1	6410	747	26	2		2	GJB4	1	35227533	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10	2850159	35227533	214023088	5	8065											
GRIK3	2899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	37271904	37271904	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgaaggcccacatcttCtcgaaggtggagatcttgga	10	10	11	10	1	4	2	1	1	3	1	5	5	4	3	1	4	0	0	1	4	2	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	37271904	C	A	37271904	3	1	145	1	0	0	0	0	1	0	0	0	6775	912	32	4	656	4	GRIK3	1	37271904	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	2044371	37271904	211978717	6	8066											
RLF	6018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40661376	40661376	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcatgttaccaaggaagggGtgtggaaaaacccagttctt	12	11	11	7	0	2	0	1	0	1	0	2	2	2	2	2	4	2	2	2	4	5	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	40661376	G	A	40661376	3	1	145	1	0	0	0	0	1	0	0	0	13391	1261	44	2	561	2	RLF	1	40661376	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10	3389472	40661376	208589245	7	8067											
COL11A1	1301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	103355037	103355037	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttttgctcctggagatcCttgagttccagggagccctc	5	12	10	14	0	0	2	0	1	0	1	4	4	3	3	5	2	2	2	5	2	0	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	103355037	C	T	103355037	3	4	145	1	0	0	0	0	1	0	0	0	3667	690	24	2	1018	2	COL11A1	1	103355037	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	62693661	103355037	145895584	8	8068											
MNDA	4332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158812131	158812131	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggcgttgcctgtctagAcaaactaatagaacttgcca	13	9	8	11	1	1	2	0	0	1	2	1	2	1	2	3	1	4	1	3	1	6	5	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	158812131	A	G	158812131	3	3	145	1	0	0	0	0	1	0	0	0	9676	275	10	3	190	3	MNDA	1	158812131	Missense_Mutation	SNP	A	TCGA-B0-5692-01A-11D-1534-10	55457094	158812131	90438490	9	8069											
ARHGAP25	9938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	69034592	69034592	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagacgcttttgatgctggGgagcggccctcctttgacag	7	10	14	10	2	0	3	0	2	0	1	1	5	1	4	2	3	2	2	2	3	0	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	69034592	G	A	69034592	2	1	145	1	0	0	0	0	0	0	0	1	874	1219	43	2		2	ARHGAP25	2	69034592	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10		69034592	174164781	10	8070											
RETSAT	54884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	85578126	85578126	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgctgccctcttccataCgcccaatgtaatggattcct	9	12	6	14	1	1	0	0	0	1	0	3	1	3	1	4	1	3	2	4	1	4	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	85578126	C	A	85578126	3	1	145	1	0	0	0	0	1	0	0	0	13240	536	19	4	1494	4	RETSAT	2	85578126	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	16543534	85578126	157621247	11	8071											
ITGB6	3694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160994692	160994692	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtctcctaatacttccagttCcacctcagaccgcagttcct	8	12	5	16	1	2	1	1	0	1	1	6	1	5	1	6	0	1	3	6	0	2	5	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	160994692	C	G	160994692	3	3	145	1	0	0	0	0	1	0	0	0	7899	864	30	4	1268	4	ITGB6	2	160994692	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	75416566	160994692	82204681	12	8072											
MYO1B	4430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	192228923	192228923	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaccggcattgatcaatCagttctagaacgagcattca	13	11	8	9	2	4	3	3	2	1	1	4	4	4	3	1	1	2	3	1	1	3	5	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	192228923	C	A	192228923	4	1	145	1	0	0	0	0	0	1	0	0	10069	838	29	4	991	4	MYO1B	2	192228923	Nonsense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	31234231	192228923	50970450	13	8073											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191528	10191529	+	Frame_Shift_Ins	INS	-	-	TT																															agcctagtcaagcctgagaaINSttacaggagactggacatcg																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		TT	10191529	-	TT	10191528	7	5	145	1	0	1	1	0	0	0	0	0	17161	101	4	0	531	0	VHL	3	10191528	Frame_Shift_Ins	INS	-	TCGA-B0-5692-01A-11D-1534-10		10191528	187830902	14	8074											
ZMYND10	51364	broad.mit.edu;hgsc.bcm.edu	37	chr3	50378855	50378855	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccctcatttggctctgtCaccctgggctgccaggacac	6	9	10	16	0	3	0	2	0	1	0	3	1	3	1	3	3	2	2	3	3	0	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	50378855	C	A	50378855	3	1	145	1	0	0	0	0	1	0	0	0	17704	826	29	4	17	4	ZMYND10	3	50378855	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	40187327	50378855	147643575	15	8075											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85674870	85674870	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctctgagtaagggcgaaTattgaaggggaagacggtgg	12	8	16	5	2	1	3	0	2	1	1	2	5	1	4	0	5	0	1	0	5	5	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		C	85674870	T	C	85674870	3	2	145	1	0	0	0	0	1	0	0	0	17269	1406	49	3	4997	3	WDFY3	4	85674870	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10		85674870	105479406	16	8076											
LARP1B	55132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	129128464	129128464	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgaaatattctcaatctAagacacagtctattgaccca	15	13	4	9	0	3	3	1	2	3	1	4	3	3	3	1	0	0	0	1	0	5	6	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	129128464	A	G	129128464	3	3	145	1	0	0	0	0	1	0	0	0	8629	363	13	3	2673	3	LARP1B	4	129128464	Missense_Mutation	SNP	A	TCGA-B0-5692-01A-11D-1534-10	43453594	129128464	62025812	17	8077											
NEK1	4750	hgsc.bcm.edu;ucsc.edu	37	chr4	170321451	170321451	+	Frame_Shift_Del	DEL	T	T	-																															ctgatgttcatttcccaaaaTattttgaactatttttgaac																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	170321451	T	-	170321451	7	5	145	1	0	1	0	1	0	0	0	0	10321	1406	49	0	96	0	NEK1	4	170321451	Frame_Shift_Del	DEL	T	TCGA-B0-5692-01A-11D-1534-10	41192987	170321451	20832825	18	8078											
AMACR	23600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33989521	33989521	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgccttcgtcttctctgCaaatacatctgcaaacttct	8	15	4	14	1	5	0	0	0	5	0	7	0	5	0	1	0	5	2	1	0	3	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	33989521	C	T	33989521	3	4	145	1	0	0	0	0	1	0	0	0	562	710	25	2	384	2	AMACR	5	33989521	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10		33989521	146925739	19	8079											
DAB2	1601	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	39376876	39376876	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagaagaagtctgctcTcccttccgcgcgggcacagc	7	7	11	16	3	2	2	0	0	2	2	5	2	4	2	3	1	2	2	3	1	2	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	39376876	T	A	39376876	2	1	145	1	0	0	0	0	0	0	0	1	4218	1538	54	5		5	DAB2	5	39376876	Silent	SNP	T	TCGA-B0-5692-01A-11D-1534-10	5387355	39376876	141538384	20	8080											
ACSL6	23305	hgsc.bcm.edu;ucsc.edu	37	chr5	131321125	131321125	+	Frame_Shift_Del	DEL	A	A	-																															gtgccgcttgtgaaacacacAatggagaggtcatcaggctg																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	131321125	A	-	131321125	7	5	145	1	0	1	0	1	0	0	0	0	181	126	5	0	1411	0	ACSL6	5	131321125	Frame_Shift_Del	DEL	A	TCGA-B0-5692-01A-11D-1534-10	91944249	131321125	49594135	21	8081											
PSD2	84249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139217290	139217290	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catcacgctctggccaccagGgcctctgactacagcaagaa	11	6	9	15	1	3	2	1	1	2	1	3	2	3	2	3	2	2	2	3	2	3	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	139217290	G	A	139217290	2	1	145	1	0	0	0	0	0	0	0	1	12649	1223	43	2		2	PSD2	5	139217290	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10	7896165	139217290	41697970	22	8082											
C6orf146	0	hgsc.bcm.edu;ucsc.edu	37	chr6	4069047	4069058	+	In_Frame_Del	DEL	CTTTTTGGTCCC	CTTTTTGGTCCC	-																															atattttgtcggtaaagtttCtttttggtcccaaagtttct																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	CTTTTTGGTCCC	CTTTTTGGTCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	4069058	CTTTTTGGTCCC	-	4069047	7	5	145	1	0	1	0	1	0	0	0	0	2335	912	32	0	120	0	C6orf146	6	4069047	In_Frame_Del	DEL	CTTTTTGGTCCC	TCGA-B0-5692-01A-11D-1534-10		4069047	167046020	23	8083											
CAP2	10486	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	17556592	17556592	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttgcctttttccagagAgaatttcccattcctgaaca	9	15	6	11	0	1	3	0	1	1	2	4	4	4	3	4	0	2	1	4	0	2	6	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	17556592	A	G	17556592	2	3	145	1	0	0	0	0	0	0	0	1	2620	301	11	3		3	CAP2	6	17556592	Silent	SNP	A	TCGA-B0-5692-01A-11D-1534-10	13487545	17556592	153558475	24	8084											
SCUBE3	222663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35212548	35212548	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgtccaggaaacacaagCacagactttgatggctctac	12	8	9	12	1	1	2	0	1	1	1	2	3	2	3	1	2	3	3	1	2	3	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	35212548	C	T	35212548	2	4	145	1	0	0	0	0	0	0	0	1	13948	709	25	2		2	SCUBE3	6	35212548	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10	17655956	35212548	135902519	25	8085											
GSTA3	2940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	52764776	52764776	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttttgttttctctttgaTcaaggcaatcttggcatctt	7	20	6	8	0	4	1	1	1	3	0	5	1	4	1	0	2	0	3	0	2	2	7	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	52764776	T	G	52764776	3	3	145	1	0	0	0	0	1	0	0	0	6832	1435	50	5	310	5	GSTA3	6	52764776	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10	17552228	52764776	118350291	26	8086											
TRAF3IP2	10758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	111912795	111912796	+	Frame_Shift_Ins	INS	-	-	T																															ccaaggagtctgctgaggcaINSttaggtaaactttggtctga																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	111912796	-	T	111912795	7	5	145	1	0	1	1	0	0	0	0	0	16440	214	8	0	1234	0	TRAF3IP2	6	111912795	Frame_Shift_Ins	INS	-	TCGA-B0-5692-01A-11D-1534-10	59148019	111912795	59202272	27	8087											
ABCB5	340273	hgsc.bcm.edu;ucsc.edu	37	chr7	20685684	20685684	+	Frame_Shift_Del	DEL	T	T	-																															acttctttatgaatggaaccTatggacttgctttttggtat																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	20685684	T	-	20685684	7	5	145	1	0	1	0	1	0	0	0	0	44	1522	53	0	934	0	ABCB5	7	20685684	Frame_Shift_Del	DEL	T	TCGA-B0-5692-01A-11D-1534-10		20685684	138452979	28	8088	111	2									
ABCB5	340273	hgsc.bcm.edu	37	chr7	20685686	20685686	+	Nonsense_Mutation	SNP	T	T	A																															ttctttatgaatggaacctaTggacttgctttttggtatgg																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	20685686	T	A	20685686	4	1	145	1	0	0	0	0	0	1	0	0	44	1471	51	5	936	5	ABCB5	7	20685686	Nonsense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10	2	20685686	138452977	29	8089	111	2									
CRHR2	1395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	30701795	30701795	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattctcatagtagagcttGccgatggcccaggcgacgat	9	10	11	11	3	2	1	2	0	1	1	3	4	2	1	2	2	2	2	2	2	2	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	30701795	G	T	30701795	2	4	145	1	0	0	0	0	0	0	0	1	3872	1306	46	4		4	CRHR2	7	30701795	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10	10016109	30701795	128436868	30	8090											
SSPO	23145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	149485496	149485496	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatcctgagcccgggtGgcactgccaggtggtggcct	5	7	16	13	1	0	1	0	1	0	0	1	1	1	1	4	5	3	3	4	5	0	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	149485496	G	A	149485496	2	1	145	1	0	0	0	0	0	0	0	1	15190	1357	47	2		2	SSPO	7	149485496	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10	118783701	149485496	9653167	31	8091											
MYOM2	9172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	2005831	2005831	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggctgcgatcccacaccGtctgggagaggatgtctgtg	6	9	15	11	3	2	1	0	0	2	1	3	4	3	2	2	3	2	1	2	3	0	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	2005831	G	A	2005831	3	1	145	1	0	0	0	0	1	0	0	0	10092	1145	40	1	507	1	MYOM2	8	2005831	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10		2005831	144358191	32	8092											
C8orf79	0	hgsc.bcm.edu;ucsc.edu	37	chr8	12870213	12870216	+	Frame_Shift_Del	DEL	CTTA	CTTA	-																															gttgtgggactggaaaatatCttaaagtgaacagccaggta																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	CTTA	CTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	12870216	CTTA	-	12870213	7	5	145	1	0	1	0	1	0	0	0	0	2438	913	32	0	181	0	C8orf79	8	12870213	Frame_Shift_Del	DEL	CTTA	TCGA-B0-5692-01A-11D-1534-10	10864382	12870213	133493809	33	8093											
FGF17	8822	broad.mit.edu;hgsc.bcm.edu	37	chr8	21903771	21903771	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcaccgggcgtcgcatCtccgccaccgccgaggacgg	6	4	14	17	7	2	0	1	0	1	0	4	2	2	1	5	4	0	1	5	4	0	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	21903771	C	A	21903771	2	1	145	1	0	0	0	0	0	0	0	1	5845	903	32	4		4	FGF17	8	21903771	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10	9033558	21903771	124460251	34	8094											
GPR124	25960	broad.mit.edu	37	chr8	37693252	37693252	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgggcctggcaagaggCgtggcgtggccacccccgtc	4	6	16	15	3	0	1	0	0	0	1	1	1	0	1	4	5	1	2	4	5	1	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	37693252	G	G	37693252	3	3	145	1	0	0	0	0	1	0	0	0	6638	768	27	4	2043	4	GPR124	8	37693252	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	15789481	37693252	108670770	35	8095											
RIMS2	9699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	104933998	104933998	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgtcccacagttcttaTcaggacaactttcagtatgt	10	13	9	9	0	3	0	2	0	1	0	4	2	4	2	1	2	1	2	1	2	3	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		C	104933998	T	C	104933998	3	2	145	1	0	0	0	0	1	0	0	0	13370	1435	50	3	2346	3	RIMS2	8	104933998	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10	67240746	104933998	41430024	36	8096											
FOXD4L5	653427	hgsc.bcm.edu	37	chr9	70177922	70177923	+	Frame_Shift_Ins	INS	-	-	C																															gattttaccgtcttccccatINScggagtcccggaggctgcgc																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		C	70177923	-	C	70177922	7	5	145	1	0	1	1	0	0	0	0	0	6002	1435	50	0	1192	0	FOXD4L5	9	70177922	Frame_Shift_Ins	INS	-	TCGA-B0-5692-01A-11D-1534-10		70177922	71035509	37	8097											
RBM17	84991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6143320	6143320	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaccggcaaattgtggaCactccaccgcatgtagcagc	11	7	11	12	2	0	1	0	1	0	0	1	3	1	2	3	2	2	4	3	2	2	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	6143320	C	T	6143320	2	4	145	1	0	0	0	0	0	0	0	1	13121	477	17	2		2	RBM17	10	6143320	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10		6143320	129391427	38	8098											
PTCHD3	374308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27702183	27702183	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctctgcacgtcgtactcagGgtcctcggtcttcaggtagt	5	12	12	12	3	4	0	2	0	2	0	7	0	5	0	1	3	2	4	1	3	2	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	27702183	G	T	27702183	3	4	145	1	0	0	0	0	1	0	0	0	12736	1232	43	4	1322	4	PTCHD3	10	27702183	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10	21558863	27702183	107832564	39	8099											
MARCH5	54708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	94109483	94109483	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaatcctttagcagatcaTgtctctgctactcgaatctt	9	14	6	12	1	3	1	1	0	2	1	6	2	4	1	2	0	3	2	2	0	4	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	94109483	T	G	94109483	3	3	145	1	0	0	0	0	1	0	0	0	9304	1461	51	5	627	5	MARCH5	10	94109483	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10	66407300	94109483	41425264	40	8100											
LDB1	8861	hgsc.bcm.edu;ucsc.edu	37	chr10	103870867	103870868	+	Frame_Shift_Del	DEL	TG	TG	-																															tttgttaagctcaaatattcTgtagtcagtttggttgccat																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	103870868	TG	-	103870867	7	5	145	1	0	1	0	1	0	0	0	0	8695	1588	55	0	1059	0	LDB1	10	103870867	Frame_Shift_Del	DEL	TG	TCGA-B0-5692-01A-11D-1534-10	9761384	103870867	31663880	41	8101											
FIBP	9158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65653801	65653801	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctagctcctcacctggccaaCcggtcagagaggaggaagtg	10	6	13	12	1	2	1	2	0	0	1	3	4	3	3	4	4	2	1	4	4	3	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	65653801	C	T	65653801	2	4	145	1	0	0	0	0	0	0	0	1	5886	494	18	2		2	FIBP	11	65653801	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10		65653801	69352715	42	8102											
SYTL2	54843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	85431940	85431940	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcttctagacttttggaagGcattttcctagcggcactcc	7	14	9	11	1	2	1	0	0	2	1	4	2	4	2	2	3	1	2	2	3	3	7	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	85431940	G	A	85431940	3	1	145	1	0	0	0	0	1	0	0	0	15482	1203	42	2	1378	2	SYTL2	11	85431940	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10	19778139	85431940	49574576	43	8103											
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14019045	14019045	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgacagcaatgccaatgctgGgggggctcttctgagaacga	10	8	14	9	1	2	2	0	2	2	1	2	4	2	2	1	3	4	3	1	3	3	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	14019045	G	A	14019045	3	1	145	1	0	0	0	0	1	0	0	0	6780	1232	43	2	4404	2	GRIN2B	12	14019045	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10		14019045	119832850	44	8104											
ZBTB39	9880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57396861	57396861	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaattcgcttgtgtgggcaAatcttttgccacagaccttg	8	14	10	9	1	1	2	0	1	1	1	2	2	1	2	2	1	1	2	2	1	2	5	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	57396861	A	G	57396861	3	3	145	1	0	0	0	0	1	0	0	0	17539	14	1	3	301	3	ZBTB39	12	57396861	Missense_Mutation	SNP	A	TCGA-B0-5692-01A-11D-1534-10	43377816	57396861	76455034	45	8105											
ZFC3H1	196441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	72026187	72026187	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgaattttcagggcataTtcatattctagcttttgtaa	10	20	6	5	0	3	1	2	1	1	0	3	1	3	1	0	1	1	3	0	1	5	12	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	72026187	T	A	72026187	3	1	145	1	0	0	0	0	1	0	0	0	17632	1490	52	5	3128	5	ZFC3H1	12	72026187	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10	14629326	72026187	61825708	46	8106											
ACTR6	64431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100617614	100617614	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgatatcagagaatgatgAttttgaagatatggtggtaa	15	14	11	1	0	1	6	1	4	0	2	1	7	1	6	0	2	0	1	0	2	5	6	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	100617614	A	G	100617614	3	3	145	1	0	0	0	0	1	0	0	0	216	333	12	3	1154	3	ACTR6	12	100617614	Missense_Mutation	SNP	A	TCGA-B0-5692-01A-11D-1534-10	28591427	100617614	33234281	47	8107											
N4BP2L2	10443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33016602	33016602	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataatggtagctcaagggaaCggtagtcagtgcttgttaag	12	11	13	5	1	2	0	2	0	0	0	2	1	2	1	0	3	3	5	0	3	6	5	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	33016602	C	G	33016602	3	3	145	1	0	0	0	0	1	0	0	0	10112	536	19	4	198	4	N4BP2L2	13	33016602	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10		33016602	82153276	48	8108											
AP1G2	8906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24033327	24033327	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctgcacagcactgtgaTcagactgcaccagtcgaagc	10	6	11	14	2	1	2	1	1	0	1	2	3	1	2	2	0	4	4	2	0	1	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		C	24033327	T	C	24033327	3	2	145	1	0	0	0	0	1	0	0	0	733	1435	50	3	1386	3	AP1G2	14	24033327	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10		24033327	83316213	49	8109											
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75230717	75230717	+	Frame_Shift_Del	DEL	C	C	-																															cagccgccaccctcttactaCcccccgacctcatctcagcc																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	75230717	C	-	75230717	7	5	145	1	0	1	0	1	0	0	0	0	17485	518	18	0	527	0	YLPM1	14	75230717	Frame_Shift_Del	DEL	C	TCGA-B0-5692-01A-11D-1534-10	51197390	75230717	32118823	50	8110											
FAM82A2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41046894	41046894	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccatcgctggctgtaaaGgaggcacaggaatccaaggc	11	8	12	10	1	0	0	0	0	0	0	3	2	2	2	2	5	0	4	2	5	4	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	41046894	G	T	41046894	3	4	145	1	0	0	0	0	1	0	0	0	5631	1000	35	4	1372	4	FAM82A2	15	41046894	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10		41046894	61484498	51	8111											
VPS39	23339	hgsc.bcm.edu	37	chr15	42500325	42500325	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggcagcttttctaggatCggcactggctcgaaagcgtc	9	9	13	10	3	1	1	0	0	1	1	4	3	1	2	0	4	2	4	0	4	2	3	rs149755806	bycluster;by1000genomes	TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	42500325	C	T	42500325	2	4	145	1	0	0	0	0	0	0	0	1	17208	871	31	1		1	VPS39	15	42500325	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10	1453431	42500325	60031067	52	8112											
CEP152	22995	hgsc.bcm.edu;ucsc.edu	37	chr15	49088226	49088228	+	In_Frame_Del	DEL	TTG	TTG	-																															ctctcattagctcctaaaaaTtgttgttgcaggccttcgaa																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	49088228	TTG	-	49088226	7	5	145	1	0	1	0	1	0	0	0	0	3248	1490	52	0	4376	0	CEP152	15	49088226	In_Frame_Del	DEL	TTG	TCGA-B0-5692-01A-11D-1534-10	6587901	49088226	53443166	53	8113											
CCNB2	9133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59415824	59415824	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaaacttaactaaattcAtcgtaagtactactgttttc	15	15	4	7	1	1	1	1	1	0	0	3	1	1	1	0	0	4	3	0	0	8	8	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	59415824	A	T	59415824	3	4	145	1	0	0	0	0	1	0	0	0	2913	217	8	5	1114	5	CCNB2	15	59415824	Missense_Mutation	SNP	A	TCGA-B0-5692-01A-11D-1534-10	10327598	59415824	43115568	54	8114											
ADAMTS7	11173	broad.mit.edu;hgsc.bcm.edu	37	chr15	79059785	79059785	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggttgcaaggggtttcaGtagggggccggggaaggtgt	6	8	22	5	2	1	0	1	0	0	0	1	1	1	1	1	9	1	4	1	9	3	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	79059785	G	A	79059785	3	1	145	1	0	0	0	0	1	0	0	0	271	1029	36	2	2293	2	ADAMTS7	15	79059785	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10	19643961	79059785	23471607	55	8115											
RASGRF1	5923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	79264229	79264229	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgcttggtgctctattttGtaggcagtttgttgaaactg	6	19	11	5	0	1	1	0	1	1	0	1	1	1	1	0	2	3	6	0	2	3	8	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	79264229	G	A	79264229	2	1	145	1	0	0	0	0	0	0	0	1	13074	1372	48	2		2	RASGRF1	15	79264229	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10	204444	79264229	23267163	56	8116											
ANKS3	124401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4776983	4776983	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gttccctcgtagctcacctgGagaagaaagtaggcgatgct	10	9	12	10	2	1	2	1	0	0	2	3	4	2	2	2	2	2	5	2	2	4	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		C	4776983	G	C	4776983	2	2	145	1	0	0	0	0	0	0	0	1	690	1161	41	4		4	ANKS3	16	4776983	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10		4776983	85577770	57	8117											
MKL2	57496	broad.mit.edu;ucsc.edu	37	chr16	14304164	14304164	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaccagggcatcatgccAcgtaagatttataccatcac	12	9	9	11	1	2	1	2	0	0	1	2	2	2	2	3	2	2	2	3	2	3	4	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	14304164	G	G	14304164	2	3	145	1	0	0	0	0	0	0	0	1	9602	173	6	3		3	MKL2	16	14304164	Silent	SNP	A	TCGA-B0-5692-01A-11D-1534-10	9527181	14304164	76050589	58	8118											
CDH1	999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68845698	68845698	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgagctccctgacaaaaAtatgttcaccattaacagga	14	10	6	11	0	1	2	1	2	0	0	3	3	3	3	3	1	2	2	3	1	4	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	68845698	A	G	68845698	3	3	145	1	0	0	0	0	1	0	0	0	3095	101	4	3	970	3	CDH1	16	68845698	Missense_Mutation	SNP	A	TCGA-B0-5692-01A-11D-1534-10	54541534	68845698	21509055	59	8119											
MYH13	8735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10253892	10253892	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcggtgccgtctggctcCgcctgctcctcacgctgctt	1	12	10	18	4	2	0	1	0	1	0	5	0	4	0	5	2	3	4	5	2	0	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	10253892	C	T	10253892	2	4	145	1	0	0	0	0	0	0	0	1	10032	639	23	1		1	MYH13	17	10253892	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10		10253892	70941318	60	8120											
NOS2	4843	broad.mit.edu	37	chr17	26087758	26087758	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagggatcctcggggaggtgGaagccgctggcactgaagag	9	5	19	8	2	0	2	0	1	0	1	2	6	1	5	2	6	1	2	2	6	2	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	26087758	A	A	26087758	2	1	145	1	0	0	0	0	0	0	0	1	10543	1165	41	2		2	NOS2	17	26087758	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10	15833866	26087758	55107452	61	8121											
PIP4K2B	8396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36943164	36943164	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaacaggaacattgctcaGctcattgatctgaaaagcaa	16	8	9	8	0	3	2	2	2	1	0	3	4	3	4	0	2	5	3	0	2	5	2	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	36943164	G	A	36943164	2	1	145	1	0	0	0	0	0	0	0	1	11937	962	34	2		2	PIP4K2B	17	36943164	Silent	SNP	G	TCGA-B0-5692-01A-11D-1534-10	10855406	36943164	44252046	62	8122											
COL1A1	1277	broad.mit.edu;ucsc.edu	37	chr17	48266574	48266574	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctctcctctctgaccAggcaggccgaccacaccacg	7	7	7	20	2	3	1	0	1	3	0	6	2	3	1	6	2	0	1	6	2	0	0	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	48266574	G	G	48266574	2	3	145	1	0	0	0	0	0	0	0	1	3677	175	7	3		3	COL1A1	17	48266574	Silent	SNP	A	TCGA-B0-5692-01A-11D-1534-10	11323410	48266574	32928636	63	8123											
PPP4R1	9989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	9570186	9570186	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatcatcaatgtggggctcTagattttctatcatttcttc	8	17	8	8	0	6	1	3	0	3	1	7	2	6	2	0	3	0	1	0	3	3	6	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	9570186	T	A	9570186	2	1	145	1	0	0	0	0	0	0	0	1	12405	1509	53	5		5	PPP4R1	18	9570186	Silent	SNP	T	TCGA-B0-5692-01A-11D-1534-10		9570186	68507062	64	8124											
FBN3	84467	hgsc.bcm.edu;ucsc.edu	37	chr19	8183824	8183825	+	Frame_Shift_Del	DEL	AC	AC	-																															gtcagctcatgcccagggggAcactggcacttgtagctccc																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	8183825	AC	-	8183824	7	5	145	1	0	1	0	1	0	0	0	0	5704	273	10	0	5291	0	FBN3	19	8183824	Frame_Shift_Del	DEL	AC	TCGA-B0-5692-01A-11D-1534-10		8183824	50945159	65	8125											
ALKBH6	84964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36504305	36504305	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctgctcctccatcaacaCcaactccttgcacccaatcc	9	9	3	20	0	1	0	1	0	0	0	6	0	6	0	7	0	4	2	7	0	3	1	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	36504305	C	T	36504305	3	4	145	1	0	0	0	0	1	0	0	0	531	507	18	2	745	2	ALKBH6	19	36504305	Missense_Mutation	SNP	C	TCGA-B0-5692-01A-11D-1534-10	28320481	36504305	22624678	66	8126											
ZNF8	7554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58805702	58805702	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatcaaggctacaaaactctCagactcagggaaaactgcgt	15	7	9	10	1	3	1	3	0	1	1	4	3	3	2	0	2	4	1	0	2	6	1	rs142117860	alternate_allele	TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	58805702	C	G	58805702	2	3	145	1	0	0	0	0	0	0	0	1	18166	813	29	4		4	ZNF8	19	58805702	Silent	SNP	C	TCGA-B0-5692-01A-11D-1534-10	22301397	58805702	323281	67	8127											
CHODL	140578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	19629058	19629058	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatttctggatagggctttgGaggaatggagatgggcaaac	11	10	16	4	0	1	1	0	0	1	1	1	6	1	4	0	6	1	2	0	6	3	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		A	19629058	G	A	19629058	4	1	145	1	0	0	0	0	0	1	0	0	3364	1183	41	2	318	2	CHODL	21	19629058	Nonsense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10		19629058	28500837	68	8128											
ATF4	468	hgsc.bcm.edu	37	chr22	39917910	39917912	+	In_Frame_Del	DEL	GTG	GTG	-																															gaccacgttggatgacacttGtgatctctttgcccccctag																								novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	GTG	GTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		-	39917912	GTG	-	39917910	7	5	145	1	0	1	0	1	0	0	0	0	1082	1377	48	0	365	0	ATF4	22	39917910	In_Frame_Del	DEL	GTG	TCGA-B0-5692-01A-11D-1534-10		39917910	11386656	69	8129											
SMC1B	27127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45779436	45779436	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccttgtattttaagtcacTtgaccctccagagatcactc	10	13	6	12	0	2	2	2	1	0	1	4	3	3	2	3	0	1	1	3	0	2	5	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		G	45779436	T	G	45779436	3	3	145	1	0	0	0	0	1	0	0	0	14784	1609	56	5	1794	5	SMC1B	22	45779436	Missense_Mutation	SNP	T	TCGA-B0-5692-01A-11D-1534-10	5861526	45779436	5525130	70	8130											
CXorf66	347487	hgsc.bcm.edu;ucsc.edu	37	chrX	139038512	139038512	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagtggcttgaatagctgaGgtggcctgactggcttatct	9	12	13	7	0	1	3	0	3	1	0	1	3	1	3	1	4	1	3	1	4	4	3	novel		TCGA-B0-5692-01A-11D-1534-10	TCGA-B0-5692-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1af40135-8357-40b7-b711-478633a70f97	6758416d-3232-455a-9b9f-bd0e98caceeb		T	139038512	G	T	139038512	3	4	145	1	0	0	0	0	1	0	0	0	4118	1000	35	4	460	4	CXorf66	23	139038512	Missense_Mutation	SNP	G	TCGA-B0-5692-01A-11D-1534-10		139038512	16232048	71	8131											
LRRC40	55631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70618119	70618119	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtatcaataaatacctgAgatctaaaaaagtcaatttc	19	12	4	6	0	3	1	2	1	1	1	4	2	3	1	1	0	1	1	1	0	10	6	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	70618119	A	C	70618119	3	2	146	1	0	0	0	0	1	0	0	0	8998	304	11	5	388	5	LRRC40	1	70618119	Missense_Mutation	SNP	A	TCGA-B0-5693-01A-11D-1534-10		70618119	178632502	1	8132											
CCDC18	343099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	93649561	93649561	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaagtgaaaattctgattAtgcccctaatccttcaaggt	12	13	6	10	0	2	2	1	2	1	0	4	2	4	2	4	1	1	0	4	1	6	4	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	93649561	A	G	93649561	3	3	146	1	0	0	0	0	1	0	0	0	2794	449	16	3	525	3	CCDC18	1	93649561	Missense_Mutation	SNP	A	TCGA-B0-5693-01A-11D-1534-10	23031442	93649561	155601060	2	8133											
TOR3A	64222	broad.mit.edu;hgsc.bcm.edu	37	chr1	179057120	179057120	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcatcttcgatgaagcggaGaagctgcacccagggctgct	9	9	12	11	2	2	2	1	1	1	1	3	4	2	2	1	2	4	4	1	2	2	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	179057120	G	C	179057120	3	2	146	1	0	0	0	0	1	0	0	0	16375	933	33	4	728	4	TOR3A	1	179057120	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10	85407559	179057120	70193501	3	8134											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179398617	179398617	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttctgcgcttaattttcTtcatggttctacggcagtaa	7	17	8	9	2	4	0	1	0	3	0	4	0	4	0	0	2	2	5	0	2	3	8	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	179398617	T	C	179398617	3	2	146	1	0	0	0	0	1	0	0	0	16734	1609	56	3	5274	3	TTN	2	179398617	Missense_Mutation	SNP	T	TCGA-B0-5693-01A-11D-1534-10		179398617	63800756	4	8135											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188294	10188295	+	Frame_Shift_Ins	INS	-	-	T																															ctcaatgttgacggacagccINStatttttgccaatatcacac																								novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	10188295	-	T	10188294	7	5	146	1	0	1	1	0	0	0	0	0	17161	681	24	0	443	0	VHL	3	10188294	Frame_Shift_Ins	INS	-	TCGA-B0-5693-01A-11D-1534-10		10188294	187834136	5	8136											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52649440	52649440	+	Frame_Shift_Del	DEL	T	T	-																															tctttccttttctccttgagTaacttctccaggatatgtgc																								novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		-	52649440	T	-	52649440	7	5	146	1	0	1	0	1	0	0	0	0	11491	1635	57	0	3113	0	PBRM1	3	52649440	Frame_Shift_Del	DEL	T	TCGA-B0-5693-01A-11D-1534-10	42461146	52649440	145372990	6	8137											
CGGBP1	8545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	88104822	88104822	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaaagtcctggataacaCtgactttctctgtttgcgca	10	13	7	11	1	2	1	1	1	1	0	4	2	3	2	1	1	2	2	1	1	2	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	88104822	C	G	88104822	3	3	146	1	0	0	0	0	1	0	0	0	3302	565	20	4	202	4	CGGBP1	3	88104822	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	35455382	88104822	109917608	7	8138											
CCDC54	84692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	107097368	107097368	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatctgtctctccatcttcAacaatatttacggctttatt	10	17	3	11	1	4	0	1	0	3	0	6	0	5	0	1	1	2	1	1	1	6	7	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	107097368	A	G	107097368	3	3	146	1	0	0	0	0	1	0	0	0	2824	130	5	3	936	3	CCDC54	3	107097368	Missense_Mutation	SNP	A	TCGA-B0-5693-01A-11D-1534-10	18992546	107097368	90925062	8	8139											
C3orf1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	119242475	119242475	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcagactacaagttactGagcacctccctgagaaaatt	15	8	8	10	0	0	3	0	2	0	2	1	4	1	3	2	1	3	3	2	1	6	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	119242475	G	T	119242475	4	4	146	1	0	0	0	0	0	1	0	0	2206	1291	45	4	756	4	C3orf1	3	119242475	Nonsense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10	12145107	119242475	78779955	9	8140											
MUC20	200958	broad.mit.edu	37	chr3	195452619	195452619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcatcaccccgtcacgggCctcagagagcagcgcctctt	8	7	10	16	3	5	1	4	0	1	1	5	2	5	1	4	1	2	1	4	1	0	1	rs28549850	bycluster;byfrequency	TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	195452619	T	T	195452619	3	4	146	1	0	0	0	0	1	0	0	0	9976	754	26	2		2	MUC20	3	195452619	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	76210144	195452619	2569811	10	8141											
FBXL17	64839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	107703606	107703606	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcacgccagtacttgcaaaCcaatgatgcggaaaggcaac	14	6	10	11	2	1	1	1	1	0	0	1	2	1	2	2	2	5	3	2	2	5	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	107703606	C	G	107703606	3	3	146	1	0	0	0	0	1	0	0	0	5713	507	18	4	1095	4	FBXL17	5	107703606	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10		107703606	73211654	11	8142											
YTHDC2	64848	broad.mit.edu;hgsc.bcm.edu	37	chr5	112899759	112899759	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctctcaaaaacgtgcagcTatgctttgtaggaaacgttt	11	12	9	9	2	1	0	1	0	1	0	2	1	1	1	1	1	5	5	1	1	5	4	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	112899759	T	C	112899759	2	2	146	1	0	0	0	0	0	0	0	1	17496	1509	53	3		3	YTHDC2	5	112899759	Silent	SNP	T	TCGA-B0-5693-01A-11D-1534-10	5196153	112899759	68015501	12	8143											
ADCY1	107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	45725770	45725770	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctccgggctcaccacGtcctacatcctcgttctgga	5	11	8	17	3	3	0	1	0	2	0	7	1	5	1	4	2	2	3	4	2	1	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		A	45725770	G	A	45725770	2	1	146	1	0	0	0	0	0	0	0	1	292	1132	40	1		1	ADCY1	7	45725770	Silent	SNP	G	TCGA-B0-5693-01A-11D-1534-10		45725770	113412893	13	8144											
WBSCR27	155368	hgsc.bcm.edu	37	chr7	73249165	73249165	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatgccggataccaccTccagctcggaggtagccagc	10	5	12	14	2	0	1	0	0	0	1	2	4	1	3	5	3	5	2	5	3	2	2	rs13246460	bycluster;byfrequency;by1000genomes	TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		A	73249165	T	A	73249165	3	1	146	1	0	0	0	0	1	0	0	0	17265	1550	54	5	95	5	WBSCR27	7	73249165	Missense_Mutation	SNP	T	TCGA-B0-5693-01A-11D-1534-10	27523395	73249165	85889498	14	8145											
FAM91A1	157769	hgsc.bcm.edu;ucsc.edu	37	chr8	124792237	124792237	+	Frame_Shift_Del	DEL	C	C	-																															tttcttagatatgcactttgCctgagaaatgcgctgttgat																								novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		-	124792237	C	-	124792237	7	5	146	1	0	1	0	1	0	0	0	0	5651	739	26	0	588	0	FAM91A1	8	124792237	Frame_Shift_Del	DEL	C	TCGA-B0-5693-01A-11D-1534-10		124792237	21571785	15	8146											
UBQLN1	29979	broad.mit.edu;ucsc.edu	37	chr9	86276810	86276810	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcaaaaatcccattgcactGagttgttccagttgttgctg	9	15	8	9	0	1	1	1	1	0	0	3	1	3	1	2	0	2	6	2	0	2	6	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	86276810	C	C	86276810	2	2	146	1	0	0	0	0	0	0	0	1	16895	1277	45	4		4	UBQLN1	9	86276810	Silent	SNP	G	TCGA-B0-5693-01A-11D-1534-10		86276810	54936621	16	8147											
CKS2	1164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	91931300	91931300	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccacagaaccacatattcTtctctttagacgacctcttc	10	14	3	14	1	3	2	0	0	3	2	6	3	4	2	3	0	1	0	3	0	3	7	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	91931300	T	G	91931300	3	3	146	1	0	0	0	0	1	0	0	0	3453	1609	56	5	210	5	CKS2	9	91931300	Missense_Mutation	SNP	T	TCGA-B0-5693-01A-11D-1534-10	5654490	91931300	49282131	17	8148											
PALM2-AKAP2	445815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	112918733	112918733	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccctcatggaagactatGagacacacaaatctaaaagg	18	6	8	9	0	2	3	1	1	1	3	2	5	2	4	1	2	0	0	1	2	5	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	112918733	G	T	112918733	4	4	146	1	0	0	0	0	0	1	0	0	11410	1291	45	4	3164	4	PALM2-AKAP2	9	112918733	Nonsense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10	20987433	112918733	28294698	18	8149											
TRDMT1	1787	broad.mit.edu	37	chr10	17195591	17195591	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaacagctttgttatctgTtcttcttgtgacaaattggt	9	19	7	6	0	3	1	0	1	3	0	3	1	3	1	0	1	2	3	0	1	3	7	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	17195591	C	C	17195591	2	2	146	1	0	0	0	0	0	0	0	1	16466	1722	60	3		3	TRDMT1	10	17195591	Silent	SNP	T	TCGA-B0-5693-01A-11D-1534-10		17195591	118339156	19	8150											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55587279	55587279	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggtaatgcggcctgaattCgtgcagtctttgtacactca	8	12	11	10	3	2	1	1	1	1	0	3	1	2	1	1	2	3	3	1	2	3	4	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	55587279	C	T	55587279	3	4	146	1	0	0	0	0	1	0	0	0	11511	884	31	1	3253	1	PCDH15	10	55587279	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	38391688	55587279	79947468	20	8151											
NHLRC2	374354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115614767	115614767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accagtatctgcagaaggtgGacggctgggagcaggacttg	10	7	16	8	1	1	1	0	0	1	1	1	4	1	4	1	5	2	4	1	5	2	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		A	115614767	G	A	115614767	3	1	146	1	0	0	0	0	1	0	0	0	10406	1174	41	2	138	2	NHLRC2	10	115614767	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10	60027488	115614767	19919980	21	8152											
MEN1	4221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64573234	64573234	+	Frame_Shift_Del	DEL	T	T	-																															tctcctcgtcttcccggcagTagttgtagctgtgagagcag																								novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		-	64573234	T	-	64573234	7	5	146	1	0	1	0	1	0	0	0	0	9472	1638	57	0	786	0	MEN1	11	64573234	Frame_Shift_Del	DEL	T	TCGA-B0-5693-01A-11D-1534-10		64573234	70433282	22	8153											
CATSPER1	117144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65792685	65792685	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccccagtcttctgaatgtTtggtggagatatcctgggta	7	14	12	8	0	2	2	0	1	2	1	3	3	3	2	3	3	1	2	3	3	3	4	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	65792685	T	G	65792685	3	3	146	1	0	0	0	0	1	0	0	0	2687	1841	64	5	1224	5	CATSPER1	11	65792685	Missense_Mutation	SNP	T	TCGA-B0-5693-01A-11D-1534-10	1219451	65792685	69213831	23	8154											
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103229065	103229065	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaactttctcctgtcctcaAtctctggaagaaactaaacc	12	12	5	12	0	3	2	1	1	2	1	6	3	4	3	3	1	3	0	3	1	6	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	103229065	A	G	103229065	3	3	146	1	0	0	0	0	1	0	0	0	4846	101	4	3	12489	3	DYNC2H1	11	103229065	Missense_Mutation	SNP	A	TCGA-B0-5693-01A-11D-1534-10	37436380	103229065	31777451	24	8155											
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu	37	chr11	122931975	122931975	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacttttccgtgctggaaaaCacccacacaagagtaggtgg	12	8	11	10	1	0	1	0	0	0	1	1	3	1	2	2	3	2	2	2	3	4	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	122931975	C	G	122931975	3	3	146	1	0	0	0	0	1	0	0	0	7416	478	17	4	1914	4	HSPA8	11	122931975	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	19702910	122931975	12074541	25	8156											
CCDC91	55297	broad.mit.edu;ucsc.edu	37	chr12	28636996	28636996	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaacaggaaactgttaaGgcagcaataatagaagagca	20	5	9	7	0	0	2	0	0	0	2	0	3	0	3	0	2	4	4	0	2	7	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	28636996	T	T	28636996	3	4	146	1	0	0	0	0	1	0	0	0	2870	991	35	4	1155	4	CCDC91	12	28636996	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10		28636996	105214899	26	8157											
GJB6	10804	broad.mit.edu;hgsc.bcm.edu	37	chr13	20797320	20797320	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacttgcgagtggtttcGtgcctgtagtaggccacatg	7	12	13	9	2	0	1	0	1	0	0	1	2	0	1	2	2	3	3	2	2	3	4	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	20797320	G	T	20797320	3	4	146	1	0	0	0	0	1	0	0	0	6412	1136	40	4	489	4	GJB6	13	20797320	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10		20797320	94372558	27	8158											
ACTN1	87	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	69356966	69356966	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactcctcatagcccttcTccacctgctccaggcagccc	7	8	5	21	0	2	0	1	0	1	0	5	0	4	0	7	1	3	2	7	1	1	2	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	69356966	T	G	69356966	3	3	146	1	0	0	0	0	1	0	0	0	204	1551	54	5	1668	5	ACTN1	14	69356966	Missense_Mutation	SNP	T	TCGA-B0-5693-01A-11D-1534-10		69356966	37992574	28	8159											
VPS18	57617	broad.mit.edu	37	chr15	41191988	41191988	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagggcctggggccagcccAcccctagccatcgtcttgac	6	7	12	16	1	1	1	0	1	1	0	2	1	1	1	6	3	2	1	6	3	2	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	41191988	C	C	41191988	2	2	146	1	0	0	0	0	0	0	0	1	17193	146	6	5		5	VPS18	15	41191988	Silent	SNP	A	TCGA-B0-5693-01A-11D-1534-10		41191988	61339404	29	8160											
ITGAM	3684	hgsc.bcm.edu;ucsc.edu	37	chr16	31309149	31309149	+	Frame_Shift_Del	DEL	G	G	-																															ggggcagccctaacagtgctGggggacgtaaatggggacaa																								novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		-	31309149	G	-	31309149	7	5	146	1	0	1	0	1	0	0	0	0	7887	1335	47	0	1638	0	ITGAM	16	31309149	Frame_Shift_Del	DEL	G	TCGA-B0-5693-01A-11D-1534-10		31309149	59045604	30	8161											
ZC3H18	124245	broad.mit.edu;hgsc.bcm.edu	37	chr16	88688681	88688681	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagatgagtggaaggacCcttggcgccgatccaagtct	10	7	14	10	2	1	2	0	1	1	1	2	6	2	4	3	3	1	1	3	3	2	1	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		A	88688681	C	A	88688681	3	1	146	1	0	0	0	0	1	0	0	0	17567	623	22	4	1582	4	ZC3H18	16	88688681	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	57379532	88688681	1666072	31	8162											
AMAC1L3	0	hgsc.bcm.edu	37	chr17	7385682	7385682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcggttcaggtggtgcccGctggcaacgctgccactgtt	4	10	15	12	3	1	0	1	0	0	0	1	0	1	0	2	4	4	5	2	4	1	2	rs143401129		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		A	7385682	G	A	7385682	3	1	146	1	0	0	0	0	1	0	0	0	561	1087	38	1	385	1	AMAC1L3	17	7385682	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10		7385682	73809528	32	8163											
MAP2K3	5606	hgsc.bcm.edu	37	chr17	21215483	21215483	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatcctgcggttcccttaCgagtcctgggggaccccgtt	4	10	12	15	3	0	0	0	0	0	0	3	2	3	1	6	3	2	2	6	3	1	3	rs55935757	bycluster;byfrequency;by1000genomes	TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	21215483	C	T	21215483	2	4	146	1	0	0	0	0	0	0	0	1	9238	547	19	1		1	MAP2K3	17	21215483	Silent	SNP	C	TCGA-B0-5693-01A-11D-1534-10	13829801	21215483	59979727	33	8164											
PSMD11	5717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30806900	30806900	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atctagtctcatcaaactctCcaaggtaaggagtcttaagg	13	11	8	9	0	5	0	2	0	4	0	7	1	5	1	1	3	1	1	1	3	5	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	30806900	C	T	30806900	3	4	146	1	0	0	0	0	1	0	0	0	12696	855	30	2	1112	2	PSMD11	17	30806900	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	9591417	30806900	50388310	34	8165											
CDK12	51755	broad.mit.edu;hgsc.bcm.edu	37	chr17	37681129	37681129	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtggagtctggggctgggGatgcaataggtcagtgccag	8	8	19	6	0	2	0	1	0	1	0	2	2	2	2	1	7	2	2	1	7	2	1	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		A	37681129	G	A	37681129	3	1	146	1	0	0	0	0	1	0	0	0	3128	1174	41	2	3344	2	CDK12	17	37681129	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10	6874229	37681129	43514081	35	8166											
KIAA1267	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	44116407	44116407	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccctaccttcacttctctcaGatgaatggtctcgcaatctc	8	13	5	15	1	5	2	2	1	3	1	8	2	5	2	2	1	1	1	2	1	3	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	44116407	G	C	44116407	3	2	146	1	0	0	0	0	1	0	0	0	8219	942	33	4	967	4	KIAA1267	17	44116407	Missense_Mutation	SNP	G	TCGA-B0-5693-01A-11D-1534-10	6435278	44116407	37078803	36	8167											
TCEB3C	162699	broad.mit.edu	37	chr18	44554961	44554961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctcgggcgtcccgaagcCgcaggtacagctcccgccaa	7	5	12	17	5	1	0	0	0	1	0	4	1	3	0	4	2	3	4	4	2	3	1	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	44554961	T	T	44554961	3	4	146	1	0	0	0	0	1	0	0	0	15682	652	23	1	2034	1	TCEB3C	18	44554961	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10		44554961	33522287	37	8168											
FECH	2235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55233773	55233773	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaattgcttcttctgttaaAggatggacgtaccgaaatcc	11	13	8	9	2	3	0	1	0	2	0	4	3	4	2	2	2	2	3	2	2	5	5	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		G	55233773	A	G	55233773	2	3	146	1	0	0	0	0	0	0	0	1	5808	59	3	3		3	FECH	18	55233773	Silent	SNP	A	TCGA-B0-5693-01A-11D-1534-10	10678812	55233773	22843475	38	8169											
CPXM1	56265	broad.mit.edu	37	chr20	2779142	2779142	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggatgcctcaagccggcTatctgaaactcgcagggact	9	8	12	12	2	2	1	1	1	1	0	3	3	2	3	2	3	3	3	2	3	3	1	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		C	2779142	C	C	2779142	3	2	146	1	0	0	0	0	1	0	0	0	3837	1522	53	3	1870	3	CPXM1	20	2779142	Missense_Mutation	SNP	T	TCGA-B0-5693-01A-11D-1534-10		2779142	60246378	39	8170											
PCDH19	57526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	99551562	99551562	+	Frame_Shift_Del	DEL	C	C	-																															ctcacagccattgcctgcctCccggataacgctgttgacct																								novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		-	99551562	C	-	99551562	7	5	146	1	0	1	0	1	0	0	0	0	11514	864	30	0	290	0	PCDH19	23	99551562	Frame_Shift_Del	DEL	C	TCGA-B0-5693-01A-11D-1534-10		99551562	55718998	40	8171											
PNMA5	114824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	152159503	152159503	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcattgttggcctggagcaCccgcatgattgacagagcag	9	9	13	10	1	1	3	1	2	0	1	1	4	1	4	2	2	2	4	2	2	0	3	novel		TCGA-B0-5693-01A-11D-1534-10	TCGA-B0-5693-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be92ee16-6288-46c0-aaa7-7a27020cd7ca	51df4667-989b-4611-b869-3d8046d76232		T	152159503	C	T	152159503	3	4	146	1	0	0	0	0	1	0	0	0	12156	507	18	2	710	2	PNMA5	23	152159503	Missense_Mutation	SNP	C	TCGA-B0-5693-01A-11D-1534-10	52607941	152159503	3111057	41	8172											
CLCNKA	1187	broad.mit.edu;hgsc.bcm.edu	37	chr1	16353083	16353083	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctacctgggccgtgtgcGcaccacgaccatcggggagc	6	6	14	15	4	0	0	0	0	0	0	1	2	0	1	5	3	4	1	5	3	1	1	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	16353083	G	A	16353083	3	1	147	1	0	0	0	0	1	0	0	0	3469	1087	38	1	569	1	CLCNKA	1	16353083	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10		16353083	232897538	1	8173											
MEAF6	64769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	37975131	37975131	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggttccttcgatcatttttGctattggagtttctaaaaca	9	17	7	8	2	2	0	1	0	1	0	4	2	3	1	1	2	2	3	1	2	3	8	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	37975131	G	A	37975131	2	1	147	1	0	0	0	0	0	0	0	1	9421	1310	46	2		2	MEAF6	1	37975131	Silent	SNP	G	TCGA-B0-5694-01A-11D-1534-10	21622048	37975131	211275490	2	8174											
SELENBP1	8991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151342244	151342244	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaattcccacatttcgtAgctgtggaagcaatggggcg	10	9	11	11	2	0	0	0	0	0	0	2	1	1	1	2	3	2	3	2	3	4	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	151342244	A	C	151342244	2	2	147	1	0	0	0	0	0	0	0	1	14016	434	15	5		5	SELENBP1	1	151342244	Silent	SNP	A	TCGA-B0-5694-01A-11D-1534-10	113367113	151342244	97908377	3	8175											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	185984500	185984500	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcacaggtctctgattcaGcaacatatacgtgtcatgta	12	11	9	9	1	3	1	2	1	1	0	4	2	3	1	0	1	4	3	0	1	4	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	185984500	G	C	185984500	3	2	147	1	0	0	0	0	1	0	0	0	7220	971	34	4	4962	4	HMCN1	1	185984500	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	34642256	185984500	63266121	4	8176											
TLR5	7100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223285445	223285445	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccttcaaatccttgagtGtctcaaagactcgtgagttc	11	12	8	10	1	2	3	2	2	1	1	6	4	3	3	2	0	1	1	2	0	3	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	223285445	G	A	223285445	3	1	147	1	0	0	0	0	1	0	0	0	15953	1377	48	2	1651	2	TLR5	1	223285445	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	37300945	223285445	25965176	5	8177											
OTOF	9381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	26698883	26698883	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcctggtacatgtgcgCtcggagctggaacgcctgct	5	8	16	12	4	0	0	0	0	0	0	1	2	0	2	2	4	5	4	2	4	2	1	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	26698883	C	A	26698883	3	1	147	1	0	0	0	0	1	0	0	0	11303	797	28	4	3380	4	OTOF	2	26698883	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10		26698883	216500490	6	8178											
ALK	238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29917822	29917822	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccagctctggttcctgagGtcatgcagtggaggggaata	9	9	15	8	0	2	1	1	1	1	0	3	4	3	3	2	5	2	3	2	5	2	2	rs56116528	alternate_allele	TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	29917822	G	C	29917822	3	2	147	1	0	0	0	0	1	0	0	0	525	1252	44	4	4124	4	ALK	2	29917822	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	3218939	29917822	213281551	7	8179											
MXD1	4084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	70148882	70148882	+	Frame_Shift_Del	DEL	A	A	-																															tttcagatcaactcacaatgAaatggagaagaataggtgag																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	70148882	A	-	70148882	7	5	147	1	0	1	0	1	0	0	0	0	9999	246	9	0	198	0	MXD1	2	70148882	Frame_Shift_Del	DEL	A	TCGA-B0-5694-01A-11D-1534-10	40231060	70148882	173050491	8	8180											
SLC35F5	80255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	114500419	114500419	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggaagctgtcgaatctcCatgatattactgaacctcac	12	10	8	11	2	2	2	1	2	1	0	4	5	2	3	2	1	3	1	2	1	5	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	114500419	C	A	114500419	3	1	147	1	0	0	0	0	1	0	0	0	14594	594	21	4	1007	4	SLC35F5	2	114500419	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10	44351537	114500419	128698954	9	8181											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	167760331	167760331	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attgaacgcttttccattgcCcttgatgagctgaggagtgt	8	14	11	8	1	0	4	0	4	0	0	1	5	1	5	2	1	3	2	2	1	1	5	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	167760331	C	T	167760331	2	4	147	1	0	0	0	0	0	0	0	1	17429	610	22	2		2	XIRP2	2	167760331	Silent	SNP	C	TCGA-B0-5694-01A-11D-1534-10	53259912	167760331	75439042	10	8182											
FKBP7	51661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179341870	179341870	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatatctgtcatagcaaTgtctaggccttttatgactt	10	15	7	9	0	3	1	1	1	2	0	3	1	3	1	1	1	1	2	1	1	5	6	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	179341870	T	G	179341870	3	3	147	1	0	0	0	0	1	0	0	0	5913	1464	51	5	388	5	FKBP7	2	179341870	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10	11581539	179341870	63857503	11	8183											
ATIC	471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216184411	216184411	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagctcgtaatattccaGaagataatgctgacatggcc	12	11	8	10	1	0	3	0	1	0	2	3	3	2	3	3	1	2	3	3	1	5	5	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	216184411	G	T	216184411	4	4	147	1	0	0	0	0	0	1	0	0	1105	943	33	4	261	4	ATIC	2	216184411	Nonsense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	36842541	216184411	27014962	12	8184											
XIRP1	165904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	39229862	39229862	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctccagcctcttcgtcccCcttcagagtgtccagcgctc	4	11	8	18	2	2	1	1	0	1	1	7	1	5	1	5	0	3	2	5	0	0	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	39229862	C	T	39229862	3	4	147	1	0	0	0	0	1	0	0	0	17428	623	22	2	4460	2	XIRP1	3	39229862	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10		39229862	158792568	13	8185											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52692235	52692235	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cactttagaaggcagtttctGaaaaagttcgctaatgagac	14	11	9	7	1	1	3	0	2	1	2	2	4	1	3	0	1	0	4	0	1	5	5	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	52692235	A	A	52692235	4	1	147	1	0	0	0	0	0	1	0	0	11491	1299	45	2	4379	2	PBRM1	3	52692235	Nonsense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	13462373	52692235	145330195	14	8186											
NMNAT3	349565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	139279898	139279898	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggtgcttttgcctttccagGtactgcccttggtgtagagg	4	14	14	9	0	0	1	0	0	0	1	1	1	1	1	3	4	4	3	3	4	2	6	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	139279898	G	T	139279898	3	4	147	1	0	0	0	0	1	0	0	0	10500	1261	44	4	49	4	NMNAT3	3	139279898	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	86587663	139279898	58742532	15	8187											
EIF4A2	1974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186505633	186505633	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtgtctttggttataaaTtatgatctacctaccaatcg	12	15	6	8	1	2	1	0	1	2	0	3	1	2	1	2	1	2	1	2	1	8	6	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	186505633	T	G	186505633	3	3	147	1	0	0	0	0	1	0	0	0	5025	1490	52	5	1079	5	EIF4A2	3	186505633	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10	47225735	186505633	11516797	16	8188											
TMEM44	93109	broad.mit.edu	37	chr3	194338403	194338403	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacgctgggcagcggctcGccaatgtccgctgggagaac	7	6	15	13	4	0	2	0	1	0	1	2	3	1	2	2	3	2	4	2	3	2	0	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	194338403	C	C	194338403	3	2	147	1	0	0	0	0	1	0	0	0	16167	1095	38	4	770	4	TMEM44	3	194338403	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	7832770	194338403	3684027	17	8189											
HHIP	64399	broad.mit.edu	37	chr4	145568088	145568088	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggagtgacagcccggggctAgggcgcctggagaataaggt	9	5	18	9	3	0	2	0	1	0	1	0	4	0	3	2	6	1	1	2	6	3	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	145568088	C	C	145568088	2	2	147	1	0	0	0	0	0	0	0	1	7092	407	15	5		5	HHIP	4	145568088	Silent	SNP	A	TCGA-B0-5694-01A-11D-1534-10		145568088	45586188	18	8190											
FAM81B	153643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	94783997	94783997	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtctgaaaataaaatggaaGaaaaactgctgcagctttca	18	9	8	6	0	2	2	1	1	1	1	2	3	2	3	0	1	4	3	0	1	7	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	94783997	G	C	94783997	3	2	147	1	0	0	0	0	1	0	0	0	5629	943	33	4	1088	4	FAM81B	5	94783997	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10		94783997	86131263	19	8191											
ZNF608	57507	broad.mit.edu	37	chr5	124079966	124079966	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacctccattgctcttggcCccaaagccatagaggtgccc	8	8	8	17	0	1	1	0	0	1	1	2	1	2	1	7	2	3	1	7	2	2	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	124079966	G	G	124079966	2	3	147	1	0	0	0	0	0	0	0	1	18033	610	22	4		4	ZNF608	5	124079966	Silent	SNP	C	TCGA-B0-5694-01A-11D-1534-10	29295969	124079966	56835294	20	8192											
FCHSD1	89848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141028860	141028860	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctcagcctgcgccctctGgaggttctctgttccctatt	4	13	8	16	1	3	0	1	0	2	0	5	1	4	1	4	2	2	2	4	2	1	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	141028860	G	A	141028860	4	1	147	1	0	0	0	0	0	1	0	0	5789	1357	47	2	1741	2	FCHSD1	5	141028860	Nonsense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	16948894	141028860	39886400	21	8193											
G3BP1	10146	hgsc.bcm.edu;ucsc.edu	37	chr5	151183616	151183617	+	Frame_Shift_Ins	INS	-	-	T																															gcatggtgcagaaaccaggaINStttggagtgggaagggggct																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	151183617	-	T	151183616	7	5	147	1	0	1	1	0	0	0	0	0	6141	320	12	0	1407	0	G3BP1	5	151183616	Frame_Shift_Ins	INS	-	TCGA-B0-5694-01A-11D-1534-10	10154756	151183616	29731644	22	8194											
CCHCR1	54535	broad.mit.edu	37	chr6	31112818	31112826	+	In_Frame_Del	DEL	CCACCTTGC	-	-																															ctcctgctccagctgctgggCcaccttgctcagctgctgcc																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	CCACCTTGC	CCACCTTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	31112826	-	-	31112818	7	5	147	1	0	1	0	1	0	0	0	0	2877	739	26	0	726	0	CCHCR1	6	31112818	In_Frame_Del	DEL	CCACCTTGC	TCGA-B0-5694-01A-11D-1534-10		31112818	140002249	23	8195											
TTBK1	84630	hgsc.bcm.edu	37	chr6	43221356	43221356	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccgcgaggcaccttcacGctgagcaccacattgcggct	8	6	11	16	4	1	1	1	1	0	0	1	2	1	1	3	2	3	4	3	2	0	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	43221356	G	T	43221356	2	4	147	1	0	0	0	0	0	0	0	1	16675	1074	38	4		4	TTBK1	6	43221356	Silent	SNP	G	TCGA-B0-5694-01A-11D-1534-10	12108538	43221356	127893711	24	8196											
GPR110	266977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46969278	46969278	+	Frame_Shift_Del	DEL	T	T	-																															aaaggctttgagaatttgggTttggcagataaatctgatga																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	46969278	T	-	46969278	7	5	147	1	0	1	0	1	0	0	0	0	6627	1722	60	0	121	0	GPR110	6	46969278	Frame_Shift_Del	DEL	T	TCGA-B0-5694-01A-11D-1534-10	3747922	46969278	124145789	25	8197											
RIMS1	22999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	72960119	72960119	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctagagtagatggacgTcctcgaaatccctatgtaaa	12	10	9	10	2	0	2	0	0	0	2	3	4	2	3	3	1	1	3	3	1	6	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	72960119	T	A	72960119	2	1	147	1	0	0	0	0	0	0	0	1	13369	1654	58	5		5	RIMS1	6	72960119	Silent	SNP	T	TCGA-B0-5694-01A-11D-1534-10	25990841	72960119	98154948	26	8198											
MICAL1	64780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	109769530	109769530	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgatgcccagctcattCtctgccacctttagtgccca	6	12	9	14	0	2	1	1	1	1	0	3	1	2	1	4	1	4	1	4	1	1	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	109769530	C	A	109769530	3	1	147	1	0	0	0	0	1	0	0	0	9569	912	32	4	1524	4	MICAL1	6	109769530	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10	36809411	109769530	61345537	27	8199											
VNN1	8876	hgsc.bcm.edu	37	chr6	133015270	133015272	+	In_Frame_Del	DEL	GTT	GTT	-																															tttgccacaacatagatagaGttgttcttggccaggcagct																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	133015272	GTT	-	133015270	7	5	147	1	0	1	0	1	0	0	0	0	17181	1020	36	0	1168	0	VNN1	6	133015270	In_Frame_Del	DEL	GTT	TCGA-B0-5694-01A-11D-1534-10	23245740	133015270	38099797	28	8200											
STK31	56164	broad.mit.edu	37	chr7	23749854	23749854	+	5'UTR	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcggtcgaagctcacgCggtaagccgctgcacgtgtg	6	8	14	13	6	1	0	1	0	0	0	2	1	1	0	2	2	4	4	2	2	2	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	23749854	T	T	23749854	1	4	147	0	1	0	0	0	0	0	0	0	15297	783	27	1		1	STK31	7	23749854	5'UTR	SNP	C	TCGA-B0-5694-01A-11D-1534-10		23749854	135388809	29	8201											
POLM	27434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	44118355	44118355	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccttcatggtctggtacCtctctgagcgccgaactctc	6	11	9	15	2	4	1	1	1	3	0	6	2	4	1	3	2	3	2	3	2	2	2	rs151259046	alternate_allele	TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	44118355	C	A	44118355	3	1	147	1	0	0	0	0	1	0	0	0	12206	681	24	4	814	4	POLM	7	44118355	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10	20368501	44118355	115020308	30	8202											
AKAP9	10142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91632376	91632376	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtgaagaatcaaaaataAtggtggaagataaagtttct	17	12	10	2	0	2	3	1	1	1	2	2	4	2	4	0	3	0	1	0	3	8	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	91632376	A	T	91632376	3	4	147	1	0	0	0	0	1	0	0	0	459	101	4	5	3175	5	AKAP9	7	91632376	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10	47514021	91632376	67506287	31	8203											
NPBWR1	2831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	53853305	53853305	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcgctcaccaccgacctcCcgcagacgccgctggtcatc	6	6	10	19	5	2	1	2	0	0	1	4	2	3	1	5	2	0	3	5	2	0	0	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	53853305	C	A	53853305	3	1	147	1	0	0	0	0	1	0	0	0	10568	623	22	4	840	4	NPBWR1	8	53853305	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10		53853305	92510717	32	8204											
ZNF462	58499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	109689533	109689533	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacctcagtactgagcttTactactgcaaacactgttcc	11	11	6	13	0	1	2	1	1	0	1	2	2	2	2	2	0	6	4	2	0	4	5	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	109689533	T	C	109689533	3	2	147	1	0	0	0	0	1	0	0	0	17925	1754	61	3	3346	3	ZNF462	9	109689533	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10		109689533	31523898	33	8205											
KIAA0913	0	hgsc.bcm.edu;ucsc.edu	37	chr10	75557166	75557168	+	In_Frame_Del	DEL	AAC	AAC	-																															attgacagcagtgcccctgaAacaacatcggatagttcccc																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	75557168	AAC	-	75557166	7	5	147	1	0	1	0	1	0	0	0	0	8200	11	1	0	3535	0	KIAA0913	10	75557166	In_Frame_Del	DEL	AAC	TCGA-B0-5694-01A-11D-1534-10		75557166	59977581	34	8206											
C10orf129	142827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96954310	96954310	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatttgaagcctgctgctAtccaaaccaaaaatgtgcta	13	10	9	9	0	0	1	0	1	0	0	1	2	1	2	3	1	5	3	3	1	6	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	96954310	A	T	96954310	3	4	147	1	0	0	0	0	1	0	0	0	1593	449	16	5	70	5	C10orf129	10	96954310	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10	21397144	96954310	38580437	35	8207											
SFXN4	119559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	120900805	120900805	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttctgttggagactgaatTttctcttcaagactacagta	10	16	7	8	0	4	3	1	1	3	2	5	4	4	3	0	1	1	2	0	1	4	7	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	120900805	T	A	120900805	3	1	147	1	0	0	0	0	1	0	0	0	14199	1838	64	5	54	5	SFXN4	10	120900805	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10	23946495	120900805	14633942	36	8208											
TUBGCP2	10844	broad.mit.edu;hgsc.bcm.edu	37	chr10	135101707	135101707	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccaggagcgcttccaggcGagggggcgtgatgtcctcca	6	7	15	13	3	0	1	0	1	0	0	4	3	4	2	4	4	1	1	4	4	0	1	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	135101707	G	A	135101707	3	1	147	1	0	0	0	0	1	0	0	0	16765	1058	37	1	1092	1	TUBGCP2	10	135101707	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	14200902	135101707	433040	37	8209											
NLRP6	171389	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	285235	285235	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagagagcaaagccggaTctggtcatcacacacccagc	13	5	11	12	1	3	2	2	1	1	1	3	4	3	3	2	2	3	1	2	2	2	0	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	285235	T	A	285235	3	1	147	1	0	0	0	0	1	0	0	0	10481	1432	50	5	2640	5	NLRP6	11	285235	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10		285235	134721281	38	8210											
FAM111A	63901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	58920102	58920102	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagaaaaaaatgaaagtaAaaaatggggaaacattattt	23	9	7	2	0	1	2	1	1	0	1	1	3	1	3	0	2	1	1	0	2	10	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	58920102	A	G	58920102	3	3	147	1	0	0	0	0	1	0	0	0	5399	15	1	3	967	3	FAM111A	11	58920102	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10	58634867	58920102	76086414	39	8211											
FEN1	2237	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61563635	61563636	+	Frame_Shift_Ins	INS	-	-	AC																															gcgacttgaccccaacaagtINSaccctgtgccagaaaattgg																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		AC	61563636	-	AC	61563635	7	5	147	1	0	1	1	0	0	0	0	0	5812	1638	57	0	804	0	FEN1	11	61563635	Frame_Shift_Ins	INS	-	TCGA-B0-5694-01A-11D-1534-10	2643533	61563635	73442881	40	8212											
ODZ4	0	hgsc.bcm.edu	37	chr11	78523290	78523291	+	Frame_Shift_Ins	INS	-	-	C																															acatcgcactcagcgcctttINSccagccactgtggcacaagc																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	78523291	-	C	78523290	7	5	147	1	0	1	1	0	0	0	0	0	10837	1792	62	0	6538	0	ODZ4	11	78523290	Frame_Shift_Ins	INS	-	TCGA-B0-5694-01A-11D-1534-10	16959655	78523290	56483226	41	8213											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49440459	49440459	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcagtatgtgtggtagcTaatatcacagtcatcacaga	13	10	10	8	0	3	1	3	0	0	1	3	1	3	1	0	2	1	4	0	2	4	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	49440459	T	A	49440459	3	1	147	1	0	0	0	0	1	0	0	0	9621	1522	53	5	12422	5	MLL2	12	49440459	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10		49440459	84411436	42	8214											
IKBIP	121457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	99007799	99007799	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttactgtatttttttctActttctctattttattttct	5	29	1	6	0	3	0	0	0	3	0	4	0	3	0	0	0	2	1	0	0	5	14	rs142312833	byfrequency	TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	99007799	A	G	99007799	3	3	147	1	0	0	0	0	1	0	0	0	7609	391	14	3	439	3	IKBIP	12	99007799	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10	49567340	99007799	34844096	43	8215											
DNAH10	196385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124408962	124408962	+	Frame_Shift_Del	DEL	C	C	-																															ctgatgatgttgagaataatCagactgtctggcaggaggtg																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	124408962	C	-	124408962	7	5	147	1	0	1	0	1	0	0	0	0	4598	827	29	0	11657	0	DNAH10	12	124408962	Frame_Shift_Del	DEL	C	TCGA-B0-5694-01A-11D-1534-10	25401163	124408962	9442933	44	8216											
PRPF39	55015	broad.mit.edu;hgsc.bcm.edu	37	chr14	45581684	45581684	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtggaatttcttgaagAttttggttccgatgttaata	13	16	9	3	1	1	2	0	1	1	1	2	4	2	3	1	2	0	2	1	2	6	7	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	45581684	A	C	45581684	3	2	147	1	0	0	0	0	1	0	0	0	12571	333	12	5	1774	5	PRPF39	14	45581684	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10		45581684	61767856	45	8217											
WDR25	79446	broad.mit.edu;hgsc.bcm.edu	37	chr14	100996232	100996232	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggcagcgccgatggccggGtcctgatgtacagcttccgc	5	7	15	14	5	0	1	0	1	0	0	2	2	2	1	4	3	3	3	4	3	1	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	100996232	G	T	100996232	3	4	147	1	0	0	0	0	1	0	0	0	17281	1261	44	4	1511	4	WDR25	14	100996232	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	55414548	100996232	6353308	46	8218											
FANCI	55215	hgsc.bcm.edu;ucsc.edu	37	chr15	89859678	89859678	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaaccagccaagaagaaAaggaaaaaataaatgaaatg	26	3	8	4	0	0	4	0	1	0	3	0	5	0	5	2	1	2	0	2	1	12	1	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	89859678	A	G	89859678	2	3	147	1	0	0	0	0	0	0	0	1	5669	11	1	3		3	FANCI	15	89859678	Silent	SNP	A	TCGA-B0-5694-01A-11D-1534-10		89859678	12671714	47	8219											
CLCN7	1186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1509163	1509163	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaggaagcacttgatctggGggattccgctgccagcagcc	8	8	14	11	1	1	2	0	2	1	0	2	4	2	4	3	3	4	3	3	3	1	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	1509163	G	A	1509163	3	1	147	1	0	0	0	0	1	0	0	0	3468	1232	43	2	1873	2	CLCN7	16	1509163	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10		1509163	88845590	48	8220											
SRCAP	10847	broad.mit.edu	37	chr16	30750868	30750868	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggggcctgagggttcagtAgaggagtctgaggctgaagc	8	8	18	7	0	2	4	1	3	1	1	2	5	2	5	1	5	1	3	1	5	2	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	30750868	G	G	30750868	2	3	147	1	0	0	0	0	0	0	0	1	15136	407	15	3		3	SRCAP	16	30750868	Silent	SNP	A	TCGA-B0-5694-01A-11D-1534-10	29241705	30750868	59603885	49	8221											
N4BP1	9683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	48596270	48596270	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttttcagaaacaggctcTctgccccaacaaaaatgcag	14	8	7	12	0	2	1	1	0	1	1	3	1	2	1	2	1	5	3	2	1	4	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	48596270	T	G	48596270	3	3	147	1	0	0	0	0	1	0	0	0	10109	1551	54	5	2430	5	N4BP1	16	48596270	Missense_Mutation	SNP	T	TCGA-B0-5694-01A-11D-1534-10	17845402	48596270	41758483	50	8222											
MBTPS1	8720	hgsc.bcm.edu;ucsc.edu	37	chr16	84103636	84103636	+	Frame_Shift_Del	DEL	T	T	-																															ttgaagtctgttctgcaccaTtttttgactaaaaaaaaaga																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	84103636	T	-	84103636	7	5	147	1	0	1	0	1	0	0	0	0	9361	1493	52	0	1408	0	MBTPS1	16	84103636	Frame_Shift_Del	DEL	T	TCGA-B0-5694-01A-11D-1534-10	35507366	84103636	6251117	51	8223											
MYOCD	93649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	12647585	12647585	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcttaaatatcaccagtAcattcccccagaccagaagg	15	7	7	12	0	1	2	1	0	0	2	2	3	2	2	4	1	2	2	4	1	6	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	12647585	A	G	12647585	3	3	147	1	0	0	0	0	1	0	0	0	10087	391	14	3	833	3	MYOCD	17	12647585	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10		12647585	68547625	52	8224											
UNC45B	146862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33498340	33498340	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccccaaccctgtgccttccaGaccagtgacaagaccatcct	10	7	6	18	0	0	3	0	1	0	2	2	3	2	3	8	0	2	0	8	0	2	1	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	33498340	G	C	33498340	5	2	147	1	0	0	0	0	0	0	1	0	16988	956	33	4	1741	4	UNC45B	17	33498340	Splice_Site	SNP	G	TCGA-B0-5694-01A-11D-1534-10	20850755	33498340	47696870	53	8225											
HNF1B	6928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36091725	36091725	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgcctcctccttcctgcgGtttgcaaaccagttgtagac	8	12	8	13	1	0	1	0	0	0	1	3	1	3	1	5	1	4	4	5	1	3	4	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	36091725	G	C	36091725	3	2	147	1	0	0	0	0	1	0	0	0	7252	1252	44	4	791	4	HNF1B	17	36091725	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	2593385	36091725	45103485	54	8226											
WIPF2	147179	broad.mit.edu;ucsc.edu	37	chr17	38420798	38420798	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctcgagctgctgccccaAggcctccagtatctgccgcc	5	9	10	17	2	2	0	0	0	2	0	4	1	3	0	6	1	4	4	6	1	2	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		G	38420798	G	G	38420798	3	3	147	1	0	0	0	0	1	0	0	0	17367	63	3	3	384	3	WIPF2	17	38420798	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10	2329073	38420798	42774412	55	8227											
TMEM105	284186	hgsc.bcm.edu;ucsc.edu	37	chr17	79288241	79288241	+	Frame_Shift_Del	DEL	C	C	-																															ggccggaggcttcaaggacgCcctcctcaccttgagaagca																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	79288241	C	-	79288241	7	5	147	1	0	1	0	1	0	0	0	0	16018	739	26	0	375	0	TMEM105	17	79288241	Frame_Shift_Del	DEL	C	TCGA-B0-5694-01A-11D-1534-10	40867443	79288241	1906969	56	8228											
NPC1	4864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21140211	21140211	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacctgtagcaccacactgCaaaaaatgctccaaaaaaca	18	7	4	12	0	0	0	0	0	0	0	1	0	1	0	3	0	5	4	3	0	8	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	21140211	C	A	21140211	3	1	147	1	0	0	0	0	1	0	0	0	10570	710	25	4	3051	4	NPC1	18	21140211	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10		21140211	56937037	57	8229											
C18orf21	83608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33557546	33557546	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctggctcgaaaggcaagagCccagcatcggttttcaggta	10	9	12	10	2	2	1	1	0	1	1	4	2	2	1	1	4	2	5	1	4	3	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		A	33557546	C	A	33557546	3	1	147	1	0	0	0	0	1	0	0	0	1897	738	26	4	488	4	C18orf21	18	33557546	Missense_Mutation	SNP	C	TCGA-B0-5694-01A-11D-1534-10	12417335	33557546	44519702	58	8230											
POLI	11201	hgsc.bcm.edu;ucsc.edu	37	chr18	51809374	51809374	+	Frame_Shift_Del	DEL	G	G	-																															actcccctgtgatactctcaGgaccacctcaggtacatgat																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	51809374	G	-	51809374	7	5	147	1	0	1	0	1	0	0	0	0	12203	1001	35	0	986	0	POLI	18	51809374	Frame_Shift_Del	DEL	G	TCGA-B0-5694-01A-11D-1534-10	18251828	51809374	26267874	59	8231											
KISS1R	84634	broad.mit.edu	37	chr19	918608	918608	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccttcacggccctgctgtaCccgctgcccggctgggtgct	2	9	12	18	3	1	0	1	0	0	0	1	0	1	0	4	3	4	5	4	3	1	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	918608	T	T	918608	2	4	147	1	0	0	0	0	0	0	0	1	8328	518	18	2		2	KISS1R	19	918608	Silent	SNP	C	TCGA-B0-5694-01A-11D-1534-10		918608	58210375	60	8232											
JAK3	3718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17952457	17952457	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcacccactaaaatctGgttgtctgtcctggtaacag	9	12	8	12	0	2	0	0	0	2	0	4	0	4	0	3	2	2	3	3	2	3	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		C	17952457	G	C	17952457	3	2	147	1	0	0	0	0	1	0	0	0	7939	1357	47	4	2470	4	JAK3	19	17952457	Missense_Mutation	SNP	G	TCGA-B0-5694-01A-11D-1534-10	17033849	17952457	41176526	61	8233											
SIRPB2	284759	broad.mit.edu;hgsc.bcm.edu	37	chr20	1460664	1460664	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaccagcatggggccctcGggctgtagcacctgccagtc	6	6	13	16	1	0	0	0	0	0	0	2	0	0	0	5	3	3	4	5	3	1	1	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	1460664	G	T	1460664	2	4	147	1	0	0	0	0	0	0	0	1	14336	1103	39	4		4	SIRPB2	20	1460664	Silent	SNP	G	TCGA-B0-5694-01A-11D-1534-10		1460664	61564856	62	8234											
PARD6B	84612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	49367001	49367001	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcaaaaactcttagaagaAgatggaacaatcataacatt	20	9	6	6	0	3	3	2	0	1	3	3	5	3	4	0	1	3	0	0	1	8	3	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	49367001	A	T	49367001	3	4	147	1	0	0	0	0	1	0	0	0	11446	69	3	5	1105	5	PARD6B	20	49367001	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10	47906337	49367001	13658519	63	8235											
SON	6651	hgsc.bcm.edu	37	chr21	34925612	34925635	+	In_Frame_Del	DEL	GTCCTGGAGTCTTCGGCTGTGACC	GTCCTGGAGTCTTCGGCTGTGACC	-																															cagagtcttcagctatggctGtcctggagtcttcggctgtg																								novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	GTCCTGGAGTCTTCGGCTGTGACC	GTCCTGGAGTCTTCGGCTGTGACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		-	34925635	GTCCTGGAGTCTTCGGCTGTGACC	-	34925612	7	5	147	1	0	1	0	1	0	0	0	0	14928	1377	48	0	4085	0	SON	21	34925612	In_Frame_Del	DEL	GTCCTGGAGTCTTCGGCTGTGACC	TCGA-B0-5694-01A-11D-1534-10		34925612	13204283	64	8236											
MAMLD1	10046	broad.mit.edu;hgsc.bcm.edu	37	chrX	149639659	149639659	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcagcaacagcagcAgcagcctgaccattcttcat	12	6	9	14	0	2	1	1	1	1	0	2	1	2	1	2	0	8	7	2	0	1	2	novel		TCGA-B0-5694-01A-11D-1534-10	TCGA-B0-5694-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6edbaa05-b935-4f82-b070-8fc80ea6b609	543454fe-3924-4a76-8c1d-527e6e1c2937		T	149639659	A	T	149639659	3	4	147	1	0	0	0	0	1	0	0	0	9208	188	7	5	1824	5	MAMLD1	23	149639659	Missense_Mutation	SNP	A	TCGA-B0-5694-01A-11D-1534-10		149639659	5630901	65	8237											
TP73	7161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	3599704	3599704	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggaacggattccagcaTggacgtcttccacctggagg	8	7	15	11	3	1	0	0	0	1	0	3	4	3	4	3	6	2	1	3	6	1	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	3599704	T	C	3599704	3	2	148	1	0	0	0	0	1	0	0	0	16392	1464	51	3	152	3	TP73	1	3599704	Missense_Mutation	SNP	T	TCGA-B0-5695-01A-11D-1534-10		3599704	245650917	1	8238											
KIF1B	23095	broad.mit.edu;ucsc.edu	37	chr1	10412718	10412718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaataagcctgaggtggatGaagctgcagttgatgccatc	11	9	14	7	0	0	3	0	3	0	0	1	5	0	5	2	3	4	3	2	3	3	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	10412718	A	A	10412718	3	1	148	1	0	0	0	0	1	0	0	0	8284	1291	45	2	5468	2	KIF1B	1	10412718	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	6813014	10412718	238837903	2	8239											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16260060	16260060	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccagcaccggtggatgAggagcctcaagccaggttca	10	5	13	13	1	2	1	2	1	0	0	2	3	2	3	5	4	4	2	5	4	1	1	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	16260060	A	T	16260060	3	4	148	1	0	0	0	0	1	0	0	0	15039	304	11	5	7367	5	SPEN	1	16260060	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	5847342	16260060	232990561	3	8240											
MAP7D1	55700	broad.mit.edu	37	chr1	36644331	36644333	+	In_Frame_Del	DEL	GGA	-	-																															cgggaggccgaggcccgggcGgagcgggaggcggaggcccg																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		-	36644333	-	-	36644331	7	5	148	1	0	1	0	1	0	0	0	0	9267	1103	39	0	1974	0	MAP7D1	1	36644331	In_Frame_Del	DEL	GGA	TCGA-B0-5695-01A-11D-1534-10	20384271	36644331	212606290	4	8241											
HSD3B1	3283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120050234	120050234	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcggaccagaattgagagaGgaattttctagtaagtaaac	15	11	10	5	1	1	3	0	1	1	2	2	6	1	5	1	2	1	2	1	2	6	7	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	120050234	G	C	120050234	3	2	148	1	0	0	0	0	1	0	0	0	7390	991	35	4	137	4	HSD3B1	1	120050234	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	83405903	120050234	129200387	5	8242											
CACYBP	27101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	174973753	174973753	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttgtcttaacacagctaCagaaagatctagaagaggta	15	12	8	6	0	2	4	0	0	2	4	2	4	2	4	0	1	3	2	0	1	6	6	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	174973753	C	T	174973753	4	4	148	1	0	0	0	0	0	1	0	0	2564	479	17	2	25	2	CACYBP	1	174973753	Nonsense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	54923519	174973753	74276868	6	8243											
MAP4K3	8491	hgsc.bcm.edu;ucsc.edu	37	chr2	39564675	39564675	+	Frame_Shift_Del	DEL	T	T	-																															cacttgatttacctgcagtgTttctctgctaacatatgcaa																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		-	39564675	T	-	39564675	7	5	148	1	0	1	0	1	0	0	0	0	9261	1725	60	0	2446	0	MAP4K3	2	39564675	Frame_Shift_Del	DEL	T	TCGA-B0-5695-01A-11D-1534-10		39564675	203634698	7	8244											
PAPOLG	64895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61019416	61019416	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatagcccttctgtaggagaAacagaaaggtctgtctttat	12	12	10	7	0	3	2	0	0	3	2	3	4	3	2	1	2	2	1	1	2	5	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	61019416	A	T	61019416	3	4	148	1	0	0	0	0	1	0	0	0	11431	11	1	5	1737	5	PAPOLG	2	61019416	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	21454741	61019416	182179957	8	8245											
ST3GAL5	8869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86071563	86071563	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggctctgagtactgaaGgatgtcaaaggcagtctctt	10	11	12	8	0	3	3	1	3	2	0	4	4	3	4	0	3	1	3	0	3	3	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	86071563	G	C	86071563	3	2	148	1	0	0	0	0	1	0	0	0	15219	1000	35	4	300	4	ST3GAL5	2	86071563	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	25052147	86071563	157127810	9	8246											
RAB3GAP1	22930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	135926271	135926271	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccctactccaaagctctgCctcagcggatgtacagtgtt	8	11	8	14	1	2	0	1	0	1	0	4	1	4	1	3	1	5	3	3	1	3	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	135926271	C	A	135926271	3	1	148	1	0	0	0	0	1	0	0	0	12937	739	26	4	2985	4	RAB3GAP1	2	135926271	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	49854708	135926271	107273102	10	8247											
ATIC	471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216211658	216211658	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatatgtgactggaaccatTggcgaggtgaaagacttggc	12	9	13	7	1	0	3	0	2	0	1	0	5	0	4	1	4	1	0	1	4	4	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	216211658	T	C	216211658	2	2	148	1	0	0	0	0	0	0	0	1	1105	1800	63	3		3	ATIC	2	216211658	Silent	SNP	T	TCGA-B0-5695-01A-11D-1534-10	80285387	216211658	26987715	11	8248											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191482	10191482	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttccagtgtatactctgAaagagcgatgcctccaggtt	9	11	9	12	1	1	2	0	1	1	1	3	3	3	2	4	1	3	2	4	1	3	4	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	10191482	A	T	10191482	4	4	148	1	0	0	0	0	0	1	0	0	17161	247	9	5	485	5	VHL	3	10191482	Nonsense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10		10191482	187830948	12	8249											
IP6K2	51447	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48732607	48732607	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaccaggggcttgcacaGggttgtctcattgaagcgga	8	9	16	8	1	1	1	1	1	1	0	2	3	1	3	1	5	2	3	1	5	1	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	48732607	G	T	48732607	3	4	148	1	0	0	0	0	1	0	0	0	7789	991	35	4	1535	4	IP6K2	3	48732607	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	38541125	48732607	149289823	13	8250											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52682446	52682462	+	Frame_Shift_Del	DEL	TGTAGCTTCCATTCTAC	TGTAGCTTCCATTCTAC	-																															ggccattgcatgaatactttTgtagcttccattctacaata																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	TGTAGCTTCCATTCTAC	TGTAGCTTCCATTCTAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		-	52682462	TGTAGCTTCCATTCTAC	-	52682446	7	5	148	1	0	1	0	1	0	0	0	0	11491	1821	63	0	4269	0	PBRM1	3	52682446	Frame_Shift_Del	DEL	TGTAGCTTCCATTCTAC	TCGA-B0-5695-01A-11D-1534-10	3949839	52682446	145339984	14	8251											
USP38	84640	broad.mit.edu;hgsc.bcm.edu	37	chr4	144106648	144106648	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagttcctcgcatcccctGcccctcaagcgggtgattgt	5	11	11	14	2	1	2	1	2	0	0	4	2	3	2	5	1	2	2	5	1	1	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	144106648	G	A	144106648	2	1	148	1	0	0	0	0	0	0	0	1	17068	1306	46	2		2	USP38	4	144106648	Silent	SNP	G	TCGA-B0-5695-01A-11D-1534-10		144106648	47047628	15	8252											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127673799	127673799	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaaggagagggttacgtTcacattcgtcaatgtctgaa	13	11	10	7	2	3	2	2	1	1	1	4	3	3	2	0	2	2	2	0	2	5	4	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	127673799	T	A	127673799	3	1	148	1	0	0	0	0	1	0	0	0	5703	1783	62	5	5406	5	FBN2	5	127673799	Missense_Mutation	SNP	T	TCGA-B0-5695-01A-11D-1534-10		127673799	53241461	16	8253											
LAMA2	3908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	129588309	129588309	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtggcatctgtgagcCatgtcagtgctttggtcatg	5	16	13	7	0	3	1	2	1	1	0	3	1	3	1	1	3	2	2	1	3	0	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	129588309	C	T	129588309	3	4	148	1	0	0	0	0	1	0	0	0	8606	594	21	2	2329	2	LAMA2	6	129588309	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10		129588309	41526758	17	8254											
RSPH3	83861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	159420742	159420742	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgggcgggacgggaggttAccagcgcaggaggtgggagc	7	3	23	8	4	0	0	0	0	0	0	0	4	0	4	1	8	3	2	1	8	1	1	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	159420742	A	T	159420742	2	4	148	1	0	0	0	0	0	0	0	1	13707	378	14	5		5	RSPH3	6	159420742	Silent	SNP	A	TCGA-B0-5695-01A-11D-1534-10	29832433	159420742	11694325	18	8255											
FOXK1	221937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	4780487	4780487	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtaccttccggtttccCagcacggccatcaagatcca	9	9	9	14	2	1	1	1	0	0	1	4	1	4	1	5	3	2	3	5	3	2	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	4780487	C	T	4780487	2	4	148	1	0	0	0	0	0	0	0	1	6014	581	21	2		2	FOXK1	7	4780487	Silent	SNP	C	TCGA-B0-5695-01A-11D-1534-10		4780487	154358176	19	8256											
TYW1	55253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	66474585	66474585	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagggattcgcaacagttCttgctgaagcagttacatcc	11	12	9	9	1	1	1	0	1	1	0	3	2	2	2	1	1	4	5	1	1	4	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	66474585	C	A	66474585	3	1	148	1	0	0	0	0	1	0	0	0	16817	913	32	4	303	4	TYW1	7	66474585	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	61694098	66474585	92664078	20	8257											
FGL2	10875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	76829078	76829078	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaagtggcaagaacagcTgagctcagccagtaccagtt	12	7	11	11	1	1	2	1	1	0	1	1	2	1	2	3	1	5	6	3	1	4	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	76829078	T	C	76829078	2	2	148	1	0	0	0	0	0	0	0	1	5873	1567	55	3		3	FGL2	7	76829078	Silent	SNP	T	TCGA-B0-5695-01A-11D-1534-10	10354493	76829078	82309585	21	8258											
ZKSCAN1	7586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99631591	99631591	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aattcacacgggggagaaacCctatgaatgtagtgaatgtg	14	9	12	6	1	1	3	1	2	0	1	1	4	1	3	1	2	1	1	1	2	6	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	99631591	C	G	99631591	3	3	148	1	0	0	0	0	1	0	0	0	17685	623	22	4	1481	4	ZKSCAN1	7	99631591	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	22802513	99631591	59507072	22	8259											
ANKRD7	56311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117874795	117874795	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggattgtgctactattcttcTaaactttggtgcagacccag	9	14	9	9	0	2	1	0	0	2	1	2	2	2	2	1	2	4	2	1	2	4	7	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	117874795	T	C	117874795	3	2	148	1	0	0	0	0	1	0	0	0	686	1522	53	3	345	3	ANKRD7	7	117874795	Missense_Mutation	SNP	T	TCGA-B0-5695-01A-11D-1534-10	18243204	117874795	41263868	23	8260											
LRGUK	136332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	133812165	133812165	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaccagagctgcctcTctcctgagaggcttgggcag	7	8	14	12	0	1	3	0	2	1	2	3	5	2	4	3	3	2	3	3	3	0	1	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	133812165	T	C	133812165	2	2	148	1	0	0	0	0	0	0	0	1	8943	1538	54	3		3	LRGUK	7	133812165	Silent	SNP	T	TCGA-B0-5695-01A-11D-1534-10	15937370	133812165	25326498	24	8261											
TTC26	79989	broad.mit.edu;hgsc.bcm.edu	37	chr7	138822685	138822685	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactacaagagagctctggaGgttagtgtaaaaaaagtttt	15	11	11	4	0	1	1	0	0	1	1	1	4	1	2	0	2	2	4	0	2	7	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	138822685	G	A	138822685	2	1	148	1	0	0	0	0	0	0	0	1	16693	1014	35	2		2	TTC26	7	138822685	Silent	SNP	G	TCGA-B0-5695-01A-11D-1534-10	5010520	138822685	20315978	25	8262											
LMBR1	64327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156518213	156518213	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgacaacagaggacaccatAagatagctgtgagaatcaag	17	5	10	9	1	1	3	1	1	0	3	1	6	1	4	2	1	2	1	2	1	5	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	156518213	A	G	156518213	2	3	148	1	0	0	0	0	0	0	0	1	8840	349	13	3		3	LMBR1	7	156518213	Silent	SNP	A	TCGA-B0-5695-01A-11D-1534-10	17695528	156518213	2620450	26	8263											
CLN8	2055	broad.mit.edu;ucsc.edu	37	chr8	1728492	1728492	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttcactgccgcatggttcTaacctaccacatgtggtggg	7	12	11	11	1	2	0	1	0	1	0	2	0	2	0	3	3	3	3	3	3	2	4	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	1728492	A	A	1728492	3	1	148	1	0	0	0	0	1	0	0	0	3546	1522	53	5	626	5	CLN8	8	1728492	Missense_Mutation	SNP	T	TCGA-B0-5695-01A-11D-1534-10		1728492	144635530	27	8264											
RB1CC1	9821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	53586507	53586507	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacattaaaaaagggcagAtcaccatctttagtgtcaat	16	10	8	7	0	3	2	2	0	1	2	3	3	3	2	1	1	0	1	1	1	5	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	53586507	A	T	53586507	3	4	148	1	0	0	0	0	1	0	0	0	13101	330	12	5	3956	5	RB1CC1	8	53586507	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	51858015	53586507	92777515	28	8265											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	100847487	100847487	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaccctctcagaagaccCtagtcctcgagtaattatcc	11	12	5	13	1	1	2	1	0	1	2	5	3	3	2	4	0	1	1	4	0	5	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	100847487	C	G	100847487	3	3	148	1	0	0	0	0	1	0	0	0	17189	681	24	4	10152	4	VPS13B	8	100847487	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	47260980	100847487	45516535	29	8266											
PTPRD	5789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	8500875	8500875	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttccaaaaggtatttggtAgtgtccgaaggaattcccaa	12	12	10	7	1	0	0	0	0	0	0	3	2	3	1	3	3	0	3	3	3	7	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	8500875	A	T	8500875	2	4	148	1	0	0	0	0	0	0	0	1	12801	407	15	5		5	PTPRD	9	8500875	Silent	SNP	A	TCGA-B0-5695-01A-11D-1534-10		8500875	132712556	30	8267											
NFX1	4799	broad.mit.edu	37	chr9	33351750	33351750	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgtatggcaccctgccatAccagctcaccctgccctgtg	6	9	9	17	1	1	0	1	0	0	0	1	0	1	0	5	1	4	3	5	1	2	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	33351750	G	G	33351750	3	3	148	1	0	0	0	0	1	0	0	0	10387	391	14	3	2761	3	NFX1	9	33351750	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	24850875	33351750	107861681	31	8268											
GFI1B	8328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	135863634	135863634	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggactctccactgtccGactcacccccattctacaag	9	9	7	16	1	3	0	1	0	2	0	5	2	4	1	4	2	1	0	4	2	2	2	rs145562579	alternate_allele	TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	135863634	G	T	135863634	3	4	148	1	0	0	0	0	1	0	0	0	6340	1058	37	4	299	4	GFI1B	9	135863634	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	102511884	135863634	5349797	32	8269											
GBGT1	26301	broad.mit.edu;hgsc.bcm.edu	37	chr9	136029453	136029453	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgtgctggctgatggtCtccatccggcgcatggatgt	6	11	14	10	2	1	1	0	1	1	0	3	2	2	2	2	4	1	4	2	4	1	0	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	136029453	C	A	136029453	3	1	148	1	0	0	0	0	1	0	0	0	6272	912	32	4	492	4	GBGT1	9	136029453	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	165819	136029453	5183978	33	8270											
PLXDC2	84898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	20106053	20106053	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggccgctgcaggagttatGttactttgccacttcttcac	6	14	9	12	1	2	0	1	0	1	0	2	1	2	1	2	2	3	4	2	2	2	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	20106053	G	A	20106053	3	1	148	1	0	0	0	0	1	0	0	0	12118	1377	48	2	47	2	PLXDC2	10	20106053	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		20106053	115428694	34	8271											
SMC3	9126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	112360237	112360237	+	Missense_Mutation	SNP	G	G	C																															tgaaagaattaaattagaagGtattattactcgagtagaga																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	112360237	G	C	112360237	3	2	148	1	0	0	0	0	1	0	0	0	14786	1261	44	4	2554	4	SMC3	10	112360237	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	92254184	112360237	23174510	35	8272	112	2									
SMC3	9126	broad.mit.edu;ucsc.edu	37	chr10	112360239	112360239	+	Missense_Mutation	SNP	A	T	T																															aaagaattaaattagaaggtAttattactcgagtagagact																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	112360239	T	T	112360239	3	4	148	1	0	0	0	0	1	0	0	0	14786	449	16	5	2556	5	SMC3	10	112360239	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	2	112360239	23174508	36	8273	112	2									
OSBPL5	114879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3109542	3109542	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcggtgcctgtgctgcccGtgccgtggagctcagcatgg	3	9	17	12	3	1	0	1	0	0	0	2	1	1	1	3	4	6	3	3	4	0	0	rs150730024		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	3109542	G	A	3109542	3	1	148	1	0	0	0	0	1	0	0	0	11280	1144	40	1	110	1	OSBPL5	11	3109542	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		3109542	131896974	37	8274											
TRIM5	85363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5699642	5699642	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaaatctgccaagacgttgGttttgtcatactgtatttga	11	15	8	7	1	2	2	1	1	1	1	2	2	2	2	1	1	2	3	1	1	5	6	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	5699642	G	C	5699642	3	2	148	1	0	0	0	0	1	0	0	0	16524	1261	44	4	1204	4	TRIM5	11	5699642	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	2590100	5699642	129306874	38	8275											
USH1C	10083	broad.mit.edu;ucsc.edu	37	chr11	17544964	17544964	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagacccccacatctcAcctccttgtgatccaggtta	9	10	8	14	0	1	3	1	2	1	1	4	3	3	3	5	2	0	1	5	2	2	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	17544964	C	C	17544964	5	2	148	1	0	0	0	0	0	0	1	0	17033	173	6	5	2028	5	USH1C	11	17544964	Splice_Site	SNP	A	TCGA-B0-5695-01A-11D-1534-10	11845322	17544964	117461552	39	8276											
CCDC73	493860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32636393	32636393	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattacttctttatctaaggAgagggttttgcttaaggaga	12	15	10	4	0	2	2	0	0	2	2	2	4	2	2	0	3	2	2	0	3	5	8	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	32636393	A	T	32636393	3	4	148	1	0	0	0	0	1	0	0	0	2846	304	11	5	1780	5	CCDC73	11	32636393	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	15091429	32636393	102370123	40	8277											
EPS8	2059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	15803757	15803757	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttaaaaaaaaaactacCtctgtggataatctttttat	17	15	4	5	0	2	0	0	0	2	0	2	1	2	1	1	1	2	1	1	1	9	6	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	15803757	C	G	15803757	3	3	148	1	0	0	0	0	1	0	0	0	5194	695	24	4	1066	4	EPS8	12	15803757	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10		15803757	118048138	41	8278											
KIAA0528	0	hgsc.bcm.edu;ucsc.edu	37	chr12	22606900	22606900	+	Frame_Shift_Del	DEL	A	A	-																															agacaacagcattccctcctAatgcagcaacatgagctctc																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		-	22606900	A	-	22606900	7	5	148	1	0	1	0	1	0	0	0	0	8182	372	13	0	209	0	KIAA0528	12	22606900	Frame_Shift_Del	DEL	A	TCGA-B0-5695-01A-11D-1534-10	6803143	22606900	111244995	42	8279											
GNPTAB	79158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	102163955	102163955	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtaggcaagtggctcaaAtttcgaaaaacatcctttta	15	11	8	7	1	1	0	1	0	0	0	3	1	2	0	1	3	1	3	1	3	7	4	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	102163955	A	T	102163955	3	4	148	1	0	0	0	0	1	0	0	0	6545	98	4	5	2690	5	GNPTAB	12	102163955	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	79557055	102163955	31687940	43	8280											
HVCN1	84329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	111089162	111089162	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaggatctcaaacttgTggtgaaagaactccaggcgg	12	8	11	10	1	1	2	1	1	1	1	4	3	3	3	2	4	2	0	2	4	3	1	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	111089162	T	C	111089162	3	2	148	1	0	0	0	0	1	0	0	0	7462	1696	59	3	330	3	HVCN1	12	111089162	Missense_Mutation	SNP	T	TCGA-B0-5695-01A-11D-1534-10	8925207	111089162	22762733	44	8281											
TRIP11	9321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	92470128	92470128	+	Missense_Mutation	SNP	G	G	T																															aacatcttgtttctcctttaGctgcttgatttctgaatcgg																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	92470128	G	T	92470128	3	4	148	1	0	0	0	0	1	0	0	0	16554	962	34	4	1791	4	TRIP11	14	92470128	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		92470128	14879412	45	8282	113	2									
TRIP11	9321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	92470129	92470129	+	Silent	SNP	C	C	T																															acatcttgtttctcctttagCtgcttgatttctgaatcggt																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	92470129	C	T	92470129	2	4	148	1	0	0	0	0	0	0	0	1	16554	796	28	2		2	TRIP11	14	92470129	Silent	SNP	C	TCGA-B0-5695-01A-11D-1534-10	1	92470129	14879411	46	8283	113	2									
HERC2	8924	broad.mit.edu;hgsc.bcm.edu	37	chr15	28387457	28387457	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggaggccatgcagtacCtccggaaccaggcccacttg	9	5	12	15	2	0	0	0	0	0	0	1	2	1	2	5	4	3	2	5	4	2	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	28387457	C	A	28387457	3	1	148	1	0	0	0	0	1	0	0	0	7058	681	24	4	2949	4	HERC2	15	28387457	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10		28387457	74143935	47	8284											
MGA	23269	hgsc.bcm.edu;ucsc.edu	37	chr15	42003437	42003437	+	Frame_Shift_Del	DEL	C	C	-																															ctccaggcttgtctaaatctCaggtgaagctaatggacctg																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		-	42003437	C	-	42003437	7	5	148	1	0	1	0	1	0	0	0	0	9540	827	29	0	3000	0	MGA	15	42003437	Frame_Shift_Del	DEL	C	TCGA-B0-5695-01A-11D-1534-10	13615980	42003437	60527955	48	8285											
NEDD4	4734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56208589	56208589	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttactaaggctaccactAcaaatggctggactgcttac	13	10	8	10	0	0	0	0	0	0	0	0	1	0	1	1	3	5	4	1	3	7	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	56208589	A	G	56208589	2	3	148	1	0	0	0	0	0	0	0	1	10310	389	14	3		3	NEDD4	15	56208589	Silent	SNP	A	TCGA-B0-5695-01A-11D-1534-10	14205152	56208589	46322803	49	8286											
AARS	16	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	70296355	70296355	+	Frame_Shift_Del	DEL	C	C	-																															gcaccactccacactcctggCctgtggacacctcttccacg																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		-	70296355	C	-	70296355	7	5	148	1	0	1	0	1	0	0	0	0	19	739	26	0	1381	0	AARS	16	70296355	Frame_Shift_Del	DEL	C	TCGA-B0-5695-01A-11D-1534-10		70296355	20058398	50	8287											
AATK	9625	broad.mit.edu;hgsc.bcm.edu	37	chr17	79094705	79094705	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgccgcacttcttctctgGgcctgaggtggcctcggcct	2	10	12	17	3	2	1	0	1	2	0	4	1	2	1	5	4	0	1	5	4	0	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	79094705	G	T	79094705	3	4	148	1	0	0	0	0	1	0	0	0	26	1232	43	4	1109	4	AATK	17	79094705	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		79094705	2100505	51	8288											
EMR1	2015	hgsc.bcm.edu;ucsc.edu	37	chr19	6903923	6903923	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tggctttgcaccaagcaatgGacagttgaatttcacagacc	12	10	9	10	0	1	2	1	1	0	1	1	3	1	3	2	2	2	4	2	2	3	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	6903923	G	C	6903923	3	2	148	1	0	0	0	0	1	0	0	0	5104	1174	41	4	790	4	EMR1	19	6903923	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		6903923	52225060	52	8289											
LIPE	3991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42930828	42930828	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaggtttagcctgggcCgcaggtgttgattcagcttc	5	12	13	11	1	1	1	1	1	0	0	3	1	2	1	3	3	2	5	3	3	1	5	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	42930828	C	T	42930828	2	4	148	1	0	0	0	0	0	0	0	1	8821	639	23	1		1	LIPE	19	42930828	Silent	SNP	C	TCGA-B0-5695-01A-11D-1534-10	36026905	42930828	16198155	53	8290											
SAE1	10055	hgsc.bcm.edu	37	chr19	47646781	47646782	+	Frame_Shift_Ins	INS	-	-	T																															ctcgggtgcttcttgtcggcINSttgaaaggacttggggctga																								novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	47646782	-	T	47646781	7	5	148	1	0	1	1	0	0	0	0	0	13807	784	28	0	135	0	SAE1	19	47646781	Frame_Shift_Ins	INS	-	TCGA-B0-5695-01A-11D-1534-10	4715953	47646781	11482202	54	8291											
CA11	770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49147826	49147826	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggccccagaaaggaggcCctgggggtggggtcggagta	8	4	19	10	1	0	1	0	0	0	1	1	3	0	3	4	8	0	1	4	8	2	1	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	49147826	C	G	49147826	3	3	148	1	0	0	0	0	1	0	0	0	2512	637	22	4	871	4	CA11	19	49147826	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	1501045	49147826	9981157	55	8292											
IZUMO1	284359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49249008	49249008	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaggcaggtaatctttctCcagggactttagcgccagca	9	9	11	12	1	2	0	0	0	2	0	3	1	2	1	3	3	2	3	3	3	2	4	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	49249008	C	A	49249008	4	1	148	1	0	0	0	0	0	1	0	0	7933	864	30	4	979	4	IZUMO1	19	49249008	Nonsense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	101182	49249008	9879975	56	8293											
PHACTR3	116154	broad.mit.edu;hgsc.bcm.edu	37	chr20	58342420	58342420	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcccactccgccacccaagGcaagctccaaaaccacaaaa	15	3	5	18	1	0	0	0	0	0	0	2	0	2	0	6	1	3	2	6	1	6	0	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	58342420	G	A	58342420	3	1	148	1	0	0	0	0	1	0	0	0	11811	1203	42	2	739	2	PHACTR3	20	58342420	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		58342420	4683100	57	8294											
YTHDF1	54915	broad.mit.edu;ucsc.edu	37	chr20	61834018	61834018	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctgctcatgcagcggAaggcgctgtccaggcgcttg	5	9	14	13	3	1	0	1	0	0	0	2	1	2	1	2	3	4	5	2	3	1	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	61834018	G	G	61834018	3	3	148	1	0	0	0	0	1	0	0	0	17497	246	9	3	413	3	YTHDF1	20	61834018	Missense_Mutation	SNP	A	TCGA-B0-5695-01A-11D-1534-10	3491598	61834018	1191502	58	8295											
CLIC6	54102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	36081036	36081036	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccaacatcccgaatctaattCcgcaggaaatgacgtgtttg	12	10	8	11	3	1	1	0	1	1	0	3	3	3	2	3	1	1	2	3	1	4	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	36081036	C	G	36081036	3	3	148	1	0	0	0	0	1	0	0	0	3530	855	30	4	1663	4	CLIC6	21	36081036	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10		36081036	12048859	59	8296											
PFKL	5211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	45742915	45742915	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggtattcacgccctgctgGtggtcggtgggtttgaggtg	4	13	17	7	2	1	1	1	1	0	0	2	1	1	1	1	6	1	3	1	6	1	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	45742915	G	A	45742915	3	1	148	1	0	0	0	0	1	0	0	0	11764	1261	44	2	1538	2	PFKL	21	45742915	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	9661879	45742915	2386980	60	8297											
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu	37	chr22	21081564	21081564	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtactgcgccgtgagaGggtgcggcgggtacatgctg	5	7	17	12	5	0	1	0	1	0	1	0	2	0	1	3	3	5	3	3	3	2	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		A	21081564	G	A	21081564	3	1	148	1	0	0	0	0	1	0	0	0	11873	1000	35	2	1473	2	PI4KA	22	21081564	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10		21081564	30223002	61	8298											
SF3A1	10291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30736281	30736281	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aagtccaatgcgcatgtgttCctgcattttgctggcgggga	7	12	13	9	2	0	0	0	0	0	0	2	1	2	1	2	3	3	4	2	3	2	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		G	30736281	C	G	30736281	3	3	148	1	0	0	0	0	1	0	0	0	14148	864	30	4	1134	4	SF3A1	22	30736281	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11D-1534-10	9654717	30736281	20568285	62	8299											
APOL5	80831	broad.mit.edu;hgsc.bcm.edu	37	chr22	36123112	36123112	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaggaactgagagcacttGctaagaagctggagcaggag	14	5	15	7	0	0	3	0	1	0	3	0	7	0	6	0	3	5	4	0	3	3	2	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	36123112	G	T	36123112	3	4	148	1	0	0	0	0	1	0	0	0	809	1319	46	4	1007	4	APOL5	22	36123112	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	5386831	36123112	15181454	63	8300											
VSIG1	340547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107304759	107304759	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggaagatgtagctggacCtctgaggtaagaacacttat	12	9	13	7	1	1	3	0	1	1	2	1	5	1	5	1	4	2	3	1	4	5	3	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	107304759	C	T	107304759	2	4	148	1	0	0	0	0	0	0	0	1	17221	668	24	2		2	VSIG1	23	107304759	Silent	SNP	C	TCGA-B0-5695-01A-11D-1534-10		107304759	47965801	64	8301											
THOC2	57187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	122769988	122769988	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagaccagcaagatcaattgGatatttacgaaaaactgcac	18	8	7	8	1	1	2	1	0	0	2	1	4	1	3	1	1	4	2	1	1	7	4	novel		TCGA-B0-5695-01A-11D-1534-10	TCGA-B0-5695-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0202c44b-88d5-435d-9c25-300ca96537d4	e82fdc8b-d411-410a-9b4c-f66f9077be6d		C	122769988	G	C	122769988	3	2	148	1	0	0	0	0	1	0	0	0	15864	1174	41	4	2901	4	THOC2	23	122769988	Missense_Mutation	SNP	G	TCGA-B0-5695-01A-11D-1534-10	15465229	122769988	32500572	65	8302											
VHL	7428	hgsc.bcm.edu	37	chr3	10183664	10183664	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggcccggaagagtccggcCcggaggaactgggcgccgag	7	2	18	14	6	0	1	0	0	0	1	1	5	1	4	5	6	1	0	5	6	2	0	novel		TCGA-B0-5695-01A-11W-1584-10	TCGA-B0-5695-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	06b449c9-8ada-46d7-b772-9898a5df5256	e82fdc8b-d411-410a-9b4c-f66f9077be6d		T	10183664	C	T	10183664	3	4	149	1	0	0	0	0	1	0	0	0	17161	623	22	2	135	2	VHL	3	10183664	Missense_Mutation	SNP	C	TCGA-B0-5695-01A-11W-1584-10		10183664	187838766	1	8303											
CA6	765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	9019022	9019022	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctatgatatagcccaagaTgcgccggatggtttggctgt	9	11	13	8	2	0	2	0	1	0	1	0	3	0	3	2	3	3	3	2	3	4	4	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	9019022	T	C	9019022	2	2	150	1	0	0	0	0	0	0	0	1	2521	1461	51	3		3	CA6	1	9019022	Silent	SNP	T	TCGA-B0-5696-01A-11D-1534-10		9019022	240231599	1	8304											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11217230	11217230	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccccaaggcctcgaggCagcgcatgcggcccagcatc	8	5	11	17	3	0	0	0	0	0	0	3	1	1	0	4	3	3	3	4	3	1	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	11217230	C	T	11217230	3	4	150	1	0	0	0	0	1	0	0	0	9954	710	25	2	3317	2	MTOR	1	11217230	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	2198208	11217230	238033391	2	8305											
FCN3	8547	hgsc.bcm.edu;ucsc.edu	37	chr1	27695848	27695852	+	Frame_Shift_Del	DEL	CGGTA	CGGTA	-																															agcgaccattgagatttgatCggtaacaggatgcataccac																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	CGGTA	CGGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		-	27695852	CGGTA	-	27695848	7	5	150	1	0	1	0	1	0	0	0	0	5793	884	31	0	124	0	FCN3	1	27695848	Frame_Shift_Del	DEL	CGGTA	TCGA-B0-5696-01A-11D-1534-10	16478618	27695848	221554773	3	8306											
SHISA4	149345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201860697	201860697	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccagtctacaaccctgcagGtaagtaagcaatctggagcc	12	7	9	13	0	2	0	0	0	2	0	2	1	2	1	3	2	5	4	3	2	5	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	201860697	G	T	201860697	5	4	150	1	0	0	0	0	0	0	1	0	14284	1275	44	4	562	4	SHISA4	1	201860697	Splice_Site	SNP	G	TCGA-B0-5696-01A-11D-1534-10	174164849	201860697	47389924	4	8307											
ALMS1	7840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73651859	73651859	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacacgaaaagatacacagTggcctgaaaacaatttagct	18	7	8	8	1	0	3	0	1	0	2	0	4	0	3	1	1	3	1	1	1	7	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	73651859	T	A	73651859	3	1	150	1	0	0	0	0	1	0	0	0	535	1696	59	5	1084	5	ALMS1	2	73651859	Missense_Mutation	SNP	T	TCGA-B0-5696-01A-11D-1534-10		73651859	169547514	5	8308											
FASTKD1	79675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170411720	170411720	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagttatcttcaacaactcTaatggtttatagccatccaa	13	14	5	9	0	3	1	1	1	2	0	4	1	4	1	2	1	3	2	2	1	7	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	170411720	T	C	170411720	2	2	150	1	0	0	0	0	0	0	0	1	5685	1519	53	3		3	FASTKD1	2	170411720	Silent	SNP	T	TCGA-B0-5696-01A-11D-1534-10	96759861	170411720	72787653	6	8309											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191479	10191480	+	Frame_Shift_Ins	INS	-	-	T																															tgcccttccagtgtatactcINStgaaagagcgatgcctccag																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	10191480	-	T	10191479	7	5	150	1	0	1	1	0	0	0	0	0	17161	912	32	0	482	0	VHL	3	10191479	Frame_Shift_Ins	INS	-	TCGA-B0-5696-01A-11D-1534-10		10191479	187830951	7	8310											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643401	52643401	+	Frame_Shift_Del	DEL	T	T	-																															aatcaagccgacggtagcgaTtattttcaacattcttccta																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		-	52643401	T	-	52643401	7	5	150	1	0	1	0	1	0	0	0	0	11491	1493	52	0	2465	0	PBRM1	3	52643401	Frame_Shift_Del	DEL	T	TCGA-B0-5696-01A-11D-1534-10	42451922	52643401	145379029	8	8311											
SPATA5	166378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	123868400	123868400	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgttaggaagtaagtgaaGgacaagtgttggttcttggg	10	14	15	2	0	1	1	0	1	1	0	1	3	1	3	0	4	0	4	0	4	5	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	123868400	G	T	123868400	4	4	150	1	0	0	0	0	0	1	0	0	15012	1001	35	4	1505	4	SPATA5	4	123868400	Nonsense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10		123868400	67285876	9	8312											
FAM105A	54491	hgsc.bcm.edu;ucsc.edu	37	chr5	14601213	14601213	+	Frame_Shift_Del	DEL	T	T	-																															ttccggaggctacatttataTtcagggcacaagctgaaatg																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		-	14601213	T	-	14601213	7	5	150	1	0	1	0	1	0	0	0	0	5387	1500	52	0	210	0	FAM105A	5	14601213	Frame_Shift_Del	DEL	T	TCGA-B0-5696-01A-11D-1534-10		14601213	166314047	10	8313											
BDP1	55814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70856036	70856036	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagcaaatggatagcagaAcatcgtcttctaaagcctca	14	9	7	11	1	4	1	2	0	2	1	5	2	4	2	1	1	4	2	1	1	5	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	70856036	A	C	70856036	3	2	150	1	0	0	0	0	1	0	0	0	1395	43	2	5	7614	5	BDP1	5	70856036	Missense_Mutation	SNP	A	TCGA-B0-5696-01A-11D-1534-10	56254823	70856036	110059224	11	8314											
MAN2A1	4124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	109110522	109110522	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagatcagtaccgaaagaaGtcaaagctttttcgtaccaa	15	10	7	9	2	2	2	2	0	0	2	3	3	2	2	2	0	3	3	2	0	7	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	109110522	G	C	109110522	3	2	150	1	0	0	0	0	1	0	0	0	9214	1020	36	4	1260	4	MAN2A1	5	109110522	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	38254486	109110522	71804738	12	8315											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127645724	127645724	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtactcaggtgggcaaatGcaggtgtaatttcccagggt	10	11	13	7	0	1	0	1	0	0	0	2	0	2	0	1	4	2	4	1	4	3	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	127645724	G	A	127645724	2	1	150	1	0	0	0	0	0	0	0	1	5703	1311	46	2		2	FBN2	5	127645724	Silent	SNP	G	TCGA-B0-5696-01A-11D-1534-10	18535202	127645724	53269536	13	8316											
ISOC1	51015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	128441025	128441025	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caatggtattaccagaagtaGaagcggcattagcagagatt	15	9	11	6	1	0	3	0	0	0	3	0	4	0	3	1	2	3	4	1	2	7	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	128441025	G	C	128441025	3	2	150	1	0	0	0	0	1	0	0	0	7862	943	33	4	587	4	ISOC1	5	128441025	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	795301	128441025	52474235	14	8317											
ANKHD1	54882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139889648	139889648	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaagggaaatacgccacTttggctggcatccaatggag	14	7	11	9	1	0	0	0	0	0	0	1	2	1	2	2	4	1	2	2	4	5	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	139889648	T	G	139889648	3	3	150	1	0	0	0	0	1	0	0	0	628	1609	56	5	4178	5	ANKHD1	5	139889648	Missense_Mutation	SNP	T	TCGA-B0-5696-01A-11D-1534-10	11448623	139889648	41025612	15	8318											
NMUR2	56923	broad.mit.edu;hgsc.bcm.edu	37	chr5	151784191	151784191	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgaggatcctgagggcccGgcgccgggtgctctgcagtt	4	7	17	13	4	1	1	0	1	1	0	2	3	2	2	4	4	2	3	4	4	0	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	151784191	G	A	151784191	3	1	150	1	0	0	0	0	1	0	0	0	10507	1115	39	1	779	1	NMUR2	5	151784191	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	11894543	151784191	29131069	16	8319											
KIAA0240	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	42832809	42832809	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtactgagagcaaactGtcaagcatcctagcagattc	13	9	9	10	0	1	2	1	1	0	2	3	3	2	2	1	1	5	4	1	1	4	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	42832809	G	A	42832809	2	1	150	1	0	0	0	0	0	0	0	1	8164	1364	48	2		2	KIAA0240	6	42832809	Silent	SNP	G	TCGA-B0-5696-01A-11D-1534-10		42832809	128282258	17	8320											
GSTA4	2941	hgsc.bcm.edu;ucsc.edu	37	chr6	52850359	52850361	+	In_Frame_Del	DEL	TTG	TTG	-																															tcaatttcaaccatgggcacTtgttggaacagcaggtggtt																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		-	52850361	TTG	-	52850359	7	5	150	1	0	1	0	1	0	0	0	0	6833	1606	56	0	522	0	GSTA4	6	52850359	In_Frame_Del	DEL	TTG	TCGA-B0-5696-01A-11D-1534-10	10017550	52850359	118264708	18	8321											
MLLT4	4301	broad.mit.edu;ucsc.edu	37	chr6	168349093	168349093	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctcctcctcagaaccagTggccaaattatgaggaaaag	13	8	10	10	0	1	2	1	1	0	1	3	3	3	3	4	3	1	1	4	3	5	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	168349093	G	G	168349093	3	3	150	1	0	0	0	0	1	0	0	0	9629	1696	59	5	3855	5	MLLT4	6	168349093	Missense_Mutation	SNP	T	TCGA-B0-5696-01A-11D-1534-10	115498734	168349093	2765974	19	8322											
PPP1R9A	55607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94881334	94881334	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggactcaagttaacaatAataacaacatctttgagaga	18	10	7	6	0	2	2	1	1	1	1	2	4	2	3	0	1	3	1	0	1	6	4	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	94881334	A	T	94881334	3	4	150	1	0	0	0	0	1	0	0	0	12380	362	13	5	2599	5	PPP1R9A	7	94881334	Missense_Mutation	SNP	A	TCGA-B0-5696-01A-11D-1534-10		94881334	64257329	20	8323											
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121651686	121651686	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatgcttctctgccagtGgctgggggtgatttgctatt	4	16	13	8	0	1	1	0	1	1	0	2	1	1	1	1	3	4	4	1	3	1	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	121651686	G	A	121651686	2	1	150	1	0	0	0	0	0	0	0	1	12816	1335	47	2		2	PTPRZ1	7	121651686	Silent	SNP	G	TCGA-B0-5696-01A-11D-1534-10	26770352	121651686	37486977	21	8324											
DEFA4	1669	broad.mit.edu;ucsc.edu	37	chr8	6793661	6793661	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaccatgccccttgttgAgcctgggaacacagaggaag	11	6	13	11	0	0	3	0	1	0	2	0	5	0	5	4	2	3	2	4	2	2	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	6793661	G	G	6793661	3	3	150	1	0	0	0	0	1	0	0	0	4391	304	11	3	122	3	DEFA4	8	6793661	Missense_Mutation	SNP	A	TCGA-B0-5696-01A-11D-1534-10		6793661	139570361	22	8325											
COL27A1	85301	broad.mit.edu;hgsc.bcm.edu	37	chr9	116931616	116931616	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggccctggtattggcccCggcgcaattcctgtcctcca	4	9	10	18	3	0	0	0	0	0	0	3	0	3	0	7	4	0	2	7	4	2	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	116931616	C	T	116931616	3	4	150	1	0	0	0	0	1	0	0	0	3685	652	23	1	1791	1	COL27A1	9	116931616	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10		116931616	24281815	23	8326											
ABL1	25	broad.mit.edu;ucsc.edu	37	chr9	133729596	133729596	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatgattttgtggccagTggagataacactctaagcat	11	13	10	7	0	1	2	0	1	1	1	1	3	1	2	1	2	2	2	1	2	3	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	133729596	G	G	133729596	3	3	150	1	0	0	0	0	1	0	0	0	92	1693	59	5	371	5	ABL1	9	133729596	Missense_Mutation	SNP	T	TCGA-B0-5696-01A-11D-1534-10	16797980	133729596	7483835	24	8327											
UPF2	26019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12009344	12009344	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaattcagcactaacctttAaacaatgcagtgtgtcattt	13	14	5	9	0	2	0	2	0	0	0	2	0	2	0	1	0	4	2	1	0	5	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	12009344	A	G	12009344	3	3	150	1	0	0	0	0	1	0	0	0	17003	372	13	3	1807	3	UPF2	10	12009344	Missense_Mutation	SNP	A	TCGA-B0-5696-01A-11D-1534-10		12009344	123525403	25	8328											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	16957110	16957110	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaacctgaccacagcagtAttgctagaagtgtctatgct	13	10	8	10	0	1	2	0	1	1	1	1	2	1	2	2	0	4	4	2	0	5	4	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	16957110	A	G	16957110	2	3	150	1	0	0	0	0	0	0	0	1	4051	446	16	3		3	CUBN	10	16957110	Silent	SNP	A	TCGA-B0-5696-01A-11D-1534-10	4947766	16957110	118577637	26	8329											
MLLT10	8028	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	22023041	22023041	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcaacacatccaatgccAgctacactgactaacaggta	16	7	6	12	0	0	1	0	1	0	0	1	1	1	1	2	1	6	3	2	1	6	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	22023041	A	C	22023041	2	2	150	1	0	0	0	0	0	0	0	1	9626	175	7	5		5	MLLT10	10	22023041	Silent	SNP	A	TCGA-B0-5696-01A-11D-1534-10	5065931	22023041	113511706	27	8330											
MYO3A	53904	broad.mit.edu;ucsc.edu	37	chr10	26377180	26377180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttacaagtgaacaatttgGtagaagcctttggcaatgcc	12	13	9	7	0	0	2	0	1	0	1	0	2	0	2	2	2	4	2	2	2	7	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	26377180	T	T	26377180	3	4	150	1	0	0	0	0	1	0	0	0	10076	1261	44	4	1458	4	MYO3A	10	26377180	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	4354139	26377180	109157567	28	8331											
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129906188	129906188	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatgatgatgtctttctCttcacctactgatggtttag	10	17	7	7	0	3	3	1	3	2	0	4	3	3	3	1	1	1	1	1	1	4	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	129906188	C	A	129906188	4	1	150	1	0	0	0	0	0	1	0	0	9598	922	32	4	5866	4	MKI67	10	129906188	Nonsense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	103529008	129906188	5628559	29	8332											
FANCF	2188	broad.mit.edu	37	chr11	22647097	22647097	+	Frame_Shift_Del	DEL	C	-	-																															agagcaggacgtcacagtgaCcgagggcctggaagttcgct																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		-	22647097	-	-	22647097	7	5	150	1	0	1	0	1	0	0	0	0	5667	507	18	0	868	0	FANCF	11	22647097	Frame_Shift_Del	DEL	C	TCGA-B0-5696-01A-11D-1534-10		22647097	112359419	30	8333											
ANO3	63982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	26558968	26558968	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaggtatccgtaaacttaTaaacaatggctcatacatag	15	11	7	8	1	1	0	1	0	0	0	2	0	2	0	1	2	4	4	1	2	9	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	26558968	T	C	26558968	3	2	150	1	0	0	0	0	1	0	0	0	698	1406	49	3	1030	3	ANO3	11	26558968	Missense_Mutation	SNP	T	TCGA-B0-5696-01A-11D-1534-10	3911871	26558968	108447548	31	8334											
OR5J2	282775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55944821	55944821	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agccttctccacctgtgcctCtcacctgactgctgtgacca	6	11	7	17	0	2	2	1	2	2	0	4	2	2	2	6	0	3	1	6	0	0	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	55944821	C	G	55944821	3	3	150	1	0	0	0	0	1	0	0	0	11165	913	32	4	730	4	OR5J2	11	55944821	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	29385853	55944821	79061695	32	8335											
PDE3A	5139	broad.mit.edu;ucsc.edu	37	chr12	20801757	20801757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagcatttccgtttccttGtcattgaagcaattttggcc	8	17	7	9	1	1	1	1	1	0	0	3	1	3	1	3	1	2	3	3	1	3	7	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	20801757	T	T	20801757	3	4	150	1	0	0	0	0	1	0	0	0	11637	1377	48	4	2751	4	PDE3A	12	20801757	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10		20801757	113050138	33	8336											
LIMA1	51474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50571222	50571222	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagccttggcattttccacTtgtttcctttctgcaactct	6	17	6	12	0	2	0	0	0	2	0	4	1	4	0	3	1	3	3	3	1	2	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	50571222	T	C	50571222	2	2	150	1	0	0	0	0	0	0	0	1	8796	1606	56	3		3	LIMA1	12	50571222	Silent	SNP	T	TCGA-B0-5696-01A-11D-1534-10	29769465	50571222	83280673	34	8337											
SLITRK5	26050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	88329572	88329572	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactcctgcggtccggttGaatagcaccggggcccccgc	5	7	14	15	4	0	2	0	2	0	0	2	2	2	2	5	4	2	2	5	4	2	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	88329572	G	T	88329572	3	4	150	1	0	0	0	0	1	0	0	0	14748	1281	45	4	1931	4	SLITRK5	13	88329572	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10		88329572	26840306	35	8338											
ABCC4	10257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95859006	95859006	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aattcatccctctgaggcagGaacttctcagaatcttggaa	12	11	8	10	0	4	2	2	1	3	1	6	4	5	4	1	3	1	1	1	3	4	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	95859006	G	C	95859006	3	2	150	1	0	0	0	0	1	0	0	0	55	1174	41	4	3181	4	ABCC4	13	95859006	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	7529434	95859006	19310872	36	8339											
FARP1	10160	broad.mit.edu	37	chr13	99092447	99092447	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggcggagaagagcagcAgccccgcccctgagttcctg	8	5	13	15	2	0	3	0	1	0	2	1	4	1	3	6	2	3	3	6	2	1	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	99092447	G	G	99092447	3	3	150	1	0	0	0	0	1	0	0	0	5676	188	7	3	2896	3	FARP1	13	99092447	Missense_Mutation	SNP	A	TCGA-B0-5696-01A-11D-1534-10	3233441	99092447	16077431	37	8340											
LRRC57	255252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42837393	42837393	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcatgctgagctcaagaCaattctcttccaggcgaaga	13	8	10	10	1	2	3	1	1	1	2	4	5	3	3	1	1	3	3	1	1	4	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	42837393	C	A	42837393	3	1	150	1	0	0	0	0	1	0	0	0	9013	478	17	4	167	4	LRRC57	15	42837393	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10		42837393	59693999	38	8341											
ANPEP	290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90348359	90348359	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagtcgaactcactgacaaTgaaggccagcaagtacgtgg	13	7	12	9	2	1	2	1	2	0	0	2	3	1	2	1	2	3	3	1	2	6	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		C	90348359	T	C	90348359	3	2	150	1	0	0	0	0	1	0	0	0	710	1464	51	3	2128	3	ANPEP	15	90348359	Missense_Mutation	SNP	T	TCGA-B0-5696-01A-11D-1534-10	47510966	90348359	12183033	39	8342											
IL21R	50615	broad.mit.edu;ucsc.edu	37	chr16	27455987	27455987	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcctggctcctcctaccAggggacctggagtgaatgga	8	8	13	12	0	0	1	0	1	0	0	2	4	2	4	5	5	2	1	5	5	2	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	27455987	G	G	27455987	3	3	150	1	0	0	0	0	1	0	0	0	7671	188	7	3	650	3	IL21R	16	27455987	Missense_Mutation	SNP	A	TCGA-B0-5696-01A-11D-1534-10		27455987	62898766	40	8343											
FANCA	2175	broad.mit.edu	37	chr16	89877420	89877420	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctagaggcaaccatccCggctgagagaatacccacgg	12	4	11	14	3	0	3	0	1	0	2	1	4	1	3	3	3	2	3	3	3	4	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	89877420	G	G	89877420	3	3	150	1	0	0	0	0	1	0	0	0	5662	652	23	4	4189	4	FANCA	16	89877420	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	62421433	89877420	477333	41	8344											
CACNA1G	8913	broad.mit.edu;hgsc.bcm.edu	37	chr17	48647166	48647166	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattaaccgggtgcccagTgagtgacccctcagccctca	8	7	10	16	1	2	2	2	2	0	0	2	2	2	2	6	1	3	0	6	1	1	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	48647166	T	A	48647166	5	1	150	1	0	0	0	0	0	0	1	0	2544	1710	59	5	602	5	CACNA1G	17	48647166	Splice_Site	SNP	T	TCGA-B0-5696-01A-11D-1534-10		48647166	32548044	42	8345											
FAM104A	84923	broad.mit.edu	37	chr17	71205829	71205829	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggtctggctcaagctgccttCcggcccgctggccctgtccg	2	9	13	17	3	2	0	1	0	1	0	4	0	4	0	5	4	2	3	5	4	1	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	71205829	G	G	71205829	3	3	150	1	0	0	0	0	1	0	0	0	5385	864	30	4	164	4	FAM104A	17	71205829	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	22558663	71205829	9989381	43	8346											
SDK2	54549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	71415436	71415436	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccgtggggggctcctcgggGagggagaccctggatcacaa	7	5	18	11	2	1	1	1	0	0	1	3	4	2	3	3	7	0	1	3	7	1	0	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	71415436	G	T	71415436	2	4	150	1	0	0	0	0	0	0	0	1	13971	1161	41	4		4	SDK2	17	71415436	Silent	SNP	G	TCGA-B0-5696-01A-11D-1534-10	209607	71415436	9779774	44	8347											
RPTOR	57521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78727975	78727975	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacccccatcaagatcGccctgcgctggtgagtggcc	7	7	10	17	2	2	2	2	1	0	1	3	2	2	2	5	2	1	1	5	2	1	0	rs148973724		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	78727975	G	A	78727975	3	1	150	1	0	0	0	0	1	0	0	0	13667	1087	38	1	842	1	RPTOR	17	78727975	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	7312539	78727975	2467235	45	8348											
FASN	2194	broad.mit.edu;hgsc.bcm.edu	37	chr17	80041659	80041659	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactcacccttcccgcccGtgtgccacagcacatgctgc	6	7	8	20	2	1	0	1	0	0	0	2	0	2	0	5	0	4	2	5	0	0	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	80041659	G	A	80041659	3	1	150	1	0	0	0	0	1	0	0	0	5683	1145	40	1	2384	1	FASN	17	80041659	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	1313684	80041659	1153551	46	8349											
PIGN	23556	hgsc.bcm.edu;ucsc.edu	37	chr18	59821799	59821799	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaacattatcaaaaacccaCgtatccagttttgttgcatc	13	14	4	10	1	1	0	1	0	0	0	3	0	2	0	2	0	3	4	2	0	5	6	rs144304758	by1000genomes;alternate_allele	TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	59821799	C	G	59821799	2	3	150	1	0	0	0	0	0	0	0	1	11893	523	19	4		4	PIGN	18	59821799	Silent	SNP	C	TCGA-B0-5696-01A-11D-1534-10		59821799	18255449	47	8350											
RTTN	25914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	67742714	67742714	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaatggcagtgatataaaaGagcctgaagggcaggttttc	15	9	12	5	0	0	3	0	2	0	1	1	3	0	3	1	3	1	3	1	3	6	4	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	67742714	G	A	67742714	3	1	150	1	0	0	0	0	1	0	0	0	13739	942	33	2	2310	2	RTTN	18	67742714	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	7920915	67742714	10334534	48	8351											
C3	718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6714022	6714022	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggcggtgatggtgacctCcaggcccttctcgttataga	6	11	12	12	2	1	3	0	2	1	1	3	3	2	3	4	4	0	1	4	4	2	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	6714022	C	A	6714022	4	1	150	1	0	0	0	0	0	1	0	0	2204	864	30	4	4377	4	C3	19	6714022	Nonsense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10		6714022	52414961	49	8352											
C19orf45	374877	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7573131	7573131	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccccctctgggtggactgCgcttcttctcaacacaatac	8	10	8	15	1	3	0	1	0	3	0	4	1	3	1	2	2	4	1	2	2	3	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	7573131	C	T	7573131	3	4	150	1	0	0	0	0	1	0	0	0	1928	768	27	1	1363	1	C19orf45	19	7573131	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	859109	7573131	51555852	50	8353											
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu	37	chr19	31770507	31770507	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcaggaaaactcggcGgccggggagttctggtagct	8	8	16	9	3	2	0	1	0	1	0	3	2	2	2	1	7	2	4	1	7	3	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	31770507	G	A	31770507	2	1	150	1	0	0	0	0	0	0	0	1	16624	1103	39	1		1	TSHZ3	19	31770507	Silent	SNP	G	TCGA-B0-5696-01A-11D-1534-10	24197376	31770507	27358476	51	8354											
ALKBH6	84964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36504275	36504275	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgaacggttccagggctgGgactctggcgtcctgctcct	4	11	13	13	2	2	1	0	1	2	0	5	2	5	2	3	4	2	3	3	4	1	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	36504275	G	T	36504275	3	4	150	1	0	0	0	0	1	0	0	0	531	1232	43	4	715	4	ALKBH6	19	36504275	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	4733768	36504275	22624708	52	8355											
CYP2A13	1553	broad.mit.edu;hgsc.bcm.edu	37	chr19	41601828	41601828	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccacgaaactacaccatGagcttcctgccccgctgagc	10	7	7	17	2	0	2	0	2	0	0	2	3	2	2	5	0	5	2	5	0	2	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	41601828	G	T	41601828	3	4	150	1	0	0	0	0	1	0	0	0	4161	1290	45	4	1501	4	CYP2A13	19	41601828	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10	5097553	41601828	17527155	53	8356											
ATP5SL	55101	hgsc.bcm.edu;ucsc.edu	37	chr19	41945825	41945825	+	RNA	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctaaggtttcgtaaccGgaaggggccggtcttatccc	7	11	12	11	3	1	0	0	0	1	0	3	1	2	1	3	5	2	3	3	5	4	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	41945825	G	T	41945825	1	4	150	0	1	0	0	0	0	0	0	0	1164	1131	39	4		4	ATP5SL	19	41945825	RNA	SNP	G	TCGA-B0-5696-01A-11D-1534-10	343997	41945825	17183158	54	8357											
NCOA6	23054	hgsc.bcm.edu;ucsc.edu	37	chr20	33337538	33337538	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtttgttgaatgctaacAtcaggcatcatctgagataa	12	14	9	6	0	3	2	2	2	1	1	3	3	3	2	0	2	2	4	0	2	3	5	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	33337538	A	G	33337538	2	3	150	1	0	0	0	0	0	0	0	1	10233	214	8	3		3	NCOA6	20	33337538	Silent	SNP	A	TCGA-B0-5696-01A-11D-1534-10		33337538	29687982	55	8358											
GAB4	128954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	17449242	17449242	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccggctggcattcccTccaccatgctgggtgtactt	5	10	12	14	1	0	0	0	0	0	0	2	0	2	0	4	4	2	5	4	4	1	3	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	17449242	T	A	17449242	2	1	150	1	0	0	0	0	0	0	0	1	6151	1538	54	5		5	GAB4	22	17449242	Silent	SNP	T	TCGA-B0-5696-01A-11D-1534-10		17449242	33855324	56	8359											
SHANK3	85358	hgsc.bcm.edu;ucsc.edu	37	chr22	51143424	51143425	+	Frame_Shift_Ins	INS	-	-	A																															acgtggtgaaggtcggacacINSaagcaggtggtggctctgat																								novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	51143425	-	A	51143424	7	5	150	1	0	1	1	0	0	0	0	0	14268	477	17	0	2043	0	SHANK3	22	51143424	Frame_Shift_Ins	INS	-	TCGA-B0-5696-01A-11D-1534-10	33694182	51143424	161142	57	8360											
PRPS2	5634	broad.mit.edu;ucsc.edu	37	chrX	12817354	12817354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttggtgaaagcgtgagagggGaagatgtctacatcatccag	12	9	14	6	1	2	3	1	2	1	2	3	5	3	4	1	3	2	0	1	3	3	2	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	12817354	A	A	12817354	3	1	150	1	0	0	0	0	1	0	0	0	12582	1175	41	2	157	2	PRPS2	23	12817354	Missense_Mutation	SNP	G	TCGA-B0-5696-01A-11D-1534-10		12817354	142453206	58	8361											
ODZ1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123838862	123838862	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcatgacaaaaaggacttaCcaatcacataggctagtaac	17	7	8	9	0	1	1	1	1	0	0	1	2	1	2	1	3	2	3	1	3	7	4	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		A	123838862	C	A	123838862	5	1	150	1	0	0	0	0	0	0	1	0	10834	521	18	4	7294	4	ODZ1	23	123838862	Splice_Site	SNP	C	TCGA-B0-5696-01A-11D-1534-10	111021508	123838862	31431698	59	8362											
TAZ	6901	broad.mit.edu;hgsc.bcm.edu	37	chrX	153649048	153649048	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccctgcctgtactcgagCggctccgggcggagaacaag	7	6	15	13	4	0	1	0	0	0	1	2	3	1	1	3	3	5	2	3	3	3	1	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		G	153649048	C	G	153649048	3	3	150	1	0	0	0	0	1	0	0	0	15595	759	27	4	789	4	TAZ	23	153649048	Missense_Mutation	SNP	C	TCGA-B0-5696-01A-11D-1534-10	29810186	153649048	1621512	60	8363											
PCDH11Y	83259	broad.mit.edu	37	chrY	4966255	4966255	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcattgcatgttttccaGagtcaaaacatttttggcct	9	17	7	8	0	2	1	2	0	0	1	3	1	3	1	2	1	2	3	2	1	2	6	novel		TCGA-B0-5696-01A-11D-1534-10	TCGA-B0-5696-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48b270af-07f2-4cb5-ace2-e2676ffaccd9	8473e2bb-e346-4948-bb65-0f2b7b80b6c9		T	4966255	T	T	4966255	5	4	150	1	0	0	0	0	0	0	1	0	11509	956	33	4	678	4	PCDH11Y	24	4966255	Splice_Site	SNP	G	TCGA-B0-5696-01A-11D-1534-10		4966255	54407311	61	8364											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11217290	11217290	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgtccattttcttgtcaTaggccacaagggcatcctcc	7	13	9	12	0	2	0	1	0	1	0	5	0	5	0	4	3	0	1	4	3	2	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	11217290	T	G	11217290	3	3	151	1	0	0	0	0	1	0	0	0	9954	1406	49	5	3377	5	MTOR	1	11217290	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10		11217290	238033331	1	8365											
TXLNA	200081	hgsc.bcm.edu	37	chr1	32658881	32658881	+	Missense_Mutation	SNP	T	T	C																															gcagcgaggtattcaccacaTtcaagcaggagatggaaaag																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	32658881	T	C	32658881	3	2	151	1	0	0	0	0	1	0	0	0	16786	1493	52	3	1261	3	TXLNA	1	32658881	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	21441591	32658881	216591740	2	8366	114	3									
TXLNA	200081	hgsc.bcm.edu;ucsc.edu	37	chr1	32658884	32658885	+	Frame_Shift_Ins	INS	-	-	C																															cgaggtattcaccacattcaINSagcaggagatggaaaaggta																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	32658885	-	C	32658884	7	5	151	1	0	1	1	0	0	0	0	0	16786	131	5	0	1264	0	TXLNA	1	32658884	Frame_Shift_Ins	INS	-	TCGA-B0-5697-01A-11D-1534-10	3	32658884	216591737	3	8367	114	3									
TXLNA	200081	hgsc.bcm.edu;ucsc.edu	37	chr1	32658886	32658887	+	Frame_Shift_Del	DEL	GC	GC	-																															gaggtattcaccacattcaaGcaggagatggaaaaggtaac																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		-	32658887	GC	-	32658886	7	5	151	1	0	1	0	1	0	0	0	0	16786	962	34	0	1266	0	TXLNA	1	32658886	Frame_Shift_Del	DEL	GC	TCGA-B0-5697-01A-11D-1534-10	2	32658886	216591735	4	8368	114	3									
SCMH1	22955	broad.mit.edu;hgsc.bcm.edu	37	chr1	41579130	41579130	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgggcaaatgaaatgaggGttcttcctgtccacagcttc	9	11	11	10	0	1	2	0	2	1	0	4	2	3	2	2	2	1	4	2	2	2	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	41579130	G	T	41579130	3	4	151	1	0	0	0	0	1	0	0	0	13910	1252	44	4	1478	4	SCMH1	1	41579130	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	8920244	41579130	207671491	5	8369											
SLC1A7	6512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53608095	53608095	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcctgcacacgtccctcccCcgtgccaagatggcatgcgg	6	6	11	18	4	0	1	0	0	0	1	2	1	2	1	5	2	3	2	5	2	1	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	53608095	C	T	53608095	2	4	151	1	0	0	0	0	0	0	0	1	14439	610	22	2		2	SLC1A7	1	53608095	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10	12028965	53608095	195642526	6	8370											
CR1	1378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207785153	207785153	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggctgcgtctctgcacTgcacgccccagggagactgg	6	6	16	13	2	1	1	0	0	1	1	2	3	1	1	2	4	3	3	2	4	0	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	207785153	T	A	207785153	3	1	151	1	0	0	0	0	1	0	0	0	3840	1580	55	5	6577	5	CR1	1	207785153	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	154177058	207785153	41465468	7	8371											
RPS6KC1	26750	broad.mit.edu;ucsc.edu	37	chr1	213341274	213341274	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcatgcgggcagaaagtatCtctagtctttatgggaaacc	11	11	10	9	1	3	1	1	0	2	1	4	2	3	2	1	2	2	2	1	2	5	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	213341274	T	T	213341274	2	4	151	1	0	0	0	0	0	0	0	1	13660	903	32	2		2	RPS6KC1	1	213341274	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10	5556121	213341274	35909347	8	8372											
KMO	8564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	241723981	241723981	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgctgagaaatacccCaatgtgaaaatgcactttaa	15	10	7	9	0	1	2	1	2	0	1	1	3	1	2	2	0	4	3	2	0	6	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	241723981	C	G	241723981	2	3	151	1	0	0	0	0	0	0	0	1	8424	581	21	4		4	KMO	1	241723981	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10	28382707	241723981	7526640	9	8373											
OR2T2	401992	broad.mit.edu;hgsc.bcm.edu	37	chr1	248616344	248616344	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtatcactgtccccaagatGctccaggacctcctgtccaa	9	10	7	15	0	1	1	1	0	0	1	5	2	5	2	6	1	1	2	6	1	3	1	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	248616344	G	A	248616344	3	1	151	1	0	0	0	0	1	0	0	0	11020	1319	46	2	248	2	OR2T2	1	248616344	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	6892363	248616344	634277	10	8374											
DNMT3A	1788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	25458658	25458658	+	Frame_Shift_Del	DEL	A	A	-																															gtctttgccctgctttatggAgtttgacctcgtagtaatgg																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		-	25458658	A	-	25458658	7	5	151	1	0	1	0	1	0	0	0	0	4676	304	11	0	231	0	DNMT3A	2	25458658	Frame_Shift_Del	DEL	A	TCGA-B0-5697-01A-11D-1534-10		25458658	217740715	11	8375											
DNAH6	1768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84756081	84756081	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcctcctaaactgccacaTactggtattggaaaaagagg	13	10	8	10	0	1	1	0	0	1	1	3	2	2	2	3	3	3	1	3	3	6	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	84756081	T	A	84756081	3	1	151	1	0	0	0	0	1	0	0	0	4605	1403	49	5	463	5	DNAH6	2	84756081	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	59297423	84756081	158443292	12	8376											
GLB1	2720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33087643	33087643	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcgcagagcaaaatacTtctcagtgaggtccccagcc	10	10	9	12	1	1	2	1	1	1	1	4	2	2	2	3	1	3	3	3	1	3	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	33087643	T	G	33087643	3	3	151	1	0	0	0	0	1	0	0	0	6427	1609	56	5	1024	5	GLB1	3	33087643	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10		33087643	164934787	13	8377											
SEPT11	55752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77941776	77941776	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaccgacgctgtaagctTgaagagatggggttcaagga	11	10	14	6	2	1	2	1	1	0	1	1	5	1	3	1	3	2	5	1	3	4	5	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	77941776	T	G	77941776	2	3	151	1	0	0	0	0	0	0	0	1	14063	1799	63	5		5	SEPT11	4	77941776	Silent	SNP	T	TCGA-B0-5697-01A-11D-1534-10		77941776	113212500	14	8378											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87684097	87684097	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagagtgccagcttgtcTcaaagccaggtcaatggttt	10	11	11	9	0	2	1	2	1	1	1	3	2	2	1	2	2	3	2	2	2	2	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	87684097	T	A	87684097	2	1	151	1	0	0	0	0	0	0	0	1	12784	1538	54	5		5	PTPN13	4	87684097	Silent	SNP	T	TCGA-B0-5697-01A-11D-1534-10	9742321	87684097	103470179	15	8379											
NEUROG2	63973	hgsc.bcm.edu	37	chr4	113435835	113435835	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agatacaatccctggctatgGggaggtgaggtgcatagcgg	10	8	16	7	1	0	2	0	1	0	1	1	3	1	3	1	6	3	2	1	6	4	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	113435835	G	C	113435835	3	2	151	1	0	0	0	0	1	0	0	0	10353	1232	43	4	25	4	NEUROG2	4	113435835	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	25751738	113435835	77718441	16	8380											
ANK2	287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	114275680	114275680	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtcaccttctggcaaaaCagaaaagcaaccacctgtat	14	9	7	11	0	2	1	1	0	1	1	2	1	2	1	3	1	3	3	3	1	6	2	rs148760530		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	114275680	C	T	114275680	3	4	151	1	0	0	0	0	1	0	0	0	621	478	17	2	6121	2	ANK2	4	114275680	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	839845	114275680	76878596	17	8381											
LRBA	987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	151511868	151511868	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccaccaaatttaccggCaagattctctaaatctttct	14	12	3	12	1	3	1	0	0	3	1	4	1	3	1	3	1	2	1	3	1	6	5	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	151511868	C	G	151511868	3	3	151	1	0	0	0	0	1	0	0	0	8931	710	25	4	2444	4	LRBA	4	151511868	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	37236188	151511868	39642408	18	8382											
C5orf33	0	broad.mit.edu	37	chr5	36241678	36241680	+	In_Frame_Del	DEL	CCA	-	-																															ctcgtaccgggtggttttggCcaccaccaccacccgggagg																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	CCA	CCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		-	36241680	-	-	36241678	7	5	151	1	0	1	0	1	0	0	0	0	2292	739	26	0	1153	0	C5orf33	5	36241678	In_Frame_Del	DEL	CCA	TCGA-B0-5697-01A-11D-1534-10		36241678	144673582	19	8383											
EGR1	1958	broad.mit.edu;hgsc.bcm.edu	37	chr5	137802682	137802682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctccagcggcctcctccGcctccgcctcccagagccca	5	6	7	23	3	1	1	0	0	1	1	6	1	5	1	9	1	2	0	9	1	0	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	137802682	G	A	137802682	3	1	151	1	0	0	0	0	1	0	0	0	4971	1087	38	1	550	1	EGR1	5	137802682	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	101561004	137802682	43112578	20	8384											
ZMAT2	153527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140085215	140085215	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaggaaaaggccaaagcGtacaagaaagagaaacagaa	22	1	12	6	1	0	3	0	0	0	3	0	6	0	5	1	3	3	1	1	3	8	1	rs143727913	byfrequency;alternate_allele	TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	140085215	G	T	140085215	2	4	151	1	0	0	0	0	0	0	0	1	17691	1132	40	4		4	ZMAT2	5	140085215	Silent	SNP	G	TCGA-B0-5697-01A-11D-1534-10	2282533	140085215	40830045	21	8385											
BTNL8	79908	broad.mit.edu;hgsc.bcm.edu	37	chr5	180377360	180377360	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcggtttgaaggcttatTgaggccctacattgagtatc	9	14	11	7	1	0	3	0	3	0	0	2	3	0	3	1	3	1	3	1	3	4	6	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	180377360	T	A	180377360	4	1	151	1	0	0	0	0	0	1	0	0	1567	1821	63	5	1505	5	BTNL8	5	180377360	Nonsense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	40292145	180377360	537900	22	8386											
ZNF184	7738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27420477	27420477	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaagagatggaccctcaatGaagccttttccacactgatc	12	10	8	11	0	1	3	1	2	0	1	3	5	2	4	3	1	1	1	3	1	3	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	27420477	G	A	27420477	2	1	151	1	0	0	0	0	0	0	0	1	17750	1281	45	2		2	ZNF184	6	27420477	Silent	SNP	G	TCGA-B0-5697-01A-11D-1534-10		27420477	143694590	23	8387											
PHF3	23469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	64421671	64421671	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagcaccagaggaagaaaAtgacttttttaattctttta	16	13	7	5	0	1	4	0	1	1	3	1	5	1	5	1	1	1	1	1	1	6	6	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	64421671	A	G	64421671	3	3	151	1	0	0	0	0	1	0	0	0	11836	101	4	3	4245	3	PHF3	6	64421671	Missense_Mutation	SNP	A	TCGA-B0-5697-01A-11D-1534-10	37001194	64421671	106693396	24	8388											
DDO	8528	broad.mit.edu;hgsc.bcm.edu	37	chr6	110714419	110714419	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggccccttacagggaaaatCtttgagtctcctgcaagctg	9	11	10	11	0	2	1	0	1	2	0	3	2	2	2	3	2	3	2	3	2	4	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	110714419	C	T	110714419	2	4	151	1	0	0	0	0	0	0	0	1	4334	912	32	2		2	DDO	6	110714419	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10	46292748	110714419	60400648	25	8389											
PARK2	5071	broad.mit.edu;ucsc.edu	37	chr6	161781136	161781136	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccatttttttccactggTacatggcagcggggacaggg	8	11	12	10	1	1	0	1	0	0	0	2	1	2	1	2	5	2	2	2	5	1	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	161781136	C	C	161781136	2	2	151	1	0	0	0	0	0	0	0	1	11449	1625	57	3		3	PARK2	6	161781136	Silent	SNP	T	TCGA-B0-5697-01A-11D-1534-10	51066717	161781136	9333931	26	8390											
WASL	8976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123335918	123335918	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccaacatgtccaatgtGcctgaagtagaaaatagaaa	18	7	7	9	0	0	3	0	1	0	2	1	3	1	3	4	0	3	1	4	0	9	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	123335918	G	A	123335918	3	1	151	1	0	0	0	0	1	0	0	0	17255	1333	46	2	906	2	WASL	7	123335918	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10		123335918	35802745	27	8391											
HEY1	23462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	80677934	80677934	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgatgctcagataacgcGcaacttctgccaggcattcc	11	9	8	13	2	2	2	1	1	1	1	3	2	3	2	2	1	4	3	2	1	3	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	80677934	G	A	80677934	3	1	151	1	0	0	0	0	1	0	0	0	7078	1087	38	1	514	1	HEY1	8	80677934	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10		80677934	65686088	28	8392											
TRHR	7201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110131432	110131432	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttatctcaacagtgccatCaacccggtgatttacaatct	12	13	5	11	1	3	1	2	1	2	0	4	1	3	1	2	1	4	0	2	1	5	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	110131432	C	T	110131432	2	4	151	1	0	0	0	0	0	0	0	1	16479	816	29	2		2	TRHR	8	110131432	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10	29453498	110131432	36232590	29	8393											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110487349	110487349	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctatgttctcctataggcAcaagcattattccatttcag	10	16	5	10	0	3	0	1	0	2	0	5	0	4	0	2	1	1	3	2	1	5	8	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	110487349	A	T	110487349	3	4	151	1	0	0	0	0	1	0	0	0	11972	159	6	5	8810	5	PKHD1L1	8	110487349	Missense_Mutation	SNP	A	TCGA-B0-5697-01A-11D-1534-10	355917	110487349	35876673	30	8394											
ENPP2	5168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	120633703	120633703	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctctgagcagtgacaggCattttcttcatttctgactt	7	16	8	10	0	4	3	1	3	3	0	5	3	5	3	1	1	1	2	1	1	0	5	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	120633703	C	A	120633703	3	1	151	1	0	0	0	0	1	0	0	0	5130	710	25	4	2569	4	ENPP2	8	120633703	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	10146354	120633703	25730319	31	8395											
JRK	8629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	143746492	143746492	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgccctgctccatgggcTgcaccaatgaggccacgctg	8	7	12	14	1	0	1	0	1	0	0	1	2	1	1	4	2	3	4	4	2	2	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	143746492	T	A	143746492	3	1	151	1	0	0	0	0	1	0	0	0	7964	1580	55	5	820	5	JRK	8	143746492	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	23112789	143746492	2617530	32	8396											
KLF9	687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	73027803	73027803	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtaatgggctttgagAtgggaggattttccatagac	10	13	12	6	0	1	2	0	1	1	2	2	5	2	4	1	3	0	2	1	3	2	5	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	73027803	A	G	73027803	2	3	151	1	0	0	0	0	0	0	0	1	8353	330	12	3		3	KLF9	9	73027803	Silent	SNP	A	TCGA-B0-5697-01A-11D-1534-10		73027803	68185628	33	8397											
S1PR3	1903	broad.mit.edu;ucsc.edu	37	chr9	91616249	91616249	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacgctcaccaccgtgcTcttcttggtcatctgcagct	6	11	8	16	2	5	0	2	0	3	0	5	0	5	0	2	1	4	5	2	1	0	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	91616249	C	C	91616249	3	2	151	1	0	0	0	0	1	0	0	0	13797	1551	54	3	136	3	S1PR3	9	91616249	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	18588446	91616249	49597182	34	8398											
C9orf125	0	broad.mit.edu	37	chr9	104239059	104239059	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgtccacagtgatgaTggtgatcaccagccagggcc	8	8	12	13	0	1	3	1	3	0	0	2	3	2	3	5	2	2	0	5	2	0	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	104239059	C	C	104239059	3	2	151	1	0	0	0	0	1	0	0	0	2454	1464	51	3	899	3	C9orf125	9	104239059	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	12622810	104239059	36974372	35	8399											
DFNB31	25861	broad.mit.edu	37	chr9	117165567	117165567	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatggcgatgcccagggtgGccgcacttttcttcacacgg	6	9	13	13	4	2	0	1	0	1	0	2	2	2	0	2	4	1	1	2	4	0	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	117165567	T	T	117165567	3	4	151	1	0	0	0	0	1	0	0	0	4455	1203	42	4	260	4	DFNB31	9	117165567	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	12926508	117165567	24047864	36	8400											
SYT15	83849	broad.mit.edu;hgsc.bcm.edu	37	chr10	46962003	46962003	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggcagagcgcatgccaGcgcttcaccagctccttggg	6	7	14	14	3	1	1	1	0	0	1	2	1	2	1	3	2	5	4	3	2	0	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	46962003	G	C	46962003	2	2	151	1	0	0	0	0	0	0	0	1	15470	958	34	4		4	SYT15	10	46962003	Silent	SNP	G	TCGA-B0-5697-01A-11D-1534-10		46962003	88572744	37	8401											
NCOA4	8031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	51582263	51582263	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaggctgtatctccatGccagagcaggtaaaatatca	15	8	10	8	0	2	2	1	0	1	2	3	3	2	2	2	2	2	4	2	2	5	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	51582263	G	A	51582263	3	1	151	1	0	0	0	0	1	0	0	0	10231	1319	46	2	631	2	NCOA4	10	51582263	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	4620260	51582263	83952484	38	8402											
LRRTM3	347731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	68687373	68687373	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggttggtcagccttcagaaCctttacttgcagtggaataa	11	12	10	8	0	2	1	2	0	0	1	2	2	2	2	2	3	4	2	2	3	4	6	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	68687373	C	A	68687373	3	1	151	1	0	0	0	0	1	0	0	0	9041	506	18	4	705	4	LRRTM3	10	68687373	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	17105110	68687373	66847374	39	8403											
ZMIZ1	57178	hgsc.bcm.edu	37	chr10	81070821	81070822	+	Frame_Shift_Ins	INS	-	-	C																															cttcccagcctccccggcagINSccgccacaggccgctcccag																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	81070822	-	C	81070821	7	5	151	1	0	1	1	0	0	0	0	0	17695	962	34	0	3054	0	ZMIZ1	10	81070821	Frame_Shift_Ins	INS	-	TCGA-B0-5697-01A-11D-1534-10	12383448	81070821	54463926	40	8404											
HELLS	3070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96352150	96352150	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaagatatgtttaatttcAggtgctgcttttttcacaaa	12	18	6	5	0	2	1	2	0	0	1	2	1	2	1	0	1	2	3	0	1	4	8	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	96352150	A	T	96352150	5	4	151	1	0	0	0	0	0	0	1	0	7046	202	7	5	1916	5	HELLS	10	96352150	Splice_Site	SNP	A	TCGA-B0-5697-01A-11D-1534-10	15281329	96352150	39182597	41	8405											
OVCH2	341277	broad.mit.edu;ucsc.edu	37	chr11	7723751	7723751	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggcaatatcatagtccAttggtttcttggtggagaaa	13	12	11	5	0	2	1	1	0	1	1	3	2	3	1	1	4	0	2	1	4	5	5	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	7723751	G	G	7723751	3	3	151	1	0	0	0	0	1	0	0	0	11324	217	8	3	1325	3	OVCH2	11	7723751	Missense_Mutation	SNP	A	TCGA-B0-5697-01A-11D-1534-10		7723751	127282765	42	8406											
ZMYM5	9205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20426164	20426164	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcatcatcatcatcatCttccactggtgagttcctag	10	14	5	12	0	7	1	6	1	1	0	9	1	9	1	2	1	0	1	2	1	1	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	20426164	C	A	20426164	3	1	151	1	0	0	0	0	1	0	0	0	17702	913	32	4	1987	4	ZMYM5	13	20426164	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10		20426164	94743714	43	8407											
FREM2	341640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	39264065	39264065	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtagacactgatgttGcccatatctctttcactctc	9	15	6	11	0	3	3	1	2	2	1	5	3	3	3	1	0	1	2	1	0	2	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	39264065	G	A	39264065	3	1	151	1	0	0	0	0	1	0	0	0	6045	1319	46	2	2586	2	FREM2	13	39264065	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	18837901	39264065	75905813	44	8408											
C14orf135	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	60587988	60587988	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggataatgattctggaatgtGgctatacttactgctctatt	10	16	9	6	0	2	1	0	1	2	0	2	3	2	3	0	3	3	2	0	3	6	7	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	60587988	G	T	60587988	3	4	151	1	0	0	0	0	1	0	0	0	1745	1348	47	4	1337	4	C14orf135	14	60587988	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10		60587988	46761552	45	8409											
KCNH5	27133	broad.mit.edu;ucsc.edu	37	chr14	63473094	63473094	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatacctactgtttttcttGtacagaagaacttcaaagca	14	13	6	8	0	2	3	1	0	1	3	2	3	2	3	1	0	5	3	1	0	6	7	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	63473094	T	T	63473094	4	4	151	1	0	0	0	0	0	1	0	0	8035	1372	48	4	2742	4	KCNH5	14	63473094	Nonsense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	2885106	63473094	43876446	46	8410											
RBM25	58517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	73550237	73550237	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagctggaagagagtacaAggtgcttccggaaagcttca	12	9	13	7	1	1	2	1	1	0	1	2	5	2	4	1	3	4	4	1	3	4	4	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	73550237	A	G	73550237	2	3	151	1	0	0	0	0	0	0	0	1	13127	69	3	3		3	RBM25	14	73550237	Silent	SNP	A	TCGA-B0-5697-01A-11D-1534-10	10077143	73550237	33799303	47	8411											
ABCD4	5826	broad.mit.edu;ucsc.edu	37	chr14	74763081	74763081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgagggtgaacggggagAtgatgagcttgctggccatg	10	7	18	6	2	0	5	0	3	0	2	0	7	0	5	1	4	3	2	1	4	1	1	rs145669133	byfrequency	TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	74763081	G	G	74763081	3	3	151	1	0	0	0	0	1	0	0	0	63	333	12	3	1383	3	ABCD4	14	74763081	Missense_Mutation	SNP	A	TCGA-B0-5697-01A-11D-1534-10	1212844	74763081	32586459	48	8412											
VPS39	23339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42454241	42454241	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catacctaccctcaggaattCtgcatggagaaggttcttga	11	11	9	10	0	3	2	1	1	2	1	3	4	3	3	2	3	3	2	2	3	4	5	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	42454241	C	T	42454241	3	4	151	1	0	0	0	0	1	0	0	0	17208	922	32	2	190	2	VPS39	15	42454241	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10		42454241	60077151	49	8413											
ISL2	64843	broad.mit.edu	37	chr15	76634124	76634124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgacgtgacctccctgtcctCgcagctcccggacaccccca	6	6	8	21	4	0	1	0	1	0	0	4	3	3	2	6	1	1	2	6	1	0	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	76634124	T	T	76634124	3	4	151	1	0	0	0	0	1	0	0	0	7857	893	31	1	1050	1	ISL2	15	76634124	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	34179883	76634124	25897268	50	8414											
LRRK1	79705	broad.mit.edu;hgsc.bcm.edu	37	chr15	101606007	101606007	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagggacatgtttcccGtgcggcccttggacacggaa	7	8	12	14	3	1	0	1	0	0	0	2	3	2	3	3	4	1	1	3	4	1	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	101606007	G	A	101606007	3	1	151	1	0	0	0	0	1	0	0	0	9032	1145	40	1	5487	1	LRRK1	15	101606007	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	24971883	101606007	925385	51	8415											
PIGQ	9091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	629095	629095	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgaagatccatggccTgtcctcactgtggcgtctgt	5	12	11	13	1	2	2	1	1	1	1	4	2	4	2	4	2	1	0	4	2	1	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	629095	T	C	629095	3	2	151	1	0	0	0	0	1	0	0	0	11896	1580	55	3	1272	3	PIGQ	16	629095	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10		629095	89725658	52	8416											
NKD1	85407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50667285	50667285	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagctccagcaacggctcCggggcacccaggacgggagc	9	2	15	15	3	0	1	0	0	0	1	2	3	2	3	3	5	4	4	3	5	1	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	50667285	C	T	50667285	3	4	151	1	0	0	0	0	1	0	0	0	10441	643	23	1	1044	1	NKD1	16	50667285	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	50038190	50667285	39687468	53	8417											
MT1G	4495	broad.mit.edu;ucsc.edu	37	chr16	56700810	56700810	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaggcgcagcagctgcacTtctccgatgcccctttgcag	7	9	10	15	2	2	0	1	0	1	0	3	1	2	0	3	1	5	5	3	1	0	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	56700810	C	C	56700810	3	2	151	1	0	0	0	0	1	0	0	0	9901	1609	56	3	22	3	MT1G	16	56700810	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10	6033525	56700810	33653943	54	8418											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7669721	7669721	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggccatgcgggaagaGgaaaatagtctccgagccaa	13	6	13	9	2	1	2	0	1	1	1	2	5	1	4	3	3	2	0	3	3	5	1	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	7669721	G	A	7669721	2	1	151	1	0	0	0	0	0	0	0	1	4602	991	35	2		2	DNAH2	17	7669721	Silent	SNP	G	TCGA-B0-5697-01A-11D-1534-10		7669721	73525489	55	8419											
TAF15	8148	hgsc.bcm.edu	37	chr17	34171576	34171605	+	In_Frame_Del	DEL	GGTGGCTATGGTGGAGACAGAAGCAGCGGT	GGTGGCTATGGTGGAGACAGAAGCAGCGGT	-																															atggtggagacagaagtgggGgtggctatggtggagacaga																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	GGTGGCTATGGTGGAGACAGAAGCAGCGGT	GGTGGCTATGGTGGAGACAGAAGCAGCGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		-	34171605	GGTGGCTATGGTGGAGACAGAAGCAGCGGT	-	34171576	7	5	151	1	0	1	0	1	0	0	0	0	15517	1232	43	0	1331	0	TAF15	17	34171576	In_Frame_Del	DEL	GGTGGCTATGGTGGAGACAGAAGCAGCGGT	TCGA-B0-5697-01A-11D-1534-10	26501855	34171576	47023634	56	8420											
RDM1	201299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34249624	34249624	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatgcatctgacaaagcCttctgaatagcaagcttctg	12	11	9	9	0	3	2	0	2	3	0	3	3	3	3	1	1	4	3	1	1	5	3	rs112692396	alternate_allele	TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	34249624	C	T	34249624	2	4	151	1	0	0	0	0	0	0	0	1	13199	680	24	2		2	RDM1	17	34249624	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10	78048	34249624	46945586	57	8421											
SERPINB5	5268	broad.mit.edu;hgsc.bcm.edu	37	chr18	61154179	61154179	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acggatttttctcttaacagGttcttcattttgaaaatgtc	10	18	6	7	1	3	1	1	1	2	0	5	2	3	2	0	2	1	1	0	2	3	7	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	61154179	G	C	61154179	3	2	151	1	0	0	0	0	1	0	0	0	14106	1275	44	4	175	4	SERPINB5	18	61154179	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10		61154179	16923069	58	8422											
CD209	30835	broad.mit.edu	37	chr19	7810629	7810629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccactgcagccttcagccGagtcagctcctggtagatct	8	9	9	15	1	3	1	2	0	1	1	4	2	4	1	4	1	4	3	4	1	1	2	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	7810629	A	A	7810629	3	1	151	1	0	0	0	0	1	0	0	0	2984	1057	37	1	707	1	CD209	19	7810629	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10		7810629	51318354	59	8423											
SIGLEC12	89858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52004612	52004612	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataattccatttcatatttcCtctctctacacaaaagacgt	13	15	2	11	1	3	1	1	0	2	1	6	1	5	1	2	0	1	0	2	0	5	6	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	52004612	C	T	52004612	3	4	151	1	0	0	0	0	1	0	0	0	14310	690	24	2	1516	2	SIGLEC12	19	52004612	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	44193983	52004612	7124371	60	8424											
FOXS1	2307	broad.mit.edu	37	chr20	30432839	30432839	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctggcatggcccccacCagacccccaaagcttaggcc	8	5	10	18	0	0	1	0	0	0	1	0	1	0	1	6	4	1	3	6	4	2	1	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	30432839	T	T	30432839	2	4	151	1	0	0	0	0	0	0	0	1	6035	581	21	2		2	FOXS1	20	30432839	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10		30432839	32592681	61	8425											
PREX1	57580	broad.mit.edu	37	chr20	47246011	47246011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcctgtgccacacatgAccatctggcaggcccccagg	8	6	11	16	0	1	1	0	1	1	0	1	1	1	1	5	3	2	2	5	3	0	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		G	47246011	G	G	47246011	3	3	151	1	0	0	0	0	1	0	0	0	12478	275	10	3	253	3	PREX1	20	47246011	Missense_Mutation	SNP	A	TCGA-B0-5697-01A-11D-1534-10	16813172	47246011	15779509	62	8426											
C21orf45	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33642036	33642036	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgtgttagagacttttcTatttcaactctgctttcaag	9	17	6	9	0	4	1	2	0	2	1	4	2	4	1	1	0	2	2	1	0	4	6	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		C	33642036	T	C	33642036	3	2	151	1	0	0	0	0	1	0	0	0	2126	1512	53	3	106	3	C21orf45	21	33642036	Missense_Mutation	SNP	T	TCGA-B0-5697-01A-11D-1534-10		33642036	14487859	63	8427											
PLAC4	191585	broad.mit.edu	37	chr21	42551676	42551677	+	Translation_Start_Site	INS	-	A	A																															agaatcaagctgagggtgccINStggtgtggggtggggtggag																								novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	42551677	A	A	42551676	6	5	151	1	0	1	1	0	0	0	0	0	12014	696	24	0		0	PLAC4	21	42551676	Translation_Start_Site	INS	-	TCGA-B0-5697-01A-11D-1534-10	8909640	42551676	5578219	64	8428											
GPR143	4935	hgsc.bcm.edu;ucsc.edu	37	chrX	9714193	9714193	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtccaggccccgctcacaCctgagagaggaaaaccaaag	13	4	11	13	1	1	2	1	1	0	1	2	4	2	3	5	3	1	1	5	3	3	0	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	9714193	C	T	9714193	2	4	151	1	0	0	0	0	0	0	0	1	6651	521	18	2		2	GPR143	23	9714193	Silent	SNP	C	TCGA-B0-5697-01A-11D-1534-10		9714193	145556367	65	8429											
IQSEC2	23096	broad.mit.edu;hgsc.bcm.edu	37	chrX	53284001	53284001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctctctgaggctgagctgCgtagccgctcaaagttcttg	6	11	13	11	2	3	2	1	2	2	0	4	2	3	2	1	2	3	6	1	2	2	3	novel		TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		T	53284001	C	T	53284001	3	4	151	1	0	0	0	0	1	0	0	0	7818	768	27	1	3402	1	IQSEC2	23	53284001	Missense_Mutation	SNP	C	TCGA-B0-5697-01A-11D-1534-10	43569808	53284001	101986559	66	8430											
GPR119	139760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129518457	129518457	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agatagtgacgatgtgacagGaactttccctgggcctctct	9	11	11	10	1	1	3	0	2	1	1	3	5	2	4	2	2	1	0	2	2	2	2	rs138209054	byfrequency;alternate_allele	TCGA-B0-5697-01A-11D-1534-10	TCGA-B0-5697-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ca4e638-5a95-4eeb-bfc4-257e8ea8fa66	2641ff9a-cb27-4feb-b9ec-c191e56673bb		A	129518457	G	A	129518457	3	1	151	1	0	0	0	0	1	0	0	0	6634	1174	41	2	46	2	GPR119	23	129518457	Missense_Mutation	SNP	G	TCGA-B0-5697-01A-11D-1534-10	76234456	129518457	25752103	67	8431											
NPHP4	261734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	5934954	5934954	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctcggggttgtcgatCtccacagtcaccgtgtgctg	5	11	13	12	3	2	1	1	1	1	0	5	2	2	1	2	2	2	3	2	2	0	1	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	5934954	C	A	5934954	3	1	152	1	0	0	0	0	1	0	0	0	10581	912	32	4	1296	4	NPHP4	1	5934954	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08		5934954	243315667	1	8432											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10434522	10434522	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattgaagaaattagaccaAggtgagtactatattgagca	17	11	9	4	0	0	5	0	3	0	2	0	5	0	5	1	1	2	2	1	1	8	7	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	10434522	A	C	10434522	3	2	152	1	0	0	0	0	1	0	0	0	8284	86	3	5	6616	5	KIF1B	1	10434522	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08	4499568	10434522	238816099	2	8433											
UBIAD1	29914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11345857	11345858	+	Frame_Shift_Ins	INS	-	-	C																															ctcagcaccgaggccattctINSccattccaacaacaccaggg																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	11345858	-	C	11345857	7	5	152	1	0	1	1	0	0	0	0	0	16884	1551	54	0	692	0	UBIAD1	1	11345857	Frame_Shift_Ins	INS	-	TCGA-B0-5698-01A-11D-1669-08	911335	11345857	237904764	3	8434											
AADACL3	126767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12785830	12785830	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaaaggctggaagacctggGagtgcccgtgacctggcacc	10	5	15	11	1	0	2	0	1	0	1	0	5	0	4	4	4	1	2	4	4	3	0	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	12785830	G	T	12785830	3	4	152	1	0	0	0	0	1	0	0	0	12	1174	41	4	938	4	AADACL3	1	12785830	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	1439973	12785830	236464791	4	8435											
CYB5RL	606495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54644949	54644949	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaagtctcgtcattctcaTtgtctgtgatgctctgcagg	8	14	9	10	1	5	1	2	1	4	0	7	1	5	1	0	1	2	2	0	1	2	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	54644949	T	G	54644949	3	3	152	1	0	0	0	0	1	0	0	0	4130	1493	52	5	338	5	CYB5RL	1	54644949	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08	41859119	54644949	194605672	5	8436											
PRKACB	5567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	84670172	84670172	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttctcccagcagaacttttGatatgaacaaaacaaaactt	16	12	4	9	0	1	3	0	2	1	1	2	3	1	3	1	0	5	1	1	0	7	5	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	84670172	G	C	84670172	3	2	152	1	0	0	0	0	1	0	0	0	12500	1285	45	4	998	4	PRKACB	1	84670172	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	30025223	84670172	164580449	6	8437											
LRIG2	9860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113635893	113635893	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctacatctaatattactcTactttcattgtaagttagta	13	17	3	8	0	3	0	1	0	2	0	3	0	3	0	1	0	3	3	1	0	8	10	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	113635893	T	A	113635893	3	1	152	1	0	0	0	0	1	0	0	0	8945	1522	53	5	381	5	LRIG2	1	113635893	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08	28965721	113635893	135614728	7	8438											
PTPRC	5788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	198678874	198678874	+	Missense_Mutation	SNP	G	G	C																															aaccttgaacccgaacatgaGtataagtgtgactcagaaat																								rs139425744	alternate_allele	TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	198678874	G	C	198678874	3	2	152	1	0	0	0	0	1	0	0	0	12799	1020	36	4	1135	4	PTPRC	1	198678874	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	85042981	198678874	50571747	8	8439	115	2									
PTPRC	5788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	198678876	198678876	+	Missense_Mutation	SNP	A	A	T																															ccttgaacccgaacatgagtAtaagtgtgactcagaaatac																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	198678876	A	T	198678876	3	4	152	1	0	0	0	0	1	0	0	0	12799	449	16	5	1137	5	PTPRC	1	198678876	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08	2	198678876	50571745	9	8440	115	2									
SUSD4	55061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223408420	223408420	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgggaaataaaggacaggGaaaagatgttcaggtcttcc	14	9	13	5	0	2	1	1	0	1	1	3	4	3	4	1	4	0	1	1	4	5	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	223408420	G	A	223408420	2	1	152	1	0	0	0	0	0	0	0	1	15409	1165	41	2		2	SUSD4	1	223408420	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08	24729544	223408420	25842201	10	8441											
TANC1	85461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160042345	160042345	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcatgttctcgcgtcaggagGgcaagttgaaccgccagcag	9	8	13	11	3	3	1	2	1	1	0	4	2	3	2	2	2	2	4	2	2	2	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	160042345	G	C	160042345	3	2	152	1	0	0	0	0	1	0	0	0	15543	1232	43	4	2604	4	TANC1	2	160042345	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		160042345	83157028	11	8442											
SLC4A10	57282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	162661045	162661046	+	Frame_Shift_Del	DEL	AG	AG	-																															ggcatcgtggtcataaacacAgaaagagagacagagaaaga																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	162661046	AG	-	162661045	7	5	152	1	0	1	0	1	0	0	0	0	14653	180	7	0	312	0	SLC4A10	2	162661045	Frame_Shift_Del	DEL	AG	TCGA-B0-5698-01A-11D-1669-08	2618700	162661045	80538328	12	8443											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179404241	179404241	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccaccagagatgtacctcGgactctggaatcaatggtat	12	10	9	10	1	2	1	1	0	1	1	3	4	2	3	3	3	2	2	3	3	5	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	179404241	G	A	179404241	4	1	152	1	0	0	0	0	0	1	0	0	16734	1124	39	1	9472	1	TTN	2	179404241	Nonsense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	16743196	179404241	63795132	13	8444											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179476554	179476554	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aactccagcttcattttcagCccgaacctgaaactggacct	11	10	6	14	1	2	1	2	1	0	0	3	3	3	2	4	1	5	1	4	1	3	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	179476554	C	A	179476554	3	1	152	1	0	0	0	0	1	0	0	0	16734	739	26	4	57591	4	TTN	2	179476554	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	72313	179476554	63722819	14	8445											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179485685	179485685	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgttgttccttcacccGggtgtccttaagaggaacta	7	14	9	11	1	1	1	1	0	0	1	4	2	4	2	4	2	1	2	4	2	3	6	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	179485685	G	A	179485685	3	1	152	1	0	0	0	0	1	0	0	0	16734	1115	39	1	62505	1	TTN	2	179485685	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	9131	179485685	63713688	15	8446											
SF3B1	23451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	198266611	198266611	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttcaagaaagcagccaaaCcctatttttaaataaaaaat	19	10	3	9	0	1	1	1	0	0	1	1	1	1	1	3	0	3	1	3	0	9	6	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	198266611	C	T	198266611	3	4	152	1	0	0	0	0	1	0	0	0	14151	521	18	2	1729	2	SF3B1	2	198266611	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	18780926	198266611	44932762	16	8447											
TMEM169	92691	hgsc.bcm.edu;ucsc.edu	37	chr2	216960807	216960807	+	Frame_Shift_Del	DEL	A	A	-																															aatccacaatggggcacaggAaaaagaagaggaaagagtca																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	216960807	A	-	216960807	7	5	152	1	0	1	0	1	0	0	0	0	16083	247	9	0	123	0	TMEM169	2	216960807	Frame_Shift_Del	DEL	A	TCGA-B0-5698-01A-11D-1669-08	18694196	216960807	26238566	17	8448											
GNAI2	2771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50294255	50294255	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagccttgagcgcctatGacttggtgctagctgaggac	7	10	14	10	2	0	3	0	3	0	0	0	4	0	4	2	2	4	3	2	2	3	5	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	50294255	G	T	50294255	3	4	152	1	0	0	0	0	1	0	0	0	6505	1290	45	4	727	4	GNAI2	3	50294255	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		50294255	147728175	18	8449											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52610584	52610584	+	Frame_Shift_Del	DEL	C	C	-																															acatgtcatggggcaggtttCttccagattactcagaaata																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	52610584	C	-	52610584	7	5	152	1	0	1	0	1	0	0	0	0	11491	922	32	0	1272	0	PBRM1	3	52610584	Frame_Shift_Del	DEL	C	TCGA-B0-5698-01A-11D-1669-08	2316329	52610584	145411846	19	8450											
ZBTB20	26137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	114070318	114070318	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcccgagtcctggatccCcgggaacacatcgcccacgt	7	6	11	17	4	0	0	0	0	0	0	3	3	2	2	5	3	1	0	5	3	1	0	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	114070318	C	T	114070318	3	4	152	1	0	0	0	0	1	0	0	0	17528	623	22	2	1626	2	ZBTB20	3	114070318	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	61459734	114070318	83952112	20	8451											
STAG1	10274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	136240212	136240212	+	Frame_Shift_Del	DEL	T	T	-																															tcacaaaagtttgaacgaaaTtttttccactgaggtccagg																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	136240212	T	-	136240212	7	5	152	1	0	1	0	1	0	0	0	0	15243	1490	52	0	3369	0	STAG1	3	136240212	Frame_Shift_Del	DEL	T	TCGA-B0-5698-01A-11D-1669-08	22169894	136240212	61782218	21	8452											
IL1RAP	3556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	190321925	190321925	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgattattccagaacgctgcGatgactggggactagacacc	11	9	11	10	2	0	4	0	2	0	2	1	6	1	5	2	2	2	1	2	2	3	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	190321925	G	A	190321925	3	1	152	1	0	0	0	0	1	0	0	0	7660	1058	37	1	79	1	IL1RAP	3	190321925	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	54081713	190321925	7700505	22	8453											
STK32B	55351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	5461876	5461876	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgtccagccttcatgacaTacagagcgtgccctacttgg	8	10	10	13	2	1	2	1	1	0	1	2	2	2	2	3	1	5	0	3	1	2	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	5461876	T	C	5461876	3	2	152	1	0	0	0	0	1	0	0	0	15299	1406	49	3	864	3	STK32B	4	5461876	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08		5461876	185692400	23	8454											
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	134071550	134071550	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagaccgcgaacaaatctgCaaacagagcccctcctgtgt	13	7	8	13	2	1	2	0	0	1	2	2	3	2	2	4	0	4	1	4	0	4	1	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	134071550	C	A	134071550	4	1	152	1	0	0	0	0	0	1	0	0	11507	718	25	4	257	4	PCDH10	4	134071550	Nonsense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	128609674	134071550	57082726	24	8455											
YTHDC2	64848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112888982	112888982	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgaaagcttatcatcataGtttcgatgatgaaaaagtag	15	12	8	6	1	2	3	2	3	0	0	3	4	2	3	1	0	1	3	1	0	6	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	112888982	G	C	112888982	3	2	152	1	0	0	0	0	1	0	0	0	17496	1029	36	4	1843	4	YTHDC2	5	112888982	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		112888982	68026278	25	8456											
ACSL6	23305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131296216	131296216	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccccaagataccaaccttAtttgtgcagagatctgcata	13	10	7	11	0	1	2	0	0	1	2	1	3	1	2	4	0	5	2	4	0	5	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	131296216	A	T	131296216	3	4	152	1	0	0	0	0	1	0	0	0	181	446	16	5	224	5	ACSL6	5	131296216	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08	18407234	131296216	49619044	26	8457											
CDYL	9425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	4735076	4735076	+	RNA	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagcagcctcccgctttaCaggtaggtcttggtttctcc	6	12	9	14	1	2	0	0	0	2	0	4	0	3	0	3	3	3	4	3	3	2	5	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	4735076	C	G	4735076	1	3	152	0	1	0	0	0	0	0	0	0	3185	493	17	4		4	CDYL	6	4735076	RNA	SNP	C	TCGA-B0-5698-01A-11D-1669-08		4735076	166379991	27	8458											
ZNF311	282890	broad.mit.edu;hgsc.bcm.edu	37	chr6	28967350	28967350	+	Frame_Shift_Del	DEL	T	T	-																															tcagacactgccactccctgTtagtgaagttcacagctaca																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	28967350	T	-	28967350	7	5	152	1	0	1	0	1	0	0	0	0	17833	1725	60	0	1788	0	ZNF311	6	28967350	Frame_Shift_Del	DEL	T	TCGA-B0-5698-01A-11D-1669-08	24232274	28967350	142147717	28	8459											
PRRT1	80863	broad.mit.edu;hgsc.bcm.edu	37	chr6	32117130	32117130	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttccgggcctcgcgtgaagCgatctcggccgacaccatgt	6	8	13	14	6	1	1	0	1	1	0	4	3	2	1	4	2	1	1	4	2	1	1	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	32117130	C	T	32117130	3	4	152	1	0	0	0	0	1	0	0	0	12611	768	27	1	134	1	PRRT1	6	32117130	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	3149780	32117130	138997937	29	8460											
PRPH2	5961	broad.mit.edu;ucsc.edu	37	chr6	42666085	42666085	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgccctcggcttccacctggTtgcccttgcccagcttcttc	2	12	8	19	2	1	0	0	0	1	0	4	0	2	0	5	2	3	3	5	2	0	5	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	42666085	C	C	42666085	3	2	152	1	0	0	0	0	1	0	0	0	12579	1725	60	3	55	3	PRPH2	6	42666085	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08	10548955	42666085	128448982	30	8461											
TMEM63B	55362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44107217	44107217	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagggatgatgagatcCgggacaaatgtgggggcgat	10	7	18	6	2	0	2	0	2	0	1	1	6	1	4	1	4	1	2	1	4	1	0	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	44107217	C	T	44107217	3	4	152	1	0	0	0	0	1	0	0	0	16190	643	23	1	443	1	TMEM63B	6	44107217	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	1441132	44107217	127007850	31	8462											
EYS	346007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	66063414	66063414	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatcttggcaaataccatGgaaggtgactccacagtagc	12	11	9	9	0	1	1	0	1	1	0	2	2	2	2	2	3	2	2	2	3	5	5	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	66063414	G	T	66063414	3	4	152	1	0	0	0	0	1	0	0	0	5332	1348	47	4	8140	4	EYS	6	66063414	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	21956197	66063414	105051653	32	8463											
PPIL4	85313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	149833352	149833352	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcttcagaacagtgatggGttttcttcttgtgtttttta	6	21	8	6	0	4	2	1	1	3	1	5	2	4	2	0	1	1	2	0	1	2	8	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	149833352	G	C	149833352	3	2	152	1	0	0	0	0	1	0	0	0	12331	1261	44	4	320	4	PPIL4	6	149833352	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	83769938	149833352	21281715	33	8464											
PIWIL2	55124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22138976	22138976	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactttttgggatccaaaaGtgttggcggctggggacagc	8	10	14	9	1	0	0	0	0	0	0	1	2	1	2	2	5	1	2	2	5	2	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	22138976	G	C	22138976	3	2	152	1	0	0	0	0	1	0	0	0	11958	1029	36	4	383	4	PIWIL2	8	22138976	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		22138976	124225046	34	8465											
CPA6	57094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	68396051	68396051	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatccactccacggcagcGaaaccttgagttccttgacc	9	8	9	15	2	0	2	0	2	0	0	3	3	3	2	5	2	2	3	5	2	1	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	68396051	G	T	68396051	3	4	152	1	0	0	0	0	1	0	0	0	3794	1058	37	4	539	4	CPA6	8	68396051	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	46257075	68396051	77967971	35	8466											
TRPA1	8989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	72975792	72975792	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatttgatttacatggcttAgctccttttttaagctggaa	9	19	7	6	0	0	1	0	1	0	0	1	2	1	2	1	2	3	3	1	2	5	8	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	72975792	A	C	72975792	2	2	152	1	0	0	0	0	0	0	0	1	16576	407	15	5		5	TRPA1	8	72975792	Silent	SNP	A	TCGA-B0-5698-01A-11D-1669-08	4579741	72975792	73388230	36	8467											
DNAI1	27019	broad.mit.edu;hgsc.bcm.edu	37	chr9	34490013	34490013	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcagtatcctaccaaggttCtcaggagtctgtcaaggtga	10	10	12	9	0	3	1	2	1	2	0	5	2	4	2	2	4	1	3	2	4	4	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	34490013	C	T	34490013	3	4	152	1	0	0	0	0	1	0	0	0	4609	913	32	2	414	2	DNAI1	9	34490013	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08		34490013	106723418	37	8468											
KIAA0649	0	broad.mit.edu;hgsc.bcm.edu	37	chr9	138379621	138379621	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccacccagctcttccacTttggaaagggtgtctcctgg	6	12	10	13	0	2	0	0	0	2	0	5	1	4	1	4	3	1	1	4	3	1	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	138379621	T	G	138379621	3	3	152	1	0	0	0	0	1	0	0	0	8187	1609	56	5	3267	5	KIAA0649	9	138379621	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08	103889608	138379621	2833810	38	8469											
HSPA14	51182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	14890648	14890648	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaatacatcgcggaaagtAaatgtttagtgagtatggtt	15	12	11	3	2	0	2	0	1	0	1	1	3	0	3	0	2	1	4	0	2	7	6	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	14890648	A	C	14890648	3	2	152	1	0	0	0	0	1	0	0	0	7407	363	13	5	276	5	HSPA14	10	14890648	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08		14890648	120644099	39	8470											
MUC6	4588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1029578	1029578	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcactgggtgacgggcacGcaggtgtggttattggagag	7	8	20	6	2	0	2	0	1	0	1	0	3	0	2	0	6	0	4	0	6	1	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	1029578	G	A	1029578	2	1	152	1	0	0	0	0	0	0	0	1	9980	1079	38	1		1	MUC6	11	1029578	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08		1029578	133976938	40	8471											
CNTN5	53942	broad.mit.edu;hgsc.bcm.edu	37	chr11	100226891	100226891	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacccttcactctctctcCacatcttcgtcatcagtcac	7	13	3	18	2	7	0	4	0	3	0	11	1	7	0	2	0	0	0	2	0	0	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	100226891	C	G	100226891	2	3	152	1	0	0	0	0	0	0	0	1	3644	581	21	4		4	CNTN5	11	100226891	Silent	SNP	C	TCGA-B0-5698-01A-11D-1669-08	99197313	100226891	34779625	41	8472											
PDZD3	79849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119059108	119059108	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgggactgccagccaagaagGctgggatgcaggctggggac	9	4	18	10	1	0	1	0	0	0	1	0	4	0	4	2	6	3	3	2	6	2	0	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	119059108	G	A	119059108	3	1	152	1	0	0	0	0	1	0	0	0	11702	1203	42	2	937	2	PDZD3	11	119059108	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	18832217	119059108	15947408	42	8473											
STAT2	6773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56745117	56745117	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctgtgacctgggcgttGcgtaggtccacccctttggt	5	12	12	12	2	1	1	0	1	1	0	2	1	2	1	4	3	2	2	4	3	2	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	56745117	G	A	56745117	2	1	152	1	0	0	0	0	0	0	0	1	15266	1306	46	2		2	STAT2	12	56745117	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08		56745117	77106778	43	8474											
ZBTB39	9880	hgsc.bcm.edu;ucsc.edu	37	chr12	57397920	57397923	+	Frame_Shift_Del	DEL	AGGA	AGGA	-																															ctactgcattgtcaggggtgAggaagctgtttttactgaag																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	AGGA	AGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	57397923	AGGA	-	57397920	7	5	152	1	0	1	0	1	0	0	0	0	17539	304	11	0	1360	0	ZBTB39	12	57397920	Frame_Shift_Del	DEL	AGGA	TCGA-B0-5698-01A-11D-1669-08	652803	57397920	76453975	44	8475											
NXPH4	11247	hgsc.bcm.edu	37	chr12	57619187	57619188	+	In_Frame_Ins	INS	-	-	GGC																															ctggggcccccgctggggatINSggcagcagcagcggcggggc																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		GGC	57619188	-	GGC	57619187	7	5	152	1	0	1	1	0	0	0	0	0	10793	1464	51	0	590	0	NXPH4	12	57619187	In_Frame_Ins	INS	-	TCGA-B0-5698-01A-11D-1669-08	221267	57619187	76232708	45	8476											
NAV3	89795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	78553024	78553024	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaagagcttagggaatatGactggccgattgcaaagtct	14	9	12	6	1	1	2	0	1	1	1	1	5	1	3	1	2	2	2	1	2	6	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	78553024	G	A	78553024	3	1	152	1	0	0	0	0	1	0	0	0	10185	1290	45	2	4917	2	NAV3	12	78553024	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	20933837	78553024	55298871	46	8477											
NUP37	79023	hgsc.bcm.edu;ucsc.edu	37	chr12	102506003	102506011	+	In_Frame_Del	DEL	TCTTCTTCC	TCTTCTTCC	-																															gaatgccttcaacgtctgctTcttcttcctaagcatacaca																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	TCTTCTTCC	TCTTCTTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	102506011	TCTTCTTCC	-	102506003	7	5	152	1	0	1	0	1	0	0	0	0	10764	1783	62	0	848	0	NUP37	12	102506003	In_Frame_Del	DEL	TCTTCTTCC	TCGA-B0-5698-01A-11D-1669-08	23952979	102506003	31345892	47	8478											
TMEM132D	121256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	129558540	129558540	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcacgatggagttcctggtGgggtactcgtcgtctgagga	7	11	15	8	3	2	1	1	1	1	0	5	4	3	3	1	5	1	2	1	5	1	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	129558540	G	T	129558540	2	4	152	1	0	0	0	0	0	0	0	1	16046	1335	47	4		4	TMEM132D	12	129558540	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08	27052537	129558540	4293355	48	8479											
RIMBP2	23504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130935856	130935856	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggatatattcaccgatcgCagagctgcctccaatagcgc	10	8	9	14	4	1	1	1	0	0	1	3	3	2	2	4	1	3	2	4	1	4	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	130935856	C	T	130935856	3	4	152	1	0	0	0	0	1	0	0	0	13365	710	25	2	2881	2	RIMBP2	12	130935856	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	1377316	130935856	2916039	49	8480											
EP400	57634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	132511994	132511994	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttgtagttggcgttccggGccgcgtggcggtgaatgcct	4	12	16	9	5	0	1	0	1	0	0	1	1	1	1	3	4	1	3	3	4	2	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	132511994	G	A	132511994	3	1	152	1	0	0	0	0	1	0	0	0	5149	1203	42	2	5122	2	EP400	12	132511994	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	1576138	132511994	1339901	50	8481											
ELF1	1997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41507956	41507956	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagagcccgccttttGtgactgcagcatgacatttt	9	11	12	9	1	0	3	0	2	0	1	0	5	0	4	2	2	3	2	2	2	0	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	41507956	G	A	41507956	4	1	152	1	0	0	0	0	0	1	0	0	5053	1386	48	2	398	2	ELF1	13	41507956	Nonsense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		41507956	73661922	51	8482											
SLITRK6	84189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	86370082	86370082	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatttccacgaagatctaGatgggttaaaggaacaaatc	15	11	9	6	1	1	3	0	1	1	2	3	5	2	4	1	2	1	1	1	2	6	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	86370082	G	T	86370082	3	4	152	1	0	0	0	0	1	0	0	0	14749	933	33	4	1967	4	SLITRK6	13	86370082	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	44862126	86370082	28799796	52	8483											
NALCN	259232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	101720287	101720287	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacctctcttttatcatccaCcatgttccatattatttgaa	10	18	2	11	0	2	1	1	1	1	0	5	1	4	1	4	0	1	1	4	0	5	7	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	101720287	C	A	101720287	3	1	152	1	0	0	0	0	1	0	0	0	10148	507	18	4	811	4	NALCN	13	101720287	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	15350205	101720287	13449591	53	8484											
L2HGDH	79944	broad.mit.edu	37	chr14	50736035	50736035	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	atgtcacaacatactgacatCgaatttcctctccctagtgc	11	12	5	13	1	2	1	1	1	1	0	5	2	3	1	2	0	3	0	2	0	4	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	50736035	G	G	50736035	3	3	152	1	0	0	0	0	1	0	0	0	8590	884	31	4	655	4	L2HGDH	14	50736035	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08		50736035	56613505	54	8485											
KIAA1370	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52892355	52892355	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaggagactaagacttgttAtaggtggagcactagaactc	13	10	11	7	0	0	3	0	0	0	3	1	5	0	4	0	3	2	2	0	3	6	6	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	52892355	A	G	52892355	3	3	152	1	0	0	0	0	1	0	0	0	8226	449	16	3	632	3	KIAA1370	15	52892355	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08		52892355	49639037	55	8486											
NEO1	4756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	73585755	73585755	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattagtgcccatcccatccAttccctcgataaccctcacc	9	10	4	18	1	1	0	1	0	0	0	5	2	4	0	6	0	2	0	6	0	2	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	73585755	A	G	73585755	3	3	152	1	0	0	0	0	1	0	0	0	10336	217	8	3	3869	3	NEO1	15	73585755	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08	20693400	73585755	28945637	56	8487											
XPO6	23214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28115915	28115915	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccatctgctcctcagcGatccccctctggacactggc	5	11	7	18	1	4	0	1	0	3	0	7	2	6	1	4	2	2	1	4	2	0	1	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	28115915	G	T	28115915	2	4	152	1	0	0	0	0	0	0	0	1	17447	1048	37	4		4	XPO6	16	28115915	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08		28115915	62238838	57	8488											
ITFG1	81533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	47493063	47493063	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atagggtgcattctggtctgCcaaaaagacgattaagtcat	13	11	10	7	1	3	1	1	0	2	1	3	2	3	1	1	2	2	1	1	2	4	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	47493063	C	A	47493063	3	1	152	1	0	0	0	0	1	0	0	0	7869	739	26	4	1674	4	ITFG1	16	47493063	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	19377148	47493063	42861690	58	8489											
FTSJD1	55783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71318530	71318530	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcctctgcccaaaccattTtgtatttgtactacaaccaa	11	14	4	12	0	1	0	0	0	1	0	2	0	2	0	4	0	5	3	4	0	6	7	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	71318530	T	C	71318530	3	2	152	1	0	0	0	0	1	0	0	0	6090	1850	64	3	1022	3	FTSJD1	16	71318530	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08	23825467	71318530	19036223	59	8490											
ARHGEF15	22899	hgsc.bcm.edu;ucsc.edu	37	chr17	8216256	8216256	+	Frame_Shift_Del	DEL	C	C	-																															acagatgctggcctggcctgCcctccctgctgcccctgtgt																								novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		-	8216256	C	-	8216256	7	5	152	1	0	1	0	1	0	0	0	0	898	747	26	0	624	0	ARHGEF15	17	8216256	Frame_Shift_Del	DEL	C	TCGA-B0-5698-01A-11D-1669-08		8216256	72978954	60	8491											
TMIGD1	388364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	28659092	28659092	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatctcacgtggcagaaaTaaaattactaagagaagaaa	19	8	8	6	1	2	3	2	0	1	3	3	4	2	3	0	1	1	1	0	1	7	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		G	28659092	T	G	28659092	3	3	152	1	0	0	0	0	1	0	0	0	16229	1403	49	5	752	5	TMIGD1	17	28659092	Missense_Mutation	SNP	T	TCGA-B0-5698-01A-11D-1669-08	20442836	28659092	52536118	61	8492											
ATP6V0A1	535	broad.mit.edu	37	chr17	40647651	40647651	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcatggtagtgaagagAcgcttcgggggaaccctgtt	8	10	14	9	2	1	2	1	1	0	1	2	4	1	3	2	3	1	3	2	3	3	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	40647651	T	T	40647651	3	4	152	1	0	0	0	0	1	0	0	0	1168	275	10	5	1548	5	ATP6V0A1	17	40647651	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08	11988559	40647651	40547559	62	8493											
NFE2L1	4779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46134732	46134732	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacatttccagcataacAgaagcagtgcctagtgagag	14	7	11	9	0	0	3	0	1	0	3	1	4	1	3	2	0	4	3	2	0	3	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	46134732	A	T	46134732	2	4	152	1	0	0	0	0	0	0	0	1	10367	175	7	5		5	NFE2L1	17	46134732	Silent	SNP	A	TCGA-B0-5698-01A-11D-1669-08	5487081	46134732	35060478	63	8494											
CTDP1	9150	broad.mit.edu;hgsc.bcm.edu	37	chr18	77475251	77475251	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctacctggaggagatcctGgtccgtgtacacactgacta	10	10	10	11	1	1	2	0	1	1	1	3	4	3	3	3	3	2	1	3	3	3	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	77475251	G	C	77475251	2	2	152	1	0	0	0	0	0	0	0	1	4002	1335	47	4		4	CTDP1	18	77475251	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08		77475251	601997	64	8495											
DAZAP1	26528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1433802	1433802	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgtttacagtcttatggtCaggctgagcagtgatgtggc	7	15	13	6	0	2	2	1	2	1	0	2	2	2	2	0	3	2	3	0	3	2	4	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	1433802	C	T	1433802	2	4	152	1	0	0	0	0	0	0	0	1	4244	813	29	2		2	DAZAP1	19	1433802	Silent	SNP	C	TCGA-B0-5698-01A-11D-1669-08		1433802	57695181	65	8496											
PIP5K1C	23396	broad.mit.edu	37	chr19	3651997	3651997	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtgcacgcccagcagcagGctgtagtccatgatcttgaa	9	10	11	11	1	1	2	0	2	1	0	2	2	2	2	2	1	3	5	2	1	2	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	3651997	T	T	3651997	3	4	152	1	0	0	0	0	1	0	0	0	11941	1194	42	4	1096	4	PIP5K1C	19	3651997	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	2218195	3651997	55476986	66	8497											
OR10H4	126541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16059970	16059970	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctcatcatggccacaatctgGattgaacacagactccacac	13	8	6	14	0	3	2	2	1	1	1	4	3	4	3	2	2	1	0	2	2	2	1	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	16059970	G	A	16059970	4	1	152	1	0	0	0	0	0	1	0	0	10908	1183	41	2	155	2	OR10H4	19	16059970	Nonsense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	12407973	16059970	43069013	67	8498											
FAM125A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17533164	17533164	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgtgtccaagaagaaaCgcatgtgtgtgaagctgttg	10	11	12	8	1	1	3	0	1	1	2	2	3	2	3	2	0	2	3	2	0	4	1	rs146357246	alternate_allele	TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	17533164	C	T	17533164	3	4	152	1	0	0	0	0	1	0	0	0	5427	536	19	1	324	1	FAM125A	19	17533164	Missense_Mutation	SNP	C	TCGA-B0-5698-01A-11D-1669-08	1473194	17533164	41595819	68	8499											
SHKBP1	92799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41094601	41094601	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgatttccacccagcccGgctccaccccactcgcttcc	6	8	6	21	2	0	1	0	1	0	0	4	1	3	1	7	1	1	3	7	1	0	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	41094601	G	A	41094601	3	1	152	1	0	0	0	0	1	0	0	0	14286	1116	39	1	1462	1	SHKBP1	19	41094601	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08	23561437	41094601	18034382	69	8500											
LTBP4	8425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41120306	41120306	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctcctaccgctgtgtccgGgactgcgatcctgggtacca	5	9	13	14	3	0	0	0	0	0	0	3	2	3	1	5	3	3	3	5	3	2	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	41120306	G	A	41120306	2	1	152	1	0	0	0	0	0	0	0	1	9076	1219	43	2		2	LTBP4	19	41120306	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08	25705	41120306	18008677	70	8501											
ZNF341	84905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	32377331	32377331	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgggttttaggacgcacAcaggctgcagtaaggagttc	9	11	13	8	1	0	0	0	0	0	0	1	2	0	2	0	4	1	6	0	4	2	5	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	32377331	A	C	32377331	3	2	152	1	0	0	0	0	1	0	0	0	17856	159	6	5	2005	5	ZNF341	20	32377331	Missense_Mutation	SNP	A	TCGA-B0-5698-01A-11D-1669-08		32377331	30648189	71	8502											
SIK1	150094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	44840177	44840177	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcgcctgctcatcgtaGtcgcccaggttggaggtgta	6	9	13	13	3	1	0	1	0	0	0	3	1	1	1	3	3	2	4	3	3	2	3	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		A	44840177	G	A	44840177	2	1	152	1	0	0	0	0	0	0	0	1	14319	1020	36	2		2	SIK1	21	44840177	Silent	SNP	G	TCGA-B0-5698-01A-11D-1669-08		44840177	3289718	72	8503											
CLTCL1	8218	broad.mit.edu;hgsc.bcm.edu	37	chr22	19210260	19210260	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgcggtataaatataGgacaaggtcatggacaaagc	14	10	12	5	1	1	0	1	0	0	0	1	2	1	2	0	4	2	3	0	4	7	6	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	19210260	G	C	19210260	3	2	152	1	0	0	0	0	1	0	0	0	3567	991	35	4	2629	4	CLTCL1	22	19210260	Missense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		19210260	32094306	73	8504											
MAPK12	6300	broad.mit.edu;hgsc.bcm.edu	37	chr22	50695076	50695076	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgccgggcttcaggtcCtgggggcagaggaaaggtgg	7	7	20	7	1	1	1	1	0	0	1	2	2	2	2	2	8	1	3	2	8	1	2	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		T	50695076	C	T	50695076	5	4	152	1	0	0	0	0	0	0	1	0	9274	695	24	2	675	2	MAPK12	22	50695076	Splice_Site	SNP	C	TCGA-B0-5698-01A-11D-1669-08	31484816	50695076	609490	74	8505											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu	37	chrX	53224222	53224222	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggctgcgcttggtgctgtctGagccggcatctgcacatggg	4	10	16	11	2	2	1	0	1	2	0	2	1	2	1	1	4	4	5	1	4	0	1	novel		TCGA-B0-5698-01A-11D-1669-08	TCGA-B0-5698-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ddf2fa6-7871-49fb-be2c-8fce6f8e41ed	7f4d9a43-84db-47f3-b579-2ff98bd05afb		C	53224222	G	C	53224222	4	2	152	1	0	0	0	0	0	1	0	0	8135	1294	45	4	1471	4	KDM5C	23	53224222	Nonsense_Mutation	SNP	G	TCGA-B0-5698-01A-11D-1669-08		53224222	102046338	75	8506											
GJB3	2707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35250612	35250612	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggccctgcagctcatcttCgtcacatgcccctcgctgct	4	11	9	17	2	3	0	2	0	1	0	5	0	3	0	3	1	4	4	3	1	0	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	35250612	C	T	35250612	2	4	153	1	0	0	0	0	0	0	0	1	6409	883	31	1		1	GJB3	1	35250612	Silent	SNP	C	TCGA-B0-5699-01A-11D-1534-10		35250612	214000009	1	8507											
COL9A2	1298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40777353	40777353	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtttcccagggggtcctGggggccccgatggtccatct	4	9	15	13	1	1	0	0	0	1	0	4	1	4	0	5	6	0	1	5	6	0	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	40777353	G	A	40777353	3	1	153	1	0	0	0	0	1	0	0	0	3708	1348	47	2	1713	2	COL9A2	1	40777353	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	5526741	40777353	208473268	2	8508											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu	37	chr1	144922040	144922040	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagctggagaagtacccTctgagctctgaaaagagagt	12	8	13	8	0	2	5	0	3	2	2	2	7	2	5	1	1	3	4	1	1	4	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	144922040	T	C	144922040	3	2	153	1	0	0	0	0	1	0	0	0	11643	1551	54	3	6205	3	PDE4DIP	1	144922040	Missense_Mutation	SNP	T	TCGA-B0-5699-01A-11D-1534-10	104144687	144922040	104328581	3	8509											
DCST1	149095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155006934	155006934	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcagaggctcctgacctggGggctgccagtctcctgtagc	5	9	14	13	0	1	2	0	1	1	1	3	2	2	2	4	3	3	4	4	3	1	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	155006934	G	T	155006934	3	4	153	1	0	0	0	0	1	0	0	0	4302	1232	43	4	91	4	DCST1	1	155006934	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	10084894	155006934	94243687	4	8510											
EHBP1	23301	broad.mit.edu;ucsc.edu	37	chr2	62934347	62934347	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcttcagtttggaagagActgcagcgtgtgggaaaaca	12	9	14	6	1	1	1	1	0	0	1	1	4	1	3	0	3	3	3	0	3	3	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	62934347	G	G	62934347	2	3	153	1	0	0	0	0	0	0	0	1	4975	272	10	3		3	EHBP1	2	62934347	Silent	SNP	A	TCGA-B0-5699-01A-11D-1534-10		62934347	180265026	5	8511											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47164498	47164498	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatgcttagaatatgatGaccctcgtcggaatcccagt	10	12	9	10	2	1	3	1	2	0	1	4	4	2	4	2	1	1	1	2	1	4	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	47164498	G	T	47164498	4	4	153	1	0	0	0	0	0	1	0	0	14133	1294	45	4	6142	4	SETD2	3	47164498	Nonsense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10		47164498	150857932	6	8512											
BAP1	8314	ucsc.edu	37	chr3	52436362	52436362	+	Frame_Shift_Del	DEL	T	T	-																															gccggtcaggcttccgctgcTtgtggagccggccgatgctg																								novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	T	-	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		-	52436362	T	-	52436362	7	5	153	1	0	1	0	1	0	0	0	0	1311	1609	56	0	61	0	BAP1	3	52436362	Frame_Shift_Del	DEL	T	TCGA-B0-5699-01A-11D-1534-10	5271864	52436362	145586068	7	8513											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52649451	52649451	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgagtaacttctccaGgatatgtgcatcattataaa	12	14	6	9	0	2	1	1	1	1	0	4	2	3	2	2	1	2	2	2	1	5	6	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	52649451	G	C	52649451	3	2	153	1	0	0	0	0	1	0	0	0	11491	991	35	4	3124	4	PBRM1	3	52649451	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	213089	52649451	145372979	8	8514											
ALDH1L1	10840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	125854457	125854457	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatccttggctgcggccaCtgccttgtcgacgtcggtga	4	10	14	13	4	0	1	0	1	0	0	3	2	1	1	3	4	2	2	3	4	0	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	125854457	C	G	125854457	3	3	153	1	0	0	0	0	1	0	0	0	494	565	20	4	1363	4	ALDH1L1	3	125854457	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10	73205006	125854457	72167973	9	8515											
PLXNA1	5361	broad.mit.edu;ucsc.edu	37	chr3	126707667	126707667	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atctataagctgtcggggaaCctgacactgctgcgggccca	9	8	12	12	2	1	1	0	1	1	0	2	2	1	2	2	3	4	2	2	3	3	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	126707667	T	T	126707667	2	4	153	1	0	0	0	0	0	0	0	1	12119	506	18	2		2	PLXNA1	3	126707667	Silent	SNP	C	TCGA-B0-5699-01A-11D-1534-10	853210	126707667	71314763	10	8516											
MUC4	4585	hgsc.bcm.edu	37	chr3	195512550	195512597	+	In_Frame_Del	DEL	GGTGGCGTGACCTGTGGGTACTGAGGAAGCGTCGGTGACAGGAAGAGG	GGTGGCGTGACCTGTGGGTACTGAGGAAGCGTCGGTGACAGGAAGAGG	-																															gcgtcggtgacaggaagagaGgtggcgtgacctgtgggtac																								novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	GGTGGCGTGACCTGTGGGTACTGAGGAAGCGTCGGTGACAGGAAGAGG	GGTGGCGTGACCTGTGGGTACTGAGGAAGCGTCGGTGACAGGAAGAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		-	195512597	GGTGGCGTGACCTGTGGGTACTGAGGAAGCGTCGGTGACAGGAAGAGG	-	195512550	7	5	153	1	0	1	0	1	0	0	0	0	9978	987	35	0		0	MUC4	3	195512550	In_Frame_Del	DEL	GGTGGCGTGACCTGTGGGTACTGAGGAAGCGTCGGTGACAGGAAGAGG	TCGA-B0-5699-01A-11D-1534-10	68804883	195512550	2509880	11	8517											
NOP14	8602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2948137	2948137	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctagactgaactctgcttAccacatccaaccctggcaat	11	9	6	15	0	1	2	0	1	1	1	2	2	2	2	4	1	4	2	4	1	5	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	2948137	A	G	2948137	5	3	153	1	0	0	0	0	0	0	1	0	10536	405	14	3	968	3	NOP14	4	2948137	Splice_Site	SNP	A	TCGA-B0-5699-01A-11D-1534-10		2948137	188206139	12	8518											
UGT2B11	10720	broad.mit.edu;hgsc.bcm.edu	37	chr4	70078407	70078407	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cataagccatatgtcagcttTtcccattgtctcaaataagg	12	13	6	10	0	2	0	2	0	1	0	4	0	3	0	2	1	2	1	2	1	4	6	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	70078407	T	C	70078407	3	2	153	1	0	0	0	0	1	0	0	0	16956	1850	64	3	855	3	UGT2B11	4	70078407	Missense_Mutation	SNP	T	TCGA-B0-5699-01A-11D-1534-10	67130270	70078407	121075869	13	8519											
UGT2B4	7363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	70346629	70346629	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcatagcattctctttatatCtaaacgataagcagaaaagt	16	13	5	7	1	3	1	1	0	2	1	4	2	3	1	0	0	3	2	0	0	8	7	rs71599906	bycluster;byfrequency	TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	70346629	C	G	70346629	5	3	153	1	0	0	0	0	0	0	1	0	16960	927	32	4	280	4	UGT2B4	4	70346629	Splice_Site	SNP	C	TCGA-B0-5699-01A-11D-1534-10	268222	70346629	120807647	14	8520											
PRDM9	56979	broad.mit.edu	37	chr5	23522473	23522473	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgagaaagaaagggtcatgCatacaaagaggtcagcgagc	16	4	14	7	2	2	3	2	0	0	3	2	5	2	3	0	2	4	1	0	2	4	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	23522473	A	A	23522473	3	1	153	1	0	0	0	0	1	0	0	0	12465	710	25	4	591	4	PRDM9	5	23522473	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10		23522473	157392787	15	8521											
PCDHGB4	8641	broad.mit.edu;hgsc.bcm.edu	37	chr5	140769724	140769724	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tctatgtgttgcacatacagGaaagacggagtttaatttcc	12	13	9	7	1	1	1	0	0	1	1	2	3	2	3	1	2	2	3	1	2	4	6	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	140769724	G	C	140769724	3	2	153	1	0	0	0	0	1	0	0	0	11565	1174	41	4	2275	4	PCDHGB4	5	140769724	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	117247251	140769724	40145536	16	8522											
FAM71B	153745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156589916	156589916	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcccccgctctcctgcGgtgactttcacctgccttgc	2	13	8	18	2	2	1	1	1	1	0	4	1	3	1	5	1	3	1	5	1	0	3	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	156589916	G	A	156589916	3	1	153	1	0	0	0	0	1	0	0	0	5608	1116	39	1	461	1	FAM71B	5	156589916	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	15820192	156589916	24325344	17	8523											
SYNGAP1	8831	broad.mit.edu;hgsc.bcm.edu	37	chr6	33408548	33408548	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggtgtttgcttcgtggcgGctgcgctgcgcagagcgagg	4	9	19	9	5	0	1	0	0	0	1	1	3	0	1	0	4	4	5	0	4	0	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	33408548	G	A	33408548	2	1	153	1	0	0	0	0	0	0	0	1	15446	1190	42	2		2	SYNGAP1	6	33408548	Silent	SNP	G	TCGA-B0-5699-01A-11D-1534-10		33408548	137706519	18	8524											
SLC26A8	116369	broad.mit.edu;hgsc.bcm.edu	37	chr6	35922941	35922941	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacttacctgtcttaatacGactaacccccgtgaatccac	11	11	5	14	2	1	1	0	1	1	0	2	2	2	1	4	0	4	1	4	0	6	5	rs193054248	by1000genomes;alternate_allele	TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	35922941	G	A	35922941	2	1	153	1	0	0	0	0	0	0	0	1	14525	1045	37	1		1	SLC26A8	6	35922941	Silent	SNP	G	TCGA-B0-5699-01A-11D-1534-10	2514393	35922941	135192126	19	8525											
PCMT1	5110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150094281	150094281	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcttttgcaggtttccaAgcaacaatcagtgctccaca	10	13	6	12	0	3	0	1	0	2	0	5	0	5	0	2	1	4	4	2	1	3	4	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	150094281	A	G	150094281	2	3	153	1	0	0	0	0	0	0	0	1	11585	69	3	3		3	PCMT1	6	150094281	Silent	SNP	A	TCGA-B0-5699-01A-11D-1534-10	114171340	150094281	21020786	20	8526											
ABCB1	5243	broad.mit.edu;ucsc.edu	37	chr7	87214930	87214930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagaggaagtccagcccCatggatgatggcagccaaag	13	5	13	10	0	0	2	0	2	0	1	1	5	1	4	4	3	2	1	4	3	2	0	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	87214930	T	T	87214930	3	4	153	1	0	0	0	0	1	0	0	0	40	594	21	2	3758	2	ABCB1	7	87214930	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10		87214930	71923733	21	8527											
SLC25A40	55972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	87483612	87483612	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgagtccattactataTacaaaacattttcctaacaa	16	13	2	10	0	0	1	0	1	0	0	3	1	3	1	3	0	4	0	3	0	8	7	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	87483612	T	C	87483612	2	2	153	1	0	0	0	0	0	0	0	1	14507	1393	49	3		3	SLC25A40	7	87483612	Silent	SNP	T	TCGA-B0-5699-01A-11D-1534-10	268682	87483612	71655051	22	8528											
ALKBH4	54784	broad.mit.edu	37	chr7	102098340	102098340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtagaggcccatcctcCgcaccacctcccggctgaag	7	5	11	18	3	0	2	0	1	0	1	3	2	3	2	7	3	0	3	7	3	2	1	rs145100726	byfrequency	TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	102098340	T	T	102098340	3	4	153	1	0	0	0	0	1	0	0	0	529	652	23	1	502	1	ALKBH4	7	102098340	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10	14614728	102098340	57040323	23	8529											
CLEC2L	154790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	139225199	139225199	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgccacacccacgaggCggtgctggctgtgattcaga	8	8	13	12	2	1	2	1	1	0	1	1	3	1	2	2	3	3	3	2	3	1	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	139225199	C	A	139225199	3	1	153	1	0	0	0	0	1	0	0	0	3509	768	27	4	408	4	CLEC2L	7	139225199	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10	37126859	139225199	19913464	24	8530											
PTK2B	2185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27296898	27296898	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacgcttcacgacagccaGtgacgtctggatgttcggtg	7	9	13	12	5	2	1	1	1	1	0	3	4	2	2	2	2	1	2	2	2	0	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	27296898	G	A	27296898	3	1	153	1	0	0	0	0	1	0	0	0	12765	1029	36	2	1891	2	PTK2B	8	27296898	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10		27296898	119067124	25	8531											
GSR	2936	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	30538473	30538473	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacacattttgttttccttTtggtaactgcgtgatacatc	8	18	6	9	1	1	1	1	1	0	0	3	1	2	1	1	1	3	2	1	1	2	8	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	30538473	T	C	30538473	3	2	153	1	0	0	0	0	1	0	0	0	6828	1841	64	3	209	3	GSR	8	30538473	Missense_Mutation	SNP	T	TCGA-B0-5699-01A-11D-1534-10	3241575	30538473	115825549	26	8532											
A1CF	29974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	52601746	52601746	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattctcatttcataaatttTaccgatctgcaagtaataga	14	15	4	8	1	3	1	2	0	2	1	4	2	3	1	1	0	2	2	1	0	6	7	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	52601746	T	A	52601746	4	1	153	1	0	0	0	0	0	1	0	0	2	1763	61	5	1579	5	A1CF	10	52601746	Nonsense_Mutation	SNP	T	TCGA-B0-5699-01A-11D-1534-10		52601746	82933001	27	8533											
LRIT2	340745	broad.mit.edu	37	chr10	85982281	85982281	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagaatcaggtgcatgtaGggcctgggcaggctggacat	11	7	16	7	0	1	1	1	0	0	1	1	3	1	2	1	5	1	4	1	5	3	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	85982281	T	T	85982281	3	4	153	1	0	0	0	0	1	0	0	0	8948	991	35	4	608	4	LRIT2	10	85982281	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	33380535	85982281	49552466	28	8534											
NAV2	89797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19955242	19955242	+	Silent	SNP	C	C	A																															aagaagagttctctgaaaggCaatgagaaagagaaggagaa																								novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	19955242	C	A	19955242	2	1	153	1	0	0	0	0	0	0	0	1	10184	697	25	4		4	NAV2	11	19955242	Silent	SNP	C	TCGA-B0-5699-01A-11D-1534-10		19955242	115051274	29	8535	116	2									
NAV2	89797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19955243	19955243	+	Missense_Mutation	SNP	A	A	T																															agaagagttctctgaaaggcAatgagaaagagaaggagaaa																								novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	19955243	A	T	19955243	3	4	153	1	0	0	0	0	1	0	0	0	10184	130	5	5	1558	5	NAV2	11	19955243	Missense_Mutation	SNP	A	TCGA-B0-5699-01A-11D-1534-10	1	19955243	115051273	30	8536	116	2									
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu	37	chr11	122930929	122930929	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttggtagcctgacgctgAgagtcattaaagtaagctgg	10	12	12	7	1	2	2	1	2	1	1	2	3	2	2	1	2	2	4	1	2	4	4	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	122930929	A	G	122930929	2	3	153	1	0	0	0	0	0	0	0	1	7416	291	11	3		3	HSPA8	11	122930929	Silent	SNP	A	TCGA-B0-5699-01A-11D-1534-10	102975686	122930929	12075587	31	8537											
ZNF740	283337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53579788	53579788	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtaaagattcccaaaaaTtttgtttgtgaacactgctt	14	14	6	7	0	0	2	0	1	0	1	1	2	1	2	1	0	2	3	1	0	6	6	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	53579788	T	A	53579788	3	1	153	1	0	0	0	0	1	0	0	0	18127	1490	52	5	314	5	ZNF740	12	53579788	Missense_Mutation	SNP	T	TCGA-B0-5699-01A-11D-1534-10		53579788	80272107	32	8538											
SYT1	6857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	79747321	79747321	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcttctcccttcgctacGtacctactgctggtaagctg	5	14	8	14	2	2	0	0	0	2	0	4	0	2	0	2	1	6	6	2	1	4	6	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	79747321	G	A	79747321	3	1	153	1	0	0	0	0	1	0	0	0	15464	1145	40	1	872	1	SYT1	12	79747321	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	26167533	79747321	54104574	33	8539											
DCAF11	80344	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24587733	24587733	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacttcctctactctagctgGtctgattacagtgagtatgc	8	14	8	11	0	3	2	0	2	3	0	4	2	4	2	1	1	4	2	1	1	4	5	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	24587733	G	C	24587733	3	2	153	1	0	0	0	0	1	0	0	0	4262	1270	44	4	736	4	DCAF11	14	24587733	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10		24587733	82761807	34	8540											
ARHGAP5	394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	32563340	32563340	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccttcaaaatacaaataTaaatctaaaaccttgtttag	18	12	4	7	0	2	0	1	0	1	0	2	0	2	0	2	1	2	1	2	1	10	8	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	32563340	T	G	32563340	4	3	153	1	0	0	0	0	0	1	0	0	886	1413	49	5	3467	5	ARHGAP5	14	32563340	Nonsense_Mutation	SNP	T	TCGA-B0-5699-01A-11D-1534-10	7975607	32563340	74786200	35	8541											
C14orf138	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	50579393	50579393	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcgatactcttcatcatgTttttccaaaggaattttttc	9	19	4	9	1	3	0	2	0	1	0	6	2	4	1	1	1	1	1	1	1	3	8	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	50579393	T	C	50579393	2	2	153	1	0	0	0	0	0	0	0	1	1746	1722	60	3		3	C14orf138	14	50579393	Silent	SNP	T	TCGA-B0-5699-01A-11D-1534-10	18016053	50579393	56770147	36	8542											
ACSBG1	23205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78486923	78486923	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtgttcccacttgtcctgGcgcttgaagcccaaagcgat	8	11	10	12	2	0	1	0	1	0	0	2	2	2	1	3	1	2	2	3	1	2	3	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	78486923	G	A	78486923	2	1	153	1	0	0	0	0	0	0	0	1	173	1190	42	2		2	ACSBG1	15	78486923	Silent	SNP	G	TCGA-B0-5699-01A-11D-1534-10		78486923	24044469	37	8543											
NAT9	26151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72769713	72769713	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgggggggcactcctcActgtctgcatcttcctgcca	6	10	12	13	0	3	0	1	0	2	0	5	1	5	0	3	3	2	2	3	3	1	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	72769713	A	G	72769713	5	3	153	1	0	0	0	0	0	0	1	0	10182	173	6	3	451	3	NAT9	17	72769713	Splice_Site	SNP	A	TCGA-B0-5699-01A-11D-1534-10		72769713	8425497	38	8544											
KIAA1468	57614	broad.mit.edu;hgsc.bcm.edu	37	chr18	59854885	59854885	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggaagtggcctagatccTggctctgcgggctcgctgtc	4	9	15	13	3	1	1	0	0	1	1	4	2	2	2	3	4	1	3	3	4	2	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	59854885	T	G	59854885	2	3	153	1	0	0	0	0	0	0	0	1	8236	1567	55	5		5	KIAA1468	18	59854885	Silent	SNP	T	TCGA-B0-5699-01A-11D-1534-10		59854885	18222363	39	8545											
VAV1	7409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6828475	6828475	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatggagaaggagaacctgCggctggccctggatgccatg	9	6	16	10	2	0	2	0	0	0	2	0	6	0	3	3	5	3	1	3	5	2	0	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	6828475	C	T	6828475	3	4	153	1	0	0	0	0	1	0	0	0	17130	759	27	1	1111	1	VAV1	19	6828475	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10		6828475	52300508	40	8546											
ANKRD27	84079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	33110234	33110234	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagaagctggaagtggAggactcttggctgatggagt	10	8	19	4	0	1	2	0	1	1	1	1	8	1	7	0	7	1	2	0	7	2	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	33110234	A	T	33110234	3	4	153	1	0	0	0	0	1	0	0	0	655	304	11	5	1253	5	ANKRD27	19	33110234	Missense_Mutation	SNP	A	TCGA-B0-5699-01A-11D-1534-10	26281759	33110234	26018749	41	8547											
FPR1	2357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52249899	52249899	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtccagagcaatgagggCgatcaggaagacacttccga	12	5	14	10	3	1	3	1	1	0	2	3	6	3	4	2	3	1	1	2	3	2	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	52249899	C	T	52249899	3	4	153	1	0	0	0	0	1	0	0	0	6038	768	27	1	707	1	FPR1	19	52249899	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10	19139665	52249899	6879084	42	8548											
EYA2	2139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	45702893	45702893	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccggccagcagcatctgcCcttcgcccctctccacgtcc	4	8	7	22	3	2	0	0	0	2	0	6	0	4	0	7	1	3	2	7	1	0	1	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	45702893	C	A	45702893	3	1	153	1	0	0	0	0	1	0	0	0	5329	623	22	4	602	4	EYA2	20	45702893	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10		45702893	17322627	43	8549											
DDX27	55661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47838004	47838004	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccaggggcccattgtgctgGgcagacgacaaaaagctttg	10	7	13	11	1	0	1	0	0	0	1	0	2	0	1	2	3	2	3	2	3	2	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		C	47838004	G	C	47838004	3	2	153	1	0	0	0	0	1	0	0	0	4354	1232	43	4	208	4	DDX27	20	47838004	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	2135111	47838004	15187516	44	8550											
ZNFX1	57169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47887950	47887950	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtggctgttctgtaggCttctggtggggagtccgcca	3	13	16	9	1	2	0	0	0	2	0	3	1	3	1	2	5	1	5	2	5	1	3	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	47887950	C	T	47887950	2	4	153	1	0	0	0	0	0	0	0	1	18204	796	28	2		2	ZNFX1	20	47887950	Silent	SNP	C	TCGA-B0-5699-01A-11D-1534-10	49946	47887950	15137570	45	8551											
GATA5	140628	broad.mit.edu	37	chr20	61041502	61041502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgcagcttcatgtagaGgccgcaggcattgcacacgg	8	7	13	13	3	1	1	1	0	0	1	1	1	1	1	2	3	3	6	2	3	1	3	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	61041502	A	A	61041502	3	1	153	1	0	0	0	0	1	0	0	0	6257	1000	35	2	404	2	GATA5	20	61041502	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10	13153552	61041502	1984018	46	8552											
SFRS15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33076230	33076230	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taatcccggaaccttgtattCtggtttacactgcaaggata	11	13	8	9	1	1	0	0	0	1	0	2	2	2	2	2	3	3	3	2	3	6	7	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		G	33076230	C	G	33076230	3	3	153	1	0	0	0	0	1	0	0	0	14173	922	32	4	3342	4	SFRS15	21	33076230	Missense_Mutation	SNP	C	TCGA-B0-5699-01A-11D-1534-10		33076230	15053665	47	8553											
RPL3	6122	broad.mit.edu;ucsc.edu	37	chr22	39709724	39709724	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcacttcaccatagtggAcaaagccaccctggaaaacg	13	7	9	12	1	2	0	2	0	0	0	2	2	2	2	3	3	2	0	3	3	4	2	novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		T	39709724	T	T	39709724	3	4	153	1	0	0	0	0	1	0	0	0	13581	275	10	5	261	5	RPL3	22	39709724	Missense_Mutation	SNP	A	TCGA-B0-5699-01A-11D-1534-10		39709724	11594842	48	8554											
SLC25A6	293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	1505637	1505637	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacagtcgacggtgcccGtgtacatgatgtcagctgca	9	9	11	12	3	1	1	1	1	0	0	3	2	2	1	2	1	5	3	2	1	2	1	rs143212891		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		A	1505637	G	A	1505637	3	1	153	1	0	0	0	0	1	0	0	0	14515	1145	40	1	145	1	SLC25A6	23	1505637	Missense_Mutation	SNP	G	TCGA-B0-5699-01A-11D-1534-10		1505637	153764923	49	8555											
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140993904	140993906	+	In_Frame_Del	DEL	CCC	CCC	-																															cctctccagattcctgtgagCccctcctcctcctccacttt																								novel		TCGA-B0-5699-01A-11D-1534-10	TCGA-B0-5699-11A-01D-1534-10	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f114d9c-6672-4440-be2d-b0370a9e35f2	36406ad1-96ad-420f-8b28-5142618e35f6		-	140993906	CCC	-	140993904	7	5	153	1	0	1	0	1	0	0	0	0	9180	738	26	0	720	0	MAGEC1	23	140993904	In_Frame_Del	DEL	CCC	TCGA-B0-5699-01A-11D-1534-10	139488267	140993904	14276656	50	8556											
VHL	7428	hgsc.bcm.edu	37	chr3	10183768	10183769	+	Frame_Shift_Ins	INS	-	-	T																															aggtcatcttctgcaatcgcINSagtccgcgcgtcgtgctgcc																								novel		TCGA-B0-5699-01A-11W-1584-10	TCGA-B0-5699-11A-01W-1584-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	97ea3c2a-a6b9-4d97-bc69-a6e11f187783	b795c8fc-7d51-494c-87c6-a891ad423312		T	10183769	-	T	10183768	7	5	154	1	0	1	1	0	0	0	0	0	17161	697	25	0	239	0	VHL	3	10183768	Frame_Shift_Ins	INS	-	TCGA-B0-5699-01A-11W-1584-10		10183768	187838662	1	8557	117	2									
VHL	7428	hgsc.bcm.edu	37	chr3	10183770	10183773	+	Frame_Shift_Del	DEL	GTCC	GTCC	-																															ggtcatcttctgcaatcgcaGtccgcgcgtcgtgctgcccg																								novel		TCGA-B0-5699-01A-11W-1584-10	TCGA-B0-5699-11A-01W-1584-10	GTCC	GTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	97ea3c2a-a6b9-4d97-bc69-a6e11f187783	b795c8fc-7d51-494c-87c6-a891ad423312		-	10183773	GTCC	-	10183770	7	5	154	1	0	1	0	1	0	0	0	0	17161	1029	36	0	241	0	VHL	3	10183770	Frame_Shift_Del	DEL	GTCC	TCGA-B0-5699-01A-11W-1584-10	2	10183770	187838660	2	8558	117	2									
MTOR	2475	broad.mit.edu;ucsc.edu	37	chr1	11217299	11217299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcttgtcataggccacaAgggcatcctcccactcgtgc	7	12	8	14	1	2	0	1	0	1	0	5	0	4	0	3	2	1	1	3	2	2	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	11217299	G	G	11217299	3	3	155	1	0	0	0	0	1	0	0	0	9954	72	3	3	3386	3	MTOR	1	11217299	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10		11217299	238033322	1	8559											
TAS1R2	80834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19180859	19180859	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgttgaaggacaaggtggCgttcaggcagttgtcgcact	8	10	16	7	2	1	1	1	1	0	0	2	2	1	2	0	5	0	5	0	5	2	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	19180859	C	T	19180859	3	4	155	1	0	0	0	0	1	0	0	0	15562	768	27	1	1430	1	TAS1R2	1	19180859	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	7963560	19180859	230069762	2	8560											
EIF2C3	192669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36411321	36411321	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcccagcccctactcatGgtgcccagaagacctggcta	8	6	12	15	0	1	2	1	0	0	2	1	2	1	2	5	4	3	1	5	4	3	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	36411321	G	A	36411321	3	1	155	1	0	0	0	0	1	0	0	0	5007	1348	47	2	54	2	EIF2C3	1	36411321	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	17230462	36411321	212839300	3	8561											
PTCH2	8643	broad.mit.edu;hgsc.bcm.edu	37	chr1	45288276	45288276	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaggatgccccccacctAagcccgcctccctgtggagc	7	5	12	17	1	0	0	0	0	0	0	1	4	1	3	7	3	3	0	7	3	1	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	45288276	A	T	45288276	2	4	155	1	0	0	0	0	0	0	0	1	12733	349	13	5		5	PTCH2	1	45288276	Silent	SNP	A	TCGA-B0-5701-01A-11D-1534-10	8876955	45288276	203962345	4	8562											
RAD54L	8438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46714224	46714224	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctggccaagagaaaacCtgaaggcaggtcctgtgatg	12	6	13	10	0	0	3	0	2	0	1	1	4	1	3	4	3	2	2	4	3	4	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	46714224	C	A	46714224	3	1	155	1	0	0	0	0	1	0	0	0	12995	681	24	4	50	4	RAD54L	1	46714224	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	1425948	46714224	202536397	5	8563											
SASS6	163786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100572485	100572485	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacttttcattattttttAgaagttgtttgctttcttca	8	23	4	6	0	3	1	2	0	1	1	3	1	3	1	0	0	2	3	0	0	4	11	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	100572485	A	T	100572485	3	4	155	1	0	0	0	0	1	0	0	0	13852	420	15	5	606	5	SASS6	1	100572485	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	53858261	100572485	148678136	6	8564											
NOTCH2	4853	hgsc.bcm.edu;ucsc.edu	37	chr1	120480035	120480035	+	Frame_Shift_Del	DEL	T	T	-																															ggcactgacagtaatgcgtgTtgccagcattgatgcagaca																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	120480035	T	-	120480035	7	5	155	1	0	1	0	1	0	0	0	0	10548	1725	60	0	4079	0	NOTCH2	1	120480035	Frame_Shift_Del	DEL	T	TCGA-B0-5701-01A-11D-1534-10	19907550	120480035	128770586	7	8565											
PDE4DIP	9659	broad.mit.edu	37	chr1	144923791	144923791	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctcatgtgaattcagctTttgttgtttcagcaactctt	7	18	8	8	0	4	1	3	1	2	0	5	1	4	1	0	1	3	4	0	1	2	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	144923791	G	G	144923791	3	3	155	1	0	0	0	0	1	0	0	0	11643	1850	64	5	6539	5	PDE4DIP	1	144923791	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	24443756	144923791	104326830	8	8566											
DCST1	149095	hgsc.bcm.edu	37	chr1	155023256	155023256	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgctgggacgacatgcGgcagcggtgcccggtctgca	5	7	17	12	5	1	0	0	0	1	0	2	2	1	1	1	4	5	3	1	4	0	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	155023256	G	A	155023256	3	1	155	1	0	0	0	0	1	0	0	0	4302	1116	39	1	2095	1	DCST1	1	155023256	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	10099465	155023256	94227365	9	8567											
IGFN1	91156	hgsc.bcm.edu;ucsc.edu	37	chr1	201176095	201176095	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctccaaggtgggcatggccCctgaatcctggggttctcag	6	9	14	12	0	1	1	1	1	1	0	4	1	3	1	4	5	0	3	4	5	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	201176095	C	G	201176095	3	3	155	1	0	0	0	0	1	0	0	0	7590	623	22	4	2116	4	IGFN1	1	201176095	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	46152839	201176095	48074526	10	8568											
NAV1	89796	hgsc.bcm.edu	37	chr1	201772833	201772833	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgcgaaaaagaagaaaaaAaagagttgggtaggtaaagg	21	5	14	1	1	0	3	0	0	0	3	0	5	0	3	0	3	1	3	0	3	10	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	201772833	A	G	201772833	2	3	155	1	0	0	0	0	0	0	0	1	10183	11	1	3		3	NAV1	1	201772833	Silent	SNP	A	TCGA-B0-5701-01A-11D-1534-10	596738	201772833	47477788	11	8569											
TFB2M	64216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	246707837	246707837	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcaccgtaagtggtctatTacagtggcgctgcgcctccc	7	10	10	14	3	2	0	1	0	1	0	3	0	3	0	3	2	2	2	3	2	3	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	246707837	T	C	246707837	2	2	155	1	0	0	0	0	0	0	0	1	15793	1741	61	3		3	TFB2M	1	246707837	Silent	SNP	T	TCGA-B0-5701-01A-11D-1534-10	44935004	246707837	2542784	12	8570											
MYT1L	23040	hgsc.bcm.edu	37	chr2	1946773	1946773	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgttttcttcttcctcttcCtcctcctcctcctcctcctc	0	18	1	22	1	3	0	0	0	3	0	12	0	11	0	9	0	0	1	9	0	0	5	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	1946773	C	T	1946773	2	4	155	1	0	0	0	0	0	0	0	1	10107	680	24	2		2	MYT1L	2	1946773	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10		1946773	241252600	13	8571											
KIDINS220	57498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	8890360	8890360	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtggaagagcacacggatGggggctggctgtaccctgat	9	7	16	9	2	0	2	0	1	0	1	0	4	0	4	1	5	2	4	1	5	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	8890360	G	T	8890360	3	4	155	1	0	0	0	0	1	0	0	0	8271	1348	47	4	2047	4	KIDINS220	2	8890360	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	6943587	8890360	234309013	14	8572											
LRPPRC	10128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44176772	44176772	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggctcctggcaataacgTccatccttgtacaacaattc	11	10	7	13	2	0	0	0	0	0	0	4	1	3	0	3	2	3	3	3	2	5	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	44176772	T	A	44176772	2	1	155	1	0	0	0	0	0	0	0	1	8965	1654	58	5		5	LRPPRC	2	44176772	Silent	SNP	T	TCGA-B0-5701-01A-11D-1534-10	35286412	44176772	199022601	15	8573											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152476170	152476170	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtactcacggtcactcTgcactttggcaatgtggagg	7	13	11	10	1	4	0	2	0	2	0	4	1	4	1	0	4	2	3	0	4	2	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	152476170	T	C	152476170	3	2	155	1	0	0	0	0	1	0	0	0	10302	1580	55	3	15459	3	NEB	2	152476170	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	108299398	152476170	90723203	16	8574											
TTN	7273	broad.mit.edu;ucsc.edu	37	chr2	179435409	179435409	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctgtgtttgaaagctcCtgatcaccttttatccactg	8	14	8	11	1	1	2	1	2	0	0	3	3	3	2	3	0	2	3	3	0	2	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	179435409	T	T	179435409	2	4	155	1	0	0	0	0	0	0	0	1	16734	680	24	2		2	TTN	2	179435409	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	26959239	179435409	63763964	17	8575											
ASNSD1	54529	broad.mit.edu;ucsc.edu	37	chr2	190532496	190532496	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttaaacctcataggtagttCtcactggaattggtgcagat	11	14	9	7	0	2	1	2	0	1	1	3	2	2	2	1	3	2	3	1	3	5	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	190532496	G	G	190532496	3	3	155	1	0	0	0	0	1	0	0	0	1049	913	32	4	1477	4	ASNSD1	2	190532496	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	11097087	190532496	52666877	18	8576											
ATG4B	23192	broad.mit.edu;hgsc.bcm.edu	37	chr2	242606247	242606247	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacgaggcctacgtggagacGctgaaggtgggtcctgccgt	8	7	16	10	4	0	2	0	1	0	1	1	4	1	2	3	4	3	1	3	4	3	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	242606247	G	T	242606247	2	4	155	1	0	0	0	0	0	0	0	1	1097	1074	38	4		4	ATG4B	2	242606247	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10	52073751	242606247	593126	19	8577											
PTH1R	5745	broad.mit.edu;ucsc.edu	37	chr3	46939429	46939429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctgtgccctgtccggActacatttatgacttcaatc	7	13	10	11	1	1	1	1	1	0	0	3	2	2	2	2	3	2	1	2	3	3	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	46939429	G	G	46939429	3	3	155	1	0	0	0	0	1	0	0	0	12760	275	10	3	412	3	PTH1R	3	46939429	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10		46939429	151083001	20	8578											
ALAS1	211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52233311	52233311	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgagtcccccaggccttTctgcagaaagcaggcaaatc	10	7	9	15	1	1	1	0	0	1	1	4	2	3	1	4	2	2	3	4	2	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	52233311	T	G	52233311	3	3	155	1	0	0	0	0	1	0	0	0	484	1780	62	5	56	5	ALAS1	3	52233311	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	5293882	52233311	145789119	21	8579											
EPHA6	285220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	96533798	96533798	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgcaatttggtttcttcTtgcctctgctgacagcgtgg	4	18	10	9	1	3	1	0	1	3	0	3	1	3	1	1	2	4	3	1	2	1	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	96533798	T	A	96533798	3	1	155	1	0	0	0	0	1	0	0	0	5171	1606	56	5	333	5	EPHA6	3	96533798	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	44300487	96533798	101488632	22	8580											
BBX	56987	broad.mit.edu;ucsc.edu	37	chr3	107463494	107463494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtatcctctggcacatgCaggcctgatgtttcagaatc	9	11	10	11	0	2	2	1	1	1	1	4	2	3	2	2	3	1	4	2	3	2	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	107463494	T	T	107463494	2	4	155	1	0	0	0	0	0	0	0	1	1343	718	25	2		2	BBX	3	107463494	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	10929696	107463494	90558936	23	8581											
ROPN1B	152015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	125702160	125702160	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccccagggtttggctggaGtaacagcacaattttggcaa	12	9	11	9	0	0	0	0	0	0	0	0	1	0	1	2	4	3	5	2	4	4	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	125702160	G	A	125702160	2	1	155	1	0	0	0	0	0	0	0	1	13526	1020	36	2		2	ROPN1B	3	125702160	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10	18238666	125702160	72320270	24	8582											
PIK3R4	30849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130463550	130463550	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctggaagataagtgggCttaaaactggcaaaatcagt	14	11	10	6	0	3	1	1	0	2	1	3	2	3	2	0	3	1	2	0	3	6	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	130463550	C	A	130463550	3	1	155	1	0	0	0	0	1	0	0	0	11921	796	28	4	3639	4	PIK3R4	3	130463550	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	4761390	130463550	67558880	25	8583											
PLSCR4	57088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	145914562	145914562	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaagccaatggtgacaccagGaggacactgcacctccagct	13	5	10	13	0	0	1	0	1	0	0	1	3	1	3	4	3	3	2	4	3	2	0	rs149266233	alternate_allele	TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	145914562	G	C	145914562	3	2	155	1	0	0	0	0	1	0	0	0	12112	1174	41	4	358	4	PLSCR4	3	145914562	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	15451012	145914562	52107868	26	8584											
PLCH1	23007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	155212209	155212209	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagaggggtaaatcctcgtGagttgcttttgattataaat	11	14	11	5	1	0	3	0	2	0	1	2	3	1	3	1	2	1	4	1	2	5	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	155212209	G	A	155212209	2	1	155	1	0	0	0	0	0	0	0	1	12037	1277	45	2		2	PLCH1	3	155212209	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10	9297647	155212209	42810221	27	8585											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508147	195508194	+	In_Frame_Del	DEL	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	-																															gaacaggggtggcgtgaccgGtggatgctgaggaagtgctg																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	195508194	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	-	195508147	7	5	155	1	0	1	0	1	0	0	0	0	9978	1261	44	0		0	MUC4	3	195508147	In_Frame_Del	DEL	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	TCGA-B0-5701-01A-11D-1534-10	40295938	195508147	2514283	28	8586											
RGS12	6002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	3318132	3318132	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaaagcatctcatgaaGatgtagtgaaattaattggg	17	11	10	3	0	1	4	1	3	1	1	2	4	1	4	0	1	1	2	0	1	7	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	3318132	G	T	3318132	3	4	155	1	0	0	0	0	1	0	0	0	13297	942	33	4	237	4	RGS12	4	3318132	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10		3318132	187836144	29	8587											
ARAP2	116984	hgsc.bcm.edu;ucsc.edu	37	chr4	36161108	36161108	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctagaacatccggtttcActacagcagcacatagagcc	12	10	7	12	1	2	2	1	0	1	2	3	2	3	2	2	1	5	3	2	1	4	5	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	36161108	A	G	36161108	3	3	155	1	0	0	0	0	1	0	0	0	839	159	6	3	2732	3	ARAP2	4	36161108	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	32842976	36161108	154993168	30	8588											
SDAD1	55153	hgsc.bcm.edu;ucsc.edu	37	chr4	76898846	76898846	+	Frame_Shift_Del	DEL	C	C	-																															aaaaagttcaaagaagagttCtagcaggcttgatggattga																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	76898846	C	-	76898846	7	5	155	1	0	1	0	1	0	0	0	0	13952	922	32	0	1781	0	SDAD1	4	76898846	Frame_Shift_Del	DEL	C	TCGA-B0-5701-01A-11D-1534-10	40737738	76898846	114255430	31	8589											
HPSE	10855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	84231973	84231973	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttagaagtttatgcaaTtgaataaaatcttctcctaa	14	17	4	6	0	3	2	0	1	3	1	4	2	3	2	1	0	1	2	1	0	8	8	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	84231973	T	A	84231973	3	1	155	1	0	0	0	0	1	0	0	0	7344	1490	52	5	919	5	HPSE	4	84231973	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	7333127	84231973	106922303	32	8590											
SPP1	6696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	88904007	88904007	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaacacctgaaatttcgtAtttctcatgaattagatagt	15	15	5	6	1	1	3	1	2	1	1	3	3	1	3	1	0	1	1	1	0	7	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	88904007	A	G	88904007	3	3	155	1	0	0	0	0	1	0	0	0	15087	449	16	3	926	3	SPP1	4	88904007	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	4672034	88904007	102250269	33	8591											
DNAH5	1767	hgsc.bcm.edu	37	chr5	13866368	13866369	+	Frame_Shift_Ins	INS	-	-	A																															cactggcttcctggggcttcINSaagccgctagccattggacc																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	13866369	-	A	13866368	7	5	155	1	0	1	1	0	0	0	0	0	4604	825	29	0	10013	0	DNAH5	5	13866368	Frame_Shift_Ins	INS	-	TCGA-B0-5701-01A-11D-1534-10		13866368	167048892	34	8592											
FAM170A	340069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118969970	118969970	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtactcccccctctgatgTgtccaccagaaacctcctgt	8	10	7	16	0	1	2	0	1	1	1	4	2	4	2	7	1	2	1	7	1	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	118969970	T	C	118969970	3	2	155	1	0	0	0	0	1	0	0	0	5489	1696	59	3	537	3	FAM170A	5	118969970	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	105103602	118969970	61945290	35	8593											
CTNNA1	1495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138163310	138163310	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgccttgatggccgactCgtcctgcacgcgtgatgacc	5	9	13	14	4	0	3	0	3	0	0	2	4	1	3	4	2	2	2	4	2	0	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	138163310	C	T	138163310	3	4	155	1	0	0	0	0	1	0	0	0	4012	893	31	1	987	1	CTNNA1	5	138163310	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	19193340	138163310	42751950	36	8594											
PCDHB11	56125	hgsc.bcm.edu;ucsc.edu	37	chr5	140580390	140580391	+	Frame_Shift_Ins	INS	-	-	T																															gacaatgctcctgaaatcacINStgtgtcatcaattaccagtc																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	140580391	-	T	140580390	7	5	155	1	0	1	1	0	0	0	0	0	11536	565	20	0	1045	0	PCDHB11	5	140580390	Frame_Shift_Ins	INS	-	TCGA-B0-5701-01A-11D-1534-10	2417080	140580390	40334870	37	8595											
FLT4	2324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180036981	180036981	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggaaccacgggtctcaGcccctctggccaggcacccg	7	5	13	16	2	2	0	1	0	2	0	3	2	2	2	5	5	2	1	5	5	1	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	180036981	G	A	180036981	3	1	155	1	0	0	0	0	1	0	0	0	5944	971	34	2	380	2	FLT4	5	180036981	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	39456591	180036981	878279	38	8596											
TUBB2B	347733	broad.mit.edu	37	chr6	3225818	3225818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgggtgagggcatgaCgctgaaggtgttcatgatgc	8	10	15	8	1	1	4	1	4	0	0	1	4	1	4	1	3	1	3	1	3	1	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	3225818	T	T	3225818	3	4	155	1	0	0	0	0	1	0	0	0	16754	536	19	1	836	1	TUBB2B	6	3225818	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10		3225818	167889249	39	8597											
USP45	85015	hgsc.bcm.edu;ucsc.edu	37	chr6	99912577	99912577	+	Frame_Shift_Del	DEL	A	A	-																															gatcatgatctgtctcccgtAaacttctatatttattcatt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	99912577	A	-	99912577	7	5	155	1	0	1	0	1	0	0	0	0	17075	372	13	0	1257	0	USP45	6	99912577	Frame_Shift_Del	DEL	A	TCGA-B0-5701-01A-11D-1534-10	96686759	99912577	71202490	40	8598											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152665354	152665354	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagttcgtgttccaaactCtggtacatctgagacaatac	12	12	8	9	1	2	2	0	2	2	1	4	3	3	2	1	1	3	3	1	1	5	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	152665354	C	A	152665354	3	1	155	1	0	0	0	0	1	0	0	0	15444	912	32	4	14671	4	SYNE1	6	152665354	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	52752777	152665354	18449713	41	8599											
CPSF4	10898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99045873	99045873	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatgaccaagatgcccgAgtgctacttctactccaagt	11	10	8	12	1	1	3	0	2	1	1	2	4	2	3	3	0	4	1	3	0	4	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	99045873	A	T	99045873	3	4	155	1	0	0	0	0	1	0	0	0	3828	304	11	5	294	5	CPSF4	7	99045873	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10		99045873	60092790	42	8600											
PILRA	29992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99997510	99997510	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccccagaacgagaccctgTactctgtcttaaaggcctaa	11	8	8	14	1	2	2	0	0	2	2	2	3	2	2	4	1	2	1	4	1	5	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	99997510	T	A	99997510	3	1	155	1	0	0	0	0	1	0	0	0	11925	1638	57	5	918	5	PILRA	7	99997510	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	951637	99997510	59141153	43	8601											
ATXN7L1	222255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	105254533	105254533	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccctgcgtggagcgcaaGggagggcacagagaggggac	9	3	19	10	2	0	1	0	0	0	1	1	5	1	4	2	5	2	2	2	5	1	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	105254533	G	T	105254533	3	4	155	1	0	0	0	0	1	0	0	0	1216	1000	35	4	352	4	ATXN7L1	7	105254533	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	5257023	105254533	53884130	44	8602											
MCPH1	79648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	6302811	6302811	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacgcatgcccagagggaaAtggcttttcttacaccattg	11	10	10	10	1	1	2	0	0	1	2	1	3	1	3	2	2	2	2	2	2	2	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	6302811	A	G	6302811	3	3	155	1	0	0	0	0	1	0	0	0	9398	101	4	3	1598	3	MCPH1	8	6302811	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10		6302811	140061211	45	8603											
BRF2	55290	hgsc.bcm.edu;ucsc.edu	37	chr8	37704604	37704605	+	Frame_Shift_Ins	INS	-	-	AT																															gctcggatgccagagtgccgINSatatgcctgttggtagtagg																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		AT	37704605	-	AT	37704604	7	5	155	1	0	1	1	0	0	0	0	0	1511	1057	37	0	963	0	BRF2	8	37704604	Frame_Shift_Ins	INS	-	TCGA-B0-5701-01A-11D-1534-10	31401793	37704604	108659418	46	8604											
PRDM14	63978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	70981476	70981476	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggctgggagtgaccccgTacagaacgaagtgcaggtcc	10	5	14	12	2	0	2	0	1	0	1	1	4	1	3	4	3	3	3	4	3	3	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	70981476	T	C	70981476	3	2	155	1	0	0	0	0	1	0	0	0	12457	1638	57	3	1123	3	PRDM14	8	70981476	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	33276872	70981476	75382546	47	8605											
TMEM55A	55529	hgsc.bcm.edu;ucsc.edu	37	chr8	92008894	92008894	+	Frame_Shift_Del	DEL	T	T	-																															acactcacagttaacccaacTccaatgaaaatacatatcat																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	92008894	T	-	92008894	7	5	155	1	0	1	0	1	0	0	0	0	16180	1538	54	0	163	0	TMEM55A	8	92008894	Frame_Shift_Del	DEL	T	TCGA-B0-5701-01A-11D-1534-10	21027418	92008894	54355128	48	8606											
CSMD3	114788	broad.mit.edu;ucsc.edu	37	chr8	113237062	113237062	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgccttcccttccactgActttgcgttggtgtcataca	6	14	7	14	2	1	1	1	1	0	0	3	1	3	1	4	1	3	1	4	1	2	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	113237062	G	G	113237062	3	3	155	1	0	0	0	0	1	0	0	0	3946	275	10	3	65	3	CSMD3	8	113237062	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	21228168	113237062	33126960	49	8607											
OPLAH	26873	hgsc.bcm.edu	37	chr8	145113732	145113732	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcctcgagatagcagcccCtccagcttcccacgcagggc	8	6	10	17	2	0	1	0	0	0	1	3	2	2	1	5	1	4	3	5	1	1	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	145113732	C	G	145113732	3	3	155	1	0	0	0	0	1	0	0	0	10876	680	24	4	3429	4	OPLAH	8	145113732	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	31876670	145113732	1250290	50	8608											
TMOD1	7111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100331319	100331319	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgaaaattgacaaccaGgtgagatgggcaacggtctc	15	7	12	7	1	1	3	0	3	1	1	2	5	1	3	1	3	2	1	1	3	5	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	100331319	G	T	100331319	3	4	155	1	0	0	0	0	1	0	0	0	16232	1014	35	4	896	4	TMOD1	9	100331319	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10		100331319	40882112	51	8609											
OR13C8	138802	broad.mit.edu;ucsc.edu	37	chr9	107331603	107331603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctcagttatcatctttgAttctcacctgcacaccccca	9	14	3	15	0	4	1	3	1	3	0	6	1	4	1	3	0	1	2	3	0	2	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	107331603	G	G	107331603	3	3	155	1	0	0	0	0	1	0	0	0	10938	333	12	3	157	3	OR13C8	9	107331603	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	7000284	107331603	33881828	52	8610											
UAP1L1	91373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139973455	139973455	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggcctctactgcgcgcTggaggaccacaagatcctgg	7	6	15	13	3	1	1	0	0	1	1	2	3	2	3	3	5	2	1	3	5	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	139973455	T	C	139973455	3	2	155	1	0	0	0	0	1	0	0	0	16825	1580	55	3	712	3	UAP1L1	9	139973455	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	32641852	139973455	1239976	53	8611											
NET1	10276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5498060	5498060	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttctccagaaactttacaTtttcctgtttcaagacatct	11	17	3	10	0	3	2	1	0	2	2	5	2	4	2	2	0	2	1	2	0	3	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	5498060	T	C	5498060	3	2	155	1	0	0	0	0	1	0	0	0	10338	1493	52	3	1347	3	NET1	10	5498060	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10		5498060	130036687	54	8612											
SVIL	6840	broad.mit.edu;ucsc.edu	37	chr10	29815982	29815982	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacacgaagcggggataggTtcactttaaaagcaattgcc	14	8	11	8	2	1	0	1	0	0	0	1	3	1	1	1	3	4	2	1	3	6	5	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	29815982	G	G	29815982	3	3	155	1	0	0	0	0	1	0	0	0	15420	1722	60	5	4498	5	SVIL	10	29815982	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	24317922	29815982	105718765	55	8613											
C10orf12	26148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	98743198	98743198	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggaggctgtgaatgaggTagacaacgaaaacacccagc	15	4	14	8	1	0	3	0	2	0	1	0	6	0	5	1	4	3	2	1	4	5	1	rs149307894	alternate_allele	TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	98743198	T	G	98743198	3	3	155	1	0	0	0	0	1	0	0	0	1589	1638	57	5	2053	5	C10orf12	10	98743198	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	68927216	98743198	36791549	56	8614											
PPRC1	23082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103901173	103901173	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaccccctcctgccccaGtctcaccttacagttccaca	7	8	6	20	0	1	0	1	0	1	0	4	0	3	0	7	1	2	2	7	1	1	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	103901173	G	A	103901173	3	1	155	1	0	0	0	0	1	0	0	0	12412	1029	36	2	2926	2	PPRC1	10	103901173	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	5157975	103901173	31633574	57	8615											
KRTAP5-5	439915	broad.mit.edu;hgsc.bcm.edu	37	chr11	1651231	1651231	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtggctccggctgtgcggGctgtgggggatgtggctccg	1	10	20	10	3	0	0	0	0	0	0	2	1	2	1	2	6	1	4	2	6	0	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	1651231	G	T	1651231	3	4	155	1	0	0	0	0	1	0	0	0	8564	1203	42	4	163	4	KRTAP5-5	11	1651231	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10		1651231	133355285	58	8616											
OR52W1	120787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6220794	6220794	+	Missense_Mutation	SNP	C	C	A																															ctttgtacatgcactgactgCcatggaatcaggtgtgcttt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	6220794	C	A	6220794	3	1	155	1	0	0	0	0	1	0	0	0	11132	739	26	4	343	4	OR52W1	11	6220794	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	4569563	6220794	128785722	59	8617	118	2									
OR52W1	120787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6220795	6220795	+	Silent	SNP	C	C	A																															tttgtacatgcactgactgcCatggaatcaggtgtgctttt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	6220795	C	A	6220795	2	1	155	1	0	0	0	0	0	0	0	1	11132	581	21	4		4	OR52W1	11	6220795	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	1	6220795	128785721	60	8618	118	2									
CCDC73	493860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32637578	32637578	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaattctccatattttctTcccttatttcttgctcagta	10	19	2	10	0	4	0	1	0	3	0	6	0	5	0	2	0	1	2	2	0	5	9	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	32637578	T	A	32637578	3	1	155	1	0	0	0	0	1	0	0	0	2846	1783	62	5	1972	5	CCDC73	11	32637578	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	26416783	32637578	102368938	61	8619											
OR5M1	390168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56380039	56380039	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaacacaagcctaaactgCaattttatgaaaggattttc	17	12	5	7	0	0	1	0	1	0	0	1	2	0	2	1	1	4	1	1	1	8	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	56380039	C	A	56380039	3	1	155	1	0	0	0	0	1	0	0	0	11172	710	25	4	11	4	OR5M1	11	56380039	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	23742461	56380039	78626477	62	8620											
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103058111	103058111	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaactccggtccactcaAattgctacagttcactgtag	11	11	6	13	1	3	0	3	0	0	0	5	0	5	0	2	1	3	3	2	1	4	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	103058111	A	T	103058111	3	4	155	1	0	0	0	0	1	0	0	0	4846	11	1	5	7106	5	DYNC2H1	11	103058111	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	46678072	103058111	31948405	63	8621											
CEP164	22897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117244472	117244472	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgtctctccaggaactGgaaattagtgaacacatgaa	13	10	10	8	0	2	2	0	2	2	0	4	4	3	4	1	3	2	0	1	3	5	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	117244472	G	A	117244472	2	1	155	1	0	0	0	0	0	0	0	1	3249	1335	47	2		2	CEP164	11	117244472	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10	14186361	117244472	17762044	64	8622											
AMICA1	120425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118071315	118071315	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggcctcagggctgccGgggtcaccagtgcttgggaa	7	6	16	12	1	2	1	2	0	0	1	2	2	2	2	4	5	2	2	4	5	1	1	rs148107592		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	118071315	G	A	118071315	3	1	155	1	0	0	0	0	1	0	0	0	574	1116	39	1	415	1	AMICA1	11	118071315	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	826843	118071315	16935201	65	8623											
TECTA	7007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	120989265	120989265	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggctcctgtgcctacttGctggcccgacagtgtttgca	6	11	11	13	1	0	0	0	0	0	0	1	1	1	0	3	2	4	4	3	2	2	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	120989265	G	A	120989265	2	1	155	1	0	0	0	0	0	0	0	1	15746	1310	46	2		2	TECTA	11	120989265	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10	2917950	120989265	14017251	66	8624											
OR10G7	390265	broad.mit.edu;hgsc.bcm.edu	37	chr11	123909163	123909163	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacaggccagtttcaggatGggcggtgcgtcacagaagta	10	7	15	9	2	2	1	2	0	0	1	2	2	2	2	1	4	1	3	1	4	2	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	123909163	G	C	123909163	2	2	155	1	0	0	0	0	0	0	0	1	10902	1335	47	4		4	OR10G7	11	123909163	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10	2919898	123909163	11097353	67	8625											
COL2A1	1280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48376305	48376305	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtcgcctttgggcccagCgataccagctgctcccctct	4	10	9	18	2	1	0	0	0	1	0	3	1	2	0	6	1	4	2	6	1	1	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	48376305	C	T	48376305	3	4	155	1	0	0	0	0	1	0	0	0	3687	768	27	1	2266	1	COL2A1	12	48376305	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10		48376305	85475590	68	8626											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49422725	49422725	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccaagggccccataaggTttggtatctgggaagactga	11	8	14	8	0	1	2	0	1	1	1	1	3	1	3	3	5	0	2	3	5	4	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	49422725	T	A	49422725	3	1	155	1	0	0	0	0	1	0	0	0	9621	1722	60	5	2385	5	MLL2	12	49422725	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	1046420	49422725	84429170	69	8627											
MAP3K12	7786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53877445	53877445	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgagggcattaagttccAtatacaggttgttggctctc	10	13	10	8	0	1	1	0	1	1	0	3	1	2	1	1	3	1	5	1	3	3	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	53877445	A	G	53877445	3	3	155	1	0	0	0	0	1	0	0	0	9246	217	8	3	1281	3	MAP3K12	12	53877445	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	4454720	53877445	79974450	70	8628											
LACRT	90070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55026135	55026135	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggggtgaagctggttctGctggacctgagatctcttca	6	12	14	9	0	3	2	1	2	2	1	4	4	3	3	1	4	2	3	1	4	1	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	55026135	G	A	55026135	3	1	155	1	0	0	0	0	1	0	0	0	8596	1319	46	2	285	2	LACRT	12	55026135	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	1148690	55026135	78825760	71	8629											
SMARCC2	6601	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56567525	56567525	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagccctgatggtgtgtcAgccaagacatggaagtgaga	12	7	13	9	0	1	3	1	2	0	2	1	5	1	4	3	2	2	0	3	2	2	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	56567525	A	G	56567525	2	3	155	1	0	0	0	0	0	0	0	1	14778	175	7	3		3	SMARCC2	12	56567525	Silent	SNP	A	TCGA-B0-5701-01A-11D-1534-10	1541390	56567525	77284370	72	8630											
TRAFD1	10906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112586091	112586091	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtacagctggaagaggagGtgctgttccatcaccaggta	10	8	15	8	0	1	1	1	0	0	1	2	3	2	3	2	5	3	5	2	5	3	3	rs142954248	byfrequency;alternate_allele	TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	112586091	G	A	112586091	3	1	155	1	0	0	0	0	1	0	0	0	16446	1261	44	2	1167	2	TRAFD1	12	112586091	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	56018566	112586091	21265804	73	8631											
OAS1	4938	hgsc.bcm.edu;ucsc.edu	37	chr12	113357245	113357246	+	Frame_Shift_Del	DEL	AA	AA	-																															acgatcccaggaggtatcagAaatatggttacattggaaca																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	113357246	AA	-	113357245	7	5	155	1	0	1	0	1	0	0	0	0	10799	247	9	0	1169	0	OAS1	12	113357245	Frame_Shift_Del	DEL	AA	TCGA-B0-5701-01A-11D-1534-10	771154	113357245	20494650	74	8632											
STRN3	29966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31416465	31416465	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtataacctacttcctgaaGatacctgtaagagaaaataa	17	11	6	7	0	0	3	0	1	0	2	1	4	1	3	3	0	3	2	3	0	9	7	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	31416465	G	T	31416465	3	4	155	1	0	0	0	0	1	0	0	0	15331	942	33	4	1902	4	STRN3	14	31416465	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10		31416465	75933075	75	8633											
ADCK1	57143	broad.mit.edu	37	chr14	78397896	78397896	+	Frame_Shift_Del	DEL	C	-	-																															aacaacgcggccaactacctCccccagatcagccatctcct																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	78397896	-	-	78397896	7	5	155	1	0	1	0	1	0	0	0	0	288	842	30	0	1276	0	ADCK1	14	78397896	Frame_Shift_Del	DEL	C	TCGA-B0-5701-01A-11D-1534-10	46981431	78397896	28951644	76	8634											
EML5	161436	hgsc.bcm.edu;ucsc.edu	37	chr14	89168918	89168918	+	Missense_Mutation	SNP	A	A	T																															acccactgctgccacatggtAcacaatttcaccaatttgag																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	89168918	A	T	89168918	3	4	155	1	0	0	0	0	1	0	0	0	5100	391	14	5	3943	5	EML5	14	89168918	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	10771022	89168918	18180622	77	8635	119	2									
EML5	161436	hgsc.bcm.edu	37	chr14	89168919	89168919	+	Silent	SNP	C	C	G																															cccactgctgccacatggtaCacaatttcaccaatttgagt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	89168919	C	G	89168919	2	3	155	1	0	0	0	0	0	0	0	1	5100	465	17	4		4	EML5	14	89168919	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	1	89168919	18180621	78	8636	119	2									
DUOX1	53905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45453967	45453967	+	Silent	SNP	G	G	A																															ctgcggttccagcggccccaGggctttgagtacaagtcagg																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	45453967	G	A	45453967	2	1	155	1	0	0	0	0	0	0	0	1	4800	991	35	2		2	DUOX1	15	45453967	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10		45453967	57077425	79	8637	120	2									
DUOX1	53905	broad.mit.edu;ucsc.edu	37	chr15	45453969	45453969	+	Missense_Mutation	SNP	G	C	C																															gcggttccagcggccccaggGctttgagtacaagtcagggc																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	45453969	C	C	45453969	3	2	155	1	0	0	0	0	1	0	0	0	4800	1203	42	4	4004	4	DUOX1	15	45453969	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	2	45453969	57077423	80	8638	120	2									
SALL1	6299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	51174807	51174807	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgaagaatgcctcatcGgaagtacttttcgcttcaaa	11	14	8	8	2	2	2	2	1	0	1	4	3	2	3	1	1	2	3	1	1	5	5	rs143605364	alternate_allele	TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	51174807	G	C	51174807	2	2	155	1	0	0	0	0	0	0	0	1	13812	1103	39	4		4	SALL1	16	51174807	Silent	SNP	G	TCGA-B0-5701-01A-11D-1534-10		51174807	39179946	81	8639											
CDH11	1009	broad.mit.edu;hgsc.bcm.edu	37	chr16	65038638	65038638	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggagcgctgtagcacctgCccctccttgcccttctcatg	4	12	9	16	1	1	0	1	0	1	0	3	1	2	1	5	1	4	3	5	1	1	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	65038638	C	T	65038638	2	4	155	1	0	0	0	0	0	0	0	1	3097	726	26	2		2	CDH11	16	65038638	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	13863831	65038638	25316115	82	8640											
NUDT7	283927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	77775769	77775769	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacccacctttgaggttcaAtttaatcttaatgatgtatt	13	16	5	7	0	2	2	1	2	1	0	2	2	2	2	2	1	1	2	2	1	5	7	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	77775769	A	C	77775769	3	2	155	1	0	0	0	0	1	0	0	0	10744	98	4	5	653	5	NUDT7	16	77775769	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	12737131	77775769	12578984	83	8641											
RABEP1	9135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5264813	5264813	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaagtgggtttatgttaaCcaaagatcaggaaagagcaa	16	8	11	6	0	1	2	1	0	0	2	1	3	1	3	2	2	2	3	2	2	6	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	5264813	C	T	5264813	3	4	155	1	0	0	0	0	1	0	0	0	12963	507	18	2	1440	2	RABEP1	17	5264813	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10		5264813	75930397	84	8642											
DNAH2	146754	hgsc.bcm.edu;ucsc.edu	37	chr17	7663182	7663183	+	Frame_Shift_Del	DEL	TC	TC	-																															caaccacctcttttccaccaTctctgtcttctgccacctcc																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	7663183	TC	-	7663182	7	5	155	1	0	1	0	1	0	0	0	0	4602	1435	50	0	2773	0	DNAH2	17	7663182	Frame_Shift_Del	DEL	TC	TCGA-B0-5701-01A-11D-1534-10	2398369	7663182	73532028	85	8643											
ZNF207	7756	broad.mit.edu;ucsc.edu	37	chr17	30694855	30694855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaaatagtacccctgcaaCaactacagaacccccaaagc	16	6	4	15	0	0	1	0	0	0	1	0	1	0	1	4	0	7	2	4	0	9	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	30694855	A	A	30694855	3	1	155	1	0	0	0	0	1	0	0	0	17764	478	17	4	1024	4	ZNF207	17	30694855	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	23031673	30694855	50500355	86	8644											
GPR179	440435	hgsc.bcm.edu;ucsc.edu	37	chr17	36483373	36483385	+	Frame_Shift_Del	DEL	TTCTTTCAGTCAC	TTCTTTCAGTCAC	-																															tgacacccctttgacagggaTtctttcagtcacttcccagg																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	TTCTTTCAGTCAC	TTCTTTCAGTCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	36483385	TTCTTTCAGTCAC	-	36483373	7	5	155	1	0	1	0	1	0	0	0	0	6674	1493	52	0	1028	0	GPR179	17	36483373	Frame_Shift_Del	DEL	TTCTTTCAGTCAC	TCGA-B0-5701-01A-11D-1534-10	5788518	36483373	44711837	87	8645											
GPATCH8	23131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42477558	42477558	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagcaggtgcgtccatTctgcctcctgaggaacgtac	8	9	11	13	2	1	2	0	2	1	0	3	3	3	3	4	2	5	2	4	2	3	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	42477558	T	A	42477558	3	1	155	1	0	0	0	0	1	0	0	0	6594	1780	62	5	2625	5	GPATCH8	17	42477558	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	5994185	42477558	38717652	88	8646											
TRIM37	4591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57079057	57079057	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagtgtcacattcaatgTcactgtcgctactcattcct	8	15	5	13	1	5	0	5	0	1	0	8	0	6	0	1	0	1	1	1	0	2	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	57079057	T	G	57079057	3	3	155	1	0	0	0	0	1	0	0	0	16510	1667	58	5	196	5	TRIM37	17	57079057	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	14601499	57079057	24116153	89	8647											
DDX42	11325	broad.mit.edu	37	chr17	61886961	61886961	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagaaagctaccaatctTcaaagagtctcttaccttgt	16	11	5	9	0	3	2	1	0	2	2	4	2	3	2	2	0	3	1	2	0	7	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	61886961	C	C	61886961	2	2	155	1	0	0	0	0	0	0	0	1	4362	1770	62	3		3	DDX42	17	61886961	Silent	SNP	T	TCGA-B0-5701-01A-11D-1534-10	4807904	61886961	19308249	90	8648											
TEX2	55852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62291574	62291574	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcgaccatacagacttgTcattgccggcttcacaaggg	10	9	11	11	2	2	1	2	0	0	1	2	2	2	1	2	3	2	1	2	3	2	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	62291574	T	A	62291574	3	1	155	1	0	0	0	0	1	0	0	0	15780	1667	58	5	3444	5	TEX2	17	62291574	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	404613	62291574	18903636	91	8649											
BPTF	2186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65955704	65955704	+	Missense_Mutation	SNP	G	G	A																															aagaaagaaaaagacctgatGcagttggctcaggccacagc																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		A	65955704	G	A	65955704	3	1	155	1	0	0	0	0	1	0	0	0	1495	1319	46	2	8454	2	BPTF	17	65955704	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	3664130	65955704	15239506	92	8650	121	2									
BPTF	2186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65955705	65955705	+	Missense_Mutation	SNP	C	C	G																															agaaagaaaaagacctgatgCagttggctcaggccacagca																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	65955705	C	G	65955705	3	3	155	1	0	0	0	0	1	0	0	0	1495	711	25	4	8455	4	BPTF	17	65955705	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	1	65955705	15239505	93	8651	121	2									
KPNA2	3838	broad.mit.edu;hgsc.bcm.edu	37	chr17	66042696	66042696	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttcaggatggggctcctgGgacctttaacttttagatca	9	13	11	8	0	2	1	2	0	0	1	3	3	3	3	2	4	1	2	2	4	2	5	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	66042696	G	T	66042696	3	4	155	1	0	0	0	0	1	0	0	0	8430	1232	43	4	1612	4	KPNA2	17	66042696	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	86991	66042696	15152514	94	8652											
MC2R	4158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	13885108	13885108	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcacgatgctgtggtacCgcagtgcgtggaagatggtg	7	10	17	7	3	1	1	1	0	0	1	1	3	1	2	1	4	3	3	1	4	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	13885108	C	T	13885108	3	4	155	1	0	0	0	0	1	0	0	0	9364	652	23	1	487	1	MC2R	18	13885108	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10		13885108	64192140	95	8653											
DSC2	1824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	28648279	28648279	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttacctttcattgtttaaTttttaatcagagtgtgtcct	9	21	5	6	0	2	1	2	0	0	1	3	1	3	1	2	0	1	1	2	0	3	9	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	28648279	T	G	28648279	3	3	155	1	0	0	0	0	1	0	0	0	4766	1493	52	5	209	5	DSC2	18	28648279	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	14763171	28648279	49428969	96	8654											
KIAA1012	0	broad.mit.edu;ucsc.edu	37	chr18	29435680	29435680	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctcctctgccttcttcAttttcaagagaattacttct	7	18	4	12	0	5	1	2	0	3	1	6	2	6	1	3	0	3	0	3	0	3	7	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	29435680	C	C	29435680	3	2	155	1	0	0	0	0	1	0	0	0	8204	214	8	5	1064	5	KIAA1012	18	29435680	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	787401	29435680	48641568	97	8655											
KCNG2	26251	hgsc.bcm.edu	37	chr18	77659531	77659531	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatgaccaccgtgggctaCggcgacatggtcccgcgcag	7	6	13	15	5	0	1	0	1	0	0	2	2	2	1	4	3	1	2	4	3	1	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	77659531	C	T	77659531	2	4	155	1	0	0	0	0	0	0	0	1	8028	547	19	1		1	KCNG2	18	77659531	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	48223851	77659531	417717	98	8656											
TICAM1	148022	broad.mit.edu;hgsc.bcm.edu	37	chr19	4817479	4817479	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctgcagacccctcggtgCactccactgggtagttggtg	5	9	14	13	1	0	1	0	0	0	1	2	1	1	1	4	4	2	4	4	4	1	2	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	4817479	C	G	4817479	3	3	155	1	0	0	0	0	1	0	0	0	15891	710	25	4	1231	4	TICAM1	19	4817479	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10		4817479	54311504	99	8657											
DENND1C	79958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6467832	6467832	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagccagggagtggggttttCctgggctgtagaatcttcag	7	11	16	7	0	2	1	1	0	1	1	3	3	3	2	2	4	1	3	2	4	2	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	6467832	C	T	6467832	3	4	155	1	0	0	0	0	1	0	0	0	4428	864	30	2	320	2	DENND1C	19	6467832	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	1650353	6467832	52661151	100	8658											
GATAD2A	54815	broad.mit.edu	37	chr19	19609406	19609406	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaacagctggagaagacgcTactcgagatccccccaccca	13	4	8	16	2	0	3	0	0	0	3	2	5	1	3	4	1	3	2	4	1	3	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	19609406	C	C	19609406	3	2	155	1	0	0	0	0	1	0	0	0	6260	1522	53	3	1105	3	GATAD2A	19	19609406	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	13141574	19609406	39519577	101	8659											
ZNF90	7643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	20229513	20229513	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catttatttcatcctcactcCtttataaacataagataagt	14	16	2	9	0	2	1	2	0	0	1	4	1	4	1	2	0	1	0	2	0	6	8	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	20229513	C	G	20229513	3	3	155	1	0	0	0	0	1	0	0	0	18198	681	24	4	1164	4	ZNF90	19	20229513	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	620107	20229513	38899470	102	8660											
MLL4	9757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36211567	36211567	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccccagtgtccccaccaCctctaccatcccctccaccg	7	6	3	25	1	1	0	0	0	1	0	4	0	4	0	11	0	1	0	11	0	1	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	36211567	C	G	36211567	3	3	155	1	0	0	0	0	1	0	0	0	9623	507	18	4	1328	4	MLL4	19	36211567	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	15982054	36211567	22917416	103	8661											
CAPN12	147968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39233680	39233680	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcagggtctcacccaggctCccctgacacacgtctgtgcg	6	9	10	16	2	3	1	2	1	2	0	5	1	4	1	3	2	1	1	3	2	0	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	39233680	C	T	39233680	2	4	155	1	0	0	0	0	0	0	0	1	2625	842	30	2		2	CAPN12	19	39233680	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	3022113	39233680	19895303	104	8662											
ECH1	1891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39321980	39321980	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcatggcattcctctTgttgggccggttgagctgga	4	15	13	9	1	2	1	1	1	1	0	3	2	3	2	2	4	1	5	2	4	0	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	39321980	T	C	39321980	3	2	155	1	0	0	0	0	1	0	0	0	4892	1821	63	3	793	3	ECH1	19	39321980	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	88300	39321980	19807003	105	8663											
LTBP4	8425	hgsc.bcm.edu;ucsc.edu	37	chr19	41132926	41132926	+	Frame_Shift_Del	DEL	C	C	-																															ctacgcccccccgcatatagCcccccgcgaccaggtggctt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	41132926	C	-	41132926	7	5	155	1	0	1	0	1	0	0	0	0	9076	738	26	0	4647	0	LTBP4	19	41132926	Frame_Shift_Del	DEL	C	TCGA-B0-5701-01A-11D-1534-10	1810946	41132926	17996057	106	8664	122	2									
LTBP4	8425	hgsc.bcm.edu	37	chr19	41132932	41132932	+	Missense_Mutation	SNP	G	G	T																															ccccccgcatatagccccccGcgaccaggtggctttggact																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	41132932	G	T	41132932	3	4	155	1	0	0	0	0	1	0	0	0	9076	1074	38	4	4653	4	LTBP4	19	41132932	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	6	41132932	17996051	107	8665	122	2									
NLRP2	55655	broad.mit.edu;ucsc.edu	37	chr19	55485895	55485895	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaatcctttaataaaaGgaagcctctatcattaggta	15	14	6	6	0	2	1	1	1	1	0	3	2	3	2	2	2	1	1	2	2	8	7	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	55485895	T	T	55485895	3	4	155	1	0	0	0	0	1	0	0	0	10477	1000	35	4	314	4	NLRP2	19	55485895	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10	14352963	55485895	3643088	108	8666											
ZNF606	80095	hgsc.bcm.edu;ucsc.edu	37	chr19	58490239	58490239	+	Frame_Shift_Del	DEL	T	T	-																															gctgagcgttctctgaatgcTttgccacattcctgacagtt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	58490239	T	-	58490239	7	5	155	1	0	1	0	1	0	0	0	0	18031	1606	56	0	573	0	ZNF606	19	58490239	Frame_Shift_Del	DEL	T	TCGA-B0-5701-01A-11D-1534-10	3004344	58490239	638744	109	8667											
ZNF584	201514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58928399	58928399	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaggtgttcttaaaggccTttgccctccttgaccatctg	7	13	10	11	0	2	1	0	1	2	0	3	2	3	2	4	3	1	1	4	3	3	4	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	58928399	T	G	58928399	3	3	155	1	0	0	0	0	1	0	0	0	18015	1609	56	5	528	5	ZNF584	19	58928399	Missense_Mutation	SNP	T	TCGA-B0-5701-01A-11D-1534-10	438160	58928399	200584	110	8668											
DEFB116	245930	broad.mit.edu;ucsc.edu	37	chr20	29891177	29891177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcatattctctgcaggcGtttctgcacatgccttggta	7	16	8	10	1	3	0	1	0	2	0	4	0	3	0	1	2	3	4	1	2	2	6	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	29891177	T	T	29891177	3	4	155	1	0	0	0	0	1	0	0	0	4405	1136	40	4	164	4	DEFB116	20	29891177	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10		29891177	33134343	111	8669											
ASXL1	171023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31015950	31015950	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaggatgccctgcagtggtCtcgccatccagctacagtgg	8	8	13	12	1	1	0	0	0	1	0	3	2	2	1	3	3	4	2	3	3	2	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	31015950	C	G	31015950	3	3	155	1	0	0	0	0	1	0	0	0	1066	913	32	4	296	4	ASXL1	20	31015950	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	1124773	31015950	32009570	112	8670											
E2F1	1869	hgsc.bcm.edu	37	chr20	32267679	32267681	+	In_Frame_Del	DEL	CGA	CGA	-																															ctcggcagcccagttcaggtCgacgacaccgtcagccgagt																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	CGA	CGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	32267681	CGA	-	32267679	7	5	155	1	0	1	0	1	0	0	0	0	4866	884	31	0	879	0	E2F1	20	32267679	In_Frame_Del	DEL	CGA	TCGA-B0-5701-01A-11D-1534-10	1251729	32267679	30757841	113	8671											
MRPS6	64968	hgsc.bcm.edu;ucsc.edu	37	chr21	35514723	35514723	+	Frame_Shift_Del	DEL	T	T	-																															tgcaggtatttcttggtggaTttttatgcacccaccgcagc																								novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		-	35514723	T	-	35514723	7	5	155	1	0	1	0	1	0	0	0	0	9847	1490	52	0	211	0	MRPS6	21	35514723	Frame_Shift_Del	DEL	T	TCGA-B0-5701-01A-11D-1534-10		35514723	12615172	114	8672											
COL6A2	1292	broad.mit.edu;hgsc.bcm.edu	37	chr21	47545941	47545941	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggacgggcgccacgaccctCgggacgatgacctcaacttg	8	5	13	15	6	1	1	1	1	0	0	2	5	1	3	3	3	1	0	3	3	1	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	47545941	C	T	47545941	3	4	155	1	0	0	0	0	1	0	0	0	3700	875	31	1	2310	1	COL6A2	21	47545941	Missense_Mutation	SNP	C	TCGA-B0-5701-01A-11D-1534-10	12031218	47545941	583954	115	8673											
HPS4	89781	broad.mit.edu;hgsc.bcm.edu	37	chr22	26859937	26859937	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctcagccagcagggaCagcaccagccctttgacgca	9	5	11	16	1	1	1	1	1	0	0	2	2	2	2	4	2	4	4	4	2	0	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		G	26859937	C	G	26859937	2	3	155	1	0	0	0	0	0	0	0	1	7341	465	17	4		4	HPS4	22	26859937	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10		26859937	24444629	116	8674											
NCAPH2	29781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50956419	50956419	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaggtcctcatcatcccCctcctgcccatggccctggt	5	9	9	18	0	2	0	2	0	0	0	5	1	5	1	6	4	1	0	6	4	0	0	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	50956419	C	T	50956419	2	4	155	1	0	0	0	0	0	0	0	1	10210	610	22	2		2	NCAPH2	22	50956419	Silent	SNP	C	TCGA-B0-5701-01A-11D-1534-10	24096482	50956419	348147	117	8675											
DOCK11	139818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	117752678	117752678	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacatgcatttgacacaaGataccagcacaaggtaagga	19	6	8	8	0	0	2	0	1	0	1	0	3	0	3	1	2	4	3	1	2	6	3	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		T	117752678	G	T	117752678	3	4	155	1	0	0	0	0	1	0	0	0	4686	942	33	4	3580	4	DOCK11	23	117752678	Missense_Mutation	SNP	G	TCGA-B0-5701-01A-11D-1534-10		117752678	37517882	118	8676											
BCORL1	63035	broad.mit.edu	37	chrX	129147823	129147823	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtctgtgcccatgcccActccaaccccatcttccggc	5	9	6	21	2	2	0	0	0	2	0	5	0	5	0	7	1	3	0	7	1	1	1	novel		TCGA-B0-5701-01A-11D-1534-10	TCGA-B0-5701-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e1c563a-ee60-478b-9286-ed90e7561892	f5d8d96d-f597-46fe-8cd1-b097620ed8b7		C	129147823	C	C	129147823	3	2	155	1	0	0	0	0	1	0	0	0	1387	159	6	5	1085	5	BCORL1	23	129147823	Missense_Mutation	SNP	A	TCGA-B0-5701-01A-11D-1534-10	11395145	129147823	26122737	119	8677											
PLA2G2F	64600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20466689	20466689	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatgaagaagttcttcacCgtggccatccttgctggcag	8	11	12	10	1	2	2	1	1	1	1	3	2	3	2	3	3	1	4	3	3	3	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	20466689	C	T	20466689	2	4	156	1	0	0	0	0	0	0	0	1	11999	639	23	1		1	PLA2G2F	1	20466689	Silent	SNP	C	TCGA-B0-5702-01A-11D-1534-10		20466689	228783932	1	8678											
HSPG2	3339	hgsc.bcm.edu	37	chr1	22199879	22199880	+	Frame_Shift_Ins	INS	-	-	G																															ctactcactctggcatggctINSggccctggctggggttgcca																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	22199880	-	G	22199879	7	5	156	1	0	1	1	0	0	0	0	0	7430	1580	55	0	9665	0	HSPG2	1	22199879	Frame_Shift_Ins	INS	-	TCGA-B0-5702-01A-11D-1534-10	1733190	22199879	227050742	2	8679											
SCMH1	22955	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	41608634	41608634	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcaaccagccgccagaagtCatttttgttgtcgctcccat	8	12	8	13	2	2	1	2	0	0	1	4	1	3	1	4	0	2	2	4	0	2	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	41608634	C	T	41608634	3	4	156	1	0	0	0	0	1	0	0	0	13910	826	29	2	1728	2	SCMH1	1	41608634	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	19408755	41608634	207641987	3	8680											
COL24A1	255631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86362087	86362087	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaccatctggtcctctTgatccctagaggtgaaaaaa	14	9	9	9	0	2	4	0	2	2	2	4	5	4	4	3	2	0	0	3	2	5	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	86362087	T	G	86362087	2	3	156	1	0	0	0	0	0	0	0	1	3683	1799	63	5		5	COL24A1	1	86362087	Silent	SNP	T	TCGA-B0-5702-01A-11D-1534-10	44753453	86362087	162888534	4	8681											
BRDT	676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	92470105	92470105	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaaaggaagtaaaagctcgGacacaggaactcatacggaa	19	4	11	7	2	1	0	1	0	0	0	2	5	1	4	0	4	3	2	0	4	8	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	92470105	G	A	92470105	2	1	156	1	0	0	0	0	0	0	0	1	1508	1161	41	2		2	BRDT	1	92470105	Silent	SNP	G	TCGA-B0-5702-01A-11D-1534-10	6108018	92470105	156780516	5	8682											
DDX20	11218	hgsc.bcm.edu	37	chr1	112305403	112305403	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgggagagctggccgtttTggtaaaaaaaaaaaaaaaag	19	8	11	3	1	0	1	0	0	0	1	0	2	0	1	1	3	1	3	1	3	8	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	112305403	T	A	112305403	3	1	156	1	0	0	0	0	1	0	0	0	4348	1826	63	5	1243	5	DDX20	1	112305403	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10	19835298	112305403	136945218	6	8683											
FLG2	388698	broad.mit.edu;hgsc.bcm.edu	37	chr1	152324078	152324078	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcatgaactgaggatcCtgactctccatgttgagatc	9	13	8	11	0	3	4	1	4	2	1	7	6	4	5	2	1	1	1	2	1	1	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	152324078	C	A	152324078	4	1	156	1	0	0	0	0	0	1	0	0	5923	690	24	4	995	4	FLG2	1	152324078	Nonsense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	40018675	152324078	96926543	7	8684											
FLG2	388698	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152326741	152326741	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccaaaacttgtggttggaCctgagccagactcatgttgg	9	11	12	9	0	1	2	1	1	0	1	2	3	2	3	3	3	2	2	3	3	2	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	152326741	C	T	152326741	3	4	156	1	0	0	0	0	1	0	0	0	5923	507	18	2	3658	2	FLG2	1	152326741	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	2663	152326741	96923880	8	8685											
PRCC	5546	broad.mit.edu;ucsc.edu	37	chr1	156764508	156764508	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagagaagaaatcaactttGtggagatcaaaggtgatgac	16	8	13	4	0	2	5	2	2	0	3	2	8	2	6	0	3	1	0	0	3	4	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	156764508	T	T	156764508	3	4	156	1	0	0	0	0	1	0	0	0	12449	1377	48	4	1249	4	PRCC	1	156764508	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	4437767	156764508	92486113	9	8686											
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183196680	183196680	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggggatgagaatcctgAcattgagtgtgctgactgcc	9	11	13	8	0	1	4	1	4	0	1	2	6	2	5	2	2	2	1	2	2	1	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	183196680	A	T	183196680	3	4	156	1	0	0	0	0	1	0	0	0	8615	275	10	5	1354	5	LAMC2	1	183196680	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10	26432172	183196680	66053941	10	8687											
PARP1	142	broad.mit.edu;ucsc.edu	37	chr1	226561930	226561930	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataaagcgcaataacctcAtactccaccatggctttctt	12	12	5	12	1	2	1	1	1	1	0	3	1	3	1	3	1	3	2	3	1	5	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	226561930	G	G	226561930	2	3	156	1	0	0	0	0	0	0	0	1	11454	224	8	3		3	PARP1	1	226561930	Silent	SNP	A	TCGA-B0-5702-01A-11D-1534-10	43365250	226561930	22688691	11	8688											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237886484	237886484	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacaaagacttaccaaacagGactgatgatacctcagatcc	16	8	6	11	0	1	4	1	2	0	2	2	5	2	5	3	1	4	0	3	1	5	3	rs183911939	by1000genomes;alternate_allele	TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	237886484	G	T	237886484	3	4	156	1	0	0	0	0	1	0	0	0	13771	1165	41	4	10905	4	RYR2	1	237886484	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	11324554	237886484	11364137	12	8689											
FBXO11	80204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48050392	48050392	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggacatatattcctccAgtctgcccatggtgaatttc	9	14	7	11	0	2	1	1	1	1	0	5	2	4	2	3	2	1	0	3	2	3	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	48050392	A	T	48050392	2	4	156	1	0	0	0	0	0	0	0	1	5727	175	7	5		5	FBXO11	2	48050392	Silent	SNP	A	TCGA-B0-5702-01A-11D-1534-10		48050392	195148981	13	8690											
GALNT5	11227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158165091	158165091	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccacagcttcaacaatttAattacacctggttaagactt	13	12	4	12	0	1	1	1	0	0	1	1	1	1	1	3	1	3	2	3	1	5	6	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	158165091	A	C	158165091	3	2	156	1	0	0	0	0	1	0	0	0	6216	362	13	5	2567	5	GALNT5	2	158165091	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10	110114699	158165091	85034282	14	8691											
UBR3	130507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170806129	170806129	+	Silent	SNP	T	T	C																															tggtagaattctggtacagcTcaagttttcagtttagtagc																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	170806129	T	C	170806129	2	2	156	1	0	0	0	0	0	0	0	1	16902	1538	54	3		3	UBR3	2	170806129	Silent	SNP	T	TCGA-B0-5702-01A-11D-1534-10	12641038	170806129	72393244	15	8692	123	2									
UBR3	130507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170806130	170806130	+	Nonsense_Mutation	SNP	C	C	T																															ggtagaattctggtacagctCaagttttcagtttagtagca																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	170806130	C	T	170806130	4	4	156	1	0	0	0	0	0	1	0	0	16902	827	29	2	3190	2	UBR3	2	170806130	Nonsense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	1	170806130	72393243	16	8693	123	2									
PPARG	5468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	12434123	12434123	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctttgcagggtttcttccGgagaacaatcagattgaagc	10	11	10	10	1	2	3	1	1	1	2	3	4	3	3	2	2	3	2	2	2	3	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	12434123	G	A	12434123	3	1	156	1	0	0	0	0	1	0	0	0	12299	1116	39	1	505	1	PPARG	3	12434123	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10		12434123	185588307	17	8694											
CSRNP1	64651	broad.mit.edu;ucsc.edu	37	chr3	39185098	39185098	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccttcctcctcttcctcCtcctccccaccgaagtcaga	5	11	3	22	1	2	1	1	0	1	1	9	2	9	1	9	0	0	0	9	0	1	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	39185098	A	A	39185098	3	1	156	1	0	0	0	0	1	0	0	0	3963	680	24	4	555	4	CSRNP1	3	39185098	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	26750975	39185098	158837332	18	8695											
LRRC33	375387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196387147	196387147	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgagctgaggcacctcaaCctggccttcaacaacctccc	9	7	8	17	0	2	2	2	2	0	0	3	2	3	2	5	2	4	3	5	2	3	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	196387147	C	A	196387147	3	1	156	1	0	0	0	0	1	0	0	0	8988	506	18	4	639	4	LRRC33	3	196387147	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	157202049	196387147	1635283	19	8696											
PRDM9	56979	broad.mit.edu	37	chr5	23527472	23527472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtgggcggggctttcgcGataagtcacacctcctcaga	8	9	13	11	3	2	1	2	0	0	1	4	2	3	1	2	3	0	1	2	3	1	2	rs112666693		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	23527472	A	A	23527472	3	1	156	1	0	0	0	0	1	0	0	0	12465	1058	37	1	2313	1	PRDM9	5	23527472	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10		23527472	157387788	20	8697											
BRPF3	27154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36177586	36177586	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtccagcaggctgccaTggagctggagctgatgccat	10	7	13	11	0	0	1	0	1	0	0	1	3	1	3	3	3	5	4	3	3	1	0	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	36177586	T	C	36177586	3	2	156	1	0	0	0	0	1	0	0	0	1521	1464	51	3	1774	3	BRPF3	6	36177586	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10		36177586	134937481	21	8698											
PSD3	23362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	18413784	18413784	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggctttgaccttcttgtCggggggatatgagcggtgct	4	14	15	8	2	1	2	0	2	1	0	2	3	1	3	1	5	2	2	1	5	1	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	18413784	C	A	18413784	3	1	156	1	0	0	0	0	1	0	0	0	12650	884	31	4	288	4	PSD3	8	18413784	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10		18413784	127950238	22	8699											
XPO7	23039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	21827777	21827777	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgactgtcagaaggatgacTatgtcttcagaaatgcaatc	13	12	9	7	0	3	4	2	2	1	2	4	5	3	5	0	1	1	1	0	1	4	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	21827777	T	A	21827777	3	1	156	1	0	0	0	0	1	0	0	0	17448	1522	53	5	421	5	XPO7	8	21827777	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10	3413993	21827777	124536245	23	8700											
KCNU1	157855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	36790510	36790510	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgtgttggcttatacCgaataattgatgaagaggag	11	13	12	5	1	0	3	0	2	0	1	1	5	1	4	2	2	1	2	2	2	5	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	36790510	C	A	36790510	2	1	156	1	0	0	0	0	0	0	0	1	8093	644	23	4		4	KCNU1	8	36790510	Silent	SNP	C	TCGA-B0-5702-01A-11D-1534-10	14962733	36790510	109573512	24	8701											
CLVS1	157807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	62412012	62412012	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttccctcccctcttgttAgatctcagtctgtggtagaa	6	17	7	11	0	3	2	1	0	3	2	6	2	5	2	3	1	0	2	3	1	3	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	62412012	A	T	62412012	5	4	156	1	0	0	0	0	0	0	1	0	3571	434	15	5	994	5	CLVS1	8	62412012	Splice_Site	SNP	A	TCGA-B0-5702-01A-11D-1534-10	25621502	62412012	83952010	25	8702											
TATDN1	83940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125535229	125535229	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaacatagggtcagtcaAgttgataccaatatctgtag	13	12	9	7	0	4	2	2	2	2	0	4	2	4	2	1	1	2	2	1	1	7	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	125535229	A	C	125535229	3	2	156	1	0	0	0	0	1	0	0	0	15590	69	3	5	900	5	TATDN1	8	125535229	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10	63123217	125535229	20828793	26	8703											
PIGO	84720	broad.mit.edu;ucsc.edu	37	chr9	35090534	35090534	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccaagtacaggagccaTgaccctctgggaatcccacg	11	5	11	14	1	1	1	0	1	1	0	2	3	2	3	4	2	3	2	4	2	3	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	35090534	G	G	35090534	3	3	156	1	0	0	0	0	1	0	0	0	11894	1464	51	5	502	5	PIGO	9	35090534	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10		35090534	106122897	27	8704											
C9orf89	84270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95874559	95874559	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggccctgctcctgtacTgctatccgccaggtgggtgc	4	10	13	14	1	0	0	0	0	0	0	2	1	2	0	4	3	4	3	4	3	2	2	rs147126180	alternate_allele	TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	95874559	T	A	95874559	3	1	156	1	0	0	0	0	1	0	0	0	2503	1580	55	5	442	5	C9orf89	9	95874559	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10	60784025	95874559	45338872	28	8705											
RRM1	6240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4133183	4133183	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatctgttgggatccacaaaGaagacattgatgcagcaatt	14	11	9	7	0	1	3	0	1	1	2	2	4	2	4	1	1	2	3	1	1	4	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	4133183	G	A	4133183	3	1	156	1	0	0	0	0	1	0	0	0	13683	943	33	2	567	2	RRM1	11	4133183	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10		4133183	130873333	29	8706											
OR52I1	390037	broad.mit.edu;ucsc.edu	37	chr11	4616186	4616186	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaccaaacaattgctggaGggaatatggagttatctgat	14	10	12	5	0	1	1	0	1	1	0	1	5	1	5	1	4	2	2	1	4	5	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	4616186	C	C	4616186	3	2	156	1	0	0	0	0	1	0	0	0	11120	991	35	4	920	4	OR52I1	11	4616186	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	483003	4616186	130390330	30	8707											
CCKBR	887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6290923	6290923	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctggccattagaatcaCtctttacgcagtgatcttcc	9	12	9	11	1	3	2	1	1	2	1	4	3	4	3	2	2	2	2	2	2	3	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	6290923	C	T	6290923	3	4	156	1	0	0	0	0	1	0	0	0	2881	565	20	2	182	2	CCKBR	11	6290923	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	1674737	6290923	128715593	31	8708											
ELP4	26610	broad.mit.edu	37	chr11	31541630	31541630	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttagccgttggaacagttcTtctaattggttagtacaaaa	12	15	8	6	1	2	0	0	0	2	0	2	1	2	1	1	2	3	4	1	2	7	9	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	31541630	C	C	31541630	3	2	156	1	0	0	0	0	1	0	0	0	5082	1609	56	3	257	3	ELP4	11	31541630	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10	25250707	31541630	103464886	32	8709											
ATF7IP	55729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14577910	14577910	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgaagaaactctagaaaCagatgatacaactatttgtt	18	12	6	5	0	1	5	0	2	1	3	1	5	1	5	0	0	4	1	0	0	8	6	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	14577910	C	T	14577910	3	4	156	1	0	0	0	0	1	0	0	0	1087	478	17	2	1063	2	ATF7IP	12	14577910	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10		14577910	119273985	33	8710											
KRT7	3855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52629134	52629134	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagcatgcaggatgtggtgGaggacttcaagaataagtaa	14	8	15	4	0	1	1	1	0	0	1	1	5	1	5	0	5	2	3	0	5	4	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	52629134	G	T	52629134	4	4	156	1	0	0	0	0	0	1	0	0	8483	1175	41	4	526	4	KRT7	12	52629134	Nonsense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	38051224	52629134	81222761	34	8711											
MDM1	56890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	68720392	68720392	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaatgacaatgaaaccaatGaagaattctatgcttttgaa	18	11	7	5	0	1	5	0	4	1	1	1	6	1	5	1	0	2	1	1	0	8	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	68720392	G	A	68720392	2	1	156	1	0	0	0	0	0	0	0	1	9412	1281	45	2		2	MDM1	12	68720392	Silent	SNP	G	TCGA-B0-5702-01A-11D-1534-10	16091258	68720392	65131503	35	8712											
BBS10	79738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	76740157	76740157	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttgagtaatggttcataAtaatcagttagcctgtttct	10	18	7	6	0	4	1	2	1	2	0	4	1	4	1	1	1	1	4	1	1	4	8	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	76740157	A	G	76740157	2	3	156	1	0	0	0	0	0	0	0	1	1336	108	4	3		3	BBS10	12	76740157	Silent	SNP	A	TCGA-B0-5702-01A-11D-1534-10	8019765	76740157	57111738	36	8713											
EEA1	8411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	93202807	93202807	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttacatttccttctccatTtcaagttgtttactcaattc	8	19	3	11	0	3	0	2	0	1	0	6	0	4	0	2	0	2	3	2	0	4	8	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	93202807	T	A	93202807	3	1	156	1	0	0	0	0	1	0	0	0	4921	1838	64	5	1958	5	EEA1	12	93202807	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10	16462650	93202807	40649088	37	8714											
KLHDC1	122773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	50206889	50206889	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaaagatgacttacttGccttggatacagtaagaaaa	16	9	10	6	0	0	3	0	1	0	2	0	5	0	5	1	2	4	2	1	2	6	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	50206889	G	A	50206889	3	1	156	1	0	0	0	0	1	0	0	0	8354	1319	46	2	1012	2	KLHDC1	14	50206889	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10		50206889	57142651	38	8715											
IGDCC3	9543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65628159	65628159	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggctcacctctcattgTccgtgtcaattgggactctg	6	13	10	12	2	4	0	3	0	2	0	6	1	5	1	2	2	0	1	2	2	1	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	65628159	T	A	65628159	3	1	156	1	0	0	0	0	1	0	0	0	7568	1667	58	5	1947	5	IGDCC3	15	65628159	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10		65628159	36903233	39	8716											
CYP1A2	1544	broad.mit.edu	37	chr15	75047169	75047169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgagttccggcctgagCggttcctcaccgccgatggc	4	9	12	16	4	2	2	1	2	1	0	4	3	4	2	6	3	1	2	6	3	0	2	rs28399424	bycluster;byfrequency	TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	75047169	T	T	75047169	3	4	156	1	0	0	0	0	1	0	0	0	4150	759	27	1	1313	1	CYP1A2	15	75047169	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	9419010	75047169	27484223	40	8717											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19127313	19127313	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccagcttctccgggcctaCgggggtccccgctaccttgc	3	8	11	19	3	1	0	0	0	1	0	3	0	2	0	7	3	4	2	7	3	2	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	19127313	T	T	19127313	2	4	156	1	0	0	0	0	0	0	0	1	7925	547	19	1		1	ITPRIPL2	16	19127313	Silent	SNP	C	TCGA-B0-5702-01A-11D-1534-10		19127313	71227440	41	8718											
PHKB	5257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	47698832	47698832	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggctgcatttacccagaaAttttcttcctctatagcccc	8	13	7	13	0	2	1	0	0	2	1	3	1	3	1	4	2	3	2	4	2	4	7	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	47698832	A	C	47698832	3	2	156	1	0	0	0	0	1	0	0	0	11845	98	4	5	2530	5	PHKB	16	47698832	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10	28571519	47698832	42655921	42	8719											
FTSJD1	55783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71319019	71319019	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttagaacaaaagagccacCgtttccaagagtggtcagag	14	8	10	9	1	1	4	1	0	0	4	2	4	2	4	3	1	2	1	3	1	5	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	71319019	C	T	71319019	3	4	156	1	0	0	0	0	1	0	0	0	6090	652	23	1	1511	1	FTSJD1	16	71319019	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	23620187	71319019	19035734	43	8720											
DHRS13	147015	broad.mit.edu;ucsc.edu	37	chr17	27225663	27225663	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaggcccaagccctgcCagcctcttgctggcctccca	5	7	8	21	0	1	0	0	0	1	0	3	0	3	0	8	2	4	1	8	2	1	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	27225663	T	T	27225663	2	4	156	1	0	0	0	0	0	0	0	1	4489	581	21	2		2	DHRS13	17	27225663	Silent	SNP	C	TCGA-B0-5702-01A-11D-1534-10		27225663	53969547	44	8721											
ACLY	47	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40054059	40054059	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcatcggccctggactCagaaaaagatgctgtcctgc	10	8	9	14	1	2	2	2	0	0	2	4	3	3	3	3	2	2	1	3	2	2	0	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	40054059	C	A	40054059	4	1	156	1	0	0	0	0	0	1	0	0	143	835	29	4	2001	4	ACLY	17	40054059	Nonsense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	12828396	40054059	41141151	45	8722											
KCNH4	23415	broad.mit.edu	37	chr17	40315894	40315894	+	Frame_Shift_Del	DEL	C	-	-																															gccgtcggggcctgggaccaCccccaggctccgcgccactc																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		-	40315894	-	-	40315894	7	5	156	1	0	1	0	1	0	0	0	0	8034	507	18	0	862	0	KCNH4	17	40315894	Frame_Shift_Del	DEL	C	TCGA-B0-5702-01A-11D-1534-10	261835	40315894	40879316	46	8723											
NBR1	4077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41345527	41345527	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtctttctcacaaaggcCagcaatttgggcctcgggtc	7	10	12	12	2	2	0	1	0	2	0	5	0	2	0	2	4	1	1	2	4	2	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	41345527	C	A	41345527	3	1	156	1	0	0	0	0	1	0	0	0	10200	595	21	4	1438	4	NBR1	17	41345527	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	1029633	41345527	39849683	47	8724											
LAMA3	3909	hgsc.bcm.edu	37	chr18	21441744	21441744	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacagcgcgtcctgggtCgcacccacctcctacctggg	6	7	10	18	3	0	0	0	0	0	0	4	0	3	0	6	2	2	1	6	2	1	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	21441744	C	A	21441744	2	1	156	1	0	0	0	0	0	0	0	1	8607	871	31	4		4	LAMA3	18	21441744	Silent	SNP	C	TCGA-B0-5702-01A-11D-1534-10		21441744	56635504	48	8725											
LAMA3	3909	broad.mit.edu;ucsc.edu	37	chr18	21508604	21508604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcttgtgcgatctgccTcattctccagaggaggacaa	9	11	10	11	1	4	1	2	0	2	1	5	4	4	3	2	2	3	1	2	2	1	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	21508604	C	C	21508604	3	2	156	1	0	0	0	0	1	0	0	0	8607	1551	54	3	8740	3	LAMA3	18	21508604	Missense_Mutation	SNP	T	TCGA-B0-5702-01A-11D-1534-10	66860	21508604	56568644	49	8726											
DPP9	91039	hgsc.bcm.edu	37	chr19	4703896	4703916	+	In_Frame_Del	DEL	ACCTTGGTGGCAGAAGGTCAG	ACCTTGGTGGCAGAAGGTCAG	-																															gcacaggaggggctggccccAccttggtggcagaaggtcag																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	ACCTTGGTGGCAGAAGGTCAG	ACCTTGGTGGCAGAAGGTCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		-	4703916	ACCTTGGTGGCAGAAGGTCAG	-	4703896	7	5	156	1	0	1	0	1	0	0	0	0	4733	173	6	0	1971	0	DPP9	19	4703896	In_Frame_Del	DEL	ACCTTGGTGGCAGAAGGTCAG	TCGA-B0-5702-01A-11D-1534-10		4703896	54425087	50	8727											
SMARCA4	6597	broad.mit.edu	37	chr19	11132522	11132522	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctgacgggcacacCgctgcagaacaagcttcccg	8	6	11	16	3	0	2	0	1	0	1	1	2	1	2	3	1	5	6	3	1	2	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	11132522	A	A	11132522	3	1	156	1	0	0	0	0	1	0	0	0	14772	652	23	4	2808	4	SMARCA4	19	11132522	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	6428626	11132522	47996461	51	8728											
PRKCSH	5589	broad.mit.edu	37	chr19	11558317	11558317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggagcccaaggaggagcagCcgccagtgccctcgtcgccc	7	3	14	17	4	0	0	0	0	0	0	2	3	0	3	5	3	4	1	5	3	1	0	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	11558317	T	T	11558317	3	4	156	1	0	0	0	0	1	0	0	0	12518	739	26	2	951	2	PRKCSH	19	11558317	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	425795	11558317	47570666	52	8729											
PLA2G4C	8605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	48608631	48608631	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcagagctttcagcaCatgaagtcttcgtctctcca	8	14	6	13	1	5	2	2	1	3	1	8	2	6	2	1	0	2	2	1	0	1	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	48608631	C	A	48608631	3	1	156	1	0	0	0	0	1	0	0	0	12003	478	17	4	1610	4	PLA2G4C	19	48608631	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	37050314	48608631	10520352	53	8730											
C20orf186	0	broad.mit.edu;ucsc.edu	37	chr20	31671267	31671267	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtatttaccagtatggTcacattgagaccaacgacaa	14	10	9	8	1	1	1	1	1	0	1	1	4	1	1	2	2	2	2	2	2	5	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	31671267	C	C	31671267	2	2	156	1	0	0	0	0	0	0	0	1	2098	1654	58	3		3	C20orf186	20	31671267	Silent	SNP	T	TCGA-B0-5702-01A-11D-1534-10		31671267	31354253	54	8731											
PARD6B	84612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	49366295	49366295	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccatagaaaaaagccacAtatagtcattagtatgcccc	17	8	5	11	0	1	1	1	0	0	1	1	1	1	1	4	0	3	1	4	0	9	5	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	49366295	A	G	49366295	3	3	156	1	0	0	0	0	1	0	0	0	11446	217	8	3	399	3	PARD6B	20	49366295	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10	17695028	49366295	13659225	55	8732											
CABIN1	23523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24432627	24432627	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaacccagacaaaggaggctCaggtacgtaatgcgaggtct	14	6	12	9	2	2	1	1	0	1	1	2	3	2	2	1	4	3	3	1	4	4	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	24432627	C	G	24432627	3	3	156	1	0	0	0	0	1	0	0	0	2528	827	29	4	100	4	CABIN1	22	24432627	Missense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10		24432627	26871939	56	8733											
XPNPEP3	63929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41310325	41310325	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acgtacgtggccagtcaatgGcaggtagggcttctacagag	10	8	14	9	2	2	1	1	0	1	1	2	1	2	1	1	4	2	4	1	4	4	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	41310325	G	A	41310325	3	1	156	1	0	0	0	0	1	0	0	0	17443	1203	42	2	1078	2	XPNPEP3	22	41310325	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	16877698	41310325	9994241	57	8734											
MOV10L1	54456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50558941	50558941	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttttaaggaactcaagaCgacaacttccaagttttctt	13	15	5	8	1	2	1	1	0	1	1	3	3	3	2	1	1	2	1	1	1	5	7	rs150693045	by1000genomes	TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		T	50558941	C	T	50558941	4	4	156	1	0	0	0	0	0	1	0	0	9719	528	19	1	1544	1	MOV10L1	22	50558941	Nonsense_Mutation	SNP	C	TCGA-B0-5702-01A-11D-1534-10	9248616	50558941	745625	58	8735											
P2RY8	286530	hgsc.bcm.edu;ucsc.edu	37	chrX	1585213	1585213	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggttgcaatggtagtagAtttggaaaggcaacacgctg	11	9	15	6	2	0	1	0	0	0	1	0	2	0	2	0	5	2	6	0	5	5	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		G	1585213	A	G	1585213	3	3	156	1	0	0	0	0	1	0	0	0	11355	333	12	3	844	3	P2RY8	23	1585213	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10		1585213	153685347	59	8736											
FRMPD4	9758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	12734955	12734955	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccccctccagaaggtgatGacaatgaggatgacttcctg	10	9	11	11	0	0	5	0	4	0	1	2	6	2	6	4	2	1	0	4	2	2	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	12734955	G	A	12734955	3	1	156	1	0	0	0	0	1	0	0	0	6059	1290	45	2	2435	2	FRMPD4	23	12734955	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	11149742	12734955	142535605	60	8737											
MAP7D2	256714	broad.mit.edu	37	chrX	20074911	20074911	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcgcctccagccgttccTacacagttcgtgtaaggcaa	9	10	8	14	3	1	0	1	0	0	0	5	0	3	0	4	1	2	4	4	1	3	4	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	20074911	C	C	20074911	5	2	156	1	0	0	0	0	0	0	1	0	9268	1536	53	3	2002	3	MAP7D2	23	20074911	Splice_Site	SNP	T	TCGA-B0-5702-01A-11D-1534-10	7339956	20074911	135195649	61	8738											
SLC9A7	84679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	46522060	46522060	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtctgcatgcaattcattaAatatcgccagcacagtcact	12	11	6	12	2	3	0	2	0	1	0	4	0	3	0	1	0	3	3	1	0	4	3	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	46522060	A	C	46522060	3	2	156	1	0	0	0	0	1	0	0	0	14721	14	1	5	1413	5	SLC9A7	23	46522060	Missense_Mutation	SNP	A	TCGA-B0-5702-01A-11D-1534-10	26447149	46522060	108748500	62	8739											
ACRC	93953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70824235	70824235	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatgattcatctgatgatGctggtgagcaggatcttggt	9	13	13	6	0	3	4	1	4	2	0	3	5	3	5	0	3	3	3	0	3	0	2	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	70824235	G	A	70824235	3	1	156	1	0	0	0	0	1	0	0	0	171	1319	46	2	1134	2	ACRC	23	70824235	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	24302175	70824235	84446325	63	8740											
TCEAL3	85012	broad.mit.edu;hgsc.bcm.edu	37	chrX	102864047	102864047	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggaaaacgagggaaagccaGaagatgaagtagagcctgat	17	5	14	5	1	0	5	0	2	0	3	0	8	0	7	2	2	3	1	2	2	6	1	novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		C	102864047	G	C	102864047	3	2	156	1	0	0	0	0	1	0	0	0	15671	943	33	4	57	4	TCEAL3	23	102864047	Missense_Mutation	SNP	G	TCGA-B0-5702-01A-11D-1534-10	32039812	102864047	52406513	64	8741											
MORC4	79710	hgsc.bcm.edu;ucsc.edu	37	chrX	106236587	106236588	+	Frame_Shift_Ins	INS	-	-	A																															gatacatctggatctacagcINSattatctgcaaaaggtagaa																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		A	106236588	-	A	106236587	7	5	156	1	0	1	1	0	0	0	0	0	9704	710	25	0	2692	0	MORC4	23	106236587	Frame_Shift_Ins	INS	-	TCGA-B0-5702-01A-11D-1534-10	3372540	106236587	49033973	65	8742											
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140993904	140993906	+	In_Frame_Del	DEL	CCC	CCC	-																															cctctccagattcctgtgagCccctcctcctcctccacttt																								novel		TCGA-B0-5702-01A-11D-1534-10	TCGA-B0-5702-11A-01D-1534-10	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	780b3f3e-1c49-40de-9131-65c4df9ebba6	abcf3dd7-5e80-4f2d-a516-fb71ad14f79d		-	140993906	CCC	-	140993904	7	5	156	1	0	1	0	1	0	0	0	0	9180	738	26	0	720	0	MAGEC1	23	140993904	In_Frame_Del	DEL	CCC	TCGA-B0-5702-01A-11D-1534-10	34757317	140993904	14276656	66	8743											
KIAA1751	85452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1888064	1888064	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggcacactcactaattTcagggcagactgggagtcgt	10	9	13	9	1	2	1	2	0	0	1	3	3	2	2	0	3	0	2	0	3	1	2	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	1888064	T	G	1888064	3	3	157	1	0	0	0	0	1	0	0	0	8256	1792	62	5	285	5	KIAA1751	1	1888064	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10		1888064	247362557	1	8744											
CAPZA1	829	broad.mit.edu;ucsc.edu	37	chr1	113192053	113192053	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcagacgttcggctactActtaataatgacaatctcct	11	13	5	12	2	2	2	1	1	1	1	5	2	3	2	2	1	2	2	2	1	5	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	113192053	T	T	113192053	2	4	157	1	0	0	0	0	0	0	0	1	2640	378	14	5		5	CAPZA1	1	113192053	Silent	SNP	A	TCGA-B0-5703-01A-11D-1534-10	111303989	113192053	136058568	2	8745											
SPAG17	200162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	118584465	118584465	+	Frame_Shift_Del	DEL	T	T	-																															tctggttggtggggggactcTtctgttacttcttggatctt																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	118584465	T	-	118584465	7	5	157	1	0	1	0	1	0	0	0	0	14981	1606	56	0	3768	0	SPAG17	1	118584465	Frame_Shift_Del	DEL	T	TCGA-B0-5703-01A-11D-1534-10	5392412	118584465	130666156	3	8746											
TCHH	7062	broad.mit.edu;ucsc.edu	37	chr1	152083904	152083904	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagtcgctgctcgagccTctcttcctgctcgcgcttca	3	13	8	17	4	3	0	2	0	1	0	8	1	4	0	2	0	3	4	2	0	0	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	152083904	C	C	152083904	3	2	157	1	0	0	0	0	1	0	0	0	15699	1550	54	3	4046	3	TCHH	1	152083904	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	33499439	152083904	97166717	4	8747											
IVL	3713	hgsc.bcm.edu;ucsc.edu	37	chr1	152882534	152882545	+	In_Frame_Del	DEL	GCAGCAACAGCA	GCAGCAACAGCA	-																															gagccacaggagcaggagctGcagcaacagcactgggaaca																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	GCAGCAACAGCA	GCAGCAACAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	152882545	GCAGCAACAGCA	-	152882534	7	5	157	1	0	1	0	1	0	0	0	0	7929	1306	46	0	263	0	IVL	1	152882534	In_Frame_Del	DEL	GCAGCAACAGCA	TCGA-B0-5703-01A-11D-1534-10	798630	152882534	96368087	5	8748			1	10		2	2	13	N	GCAGCAACAGCA_-	2.984766e-05
IVL	3713	hgsc.bcm.edu;ucsc.edu	37	chr1	152882546	152882547	+	Frame_Shift_Ins	INS	-	-	T																															aggagctgcagcaacagcacINStgggaacagcatgaggaata																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	152882547	-	T	152882546	7	5	157	1	0	1	1	0	0	0	0	0	7929	564	20	0	275	0	IVL	1	152882546	Frame_Shift_Ins	INS	-	TCGA-B0-5703-01A-11D-1534-10	12	152882546	96368075	6	8749			1	10		2	2	13	N	GCAGCAACAGCA_-	2.984766e-05
F5	2153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169528479	169528479	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcatcaaacacagcaaaTagtagcacgatttgcttgtc	13	12	6	10	1	2	0	2	0	0	0	3	1	2	0	0	0	4	4	0	0	4	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	169528479	T	C	169528479	2	2	157	1	0	0	0	0	0	0	0	1	5348	1393	49	3		3	F5	1	169528479	Silent	SNP	T	TCGA-B0-5703-01A-11D-1534-10	16645933	169528479	79722142	7	8750											
CRB1	23418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197404477	197404477	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacatctatagctcttatCattgctcctgtcccttggga	9	14	7	11	0	3	1	1	0	2	1	5	2	5	2	2	1	2	2	2	1	4	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	197404477	C	A	197404477	3	1	157	1	0	0	0	0	1	0	0	0	3848	826	29	4	3518	4	CRB1	1	197404477	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	27875998	197404477	51846144	8	8751											
RGS7	6000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	240969479	240969479	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcgtccaggttccttcacGttctgtgtggttttgtcata	5	18	9	9	2	3	0	2	0	1	0	6	0	5	0	2	2	0	3	2	2	2	7	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	240969479	G	A	240969479	2	1	157	1	0	0	0	0	0	0	0	1	13312	1136	40	1		1	RGS7	1	240969479	Silent	SNP	G	TCGA-B0-5703-01A-11D-1534-10	43565002	240969479	8281142	9	8752											
ASAP2	8853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	9484692	9484692	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtcagagcacagcttataGcttacatcagcctcagggaa	12	9	9	11	1	3	1	3	0	0	1	4	2	3	2	1	1	5	3	1	1	4	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	9484692	G	A	9484692	3	1	157	1	0	0	0	0	1	0	0	0	1011	971	34	2	919	2	ASAP2	2	9484692	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10		9484692	233714681	10	8753											
PCYOX1	51449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	70502693	70502693	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctttgggcagtagaaGgtggcaataaacttgtttgc	9	12	13	7	0	0	1	0	0	0	1	0	1	0	1	1	4	2	4	1	4	5	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	70502693	G	T	70502693	3	4	157	1	0	0	0	0	1	0	0	0	11608	1000	35	4	772	4	PCYOX1	2	70502693	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	61018001	70502693	172696680	11	8754											
RMND5A	64795	broad.mit.edu;hgsc.bcm.edu	37	chr2	86980658	86980658	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atattagaggcattaaaggtCagagttctgagacctgctct	12	12	10	7	0	3	3	1	1	2	3	3	4	3	3	1	2	1	3	1	2	4	4	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	86980658	C	T	86980658	2	4	157	1	0	0	0	0	0	0	0	1	13399	813	29	2		2	RMND5A	2	86980658	Silent	SNP	C	TCGA-B0-5703-01A-11D-1534-10	16477965	86980658	156218715	12	8755											
MAP3K2	10746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128066283	128066283	+	Frame_Shift_Del	DEL	G	G	-																															atggtctgaagccgtttgctGgccccaaaatctcctagttt																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	128066283	G	-	128066283	7	5	157	1	0	1	0	1	0	0	0	0	9250	1335	47	0	355	0	MAP3K2	2	128066283	Frame_Shift_Del	DEL	G	TCGA-B0-5703-01A-11D-1534-10	41085625	128066283	115133090	13	8756											
DPP4	1803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	162902066	162902066	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtagttgtattctaagagAataaactgcccatcaggaga	15	10	9	7	1	2	2	1	0	1	2	2	4	2	2	1	1	2	3	1	1	6	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	162902066	A	C	162902066	3	2	157	1	0	0	0	0	1	0	0	0	4729	242	9	5	2046	5	DPP4	2	162902066	Missense_Mutation	SNP	A	TCGA-B0-5703-01A-11D-1534-10	34835783	162902066	80297307	14	8757											
PGAP1	80055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197777686	197777686	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagatttatcagatcatgcTtaaaatttttcagtgtaagc	14	15	7	5	0	3	2	3	0	0	2	3	3	3	2	0	0	2	2	0	0	5	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	197777686	T	G	197777686	3	3	157	1	0	0	0	0	1	0	0	0	11777	1609	56	5	2295	5	PGAP1	2	197777686	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	34875620	197777686	45421687	15	8758											
KIF1A	547	broad.mit.edu;ucsc.edu	37	chr2	241662861	241662861	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcagcttctccagctccCactggtggtccagaatgaga	8	9	11	13	0	2	2	1	1	1	2	5	3	4	2	3	3	2	3	3	3	1	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	241662861	T	T	241662861	4	4	157	1	0	0	0	0	0	1	0	0	8283	595	21	2	974	2	KIF1A	2	241662861	Nonsense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	43885175	241662861	1536512	16	8759											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191558	10191558	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggacatcgtcaggtcgcTctacgaagatctggaagacc	11	8	11	11	3	3	2	1	0	2	2	5	5	3	4	1	3	1	1	1	3	3	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	10191558	T	C	10191558	3	2	157	1	0	0	0	0	1	0	0	0	17161	1551	54	3	561	3	VHL	3	10191558	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10		10191558	187830872	17	8760											
XIRP1	165904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	39227553	39227553	+	Frame_Shift_Del	DEL	G	G	-																															caccccccaggcagccctctGggtagtgcttgctcttccct																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	39227553	G	-	39227553	7	5	157	1	0	1	0	1	0	0	0	0	17428	1335	47	0	2151	0	XIRP1	3	39227553	Frame_Shift_Del	DEL	G	TCGA-B0-5703-01A-11D-1534-10	29035995	39227553	158794877	18	8761											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52678784	52678784	+	Frame_Shift_Del	DEL	T	T	-																															agcctttttcatataaaataTttttttaattgaatttgcat																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	52678784	T	-	52678784	7	5	157	1	0	1	0	1	0	0	0	0	11491	1493	52	0	4157	0	PBRM1	3	52678784	Frame_Shift_Del	DEL	T	TCGA-B0-5703-01A-11D-1534-10	13451231	52678784	145343646	19	8762											
SI	6476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	164754179	164754179	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattactttcagacttacctTtagtttctccatcatcccag	9	17	3	12	0	3	1	2	0	1	1	5	1	4	1	3	0	2	1	3	0	4	7	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	164754179	T	G	164754179	3	3	157	1	0	0	0	0	1	0	0	0	14299	1841	64	5	3078	5	SI	3	164754179	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	112075395	164754179	33268251	20	8763											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506281	195506281	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtggcgtgacctgtggatAatgaggaagcattggtgaca	10	9	17	5	1	0	3	0	3	0	0	0	5	0	5	1	5	1	1	1	5	2	2	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	195506281	A	G	195506281	3	3	157	1	0	0	0	0	1	0	0	0	9978	372	13	3		3	MUC4	3	195506281	Missense_Mutation	SNP	A	TCGA-B0-5703-01A-11D-1534-10	30752102	195506281	2516149	21	8764											
DOK7	285489	broad.mit.edu;ucsc.edu	37	chr4	3478155	3478155	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcaatgatgtcctcgtcTtggccagggacatccccccg	6	10	10	15	2	2	1	0	1	2	0	5	2	4	2	5	2	1	1	5	2	1	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	3478155	G	G	3478155	3	3	157	1	0	0	0	0	1	0	0	0	4702	1606	56	5	432	5	DOK7	4	3478155	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10		3478155	187676121	22	8765											
ODZ3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	183714853	183714853	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatttcatggtggcctgtAtgacccactcaccaaattaa	11	12	8	10	0	2	1	2	1	0	0	2	2	2	2	3	3	0	1	3	3	3	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	183714853	A	G	183714853	3	3	157	1	0	0	0	0	1	0	0	0	10836	449	16	3	7126	3	ODZ3	4	183714853	Missense_Mutation	SNP	A	TCGA-B0-5703-01A-11D-1534-10	180236698	183714853	7439423	23	8766											
CLPTM1L	81037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1331925	1331925	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggggcctacctgccttggtgGacatgccgatcatgctcttc	5	11	12	13	1	2	0	1	0	1	0	3	2	2	1	4	4	4	1	4	4	1	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	1331925	G	A	1331925	3	1	157	1	0	0	0	0	1	0	0	0	3555	1174	41	2	691	2	CLPTM1L	5	1331925	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10		1331925	179583335	24	8767											
MARCH6	10299	broad.mit.edu;ucsc.edu	37	chr5	10407230	10407230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagattgtctttggctccaTtgtcctcctgatgctttggc	4	16	10	11	0	1	2	0	1	1	1	4	2	4	2	3	2	1	3	3	2	0	4	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	10407230	C	C	10407230	3	2	157	1	0	0	0	0	1	0	0	0	9305	1493	52	3	1535	3	MARCH6	5	10407230	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	9075305	10407230	170508030	25	8768											
AGGF1	55109	broad.mit.edu	37	chr5	76348572	76348572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatgacttacaaagttaTgtccttgtggatcaaggcag	12	11	10	8	0	1	1	1	1	0	0	2	3	2	2	2	2	1	2	2	2	4	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	76348572	C	C	76348572	2	2	157	1	0	0	0	0	0	0	0	1	382	1471	51	3		3	AGGF1	5	76348572	Silent	SNP	T	TCGA-B0-5703-01A-11D-1534-10	65941342	76348572	104566688	26	8769											
TGFBI	7045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	135382106	135382106	+	Silent	SNP	G	G	A																															tacacggaccgcacggagaaGctgaggcctgagatggaggg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	135382106	G	A	135382106	2	1	157	1	0	0	0	0	0	0	0	1	15819	962	34	2		2	TGFBI	5	135382106	Silent	SNP	G	TCGA-B0-5703-01A-11D-1534-10	59033534	135382106	45533154	27	8770	124	2									
TGFBI	7045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	135382107	135382107	+	Silent	SNP	C	C	T																															acacggaccgcacggagaagCtgaggcctgagatggagggg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	135382107	C	T	135382107	2	4	157	1	0	0	0	0	0	0	0	1	15819	796	28	2		2	TGFBI	5	135382107	Silent	SNP	C	TCGA-B0-5703-01A-11D-1534-10	1	135382107	45533153	28	8771	124	2									
CNOT6	57472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179994125	179994125	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattacagtttttttctggTagagctgaaagaacgtggct	10	15	11	5	1	1	3	0	1	1	2	1	3	1	3	0	2	3	5	0	2	5	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	179994125	T	C	179994125	3	2	157	1	0	0	0	0	1	0	0	0	3622	1638	57	3	781	3	CNOT6	5	179994125	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	44612018	179994125	921135	29	8772											
HIST1H1A	3024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	26017495	26017495	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttgccgcaggctttttagCctttttcggagtcttgacgc	4	16	11	10	3	1	1	0	1	1	0	2	2	1	2	2	2	2	3	2	2	1	7	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	26017495	C	A	26017495	3	1	157	1	0	0	0	0	1	0	0	0	7122	739	26	4	185	4	HIST1H1A	6	26017495	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10		26017495	145097572	30	8773											
MAPK14	1432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36043701	36043701	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaggtggtacagggctcCtgagatcatgctgaactgga	10	9	13	9	0	1	2	1	2	0	1	2	4	2	3	1	4	3	3	1	4	3	2	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	36043701	C	A	36043701	3	1	157	1	0	0	0	0	1	0	0	0	9276	681	24	4	598	4	MAPK14	6	36043701	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	10026206	36043701	135071366	31	8774											
SUPT3H	8464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44921067	44921067	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcagcagagttgtgatactGaatgaaggttgcagaaatgg	13	10	13	5	0	1	5	1	3	0	2	1	5	1	5	0	2	3	4	0	2	4	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	44921067	G	C	44921067	3	2	157	1	0	0	0	0	1	0	0	0	15396	1299	45	4	184	4	SUPT3H	6	44921067	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	8877366	44921067	126194000	32	8775											
FAM46A	55603	broad.mit.edu	37	chr6	82461713	82461713	+	Frame_Shift_Del	DEL	C	-	-																															aatagtccaagcaatgcccaCcgaagctgccgccaccgccg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	82461713	-	-	82461713	7	5	157	1	0	1	0	1	0	0	0	0	5565	507	18	0	1190	0	FAM46A	6	82461713	Frame_Shift_Del	DEL	C	TCGA-B0-5703-01A-11D-1534-10	37540646	82461713	88653354	33	8776											
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu	37	chr7	121637955	121637955	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctattctcaataatttgCtacccaatatgagttatgtt	11	17	6	7	0	1	1	1	1	1	0	2	1	1	1	1	0	3	4	1	0	7	8	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	121637955	C	G	121637955	3	3	157	1	0	0	0	0	1	0	0	0	12816	796	28	4	1173	4	PTPRZ1	7	121637955	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10		121637955	37500708	34	8777											
PLXNA4	91584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	131866156	131866156	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctttaggatgatgggcGtgccaggcttgagctccagg	7	9	14	11	1	0	2	0	2	0	0	1	3	1	3	4	4	2	2	4	4	1	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	131866156	G	A	131866156	3	1	157	1	0	0	0	0	1	0	0	0	12122	1145	40	1	2268	1	PLXNA4	7	131866156	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	10228201	131866156	27272507	35	8778											
TAS2R39	259285	hgsc.bcm.edu;ucsc.edu	37	chr7	142881197	142881197	+	Frame_Shift_Del	DEL	C	C	-																															catgttcatcctgacagccaCcctgctgatcctctctctca																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	142881197	C	-	142881197	7	5	157	1	0	1	0	1	0	0	0	0	15575	507	18	0	688	0	TAS2R39	7	142881197	Frame_Shift_Del	DEL	C	TCGA-B0-5703-01A-11D-1534-10	11015041	142881197	16257466	36	8779											
GPR124	25960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	37688398	37688398	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgagcaggcgggcatcCtcctggccgagagcctcatc	7	7	14	13	2	1	3	1	2	0	1	4	4	3	3	4	3	2	2	4	3	0	0	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	37688398	C	T	37688398	3	4	157	1	0	0	0	0	1	0	0	0	6638	681	24	2	894	2	GPR124	8	37688398	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10		37688398	108675624	37	8780											
RP1	6101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55540593	55540593	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgaatataaaaatggatTtaatacattggtgtcacatc	15	13	6	7	0	1	1	1	1	0	0	2	2	1	2	1	2	1	0	1	2	7	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	55540593	T	G	55540593	3	3	157	1	0	0	0	0	1	0	0	0	13534	1841	64	5	4161	5	RP1	8	55540593	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	17852195	55540593	90823429	38	8781											
TMC1	117531	hgsc.bcm.edu;ucsc.edu	37	chr9	75309453	75309471	+	In_Frame_Del	DEL	GTTTAGGTGAAGAGGAAGA	GTTTAGGTGAAGAGGAAGA	-																															ctcattgaatcaagtgctatGtttaggtgaagaggaagagg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	GTTTAGGTGAAGAGGAAGA	GTTTAGGTGAAGAGGAAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	75309471	GTTTAGGTGAAGAGGAAGA	-	75309453	7	5	157	1	0	1	0	1	0	0	0	0	15983	1392	48	0		0	TMC1	9	75309453	In_Frame_Del	DEL	GTTTAGGTGAAGAGGAAGA	TCGA-B0-5703-01A-11D-1534-10		75309453	65903978	39	8782											
PRUNE2	158471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79325303	79325303	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcatatcttctgtataGagtgaggctggttcttcagt	7	16	12	6	0	5	2	2	1	3	1	5	2	5	2	0	3	0	3	0	3	3	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	79325303	G	T	79325303	2	4	157	1	0	0	0	0	0	0	0	1	12643	929	33	4		4	PRUNE2	9	79325303	Silent	SNP	G	TCGA-B0-5703-01A-11D-1534-10	4015850	79325303	61888128	40	8783											
EPB41L4B	54566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	112005948	112005948	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctggctgggatggatattAggatgatattgaggctagaa	11	11	16	3	0	0	3	0	2	0	1	0	6	0	6	0	6	0	3	0	6	5	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	112005948	A	G	112005948	2	3	157	1	0	0	0	0	0	0	0	1	5156	407	15	3		3	EPB41L4B	9	112005948	Silent	SNP	A	TCGA-B0-5703-01A-11D-1534-10	32680645	112005948	29207483	41	8784											
DNAJC1	64215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	22193512	22193512	+	Frame_Shift_Del	DEL	T	T	-																															ttttccttcaatcttgtttcTttatatttagcataaaactg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	22193512	T	-	22193512	7	5	157	1	0	1	0	1	0	0	0	0	4628	1606	56	0	929	0	DNAJC1	10	22193512	Frame_Shift_Del	DEL	T	TCGA-B0-5703-01A-11D-1534-10		22193512	113341235	42	8785											
SIRT1	23411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	69651246	69651246	+	Missense_Mutation	SNP	T	T	A																															gacttcccagatcttccagaTcctcaagcgatgtttgatat																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	69651246	T	A	69651246	3	1	157	1	0	0	0	0	1	0	0	0	14339	1432	50	5	890	5	SIRT1	10	69651246	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	47457734	69651246	65883501	43	8786	125	2									
SIRT1	23411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	69651247	69651247	+	Missense_Mutation	SNP	C	C	T																															acttcccagatcttccagatCctcaagcgatgtttgatatt																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	69651247	C	T	69651247	3	4	157	1	0	0	0	0	1	0	0	0	14339	855	30	2	891	2	SIRT1	10	69651247	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	1	69651247	65883500	44	8787	125	2									
CNNM1	26507	broad.mit.edu;hgsc.bcm.edu	37	chr10	101151192	101151192	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgcaacttgtttttttcAggtggccaaaaaaggaagag	13	12	10	6	0	1	1	1	0	0	1	1	2	1	2	1	3	2	2	1	3	5	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	101151192	A	G	101151192	5	3	157	1	0	0	0	0	0	0	1	0	3612	202	7	3	2817	3	CNNM1	10	101151192	Splice_Site	SNP	A	TCGA-B0-5703-01A-11D-1534-10	31499945	101151192	34383555	45	8788											
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129906122	129906122	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggccgtctcttgctgcCggttaagttctctgtcaggt	3	16	12	10	2	3	0	1	0	2	0	5	0	3	0	2	3	2	3	2	3	1	4	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	129906122	C	T	129906122	3	4	157	1	0	0	0	0	1	0	0	0	9598	652	23	1	5800	1	MKI67	10	129906122	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	28754930	129906122	5628625	46	8789											
OR5AR1	219493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56431824	56431824	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatctcctatacctttatCcttgttgcaatcatcagaat	10	17	3	11	0	4	1	3	0	1	1	6	1	5	1	3	0	2	2	3	0	5	7	rs144241394	alternate_allele	TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	56431824	C	A	56431824	2	1	157	1	0	0	0	0	0	0	0	1	11145	845	30	4		4	OR5AR1	11	56431824	Silent	SNP	C	TCGA-B0-5703-01A-11D-1534-10		56431824	78574692	47	8790											
NPAT	4863	hgsc.bcm.edu;ucsc.edu	37	chr11	108056204	108056205	+	Frame_Shift_Ins	INS	-	-	T																															ttagtattttttctcgtgcaINSttttcaataaccatttgctg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	108056205	-	T	108056204	7	5	157	1	0	1	1	0	0	0	0	0	10566	214	8	0	3579	0	NPAT	11	108056204	Frame_Shift_Ins	INS	-	TCGA-B0-5703-01A-11D-1534-10	51624380	108056204	26950312	48	8791											
ATM	472	broad.mit.edu;ucsc.edu	37	chr11	108115600	108115600	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctgtcaactttcgaattCgagtgtgtgaattaggagat	10	14	12	5	2	1	2	1	1	0	1	3	5	1	2	0	2	1	1	0	2	4	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	108115600	T	T	108115600	4	4	157	1	0	0	0	0	0	1	0	0	1109	876	31	1	770	1	ATM	11	108115600	Nonsense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	59396	108115600	26890916	49	8792											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108127062	108127062	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagaattattccagaaaGccaaggtaggagaatttata	17	10	9	5	0	1	3	1	0	0	3	2	4	2	3	2	2	1	1	2	2	8	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	108127062	G	A	108127062	3	1	157	1	0	0	0	0	1	0	0	0	1109	971	34	2	2295	2	ATM	11	108127062	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	11462	108127062	26879454	50	8793											
TAS2R43	259289	hgsc.bcm.edu	37	chr12	11244071	11244072	+	Frame_Shift_Del	DEL	CC	CC	-																															caggtttgttttccagacttCcaaaactccaaactgatatc																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	11244072	CC	-	11244071	7	5	157	1	0	1	0	1	0	0	0	0	15580	855	30	0	175	0	TAS2R43	12	11244071	Frame_Shift_Del	DEL	CC	TCGA-B0-5703-01A-11D-1534-10		11244071	122607824	51	8794											
GMFB	2764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	54948128	54948128	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcactaagaaaaggatatcGaggttgtcgttcaggtagtt	13	11	12	5	2	1	1	1	0	0	1	3	3	1	2	0	3	1	5	0	3	5	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	54948128	G	A	54948128	3	1	157	1	0	0	0	0	1	0	0	0	6489	1072	37	1	245	1	GMFB	14	54948128	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10		54948128	52401412	52	8795											
KCNK10	54207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	88658594	88658594	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatcaccaaagcccaccGtggtcagagtgaccaccaca	15	4	7	15	1	2	2	2	1	0	1	2	2	2	2	5	1	1	0	5	1	3	0	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	88658594	G	A	88658594	3	1	157	1	0	0	0	0	1	0	0	0	8059	1145	40	1	801	1	KCNK10	14	88658594	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	33710466	88658594	18690946	53	8796											
CLMN	79789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	95688029	95688029	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagcttcaaacacttacaTtgctatcttccaaaaactta	15	13	3	10	0	2	1	1	1	1	0	3	1	3	1	1	0	5	2	1	0	6	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	95688029	T	C	95688029	3	2	157	1	0	0	0	0	1	0	0	0	3542	1507	52	3	2725	3	CLMN	14	95688029	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	7029435	95688029	11661511	54	8797											
WDR25	79446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	100934461	100934461	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggccggcgcatcctcaGtggtggctttgacttcgcgc	3	11	14	13	4	1	1	1	1	0	0	3	1	2	1	2	4	0	2	2	4	0	2	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	100934461	G	A	100934461	3	1	157	1	0	0	0	0	1	0	0	0	17281	1029	36	2	932	2	WDR25	14	100934461	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	5246432	100934461	6415079	55	8798											
TLE3	7090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	70351055	70351055	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactggaagaggccaccgAggcagggctggtgggggcat	8	5	19	9	1	0	1	0	0	0	1	0	3	0	2	2	7	1	4	2	7	2	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	70351055	A	T	70351055	3	4	157	1	0	0	0	0	1	0	0	0	15939	304	11	5	1493	5	TLE3	15	70351055	Missense_Mutation	SNP	A	TCGA-B0-5703-01A-11D-1534-10		70351055	32180337	56	8799											
CRAMP1L	57585	broad.mit.edu	37	chr16	1706867	1706867	+	Frame_Shift_Del	DEL	G	-	-																															aagcccagcaagctgcagctGgagtacgactggctggggcc																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	1706867	-	-	1706867	7	5	157	1	0	1	0	1	0	0	0	0	3846	1335	47	0	2143	0	CRAMP1L	16	1706867	Frame_Shift_Del	DEL	G	TCGA-B0-5703-01A-11D-1534-10		1706867	88647886	57	8800											
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21136611	21136611	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcctcaatgtttcgacttGagtcatagttgctcttggga	8	16	9	8	1	3	1	2	1	1	0	5	3	4	2	1	1	1	3	1	1	2	6	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	21136611	G	C	21136611	4	2	157	1	0	0	0	0	0	1	0	0	4603	1294	45	4	11276	4	DNAH3	16	21136611	Nonsense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	19429744	21136611	69218142	58	8801											
CCDC102A	92922	broad.mit.edu	37	chr16	57552045	57552047	+	In_Frame_Del	DEL	GCC	-	-																															gtccagtgcgctggctgtttGccgccgccgccgggccagcg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	GCC	GCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	57552047	-	-	57552045	7	5	157	1	0	1	0	1	0	0	0	0	2736	1328	46	0	485	0	CCDC102A	16	57552045	In_Frame_Del	DEL	GCC	TCGA-B0-5703-01A-11D-1534-10	36415434	57552045	32802708	59	8802											
NFATC3	4775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68160480	68160480	+	Frame_Shift_Del	DEL	A	A	-																															gaaggtagccgaggggcagtAaaagcatctactgggggaca																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	68160480	A	-	68160480	7	5	157	1	0	1	0	1	0	0	0	0	10364	349	13	0	1378	0	NFATC3	16	68160480	Frame_Shift_Del	DEL	A	TCGA-B0-5703-01A-11D-1534-10	10608435	68160480	22194273	60	8803											
MYH2	4620	broad.mit.edu;hgsc.bcm.edu	37	chr17	10429940	10429940	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcctccagctcctctgtgCgctggatggcgtccgtctcg	2	11	11	17	4	2	0	0	0	2	0	7	1	6	1	5	2	2	2	5	2	0	0	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	10429940	C	T	10429940	3	4	157	1	0	0	0	0	1	0	0	0	10035	768	27	1	1706	1	MYH2	17	10429940	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10		10429940	70765270	61	8804											
MFAP4	4239	hgsc.bcm.edu;ucsc.edu	37	chr17	19288733	19288734	+	Frame_Shift_Del	DEL	AA	AA	-																															agtcattccagccgcggaagAaacttactgagccattgaat																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	19288734	AA	-	19288733	7	5	157	1	0	1	0	1	0	0	0	0	9517	246	9	0	504	0	MFAP4	17	19288733	Frame_Shift_Del	DEL	AA	TCGA-B0-5703-01A-11D-1534-10	8858793	19288733	61906477	62	8805											
ALDH3A1	218	broad.mit.edu	37	chr17	19641666	19641666	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcggggggtatctgaccttCaggccttcatcattcatcag	7	12	10	12	1	6	1	5	1	1	0	7	1	6	1	2	4	0	1	2	4	1	4	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	19641666	T	T	19641666	2	4	157	1	0	0	0	0	0	0	0	1	497	813	29	2		2	ALDH3A1	17	19641666	Silent	SNP	C	TCGA-B0-5703-01A-11D-1534-10	352933	19641666	61553544	63	8806											
ERAL1	26284	broad.mit.edu;ucsc.edu	37	chr17	27182269	27182269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggctctgccctggaccacTtcctcggattctctcagccc	5	10	9	17	1	3	0	1	0	2	0	6	2	4	2	4	3	2	1	4	3	0	2	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	27182269	C	C	27182269	3	2	157	1	0	0	0	0	1	0	0	0	5202	1609	56	3	219	3	ERAL1	17	27182269	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	7540603	27182269	54012941	64	8807											
C17orf75	64149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30660439	30660439	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagccaactaattaccttTagtttaaagttctccagtac	13	13	4	11	0	1	0	0	0	1	0	2	0	1	0	3	0	4	3	3	0	7	8	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	30660439	T	C	30660439	2	2	157	1	0	0	0	0	0	0	0	1	1880	1741	61	3		3	C17orf75	17	30660439	Silent	SNP	T	TCGA-B0-5703-01A-11D-1534-10	3478170	30660439	50534771	65	8808											
UNC45B	146862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33477188	33477188	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgccaccctcgagccacgGaaccagaacttccaggagat	11	6	10	14	2	0	2	0	0	0	2	2	5	1	3	5	2	4	0	5	2	2	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	33477188	G	A	33477188	2	1	157	1	0	0	0	0	0	0	0	1	16988	1161	41	2		2	UNC45B	17	33477188	Silent	SNP	G	TCGA-B0-5703-01A-11D-1534-10	2816749	33477188	47718022	66	8809											
CACNA1G	8913	hgsc.bcm.edu	37	chr17	48692779	48692787	+	In_Frame_Del	DEL	ACTTGTGCA	ACTTGTGCA	-																															cttccggctcctcgtccaccActtgtgcaccagccactacc																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	ACTTGTGCA	ACTTGTGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		-	48692787	ACTTGTGCA	-	48692779	7	5	157	1	0	1	0	1	0	0	0	0	2544	159	6	0	5190	0	CACNA1G	17	48692779	In_Frame_Del	DEL	ACTTGTGCA	TCGA-B0-5703-01A-11D-1534-10	15215591	48692779	32502431	67	8810											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76421493	76421493	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatgtcctctcggttttTcttggtcacctcgacagaca	6	14	9	12	2	4	1	2	0	2	1	7	2	5	1	2	3	0	1	2	3	0	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	76421493	T	C	76421493	3	2	157	1	0	0	0	0	1	0	0	0	4601	1792	62	3	321	3	DNAH17	17	76421493	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	27728714	76421493	4773717	68	8811											
PLIN4	729359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4510945	4510945	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcccccctggacggccccTttggccatgctcatggcacc	5	7	11	18	1	1	0	1	0	0	0	1	1	1	1	7	5	1	2	7	5	0	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		A	4510945	T	A	4510945	3	1	157	1	0	0	0	0	1	0	0	0	12092	1606	56	5	1104	5	PLIN4	19	4510945	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10		4510945	54618038	69	8812											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9000513	9000513	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcatgttctcctcataccGcaggttagtgatggtgaagt	9	13	11	8	1	2	2	1	2	1	0	3	2	2	2	2	2	2	4	2	2	3	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	9000513	G	C	9000513	3	2	157	1	0	0	0	0	1	0	0	0	9973	1086	38	4	3176	4	MUC16	19	9000513	Missense_Mutation	SNP	G	TCGA-B0-5703-01A-11D-1534-10	4489568	9000513	50128470	70	8813											
SUPT5H	6829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39965287	39965287	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgggtaaccactgacattCaggtgaaggtgcgggacacc	11	7	13	10	1	1	2	1	2	0	0	1	3	1	3	2	4	2	1	2	4	2	2	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	39965287	C	T	39965287	4	4	157	1	0	0	0	0	0	1	0	0	15398	827	29	2	3059	2	SUPT5H	19	39965287	Nonsense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	30964774	39965287	19163696	71	8814											
SIRPB1	10326	broad.mit.edu;hgsc.bcm.edu	37	chr20	1552666	1552666	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgcagggcccgataccaCgggggcagagggtttggcta	8	5	16	12	3	0	1	0	0	0	1	0	2	0	1	3	5	1	4	3	5	2	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		T	1552666	C	T	1552666	3	4	157	1	0	0	0	0	1	0	0	0	14335	536	19	1	757	1	SIRPB1	20	1552666	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10		1552666	61472854	72	8815											
RRBP1	6238	broad.mit.edu	37	chr20	17640580	17640580	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtagtgccagtggctggTgtgttgcccttggcacccac	5	11	14	11	0	0	1	0	1	0	0	0	1	0	1	3	3	2	4	3	3	1	3	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	17640580	G	G	17640580	2	3	157	1	0	0	0	0	0	0	0	1	13680	1711	59	5		5	RRBP1	20	17640580	Silent	SNP	T	TCGA-B0-5703-01A-11D-1534-10	16087914	17640580	45384940	73	8816											
TOP1	7150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39741521	39741521	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactggaagtccaaagagAtgaaagtccggcagagagct	16	5	13	7	1	0	4	0	1	0	3	2	7	2	5	2	2	1	2	2	2	4	0	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	39741521	A	G	39741521	3	3	157	1	0	0	0	0	1	0	0	0	16362	333	12	3	1462	3	TOP1	20	39741521	Missense_Mutation	SNP	A	TCGA-B0-5703-01A-11D-1534-10	22100941	39741521	23283999	74	8817											
CTSA	5476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44521907	44521907	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgagcagaatgacaacTccctggtctactttgcctac	10	11	7	13	0	1	3	0	2	1	1	2	3	2	3	3	1	5	1	3	1	5	4	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	44521907	T	C	44521907	3	2	157	1	0	0	0	0	1	0	0	0	4029	1551	54	3	729	3	CTSA	20	44521907	Missense_Mutation	SNP	T	TCGA-B0-5703-01A-11D-1534-10	4780386	44521907	18503613	75	8818											
PMEPA1	56937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	56227136	56227136	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtcctttctgtttatcCttctctttgctccagatggc	3	18	9	11	0	2	1	0	0	2	1	6	1	5	1	3	2	1	2	3	2	1	5	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		G	56227136	C	G	56227136	3	3	157	1	0	0	0	0	1	0	0	0	12132	680	24	4	30	4	PMEPA1	20	56227136	Missense_Mutation	SNP	C	TCGA-B0-5703-01A-11D-1534-10	11705229	56227136	6798384	76	8819											
PRAME	23532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	22893221	22893221	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggcaaggagcacatcAagtccatcaagcacagcttt	12	8	9	12	0	2	0	2	0	0	0	4	1	4	1	2	2	3	4	2	2	3	1	novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	22893221	A	C	22893221	2	2	157	1	0	0	0	0	0	0	0	1	12426	117	5	5		5	PRAME	22	22893221	Silent	SNP	A	TCGA-B0-5703-01A-11D-1534-10		22893221	28411345	77	8820											
CRYBB1	1414	hgsc.bcm.edu	37	chr22	27012238	27012239	+	Frame_Shift_Ins	INS	-	-	C																															ttggtgtcaggccctgggttINScaccgccactgtggccgagg																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	27012239	-	C	27012238	7	5	157	1	0	1	1	0	0	0	0	0	3910	1783	62	0	732	0	CRYBB1	22	27012238	Frame_Shift_Ins	INS	-	TCGA-B0-5703-01A-11D-1534-10	4119017	27012238	24292328	78	8821											
PIM3	415116	hgsc.bcm.edu;ucsc.edu	37	chr22	50356427	50356428	+	Frame_Shift_Ins	INS	-	-	C																															tcgctgggcgtgcttctctaINScgatatggtgtgtggggaca																								novel		TCGA-B0-5703-01A-11D-1534-10	TCGA-B0-5703-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	963400a2-d939-41a5-8c42-9fc3a04b8362	56994dd1-cfd6-4939-8c18-bbc52a633306		C	50356428	-	C	50356427	7	5	157	1	0	1	1	0	0	0	0	0	11929	391	14	0	725	0	PIM3	22	50356427	Frame_Shift_Ins	INS	-	TCGA-B0-5703-01A-11D-1534-10	23344189	50356427	948139	79	8822											
NOC2L	26155	broad.mit.edu;hgsc.bcm.edu	37	chr1	888619	888619	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctgaggaccaggaaaGccagcacccgcagagactct	11	5	11	14	1	2	2	0	1	2	1	2	5	2	4	3	2	3	3	3	2	1	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	888619	G	T	888619	3	4	158	1	0	0	0	0	1	0	0	0	10513	971	34	4	1355	4	NOC2L	1	888619	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10		888619	248362002	1	8823											
PLCH2	9651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	2435907	2435907	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcctgggccgcagccGtgagaacctcgctggagccc	5	5	15	16	3	0	1	0	1	0	1	1	3	0	2	6	3	3	2	6	3	1	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	2435907	G	A	2435907	3	1	158	1	0	0	0	0	1	0	0	0	12038	1145	40	1	3592	1	PLCH2	1	2435907	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	1547288	2435907	246814714	2	8824											
UBR4	23352	broad.mit.edu;ucsc.edu	37	chr1	19446815	19446815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccagagctgtgcacagcTggtcctcctggctgccagag	7	8	12	14	0	1	2	1	0	0	2	3	2	3	2	4	2	4	4	4	2	0	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	19446815	C	C	19446815	3	2	158	1	0	0	0	0	1	0	0	0	16903	1580	55	3	5534	3	UBR4	1	19446815	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	17010908	19446815	229803806	3	8825											
HSPG2	3339	hgsc.bcm.edu;ucsc.edu	37	chr1	22216599	22216600	+	Frame_Shift_Ins	INS	-	-	C																															cgcattcccttccgagcccaINScatccagctccacaaaaacc																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	22216600	-	C	22216599	7	5	158	1	0	1	1	0	0	0	0	0	7430	159	6	0	13094	0	HSPG2	1	22216599	Frame_Shift_Ins	INS	-	TCGA-B0-5705-01A-11D-1534-10	2769784	22216599	227034022	4	8826	126	2									
HSPG2	3339	hgsc.bcm.edu	37	chr1	22216602	22216602	+	Missense_Mutation	SNP	T	T	C																															cattcccttccgagcccacaTccagctccacaaaaacccag																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	22216602	T	C	22216602	3	2	158	1	0	0	0	0	1	0	0	0	7430	1435	50	3	13097	3	HSPG2	1	22216602	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	3	22216602	227034019	5	8827	126	2									
OPRD1	4985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	29185683	29185683	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtgttgaccgctacatcGctgtctgccaccctgtcaag	7	11	10	13	2	2	2	1	2	1	0	3	2	2	2	3	0	2	3	3	0	2	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	29185683	G	A	29185683	3	1	158	1	0	0	0	0	1	0	0	0	10884	1087	38	1	451	1	OPRD1	1	29185683	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	6969081	29185683	220064938	6	8828											
INPP5B	3633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38353034	38353034	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcttacctttgcatattTggcatctggatgaagaccct	8	15	7	11	0	2	2	0	1	2	1	3	3	2	3	2	2	2	2	2	2	3	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	38353034	T	G	38353034	3	3	158	1	0	0	0	0	1	0	0	0	7755	1821	63	5	1794	5	INPP5B	1	38353034	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	9167351	38353034	210897587	7	8829											
RNF220	55182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44878049	44878049	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttccccccttctctactaCacctccaccctcaatttgct	7	14	1	19	0	2	0	1	0	1	0	5	0	4	0	6	0	3	1	6	0	3	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	44878049	C	A	44878049	3	1	158	1	0	0	0	0	1	0	0	0	13485	478	17	4	282	4	RNF220	1	44878049	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	6525015	44878049	204372572	8	8830											
PARS2	25973	broad.mit.edu	37	chr1	55224781	55224781	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acatacccagagagctggcgGctgcaggtggccagggcggg	8	4	18	11	2	0	1	0	0	0	1	0	2	0	1	2	6	3	3	2	6	1	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	55224781	T	T	55224781	3	4	158	1	0	0	0	0	1	0	0	0	11467	1194	42	4	1377	4	PARS2	1	55224781	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	10346732	55224781	194025840	9	8831											
GBP2	2634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89582840	89582840	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcgggccaatcgaagaCgaagcacttcctcttgggga	11	6	14	10	3	1	1	0	0	1	1	3	5	2	3	2	4	2	1	2	4	3	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	89582840	C	T	89582840	3	4	158	1	0	0	0	0	1	0	0	0	6274	536	19	1	1096	1	GBP2	1	89582840	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	34358059	89582840	159667781	10	8832											
PHTF1	10745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114267480	114267480	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aggagttatttccattttctCggctcccatcaccatttaca	9	15	5	12	1	2	0	1	0	1	0	5	1	4	1	3	2	1	2	3	2	2	6	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	114267480	C	G	114267480	3	3	158	1	0	0	0	0	1	0	0	0	11862	884	31	4	1816	4	PHTF1	1	114267480	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	24684640	114267480	134983141	11	8833											
SMG5	23381	broad.mit.edu;hgsc.bcm.edu	37	chr1	156243168	156243168	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaatctgaggagctacTgacagggcttggtagtaaaa	13	10	11	7	0	1	2	0	2	1	0	1	3	1	3	1	3	3	4	1	3	6	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	156243168	T	A	156243168	2	1	158	1	0	0	0	0	0	0	0	1	14798	1567	55	5		5	SMG5	1	156243168	Silent	SNP	T	TCGA-B0-5705-01A-11D-1534-10	41975688	156243168	93007453	12	8834											
CRB1	23418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197446956	197446956	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggagaaggagggctccCgagtggaaatgtggaacttg	11	7	17	6	1	1	1	1	0	0	1	2	6	2	4	1	5	1	1	1	5	3	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	197446956	C	T	197446956	4	4	158	1	0	0	0	0	0	1	0	0	3848	644	23	1	4214	1	CRB1	1	197446956	Nonsense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	41203788	197446956	51803665	13	8835											
FAM150B	285016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	283163	283163	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggtaagaagcctggcgCatcttttatagtctacggtg	8	11	13	9	3	2	1	0	0	2	1	2	1	2	1	2	3	2	2	2	3	5	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	283163	C	A	283163	3	1	158	1	0	0	0	0	1	0	0	0	5457	710	25	4	65	4	FAM150B	2	283163	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10		283163	242916210	14	8836											
TIA1	7072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	70441538	70441538	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catatgcaggaacttgccaaCcattaggcatatactggcca	13	9	8	11	0	0	0	0	0	0	0	0	1	0	1	3	3	5	2	3	3	6	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	70441538	C	G	70441538	3	3	158	1	0	0	0	0	1	0	0	0	15886	507	18	4	191	4	TIA1	2	70441538	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	70158375	70441538	172757835	15	8837											
KIAA1310	0	broad.mit.edu;hgsc.bcm.edu	37	chr2	97267383	97267383	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctggcagactcacctgTgagctggagggcagcacctg	7	8	13	13	0	1	2	1	1	0	1	2	3	2	3	3	3	2	4	3	3	0	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	97267383	T	C	97267383	2	2	158	1	0	0	0	0	0	0	0	1	8222	1683	59	3		3	KIAA1310	2	97267383	Silent	SNP	T	TCGA-B0-5705-01A-11D-1534-10	26825845	97267383	145931990	16	8838											
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128878020	128878020	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atggcacctttaaaggtttgGcagttgcaaggtaatgaaaa	14	11	11	5	0	0	1	0	1	0	0	0	1	0	1	1	4	1	6	1	4	6	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	128878020	G	A	128878020	4	1	158	1	0	0	0	0	0	1	0	0	16940	1212	42	2	997	2	UGGT1	2	128878020	Nonsense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	31610637	128878020	114321353	17	8839											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179634827	179634827	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcattccaattgcccgacCacagctgtgtattccccagc	8	11	7	15	1	0	0	0	0	0	0	2	1	2	0	5	0	4	3	5	0	2	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	179634827	C	T	179634827	2	4	158	1	0	0	0	0	0	0	0	1	16734	581	21	2		2	TTN	2	179634827	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10	50756807	179634827	63564546	18	8840											
CCDC108	255101	broad.mit.edu;ucsc.edu	37	chr2	219886632	219886632	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccagcacattcccaaaGgccagctccttttcctttgc	8	12	5	16	0	1	0	1	0	0	0	4	0	4	0	5	1	3	2	5	1	1	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	219886632	C	C	219886632	2	2	158	1	0	0	0	0	0	0	0	1	2743	987	35	4		4	CCDC108	2	219886632	Silent	SNP	G	TCGA-B0-5705-01A-11D-1534-10	40251805	219886632	23312741	19	8841											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191570	10191570	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgctctacgaagatcTggaagaccacccaaatgtgc	12	7	10	12	2	2	2	0	0	2	2	3	4	2	3	2	2	2	1	2	2	4	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	10191570	T	C	10191570	3	2	158	1	0	0	0	0	1	0	0	0	17161	1580	55	3	573	3	VHL	3	10191570	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10		10191570	187830860	20	8842											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52651383	52651383	+	Frame_Shift_Del	DEL	A	A	-																															tcattgcggatgttatgctcAattattttcaagtccattgg																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	52651383	A	-	52651383	7	5	158	1	0	1	0	1	0	0	0	0	11491	126	5	0	3255	0	PBRM1	3	52651383	Frame_Shift_Del	DEL	A	TCGA-B0-5705-01A-11D-1534-10	42459813	52651383	145371047	21	8843											
STXBP5L	9515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121137382	121137382	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgatgaccagtgcagaagCattttccaaacatgcacatg	14	9	8	10	0	0	3	0	2	0	1	1	3	1	3	2	0	4	3	2	0	2	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	121137382	C	T	121137382	3	4	158	1	0	0	0	0	1	0	0	0	15358	710	25	2	3599	2	STXBP5L	3	121137382	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	68485999	121137382	76885048	22	8844											
SH3TC1	54436	hgsc.bcm.edu;ucsc.edu	37	chr4	8218768	8218768	+	Frame_Shift_Del	DEL	G	G	-																															aaatggcccccaggccctcaGgcaggcttcgggggcacccc																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	8218768	G	-	8218768	7	5	158	1	0	1	0	1	0	0	0	0	14263	1000	35	0	735	0	SH3TC1	4	8218768	Frame_Shift_Del	DEL	G	TCGA-B0-5705-01A-11D-1534-10		8218768	182935508	23	8845											
CHRNA9	55584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	40356027	40356027	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atagccacgatggccctgatCacagcctccactgcgttgac	9	8	9	15	2	1	2	1	2	0	0	2	3	2	2	4	1	3	1	4	1	1	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	40356027	C	T	40356027	2	4	158	1	0	0	0	0	0	0	0	1	3389	816	29	2		2	CHRNA9	4	40356027	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10	32137259	40356027	150798249	24	8846											
BMP3	651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	81967318	81967318	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtatatgccaatgatgccgCcatttctgagccagaaagtg	11	10	11	9	1	1	3	0	2	1	1	1	3	1	3	4	1	3	1	4	1	4	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	81967318	C	T	81967318	3	4	158	1	0	0	0	0	1	0	0	0	1461	739	26	2	749	2	BMP3	4	81967318	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	41611291	81967318	109186958	25	8847											
CTNND2	1501	hgsc.bcm.edu;ucsc.edu	37	chr5	10988302	10988303	+	Frame_Shift_Del	DEL	TG	TG	-																															ctgccggtgcactcgtagtcTgttttcctttctttgaggct																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	10988303	TG	-	10988302	7	5	158	1	0	1	0	1	0	0	0	0	4020	1567	55	0	425	0	CTNND2	5	10988302	Frame_Shift_Del	DEL	TG	TCGA-B0-5705-01A-11D-1534-10		10988302	169926958	26	8848											
IL6ST	3572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55256363	55256363	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggacagtgaatgaagatcgGgtggatgctgtgtcttcagg	9	11	16	5	1	2	3	1	2	1	1	3	5	2	5	0	4	1	1	0	4	2	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	55256363	G	T	55256363	2	4	158	1	0	0	0	0	0	0	0	1	7703	1219	43	4		4	IL6ST	5	55256363	Silent	SNP	G	TCGA-B0-5705-01A-11D-1534-10	44268061	55256363	125658897	27	8849											
CYFIP2	26999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156753229	156753229	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacagcgcctactatgctcTgaccaagtttaaaaagcagt	13	9	8	11	2	1	1	0	1	1	0	1	2	1	1	2	0	4	3	2	0	6	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	156753229	T	C	156753229	3	2	158	1	0	0	0	0	1	0	0	0	4138	1580	55	3	2099	3	CYFIP2	5	156753229	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	101496866	156753229	24162031	28	8850											
ZNF346	23567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176471492	176471492	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actacctggggaagacccacGcaaagaacttaaagctgaag	16	5	10	10	1	0	3	0	1	0	2	0	4	0	4	2	2	3	2	2	2	7	2	rs139233067		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	176471492	G	A	176471492	3	1	158	1	0	0	0	0	1	0	0	0	17859	1087	38	1	489	1	ZNF346	5	176471492	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	19718263	176471492	4443768	29	8851											
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178555036	178555036	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagagtcctcttccaggacGttgttgtcgtcgacattcag	8	12	10	11	3	2	1	1	0	1	1	6	3	4	2	2	1	0	2	2	1	0	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	178555036	G	A	178555036	2	1	158	1	0	0	0	0	0	0	0	1	265	1136	40	1		1	ADAMTS2	5	178555036	Silent	SNP	G	TCGA-B0-5705-01A-11D-1534-10	2083544	178555036	2360224	30	8852											
ZNF318	24149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43308012	43308012	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctttttcaggggagtTcctaccctcagagagttggt	7	14	11	9	0	3	1	3	0	0	1	4	3	4	2	2	3	2	3	2	3	1	6	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	43308012	T	A	43308012	3	1	158	1	0	0	0	0	1	0	0	0	17835	1783	62	5	3119	5	ZNF318	6	43308012	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10		43308012	127807055	31	8853											
FOXO3	2309	broad.mit.edu	37	chr6	108985392	108985392	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcccatgcagaccatccaAgagaacaagccagctacctt	13	7	6	15	0	1	2	0	0	1	2	3	3	2	2	5	0	5	2	5	0	4	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	108985392	G	G	108985392	2	3	158	1	0	0	0	0	0	0	0	1	6024	69	3	3		3	FOXO3	6	108985392	Silent	SNP	A	TCGA-B0-5705-01A-11D-1534-10	65677380	108985392	62129675	32	8854											
OPRM1	4988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	154412361	154412361	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttacgtcatcattaaagcCttggttacaatcccagaaac	14	12	5	10	1	2	1	2	0	0	1	3	1	3	1	2	1	4	1	2	1	6	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	154412361	C	A	154412361	2	1	158	1	0	0	0	0	0	0	0	1	10887	668	24	4		4	OPRM1	6	154412361	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10	45426969	154412361	16702706	33	8855											
SERAC1	84947	broad.mit.edu;ucsc.edu	37	chr6	158569914	158569914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagcaaatggattccgcAgtatcttggctgatgttgcc	9	12	10	10	1	1	1	0	1	1	0	2	2	2	2	3	2	3	5	3	2	3	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	158569914	G	G	158569914	3	3	158	1	0	0	0	0	1	0	0	0	14076	188	7	3	1678	3	SERAC1	6	158569914	Missense_Mutation	SNP	A	TCGA-B0-5705-01A-11D-1534-10	4157553	158569914	12545153	34	8856											
IFRD1	3475	broad.mit.edu	37	chr7	112090771	112090771	+	Frame_Shift_Del	DEL	C	-	-																															agaacaagaagcggaacactCcccaccgcggtagcagtgct																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	112090771	-	-	112090771	7	5	158	1	0	1	0	1	0	0	0	0	7553	855	30	0	30	0	IFRD1	7	112090771	Frame_Shift_Del	DEL	C	TCGA-B0-5705-01A-11D-1534-10		112090771	47047892	35	8857											
ANKRD7	56311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117876197	117876197	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatgcttcagataattatCaaaggtataattaataaata	19	14	5	3	0	2	2	2	1	0	1	2	2	2	2	0	1	1	2	0	1	10	8	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	117876197	C	T	117876197	4	4	158	1	0	0	0	0	0	1	0	0	686	827	29	2	585	2	ANKRD7	7	117876197	Nonsense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	5785426	117876197	41262466	36	8858											
GCC1	79571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127222351	127222351	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccgatcctgcagctgaTgcacctcgacctccagcctg	7	7	10	17	2	0	1	0	1	0	0	3	3	2	1	6	0	5	4	6	0	0	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	127222351	T	C	127222351	3	2	158	1	0	0	0	0	1	0	0	0	6285	1464	51	3	286	3	GCC1	7	127222351	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	9346154	127222351	31916312	37	8859											
DPY19L4	286148	broad.mit.edu;ucsc.edu	37	chr8	95777480	95777480	+	Missense_Mutation	SNP	G	T	T																															tactacagtttgagaatccaGctttgttggtatctccttta																								rs144794373	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	95777480	T	T	95777480	3	4	158	1	0	0	0	0	1	0	0	0	4743	971	34	4	974	4	DPY19L4	8	95777480	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10		95777480	50586542	38	8860	127	2									
DPY19L4	286148	broad.mit.edu;ucsc.edu	37	chr8	95777481	95777481	+	Missense_Mutation	SNP	C	A	A																															actacagtttgagaatccagCtttgttggtatctcctttat																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	95777481	A	A	95777481	3	1	158	1	0	0	0	0	1	0	0	0	4743	797	28	4	975	4	DPY19L4	8	95777481	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	1	95777481	50586541	39	8861	127	2									
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113529433	113529433	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggggacccctgggtcaCgacacgcagtggcaacagaa	11	5	13	12	2	2	1	2	0	0	1	2	3	2	2	2	4	1	2	2	4	2	0	rs138068999		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	113529433	C	T	113529433	3	4	158	1	0	0	0	0	1	0	0	0	3946	536	19	1	6713	1	CSMD3	8	113529433	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	17751952	113529433	32834589	40	8862											
NOL6	65083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	33464888	33464888	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacttaccagtgagctcaTtattgaggttgacaaagagg	13	10	10	8	0	1	4	1	3	0	1	1	4	1	4	2	2	2	2	2	2	3	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	33464888	T	G	33464888	3	3	158	1	0	0	0	0	1	0	0	0	10525	1493	52	5	696	5	NOL6	9	33464888	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10		33464888	107748543	41	8863											
CERCAM	51148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131193563	131193563	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggctgcttcctcagccAttactccatctgggaagagg	7	10	13	11	0	2	1	1	0	1	1	4	2	4	2	3	4	3	2	3	4	2	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	131193563	A	T	131193563	3	4	158	1	0	0	0	0	1	0	0	0	3266	217	8	5	1218	5	CERCAM	9	131193563	Missense_Mutation	SNP	A	TCGA-B0-5705-01A-11D-1534-10	97728675	131193563	10019868	42	8864											
OR6T1	219874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123814182	123814182	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcagattgccaggtaacGatccagagacatgacggcca	12	6	12	11	3	0	3	0	1	0	2	2	5	1	3	3	3	2	2	3	3	1	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	123814182	G	T	123814182	3	4	158	1	0	0	0	0	1	0	0	0	11210	1058	37	4	610	4	OR6T1	11	123814182	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10		123814182	11192334	43	8865											
C12orf53	0	broad.mit.edu	37	chr12	6804739	6804739	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagccggggacaggtctgtCagtggctgctggctctcctc	4	9	14	14	1	3	0	1	0	2	0	5	1	3	1	3	5	2	3	3	5	0	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	6804739	T	T	6804739	2	4	158	1	0	0	0	0	0	0	0	1	1698	813	29	2		2	C12orf53	12	6804739	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10		6804739	127047156	44	8866											
SLCO1C1	53919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	20893281	20893281	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatccctaggtggcatacCtggatacatattacttctga	10	15	7	9	0	1	1	0	1	1	0	2	2	2	2	2	3	3	1	2	3	6	8	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	20893281	C	T	20893281	3	4	158	1	0	0	0	0	1	0	0	0	14727	681	24	2	1754	2	SLCO1C1	12	20893281	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	14088542	20893281	112958614	45	8867											
SLCO1A2	6579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21471822	21471822	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagatccagacagtgttttGgatacaaatgcacatgttat	14	13	8	6	0	0	2	0	0	0	2	1	3	1	3	1	1	2	3	1	1	4	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	21471822	G	T	21471822	2	4	158	1	0	0	0	0	0	0	0	1	14724	1335	47	4		4	SLCO1A2	12	21471822	Silent	SNP	G	TCGA-B0-5705-01A-11D-1534-10	578541	21471822	112380073	46	8868											
ADCY6	112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49167327	49167327	+	Frame_Shift_Del	DEL	T	T	-																															ccagcagaagcagcaccaaaTagatgagccccaagacaaag																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	49167327	T	-	49167327	7	5	158	1	0	1	0	1	0	0	0	0	298	1406	49	0	988	0	ADCY6	12	49167327	Frame_Shift_Del	DEL	T	TCGA-B0-5705-01A-11D-1534-10	27695505	49167327	84684568	47	8869											
CALCOCO1	57658	broad.mit.edu;ucsc.edu	37	chr12	54107576	54107576	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggggagaagcctctcgaGgcccagcaggagaggagcct	11	3	16	11	1	1	2	0	0	1	2	2	6	1	3	3	5	3	1	3	5	2	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	54107576	C	C	54107576	3	2	158	1	0	0	0	0	1	0	0	0	2577	1000	35	4	387	4	CALCOCO1	12	54107576	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	4940249	54107576	79744319	48	8870											
CKAP4	10970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	106633704	106633704	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccatgtcccactctcTggacttggctgaggtctgta	5	12	11	13	0	2	1	0	1	2	0	5	2	4	2	3	4	0	2	3	4	1	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	106633704	T	C	106633704	3	2	158	1	0	0	0	0	1	0	0	0	3444	1588	55	3	905	3	CKAP4	12	106633704	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	52526128	106633704	27218191	49	8871											
MRP63	78988	broad.mit.edu	37	chr13	21751241	21751241	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggagcaggagcgcggccaCgccgcggtgcgcaggaggga	7	1	21	12	7	0	0	0	0	0	0	0	4	0	4	2	6	3	2	2	6	0	0	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	21751241	G	G	21751241	3	3	158	1	0	0	0	0	1	0	0	0	9773	535	19	4	188	4	MRP63	13	21751241	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10		21751241	93418637	50	8872											
RNF31	55072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24617487	24617487	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggccgagatgtgctgcgAttatatggctacacagagga	10	8	16	7	2	0	2	0	0	0	2	0	5	0	3	1	4	3	2	1	4	3	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	24617487	A	G	24617487	2	3	158	1	0	0	0	0	0	0	0	1	13489	320	12	3		3	RNF31	14	24617487	Silent	SNP	A	TCGA-B0-5705-01A-11D-1534-10		24617487	82732053	51	8873											
ZFP106	64397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42743699	42743699	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagggccactgtaattccaAttatttgtactacgtacact	11	13	6	11	1	0	0	0	0	0	0	1	0	1	0	3	1	3	3	3	1	6	7	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	42743699	A	G	42743699	2	3	158	1	0	0	0	0	0	0	0	1	17636	98	4	3		3	ZFP106	15	42743699	Silent	SNP	A	TCGA-B0-5705-01A-11D-1534-10		42743699	59787693	52	8874											
ZSCAN29	146050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43661240	43661240	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggggttccactgactccTgccgaacacttaataactct	9	11	8	13	1	1	1	0	1	1	0	3	2	3	1	3	2	3	2	3	2	3	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	43661240	T	A	43661240	3	1	158	1	0	0	0	0	1	0	0	0	18235	1580	55	5	2170	5	ZSCAN29	15	43661240	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	917541	43661240	58870152	53	8875											
TRPM7	54822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50867287	50867287	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacatgctgttatttagtAtgttgggtgaactctcttcc	9	16	9	7	0	1	2	0	1	1	1	3	2	2	2	1	1	2	4	1	1	5	6	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	50867287	A	G	50867287	3	3	158	1	0	0	0	0	1	0	0	0	16590	449	16	3	840	3	TRPM7	15	50867287	Missense_Mutation	SNP	A	TCGA-B0-5705-01A-11D-1534-10	7206047	50867287	51664105	54	8876											
CLDN6	9074	broad.mit.edu;hgsc.bcm.edu	37	chr16	3065984	3065984	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcacccagcccagcagtgtCaggacgactcccaggatctg	9	7	10	15	1	3	0	2	0	1	0	4	3	4	2	3	2	2	1	3	2	0	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	3065984	C	T	3065984	2	4	158	1	0	0	0	0	0	0	0	1	3489	813	29	2		2	CLDN6	16	3065984	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10		3065984	87288769	55	8877											
ITGAD	3681	broad.mit.edu;ucsc.edu	37	chr16	31424171	31424171	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccagcggattgccagcTcccagctctcccccaggctg	5	7	11	18	1	1	0	0	0	1	0	3	1	2	1	5	3	4	3	5	3	0	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	31424171	G	G	31424171	3	3	158	1	0	0	0	0	1	0	0	0	7884	1551	54	5	1778	5	ITGAD	16	31424171	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	28358187	31424171	58930582	56	8878											
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49670777	49670777	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcacctgcaggtcagcCtccttgcggaagtcccagtt	7	9	11	14	2	1	0	1	0	0	0	3	1	3	1	4	2	4	3	4	2	1	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	49670777	C	T	49670777	2	4	158	1	0	0	0	0	0	0	0	1	17897	680	24	2		2	ZNF423	16	49670777	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10	18246606	49670777	40683976	57	8879											
CHD9	80205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53340243	53340243	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatagttttcagatgaacaaTgggacaccagagtctgctta	13	11	10	7	0	2	3	1	1	1	2	2	5	2	4	1	1	2	2	1	1	4	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	53340243	T	C	53340243	2	2	158	1	0	0	0	0	0	0	0	1	3332	1461	51	3		3	CHD9	16	53340243	Silent	SNP	T	TCGA-B0-5705-01A-11D-1534-10	3669466	53340243	37014510	58	8880											
SLC9A5	6553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67304703	67304703	+	Nonsense_Mutation	SNP	G	G	T																															ccccaacctgtgcagaaaagGagctcccctggaagagtggg																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	67304703	G	T	67304703	4	4	158	1	0	0	0	0	0	1	0	0	14719	1175	41	4	2343	4	SLC9A5	16	67304703	Nonsense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	13964460	67304703	23050050	59	8881	128	2									
SLC9A5	6553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67304704	67304704	+	Missense_Mutation	SNP	A	A	G																															cccaacctgtgcagaaaaggAgctcccctggaagagtgggc																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	67304704	A	G	67304704	3	3	158	1	0	0	0	0	1	0	0	0	14719	304	11	3	2344	3	SLC9A5	16	67304704	Missense_Mutation	SNP	A	TCGA-B0-5705-01A-11D-1534-10	1	67304704	23050049	60	8882	128	2									
ADAMTS18	170692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	77325284	77325284	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttaatattacggcatcttCgctctgggaaagttatcagc	10	14	8	9	2	4	0	1	0	3	0	5	1	4	1	0	2	2	3	0	2	5	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	77325284	C	T	77325284	3	4	158	1	0	0	0	0	1	0	0	0	263	884	31	1	396	1	ADAMTS18	16	77325284	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	10020580	77325284	13029469	61	8883											
WDR81	124997	broad.mit.edu	37	chr17	1636960	1636960	+	Frame_Shift_Del	DEL	C	-	-																															ggcaccgggcccgagtgggaCccccatggtgggggctgccc																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	1636960	-	-	1636960	7	5	158	1	0	1	0	1	0	0	0	0	17329	506	18	0	4717	0	WDR81	17	1636960	Frame_Shift_Del	DEL	C	TCGA-B0-5705-01A-11D-1534-10		1636960	79558250	62	8884											
NCOR1	9611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	16021256	16021256	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgtcgccttttatagttAaaatagaagtttttacattg	11	19	7	4	1	0	1	0	0	0	1	1	1	0	1	1	0	1	2	1	0	7	10	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	16021256	A	G	16021256	2	3	158	1	0	0	0	0	0	0	0	1	10235	359	13	3		3	NCOR1	17	16021256	Silent	SNP	A	TCGA-B0-5705-01A-11D-1534-10	14384296	16021256	65173954	63	8885											
STAT3	6774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40485988	40485988	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacaatggggtcccctttgtAggaaactttttgctgcaact	9	14	9	9	0	0	0	0	0	0	0	1	1	1	1	2	3	5	3	2	3	5	5	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	40485988	A	T	40485988	3	4	158	1	0	0	0	0	1	0	0	0	15267	420	15	5	1499	5	STAT3	17	40485988	Missense_Mutation	SNP	A	TCGA-B0-5705-01A-11D-1534-10	24464732	40485988	40709222	64	8886											
CELF4	56853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	34833813	34833813	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttgggccgcttcagctgCaccttgagcctcttcatgcc	4	13	9	15	1	4	1	2	1	2	0	4	1	4	1	4	1	4	3	4	1	0	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	34833813	C	T	34833813	2	4	158	1	0	0	0	0	0	0	0	1	3218	697	25	2		2	CELF4	18	34833813	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10		34833813	43243435	65	8887											
ZNF555	148254	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2853429	2853429	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaccctatgaatgtaagCagtgtgggaaagccttcagc	14	8	11	8	0	1	2	1	1	0	1	1	3	1	3	2	1	4	2	2	1	5	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	2853429	C	A	2853429	3	1	158	1	0	0	0	0	1	0	0	0	17985	711	25	4	1380	4	ZNF555	19	2853429	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10		2853429	56275554	66	8888											
ZNF625	90589	hgsc.bcm.edu	37	chr19	12256227	12256228	+	Frame_Shift_Del	DEL	TG	TG	-																															atccaaaggctttaccacatTgtttacattcatagggtttc																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	12256228	TG	-	12256227	7	5	158	1	0	1	0	1	0	0	0	0	18048	1812	63	0	118	0	ZNF625	19	12256227	Frame_Shift_Del	DEL	TG	TCGA-B0-5705-01A-11D-1534-10	9402798	12256227	46872756	67	8889											
ZNF790	388536	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37310789	37310789	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagattaaacactgtatgctGgttaaaagtgggcctttttt	11	16	9	5	0	0	1	0	0	0	1	0	1	0	1	1	2	2	3	1	2	6	7	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	37310789	G	C	37310789	3	2	158	1	0	0	0	0	1	0	0	0	18161	1357	47	4	1457	4	ZNF790	19	37310789	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	25054562	37310789	21818194	68	8890											
EXOSC5	56915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41895707	41895707	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taggatccagcacgagggtcCcatcagagtccagggcgcag	10	5	14	12	2	1	1	1	0	0	1	4	3	4	2	3	3	1	2	3	3	1	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	41895707	C	A	41895707	3	1	158	1	0	0	0	0	1	0	0	0	5318	623	22	4	231	4	EXOSC5	19	41895707	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	4584918	41895707	17233276	69	8891											
FTL	2512	broad.mit.edu;hgsc.bcm.edu	37	chr19	49468840	49468840	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggtcaatttgtacctgCaggcctcctacacctacctc	7	11	7	16	0	1	0	1	0	0	0	3	0	2	0	6	2	4	2	6	2	4	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	49468840	C	A	49468840	3	1	158	1	0	0	0	0	1	0	0	0	6084	711	25	4	78	4	FTL	19	49468840	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	7573133	49468840	9660143	70	8892											
RPS11	6205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50001200	50001200	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaagatgaagatgcagAggaccattgtcatccgccga	13	7	11	10	2	1	5	1	2	0	3	2	7	2	6	4	1	1	1	4	1	2	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	50001200	A	G	50001200	3	3	158	1	0	0	0	0	1	0	0	0	13623	295	11	3	264	3	RPS11	19	50001200	Missense_Mutation	SNP	A	TCGA-B0-5705-01A-11D-1534-10	532360	50001200	9127783	71	8893											
USP29	57663	hgsc.bcm.edu;ucsc.edu	37	chr19	57642738	57642738	+	Silent	SNP	C	C	A																															taagaaaagcagagaactctCggctacctagcacacaggca																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	57642738	C	A	57642738	2	1	158	1	0	0	0	0	0	0	0	1	17058	875	31	4		4	USP29	19	57642738	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10	7641538	57642738	1486245	72	8894	129	3									
USP29	57663	hgsc.bcm.edu;ucsc.edu	37	chr19	57642739	57642739	+	Missense_Mutation	SNP	G	G	T																															aagaaaagcagagaactctcGgctacctagcacacaggcag																								rs138755535	byfrequency;alternate_allele	TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	57642739	G	T	57642739	3	4	158	1	0	0	0	0	1	0	0	0	17058	1116	39	4	2698	4	USP29	19	57642739	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	1	57642739	1486244	73	8895	129	3									
USP29	57663	hgsc.bcm.edu;ucsc.edu	37	chr19	57642746	57642746	+	Silent	SNP	T	T	C																															gcagagaactctcggctaccTagcacacaggcaggggtgat																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	57642746	T	C	57642746	2	2	158	1	0	0	0	0	0	0	0	1	17058	1509	53	3		3	USP29	19	57642746	Silent	SNP	T	TCGA-B0-5705-01A-11D-1534-10	7	57642746	1486237	74	8896	129	3									
SLC27A5	10998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	59010218	59010218	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgaacgtgctggtacaacttCtccccgtcgaaagtctggcc	8	9	10	14	4	2	0	0	0	2	0	4	2	2	0	3	2	4	2	3	2	4	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		G	59010218	C	G	59010218	3	3	158	1	0	0	0	0	1	0	0	0	14531	912	32	4	250	4	SLC27A5	19	59010218	Missense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	1367472	59010218	118765	75	8897											
PLAGL2	5326	broad.mit.edu;hgsc.bcm.edu	37	chr20	30784297	30784297	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaggcagggtggtgctactCaggccagacgtgaagacagg	10	5	17	9	2	1	3	1	1	0	2	1	4	1	3	1	5	2	2	1	5	2	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	30784297	C	T	30784297	2	4	158	1	0	0	0	0	0	0	0	1	12020	813	29	2		2	PLAGL2	20	30784297	Silent	SNP	C	TCGA-B0-5705-01A-11D-1534-10		30784297	32241223	76	8898											
PFDN4	5203	broad.mit.edu;ucsc.edu	37	chr20	52835595	52835595	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgacgccttagaatccaGagtggaatcaattcagcgag	14	9	10	8	2	2	3	2	1	0	2	3	5	3	4	2	1	1	0	2	1	5	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	52835595	T	T	52835595	3	4	158	1	0	0	0	0	1	0	0	0	11757	942	33	4	325	4	PFDN4	20	52835595	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	22051298	52835595	10189925	77	8899											
RBM11	54033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	15599585	15599585	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaatgtagccaaaagttcCgaaagtctaagaagaagaaa	20	6	9	6	2	1	3	0	0	1	3	2	5	2	3	2	0	1	2	2	0	9	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	15599585	C	T	15599585	4	4	158	1	0	0	0	0	0	1	0	0	13114	644	23	1	835	1	RBM11	21	15599585	Nonsense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10		15599585	32530310	78	8900											
CXADR	1525	hgsc.bcm.edu;ucsc.edu	37	chr21	18931362	18931363	+	Frame_Shift_Del	DEL	TG	TG	-																															gaagtgactttaagataaaaTgtgaaccaaaagaaggttca																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	18931363	TG	-	18931362	7	5	158	1	0	1	0	1	0	0	0	0	4076	1464	51	0	498	0	CXADR	21	18931362	Frame_Shift_Del	DEL	TG	TCGA-B0-5705-01A-11D-1534-10	3331777	18931362	29198533	79	8901											
KRTAP22-1	337979	broad.mit.edu;ucsc.edu	37	chr21	31973474	31973474	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caactaccatggtggccaggGctatgccaaaggaggcctgg	10	6	14	11	0	0	0	0	0	0	0	0	1	0	1	4	6	3	1	4	6	4	2	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	31973474	T	T	31973474	3	4	158	1	0	0	0	0	1	0	0	0	8540	1203	42	4	37	4	KRTAP22-1	21	31973474	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	13042112	31973474	16156421	80	8902											
HSF2BP	11077	hgsc.bcm.edu;ucsc.edu	37	chr21	45053272	45053272	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagttgctgcttcgcttCattcaactgctgtcgaagag	8	12	11	10	2	2	1	2	0	0	1	4	3	2	2	0	1	4	5	0	1	2	4	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	45053272	C	A	45053272	4	1	158	1	0	0	0	0	0	1	0	0	7397	835	29	4	702	4	HSF2BP	21	45053272	Nonsense_Mutation	SNP	C	TCGA-B0-5705-01A-11D-1534-10	13079798	45053272	3076623	81	8903											
MTMR3	8897	hgsc.bcm.edu;ucsc.edu	37	chr22	30415808	30415816	+	In_Frame_Del	DEL	CCCTCTCTT	CCCTCTCTT	-																															atacaggagggtaaagaggaCcctctcttagaaaaggagag																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	CCCTCTCTT	CCCTCTCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		-	30415816	CCCTCTCTT	-	30415808	7	5	158	1	0	1	0	1	0	0	0	0	9945	506	18	0	2218	0	MTMR3	22	30415808	In_Frame_Del	DEL	CCCTCTCTT	TCGA-B0-5705-01A-11D-1534-10		30415808	20888758	82	8904											
CHKB	1120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	51018844	51018844	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtagactctagtaactTcctacaggggtatgggagca	10	10	14	7	0	1	1	0	0	1	1	2	2	2	2	1	5	3	4	1	5	5	6	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		C	51018844	T	C	51018844	3	2	158	1	0	0	0	0	1	0	0	0	3348	1797	62	3	532	3	CHKB	22	51018844	Missense_Mutation	SNP	T	TCGA-B0-5705-01A-11D-1534-10	20603036	51018844	285722	83	8905											
FIGF	2277	broad.mit.edu	37	chrX	15402300	15402301	+	Translation_Start_Site	INS	-	CTCATG	CTCATG																															atgaaaaaaatcaaaatgttINSctccaaaaataatcagaagg																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		CTCATG	15402301	CTCATG	CTCATG	15402300	6	5	158	1	0	1	1	0	0	0	0	0	5889	1798	62	0		0	FIGF	23	15402300	Translation_Start_Site	INS	-	TCGA-B0-5705-01A-11D-1534-10		15402300	139868260	84	8906											
PRPS1	5631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	106885678	106885678	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagaatatctctgagtggaGgaactgcactattgtctcac	11	11	11	8	0	2	2	1	1	2	1	4	5	2	4	0	3	2	1	0	3	4	3	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		A	106885678	G	A	106885678	3	1	158	1	0	0	0	0	1	0	0	0	12580	1000	35	2	502	2	PRPS1	23	106885678	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	91483378	106885678	48384882	85	8907											
BCORL1	63035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129147106	129147106	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccctgagcagcccaggaGacgggctcaagcttcccgca	8	5	12	16	2	1	2	1	1	0	1	2	3	2	2	4	2	4	4	4	2	1	1	novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	129147106	G	T	129147106	3	4	158	1	0	0	0	0	1	0	0	0	1387	942	33	4	368	4	BCORL1	23	129147106	Missense_Mutation	SNP	G	TCGA-B0-5705-01A-11D-1534-10	22261428	129147106	26123454	86	8908											
GABRE	2564	hgsc.bcm.edu;ucsc.edu	37	chrX	151128394	151128395	+	Frame_Shift_Ins	INS	-	-	T																															ccaggagttcttctcattgaINStttcaagcttgaaattttcc																								novel		TCGA-B0-5705-01A-11D-1534-10	TCGA-B0-5705-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3095df5-5466-4b98-9f6d-f8ae8916ccca	2dd91fc7-6495-4981-97ca-d695f190215c		T	151128395	-	T	151128394	7	5	158	1	0	1	1	0	0	0	0	0	6170	333	12	0	835	0	GABRE	23	151128394	Frame_Shift_Ins	INS	-	TCGA-B0-5705-01A-11D-1534-10	21981288	151128394	4142166	87	8909											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16256538	16256538	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcccagtgtccgacatggttCcttccatgaagatgaggatc	9	11	10	11	1	0	3	0	2	0	1	5	5	4	4	4	2	0	1	4	2	1	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	16256538	C	T	16256538	3	4	159	1	0	0	0	0	1	0	0	0	15039	855	30	2	3845	2	SPEN	1	16256538	Missense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10		16256538	232994083	1	8910											
MAP3K6	9064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27684801	27684801	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaaggagtgggactggcaGaaggggcatctgagggaggg	10	5	21	5	0	1	3	0	2	1	1	1	6	1	6	0	7	0	2	0	7	2	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	27684801	G	A	27684801	3	1	159	1	0	0	0	0	1	0	0	0	9254	942	33	2	1116	2	MAP3K6	1	27684801	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	11428263	27684801	221565820	2	8911											
ZYG11B	79699	hgsc.bcm.edu;ucsc.edu	37	chr1	53250580	53250580	+	Frame_Shift_Del	DEL	T	T	-																															tgggatgagaaaccaccctaTgaatttgccagtgcaactgg																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		-	53250580	T	-	53250580	7	5	159	1	0	1	0	1	0	0	0	0	18252	1464	51	0	1142	0	ZYG11B	1	53250580	Frame_Shift_Del	DEL	T	TCGA-B0-5706-01A-11D-1534-10	25565779	53250580	196000041	3	8912											
DNAJC6	9829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	65831861	65831861	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctaagtcttatcgaacTgccaagtttcacagccgggt	10	11	8	12	2	3	0	2	0	1	0	4	1	3	0	3	1	3	1	3	1	4	3	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	65831861	T	C	65831861	2	2	159	1	0	0	0	0	0	0	0	1	4653	1567	55	3		3	DNAJC6	1	65831861	Silent	SNP	T	TCGA-B0-5706-01A-11D-1534-10	12581281	65831861	183418760	4	8913											
ST6GALNAC5	81849	broad.mit.edu;hgsc.bcm.edu	37	chr1	77510087	77510087	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcatccagaggatcctcCgcaaccgccatgacctgctc	9	6	8	18	2	0	2	0	1	0	1	4	3	3	3	7	1	3	3	7	1	1	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	77510087	C	T	77510087	3	4	159	1	0	0	0	0	1	0	0	0	15228	652	23	1	470	1	ST6GALNAC5	1	77510087	Missense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10	11678226	77510087	171740534	5	8914											
RPF1	80135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	84945169	84945169	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgacacttaatgttcacgCggtggaaacagcagcagcgg	11	6	14	10	4	1	0	1	0	0	0	1	2	1	1	0	4	4	3	0	4	2	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	84945169	C	A	84945169	2	1	159	1	0	0	0	0	0	0	0	1	13548	759	27	4		4	RPF1	1	84945169	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	7435082	84945169	164305452	6	8915											
IGSF3	3321	broad.mit.edu	37	chr1	117131468	117131468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacggtgaggctgaacaggCcccccgacacatgcctctca	9	5	12	15	2	1	2	1	2	1	0	2	4	1	3	4	4	2	1	4	4	1	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	117131468	T	T	117131468	3	4	159	1	0	0	0	0	1	0	0	0	7601	739	26	2	1312	2	IGSF3	1	117131468	Missense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10	32186299	117131468	132119153	7	8916											
NBPF10	100132406	broad.mit.edu	37	chr1	146420167	146420167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtattggagcaacagcgtGttggcttggctgttgacatg	8	12	14	7	2	0	1	0	1	0	0	0	2	0	2	0	3	3	6	0	3	2	5	rs61812001		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	146420167	A	A	146420167	3	1	159	1	0	0	0	0	1	0	0	0	10193	1392	48	2		2	NBPF10	1	146420167	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	29288699	146420167	102830454	8	8917											
FLG	2312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152282336	152282336	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgtctttctcctggacTtgaccttgcctgttcctggg	3	16	9	13	0	2	1	0	1	2	0	5	2	4	2	5	2	1	1	5	2	0	4	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	152282336	T	A	152282336	3	1	159	1	0	0	0	0	1	0	0	0	5922	1609	56	5	7163	5	FLG	1	152282336	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10	5862169	152282336	96968285	9	8918											
BCAN	63827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156628842	156628842	+	Silent	SNP	G	G	A																															cgagctctgcacccagaggaGgacccagaaggacgtcaggg																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	156628842	G	A	156628842	2	1	159	1	0	0	0	0	0	0	0	1	1345	991	35	2		2	BCAN	1	156628842	Silent	SNP	G	TCGA-B0-5706-01A-11D-1534-10	4346506	156628842	92621779	10	8919	130	2									
BCAN	63827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156628843	156628843	+	Missense_Mutation	SNP	G	G	C																															gagctctgcacccagaggagGacccagaaggacgtcagggg																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	156628843	G	C	156628843	3	2	159	1	0	0	0	0	1	0	0	0	1345	1174	41	4	2777	4	BCAN	1	156628843	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	1	156628843	92621778	11	8920	130	2									
XYLB	9942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38390050	38390050	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcctttcaggtaaaggttGttgctgttgatgcagagttg	8	15	13	5	0	1	2	1	1	0	1	1	2	1	2	1	2	3	7	1	2	2	6	rs146884889	alternate_allele	TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	38390050	G	T	38390050	3	4	159	1	0	0	0	0	1	0	0	0	17461	1377	48	4	73	4	XYLB	3	38390050	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10		38390050	159632380	12	8921											
PROS1	5627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	93624946	93624946	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgcagctcatatatcCatcttcattgcatggcagag	10	14	7	10	0	4	1	2	0	2	1	5	1	5	1	1	1	3	4	1	1	2	5	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	93624946	C	A	93624946	4	1	159	1	0	0	0	0	0	1	0	0	12560	603	21	4	1686	4	PROS1	3	93624946	Nonsense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10	55234896	93624946	104397484	13	8922											
EPHA5	2044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	66467834	66467834	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttaaaggtttccttacaggtCcccagtcctccaggaaggct	9	11	9	12	0	0	0	0	0	0	0	4	1	4	1	5	4	1	2	5	4	4	3	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	66467834	C	G	66467834	2	3	159	1	0	0	0	0	0	0	0	1	5170	842	30	4		4	EPHA5	4	66467834	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10		66467834	124686442	14	8923											
UGT2B7	7364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	69972925	69972925	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgatgggaataaaccagaTaccttaggtctcaatactcg	13	12	8	8	1	1	2	1	1	1	1	3	3	1	3	2	2	3	0	2	2	7	5	rs147582860	byfrequency;alternate_allele	TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	69972925	T	C	69972925	2	2	159	1	0	0	0	0	0	0	0	1	16961	1403	49	3		3	UGT2B7	4	69972925	Silent	SNP	T	TCGA-B0-5706-01A-11D-1534-10	3505091	69972925	121181351	15	8924											
C4orf29	80167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	128905554	128905554	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccagaatctggtttcaagCgattatccagtacacattga	12	12	8	9	1	2	2	1	1	1	1	3	3	3	2	2	1	3	2	2	1	4	4	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	128905554	C	T	128905554	2	4	159	1	0	0	0	0	0	0	0	1	2259	767	27	1		1	C4orf29	4	128905554	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	58932629	128905554	62248722	16	8925											
DCHS2	54798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	155219151	155219151	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttttaactgcagccagatAgggaagtattctgaagatgg	13	11	11	6	0	1	3	0	1	1	2	1	4	1	4	1	2	3	2	1	2	5	5	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	155219151	A	T	155219151	2	4	159	1	0	0	0	0	0	0	0	1	4288	407	15	5		5	DCHS2	4	155219151	Silent	SNP	A	TCGA-B0-5706-01A-11D-1534-10	26313597	155219151	35935125	17	8926											
RAI14	26064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	34823798	34823798	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaagacacactaaaaagTcagatgacacaggaagccag	20	5	8	8	0	1	3	1	1	0	2	1	4	1	4	1	1	1	0	1	1	6	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	34823798	T	G	34823798	3	3	159	1	0	0	0	0	1	0	0	0	13010	1664	58	5	1970	5	RAI14	5	34823798	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10		34823798	146091462	18	8927											
MAST4	375449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66459285	66459285	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccaccatcgtcagacaCatcgtgaggcccaagagtgc	10	5	10	16	3	1	3	1	1	0	2	3	3	1	3	4	1	1	0	4	1	1	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	66459285	C	T	66459285	2	4	159	1	0	0	0	0	0	0	0	1	9327	477	17	2		2	MAST4	5	66459285	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	31635487	66459285	114455975	19	8928											
MEGF10	84466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	126776499	126776499	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcaaaacggagctgactgcGaccacatttctgggcagtgt	10	9	12	10	2	2	1	1	1	1	0	2	3	2	2	1	2	3	2	1	2	2	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	126776499	G	A	126776499	3	1	159	1	0	0	0	0	1	0	0	0	9460	1058	37	1	2368	1	MEGF10	5	126776499	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	60317214	126776499	54138761	20	8929											
SLC36A1	206358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150843145	150843145	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatccacctgttaaaaGgcaacattggcacaggactc	12	9	8	12	0	0	1	0	1	0	0	2	2	1	2	3	3	1	3	3	3	3	3	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	150843145	G	T	150843145	3	4	159	1	0	0	0	0	1	0	0	0	14595	1000	35	4	181	4	SLC36A1	5	150843145	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	24066646	150843145	30072115	21	8930											
SYCP2L	221711	broad.mit.edu;ucsc.edu	37	chr6	10911079	10911079	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtattcatttccgtgtattGctgcttttgctgatgagcat	6	19	9	7	1	1	2	1	2	0	0	2	2	2	2	1	0	4	6	1	0	2	7	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	10911079	T	T	10911079	3	4	159	1	0	0	0	0	1	0	0	0	15432	1319	46	4	941	4	SYCP2L	6	10911079	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10		10911079	160203988	22	8931											
BTN3A1	11119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	26413447	26413447	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accccatcctccttgtttctGaggaccagaggagtgtgcag	8	10	11	12	0	1	2	0	1	1	1	3	4	3	4	5	2	1	2	5	2	0	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	26413447	G	A	26413447	3	1	159	1	0	0	0	0	1	0	0	0	1562	1291	45	2	1271	2	BTN3A1	6	26413447	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	15502368	26413447	144701620	23	8932											
CASP8AP2	9994	hgsc.bcm.edu;ucsc.edu	37	chr6	90573431	90573432	+	Frame_Shift_Del	DEL	TG	TG	-																															taggtctgttgacaatactaTgcattgtgaagagcccattt																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		-	90573432	TG	-	90573431	7	5	159	1	0	1	0	1	0	0	0	0	2678	1464	51	0	2025	0	CASP8AP2	6	90573431	Frame_Shift_Del	DEL	TG	TCGA-B0-5706-01A-11D-1534-10	64159984	90573431	80541636	24	8933											
TMEM200A	114801	broad.mit.edu;hgsc.bcm.edu	37	chr6	130761752	130761752	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggctttattccccatctgGtttttttcttattttaggag	5	20	7	9	1	2	0	0	0	2	0	3	1	3	1	3	3	0	2	3	3	3	9	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	130761752	G	C	130761752	3	2	159	1	0	0	0	0	1	0	0	0	16122	1261	44	4	187	4	TMEM200A	6	130761752	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	40188321	130761752	40353315	25	8934											
GPR126	57211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	142741085	142741085	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgggaggaatggcaagagaAgcaaccggaccctgagagaa	15	3	16	7	1	0	3	0	1	0	2	0	8	0	6	2	4	2	2	2	4	5	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	142741085	A	T	142741085	3	4	159	1	0	0	0	0	1	0	0	0	6640	72	3	5	3249	5	GPR126	6	142741085	Missense_Mutation	SNP	A	TCGA-B0-5706-01A-11D-1534-10	11979333	142741085	28373982	26	8935											
FAM126A	84668	hgsc.bcm.edu;ucsc.edu	37	chr7	23000857	23000858	+	Frame_Shift_Del	DEL	CA	CA	-																															ataagtcaggcacctaccagCaatggctctggatataattc																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		-	23000858	CA	-	23000857	7	5	159	1	0	1	0	1	0	0	0	0	5429	709	25	0	749	0	FAM126A	7	23000857	Frame_Shift_Del	DEL	CA	TCGA-B0-5706-01A-11D-1534-10		23000857	136137806	27	8936											
ABCB8	11194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150731895	150731895	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaggagtttaagtcatcCttcaagcttgtcatctccca	9	13	8	11	0	4	0	3	0	1	0	6	1	5	1	2	1	2	3	2	1	2	4	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	150731895	C	T	150731895	2	4	159	1	0	0	0	0	0	0	0	1	47	668	24	2		2	ABCB8	7	150731895	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	127731038	150731895	8406768	28	8937											
CRISPLD1	83690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	75937789	75937789	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttttttcagagtatactGtcctcgtaactgtatgcaag	10	17	7	7	1	1	1	1	0	0	1	3	1	2	1	1	0	3	4	1	0	6	8	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	75937789	G	C	75937789	3	2	159	1	0	0	0	0	1	0	0	0	3882	1377	48	4	1299	4	CRISPLD1	8	75937789	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10		75937789	70426233	29	8938											
ZFAND5	7763	broad.mit.edu;ucsc.edu	37	chr9	74971943	74971943	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actctgagaagtactgggctGagaaactgatggactgggct	11	9	14	7	0	1	3	0	3	1	2	1	6	1	4	0	3	2	3	0	3	3	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	74971943	A	A	74971943	4	1	159	1	0	0	0	0	0	1	0	0	17629	1299	45	2	252	2	ZFAND5	9	74971943	Nonsense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10		74971943	66241488	30	8939											
NANS	54187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100843297	100843297	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggtgcggtcagtgcgtcTtgtggagcgtgccctgggct	2	11	18	10	3	2	0	1	0	1	0	2	1	2	1	1	4	4	2	1	4	0	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	100843297	T	C	100843297	3	2	159	1	0	0	0	0	1	0	0	0	10155	1609	56	3	821	3	NANS	9	100843297	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10	25871354	100843297	40370134	31	8940											
ZBTB6	10773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125674096	125674096	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctccagtatagcaagacaGtaacaattttctgccaactt	13	12	6	10	0	1	1	0	0	1	1	2	1	2	1	2	0	5	4	2	0	6	6	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	125674096	G	T	125674096	3	4	159	1	0	0	0	0	1	0	0	0	17551	1020	36	4	1022	4	ZBTB6	9	125674096	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	24830799	125674096	15539335	32	8941											
PMPCA	23203	broad.mit.edu	37	chr9	139305134	139305134	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaagatggcggctgtggTgctggcggcgacgcggttgc	5	7	19	10	6	0	1	0	0	0	1	0	2	0	1	0	6	2	4	0	6	1	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	139305134	C	C	139305134	3	2	159	1	0	0	0	0	1	0	0	0	12140	1696	59	3	16	3	PMPCA	9	139305134	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10	13631038	139305134	1908297	33	8942											
PARD3	56288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	34626340	34626340	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaagaactggatcaacaTctggactcaaagagctggag	16	6	11	8	0	3	2	2	0	1	2	3	5	3	5	0	3	4	2	0	3	5	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	34626340	T	G	34626340	3	3	159	1	0	0	0	0	1	0	0	0	11443	1435	50	5	1709	5	PARD3	10	34626340	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10		34626340	100908407	34	8943											
GRID1	2894	broad.mit.edu;hgsc.bcm.edu	37	chr10	87966375	87966375	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccagtggacgtgaccaagGccaaaatcccctgggtcatg	11	6	12	12	1	1	1	1	1	0	0	2	2	2	2	5	3	1	0	5	3	3	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	87966375	G	A	87966375	3	1	159	1	0	0	0	0	1	0	0	0	6771	1203	42	2	2819	2	GRID1	10	87966375	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	53340035	87966375	47568372	35	8944											
TUBGCP2	10844	broad.mit.edu	37	chr10	135106637	135106637	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcctgtgcagctgctcCagctgtgacaccagaatcag	8	8	10	15	0	1	2	1	1	0	1	2	2	2	2	4	0	5	4	4	0	1	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	135106637	T	T	135106637	2	4	159	1	0	0	0	0	0	0	0	1	16765	581	21	2		2	TUBGCP2	10	135106637	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	47140262	135106637	428110	36	8945											
EHF	26298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	34670585	34670585	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagtgcagtagtgacctGttccagtccacacacaatgt	10	9	10	12	0	0	1	0	1	0	0	2	1	2	1	4	1	1	3	4	1	2	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	34670585	G	C	34670585	2	2	159	1	0	0	0	0	0	0	0	1	4981	1364	48	4		4	EHF	11	34670585	Silent	SNP	G	TCGA-B0-5706-01A-11D-1534-10		34670585	100335931	37	8946											
PCNXL3	399909	broad.mit.edu;ucsc.edu	37	chr11	65391403	65391403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccctgtctcttccagagcGtgcagcctgatgcggcgtcc	5	9	12	15	3	1	2	0	1	1	1	4	2	3	2	4	1	5	1	4	1	0	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	65391403	A	A	65391403	3	1	159	1	0	0	0	0	1	0	0	0	11593	1145	40	1	2565	1	PCNXL3	11	65391403	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	30720818	65391403	69615113	38	8947											
OPCML	4978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	132527098	132527098	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgatgctgtactgggttGgtgtattgaccaggatgatc	8	14	13	6	0	1	3	1	3	0	0	2	4	1	4	1	3	2	4	1	3	2	4	rs137852691	alternate_allele	TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	132527098	G	A	132527098	3	1	159	1	0	0	0	0	1	0	0	0	10874	1348	47	2	777	2	OPCML	11	132527098	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	67135695	132527098	2479418	39	8948											
LRP6	4040	hgsc.bcm.edu;ucsc.edu	37	chr12	12315207	12315207	+	Frame_Shift_Del	DEL	C	C	-																															tgtcggtgctgcccatccaaCtttgacacctcaattcgatt																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		-	12315207	C	-	12315207	7	5	159	1	0	1	0	1	0	0	0	0	8962	564	20	0	2698	0	LRP6	12	12315207	Frame_Shift_Del	DEL	C	TCGA-B0-5706-01A-11D-1534-10		12315207	121536688	40	8949											
GXYLT1	283464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	42503369	42503369	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actaggggaaaaaacttaccGgcaagaacaatctctgcgaa	17	6	9	9	2	1	1	0	0	1	1	2	3	1	2	1	3	4	1	1	3	9	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	42503369	G	A	42503369	3	1	159	1	0	0	0	0	1	0	0	0	6903	1130	39	1	731	1	GXYLT1	12	42503369	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	30188162	42503369	91348526	41	8950											
LETMD1	25875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51449626	51449626	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcctttcaggtacctgtTtcccaggcaactactgatca	8	14	6	13	0	3	1	2	1	1	0	5	1	4	1	3	2	3	3	3	2	3	5	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	51449626	T	G	51449626	3	3	159	1	0	0	0	0	1	0	0	0	8736	1841	64	5	500	5	LETMD1	12	51449626	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10	8946257	51449626	82402269	42	8951											
NAV3	89795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	78516003	78516003	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcacatcaggtggtctcGtgtgggctgccaatatgagc	7	12	12	10	1	3	1	2	1	1	0	4	1	3	1	1	3	2	1	1	3	2	2	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	78516003	G	A	78516003	3	1	159	1	0	0	0	0	1	0	0	0	10185	1145	40	1	4095	1	NAV3	12	78516003	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	27066377	78516003	55335892	43	8952											
KIAA1033	23325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	105536914	105536914	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttcttagtacatgttcAgtgctttgcgcgactgtgta	6	18	9	8	2	3	0	1	0	2	0	3	1	3	0	0	0	3	4	0	0	3	7	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	105536914	A	G	105536914	3	3	159	1	0	0	0	0	1	0	0	0	8206	188	7	3	1981	3	KIAA1033	12	105536914	Missense_Mutation	SNP	A	TCGA-B0-5706-01A-11D-1534-10	27020911	105536914	28314981	44	8953											
SSH1	54434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109182653	109182653	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagaattcttcaaaaggaggGactttggcaggacttttggg	11	11	14	5	0	2	1	1	0	1	1	2	5	2	4	0	5	0	1	0	5	3	5	rs151176410	byfrequency	TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	109182653	G	A	109182653	3	1	159	1	0	0	0	0	1	0	0	0	15185	1174	41	2	892	2	SSH1	12	109182653	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	3645739	109182653	24669242	45	8954											
MYO16	23026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	109859148	109859148	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggaaggggcctcctgcaaCaggctgccgtctgagctctg	6	7	14	14	2	2	1	0	1	2	0	3	2	3	2	4	4	4	3	4	4	2	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	109859148	C	A	109859148	3	1	159	1	0	0	0	0	1	0	0	0	10064	477	17	4	5675	4	MYO16	13	109859148	Missense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10		109859148	5310730	46	8955											
SERPINA3	12	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	95081158	95081158	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacctcctgcgcaccctcaAtcagtccagcgatgagctgc	8	7	9	17	2	2	1	2	1	0	0	4	2	4	1	4	0	4	3	4	0	1	0	rs145819878		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	95081158	A	G	95081158	3	3	159	1	0	0	0	0	1	0	0	0	14092	101	4	3	382	3	SERPINA3	14	95081158	Missense_Mutation	SNP	A	TCGA-B0-5706-01A-11D-1534-10		95081158	12268382	47	8956											
C15orf55	256646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34640772	34640772	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtgaccgctccaaaattTccaaggacgtttatgagaac	13	10	9	9	2	0	2	0	2	0	1	2	4	2	3	3	2	1	2	3	2	6	4	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	34640772	T	A	34640772	3	1	159	1	0	0	0	0	1	0	0	0	1803	1783	62	5	625	5	C15orf55	15	34640772	Missense_Mutation	SNP	T	TCGA-B0-5706-01A-11D-1534-10		34640772	67890620	48	8957											
POLG	5428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89864148	89864148	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttgaagattttggcatgctCacggctgatgcccacagtag	9	11	12	9	1	1	3	1	2	0	1	1	3	1	3	1	2	2	5	1	2	2	4	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	89864148	C	G	89864148	3	3	159	1	0	0	0	0	1	0	0	0	12200	835	29	4	913	4	POLG	15	89864148	Missense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10	55223376	89864148	12667244	49	8958											
CREBBP	1387	broad.mit.edu;ucsc.edu	37	chr16	3860701	3860701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctaactgggggttcActccagtggctcccattggc	5	11	13	12	0	1	0	1	0	0	0	3	0	3	0	2	5	2	4	2	5	1	3	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		G	3860701	G	G	3860701	3	3	159	1	0	0	0	0	1	0	0	0	3861	159	6	3	6566	3	CREBBP	16	3860701	Missense_Mutation	SNP	A	TCGA-B0-5706-01A-11D-1534-10		3860701	86494052	50	8959											
CDK12	51755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37681093	37681093	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagcagcccagcaccacctCagcctgctcctggcaaggtg	9	5	10	17	0	1	0	1	0	0	0	2	0	2	0	5	2	5	4	5	2	1	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	37681093	C	T	37681093	4	4	159	1	0	0	0	0	0	1	0	0	3128	827	29	2	3308	2	CDK12	17	37681093	Nonsense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10		37681093	43514117	51	8960											
KRT13	3860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39659631	39659631	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacagagtgagctcatccaGcacccggcgcaggccgttga	10	5	13	13	3	1	4	1	2	0	2	2	4	2	4	3	2	2	4	3	2	0	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		C	39659631	G	C	39659631	3	2	159	1	0	0	0	0	1	0	0	0	8450	962	34	4	757	4	KRT13	17	39659631	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	1978538	39659631	41535579	52	8961											
LSM12	124801	broad.mit.edu;hgsc.bcm.edu	37	chr17	42141197	42141197	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgagtgaagctaggggaGgaggggtttctgttcggtca	8	11	17	5	1	2	2	1	2	1	0	3	4	2	4	0	6	1	3	0	6	2	4	rs17854322	alternate_allele	TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	42141197	G	T	42141197	3	4	159	1	0	0	0	0	1	0	0	0	9053	1000	35	4	373	4	LSM12	17	42141197	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10	2481566	42141197	39054013	53	8962											
ASPSCR1	79058	broad.mit.edu;hgsc.bcm.edu	37	chr17	79941541	79941541	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgtgaggggcctgagaaCatggtgggtcgtgctctggg	6	8	19	8	2	1	2	0	2	1	1	2	3	1	2	2	5	3	1	2	5	1	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	79941541	C	T	79941541	2	4	159	1	0	0	0	0	0	0	0	1	1059	477	17	2		2	ASPSCR1	17	79941541	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	37800344	79941541	1253669	54	8963											
ANKRD12	23253	hgsc.bcm.edu;ucsc.edu	37	chr18	9254423	9254423	+	Frame_Shift_Del	DEL	A	A	-																															attcttaggaaagaacaacgAaaagaaaatgaacctgaagc																								novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		-	9254423	A	-	9254423	7	5	159	1	0	1	0	1	0	0	0	0	640	233	9	0	1188	0	ANKRD12	18	9254423	Frame_Shift_Del	DEL	A	TCGA-B0-5706-01A-11D-1534-10		9254423	68822825	55	8964											
HAUS1	115106	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	43700027	43700027	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagaaaaatgtctacaagaGtaagtaattgagttcagagt	17	12	9	3	0	2	4	1	1	1	3	2	4	2	4	0	0	1	3	0	0	7	6	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	43700027	G	A	43700027	5	1	159	1	0	0	0	0	0	0	1	0	6965	1043	36	2	491	2	HAUS1	18	43700027	Splice_Site	SNP	G	TCGA-B0-5706-01A-11D-1534-10	34445604	43700027	34377221	56	8965											
MEGF8	1954	broad.mit.edu	37	chr19	42860310	42860310	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctggatggcgggcagctgGtctgggagaccctcatggac	7	7	17	10	1	2	1	1	0	1	1	2	4	2	3	1	6	2	3	1	6	0	0	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	42860310	T	T	42860310	3	4	159	1	0	0	0	0	1	0	0	0	9463	1261	44	4	4361	4	MEGF8	19	42860310	Missense_Mutation	SNP	G	TCGA-B0-5706-01A-11D-1534-10		42860310	16268673	57	8966											
SHANK1	50944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51219979	51219979	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgctgaagtgggcgtcGtctgggacggacattgagcg	8	9	16	8	4	2	2	1	2	1	0	3	4	2	4	0	3	2	1	0	3	1	1	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		A	51219979	G	A	51219979	2	1	159	1	0	0	0	0	0	0	0	1	14266	1136	40	1		1	SHANK1	19	51219979	Silent	SNP	G	TCGA-B0-5706-01A-11D-1534-10	8359669	51219979	7909004	58	8967											
MYADM	91663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54377173	54377173	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtccagttcctgtcccaCggccgttcgcgggaccacgc	5	9	11	16	5	0	0	0	0	0	0	4	1	3	1	5	2	0	2	5	2	1	3	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	54377173	C	T	54377173	2	4	159	1	0	0	0	0	0	0	0	1	10006	535	19	1		1	MYADM	19	54377173	Silent	SNP	C	TCGA-B0-5706-01A-11D-1534-10	3157194	54377173	4751810	59	8968											
HCFC1	3054	broad.mit.edu;ucsc.edu	37	chrX	153215018	153215018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttacatttctggagaggaCatgggccgcttgttggctgg	6	12	15	8	1	1	1	0	0	1	1	1	3	1	2	1	5	1	4	1	5	1	4	novel		TCGA-B0-5706-01A-11D-1534-10	TCGA-B0-5706-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b60cf910-2d2e-483a-a9de-ce1e5f8d3825	78238d1e-1395-4c40-a240-416fafd642b6		T	153215018	T	T	153215018	3	4	159	1	0	0	0	0	1	0	0	0	6991	478	17	2	61	2	HCFC1	23	153215018	Missense_Mutation	SNP	C	TCGA-B0-5706-01A-11D-1534-10		153215018	2055542	60	8969											
HDAC1	3065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32782361	32782361	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtccagataacatgtcggaGtacagcaagcagatgcagag	14	6	12	9	2	0	3	0	0	0	3	2	4	1	4	1	1	5	4	1	1	3	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	32782361	G	C	32782361	3	2	160	1	0	0	0	0	1	0	0	0	7004	1020	36	4	268	4	HDAC1	1	32782361	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10		32782361	216468260	1	8970											
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62228715	62228715	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctgcaggtacttgatcGcctgaaaatgaaattgcagg	11	10	13	7	1	0	3	0	3	0	0	1	3	0	3	1	3	4	4	1	3	4	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	62228715	G	A	62228715	3	1	160	1	0	0	0	0	1	0	0	0	7731	1087	38	1	59	1	INADL	1	62228715	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10	29446354	62228715	187021906	2	8971											
BAT2L2	0	broad.mit.edu	37	chr1	171526993	171526993	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctcagcttcagccccAgccccagcccctaccccagt	6	6	6	23	0	2	0	2	0	0	0	2	0	2	0	10	0	6	1	10	0	1	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	171526993	C	C	171526993	2	2	160	1	0	0	0	0	0	0	0	1	1321	175	7	5		5	BAT2L2	1	171526993	Silent	SNP	A	TCGA-B0-5707-01A-11D-1534-10	109298278	171526993	77723628	3	8972											
CENPF	1063	broad.mit.edu;ucsc.edu	37	chr1	214830403	214830403	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccttgcttataagccaTgaaaagttagagaaagctaa	15	12	8	6	0	0	2	0	1	0	1	1	3	1	2	2	0	3	4	2	0	7	6	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	214830403	C	C	214830403	2	2	160	1	0	0	0	0	0	0	0	1	3231	1461	51	3		3	CENPF	1	214830403	Silent	SNP	T	TCGA-B0-5707-01A-11D-1534-10	43303410	214830403	34420218	4	8973											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237796991	237796991	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctcagttatttactggaAaacagcagtgttggtcttgg	10	14	10	7	0	2	0	1	0	2	0	3	1	2	1	0	3	3	3	0	3	4	5	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	237796991	A	G	237796991	2	3	160	1	0	0	0	0	0	0	0	1	13771	11	1	3		3	RYR2	1	237796991	Silent	SNP	A	TCGA-B0-5707-01A-11D-1534-10	22966588	237796991	11453630	5	8974											
DDX18	8886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	118583851	118583851	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctccaccaaaggaatatAttcatcgtgtgggtagaaca	13	12	8	8	1	2	1	1	0	1	1	4	2	2	2	2	2	1	1	2	2	6	5	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	118583851	A	G	118583851	3	3	160	1	0	0	0	0	1	0	0	0	4345	449	16	3	1570	3	DDX18	2	118583851	Missense_Mutation	SNP	A	TCGA-B0-5707-01A-11D-1534-10		118583851	124615522	6	8975											
CDK15	65061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202687539	202687539	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaatttttctagcttctctCctgaagggtttgaaacatgc	9	17	7	8	0	2	2	0	2	2	0	4	2	3	2	1	1	3	2	1	1	4	6	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	202687539	C	T	202687539	2	4	160	1	0	0	0	0	0	0	0	1	3131	842	30	2		2	CDK15	2	202687539	Silent	SNP	C	TCGA-B0-5707-01A-11D-1534-10	84103688	202687539	40511834	7	8976											
CLDN18	51208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	137717737	137717737	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgactgcctgtcagggcttGgggttcgtggtttcactgat	4	14	15	8	1	2	2	2	2	0	0	3	2	2	2	1	4	1	3	1	4	0	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	137717737	G	T	137717737	3	4	160	1	0	0	0	0	1	0	0	0	3479	1339	47	4	29	4	CLDN18	3	137717737	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10		137717737	60304693	8	8977											
ZBBX	79740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167000259	167000259	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaaagtggaaaatttgctGttgaaggtctctgtgatttc	10	15	12	4	0	1	2	0	2	1	0	3	4	1	4	0	3	1	2	0	3	4	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	167000259	G	C	167000259	3	2	160	1	0	0	0	0	1	0	0	0	17515	1377	48	4	510	4	ZBBX	3	167000259	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10	29282522	167000259	31022171	9	8978											
PIGZ	80235	hgsc.bcm.edu	37	chr3	196674755	196674755	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgacttgcagccgttgcCacgcagcctgcagggcctgg	5	6	15	15	3	0	0	0	0	0	0	0	1	0	0	5	3	5	4	5	3	0	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	196674755	C	T	196674755	4	4	160	1	0	0	0	0	0	1	0	0	11905	595	21	2	730	2	PIGZ	3	196674755	Nonsense_Mutation	SNP	C	TCGA-B0-5707-01A-11D-1534-10	29674496	196674755	1347675	10	8979											
LRBA	987	broad.mit.edu	37	chr4	151604748	151604748	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcttgtctgtgagaatgTtgataattttctggattagt	9	18	10	4	0	2	2	0	2	2	1	2	4	2	3	0	1	1	2	0	1	3	6	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	151604748	C	C	151604748	3	2	160	1	0	0	0	0	1	0	0	0	8931	1725	60	3	2803	3	LRBA	4	151604748	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10		151604748	39549528	11	8980											
DHX29	54505	broad.mit.edu;ucsc.edu	37	chr5	54579287	54579287	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaaatacaggtagctgtTgtctttcctttagaagtttc	9	18	8	6	0	1	1	0	0	1	1	3	1	2	1	1	1	2	5	1	1	6	9	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	54579287	C	C	54579287	3	2	160	1	0	0	0	0	1	0	0	0	4503	1812	63	3	2468	3	DHX29	5	54579287	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10		54579287	126335973	12	8981											
PAM	5066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	102326008	102326008	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaggcactggattggcctGgagtatacttgttaccaggc	10	10	13	8	0	0	1	0	0	0	1	0	3	0	3	2	5	2	3	2	5	4	5	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	102326008	G	A	102326008	3	1	160	1	0	0	0	0	1	0	0	0	11412	1349	47	2	1574	2	PAM	5	102326008	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10	47746721	102326008	78589252	13	8982											
WDR36	134430	broad.mit.edu	37	chr5	110428209	110428209	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgctttttgcggggttccggGccttgggacttttcagcaac	4	13	13	11	3	1	0	1	0	0	0	2	1	2	1	2	4	3	3	2	4	1	6	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	110428209	T	T	110428209	3	4	160	1	0	0	0	0	1	0	0	0	17289	1203	42	4	225	4	WDR36	5	110428209	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10	8102201	110428209	70487051	14	8983											
DSP	1832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7583844	7583844	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaagaaaaatttgattGatagagaaaccggaatgcgc	17	8	9	7	2	1	4	1	2	0	2	1	6	1	5	2	1	2	0	2	1	6	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	7583844	G	T	7583844	3	4	160	1	0	0	0	0	1	0	0	0	4781	1290	45	4	6443	4	DSP	6	7583844	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10		7583844	163531223	15	8984											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56394387	56394387	+	Missense_Mutation	SNP	C	C	A																															atcttagcattacataaggcCtgctggaggagctcagacct																								novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	56394387	C	A	56394387	3	1	160	1	0	0	0	0	1	0	0	0	4783	680	24	4	6082	4	DST	6	56394387	Missense_Mutation	SNP	C	TCGA-B0-5707-01A-11D-1534-10	48810543	56394387	114720680	16	8985	131	2									
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56394388	56394388	+	Missense_Mutation	SNP	T	T	A																															tcttagcattacataaggccTgctggaggagctcagacctg																								novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	56394388	T	A	56394388	3	1	160	1	0	0	0	0	1	0	0	0	4783	1580	55	5	6083	5	DST	6	56394388	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10	1	56394388	114720679	17	8986	131	2									
COL19A1	1310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	70916883	70916883	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctcaccaggtgccccaGgcccacagggccccccagga	8	2	12	19	0	1	0	1	0	0	0	1	1	1	1	7	5	1	1	7	5	0	0	rs141812196	byfrequency;alternate_allele	TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	70916883	G	T	70916883	3	4	160	1	0	0	0	0	1	0	0	0	3676	1000	35	4	3532	4	COL19A1	6	70916883	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10	14522495	70916883	100198184	18	8987											
PDE7B	27115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	136500189	136500189	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggcaacagacatcaacagGcagaatgaatttttgaccag	15	9	9	8	0	1	4	1	2	0	2	1	4	1	4	1	2	2	2	1	2	4	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	136500189	G	A	136500189	2	1	160	1	0	0	0	0	0	0	0	1	11652	1194	42	2		2	PDE7B	6	136500189	Silent	SNP	G	TCGA-B0-5707-01A-11D-1534-10	65583306	136500189	34614878	19	8988											
TNRC18	84629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5396761	5396761	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcaagtacctgccgcagccCccgctagttttcgatttccc	6	11	8	16	3	1	0	1	0	0	0	3	1	2	0	5	0	3	4	5	0	3	5	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	5396761	C	A	5396761	2	1	160	1	0	0	0	0	0	0	0	1	16338	610	22	4		4	TNRC18	7	5396761	Silent	SNP	C	TCGA-B0-5707-01A-11D-1534-10		5396761	153741902	20	8989											
MET	4233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116422132	116422132	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagtttgtccacagagacTtggctgcaagaaactgtatg	14	10	10	7	0	0	2	0	0	0	2	1	3	1	2	1	1	2	4	1	1	5	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	116422132	T	G	116422132	3	3	160	1	0	0	0	0	1	0	0	0	9485	1606	56	5	3733	5	MET	7	116422132	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10	111025371	116422132	42716531	21	8990											
C8orf31	286122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144124475	144124475	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggcagctcttcaaaacCaagcagctggtgacgcacag	12	6	12	11	1	2	2	1	2	1	0	2	2	2	2	1	2	4	5	1	2	3	1	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	144124475	C	G	144124475	2	3	160	1	0	0	0	0	0	0	0	1	2420	581	21	4		4	C8orf31	8	144124475	Silent	SNP	C	TCGA-B0-5707-01A-11D-1534-10		144124475	2239547	22	8991											
ZNF7	7553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	146067912	146067912	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccatttaaatgtgatgagTgtggcaaaggctttgttcag	12	13	11	5	0	1	2	1	2	0	0	1	2	1	2	1	2	1	3	1	2	4	4	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	146067912	T	C	146067912	3	2	160	1	0	0	0	0	1	0	0	0	18101	1696	59	3	1434	3	ZNF7	8	146067912	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10	1943437	146067912	296110	23	8992											
FIBCD1	84929	broad.mit.edu	37	chr9	133799697	133799697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgttgcggggccggccCagcccccggtccctctgcag	2	7	14	18	3	1	0	0	0	1	0	2	0	2	0	6	4	3	2	6	4	0	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	133799697	T	T	133799697	2	4	160	1	0	0	0	0	0	0	0	1	5884	581	21	2		2	FIBCD1	9	133799697	Silent	SNP	C	TCGA-B0-5707-01A-11D-1534-10		133799697	7413734	24	8993											
TUBB2C	0	broad.mit.edu	37	chr9	140137360	140137360	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgaaccacctggtgtcTgctaccatgagtggggtcac	8	9	12	12	0	2	2	1	2	1	0	2	3	2	2	4	3	3	1	4	3	2	1	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	140137360	C	C	140137360	2	2	160	1	0	0	0	0	0	0	0	1	16755	1567	55	3		3	TUBB2C	9	140137360	Silent	SNP	T	TCGA-B0-5707-01A-11D-1534-10	6337663	140137360	1076071	25	8994											
RELT	84957	broad.mit.edu;ucsc.edu	37	chr11	73105299	73105299	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaatgctgcggccctggAggagctgctgaaagagtacc	11	6	15	9	1	0	3	0	1	0	2	0	6	0	5	2	3	5	4	2	3	3	1	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	73105299	G	G	73105299	3	3	160	1	0	0	0	0	1	0	0	0	13223	304	11	3	751	3	RELT	11	73105299	Missense_Mutation	SNP	A	TCGA-B0-5707-01A-11D-1534-10		73105299	61901217	26	8995											
SLC37A4	2542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118899051	118899051	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcagcccagaagagaagagCcagcgagcactcatctggtc	13	4	12	12	1	2	3	1	0	1	3	3	5	2	3	2	1	5	2	2	1	2	0	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	118899051	C	G	118899051	3	3	160	1	0	0	0	0	1	0	0	0	14602	740	26	4	1154	4	SLC37A4	11	118899051	Missense_Mutation	SNP	C	TCGA-B0-5707-01A-11D-1534-10	45793752	118899051	16107465	27	8996											
ST14	6768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130058115	130058115	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctggcagccgtgctgaTcggcctcctcttggtcttgc	2	12	14	13	2	2	1	0	1	2	0	4	1	3	1	3	4	4	3	3	4	0	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	130058115	T	C	130058115	3	2	160	1	0	0	0	0	1	0	0	0	15212	1435	50	3	194	3	ST14	11	130058115	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10	11159064	130058115	4948401	28	8997											
HOXC6	3223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54422514	54422514	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttccagccgggggccgtAtgactatggatctaattcct	8	11	11	11	2	1	1	0	1	1	0	3	2	3	2	4	3	1	2	4	3	3	5	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	54422514	A	G	54422514	3	3	160	1	0	0	0	0	1	0	0	0	7315	449	16	3	211	3	HOXC6	12	54422514	Missense_Mutation	SNP	A	TCGA-B0-5707-01A-11D-1534-10		54422514	79429381	29	8998											
KL	9365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33635592	33635592	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttatttcactgaagaTgaaaaaaagctaatccaggg	15	11	7	8	0	1	3	1	2	0	1	3	3	3	3	2	1	1	1	2	1	6	4	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	33635592	T	C	33635592	2	2	160	1	0	0	0	0	0	0	0	1	8331	1461	51	3		3	KL	13	33635592	Silent	SNP	T	TCGA-B0-5707-01A-11D-1534-10		33635592	81534286	30	8999											
DIAPH3	81624	hgsc.bcm.edu	37	chr13	60385029	60385030	+	Frame_Shift_Ins	INS	-	-	T																															ttctttttcctctgcttctcINStttttttgatattctccttt																								novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	60385030	-	T	60385029	7	5	160	1	0	1	1	0	0	0	0	0	4520	913	32	0	561	0	DIAPH3	13	60385029	Frame_Shift_Ins	INS	-	TCGA-B0-5707-01A-11D-1534-10	26749437	60385029	54784849	31	9000											
SPATA5L1	79029	broad.mit.edu	37	chr15	45695555	45695555	+	Frame_Shift_Del	DEL	C	-	-																															acgagatggacgccttgtgtCcccagcggggcagtcgagca																								novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		-	45695555	-	-	45695555	7	5	160	1	0	1	0	1	0	0	0	0	15013	855	30	0	930	0	SPATA5L1	15	45695555	Frame_Shift_Del	DEL	C	TCGA-B0-5707-01A-11D-1534-10		45695555	56835837	32	9001											
CLPX	10845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65449219	65449219	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctacatcccgtaattgaTgaatgcctggcacactgcca	11	9	7	14	1	0	2	0	2	0	0	1	2	1	2	4	1	3	2	4	1	3	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	65449219	T	C	65449219	3	2	160	1	0	0	0	0	1	0	0	0	3556	1464	51	3	816	3	CLPX	15	65449219	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10	19753664	65449219	37082173	33	9002											
DENND4A	10260	broad.mit.edu;ucsc.edu	37	chr15	65957694	65957694	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttactgtgtgcattcCagagaatgtacaagggctgt	10	11	12	8	0	0	1	0	0	0	1	1	2	1	1	1	2	3	4	1	2	4	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	65957694	T	T	65957694	4	4	160	1	0	0	0	0	0	1	0	0	4433	595	21	2	391	2	DENND4A	15	65957694	Nonsense_Mutation	SNP	C	TCGA-B0-5707-01A-11D-1534-10	508475	65957694	36573698	34	9003											
CT62	196993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	71403498	71403498	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaaccttcctatctccTctgaccagatgtggggtgag	10	10	10	11	0	2	4	0	2	2	2	4	4	3	4	4	2	1	0	4	2	3	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	71403498	T	G	71403498	2	3	160	1	0	0	0	0	0	0	0	1	3990	1550	54	5		5	CT62	15	71403498	Silent	SNP	T	TCGA-B0-5707-01A-11D-1534-10	5445804	71403498	31127894	35	9004											
GNA13	10672	hgsc.bcm.edu;ucsc.edu	37	chr17	63052574	63052574	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggatcttcaccagccgCttcacataggtcttttcccg	8	11	8	14	2	4	0	2	0	2	0	5	1	5	1	3	2	2	2	3	2	1	5	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	63052574	C	G	63052574	3	3	160	1	0	0	0	0	1	0	0	0	6501	796	28	4	1011	4	GNA13	17	63052574	Missense_Mutation	SNP	C	TCGA-B0-5707-01A-11D-1534-10		63052574	18142636	36	9005											
ALPK2	115701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56246350	56246350	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgttgtactttctctcAggttggcattcggcttcttg	3	19	9	10	1	4	0	1	0	3	0	6	0	4	0	0	3	1	5	0	3	1	8	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	56246350	A	G	56246350	3	3	160	1	0	0	0	0	1	0	0	0	545	188	7	3	4894	3	ALPK2	18	56246350	Missense_Mutation	SNP	A	TCGA-B0-5707-01A-11D-1534-10		56246350	21830898	37	9006											
SERPINB4	6318	hgsc.bcm.edu;ucsc.edu	37	chr18	61305037	61305038	+	Frame_Shift_Ins	INS	-	-	AA																															ggaaagggtgattacaacagINSaactcttcattagttgaagg																								novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		AA	61305038	-	AA	61305037	7	5	160	1	0	1	1	0	0	0	0	0	14105	933	33	0	87	0	SERPINB4	18	61305037	Frame_Shift_Ins	INS	-	TCGA-B0-5707-01A-11D-1534-10	5058687	61305037	16772211	38	9007											
ZNF700	90592	broad.mit.edu;hgsc.bcm.edu	37	chr19	12060408	12060408	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttattctgccaagtcattTcaaacacatgaaaaaactca	16	13	3	9	0	4	1	3	1	1	0	4	1	4	1	1	0	3	0	1	0	6	4	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		C	12060408	T	C	12060408	2	2	160	1	0	0	0	0	0	0	0	1	18103	1780	62	3		3	ZNF700	19	12060408	Silent	SNP	T	TCGA-B0-5707-01A-11D-1534-10		12060408	47068575	39	9008											
KIAA0355	9710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	34832722	34832722	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgtgagaacttcctgcAtggagatgacggcaaggatg	11	7	16	7	2	0	3	0	2	0	2	1	7	1	4	1	4	2	2	1	4	2	1	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	34832722	A	G	34832722	3	3	160	1	0	0	0	0	1	0	0	0	8170	217	8	3	1917	3	KIAA0355	19	34832722	Missense_Mutation	SNP	A	TCGA-B0-5707-01A-11D-1534-10	22772314	34832722	24296261	40	9009											
PTPRH	5794	broad.mit.edu;hgsc.bcm.edu	37	chr19	55713578	55713578	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccaccatctccagtgtaCtcaaccccgtaggtggagtt	8	10	9	14	1	2	0	1	0	1	0	3	1	2	1	5	2	3	3	5	2	3	3	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		T	55713578	C	T	55713578	2	4	160	1	0	0	0	0	0	0	0	1	12805	564	20	2		2	PTPRH	19	55713578	Silent	SNP	C	TCGA-B0-5707-01A-11D-1534-10	20880856	55713578	3415405	41	9010											
CABIN1	23523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24437602	24437602	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacaggcagtttcatccggtGatgagaaagaggggttgaaa	13	8	14	6	1	1	4	1	3	0	2	2	5	2	4	1	4	0	3	1	4	2	2	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	24437602	G	A	24437602	3	1	160	1	0	0	0	0	1	0	0	0	2528	1290	45	2	240	2	CABIN1	22	24437602	Missense_Mutation	SNP	G	TCGA-B0-5707-01A-11D-1534-10		24437602	26866964	42	9011											
NOL12	79159	broad.mit.edu;ucsc.edu	37	chr22	38084989	38084989	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccggctgctcgggctgaCcccacctgaggtgggtccca	4	6	15	16	2	0	2	0	2	0	0	2	2	1	2	5	5	1	3	5	5	0	0	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		G	38084989	G	G	38084989	3	3	160	1	0	0	0	0	1	0	0	0	10522	507	18	4	385	4	NOL12	22	38084989	Missense_Mutation	SNP	C	TCGA-B0-5707-01A-11D-1534-10	13647387	38084989	13219577	43	9012											
ZBTB33	10009	hgsc.bcm.edu	37	chrX	119387854	119387854	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgatgatgatgatgatgTcattttttgctccgagattc	9	17	10	5	1	1	7	1	6	0	1	3	8	2	7	1	0	1	1	1	0	0	4	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	119387854	T	A	119387854	3	1	160	1	0	0	0	0	1	0	0	0	17535	1667	58	5	586	5	ZBTB33	23	119387854	Missense_Mutation	SNP	T	TCGA-B0-5707-01A-11D-1534-10		119387854	35882706	44	9013											
BCORL1	63035	broad.mit.edu	37	chrX	129150165	129150165	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccacaagccaaggccgtGgtccggagttcccacagacc	10	4	11	16	2	0	1	0	0	0	1	2	2	2	2	6	3	2	1	6	3	2	1	novel		TCGA-B0-5707-01A-11D-1534-10	TCGA-B0-5707-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	eb2f9f38-bce2-4746-a3c8-40abc3379b32	d88a725d-9967-4fc7-94a6-44cccccdde24		A	129150165	A	A	129150165	2	1	160	1	0	0	0	0	0	0	0	1	1387	1335	47	2		2	BCORL1	23	129150165	Silent	SNP	G	TCGA-B0-5707-01A-11D-1534-10	9762311	129150165	26120395	45	9014											
HOOK1	51361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	60325915	60325915	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcgcttacagcaagaaGgctctgagaatgaacgtatt	12	11	10	8	2	1	3	0	2	1	2	2	4	1	3	0	1	4	5	0	1	6	4	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	60325915	G	C	60325915	3	2	161	1	0	0	0	0	1	0	0	0	7282	1000	35	4	1505	4	HOOK1	1	60325915	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10		60325915	188924706	1	9015											
UBE2Q1	55585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154527220	154527220	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagcctacctcaggcatCtcctcatcttcatcttctga	8	12	6	15	0	7	1	3	1	4	0	8	1	7	1	3	2	2	2	3	2	2	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	154527220	C	A	154527220	3	1	161	1	0	0	0	0	1	0	0	0	16868	912	32	4	729	4	UBE2Q1	1	154527220	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	94201305	154527220	94723401	2	9016											
ARHGEF11	9826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156909401	156909401	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagcatcttcagccagattCctgtccagttctggagactc	9	11	9	12	0	3	2	1	0	2	2	6	4	5	2	3	1	2	2	3	1	1	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	156909401	C	A	156909401	3	1	161	1	0	0	0	0	1	0	0	0	896	854	30	4	673	4	ARHGEF11	1	156909401	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	2382181	156909401	92341220	3	9017											
POU2F1	5451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	167365627	167365627	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctttaagaacatgtgcaaGttgaagccacttttagagaa	15	11	9	6	0	0	3	0	1	0	2	0	4	0	3	1	0	4	3	1	0	6	5	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	167365627	G	T	167365627	3	4	161	1	0	0	0	0	1	0	0	0	12271	1020	36	4	1057	4	POU2F1	1	167365627	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	10456226	167365627	81884994	4	9018											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201041938	201041938	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattgacattagattcaaaCtcatcgattttcagctgtag	12	15	6	8	1	4	2	4	1	0	1	5	3	4	2	0	0	2	2	0	0	3	6	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	201041938	C	T	201041938	2	4	161	1	0	0	0	0	0	0	0	1	2547	564	20	2		2	CACNA1S	1	201041938	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	33676311	201041938	48208683	5	9019											
GMCL1	64395	broad.mit.edu	37	chr2	70057234	70057234	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgactcggagacggacgaGgatgaggaggagggggacga	11	3	20	7	4	0	3	0	2	0	1	1	11	0	8	1	7	0	0	1	7	0	0	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	70057234	A	A	70057234	2	1	161	1	0	0	0	0	0	0	0	1	6485	991	35	2		2	GMCL1	2	70057234	Silent	SNP	G	TCGA-B0-5709-01A-11D-1534-10		70057234	173142139	6	9020											
C2orf3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	75907426	75907426	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgacaaaggatcccaaaGgaattctacaaagtctgaaa	17	8	9	7	0	2	2	0	2	2	0	3	4	3	4	1	3	1	1	1	3	6	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	75907426	G	T	75907426	3	4	161	1	0	0	0	0	1	0	0	0	2162	1000	35	4	664	4	C2orf3	2	75907426	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	5850192	75907426	167291947	7	9021											
TTC21B	79809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166731270	166731270	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagttaaaattattttcaagGtcttaaagacgcacgggcct	14	12	8	7	2	2	1	1	0	1	1	2	1	2	1	1	2	0	2	1	2	7	5	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	166731270	G	T	166731270	3	4	161	1	0	0	0	0	1	0	0	0	16687	1261	44	4	8	4	TTC21B	2	166731270	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	90823844	166731270	76468103	8	9022											
WDR75	84128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	190324065	190324065	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttatctttctccaataggagGaatttttatgatgataagaa	14	16	7	4	0	2	3	0	2	2	1	3	5	2	5	1	2	0	0	1	2	7	7	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	190324065	G	A	190324065	2	1	161	1	0	0	0	0	0	0	0	1	17324	1165	41	2		2	WDR75	2	190324065	Silent	SNP	G	TCGA-B0-5709-01A-11D-1534-10	23592795	190324065	52875308	9	9023											
SAG	6295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234235795	234235795	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttgactttgaggtcaaagCattcgccacagacagcaccg	11	8	11	11	2	1	3	1	2	0	1	2	3	1	3	2	2	2	3	2	2	1	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	234235795	C	T	234235795	3	4	161	1	0	0	0	0	1	0	0	0	13810	710	25	2	486	2	SAG	2	234235795	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	43911730	234235795	8963578	10	9024											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188268	10188268	+	Frame_Shift_Del	DEL	G	G	-																															aaccaaactgaattatttgtGccatctctcaatgttgacgg																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		-	10188268	G	-	10188268	7	5	161	1	0	1	0	1	0	0	0	0	17161	1306	46	0	417	0	VHL	3	10188268	Frame_Shift_Del	DEL	G	TCGA-B0-5709-01A-11D-1534-10		10188268	187834162	11	9025											
TSEN2	80746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	12545142	12545142	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaacaagatgctctcatcctCcagcgtggccttcatcatga	11	10	7	13	1	3	2	3	1	1	1	6	2	5	2	3	1	3	1	3	1	2	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	12545142	C	T	12545142	2	4	161	1	0	0	0	0	0	0	0	1	16611	842	30	2		2	TSEN2	3	12545142	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	2356874	12545142	185477288	12	9026											
BSN	8927	broad.mit.edu;hgsc.bcm.edu	37	chr3	49662433	49662433	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccggagactggaccccaagGaacccctgggtaaccagaga	12	3	12	14	1	0	2	0	0	0	2	0	6	0	4	6	4	2	1	6	4	3	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	49662433	G	A	49662433	3	1	161	1	0	0	0	0	1	0	0	0	1530	1175	41	2	256	2	BSN	3	49662433	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	37117291	49662433	148359997	13	9027											
EBLN2	55096	hgsc.bcm.edu	37	chr3	73111481	73111481	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgagctatctgggaaaaaCagacagtatccactggatgc	13	10	10	8	0	1	2	0	1	1	1	2	4	2	4	1	2	3	2	1	2	4	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	73111481	C	A	73111481	3	1	161	1	0	0	0	0	1	0	0	0	4884	477	17	4	251	4	EBLN2	3	73111481	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	23449048	73111481	124910949	14	9028											
C3orf33	285315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	155493591	155493591	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtagtttaacatttcttCttataaattctactggaata	13	17	4	7	1	3	0	0	0	3	0	3	1	3	1	0	1	2	2	0	1	8	10	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	155493591	C	A	155493591	3	1	161	1	0	0	0	0	1	0	0	0	2223	913	32	4	675	4	C3orf33	3	155493591	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	82382110	155493591	42528839	15	9029											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508442	195508537	+	In_Frame_Del	DEL	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	-																															ggtggtgtcacctgtggatgCtgaggaagggctggtgacat																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		-	195508537	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	-	195508442	7	5	161	1	0	1	0	1	0	0	0	0	9978	797	28	0		0	MUC4	3	195508442	In_Frame_Del	DEL	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	TCGA-B0-5709-01A-11D-1534-10	40014851	195508442	2513988	16	9030											
SLC26A1	10861	broad.mit.edu	37	chr4	983003	983003	+	Frame_Shift_Del	DEL	T	-	-																															cccccgtctctgagccccccTccttcctcctggcagccatg																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		-	983003	-	-	983003	7	5	161	1	0	1	0	1	0	0	0	0	14516	1551	54	0	488	0	SLC26A1	4	983003	Frame_Shift_Del	DEL	T	TCGA-B0-5709-01A-11D-1534-10		983003	190171273	17	9031											
FAM105B	90268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	14693052	14693052	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acggaagaattcatcacagtCtaccccaccgacccacccaa	14	5	5	17	2	3	1	2	0	1	1	3	3	3	2	5	1	1	0	5	1	4	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	14693052	C	T	14693052	2	4	161	1	0	0	0	0	0	0	0	1	5388	900	32	2		2	FAM105B	5	14693052	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10		14693052	166222208	18	9032											
GPR98	84059	broad.mit.edu;ucsc.edu	37	chr5	90281200	90281200	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctggtgatgaatgatgagCacacagagaggcgatatctg	12	9	14	6	1	1	5	0	4	1	1	1	7	1	5	0	2	2	2	0	2	2	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	90281200	A	A	90281200	3	1	161	1	0	0	0	0	1	0	0	0	6721	710	25	4	18351	4	GPR98	5	90281200	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	75588148	90281200	90634060	19	9033											
ZKSCAN3	80317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28329175	28329175	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaccagccccagggtcacaAagtagccaatttcagctaat	14	7	7	13	0	2	0	2	0	0	0	2	0	2	0	4	1	3	2	4	1	4	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	28329175	A	G	28329175	2	3	161	1	0	0	0	0	0	0	0	1	17687	11	1	3		3	ZKSCAN3	6	28329175	Silent	SNP	A	TCGA-B0-5709-01A-11D-1534-10		28329175	142785892	20	9034											
OR2B3	442184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	29054173	29054173	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtagatgagggagttcaAcatggatgtgatgattccat	11	12	13	5	0	1	4	1	3	0	1	2	6	2	6	1	2	1	3	1	2	2	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	29054173	A	G	29054173	2	3	161	1	0	0	0	0	0	0	0	1	10990	40	2	3		3	OR2B3	6	29054173	Silent	SNP	A	TCGA-B0-5709-01A-11D-1534-10	724998	29054173	142060894	21	9035											
COL19A1	1310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	70878567	70878567	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccaaaaggcgatcctggCccagtggtatgaatgttccc	9	8	12	12	1	0	1	0	1	0	0	2	2	2	1	4	4	0	2	4	4	4	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	70878567	C	T	70878567	2	4	161	1	0	0	0	0	0	0	0	1	3676	726	26	2		2	COL19A1	6	70878567	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	41824394	70878567	100236500	22	9036											
STXBP5	134957	broad.mit.edu	37	chr6	147588238	147588238	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttttgattggctttgaaTctggaacagtagttttatgg	9	17	11	4	0	1	2	0	2	1	0	1	3	1	3	0	3	2	4	0	3	4	7	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	147588238	C	C	147588238	3	2	161	1	0	0	0	0	1	0	0	0	15357	1435	50	3	675	3	STXBP5	6	147588238	Missense_Mutation	SNP	T	TCGA-B0-5709-01A-11D-1534-10	76709671	147588238	23526829	23	9037											
IGF2R	3482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160509177	160509177	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcagacctgcattcaaGaggtcaggagactgggggct	9	7	17	8	0	2	3	2	0	0	3	2	4	2	3	1	5	1	3	1	5	1	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	160509177	G	T	160509177	3	4	161	1	0	0	0	0	1	0	0	0	7576	933	33	4	6484	4	IGF2R	6	160509177	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	12920939	160509177	10605890	24	9038											
SEMA3E	9723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82997339	82997339	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtccatcttaaccactcTgtcatctgtcttcacctgca	9	13	5	14	0	6	0	2	0	4	0	7	0	7	0	3	1	2	1	3	1	2	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	82997339	T	A	82997339	4	1	161	1	0	0	0	0	0	1	0	0	14030	1588	55	5	440	5	SEMA3E	7	82997339	Nonsense_Mutation	SNP	T	TCGA-B0-5709-01A-11D-1534-10		82997339	76141324	25	9039											
PPP1R9A	55607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94540664	94540664	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccaggtataattcagaCtggggagagacaggcactga	14	7	13	7	0	1	4	1	1	0	3	2	6	2	5	1	4	0	2	1	4	2	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	94540664	C	T	94540664	2	4	161	1	0	0	0	0	0	0	0	1	12380	564	20	2		2	PPP1R9A	7	94540664	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	11543325	94540664	64597999	26	9040											
SLC26A4	5172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107334908	107334908	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttgccctggggaagcttCtggaacccttgcagaaggta	8	11	12	10	0	2	1	0	0	2	1	2	3	2	3	2	4	4	3	2	4	4	5	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	107334908	C	T	107334908	2	4	161	1	0	0	0	0	0	0	0	1	14521	912	32	2		2	SLC26A4	7	107334908	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	12794244	107334908	51803755	27	9041											
WASL	8976	broad.mit.edu	37	chr7	123332841	123332841	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcgcctcttcccctagcagGaggaggaggaggacctgagt	9	6	15	11	1	1	1	0	1	1	0	2	6	2	6	4	5	2	1	4	5	1	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	123332841	C	C	123332841	3	2	161	1	0	0	0	0	1	0	0	0	17255	1174	41	4	622	4	WASL	7	123332841	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	15997933	123332841	35805822	28	9042											
CSMD1	64478	broad.mit.edu	37	chr8	3245041	3245041	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagctgggcaaggcgtggttCcactggtggttcctctcaca	6	10	13	12	1	1	0	1	0	1	0	4	0	3	0	2	5	1	4	2	5	1	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	3245041	T	T	3245041	4	4	161	1	0	0	0	0	0	1	0	0	3944	856	30	2	8149	2	CSMD1	8	3245041	Nonsense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10		3245041	143118981	29	9043											
KLF10	7071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	103664082	103664082	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttacatagctgggcatcagCtgtatgacgaatcacacttg	11	11	10	9	1	2	1	2	1	0	0	2	2	2	1	0	1	3	5	0	1	4	4	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	103664082	C	A	103664082	3	1	161	1	0	0	0	0	1	0	0	0	8338	797	28	4	972	4	KLF10	8	103664082	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	100419041	103664082	42699940	30	9044											
TJP2	9414	hgsc.bcm.edu;ucsc.edu	37	chr9	71842779	71842780	+	Frame_Shift_Ins	INS	-	-	A																															ctcaagtgagaagctgaaggINSaaaggccaaggtaagatgac																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	71842780	-	A	71842779	7	5	161	1	0	1	1	0	0	0	0	0	15929	1175	41	0	1496	0	TJP2	9	71842779	Frame_Shift_Ins	INS	-	TCGA-B0-5709-01A-11D-1534-10		71842779	69370652	31	9045											
PSMB7	5695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	127177673	127177673	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcaaaagagaagcctccaActggtggagcatacaccgac	15	6	9	11	1	1	1	1	0	0	1	2	4	2	2	3	2	4	1	3	2	6	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	127177673	A	T	127177673	3	4	161	1	0	0	0	0	1	0	0	0	12684	43	2	5	833	5	PSMB7	9	127177673	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	55334894	127177673	14035758	32	9046											
GBF1	8729	hgsc.bcm.edu;ucsc.edu	37	chr10	104118423	104118423	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagcaacctggctctccaggGtacagcacagctacagagcc	11	5	11	14	0	1	1	0	0	1	1	2	2	1	1	3	2	7	5	3	2	3	2	rs142955445	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	104118423	G	T	104118423	2	4	161	1	0	0	0	0	0	0	0	1	6271	1248	44	4		4	GBF1	10	104118423	Silent	SNP	G	TCGA-B0-5709-01A-11D-1534-10		104118423	31416324	33	9047											
JAKMIP3	282973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	133961488	133961488	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagacggaagaggctcggctCagacacgaggtgcaggacgc	11	3	17	10	4	1	3	1	0	0	3	2	7	1	5	0	5	1	3	0	5	1	0	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	133961488	C	G	133961488	2	3	161	1	0	0	0	0	0	0	0	1	7942	813	29	4		4	JAKMIP3	10	133961488	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	29843065	133961488	1573259	34	9048											
KBTBD4	55709	broad.mit.edu;hgsc.bcm.edu	37	chr11	47599123	47599123	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgaaggcagtttcccacTtgcactgtgcgggccaaaaa	11	8	10	12	1	0	1	0	1	0	0	1	1	1	1	3	2	2	3	3	2	3	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	47599123	T	C	47599123	2	2	161	1	0	0	0	0	0	0	0	1	7995	1606	56	3		3	KBTBD4	11	47599123	Silent	SNP	T	TCGA-B0-5709-01A-11D-1534-10		47599123	87407393	35	9049											
MS4A14	84689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60183100	60183100	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagtcctttagtctcccAaccaggtaataaaggtagag	13	10	10	8	0	1	1	0	0	1	1	3	2	2	2	3	3	1	2	3	3	7	6	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	60183100	A	C	60183100	3	2	161	1	0	0	0	0	1	0	0	0	9858	130	5	5	677	5	MS4A14	11	60183100	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	12583977	60183100	74823416	36	9050											
STT3A	3703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	125479362	125479362	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacggggcgtttctactCgctgctggatccctcttatg	4	13	12	12	3	2	0	0	0	2	0	4	2	3	2	1	4	2	3	1	4	2	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	125479362	C	A	125479362	4	1	161	1	0	0	0	0	0	1	0	0	15334	893	31	4	1029	4	STT3A	11	125479362	Nonsense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	65296262	125479362	9527154	37	9051											
CD27	939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6554632	6554632	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccagcatagaaaggctgCtcagtgtgatccttgcatac	11	10	10	10	0	1	3	1	2	0	1	2	3	2	3	2	1	4	4	2	1	3	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	6554632	C	A	6554632	3	1	161	1	0	0	0	0	1	0	0	0	2990	797	28	4	185	4	CD27	12	6554632	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10		6554632	127297263	38	9052											
SOX5	6660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	23998950	23998950	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatgagctcttccatttTcctctgcttcaaggtgtcaa	7	17	7	10	0	4	2	2	2	2	0	6	2	6	2	2	1	2	2	2	1	2	5	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	23998950	T	A	23998950	4	1	161	1	0	0	0	0	0	1	0	0	14956	1792	62	5	1905	5	SOX5	12	23998950	Nonsense_Mutation	SNP	T	TCGA-B0-5709-01A-11D-1534-10	17444318	23998950	109852945	39	9053											
KRT5	3852	broad.mit.edu;hgsc.bcm.edu	37	chr12	52910988	52910988	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaggtcatcgccatgcCggccagctgtctgctgcagc	5	8	14	14	3	2	0	1	0	1	0	3	1	2	1	3	3	6	3	3	3	0	0	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	52910988	C	T	52910988	3	4	161	1	0	0	0	0	1	0	0	0	8479	652	23	1	667	1	KRT5	12	52910988	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	28912038	52910988	80940907	40	9054											
ACADS	35	broad.mit.edu;ucsc.edu	37	chr12	121176678	121176678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccggctgctgacctggcGcgctgccatgctgaaggata	6	8	14	13	3	0	2	0	2	0	0	0	3	0	3	3	3	4	4	3	3	2	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	121176678	A	A	121176678	3	1	161	1	0	0	0	0	1	0	0	0	114	1087	38	1	1019	1	ACADS	12	121176678	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	68265690	121176678	12675217	41	9055											
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	23907922	23907922	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtttggaccatataatgtaGagccttcaagatgcttgtgg	11	13	11	6	0	1	2	1	0	0	2	1	3	1	3	2	2	2	3	2	2	4	6	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	23907922	G	C	23907922	3	2	161	1	0	0	0	0	1	0	0	0	13806	933	33	4	3650	4	SACS	13	23907922	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10		23907922	91261956	42	9056											
MYCBP2	23077	broad.mit.edu;ucsc.edu	37	chr13	77629761	77629761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagctgggtcattataaaAcctcacaccaggagttgtga	12	9	10	10	0	2	1	2	1	0	0	2	2	2	2	3	2	2	2	3	2	3	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	77629761	G	G	77629761	3	3	161	1	0	0	0	0	1	0	0	0	10018	43	2	3	473	3	MYCBP2	13	77629761	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	53721839	77629761	37540117	43	9057											
SPRED1	161742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	38591742	38591742	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggagagcgactcagggaCaaaatggtaatgaataatgt	15	8	13	5	2	1	2	1	1	0	1	1	5	1	3	0	3	1	1	0	3	5	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	38591742	C	G	38591742	3	3	161	1	0	0	0	0	1	0	0	0	15093	477	17	4	207	4	SPRED1	15	38591742	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10		38591742	63939650	44	9058											
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51778458	51778458	+	Nonsense_Mutation	SNP	G	G	T																															ggatggatatataagtggatGaagtctcaaattcagattca																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	51778458	G	T	51778458	4	4	161	1	0	0	0	0	0	1	0	0	4595	1294	45	4	3903	4	DMXL2	15	51778458	Nonsense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	13186716	51778458	50752934	45	9059	132	2									
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51778460	51778460	+	Silent	SNP	A	A	G																															atggatatataagtggatgaAgtctcaaattcagattcata																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	51778460	A	G	51778460	2	3	161	1	0	0	0	0	0	0	0	1	4595	59	3	3		3	DMXL2	15	51778460	Silent	SNP	A	TCGA-B0-5709-01A-11D-1534-10	2	51778460	50752932	46	9060	132	2									
TCF12	6938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57489997	57489997	+	Missense_Mutation	SNP	A	A	G																															tgcaagcaaaaaaagtcagaAaggtgcctcctggtttgcct																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	57489997	A	G	57489997	3	3	161	1	0	0	0	0	1	0	0	0	15686	15	1	3	579	3	TCF12	15	57489997	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	5711537	57489997	45041395	47	9061	133	2									
TCF12	6938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57489998	57489998	+	Missense_Mutation	SNP	A	A	G																															gcaagcaaaaaaagtcagaaAggtgcctcctggtttgcctt																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	57489998	A	G	57489998	3	3	161	1	0	0	0	0	1	0	0	0	15686	72	3	3	580	3	TCF12	15	57489998	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	1	57489998	45041394	48	9062	133	2									
FEM1B	10116	broad.mit.edu;ucsc.edu	37	chr15	68582835	68582835	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacaaaaaggtaacaggaAcacccacaaggatcttcttc	17	6	7	11	0	2	1	0	0	2	1	3	3	2	3	1	3	2	1	1	3	5	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	68582835	T	T	68582835	3	4	161	1	0	0	0	0	1	0	0	0	5810	43	2	5	1145	5	FEM1B	15	68582835	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	11092837	68582835	33948557	49	9063											
LOC81691	81691	broad.mit.edu;ucsc.edu	37	chr16	20824600	20824600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgaagtatgcagttctggGcaaatccaatgttccaaaac	13	10	9	9	0	1	1	0	1	1	0	3	1	3	1	2	1	2	6	2	1	6	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	20824600	A	A	20824600	3	1	161	1	0	0	0	0	1	0	0	0	8890	1203	42	2	233	2	LOC81691	16	20824600	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10		20824600	69530153	50	9064											
ITGAX	3687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31388553	31388553	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttccagctggagctccCggtgaagtatgctgtctaca	8	10	10	13	1	1	1	0	1	1	0	3	2	3	2	3	2	4	4	3	2	3	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	31388553	C	T	31388553	3	4	161	1	0	0	0	0	1	0	0	0	7889	652	23	1	2846	1	ITGAX	16	31388553	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	10563953	31388553	58966200	51	9065											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11648186	11648186	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatccctgaagagaggagacCctgaccggcctgaggaccag	11	4	14	12	1	0	5	0	3	0	2	1	9	1	6	5	3	0	0	5	3	1	0	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	11648186	C	T	11648186	3	4	161	1	0	0	0	0	1	0	0	0	4608	623	22	2	6306	2	DNAH9	17	11648186	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10		11648186	69547024	52	9066											
NOS2	4843	broad.mit.edu	37	chr17	26091141	26091141	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggctgagtgagcagggggGcagcctcttgtcactgaccc	6	8	15	12	0	2	3	1	3	1	0	2	3	2	3	2	4	2	3	2	4	0	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	26091141	C	C	26091141	3	2	161	1	0	0	0	0	1	0	0	0	10543	1203	42	4	1031	4	NOS2	17	26091141	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	14442955	26091141	55104069	53	9067											
HOXB13	10481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46805408	46805408	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttctgttctccctggcaaCacatctggctgttccagcca	6	12	9	14	0	3	0	0	0	3	0	5	0	4	0	3	3	2	5	3	3	1	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	46805408	C	A	46805408	3	1	161	1	0	0	0	0	1	0	0	0	7300	478	17	4	314	4	HOXB13	17	46805408	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	20714267	46805408	34389802	54	9068											
CACNG5	27091	hgsc.bcm.edu;ucsc.edu	37	chr17	64873504	64873505	+	Frame_Shift_Ins	INS	-	-	TG																															tgagcagtgtctttgctgtcINStgtggcttgggcctcctggg																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		TG	64873505	-	TG	64873504	7	5	161	1	0	1	1	0	0	0	0	0	2560	900	32	0	56	0	CACNG5	17	64873504	Frame_Shift_Ins	INS	-	TCGA-B0-5709-01A-11D-1534-10	18068096	64873504	16321706	55	9069											
MYOM1	8736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	3135721	3135721	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccagttttctgttcctGcctcacactgcagcaagaac	8	11	8	14	0	2	1	1	0	1	1	3	1	3	1	3	0	5	5	3	0	2	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	3135721	G	A	3135721	3	1	161	1	0	0	0	0	1	0	0	0	10091	1319	46	2	3120	2	MYOM1	18	3135721	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10		3135721	74941527	56	9070											
DMKN	93099	broad.mit.edu	37	chr19	35991482	35991482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgatgacgcgtccgcacCctgaaaggaagaaggggcca	12	4	14	11	3	0	4	0	3	0	1	1	5	1	5	3	3	0	1	3	3	3	0	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	35991482	T	T	35991482	3	4	161	1	0	0	0	0	1	0	0	0	4582	637	22	2	252	2	DMKN	19	35991482	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10		35991482	23137501	57	9071											
STRN4	29888	broad.mit.edu;ucsc.edu	37	chr19	47228597	47228597	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacctccctacctgtgagcCcggaaagcatgtataggttc	9	9	10	13	1	0	1	0	1	0	0	2	2	1	2	4	2	3	4	4	2	4	4	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	47228597	G	G	47228597	2	3	161	1	0	0	0	0	0	0	0	1	15332	610	22	4		4	STRN4	19	47228597	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	11237115	47228597	11900386	58	9072											
ZNF765	91661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53910951	53910951	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgtgtatactttttagAtatctcttccaaatgcatga	10	18	7	6	0	1	2	0	1	1	1	3	2	2	2	1	1	2	2	1	1	5	8	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	53910951	A	T	53910951	3	4	161	1	0	0	0	0	1	0	0	0	18138	347	12	5	153	5	ZNF765	19	53910951	Missense_Mutation	SNP	A	TCGA-B0-5709-01A-11D-1534-10	6682354	53910951	5218032	59	9073											
RIN2	54453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	19977395	19977395	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagaagaacaagcagcgcGactgctcagctcagaaacca	16	3	9	13	2	2	3	2	0	0	3	2	4	2	3	2	0	6	3	2	0	5	0	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	19977395	G	A	19977395	3	1	161	1	0	0	0	0	1	0	0	0	13374	1058	37	1	2311	1	RIN2	20	19977395	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10		19977395	43048125	60	9074											
DHX35	60625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37650496	37650496	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttacaggaaacttcggctGttctcaggaaattctaagca	12	13	8	8	1	2	0	1	0	2	0	4	2	2	2	0	3	3	3	0	3	4	6	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	37650496	G	T	37650496	3	4	161	1	0	0	0	0	1	0	0	0	4508	1377	48	4	1573	4	DHX35	20	37650496	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	17673101	37650496	25375024	61	9075											
ITSN1	6453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	35144369	35144369	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttccttgtctgaagtaacGtttgaagataagaagcggga	12	12	12	5	2	1	4	0	2	1	2	2	5	2	5	1	1	2	3	1	1	5	5	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	35144369	G	C	35144369	2	2	161	1	0	0	0	0	0	0	0	1	7926	1132	40	4		4	ITSN1	21	35144369	Silent	SNP	G	TCGA-B0-5709-01A-11D-1534-10		35144369	12985526	62	9076											
ACE2	59272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	15591566	15591566	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatcatggggcacaggttCcaccaccccaactatctctc	9	10	6	16	0	3	0	2	0	1	0	6	0	4	0	4	3	1	2	4	3	2	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	15591566	C	A	15591566	4	1	161	1	0	0	0	0	0	1	0	0	137	864	30	4	984	4	ACE2	23	15591566	Nonsense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10		15591566	139678994	63	9077											
DDX3X	1654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	41202084	41202084	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaactgtcctccacatattGaaagtgtgagtatttttgct	11	15	7	8	0	0	2	0	2	0	0	2	2	2	2	2	0	2	2	2	0	4	5	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	41202084	G	C	41202084	3	2	161	1	0	0	0	0	1	0	0	0	4358	1291	45	4	560	4	DDX3X	23	41202084	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	25610518	41202084	114068476	64	9078											
DACH2	117154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	85906058	85906058	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtataacagctgcagcgatGgctgaggcgatgaaacttca	12	8	13	8	2	1	2	1	2	0	0	1	4	1	2	0	3	5	4	0	3	3	3	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		C	85906058	G	C	85906058	3	2	161	1	0	0	0	0	1	0	0	0	4221	1348	47	4	674	4	DACH2	23	85906058	Missense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	44703974	85906058	69364502	65	9079											
IL1RAPL2	26280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	104961379	104961379	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaagcctctgaacatcccCtgcaaagcattcttcggatt	10	11	8	12	1	2	1	0	1	2	0	4	2	3	2	3	2	4	3	3	2	3	4	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		G	104961379	C	G	104961379	2	3	161	1	0	0	0	0	0	0	0	1	7662	668	24	4		4	IL1RAPL2	23	104961379	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	19055321	104961379	50309181	66	9080											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107938641	107938641	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actcctacagcttttggctgGcaactgtagatgtgtcagac	9	12	10	10	0	1	2	1	0	0	2	2	2	2	2	1	2	3	4	1	2	3	4	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	107938641	G	A	107938641	4	1	161	1	0	0	0	0	0	1	0	0	3694	1203	42	2	5157	2	COL4A5	23	107938641	Nonsense_Mutation	SNP	G	TCGA-B0-5709-01A-11D-1534-10	2977262	107938641	47331919	67	9081											
STAG2	10735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123197875	123197875	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattggcagataaatttaacCggcttcttgaagattttctg	12	15	8	6	1	2	3	0	1	2	2	2	3	2	3	1	2	1	2	1	2	5	8	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	123197875	C	T	123197875	3	4	161	1	0	0	0	0	1	0	0	0	15244	643	23	1	2069	1	STAG2	23	123197875	Missense_Mutation	SNP	C	TCGA-B0-5709-01A-11D-1534-10	15259234	123197875	32072685	68	9082											
TFDP3	51270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132351937	132351937	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcaccgtctcccagacCttcatggaaagacggcacag	10	7	9	15	2	3	2	1	0	2	2	4	3	3	3	3	2	1	2	3	2	1	1	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		T	132351937	C	T	132351937	2	4	161	1	0	0	0	0	0	0	0	1	15798	680	24	2		2	TFDP3	23	132351937	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	9154062	132351937	22918623	69	9083											
MAMLD1	10046	broad.mit.edu	37	chrX	149639327	149639327	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcttctaagccagcaacaGcagcagcagcagcagcagca	15	4	9	13	0	2	0	0	0	2	0	2	0	2	0	1	0	10	8	1	0	3	2	novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	149639327	A	A	149639327	2	1	161	1	0	0	0	0	0	0	0	1	9208	962	34	2		2	MAMLD1	23	149639327	Silent	SNP	G	TCGA-B0-5709-01A-11D-1534-10	17287390	149639327	5631233	70	9084											
CSAG1	158511	hgsc.bcm.edu;ucsc.edu	37	chrX	151908814	151908814	+	Frame_Shift_Del	DEL	G	G	-																															cactgtcctgggggaagctcGgggagaccaggtggactgga																								novel		TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		-	151908814	G	-	151908814	7	5	161	1	0	1	0	1	0	0	0	0	3926	1116	39	0	59	0	CSAG1	23	151908814	Frame_Shift_Del	DEL	G	TCGA-B0-5709-01A-11D-1534-10	2269487	151908814	3361746	71	9085											
MPP1	4354	broad.mit.edu;ucsc.edu	37	chrX	154010064	154010064	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctcactcttccttggCggccgtgttgtatctgtgta	3	17	9	12	2	4	0	1	0	3	0	6	0	6	0	3	2	0	3	3	2	2	6	rs147268060	alternate_allele	TCGA-B0-5709-01A-11D-1534-10	TCGA-B0-5709-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bfeaecbe-7148-4642-b69a-b908a248f328	3eddc24f-dc63-45e6-b4db-f40af3af4d35		A	154010064	A	A	154010064	2	1	161	1	0	0	0	0	0	0	0	1	9733	755	27	4		4	MPP1	23	154010064	Silent	SNP	C	TCGA-B0-5709-01A-11D-1534-10	2101250	154010064	1260496	72	9086											
RPS6KA1	6195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26897964	26897964	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacagggacctgaagcccAgcaacatcctgtatgtggac	11	7	11	12	0	0	1	0	1	0	0	1	3	1	3	3	2	4	3	3	2	3	1	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	26897964	A	T	26897964	3	4	162	1	0	0	0	0	1	0	0	0	13652	188	7	5	1824	5	RPS6KA1	1	26897964	Missense_Mutation	SNP	A	TCGA-B0-5710-01A-11D-1669-08		26897964	222352657	1	9087											
DIO1	1733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54370442	54370442	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagactttagttccatagcAgattttcttgtcatttacat	11	17	6	7	0	2	2	1	0	1	2	3	3	3	2	1	0	2	2	1	0	4	9	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	54370442	A	G	54370442	2	3	162	1	0	0	0	0	0	0	0	1	4524	175	7	3		3	DIO1	1	54370442	Silent	SNP	A	TCGA-B0-5710-01A-11D-1669-08	27472478	54370442	194880179	2	9088											
RABGGTB	5876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	76255648	76255648	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattgcagattcttacgctGtatgacagtattaatgttat	11	18	7	5	1	1	2	0	1	1	1	1	2	1	2	0	0	2	5	0	0	6	8	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	76255648	G	A	76255648	2	1	162	1	0	0	0	0	0	0	0	1	12970	1364	48	2		2	RABGGTB	1	76255648	Silent	SNP	G	TCGA-B0-5710-01A-11D-1669-08	21885206	76255648	172994973	3	9089											
NUP210L	91181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154112289	154112289	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actttttaccttatagaatgGttcatgaattcgaactttta	12	18	5	6	1	1	2	1	1	0	1	2	3	1	2	1	1	2	1	1	1	7	9	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	154112289	G	A	154112289	3	1	162	1	0	0	0	0	1	0	0	0	10761	1261	44	2	5104	2	NUP210L	1	154112289	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08	77856641	154112289	95138332	4	9090											
LPIN1	23175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11911638	11911638	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaagtgatcgctcccagCgagacgccgtcaagcagctc	9	5	11	16	4	1	2	1	1	0	1	4	3	2	2	3	0	3	3	3	0	2	0	rs145629147	byfrequency;alternate_allele	TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	11911638	C	A	11911638	3	1	162	1	0	0	0	0	1	0	0	0	8918	767	27	4	439	4	LPIN1	2	11911638	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08		11911638	231287735	5	9091											
ITSN2	50618	hgsc.bcm.edu;ucsc.edu	37	chr2	24435521	24435521	+	Frame_Shift_Del	DEL	T	T	-																															cccggcctgcacactcacacTtctgatgagcagtgggtagc																								novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		-	24435521	T	-	24435521	7	5	162	1	0	1	0	1	0	0	0	0	7927	1609	56	0	1038	0	ITSN2	2	24435521	Frame_Shift_Del	DEL	T	TCGA-B0-5710-01A-11D-1669-08	12523883	24435521	218763852	6	9092											
SLC5A7	60482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	108627273	108627273	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaggccttccttgatgttGattccagtccagaagggtct	9	12	11	9	0	1	4	0	2	1	2	4	4	4	4	4	2	0	1	4	2	2	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	108627273	G	A	108627273	3	1	162	1	0	0	0	0	1	0	0	0	14672	1290	45	2	1729	2	SLC5A7	2	108627273	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08	84191752	108627273	134572100	7	9093											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179605552	179605552	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggctgaaagtgaatactGccattgatgcaaagaaattc	16	9	10	6	0	0	5	0	3	0	2	1	5	0	5	1	1	3	2	1	1	5	3	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	179605552	G	A	179605552	2	1	162	1	0	0	0	0	0	0	0	1	16734	1306	46	2		2	TTN	2	179605552	Silent	SNP	G	TCGA-B0-5710-01A-11D-1669-08	70978279	179605552	63593821	8	9094											
VHL	7428	hgsc.bcm.edu	37	chr3	10183767	10183767	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtcatcttctgcaatcGcagtccgcgcgtcgtgctgc	5	10	11	15	5	3	0	1	0	2	0	6	0	4	0	2	1	3	3	2	1	1	1	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		C	10183767	G	C	10183767	3	2	162	1	0	0	0	0	1	0	0	0	17161	1087	38	4	238	4	VHL	3	10183767	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08		10183767	187838663	9	9095											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643654	52643654	+	Frame_Shift_Del	DEL	C	C	-																															tttgtgtagaacaagagcatCtttgtagatcaaagactccg																								novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		-	52643654	C	-	52643654	7	5	162	1	0	1	0	1	0	0	0	0	11491	913	32	0	2718	0	PBRM1	3	52643654	Frame_Shift_Del	DEL	C	TCGA-B0-5710-01A-11D-1669-08	42459887	52643654	145378776	10	9096											
CD96	10225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	111343188	111343188	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtctttcagccagcaatTccagtatgactacccgaggc	9	12	8	12	1	2	1	1	1	1	0	3	2	3	1	3	1	3	2	3	1	3	5	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	111343188	T	A	111343188	3	1	162	1	0	0	0	0	1	0	0	0	3048	1783	62	5	1348	5	CD96	3	111343188	Missense_Mutation	SNP	T	TCGA-B0-5710-01A-11D-1669-08	58699534	111343188	86679242	11	9097											
ACAP2	23527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	195066024	195066024	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgtgccttaattgatCtctgagtttggtcaaacagg	10	13	11	7	0	2	2	1	2	1	0	3	3	2	2	1	2	3	2	1	2	3	3	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	195066024	C	A	195066024	3	1	162	1	0	0	0	0	1	0	0	0	119	913	32	4	2104	4	ACAP2	3	195066024	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08	83722836	195066024	2956406	12	9098											
RAB24	53917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176728945	176728945	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcatcacctggaaggcAgccacactgacgtaatcctc	10	8	8	15	1	2	1	2	1	0	0	4	2	3	2	4	2	1	2	4	2	2	1	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	176728945	A	G	176728945	2	3	162	1	0	0	0	0	0	0	0	1	12913	175	7	3		3	RAB24	5	176728945	Silent	SNP	A	TCGA-B0-5710-01A-11D-1669-08		176728945	4186315	13	9099											
TFAP2A	7020	hgsc.bcm.edu	37	chr6	10410466	10410467	+	Frame_Shift_Ins	INS	-	-	G																															gggggctggaagtcggcattINSgggggtgtgggacagcggcg																								novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	10410467	-	G	10410466	7	5	162	1	0	1	1	0	0	0	0	0	15786	1812	63	0	1189	0	TFAP2A	6	10410466	Frame_Shift_Ins	INS	-	TCGA-B0-5710-01A-11D-1669-08		10410466	160704601	14	9100											
SERINC1	57515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	122768141	122768141	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacctgactattgtttgaaGtacggatgctgtatgaaaga	13	13	10	5	1	0	4	0	3	0	1	0	5	0	5	1	1	3	4	1	1	6	6	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		C	122768141	G	C	122768141	3	2	162	1	0	0	0	0	1	0	0	0	14081	1029	36	4	365	4	SERINC1	6	122768141	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08	112357675	122768141	48346926	15	9101											
LATS1	9113	broad.mit.edu;ucsc.edu	37	chr6	150023180	150023180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttcttgtaacatttgcCggctactgacagtatagtta	11	15	8	7	1	1	1	0	1	1	0	1	2	1	1	1	1	3	4	1	1	6	8	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	150023180	T	T	150023180	3	4	162	1	0	0	0	0	1	0	0	0	8646	652	23	1	3337	1	LATS1	6	150023180	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08	27255039	150023180	21091887	16	9102											
CLDN4	1364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	73245666	73245666	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattgtcacctcgcagacCatctgggagggcctatggat	10	9	11	11	1	2	1	1	0	1	1	3	3	2	3	3	3	1	1	3	3	2	2	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	73245666	C	T	73245666	2	4	162	1	0	0	0	0	0	0	0	1	3487	581	21	2		2	CLDN4	7	73245666	Silent	SNP	C	TCGA-B0-5710-01A-11D-1669-08		73245666	85892997	17	9103											
MYST3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	41804117	41804117	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataatccttactgaaatcgAtgagaaacctgccatagccc	14	10	6	11	1	0	2	0	2	0	1	2	4	1	2	4	0	4	0	4	0	6	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	41804117	A	G	41804117	3	3	162	1	0	0	0	0	1	0	0	0	10104	333	12	3	4050	3	MYST3	8	41804117	Missense_Mutation	SNP	A	TCGA-B0-5710-01A-11D-1669-08		41804117	104559905	18	9104											
PRUNE2	158471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79461509	79461509	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttagcacgagagaagaggAagactctcggaactcaacgt	14	7	11	9	3	2	3	1	0	1	3	3	7	2	5	0	2	3	1	0	2	5	2	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	79461509	A	G	79461509	3	3	162	1	0	0	0	0	1	0	0	0	12643	246	9	3	8900	3	PRUNE2	9	79461509	Missense_Mutation	SNP	A	TCGA-B0-5710-01A-11D-1669-08		79461509	61751922	19	9105											
MYO3A	53904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26313006	26313006	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcagcagaattcaatgacTtcataagcaagtgagtaaaa	17	9	9	6	0	3	3	3	2	0	1	3	3	3	3	0	1	2	3	0	1	6	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	26313006	T	G	26313006	3	3	162	1	0	0	0	0	1	0	0	0	10076	1609	56	5	813	5	MYO3A	10	26313006	Missense_Mutation	SNP	T	TCGA-B0-5710-01A-11D-1669-08		26313006	109221741	20	9106											
ANKRD22	118932	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	90591656	90591656	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacgattctcacatgccctCgcctgcaagcacagatcagg	12	7	8	14	2	2	1	2	0	1	1	4	2	2	1	2	1	4	2	2	1	2	1	rs143516492	alternate_allele	TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	90591656	C	A	90591656	3	1	162	1	0	0	0	0	1	0	0	0	651	884	31	4	446	4	ANKRD22	10	90591656	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08	64278650	90591656	44943091	21	9107											
UBQLN3	50613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5528857	5528857	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccacagcagcatccacGtcgccccccgtagcaatgag	9	7	8	17	3	1	1	0	1	1	0	4	1	2	1	5	0	3	4	5	0	2	2	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	5528857	G	A	5528857	2	1	162	1	0	0	0	0	0	0	0	1	16897	1136	40	1		1	UBQLN3	11	5528857	Silent	SNP	G	TCGA-B0-5710-01A-11D-1669-08		5528857	129477659	22	9108											
DAGLA	747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61511889	61511889	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcctggcggctgacaagatCcggacttctacccccactgg	7	8	11	15	2	1	2	0	1	1	1	2	3	2	3	4	4	2	1	4	4	2	2	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	61511889	C	T	61511889	2	4	162	1	0	0	0	0	0	0	0	1	4226	845	30	2		2	DAGLA	11	61511889	Silent	SNP	C	TCGA-B0-5710-01A-11D-1669-08	55983032	61511889	73494627	23	9109											
C11orf9	0	broad.mit.edu;ucsc.edu	37	chr11	61543864	61543864	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcagcgagaccaccgctAacaacatgcgtaagaagggc	14	5	10	12	3	1	2	1	0	0	2	1	3	1	2	2	1	4	2	2	1	4	3	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		G	61543864	G	G	61543864	3	3	162	1	0	0	0	0	1	0	0	0	1671	362	13	3	1520	3	C11orf9	11	61543864	Missense_Mutation	SNP	A	TCGA-B0-5710-01A-11D-1669-08	31975	61543864	73462652	24	9110											
NCAPD2	9918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6619242	6619242	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactttctttccctcatagtCactttcgaagtatagatcct	9	16	4	12	1	3	1	2	0	1	1	6	2	5	1	2	0	0	1	2	0	4	6	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	6619242	C	A	6619242	3	1	162	1	0	0	0	0	1	0	0	0	10205	840	29	4	215	4	NCAPD2	12	6619242	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08		6619242	127232653	25	9111											
SLCO1B3	28234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21008017	21008017	+	Frame_Shift_Del	DEL	T	T	-																															taaagcactaggtggaatcaTtatgaaaatttccatcactc																								novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		-	21008017	T	-	21008017	7	5	162	1	0	1	0	1	0	0	0	0	14726	1493	52	0	146	0	SLCO1B3	12	21008017	Frame_Shift_Del	DEL	T	TCGA-B0-5710-01A-11D-1669-08	14388775	21008017	112843878	26	9112											
DNAH10	196385	broad.mit.edu;ucsc.edu	37	chr12	124383326	124383326	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagtccgccgcctgcgaggCcttgctggaggagatcgccg	6	6	16	13	5	0	1	0	0	0	1	2	5	1	2	5	3	2	1	5	3	1	1	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	124383326	A	A	124383326	3	1	162	1	0	0	0	0	1	0	0	0	4598	739	26	4	9469	4	DNAH10	12	124383326	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08	103375309	124383326	9468569	27	9113											
UBC	7316	hgsc.bcm.edu	37	chr12	125398050	125398052	+	In_Frame_Del	DEL	TGA	TGA	-																															actgggctcgacctcaagggTgatggtcttgccagtgagtg																								novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		-	125398052	TGA	-	125398050	7	5	162	1	0	1	0	1	0	0	0	0	16841	1696	59	0	1793	0	UBC	12	125398050	In_Frame_Del	DEL	TGA	TCGA-B0-5710-01A-11D-1669-08	1014724	125398050	8453845	28	9114											
GTF2F2	2963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	45841372	45841372	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtttgcatatagatcgAatatgaaaggaaaaagaaag	18	10	10	3	1	0	3	0	1	0	2	1	5	0	4	0	1	2	3	0	1	8	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		C	45841372	A	C	45841372	3	2	162	1	0	0	0	0	1	0	0	0	6859	246	9	5	517	5	GTF2F2	13	45841372	Missense_Mutation	SNP	A	TCGA-B0-5710-01A-11D-1669-08		45841372	69328506	29	9115											
SMEK1	55671	broad.mit.edu;hgsc.bcm.edu	37	chr14	91975891	91975891	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggacatgcccttcagcCgctccacgtagccagacgac	9	5	11	16	3	1	1	1	0	0	1	2	3	2	2	4	1	3	3	4	1	1	2	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	91975891	C	T	91975891	3	4	162	1	0	0	0	0	1	0	0	0	14795	652	23	1	2421	1	SMEK1	14	91975891	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08		91975891	15373649	30	9116											
RTL1	388015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	101351021	101351021	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcactccactgcccgacgtCgcctcggtggtgttggatga	5	9	13	14	5	0	1	0	1	0	0	3	3	1	2	3	3	1	2	3	3	0	1	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	101351021	C	T	101351021	2	4	162	1	0	0	0	0	0	0	0	1	13726	871	31	1		1	RTL1	14	101351021	Silent	SNP	C	TCGA-B0-5710-01A-11D-1669-08	9375130	101351021	5998519	31	9117											
BLM	641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91304206	91304206	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgtgaaagatcagaatAaacatactgcttcaataaat	17	11	6	7	0	2	3	2	1	0	2	2	3	2	3	0	0	4	2	0	0	8	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		C	91304206	A	C	91304206	3	2	162	1	0	0	0	0	1	0	0	0	1445	363	13	5	1625	5	BLM	15	91304206	Missense_Mutation	SNP	A	TCGA-B0-5710-01A-11D-1669-08		91304206	11227186	32	9118											
SF3B3	23450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	70594436	70594436	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtctgatactcgcactcGgtacctggggtcccgtcctg	4	13	11	13	3	1	1	0	1	1	0	5	1	3	1	3	3	2	2	3	3	2	3	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	70594436	G	A	70594436	3	1	162	1	0	0	0	0	1	0	0	0	14154	1116	39	1	2133	1	SF3B3	16	70594436	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08		70594436	19760317	33	9119											
NF1	4763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29687577	29687577	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgattgacacgtacctgcctGgaattgatgaagaaaccagt	13	10	10	8	1	0	5	0	4	0	1	0	6	0	6	3	1	3	1	3	1	4	3	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	29687577	G	T	29687577	4	4	162	1	0	0	0	0	0	1	0	0	10356	1349	47	4	8520	4	NF1	17	29687577	Nonsense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08		29687577	51507633	34	9120											
MRM1	79922	hgsc.bcm.edu;ucsc.edu	37	chr17	34958701	34958701	+	Frame_Shift_Del	DEL	G	G	-																															ctcgtcctcgatgggatccaGgatccccggaattttggggc																								novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		-	34958701	G	-	34958701	7	5	162	1	0	1	0	1	0	0	0	0	9771	991	35	0	464	0	MRM1	17	34958701	Frame_Shift_Del	DEL	G	TCGA-B0-5710-01A-11D-1669-08	5271124	34958701	46236509	35	9121											
GRN	2896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42426617	42426617	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggtcagttctgccctgtgGcctgctgcctggaccccgga	4	10	13	14	1	2	0	1	0	1	0	2	2	2	2	5	4	3	2	5	4	0	1	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	42426617	G	T	42426617	3	4	162	1	0	0	0	0	1	0	0	0	6804	1203	42	4	87	4	GRN	17	42426617	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08	7467916	42426617	38768593	36	9122											
SMURF2	64750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62576936	62576936	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtaggtctggaggagtaTgtaaatgtgttctgctcatg	8	14	14	5	0	3	0	1	0	2	0	3	2	3	2	0	4	1	5	0	4	4	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		C	62576936	T	C	62576936	3	2	162	1	0	0	0	0	1	0	0	0	14822	1464	51	3	1551	3	SMURF2	17	62576936	Missense_Mutation	SNP	T	TCGA-B0-5710-01A-11D-1669-08	20150319	62576936	18618274	37	9123											
STXBP2	6813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7703632	7703632	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaattctgagcggagttattCggagtgtcaagaaggatggg	12	10	15	4	2	2	2	1	1	1	1	3	5	2	5	0	4	1	1	0	4	4	3	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	7703632	C	T	7703632	3	4	162	1	0	0	0	0	1	0	0	0	15354	875	31	1	64	1	STXBP2	19	7703632	Missense_Mutation	SNP	C	TCGA-B0-5710-01A-11D-1669-08		7703632	51425351	38	9124											
APLP1	333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36362618	36362618	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgtgctgtccccctccaggGacccccgacccatctgggac	5	7	11	18	1	1	0	0	0	1	0	3	3	3	2	6	2	1	1	6	2	0	0	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	36362618	G	A	36362618	2	1	162	1	0	0	0	0	0	0	0	1	778	1161	41	2		2	APLP1	19	36362618	Silent	SNP	G	TCGA-B0-5710-01A-11D-1669-08	28658986	36362618	22766365	39	9125											
NCAPH2	29781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50960439	50960439	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccatgccgacagcaggcGgcttcggcgaaagggtccgt	9	5	15	12	5	0	1	0	0	0	1	2	3	1	1	3	4	2	2	3	4	1	1	rs117383090	by1000genomes	TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		A	50960439	G	A	50960439	3	1	162	1	0	0	0	0	1	0	0	0	10210	1116	39	1	1222	1	NCAPH2	22	50960439	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08		50960439	344127	40	9126											
KIAA2022	340533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	73962035	73962035	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgtcgttggtagaaaaGtggaactcttagcagccttt	11	12	11	7	1	1	1	0	0	1	1	2	2	1	2	1	2	4	4	1	2	5	4	novel		TCGA-B0-5710-01A-11D-1669-08	TCGA-B0-5710-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12f1e370-c269-4b95-a89b-a1f3ae42e876	64dd13a7-1b36-43c0-af6d-dcc1c8205ec5		T	73962035	G	T	73962035	3	4	162	1	0	0	0	0	1	0	0	0	8269	1029	36	4	2201	4	KIAA2022	23	73962035	Missense_Mutation	SNP	G	TCGA-B0-5710-01A-11D-1669-08		73962035	81308525	41	9127											
IPP	3652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46212019	46212019	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgatttgggccaagatgAgttgggcatgtttatctgat	9	16	12	4	0	1	4	0	3	1	1	1	4	1	4	1	2	0	3	1	2	3	6	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	46212019	A	T	46212019	3	4	163	1	0	0	0	0	1	0	0	0	7800	304	11	5	1823	5	IPP	1	46212019	Missense_Mutation	SNP	A	TCGA-B0-5711-01A-11D-1669-08		46212019	203038602	1	9128											
NPL	80896	hgsc.bcm.edu;ucsc.edu	37	chr1	182794926	182794926	+	Frame_Shift_Del	DEL	A	A	-																															tcttttctagttttgtatccAgagatttatcaactttgttg																								novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		-	182794926	A	-	182794926	7	5	163	1	0	1	0	1	0	0	0	0	10585	188	7	0	787	0	NPL	1	182794926	Frame_Shift_Del	DEL	A	TCGA-B0-5711-01A-11D-1669-08	136582907	182794926	66455695	2	9129											
GPR75	10936	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	54081819	54081819	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcctggagagaggtgctGtttccttcctgtgagtgagg	5	12	14	10	0	0	3	0	2	0	1	3	5	3	4	4	3	1	2	4	3	0	2	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		C	54081819	G	C	54081819	3	2	163	1	0	0	0	0	1	0	0	0	6708	1368	48	4	1551	4	GPR75	2	54081819	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08		54081819	189117554	3	9130											
COL5A2	1290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	189962055	189962055	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtccctgtgatcctggaggtCcctaaaacagaaaatgatga	13	9	10	9	0	0	4	0	3	0	1	3	5	3	5	3	2	1	0	3	2	4	1	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	189962055	C	T	189962055	3	4	163	1	0	0	0	0	1	0	0	0	3697	869	30	2	4291	2	COL5A2	2	189962055	Missense_Mutation	SNP	C	TCGA-B0-5711-01A-11D-1669-08	135880236	189962055	53237318	4	9131											
ABCA12	26154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215880269	215880269	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagggtgagtccgatgaggTaagactgccgggatctctct	9	9	15	8	2	2	3	0	2	2	1	4	6	3	4	2	3	1	1	2	3	2	1	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		C	215880269	T	C	215880269	3	2	163	1	0	0	0	0	1	0	0	0	30	1638	57	3	6042	3	ABCA12	2	215880269	Missense_Mutation	SNP	T	TCGA-B0-5711-01A-11D-1669-08	25918214	215880269	27319104	5	9132											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191527	10191527	+	Frame_Shift_Del	DEL	A	A	-																															ggagcctagtcaagcctgagAattacaggagactggacatc																								novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		-	10191527	A	-	10191527	7	5	163	1	0	1	0	1	0	0	0	0	17161	246	9	0	530	0	VHL	3	10191527	Frame_Shift_Del	DEL	A	TCGA-B0-5711-01A-11D-1669-08		10191527	187830903	6	9133											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643898	52643898	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatagttctttacagcttcAtagacctcatttagtttctg	9	18	6	8	0	4	1	2	0	2	1	4	1	4	1	1	0	2	4	1	0	5	10	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	52643898	A	T	52643898	4	4	163	1	0	0	0	0	0	1	0	0	11491	224	8	5	2962	5	PBRM1	3	52643898	Nonsense_Mutation	SNP	A	TCGA-B0-5711-01A-11D-1669-08	42452371	52643898	145378532	7	9134											
FAM13A	10144	hgsc.bcm.edu;ucsc.edu	37	chr4	89912229	89912229	+	Frame_Shift_Del	DEL	A	A	-																															actggcaaaggtacttgaggAggcagtagtgggtgtctggc																								novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		-	89912229	A	-	89912229	7	5	163	1	0	1	0	1	0	0	0	0	5452	304	11	0	2688	0	FAM13A	4	89912229	Frame_Shift_Del	DEL	A	TCGA-B0-5711-01A-11D-1669-08		89912229	101242047	8	9135											
KIAA0947	23379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	5462477	5462477	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccacagaagtgactgtGtcaggagggttttctgttga	9	11	13	8	0	2	3	1	2	1	1	2	4	2	4	2	2	1	2	2	2	1	3	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	5462477	G	T	5462477	2	4	163	1	0	0	0	0	0	0	0	1	8202	1364	48	4		4	KIAA0947	5	5462477	Silent	SNP	G	TCGA-B0-5711-01A-11D-1669-08		5462477	175452783	9	9136											
OR10C1	442194	broad.mit.edu;hgsc.bcm.edu	37	chr6	29407843	29407843	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcttcttctcggcttctcCcacctggccgacctccaggg	3	13	8	17	2	4	0	0	0	4	0	7	1	5	0	5	3	0	1	5	3	0	4	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	29407843	C	T	29407843	2	4	163	1	0	0	0	0	0	0	0	1	10898	610	22	2		2	OR10C1	6	29407843	Silent	SNP	C	TCGA-B0-5711-01A-11D-1669-08		29407843	141707224	10	9137											
ELOVL5	60481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	53135507	53135507	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgcagctggtctggatgaTtgtcagcacaaactgaagct	10	9	11	11	1	2	2	1	2	1	0	2	3	2	3	1	2	4	4	1	2	2	1	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		C	53135507	T	C	53135507	3	2	163	1	0	0	0	0	1	0	0	0	5077	1493	52	3	267	3	ELOVL5	6	53135507	Missense_Mutation	SNP	T	TCGA-B0-5711-01A-11D-1669-08	23727664	53135507	117979560	11	9138											
KHDRBS2	202559	broad.mit.edu;ucsc.edu	37	chr6	62604655	62604655	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacaggtggcactggaagcGctccacgggttacagtgctt	8	9	13	11	2	0	0	0	0	0	0	1	1	1	1	1	4	4	4	1	4	3	3	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	62604655	T	T	62604655	3	4	163	1	0	0	0	0	1	0	0	0	8147	1087	38	4	370	4	KHDRBS2	6	62604655	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08	9469148	62604655	108510412	12	9139											
SYNJ2	8871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	158495714	158495714	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattttgttaaacgccaaGactggaagaaacttctggaa	14	12	8	7	1	2	2	0	0	2	2	2	4	2	4	1	2	2	1	1	2	7	5	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	158495714	G	T	158495714	3	4	163	1	0	0	0	0	1	0	0	0	15452	942	33	4	2298	4	SYNJ2	6	158495714	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08	95891059	158495714	12619353	13	9140											
SMC5	23137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	72892386	72892386	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctttgccagtttctccctCaggtatgagagaaataaatg	12	13	8	8	0	3	2	1	1	2	1	4	3	3	2	2	1	1	2	2	1	4	4	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	72892386	C	T	72892386	4	4	163	1	0	0	0	0	0	1	0	0	14788	827	29	2	555	2	SMC5	9	72892386	Nonsense_Mutation	SNP	C	TCGA-B0-5711-01A-11D-1669-08		72892386	68321045	14	9141											
ALDOB	229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104187311	104187312	+	Frame_Shift_Ins	INS	-	-	A																															cttcactcatgccaccagacINSaaaaagcagatgcctggtag																								novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	104187312	-	A	104187311	7	5	163	1	0	1	1	0	0	0	0	0	508	477	17	0	289	0	ALDOB	9	104187311	Frame_Shift_Ins	INS	-	TCGA-B0-5711-01A-11D-1669-08	31294925	104187311	37026120	15	9142											
OR2AG1	144125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6806283	6806283	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagcatggagctctggaaCttcaccttgggaagtggctt	9	10	12	10	0	2	0	1	0	1	0	2	3	2	3	1	4	3	3	1	4	2	3	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	6806283	C	A	6806283	3	1	163	1	0	0	0	0	1	0	0	0	10984	564	20	4	17	4	OR2AG1	11	6806283	Missense_Mutation	SNP	C	TCGA-B0-5711-01A-11D-1669-08		6806283	128200233	16	9143											
AMBRA1	55626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46567203	46567203	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacagcaaagggttcccGtcgactccagtcccagaagt	11	6	9	15	2	0	1	0	0	0	1	4	2	3	1	4	1	1	2	4	1	2	1	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	46567203	G	A	46567203	3	1	163	1	0	0	0	0	1	0	0	0	565	1144	40	1	3184	1	AMBRA1	11	46567203	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08	39760920	46567203	88439313	17	9144											
LATS2	26524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	21557681	21557681	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccactcattgtctgcctCggccaggatgtccctctcgg	5	10	9	17	2	3	0	1	0	2	0	6	1	4	1	4	3	1	0	4	3	0	1	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	21557681	C	A	21557681	4	1	163	1	0	0	0	0	0	1	0	0	8647	893	31	4	1118	4	LATS2	13	21557681	Nonsense_Mutation	SNP	C	TCGA-B0-5711-01A-11D-1669-08		21557681	93612197	18	9145											
C14orf1	11161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	76118207	76118207	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgccccagggcaaggaggaAggtccagagtgtgatgtgat	11	7	16	7	0	0	3	0	2	0	1	1	5	1	5	3	4	1	1	3	4	2	0	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	76118207	A	T	76118207	3	4	163	1	0	0	0	0	1	0	0	0	1733	72	3	5	180	5	C14orf1	14	76118207	Missense_Mutation	SNP	A	TCGA-B0-5711-01A-11D-1669-08		76118207	31231333	19	9146											
MEFV	4210	broad.mit.edu;ucsc.edu	37	chr16	3293876	3293876	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccagcatgtgcctgagcGccaatcagctccggaactac	10	8	9	14	2	1	1	1	1	0	0	2	2	2	2	4	1	7	2	4	1	4	2	rs104895161		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	3293876	A	A	3293876	2	1	163	1	0	0	0	0	0	0	0	1	9459	1074	38	1		1	MEFV	16	3293876	Silent	SNP	G	TCGA-B0-5711-01A-11D-1669-08		3293876	87060877	20	9147											
RNMT	8731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	13737037	13737037	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaaaggtacgacagaaGaaaaaacgtgatatcactgt	18	8	10	5	2	1	3	1	1	0	2	1	5	1	4	0	2	2	1	0	2	8	3	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	13737037	G	T	13737037	3	4	163	1	0	0	0	0	1	0	0	0	13508	933	33	4	592	4	RNMT	18	13737037	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08		13737037	64340211	21	9148											
MEP1B	4225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29788192	29788192	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgggtttcacaggttcccAgggggccagagagtgatcac	10	7	14	10	1	2	2	2	1	0	1	3	3	3	2	2	4	1	2	2	4	1	2	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	29788192	A	T	29788192	3	4	163	1	0	0	0	0	1	0	0	0	9476	179	7	5	911	5	MEP1B	18	29788192	Missense_Mutation	SNP	A	TCGA-B0-5711-01A-11D-1669-08	16051155	29788192	48289056	22	9149											
MYO5B	4645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47438527	47438527	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacccgataccggttgaaaaAgtcatggtaggcccacctgg	11	7	11	12	2	1	1	1	1	0	0	1	2	1	1	4	4	1	2	4	4	4	3	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		C	47438527	A	C	47438527	3	2	163	1	0	0	0	0	1	0	0	0	10079	72	3	5	3531	5	MYO5B	18	47438527	Missense_Mutation	SNP	A	TCGA-B0-5711-01A-11D-1669-08	17650335	47438527	30638721	23	9150											
ACTN4	81	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39216363	39216363	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgcacccacccccgtaGgagatcgggcgcatctccat	7	6	10	18	4	1	1	0	0	1	1	3	2	1	1	5	2	1	3	5	2	1	1	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	39216363	G	A	39216363	5	1	163	1	0	0	0	0	0	0	1	0	207	1014	35	2	2076	2	ACTN4	19	39216363	Splice_Site	SNP	G	TCGA-B0-5711-01A-11D-1669-08		39216363	19912620	24	9151											
PAPL	390928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39597629	39597629	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctttgctgtcttcccgaggCcctggagtgccgtgcgtgtg	2	12	14	13	3	1	0	0	0	1	0	2	2	2	1	4	2	3	1	4	2	0	2	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	39597629	C	T	39597629	3	4	163	1	0	0	0	0	1	0	0	0	11427	739	26	2	1198	2	PAPL	19	39597629	Missense_Mutation	SNP	C	TCGA-B0-5711-01A-11D-1669-08	381266	39597629	19531354	25	9152											
LGALS14	56891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40199946	40199946	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccagagtgcttatcaGcgattgagggagatgatcag	11	9	13	8	1	2	5	2	3	0	2	2	7	2	5	2	1	2	1	2	1	1	2	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	40199946	G	A	40199946	3	1	163	1	0	0	0	0	1	0	0	0	8741	971	34	2	533	2	LGALS14	19	40199946	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08	602317	40199946	18929037	26	9153											
LIPE	3991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42910438	42910438	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggctgccatgatgccaTctggcacccgcaccccgtag	7	7	12	15	2	1	1	0	1	1	0	1	1	1	1	5	3	2	5	5	3	2	2	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	42910438	T	A	42910438	3	1	163	1	0	0	0	0	1	0	0	0	8821	1435	50	5	1006	5	LIPE	19	42910438	Missense_Mutation	SNP	T	TCGA-B0-5711-01A-11D-1669-08	2710492	42910438	16218545	27	9154											
SFRS15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33067196	33067196	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggaaaggctgctgcactGgtggagttggaggaatcaca	10	9	15	7	0	1	0	1	0	0	0	1	4	1	4	0	6	2	4	0	6	2	2	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		A	33067196	G	A	33067196	3	1	163	1	0	0	0	0	1	0	0	0	14173	1348	47	2	2321	2	SFRS15	21	33067196	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08		33067196	15062699	28	9155											
MCM3AP	8888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47663535	47663535	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacagtaggttctgtggaGcaggttctccacctgggact	7	11	12	11	0	2	0	0	0	2	0	3	2	2	2	3	4	2	4	3	4	2	4	novel		TCGA-B0-5711-01A-11D-1669-08	TCGA-B0-5711-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cf09ae91-5523-494c-8f30-c26f6ba37624	bf8e0bcb-ce02-4b84-bd83-f34a5a14f4ea		T	47663535	G	T	47663535	3	4	163	1	0	0	0	0	1	0	0	0	9388	971	34	4	822	4	MCM3AP	21	47663535	Missense_Mutation	SNP	G	TCGA-B0-5711-01A-11D-1669-08	14596339	47663535	466360	29	9156											
RER1	11079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	2333758	2333758	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcatcatgctcttctgtAtcacgatgaagaggcaaatc	12	12	7	10	1	5	2	3	1	2	1	6	3	5	2	0	1	1	3	0	1	3	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	2333758	A	G	2333758	3	3	164	1	0	0	0	0	1	0	0	0	13232	449	16	3	496	3	RER1	1	2333758	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08		2333758	246916863	1	9157											
ARID1A	8289	hgsc.bcm.edu;ucsc.edu	37	chr1	27105569	27105570	+	Frame_Shift_Del	DEL	TC	TC	-																															ccgacgatgcctgattgagaTctttggcattttaaaggagt																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	TC	TC	TC	-	TC	TC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	27105570	TC	-	27105569	7	5	164	1	0	1	0	1	0	0	0	0	913	1435	50	0	5258	0	ARID1A	1	27105569	Frame_Shift_Del	DEL	TC	TCGA-B0-5713-01A-11D-1669-08	24771811	27105569	222145052	2	9158											
MSH4	4438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	76262748	76262748	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggagaaacccgctcaccTcagggtccccgctacaattt	9	8	9	15	3	2	1	2	0	0	1	4	2	3	1	4	2	2	2	4	2	3	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	76262748	T	C	76262748	2	2	164	1	0	0	0	0	0	0	0	1	9872	1538	54	3		3	MSH4	1	76262748	Silent	SNP	T	TCGA-B0-5713-01A-11D-1669-08	49157179	76262748	172987873	3	9159											
LPPR4	9890	broad.mit.edu;ucsc.edu	37	chr1	99767414	99767414	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccacccagttgatgtctaTtgtggctttttaataggagg	10	14	10	7	0	1	1	0	1	1	0	1	2	1	2	2	3	1	2	2	3	4	7	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	99767414	C	C	99767414	2	2	164	1	0	0	0	0	0	0	0	1	8927	1500	52	3		3	LPPR4	1	99767414	Silent	SNP	T	TCGA-B0-5713-01A-11D-1669-08	23504666	99767414	149483207	4	9160											
GON4L	54856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155747557	155747557	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcagctgttcaaatagCtccttcactgtccgatgttg	8	15	7	11	1	4	0	3	0	1	0	6	1	6	0	2	0	2	4	2	0	2	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	155747557	C	A	155747557	3	1	164	1	0	0	0	0	1	0	0	0	6572	796	28	4	4964	4	GON4L	1	155747557	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	55980143	155747557	93503064	5	9161											
PPFIA4	8497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203024644	203024644	+	Frame_Shift_Del	DEL	A	A	-																															agtggcagcatggaagccctAaacctgaagcagctgcgcaa																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	203024644	A	-	203024644	7	5	164	1	0	1	0	1	0	0	0	0	12312	349	13	0	406	0	PPFIA4	1	203024644	Frame_Shift_Del	DEL	A	TCGA-B0-5713-01A-11D-1669-08	47277087	203024644	46225977	6	9162											
FMOD	2331	broad.mit.edu;ucsc.edu	37	chr1	203316461	203316461	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtagaggttctccaggttgGtgttgactggggggatcttc	5	13	17	6	0	2	2	0	1	2	1	4	3	2	3	1	7	0	4	1	7	1	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	203316461	T	T	203316461	3	4	164	1	0	0	0	0	1	0	0	0	5959	1261	44	4	200	4	FMOD	1	203316461	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	291817	203316461	45934160	7	9163											
RAD51AP2	729475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	17699551	17699551	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgccagcccgccttaaaGacacctccaggctcctcaag	10	6	8	17	2	1	1	1	0	0	1	4	1	3	1	6	1	1	1	6	1	3	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	17699551	G	T	17699551	2	4	164	1	0	0	0	0	0	0	0	1	12989	929	33	4		4	RAD51AP2	2	17699551	Silent	SNP	G	TCGA-B0-5713-01A-11D-1669-08		17699551	225499822	8	9164											
NRBP1	29959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27656879	27656879	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggttcgtgctgtgtttgaTaatctgattcaattggagca	10	15	11	5	1	2	2	1	2	1	0	3	3	2	3	0	2	2	4	0	2	3	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	27656879	T	C	27656879	2	2	164	1	0	0	0	0	0	0	0	1	10642	1403	49	3		3	NRBP1	2	27656879	Silent	SNP	T	TCGA-B0-5713-01A-11D-1669-08	9957328	27656879	215542494	9	9165											
PTPN18	26469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	131116984	131116984	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccagggcgtggatggaagCctggcctacattgccacgca	9	6	13	13	2	0	0	0	0	0	0	0	2	0	2	4	4	3	1	4	4	2	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	131116984	C	T	131116984	2	4	164	1	0	0	0	0	0	0	0	1	12786	738	26	2		2	PTPN18	2	131116984	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	103460105	131116984	112082389	10	9166											
TMEM169	92691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216965265	216965265	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagaaacctccacggtctaAactcccaacaacttactccc	13	8	4	16	1	1	1	0	0	1	1	4	1	4	1	4	1	5	1	4	1	7	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	216965265	A	T	216965265	3	4	164	1	0	0	0	0	1	0	0	0	16083	21	1	5	900	5	TMEM169	2	216965265	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	85848281	216965265	26234108	11	9167											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191469	10191469	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttggtttttgcccttccAgtgtatactctgaaagagcg	8	15	10	8	1	1	2	0	1	1	1	2	3	2	2	2	1	3	2	2	1	3	6	rs5030816		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	10191469	A	G	10191469	5	3	164	1	0	0	0	0	0	0	1	0	17161	202	7	3	472	3	VHL	3	10191469	Splice_Site	SNP	A	TCGA-B0-5713-01A-11D-1669-08		10191469	187830961	12	9168											
GPR62	118442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51990645	51990645	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggcacccgcgggcacTcttgcaatgcctccagagac	8	6	11	16	2	1	1	0	0	1	1	2	2	2	1	4	2	3	3	4	2	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	51990645	T	A	51990645	3	1	164	1	0	0	0	0	1	0	0	0	6703	1551	54	5	979	5	GPR62	3	51990645	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	41799176	51990645	146031785	13	9169											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52678783	52678784	+	Frame_Shift_Ins	INS	-	T	T																															agcctttttcatataaaataINStttttttaattgaatttgca																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	52678784	T	T	52678783	7	5	164	1	0	1	1	0	0	0	0	0	11491	449	16	0	4156	0	PBRM1	3	52678783	Frame_Shift_Ins	INS	-	TCGA-B0-5713-01A-11D-1669-08	688138	52678783	145343647	14	9170											
KBTBD8	84541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	67058722	67058722	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtggatgaaagtgtatgaGaccccagatcggctctggga	11	8	14	8	1	1	3	0	2	1	2	2	6	1	5	2	3	0	2	2	3	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	67058722	G	C	67058722	3	2	164	1	0	0	0	0	1	0	0	0	7999	933	33	4	1733	4	KBTBD8	3	67058722	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	14379939	67058722	130963708	15	9171											
HGD	3081	broad.mit.edu;hgsc.bcm.edu	37	chr3	120369637	120369637	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacctgttctccatggaggTattgcagaggaaaatgtgga	11	12	12	6	0	1	1	0	0	1	1	2	4	1	4	2	4	2	3	2	4	4	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	120369637	T	C	120369637	3	2	164	1	0	0	0	0	1	0	0	0	7084	1638	57	3	955	3	HGD	3	120369637	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	53310915	120369637	77652793	16	9172											
ADCY5	111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	123044195	123044195	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcatctccttggacacctGgttgccacccaggtggttgt	5	13	10	13	0	2	0	1	0	1	0	3	1	2	1	4	4	1	2	4	4	0	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	123044195	G	T	123044195	3	4	164	1	0	0	0	0	1	0	0	0	297	1357	47	4	1779	4	ADCY5	3	123044195	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	2674558	123044195	74978235	17	9173											
TOPBP1	11073	broad.mit.edu;hgsc.bcm.edu	37	chr3	133329915	133329915	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgctgcaagtgctagtCttcgttgctgtacattgatt	7	17	9	8	1	2	1	1	1	1	0	3	1	2	1	0	0	5	6	0	0	3	7	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	133329915	C	A	133329915	3	1	164	1	0	0	0	0	1	0	0	0	16368	913	32	4	478	4	TOPBP1	3	133329915	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	10285720	133329915	64692515	18	9174											
PLD1	5337	broad.mit.edu;hgsc.bcm.edu	37	chr3	171377081	171377081	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatcagcacagcttatgAaaaactggttctatgagaaa	15	11	8	7	0	3	2	2	2	1	1	3	3	3	2	0	1	3	3	0	1	5	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	171377081	A	T	171377081	3	4	164	1	0	0	0	0	1	0	0	0	12045	246	9	5	901	5	PLD1	3	171377081	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	38047166	171377081	26645349	19	9175											
PIK3CA	5290	broad.mit.edu	37	chr3	178952077	178952077	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcatgaaacaaatgaaTgatgcacatcatggtggctg	14	12	9	6	0	2	3	2	3	0	0	2	3	2	3	0	2	2	2	0	2	4	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	178952077	A	A	178952077	3	1	164	1	0	0	0	0	1	0	0	0	11913	1461	51	5	3210	5	PIK3CA	3	178952077	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	7574996	178952077	19070353	20	9176											
KNG1	3827	hgsc.bcm.edu;ucsc.edu	37	chr3	186460113	186460114	+	Frame_Shift_Del	DEL	TT	TT	-																															tttcgatctcactgatggccTttcttaatttaagtggctat																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	186460114	TT	-	186460113	7	5	164	1	0	1	0	1	0	0	0	0	8427	1609	56	0	1966	0	KNG1	3	186460113	Frame_Shift_Del	DEL	TT	TCGA-B0-5713-01A-11D-1669-08	7508036	186460113	11562317	21	9177											
BCL6	604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	187447399	187447399	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcgtgcctcttctgggAttgtttccttgggtgaatag	5	16	11	9	1	2	1	0	1	2	0	4	2	3	2	2	2	1	1	2	2	2	6	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	187447399	A	T	187447399	3	4	164	1	0	0	0	0	1	0	0	0	1376	333	12	5	1350	5	BCL6	3	187447399	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	987286	187447399	10575031	22	9178											
THAP9	79725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83838698	83838698	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcacattggcagcacctcGtggagttagtagcactggag	10	9	13	9	1	0	0	0	0	0	0	1	2	0	2	1	3	3	6	1	3	3	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	83838698	G	A	83838698	3	1	164	1	0	0	0	0	1	0	0	0	15850	1145	40	1	1351	1	THAP9	4	83838698	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08		83838698	107315578	23	9179											
MAPK10	5602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87023072	87023072	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataattccagcagaatggAggtgcttaatgccacacaac	15	8	9	9	0	0	1	0	0	0	1	1	3	1	2	2	2	4	2	2	2	5	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	87023072	A	G	87023072	3	3	164	1	0	0	0	0	1	0	0	0	9272	304	11	3	892	3	MAPK10	4	87023072	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	3184374	87023072	104131204	24	9180											
TLL1	7092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	166986847	166986847	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttctaggtttgcaaatatGattatgtggagatctggagt	10	17	11	3	0	2	2	0	1	2	1	2	4	2	3	0	3	1	2	0	3	4	6	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	166986847	G	C	166986847	3	2	164	1	0	0	0	0	1	0	0	0	15944	1290	45	4	2082	4	TLL1	4	166986847	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	79963775	166986847	24167429	25	9181											
FAT1	2195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	187549319	187549319	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	caaaagtacctgactcgatcGagtacagcacttcagcattt	13	10	7	11	2	1	1	1	1	0	0	3	3	1	1	1	0	4	4	1	0	4	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	187549319	G	C	187549319	3	2	164	1	0	0	0	0	1	0	0	0	5689	1059	37	4	9043	4	FAT1	4	187549319	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	20562472	187549319	3604957	26	9182											
SLCO4C1	353189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	101597654	101597654	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaagaaaaaggtattattAaagaccaagcaaagatccat	21	7	7	6	0	0	3	0	0	0	3	1	3	1	3	2	1	2	3	2	1	9	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	101597654	A	G	101597654	3	3	164	1	0	0	0	0	1	0	0	0	14732	372	13	3	1227	3	SLCO4C1	5	101597654	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08		101597654	79317606	27	9183											
TCOF1	6949	hgsc.bcm.edu;ucsc.edu	37	chr5	149771631	149771632	+	Frame_Shift_Ins	INS	-	-	C																															tcctgaggtccagcaggccaINSccaaagcccctgagagctca																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	149771632	-	C	149771631	7	5	164	1	0	1	1	0	0	0	0	0	15707	159	6	0	3513	0	TCOF1	5	149771631	Frame_Shift_Ins	INS	-	TCGA-B0-5713-01A-11D-1669-08	48173977	149771631	31143629	28	9184											
RNF145	153830	hgsc.bcm.edu;ucsc.edu	37	chr5	158601127	158601128	+	Frame_Shift_Ins	INS	-	-	GGACATT																															actaccagttgattccacagINSggacattcccaaggcgagaa																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		GGACATT	158601128	-	GGACATT	158601127	7	5	164	1	0	1	1	0	0	0	0	0	13449	991	35	0	1354	0	RNF145	5	158601127	Frame_Shift_Ins	INS	-	TCGA-B0-5713-01A-11D-1669-08	8829496	158601127	22314133	29	9185											
RANBP17	64901	broad.mit.edu;hgsc.bcm.edu	37	chr5	170336745	170336745	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctcaaagacgttttagtGctagcatgctctcttttaaa	10	16	6	9	1	3	1	1	0	2	1	5	1	3	1	0	0	3	4	0	0	5	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	170336745	G	T	170336745	2	4	164	1	0	0	0	0	0	0	0	1	13029	1306	46	4		4	RANBP17	5	170336745	Silent	SNP	G	TCGA-B0-5713-01A-11D-1669-08	11735618	170336745	10578515	30	9186											
RAB24	53917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176728925	176728925	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaggctggggaagcacacaCctgtcatcacctggaaggca	13	5	12	11	0	2	0	2	0	0	0	2	2	2	2	2	5	1	3	2	5	3	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	176728925	C	T	176728925	5	4	164	1	0	0	0	0	0	0	1	0	12913	521	18	2	71	2	RAB24	5	176728925	Splice_Site	SNP	C	TCGA-B0-5713-01A-11D-1669-08	6392180	176728925	4186335	31	9187											
HNRNPH1	3187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179050064	179050064	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaacctctgcacttcatcgGccgagcaagaccagggcaag	13	5	10	13	2	2	1	1	0	1	1	3	2	2	1	3	2	3	3	3	2	4	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	179050064	G	A	179050064	3	1	164	1	0	0	0	0	1	0	0	0	7266	1203	42	2	1326	2	HNRNPH1	5	179050064	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	2321139	179050064	1865196	32	9188											
CUL7	9820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43017376	43017376	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctatgggcacggccagttCagctaggatctcatcatcca	9	11	9	12	1	4	0	3	0	2	0	6	1	5	1	2	3	1	3	2	3	2	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	43017376	C	T	43017376	3	4	164	1	0	0	0	0	1	0	0	0	4060	835	29	2	3582	2	CUL7	6	43017376	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08		43017376	128097691	33	9189											
CRIP3	401262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43276136	43276136	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttcttgcccagggagcTcaccttctcagctgtggagg	6	10	12	13	0	3	0	2	0	2	0	4	2	3	2	3	3	3	3	3	3	0	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	43276136	T	C	43276136	3	2	164	1	0	0	0	0	1	0	0	0	3876	1551	54	3	587	3	CRIP3	6	43276136	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	258760	43276136	127838931	34	9190											
PAQR8	85315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	52268836	52268836	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtacttcccgggttcctgTgacatcgtgggccatgggca	7	10	13	11	2	0	1	0	1	0	0	3	1	2	1	3	3	1	3	3	3	2	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	52268836	T	A	52268836	4	1	164	1	0	0	0	0	0	1	0	0	11441	1702	59	5	827	5	PAQR8	6	52268836	Nonsense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	8992700	52268836	118846231	35	9191											
FAM83B	222584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54735119	54735119	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacattgagcctcactacaaGgaatggtatcgagtagccat	13	10	9	9	1	1	1	1	1	0	0	2	3	1	2	2	2	4	2	2	2	6	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	54735119	G	C	54735119	3	2	164	1	0	0	0	0	1	0	0	0	5634	991	35	4	77	4	FAM83B	6	54735119	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	2466283	54735119	116379948	36	9192											
UBE2J1	51465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90039627	90039627	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtattcttagctacaGgttgggtaggttgatgaaag	10	13	15	3	0	1	2	0	2	1	0	1	3	1	3	0	5	2	5	0	5	5	7	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	90039627	G	T	90039627	3	4	164	1	0	0	0	0	1	0	0	0	16859	1000	35	4	232	4	UBE2J1	6	90039627	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	35304508	90039627	81075440	37	9193											
MARCKS	4082	broad.mit.edu;hgsc.bcm.edu	37	chr6	114178975	114178975	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagaagccgccgcggagagGcctggggaggcggctgtggc	6	3	22	10	4	0	2	0	0	0	2	0	5	0	3	3	8	1	1	3	8	1	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	114178975	G	C	114178975	3	2	164	1	0	0	0	0	1	0	0	0	9309	1194	42	4	56	4	MARCKS	6	114178975	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	24139348	114178975	56936092	38	9194											
CHST12	55501	hgsc.bcm.edu;ucsc.edu	37	chr7	2473500	2473500	+	Frame_Shift_Del	DEL	A	A	-																															cttcggctaccccaagcccgAaaacctcctccgagactgaa																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	2473500	A	-	2473500	7	5	164	1	0	1	0	1	0	0	0	0	3400	246	9	0	1228	0	CHST12	7	2473500	Frame_Shift_Del	DEL	A	TCGA-B0-5713-01A-11D-1669-08		2473500	156665163	39	9195											
EGFR	1956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	55249116	55249116	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggactatgtccgggaacAcaaagacaatattggctccc	12	8	9	12	1	0	1	0	0	0	1	2	3	2	3	3	3	1	1	3	3	5	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	55249116	A	G	55249116	3	3	164	1	0	0	0	0	1	0	0	0	4967	159	6	3	2756	3	EGFR	7	55249116	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	52775616	55249116	103889547	40	9196											
ACN9	57001	hgsc.bcm.edu;ucsc.edu	37	chr7	96747041	96747046	+	In_Frame_Del	DEL	GGGGCG	GGGGCG	-																															tcggcgtggggcgctatgccGgggcggcacgtttctcgagt																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	GGGGCG	GGGGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	96747046	GGGGCG	-	96747041	7	5	164	1	0	1	0	1	0	0	0	0	145	1103	39	0	8	0	ACN9	7	96747041	In_Frame_Del	DEL	GGGGCG	TCGA-B0-5713-01A-11D-1669-08	41497925	96747041	62391622	41	9197											
ZNF786	136051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148769510	148769510	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaggaacactggctttcAggatctaattggaaatggct	13	10	10	8	0	2	0	1	0	1	0	2	3	2	3	1	5	1	2	1	5	4	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	148769510	A	T	148769510	2	4	164	1	0	0	0	0	0	0	0	1	18157	175	7	5		5	ZNF786	7	148769510	Silent	SNP	A	TCGA-B0-5713-01A-11D-1669-08	52022469	148769510	10369153	42	9198											
TNKS	8658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	9588524	9588524	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctacaccacggtgccgAtgtccatgccaaagacaagg	11	6	10	14	2	0	1	0	0	0	1	1	2	1	1	5	2	4	1	5	2	3	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	9588524	A	C	9588524	3	2	164	1	0	0	0	0	1	0	0	0	16318	333	12	5	2180	5	TNKS	8	9588524	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08		9588524	136775498	43	9199											
PXDNL	137902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	52370154	52370154	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaccttggtctgactctcTggtgtttcggatcatgagtg	6	14	12	9	1	3	2	1	2	2	0	5	4	3	3	1	3	0	1	1	3	0	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	52370154	T	C	52370154	3	2	164	1	0	0	0	0	1	0	0	0	12850	1588	55	3	3565	3	PXDNL	8	52370154	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	42781630	52370154	93993868	44	9200											
NSMAF	8439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	59506790	59506790	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttcggggaggaacactgaCcttgggatgttgtgaatact	9	12	13	7	1	0	2	0	2	0	0	1	5	0	5	1	4	2	1	1	4	3	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	59506790	C	G	59506790	5	3	164	1	0	0	0	0	0	0	1	0	10674	521	18	4	837	4	NSMAF	8	59506790	Splice_Site	SNP	C	TCGA-B0-5713-01A-11D-1669-08	7136636	59506790	86857232	45	9201											
COPS5	10987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67970384	67970384	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactaacatcaatcccagaAagccagcagccatagccagg	15	5	8	13	0	1	1	1	0	0	1	2	1	2	1	4	1	6	2	4	1	5	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	67970384	A	G	67970384	2	3	164	1	0	0	0	0	0	0	0	1	3736	1	1	3		3	COPS5	8	67970384	Silent	SNP	A	TCGA-B0-5713-01A-11D-1669-08	8463594	67970384	78393638	46	9202											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	86022019	86022019	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaatttgtcctgcaatttGattacaaaagtagaaggttt	14	16	7	4	0	0	2	0	1	0	1	1	2	1	2	1	1	2	3	1	1	8	6	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	86022019	G	T	86022019	3	4	164	1	0	0	0	0	1	0	0	0	9026	1281	45	4	300	4	LRRCC1	8	86022019	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	18051635	86022019	60342003	47	9203											
LRP12	29967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	105503616	105503616	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caacctcatctccatctgctGagaccaaagccaatgaccca	13	7	5	16	0	3	2	1	2	2	1	4	3	3	2	5	0	3	1	5	0	3	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	105503616	G	A	105503616	3	1	164	1	0	0	0	0	1	0	0	0	8954	1294	45	2	718	2	LRP12	8	105503616	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	19481597	105503616	40860406	48	9204											
NOL6	65083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	33470170	33470170	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcgaaccccagctgggAgccatgcctggtcagtgagc	8	6	13	14	1	1	1	1	1	0	0	2	3	1	2	4	2	5	2	4	2	1	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	33470170	A	G	33470170	3	3	164	1	0	0	0	0	1	0	0	0	10525	304	11	3	3134	3	NOL6	9	33470170	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08		33470170	107743261	49	9205											
TPM2	7169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35684288	35684288	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactttgccacagacctctCggcaaactctgctcgggtct	8	10	8	15	2	3	1	0	0	3	1	5	1	3	1	2	2	4	2	2	2	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	35684288	C	T	35684288	3	4	164	1	0	0	0	0	1	0	0	0	16405	893	31	1	222	1	TPM2	9	35684288	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	2214118	35684288	105529143	50	9206											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113170849	113170849	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttacaggaaaatgtcacaActcctacctcggtggtcaac	12	10	7	12	1	2	0	2	0	0	0	4	1	3	1	2	3	4	0	2	3	6	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	113170849	A	T	113170849	3	4	164	1	0	0	0	0	1	0	0	0	15419	43	2	5	3728	5	SVEP1	9	113170849	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	77486561	113170849	28042582	51	9207											
CCDC109A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	74619047	74619047	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgactctgttggtgtattTttacgacaactgcaagaaga	11	14	9	7	1	2	3	0	1	2	2	2	4	2	3	0	1	3	3	0	1	5	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	74619047	T	G	74619047	3	3	164	1	0	0	0	0	1	0	0	0	2744	1838	64	5	343	5	CCDC109A	10	74619047	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08		74619047	60915700	52	9208											
C10orf79	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105922142	105922142	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggctttgtgccacggcttaAtgtgtttgtgggctgtaatc	5	16	13	7	1	0	0	0	0	0	0	1	0	0	0	1	3	1	5	1	3	2	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	105922142	A	C	105922142	3	2	164	1	0	0	0	0	1	0	0	0	1618	101	4	5	1787	5	C10orf79	10	105922142	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	31303095	105922142	29612605	53	9209											
CDHR5	53841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	621602	621602	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagaacagaatgtcgtccTtgtcgcggtcctcagcctgc	7	11	11	12	3	1	2	1	0	0	2	5	2	3	2	3	1	3	1	3	1	3	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	621602	T	C	621602	3	2	164	1	0	0	0	0	1	0	0	0	3122	1609	56	3	2114	3	CDHR5	11	621602	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08		621602	134384914	54	9210											
FGF3	2248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	69631129	69631129	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcatggccaggtaccGcccggagaagagacccctga	9	7	12	13	2	1	3	1	1	0	2	1	5	1	3	5	3	1	2	5	3	2	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	69631129	G	A	69631129	3	1	164	1	0	0	0	0	1	0	0	0	5853	1086	38	1	444	1	FGF3	11	69631129	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	69009527	69631129	65375387	55	9211											
REXO2	25996	broad.mit.edu;hgsc.bcm.edu	37	chr11	114314631	114314631	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctggacagcatgtcagaTtggtgtaaggagcatcacgg	10	10	14	7	1	2	1	2	0	0	1	2	3	2	3	0	4	3	4	0	4	1	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	114314631	T	C	114314631	2	2	164	1	0	0	0	0	0	0	0	1	13244	1490	52	3		3	REXO2	11	114314631	Silent	SNP	T	TCGA-B0-5713-01A-11D-1669-08	44683502	114314631	20691885	56	9212											
CACNA2D4	93589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2027490	2027490	+	Frame_Shift_Del	DEL	G	G	-																															agcagccacaggagggccgaGgtcttctgcacaaaggccca																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	2027490	G	-	2027490	7	5	164	1	0	1	0	1	0	0	0	0	2551	987	35	0	3415	0	CACNA2D4	12	2027490	Frame_Shift_Del	DEL	G	TCGA-B0-5713-01A-11D-1669-08		2027490	131824405	57	9213											
TAS2R42	353164	broad.mit.edu;hgsc.bcm.edu	37	chr12	11339532	11339532	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagaaagattttgtccaaTtcggtggccatctccagaga	12	11	9	9	1	2	3	1	0	1	3	5	4	3	3	3	2	0	0	3	2	2	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	11339532	T	G	11339532	3	3	164	1	0	0	0	0	1	0	0	0	15579	1490	52	5	936	5	TAS2R42	12	11339532	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	9312042	11339532	122512363	58	9214											
ESPL1	9700	broad.mit.edu	37	chr12	53670456	53670456	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggagaccctggccctcctgCtgagggaggagctgcaggcc	6	5	16	14	1	0	2	0	1	0	1	1	5	1	4	4	5	3	3	4	5	0	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	53670456	T	T	53670456	2	4	164	1	0	0	0	0	0	0	0	1	5253	796	28	2		2	ESPL1	12	53670456	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	42330924	53670456	80181439	59	9215											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53685569	53685569	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagagcgagcccaggagctCctgaatgaggcagtaggacg	11	4	15	11	2	0	3	0	2	0	1	1	6	1	5	3	3	3	3	3	3	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	53685569	C	T	53685569	2	4	164	1	0	0	0	0	0	0	0	1	5253	842	30	2		2	ESPL1	12	53685569	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	15113	53685569	80166326	60	9216											
FGD6	55785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	95546724	95546724	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctctgagctcatgatctCcttggcaatatgatgaactt	9	16	7	9	0	3	4	1	4	2	0	5	4	3	4	1	1	2	2	1	1	3	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	95546724	C	A	95546724	4	1	164	1	0	0	0	0	0	1	0	0	5837	864	30	4	1732	4	FGD6	12	95546724	Nonsense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	41861155	95546724	38305171	61	9217											
STAB2	55576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104056757	104056757	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccatcgatgtgatgaaaCaaagagagagatgaaactgg	16	6	12	7	1	0	5	0	3	0	2	1	8	0	5	2	1	2	0	2	1	3	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	104056757	C	A	104056757	3	1	164	1	0	0	0	0	1	0	0	0	15239	478	17	4	2073	4	STAB2	12	104056757	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	8510033	104056757	29795138	62	9218											
HSP90B1	7184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104341195	104341195	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggaacagatgaagaagAagaaacagcaaaggtatggc	18	5	14	4	0	0	5	0	1	0	4	0	6	0	6	0	3	3	2	0	3	7	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	104341195	A	C	104341195	3	2	164	1	0	0	0	0	1	0	0	0	7403	246	9	5	2435	5	HSP90B1	12	104341195	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	284438	104341195	29510700	63	9219											
GPC5	2262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	92346002	92346002	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacactggcatgcatataTccggtcgttggaagaactct	10	11	9	11	2	1	1	0	0	1	1	4	2	3	2	2	3	2	3	2	3	4	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	92346002	T	C	92346002	3	2	164	1	0	0	0	0	1	0	0	0	6601	1435	50	3	897	3	GPC5	13	92346002	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08		92346002	22823876	64	9220											
TM9SF2	9375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	100207857	100207857	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattttggttattacctgtTctgaagcaactatacttctt	9	19	5	8	0	3	1	1	1	2	0	3	1	3	1	1	1	4	3	1	1	6	9	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	100207857	T	A	100207857	3	1	164	1	0	0	0	0	1	0	0	0	15977	1783	62	5	1766	5	TM9SF2	13	100207857	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	7861855	100207857	14962021	65	9221											
OXA1L	5018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23239464	23239464	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggtattaaactctataaaCctctcattctccctgtgact	11	15	4	11	0	3	1	1	1	3	0	5	1	3	1	2	1	2	1	2	1	6	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	23239464	C	G	23239464	3	3	164	1	0	0	0	0	1	0	0	0	11328	507	18	4	844	4	OXA1L	14	23239464	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08		23239464	84110076	66	9222											
IRF9	10379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24633841	24633841	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agactactcactgctgctcaCcttcatctacaacgggcgcg	9	9	8	15	3	4	1	3	0	1	1	4	1	4	1	1	1	5	2	1	1	3	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	24633841	C	G	24633841	3	3	164	1	0	0	0	0	1	0	0	0	7837	507	18	4	690	4	IRF9	14	24633841	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	1394377	24633841	82715699	67	9223											
SYT16	83851	hgsc.bcm.edu;ucsc.edu	37	chr14	62462755	62462755	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatggtgttggccatggcGtctcaggatgttcagaactt	7	12	13	9	1	2	1	2	0	1	1	3	2	2	2	2	4	1	2	2	4	1	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	62462755	G	A	62462755	2	1	164	1	0	0	0	0	0	0	0	1	15471	1132	40	1		1	SYT16	14	62462755	Silent	SNP	G	TCGA-B0-5713-01A-11D-1669-08	37828914	62462755	44886785	68	9224											
SIPA1L1	26037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	72055449	72055449	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accactcaagcgacgttcaaAatctgaaactggagactcat	15	8	7	11	2	4	2	3	1	1	1	4	4	4	2	1	1	2	1	1	1	4	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	72055449	A	T	72055449	3	4	164	1	0	0	0	0	1	0	0	0	14331	14	1	5	862	5	SIPA1L1	14	72055449	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	9592694	72055449	35294091	69	9225											
C14orf43	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74205375	74205375	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggatcactccgccccgtAgcacctgcccacagtcccct	6	8	7	20	2	2	0	1	0	1	0	4	1	4	1	7	1	2	2	7	1	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	74205375	A	T	74205375	3	4	164	1	0	0	0	0	1	0	0	0	1774	420	15	5	1844	5	C14orf43	14	74205375	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	2149926	74205375	33144165	70	9226											
OTUB2	78990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94511094	94511094	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttccggcacttcattgatGaggagatggacatcaaagac	12	10	10	9	1	3	4	2	2	1	2	4	6	4	5	1	3	0	1	1	3	1	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	94511094	G	A	94511094	3	1	164	1	0	0	0	0	1	0	0	0	11312	1291	45	2	484	2	OTUB2	14	94511094	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	20305719	94511094	12838446	71	9227											
SERPINA12	145264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94964436	94964436	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttctgaagttgaaccccTgcttgatctcgtccagggtg	6	14	10	11	1	3	3	0	3	3	0	5	3	4	3	3	1	2	2	3	1	2	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	94964436	T	A	94964436	3	1	164	1	0	0	0	0	1	0	0	0	14091	1580	55	5	961	5	SERPINA12	14	94964436	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	453342	94964436	12385104	72	9228											
BCL11B	64919	broad.mit.edu;hgsc.bcm.edu	37	chr14	99641322	99641322	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaggcgccgcgcttctgCttgtcggccaggagctcgcc	5	7	15	14	5	1	0	0	0	1	0	3	2	1	2	3	4	2	3	3	4	1	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	99641322	C	T	99641322	2	4	164	1	0	0	0	0	0	0	0	1	1364	796	28	2		2	BCL11B	14	99641322	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	4676886	99641322	7708218	73	9229											
SPG21	51324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65273294	65273294	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggggcaggaatatgagagGacacctgatacttcgggggc	11	6	17	7	1	0	2	0	2	0	1	1	5	0	4	1	6	1	1	1	6	3	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	65273294	G	T	65273294	3	4	164	1	0	0	0	0	1	0	0	0	15044	1174	41	4	821	4	SPG21	15	65273294	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08		65273294	37258098	74	9230											
SPESP1	246777	hgsc.bcm.edu;ucsc.edu	37	chr15	69238350	69238350	+	Frame_Shift_Del	DEL	A	A	-																															gcaaaacaaactgaggcaccAagaatgttgccagttgttac																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	69238350	A	-	69238350	7	5	164	1	0	1	0	1	0	0	0	0	15041	117	5	0	483	0	SPESP1	15	69238350	Frame_Shift_Del	DEL	A	TCGA-B0-5713-01A-11D-1669-08	3965056	69238350	33293042	75	9231											
HCN4	10021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	73616205	73616205	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtcatgctgcacaatctgCtggatgatctcattctcctg	7	13	9	12	1	4	1	2	1	3	0	6	2	4	2	1	2	3	3	1	2	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	73616205	C	A	73616205	3	1	164	1	0	0	0	0	1	0	0	0	6999	796	28	4	1386	4	HCN4	15	73616205	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	4377855	73616205	28915187	76	9232											
RAB11FIP3	9727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	476674	476674	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatggggacggtttcgtccGcatcgaggacttcatccagt	7	10	14	10	4	1	0	1	0	0	0	5	4	3	3	2	5	0	2	2	5	0	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	476674	G	T	476674	3	4	164	1	0	0	0	0	1	0	0	0	12897	1087	38	4	670	4	RAB11FIP3	16	476674	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08		476674	89878079	77	9233											
CORO7	79585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4408461	4408461	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcccgcacgtcgcactcCgtcttaggcaggaggacgag	8	7	12	14	5	1	0	0	0	1	0	4	3	3	2	2	3	0	3	2	3	1	2	rs151072609	alternate_allele	TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	4408461	C	T	4408461	2	4	164	1	0	0	0	0	0	0	0	1	3759	639	23	1		1	CORO7	16	4408461	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	3931787	4408461	85946292	78	9234											
TMC5	79838	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	19475156	19475156	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattccatcagcctgtggcAgaagacgctgaagatcattg	12	9	11	9	1	2	4	2	1	0	3	3	5	3	4	2	1	1	2	2	1	3	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	19475156	A	G	19475156	3	3	164	1	0	0	0	0	1	0	0	0	15987	188	7	3	1631	3	TMC5	16	19475156	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	15066695	19475156	70879597	79	9235											
ITGAL	3683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30505581	30505581	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaaaagacttcgttgctggCctcgggagcccctcgatacc	8	8	11	14	3	0	1	0	0	0	1	3	3	0	2	4	2	3	3	4	2	3	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	30505581	C	T	30505581	3	4	164	1	0	0	0	0	1	0	0	0	7886	739	26	2	1308	2	ITGAL	16	30505581	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	11030425	30505581	59849172	80	9236											
ACD	65057	broad.mit.edu;ucsc.edu	37	chr16	67694268	67694269	+	Frame_Shift_Ins	INS	-	G	G																															caccccgcgcctgcgcacgaINSgggcgtcctgctcgggggcc																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	67694269	G	G	67694268	7	5	164	1	0	1	1	0	0	0	0	0	135	291	11	0	1568	0	ACD	16	67694268	Frame_Shift_Ins	INS	-	TCGA-B0-5713-01A-11D-1669-08	37188687	67694268	22660485	81	9237											
ZFP90	146198	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68598499	68598499	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgatcatcagagaattcaTactggagaaaaaccctattc	16	10	6	9	0	3	3	3	1	0	2	4	5	3	3	1	1	2	0	1	1	5	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	68598499	T	C	68598499	2	2	164	1	0	0	0	0	0	0	0	1	17653	1403	49	3		3	ZFP90	16	68598499	Silent	SNP	T	TCGA-B0-5713-01A-11D-1669-08	904231	68598499	21756254	82	9238											
MLYCD	23417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	83949048	83949048	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatcaaagcctctgagcAggtcctcagcctagtggccc	9	8	10	14	0	4	1	3	1	1	0	5	2	5	1	4	2	3	1	4	2	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	83949048	A	G	83949048	3	3	164	1	0	0	0	0	1	0	0	0	9638	188	7	3	1454	3	MLYCD	16	83949048	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	15350549	83949048	6405705	83	9239											
RPH3AL	9501	hgsc.bcm.edu;ucsc.edu	37	chr17	171101	171102	+	Frame_Shift_Ins	INS	-	-	CT																															ggacgtcgagccgctctgccINSctctggatgacctgcaggat																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		CT	171102	-	CT	171101	7	5	164	1	0	1	1	0	0	0	0	0	13554	622	22	0	792	0	RPH3AL	17	171101	Frame_Shift_Ins	INS	-	TCGA-B0-5713-01A-11D-1669-08		171101	81024109	84	9240											
EFTUD2	9343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42953390	42953390	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccaggatcagccggtCaatcttgttgatgcacacag	10	9	10	12	1	3	1	2	1	1	0	4	2	4	2	2	2	3	3	2	2	1	2	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	42953390	C	A	42953390	3	1	164	1	0	0	0	0	1	0	0	0	4961	826	29	4	2213	4	EFTUD2	17	42953390	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	42782289	42953390	38241820	85	9241											
C17orf46	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	43332848	43332848	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctgtcaggtcaatgggtGgcgggagatctgaggacagg	8	8	18	7	1	4	2	2	1	2	1	4	4	4	3	0	6	0	1	0	6	1	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	43332848	G	T	43332848	3	4	164	1	0	0	0	0	1	0	0	0	1857	1348	47	4	461	4	C17orf46	17	43332848	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	379458	43332848	37862362	86	9242											
CCDC45	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	62512942	62512942	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggaaaagagtttcttttGggaggtagcacttagtgtct	10	14	12	5	0	2	1	0	0	2	1	2	3	2	3	0	3	1	3	0	3	4	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	62512942	G	C	62512942	3	2	164	1	0	0	0	0	1	0	0	0	2816	1348	47	4	487	4	CCDC45	17	62512942	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	19180094	62512942	18682268	87	9243											
SDK2	54549	broad.mit.edu	37	chr17	71429919	71429919	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccccgaggtctcacatgCtagcaccactgacatgccat	9	7	8	17	2	1	1	1	1	1	0	2	2	1	1	4	1	3	2	4	1	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	71429919	A	A	71429919	3	1	164	1	0	0	0	0	1	0	0	0	13971	797	28	4	5398	4	SDK2	17	71429919	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	8916977	71429919	9765291	88	9244											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu	37	chr17	76535832	76535832	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttacatctataaccatgTtgtccattaggaaactcaga	15	12	5	9	0	2	1	1	0	1	1	3	2	3	2	2	1	4	1	2	1	6	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	76535832	T	C	76535832	3	2	164	1	0	0	0	0	1	0	0	0	4601	1725	60	3	10981	3	DNAH17	17	76535832	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	5105913	76535832	4659378	89	9245											
SLC26A11	284129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78196524	78196524	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcccgggatgtgactcTgggccccaccgccattatgt	6	9	10	16	2	1	1	0	1	1	0	2	2	2	2	6	2	0	0	6	2	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	78196524	T	G	78196524	3	3	164	1	0	0	0	0	1	0	0	0	14518	1580	55	5	311	5	SLC26A11	17	78196524	Missense_Mutation	SNP	T	TCGA-B0-5713-01A-11D-1669-08	1660692	78196524	2998686	90	9246											
ATP8B1	5205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55399034	55399034	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttctgagtctctttctgtActcattctgctggcaaattg	6	18	8	9	0	5	1	1	1	4	0	6	1	5	1	0	1	2	4	0	1	2	5	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	55399034	A	G	55399034	2	3	164	1	0	0	0	0	0	0	0	1	1194	388	14	3		3	ATP8B1	18	55399034	Silent	SNP	A	TCGA-B0-5713-01A-11D-1669-08		55399034	22678214	91	9247											
TCF3	6929	broad.mit.edu	37	chr19	1625673	1625673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggggacaggggcccggggCtgttgagggccagctcgcct	6	5	19	11	2	0	1	0	1	0	0	1	2	0	2	3	7	1	3	3	7	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	1625673	T	T	1625673	3	4	164	1	0	0	0	0	1	0	0	0	15693	797	28	2	1846	2	TCF3	19	1625673	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08		1625673	57503310	92	9248											
ZFR2	23217	broad.mit.edu	37	chr19	3831667	3831667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtcttacccgtgtaggCggtgcaggtggggttgtagg	4	11	19	7	2	1	0	0	0	1	0	1	0	1	0	1	7	2	5	1	7	3	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	3831667	T	T	3831667	3	4	164	1	0	0	0	0	1	0	0	0	17659	768	27	1	2294	1	ZFR2	19	3831667	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	2205994	3831667	55297316	93	9249											
PNPLA6	10908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7614966	7614966	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcccaacgcgactgcacCttcctgcggatctccaagtc	8	7	9	17	4	1	0	0	0	1	0	4	3	2	1	4	1	4	1	4	1	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	7614966	C	T	7614966	2	4	164	1	0	0	0	0	0	0	0	1	12169	668	24	2		2	PNPLA6	19	7614966	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	3783299	7614966	51514017	94	9250											
ANGPTL6	83854	broad.mit.edu;hgsc.bcm.edu	37	chr19	10206762	10206762	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcggaacttgacgtccaGctggtggaaccgggcggctg	6	7	16	12	5	0	1	0	1	0	0	2	3	1	3	2	5	3	2	2	5	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		C	10206762	G	C	10206762	3	2	164	1	0	0	0	0	1	0	0	0	618	962	34	4	954	4	ANGPTL6	19	10206762	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08	2591796	10206762	48922221	95	9251											
KLK6	5653	broad.mit.edu	37	chr19	51462529	51462529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttaccccatgacacaaggCctcggaggtggtctccacat	9	9	10	13	1	1	1	0	1	1	0	3	2	1	2	4	4	1	1	4	4	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	51462529	T	T	51462529	3	4	164	1	0	0	0	0	1	0	0	0	8408	739	26	2	112	2	KLK6	19	51462529	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	41255767	51462529	7666454	96	9252											
ZNF761	388561	hgsc.bcm.edu	37	chr19	53958187	53958187	+	Frame_Shift_Del	DEL	A	A	-																															attaaagatcagcttggatcAagctttcattcgcatctgcc																								novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		-	53958187	A	-	53958187	7	5	164	1	0	1	0	1	0	0	0	0	18135	117	5	0	437	0	ZNF761	19	53958187	Frame_Shift_Del	DEL	A	TCGA-B0-5713-01A-11D-1669-08	2495658	53958187	5170796	97	9253											
SNRPB	6628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2442418	2442418	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtctagggccttggtgggCgcattcccgggggagggggc	4	7	21	9	2	1	0	0	0	1	0	2	2	2	1	2	7	0	1	2	7	1	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	2442418	C	T	2442418	3	4	164	1	0	0	0	0	1	0	0	0	14863	768	27	1	19	1	SNRPB	20	2442418	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08		2442418	60583102	98	9254											
PRNP	5621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	4680528	4680528	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcacccagtacgagagggAatctcaggcctattaccaga	13	8	9	11	1	2	2	2	0	1	2	3	4	2	3	3	2	2	1	3	2	5	4	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	4680528	A	G	4680528	3	3	164	1	0	0	0	0	1	0	0	0	12546	246	9	3	664	3	PRNP	20	4680528	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	2238110	4680528	58344992	99	9255											
EP300	2033	broad.mit.edu;hgsc.bcm.edu	37	chr22	41513594	41513594	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcctgccatgggaatgaaCacagggatgaatgcgggcat	12	6	14	9	1	0	2	0	2	0	0	0	4	0	4	2	3	4	1	2	3	3	0	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	41513594	C	A	41513594	3	1	164	1	0	0	0	0	1	0	0	0	5148	477	17	4	504	4	EP300	22	41513594	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08		41513594	9790972	100	9256											
MAGEB10	139422	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	27840420	27840420	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgttagtgccacagccGgtgcacgttccaaggttaag	8	9	12	12	4	0	0	0	0	0	0	2	0	1	0	3	2	3	4	3	2	3	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		A	27840420	G	A	27840420	3	1	164	1	0	0	0	0	1	0	0	0	9173	1116	39	1	999	1	MAGEB10	23	27840420	Missense_Mutation	SNP	G	TCGA-B0-5713-01A-11D-1669-08		27840420	127430140	101	9257											
GPKOW	27238	broad.mit.edu;ucsc.edu	37	chrX	48979947	48979947	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaatccttctcctccggAgatggccccgcgccgtctcc	7	8	9	17	4	2	2	0	0	2	2	6	3	4	2	7	2	0	0	7	2	2	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	48979947	T	T	48979947	2	4	164	1	0	0	0	0	0	0	0	1	6613	291	11	5		5	GPKOW	23	48979947	Silent	SNP	A	TCGA-B0-5713-01A-11D-1669-08	21139527	48979947	106290613	102	9258											
ATRX	546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	76939124	76939124	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatccccttgatgatcaaCtgaactctgaacttccatag	11	11	6	13	0	2	4	1	4	1	0	4	4	4	4	4	0	3	0	4	0	4	3	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		G	76939124	C	G	76939124	3	3	164	1	0	0	0	0	1	0	0	0	1208	565	20	4	5962	4	ATRX	23	76939124	Missense_Mutation	SNP	C	TCGA-B0-5713-01A-11D-1669-08	27959177	76939124	78331436	103	9259											
ATP11C	286410	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	138827926	138827926	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtctgaaaaagaaagtaagtCccaaagaagaacactgtccc	18	6	8	9	0	1	4	0	1	1	3	3	4	3	4	2	0	1	1	2	0	7	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	138827926	C	T	138827926	2	4	164	1	0	0	0	0	0	0	0	1	1121	842	30	2		2	ATP11C	23	138827926	Silent	SNP	C	TCGA-B0-5713-01A-11D-1669-08	61888802	138827926	16442634	104	9260											
ZNF185	7739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	152132417	152132417	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagctgcatggtcactgttActgtcactgccacatctgag	8	11	10	12	1	3	1	2	1	1	0	3	2	3	1	1	1	4	3	1	1	1	1	novel		TCGA-B0-5713-01A-11D-1669-08	TCGA-B0-5713-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f35dbf4-3223-4550-951b-1409a30ece68	befd76b7-c750-45f1-b5fd-a132ad345ac2		T	152132417	A	T	152132417	3	4	164	1	0	0	0	0	1	0	0	0	17751	391	14	5	1953	5	ZNF185	23	152132417	Missense_Mutation	SNP	A	TCGA-B0-5713-01A-11D-1669-08	13304491	152132417	3138143	105	9261											
UBE4B	10277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10163061	10163061	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccttacagctggtctgtaAgatcttccgtgtctcttgga	6	14	11	10	1	3	1	0	0	3	1	5	2	4	2	2	3	2	2	2	3	2	4	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	10163061	A	C	10163061	3	2	165	1	0	0	0	0	1	0	0	0	16882	72	3	5	509	5	UBE4B	1	10163061	Missense_Mutation	SNP	A	TCGA-B0-5812-01A-11D-1669-08		10163061	239087560	1	9262											
NUP133	55746	broad.mit.edu;hgsc.bcm.edu	37	chr1	229643913	229643913	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgctagccgtccggggCgtggagccgggcccgagtcc	3	7	16	15	5	0	0	0	0	0	0	3	2	3	1	6	4	3	1	6	4	1	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		G	229643913	C	G	229643913	2	3	165	1	0	0	0	0	0	0	0	1	10754	755	27	4		4	NUP133	1	229643913	Silent	SNP	C	TCGA-B0-5812-01A-11D-1669-08	219480852	229643913	19606708	2	9263											
VWA3B	200403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	98804531	98804531	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccacgtcaacattaccAaagagaagtgcaagtggtac	14	8	10	9	1	1	1	1	0	0	1	2	2	2	1	2	2	4	2	2	2	6	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		G	98804531	A	G	98804531	3	3	165	1	0	0	0	0	1	0	0	0	17240	131	5	3	1439	3	VWA3B	2	98804531	Missense_Mutation	SNP	A	TCGA-B0-5812-01A-11D-1669-08		98804531	144394842	3	9264											
NCKAP5	344148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	133539879	133539879	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctggcaaaagaaggcccaGgcttctgctttgcttccaca	10	9	10	12	0	1	1	0	0	1	1	2	1	2	1	2	3	3	5	2	3	3	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	133539879	G	T	133539879	3	4	165	1	0	0	0	0	1	0	0	0	10223	1000	35	4	1252	4	NCKAP5	2	133539879	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	34735348	133539879	109659494	4	9265											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141812722	141812722	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttcccaagttgaagccAgtcctgcagcgacaagtccg	10	8	9	14	2	1	1	1	1	0	0	4	2	4	1	4	0	3	2	4	0	3	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	141812722	A	T	141812722	2	4	165	1	0	0	0	0	0	0	0	1	8955	175	7	5		5	LRP1B	2	141812722	Silent	SNP	A	TCGA-B0-5812-01A-11D-1669-08	8272843	141812722	101386651	5	9266											
ALPP	250	broad.mit.edu;hgsc.bcm.edu	37	chr2	233245025	233245025	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaggaatggctggcgaagCgccaggtgatgggggctggc	7	6	20	8	2	0	1	0	1	0	0	0	3	0	2	1	7	2	3	1	7	2	0	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	233245025	C	T	233245025	3	4	165	1	0	0	0	0	1	0	0	0	548	768	27	1	809	1	ALPP	2	233245025	Missense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08	91432303	233245025	9954348	6	9267											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188290	10188290	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctctcaatgttgacggaCagcctatttttgccaatatc	10	14	6	11	1	2	1	1	1	1	0	4	2	2	2	2	1	2	1	2	1	4	5	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	10188290	C	T	10188290	4	4	165	1	0	0	0	0	0	1	0	0	17161	479	17	2	439	2	VHL	3	10188290	Nonsense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08		10188290	187834140	7	9268											
NLGN1	22871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	173998403	173998403	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggattaaaaccaagagtTaaagaacattacagagccaa	20	8	7	6	0	0	3	0	0	0	3	0	4	0	4	2	1	4	1	2	1	8	4	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		G	173998403	T	G	173998403	2	3	165	1	0	0	0	0	0	0	0	1	10461	1741	61	5		5	NLGN1	3	173998403	Silent	SNP	T	TCGA-B0-5812-01A-11D-1669-08	163810113	173998403	24024027	8	9269											
MCF2L2	23101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182897463	182897463	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcgtgactgtcgtccgaCtggaaaaggcccgcgagctg	7	9	14	11	5	0	1	0	1	0	0	3	4	1	2	2	2	1	2	2	2	2	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	182897463	C	T	182897463	2	4	165	1	0	0	0	0	0	0	0	1	9380	564	20	2		2	MCF2L2	3	182897463	Silent	SNP	C	TCGA-B0-5812-01A-11D-1669-08	8899060	182897463	15124967	9	9270											
FIP1L1	81608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	54265975	54265975	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtttacttctcctcctTctttgttcaagactgggctt	5	18	7	11	0	3	2	1	1	2	1	5	2	4	2	2	1	1	3	2	1	2	7	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	54265975	T	C	54265975	3	2	165	1	0	0	0	0	1	0	0	0	5896	1783	62	3	822	3	FIP1L1	4	54265975	Missense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08		54265975	136888301	10	9271											
C5orf42	65250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37120329	37120329	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtcttaccatgtggccaaGgtgagccttgaggttgccca	9	10	12	10	0	1	2	0	2	1	0	1	2	1	2	4	3	3	1	4	3	3	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	37120329	G	C	37120329	3	2	165	1	0	0	0	0	1	0	0	0	2301	1000	35	4	472	4	C5orf42	5	37120329	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08		37120329	143794931	11	9272											
APC	324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112170717	112170717	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgcactgagaataaagctGatatatgtgctgtagatggt	13	13	11	4	0	0	3	0	2	0	2	0	4	0	3	0	1	3	4	0	1	6	5	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	112170717	G	A	112170717	3	1	165	1	0	0	0	0	1	0	0	0	763	1290	45	2	1867	2	APC	5	112170717	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	75050388	112170717	68744543	12	9273											
CEP120	153241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	122722335	122722335	+	Missense_Mutation	SNP	G	G	C																															gattagtcataataggagctGcacttccaaagaatggatat																								novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	122722335	G	C	122722335	3	2	165	1	0	0	0	0	1	0	0	0	3246	1319	46	4	1547	4	CEP120	5	122722335	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	10551618	122722335	58192925	13	9274	134	2									
CEP120	153241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	122722336	122722336	+	Missense_Mutation	SNP	C	C	A																															attagtcataataggagctgCacttccaaagaatggatatg																								novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	122722336	C	A	122722336	3	1	165	1	0	0	0	0	1	0	0	0	3246	710	25	4	1548	4	CEP120	5	122722336	Missense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08	1	122722336	58192924	14	9275	134	2									
TUBB2B	347733	broad.mit.edu	37	chr6	3227737	3227737	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccttggcgccgatctggTtgccgcactggcccgcctgg	3	8	13	17	4	1	0	0	0	1	0	1	1	1	0	6	4	1	2	6	4	0	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	3227737	C	C	3227737	3	2	165	1	0	0	0	0	1	0	0	0	16754	1725	60	3	1312	3	TUBB2B	6	3227737	Missense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08		3227737	167887330	15	9276											
LRFN2	57497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	40400076	40400076	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggtttccaggtcatcGtcccgctcgagcctccgcag	6	8	10	17	4	1	0	1	0	0	0	6	1	4	0	5	2	1	3	5	2	0	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	40400076	G	C	40400076	3	2	165	1	0	0	0	0	1	0	0	0	8938	1136	40	4	1600	4	LRFN2	6	40400076	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	37172339	40400076	130714991	16	9277											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51656133	51656133	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatcacatacagcccttTgaagaatggaagatctgtat	13	10	7	11	0	2	3	1	1	1	2	2	4	2	4	3	1	2	1	3	1	5	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	51656133	T	C	51656133	3	2	165	1	0	0	0	0	1	0	0	0	11971	1821	63	3	3982	3	PKHD1	6	51656133	Missense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08	11256057	51656133	119458934	17	9278											
LAMB1	3912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107605113	107605113	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggccggcatgagcactGgcctgactccgcaaagcaac	10	5	13	13	2	0	3	0	3	0	0	1	3	1	3	3	3	3	4	3	3	2	0	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	107605113	G	A	107605113	4	1	165	1	0	0	0	0	0	1	0	0	8610	1357	47	2	3862	2	LAMB1	7	107605113	Nonsense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08		107605113	51533550	18	9279											
SSPO	23145	broad.mit.edu	37	chr7	149486279	149486279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgccccaggctgtggggagGggcagatgacttgcagctcc	6	6	16	13	1	0	2	0	1	0	1	1	3	1	3	4	5	2	4	4	5	0	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	149486279	A	A	149486279	3	1	165	1	0	0	0	0	1	0	0	0	15190	1232	43	2	4369	2	SSPO	7	149486279	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	41881166	149486279	9652384	19	9280											
ERICH1	157697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	623548	623548	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccgtcctcctccctggcGtctttaacgtcttcctcccc	4	12	5	20	3	2	0	0	0	2	0	7	0	7	0	7	1	1	0	7	1	1	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	623548	G	A	623548	2	1	165	1	0	0	0	0	0	0	0	1	5230	1136	40	1		1	ERICH1	8	623548	Silent	SNP	G	TCGA-B0-5812-01A-11D-1669-08		623548	145740474	20	9281											
MSR1	4481	broad.mit.edu;hgsc.bcm.edu	37	chr8	16021600	16021600	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaaagtgatatttctcaagGtctgagaatgttcccaatct	12	15	7	7	0	3	2	1	2	3	1	5	3	4	2	1	1	0	1	1	1	6	4	rs143967440	alternate_allele	TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	16021600	G	T	16021600	3	4	165	1	0	0	0	0	1	0	0	0	9886	1261	44	4	636	4	MSR1	8	16021600	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	15398052	16021600	130342422	21	9282											
RIMS2	9699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	104709441	104709441	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccacaaaacaaagtttgctGatggatgtggccataactgt	13	10	10	8	0	0	1	0	1	0	0	0	2	0	2	2	2	3	2	2	2	4	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	104709441	G	C	104709441	3	2	165	1	0	0	0	0	1	0	0	0	13370	1290	45	4	310	4	RIMS2	8	104709441	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	88687841	104709441	41654581	22	9283											
ALDOB	229	hgsc.bcm.edu;ucsc.edu	37	chr9	104190767	104190770	+	Frame_Shift_Del	DEL	TTTG	TTTG	-																															ttaccttgaatggtggtttcTttgtttgttcctgcaagagg																								novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	TTTG	TTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		-	104190770	TTTG	-	104190767	7	5	165	1	0	1	0	1	0	0	0	0	508	1606	56	0	755	0	ALDOB	9	104190767	Frame_Shift_Del	DEL	TTTG	TCGA-B0-5812-01A-11D-1669-08		104190767	37022664	23	9284											
LAMC3	10319	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133942552	133942552	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgtcaggaaggcttctaCgggagcgccctggcccctcg	6	7	13	15	3	2	0	1	0	1	0	3	2	2	2	3	4	2	1	3	4	2	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	133942552	C	T	133942552	2	4	165	1	0	0	0	0	0	0	0	1	8616	547	19	1		1	LAMC3	9	133942552	Silent	SNP	C	TCGA-B0-5812-01A-11D-1669-08	29751785	133942552	7270879	24	9285											
C9orf140	0	broad.mit.edu	37	chr9	139959180	139959180	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggcctcaaacagctgcttAatgagcgccgacttctcctg	8	9	10	14	3	2	1	1	1	1	0	3	2	2	1	3	1	4	2	3	1	2	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		G	139959180	G	G	139959180	2	3	165	1	0	0	0	0	0	0	0	1	2460	358	13	3		3	C9orf140	9	139959180	Silent	SNP	A	TCGA-B0-5812-01A-11D-1669-08	6016628	139959180	1254251	25	9286											
SLC39A12	221074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	18250701	18250701	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacagcctactgagcctcagGcaggatgaagattcctcttt	10	10	9	12	0	2	3	1	2	1	1	3	4	3	4	3	2	3	1	3	2	2	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	18250701	G	A	18250701	2	1	165	1	0	0	0	0	0	0	0	1	14617	1194	42	2		2	SLC39A12	10	18250701	Silent	SNP	G	TCGA-B0-5812-01A-11D-1669-08		18250701	117284046	26	9287											
MADD	8567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47306055	47306055	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggaaaaccccccactgcGctccagctctagcaccacag	11	5	7	18	1	2	0	1	0	1	0	3	1	3	1	5	1	4	3	5	1	3	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	47306055	G	A	47306055	3	1	165	1	0	0	0	0	1	0	0	0	9152	1087	38	1	2138	1	MADD	11	47306055	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08		47306055	87700461	27	9288											
GRM5	2915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	88330476	88330476	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttccaacgttgatataaTcaaagtaatcttttcccatt	14	15	3	9	1	2	1	1	1	1	0	4	1	4	1	2	0	2	2	2	0	6	8	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		G	88330476	T	G	88330476	3	3	165	1	0	0	0	0	1	0	0	0	6800	1435	50	5	2219	5	GRM5	11	88330476	Missense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08	41024421	88330476	46676040	28	9289											
HYOU1	10525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118925901	118925901	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacagagcactcacgagcTgatctgaaagtgcacagtct	13	7	9	12	1	3	3	1	2	2	1	3	4	3	3	1	0	4	3	1	0	2	0	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	118925901	T	A	118925901	3	1	165	1	0	0	0	0	1	0	0	0	7470	1580	55	5	2672	5	HYOU1	11	118925901	Missense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08	30595425	118925901	16080615	29	9290											
ST8SIA1	6489	hgsc.bcm.edu	37	chr12	22354703	22354703	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggccacctcttcacagagaCccagagctgcgctcaccaga	10	6	9	16	1	3	3	2	0	1	3	3	4	3	3	4	1	2	2	4	1	0	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	22354703	C	T	22354703	3	4	165	1	0	0	0	0	1	0	0	0	15232	507	18	2	220	2	ST8SIA1	12	22354703	Missense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08		22354703	111497192	30	9291											
SLC41A2	84102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	105282811	105282811	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acatttataaattcacttacCctgcagaagagatgcaatga	16	11	6	8	0	1	3	1	1	0	2	1	4	1	3	1	0	3	2	1	0	6	5	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		G	105282811	C	G	105282811	3	3	165	1	0	0	0	0	1	0	0	0	14632	637	22	4	869	4	SLC41A2	12	105282811	Missense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08	82928108	105282811	28569084	31	9292											
MLEC	9761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121132708	121132708	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgggcatagcacagctcacGatgaaattatacctatgagc	13	10	9	9	1	1	2	1	2	0	0	1	3	1	2	1	1	4	3	1	1	5	5	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	121132708	G	A	121132708	3	1	165	1	0	0	0	0	1	0	0	0	9613	1058	37	1	506	1	MLEC	12	121132708	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	15849897	121132708	12719187	32	9293											
EDNRB	1910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	78472463	78472463	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactggcaccagcagcataAgcatgactgtacaaaacaaa	17	6	8	10	0	0	2	0	2	0	0	0	2	0	2	1	1	5	5	1	1	5	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	78472463	A	C	78472463	3	2	165	1	0	0	0	0	1	0	0	0	4920	69	3	5	252	5	EDNRB	13	78472463	Missense_Mutation	SNP	A	TCGA-B0-5812-01A-11D-1669-08		78472463	36697415	33	9294											
ARHGEF7	8874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	111932908	111932908	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgattgagcggatattaGtgtcgtgcaacaaccagcag	12	9	12	8	2	0	2	0	2	0	0	1	3	0	3	1	1	5	3	1	1	4	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	111932908	G	T	111932908	3	4	165	1	0	0	0	0	1	0	0	0	911	1029	36	4	1734	4	ARHGEF7	13	111932908	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	33460445	111932908	3236970	34	9295											
EML1	2009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	100375765	100375765	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggaaaatcacatctctaCttttggacactagaaggaag	14	11	9	7	0	2	1	1	0	1	1	3	4	2	4	0	3	1	0	0	3	6	4	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	100375765	C	A	100375765	4	1	165	1	0	0	0	0	0	1	0	0	5096	576	20	4	1291	4	EML1	14	100375765	Nonsense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08		100375765	6973775	35	9296											
BAHD1	22893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40758186	40758186	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaaggcctccccagccgaAagacagcactggttcccccc	9	5	10	17	1	0	2	0	1	0	1	2	3	2	2	7	2	2	2	7	2	2	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	40758186	A	C	40758186	3	2	165	1	0	0	0	0	1	0	0	0	1297	15	1	5	2222	5	BAHD1	15	40758186	Missense_Mutation	SNP	A	TCGA-B0-5812-01A-11D-1669-08		40758186	61773206	36	9297											
TGM5	9333	broad.mit.edu;hgsc.bcm.edu	37	chr15	43533161	43533161	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgaagttggtgatcacaCgggtagggatccccagacac	11	7	13	10	2	1	2	1	1	0	1	3	4	2	3	2	3	0	2	2	3	2	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	43533161	C	A	43533161	3	1	165	1	0	0	0	0	1	0	0	0	15832	536	19	4	1300	4	TGM5	15	43533161	Missense_Mutation	SNP	C	TCGA-B0-5812-01A-11D-1669-08	2774975	43533161	58998231	37	9298											
STAC2	342667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37369246	37369246	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgggcctcaggcactcAcctggttctccttgaggctc	4	10	13	14	0	3	1	2	1	1	0	5	1	3	1	3	5	0	4	3	5	0	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	37369246	A	C	37369246	5	2	165	1	0	0	0	0	0	0	1	0	15241	173	6	5	110	5	STAC2	17	37369246	Splice_Site	SNP	A	TCGA-B0-5812-01A-11D-1669-08		37369246	43825964	38	9299											
SLC16A5	9121	broad.mit.edu;hgsc.bcm.edu	37	chr17	73096901	73096901	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctttcctcatctccccAccactggccggtgaggagct	5	11	9	16	1	2	1	1	1	1	0	4	2	3	2	5	3	2	2	5	3	0	2	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	73096901	A	T	73096901	2	4	165	1	0	0	0	0	0	0	0	1	14413	146	6	5		5	SLC16A5	17	73096901	Silent	SNP	A	TCGA-B0-5812-01A-11D-1669-08	35727655	73096901	8098309	39	9300											
ProSAPiP1	0	broad.mit.edu;hgsc.bcm.edu	37	chr20	3146916	3146916	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtccctcaggagtcccatTggtctgcggggggcacaaat	7	8	13	13	2	2	0	1	0	1	0	4	1	4	1	3	5	1	1	3	5	1	1	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	3146916	T	A	3146916	3	1	165	1	0	0	0	0	1	0	0	0	12872	1812	63	5	1479	5	ProSAPiP1	20	3146916	Missense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08		3146916	59878604	40	9301											
NCAM2	4685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	22664427	22664427	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgctttctttccagatcGgttcgctatgttagcaaaca	8	16	7	10	2	1	1	0	0	1	1	4	1	2	1	1	1	3	5	1	1	3	6	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		C	22664427	G	C	22664427	3	2	165	1	0	0	0	0	1	0	0	0	10203	1116	39	4	503	4	NCAM2	21	22664427	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08		22664427	25465468	41	9302											
ADAMTS5	11096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	28296852	28296852	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagggctaaataggcagtGaatctagtctggtctttggc	9	13	12	7	0	4	1	1	1	3	0	4	1	4	1	0	4	0	2	0	4	5	5	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	28296852	G	T	28296852	3	4	165	1	0	0	0	0	1	0	0	0	269	1281	45	4	483	4	ADAMTS5	21	28296852	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08	5632425	28296852	19833043	42	9303											
TCN2	6948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	31018990	31018990	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttgtcaggcccctactTaacctccgtgatggggaaag	8	10	10	13	1	1	1	1	1	0	0	3	2	3	2	5	3	2	0	5	3	3	3	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		A	31018990	T	A	31018990	4	1	165	1	0	0	0	0	0	1	0	0	15706	1764	61	5	1172	5	TCN2	22	31018990	Nonsense_Mutation	SNP	T	TCGA-B0-5812-01A-11D-1669-08		31018990	20285576	43	9304											
IGSF1	3547	broad.mit.edu	37	chrX	130409627	130409627	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtggcttctccttctttGtgcagaatgtatcctactcc	7	15	8	11	0	2	1	0	0	2	1	5	2	4	1	3	1	2	3	3	1	4	5	novel		TCGA-B0-5812-01A-11D-1669-08	TCGA-B0-5812-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6327ce2c-8a24-45b9-9577-7b7d7b603e68	d5b39631-2b9e-4aee-8943-b0c576dc3bd7		T	130409627	T	T	130409627	3	4	165	1	0	0	0	0	1	0	0	0	7596	1368	48	4	1021	4	IGSF1	23	130409627	Missense_Mutation	SNP	G	TCGA-B0-5812-01A-11D-1669-08		130409627	24860933	44	9305											
DENND2C	163259	broad.mit.edu;hgsc.bcm.edu	37	chr1	115166246	115166246	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgaaagtgctgaatatcCtcaaattcaaaggatttcct	13	14	6	8	1	2	1	2	1	0	0	5	3	4	2	2	1	1	1	2	1	5	4	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		A	115166246	C	A	115166246	3	1	166	1	0	0	0	0	1	0	0	0	4430	680	24	4	1854	4	DENND2C	1	115166246	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-01D-1458-08		115166246	134084375	1	9306											
PGLYRP3	114771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153277480	153277480	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgttgtagccctgggtgtGcaagccttggatgttccagc	5	13	14	9	0	0	0	0	0	0	0	1	1	1	1	3	2	4	5	3	2	2	5	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		C	153277480	G	C	153277480	3	2	166	1	0	0	0	0	1	0	0	0	11795	1319	46	4	726	4	PGLYRP3	1	153277480	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-01D-1458-08	38111234	153277480	95973141	2	9307											
SELP	6403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169566355	169566355	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacattgaattctccacGagtgtcagaacaatccaggc	13	8	8	12	1	2	2	1	1	1	1	4	3	3	2	3	1	2	0	3	1	4	2	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	169566355	G	T	169566355	3	4	166	1	0	0	0	0	1	0	0	0	14021	1058	37	4	751	4	SELP	1	169566355	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-01D-1458-08	16288875	169566355	79684266	3	9308											
CEP350	9857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	180063129	180063129	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagcctcagttaatagaaGtagaagccttaaaatagaaa	20	8	8	5	0	1	4	1	0	0	4	1	4	1	4	2	0	2	2	2	0	10	5	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	180063129	G	T	180063129	3	4	166	1	0	0	0	0	1	0	0	0	3254	1029	36	4	8019	4	CEP350	1	180063129	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-01D-1458-08	10496774	180063129	69187492	4	9309											
MYO1B	4430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	192250811	192250811	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccagcattatgctggaaagGtatgggggagctgtgagcac	10	9	15	7	0	0	1	0	1	0	0	1	3	1	3	1	4	4	5	1	4	3	2	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	192250811	G	T	192250811	5	4	166	1	0	0	0	0	0	0	1	0	10069	1275	44	4	1613	4	MYO1B	2	192250811	Splice_Site	SNP	G	TCGA-B2-3924-01A-01D-1458-08		192250811	50948562	5	9310											
VHL	7428	broad.mit.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		A	10183725	A	A	10183725	4	1	166	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-B2-3924-01A-01D-1458-08		10183725	187838705	6	9311											
BSN	8927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49662500	49662500	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctaccactcctggccAtgagagcccccgagagacaa	10	7	9	15	1	1	2	0	1	1	2	2	5	2	2	5	1	3	1	5	1	2	2	rs140305957	byfrequency	TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		G	49662500	A	G	49662500	3	3	166	1	0	0	0	0	1	0	0	0	1530	217	8	3	323	3	BSN	3	49662500	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-01D-1458-08	39478775	49662500	148359930	7	9312											
HAPLN1	1404	broad.mit.edu;hgsc.bcm.edu	37	chr5	82940357	82940357	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattgcaccagtccagcccGccccgccaggcgtcgtacag	7	5	11	18	4	0	0	0	0	0	0	2	0	1	0	6	1	3	3	6	1	1	2	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	82940357	G	T	82940357	2	4	166	1	0	0	0	0	0	0	0	1	6954	1074	38	4		4	HAPLN1	5	82940357	Silent	SNP	G	TCGA-B2-3924-01A-01D-1458-08		82940357	97974903	8	9313											
CSNK2B	1460	hgsc.bcm.edu	37	chr6	31637658	31637659	+	Frame_Shift_Del	DEL	CC	CC	-																															atggcctaccagctgcagctCcaagccgccagcaacttcaa																								novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		-	31637659	CC	-	31637658	7	5	166	1	0	1	0	1	0	0	0	0	3959	842	30	0	625	0	CSNK2B	6	31637658	Frame_Shift_Del	DEL	CC	TCGA-B2-3924-01A-01D-1458-08		31637658	139477409	9	9314											
COL1A2	1278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94038888	94038888	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcatagggtaatcctggaGcaaacggccttactggtgcc	9	9	11	12	1	1	0	1	0	0	0	2	1	2	1	4	4	4	2	4	4	4	3	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	94038888	G	T	94038888	3	4	166	1	0	0	0	0	1	0	0	0	3678	971	34	4	974	4	COL1A2	7	94038888	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-01D-1458-08		94038888	65099775	10	9315											
NAPRT1	93100	broad.mit.edu;hgsc.bcm.edu	37	chr8	144657686	144657686	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcgtggctggccccccaCggccaccagctgcaggaaga	8	5	12	16	2	0	1	0	0	0	1	1	2	0	2	5	4	2	3	5	4	1	1	rs148462517	byfrequency;alternate_allele	TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		A	144657686	C	A	144657686	3	1	166	1	0	0	0	0	1	0	0	0	10165	536	19	4	434	4	NAPRT1	8	144657686	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-01D-1458-08		144657686	1706336	11	9316											
UPF2	26019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	11985089	11985089	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcttcatcggtttcattttCcttattggaatctgtaaggt	7	19	7	8	1	4	0	2	0	2	0	6	1	5	1	1	3	0	2	1	3	3	7	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	11985089	C	T	11985089	3	4	166	1	0	0	0	0	1	0	0	0	17003	864	30	2	589	2	UPF2	10	11985089	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-01D-1458-08		11985089	123549658	12	9317											
MARK2	2011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63670173	63670173	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggaccgggagtcagggcgGaaagccagcagcacagccaa	13	1	16	11	2	1	0	1	0	0	0	1	4	1	3	3	4	4	2	3	4	2	0	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	63670173	G	T	63670173	2	4	166	1	0	0	0	0	0	0	0	1	9313	1161	41	4		4	MARK2	11	63670173	Silent	SNP	G	TCGA-B2-3924-01A-01D-1458-08		63670173	71336343	13	9318											
OR10G4	390264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123887007	123887007	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctttcagacctgtgcctcCcactgtattgtggtcctttg	4	15	9	13	0	1	1	1	0	0	1	3	1	3	1	5	1	1	1	5	1	1	4	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	123887007	C	T	123887007	2	4	166	1	0	0	0	0	0	0	0	1	10901	610	22	2		2	OR10G4	11	123887007	Silent	SNP	C	TCGA-B2-3924-01A-01D-1458-08	60216834	123887007	11119509	14	9319											
ZFYVE26	23503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68274120	68274120	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcaaagggaacacaccttttCccgaggctgtagccctcggt	9	8	11	13	2	0	0	0	0	0	0	2	2	1	1	3	3	2	3	3	3	3	3	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	68274120	C	T	68274120	3	4	166	1	0	0	0	0	1	0	0	0	17667	855	30	2	6890	2	ZFYVE26	14	68274120	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-01D-1458-08		68274120	39075420	15	9320											
APBA2	321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	29346528	29346528	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacggactcggcgggcccGcacccccacggccacgaggc	6	2	15	18	6	0	0	0	0	0	0	1	3	0	2	4	6	0	1	4	6	0	0	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		A	29346528	G	A	29346528	2	1	166	1	0	0	0	0	0	0	0	1	757	1074	38	1		1	APBA2	15	29346528	Silent	SNP	G	TCGA-B2-3924-01A-01D-1458-08		29346528	73184864	16	9321											
UACA	55075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	70961034	70961034	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctctttaactgtctaatTtcactaagtgatttttcatg	9	20	4	8	0	5	1	2	1	3	0	6	1	5	1	0	0	1	0	0	0	3	7	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		G	70961034	T	G	70961034	3	3	166	1	0	0	0	0	1	0	0	0	16823	1838	64	5	2277	5	UACA	15	70961034	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-01D-1458-08	41614506	70961034	31570358	17	9322											
SREBF1	6720	hgsc.bcm.edu	37	chr17	17716753	17716754	+	Frame_Shift_Ins	INS	-	-	C																															gtgtgtccgtgtggggctggINScccccgccatcagccgggcc																								novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		C	17716754	-	C	17716753	7	5	166	1	0	1	1	0	0	0	0	0	15142	1203	42	0	308	0	SREBF1	17	17716753	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-01D-1458-08		17716753	63478457	18	9323											
C17orf101	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80369360	80369360	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgcttcctccctggtGatgacgacatcggtgacacc	6	9	10	16	4	0	3	0	3	0	0	4	4	3	3	4	2	0	2	4	2	0	1	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		T	80369360	G	T	80369360	2	4	166	1	0	0	0	0	0	0	0	1	1848	1280	45	4		4	C17orf101	17	80369360	Silent	SNP	G	TCGA-B2-3924-01A-01D-1458-08	62652607	80369360	825850	19	9324											
ZNF382	84911	hgsc.bcm.edu;ucsc.edu	37	chr19	37118014	37118015	+	Frame_Shift_Ins	INS	-	-	A																															agagaactcacacaggagagINSaaaccgtatcagtgtaatga																								novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		A	37118015	-	A	37118014	7	5	166	1	0	1	1	0	0	0	0	0	17872	933	33	0	1225	0	ZNF382	19	37118014	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-01D-1458-08		37118014	22010969	20	9325											
PRR12	57479	broad.mit.edu	37	chr19	50100809	50100810	+	Frame_Shift_Del	DEL	CT	-	-																															ctaccaagccaaagaagctgCtcaagacatcctccttccac																								novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		-	50100810	-	-	50100809	7	5	166	1	0	1	0	1	0	0	0	0	12586	797	28	0	3231	0	PRR12	19	50100809	Frame_Shift_Del	DEL	CT	TCGA-B2-3924-01A-01D-1458-08	12982795	50100809	9028174	21	9326											
ASPHD2	57168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	26830026	26830026	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccgcatccacaagggcAtccgcgagcagggccggtac	8	4	15	14	4	0	0	0	0	0	0	2	1	2	0	4	4	2	4	4	4	2	1	novel		TCGA-B2-3924-01A-01D-1458-08	TCGA-B2-3924-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e99fdd6-c16d-41ce-98a7-accd55ec1e4a	058d79f1-cfc9-486c-9be6-b42902cb74f6		G	26830026	A	G	26830026	3	3	166	1	0	0	0	0	1	0	0	0	1055	217	8	3	447	3	ASPHD2	22	26830026	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-01D-1458-08		26830026	24474540	22	9327											
CSMD2	114784	hgsc.bcm.edu;ucsc.edu	37	chr1	34286089	34286091	+	In_Frame_Del	DEL	TTT	TTT	-																															cctgaaatccgagcctagtcTtttgcccctttcgggtatgc																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	34286091	TTT	-	34286089	7	5	167	1	0	1	0	1	0	0	0	0	3945	1617	56	0	9651	0	CSMD2	1	34286089	In_Frame_Del	DEL	TTT	TCGA-B2-3924-01A-02D-1386-10		34286089	214964532	1	9328											
SYDE2	84144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85630328	85630328	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggaaggctcttgcctcTgacttaataatactggtcca	9	12	11	9	0	2	1	0	1	2	0	3	2	3	2	2	4	2	1	2	4	4	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	85630328	T	C	85630328	3	2	167	1	0	0	0	0	1	0	0	0	15435	1580	55	3	626	3	SYDE2	1	85630328	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10	51344239	85630328	163620293	2	9329											
ARF1	375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	228285383	228285383	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggccgaggacgagctccgGgatgctgtcctcctggtgtt	4	10	15	12	3	0	0	0	0	0	0	3	4	3	2	4	4	2	3	4	4	0	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	228285383	G	A	228285383	2	1	167	1	0	0	0	0	0	0	0	1	844	1219	43	2		2	ARF1	1	228285383	Silent	SNP	G	TCGA-B2-3924-01A-02D-1386-10	142655055	228285383	20965238	3	9330											
ARID4B	51742	hgsc.bcm.edu;ucsc.edu	37	chr1	235420512	235420512	+	Frame_Shift_Del	DEL	A	A	-																															tgtggtcatcctgaacttccActgttgaagaatcatgtcta																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	235420512	A	-	235420512	7	5	167	1	0	1	0	1	0	0	0	0	920	159	6	0	3876	0	ARID4B	1	235420512	Frame_Shift_Del	DEL	A	TCGA-B2-3924-01A-02D-1386-10	7135129	235420512	13830109	4	9331											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152348619	152348619	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctcagttacctgtaatAgtctcctgatcttggtcatt	8	15	8	10	0	4	1	2	1	2	0	5	1	4	1	2	2	1	3	2	2	3	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	152348619	A	C	152348619	2	2	167	1	0	0	0	0	0	0	0	1	10302	407	15	5		5	NEB	2	152348619	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10		152348619	90850754	5	9332											
VIL1	7429	hgsc.bcm.edu;ucsc.edu	37	chr2	219299338	219299339	+	Frame_Shift_Ins	INS	-	-	T																															gcgccaacaacaccaaggccINStttgaggtcccagcgcgggc																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	219299339	-	T	219299338	7	5	167	1	0	1	1	0	0	0	0	0	17163	668	24	0	1640	0	VIL1	2	219299338	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-02D-1386-10	66950719	219299338	23900035	6	9333											
PTPRG	5793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	62268432	62268432	+	Frame_Shift_Del	DEL	C	C	-																															tcttagaagttcggcactttCagtgtcccaaatggcctaac																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	62268432	C	-	62268432	7	5	167	1	0	1	0	1	0	0	0	0	12804	827	29	0	4053	0	PTPRG	3	62268432	Frame_Shift_Del	DEL	C	TCGA-B2-3924-01A-02D-1386-10		62268432	135753998	7	9334											
COL6A6	131873	broad.mit.edu	37	chr3	130284103	130284103	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggaaggcctatactggAgctgccatcaaaaagctcag	13	7	11	10	0	2	0	2	0	0	0	2	2	2	2	2	3	4	2	2	3	5	2	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	130284103	G	G	130284103	2	3	167	1	0	0	0	0	0	0	0	1	3703	291	11	3		3	COL6A6	3	130284103	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10	68015671	130284103	67738327	8	9335											
MUC4	4585	broad.mit.edu	37	chr3	195513806	195513806	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacaggaagaggggtggtgtCacctgtggatgctgaggaag	10	7	19	5	0	1	2	1	1	0	1	1	6	1	5	1	6	1	1	1	6	2	0	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	195513806	G	G	195513806	3	3	167	1	0	0	0	0	1	0	0	0	9978	826	29	4		4	MUC4	3	195513806	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	65229703	195513806	2508624	9	9336											
RNF212	285498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1075211	1075211	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	caagcaacccacacacctgtCgggggctgatgagtgaggtg	10	6	14	11	1	0	3	0	3	0	0	1	3	0	3	2	3	2	2	2	3	2	0	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	1075211	C	G	1075211	3	3	167	1	0	0	0	0	1	0	0	0	13478	884	31	4	449	4	RNF212	4	1075211	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10		1075211	190079065	10	9337											
PCDH7	5099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	30725280	30725280	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacagttacccttcccAaaaacatttcctacacttta	12	12	1	16	0	0	0	0	0	0	0	3	0	3	0	4	0	3	1	4	0	5	6	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	30725280	A	T	30725280	4	4	167	1	0	0	0	0	0	1	0	0	11516	131	5	5	2238	5	PCDH7	4	30725280	Nonsense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	29650069	30725280	160428996	11	9338											
MYO10	4651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	16699579	16699579	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcatgtacagaaagctgTggaaatacggcagagtgaca	14	9	11	7	1	1	3	1	1	0	2	1	4	1	4	0	2	3	3	0	2	4	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	16699579	T	C	16699579	3	2	167	1	0	0	0	0	1	0	0	0	10062	1696	59	3	2704	3	MYO10	5	16699579	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10		16699579	164215681	12	9339											
RAD50	10111	broad.mit.edu;hgsc.bcm.edu	37	chr5	131977874	131977874	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatatattgttgcaggataAtaaaaagtcgctcacagcag	16	10	9	6	1	1	0	1	0	0	0	2	2	1	1	0	1	2	4	0	1	7	6	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	131977874	A	C	131977874	3	2	167	1	0	0	0	0	1	0	0	0	12986	101	4	5	3855	5	RAD50	5	131977874	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	115278295	131977874	48937386	13	9340											
PCDHA8	56140	broad.mit.edu;hgsc.bcm.edu	37	chr5	140222015	140222015	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaatttggtactgtcatcgCcctaattagcgtgaacgacc	10	12	8	11	3	2	1	2	1	0	0	3	2	2	1	2	1	3	1	2	1	5	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	140222015	C	T	140222015	3	4	167	1	0	0	0	0	1	0	0	0	11530	739	26	2	1111	2	PCDHA8	5	140222015	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	8244141	140222015	40693245	14	9341											
PCDHB16	57717	broad.mit.edu	37	chr5	140564230	140564230	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggcgttggcctcggtgtcgtCgctcttcctcttttcggtgc	0	15	13	13	5	2	0	0	0	2	0	7	0	3	0	2	4	1	2	2	4	0	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	140564230	G	G	140564230	3	3	167	1	0	0	0	0	1	0	0	0	11541	893	31	4	2098	4	PCDHB16	5	140564230	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	342215	140564230	40351030	15	9342											
PCDHGA7	56108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140762931	140762931	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggttcggtttccgttaagCgaggctggggatccagatgt	6	11	17	7	3	0	1	0	0	0	1	3	3	2	2	2	6	1	4	2	6	1	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	140762931	C	T	140762931	2	4	167	1	0	0	0	0	0	0	0	1	11559	767	27	1		1	PCDHGA7	5	140762931	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10	198701	140762931	40152329	16	9343											
CNOT6	57472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179998388	179998388	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcaagttacagagtgcctatGagagtggcctgatgccttac	10	11	11	9	0	1	3	1	2	0	2	1	4	1	3	3	1	4	1	3	1	4	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	179998388	G	C	179998388	3	2	167	1	0	0	0	0	1	0	0	0	3622	1291	45	4	1455	4	CNOT6	5	179998388	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10	39235457	179998388	916872	17	9344											
MDGA1	266727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	37615095	37615095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaactccgggctgtaggCtttggctaagagggcgggga	9	8	17	7	2	0	1	0	0	0	1	1	2	1	2	1	6	1	5	1	6	4	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	37615095	C	T	37615095	3	4	167	1	0	0	0	0	1	0	0	0	9406	797	28	2	999	2	MDGA1	6	37615095	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10		37615095	133499972	18	9345											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51612957	51612957	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacatggcaccatagtcaaAgttcttgaaagccaagaagc	16	8	8	9	0	2	2	1	1	1	1	2	2	2	2	2	1	3	2	2	1	6	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	51612957	A	G	51612957	3	3	167	1	0	0	0	0	1	0	0	0	11971	72	3	3	2846	3	PKHD1	6	51612957	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	13997862	51612957	119502110	19	9346											
DOPEY1	23033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	83823098	83823098	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttgtacagagaagcacActggacctcatactcttctg	11	11	8	11	0	3	1	1	0	2	1	3	3	3	2	1	1	4	3	1	1	4	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	83823098	A	G	83823098	2	3	167	1	0	0	0	0	0	0	0	1	4707	146	6	3		3	DOPEY1	6	83823098	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10	32210141	83823098	87291969	20	9347											
MDN1	23195	hgsc.bcm.edu;ucsc.edu	37	chr6	90440533	90440534	+	Frame_Shift_Ins	INS	-	-	T																															tgtcataaatcttcaactcaINStttttctgatattctgtaag																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	90440534	-	T	90440533	7	5	167	1	0	1	1	0	0	0	0	0	9415	214	8	0	12010	0	MDN1	6	90440533	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-02D-1386-10	6617435	90440533	80674534	21	9348											
MAP7	9053	hgsc.bcm.edu;ucsc.edu	37	chr6	136710548	136710548	+	Frame_Shift_Del	DEL	C	C	-																															cacagcagccctcctccgctCctccttctgcctctgctcct																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	136710548	C	-	136710548	7	5	167	1	0	1	0	1	0	0	0	0	9266	864	30	0	1957	0	MAP7	6	136710548	Frame_Shift_Del	DEL	C	TCGA-B2-3924-01A-02D-1386-10	46270015	136710548	34404519	22	9349											
AUTS2	26053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	70228160	70228160	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggccctcctgaggcccaGctccagcctgccccgcagcc	5	4	11	21	1	0	1	0	1	0	0	2	1	2	1	8	2	4	2	8	2	0	0	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	70228160	G	A	70228160	2	1	167	1	0	0	0	0	0	0	0	1	1225	962	34	2		2	AUTS2	7	70228160	Silent	SNP	G	TCGA-B2-3924-01A-02D-1386-10		70228160	88910503	23	9350											
BAZ1B	9031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	72877401	72877401	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaatttggcttccgtgctaGatgaatagagtgaataatgt	13	13	10	5	1	0	4	0	2	0	2	1	4	1	4	1	1	1	2	1	1	6	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	72877401	G	C	72877401	3	2	167	1	0	0	0	0	1	0	0	0	1330	933	33	4	1383	4	BAZ1B	7	72877401	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10	2649241	72877401	86261262	24	9351											
ASNS	440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	97487671	97487671	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtacttgggcttctttCagctgcttcaacagagtggc	7	14	10	10	0	3	1	2	0	1	1	3	1	3	1	0	2	5	4	0	2	3	6	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	97487671	C	A	97487671	2	1	167	1	0	0	0	0	0	0	0	1	1048	813	29	4		4	ASNS	7	97487671	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10	24610270	97487671	61650992	25	9352											
KCNB2	9312	hgsc.bcm.edu;ucsc.edu	37	chr8	73849964	73849964	+	Frame_Shift_Del	DEL	A	A	-																															cccccaggtttcccaagcagAaactgttccctttctcttca																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	73849964	A	-	73849964	7	5	167	1	0	1	0	1	0	0	0	0	8013	247	9	0	2380	0	KCNB2	8	73849964	Frame_Shift_Del	DEL	A	TCGA-B2-3924-01A-02D-1386-10		73849964	72514058	26	9353											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	86050475	86050475	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaaatcagaaaagcttAcaggtattatatagtacagt	18	11	8	4	0	1	3	1	1	0	2	1	3	1	3	0	1	3	3	0	1	10	6	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	86050475	A	C	86050475	3	2	167	1	0	0	0	0	1	0	0	0	9026	391	14	5	2761	5	LRRCC1	8	86050475	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	12200511	86050475	60313547	27	9354											
MFSD3	113655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145735861	145735861	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctccatcgctggctcctcCctgggtgggaccttgctggc	2	11	13	15	1	0	0	0	0	0	0	4	1	3	1	4	4	2	4	4	4	0	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	145735861	C	A	145735861	2	1	167	1	0	0	0	0	0	0	0	1	9532	610	22	4		4	MFSD3	8	145735861	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10	59685386	145735861	628161	28	9355											
PKN3	29941	hgsc.bcm.edu;ucsc.edu	37	chr9	131477498	131477498	+	Frame_Shift_Del	DEL	G	G	-																															ctgcttagctgtgctgggccGgggacactttgggaaggtag																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	131477498	G	-	131477498	7	5	167	1	0	1	0	1	0	0	0	0	11981	1116	39	0	1754	0	PKN3	9	131477498	Frame_Shift_Del	DEL	G	TCGA-B2-3924-01A-02D-1386-10		131477498	9735933	29	9356											
UPF2	26019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	11998363	11998363	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacactccatccacaacgtGgatcccaacatcctcttggt	11	10	5	15	1	1	0	0	0	1	0	5	1	5	1	4	2	3	0	4	2	3	2	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	11998363	G	A	11998363	3	1	167	1	0	0	0	0	1	0	0	0	17003	1348	47	2	1328	2	UPF2	10	11998363	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10		11998363	123536384	30	9357											
C10orf118	55088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115889683	115889683	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacttcccatgctgctgaCttctttgtcatagcttccac	7	14	6	14	1	2	1	1	1	1	0	4	2	4	1	2	0	3	3	2	0	1	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	115889683	C	A	115889683	3	1	167	1	0	0	0	0	1	0	0	0	1587	565	20	4	563	4	C10orf118	10	115889683	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	103891320	115889683	19645064	31	9358											
ATHL1	80162	broad.mit.edu;ucsc.edu	37	chr11	289868	289868	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgcccactctctgcccAgtgacccccgtctcttggcc	3	11	8	19	1	2	1	0	1	2	0	4	1	2	1	5	1	3	1	5	1	0	2	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	289868	C	C	289868	3	2	167	1	0	0	0	0	1	0	0	0	1104	188	7	5	54	5	ATHL1	11	289868	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10		289868	134716648	32	9359											
B4GALNT4	338707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	375478	375478	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggcgagctttcctgccCggcctgaagttcgaggtcat	6	10	13	12	3	1	1	1	1	0	0	3	3	2	1	3	3	2	2	3	3	1	2	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	375478	C	T	375478	2	4	167	1	0	0	0	0	0	0	0	1	1269	639	23	1		1	B4GALNT4	11	375478	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10	85610	375478	134631038	33	9360											
ALKBH3	221120	hgsc.bcm.edu;ucsc.edu	37	chr11	43941531	43941532	+	Frame_Shift_Ins	INS	-	-	ATCC																															cctgacctttcggacagtctINSatccagaccctcgaggggca																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		ATCC	43941532	-	ATCC	43941531	7	5	167	1	0	1	1	0	0	0	0	0	528	1522	53	0	866	0	ALKBH3	11	43941531	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-02D-1386-10	43566053	43941531	91064985	34	9361											
OR4P4	81300	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55406262	55406262	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagtgtaacacaatcatCatagtttgttgtactggggg	13	12	10	6	0	2	0	2	0	0	0	2	0	2	0	0	2	2	4	0	2	6	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	55406262	C	A	55406262	2	1	167	1	0	0	0	0	0	0	0	1	11080	816	29	4		4	OR4P4	11	55406262	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10	11464731	55406262	79600254	35	9362											
MPZL2	10205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118133354	118133354	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaagggatctatgtggtAgtagaatacctagagagggg	12	10	16	3	0	1	2	0	0	1	2	1	5	1	4	1	5	1	2	1	5	7	6	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	118133354	A	G	118133354	3	3	167	1	0	0	0	0	1	0	0	0	9750	420	15	3	424	3	MPZL2	11	118133354	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	62727092	118133354	16873162	36	9363											
CD3G	917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118221315	118221315	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccatatctggctttcTctttgctgaaatcgtcagca	9	13	7	12	1	3	1	1	1	2	0	5	1	3	1	2	1	3	3	2	1	2	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	118221315	T	C	118221315	3	2	167	1	0	0	0	0	1	0	0	0	3013	1551	54	3	370	3	CD3G	11	118221315	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10	87961	118221315	16785201	37	9364											
ADAMTS15	170689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130341137	130341137	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgtgctctcctgactccaCctccgtctgtgtccaaggca	5	11	9	16	1	2	1	0	1	2	0	6	1	5	1	5	1	1	3	5	1	1	0	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	130341137	C	T	130341137	3	4	167	1	0	0	0	0	1	0	0	0	260	507	18	2	1963	2	ADAMTS15	11	130341137	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	12119822	130341137	4665379	38	9365											
C1S	716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7177661	7177661	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaggttacctgtagctccTttaagaaaatgcaaagaagt	15	10	9	7	0	0	2	0	0	0	2	1	2	1	2	2	1	3	5	2	1	8	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	7177661	T	G	7177661	2	3	167	1	0	0	0	0	0	0	0	1	1974	1596	56	5		5	C1S	12	7177661	Silent	SNP	T	TCGA-B2-3924-01A-02D-1386-10		7177661	126674234	39	9366											
COL2A1	1280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48381066	48381066	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacagcagatcctttggCtccaggaattccatctgttc	9	12	7	13	0	2	1	1	0	1	1	6	2	5	2	3	2	1	3	3	2	1	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	48381066	C	G	48381066	3	3	167	1	0	0	0	0	1	0	0	0	3687	797	28	4	3351	4	COL2A1	12	48381066	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	41203405	48381066	85470829	40	9367											
RDH5	5959	hgsc.bcm.edu;ucsc.edu	37	chr12	56118202	56118203	+	Frame_Shift_Ins	INS	-	-	G																															gccctgactgctcgacacccINSccgaacccgctacagcccag																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	56118203	-	G	56118202	7	5	167	1	0	1	1	0	0	0	0	0	13197	623	22	0	844	0	RDH5	12	56118202	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-02D-1386-10	7737136	56118202	77733693	41	9368											
OLFM4	10562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	53624673	53624673	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccatctgcttctaacgccTtcatggtatgtggggttctg	7	14	10	10	1	4	0	1	0	3	0	4	0	4	0	2	3	3	3	2	3	3	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	53624673	T	C	53624673	3	2	167	1	0	0	0	0	1	0	0	0	10855	1609	56	3	1318	3	OLFM4	13	53624673	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10		53624673	61545205	42	9369											
PIBF1	10464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	73482729	73482729	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaacgcattactgaacttCaagcacagaactcagagcat	18	7	6	10	1	2	3	2	1	0	2	2	3	2	3	0	0	6	3	0	0	6	2	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	73482729	C	T	73482729	4	4	167	1	0	0	0	0	0	1	0	0	11879	827	29	2	1591	2	PIBF1	13	73482729	Nonsense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	19858056	73482729	41687149	43	9370											
C14orf135	0	broad.mit.edu	37	chr14	60591443	60591443	+	Frame_Shift_Del	DEL	T	-	-																															atttgccaggtacaaatttgTttattccaggatcagtagaa																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	60591443	-	-	60591443	7	5	167	1	0	1	0	1	0	0	0	0	1745	1725	60	0	1878	0	C14orf135	14	60591443	Frame_Shift_Del	DEL	T	TCGA-B2-3924-01A-02D-1386-10		60591443	46758097	44	9371											
MAPKBP1	23005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42107967	42107967	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccccaatggacagcatcTagcatcaggggaccgtatgg	11	6	12	12	1	2	0	1	0	1	0	2	2	2	2	3	4	3	3	3	4	3	2	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	42107967	T	A	42107967	3	1	167	1	0	0	0	0	1	0	0	0	9292	1522	53	5	1527	5	MAPKBP1	15	42107967	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10		42107967	60423425	45	9372											
MAN2C1	4123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75659878	75659878	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggttctccatcacgccacaCcagaccttctccatcacttt	9	11	4	17	1	4	1	2	0	2	1	6	1	4	1	5	1	0	1	5	1	0	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	75659878	C	G	75659878	3	3	167	1	0	0	0	0	1	0	0	0	9218	507	18	4	2893	4	MAN2C1	15	75659878	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	33551911	75659878	26871514	46	9373											
PSMA4	5685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78834926	78834926	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgcttgcagcagagagaCgcaacatccacaagcttctt	11	11	8	11	1	1	2	0	0	1	2	2	3	2	2	1	0	5	5	1	0	2	5	rs149336836	alternate_allele	TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	78834926	C	A	78834926	3	1	167	1	0	0	0	0	1	0	0	0	12671	536	19	4	158	4	PSMA4	15	78834926	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	3175048	78834926	23696466	47	9374											
C15orf42	0	hgsc.bcm.edu;ucsc.edu	37	chr15	90168863	90168864	+	Frame_Shift_Ins	INS	-	-	A																															ttgggttgagttccaggaagINSagagtcctgttggccaagga																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	90168864	-	A	90168863	7	5	167	1	0	1	1	0	0	0	0	0	1796	933	33	0	5400	0	C15orf42	15	90168863	Frame_Shift_Ins	INS	-	TCGA-B2-3924-01A-02D-1386-10	11333937	90168863	12362529	48	9375											
CHD2	1106	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	93489310	93489310	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaaatgagcccgaatatcTatgtaaatggatgggactcc	13	10	9	9	1	2	1	1	1	1	0	3	4	3	3	2	2	1	1	2	2	6	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	93489310	T	C	93489310	3	2	167	1	0	0	0	0	1	0	0	0	3325	1522	53	3	1283	3	CHD2	15	93489310	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10	3320447	93489310	9042082	49	9376											
SRL	6345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4245571	4245571	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctctttcttgctgcttgCggttctcgatgatgcctggt	3	17	10	11	2	3	1	0	1	3	0	4	2	3	1	2	2	5	3	2	2	1	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	4245571	C	T	4245571	3	4	167	1	0	0	0	0	1	0	0	0	15151	768	27	1	836	1	SRL	16	4245571	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10		4245571	86109182	50	9377											
ATF7IP2	80063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10567377	10567377	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattctagcaattctcccAatgctgaagttatggtgagt	12	13	9	7	0	2	2	0	2	2	0	3	3	2	2	1	1	2	3	1	1	6	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	10567377	A	G	10567377	3	3	167	1	0	0	0	0	1	0	0	0	1088	130	5	3	1494	3	ATF7IP2	16	10567377	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	6321806	10567377	79787376	51	9378											
C16orf62	57020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	19627466	19627466	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtggccccacatctcaaaGaaaccctaaataagaacttt	17	8	5	11	0	1	2	1	0	1	2	2	2	1	2	3	1	2	0	3	1	7	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	19627466	G	C	19627466	3	2	167	1	0	0	0	0	1	0	0	0	1825	943	33	4	1104	4	C16orf62	16	19627466	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10	9060089	19627466	70727287	52	9379											
RBBP6	5930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24583192	24583192	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacaggttgaaaaagagcAaattactgggcaaattgaca	18	7	10	6	0	0	3	0	2	0	1	0	4	0	3	0	2	2	3	0	2	5	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	24583192	A	G	24583192	3	3	167	1	0	0	0	0	1	0	0	0	13105	130	5	3	4929	3	RBBP6	16	24583192	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	4955726	24583192	65771561	53	9380											
MYO15A	51168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18044110	18044110	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccactgccaggtgcaacccCttgttcatgcgttgcctgaa	7	10	10	14	1	1	1	1	1	0	0	1	1	1	1	5	1	5	3	5	1	2	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	18044110	C	T	18044110	2	4	167	1	0	0	0	0	0	0	0	1	10063	668	24	2		2	MYO15A	17	18044110	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10		18044110	63151100	54	9381											
SSH2	85464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27977810	27977810	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgagtgacattcaagataTaccgtaccctgcaaggaaac	14	8	8	11	2	1	2	1	1	0	1	2	4	1	3	2	1	4	2	2	1	6	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	27977810	T	C	27977810	3	2	167	1	0	0	0	0	1	0	0	0	15186	1406	49	3	3280	3	SSH2	17	27977810	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10	9933700	27977810	53217400	55	9382											
SLC4A1	6521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42328875	42328875	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatgccgctgagcgacGtgacccccatgtagaggaag	9	6	15	11	3	0	3	0	2	0	1	0	6	0	5	3	2	2	3	3	2	2	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	42328875	G	A	42328875	3	1	167	1	0	0	0	0	1	0	0	0	14652	1145	40	1	354	1	SLC4A1	17	42328875	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10	14351065	42328875	38866335	56	9383											
ANKFN1	162282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	54452062	54452062	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgtcaatgcagctgtagtAaccaggtataaaggtactgg	13	9	12	7	1	1	0	1	0	0	0	1	0	1	0	1	3	5	6	1	3	7	5	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	54452062	A	G	54452062	2	3	167	1	0	0	0	0	0	0	0	1	625	349	13	3		3	ANKFN1	17	54452062	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10	12123187	54452062	26743148	57	9384											
AKAP1	8165	hgsc.bcm.edu	37	chr17	55183751	55183771	+	In_Frame_Del	DEL	GCTTGGATAGAAATGAGGAGG	GCTTGGATAGAAATGAGGAGG	-																															agaactgggcaatgaggagaGcttggatagaaatgaggagg																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	GCTTGGATAGAAATGAGGAGG	GCTTGGATAGAAATGAGGAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		-	55183771	GCTTGGATAGAAATGAGGAGG	-	55183751	7	5	167	1	0	1	0	1	0	0	0	0	445	971	34	0	928	0	AKAP1	17	55183751	In_Frame_Del	DEL	GCTTGGATAGAAATGAGGAGG	TCGA-B2-3924-01A-02D-1386-10	731689	55183751	26011459	58	9385											
NPLOC4	55666	broad.mit.edu;ucsc.edu	37	chr17	79589205	79589205	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttacttgatttttagcaAgttgagggatttgttggagg	9	16	12	4	0	0	2	0	2	0	0	0	4	0	4	0	3	2	3	0	3	3	8	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	79589205	T	T	79589205	3	4	167	1	0	0	0	0	1	0	0	0	10586	69	3	5	1690	5	NPLOC4	17	79589205	Missense_Mutation	SNP	A	TCGA-B2-3924-01A-02D-1386-10	24405454	79589205	1606005	59	9386											
EMILIN2	84034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	2891711	2891711	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccctgccaggagtgtcagGgtcaggagatgaacgggtca	10	6	16	9	1	3	2	3	1	0	1	3	4	3	3	2	4	3	0	2	4	1	0	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	2891711	G	C	2891711	3	2	167	1	0	0	0	0	1	0	0	0	5094	1232	43	4	1600	4	EMILIN2	18	2891711	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10		2891711	75185537	60	9387											
TTC9B	148014	broad.mit.edu	37	chr19	40723224	40723224	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctccagtaccttgagAcagtactcgcgcacgcgctc	7	10	9	15	4	1	1	0	1	1	1	4	2	1	1	2	0	3	5	2	0	2	4	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	40723224	G	G	40723224	2	3	167	1	0	0	0	0	0	0	0	1	16715	273	10	3		3	TTC9B	19	40723224	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10		40723224	18405759	61	9388											
C19orf61	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44237823	44237823	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgagctggtcaatcatcaGgtgcatctgccgcagcttcc	8	10	10	13	1	4	1	3	1	1	0	5	1	5	1	2	2	4	4	2	2	1	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	44237823	G	A	44237823	2	1	167	1	0	0	0	0	0	0	0	1	1943	991	35	2		2	C19orf61	19	44237823	Silent	SNP	G	TCGA-B2-3924-01A-02D-1386-10	3514599	44237823	14891160	62	9389											
CPNE1	8904	broad.mit.edu;ucsc.edu	37	chr20	34214664	34214664	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggcacgcaccacagccTcacgtgtggcttccacatcc	8	7	9	17	3	1	0	1	0	0	0	4	1	3	0	4	2	1	3	4	2	0	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	34214664	G	G	34214664	3	3	167	1	0	0	0	0	1	0	0	0	3811	1551	54	5	323	5	CPNE1	20	34214664	Missense_Mutation	SNP	T	TCGA-B2-3924-01A-02D-1386-10		34214664	28810856	63	9390											
TMEM189	387521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	48760154	48760154	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaccactcctggaggcgCttgcctgcagggagcagagg	8	5	16	12	1	0	1	0	0	0	1	1	4	1	3	3	4	4	4	3	4	0	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		T	48760154	C	T	48760154	2	4	167	1	0	0	0	0	0	0	0	1	16110	796	28	2		2	TMEM189	20	48760154	Silent	SNP	C	TCGA-B2-3924-01A-02D-1386-10	14545490	48760154	14265366	64	9391											
KRTAP10-6	386674	broad.mit.edu	37	chr21	46012291	46012291	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagtcggagcaagagtcAcaggaaccaggaaggcagac	15	2	15	9	1	1	2	1	0	0	2	2	6	1	6	1	5	2	2	1	5	3	0	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	46012291	G	G	46012291	2	3	167	1	0	0	0	0	0	0	0	1	8513	157	6	3		3	KRTAP10-6	21	46012291	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10		46012291	2117604	65	9392											
SEPT5	5413	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	19707850	19707850	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctgcccacagctggaagCccatcaccgactatgtggac	9	7	9	16	1	1	0	1	0	0	0	2	3	2	2	4	2	3	1	4	2	2	1	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	19707850	C	G	19707850	3	3	167	1	0	0	0	0	1	0	0	0	14069	739	26	4	392	4	SEPT5	22	19707850	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10		19707850	31596716	66	9393											
SLC2A11	66035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24226915	24226915	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacactggcctgttccttcCtgagaccaaaggcaagacct	10	9	8	14	0	0	2	0	1	0	2	2	3	2	2	5	2	1	2	5	2	3	3	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	24226915	C	A	24226915	3	1	167	1	0	0	0	0	1	0	0	0	14542	681	24	4	1496	4	SLC2A11	22	24226915	Missense_Mutation	SNP	C	TCGA-B2-3924-01A-02D-1386-10	4519065	24226915	27077651	67	9394											
C22orf30	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32112375	32112375	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agggtttgtcaagttaccttGaacgtgtacagtaattttca	11	15	9	6	1	2	1	2	1	0	0	2	1	2	1	1	1	3	4	1	1	5	7	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		C	32112375	G	C	32112375	3	2	167	1	0	0	0	0	1	0	0	0	2142	1299	45	4	5029	4	C22orf30	22	32112375	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10	7885460	32112375	19192191	68	9395											
PKDREJ	10343	broad.mit.edu	37	chr22	46654831	46654831	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagaggatgcttttgaggAgatacctcctttagatccgc	10	13	10	8	1	0	4	0	1	0	3	2	6	2	5	3	2	2	1	3	2	3	6	novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	46654831	G	G	46654831	2	3	167	1	0	0	0	0	0	0	0	1	11970	291	11	3		3	PKDREJ	22	46654831	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10	14542456	46654831	4649735	69	9396											
EIF2S3	1968	hgsc.bcm.edu	37	chrX	24073090	24073091	+	In_Frame_Ins	INS	-	-	GGG																															tcctcttttggcaacatggcINSgggcggagaagctggagtga																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		GGG	24073091	-	GGG	24073090	7	5	167	1	0	1	1	0	0	0	0	0	5011	768	27	0	7	0	EIF2S3	23	24073090	In_Frame_Ins	INS	-	TCGA-B2-3924-01A-02D-1386-10		24073090	131197470	70	9397											
TMLHE	55217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	154754204	154754204	+	Missense_Mutation	SNP	G	G	A																															agtatccaggctgcgctggtGagtcttagagttgtagcacg																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		A	154754204	G	A	154754204	3	1	167	1	0	0	0	0	1	0	0	0	16231	1290	45	2	1158	2	TMLHE	23	154754204	Missense_Mutation	SNP	G	TCGA-B2-3924-01A-02D-1386-10	130681114	154754204	516356	71	9398	135	2									
TMLHE	55217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	154754205	154754205	+	Silent	SNP	A	A	G																															gtatccaggctgcgctggtgAgtcttagagttgtagcacga																								novel		TCGA-B2-3924-01A-02D-1386-10	TCGA-B2-3924-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e6cf808-de43-4898-8e62-6ffef3f90eed	28aac82d-72ad-4956-a3c3-022718b48fdd		G	154754205	A	G	154754205	2	3	167	1	0	0	0	0	0	0	0	1	16231	291	11	3		3	TMLHE	23	154754205	Silent	SNP	A	TCGA-B2-3924-01A-02D-1386-10	1	154754205	516355	72	9399	135	2									
TNFRSF4	7293	broad.mit.edu;hgsc.bcm.edu	37	chr1	1149473	1149473	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcagagccgcacacGgcccgcggcccagccgccga	8	0	16	17	6	0	1	0	0	0	1	0	4	0	3	5	4	3	2	5	4	0	0	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		T	1149473	G	T	1149473	3	4	168	1	0	0	0	0	1	0	0	0	16296	1116	39	4	826	4	TNFRSF4	1	1149473	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08		1149473	248101148	1	9400											
HSPG2	3339	broad.mit.edu	37	chr1	22166039	22166039	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtggatggtgggcgcgggGctgcctgtggagtcgagtgg	4	8	22	7	3	0	0	0	0	0	0	1	3	0	2	1	7	1	1	1	7	0	0	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		C	22166039	C	C	22166039	3	2	168	1	0	0	0	0	1	0	0	0	7430	1194	42	4	3561	4	HSPG2	1	22166039	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08	21016566	22166039	227084582	2	9401											
CIB4	130106	broad.mit.edu;hgsc.bcm.edu	37	chr2	26806745	26806745	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgcagatcctcctcatcaAtgaagccattctcattaaaa	13	12	4	12	0	4	2	3	1	2	1	7	2	6	2	3	0	2	1	3	0	4	2	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		G	26806745	A	G	26806745	3	3	168	1	0	0	0	0	1	0	0	0	3423	101	4	3	219	3	CIB4	2	26806745	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-01D-1458-08		26806745	216392628	3	9402											
SIX3	6496	broad.mit.edu;hgsc.bcm.edu	37	chr2	45171737	45171737	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccattggaccgagcggCatgcgctcgctggccgagcc	6	5	15	15	5	0	0	0	0	0	0	1	3	0	1	4	4	3	3	4	4	0	1	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	45171737	C	A	45171737	2	1	168	1	0	0	0	0	0	0	0	1	14350	697	25	4		4	SIX3	2	45171737	Silent	SNP	C	TCGA-B2-4098-01A-01D-1458-08	18364992	45171737	198027636	4	9403											
CEP68	23177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	65299148	65299148	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagatctgcttgactatacTtacccactgaggcccgggcc	9	9	10	13	1	1	3	0	2	1	1	1	4	1	3	3	2	3	1	3	2	4	4	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		G	65299148	T	G	65299148	2	3	168	1	0	0	0	0	0	0	0	1	3258	1596	56	5		5	CEP68	2	65299148	Silent	SNP	T	TCGA-B2-4098-01A-01D-1458-08	20127411	65299148	177900225	5	9404											
NFE2L2	4780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178098799	178098799	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggctgaattgggagaaaTtcacctgtctcttcatctag	9	13	10	9	0	4	2	2	1	2	1	5	3	4	2	1	2	0	2	1	2	3	4	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		G	178098799	T	G	178098799	3	3	168	1	0	0	0	0	1	0	0	0	10368	1490	52	5	1587	5	NFE2L2	2	178098799	Missense_Mutation	SNP	T	TCGA-B2-4098-01A-01D-1458-08	112799651	178098799	65100574	6	9405											
B3GNT7	93010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	232263303	232263303	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggggccctgtacggcaaGgccagctatccgccgtatgc	6	6	14	15	4	0	0	0	0	0	0	1	0	1	0	5	4	3	4	5	4	4	3	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		C	232263303	G	C	232263303	3	2	168	1	0	0	0	0	1	0	0	0	1262	991	35	4	879	4	B3GNT7	2	232263303	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08	54164504	232263303	10936070	7	9406											
GLB1	2720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33038793	33038793	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaactgagggccccgggctGgccaatagcggccaaggtta	9	6	14	12	2	1	1	1	1	0	0	1	1	1	1	4	5	2	2	4	5	5	2	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	33038793	G	A	33038793	3	1	168	1	0	0	0	0	1	0	0	0	6427	1348	47	2	259	2	GLB1	3	33038793	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08		33038793	164983637	8	9407											
ABTB1	80325	broad.mit.edu;hgsc.bcm.edu	37	chr3	127399686	127399686	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaattgcttctctaagcTggtgttcccatgcacagggc	7	12	10	12	0	1	1	0	1	1	0	3	1	2	1	2	2	3	4	2	2	2	4	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		C	127399686	T	C	127399686	1	2	168	0	1	0	0	0	0	0	0	0	102	1595	55	3		3	ABTB1	3	127399686	RNA	SNP	T	TCGA-B2-4098-01A-01D-1458-08	94360893	127399686	70622744	9	9408											
LRRC33	375387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196388312	196388312	+	Missense_Mutation	SNP	G	G	A																															agaatccatatgactgctgtGgggtggatggctggggggcc																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	196388312	G	A	196388312	3	1	168	1	0	0	0	0	1	0	0	0	8988	1348	47	2	1804	2	LRRC33	3	196388312	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08	68988626	196388312	1634118	10	9409	136	2									
LRRC33	375387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196388313	196388313	+	Missense_Mutation	SNP	G	G	T																															gaatccatatgactgctgtgGggtggatggctggggggccc																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		T	196388313	G	T	196388313	3	4	168	1	0	0	0	0	1	0	0	0	8988	1232	43	4	1805	4	LRRC33	3	196388313	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08	1	196388313	1634117	11	9410	136	2									
SEC31A	22872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83788377	83788377	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataaacactgatacgcccAtcaaacgaagcagctgataa	18	6	7	10	2	1	2	1	2	0	0	1	4	1	2	1	0	5	2	1	0	7	3	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		G	83788377	A	G	83788377	2	3	168	1	0	0	0	0	0	0	0	1	14000	214	8	3		3	SEC31A	4	83788377	Silent	SNP	A	TCGA-B2-4098-01A-01D-1458-08		83788377	107365899	12	9411											
SORBS2	8470	hgsc.bcm.edu;ucsc.edu	37	chr4	186545056	186545067	+	In_Frame_Del	DEL	CATGTCCCGGGG	CATGTCCCGGGG	-																															tcggagatgcgtgtgggcacCatgtcccggggcacctcctc																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	CATGTCCCGGGG	CATGTCCCGGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	186545067	CATGTCCCGGGG	-	186545056	7	5	168	1	0	1	0	1	0	0	0	0	14930	594	21	0	1823	0	SORBS2	4	186545056	In_Frame_Del	DEL	CATGTCCCGGGG	TCGA-B2-4098-01A-01D-1458-08	102756679	186545056	4609220	13	9412											
ATXN1	6310	broad.mit.edu;ucsc.edu	37	chr6	16327452	16327452	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagtctgaggggctcgggtGgaccaccacgtgcctggact	6	8	16	11	2	1	1	0	1	1	0	2	3	1	3	3	5	1	2	3	5	1	1	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		C	16327452	C	C	16327452	3	2	168	1	0	0	0	0	1	0	0	0	1209	1348	47	4	1365	4	ATXN1	6	16327452	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08		16327452	154787615	14	9413											
GNMT	27232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	42931107	42931107	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaacatcagtgctgatagtGaacaacaaggcccacatggt	15	7	9	10	0	1	2	1	2	0	0	1	2	1	2	1	2	4	1	1	2	5	1	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	42931107	G	A	42931107	2	1	168	1	0	0	0	0	0	0	0	1	6540	1277	45	2		2	GNMT	6	42931107	Silent	SNP	G	TCGA-B2-4098-01A-01D-1458-08	26603655	42931107	128183960	15	9414											
KIAA1244	57221	hgsc.bcm.edu	37	chr6	138657590	138657591	+	Frame_Shift_Del	DEL	CA	CA	-																															gctgtgagggagtggctgggCagggtgggccgtgtctatga																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	138657591	CA	-	138657590	7	5	168	1	0	1	0	1	0	0	0	0	8217	697	25	0	6635	0	KIAA1244	6	138657590	Frame_Shift_Del	DEL	CA	TCGA-B2-4098-01A-01D-1458-08	95726483	138657590	32457477	16	9415											
MEPCE	56257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100031142	100031142	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcttccagcgtcctgtgTacctgttccacaaggcccga	7	9	10	15	2	0	0	0	0	0	0	3	1	3	0	5	2	2	3	5	2	2	3	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	100031142	T	A	100031142	3	1	168	1	0	0	0	0	1	0	0	0	9477	1638	57	5	2049	5	MEPCE	7	100031142	Missense_Mutation	SNP	T	TCGA-B2-4098-01A-01D-1458-08		100031142	59107521	17	9416											
RPS20	6224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	56986629	56986629	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcactgacccttttccaaGgattttacgttgcggcttgt	7	15	9	10	2	0	1	0	1	0	0	1	2	1	2	2	2	3	3	2	2	2	6	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	56986629	G	A	56986629	2	1	168	1	0	0	0	0	0	0	0	1	13634	987	35	2		2	RPS20	8	56986629	Silent	SNP	G	TCGA-B2-4098-01A-01D-1458-08		56986629	89377393	18	9417											
YME1L1	10730	hgsc.bcm.edu	37	chr10	27436462	27436463	+	Frame_Shift_Del	DEL	GC	GC	-																															gaagggttctggacggatgtGccagttatcggttgtgtcca																								rs151242856	by1000genomes	TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	27436463	GC	-	27436462	7	5	168	1	0	1	0	1	0	0	0	0	17486	1319	46	0	2089	0	YME1L1	10	27436462	Frame_Shift_Del	DEL	GC	TCGA-B2-4098-01A-01D-1458-08		27436462	108098285	19	9418											
ZDHHC16	84287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99211881	99211881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtgatcgtgctgacaggctCcattgtagctatcgcctacc	7	11	11	12	2	0	2	0	2	0	0	3	2	1	2	3	2	3	4	3	2	3	4	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		T	99211881	C	T	99211881	3	4	168	1	0	0	0	0	1	0	0	0	17605	855	30	2	284	2	ZDHHC16	10	99211881	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-01D-1458-08	71775419	99211881	36322866	20	9419											
CDHR5	53841	hgsc.bcm.edu	37	chr11	617406	617407	+	In_Frame_Ins	INS	-	-	CGCCCT																															gggacccccacccctccccgINScgccctcgccctcatcgccg																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		CGCCCT	617407	-	CGCCCT	617406	7	5	168	1	0	1	1	0	0	0	0	0	3122	1087	38	0	58	0	CDHR5	11	617406	In_Frame_Ins	INS	-	TCGA-B2-4098-01A-01D-1458-08		617406	134389110	21	9420											
IGF2	3481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	2154815	2154815	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcacagtacgtctccaGgagggccaggtcacagctgc	9	6	14	12	1	2	0	1	0	1	0	3	1	2	1	2	4	4	4	2	4	2	2	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	2154815	G	A	2154815	2	1	168	1	0	0	0	0	0	0	0	1	7572	991	35	2		2	IGF2	11	2154815	Silent	SNP	G	TCGA-B2-4098-01A-01D-1458-08	1537409	2154815	132851701	22	9421											
GPR152	390212	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67220120	67220120	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcccagccaccttgggggtAggagtcctcatcatcaagct	8	9	11	13	0	3	0	3	0	0	0	5	1	5	1	4	3	2	2	4	3	2	2	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		C	67220120	A	C	67220120	3	2	168	1	0	0	0	0	1	0	0	0	6658	420	15	5	1340	5	GPR152	11	67220120	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-01D-1458-08	65065305	67220120	67786396	23	9422											
TSPAN19	144448	broad.mit.edu	37	chr12	85423547	85423547	+	Frame_Shift_Del	DEL	C	-	-																															ataagagccatgcaccaaatCccatgaataaaagtccaaga																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	85423547	-	-	85423547	7	5	168	1	0	1	0	1	0	0	0	0	16642	855	30	0	685	0	TSPAN19	12	85423547	Frame_Shift_Del	DEL	C	TCGA-B2-4098-01A-01D-1458-08		85423547	48428348	24	9423											
BTBD11	121551	hgsc.bcm.edu;ucsc.edu	37	chr12	107713815	107713815	+	Frame_Shift_Del	DEL	G	G	-																															gagatctggggtctcctgcaGccctaccagcacctgatctg																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	107713815	G	-	107713815	7	5	168	1	0	1	0	1	0	0	0	0	1539	962	34	0	1100	0	BTBD11	12	107713815	Frame_Shift_Del	DEL	G	TCGA-B2-4098-01A-01D-1458-08	22290268	107713815	26138080	25	9424											
GATC	283459	hgsc.bcm.edu	37	chr12	120884306	120884307	+	Frame_Shift_Ins	INS	-	-	G																															tggtcgcggttggtgtggctINSgggccttcgggcccctctgg																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		G	120884307	-	G	120884306	7	5	168	1	0	1	1	0	0	0	0	0	6262	1580	55	0	25	0	GATC	12	120884306	Frame_Shift_Ins	INS	-	TCGA-B2-4098-01A-01D-1458-08	13170491	120884306	12967589	26	9425											
ARG2	384	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68086727	68086727	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggcagcctctcgcgtctcctCcagacgcgagtgcattccat	6	9	10	16	4	2	1	0	0	2	1	6	2	4	1	4	1	2	2	4	1	0	1	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		G	68086727	C	G	68086727	2	3	168	1	0	0	0	0	0	0	0	1	858	842	30	4		4	ARG2	14	68086727	Silent	SNP	C	TCGA-B2-4098-01A-01D-1458-08		68086727	39262813	27	9426											
ODF3L1	161753	hgsc.bcm.edu;ucsc.edu	37	chr15	76019407	76019407	+	Frame_Shift_Del	DEL	C	C	-																															cactccctttcaggcctgaaCcccaccctcgcatcctgcca																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	76019407	C	-	76019407	7	5	168	1	0	1	0	1	0	0	0	0	10831	506	18	0	365	0	ODF3L1	15	76019407	Frame_Shift_Del	DEL	C	TCGA-B2-4098-01A-01D-1458-08		76019407	26511985	28	9427											
CORO1A	11151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30198495	30198495	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatttgtacctcctgccGtgacaagcgcgtgcgcatca	7	10	9	15	4	2	1	2	1	0	0	3	1	3	1	4	0	4	2	4	0	2	2	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	30198495	G	A	30198495	3	1	168	1	0	0	0	0	1	0	0	0	3753	1145	40	1	601	1	CORO1A	16	30198495	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08		30198495	60156258	29	9428											
TMC8	147138	hgsc.bcm.edu	37	chr17	76127732	76127732	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccggagccggaggagctGtgggaggcagagatggagcg	8	4	22	7	3	0	1	0	0	0	1	0	7	0	6	2	6	4	2	2	6	0	0	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	76127732	G	A	76127732	2	1	168	1	0	0	0	0	0	0	0	1	15990	1364	48	2		2	TMC8	17	76127732	Silent	SNP	G	TCGA-B2-4098-01A-01D-1458-08		76127732	5067478	30	9429											
SSTR4	6754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	23016583	23016583	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgcaccctctgcgcgcgGcgacctaccggcggcccagc	4	5	14	18	6	1	0	0	0	1	0	1	1	1	0	4	4	4	1	4	4	1	1	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	23016583	G	A	23016583	3	1	168	1	0	0	0	0	1	0	0	0	15201	1203	42	2	465	2	SSTR4	20	23016583	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08		23016583	40008937	31	9430											
OGFR	11054	broad.mit.edu	37	chr20	61442846	61442846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcccaggagatccaggagcgGcttgtccgggcctacgagct	7	7	14	13	3	0	1	0	0	0	1	3	4	3	2	4	4	3	2	4	4	1	2	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	61442846	A	A	61442846	2	1	168	1	0	0	0	0	0	0	0	1	10843	1190	42	2		2	OGFR	20	61442846	Silent	SNP	G	TCGA-B2-4098-01A-01D-1458-08	38426263	61442846	1582674	32	9431											
C22orf42	150297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32555106	32555106	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtggctgccacagtctcagGaatctcacactcatggcagg	9	9	11	12	0	3	0	3	0	2	0	5	1	3	1	1	4	1	2	1	4	1	0	novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		A	32555106	G	A	32555106	3	1	168	1	0	0	0	0	1	0	0	0	2149	1174	41	2	694	2	C22orf42	22	32555106	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-01D-1458-08		32555106	18749460	33	9432											
KDM6A	7403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	44949174	44949174	+	Frame_Shift_Del	DEL	A	A	-																															tggaatgttggtccacttacAggtattataaagaatatgct																								novel		TCGA-B2-4098-01A-01D-1458-08	TCGA-B2-4098-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	76faa3c6-4474-433c-89e3-e78b68573ac5	db55656f-778d-4864-8679-61caa7e12c02		-	44949174	A	-	44949174	7	5	168	1	0	1	0	1	0	0	0	0	8137	202	7	0	3833	0	KDM6A	23	44949174	Frame_Shift_Del	DEL	A	TCGA-B2-4098-01A-01D-1458-08		44949174	110321386	34	9433											
YY1AP1	55249	broad.mit.edu;hgsc.bcm.edu	37	chr1	155640162	155640162	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggattctttgccttcAgggaacacactggaagtaac	10	10	11	10	0	2	0	1	0	1	0	2	3	2	3	2	4	3	1	2	4	3	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	155640162	A	T	155640162	3	4	169	1	0	0	0	0	1	0	0	0	17507	188	7	5	1591	5	YY1AP1	1	155640162	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10		155640162	93610459	1	9434											
C1orf25	0	hgsc.bcm.edu;ucsc.edu	37	chr1	185094228	185094228	+	Frame_Shift_Del	DEL	A	A	-																															ttttgaggaatccagtattgAaaagggaacttgacctgaaa																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		-	185094228	A	-	185094228	7	5	169	1	0	1	0	1	0	0	0	0	2034	246	9	0	610	0	C1orf25	1	185094228	Frame_Shift_Del	DEL	A	TCGA-B2-4098-01A-02D-1386-10	29454066	185094228	64156393	2	9435											
ELK4	2005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205592865	205592865	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcatgttaggcttgttcTtgcgaatcccccagagacga	10	12	9	10	2	2	1	1	0	1	1	3	4	3	1	2	1	1	3	2	1	3	5	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	205592865	T	C	205592865	3	2	169	1	0	0	0	0	1	0	0	0	5061	1609	56	3	1303	3	ELK4	1	205592865	Missense_Mutation	SNP	T	TCGA-B2-4098-01A-02D-1386-10	20498637	205592865	43657756	3	9436											
OR2W3	343171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	248059095	248059095	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcccacctttccttcctGgacctcagtttcaccaccag	6	11	5	19	1	2	0	2	0	0	0	5	1	4	1	7	1	0	1	7	1	0	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	248059095	G	T	248059095	2	4	169	1	0	0	0	0	0	0	0	1	11033	1335	47	4		4	OR2W3	1	248059095	Silent	SNP	G	TCGA-B2-4098-01A-02D-1386-10	42466230	248059095	1191526	4	9437											
DNMT3A	1788	broad.mit.edu	37	chr2	25470497	25470497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgaaccacatgacccagCgggtgccttcagctgctcgg	7	7	11	16	3	1	1	1	1	0	0	3	2	2	1	4	2	5	2	4	2	1	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	25470497	T	T	25470497	3	4	169	1	0	0	0	0	1	0	0	0	4676	768	27	1	1825	1	DNMT3A	2	25470497	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10		25470497	217728876	5	9438											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179484778	179484778	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaagcatattcacactcatCatccagcctgcaatctttta	12	12	4	13	0	4	0	3	0	1	0	5	0	5	0	2	0	3	3	2	0	4	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	179484778	C	T	179484778	3	4	169	1	0	0	0	0	1	0	0	0	16734	826	29	2	61783	2	TTN	2	179484778	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10	154014281	179484778	63714595	6	9439											
C2orf88	84281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191064624	191064624	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaaactttcccatttcCtaccatatatgaaggtgaga	15	11	6	9	0	0	2	0	2	0	1	2	3	2	2	3	1	3	1	3	1	6	5	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	191064624	C	G	191064624	3	3	169	1	0	0	0	0	1	0	0	0	2202	681	24	4	40	4	C2orf88	2	191064624	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10	11579846	191064624	52134749	7	9440											
ILKAP	80895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	239102922	239102922	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctaccacttacctgaatCgccactgctagcgggtggga	8	10	10	13	2	0	1	0	1	0	0	2	2	1	2	4	2	4	1	4	2	4	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	239102922	C	T	239102922	3	4	169	1	0	0	0	0	1	0	0	0	7714	884	31	1	1046	1	ILKAP	2	239102922	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10	48038298	239102922	4096451	8	9441											
ZPLD1	131368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	102157367	102157367	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctgctgcttctaacaatTagagtgcttccggggtctgc	6	14	11	10	1	2	1	0	0	2	1	3	1	3	1	1	2	6	4	1	2	3	5	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	102157367	T	C	102157367	2	2	169	1	0	0	0	0	0	0	0	1	18220	1742	61	3		3	ZPLD1	3	102157367	Silent	SNP	T	TCGA-B2-4098-01A-02D-1386-10		102157367	95865063	9	9442											
UMPS	7372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	124457035	124457035	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccatgagttcttgatatttGaagaccggaagtttgcagat	11	13	11	6	1	1	5	0	3	1	2	1	6	1	6	2	1	1	3	2	1	3	5	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	124457035	G	A	124457035	3	1	169	1	0	0	0	0	1	0	0	0	16980	1291	45	2	941	2	UMPS	3	124457035	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10	22299668	124457035	73565395	10	9443											
RPN1	6184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128350832	128350832	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattccactatctggctgtcTctggtaatcatagcgtgaga	9	14	9	9	1	3	1	1	1	2	1	5	2	4	1	1	2	1	2	1	2	4	5	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	128350832	T	A	128350832	4	1	169	1	0	0	0	0	0	1	0	0	13609	1559	54	5	1049	5	RPN1	3	128350832	Nonsense_Mutation	SNP	T	TCGA-B2-4098-01A-02D-1386-10	3893797	128350832	69671598	11	9444											
SKIL	6498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170110164	170110164	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgatgataaaagagctaAagctgcaaattctgaaatca	19	9	8	5	0	2	5	1	3	1	2	2	5	2	5	0	0	3	3	0	0	6	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	170110164	A	C	170110164	3	2	169	1	0	0	0	0	1	0	0	0	14360	15	1	5	2036	5	SKIL	3	170110164	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10	41759332	170110164	27912266	12	9445											
SMARCAD1	56916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	95199614	95199614	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatatgaaaaggagagaatAgcacatgcaaaacaaattat	22	8	7	4	0	0	2	0	1	0	1	0	4	0	3	0	1	3	2	0	1	10	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	95199614	A	G	95199614	3	3	169	1	0	0	0	0	1	0	0	0	14774	410	15	3	2186	3	SMARCAD1	4	95199614	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10		95199614	95954662	13	9446											
GRIA2	2891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	158142838	158142838	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggctatttcctaggggCgccgatcaagaatacagtgc	9	8	15	9	2	1	1	1	0	0	1	2	2	2	1	2	5	2	1	2	5	5	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	158142838	C	T	158142838	2	4	169	1	0	0	0	0	0	0	0	1	6768	755	27	1		1	GRIA2	4	158142838	Silent	SNP	C	TCGA-B2-4098-01A-02D-1386-10	62943224	158142838	33011438	14	9447											
AP3S1	1176	broad.mit.edu	37	chr5	115177762	115177762	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgatcctaatcttcaacAaccacgggaagccgcggctc	11	6	10	14	4	2	0	1	0	1	0	4	2	3	1	3	3	3	1	3	3	4	2	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	115177762	C	C	115177762	3	2	169	1	0	0	0	0	1	0	0	0	749	130	5	5	30	5	AP3S1	5	115177762	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10		115177762	65737498	15	9448											
PDGFRB	5159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149499609	149499609	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagagcaggatcccgaaGgaccacacgtcgctcagggt	10	5	12	14	3	1	1	1	0	0	1	4	4	3	3	3	3	1	2	3	3	1	0	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	149499609	G	A	149499609	2	1	169	1	0	0	0	0	0	0	0	1	11662	987	35	2		2	PDGFRB	5	149499609	Silent	SNP	G	TCGA-B2-4098-01A-02D-1386-10	34321847	149499609	31415651	16	9449											
KIF4B	285643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154394675	154394675	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagcccagatgttggagaGgatcattttgacagagcaag	13	8	13	7	0	1	4	1	1	0	3	1	7	1	5	1	2	2	2	1	2	1	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	154394675	G	T	154394675	3	4	169	1	0	0	0	0	1	0	0	0	8304	1000	35	4	1258	4	KIF4B	5	154394675	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10	4895066	154394675	26520585	17	9450											
GCNT2	2651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	10529526	10529526	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatgtctactgtgtgcacCtggatcagaaggcgacggat	12	9	12	8	2	2	1	1	0	1	1	2	4	2	3	1	3	2	1	1	3	4	1	rs151060330	alternate_allele	TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	10529526	C	T	10529526	2	4	169	1	0	0	0	0	0	0	0	1	6301	680	24	2		2	GCNT2	6	10529526	Silent	SNP	C	TCGA-B2-4098-01A-02D-1386-10		10529526	160585541	18	9451											
XPO5	57510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43491607	43491607	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatgcccaaaagcttgattCagggttcaaagatggtggcc	11	9	13	8	0	2	2	2	1	0	1	2	3	2	3	2	4	2	2	2	4	3	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	43491607	C	T	43491607	2	4	169	1	0	0	0	0	0	0	0	1	17446	837	29	2		2	XPO5	6	43491607	Silent	SNP	C	TCGA-B2-4098-01A-02D-1386-10	32962081	43491607	127623460	19	9452											
ZNF804B	219578	hgsc.bcm.edu;ucsc.edu	37	chr7	88962701	88962702	+	Frame_Shift_Ins	INS	-	-	A																															ctggaaatggaccagcatacINSaaagcccccagggtagccat																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	88962702	-	A	88962701	7	5	169	1	0	1	1	0	0	0	0	0	18170	489	17	0	419	0	ZNF804B	7	88962701	Frame_Shift_Ins	INS	-	TCGA-B2-4098-01A-02D-1386-10		88962701	70175962	20	9453											
CNOT4	4850	hgsc.bcm.edu;ucsc.edu	37	chr7	135098321	135098322	+	Frame_Shift_Ins	INS	-	-	TT																															gttttggacactgcatattcINStttaagaagtaactgcagta																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		TT	135098322	-	TT	135098321	7	5	169	1	0	1	1	0	0	0	0	0	3621	912	32	0	1445	0	CNOT4	7	135098321	Frame_Shift_Ins	INS	-	TCGA-B2-4098-01A-02D-1386-10	46135620	135098321	24040342	21	9454											
SYBU	55638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110598354	110598354	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcaggagcggaaatgctGcctgtgctgctcgaggagct	8	8	14	11	2	1	0	1	0	0	0	2	4	1	3	2	3	6	4	2	3	1	0	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	110598354	G	A	110598354	2	1	169	1	0	0	0	0	0	0	0	1	15426	1306	46	2		2	SYBU	8	110598354	Silent	SNP	G	TCGA-B2-4098-01A-02D-1386-10		110598354	35765668	22	9455											
OC90	729330	hgsc.bcm.edu	37	chr8	133036893	133036894	+	Frame_Shift_Ins	INS	-	-	G																															gcaggctgtcttcacaggctINSgctggctgcccagggcaccc																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	133036894	-	G	133036893	7	5	169	1	0	1	1	0	0	0	0	0	10814	1567	55	0	168	0	OC90	8	133036893	Frame_Shift_Ins	INS	-	TCGA-B2-4098-01A-02D-1386-10	22438539	133036893	13327129	23	9456											
NPR2	4882	broad.mit.edu	37	chr9	35792438	35792438	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttctgctgttggtggcAgccctggcaggtggggtgcg	3	11	17	10	1	2	0	1	0	1	0	2	0	2	0	1	6	3	4	1	6	0	2	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	35792438	G	G	35792438	2	3	169	1	0	0	0	0	0	0	0	1	10595	175	7	3		3	NPR2	9	35792438	Silent	SNP	A	TCGA-B2-4098-01A-02D-1386-10		35792438	105420993	24	9457											
CAMSAP1	157922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138713195	138713195	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggaccttcagctccgcCggccttccggaacgggaatt	6	10	12	13	4	1	0	1	0	0	0	3	3	3	3	5	4	2	1	5	4	2	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	138713195	C	T	138713195	2	4	169	1	0	0	0	0	0	0	0	1	2611	639	23	1		1	CAMSAP1	9	138713195	Silent	SNP	C	TCGA-B2-4098-01A-02D-1386-10	102920757	138713195	2500236	25	9458											
CSTF3	1479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33108666	33108666	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtccggaattatagctgCtagcttagcacgggagacat	10	10	13	8	2	0	1	0	0	0	1	1	3	1	2	1	3	4	4	1	3	5	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	33108666	C	T	33108666	3	4	169	1	0	0	0	0	1	0	0	0	3986	797	28	2	506	2	CSTF3	11	33108666	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10		33108666	101897850	26	9459											
DGKZ	8525	broad.mit.edu;ucsc.edu	37	chr11	46401080	46401080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccatctgccactacatcGtggaggccggggcctcgctc	6	7	12	16	3	1	0	0	0	1	0	4	1	1	1	4	4	2	2	4	4	1	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	46401080	A	A	46401080	3	1	169	1	0	0	0	0	1	0	0	0	4474	1145	40	1	3764	1	DGKZ	11	46401080	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10	13292414	46401080	88605436	27	9460											
TSGA10IP	254187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65715544	65715544	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcggaatggaaaggcctatgCctcgggatacgatgaaactt	12	8	13	8	3	0	1	0	1	0	0	1	5	0	4	2	4	3	0	2	4	5	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	65715544	C	T	65715544	3	4	169	1	0	0	0	0	1	0	0	0	16617	739	26	2	1090	2	TSGA10IP	11	65715544	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10	19314464	65715544	69290972	28	9461											
NCKAP5L	57701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50190216	50190216	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgggggagctggggactgAgctgcgggcctcctgggctg	3	7	20	11	2	0	1	0	1	0	0	2	3	2	3	3	6	3	3	3	6	0	0	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	50190216	A	C	50190216	3	2	169	1	0	0	0	0	1	0	0	0	10224	304	11	5	2601	5	NCKAP5L	12	50190216	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10		50190216	83661679	29	9462											
KIAA0748	0	broad.mit.edu	37	chr12	55357546	55357546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagcatgaggcaggggTcttccatttcaatcctccgc	7	10	11	13	1	2	1	1	1	1	0	5	1	5	1	4	4	1	2	4	4	1	2	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	55357546	G	G	55357546	3	3	169	1	0	0	0	0	1	0	0	0	8190	1667	58	5	942	5	KIAA0748	12	55357546	Missense_Mutation	SNP	T	TCGA-B2-4098-01A-02D-1386-10	5167330	55357546	78494349	30	9463											
CIT	11113	hgsc.bcm.edu;ucsc.edu	37	chr12	120241113	120241113	+	Frame_Shift_Del	DEL	A	A	-																															cagctggcacggagaggatgAaacccacgaattcttctctg																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		-	120241113	A	-	120241113	7	5	169	1	0	1	0	1	0	0	0	0	3438	246	9	0	5043	0	CIT	12	120241113	Frame_Shift_Del	DEL	A	TCGA-B2-4098-01A-02D-1386-10	64883567	120241113	13610782	31	9464											
NBEA	26960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	35770236	35770236	+	Frame_Shift_Del	DEL	T	T	-																															caagagagcttaactgaaaaTcctagtgaaacgttgaagcc																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		-	35770236	T	-	35770236	7	5	169	1	0	1	0	1	0	0	0	0	10187	1432	50	0	5285	0	NBEA	13	35770236	Frame_Shift_Del	DEL	T	TCGA-B2-4098-01A-02D-1386-10		35770236	79399642	32	9465											
DUOX1	53905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45428753	45428753	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatttctggaccccagcAtctcctcagagttcgtggcg	6	10	11	14	2	3	1	1	0	2	1	5	2	3	2	4	3	1	2	4	3	0	2	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	45428753	A	G	45428753	3	3	169	1	0	0	0	0	1	0	0	0	4800	217	8	3	982	3	DUOX1	15	45428753	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10		45428753	57102639	33	9466											
FGF7	2252	hgsc.bcm.edu	37	chr15	49776509	49776509	+	Silent	SNP	A	A	G																															gtttgtttgttttaacagaaAgaatgcaatgaagattgtaa																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	49776509	A	G	49776509	2	3	169	1	0	0	0	0	0	0	0	1	5857	69	3	3		3	FGF7	15	49776509	Silent	SNP	A	TCGA-B2-4098-01A-02D-1386-10	4347756	49776509	52754883	34	9467	137	2									
FGF7	2252	hgsc.bcm.edu	37	chr15	49776514	49776514	+	Missense_Mutation	SNP	G	G	A																															tttgttttaacagaaagaatGcaatgaagattgtaacttca																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	49776514	G	A	49776514	3	1	169	1	0	0	0	0	1	0	0	0	5857	1319	46	2	408	2	FGF7	15	49776514	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10	5	49776514	52754878	35	9468	137	2									
HEXA	3073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72642868	72642868	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattcttacctggtccccAggacaaagtgtggccaggag	10	9	11	11	0	2	0	1	0	1	0	3	2	3	2	4	4	1	0	4	4	2	2	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	72642868	A	C	72642868	3	2	169	1	0	0	0	0	1	0	0	0	7073	188	7	5	825	5	HEXA	15	72642868	Missense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10	22866354	72642868	29888524	36	9469											
WDR73	84942	hgsc.bcm.edu;ucsc.edu	37	chr15	85186743	85186743	+	Frame_Shift_Del	DEL	A	A	-																															acccagtcccacacatgcagAgaggcatcatttgttgctga																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		-	85186743	A	-	85186743	7	5	169	1	0	1	0	1	0	0	0	0	17322	291	11	0	45	0	WDR73	15	85186743	Frame_Shift_Del	DEL	A	TCGA-B2-4098-01A-02D-1386-10	12543875	85186743	17344649	37	9470											
ITGAL	3683	broad.mit.edu;hgsc.bcm.edu	37	chr16	30507854	30507854	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggcttggcagatgtggCtgtgggggctgagagccaga	7	8	20	6	0	0	3	0	1	0	3	0	5	0	4	1	6	1	4	1	6	0	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	30507854	C	A	30507854	3	1	169	1	0	0	0	0	1	0	0	0	7886	797	28	4	1857	4	ITGAL	16	30507854	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10		30507854	59846899	38	9471											
ALOXE3	59344	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8020117	8020117	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcctggcctcagctccacgGtgcagtagccttcaatccac	7	10	8	16	1	2	0	2	0	0	0	5	0	5	0	5	2	3	3	5	2	2	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	8020117	G	A	8020117	3	1	169	1	0	0	0	0	1	0	0	0	542	1261	44	2	1862	2	ALOXE3	17	8020117	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10		8020117	73175093	39	9472											
KRTAP4-4	84616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39316569	39316569	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagcagctggacacacaGtagctggggcagcagcaggt	10	5	15	11	0	0	0	0	0	0	0	0	1	0	1	0	4	6	8	0	4	1	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	39316569	G	T	39316569	4	4	169	1	0	0	0	0	0	1	0	0	8553	1024	36	4	129	4	KRTAP4-4	17	39316569	Nonsense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10	31296452	39316569	41878641	40	9473											
KRT17	3872	hgsc.bcm.edu	37	chr17	39780391	39780392	+	Frame_Shift_Ins	INS	-	-	C																															gtcacgggcgggccccggggINScctgcctctggtaccagtca																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	39780392	-	C	39780391	7	5	169	1	0	1	1	0	0	0	0	0	8454	1203	42	0	959	0	KRT17	17	39780391	Frame_Shift_Ins	INS	-	TCGA-B2-4098-01A-02D-1386-10	463822	39780391	41414819	41	9474											
MTMR4	9110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56589825	56589825	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagggcatcggctgcccggcCcaggaactctactccctcac	7	6	11	17	2	2	0	1	0	1	0	4	2	3	1	3	4	3	2	3	4	2	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	56589825	C	T	56589825	3	4	169	1	0	0	0	0	1	0	0	0	9946	623	22	2	3515	2	MTMR4	17	56589825	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10	16809434	56589825	24605385	42	9475											
TTYH2	94015	broad.mit.edu	37	chr17	72209750	72209750	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcggcgcgcgtggactaCatcgctccctggtgggtcgt	4	8	16	13	6	0	0	0	0	0	0	3	1	1	1	1	5	1	1	1	5	1	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	72209750	T	T	72209750	2	4	169	1	0	0	0	0	0	0	0	1	16739	489	17	2		2	TTYH2	17	72209750	Silent	SNP	C	TCGA-B2-4098-01A-02D-1386-10	15619925	72209750	8985460	43	9476											
DNAH17	8632	broad.mit.edu	37	chr17	76451801	76451801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttggtgaagtagcccacGtaggacacgaaggcagagat	12	8	13	8	2	1	2	0	1	1	1	1	5	1	3	1	3	1	3	1	3	4	4	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	76451801	A	A	76451801	2	1	169	1	0	0	0	0	0	0	0	1	4601	1140	40	1		1	DNAH17	17	76451801	Silent	SNP	G	TCGA-B2-4098-01A-02D-1386-10	4242051	76451801	4743409	44	9477											
ARHGAP28	79822	broad.mit.edu;hgsc.bcm.edu	37	chr18	6873513	6873513	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgattgaattgactgccTtttttgatgcctttggaatt	7	19	8	7	0	1	4	0	4	1	0	1	5	1	5	2	1	2	0	2	1	2	7	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		G	6873513	T	G	6873513	3	3	169	1	0	0	0	0	1	0	0	0	877	1609	56	5	605	5	ARHGAP28	18	6873513	Missense_Mutation	SNP	T	TCGA-B2-4098-01A-02D-1386-10		6873513	71203735	45	9478											
PVRL2	5819	hgsc.bcm.edu	37	chr19	45391485	45391486	+	Frame_Shift_Ins	INS	-	-	C																															gggccacctgctgtggaagaINScgtttccctggatctagagg																								novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		C	45391486	-	C	45391485	7	5	169	1	0	1	1	0	0	0	0	0	12842	275	10	0	1902	0	PVRL2	19	45391485	Frame_Shift_Ins	INS	-	TCGA-B2-4098-01A-02D-1386-10		45391485	13737498	46	9479											
RTN2	6253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45996518	45996518	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggaggacaggagtagggggGgtggggcccctttggaccca	7	5	20	9	1	0	0	0	0	0	0	0	4	0	4	3	9	0	1	3	9	1	2	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	45996518	G	A	45996518	2	1	169	1	0	0	0	0	0	0	0	1	13728	1219	43	2		2	RTN2	19	45996518	Silent	SNP	G	TCGA-B2-4098-01A-02D-1386-10	605033	45996518	13132465	47	9480											
GGT1	2678	broad.mit.edu	37	chr22	25007058	25007058	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagagccatgaagaagAagttagtggtgctgggcctg	11	7	16	7	0	0	4	0	1	0	3	0	4	0	4	2	2	3	4	2	2	4	1	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	25007058	T	T	25007058	4	4	169	1	0	0	0	0	0	1	0	0	6361	247	9	5	12	5	GGT1	22	25007058	Nonsense_Mutation	SNP	A	TCGA-B2-4098-01A-02D-1386-10		25007058	26297508	48	9481											
C22orf42	150297	broad.mit.edu;hgsc.bcm.edu	37	chr22	32555121	32555121	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggaatctcacactcatGgcagggtcccacatctggcc	9	8	9	15	0	4	0	3	0	2	0	6	1	5	1	2	4	0	1	2	4	1	0	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		A	32555121	G	A	32555121	3	1	169	1	0	0	0	0	1	0	0	0	2149	1348	47	2	709	2	C22orf42	22	32555121	Missense_Mutation	SNP	G	TCGA-B2-4098-01A-02D-1386-10	7548063	32555121	18749445	49	9482											
APOBEC3B	9582	broad.mit.edu	37	chr22	39387382	39387382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggccgccatgcggagctgCgcttcttggacctggttcct	4	10	13	14	4	1	0	0	0	1	0	2	2	2	2	4	4	3	3	4	4	0	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	39387382	T	T	39387382	3	4	169	1	0	0	0	0	1	0	0	0	790	768	27	1	791	1	APOBEC3B	22	39387382	Missense_Mutation	SNP	C	TCGA-B2-4098-01A-02D-1386-10	6832261	39387382	11917184	50	9483											
POLDIP3	84271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42992339	42992339	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgagagggagggccttGgacatggaaagcttggaact	10	9	17	5	0	0	1	0	1	0	1	0	6	0	5	1	6	2	1	1	6	2	3	novel		TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	42992339	G	T	42992339	2	4	169	1	0	0	0	0	0	0	0	1	12195	1335	47	4		4	POLDIP3	22	42992339	Silent	SNP	G	TCGA-B2-4098-01A-02D-1386-10	3604957	42992339	8312227	51	9484											
ODZ1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123839011	123839011	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaggcctgggagggggCgagtacacggtattggatgt	9	7	20	5	2	0	1	0	0	0	1	0	5	0	4	1	7	1	2	1	7	3	3	rs191615019	by1000genomes	TCGA-B2-4098-01A-02D-1386-10	TCGA-B2-4098-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2ae3c4d9-cbe7-42e6-a60c-67e0fc098d40	4263df5d-4a99-40dc-84ac-e47c55001df5		T	123839011	C	T	123839011	2	4	169	1	0	0	0	0	0	0	0	1	10834	755	27	1		1	ODZ1	23	123839011	Silent	SNP	C	TCGA-B2-4098-01A-02D-1386-10		123839011	31431549	52	9485											
FAM131C	348487	broad.mit.edu	37	chr1	16361875	16361875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtcaggggaggggctgAgcgaggagaaggcctgaagg	10	4	21	6	1	1	3	1	2	0	1	1	6	1	4	1	7	2	2	1	7	2	0	rs79266383		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	16361875	G	G	16361875	3	3	170	1	0	0	0	0	1	0	0	0	5441	319	11	3		3	FAM131C	1	16361875	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10		16361875	232888746	1	9486											
CDC42	998	broad.mit.edu;hgsc.bcm.edu	37	chr1	22417987	22417987	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccagaaccgaagaagAgccgcaggtgtgtgctgcta	11	6	13	11	2	0	3	0	0	0	3	1	4	1	3	4	1	5	3	4	1	4	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	22417987	A	T	22417987	3	4	170	1	0	0	0	0	1	0	0	0	3071	304	11	5	665	5	CDC42	1	22417987	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10	6056112	22417987	226832634	2	9487											
KDM4A	9682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44128741	44128741	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcaactacctgcacttTggagaaccaaagtcctggta	13	9	8	11	0	1	1	1	0	0	1	2	2	2	1	3	2	5	3	3	2	5	3	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	44128741	T	C	44128741	2	2	170	1	0	0	0	0	0	0	0	1	8128	1809	63	3		3	KDM4A	1	44128741	Silent	SNP	T	TCGA-B2-4099-01A-02D-1251-10	21710754	44128741	205121880	3	9488											
TMEM69	51249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46156752	46156752	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggccagtatgcttcgcttCatccagaagttttctcaagc	8	12	10	11	1	2	1	2	0	1	1	5	1	3	1	2	2	2	4	2	2	3	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	46156752	C	T	46156752	2	4	170	1	0	0	0	0	0	0	0	1	16197	825	29	2		2	TMEM69	1	46156752	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	2028011	46156752	203093869	4	9489											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237895427	237895427	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgatccttctgtttagtCggacagctttaacagagaaa	12	12	9	8	1	1	2	0	1	1	1	3	4	2	3	1	1	3	3	1	1	3	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	237895427	C	A	237895427	2	1	170	1	0	0	0	0	0	0	0	1	13771	875	31	4		4	RYR2	1	237895427	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	191738675	237895427	11355194	5	9490											
CNST	163882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	246810555	246810555	+	Frame_Shift_Del	DEL	T	T	-																															gcaaacagattccccaagccTttcggtaactgcaggaaagg																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	246810555	T	-	246810555	7	5	170	1	0	1	0	1	0	0	0	0	3634	1609	56	0	1082	0	CNST	1	246810555	Frame_Shift_Del	DEL	T	TCGA-B2-4099-01A-02D-1251-10	8915128	246810555	2440066	6	9491											
MYT1L	23040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1926721	1926721	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgttttctgagagcacaaCaccgtgtccttgggctaata	10	12	9	10	1	1	1	0	1	1	1	2	2	2	1	2	1	2	3	2	1	3	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	1926721	C	T	1926721	3	4	170	1	0	0	0	0	1	0	0	0	10107	478	17	2	2798	2	MYT1L	2	1926721	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10		1926721	241272652	7	9492											
SLC4A7	9497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	27451006	27451006	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccttttgatgtcaagtatCaaaccaccaaaaagcctaaa	16	11	4	10	0	2	1	2	1	0	0	3	1	3	1	4	0	2	1	4	0	7	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	27451006	C	T	27451006	2	4	170	1	0	0	0	0	0	0	0	1	14660	825	29	2		2	SLC4A7	3	27451006	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10		27451006	170571424	8	9493											
SEMA3F	6405	broad.mit.edu	37	chr3	50225421	50225421	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtgggcctcatccaccAgtactgccagggttactggc	9	8	12	12	0	1	1	1	0	0	1	2	1	2	1	4	3	3	2	4	3	3	2	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	50225421	T	T	50225421	3	4	170	1	0	0	0	0	1	0	0	0	14031	188	7	5	2301	5	SEMA3F	3	50225421	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10	22774415	50225421	147797009	9	9494											
C3orf45	132228	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50324620	50324620	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaactccagtgaggcccAagcacccagctgagatgcca	11	5	10	15	0	1	2	1	2	0	1	2	3	2	2	4	1	4	3	4	1	2	0	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	50324620	A	T	50324620	3	4	170	1	0	0	0	0	1	0	0	0	2231	130	5	5	496	5	C3orf45	3	50324620	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10	99199	50324620	147697810	10	9495											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52620529	52620550	+	Frame_Shift_Del	DEL	ACAGAGGCCACGCGAACCACAG	ACAGAGGCCACGCGAACCACAG	-																															ctttatctgcatttgcaaatAcagaggccacgcgaaccaca																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	ACAGAGGCCACGCGAACCACAG	ACAGAGGCCACGCGAACCACAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	52620550	ACAGAGGCCACGCGAACCACAG	-	52620529	7	5	170	1	0	1	0	1	0	0	0	0	11491	391	14	0	1645	0	PBRM1	3	52620529	Frame_Shift_Del	DEL	ACAGAGGCCACGCGAACCACAG	TCGA-B2-4099-01A-02D-1251-10	2295909	52620529	145401901	11	9496											
OR5H1	26341	hgsc.bcm.edu;ucsc.edu	37	chr3	97852455	97852456	+	Frame_Shift_Ins	INS	-	-	A																															gtttcattcacaaaaatgttINSaaaaaaacatgttaaggttt																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	97852456	-	A	97852455	7	5	170	1	0	1	1	0	0	0	0	0	11159	1764	61	0	916	0	OR5H1	3	97852455	Frame_Shift_Ins	INS	-	TCGA-B2-4099-01A-02D-1251-10	45231926	97852455	100169975	12	9497											
ALG3	10195	broad.mit.edu	37	chr3	183961713	183961713	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtccagtggaacagaaactgGcggccaaggtcaaaggagcg	13	4	15	9	2	1	1	1	0	0	1	2	3	2	3	2	5	3	0	2	5	4	0	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	183961713	T	T	183961713	2	4	170	1	0	0	0	0	0	0	0	1	520	1190	42	4		4	ALG3	3	183961713	Silent	SNP	G	TCGA-B2-4099-01A-02D-1251-10	86109258	183961713	14060717	13	9498											
RUFY3	22902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71648807	71648807	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttaaaattttatccacaGcttgcagttgcaaacaacag	14	14	5	8	0	0	0	0	0	0	0	1	0	1	0	1	0	5	4	1	0	5	7	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	71648807	G	T	71648807	5	4	170	1	0	0	0	0	0	0	1	0	13742	985	34	4	1290	4	RUFY3	4	71648807	Splice_Site	SNP	G	TCGA-B2-4099-01A-02D-1251-10		71648807	119505469	14	9499											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87696460	87696460	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgttgcctcatttgctacCggacataacactaacgtgca	12	11	7	11	2	1	0	1	0	0	0	1	1	1	1	2	1	6	3	2	1	4	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	87696460	C	T	87696460	3	4	170	1	0	0	0	0	1	0	0	0	12784	652	23	1	5790	1	PTPN13	4	87696460	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	16047653	87696460	103457816	15	9500											
MAD2L1	4085	broad.mit.edu;hgsc.bcm.edu	37	chr4	120981284	120981284	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcatcctcagtcattgaCaggaattttgtaggccacca	11	12	8	10	0	3	1	3	1	0	0	4	2	4	2	3	2	0	1	3	2	2	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	120981284	C	T	120981284	3	4	170	1	0	0	0	0	1	0	0	0	9148	478	17	2	14	2	MAD2L1	4	120981284	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	33284824	120981284	70172992	16	9501											
TMEM184C	55751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148545115	148545115	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actacaaaaaccaataataaGgtatgtcttaataattttga	19	13	4	5	0	1	1	0	1	1	0	1	1	1	1	1	1	2	1	1	1	9	8	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	148545115	G	C	148545115	3	2	170	1	0	0	0	0	1	0	0	0	16105	1014	35	4	260	4	TMEM184C	4	148545115	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	27563831	148545115	42609161	17	9502											
ADAM29	11086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	175898846	175898846	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaggaaaaaattcagcgtCgacctcatgagttacctccc	14	8	8	11	2	2	2	2	1	0	1	4	4	3	3	3	1	2	1	3	1	5	2	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	175898846	C	T	175898846	4	4	170	1	0	0	0	0	0	1	0	0	247	876	31	1	2172	1	ADAM29	4	175898846	Nonsense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	27353731	175898846	15255430	18	9503											
CDH18	1016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	19520813	19520813	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatatcatattccctggCaagttcgggtggattgtcat	11	14	9	7	1	2	0	2	0	0	0	4	1	3	1	1	3	0	2	1	3	5	6	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	19520813	C	A	19520813	3	1	170	1	0	0	0	0	1	0	0	0	3103	710	25	4	923	4	CDH18	5	19520813	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10		19520813	161394447	19	9504											
FNIP1	96459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131008580	131008580	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaactaccacagtccttgcTaaccgtacgggagagccaat	12	7	8	14	2	0	1	0	0	0	1	1	2	1	1	5	1	6	2	5	1	5	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	131008580	T	G	131008580	3	3	170	1	0	0	0	0	1	0	0	0	5975	1519	53	5	1963	5	FNIP1	5	131008580	Missense_Mutation	SNP	T	TCGA-B2-4099-01A-02D-1251-10	111487767	131008580	49906680	20	9505											
TGFBI	7045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	135379760	135379760	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttacagagtcatcagctacGagtgctgtcctggatatgaa	11	11	11	8	1	2	2	2	1	0	1	3	4	3	3	1	1	4	3	1	1	4	3	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	135379760	G	A	135379760	3	1	170	1	0	0	0	0	1	0	0	0	15819	1059	37	1	257	1	TGFBI	5	135379760	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	4371180	135379760	45535500	21	9506											
PCDHB6	56130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140532190	140532190	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagagaaatggaagaaacCcccacctctcggaatagctt	15	6	10	10	1	1	3	0	0	1	3	2	7	1	5	3	2	2	1	3	2	5	2	rs146937630	alternate_allele	TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	140532190	C	A	140532190	2	1	170	1	0	0	0	0	0	0	0	1	11546	610	22	4		4	PCDHB6	5	140532190	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	5152430	140532190	40383070	22	9507											
NSD1	64324	broad.mit.edu;hgsc.bcm.edu	37	chr5	176665505	176665505	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggaattgctagttaaaacgCcaggtaaggtggggttgggg	11	9	17	4	1	0	0	0	0	0	0	0	1	0	1	1	7	2	4	1	7	5	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	176665505	C	G	176665505	3	3	170	1	0	0	0	0	1	0	0	0	10669	739	26	4	4211	4	NSD1	5	176665505	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	36133315	176665505	4249755	23	9508											
ZUFSP	221302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	116977892	116977892	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaaccaagagctaatgattCcatcatatcagcttttctcc	14	12	4	11	0	3	2	2	1	1	1	5	2	4	2	3	0	3	2	3	0	5	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	116977892	C	T	116977892	3	4	170	1	0	0	0	0	1	0	0	0	18245	864	30	2	844	2	ZUFSP	6	116977892	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10		116977892	54137175	24	9509											
HOXA10	3206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	27211532	27211533	+	Frame_Shift_Del	DEL	AG	AG	-																															gattcatcaggaaaaattaaAgttggctgtgagctcccgga																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	27211533	AG	-	27211532	7	5	170	1	0	1	0	1	0	0	0	0	7289	72	3	0	17	0	HOXA10	7	27211532	Frame_Shift_Del	DEL	AG	TCGA-B2-4099-01A-02D-1251-10		27211532	131927131	25	9510											
WBSCR28	135886	broad.mit.edu	37	chr7	73280191	73280191	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttgccagagcaagaaacTcccagagaataaatgtatcc	15	9	8	9	0	0	3	0	0	0	3	2	4	2	3	3	0	3	3	3	0	6	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	73280191	C	C	73280191	2	2	170	1	0	0	0	0	0	0	0	1	17266	1538	54	3		3	WBSCR28	7	73280191	Silent	SNP	T	TCGA-B2-4099-01A-02D-1251-10	46068659	73280191	85858472	26	9511											
CUL1	8454	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148485659	148485659	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcttctcagcaagcttgcgGgttcgagtacacctctaaac	9	12	8	12	2	3	0	1	0	3	0	5	1	3	0	1	1	5	4	1	1	4	6	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	148485659	G	A	148485659	3	1	170	1	0	0	0	0	1	0	0	0	4054	1232	43	2	1540	2	CUL1	7	148485659	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	75205468	148485659	10653004	27	9512											
PIGO	84720	broad.mit.edu	37	chr9	35095479	35095479	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agctccaaacgggtgagcagGaagccactggtgaagagggc	12	4	16	9	1	0	3	0	2	0	1	1	4	1	4	2	4	4	2	2	4	3	0	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	35095479	A	A	35095479	2	1	170	1	0	0	0	0	0	0	0	1	11894	1165	41	2		2	PIGO	9	35095479	Silent	SNP	G	TCGA-B2-4099-01A-02D-1251-10		35095479	106117952	28	9513											
SLC16A9	220963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61414026	61414026	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcactgtggggtttttatgaAgtaggctgtcttgtttccag	6	17	12	6	0	2	1	1	1	1	0	3	1	3	1	1	3	0	4	1	3	3	6	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	61414026	A	T	61414026	3	4	170	1	0	0	0	0	1	0	0	0	14417	72	3	5	779	5	SLC16A9	10	61414026	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10		61414026	74120721	29	9514											
NPM3	10360	hgsc.bcm.edu;ucsc.edu	37	chr10	103542318	103542319	+	Frame_Shift_Ins	INS	-	-	A																															cgggccacaacttctaccacINSattacactcgtctttggctc																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	103542319	-	A	103542318	7	5	170	1	0	1	1	0	0	0	0	0	10589	478	17	0	307	0	NPM3	10	103542318	Frame_Shift_Ins	INS	-	TCGA-B2-4099-01A-02D-1251-10	42128292	103542318	31992429	30	9515											
SLK	9748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105752775	105752775	+	Frame_Shift_Del	DEL	A	A	-																															attaactgagtcccaaatacAagtagtttgcaagcagactt																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	105752775	A	-	105752775	7	5	170	1	0	1	0	1	0	0	0	0	14750	130	5	0	412	0	SLK	10	105752775	Frame_Shift_Del	DEL	A	TCGA-B2-4099-01A-02D-1251-10	2210457	105752775	29781972	31	9516											
RAB11FIP2	22841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	119805451	119805451	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaatgtatttctctggacttCcctgaattagcaatccaggt	10	14	8	9	0	1	1	0	1	1	0	4	3	3	2	2	2	1	2	2	2	5	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	119805451	C	T	119805451	3	4	170	1	0	0	0	0	1	0	0	0	12896	855	30	2	1334	2	RAB11FIP2	10	119805451	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	14052676	119805451	15729296	32	9517											
OR56A4	120793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6024124	6024124	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaggaagagaaggctgagGggcagagacaaccagtgctg	14	3	18	6	0	0	3	0	1	0	2	0	7	0	5	1	5	2	3	1	5	3	0	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	6024124	G	A	6024124	2	1	170	1	0	0	0	0	0	0	0	1	11135	1219	43	2		2	OR56A4	11	6024124	Silent	SNP	G	TCGA-B2-4099-01A-02D-1251-10		6024124	128982392	33	9518											
DNHD1	144132	broad.mit.edu;hgsc.bcm.edu	37	chr11	6585252	6585252	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaagcttcccacaactgCgtggcaaagaccctcagtca	11	6	8	16	1	2	1	2	0	0	1	3	1	3	1	3	1	3	2	3	1	3	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	6585252	C	T	6585252	2	4	170	1	0	0	0	0	0	0	0	1	4668	776	27	1		1	DNHD1	11	6585252	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	561128	6585252	128421264	34	9519											
MICALCL	84953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	12376331	12376331	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgaacattttctcacccagGgcccaggaactggaattaga	12	10	9	10	0	1	2	1	1	1	1	2	4	1	4	2	3	2	0	2	3	4	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	12376331	G	T	12376331	3	4	170	1	0	0	0	0	1	0	0	0	9572	1246	43	4	1856	4	MICALCL	11	12376331	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	5791079	12376331	122630185	35	9520											
STAB2	55576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104107496	104107496	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaaccaccccaggaaggcGagtgtgcacgtgcaaagcag	13	3	14	11	2	0	1	0	0	0	1	0	4	0	2	3	2	4	3	3	2	3	0	rs141685549	by1000genomes	TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	104107496	G	A	104107496	3	1	170	1	0	0	0	0	1	0	0	0	15239	1058	37	1	4653	1	STAB2	12	104107496	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10		104107496	29744399	36	9521											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64683102	64683102	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccccttataaaccaccCtatgtaagtcttaacttcac	13	11	3	14	0	2	0	1	0	1	0	2	0	2	0	4	0	3	2	4	0	6	6	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	64683102	C	G	64683102	2	3	170	1	0	0	0	0	0	0	0	1	15445	668	24	4		4	SYNE2	14	64683102	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10		64683102	42666438	37	9522											
SYNJ2BP	55333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	70839819	70839819	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggtccccttcacctcgAtgtcctataggtccattctg	5	14	8	14	1	2	0	1	0	1	0	6	1	5	0	5	2	0	0	5	2	2	5	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	70839819	A	T	70839819	3	4	170	1	0	0	0	0	1	0	0	0	15453	330	12	5	114	5	SYNJ2BP	14	70839819	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10	6156717	70839819	36509721	38	9523											
PTPN21	11099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	88983531	88983531	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcatatttatccagctgcttCttcaaaggtttttccaaatc	10	16	5	10	0	2	0	1	0	1	0	5	0	4	0	2	1	2	4	2	1	4	7	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	88983531	C	T	88983531	2	4	170	1	0	0	0	0	0	0	0	1	12788	912	32	2		2	PTPN21	14	88983531	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	18143712	88983531	18366009	39	9524											
KIAA0556	23247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27689189	27689189	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactggtgggccatcccaGacatgaccgccctccttcca	7	7	10	17	1	0	2	0	1	0	1	3	2	3	2	6	3	0	1	6	3	0	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	27689189	G	T	27689189	3	4	170	1	0	0	0	0	1	0	0	0	8183	942	33	4	706	4	KIAA0556	16	27689189	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10		27689189	62665564	40	9525											
KIAA0895L	653319	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67214015	67214015	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcatgggctcctggtactCaaactgtggattgtaggtgt	7	12	15	7	0	1	0	1	0	0	0	2	1	2	1	1	5	2	4	1	5	3	3	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	67214015	C	T	67214015	3	4	170	1	0	0	0	0	1	0	0	0	8198	835	29	2	940	2	KIAA0895L	16	67214015	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	39524826	67214015	23140738	41	9526											
ELMO3	79767	broad.mit.edu;hgsc.bcm.edu	37	chr16	67235520	67235520	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggagccgcgcatgcGgacgcccctggacccctaca	6	5	13	17	4	0	0	0	0	0	0	0	3	0	3	5	3	4	3	5	3	1	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	67235520	G	A	67235520	3	1	170	1	0	0	0	0	1	0	0	0	5067	1116	39	1	1090	1	ELMO3	16	67235520	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	21505	67235520	23119233	42	9527											
FUK	197258	broad.mit.edu	37	chr16	70508127	70508128	+	In_Frame_Ins	INS	-	CCA	CCA																															agagggccgtgggggcttgcINSggagcgggccagctgccaac																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		CCA	70508128	CCA	CCA	70508127	7	5	170	1	0	1	1	0	0	0	0	0	6096	759	27	0	1931	0	FUK	16	70508127	In_Frame_Ins	INS	-	TCGA-B2-4099-01A-02D-1251-10	3272607	70508127	19846626	43	9528											
SMYD4	114826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1703754	1703754	+	Frame_Shift_Del	DEL	A	A	-																															gcaatacttggcataactgcAtccgtcacacggaactgtgg																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	1703754	A	-	1703754	7	5	170	1	0	1	0	1	0	0	0	0	14826	217	8	0	1508	0	SMYD4	17	1703754	Frame_Shift_Del	DEL	A	TCGA-B2-4099-01A-02D-1251-10		1703754	79491456	44	9529											
MYH8	4626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10299727	10299727	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctccaattcatgaatttGctttcctccctctgcaatct	7	18	3	13	0	4	1	1	1	3	0	7	1	6	1	3	0	2	2	3	0	3	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	10299727	G	A	10299727	4	1	170	1	0	0	0	0	0	1	0	0	10041	1328	46	2	1272	2	MYH8	17	10299727	Nonsense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	8595973	10299727	70895483	45	9530											
HEATR6	63897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	58137396	58137396	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactggtatcttcagcaacaGaaagaaactgctttgagcct	13	10	8	10	0	2	3	1	1	1	2	2	3	2	3	1	1	5	3	1	1	4	3	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	58137396	G	C	58137396	3	2	170	1	0	0	0	0	1	0	0	0	7033	942	33	4	2111	4	HEATR6	17	58137396	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	47837669	58137396	23057814	46	9531											
KIF19	124602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72345372	72345372	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacatcgcccagtacaccaGcatcatcgctgacctgcggg	9	6	9	17	3	1	1	1	1	0	0	3	1	1	1	4	1	3	3	4	1	1	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	72345372	G	T	72345372	3	4	170	1	0	0	0	0	1	0	0	0	8282	971	34	4	1135	4	KIF19	17	72345372	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	14207976	72345372	8849838	47	9532											
ACSBG2	81616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6183057	6183057	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttattcacaggaaatatAatactcccgtgagctaccgc	12	12	6	11	2	2	1	1	1	1	0	3	2	3	2	2	1	3	1	2	1	6	7	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	6183057	A	C	6183057	3	2	170	1	0	0	0	0	1	0	0	0	174	362	13	5	1130	5	ACSBG2	19	6183057	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10		6183057	52945926	48	9533											
DNM2	1785	broad.mit.edu	37	chr19	10935788	10935788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatggacccccaactggAgcggcaggtggagaccattc	9	6	12	14	1	0	1	0	0	0	1	2	4	1	3	4	5	2	1	4	5	1	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	10935788	G	G	10935788	3	3	170	1	0	0	0	0	1	0	0	0	4672	304	11	3	2162	3	DNM2	19	10935788	Missense_Mutation	SNP	A	TCGA-B2-4099-01A-02D-1251-10	4752731	10935788	48193195	49	9534											
ZNF564	163050	hgsc.bcm.edu	37	chr19	12637738	12637739	+	Frame_Shift_Ins	INS	-	-	AA																															ggctctaccacatacctgacINSatttataaggtccatctcca																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		AA	12637739	-	AA	12637738	7	5	170	1	0	1	1	0	0	0	0	0	17994	478	17	0	481	0	ZNF564	19	12637738	Frame_Shift_Ins	INS	-	TCGA-B2-4099-01A-02D-1251-10	1701950	12637738	46491245	50	9535											
WDR62	284403	hgsc.bcm.edu;ucsc.edu	37	chr19	36593730	36593730	+	Frame_Shift_Del	DEL	C	C	-																															agtatctccacgcagttcctCtcaagcctccagaaggcatc																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	36593730	C	-	36593730	7	5	170	1	0	1	0	1	0	0	0	0	17312	900	32	0	3418	0	WDR62	19	36593730	Frame_Shift_Del	DEL	C	TCGA-B2-4099-01A-02D-1251-10	23955992	36593730	22535253	51	9536	138	2									
WDR62	284403	hgsc.bcm.edu;ucsc.edu	37	chr19	36593732	36593733	+	Frame_Shift_Del	DEL	CA	CA	-																															tatctccacgcagttcctctCaagcctccagaaggcatcca																								novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		-	36593733	CA	-	36593732	7	5	170	1	0	1	0	1	0	0	0	0	17312	838	29	0	3420	0	WDR62	19	36593732	Frame_Shift_Del	DEL	CA	TCGA-B2-4099-01A-02D-1251-10	2	36593732	22535251	52	9537	138	2									
HKR1	284459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37854193	37854193	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggagaagccatttgtatGtacggagtgtgggcgaggct	8	9	19	5	2	0	1	0	0	0	1	0	4	0	2	1	5	2	3	1	5	3	3	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	37854193	G	A	37854193	3	1	170	1	0	0	0	0	1	0	0	0	7194	1377	48	2	1510	2	HKR1	19	37854193	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	1260461	37854193	21274790	53	9538											
ZNF227	7770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44740521	44740521	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcagtcagtcctctggTcttcaatcccatcagagagt	8	12	9	12	0	6	1	4	0	2	1	8	2	8	1	2	2	0	1	2	2	1	2	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	44740521	T	C	44740521	2	2	170	1	0	0	0	0	0	0	0	1	17780	1654	58	3		3	ZNF227	19	44740521	Silent	SNP	T	TCGA-B2-4099-01A-02D-1251-10	6886328	44740521	14388462	54	9539											
GLTSCR2	29997	broad.mit.edu	37	chr19	48258011	48258011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggggctgctggaggagtcgGatggtgagggggagccaggc	7	5	23	6	1	0	1	0	1	0	0	1	5	0	5	1	9	2	2	1	9	0	0	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	48258011	A	A	48258011	3	1	170	1	0	0	0	0	1	0	0	0	6475	1174	41	2	946	2	GLTSCR2	19	48258011	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	3517490	48258011	10870972	55	9540											
KLK14	43847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51585845	51585845	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttacctatagccaggacTtgaagtgctgtcagcaggag	10	10	11	10	0	2	1	1	1	1	0	2	3	2	3	2	2	4	2	2	2	4	4	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	51585845	T	G	51585845	3	3	170	1	0	0	0	0	1	0	0	0	8402	1606	56	5	748	5	KLK14	19	51585845	Missense_Mutation	SNP	T	TCGA-B2-4099-01A-02D-1251-10	3327834	51585845	7543138	56	9541											
REM1	28954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30064350	30064350	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccagcctggccgcctgagCacagtgccttccactcaatc	8	7	8	18	1	1	1	1	1	0	0	3	1	2	1	6	1	3	1	6	1	1	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		G	30064350	C	G	30064350	3	3	170	1	0	0	0	0	1	0	0	0	13224	709	25	4	104	4	REM1	20	30064350	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10		30064350	32961170	57	9542											
RFPL2	10739	broad.mit.edu;hgsc.bcm.edu	37	chr22	32587083	32587083	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccagaatccaagctctgtGgtcagctggatcctcccttt	7	12	9	13	0	2	1	1	0	1	1	6	2	6	2	4	2	2	2	4	2	2	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		C	32587083	G	C	32587083	2	2	170	1	0	0	0	0	0	0	0	1	13256	1335	47	4		4	RFPL2	22	32587083	Silent	SNP	G	TCGA-B2-4099-01A-02D-1251-10		32587083	18717483	58	9543											
NHS	4810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	17746842	17746842	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgaagcagagggtgtgttCgtgtctccaaacaaacctcg	10	9	12	10	2	1	2	0	1	1	1	4	2	1	2	2	1	3	3	2	1	3	1	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	17746842	C	T	17746842	2	4	170	1	0	0	0	0	0	0	0	1	10411	883	31	1		1	NHS	23	17746842	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10		17746842	137523718	59	9544											
ARX	170302	broad.mit.edu	37	chrX	25022841	25022841	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatgttgagctgcgtgagCtgcgccgcgtgctccttggc	4	10	16	11	4	0	2	0	2	0	0	1	3	1	3	2	2	5	4	2	2	0	2	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	25022841	A	A	25022841	3	1	170	1	0	0	0	0	1	0	0	0	1004	796	28	4	57	4	ARX	23	25022841	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	7275999	25022841	130247719	60	9545											
DMD	1756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	31196785	31196785	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcttttgctactactcaCgtttccatgttgtccccctc	4	17	5	15	1	2	0	1	0	1	0	5	0	4	0	3	0	4	4	3	0	2	6	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	31196785	C	A	31196785	2	1	170	1	0	0	0	0	0	0	0	1	4580	550	19	4		4	DMD	23	31196785	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	6173944	31196785	124073775	61	9546											
SLC35A2	7355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48762340	48762340	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaaccacagccaccagtagCccgccgaaggcctggttgag	11	4	11	15	2	0	1	0	1	0	0	0	2	0	1	6	2	3	2	6	2	3	2	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	48762340	C	T	48762340	2	4	170	1	0	0	0	0	0	0	0	1	14573	726	26	2		2	SLC35A2	23	48762340	Silent	SNP	C	TCGA-B2-4099-01A-02D-1251-10	17565555	48762340	106508220	62	9547											
VSIG4	11326	broad.mit.edu;ucsc.edu	37	chrX	65252420	65252420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgcaggcttgaagagtaagGtacttagggttgctactttg	9	12	13	7	1	0	2	0	1	0	1	0	2	0	2	1	3	3	6	1	3	5	7	rs139911916	alternate_allele	TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		A	65252420	A	A	65252420	3	1	170	1	0	0	0	0	1	0	0	0	17224	1261	44	2	643	2	VSIG4	23	65252420	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1251-10	16490080	65252420	90018140	63	9548											
DCAF12L1	139170	broad.mit.edu;hgsc.bcm.edu	37	chrX	125685459	125685459	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaggaatttctgggccCggacgtcatagaagagcagg	10	7	13	11	2	2	2	1	0	1	2	3	4	3	4	3	4	1	1	3	4	3	2	novel		TCGA-B2-4099-01A-02D-1251-10	TCGA-B2-4099-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ce82bf89-dc70-44a3-b708-8baf21fbcc47	ef7262e7-c3e5-4d51-b410-aafd62940610		T	125685459	C	T	125685459	3	4	170	1	0	0	0	0	1	0	0	0	4264	652	23	1	262	1	DCAF12L1	23	125685459	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1251-10	60433039	125685459	29585101	64	9549											
LRRC7	57554	broad.mit.edu	37	chr1	70502282	70502282	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacaacagctaaagatgcaGtacataattctttgtggggt	14	11	10	6	0	1	2	0	0	1	2	1	2	1	2	0	2	4	3	0	2	5	5	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		C	70502282	C	C	70502282	3	2	171	1	0	0	0	0	1	0	0	0	9020	1029	36	4	2219	4	LRRC7	1	70502282	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1458-08		70502282	178748339	1	9550											
LASS2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150939585	150939585	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagtcatgcagagccaTgattagagtcccagctcgga	12	7	13	9	1	1	4	1	1	0	3	3	6	2	6	2	2	3	2	2	2	2	1	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		C	150939585	T	C	150939585	3	2	171	1	0	0	0	0	1	0	0	0	8639	1464	51	3	452	3	LASS2	1	150939585	Missense_Mutation	SNP	T	TCGA-B2-4099-01A-02D-1458-08	80437303	150939585	98311036	2	9551											
ZNF238	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	244218338	244218338	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgtcaacgtgcccacgtGctcgctgtgtgggaagactt	7	10	13	11	4	1	1	1	0	0	1	2	3	1	2	1	1	3	2	1	1	2	1	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		T	244218338	G	T	244218338	3	4	171	1	0	0	0	0	1	0	0	0	17789	1319	46	4	1268	4	ZNF238	1	244218338	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1458-08	93278753	244218338	5032283	3	9552											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu	37	chr2	196723250	196723250	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgactctaatattggcaagGcacctgccaggtcagcatcg	10	9	10	12	1	2	1	1	1	1	0	3	1	2	1	2	3	2	3	2	3	3	3	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		T	196723250	G	T	196723250	3	4	171	1	0	0	0	0	1	0	0	0	4606	1203	42	4	4151	4	DNAH7	2	196723250	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1458-08		196723250	46476123	4	9553											
KIF1A	547	broad.mit.edu	37	chr2	241660401	241660401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagggggtgagagtggccaCccctagaggggacatcgacg	9	4	19	9	2	0	2	0	1	0	2	1	6	0	4	3	6	0	0	3	6	1	1	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		A	241660401	A	A	241660401	3	1	171	1	0	0	0	0	1	0	0	0	8283	507	18	4	597	4	KIF1A	2	241660401	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1458-08	44937151	241660401	1538972	5	9554											
GLYCTK	132158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52324497	52324497	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgtttgagagtgctgtaGgtgcagtgctgccgggcccc	5	10	16	10	1	0	1	0	1	0	1	0	2	0	1	3	2	5	6	3	2	1	2	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		A	52324497	G	A	52324497	3	1	171	1	0	0	0	0	1	0	0	0	6482	1000	35	2	141	2	GLYCTK	3	52324497	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1458-08		52324497	145697933	6	9555											
PF4	5196	broad.mit.edu	37	chr4	74847209	74847209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgcctgggacggacctggGaggtggtcttcacacacagg	7	8	16	10	1	2	0	1	0	1	0	2	3	2	3	2	6	1	0	2	6	0	1	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		A	74847209	A	A	74847209	3	1	171	1	0	0	0	0	1	0	0	0	11752	1174	41	2	170	2	PF4	4	74847209	Missense_Mutation	SNP	G	TCGA-B2-4099-01A-02D-1458-08		74847209	116307067	7	9556											
HIST1H3I	8354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27839911	27839911	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggtagcttccggattagCagctcggtcgacttctggta	9	11	12	9	3	1	0	0	0	1	0	4	2	2	1	1	4	3	5	1	4	4	5	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		T	27839911	C	T	27839911	2	4	171	1	0	0	0	0	0	0	0	1	7163	697	25	2		2	HIST1H3I	6	27839911	Silent	SNP	C	TCGA-B2-4099-01A-02D-1458-08		27839911	143275156	8	9557											
CLDN3	1365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	73183930	73183930	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttctgcgcctcgggcacCacggggttgtagaagtcccg	5	8	14	14	5	1	1	0	0	1	1	3	1	2	1	3	3	1	4	3	3	2	3	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		G	73183930	C	G	73183930	2	3	171	1	0	0	0	0	0	0	0	1	3486	581	21	4		4	CLDN3	7	73183930	Silent	SNP	C	TCGA-B2-4099-01A-02D-1458-08		73183930	85954733	9	9558											
PYCR1	5831	broad.mit.edu	37	chr17	79894640	79894640	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgctgctgtgaagccCttggccagggcaaaagccag	9	7	12	13	0	0	1	0	1	0	0	0	1	0	1	4	2	5	3	4	2	4	2	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		G	79894640	G	G	79894640	3	3	171	1	0	0	0	0	1	0	0	0	12857	680	24	4	1024	4	PYCR1	17	79894640	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1458-08		79894640	1300570	10	9559											
KIAA0802	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	8825236	8825236	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtggccttgcacctcccCcaggcactcccgggactatg	6	7	11	17	1	0	0	0	0	0	0	2	1	2	1	5	4	1	2	5	4	1	2	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		T	8825236	C	T	8825236	3	4	171	1	0	0	0	0	1	0	0	0	8194	623	22	2	3778	2	KIAA0802	18	8825236	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1458-08		8825236	69252012	11	9560											
SBNO2	22904	broad.mit.edu;hgsc.bcm.edu	37	chr19	1112193	1112193	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccacctgctcaccagacTctccaggcgcttggccacga	7	6	8	20	2	2	1	1	0	1	1	3	2	2	1	6	2	1	2	6	2	0	1	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		C	1112193	T	C	1112193	3	2	171	1	0	0	0	0	1	0	0	0	13865	1551	54	3	1521	3	SBNO2	19	1112193	Missense_Mutation	SNP	T	TCGA-B2-4099-01A-02D-1458-08		1112193	58016790	12	9561											
NOSIP	51070	broad.mit.edu;hgsc.bcm.edu	37	chr19	50060397	50060397	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaagggttgaggggccggCtcacgatagccgactccttc	8	8	14	11	3	1	2	1	2	0	0	3	4	2	2	3	4	1	2	3	4	2	3	novel		TCGA-B2-4099-01A-02D-1458-08	TCGA-B2-4099-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01c54f7c-84b9-4f5b-ae44-2ac1f661fd29	54cf60f2-947e-4eb0-b5a7-1e644ca10dba		G	50060397	C	G	50060397	3	3	171	1	0	0	0	0	1	0	0	0	10545	797	28	4	557	4	NOSIP	19	50060397	Missense_Mutation	SNP	C	TCGA-B2-4099-01A-02D-1458-08	48948204	50060397	9068586	13	9562											
C1orf52	148423	hgsc.bcm.edu	37	chr1	85725117	85725118	+	Frame_Shift_Ins	INS	-	-	TA																															gtagagaaaggccgggcgagINStcacgctcctaaacagctcg																								novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		TA	85725118	-	TA	85725117	7	5	172	1	0	1	1	0	0	0	0	0	2044	1029	36	0	360	0	C1orf52	1	85725117	Frame_Shift_Ins	INS	-	TCGA-B2-4101-01A-02D-1361-10		85725117	163525504	1	9563											
STXBP3	6814	hgsc.bcm.edu	37	chr1	109338857	109338857	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattttattttcattaaggAcctggcacttggaactgatg	11	16	8	6	0	1	1	1	1	0	0	1	3	1	3	1	3	1	1	1	3	4	7	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	109338857	A	G	109338857	3	3	172	1	0	0	0	0	1	0	0	0	15355	289	10	3	1166	3	STXBP3	1	109338857	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	23613740	109338857	139911764	2	9564											
ATP8B2	57198	hgsc.bcm.edu	37	chr1	154310130	154310130	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaacgagaagtcctcttctTcctgtactgtaaacatttga	11	14	7	9	1	2	2	0	1	2	1	4	3	4	2	2	0	3	3	2	0	5	6	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	154310130	T	G	154310130	3	3	172	1	0	0	0	0	1	0	0	0	1195	1783	62	5	1289	5	ATP8B2	1	154310130	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	44971273	154310130	94940491	3	9565											
HCN3	57657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155256981	155256981	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagatctgcctgctaactAggggccggcgcacagccagt	9	6	13	13	2	1	1	0	0	1	1	1	2	1	1	3	3	4	2	3	3	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	155256981	A	C	155256981	2	2	172	1	0	0	0	0	0	0	0	1	6998	411	15	5		5	HCN3	1	155256981	Silent	SNP	A	TCGA-B2-4101-01A-02D-1361-10	946851	155256981	93993640	4	9566											
USP21	27005	hgsc.bcm.edu	37	chr1	161134913	161134913	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccggtgccagactggttgGcatgtctacaatgactctcg	7	11	12	11	2	2	2	0	1	2	1	3	2	2	2	2	3	3	2	2	3	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	161134913	G	T	161134913	3	4	172	1	0	0	0	0	1	0	0	0	17052	1212	42	4	1629	4	USP21	1	161134913	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1361-10	5877932	161134913	88115708	5	9567											
EPRS	2058	hgsc.bcm.edu	37	chr1	220157566	220157566	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgagaataccaatcagcAagattttcttctttttttgc	11	16	5	9	0	3	2	1	1	2	2	3	3	3	2	2	0	3	1	2	0	4	7	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	220157566	A	G	220157566	2	3	172	1	0	0	0	0	0	0	0	1	5191	117	5	3		3	EPRS	1	220157566	Silent	SNP	A	TCGA-B2-4101-01A-02D-1361-10	59022653	220157566	29093055	6	9568											
PTPN18	26469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	131128788	131128788	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaattgtgccccactctAcgacgatgccctcttcctcc	7	11	6	17	2	3	1	1	0	2	1	5	3	5	1	5	0	3	0	5	0	2	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	131128788	A	G	131128788	3	3	172	1	0	0	0	0	1	0	0	0	12786	391	14	3	987	3	PTPN18	2	131128788	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10		131128788	112070585	7	9569											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170163814	170163814	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcattctcatcagctccaTcggggcagtctctgacgtgg	7	11	11	12	2	4	1	3	1	2	0	8	1	5	1	1	3	1	2	1	3	0	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	170163814	T	C	170163814	3	2	172	1	0	0	0	0	1	0	0	0	8956	1435	50	3	13867	3	LRP2	2	170163814	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	39035026	170163814	73035559	8	9570											
SGPP2	130367	hgsc.bcm.edu;ucsc.edu	37	chr2	223423399	223423399	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagttttgggtctgaccaaaTttgcagtgggaattgtgttg	8	16	13	4	0	1	1	0	1	1	0	1	2	1	2	1	2	1	3	1	2	3	6	rs188535288	by1000genomes	TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	223423399	T	C	223423399	3	2	172	1	0	0	0	0	1	0	0	0	14222	1493	52	3	1000	3	SGPP2	2	223423399	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	53259585	223423399	19775974	9	9571											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52692279	52692280	+	Frame_Shift_Del	DEL	AC	AC	-																															ctgatggatttgtagctacaActatggcttcaagaagctgc																								novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	AC	AC	AC	-	AC	AC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		-	52692280	AC	-	52692279	7	5	172	1	0	1	0	1	0	0	0	0	11491	43	2	0	4423	0	PBRM1	3	52692279	Frame_Shift_Del	DEL	AC	TCGA-B2-4101-01A-02D-1361-10		52692279	145330151	10	9572											
RFT1	91869	hgsc.bcm.edu	37	chr3	53153991	53153991	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggaacccagtaactttGtgaaataaataacatagcag	16	9	9	7	0	0	1	0	1	0	0	0	2	0	2	1	2	4	2	1	2	7	5	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	53153991	G	A	53153991	3	1	172	1	0	0	0	0	1	0	0	0	13259	1377	48	2	1052	2	RFT1	3	53153991	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1361-10	461712	53153991	144868439	11	9573											
COL6A5	256076	hgsc.bcm.edu;ucsc.edu	37	chr3	130125150	130125150	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaataaaaggagaaaaaggTgatccaggatctcaggtaac	18	6	12	5	0	1	2	1	1	1	1	3	5	2	4	1	5	1	1	1	5	6	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	130125150	T	G	130125150	2	3	172	1	0	0	0	0	0	0	0	1	3702	1683	59	5		5	COL6A5	3	130125150	Silent	SNP	T	TCGA-B2-4101-01A-02D-1361-10	76971159	130125150	67897280	12	9574											
ZBTB38	253461	hgsc.bcm.edu	37	chr3	141163615	141163615	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaggagtcaaactatgtTgctgatcctggaggatcact	10	10	12	9	1	2	1	2	1	0	0	3	5	3	5	2	4	2	2	2	4	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	141163615	T	C	141163615	2	2	172	1	0	0	0	0	0	0	0	1	17538	1799	63	3		3	ZBTB38	3	141163615	Silent	SNP	T	TCGA-B2-4101-01A-02D-1361-10	11038465	141163615	56858815	13	9575											
HES1	3280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193854202	193854202	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatggagaaaaattcctcGtccccggtggctgctacccc	10	9	9	13	2	0	1	0	0	0	1	3	2	2	1	5	3	2	2	5	3	4	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	193854202	G	A	193854202	2	1	172	1	0	0	0	0	0	0	0	1	7065	1132	40	1		1	HES1	3	193854202	Silent	SNP	G	TCGA-B2-4101-01A-02D-1361-10	52690587	193854202	4168228	14	9576											
FGFR3	2261	hgsc.bcm.edu	37	chr4	1808389	1808389	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggccaccgcatggacaagcCcgccaactgcacacacgacc	11	2	10	18	3	0	0	0	0	0	0	0	2	0	1	5	2	3	2	5	2	2	0	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	1808389	C	A	1808389	3	1	172	1	0	0	0	0	1	0	0	0	5867	623	22	4	2360	4	FGFR3	4	1808389	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10		1808389	189345887	15	9577											
ENPEP	2028	hgsc.bcm.edu	37	chr4	111412268	111412268	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcacgtacctggtgtgctTtgctgtacatcaatttgact	8	14	10	9	1	1	1	1	1	0	0	1	2	1	1	1	1	5	5	1	1	3	4	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	111412268	T	G	111412268	3	3	172	1	0	0	0	0	1	0	0	0	5128	1841	64	5	876	5	ENPEP	4	111412268	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	109603879	111412268	79742008	16	9578											
KIAA0922	23240	hgsc.bcm.edu;ucsc.edu	37	chr4	154506662	154506662	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacatagagactcatgagAacacatcaggactttggtca	14	10	8	9	0	4	2	4	1	0	2	4	5	4	3	0	2	1	0	0	2	2	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	154506662	A	T	154506662	3	4	172	1	0	0	0	0	1	0	0	0	8201	246	9	5	1260	5	KIAA0922	4	154506662	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	43094394	154506662	36647614	17	9579											
RNF180	285671	hgsc.bcm.edu	37	chr5	63509562	63509562	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgagaccatcagtgaaaTacttgtcacatcctagagtt	14	12	7	8	0	2	3	2	2	0	2	3	4	3	3	2	0	1	1	2	0	4	5	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	63509562	T	C	63509562	3	2	172	1	0	0	0	0	1	0	0	0	13466	1406	49	3	419	3	RNF180	5	63509562	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10		63509562	117405698	18	9580											
AFAP1L1	134265	hgsc.bcm.edu	37	chr5	148685872	148685872	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttctgacaacccacagatgGctgcagcccctcacactcga	10	8	7	16	1	2	2	1	1	1	1	3	3	2	2	3	1	3	2	3	1	1	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	148685872	G	T	148685872	3	4	172	1	0	0	0	0	1	0	0	0	354	1203	42	4	462	4	AFAP1L1	5	148685872	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1361-10	85176310	148685872	32229388	19	9581											
CSF1R	1436	hgsc.bcm.edu	37	chr5	149453042	149453042	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctgctcagagctcaagtTcaagtaggcactctctggaa	10	11	10	10	0	5	1	3	0	2	1	6	2	5	2	0	2	2	6	0	2	4	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	149453042	T	G	149453042	3	3	172	1	0	0	0	0	1	0	0	0	3932	1783	62	5	2078	5	CSF1R	5	149453042	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	767170	149453042	31462218	20	9582											
RASGEF1C	255426	hgsc.bcm.edu	37	chr5	179555487	179555487	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccctgtggatggaggCtggtggcttggtcctgtagg	4	11	18	8	0	0	0	0	0	0	0	2	3	2	2	2	7	1	4	2	7	1	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	179555487	C	T	179555487	3	4	172	1	0	0	0	0	1	0	0	0	13073	797	28	2	878	2	RASGEF1C	5	179555487	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10	30102445	179555487	1359773	21	9583											
ZBTB22	9278	hgsc.bcm.edu	37	chr6	33283534	33283534	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacaggacccccaccctcaTatgggccaaagtcattggag	11	6	9	15	0	2	0	2	0	0	0	2	2	2	2	5	3	0	0	5	3	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	33283534	T	A	33283534	3	1	172	1	0	0	0	0	1	0	0	0	17529	1406	49	5	748	5	ZBTB22	6	33283534	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10		33283534	137831533	22	9584											
FBXL18	80028	hgsc.bcm.edu	37	chr7	5521537	5521537	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagggaagatgacgacgtTtaacgcgggccgctcggcct	9	6	15	11	6	0	3	0	1	0	2	1	5	0	4	2	3	1	2	2	3	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	5521537	T	A	5521537	3	1	172	1	0	0	0	0	1	0	0	0	5714	1841	64	5	134	5	FBXL18	7	5521537	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10		5521537	153617126	23	9585											
AIMP2	7965	hgsc.bcm.edu;ucsc.edu	37	chr7	6063124	6063124	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaaagaaaaagccgctgtTttccgctccatgaactctgc	12	10	8	11	2	1	2	0	1	1	1	3	2	3	2	3	0	3	4	3	0	5	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	6063124	T	A	6063124	2	1	172	1	0	0	0	0	0	0	0	1	434	1828	64	5		5	AIMP2	7	6063124	Silent	SNP	T	TCGA-B2-4101-01A-02D-1361-10	541587	6063124	153075539	24	9586											
THSD7A	221981	hgsc.bcm.edu;ucsc.edu	37	chr7	11500386	11500386	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catctgcgccatttgtgagtCttccacctacaagacaggaa	11	10	8	12	1	2	2	0	1	2	1	3	3	3	3	3	1	2	0	3	1	3	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	11500386	C	G	11500386	3	3	172	1	0	0	0	0	1	0	0	0	15878	912	32	4	2533	4	THSD7A	7	11500386	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10	5437262	11500386	147638277	25	9587											
TAS2R38	5726	hgsc.bcm.edu	37	chr7	141672558	141672558	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctctgagcccagagcagaAtggtcatcacagctctcctc	9	9	9	14	0	4	3	2	1	2	2	6	3	4	3	2	1	4	3	2	1	1	0	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	141672558	A	G	141672558	3	3	172	1	0	0	0	0	1	0	0	0	15574	101	4	3	73	3	TAS2R38	7	141672558	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	130172172	141672558	17466105	26	9588											
EXT1	2131	hgsc.bcm.edu;ucsc.edu	37	chr8	118819493	118819493	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgtcaacaccatggagtAgtcgttcgtccactttgatg	8	13	9	11	2	1	1	1	1	0	0	5	2	3	2	3	1	1	2	3	1	2	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	118819493	A	G	118819493	3	3	172	1	0	0	0	0	1	0	0	0	5323	420	15	3	406	3	EXT1	8	118819493	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10		118819493	27544529	27	9589											
TLN1	7094	hgsc.bcm.edu	37	chr9	35710663	35710663	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattttgggagatgccagtCatggcctcgcccagcacctg	7	9	12	13	1	1	1	1	0	0	1	2	2	1	1	4	2	2	2	4	2	0	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	35710663	C	A	35710663	3	1	172	1	0	0	0	0	1	0	0	0	15946	826	29	4	3504	4	TLN1	9	35710663	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10		35710663	105502768	28	9590											
TBC1D13	54662	hgsc.bcm.edu	37	chr9	131550634	131550634	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attgcagatttccaggatgtCctgaaggagccctcaattgc	10	11	10	10	0	1	2	1	1	0	1	3	4	3	4	3	2	3	1	3	2	2	3	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	131550634	C	T	131550634	2	4	172	1	0	0	0	0	0	0	0	1	15601	842	30	2		2	TBC1D13	9	131550634	Silent	SNP	C	TCGA-B2-4101-01A-02D-1361-10	95839971	131550634	9662797	29	9591											
TBC1D12	23232	hgsc.bcm.edu	37	chr10	96281773	96281773	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggaagaggcagatgcctTtatcgcatttgccaatctcc	9	13	9	10	1	1	2	0	0	1	2	3	3	1	3	3	2	2	2	3	2	3	4	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	96281773	T	A	96281773	3	1	172	1	0	0	0	0	1	0	0	0	15600	1841	64	5	1861	5	TBC1D12	10	96281773	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10		96281773	39252974	30	9592											
TACC2	10579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123810032	123810032	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaaggaagcagcaggacaCgcccggaagccctgaccaca	16	1	11	13	2	0	1	0	1	0	0	0	4	0	4	3	3	3	2	3	3	4	0	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	123810032	C	T	123810032	3	4	172	1	0	0	0	0	1	0	0	0	15501	536	19	1	119	1	TACC2	10	123810032	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10	27528259	123810032	11724715	31	9593											
NUP160	23279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47828640	47828640	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaacctatttgccattaAagcaccagagtctgttaatt	14	12	5	10	0	1	1	0	0	1	1	1	1	1	1	4	0	3	2	4	0	5	5	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	47828640	A	T	47828640	3	4	172	1	0	0	0	0	1	0	0	0	10757	11	1	5	1954	5	NUP160	11	47828640	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10		47828640	87177876	32	9594											
SERPING1	710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57367686	57367686	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccaggacctgttactcTctgctctgacttggagagtc	6	12	10	13	0	2	2	0	1	2	1	4	4	2	3	2	2	3	2	2	2	1	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	57367686	T	C	57367686	3	2	172	1	0	0	0	0	1	0	0	0	14118	1551	54	3	392	3	SERPING1	11	57367686	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	9539046	57367686	77638830	33	9595											
FAU	2197	hgsc.bcm.edu	37	chr11	64888455	64888455	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaatactctcactcacctTaggagtctgacctctcactt	10	13	4	14	0	4	1	3	1	3	0	6	2	4	2	2	1	1	0	2	1	3	4	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	64888455	T	C	64888455	3	2	172	1	0	0	0	0	1	0	0	0	5694	1763	61	3	135	3	FAU	11	64888455	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10	7520769	64888455	70118061	34	9596											
WNT11	7481	hgsc.bcm.edu	37	chr11	75898146	75898146	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccacggtacgctcacacCtgcggcaggtgacgtagcag	8	6	13	14	4	1	1	1	1	0	0	2	1	2	1	2	3	3	6	2	3	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	75898146	C	A	75898146	3	1	172	1	0	0	0	0	1	0	0	0	17383	681	24	4	40	4	WNT11	11	75898146	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10	11009691	75898146	59108370	35	9597											
ZC3H12C	85463	hgsc.bcm.edu	37	chr11	110035964	110035964	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactccgctgtgggcgcccgGtccagctgtcctggcgacta	4	8	13	16	4	0	0	0	0	0	0	3	1	3	0	4	3	1	2	4	3	1	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	110035964	G	A	110035964	2	1	172	1	0	0	0	0	0	0	0	1	17562	1248	44	2		2	ZC3H12C	11	110035964	Silent	SNP	G	TCGA-B2-4101-01A-02D-1361-10	34137818	110035964	24970552	36	9598											
CACNA2D4	93589	hgsc.bcm.edu	37	chr12	1919737	1919737	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcagctctgtgtgcacggcCcatccacagtgctgcactgg	6	8	12	15	2	1	0	0	0	1	0	2	0	2	0	2	2	4	5	2	2	0	0	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	1919737	C	A	1919737	3	1	172	1	0	0	0	0	1	0	0	0	2551	623	22	4	827	4	CACNA2D4	12	1919737	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10		1919737	131932158	37	9599											
DYRK4	8798	hgsc.bcm.edu	37	chr12	4722815	4722815	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaactggtagacgctcccAagaagtcagaggcagctgtc	11	7	11	12	1	2	3	2	0	0	3	4	3	3	3	1	2	2	4	1	2	4	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	4722815	A	G	4722815	3	3	172	1	0	0	0	0	1	0	0	0	4858	131	5	3	1501	3	DYRK4	12	4722815	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	2803078	4722815	129129080	38	9600											
TGFB1I1	7041	hgsc.bcm.edu	37	chr16	31487457	31487457	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctgccccgagtgctactTtgagcgcttctcgccaagat	6	12	9	14	3	2	2	0	1	2	1	3	3	2	2	3	0	4	2	3	0	2	4	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	31487457	T	A	31487457	3	1	172	1	0	0	0	0	1	0	0	0	15816	1841	64	5	869	5	TGFB1I1	16	31487457	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1361-10		31487457	58867296	39	9601											
MYH13	8735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10258026	10258026	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcagttcttcactgtcatCgatactggctaccgtgacct	8	12	8	13	2	3	1	2	1	1	0	4	2	3	1	2	1	3	3	2	1	2	4	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	10258026	C	T	10258026	3	4	172	1	0	0	0	0	1	0	0	0	10032	884	31	1	4964	1	MYH13	17	10258026	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10		10258026	70937184	40	9602											
ATAD5	79915	hgsc.bcm.edu	37	chr17	29220591	29220591	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaacattggtaatattaGatgatagtgatctatttgac	16	14	8	3	0	1	5	0	3	1	2	1	5	1	5	0	1	1	1	0	1	7	7	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	29220591	G	T	29220591	3	4	172	1	0	0	0	0	1	0	0	0	1076	942	33	4	4802	4	ATAD5	17	29220591	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1361-10	18962565	29220591	51974619	41	9603											
DHX58	79132	hgsc.bcm.edu	37	chr17	40255755	40255756	+	Frame_Shift_Del	DEL	TT	TT	-																															ctgggaactgctgccgctggTtctcccgctgggctgcctgg																								novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		-	40255756	TT	-	40255755	7	5	172	1	0	1	0	1	0	0	0	0	4514	1725	60	0	423	0	DHX58	17	40255755	Frame_Shift_Del	DEL	TT	TCGA-B2-4101-01A-02D-1361-10	11035164	40255755	40939455	42	9604											
RPL27	6155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41154776	41154776	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaacgcaaggcccgacgggAggccaaggtcaagtttgaag	13	5	14	9	3	1	1	1	1	0	0	1	3	1	2	2	4	1	2	2	4	6	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	41154776	A	G	41154776	3	3	172	1	0	0	0	0	1	0	0	0	13577	304	11	3	348	3	RPL27	17	41154776	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	899021	41154776	40040434	43	9605											
C17orf71	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57292295	57292295	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agagaggaccttgtttccccCctaaggaaaatgtgcagtta	12	10	10	9	0	0	1	0	0	0	1	1	4	1	3	4	2	1	3	4	2	4	4	rs141411025	bycluster;by1000genomes	TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	57292295	C	G	57292295	3	3	172	1	0	0	0	0	1	0	0	0	1878	623	22	4	2922	4	C17orf71	17	57292295	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10	16137519	57292295	23902915	44	9606											
TTYH2	94015	hgsc.bcm.edu;ucsc.edu	37	chr17	72239583	72239583	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctgcctgggactggccAagcgctccaagtgtctcctg	5	10	12	14	1	1	0	0	0	1	0	3	1	2	1	5	2	3	1	5	2	2	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	72239583	A	G	72239583	3	3	172	1	0	0	0	0	1	0	0	0	16739	131	5	3	724	3	TTYH2	17	72239583	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	14947288	72239583	8955627	45	9607											
QRICH2	84074	hgsc.bcm.edu	37	chr17	74288892	74288892	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtgccaggctggatcaaaCcatgctgatctctaccaggt	9	10	10	12	0	2	1	1	1	1	0	3	2	2	2	3	3	4	2	3	3	2	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	74288892	C	T	74288892	3	4	172	1	0	0	0	0	1	0	0	0	12882	507	18	2	3637	2	QRICH2	17	74288892	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1361-10	2049309	74288892	6906318	46	9608											
THOC4	0	hgsc.bcm.edu	37	chr17	79846140	79846140	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcattataggcgtccagctGggcatccagctcctctgccg	6	9	11	15	3	1	0	0	0	1	0	4	0	4	0	4	2	3	4	4	2	2	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		A	79846140	G	A	79846140	4	1	172	1	0	0	0	0	0	1	0	0	15866	1357	47	2	45	2	THOC4	17	79846140	Nonsense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1361-10	5557248	79846140	1349070	47	9609											
TGM2	7052	hgsc.bcm.edu	37	chr20	36784289	36784289	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaaatgaagtggcccagCacaaagctggatccctggta	14	6	11	10	0	0	1	0	1	0	0	1	2	1	2	2	3	3	4	2	3	5	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	36784289	C	G	36784289	2	3	172	1	0	0	0	0	0	0	0	1	15829	697	25	4		4	TGM2	20	36784289	Silent	SNP	C	TCGA-B2-4101-01A-02D-1361-10		36784289	26241231	48	9610											
C20orf165	0	hgsc.bcm.edu	37	chr20	44515205	44515205	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagatctcactaggggcAtcttcccagaggctgtgtgg	7	13	12	9	0	2	2	1	0	2	2	4	2	3	2	1	4	0	2	1	4	2	4	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		T	44515205	A	T	44515205	3	4	172	1	0	0	0	0	1	0	0	0	2094	217	8	5	52	5	C20orf165	20	44515205	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1361-10	7730916	44515205	18510315	49	9611											
RANGAP1	5905	hgsc.bcm.edu;ucsc.edu	37	chr22	41664130	41664130	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggatctcggtccgcagccTtcccgtgaacatgtcactcc	6	10	10	15	3	2	1	1	1	1	0	6	2	5	2	4	2	2	1	4	2	1	1	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		G	41664130	T	G	41664130	2	3	172	1	0	0	0	0	0	0	0	1	13035	1608	56	5		5	RANGAP1	22	41664130	Silent	SNP	T	TCGA-B2-4101-01A-02D-1361-10		41664130	9640436	50	9612											
ZNF185	7739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	152085828	152085828	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctcctgggctctctttcaGgggagtgttcaccaagccca	7	11	10	13	0	4	0	2	0	2	0	6	1	4	1	3	3	1	2	3	3	1	2	novel		TCGA-B2-4101-01A-02D-1361-10	TCGA-B2-4101-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8715ce96-749e-42a5-9f05-6275f63c5658	009ee589-0d97-48ed-a544-db41525bc1fb		C	152085828	G	C	152085828	5	2	172	1	0	0	0	0	0	0	1	0	17751	1014	35	4	281	4	ZNF185	23	152085828	Splice_Site	SNP	G	TCGA-B2-4101-01A-02D-1361-10		152085828	3184732	51	9613											
RUNX3	864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	25256117	25256117	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttgttgcagcgccagtgCgagggcagcacggagcagag	8	6	17	10	3	1	1	0	0	1	1	1	3	1	2	1	2	5	5	1	2	0	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	25256117	C	A	25256117	2	1	173	1	0	0	0	0	0	0	0	1	13751	755	27	4		4	RUNX3	1	25256117	Silent	SNP	C	TCGA-B2-4101-01A-02D-1458-08		25256117	223994504	1	9614											
C1orf52	148423	broad.mit.edu	37	chr1	85725279	85725279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgctgctcccgtatgccGcaaaatagctcagagggtcc	9	8	11	13	2	1	1	1	0	0	1	3	1	3	1	3	1	5	6	3	1	4	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	85725279	A	A	85725279	3	1	173	1	0	0	0	0	1	0	0	0	2044	1087	38	1	522	1	C1orf52	1	85725279	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08	60469162	85725279	163525342	2	9615											
PTGS2	5743	broad.mit.edu;hgsc.bcm.edu	37	chr1	186646956	186646956	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttgaatcaggaagctgcTttttacctgaaaaatgagaa	15	12	8	6	0	1	3	1	3	0	1	1	5	1	4	1	1	3	2	1	1	6	4	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		G	186646956	T	G	186646956	3	3	173	1	0	0	0	0	1	0	0	0	12758	1609	56	5	1374	5	PTGS2	1	186646956	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1458-08	100921677	186646956	62603665	3	9616											
CFH	3075	broad.mit.edu;hgsc.bcm.edu	37	chr1	196642129	196642129	+	Missense_Mutation	SNP	G	G	T																															ttgcaatgaacttcctccaaGaagaaatacagaaattctga																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	196642129	G	T	196642129	3	4	173	1	0	0	0	0	1	0	0	0	3283	942	33	4	86	4	CFH	1	196642129	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08	9995173	196642129	52608492	4	9617	139	2									
CFH	3075	broad.mit.edu;hgsc.bcm.edu	37	chr1	196642130	196642130	+	Missense_Mutation	SNP	A	A	T																															tgcaatgaacttcctccaagAagaaatacagaaattctgac																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	196642130	A	T	196642130	3	4	173	1	0	0	0	0	1	0	0	0	3283	243	9	5	87	5	CFH	1	196642130	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1458-08	1	196642130	52608491	5	9618	139	2									
THSD7B	80731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	138414712	138414712	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatggtgccagcgttcaGatggcgttaatgtcacaggt	8	12	13	8	2	2	1	2	0	0	1	2	1	2	1	1	3	2	3	1	3	2	3	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	138414712	G	T	138414712	3	4	173	1	0	0	0	0	1	0	0	0	15879	942	33	4	4359	4	THSD7B	2	138414712	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08		138414712	104784661	6	9619											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47129722	47129722	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattttccatcagagcttCtagctctccatccacctacc	9	12	3	17	0	3	1	1	0	2	1	6	1	5	1	6	0	3	2	6	0	2	5	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	47129722	C	A	47129722	4	1	173	1	0	0	0	0	0	1	0	0	14133	922	32	4	2584	4	SETD2	3	47129722	Nonsense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08		47129722	150892708	7	9620											
WDR52	55779	hgsc.bcm.edu;ucsc.edu	37	chr3	113098217	113098217	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgggagagggggttgacGgaataaatatttcaggtaat	13	10	16	2	1	1	2	1	1	0	1	1	5	1	4	0	6	0	2	0	6	5	5	rs58988763	bycluster;byfrequency;by1000genomes	TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	113098217	G	A	113098217	3	1	173	1	0	0	0	0	1	0	0	0	17303	1116	39	1	3421	1	WDR52	3	113098217	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08	65968495	113098217	84924213	8	9621											
TM4SF19	116211	broad.mit.edu;ucsc.edu	37	chr3	196053866	196053866	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgaagcagccgtatctcCagcccatcaaggagatgagg	12	7	11	11	1	2	3	1	2	1	1	3	4	2	3	3	2	4	2	3	2	4	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	196053866	T	T	196053866	4	4	173	1	0	0	0	0	0	1	0	0	15967	595	21	2	402	2	TM4SF19	3	196053866	Nonsense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08	82955649	196053866	1968564	9	9622											
MUC7	4589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71346715	71346715	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taataacccccccaaattccCaaatcctcaccagccaccta	14	7	1	19	0	1	0	1	0	0	0	3	0	3	0	8	0	2	0	8	0	5	4	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	71346715	C	T	71346715	3	4	173	1	0	0	0	0	1	0	0	0	9981	594	21	2	260	2	MUC7	4	71346715	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08		71346715	119807561	10	9623											
FAM170A	340069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118970217	118970217	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagggcttcagctgccaCgtctttcatctcaccatggc	8	10	10	13	1	4	1	3	0	2	1	5	2	4	1	2	2	2	2	2	2	0	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	118970217	C	A	118970217	3	1	173	1	0	0	0	0	1	0	0	0	5489	535	19	4	784	4	FAM170A	5	118970217	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08		118970217	61945043	11	9624											
PCDHA10	56139	broad.mit.edu;ucsc.edu	37	chr5	140236864	140236864	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcattggtgctggacagcGctctggaccgcgagagggtg	7	8	16	10	3	2	1	1	0	1	1	2	4	2	3	1	4	2	2	1	4	0	1	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	140236864	T	T	140236864	3	4	173	1	0	0	0	0	1	0	0	0	11520	1087	38	4	1233	4	PCDHA10	5	140236864	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08	21266647	140236864	40678396	12	9625											
CDSN	1041	broad.mit.edu;hgsc.bcm.edu	37	chr6	31088189	31088189	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatccagggtgcccgagacGagcccatctcggactgcacg	8	5	12	16	4	1	1	0	0	1	1	3	4	2	2	4	2	3	1	4	2	0	0	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	31088189	G	A	31088189	3	1	173	1	0	0	0	0	1	0	0	0	3179	1059	37	1	1589	1	CDSN	6	31088189	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08		31088189	140026878	13	9626											
TREML4	285852	hgsc.bcm.edu;ucsc.edu	37	chr6	41196691	41196691	+	Frame_Shift_Del	DEL	G	G	-																															accatgattcagctgacacaGaatgactcgggattctactg																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		-	41196691	G	-	41196691	7	5	173	1	0	1	0	1	0	0	0	0	16473	933	33	0	309	0	TREML4	6	41196691	Frame_Shift_Del	DEL	G	TCGA-B2-4101-01A-02D-1458-08	10108502	41196691	129918376	14	9627											
TAS2R60	338398	broad.mit.edu;ucsc.edu	37	chr7	143140757	143140757	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctctcgcttctgtctgcagtCagtggtaatgggtaagacca	8	12	11	10	1	4	1	1	0	3	1	5	1	4	1	1	2	1	4	1	2	2	3	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		G	143140757	G	G	143140757	4	3	173	1	0	0	0	0	0	1	0	0	15584	838	29	4	214	4	TAS2R60	7	143140757	Nonsense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08		143140757	15997906	15	9628											
XKR6	286046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11058309	11058309	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgcacgaaccagcggaaGctcaggctctgcaccagcag	10	5	11	15	2	2	0	1	0	1	0	3	2	3	1	3	2	6	5	3	2	2	0	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	11058309	G	A	11058309	2	1	173	1	0	0	0	0	0	0	0	1	17434	962	34	2		2	XKR6	8	11058309	Silent	SNP	G	TCGA-B2-4101-01A-02D-1458-08		11058309	135305713	16	9629											
COMMD5	28991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	146076470	146076470	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgcatgcctgccagcAgggcacccagctgctcctcc	5	8	12	16	0	0	0	0	0	0	0	2	0	2	0	5	1	6	5	5	1	0	0	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	146076470	A	T	146076470	3	4	173	1	0	0	0	0	1	0	0	0	3719	188	7	5	424	5	COMMD5	8	146076470	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1458-08	135018161	146076470	287552	17	9630											
RTKN2	219790	broad.mit.edu;hgsc.bcm.edu	37	chr10	63999439	63999439	+	Silent	SNP	G	G	T																															ttttcaaaacatatatctgtGattgttttatccacattcac																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	63999439	G	T	63999439	2	4	173	1	0	0	0	0	0	0	0	1	13725	1280	45	4		4	RTKN2	10	63999439	Silent	SNP	G	TCGA-B2-4101-01A-02D-1458-08		63999439	71535308	18	9631	140	2									
RTKN2	219790	broad.mit.edu;hgsc.bcm.edu	37	chr10	63999440	63999440	+	Missense_Mutation	SNP	A	A	T																															tttcaaaacatatatctgtgAttgttttatccacattcacc																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	63999440	A	T	63999440	3	4	173	1	0	0	0	0	1	0	0	0	13725	333	12	5	1406	5	RTKN2	10	63999440	Missense_Mutation	SNP	A	TCGA-B2-4101-01A-02D-1458-08	1	63999440	71535307	19	9632	140	2									
DDX50	79009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70706192	70706192	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatgatggaaacacatctTctaattccagacagaggagt	15	11	8	7	0	2	3	0	1	2	2	3	5	3	5	1	2	1	0	1	2	3	4	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		C	70706192	T	C	70706192	3	2	173	1	0	0	0	0	1	0	0	0	4368	1783	62	3	2078	3	DDX50	10	70706192	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1458-08	6706752	70706192	64828555	20	9633											
H2AFY2	55506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	71835428	71835428	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaagatgtcgggccggaGtgggaagaagaaaatgtcca	15	5	15	6	2	0	3	0	0	0	3	2	5	1	5	2	3	1	1	2	3	6	0	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		C	71835428	G	C	71835428	3	2	173	1	0	0	0	0	1	0	0	0	6930	1029	36	4	16	4	H2AFY2	10	71835428	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08	1129236	71835428	63699319	21	9634											
CDHR5	53841	hgsc.bcm.edu	37	chr11	618965	618967	+	In_Frame_Del	DEL	GTT	GTT	-																															gtccccaccgggagtggctgGttggtgggaggtgctgtttt																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		-	618967	GTT	-	618965	7	5	173	1	0	1	0	1	0	0	0	0	3122	1261	44	0	955	0	CDHR5	11	618965	In_Frame_Del	DEL	GTT	TCGA-B2-4101-01A-02D-1458-08		618965	134387551	22	9635											
QSER1	79832	hgsc.bcm.edu;ucsc.edu	37	chr11	32954712	32954712	+	Frame_Shift_Del	DEL	A	A	-																															aatgttcagactcaagagtcAtcatctccccagtcccagaa																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		-	32954712	A	-	32954712	7	5	173	1	0	1	0	1	0	0	0	0	12884	204	8	0	1527	0	QSER1	11	32954712	Frame_Shift_Del	DEL	A	TCGA-B2-4101-01A-02D-1458-08	32335747	32954712	102051804	23	9636											
TMPRSS13	84000	broad.mit.edu	37	chr11	117785150	117785150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgcagtccaccaccccGtcacagcgaacagcgtgctt	9	7	9	16	3	1	0	1	0	0	0	2	1	2	0	4	0	6	3	4	0	1	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	117785150	A	A	117785150	2	1	173	1	0	0	0	0	0	0	0	1	16244	1136	40	1		1	TMPRSS13	11	117785150	Silent	SNP	G	TCGA-B2-4101-01A-02D-1458-08	84830438	117785150	17221366	24	9637											
ERBB3	2065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56487323	56487323	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaagcataatcggccgcGcagagactgcggtgagggaa	12	5	14	10	4	1	2	1	1	0	1	2	4	1	3	1	3	2	2	1	3	3	1	rs149951770		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	56487323	G	A	56487323	3	1	173	1	0	0	0	0	1	0	0	0	5208	1087	38	1	1646	1	ERBB3	12	56487323	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08		56487323	77364572	25	9638											
BCL11B	64919	broad.mit.edu;hgsc.bcm.edu	37	chr14	99640783	99640783	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgccgcagtactcgcacGtgtcgctgcggcggccctcc	3	8	12	18	6	0	0	0	0	0	0	3	0	1	0	4	2	3	4	4	2	1	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	99640783	G	A	99640783	3	1	173	1	0	0	0	0	1	0	0	0	1364	1145	40	1	298	1	BCL11B	14	99640783	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08		99640783	7708757	26	9639											
ITGA11	22801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	68628034	68628034	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaggctccccctccattaCctgctggccccgcatagcct	5	8	7	21	1	0	0	0	0	0	0	2	0	2	0	8	2	3	3	8	2	2	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	68628034	C	A	68628034	5	1	173	1	0	0	0	0	0	0	1	0	7874	521	18	4	2216	4	ITGA11	15	68628034	Splice_Site	SNP	C	TCGA-B2-4101-01A-02D-1458-08		68628034	33903358	27	9640											
CES1	1066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	55844874	55844874	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccacaggagtgacatggCtgtcttctggtccagttgcc	6	12	11	12	0	2	1	0	1	2	0	4	2	4	2	3	3	1	2	3	3	0	3	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	55844874	C	A	55844874	3	1	173	1	0	0	0	0	1	0	0	0	3269	797	28	4	591	4	CES1	16	55844874	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08		55844874	34509879	28	9641											
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3920721	3920721	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatccaaaatgtaggtcaTatgggcagggccactgagct	12	9	11	9	0	1	1	1	1	0	0	2	1	2	1	2	3	1	3	2	3	5	3	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		G	3920721	T	G	3920721	3	3	173	1	0	0	0	0	1	0	0	0	18254	1406	49	5	972	5	ZZEF1	17	3920721	Missense_Mutation	SNP	T	TCGA-B2-4101-01A-02D-1458-08		3920721	77274489	29	9642											
KIF1C	10749	hgsc.bcm.edu	37	chr17	4926877	4926879	+	In_Frame_Del	DEL	TCG	TCG	-																															tgccgtcagcccggccccccTcgccaccactgtcaagctgg																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	TCG	TCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		-	4926879	TCG	-	4926877	7	5	173	1	0	1	0	1	0	0	0	0	8285	1551	54	0	2825	0	KIF1C	17	4926877	In_Frame_Del	DEL	TCG	TCGA-B2-4101-01A-02D-1458-08	1006156	4926877	76268333	30	9643											
ZNF594	84622	hgsc.bcm.edu	37	chr17	5085789	5085790	+	Frame_Shift_Ins	INS	-	-	CC																															tttctctcttgtatgagttaINScctgatgtctgatgaggtct																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		CC	5085790	-	CC	5085789	7	5	173	1	0	1	1	0	0	0	0	0	18023	391	14	0	664	0	ZNF594	17	5085789	Frame_Shift_Ins	INS	-	TCGA-B2-4101-01A-02D-1458-08	158912	5085789	76109421	31	9644											
ETV4	2118	broad.mit.edu	37	chr17	41610308	41610308	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggctgctggaagacggagCtggatgtggttggatggaga	8	8	21	4	1	0	2	0	0	0	2	0	7	0	6	0	8	2	4	0	8	1	1	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	41610308	T	T	41610308	5	4	173	1	0	0	0	0	0	0	1	0	5281	811	28	2	933	2	ETV4	17	41610308	Splice_Site	SNP	C	TCGA-B2-4101-01A-02D-1458-08	36524519	41610308	39584902	32	9645											
PHLPP1	23239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	60497298	60497298	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcacgggtagctctgaacGgattcagctctcaggaatgt	10	9	12	10	2	3	1	2	1	2	0	4	3	3	3	0	3	4	4	0	3	3	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	60497298	G	A	60497298	3	1	173	1	0	0	0	0	1	0	0	0	11854	1116	39	1	1613	1	PHLPP1	18	60497298	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08		60497298	17579950	33	9646											
KIAA1543	0	broad.mit.edu;hgsc.bcm.edu	37	chr19	7677733	7677733	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagcccgaaacacacgcGgccagcggagctgcggctgg	8	2	15	16	6	0	0	0	0	0	0	0	2	0	1	3	4	5	3	3	4	1	0	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		T	7677733	G	T	7677733	3	4	173	1	0	0	0	0	1	0	0	0	8243	1116	39	4	2485	4	KIAA1543	19	7677733	Missense_Mutation	SNP	G	TCGA-B2-4101-01A-02D-1458-08		7677733	51451250	34	9647											
AKT2	208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40742002	40742002	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggcccggccatagtcattgtCctccagcacctgaggatgga	8	8	12	13	1	1	1	1	1	0	0	3	3	3	3	5	4	1	1	5	4	1	2	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		G	40742002	C	G	40742002	3	3	173	1	0	0	0	0	1	0	0	0	480	855	30	4	491	4	AKT2	19	40742002	Missense_Mutation	SNP	C	TCGA-B2-4101-01A-02D-1458-08	33064269	40742002	18386981	35	9648											
SEC23B	10483	hgsc.bcm.edu;ucsc.edu	37	chr20	18492907	18492908	+	Frame_Shift_Del	DEL	TC	TC	-																															aaaactttgggcctgtaattTctgttttcaaagaaatcagg																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		-	18492908	TC	-	18492907	7	5	173	1	0	1	0	1	0	0	0	0	13994	1783	62	0	266	0	SEC23B	20	18492907	Frame_Shift_Del	DEL	TC	TCGA-B2-4101-01A-02D-1458-08		18492907	44532613	36	9649											
NCOA6	23054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33328813	33328813	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggacaactggagaagaCgtacaaggaggggaaggaag	17	2	18	4	1	0	2	0	0	0	2	0	8	0	6	0	6	2	1	0	6	7	1	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		A	33328813	C	A	33328813	2	1	173	1	0	0	0	0	0	0	0	1	10233	523	19	4		4	NCOA6	20	33328813	Silent	SNP	C	TCGA-B2-4101-01A-02D-1458-08	14835906	33328813	29696707	37	9650											
DMD	1756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	32834668	32834668	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattaacctgtggataattAcgagttgattgtcggaccca	12	12	9	8	2	0	1	0	1	0	0	1	4	0	3	2	2	2	1	2	2	3	5	novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		G	32834668	A	G	32834668	2	3	173	1	0	0	0	0	0	0	0	1	4580	378	14	3		3	DMD	23	32834668	Silent	SNP	A	TCGA-B2-4101-01A-02D-1458-08		32834668	122435892	38	9651											
ZXDA	7789	hgsc.bcm.edu;ucsc.edu	37	chrX	57935826	57935828	+	In_Frame_Del	DEL	GGT	GGT	-																															tgcgccttgaggttgtacacGgtggtgaagctcttgccaca																								novel		TCGA-B2-4101-01A-02D-1458-08	TCGA-B2-4101-11A-01D-1458-08	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	09bfe7ac-7667-4a3e-aedd-b621f55fb635	c6972bea-cb24-44f1-a9fc-16a34fef03c9		-	57935828	GGT	-	57935826	7	5	173	1	0	1	0	1	0	0	0	0	18249	1103	39	0	1374	0	ZXDA	23	57935826	In_Frame_Del	DEL	GGT	TCGA-B2-4101-01A-02D-1458-08	25101158	57935826	97334734	39	9652											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10364568	10364568	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attataacactggaggtcagTtagagggcaatgcagccact	13	9	11	8	0	1	1	1	0	0	1	1	2	1	2	1	3	3	3	1	3	4	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	10364568	T	C	10364568	2	2	174	1	0	0	0	0	0	0	0	1	8284	1722	60	3		3	KIF1B	1	10364568	Silent	SNP	T	TCGA-B2-5633-01A-01D-1534-10		10364568	238886053	1	9653											
UBIAD1	29914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11333752	11333752	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacgtgttggccctgaggcCctggagcttcagtgcctcac	5	10	12	14	1	2	1	2	1	0	0	2	2	2	2	3	3	3	2	3	3	1	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	11333752	C	A	11333752	3	1	174	1	0	0	0	0	1	0	0	0	16884	623	22	4	166	4	UBIAD1	1	11333752	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	969184	11333752	237916869	2	9654											
EPS15	2060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	51887534	51887534	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccacattattcttttccctaGaagaccagcaaacaatgcaa	15	10	4	12	0	1	2	0	0	1	2	2	2	2	2	3	0	3	2	3	0	6	5	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	51887534	G	C	51887534	3	2	174	1	0	0	0	0	1	0	0	0	5192	942	33	4	1705	4	EPS15	1	51887534	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	40553782	51887534	197363087	3	9655											
SLC35D1	23169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67486082	67486082	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactattgtagttgtaagAgcagaattatactgcgtgca	13	12	9	7	1	0	2	0	0	0	2	0	2	0	2	1	0	5	5	1	0	7	7	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	67486082	A	C	67486082	2	2	174	1	0	0	0	0	0	0	0	1	14583	291	11	5		5	SLC35D1	1	67486082	Silent	SNP	A	TCGA-B2-5633-01A-01D-1534-10	15598548	67486082	181764539	4	9656											
SLC6A17	388662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110740166	110740166	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgtgctcaccacagccaGcatcatccagctgggggtca	8	7	12	14	0	3	0	3	0	0	0	4	0	4	0	3	3	4	4	3	3	0	0	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	110740166	G	T	110740166	3	4	174	1	0	0	0	0	1	0	0	0	14682	971	34	4	1798	4	SLC6A17	1	110740166	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	43254084	110740166	138510455	5	9657											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu	37	chr1	144931293	144931293	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcattctccacccagcacTcaaaccctgaataggcgaag	12	7	6	16	1	3	1	2	1	1	0	4	2	3	1	4	1	2	1	4	1	4	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	144931293	T	A	144931293	3	1	174	1	0	0	0	0	1	0	0	0	11643	1551	54	5	7283	5	PDE4DIP	1	144931293	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10	34191127	144931293	104319328	6	9658											
DNM3	26052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171956945	171956945	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgagtctattccccacacGgtaagtaaaataataaaatt	17	11	5	8	2	1	0	0	0	1	0	2	1	2	0	2	1	1	2	2	1	8	8	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	171956945	G	A	171956945	3	1	174	1	0	0	0	0	1	0	0	0	4673	1130	39	1	395	1	DNM3	1	171956945	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	27025652	171956945	77293676	7	9659											
IARS2	55699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220316404	220316404	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gactcatttcttggaagcatCcctggcaaaaatgcagctga	12	10	9	10	0	2	1	1	1	1	0	3	3	3	2	1	2	3	4	1	2	3	2	rs113314730		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	220316404	C	T	220316404	2	4	174	1	0	0	0	0	0	0	0	1	7474	845	30	2		2	IARS2	1	220316404	Silent	SNP	C	TCGA-B2-5633-01A-01D-1534-10	48359459	220316404	28934217	8	9660											
IL18RAP	8807	hgsc.bcm.edu;ucsc.edu	37	chr2	103067362	103067362	+	Frame_Shift_Del	DEL	G	G	-																															aaaatggagctcttttccaaGtgaggccacttcatctctga																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		-	103067362	G	-	103067362	7	5	174	1	0	1	0	1	0	0	0	0	7648	1029	36	0	1299	0	IL18RAP	2	103067362	Frame_Shift_Del	DEL	G	TCGA-B2-5633-01A-01D-1534-10		103067362	140132011	9	9661											
TNS1	7145	broad.mit.edu;ucsc.edu	37	chr2	218713396	218713396	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgctcagatgctaacgccCcaccattgacatgaacctgg	10	7	8	16	2	1	3	1	2	0	1	1	3	1	3	5	1	3	2	5	1	2	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		G	218713396	G	G	218713396	3	3	174	1	0	0	0	0	1	0	0	0	16342	623	22	4	3806	4	TNS1	2	218713396	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	115646034	218713396	24485977	10	9662											
SEMA3G	56920	broad.mit.edu;ucsc.edu	37	chr3	52472210	52472210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgagagcccacgtatagCatttgctggggagggacaga	11	6	15	9	2	0	2	0	0	0	2	0	5	0	4	2	3	4	3	2	3	2	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	52472210	T	T	52472210	3	4	174	1	0	0	0	0	1	0	0	0	14032	710	25	2	845	2	SEMA3G	3	52472210	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10		52472210	145550220	11	9663											
GAP43	2596	broad.mit.edu;ucsc.edu	37	chr3	115394971	115394971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttccgtggacacataacaAggaaaaagctcaaaggagag	17	5	11	8	1	1	1	1	0	0	1	2	4	2	3	1	3	2	2	1	3	5	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		G	115394971	G	G	115394971	3	3	174	1	0	0	0	0	1	0	0	0	6235	63	3	3	290	3	GAP43	3	115394971	Missense_Mutation	SNP	A	TCGA-B2-5633-01A-01D-1534-10	62922761	115394971	82627459	12	9664											
DHX36	170506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154018911	154018911	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgttctttttgttctggaAcatacctaaaataaaaacat	14	16	5	6	0	2	0	0	0	2	0	2	1	2	1	1	1	3	2	1	1	7	7	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	154018911	A	T	154018911	3	4	174	1	0	0	0	0	1	0	0	0	4509	43	2	5	1867	5	DHX36	3	154018911	Missense_Mutation	SNP	A	TCGA-B2-5633-01A-01D-1534-10	38623940	154018911	44003519	13	9665											
ATP13A5	344905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193039503	193039503	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaacctggccaccatttCtggggcacctttcatgtaga	9	10	10	12	0	2	2	1	0	1	2	2	2	2	2	4	3	1	3	4	3	2	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	193039503	C	A	193039503	4	1	174	1	0	0	0	0	0	1	0	0	1127	922	32	4	1832	4	ATP13A5	3	193039503	Nonsense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	39020592	193039503	4982927	14	9666											
TLR10	81793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	38776455	38776455	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggtcgtcccagagtaaatCaactttattaagcaatagaa	17	10	7	7	1	1	2	1	0	0	2	3	2	2	2	1	1	2	2	1	1	9	5	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	38776455	C	T	38776455	3	4	174	1	0	0	0	0	1	0	0	0	15949	826	29	2	1682	2	TLR10	4	38776455	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10		38776455	152377821	15	9667											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85758222	85758222	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggaaggcactgacattgTtgtcatgcagtccacggttt	8	12	13	8	1	1	1	1	1	0	0	2	2	2	2	1	4	1	4	1	4	1	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	85758222	T	C	85758222	3	2	174	1	0	0	0	0	1	0	0	0	17269	1725	60	3	10435	3	WDFY3	4	85758222	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10	46981767	85758222	105396054	16	9668											
NMUR2	56923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	151784061	151784061	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacatgggcttgatgaccGtacaggtggccgaacctggg	8	8	14	11	2	0	2	0	2	0	0	1	3	1	2	4	4	2	2	4	4	2	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	151784061	G	A	151784061	3	1	174	1	0	0	0	0	1	0	0	0	10507	1145	40	1	649	1	NMUR2	5	151784061	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10		151784061	29131199	17	9669											
FAM114A2	10827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153372626	153372626	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagatctctagcacaggtaaGagtagctgaaaggcgtcctg	12	8	13	8	1	1	3	0	1	1	2	3	4	2	3	1	2	2	4	1	2	4	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	153372626	G	C	153372626	2	2	174	1	0	0	0	0	0	0	0	1	5404	929	33	4		4	FAM114A2	5	153372626	Silent	SNP	G	TCGA-B2-5633-01A-01D-1534-10	1588565	153372626	27542634	18	9670											
LARP1	23367	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154183854	154183854	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgtgagcacaggccccgtActgcttccatcaggtacctg	7	8	10	16	2	1	1	1	1	0	0	2	1	2	1	5	2	4	4	5	2	2	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	154183854	A	T	154183854	3	4	174	1	0	0	0	0	1	0	0	0	8628	391	14	5	2356	5	LARP1	5	154183854	Missense_Mutation	SNP	A	TCGA-B2-5633-01A-01D-1534-10	811228	154183854	26731406	19	9671											
CCDC99	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	169028336	169028336	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgaggtgctccctgtggaTataaccaccgctaaagatgc	10	9	11	11	2	0	2	0	1	0	1	1	3	1	3	3	2	3	2	3	2	4	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	169028336	T	A	169028336	3	1	174	1	0	0	0	0	1	0	0	0	2876	1403	49	5	1415	5	CCDC99	5	169028336	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10	14844482	169028336	11886924	20	9672											
MUC21	394263	hgsc.bcm.edu	37	chr6	30955191	30955211	+	In_Frame_Del	DEL	GTCCAGTGGGGCCAGCACTGC	GTCCAGTGGGGCCAGCACTGC	-																															aactctgagtccagcacagtGtccagtggggccagcactgc																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	GTCCAGTGGGGCCAGCACTGC	GTCCAGTGGGGCCAGCACTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		-	30955211	GTCCAGTGGGGCCAGCACTGC	-	30955191	7	5	174	1	0	1	0	1	0	0	0	0	9977	1364	48	0	1245	0	MUC21	6	30955191	In_Frame_Del	DEL	GTCCAGTGGGGCCAGCACTGC	TCGA-B2-5633-01A-01D-1534-10		30955191	140159876	21	9673											
ROS1	6098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117609777	117609777	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atctttgtctgcatgtggttCcttctcttctttcctcagac	4	19	6	12	0	5	1	1	0	4	1	8	1	7	1	2	1	1	2	2	1	0	5	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		G	117609777	C	G	117609777	3	3	174	1	0	0	0	0	1	0	0	0	13533	864	30	4	125	4	ROS1	6	117609777	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	86654586	117609777	53505290	22	9674											
CENPW	387103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	126667412	126667412	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtccaggacaaacgcttGtgcgagtaaatgtagagtca	14	8	12	7	2	1	2	1	0	0	2	2	4	2	3	1	1	2	3	1	1	4	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	126667412	G	C	126667412	3	2	174	1	0	0	0	0	1	0	0	0	3244	1377	48	4	194	4	CENPW	6	126667412	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	9057635	126667412	44447655	23	9675											
OR2A4	79541	hgsc.bcm.edu	37	chr6	132021904	132021904	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcacatatatgaaactacaAttgtggacaagggtcccacc	14	9	8	10	0	0	1	0	1	0	0	1	2	1	2	2	2	3	1	2	2	6	4	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		G	132021904	A	G	132021904	3	3	174	1	0	0	0	0	1	0	0	0	10979	101	4	3	297	3	OR2A4	6	132021904	Missense_Mutation	SNP	A	TCGA-B2-5633-01A-01D-1534-10	5354492	132021904	39093163	24	9676											
LRWD1	222229	broad.mit.edu	37	chr7	102108803	102108803	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagctgtgggcctgtgccTtcgagccggcctgggaggag	4	7	17	13	2	0	0	0	0	0	0	1	3	0	2	5	4	3	1	5	4	0	1	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	102108803	A	A	102108803	3	1	174	1	0	0	0	0	1	0	0	0	9047	1609	56	5	924	5	LRWD1	7	102108803	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10		102108803	57029860	25	9677											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151873651	151873651	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggcattatccaaaacacGgccaggcggtgctatgaaag	13	7	11	10	2	0	1	0	1	0	0	1	1	1	1	2	4	2	2	2	4	5	2	rs187761353	by1000genomes	TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	151873651	G	A	151873651	3	1	174	1	0	0	0	0	1	0	0	0	9622	1116	39	1	5936	1	MLL3	7	151873651	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	49764848	151873651	7265012	26	9678											
GDF6	392255	broad.mit.edu	37	chr8	97172667	97172668	+	Frame_Shift_Ins	INS	-	A	A																															gcgcggacccctgcctggcgINSgctcctgcgcccggggctgc																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	97172668	A	A	97172667	7	5	174	1	0	1	1	0	0	0	0	0	6317	1116	39	0	1121	0	GDF6	8	97172667	Frame_Shift_Ins	INS	-	TCGA-B2-5633-01A-01D-1534-10		97172667	49191355	27	9679											
OR52A5	390054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5152922	5152922	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctataggagtcactaacgaTcaagttacttttttgaagaa	14	14	7	6	1	3	2	2	1	1	1	3	4	3	3	0	1	2	1	0	1	7	7	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	5152922	T	C	5152922	3	2	174	1	0	0	0	0	1	0	0	0	11110	1450	50	3	2	3	OR52A5	11	5152922	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10		5152922	129853594	28	9680											
IGSF22	283284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18738324	18738324	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggttccccgcctcagcagaGaactcgccgctgtcactgag	8	7	11	15	3	2	2	2	1	0	1	4	3	3	2	4	1	2	3	4	1	1	1	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	18738324	G	A	18738324	2	1	174	1	0	0	0	0	0	0	0	1	7600	933	33	2		2	IGSF22	11	18738324	Silent	SNP	G	TCGA-B2-5633-01A-01D-1534-10	13585402	18738324	116268192	29	9681											
SLC15A3	51296	broad.mit.edu;ucsc.edu	37	chr11	60709588	60709588	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttgggatgtggaggtgAagaccctgcaggacataggt	10	10	16	5	0	0	2	0	1	0	1	0	5	0	5	1	5	1	2	1	5	2	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	60709588	C	C	60709588	2	2	174	1	0	0	0	0	0	0	0	1	14402	233	9	5		5	SLC15A3	11	60709588	Silent	SNP	A	TCGA-B2-5633-01A-01D-1534-10	41971264	60709588	74296928	30	9682											
NEU3	10825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	74717078	74717078	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacagctctgtgagcccccAcatggttgccaagggagtgt	8	8	13	12	1	1	1	0	1	1	0	1	3	1	2	3	2	3	2	3	2	1	1	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	74717078	A	T	74717078	2	4	174	1	0	0	0	0	0	0	0	1	10343	146	6	5		5	NEU3	11	74717078	Silent	SNP	A	TCGA-B2-5633-01A-01D-1534-10	14007490	74717078	60289438	31	9683											
HIST4H4	121504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14923794	14923794	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggtcttgcgcttggcgtgCtccgtgtaagtcaccgcgtc	4	11	13	13	6	2	0	1	0	1	0	4	0	3	0	2	2	2	3	2	2	1	3	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	14923794	C	T	14923794	2	4	174	1	0	0	0	0	0	0	0	1	7185	796	28	2		2	HIST4H4	12	14923794	Silent	SNP	C	TCGA-B2-5633-01A-01D-1534-10		14923794	118928101	32	9684											
SARNP	84324	hgsc.bcm.edu;ucsc.edu	37	chr12	56194628	56194628	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagactaaccttactctaTccaactcacctctgtttcat	11	13	3	14	0	4	1	2	0	2	1	5	2	5	1	3	0	3	1	3	0	4	4	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	56194628	T	A	56194628	1	1	174	0	1	0	0	0	0	0	0	0	13845	1450	50	5		5	SARNP	12	56194628	RNA	SNP	T	TCGA-B2-5633-01A-01D-1534-10	41270834	56194628	77657267	33	9685											
CHFR	55743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133454165	133454165	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcttccagtgtcacctgaCctgatttttcatccactaca	9	15	4	13	0	3	2	2	2	1	0	5	2	5	2	4	0	1	0	4	0	2	5	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	133454165	C	T	133454165	3	4	174	1	0	0	0	0	1	0	0	0	3337	507	18	2	1946	2	CHFR	12	133454165	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	77259537	133454165	397730	34	9686											
FARP1	10160	broad.mit.edu;ucsc.edu	37	chr13	99083480	99083480	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcactacaagcaggtcctgGagcggctgtgcaaacaccac	11	6	11	13	1	0	0	0	0	0	0	1	1	1	1	2	3	6	4	2	3	3	1	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	99083480	T	T	99083480	4	4	174	1	0	0	0	0	0	1	0	0	5676	1175	41	4	2378	4	FARP1	13	99083480	Nonsense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10		99083480	16086398	35	9687											
NFAT5	10725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69725994	69725994	+	Missense_Mutation	SNP	T	T	A																															tgtcacaactgactgaggcaTcacaacaacagcagcagtca																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	69725994	T	A	69725994	3	1	174	1	0	0	0	0	1	0	0	0	10360	1435	50	5	2316	5	NFAT5	16	69725994	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10		69725994	20628759	36	9688	141	2									
NFAT5	10725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69725995	69725995	+	Nonsense_Mutation	SNP	C	C	A																															gtcacaactgactgaggcatCacaacaacagcagcagtcac																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	69725995	C	A	69725995	4	1	174	1	0	0	0	0	0	1	0	0	10360	838	29	4	2317	4	NFAT5	16	69725995	Nonsense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	1	69725995	20628758	37	9689	141	2									
LAMA3	3909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21417039	21417039	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcagctcaagggacacatgGcccgattccttctggtatgc	8	11	10	12	1	3	0	2	0	1	0	4	2	4	1	2	3	2	2	2	3	2	4	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	21417039	G	A	21417039	3	1	174	1	0	0	0	0	1	0	0	0	8607	1203	42	2	3177	2	LAMA3	18	21417039	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10		21417039	56660209	38	9690											
FCGBP	8857	broad.mit.edu	37	chr19	40383839	40383840	+	Frame_Shift_Ins	INS	-	GT	GT																															cgtgctggccggatggcaggINSaggccacacacttcacccag																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		GT	40383840	GT	GT	40383839	7	5	174	1	0	1	1	0	0	0	0	0	5778	1161	41	0	6510	0	FCGBP	19	40383839	Frame_Shift_Ins	INS	-	TCGA-B2-5633-01A-01D-1534-10		40383839	18745144	39	9691											
TEAD2	8463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49852034	49852034	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgggcggtgcccaggccccGagcctgccaggctgggggcg	3	3	19	16	4	0	0	0	0	0	0	0	1	0	0	6	6	3	1	6	6	0	0	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	49852034	G	A	49852034	3	1	174	1	0	0	0	0	1	0	0	0	15738	1057	37	1	702	1	TEAD2	19	49852034	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	9468195	49852034	9276949	40	9692											
KLK3	354	broad.mit.edu	37	chr19	51361427	51361427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaggccaggtgatgacTccagccacgacctcatgctg	8	8	10	15	1	2	2	2	2	0	0	4	3	4	2	5	2	2	1	5	2	0	0	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	51361427	C	C	51361427	3	2	174	1	0	0	0	0	1	0	0	0	8405	1551	54	3	363	3	KLK3	19	51361427	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10	1509393	51361427	7767556	41	9693											
RASSF2	9770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	4776560	4776560	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaggcgaatgggccggCgcaggccccaggagatgttc	7	6	16	12	3	1	1	0	0	1	1	2	3	1	1	3	5	1	3	3	5	1	1	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	4776560	C	T	4776560	3	4	174	1	0	0	0	0	1	0	0	0	13088	768	27	1	824	1	RASSF2	20	4776560	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10		4776560	58248960	42	9694											
GDF5	8200	broad.mit.edu;ucsc.edu	37	chr20	34021789	34021789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagtcaatgaagaggatgCtgatgggactcagccgcgtg	11	7	15	8	2	2	4	2	2	0	2	2	6	2	6	1	2	2	1	1	2	2	0	rs121909347		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		T	34021789	T	T	34021789	3	4	174	1	0	0	0	0	1	0	0	0	6316	797	28	2	85	2	GDF5	20	34021789	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	29245229	34021789	29003731	43	9695											
RBM39	9584	hgsc.bcm.edu	37	chr20	34320047	34320047	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacgacttctgctcttgcTttttttcctcctgagaagaa	8	16	6	11	1	2	2	0	1	2	2	4	4	4	2	2	0	3	2	2	0	3	6	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		C	34320047	T	C	34320047	3	2	174	1	0	0	0	0	1	0	0	0	13135	1609	56	3	1536	3	RBM39	20	34320047	Missense_Mutation	SNP	T	TCGA-B2-5633-01A-01D-1534-10	298258	34320047	28705473	44	9696											
TOP1	7150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39744972	39744972	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagggcttgacagccaagGtattccgtacatacaatgcc	11	9	11	10	1	0	1	0	1	0	0	1	2	1	2	3	3	4	3	3	3	5	5	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	39744972	G	A	39744972	3	1	174	1	0	0	0	0	1	0	0	0	16362	1261	44	2	1828	2	TOP1	20	39744972	Missense_Mutation	SNP	G	TCGA-B2-5633-01A-01D-1534-10	5424925	39744972	23280548	45	9697											
ZC3H7B	23264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41742095	41742095	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacgtgtggaccgaggagcgGaagggcaccctcaaccgcga	10	3	16	12	5	1	0	1	0	0	0	1	6	1	3	3	4	2	1	3	4	2	0	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	41742095	G	A	41742095	2	1	174	1	0	0	0	0	0	0	0	1	17572	1161	41	2		2	ZC3H7B	22	41742095	Silent	SNP	G	TCGA-B2-5633-01A-01D-1534-10		41742095	9562471	46	9698											
PACSIN2	11252	broad.mit.edu;hgsc.bcm.edu	37	chr22	43287181	43287181	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttctccacggtcccgtaCtggggccctgtgcaggggag	4	8	15	14	2	1	0	0	0	1	0	3	1	2	1	4	5	2	2	4	5	1	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		G	43287181	C	G	43287181	3	3	174	1	0	0	0	0	1	0	0	0	11375	564	20	4	1267	4	PACSIN2	22	43287181	Missense_Mutation	SNP	C	TCGA-B2-5633-01A-01D-1534-10	1545086	43287181	8017385	47	9699											
SHROOM4	57477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50556989	50556989	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgcagctgcacagggacGtactggaaggacccaggccg	9	5	14	13	2	0	0	0	0	0	0	0	3	0	3	3	4	4	4	3	4	2	2	novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		A	50556989	G	A	50556989	2	1	174	1	0	0	0	0	0	0	0	1	14298	1140	40	1		1	SHROOM4	23	50556989	Silent	SNP	G	TCGA-B2-5633-01A-01D-1534-10		50556989	104713571	48	9700											
UBL4A	8266	broad.mit.edu	37	chrX	153714611	153714611	+	Frame_Shift_Del	DEL	G	-	-																															gcagccgctgctggcgcactGggacgttcagcttctcggag																								novel		TCGA-B2-5633-01A-01D-1534-10	TCGA-B2-5633-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2d84b133-d6fd-403e-a514-4640f8db7e64	e00d5adc-97fe-4157-9bc9-ff9bfab2b43a		-	153714611	-	-	153714611	7	5	174	1	0	1	0	1	0	0	0	0	16886	1348	47	0	375	0	UBL4A	23	153714611	Frame_Shift_Del	DEL	G	TCGA-B2-5633-01A-01D-1534-10	103157622	153714611	1555949	49	9701											
CHD5	26038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	6214898	6214898	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaactcccgccacttggcAcccaggacggtcatcatttt	8	10	8	15	2	2	1	2	1	0	0	3	2	3	2	3	3	1	1	3	3	1	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	6214898	A	C	6214898	2	2	175	1	0	0	0	0	0	0	0	1	3328	146	6	5		5	CHD5	1	6214898	Silent	SNP	A	TCGA-B2-5635-01A-01D-1534-10		6214898	243035723	1	9702											
AKR7A3	22977	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19611597	19611597	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctgccgggtgatggcAttgtacatgccctgtaagga	8	10	12	11	1	0	1	0	1	0	0	1	2	1	2	4	3	3	3	4	3	2	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	19611597	A	G	19611597	2	3	175	1	0	0	0	0	0	0	0	1	476	214	8	3		3	AKR7A3	1	19611597	Silent	SNP	A	TCGA-B2-5635-01A-01D-1534-10	13396699	19611597	229639024	2	9703											
KTI12	112970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	52498994	52498994	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaggacgctgctgcccGccgcctgggctctcccgtcc	2	7	12	20	4	1	1	0	1	1	0	3	2	2	2	6	2	2	3	6	2	0	0	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	52498994	G	A	52498994	3	1	175	1	0	0	0	0	1	0	0	0	8584	1087	38	1	628	1	KTI12	1	52498994	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	32887397	52498994	196751627	3	9704											
COPA	1314	hgsc.bcm.edu;ucsc.edu	37	chr1	160267213	160267220	+	Frame_Shift_Del	DEL	TCCTTTCT	TCCTTTCT	-																															tctgatagtggccactcatgTcctttctgatctcagctgca																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	TCCTTTCT	TCCTTTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	160267220	TCCTTTCT	-	160267213	7	5	175	1	0	1	0	1	0	0	0	0	3727	1667	58	0	1543	0	COPA	1	160267213	Frame_Shift_Del	DEL	TCCTTTCT	TCGA-B2-5635-01A-01D-1534-10	107768219	160267213	88983408	4	9705											
CR1	1378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207685001	207685001	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacacctatttgtgacagTgagttgaaatatcccttcct	12	13	7	9	0	0	3	0	3	0	0	2	4	2	3	3	0	1	1	3	0	4	5	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	207685001	T	A	207685001	5	1	175	1	0	0	0	0	0	0	1	0	3840	1710	59	5	503	5	CR1	1	207685001	Splice_Site	SNP	T	TCGA-B2-5635-01A-01D-1534-10	47417788	207685001	41565620	5	9706											
PXDN	7837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1652347	1652347	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgtggccaaacctgaaggCcgcggtggcgaaggcgttga	8	6	17	10	5	0	2	0	2	0	0	0	3	0	2	3	5	1	1	3	5	3	1	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	1652347	C	T	1652347	3	4	175	1	0	0	0	0	1	0	0	0	12849	739	26	2	1262	2	PXDN	2	1652347	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10		1652347	241547026	6	9707											
PDIA6	10130	broad.mit.edu;ucsc.edu	37	chr2	10924426	10924426	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatcaagctccacatcactGaggtcaatgtcatcctccac	11	10	5	15	0	5	1	5	1	0	0	8	1	8	1	3	1	1	1	3	1	2	0	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	10924426	A	A	10924426	2	1	175	1	0	0	0	0	0	0	0	1	11672	1277	45	2		2	PDIA6	2	10924426	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	9272079	10924426	232274947	7	9708											
NBAS	51594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	15564514	15564514	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccaccgtaagctgggtCatcctgaaccttagtaactc	9	12	7	13	1	2	1	1	1	1	0	5	1	3	1	4	1	3	3	4	1	4	4	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	15564514	C	A	15564514	3	1	175	1	0	0	0	0	1	0	0	0	10186	826	29	4	4733	4	NBAS	2	15564514	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	4640088	15564514	227634859	8	9709											
PKP4	8502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	159526361	159526361	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaaaacatggagaacgCaaaagccctggccgactcag	16	3	10	12	2	1	1	1	0	0	1	1	3	1	1	2	2	4	2	2	2	5	0	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	159526361	C	A	159526361	3	1	175	1	0	0	0	0	1	0	0	0	11987	710	25	4	2920	4	PKP4	2	159526361	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	143961847	159526361	83673012	9	9710											
LRP2	4036	hgsc.bcm.edu	37	chr2	169989163	169989163	+	Missense_Mutation	SNP	T	T	C																															ttatgggacttccataattcTtattatccacattttcagat																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	169989163	T	C	169989163	3	2	175	1	0	0	0	0	1	0	0	0	8956	1609	56	3	330	3	LRP2	2	169989163	Missense_Mutation	SNP	T	TCGA-B2-5635-01A-01D-1534-10	10462802	169989163	73210210	10	9711	142	2									
LRP2	4036	hgsc.bcm.edu;ucsc.edu	37	chr2	169989165	169989165	+	Frame_Shift_Del	DEL	A	A	-																															atgggacttccataattcttAttatccacattttcagatac																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	169989165	A	-	169989165	7	5	175	1	0	1	0	1	0	0	0	0	8956	446	16	0	332	0	LRP2	2	169989165	Frame_Shift_Del	DEL	A	TCGA-B2-5635-01A-01D-1534-10	2	169989165	73210208	11	9712	142	2									
OGG1	4968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9792671	9792671	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactggagtggtgtactagcGgatcaagtatggacactgac	11	9	13	8	1	1	1	1	1	0	0	1	4	1	4	0	4	2	2	0	4	4	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	9792671	G	C	9792671	2	2	175	1	0	0	0	0	0	0	0	1	10845	1103	39	4		4	OGG1	3	9792671	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10		9792671	188229759	12	9713											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188287	10188287	+	Frame_Shift_Del	DEL	G	G	-																															tgccatctctcaatgttgacGgacagcctatttttgccaat																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	10188287	G	-	10188287	7	5	175	1	0	1	0	1	0	0	0	0	17161	1117	39	0	436	0	VHL	3	10188287	Frame_Shift_Del	DEL	G	TCGA-B2-5635-01A-01D-1534-10	395616	10188287	187834143	13	9714											
CADPS	8618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	62423832	62423832	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaccttatcacgcaggacatCctgagaatggcggacgaaag	13	6	12	10	3	1	1	1	1	0	1	2	6	2	3	2	3	0	1	2	3	3	1	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	62423832	C	G	62423832	3	3	175	1	0	0	0	0	1	0	0	0	2570	855	30	4	349	4	CADPS	3	62423832	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	52235545	62423832	135598598	14	9715											
KIAA2018	205717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113379615	113379615	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagttgctgaggagctgTgggggatgtttgtaacacaa	9	11	16	5	0	0	1	0	1	0	0	0	3	0	3	0	4	3	6	0	4	2	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	113379615	T	C	113379615	3	2	175	1	0	0	0	0	1	0	0	0	8268	1696	59	3	5827	3	KIAA2018	3	113379615	Missense_Mutation	SNP	T	TCGA-B2-5635-01A-01D-1534-10	50955783	113379615	84642815	15	9716											
EIF2A	83939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150264590	150264590	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctctttccgggacaacAtggcgccgtccacgccgctc	5	10	10	16	5	1	0	0	0	1	0	5	1	3	1	4	2	1	2	4	2	1	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	150264590	A	G	150264590	3	3	175	1	0	0	0	0	1	0	0	0	4995	217	8	3	3	3	EIF2A	3	150264590	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	36884975	150264590	47757840	16	9717											
MCCC1	56922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182759471	182759471	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttctgcatatattctaGcttcgaaggcatggccctgc	8	13	9	11	1	3	0	0	0	3	0	4	2	3	0	1	2	3	3	1	2	4	6	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	182759471	G	C	182759471	3	2	175	1	0	0	0	0	1	0	0	0	9374	971	34	4	1062	4	MCCC1	3	182759471	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	32494881	182759471	15262959	17	9718											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508167	195508167	+	Silent	SNP	G	G	A																															gtggatgctgaggaagtgctGgtgacaggaagaggggtggc																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	195508167	G	A	195508167	2	1	175	1	0	0	0	0	0	0	0	1	9978	1335	47	2		2	MUC4	3	195508167	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	12748696	195508167	2514263	18	9719	143	3									
MUC4	4585	hgsc.bcm.edu	37	chr3	195508175	195508175	+	Missense_Mutation	SNP	G	G	C																															tgaggaagtgctggtgacagGaagaggggtggcgtgacctg																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	195508175	G	C	195508175	3	2	175	1	0	0	0	0	1	0	0	0	9978	1174	41	4		4	MUC4	3	195508175	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	8	195508175	2514255	19	9720	143	3									
MUC4	4585	hgsc.bcm.edu	37	chr3	195508178	195508178	+	Missense_Mutation	SNP	G	G	C																															ggaagtgctggtgacaggaaGaggggtggcgtgacctgtgg																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	195508178	G	C	195508178	3	2	175	1	0	0	0	0	1	0	0	0	9978	942	33	4		4	MUC4	3	195508178	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	3	195508178	2514252	20	9721	143	3									
MUC4	4585	hgsc.bcm.edu	37	chr3	195514998	195515045	+	In_Frame_Del	DEL	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	-																															gcatcagtgacatgaagaggGgtggtgtgacctgtggatac																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	195515045	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	-	195514998	7	5	175	1	0	1	0	1	0	0	0	0	9978	1219	43	0		0	MUC4	3	195514998	In_Frame_Del	DEL	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	TCGA-B2-5635-01A-01D-1534-10	6820	195514998	2507432	21	9722											
ACOX3	8310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8418179	8418179	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggacgctcttgctcggtAggcatcgaggggccccctgg	6	7	16	12	3	1	0	0	0	1	0	3	3	1	1	2	6	1	4	2	6	2	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	8418179	A	G	8418179	3	3	175	1	0	0	0	0	1	0	0	0	160	420	15	3	2100	3	ACOX3	4	8418179	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10		8418179	182736097	22	9723											
SLIT2	9353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	20543097	20543097	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctcttggccaatcctttTaactgtaactgctacctggc	9	13	6	13	0	1	0	0	0	1	0	2	0	2	0	4	2	5	2	4	2	5	5	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	20543097	T	C	20543097	2	2	175	1	0	0	0	0	0	0	0	1	14742	1751	61	3		3	SLIT2	4	20543097	Silent	SNP	T	TCGA-B2-5635-01A-01D-1534-10	12124918	20543097	170611179	23	9724											
RBM47	54502	broad.mit.edu	37	chr4	40440590	40440590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagccgcggttcttgccGtcaaagtccatcatgaggcg	7	9	13	12	5	3	1	2	1	1	0	4	1	4	1	3	2	2	2	3	2	2	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	40440590	A	A	40440590	2	1	175	1	0	0	0	0	0	0	0	1	13143	1136	40	1		1	RBM47	4	40440590	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	19897493	40440590	150713686	24	9725											
DSPP	1834	hgsc.bcm.edu	37	chr4	88536934	88536934	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgatagcagtgacagcagCgatagcagtgacagcagcga	14	4	14	9	3	0	2	0	2	0	0	0	5	0	2	0	0	7	4	0	0	2	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	88536934	C	T	88536934	2	4	175	1	0	0	0	0	0	0	0	1	4782	767	27	1		1	DSPP	4	88536934	Silent	SNP	C	TCGA-B2-5635-01A-01D-1534-10	48096344	88536934	102617342	25	9726											
NDUFC1	4717	hgsc.bcm.edu	37	chr4	140216900	140216900	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacggccgctcgggagcCtggcgggggccagcagccgg	5	3	18	15	5	1	0	1	0	0	0	2	1	1	1	4	6	3	2	4	6	0	0	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	140216900	C	T	140216900	3	4	175	1	0	0	0	0	1	0	0	0	10289	681	24	2	189	2	NDUFC1	4	140216900	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	51679966	140216900	50937376	26	9727											
DNAH5	1767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	13719054	13719054	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgttggcaaatttaatggAcatctgaaggagtgtaatgg	13	12	12	4	1	1	1	0	1	1	0	2	3	1	3	0	4	0	3	0	4	4	4	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	13719054	A	C	13719054	3	2	175	1	0	0	0	0	1	0	0	0	4604	275	10	5	1470	5	DNAH5	5	13719054	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10		13719054	167196206	27	9728											
PPP2R2B	5521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	146070789	146070789	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctcgctgactttccacaGcttcacagttttatctgtag	8	14	7	12	2	2	1	1	1	1	0	4	1	3	1	1	0	1	5	1	0	2	5	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	146070789	G	T	146070789	3	4	175	1	0	0	0	0	1	0	0	0	12387	962	34	4	1006	4	PPP2R2B	5	146070789	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	132351735	146070789	34844471	28	9729											
C5orf25	0	broad.mit.edu	37	chr5	175717637	175717637	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcacttaccaggagacagGcctgactttacccagaatga	12	8	8	13	0	1	4	1	2	0	2	1	5	1	4	4	2	2	0	4	2	3	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	175717637	A	A	175717637	2	1	175	1	0	0	0	0	0	0	0	1	2288	1218	42	2		2	C5orf25	5	175717637	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	29646848	175717637	5197623	29	9730											
GCNT2	2651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	10621587	10621587	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttatcaacattgcaggtgTtcctggctctatgccaaatg	9	14	8	10	0	2	0	1	0	1	0	3	0	3	0	2	2	3	3	2	2	4	5	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	10621587	T	C	10621587	3	2	175	1	0	0	0	0	1	0	0	0	6301	1725	60	3	2787	3	GCNT2	6	10621587	Missense_Mutation	SNP	T	TCGA-B2-5635-01A-01D-1534-10		10621587	160493480	30	9731											
KIAA1586	57691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56917523	56917523	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaacgacagggtgattttTtgcattttttaaatgtgaag	13	15	9	4	1	0	2	0	2	0	0	0	3	0	2	0	1	2	1	0	1	5	6	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	56917523	T	A	56917523	3	1	175	1	0	0	0	0	1	0	0	0	8245	1838	64	5	240	5	KIAA1586	6	56917523	Missense_Mutation	SNP	T	TCGA-B2-5635-01A-01D-1534-10	46295936	56917523	114197544	31	9732											
DOPEY1	23033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	83872600	83872600	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgagaatttaaaccttacGtggtacgactagcaaaactt	16	10	7	8	3	0	1	0	0	0	1	0	3	0	1	1	1	6	2	1	1	9	6	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	83872600	G	C	83872600	3	2	175	1	0	0	0	0	1	0	0	0	4707	1145	40	4	7196	4	DOPEY1	6	83872600	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	26955077	83872600	87242467	32	9733											
AKR1B15	441282	broad.mit.edu;hgsc.bcm.edu	37	chr7	134261166	134261166	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagattgctgcaaagcacaAaaaaaccacagcccaggtac	17	4	9	11	0	0	1	0	0	0	1	0	2	0	1	2	2	6	4	2	2	5	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	134261166	A	G	134261166	3	3	175	1	0	0	0	0	1	0	0	0	468	14	1	3	835	3	AKR1B15	7	134261166	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10		134261166	24877497	33	9734											
ESCO2	157570	hgsc.bcm.edu;ucsc.edu	37	chr8	27634237	27634237	+	Frame_Shift_Del	DEL	A	A	-																															tctgctccaagaagaacaacAaaaaaccacagaagagttta																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	27634237	A	-	27634237	7	5	175	1	0	1	0	1	0	0	0	0	5249	131	5	0	418	0	ESCO2	8	27634237	Frame_Shift_Del	DEL	A	TCGA-B2-5635-01A-01D-1534-10		27634237	118729785	34	9735											
PLEKHA2	59339	hgsc.bcm.edu;ucsc.edu	37	chr8	38775478	38775479	+	Frame_Shift_Del	DEL	TG	TG	-																															tggatcggcagaaccgaatcTgtgggtttctggacatcgag																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	38775479	TG	-	38775478	7	5	175	1	0	1	0	1	0	0	0	0	12056	1580	55	0	33	0	PLEKHA2	8	38775478	Frame_Shift_Del	DEL	TG	TCGA-B2-5635-01A-01D-1534-10	11141241	38775478	107588544	35	9736											
KCNV2	169522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2729474	2729474	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaccgtgggctacggagAcatgtacccagagacccacc	10	5	10	16	2	0	2	0	0	0	2	1	4	1	2	5	2	2	2	5	2	2	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	2729474	A	G	2729474	3	3	175	1	0	0	0	0	1	0	0	0	8095	275	10	3	1391	3	KCNV2	9	2729474	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10		2729474	138483957	36	9737											
DAPK1	1612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	90258354	90258354	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcctgtccagaagtaacAtgagtgttgccagaagcgat	12	10	10	9	1	0	3	0	1	0	2	2	4	2	3	3	0	3	2	3	0	3	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	90258354	A	G	90258354	3	3	175	1	0	0	0	0	1	0	0	0	4235	217	8	3	1020	3	DAPK1	9	90258354	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	87528880	90258354	50955077	37	9738											
NEBL	10529	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	21158725	21158725	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatgtctggtcggtcaagttCtgcactgtacgtgtgggtgt	5	14	15	7	2	3	0	1	0	2	0	4	1	3	0	0	3	2	3	0	3	2	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	21158725	C	G	21158725	3	3	175	1	0	0	0	0	1	0	0	0	10303	922	32	4	2610	4	NEBL	10	21158725	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10		21158725	114376022	38	9739											
MYST4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	76790353	76790353	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgccagcaagggccacatctCcatgagaaccaagtcagcgt	12	6	10	13	1	2	1	1	1	1	1	3	2	2	1	4	1	4	1	4	1	3	0	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	76790353	C	G	76790353	3	3	175	1	0	0	0	0	1	0	0	0	10105	855	30	4	5833	4	MYST4	10	76790353	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	55631628	76790353	58744394	39	9740											
C10orf93	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	134743171	134743171	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactgcacggtgagcagcGcctcatccccaggcagcagt	9	5	11	16	2	1	1	1	1	0	0	2	1	2	1	4	2	5	4	4	2	1	0	rs149229934	byfrequency	TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	134743171	G	A	134743171	3	1	175	1	0	0	0	0	1	0	0	0	1625	1087	38	1	217	1	C10orf93	10	134743171	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	57952818	134743171	791576	40	9741											
CHRDL2	25884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	74413875	74413875	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaggtagatctccaccaagtCcgaggcctcgtgttccaggg	8	8	13	12	2	1	1	0	0	1	1	5	3	3	1	5	3	0	2	5	3	2	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	74413875	C	T	74413875	3	4	175	1	0	0	0	0	1	0	0	0	3374	855	30	2	287	2	CHRDL2	11	74413875	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10		74413875	60592641	41	9742											
AMOTL1	154810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94592715	94592715	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaatggccagccagccaAcatgccggaatacaatgccc	13	5	10	13	1	0	0	0	0	0	0	0	2	0	2	5	3	6	0	5	3	5	1	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	94592715	A	G	94592715	3	3	175	1	0	0	0	0	1	0	0	0	583	43	2	3	2004	3	AMOTL1	11	94592715	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	20178840	94592715	40413801	42	9743											
RDX	5962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	110124794	110124794	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatacataaggccaaaatcCgcttattgattctcagacga	14	10	6	11	2	1	2	1	1	1	1	3	3	2	2	3	1	1	1	3	1	5	5	rs150863373		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	110124794	C	T	110124794	3	4	175	1	0	0	0	0	1	0	0	0	13200	652	23	1	939	1	RDX	11	110124794	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	15532079	110124794	24881722	43	9744											
HYOU1	10525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118917418	118917418	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atactgcacctctcggtccaGggccatcatcttagcttcaa	9	11	7	14	1	4	0	2	0	2	0	6	0	5	0	3	2	3	2	3	2	3	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	118917418	G	A	118917418	2	1	175	1	0	0	0	0	0	0	0	1	7470	991	35	2		2	HYOU1	11	118917418	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	8792624	118917418	16089098	44	9745											
RTN1	6252	broad.mit.edu;ucsc.edu	37	chr14	60212848	60212848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcgggtctggttatgTcaatgtatttataggcctct	6	16	9	10	1	3	0	1	0	2	0	5	0	4	0	3	3	0	2	3	3	5	5	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	60212848	C	C	60212848	3	2	175	1	0	0	0	0	1	0	0	0	13727	1667	58	3	1834	3	RTN1	14	60212848	Missense_Mutation	SNP	T	TCGA-B2-5635-01A-01D-1534-10		60212848	47136692	45	9746											
PLA2G4F	255189	hgsc.bcm.edu;ucsc.edu	37	chr15	42437860	42437861	+	Frame_Shift_Ins	INS	-	-	A																															atctcatccaggctggtggcINSaaaggcgctgccccacatac																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	42437861	-	A	42437860	7	5	175	1	0	1	1	0	0	0	0	0	12006	710	25	0	876	0	PLA2G4F	15	42437860	Frame_Shift_Ins	INS	-	TCGA-B2-5635-01A-01D-1534-10		42437860	60093532	46	9747											
DUOXA1	90527	hgsc.bcm.edu;ucsc.edu	37	chr15	45409941	45409941	+	Frame_Shift_Del	DEL	C	C	-																															gtgcctcttcctcggaggggCcgtggtgagtctccagtatg																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		-	45409941	C	-	45409941	7	5	175	1	0	1	0	1	0	0	0	0	4802	739	26	0	231	0	DUOXA1	15	45409941	Frame_Shift_Del	DEL	C	TCGA-B2-5635-01A-01D-1534-10	2972081	45409941	57121451	47	9748											
TM6SF1	53346	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83805287	83805287	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaactgcttatgtctacAgagtccctgaagaagcaaaa	15	9	8	9	0	1	4	0	1	1	3	2	4	2	4	1	0	4	2	1	0	8	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	83805287	A	G	83805287	3	3	175	1	0	0	0	0	1	0	0	0	15971	180	7	3	1014	3	TM6SF1	15	83805287	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	38395346	83805287	18726105	48	9749											
IGF1R	3480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	99192876	99192876	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctgtttctctccgccgcGctctcgctctggccgacgag	2	11	10	18	6	3	0	0	0	3	0	7	2	5	0	4	1	0	3	4	1	0	1	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	99192876	G	A	99192876	2	1	175	1	0	0	0	0	0	0	0	1	7571	1074	38	1		1	IGF1R	15	99192876	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	15387589	99192876	3338516	49	9750											
IFT140	9742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1652468	1652468	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtgctgctccttgtccTgcttgttaaacaccgtcact	5	15	8	13	2	1	0	1	0	0	0	4	0	3	0	3	0	4	4	3	0	2	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	1652468	T	A	1652468	3	1	175	1	0	0	0	0	1	0	0	0	7556	1580	55	5	4228	5	IFT140	16	1652468	Missense_Mutation	SNP	T	TCGA-B2-5635-01A-01D-1534-10		1652468	88702285	50	9751											
TSNAXIP1	55815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67859889	67859889	+	Missense_Mutation	SNP	A	A	T																															tcctcatgcagctgcacatgAgcacgctgaaggaacgggac																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	67859889	A	T	67859889	3	4	175	1	0	0	0	0	1	0	0	0	16631	304	11	5	918	5	TSNAXIP1	16	67859889	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	66207421	67859889	22494864	51	9752	144	2									
TSNAXIP1	55815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67859890	67859890	+	Missense_Mutation	SNP	G	G	A																															cctcatgcagctgcacatgaGcacgctgaaggaacgggacc																								novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	67859890	G	A	67859890	3	1	175	1	0	0	0	0	1	0	0	0	16631	971	34	2	919	2	TSNAXIP1	16	67859890	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10	1	67859890	22494863	52	9753	144	2									
CBFA2T3	863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88945789	88945789	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgtggtgatgagctcGtgcgctttgcgctccgcgtc	2	11	14	14	7	0	2	0	2	0	0	4	2	2	2	2	1	3	4	2	1	0	1	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	88945789	G	A	88945789	2	1	175	1	0	0	0	0	0	0	0	1	2698	1136	40	1		1	CBFA2T3	16	88945789	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10	21085899	88945789	1408964	53	9754											
MBTD1	54799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	49279412	49279412	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaatgtggtggtgtatcaaAatgtccatcctgtttctttg	9	17	9	6	0	2	0	1	0	1	0	4	0	4	0	2	2	0	2	2	2	5	4	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	49279412	A	T	49279412	3	4	175	1	0	0	0	0	1	0	0	0	9360	14	1	5	824	5	MBTD1	17	49279412	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10		49279412	31915798	54	9755											
MED13	9969	broad.mit.edu;hgsc.bcm.edu	37	chr17	60072679	60072679	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaatttgatattgctgcActaattcatcagaaactttt	12	19	4	6	0	2	2	2	1	0	1	2	2	2	2	0	0	3	2	0	0	4	9	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	60072679	A	G	60072679	3	3	175	1	0	0	0	0	1	0	0	0	9430	159	6	3	4593	3	MED13	17	60072679	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	10793267	60072679	21122531	55	9756											
CD300C	10871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72537855	72537855	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggaccaggagcaggaagCggacattgctgaacagggag	14	3	17	7	1	0	2	0	1	0	1	0	7	0	7	1	5	4	2	1	5	2	1	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	72537855	C	G	72537855	3	3	175	1	0	0	0	0	1	0	0	0	2997	768	27	4	130	4	CD300C	17	72537855	Missense_Mutation	SNP	C	TCGA-B2-5635-01A-01D-1534-10	12465176	72537855	8657355	56	9757											
DSG1	1828	broad.mit.edu;ucsc.edu	37	chr18	28935225	28935225	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagttcctctgaccatcaCtttaaccaaaccattgggtc	11	11	7	12	0	2	1	1	1	1	0	4	2	3	2	4	2	2	1	4	2	2	4	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		T	28935225	T	T	28935225	2	4	175	1	0	0	0	0	0	0	0	1	4776	564	20	2		2	DSG1	18	28935225	Silent	SNP	C	TCGA-B2-5635-01A-01D-1534-10		28935225	49142023	57	9758											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9066178	9066178	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagagagctgggattttccaGagagggagagctttgccatg	10	9	16	6	0	0	3	0	0	0	3	1	8	1	4	2	2	3	2	2	2	0	3	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	9066178	G	C	9066178	3	2	175	1	0	0	0	0	1	0	0	0	9973	933	33	4	22583	4	MUC16	19	9066178	Missense_Mutation	SNP	G	TCGA-B2-5635-01A-01D-1534-10		9066178	50062805	58	9759											
ZNF433	163059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12125862	12125862	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtgagtccttccatgcAtttgaagtcgcgaggcacat	9	11	11	10	2	0	2	0	2	0	0	3	3	2	2	2	1	1	2	2	1	1	2	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		G	12125862	A	G	12125862	3	3	175	1	0	0	0	0	1	0	0	0	17906	217	8	3	205	3	ZNF433	19	12125862	Missense_Mutation	SNP	A	TCGA-B2-5635-01A-01D-1534-10	3059684	12125862	47003121	59	9760											
ZNF99	7652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	22952718	22952718	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagggcatgataacatgtaCatttttgagtgctattttta	12	17	8	4	0	0	2	0	2	0	0	0	2	0	2	0	1	3	3	0	1	5	9	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		A	22952718	C	A	22952718	5	1	175	1	0	0	0	0	0	0	1	0	18203	492	17	4	3073	4	ZNF99	19	22952718	Splice_Site	SNP	C	TCGA-B2-5635-01A-01D-1534-10	10826856	22952718	36176265	60	9761											
SLC5A3	6526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	35467806	35467806	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcatcccaatttacatccgGtcaggggtatataccatgcc	10	12	7	12	1	2	0	2	0	0	0	4	0	4	0	4	3	3	1	4	3	5	6	novel		TCGA-B2-5635-01A-01D-1534-10	TCGA-B2-5635-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c0fcca3b-00cb-44d0-ae4b-1cc7f6535759	26808e90-5813-4283-a5e4-7bc55b3141e2		C	35467806	G	C	35467806	2	2	175	1	0	0	0	0	0	0	0	1	14668	1248	44	4		4	SLC5A3	21	35467806	Silent	SNP	G	TCGA-B2-5635-01A-01D-1534-10		35467806	12662089	61	9762											
EIF4G3	8672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21226401	21226401	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatcttgttcagattcaagTactttgtcaatggaaagctc	11	16	7	7	0	4	1	3	0	1	1	5	2	4	2	0	1	2	3	0	1	5	6	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	21226401	T	C	21226401	2	2	176	1	0	0	0	0	0	0	0	1	5038	1625	57	3		3	EIF4G3	1	21226401	Silent	SNP	T	TCGA-B2-5641-01A-01D-1534-10		21226401	228024220	1	9763											
C8B	732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	57415368	57415368	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattttctctgtgacattgcGttcaaaatctgagtatgatt	10	17	7	7	1	3	3	1	3	2	0	4	3	3	3	0	0	1	2	0	0	3	6	rs150146785	bycluster;byfrequency;by1000genomes	TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	57415368	G	A	57415368	3	1	176	1	0	0	0	0	1	0	0	0	2417	1145	40	1	1079	1	C8B	1	57415368	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	36188967	57415368	191835253	2	9764											
SLC44A3	126969	broad.mit.edu;ucsc.edu	37	chr1	95286513	95286513	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttctggaaggtttctgcAgaaggagcccctaggcaaag	10	11	12	8	0	2	1	0	0	2	1	2	3	2	3	2	4	2	3	2	4	4	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	95286513	G	G	95286513	2	3	176	1	0	0	0	0	0	0	0	1	14639	175	7	3		3	SLC44A3	1	95286513	Silent	SNP	A	TCGA-B2-5641-01A-01D-1534-10	37871145	95286513	153964108	3	9765											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201029869	201029869	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggtgacaatgtaccacaCctggtactggtatgggtttt	9	12	13	7	0	0	1	0	1	0	0	0	2	0	2	2	5	2	4	2	5	4	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	201029869	C	T	201029869	3	4	176	1	0	0	0	0	1	0	0	0	2547	507	18	2	2366	2	CACNA1S	1	201029869	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	105743356	201029869	48220752	4	9766											
SPRED2	200734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	65541212	65541212	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgccggtaatcctcgtacCccgtcatccagatcttctcc	6	11	7	17	4	3	1	1	0	2	1	7	1	5	1	6	1	2	2	6	1	2	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	65541212	C	T	65541212	3	4	176	1	0	0	0	0	1	0	0	0	15094	623	22	2	580	2	SPRED2	2	65541212	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10		65541212	177658161	5	9767											
FBXO41	150726	broad.mit.edu;hgsc.bcm.edu	37	chr2	73496700	73496700	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcagcgacgacaggctcCggaagcgcttgtgctccccg	6	5	14	16	7	0	0	0	0	0	0	2	3	2	1	3	2	3	4	3	2	1	1	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	73496700	C	T	73496700	3	4	176	1	0	0	0	0	1	0	0	0	5750	652	23	1	2616	1	FBXO41	2	73496700	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	7955488	73496700	169702673	6	9768											
MAP3K2	10746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128066323	128066323	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgttgcctgttgaatctCgcaggatatttgcgcctaaa	9	13	10	9	3	1	2	0	2	1	0	2	3	1	3	2	1	2	3	2	1	4	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	128066323	C	A	128066323	3	1	176	1	0	0	0	0	1	0	0	0	9250	884	31	4	395	4	MAP3K2	2	128066323	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	54569623	128066323	115133050	7	9769											
SCN7A	6332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	167328884	167328884	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcaccgaggaaggaaaatGatcctgcccagacacctctt	13	7	9	12	1	2	2	1	1	1	1	3	6	3	4	4	2	1	0	4	2	3	1	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	167328884	G	A	167328884	3	1	176	1	0	0	0	0	1	0	0	0	13925	1294	45	2	4617	2	SCN7A	2	167328884	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	39262561	167328884	75870489	8	9770											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179439168	179439168	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcaatcacccggaactcAtaagcaataccatctgtaag	14	9	6	12	1	4	0	2	0	2	0	4	1	4	1	2	1	4	3	2	1	6	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	179439168	A	C	179439168	4	2	176	1	0	0	0	0	0	1	0	0	16734	224	8	5	36436	5	TTN	2	179439168	Nonsense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	12110284	179439168	63760205	9	9771											
PDE6B	5158	broad.mit.edu;ucsc.edu	37	chr4	649741	649741	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacagcacaccctcagcCgatcactgggccctggccag	8	4	10	19	1	2	0	2	0	0	0	2	1	2	0	5	2	2	1	5	2	0	0	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	649741	G	G	649741	2	3	176	1	0	0	0	0	0	0	0	1	11646	639	23	4		4	PDE6B	4	649741	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10		649741	190504535	10	9772											
PGM2	55276	broad.mit.edu;ucsc.edu	37	chr4	37839173	37839173	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccgacttgctgcaaccAcatttatcagtcaggggatt	9	12	9	11	1	2	0	2	0	0	0	2	2	2	1	2	2	4	2	2	2	2	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	37839173	G	G	37839173	3	3	176	1	0	0	0	0	1	0	0	0	11798	159	6	3	393	3	PGM2	4	37839173	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	37189432	37839173	153315103	11	9773											
CENPC1	1060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68358686	68358686	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tttagacgatattgtgtctgGagatagtactccactaatca	12	14	8	7	1	2	2	1	0	1	2	3	4	3	2	1	1	1	1	1	1	5	7	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	68358686	G	C	68358686	3	2	176	1	0	0	0	0	1	0	0	0	3229	1174	41	4	531	4	CENPC1	4	68358686	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	30519513	68358686	122795590	12	9774											
KIAA1109	84162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	123150305	123150305	+	Silent	SNP	T	T	C																															attcctgggccttgtccaacTtcagatgatttgaaatatac																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	123150305	T	C	123150305	2	2	176	1	0	0	0	0	0	0	0	1	8208	1596	56	3		3	KIAA1109	4	123150305	Silent	SNP	T	TCGA-B2-5641-01A-01D-1534-10	54791619	123150305	68003971	13	9775	145	2									
KIAA1109	84162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	123150307	123150307	+	Nonsense_Mutation	SNP	C	C	A																															tcctgggccttgtccaacttCagatgatttgaaatatacta																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	123150307	C	A	123150307	4	1	176	1	0	0	0	0	0	1	0	0	8208	838	29	4	3044	4	KIAA1109	4	123150307	Nonsense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	2	123150307	68003969	14	9776	145	2									
FNIP2	57600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159789573	159789573	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gagagacacaacccctggccGacagggtttcctgagtgccc	9	6	12	14	1	0	2	0	1	0	1	1	5	1	2	5	2	2	1	5	2	1	1	rs143166945	by1000genomes;alternate_allele	TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	159789573	G	C	159789573	2	2	176	1	0	0	0	0	0	0	0	1	5976	1045	37	4		4	FNIP2	4	159789573	Silent	SNP	G	TCGA-B2-5641-01A-01D-1534-10	36639266	159789573	31364703	15	9777											
SNX25	83891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	186244946	186244946	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cacagatgatttccaacaagGatgagatggtgagtcacatt	14	10	10	7	0	1	4	1	3	0	2	2	6	2	5	1	2	1	0	1	2	2	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	186244946	G	A	186244946	3	1	176	1	0	0	0	0	1	0	0	0	14898	1174	41	2	1279	2	SNX25	4	186244946	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	26455373	186244946	4909330	16	9778											
SLC12A7	10723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1065466	1065466	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccaggccatgagcaccGtgttgtgcttcaggccgccc	5	7	14	15	3	1	1	1	1	0	0	1	1	1	1	5	3	2	3	5	3	0	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	1065466	G	A	1065466	3	1	176	1	0	0	0	0	1	0	0	0	14390	1145	40	1	910	1	SLC12A7	5	1065466	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10		1065466	179849794	17	9779											
DDX4	54514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55086409	55086409	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttgttaataggacttGtgtaagagctgttgttatat	9	20	9	3	0	1	1	0	0	1	1	1	2	1	2	0	1	1	5	0	1	5	10	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	55086409	G	A	55086409	3	1	176	1	0	0	0	0	1	0	0	0	4360	1377	48	2	1277	2	DDX4	5	55086409	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	54020943	55086409	125828851	18	9780											
FBN2	2201	hgsc.bcm.edu;ucsc.edu	37	chr5	127647000	127647000	+	Frame_Shift_Del	DEL	A	A	-																															aattcatctcaccttcacagAtgcgggtatcctcgctgagg																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		-	127647000	A	-	127647000	7	5	176	1	0	1	0	1	0	0	0	0	5703	333	12	0	3780	0	FBN2	5	127647000	Frame_Shift_Del	DEL	A	TCGA-B2-5641-01A-01D-1534-10	72560591	127647000	53268260	19	9781											
FAM13B	51306	broad.mit.edu;ucsc.edu	37	chr5	137278882	137278882	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attggctgtaacatctgaccCcttcgcttggtggatggaga	8	12	12	9	1	1	2	0	1	1	1	2	4	1	3	2	4	1	3	2	4	1	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	137278882	T	T	137278882	2	4	176	1	0	0	0	0	0	0	0	1	5453	622	22	2		2	FAM13B	5	137278882	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10	9631882	137278882	43636378	20	9782											
KIF20A	10112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137519224	137519224	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaaaagtgggtcgtaagAaccagagctttgccagcacc	12	8	10	11	1	0	2	0	0	0	2	2	2	1	2	4	1	4	3	4	1	4	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	137519224	A	G	137519224	3	3	176	1	0	0	0	0	1	0	0	0	8286	246	9	3	1123	3	KIF20A	5	137519224	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	240342	137519224	43396036	21	9783											
PCDHB8	56128	broad.mit.edu	37	chr5	140559035	140559035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccctgcacatcggcagcGtcagcgccacagacagagac	10	3	11	17	4	1	2	1	0	0	2	2	3	1	2	3	1	3	2	3	1	0	0	rs149925643	alternate_allele	TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	140559035	A	A	140559035	3	1	176	1	0	0	0	0	1	0	0	0	11548	1145	40	1	1422	1	PCDHB8	5	140559035	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	3039811	140559035	40356225	22	9784											
BTNL3	10917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180432814	180432814	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaccctatatccagcatgCgatgtatgacgaggaaaagg	14	7	12	8	2	0	2	0	1	0	1	1	6	1	3	2	2	2	2	2	2	5	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	180432814	C	T	180432814	3	4	176	1	0	0	0	0	1	0	0	0	1566	768	27	1	1373	1	BTNL3	5	180432814	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	39873779	180432814	482446	23	9785											
DAXX	1616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33287883	33287883	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttcagaatctgtggccTcctcctcttcttcttcctcc	3	16	4	18	0	6	1	1	0	5	1	10	1	10	1	6	1	0	0	6	1	1	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	33287883	T	A	33287883	3	1	176	1	0	0	0	0	1	0	0	0	4243	1551	54	5	868	5	DAXX	6	33287883	Missense_Mutation	SNP	T	TCGA-B2-5641-01A-01D-1534-10		33287883	137827184	24	9786											
CLDN12	9069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	90042424	90042424	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctatttttcctggcaggtaCtgtgagcctctccccatcta	6	14	8	13	0	2	1	0	1	2	0	4	1	3	1	4	2	2	3	4	2	3	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	90042424	C	G	90042424	3	3	176	1	0	0	0	0	1	0	0	0	3474	565	20	4	436	4	CLDN12	7	90042424	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10		90042424	69096239	25	9787											
PUS7	54517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	105111238	105111238	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagttttctgagggcagcaGttgggtctttggtctttgcc	4	16	14	7	0	3	1	0	1	3	0	3	1	3	1	1	3	2	5	1	3	1	6	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	105111238	G	A	105111238	3	1	176	1	0	0	0	0	1	0	0	0	12835	1029	36	2	714	2	PUS7	7	105111238	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	15068814	105111238	54027425	26	9788											
CADPS2	93664	hgsc.bcm.edu;ucsc.edu	37	chr7	122114547	122114547	+	Frame_Shift_Del	DEL	C	C	-																															cagaaataaactcatccataCcatgtttctgaaaacgatct																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		-	122114547	C	-	122114547	7	5	176	1	0	1	0	1	0	0	0	0	2571	507	18	0	2120	0	CADPS2	7	122114547	Frame_Shift_Del	DEL	C	TCGA-B2-5641-01A-01D-1534-10	17003309	122114547	37024116	27	9789											
DNAJB6	10049	hgsc.bcm.edu	37	chr7	157160099	157160100	+	Frame_Shift_Ins	INS	-	-	GA																															tgacagtccatttgaatttgINSgcttcacattccgtaaccca																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		GA	157160100	-	GA	157160099	7	5	176	1	0	1	1	0	0	0	0	0	4624	1348	47	0	282	0	DNAJB6	7	157160099	Frame_Shift_Ins	INS	-	TCGA-B2-5641-01A-01D-1534-10	35045552	157160099	1978564	28	9790											
PSD3	23362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	18662289	18662289	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcgtttggccaaccttttgGctgcttccacattgctgctg	4	14	11	12	1	0	0	0	0	0	0	1	0	1	0	3	3	4	5	3	3	1	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	18662289	G	A	18662289	3	1	176	1	0	0	0	0	1	0	0	0	12650	1203	42	2	1437	2	PSD3	8	18662289	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10		18662289	127701733	29	9791											
ADAMDEC1	27299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	24242084	24242084	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcctgctgcctgtacttTggctcattgttcaaactcaa	7	14	9	11	0	3	0	3	0	0	0	4	0	4	0	2	2	4	4	2	2	3	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	24242084	T	C	24242084	3	2	176	1	0	0	0	0	1	0	0	0	254	1812	63	3	69	3	ADAMDEC1	8	24242084	Missense_Mutation	SNP	T	TCGA-B2-5641-01A-01D-1534-10	5579795	24242084	122121938	30	9792											
XKR4	114786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	56436104	56436104	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactgtgagacagaattctGtatcaccaaatgggaagaga	15	8	10	8	0	2	3	1	1	1	3	2	6	2	4	2	1	0	1	2	1	4	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	56436104	G	T	56436104	3	4	176	1	0	0	0	0	1	0	0	0	17432	1377	48	4	1281	4	XKR4	8	56436104	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	32194020	56436104	89927918	31	9793											
PKHD1L1	93035	broad.mit.edu	37	chr8	110445335	110445335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttaaattgatcatttttagGgtcctatgaagaaggcacaa	14	14	8	5	0	1	3	1	2	0	1	2	3	2	3	1	2	0	1	1	2	7	7	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	110445335	A	A	110445335	3	1	176	1	0	0	0	0	1	0	0	0	11972	1246	43	2	3340	2	PKHD1L1	8	110445335	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	54009231	110445335	35918687	32	9794											
TEK	7010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	27202840	27202840	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcctcctcaaccagaaaaCatcaagatttccaacattac	15	10	2	14	0	2	2	2	0	0	2	5	2	5	2	4	0	4	0	4	0	6	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	27202840	C	G	27202840	3	3	176	1	0	0	0	0	1	0	0	0	15750	477	17	4	1982	4	TEK	9	27202840	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10		27202840	114010591	33	9795											
ABL1	25	broad.mit.edu	37	chr9	133589643	133589643	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatatgccatttccctctaCgctcgctgaccgttctggaa	7	13	8	13	3	2	1	0	1	2	0	4	2	3	2	3	1	2	4	3	1	4	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	133589643	T	T	133589643	1	4	176	1	0	0	0	0	0	0	0	0	92	551	19	1		1	ABL1	9	133589643	Translation_Start_Site	SNP	C	TCGA-B2-5641-01A-01D-1534-10	106386803	133589643	7623788	34	9796											
YME1L1	10730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27420850	27420850	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctactgcagaatcaagccCtgttgttgtccggaagcgga	10	10	11	10	2	2	1	1	0	1	1	3	3	3	3	2	2	4	3	2	2	4	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	27420850	C	G	27420850	3	3	176	1	0	0	0	0	1	0	0	0	17486	681	24	4	1402	4	YME1L1	10	27420850	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10		27420850	108113897	35	9797											
ANKRD30A	91074	broad.mit.edu;hgsc.bcm.edu	37	chr10	37422855	37422855	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattttagcacagccctcaTgcttgctgtatgtcatggat	8	16	8	9	0	2	0	2	0	0	0	2	1	2	1	1	1	4	4	1	1	3	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	37422855	T	G	37422855	3	3	176	1	0	0	0	0	1	0	0	0	658	1464	51	5	479	5	ANKRD30A	10	37422855	Missense_Mutation	SNP	T	TCGA-B2-5641-01A-01D-1534-10	10002005	37422855	98111892	36	9798											
BMS1	9790	broad.mit.edu	37	chr10	43288427	43288427	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagattttgccgtgagTgacatcagtttcctcccaga	9	12	11	9	1	1	4	1	2	0	2	3	5	3	4	3	1	1	2	3	1	1	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	43288427	C	C	43288427	2	2	176	1	0	0	0	0	0	0	0	1	1472	1693	59	3		3	BMS1	10	43288427	Silent	SNP	T	TCGA-B2-5641-01A-01D-1534-10	5865572	43288427	92246320	37	9799											
LDB3	11155	broad.mit.edu	37	chr10	88476170	88476170	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccctgcctacacccccTcccctgcccctgcctacacc	4	7	4	26	0	0	0	0	0	0	0	1	0	1	0	11	0	6	0	11	0	2	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	88476170	C	C	88476170	3	2	176	1	0	0	0	0	1	0	0	0	8697	1551	54	3	1688	3	LDB3	10	88476170	Missense_Mutation	SNP	T	TCGA-B2-5641-01A-01D-1534-10	45187743	88476170	47058577	38	9800											
SLK	9748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105750469	105750469	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtgttttagctgctgcaAaagtgattgacactaaatct	12	13	8	8	0	1	2	0	2	1	0	1	2	1	2	1	0	3	4	1	0	5	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	105750469	A	G	105750469	3	3	176	1	0	0	0	0	1	0	0	0	14750	15	1	3	193	3	SLK	10	105750469	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	17274299	105750469	29784278	39	9801											
OR6A2	8590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6816240	6816240	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atagcgtccagcagccgaagGaatgtgcatcacagcaccag	13	5	11	12	2	1	0	1	0	0	0	2	2	2	1	3	1	5	3	3	1	3	1	rs2741745		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	6816240	G	A	6816240	3	1	176	1	0	0	0	0	1	0	0	0	11186	1174	41	2	287	2	OR6A2	11	6816240	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10		6816240	128190276	40	9802											
BCL9L	283149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118774132	118774132	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgggacccagctgtggggCcgccatggctgggtctgcta	4	7	17	13	2	1	0	0	0	1	0	1	1	1	1	4	5	2	3	4	5	1	1	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	118774132	C	A	118774132	3	1	176	1	0	0	0	0	1	0	0	0	1382	739	26	4	3957	4	BCL9L	11	118774132	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	111957892	118774132	16232384	41	9803											
C12orf35	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32134405	32134405	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcagatgatcccttctaaTtctacacgacttcctgtagc	10	13	6	12	1	2	2	0	1	2	1	4	3	4	2	2	0	3	2	2	0	3	6	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	32134405	T	C	32134405	2	2	176	1	0	0	0	0	0	0	0	1	1682	1490	52	3		3	C12orf35	12	32134405	Silent	SNP	T	TCGA-B2-5641-01A-01D-1534-10		32134405	101717490	42	9804											
OR9K2	441639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55523606	55523606	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttgccctgtgcctctcaAcaggtttctaccatgggtga	7	14	9	11	0	2	1	1	1	2	0	3	1	2	1	3	2	4	1	3	2	2	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	55523606	A	G	55523606	2	3	176	1	0	0	0	0	0	0	0	1	11254	40	2	3		3	OR9K2	12	55523606	Silent	SNP	A	TCGA-B2-5641-01A-01D-1534-10	23389201	55523606	78328289	43	9805											
DNAJC14	85406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56216895	56216895	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacacatcatagtattcatTgcctccttgaggtcatcttg	9	15	6	11	0	4	1	3	1	1	0	5	1	5	1	2	1	2	1	2	1	3	7	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	56216895	T	C	56216895	2	2	176	1	0	0	0	0	0	0	0	1	4633	1799	63	3		3	DNAJC14	12	56216895	Silent	SNP	T	TCGA-B2-5641-01A-01D-1534-10	693289	56216895	77635000	44	9806											
GNPTAB	79158	hgsc.bcm.edu;ucsc.edu	37	chr12	102158580	102158580	+	Frame_Shift_Del	DEL	T	T	-																															ttgagactcaactgggcgtcTtttggaaggagtgaaatatt																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		-	102158580	T	-	102158580	7	5	176	1	0	1	0	1	0	0	0	0	6545	1606	56	0	1691	0	GNPTAB	12	102158580	Frame_Shift_Del	DEL	T	TCGA-B2-5641-01A-01D-1534-10	45941685	102158580	31693315	45	9807											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32900684	32900684	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaagtctaggagctgaggtgGatcctgatatgtcttggtca	10	12	13	6	0	3	2	1	2	2	0	4	4	4	4	1	4	1	1	1	4	3	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	32900684	G	C	32900684	3	2	176	1	0	0	0	0	1	0	0	0	1499	1174	41	4	587	4	BRCA2	13	32900684	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10		32900684	82269194	46	9808											
KIAA0564	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42461433	42461433	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactggcaagcccaaggcaAtcactcggaaattttcacta	13	8	8	12	1	2	0	2	0	0	0	3	1	2	1	1	3	1	3	1	3	5	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	42461433	A	G	42461433	3	3	176	1	0	0	0	0	1	0	0	0	8185	101	4	3	5165	3	KIAA0564	13	42461433	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	9560749	42461433	72708445	47	9809											
KIAA0586	9786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58954685	58954685	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctccagcggcggcagttTttaccccaactttgtcagat	7	12	8	14	2	1	1	1	0	0	1	3	1	3	1	4	2	3	2	4	2	2	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	58954685	T	G	58954685	3	3	176	1	0	0	0	0	1	0	0	0	8186	1841	64	5	3243	5	KIAA0586	14	58954685	Missense_Mutation	SNP	T	TCGA-B2-5641-01A-01D-1534-10		58954685	48394855	48	9810											
PROX2	283571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75329252	75329252	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaccaaagagaaaggcAgtgcctccatgacagcatgc	13	6	12	10	0	0	2	0	1	0	1	1	4	1	3	3	2	3	2	3	2	2	0	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	75329252	A	C	75329252	3	2	176	1	0	0	0	0	1	0	0	0	12563	188	7	5	508	5	PROX2	14	75329252	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	16374567	75329252	32020288	49	9811											
MYO5A	4644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52645836	52645836	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attccagttctgcacctctaAtttgtggtctttcttcttcc	5	19	5	12	0	5	0	0	0	5	0	7	0	7	0	3	1	1	2	3	1	1	7	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	52645836	A	C	52645836	3	2	176	1	0	0	0	0	1	0	0	0	10078	101	4	5	2040	5	MYO5A	15	52645836	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10		52645836	49885556	50	9812											
MNS1	55329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56735643	56735643	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacttttagcttgctcttAtatatttcagcttgttcttc	6	22	4	9	0	3	0	1	0	2	0	4	0	3	0	0	0	4	4	0	0	5	11	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	56735643	A	C	56735643	4	2	176	1	0	0	0	0	0	1	0	0	9677	456	16	5	507	5	MNS1	15	56735643	Nonsense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	4089807	56735643	45795749	51	9813											
FUS	2521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31193930	31193930	+	Silent	SNP	G	G	A																															agtggttatagccagtccacGgacacttcaggctatggcca																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	31193930	G	A	31193930	2	1	176	1	0	0	0	0	0	0	0	1	6100	1103	39	1		1	FUS	16	31193930	Silent	SNP	G	TCGA-B2-5641-01A-01D-1534-10		31193930	59160823	52	9814	146	2									
FUS	2521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31193931	31193931	+	Missense_Mutation	SNP	G	G	C																															gtggttatagccagtccacgGacacttcaggctatggccag																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	31193931	G	C	31193931	3	2	176	1	0	0	0	0	1	0	0	0	6100	1174	41	4	146	4	FUS	16	31193931	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	1	31193931	59160822	53	9815	146	2									
KATNB1	10300	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57785950	57785950	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaacgagtacctcctggcCtccggcagctctgacaggtg	7	7	11	16	2	1	1	0	1	1	0	3	2	3	1	5	3	3	3	5	3	2	1	rs141576914	alternate_allele	TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	57785950	C	T	57785950	2	4	176	1	0	0	0	0	0	0	0	1	7987	668	24	2		2	KATNB1	16	57785950	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10	26592019	57785950	32568803	54	9816											
SPNS3	201305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4389784	4389784	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcagcagagcttcctgtgCtgcgcctttgtcatcgccct	4	12	10	15	2	1	1	1	0	0	1	3	1	2	1	3	0	5	4	3	0	0	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	4389784	C	T	4389784	2	4	176	1	0	0	0	0	0	0	0	1	15077	805	28	2		2	SPNS3	17	4389784	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10		4389784	76805426	55	9817											
TOM1L2	146691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	17810845	17810845	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagccatctgttgcctttTctgtgaaatcagagagaaaa	12	11	11	7	0	3	3	1	1	2	2	3	5	3	4	2	1	2	1	2	1	3	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	17810845	T	A	17810845	3	1	176	1	0	0	0	0	1	0	0	0	16352	1797	62	5	1526	5	TOM1L2	17	17810845	Missense_Mutation	SNP	T	TCGA-B2-5641-01A-01D-1534-10	13421061	17810845	63384365	56	9818											
HOXB4	3214	broad.mit.edu;ucsc.edu	37	chr17	46654168	46654168	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgagcggatcttggtgttGggcaacttgtggtctttttt	4	16	13	8	2	2	0	0	0	2	0	2	2	2	1	1	4	2	2	1	4	1	6	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	46654168	C	C	46654168	2	2	176	1	0	0	0	0	0	0	0	1	7303	1335	47	4		4	HOXB4	17	46654168	Silent	SNP	G	TCGA-B2-5641-01A-01D-1534-10	28843323	46654168	34541042	57	9819											
MED13	9969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60140520	60140520	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaggtctttgatctcgcCgccaaacaccaagtacatct	10	11	6	14	2	3	1	0	1	3	0	5	1	4	1	4	1	2	1	4	1	3	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	60140520	C	T	60140520	3	4	176	1	0	0	0	0	1	0	0	0	9430	652	23	1	6431	1	MED13	17	60140520	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	13486352	60140520	21054690	58	9820											
RTTN	25914	hgsc.bcm.edu;ucsc.edu	37	chr18	67871409	67871411	+	In_Frame_Del	DEL	CAG	CAG	-																															atccagaatgccatcaatttCagcctgcagatttggctcca																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		-	67871411	CAG	-	67871409	7	5	176	1	0	1	0	1	0	0	0	0	13739	835	29	0	6558	0	RTTN	18	67871409	In_Frame_Del	DEL	CAG	TCGA-B2-5641-01A-01D-1534-10		67871409	10205839	59	9821	147	2									
RTTN	25914	hgsc.bcm.edu	37	chr18	67871413	67871413	+	Silent	SNP	C	C	T																															agaatgccatcaatttcagcCtgcagatttggctccacatt																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	67871413	C	T	67871413	2	4	176	1	0	0	0	0	0	0	0	1	13739	680	24	2		2	RTTN	18	67871413	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10	4	67871413	10205835	60	9822	147	2									
CYB5A	1528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	71930704	71930704	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttaaaacttcttccccAccaggatgctgttcaaagga	11	11	6	13	0	2	0	1	0	1	0	4	2	4	2	4	2	2	2	4	2	3	4	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	71930704	A	G	71930704	2	3	176	1	0	0	0	0	0	0	0	1	4122	146	6	3		3	CYB5A	18	71930704	Silent	SNP	A	TCGA-B2-5641-01A-01D-1534-10	4059291	71930704	6146544	61	9823											
PRR22	163154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5784427	5784427	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacctctttctctgggtctgGgggatgatacaggttcaagg	7	12	13	9	0	4	1	1	1	3	0	5	2	4	2	1	5	1	1	1	5	2	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	5784427	G	T	5784427	3	4	176	1	0	0	0	0	1	0	0	0	12595	1232	43	4	1122	4	PRR22	19	5784427	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10		5784427	53344556	62	9824											
SYDE1	85360	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15223181	15223181	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgacgcttctcctggacCacctgcgcctcgtctcctcc	3	10	8	20	4	2	1	0	1	2	0	6	2	3	2	6	1	1	2	6	1	0	1	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	15223181	C	A	15223181	3	1	176	1	0	0	0	0	1	0	0	0	15434	594	21	4	1629	4	SYDE1	19	15223181	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	9438754	15223181	43905802	63	9825											
ZNF714	148206	broad.mit.edu;hgsc.bcm.edu	37	chr19	21300510	21300510	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgtgaagaatgtggcaAagcctttaatgtgtcttcac	13	12	9	7	0	2	2	1	1	1	1	2	2	2	2	1	1	1	1	1	1	5	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	21300510	A	G	21300510	3	3	176	1	0	0	0	0	1	0	0	0	18117	14	1	3	1050	3	ZNF714	19	21300510	Missense_Mutation	SNP	A	TCGA-B2-5641-01A-01D-1534-10	6077329	21300510	37828473	64	9826											
ZNF180	7733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45004270	45004270	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccgcttccagcttcccgcGtagaccctgcgcatgcgcgc	5	7	10	19	6	0	1	0	0	0	1	2	1	2	1	4	0	3	4	4	0	1	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	45004270	G	A	45004270	3	1	176	1	0	0	0	0	1	0	0	0	17747	1145	40	1	2075	1	ZNF180	19	45004270	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	23703760	45004270	14124713	65	9827											
PPFIA3	8541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49641602	49641602	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcaccacctctacccttgCcagcccctcccctcccagct	5	8	3	25	0	2	0	1	0	1	0	4	0	4	0	10	0	4	1	10	0	1	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	49641602	C	T	49641602	3	4	176	1	0	0	0	0	1	0	0	0	12311	739	26	2	2052	2	PPFIA3	19	49641602	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10	4637332	49641602	9487381	66	9828											
MACROD2	140733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	15967710	15967710	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catctgtctcattctatttaGaactttcatcaaaccaagaa	14	14	3	10	0	5	2	3	0	3	2	6	2	5	2	1	0	2	0	1	0	6	5	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		C	15967710	G	C	15967710	5	2	176	1	0	0	0	0	0	0	1	0	9146	956	33	4	1118	4	MACROD2	20	15967710	Splice_Site	SNP	G	TCGA-B2-5641-01A-01D-1534-10		15967710	47057810	67	9829											
LBP	3929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	36978015	36978015	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacgctgcctgacttcacCggggacttgaggatccccca	8	8	10	15	2	2	2	2	2	0	0	3	4	3	4	4	3	1	1	4	3	0	2	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	36978015	C	T	36978015	2	4	176	1	0	0	0	0	0	0	0	1	8651	639	23	1		1	LBP	20	36978015	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10	21010305	36978015	26047505	68	9830											
EFCAB6	64800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	44004465	44004465	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgccattgccctcattatCggtttctagaaaattctaca	12	14	5	10	1	3	1	1	0	2	1	4	1	3	1	2	1	3	1	2	1	6	6	rs55698170	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		A	44004465	C	A	44004465	3	1	176	1	0	0	0	0	1	0	0	0	4939	884	31	4	1971	4	EFCAB6	22	44004465	Missense_Mutation	SNP	C	TCGA-B2-5641-01A-01D-1534-10		44004465	7300101	69	9831											
KDM5C	8242	hgsc.bcm.edu;ucsc.edu	37	chrX	53247129	53247135	+	Frame_Shift_Del	DEL	CCACCTT	CCACCTT	-																															ccttgcagatagcttcataaCcaccttcctccaccacaatc																								novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	CCACCTT	CCACCTT	CCACCTT	-	CCACCTT	CCACCTT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		-	53247135	CCACCTT	-	53247129	7	5	176	1	0	1	0	1	0	0	0	0	8135	507	18	0	4501	0	KDM5C	23	53247129	Frame_Shift_Del	DEL	CCACCTT	TCGA-B2-5641-01A-01D-1534-10		53247129	102023431	70	9832			1	11		2	2	15	N	CCACCTT_C	3.165658e-05
KDM5C	8242	ucsc.edu	37	chrX	53247143	53247143	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataaccaccttcctccacCacaatctgaaaaaacaagta	17	8	2	14	0	2	1	1	1	1	0	4	1	4	1	5	0	2	1	5	0	7	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	C	G	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		G	53247143	C	G	53247143	2	3	176	1	0	0	0	0	0	0	0	1	8135	581	21	4		4	KDM5C	23	53247143	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10	14	53247143	102023417	71	9833			1	11		2	2	15	N	CCACCTT_C	3.165658e-05
PHF8	23133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54044120	54044120	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgttcaacatccctcacaGtgaatgatggcgagggcagc	11	8	12	10	1	2	2	2	2	0	0	3	3	3	2	1	2	2	2	1	2	2	1	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	54044120	G	T	54044120	3	4	176	1	0	0	0	0	1	0	0	0	11840	1029	36	4	2888	4	PHF8	23	54044120	Missense_Mutation	SNP	G	TCGA-B2-5641-01A-01D-1534-10	796977	54044120	101226440	72	9834											
IGSF1	3547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	130410026	130410026	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctatagttcccagagtcCtctgctccaacagtgtggag	9	10	10	12	0	1	1	0	0	1	1	4	2	4	2	3	1	3	3	3	1	3	3	novel		TCGA-B2-5641-01A-01D-1534-10	TCGA-B2-5641-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b49d3bb5-74fe-4ff0-9b47-131bcb455855	d7319ab4-8498-4599-aad8-54ab2174c541		T	130410026	C	T	130410026	2	4	176	1	0	0	0	0	0	0	0	1	7596	680	24	2		2	IGSF1	23	130410026	Silent	SNP	C	TCGA-B2-5641-01A-01D-1534-10	76365906	130410026	24860534	73	9835											
AGMAT	79814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	15909873	15909873	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcactgattcttcccggAtgcggcgaggtccgaatctg	7	10	12	12	4	3	1	1	1	2	0	5	4	5	2	2	3	1	1	2	3	1	2	rs148899500		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	15909873	A	G	15909873	3	3	177	1	0	0	0	0	1	0	0	0	385	333	12	3	792	3	AGMAT	1	15909873	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10		15909873	233340748	1	9836											
NBPF10	100132406	broad.mit.edu	37	chr1	146398422	146398422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcactccggatgagccGgacaagtcccaggggcagga	9	5	13	14	2	1	1	1	1	0	0	4	4	4	4	4	5	1	1	4	5	1	0	rs61804605		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	146398422	A	A	146398422	2	1	177	1	0	0	0	0	0	0	0	1	10193	1131	39	1		1	NBPF10	1	146398422	Silent	SNP	G	TCGA-B4-5377-01A-01D-1501-10	130488549	146398422	102852199	2	9837											
HRNR	388697	broad.mit.edu	37	chr1	152192654	152192654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccggaggagtgacctgagCcagatccatgctgagtgtaa	10	7	15	9	1	0	4	0	3	0	1	1	6	1	6	4	3	2	2	4	3	1	1	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	152192654	A	A	152192654	3	1	177	1	0	0	0	0	1	0	0	0	7359	739	26	4	7105	4	HRNR	1	152192654	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	5794232	152192654	97057967	3	9838											
CLK1	1195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201725966	201725966	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaacgttcataccccatGtgaacgacgatgtgaagtac	15	9	8	9	3	1	2	1	2	0	0	1	4	1	2	2	0	4	2	2	0	7	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	201725966	G	A	201725966	3	1	177	1	0	0	0	0	1	0	0	0	3536	1377	48	2	1113	2	CLK1	2	201725966	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10		201725966	41473407	4	9839											
DNER	92737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	230411681	230411681	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctctgacggcttcgtggtGcattttccttttcctgaaca	6	15	8	12	2	1	2	0	2	1	0	4	2	3	2	3	2	2	2	3	2	1	5	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	230411681	G	T	230411681	4	4	177	1	0	0	0	0	0	1	0	0	4667	1311	46	4	1274	4	DNER	2	230411681	Nonsense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	28685715	230411681	12787692	5	9840											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu	37	chr3	52692333	52692333	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtaagctggagaagacTggtaatgtggagaaaaaagt	17	8	13	3	0	1	3	1	0	0	3	1	5	1	3	0	3	1	3	0	3	7	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	52692333	T	A	52692333	5	1	177	1	0	0	0	0	0	0	1	0	11491	1594	55	5	4477	5	PBRM1	3	52692333	Splice_Site	SNP	T	TCGA-B4-5377-01A-01D-1501-10		52692333	145330097	6	9841											
ROBO2	6092	broad.mit.edu;ucsc.edu	37	chr3	77651362	77651362	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctatgttcaccacagaTgtgctgccaccagttccagg	8	11	8	14	0	1	1	1	0	0	1	3	1	3	1	5	1	2	3	5	1	1	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	77651362	C	C	77651362	2	2	177	1	0	0	0	0	0	0	0	1	13516	1478	51	3		3	ROBO2	3	77651362	Silent	SNP	T	TCGA-B4-5377-01A-01D-1501-10	24959029	77651362	120371068	7	9842											
ASTE1	28990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130743620	130743620	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatatttctccactgaaaGctattcaatgggcaaaaccc	13	12	5	11	0	3	1	2	1	1	0	4	1	3	1	2	1	2	2	2	1	6	5	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	130743620	G	T	130743620	3	4	177	1	0	0	0	0	1	0	0	0	1062	962	34	4	1524	4	ASTE1	3	130743620	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	53092258	130743620	67278810	8	9843											
SIAH2	6478	broad.mit.edu	37	chr3	150460088	150460088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcccaggtcaatctcCgccggttcccattcaactcc	6	10	7	18	2	3	0	2	0	1	0	7	0	6	0	6	3	1	1	6	3	2	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	150460088	T	T	150460088	3	4	177	1	0	0	0	0	1	0	0	0	14302	652	23	1	163	1	SIAH2	3	150460088	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	19716468	150460088	47562342	9	9844											
MED12L	116931	broad.mit.edu;ucsc.edu	37	chr3	151134124	151134124	+	Frame_Shift_Del	DEL	C	-	-																															agcagccccagcagccccagCcccagcagcctccccagccc																								novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		-	151134124	-	-	151134124	7	5	177	1	0	1	0	1	0	0	0	0	9429	739	26	0	6379	0	MED12L	3	151134124	Frame_Shift_Del	DEL	C	TCGA-B4-5377-01A-01D-1501-10	674036	151134124	46888306	10	9845											
IFT80	57560	broad.mit.edu;ucsc.edu	37	chr3	160025463	160025463	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcttacgagaacacgtaaCattgaagagacgttgaaaca	17	8	9	7	3	0	4	0	2	0	2	0	6	0	4	0	0	5	3	0	0	5	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	160025463	A	A	160025463	3	1	177	1	0	0	0	0	1	0	0	0	7564	478	17	4	1313	4	IFT80	3	160025463	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	8891339	160025463	37996967	11	9846											
ZBBX	79740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167045872	167045872	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactctttcttggttttgtAcgttgtgctcttttcatcgt	4	21	8	8	2	4	1	1	0	3	1	5	1	4	1	0	1	2	4	0	1	1	8	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	167045872	A	G	167045872	2	3	177	1	0	0	0	0	0	0	0	1	17515	378	14	3		3	ZBBX	3	167045872	Silent	SNP	A	TCGA-B4-5377-01A-01D-1501-10	7020409	167045872	30976558	12	9847											
CLDN16	10686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	190106143	190106143	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatcttcttcaatacatcGcttgcttctttgcctttttc	5	19	6	11	1	4	0	1	0	3	0	6	1	4	1	1	1	3	2	1	1	2	8	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	190106143	G	T	190106143	3	4	177	1	0	0	0	0	1	0	0	0	3477	1087	38	4	237	4	CLDN16	3	190106143	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	23060271	190106143	7916287	13	9848											
HSPA4L	22824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	128725181	128725181	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagggctcaatttgaacaActgtgtgcttcccttttggc	8	13	9	11	0	1	1	1	1	0	0	2	1	2	1	1	2	3	2	1	2	3	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	128725181	A	G	128725181	2	3	177	1	0	0	0	0	0	0	0	1	7413	40	2	3		3	HSPA4L	4	128725181	Silent	SNP	A	TCGA-B4-5377-01A-01D-1501-10		128725181	62429095	14	9849											
ZCCHC9	84240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	80600728	80600728	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caataggctatccctcaaaaAtgatgcaccccaagcaaaac	17	6	5	13	0	1	1	1	1	0	0	2	1	2	1	3	1	3	3	3	1	8	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	80600728	A	G	80600728	3	3	177	1	0	0	0	0	1	0	0	0	17594	101	4	3	154	3	ZCCHC9	5	80600728	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10		80600728	100314532	15	9850											
PJA2	9867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	108717359	108717359	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtaattgtctgataccctCctgctggtttgggccagaca	7	13	10	11	0	1	2	0	1	1	1	2	2	2	2	3	2	2	3	3	2	2	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	108717359	C	A	108717359	3	1	177	1	0	0	0	0	1	0	0	0	11962	855	30	4	2081	4	PJA2	5	108717359	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	28116631	108717359	72197901	16	9851											
GABRG2	2566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	161580106	161580106	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accctcgtcccaggcccctaCcattgatatccgcccaagat	9	8	6	18	2	0	2	0	1	0	1	3	2	2	2	7	1	1	0	7	1	3	3	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	161580106	C	T	161580106	3	4	177	1	0	0	0	0	1	0	0	0	6172	507	18	2	1322	2	GABRG2	5	161580106	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	52862747	161580106	19335154	17	9852											
GRK6	2870	broad.mit.edu;hgsc.bcm.edu	37	chr5	176863239	176863239	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggaggtccccgaggagtAttccgagcgcttttccccgc	7	8	13	13	4	0	0	0	0	0	0	3	5	3	2	5	3	1	2	5	3	2	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	176863239	A	C	176863239	3	2	177	1	0	0	0	0	1	0	0	0	6793	449	16	5	1269	5	GRK6	5	176863239	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10	15283133	176863239	4052021	18	9853											
POMZP3	22932	broad.mit.edu	37	chr7	76247520	76247520	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgtttctggagtcattagCaaagtggaagacatccactg	12	11	10	8	0	2	1	1	0	1	1	3	3	3	3	1	2	1	2	1	2	3	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	76247520	G	G	76247520	3	3	177	1	0	0	0	0	1	0	0	0	12247	710	25	4	257	4	POMZP3	7	76247520	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10		76247520	82891143	19	9854											
SEMA3D	223117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	84642124	84642124	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcccagcactgggtgAttgggtcgccatattttaca	8	12	11	10	2	0	1	0	1	0	0	2	2	1	1	2	2	2	1	2	2	2	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	84642124	A	T	84642124	3	4	177	1	0	0	0	0	1	0	0	0	14029	333	12	5	603	5	SEMA3D	7	84642124	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10	8394604	84642124	74496539	20	9855											
C7orf23	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	86827282	86827282	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggcagtaatactactcAaagagatgcagacagcaaag	17	6	10	8	0	1	2	1	0	0	2	1	3	1	2	0	1	5	5	0	1	5	3	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	86827282	A	G	86827282	3	3	177	1	0	0	0	0	1	0	0	0	2379	131	5	3	155	3	C7orf23	7	86827282	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10	2185158	86827282	72311381	21	9856											
PRSS55	203074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10396087	10396087	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgtggagagaagaacacCccagggatatacacctcgtt	13	7	11	10	1	0	2	0	0	0	2	1	5	0	4	3	2	3	2	3	2	4	3	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	10396087	C	A	10396087	2	1	177	1	0	0	0	0	0	0	0	1	12636	610	22	4		4	PRSS55	8	10396087	Silent	SNP	C	TCGA-B4-5377-01A-01D-1501-10		10396087	135967935	22	9857											
PCM1	5108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17814231	17814231	+	Nonsense_Mutation	SNP	G	G	T																															acaggaaagatgaagaaactGaagagtcagaatatgattct																								novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	17814231	G	T	17814231	4	4	177	1	0	0	0	0	0	1	0	0	11584	1291	45	4	1625	4	PCM1	8	17814231	Nonsense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	7418144	17814231	128549791	23	9858	148	2									
PCM1	5108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17814232	17814232	+	Missense_Mutation	SNP	A	A	T																															caggaaagatgaagaaactgAagagtcagaatatgattctg																								novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	17814232	A	T	17814232	3	4	177	1	0	0	0	0	1	0	0	0	11584	246	9	5	1626	5	PCM1	8	17814232	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10	1	17814232	128549790	24	9859	148	2									
PRDM14	63978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	70981667	70981667	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaaagtgtcaggtccacaAcacgggccactctcgttgtc	10	10	9	12	2	2	0	1	0	1	0	5	0	3	0	2	2	1	1	2	2	3	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	70981667	A	G	70981667	2	3	177	1	0	0	0	0	0	0	0	1	12457	41	2	3		3	PRDM14	8	70981667	Silent	SNP	A	TCGA-B4-5377-01A-01D-1501-10	53167435	70981667	75382355	25	9860											
KCNB2	9312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	73480273	73480273	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcacttccattttaaatTtctaccggaccgggaaactc	10	13	5	13	2	2	0	1	0	1	0	4	2	3	2	4	2	2	0	4	2	4	6	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	73480273	T	A	73480273	3	1	177	1	0	0	0	0	1	0	0	0	8013	1841	64	5	306	5	KCNB2	8	73480273	Missense_Mutation	SNP	T	TCGA-B4-5377-01A-01D-1501-10	2498606	73480273	72883749	26	9861											
RIMS2	9699	broad.mit.edu;ucsc.edu	37	chr8	104513249	104513249	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcatcctggccgtcatggaTaggcagaagaaagaagagga	15	6	13	7	1	2	4	2	0	0	4	3	6	3	6	2	4	0	1	2	4	4	1	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	104513249	C	C	104513249	2	2	177	1	0	0	0	0	0	0	0	1	13370	1403	49	3		3	RIMS2	8	104513249	Silent	SNP	T	TCGA-B4-5377-01A-01D-1501-10	31032976	104513249	41850773	27	9862											
COL22A1	169044	hgsc.bcm.edu;ucsc.edu	37	chr8	139638478	139638482	+	Frame_Shift_Del	DEL	TTCTT	TTCTT	-																															ccttgggggccaggagggccTtctttcccctaaaagatcca																								novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	TTCTT	TTCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		-	139638482	TTCTT	-	139638478	7	5	177	1	0	1	0	1	0	0	0	0	3681	1606	56	0	1268	0	COL22A1	8	139638478	Frame_Shift_Del	DEL	TTCTT	TCGA-B4-5377-01A-01D-1501-10	35125229	139638478	6725544	28	9863											
HEATR7A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145275539	145275539	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaaaagccctttatcctgtCttccatgaggcttcctctcc	8	14	5	14	0	2	1	0	1	2	0	6	1	5	1	5	1	1	1	5	1	4	5	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	145275539	C	T	145275539	3	4	177	1	0	0	0	0	1	0	0	0	7034	913	32	2	1352	2	HEATR7A	8	145275539	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	5637061	145275539	1088483	29	9864											
TNC	3371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117803275	117803275	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagcccttcatggcgatGatgctgacaaggtactccac	11	9	9	12	1	2	2	2	2	0	0	3	3	3	2	2	2	3	2	2	2	3	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	117803275	G	T	117803275	2	4	177	1	0	0	0	0	0	0	0	1	16269	1280	45	4		4	TNC	9	117803275	Silent	SNP	G	TCGA-B4-5377-01A-01D-1501-10		117803275	23410156	30	9865											
MCM10	55388	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	13213138	13213138	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacgaaaaggaaaatctggCcactctctttggagatatgg	14	9	11	7	1	2	2	0	0	2	2	3	5	2	3	1	4	0	0	1	4	5	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	13213138	C	T	13213138	3	4	177	1	0	0	0	0	1	0	0	0	9385	739	26	2	230	2	MCM10	10	13213138	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10		13213138	122321609	31	9866											
RPS24	6229	broad.mit.edu	37	chr10	79814397	79814397	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccggggggttgtgtggCaggtagaagtgccaggaccg	9	6	19	7	2	0	1	0	0	0	1	0	2	0	2	3	6	2	3	3	6	3	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	79814397	T	T	79814397	4	4	177	1	0	0	0	0	0	1	0	0	13637	711	25	2	556	2	RPS24	10	79814397	Nonsense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	66601259	79814397	55720350	32	9867											
TBC1D12	23232	broad.mit.edu	37	chr10	96290995	96290995	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaatcactaccacttgaTctggcctgtcgagtctggga	10	10	10	11	1	3	1	1	1	2	0	4	3	3	2	2	2	2	1	2	2	2	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	96290995	C	C	96290995	2	2	177	1	0	0	0	0	0	0	0	1	15600	1432	50	3		3	TBC1D12	10	96290995	Silent	SNP	T	TCGA-B4-5377-01A-01D-1501-10	16476598	96290995	39243752	33	9868											
WDR74	54663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62601147	62601147	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgagacttgagataaacCtgcaaaagatgagggacctt	16	9	10	6	0	0	4	0	3	0	3	0	7	0	5	2	1	2	1	2	1	5	4	rs189126082	by1000genomes;alternate_allele	TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	62601147	C	A	62601147	5	1	177	1	0	0	0	0	0	0	1	0	17323	695	24	4	244	4	WDR74	11	62601147	Splice_Site	SNP	C	TCGA-B4-5377-01A-01D-1501-10		62601147	72405369	34	9869											
CTSW	1521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65648930	65648930	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacctggcccaggctcagagGctgcaggaggaggacttggg	9	5	17	10	0	1	1	1	0	0	1	1	4	1	4	2	7	2	3	2	7	1	1	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	65648930	G	T	65648930	3	4	177	1	0	0	0	0	1	0	0	0	4042	1194	42	4	235	4	CTSW	11	65648930	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	3047783	65648930	69357586	35	9870											
KIAA0528	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	22676365	22676365	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgattcatacttactccttCatttctttggatggggaatt	8	19	7	7	0	3	1	2	1	1	0	4	3	4	3	1	3	2	0	1	3	3	8	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	22676365	C	T	22676365	3	4	177	1	0	0	0	0	1	0	0	0	8182	826	29	2	2283	2	KIAA0528	12	22676365	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10		22676365	111175530	36	9871											
DIP2B	57609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51092926	51092926	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagaaatctgtgttagcTccagaactggaggcatgatg	11	11	13	6	0	1	3	0	1	1	2	2	5	2	4	1	3	2	3	1	3	3	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		G	51092926	T	G	51092926	3	3	177	1	0	0	0	0	1	0	0	0	4528	1551	54	5	2340	5	DIP2B	12	51092926	Missense_Mutation	SNP	T	TCGA-B4-5377-01A-01D-1501-10	28416561	51092926	82758969	37	9872											
MYL2	4633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	111351119	111351119	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttgagaatggtttcctcaGggtccgctcctgaaacggaa	9	10	12	10	3	1	2	1	2	0	1	4	4	4	3	3	3	1	3	3	3	3	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	111351119	G	T	111351119	3	4	177	1	0	0	0	0	1	0	0	0	10047	1000	35	4	228	4	MYL2	12	111351119	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	60258193	111351119	22500776	38	9873											
PARP4	143	broad.mit.edu;ucsc.edu	37	chr13	25075850	25075850	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattctttacatccaagagTctcttttccctgatagattt	10	18	4	9	0	2	3	0	1	2	2	5	3	4	3	2	0	1	0	2	0	4	8	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	25075850	C	C	25075850	2	2	177	1	0	0	0	0	0	0	0	1	11463	1664	58	3		3	PARP4	13	25075850	Silent	SNP	T	TCGA-B4-5377-01A-01D-1501-10		25075850	90094028	39	9874											
XYLT1	64131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	17211800	17211800	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagacccccaaagttgcGgaatagcctctccttggcat	11	8	9	13	1	1	2	0	0	1	2	2	3	1	3	4	2	2	2	4	2	4	3	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	17211800	G	A	17211800	3	1	177	1	0	0	0	0	1	0	0	0	17462	1116	39	1	627	1	XYLT1	16	17211800	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10		17211800	73142953	40	9875											
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21098199	21098199	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgtcggtctttcattcctgGgttgcaggaaatactgagga	8	13	13	7	1	2	1	1	1	1	0	4	3	3	3	1	4	2	2	1	4	2	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	21098199	G	C	21098199	3	2	177	1	0	0	0	0	1	0	0	0	4603	1232	43	4	9677	4	DNAH3	16	21098199	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	3886399	21098199	69256554	41	9876											
BLMH	642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	28598331	28598331	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatggcgtgggtcataagTgactcaccaaaagtcagcct	11	9	11	10	1	4	1	4	1	0	0	4	1	4	1	2	2	1	0	2	2	3	1	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	28598331	T	C	28598331	2	2	177	1	0	0	0	0	0	0	0	1	1446	1683	59	3		3	BLMH	17	28598331	Silent	SNP	T	TCGA-B4-5377-01A-01D-1501-10		28598331	52596879	42	9877											
RFFL	117584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33348596	33348596	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaggaccaagagcaccaGctcttctttctcccggcaca	10	7	8	16	1	3	1	0	0	3	1	4	2	3	2	4	2	2	3	4	2	2	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	33348596	G	A	33348596	2	1	177	1	0	0	0	0	0	0	0	1	13252	962	34	2		2	RFFL	17	33348596	Silent	SNP	G	TCGA-B4-5377-01A-01D-1501-10	4750265	33348596	47846614	43	9878											
SMARCA4	6597	hgsc.bcm.edu	37	chr19	11106894	11106894	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatgcttttgtaggctgaAgatgaggaggggtaccgcaa	10	9	14	8	1	0	3	0	2	0	1	0	4	0	4	2	4	2	5	2	4	4	4	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		C	11106894	A	C	11106894	3	2	177	1	0	0	0	0	1	0	0	0	14772	69	3	5	1633	5	SMARCA4	19	11106894	Missense_Mutation	SNP	A	TCGA-B4-5377-01A-01D-1501-10		11106894	48022089	44	9879											
COMP	1311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18901411	18901411	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accgtgtttttcaggaacgtGatctccctgacctgcagggg	7	11	12	11	2	2	2	1	2	1	0	3	3	2	3	3	3	2	2	3	3	1	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	18901411	G	A	18901411	2	1	177	1	0	0	0	0	0	0	0	1	3724	1280	45	2		2	COMP	19	18901411	Silent	SNP	G	TCGA-B4-5377-01A-01D-1501-10	7794517	18901411	40227572	45	9880											
FBXO27	126433	hgsc.bcm.edu;ucsc.edu	37	chr19	39521925	39521925	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcctccaccacccagccgtCcccaccgtgttgcaccatcc	6	8	5	22	2	0	0	0	0	0	0	4	0	4	0	10	0	2	2	10	0	0	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		T	39521925	C	T	39521925	3	4	177	1	0	0	0	0	1	0	0	0	5737	855	30	2	467	2	FBXO27	19	39521925	Missense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10	20620514	39521925	19607058	46	9881											
LMTK3	114783	broad.mit.edu	37	chr19	49001136	49001136	+	Frame_Shift_Del	DEL	A	-	-																															tgtctccccgccgttccgggAggagaccactgcgctgggtg																								novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		-	49001136	-	-	49001136	7	5	177	1	0	1	0	1	0	0	0	0	8860	304	11	0	1212	0	LMTK3	19	49001136	Frame_Shift_Del	DEL	A	TCGA-B4-5377-01A-01D-1501-10	9479211	49001136	10127847	47	9882											
ZNF175	7728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52090780	52090780	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgcagtgaatgtggcaaagGcttctcccaaaactcaaccc	13	8	8	12	0	2	1	1	1	1	0	3	1	2	1	2	2	3	3	2	2	5	1	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	52090780	G	A	52090780	3	1	177	1	0	0	0	0	1	0	0	0	17744	1203	42	2	1210	2	ZNF175	19	52090780	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10	3089644	52090780	7038203	48	9883											
COL6A2	1292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47533975	47533975	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctctggccccaagggctaCcgtggacagaaggtaagatg	10	6	13	12	1	1	2	0	0	1	2	1	3	1	3	4	4	1	2	4	4	4	2	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	47533975	C	A	47533975	4	1	177	1	0	0	0	0	0	1	0	0	3700	518	18	4	803	4	COL6A2	21	47533975	Nonsense_Mutation	SNP	C	TCGA-B4-5377-01A-01D-1501-10		47533975	595920	49	9884											
PRPS2	5634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	12827407	12827407	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atatgctgtcggtggctgggGcggatcacatcatcaccatg	8	10	13	10	2	3	0	3	0	0	0	4	1	3	1	1	5	1	2	1	5	1	1	novel		TCGA-B4-5377-01A-01D-1501-10	TCGA-B4-5377-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a615b02d-fd18-47ef-bd66-6dba56de6981	85d470b3-45ce-4267-ab98-ce6cc5ca43d4		A	12827407	G	A	12827407	3	1	177	1	0	0	0	0	1	0	0	0	12582	1203	42	2	380	2	PRPS2	23	12827407	Missense_Mutation	SNP	G	TCGA-B4-5377-01A-01D-1501-10		12827407	142443153	50	9885											
APITD1	378708	hgsc.bcm.edu	37	chr1	10494765	10494765	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtgggtagagaacttgaTtatccgacactgcgtctgtg	10	11	13	7	2	1	2	0	1	1	1	2	4	2	2	1	2	2	1	1	2	4	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	10494765	T	C	10494765	1	2	178	0	1	0	0	0	0	0	0	0	775	1508	52	3		3	APITD1	1	10494765	RNA	SNP	T	TCGA-B8-4143-01A-01D-1806-10		10494765	238755856	1	9886											
PRAMEF1	65121	broad.mit.edu	37	chr1	12853441	12853441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcctgctgagagaccaggCcttgtccatctctgccatgg	7	9	12	13	0	1	2	0	1	1	1	3	4	2	2	5	2	3	1	5	2	0	1	rs75270454	bycluster;byfrequency	TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	12853441	A	A	12853441	3	1	178	1	0	0	0	0	1	0	0	0	12427	739	26	4	67	4	PRAMEF1	1	12853441	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	2358676	12853441	236397180	2	9887											
ZNF684	127396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	41007325	41007325	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaaagtgatcctcaaggtaGagcaaggacaagagccatgg	16	5	12	8	0	1	3	1	1	0	2	2	4	2	4	2	3	2	2	2	3	6	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	41007325	G	A	41007325	3	1	178	1	0	0	0	0	1	0	0	0	18090	943	33	2	191	2	ZNF684	1	41007325	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	28153884	41007325	208243296	3	9888											
NRD1	4898	hgsc.bcm.edu	37	chr1	52306082	52306082	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttcttcttcttcctccAcctcctcttcttcttcatca	4	19	0	18	0	9	0	2	0	7	0	12	0	12	0	4	0	0	0	4	0	0	7	rs62639317		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	52306082	A	T	52306082	3	4	178	1	0	0	0	0	1	0	0	0	10645	159	6	5	3341	5	NRD1	1	52306082	Missense_Mutation	SNP	A	TCGA-B8-4143-01A-01D-1806-10	11298757	52306082	196944539	4	9889											
GNAT2	2780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110151406	110151406	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgttgagctgtcgcccgTcatcctgtaatgcagaaacc	8	11	11	11	2	1	2	1	1	0	1	3	2	2	2	3	1	3	5	3	1	2	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	110151406	T	C	110151406	3	2	178	1	0	0	0	0	1	0	0	0	6512	1667	58	3	776	3	GNAT2	1	110151406	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	57845324	110151406	139099215	5	9890											
AMPD1	270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	115221022	115221022	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatttagcaaaaagttcctTtagggtcagattcttctctt	11	17	6	7	0	3	1	1	0	2	1	5	1	4	1	1	1	1	2	1	1	5	9	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	115221022	T	A	115221022	4	1	178	1	0	0	0	0	0	1	0	0	585	1850	64	5	1255	5	AMPD1	1	115221022	Nonsense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	5069616	115221022	134029599	6	9891											
HIST2H2AC	8338	hgsc.bcm.edu	37	chr1	149858563	149858563	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaggcaaggcccgcgcCaaggccaagtcgcgctcgtc	9	3	14	15	5	0	0	0	0	0	0	3	1	0	1	3	4	0	2	3	4	4	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	149858563	C	T	149858563	2	4	178	1	0	0	0	0	0	0	0	1	7178	581	21	2		2	HIST2H2AC	1	149858563	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	34637541	149858563	99392058	7	9892			1	12		4	4	866	N	C_A	2.464746e-09
HIST2H2AC	8338	broad.mit.edu;hgsc.bcm.edu	37	chr1	149858593	149858593	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgcgctcgtcccgcgctggCctccagttcccggtagggcg	2	8	14	17	7	0	0	0	0	0	0	5	0	3	0	4	3	0	4	4	3	1	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	149858593	C	T	149858593	2	4	178	1	0	0	0	0	0	0	0	1	7178	726	26	2		2	HIST2H2AC	1	149858593	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	30	149858593	99392028	8	9893			1	12		4	4	866	N	C_A	2.464746e-09
HIST2H2AB	317772	hgsc.bcm.edu	37	chr1	149859101	149859101	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttgccaggcttgtgactCtccgttttcttgggcaacag	5	15	10	11	1	3	1	0	1	3	0	4	1	3	1	2	2	2	3	2	2	1	6	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	149859101	C	T	149859101	2	4	178	1	0	0	0	0	0	0	0	1	7177	912	32	2		2	HIST2H2AB	1	149859101	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	508	149859101	99391520	9	9894			1	12		4	4	866	N	C_A	2.464746e-09
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859428	149859428	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacgagcgcgacttggccttAgcgcgggccttgcctccctg	4	8	14	15	5	0	0	0	0	0	0	1	3	1	0	4	2	3	0	4	2	1	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	149859428	G	G	149859428	2	3	178	1	0	0	0	0	0	0	0	1	7177	407	15	3		3	HIST2H2AB	1	149859428	Silent	SNP	A	TCGA-B8-4143-01A-01D-1806-10	327	149859428	99391193	10	9895			1	12		4	4	866	N	C_A	2.464746e-09
PXDN	7837	broad.mit.edu;ucsc.edu	37	chr2	1652062	1652062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtagggtgggatcccgtggtCccggccccgctggatgttga	4	9	17	11	3	0	1	0	1	0	0	2	3	2	3	4	5	0	3	4	5	1	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	1652062	T	T	1652062	3	4	178	1	0	0	0	0	1	0	0	0	12849	855	30	2	977	2	PXDN	2	1652062	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		1652062	241547311	11	9896											
DYSF	8291	broad.mit.edu	37	chr2	71825715	71825715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctatgccatcgtctcctTcctgcaccagagccagaaga	9	9	7	16	1	1	3	0	0	1	3	5	3	3	3	6	0	3	1	6	0	2	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	71825715	C	C	71825715	3	2	178	1	0	0	0	0	1	0	0	0	4859	1783	62	3	3864	3	DYSF	2	71825715	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	70173653	71825715	171373658	12	9897											
ACVR1C	130399	hgsc.bcm.edu	37	chr2	158443712	158443712	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttacctgttggaaggtgCagtgttatgttgttgcaaaa	9	14	11	7	0	0	0	0	0	0	0	0	1	0	1	2	2	3	6	2	2	5	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	158443712	C	A	158443712	2	1	178	1	0	0	0	0	0	0	0	1	222	697	25	4		4	ACVR1C	2	158443712	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	86617997	158443712	84755661	13	9898											
BAZ2B	29994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160240140	160240140	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggagtttaccttctaccacCcatttatctctcctcaagtt	8	15	4	14	1	3	0	1	0	2	0	5	1	4	1	4	1	2	2	4	1	4	7	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	160240140	C	A	160240140	3	1	178	1	0	0	0	0	1	0	0	0	1332	624	22	4	2824	4	BAZ2B	2	160240140	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	1796428	160240140	82959233	14	9899											
SLC4A10	57282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	162696378	162696378	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctcatgaccttttcacAgaactggatgagatttgttg	10	15	8	8	0	2	3	2	2	0	2	3	5	3	4	2	1	1	1	2	1	1	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	162696378	A	G	162696378	2	3	178	1	0	0	0	0	0	0	0	1	14653	175	7	3		3	SLC4A10	2	162696378	Silent	SNP	A	TCGA-B8-4143-01A-01D-1806-10	2456238	162696378	80502995	15	9900											
GCA	25801	hgsc.bcm.edu;ucsc.edu	37	chr2	163204196	163204196	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccagcatattcagacActtattcctcagctggtgac	9	11	9	12	0	2	2	2	1	0	1	3	2	3	2	2	2	2	2	2	2	2	4	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	163204196	A	G	163204196	3	3	178	1	0	0	0	0	1	0	0	0	6283	159	6	3	142	3	GCA	2	163204196	Missense_Mutation	SNP	A	TCGA-B8-4143-01A-01D-1806-10	507818	163204196	79995177	16	9901											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179404327	179404327	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtcagcaccaccatcaTcagcaggaggtctccagctg	11	7	10	13	0	4	1	3	0	1	1	5	2	4	2	3	2	3	3	3	2	0	0	rs191054704	by1000genomes	TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	179404327	T	G	179404327	3	3	178	1	0	0	0	0	1	0	0	0	16734	1435	50	5	9558	5	TTN	2	179404327	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	16200131	179404327	63795046	17	9902											
ANKRD44	91526	broad.mit.edu;ucsc.edu	37	chr2	197946412	197946412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccctggctctttcaagttCttctgaattatcatgggcat	7	16	7	11	0	5	1	2	1	3	0	6	1	6	1	1	2	0	3	1	2	3	4	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	197946412	T	T	197946412	3	4	178	1	0	0	0	0	1	0	0	0	672	922	32	2	1387	2	ANKRD44	2	197946412	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	18542085	197946412	45252961	18	9903											
EIF4E2	9470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	233431788	233431788	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccttctgttcctctggtagGaagacattatttcaatatgg	9	16	8	8	0	3	1	1	0	2	1	5	2	5	2	2	3	0	2	2	3	5	6	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	233431788	G	A	233431788	3	1	178	1	0	0	0	0	1	0	0	0	5030	1188	41	2	551	2	EIF4E2	2	233431788	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	35485376	233431788	9767585	19	9904											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238280964	238280964	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgatgagaaagaccacgtcCctcttgccaccaacacctgc	11	7	7	16	2	1	2	0	1	1	2	3	4	2	2	5	0	3	0	5	0	2	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	238280964	C	T	238280964	2	4	178	1	0	0	0	0	0	0	0	1	3701	622	22	2		2	COL6A3	2	238280964	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	4849176	238280964	4918409	20	9905											
C2orf85	0	broad.mit.edu	37	chr2	242815348	242815348	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacgaggacttctggatctgGgtgtccatgaccgtgtgcgt	6	12	14	9	3	2	1	0	1	2	0	3	4	3	3	2	3	2	0	2	3	1	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	242815348	C	C	242815348	3	2	178	1	0	0	0	0	1	0	0	0	2200	1241	43	4	1647	4	C2orf85	2	242815348	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	4534384	242815348	384025	21	9906											
KIF15	56992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	44847461	44847461	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttctcagctgaataaaattCatgctgaaacacttaaggta	15	13	6	7	0	2	2	2	2	1	0	3	2	2	2	0	1	3	3	0	1	6	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	44847461	C	T	44847461	3	4	178	1	0	0	0	0	1	0	0	0	8277	826	29	2	2016	2	KIF15	3	44847461	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		44847461	153174969	22	9907											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52437163	52437163	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaggctcaccttgggtgaGtatttctccccactcaaggg	7	10	12	12	1	3	1	2	1	1	0	4	2	3	2	3	4	0	2	3	4	2	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	52437163	G	C	52437163	4	2	178	1	0	0	0	0	0	1	0	0	1311	1024	36	4	324	4	BAP1	3	52437163	Nonsense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	7589702	52437163	145585267	23	9908											
TMEM165	55858	hgsc.bcm.edu;ucsc.edu	37	chr4	56284067	56284067	+	Frame_Shift_Del	DEL	T	T	-																															gttgcattttatttcacccaTttttgttcaagctcttacat																								novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		-	56284067	T	-	56284067	7	5	178	1	0	1	0	1	0	0	0	0	16079	1493	52	0	721	0	TMEM165	4	56284067	Frame_Shift_Del	DEL	T	TCGA-B8-4143-01A-01D-1806-10		56284067	134870209	24	9909											
UGT2A1	10941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	70460937	70460937	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattgtttcctaatgtggCtggtttctttcctttgtatc	5	21	8	7	0	1	0	0	0	1	0	4	0	3	0	2	2	0	5	2	2	3	8	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	70460937	C	T	70460937	3	4	178	1	0	0	0	0	1	0	0	0	16952	797	28	2	568	2	UGT2A1	4	70460937	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	14176870	70460937	120693339	25	9910											
HNRNPD	3184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83280713	83280713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacttcagagtgcagtctaCaacttcaccaaatttggaaa	15	11	6	9	0	3	1	2	0	1	1	3	2	3	2	1	1	4	1	1	1	5	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	83280713	C	T	83280713	3	4	178	1	0	0	0	0	1	0	0	0	7264	478	17	2	721	2	HNRNPD	4	83280713	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	12819776	83280713	107873563	26	9911											
CARD6	84674	hgsc.bcm.edu;ucsc.edu	37	chr5	40854473	40854475	+	In_Frame_Del	DEL	GTC	GTC	-																															cccagaccccctcaacctaaGtcatcctcaaccaatccttc																								novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	GTC	GTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		-	40854475	GTC	-	40854473	7	5	178	1	0	1	0	1	0	0	0	0	2650	1020	36	0	3049	0	CARD6	5	40854473	In_Frame_Del	DEL	GTC	TCGA-B8-4143-01A-01D-1806-10		40854473	140060787	27	9912											
LRRC16A	55604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25285102	25285102	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaagaagaaagtaaagttgGaagttaagggagacaaagtt	19	8	13	1	0	0	4	0	1	0	3	0	6	0	5	0	2	0	4	0	2	8	4	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	25285102	G	T	25285102	4	4	178	1	0	0	0	0	0	1	0	0	8971	1175	41	4	109	4	LRRC16A	6	25285102	Nonsense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10		25285102	145829965	28	9913											
HIST1H2BJ	8970	broad.mit.edu;hgsc.bcm.edu	37	chr6	27100432	27100432	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatagctctccttgcggCtgcgcttgcgcttcttgccg	3	13	12	13	4	2	0	0	0	2	0	3	1	2	1	2	2	5	4	2	2	2	5	rs137867381	alternate_allele	TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	27100432	C	T	27100432	3	4	178	1	0	0	0	0	1	0	0	0	7149	797	28	2	286	2	HIST1H2BJ	6	27100432	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	1815330	27100432	144014635	29	9914											
GPR111	222611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	47649747	47649747	+	Frame_Shift_Del	DEL	C	C	-																															acagagatcacctatttacgCcatgtgtgcattgttaacat																								novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		-	47649747	C	-	47649747	7	5	178	1	0	1	0	1	0	0	0	0	6628	726	26	0	1266	0	GPR111	6	47649747	Frame_Shift_Del	DEL	C	TCGA-B8-4143-01A-01D-1806-10	20549315	47649747	123465320	30	9915											
CRISP2	7180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	49667553	49667553	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcactatgttgtaaagTgcacttgtttgcccaccttt	8	16	8	9	0	1	0	1	0	0	0	1	1	1	1	2	1	2	4	2	1	3	6	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	49667553	T	C	49667553	3	2	178	1	0	0	0	0	1	0	0	0	3880	1696	59	3	516	3	CRISP2	6	49667553	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	2017806	49667553	121447514	31	9916											
PKHD1	5314	hgsc.bcm.edu;ucsc.edu	37	chr6	51747999	51747999	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataaactttgaagtttttCaggcgaagattgctacttct	12	15	8	6	1	2	2	1	1	1	1	2	4	2	2	0	1	3	2	0	1	6	7	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	51747999	C	A	51747999	2	1	178	1	0	0	0	0	0	0	0	1	11971	813	29	4		4	PKHD1	6	51747999	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	2080446	51747999	119367068	32	9917											
FAM54A	0	hgsc.bcm.edu;ucsc.edu	37	chr6	136560875	136560875	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagcactgaacctggaagctGatctgggtccacactcagat	12	8	10	11	0	2	3	1	2	1	1	3	4	3	4	2	2	3	2	2	2	3	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	136560875	G	A	136560875	4	1	178	1	0	0	0	0	0	1	0	0	5582	1299	45	2	571	2	FAM54A	6	136560875	Nonsense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	84812876	136560875	34554192	33	9918											
DPY19L1	23333	broad.mit.edu;hgsc.bcm.edu	37	chr7	35029520	35029520	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgattgaaaaagaagcaCaacactgtaaccaggcctcc	16	6	7	12	0	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	5	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	35029520	C	T	35029520	2	4	178	1	0	0	0	0	0	0	0	1	4740	477	17	2		2	DPY19L1	7	35029520	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10		35029520	124109143	34	9919											
MYO1G	64005	broad.mit.edu;ucsc.edu	37	chr7	45005737	45005737	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccagtgtgaccagtgTccggggtgagcggatgaaca	8	8	15	10	2	0	3	0	3	0	0	2	4	2	4	3	3	3	1	3	3	1	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	45005737	A	A	45005737	3	1	178	1	0	0	0	0	1	0	0	0	10074	1667	58	5	992	5	MYO1G	7	45005737	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	9976217	45005737	114132926	35	9920											
FGL2	10875	broad.mit.edu;ucsc.edu	37	chr7	76826154	76826154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccatcgagacgtgcctgCagcactgtccagcctccccc	6	7	8	20	2	0	1	0	0	0	1	4	2	3	1	6	0	4	2	6	0	0	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	76826154	T	T	76826154	2	4	178	1	0	0	0	0	0	0	0	1	5873	697	25	2		2	FGL2	7	76826154	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	31820417	76826154	82312509	36	9921											
SMO	6608	broad.mit.edu;hgsc.bcm.edu	37	chr7	128845209	128845209	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacatgcacagctacatcGcggccttcggggccgtcacg	8	6	13	14	5	1	0	1	0	0	0	3	1	1	1	2	4	3	2	2	4	1	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	128845209	G	A	128845209	3	1	178	1	0	0	0	0	1	0	0	0	14802	1087	38	1	713	1	SMO	7	128845209	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	52019055	128845209	30293454	37	9922											
AHCYL2	23382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129064971	129064971	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggatgtctacctgttgcCcaagaagatgggtaagtatt	11	11	12	7	0	1	2	0	0	1	2	1	3	1	3	2	2	2	4	2	2	5	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	129064971	C	A	129064971	3	1	178	1	0	0	0	0	1	0	0	0	411	623	22	4	1877	4	AHCYL2	7	129064971	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	219762	129064971	30073692	38	9923											
BRAF	673	hgsc.bcm.edu	37	chr7	140550005	140550005	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttaatcatttgtttgataTtccacacctaaaaaatattt	15	17	2	7	0	1	1	1	1	0	0	2	1	2	1	2	0	0	1	2	0	6	8	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	140550005	T	A	140550005	3	1	178	1	0	0	0	0	1	0	0	0	1496	1493	52	5	2222	5	BRAF	7	140550005	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	11485034	140550005	18588658	39	9924											
COL22A1	169044	broad.mit.edu;ucsc.edu	37	chr8	139825225	139825225	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtctccaattctgcgtgtCtcgagtcacaatagatcaca	12	11	7	11	2	5	1	2	0	3	1	7	2	5	1	1	0	1	0	1	0	4	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	139825225	A	A	139825225	3	1	178	1	0	0	0	0	1	0	0	0	3681	913	32	4	3829	4	COL22A1	8	139825225	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		139825225	6538797	40	9925											
TMOD1	7111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100326390	100326390	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaacagacgtagaggaaacGctggaacggataaagaacaa	19	4	11	7	3	1	3	1	0	0	3	1	6	1	6	0	3	4	2	0	3	8	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	100326390	G	A	100326390	2	1	178	1	0	0	0	0	0	0	0	1	16232	1074	38	1		1	TMOD1	9	100326390	Silent	SNP	G	TCGA-B8-4143-01A-01D-1806-10		100326390	40887041	41	9926											
TRUB2	26995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131077879	131077879	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcattgtacatatcggtgagGagcctgcatccatgtcccac	9	10	10	12	1	0	1	0	1	0	0	3	2	2	2	3	2	3	3	3	2	2	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	131077879	G	A	131077879	2	1	178	1	0	0	0	0	0	0	0	1	16602	1161	41	2		2	TRUB2	9	131077879	Silent	SNP	G	TCGA-B8-4143-01A-01D-1806-10	30751489	131077879	10135552	42	9927											
CUBN	8029	broad.mit.edu;ucsc.edu	37	chr10	16975260	16975260	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacacgggtgcatctcccgTcctcaggaagccaccacaag	12	5	9	15	2	2	0	1	0	1	0	4	1	3	1	4	2	3	1	4	2	3	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	16975260	A	A	16975260	3	1	178	1	0	0	0	0	1	0	0	0	4051	1667	58	5	5033	5	CUBN	10	16975260	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10		16975260	118559487	43	9928											
DYDC1	143241	hgsc.bcm.edu	37	chr10	82112339	82112339	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaggccccaaggtgcttttGaagatatattgactccattt	11	13	8	9	0	0	3	0	2	0	1	1	3	1	3	3	2	1	1	3	2	4	6	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	82112339	G	A	82112339	4	1	178	1	0	0	0	0	0	1	0	0	4838	1299	45	2	538	2	DYDC1	10	82112339	Nonsense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	65137079	82112339	53422408	44	9929											
LIPN	643418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	90534901	90534901	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggggaaatgacgctgataAtatgaaacattacaatcagg	16	9	10	6	1	1	3	1	3	0	0	1	4	1	4	0	3	2	1	0	3	6	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	90534901	A	C	90534901	3	2	178	1	0	0	0	0	1	0	0	0	8828	101	4	5	974	5	LIPN	10	90534901	Missense_Mutation	SNP	A	TCGA-B8-4143-01A-01D-1806-10	8422562	90534901	44999846	45	9930											
PKD2L1	9033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102056953	102056953	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacctcctgtagctggaaaCtccaccaccagcctataggg	10	7	9	15	0	0	0	0	0	0	0	2	1	2	1	6	2	3	3	6	2	4	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	102056953	C	A	102056953	3	1	178	1	0	0	0	0	1	0	0	0	11967	564	20	4	1492	4	PKD2L1	10	102056953	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	11522052	102056953	33477794	46	9931											
ATRNL1	26033	hgsc.bcm.edu	37	chr10	116930981	116930981	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggatagtagagatgttGtcatgatcataatatttgga	13	15	11	2	0	2	2	2	1	0	1	2	5	2	4	0	2	0	3	0	2	4	7	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	116930981	G	T	116930981	3	4	178	1	0	0	0	0	1	0	0	0	1207	1377	48	4	1309	4	ATRNL1	10	116930981	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	14874028	116930981	18603766	47	9932											
OR4P4	81300	broad.mit.edu;ucsc.edu	37	chr11	55406555	55406555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgccacttgtagttctcAtgtaattgttgtggtcctgt	5	19	9	8	0	2	0	1	0	2	0	4	0	3	0	2	1	1	4	2	1	2	7	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	55406555	G	G	55406555	3	3	178	1	0	0	0	0	1	0	0	0	11080	217	8	3	724	3	OR4P4	11	55406555	Missense_Mutation	SNP	A	TCGA-B8-4143-01A-01D-1806-10		55406555	79599961	48	9933											
MS4A14	84689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60164088	60164088	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacagaagggcaactcacGtcatcactataaaaccaaac	18	5	7	11	1	3	1	3	0	0	1	3	2	3	2	1	2	3	1	1	2	6	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	60164088	G	A	60164088	3	1	178	1	0	0	0	0	1	0	0	0	9858	1145	40	1	39	1	MS4A14	11	60164088	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	4757533	60164088	74842428	49	9934											
PLCB3	5331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64029901	64029901	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgatgcagctcaacgcGggcgtttttgagtacaacgg	8	9	15	9	5	1	1	1	1	0	0	1	2	1	1	0	3	5	4	0	3	3	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	64029901	G	A	64029901	2	1	178	1	0	0	0	0	0	0	0	1	12029	1103	39	1		1	PLCB3	11	64029901	Silent	SNP	G	TCGA-B8-4143-01A-01D-1806-10	3865813	64029901	70976615	50	9935											
SYVN1	84447	broad.mit.edu	37	chr11	64897312	64897312	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaggtgctgccgctcaTggccctccagagctcgtagc	5	8	11	17	2	1	1	1	0	0	1	4	1	3	1	5	2	4	4	5	2	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	64897312	C	C	64897312	3	2	178	1	0	0	0	0	1	0	0	0	15486	1464	51	3	381	3	SYVN1	11	64897312	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	867411	64897312	70109204	51	9936											
MMP7	4316	hgsc.bcm.edu	37	chr11	102394122	102394122	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcatgagttgcagcatacagGaagttaatccctacaaccga	14	9	8	10	1	1	1	1	1	0	0	2	3	2	2	2	1	5	4	2	1	5	4	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	102394122	G	A	102394122	2	1	178	1	0	0	0	0	0	0	0	1	9667	1165	41	2		2	MMP7	11	102394122	Silent	SNP	G	TCGA-B8-4143-01A-01D-1806-10	37496810	102394122	32612394	52	9937											
RDX	5962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	110150412	110150412	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatacacttactggtttCggcattttctttctcttttt	8	21	4	8	1	2	0	0	0	2	0	4	0	2	0	0	2	2	2	0	2	4	9	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	110150412	C	A	110150412	2	1	178	1	0	0	0	0	0	0	0	1	13200	871	31	4		4	RDX	11	110150412	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	7756290	110150412	24856104	53	9938											
ZBTB16	7704	broad.mit.edu;ucsc.edu	37	chr11	113934420	113934420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcagacgacaatgacaCggaggccaccatggccgatg	11	4	13	13	3	1	2	1	1	0	1	1	5	1	3	4	4	0	0	4	4	1	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	113934420	T	T	113934420	3	4	178	1	0	0	0	0	1	0	0	0	17525	536	19	1	400	1	ZBTB16	11	113934420	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	3784008	113934420	21072096	54	9939											
ITPR2	3709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	26553126	26553126	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggccctggttcagcaCggtgacaatgcacataagga	11	7	12	11	1	1	2	1	2	0	0	1	3	1	3	2	4	2	3	2	4	2	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	26553126	C	T	26553126	3	4	178	1	0	0	0	0	1	0	0	0	7921	536	19	1	660	1	ITPR2	12	26553126	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		26553126	107298769	55	9940											
C12orf11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27066946	27066946	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaccaactgtggaaataGgtagaggatcattttttctt	11	16	9	5	0	2	1	1	0	1	1	2	3	2	3	1	3	2	2	1	3	5	8	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	27066946	G	C	27066946	3	2	178	1	0	0	0	0	1	0	0	0	1675	1000	35	4	605	4	C12orf11	12	27066946	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	513820	27066946	106784949	56	9941											
KIF21A	55605	hgsc.bcm.edu	37	chr12	39726836	39726836	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgagcaggtgcatcagatGaactcagcttccgagtaact	11	9	10	11	1	2	3	2	2	0	1	3	4	3	3	2	1	5	4	2	1	2	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	39726836	G	C	39726836	4	2	178	1	0	0	0	0	0	1	0	0	8288	1294	45	4	2543	4	KIF21A	12	39726836	Nonsense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	12659890	39726836	94125059	57	9942											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49444338	49444338	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcaggatgggagaagcCggccccactggggagcctgg	8	5	16	12	1	1	1	1	0	0	1	2	4	2	3	5	6	2	0	5	6	1	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	49444338	C	T	49444338	2	4	178	1	0	0	0	0	0	0	0	1	9621	639	23	1		1	MLL2	12	49444338	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	9717502	49444338	84407557	58	9943											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53686061	53686061	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgccagtgtctcctcctcaGtatggggcctcgccagtgct	4	11	11	15	2	2	0	1	0	1	0	6	0	3	0	5	2	1	2	5	2	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	53686061	G	T	53686061	5	4	178	1	0	0	0	0	0	0	1	0	5253	1043	36	4	5902	4	ESPL1	12	53686061	Splice_Site	SNP	G	TCGA-B8-4143-01A-01D-1806-10	4241723	53686061	80165834	59	9944											
MED13L	23389	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	116409971	116409971	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcggcagagattccacaCatccggcacacatccttgag	10	8	9	14	2	1	2	0	1	1	1	4	3	4	2	3	2	1	2	3	2	0	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	116409971	C	T	116409971	3	4	178	1	0	0	0	0	1	0	0	0	9431	478	17	2	854	2	MED13L	12	116409971	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	62723910	116409971	17441924	60	9945											
ATP8A2	51761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	26413708	26413708	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggggtcactgcatcaacGccttggtccactccctcatc	6	11	8	16	1	4	0	3	0	1	0	7	0	6	0	3	3	2	1	3	3	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	26413708	G	A	26413708	3	1	178	1	0	0	0	0	1	0	0	0	1193	1087	38	1	3020	1	ATP8A2	13	26413708	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10		26413708	88756170	61	9946											
NBEA	26960	broad.mit.edu;hgsc.bcm.edu	37	chr13	36046544	36046544	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgccttgcaggcccagtGgttctcagcacccctgccca	5	9	9	18	0	1	0	1	0	1	0	2	0	1	0	6	2	4	3	6	2	0	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	36046544	G	T	36046544	2	4	178	1	0	0	0	0	0	0	0	1	10187	1335	47	4		4	NBEA	13	36046544	Silent	SNP	G	TCGA-B8-4143-01A-01D-1806-10	9632836	36046544	79123334	62	9947											
RCBTB2	1102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	49084795	49084795	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacagtgacaggagtaggaTaggactggttgcttttattg	10	12	13	6	0	0	1	0	1	0	0	0	4	0	4	1	4	1	3	1	4	3	6	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	49084795	T	A	49084795	3	1	178	1	0	0	0	0	1	0	0	0	13174	1406	49	5	783	5	RCBTB2	13	49084795	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	13038251	49084795	66085083	63	9948											
MIPOL1	145282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	37777677	37777677	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaaatgagaataactgcaGaagaaatgagtgcactaata	20	8	9	4	0	0	4	0	2	0	3	0	5	0	4	0	0	3	3	0	0	8	4	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	37777677	G	A	37777677	3	1	178	1	0	0	0	0	1	0	0	0	9593	943	33	2	807	2	MIPOL1	14	37777677	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10		37777677	69571863	64	9949											
GALC	2581	hgsc.bcm.edu	37	chr14	88406277	88406277	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacgtgagtgtataccatTtttttgctgtaacttcaaca	11	17	6	7	1	1	1	1	1	0	0	1	1	1	1	1	0	5	3	1	0	5	8	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	88406277	T	G	88406277	3	3	178	1	0	0	0	0	1	0	0	0	6201	1841	64	5	182	5	GALC	14	88406277	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	50628600	88406277	18943263	65	9950											
DICER1	23405	hgsc.bcm.edu	37	chr14	95577719	95577719	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacactggtctcttcttCatcatgcaaatcaagctcct	10	13	6	12	0	5	0	3	0	2	0	7	1	6	1	1	2	3	2	1	2	3	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	95577719	C	A	95577719	4	1	178	1	0	0	0	0	0	1	0	0	4521	835	29	4	3633	4	DICER1	14	95577719	Nonsense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	7171442	95577719	11771821	66	9951											
CHRM5	1133	broad.mit.edu	37	chr15	34355731	34355731	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaaggaaccaggcctcctgGtcatcctcccgcaggagcac	10	5	11	15	1	1	0	1	0	0	0	4	3	4	2	5	4	2	2	5	4	2	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	34355731	A	A	34355731	4	1	178	1	0	0	0	0	0	1	0	0	3380	1270	44	2	815	2	CHRM5	15	34355731	Nonsense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10		34355731	68175661	67	9952											
NDUFAF1	51103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41689026	41689026	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttatcgaaactaacatcagGcttctcctcagaagaagtta	14	12	6	9	1	3	2	2	0	1	2	5	3	3	2	1	1	2	2	1	1	6	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	41689026	G	C	41689026	3	2	178	1	0	0	0	0	1	0	0	0	10274	1203	42	4	767	4	NDUFAF1	15	41689026	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	7333295	41689026	60842366	68	9953											
SPTBN5	51332	hgsc.bcm.edu	37	chr15	42178134	42178135	+	Frame_Shift_Del	DEL	CT	CT	-																															gctctgcatccttaaggaaaCtctcccggagggctgccttg																								novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		-	42178135	CT	-	42178134	7	5	178	1	0	1	0	1	0	0	0	0	15123	565	20	0	9953	0	SPTBN5	15	42178134	Frame_Shift_Del	DEL	CT	TCGA-B8-4143-01A-01D-1806-10	489108	42178134	60353258	69	9954											
CLPX	10845	hgsc.bcm.edu	37	chr15	65471324	65471324	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacatttaggacagcgcagCtggtttccacctttcccaga	9	10	8	14	1	0	1	0	0	0	1	2	2	2	2	4	2	2	3	4	2	1	4	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	65471324	C	T	65471324	2	4	178	1	0	0	0	0	0	0	0	1	3556	796	28	2		2	CLPX	15	65471324	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	23293190	65471324	37060068	70	9955											
TELO2	9894	broad.mit.edu	37	chr16	1550655	1550655	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcatgatcgtggcagaggtCgttagtgcccggatccaccc	7	8	14	12	3	0	2	0	1	0	1	3	3	1	3	3	4	1	3	3	4	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	1550655	T	T	1550655	2	4	178	1	0	0	0	0	0	0	0	1	15756	871	31	1		1	TELO2	16	1550655	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10		1550655	88804098	71	9956											
MKL2	57496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	14328057	14328057	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaaactcctccaactgcaGatcagcctcccccacggcct	10	7	6	18	1	1	2	1	1	0	1	4	2	4	2	6	1	4	1	6	1	3	0	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	14328057	G	A	14328057	3	1	178	1	0	0	0	0	1	0	0	0	9602	942	33	2	774	2	MKL2	16	14328057	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	12777402	14328057	76026696	72	9957											
HYDIN	54768	broad.mit.edu;ucsc.edu	37	chr16	70986456	70986456	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctggggccaccagagtCatctcggaggctaacttgcc	8	10	11	12	1	3	1	1	0	2	1	4	2	3	2	3	4	2	1	3	4	1	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	70986456	A	A	70986456	3	1	178	1	0	0	0	0	1	0	0	0	7467	826	29	4	9150	4	HYDIN	16	70986456	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	56658399	70986456	19368297	73	9958											
GRB7	2886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37899552	37899552	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acgaactgttcaagagctccCcagtgagtgcatgagggctg	10	8	13	10	1	1	3	1	2	0	1	2	4	2	3	2	1	3	4	2	1	2	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	37899552	C	T	37899552	3	4	178	1	0	0	0	0	1	0	0	0	6759	623	22	2	597	2	GRB7	17	37899552	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		37899552	43295658	74	9959											
SOX9	6662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	70120330	70120330	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacagtacgactacaccgaCcaccagaactccagctccta	13	6	5	17	2	1	1	1	0	0	1	3	3	3	1	5	0	4	2	5	0	4	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	70120330	C	A	70120330	3	1	178	1	0	0	0	0	1	0	0	0	14960	506	18	4	1342	4	SOX9	17	70120330	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	32220778	70120330	11074880	75	9960											
RECQL5	9400	broad.mit.edu;ucsc.edu	37	chr17	73654527	73654527	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagacttggcaatattccAatgggcgacaaacctgtagg	13	9	10	9	1	0	1	0	0	0	1	1	2	1	1	2	3	1	2	2	3	6	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	73654527	C	C	73654527	3	2	178	1	0	0	0	0	1	0	0	0	13205	130	5	5	2118	5	RECQL5	17	73654527	Missense_Mutation	SNP	A	TCGA-B8-4143-01A-01D-1806-10	3534197	73654527	7540683	76	9961											
ANAPC11	51529	broad.mit.edu;hgsc.bcm.edu	37	chr17	79857246	79857246	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacgcctgggcagcacaccGgatccctgatgtctagggaa	10	6	12	13	2	1	1	0	1	1	0	2	3	2	3	3	3	2	2	3	3	3	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	79857246	G	A	79857246	3	1	178	1	0	0	0	0	1	0	0	0	600	1117	39	1	244	1	ANAPC11	17	79857246	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	6202719	79857246	1337964	77	9962											
LILRA3	11026	broad.mit.edu;hgsc.bcm.edu	37	chr19	54803946	54803946	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctagggacagactcacctgCctgcacgtgggtcctggggt	6	8	15	12	1	1	1	1	0	0	1	2	2	2	2	3	4	2	2	3	4	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	54803946	C	T	54803946	3	4	178	1	0	0	0	0	1	0	0	0	8786	739	26	2	1276	2	LILRA3	19	54803946	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		54803946	4325037	78	9963											
CENPB	1059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3765589	3765589	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatcgtcctcttcctcActgtctgaatcagagtcctc	6	14	5	16	1	5	2	3	1	2	1	11	2	9	2	4	0	0	0	4	0	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		G	3765589	A	G	3765589	2	3	178	1	0	0	0	0	0	0	0	1	3227	156	6	3		3	CENPB	20	3765589	Silent	SNP	A	TCGA-B8-4143-01A-01D-1806-10		3765589	59259931	79	9964											
RBM39	9584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34312531	34312531	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggcacgcctaaaactcgTtggccagttaatcctattgc	10	12	8	11	2	0	0	0	0	0	0	2	0	1	0	3	2	2	3	3	2	4	6	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	34312531	T	C	34312531	2	2	178	1	0	0	0	0	0	0	0	1	13135	1722	60	3		3	RBM39	20	34312531	Silent	SNP	T	TCGA-B8-4143-01A-01D-1806-10	30546942	34312531	28712989	80	9965											
KRTAP13-1	140258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	31768458	31768458	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccgctcctgtggtggctaCctgcactacccagcctcctc	4	10	8	19	1	0	0	0	0	0	0	4	0	3	0	6	2	4	3	6	2	2	2	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	31768458	C	T	31768458	2	4	178	1	0	0	0	0	0	0	0	1	8522	518	18	2		2	KRTAP13-1	21	31768458	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10		31768458	16361437	81	9966											
DSCR6	53820	broad.mit.edu	37	chr21	38390280	38390280	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacttctacgacgatgagTctactgagtctgcttccgaa	9	13	9	10	3	3	3	0	3	3	0	4	6	4	3	1	0	3	1	1	0	3	5	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	38390280	C	C	38390280	3	2	178	1	0	0	0	0	1	0	0	0	4773	1667	58	3	360	3	DSCR6	21	38390280	Missense_Mutation	SNP	T	TCGA-B8-4143-01A-01D-1806-10	6621822	38390280	9739615	82	9967											
DCAF8L2	347442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	27766775	27766775	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctcctgcgtcacgtgaCgcagagaggtcgtcaccagg	7	8	13	13	4	2	2	2	1	0	1	5	3	4	2	3	2	1	2	3	2	0	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	27766775	C	T	27766775	3	4	178	1	0	0	0	0	1	0	0	0	4278	536	19	1	1765	1	DCAF8L2	23	27766775	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10		27766775	127503785	83	9968											
HUWE1	10075	broad.mit.edu	37	chrX	53586385	53586385	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcagaacgggcgatGatgtggacgtcatcgttgcc	9	10	12	10	4	4	2	4	1	0	1	5	4	4	3	1	2	2	1	1	2	1	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	53586385	T	T	53586385	2	4	178	1	0	0	0	0	0	0	0	1	7461	1280	45	4		4	HUWE1	23	53586385	Silent	SNP	G	TCGA-B8-4143-01A-01D-1806-10	25819610	53586385	101684175	84	9969											
KIAA1210	57481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118217056	118217056	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaagtgaacatctttttagGttggttttcatttgcagagc	9	16	11	5	0	2	2	1	1	1	1	2	3	2	3	0	3	3	3	0	3	3	7	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		C	118217056	G	C	118217056	3	2	178	1	0	0	0	0	1	0	0	0	8214	1261	44	4	261	4	KIAA1210	23	118217056	Missense_Mutation	SNP	G	TCGA-B8-4143-01A-01D-1806-10	64630671	118217056	37053504	85	9970											
ZBTB33	10009	hgsc.bcm.edu	37	chrX	119387833	119387834	+	In_Frame_Ins	INS	-	-	TGA																															aagatcattgttaccgattcINStgatgatgatgatgatgatg																								novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		TGA	119387834	-	TGA	119387833	7	5	178	1	0	1	1	0	0	0	0	0	17535	913	32	0	565	0	ZBTB33	23	119387833	In_Frame_Ins	INS	-	TCGA-B8-4143-01A-01D-1806-10	1170777	119387833	35882727	86	9971											
DDX26B	203522	hgsc.bcm.edu	37	chrX	134715017	134715017	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgaagaagtgcaaggacCtctggagatgaagaaacagt	15	7	13	6	0	1	5	0	2	1	3	1	7	1	6	1	2	2	2	1	2	5	1	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		T	134715017	C	T	134715017	3	4	178	1	0	0	0	0	1	0	0	0	4353	681	24	2	2488	2	DDX26B	23	134715017	Missense_Mutation	SNP	C	TCGA-B8-4143-01A-01D-1806-10	15327184	134715017	20555543	87	9972											
CLIC2	1193	broad.mit.edu;ucsc.edu	37	chrX	154563725	154563725	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacttgagtgccgggccgCaggcctgacatctttgtctt	5	12	11	13	2	2	2	0	2	2	0	3	2	3	2	4	2	1	1	4	2	0	3	novel		TCGA-B8-4143-01A-01D-1806-10	TCGA-B8-4143-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bb186c78-1052-48ec-97f4-c94bddf0df72	51a86b5e-507a-41c0-b689-4d1fc3f6c507		A	154563725	A	A	154563725	2	1	178	1	0	0	0	0	0	0	0	1	3526	697	25	4		4	CLIC2	23	154563725	Silent	SNP	C	TCGA-B8-4143-01A-01D-1806-10	19848708	154563725	706835	88	9973											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201079330	201079330	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgtcatcttccggcaTgggcaggtacacggccaggg	6	10	15	10	2	2	0	1	0	1	0	3	0	3	0	2	5	1	5	2	5	1	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		G	201079330	T	G	201079330	3	3	179	1	0	0	0	0	1	0	0	0	2547	1464	51	5	5573	5	CACNA1S	1	201079330	Missense_Mutation	SNP	T	TCGA-B8-4146-01B-11D-1669-08		201079330	48171291	1	9974											
ZNF669	79862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247265092	247265092	+	Silent	SNP	T	T	C																															ttctggtctttccattggctTcctaaaatgcagacccataa																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	247265092	T	C	247265092	2	2	179	1	0	0	0	0	0	0	0	1	18075	1797	62	3		3	ZNF669	1	247265092	Silent	SNP	T	TCGA-B8-4146-01B-11D-1669-08	46185762	247265092	1985529	2	9975	149	2									
ZNF669	79862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247265093	247265093	+	Missense_Mutation	SNP	C	C	A																															tctggtctttccattggcttCctaaaatgcagacccataaa																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	247265093	C	A	247265093	3	1	179	1	0	0	0	0	1	0	0	0	18075	869	30	4	1013	4	ZNF669	1	247265093	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08	1	247265093	1985528	3	9976	149	2									
NLRC4	58484	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32476580	32476580	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatatcttcaccaaggggaTaaaagttcagaaaagatggg	17	8	10	6	0	3	2	2	0	1	2	3	3	3	3	1	3	0	1	1	3	7	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	32476580	T	A	32476580	3	1	179	1	0	0	0	0	1	0	0	0	10469	1406	49	5	2745	5	NLRC4	2	32476580	Missense_Mutation	SNP	T	TCGA-B8-4146-01B-11D-1669-08		32476580	210722793	4	9977											
CACNB4	785	broad.mit.edu;hgsc.bcm.edu	37	chr2	152709962	152709962	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaaatgatcatacttacTggggggcattgtgcaagttt	13	12	10	6	0	1	1	1	1	0	0	1	1	1	1	0	3	3	3	0	3	6	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	152709962	T	C	152709962	2	2	179	1	0	0	0	0	0	0	0	1	2555	1594	55	3		3	CACNB4	2	152709962	Silent	SNP	T	TCGA-B8-4146-01B-11D-1669-08	120233382	152709962	90489411	5	9978											
EOMES	8320	broad.mit.edu	37	chr3	27763289	27763289	+	Frame_Shift_Del	DEL	T	-	-																															ggggcgccccagccgccgccTggtacgggaagagtgagcag																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	27763289	-	-	27763289	7	5	179	1	0	1	0	1	0	0	0	0	5147	1580	55	0	1587	0	EOMES	3	27763289	Frame_Shift_Del	DEL	T	TCGA-B8-4146-01B-11D-1669-08		27763289	170259141	6	9979											
SIDT1	54847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113325904	113325904	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaggtggtaaatgtcactgGcaaccaggacatctgttact	12	10	10	9	0	2	0	1	0	1	0	2	1	2	1	1	4	2	3	1	4	4	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	113325904	G	C	113325904	3	2	179	1	0	0	0	0	1	0	0	0	14304	1203	42	4	1479	4	SIDT1	3	113325904	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08	85562615	113325904	84696526	7	9980											
PEX5L	51555	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	179526182	179526182	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcatatctccattttggtGggcagcttccagatataatt	10	15	8	8	0	2	1	1	0	1	1	4	2	3	1	2	2	1	2	2	2	3	7	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	179526182	G	A	179526182	3	1	179	1	0	0	0	0	1	0	0	0	11749	1348	47	2	496	2	PEX5L	3	179526182	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08	66200278	179526182	18496248	8	9981											
ZNF721	170960	hgsc.bcm.edu;ucsc.edu	37	chr4	437566	437566	+	Frame_Shift_Del	DEL	A	A	-																															ttcaggtgtgaggaatgcatAaaggctttcccacattcttt																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	437566	A	-	437566	7	5	179	1	0	1	0	1	0	0	0	0	18121	359	13	0	2085	0	ZNF721	4	437566	Frame_Shift_Del	DEL	A	TCGA-B8-4146-01B-11D-1669-08		437566	190716710	9	9982											
KIAA0232	9778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	6843902	6843902	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaaaaaacaggctgctGtccagtgtcttcgatctgct	12	11	9	9	1	2	1	0	1	2	0	4	2	3	1	1	1	3	3	1	1	4	1	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	6843902	G	A	6843902	3	1	179	1	0	0	0	0	1	0	0	0	8163	1377	48	2	346	2	KIAA0232	4	6843902	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08	6406336	6843902	184310374	10	9983											
ZNF518B	85460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	10447375	10447375	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaccatagtcacaatacTcacactgataaggaaatatg	17	9	6	9	0	2	1	2	1	0	0	2	2	2	2	1	1	2	1	1	1	7	5	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	10447375	T	C	10447375	3	2	179	1	0	0	0	0	1	0	0	0	17962	1551	54	3	2650	3	ZNF518B	4	10447375	Missense_Mutation	SNP	T	TCGA-B8-4146-01B-11D-1669-08	3603473	10447375	180706901	11	9984											
ANP32C	23520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	165118171	165118172	+	Frame_Shift_Ins	INS	-	-	T																															caggttctcattttcgcttcINStgacccctttcttcttcacc																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	165118172	-	T	165118171	7	5	179	1	0	1	1	0	0	0	0	0	707	912	32	0	14	0	ANP32C	4	165118171	Frame_Shift_Ins	INS	-	TCGA-B8-4146-01B-11D-1669-08	154670796	165118171	26036105	12	9985											
HSPA9	3313	broad.mit.edu;hgsc.bcm.edu	37	chr5	137910976	137910976	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgcggcgcccacgagaCgggctgctgcagctcggctg	5	5	17	14	5	0	1	0	0	0	1	1	2	0	1	1	4	4	6	1	4	0	0	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	137910976	C	A	137910976	3	1	179	1	0	0	0	0	1	0	0	0	7417	536	19	4	2075	4	HSPA9	5	137910976	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08		137910976	43004284	13	9986											
BTNL8	79908	hgsc.bcm.edu	37	chr5	180376249	180376249	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctttcagaattgagagaCgcccggaaacacgcaggtac	12	8	11	10	3	1	3	1	1	0	2	1	5	1	4	1	2	3	3	1	2	3	4	rs149566660	bycluster;byfrequency;by1000genomes	TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	180376249	C	T	180376249	3	4	179	1	0	0	0	0	1	0	0	0	1567	536	19	1	1028	1	BTNL8	5	180376249	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08	42465273	180376249	539011	14	9987											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56483775	56483775	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttggaagcattcagttccGcattcagatttctaacttct	9	16	6	10	1	4	1	2	0	2	1	5	2	5	2	1	1	2	3	1	1	2	7	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	56483775	G	A	56483775	3	1	179	1	0	0	0	0	1	0	0	0	4783	1087	38	1	15346	1	DST	6	56483775	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08		56483775	114631292	15	9988											
PRIM2	5558	broad.mit.edu;hgsc.bcm.edu	37	chr6	57372299	57372299	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcttttagttaacagccagGtccttgcctgctgtgcagtc	6	14	10	11	0	0	0	0	0	0	0	2	0	1	0	3	1	6	4	3	1	2	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	57372299	G	A	57372299	2	1	179	1	0	0	0	0	0	0	0	1	12493	1252	44	2		2	PRIM2	6	57372299	Silent	SNP	G	TCGA-B8-4146-01B-11D-1669-08	888524	57372299	113742768	16	9989											
ZNF107	51427	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	64168953	64168953	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagattatggcagagctttCaacctatcctcaaatcttac	12	12	7	10	0	3	2	2	0	1	2	4	3	4	2	2	2	3	2	2	2	5	4	rs139989226		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	64168953	C	T	64168953	2	4	179	1	0	0	0	0	0	0	0	1	17714	825	29	2		2	ZNF107	7	64168953	Silent	SNP	C	TCGA-B8-4146-01B-11D-1669-08		64168953	94969710	17	9990											
CLN8	2055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	1728612	1728612	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttacgctaatcattaatcCatattggacccataagaaga	15	11	6	9	1	1	2	1	0	0	2	2	3	2	3	2	1	1	2	2	1	6	6	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	1728612	C	T	1728612	3	4	179	1	0	0	0	0	1	0	0	0	3546	594	21	2	746	2	CLN8	8	1728612	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08		1728612	144635410	18	9991											
PGCP	0	hgsc.bcm.edu	37	chr8	97847356	97847357	+	Frame_Shift_Ins	INS	-	-	T																															ggcggtggaagctgccaaggINStgggggctttggcatctctc																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	97847357	-	T	97847356	7	5	179	1	0	1	1	0	0	0	0	0	11786	1261	44	0	595	0	PGCP	8	97847356	Frame_Shift_Ins	INS	-	TCGA-B8-4146-01B-11D-1669-08	96118744	97847356	48516666	19	9992											
ASTN2	23245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	119413893	119413893	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tggtgtggggctcagctgctCcttgcctggccggcggcaaa	4	9	16	12	2	1	0	1	0	0	0	2	0	2	0	3	6	3	4	3	6	1	1	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		G	119413893	C	G	119413893	3	3	179	1	0	0	0	0	1	0	0	0	1065	864	30	4	1180	4	ASTN2	9	119413893	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08		119413893	21799538	20	9993											
KCNMA1	3778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	78872137	78872137	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttactcaccaaatggatgaaCccggctgcagtcagccacgt	11	8	9	13	2	2	1	2	1	0	0	2	2	2	2	3	2	4	2	3	2	3	1	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	78872137	C	A	78872137	2	1	179	1	0	0	0	0	0	0	0	1	8073	494	18	4		4	KCNMA1	10	78872137	Silent	SNP	C	TCGA-B8-4146-01B-11D-1669-08		78872137	56662610	21	9994											
FAM45A	404636	broad.mit.edu;hgsc.bcm.edu	37	chr10	120877121	120877121	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagagtgaagaaaacggCtctttccttagtaaggattt	12	12	10	7	1	1	3	0	1	1	2	2	4	2	4	2	2	2	2	2	2	5	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	120877121	C	A	120877121	2	1	179	1	0	0	0	0	0	0	0	1	5564	784	28	4		4	FAM45A	10	120877121	Silent	SNP	C	TCGA-B8-4146-01B-11D-1669-08	42004984	120877121	14657626	22	9995											
LRRC55	219527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56954876	56954876	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctccattgcttctgtGgccaccaacttcctcctggg	4	13	10	14	0	2	0	0	0	2	0	5	0	4	0	5	3	2	1	5	3	1	3	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	56954876	G	A	56954876	2	1	179	1	0	0	0	0	0	0	0	1	9011	1335	47	2		2	LRRC55	11	56954876	Silent	SNP	G	TCGA-B8-4146-01B-11D-1669-08		56954876	78051640	23	9996											
SLC22A9	114571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63141417	63141418	+	Frame_Shift_Del	DEL	TG	TG	-																															catgggaattacattgggaaTgtgcccttctggtattgcat																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	63141418	TG	-	63141417	7	5	179	1	0	1	0	1	0	0	0	0	14463	1464	51	0	727	0	SLC22A9	11	63141417	Frame_Shift_Del	DEL	TG	TCGA-B8-4146-01B-11D-1669-08	6186541	63141417	71865099	24	9997											
CCDC82	79780	broad.mit.edu;ucsc.edu	37	chr11	96092231	96092231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaacttgttcatcttcaaCttcttctgtcattgcaatgg	8	19	5	9	0	6	0	3	0	3	0	6	0	6	0	0	1	3	2	0	1	3	8	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	96092231	T	T	96092231	3	4	179	1	0	0	0	0	1	0	0	0	2856	565	20	2	150	2	CCDC82	11	96092231	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08	32950814	96092231	38914285	25	9998											
OVCH1	341350	broad.mit.edu;hgsc.bcm.edu	37	chr12	29640641	29640641	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctacctgtgaacaggttttGagtgataaaatccatcaact	13	12	7	9	0	1	3	1	3	0	0	2	3	2	3	3	1	3	1	3	1	5	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	29640641	G	C	29640641	3	2	179	1	0	0	0	0	1	0	0	0	11323	1299	45	4	2615	4	OVCH1	12	29640641	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08		29640641	104211254	26	9999											
ASB8	140461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48543458	48543458	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccaggcgggagatgggTgtctggcctattaggttgat	7	10	16	8	1	1	2	0	1	1	1	1	3	1	2	3	5	0	1	3	5	2	3	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	48543458	T	C	48543458	2	2	179	1	0	0	0	0	0	0	0	1	1029	1683	59	3		3	ASB8	12	48543458	Silent	SNP	T	TCGA-B8-4146-01B-11D-1669-08	18902817	48543458	85308437	27	10000											
MLL2	8085	broad.mit.edu	37	chr12	49427700	49427700	+	Frame_Shift_Del	DEL	C	-	-																															tgttgttgctgctgcttgttCcgatattctgccatgagatt																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	49427700	-	-	49427700	7	5	179	1	0	1	0	1	0	0	0	0	9621	842	30	0	5889	0	MLL2	12	49427700	Frame_Shift_Del	DEL	C	TCGA-B8-4146-01B-11D-1669-08	884242	49427700	84424195	28	10001											
HOXC8	3224	hgsc.bcm.edu;ucsc.edu	37	chr12	54403350	54403350	+	Frame_Shift_Del	DEL	C	C	-																															ttctatggctacgaggcgctCcccagacagtccctttatgg																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	54403350	C	-	54403350	7	5	179	1	0	1	0	1	0	0	0	0	7316	842	30	0	284	0	HOXC8	12	54403350	Frame_Shift_Del	DEL	C	TCGA-B8-4146-01B-11D-1669-08	4975650	54403350	79448545	29	10002											
CHD8	57680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21875113	21875113	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgccattcaatttcacgaaGctcaggacaatctgacaaaa	16	8	6	11	2	4	1	3	1	1	0	4	3	4	2	1	1	1	1	1	1	5	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	21875113	G	C	21875113	3	2	179	1	0	0	0	0	1	0	0	0	3331	971	34	4	5036	4	CHD8	14	21875113	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08		21875113	85474427	30	10003											
ARF6	382	broad.mit.edu;hgsc.bcm.edu	37	chr14	50360965	50360965	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggctcacatggttaaccTctaactacaaatcttaatga	14	11	7	9	0	3	1	1	1	2	0	3	1	3	1	1	3	3	2	1	3	5	4	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	50360965	T	A	50360965	3	1	179	1	0	0	0	0	1	0	0	0	848	1551	54	5	513	5	ARF6	14	50360965	Missense_Mutation	SNP	T	TCGA-B8-4146-01B-11D-1669-08	28485852	50360965	56988575	31	10004											
CDAN1	146059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43026449	43026449	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacactgccctcataggcaGctcgaaggcggccttgcaga	10	6	11	14	2	1	1	1	0	0	1	2	2	1	1	2	3	4	3	2	3	3	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	43026449	G	C	43026449	3	2	179	1	0	0	0	0	1	0	0	0	3054	971	34	4	2539	4	CDAN1	15	43026449	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08		43026449	59504943	32	10005											
LIPC	3990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	58834808	58834808	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacgtgtcaggatttgccGgcagttccatcggtggaacg	8	9	13	11	4	1	0	1	0	0	0	3	2	2	2	2	4	2	2	2	4	1	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	58834808	G	A	58834808	3	1	179	1	0	0	0	0	1	0	0	0	8820	1116	39	1	546	1	LIPC	15	58834808	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08	15808359	58834808	43696584	33	10006											
SH2D7	646892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78393416	78393416	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagctggcagccaggcctActccccaggcagggaggccc	7	4	13	17	0	0	0	0	0	0	0	2	1	2	1	6	5	3	3	6	5	1	1	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		G	78393416	A	G	78393416	3	3	179	1	0	0	0	0	1	0	0	0	14241	391	14	3	839	3	SH2D7	15	78393416	Missense_Mutation	SNP	A	TCGA-B8-4146-01B-11D-1669-08	19558608	78393416	24137976	34	10007											
CPEB1	64506	broad.mit.edu	37	chr15	83215272	83215272	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaggggtcaatctgaacCtgcacaaaggcaaaataaga	17	6	11	7	0	2	2	1	1	1	1	2	2	2	2	1	4	2	3	1	4	7	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	83215272	A	A	83215272	5	1	179	1	0	0	0	0	0	0	1	0	3800	695	24	4	199	4	CPEB1	15	83215272	Splice_Site	SNP	C	TCGA-B8-4146-01B-11D-1669-08	4821856	83215272	19316120	35	10008											
ATP2A1	487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28898565	28898565	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgacccccgagctgtCaaccaggacaagaagaacat	13	6	9	13	1	1	3	1	1	0	2	2	5	2	4	4	1	3	2	4	1	4	1	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	28898565	C	A	28898565	2	1	179	1	0	0	0	0	0	0	0	1	1136	813	29	4		4	ATP2A1	16	28898565	Silent	SNP	C	TCGA-B8-4146-01B-11D-1669-08		28898565	61456188	36	10009											
SREBF1	6720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	17723754	17723754	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggggctggcagggtctgtgCcccctgccccactcccagca	4	6	13	18	1	1	0	0	0	1	0	2	0	2	0	5	4	3	3	5	4	0	0	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	17723754	C	T	17723754	3	4	179	1	0	0	0	0	1	0	0	0	15142	739	26	2	3342	2	SREBF1	17	17723754	Missense_Mutation	SNP	C	TCGA-B8-4146-01B-11D-1669-08		17723754	63471456	37	10010											
MED13	9969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60028244	60028244	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgaccagaaccagtcaGgtaatggacctgctttggca	11	9	11	10	0	1	2	1	1	0	1	1	3	1	3	3	3	3	4	3	3	2	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	60028244	G	C	60028244	3	2	179	1	0	0	0	0	1	0	0	0	9430	1000	35	4	303	4	MED13	17	60028244	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08	42304490	60028244	21166966	38	10011											
EVPL	2125	broad.mit.edu;hgsc.bcm.edu	37	chr17	74018281	74018281	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcaccagtaggtctcGgtattggctccggatggtgg	5	11	14	11	2	2	0	1	0	1	0	4	1	3	1	3	6	1	4	3	6	2	3	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	74018281	G	A	74018281	4	1	179	1	0	0	0	0	0	1	0	0	5292	1124	39	1	5535	1	EVPL	17	74018281	Nonsense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08	13990037	74018281	7176929	39	10012											
OR7C1	26664	hgsc.bcm.edu	37	chr19	14910636	14910636	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggcatccaaatgaagTgaaaaaaaaaatctgactga	19	7	8	7	0	1	4	0	4	1	0	3	4	3	4	2	1	0	1	2	1	7	0	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		A	14910636	T	A	14910636	3	1	179	1	0	0	0	0	1	0	0	0	11217	1696	59	5	651	5	OR7C1	19	14910636	Missense_Mutation	SNP	T	TCGA-B8-4146-01B-11D-1669-08		14910636	44218347	40	10013											
ABHD8	79575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17405546	17405546	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaggtgggcatgttgaaGattgagcagaagctgggctc	10	8	16	7	1	0	4	0	2	0	2	1	4	0	4	0	3	2	6	0	3	2	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		T	17405546	G	T	17405546	2	4	179	1	0	0	0	0	0	0	0	1	87	932	33	4		4	ABHD8	19	17405546	Silent	SNP	G	TCGA-B8-4146-01B-11D-1669-08	2494910	17405546	41723437	41	10014											
ZBED4	9889	broad.mit.edu;hgsc.bcm.edu	37	chr22	50279076	50279076	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggccggaccatcagccgggGgaagaagccgactaacttgg	10	5	15	11	3	1	1	1	0	0	1	1	4	1	3	4	5	3	0	4	5	3	2	novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		C	50279076	G	C	50279076	3	2	179	1	0	0	0	0	1	0	0	0	17519	1232	43	4	1768	4	ZBED4	22	50279076	Missense_Mutation	SNP	G	TCGA-B8-4146-01B-11D-1669-08		50279076	1025490	42	10015											
TEX13A	56157	hgsc.bcm.edu	37	chrX	104464282	104464282	+	Frame_Shift_Del	DEL	C	C	-																															gcagccacaacctccaacatCccctctgctcttcttctgct																								rs140438281		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	104464282	C	-	104464282	7	5	179	1	0	1	0	1	0	0	0	0	15775	855	30	0	639	0	TEX13A	23	104464282	Frame_Shift_Del	DEL	C	TCGA-B8-4146-01B-11D-1669-08		104464282	50806278	43	10016											
KLHL13	90293	hgsc.bcm.edu;ucsc.edu	37	chrX	117032986	117032986	+	Frame_Shift_Del	DEL	T	T	-																															attctggcagatcaaaaaccTtatgccattcatctttatct																								novel		TCGA-B8-4146-01B-11D-1669-08	TCGA-B8-4146-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	380bdba7-8a12-4136-877a-f54346d2d8a5	7f73a3eb-cc5d-415f-bbf8-11869e62daf9		-	117032986	T	-	117032986	7	5	179	1	0	1	0	1	0	0	0	0	8369	1609	56	0	118	0	KLHL13	23	117032986	Frame_Shift_Del	DEL	T	TCGA-B8-4146-01B-11D-1669-08	12568704	117032986	38237574	44	10017											
MAGI3	260425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114184768	114184768	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaatcctcaggattttaaGccaggagcaatggttctgga	12	11	11	7	0	2	1	1	1	1	0	3	4	3	4	2	4	2	2	2	4	3	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	114184768	G	T	114184768	3	4	180	1	0	0	0	0	1	0	0	0	9192	962	34	4	1634	4	MAGI3	1	114184768	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		114184768	135065853	1	10018											
FLG	2312	broad.mit.edu;hgsc.bcm.edu	37	chr1	152280282	152280282	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgactaccactggaccctcgGtgtccactgtctctgactgc	6	11	9	15	1	1	2	0	2	1	0	4	3	2	3	3	2	2	0	3	2	1	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	152280282	G	C	152280282	3	2	180	1	0	0	0	0	1	0	0	0	5922	1252	44	4	5109	4	FLG	1	152280282	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	38095514	152280282	96970339	2	10019											
TP53BP2	7159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223994599	223994599	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgttgctgctggcgagaTgccatttcctgaagttcagc	7	13	11	10	1	2	2	1	1	1	1	3	3	3	2	2	1	4	4	2	1	1	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	223994599	T	C	223994599	2	2	180	1	0	0	0	0	0	0	0	1	16383	1451	51	3		3	TP53BP2	1	223994599	Silent	SNP	T	TCGA-B8-4148-01A-02D-1386-10	71714317	223994599	25256022	3	10020											
DDX1	1653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	15758358	15758358	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataaataggatgcacaatcaGattcctcaggttacctctga	14	11	7	9	0	3	2	2	1	1	1	4	3	4	3	2	2	2	2	2	2	5	4	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	15758358	G	C	15758358	3	2	180	1	0	0	0	0	1	0	0	0	4341	933	33	4	1232	4	DDX1	2	15758358	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		15758358	227441015	4	10021											
ATP6V1B1	525	broad.mit.edu;ucsc.edu	37	chr2	71190307	71190307	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcaggtctctgctgctagaGaggaggtgcctgggcgccga	6	8	17	10	2	1	1	0	0	1	1	2	4	1	2	2	4	4	3	2	4	1	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	71190307	C	C	71190307	3	2	180	1	0	0	0	0	1	0	0	0	1178	943	33	4	963	4	ATP6V1B1	2	71190307	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	55431949	71190307	172009066	5	10022											
HSPD1	3329	broad.mit.edu;hgsc.bcm.edu	37	chr2	198362076	198362076	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacaccatcttttgttactTtgggacttccccaactctgc	7	15	5	14	0	3	0	1	0	2	0	4	1	4	1	3	1	3	1	3	1	2	5	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		G	198362076	T	G	198362076	3	3	180	1	0	0	0	0	1	0	0	0	7428	1841	64	5	1546	5	HSPD1	2	198362076	Missense_Mutation	SNP	T	TCGA-B8-4148-01A-02D-1386-10	127171769	198362076	44837297	6	10023											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191557	10191558	+	Frame_Shift_Ins	INS	-	-	T																															actggacatcgtcaggtcgcINStctacgaagatctggaagac																								novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	10191558	-	T	10191557	7	5	180	1	0	1	1	0	0	0	0	0	17161	797	28	0	560	0	VHL	3	10191557	Frame_Shift_Ins	INS	-	TCGA-B8-4148-01A-02D-1386-10		10191557	187830873	7	10024											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52651357	52651357	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattccctcttcaccagcaTatttgtcattgcggatgtta	8	16	6	11	1	4	0	3	0	1	0	5	1	5	1	2	1	2	2	2	1	2	6	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	52651357	T	C	52651357	3	2	180	1	0	0	0	0	1	0	0	0	11491	1406	49	3	3229	3	PBRM1	3	52651357	Missense_Mutation	SNP	T	TCGA-B8-4148-01A-02D-1386-10	42459800	52651357	145371073	8	10025											
MUC4	4585	hgsc.bcm.edu	37	chr3	195510011	195510011	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaggaagagaggtggCgtgacctgtggacactgacg	10	6	18	7	2	0	4	0	3	0	1	0	7	0	6	1	5	0	0	1	5	1	0	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	195510011	C	T	195510011	3	4	180	1	0	0	0	0	1	0	0	0	9978	768	27	1		1	MUC4	3	195510011	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10	142858654	195510011	2512419	9	10026											
CENPE	1062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	104080236	104080236	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagattaactatttcctgAttcattctctcattctcctc	9	17	4	11	0	4	2	2	1	2	1	8	4	5	2	2	0	1	0	2	0	2	6	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	104080236	A	C	104080236	3	2	180	1	0	0	0	0	1	0	0	0	3230	330	12	5	5685	5	CENPE	4	104080236	Missense_Mutation	SNP	A	TCGA-B8-4148-01A-02D-1386-10		104080236	87074040	10	10027											
ADAM29	11086	hgsc.bcm.edu	37	chr4	175899075	175899075	+	Missense_Mutation	SNP	C	C	T																															ccagagtcaacctcctgtgaCaccctcccagaggcaacctc																								rs140568401	byfrequency	TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	175899075	C	T	175899075	3	4	180	1	0	0	0	0	1	0	0	0	247	478	17	2	2401	2	ADAM29	4	175899075	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10	71818839	175899075	15255201	11	10028	150	3									
ADAM29	11086	hgsc.bcm.edu	37	chr4	175899076	175899076	+	Silent	SNP	A	A	G																															cagagtcaacctcctgtgacAccctcccagaggcaacctca																								rs61744599	bycluster;byfrequency	TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		G	175899076	A	G	175899076	2	3	180	1	0	0	0	0	0	0	0	1	247	146	6	3		3	ADAM29	4	175899076	Silent	SNP	A	TCGA-B8-4148-01A-02D-1386-10	1	175899076	15255200	12	10029	150	3									
ADAM29	11086	hgsc.bcm.edu	37	chr4	175899079	175899079	+	Silent	SNP	C	C	T																															agtcaacctcctgtgacaccCtcccagaggcaacctcagtt																								rs151310201	byfrequency	TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	175899079	C	T	175899079	2	4	180	1	0	0	0	0	0	0	0	1	247	668	24	2		2	ADAM29	4	175899079	Silent	SNP	C	TCGA-B8-4148-01A-02D-1386-10	3	175899079	15255197	13	10030	150	3									
VCAN	1462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	82815685	82815685	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaactgaaacaccattGgtaactgcaagaatgatcct	14	10	7	10	0	0	3	0	2	0	1	1	3	1	3	3	1	4	3	3	1	5	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	82815685	G	T	82815685	3	4	180	1	0	0	0	0	1	0	0	0	17137	1339	47	4	1582	4	VCAN	5	82815685	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		82815685	98099575	14	10031											
PCDHB3	56132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140480794	140480794	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactcgcagtcgtagggaCggaaggaagtacccggaact	11	6	13	11	4	1	0	1	0	0	0	3	4	1	4	1	4	2	3	1	4	5	2	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	140480794	C	T	140480794	2	4	180	1	0	0	0	0	0	0	0	1	11543	535	19	1		1	PCDHB3	5	140480794	Silent	SNP	C	TCGA-B8-4148-01A-02D-1386-10	57665109	140480794	40434466	15	10032											
EDN1	1906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	12292680	12292680	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcgctgctcctgctcgtcCctgatggataaagagtgtgt	8	11	12	10	2	0	2	0	1	0	1	3	3	2	3	2	1	3	3	2	1	3	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	12292680	C	T	12292680	2	4	180	1	0	0	0	0	0	0	0	1	4916	610	22	2		2	EDN1	6	12292680	Silent	SNP	C	TCGA-B8-4148-01A-02D-1386-10		12292680	158822387	16	10033											
COX19	90639	broad.mit.edu;ucsc.edu	37	chr7	1012903	1012903	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatgaagacacttcatgaaTttctctttaaagcttttaca	13	17	4	7	0	2	3	1	2	1	1	3	3	2	3	0	0	2	1	0	0	6	7	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		A	1012903	A	A	1012903	3	1	180	1	0	0	0	0	1	0	0	0	3768	1490	52	5	172	5	COX19	7	1012903	Missense_Mutation	SNP	T	TCGA-B8-4148-01A-02D-1386-10		1012903	158125760	17	10034											
POTEA	340441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	43147724	43147724	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtggtgctgctgctgcttcCcctgctgcaggggaagcggc	4	9	16	12	1	0	0	0	0	0	0	1	1	1	1	2	4	7	6	2	4	1	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	43147724	C	T	43147724	3	4	180	1	0	0	0	0	1	0	0	0	12261	623	22	2	99	2	POTEA	8	43147724	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10		43147724	103216298	18	10035											
SURF4	6836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136234216	136234216	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggtgtcgatgtagtcgcGctgctcgctccactggaacc	5	10	14	12	4	0	0	0	0	0	0	4	2	1	1	2	3	2	4	2	3	2	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		A	136234216	G	A	136234216	3	1	180	1	0	0	0	0	1	0	0	0	15404	1087	38	1	675	1	SURF4	9	136234216	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		136234216	4979215	19	10036											
FBXO18	84893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5951142	5951142	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacacagccaccactaagtGctctccgagtgtggatcccg	10	8	9	14	2	1	0	0	0	1	0	3	2	2	1	4	1	3	1	4	1	2	2	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		A	5951142	G	A	5951142	3	1	180	1	0	0	0	0	1	0	0	0	5731	1319	46	2	1085	2	FBXO18	10	5951142	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		5951142	129583605	20	10037											
ZEB1	6935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	31799802	31799805	+	In_Frame_Del	DEL	AAGT	AAGT	-																															acataaatcaggaagagatcAagtaagtgcaatgactgaga																								novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	AAGT	AAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		-	31799805	AAGT	-	31799802	7	5	180	1	0	1	0	1	0	0	0	0	17622	144	5	0	715	0	ZEB1	10	31799802	In_Frame_Del	DEL	AAGT	TCGA-B8-4148-01A-02D-1386-10	25848660	31799802	103734945	21	10038											
C10orf57	0	broad.mit.edu;ucsc.edu	37	chr10	81838462	81838462	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtgttgcagccatggctAcggcagccggcgcgacctac	7	6	15	13	4	0	0	0	0	0	0	0	2	0	0	3	4	5	4	3	4	2	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	81838462	C	C	81838462	3	2	180	1	0	0	0	0	1	0	0	0	1609	391	14	5	9	5	C10orf57	10	81838462	Missense_Mutation	SNP	A	TCGA-B8-4148-01A-02D-1386-10	50038660	81838462	53696285	22	10039											
STAMBPL1	57559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	90682964	90682964	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaagacataaaaataattGtgttggatctgaggtgatat	17	13	9	2	0	1	3	0	2	1	1	1	4	1	4	0	2	0	1	0	2	7	6	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	90682964	G	T	90682964	3	4	180	1	0	0	0	0	1	0	0	0	15252	1377	48	4	1332	4	STAMBPL1	10	90682964	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	8844502	90682964	44851783	23	10040											
RELA	5970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65426222	65426222	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcacacagtaggaagatctCatccccaccgaggcagctgc	11	6	10	14	1	2	1	2	0	1	1	4	3	3	2	3	2	2	3	3	2	2	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	65426222	C	T	65426222	3	4	180	1	0	0	0	0	1	0	0	0	13218	835	29	2	1044	2	RELA	11	65426222	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10		65426222	69580294	24	10041											
BCL9L	283149	broad.mit.edu;ucsc.edu	37	chr11	118779364	118779364	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctcctggggtggggtaaCctgggaggaggtgggagaaa	8	7	19	7	0	0	1	0	0	0	1	2	4	2	3	3	8	1	1	3	8	2	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	118779364	T	T	118779364	2	4	180	1	0	0	0	0	0	0	0	1	1382	521	18	2		2	BCL9L	11	118779364	Silent	SNP	C	TCGA-B8-4148-01A-02D-1386-10	53353142	118779364	16227152	25	10042											
TMEM225	338661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123753906	123753906	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagggaattcacagtgtgtGcacggacaatgctacgaggc	11	9	13	8	2	1	0	1	0	0	0	1	3	1	2	0	3	3	2	0	3	4	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		A	123753906	G	A	123753906	3	1	180	1	0	0	0	0	1	0	0	0	16146	1319	46	2	64	2	TMEM225	11	123753906	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	4974542	123753906	11252610	26	10043											
CTDSP2	10106	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58220853	58220853	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttgatcttcctctgtcaCctctgggagcaggcaggtcc	5	12	10	14	0	4	1	1	1	3	0	7	2	7	2	4	3	1	2	4	3	0	2	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	58220853	C	T	58220853	3	4	180	1	0	0	0	0	1	0	0	0	4004	507	18	2	555	2	CTDSP2	12	58220853	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10		58220853	75631042	27	10044											
SBNO1	55206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123800154	123800154	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttctcctgccagttcagAtatcagaaagacatactcag	12	12	7	10	0	4	3	3	0	1	3	5	3	4	3	2	0	2	2	2	0	3	5	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		G	123800154	A	G	123800154	3	3	180	1	0	0	0	0	1	0	0	0	13864	333	12	3	1236	3	SBNO1	12	123800154	Missense_Mutation	SNP	A	TCGA-B8-4148-01A-02D-1386-10	65579301	123800154	10051741	28	10045											
FITM1	161247	broad.mit.edu	37	chr14	24600851	24600851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgggctgcctgctcaagGtgctgctctgggtggcctct	2	12	15	12	0	3	0	1	0	2	0	3	0	3	0	2	4	5	5	2	4	1	0	rs139596139		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		A	24600851	A	A	24600851	3	1	180	1	0	0	0	0	1	0	0	0	5898	1261	44	2	81	2	FITM1	14	24600851	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		24600851	82748689	29	10046											
NTRK3	4916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	88476307	88476307	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgatgagggggtccccatCgccgcacactccatagaact	10	7	10	14	2	0	3	0	2	0	1	3	3	2	3	4	2	1	1	4	2	2	1	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	88476307	C	T	88476307	3	4	180	1	0	0	0	0	1	0	0	0	10708	884	31	1	714	1	NTRK3	15	88476307	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10		88476307	14055085	30	10047											
ZNF785	146540	hgsc.bcm.edu	37	chr16	30594709	30594718	+	Frame_Shift_Del	DEL	TTTTTGTTTT	TTTTTGTTTT	-																															gccacttcatgcgccacctcTttttgttttggacacttctt																								novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	TTTTTGTTTT	TTTTTGTTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		-	30594718	TTTTTGTTTT	-	30594709	7	5	180	1	0	1	0	1	0	0	0	0	18156	1606	56	0	831	0	ZNF785	16	30594709	Frame_Shift_Del	DEL	TTTTTGTTTT	TCGA-B8-4148-01A-02D-1386-10		30594709	59760044	31	10048											
S1PR2	9294	broad.mit.edu;hgsc.bcm.edu	37	chr19	10334693	10334693	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggccgaagcacctcccGccgcaggtcccggctgcgcc	5	3	13	20	6	0	0	0	0	0	0	2	1	2	0	6	3	3	3	6	3	1	0	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		A	10334693	G	A	10334693	3	1	180	1	0	0	0	0	1	0	0	0	13796	1086	38	1	176	1	S1PR2	19	10334693	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10		10334693	48794290	32	10049											
S1PR2	9294	broad.mit.edu	37	chr19	10335160	10335160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcggcagctcttgtcgctgCcatacagcttgaccttggca	6	11	11	13	2	1	1	0	1	1	0	2	1	1	1	2	2	5	5	2	2	1	4	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		T	10335160	T	T	10335160	3	4	180	1	0	0	0	0	1	0	0	0	13796	739	26	2	643	2	S1PR2	19	10335160	Missense_Mutation	SNP	C	TCGA-B8-4148-01A-02D-1386-10	467	10335160	48793823	33	10050											
ANKRD27	84079	hgsc.bcm.edu;ucsc.edu	37	chr19	33149837	33149841	+	Frame_Shift_Del	DEL	CCACT	CCACT	-																															tacaatgccatggatttgggCcactttgctgcacaagtcag																								novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	CCACT	CCACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		-	33149841	CCACT	-	33149837	7	5	180	1	0	1	0	1	0	0	0	0	655	739	26	0	3179	0	ANKRD27	19	33149837	Frame_Shift_Del	DEL	CCACT	TCGA-B8-4148-01A-02D-1386-10	22814677	33149837	25979146	34	10051											
ZNF383	163087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37733520	37733520	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaatatagaagccaccttGcaaaacaactgggatatcca	16	8	8	9	0	0	1	0	0	0	1	1	3	1	3	3	2	4	1	3	2	8	4	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	37733520	G	C	37733520	3	2	180	1	0	0	0	0	1	0	0	0	17873	1319	46	4	396	4	ZNF383	19	37733520	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	4583683	37733520	21395463	35	10052											
PCNA	5111	hgsc.bcm.edu;ucsc.edu	37	chr20	5098236	5098236	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattacaacagcatctccAatatggctgagatctcggca	14	9	8	10	1	2	1	0	1	2	1	4	3	2	1	1	2	3	3	1	2	5	2	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	5098236	A	C	5098236	3	2	180	1	0	0	0	0	1	0	0	0	11588	126	5	5	335	5	PCNA	20	5098236	Missense_Mutation	SNP	A	TCGA-B8-4148-01A-02D-1386-10		5098236	57927284	36	10053											
EFHC2	80258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	44132000	44132000	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcatcttcagggtagaagTagattttatagtatcttatt	11	18	8	4	0	4	2	2	0	2	2	4	2	4	2	0	1	0	3	0	1	7	9	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	44132000	T	C	44132000	3	2	180	1	0	0	0	0	1	0	0	0	4947	1638	57	3	1987	3	EFHC2	23	44132000	Missense_Mutation	SNP	T	TCGA-B8-4148-01A-02D-1386-10		44132000	111138560	37	10054											
GNL3L	54552	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54577474	54577474	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cagcgtgggagctgttcctgGaattaccaagtaagcacctg	10	9	12	10	1	0	0	0	0	0	0	1	2	1	2	3	2	4	4	3	2	4	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	54577474	G	C	54577474	3	2	180	1	0	0	0	0	1	0	0	0	6538	1174	41	4	888	4	GNL3L	23	54577474	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	10445474	54577474	100693086	38	10055											
RAB39B	116442	broad.mit.edu	37	chrX	154490260	154490260	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggctttctccacattaatgGcatctcgggctgacgtttca	8	13	9	11	2	3	1	1	1	2	0	5	1	3	1	1	3	0	4	1	3	1	3	novel		TCGA-B8-4148-01A-02D-1386-10	TCGA-B8-4148-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe752e2b-e694-4fa9-99d6-46d5bff9e8cf	8dd6ee40-2fae-4cac-a322-ef15761ad2c7		C	154490260	C	C	154490260	3	2	180	1	0	0	0	0	1	0	0	0	12932	1203	42	4	175	4	RAB39B	23	154490260	Missense_Mutation	SNP	G	TCGA-B8-4148-01A-02D-1386-10	99912786	154490260	780300	39	10056											
TRIM62	55223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33612870	33612870	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtaagagcagagcttgccagGgaacttctcgcggaaggtgt	10	8	15	8	2	1	2	0	0	1	2	2	4	1	4	1	3	4	3	1	3	3	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	33612870	G	A	33612870	3	1	181	1	0	0	0	0	1	0	0	0	16536	1232	43	2	95	2	TRIM62	1	33612870	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10		33612870	215637751	1	10057											
SLC44A3	126969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	95357883	95357883	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaggactcatggcttttaActacaatcgggcattccagg	10	11	11	9	1	1	0	1	0	0	0	3	2	2	2	1	5	2	2	1	5	3	4	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	95357883	A	C	95357883	3	2	181	1	0	0	0	0	1	0	0	0	14639	43	2	5	1721	5	SLC44A3	1	95357883	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10	61745013	95357883	153892738	2	10058											
DENND2D	79961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111743023	111743023	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtcctgacctgctcggAgttgaagcagtcggcgttgg	6	10	14	11	3	0	2	0	2	0	0	4	3	2	3	3	3	2	4	3	3	1	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	111743023	A	T	111743023	3	4	181	1	0	0	0	0	1	0	0	0	4431	304	11	5	1404	5	DENND2D	1	111743023	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10	16385140	111743023	137507598	3	10059											
FLAD1	80308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154962043	154962043	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgcttggcagggtcttcTttggggaaaaaggtggcagg	7	10	17	7	0	2	0	0	0	2	0	2	1	2	1	1	7	1	3	1	7	2	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		G	154962043	T	G	154962043	2	3	181	1	0	0	0	0	0	0	0	1	5920	1596	56	5		5	FLAD1	1	154962043	Silent	SNP	T	TCGA-B8-4151-01A-01D-1806-10	43219020	154962043	94288578	4	10060											
VSIG8	391123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159827560	159827560	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatggagctgtggaaggaCtcctggtaggacagctctga	9	11	14	7	0	1	1	0	1	1	0	2	5	2	5	1	5	2	3	1	5	3	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	159827560	C	T	159827560	2	4	181	1	0	0	0	0	0	0	0	1	17225	564	20	2		2	VSIG8	1	159827560	Silent	SNP	C	TCGA-B8-4151-01A-01D-1806-10	4865517	159827560	89423061	5	10061											
C1orf14	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	182869151	182869151	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctgatatcccccttgacGtttgcttctatcttattatt	7	20	4	10	1	3	2	0	2	3	0	4	2	4	2	2	0	1	2	2	0	4	9	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	182869151	G	A	182869151	2	1	181	1	0	0	0	0	0	0	0	1	2000	1136	40	1		1	C1orf14	1	182869151	Silent	SNP	G	TCGA-B8-4151-01A-01D-1806-10	23041591	182869151	66381470	6	10062											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	216166458	216166458	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcgggtatgtcctcgtCagttagggcctcactggcct	4	12	12	13	2	2	0	2	0	0	0	5	0	3	0	4	3	0	2	4	3	2	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	216166458	C	A	216166458	3	1	181	1	0	0	0	0	1	0	0	0	17035	826	29	4	9051	4	USH2A	1	216166458	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	33297307	216166458	33084163	7	10063											
C2orf29	55571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	101885856	101885856	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggggaaacaccttctgAgaccaaaatgtcaaaataat	17	9	7	8	0	2	1	1	1	1	1	2	3	2	2	2	2	2	0	2	2	7	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	101885856	A	C	101885856	3	2	181	1	0	0	0	0	1	0	0	0	2161	304	11	5	1540	5	C2orf29	2	101885856	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10		101885856	141313517	8	10064											
ACVR2A	92	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	148677842	148677842	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgaaaaacaacctgacaGcttgcattgctgactttggg	11	12	10	8	0	0	3	0	3	0	0	0	3	0	3	1	1	5	4	1	1	3	4	rs111862877	alternate_allele	TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	148677842	G	T	148677842	3	4	181	1	0	0	0	0	1	0	0	0	223	971	34	4	1036	4	ACVR2A	2	148677842	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	46791986	148677842	94521531	9	10065											
SP140	11262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	231090582	231090582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcccagcagggccagcaggGgcagatggcaagtggagaca	11	2	18	10	0	0	2	0	0	0	2	0	3	0	2	2	6	2	4	2	6	1	0	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	231090582	G	A	231090582	3	1	181	1	0	0	0	0	1	0	0	0	14964	1232	43	2	25	2	SP140	2	231090582	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	82412740	231090582	12108791	10	10066											
NCL	4691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	232323070	232323070	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgactttgtaagggagaTttttagccaaaagtgttctc	11	14	11	5	0	1	2	0	1	1	1	2	4	1	2	1	1	1	2	1	1	4	6	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	232323070	T	C	232323070	3	2	181	1	0	0	0	0	1	0	0	0	10226	1493	52	3	964	3	NCL	2	232323070	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10	1232488	232323070	10876303	11	10067											
VHL	7428	hgsc.bcm.edu	37	chr3	10183804	10183805	+	Frame_Shift_Del	DEL	CG	CG	-																															ctgcccgtatggctcaacttCgacggcgagccgcagcccta																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01W-1244-10	CG	CG	CG	-	CG	CG	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	099df9a3-e2e2-4441-b88d-a83da347cbae		-	10183805	CG	-	10183804	7	5	181	1	0	1	0	1	0	0	0	0	17161	883	31	0	275	0	VHL	3	10183804	Frame_Shift_Del	DEL	CG	TCGA-B8-4151-01A-01D-1806-10		10183804	187838626	12	10068											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52436345	52436345	+	Frame_Shift_Del	DEL	G	G	-																															ggggcgagagcgtttccgccGgtcaggcttccgctgcttgt																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		-	52436345	G	-	52436345	7	5	181	1	0	1	0	1	0	0	0	0	1311	1115	39	0	44	0	BAP1	3	52436345	Frame_Shift_Del	DEL	G	TCGA-B8-4151-01A-01D-1806-10	42252541	52436345	145586085	13	10069											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508499	195508499	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtggatgctgaggaagCgtcggtgacaagaagaggag	12	6	17	6	2	0	4	0	2	0	2	1	7	0	7	1	4	2	1	1	4	3	0	rs62282475	by1000genomes	TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	195508499	C	T	195508499	3	4	181	1	0	0	0	0	1	0	0	0	9978	768	27	1		1	MUC4	3	195508499	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	143072154	195508499	2513931	14	10070											
SCOC	60592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	141302257	141302257	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaaaagcaaaagaaagtAagggattgacacccttctgt	18	7	8	8	0	1	2	0	1	1	1	1	3	1	3	1	1	1	2	1	1	6	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		G	141302257	A	G	141302257	2	3	181	1	0	0	0	0	0	0	0	1	13935	369	13	3		3	SCOC	4	141302257	Silent	SNP	A	TCGA-B8-4151-01A-01D-1806-10		141302257	49852019	15	10071											
RAPGEF2	9693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	160273849	160273849	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcaggctatactttggCtcccagtggtactgtggata	8	13	11	9	0	1	0	1	0	0	0	2	1	2	1	1	4	3	4	1	4	4	5	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	160273849	C	T	160273849	3	4	181	1	0	0	0	0	1	0	0	0	13046	797	28	2	3477	2	RAPGEF2	4	160273849	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	18971592	160273849	30880427	16	10072											
KLKB1	3818	broad.mit.edu	37	chr4	187172722	187172722	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgttaaaggagtgaatgTttgccaagagacttgcacaa	13	13	10	5	0	0	2	0	1	0	1	0	4	0	3	1	1	2	3	1	1	5	5	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	187172722	A	A	187172722	3	1	181	1	0	0	0	0	1	0	0	0	8412	1725	60	5	980	5	KLKB1	4	187172722	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10	26898873	187172722	3981554	17	10073											
TBC1D9B	23061	hgsc.bcm.edu;ucsc.edu	37	chr5	179299981	179299981	+	Frame_Shift_Del	DEL	T	T	-																															aatgtcttcggccctcaggcTgctgaatttctatagggaga																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		-	179299981	T	-	179299981	7	5	181	1	0	1	0	1	0	0	0	0	15627	1580	55	0	1462	0	TBC1D9B	5	179299981	Frame_Shift_Del	DEL	T	TCGA-B8-4151-01A-01D-1806-10		179299981	1615279	18	10074											
C6orf62	81688	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24706388	24706388	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctggcatataaggacggaGgtgatcctctatggtgccaa	10	10	12	9	1	2	1	0	1	2	0	3	3	3	3	2	5	1	1	2	5	4	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	24706388	G	T	24706388	3	4	181	1	0	0	0	0	1	0	0	0	2368	1000	35	4	26	4	C6orf62	6	24706388	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10		24706388	146408679	19	10075											
ZNF12	7559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6731954	6731954	+	Frame_Shift_Del	DEL	A	A	-																															caaaatacgaattttctgatAaagactttcttcatttagag																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		-	6731954	A	-	6731954	7	5	181	1	0	1	0	1	0	0	0	0	17717	362	13	0	1478	0	ZNF12	7	6731954	Frame_Shift_Del	DEL	A	TCGA-B8-4151-01A-01D-1806-10		6731954	152406709	20	10076											
EMID2	136227	broad.mit.edu;hgsc.bcm.edu	37	chr7	101063346	101063346	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcgcgtgtaccagagcTgccggtggccggggccctgc	4	6	16	15	4	0	1	0	0	0	1	1	1	1	1	5	4	5	2	5	4	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	101063346	T	A	101063346	3	1	181	1	0	0	0	0	1	0	0	0	5092	1580	55	5	253	5	EMID2	7	101063346	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10	94331392	101063346	58075317	21	10077											
TRIM55	84675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67047249	67047249	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagaaatccgaccagccCatgtgcgaggaacatgaaga	17	4	11	9	2	0	3	0	1	0	2	1	7	1	4	3	1	3	0	3	1	5	0	rs151067178	alternate_allele	TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	67047249	C	A	67047249	2	1	181	1	0	0	0	0	0	0	0	1	16528	581	21	4		4	TRIM55	8	67047249	Silent	SNP	C	TCGA-B8-4151-01A-01D-1806-10		67047249	79316773	22	10078											
PABPC1	26986	broad.mit.edu	37	chr8	101724606	101724606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacctttgcactagtgattGtaccaaatggagaaaactct	13	13	7	8	0	1	2	0	1	1	1	1	3	1	2	2	1	4	2	2	1	6	5	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	101724606	A	A	101724606	3	1	181	1	0	0	0	0	1	0	0	0	11363	1377	48	2	986	2	PABPC1	8	101724606	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	34677357	101724606	44639416	23	10079											
REXO4	57109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136279971	136279971	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctgaaggaacagagcccCtgctggcctcctggtctttt	8	10	10	13	0	1	2	0	1	1	1	2	3	2	3	5	3	4	1	5	3	3	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	136279971	C	T	136279971	3	4	181	1	0	0	0	0	1	0	0	0	13245	681	24	2	910	2	REXO4	9	136279971	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10		136279971	4933460	24	10080											
MRVI1	10335	broad.mit.edu;ucsc.edu	37	chr11	10624763	10624763	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaacttctggtaggtttcCcggtgctcacagtggtgcca	7	11	12	11	1	2	0	1	0	1	0	3	0	3	0	2	4	4	4	2	4	2	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		G	10624763	G	G	10624763	2	3	181	1	0	0	0	0	0	0	0	1	9853	610	22	4		4	MRVI1	11	10624763	Silent	SNP	C	TCGA-B8-4151-01A-01D-1806-10		10624763	124381753	25	10081											
C11orf94	143678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	45928173	45928173	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgggcccgtcccgcttgcGctgctgggccctagacagga	4	7	15	15	4	0	1	0	0	0	1	2	2	1	2	3	3	2	3	3	3	1	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	45928173	G	A	45928173	3	1	181	1	0	0	0	0	1	0	0	0	1673	1087	38	1	56	1	C11orf94	11	45928173	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	35303410	45928173	89078343	26	10082											
SSSCA1	10534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65338194	65338194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actatctgctgcgcggttacCgcatgctgggcgagacgtgt	6	10	14	11	5	1	1	0	0	1	1	1	2	1	1	1	2	4	4	1	2	2	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	65338194	C	T	65338194	3	4	181	1	0	0	0	0	1	0	0	0	15196	652	23	1	145	1	SSSCA1	11	65338194	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	19410021	65338194	69668322	27	10083											
NPAS4	266743	hgsc.bcm.edu	37	chr11	66189604	66189604	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacaggcactcctctggcGggccccacggggcttctctc	4	8	11	18	2	2	0	0	0	2	0	5	0	3	0	4	5	1	2	4	5	1	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	66189604	G	A	66189604	2	1	181	1	0	0	0	0	0	0	0	1	10565	1103	39	1		1	NPAS4	11	66189604	Silent	SNP	G	TCGA-B8-4151-01A-01D-1806-10	851410	66189604	68816912	28	10084											
PGR	5241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	100933375	100933375	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacctggtgaaaaagtgaatCtctggcttagggcttggctt	9	12	13	7	0	1	2	0	2	1	0	2	3	1	2	1	4	0	3	1	4	4	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		G	100933375	C	G	100933375	3	3	181	1	0	0	0	0	1	0	0	0	11805	913	32	4	806	4	PGR	11	100933375	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	34743771	100933375	34073141	29	10085											
RAD51AP1	10635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	4668106	4668106	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagagtctccgccttggcTtgtccagattagcacgagtt	8	12	10	11	2	2	2	1	0	1	2	4	3	3	2	3	1	1	3	3	1	1	4	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	4668106	T	A	4668106	3	1	181	1	0	0	0	0	1	0	0	0	12988	1606	56	5	1044	5	RAD51AP1	12	4668106	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10		4668106	129183789	30	10086											
GDF3	9573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7842617	7842617	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctctgggtcaacggcatGcatcagggcttgcatgaaag	10	9	13	9	1	3	1	2	1	1	0	4	2	3	1	0	3	3	4	0	3	2	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	7842617	G	T	7842617	3	4	181	1	0	0	0	0	1	0	0	0	6315	1319	46	4	146	4	GDF3	12	7842617	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	3174511	7842617	126009278	31	10087			1	13		2	2	49	N	T_G	9.612952e-05
GDF3	9573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7842665	7842665	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgttgagagagatggTcagtgagaagggacactctc	11	8	16	6	0	2	3	1	2	1	3	3	8	2	5	0	3	1	2	0	3	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	7842665	T	C	7842665	3	2	181	1	0	0	0	0	1	0	0	0	6315	1667	58	3	194	3	GDF3	12	7842665	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10	48	7842665	126009230	32	10088			1	13		2	2	49	N	T_G	9.612952e-05
KLRC1	3821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10603588	10603588	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcagtgataggttttGtcattcccttgaaaatcctg	8	16	8	9	0	1	2	1	2	0	0	3	2	3	2	3	1	1	2	3	1	3	6	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	10603588	G	T	10603588	3	4	181	1	0	0	0	0	1	0	0	0	8415	1368	48	4	557	4	KLRC1	12	10603588	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	2760923	10603588	123248307	33	10089											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49427164	49427164	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctgctgggaggcataaggCcctggggcttgggacccaga	7	6	18	10	0	0	1	0	0	0	1	0	3	0	3	2	7	1	4	2	7	1	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	49427164	C	T	49427164	3	4	181	1	0	0	0	0	1	0	0	0	9621	739	26	2	5353	2	MLL2	12	49427164	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	38823576	49427164	84424731	34	10090											
KRT78	196374	hgsc.bcm.edu;ucsc.edu	37	chr12	53242598	53242615	+	In_Frame_Del	DEL	CCTGCTGCTGAAGCCGCC	CCTGCTGCTGAAGCCGCC	-																															cccccaaaggaattaaggctCctgctgctgaagccgcccct																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	CCTGCTGCTGAAGCCGCC	CCTGCTGCTGAAGCCGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		-	53242615	CCTGCTGCTGAAGCCGCC	-	53242598	7	5	181	1	0	1	0	1	0	0	0	0	8491	854	30	0	1481	0	KRT78	12	53242598	In_Frame_Del	DEL	CCTGCTGCTGAAGCCGCC	TCGA-B8-4151-01A-01D-1806-10	3815434	53242598	80609297	35	10091											
ATP5G2	517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54063038	54063038	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaacttggctgctgtgtCgatgtcccttgaaatggcgc	8	12	12	9	2	0	2	0	2	0	0	2	3	1	2	1	2	2	2	1	2	3	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	54063038	C	A	54063038	3	1	181	1	0	0	0	0	1	0	0	0	1154	884	31	4	228	4	ATP5G2	12	54063038	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	820440	54063038	79788857	36	10092											
TAC3	6866	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57409489	57409489	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgcggcccccgccaggAaccacctcctcctgtggctc	4	8	10	19	2	0	0	0	0	0	0	3	1	2	1	7	3	3	2	7	3	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	57409489	A	T	57409489	2	4	181	1	0	0	0	0	0	0	0	1	15498	233	9	5		5	TAC3	12	57409489	Silent	SNP	A	TCGA-B8-4151-01A-01D-1806-10	3346451	57409489	76442406	37	10093											
PLEKHG3	26030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	65204095	65204095	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgagcagcaggaatgaaggTaaaggccagtgggaggaggg	13	3	19	6	1	0	1	0	1	0	0	0	5	0	4	2	6	2	3	2	6	4	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	65204095	T	C	65204095	5	2	181	1	0	0	0	0	0	0	1	0	12070	1652	57	3	1280	3	PLEKHG3	14	65204095	Splice_Site	SNP	T	TCGA-B8-4151-01A-01D-1806-10		65204095	42145445	38	10094											
MAP1A	4130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43821515	43821515	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccaggcaaggccaagcCagcgtcccctgcacggcgtc	7	3	13	18	3	0	0	0	0	0	0	2	0	1	0	6	4	3	2	6	4	2	0	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	43821515	C	A	43821515	3	1	181	1	0	0	0	0	1	0	0	0	9227	594	21	4	7846	4	MAP1A	15	43821515	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10		43821515	58709877	39	10095											
RUNDC2A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	12136831	12136831	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactccctgcgccacatcGcctcagacgtgggccggggt	5	8	12	16	4	2	1	1	0	1	1	4	1	3	1	4	3	2	0	4	3	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	12136831	G	T	12136831	3	4	181	1	0	0	0	0	1	0	0	0	13745	1087	38	4	343	4	RUNDC2A	16	12136831	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10		12136831	78217922	40	10096											
SALL1	6299	broad.mit.edu;ucsc.edu	37	chr16	51173118	51173118	+	Missense_Mutation	SNP	A	C	C																															caagcaaatgttttgccacaAatgtcacaagcagtgttttt																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	51173118	C	C	51173118	3	2	181	1	0	0	0	0	1	0	0	0	13812	10	1	5	967	5	SALL1	16	51173118	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10	39036287	51173118	39181635	41	10097	151	2									
SALL1	6299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	51173119	51173119	+	Missense_Mutation	SNP	A	A	T																															aagcaaatgttttgccacaaAtgtcacaagcagtgttttta																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	51173119	A	T	51173119	3	4	181	1	0	0	0	0	1	0	0	0	13812	101	4	5	968	5	SALL1	16	51173119	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10	1	51173119	39181634	42	10098	151	2									
CTCF	10664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67660544	67660544	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcatgagcgctatgccCtcatccagcatcagaagtca	10	11	8	12	1	4	2	4	1	0	1	5	2	5	2	2	0	3	3	2	0	2	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	67660544	C	A	67660544	3	1	181	1	0	0	0	0	1	0	0	0	4000	681	24	4	1466	4	CTCF	16	67660544	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	16487425	67660544	22694209	43	10099											
GEMIN4	50628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	649272	649272	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtctggatgaagatcctcaGactgaggtctacctcttcaa	11	11	9	10	0	5	4	2	2	3	2	6	5	6	5	2	2	1	0	2	2	3	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	649272	G	C	649272	3	2	181	1	0	0	0	0	1	0	0	0	6330	933	33	4	1169	4	GEMIN4	17	649272	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10		649272	80545938	44	10100											
LHX1	3975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35297675	35297675	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcaaagtgtttcacctgAactgcttcacctgcatgatg	10	11	10	10	0	2	2	2	2	0	0	2	3	2	3	2	1	4	4	2	1	2	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	35297675	A	C	35297675	3	2	181	1	0	0	0	0	1	0	0	0	8770	246	9	5	265	5	LHX1	17	35297675	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10	34648403	35297675	45897535	45	10101											
CWC25	54883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36963045	36963045	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcttggggaccgtgacCttctgcccagggatcgagac	6	9	15	11	2	2	2	0	1	2	1	3	5	2	4	3	4	1	0	3	4	0	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	36963045	C	T	36963045	3	4	181	1	0	0	0	0	1	0	0	0	4069	681	24	2	418	2	CWC25	17	36963045	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	1665370	36963045	44232165	46	10102											
KRTAP1-3	81850	hgsc.bcm.edu	37	chr17	39190953	39190953	+	Missense_Mutation	SNP	G	G	C																															aaatccgcagaagctggtctGgcagcagcttggctggcagc																								rs78298475		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	39190953	G	C	39190953	3	2	181	1	0	0	0	0	1	0	0	0	8503	1357	47	4	386	4	KRTAP1-3	17	39190953	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	2227908	39190953	42004257	47	10103	152	2									
KRTAP1-3	81850	hgsc.bcm.edu	37	chr17	39190954	39190954	+	Silent	SNP	G	G	A																															aatccgcagaagctggtctgGcagcagcttggctggcagca																								rs75033421		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	39190954	G	A	39190954	2	1	181	1	0	0	0	0	0	0	0	1	8503	1195	42	2		2	KRTAP1-3	17	39190954	Silent	SNP	G	TCGA-B8-4151-01A-01D-1806-10	1	39190954	42004256	48	10104	152	2									
KRTAP1-1	81851	hgsc.bcm.edu	37	chr17	39197538	39197538	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctggtctcacagcagcGtggctggcaggagctggtct	6	8	16	11	1	2	0	1	0	2	0	3	1	2	1	0	5	4	6	0	5	0	0	rs146863522	by1000genomes	TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	39197538	G	T	39197538	3	4	181	1	0	0	0	0	1	0	0	0	8502	1145	40	4	425	4	KRTAP1-1	17	39197538	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	6584	39197538	41997672	49	10105											
PCTP	58488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	53853436	53853436	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagacatggcaagagcctGtcagaactacctcaagaaaa	18	5	9	9	0	2	4	2	0	0	4	2	5	2	4	2	1	3	1	2	1	7	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	53853436	G	C	53853436	3	2	181	1	0	0	0	0	1	0	0	0	11607	1377	48	4	642	4	PCTP	17	53853436	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	14655898	53853436	27341774	50	10106											
APOH	350	broad.mit.edu;ucsc.edu	37	chr17	64213023	64213023	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatccttgtaataaagtgTtggttttgcaggatagttca	10	18	9	4	0	1	0	1	0	0	0	2	1	2	1	1	2	1	5	1	2	5	10	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		G	64213023	G	G	64213023	3	3	181	1	0	0	0	0	1	0	0	0	804	1725	60	5	382	5	APOH	17	64213023	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10	10359587	64213023	16982187	51	10107											
MRO	83876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	48345981	48345981	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggcggctgccacgtgaTgaaccggagcccgttcctga	7	7	14	13	4	0	3	0	3	0	0	1	4	1	4	4	3	4	3	4	3	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	48345981	T	C	48345981	2	2	181	1	0	0	0	0	0	0	0	1	9772	1451	51	3		3	MRO	18	48345981	Silent	SNP	T	TCGA-B8-4151-01A-01D-1806-10		48345981	29731267	52	10108											
ZNF208	7757	broad.mit.edu	37	chr19	22154068	22154068	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaggctttgccacattcTtcacatttgtagggtttctc	7	16	8	10	0	3	1	1	1	2	0	4	1	3	1	1	2	1	3	1	2	2	6	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	22154068	C	C	22154068	2	2	181	1	0	0	0	0	0	0	0	1	17765	1606	56	3		3	ZNF208	19	22154068	Silent	SNP	T	TCGA-B8-4151-01A-01D-1806-10		22154068	36974915	53	10109											
DMKN	93099	hgsc.bcm.edu	37	chr19	36002423	36002423	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccactgctgctgccacCactgctgctgccattgttgt	4	12	10	15	0	0	0	0	0	0	0	0	0	0	0	4	0	7	6	4	0	0	2	rs145440628		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	36002423	C	T	36002423	3	4	181	1	0	0	0	0	1	0	0	0	4582	594	21	2	987	2	DMKN	19	36002423	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	13848355	36002423	23126560	54	10110											
PAK4	10298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39668357	39668357	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taatggtgattgagatggtgGacggagagcccccctacttc	9	10	13	9	1	0	3	0	2	0	2	1	6	0	4	3	4	2	0	3	4	2	4	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	39668357	G	A	39668357	3	1	181	1	0	0	0	0	1	0	0	0	11403	1174	41	2	1554	2	PAK4	19	39668357	Missense_Mutation	SNP	G	TCGA-B8-4151-01A-01D-1806-10	3665934	39668357	19460626	55	10111											
ZNF841	284371	broad.mit.edu;hgsc.bcm.edu	37	chr19	52568835	52568835	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaccttgccacattcattaCatttgtaaggtttctctcca	10	15	5	11	0	2	1	1	0	1	1	4	1	3	1	3	1	2	2	3	1	2	6	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		T	52568835	C	T	52568835	3	4	181	1	0	0	0	0	1	0	0	0	18188	478	17	2	478	2	ZNF841	19	52568835	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10	12900478	52568835	6560148	56	10112											
LIME1	54923	broad.mit.edu	37	chr20	62370185	62370185	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacgtgcggggctgggAcgccccctgcttccagctgc	4	6	15	16	3	0	0	0	0	0	0	1	1	1	1	3	3	5	5	3	3	0	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		G	62370185	G	G	62370185	3	3	181	1	0	0	0	0	1	0	0	0	8800	275	10	3	838	3	LIME1	20	62370185	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10		62370185	655335	57	10113											
TUBGCP6	85378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50657163	50657163	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaggcagctcagcacaTccggggcgttgggggcaaac	8	5	15	13	2	1	0	1	0	0	0	3	0	3	0	2	5	3	6	2	5	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	50657163	T	C	50657163	3	2	181	1	0	0	0	0	1	0	0	0	16769	1435	50	3	689	3	TUBGCP6	22	50657163	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10		50657163	647403	58	10114											
P2RY8	286530	broad.mit.edu	37	chrX	1585028	1585028	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggtccctgcacacgcggCcaccgcgtaacgacggcggc	7	3	13	18	7	0	0	0	0	0	0	1	1	1	0	4	4	2	2	4	4	1	1	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	1585028	A	A	1585028	3	1	181	1	0	0	0	0	1	0	0	0	11355	739	26	4	659	4	P2RY8	23	1585028	Missense_Mutation	SNP	C	TCGA-B8-4151-01A-01D-1806-10		1585028	153685532	59	10115											
DGKK	139189	hgsc.bcm.edu	37	chrX	50213423	50213423	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaggccggctctgtggcTggttctggggtcggttctgt	1	14	17	9	2	4	1	0	1	4	0	5	1	4	1	1	7	0	4	1	7	0	2	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	50213423	T	A	50213423	2	1	181	1	0	0	0	0	0	0	0	1	4472	1567	55	5		5	DGKK	23	50213423	Silent	SNP	T	TCGA-B8-4151-01A-01D-1806-10	48628395	50213423	105057137	60	10116											
ATRX	546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	76890185	76890185	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagcagcaatcccacataAactgaacacctaaaaataac	20	5	3	13	0	0	1	0	1	0	0	1	1	1	1	2	0	5	2	2	0	8	3	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		C	76890185	A	C	76890185	3	2	181	1	0	0	0	0	1	0	0	0	1208	14	1	5	2845	5	ATRX	23	76890185	Missense_Mutation	SNP	A	TCGA-B8-4151-01A-01D-1806-10	26676762	76890185	78380375	61	10117											
ZBTB33	10009	hgsc.bcm.edu	37	chrX	119387833	119387834	+	In_Frame_Ins	INS	-	-	TGA																															aagatcattgttaccgattcINStgatgatgatgatgatgatg																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		TGA	119387834	-	TGA	119387833	7	5	181	1	0	1	1	0	0	0	0	0	17535	913	32	0	565	0	ZBTB33	23	119387833	In_Frame_Ins	INS	-	TCGA-B8-4151-01A-01D-1806-10	42497648	119387833	35882727	62	10118											
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140994055	140994068	+	Frame_Shift_Del	DEL	GAGAGAACTCAGAG	GAGAGAACTCAGAG	-																															gtcttttccagagttcccctGagagaactcagagtactttt																								novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	GAGAGAACTCAGAG	GAGAGAACTCAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		-	140994068	GAGAGAACTCAGAG	-	140994055	7	5	181	1	0	1	0	1	0	0	0	0	9180	1291	45	0	871	0	MAGEC1	23	140994055	Frame_Shift_Del	DEL	GAGAGAACTCAGAG	TCGA-B8-4151-01A-01D-1806-10	21606222	140994055	14276505	63	10119											
SLC6A8	6535	broad.mit.edu;hgsc.bcm.edu	37	chrX	152956789	152956789	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctccatggtgatcgtctTctactgcaacacctactaca	9	11	6	15	2	2	1	0	1	2	0	4	1	3	1	3	1	5	1	3	1	4	4	novel		TCGA-B8-4151-01A-01D-1806-10	TCGA-B8-4151-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3f847558-8bc7-49b0-899d-2a7b8f0e3d1a	41213977-65aa-487a-9d3e-c5cfc7c0ceed		A	152956789	T	A	152956789	3	1	181	1	0	0	0	0	1	0	0	0	14692	1783	62	5	435	5	SLC6A8	23	152956789	Missense_Mutation	SNP	T	TCGA-B8-4151-01A-01D-1806-10	11962734	152956789	2313771	64	10120											
AJAP1	55966	hgsc.bcm.edu	37	chr1	4772582	4772583	+	In_Frame_Ins	INS	-	-	CCA																															acggaagacaactgtggccgINSccaccaccaccaccaccacc																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		CCA	4772583	-	CCA	4772582	7	5	182	1	0	1	1	0	0	0	0	0	438	1087	38	0	658	0	AJAP1	1	4772582	In_Frame_Ins	INS	-	TCGA-B8-4153-01B-11D-1669-08		4772582	244478039	1	10121											
SLC9A1	6548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27440565	27440565	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacggcaaagatcaggaTggtgcccaggttttctgtga	10	9	12	10	1	2	2	1	1	1	1	2	3	2	3	2	4	1	2	2	4	1	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	27440565	T	G	27440565	3	3	182	1	0	0	0	0	1	0	0	0	14711	1464	51	5	1926	5	SLC9A1	1	27440565	Missense_Mutation	SNP	T	TCGA-B8-4153-01B-11D-1669-08	22667983	27440565	221810056	2	10122											
KIAA0754	643314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39877427	39877427	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttctgaagggctggctgCatcccaggatgcagaaaatt	10	10	11	10	0	2	2	0	1	2	1	3	3	3	3	1	3	2	4	1	3	3	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	39877427	C	T	39877427	3	4	182	1	0	0	0	0	1	0	0	0	8192	710	25	2	1492	2	KIAA0754	1	39877427	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	12436862	39877427	209373194	3	10123											
AKNAD1	254268	broad.mit.edu;hgsc.bcm.edu	37	chr1	109369917	109369917	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggccctttttctccacgtTttgcttcctaaaaaaaggtg	8	15	8	10	1	1	0	0	0	1	0	3	0	2	0	3	2	1	2	3	2	4	6	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	109369917	T	A	109369917	3	1	182	1	0	0	0	0	1	0	0	0	464	1841	64	5	688	5	AKNAD1	1	109369917	Missense_Mutation	SNP	T	TCGA-B8-4153-01B-11D-1669-08	69492490	109369917	139880704	4	10124											
PHGDH	26227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120254648	120254648	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggccaactccagcaatGgcttttgcaaatctgcggaa	11	8	10	12	2	1	0	0	0	1	0	2	2	2	1	3	3	4	3	3	3	4	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	120254648	G	A	120254648	3	1	182	1	0	0	0	0	1	0	0	0	11841	1348	47	2	5	2	PHGDH	1	120254648	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	10884731	120254648	128995973	5	10125											
MTMR11	10903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	149903193	149903193	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cccaagccgagtcaggaaggGatgtccagctgccacccact	10	5	11	15	1	1	0	1	0	0	0	2	3	2	2	5	2	3	1	5	2	2	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	149903193	G	C	149903193	3	2	182	1	0	0	0	0	1	0	0	0	9940	1174	41	4	939	4	MTMR11	1	149903193	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	29648545	149903193	99347428	6	10126											
SLC39A1	27173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153934708	153934708	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcaccgtcacgtgcaaGgctgccagggcctcatctat	7	9	11	14	2	4	0	3	0	1	0	4	0	4	0	3	2	3	3	3	2	2	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	153934708	G	T	153934708	2	4	182	1	0	0	0	0	0	0	0	1	14614	987	35	4		4	SLC39A1	1	153934708	Silent	SNP	G	TCGA-B8-4153-01B-11D-1669-08	4031515	153934708	95315913	7	10127											
RPS27	6232	broad.mit.edu	37	chr1	153963625	153963625	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatccctctccagaagAggagaagaggaaacacaaga	16	5	9	11	0	2	5	1	0	1	5	4	7	3	6	3	2	1	0	3	2	4	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	153963625	C	C	153963625	3	2	182	1	0	0	0	0	1	0	0	0	13640	304	11	5	47	5	RPS27	1	153963625	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	28917	153963625	95286996	8	10128											
GBA	2629	broad.mit.edu	37	chr1	155207294	155207294	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaaggggtatccactcaaCagcccagcagaaggctcatt	12	7	11	11	0	2	1	2	0	0	1	3	2	3	2	2	4	3	3	2	4	4	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	155207294	T	T	155207294	2	4	182	1	0	0	0	0	0	0	0	1	6266	465	17	2		2	GBA	1	155207294	Silent	SNP	C	TCGA-B8-4153-01B-11D-1669-08	1243669	155207294	94043327	9	10129											
LAMC1	3915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183102612	183102612	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtacatgaggaggccaaaaGggccggtgacaaagctgtgg	13	5	16	7	1	0	2	0	2	0	0	0	3	0	3	2	5	2	2	2	5	4	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	183102612	G	A	183102612	3	1	182	1	0	0	0	0	1	0	0	0	8614	1000	35	2	3862	2	LAMC1	1	183102612	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	27895318	183102612	66148009	10	10130											
MERTK	10461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	112767558	112767559	+	Frame_Shift_Ins	INS	-	-	A																															atgagctctcaaggcatcccINSaaagcccatggtaattttac																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	112767559	-	A	112767558	7	5	182	1	0	1	1	0	0	0	0	0	9479	594	21	0	2052	0	MERTK	2	112767558	Frame_Shift_Ins	INS	-	TCGA-B8-4153-01B-11D-1669-08		112767558	130431815	11	10131											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188262	10188262	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggttaaccaaactgaattAtttgtgccatctctcaatgt	11	15	6	9	0	2	1	1	1	1	0	3	1	2	1	2	1	3	1	2	1	5	3	rs119103278	alternate_allele	TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	10188262	A	T	10188262	3	4	182	1	0	0	0	0	1	0	0	0	17161	446	16	5	411	5	VHL	3	10188262	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08		10188262	187834168	12	10132											
PBRM1	55193	broad.mit.edu	37	chr3	52620362	52620362	+	Intron	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgctctttttctaagttTgaatactttattcatttatt	8	24	4	5	0	3	1	1	1	2	0	3	1	3	1	0	0	2	3	0	0	5	12	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	52620362	C	C	52620362	1	2	182	0	1	0	0	0	0	0	0	0	11491	1827	63	3		3	PBRM1	3	52620362	Intron	SNP	T	TCGA-B8-4153-01B-11D-1669-08	42432100	52620362	145402068	13	10133											
ZNF148	7707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	124951653	124951653	+	Frame_Shift_Del	DEL	A	A	-																															atggaagagaatgctggctgAtttgggagggtctggttatc																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		-	124951653	A	-	124951653	7	5	182	1	0	1	0	1	0	0	0	0	17733	330	12	0	471	0	ZNF148	3	124951653	Frame_Shift_Del	DEL	A	TCGA-B8-4153-01B-11D-1669-08	72331291	124951653	73070777	14	10134											
CEP135	9662	broad.mit.edu;hgsc.bcm.edu	37	chr4	56884018	56884018	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgaaaaaccttgagtttGagagggtaagaaagataaat	18	10	10	3	1	0	4	0	2	0	3	1	6	0	4	1	1	1	2	1	1	6	5	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	56884018	G	T	56884018	4	4	182	1	0	0	0	0	0	1	0	0	3247	1291	45	4	3089	4	CEP135	4	56884018	Nonsense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		56884018	134270258	15	10135											
TET2	54790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106156445	106156445	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacacttttaagggaagTgaaaatagagggtaaacctg	17	8	10	6	0	0	2	0	1	0	1	0	3	0	3	1	2	2	1	1	2	8	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	106156445	T	A	106156445	3	1	182	1	0	0	0	0	1	0	0	0	15769	1696	59	5	1348	5	TET2	4	106156445	Missense_Mutation	SNP	T	TCGA-B8-4153-01B-11D-1669-08	49272427	106156445	84997831	16	10136											
RPS18	6222	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33240470	33240470	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacaccaacatcgatgggcgGcggaaaatagcctttgccat	13	7	10	11	3	0	0	0	0	0	0	1	2	0	1	3	3	4	0	3	3	5	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	33240470	G	A	33240470	2	1	182	1	0	0	0	0	0	0	0	1	13630	1190	42	2		2	RPS18	6	33240470	Silent	SNP	G	TCGA-B8-4153-01B-11D-1669-08		33240470	137874597	17	10137											
GRM4	2914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	34100944	34100944	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgagggcatgggtgtccctGgagcaggtgtccagaatgcg	7	8	17	9	2	0	1	0	0	0	1	3	3	2	2	2	4	2	2	2	4	1	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	34100944	G	T	34100944	2	4	182	1	0	0	0	0	0	0	0	1	6799	1335	47	4		4	GRM4	6	34100944	Silent	SNP	G	TCGA-B8-4153-01B-11D-1669-08	860474	34100944	137014123	18	10138											
UNC5CL	222643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41002579	41002579	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtgtagctcctggtagaAggcaaccatctctggcagtg	8	11	13	9	0	1	1	0	0	1	1	3	1	2	1	2	3	2	5	2	3	4	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	41002579	A	T	41002579	3	4	182	1	0	0	0	0	1	0	0	0	16993	72	3	5	1353	5	UNC5CL	6	41002579	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	6901635	41002579	130112488	19	10139											
TREM2	54209	hgsc.bcm.edu;ucsc.edu	37	chr6	41126749	41126749	+	Frame_Shift_Del	DEL	C	C	-																															cttgatgagaaagatgcaggCcaggaggagaaggatggaag																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		-	41126749	C	-	41126749	7	5	182	1	0	1	0	1	0	0	0	0	16470	739	26	0	162	0	TREM2	6	41126749	Frame_Shift_Del	DEL	C	TCGA-B8-4153-01B-11D-1669-08	124170	41126749	129988318	20	10140											
ABCC10	89845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43402469	43402469	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgagagctggggcgactccgGgtcatcaaatacctggatgc	9	7	14	11	3	2	1	2	0	0	1	3	4	3	2	2	4	3	1	2	4	2	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	43402469	G	A	43402469	2	1	182	1	0	0	0	0	0	0	0	1	50	1219	43	2		2	ABCC10	6	43402469	Silent	SNP	G	TCGA-B8-4153-01B-11D-1669-08	2275720	43402469	127712598	21	10141											
ARID1B	57492	broad.mit.edu;hgsc.bcm.edu	37	chr6	157520041	157520041	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgtacccacagcagccGgtgagttggcaagtgggcgt	7	7	16	11	2	0	1	0	1	0	0	0	1	0	1	3	4	3	4	3	4	2	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	157520041	G	C	157520041	2	2	182	1	0	0	0	0	0	0	0	1	914	1130	39	4		4	ARID1B	6	157520041	Silent	SNP	G	TCGA-B8-4153-01B-11D-1669-08	114117572	157520041	13595026	22	10142											
LPA	4018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160969596	160969596	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtctgagcatcgcgtcAggttgcagtactcccacctg	6	11	11	13	2	2	1	1	1	1	0	4	1	3	1	2	1	3	4	2	1	1	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	160969596	A	G	160969596	3	3	182	1	0	0	0	0	1	0	0	0	8903	188	7	3	1089	3	LPA	6	160969596	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	3449555	160969596	10145471	23	10143											
VPS37A	137492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17137538	17137538	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttttgtgtttctagtGtgtcacaactcacagatatg	8	19	7	7	0	4	1	2	0	2	1	4	1	4	1	0	0	1	1	0	0	3	7	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	17137538	G	T	17137538	3	4	182	1	0	0	0	0	1	0	0	0	17204	1391	48	4	741	4	VPS37A	8	17137538	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		17137538	129226484	24	10144											
ASAP1	50807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	131073178	131073178	+	Missense_Mutation	SNP	C	C	G																															tccaatttggggcttgggggCcagttctgtgggctttgggg																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	131073178	C	G	131073178	3	3	182	1	0	0	0	0	1	0	0	0	1010	739	26	4	562	4	ASAP1	8	131073178	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	113935640	131073178	15290844	25	10145	153	2									
ASAP1	50807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	131073179	131073179	+	Silent	SNP	C	C	G																															ccaatttggggcttgggggcCagttctgtgggctttggggg																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	131073179	C	G	131073179	2	3	182	1	0	0	0	0	0	0	0	1	1010	581	21	4		4	ASAP1	8	131073179	Silent	SNP	C	TCGA-B8-4153-01B-11D-1669-08	1	131073179	15290843	26	10146	153	2									
MTAP	4507	broad.mit.edu;ucsc.edu	37	chr9	21837965	21837965	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttgtgccagaggagtgTgccatattccaatggctgag	9	12	12	8	0	1	2	0	1	1	1	2	3	2	3	3	2	2	1	3	2	2	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	21837965	C	C	21837965	3	2	182	1	0	0	0	0	1	0	0	0	9911	1696	59	3	424	3	MTAP	9	21837965	Missense_Mutation	SNP	T	TCGA-B8-4153-01B-11D-1669-08		21837965	119375466	27	10147											
ALDH1A1	216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	75540461	75540461	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgctctgctggtttgacaAccactgtgtttccacagctc	6	15	8	12	0	1	1	0	1	1	0	3	1	2	1	2	1	4	5	2	1	1	3	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	75540461	A	G	75540461	3	3	182	1	0	0	0	0	1	0	0	0	490	43	2	3	965	3	ALDH1A1	9	75540461	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	53702496	75540461	65672970	28	10148											
OMD	4958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95179200	95179200	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagaggttgagctgcattAgtttttccattttggcaaag	9	15	11	6	0	0	2	0	1	0	1	1	2	1	2	1	2	3	6	1	2	2	6	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	95179200	A	T	95179200	3	4	182	1	0	0	0	0	1	0	0	0	10865	420	15	5	632	5	OMD	9	95179200	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	19638739	95179200	46034231	29	10149											
PTCH1	5727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	98220440	98220440	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggtagccgttggggtaaCtggacagccccaggctcgta	8	7	16	10	2	0	0	0	0	0	0	1	1	0	1	3	6	3	5	3	6	3	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	98220440	C	T	98220440	3	4	182	1	0	0	0	0	1	0	0	0	12732	565	20	2	1344	2	PTCH1	9	98220440	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	3041240	98220440	42992991	30	10150											
CACNA1B	774	broad.mit.edu;hgsc.bcm.edu	37	chr9	140904474	140904474	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaccagacactctgctgaAtgtctttctggccatcgctg	8	11	8	14	1	3	2	0	1	3	1	4	2	3	2	3	1	2	2	3	1	2	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	140904474	A	T	140904474	3	4	182	1	0	0	0	0	1	0	0	0	2539	101	4	5	2171	5	CACNA1B	9	140904474	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	42684034	140904474	308957	31	10151											
HERC4	26091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	69797906	69797908	+	In_Frame_Del	DEL	TCT	TCT	-																															caacctgtacaatctggataTctgacaaacttttaatattt																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		-	69797908	TCT	-	69797906	7	5	182	1	0	1	0	1	0	0	0	0	7060	1435	50	0	2854	0	HERC4	10	69797906	In_Frame_Del	DEL	TCT	TCGA-B8-4153-01B-11D-1669-08		69797906	65736841	32	10152											
SAMD8	142891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	76928376	76928376	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctttaccatgtttgtgacctCcctctccgtgccaggacaac	7	12	7	15	1	1	1	0	1	1	0	3	2	2	2	5	1	3	1	5	1	2	3	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	76928376	C	T	76928376	3	4	182	1	0	0	0	0	1	0	0	0	13827	855	30	2	762	2	SAMD8	10	76928376	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	7130470	76928376	58606371	33	10153											
PDCD11	22984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105166476	105166476	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaggtttctacggccattGctactgaacagcagagctgg	10	9	12	10	1	1	3	0	1	1	2	1	3	1	3	1	3	6	4	1	3	3	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	105166476	G	A	105166476	3	1	182	1	0	0	0	0	1	0	0	0	11617	1319	46	2	821	2	PDCD11	10	105166476	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	28238100	105166476	30368271	34	10154											
MUC5B	727897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1258216	1258216	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaatgactttgccacgcGtagccggtccgtggtggggg	6	9	15	11	4	1	1	1	1	0	0	2	1	2	1	3	4	2	1	3	4	2	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	1258216	G	A	1258216	3	1	182	1	0	0	0	0	1	0	0	0	9979	1145	40	1	3226	1	MUC5B	11	1258216	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		1258216	133748300	35	10155											
PRB2	653247	broad.mit.edu	37	chr12	11546588	11546588	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttgcctccttgtgggggtgGtccttgtggctttcctggag	1	15	16	9	0	0	0	0	0	0	0	3	1	3	1	4	5	1	2	4	5	0	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	11546588	T	T	11546588	3	4	182	1	0	0	0	0	1	0	0	0	12445	1261	44	4	830	4	PRB2	12	11546588	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		11546588	122305307	36	10156											
BICD1	636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32369298	32369298	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actatctggggaagatcttgGagatgcagaacgagctgaaa	14	8	13	6	1	2	4	0	1	2	3	2	7	2	5	0	3	3	2	0	3	4	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	32369298	G	T	32369298	4	4	182	1	0	0	0	0	0	1	0	0	1428	1175	41	4	337	4	BICD1	12	32369298	Nonsense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	20822710	32369298	101482597	37	10157											
GALNT6	11226	hgsc.bcm.edu;ucsc.edu	37	chr12	51751134	51751134	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggtgggctgcataccTggttgccgccaaggccgtgg	6	8	17	10	2	0	1	0	0	0	1	0	1	0	1	4	5	3	3	4	5	2	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	51751134	T	C	51751134	3	2	182	1	0	0	0	0	1	0	0	0	6217	1594	55	3	279	3	GALNT6	12	51751134	Missense_Mutation	SNP	T	TCGA-B8-4153-01B-11D-1669-08	19381836	51751134	82100761	38	10158											
ORMDL2	29095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56213245	56213245	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggctccagtttacctcttcCcgcaagttcctcagcatctc	6	12	7	16	1	3	0	1	0	2	0	7	0	6	0	4	1	2	5	4	1	2	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	56213245	C	T	56213245	2	4	182	1	0	0	0	0	0	0	0	1	11270	610	22	2		2	ORMDL2	12	56213245	Silent	SNP	C	TCGA-B8-4153-01B-11D-1669-08	4462111	56213245	77638650	39	10159											
PTPRB	5787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	70983898	70983898	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcagcaccacagaatcAttgaagagtaggatccgata	15	8	10	8	1	1	4	1	2	0	2	2	6	2	5	2	1	2	3	2	1	4	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	70983898	A	C	70983898	3	2	182	1	0	0	0	0	1	0	0	0	12798	214	8	5	4859	5	PTPRB	12	70983898	Missense_Mutation	SNP	A	TCGA-B8-4153-01B-11D-1669-08	14770653	70983898	62867997	40	10160											
FGD6	55785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	95546763	95546763	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacttttcattccattatCttcatcctgtggataagagc	9	18	5	9	0	3	1	2	0	1	1	5	2	5	2	2	1	2	0	2	1	3	8	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	95546763	C	A	95546763	3	1	182	1	0	0	0	0	1	0	0	0	5837	913	32	4	1771	4	FGD6	12	95546763	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	24562865	95546763	38305132	41	10161											
DNAJC3	5611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	96438228	96438228	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaactgctcaggaacacaatGaaaatgatcagcagattcga	18	7	8	8	1	2	3	2	2	0	1	3	5	2	4	0	1	4	2	0	1	5	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	96438228	G	A	96438228	3	1	182	1	0	0	0	0	1	0	0	0	4647	1291	45	2	1149	2	DNAJC3	13	96438228	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		96438228	18731650	42	10162											
CMA1	1215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24975760	24975760	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacctcaagcttctgccatGtgtcttcttcctctgttatg	6	17	6	12	0	5	0	1	0	4	0	6	0	6	0	3	0	3	2	3	0	3	5	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	24975760	G	C	24975760	3	2	182	1	0	0	0	0	1	0	0	0	3574	1377	48	4	495	4	CMA1	14	24975760	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		24975760	82373780	43	10163											
SCFD1	23256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31122776	31122776	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacttggacatatcaagcAttggtgcacgatgtactggt	11	12	10	8	1	1	0	1	0	0	0	1	2	1	1	0	3	4	3	0	3	4	5	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	31122776	A	T	31122776	2	4	182	1	0	0	0	0	0	0	0	1	13891	204	8	5		5	SCFD1	14	31122776	Silent	SNP	A	TCGA-B8-4153-01B-11D-1669-08	6147016	31122776	76226764	44	10164											
MAN2C1	4123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75654746	75654746	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcaaactcctggatgcGggagtacaggccagggtagc	10	5	15	11	2	0	0	0	0	0	0	1	2	1	2	2	4	4	4	2	4	3	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	75654746	G	A	75654746	3	1	182	1	0	0	0	0	1	0	0	0	9218	1116	39	1	2252	1	MAN2C1	15	75654746	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		75654746	26876646	45	10165											
SALL1	6299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	51171323	51171323	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaggatccccacttccTgatcttgccgccaaatcctt	8	11	7	15	1	1	1	0	1	1	0	4	3	4	3	6	2	1	0	6	2	2	3	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		C	51171323	T	C	51171323	2	2	182	1	0	0	0	0	0	0	0	1	13812	1567	55	3		3	SALL1	16	51171323	Silent	SNP	T	TCGA-B8-4153-01B-11D-1669-08		51171323	39183430	46	10166											
CHD9	80205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53320220	53320220	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacctgatgagaaagcagtTgctgctgaacagagagcgaa	16	6	12	7	1	0	4	0	3	0	2	0	7	0	4	1	0	6	4	1	0	4	1	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	53320220	T	G	53320220	2	3	182	1	0	0	0	0	0	0	0	1	3332	1799	63	5		5	CHD9	16	53320220	Silent	SNP	T	TCGA-B8-4153-01B-11D-1669-08	2148897	53320220	37034533	47	10167											
CBFA2T3	863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88958664	88958664	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactcaccaccaggcccagCaccagtgtgcgcacgcgctc	9	4	9	19	3	1	0	1	0	0	0	2	0	1	0	4	1	3	3	4	1	1	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	88958664	C	T	88958664	2	4	182	1	0	0	0	0	0	0	0	1	2698	697	25	2		2	CBFA2T3	16	88958664	Silent	SNP	C	TCGA-B8-4153-01B-11D-1669-08	35638444	88958664	1396089	48	10168											
MAP3K3	4215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61762880	61762880	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgacttgccttacagatgCtggatcccctgagcagtgca	8	12	10	11	0	0	3	0	2	0	1	1	4	1	4	3	1	5	3	3	1	1	3	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	61762880	C	T	61762880	2	4	182	1	0	0	0	0	0	0	0	1	9251	796	28	2		2	MAP3K3	17	61762880	Silent	SNP	C	TCGA-B8-4153-01B-11D-1669-08		61762880	19432330	49	10169											
MC4R	4160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	58039328	58039328	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcatatcagccacagccaaGctgcagatgaaaaagtacat	17	6	8	10	0	1	2	1	1	0	1	1	2	1	2	2	0	6	4	2	0	5	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	58039328	G	T	58039328	3	4	182	1	0	0	0	0	1	0	0	0	9366	962	34	4	747	4	MC4R	18	58039328	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		58039328	20037920	50	10170											
RTTN	25914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	67872495	67872495	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcagattaagttgtgctCaatcttgcagagaatactct	12	13	9	7	0	3	2	1	0	2	2	3	3	3	2	0	0	4	5	0	0	5	5	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	67872495	C	A	67872495	4	1	182	1	0	0	0	0	0	1	0	0	13739	835	29	4	6784	4	RTTN	18	67872495	Nonsense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	9833167	67872495	10204753	51	10171											
CLEC4M	10332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7833849	7833849	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttactggatctgcaaaaagcCcgcagcctgcttcagagacg	11	8	10	12	2	2	1	1	0	1	1	2	3	2	2	2	1	5	3	2	1	3	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	7833849	C	T	7833849	3	4	182	1	0	0	0	0	1	0	0	0	3518	623	22	2	1222	2	CLEC4M	19	7833849	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08		7833849	51295134	52	10172											
AKAP8L	26993	hgsc.bcm.edu;ucsc.edu	37	chr19	15511126	15511126	+	Frame_Shift_Del	DEL	C	C	-																															ccttctctggatcctctttgCcttcttctctcccatcctct																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		-	15511126	C	-	15511126	7	5	182	1	0	1	0	1	0	0	0	0	458	739	26	0	940	0	AKAP8L	19	15511126	Frame_Shift_Del	DEL	C	TCGA-B8-4153-01B-11D-1669-08	7677277	15511126	43617857	53	10173											
WDR62	284403	broad.mit.edu;hgsc.bcm.edu	37	chr19	36574074	36574074	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccatggacgtgaaagccgGggtgcgggtcatgcaggtca	9	6	16	10	3	2	1	2	1	0	0	2	2	2	2	2	5	3	1	2	5	1	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	36574074	G	A	36574074	3	1	182	1	0	0	0	0	1	0	0	0	17312	1232	43	2	1523	2	WDR62	19	36574074	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	21062948	36574074	22554909	54	10174											
MAP3K10	4294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40698354	40698354	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggacccggcagtgacagCggagcaggtgtgccaggaag	11	3	18	9	2	0	1	0	1	0	0	0	5	0	4	2	5	3	2	2	5	2	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	40698354	C	A	40698354	3	1	182	1	0	0	0	0	1	0	0	0	9244	768	27	4	418	4	MAP3K10	19	40698354	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	4124280	40698354	18430629	55	10175											
CYP2A13	1553	broad.mit.edu;hgsc.bcm.edu	37	chr19	41594486	41594486	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggaagctgcctccgggacCcaccccattgcccttcattg	6	8	11	16	1	1	0	1	0	0	0	2	2	2	2	6	3	3	1	6	3	1	3	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	41594486	C	G	41594486	3	3	182	1	0	0	0	0	1	0	0	0	4161	623	22	4	112	4	CYP2A13	19	41594486	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	896132	41594486	17534497	56	10176											
AXL	558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41763495	41763495	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttatgactatctgcgccaggGaaatcgcctgaagcagcctg	10	9	11	11	2	1	2	0	2	1	0	2	3	1	3	3	1	3	1	3	1	4	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	41763495	G	A	41763495	3	1	182	1	0	0	0	0	1	0	0	0	1238	1174	41	2	2368	2	AXL	19	41763495	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	169009	41763495	17365488	57	10177											
ALDH16A1	126133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49963012	49963012	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggctgttcgagaggttcgaGacggggacgtccagctggcc	6	7	18	10	4	0	2	0	0	0	2	3	5	1	3	2	5	1	4	2	5	0	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	49963012	G	A	49963012	3	1	182	1	0	0	0	0	1	0	0	0	488	942	33	2	420	2	ALDH16A1	19	49963012	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	8199517	49963012	9165971	58	10178											
ETFB	2109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51848472	51848472	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggaggggctcaaatcCgcccaatctccttcagcttg	7	10	10	14	1	4	0	2	0	2	0	6	1	5	1	3	3	1	2	3	3	2	2	rs145173884		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	51848472	C	T	51848472	3	4	182	1	0	0	0	0	1	0	0	0	5270	652	23	1	10	1	ETFB	19	51848472	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	1885460	51848472	7280511	59	10179											
TSEN34	79042	hgsc.bcm.edu;ucsc.edu	37	chr19	54695606	54695607	+	In_Frame_Ins	INS	-	-	CTT																															aagcgccagcaagaggagagINScttccaggagcagagcgcct																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		CTT	54695607	-	CTT	54695606	7	5	182	1	0	1	1	0	0	0	0	0	16612	971	34	0	284	0	TSEN34	19	54695606	In_Frame_Ins	INS	-	TCGA-B8-4153-01B-11D-1669-08	2847134	54695606	4433377	60	10180											
KIR3DP1	548594	broad.mit.edu	37	chr19	55297923	55297923	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctcccccaggtggtcagGacaagcccttcctctctgcc	5	10	8	18	0	3	0	1	0	2	0	6	1	4	1	5	3	2	0	5	3	1	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	55297923	T	T	55297923	3	4	182	1	0	0	0	0	1	0	0	0	8323	1174	41	4	89	4	KIR3DP1	19	55297923	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08	602317	55297923	3831060	61	10181											
CHGB	1114	broad.mit.edu	37	chr20	5903113	5903113	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggagaggcaggagccccagGggaggaggacatccaaggcc	11	1	19	10	0	0	1	0	0	0	1	1	6	1	5	4	8	1	1	4	8	1	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		T	5903113	T	T	5903113	3	4	182	1	0	0	0	0	1	0	0	0	3339	1232	43	4	337	4	CHGB	20	5903113	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		5903113	57122407	62	10182											
C20orf132	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	35772198	35772198	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaattctcgacattttgtCaatgctcttttcaagttttg	9	18	7	7	1	4	0	2	0	2	0	5	2	4	1	0	1	1	2	0	1	3	7	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	35772198	C	A	35772198	3	1	182	1	0	0	0	0	1	0	0	0	2086	825	29	4	1939	4	C20orf132	20	35772198	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	29869085	35772198	27253322	63	10183											
MC3R	4159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	54824503	54824503	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcttcgccatgatgctcCtcatgggcaccctctacgtg	5	13	9	14	2	3	1	1	1	2	0	5	1	4	1	3	1	2	3	3	1	1	3	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	54824503	C	A	54824503	3	1	182	1	0	0	0	0	1	0	0	0	9365	681	24	4	606	4	MC3R	20	54824503	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08	19052305	54824503	8201017	64	10184											
LAMA5	3911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60904899	60904899	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgctgtgggtcacgtccagCagggcctggccctcacacac	6	7	12	16	2	2	0	2	0	0	0	4	0	3	0	3	3	1	2	3	3	0	0	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	60904899	C	G	60904899	2	3	182	1	0	0	0	0	0	0	0	1	8609	697	25	4		4	LAMA5	20	60904899	Silent	SNP	C	TCGA-B8-4153-01B-11D-1669-08	6080396	60904899	2120621	65	10185											
ADAMTS5	11096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	28338273	28338273	+	Frame_Shift_Del	DEL	A	A	-																															tcgagacccccacagaggtcAaagacagccagagagcgggg																								novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		-	28338273	A	-	28338273	7	5	182	1	0	1	0	1	0	0	0	0	269	127	5	0	2386	0	ADAMTS5	21	28338273	Frame_Shift_Del	DEL	A	TCGA-B8-4153-01B-11D-1669-08		28338273	19791622	66	10186											
NF2	4771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30074218	30074218	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccagcaccgttgcctcctGacataccaagcttcaacctc	9	10	5	17	1	1	1	1	1	0	0	4	1	3	1	6	0	5	3	6	0	3	4	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		A	30074218	G	A	30074218	3	1	182	1	0	0	0	0	1	0	0	0	10357	1290	45	2	1534	2	NF2	22	30074218	Missense_Mutation	SNP	G	TCGA-B8-4153-01B-11D-1669-08		30074218	21230348	67	10187											
CA5B	11238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	15768234	15768234	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccagattccgagattcatgCcagcgaggccctgcagcctc	8	8	10	15	2	1	2	1	0	0	2	4	4	3	2	5	1	4	1	5	1	0	2	novel		TCGA-B8-4153-01B-11D-1669-08	TCGA-B8-4153-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a66078d8-a6b2-4dc4-bfa3-def5a2e4504f	9f514938-c1ca-49d9-97ab-79cf8157f0a8		G	15768234	C	G	15768234	3	3	182	1	0	0	0	0	1	0	0	0	2520	739	26	4	90	4	CA5B	23	15768234	Missense_Mutation	SNP	C	TCGA-B8-4153-01B-11D-1669-08		15768234	139502326	68	10188											
PHC2	1912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33796958	33796958	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccactcacctctttgcaCaagccatggaacagaagcgc	11	6	10	14	1	2	1	1	0	1	1	2	2	2	2	3	2	4	1	3	2	3	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	33796958	C	T	33796958	3	4	183	1	0	0	0	0	1	0	0	0	11817	478	17	2	598	2	PHC2	1	33796958	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10		33796958	215453663	1	10189											
TCHHL1	126637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152060504	152060504	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaaaaagtccccaaactcgCcctggatgagttgtttcagc	12	9	9	11	1	1	1	1	1	0	0	3	3	2	2	3	1	2	2	3	1	4	2	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	152060504	C	T	152060504	3	4	183	1	0	0	0	0	1	0	0	0	15700	739	26	2	2606	2	TCHHL1	1	152060504	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	118263546	152060504	97190117	2	10190											
DEDD	9191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161093708	161093708	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcgaattgatgtctcctcCagatacttgtctacaagatc	11	13	7	10	1	2	3	0	1	2	2	5	4	3	3	2	0	3	0	2	0	5	5	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	161093708	C	A	161093708	2	1	183	1	0	0	0	0	0	0	0	1	4384	581	21	4		4	DEDD	1	161093708	Silent	SNP	C	TCGA-B8-4154-01A-01D-1251-10	9033204	161093708	88156913	3	10191											
F13B	2165	broad.mit.edu;ucsc.edu	37	chr1	197029544	197029544	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaaagttatagcattgaaTtaaatcagatccacttagat	17	12	5	7	0	1	3	1	1	0	2	2	3	2	3	2	0	1	2	2	0	7	5	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	197029544	C	C	197029544	3	2	183	1	0	0	0	0	1	0	0	0	5341	1493	52	3	1260	3	F13B	1	197029544	Missense_Mutation	SNP	T	TCGA-B8-4154-01A-01D-1251-10	35935836	197029544	52221077	4	10192											
PLXNA2	5362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	208207921	208207921	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggggaccagagccaccAccgacctgtctgacacctga	9	7	11	14	1	1	3	0	2	1	1	1	5	1	4	6	2	1	1	6	2	0	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		G	208207921	A	G	208207921	3	3	183	1	0	0	0	0	1	0	0	0	12120	159	6	3	927	3	PLXNA2	1	208207921	Missense_Mutation	SNP	A	TCGA-B8-4154-01A-01D-1251-10	11178377	208207921	41042700	5	10193											
IARS2	55699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220318884	220318884	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagacttccagcacctctCagttgaatgaattaatgatg	14	11	8	8	0	1	4	1	3	1	1	3	5	2	4	2	0	1	2	2	0	4	3	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	220318884	C	A	220318884	3	1	183	1	0	0	0	0	1	0	0	0	7474	827	29	4	2871	4	IARS2	1	220318884	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	12110963	220318884	28931737	6	10194											
SOS1	6654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39250004	39250004	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagaaaatataacactaTtttcatcttttaaaattatt	16	17	3	5	0	2	1	1	0	1	1	2	1	2	1	0	1	1	1	0	1	8	9	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	39250004	T	C	39250004	3	2	183	1	0	0	0	0	1	0	0	0	14938	1493	52	3	2492	3	SOS1	2	39250004	Missense_Mutation	SNP	T	TCGA-B8-4154-01A-01D-1251-10		39250004	203949369	7	10195											
NDUFS1	4719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207008817	207008817	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcatttctgaccattggCtcggtaagtctttgacgttt	6	19	8	8	2	3	2	1	2	2	0	4	2	3	2	1	2	0	3	1	2	1	7	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	207008817	C	A	207008817	2	1	183	1	0	0	0	0	0	0	0	1	10291	796	28	4		4	NDUFS1	2	207008817	Silent	SNP	C	TCGA-B8-4154-01A-01D-1251-10	167758813	207008817	36190556	8	10196											
SLC4A3	6508	broad.mit.edu;hgsc.bcm.edu	37	chr2	220497001	220497001	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtgttcgtggagctgaaCgagctgatgctggaccgcag	8	8	16	9	3	0	2	0	2	0	0	1	5	0	4	1	3	4	5	1	3	1	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	220497001	C	T	220497001	2	4	183	1	0	0	0	0	0	0	0	1	14657	535	19	1		1	SLC4A3	2	220497001	Silent	SNP	C	TCGA-B8-4154-01A-01D-1251-10	13488184	220497001	22702372	9	10197											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191563	10191563	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcgtcaggtcgctctacGaagatctggaagaccaccca	12	7	9	13	3	3	2	1	0	2	2	5	4	3	3	2	2	1	1	2	2	3	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	10191563	G	T	10191563	4	4	183	1	0	0	0	0	0	1	0	0	17161	1059	37	4	566	4	VHL	3	10191563	Nonsense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10		10191563	187830867	10	10198											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52682418	52682418	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattttttgcgaggagatctAtatctttggccattgcatga	9	16	9	7	1	2	2	0	1	2	1	2	4	2	2	1	2	2	1	1	2	2	7	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	52682418	A	C	52682418	3	2	183	1	0	0	0	0	1	0	0	0	11491	449	16	5	4241	5	PBRM1	3	52682418	Missense_Mutation	SNP	A	TCGA-B8-4154-01A-01D-1251-10	42490855	52682418	145340012	11	10199											
C3orf67	200844	broad.mit.edu;hgsc.bcm.edu	37	chr3	58923375	58923375	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattcatgtgatacttacaAttttacgtttgatcatgaag	13	16	6	6	1	2	3	2	3	0	0	2	3	2	3	0	0	3	1	0	0	5	6	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	58923375	A	C	58923375	3	2	183	1	0	0	0	0	1	0	0	0	2241	115	4	5	1722	5	C3orf67	3	58923375	Missense_Mutation	SNP	A	TCGA-B8-4154-01A-01D-1251-10	6240957	58923375	139099055	12	10200											
MUC13	56667	hgsc.bcm.edu;ucsc.edu	37	chr3	124646754	124646754	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagggaaattagtttcagTggtatcagctgcagctactg	10	13	11	7	0	3	0	3	0	0	0	3	1	3	1	0	2	4	5	0	2	4	5	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	124646754	T	A	124646754	3	1	183	1	0	0	0	0	1	0	0	0	9971	1696	59	5	1439	5	MUC13	3	124646754	Missense_Mutation	SNP	T	TCGA-B8-4154-01A-01D-1251-10	65723379	124646754	73375676	13	10201											
CLSTN2	64084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	140122627	140122627	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catccaggcctatgactgtgGtgctgggccccacgagacag	8	7	13	13	1	0	2	0	1	0	1	1	3	1	2	4	3	1	1	4	3	1	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	140122627	G	C	140122627	3	2	183	1	0	0	0	0	1	0	0	0	3562	1261	44	4	399	4	CLSTN2	3	140122627	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	15475873	140122627	57899803	14	10202											
KCNAB1	7881	hgsc.bcm.edu;ucsc.edu	37	chr3	156009880	156009880	+	Frame_Shift_Del	DEL	A	A	-																															ctcagcatcacatttctctcAaagagtccaccgcaaagcag																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		-	156009880	A	-	156009880	7	5	183	1	0	1	0	1	0	0	0	0	8009	131	5	0	711	0	KCNAB1	3	156009880	Frame_Shift_Del	DEL	A	TCGA-B8-4154-01A-01D-1251-10	15887253	156009880	42012550	15	10203											
MECOM	2122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	168849313	168849314	+	Frame_Shift_Del	DEL	AG	AG	-																															aatgtctgcaactactctatAgaatatctttaaagacaaaa																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		-	168849314	AG	-	168849313	7	5	183	1	0	1	0	1	0	0	0	0	9422	420	15	0	3261	0	MECOM	3	168849313	Frame_Shift_Del	DEL	AG	TCGA-B8-4154-01A-01D-1251-10	12839433	168849313	29173117	16	10204											
WFS1	7466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	6303445	6303445	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcctggtgtggctcacGgccatcgtgctgttctgctg	3	13	12	13	2	3	0	2	0	1	0	5	0	4	0	2	3	2	4	2	3	0	1	rs139040290		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	6303445	G	A	6303445	2	1	183	1	0	0	0	0	0	0	0	1	17359	1103	39	1		1	WFS1	4	6303445	Silent	SNP	G	TCGA-B8-4154-01A-01D-1251-10		6303445	184850831	17	10205											
GABRA4	2557	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	46976378	46976378	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtatagatcatctcacTctttggataggcatctaaaa	13	12	7	9	0	4	1	2	0	3	1	5	2	4	2	1	3	0	2	1	3	5	5	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	46976378	T	C	46976378	3	2	183	1	0	0	0	0	1	0	0	0	6163	1551	54	3	1088	3	GABRA4	4	46976378	Missense_Mutation	SNP	T	TCGA-B8-4154-01A-01D-1251-10	40672933	46976378	144177898	18	10206											
SLC7A11	23657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	139144404	139144404	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattatcagaattgctgtgaGcttgcaaaaggttaagaaaa	17	11	9	4	0	1	3	1	1	0	2	1	3	1	3	0	1	3	4	0	1	8	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	139144404	G	A	139144404	3	1	183	1	0	0	0	0	1	0	0	0	14696	971	34	2	946	2	SLC7A11	4	139144404	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	92168026	139144404	52009872	19	10207											
SLC6A18	348932	broad.mit.edu;hgsc.bcm.edu	37	chr5	1232438	1232438	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggaagggcagcgtcggcGtgtggacggccatctccccg	5	6	17	13	6	1	0	0	0	1	0	3	2	1	2	3	5	2	1	3	5	1	0	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	1232438	G	T	1232438	3	4	183	1	0	0	0	0	1	0	0	0	14683	1145	40	4	271	4	SLC6A18	5	1232438	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10		1232438	179682822	20	10208											
CAPSL	133690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	35921149	35921149	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagtcggagtctttcaatgGggtcggtggccgtggtgagc	5	10	18	8	3	2	1	1	1	1	0	4	2	2	2	1	6	1	1	1	6	1	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	35921149	G	C	35921149	3	2	183	1	0	0	0	0	1	0	0	0	2639	1232	43	4	568	4	CAPSL	5	35921149	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	34688711	35921149	144994111	21	10209											
C7	730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	40947837	40947837	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctctgtatgactacagtgCctaccgaagattaatcgacc	11	11	7	12	2	1	2	0	1	1	1	3	4	1	2	3	0	3	1	3	0	5	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	40947837	C	A	40947837	3	1	183	1	0	0	0	0	1	0	0	0	2375	739	26	4	902	4	C7	5	40947837	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	5026688	40947837	139967423	22	10210											
PDE4D	5144	broad.mit.edu;ucsc.edu	37	chr5	59284433	59284433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttccaactgtctgaaggCgagagggggaagctgaatat	11	10	14	6	1	1	3	0	2	1	1	2	5	2	4	1	3	2	2	1	3	5	3	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	59284433	T	T	59284433	3	4	183	1	0	0	0	0	1	0	0	0	11642	768	27	1	2662	1	PDE4D	5	59284433	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	18336596	59284433	121630827	23	10211											
SSBP2	23635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	80911317	80911317	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaaggcttttgcttcaCttgagtgttcacatgtttca	8	16	9	8	0	3	1	3	1	0	0	3	2	3	2	0	2	1	4	0	2	1	6	rs11555880		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	80911317	C	A	80911317	3	1	183	1	0	0	0	0	1	0	0	0	15181	565	20	4	884	4	SSBP2	5	80911317	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	21626884	80911317	100003943	24	10212											
ANKHD1-EIF4EBP3	404734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139866633	139866633	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaactctcctgcccttttaGgagtgcaaaaaggttagtta	12	12	9	8	0	1	1	0	0	1	1	2	2	1	2	2	2	3	3	2	2	6	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	139866633	G	A	139866633	3	1	183	1	0	0	0	0	1	0	0	0	629	1001	35	2	2287	2	ANKHD1-EIF4EBP3	5	139866633	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	58955316	139866633	41048627	25	10213											
RIMS1	22999	hgsc.bcm.edu	37	chr6	73100387	73100388	+	Frame_Shift_Ins	INS	-	-	G																															agaaagatggtaaggcagccINSgagccgagagtctactgatg																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		G	73100388	-	G	73100387	7	5	183	1	0	1	1	0	0	0	0	0	13369	652	23	0	4735	0	RIMS1	6	73100387	Frame_Shift_Ins	INS	-	TCGA-B8-4154-01A-01D-1251-10		73100387	98014680	26	10214											
KIAA1244	57221	broad.mit.edu	37	chr6	138655319	138655319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctggactcttataGgactgccagggagtttgaca	8	11	12	10	0	1	1	0	1	1	0	1	4	1	4	2	3	3	3	2	3	2	3	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	138655319	A	A	138655319	3	1	183	1	0	0	0	0	1	0	0	0	8217	1000	35	2	5466	2	KIAA1244	6	138655319	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	65554932	138655319	32459748	27	10215											
MGC87042	0	broad.mit.edu;hgsc.bcm.edu	37	chr7	22534457	22534457	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcttcttggtttgtgatGtcttttctgctttccattaa	5	23	6	7	0	4	1	0	1	4	0	5	1	5	1	1	1	1	2	1	1	1	8	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	22534457	G	T	22534457	3	4	183	1	0	0	0	0	1	0	0	0	9554	1368	48	4	1063	4	MGC87042	7	22534457	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10		22534457	136604206	28	10216											
FAM200A	221786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99145313	99145313	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctcgatgaataaaacagtGattccaaacagcattgttgt	14	13	7	7	1	1	2	0	2	1	0	3	3	2	2	1	0	3	2	1	0	4	5	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	99145313	G	A	99145313	3	1	183	1	0	0	0	0	1	0	0	0	5536	1290	45	2	1007	2	FAM200A	7	99145313	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	76610856	99145313	59993350	29	10217											
MRPL15	29088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55049858	55049858	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtataagcctttgagtctCaatagactgcagtatcttat	12	14	7	8	0	2	2	1	1	2	1	3	2	2	2	1	0	2	3	1	0	6	6	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		G	55049858	C	G	55049858	2	3	183	1	0	0	0	0	0	0	0	1	9780	813	29	4		4	MRPL15	8	55049858	Silent	SNP	C	TCGA-B8-4154-01A-01D-1251-10		55049858	91314164	30	10218											
ROD1	0	broad.mit.edu;hgsc.bcm.edu	37	chr9	115038125	115038125	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttaaatattacataccTggctttttcctttcaacatc	11	18	2	10	0	2	0	1	0	1	0	4	0	3	0	2	1	3	1	2	1	6	8	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	115038125	T	A	115038125	3	1	183	1	0	0	0	0	1	0	0	0	13521	1594	55	5	1419	5	ROD1	9	115038125	Missense_Mutation	SNP	T	TCGA-B8-4154-01A-01D-1251-10		115038125	26175306	31	10219											
UPF2	26019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12070760	12070760	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacctgttttgtctctcagTattctggagctccctgtggt	4	17	9	11	0	4	0	2	0	2	0	6	1	5	1	2	2	1	3	2	2	1	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	12070760	T	A	12070760	3	1	183	1	0	0	0	0	1	0	0	0	17003	1638	57	5	2769	5	UPF2	10	12070760	Missense_Mutation	SNP	T	TCGA-B8-4154-01A-01D-1251-10		12070760	123463987	32	10220											
LIPK	643414	broad.mit.edu;hgsc.bcm.edu	37	chr10	90497391	90497391	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgttttaaattatcttgtaGgtgttgtttggtgacaaaat	10	19	10	2	0	1	1	0	1	1	0	1	1	1	1	0	2	0	4	0	2	6	7	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	90497391	G	T	90497391	5	4	183	1	0	0	0	0	0	0	1	0	8827	1014	35	4	691	4	LIPK	10	90497391	Splice_Site	SNP	G	TCGA-B8-4154-01A-01D-1251-10	78426631	90497391	45037356	33	10221											
MS4A12	54860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60264961	60264961	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctacggcatcacatctcCgggaatctttgctagcagtc	8	10	9	14	2	3	0	1	0	2	0	5	1	3	1	2	2	3	3	2	2	3	3	rs148561730		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	60264961	C	T	60264961	3	4	183	1	0	0	0	0	1	0	0	0	9856	652	23	1	172	1	MS4A12	11	60264961	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10		60264961	74741555	34	10222											
DAGLA	747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61504731	61504731	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actgctgccatcctctccttCcttctgcgcccacagtatcc	5	12	5	19	1	2	0	0	0	2	0	6	0	5	0	6	0	3	2	6	0	1	3	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	61504731	C	T	61504731	2	4	183	1	0	0	0	0	0	0	0	1	4226	854	30	2		2	DAGLA	11	61504731	Silent	SNP	C	TCGA-B8-4154-01A-01D-1251-10	1239770	61504731	73501785	35	10223											
EHD1	10938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64645686	64645686	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcccgatgcgcatccccGggaagtcctgctcgatcagg	6	6	14	15	5	1	0	1	0	0	0	4	3	3	1	4	3	2	2	4	3	1	0	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	64645686	G	A	64645686	3	1	183	1	0	0	0	0	1	0	0	0	4977	1116	39	1	1373	1	EHD1	11	64645686	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10	3140955	64645686	70360830	36	10224											
EHBP1L1	254102	broad.mit.edu;ucsc.edu	37	chr11	65349886	65349886	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtggtagggttggaggtGctgggaacccaggagaaaga	11	6	20	4	0	0	2	0	0	0	2	0	6	0	4	1	7	2	3	1	7	3	2	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	65349886	A	A	65349886	2	1	183	1	0	0	0	0	0	0	0	1	4976	1306	46	2		2	EHBP1L1	11	65349886	Silent	SNP	G	TCGA-B8-4154-01A-01D-1251-10	704200	65349886	69656630	37	10225											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64545255	64545255	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atagaagaaattaacaatggGcttcataatgttgaaaagat	19	11	8	3	0	1	4	1	1	0	3	1	4	1	4	0	1	1	2	0	1	8	5	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		C	64545255	G	C	64545255	2	2	183	1	0	0	0	0	0	0	0	1	15445	1190	42	4		4	SYNE2	14	64545255	Silent	SNP	G	TCGA-B8-4154-01A-01D-1251-10		64545255	42804285	38	10226											
ADAM21	8747	broad.mit.edu	37	chr14	70925981	70925981	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactcatatcaatggtgtcAcctgctggggtattgactat	10	13	9	9	0	3	1	3	1	0	0	3	1	3	1	1	3	1	2	1	3	4	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	70925981	T	T	70925981	3	4	183	1	0	0	0	0	1	0	0	0	243	159	6	5	1767	5	ADAM21	14	70925981	Missense_Mutation	SNP	A	TCGA-B8-4154-01A-01D-1251-10	6380726	70925981	36423559	39	10227											
C14orf166B	145497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77327095	77327095	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtgtatgccgttcacccGcagctggacgtggtattcaa	8	10	13	10	3	2	0	2	0	0	0	2	2	2	2	2	3	2	5	2	3	3	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	77327095	G	A	77327095	2	1	183	1	0	0	0	0	0	0	0	1	1757	1074	38	1		1	C14orf166B	14	77327095	Silent	SNP	G	TCGA-B8-4154-01A-01D-1251-10	6401114	77327095	30022445	40	10228											
STRA6	64220	broad.mit.edu	37	chr15	74472524	74472524	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccagcgagccctgccgCggctggccccgggcctagct	4	4	14	19	4	0	0	0	0	0	0	0	2	0	0	7	3	4	2	7	3	1	1	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	74472524	A	A	74472524	3	1	183	1	0	0	0	0	1	0	0	0	15323	768	27	4	106	4	STRA6	15	74472524	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10		74472524	28058868	41	10229											
MCTP2	55784	hgsc.bcm.edu;ucsc.edu	37	chr15	95013580	95013580	+	Frame_Shift_Del	DEL	C	C	-																															agcacatttaactggacggtCcccttcctttcatctctggc																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		-	95013580	C	-	95013580	7	5	183	1	0	1	0	1	0	0	0	0	9401	842	30	0	2533	0	MCTP2	15	95013580	Frame_Shift_Del	DEL	C	TCGA-B8-4154-01A-01D-1251-10	20541056	95013580	7517812	42	10230											
DPEP2	64174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68026474	68026474	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggccgtagctgaaattgCgcaggttaacatcctgtagc	9	11	11	10	2	1	1	0	1	1	0	2	1	2	1	2	2	4	5	2	2	4	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	68026474	C	T	68026474	3	4	183	1	0	0	0	0	1	0	0	0	4714	768	27	1	1167	1	DPEP2	16	68026474	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10		68026474	22328279	43	10231											
KIAA0174	0	hgsc.bcm.edu	37	chr16	71956529	71956529	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatgcccatgcccatgccCatgcctatgccatctgcaaa	10	8	6	17	0	1	0	0	0	1	0	1	0	1	0	6	0	6	1	6	0	3	1	rs28701631	bycluster;byfrequency;by1000genomes	TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	71956529	C	T	71956529	2	4	183	1	0	0	0	0	0	0	0	1	8158	581	21	2		2	KIAA0174	16	71956529	Silent	SNP	C	TCGA-B8-4154-01A-01D-1251-10	3930055	71956529	18398224	44	10232											
SMG6	23293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	2076117	2076117	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcagtcagtatgttacaGaaatcagccagcgtcgacca	13	8	9	11	2	2	1	2	0	0	1	3	2	2	1	2	0	4	3	2	0	3	2	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	2076117	G	T	2076117	3	4	183	1	0	0	0	0	1	0	0	0	14799	933	33	4	1095	4	SMG6	17	2076117	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10		2076117	79119093	45	10233											
MYH3	4621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10551954	10551954	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attggcactgatgatttgatCttccagagtcccctaatgca	10	13	8	10	0	1	4	0	3	1	1	3	4	3	4	3	1	1	2	3	1	1	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	10551954	C	T	10551954	3	4	183	1	0	0	0	0	1	0	0	0	10036	913	32	2	5303	2	MYH3	17	10551954	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	8475837	10551954	70643256	46	10234											
PSMC5	5705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61907491	61907491	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgagcccttgtttctttAggtacatcctgaaggtaaat	10	15	8	8	0	2	2	1	2	1	0	3	2	3	2	2	2	2	3	2	2	5	6	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		G	61907491	A	G	61907491	5	3	183	1	0	0	0	0	0	0	1	0	12692	434	15	3	281	3	PSMC5	17	61907491	Splice_Site	SNP	A	TCGA-B8-4154-01A-01D-1251-10	51355537	61907491	19287719	47	10235											
SETBP1	26040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	42530906	42530906	+	Missense_Mutation	SNP	G	G	A																															tgcaaaacgaaggtggacttGcagcaaaccaaaacctagca																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	42530906	G	A	42530906	3	1	183	1	0	0	0	0	1	0	0	0	14131	1319	46	2	1804	2	SETBP1	18	42530906	Missense_Mutation	SNP	G	TCGA-B8-4154-01A-01D-1251-10		42530906	35546342	48	10236	154	2									
SETBP1	26040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	42530907	42530907	+	Nonsense_Mutation	SNP	C	C	A																															gcaaaacgaaggtggacttgCagcaaaccaaaacctagcac																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	42530907	C	A	42530907	4	1	183	1	0	0	0	0	0	1	0	0	14131	718	25	4	1805	4	SETBP1	18	42530907	Nonsense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	1	42530907	35546341	49	10237	154	2									
ZNF439	90594	broad.mit.edu;hgsc.bcm.edu	37	chr19	11979300	11979300	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatgaatgtaagaaatgtggGaaagccttcagatatgtcca	15	11	10	5	0	1	3	1	1	0	2	2	4	2	4	2	1	1	1	2	1	6	4	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	11979300	G	T	11979300	2	4	183	1	0	0	0	0	0	0	0	1	17910	1161	41	4		4	ZNF439	19	11979300	Silent	SNP	G	TCGA-B8-4154-01A-01D-1251-10		11979300	47149683	50	10238											
NLRP7	199713	hgsc.bcm.edu;ucsc.edu	37	chr19	55451609	55451609	+	Frame_Shift_Del	DEL	A	A	-																															ggttgcagtctgtccagtccAgcatacactttttggccagc																								novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		-	55451609	A	-	55451609	7	5	183	1	0	1	0	1	0	0	0	0	10482	188	7	0	2567	0	NLRP7	19	55451609	Frame_Shift_Del	DEL	A	TCGA-B8-4154-01A-01D-1251-10	43472309	55451609	3677374	51	10239											
PHF20	51230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34515757	34515757	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgggattactggaagaaaAtgtgcccgagaaatacacct	15	8	10	8	1	0	2	0	0	0	2	0	5	0	4	2	2	3	0	2	2	6	2	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	34515757	A	T	34515757	3	4	183	1	0	0	0	0	1	0	0	0	11831	101	4	5	2110	5	PHF20	20	34515757	Missense_Mutation	SNP	A	TCGA-B8-4154-01A-01D-1251-10		34515757	28509763	52	10240											
PHF8	23133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54019191	54019191	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgttagacatcaatagggCcaatgggctctcatttccat	10	11	9	11	1	2	1	2	0	1	1	4	1	3	1	3	2	0	2	3	2	4	3	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	54019191	C	A	54019191	3	1	183	1	0	0	0	0	1	0	0	0	11840	739	26	4	1572	4	PHF8	23	54019191	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10		54019191	101251369	53	10241											
TMEM185A	84548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	148690436	148690436	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctctcgattctgtcacagaCcagaacttcaaacatcaaca	14	10	4	13	1	5	2	3	0	2	2	7	3	5	2	1	0	3	0	1	0	3	2	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		A	148690436	C	A	148690436	3	1	183	1	0	0	0	0	1	0	0	0	16106	507	18	4	771	4	TMEM185A	23	148690436	Missense_Mutation	SNP	C	TCGA-B8-4154-01A-01D-1251-10	94671245	148690436	6580124	54	10242											
MAGEA12	4111	broad.mit.edu	37	chrX	151896050	151896050	+	RNA	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaatgtactctacaccctGttggctatttttctggggtt	8	17	8	8	0	2	0	0	0	2	0	2	0	2	0	1	3	2	4	1	3	5	8	novel		TCGA-B8-4154-01A-01D-1251-10	TCGA-B8-4154-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e48f5c14-4b64-4d4b-8273-bebc74182181	92fc2606-210b-4ce0-856a-acef65c80d17		T	151896050	T	T	151896050	1	4	183	0	1	0	0	0	0	0	0	0	9166	1392	48	4		4	MAGEA12	23	151896050	RNA	SNP	G	TCGA-B8-4154-01A-01D-1251-10	3205614	151896050	3374510	55	10243											
TP73	7161	hgsc.bcm.edu	37	chr1	3645988	3645989	+	Frame_Shift_Ins	INS	-	-	G																															ctggtggactcctatcggcaINSgcagcagcagctcctacaga																								novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		G	3645989	-	G	3645988	7	5	184	1	0	1	1	0	0	0	0	0	16392	188	7	0	1249	0	TP73	1	3645988	Frame_Shift_Ins	INS	-	TCGA-B8-4620-01A-01D-1553-08		3645988	245604633	1	10244											
LIN28A	79727	broad.mit.edu	37	chr1	26737960	26737960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggacgagcctcagctgctgCacggtgcgggcatctgtaag	7	7	15	12	4	2	0	1	0	1	0	2	2	2	1	1	3	5	5	1	3	1	1	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	26737960	T	T	26737960	3	4	184	1	0	0	0	0	1	0	0	0	8805	710	25	2	121	2	LIN28A	1	26737960	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-01D-1553-08	23091972	26737960	222512661	2	10245											
HIST2H3D	653604	broad.mit.edu;hgsc.bcm.edu	37	chr1	149785229	149785229	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgggcagtctgcttagtaCgggccatgctgtctcattga	6	12	13	10	2	2	1	1	1	2	0	3	1	2	1	1	2	4	4	1	2	2	3	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	149785229	C	T	149785229	3	4	184	1	0	0	0	0	1	0	0	0	7181	536	19	1	404	1	HIST2H3D	1	149785229	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-01D-1553-08	123047269	149785229	99465392	3	10246											
KCNF1	3754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11053935	11053935	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgcggggaaggaggcGccgagctgcagcagccggct	7	3	19	12	4	0	0	0	0	0	0	0	4	0	2	3	5	6	4	3	5	1	0	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		A	11053935	G	A	11053935	2	1	184	1	0	0	0	0	0	0	0	1	8026	1074	38	1		1	KCNF1	2	11053935	Silent	SNP	G	TCGA-B8-4620-01A-01D-1553-08		11053935	232145438	4	10247											
ASTL	431705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	96789912	96789912	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcccgcactggaaccactggGgtcggggctcctggattccg	5	8	14	14	3	0	0	0	0	0	0	4	2	3	2	4	6	1	2	4	6	1	1	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	96789912	G	T	96789912	3	4	184	1	0	0	0	0	1	0	0	0	1063	1232	43	4	325	4	ASTL	2	96789912	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-01D-1553-08	85735977	96789912	146409461	5	10248											
TGFBRAP1	9392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	105886106	105886106	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcgccttctcatgctcgcCcagcttcccgtgcaggatgg	5	9	11	16	3	1	0	1	0	1	0	4	1	2	1	3	2	4	3	3	2	0	2	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		A	105886106	C	A	105886106	3	1	184	1	0	0	0	0	1	0	0	0	15823	623	22	4	561	4	TGFBRAP1	2	105886106	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-01D-1553-08	9096194	105886106	137313267	6	10249											
FAM55C	0	broad.mit.edu	37	chr3	101520532	101520532	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatggccaggcaaagttaaaGtatccgtatctctggtccac	11	11	9	10	1	1	0	0	0	1	0	4	0	3	0	3	3	0	4	3	3	6	4	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	101520532	T	T	101520532	3	4	184	1	0	0	0	0	1	0	0	0	5586	1029	36	4	553	4	FAM55C	3	101520532	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-01D-1553-08		101520532	96501898	7	10250											
PRSS16	10279	hgsc.bcm.edu	37	chr6	27218496	27218497	+	Frame_Shift_Ins	INS	-	-	C																															ctctgcccgcctggcactttINScccgcctctttaacatctcc																								novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		C	27218497	-	C	27218496	7	5	184	1	0	1	1	0	0	0	0	0	12618	1783	62	0	520	0	PRSS16	6	27218496	Frame_Shift_Ins	INS	-	TCGA-B8-4620-01A-01D-1553-08		27218496	143896571	8	10251											
BAG4	9530	broad.mit.edu	37	chr8	38034599	38034599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaaggcggaggaggcgatgGctactatccctcgggaggcg	9	5	18	9	4	0	1	0	0	0	1	2	5	1	4	1	7	1	1	1	7	3	2	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		A	38034599	A	A	38034599	3	1	184	1	0	0	0	0	1	0	0	0	1289	1203	42	2	214	2	BAG4	8	38034599	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-01D-1553-08		38034599	108329423	9	10252											
C9orf16	79095	hgsc.bcm.edu	37	chr9	130925841	130925841	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtccaaccggcagacaCgcctggagttccagcagcag	10	5	13	13	2	0	1	0	0	0	1	2	3	2	3	4	3	3	4	4	3	1	1	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	130925841	C	T	130925841	3	4	184	1	0	0	0	0	1	0	0	0	2466	536	19	1	205	1	C9orf16	9	130925841	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-01D-1553-08		130925841	10287590	10	10253											
ADAMTS13	11093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136291396	136291396	+	Frame_Shift_Del	DEL	G	G	-																															cggtgcctgctccccaacctGgagctgcctcattaccgagg																								novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		-	136291396	G	-	136291396	7	5	184	1	0	1	0	1	0	0	0	0	258	1357	47	0	639	0	ADAMTS13	9	136291396	Frame_Shift_Del	DEL	G	TCGA-B8-4620-01A-01D-1553-08	5365555	136291396	4922035	11	10254											
ART1	417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3681532	3681532	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagactggcccagggcccCgcccgcatctacctccgagc	7	4	11	19	3	1	1	0	0	1	1	2	2	2	1	6	2	3	2	6	2	1	1	rs139469651		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	3681532	C	T	3681532	2	4	184	1	0	0	0	0	0	0	0	1	997	639	23	1		1	ART1	11	3681532	Silent	SNP	C	TCGA-B8-4620-01A-01D-1553-08		3681532	131324984	12	10255											
USP35	57558	hgsc.bcm.edu	37	chr11	77921393	77921402	+	Frame_Shift_Del	DEL	TGCTGCTCCG	TGCTGCTCCG	-																															ggatgacgtctccatcccccTgctgctccgcctgccactgg																								novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	TGCTGCTCCG	TGCTGCTCCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		-	77921402	TGCTGCTCCG	-	77921393	7	5	184	1	0	1	0	1	0	0	0	0	17065	1580	55	0	2526	0	USP35	11	77921393	Frame_Shift_Del	DEL	TGCTGCTCCG	TCGA-B8-4620-01A-01D-1553-08	74239861	77921393	57085123	13	10256											
FAM124A	220108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	51826047	51826047	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctactgtcgctacgacAactatgctgacagcctcagg	9	9	9	14	3	2	1	1	1	1	0	3	2	2	1	2	1	5	2	2	1	4	3	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	51826047	A	T	51826047	3	4	184	1	0	0	0	0	1	0	0	0	5425	130	5	5	666	5	FAM124A	13	51826047	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-01D-1553-08		51826047	63343831	14	10257											
CDH24	64403	broad.mit.edu	37	chr14	23521190	23521190	+	Frame_Shift_Del	DEL	C	-	-																															ctcccctaccttgggggattCccacagcgcttccaacaggg																								novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		-	23521190	-	-	23521190	7	5	184	1	0	1	0	1	0	0	0	0	3109	855	30	0	1013	0	CDH24	14	23521190	Frame_Shift_Del	DEL	C	TCGA-B8-4620-01A-01D-1553-08		23521190	83828350	15	10258											
CILP	8483	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65499358	65499358	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcccgcctgggtagtcGatgttgaaccatgttgtcca	6	12	10	13	2	0	1	0	1	0	0	3	2	2	1	5	1	1	3	5	1	2	4	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	65499358	G	T	65499358	2	4	184	1	0	0	0	0	0	0	0	1	3429	1048	37	4		4	CILP	15	65499358	Silent	SNP	G	TCGA-B8-4620-01A-01D-1553-08		65499358	37032034	16	10259											
SETD1A	9739	hgsc.bcm.edu	37	chr16	30975991	30975992	+	Frame_Shift_Ins	INS	-	-	C																															cagctaccaagatgccttttINScccgccgccacttctctgca																								novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		C	30975992	-	C	30975991	7	5	184	1	0	1	1	0	0	0	0	0	14132	1783	62	0	950	0	SETD1A	16	30975991	Frame_Shift_Ins	INS	-	TCGA-B8-4620-01A-01D-1553-08		30975991	59378762	17	10260											
MEOX1	4222	broad.mit.edu;hgsc.bcm.edu	37	chr17	41738797	41738797	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggggtgggcgggtagtgggGtagccctgaggccccattgc	4	7	20	10	2	0	1	0	1	0	0	0	1	0	1	3	7	2	2	3	7	2	3	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	41738797	G	T	41738797	3	4	184	1	0	0	0	0	1	0	0	0	9473	1261	44	4	670	4	MEOX1	17	41738797	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-01D-1553-08		41738797	39456413	18	10261											
KRTAP20-2	337976	broad.mit.edu;ucsc.edu	37	chr21	32007632	32007632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgttatggctatggagTcctgggcggtggctatggct	4	13	16	8	2	1	0	0	0	1	0	2	1	2	1	1	6	1	4	1	6	3	3	rs8132721	bycluster;by2hit2allele	TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		G	32007632	G	G	32007632	3	3	184	1	0	0	0	0	1	0	0	0	8537	1667	58	5	52	5	KRTAP20-2	21	32007632	Missense_Mutation	SNP	T	TCGA-B8-4620-01A-01D-1553-08		32007632	16122263	19	10262											
SUSD2	56241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24580140	24580140	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaatgatggagaagagcgAgttggtgaacgagacgcgtt	12	8	16	5	4	1	5	1	2	0	3	1	8	1	5	0	2	2	2	0	2	3	2	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		C	24580140	A	C	24580140	3	2	184	1	0	0	0	0	1	0	0	0	15407	304	11	5	490	5	SUSD2	22	24580140	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-01D-1553-08		24580140	26724426	20	10263											
TMPRSS6	164656	broad.mit.edu	37	chr22	37480371	37480371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccactggccctgggtgcacGgcaaatcatacttctgcctc	7	10	9	15	1	2	0	1	0	1	0	4	0	3	0	3	3	3	2	3	3	2	2	novel		TCGA-B8-4620-01A-01D-1553-08	TCGA-B8-4620-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	69686924-5a9f-4e07-9e6d-62a3435f9971	eb4eb312-f11f-4a33-bf85-bb0d4a294c54		T	37480371	T	T	37480371	3	4	184	1	0	0	0	0	1	0	0	0	16250	1116	39	4	1284	4	TMPRSS6	22	37480371	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-01D-1553-08	12900231	37480371	13824195	21	10264											
DPYD	1806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	98164907	98164907	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaataaatgtaggcattacCttaaaccaccaacatattct	17	11	4	9	0	1	0	0	0	1	0	1	1	1	0	3	1	3	2	3	1	9	6	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	98164907	C	T	98164907	3	4	185	1	0	0	0	0	1	0	0	0	4745	695	24	2	2469	2	DPYD	1	98164907	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		98164907	151085714	1	10265											
FLG2	388698	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152323999	152323999	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	accctctctgtgtggactgtCcatgaccagagtgagcatgt	8	11	11	11	0	1	3	0	2	1	1	3	4	2	4	3	1	1	1	3	1	0	0	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	152323999	C	G	152323999	3	3	185	1	0	0	0	0	1	0	0	0	5923	855	30	4	916	4	FLG2	1	152323999	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	54159092	152323999	96926622	2	10266											
CFHR2	3080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196927137	196927137	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtgccagaacttgtatCaacttgagggtaacaatcaa	15	9	8	9	0	2	2	2	1	0	1	2	2	2	2	2	1	4	2	2	1	6	4	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	196927137	C	A	196927137	3	1	185	1	0	0	0	0	1	0	0	0	3285	827	29	4	561	4	CFHR2	1	196927137	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	44603138	196927137	52323484	3	10267											
CD55	1604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207495818	207495818	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatactgtaataacgtacaaAtgtgaagaaagctttgtgaa	17	11	9	4	1	0	3	0	2	0	1	0	4	0	3	0	0	4	3	0	0	8	5	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	207495818	A	C	207495818	3	2	185	1	0	0	0	0	1	0	0	0	3024	98	4	5	198	5	CD55	1	207495818	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-02D-1386-10	10568681	207495818	41754803	4	10268											
EPAS1	2034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	46611722	46611723	+	Frame_Shift_Del	DEL	GT	GT	-																															tgaccagatatgactgtgagGtgaacgtgcccgtgctggga																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	46611723	GT	-	46611722	7	5	185	1	0	1	0	1	0	0	0	0	5150	1261	44	0	2598	0	EPAS1	2	46611722	Frame_Shift_Del	DEL	GT	TCGA-B8-4620-01A-02D-1386-10		46611722	196587651	5	10269											
ANAPC1	64682	hgsc.bcm.edu	37	chr2	112536274	112536274	+	Frame_Shift_Del	DEL	G	G	-																															gatccattgcgatgtatgcaGgcaacatctctggggtctcc																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	112536274	G	-	112536274	7	5	185	1	0	1	0	1	0	0	0	0	598	1000	35	0	487	0	ANAPC1	2	112536274	Frame_Shift_Del	DEL	G	TCGA-B8-4620-01A-02D-1386-10	65924552	112536274	130663099	6	10270											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47125280	47125289	+	Frame_Shift_Del	DEL	TCTTGGCTCC	TCTTGGCTCC	-																															ccactgttttatctggctgtTcttggctcctttcactctcc																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	TCTTGGCTCC	TCTTGGCTCC	TCTTGGCTCC	-	TCTTGGCTCC	TCTTGGCTCC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	47125289	TCTTGGCTCC	-	47125280	7	5	185	1	0	1	0	1	0	0	0	0	14133	1783	62	0	1744	0	SETD2	3	47125280	Frame_Shift_Del	DEL	TCTTGGCTCC	TCGA-B8-4620-01A-02D-1386-10		47125280	150897150	7	10271	155	3									
SETD2	29072	ucsc.edu	37	chr3	47125288	47125288	+	Missense_Mutation	SNP	C	C	G																															ttatctggctgttcttggctCctttcactctccacatcaga																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	47125288	C	G	47125288	3	3	185	1	0	0	0	0	1	0	0	0	14133	854	30	4	1752	4	SETD2	3	47125288	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	8	47125288	150897142	8	10272	155	3									
SETD2	29072	ucsc.edu	37	chr3	47125289	47125289	+	Missense_Mutation	SNP	C	C	T																															tatctggctgttcttggctcCtttcactctccacatcagac																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	47125289	C	T	47125289	3	4	185	1	0	0	0	0	1	0	0	0	14133	681	24	2	1753	2	SETD2	3	47125289	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	1	47125289	150897141	9	10273	155	3									
MITF	4286	broad.mit.edu;hgsc.bcm.edu	37	chr3	69987112	69987112	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccatgtccaaaccagcctgGcgatcatgtcatgccaccgg	9	7	10	15	2	2	0	2	0	0	0	3	1	3	0	6	2	3	0	6	2	1	0	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	69987112	G	A	69987112	3	1	185	1	0	0	0	0	1	0	0	0	9596	1203	42	2	706	2	MITF	3	69987112	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	22861823	69987112	128035318	10	10274											
SERPINI1	5274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167540830	167540830	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtccttcctagaggttaatGaagaaggctcagaagctgct	12	10	11	8	0	1	4	1	1	0	3	3	4	3	4	2	2	2	4	2	2	5	3	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	167540830	G	A	167540830	3	1	185	1	0	0	0	0	1	0	0	0	14120	1291	45	2	1058	2	SERPINI1	3	167540830	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	97553718	167540830	30481600	11	10275											
MUC4	4585	broad.mit.edu	37	chr3	195505872	195505872	+	Silent	SNP	A	C	C																															gaggaagtgtcggtgacaggAagaggggtggtgtcacctgt																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	195505872	C	C	195505872	2	2	185	1	0	0	0	0	0	0	0	1	9978	233	9	5		5	MUC4	3	195505872	Silent	SNP	A	TCGA-B8-4620-01A-02D-1386-10	27965042	195505872	2516558	12	10276	156	2									
MUC4	4585	broad.mit.edu	37	chr3	195505874	195505874	+	Missense_Mutation	SNP	G	C	C																															ggaagtgtcggtgacaggaaGaggggtggtgtcacctgtgg																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	195505874	C	C	195505874	3	2	185	1	0	0	0	0	1	0	0	0	9978	942	33	4		4	MUC4	3	195505874	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	2	195505874	2516556	13	10277	156	2									
MUC4	4585	hgsc.bcm.edu	37	chr3	195510060	195510107	+	In_Frame_Del	DEL	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	-																															gtgacaggaagaggggtggtGtgacctgtggatgctgagga																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	195510107	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	-	195510060	7	5	185	1	0	1	0	1	0	0	0	0	9978	1368	48	0		0	MUC4	3	195510060	In_Frame_Del	DEL	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	TCGA-B8-4620-01A-02D-1386-10	4186	195510060	2512370	14	10278											
BDP1	55814	broad.mit.edu;ucsc.edu	37	chr5	70840940	70840940	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agttgcttcctctgagacagGgccctgcacacttggtttgg	6	12	12	11	0	1	1	0	1	1	1	2	2	2	1	2	3	2	4	2	3	0	4	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	70840940	T	T	70840940	3	4	185	1	0	0	0	0	1	0	0	0	1395	1232	43	4	6764	4	BDP1	5	70840940	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10		70840940	110074320	15	10279											
ETF1	2107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137846859	137846862	+	Frame_Shift_Del	DEL	GTGT	GTGT	-																															cgccaaaacagtacttgcccGtgtcctggctgatttcatca																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	GTGT	GTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	137846862	GTGT	-	137846859	7	5	185	1	0	1	0	1	0	0	0	0	5268	1145	40	0	436	0	ETF1	5	137846859	Frame_Shift_Del	DEL	GTGT	TCGA-B8-4620-01A-02D-1386-10	67005919	137846859	43068401	16	10280											
TRIM41	90933	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180651556	180651556	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttcacatgccctcagtGccgaaagagctttcctcggc	7	10	10	14	2	2	1	2	0	0	1	4	2	3	1	3	1	4	2	3	1	1	2	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	180651556	G	C	180651556	3	2	185	1	0	0	0	0	1	0	0	0	16515	1319	46	4	559	4	TRIM41	5	180651556	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	42804697	180651556	263704	17	10281											
DLK2	65989	broad.mit.edu;hgsc.bcm.edu	37	chr6	43418521	43418521	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggccaccaagctaggctcaCctagcccagcctcttgcctc	7	7	9	18	0	2	0	1	0	1	0	3	0	2	0	6	2	4	2	6	2	3	3	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	43418521	C	A	43418521	3	1	185	1	0	0	0	0	1	0	0	0	4565	507	18	4	247	4	DLK2	6	43418521	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		43418521	127696546	18	10282											
TDRD6	221400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46658611	46658611	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatagataatgcatggcaaAaaaatctagaattaaaatgt	20	12	6	3	0	1	2	0	0	1	2	1	2	1	2	0	1	1	2	0	1	10	5	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	46658611	A	C	46658611	3	2	185	1	0	0	0	0	1	0	0	0	15733	15	1	5	2748	5	TDRD6	6	46658611	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-02D-1386-10	3240090	46658611	124456456	19	10283											
HACE1	57531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	105298826	105298826	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcacacgtccgaatgcAtaattgacatcaaattttga	13	14	5	9	2	2	2	2	2	0	0	3	3	3	2	1	0	1	1	1	0	3	6	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	105298826	A	G	105298826	2	3	185	1	0	0	0	0	0	0	0	1	6940	224	8	3		3	HACE1	6	105298826	Silent	SNP	A	TCGA-B8-4620-01A-02D-1386-10	58640215	105298826	65816241	20	10284											
SGK1	6446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	134495196	134495196	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgaggttgggagatctTcaagatggactgaacttcag	10	11	12	8	0	3	4	2	2	1	2	4	6	4	5	1	3	1	1	1	3	2	3	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	134495196	T	C	134495196	3	2	185	1	0	0	0	0	1	0	0	0	14209	1792	62	3	1160	3	SGK1	6	134495196	Missense_Mutation	SNP	T	TCGA-B8-4620-01A-02D-1386-10	29196370	134495196	36619871	21	10285											
IYD	389434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150715251	150715251	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acagaaccaactggattaaaGagtacttggatactgcccct	14	9	8	10	0	0	2	0	0	0	2	0	4	0	4	3	2	5	1	3	2	6	4	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	150715251	G	C	150715251	3	2	185	1	0	0	0	0	1	0	0	0	7932	943	33	4	561	4	IYD	6	150715251	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	16220055	150715251	20399816	22	10286											
COBL	23242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	51096089	51096089	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggtggtgcagccagcaCtggcgccttgcctgcataac	8	7	13	13	1	0	0	0	0	0	0	0	1	0	0	3	3	6	3	3	3	1	2	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	51096089	C	G	51096089	3	3	185	1	0	0	0	0	1	0	0	0	3653	565	20	4	1097	4	COBL	7	51096089	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		51096089	108042574	23	10287											
FLNC	2318	broad.mit.edu;hgsc.bcm.edu	37	chr7	128484128	128484128	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtcagggccaactggaTgtgcggatgacttcgccctc	6	8	15	12	3	1	1	1	1	0	0	3	3	1	3	2	5	2	0	2	5	1	1	rs184454068	by1000genomes;alternate_allele	TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	128484128	T	G	128484128	3	3	185	1	0	0	0	0	1	0	0	0	5935	1461	51	5	3078	5	FLNC	7	128484128	Missense_Mutation	SNP	T	TCGA-B8-4620-01A-02D-1386-10	77388039	128484128	30654535	24	10288											
ASH2L	9070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	37974168	37974168	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aattggatgtatttttgcagGaccttagtaacattggtcct	10	16	9	6	0	0	0	0	0	0	0	1	2	1	2	2	3	2	3	2	3	4	7	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	37974168	G	T	37974168	3	4	185	1	0	0	0	0	1	0	0	0	1042	1188	41	4	808	4	ASH2L	8	37974168	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10		37974168	108389854	25	10289											
LYPLA1	10434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	54978369	54978369	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaaggcttctgcccatcCgtgcctggtggaaaaatcat	10	10	10	11	1	2	0	1	0	1	0	3	1	3	1	3	3	3	2	3	3	3	1	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	54978369	C	T	54978369	3	4	185	1	0	0	0	0	1	0	0	0	9116	661	23	1	614	1	LYPLA1	8	54978369	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	17004201	54978369	91385653	26	10290											
STAU2	27067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	74527933	74527933	+	Missense_Mutation	SNP	G	G	C																															aaaactgacaggcatatttcGcttcagagcaatttcaaaca																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	74527933	G	C	74527933	3	2	185	1	0	0	0	0	1	0	0	0	15274	1095	38	4	1213	4	STAU2	8	74527933	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	19549564	74527933	71836089	27	10291	157	2									
STAU2	27067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	74527934	74527934	+	Missense_Mutation	SNP	C	C	A																															aaactgacaggcatatttcgCttcagagcaatttcaaacac																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	74527934	C	A	74527934	3	1	185	1	0	0	0	0	1	0	0	0	15274	796	28	4	1214	4	STAU2	8	74527934	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	1	74527934	71836088	28	10292	157	2									
IFITM2	10581	broad.mit.edu;hgsc.bcm.edu	37	chr11	308415	308415	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctgctgcctgggcttcAtagcattcgcgtactccgtg	6	11	10	14	3	1	0	1	0	0	0	3	0	2	0	3	1	4	4	3	1	2	4	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	308415	A	C	308415	3	2	185	1	0	0	0	0	1	0	0	0	7527	217	8	5	225	5	IFITM2	11	308415	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-02D-1386-10		308415	134698101	29	10293											
APPL2	55198	broad.mit.edu;hgsc.bcm.edu	37	chr12	105582196	105582196	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccattgatcccaaaaaccGaactataaacatctgctgca	15	9	5	12	1	1	1	0	1	1	0	2	2	2	1	3	0	6	2	3	0	6	3	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	105582196	G	A	105582196	3	1	185	1	0	0	0	0	1	0	0	0	818	1057	37	1	525	1	APPL2	12	105582196	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10		105582196	28269699	30	10294											
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	23914058	23914058	+	Missense_Mutation	SNP	C	C	G																															tcctctattgaaccacagacCttaaatagttggtggaattt																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	23914058	C	G	23914058	3	3	185	1	0	0	0	0	1	0	0	0	13806	680	24	4	9786	4	SACS	13	23914058	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		23914058	91255820	31	10295	158	2									
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	23914059	23914059	+	Missense_Mutation	SNP	T	T	G																															cctctattgaaccacagaccTtaaatagttggtggaatttt																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	23914059	T	G	23914059	3	3	185	1	0	0	0	0	1	0	0	0	13806	1609	56	5	9787	5	SACS	13	23914059	Missense_Mutation	SNP	T	TCGA-B8-4620-01A-02D-1386-10	1	23914059	91255819	32	10296	158	2									
AKT1	207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105246482	105246482	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtccacatcctgcggccgctCcttgtagccaatgaaggtgc	7	9	11	14	2	0	1	0	1	0	0	3	1	3	1	5	2	3	2	5	2	3	2	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	105246482	C	T	105246482	3	4	185	1	0	0	0	0	1	0	0	0	478	864	30	2	1372	2	AKT1	14	105246482	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		105246482	2103058	33	10297											
B2M	567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45007701	45007701	+	Frame_Shift_Del	DEL	T	T	-																															tgaattgctatgtgtctgggTttcatccatccgacattgaa																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	45007701	T	-	45007701	7	5	185	1	0	1	0	1	0	0	0	0	1244	1725	60	0	154	0	B2M	15	45007701	Frame_Shift_Del	DEL	T	TCGA-B8-4620-01A-02D-1386-10		45007701	57523691	34	10298	159	2									
B2M	567	hgsc.bcm.edu	37	chr15	45007705	45007705	+	Missense_Mutation	SNP	A	A	C																															ttgctatgtgtctgggtttcAtccatccgacattgaagttg																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	45007705	A	C	45007705	3	2	185	1	0	0	0	0	1	0	0	0	1244	217	8	5	158	5	B2M	15	45007705	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-02D-1386-10	4	45007705	57523687	35	10299	159	2									
GOLGA6D	653643	broad.mit.edu	37	chr15	75586110	75586110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagaaggcggacgggaCggagcaggtggagagacgag	13	1	22	5	4	0	2	0	0	0	2	0	10	0	6	0	7	1	1	0	7	2	0	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	75586110	T	T	75586110	3	4	185	1	0	0	0	0	1	0	0	0	6560	536	19	1	1692	1	GOLGA6D	15	75586110	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10	30578405	75586110	26945282	36	10300											
CLCN7	1186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1510843	1510843	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgaccctgtacttgaggCcagccaggttttccaccacg	8	10	10	13	1	0	3	0	3	0	0	1	3	1	3	5	2	2	2	5	2	1	4	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	1510843	C	A	1510843	3	1	185	1	0	0	0	0	1	0	0	0	3468	739	26	4	2043	4	CLCN7	16	1510843	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		1510843	88843910	37	10301											
TNFAIP1	7126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26667402	26667402	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattacctccgagatgacacCatcaccctccctcagaaccg	12	7	5	17	2	2	3	2	1	0	2	4	4	4	3	6	0	2	0	6	0	3	1	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	26667402	C	T	26667402	2	4	185	1	0	0	0	0	0	0	0	1	16271	581	21	2		2	TNFAIP1	17	26667402	Silent	SNP	C	TCGA-B8-4620-01A-02D-1386-10		26667402	54527808	38	10302											
GGNBP2	79893	broad.mit.edu	37	chr17	34901611	34901611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgcagggacggggaggAggagttccccttcgagagga	9	6	19	7	2	0	1	0	0	0	1	2	7	1	6	2	6	1	2	2	6	0	2	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	34901611	G	G	34901611	3	3	185	1	0	0	0	0	1	0	0	0	6359	304	11	3	40	3	GGNBP2	17	34901611	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-02D-1386-10	8234209	34901611	46293599	39	10303											
LRRC37A3	374819	broad.mit.edu	37	chr17	62892204	62892204	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggtgaaactgtgactTcatgatgttctggaggctga	9	12	14	6	0	2	4	1	4	1	0	2	6	2	6	0	4	1	2	0	4	1	2	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	62892204	A	A	62892204	3	1	185	1	0	0	0	0	1	0	0	0	8993	1783	62	5	3780	5	LRRC37A3	17	62892204	Missense_Mutation	SNP	T	TCGA-B8-4620-01A-02D-1386-10	27990593	62892204	18303006	40	10304											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9070657	9070657	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgggaatccctgagacaCggttgaatgagtccctccct	8	10	12	11	1	0	3	0	3	0	1	3	5	3	4	3	2	0	1	3	2	2	1	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		T	9070657	C	T	9070657	3	4	185	1	0	0	0	0	1	0	0	0	9973	536	19	1	27062	1	MUC16	19	9070657	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		9070657	50058326	41	10305											
LILRB5	10990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54756788	54756788	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaggaagaggaggaGgaacagcagcaggacgaagg	16	0	21	4	1	0	1	0	0	0	1	0	10	0	8	0	8	3	2	0	8	3	0	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	54756788	G	A	54756788	3	1	185	1	0	0	0	0	1	0	0	0	8794	1000	35	2	375	2	LILRB5	19	54756788	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	45686131	54756788	4372195	42	10306											
KIR3DL1	3811	hgsc.bcm.edu;ucsc.edu	37	chr19	55341674	55341674	+	Frame_Shift_Del	DEL	T	T	-																															caccccctacagataccatcTtgtacacggaacttccaaat																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		-	55341674	T	-	55341674	7	5	185	1	0	1	0	1	0	0	0	0	8320	1606	56	0	1313	0	KIR3DL1	19	55341674	Frame_Shift_Del	DEL	T	TCGA-B8-4620-01A-02D-1386-10	584886	55341674	3787309	43	10307											
LAMA5	3911	broad.mit.edu;hgsc.bcm.edu	37	chr20	60888399	60888399	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcaccgggcacaaggcctgtCcacagccgtgtccagctgga	8	5	13	15	2	0	0	0	0	0	0	2	1	2	1	5	3	2	3	5	3	1	0	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	60888399	C	G	60888399	3	3	185	1	0	0	0	0	1	0	0	0	8609	855	30	4	2379	4	LAMA5	20	60888399	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		60888399	2137121	44	10308											
C22orf36	0	hgsc.bcm.edu;ucsc.edu	37	chr22	24984203	24984204	+	In_Frame_Ins	INS	-	-	GCA																															gctctgggtcttcctctggcINSgcaggctggacccttgctgc																								novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		GCA	24984204	-	GCA	24984203	7	5	185	1	0	1	1	0	0	0	0	0	2146	768	27	0	554	0	C22orf36	22	24984203	In_Frame_Ins	INS	-	TCGA-B8-4620-01A-02D-1386-10		24984203	26320363	45	10309											
FANCB	2187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	14882777	14882777	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaatccataagttgaactgCacaaggatctccaaatggaa	16	9	8	8	0	1	2	0	2	1	0	3	4	2	4	2	2	2	2	2	2	6	2	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	14882777	C	A	14882777	3	1	185	1	0	0	0	0	1	0	0	0	5663	710	25	4	1755	4	FANCB	23	14882777	Missense_Mutation	SNP	C	TCGA-B8-4620-01A-02D-1386-10		14882777	140387783	46	10310											
TAB3	257397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	30849594	30849594	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcgatttagtgctgggtGgttaagaaaggtgcagctat	11	11	14	5	1	0	1	0	0	0	1	0	2	0	1	0	3	4	4	0	3	4	4	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	30849594	G	A	30849594	3	1	185	1	0	0	0	0	1	0	0	0	15496	1348	47	2	53	2	TAB3	23	30849594	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	15966817	30849594	124420966	47	10311											
NHSL2	340527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	71360504	71360504	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggctgcctctcagccccAtcatcaccctggaggaagac	10	6	9	16	0	3	1	3	0	1	1	4	3	3	3	4	3	2	1	4	3	2	0	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		G	71360504	A	G	71360504	3	3	185	1	0	0	0	0	1	0	0	0	10412	217	8	3	3128	3	NHSL2	23	71360504	Missense_Mutation	SNP	A	TCGA-B8-4620-01A-02D-1386-10	40510910	71360504	83910056	48	10312											
NAP1L3	4675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	92927545	92927545	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttacctgggggacttcTttaggatcttcttttacttc	5	18	8	10	0	3	0	0	0	3	0	4	2	3	2	2	3	2	0	2	3	3	9	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		C	92927545	T	C	92927545	2	2	185	1	0	0	0	0	0	0	0	1	10158	1606	56	3		3	NAP1L3	23	92927545	Silent	SNP	T	TCGA-B8-4620-01A-02D-1386-10	21567041	92927545	62343015	49	10313											
GPR112	139378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135441581	135441581	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatcaattgacgttattaGtaaactgtgaacacgttgca	15	12	8	6	2	1	3	1	2	0	1	1	3	1	3	0	0	3	4	0	0	7	5	novel		TCGA-B8-4620-01A-02D-1386-10	TCGA-B8-4620-10A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f50f3b5-e656-48ec-ba8e-b6af62465fa0	ddcc7f39-2b43-4f58-8286-b87f48a97fd7		A	135441581	G	A	135441581	3	1	185	1	0	0	0	0	1	0	0	0	6629	1029	36	2	7141	2	GPR112	23	135441581	Missense_Mutation	SNP	G	TCGA-B8-4620-01A-02D-1386-10	42514036	135441581	19828979	50	10314											
MTOR	2475	broad.mit.edu;ucsc.edu	37	chr1	11168294	11168294	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgcttgtttgatgagcagCtcaacttgcgttggaacatc	8	13	11	9	2	1	2	1	2	0	0	3	3	1	3	0	1	5	5	0	1	2	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	11168294	T	T	11168294	2	4	186	1	0	0	0	0	0	0	0	1	9954	796	28	2		2	MTOR	1	11168294	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10		11168294	238082327	1	10315											
CLCNKB	1188	hgsc.bcm.edu;ucsc.edu	37	chr1	16377066	16377067	+	Frame_Shift_Ins	INS	-	-	A																															cgcctccatcacctacccacINSccagcgccggccgcttccta																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	16377067	-	A	16377066	7	5	186	1	0	1	1	0	0	0	0	0	3470	507	18	0	1210	0	CLCNKB	1	16377066	Frame_Shift_Ins	INS	-	TCGA-B8-4621-01A-01D-1501-10	5208772	16377066	232873555	2	10316											
ATP13A2	23400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17322948	17322948	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgaagttgatgggccggggGtgcaagatggagctcaccag	9	8	17	7	1	1	3	1	2	0	1	1	4	1	4	2	4	2	3	2	4	2	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	17322948	G	T	17322948	3	4	186	1	0	0	0	0	1	0	0	0	1124	1252	44	4	2607	4	ATP13A2	1	17322948	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	945882	17322948	231927673	3	10317											
TRIM63	84676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26385106	26385106	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttcctttacctggtgActgttctcctgaggacggaa	7	13	10	11	1	2	2	0	2	2	0	4	4	3	4	3	3	2	2	3	3	2	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	26385106	A	C	26385106	3	2	186	1	0	0	0	0	1	0	0	0	16537	272	10	5	475	5	TRIM63	1	26385106	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	9062158	26385106	222865515	4	10318											
PCSK9	255738	broad.mit.edu;hgsc.bcm.edu	37	chr1	55527082	55527082	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggtggaggaccttggCacccacaagccgcctgtgct	7	7	15	12	1	0	0	0	0	0	0	0	3	0	3	4	5	2	2	4	5	1	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	55527082	C	T	55527082	2	4	186	1	0	0	0	0	0	0	0	1	11606	697	25	2		2	PCSK9	1	55527082	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10	29141976	55527082	193723539	5	10319											
ATP2B4	493	hgsc.bcm.edu;ucsc.edu	37	chr1	203652386	203652387	+	Frame_Shift_Del	DEL	GT	GT	-																															caactcgatggccgagagccGtgaaggggactttggctgca																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	203652387	GT	-	203652386	7	5	186	1	0	1	0	1	0	0	0	0	1142	1145	40	0	55	0	ATP2B4	1	203652386	Frame_Shift_Del	DEL	GT	TCGA-B8-4621-01A-01D-1501-10	148125304	203652386	45598235	6	10320											
XDH	7498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	31571778	31571778	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caattacctgattcagaaaaGgaactgtaaagcttattcca	16	11	6	8	0	1	2	1	1	0	1	2	3	2	3	2	1	3	2	2	1	8	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	31571778	G	T	31571778	3	4	186	1	0	0	0	0	1	0	0	0	17425	1000	35	4	1003	4	XDH	2	31571778	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10		31571778	211627595	7	10321											
GEMIN6	79833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39008932	39008932	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtggctggggtcctgacTatagacccaccatatggtcc	7	11	12	11	0	0	2	0	1	0	1	2	2	2	2	4	4	0	1	4	4	3	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	39008932	T	G	39008932	2	3	186	1	0	0	0	0	0	0	0	1	6332	1509	53	5		5	GEMIN6	2	39008932	Silent	SNP	T	TCGA-B8-4621-01A-01D-1501-10	7437154	39008932	204190441	8	10322											
SOS1	6654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39285889	39285889	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcttttcaatagctgattgGgcatcagctattgcccattt	8	16	7	10	0	3	1	2	1	1	0	3	1	3	1	1	1	3	3	1	1	3	7	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	39285889	G	T	39285889	2	4	186	1	0	0	0	0	0	0	0	1	14938	1219	43	4		4	SOS1	2	39285889	Silent	SNP	G	TCGA-B8-4621-01A-01D-1501-10	276957	39285889	203913484	9	10323											
VRK2	7444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	58350342	58350342	+	Frame_Shift_Del	DEL	C	C	-																															taatgggacaatagagtttaCcagcttggatgcccacaagg																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	58350342	C	-	58350342	7	5	186	1	0	1	0	1	0	0	0	0	17219	507	18	0	676	0	VRK2	2	58350342	Frame_Shift_Del	DEL	C	TCGA-B8-4621-01A-01D-1501-10	19064453	58350342	184849031	10	10324											
VRK2	7444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	58358987	58358987	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatcctcggctactgcatgCtgcggtggttgtgtgggaaa	7	11	15	8	2	0	1	0	0	0	1	2	2	1	2	1	4	4	4	1	4	2	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	58358987	C	T	58358987	2	4	186	1	0	0	0	0	0	0	0	1	17219	796	28	2		2	VRK2	2	58358987	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10	8645	58358987	184840386	11	10325											
THSD7B	80731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	138033500	138033500	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggtaatcacaggtggaagCcacagaaatggagcccttgc	12	8	12	9	0	1	1	1	0	0	1	1	3	1	3	2	4	3	1	2	4	3	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	138033500	C	A	138033500	3	1	186	1	0	0	0	0	1	0	0	0	15879	739	26	4	2353	4	THSD7B	2	138033500	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	79674513	138033500	105165873	12	10326											
HTR2B	3357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	231973291	231973291	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcagtgaggagaagcgtAtctagtagaatgattgatga	13	13	12	3	1	2	6	1	4	1	2	2	7	2	6	0	1	1	2	0	1	5	6	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	231973291	A	G	231973291	2	3	186	1	0	0	0	0	0	0	0	1	7442	446	16	3		3	HTR2B	2	231973291	Silent	SNP	A	TCGA-B8-4621-01A-01D-1501-10	93939791	231973291	11226082	13	10327											
SLC25A36	55186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	140675511	140675511	+	Frame_Shift_Del	DEL	C	C	-																															gtgtcaaccgagtagtgtctCccggacctcttcattgccta																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	140675511	C	-	140675511	7	5	186	1	0	1	0	1	0	0	0	0	14502	855	30	0	190	0	SLC25A36	3	140675511	Frame_Shift_Del	DEL	C	TCGA-B8-4621-01A-01D-1501-10		140675511	57346919	14	10328											
ST6GAL1	6480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186761061	186761061	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgttgtgtcgtcagcGggatctctgaagtcctccca	5	13	12	11	2	2	1	1	1	1	0	6	2	4	2	2	1	2	2	2	1	1	1	rs141692826		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	186761061	G	A	186761061	2	1	186	1	0	0	0	0	0	0	0	1	15222	1103	39	1		1	ST6GAL1	3	186761061	Silent	SNP	G	TCGA-B8-4621-01A-01D-1501-10	46085550	186761061	11261369	15	10329											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508442	195508537	+	In_Frame_Del	DEL	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	-																															ggtggtgtcacctgtggatgCtgaggaagggctggtgacat																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	195508537	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	-	195508442	7	5	186	1	0	1	0	1	0	0	0	0	9978	797	28	0		0	MUC4	3	195508442	In_Frame_Del	DEL	CTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGCGTGACCTGTGGATGCTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	TCGA-B8-4621-01A-01D-1501-10	8747381	195508442	2513988	16	10330											
ZNF595	152687	broad.mit.edu;hgsc.bcm.edu	37	chr4	86237	86237	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaaaattcatactggagaGaaaccctacaaatgtaaaga	21	7	7	6	0	1	3	1	0	0	3	1	5	1	4	1	1	3	1	1	1	9	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	86237	G	A	86237	3	1	186	1	0	0	0	0	1	0	0	0	18024	942	33	2	856	2	ZNF595	4	86237	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10		86237	191068039	17	10331											
HSD17B11	51170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	88293948	88293948	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttattcttcgtcattgcaGgaagaaatgcctttgtagtc	9	15	10	7	1	2	1	1	0	1	1	4	2	2	2	1	2	2	3	1	2	4	6	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	88293948	G	A	88293948	3	1	186	1	0	0	0	0	1	0	0	0	7380	1000	35	2	448	2	HSD17B11	4	88293948	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	88207711	88293948	102860328	18	10332											
FAT1	2195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	187549904	187549904	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggtcatttgtgtctattActttgatgaatacctgtaat	10	18	8	5	0	2	2	1	2	1	0	2	3	2	2	1	1	2	1	1	1	5	6	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	187549904	A	T	187549904	3	4	186	1	0	0	0	0	1	0	0	0	5689	391	14	5	9509	5	FAT1	4	187549904	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	99255956	187549904	3604372	19	10333											
ERBB2IP	55914	broad.mit.edu;ucsc.edu	37	chr5	65288621	65288621	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggaagaggagactgtcacTactcttgattattctcattg	10	13	11	7	0	3	3	2	1	2	2	4	5	3	4	0	3	1	0	0	3	3	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	65288621	C	C	65288621	2	2	186	1	0	0	0	0	0	0	0	1	5207	1509	53	3		3	ERBB2IP	5	65288621	Silent	SNP	T	TCGA-B8-4621-01A-01D-1501-10		65288621	115626639	20	10334											
ZNF608	57507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	123982880	123982880	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgtctttgtgtgatcAccgactggtgctgaggctgt	6	13	14	8	1	2	2	1	2	1	0	2	4	2	3	1	3	1	2	1	3	0	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	123982880	A	G	123982880	3	3	186	1	0	0	0	0	1	0	0	0	18033	159	6	3	1365	3	ZNF608	5	123982880	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	58694259	123982880	56932380	21	10335											
PCDHB8	56128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140559876	140559876	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaactatcagtacgaggTgtgcctggcaggaggctcag	10	8	14	9	1	3	1	3	0	0	1	3	3	3	2	1	4	3	3	1	4	3	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	140559876	T	C	140559876	3	2	186	1	0	0	0	0	1	0	0	0	11548	1696	59	3	2263	3	PCDHB8	5	140559876	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	16576996	140559876	40355384	22	10336											
CDX1	1044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149562381	149562381	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtctacaccgaccaccaaCgcctggagctggagaaggag	11	5	13	12	2	1	1	0	0	1	1	1	5	1	3	4	4	3	1	4	4	3	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	149562381	C	A	149562381	3	1	186	1	0	0	0	0	1	0	0	0	3182	536	19	4	502	4	CDX1	5	149562381	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	9002505	149562381	31352879	23	10337											
ZNF184	7738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27420285	27420285	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgtatgaattttctgatgTtccataaagtggcctctctg	8	15	8	10	1	2	2	0	2	2	0	4	2	3	2	3	1	0	2	3	1	4	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	27420285	T	A	27420285	3	1	186	1	0	0	0	0	1	0	0	0	17750	1722	60	5	1206	5	ZNF184	6	27420285	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10		27420285	143694782	24	10338											
KCNK5	8645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	39162421	39162421	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctagtctcttggcacgtccCccgaagaacttgcccagggc	7	8	10	16	2	1	1	0	0	1	1	3	2	2	1	4	2	2	1	4	2	3	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	39162421	C	G	39162421	2	3	186	1	0	0	0	0	0	0	0	1	8069	610	22	4		4	KCNK5	6	39162421	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10	11742136	39162421	131952646	25	10339											
TFEB	7942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41658461	41658461	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctattgggagcactgttGccagcggaggaggacagcac	9	6	17	9	1	0	0	0	0	0	0	0	4	0	4	1	5	4	4	1	5	1	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	41658461	G	A	41658461	2	1	186	1	0	0	0	0	0	0	0	1	15800	1306	46	2		2	TFEB	6	41658461	Silent	SNP	G	TCGA-B8-4621-01A-01D-1501-10	2496040	41658461	129456606	26	10340											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51917916	51917916	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataatttcatccacatagaAcaggcccgtctcctgggcca	12	9	7	13	1	2	1	1	0	1	1	4	1	3	1	4	2	1	0	4	2	4	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	51917916	A	G	51917916	3	3	186	1	0	0	0	0	1	0	0	0	11971	43	2	3	10353	3	PKHD1	6	51917916	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	10259455	51917916	119197151	27	10341											
NKAIN2	154215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	124979381	124979381	+	Frame_Shift_Del	DEL	G	G	-																															atcaatgcaccgatcttggtGgatggagaatggaccaggat																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	124979381	G	-	124979381	7	5	186	1	0	1	0	1	0	0	0	0	10436	1357	47	0	337	0	NKAIN2	6	124979381	Frame_Shift_Del	DEL	G	TCGA-B8-4621-01A-01D-1501-10	73061465	124979381	46135686	28	10342											
PTPN12	5782	broad.mit.edu	37	chr7	77166962	77166962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacttcgcccgggacttcatGgtgagtctctcccctcgctg	5	11	10	15	3	2	1	1	1	1	0	6	2	3	2	3	2	1	1	3	2	1	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	77166962	A	A	77166962	3	1	186	1	0	0	0	0	1	0	0	0	12783	1362	47	2	101	2	PTPN12	7	77166962	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10		77166962	81971701	29	10343											
ADAM22	53616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	87795203	87795203	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggataggttctgattgCaacacttacttccctcacaa	11	12	6	12	0	2	1	1	1	1	0	3	2	3	2	1	2	3	2	1	2	4	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	87795203	C	A	87795203	4	1	186	1	0	0	0	0	0	1	0	0	244	718	25	4	2227	4	ADAM22	7	87795203	Nonsense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	10628241	87795203	71343460	30	10344											
MTERF	7978	broad.mit.edu	37	chr7	91503926	91503926	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgtctgtattatgacacTtcacaccaaaaagcctaaat	15	11	4	11	0	2	1	1	1	1	0	2	1	2	1	2	0	1	1	2	0	6	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	91503926	G	G	91503926	3	3	186	1	0	0	0	0	1	0	0	0	9918	1609	56	5	1021	5	MTERF	7	91503926	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	3708723	91503926	67634737	31	10345											
MCM7	4176	broad.mit.edu;ucsc.edu	37	chr7	99693479	99693479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcagcaggtagctgtaTgttctgctccaggctgcggc	6	10	14	11	1	1	0	0	0	1	0	2	0	2	0	1	3	5	8	1	3	2	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	99693479	C	C	99693479	3	2	186	1	0	0	0	0	1	0	0	0	9392	1464	51	3	666	3	MCM7	7	99693479	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	8189553	99693479	59445184	32	10346											
PNPLA8	50640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	108143077	108143077	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcgtaataaatatggaaTaattctttcctatattgaga	15	15	6	5	1	1	1	0	1	1	1	3	3	2	2	1	1	0	1	1	1	8	9	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	108143077	T	A	108143077	3	1	186	1	0	0	0	0	1	0	0	0	12171	1406	49	5	1160	5	PNPLA8	7	108143077	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	8449598	108143077	50995586	33	10347											
PRSS1	5644	broad.mit.edu;hgsc.bcm.edu	37	chr7	142458497	142458497	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgtccctgaattctggCtaccacttctgtggtggctc	5	13	11	12	0	2	1	0	1	2	0	4	1	3	1	2	4	1	2	2	4	2	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	142458497	C	A	142458497	2	1	186	1	0	0	0	0	0	0	0	1	12616	784	28	4		4	PRSS1	7	142458497	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10	34315420	142458497	16680166	34	10348											
C9orf93	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	15729739	15729739	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agctgctggcacagacaaaaGaaggaactagagctgcagta	16	5	12	8	0	0	3	0	0	0	3	0	4	0	4	0	2	5	6	0	2	6	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	15729739	G	C	15729739	3	2	186	1	0	0	0	0	1	0	0	0	2506	933	33	4	2050	4	C9orf93	9	15729739	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10		15729739	125483692	35	10349											
TAF1L	138474	broad.mit.edu;hgsc.bcm.edu	37	chr9	32633474	32633474	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtccattttcctcactatAttctgcaagaataagatctc	11	14	6	10	0	3	2	1	0	2	2	6	2	5	2	2	1	1	1	2	1	5	6	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	32633474	A	T	32633474	3	4	186	1	0	0	0	0	1	0	0	0	15522	449	16	5	3380	5	TAF1L	9	32633474	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	16903735	32633474	108579957	36	10350											
HNRNPK	3190	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86592692	86592692	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcttccatatcttctgcaGggcgtttacctaaaaattaa	11	14	5	11	1	3	0	0	0	3	0	4	0	4	0	3	1	2	2	3	1	6	7	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	86592692	G	T	86592692	3	4	186	1	0	0	0	0	1	0	0	0	7269	1000	35	4	1417	4	HNRNPK	9	86592692	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	53959218	86592692	54620739	37	10351											
PTPDC1	138639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	96863956	96863956	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagcaactgaaggagcctGtaatcaccaaagaggatgtg	14	7	13	7	0	1	2	1	1	0	1	1	5	1	5	2	3	3	2	2	3	4	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	96863956	G	A	96863956	3	1	186	1	0	0	0	0	1	0	0	0	12775	1377	48	2	2228	2	PTPDC1	9	96863956	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	10271264	96863956	44349475	38	10352											
GOLGA2	2801	hgsc.bcm.edu	37	chr9	131020812	131020812	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcctcctcctcctcctcCtcctcatcctcctcctcctc	2	12	1	26	1	1	0	1	0	0	0	12	0	11	0	12	0	0	0	12	0	0	0	rs143073995	byfrequency	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	131020812	C	A	131020812	3	1	186	1	0	0	0	0	1	0	0	0	6552	680	24	4	902	4	GOLGA2	9	131020812	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	34156856	131020812	10192619	39	10353											
ASS1	445	broad.mit.edu;hgsc.bcm.edu	37	chr9	133333871	133333871	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcactgtatgaggaccgCtacctcctgggcacctctct	7	9	10	15	2	1	1	0	1	1	0	3	2	2	2	4	2	2	4	4	2	2	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	133333871	C	A	133333871	2	1	186	1	0	0	0	0	0	0	0	1	1061	784	28	4		4	ASS1	9	133333871	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10	2313059	133333871	7879560	40	10354											
KCNT1	57582	broad.mit.edu;hgsc.bcm.edu	37	chr9	138662896	138662896	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcggggcaggggctgcacGagggtccggcccgcctgccc	3	5	17	16	4	1	0	0	0	1	0	3	1	2	0	4	6	2	3	4	6	0	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	138662896	G	A	138662896	3	1	186	1	0	0	0	0	1	0	0	0	8091	1059	37	1	2033	1	KCNT1	9	138662896	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	5329025	138662896	2550535	41	10355											
FAM166A	401565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140139762	140139762	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgcatcccctggctgcctgGtgctgcctgggggcctcgca	2	9	15	15	1	0	0	0	0	0	0	2	0	1	0	5	4	4	4	5	4	0	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	140139762	G	T	140139762	3	4	186	1	0	0	0	0	1	0	0	0	5481	1252	44	4	454	4	FAM166A	9	140139762	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	1476866	140139762	1073669	42	10356											
ADARB2	105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	1229304	1229304	+	Frame_Shift_Del	DEL	G	G	-																															ccagggctgggtgtccgtgtGctcagctgcggacaagaagg																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	1229304	G	-	1229304	7	5	186	1	0	1	0	1	0	0	0	0	283	1310	46	0	174	0	ADARB2	10	1229304	Frame_Shift_Del	DEL	G	TCGA-B8-4621-01A-01D-1501-10		1229304	134305443	43	10357											
PTEN	5728	hgsc.bcm.edu	37	chr10	89720799	89720802	+	Frame_Shift_Del	DEL	TACT	TACT	-																															taatgacaaggaatatctagTacttactttaacaaaaaatg																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	TACT	TACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	89720802	TACT	-	89720799	7	5	186	1	0	1	0	1	0	0	0	0	12740	1638	57	0	980	0	PTEN	10	89720799	Frame_Shift_Del	DEL	TACT	TCGA-B8-4621-01A-01D-1501-10	88491495	89720799	45813948	44	10358											
PPRC1	23082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103898406	103898406	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggaggaccagaatgaaGtgtcgctgctcacggctctg	8	9	13	11	2	3	2	1	1	2	1	4	4	3	4	1	3	1	3	1	3	2	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	103898406	G	A	103898406	3	1	186	1	0	0	0	0	1	0	0	0	12412	1029	36	2	383	2	PPRC1	10	103898406	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	14177607	103898406	31636341	45	10359											
PITX3	5309	hgsc.bcm.edu	37	chr10	103991455	103991456	+	Frame_Shift_Ins	INS	-	-	G																															agctcctgtagctgctggctINSggtgaagtgcgtgcgctgcc																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	103991456	-	G	103991455	7	5	186	1	0	1	1	0	0	0	0	0	11956	1580	55	0	705	0	PITX3	10	103991455	Frame_Shift_Ins	INS	-	TCGA-B8-4621-01A-01D-1501-10	93049	103991455	31543292	46	10360											
ZNF195	7748	broad.mit.edu;ucsc.edu	37	chr11	3380467	3380467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatgtacaataaggtttgAggactgggtaaagttttttc	11	16	10	4	0	0	1	0	1	0	0	1	2	0	2	0	3	1	4	0	3	6	8	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	3380467	G	G	3380467	3	3	186	1	0	0	0	0	1	0	0	0	17757	304	11	3	122	3	ZNF195	11	3380467	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10		3380467	131626049	47	10361											
CAT	847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	34482847	34482847	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgccatcgcctgggacccaAttatcttcatatacctgtga	9	11	7	14	2	2	1	1	1	1	0	3	2	2	2	5	1	1	0	5	1	4	4	rs148712764	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	34482847	A	G	34482847	3	3	186	1	0	0	0	0	1	0	0	0	2686	101	4	3	1140	3	CAT	11	34482847	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	31102380	34482847	100523669	48	10362											
MAPK8IP1	9479	hgsc.bcm.edu;ucsc.edu	37	chr11	45925694	45925694	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	acgccatcgaggtcaccaagGagcccgagcacatggcaggt	11	4	13	13	3	1	0	1	0	0	0	2	3	1	1	3	4	2	2	3	4	1	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	45925694	G	C	45925694	3	2	186	1	0	0	0	0	1	0	0	0	9284	1175	41	4	1674	4	MAPK8IP1	11	45925694	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	11442847	45925694	89080822	49	10363											
CLCF1	23529	hgsc.bcm.edu;ucsc.edu	37	chr11	67135087	67135089	+	In_Frame_Del	DEL	CCA	CCA	-																															cacaggcacgctaacatcccCcacgagtcccctgtgggcag																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	CCA	CCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	67135089	CCA	-	67135087	7	5	186	1	0	1	0	1	0	0	0	0	3461	624	22	0	658	0	CLCF1	11	67135087	In_Frame_Del	DEL	CCA	TCGA-B8-4621-01A-01D-1501-10	21209393	67135087	67871429	50	10364											
PRDM10	56980	broad.mit.edu;hgsc.bcm.edu	37	chr11	129805103	129805103	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggccaattcttctcttgCtctcgaagaactacagtcac	10	11	7	13	1	4	1	1	0	3	1	6	2	4	1	1	1	3	1	1	1	4	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	129805103	C	G	129805103	3	3	186	1	0	0	0	0	1	0	0	0	12453	796	28	4	2488	4	PRDM10	11	129805103	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	62670016	129805103	5201413	51	10365											
ADAMTS8	11095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130286146	130286146	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggacgaacagcggtgcCatcacgtggtgcttgcccat	8	8	14	11	3	1	0	1	0	0	0	1	2	1	1	2	4	5	1	2	4	1	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	130286146	C	T	130286146	3	4	186	1	0	0	0	0	1	0	0	0	272	594	21	2	1517	2	ADAMTS8	11	130286146	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	481043	130286146	4720370	52	10366											
RAD52	5893	hgsc.bcm.edu;ucsc.edu	37	chr12	1042154	1042154	+	Frame_Shift_Del	DEL	A	A	-																															cagttacctgtccaaagcatAacactgagccgccgccagca																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	1042154	A	-	1042154	7	5	186	1	0	1	0	1	0	0	0	0	12993	372	13	0	1229	0	RAD52	12	1042154	Frame_Shift_Del	DEL	A	TCGA-B8-4621-01A-01D-1501-10		1042154	132809741	53	10367											
MANSC1	54682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	12483330	12483330	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctttcgagtccgtaggTgcctgaaaggtggtagtcag	7	11	14	9	2	1	1	1	1	0	0	3	2	2	1	3	3	2	2	3	3	3	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	12483330	T	A	12483330	2	1	186	1	0	0	0	0	0	0	0	1	9224	1683	59	5		5	MANSC1	12	12483330	Silent	SNP	T	TCGA-B8-4621-01A-01D-1501-10	11441176	12483330	121368565	54	10368											
SLCO1B3	28234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21028191	21028191	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actatcagaataactcctaaGgactctcgttgggttggagc	11	11	10	9	1	2	1	1	0	1	1	4	3	3	3	1	3	2	2	1	3	4	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	21028191	G	C	21028191	3	2	186	1	0	0	0	0	1	0	0	0	14726	991	35	4	776	4	SLCO1B3	12	21028191	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	8544861	21028191	112823704	55	10369											
HSP90B1	7184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104341410	104341410	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttttttttatttatttacaGgaatctacagctgaaaaaga	14	17	6	4	0	1	2	0	1	1	1	1	3	1	3	0	1	3	2	0	1	7	9	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	104341410	G	A	104341410	5	1	186	1	0	0	0	0	0	0	1	0	7403	1014	35	2	2452	2	HSP90B1	12	104341410	Splice_Site	SNP	G	TCGA-B8-4621-01A-01D-1501-10	83313219	104341410	29510485	56	10370											
USP12	219333	broad.mit.edu;hgsc.bcm.edu	37	chr13	27680064	27680064	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttgaagaactgaattgcaGtagcaggtattcccaaactg	13	10	10	8	0	0	3	0	2	0	1	1	3	1	3	1	1	4	5	1	1	6	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	27680064	G	T	27680064	4	4	186	1	0	0	0	0	0	1	0	0	17042	1024	36	4	993	4	USP12	13	27680064	Nonsense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10		27680064	87489814	57	10371											
LECT1	11061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	53313233	53313233	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcagcagcacagctcccGaaatgaggaccacggctccc	12	3	11	15	2	0	2	0	1	0	1	2	4	2	3	3	2	4	5	3	2	1	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	53313233	G	A	53313233	3	1	186	1	0	0	0	0	1	0	0	0	8712	1059	37	1	882	1	LECT1	13	53313233	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	25633169	53313233	61856645	58	10372											
SCEL	8796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	78130015	78130015	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttactggaaggcagcatgtCcaatgttaccttgagaaaaa	14	10	9	8	0	0	1	0	1	0	1	1	3	1	2	2	2	3	3	2	2	6	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	78130015	C	G	78130015	3	3	186	1	0	0	0	0	1	0	0	0	13890	855	30	4	7	4	SCEL	13	78130015	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	24816782	78130015	37039863	59	10373											
SLITRK1	114798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	84454858	84454858	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatccactcggtttttcaaaGgacacaagtcctgttcggtg	10	12	9	10	2	1	0	1	0	0	0	5	1	3	1	2	3	0	2	2	3	3	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	84454858	G	A	84454858	3	1	186	1	0	0	0	0	1	0	0	0	14744	1000	35	2	1309	2	SLITRK1	13	84454858	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	6324843	84454858	30715020	60	10374											
TINF2	26277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24709106	24709106	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgggtatcaaggtgtcaAactttgtcttctgatagttt	9	16	11	5	0	4	1	2	1	2	0	4	2	4	1	0	2	1	2	0	2	4	5	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	24709106	A	T	24709106	3	4	186	1	0	0	0	0	1	0	0	0	15922	14	1	5	106	5	TINF2	14	24709106	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10		24709106	82640434	61	10375											
C14orf106	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45687640	45687640	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaaccaggtttgtgctttGgaagagatgcaaaagcacta	15	9	11	6	0	0	2	0	0	0	2	0	4	0	3	1	2	4	4	1	2	5	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	45687640	G	A	45687640	3	1	186	1	0	0	0	0	1	0	0	0	1738	1348	47	2	735	2	C14orf106	14	45687640	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	20978534	45687640	61661900	62	10376											
PNMA1	9240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74180283	74180283	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgccccagactaacagAgctctctgggagttcacatc	10	8	11	12	0	2	2	1	0	1	2	4	4	2	4	2	2	3	2	2	2	1	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	74180283	A	G	74180283	2	3	186	1	0	0	0	0	0	0	0	1	12153	291	11	3		3	PNMA1	14	74180283	Silent	SNP	A	TCGA-B8-4621-01A-01D-1501-10	28492643	74180283	33169257	63	10377											
PACS2	23241	broad.mit.edu;ucsc.edu	37	chr14	105843135	105843135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggagcaggaccctgcggagCacatccccgaggcagaggag	10	2	16	13	3	0	1	0	0	0	1	1	6	1	5	3	5	3	3	3	5	0	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	105843135	T	T	105843135	3	4	186	1	0	0	0	0	1	0	0	0	11373	710	25	2	866	2	PACS2	14	105843135	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	31662852	105843135	1506405	64	10378											
UBR1	197131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43307885	43307885	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttggtttgctttattttaCctctcttcctccataatgga	6	21	5	9	0	1	0	0	0	1	0	4	1	3	1	3	2	2	2	3	2	3	9	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	43307885	C	A	43307885	5	1	186	1	0	0	0	0	0	0	1	0	16900	521	18	4	2115	4	UBR1	15	43307885	Splice_Site	SNP	C	TCGA-B8-4621-01A-01D-1501-10		43307885	59223507	65	10379											
PAQR5	54852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	69672243	69672243	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccatgagcaaggcatcCtgttcggctaccgccatcca	8	10	9	14	2	0	1	0	1	0	0	4	1	3	1	5	2	2	5	5	2	2	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	69672243	C	G	69672243	3	3	186	1	0	0	0	0	1	0	0	0	11438	680	24	4	79	4	PAQR5	15	69672243	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	26364358	69672243	32859149	66	10380											
THSD4	79875	hgsc.bcm.edu;ucsc.edu	37	chr15	71952920	71952920	+	Frame_Shift_Del	DEL	G	G	-																															acaaagtcgtggacaaatgtGgggtgtgtggaggagacaac																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	71952920	G	-	71952920	7	5	186	1	0	1	0	1	0	0	0	0	15877	1348	47	0	1230	0	THSD4	15	71952920	Frame_Shift_Del	DEL	G	TCGA-B8-4621-01A-01D-1501-10	2280677	71952920	30578472	67	10381											
C15orf60	283677	hgsc.bcm.edu	37	chr15	73852255	73852255	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctggcgggtttgagaaatTaatgctctatatacatatat	13	14	9	5	1	1	1	0	1	1	1	1	2	1	1	0	2	3	3	0	2	7	7	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	73852255	T	A	73852255	3	1	186	1	0	0	0	0	1	0	0	0	1808	1767	61	5	821	5	C15orf60	15	73852255	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	1899335	73852255	28679137	68	10382											
SLC28A1	9154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	85488371	85488371	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagcgtcaatccagagttCagcccagaggccctggacaa	11	8	10	12	1	2	2	2	0	0	2	3	3	3	3	3	2	2	1	3	2	3	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	85488371	C	A	85488371	3	1	186	1	0	0	0	0	1	0	0	0	14533	825	29	4	2027	4	SLC28A1	15	85488371	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	11636116	85488371	17043021	69	10383											
TMEM8A	58986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	425200	425200	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctctgggtaggggatgaTgaggttggccctgcgagacc	6	10	17	8	1	1	3	0	2	1	1	2	5	1	4	2	5	1	2	2	5	1	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	425200	T	A	425200	3	1	186	1	0	0	0	0	1	0	0	0	16213	1464	51	5	967	5	TMEM8A	16	425200	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10		425200	89929553	70	10384											
CRAMP1L	57585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1682305	1682305	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtgaagaacaaggagcaGgtccgccacttctactaccg	12	7	11	11	2	1	2	0	1	1	1	2	3	2	3	3	3	4	1	3	3	5	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	1682305	G	C	1682305	3	2	186	1	0	0	0	0	1	0	0	0	3846	991	35	4	643	4	CRAMP1L	16	1682305	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	1257105	1682305	88672448	71	10385											
TRAF7	84231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2220688	2220688	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcactcagagtccagcatgtCtctgcgctccacattctcac	8	10	7	16	1	3	1	2	0	2	1	7	1	5	1	2	0	2	3	2	0	0	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	2220688	C	G	2220688	3	3	186	1	0	0	0	0	1	0	0	0	16445	913	32	4	319	4	TRAF7	16	2220688	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	538383	2220688	88134065	72	10386											
CREBBP	1387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3843626	3843626	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccactgatgtttgcatctgaGactaaaataaagcaaaataa	18	10	6	7	0	1	2	0	2	1	1	1	3	1	2	1	0	2	3	1	0	7	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	3843626	G	A	3843626	3	1	186	1	0	0	0	0	1	0	0	0	3861	956	33	2	6463	2	CREBBP	16	3843626	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	1622938	3843626	86511127	73	10387											
ARHGAP17	55114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24942355	24942355	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggggggcgttggagtctgGggaggggtgtgagatggctg	4	9	24	4	1	1	1	0	1	1	1	1	4	1	3	0	9	0	2	0	9	0	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	24942355	G	C	24942355	2	2	186	1	0	0	0	0	0	0	0	1	867	1219	43	4		4	ARHGAP17	16	24942355	Silent	SNP	G	TCGA-B8-4621-01A-01D-1501-10	21098729	24942355	65412398	74	10388											
ZDHHC1	29800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67440199	67440199	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcagccaggccacaatCtggagcgggtgagggggcca	10	4	16	11	1	1	1	0	1	1	0	1	2	1	2	3	5	4	1	3	5	2	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	67440199	C	A	67440199	3	1	186	1	0	0	0	0	1	0	0	0	17599	912	32	4	1337	4	ZDHHC1	16	67440199	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	42497844	67440199	22914554	75	10389											
CLEC18B	497190	broad.mit.edu	37	chr16	74444509	74444509	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcccagcggaaggagtccTtggcggtcttgtaggtgagc	6	9	17	9	2	1	1	0	1	1	0	2	3	2	3	2	6	2	1	2	6	2	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	74444509	A	A	74444509	3	1	186	1	0	0	0	0	1	0	0	0	3503	1609	56	5	247	5	CLEC18B	16	74444509	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	7004310	74444509	15910244	76	10390											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11786998	11786998	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctccgcctctgggaacttCctgggagaaacagtgctggt	7	10	12	12	1	1	1	0	0	1	1	4	3	4	2	4	3	3	1	4	3	2	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	11786998	C	A	11786998	3	1	186	1	0	0	0	0	1	0	0	0	4608	854	30	4	11124	4	DNAH9	17	11786998	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10		11786998	69408212	77	10391											
C17orf75	64149	broad.mit.edu;ucsc.edu	37	chr17	30669149	30669149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatcgactcctgcaaagAggggagcattgcggcggcct	9	7	13	12	3	0	1	0	0	0	1	3	3	2	2	3	4	3	2	3	4	1	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	30669149	G	G	30669149	3	3	186	1	0	0	0	0	1	0	0	0	1880	304	11	3	1220	3	C17orf75	17	30669149	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10	18882151	30669149	50526061	78	10392											
BRIP1	83990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	59886033	59886033	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtatcttggatttccctGtatgatccttcttaatggta	7	18	9	7	0	2	1	0	1	2	0	4	2	4	2	2	3	0	3	2	3	4	7	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	59886033	G	A	59886033	3	1	186	1	0	0	0	0	1	0	0	0	1514	1377	48	2	3092	2	BRIP1	17	59886033	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	29216884	59886033	21309177	79	10393											
BPTF	2186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65960482	65960482	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcacgccactaacagagaagGattatgaggggttgaagagg	14	7	14	6	1	1	4	1	2	0	2	1	6	1	5	1	4	1	1	1	4	4	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	65960482	G	C	65960482	3	2	186	1	0	0	0	0	1	0	0	0	1495	1174	41	4	8900	4	BPTF	17	65960482	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	6074449	65960482	15234728	80	10394											
ABCA5	23461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	67298930	67298930	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactaacgatttgggaaaacTttctatgaggattatcataa	15	13	7	6	1	2	1	1	1	1	0	2	4	2	3	0	2	2	0	0	2	6	6	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	67298930	T	G	67298930	3	3	186	1	0	0	0	0	1	0	0	0	35	1609	56	5	4008	5	ABCA5	17	67298930	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10	1338448	67298930	13896280	81	10395											
GALK1	2584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73758818	73758818	+	Frame_Shift_Del	DEL	T	T	-																															cagttgtacctcccggaggcTttccttgcccagcgcccggg																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		-	73758818	T	-	73758818	7	5	186	1	0	1	0	1	0	0	0	0	6203	1609	56	0	434	0	GALK1	17	73758818	Frame_Shift_Del	DEL	T	TCGA-B8-4621-01A-01D-1501-10	6459888	73758818	7436392	82	10396											
C19orf21	126353	broad.mit.edu	37	chr19	757468	757468	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagaccccaggacccccggCccacctcggtccacgcccct	6	3	10	22	3	0	1	0	0	0	1	2	3	1	2	9	4	0	0	9	4	0	0	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	757468	A	A	757468	2	1	186	1	0	0	0	0	0	0	0	1	1913	726	26	4		4	C19orf21	19	757468	Silent	SNP	C	TCGA-B8-4621-01A-01D-1501-10		757468	58371515	83	10397											
LILRA6	79168	broad.mit.edu;hgsc.bcm.edu	37	chr19	54744308	54744308	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtacattgatctcagaCgcagtgggggatgggctgcc	7	9	14	11	2	1	2	1	1	1	1	3	3	2	3	2	3	2	3	2	3	1	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	54744308	C	T	54744308	3	4	186	1	0	0	0	0	1	0	0	0	8789	536	19	1	357	1	LILRA6	19	54744308	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	53986840	54744308	4384675	84	10398											
ACSS2	55902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33501198	33501198	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcttttacctgcaggcAttcagaagggggaccgagtg	8	10	14	9	1	1	1	1	0	0	1	1	3	1	2	2	3	3	3	2	3	2	3	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		G	33501198	A	G	33501198	3	3	186	1	0	0	0	0	1	0	0	0	189	217	8	3	483	3	ACSS2	20	33501198	Missense_Mutation	SNP	A	TCGA-B8-4621-01A-01D-1501-10		33501198	29524322	85	10399											
ACTR5	79913	broad.mit.edu;ucsc.edu	37	chr20	37396132	37396132	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaggacattcaggaaatgCtggttcagaacgttttcctc	12	11	9	9	1	2	1	2	0	0	1	4	3	3	3	1	3	2	3	1	3	3	4	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	37396132	A	A	37396132	3	1	186	1	0	0	0	0	1	0	0	0	215	796	28	4	1489	4	ACTR5	20	37396132	Missense_Mutation	SNP	C	TCGA-B8-4621-01A-01D-1501-10	3894934	37396132	25629388	86	10400											
DHX35	60625	hgsc.bcm.edu;ucsc.edu	37	chr20	37623522	37623523	+	Frame_Shift_Ins	INS	-	-	C																															tcagccactctggatgcagaINScgtaagagccttgcctcccc																								novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	37623523	-	C	37623522	7	5	186	1	0	1	1	0	0	0	0	0	4508	289	10	0	671	0	DHX35	20	37623522	Frame_Shift_Ins	INS	-	TCGA-B8-4621-01A-01D-1501-10	227390	37623522	25401998	87	10401											
TCEA2	6919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62698282	62698282	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcgtagtccacccgagtcggGatgtctgtcaacgcccttcg	6	10	11	14	5	2	0	1	0	1	0	6	2	3	1	3	1	1	1	3	1	2	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	62698282	G	C	62698282	2	2	186	1	0	0	0	0	0	0	0	1	15667	1161	41	4		4	TCEA2	20	62698282	Silent	SNP	G	TCGA-B8-4621-01A-01D-1501-10	25074760	62698282	327238	88	10402											
SYNJ1	8867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34042650	34042650	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccatttcttcaaaaccaaTtgcaaatatatcagttggct	14	14	4	9	0	3	0	2	0	1	0	3	0	3	0	2	1	3	3	2	1	7	7	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		C	34042650	T	C	34042650	3	2	186	1	0	0	0	0	1	0	0	0	15451	1493	52	3	3059	3	SYNJ1	21	34042650	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-1501-10		34042650	14087245	89	10403											
PCNT	5116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47783470	47783470	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agactgagctgatgaaacagGaattccaaagaaaagaaacg	20	5	10	6	1	0	6	0	3	0	3	1	7	1	7	1	1	3	1	1	1	6	1	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		A	47783470	G	A	47783470	3	1	186	1	0	0	0	0	1	0	0	0	11590	1175	41	2	2284	2	PCNT	21	47783470	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	13740820	47783470	346425	90	10404											
HUWE1	10075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53579648	53579648	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacccatcactcctgccttGcacttccgccacagctggtg	6	10	8	17	1	1	1	1	1	0	0	3	1	3	1	5	1	3	2	5	1	0	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	53579648	G	T	53579648	3	4	186	1	0	0	0	0	1	0	0	0	7461	1328	46	4	4515	4	HUWE1	23	53579648	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10		53579648	101690912	91	10405											
MAGEA10	4109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151303310	151303310	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgggctccccataaatgagGtgctccatcccatcatacag	10	9	8	14	0	1	1	1	1	0	0	4	1	4	1	4	2	2	2	4	2	3	2	novel		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4a9d9213-c3e8-4603-8a56-45319446f269	238fdc67-ba8b-4f35-a1bd-a91c03192dd5		T	151303310	G	T	151303310	3	4	186	1	0	0	0	0	1	0	0	0	9164	1252	44	4	330	4	MAGEA10	23	151303310	Missense_Mutation	SNP	G	TCGA-B8-4621-01A-01D-1501-10	97723662	151303310	3967250	92	10406											
VHL	7428	hgsc.bcm.edu	37	chr3	10183752	10183752	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgcgagccctcccaggTcatcttctgcaatcgcagtc	6	9	9	17	4	3	0	1	0	2	0	7	1	4	0	2	1	2	2	2	1	1	1	rs5030803		TCGA-B8-4621-01A-01D-2102-10	TCGA-B8-4621-10A-01W-1528-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	7b65cc53-f34c-4b46-afd9-55f08baac99f	fb9db263-63a1-45e6-94af-843d0e8225b0		G	10183752	T	G	10183752	3	3	187	1	0	0	0	0	1	0	0	0	17161	1667	58	5	223	5	VHL	3	10183752	Missense_Mutation	SNP	T	TCGA-B8-4621-01A-01D-2102-10		10183752	187838678	1	10407											
PRKCZ	5590	hgsc.bcm.edu	37	chr1	2066743	2066743	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagatggaggaagctgtAccgtgccaacggccacctct	11	6	12	12	2	1	2	0	0	1	2	1	4	1	4	4	3	4	2	4	3	4	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	2066743	A	G	2066743	3	3	188	1	0	0	0	0	1	0	0	0	12519	391	14	3	395	3	PRKCZ	1	2066743	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10		2066743	247183878	1	10408											
PRAMEF12	390999	hgsc.bcm.edu	37	chr1	12837463	12837463	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaacctcatctccatggcCgccctggagaacctgctgcg	7	7	12	15	2	2	1	1	0	1	1	3	3	2	2	5	3	4	1	5	3	2	0	rs112368379	by1000genomes	TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	12837463	C	T	12837463	2	4	188	1	0	0	0	0	0	0	0	1	12430	639	23	1		1	PRAMEF12	1	12837463	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	10770720	12837463	236413158	2	10409											
SEPN1	57190	hgsc.bcm.edu	37	chr1	26135162	26135162	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgccacttccagcccttccTtcccccgccaggccaggagc	5	6	8	22	2	0	0	0	0	0	0	3	1	3	1	9	2	2	0	9	2	0	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	26135162	T	C	26135162	3	2	188	1	0	0	0	0	1	0	0	0	14058	1609	56	3	647	3	SEPN1	1	26135162	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	13297699	26135162	223115459	3	10410											
C1orf91	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32686772	32686772	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatagagaagggatccacaCtggttgaggagaaagggcat	15	7	14	5	0	0	3	0	1	0	2	1	6	1	4	1	4	0	2	1	4	4	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	32686772	C	T	32686772	2	4	188	1	0	0	0	0	0	0	0	1	2068	564	20	2		2	C1orf91	1	32686772	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	6551610	32686772	216563849	4	10411											
TMEM69	51249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46159076	46159076	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagcaagcacttctagcCagaccctcaagcaccatcac	14	5	6	16	0	3	2	2	0	1	2	3	2	3	2	3	0	4	3	3	0	4	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	46159076	C	A	46159076	2	1	188	1	0	0	0	0	0	0	0	1	16197	581	21	4		4	TMEM69	1	46159076	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	13472304	46159076	203091545	5	10412											
USP24	23358	hgsc.bcm.edu	37	chr1	55549489	55549489	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaagtactgagcacagtTtttacaattttctgggacgt	13	13	9	6	1	1	1	0	1	1	0	1	3	1	2	0	1	3	3	0	1	5	6	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	55549489	T	G	55549489	3	3	188	1	0	0	0	0	1	0	0	0	17054	1841	64	5	1072	5	USP24	1	55549489	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	9390413	55549489	193701132	6	10413											
RPF1	80135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	84962024	84962024	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaggaacctttgattctAaatatggagagtatgaatgg	16	11	11	3	0	1	4	0	2	1	2	1	6	1	5	1	3	1	1	1	3	7	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	84962024	A	G	84962024	3	3	188	1	0	0	0	0	1	0	0	0	13548	363	13	3	1009	3	RPF1	1	84962024	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	29412535	84962024	164288597	7	10414											
CCBL2	56267	hgsc.bcm.edu	37	chr1	89434445	89434445	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggatatatctggaaagcCttggccaagattcacaacag	14	8	11	8	0	2	1	1	0	1	1	2	3	2	3	2	4	2	0	2	4	5	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	89434445	C	T	89434445	3	4	188	1	0	0	0	0	1	0	0	0	2733	681	24	2	1197	2	CCBL2	1	89434445	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	4472421	89434445	159816176	8	10415											
CNN3	1266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	95368739	95368739	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctggctgtagcttgtttAtaagtctgaaaagaaaaata	15	12	9	5	0	1	2	0	1	1	1	1	2	1	2	1	1	2	4	1	1	8	6	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	95368739	A	C	95368739	3	2	188	1	0	0	0	0	1	0	0	0	3611	449	16	5	824	5	CNN3	1	95368739	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	5934294	95368739	153881882	9	10416											
GNAI3	2773	hgsc.bcm.edu	37	chr1	110134682	110134682	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggttccaatacatatgaaGaggcagctgcctatattcaa	14	11	8	8	0	1	2	1	1	0	1	2	2	2	2	2	2	3	3	2	2	8	7	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	110134682	G	T	110134682	4	4	188	1	0	0	0	0	0	1	0	0	6506	943	33	4	922	4	GNAI3	1	110134682	Nonsense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	14765943	110134682	139115939	10	10417											
RGL1	23179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183891413	183891413	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagccatgctgaagcacaatCtggactcagaccccgccgag	11	5	11	14	2	2	2	1	1	1	1	2	5	2	3	4	1	3	2	4	1	2	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	183891413	C	T	183891413	2	4	188	1	0	0	0	0	0	0	0	1	13278	912	32	2		2	RGL1	1	183891413	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	73756731	183891413	65359208	11	10418											
CDC42EP3	10602	hgsc.bcm.edu	37	chr2	37873389	37873389	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacatgagagcttgggaTcctccaatggtcgggaggga	10	7	16	8	1	0	1	0	1	0	1	3	5	2	4	2	5	2	2	2	5	2	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	37873389	T	A	37873389	2	1	188	1	0	0	0	0	0	0	0	1	3077	1422	50	5		5	CDC42EP3	2	37873389	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10		37873389	205325984	12	10419											
C2orf61	285051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	47382357	47382357	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggtcttcccttattgAggtggaagcggtggcgacgg	7	9	15	10	3	1	1	0	1	1	0	2	3	2	2	2	6	1	0	2	6	2	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	47382357	A	G	47382357	3	3	188	1	0	0	0	0	1	0	0	0	2180	304	11	3	755	3	C2orf61	2	47382357	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	9508968	47382357	195817016	13	10420											
IMMT	10989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86385746	86385746	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaggaaggacttctggAgtaatactgtccagctctcg	10	9	10	12	1	2	0	0	0	2	0	4	3	3	3	2	3	2	2	2	3	3	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	86385746	A	T	86385746	2	4	188	1	0	0	0	0	0	0	0	1	7718	291	11	5		5	IMMT	2	86385746	Silent	SNP	A	TCGA-B8-4622-01A-02D-1361-10	39003389	86385746	156813627	14	10421											
TMEM131	23505	hgsc.bcm.edu;ucsc.edu	37	chr2	98412694	98412694	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttacaatatgattatatCtctagaagcattggcactta	14	15	5	7	0	1	2	0	1	1	1	2	2	1	2	0	1	3	2	0	1	9	8	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	98412694	C	A	98412694	3	1	188	1	0	0	0	0	1	0	0	0	16043	913	32	4	2520	4	TMEM131	2	98412694	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	12026948	98412694	144786679	15	10422											
SAP130	79595	hgsc.bcm.edu	37	chr2	128775310	128775310	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcgtcaggtgtgctggcgGggctgtcactgcaacaggtg	5	9	18	9	2	2	0	2	0	0	0	2	0	2	0	0	6	3	3	0	6	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	128775310	G	T	128775310	3	4	188	1	0	0	0	0	1	0	0	0	13833	1232	43	4	2957	4	SAP130	2	128775310	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	30362616	128775310	114424063	16	10423											
ZDBF2	57683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207174280	207174280	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacacttctcatcgaacGactcaccgactgcagaaagc	14	6	8	13	3	2	2	2	0	1	2	4	6	2	2	1	0	3	1	1	0	3	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	207174280	G	T	207174280	2	4	188	1	0	0	0	0	0	0	0	1	17598	1045	37	4		4	ZDBF2	2	207174280	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10	78398970	207174280	36025093	17	10424											
ZDBF2	57683	hgsc.bcm.edu	37	chr2	207175938	207175938	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattagaaagtatatttcgaAatactctgtctttttacgtc	12	17	5	7	2	2	1	0	0	2	1	4	2	2	1	0	0	2	1	0	0	7	8	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	207175938	A	G	207175938	3	3	188	1	0	0	0	0	1	0	0	0	17598	14	1	3	6696	3	ZDBF2	2	207175938	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	1658	207175938	36023435	18	10425											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228973613	228973613	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcatcctctgattctgcaAccagtagtctgttgactcca	8	12	9	12	0	3	2	0	2	3	0	5	2	5	2	3	1	2	4	3	1	2	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	228973613	A	T	228973613	3	4	188	1	0	0	0	0	1	0	0	0	15049	40	2	5	4961	5	SPHKAP	2	228973613	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	21797675	228973613	14225760	19	10426											
MST1R	4486	hgsc.bcm.edu	37	chr3	49936537	49936537	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcccatccattgtgcccaTgtgtgccactgtgacgttgt	6	12	10	13	2	0	1	0	1	0	0	1	1	1	1	4	0	2	1	4	0	0	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	49936537	T	C	49936537	3	2	188	1	0	0	0	0	1	0	0	0	9891	1464	51	3	2888	3	MST1R	3	49936537	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10		49936537	148085893	20	10427											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52623117	52623117	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccacagtctttcaatacaGacgatatgtggttgtaggtt	10	14	9	8	1	2	1	1	0	1	1	3	2	3	1	1	2	1	3	1	2	4	6	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	52623117	G	C	52623117	2	2	188	1	0	0	0	0	0	0	0	1	11491	929	33	4		4	PBRM1	3	52623117	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10	2686580	52623117	145399313	21	10428											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506747	195506747	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaggaagaggggtggCgtgacgtgtggatgctgagg	8	7	22	4	2	0	4	0	3	0	1	0	6	0	6	0	7	1	1	0	7	1	0	rs62282470	by1000genomes	TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	195506747	C	T	195506747	3	4	188	1	0	0	0	0	1	0	0	0	9978	768	27	1		1	MUC4	3	195506747	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	142883630	195506747	2515683	22	10429											
TBC1D19	55296	hgsc.bcm.edu;ucsc.edu	37	chr4	26755448	26755448	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattcttttccagtgctggCagctgccgtgtttgctttcc	3	16	10	12	1	1	0	0	0	1	0	3	0	3	0	3	1	4	6	3	1	0	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	26755448	C	T	26755448	3	4	188	1	0	0	0	0	1	0	0	0	15606	710	25	2	1520	2	TBC1D19	4	26755448	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10		26755448	164398828	23	10430											
GABRA4	2557	hgsc.bcm.edu	37	chr4	46930578	46930578	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcttgctgcagatatggtTtcagctgcatttgcacggct	6	14	11	10	1	2	1	1	0	1	1	2	1	2	1	0	2	5	8	0	2	1	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	46930578	T	A	46930578	3	1	188	1	0	0	0	0	1	0	0	0	6163	1838	64	5	339	5	GABRA4	4	46930578	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	20175130	46930578	144223698	24	10431											
MAML3	55534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	140811637	140811637	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcatcctcaggaaccgtgTtggccaattcatctattaat	10	14	7	10	1	4	0	3	0	1	0	5	1	5	1	3	2	1	1	3	2	4	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	140811637	T	A	140811637	3	1	188	1	0	0	0	0	1	0	0	0	9207	1725	60	5	2471	5	MAML3	4	140811637	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	93881059	140811637	50342639	25	10432											
ZNF827	152485	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	146824164	146824164	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcactgtccagtgccaccaGctccaacgtgtggctgctgg	6	9	11	15	1	1	0	1	0	0	0	3	0	3	0	4	2	4	3	4	2	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	146824164	G	A	146824164	2	1	188	1	0	0	0	0	0	0	0	1	18179	962	34	2		2	ZNF827	4	146824164	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10	6012527	146824164	44330112	26	10433											
MATR3	9782	hgsc.bcm.edu	37	chr5	138653359	138653360	+	Frame_Shift_Del	DEL	AG	AG	-																															taccagctattacagctggtAgaaccatttggagtcatttc																								novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		-	138653360	AG	-	138653359	7	5	188	1	0	1	0	1	0	0	0	0	9337	407	15	0	1279	0	MATR3	5	138653359	Frame_Shift_Del	DEL	AG	TCGA-B8-4622-01A-02D-1361-10		138653359	42261901	27	10434											
TTBK1	84630	hgsc.bcm.edu	37	chr6	43251671	43251671	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctctctgaggaggacAcgggctcggagccctcaggc	6	7	14	14	2	2	1	1	1	1	0	5	4	3	4	2	5	2	2	2	5	0	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	43251671	A	T	43251671	3	4	188	1	0	0	0	0	1	0	0	0	16675	159	6	5	3243	5	TTBK1	6	43251671	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10		43251671	127863396	28	10435											
HCRTR2	3062	broad.mit.edu;hgsc.bcm.edu	37	chr6	55128616	55128616	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcgcaaactctggtgtcGacaggtatatagtttcaaat	12	14	8	7	2	2	0	1	0	1	0	4	1	2	0	0	2	1	3	0	2	5	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	55128616	G	A	55128616	3	1	188	1	0	0	0	0	1	0	0	0	7002	1058	37	1	772	1	HCRTR2	6	55128616	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	11876945	55128616	115986451	29	10436											
COL9A1	1297	hgsc.bcm.edu;ucsc.edu	37	chr6	70942325	70942325	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagcaccagggggcccctTaatgcccggaaggccacgaa	12	3	13	13	2	0	1	0	0	0	1	0	3	0	2	5	4	2	1	5	4	4	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	70942325	T	A	70942325	4	1	188	1	0	0	0	0	0	1	0	0	3707	1763	61	5	313	5	COL9A1	6	70942325	Nonsense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	15813709	70942325	100172742	30	10437											
COX7A2	1347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	75950931	75950931	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccggaactttatttttaaaAtgcctgcgggaagcagtgct	10	13	10	8	2	0	0	0	0	0	0	1	2	1	2	2	2	5	2	2	2	5	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	75950931	A	C	75950931	3	2	188	1	0	0	0	0	1	0	0	0	3780	98	4	5	194	5	COX7A2	6	75950931	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	5008606	75950931	95164136	31	10438											
RBM16	0	hgsc.bcm.edu	37	chr6	155153505	155153505	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacattcgtccgggactaaTaccacaggcacctgggccaa	12	6	10	13	2	0	1	0	0	0	1	2	2	1	2	4	3	1	1	4	3	3	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	155153505	T	C	155153505	3	2	188	1	0	0	0	0	1	0	0	0	13120	1406	49	3	2870	3	RBM16	6	155153505	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	79202574	155153505	15961562	32	10439											
SLC22A2	6582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160668236	160668236	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagggaggcgggtagagAttttccatttttctttgcga	8	14	13	6	2	1	2	0	1	1	1	2	5	2	3	1	3	1	1	1	3	2	6	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	160668236	A	G	160668236	3	3	188	1	0	0	0	0	1	0	0	0	14452	333	12	3	758	3	SLC22A2	6	160668236	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	5514731	160668236	10446831	33	10440											
WIPI2	26100	broad.mit.edu;hgsc.bcm.edu	37	chr7	5269291	5269291	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttggactctgcctctcacGactgccccttagtcactcag	6	12	7	16	1	5	0	3	0	3	0	6	2	5	1	3	1	2	0	3	1	1	2	rs147945082	byfrequency	TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	5269291	G	A	5269291	3	1	188	1	0	0	0	0	1	0	0	0	17370	1058	37	1	1254	1	WIPI2	7	5269291	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10		5269291	153869372	34	10441											
NUPL2	11097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23240017	23240017	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcaaaagccctgcagctTccagttttggatcacctgga	10	11	8	12	0	2	0	2	0	0	0	3	2	3	2	3	2	3	3	3	2	2	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	23240017	T	A	23240017	3	1	188	1	0	0	0	0	1	0	0	0	10775	1783	62	5	951	5	NUPL2	7	23240017	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	17970726	23240017	135898646	35	10442											
GCC1	79571	broad.mit.edu;hgsc.bcm.edu	37	chr7	127225152	127225152	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagccgtgcctggtactggaGaagctgcttcttctgggtct	5	12	14	10	1	3	1	0	0	3	1	3	3	3	1	2	3	5	3	2	3	2	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	127225152	G	A	127225152	3	1	188	1	0	0	0	0	1	0	0	0	6285	942	33	2	2250	2	GCC1	7	127225152	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	103985135	127225152	31913511	36	10443											
EPHA1	2041	broad.mit.edu;hgsc.bcm.edu	37	chr7	143095137	143095137	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagcaagaccctgggttcTagaaccatctggtaccgttc	9	10	10	12	1	3	2	1	0	2	2	4	2	3	2	3	2	3	4	3	2	4	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	143095137	T	A	143095137	2	1	188	1	0	0	0	0	0	0	0	1	5165	1509	53	5		5	EPHA1	7	143095137	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	15869985	143095137	16043526	37	10444											
RARRES2	5919	hgsc.bcm.edu	37	chr7	150037577	150037577	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggcccactgcacgggcGggtgcttgtgaaattcctcc	7	8	14	12	2	0	1	0	1	0	0	2	2	2	2	3	4	2	2	3	4	2	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	150037577	G	T	150037577	3	4	188	1	0	0	0	0	1	0	0	0	13058	1116	39	4	385	4	RARRES2	7	150037577	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	6942440	150037577	9101086	38	10445											
GALNT11	63917	hgsc.bcm.edu	37	chr7	151818714	151818714	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagggctctgtcgccatGgcgatctgcgatggctcctc	6	9	13	13	3	2	1	0	0	2	1	5	3	3	1	2	3	1	2	2	3	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	151818714	G	A	151818714	3	1	188	1	0	0	0	0	1	0	0	0	6209	1348	47	2	1821	2	GALNT11	7	151818714	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	1781137	151818714	7319949	39	10446											
CSMD1	64478	hgsc.bcm.edu;ucsc.edu	37	chr8	2808659	2808659	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttcagctccactggcGaggcttcgctgaaggtggca	8	9	12	12	2	2	1	2	1	0	0	4	2	3	1	1	4	2	4	1	4	2	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	G	T	G	G	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	2808659	G	T	2808659	4	4	188	1	0	0	0	0	0	1	0	0	3944	1059	37	4	536	4	CSMD1	8	2808659	Nonsense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10		2808659	143555363	40	10447											
PRKDC	5591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48730110	48730110	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcttaaggggaacttgaGatgataaattgcctaaaaat	15	12	9	5	0	1	2	0	2	1	1	2	4	1	3	1	2	2	0	1	2	7	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	48730110	G	T	48730110	3	4	188	1	0	0	0	0	1	0	0	0	12523	942	33	4	3004	4	PRKDC	8	48730110	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	45921451	48730110	97633912	41	10448											
HNF4G	3174	hgsc.bcm.edu	37	chr8	76468287	76468287	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagagatccatgatgtataAagatattttgcttttgggta	14	15	9	3	0	0	3	0	1	0	2	1	4	1	3	1	1	1	3	1	1	6	8	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	76468287	A	T	76468287	3	4	188	1	0	0	0	0	1	0	0	0	7254	14	1	5	708	5	HNF4G	8	76468287	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	27738177	76468287	69895735	42	10449											
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	77618282	77618282	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaaatgtaactggcactaCaaatatcagcagaccctgga	15	8	7	11	0	1	1	1	0	0	1	1	2	1	2	2	2	3	3	2	2	6	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	77618282	C	A	77618282	4	1	188	1	0	0	0	0	0	1	0	0	17634	489	17	4	1961	4	ZFHX4	8	77618282	Nonsense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	1149995	77618282	68745740	43	10450											
RGS22	26166	hgsc.bcm.edu	37	chr8	100990285	100990285	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaggccagaatttaaacaGaaccccaaaaattgtcatct	16	9	6	10	0	2	3	1	1	1	2	2	3	2	3	3	1	2	0	3	1	6	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	100990285	G	A	100990285	2	1	188	1	0	0	0	0	0	0	0	1	13307	933	33	2		2	RGS22	8	100990285	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10	23372003	100990285	45373737	44	10451											
TM7SF4	0	broad.mit.edu;hgsc.bcm.edu	37	chr8	105361304	105361304	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaccctggcagtctctcTtttcagtcccagccatgtcc	6	11	7	17	0	3	1	1	0	2	1	6	1	5	1	5	1	1	1	5	1	0	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	105361304	T	A	105361304	3	1	188	1	0	0	0	0	1	0	0	0	15975	1609	56	5	526	5	TM7SF4	8	105361304	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	4371019	105361304	41002718	45	10452											
KDM4C	23081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	7015920	7015920	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtgcaaaagaaatgcGtggacagcagtaagtagctt	13	7	13	8	2	0	1	0	0	0	1	0	2	0	2	1	2	4	5	1	2	5	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	7015920	G	A	7015920	2	1	188	1	0	0	0	0	0	0	0	1	8130	1132	40	1		1	KDM4C	9	7015920	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10		7015920	134197511	46	10453											
PRSS3	5646	hgsc.bcm.edu;ucsc.edu	37	chr9	33798574	33798574	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctggaaagattaccaacaGcatgttctgtgtgggcttcc	9	11	10	11	0	1	1	0	0	1	1	2	2	2	2	3	2	3	3	3	2	3	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	33798574	G	A	33798574	3	1	188	1	0	0	0	0	1	0	0	0	12624	971	34	2	774	2	PRSS3	9	33798574	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	26782654	33798574	107414857	47	10454											
AUH	549	hgsc.bcm.edu	37	chr9	94087667	94087667	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactggaactcattttggcTctttccttaaggtcagcacc	8	14	7	12	0	4	0	3	0	1	0	5	1	5	1	2	3	2	2	2	3	2	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	94087667	T	C	94087667	2	2	188	1	0	0	0	0	0	0	0	1	1219	1548	54	3		3	AUH	9	94087667	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	60289093	94087667	47125764	48	10455											
C9orf102	0	hgsc.bcm.edu;ucsc.edu	37	chr9	98728933	98728933	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcatcaaggagagcttttTgggatccataacctcttcaa	12	11	9	9	0	3	1	2	0	1	1	4	4	4	2	2	2	3	2	2	2	3	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	98728933	T	A	98728933	3	1	188	1	0	0	0	0	1	0	0	0	2445	1809	63	5	2124	5	C9orf102	9	98728933	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	4641266	98728933	42484498	49	10456											
TSC1	7248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	135797252	135797252	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttctttcatactgtaaTgagaacgcaaaaaggagacg	14	11	10	6	2	2	2	1	1	1	2	2	4	2	2	0	2	2	3	0	2	5	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	135797252	T	C	135797252	3	2	188	1	0	0	0	0	1	0	0	0	16604	1464	51	3	2945	3	TSC1	9	135797252	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	37068319	135797252	5416179	50	10457											
PSAP	5660	hgsc.bcm.edu;ucsc.edu	37	chr10	73579621	73579621	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacagggacttcggcagctTcgagcacattttgtcaaaag	11	9	11	10	3	1	0	1	0	0	0	3	3	1	1	0	2	2	3	0	2	2	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	73579621	T	A	73579621	4	1	188	1	0	0	0	0	0	1	0	0	12645	1792	62	5	552	5	PSAP	10	73579621	Nonsense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10		73579621	61955126	51	10458											
ECD	11319	hgsc.bcm.edu	37	chr10	74914026	74914026	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcaccgatgtcattatTcgtgtttcaggcaagaatgt	11	14	8	8	2	3	1	3	0	1	1	5	2	3	1	1	1	0	2	1	1	4	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	74914026	T	G	74914026	2	3	188	1	0	0	0	0	0	0	0	1	4888	1770	62	5		5	ECD	10	74914026	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	1334405	74914026	60620721	52	10459											
PLAU	5328	hgsc.bcm.edu	37	chr10	75675058	75675058	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgactgttgtgaagctgatTtcccaccgggagtgtcagca	9	11	12	9	1	1	3	1	3	0	0	2	4	2	4	2	1	2	3	2	1	1	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	75675058	T	G	75675058	3	3	188	1	0	0	0	0	1	0	0	0	12022	1829	64	5	1092	5	PLAU	10	75675058	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	761032	75675058	59859689	53	10460											
SUFU	51684	hgsc.bcm.edu	37	chr10	104357037	104357037	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcggcacacagccccggcgActctctggcaaaggtgggag	9	5	14	13	3	1	0	0	0	1	0	3	2	1	1	2	5	1	2	2	5	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	104357037	A	G	104357037	2	3	188	1	0	0	0	0	0	0	0	1	15369	262	10	3		3	SUFU	10	104357037	Silent	SNP	A	TCGA-B8-4622-01A-02D-1361-10	28681979	104357037	31177710	54	10461											
BRSK2	9024	hgsc.bcm.edu	37	chr11	1459547	1459547	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgcaggtggagcgggaGatcgcgatcctgaagctcat	9	7	14	11	3	1	2	1	1	0	1	3	5	2	3	2	3	3	2	2	3	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	1459547	G	T	1459547	3	4	188	1	0	0	0	0	1	0	0	0	1524	933	33	4	208	4	BRSK2	11	1459547	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10		1459547	133546969	55	10462											
GAS2	2620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22833447	22833447	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaatgctgcagatctcccGtgtggatggcaaaacatccc	10	8	10	13	2	1	1	0	0	1	1	3	3	2	2	3	2	3	3	3	2	3	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	22833447	G	A	22833447	3	1	188	1	0	0	0	0	1	0	0	0	6245	1145	40	1	853	1	GAS2	11	22833447	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	21373900	22833447	112173069	56	10463											
ZBTB3	79842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62520590	62520590	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cattggtggctcatctggagGacggacagtaggtgagggag	9	8	18	6	1	2	1	1	1	1	0	2	5	2	5	0	7	0	2	0	7	1	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	62520590	G	A	62520590	3	1	188	1	0	0	0	0	1	0	0	0	17533	1174	41	2	1031	2	ZBTB3	11	62520590	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	39687143	62520590	72485926	57	10464											
RECQL	5965	hgsc.bcm.edu;ucsc.edu	37	chr12	21624427	21624427	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcacgaggaagtgtgggAgccacaacacctgctactct	10	9	10	12	1	3	0	1	0	2	0	3	3	3	2	2	2	4	1	2	2	3	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	21624427	A	T	21624427	2	4	188	1	0	0	0	0	0	0	0	1	13203	291	11	5		5	RECQL	12	21624427	Silent	SNP	A	TCGA-B8-4622-01A-02D-1361-10		21624427	112227468	58	10465											
NUP107	57122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	69136217	69136217	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagaccagggacttgaccCattagggtatgaaattcagt	12	10	10	9	0	1	3	1	2	0	1	1	4	1	4	3	2	0	1	3	2	4	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	69136217	C	A	69136217	3	1	188	1	0	0	0	0	1	0	0	0	10753	594	21	4	2863	4	NUP107	12	69136217	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	47511790	69136217	64715678	59	10466											
NR2C1	7181	hgsc.bcm.edu	37	chr12	95445694	95445694	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaccacattggccaatgtaCttaaatctccctgacatgat	13	12	5	11	0	1	2	0	2	1	0	2	2	1	2	3	1	2	1	3	1	5	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	95445694	C	A	95445694	3	1	188	1	0	0	0	0	1	0	0	0	10622	565	20	4	1108	4	NR2C1	12	95445694	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	26309477	95445694	38406201	60	10467											
ZMYM5	9205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20398642	20398642	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacaacaacagcacaccaTcatttttctcattttcatat	13	15	2	11	0	3	0	3	0	1	0	4	0	3	0	1	0	4	2	1	0	4	6	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	20398642	T	A	20398642	3	1	188	1	0	0	0	0	1	0	0	0	17702	1435	50	5	28	5	ZMYM5	13	20398642	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10		20398642	94771236	61	10468											
C1QTNF9	338872	hgsc.bcm.edu	37	chr13	24892967	24892967	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctaggagaaccaggaCgtcctggcagcccggggaag	10	4	14	13	2	0	1	0	0	0	1	2	4	2	3	5	5	2	1	5	5	3	1	rs71429861	bycluster;byfrequency	TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	24892967	C	T	24892967	3	4	188	1	0	0	0	0	1	0	0	0	1970	536	19	1	184	1	C1QTNF9	13	24892967	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	4494325	24892967	90276911	62	10469											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32972539	32972539	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttctccggctgcacagaagGcatttcagccaccaaggagt	10	9	10	12	1	2	1	1	0	1	1	3	2	2	2	3	3	2	3	3	3	2	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	32972539	G	A	32972539	3	1	188	1	0	0	0	0	1	0	0	0	1499	1203	42	2	9991	2	BRCA2	13	32972539	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	8079572	32972539	82197339	63	10470											
COL4A1	1282	hgsc.bcm.edu;ucsc.edu	37	chr13	110822087	110822087	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatcccaggaagccctggAggccccatgggtcccggaag	9	5	13	14	1	1	0	1	0	0	0	3	3	3	3	5	5	1	0	5	5	3	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	110822087	A	G	110822087	2	3	188	1	0	0	0	0	0	0	0	1	3689	291	11	3		3	COL4A1	13	110822087	Silent	SNP	A	TCGA-B8-4622-01A-02D-1361-10	77849548	110822087	4347791	64	10471											
REC8	9985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24642238	24642238	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctattctcaacaatgcCagtacctcgtgggtaaggct	9	11	10	11	2	2	0	1	0	2	0	4	0	2	0	2	2	3	3	2	2	5	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	24642238	C	T	24642238	4	4	188	1	0	0	0	0	0	1	0	0	13201	595	21	2	266	2	REC8	14	24642238	Nonsense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10		24642238	82707302	65	10472											
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71543031	71543031	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacccgacctttaatccAaacattgatgaagactatga	14	10	8	9	1	0	4	0	3	0	1	1	6	1	5	3	1	1	0	3	1	4	4	rs144508419	bycluster;byfrequency;by1000genomes	TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	71543031	A	G	71543031	2	3	188	1	0	0	0	0	0	0	0	1	11591	117	5	3		3	PCNX	14	71543031	Silent	SNP	A	TCGA-B8-4622-01A-02D-1361-10	46900793	71543031	35806509	66	10473											
ALDH6A1	4329	hgsc.bcm.edu	37	chr14	74539005	74539005	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcacgtttgcaggaagcAatggctgcatccatttctgc	11	10	10	10	1	1	0	0	0	1	0	2	1	2	1	1	2	5	6	1	2	3	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	74539005	A	G	74539005	2	3	188	1	0	0	0	0	0	0	0	1	503	126	5	3		3	ALDH6A1	14	74539005	Silent	SNP	A	TCGA-B8-4622-01A-02D-1361-10	2995974	74539005	32810535	67	10474											
LTBP2	4053	hgsc.bcm.edu;ucsc.edu	37	chr14	74983607	74983607	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggtgttggtgcactgcccCccgctgcacacccctggctg	3	9	12	17	2	0	0	0	0	0	0	1	0	0	0	5	3	3	5	5	3	0	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	74983607	C	A	74983607	2	1	188	1	0	0	0	0	0	0	0	1	9074	610	22	4		4	LTBP2	14	74983607	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	444602	74983607	32365933	68	10475											
CASC5	57082	hgsc.bcm.edu	37	chr15	40937258	40937258	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaataagaacctgtgggaAaaaatgagacactgctctga	18	8	9	6	0	1	3	0	2	1	2	1	5	1	4	1	1	2	1	1	1	7	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	40937258	A	C	40937258	3	2	188	1	0	0	0	0	1	0	0	0	2663	11	1	5	5998	5	CASC5	15	40937258	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10		40937258	61594134	69	10476											
LRRC57	255252	hgsc.bcm.edu	37	chr15	42837375	42837375	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgaggatgctctggggaAgcatgctgagctcaagacaa	12	7	13	9	0	2	3	1	2	1	1	2	5	2	5	0	3	4	4	0	3	3	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	42837375	A	C	42837375	3	2	188	1	0	0	0	0	1	0	0	0	9013	72	3	5	149	5	LRRC57	15	42837375	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	1900117	42837375	59694017	70	10477											
GOLGA6A	342096	hgsc.bcm.edu	37	chr15	74367323	74367323	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggtcactgctgggggCgccagggatgggggctcagc	7	5	19	10	1	2	1	2	0	0	1	2	2	2	2	1	6	2	2	1	6	0	0	rs3743208		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	74367323	C	T	74367323	2	4	188	1	0	0	0	0	0	0	0	1	6557	755	27	1		1	GOLGA6A	15	74367323	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	31529948	74367323	28164069	71	10478											
MPI	4351	hgsc.bcm.edu	37	chr15	75185068	75185068	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaaccacaagccagagAtggccattgccctcaccccc	11	5	7	18	0	1	1	1	0	0	1	1	2	1	1	7	1	4	0	7	1	2	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	75185068	A	G	75185068	3	3	188	1	0	0	0	0	1	0	0	0	9729	333	12	3	426	3	MPI	15	75185068	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	817745	75185068	27346324	72	10479											
ZNF592	9640	hgsc.bcm.edu	37	chr15	85327156	85327156	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggagcgccattgcagaggCccccagcgagatgccagggg	9	3	17	12	2	0	2	0	0	0	2	0	4	0	3	4	4	4	1	4	4	0	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	85327156	C	T	85327156	3	4	188	1	0	0	0	0	1	0	0	0	18021	739	26	2	1252	2	ZNF592	15	85327156	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	10142088	85327156	17204236	73	10480											
BLM	641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91346812	91346812	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgcttattcacgacaCaatgccgaaagactttttaa	13	12	7	9	2	2	1	1	0	1	1	2	4	2	2	1	1	2	1	1	1	4	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	91346812	C	A	91346812	3	1	188	1	0	0	0	0	1	0	0	0	1445	477	17	4	3486	4	BLM	15	91346812	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	6019656	91346812	11184580	74	10481											
CEMP1	752014	hgsc.bcm.edu	37	chr16	2580881	2580881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtgtgaggtgcagggataCccacctctgccttgacggcc	7	8	14	12	1	1	2	0	2	1	0	1	3	1	3	4	4	3	1	4	4	1	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	2580881	C	T	2580881	3	4	188	1	0	0	0	0	1	0	0	0	3224	507	18	2	553	2	CEMP1	16	2580881	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10		2580881	87773872	75	10482											
TFAP4	7023	hgsc.bcm.edu	37	chr16	4312339	4312339	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcacctggatgaagcgctTgagctgtgtgttctgctgca	6	11	14	10	2	1	2	0	2	1	0	1	3	1	3	1	1	4	6	1	1	1	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	4312339	T	C	4312339	3	2	188	1	0	0	0	0	1	0	0	0	15791	1821	63	3	696	3	TFAP4	16	4312339	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	1731458	4312339	86042414	76	10483											
CKLF	51192	hgsc.bcm.edu	37	chr16	66599818	66599818	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtgacagcagtatgctgTcttgccgacggggcccttat	6	12	12	11	2	1	1	0	1	1	0	1	2	1	1	2	2	3	3	2	2	2	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	66599818	T	C	66599818	2	2	188	1	0	0	0	0	0	0	0	1	3447	1673	58	3		3	CKLF	16	66599818	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	62287479	66599818	23754935	77	10484											
ABCC3	8714	hgsc.bcm.edu;ucsc.edu	37	chr17	48745263	48745263	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtgtacgtgtacgtggacCcaaacaatgtgctggacgcc	9	8	14	10	3	0	0	0	0	0	0	0	2	0	2	2	3	4	3	2	3	4	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	48745263	C	A	48745263	3	1	188	1	0	0	0	0	1	0	0	0	54	623	22	4	1809	4	ABCC3	17	48745263	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10		48745263	32449947	78	10485											
KCNJ2	3759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	68171453	68171453	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggttatcttctgcctggcTttcgtcctgtcatggctgtt	2	18	10	11	1	3	0	1	0	2	0	5	0	4	0	2	3	1	4	2	3	1	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	68171453	T	A	68171453	2	1	188	1	0	0	0	0	0	0	0	1	8051	1596	56	5		5	KCNJ2	17	68171453	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	19426190	68171453	13023757	79	10486											
UNK	85451	hgsc.bcm.edu	37	chr17	73805879	73805879	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagagcagtgcccactctTtgtgcaacacaaatgcacgc	12	7	8	14	1	1	1	0	0	1	1	1	1	1	1	1	0	5	3	1	0	2	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	73805879	T	G	73805879	3	3	188	1	0	0	0	0	1	0	0	0	16999	1841	64	5	381	5	UNK	17	73805879	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	5634426	73805879	7389331	80	10487											
DSG2	1829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29102086	29102086	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcaacagatgcagatgaGcccaataccctgaattcgaa	16	7	8	10	1	0	4	0	2	0	2	1	5	0	4	2	0	5	2	2	0	6	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	29102086	G	A	29102086	2	1	188	1	0	0	0	0	0	0	0	1	4777	962	34	2		2	DSG2	18	29102086	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10		29102086	48975162	81	10488											
AP3D1	8943	hgsc.bcm.edu	37	chr19	2132487	2132487	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccagtgtcatgatgtcatTtgccaggtctctggcaaggt	8	12	11	10	0	3	1	2	1	1	0	4	1	3	1	2	3	1	1	2	3	1	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	2132487	T	G	2132487	3	3	188	1	0	0	0	0	1	0	0	0	746	1841	64	5	3278	5	AP3D1	19	2132487	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10		2132487	56996496	82	10489											
NDUFA7	4701	hgsc.bcm.edu	37	chr19	8381465	8381465	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccggcggccatcgcgagTgcaatagtaattgttggaga	9	10	13	9	4	0	1	0	0	0	1	2	3	1	1	2	3	1	3	2	3	3	5	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	8381465	T	C	8381465	3	2	188	1	0	0	0	0	1	0	0	0	10270	1696	59	3	183	3	NDUFA7	19	8381465	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	6248978	8381465	50747518	83	10490											
BEST2	54831	hgsc.bcm.edu	37	chr19	12867047	12867047	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgaggctcgcgccccataCacagcggctactgtcttcca	7	7	10	17	4	1	0	0	0	1	0	3	1	2	0	4	2	3	2	4	2	2	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	12867047	C	T	12867047	2	4	188	1	0	0	0	0	0	0	0	1	1405	489	17	2		2	BEST2	19	12867047	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	4485582	12867047	46261936	84	10491											
ATP1A3	478	hgsc.bcm.edu	37	chr19	42490052	42490052	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgatccgcaggtcagcTggcactcggtctccaccctt	7	9	11	14	2	2	2	1	1	1	1	5	3	3	2	3	3	1	3	3	3	0	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	42490052	T	A	42490052	2	1	188	1	0	0	0	0	0	0	0	1	1130	1567	55	5		5	ATP1A3	19	42490052	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	29623005	42490052	16638931	85	10492											
CNOT3	4849	hgsc.bcm.edu	37	chr19	54646856	54646856	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttcctccctggccaggTgagattgatcgctgcctcaa	6	12	10	13	1	1	2	1	2	0	1	4	3	3	2	4	2	1	2	4	2	1	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		C	54646856	T	C	54646856	2	2	188	1	0	0	0	0	0	0	0	1	3620	1710	59	3		3	CNOT3	19	54646856	Silent	SNP	T	TCGA-B8-4622-01A-02D-1361-10	12156804	54646856	4482127	86	10493											
ZSCAN1	284312	hgsc.bcm.edu	37	chr19	58563898	58563898	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagtggcagcagccccagCactccccgaggaaagtgagt	10	5	13	13	1	0	1	0	1	0	0	1	3	1	2	4	2	4	4	4	2	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	58563898	C	A	58563898	3	1	188	1	0	0	0	0	1	0	0	0	18225	710	25	4	516	4	ZSCAN1	19	58563898	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	3917042	58563898	565085	87	10494											
ADAM33	80332	hgsc.bcm.edu;ucsc.edu	37	chr20	3657786	3657786	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccccatgtctggcttcGagacctgggcaagaaaatgt	10	8	11	12	1	1	2	0	0	1	2	2	3	1	2	4	2	1	2	4	2	3	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	3657786	G	T	3657786	4	4	188	1	0	0	0	0	0	1	0	0	250	1059	37	4	2339	4	ADAM33	20	3657786	Nonsense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10		3657786	59367734	88	10495											
BFSP1	631	hgsc.bcm.edu;ucsc.edu	37	chr20	17477609	17477609	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccggatccagtgctgagaGagactccatggctctgggtg	8	8	14	11	1	1	2	0	1	1	2	3	5	3	3	3	3	1	2	3	3	0	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	17477609	G	A	17477609	3	1	188	1	0	0	0	0	1	0	0	0	1415	942	33	2	989	2	BFSP1	20	17477609	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1361-10	13819823	17477609	45547911	89	10496											
C20orf132	0	hgsc.bcm.edu	37	chr20	35776241	35776241	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcctcctcagccaccttTtcctgtgggtccccacagag	6	9	9	17	0	1	1	1	0	0	1	4	1	4	1	7	1	2	1	7	1	0	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	35776241	T	G	35776241	3	3	188	1	0	0	0	0	1	0	0	0	2086	1838	64	5	2054	5	C20orf132	20	35776241	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	18298632	35776241	27249279	90	10497											
MYBL2	4605	broad.mit.edu;hgsc.bcm.edu	37	chr20	42343846	42343846	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacaacagcttgctcaacCagggcttcttgcaggccaag	12	7	10	12	0	2	1	1	0	1	1	2	1	2	1	2	2	5	4	2	2	4	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	42343846	C	T	42343846	4	4	188	1	0	0	0	0	0	1	0	0	10010	595	21	2	1947	2	MYBL2	20	42343846	Nonsense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10	6567605	42343846	20681674	91	10498											
ZNF70	7621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24086149	24086149	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggctttgccacactcgcaGgtgtagggcttcttgccggt	6	11	13	11	2	1	0	0	0	1	0	2	0	1	0	2	4	2	4	2	4	2	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	24086149	G	A	24086149	2	1	188	1	0	0	0	0	0	0	0	1	18102	987	35	2		2	ZNF70	22	24086149	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10		24086149	27218417	92	10499											
CRYBB2	1415	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	25617408	25617408	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccaccatggcctcagaTcaccagacccaggcgggcaa	11	4	10	16	1	2	2	2	0	0	2	3	2	3	2	5	3	0	1	5	3	1	0	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	25617408	T	G	25617408	3	3	188	1	0	0	0	0	1	0	0	0	3911	1432	50	5	14	5	CRYBB2	22	25617408	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	1531259	25617408	25687158	93	10500											
PICK1	9463	hgsc.bcm.edu;ucsc.edu	37	chr22	38469817	38469817	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagatggatgacgaggAatacagctgcattgtgagtg	13	8	16	4	1	0	3	0	2	0	1	0	8	0	5	0	3	3	2	0	3	3	2	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	38469817	A	T	38469817	3	4	188	1	0	0	0	0	1	0	0	0	11881	246	9	5	859	5	PICK1	22	38469817	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1361-10	12852409	38469817	12834749	94	10501											
NLGN4X	57502	hgsc.bcm.edu	37	chrX	5811180	5811180	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttctctggggactggggCgcctgtgagtctcatggcgc	3	12	16	10	2	2	1	1	1	2	0	4	2	2	2	1	5	0	1	1	5	0	1	rs4017999		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	5811180	C	T	5811180	3	4	188	1	0	0	0	0	1	0	0	0	10464	768	27	1	325	1	NLGN4X	23	5811180	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1361-10		5811180	149459380	95	10502											
GPR64	10149	hgsc.bcm.edu	37	chrX	19025373	19025373	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggctcgggttgatgtgctTtaatgtgactgtcacgtttc	5	16	12	8	2	1	2	1	2	0	0	3	2	1	2	0	2	1	4	0	2	1	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	19025373	T	G	19025373	3	3	188	1	0	0	0	0	1	0	0	0	6705	1850	64	5	1424	5	GPR64	23	19025373	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	13214193	19025373	136245187	96	10503											
AKAP4	8852	hgsc.bcm.edu;ucsc.edu	37	chrX	49957015	49957015	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgggcacgttaaactgggaGgctgcaatccactgcaggac	11	7	13	10	1	0	0	0	0	0	0	1	2	1	2	1	4	3	5	1	4	3	1	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		T	49957015	G	T	49957015	2	4	188	1	0	0	0	0	0	0	0	1	453	987	35	4		4	AKAP4	23	49957015	Silent	SNP	G	TCGA-B8-4622-01A-02D-1361-10	30931642	49957015	105313545	97	10504											
TCEAL5	340543	broad.mit.edu;hgsc.bcm.edu	37	chrX	102529072	102529072	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcatctcctcactgctCagatgcctttcttgtaagtc	7	15	5	14	0	6	1	4	0	2	1	8	1	6	1	2	0	2	2	2	0	1	3	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		A	102529072	C	A	102529072	2	1	188	1	0	0	0	0	0	0	0	1	15673	813	29	4		4	TCEAL5	23	102529072	Silent	SNP	C	TCGA-B8-4622-01A-02D-1361-10	52572057	102529072	52741488	98	10505											
ZNF75D	7626	hgsc.bcm.edu	37	chrX	134425421	134425421	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactcaggcaggatgagttTagatgccatcttccagtgtt	9	12	12	8	0	2	2	1	1	1	1	3	4	3	4	2	3	1	3	2	3	1	4	novel		TCGA-B8-4622-01A-02D-1361-10	TCGA-B8-4622-10A-01D-1361-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	fb4c8eeb-e522-4042-974d-3c71b1905f96	f8f9ddaa-4efc-4043-b8e2-71ff67801a9d		G	134425421	T	G	134425421	3	3	188	1	0	0	0	0	1	0	0	0	18133	1763	61	5	871	5	ZNF75D	23	134425421	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1361-10	31896349	134425421	20845139	99	10506											
PTPRF	5792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44070946	44070946	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcagcccaacacagagtactCgtttgtgctgatgaaccgtg	10	9	11	11	2	0	3	0	2	0	1	1	3	0	3	2	0	5	4	2	0	3	2	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	44070946	C	G	44070946	3	3	189	1	0	0	0	0	1	0	0	0	12803	893	31	4	3283	4	PTPRF	1	44070946	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08		44070946	205179675	1	10507											
VAX2	25806	broad.mit.edu	37	chr2	71160067	71160067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcccctagcctcctggcGctgacccctagcctgccagg	5	6	12	18	1	0	1	0	1	0	0	1	1	1	1	8	3	3	1	8	3	2	2	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		A	71160067	A	A	71160067	2	1	189	1	0	0	0	0	0	0	0	1	17134	1074	38	1		1	VAX2	2	71160067	Silent	SNP	G	TCGA-B8-4622-01A-02D-1553-08		71160067	172039306	2	10508											
IL1RL2	8808	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	102851636	102851636	+	Frame_Shift_Del	DEL	C	C	-																															gcagtcacagtgtatgaagaCcaagttttggaagacagtga																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	102851636	C	-	102851636	7	5	189	1	0	1	0	1	0	0	0	0	7664	507	18	0	1615	0	IL1RL2	2	102851636	Frame_Shift_Del	DEL	C	TCGA-B8-4622-01A-02D-1553-08	31691569	102851636	140347737	3	10509											
THSD7B	80731	hgsc.bcm.edu;ucsc.edu	37	chr2	137928375	137928375	+	Frame_Shift_Del	DEL	T	T	-																															cctgcagggcattgccctcaTttggtggagtctgttccttg																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	137928375	T	-	137928375	7	5	189	1	0	1	0	1	0	0	0	0	15879	1490	52	0	1519	0	THSD7B	2	137928375	Frame_Shift_Del	DEL	T	TCGA-B8-4622-01A-02D-1553-08	35076739	137928375	105270998	4	10510											
SCG2	7857	hgsc.bcm.edu;ucsc.edu	37	chr2	224463149	224463149	+	Frame_Shift_Del	DEL	G	G	-																															tggatgccaagctgccctgaGcgtttcatctcatcgttgat																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	224463149	G	-	224463149	7	5	189	1	0	1	0	1	0	0	0	0	13893	958	34	0	1005	0	SCG2	2	224463149	Frame_Shift_Del	DEL	G	TCGA-B8-4622-01A-02D-1553-08	86534774	224463149	18736224	5	10511											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47163990	47164005	+	Frame_Shift_Del	DEL	TTTGACCAAAGGGGAT	TTTGACCAAAGGGGAT	-																															tttgatgaaagcatgcatgcTttgaccaaaggggataattc																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	TTTGACCAAAGGGGAT	TTTGACCAAAGGGGAT	TTTGACCAAAGGGGAT	-	TTTGACCAAAGGGGAT	TTTGACCAAAGGGGAT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	47164005	TTTGACCAAAGGGGAT	-	47163990	7	5	189	1	0	1	0	1	0	0	0	0	14133	1606	56	0	5634	0	SETD2	3	47163990	Frame_Shift_Del	DEL	TTTGACCAAAGGGGAT	TCGA-B8-4622-01A-02D-1553-08		47163990	150858440	6	10512											
AMOTL2	51421	hgsc.bcm.edu	37	chr3	134079242	134079243	+	Frame_Shift_Ins	INS	-	-	C																															gccactgctaccacctggggINScacctgcctgtctctgcaga																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		C	134079243	-	C	134079242	7	5	189	1	0	1	1	0	0	0	0	0	584	1203	42	0	769	0	AMOTL2	3	134079242	Frame_Shift_Ins	INS	-	TCGA-B8-4622-01A-02D-1553-08	86915252	134079242	63943188	7	10513											
AADAC	13	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151545364	151545364	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaatcatcttgcttctcagCtccttgatgacccagatgtc	9	13	6	13	0	3	3	2	2	2	1	6	3	4	3	2	0	2	2	2	0	1	3	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	151545364	C	G	151545364	3	3	189	1	0	0	0	0	1	0	0	0	10	811	28	4	622	4	AADAC	3	151545364	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08	17466122	151545364	46477066	8	10514											
MECOM	2122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	168833806	168833806	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcttactttgtctttgaaCattttaccattttctttaaa	9	20	5	7	0	2	1	0	1	2	0	2	1	2	1	1	1	3	1	1	1	5	9	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		A	168833806	C	A	168833806	3	1	189	1	0	0	0	0	1	0	0	0	9422	478	17	4	1905	4	MECOM	3	168833806	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08	17288442	168833806	29188624	9	10515											
UGT2A3	79799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	69816847	69816847	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaaactgaaagcattgaaTtttttactctttccagaaag	16	13	5	7	0	1	3	0	2	1	1	2	3	2	3	1	0	3	1	1	0	6	5	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	69816847	T	G	69816847	3	3	189	1	0	0	0	0	1	0	0	0	16954	1493	52	5	975	5	UGT2A3	4	69816847	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1553-08		69816847	121337429	10	10516											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85742692	85742692	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgcaaaggcctggacgtttCtcacactgtgacctagaaca	11	9	9	12	1	1	2	1	1	1	1	2	3	1	3	2	2	2	2	2	2	3	2	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	85742692	C	G	85742692	3	3	189	1	0	0	0	0	1	0	0	0	17269	913	32	4	9719	4	WDFY3	4	85742692	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08	15925845	85742692	105411584	11	10517											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51799018	51799018	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgagctctgccttggaagGgcttgtcttcggatccaatc	6	13	11	11	1	3	1	0	1	3	0	6	3	4	3	2	3	2	2	2	3	2	3	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		A	51799018	G	A	51799018	3	1	189	1	0	0	0	0	1	0	0	0	11971	1232	43	2	6376	2	PKHD1	6	51799018	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1553-08		51799018	119316049	12	10518											
ABCB5	340273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	20682904	20682904	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcacgacagaccaagAggattcgaaaacagtttttt	14	9	9	9	2	0	2	0	0	0	2	1	5	0	3	1	1	3	3	1	1	3	4	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		C	20682904	A	C	20682904	2	2	189	1	0	0	0	0	0	0	0	1	44	295	11	5		5	ABCB5	7	20682904	Silent	SNP	A	TCGA-B8-4622-01A-02D-1553-08		20682904	138455759	13	10519											
PDE1C	5137	broad.mit.edu	37	chr7	32338297	32338304	+	Frame_Shift_Del	DEL	GGCGCTCC	-	-																															tagccatcgatgctgaaagtGgcgctccggcattttttgaa																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	GGCGCTCC	GGCGCTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	32338304	-	-	32338297	7	5	189	1	0	1	0	1	0	0	0	0	11635	1363	47	0		0	PDE1C	7	32338297	Frame_Shift_Del	DEL	GGCGCTCC	TCGA-B8-4622-01A-02D-1553-08	11655393	32338297	126800366	14	10520											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82595325	82595325	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaagtaagtcatgtttcTgttcttctggggctgatgtt	7	19	10	5	0	4	1	1	1	3	0	4	1	4	1	0	2	0	5	0	2	2	7	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		C	82595325	T	C	82595325	3	2	189	1	0	0	0	0	1	0	0	0	11583	1580	55	3	11754	3	PCLO	7	82595325	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1553-08	50257028	82595325	76543338	15	10521											
ZNF800	168850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127013660	127013660	+	Frame_Shift_Del	DEL	G	G	-																															gttttgcttcatccctcgaaGggcctctttttgccacttta																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	127013660	G	-	127013660	7	5	189	1	0	1	0	1	0	0	0	0	18168	1000	35	0	272	0	ZNF800	7	127013660	Frame_Shift_Del	DEL	G	TCGA-B8-4622-01A-02D-1553-08	44418335	127013660	32125003	16	10522											
AHCYL2	23382	broad.mit.edu	37	chr7	128865042	128865042	+	Frame_Shift_Del	DEL	C	-	-																															ggccgccgtgggcgccatggCccccccggcgggcggtggag																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	128865042	-	-	128865042	7	5	189	1	0	1	0	1	0	0	0	0	411	739	26	0	127	0	AHCYL2	7	128865042	Frame_Shift_Del	DEL	C	TCGA-B8-4622-01A-02D-1553-08	1851382	128865042	30273621	17	10523											
AGAP3	116988	broad.mit.edu	37	chr7	150825758	150825758	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgggctgctcacctatcAccccagcctgcatgtgagtc	8	8	9	16	1	2	1	2	1	0	0	3	1	2	1	4	1	4	3	4	1	2	1	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		C	150825758	C	C	150825758	3	2	189	1	0	0	0	0	1	0	0	0	369	159	6	5	1418	5	AGAP3	7	150825758	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1553-08	21960716	150825758	8312905	18	10524											
SLC22A11	55867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64337144	64337144	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacagcagatggcattcTgcatacagtgggccggctgg	9	8	15	9	1	1	2	0	1	1	1	1	3	1	2	1	4	3	4	1	4	1	2	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	64337144	T	G	64337144	3	3	189	1	0	0	0	0	1	0	0	0	14444	1580	55	5	1437	5	SLC22A11	11	64337144	Missense_Mutation	SNP	T	TCGA-B8-4622-01A-02D-1553-08		64337144	70669372	19	10525											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108196255	108196255	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctctatactggccagaaCtttcaagaacactcaggtaa	14	10	6	11	0	3	2	2	0	1	2	4	2	3	2	1	2	3	1	1	2	6	4	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		T	108196255	C	T	108196255	3	4	189	1	0	0	0	0	1	0	0	0	1109	565	20	2	6969	2	ATM	11	108196255	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08	43859111	108196255	26810261	20	10526											
LTA4H	4048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96414872	96414872	+	Frame_Shift_Del	DEL	A	A	-																															caaaagctcacctgctttctAaagctccaacaactaaagca																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	96414872	A	-	96414872	7	5	189	1	0	1	0	1	0	0	0	0	9069	372	13	0	1262	0	LTA4H	12	96414872	Frame_Shift_Del	DEL	A	TCGA-B8-4622-01A-02D-1553-08		96414872	37437023	21	10527											
GLT8D2	83468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104387219	104387219	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtggaatatttcccatgAaacacaatcagcattgggga	14	11	9	7	0	1	1	1	1	0	0	2	3	2	3	1	3	2	1	1	3	4	4	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		C	104387219	A	C	104387219	3	2	189	1	0	0	0	0	1	0	0	0	6470	243	9	5	226	5	GLT8D2	12	104387219	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1553-08	7972347	104387219	29464676	22	10528											
TDRD3	81550	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	61103273	61103273	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccagaaaaaatactagaAtcatctattcctatggagta	18	10	6	7	0	2	2	1	0	1	2	3	3	3	3	2	1	2	1	2	1	10	6	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	61103273	A	G	61103273	2	3	189	1	0	0	0	0	0	0	0	1	15731	98	4	3		3	TDRD3	13	61103273	Silent	SNP	A	TCGA-B8-4622-01A-02D-1553-08		61103273	54066605	23	10529											
FAM155A	728215	broad.mit.edu;ucsc.edu	37	chr13	108518837	108518837	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccagagacagtcgccatttCtgagccctctcggaatcgat	9	9	10	13	3	2	2	0	1	2	1	5	5	2	3	3	1	1	0	3	1	1	1	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	108518837	G	G	108518837	3	3	189	1	0	0	0	0	1	0	0	0	5465	912	32	4	1280	4	FAM155A	13	108518837	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08	47415564	108518837	6651041	24	10530											
ZFYVE26	23503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68234548	68234548	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggctttcattcttggagCtgtctagagctgagaagaga	10	11	14	6	0	3	3	1	1	2	3	3	7	3	4	0	2	2	3	0	2	2	4	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	68234548	C	G	68234548	3	3	189	1	0	0	0	0	1	0	0	0	17667	797	28	4	2004	4	ZFYVE26	14	68234548	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08		68234548	39114992	25	10531											
SLC27A2	11001	hgsc.bcm.edu	37	chr15	50474899	50474900	+	Frame_Shift_Ins	INS	-	-	T																															cggcgcagcaatcaagtggcINSccgggcgctgcacgaccacc																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		T	50474900	-	T	50474899	7	5	189	1	0	1	1	0	0	0	0	0	14528	739	26	0	277	0	SLC27A2	15	50474899	Frame_Shift_Ins	INS	-	TCGA-B8-4622-01A-02D-1553-08		50474899	52056493	26	10532											
IGDCC3	9543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65621770	65621770	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgctgcgctggccgggggGaacagctgctccagctcctt	4	8	14	15	2	0	0	0	0	0	0	2	1	2	1	4	4	6	5	4	4	1	1	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		T	65621770	G	T	65621770	3	4	189	1	0	0	0	0	1	0	0	0	7568	1165	41	4	289	4	IGDCC3	15	65621770	Missense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1553-08	15146871	65621770	36909622	27	10533											
TLE3	7090	hgsc.bcm.edu;ucsc.edu	37	chr15	70368448	70368448	+	Frame_Shift_Del	DEL	A	A	-																															gtcttacctcttgtgacaggAaaggcatgatctgtgctaaa																								novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		-	70368448	A	-	70368448	7	5	189	1	0	1	0	1	0	0	0	0	15939	246	9	0	2098	0	TLE3	15	70368448	Frame_Shift_Del	DEL	A	TCGA-B8-4622-01A-02D-1553-08	4746678	70368448	32162944	28	10534											
CCNF	899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2506955	2506955	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgttccccagcaacaggtGaagcggataaacctatgcat	13	8	10	10	1	0	1	0	1	0	0	1	2	1	2	3	2	5	3	3	2	5	3	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		A	2506955	G	A	2506955	2	1	189	1	0	0	0	0	0	0	0	1	2922	1277	45	2		2	CCNF	16	2506955	Silent	SNP	G	TCGA-B8-4622-01A-02D-1553-08		2506955	87847798	29	10535											
KIAA0174	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71961539	71961539	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacccaagccagaagcCtctgcaaagcttccttccag	10	7	8	16	0	1	1	0	0	1	1	3	2	3	2	6	1	4	2	6	1	3	2	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	71961539	C	G	71961539	3	3	189	1	0	0	0	0	1	0	0	0	8158	681	24	4	954	4	KIAA0174	16	71961539	Missense_Mutation	SNP	C	TCGA-B8-4622-01A-02D-1553-08	69454584	71961539	18393214	30	10536											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76506511	76506511	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccttgtccacgatgttgcgGacctcatcctcgtaactgtg	6	12	10	13	3	1	0	1	0	0	0	4	2	3	1	4	1	2	2	4	1	1	3	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		T	76506511	G	T	76506511	2	4	189	1	0	0	0	0	0	0	0	1	4601	1161	41	4		4	DNAH17	17	76506511	Silent	SNP	G	TCGA-B8-4622-01A-02D-1553-08		76506511	4688699	31	10537											
C20orf94	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	10604013	10604013	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaaaagaaagaaatacGaaagaggccattaacaccga	22	3	8	8	2	0	4	0	0	0	4	0	6	0	4	3	1	2	0	3	1	8	2	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		T	10604013	G	T	10604013	4	4	189	1	0	0	0	0	0	1	0	0	2121	1059	37	4	1239	4	C20orf94	20	10604013	Nonsense_Mutation	SNP	G	TCGA-B8-4622-01A-02D-1553-08		10604013	52421507	32	10538											
NEFH	4744	broad.mit.edu;hgsc.bcm.edu	37	chr22	29879399	29879399	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggaggcagccaaggtgAacacagacgctatgcgctca	11	6	13	11	3	1	2	1	1	0	1	2	3	1	3	1	3	3	3	1	3	3	1	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	29879399	A	G	29879399	3	3	189	1	0	0	0	0	1	0	0	0	10314	246	9	3	925	3	NEFH	22	29879399	Missense_Mutation	SNP	A	TCGA-B8-4622-01A-02D-1553-08		29879399	21425167	33	10539											
KLF8	11279	broad.mit.edu	37	chrX	56310756	56310756	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctttttaggagagaagccTtataaatgcacctgggatgg	11	11	11	8	0	0	1	0	0	0	1	0	4	0	3	3	3	2	1	3	3	5	5	novel		TCGA-B8-4622-01A-02D-1553-08	TCGA-B8-4622-11A-01D-1553-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9713397b-0a7c-4fc6-a7b3-042a56d11d1e	153d19e5-72d1-478f-818e-42cc4ac138e2		G	56310756	G	G	56310756	2	3	189	1	0	0	0	0	0	0	0	1	8352	1606	56	5		5	KLF8	23	56310756	Silent	SNP	T	TCGA-B8-4622-01A-02D-1553-08		56310756	98959804	34	10540											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16257994	16257994	+	Silent	SNP	T	T	C																															agcaacgtagatccagagccTgacagtacccagccactttc																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	16257994	T	C	16257994	2	2	190	1	0	0	0	0	0	0	0	1	15039	1567	55	3		3	SPEN	1	16257994	Silent	SNP	T	TCGA-B8-5158-01A-01D-1421-08		16257994	232992627	1	10541	160	2									
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16257995	16257995	+	Missense_Mutation	SNP	G	G	A																															gcaacgtagatccagagcctGacagtacccagccactttca																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	16257995	G	A	16257995	3	1	190	1	0	0	0	0	1	0	0	0	15039	1290	45	2	5302	2	SPEN	1	16257995	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	1	16257995	232992626	2	10542	160	2									
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16262076	16262076	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcacctacagcatccggcCagaagcgcttcactctcctc	9	9	6	17	2	3	1	2	0	1	1	6	1	4	1	4	1	3	2	4	1	3	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	16262076	C	G	16262076	3	3	190	1	0	0	0	0	1	0	0	0	15039	594	21	4	9383	4	SPEN	1	16262076	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	4081	16262076	232988545	3	10543											
BSDC1	55108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32842063	32842063	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacccacatccacagccAggccctgttcctccaaggat	9	8	6	18	0	1	0	1	0	1	0	5	1	4	1	6	2	1	1	6	2	1	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	32842063	A	T	32842063	3	4	190	1	0	0	0	0	1	0	0	0	1528	188	7	5	348	5	BSDC1	1	32842063	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08	16579987	32842063	216408558	4	10544											
EPHA10	284656	broad.mit.edu;hgsc.bcm.edu	37	chr1	38192872	38192872	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggggctctggtccctggaCcctgaggcagctgggaggaa	6	6	18	11	1	1	1	0	1	1	0	2	4	2	4	2	7	1	3	2	7	1	0	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	38192872	C	A	38192872	2	1	190	1	0	0	0	0	0	0	0	1	5166	494	18	4		4	EPHA10	1	38192872	Silent	SNP	C	TCGA-B8-5158-01A-01D-1421-08	5350809	38192872	211057749	5	10545											
FAM73A	374986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78325069	78325069	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtattcgacaggcttttCaggtatttttttaacattaa	11	18	6	6	1	1	0	1	0	0	0	2	1	1	0	0	2	1	3	0	2	4	10	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	78325069	C	A	78325069	3	1	190	1	0	0	0	0	1	0	0	0	5617	827	29	4	1224	4	FAM73A	1	78325069	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	40132197	78325069	170925552	6	10546											
S100A10	6281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151955649	151955649	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatttctgcctacttctttCccttctgcttcatgtgtact	4	20	4	13	0	5	0	2	0	3	0	6	0	6	0	2	0	4	2	2	0	2	7	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	151955649	C	A	151955649	3	1	190	1	0	0	0	0	1	0	0	0	13774	855	30	4	13	4	S100A10	1	151955649	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	73630580	151955649	97294972	7	10547											
FLG	2312	broad.mit.edu;hgsc.bcm.edu	37	chr1	152283060	152283060	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagaccttgaacgtccagaGctttcccctgactggccacg	10	8	9	14	2	0	4	0	2	0	2	2	4	2	4	5	1	2	1	5	1	2	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	152283060	G	T	152283060	3	4	190	1	0	0	0	0	1	0	0	0	5922	962	34	4	7887	4	FLG	1	152283060	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	327411	152283060	96967561	8	10548											
COPA	1314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160261217	160261217	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagcttgaagaacagatTgagggctgtacgcagcacca	12	8	12	9	1	0	5	0	3	0	2	0	5	0	5	1	1	4	5	1	1	3	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	160261217	T	C	160261217	3	2	190	1	0	0	0	0	1	0	0	0	3727	1812	63	3	358	3	COPA	1	160261217	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	7978157	160261217	88989404	9	10549											
FAM5B	57795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	177199237	177199237	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagtatgctgacttcatGgagcggtaccgccagggttt	8	10	14	9	2	1	1	1	1	0	0	1	3	1	3	2	4	3	4	2	4	2	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	177199237	G	T	177199237	3	4	190	1	0	0	0	0	1	0	0	0	5593	1348	47	4	227	4	FAM5B	1	177199237	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	16938020	177199237	72051384	10	10550											
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183204764	183204764	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagggaaactgaggactaTtccaaacaagccctctcact	15	7	7	12	0	1	1	1	1	1	0	3	3	2	3	2	2	3	0	2	2	5	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	183204764	T	G	183204764	4	3	190	1	0	0	0	0	0	1	0	0	8615	1500	52	5	2417	5	LAMC2	1	183204764	Nonsense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	6005527	183204764	66045857	11	10551											
PRKD3	23683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	37486752	37486752	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatggctctgctgatgcaaGcagcacattttctggcttta	10	13	9	9	0	2	1	0	1	2	0	2	1	2	1	0	2	4	6	0	2	3	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	37486752	G	T	37486752	3	4	190	1	0	0	0	0	1	0	0	0	12522	971	34	4	569	4	PRKD3	2	37486752	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08		37486752	205712621	12	10552											
RIF1	55183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152300220	152300220	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattaactgaattgattaaTcaggtatgaaataaatctgc	16	13	6	6	0	2	3	1	3	1	0	2	3	2	3	1	1	2	1	1	1	7	5	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	152300220	T	G	152300220	3	3	190	1	0	0	0	0	1	0	0	0	13361	1432	50	5	2049	5	RIF1	2	152300220	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	114813468	152300220	90899153	13	10553											
C2orf62	375307	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219232614	219232614	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtccgtcgtcaccggcctTgggctcctcccaccggccca	3	7	11	20	5	1	0	1	0	0	0	5	0	4	0	7	3	0	1	7	3	0	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	219232614	T	G	219232614	3	3	190	1	0	0	0	0	1	0	0	0	2181	1821	63	5	1129	5	C2orf62	2	219232614	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	66932394	219232614	23966759	14	10554											
HDLBP	3069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	242179325	242179325	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccgctccctaccaggttttgGatcaaggcctccagctcctt	6	11	8	16	1	1	0	1	0	0	0	4	1	4	1	6	3	2	3	6	3	2	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	242179325	G	A	242179325	2	1	190	1	0	0	0	0	0	0	0	1	7025	1164	41	2		2	HDLBP	2	242179325	Silent	SNP	G	TCGA-B8-5158-01A-01D-1421-08	22946711	242179325	1020048	15	10555											
PBRM1	55193	broad.mit.edu	37	chr3	52678806	52678806	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaattgaatttgcatcCtgtcaagataaaattacttg	13	18	5	5	0	1	2	1	1	0	1	2	2	2	2	1	0	2	1	1	0	6	8	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	52678806	T	T	52678806	5	4	190	1	0	0	0	0	0	0	1	0	11491	695	24	2	4179	2	PBRM1	3	52678806	Splice_Site	SNP	C	TCGA-B8-5158-01A-01D-1421-08		52678806	145343624	16	10556											
LRIG1	26018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	66502055	66502055	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactcattattattgaggTacctgtaacaacaacaagaa	17	11	5	8	0	2	2	2	1	0	1	2	2	2	2	1	1	5	2	1	1	9	5	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	66502055	T	C	66502055	3	2	190	1	0	0	0	0	1	0	0	0	8944	1638	57	3	3056	3	LRIG1	3	66502055	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	13823249	66502055	131520375	17	10557											
GTF2E1	2960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	120495384	120495384	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatacactcagaatgttgtCattaacatggatgaccaaga	15	12	7	7	0	2	3	2	1	0	2	2	4	2	4	1	1	2	1	1	1	5	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	120495384	C	T	120495384	2	4	190	1	0	0	0	0	0	0	0	1	6856	813	29	2		2	GTF2E1	3	120495384	Silent	SNP	C	TCGA-B8-5158-01A-01D-1421-08	53993329	120495384	77527046	18	10558											
NAF1	92345	broad.mit.edu;ucsc.edu	37	chr4	164050358	164050358	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagttatagaaatgctgAggtggaggcctgccatggca	10	10	14	7	0	1	3	0	2	1	1	1	4	1	4	2	4	2	3	2	4	3	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	164050358	G	G	164050358	2	3	190	1	0	0	0	0	0	0	0	1	10140	291	11	3		3	NAF1	4	164050358	Silent	SNP	A	TCGA-B8-5158-01A-01D-1421-08		164050358	27103918	19	10559											
TRIM23	373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64907630	64907630	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgagtaacttgagaacactCagagcacaaatgagttgcac	16	8	9	8	0	1	4	1	3	0	2	1	5	1	4	0	0	4	4	0	0	3	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	64907630	C	G	64907630	3	3	190	1	0	0	0	0	1	0	0	0	16496	835	29	4	1378	4	TRIM23	5	64907630	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08		64907630	116007630	20	10560											
PCDHB13	56123	broad.mit.edu;hgsc.bcm.edu	37	chr5	140594137	140594137	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgaaagtatcagagagcagtCctcctgggactacgtttcct	10	11	10	10	1	1	2	1	1	0	1	4	4	4	3	3	1	2	3	3	1	3	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	140594137	C	T	140594137	3	4	190	1	0	0	0	0	1	0	0	0	11538	855	30	2	444	2	PCDHB13	5	140594137	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	75686507	140594137	40321123	21	10561											
CAGE1	285782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7373597	7373597	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaattcctcctgtaaagaCaagaactcttgttcttgggc	10	13	9	9	0	2	2	0	0	2	2	4	3	4	3	2	2	1	2	2	2	5	5	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	7373597	C	A	7373597	3	1	190	1	0	0	0	0	1	0	0	0	2572	477	17	4	1210	4	CAGE1	6	7373597	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08		7373597	163741470	22	10562											
HIST1H2AM	8336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27860781	27860781	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccgccgccaggtaaacCggcgcgccggccccgacccg	7	1	13	20	8	0	0	0	0	0	0	0	1	0	0	8	3	2	2	8	3	2	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	27860781	C	G	27860781	2	3	190	1	0	0	0	0	0	0	0	1	7139	639	23	4		4	HIST1H2AM	6	27860781	Silent	SNP	C	TCGA-B8-5158-01A-01D-1421-08	20487184	27860781	143254286	23	10563											
OR2H2	7932	hgsc.bcm.edu	37	chr6	29555969	29555969	+	Frame_Shift_Del	DEL	T	T	-																															tccccaaatgctggtcaaccTctggggcccaaagaagacca																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		-	29555969	T	-	29555969	7	5	190	1	0	1	0	1	0	0	0	0	11002	1551	54	0	250	0	OR2H2	6	29555969	Frame_Shift_Del	DEL	T	TCGA-B8-5158-01A-01D-1421-08	1695188	29555969	141559098	24	10564											
RNF216	54476	broad.mit.edu	37	chr7	5752486	5752486	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgccttccatgcagctGagctccaactagaaaaaggc	12	7	9	13	0	0	2	0	1	0	1	2	2	2	2	3	1	6	4	3	1	4	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	5752486	T	T	5752486	2	4	190	1	0	0	0	0	0	0	0	1	13482	1277	45	4		4	RNF216	7	5752486	Silent	SNP	G	TCGA-B8-5158-01A-01D-1421-08		5752486	153386177	25	10565											
CCDC129	223075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	31682989	31682989	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctcattccccacctccatAaactgcctggagatcctgcc	9	9	6	17	0	1	1	1	0	0	1	4	2	4	1	7	1	4	1	7	1	2	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	31682989	A	G	31682989	3	3	190	1	0	0	0	0	1	0	0	0	2764	363	13	3	2043	3	CCDC129	7	31682989	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08	25930503	31682989	127455674	26	10566											
ZMIZ2	83637	broad.mit.edu	37	chr7	44801378	44801378	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcctcggtgcaggtcagCgtcaatgccacgccgctcac	7	6	11	17	4	3	0	3	0	0	0	4	0	3	0	4	2	4	2	4	2	1	0	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	44801378	G	G	44801378	3	3	190	1	0	0	0	0	1	0	0	0	17696	767	27	4	1508	4	ZMIZ2	7	44801378	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	13118389	44801378	114337285	27	10567											
CFTR	1080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117199625	117199625	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctggattatgcctggCaccattaaagaaaatatcat	13	14	6	8	0	1	1	1	0	0	1	2	2	2	2	3	2	1	1	3	2	6	5	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	117199625	C	A	117199625	2	1	190	1	0	0	0	0	0	0	0	1	3294	697	25	4		4	CFTR	7	117199625	Silent	SNP	C	TCGA-B8-5158-01A-01D-1421-08	72398247	117199625	41939038	28	10568											
ZNF398	57541	broad.mit.edu	37	chr7	148876816	148876816	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataactgggcttgaaactTctggcctgggtgtcaacact	9	12	10	10	0	3	1	2	1	1	0	3	1	3	1	1	3	3	1	1	3	3	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	148876816	A	A	148876816	3	1	190	1	0	0	0	0	1	0	0	0	17884	1783	62	5	1874	5	ZNF398	7	148876816	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	31677191	148876816	10261847	29	10569											
AGAP3	116988	broad.mit.edu;hgsc.bcm.edu	37	chr7	150784022	150784022	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcagttcgcgctctccaActccgcggccatccgggccg	5	6	11	19	6	1	0	0	0	1	0	5	0	3	0	6	2	2	3	6	2	1	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	150784022	A	C	150784022	3	2	190	1	0	0	0	0	1	0	0	0	369	43	2	5	196	5	AGAP3	7	150784022	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08	1907206	150784022	8354641	30	10570											
CHPF2	54480	hgsc.bcm.edu	37	chr7	150934826	150934827	+	Frame_Shift_Ins	INS	-	-	G																															gacacagcgtgggcaccggcINSgggccctggctcgcagggtc																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	150934827	-	G	150934826	7	5	190	1	0	1	1	0	0	0	0	0	3369	759	27	0	1392	0	CHPF2	7	150934826	Frame_Shift_Ins	INS	-	TCGA-B8-5158-01A-01D-1421-08	150804	150934826	8203837	31	10571											
CNTNAP3	79937	broad.mit.edu	37	chr9	39085772	39085772	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagatttgacggcgttgaAttctgtccctgaggacaaga	11	10	13	7	2	1	5	0	3	1	2	2	8	2	6	1	2	0	1	1	2	2	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	39085772	C	C	39085772	3	2	190	1	0	0	0	0	1	0	0	0	3648	101	4	5	479	5	CNTNAP3	9	39085772	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08		39085772	102127659	32	10572											
LAMC3	10319	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133911635	133911635	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccagcacaacaccaccGgcacagactgtgagcgctgc	10	4	12	15	2	0	2	0	1	0	1	0	2	0	2	3	2	5	3	3	2	1	0	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	133911635	G	C	133911635	3	2	190	1	0	0	0	0	1	0	0	0	8616	1116	39	4	906	4	LAMC3	9	133911635	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	94825863	133911635	7301796	33	10573											
GRIN1	2902	broad.mit.edu	37	chr9	140040311	140040311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccacgagggccgggcggCtcagaaacgcctggagacgc	9	2	16	14	6	1	2	1	0	0	2	1	5	1	2	3	4	1	1	3	4	1	0	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	140040311	T	T	140040311	3	4	190	1	0	0	0	0	1	0	0	0	6778	797	28	2	537	2	GRIN1	9	140040311	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	6128676	140040311	1173120	34	10574											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	375466	375466	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggactttgtactgactcacGgcaagaagccacaaggcggg	11	6	13	11	3	1	2	1	1	0	1	1	3	1	3	1	4	2	2	1	4	4	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	375466	G	C	375466	2	2	190	1	0	0	0	0	0	0	0	1	4529	1103	39	4		4	DIP2C	10	375466	Silent	SNP	G	TCGA-B8-5158-01A-01D-1421-08		375466	135159281	35	10575											
NMT2	9397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	15154856	15154856	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcgtctctgtgtggatgTtgtagaatgagtaggcggct	6	12	18	5	2	1	2	0	1	1	1	2	3	1	3	0	5	0	4	0	5	3	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	15154856	T	C	15154856	3	2	190	1	0	0	0	0	1	0	0	0	10504	1725	60	3	231	3	NMT2	10	15154856	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	14779390	15154856	120379891	36	10576											
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89717762	89717762	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcttccacaaacagaacAagatgctaaaaaaggtttgt	17	10	7	7	0	1	2	0	0	1	2	2	2	2	2	1	1	3	3	1	1	6	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	89717762	A	T	89717762	4	4	190	1	0	0	0	0	0	1	0	0	12740	131	5	5	813	5	PTEN	10	89717762	Nonsense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08	74562906	89717762	45816985	37	10577											
B4GALNT4	338707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	372684	372684	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggtcgggacctagacaTgctgtttcctgggggggctg	6	9	17	9	2	0	1	0	0	0	1	2	3	1	2	2	5	1	3	2	5	2	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	372684	T	C	372684	3	2	190	1	0	0	0	0	1	0	0	0	1269	1464	51	3	288	3	B4GALNT4	11	372684	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08		372684	134633832	38	10578											
VPS11	55823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118940211	118940211	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccactctgcactcgaatcttCcctgctattccaggaacaga	10	10	6	15	1	2	1	0	0	2	1	5	3	4	2	3	1	3	2	3	1	3	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	118940211	C	G	118940211	3	3	190	1	0	0	0	0	1	0	0	0	17187	854	30	4	405	4	VPS11	11	118940211	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	118567527	118940211	16066305	39	10579											
TSPAN31	6302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58140428	58140428	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaagactcgggatgaactGgaaagaagttttgattgttg	14	11	12	4	1	0	4	0	2	0	2	1	6	0	6	0	2	2	2	0	2	5	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	58140428	G	C	58140428	2	2	190	1	0	0	0	0	0	0	0	1	16645	1335	47	4		4	TSPAN31	12	58140428	Silent	SNP	G	TCGA-B8-5158-01A-01D-1421-08		58140428	75711467	40	10580											
CDK8	1024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	26974672	26974672	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctatttcttagaagaccCacttcctacatcagagtaag	12	11	5	13	0	2	3	1	0	1	3	3	3	3	3	4	0	1	1	4	0	5	6	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	26974672	C	T	26974672	3	4	190	1	0	0	0	0	1	0	0	0	3150	594	21	2	1054	2	CDK8	13	26974672	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08		26974672	88195206	41	10581											
BIVM	54841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103474191	103474191	+	Missense_Mutation	SNP	T	T	C																															tttcacggggaatacaacacTtatgaggtatgaagaccctc																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	103474191	T	C	103474191	3	2	190	1	0	0	0	0	1	0	0	0	1441	1609	56	3	814	3	BIVM	13	103474191	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	76499519	103474191	11695687	42	10582	161	2									
BIVM	54841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103474193	103474193	+	Missense_Mutation	SNP	A	A	T																															tcacggggaatacaacacttAtgaggtatgaagaccctctt																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	103474193	A	T	103474193	3	4	190	1	0	0	0	0	1	0	0	0	1441	449	16	5	816	5	BIVM	13	103474193	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08	2	103474193	11695685	43	10583	161	2									
SALL2	6297	broad.mit.edu	37	chr14	21992408	21992408	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcaggctctctgtggcaCtgagtgctgttgtggaggcc	5	11	16	9	0	2	1	1	1	1	0	3	3	2	2	1	4	1	4	1	4	0	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	21992408	A	A	21992408	3	1	190	1	0	0	0	0	1	0	0	0	13813	565	20	4	1573	4	SALL2	14	21992408	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08		21992408	85357132	44	10584											
FSCB	84075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	44975274	44975274	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aattctccgcaactgcagtgGctgcctcagcatcaggagtc	9	9	10	13	1	3	0	2	0	1	0	5	1	3	1	2	2	4	4	2	2	2	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	44975274	G	T	44975274	3	4	190	1	0	0	0	0	1	0	0	0	6066	1203	42	4	1564	4	FSCB	14	44975274	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	22982866	44975274	62374266	45	10585											
NEO1	4756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	73590937	73590937	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcattgccaagcacaccaTtactgtcccagcaaggtgag	11	8	9	13	0	0	1	0	1	0	0	1	1	1	1	3	1	5	3	3	1	3	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	73590937	T	C	73590937	2	2	190	1	0	0	0	0	0	0	0	1	10336	1490	52	3		3	NEO1	15	73590937	Silent	SNP	T	TCGA-B8-5158-01A-01D-1421-08		73590937	28940455	46	10586											
BCL2A1	597	broad.mit.edu;hgsc.bcm.edu	37	chr15	80253472	80253472	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgtaacttctagaaaagtCatccagccagatttaggttc	12	12	7	10	0	2	2	1	0	1	2	4	2	3	2	3	1	2	2	3	1	5	6	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	80253472	C	T	80253472	3	4	190	1	0	0	0	0	1	0	0	0	1366	826	29	2	66	2	BCL2A1	15	80253472	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	6662535	80253472	22277920	47	10587											
FOXC2	2303	broad.mit.edu	37	chr16	86601069	86601069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccatgggcgtctattccgGccacccggagcagtacagcg	7	6	12	16	4	1	0	0	0	1	0	2	1	2	1	5	3	3	2	5	3	2	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	86601069	A	A	86601069	3	1	190	1	0	0	0	0	1	0	0	0	5995	1203	42	2	130	2	FOXC2	16	86601069	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08		86601069	3753684	48	10588											
NUP88	4927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5290385	5290385	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtctcgctcactatcagaGagaactgggagctcagagtg	11	9	12	9	1	4	3	3	0	1	3	5	5	4	4	0	1	2	2	0	1	2	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	5290385	G	A	5290385	3	1	190	1	0	0	0	0	1	0	0	0	10771	929	33	2	275	2	NUP88	17	5290385	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08		5290385	75904825	49	10589											
TMEM102	284114	broad.mit.edu	37	chr17	7340786	7340786	+	Frame_Shift_Del	DEL	G	-	-																															gaggccaaagtggcccgcaaGgggggcggtttggcgggcgt																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		-	7340786	-	-	7340786	7	5	190	1	0	1	0	1	0	0	0	0	16016	991	35	0	1494	0	TMEM102	17	7340786	Frame_Shift_Del	DEL	G	TCGA-B8-5158-01A-01D-1421-08	2050401	7340786	73854424	50	10590											
MYH2	4620	broad.mit.edu;hgsc.bcm.edu	37	chr17	10426861	10426861	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcccacccttcagggccagCtgctcagcctcatccagacg	7	8	8	18	1	3	1	3	0	0	1	5	1	5	1	5	1	3	2	5	1	0	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	10426861	C	A	10426861	3	1	190	1	0	0	0	0	1	0	0	0	10035	796	28	4	417	4	MYH2	17	10426861	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	3086075	10426861	70768349	51	10591											
NLE1	54475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33464021	33464021	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccctcccagcacttacgTcatgagctctccagactttg	9	10	7	15	1	2	2	1	1	1	1	4	3	3	2	3	0	4	2	3	0	2	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	33464021	T	G	33464021	3	3	190	1	0	0	0	0	1	0	0	0	10460	1681	58	5	658	5	NLE1	17	33464021	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08	23037160	33464021	47731189	52	10592											
SEPT4	5414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56603081	56603081	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaccaagaagtttccggtcCcggtacagatcagtgaggaa	12	7	12	10	2	1	3	1	1	0	2	3	4	3	4	3	3	1	3	3	3	4	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	56603081	C	A	56603081	2	1	190	1	0	0	0	0	0	0	0	1	14068	610	22	4		4	SEPT4	17	56603081	Silent	SNP	C	TCGA-B8-5158-01A-01D-1421-08	23139060	56603081	24592129	53	10593											
KIAA0195	9772	broad.mit.edu;hgsc.bcm.edu	37	chr17	73485346	73485346	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacagtcacttctttctgcaGatggtgcctggacatggccc	7	11	11	12	0	3	1	1	0	2	1	3	3	3	2	2	3	2	1	2	3	0	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	73485346	G	A	73485346	5	1	190	1	0	0	0	0	0	0	1	0	8160	956	33	2	790	2	KIAA0195	17	73485346	Splice_Site	SNP	G	TCGA-B8-5158-01A-01D-1421-08	16882265	73485346	7709864	54	10594											
MYO5B	4645	broad.mit.edu;hgsc.bcm.edu	37	chr18	47432966	47432966	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcctgctcgaaagaagAtcttggtgcggccaaactgg	9	8	13	11	2	1	2	0	0	1	2	2	3	1	2	3	4	3	1	3	4	3	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	47432966	A	T	47432966	3	4	190	1	0	0	0	0	1	0	0	0	10079	333	12	5	3397	5	MYO5B	18	47432966	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08		47432966	30644282	55	10595											
ZNF407	55628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72346178	72346178	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaggcatgcagcaacagAgaagcacaaaatgaaaaggc	19	2	11	9	0	0	2	0	1	0	1	0	4	0	2	1	2	4	4	1	2	6	0	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	72346178	A	C	72346178	3	2	190	1	0	0	0	0	1	0	0	0	17886	304	11	5	3205	5	ZNF407	18	72346178	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08	24913212	72346178	5731070	56	10596											
ZNF491	126069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11917136	11917136	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcattcgaagatatatggTaacgcacagtggagatggac	15	8	12	6	2	0	2	0	0	0	2	1	5	0	3	0	3	2	3	0	3	5	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		A	11917136	T	A	11917136	3	1	190	1	0	0	0	0	1	0	0	0	17941	1638	57	5	370	5	ZNF491	19	11917136	Missense_Mutation	SNP	T	TCGA-B8-5158-01A-01D-1421-08		11917136	47211847	57	10597											
MACROD2	140733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	15967789	15967789	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagaggaccaagaagaaaAagaaggtgaaaaaggtagga	23	2	13	3	0	0	5	0	1	0	4	0	7	0	7	1	4	1	1	1	4	9	1	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	15967789	A	C	15967789	3	2	190	1	0	0	0	0	1	0	0	0	9146	14	1	5	1197	5	MACROD2	20	15967789	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08		15967789	47057731	58	10598											
MYBL2	4605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	42344673	42344673	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcaggagaaagcccggcaGctcctgggccgcctgaagcc	9	4	14	14	2	0	2	0	1	0	1	1	3	1	2	5	3	4	3	5	3	2	0	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	42344673	G	T	42344673	3	4	190	1	0	0	0	0	1	0	0	0	10010	962	34	4	2103	4	MYBL2	20	42344673	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	26376884	42344673	20680847	59	10599											
ZFP64	55734	hgsc.bcm.edu;ucsc.edu	37	chr20	50776871	50776871	+	Frame_Shift_Del	DEL	C	C	-																															ttttcagcttgtctttccggCtaaagcacttgccacagact																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		-	50776871	C	-	50776871	7	5	190	1	0	1	0	1	0	0	0	0	17651	797	28	0	2690	0	ZFP64	20	50776871	Frame_Shift_Del	DEL	C	TCGA-B8-5158-01A-01D-1421-08	8432198	50776871	12248649	60	10600											
LAMA5	3911	broad.mit.edu;hgsc.bcm.edu	37	chr20	60921136	60921136	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccctggcaggtgctcaCggtagcagcttgggaagccc	7	7	14	13	1	1	0	1	0	0	0	1	1	1	1	3	4	5	5	3	4	2	2	rs112620160	alternate_allele	TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	60921136	C	T	60921136	5	4	190	1	0	0	0	0	0	0	1	0	8609	550	19	1	9953	1	LAMA5	20	60921136	Splice_Site	SNP	C	TCGA-B8-5158-01A-01D-1421-08	10144265	60921136	2104384	61	10601											
EP300	2033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41574794	41574794	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaggccaaccccatggAacaagggcattttgccagcc	10	6	10	15	0	0	0	0	0	0	0	0	1	0	1	6	3	5	1	6	3	3	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		G	41574794	A	G	41574794	3	3	190	1	0	0	0	0	1	0	0	0	5148	246	9	3	7201	3	EP300	22	41574794	Missense_Mutation	SNP	A	TCGA-B8-5158-01A-01D-1421-08		41574794	9729772	62	10602											
SREBF2	6721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42273293	42273293	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtagaccgctcacggattCttctgtgtgtcctcaccttc	5	14	9	13	2	4	1	2	0	2	1	6	2	5	2	3	2	0	2	3	2	1	4	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		T	42273293	C	T	42273293	3	4	190	1	0	0	0	0	1	0	0	0	15143	913	32	2	1477	2	SREBF2	22	42273293	Missense_Mutation	SNP	C	TCGA-B8-5158-01A-01D-1421-08	698499	42273293	9031273	63	10603											
FBLN1	2192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45937233	45937233	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggctaccatctcaacgaGgagggaacgcgctgtgttgg	8	8	15	10	4	1	0	1	0	1	0	2	3	1	2	1	4	3	3	1	4	3	2	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	45937233	G	C	45937233	3	2	190	1	0	0	0	0	1	0	0	0	5698	991	35	4	1081	4	FBLN1	22	45937233	Missense_Mutation	SNP	G	TCGA-B8-5158-01A-01D-1421-08	3663940	45937233	5367333	64	10604											
SBF1	6305	broad.mit.edu;hgsc.bcm.edu	37	chr22	50903272	50903272	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtagagctgctctgccagTtcctggacgtgacgcaggac	7	10	13	11	2	1	2	0	1	1	1	2	4	2	4	2	2	3	5	2	2	1	3	novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		C	50903272	T	C	50903272	2	2	190	1	0	0	0	0	0	0	0	1	13860	1722	60	3		3	SBF1	22	50903272	Silent	SNP	T	TCGA-B8-5158-01A-01D-1421-08	4966039	50903272	401294	65	10605											
RBMX	27316	hgsc.bcm.edu	37	chrX	135961587	135961587	+	Frame_Shift_Del	DEL	G	G	-																															gggcgatctgcttcaaccatGtttttttttttttgggccgg																								novel		TCGA-B8-5158-01A-01D-1421-08	TCGA-B8-5158-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9d730534-98e7-464e-945c-5964cec5362a	696dff10-52f1-4ab8-8d28-7b33864e1cea		-	135961587	G	-	135961587	7	5	190	1	0	1	0	1	0	0	0	0	13153	1392	48	0	1262	0	RBMX	23	135961587	Frame_Shift_Del	DEL	G	TCGA-B8-5158-01A-01D-1421-08		135961587	19308973	66	10606											
RERE	473	broad.mit.edu	37	chr1	8420358	8420358	+	Frame_Shift_Del	DEL	C	-	-																															ctgaagccgccgcaccagagCagggtggctgggccgaggtg																								novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		-	8420358	-	-	8420358	7	5	191	1	0	1	0	1	0	0	0	0	13233	710	25	0	1515	0	RERE	1	8420358	Frame_Shift_Del	DEL	C	TCGA-B8-5159-01A-01D-1421-08		8420358	240830263	1	10607											
MRPS15	64960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36926350	36926350	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaatcttcttcataaactGttcttgcttgatttttagca	11	18	4	8	0	4	1	1	1	3	0	4	1	4	1	0	0	4	3	0	0	5	9	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	36926350	G	A	36926350	4	1	191	1	0	0	0	0	0	1	0	0	9825	1386	48	2	461	2	MRPS15	1	36926350	Nonsense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	28505992	36926350	212324271	2	10608											
C1orf123	54987	broad.mit.edu;hgsc.bcm.edu	37	chr1	53686011	53686011	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtggctttgagttgcagcgcGattttctgagggggagggcc	5	11	18	7	2	1	2	0	2	1	0	1	4	1	3	1	4	2	3	1	4	0	4	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	53686011	G	C	53686011	3	2	191	1	0	0	0	0	1	0	0	0	1991	1048	37	4	498	4	C1orf123	1	53686011	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	16759661	53686011	195564610	3	10609											
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62330119	62330119	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttatatcaagatccctcAccatccatggagttgtatcc	11	12	7	11	0	2	1	2	0	0	1	5	3	5	2	4	1	0	3	4	1	4	4	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	62330119	A	G	62330119	2	3	191	1	0	0	0	0	0	0	0	1	7731	146	6	3		3	INADL	1	62330119	Silent	SNP	A	TCGA-B8-5159-01A-01D-1421-08	8644108	62330119	186920502	4	10610											
LRRC40	55631	broad.mit.edu;hgsc.bcm.edu	37	chr1	70671195	70671195	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaccagcgcggagatccTgccccgctatccgcttcagg	8	7	11	15	4	1	2	1	1	0	1	3	3	3	2	5	2	3	2	5	2	2	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	70671195	T	C	70671195	3	2	191	1	0	0	0	0	1	0	0	0	8998	1580	55	3	1839	3	LRRC40	1	70671195	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	8341076	70671195	178579426	5	10611											
THEM5	284486	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151820729	151820729	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaggcagttttagaaaaggtCtcgtccatcatggctgccag	11	10	11	9	1	2	1	1	0	1	1	4	1	3	1	2	3	1	3	2	3	4	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	151820729	C	G	151820729	3	3	191	1	0	0	0	0	1	0	0	0	15858	912	32	4	251	4	THEM5	1	151820729	Missense_Mutation	SNP	C	TCGA-B8-5159-01A-01D-1421-08	81149534	151820729	97429892	6	10612											
PAPPA2	60676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	176738772	176738772	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgctcacatgttcttctggGcactgggaccagaatgtgag	8	11	12	10	0	3	2	1	1	2	1	3	3	3	3	1	2	1	3	1	2	1	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	176738772	G	C	176738772	2	2	191	1	0	0	0	0	0	0	0	1	11433	1190	42	4		4	PAPPA2	1	176738772	Silent	SNP	G	TCGA-B8-5159-01A-01D-1421-08	24918043	176738772	72511849	7	10613											
ZFP36L2	678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43452470	43452470	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcgaagggccggcacAgctcggtcttgtagcgcgtg	5	9	14	13	5	2	0	0	0	2	0	5	1	2	0	2	3	2	3	2	3	2	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	43452470	A	G	43452470	3	3	191	1	0	0	0	0	1	0	0	0	17646	188	7	3	1015	3	ZFP36L2	2	43452470	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08		43452470	199746903	8	10614											
CCDC88A	55704	broad.mit.edu	37	chr2	55562094	55562094	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagctcgttctcctttttcTttataatgttccaattcttt	6	22	3	10	1	4	0	1	0	3	0	7	0	5	0	2	0	1	3	2	0	3	9	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	55562094	G	G	55562094	3	3	191	1	0	0	0	0	1	0	0	0	2863	1606	56	5	3824	5	CCDC88A	2	55562094	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	12109624	55562094	187637279	9	10615											
ATP6V1B1	525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71190718	71190718	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagatatcacccaccctatCccagacttgacgggcttcat	10	10	7	14	1	2	3	2	1	0	2	3	3	3	3	3	1	0	2	3	1	3	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	71190718	C	A	71190718	2	1	191	1	0	0	0	0	0	0	0	1	1178	845	30	4		4	ATP6V1B1	2	71190718	Silent	SNP	C	TCGA-B8-5159-01A-01D-1421-08	15628624	71190718	172008655	10	10616											
ZNF638	27332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71658543	71658543	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggcaaatcagtggcgTctgatgtccctgagggtaaa	10	10	12	9	1	3	2	2	2	1	0	4	2	4	2	1	3	0	2	1	3	3	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	71658543	T	C	71658543	3	2	191	1	0	0	0	0	1	0	0	0	18054	1667	58	3	5835	3	ZNF638	2	71658543	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	467825	71658543	171540830	11	10617											
TMEM131	23505	broad.mit.edu	37	chr2	98375417	98375417	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggactgggatctgtcgctGgcgactcccaaaggtatgaa	11	8	13	9	2	1	1	0	1	1	0	3	4	2	3	1	4	0	2	1	4	4	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	98375417	T	T	98375417	3	4	191	1	0	0	0	0	1	0	0	0	16043	1348	47	4	353	4	TMEM131	2	98375417	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	26716874	98375417	144823956	12	10618											
ZDBF2	57683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207174466	207174466	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaaacatagagatctagaAgtgagctgtgaaccggatgg	15	8	12	6	1	1	4	0	2	1	2	1	6	1	5	1	2	3	1	1	2	6	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	207174466	A	T	207174466	3	4	191	1	0	0	0	0	1	0	0	0	17598	69	3	5	5224	5	ZDBF2	2	207174466	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08	108799049	207174466	36024907	13	10619											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191536	10191536	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcctgagaattacaggAgactggacatcgtcaggtcg	12	8	12	9	2	2	2	2	1	0	2	4	5	2	3	1	3	2	0	1	3	3	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	10191536	A	T	10191536	4	4	191	1	0	0	0	0	0	1	0	0	17161	296	11	5	539	5	VHL	3	10191536	Nonsense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08		10191536	187830894	14	10620											
TRIM71	131405	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	32932071	32932071	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccaggaagacgaccgaGtcatgttcacaccccccgat	11	5	9	16	3	2	1	2	0	0	1	2	5	2	2	6	1	1	1	6	1	1	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	32932071	G	C	32932071	3	2	191	1	0	0	0	0	1	0	0	0	16543	1029	36	4	1389	4	TRIM71	3	32932071	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	22740535	32932071	165090359	15	10621											
UBP1	7342	broad.mit.edu;hgsc.bcm.edu	37	chr3	33481335	33481335	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtccatcttgagcacccaGgccatcttccggcctcgccg	5	9	9	18	4	2	1	0	1	2	0	6	1	4	1	6	2	1	1	6	2	0	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	33481335	G	T	33481335	2	4	191	1	0	0	0	0	0	0	0	1	16894	987	35	4		4	UBP1	3	33481335	Silent	SNP	G	TCGA-B8-5159-01A-01D-1421-08	549264	33481335	164541095	16	10622											
PIK3CA	5290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	178921334	178921334	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccttaatctcttacagtaTataagaagctgtataatgct	13	14	5	9	0	1	1	0	0	1	1	2	1	1	1	2	0	3	4	2	0	8	7	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	178921334	T	A	178921334	4	1	191	1	0	0	0	0	0	1	0	0	11913	1413	49	5	830	5	PIK3CA	3	178921334	Nonsense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	145439999	178921334	19101096	17	10623											
LPHN3	23284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	62812747	62812747	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaatcattctgttattgtCaattcccctgttattacggc	10	16	5	10	1	3	0	2	0	1	0	4	0	4	0	2	1	1	2	2	1	5	6	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	62812747	C	T	62812747	2	4	191	1	0	0	0	0	0	0	0	1	8917	813	29	2		2	LPHN3	4	62812747	Silent	SNP	C	TCGA-B8-5159-01A-01D-1421-08		62812747	128341529	18	10624											
ETFDH	2110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159627355	159627355	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaaaggactccatgtaactGaatatgaggacaatttgaag	17	10	9	5	0	0	3	0	3	0	0	1	5	1	5	1	2	1	1	1	2	7	4	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	159627355	G	C	159627355	3	2	191	1	0	0	0	0	1	0	0	0	5271	1291	45	4	1342	4	ETFDH	4	159627355	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	96814608	159627355	31526921	19	10625											
CTNND2	1501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	10988319	10988319	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgttttcctttctttgaGgctgatcatttcccgaggtg	4	18	10	9	1	3	2	1	2	2	0	5	3	5	2	2	2	0	2	2	2	0	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	10988319	G	T	10988319	3	4	191	1	0	0	0	0	1	0	0	0	4020	1000	35	4	442	4	CTNND2	5	10988319	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08		10988319	169926941	20	10626											
CCDC125	202243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	68581285	68581285	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggtcttcttactccttggtGatggaaatcctaaaattgaa	12	14	8	7	0	2	2	0	2	2	0	4	3	4	3	2	3	1	0	2	3	5	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	68581285	G	C	68581285	4	2	191	1	0	0	0	0	0	1	0	0	2761	1294	45	4	434	4	CCDC125	5	68581285	Nonsense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	57592966	68581285	112333975	21	10627											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	90086882	90086882	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gaggagccgaactggatctgGagaagagtatcacatggttc	12	8	14	7	1	2	2	1	0	1	2	3	7	2	4	1	4	2	2	1	4	3	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	90086882	G	C	90086882	3	2	191	1	0	0	0	0	1	0	0	0	6721	1175	41	4	14514	4	GPR98	5	90086882	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	21505597	90086882	90828378	22	10628											
SLC22A5	6584	hgsc.bcm.edu	37	chr5	131705726	131705728	+	In_Frame_Del	DEL	TCT	TCT	-																															ggggcccttccagcgcctcaTcttcttcctgctcagcgcca																								novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		-	131705728	TCT	-	131705726	7	5	191	1	0	1	0	1	0	0	0	0	14459	1435	50	0	64	0	SLC22A5	5	131705726	In_Frame_Del	DEL	TCT	TCGA-B8-5159-01A-01D-1421-08	41618844	131705726	49209534	23	10629											
PHF15	23338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	133914214	133914214	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacctcattccccatcgatgGcaccttcttcaacagctggc	8	10	6	17	1	3	0	2	0	1	0	5	1	4	0	4	2	2	2	4	2	1	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	133914214	G	C	133914214	3	2	191	1	0	0	0	0	1	0	0	0	11826	1203	42	4	1618	4	PHF15	5	133914214	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	2208488	133914214	47001046	24	10630											
CATSPER3	347732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134344575	134344575	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcagttggacaatcgggaAtttgctttgagccgggcatt	10	11	13	7	2	0	1	0	1	0	0	1	3	0	3	1	3	3	4	1	3	3	4	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	134344575	A	C	134344575	3	2	191	1	0	0	0	0	1	0	0	0	2689	98	4	5	738	5	CATSPER3	5	134344575	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08	430361	134344575	46570685	25	10631											
TRIM10	10107	hgsc.bcm.edu	37	chr6	30126177	30126177	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccggttcaggcctcaccGtcaggagctcccttgctggc	4	10	12	15	2	3	0	3	0	0	0	5	1	5	1	4	4	2	4	4	4	0	3	rs61735038	bycluster;alternate_allele	TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	30126177	G	T	30126177	3	4	191	1	0	0	0	0	1	0	0	0	16485	1159	40	4	798	4	TRIM10	6	30126177	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08		30126177	140988890	26	10632											
LAMA4	3910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	112575349	112575349	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgccaggctgagctcaaagCcatttctccgctgacatcca	9	8	9	15	2	2	2	1	2	1	0	4	2	3	2	4	1	2	3	4	1	1	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	112575349	C	G	112575349	3	3	191	1	0	0	0	0	1	0	0	0	8608	739	26	4	5787	4	LAMA4	6	112575349	Missense_Mutation	SNP	C	TCGA-B8-5159-01A-01D-1421-08	82449172	112575349	58539718	27	10633											
TSGA14	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	130044447	130044447	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcccctgctcctgcgttgTttatgaactgctcagggctc	5	13	10	13	1	1	1	1	1	0	0	4	1	3	1	3	1	4	5	3	1	2	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	130044447	T	C	130044447	3	2	191	1	0	0	0	0	1	0	0	0	16619	1725	60	3	765	3	TSGA14	7	130044447	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08		130044447	29094216	28	10634											
RP1	6101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55533660	55533660	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttctacaagagcggagAcccccaattcggcggggtca	10	7	12	12	3	2	2	1	0	1	2	3	3	2	2	2	4	2	1	2	4	3	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	55533660	A	C	55533660	3	2	191	1	0	0	0	0	1	0	0	0	13534	275	10	5	136	5	RP1	8	55533660	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08		55533660	90830362	29	10635											
ZFAT	57623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	135524782	135524782	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgtgtcccttgaacgtcTtcttcggcctctgtgatgtg	3	15	11	12	2	3	2	0	2	3	0	5	2	4	2	3	1	1	0	3	1	1	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	135524782	T	G	135524782	3	3	191	1	0	0	0	0	1	0	0	0	17631	1606	56	5	446	5	ZFAT	8	135524782	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	79991122	135524782	10839240	30	10636											
ZBTB5	9925	broad.mit.edu;ucsc.edu	37	chr9	37441467	37441467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctcggcactgaccacaActccttccacttccacagac	9	10	4	18	1	2	2	0	1	2	1	6	2	5	2	4	1	1	1	4	1	1	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	37441467	C	C	37441467	3	2	191	1	0	0	0	0	1	0	0	0	17550	43	2	5	955	5	ZBTB5	9	37441467	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08		37441467	103771964	31	10637											
KIAA0913	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75553698	75553698	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagcaaggcggccttcctgTtgacagtgctaagtgagcgt	8	10	14	9	2	0	3	0	3	0	0	1	3	1	3	2	2	3	3	2	2	2	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	75553698	T	G	75553698	3	3	191	1	0	0	0	0	1	0	0	0	8200	1722	60	5	2567	5	KIAA0913	10	75553698	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08		75553698	59981049	32	10638											
SMC3	9126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	112341762	112341762	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggaagaaaaggaagaacTagctcagtatcagaagtggg	18	5	14	4	0	2	4	2	0	0	4	2	6	2	6	0	3	2	2	0	3	8	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	112341762	T	C	112341762	3	2	191	1	0	0	0	0	1	0	0	0	14786	1522	53	3	663	3	SMC3	10	112341762	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	36788064	112341762	23192985	33	10639											
MICALCL	84953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	12315780	12315780	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacgtgcctccacccaagTccccactgcggctcatagcc	9	6	8	18	2	1	0	1	0	0	0	3	1	3	0	6	1	4	1	6	1	3	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	12315780	T	A	12315780	3	1	191	1	0	0	0	0	1	0	0	0	9572	1667	58	5	808	5	MICALCL	11	12315780	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08		12315780	122690736	34	10640											
MRGPRX4	117196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18194921	18194921	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgtgcatcatttcccttGtcggactgacaggaaacgcg	9	10	11	11	4	1	2	1	2	0	0	3	4	2	4	1	2	2	1	1	2	1	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	18194921	G	T	18194921	3	4	191	1	0	0	0	0	1	0	0	0	9769	1377	48	4	120	4	MRGPRX4	11	18194921	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	5879141	18194921	116811595	35	10641											
DHCR7	1717	broad.mit.edu;hgsc.bcm.edu	37	chr11	71153366	71153366	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagccgggtagaaacttatGgcagaagtcagggagagacg	13	6	16	6	2	1	3	1	0	0	3	1	5	1	4	1	3	2	3	1	3	5	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	71153366	G	C	71153366	3	2	191	1	0	0	0	0	1	0	0	0	4477	1348	47	4	1092	4	DHCR7	11	71153366	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	52958445	71153366	63853150	36	10642											
TYR	7299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	88911150	88911151	+	Frame_Shift_Ins	INS	-	-	A																															gctgttttgtactgcctgctINSgtggagtttccagacctccg																								novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	88911151	-	A	88911150	7	5	191	1	0	1	1	0	0	0	0	0	16812	1580	55	0	31	0	TYR	11	88911150	Frame_Shift_Ins	INS	-	TCGA-B8-5159-01A-01D-1421-08	17757784	88911150	46095366	37	10643											
PPFIBP1	8496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27835400	27835400	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgaagaagaaaccaaTcatgggaagctggatttcaa	16	8	11	6	0	3	3	2	1	1	2	3	6	3	6	1	3	2	1	1	3	6	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	27835400	T	C	27835400	2	2	191	1	0	0	0	0	0	0	0	1	12313	1432	50	3		3	PPFIBP1	12	27835400	Silent	SNP	T	TCGA-B8-5159-01A-01D-1421-08		27835400	106016495	38	10644											
NACA	4666	broad.mit.edu;hgsc.bcm.edu	37	chr12	57110097	57110097	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaagagtctttctgaacaggGagtagaggggctggagccac	11	7	16	7	0	2	3	0	1	2	2	2	6	2	5	1	4	2	2	1	4	3	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	57110097	G	A	57110097	2	1	191	1	0	0	0	0	0	0	0	1	10133	1161	41	2		2	NACA	12	57110097	Silent	SNP	G	TCGA-B8-5159-01A-01D-1421-08	29274697	57110097	76741798	39	10645											
NEDD1	121441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	97303613	97303613	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cttcatctatgacattggtgGataaattcaacccacacaca	14	11	5	11	0	3	1	2	1	1	0	3	2	3	2	1	2	1	0	1	2	4	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	97303613	G	C	97303613	3	2	191	1	0	0	0	0	1	0	0	0	10309	1174	41	4	103	4	NEDD1	12	97303613	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	40193516	97303613	36548282	40	10646											
CAMKK2	10645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121712085	121712085	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggacccggaggtgtcaaggGggacctcttggccatcggcc	6	6	17	12	2	2	0	1	0	1	0	3	3	2	3	4	7	0	0	4	7	1	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	121712085	G	C	121712085	3	2	191	1	0	0	0	0	1	0	0	0	2607	1232	43	4	1595	4	CAMKK2	12	121712085	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	24408472	121712085	12139810	41	10647											
ZCCHC8	55596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122962402	122962402	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacctgaatcgagctccAtgtcggcgggagatcccgct	8	8	11	14	4	0	2	0	1	0	1	4	4	2	2	4	2	2	2	4	2	2	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	122962402	A	G	122962402	3	3	191	1	0	0	0	0	1	0	0	0	17593	217	8	3	800	3	ZCCHC8	12	122962402	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08	1250317	122962402	10889493	42	10648											
TMEM132B	114795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	126135244	126135244	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggcctacccgggaaagCgatgacgaggacgatgagga	12	4	15	10	4	0	2	0	2	0	0	1	8	1	5	3	4	2	0	3	4	2	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	126135244	C	T	126135244	2	4	191	1	0	0	0	0	0	0	0	1	16045	767	27	1		1	TMEM132B	12	126135244	Silent	SNP	C	TCGA-B8-5159-01A-01D-1421-08	3172842	126135244	7716651	43	10649											
ELF1	1997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41525466	41525466	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaatcataatcactcactTattcgtttttcatccagcat	13	15	2	11	1	4	0	4	0	0	0	6	0	5	0	1	0	2	2	1	0	4	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	41525466	T	A	41525466	2	1	191	1	0	0	0	0	0	0	0	1	5053	1768	61	5		5	ELF1	13	41525466	Silent	SNP	T	TCGA-B8-5159-01A-01D-1421-08		41525466	73644412	44	10650											
DCAF11	80344	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24588354	24588354	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagctccttcttgcttttagGccagatgagcgtcgctttgc	5	14	10	12	2	1	2	0	1	1	1	3	2	2	2	2	1	4	3	2	1	1	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	24588354	G	C	24588354	3	2	191	1	0	0	0	0	1	0	0	0	4262	1217	42	4	810	4	DCAF11	14	24588354	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08		24588354	82761186	45	10651											
MAP4K5	11183	hgsc.bcm.edu;ucsc.edu	37	chr14	50904252	50904252	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttgttaaagcgaatttTctgaaaacgtaagacgatat	14	15	8	4	3	1	2	0	1	1	1	1	4	1	2	0	0	2	3	0	0	7	7	rs10150701	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	50904252	T	G	50904252	3	3	191	1	0	0	0	0	1	0	0	0	9263	1797	62	5	748	5	MAP4K5	14	50904252	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	26315898	50904252	56445288	46	10652											
YLPM1	56252	broad.mit.edu;ucsc.edu	37	chr14	75230551	75230551	+	Frame_Shift_Del	DEL	A	-	-																															ggccctcagctatcagaagcAgcagcagtacaaacaccaga																								novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		-	75230551	-	-	75230551	7	5	191	1	0	1	0	1	0	0	0	0	17485	188	7	0	361	0	YLPM1	14	75230551	Frame_Shift_Del	DEL	A	TCGA-B8-5159-01A-01D-1421-08	24326299	75230551	32118989	47	10653											
GABRA5	2558	broad.mit.edu;hgsc.bcm.edu	37	chr15	27128585	27128585	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaacaacctccttgccagCaagatctggaccccagacac	12	6	6	17	0	2	2	1	0	1	2	3	3	3	3	5	1	4	1	5	1	3	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	27128585	C	A	27128585	3	1	191	1	0	0	0	0	1	0	0	0	6164	709	25	4	392	4	GABRA5	15	27128585	Missense_Mutation	SNP	C	TCGA-B8-5159-01A-01D-1421-08		27128585	75402807	48	10654											
WDR72	256764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	53957926	53957926	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcacaacaattaagaataAttcgtgctctttctcctgtc	12	14	4	11	1	3	1	1	0	2	1	6	1	3	1	1	0	2	1	1	0	5	4	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	53957926	A	T	53957926	3	4	191	1	0	0	0	0	1	0	0	0	17321	101	4	5	1531	5	WDR72	15	53957926	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08	26829341	53957926	48573466	49	10655											
ZNF592	9640	hgsc.bcm.edu;ucsc.edu	37	chr15	85326473	85326477	+	Frame_Shift_Del	DEL	TCCGG	TCCGG	-																															ctggaggctctggctaagttTccggttccagagctgcatat																								novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	TCCGG	TCCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		-	85326477	TCCGG	-	85326473	7	5	191	1	0	1	0	1	0	0	0	0	18021	1780	62	0	569	0	ZNF592	15	85326473	Frame_Shift_Del	DEL	TCCGG	TCGA-B8-5159-01A-01D-1421-08	31368547	85326473	17204919	50	10656											
KIAA0430	9665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15724209	15724210	+	Frame_Shift_Ins	INS	-	-	G																															ggcatttttagtggtaacctINSggggggcaagtcggaaatga																								novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	15724210	-	G	15724209	7	5	191	1	0	1	1	0	0	0	0	0	8177	1579	55	0	3811	0	KIAA0430	16	15724209	Frame_Shift_Ins	INS	-	TCGA-B8-5159-01A-01D-1421-08		15724209	74630544	51	10657											
CNOT1	23019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58555184	58555184	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtaataagaagaccccaagGatgtggcctatttacaatca	15	9	9	8	0	1	2	1	0	0	2	1	3	1	3	3	3	1	1	3	3	7	5	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	58555184	G	A	58555184	3	1	191	1	0	0	0	0	1	0	0	0	3617	1174	41	2	183	2	CNOT1	16	58555184	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	42830975	58555184	31799569	52	10658											
CMTM4	146223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66670397	66670397	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaccacaaacgcactgcAgctcacaaactcaaaaaagt	18	5	5	13	1	3	0	3	0	0	0	3	0	3	0	1	0	4	3	1	0	5	0	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	66670397	A	G	66670397	3	3	191	1	0	0	0	0	1	0	0	0	3585	188	7	3	450	3	CMTM4	16	66670397	Missense_Mutation	SNP	A	TCGA-B8-5159-01A-01D-1421-08	8115213	66670397	23684356	53	10659											
MAPK7	5598	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	19284305	19284305	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgctggcccggcgccagctCttcccaggcaaaaactatgt	9	8	10	14	2	1	0	0	0	1	0	2	0	2	0	3	3	3	3	3	3	3	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		G	19284305	C	G	19284305	2	3	191	1	0	0	0	0	0	0	0	1	9282	900	32	4		4	MAPK7	17	19284305	Silent	SNP	C	TCGA-B8-5159-01A-01D-1421-08		19284305	61910905	54	10660											
KRT36	8689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39643651	39643651	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagcgcgttgaccgtacgTctcagctcgatgatctccgt	6	12	10	13	6	3	2	1	2	3	0	6	3	3	2	2	0	3	3	2	0	2	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	39643651	T	A	39643651	3	1	191	1	0	0	0	0	1	0	0	0	8473	1664	58	5	476	5	KRT36	17	39643651	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08	20359346	39643651	41551559	55	10661											
NPHS1	4868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36340202	36340202	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacggcagctccaagctcTgtcctgcccgcacgtgcccc	5	6	10	20	4	1	0	0	0	1	0	3	0	3	0	5	1	4	5	5	1	1	0	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	36340202	T	C	36340202	3	2	191	1	0	0	0	0	1	0	0	0	10582	1580	55	3	3041	3	NPHS1	19	36340202	Missense_Mutation	SNP	T	TCGA-B8-5159-01A-01D-1421-08		36340202	22788781	56	10662											
AR	367	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	66765719	66765719	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagttgtgtaaggcagtgtCggtgtccatgggcctgggtg	5	11	19	6	1	0	0	0	0	0	0	2	1	1	1	2	5	0	3	2	5	1	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		T	66765719	C	T	66765719	3	4	191	1	0	0	0	0	1	0	0	0	836	893	31	1	733	1	AR	23	66765719	Missense_Mutation	SNP	C	TCGA-B8-5159-01A-01D-1421-08		66765719	88504841	57	10663											
FOXO4	4303	broad.mit.edu	37	chrX	70320778	70320778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactccaacgagccctgtcgGccactttgccaagtggtcag	8	8	10	15	2	1	0	1	0	0	0	3	1	2	0	4	2	3	0	4	2	2	1	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	70320778	A	A	70320778	3	1	191	1	0	0	0	0	1	0	0	0	6025	1203	42	2	704	2	FOXO4	23	70320778	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	3555059	70320778	84949782	58	10664											
NXF2B	728343	broad.mit.edu	37	chrX	101615563	101615563	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcggggatcttgccctCggtctagagaaagtaaagaa	11	8	12	10	3	2	2	0	0	2	2	4	4	3	3	2	3	1	1	2	3	5	3	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		A	101615563	A	A	101615563	4	1	191	1	0	0	0	0	0	1	0	0	10784	893	31	4	2009	4	NXF2B	23	101615563	Nonsense_Mutation	SNP	C	TCGA-B8-5159-01A-01D-1421-08	31294785	101615563	53654997	59	10665											
ZNF185	7739	broad.mit.edu;hgsc.bcm.edu	37	chrX	152128271	152128271	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattttgaggggaaggatGtggccaccaaggtcggagag	10	8	17	6	1	0	3	0	2	0	1	1	6	0	5	2	6	0	0	2	6	2	2	novel		TCGA-B8-5159-01A-01D-1421-08	TCGA-B8-5159-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ed8a9be1-31c6-40e2-9af2-8abd80d00995	82ce0fc3-11dc-4fee-b6cf-3950e3bee733		C	152128271	G	C	152128271	3	2	191	1	0	0	0	0	1	0	0	0	17751	1377	48	4	1745	4	ZNF185	23	152128271	Missense_Mutation	SNP	G	TCGA-B8-5159-01A-01D-1421-08	50512708	152128271	3142289	60	10666											
MTF1	4520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38300878	38300878	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cattactggggcagaagaagGgtctttcacctgcaagaata	13	9	11	8	0	2	3	1	0	1	3	2	3	2	3	1	3	2	2	1	3	6	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	38300878	G	T	38300878	3	4	192	1	0	0	0	0	1	0	0	0	9922	1232	43	4	1422	4	MTF1	1	38300878	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		38300878	210949743	1	10667											
COL24A1	255631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86591208	86591208	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttttcagcaaatagtttggGcgggggagagtgttccggta	8	13	15	5	2	1	1	1	0	0	1	2	2	2	1	1	4	1	4	1	4	3	6	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	86591208	G	A	86591208	3	1	192	1	0	0	0	0	1	0	0	0	3683	1203	42	2	4565	2	COL24A1	1	86591208	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	48290330	86591208	162659413	2	10668											
AGL	178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100336085	100336085	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgatgttgcagaagggaAatacaaagaaaagggaatac	18	7	12	4	0	0	3	0	1	0	2	0	5	0	5	0	2	3	2	0	2	8	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	100336085	A	T	100336085	3	4	192	1	0	0	0	0	1	0	0	0	384	14	1	5	881	5	AGL	1	100336085	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	13744877	100336085	148914536	3	10669											
OTUD7B	56957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	149920966	149920966	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcagcagcttatactctgaAtctgtaagtgggatcacagc	11	10	11	9	0	3	1	1	1	2	0	3	2	3	2	0	2	4	4	0	2	4	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	149920966	A	G	149920966	2	3	192	1	0	0	0	0	0	0	0	1	11319	98	4	3		3	OTUD7B	1	149920966	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08	49584881	149920966	99329655	4	10670											
DCAF6	55827	broad.mit.edu;hgsc.bcm.edu	37	chr1	167974003	167974003	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggcagtctgttgaggcAtctggacaccacacacatca	13	7	9	12	0	3	1	1	1	2	0	3	2	3	2	1	3	0	3	1	3	1	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	167974003	A	G	167974003	2	3	192	1	0	0	0	0	0	0	0	1	4274	204	8	3		3	DCAF6	1	167974003	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08	18053037	167974003	81276618	5	10671											
C4BPA	722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207300079	207300079	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacctgtcgcaagccagAtgtttcacatggggaaatgg	12	9	11	9	1	2	1	2	0	0	1	3	2	2	2	2	3	1	2	2	3	3	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	207300079	A	C	207300079	3	2	192	1	0	0	0	0	1	0	0	0	2249	333	12	5	750	5	C4BPA	1	207300079	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	39326076	207300079	41950542	6	10672											
TARBP1	6894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234582578	234582578	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggaacctttcaacctgCatgtgttcaacagcttcaac	11	11	6	13	0	3	0	3	0	0	0	3	1	3	1	2	1	6	3	2	1	4	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	234582578	C	T	234582578	3	4	192	1	0	0	0	0	1	0	0	0	15554	710	25	2	2836	2	TARBP1	1	234582578	Missense_Mutation	SNP	C	TCGA-B8-5163-01A-01D-1421-08	27282499	234582578	14668043	7	10673											
TTC15	0	broad.mit.edu;hgsc.bcm.edu	37	chr2	3392356	3392356	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctacgcgtggagtcctgcGggccgtggccacccagcagc	5	5	16	15	4	0	0	0	0	0	0	1	1	1	1	4	4	4	2	4	4	1	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	3392356	G	A	3392356	3	1	192	1	0	0	0	0	1	0	0	0	16681	1116	39	1	964	1	TTC15	2	3392356	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		3392356	239807017	8	10674											
ALK	238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29420425	29420425	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacacaggcccagggcagttCttgggtgggtccatccggcc	6	8	14	13	1	1	0	0	0	1	0	3	0	3	0	4	5	1	2	4	5	1	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	29420425	C	G	29420425	3	3	192	1	0	0	0	0	1	0	0	0	525	912	32	4	818	4	ALK	2	29420425	Missense_Mutation	SNP	C	TCGA-B8-5163-01A-01D-1421-08	26028069	29420425	213778948	9	10675											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32640925	32640925	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaagatccccaggacacaAttacctcgctcattttgctt	11	12	5	13	1	2	1	2	0	0	1	4	2	3	2	3	1	2	2	3	1	3	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	32640925	A	G	32640925	3	3	192	1	0	0	0	0	1	0	0	0	1438	101	4	3	2604	3	BIRC6	2	32640925	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	3220500	32640925	210558448	10	10676											
KLRAQ1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48698316	48698316	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtatcactgaggatactGtgactgtcttggtaattttc	11	15	9	6	0	2	2	1	2	1	0	3	3	2	3	0	2	1	2	0	2	4	6	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	48698316	G	A	48698316	3	1	192	1	0	0	0	0	1	0	0	0	8413	1377	48	2	1026	2	KLRAQ1	2	48698316	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	16057391	48698316	194501057	11	10677											
SUCLG1	8802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84668507	84668507	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggaatttctgcctcaataGcttcattaatggcagcagca	12	11	9	9	0	3	0	2	0	1	0	3	1	3	1	1	2	4	4	1	2	4	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	84668507	G	T	84668507	3	4	192	1	0	0	0	0	1	0	0	0	15365	971	34	4	669	4	SUCLG1	2	84668507	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	35970191	84668507	158530866	12	10678											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188218	10188218	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacctttggctcttcagaGatgcagggacacacgatggg	9	9	13	10	1	3	1	2	0	1	1	3	4	3	2	1	3	1	2	1	3	0	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	10188218	G	T	10188218	3	4	192	1	0	0	0	0	1	0	0	0	17161	942	33	4	367	4	VHL	3	10188218	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		10188218	187834212	13	10679											
AZI2	64343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	28368357	28368357	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgaggttttcagttttctTagtagttcagcttgtacttg	6	20	10	5	0	3	1	2	1	1	0	3	1	3	1	0	1	2	7	0	1	3	11	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	28368357	T	C	28368357	2	2	192	1	0	0	0	0	0	0	0	1	1241	1741	61	3		3	AZI2	3	28368357	Silent	SNP	T	TCGA-B8-5163-01A-01D-1421-08	18180139	28368357	169654073	14	10680											
C3orf67	200844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	58899557	58899557	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccttgaatatttcactggTgaatgctactaagtcaatgc	11	13	7	10	0	2	2	2	2	0	0	2	2	2	2	2	1	3	1	2	1	6	5	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	58899557	T	A	58899557	3	1	192	1	0	0	0	0	1	0	0	0	2241	1696	59	5	1683	5	C3orf67	3	58899557	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	30531200	58899557	139122873	15	10681											
PIK3CB	5291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	138413736	138413736	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtttaggccaaatctgaAgcagcgcctgaagctgttta	11	10	11	9	1	1	2	0	2	1	0	1	2	1	2	2	1	3	5	2	1	5	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	138413736	A	G	138413736	3	3	192	1	0	0	0	0	1	0	0	0	11914	72	3	3	1470	3	PIK3CB	3	138413736	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	79514179	138413736	59608694	16	10682											
MUC4	4585	broad.mit.edu	37	chr3	195505859	195505859	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggatgctgaggaagTgtcggtgacaggaagagggg	10	7	19	5	1	0	3	0	2	0	1	1	6	0	6	1	6	1	1	1	6	2	0	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	195505859	C	C	195505859	3	2	192	1	0	0	0	0	1	0	0	0	9978	1696	59	3		3	MUC4	3	195505859	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	57092123	195505859	2516571	17	10683											
PCDH7	5099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	30725802	30725802	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aagccggcaaaaaagatcacGaagacttttttacaccccaa	17	7	6	11	2	1	2	1	0	0	2	1	3	1	2	3	1	2	1	3	1	7	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	30725802	G	C	30725802	3	2	192	1	0	0	0	0	1	0	0	0	11516	1059	37	4	2760	4	PCDH7	4	30725802	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		30725802	160428474	18	10684											
UGT2B15	7366	broad.mit.edu;hgsc.bcm.edu	37	chr4	69519852	69519852	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcccttggctttcatgtGagcaatgttatcatgttgat	7	17	9	8	0	2	2	2	2	0	0	3	2	3	2	1	1	2	5	1	1	2	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	69519852	G	T	69519852	3	4	192	1	0	0	0	0	1	0	0	0	16957	1290	45	4	2001	4	UGT2B15	4	69519852	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	38794050	69519852	121634424	19	10685											
ZFP42	132625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	188924839	188924839	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcagtcaaataacctgaAagcccacatcctaacgcatg	15	9	5	12	1	2	1	2	1	0	0	3	1	3	1	3	0	3	1	3	0	5	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	188924839	A	G	188924839	3	3	192	1	0	0	0	0	1	0	0	0	17649	14	1	3	880	3	ZFP42	4	188924839	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	119404987	188924839	2229437	20	10686											
FAM105B	90268	hgsc.bcm.edu;ucsc.edu	37	chr5	14673798	14673798	+	Frame_Shift_Del	DEL	A	A	-																															tgaaatagaaaaggagaaagAattgcttatacatgaaagag																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		-	14673798	A	-	14673798	7	5	192	1	0	1	0	1	0	0	0	0	5388	246	9	0	206	0	FAM105B	5	14673798	Frame_Shift_Del	DEL	A	TCGA-B8-5163-01A-01D-1421-08		14673798	166241462	21	10687											
GHR	2690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	42719044	42719044	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattcagctaagcaatccaAgttcactgtcaaacatcgac	15	10	5	11	1	3	0	3	0	0	0	5	1	4	0	1	0	3	3	1	0	5	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	42719044	A	C	42719044	3	2	192	1	0	0	0	0	1	0	0	0	6371	72	3	5	1469	5	GHR	5	42719044	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	28045246	42719044	138196216	22	10688											
CHD1	1105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	98204294	98204294	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggagcatctgacactgAagatttcttggatctttccc	10	13	8	10	0	3	3	0	2	3	1	4	5	4	5	1	2	2	1	1	2	2	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	98204294	A	C	98204294	3	2	192	1	0	0	0	0	1	0	0	0	3323	246	9	5	1003	5	CHD1	5	98204294	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	55485250	98204294	82710966	23	10689											
MEGF10	84466	hgsc.bcm.edu;ucsc.edu	37	chr5	126754854	126754854	+	Frame_Shift_Del	DEL	A	A	-																															gccctctgggaacctatgggAtaaactgttcctctcgctgt																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		-	126754854	A	-	126754854	7	5	192	1	0	1	0	1	0	0	0	0	9460	333	12	0	1386	0	MEGF10	5	126754854	Frame_Shift_Del	DEL	A	TCGA-B8-5163-01A-01D-1421-08	28550560	126754854	54160406	24	10690	162	2									
MEGF10	84466	hgsc.bcm.edu	37	chr5	126754856	126754856	+	Silent	SNP	A	A	T																															cctctgggaacctatgggatAaactgttcctctcgctgtgg																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	126754856	A	T	126754856	2	4	192	1	0	0	0	0	0	0	0	1	9460	352	13	5		5	MEGF10	5	126754856	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08	2	126754856	54160404	25	10691	162	2									
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127642858	127642858	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtgaatgtcaaaggtGaatccaggaatatttccaca	13	11	9	8	0	1	2	1	2	0	0	3	3	3	3	3	2	0	0	3	2	5	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	127642858	G	T	127642858	3	4	192	1	0	0	0	0	1	0	0	0	5703	1281	45	4	3443	4	FBN2	5	127642858	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	888002	127642858	53272402	26	10692											
ITK	3702	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156670646	156670646	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagggaaatgggtgatCgacccctcagagctcacttt	9	10	10	12	1	2	2	2	1	0	1	4	4	3	3	3	2	1	1	3	2	1	2	rs142689933	alternate_allele	TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	156670646	C	A	156670646	2	1	192	1	0	0	0	0	0	0	0	1	7909	874	31	4		4	ITK	5	156670646	Silent	SNP	C	TCGA-B8-5163-01A-01D-1421-08	29027788	156670646	24244614	27	10693											
PGBD1	84547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28268767	28268767	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccagcctgctcaaaagaAgttaaaggtatcatgtttcc	13	11	8	9	0	2	1	2	0	0	1	4	2	4	1	3	1	2	4	3	1	6	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	28268767	A	G	28268767	3	3	192	1	0	0	0	0	1	0	0	0	11780	72	3	3	1158	3	PGBD1	6	28268767	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08		28268767	142846300	28	10694											
ZNF323	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28294515	28294515	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgtttacaagtttctcTgtacttagaatccaaagata	12	15	6	8	1	2	2	0	0	2	2	5	2	3	2	1	0	2	3	1	0	7	6	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	28294515	T	G	28294515	2	3	192	1	0	0	0	0	0	0	0	1	17842	1588	55	5		5	ZNF323	6	28294515	Silent	SNP	T	TCGA-B8-5163-01A-01D-1421-08	25748	28294515	142820552	29	10695											
GPSM3	63940	hgsc.bcm.edu	37	chr6	32159933	32159934	+	Frame_Shift_Ins	INS	-	-	G																															ggtaggggtacctgtgtggcINSgggtccctggaggaggaggg																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	32159934	-	G	32159933	7	5	192	1	0	1	1	0	0	0	0	0	6736	768	27	0	357	0	GPSM3	6	32159933	Frame_Shift_Ins	INS	-	TCGA-B8-5163-01A-01D-1421-08	3865418	32159933	138955134	30	10696											
CUL9	23113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43153719	43153719	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagctgcttttctccttGgtgaagcgctacctttgtgt	6	15	11	9	1	1	1	0	1	1	0	2	2	1	2	2	2	4	3	2	2	3	5	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	43153719	G	A	43153719	2	1	192	1	0	0	0	0	0	0	0	1	4061	1339	47	2		2	CUL9	6	43153719	Silent	SNP	G	TCGA-B8-5163-01A-01D-1421-08	10993786	43153719	127961348	31	10697											
EPHB6	2051	hgsc.bcm.edu	37	chr7	142562451	142562452	+	Frame_Shift_Ins	INS	-	-	C																															tggatggtagctgtcgggggINSctgccgctgccagcctggat																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	142562452	-	C	142562451	7	5	192	1	0	1	1	0	0	0	0	0	5178	1203	42	0	903	0	EPHB6	7	142562451	Frame_Shift_Ins	INS	-	TCGA-B8-5163-01A-01D-1421-08		142562451	16576212	32	10698											
EZH2	2146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148544374	148544374	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtcccttctcagatttcTtcccagtctggcccatgatt	5	15	7	14	0	3	2	1	1	3	1	6	2	5	2	3	2	0	0	3	2	0	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	148544374	T	A	148544374	3	1	192	1	0	0	0	0	1	0	0	0	5334	1609	56	5	2314	5	EZH2	7	148544374	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	5981923	148544374	10594289	33	10699											
UBE2W	55284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	74742665	74742665	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttaaggtcattccaggagGtgggtcattttgcaaagcca	11	12	11	7	0	2	0	2	0	0	0	3	1	3	1	2	4	2	1	2	4	2	5	rs17855421	alternate_allele	TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	74742665	G	T	74742665	3	4	192	1	0	0	0	0	1	0	0	0	16876	1261	44	4	417	4	UBE2W	8	74742665	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		74742665	71621357	34	10700											
KIFC2	90990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145697356	145697356	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gctggaacctgcggtgctgtCctgcctccgaggctacagcg	5	8	14	14	3	0	0	0	0	0	0	2	2	2	1	4	3	6	3	4	3	2	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	145697356	C	G	145697356	3	3	192	1	0	0	0	0	1	0	0	0	8313	855	30	4	1462	4	KIFC2	8	145697356	Missense_Mutation	SNP	C	TCGA-B8-5163-01A-01D-1421-08	70954691	145697356	666666	35	10701											
DHTKD1	55526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12142206	12142206	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagatgatggacggaatCaagctagactgggccaccgc	13	5	14	9	2	1	4	1	1	0	3	1	7	1	6	2	3	1	1	2	3	4	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	12142206	C	A	12142206	2	1	192	1	0	0	0	0	0	0	0	1	4500	816	29	4		4	DHTKD1	10	12142206	Silent	SNP	C	TCGA-B8-5163-01A-01D-1421-08		12142206	123392541	36	10702											
FAM13C	220965	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61083812	61083812	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtggactctcatgagctgGtgttcctgctctcacctgac	5	14	10	12	0	2	2	2	2	2	0	5	3	3	3	2	2	2	3	2	2	0	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	61083812	G	C	61083812	3	2	192	1	0	0	0	0	1	0	0	0	5454	1261	44	4	1422	4	FAM13C	10	61083812	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	48941606	61083812	74450935	37	10703											
TCN1	6947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	59622280	59622280	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggaggtgtcacagttatAggctcatcagcggagatgtt	10	11	13	7	1	4	1	4	0	0	1	4	3	4	2	0	4	1	3	0	4	2	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	59622280	A	G	59622280	2	3	192	1	0	0	0	0	0	0	0	1	15705	407	15	3		3	TCN1	11	59622280	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08		59622280	75384236	38	10704											
GPR137	56834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64055547	64055547	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgccaggggaccagtgTgtgccaggcggccgcgatgg	5	6	18	12	3	0	0	0	0	0	0	0	2	0	1	5	5	2	0	5	5	0	0	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	64055547	T	C	64055547	3	2	192	1	0	0	0	0	1	0	0	0	6645	1696	59	3	840	3	GPR137	11	64055547	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	4433267	64055547	70950969	39	10705											
GPHA2	170589	hgsc.bcm.edu	37	chr11	64702280	64702281	+	Frame_Shift_Ins	INS	-	-	G																															cgacacatgtcacactggcaINSggccctggccgtgaagatct																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	64702281	-	G	64702280	7	5	192	1	0	1	1	0	0	0	0	0	6608	188	7	0	38	0	GPHA2	11	64702280	Frame_Shift_Ins	INS	-	TCGA-B8-5163-01A-01D-1421-08	646733	64702280	70304236	40	10706											
C11orf24	53838	broad.mit.edu;ucsc.edu	37	chr11	68031203	68031203	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcagataaggacaaggaGaaaatccaaatgagcacaag	19	6	9	7	0	1	3	1	1	0	2	2	5	2	4	1	2	1	1	1	2	6	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	68031203	T	T	68031203	3	4	192	1	0	0	0	0	1	0	0	0	1635	933	33	4	1324	4	C11orf24	11	68031203	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	3328923	68031203	66975313	41	10707											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92531125	92531125	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacagatcagggatcccCgccaatgtctgctactgcaa	11	8	9	13	1	3	1	2	0	1	1	4	2	4	2	3	1	3	2	3	1	3	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	92531125	C	T	92531125	3	4	192	1	0	0	0	0	1	0	0	0	5691	652	23	1	4980	1	FAT3	11	92531125	Missense_Mutation	SNP	C	TCGA-B8-5163-01A-01D-1421-08	24499922	92531125	42475391	42	10708											
DPAGT1	1798	hgsc.bcm.edu	37	chr11	118972218	118972219	+	Frame_Shift_Ins	INS	-	-	G																															gctcacatctgctgtcggctINSggttttgttgaggtcctgac																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	118972219	-	G	118972218	7	5	192	1	0	1	1	0	0	0	0	0	4710	1580	55	0	1114	0	DPAGT1	11	118972218	Frame_Shift_Ins	INS	-	TCGA-B8-5163-01A-01D-1421-08	26441093	118972218	16034298	43	10709											
GLB1L2	89944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	134240284	134240284	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtgggacgccctcaagtaCctgggggaggtgagtgctgt	6	9	17	9	1	1	1	1	1	0	0	1	3	1	3	2	4	2	2	2	4	2	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	134240284	C	T	134240284	2	4	192	1	0	0	0	0	0	0	0	1	6429	518	18	2		2	GLB1L2	11	134240284	Silent	SNP	C	TCGA-B8-5163-01A-01D-1421-08	15268066	134240284	766232	44	10710											
CACNA1C	775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2566764	2566764	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattttagaacaagcaaccAaagcagatggggcaaacgct	17	6	9	9	1	0	2	0	0	0	2	0	2	0	2	1	2	5	4	1	2	7	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	2566764	A	T	2566764	4	4	192	1	0	0	0	0	0	1	0	0	2540	131	5	5	667	5	CACNA1C	12	2566764	Nonsense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08		2566764	131285131	45	10711											
STAT6	6778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57493192	57493192	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacaggtctttggcagaGaatggctggatgttctctat	9	13	13	6	0	2	1	0	0	2	1	3	4	2	3	0	5	0	3	0	5	2	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	57493192	G	T	57493192	3	4	192	1	0	0	0	0	1	0	0	0	15271	933	33	4	795	4	STAT6	12	57493192	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	54926428	57493192	76358703	46	10712											
ANKS1B	56899	broad.mit.edu;hgsc.bcm.edu	37	chr12	100378000	100378000	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcgagcagcttccagcagctCctggtccttccccatagtct	6	10	9	16	1	1	0	0	0	1	0	5	1	5	0	5	1	4	4	5	1	1	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	100378000	C	G	100378000	3	3	192	1	0	0	0	0	1	0	0	0	689	864	30	4	4122	4	ANKS1B	12	100378000	Missense_Mutation	SNP	C	TCGA-B8-5163-01A-01D-1421-08	42884808	100378000	33473895	47	10713											
PRDM4	11108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108145591	108145591	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcgtctgctgcaaggtTgttgctcacagaatccacag	10	10	10	11	1	2	1	1	0	1	1	3	1	3	1	1	1	5	5	1	1	3	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	108145591	T	A	108145591	3	1	192	1	0	0	0	0	1	0	0	0	12461	1812	63	5	1710	5	PRDM4	12	108145591	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	7767591	108145591	25706304	48	10714											
NUDT15	55270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	48619890	48619890	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggctatgatccatttaaAgaagatctgaaccatctggt	14	11	8	8	0	2	4	0	2	2	2	3	4	3	4	2	2	1	1	2	2	6	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	48619890	A	G	48619890	2	3	192	1	0	0	0	0	0	0	0	1	10731	69	3	3		3	NUDT15	13	48619890	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08		48619890	66549988	49	10715											
DCT	1638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95114377	95114377	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgtttcttcccatttgAtttcttctcagcaaaccttc	7	18	4	12	0	3	1	1	1	3	0	6	1	4	1	2	0	3	3	2	0	1	6	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	95114377	A	C	95114377	3	2	192	1	0	0	0	0	1	0	0	0	4304	330	12	5	752	5	DCT	13	95114377	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	46494487	95114377	20055501	50	10716											
BRMS1L	84312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	36304068	36304068	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaatctatagagagctctGcttagaatctgtaaagaaca	16	10	9	6	0	3	3	0	0	3	3	3	5	3	4	0	1	3	3	0	1	8	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	36304068	G	T	36304068	3	4	192	1	0	0	0	0	1	0	0	0	1517	1319	46	4	394	4	BRMS1L	14	36304068	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		36304068	71045472	51	10717											
MTHFD1	4522	hgsc.bcm.edu	37	chr14	64891617	64891617	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactcctgttcctggcggcGtagggcccatgacagttgca	6	10	12	13	2	1	1	1	1	0	0	3	1	3	1	3	3	1	4	3	3	1	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	64891617	G	A	64891617	3	1	192	1	0	0	0	0	1	0	0	0	9927	1145	40	1	857	1	MTHFD1	14	64891617	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	28587549	64891617	42457923	52	10718											
PSEN1	5663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	73685985	73685985	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccaattagcattccatcaAttttatatctagcatatttg	13	16	4	8	0	2	0	1	0	1	0	3	1	3	0	2	0	2	2	2	0	7	8	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	73685985	A	G	73685985	2	3	192	1	0	0	0	0	0	0	0	1	12652	98	4	3		3	PSEN1	14	73685985	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08	8794368	73685985	33663555	53	10719											
ACOT6	641372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74086150	74086150	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaagtcaggatttctcacTtttatggacacttggagcaa	12	13	8	8	0	2	0	2	0	1	0	3	3	2	3	0	3	1	1	0	3	3	5	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	74086150	T	C	74086150	2	2	192	1	0	0	0	0	0	0	0	1	154	1596	56	3		3	ACOT6	14	74086150	Silent	SNP	T	TCGA-B8-5163-01A-01D-1421-08	400165	74086150	33263390	54	10720											
ADAM10	102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	58925400	58925400	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagacaatacttactggggAtccaaagttatgtccaactt	13	13	7	8	0	0	1	0	0	0	1	2	2	2	2	2	2	3	1	2	2	7	5	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	58925400	A	G	58925400	3	3	192	1	0	0	0	0	1	0	0	0	234	333	12	3	1107	3	ADAM10	15	58925400	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08		58925400	43605992	55	10721											
MYO1E	4643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59464119	59464119	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggacacagacaagatccgTtctatctcgattttccgctt	10	12	8	11	3	2	2	0	0	2	2	5	4	4	3	2	1	0	2	2	1	2	5	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	59464119	T	A	59464119	3	1	192	1	0	0	0	0	1	0	0	0	10072	1722	60	5	897	5	MYO1E	15	59464119	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	538719	59464119	43067273	56	10722											
ELMO3	79767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67236114	67236114	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagccgcgaggacaagcaCgagtgcccctttgcccgggg	8	4	15	14	4	0	0	0	0	0	0	0	3	0	1	4	3	5	2	4	3	1	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	67236114	C	T	67236114	2	4	192	1	0	0	0	0	0	0	0	1	5067	535	19	1		1	ELMO3	16	67236114	Silent	SNP	C	TCGA-B8-5163-01A-01D-1421-08		67236114	23118639	57	10723											
KRBA2	124751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8274814	8274814	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagcagcttcagcaggacTggggaagagacaagagaggg	15	3	17	6	0	1	3	1	0	0	3	1	7	1	5	0	4	3	3	0	4	3	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	8274814	T	G	8274814	2	3	192	1	0	0	0	0	0	0	0	1	8440	1567	55	5		5	KRBA2	17	8274814	Silent	SNP	T	TCGA-B8-5163-01A-01D-1421-08		8274814	72920396	58	10724											
TBC1D29	26083	broad.mit.edu;hgsc.bcm.edu	37	chr17	28887640	28887640	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactttccccacagatctcTctcgggctcaccccgtgcct	5	11	6	19	2	3	1	1	0	2	1	6	1	4	1	5	1	2	1	5	1	1	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	28887640	T	C	28887640	2	2	192	1	0	0	0	0	0	0	0	1	15617	1538	54	3		3	TBC1D29	17	28887640	Silent	SNP	T	TCGA-B8-5163-01A-01D-1421-08	20612826	28887640	52307570	59	10725											
ATAD5	79915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29220506	29220506	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcaacaaaaagtatgaaTtgtcttgctaggaaacactc	16	9	8	8	0	1	1	0	1	1	0	2	2	1	2	0	1	4	4	0	1	7	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	29220506	T	A	29220506	3	1	192	1	0	0	0	0	1	0	0	0	1076	1490	52	5	4717	5	ATAD5	17	29220506	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	332866	29220506	51974704	60	10726											
STARD3	10948	broad.mit.edu;hgsc.bcm.edu	37	chr17	37815807	37815807	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagtttgagaagaataatGtaagaagccctctcccacct	14	9	9	9	0	1	3	0	1	1	3	2	5	1	4	3	1	1	2	3	1	6	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	37815807	G	A	37815807	5	1	192	1	0	0	0	0	0	0	1	0	15258	1391	48	2	839	2	STARD3	17	37815807	Splice_Site	SNP	G	TCGA-B8-5163-01A-01D-1421-08	8595301	37815807	43379403	61	10727											
KRT28	162605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38953169	38953169	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttcgctgtcacctaccGtggccatcagggactgcagc	7	8	11	15	2	2	0	2	0	0	0	3	2	2	1	4	2	3	2	4	2	1	2	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	38953169	G	T	38953169	3	4	192	1	0	0	0	0	1	0	0	0	8465	1159	40	4	433	4	KRT28	17	38953169	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	1137362	38953169	42242041	62	10728											
KRTAP4-1	85285	broad.mit.edu;ucsc.edu	37	chr17	39340703	39340703	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagctggggcggcagcaaGttgcacggcagcaggtggtc	8	5	18	10	2	0	0	0	0	0	0	1	0	0	0	0	6	5	8	0	6	1	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	39340703	C	C	39340703	3	2	192	1	0	0	0	0	1	0	0	0	8548	1029	36	4	40	4	KRTAP4-1	17	39340703	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	387534	39340703	41854507	63	10729											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76475699	76475699	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccggggaagctcacagcaaAcacgcagaaatggcgctacc	13	3	12	13	3	1	1	1	0	0	1	1	2	1	2	2	3	4	4	2	3	4	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	76475699	A	T	76475699	3	4	192	1	0	0	0	0	1	0	0	0	4601	43	2	5	5748	5	DNAH17	17	76475699	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	37134996	76475699	4719511	64	10730											
CIB3	117286	broad.mit.edu	37	chr19	16279070	16279070	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catcctcagagaatacctggGcaatcctctggcggaagggg	10	7	13	11	1	2	1	1	0	1	1	4	3	4	2	3	5	1	1	3	5	4	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	16279070	T	T	16279070	3	4	192	1	0	0	0	0	1	0	0	0	3422	1203	42	4	351	4	CIB3	19	16279070	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08		16279070	42849913	65	10731											
CEACAM5	1048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42219626	42219626	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttacagatcaggggaaaAtctgaacctctcctgccacg	12	9	8	12	1	4	2	1	1	3	1	5	3	4	3	3	2	3	0	3	2	4	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	42219626	A	T	42219626	3	4	192	1	0	0	0	0	1	0	0	0	3195	101	4	5	775	5	CEACAM5	19	42219626	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	25940556	42219626	16909357	66	10732											
IRF2BP1	26145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46388204	46388204	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggaaccacaggggtattCggtgaagagcttcagctcga	10	7	14	10	3	1	2	1	1	0	1	3	4	1	3	2	4	3	3	2	4	3	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	46388204	C	A	46388204	4	1	192	1	0	0	0	0	0	1	0	0	7829	893	31	4	929	4	IRF2BP1	19	46388204	Nonsense_Mutation	SNP	C	TCGA-B8-5163-01A-01D-1421-08	4168578	46388204	12740779	67	10733											
ZNF418	147686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58439174	58439174	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtactgattctggtgcggAcggtttgaactatcatacaa	11	12	11	7	2	2	2	1	2	1	0	2	3	2	3	0	4	4	2	0	4	5	5	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	58439174	A	T	58439174	2	4	192	1	0	0	0	0	0	0	0	1	17894	262	10	5		5	ZNF418	19	58439174	Silent	SNP	A	TCGA-B8-5163-01A-01D-1421-08	12050970	58439174	689809	68	10734											
NCOA6	23054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33337368	33337368	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgttagcgtgacatccttaTtgactgggaagcctggattt	8	14	11	8	2	0	2	0	2	0	0	2	4	1	4	2	2	2	1	2	2	3	4	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	33337368	T	A	33337368	3	1	192	1	0	0	0	0	1	0	0	0	10233	1493	52	5	3589	5	NCOA6	20	33337368	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08		33337368	29688152	69	10735			1	14		2	2	41	T		9.432074e-05
NCOA6	23054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33337408	33337408	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaccacaggacatctgatTtccattgggagctccactga	10	11	9	11	0	1	3	0	3	1	0	3	5	3	5	3	2	1	1	3	2	0	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		A	33337408	T	A	33337408	3	1	192	1	0	0	0	0	1	0	0	0	10233	1841	64	5	3629	5	NCOA6	20	33337408	Missense_Mutation	SNP	T	TCGA-B8-5163-01A-01D-1421-08	40	33337408	29688112	70	10736			1	14		2	2	41	T		9.432074e-05
SRMS	6725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62174694	62174694	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgcagggctgcagcaggggGttctggatcagcttccagtt	7	10	15	9	0	2	0	1	0	1	0	3	1	3	1	1	4	4	7	1	4	0	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		T	62174694	G	T	62174694	3	4	192	1	0	0	0	0	1	0	0	0	15153	1252	44	4	872	4	SRMS	20	62174694	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	28837286	62174694	850826	71	10737											
XG	7499	hgsc.bcm.edu;ucsc.edu	37	chrX	2688594	2688594	+	Frame_Shift_Del	DEL	A	A	-																															ctgtttgctcccaataggtcAaagagactttgatttggcag																								novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		-	2688594	A	-	2688594	7	5	192	1	0	1	0	1	0	0	0	0	17426	130	5	0	71	0	XG	23	2688594	Frame_Shift_Del	DEL	A	TCGA-B8-5163-01A-01D-1421-08		2688594	152581966	72	10738											
KIF4A	24137	broad.mit.edu;hgsc.bcm.edu	37	chrX	69595153	69595153	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaaacttctgaaactaaaGgaatccacagagcgtactgt	15	9	7	10	1	1	2	0	1	1	1	3	3	3	3	2	1	4	1	2	1	6	3	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		C	69595153	G	C	69595153	3	2	192	1	0	0	0	0	1	0	0	0	8303	991	35	4	1940	4	KIF4A	23	69595153	Missense_Mutation	SNP	G	TCGA-B8-5163-01A-01D-1421-08	66906559	69595153	85675407	73	10739											
SRPK3	26576	hgsc.bcm.edu	37	chrX	153047253	153047253	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggggcattacacggagAcagctgtggatgagatcaag	11	7	16	7	2	1	2	1	1	0	2	1	5	1	3	0	4	3	2	0	4	2	1	novel		TCGA-B8-5163-01A-01D-1421-08	TCGA-B8-5163-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	903132ef-877f-4207-ba28-2e9dd765c824	9e3d0ca6-9520-4e25-8db3-cf51008a0314		G	153047253	A	G	153047253	3	3	192	1	0	0	0	0	1	0	0	0	15162	275	10	3	369	3	SRPK3	23	153047253	Missense_Mutation	SNP	A	TCGA-B8-5163-01A-01D-1421-08	83452100	153047253	2223307	74	10740											
RPA2	6118	broad.mit.edu	37	chr1	28240591	28240591	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgatttcttttcggcttGagaaggtgcgggcgatccaa	8	13	12	8	3	1	2	0	2	1	1	3	4	2	2	1	3	2	1	1	3	3	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	28240591	T	T	28240591	3	4	193	1	0	0	0	0	1	0	0	0	13539	1299	45	4	744	4	RPA2	1	28240591	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08		28240591	221010030	1	10741											
CSF3R	1441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36932909	36932909	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttggccagaggggattcttCctgctggagaagggggcagg	7	8	18	8	0	1	2	0	0	1	2	2	4	2	3	2	7	1	2	2	7	1	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	36932909	C	T	36932909	2	4	193	1	0	0	0	0	0	0	0	1	3937	855	30	2		2	CSF3R	1	36932909	Silent	SNP	C	TCGA-B8-5164-01A-01D-1421-08	8692318	36932909	212317712	2	10742											
RLF	6018	hgsc.bcm.edu;ucsc.edu	37	chr1	40703457	40703458	+	Frame_Shift_Del	DEL	AT	AT	-																															ctccccagatgaaggtctagAtcacaatattcacattaaat																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		-	40703458	AT	-	40703457	7	5	193	1	0	1	0	1	0	0	0	0	13391	333	12	0	3113	0	RLF	1	40703457	Frame_Shift_Del	DEL	AT	TCGA-B8-5164-01A-01D-1421-08	3770548	40703457	208547164	3	10743											
ZFYVE9	9372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	52703253	52703253	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttaaccctactttggccaGtgtgaatgaatctgcagttt	10	15	8	8	0	1	2	0	2	1	0	1	2	1	2	2	1	3	2	2	1	4	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	52703253	G	C	52703253	3	2	193	1	0	0	0	0	1	0	0	0	17670	1029	36	4	170	4	ZFYVE9	1	52703253	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	11999796	52703253	196547368	4	10744											
BRDT	676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	92470112	92470112	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtaaaagctcggacacagGaactcatacggaagcatttg	16	7	10	8	2	1	0	1	0	0	0	2	3	1	3	0	3	4	3	0	3	6	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	92470112	G	T	92470112	4	4	193	1	0	0	0	0	0	1	0	0	1508	1175	41	4	2592	4	BRDT	1	92470112	Nonsense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	39766859	92470112	156780509	5	10745											
CELSR2	1952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109795801	109795801	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccttttcaacaactatGtcaccaatcgctcaagcagc	13	10	5	13	1	3	1	3	0	0	1	5	1	4	1	2	0	4	2	2	0	5	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	109795801	G	A	109795801	3	1	193	1	0	0	0	0	1	0	0	0	3222	1377	48	2	3102	2	CELSR2	1	109795801	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	17325689	109795801	139454820	6	10746											
ADAM30	11085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120437279	120437279	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagggatggtttcaacatTtatacactgtagcctgccac	11	12	8	10	0	2	0	2	0	0	0	2	1	2	1	2	2	4	2	2	2	4	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	120437279	T	G	120437279	3	3	193	1	0	0	0	0	1	0	0	0	248	1841	64	5	695	5	ADAM30	1	120437279	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	10641478	120437279	128813342	7	10747											
CTSE	1510	hgsc.bcm.edu;ucsc.edu	37	chr1	206320203	206320203	+	Frame_Shift_Del	DEL	A	A	-																															cagtgcacttctttccagagAcgcacagcaggttccagcct																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		-	206320203	A	-	206320203	7	5	193	1	0	1	0	1	0	0	0	0	4033	275	10	0	360	0	CTSE	1	206320203	Frame_Shift_Del	DEL	A	TCGA-B8-5164-01A-01D-1421-08	85882924	206320203	42930418	8	10748											
OTOF	9381	broad.mit.edu	37	chr2	26698885	26698885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctggtacatgtgcgctCggagctggaacgcctgcttc	5	9	15	12	3	0	0	0	0	0	0	2	2	0	2	2	4	5	4	2	4	2	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	26698885	A	A	26698885	3	1	193	1	0	0	0	0	1	0	0	0	11303	884	31	4	3382	4	OTOF	2	26698885	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08		26698885	216500488	9	10749											
SNX17	9784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27598997	27598997	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgatgagcatctgcttgCagtccatggttgatgaactg	9	13	11	8	0	2	4	1	4	1	0	3	4	3	4	1	1	4	4	1	1	1	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	27598997	C	G	27598997	3	3	193	1	0	0	0	0	1	0	0	0	14890	711	25	4	1175	4	SNX17	2	27598997	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	900112	27598997	215600376	10	10750											
STON1-GTF2A1L	286749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48809434	48809434	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacatggcctcattggcgcaGaggtcatcctatgctggttc	8	11	11	11	1	2	1	2	0	0	1	4	1	3	1	2	4	2	3	2	4	2	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	48809434	G	A	48809434	2	1	193	1	0	0	0	0	0	0	0	1	15318	933	33	2		2	STON1-GTF2A1L	2	48809434	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08	21210437	48809434	194389939	11	10751											
WDR92	116143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	68384457	68384457	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgacgccggtgccccgtGcgaagttgcccatggtcaca	8	7	13	13	4	1	1	1	1	0	0	1	3	1	1	4	2	3	1	4	2	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	68384457	G	C	68384457	3	2	193	1	0	0	0	0	1	0	0	0	17338	1319	46	4	986	4	WDR92	2	68384457	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	19575023	68384457	174814916	12	10752											
XRCC5	7520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	217001838	217001838	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgcactttcctccctgAttcatgctttggatgactta	7	16	7	11	0	1	2	1	2	0	0	3	3	3	3	2	1	2	3	2	1	1	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	217001838	A	C	217001838	3	2	193	1	0	0	0	0	1	0	0	0	17455	333	12	5	1183	5	XRCC5	2	217001838	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08	148617381	217001838	26197535	13	10753											
TTLL4	9654	hgsc.bcm.edu	37	chr2	219602963	219602964	+	Frame_Shift_Ins	INS	-	-	G																															acctctgcttggcagcggctINSggggaaaacccttcagggaa																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	219602964	-	G	219602963	7	5	193	1	0	1	1	0	0	0	0	0	16728	1567	55	0	566	0	TTLL4	2	219602963	Frame_Shift_Ins	INS	-	TCGA-B8-5164-01A-01D-1421-08	2601125	219602963	23596410	14	10754											
NDUFA10	4705	broad.mit.edu	37	chr2	240960806	240960806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgtctggataatgaatccCcgcttcaggaaagtgcttga	11	11	10	9	1	2	2	1	2	1	0	3	4	3	4	2	2	1	2	2	2	3	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	240960806	A	A	240960806	3	1	193	1	0	0	0	0	1	0	0	0	10260	623	22	4	831	4	NDUFA10	2	240960806	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	21357843	240960806	2238567	15	10755											
FGD5	152273	broad.mit.edu	37	chr3	14964675	14964675	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcagggctgtcccgggcctGatgagaggtaacctggggac	7	6	18	10	1	0	2	0	2	0	1	1	4	1	3	3	6	1	3	3	6	1	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	14964675	C	C	14964675	2	2	193	1	0	0	0	0	0	0	0	1	5836	1277	45	4		4	FGD5	3	14964675	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08		14964675	183057755	16	10756											
CHDH	55349	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53853056	53853056	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acactcgtgccccgcatgggCcccacatgtacctagaagaa	11	6	9	15	2	0	2	0	0	0	2	1	2	0	2	5	1	2	2	5	1	4	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	53853056	C	A	53853056	2	1	193	1	0	0	0	0	0	0	0	1	3333	726	26	4		4	CHDH	3	53853056	Silent	SNP	C	TCGA-B8-5164-01A-01D-1421-08	38888381	53853056	144169374	17	10757											
FLNB	2317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	57994561	57994561	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcgagttcctggaccgtgaGagcatcaagctcgtgtccat	8	10	11	12	3	1	1	1	1	0	1	5	4	3	2	3	1	2	3	3	1	1	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	57994561	G	C	57994561	3	2	193	1	0	0	0	0	1	0	0	0	5934	933	33	4	272	4	FLNB	3	57994561	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	4141505	57994561	140027869	18	10758											
MYLK	4638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	123451941	123451941	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacttcaggctttggaaTcccggaaactacagggccag	10	7	12	12	1	1	0	1	0	0	0	2	2	2	2	3	5	2	1	3	5	3	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	123451941	T	G	123451941	3	3	193	1	0	0	0	0	1	0	0	0	10056	1435	50	5	4522	5	MYLK	3	123451941	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	65457380	123451941	74570489	19	10759											
EEFSEC	60678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	127983506	127983506	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgagagatccctcgggacCgttcctcatgtctgtggacc	8	9	11	13	3	2	1	1	0	1	1	5	5	4	3	4	2	1	1	4	2	1	1	rs142548867	byfrequency	TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	127983506	C	T	127983506	3	4	193	1	0	0	0	0	1	0	0	0	4931	652	23	1	682	1	EEFSEC	3	127983506	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	4531565	127983506	70038924	20	10760											
XRN1	54464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142098968	142098968	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagattgggttcacatggaaTgctgaaaatcacacgaatcc	15	9	9	8	1	2	2	2	1	0	1	3	4	3	3	1	2	1	2	1	2	5	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	142098968	T	A	142098968	3	1	193	1	0	0	0	0	1	0	0	0	17458	1464	51	5	2529	5	XRN1	3	142098968	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	14115462	142098968	55923462	21	10761											
DRD5	1816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	9784959	9784959	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggagggtcctttcgatCgcatgttccagatctatcag	9	11	12	9	2	2	1	1	0	1	1	6	4	4	3	2	3	0	2	2	3	1	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	9784959	C	A	9784959	3	1	193	1	0	0	0	0	1	0	0	0	4760	884	31	4	1308	4	DRD5	4	9784959	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08		9784959	181369317	22	10762											
PCDH7	5099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	31144197	31144197	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccggtccgcacttctcCggagaggaagaagagccagc	10	5	14	12	3	1	3	0	0	1	3	3	6	2	4	4	3	3	1	4	3	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	31144197	C	T	31144197	3	4	193	1	0	0	0	0	1	0	0	0	11516	652	23	1	3589	1	PCDH7	4	31144197	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	21359238	31144197	160010079	23	10763											
C5orf22	55322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	31538433	31538433	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgaagaccagctagagaaCcaaaaacctttacaattgga	17	7	7	10	0	0	3	0	1	0	2	0	5	0	4	4	1	4	1	4	1	7	4	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	31538433	C	G	31538433	3	3	193	1	0	0	0	0	1	0	0	0	2285	506	18	4	458	4	C5orf22	5	31538433	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08		31538433	149376827	24	10764											
KIF2A	3796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	61643911	61643911	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttcacttaaccctgacCttgttcctgatgaagaaatt	10	16	5	10	0	2	4	1	3	1	1	3	4	3	4	3	0	1	1	3	0	3	6	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	61643911	C	A	61643911	3	1	193	1	0	0	0	0	1	0	0	0	8297	681	24	4	206	4	KIF2A	5	61643911	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	30105478	61643911	119271349	25	10765											
RGNEF	0	broad.mit.edu;ucsc.edu	37	chr5	73193844	73193844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgccgtgagtcaatcatGtgaggacagttgtggagact	9	9	16	7	2	2	3	2	2	0	1	2	5	2	4	1	3	0	1	1	3	1	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	73193844	A	A	73193844	3	1	193	1	0	0	0	0	1	0	0	0	13285	1377	48	2	4013	2	RGNEF	5	73193844	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	11549933	73193844	107721416	26	10766											
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu	37	chr5	141243175	141243175	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctttgcttttgtttccCttggaggccttgccactggg	2	17	11	11	0	0	0	0	0	0	0	1	1	1	1	4	3	3	2	4	3	0	7	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	141243175	C	G	141243175	3	3	193	1	0	0	0	0	1	0	0	0	11506	680	24	4	1088	4	PCDH1	5	141243175	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	68049331	141243175	39672085	27	10767											
ADRB2	154	hgsc.bcm.edu;ucsc.edu	37	chr5	148207202	148207202	+	Frame_Shift_Del	DEL	A	A	-																															agttctgcttgaaggagcacAaagccctcaagacgttaggc																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		-	148207202	A	-	148207202	7	5	193	1	0	1	0	1	0	0	0	0	341	131	5	0	810	0	ADRB2	5	148207202	Frame_Shift_Del	DEL	A	TCGA-B8-5164-01A-01D-1421-08	6964027	148207202	32708058	28	10768											
AFAP1L1	134265	broad.mit.edu;hgsc.bcm.edu	37	chr5	148685923	148685923	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactatgaggacgcagacaGcagctaccctgcaaccaggg	12	5	11	13	1	0	2	0	1	0	1	0	3	0	3	2	2	6	4	2	2	4	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	148685923	G	T	148685923	3	4	193	1	0	0	0	0	1	0	0	0	354	971	34	4	513	4	AFAP1L1	5	148685923	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	478721	148685923	32229337	29	10769											
CPEB4	80315	hgsc.bcm.edu;ucsc.edu	37	chr5	173316872	173316874	+	In_Frame_Del	DEL	AAT	AAT	-																															ccagccctgctgcttttataAataataacacagctgccaat																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		-	173316874	AAT	-	173316872	7	5	193	1	0	1	0	1	0	0	0	0	3803	14	1	0	138	0	CPEB4	5	173316872	In_Frame_Del	DEL	AAT	TCGA-B8-5164-01A-01D-1421-08	24630949	173316872	7598388	30	10770											
CDKAL1	54901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	20781422	20781422	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaaaggataatggaaggcgGcttgggggagcacgattgga	14	6	17	4	2	0	0	0	0	0	0	0	5	0	4	0	7	1	2	0	7	4	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	20781422	G	C	20781422	2	2	193	1	0	0	0	0	0	0	0	1	3152	1190	42	4		4	CDKAL1	6	20781422	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08		20781422	150333645	31	10771											
TXLNB	167838	hgsc.bcm.edu;ucsc.edu	37	chr6	139583897	139583899	+	In_Frame_Del	DEL	TGA	TGA	-																															cttcttcctcacgtgcccgcTgaagcgcctcttcctgcgga																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		-	139583899	TGA	-	139583897	7	5	193	1	0	1	0	1	0	0	0	0	16787	1580	55	0	1377	0	TXLNB	6	139583897	In_Frame_Del	DEL	TGA	TCGA-B8-5164-01A-01D-1421-08	118802475	139583897	31531170	32	10772											
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21904264	21904264	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaacttctcagtcatggAgtgctatcaaggtatgttag	10	14	9	8	0	3	0	3	0	1	0	5	1	4	1	1	2	2	3	1	2	5	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	21904264	A	C	21904264	3	2	193	1	0	0	0	0	1	0	0	0	4599	304	11	5	11785	5	DNAH11	7	21904264	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08		21904264	137234399	33	10773											
POM121	9883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	72413614	72413614	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	acgtgcctacgcccatccatCctatctttggcggtgccacg	6	10	9	16	4	1	0	0	0	1	0	3	0	3	0	5	2	3	0	5	2	2	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	72413614	C	G	72413614	3	3	193	1	0	0	0	0	1	0	0	0	12239	855	30	4	2325	4	POM121	7	72413614	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	50509350	72413614	86725049	34	10774											
ABCB1	5243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	87175282	87175282	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaaaccagcgatgacgtcaGcattacgaactgtagacaaa	16	6	9	10	4	1	2	1	1	0	1	1	5	1	2	1	0	5	2	1	0	5	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	87175282	G	C	87175282	3	2	193	1	0	0	0	0	1	0	0	0	40	971	34	4	2114	4	ABCB1	7	87175282	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	14761668	87175282	71963381	35	10775											
SLC26A5	375611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	103033397	103033397	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacctggtagccatgtttaTttgctaaggtcttggccatg	8	14	10	9	0	1	0	0	0	1	0	1	0	1	0	3	3	3	3	3	3	4	6	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	103033397	T	G	103033397	3	3	193	1	0	0	0	0	1	0	0	0	14522	1493	52	5	1231	5	SLC26A5	7	103033397	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	15858115	103033397	56105266	36	10776											
OPN1SW	611	broad.mit.edu;hgsc.bcm.edu	37	chr7	128413772	128413772	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggagaagaatgaaggaatGgtgacaagccgtaagtccag	15	7	14	5	1	0	4	0	2	0	2	1	6	1	5	2	3	1	1	2	3	6	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	128413772	G	T	128413772	2	4	193	1	0	0	0	0	0	0	0	1	10880	1335	47	4		4	OPN1SW	7	128413772	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08	25380375	128413772	30724891	37	10777											
RB1CC1	9821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	53554925	53554925	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttactgtacagacatcatGcttgtctccattgctgaatc	10	14	6	11	0	2	2	1	1	1	1	4	2	2	2	1	0	4	3	1	0	3	4	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	53554925	G	A	53554925	2	1	193	1	0	0	0	0	0	0	0	1	13101	1310	46	2		2	RB1CC1	8	53554925	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08		53554925	92809097	38	10778											
NSMAF	8439	broad.mit.edu;hgsc.bcm.edu	37	chr8	59514096	59514096	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatttcctggtagcgtgtcTagaatacagaaaaaaaaaaa	18	9	8	6	1	1	2	0	0	1	2	2	2	2	2	1	1	2	2	1	1	9	4	rs112233809	alternate_allele	TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	59514096	T	C	59514096	5	2	193	1	0	0	0	0	0	0	1	0	10674	1536	53	3	1697	3	NSMAF	8	59514096	Splice_Site	SNP	T	TCGA-B8-5164-01A-01D-1421-08	5959171	59514096	86849926	39	10779											
DOCK8	81704	hgsc.bcm.edu;ucsc.edu	37	chr9	418160	418160	+	Frame_Shift_Del	DEL	G	G	-																															atgtggctctggccatagcaGggaataatttcaatttgaaa																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		-	418160	G	-	418160	7	5	193	1	0	1	0	1	0	0	0	0	4693	1000	35	0	3911	0	DOCK8	9	418160	Frame_Shift_Del	DEL	G	TCGA-B8-5164-01A-01D-1421-08		418160	140795271	40	10780											
LINGO2	158038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	27949564	27949564	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaactgcagggtgggctgtCgctgcaagatccagagaagg	11	6	15	9	1	0	2	0	0	0	2	2	3	1	2	1	3	3	4	1	3	3	0	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	27949564	C	T	27949564	3	4	193	1	0	0	0	0	1	0	0	0	8815	884	31	1	718	1	LINGO2	9	27949564	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	27531404	27949564	113263867	41	10781											
DDX58	23586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32480246	32480246	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgagtaagatcttgctcaAtctcatcgaatcctgctgct	9	14	7	11	1	4	2	2	1	3	1	7	3	5	2	1	0	3	4	1	0	3	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	32480246	A	T	32480246	3	4	193	1	0	0	0	0	1	0	0	0	4375	101	4	5	1060	5	DDX58	9	32480246	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08	4530682	32480246	108733185	42	10782											
ALDOB	229	broad.mit.edu;ucsc.edu	37	chr9	104192184	104192184	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acagagaagaggatttctcgGaactgccggcggttctcttc	9	10	12	10	3	2	2	0	0	2	2	5	5	2	4	1	4	2	1	1	4	2	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	104192184	A	A	104192184	2	1	193	1	0	0	0	0	0	0	0	1	508	1165	41	2		2	ALDOB	9	104192184	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08	71711938	104192184	37021247	43	10783											
SLC2A8	29988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130167742	130167742	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccctggctcctcatgtcAgagatcttccctctgcatgt	6	13	7	15	0	4	1	2	0	2	1	7	2	7	1	4	1	1	2	4	1	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	130167742	A	G	130167742	2	3	193	1	0	0	0	0	0	0	0	1	14553	175	7	3		3	SLC2A8	9	130167742	Silent	SNP	A	TCGA-B8-5164-01A-01D-1421-08	25975558	130167742	11045689	44	10784											
PRKCQ	5588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6520965	6520965	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccataccttggtctggaAtgtacaaaacatgtgcgtca	13	10	9	9	1	2	0	1	0	1	0	2	1	2	1	2	2	5	1	2	2	6	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	6520965	A	C	6520965	3	2	193	1	0	0	0	0	1	0	0	0	12517	101	4	5	806	5	PRKCQ	10	6520965	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08		6520965	129013782	45	10785											
HELLS	3070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96350261	96350261	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagatgatttccctaatgAattggaaaaactgatcagtc	16	12	7	6	0	1	4	1	3	0	1	3	5	2	5	1	1	1	0	1	1	6	4	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	96350261	A	C	96350261	3	2	193	1	0	0	0	0	1	0	0	0	7046	246	9	5	1634	5	HELLS	10	96350261	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08	89829296	96350261	39184486	46	10786											
C10orf137	26098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	127426983	127426983	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagggggtcccgaggggctAgagaagcagatggccttgtt	9	7	18	7	1	0	3	0	0	0	3	1	5	1	3	2	5	1	3	2	5	2	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	127426983	A	T	127426983	2	4	193	1	0	0	0	0	0	0	0	1	1594	407	15	5		5	C10orf137	10	127426983	Silent	SNP	A	TCGA-B8-5164-01A-01D-1421-08	31076722	127426983	8107764	47	10787											
FOXI2	399823	broad.mit.edu;ucsc.edu	37	chr10	129536797	129536797	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcaggtaaaggcaattaCtggaccctggaccccaactg	11	8	10	12	0	1	0	0	0	1	0	1	2	1	2	3	4	3	3	3	4	5	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	129536797	T	T	129536797	2	4	193	1	0	0	0	0	0	0	0	1	6010	576	20	2		2	FOXI2	10	129536797	Silent	SNP	C	TCGA-B8-5164-01A-01D-1421-08	2109814	129536797	5997950	48	10788											
CHID1	66005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	869878	869878	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagagcaggtcgtagaagtAgtccaggccctggcccagct	9	7	13	12	1	0	2	0	0	0	2	2	2	1	2	3	3	2	4	3	3	4	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	869878	A	T	869878	3	4	193	1	0	0	0	0	1	0	0	0	3345	420	15	5	23	5	CHID1	11	869878	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08		869878	134136638	49	10789											
VWF	7450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6204658	6204658	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggagatgttgcatgAgctgctgggaggagatgccc	9	7	16	9	0	0	4	0	1	0	3	0	7	0	5	2	3	4	4	2	3	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	6204658	A	T	6204658	3	4	193	1	0	0	0	0	1	0	0	0	17245	304	11	5	8004	5	VWF	12	6204658	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08		6204658	127647237	50	10790											
RND1	27289	broad.mit.edu	37	chr12	49259538	49259538	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgactggctggggggcccGtctctccttcatggttgcag	4	10	14	13	2	2	0	1	0	1	0	4	1	3	0	2	5	1	3	2	5	0	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	49259538	C	C	49259538	3	2	193	1	0	0	0	0	1	0	0	0	13421	1144	40	4	705	4	RND1	12	49259538	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	43054880	49259538	84592357	51	10791											
LIMA1	51474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50571732	50571732	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgttttcatttttgcttgcCcatagatccttgtgtggtct	4	20	8	9	1	2	1	1	0	1	1	4	1	3	1	2	1	2	2	2	1	1	7	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	50571732	C	T	50571732	4	4	193	1	0	0	0	0	0	1	0	0	8796	624	22	2	888	2	LIMA1	12	50571732	Nonsense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	1312194	50571732	83280163	52	10792											
KRT2	3849	hgsc.bcm.edu	37	chr12	53045840	53045840	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctccggcttccaccagaCaccacagctgagccgctgct	8	7	9	17	2	1	2	0	1	1	1	3	3	2	2	5	1	3	4	5	1	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	53045840	C	A	53045840	2	1	193	1	0	0	0	0	0	0	0	1	8457	465	17	4		4	KRT2	12	53045840	Silent	SNP	C	TCGA-B8-5164-01A-01D-1421-08	2474108	53045840	80806055	53	10793											
POMP	51371	broad.mit.edu;hgsc.bcm.edu	37	chr13	29238707	29238707	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaattatcagaaaaaaatGtaagtatattattatgtcct	17	16	5	3	0	1	2	1	1	0	1	2	2	2	2	1	0	0	2	1	0	10	7	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	29238707	G	T	29238707	5	4	193	1	0	0	0	0	0	0	1	0	12244	1391	48	4	173	4	POMP	13	29238707	Splice_Site	SNP	G	TCGA-B8-5164-01A-01D-1421-08		29238707	85931171	54	10794											
DZIP1	22873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	96238362	96238362	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggaaacatcttttcaacTttttcagtaggtgttttaac	10	18	7	6	0	3	0	2	0	1	0	3	1	3	1	0	2	3	2	0	2	4	7	rs181395665	by1000genomes	TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	96238362	T	C	96238362	2	2	193	1	0	0	0	0	0	0	0	1	4863	1606	56	3		3	DZIP1	13	96238362	Silent	SNP	T	TCGA-B8-5164-01A-01D-1421-08	66999655	96238362	18931516	55	10795											
C15orf55	256646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34647722	34647722	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactcatggccttggaagagGaggaagatgcagaggcgcct	11	6	16	8	1	1	3	1	0	0	3	1	7	1	6	2	5	1	1	2	5	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	34647722	G	T	34647722	4	4	193	1	0	0	0	0	0	1	0	0	1803	1175	41	4	1455	4	C15orf55	15	34647722	Nonsense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08		34647722	67883670	56	10796											
DAPK2	23604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	64218210	64218210	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctggctgaagaattcctCatcaaagtcgtaactcactg	11	11	8	11	2	4	2	3	1	1	1	6	2	5	2	1	1	1	2	1	1	4	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	64218210	C	A	64218210	4	1	193	1	0	0	0	0	0	1	0	0	4236	835	29	4	390	4	DAPK2	15	64218210	Nonsense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	29570488	64218210	38313182	57	10797											
CYP1A2	1544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75042368	75042368	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctggacaccatccggcagGccctggtgcggcagggcgac	6	4	16	15	3	0	0	0	0	0	0	1	2	1	1	4	6	1	2	4	6	0	0	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	75042368	G	A	75042368	3	1	193	1	0	0	0	0	1	0	0	0	4150	1203	42	2	291	2	CYP1A2	15	75042368	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	10824158	75042368	27489024	58	10798											
CHD2	1106	hgsc.bcm.edu	37	chr15	93545457	93545457	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaaacagaagaagaaagaGaacaaggagaacaaggagaa	27	0	11	3	0	0	6	0	0	0	6	0	9	0	6	0	2	3	0	0	2	11	0	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	93545457	G	A	93545457	2	1	193	1	0	0	0	0	0	0	0	1	3325	933	33	2		2	CHD2	15	93545457	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08	18503089	93545457	8985935	59	10799											
ANKS3	124401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4780097	4780097	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagcccgtgccacatggaCaagctgcggttcaggagttc	8	7	13	13	3	1	0	1	0	0	0	2	3	1	2	3	3	4	3	3	3	1	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	4780097	C	A	4780097	3	1	193	1	0	0	0	0	1	0	0	0	690	477	17	4	1976	4	ANKS3	16	4780097	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08		4780097	85574656	60	10800											
KIAA0430	9665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15711240	15711240	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	taattgggctgcaattcgtgGaggagccgtcgtgtgactgg	7	11	16	7	3	0	1	0	1	0	0	2	3	0	3	1	4	2	2	1	4	2	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	15711240	G	C	15711240	3	2	193	1	0	0	0	0	1	0	0	0	8177	1174	41	4	2411	4	KIAA0430	16	15711240	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	10931143	15711240	74643513	61	10801											
SETD1A	9739	broad.mit.edu;hgsc.bcm.edu	37	chr16	30990969	30990969	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacatcggacgaggccgagCgccctaggcccctgctcagc	8	4	13	16	4	1	1	1	0	0	1	2	4	1	2	4	3	3	1	4	3	1	1	rs147948503	byfrequency;alternate_allele	TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	30990969	C	A	30990969	3	1	193	1	0	0	0	0	1	0	0	0	14132	768	27	4	3912	4	SETD1A	16	30990969	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	15279729	30990969	59363784	62	10802											
ITGAD	3681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31435255	31435255	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttcaccctgaagggcaaTctcagtttcggctgggtccg	7	11	12	11	2	2	1	2	1	1	0	5	2	3	1	2	3	0	3	2	3	2	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	31435255	T	G	31435255	3	3	193	1	0	0	0	0	1	0	0	0	7884	1432	50	5	3241	5	ITGAD	16	31435255	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	444286	31435255	58919498	63	10803											
PRSS54	221191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58314590	58314590	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcacgtctcaccaccgaaGttcaggactcctctcagaac	10	7	9	15	2	3	1	3	0	2	1	6	3	4	2	3	2	1	2	3	2	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	58314590	G	A	58314590	2	1	193	1	0	0	0	0	0	0	0	1	12635	1020	36	2		2	PRSS54	16	58314590	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08	26879335	58314590	32040163	64	10804											
ATP2A3	489	broad.mit.edu;hgsc.bcm.edu	37	chr17	3851044	3851044	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcgctgcagcggcgtccGctcgggctcgactgccgcca	3	7	14	17	7	0	0	0	0	0	0	3	1	1	0	3	2	4	4	3	2	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	3851044	G	T	3851044	2	4	193	1	0	0	0	0	0	0	0	1	1138	1086	38	4		4	ATP2A3	17	3851044	Silent	SNP	G	TCGA-B8-5164-01A-01D-1421-08		3851044	77344166	65	10805											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7661862	7661862	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccctattcaaagagcgtAttcggctcctggataagaag	12	9	11	9	2	1	2	1	0	0	2	3	3	2	3	2	3	1	2	2	3	5	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	7661862	A	T	7661862	3	4	193	1	0	0	0	0	1	0	0	0	4602	449	16	5	2151	5	DNAH2	17	7661862	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08	3810818	7661862	73533348	66	10806											
EPN2	22905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	19186485	19186485	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaacatcgtgaacaattactCagaggcagaaatcaaagtcc	18	7	7	9	1	2	3	2	1	0	2	4	3	3	3	1	1	3	1	1	1	6	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	19186485	C	T	19186485	3	4	193	1	0	0	0	0	1	0	0	0	5186	838	29	2	55	2	EPN2	17	19186485	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	11524623	19186485	62008725	67	10807											
MMP28	79148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34093555	34093555	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagttggcatgccagcaGcccatccagggcagctcggt	7	6	13	15	2	0	0	0	0	0	0	2	1	1	0	4	3	4	5	4	3	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	34093555	G	A	34093555	3	1	193	1	0	0	0	0	1	0	0	0	9665	958	34	2	39	2	MMP28	17	34093555	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	14907070	34093555	47101655	68	10808											
CCDC40	55036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78013722	78013722	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcaattgaagagggggagGtggagacagaaggggaagca	14	4	19	4	0	0	4	0	1	0	3	0	7	0	6	0	6	2	2	0	6	4	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	78013722	G	C	78013722	3	2	193	1	0	0	0	0	1	0	0	0	2812	1261	44	4	215	4	CCDC40	17	78013722	Missense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	43920167	78013722	3181488	69	10809											
SIRT7	51547	broad.mit.edu	37	chr17	79875994	79875994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcgctcggagcggctcagaCccccggctgccatcgctccc	4	6	12	19	5	1	1	1	0	0	1	4	2	2	2	4	3	3	4	4	3	0	0	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	79875994	T	T	79875994	3	4	193	1	0	0	0	0	1	0	0	0	14345	507	18	2	1228	2	SIRT7	17	79875994	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	1862272	79875994	1319216	70	10810											
ARHGAP28	79822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6870684	6870684	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacggaggctctaaaaagaAataaacttaagaaatcagag	20	8	8	5	1	2	3	1	0	1	3	2	4	2	4	0	2	2	1	0	2	9	4	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	6870684	A	C	6870684	3	2	193	1	0	0	0	0	1	0	0	0	877	14	1	5	448	5	ARHGAP28	18	6870684	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08		6870684	71206564	71	10811											
SLC39A6	25800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33694147	33694147	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacgccggcatctttcagctCctcccgagagtagcgctggc	6	8	12	15	4	2	1	1	0	1	1	4	3	4	1	3	2	2	4	3	2	1	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	33694147	C	T	33694147	3	4	193	1	0	0	0	0	1	0	0	0	14624	864	30	2	539	2	SLC39A6	18	33694147	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	26823463	33694147	44383101	72	10812											
PTPRS	5802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5244419	5244419	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacacaggatctgggttgcCcgagtcccacgtgatggtga	8	8	15	10	2	1	2	0	2	1	0	2	5	2	4	2	4	1	1	2	4	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	5244419	C	A	5244419	3	1	193	1	0	0	0	0	1	0	0	0	12813	623	22	4	4895	4	PTPRS	19	5244419	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08		5244419	53884564	73	10813											
CYP4F12	66002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15784434	15784434	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgggctcctggctactcgCccgcatcctggcttggacct	3	11	12	15	2	0	0	0	0	0	0	3	1	2	1	4	4	1	4	4	4	1	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	15784434	C	T	15784434	3	4	193	1	0	0	0	0	1	0	0	0	4187	739	26	2	97	2	CYP4F12	19	15784434	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	10540015	15784434	43344549	74	10814											
PLD3	23646	broad.mit.edu;hgsc.bcm.edu	37	chr19	40873738	40873738	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacatcgcctccttctactgGaccctcaccaacaatgacac	11	8	5	17	1	2	1	1	1	1	0	4	3	3	2	4	1	2	0	4	1	3	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	40873738	G	A	40873738	4	1	193	1	0	0	0	0	0	1	0	0	12047	1183	41	2	395	2	PLD3	19	40873738	Nonsense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08	25089304	40873738	18255245	75	10815											
SFRS16	0	broad.mit.edu	37	chr19	45562555	45562555	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacgtggatgaattgaacCaggagcaggtggcagatctc	11	8	15	7	1	1	3	0	2	1	1	2	6	1	6	1	5	2	2	1	5	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	45562555	A	A	45562555	3	1	193	1	0	0	0	0	1	0	0	0	14174	595	21	4	669	4	SFRS16	19	45562555	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	4688817	45562555	13566428	76	10816											
KLK5	25818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51453328	51453328	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcccagagggcacggtgtTagaggggtggtcacaggaaa	10	6	17	8	1	1	2	1	0	0	2	2	3	2	3	1	6	0	3	1	6	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	51453328	T	G	51453328	3	3	193	1	0	0	0	0	1	0	0	0	8407	1754	61	5	779	5	KLK5	19	51453328	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	5890773	51453328	7675655	77	10817											
FIZ1	84922	broad.mit.edu	37	chr19	56104632	56104632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcgggcacttgaagggcttCacgtcggtgtgcgccgccca	5	7	15	14	6	1	1	1	1	0	0	2	1	1	1	2	3	1	2	2	3	1	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	56104632	T	T	56104632	2	4	193	1	0	0	0	0	0	0	0	1	5900	813	29	2		2	FIZ1	19	56104632	Silent	SNP	C	TCGA-B8-5164-01A-01D-1421-08	4651304	56104632	3024351	78	10818											
NLRP4	147945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56370366	56370366	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaattcaccagtgcctgaAgagcttaggggagcgtggca	11	7	14	9	1	1	2	1	1	0	1	1	3	1	3	2	3	3	3	2	3	3	2	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	56370366	A	G	56370366	3	3	193	1	0	0	0	0	1	0	0	0	10479	72	3	3	1613	3	NLRP4	19	56370366	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08	265734	56370366	2758617	79	10819											
CST11	140880	hgsc.bcm.edu;ucsc.edu	37	chr20	23432483	23432484	+	Frame_Shift_Ins	INS	-	-	T																															ccctttcctgggggacacagINSttcgtggtctctggcttttg																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	23432484	-	T	23432483	7	5	193	1	0	1	1	0	0	0	0	0	3971	1020	36	0	121	0	CST11	20	23432483	Frame_Shift_Ins	INS	-	TCGA-B8-5164-01A-01D-1421-08		23432483	39593037	80	10820											
DHX35	60625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37630475	37630475	+	Missense_Mutation	SNP	T	T	A																															catttccggtggatatctttTatctacaaaggtttgatgat																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	37630475	T	A	37630475	3	1	193	1	0	0	0	0	1	0	0	0	4508	1754	61	5	779	5	DHX35	20	37630475	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	14197992	37630475	25395045	81	10821	163	2									
DHX35	60625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37630476	37630476	+	Missense_Mutation	SNP	A	A	T																															atttccggtggatatcttttAtctacaaaggtttgatgatg																								novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		T	37630476	A	T	37630476	3	4	193	1	0	0	0	0	1	0	0	0	4508	449	16	5	780	5	DHX35	20	37630476	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08	1	37630476	25395044	82	10822	163	2									
ZNFX1	57169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47887899	47887899	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtctttctgcagaagactTtctaagaacttgtagcccag	10	12	10	9	0	3	3	0	0	3	3	3	3	3	3	1	1	3	2	1	1	4	5	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	47887899	T	G	47887899	3	3	193	1	0	0	0	0	1	0	0	0	18204	1838	64	5	5354	5	ZNFX1	20	47887899	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-1421-08	10257423	47887899	15137621	83	10823											
LAMA5	3911	hgsc.bcm.edu	37	chr20	60902342	60902342	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtacagctcggggaaagcctCgggcacagcctcaggcacgt	9	5	14	13	3	1	0	1	0	0	0	3	1	1	1	2	4	4	4	2	4	2	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	60902342	C	G	60902342	3	3	193	1	0	0	0	0	1	0	0	0	8609	893	31	4	6200	4	LAMA5	20	60902342	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	13014443	60902342	2123178	84	10824											
ABCG1	9619	broad.mit.edu;hgsc.bcm.edu	37	chr21	43711704	43711704	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgccgcgctgggcaccAtgacctccctggtggcacag	5	9	13	14	2	0	1	0	1	0	0	1	1	1	1	4	3	1	4	4	3	0	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	43711704	A	C	43711704	3	2	193	1	0	0	0	0	1	0	0	0	68	217	8	5	1845	5	ABCG1	21	43711704	Missense_Mutation	SNP	A	TCGA-B8-5164-01A-01D-1421-08		43711704	4418191	85	10825											
MED15	51586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	20921042	20921042	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagtcgcagacccagcctTtggtgtcacaggcgcaagct	9	7	11	14	2	1	1	1	0	0	1	2	1	1	1	2	2	2	3	2	2	1	1	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		C	20921042	T	C	20921042	2	2	193	1	0	0	0	0	0	0	0	1	9433	1838	64	3		3	MED15	22	20921042	Silent	SNP	T	TCGA-B8-5164-01A-01D-1421-08		20921042	30383524	86	10826											
UXT	8409	broad.mit.edu	37	chrX	47518230	47518230	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccgcactgtcactcaccGcaagtcccgctgcagcacgt	7	6	8	20	4	2	0	2	0	0	0	3	0	3	0	4	0	2	5	4	0	1	0	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		A	47518230	A	A	47518230	4	1	193	1	0	0	0	0	0	1	0	0	17109	1101	38	1	400	1	UXT	23	47518230	Nonsense_Mutation	SNP	G	TCGA-B8-5164-01A-01D-1421-08		47518230	107752330	87	10827											
PJA1	64219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	68382325	68382325	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tttgggcctgaccacaggttCctctgcactctttgaggtgt	5	14	11	11	0	2	2	0	2	2	0	3	2	3	2	3	3	1	2	3	3	0	3	novel		TCGA-B8-5164-01A-01D-1421-08	TCGA-B8-5164-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6f8341c0-3a29-4ba5-9ba9-d23aeb845761	c3830c9f-cb3e-4870-9b9d-584a84ddedd7		G	68382325	C	G	68382325	3	3	193	1	0	0	0	0	1	0	0	0	11961	864	30	4	1178	4	PJA1	23	68382325	Missense_Mutation	SNP	C	TCGA-B8-5164-01A-01D-1421-08	20864095	68382325	86888235	88	10828											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-B8-5164-01A-01D-2099-10	TCGA-B8-5164-10A-01W-1476-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq	.	.	PacBio RS	4eaedfa1-0ea0-4c65-8151-246ee30d0281	5f407634-cb71-404f-83a5-92c695fbd62a		A	10183797	T	A	10183797	3	1	194	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-B8-5164-01A-01D-2099-10		10183797	187838633	1	10829											
LGR6	59352	broad.mit.edu;hgsc.bcm.edu	37	chr1	202287589	202287589	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccccactctgcctgcccTacgcgccacctgagggtcag	5	7	9	20	2	2	1	1	1	1	0	3	1	3	1	7	1	3	0	7	1	1	1	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		G	202287589	T	G	202287589	3	3	195	1	0	0	0	0	1	0	0	0	8758	1522	53	5	2375	5	LGR6	1	202287589	Missense_Mutation	SNP	T	TCGA-B8-5165-01A-01D-1421-08		202287589	46963032	1	10830											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188321	10188321	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccaatatcacactgccagGtactgacgttttacttttta	10	15	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	5	7	rs5030814	bycluster;alternate_allele	TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		T	10188321	G	T	10188321	5	4	195	1	0	0	0	0	0	0	1	0	17161	1275	44	4	470	4	VHL	3	10188321	Splice_Site	SNP	G	TCGA-B8-5165-01A-01D-1421-08		10188321	187834109	2	10831											
C3orf62	375341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49314185	49314185	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctctgctggcctgtgcActcctgggaataactaactc	8	10	9	14	0	1	0	0	0	1	0	3	1	2	1	3	2	5	2	3	2	3	2	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		G	49314185	A	G	49314185	3	3	195	1	0	0	0	0	1	0	0	0	2238	159	6	3	694	3	C3orf62	3	49314185	Missense_Mutation	SNP	A	TCGA-B8-5165-01A-01D-1421-08	39125864	49314185	148708245	3	10832											
CDH18	1016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	19483487	19483487	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgaggacaggaaggcttctGcatggcaggtccgcacacgc	9	5	14	13	3	1	0	0	0	1	0	2	3	2	2	2	5	1	4	2	5	1	1	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		C	19483487	G	C	19483487	3	2	195	1	0	0	0	0	1	0	0	0	3103	1328	46	4	575	4	CDH18	5	19483487	Missense_Mutation	SNP	G	TCGA-B8-5165-01A-01D-1421-08		19483487	161431773	4	10833											
SAR1B	51128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	133948437	133948437	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgccagcaatggtcagtTcttcggaagctaaataagat	13	11	9	8	1	3	1	2	0	1	1	4	2	3	2	1	2	3	3	1	2	5	4	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		A	133948437	T	A	133948437	3	1	195	1	0	0	0	0	1	0	0	0	13842	1783	62	5	424	5	SAR1B	5	133948437	Missense_Mutation	SNP	T	TCGA-B8-5165-01A-01D-1421-08	114464950	133948437	46966823	5	10834											
PCDHGB3	56102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140751808	140751808	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccagcgagcccgggcTgttcagcctgggcctgcgca	5	5	16	15	3	1	0	1	0	0	0	1	1	1	0	4	3	4	4	4	3	0	1	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		A	140751808	T	A	140751808	3	1	195	1	0	0	0	0	1	0	0	0	11564	1580	55	5	1849	5	PCDHGB3	5	140751808	Missense_Mutation	SNP	T	TCGA-B8-5165-01A-01D-1421-08	6803371	140751808	40163452	6	10835											
SLC34A1	6569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176825284	176825284	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacaatgccacccgcctCtaggctgtgggcccagacta	9	6	9	17	1	1	1	0	0	1	1	1	1	1	1	5	2	1	1	5	2	3	2	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		A	176825284	C	A	176825284	2	1	195	1	0	0	0	0	0	0	0	1	14569	900	32	4		4	SLC34A1	5	176825284	Silent	SNP	C	TCGA-B8-5165-01A-01D-1421-08	36073476	176825284	4089976	7	10836											
RIPK1	8737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	3113551	3113551	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgaccttctgagcagctTgatttacgtcagccagaact	10	11	9	11	2	2	3	1	2	1	1	3	5	2	3	2	0	5	2	2	0	2	4	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		A	3113551	T	A	3113551	4	1	195	1	0	0	0	0	0	1	0	0	13382	1821	63	5	2032	5	RIPK1	6	3113551	Nonsense_Mutation	SNP	T	TCGA-B8-5165-01A-01D-1421-08		3113551	168001516	8	10837											
RING1	6015	broad.mit.edu	37	chr6	33180123	33180123	+	Frame_Shift_Del	DEL	A	-	-																															tggtgaatgagaaattctggAaggtgtcccggccactggag																								novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		-	33180123	-	-	33180123	7	5	195	1	0	1	0	1	0	0	0	0	13376	247	9	0	1190	0	RING1	6	33180123	Frame_Shift_Del	DEL	A	TCGA-B8-5165-01A-01D-1421-08	30066572	33180123	137934944	9	10838											
TRHR	7201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110131518	110131518	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcagaagccaacagagaAacctgctaactacagtgtgg	16	5	10	10	0	0	2	0	0	0	2	0	3	0	2	2	1	7	2	2	1	6	2	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		C	110131518	A	C	110131518	3	2	195	1	0	0	0	0	1	0	0	0	16479	14	1	5	1037	5	TRHR	8	110131518	Missense_Mutation	SNP	A	TCGA-B8-5165-01A-01D-1421-08		110131518	36232504	10	10839											
C9orf117	286207	broad.mit.edu	37	chr9	130475074	130475074	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaactgctggtcatgctCagctccactgtggccacgag	8	8	11	14	1	2	0	2	0	0	0	3	1	3	0	2	2	5	4	2	2	1	0	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		A	130475074	A	A	130475074	2	1	195	1	0	0	0	0	0	0	0	1	2451	813	29	4		4	C9orf117	9	130475074	Silent	SNP	C	TCGA-B8-5165-01A-01D-1421-08		130475074	10738357	11	10840											
GSTO1	9446	hgsc.bcm.edu	37	chr10	106022830	106022832	+	In_Frame_Del	DEL	GAG	GAG	-																															gtaaagaatttaccaagctaGaggaggtaattatttctcct																								rs72323784	bycluster;by1000genomes	TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		-	106022832	GAG	-	106022830	7	5	195	1	0	1	0	1	0	0	0	0	6842	943	33	0	474	0	GSTO1	10	106022830	In_Frame_Del	DEL	GAG	TCGA-B8-5165-01A-01D-1421-08		106022830	29511917	12	10841											
NPAT	4863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108040715	108040715	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	accacagatactgggatcatCcctaccattccttggagtac	11	10	7	13	0	1	1	1	0	0	1	3	3	3	3	4	2	3	1	4	2	3	5	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		G	108040715	C	G	108040715	2	3	195	1	0	0	0	0	0	0	0	1	10566	842	30	4		4	NPAT	11	108040715	Silent	SNP	C	TCGA-B8-5165-01A-01D-1421-08		108040715	26965801	13	10842											
SLC37A4	2542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118897701	118897701	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagaactggccccagtcagTacagcaggtctttactccaa	12	8	9	12	0	2	1	1	0	1	1	3	2	3	1	3	2	4	2	3	2	5	3	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		C	118897701	T	C	118897701	3	2	195	1	0	0	0	0	1	0	0	0	14602	1638	57	3	649	3	SLC37A4	11	118897701	Missense_Mutation	SNP	T	TCGA-B8-5165-01A-01D-1421-08	10856986	118897701	16108815	14	10843											
SLC38A1	81539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	46623010	46623010	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccataatggcgttgctTaggttaaaaacagacatgcc	12	10	9	10	1	0	1	0	0	0	1	0	1	0	1	2	2	4	3	2	2	5	4	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		C	46623010	T	C	46623010	2	2	195	1	0	0	0	0	0	0	0	1	14603	1741	61	3		3	SLC38A1	12	46623010	Silent	SNP	T	TCGA-B8-5165-01A-01D-1421-08		46623010	87228885	15	10844											
KRT84	3890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52774232	52774232	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	attcatcagctcctggtactCgcacagctgccgcgccatgt	7	10	9	15	3	2	0	2	0	0	0	4	0	3	0	3	1	4	4	3	1	1	2	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		G	52774232	C	G	52774232	3	3	195	1	0	0	0	0	1	0	0	0	8498	893	31	4	475	4	KRT84	12	52774232	Missense_Mutation	SNP	C	TCGA-B8-5165-01A-01D-1421-08	6151222	52774232	81077663	16	10845											
ERBB3	2065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56495609	56495609	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaatatatgaatcggcaaCgagatggaggtggtcctggg	12	9	15	5	2	0	3	0	2	0	1	2	5	1	4	1	5	1	1	1	5	5	2	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		T	56495609	C	T	56495609	4	4	195	1	0	0	0	0	0	1	0	0	5208	528	19	1	4040	1	ERBB3	12	56495609	Nonsense_Mutation	SNP	C	TCGA-B8-5165-01A-01D-1421-08	3721377	56495609	77356286	17	10846											
LRRC37B	114659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30348328	30348328	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtcttcccgctcctcccatCtcccatgggaatctccccat	5	11	6	19	1	3	0	0	0	3	0	8	1	6	1	6	2	0	1	6	2	1	1	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		T	30348328	C	T	30348328	3	4	195	1	0	0	0	0	1	0	0	0	8994	913	32	2	165	2	LRRC37B	17	30348328	Missense_Mutation	SNP	C	TCGA-B8-5165-01A-01D-1421-08		30348328	50846882	18	10847											
DUSP14	11072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35872566	35872566	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgctaccattgagatcccTaatttcaactggccccaatt	12	12	5	12	0	1	1	1	1	0	1	2	2	2	1	4	1	3	1	4	1	5	5	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		C	35872566	T	C	35872566	2	2	195	1	0	0	0	0	0	0	0	1	4814	1509	53	3		3	DUSP14	17	35872566	Silent	SNP	T	TCGA-B8-5165-01A-01D-1421-08	5524238	35872566	45322644	19	10848											
ZC3H4	23211	broad.mit.edu	37	chr19	47588443	47588443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcccctgccacggcctCgacttagccctgtggagggg	5	6	16	14	2	0	0	0	0	0	0	1	3	0	2	5	5	3	0	5	5	1	1	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		A	47588443	A	A	47588443	3	1	195	1	0	0	0	0	1	0	0	0	17569	884	31	4	2966	4	ZC3H4	19	47588443	Missense_Mutation	SNP	C	TCGA-B8-5165-01A-01D-1421-08		47588443	11540540	20	10849											
SLC9A6	10479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135080323	135080323	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcctatcatattttaTgcaggttatagcctgaaaag	11	15	6	9	0	1	1	1	1	0	0	3	1	3	1	3	1	2	2	3	1	7	7	novel		TCGA-B8-5165-01A-01D-1421-08	TCGA-B8-5165-10A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d1579785-5c42-4bda-9825-15ead235f7f4	555a615b-6bd4-45d0-8766-35b8571fef2b		C	135080323	T	C	135080323	2	2	195	1	0	0	0	0	0	0	0	1	14720	1471	51	3		3	SLC9A6	23	135080323	Silent	SNP	T	TCGA-B8-5165-01A-01D-1421-08		135080323	20190237	21	10850											
CELA3A	10136	hgsc.bcm.edu	37	chr1	22333988	22333988	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatggtgtgtgctggagggTacatccgctccggctgcaac	6	9	14	12	2	0	0	0	0	0	0	2	1	2	1	3	4	4	5	3	4	2	1	rs112024506		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	22333988	T	G	22333988	3	3	196	1	0	0	0	0	1	0	0	0	3213	1638	57	5	644	5	CELA3A	1	22333988	Missense_Mutation	SNP	T	TCGA-B8-5545-01A-01D-1669-08		22333988	226916633	1	10851											
MAP4K3	8491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39519948	39519948	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctccttcatcatcttCtaaatgtgcgacgtgtcctc	8	15	5	13	2	6	0	3	0	3	0	9	1	7	0	2	0	1	0	2	0	2	3	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	39519948	C	A	39519948	4	1	196	1	0	0	0	0	0	1	0	0	9261	922	32	4	1515	4	MAP4K3	2	39519948	Nonsense_Mutation	SNP	C	TCGA-B8-5545-01A-01D-1669-08		39519948	203679425	2	10852											
SRGAP3	9901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9034602	9034602	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcctaccggcccatcaccCccccaaagccgtaatccgag	10	6	6	19	3	1	0	1	0	0	0	3	1	3	0	8	1	2	1	8	1	4	3	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	9034602	C	T	9034602	3	4	196	1	0	0	0	0	1	0	0	0	15148	623	22	2	765	2	SRGAP3	3	9034602	Missense_Mutation	SNP	C	TCGA-B8-5545-01A-01D-1669-08		9034602	188987828	3	10853											
PPARG	5468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	12422837	12422837	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtgcaatcaaagtggaGcctgcatctccaccttatta	12	10	8	11	0	2	0	1	0	1	0	3	1	2	1	3	2	3	2	3	2	4	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	12422837	G	A	12422837	2	1	196	1	0	0	0	0	0	0	0	1	12299	962	34	2		2	PPARG	3	12422837	Silent	SNP	G	TCGA-B8-5545-01A-01D-1669-08	3388235	12422837	185599593	4	10854											
PPP2R2C	5522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	6349697	6349697	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatgctgtgatcacctcCgtaaggtcctccatgttggc	7	12	10	12	1	2	2	2	1	0	1	5	2	5	2	4	2	1	3	4	2	1	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	6349697	C	T	6349697	2	4	196	1	0	0	0	0	0	0	0	1	12388	639	23	1		1	PPP2R2C	4	6349697	Silent	SNP	C	TCGA-B8-5545-01A-01D-1669-08		6349697	184804579	5	10855											
NFXL1	152518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47850290	47850290	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatagctcaactgccacttCatctcttttcctgttcttct	6	18	4	13	0	5	1	2	1	3	0	7	1	6	1	2	0	3	2	2	0	2	6	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	47850290	C	T	47850290	3	4	196	1	0	0	0	0	1	0	0	0	10388	835	29	2	113	2	NFXL1	4	47850290	Missense_Mutation	SNP	C	TCGA-B8-5545-01A-01D-1669-08	41500593	47850290	143303986	6	10856											
USO1	8615	hgsc.bcm.edu;ucsc.edu	37	chr4	76722353	76722353	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatatgattcgagagcaGgtaagtactaatgaactgta	18	10	9	4	1	0	3	0	2	0	1	1	4	0	3	0	1	3	4	0	1	8	6	rs324726	bycluster;byfrequency;by1000genomes	TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	76722353	G	A	76722353	3	1	196	1	0	0	0	0	1	0	0	0	17038	1014	35	2	1893	2	USO1	4	76722353	Missense_Mutation	SNP	G	TCGA-B8-5545-01A-01D-1669-08	28872063	76722353	114431923	7	10857											
BMP2K	55589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79832708	79832708	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcatcatggcacgccaactAgcacaaagaagactttgaag	15	6	10	10	1	1	3	1	1	0	2	1	3	1	3	1	2	2	3	1	2	5	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	79832708	A	G	79832708	3	3	196	1	0	0	0	0	1	0	0	0	1460	420	15	3	3107	3	BMP2K	4	79832708	Missense_Mutation	SNP	A	TCGA-B8-5545-01A-01D-1669-08	3110355	79832708	111321568	8	10858											
GMPR	2766	hgsc.bcm.edu	37	chr6	16295417	16295418	+	Frame_Shift_Ins	INS	-	-	C																															acaacaccgtgttcagctaaINSccctggggacaaagcagcgt																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		C	16295418	-	C	16295417	7	5	196	1	0	1	1	0	0	0	0	0	6496	50	2	0	1072	0	GMPR	6	16295417	Frame_Shift_Ins	INS	-	TCGA-B8-5545-01A-01D-1669-08		16295417	154819650	9	10859											
CASP8AP2	9994	hgsc.bcm.edu;ucsc.edu	37	chr6	90577024	90577035	+	In_Frame_Del	DEL	AAGACTCCAGAG	AAGACTCCAGAG	-																															aaaaaagtgagtgggagttaAagactccagagaagcagctg																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	AAGACTCCAGAG	AAGACTCCAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		-	90577035	AAGACTCCAGAG	-	90577024	7	5	196	1	0	1	0	1	0	0	0	0	2678	15	1	0	4041	0	CASP8AP2	6	90577024	In_Frame_Del	DEL	AAGACTCCAGAG	TCGA-B8-5545-01A-01D-1669-08	74281607	90577024	80538043	10	10860											
GLI3	2737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	42116424	42116424	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctggcatcaattggtacagGaggatggaaggcagggaaaa	14	7	15	5	0	2	0	1	0	1	0	2	4	2	4	0	7	1	3	0	7	5	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	42116424	G	A	42116424	3	1	196	1	0	0	0	0	1	0	0	0	6439	1174	41	2	4390	2	GLI3	7	42116424	Missense_Mutation	SNP	G	TCGA-B8-5545-01A-01D-1669-08		42116424	117022239	11	10861											
TCEB1	6921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	74858967	74858967	+	Nonsense_Mutation	SNP	G	G	T																															ctgttagtgtagcgaaccttGtacgtaaaatacatgcatac																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	74858967	G	T	74858967	4	4	196	1	0	0	0	0	0	1	0	0	15678	1372	48	4	105	4	TCEB1	8	74858967	Nonsense_Mutation	SNP	G	TCGA-B8-5545-01A-01D-1669-08		74858967	71505055	12	10862	164	2									
TCEB1	6921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	74858968	74858968	+	Missense_Mutation	SNP	T	T	A																															tgttagtgtagcgaaccttgTacgtaaaatacatgcatact																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	74858968	T	A	74858968	3	1	196	1	0	0	0	0	1	0	0	0	15678	1638	57	5	106	5	TCEB1	8	74858968	Missense_Mutation	SNP	T	TCGA-B8-5545-01A-01D-1669-08	1	74858968	71505054	13	10863	164	2									
IARS	3376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95012199	95012199	+	Missense_Mutation	SNP	T	T	A																															agcttctggatcttgatggaTaaccacaatttctttcaaag																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	95012199	T	A	95012199	3	1	196	1	0	0	0	0	1	0	0	0	7473	1406	49	5	1271	5	IARS	9	95012199	Missense_Mutation	SNP	T	TCGA-B8-5545-01A-01D-1669-08		95012199	46201232	14	10864	165	2									
IARS	3376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95012201	95012201	+	Missense_Mutation	SNP	A	A	G																															cttctggatcttgatggataAccacaatttctttcaaagga																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	95012201	A	G	95012201	3	3	196	1	0	0	0	0	1	0	0	0	7473	43	2	3	1273	3	IARS	9	95012201	Missense_Mutation	SNP	A	TCGA-B8-5545-01A-01D-1669-08	2	95012201	46201230	15	10865	165	2									
CUBN	8029	broad.mit.edu	37	chr10	16919092	16919092	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcttcccgtcacagcggaAcgagctggaaaaggcatgga	12	5	13	11	3	1	0	1	0	0	0	2	4	2	3	1	4	4	3	1	4	3	1	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	16919092	G	G	16919092	2	3	196	1	0	0	0	0	0	0	0	1	4051	30	2	3		3	CUBN	10	16919092	Silent	SNP	A	TCGA-B8-5545-01A-01D-1669-08		16919092	118615655	16	10866											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61835269	61835269	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaaggagttcttagagaCtgaaaagctgatggtgctgc	11	9	15	6	1	1	3	0	2	1	1	1	6	1	5	0	3	3	3	0	3	4	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	61835269	C	T	61835269	2	4	196	1	0	0	0	0	0	0	0	1	622	564	20	2		2	ANK3	10	61835269	Silent	SNP	C	TCGA-B8-5545-01A-01D-1669-08	44916177	61835269	73699478	17	10867											
COL17A1	1308	hgsc.bcm.edu	37	chr10	105816869	105816895	+	In_Frame_Del	DEL	GCCACCAACACCGCCACCTCCTCCACT	GCCACCAACACCGCCACCTCCTCCACT	-																															ccccaagggccgccgccagcGccaccaacaccgccacctcc																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	GCCACCAACACCGCCACCTCCTCCACT	GCCACCAACACCGCCACCTCCTCCACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		-	105816895	GCCACCAACACCGCCACCTCCTCCACT	-	105816869	7	5	196	1	0	1	0	1	0	0	0	0	3674	1074	38	0	3324	0	COL17A1	10	105816869	In_Frame_Del	DEL	GCCACCAACACCGCCACCTCCTCCACT	TCGA-B8-5545-01A-01D-1669-08	43981600	105816869	29717878	18	10868											
LGR4	55366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	27390552	27390552	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcaagcctataaacaatttgGacgaaggcagtgatgtacaa	16	9	9	7	1	1	1	1	1	0	0	1	3	1	2	1	2	3	2	1	2	8	4	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	27390552	G	A	27390552	3	1	196	1	0	0	0	0	1	0	0	0	8756	1174	41	2	1141	2	LGR4	11	27390552	Missense_Mutation	SNP	G	TCGA-B8-5545-01A-01D-1669-08		27390552	107615964	19	10869											
SLITRK6	84189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	86370304	86370304	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgatatgaagttgtttcaGgaggccaaggccattaaatg	13	12	11	5	0	1	2	1	2	0	0	1	3	1	3	2	3	0	2	2	3	5	5	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		A	86370304	G	A	86370304	2	1	196	1	0	0	0	0	0	0	0	1	14749	991	35	2		2	SLITRK6	13	86370304	Silent	SNP	G	TCGA-B8-5545-01A-01D-1669-08		86370304	28799574	20	10870											
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75230960	75230960	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtccgccccccctggaaaTaagacaactgtccagcaaga	12	5	8	16	2	0	2	0	0	0	2	2	3	2	3	6	1	2	1	6	1	4	1	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	75230960	T	G	75230960	3	3	196	1	0	0	0	0	1	0	0	0	17485	1403	49	5	770	5	YLPM1	14	75230960	Missense_Mutation	SNP	T	TCGA-B8-5545-01A-01D-1669-08		75230960	32118580	21	10871											
TP53BP1	7158	hgsc.bcm.edu;ucsc.edu	37	chr15	43712740	43712741	+	Frame_Shift_Del	DEL	AG	AG	-																															tcctggagaggaggcatctaAgccatcagaagggccagcag																								novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		-	43712741	AG	-	43712740	7	5	196	1	0	1	0	1	0	0	0	0	16382	69	3	0	1521	0	TP53BP1	15	43712740	Frame_Shift_Del	DEL	AG	TCGA-B8-5545-01A-01D-1669-08		43712740	58818652	22	10872											
ATPAF2	91647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	17929649	17929649	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaccagatggtgtcggtgtCcagaaacttcacggctgccc	8	10	11	12	2	1	2	1	0	0	2	3	2	2	2	3	3	3	1	3	3	2	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	17929649	C	T	17929649	3	4	196	1	0	0	0	0	1	0	0	0	1201	855	30	2	483	2	ATPAF2	17	17929649	Missense_Mutation	SNP	C	TCGA-B8-5545-01A-01D-1669-08		17929649	63265561	23	10873											
SETBP1	26040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	42531246	42531246	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacccatgagcgagatgaaAtttcacaagaaagttggaaa	19	7	9	6	1	1	4	1	2	0	2	1	6	1	5	1	1	2	1	1	1	5	2	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	42531246	A	G	42531246	2	3	196	1	0	0	0	0	0	0	0	1	14131	98	4	3		3	SETBP1	18	42531246	Silent	SNP	A	TCGA-B8-5545-01A-01D-1669-08		42531246	35546002	24	10874											
MBP	4155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	74728852	74728852	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcccgatggagtcaaggAtgcccgtgtctctgtgcctt	6	10	13	12	3	2	0	1	0	1	0	3	3	2	2	3	2	3	0	3	2	1	1	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	74728852	A	G	74728852	3	3	196	1	0	0	0	0	1	0	0	0	9359	333	12	3	526	3	MBP	18	74728852	Missense_Mutation	SNP	A	TCGA-B8-5545-01A-01D-1669-08	32197606	74728852	3348396	25	10875											
FGD1	2245	broad.mit.edu	37	chrX	54475272	54475272	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccggcgctggggtgtatgCtggctgcaggctggactgct	3	10	17	11	2	0	0	0	0	0	0	1	1	1	1	1	6	3	7	1	6	1	1	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		T	54475272	T	T	54475272	2	4	196	1	0	0	0	0	0	0	0	1	5832	796	28	2		2	FGD1	23	54475272	Silent	SNP	C	TCGA-B8-5545-01A-01D-1669-08		54475272	100795288	26	10876											
BCORL1	63035	hgsc.bcm.edu	37	chrX	129149054	129149054	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtgccacgtgtggcaaaaAgggcagccaggctggtgctg	8	7	17	9	1	0	0	0	0	0	0	0	0	0	0	2	5	3	4	2	5	2	0	novel		TCGA-B8-5545-01A-01D-1669-08	TCGA-B8-5545-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	514d2342-64ba-4c9f-9866-63bdbc26fda3	887f29fa-dc06-49d0-8b25-00dbdc7016a6		G	129149054	A	G	129149054	3	3	196	1	0	0	0	0	1	0	0	0	1387	72	3	3	2316	3	BCORL1	23	129149054	Missense_Mutation	SNP	A	TCGA-B8-5545-01A-01D-1669-08	74673782	129149054	26121506	27	10877											
FAM131C	348487	hgsc.bcm.edu	37	chr1	16386008	16386008	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttggagctggacgatgccTtgggggctgttctcggggtg	3	11	18	9	2	1	0	0	0	1	0	2	3	1	2	2	6	2	3	2	6	0	3	rs2863452	bycluster;byfrequency;by1000genomes	TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		C	16386008	T	C	16386008	2	2	197	1	0	0	0	0	0	0	0	1	5441	1606	56	3		3	FAM131C	1	16386008	Silent	SNP	T	TCGA-B8-5546-01A-01D-1534-10		16386008	232864613	1	10878											
AIM1L	55057	hgsc.bcm.edu	37	chr1	26673138	26673139	+	In_Frame_Ins	INS	-	-	CCT																															ccgggccatgggcccacctgINScctcctccatgtggggccct																								novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		CCT	26673139	-	CCT	26673138	7	5	197	1	0	1	1	0	0	0	0	0	431	1334	46	0		0	AIM1L	1	26673138	In_Frame_Ins	INS	-	TCGA-B8-5546-01A-01D-1534-10	10287130	26673138	222577483	2	10879											
TGFBRAP1	9392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	105915065	105915065	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatgaattcgtcatcgagCgctatgacgtatggaaagga	12	10	13	6	4	1	3	1	3	0	0	3	6	1	5	0	2	1	2	0	2	4	3	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		T	105915065	C	T	105915065	2	4	197	1	0	0	0	0	0	0	0	1	15823	755	27	1		1	TGFBRAP1	2	105915065	Silent	SNP	C	TCGA-B8-5546-01A-01D-1534-10		105915065	137284308	3	10880											
STEAP3	55240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	120012306	120012306	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaggaggaggtctggcGgatggagatctacctctccc	7	8	17	9	1	3	1	0	0	3	1	4	6	3	5	2	8	1	0	2	8	1	1	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		A	120012306	G	A	120012306	3	1	197	1	0	0	0	0	1	0	0	0	15280	1116	39	1	1111	1	STEAP3	2	120012306	Missense_Mutation	SNP	G	TCGA-B8-5546-01A-01D-1534-10	14097241	120012306	123187067	4	10881											
CD200R1	131450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	112647851	112647851	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgcgcagctggcttccctGcaactgccttgcatactgca	7	11	9	14	1	0	0	0	0	0	0	1	0	1	0	2	1	8	6	2	1	3	4	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		A	112647851	G	A	112647851	3	1	197	1	0	0	0	0	1	0	0	0	2981	1319	46	2	481	2	CD200R1	3	112647851	Missense_Mutation	SNP	G	TCGA-B8-5546-01A-01D-1534-10		112647851	85374579	5	10882											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508452	195508452	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgtggatgctgaggaaggGctggtgacatgaagaggggt	9	8	19	5	0	0	4	0	3	0	1	0	6	0	6	1	6	1	2	1	6	2	0	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		T	195508452	G	T	195508452	3	4	197	1	0	0	0	0	1	0	0	0	9978	1194	42	4		4	MUC4	3	195508452	Missense_Mutation	SNP	G	TCGA-B8-5546-01A-01D-1534-10	82860601	195508452	2513978	6	10883											
ADCY2	108	hgsc.bcm.edu	37	chr5	7757684	7757715	+	Frame_Shift_Del	DEL	GGCCGTGTTCAACATGGTAAGTCCCAGAGCAC	GGCCGTGTTCAACATGGTAAGTCCCAGAGCAC	-																															acagccatcatattaatgatGgccgtgttcaacatggtaag																								novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	GGCCGTGTTCAACATGGTAAGTCCCAGAGCAC	GGCCGTGTTCAACATGGTAAGTCCCAGAGCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		-	7757715	GGCCGTGTTCAACATGGTAAGTCCCAGAGCAC	-	7757684	7	5	197	1	0	1	0	1	0	0	0	0	294	1348	47	0	2141	0	ADCY2	5	7757684	Frame_Shift_Del	DEL	GGCCGTGTTCAACATGGTAAGTCCCAGAGCAC	TCGA-B8-5546-01A-01D-1534-10		7757684	173157576	7	10884											
CAST	831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	96103643	96103643	+	Silent	SNP	T	T	C																															gaccaagaccccattgatgcTctctcaggagatctggacag																								novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		C	96103643	T	C	96103643	2	2	197	1	0	0	0	0	0	0	0	1	2684	1538	54	3		3	CAST	5	96103643	Silent	SNP	T	TCGA-B8-5546-01A-01D-1534-10	88345959	96103643	84811617	8	10885	166	2									
CAST	831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	96103644	96103644	+	Missense_Mutation	SNP	C	C	T																															accaagaccccattgatgctCtctcaggagatctggacagc																								novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		T	96103644	C	T	96103644	3	4	197	1	0	0	0	0	1	0	0	0	2684	913	32	2	2447	2	CAST	5	96103644	Missense_Mutation	SNP	C	TCGA-B8-5546-01A-01D-1534-10	1	96103644	84811616	9	10886	166	2									
DNAH8	1769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	38942198	38942198	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaaggtgtacgcgcaggtTtgaaaagaacatttgctgga	12	9	12	8	2	0	2	0	1	0	1	0	3	0	3	1	3	3	4	1	3	5	3	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		G	38942198	T	G	38942198	3	3	197	1	0	0	0	0	1	0	0	0	4607	1838	64	5	12398	5	DNAH8	6	38942198	Missense_Mutation	SNP	T	TCGA-B8-5546-01A-01D-1534-10		38942198	132172869	10	10887											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82582250	82582250	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacctcagtcttggaaacTtcagtagtgagaaactgtgt	13	11	10	7	0	3	1	2	1	1	1	3	4	3	2	1	1	3	1	1	1	4	3	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		G	82582250	T	G	82582250	3	3	197	1	0	0	0	0	1	0	0	0	11583	1606	56	5	7510	5	PCLO	7	82582250	Missense_Mutation	SNP	T	TCGA-B8-5546-01A-01D-1534-10		82582250	76556413	11	10888											
COL14A1	7373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	121282409	121282409	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagattggcacagatggaaCccaagtaaggctaataaata	18	7	9	7	0	0	2	0	0	0	2	0	3	0	3	1	3	1	3	1	3	8	5	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		A	121282409	C	A	121282409	3	1	197	1	0	0	0	0	1	0	0	0	3671	507	18	4	3307	4	COL14A1	8	121282409	Missense_Mutation	SNP	C	TCGA-B8-5546-01A-01D-1534-10		121282409	25081613	12	10889											
IGSF22	283284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18729752	18729752	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagggtcagggacaactcAcagagaaggctgcatggatg	12	6	15	8	0	3	1	3	0	0	1	3	4	3	3	0	4	2	2	0	4	2	0	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		G	18729752	A	G	18729752	5	3	197	1	0	0	0	0	0	0	1	0	7600	173	6	3	911	3	IGSF22	11	18729752	Splice_Site	SNP	A	TCGA-B8-5546-01A-01D-1534-10		18729752	116276764	13	10890											
GOLGA3	2802	broad.mit.edu;ucsc.edu	37	chr12	133374959	133374959	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgccgcgatgcgcccCttctccttcatggacctgtg	4	11	11	15	3	2	0	1	0	1	0	3	2	2	1	5	1	3	1	5	1	0	2	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		G	133374959	G	G	133374959	3	3	197	1	0	0	0	0	1	0	0	0	6554	680	24	4	2793	4	GOLGA3	12	133374959	Missense_Mutation	SNP	C	TCGA-B8-5546-01A-01D-1534-10		133374959	476936	14	10891											
NEUROD2	4761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37762561	37762561	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgcttcttgggccgctcgcCctccgcctcgtccagtcctt	1	11	10	19	5	1	0	0	0	1	0	6	0	4	0	6	1	0	2	6	1	0	3	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		T	37762561	C	T	37762561	3	4	197	1	0	0	0	0	1	0	0	0	10349	623	22	2	860	2	NEUROD2	17	37762561	Missense_Mutation	SNP	C	TCGA-B8-5546-01A-01D-1534-10		37762561	43432649	15	10892											
SUSD2	56241	broad.mit.edu	37	chr22	24577515	24577517	+	In_Frame_Del	DEL	CTG	-	-																															cagccctcctgccctgggccCtgctgctgctggcgacagcc																								novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		-	24577517	-	-	24577515	7	5	197	1	0	1	0	1	0	0	0	0	15407	680	24	0	30	0	SUSD2	22	24577515	In_Frame_Del	DEL	CTG	TCGA-B8-5546-01A-01D-1534-10		24577515	26727051	16	10893											
HPS4	89781	broad.mit.edu	37	chr22	26853885	26853885	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgctatgcatcaggctgacgGcctggaggaagcggcgatcc	8	6	15	12	4	1	1	1	1	0	0	2	4	2	3	2	5	2	3	2	5	2	1	novel		TCGA-B8-5546-01A-01D-1534-10	TCGA-B8-5546-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e3f75b12-27ee-4d38-bd72-f6e167a25da6	14556f56-ec45-48fe-96ef-cd4ff64ec294		T	26853885	T	T	26853885	3	4	197	1	0	0	0	0	1	0	0	0	7341	1203	42	4	239	4	HPS4	22	26853885	Missense_Mutation	SNP	G	TCGA-B8-5546-01A-01D-1534-10	2276370	26853885	24450681	17	10894											
NPPA	4878	broad.mit.edu;ucsc.edu	37	chr1	11907351	11907351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggcacctccatctctctggGctgggctgacttccccggtc	3	10	12	16	1	2	1	0	1	2	0	6	1	4	1	4	4	0	3	4	4	0	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	11907351	T	T	11907351	3	4	198	1	0	0	0	0	1	0	0	0	10591	1203	42	4	194	4	NPPA	1	11907351	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10		11907351	237343270	1	10895											
ARID1A	8289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27106271	27106271	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctagaggacgaaccccacaGtaaggatgagaccccactgt	13	5	10	13	1	0	2	0	1	0	2	0	6	0	4	5	2	1	1	5	2	3	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	27106271	G	A	27106271	3	1	198	1	0	0	0	0	1	0	0	0	913	1029	36	2	5960	2	ARID1A	1	27106271	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	15198920	27106271	222144350	2	10896											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39801310	39801310	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccatataaagagccaacCtagggaaatgacctcaagtg	15	7	8	11	0	1	2	1	1	0	1	2	3	2	3	4	1	2	0	4	1	7	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	39801310	C	A	39801310	3	1	198	1	0	0	0	0	1	0	0	0	9144	681	24	4	9141	4	MACF1	1	39801310	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	12695039	39801310	209449311	3	10897											
CCDC30	728621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43055004	43055004	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcaggaaacttctataTcagaacgtagatgagttaca	14	10	8	9	1	3	3	2	1	1	2	3	4	3	4	1	1	3	2	1	1	6	5	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	43055004	T	C	43055004	2	2	198	1	0	0	0	0	0	0	0	1	2805	1442	50	3		3	CCDC30	1	43055004	Silent	SNP	T	TCGA-B8-5549-01A-01D-1534-10	3253694	43055004	206195617	4	10898											
CCDC30	728621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43111913	43111913	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcactgaggtcttcaccagCaacaatgcagaactccagca	14	6	8	13	0	2	2	1	1	1	1	3	2	3	2	2	1	6	4	2	1	3	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	43111913	C	A	43111913	3	1	198	1	0	0	0	0	1	0	0	0	2805	709	25	4	2048	4	CCDC30	1	43111913	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	56909	43111913	206138708	5	10899											
PLK3	1263	broad.mit.edu	37	chr1	45269620	45269620	+	Frame_Shift_Del	DEL	C	-	-																															caggctccagcagcttctggCccagcccctgtcagcctggt																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	45269620	-	-	45269620	7	5	198	1	0	1	0	1	0	0	0	0	12097	726	26	0	1220	0	PLK3	1	45269620	Frame_Shift_Del	DEL	C	TCGA-B8-5549-01A-01D-1534-10	2157707	45269620	203981001	6	10900											
L1TD1	54596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62673128	62673128	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgattttgaacctaaattTctgtgtgaagttaaattagc	14	16	7	4	0	1	3	0	3	1	0	1	3	1	3	1	0	2	1	1	0	8	6	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	62673128	T	G	62673128	3	3	198	1	0	0	0	0	1	0	0	0	8589	1780	62	5	830	5	L1TD1	1	62673128	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10	17403508	62673128	186577493	7	10901											
ASH1L	55870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155385552	155385552	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactctgtagttttgtaaacGtcagaatacagccctgcttt	10	15	7	9	1	2	1	1	0	1	1	2	1	2	1	1	0	5	4	1	0	6	7	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	155385552	G	A	155385552	2	1	198	1	0	0	0	0	0	0	0	1	1041	1136	40	1		1	ASH1L	1	155385552	Silent	SNP	G	TCGA-B8-5549-01A-01D-1534-10	92712424	155385552	93865069	8	10902											
OR6K2	81448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158670428	158670428	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcctgaatggtggttcgAttggggctctccatctccaa	8	12	10	11	1	2	1	0	1	2	0	6	2	3	1	3	4	1	2	3	4	3	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	158670428	A	C	158670428	3	2	198	1	0	0	0	0	1	0	0	0	11202	330	12	5	963	5	OR6K2	1	158670428	Missense_Mutation	SNP	A	TCGA-B8-5549-01A-01D-1534-10	3284876	158670428	90580193	9	10903											
MARK1	4139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220835299	220835299	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatccgaaaagtgttagatGcaaataactgtgattatgag	17	11	9	4	1	0	3	0	2	0	1	1	4	1	3	1	0	2	2	1	0	7	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	220835299	G	T	220835299	3	4	198	1	0	0	0	0	1	0	0	0	9312	1319	46	4	2249	4	MARK1	1	220835299	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	62164871	220835299	28415322	10	10904											
GREB1	9687	broad.mit.edu	37	chr2	11725906	11725906	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagcgcaggcatgtcctGcgtgccgcaggttggcttgg	6	8	17	10	3	0	1	0	0	0	1	1	2	1	1	2	4	3	5	2	4	0	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	11725906	T	T	11725906	3	4	198	1	0	0	0	0	1	0	0	0	6760	1319	46	4	1064	4	GREB1	2	11725906	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10		11725906	231473467	11	10905											
GALM	130589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	38903134	38903134	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaaggaaccttcaaggtgGatgggaaggagtatcacctg	13	7	13	8	0	2	0	2	0	0	0	2	4	2	4	3	5	1	1	3	5	5	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	38903134	G	T	38903134	3	4	198	1	0	0	0	0	1	0	0	0	6205	1174	41	4	277	4	GALM	2	38903134	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	27177228	38903134	204296239	12	10906											
PRKCE	5581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	46228548	46228548	+	Frame_Shift_Del	DEL	A	A	-																															catgtctccttacagtctgcAaaatgaatgttcaccgtcga																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	46228548	A	-	46228548	7	5	198	1	0	1	0	1	0	0	0	0	12513	131	5	0	855	0	PRKCE	2	46228548	Frame_Shift_Del	DEL	A	TCGA-B8-5549-01A-01D-1534-10	7325414	46228548	196970825	13	10907											
USP34	9736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61522139	61522139	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcttcacttgaatcatctGaatctggataaagatcactg	13	13	7	8	0	6	3	3	2	3	1	6	5	6	4	0	1	0	0	0	1	4	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	61522139	G	A	61522139	3	1	198	1	0	0	0	0	1	0	0	0	17064	1294	45	2	6430	2	USP34	2	61522139	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	15293591	61522139	181677234	14	10908											
IL18RAP	8807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	103067330	103067330	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaaggattttgatgctttCgtatcctatgcaaaatggag	14	13	9	5	1	0	1	0	1	0	0	2	3	1	3	1	2	2	3	1	2	6	5	rs140183707	byfrequency	TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	103067330	C	T	103067330	2	4	198	1	0	0	0	0	0	0	0	1	7648	883	31	1		1	IL18RAP	2	103067330	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10	41545191	103067330	140132043	15	10909											
SCN1A	6323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166909391	166909391	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatcgtcttcaatgctCggagaactctgaatgttctc	10	13	8	10	2	4	3	1	2	3	1	7	4	4	3	0	1	2	2	0	1	4	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	166909391	C	A	166909391	3	1	198	1	0	0	0	0	1	0	0	0	13916	884	31	4	5452	4	SCN1A	2	166909391	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	63842061	166909391	76289982	16	10910											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191491	10191491	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatactctgaaagagcgaTgcctccaggttgtccggagc	9	10	12	10	2	1	2	0	1	1	1	3	4	3	3	3	2	4	2	3	2	3	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	10191491	T	C	10191491	3	2	198	1	0	0	0	0	1	0	0	0	17161	1464	51	3	494	3	VHL	3	10191491	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10		10191491	187830939	17	10911											
SLC15A2	6565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121659238	121659238	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgtcatccccaggctccctCtagcatgaaatctgtgctcc	7	11	8	15	0	3	1	1	1	2	0	6	1	6	1	4	1	2	3	4	1	2	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	121659238	C	G	121659238	3	3	198	1	0	0	0	0	1	0	0	0	14401	913	32	4	1998	4	SLC15A2	3	121659238	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	111467747	121659238	76363192	18	10912											
MAP3K13	9175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	185195185	185195185	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaatttccacgaagacagagGtaaaaccaacaaatgcacac	19	5	7	10	1	0	2	0	0	0	2	1	4	1	2	2	1	3	2	2	1	6	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	185195185	G	A	185195185	5	1	198	1	0	0	0	0	0	0	1	0	9247	1275	44	2	2544	2	MAP3K13	3	185195185	Splice_Site	SNP	G	TCGA-B8-5549-01A-01D-1534-10	63535947	185195185	12827245	19	10913											
TBC1D9	23158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	141600356	141600356	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccaccggatgaccagtttCgctgagcacaaggaacaagc	13	5	10	13	2	0	2	0	2	0	0	1	4	0	4	3	2	3	3	3	2	3	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	141600356	C	T	141600356	2	4	198	1	0	0	0	0	0	0	0	1	15626	898	31	1		1	TBC1D9	4	141600356	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10		141600356	49553920	20	10914											
CDH18	1016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	19838883	19838883	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctttccaacatactgAggatctggtcccatatgttc	9	14	6	12	0	1	1	0	1	1	0	4	2	3	2	3	2	3	1	3	2	4	5	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	19838883	A	T	19838883	2	4	198	1	0	0	0	0	0	0	0	1	3103	291	11	5		5	CDH18	5	19838883	Silent	SNP	A	TCGA-B8-5549-01A-01D-1534-10		19838883	161076377	21	10915											
NIPBL	25836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	36985915	36985915	+	Frame_Shift_Del	DEL	G	G	-																															gcatgaatcaggggactcaaGggaaagaccatcttctgggg																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	36985915	G	-	36985915	7	5	198	1	0	1	0	1	0	0	0	0	10428	1000	35	0	2667	0	NIPBL	5	36985915	Frame_Shift_Del	DEL	G	TCGA-B8-5549-01A-01D-1534-10	17147032	36985915	143929345	22	10916											
KIF20A	10112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137520633	137520633	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacagcgggaacagtggtgCaggtactagctgagtgaccc	11	6	14	10	1	0	2	0	2	0	0	0	3	0	3	1	3	6	3	1	3	4	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	137520633	C	T	137520633	2	4	198	1	0	0	0	0	0	0	0	1	8286	718	25	2		2	KIF20A	5	137520633	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10	100534718	137520633	43394627	23	10917											
ZNF300	91975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150276178	150276179	+	Frame_Shift_Ins	INS	-	-	A																															ctgatcaggtttttttcttgINSaattgctcttataacaactc																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	150276179	-	A	150276178	7	5	198	1	0	1	1	0	0	0	0	0	17830	1294	45	0	1195	0	ZNF300	5	150276178	Frame_Shift_Ins	INS	-	TCGA-B8-5549-01A-01D-1534-10	12755545	150276178	30639082	24	10918											
CCNJL	79616	broad.mit.edu	37	chr5	159680605	159680605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaggctccctgaacggtggGcctgcaaggagtcccgatag	8	6	15	12	2	0	1	0	1	0	0	2	3	2	2	3	4	2	3	3	4	3	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	159680605	T	T	159680605	3	4	198	1	0	0	0	0	1	0	0	0	2929	1203	42	4	223	4	CCNJL	5	159680605	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	9404427	159680605	21234655	25	10919											
PGBD1	84547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28251758	28251758	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctaccaggaggctcaCggaccccaggaagctctggc	8	7	12	14	1	3	0	1	0	2	0	3	3	3	3	3	5	3	3	3	5	2	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	28251758	C	T	28251758	2	4	198	1	0	0	0	0	0	0	0	1	11780	535	19	1		1	PGBD1	6	28251758	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10		28251758	142863309	26	10920											
SCAND3	114821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28543685	28543685	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgacggtagtcaactgatTcctttttcgccttagcttta	8	15	8	10	3	1	1	1	1	0	0	3	2	2	1	2	1	3	2	2	1	4	7	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	28543685	T	A	28543685	3	1	198	1	0	0	0	0	1	0	0	0	13878	1783	62	5	3188	5	SCAND3	6	28543685	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10	291927	28543685	142571382	27	10921											
UNC5CL	222643	broad.mit.edu	37	chr6	41001862	41001862	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggacagcgatggggcgtcCgacaggtcccacaccaggat	9	5	15	12	3	0	0	0	0	0	0	2	4	2	2	3	5	1	0	3	5	0	0	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	41001862	T	T	41001862	2	4	198	1	0	0	0	0	0	0	0	1	16993	639	23	1		1	UNC5CL	6	41001862	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10	12458177	41001862	130113205	28	10922											
TAAR9	134860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132859640	132859640	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacacctacaaactttctgaTtgcgtcgctggcctgtgctg	7	12	9	13	2	1	1	0	1	1	0	2	1	1	1	2	1	4	2	2	1	2	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	132859640	T	A	132859640	3	1	198	1	0	0	0	0	1	0	0	0	15493	1493	52	5	214	5	TAAR9	6	132859640	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10	91857778	132859640	38255427	29	10923											
SNX10	29887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	26411530	26411530	+	Frame_Shift_Del	DEL	T	T	-																															agaagacattgaggcgtgtgTttctgggcagactaagtact																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	26411530	T	-	26411530	7	5	198	1	0	1	0	1	0	0	0	0	14883	1725	60	0	419	0	SNX10	7	26411530	Frame_Shift_Del	DEL	T	TCGA-B8-5549-01A-01D-1534-10		26411530	132727133	30	10924											
EPHB4	2050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100411570	100411570	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactgcgaccacaatgacCaccaggaccaggaccacacc	15	2	8	16	1	0	2	0	1	0	1	0	5	0	4	6	2	2	0	6	2	2	0	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	100411570	C	T	100411570	2	4	198	1	0	0	0	0	0	0	0	1	5177	581	21	2		2	EPHB4	7	100411570	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10	74000040	100411570	58727093	31	10925											
KIAA1147	57189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	141365016	141365016	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacacctctacctccaggCtctcgatgtcagccacgttc	8	9	8	16	2	3	0	1	0	2	0	6	2	4	1	4	2	2	2	4	2	1	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	141365016	C	A	141365016	3	1	198	1	0	0	0	0	1	0	0	0	8210	797	28	4	460	4	KIAA1147	7	141365016	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	40953446	141365016	17773647	32	10926											
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	77776702	77776702	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacagtgagctgagccagaaGctagaagacttagataattc	15	8	11	7	0	0	6	0	2	0	4	1	7	0	6	1	0	3	2	1	0	5	4	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	77776702	G	A	77776702	2	1	198	1	0	0	0	0	0	0	0	1	17634	962	34	2		2	ZFHX4	8	77776702	Silent	SNP	G	TCGA-B8-5549-01A-01D-1534-10		77776702	68587320	33	10927											
FAM135B	51059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	139164359	139164359	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatcttgctgcttggtgtCcgcatcttcagcagcctcct	4	14	8	15	1	3	0	1	0	2	0	6	0	6	0	4	1	4	4	4	1	0	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	139164359	C	A	139164359	3	1	198	1	0	0	0	0	1	0	0	0	5449	855	30	4	1893	4	FAM135B	8	139164359	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	61387657	139164359	7199663	34	10928											
MPDZ	8777	hgsc.bcm.edu;ucsc.edu	37	chr9	13206010	13206011	+	Frame_Shift_Ins	INS	-	-	TT																															ctgcttcattcctctcctcaINSttagtgtcaggagcacagtt																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		TT	13206011	-	TT	13206010	7	5	198	1	0	1	1	0	0	0	0	0	9722	217	8	0	4890	0	MPDZ	9	13206010	Frame_Shift_Ins	INS	-	TCGA-B8-5549-01A-01D-1534-10		13206010	128007421	35	10929											
ZCCHC6	79670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	88938408	88938408	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcccttccttccaactttctCtttctcgtttttccttcctg	2	20	3	16	1	2	0	0	0	2	0	8	0	6	0	5	0	1	1	5	0	1	7	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	88938408	C	G	88938408	3	3	198	1	0	0	0	0	1	0	0	0	17591	922	32	4	2290	4	ZCCHC6	9	88938408	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	75732398	88938408	52275023	36	10930											
SLC35D2	11046	hgsc.bcm.edu	37	chr9	99126831	99126831	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcattatggtggctgccAtctgaagaaaaggggagaga	13	9	14	5	0	2	3	1	1	1	2	2	5	2	4	1	4	1	2	1	4	5	2	rs147633936		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	99126831	A	G	99126831	3	3	198	1	0	0	0	0	1	0	0	0	14584	231	8	3	859	3	SLC35D2	9	99126831	Missense_Mutation	SNP	A	TCGA-B8-5549-01A-01D-1534-10	10188423	99126831	42086600	37	10931											
ZNF189	7743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104162271	104162271	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatgtcatgatggagaatTatggaaacctggtctcactg	13	11	11	6	0	2	3	2	1	1	2	3	5	2	4	1	3	1	0	1	3	4	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	104162271	T	C	104162271	3	2	198	1	0	0	0	0	1	0	0	0	17753	1754	61	3	145	3	ZNF189	9	104162271	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10	5035440	104162271	37051160	38	10932											
TMEM38B	55151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	108483903	108483903	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tactggcttcgggaatgaagGaagtgaccagaacttggaaa	14	8	13	6	1	0	3	0	2	0	1	1	6	0	6	1	4	2	1	1	4	6	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	108483903	G	C	108483903	3	2	198	1	0	0	0	0	1	0	0	0	16159	1175	41	4	365	4	TMEM38B	9	108483903	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	4321632	108483903	32729528	39	10933											
OR1L3	26735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125437494	125437494	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaccagaggccactctttgCcctctttcttatcatatacc	9	13	5	14	0	4	2	1	0	3	2	4	2	4	2	4	1	2	0	4	1	3	5	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	125437494	C	T	125437494	3	4	198	1	0	0	0	0	1	0	0	0	10964	739	26	2	88	2	OR1L3	9	125437494	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	16953591	125437494	15775937	40	10934											
GOLGA1	2800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	127650593	127650593	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgtagctgtgtgagaTccatggccccaacctcacca	8	10	8	15	0	2	1	1	1	1	1	3	2	3	1	6	1	2	2	6	1	2	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	127650593	T	G	127650593	3	3	198	1	0	0	0	0	1	0	0	0	6551	1435	50	5	479	5	GOLGA1	9	127650593	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10	2213099	127650593	13562838	41	10935											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61833421	61833421	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactctggaagactccagAtaagaaggcaatgactcttc	13	11	8	9	0	2	4	0	1	2	3	4	5	3	5	1	2	1	1	1	2	5	4	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	61833421	A	G	61833421	2	3	198	1	0	0	0	0	0	0	0	1	622	340	12	3		3	ANK3	10	61833421	Silent	SNP	A	TCGA-B8-5549-01A-01D-1534-10		61833421	73701326	42	10936											
DCHS1	8642	broad.mit.edu	37	chr11	6643734	6643734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggccacgggcagccagagagGaggccacactggccacacgg	10	1	16	14	2	0	1	0	0	0	1	0	3	0	2	4	6	1	1	4	6	0	0	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	6643734	A	A	6643734	3	1	198	1	0	0	0	0	1	0	0	0	4287	1174	41	2	727	2	DCHS1	11	6643734	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10		6643734	128362782	43	10937											
ATF7IP	55729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14613931	14613931	+	Frame_Shift_Del	DEL	T	T	-																															attgtacaagccacaaggacTtctttacccacagtgggccc																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	14613931	T	-	14613931	7	5	198	1	0	1	0	1	0	0	0	0	1087	1596	56	0	2691	0	ATF7IP	12	14613931	Frame_Shift_Del	DEL	T	TCGA-B8-5549-01A-01D-1534-10		14613931	119237964	44	10938											
SYT10	341359	hgsc.bcm.edu	37	chr12	33579216	33579217	+	Frame_Shift_Ins	INS	-	-	G																															gctcaatagcttttacggctINSggcttttcattttccttaat																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	33579217	-	G	33579216	7	5	198	1	0	1	1	0	0	0	0	0	15465	1567	55	0	1229	0	SYT10	12	33579216	Frame_Shift_Ins	INS	-	TCGA-B8-5549-01A-01D-1534-10	18965285	33579216	100272679	45	10939											
SMARCC2	6601	broad.mit.edu	37	chr12	56558430	56558430	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaaacccaaaggagcattAcccgccacgcctgggtgccc	10	4	11	16	2	0	0	0	0	0	0	0	1	0	1	5	3	4	2	5	3	3	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	56558430	C	C	56558430	2	2	198	1	0	0	0	0	0	0	0	1	14778	405	14	5		5	SMARCC2	12	56558430	Silent	SNP	A	TCGA-B8-5549-01A-01D-1534-10	22979214	56558430	77293465	46	10940											
AMDHD1	144193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96360253	96360253	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggatcgttggaagttggcaAacagggagatctcattatca	12	10	12	7	2	2	1	2	0	1	1	4	4	2	3	0	4	1	3	0	4	3	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	96360253	A	G	96360253	3	3	198	1	0	0	0	0	1	0	0	0	567	14	1	3	1190	3	AMDHD1	12	96360253	Missense_Mutation	SNP	A	TCGA-B8-5549-01A-01D-1534-10	39801823	96360253	37491642	47	10941											
RILPL1	353116	broad.mit.edu	37	chr12	123957223	123957223	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttatctcgggagaagaaGctaaacctttggaagggaaa	14	10	11	6	1	2	2	0	0	2	2	3	5	2	4	1	3	2	1	1	3	7	4	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	123957223	T	T	123957223	3	4	198	1	0	0	0	0	1	0	0	0	13363	962	34	4	141	4	RILPL1	12	123957223	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	27596970	123957223	9894672	48	10942											
ANKLE2	23141	hgsc.bcm.edu;ucsc.edu	37	chr12	133324430	133324432	+	In_Frame_Del	DEL	GGT	GGT	-																															gcacgcaccatcttgtcgggGgtgttgaggtacaggtccac																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	133324432	GGT	-	133324430	7	5	198	1	0	1	0	1	0	0	0	0	633	1219	43	0	1634	0	ANKLE2	12	133324430	In_Frame_Del	DEL	GGT	TCGA-B8-5549-01A-01D-1534-10	9367207	133324430	527465	49	10943											
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	23915483	23915483	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaaccctccaagtttttgTacaatgtctgctaaaaattc	14	13	4	10	0	1	0	0	0	1	0	3	0	2	0	2	0	3	3	2	0	7	5	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	23915483	T	G	23915483	2	3	198	1	0	0	0	0	0	0	0	1	13806	1625	57	5		5	SACS	13	23915483	Silent	SNP	T	TCGA-B8-5549-01A-01D-1534-10		23915483	91254395	50	10944											
PARP4	143	hgsc.bcm.edu;ucsc.edu	37	chr13	25021323	25021323	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctggtcatttggtcttctAtctatttataaaagaggaat	11	16	8	6	0	4	1	1	0	3	1	4	2	4	2	1	3	0	0	1	3	6	7	rs73172125	bycluster	TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	25021323	A	G	25021323	3	3	198	1	0	0	0	0	1	0	0	0	11463	463	16	3	2094	3	PARP4	13	25021323	Missense_Mutation	SNP	A	TCGA-B8-5549-01A-01D-1534-10	1105840	25021323	90148555	51	10945											
GPR12	2835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	27333242	27333242	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccgggtggtcacatagtgCgacgtggccaggaagtggtg	7	9	17	8	3	1	0	1	0	0	0	2	2	2	1	2	5	1	0	2	5	2	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	27333242	C	T	27333242	2	4	198	1	0	0	0	0	0	0	0	1	6635	755	27	1		1	GPR12	13	27333242	Silent	SNP	C	TCGA-B8-5549-01A-01D-1534-10	2311919	27333242	87836636	52	10946											
DHRS4L1	728635	broad.mit.edu;hgsc.bcm.edu	37	chr14	24518003	24518003	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcacctggacttatcaagActagcttcagcaggatggtg	11	10	11	9	0	2	1	2	0	0	1	2	3	2	3	1	3	3	3	1	3	4	4	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	24518003	A	G	24518003	3	3	198	1	0	0	0	0	1	0	0	0	4493	275	10	3	688	3	DHRS4L1	14	24518003	Missense_Mutation	SNP	A	TCGA-B8-5549-01A-01D-1534-10		24518003	82831537	53	10947											
RALGAPA1	253959	hgsc.bcm.edu	37	chr14	36140604	36140611	+	Frame_Shift_Del	DEL	AGCTGAAG	AGCTGAAG	-																															aaatgacttacattgagaaaAgctgaagaagccactctacc																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	AGCTGAAG	AGCTGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	36140611	AGCTGAAG	-	36140604	7	5	198	1	0	1	0	1	0	0	0	0	13015	59	3	0	2652	0	RALGAPA1	14	36140604	Frame_Shift_Del	DEL	AGCTGAAG	TCGA-B8-5549-01A-01D-1534-10	11622601	36140604	71208936	54	10948											
EML5	161436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	89093186	89093186	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attttaagagacatactgcaCcaaatgcaatagcgagcatg	16	9	8	8	1	0	1	0	0	0	1	0	3	0	1	1	0	5	3	1	0	5	4	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	89093186	C	T	89093186	3	4	198	1	0	0	0	0	1	0	0	0	5100	507	18	2	1237	2	EML5	14	89093186	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	52952582	89093186	18256354	55	10949											
SLC12A6	9990	broad.mit.edu;hgsc.bcm.edu	37	chr15	34546785	34546785	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggcagctcgggggacgatAtagacctgttaggtaaaaat	13	9	13	6	2	0	1	0	0	0	1	1	3	0	2	1	4	1	4	1	4	6	4	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	34546785	A	G	34546785	2	3	198	1	0	0	0	0	0	0	0	1	14389	456	16	3		3	SLC12A6	15	34546785	Silent	SNP	A	TCGA-B8-5549-01A-01D-1534-10		34546785	67984607	56	10950											
ANXA2	302	broad.mit.edu;hgsc.bcm.edu	37	chr15	60641324	60641324	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttctcttgaattcagaccTaattttcaacatgtccactt	10	17	3	11	0	3	2	2	1	1	1	5	2	4	2	2	0	1	0	2	0	3	7	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	60641324	T	G	60641324	2	3	198	1	0	0	0	0	0	0	0	1	718	1521	53	5		5	ANXA2	15	60641324	Silent	SNP	T	TCGA-B8-5549-01A-01D-1534-10	26094539	60641324	41890068	57	10951											
MGRN1	23295	broad.mit.edu	37	chr16	4727555	4727555	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcctggcccagagcctGgagcatgatgagcactctgt	7	8	12	14	1	1	3	0	2	1	1	2	4	2	4	4	2	3	2	4	2	0	0	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	4727555	A	A	4727555	2	1	198	1	0	0	0	0	0	0	0	1	9559	1335	47	2		2	MGRN1	16	4727555	Silent	SNP	G	TCGA-B8-5549-01A-01D-1534-10		4727555	85627198	58	10952											
ABCC1	4363	broad.mit.edu;ucsc.edu	37	chr16	16225792	16225795	+	Splice_Site	DEL	GGTG	-	-																															acgatcaatgggggagaaaaGgtgggtacacatcgccccat																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	GGTG	GGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	16225795	-	-	16225792	8	5	198	1	0	1	0	1	0	0	1	0	49	1014	35	0	4072	0	ABCC1	16	16225792	Splice_Site	DEL	GGTG	TCGA-B8-5549-01A-01D-1534-10	11498237	16225792	74128961	59	10953											
LCMT1	51451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	25162930	25162930	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcattcagaggacacacttCagatgggcaagtatcaagct	13	9	10	9	0	3	2	3	0	0	2	3	3	3	3	0	2	2	4	0	2	3	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	25162930	C	G	25162930	3	3	198	1	0	0	0	0	1	0	0	0	8678	827	29	4	478	4	LCMT1	16	25162930	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	8937138	25162930	65191823	60	10954											
SLC5A2	6524	broad.mit.edu;hgsc.bcm.edu	37	chr16	31501699	31501699	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgtggaatgagcagaggtgGggtgggcagtcctccgcccc	6	8	17	10	1	0	2	0	1	0	1	2	3	2	3	4	5	1	2	4	5	1	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	31501699	G	C	31501699	3	2	198	1	0	0	0	0	1	0	0	0	14667	1232	43	4	1916	4	SLC5A2	16	31501699	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	6338769	31501699	58853054	61	10955											
CDK10	8558	hgsc.bcm.edu;ucsc.edu	37	chr16	89757047	89757047	+	RNA	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatggtgagcaggaaattGgggtgttgggacctcgcact	9	9	17	6	1	0	1	0	1	0	0	1	4	0	4	1	6	1	3	1	6	1	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	89757047	G	T	89757047	1	4	198	0	1	0	0	0	0	0	0	0	3125	1363	47	4		4	CDK10	16	89757047	RNA	SNP	G	TCGA-B8-5549-01A-01D-1534-10	58255348	89757047	597706	62	10956											
KRTAP1-3	81850	broad.mit.edu	37	chr17	39190639	39190639	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactgtccacagtaggatggGcggcagcaggaggcctcggc	8	5	17	11	2	0	0	0	0	0	0	2	3	1	2	2	6	1	3	2	6	1	1	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	39190639	A	A	39190639	2	1	198	1	0	0	0	0	0	0	0	1	8503	1190	42	2		2	KRTAP1-3	17	39190639	Silent	SNP	G	TCGA-B8-5549-01A-01D-1534-10		39190639	42004571	63	10957											
AARSD1	80755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41122331	41122331	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcatccatggcaggtggaGgtctcttggtgctgaccttc	7	12	12	10	0	2	1	1	1	1	0	5	2	3	2	2	5	1	2	2	5	1	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	41122331	G	T	41122331	3	4	198	1	0	0	0	0	1	0	0	0	21	1000	35	4	1315	4	AARSD1	17	41122331	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	1931692	41122331	40072879	64	10958											
KCNH6	81033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61607502	61607502	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgtgaagaacgaggacGgggctgtcatcatgttcatt	9	10	13	9	3	3	2	3	1	0	1	3	4	3	3	1	3	2	2	1	3	2	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	61607502	G	T	61607502	3	4	198	1	0	0	0	0	1	0	0	0	8036	1116	39	4	368	4	KCNH6	17	61607502	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	20485171	61607502	19587708	65	10959											
SF4	0	broad.mit.edu	37	chr19	19388598	19388598	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcccctcgccctcctTccagcccatcttcatcagca	6	8	5	22	1	3	0	2	0	1	0	6	0	5	0	7	0	3	1	7	0	0	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		C	19388598	C	C	19388598	3	2	198	1	0	0	0	0	1	0	0	0	14157	1792	62	3	223	3	SF4	19	19388598	Missense_Mutation	SNP	T	TCGA-B8-5549-01A-01D-1534-10		19388598	39740385	66	10960											
NUMBL	9253	broad.mit.edu	37	chr19	41173395	41173395	+	Frame_Shift_Del	DEL	T	-	-																															acagttcaatctcgaatgtcTtttgcaggtcgccagaaaag																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	41173395	-	-	41173395	7	5	198	1	0	1	0	1	0	0	0	0	10752	1609	56	0	25	0	NUMBL	19	41173395	Frame_Shift_Del	DEL	T	TCGA-B8-5549-01A-01D-1534-10	21784797	41173395	17955588	67	10961											
PRR12	57479	broad.mit.edu	37	chr19	50128756	50128756	+	Frame_Shift_Del	DEL	G	-	-																															ggcgccgaggacctgggccaGgaggaggtggtccagcagtg																								novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		-	50128756	-	-	50128756	7	5	198	1	0	1	0	1	0	0	0	0	12586	991	35	0	6057	0	PRR12	19	50128756	Frame_Shift_Del	DEL	G	TCGA-B8-5549-01A-01D-1534-10	8955361	50128756	9000227	68	10962											
ZNF761	388561	broad.mit.edu;hgsc.bcm.edu	37	chr19	53959771	53959771	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaatgagtgtggcaagacCtttagtcggaagtcatattt	11	14	11	5	1	1	2	1	1	0	1	2	3	1	3	1	2	0	2	1	2	5	5	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	53959771	C	T	53959771	3	4	198	1	0	0	0	0	1	0	0	0	18135	668	24	2	2021	2	ZNF761	19	53959771	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10	3831015	53959771	5169212	69	10963											
RRBP1	6238	broad.mit.edu;ucsc.edu	37	chr20	17605265	17605265	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cttctccttgcaggcctgctCggccgtggccagtgcctcca	3	10	11	17	2	1	0	0	0	1	0	4	0	2	0	6	3	3	2	6	3	0	2	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		G	17605265	G	G	17605265	3	3	198	1	0	0	0	0	1	0	0	0	13680	893	31	4	1181	4	RRBP1	20	17605265	Missense_Mutation	SNP	C	TCGA-B8-5549-01A-01D-1534-10		17605265	45420255	70	10964											
ENTHD1	150350	broad.mit.edu;ucsc.edu	37	chr22	40231918	40231918	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtttctgtaggcaaatgaAcatcttggcaatgctcttgt	10	15	9	7	0	3	1	0	1	3	0	3	1	3	1	0	2	2	5	0	2	5	5	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	40231918	T	T	40231918	3	4	198	1	0	0	0	0	1	0	0	0	5137	43	2	5	1201	5	ENTHD1	22	40231918	Missense_Mutation	SNP	A	TCGA-B8-5549-01A-01D-1534-10		40231918	11072648	71	10965											
DACH2	117154	broad.mit.edu	37	chrX	86069820	86069820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccaccactagtgacagtgGcctgaggatgttaaaaggta	13	8	12	8	0	0	2	0	2	0	0	0	3	0	3	3	3	1	2	3	3	4	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		T	86069820	T	T	86069820	3	4	198	1	0	0	0	0	1	0	0	0	4221	1203	42	4	1705	4	DACH2	23	86069820	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10		86069820	69200740	72	10966											
TCEAL8	90843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	102508844	102508844	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtacatcctccaaagggcGatcttcctcggcctttggca	7	11	10	13	2	1	0	0	0	1	0	5	1	4	0	4	4	1	2	4	4	2	3	novel		TCGA-B8-5549-01A-01D-1534-10	TCGA-B8-5549-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a62a0016-8cbe-4ed0-8836-21c72006d82a	a2bcbda0-dba7-456a-aeca-0465519917de		A	102508844	G	A	102508844	3	1	198	1	0	0	0	0	1	0	0	0	15676	1058	37	1	293	1	TCEAL8	23	102508844	Missense_Mutation	SNP	G	TCGA-B8-5549-01A-01D-1534-10	16439024	102508844	52761716	73	10967											
TMCO4	255104	hgsc.bcm.edu;ucsc.edu	37	chr1	20082231	20082231	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggaggtcatgtggcaaacGaggactctggcccgggcgtc	8	6	17	10	3	2	0	1	0	1	0	3	3	2	2	1	6	1	1	1	6	1	0	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	20082231	G	A	20082231	2	1	199	1	0	0	0	0	0	0	0	1	15997	1045	37	1		1	TMCO4	1	20082231	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10		20082231	229168390	1	10968											
ZCCHC17	51538	hgsc.bcm.edu;ucsc.edu	37	chr1	31836934	31836934	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgactctgacagctcagActctgagagtgatacaggca	12	9	10	10	0	4	5	1	4	3	2	4	6	4	5	0	1	2	2	0	1	1	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	31836934	A	C	31836934	3	2	199	1	0	0	0	0	1	0	0	0	17584	275	10	5	646	5	ZCCHC17	1	31836934	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	11754703	31836934	217413687	2	10969											
WDR78	79819	hgsc.bcm.edu	37	chr1	67390428	67390428	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtggtgcaccaccccttTttttggccgcctctgaagtc	5	12	11	13	1	1	1	0	1	1	0	2	2	1	2	5	3	1	1	5	3	1	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	67390428	T	A	67390428	3	1	199	1	0	0	0	0	1	0	0	0	17327	1838	64	5	2584	5	WDR78	1	67390428	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	35553494	67390428	181860193	3	10970											
BRDT	676	hgsc.bcm.edu;ucsc.edu	37	chr1	92445158	92445158	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcatttttcaaagatcccGattgaacctgttgagagtat	12	13	8	8	2	1	3	1	2	0	2	2	5	2	3	2	0	1	3	2	0	3	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	92445158	G	A	92445158	2	1	199	1	0	0	0	0	0	0	0	1	1508	1045	37	1		1	BRDT	1	92445158	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10	25054730	92445158	156805463	4	10971											
EPS8L3	79574	hgsc.bcm.edu;ucsc.edu	37	chr1	110300154	110300154	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcaggggcacttgtctcCttcagccaggtggccagcct	6	9	12	14	0	3	0	2	0	1	0	4	0	3	0	4	4	3	2	4	4	0	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	110300154	C	T	110300154	2	4	199	1	0	0	0	0	0	0	0	1	5197	680	24	2		2	EPS8L3	1	110300154	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10	17854996	110300154	138950467	5	10972											
FAM46C	54855	hgsc.bcm.edu;ucsc.edu	37	chr1	118166327	118166327	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttcttcatcgacttcccGgacatccttgaacagcagag	10	10	9	12	2	2	2	1	1	1	1	5	4	4	3	2	2	2	2	2	2	1	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	118166327	G	T	118166327	2	4	199	1	0	0	0	0	0	0	0	1	5567	1103	39	4		4	FAM46C	1	118166327	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10	7866173	118166327	131084294	6	10973											
SPAG17	200162	hgsc.bcm.edu;ucsc.edu	37	chr1	118558649	118558649	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcaagtctgctattcttTctaatcctttggtgccgatc	6	16	9	10	1	4	0	1	0	3	0	6	1	5	0	2	2	2	1	2	2	3	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	118558649	T	A	118558649	3	1	199	1	0	0	0	0	1	0	0	0	14981	1783	62	5	2525	5	SPAG17	1	118558649	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	392322	118558649	130691972	7	10974											
NOTCH2	4853	hgsc.bcm.edu;ucsc.edu	37	chr1	120491750	120491750	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtctgacaattcttgcCtagaaagtaaatgacagagt	14	12	8	7	0	2	4	0	2	2	2	2	4	2	4	1	0	2	1	1	0	6	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	120491750	C	A	120491750	5	1	199	1	0	0	0	0	0	0	1	0	10548	695	24	4	5012	4	NOTCH2	1	120491750	Splice_Site	SNP	C	TCGA-B8-5550-01A-01D-1534-10	1933101	120491750	128758871	8	10975											
GABPB2	126626	hgsc.bcm.edu;ucsc.edu	37	chr1	151079598	151079598	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccagagggtcatcacCatagtgactgatggagtccc	10	7	14	10	0	2	3	2	2	0	1	3	5	3	5	3	4	0	0	3	4	1	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	151079598	C	G	151079598	2	3	199	1	0	0	0	0	0	0	0	1	6159	581	21	4		4	GABPB2	1	151079598	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10	30587848	151079598	98171023	9	10976											
CRB1	23418	hgsc.bcm.edu;ucsc.edu	37	chr1	197396890	197396890	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactgtatcagtcttcacAaaacctaggatttatttctg	12	15	6	8	0	4	1	2	1	2	0	4	2	4	2	1	1	2	1	1	1	6	6	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	197396890	A	T	197396890	3	4	199	1	0	0	0	0	1	0	0	0	3848	130	5	5	2461	5	CRB1	1	197396890	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	46317292	197396890	51853731	10	10977											
OR13G1	441933	hgsc.bcm.edu;ucsc.edu	37	chr1	247835536	247835536	+	Frame_Shift_Del	DEL	C	C	-																															agtatagagtgcagctaccaCcttgtctctttcaaatgtat																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	247835536	C	-	247835536	7	5	199	1	0	1	0	1	0	0	0	0	10942	507	18	0	119	0	OR13G1	1	247835536	Frame_Shift_Del	DEL	C	TCGA-B8-5550-01A-01D-1534-10	50438646	247835536	1415085	11	10978											
PGBD2	267002	hgsc.bcm.edu;ucsc.edu	37	chr1	249212354	249212354	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatacattgcctgtgtgtAtctggagagcaatgctgaca	11	11	12	7	0	1	3	0	1	1	2	1	5	1	3	1	1	4	3	1	1	3	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	249212354	A	C	249212354	3	2	199	1	0	0	0	0	1	0	0	0	11781	449	16	5	1577	5	PGBD2	1	249212354	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	1376818	249212354	38267	12	10979											
AFTPH	54812	hgsc.bcm.edu;ucsc.edu	37	chr2	64779745	64779769	+	Frame_Shift_Del	DEL	AGTTGGTTCTCCCAAAGAAGAAAGT	AGTTGGTTCTCCCAAAGAAGAAAGT	-																															gttaaaacttctgatgatgaAgttggttctcccaaagaaga																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	AGTTGGTTCTCCCAAAGAAGAAAGT	AGTTGGTTCTCCCAAAGAAGAAAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	64779769	AGTTGGTTCTCCCAAAGAAGAAAGT	-	64779745	7	5	199	1	0	1	0	1	0	0	0	0	364	69	3	0	1139	0	AFTPH	2	64779745	Frame_Shift_Del	DEL	AGTTGGTTCTCCCAAAGAAGAAAGT	TCGA-B8-5550-01A-01D-1534-10		64779745	178419628	13	10980											
ANTXR1	84168	hgsc.bcm.edu;ucsc.edu	37	chr2	69409628	69409628	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattttgtttattttaggttCgttggggagaaaagggctcc	8	17	12	4	1	0	1	0	0	0	1	2	2	1	1	1	4	0	4	1	4	5	9	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	69409628	C	T	69409628	3	4	199	1	0	0	0	0	1	0	0	0	711	884	31	1	1328	1	ANTXR1	2	69409628	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	4629883	69409628	173789745	14	10981											
NAT8B	51471	hgsc.bcm.edu;ucsc.edu	37	chr2	73928331	73928331	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgaggcagcttcagtaatcgCcggaaggtggctggggcgtg	7	7	18	9	4	1	0	1	0	0	0	2	2	1	1	1	6	1	4	1	6	2	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	73928331	C	T	73928331	2	4	199	1	0	0	0	0	0	0	0	1	10180	726	26	2		2	NAT8B	2	73928331	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10	4518703	73928331	169271042	15	10982											
POLR1B	84172	hgsc.bcm.edu;ucsc.edu	37	chr2	113316975	113316975	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacagaggggctgattttgCcaagatgaggaccaccacag	12	6	13	10	0	0	4	0	2	0	2	0	5	0	5	3	3	1	2	3	3	1	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	113316975	C	T	113316975	3	4	199	1	0	0	0	0	1	0	0	0	12210	739	26	2	1470	2	POLR1B	2	113316975	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	39388644	113316975	129882398	16	10983											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179595296	179595296	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtggcagaacaagtgtaTgtcccactgtctgtaccttc	8	14	9	10	0	1	1	0	0	1	1	3	1	2	1	2	1	2	3	2	1	4	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	179595296	T	C	179595296	2	2	199	1	0	0	0	0	0	0	0	1	16734	1451	51	3		3	TTN	2	179595296	Silent	SNP	T	TCGA-B8-5550-01A-01D-1534-10	66278321	179595296	63604077	17	10984											
PIKFYVE	200576	hgsc.bcm.edu;ucsc.edu	37	chr2	209136347	209136347	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactttaaacctttgactcCtgatcaagatgagccccctt	11	12	5	13	0	1	4	1	3	0	1	2	4	2	4	4	0	2	0	4	0	3	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	209136347	C	A	209136347	3	1	199	1	0	0	0	0	1	0	0	0	11924	681	24	4	106	4	PIKFYVE	2	209136347	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	29541051	209136347	34063026	18	10985											
KIF1A	547	hgsc.bcm.edu;ucsc.edu	37	chr2	241725926	241725926	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagtaaatctccatgtagCtgacctgcagggcagagcca	12	7	10	12	0	1	2	0	1	1	1	2	2	1	2	3	1	3	5	3	1	3	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	241725926	C	A	241725926	3	1	199	1	0	0	0	0	1	0	0	0	8283	797	28	4	4806	4	KIF1A	2	241725926	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	32589579	241725926	1473447	19	10986											
BHLHE40	8553	hgsc.bcm.edu;ucsc.edu	37	chr3	5022085	5022085	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcctacccgaacatctcAaacttacagtaagtgagaag	15	9	6	11	1	2	1	1	1	2	1	4	3	2	1	2	0	4	1	2	0	6	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	5022085	A	G	5022085	3	3	199	1	0	0	0	0	1	0	0	0	1423	131	5	3	260	3	BHLHE40	3	5022085	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10		5022085	193000345	20	10987											
STX19	415117	hgsc.bcm.edu;ucsc.edu	37	chr3	93733337	93733337	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttagtattgttaacataCtcttttgtactattcactgt	9	21	4	7	0	3	0	1	0	2	0	3	0	3	0	0	0	3	3	0	0	6	11	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	93733337	C	T	93733337	2	4	199	1	0	0	0	0	0	0	0	1	15343	564	20	2		2	STX19	3	93733337	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10	88711252	93733337	104289093	21	10988											
MUC4	4585	hgsc.bcm.edu	37	chr3	195507215	195507262	+	In_Frame_Del	DEL	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-																															tgaggaagtgctggtgacagGaagaggggtgacgtgacctg																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	195507262	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-	195507215	7	5	199	1	0	1	0	1	0	0	0	0	9978	1174	41	0		0	MUC4	3	195507215	In_Frame_Del	DEL	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	TCGA-B8-5550-01A-01D-1534-10	101773878	195507215	2515215	22	10989											
AASDH	132949	hgsc.bcm.edu;ucsc.edu	37	chr4	57216203	57216203	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggaaccctcaaaagatCttctgggagattcagagtag	14	9	10	8	0	5	3	3	0	2	3	5	5	5	4	1	2	1	1	1	2	4	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	57216203	C	A	57216203	3	1	199	1	0	0	0	0	1	0	0	0	22	913	32	4	1602	4	AASDH	4	57216203	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		57216203	133938073	23	10990											
SPP1	6696	hgsc.bcm.edu;ucsc.edu	37	chr4	88902880	88902880	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacagtagacacatatgAtggccgaggtgatagtgtgg	11	8	13	9	1	0	3	0	2	0	1	0	4	0	3	3	3	0	1	3	3	3	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	88902880	A	G	88902880	3	3	199	1	0	0	0	0	1	0	0	0	15087	333	12	3	488	3	SPP1	4	88902880	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	31686677	88902880	102251396	24	10991											
PCDH18	54510	hgsc.bcm.edu;ucsc.edu	37	chr4	138452585	138452585	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctctgaggtactcccatgtCtgaggcagtgagctgaagct	8	10	12	11	0	2	4	0	4	2	0	3	4	3	4	2	2	3	4	2	2	2	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	138452585	C	T	138452585	3	4	199	1	0	0	0	0	1	0	0	0	11513	913	32	2	2765	2	PCDH18	4	138452585	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	49549705	138452585	52701691	25	10992											
C4orf49	0	hgsc.bcm.edu;ucsc.edu	37	chr4	140188044	140188044	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggtctccggagcagcCtccacgtgacctggacaggc	6	7	14	14	2	1	1	0	1	1	0	3	3	2	3	4	4	2	2	4	4	0	0	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	140188044	C	A	140188044	3	1	199	1	0	0	0	0	1	0	0	0	2275	680	24	4	294	4	C4orf49	4	140188044	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	1735459	140188044	50966232	26	10993											
FAT1	2195	hgsc.bcm.edu;ucsc.edu	37	chr4	187539377	187539377	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctacagaagccaccatcTcatggtcatcttgagtgcac	11	10	7	13	0	4	2	2	1	3	1	5	2	4	2	2	1	3	1	2	1	2	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	187539377	T	G	187539377	3	3	199	1	0	0	0	0	1	0	0	0	5689	1551	54	5	5475	5	FAT1	4	187539377	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	47351333	187539377	3614899	27	10994											
DNAH5	1767	hgsc.bcm.edu;ucsc.edu	37	chr5	13717541	13717541	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgaacttgcgcctctcCtggacagtggagtgcaggaa	9	7	13	12	2	1	0	0	0	1	0	2	4	1	3	3	3	3	2	3	3	2	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	13717541	C	A	13717541	3	1	199	1	0	0	0	0	1	0	0	0	4604	680	24	4	1314	4	DNAH5	5	13717541	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		13717541	167197719	28	10995											
TTC23L	153657	hgsc.bcm.edu;ucsc.edu	37	chr5	34880314	34880314	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagatatatttcataagaagTatcaatgcatatcgagcaac	17	11	7	6	1	2	2	2	0	0	2	3	4	2	2	0	0	3	3	0	0	8	6	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	34880314	T	C	34880314	2	2	199	1	0	0	0	0	0	0	0	1	16690	1635	57	3		3	TTC23L	5	34880314	Silent	SNP	T	TCGA-B8-5550-01A-01D-1534-10	21162773	34880314	146034946	29	10996											
AQPEP	206338	hgsc.bcm.edu;ucsc.edu	37	chr5	115348099	115348099	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaaagagacttaatttaaTatggaatatttattcaacta	18	16	4	3	0	1	1	1	0	0	1	1	3	1	2	0	1	1	0	0	1	10	10	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	115348099	T	A	115348099	3	1	199	1	0	0	0	0	1	0	0	0	834	1406	49	5	2334	5	AQPEP	5	115348099	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	80467785	115348099	65567161	30	10997											
PCDHB4	56131	hgsc.bcm.edu	37	chr5	140502934	140502934	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacgcccccgccttcaccCaaacctcctacaccctgttc	9	7	3	22	2	1	0	1	0	0	0	3	0	2	0	7	0	3	1	7	0	3	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	140502934	C	A	140502934	3	1	199	1	0	0	0	0	1	0	0	0	11544	595	21	4	1356	4	PCDHB4	5	140502934	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	25154835	140502934	40412326	31	10998											
ARHGAP26	23092	hgsc.bcm.edu;ucsc.edu	37	chr5	142500712	142500712	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaatagaaaaccacgaaaaGgtaatatgtaattgatcact	19	10	6	6	1	1	2	1	1	0	1	1	3	1	2	1	1	1	2	1	1	9	6	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	142500712	G	C	142500712	3	2	199	1	0	0	0	0	1	0	0	0	875	1014	35	4	1768	4	ARHGAP26	5	142500712	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	1997778	142500712	38414548	32	10999											
SPINK5	11005	hgsc.bcm.edu;ucsc.edu	37	chr5	147505289	147505289	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctttctcattttctaggatGagtgcagtgaatttcgaaac	10	15	8	8	1	2	2	1	2	2	0	4	4	2	3	1	1	2	1	1	1	3	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	147505289	G	A	147505289	3	1	199	1	0	0	0	0	1	0	0	0	15063	1291	45	2	2963	2	SPINK5	5	147505289	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	5004577	147505289	33409971	33	11000											
SPARC	6678	hgsc.bcm.edu;ucsc.edu	37	chr5	151049279	151049279	+	Frame_Shift_Del	DEL	C	C	-																															gtggcccttcttggtgccctCcagggtgcactttgtggcaa																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	151049279	C	-	151049279	7	5	199	1	0	1	0	1	0	0	0	0	14996	864	30	0	534	0	SPARC	5	151049279	Frame_Shift_Del	DEL	C	TCGA-B8-5550-01A-01D-1534-10	3543990	151049279	29865981	34	11001											
CYFIP2	26999	hgsc.bcm.edu;ucsc.edu	37	chr5	156750963	156750963	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccatgcttgaatcactcaTtgcagacaaaagcggctcca	13	8	8	12	1	2	2	2	1	0	1	3	3	3	2	2	1	3	3	2	1	3	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	156750963	T	C	156750963	3	2	199	1	0	0	0	0	1	0	0	0	4138	1493	52	3	1764	3	CYFIP2	5	156750963	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	5701684	156750963	24164297	35	11002											
CPEB4	80315	hgsc.bcm.edu;ucsc.edu	37	chr5	173317715	173317715	+	Frame_Shift_Del	DEL	C	C	-																															ggctgaatggtggaataacgCccctgaactccatctcgcct																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	173317715	C	-	173317715	7	5	199	1	0	1	0	1	0	0	0	0	3803	739	26	0	981	0	CPEB4	5	173317715	Frame_Shift_Del	DEL	C	TCGA-B8-5550-01A-01D-1534-10	16566752	173317715	7597545	36	11003											
DNAH8	1769	hgsc.bcm.edu;ucsc.edu	37	chr6	38881667	38881667	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgaatctgttgctaaacTctctcaggatcttgcagtca	11	13	8	9	0	5	1	2	1	3	0	6	2	5	2	0	1	3	3	0	1	4	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	38881667	T	A	38881667	3	1	199	1	0	0	0	0	1	0	0	0	4607	1551	54	5	9501	5	DNAH8	6	38881667	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10		38881667	132233400	37	11004											
IL17A	3605	hgsc.bcm.edu;ucsc.edu	37	chr6	52054066	52054066	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggctgcacctgtgtcacCccgattgtccaccatgtggc	5	10	12	14	1	1	0	1	0	0	0	2	1	2	0	5	2	1	2	5	2	0	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	52054066	C	A	52054066	2	1	199	1	0	0	0	0	0	0	0	1	7634	610	22	4		4	IL17A	6	52054066	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10	13172399	52054066	119061001	38	11005											
DSE	29940	hgsc.bcm.edu;ucsc.edu	37	chr6	116757866	116757866	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgctattgtggaacagaaCttgcagcattttaaaccagt	12	12	9	8	0	0	1	0	0	0	1	0	2	0	2	1	1	6	4	1	1	5	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	116757866	C	T	116757866	2	4	199	1	0	0	0	0	0	0	0	1	4774	564	20	2		2	DSE	6	116757866	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10	64703800	116757866	54357201	39	11006											
ROS1	6098	hgsc.bcm.edu;ucsc.edu	37	chr6	117718129	117718129	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggaaactggttctctgtGtccctgcatctaatttttga	8	16	8	9	0	2	1	0	1	2	0	4	2	3	2	1	2	2	2	1	2	2	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	117718129	G	T	117718129	3	4	199	1	0	0	0	0	1	0	0	0	13533	1377	48	4	6463	4	ROS1	6	117718129	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	960263	117718129	53396938	40	11007											
C7orf10	79783	hgsc.bcm.edu;ucsc.edu	37	chr7	40488943	40488943	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaataaccagcagtttGccaccgtctgcaaggtaatc	13	8	9	11	1	1	0	0	0	1	0	2	1	1	1	3	2	4	4	3	2	4	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	40488943	G	C	40488943	3	2	199	1	0	0	0	0	1	0	0	0	2376	1319	46	4	822	4	C7orf10	7	40488943	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10		40488943	118649720	41	11008											
AKAP9	10142	hgsc.bcm.edu;ucsc.edu	37	chr7	91630212	91630212	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaagaaatacaggaaaaGgagacaatcattgaagaatt	23	6	9	3	0	1	5	1	1	0	4	1	7	1	6	0	2	1	0	0	2	9	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	91630212	G	T	91630212	3	4	199	1	0	0	0	0	1	0	0	0	459	991	35	4	1011	4	AKAP9	7	91630212	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	51141269	91630212	67508451	42	11009											
AKAP9	10142	hgsc.bcm.edu;ucsc.edu	37	chr7	91724470	91724470	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggacgcagtgaagaacggGataaagaagaacttgaggta	16	6	15	4	2	0	5	0	2	0	3	0	7	0	7	0	3	2	2	0	3	7	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	91724470	G	T	91724470	3	4	199	1	0	0	0	0	1	0	0	0	459	1174	41	4	9870	4	AKAP9	7	91724470	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	94258	91724470	67414193	43	11010											
GNG11	2791	hgsc.bcm.edu;ucsc.edu	37	chr7	93551485	93551485	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgaagatttgccagagaaGgaaaaactgaaaatggaagt	19	7	11	4	1	0	3	0	1	0	2	1	7	0	5	1	2	2	0	1	2	7	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	93551485	G	C	93551485	3	2	199	1	0	0	0	0	1	0	0	0	6524	991	35	4	38	4	GNG11	7	93551485	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	1827015	93551485	65587178	44	11011											
EPHB4	2050	hgsc.bcm.edu;ucsc.edu	37	chr7	100405125	100405125	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtggacgtagctcatctcGgcaaggtaccgcatgcccga	8	7	13	13	5	2	0	1	0	1	0	3	2	2	1	2	4	3	5	2	4	3	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	100405125	G	C	100405125	2	2	199	1	0	0	0	0	0	0	0	1	5177	1103	39	4		4	EPHB4	7	100405125	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10	6853640	100405125	58733538	45	11012											
IQUB	154865	hgsc.bcm.edu;ucsc.edu	37	chr7	123143012	123143012	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattacctgcgtatccctacAaaatatactgagtctttcgg	11	13	6	11	2	1	1	0	1	1	0	3	1	2	1	2	1	4	1	2	1	7	6	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	123143012	A	G	123143012	3	3	199	1	0	0	0	0	1	0	0	0	7820	130	5	3	1558	3	IQUB	7	123143012	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	22737887	123143012	35995651	46	11013											
KIF13B	23303	hgsc.bcm.edu;ucsc.edu	37	chr8	28976473	28976473	+	Frame_Shift_Del	DEL	G	G	-																															catcccatccaccagcttctGggtcatcaagattatcctga																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	28976473	G	-	28976473	7	5	199	1	0	1	0	1	0	0	0	0	8275	1348	47	0	1952	0	KIF13B	8	28976473	Frame_Shift_Del	DEL	G	TCGA-B8-5550-01A-01D-1534-10		28976473	117387549	47	11014											
RAB2A	5862	hgsc.bcm.edu	37	chr8	61471447	61471447	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattgctacagtttacagAcaagaggtttcagccagtgc	11	12	9	9	0	1	2	1	0	0	2	1	2	1	2	1	1	5	3	1	1	4	6	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	61471447	A	T	61471447	3	4	199	1	0	0	0	0	1	0	0	0	12919	275	10	5	89	5	RAB2A	8	61471447	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	32494974	61471447	84892575	48	11015											
FAM91A1	157769	hgsc.bcm.edu;ucsc.edu	37	chr8	124799957	124799957	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggcaaactctcagatgaGtctctggacagctttcttat	10	13	9	9	0	3	2	1	1	3	1	5	3	3	3	0	2	2	3	0	2	3	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	124799957	G	C	124799957	3	2	199	1	0	0	0	0	1	0	0	0	5651	1020	36	4	1299	4	FAM91A1	8	124799957	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	63328510	124799957	21564065	49	11016											
KLHL9	55958	hgsc.bcm.edu;ucsc.edu	37	chr9	21334022	21334022	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcactggctgcatatatggCatcatttggtaattgctagc	10	14	9	8	0	2	0	2	0	0	0	2	0	2	0	0	3	3	5	0	3	4	6	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	21334022	C	T	21334022	3	4	199	1	0	0	0	0	1	0	0	0	8396	710	25	2	1020	2	KLHL9	9	21334022	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		21334022	119879409	50	11017											
ALDH1A1	216	hgsc.bcm.edu;ucsc.edu	37	chr9	75545843	75545843	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcagccaacttgtataaTagtcgccccctctcggaagc	12	9	7	13	2	2	0	1	0	1	0	4	1	2	1	3	1	3	1	3	1	6	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	75545843	T	C	75545843	2	2	199	1	0	0	0	0	0	0	0	1	490	1393	49	3		3	ALDH1A1	9	75545843	Silent	SNP	T	TCGA-B8-5550-01A-01D-1534-10	54211821	75545843	65667588	51	11018											
AKNA	80709	hgsc.bcm.edu;ucsc.edu	37	chr9	117130825	117130825	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtcccctggggcaccatTcccgtgtggatgctgtggtt	3	13	14	11	1	0	0	0	0	0	0	2	1	2	1	4	5	1	3	4	5	0	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	117130825	T	A	117130825	2	1	199	1	0	0	0	0	0	0	0	1	463	1770	62	5		5	AKNA	9	117130825	Silent	SNP	T	TCGA-B8-5550-01A-01D-1534-10	41584982	117130825	24082606	52	11019											
C10orf140	0	hgsc.bcm.edu;ucsc.edu	37	chr10	21804074	21804074	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggtggaagaggtattgcaGaaccgcccagctgccatttc	10	9	12	10	1	0	2	0	0	0	2	1	3	0	3	3	3	4	3	3	3	4	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	21804074	G	A	21804074	3	1	199	1	0	0	0	0	1	0	0	0	1595	942	33	2	52	2	C10orf140	10	21804074	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10		21804074	113730673	53	11020											
MYOZ1	58529	hgsc.bcm.edu	37	chr10	75393823	75393823	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttctccgcctgcctggtctCctggtagccatgggagagaa	6	10	12	13	1	2	1	0	0	2	1	4	3	2	2	5	3	2	1	5	3	2	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	75393823	C	T	75393823	3	4	199	1	0	0	0	0	1	0	0	0	10095	869	30	2	404	2	MYOZ1	10	75393823	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	53589749	75393823	60140924	54	11021											
IFIT1	3434	hgsc.bcm.edu;ucsc.edu	37	chr10	91162803	91162803	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctatgtctttcgatatgcAgccaagttttaccgaagaaa	13	12	7	9	2	1	1	0	0	1	1	2	3	1	1	3	0	3	2	3	0	6	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	91162803	A	T	91162803	2	4	199	1	0	0	0	0	0	0	0	1	7521	175	7	5		5	IFIT1	10	91162803	Silent	SNP	A	TCGA-B8-5550-01A-01D-1534-10	15768980	91162803	44371944	55	11022											
MRGPRX3	117195	hgsc.bcm.edu;ucsc.edu	37	chr11	18159153	18159153	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtaccactgccgccgccCcagatacctgtcatcagtca	8	8	8	17	2	3	1	3	0	0	1	3	1	3	1	6	1	3	1	6	1	2	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	18159153	C	T	18159153	3	4	199	1	0	0	0	0	1	0	0	0	9768	623	22	2	406	2	MRGPRX3	11	18159153	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		18159153	116847363	56	11023											
OR8I2	120586	hgsc.bcm.edu	37	chr11	55860880	55860880	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttttcttgatgtttctcTtcatttatctattcactgtt	5	24	4	8	0	6	1	2	1	4	0	7	1	6	1	0	0	0	2	0	0	2	10	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	55860880	T	G	55860880	3	3	199	1	0	0	0	0	1	0	0	0	11240	1609	56	5	99	5	OR8I2	11	55860880	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	37701727	55860880	79145636	57	11024											
DAK	26007	hgsc.bcm.edu;ucsc.edu	37	chr11	61113379	61113379	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaagcctggaagagcccAggagctgatctgttacaagt	11	8	11	11	0	1	2	0	1	1	1	2	4	2	4	3	2	4	2	3	2	4	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	61113379	A	G	61113379	2	3	199	1	0	0	0	0	0	0	0	1	4228	175	7	3		3	DAK	11	61113379	Silent	SNP	A	TCGA-B8-5550-01A-01D-1534-10	5252499	61113379	73893137	58	11025											
USP35	57558	hgsc.bcm.edu;ucsc.edu	37	chr11	77921086	77921086	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacagaaaaggaggctgagCaggaaaaggaagaagacagc	20	1	15	5	0	0	5	0	1	0	4	0	8	0	8	0	4	2	2	0	4	6	0	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	77921086	C	T	77921086	4	4	199	1	0	0	0	0	0	1	0	0	17065	711	25	2	2219	2	USP35	11	77921086	Nonsense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	16807707	77921086	57085430	59	11026											
SCN3B	55800	hgsc.bcm.edu	37	chr11	123513374	123513374	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggccattccgatactcGtaaatctgcagatagaggag	11	10	12	8	2	1	2	0	0	1	2	3	4	2	3	2	3	2	2	2	3	4	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	123513374	G	A	123513374	2	1	199	1	0	0	0	0	0	0	0	1	13921	1140	40	1		1	SCN3B	11	123513374	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10	45592288	123513374	11493142	60	11027											
HEPACAM	220296	hgsc.bcm.edu;ucsc.edu	37	chr11	124792312	124792312	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaggatatagagtgccatgGggttcttccgttcctgctca	7	13	11	10	1	3	1	2	0	1	1	5	2	5	2	3	3	2	3	3	3	2	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	124792312	G	A	124792312	3	1	199	1	0	0	0	0	1	0	0	0	7052	1232	43	2	338	2	HEPACAM	11	124792312	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	1278938	124792312	10214204	61	11028											
C1R	715	hgsc.bcm.edu;ucsc.edu	37	chr12	7189386	7189386	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgttcattcttccaaatgCcctgtgctgtgcaggtgtac	6	15	9	11	0	3	0	1	0	2	0	4	0	4	0	2	1	4	4	2	1	2	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	7189386	C	T	7189386	3	4	199	1	0	0	0	0	1	0	0	0	1972	739	26	2		2	C1R	12	7189386	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		7189386	126662509	62	11029											
SLC2A3	6515	hgsc.bcm.edu	37	chr12	8075533	8075533	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcggccacaataaaccAgggaatggggcctggtccaa	12	6	13	10	1	0	0	0	0	0	0	2	2	1	1	4	5	1	1	4	5	5	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	8075533	A	C	8075533	3	2	199	1	0	0	0	0	1	0	0	0	14547	188	7	5	342	5	SLC2A3	12	8075533	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	886147	8075533	125776362	63	11030											
PZP	5858	hgsc.bcm.edu	37	chr12	9317897	9317897	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttcggacaggcagaaGgcccctgccttccactcggt	7	8	11	15	2	1	1	0	0	1	1	4	2	2	2	4	4	1	2	4	4	1	2	rs139247183		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	9317897	G	A	9317897	2	1	199	1	0	0	0	0	0	0	0	1	12871	987	35	2		2	PZP	12	9317897	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10	1242364	9317897	124533998	64	11031											
MANSC1	54682	hgsc.bcm.edu;ucsc.edu	37	chr12	12483181	12483181	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctggactggcctccctaCcttcccaggaagcagtttta	7	11	9	14	0	0	0	0	0	0	0	2	2	2	2	5	3	3	2	5	3	3	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	12483181	C	T	12483181	3	4	199	1	0	0	0	0	1	0	0	0	9224	507	18	2	223	2	MANSC1	12	12483181	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	3165284	12483181	121368714	65	11032											
PRIM1	5557	hgsc.bcm.edu;ucsc.edu	37	chr12	57137871	57137871	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gataaaagggtgaattttttCacttaggtgaactttctttt	11	18	8	4	0	2	2	1	2	1	0	2	3	2	2	0	2	1	0	0	2	5	8	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	57137871	C	T	57137871	3	4	199	1	0	0	0	0	1	0	0	0	12492	835	29	2	678	2	PRIM1	12	57137871	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	44654690	57137871	76714024	66	11033											
CAPS2	84698	hgsc.bcm.edu;ucsc.edu	37	chr12	75716783	75716783	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagatgatactgagtatatgGagtttgacatggtgtgaccc	11	13	12	5	0	0	5	0	4	0	1	0	6	0	6	1	2	1	2	1	2	4	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	75716783	G	A	75716783	3	1	199	1	0	0	0	0	1	0	0	0	2638	1174	41	2	1410	2	CAPS2	12	75716783	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	18578912	75716783	58135112	67	11034											
APPL2	55198	hgsc.bcm.edu;ucsc.edu	37	chr12	105582070	105582070	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcaaagattgactggtgaCcatcagatgggattctgtca	11	11	10	9	0	4	4	3	2	1	2	4	5	4	5	2	2	0	0	2	2	1	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	105582070	C	G	105582070	3	3	199	1	0	0	0	0	1	0	0	0	818	507	18	4	399	4	APPL2	12	105582070	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	29865287	105582070	28269825	68	11035											
FBXL3	26224	hgsc.bcm.edu;ucsc.edu	37	chr13	77595752	77595752	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtagctggctgattcagttCaaattcaaaacatctccaca	13	12	6	10	0	4	1	3	1	1	0	5	1	4	1	1	1	2	4	1	1	4	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	77595752	C	G	77595752	3	3	199	1	0	0	0	0	1	0	0	0	5720	835	29	4	1058	4	FBXL3	13	77595752	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		77595752	37574126	69	11036											
LTBP2	4053	hgsc.bcm.edu	37	chr14	75052560	75052560	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagaaggggacttacccaGctggtggcgactgtggtgcg	7	8	18	8	2	0	1	0	0	0	1	0	4	0	2	1	6	3	1	1	6	2	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	75052560	G	A	75052560	3	1	199	1	0	0	0	0	1	0	0	0	9074	971	34	2	4774	2	LTBP2	14	75052560	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10		75052560	32296980	70	11037											
TTC7B	145567	hgsc.bcm.edu;ucsc.edu	37	chr14	91155923	91155923	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctctccgagtgagagtgTaggtttttgtgtttgctcct	4	16	14	7	1	1	1	0	1	1	1	3	3	2	1	2	2	1	5	2	2	1	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	91155923	T	G	91155923	3	3	199	1	0	0	0	0	1	0	0	0	16712	1638	57	5	1676	5	TTC7B	14	91155923	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10	16103363	91155923	16193617	71	11038											
SERINC4	619189	hgsc.bcm.edu;ucsc.edu	37	chr15	44087392	44087392	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccttgatgaaggtcttttCcagttctgctccctcatagc	7	14	7	13	0	3	2	1	2	2	0	5	2	5	2	3	1	2	2	3	1	2	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	44087392	C	A	44087392	4	1	199	1	0	0	0	0	0	1	0	0	14084	864	30	4	197	4	SERINC4	15	44087392	Nonsense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10		44087392	58444000	72	11039											
WFIKKN1	117166	hgsc.bcm.edu	37	chr16	681423	681423	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgagtgtagcagggaccAggtgagtgtggtcgggccgg	6	6	21	8	4	0	1	0	1	0	0	1	3	0	2	2	5	1	2	2	5	1	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	681423	A	T	681423	3	4	199	1	0	0	0	0	1	0	0	0	17357	202	7	5	172	5	WFIKKN1	16	681423	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10		681423	89673330	73	11040											
CMTM2	146225	hgsc.bcm.edu;ucsc.edu	37	chr16	66621879	66621879	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtgtcttcaaagaaacCacttcagaggcaagaaggcc	14	8	10	9	0	3	3	2	0	1	3	3	3	3	3	2	2	1	1	2	2	4	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	66621879	C	A	66621879	3	1	199	1	0	0	0	0	1	0	0	0	3583	594	21	4	618	4	CMTM2	16	66621879	Missense_Mutation	SNP	C	TCGA-B8-5550-01A-01D-1534-10	65940456	66621879	23732874	74	11041											
GLG1	2734	hgsc.bcm.edu;ucsc.edu	37	chr16	74506300	74506300	+	Frame_Shift_Del	DEL	T	T	-																															tctcatcagcaaggcttctaTttgaatatcctgtagaaaat																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	74506300	T	-	74506300	7	5	199	1	0	1	0	1	0	0	0	0	6436	1493	52	0	1609	0	GLG1	16	74506300	Frame_Shift_Del	DEL	T	TCGA-B8-5550-01A-01D-1534-10	7884421	74506300	15848453	75	11042											
HNF1B	6928	hgsc.bcm.edu	37	chr17	36104840	36104840	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagctcagcagggcgctcagGagttcttgctggagcgacgt	7	8	16	10	3	3	0	2	0	1	0	3	4	3	2	0	3	4	5	0	3	0	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	36104840	G	T	36104840	2	4	199	1	0	0	0	0	0	0	0	1	7252	1161	41	4		4	HNF1B	17	36104840	Silent	SNP	G	TCGA-B8-5550-01A-01D-1534-10		36104840	45090370	76	11043											
GPR179	440435	hgsc.bcm.edu;ucsc.edu	37	chr17	36495345	36495345	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgttagagtaccagccTgggccacttgcacactgatt	8	12	11	10	0	0	2	0	1	0	1	0	2	0	2	3	1	3	3	3	1	2	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	36495345	T	G	36495345	2	3	199	1	0	0	0	0	0	0	0	1	6674	1567	55	5		5	GPR179	17	36495345	Silent	SNP	T	TCGA-B8-5550-01A-01D-1534-10	390505	36495345	44699865	77	11044											
GNA13	10672	hgsc.bcm.edu;ucsc.edu	37	chr17	63010742	63010742	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtcagtcgatcttccataAgcacctggtcaaattcactt	10	13	7	11	1	4	0	3	0	1	0	6	1	5	0	2	2	1	1	2	2	2	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	63010742	A	T	63010742	3	4	199	1	0	0	0	0	1	0	0	0	6501	72	3	5	370	5	GNA13	17	63010742	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	26515397	63010742	18184468	78	11045											
PRPSAP1	5635	hgsc.bcm.edu;ucsc.edu	37	chr17	74308958	74308958	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcagcctgacctcgtctAcggaggactcctcaatcagg	10	7	11	13	2	3	1	2	1	1	0	5	4	4	3	3	3	3	1	3	3	3	1	rs141217356		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	74308958	A	G	74308958	3	3	199	1	0	0	0	0	1	0	0	0	12583	391	14	3	173	3	PRPSAP1	17	74308958	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	11298216	74308958	6886252	79	11046											
ZNF519	162655	hgsc.bcm.edu	37	chr18	14105247	14105247	+	Missense_Mutation	SNP	T	T	G																															cacattctttacatttgaagTgtttctctccagtatggatt																								rs145735313	byfrequency	TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		G	14105247	T	G	14105247	3	3	199	1	0	0	0	0	1	0	0	0	17963	1696	59	5	334	5	ZNF519	18	14105247	Missense_Mutation	SNP	T	TCGA-B8-5550-01A-01D-1534-10		14105247	63972001	80	11047	167	2									
ZNF519	162655	hgsc.bcm.edu	37	chr18	14105249	14105249	+	Silent	SNP	T	T	C																															cattctttacatttgaagtgTttctctccagtatggattct																								rs144389001	byfrequency	TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		C	14105249	T	C	14105249	2	2	199	1	0	0	0	0	0	0	0	1	17963	1722	60	3		3	ZNF519	18	14105249	Silent	SNP	T	TCGA-B8-5550-01A-01D-1534-10	2	14105249	63971999	81	11048	167	2									
FAM59A	0	hgsc.bcm.edu;ucsc.edu	37	chr18	29867671	29867671	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagtcaagtgcaaaggaaAgtgcatggggaggatcttgt	13	8	15	5	0	2	0	1	0	1	0	2	4	2	3	0	4	2	2	0	4	3	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	29867671	A	T	29867671	3	4	199	1	0	0	0	0	1	0	0	0	5592	72	3	5	1750	5	FAM59A	18	29867671	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	15762422	29867671	48209577	82	11049											
COL5A3	50509	hgsc.bcm.edu;ucsc.edu	37	chr19	10080071	10080072	+	Frame_Shift_Ins	INS	-	-	GT																															aggggctcccaggaggcctgINSgttcaccctgagaatggaac																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		GT	10080072	-	GT	10080071	7	5	199	1	0	1	1	0	0	0	0	0	3698	1348	47	0	1175	0	COL5A3	19	10080071	Frame_Shift_Ins	INS	-	TCGA-B8-5550-01A-01D-1534-10		10080071	49048912	83	11050											
NOTCH3	4854	hgsc.bcm.edu	37	chr19	15289963	15289963	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcgcagcgcaaaccagtGtatcctgggggacaggtgca	9	6	14	12	2	0	0	0	0	0	0	2	1	1	1	3	3	3	4	3	3	2	1	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	15289963	G	T	15289963	4	4	199	1	0	0	0	0	0	1	0	0	10550	1372	48	4	3422	4	NOTCH3	19	15289963	Nonsense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	5209892	15289963	43839020	84	11051											
PLD3	23646	hgsc.bcm.edu;ucsc.edu	37	chr19	40876046	40876046	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcatggtggacatgcagAagctgacccatggcgtcctg	8	8	13	12	2	0	2	0	1	0	1	2	3	2	3	3	3	2	3	3	3	1	0	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	40876046	A	T	40876046	4	4	199	1	0	0	0	0	0	1	0	0	12047	247	9	5	602	5	PLD3	19	40876046	Nonsense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10	25586083	40876046	18252937	85	11052											
COX6B2	125965	hgsc.bcm.edu;ucsc.edu	37	chr19	55865854	55865854	+	Frame_Shift_Del	DEL	C	C	-																															aagggcggcgtcgaccatttCcccttggggggctcctgggc																								novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		-	55865854	C	-	55865854	7	5	199	1	0	1	0	1	0	0	0	0	3777	842	30	0	242	0	COX6B2	19	55865854	Frame_Shift_Del	DEL	C	TCGA-B8-5550-01A-01D-1534-10	14989808	55865854	3263129	86	11053											
C20orf26	26074	hgsc.bcm.edu;ucsc.edu	37	chr20	20243667	20243667	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggttcccaacagcagtcAgcggcggtacacggggaaag	11	4	16	10	3	1	0	1	0	0	0	2	2	2	2	1	6	4	3	1	6	3	2	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	20243667	A	T	20243667	3	4	199	1	0	0	0	0	1	0	0	0	2106	188	7	5	2506	5	C20orf26	20	20243667	Missense_Mutation	SNP	A	TCGA-B8-5550-01A-01D-1534-10		20243667	42781853	87	11054											
HCK	3055	hgsc.bcm.edu;ucsc.edu	37	chr20	30676371	30676371	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctcccctctcccccatatagGaagcttgctggactttctga	7	12	7	15	0	2	1	0	1	2	0	4	3	3	3	4	2	2	2	4	2	3	4	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		A	30676371	G	A	30676371	3	1	199	1	0	0	0	0	1	0	0	0	6994	1188	41	2	1060	2	HCK	20	30676371	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	10432704	30676371	32349149	88	11055											
FAM48B1	0	hgsc.bcm.edu	37	chrX	24382644	24382644	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccagctgcccagcccccCaccaaattcataaaaatagc	13	7	5	16	0	1	0	1	0	0	0	2	0	2	0	6	0	4	1	6	0	5	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	24382644	C	T	24382644	2	4	199	1	0	0	0	0	0	0	0	1	5573	581	21	2		2	FAM48B1	23	24382644	Silent	SNP	C	TCGA-B8-5550-01A-01D-1534-10		24382644	130887916	89	11056											
BCOR	54880	hgsc.bcm.edu;ucsc.edu	37	chrX	39931683	39931683	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttgaatcggtcacccacGtaacccgctgagttggcgat	9	10	10	12	4	1	2	1	2	0	0	2	3	1	2	2	2	1	3	2	2	2	3	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	39931683	G	T	39931683	4	4	199	1	0	0	0	0	0	1	0	0	1386	1140	40	4	2399	4	BCOR	23	39931683	Nonsense_Mutation	SNP	G	TCGA-B8-5550-01A-01D-1534-10	15549039	39931683	115338877	90	11057											
CASK	8573	hgsc.bcm.edu;ucsc.edu	37	chrX	41428920	41428920	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaaatatatatgaaacttaCcttgcctgtgaatcatgccc	14	12	6	9	0	1	3	1	2	0	1	1	3	1	3	3	0	4	0	3	0	7	5	novel		TCGA-B8-5550-01A-01D-1534-10	TCGA-B8-5550-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0a604587-2575-4a52-95a7-ca5c5971045d	d86d79bb-fbb2-46a6-9f40-32f2b17dc4b9		T	41428920	C	T	41428920	5	4	199	1	0	0	0	0	0	0	1	0	2665	521	18	2	1245	2	CASK	23	41428920	Splice_Site	SNP	C	TCGA-B8-5550-01A-01D-1534-10	1497237	41428920	113841640	91	11058											
VHL	7428	hgsc.bcm.edu	37	chr3	10183767	10183767	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtcatcttctgcaatcGcagtccgcgcgtcgtgctgc	5	10	11	15	5	3	0	1	0	2	0	6	0	4	0	2	1	3	3	2	1	1	1	novel		TCGA-B8-5550-01A-01W-1584-10	TCGA-B8-5550-10A-01W-1585-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq	.	.	PacBio RS	f8dca1fa-9afd-4eb6-b608-ac8a63ced992	a7a3d0df-1143-4b79-89b7-e2cddcd25fa9		C	10183767	G	C	10183767	3	2	200	1	0	0	0	0	1	0	0	0	17161	1087	38	4	238	4	VHL	3	10183767	Missense_Mutation	SNP	G	TCGA-B8-5550-01A-01W-1584-10		10183767	187838663	1	11059											
TMEM17	200728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	62728554	62728554	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttaggccttcattaaaGagcaagaaaagaattaaagg	17	11	9	4	0	1	3	1	0	0	3	1	3	1	3	1	2	1	2	1	2	9	5	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	62728554	G	T	62728554	2	4	201	1	0	0	0	0	0	0	0	1	16084	929	33	4		4	TMEM17	2	62728554	Silent	SNP	G	TCGA-B8-5551-01A-01D-1534-10		62728554	180470819	1	11060											
TTN	7273	hgsc.bcm.edu	37	chr2	179611843	179611875	+	In_Frame_Del	DEL	TATCTCTCCAGAGTCTCTCCTGGGGGTGTGGAA	TATCTCTCCAGAGTCTCTCCTGGGGGTGTGGAA	-																															tctctcctgggggtgtggagTatctctccagagtctctcct																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	TATCTCTCCAGAGTCTCTCCTGGGGGTGTGGAA	TATCTCTCCAGAGTCTCTCCTGGGGGTGTGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	179611875	TATCTCTCCAGAGTCTCTCCTGGGGGTGTGGAA	-	179611843	7	5	201	1	0	1	0	1	0	0	0	0	16734	1638	57	0	95013	0	TTN	2	179611843	In_Frame_Del	DEL	TATCTCTCCAGAGTCTCTCCTGGGGGTGTGGAA	TCGA-B8-5551-01A-01D-1534-10	116883289	179611843	63587530	2	11061											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188254	10188254	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgggcttctggttaaccaaActgaattatttgtgccatct	10	15	8	8	0	2	1	0	1	2	0	2	1	2	1	2	2	3	2	2	2	4	4	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	10188254	A	C	10188254	3	2	201	1	0	0	0	0	1	0	0	0	17161	43	2	5	403	5	VHL	3	10188254	Missense_Mutation	SNP	A	TCGA-B8-5551-01A-01D-1534-10		10188254	187834176	3	11062											
NR1D2	9975	hgsc.bcm.edu;ucsc.edu	37	chr3	24018838	24018838	+	Frame_Shift_Del	DEL	A	A	-																															atttttacaaaactgcttctAaagttgccagatcttcgatc																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	24018838	A	-	24018838	7	5	201	1	0	1	0	1	0	0	0	0	10616	349	13	0	1698	0	NR1D2	3	24018838	Frame_Shift_Del	DEL	A	TCGA-B8-5551-01A-01D-1534-10	13830584	24018838	174003592	4	11063											
HHATL	57467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42734320	42734320	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctcctttaccagctggaCgccacagtaggtgacaaaca	12	7	9	13	2	0	1	0	1	0	0	1	2	1	2	3	2	3	3	3	2	3	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	42734320	C	T	42734320	3	4	201	1	0	0	0	0	1	0	0	0	7090	536	19	1	80	1	HHATL	3	42734320	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	18715482	42734320	155288110	5	11064											
BAP1	8314	broad.mit.edu;ucsc.edu	37	chr3	52443729	52443729	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagggagaaaaggctcttaCcgaaatcttccacgagcagg	13	6	12	10	2	2	1	0	0	2	1	3	4	3	1	2	3	2	3	2	3	4	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	52443729	T	T	52443729	5	4	201	1	0	0	0	0	0	0	1	0	1311	521	18	2	2185	2	BAP1	3	52443729	Splice_Site	SNP	C	TCGA-B8-5551-01A-01D-1534-10	9709409	52443729	145578701	6	11065											
SLC12A8	84561	broad.mit.edu	37	chr3	124906161	124906161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatggagtagacgccacCgctgccgatgctgctgcgct	7	8	13	13	4	1	1	1	0	0	1	1	4	1	2	3	1	4	5	3	1	1	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	124906161	T	T	124906161	3	4	201	1	0	0	0	0	1	0	0	0	14391	652	23	1	1878	1	SLC12A8	3	124906161	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	72462432	124906161	73116269	7	11066											
PLCH1	23007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	155215167	155215167	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacacaaccaaatcagagagTtctcggcagagcttcatggt	13	9	9	10	1	3	2	2	0	1	2	4	3	3	2	1	2	3	3	1	2	3	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	155215167	T	G	155215167	3	3	201	1	0	0	0	0	1	0	0	0	12037	1722	60	5	3336	5	PLCH1	3	155215167	Missense_Mutation	SNP	T	TCGA-B8-5551-01A-01D-1534-10	30309006	155215167	42807263	8	11067											
EIF2B5	8893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	183859715	183859715	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcccatcctgagccaggtGataacgtggtgctggaccag	8	9	12	12	1	0	2	0	2	0	0	2	3	2	3	4	3	3	1	4	3	1	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	183859715	G	A	183859715	3	1	201	1	0	0	0	0	1	0	0	0	5004	1290	45	2	1189	2	EIF2B5	3	183859715	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10	28644548	183859715	14162715	9	11068											
MUC4	4585	broad.mit.edu	37	chr3	195511310	195511310	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacaggaagaggggtggtgtGacctgaggatgctgaggaag	11	6	20	4	0	0	4	0	3	0	1	0	8	0	7	1	6	1	1	1	6	2	0	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	195511310	C	C	195511310	3	2	201	1	0	0	0	0	1	0	0	0	9978	1290	45	4		4	MUC4	3	195511310	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10	11651595	195511310	2511120	10	11069											
MFSD7	84179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	680061	680061	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatgcgtagcacactccCggcaaagttcagccacgcac	11	5	8	17	3	1	0	1	0	0	0	2	0	2	0	3	1	3	5	3	1	2	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	680061	C	T	680061	3	4	201	1	0	0	0	0	1	0	0	0	9537	652	23	1	1386	1	MFSD7	4	680061	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10		680061	190474215	11	11070											
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	126242662	126242662	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagccattctggaccgggAgcaaggagcatgtctttacc	9	8	12	12	2	2	0	0	0	2	0	2	3	2	3	3	3	4	3	3	3	2	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	126242662	A	T	126242662	3	4	201	1	0	0	0	0	1	0	0	0	5692	304	11	5	5098	5	FAT4	4	126242662	Missense_Mutation	SNP	A	TCGA-B8-5551-01A-01D-1534-10	125562601	126242662	64911614	12	11071											
PCDHB1	29930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140432180	140432180	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactatcagagaccgggaCattcgagtgggaggaaaagt	13	8	13	7	2	2	1	2	0	0	1	3	6	2	4	1	3	0	0	1	3	3	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	140432180	C	T	140432180	2	4	201	1	0	0	0	0	0	0	0	1	11534	477	17	2		2	PCDHB1	5	140432180	Silent	SNP	C	TCGA-B8-5551-01A-01D-1534-10		140432180	40483080	13	11072											
CAMK2A	815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149619293	149619293	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaacgctggaactggactTtcttttctggaaaaacaagg	12	11	10	8	1	2	1	0	1	2	0	2	4	2	4	0	4	3	1	0	4	5	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	149619293	T	G	149619293	3	3	201	1	0	0	0	0	1	0	0	0	2599	1850	64	5	502	5	CAMK2A	5	149619293	Missense_Mutation	SNP	T	TCGA-B8-5551-01A-01D-1534-10	9187113	149619293	31295967	14	11073											
RBM24	221662	hgsc.bcm.edu	37	chr6	17292140	17292140	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagctgctgctgctgcCgccgccgctgctgcctatga	4	9	12	16	3	1	1	1	1	0	0	1	1	1	1	4	0	8	7	4	0	1	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	17292140	C	T	17292140	2	4	201	1	0	0	0	0	0	0	0	1	13126	639	23	1		1	RBM24	6	17292140	Silent	SNP	C	TCGA-B8-5551-01A-01D-1534-10		17292140	153822927	15	11074											
TNRC18	84629	broad.mit.edu;hgsc.bcm.edu	37	chr7	5348898	5348898	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagggcaggttggggcggccGgcagagaggaacacggcaca	10	3	19	9	3	0	1	0	0	0	1	0	3	0	2	1	8	1	4	1	8	2	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	5348898	G	A	5348898	2	1	201	1	0	0	0	0	0	0	0	1	16338	1103	39	1		1	TNRC18	7	5348898	Silent	SNP	G	TCGA-B8-5551-01A-01D-1534-10		5348898	153789765	16	11075											
DUSP26	78986	broad.mit.edu;ucsc.edu	37	chr8	33451243	33451243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatgcccaggcggcgaagctCccggcggttgttagccatgt	6	8	15	12	4	0	0	0	0	0	0	1	2	1	0	3	4	3	3	3	4	2	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	33451243	T	T	33451243	3	4	201	1	0	0	0	0	1	0	0	0	4823	864	30	2	399	2	DUSP26	8	33451243	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10		33451243	112912779	17	11076											
ZFHX4	79776	broad.mit.edu	37	chr8	77768349	77768349	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggcacagcaagaactTgatcgtataaagaaagcttc	15	9	9	8	1	0	4	0	2	0	2	2	4	0	4	0	1	3	4	0	1	6	4	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	77768349	C	C	77768349	2	2	201	1	0	0	0	0	0	0	0	1	17634	1799	63	3		3	ZFHX4	8	77768349	Silent	SNP	T	TCGA-B8-5551-01A-01D-1534-10	44317106	77768349	68595673	18	11077											
ZNF33B	7582	broad.mit.edu;hgsc.bcm.edu	37	chr10	43088522	43088522	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatgtgaattctctgatgctGagtgagttgtgacttctggc	7	16	12	6	0	2	5	0	5	2	0	3	5	2	5	0	1	1	2	0	1	2	4	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	43088522	G	A	43088522	4	1	201	1	0	0	0	0	0	1	0	0	17854	1299	45	2	464	2	ZNF33B	10	43088522	Nonsense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10		43088522	92446225	19	11078											
CYP2C19	1557	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96534859	96534859	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcactctgtattttggcctGgaacgcatggtggtgctgca	6	14	12	9	1	2	0	1	0	1	0	2	1	2	1	1	4	3	4	1	4	2	4	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	96534859	G	A	96534859	2	1	201	1	0	0	0	0	0	0	0	1	4166	1335	47	2		2	CYP2C19	10	96534859	Silent	SNP	G	TCGA-B8-5551-01A-01D-1534-10	53446337	96534859	38999888	20	11079											
OR4C15	81309	hgsc.bcm.edu	37	chr11	55322635	55322635	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagaacacacagttctgaaGggcgctggaaagctctctcc	11	8	11	11	1	2	2	0	2	2	1	4	4	3	3	1	2	2	3	1	2	3	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	55322635	G	C	55322635	3	2	201	1	0	0	0	0	1	0	0	0	11048	1000	35	4	855	4	OR4C15	11	55322635	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10		55322635	79683881	21	11080											
KRTAP5-11	440051	hgsc.bcm.edu	37	chr11	71293818	71293818	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagccagagccacagccCccactgccggagccacagcc	10	1	9	21	1	0	1	0	0	0	1	0	2	0	2	8	1	6	0	8	1	0	0	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	71293818	C	T	71293818	2	4	201	1	0	0	0	0	0	0	0	1	8560	610	22	2		2	KRTAP5-11	11	71293818	Silent	SNP	C	TCGA-B8-5551-01A-01D-1534-10	15971183	71293818	63712698	22	11081											
USP28	57646	hgsc.bcm.edu;ucsc.edu	37	chr11	113694390	113694391	+	Frame_Shift_Del	DEL	TT	TT	-																															ttcgaatacactctctcttaTttcgaataagctccttgctc																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	113694391	TT	-	113694390	7	5	201	1	0	1	0	1	0	0	0	0	17057	1493	52	0	2069	0	USP28	11	113694390	Frame_Shift_Del	DEL	TT	TCGA-B8-5551-01A-01D-1534-10	42400572	113694390	21312126	23	11082											
CCND2	894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	4398012	4398012	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctcattccttgcagacttTaagtttgccatgtacccacc	8	14	5	14	0	1	1	1	0	1	1	3	1	2	1	4	0	3	3	4	0	2	6	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	4398012	T	C	4398012	2	2	201	1	0	0	0	0	0	0	0	1	2917	1751	61	3		3	CCND2	12	4398012	Silent	SNP	T	TCGA-B8-5551-01A-01D-1534-10		4398012	129453883	24	11083											
CAPZA3	93661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	18891595	18891595	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaaaactgtatgtgaatgaCcactatccaaaaggaaattg	17	11	7	6	0	0	2	0	2	0	0	1	3	1	3	2	1	1	1	2	1	8	4	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	18891595	C	T	18891595	2	4	201	1	0	0	0	0	0	0	0	1	2642	506	18	2		2	CAPZA3	12	18891595	Silent	SNP	C	TCGA-B8-5551-01A-01D-1534-10	14493583	18891595	114960300	25	11084											
COQ10A	93058	hgsc.bcm.edu;ucsc.edu	37	chr12	56662982	56662982	+	Frame_Shift_Del	DEL	G	G	-																															tggaggttggctttccacctGtcatggaacgttacacctct																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	56662982	G	-	56662982	7	5	201	1	0	1	0	1	0	0	0	0	3743	1377	48	0	473	0	COQ10A	12	56662982	Frame_Shift_Del	DEL	G	TCGA-B8-5551-01A-01D-1534-10	37771387	56662982	77188913	26	11085											
IL22	50616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	68646407	68646407	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcagcacctgcttcatCagatagcagcgctcactcat	11	10	7	13	1	5	1	5	0	0	1	5	1	5	1	1	0	4	5	1	0	2	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	68646407	C	A	68646407	2	1	201	1	0	0	0	0	0	0	0	1	7672	813	29	4		4	IL22	12	68646407	Silent	SNP	C	TCGA-B8-5551-01A-01D-1534-10	11983425	68646407	65205488	27	11086											
LTA4H	4048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96397644	96397644	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcagaattgttaatggCattgaagttgtacacctctt	11	17	7	6	0	2	2	1	1	1	1	2	2	2	2	1	1	1	4	1	1	5	8	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	96397644	C	T	96397644	3	4	201	1	0	0	0	0	1	0	0	0	9069	710	25	2	262	2	LTA4H	12	96397644	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	27751237	96397644	37454251	28	11087											
HIP1R	9026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123340840	123340840	+	Silent	SNP	G	G	C																															gaggcgcgctacaacaagctGaaggaaaagcacagtgagct																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	123340840	G	C	123340840	2	2	201	1	0	0	0	0	0	0	0	1	7115	1277	45	4		4	HIP1R	12	123340840	Silent	SNP	G	TCGA-B8-5551-01A-01D-1534-10	26943196	123340840	10511055	29	11088	168	2									
HIP1R	9026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123340841	123340841	+	Nonsense_Mutation	SNP	A	A	T																															aggcgcgctacaacaagctgAaggaaaagcacagtgagctc																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	123340841	A	T	123340841	4	4	201	1	0	0	0	0	0	1	0	0	7115	247	9	5	1409	5	HIP1R	12	123340841	Nonsense_Mutation	SNP	A	TCGA-B8-5551-01A-01D-1534-10	1	123340841	10511054	30	11089	168	2									
ZNF280D	54816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56959007	56959007	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attaggcttacttgtattagGtttacttgcgttggatttga	8	19	10	4	1	0	1	0	1	0	0	0	2	0	2	0	3	3	4	0	3	5	10	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	56959007	G	A	56959007	3	1	201	1	0	0	0	0	1	0	0	0	17816	1261	44	2	1248	2	ZNF280D	15	56959007	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10		56959007	45572385	31	11090											
CCDC33	80125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	74565206	74565206	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgatgaactttgacgtgcctCgcgtcagccagaacggatgc	9	9	12	11	4	1	4	1	3	0	1	2	5	1	5	2	1	5	0	2	1	2	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	74565206	C	G	74565206	3	3	201	1	0	0	0	0	1	0	0	0	2806	884	31	4	759	4	CCDC33	15	74565206	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	17606199	74565206	27966186	32	11091											
ABCC6	368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	16256866	16256866	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgtcagccaccagtcGcgggaaactgatcctctggc	8	8	10	15	2	2	1	1	1	1	0	4	2	3	2	4	2	3	0	4	2	2	1	rs72653744	bycluster	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	16256866	G	A	16256866	4	1	201	1	0	0	0	0	0	1	0	0	57	1095	38	1	1053	1	ABCC6	16	16256866	Nonsense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10		16256866	74097887	33	11092											
MBTPS1	8720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84101412	84101412	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtactcctcctcactgtcCaccatcagcaaagtgcctga	11	9	6	15	0	2	1	2	1	0	0	5	1	5	1	5	0	3	2	5	0	3	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	84101412	C	T	84101412	2	4	201	1	0	0	0	0	0	0	0	1	9361	581	21	2		2	MBTPS1	16	84101412	Silent	SNP	C	TCGA-B8-5551-01A-01D-1534-10	67844546	84101412	6253341	34	11093											
SERPINF2	5345	broad.mit.edu;ucsc.edu	37	chr17	1650770	1650770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgggctgccggaagacAccgtgttgcttctcctcaac	6	11	10	14	2	3	1	1	0	2	1	5	2	3	2	3	2	3	3	3	2	2	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	1650770	G	G	1650770	3	3	201	1	0	0	0	0	1	0	0	0	14117	159	6	3	711	3	SERPINF2	17	1650770	Missense_Mutation	SNP	A	TCGA-B8-5551-01A-01D-1534-10		1650770	79544440	35	11094											
KIAA0100	9703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26969021	26969021	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatccacagtgatagcagTgagatgccgactgctaatgc	12	8	10	11	1	0	2	0	2	0	1	1	4	1	2	2	0	4	2	2	0	2	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	26969021	T	C	26969021	3	2	201	1	0	0	0	0	1	0	0	0	8154	1696	59	3	6187	3	KIAA0100	17	26969021	Missense_Mutation	SNP	T	TCGA-B8-5551-01A-01D-1534-10	25318251	26969021	54226189	36	11095											
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27409435	27409435	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggtcctccagctccgaGtccacatcagagtctccctc	8	8	7	18	2	2	1	1	0	1	1	8	2	6	1	5	1	1	1	5	1	0	0	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	27409435	G	T	27409435	3	4	201	1	0	0	0	0	1	0	0	0	10065	1020	36	4	253	4	MYO18A	17	27409435	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10	440414	27409435	53785775	37	11096											
UNC45B	146862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33513509	33513509	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagatgagaagaaggcagaAgtggttcagacagcccgaga	15	4	14	8	1	1	6	1	1	0	6	1	8	1	6	2	2	1	2	2	2	3	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	33513509	A	G	33513509	2	3	201	1	0	0	0	0	0	0	0	1	16988	69	3	3		3	UNC45B	17	33513509	Silent	SNP	A	TCGA-B8-5551-01A-01D-1534-10	6104074	33513509	47681701	38	11097											
KAT2A	2648	hgsc.bcm.edu	37	chr17	40270030	40270068	+	Frame_Shift_Del	DEL	CTGAAGCTGAGGAGAGAGAGAGACGTCAGGGATGGGGGG	CTGAAGCTGAGGAGAGAGAGAGACGTCAGGGATGGGGGG	-																															gggaacaaccgctgcactgaCtgaagctgaggagagagaga																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	CTGAAGCTGAGGAGAGAGAGAGACGTCAGGGATGGGGGG	CTGAAGCTGAGGAGAGAGAGAGACGTCAGGGATGGGGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	40270068	CTGAAGCTGAGGAGAGAGAGAGACGTCAGGGATGGGGGG	-	40270030	7	5	201	1	0	1	0	1	0	0	0	0	7981	565	20	0	1371	0	KAT2A	17	40270030	Frame_Shift_Del	DEL	CTGAAGCTGAGGAGAGAGAGAGACGTCAGGGATGGGGGG	TCGA-B8-5551-01A-01D-1534-10	6756521	40270030	40925180	39	11098											
GPATCH8	23131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42476348	42476348	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatagtggggggactgggAgcggtagatcttagaacgaa	13	7	17	4	2	1	2	0	0	1	2	1	6	1	4	0	5	2	1	0	5	6	3	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	42476348	A	G	42476348	3	3	201	1	0	0	0	0	1	0	0	0	6594	304	11	3	1415	3	GPATCH8	17	42476348	Missense_Mutation	SNP	A	TCGA-B8-5551-01A-01D-1534-10	2206318	42476348	38718862	40	11099											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6983124	6983124	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcagtcacagtcctgtGagcatctctggccagttcct	6	12	9	14	1	3	1	2	1	2	0	7	1	5	1	3	1	1	2	3	1	0	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	6983124	G	T	6983124	3	4	201	1	0	0	0	0	1	0	0	0	8605	1290	45	4	3553	4	LAMA1	18	6983124	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10		6983124	71094124	41	11100											
OR10H1	26539	broad.mit.edu;hgsc.bcm.edu	37	chr19	15918103	15918103	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagccatagtgcacgaccaCcacagtgaggtgagaggcac	14	4	12	11	1	0	2	0	2	0	1	0	4	0	2	3	2	2	2	3	2	2	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	15918103	C	G	15918103	3	3	201	1	0	0	0	0	1	0	0	0	10905	507	18	4	215	4	OR10H1	19	15918103	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10		15918103	43210880	42	11101											
ZNF790	388536	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37314189	37314189	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagccctcactcacctGggcaaggtcctcttgtctca	6	12	8	15	0	5	0	4	0	2	0	7	0	6	0	3	2	1	2	3	2	1	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	37314189	G	T	37314189	3	4	201	1	0	0	0	0	1	0	0	0	18161	1348	47	4	1691	4	ZNF790	19	37314189	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10	21396086	37314189	21814794	43	11102											
LMTK3	114783	broad.mit.edu	37	chr19	48994751	48994751	+	Frame_Shift_Del	DEL	C	-	-																															aggcgttgacgggtccgtgtCcccctcggggggggcctgga																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	48994751	-	-	48994751	7	5	201	1	0	1	0	1	0	0	0	0	8860	855	30	0	256	0	LMTK3	19	48994751	Frame_Shift_Del	DEL	C	TCGA-B8-5551-01A-01D-1534-10	11680562	48994751	10134232	44	11103											
CLDND2	125875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51870775	51870775	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccaagagaagaagacgttGttcttccacgcattcttcac	12	10	8	11	2	3	3	1	0	2	3	4	5	4	3	2	0	0	3	2	0	3	5	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		C	51870775	G	C	51870775	3	2	201	1	0	0	0	0	1	0	0	0	3494	1368	48	4	145	4	CLDND2	19	51870775	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10	2876024	51870775	7258208	45	11104											
RPL28	6158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55899365	55899365	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgctcgcgccacgctcagCagcatcagacacatgatccg	11	6	9	15	4	2	2	2	1	0	1	4	2	3	2	2	0	3	4	2	0	1	0	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		G	55899365	C	G	55899365	3	3	201	1	0	0	0	0	1	0	0	0	13579	709	25	4	351	4	RPL28	19	55899365	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	4028590	55899365	3229618	46	11105											
PLCB4	5332	broad.mit.edu;hgsc.bcm.edu	37	chr20	9318701	9318701	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catcaacagtattcggtcggGagccataccaaaggtacctg	12	8	10	11	2	1	0	1	0	0	0	3	1	1	1	3	3	4	2	3	3	5	4	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	9318701	G	T	9318701	3	4	201	1	0	0	0	0	1	0	0	0	12030	1174	41	4	222	4	PLCB4	20	9318701	Missense_Mutation	SNP	G	TCGA-B8-5551-01A-01D-1534-10		9318701	53706819	47	11106											
C20orf103	0	broad.mit.edu;hgsc.bcm.edu	37	chr20	9495509	9495509	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcgagtatggatctcCaaggaagaggggtccccagc	10	6	14	11	1	1	1	0	0	1	1	3	4	2	3	3	4	2	2	3	4	3	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		T	9495509	C	T	9495509	4	4	201	1	0	0	0	0	0	1	0	0	2075	595	21	2	12	2	C20orf103	20	9495509	Nonsense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	176808	9495509	53530011	48	11107											
VCX3B	425054	hgsc.bcm.edu	37	chrX	8434287	8434316	+	In_Frame_Del	DEL	GAACCACTGAGTCAGGAGAGCGAGATGGAA	GAACCACTGAGTCAGGAGAGCGAGATGGAA	-																															gtcaggagagccaggtggagGaaccactgagtcaggagagc																								novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	GAACCACTGAGTCAGGAGAGCGAGATGGAA	GAACCACTGAGTCAGGAGAGCGAGATGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		-	8434316	GAACCACTGAGTCAGGAGAGCGAGATGGAA	-	8434287	7	5	201	1	0	1	0	1	0	0	0	0	17144	1175	41	0	524	0	VCX3B	23	8434287	In_Frame_Del	DEL	GAACCACTGAGTCAGGAGAGCGAGATGGAA	TCGA-B8-5551-01A-01D-1534-10		8434287	146836273	49	11108											
ALG13	79868	broad.mit.edu;hgsc.bcm.edu	37	chrX	110987973	110987973	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccaccaccaccaccaccaCcaccaccaccaccaccacca	14	1	0	26	0	0	0	0	0	0	0	0	0	0	0	13	0	1	0	13	0	1	1	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	110987973	C	A	110987973	3	1	201	1	0	0	0	0	1	0	0	0	515	507	18	4	3009	4	ALG13	23	110987973	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	102553686	110987973	44282587	50	11109											
NKRF	55922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118724876	118724876	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatttttcaataaaatacTgcttctcggctaccacagac	13	14	4	10	1	2	1	1	0	1	1	3	1	2	1	1	1	3	2	1	1	6	7	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	118724876	T	A	118724876	3	1	201	1	0	0	0	0	1	0	0	0	10447	1580	55	5	1564	5	NKRF	23	118724876	Missense_Mutation	SNP	T	TCGA-B8-5551-01A-01D-1534-10	7736903	118724876	36545684	51	11110											
L1CAM	3897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153129373	153129373	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgctgcgcttgatgaagCagaggatgagcaggacgagg	10	7	16	8	2	0	4	0	3	0	1	0	7	0	6	1	3	4	4	1	3	1	2	novel		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7bc35fa0-0102-4ecb-92eb-9ebc4d1c3ec4	bd598451-8008-4df9-8668-7de1749665a5		A	153129373	C	A	153129373	3	1	201	1	0	0	0	0	1	0	0	0	8588	710	25	4	367	4	L1CAM	23	153129373	Missense_Mutation	SNP	C	TCGA-B8-5551-01A-01D-1534-10	34404497	153129373	2141187	52	11111											
LCLAT1	253558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	30756119	30756119	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaattgcctgatgcgataTagctacctcagattggagaa	12	11	11	7	1	1	3	1	1	0	2	1	6	1	4	2	2	4	1	2	2	5	5	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	30756119	T	A	30756119	4	1	202	1	0	0	0	0	0	1	0	0	8677	1413	49	5	427	5	LCLAT1	2	30756119	Nonsense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08		30756119	212443254	1	11112											
CCDC75	253635	broad.mit.edu;ucsc.edu	37	chr2	37315582	37315582	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgattccttcattaatgtcCagtaagtaaatgtgcacacc	12	13	6	10	0	1	1	1	1	0	0	3	1	3	1	3	0	1	3	3	0	4	5	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	37315582	T	T	37315582	4	4	202	1	0	0	0	0	0	1	0	0	2849	608	21	2	48	2	CCDC75	2	37315582	Nonsense_Mutation	SNP	C	TCGA-B8-5552-01B-11D-1669-08	6559463	37315582	205883791	2	11113											
APLF	200558	hgsc.bcm.edu	37	chr2	68805143	68805143	+	Frame_Shift_Del	DEL	A	A	-																															aagaagcaaaaaggtttatgAaaagaaaatagtaactaact																								rs149897324	by1000genomes	TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		-	68805143	A	-	68805143	7	5	202	1	0	1	0	1	0	0	0	0	776	247	9	0	1563	0	APLF	2	68805143	Frame_Shift_Del	DEL	A	TCGA-B8-5552-01B-11D-1669-08	31489561	68805143	174394230	3	11114											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179614716	179614716	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtgattgagtaacttgAtcttgaggcattgctttagg	8	17	12	4	0	1	4	0	4	1	0	1	4	1	4	0	3	2	3	0	3	2	8	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		G	179614716	A	G	179614716	2	3	202	1	0	0	0	0	0	0	0	1	16734	330	12	3		3	TTN	2	179614716	Silent	SNP	A	TCGA-B8-5552-01B-11D-1669-08	110809573	179614716	63584657	4	11115											
XPC	7508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	14214467	14214467	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttttgctggaccatctgCtgaacccccaggatgactgc	7	12	9	13	0	1	2	0	2	1	0	1	4	1	4	3	2	4	2	3	2	1	3	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	14214467	C	A	14214467	3	1	202	1	0	0	0	0	1	0	0	0	17440	797	28	4	1632	4	XPC	3	14214467	Missense_Mutation	SNP	C	TCGA-B8-5552-01B-11D-1669-08		14214467	183807963	5	11116											
RFTN1	23180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	16475443	16475443	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgggctgcacgaaggggtGcagggccgccagcgagaagc	8	3	20	10	3	0	1	0	0	0	1	0	3	0	1	2	5	4	3	2	5	2	0	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	16475443	G	A	16475443	3	1	202	1	0	0	0	0	1	0	0	0	13260	1319	46	2	1521	2	RFTN1	3	16475443	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08	2260976	16475443	181546987	6	11117											
DZIP1L	199221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	137813726	137813726	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgccgctgcctctccGcctccctctgggcttccagc	2	9	11	19	2	2	0	0	0	2	0	5	1	4	1	6	2	4	3	6	2	0	1	rs148594666	bycluster;byfrequency;by1000genomes	TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	137813726	G	A	137813726	3	1	202	1	0	0	0	0	1	0	0	0	4864	1087	38	1	1678	1	DZIP1L	3	137813726	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08	121338283	137813726	60208704	7	11118											
COPB2	9276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	139077639	139077639	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttccctcttccatgacatTtctctcttcatttggctatc	5	20	3	13	0	4	1	1	1	3	0	8	1	6	1	2	1	0	1	2	1	1	7	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		G	139077639	T	G	139077639	3	3	202	1	0	0	0	0	1	0	0	0	3729	1841	64	5	232	5	COPB2	3	139077639	Missense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08	1263913	139077639	58944791	8	11119											
C4orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184601356	184601356	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaatcctggtttctattAccagcaggcagcatactatg	11	12	8	10	0	2	1	1	0	1	1	3	1	3	1	2	2	4	4	2	2	5	5	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	184601356	A	T	184601356	3	4	202	1	0	0	0	0	1	0	0	0	2270	391	14	5	1083	5	C4orf41	4	184601356	Missense_Mutation	SNP	A	TCGA-B8-5552-01B-11D-1669-08		184601356	6552920	9	11120											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33576384	33576384	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtggtctcctcccagaggGagcagagtgttggctggctt	5	11	16	9	0	1	2	0	0	1	2	3	3	2	3	2	5	1	4	2	5	0	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	33576384	G	A	33576384	2	1	202	1	0	0	0	0	0	0	0	1	257	1161	41	2		2	ADAMTS12	5	33576384	Silent	SNP	G	TCGA-B8-5552-01B-11D-1669-08		33576384	147338876	10	11121											
NSD1	64324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176562399	176562399	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggatcagaatcctttcaaGaccctgaaaaaagtgattca	16	10	7	8	0	3	4	3	2	0	2	4	5	4	5	2	1	0	0	2	1	5	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	176562399	G	A	176562399	3	1	202	1	0	0	0	0	1	0	0	0	10669	942	33	2	297	2	NSD1	5	176562399	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08	142986015	176562399	4352861	11	11122											
HSPA1L	3305	broad.mit.edu;hgsc.bcm.edu	37	chr6	31779631	31779631	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaaggccacgtagctggggGtggtgcggttgccctggtcg	4	9	19	9	3	0	1	0	1	0	0	1	1	0	1	2	6	3	3	2	6	2	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	31779631	G	A	31779631	3	1	202	1	0	0	0	0	1	0	0	0	7410	1261	44	2	1810	2	HSPA1L	6	31779631	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08		31779631	139335436	12	11123											
DLD	1738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107542792	107542792	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgcattgagaaaaatgAaacacttggtggaacatgct	15	10	10	6	0	1	2	0	2	1	1	1	4	1	3	0	2	4	2	0	2	4	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		G	107542792	A	G	107542792	3	3	202	1	0	0	0	0	1	0	0	0	4551	246	9	3	235	3	DLD	7	107542792	Missense_Mutation	SNP	A	TCGA-B8-5552-01B-11D-1669-08		107542792	51595871	13	11124											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	329235	329235	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttgcatctgtgagctcaGttctccgcaggaaccccaag	9	10	9	13	1	3	1	1	1	2	0	4	2	3	2	3	1	3	4	3	1	2	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	329235	G	T	329235	3	4	202	1	0	0	0	0	1	0	0	0	4529	1029	36	4	411	4	DIP2C	10	329235	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08		329235	135205512	14	11125											
INPP5F	22876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	121567483	121567483	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcccccggaacagccattaCctgtgaaatgtaatcgcatc	11	9	8	13	2	0	1	0	1	0	0	2	2	0	2	4	1	4	2	4	1	4	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	121567483	C	T	121567483	3	4	202	1	0	0	0	0	1	0	0	0	7758	507	18	2	1530	2	INPP5F	10	121567483	Missense_Mutation	SNP	C	TCGA-B8-5552-01B-11D-1669-08	121238248	121567483	13967264	15	11126											
PGAP2	27315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3846652	3846652	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttcgggaacaaggagctGctcataacctctcagcctga	11	8	10	12	1	2	1	2	1	1	0	4	4	2	3	2	2	5	2	2	2	3	2	rs151115501	byfrequency;alternate_allele	TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	3846652	G	A	3846652	2	1	202	1	0	0	0	0	0	0	0	1	11778	1306	46	2		2	PGAP2	11	3846652	Silent	SNP	G	TCGA-B8-5552-01B-11D-1669-08		3846652	131159864	16	11127											
HIPK3	10114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33308096	33308096	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatccacggacctatgtgAatggtagaaactttggaaat	14	11	9	7	1	0	2	0	1	0	1	1	4	1	4	2	3	1	1	2	3	6	4	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		C	33308096	A	C	33308096	3	2	202	1	0	0	0	0	1	0	0	0	7118	246	9	5	138	5	HIPK3	11	33308096	Missense_Mutation	SNP	A	TCGA-B8-5552-01B-11D-1669-08	29461444	33308096	101698420	17	11128											
SIK2	23235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111591208	111591208	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttctcttaaagggaaaaTtttctccatgaatgacagcc	12	14	7	8	0	2	2	0	2	2	0	4	3	2	3	2	1	1	1	2	1	5	5	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	111591208	T	A	111591208	3	1	202	1	0	0	0	0	1	0	0	0	14320	1493	52	5	1544	5	SIK2	11	111591208	Missense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08	78283112	111591208	23415308	18	11129											
BIN2	51411	broad.mit.edu;hgsc.bcm.edu	37	chr12	51685607	51685607	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggtatgttccctgaggagGgcctggggcttgcagtggct	6	10	17	8	0	0	1	0	1	0	0	1	2	1	2	2	6	1	5	2	6	2	3	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	51685607	G	T	51685607	3	4	202	1	0	0	0	0	1	0	0	0	1433	1232	43	4	430	4	BIN2	12	51685607	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08		51685607	82166288	19	11130											
SKA3	221150	hgsc.bcm.edu	37	chr13	21746601	21746601	+	Frame_Shift_Del	DEL	G	G	-																															tatgaaatcaatgccttcttGattttccaatcttgctttat																								rs151272242	by1000genomes	TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		-	21746601	G	-	21746601	7	5	202	1	0	1	0	1	0	0	0	0	14356	1299	45	0	1105	0	SKA3	13	21746601	Frame_Shift_Del	DEL	G	TCGA-B8-5552-01B-11D-1669-08		21746601	93423277	20	11131											
NEK9	91754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75583974	75583974	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagatatcagacttgaaaTtgtactttactccttgacag	12	13	6	10	0	1	4	1	2	0	2	2	4	2	4	2	0	2	1	2	0	4	7	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		C	75583974	T	C	75583974	3	2	202	1	0	0	0	0	1	0	0	0	10331	1493	52	3	2321	3	NEK9	14	75583974	Missense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08		75583974	31765566	21	11132											
HSP90AA1	3320	broad.mit.edu;hgsc.bcm.edu	37	chr14	102548486	102548486	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtagatcctgttagcaTgtgtctggggatcttccaga	7	14	11	9	0	2	2	0	0	2	2	5	3	5	3	3	2	1	3	3	2	2	3	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		C	102548486	T	C	102548486	3	2	202	1	0	0	0	0	1	0	0	0	7401	1464	51	3	155	3	HSP90AA1	14	102548486	Missense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08	26964512	102548486	4801054	22	11133											
CHRNB4	1143	hgsc.bcm.edu;ucsc.edu	37	chr15	78917593	78917593	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacacccacaggaacagcCggtccaccaccatagccacg	13	3	8	17	2	0	1	0	1	0	0	1	2	1	2	6	2	4	0	6	2	3	1	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	78917593	C	T	78917593	3	4	202	1	0	0	0	0	1	0	0	0	3393	652	23	1	121	1	CHRNB4	15	78917593	Missense_Mutation	SNP	C	TCGA-B8-5552-01B-11D-1669-08		78917593	23613799	23	11134											
CHRNB4	1143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78921969	78921969	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcttgcgcttgatgatGaagtcgtaagtcacgtccac	10	10	12	9	3	1	4	1	3	0	1	3	4	2	4	1	1	1	3	1	1	2	3	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	78921969	G	T	78921969	3	4	202	1	0	0	0	0	1	0	0	0	3393	1281	45	4	826	4	CHRNB4	15	78921969	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08	4376	78921969	23609423	24	11135											
RHBDF1	64285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	109479	109479	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcacagtactcccgggAggtgatctcacacctagaaa	13	7	10	11	1	2	2	2	1	1	1	4	4	3	3	2	2	1	1	2	2	4	2	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		G	109479	A	G	109479	3	3	202	1	0	0	0	0	1	0	0	0	13321	304	11	3	752	3	RHBDF1	16	109479	Missense_Mutation	SNP	A	TCGA-B8-5552-01B-11D-1669-08		109479	90245274	25	11136											
MAF	4094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	79632954	79632954	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccggatcacctcctccttGctgaccccgcgcagctgccg	5	7	10	19	4	1	1	1	1	0	0	3	2	3	2	7	1	4	3	7	1	0	1	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	79632954	G	T	79632954	3	4	202	1	0	0	0	0	1	0	0	0	9155	1310	46	4	377	4	MAF	16	79632954	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08	79523475	79632954	10721799	26	11137											
MBP	4155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	74778271	74778271	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgaacacttcgttgtccTctgaggttgtccgtgaaagt	8	13	10	10	3	1	2	0	2	1	0	4	3	3	2	3	1	2	2	3	1	3	4	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	74778271	T	A	74778271	3	1	202	1	0	0	0	0	1	0	0	0	9359	1551	54	5	920	5	MBP	18	74778271	Missense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08		74778271	3298977	27	11138											
DUSP15	128853	broad.mit.edu	37	chr20	30438442	30438442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagtcatcggagggcatTgggcaccagaggtttttgag	9	10	15	7	1	1	3	1	2	0	1	2	4	1	4	1	4	0	3	1	4	1	3	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		C	30438442	C	C	30438442	3	2	202	1	0	0	0	0	1	0	0	0	4815	1827	63	3		3	DUSP15	20	30438442	Missense_Mutation	SNP	T	TCGA-B8-5552-01B-11D-1669-08		30438442	32587078	28	11139											
PTGIS	5740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	48130813	48130813	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgggagagtggtcgtctgCgagacaggctgctccgcttg	5	10	17	9	3	1	2	0	0	1	2	3	4	2	2	1	3	2	3	1	3	0	1	rs140787750	by1000genomes	TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	48130813	C	T	48130813	2	4	202	1	0	0	0	0	0	0	0	1	12754	755	27	1		1	PTGIS	20	48130813	Silent	SNP	C	TCGA-B8-5552-01B-11D-1669-08	17692371	48130813	14894707	29	11140											
COL18A1	80781	hgsc.bcm.edu	37	chr21	46925141	46925149	+	In_Frame_Del	DEL	GGCCCCCCA	GGCCCCCCA	-																															aggggcgccagggccctcccGgccccccaggccccccaggg																								novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	GGCCCCCCA	GGCCCCCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		-	46925149	GGCCCCCCA	-	46925141	7	5	202	1	0	1	0	1	0	0	0	0	3675	1116	39	0	4450	0	COL18A1	21	46925141	In_Frame_Del	DEL	GGCCCCCCA	TCGA-B8-5552-01B-11D-1669-08		46925141	1204754	30	11141											
KIAA2022	340533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	73960856	73960856	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccactcttgctgggtgaaCttttctttcttgattttgac	5	18	7	11	0	3	3	0	3	3	0	3	3	3	3	2	1	2	1	2	1	1	7	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		A	73960856	C	A	73960856	3	1	202	1	0	0	0	0	1	0	0	0	8269	565	20	4	1022	4	KIAA2022	23	73960856	Missense_Mutation	SNP	C	TCGA-B8-5552-01B-11D-1669-08		73960856	81309704	31	11142											
POU3F4	5456	hgsc.bcm.edu	37	chrX	82764039	82764039	+	Frame_Shift_Del	DEL	A	A	-																															gaccaccatctgcaggttcgAaggcttgcagctgagcttca																								novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		-	82764039	A	-	82764039	7	5	202	1	0	1	0	1	0	0	0	0	12277	246	9	0	709	0	POU3F4	23	82764039	Frame_Shift_Del	DEL	A	TCGA-B8-5552-01B-11D-1669-08	8803183	82764039	72506521	32	11143											
TBC1D8B	54885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	106117008	106117008	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccagtgaggaaaaaacagGgagccacttggagaaagatc	17	4	12	8	0	0	3	0	1	0	2	1	6	0	5	2	3	2	0	2	3	4	1	novel		TCGA-B8-5552-01B-11D-1669-08	TCGA-B8-5552-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	13b52e49-20df-4e39-9dc9-cf8f7c157bd7	ee08ef8a-2a71-4a48-b8f3-b363a19db60d		T	106117008	G	T	106117008	3	4	202	1	0	0	0	0	1	0	0	0	15625	1232	43	4	3324	4	TBC1D8B	23	106117008	Missense_Mutation	SNP	G	TCGA-B8-5552-01B-11D-1669-08	23352969	106117008	49153552	33	11144											
COL16A1	1307	hgsc.bcm.edu;ucsc.edu	37	chr1	32138105	32138105	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctcactgttgtcacccTggagaaggatggagacggtg	8	9	13	11	1	2	2	2	0	0	2	3	5	3	3	2	4	0	1	2	4	1	1	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	32138105	T	A	32138105	5	1	203	1	0	0	0	0	0	0	1	0	3673	1594	55	5	1897	5	COL16A1	1	32138105	Splice_Site	SNP	T	TCGA-B8-5553-01A-01D-1534-10		32138105	217112516	1	11145											
ZSCAN20	7579	hgsc.bcm.edu;ucsc.edu	37	chr1	33960735	33960736	+	Frame_Shift_Del	DEL	TA	TA	-																															cccacactggagagaagccgTataaatgtgtggactgtggg																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		-	33960736	TA	-	33960735	7	5	203	1	0	1	0	1	0	0	0	0	18231	1638	57	0	2817	0	ZSCAN20	1	33960735	Frame_Shift_Del	DEL	TA	TCGA-B8-5553-01A-01D-1534-10	1822630	33960735	215289886	2	11146											
ADORA3	140	hgsc.bcm.edu;ucsc.edu	37	chr1	112042593	112042593	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactcagaattcttctcaatGcttgtgtccaaagaatcaga	13	13	6	9	0	4	3	3	0	2	3	6	3	5	3	1	0	2	1	1	0	5	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	112042593	G	A	112042593	2	1	203	1	0	0	0	0	0	0	0	1	329	1310	46	2		2	ADORA3	1	112042593	Silent	SNP	G	TCGA-B8-5553-01A-01D-1534-10	78081858	112042593	137208028	3	11147											
FLG	2312	hgsc.bcm.edu;ucsc.edu	37	chr1	152287813	152287813	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttcaggatttgccgaaaTtccttttccagaagttcctt	9	15	6	11	1	1	1	1	0	0	1	4	3	4	2	5	1	1	1	5	1	2	7	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	152287813	T	A	152287813	3	1	203	1	0	0	0	0	1	0	0	0	5922	1490	52	5	12073	5	FLG	1	152287813	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10	40245220	152287813	96962808	4	11148											
ADAR	103	hgsc.bcm.edu;ucsc.edu	37	chr1	154574162	154574162	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaaggccaatatttttaGccaaattcagggcagaggag	13	10	12	6	0	1	1	1	0	0	1	1	2	1	2	2	4	1	2	2	4	5	6	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	154574162	G	T	154574162	3	4	203	1	0	0	0	0	1	0	0	0	281	971	34	4	2780	4	ADAR	1	154574162	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10	2286349	154574162	94676459	5	11149											
TADA1	117143	hgsc.bcm.edu;ucsc.edu	37	chr1	166826919	166826919	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatcctttcaatgttaagaGcatagacagtatgtgtaggg	12	13	11	5	0	1	3	1	1	0	2	2	3	2	3	1	1	1	4	1	1	5	5	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	166826919	G	A	166826919	3	1	203	1	0	0	0	0	1	0	0	0	15508	971	34	2	118	2	TADA1	1	166826919	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10	12252757	166826919	82423702	6	11150											
STRN	6801	hgsc.bcm.edu;ucsc.edu	37	chr2	37126774	37126774	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatttgaaattatccagcacGgaggcagaatctgttaactc	14	11	8	8	1	1	2	0	1	1	1	3	3	2	3	1	2	2	3	1	2	5	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	37126774	G	A	37126774	2	1	203	1	0	0	0	0	0	0	0	1	15330	1103	39	1		1	STRN	2	37126774	Silent	SNP	G	TCGA-B8-5553-01A-01D-1534-10		37126774	206072599	7	11151											
ATP11B	23200	hgsc.bcm.edu;ucsc.edu	37	chr3	182616538	182616538	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaccgacacctccaccCtacaagtactgaaaaggcac	13	7	6	15	1	0	2	0	2	0	0	1	3	1	2	4	1	2	2	4	1	5	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	182616538	C	G	182616538	3	3	203	1	0	0	0	0	1	0	0	0	1120	681	24	4	3406	4	ATP11B	3	182616538	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10		182616538	15405892	8	11152											
MUC4	4585	hgsc.bcm.edu	37	chr3	195507852	195507852	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaggaagaggcgtggcGtgaccggtggatactgagga	10	6	19	6	3	0	4	0	3	0	1	0	7	0	7	1	6	1	0	1	6	2	1	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	195507852	G	A	195507852	2	1	203	1	0	0	0	0	0	0	0	1	9978	1136	40	1		1	MUC4	3	195507852	Silent	SNP	G	TCGA-B8-5553-01A-01D-1534-10	12891314	195507852	2514578	9	11153											
KLF3	51274	hgsc.bcm.edu;ucsc.edu	37	chr4	38698823	38698823	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagtgcccggactgtgAccgcagcttctcccgttctg	4	12	10	15	3	2	1	0	1	2	0	4	2	3	2	4	1	2	3	4	1	0	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	38698823	A	G	38698823	3	3	203	1	0	0	0	0	1	0	0	0	8347	275	10	3	995	3	KLF3	4	38698823	Missense_Mutation	SNP	A	TCGA-B8-5553-01A-01D-1534-10		38698823	152455453	10	11154											
WDR17	116966	hgsc.bcm.edu;ucsc.edu	37	chr4	177084327	177084327	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctatggcatacctgattcGcggaaatgaactggagttgg	10	11	13	7	2	0	2	0	2	0	0	1	4	0	4	1	4	3	3	1	4	4	4	rs144009080		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	177084327	G	A	177084327	3	1	203	1	0	0	0	0	1	0	0	0	17276	1087	38	1	3031	1	WDR17	4	177084327	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10	138385504	177084327	14069949	11	11155											
VCAN	1462	hgsc.bcm.edu;ucsc.edu	37	chr5	82789433	82789433	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggctgctcagaaggctTgtttggacgttggggcagtc	6	12	16	7	1	1	2	1	1	0	1	2	3	1	3	0	5	1	6	0	5	1	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	82789433	T	G	82789433	3	3	203	1	0	0	0	0	1	0	0	0	17137	1812	63	5	524	5	VCAN	5	82789433	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10		82789433	98125827	12	11156											
PLG	5340	hgsc.bcm.edu;ucsc.edu	37	chr6	161139413	161139413	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaatgtggctgttaccgtgtCcgggcacacctgtcagcact	7	10	12	12	2	1	0	1	0	0	0	2	1	2	0	3	2	2	4	3	2	2	1	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	161139413	C	G	161139413	3	3	203	1	0	0	0	0	1	0	0	0	12086	855	30	4	909	4	PLG	6	161139413	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10		161139413	9975654	13	11157											
TRIM24	8805	hgsc.bcm.edu;ucsc.edu	37	chr7	138269684	138269684	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagcattgaagaacgccaGttgcttaaataatatgcagc	17	9	8	7	1	0	2	0	1	0	1	0	2	0	2	1	0	5	4	1	0	8	5	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		C	138269684	G	C	138269684	3	2	203	1	0	0	0	0	1	0	0	0	16497	1020	36	4	3215	4	TRIM24	7	138269684	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10		138269684	20868979	14	11158											
AGK	55750	hgsc.bcm.edu;ucsc.edu	37	chr7	141352681	141352681	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgcagttcttctgtgAtcctaggaagagagaacaga	13	9	12	7	0	2	4	0	1	2	3	3	7	3	5	1	1	3	3	1	1	4	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	141352681	A	G	141352681	3	3	203	1	0	0	0	0	1	0	0	0	383	333	12	3	1284	3	AGK	7	141352681	Missense_Mutation	SNP	A	TCGA-B8-5553-01A-01D-1534-10	3082997	141352681	17785982	15	11159											
PLAG1	5324	hgsc.bcm.edu;ucsc.edu	37	chr8	57080005	57080005	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatgatctttccggtgaaaCattttctcacaataattaca	14	14	5	8	1	2	3	1	2	2	1	4	3	3	3	1	1	2	0	1	1	4	5	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	57080005	C	T	57080005	3	4	203	1	0	0	0	0	1	0	0	0	12018	478	17	2	1206	2	PLAG1	8	57080005	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10		57080005	89284017	16	11160											
LY96	23643	hgsc.bcm.edu	37	chr8	74903724	74903724	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgttttcttccatatttaCtgaagctcagaagcagtatt	10	16	6	9	0	2	2	1	1	1	1	3	2	3	2	2	0	3	4	2	0	5	8	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	74903724	C	G	74903724	3	3	203	1	0	0	0	0	1	0	0	0	9102	565	20	4	49	4	LY96	8	74903724	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10	17823719	74903724	71460298	17	11161											
CPSF1	29894	hgsc.bcm.edu	37	chr8	145623274	145623274	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcggcactcatgatgacCacataggggtcggccacggc	8	6	12	15	3	1	2	1	2	0	0	3	2	1	2	3	5	0	1	3	5	1	1	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	145623274	C	A	145623274	2	1	203	1	0	0	0	0	0	0	0	1	3824	581	21	4		4	CPSF1	8	145623274	Silent	SNP	C	TCGA-B8-5553-01A-01D-1534-10	70719550	145623274	740748	18	11162											
TMEM2	23670	hgsc.bcm.edu;ucsc.edu	37	chr9	74315738	74315738	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccaactcgaatccagtcaTtcctttaaaggagaaacata	15	9	7	10	1	1	1	1	0	0	1	4	3	3	1	3	2	2	0	3	2	6	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		C	74315738	T	C	74315738	3	2	203	1	0	0	0	0	1	0	0	0	16120	1493	52	3	978	3	TMEM2	9	74315738	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10		74315738	66897693	19	11163											
SLC44A1	23446	hgsc.bcm.edu;ucsc.edu	37	chr9	108128708	108128708	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgcctaaattatttaaatCaggtaaaatattttaaaaat	19	15	4	3	0	1	0	1	0	0	0	1	0	1	0	1	1	1	1	1	1	11	8	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	108128708	C	T	108128708	4	4	203	1	0	0	0	0	0	1	0	0	14637	827	29	2	1538	2	SLC44A1	9	108128708	Nonsense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10	33812970	108128708	33084723	20	11164											
BICC1	80114	hgsc.bcm.edu;ucsc.edu	37	chr10	60556181	60556181	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcggacttgaaagcagtGgggttaccatagcaaccagt	11	9	11	10	1	0	1	0	1	0	0	2	2	1	2	3	3	4	3	3	3	4	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	60556181	G	T	60556181	3	4	203	1	0	0	0	0	1	0	0	0	1427	1348	47	4	1299	4	BICC1	10	60556181	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10		60556181	74978566	21	11165											
PANK1	53354	hgsc.bcm.edu;ucsc.edu	37	chr10	91348527	91348530	+	Frame_Shift_Del	DEL	TCTA	TCTA	-																															ttccaacaaacacaactctgTctatgttctggaaaaaatat																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	TCTA	TCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		-	91348530	TCTA	-	91348527	7	5	203	1	0	1	0	1	0	0	0	0	11416	1667	58	0	185	0	PANK1	10	91348527	Frame_Shift_Del	DEL	TCTA	TCGA-B8-5553-01A-01D-1534-10	30792346	91348527	44186220	22	11166											
KBTBD4	55709	hgsc.bcm.edu;ucsc.edu	37	chr11	47599226	47599226	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaactcctcagctcgaagtTtcacagtcccatggtagata	11	10	8	12	1	2	1	2	0	0	1	5	2	4	1	2	1	2	4	2	1	4	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	47599226	T	G	47599226	3	3	203	1	0	0	0	0	1	0	0	0	7995	1841	64	5	1242	5	KBTBD4	11	47599226	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10		47599226	87407290	23	11167											
SLC22A6	9356	hgsc.bcm.edu;ucsc.edu	37	chr11	62751877	62751877	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcccctgtgccattggCttctgtgccattgagaaagg	6	12	13	10	0	1	1	0	1	1	1	1	2	1	1	4	3	2	1	4	3	1	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	62751877	C	T	62751877	3	4	203	1	0	0	0	0	1	0	0	0	14460	797	28	2	1445	2	SLC22A6	11	62751877	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10	15152651	62751877	72254639	24	11168											
SLC22A8	9376	hgsc.bcm.edu;ucsc.edu	37	chr11	62782189	62782189	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcattgggcaggctggcaTtgggcggatgtacaaaacgg	9	9	16	7	2	1	0	1	0	0	0	1	1	1	1	0	6	2	4	0	6	3	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		C	62782189	T	C	62782189	3	2	203	1	0	0	0	0	1	0	0	0	14462	1493	52	3	1426	3	SLC22A8	11	62782189	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10	30312	62782189	72224327	25	11169											
UCP2	7351	hgsc.bcm.edu;ucsc.edu	37	chr11	73686108	73686108	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggctcgtttcagctgctCataggtgacgaacatcacca	10	9	11	11	2	3	1	3	1	0	0	4	3	3	1	1	2	3	4	1	2	2	2	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	73686108	C	A	73686108	4	1	203	1	0	0	0	0	0	1	0	0	16930	835	29	4	59	4	UCP2	11	73686108	Nonsense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10	10903919	73686108	61320408	26	11170											
AMN1	196394	hgsc.bcm.edu;ucsc.edu	37	chr12	31850698	31850698	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctgaaaagtcgacacaCtgcaaaaatgggcagttttt	14	10	10	7	1	0	1	0	1	0	0	1	2	0	1	0	1	2	5	0	1	5	3	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	31850698	C	G	31850698	3	3	203	1	0	0	0	0	1	0	0	0	581	564	20	4	282	4	AMN1	12	31850698	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10		31850698	102001197	27	11171											
DDX55	57696	hgsc.bcm.edu;ucsc.edu	37	chr12	124104644	124104645	+	Frame_Shift_Del	DEL	AG	AG	-																															aactggcaaaagaacaatcaAgacagtggatttagggatct																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		-	124104645	AG	-	124104644	7	5	203	1	0	1	0	1	0	0	0	0	4373	72	3	0	1814	0	DDX55	12	124104644	Frame_Shift_Del	DEL	AG	TCGA-B8-5553-01A-01D-1534-10	92253946	124104644	9747251	28	11172											
IPO5	3843	hgsc.bcm.edu;ucsc.edu	37	chr13	98666445	98666445	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagattcagacgtcctctcaGaaataatgcattcttttgca	12	13	6	10	1	3	3	2	0	2	3	5	3	4	3	1	0	2	2	1	0	2	5	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	98666445	G	A	98666445	3	1	203	1	0	0	0	0	1	0	0	0	7796	943	33	2	2434	2	IPO5	13	98666445	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10		98666445	16503433	29	11173											
OR4K5	79317	hgsc.bcm.edu;ucsc.edu	37	chr14	20389123	20389123	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctacttgtttcgatggccTatgacaggtatgtagccata	9	14	10	8	1	0	1	0	1	0	0	1	2	0	1	2	2	3	4	2	2	5	7	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		C	20389123	T	C	20389123	3	2	203	1	0	0	0	0	1	0	0	0	11073	1522	53	3	360	3	OR4K5	14	20389123	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10		20389123	86960417	30	11174											
GABPB1	2553	hgsc.bcm.edu;ucsc.edu	37	chr15	50596162	50596162	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgcaaaaagagaacacataCcttaagtaaaacctctacta	19	8	5	9	0	1	1	0	0	1	1	1	2	1	1	2	0	5	2	2	0	9	5	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	50596162	C	A	50596162	5	1	203	1	0	0	0	0	0	0	1	0	6158	521	18	4	986	4	GABPB1	15	50596162	Splice_Site	SNP	C	TCGA-B8-5553-01A-01D-1534-10		50596162	51935230	31	11175											
MYO5C	55930	hgsc.bcm.edu;ucsc.edu	37	chr15	52505431	52505431	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcgtcttctctcttgtaTtgcagcattccaaggtactc	6	15	7	13	1	3	0	0	0	3	0	7	0	4	0	2	1	3	4	2	1	3	6	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		C	52505431	T	C	52505431	2	2	203	1	0	0	0	0	0	0	0	1	10080	1490	52	3		3	MYO5C	15	52505431	Silent	SNP	T	TCGA-B8-5553-01A-01D-1534-10	1909269	52505431	50025961	32	11176											
HERC1	8925	hgsc.bcm.edu;ucsc.edu	37	chr15	63930676	63930676	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcttccagcttctgccagCtgtccatgcctaccagcacc	6	12	6	17	0	2	0	0	0	2	0	4	0	4	0	6	0	6	3	6	0	1	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	63930676	C	G	63930676	3	3	203	1	0	0	0	0	1	0	0	0	7057	796	28	4	2622	4	HERC1	15	63930676	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10	11425245	63930676	38600716	33	11177											
PALB2	79728	hgsc.bcm.edu;ucsc.edu	37	chr16	23647615	23647615	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatcaagatgggttttGatgtgtaacttgtcataaac	11	16	8	6	0	4	2	3	1	1	1	4	2	4	2	0	1	2	2	0	1	4	6	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	23647615	G	T	23647615	2	4	203	1	0	0	0	0	0	0	0	1	11406	1280	45	4		4	PALB2	16	23647615	Silent	SNP	G	TCGA-B8-5553-01A-01D-1534-10		23647615	66707138	34	11178											
FUS	2521	hgsc.bcm.edu;ucsc.edu	37	chr16	31202109	31202109	+	Missense_Mutation	SNP	T	T	G																															ggaggaatgaatgcaaccagTgtaaggcccctaaaccagat																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		G	31202109	T	G	31202109	3	3	203	1	0	0	0	0	1	0	0	0	6100	1696	59	5	1389	5	FUS	16	31202109	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10	7554494	31202109	59152644	35	11179	169	4									
FUS	2521	hgsc.bcm.edu;ucsc.edu	37	chr16	31202110	31202110	+	Missense_Mutation	SNP	G	G	T																															gaggaatgaatgcaaccagtGtaaggcccctaaaccagatg																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	31202110	G	T	31202110	3	4	203	1	0	0	0	0	1	0	0	0	6100	1377	48	4	1390	4	FUS	16	31202110	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10	1	31202110	59152643	36	11180	169	4									
FUS	2521	hgsc.bcm.edu	37	chr16	31202112	31202112	+	Nonsense_Mutation	SNP	A	A	T																															ggaatgaatgcaaccagtgtAaggcccctaaaccagatggc																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	31202112	A	T	31202112	4	4	203	1	0	0	0	0	0	1	0	0	6100	363	13	5	1392	5	FUS	16	31202112	Nonsense_Mutation	SNP	A	TCGA-B8-5553-01A-01D-1534-10	2	31202112	59152641	37	11181	169	4									
FUS	2521	hgsc.bcm.edu;ucsc.edu	37	chr16	31202116	31202116	+	Frame_Shift_Del	DEL	C	C	-																															tgaatgcaaccagtgtaaggCccctaaaccagatggcccag																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		-	31202116	C	-	31202116	7	5	203	1	0	1	0	1	0	0	0	0	6100	739	26	0	1396	0	FUS	16	31202116	Frame_Shift_Del	DEL	C	TCGA-B8-5553-01A-01D-1534-10	4	31202116	59152637	38	11182	169	4									
RPL27	6155	hgsc.bcm.edu;ucsc.edu	37	chr17	41154694	41154694	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctttgtccccaggtacTctgtggatatccccttggac	6	12	8	15	0	1	0	0	0	1	0	3	2	3	2	6	3	1	1	6	3	2	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	41154694	T	A	41154694	3	1	203	1	0	0	0	0	1	0	0	0	13577	1551	54	5	266	5	RPL27	17	41154694	Missense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10		41154694	40040516	39	11183											
CANT1	124583	hgsc.bcm.edu;ucsc.edu	37	chr17	76991241	76991241	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccgtagtggtcgtccactCcttgcccaggccgcccacgt	5	8	10	18	4	0	0	0	0	0	0	3	0	2	0	6	2	1	1	6	2	1	2	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	76991241	C	A	76991241	4	1	203	1	0	0	0	0	0	1	0	0	2617	864	30	4	519	4	CANT1	17	76991241	Nonsense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10	35836547	76991241	4203969	40	11184											
PIAS2	9063	hgsc.bcm.edu;ucsc.edu	37	chr18	44424802	44424803	+	Frame_Shift_Del	DEL	TC	TC	-																															atatacagacatagagtaatTctacaaacaaacaaaaaaaa																								novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		-	44424803	TC	-	44424802	7	5	203	1	0	1	0	1	0	0	0	0	11876	1797	62	0	1110	0	PIAS2	18	44424802	Frame_Shift_Del	DEL	TC	TCGA-B8-5553-01A-01D-1534-10		44424802	33652446	41	11185											
PIK3R2	5296	hgsc.bcm.edu;ucsc.edu	37	chr19	18273796	18273796	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaaggcgggaacaataagCtgatcaaggtcttccaccga	14	6	12	9	2	2	1	1	1	1	0	3	4	3	3	2	4	2	1	2	4	5	2	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	18273796	C	A	18273796	3	1	203	1	0	0	0	0	1	0	0	0	11919	796	28	4	1163	4	PIK3R2	19	18273796	Missense_Mutation	SNP	C	TCGA-B8-5553-01A-01D-1534-10		18273796	40855187	42	11186											
FXYD1	5348	hgsc.bcm.edu;ucsc.edu	37	chr19	35632104	35632104	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctgggcatcctcatcGtgctgagtgagtgcccctag	6	11	11	13	1	2	2	2	2	0	0	5	2	4	2	4	1	2	2	4	1	1	1	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	35632104	G	T	35632104	3	4	203	1	0	0	0	0	1	0	0	0	6117	1145	40	4	173	4	FXYD1	19	35632104	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10	17358308	35632104	23496879	43	11187											
ZNF415	55786	hgsc.bcm.edu	37	chr19	53611977	53611977	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccacactcattacactTgtaaggtttctctccagtat	9	16	4	12	0	2	0	1	0	1	0	5	0	4	0	2	1	1	3	2	1	3	6	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		A	53611977	T	A	53611977	4	1	203	1	0	0	0	0	0	1	0	0	17891	1821	63	5	350	5	ZNF415	19	53611977	Nonsense_Mutation	SNP	T	TCGA-B8-5553-01A-01D-1534-10	17979873	53611977	5517006	44	11188											
MYH7B	57644	hgsc.bcm.edu;ucsc.edu	37	chr20	33567237	33567237	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgaacaggacgcctacgtgGaggccgaggtcaagtcggag	11	5	16	9	4	1	1	1	1	0	0	2	5	1	4	2	5	2	0	2	5	3	1	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	33567237	G	T	33567237	4	4	203	1	0	0	0	0	0	1	0	0	10040	1175	41	4	276	4	MYH7B	20	33567237	Nonsense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10		33567237	29458283	45	11189											
NHS	4810	hgsc.bcm.edu;ucsc.edu	37	chrX	17745494	17745494	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttatacctcctacccatcttGatctaagtgctcttcataat	10	16	3	12	0	4	1	1	1	3	0	5	1	5	1	3	0	3	1	3	0	5	7	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		C	17745494	G	C	17745494	3	2	203	1	0	0	0	0	1	0	0	0	10411	1290	45	4	3332	4	NHS	23	17745494	Missense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10		17745494	137525066	46	11190											
FAM48B1	0	hgsc.bcm.edu	37	chrX	24381736	24381736	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgaacattgctaaagcaGgaagttgtgtagacacgtgg	13	9	13	6	1	0	2	0	1	0	1	0	3	0	3	0	2	4	5	0	2	5	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	24381736	G	T	24381736	4	4	203	1	0	0	0	0	0	1	0	0	5573	1001	35	4	861	4	FAM48B1	23	24381736	Nonsense_Mutation	SNP	G	TCGA-B8-5553-01A-01D-1534-10	6636242	24381736	130888824	47	11191											
BRWD3	254065	hgsc.bcm.edu;ucsc.edu	37	chrX	79941024	79941024	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgaggattctccctcttgCtcctgatgaccctattaggg	6	14	9	12	0	3	3	0	3	3	0	5	4	4	4	3	2	1	1	3	2	2	4	novel		TCGA-B8-5553-01A-01D-1534-10	TCGA-B8-5553-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c19e63c-770b-4289-aa47-9b2cf261b4ca	75bb1bff-de4f-4658-a829-26dd76d57e77		T	79941024	C	T	79941024	2	4	203	1	0	0	0	0	0	0	0	1	1526	796	28	2		2	BRWD3	23	79941024	Silent	SNP	C	TCGA-B8-5553-01A-01D-1534-10	55559288	79941024	75329536	48	11192											
SLC5A9	200010	hgsc.bcm.edu;ucsc.edu	37	chr1	48694801	48694801	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcaaggtctggaggagaCagagggatccatccaaggtc	14	6	13	8	0	2	2	1	0	1	2	5	5	4	4	2	5	0	0	2	5	3	0	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	48694801	C	T	48694801	2	4	204	1	0	0	0	0	0	0	0	1	14674	477	17	2		2	SLC5A9	1	48694801	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10		48694801	200555820	1	11193											
KANK4	163782	hgsc.bcm.edu	37	chr1	62740524	62740524	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttttggaggggcggggcTgcaggggggcgagccccact	5	6	20	10	2	0	0	0	0	0	0	0	2	0	1	2	8	2	3	2	8	0	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	62740524	G	G	62740524	2	3	204	1	0	0	0	0	0	0	0	1	7979	1567	55	5		5	KANK4	1	62740524	Silent	SNP	T	TCGA-BP-4158-01A-02D-1366-10	14045723	62740524	186510097	2	11194											
ZNF687	57592	hgsc.bcm.edu	37	chr1	151259273	151259273	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctcattttggccctgAgccaggggaccactcagatc	7	11	11	12	0	2	2	2	1	0	1	3	3	2	3	3	3	2	2	3	3	0	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	151259273	A	G	151259273	3	3	204	1	0	0	0	0	1	0	0	0	18091	304	11	3	508	3	ZNF687	1	151259273	Missense_Mutation	SNP	A	TCGA-BP-4158-01A-02D-1366-10	88518749	151259273	97991348	3	11195											
TRAF5	7188	hgsc.bcm.edu	37	chr1	211545632	211545632	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagaagagagaggcggTggatgggcacacagtgtcca	13	5	17	6	1	0	4	0	1	0	3	1	7	1	5	1	4	0	1	1	4	2	0	rs78225734	alternate_allele	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	211545632	T	A	211545632	3	1	204	1	0	0	0	0	1	0	0	0	16443	1696	59	5	1300	5	TRAF5	1	211545632	Missense_Mutation	SNP	T	TCGA-BP-4158-01A-02D-1366-10	60286359	211545632	37704989	4	11196											
MYO7B	4648	hgsc.bcm.edu	37	chr2	128380888	128380888	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaaatgtgcatgcacatcGctcacaagcagggcctcagc	11	6	12	12	1	2	0	2	0	0	0	3	1	2	1	1	2	4	4	1	2	2	0	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	128380888	G	A	128380888	3	1	204	1	0	0	0	0	1	0	0	0	10083	1087	38	1	3785	1	MYO7B	2	128380888	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10		128380888	114818485	5	11197											
LRP1B	53353	hgsc.bcm.edu	37	chr2	141571374	141571374	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacatagtctatcgatagAcctgtaattaaattttacaa	15	14	4	8	1	1	1	0	0	1	1	3	2	2	1	2	0	1	1	2	0	8	7	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	141571374	A	G	141571374	2	3	204	1	0	0	0	0	0	0	0	1	8955	289	10	3		3	LRP1B	2	141571374	Silent	SNP	A	TCGA-BP-4158-01A-02D-1366-10	13190486	141571374	101627999	6	11198											
COL3A1	1281	hgsc.bcm.edu	37	chr2	189860859	189860859	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttacttcagggcatgccCggaagtccaggaggaccagg	9	8	13	11	1	2	0	1	0	1	0	3	3	3	3	3	5	2	1	3	5	2	3	rs141091206		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	189860859	C	T	189860859	2	4	204	1	0	0	0	0	0	0	0	1	3688	639	23	1		1	COL3A1	2	189860859	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	48289485	189860859	53338514	7	11199											
INO80D	54891	hgsc.bcm.edu	37	chr2	206882406	206882406	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgttgcagaacttaccaTttttttggcatgttcttcac	7	18	6	10	0	3	1	1	0	2	1	3	1	3	1	1	1	3	4	1	1	2	7	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	206882406	T	A	206882406	3	1	204	1	0	0	0	0	1	0	0	0	7749	1493	52	5	1559	5	INO80D	2	206882406	Missense_Mutation	SNP	T	TCGA-BP-4158-01A-02D-1366-10	17021547	206882406	36316967	8	11200											
D2HGDH	728294	hgsc.bcm.edu	37	chr2	242684222	242684222	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatcgggtcggagggcacTttggggatcatcaccacggt	7	10	14	10	3	3	0	3	0	0	0	5	2	3	2	1	6	0	1	1	6	0	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	242684222	T	A	242684222	2	1	204	1	0	0	0	0	0	0	0	1	4213	1596	56	5		5	D2HGDH	2	242684222	Silent	SNP	T	TCGA-BP-4158-01A-02D-1366-10	35801816	242684222	515151	9	11201											
SETD5	55209	hgsc.bcm.edu;ucsc.edu	37	chr3	9482172	9482172	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagcacagaatttagatgaGaatacaactgagggctggga	16	7	13	5	0	0	4	0	2	0	3	0	7	0	5	0	2	3	2	0	2	6	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	9482172	G	C	9482172	3	2	204	1	0	0	0	0	1	0	0	0	14136	933	33	4	622	4	SETD5	3	9482172	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10		9482172	188540258	10	11202											
SLC6A1	6529	hgsc.bcm.edu;ucsc.edu	37	chr3	11067963	11067963	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaattcgtgcaccagcatGttcgcaggattcgtcatctt	9	13	8	11	3	3	0	2	0	1	0	6	1	3	1	1	1	2	4	1	1	1	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	11067963	G	A	11067963	3	1	204	1	0	0	0	0	1	0	0	0	14675	1377	48	2	1026	2	SLC6A1	3	11067963	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	1585791	11067963	186954467	11	11203											
NBEAL2	23218	hgsc.bcm.edu	37	chr3	47050126	47050126	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgtgttgctgggcaccgcCcagtgcgccctgcacatcct	4	11	11	15	2	0	0	0	0	0	0	1	0	1	0	4	1	3	4	4	1	0	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	47050126	C	A	47050126	2	1	204	1	0	0	0	0	0	0	0	1	10189	610	22	4		4	NBEAL2	3	47050126	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	35982163	47050126	150972304	12	11204											
ZNF589	51385	hgsc.bcm.edu	37	chr3	48310107	48310107	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttatgtgtgcagccattGtgggcgaggctttagctgca	7	12	13	9	1	0	0	0	0	0	0	0	1	0	0	2	2	4	4	2	2	2	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	48310107	G	A	48310107	3	1	204	1	0	0	0	0	1	0	0	0	18020	1377	48	2	940	2	ZNF589	3	48310107	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	1259981	48310107	149712323	13	11205											
PBRM1	55193	ucsc.edu	37	chr3	52649466	52649467	+	Frame_Shift_Del	DEL	TA	TA	-																															ctccaggatatgtgcatcatTataaacctacattccaaaaa																								novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	TA	TA	TA	-	TA	TA	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		-	52649467	TA	-	52649466	7	5	204	1	0	1	0	1	0	0	0	0	11491	1754	61	0	3139	0	PBRM1	3	52649466	Frame_Shift_Del	DEL	TA	TCGA-BP-4158-01A-02D-1366-10	4339359	52649466	145372964	14	11206											
HLTF	6596	hgsc.bcm.edu;ucsc.edu	37	chr3	148789184	148789184	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttcccgtgacaccatcCaagctagagcttgtttttga	9	15	7	10	1	0	3	0	2	0	1	2	3	2	3	3	0	2	3	3	0	3	7	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	148789184	C	T	148789184	4	4	204	1	0	0	0	0	0	1	0	0	7215	595	21	2	2356	2	HLTF	3	148789184	Nonsense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10	96139718	148789184	49233246	15	11207											
MED12L	116931	hgsc.bcm.edu;ucsc.edu	37	chr3	151067920	151067920	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcaaagagcgtgatgaagCaaggcatcagctgaagaaga	16	4	14	7	2	1	6	1	3	0	3	1	6	1	6	0	2	3	4	0	2	5	0	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	151067920	C	G	151067920	3	3	204	1	0	0	0	0	1	0	0	0	9429	710	25	4	2277	4	MED12L	3	151067920	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10	2278736	151067920	46954510	16	11208											
PPEF2	5470	hgsc.bcm.edu;ucsc.edu	37	chr4	76805891	76805891	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgttgaacacatatgacCgttctggcgacgggaggcca	10	7	12	12	4	1	2	0	2	1	0	1	4	1	3	3	3	1	2	3	3	2	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	76805891	C	T	76805891	3	4	204	1	0	0	0	0	1	0	0	0	12308	652	23	1	1699	1	PPEF2	4	76805891	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10		76805891	114348385	17	11209											
CENPK	64105	hgsc.bcm.edu;ucsc.edu	37	chr5	64847410	64847410	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttcaggtgtttttttctgCcattgactgagttcagcggt	5	18	10	8	1	3	2	2	2	1	0	3	2	3	2	1	2	2	2	1	2	0	6	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	64847410	C	T	64847410	4	4	204	1	0	0	0	0	0	1	0	0	3235	740	26	2	615	2	CENPK	5	64847410	Nonsense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10		64847410	116067850	18	11210											
HSPA9	3313	hgsc.bcm.edu;ucsc.edu	37	chr5	137902712	137902712	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctcttgaactccttcacaAtgtgccgtagcaaggcctgg	8	11	9	13	1	2	1	1	1	1	0	4	1	3	1	3	2	3	2	3	2	4	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	137902712	A	G	137902712	3	3	204	1	0	0	0	0	1	0	0	0	7417	101	4	3	1222	3	HSPA9	5	137902712	Missense_Mutation	SNP	A	TCGA-BP-4158-01A-02D-1366-10	73055302	137902712	43012548	19	11211											
PPP2R5D	5528	hgsc.bcm.edu;ucsc.edu	37	chr6	42975942	42975942	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catttttcttccctcaggttCatctacgagacggagcatca	9	13	7	12	2	5	1	3	0	2	1	6	3	6	2	1	2	2	2	1	2	1	5	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	42975942	C	T	42975942	2	4	204	1	0	0	0	0	0	0	0	1	12397	825	29	2		2	PPP2R5D	6	42975942	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10		42975942	128139125	20	11212											
RUNX2	860	hgsc.bcm.edu	37	chr6	45514873	45514873	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggggggagaccggtctcCttccagaatgcttccgccat	6	8	13	14	3	1	2	0	0	1	2	4	3	3	2	6	4	1	1	6	4	1	2	rs144852234	alternate_allele	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	45514873	C	A	45514873	3	1	204	1	0	0	0	0	1	0	0	0	13750	681	24	4	1443	4	RUNX2	6	45514873	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10	2538931	45514873	125600194	21	11213											
EYS	346007	hgsc.bcm.edu;ucsc.edu	37	chr6	66205285	66205285	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccatcaggctcagaatgaCgattgatttgtcagtcattt	12	13	8	8	1	4	3	4	2	0	1	4	4	4	3	1	1	1	1	1	1	2	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	66205285	C	T	66205285	3	4	204	1	0	0	0	0	1	0	0	0	5332	536	19	1	9537	1	EYS	6	66205285	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10	20690412	66205285	104909782	22	11214											
CHN2	1124	hgsc.bcm.edu;ucsc.edu	37	chr7	29407578	29407578	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagcaagaggcacctcgtcCcaagagaatcatttgtcctc	12	8	8	13	1	1	2	1	0	0	2	5	3	3	2	3	1	1	2	3	1	3	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	29407578	C	G	29407578	3	3	204	1	0	0	0	0	1	0	0	0	3363	623	22	4	129	4	CHN2	7	29407578	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10		29407578	129731085	23	11215											
ZP3	7784	hgsc.bcm.edu	37	chr7	76071183	76071184	+	Frame_Shift_Ins	INS	-	-	G																															gaagaagcagatgtcaccgtINSggggccactgatcttcctgg																								rs3215870	bycluster	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	76071184	-	G	76071183	7	5	204	1	0	1	1	0	0	0	0	0	18216	1696	59	0	1115	0	ZP3	7	76071183	Frame_Shift_Ins	INS	-	TCGA-BP-4158-01A-02D-1366-10	46663605	76071183	83067480	24	11216											
SRRT	51593	hgsc.bcm.edu	37	chr7	100478987	100478987	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgagagcgcttctcgccAcctcgccacgaactcagccc	7	5	10	19	6	2	1	1	0	1	1	4	3	2	1	4	1	3	1	4	1	1	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		G	100478987	A	G	100478987	2	3	204	1	0	0	0	0	0	0	0	1	15173	146	6	3		3	SRRT	7	100478987	Silent	SNP	A	TCGA-BP-4158-01A-02D-1366-10	24407804	100478987	58659676	25	11217											
PSMC2	5701	hgsc.bcm.edu;ucsc.edu	37	chr7	103004703	103004703	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctaatcggactgatgcGtgcttcattcgagttattgg	7	15	12	7	3	1	1	1	1	0	0	3	3	1	2	0	2	3	4	0	2	2	6	rs144680798	alternate_allele	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	103004703	G	T	103004703	2	4	204	1	0	0	0	0	0	0	0	1	12688	1132	40	4		4	PSMC2	7	103004703	Silent	SNP	G	TCGA-BP-4158-01A-02D-1366-10	2525716	103004703	56133960	26	11218											
FBXO43	286151	hgsc.bcm.edu	37	chr8	101153258	101153258	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagcagctgctgctcttttTtcagagtcagggtggacaat	9	12	12	8	0	3	1	2	0	1	1	3	3	3	2	0	2	4	4	0	2	2	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	101153258	T	C	101153258	2	2	204	1	0	0	0	0	0	0	0	1	5752	1838	64	3		3	FBXO43	8	101153258	Silent	SNP	T	TCGA-BP-4158-01A-02D-1366-10		101153258	45210764	27	11219											
TNFRSF11B	4982	hgsc.bcm.edu;ucsc.edu	37	chr8	119938824	119938824	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttcttgtgagctgtgttgCcgttttatcctctctacact	4	19	8	10	1	2	1	0	1	2	0	4	1	3	1	2	0	3	4	2	0	2	6	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	119938824	C	T	119938824	2	4	204	1	0	0	0	0	0	0	0	1	16284	726	26	2		2	TNFRSF11B	8	119938824	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	18785566	119938824	26425198	28	11220											
PHF20L1	51105	hgsc.bcm.edu;ucsc.edu	37	chr8	133807018	133807018	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagttctggctcgttggacaGactgtcgctattaccctgcc	7	12	10	12	2	1	1	0	0	1	1	3	2	1	2	2	2	2	4	2	2	3	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	133807018	G	C	133807018	3	2	204	1	0	0	0	0	1	0	0	0	11832	942	33	4	305	4	PHF20L1	8	133807018	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	13868194	133807018	12557004	29	11221											
DFNB31	25861	hgsc.bcm.edu	37	chr9	117166206	117166206	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccatctgtgggcctctcGttccgaggcagctccttgct	3	11	11	16	2	2	0	0	0	2	0	5	1	4	0	5	2	2	4	5	2	0	2	rs2274158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	117166206	G	T	117166206	3	4	204	1	0	0	0	0	1	0	0	0	4455	1136	40	4	347	4	DFNB31	9	117166206	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10		117166206	24047225	30	11222											
LAMC3	10319	hgsc.bcm.edu;ucsc.edu	37	chr9	133942465	133942465	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaccccaatgccgtgggCaactgtgaccccctgtctgg	6	8	13	14	1	1	1	0	1	1	0	1	2	1	2	5	3	2	1	5	3	2	0	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	133942465	C	A	133942465	2	1	204	1	0	0	0	0	0	0	0	1	8616	697	25	4		4	LAMC3	9	133942465	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	16776259	133942465	7270966	31	11223											
RET	5979	hgsc.bcm.edu	37	chr10	43602000	43602000	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaacggcagcttcgtgcgGgcgaccgtacatgactatag	9	7	13	12	5	0	1	0	1	0	0	1	2	0	1	2	2	4	3	2	2	4	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	43602000	G	C	43602000	2	2	204	1	0	0	0	0	0	0	0	1	13237	1219	43	4		4	RET	10	43602000	Silent	SNP	G	TCGA-BP-4158-01A-02D-1366-10		43602000	91932747	32	11224											
C10orf54	64115	hgsc.bcm.edu	37	chr10	73521776	73521776	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgaccttgaaggctgcCaccggacctgctcagagaga	9	6	14	12	2	1	3	1	1	0	2	1	6	1	4	4	3	2	2	4	3	1	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	73521776	C	A	73521776	2	1	204	1	0	0	0	0	0	0	0	1	1607	581	21	4		4	C10orf54	10	73521776	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	29919776	73521776	62012971	33	11225											
C10orf93	0	hgsc.bcm.edu;ucsc.edu	37	chr10	134755189	134755189	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccttcaccttgaagtacAtttggatgcagtcctcgctc	7	12	9	13	2	1	1	1	1	0	0	4	2	2	2	3	1	2	3	3	1	2	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	134755189	A	C	134755189	3	2	204	1	0	0	0	0	1	0	0	0	1625	217	8	5	1033	5	C10orf93	10	134755189	Missense_Mutation	SNP	A	TCGA-BP-4158-01A-02D-1366-10	61233413	134755189	779558	34	11226											
PHF21A	51317	hgsc.bcm.edu	37	chr11	45955639	45955639	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgggccattggagatggcCcccacagtggcctcagagtc	7	7	13	14	1	1	2	1	0	0	2	3	3	2	2	5	4	0	0	5	4	0	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	45955639	C	A	45955639	2	1	204	1	0	0	0	0	0	0	0	1	11833	610	22	4		4	PHF21A	11	45955639	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10		45955639	89050877	35	11227											
ATG2A	23130	hgsc.bcm.edu	37	chr11	64681629	64681629	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagggctccggtagcccatcCcgcagacactcctgggccag	7	5	13	16	2	0	1	0	0	0	1	3	2	3	1	5	3	1	3	5	3	1	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	64681629	C	T	64681629	2	4	204	1	0	0	0	0	0	0	0	1	1093	610	22	2		2	ATG2A	11	64681629	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	18725990	64681629	70324887	36	11228											
CARD17	440068	hgsc.bcm.edu;ucsc.edu	37	chr11	104971442	104971442	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaataattcacccagtaaGccatttattgtaccttcgcc	11	13	4	13	1	1	0	1	0	0	0	3	0	2	0	5	0	2	2	5	0	5	8	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	104971442	G	A	104971442	2	1	204	1	0	0	0	0	0	0	0	1	2648	958	34	2		2	CARD17	11	104971442	Silent	SNP	G	TCGA-BP-4158-01A-02D-1366-10	40289813	104971442	30035074	37	11229											
C1R	715	hgsc.bcm.edu	37	chr12	7188437	7188437	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttgcgcttcgtgttccttgGgatacagggtgtgggcagct	4	14	15	8	2	0	0	0	0	0	0	2	1	1	1	1	3	3	4	1	3	1	5	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	7188437	G	T	7188437	3	4	204	1	0	0	0	0	1	0	0	0	1972	1232	43	4	604	4	C1R	12	7188437	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10		7188437	126663458	38	11230											
FAM179B	23116	hgsc.bcm.edu	37	chr14	45473301	45473301	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggcagtaagacacagcaAacatttggtagtcaaacaga	16	9	9	7	0	1	2	1	0	0	2	1	2	1	2	0	2	3	4	0	2	4	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	45473301	A	C	45473301	3	2	204	1	0	0	0	0	1	0	0	0	5506	11	1	5	2390	5	FAM179B	14	45473301	Missense_Mutation	SNP	A	TCGA-BP-4158-01A-02D-1366-10		45473301	61876239	39	11231											
PACS2	23241	hgsc.bcm.edu	37	chr14	105850749	105850749	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgctacaacaacttcttcCaggacctggcctggagagac	11	7	9	14	1	1	1	0	0	1	1	2	4	2	3	4	3	3	1	4	3	3	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	105850749	C	A	105850749	3	1	204	1	0	0	0	0	1	0	0	0	11373	595	21	4	1906	4	PACS2	14	105850749	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10	60377448	105850749	1498791	40	11232											
TRPM1	4308	hgsc.bcm.edu	37	chr15	31318395	31318395	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgactgctgctcatcctcCttctcccggaagtgctcctg	5	11	9	16	2	2	0	1	0	1	0	6	3	5	1	4	1	3	3	4	1	1	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	31318395	C	T	31318395	2	4	204	1	0	0	0	0	0	0	0	1	16584	680	24	2		2	TRPM1	15	31318395	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10		31318395	71212997	41	11233											
SPTBN5	51332	hgsc.bcm.edu	37	chr15	42179542	42179542	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcggggtccagcagctGagcaatgcccagctcctgct	6	8	12	15	1	0	1	0	1	0	0	4	1	3	1	4	2	6	5	4	2	1	0	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	42179542	G	T	42179542	3	4	204	1	0	0	0	0	1	0	0	0	15123	1299	45	4	10519	4	SPTBN5	15	42179542	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	10861147	42179542	60351850	42	11234											
SRRM2	23524	hgsc.bcm.edu;ucsc.edu	37	chr16	2807887	2807887	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatggcagctcttttgaTcctcagcgtcgtgcccgaga	7	11	12	11	3	2	3	1	1	1	2	4	4	3	3	2	1	3	3	2	1	1	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	2807887	T	C	2807887	2	2	204	1	0	0	0	0	0	0	0	1	15170	1432	50	3		3	SRRM2	16	2807887	Silent	SNP	T	TCGA-BP-4158-01A-02D-1366-10		2807887	87546866	43	11235											
ZNF768	79724	hgsc.bcm.edu;ucsc.edu	37	chr16	30536622	30536622	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaccggtgtggatgcgcTggtgctggatcagggtggag	5	10	18	8	2	2	0	2	0	1	0	3	3	2	3	1	6	2	2	1	6	0	0	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	30536622	T	A	30536622	3	1	204	1	0	0	0	0	1	0	0	0	18140	1580	55	5	787	5	ZNF768	16	30536622	Missense_Mutation	SNP	T	TCGA-BP-4158-01A-02D-1366-10	27728735	30536622	59818131	44	11236											
RNF40	9810	hgsc.bcm.edu	37	chr16	30773995	30773995	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcttggaggcatctcttcCacggttcgtgggctcttgcc	3	13	12	13	3	3	0	0	0	3	0	6	1	4	1	2	4	1	3	2	4	0	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	30773995	C	A	30773995	2	1	204	1	0	0	0	0	0	0	0	1	13495	581	21	4		4	RNF40	16	30773995	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10	237373	30773995	59580758	45	11237											
TSR1	55720	hgsc.bcm.edu;ucsc.edu	37	chr17	2238608	2238608	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacagtaatcaccggtgcTgtcccagccttctagtggat	10	10	10	11	1	2	1	1	0	1	1	3	2	3	2	3	2	2	2	3	2	3	3	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	2238608	T	A	2238608	3	1	204	1	0	0	0	0	1	0	0	0	16663	1580	55	5	1960	5	TSR1	17	2238608	Missense_Mutation	SNP	T	TCGA-BP-4158-01A-02D-1366-10		2238608	78956602	46	11238											
PITPNM3	83394	hgsc.bcm.edu	37	chr17	6441376	6441376	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gacatttcgaaggtgccaggGggcaccgccgcccgggggag	7	4	18	12	4	0	0	0	0	0	0	1	3	0	1	4	5	1	1	4	5	1	1	rs28493751	bycluster;byfrequency;by1000genomes	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	6441376	G	A	6441376	3	1	204	1	0	0	0	0	1	0	0	0	11952	1232	43	2	2951	2	PITPNM3	17	6441376	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	4202768	6441376	74753834	47	11239											
SRP68	6730	hgsc.bcm.edu;ucsc.edu	37	chr17	74053509	74053509	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatagctgcttcgttatcaGccagtcctaataagaaaatg	14	11	7	9	1	1	1	1	0	0	1	3	1	2	1	2	0	3	3	2	0	7	5	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	74053509	G	C	74053509	3	2	204	1	0	0	0	0	1	0	0	0	15157	971	34	4	966	4	SRP68	17	74053509	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	67612133	74053509	7141701	48	11240											
ENGASE	64772	hgsc.bcm.edu	37	chr17	77075667	77075667	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccacaccgtcaccatTcccccagtgggctggaccaa	10	5	8	18	1	1	0	1	0	0	0	2	1	2	1	7	2	1	1	7	2	1	1	rs3744183	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	77075667	T	C	77075667	2	2	204	1	0	0	0	0	0	0	0	1	5118	1771	62	3		3	ENGASE	17	77075667	Silent	SNP	T	TCGA-BP-4158-01A-02D-1366-10	3022158	77075667	4119543	49	11241											
CEACAM5	1048	hgsc.bcm.edu;ucsc.edu	37	chr19	42219789	42219789	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataactcagacactggcctCaataggaccacagtcacgac	14	6	7	14	1	3	1	3	0	0	1	3	3	3	2	2	2	1	0	2	2	3	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	42219789	C	A	42219789	2	1	204	1	0	0	0	0	0	0	0	1	3195	813	29	4		4	CEACAM5	19	42219789	Silent	SNP	C	TCGA-BP-4158-01A-02D-1366-10		42219789	16909194	50	11242											
ZFP28	140612	hgsc.bcm.edu;ucsc.edu	37	chr19	57065085	57065085	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatgagacccaggaattaTttccaaagcaagattcatat	16	11	6	8	0	1	2	1	1	0	2	2	4	2	3	2	1	2	1	2	1	6	5	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	57065085	T	C	57065085	3	2	204	1	0	0	0	0	1	0	0	0	17641	1493	52	3	961	3	ZFP28	19	57065085	Missense_Mutation	SNP	T	TCGA-BP-4158-01A-02D-1366-10	14845296	57065085	2063898	51	11243											
STX16	8675	hgsc.bcm.edu;ucsc.edu	37	chr20	57251251	57251251	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctttttgtaggcagaacaGtatcaaaagaagaatcggaa	16	10	9	6	1	2	3	1	0	1	3	3	4	2	4	0	2	1	3	0	2	8	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	57251251	G	T	57251251	3	4	204	1	0	0	0	0	1	0	0	0	15340	1020	36	4	916	4	STX16	20	57251251	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10		57251251	5774269	52	11244											
PISD	23761	hgsc.bcm.edu	37	chr22	32017820	32017820	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctccacctgattgaggcGaccccaggcccgtgacagca	9	5	11	16	2	0	3	0	3	0	0	1	4	1	3	5	2	2	2	5	2	0	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		A	32017820	G	A	32017820	3	1	204	1	0	0	0	0	1	0	0	0	11946	1058	37	1	876	1	PISD	22	32017820	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10		32017820	19286746	53	11245											
CARD10	29775	hgsc.bcm.edu	37	chr22	37912256	37912256	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcgagcttcccgcagccgTcgcacctctgtcatcaagaa	8	9	9	15	4	3	1	2	0	1	1	5	2	4	1	3	0	3	3	3	0	2	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	37912256	T	C	37912256	2	2	204	1	0	0	0	0	0	0	0	1	2644	1654	58	3		3	CARD10	22	37912256	Silent	SNP	T	TCGA-BP-4158-01A-02D-1366-10	5894436	37912256	13392310	54	11246											
SHROOM2	357	hgsc.bcm.edu	37	chrX	9900830	9900830	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccaccatggagacctcGcgctccccctcgccccagtt	6	6	9	20	4	0	1	0	0	0	1	3	2	1	1	7	2	0	2	7	2	0	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	9900830	G	T	9900830	2	4	204	1	0	0	0	0	0	0	0	1	14296	1074	38	4		4	SHROOM2	23	9900830	Silent	SNP	G	TCGA-BP-4158-01A-02D-1366-10		9900830	145369730	55	11247											
TLR8	51311	hgsc.bcm.edu;ucsc.edu	37	chrX	12937362	12937362	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcaaatatgtgacagaacTagacctgtctgataatttca	14	11	9	7	0	2	4	1	2	1	2	2	4	2	4	1	1	1	1	1	1	5	4	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	12937362	T	C	12937362	3	2	204	1	0	0	0	0	1	0	0	0	15956	1522	53	3	209	3	TLR8	23	12937362	Missense_Mutation	SNP	T	TCGA-BP-4158-01A-02D-1366-10	3036532	12937362	142333198	56	11248											
GAGE10	643832	hgsc.bcm.edu;ucsc.edu	37	chrX	49173756	49173756	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatccagaggaggtgaaaaGgcctgaagaaggtagggaat	17	5	15	4	0	0	4	0	2	0	2	1	6	1	6	2	5	0	1	2	5	7	1	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	49173756	G	C	49173756	3	2	204	1	0	0	0	0	1	0	0	0	6187	1000	35	4	327	4	GAGE10	23	49173756	Missense_Mutation	SNP	G	TCGA-BP-4158-01A-02D-1366-10	36236394	49173756	106096804	57	11249											
TRO	7216	hgsc.bcm.edu	37	chrX	54950147	54950147	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctggcagatgactatctGgctcagttgagcctggagcc	7	9	13	12	0	2	3	1	2	1	1	2	4	2	4	3	3	2	3	3	3	1	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		C	54950147	G	C	54950147	2	2	204	1	0	0	0	0	0	0	0	1	16573	1335	47	4		4	TRO	23	54950147	Silent	SNP	G	TCGA-BP-4158-01A-02D-1366-10	5776391	54950147	100320413	58	11250											
USP51	158880	hgsc.bcm.edu	37	chrX	55513337	55513337	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgatggcatcatcacagCtgaaccactggtccttttgt	9	13	9	10	0	2	3	2	3	0	0	3	3	3	3	2	2	2	2	2	2	1	2	novel		TCGA-BP-4158-01A-02D-1366-10	TCGA-BP-4158-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	f134476d-8b3f-43f0-b287-67fa99b5a27f	c6d4b1c9-6267-4655-ae94-3cdc7c8e203e		T	55513337	C	T	55513337	3	4	204	1	0	0	0	0	1	0	0	0	17082	797	28	2	103	2	USP51	23	55513337	Missense_Mutation	SNP	C	TCGA-BP-4158-01A-02D-1366-10	563190	55513337	99757223	59	11251											
NPR1	4881	hgsc.bcm.edu;ucsc.edu	37	chr1	153659771	153659771	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctttgtgctcaagatcacCgactatgggctggagagctt	8	11	12	10	2	2	2	2	0	0	2	2	4	2	2	1	2	2	4	1	2	2	3	rs139564474	alternate_allele	TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	153659771	C	A	153659771	2	1	205	1	0	0	0	0	0	0	0	1	10594	639	23	4		4	NPR1	1	153659771	Silent	SNP	C	TCGA-BP-4159-01A-02D-1366-10		153659771	95590850	1	11252											
TDRD5	163589	hgsc.bcm.edu	37	chr1	179561874	179561874	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttgatggttggcaacCatctaccactccgaatcctt	9	13	6	13	1	1	1	0	1	1	0	3	2	3	1	5	2	2	2	5	2	3	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	179561874	C	A	179561874	3	1	205	1	0	0	0	0	1	0	0	0	15732	594	21	4	126	4	TDRD5	1	179561874	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	25902103	179561874	69688747	2	11253											
RNASEL	6041	hgsc.bcm.edu;ucsc.edu	37	chr1	182551218	182551218	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaagaagggatgacccAgcaggtcactcagacagtcc	14	5	10	12	0	2	3	2	1	0	2	4	4	4	4	3	2	1	1	3	2	3	0	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	182551218	A	G	182551218	3	3	205	1	0	0	0	0	1	0	0	0	13418	188	7	3	499	3	RNASEL	1	182551218	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10	2989344	182551218	66699403	3	11254											
IKBKE	9641	hgsc.bcm.edu	37	chr1	206661295	206661295	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacaagatgaacttcatctAcaaacagttcaagaagtcta	17	9	7	8	0	4	3	2	1	2	2	4	4	4	4	0	1	3	1	0	1	7	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	206661295	A	T	206661295	3	4	205	1	0	0	0	0	1	0	0	0	7612	391	14	5	1715	5	IKBKE	1	206661295	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10	24110077	206661295	42589326	4	11255											
PIGR	5284	hgsc.bcm.edu	37	chr1	207110590	207110590	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccttgtcctgggggttgaGcaggatcctgccctcaaagg	7	10	13	11	0	1	1	1	1	0	0	4	2	4	2	4	4	2	2	4	4	1	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	207110590	G	A	207110590	3	1	205	1	0	0	0	0	1	0	0	0	11897	971	34	2	1431	2	PIGR	1	207110590	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	449295	207110590	42140031	5	11256											
CEP170	9859	hgsc.bcm.edu	37	chr1	243336127	243336127	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacaggcctattataatcctGattgtcatctactccaaaca	14	12	4	11	0	2	1	1	1	1	0	4	1	4	1	3	1	3	0	3	1	6	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	243336127	G	C	243336127	3	2	205	1	0	0	0	0	1	0	0	0	3250	1299	45	4	3236	4	CEP170	1	243336127	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	36225537	243336127	5914494	6	11257											
EMX1	2016	hgsc.bcm.edu	37	chr2	73161063	73161063	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccaatggggaggacatcGatgtcacctccaatgactag	12	7	12	10	1	1	1	1	1	0	0	3	4	2	3	3	4	0	0	3	4	3	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	73161063	G	A	73161063	3	1	205	1	0	0	0	0	1	0	0	0	5107	1058	37	1	863	1	EMX1	2	73161063	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10		73161063	170038310	7	11258											
PSD4	23550	hgsc.bcm.edu;ucsc.edu	37	chr2	113942578	113942578	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagcaccgtgtgtggaCgaagcattgacctgggaatc	9	9	13	10	2	1	1	0	1	1	0	2	4	1	3	2	2	3	3	2	2	2	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	113942578	C	T	113942578	2	4	205	1	0	0	0	0	0	0	0	1	12651	535	19	1		1	PSD4	2	113942578	Silent	SNP	C	TCGA-BP-4159-01A-02D-1366-10	40781515	113942578	129256795	8	11259											
PTPN4	5775	hgsc.bcm.edu;ucsc.edu	37	chr2	120709630	120709630	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acattgcagaacacactcatGatcaggttgtgctgtttatt	11	14	8	8	0	2	2	2	1	0	1	2	2	2	2	0	1	3	4	0	1	2	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	120709630	G	T	120709630	3	4	205	1	0	0	0	0	1	0	0	0	12792	1290	45	4	1808	4	PTPN4	2	120709630	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	6767052	120709630	122489743	9	11260											
POTEF	728378	hgsc.bcm.edu	37	chr2	130831983	130831983	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcttcatcatgctaggcGccagggcagcgatctccttc	7	11	10	13	2	4	1	2	1	2	0	6	2	4	1	2	2	2	2	2	2	1	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	130831983	G	A	130831983	3	1	205	1	0	0	0	0	1	0	0	0	12265	1087	38	1	169	1	POTEF	2	130831983	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	10122353	130831983	112367390	10	11261											
OBFC2A	0	hgsc.bcm.edu;ucsc.edu	37	chr2	192550347	192550347	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtgttcacactggcccTgaatcaagggaacaccagtt	12	9	10	10	0	2	1	2	1	0	0	2	2	2	2	2	3	1	2	2	3	4	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	192550347	T	G	192550347	2	3	205	1	0	0	0	0	0	0	0	1	10808	1567	55	5		5	OBFC2A	2	192550347	Silent	SNP	T	TCGA-BP-4159-01A-02D-1366-10	61718364	192550347	50649026	11	11262											
ALS2	57679	hgsc.bcm.edu;ucsc.edu	37	chr2	202589118	202589118	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtcaatttcccacttcgtaGaagaccatgaccatgacgca	12	9	7	13	3	1	4	1	2	0	2	3	4	2	4	3	0	0	2	3	0	3	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	202589118	G	A	202589118	2	1	205	1	0	0	0	0	0	0	0	1	550	933	33	2		2	ALS2	2	202589118	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10	10038771	202589118	40610255	12	11263											
AGFG1	3267	hgsc.bcm.edu	37	chr2	228398468	228398468	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagacaatatcttcagtgccGggcaaggtatcaagctttaa	13	11	9	8	1	3	1	2	0	1	1	3	1	3	1	1	2	2	3	1	2	7	6	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	228398468	G	T	228398468	3	4	205	1	0	0	0	0	1	0	0	0	380	1116	39	4	1120	4	AGFG1	2	228398468	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	25809350	228398468	14800905	13	11264											
SPP2	6694	hgsc.bcm.edu;ucsc.edu	37	chr2	234959667	234959667	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagggatgccctcagtgcCtctgtggtaaaagtgaattc	10	12	11	8	0	2	1	1	1	1	0	3	2	2	2	2	2	2	1	2	2	4	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	234959667	C	A	234959667	2	1	205	1	0	0	0	0	0	0	0	1	15088	668	24	4		4	SPP2	2	234959667	Silent	SNP	C	TCGA-BP-4159-01A-02D-1366-10	6561199	234959667	8239706	14	11265											
D2HGDH	728294	hgsc.bcm.edu	37	chr2	242680459	242680459	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcacaggctgtagcaagGtgctgctgaggccacggacg	8	7	15	11	2	1	1	1	1	0	0	1	2	1	2	1	4	3	5	1	4	2	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	242680459	G	A	242680459	3	1	205	1	0	0	0	0	1	0	0	0	4213	1261	44	2	310	2	D2HGDH	2	242680459	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	7720792	242680459	518914	15	11266											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188315	10188315	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttttgccaatatcacacTgccaggtactgacgttttac	10	15	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	5	7	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	10188315	T	C	10188315	3	2	205	1	0	0	0	0	1	0	0	0	17161	1580	55	3	464	3	VHL	3	10188315	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10		10188315	187834115	16	11267											
PBRM1	55193	ucsc.edu	37	chr3	52682363	52682363	+	Frame_Shift_Del	DEL	G	G	-																															acaacaacaaaactaaccttGaatacttgagagccaggctc																								novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	G	-	G	G	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		-	52682363	G	-	52682363	7	5	205	1	0	1	0	1	0	0	0	0	11491	1281	45	0	4186	0	PBRM1	3	52682363	Frame_Shift_Del	DEL	G	TCGA-BP-4159-01A-02D-1366-10	42494048	52682363	145340067	17	11268											
C3orf63	0	hgsc.bcm.edu	37	chr3	56716710	56716710	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggaggcaccacctttctTttctctgctcttcctgggga	5	13	11	12	0	3	0	0	0	3	0	5	2	4	2	3	5	1	2	3	5	0	4	rs113199481		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	56716710	T	C	56716710	3	2	205	1	0	0	0	0	1	0	0	0	2239	1850	64	3	4843	3	C3orf63	3	56716710	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10	4034347	56716710	141305720	18	11269											
DRD3	1814	hgsc.bcm.edu	37	chr3	113866367	113866367	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagctctgtcccgtgcCatgctggtagtgaacgggca	8	8	14	11	2	1	1	0	1	1	0	2	2	2	2	2	3	4	4	2	3	2	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	113866367	C	T	113866367	3	4	205	1	0	0	0	0	1	0	0	0	4758	594	21	2	797	2	DRD3	3	113866367	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	57149657	113866367	84156063	19	11270											
RNF212	285498	hgsc.bcm.edu;ucsc.edu	37	chr4	1075245	1075245	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtggcagcaggcatccGtgtggttttgctggaagagt	7	11	17	6	1	0	2	0	1	0	1	1	3	1	3	1	5	2	5	1	5	1	2	rs146814980		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	1075245	G	A	1075245	2	1	205	1	0	0	0	0	0	0	0	1	13478	1136	40	1		1	RNF212	4	1075245	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10		1075245	190079031	20	11271											
PPP3CA	5530	hgsc.bcm.edu;ucsc.edu	37	chr4	102015047	102015047	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatcacacataggtccatatGcaggtggttctttgaatcgg	10	13	10	8	1	2	1	1	1	1	0	4	1	3	1	1	4	1	2	1	4	4	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	102015047	G	T	102015047	3	4	205	1	0	0	0	0	1	0	0	0	12399	1319	46	4	933	4	PPP3CA	4	102015047	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	100939802	102015047	89139229	21	11272											
NDST4	64579	hgsc.bcm.edu;ucsc.edu	37	chr4	115997895	115997895	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtactgaaatcggctggactCcaaaatagctatgatatctt	13	12	8	8	1	1	2	0	2	1	0	3	3	2	3	1	2	2	3	1	2	7	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	115997895	C	T	115997895	3	4	205	1	0	0	0	0	1	0	0	0	10258	864	30	2	2372	2	NDST4	4	115997895	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	13982848	115997895	75156381	22	11273											
DMXL1	1657	hgsc.bcm.edu;ucsc.edu	37	chr5	118506224	118506224	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttctccattaaagttggAtgcaagggaagataagtctt	12	14	9	6	0	3	1	0	0	3	1	4	3	3	3	1	2	1	2	1	2	5	6	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	118506224	A	T	118506224	3	4	205	1	0	0	0	0	1	0	0	0	4594	333	12	5	5832	5	DMXL1	5	118506224	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10		118506224	62409036	23	11274											
ROS1	6098	hgsc.bcm.edu;ucsc.edu	37	chr6	117706977	117706977	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcagccacacaaaaacgtCgcctttcgtgtcactgtagt	11	9	8	13	3	1	0	1	0	0	0	3	0	1	0	2	0	3	2	2	0	3	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	117706977	C	T	117706977	3	4	205	1	0	0	0	0	1	0	0	0	13533	884	31	1	4986	1	ROS1	6	117706977	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10		117706977	53408090	24	11275											
GUSB	2990	hgsc.bcm.edu	37	chr7	65432870	65432870	+	Missense_Mutation	SNP	A	A	C																															ccaagagtagtagctgttcaAacagatcacatccacatacg																								novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	65432870	A	C	65432870	3	2	205	1	0	0	0	0	1	0	0	0	6902	11	1	5	466	5	GUSB	7	65432870	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10		65432870	93705793	25	11276	170	2									
GUSB	2990	hgsc.bcm.edu	37	chr7	65432873	65432873	+	Missense_Mutation	SNP	A	A	G																															agagtagtagctgttcaaacAgatcacatccacatacggag																								novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	65432873	A	G	65432873	3	3	205	1	0	0	0	0	1	0	0	0	6902	188	7	3	469	3	GUSB	7	65432873	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10	3	65432873	93705790	26	11277	170	2									
GRM8	2918	hgsc.bcm.edu	37	chr7	126086265	126086265	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatcagtttgctttgcatGgtggcagctgtcaccacagc	7	12	12	10	0	2	0	2	0	0	0	2	1	2	1	1	3	4	5	1	3	0	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	126086265	G	T	126086265	2	4	205	1	0	0	0	0	0	0	0	1	6803	1335	47	4		4	GRM8	7	126086265	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10	60653392	126086265	33052398	27	11278											
C7orf29	113763	hgsc.bcm.edu;ucsc.edu	37	chr7	150028096	150028096	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attgtcaagaagtatctgtgGgagaatgagaccgttggagc	12	10	14	5	1	2	3	1	1	1	3	2	6	2	4	1	2	1	2	1	2	4	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	150028096	G	A	150028096	4	1	205	1	0	0	0	0	0	1	0	0	2385	1241	43	2	605	2	C7orf29	7	150028096	Nonsense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	23941831	150028096	9110567	28	11279											
CYP7B1	9420	hgsc.bcm.edu;ucsc.edu	37	chr8	65517238	65517238	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ataggcttgatgtttacttaCctctggagcttcaaagattt	10	16	8	7	0	2	2	1	1	1	1	2	3	2	3	1	2	3	3	1	2	4	7	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	65517238	C	A	65517238	5	1	205	1	0	0	0	0	0	0	1	0	4197	521	18	4	294	4	CYP7B1	8	65517238	Splice_Site	SNP	C	TCGA-BP-4159-01A-02D-1366-10		65517238	80846784	29	11280											
INTS8	55656	hgsc.bcm.edu;ucsc.edu	37	chr8	95850820	95850820	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccatatagtcaagtccatAtttgtttgagatctggcaac	11	14	7	9	0	2	1	1	1	1	1	4	2	4	1	2	1	1	2	2	1	5	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	95850820	A	G	95850820	3	3	205	1	0	0	0	0	1	0	0	0	7784	449	16	3	1021	3	INTS8	8	95850820	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10	30333582	95850820	50513202	30	11281											
TG	7038	hgsc.bcm.edu;ucsc.edu	37	chr8	133911116	133911116	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggctagatcccaagaaaaCccatctccaaaagacctgtt	15	7	6	13	0	1	3	0	0	1	3	3	3	2	3	4	1	1	2	4	1	6	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	133911116	C	G	133911116	3	3	205	1	0	0	0	0	1	0	0	0	15812	506	18	4	3345	4	TG	8	133911116	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	38060296	133911116	12452906	31	11282											
FREM1	158326	hgsc.bcm.edu;ucsc.edu	37	chr9	14792818	14792818	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtgagtcttcatctaTggctgaaagaatagcactgg	10	11	12	8	0	3	3	1	2	2	1	3	3	3	3	1	3	1	2	1	3	4	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	14792818	T	C	14792818	3	2	205	1	0	0	0	0	1	0	0	0	6044	1464	51	3	2749	3	FREM1	9	14792818	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10		14792818	126420613	32	11283											
KLF9	687	hgsc.bcm.edu	37	chr9	73027905	73027905	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccactccaggatggaggagGgagagcgggctgggcgcgct	7	4	20	10	3	0	1	0	0	0	1	1	5	1	4	2	6	1	2	2	6	0	0	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	73027905	G	A	73027905	2	1	205	1	0	0	0	0	0	0	0	1	8353	1219	43	2		2	KLF9	9	73027905	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10	58235087	73027905	68185526	33	11284											
S1PR3	1903	hgsc.bcm.edu;ucsc.edu	37	chr9	91617209	91617209	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccctcatcctgcatcaTggacaagaacgcagcacttc	11	7	7	16	1	2	1	2	0	0	1	4	2	3	2	3	1	4	3	3	1	2	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	91617209	T	C	91617209	3	2	205	1	0	0	0	0	1	0	0	0	13797	1464	51	3	1096	3	S1PR3	9	91617209	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10	18589304	91617209	49596222	34	11285											
ABL1	25	hgsc.bcm.edu	37	chr9	133730431	133730431	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagaggtccatctcgctgaGatacgaagggagggtgtacc	10	7	14	10	2	1	2	0	1	1	2	3	5	2	3	3	3	2	2	3	3	3	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	133730431	G	A	133730431	3	1	205	1	0	0	0	0	1	0	0	0	92	942	33	2	647	2	ABL1	9	133730431	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	42113222	133730431	7483000	35	11286											
FAM78A	286336	hgsc.bcm.edu	37	chr9	134136484	134136484	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgttggtggccaccaGccaggtggtgaagctctggt	6	9	18	8	0	1	1	0	1	1	0	1	2	1	2	3	7	2	2	3	7	1	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	134136484	G	A	134136484	2	1	205	1	0	0	0	0	0	0	0	1	5626	962	34	2		2	FAM78A	9	134136484	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10	406053	134136484	7076947	36	11287											
ZNF33A	7581	hgsc.bcm.edu	37	chr10	38343868	38343868	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatatctccgtcaagggaCaatcactatgaatttagtga	14	11	8	8	1	3	3	2	2	1	1	4	4	3	4	1	1	0	0	1	1	6	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	38343868	C	A	38343868	3	1	205	1	0	0	0	0	1	0	0	0	17853	477	17	4	830	4	ZNF33A	10	38343868	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10		38343868	97190879	37	11288											
LDB3	11155	hgsc.bcm.edu	37	chr10	88476182	88476182	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccccctcccctgcccctGcctacaccccctcacctgtc	5	7	3	26	0	1	0	1	0	0	0	3	0	2	0	10	0	3	0	10	0	1	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	88476182	G	C	88476182	3	2	205	1	0	0	0	0	1	0	0	0	8697	1319	46	4	1700	4	LDB3	10	88476182	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	50132314	88476182	47058565	38	11289											
C10orf28	0	hgsc.bcm.edu;ucsc.edu	37	chr10	99968925	99968925	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagcacgaacctcctgatAcagctgtccttgctcatgaa	12	10	7	12	1	1	2	1	2	0	0	3	3	3	2	3	0	5	3	3	0	5	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	99968925	A	C	99968925	3	2	205	1	0	0	0	0	1	0	0	0	1601	391	14	5	1056	5	C10orf28	10	99968925	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10	11492743	99968925	35565822	39	11290											
DMBT1	1755	hgsc.bcm.edu;ucsc.edu	37	chr10	124351826	124351826	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgaggctggtgaatggaAgtgacaggtgtcagggccga	9	7	17	8	1	1	3	1	3	0	0	1	5	1	4	2	5	0	1	2	5	2	0	rs190617825	by1000genomes	TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	124351826	A	G	124351826	3	3	205	1	0	0	0	0	1	0	0	0	4577	72	3	3	2293	3	DMBT1	10	124351826	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10	24382901	124351826	11182921	40	11291											
EBF3	253738	hgsc.bcm.edu	37	chr10	131671768	131671768	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgggtctaggcggcgggcCcgcctcccgtgtttggaatt	4	9	16	12	5	1	0	0	0	1	0	2	2	2	1	3	5	0	1	3	5	2	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	131671768	C	A	131671768	2	1	205	1	0	0	0	0	0	0	0	1	4882	610	22	4		4	EBF3	10	131671768	Silent	SNP	C	TCGA-BP-4159-01A-02D-1366-10	7319942	131671768	3862979	41	11292											
FZD4	8322	hgsc.bcm.edu	37	chr11	86662759	86662759	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccaggctgcaatgtggaAataagagctgtgcatttcaa	12	9	12	8	0	1	1	1	0	0	1	1	2	1	2	1	3	3	4	1	3	4	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	86662759	A	C	86662759	3	2	205	1	0	0	0	0	1	0	0	0	6132	14	1	5	578	5	FZD4	11	86662759	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10		86662759	48343757	42	11293											
MLL2	8085	hgsc.bcm.edu	37	chr12	49427984	49427984	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagccttccgggacttgcGgtgtacaccaatctgctcct	7	10	10	14	2	1	1	0	0	1	1	3	2	3	2	4	2	4	2	4	2	2	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	49427984	G	A	49427984	3	1	205	1	0	0	0	0	1	0	0	0	9621	1116	39	1	6075	1	MLL2	12	49427984	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10		49427984	84423911	43	11294											
DDIT3	1649	hgsc.bcm.edu	37	chr12	57910757	57910757	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcatgcgctgctttccAgcccgggctggggaatgacc	5	10	12	14	2	1	1	1	1	0	0	3	2	3	2	4	3	3	3	4	3	1	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	57910757	A	G	57910757	2	3	205	1	0	0	0	0	0	0	0	1	4330	175	7	3		3	DDIT3	12	57910757	Silent	SNP	A	TCGA-BP-4159-01A-02D-1366-10	8482773	57910757	75941138	44	11295											
SLC5A8	160728	hgsc.bcm.edu;ucsc.edu	37	chr12	101584299	101584299	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatctctgcacctgggattgGttgacaccgtagatgctggt	7	13	12	9	1	1	2	0	1	1	1	2	3	1	3	2	3	2	4	2	3	2	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	101584299	G	T	101584299	3	4	205	1	0	0	0	0	1	0	0	0	14673	1252	44	4	1092	4	SLC5A8	12	101584299	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	43673542	101584299	32267596	45	11296											
PYGL	5836	hgsc.bcm.edu;ucsc.edu	37	chr14	51372121	51372121	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctagagttcaatttccatTgactttgttagattcattgg	9	19	7	6	0	3	3	2	1	1	2	4	3	4	3	1	1	0	2	1	1	3	9	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	51372121	T	G	51372121	3	3	205	1	0	0	0	0	1	0	0	0	12863	1812	63	5	14	5	PYGL	14	51372121	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10		51372121	55977419	46	11297											
ARHGAP11A	9824	hgsc.bcm.edu	37	chr15	32921822	32921822	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatctgaatcaccagtgattCttacaccaaatgctaagcgt	13	12	6	10	1	3	2	1	2	2	0	3	2	3	2	2	0	3	1	2	0	5	4	rs145484357	alternate_allele	TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	32921822	C	G	32921822	3	3	205	1	0	0	0	0	1	0	0	0	863	913	32	4	994	4	ARHGAP11A	15	32921822	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10		32921822	69609570	47	11298											
CILP	8483	hgsc.bcm.edu;ucsc.edu	37	chr15	65489590	65489590	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgatcatagagcatccCactgcacttgaactccagac	11	9	7	14	0	1	4	1	2	0	2	4	4	4	4	3	0	3	2	3	0	2	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	65489590	C	A	65489590	3	1	205	1	0	0	0	0	1	0	0	0	3429	594	21	4	524	4	CILP	15	65489590	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	32567768	65489590	37041802	48	11299											
ATP2A1	487	hgsc.bcm.edu	37	chr16	28912226	28912226	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcagtcctacgatgagAtcacagccatggtgagaggg	11	7	13	10	1	1	2	1	2	0	2	2	5	2	2	3	2	3	1	3	2	1	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	28912226	A	C	28912226	3	2	205	1	0	0	0	0	1	0	0	0	1136	333	12	5	2147	5	ATP2A1	16	28912226	Missense_Mutation	SNP	A	TCGA-BP-4159-01A-02D-1366-10		28912226	61442527	49	11300											
LONP2	83752	hgsc.bcm.edu;ucsc.edu	37	chr16	48286144	48286144	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgtttccagattgtacaGgtcttaaaagagaagccata	13	11	9	8	1	1	2	0	0	1	2	2	3	2	2	3	1	3	2	3	1	5	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	48286144	G	C	48286144	3	2	205	1	0	0	0	0	1	0	0	0	8893	991	35	4	342	4	LONP2	16	48286144	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	19373918	48286144	42068609	50	11301											
NUP93	9688	hgsc.bcm.edu	37	chr16	56875675	56875675	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacatcttgttcacacagtTtaagaggctcaaggggacaa	14	9	10	8	0	3	1	2	0	1	1	3	3	3	2	0	3	1	3	0	3	4	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	56875675	T	G	56875675	3	3	205	1	0	0	0	0	1	0	0	0	10772	1841	64	5	2357	5	NUP93	16	56875675	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10	8589531	56875675	33479078	51	11302											
SREBF1	6720	hgsc.bcm.edu	37	chr17	17722891	17722891	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcacagtggtcgttacAggggctgccgtgggggcagc	6	7	19	9	2	1	0	1	0	0	0	2	1	1	0	1	6	3	3	1	6	1	1	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	17722891	A	G	17722891	2	3	205	1	0	0	0	0	0	0	0	1	15142	175	7	3		3	SREBF1	17	17722891	Silent	SNP	A	TCGA-BP-4159-01A-02D-1366-10		17722891	63472319	52	11303											
ABCC3	8714	hgsc.bcm.edu	37	chr17	48742604	48742604	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaagatgcgcgccttcCaggtaggtgctgtcagaggt	7	9	15	10	3	1	3	1	1	0	2	2	3	2	3	3	3	2	2	3	3	2	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	48742604	C	G	48742604	3	3	205	1	0	0	0	0	1	0	0	0	54	595	21	4	1471	4	ABCC3	17	48742604	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	31019713	48742604	32452606	53	11304											
PPM1E	22843	hgsc.bcm.edu	37	chr17	57047047	57047047	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctgtgcagggccttcCgggtcactgatgagcggttt	5	10	15	11	2	1	2	1	2	0	0	2	2	2	2	3	4	2	2	3	4	0	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	57047047	C	T	57047047	3	4	205	1	0	0	0	0	1	0	0	0	12340	643	23	1	945	1	PPM1E	17	57047047	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	8304443	57047047	24148163	54	11305											
DAND5	199699	hgsc.bcm.edu	37	chr19	13080510	13080510	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatccactcttctgtgcctGcttagcggggccctgcctac	4	12	9	16	1	2	0	0	0	2	0	3	0	3	0	4	2	5	1	4	2	3	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	13080510	G	A	13080510	2	1	205	1	0	0	0	0	0	0	0	1	4230	1306	46	2		2	DAND5	19	13080510	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10		13080510	46048473	55	11306											
CCDC105	126402	hgsc.bcm.edu	37	chr19	15131445	15131445	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcagaaaacgcctcctcCagaccctgtgggcacctata	10	7	10	14	1	1	2	1	0	0	2	3	2	3	2	5	2	1	1	5	2	4	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	15131445	C	A	15131445	3	1	205	1	0	0	0	0	1	0	0	0	2740	594	21	4	858	4	CCDC105	19	15131445	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	2050935	15131445	43997538	56	11307											
COX6B1	1340	hgsc.bcm.edu;ucsc.edu	37	chr19	36142196	36142196	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactacaagaccgcccctttTgacagccgcttccccaacca	11	7	5	18	2	0	2	0	1	0	1	1	2	1	2	7	0	4	1	7	0	4	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	36142196	T	C	36142196	2	2	205	1	0	0	0	0	0	0	0	1	3776	1809	63	3		3	COX6B1	19	36142196	Silent	SNP	T	TCGA-BP-4159-01A-02D-1366-10	21010751	36142196	22986787	57	11308											
CD177	57126	hgsc.bcm.edu;ucsc.edu	37	chr19	43866359	43866359	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaagcgtgatgtgcagcctCctgcctctcagcatgaggga	9	8	13	11	1	1	3	1	2	1	1	3	4	2	4	3	1	5	2	3	1	1	0	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	43866359	C	T	43866359	3	4	205	1	0	0	0	0	1	0	0	0	2971	855	30	2	1235	2	CD177	19	43866359	Missense_Mutation	SNP	C	TCGA-BP-4159-01A-02D-1366-10	7724163	43866359	15262624	58	11309											
CACNG7	59284	hgsc.bcm.edu;ucsc.edu	37	chr19	54444777	54444777	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctccagcatcaacgacgagGtcatgaacaggcccagcagc	12	5	10	14	2	3	1	2	1	1	0	4	3	3	1	2	2	5	2	2	2	2	0	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	54444777	G	T	54444777	3	4	205	1	0	0	0	0	1	0	0	0	2562	1261	44	4	492	4	CACNG7	19	54444777	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	10578418	54444777	4684206	59	11310											
PDYN	5173	hgsc.bcm.edu	37	chr20	1961196	1961196	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcctcttggggtatttgcGcaaaaagcccccatagcgtt	8	11	10	12	2	1	0	0	0	1	0	2	0	2	0	3	2	3	4	3	2	4	5	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	1961196	G	C	1961196	3	2	205	1	0	0	0	0	1	0	0	0	11699	1087	38	4	230	4	PDYN	20	1961196	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10		1961196	61064324	60	11311											
PABPC1L	80336	hgsc.bcm.edu	37	chr20	43541488	43541488	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctttgggaacatcctctcTtgcaaggtagaggatgaagg	11	10	12	8	0	1	2	0	1	1	1	3	4	2	4	2	4	2	2	2	4	4	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	43541488	T	C	43541488	2	2	205	1	0	0	0	0	0	0	0	1	11364	1596	56	3		3	PABPC1L	20	43541488	Silent	SNP	T	TCGA-BP-4159-01A-02D-1366-10	41580292	43541488	19484032	61	11312											
TFF1	7031	hgsc.bcm.edu	37	chr21	43783445	43783445	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcgaaacagcagcccttatTtgcacactgggagggcgtga	10	8	13	10	2	0	1	0	1	0	0	1	3	0	2	1	2	4	2	1	2	2	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		G	43783445	T	G	43783445	3	3	205	1	0	0	0	0	1	0	0	0	15802	1841	64	5	105	5	TFF1	21	43783445	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10		43783445	4346450	62	11313											
FRMPD4	9758	hgsc.bcm.edu	37	chrX	12701706	12701706	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcatcaacggccaagtgtcGgtgagtttacagtcacctgc	10	10	10	11	2	3	1	3	1	0	0	4	1	3	1	2	2	3	1	2	2	3	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	12701706	G	T	12701706	2	4	205	1	0	0	0	0	0	0	0	1	6059	1130	39	4		4	FRMPD4	23	12701706	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10		12701706	142568854	63	11314											
CDKL5	6792	hgsc.bcm.edu	37	chrX	18622766	18622766	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggaggaattgaagctgccGgagcacatggacagtagcca	13	6	14	8	1	0	1	0	1	0	0	0	5	0	5	2	4	4	3	2	4	3	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		T	18622766	G	T	18622766	2	4	205	1	0	0	0	0	0	0	0	1	3157	1103	39	4		4	CDKL5	23	18622766	Silent	SNP	G	TCGA-BP-4159-01A-02D-1366-10	5921060	18622766	136647794	64	11315											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53240705	53240705	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgggggttaggtgccgttTactgtcactgacagggaaac	8	11	14	8	2	1	1	1	1	0	0	2	2	1	2	1	4	3	2	1	4	3	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	53240705	T	A	53240705	4	1	205	1	0	0	0	0	0	1	0	0	8135	1763	61	5	3473	5	KDM5C	23	53240705	Nonsense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10	34617939	53240705	102029855	65	11316											
GNL3L	54552	hgsc.bcm.edu	37	chrX	54577458	54577458	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcagccgcgcatgcagcGtgggagctgttcctggaatt	7	8	15	11	4	0	0	0	0	0	0	1	2	1	2	2	2	5	5	2	2	1	2	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	54577458	G	A	54577458	3	1	205	1	0	0	0	0	1	0	0	0	6538	1145	40	1	872	1	GNL3L	23	54577458	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	1336753	54577458	100693102	66	11317											
KIAA2022	340533	hgsc.bcm.edu	37	chrX	73964285	73964285	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctagagctgcaaatgacTtcattgccacatcctggtcc	9	12	7	13	0	2	2	1	1	1	1	4	2	4	2	3	1	3	2	3	1	2	4	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		A	73964285	T	A	73964285	3	1	205	1	0	0	0	0	1	0	0	0	8269	1609	56	5	4451	5	KIAA2022	23	73964285	Missense_Mutation	SNP	T	TCGA-BP-4159-01A-02D-1366-10	19386827	73964285	81306275	67	11318											
GAB3	139716	hgsc.bcm.edu	37	chrX	153940887	153940887	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaatgactggaggggagcGgctgcaggcagtcaacaaaa	14	4	14	9	1	1	1	1	1	0	0	1	3	1	3	1	5	3	3	1	5	4	0	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	153940887	G	C	153940887	3	2	205	1	0	0	0	0	1	0	0	0	6150	1116	39	4	1105	4	GAB3	23	153940887	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	79976602	153940887	1329673	68	11319											
GAB3	139716	hgsc.bcm.edu	37	chrX	153940946	153940946	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttccaatgaacggtctgaGtttgaccagctatcacatct	10	13	8	10	1	3	3	1	3	2	0	4	3	4	3	2	1	2	3	2	1	3	3	novel		TCGA-BP-4159-01A-02D-1366-10	TCGA-BP-4159-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b0b1d34-a704-4d47-89e9-d1b0d187c8de	63af4766-b112-4605-a1b9-a26272148aa7		C	153940946	G	C	153940946	3	2	205	1	0	0	0	0	1	0	0	0	6150	1020	36	4	1164	4	GAB3	23	153940946	Missense_Mutation	SNP	G	TCGA-BP-4159-01A-02D-1366-10	59	153940946	1329614	69	11320											
PANK4	55229	hgsc.bcm.edu;ucsc.edu	37	chr1	2443118	2443118	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagtaggggtcggattcaaGgacactgcatggaggaggag	13	6	17	5	1	1	0	1	0	0	0	2	5	1	5	0	7	1	2	0	7	3	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	2443118	G	A	2443118	3	1	206	1	0	0	0	0	1	0	0	0	11419	1000	35	2	613	2	PANK4	1	2443118	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10		2443118	246807503	1	11321											
FOXJ3	22887	hgsc.bcm.edu	37	chr1	42693624	42693624	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcggattggtgtctattGcccagtaggacccctagagg	7	11	12	11	1	1	1	0	0	1	1	2	3	1	3	4	4	1	1	4	4	3	6	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	42693624	G	A	42693624	3	1	206	1	0	0	0	0	1	0	0	0	6013	1319	46	2	1446	2	FOXJ3	1	42693624	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	40250506	42693624	206556997	2	11322											
SLC1A7	6512	hgsc.bcm.edu	37	chr1	53608000	53608000	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgacctgtggtgagaggCgccgggtcctcaagaagaag	9	6	17	9	2	1	4	1	2	0	3	2	5	2	4	3	4	0	1	3	4	3	0	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	53608000	C	T	53608000	3	4	206	1	0	0	0	0	1	0	0	0	14439	768	27	1	1604	1	SLC1A7	1	53608000	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	10914376	53608000	195642621	3	11323											
ACP1	52	hgsc.bcm.edu	37	chr2	265004	265004	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtccgtgctgtttgtgtgtCtgggtaagagggcgccgact	5	12	16	8	3	1	1	0	0	1	1	2	2	2	1	2	2	1	3	2	2	1	2	rs147428558	alternate_allele	TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	265004	C	G	265004	3	3	206	1	0	0	0	0	1	0	0	0	162	912	32	4	42	4	ACP1	2	265004	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10		265004	242934369	4	11324											
C2orf43	60526	hgsc.bcm.edu;ucsc.edu	37	chr2	20990106	20990106	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaagcgtctgtttgtcaaAgagtataaagcctttgcaaa	14	11	10	6	1	2	1	1	0	1	1	2	2	2	2	1	1	3	3	1	1	6	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	20990106	A	T	20990106	2	4	206	1	0	0	0	0	0	0	0	1	2167	59	3	5		5	C2orf43	2	20990106	Silent	SNP	A	TCGA-BP-4160-01A-02D-1366-10	20725102	20990106	222209267	5	11325											
DNMT3A	1788	hgsc.bcm.edu	37	chr2	25498413	25498413	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctccttctgttctttgcCtgtggagagggaagaacaaa	9	12	12	8	0	3	2	0	0	3	2	4	4	3	3	2	3	2	1	2	3	3	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	25498413	C	T	25498413	5	4	206	1	0	0	0	0	0	0	1	0	4676	695	24	2	2446	2	DNMT3A	2	25498413	Splice_Site	SNP	C	TCGA-BP-4160-01A-02D-1366-10	4508307	25498413	217700960	6	11326											
CCDC108	255101	hgsc.bcm.edu	37	chr2	219892423	219892423	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaaaggcagttggggtgAggcggctggaagtgcaggcg	8	7	21	5	2	0	1	0	1	0	0	0	2	0	2	0	7	1	5	0	7	3	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	219892423	A	G	219892423	2	3	206	1	0	0	0	0	0	0	0	1	2743	291	11	3		3	CCDC108	2	219892423	Silent	SNP	A	TCGA-BP-4160-01A-02D-1366-10	194394010	219892423	23306950	7	11327											
CCR9	10803	hgsc.bcm.edu	37	chr3	45943248	45943248	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctatgtttttgtgggtgagaGattccgccgggatctcgtga	6	14	14	7	3	1	3	0	2	1	1	3	5	2	4	2	2	0	1	2	2	1	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	45943248	G	C	45943248	3	2	206	1	0	0	0	0	1	0	0	0	2948	942	33	4	974	4	CCR9	3	45943248	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10		45943248	152079182	8	11328											
C3orf36	80111	hgsc.bcm.edu	37	chr3	133647487	133647487	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagctaggaatgccttcCtgagcgtggttggtgggggc	5	11	17	8	1	1	2	0	2	1	0	2	3	2	3	2	5	3	2	2	5	2	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	133647487	C	T	133647487	3	4	206	1	0	0	0	0	1	0	0	0	2226	681	24	2	340	2	C3orf36	3	133647487	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	87704239	133647487	64374943	9	11329											
ZBTB38	253461	hgsc.bcm.edu	37	chr3	141164552	141164552	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatttttgtatctctccAccaaaaggaatcacgagcag	14	10	8	9	1	2	1	1	0	1	1	4	4	3	2	2	1	1	2	2	1	4	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	141164552	A	G	141164552	3	3	206	1	0	0	0	0	1	0	0	0	17538	159	6	3	3324	3	ZBTB38	3	141164552	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	7517065	141164552	56857878	10	11330											
PIK3CA	5290	hgsc.bcm.edu;ucsc.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003	bycluster	TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	178936091	G	A	178936091	3	1	206	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	37771539	178936091	19086339	11	11331											
TET2	54790	hgsc.bcm.edu;ucsc.edu	37	chr4	106196809	106196809	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgtaccattagaccaaaTgtacatcatgtagggaaatt	15	12	8	6	0	1	1	1	0	0	1	1	2	1	2	2	1	2	4	2	1	6	6	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	106196809	T	G	106196809	3	3	206	1	0	0	0	0	1	0	0	0	15769	1461	51	5	5265	5	TET2	4	106196809	Missense_Mutation	SNP	T	TCGA-BP-4160-01A-02D-1366-10		106196809	84957467	12	11332											
DKK2	27123	hgsc.bcm.edu	37	chr4	107846995	107846995	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagcacatgccatctcGgtggcagcgcttcttttttc	5	12	12	12	2	2	0	0	0	2	0	4	0	2	0	1	4	3	4	1	4	0	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	107846995	G	T	107846995	2	4	206	1	0	0	0	0	0	0	0	1	4545	1124	39	4		4	DKK2	4	107846995	Silent	SNP	G	TCGA-BP-4160-01A-02D-1366-10	1650186	107846995	83307281	13	11333											
NAA15	80155	hgsc.bcm.edu	37	chr4	140280992	140280992	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactccaaatgtgcaaaataCatgctaaaagccaacctgat	18	8	5	10	0	0	1	0	1	0	0	1	1	1	1	3	0	6	2	3	0	8	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	140280992	C	T	140280992	2	4	206	1	0	0	0	0	0	0	0	1	10118	489	17	2		2	NAA15	4	140280992	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10	32433997	140280992	50873284	14	11334											
NAIP	4671	hgsc.bcm.edu	37	chr5	70308462	70308462	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacagcagaagcactgaatcCcagattttaccccagtgaag	14	8	8	11	0	0	4	0	2	0	2	1	4	1	4	3	0	4	2	3	0	5	3	rs147757754	alternate_allele	TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	70308462	C	A	70308462	3	1	206	1	0	0	0	0	1	0	0	0	10147	623	22	4	3986	4	NAIP	5	70308462	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10		70308462	110606798	15	11335											
F2RL1	2150	hgsc.bcm.edu	37	chr5	76129109	76129109	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgaacatcacgacctGtcatgatgttttgcctgagc	8	12	9	12	1	2	3	2	3	0	0	2	4	2	3	3	0	4	1	3	0	1	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	76129109	G	T	76129109	3	4	206	1	0	0	0	0	1	0	0	0	5344	1377	48	4	683	4	F2RL1	5	76129109	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	5820647	76129109	104786151	16	11336											
CSF1R	1436	hgsc.bcm.edu	37	chr5	149436911	149436911	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaagtgaagcaggtccCggagctccaggggccgtcca	9	5	16	11	2	0	2	0	1	0	1	3	4	3	3	4	5	2	2	4	5	2	0	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	149436911	C	A	149436911	3	1	206	1	0	0	0	0	1	0	0	0	3932	652	23	4	684	4	CSF1R	5	149436911	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	73307802	149436911	31478349	17	11337											
CFB	629	hgsc.bcm.edu	37	chr6	31915778	31915778	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggctccatgaacatctacCtggtgctagatggatcagac	11	9	10	11	0	2	3	1	1	1	2	3	4	3	4	2	3	3	2	2	3	3	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	31915778	C	A	31915778	3	1	206	1	0	0	0	0	1	0	0	0	3278	680	24	4	839	4	CFB	6	31915778	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10		31915778	139199289	18	11338											
CDK19	23097	hgsc.bcm.edu	37	chr6	111136336	111136336	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcgccttgaaatcataatCcattgtctgcttcccccata	9	14	4	14	1	2	1	1	1	1	0	5	1	4	1	4	0	1	1	4	0	3	6	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	111136336	C	A	111136336	3	1	206	1	0	0	0	0	1	0	0	0	3135	855	30	4	1556	4	CDK19	6	111136336	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	79220558	111136336	59978731	19	11339											
CDHR3	222256	hgsc.bcm.edu;ucsc.edu	37	chr7	105656408	105656408	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatcctaacaagcccagaaAatgagtttcctctcattttt	13	14	4	10	0	1	2	1	1	1	1	4	2	3	2	3	0	2	1	3	0	5	5	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	105656408	A	G	105656408	3	3	206	1	0	0	0	0	1	0	0	0	3120	14	1	3	1405	3	CDHR3	7	105656408	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10		105656408	53482255	20	11340											
TRPV5	56302	hgsc.bcm.edu;ucsc.edu	37	chr7	142609797	142609797	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagggcaagtccacgtcgtAgttggcaggtgcatcaataa	12	8	13	8	2	1	0	1	0	0	0	3	1	2	0	1	3	1	5	1	3	5	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	142609797	A	G	142609797	3	3	206	1	0	0	0	0	1	0	0	0	16598	420	15	3	562	3	TRPV5	7	142609797	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	36953389	142609797	16528866	21	11341											
EPHA1	2041	hgsc.bcm.edu	37	chr7	143094667	143094667	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcacctggaccggaaaaCgagaatcccaagcagcaagg	14	3	12	12	2	0	1	0	0	0	1	1	4	1	3	3	4	3	3	3	4	5	0	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	143094667	C	T	143094667	3	4	206	1	0	0	0	0	1	0	0	0	5165	536	19	1	1271	1	EPHA1	7	143094667	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	484870	143094667	16043996	22	11342											
ARFGEF1	10565	hgsc.bcm.edu;ucsc.edu	37	chr8	68111228	68111228	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatatctgaaaaactactcCgattcgcagaaaaaatcttc	16	11	5	9	2	2	3	0	2	2	1	5	4	3	3	1	0	2	1	1	0	7	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	68111228	C	T	68111228	3	4	206	1	0	0	0	0	1	0	0	0	852	661	23	1	62	1	ARFGEF1	8	68111228	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10		68111228	78252794	23	11343											
PABPC1	26986	hgsc.bcm.edu	37	chr8	101721692	101721692	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccttctaaaacctacctgtgGgatagctgccatgaagtaac	12	10	8	11	0	1	1	0	1	1	0	1	2	1	2	4	1	5	2	4	1	6	5	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	101721692	G	A	101721692	3	1	206	1	0	0	0	0	1	0	0	0	11363	1232	43	2	698	2	PABPC1	8	101721692	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	33610464	101721692	44642330	24	11344											
JAK2	3717	hgsc.bcm.edu	37	chr9	5072516	5072516	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagccttggccaaggcactTttacaaagatttttaaaggc	14	11	8	8	0	0	1	0	0	0	1	0	1	0	1	2	3	2	1	2	3	6	6	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	5072516	T	C	5072516	3	2	206	1	0	0	0	0	1	0	0	0	7938	1841	64	3	1708	3	JAK2	9	5072516	Missense_Mutation	SNP	T	TCGA-BP-4160-01A-02D-1366-10		5072516	136140915	25	11345			1	15		2	2	45	N	T_C	9.238272e-05
JAK2	3717	hgsc.bcm.edu	37	chr9	5072560	5072560	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaagagaagtaggagactaCggtcaactgcatgaaacaga	17	5	12	7	2	1	4	1	1	0	3	1	7	1	4	0	2	4	2	0	2	6	2	rs146433914	bycluster;by1000genomes	TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	5072560	C	T	5072560	2	4	206	1	0	0	0	0	0	0	0	1	7938	547	19	1		1	JAK2	9	5072560	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10	44	5072560	136140871	26	11346			1	15		2	2	45	N	T_C	9.238272e-05
ADAMTSL1	92949	hgsc.bcm.edu	37	chr9	18906804	18906804	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttccagtcccggcgtgtGgagtgtgtgcatgcccgcac	4	9	15	13	3	0	0	0	0	0	0	2	1	2	1	3	3	2	3	3	3	0	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	18906804	G	A	18906804	2	1	206	1	0	0	0	0	0	0	0	1	274	1335	47	2		2	ADAMTSL1	9	18906804	Silent	SNP	G	TCGA-BP-4160-01A-02D-1366-10	13834244	18906804	122306627	27	11347											
LRRC19	64922	hgsc.bcm.edu;ucsc.edu	37	chr9	26995607	26995607	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgaatgtaattgttcaAatattactgtagtttcttca	14	17	5	5	0	3	1	2	1	1	0	3	1	3	1	0	0	1	4	0	0	7	8	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	26995607	A	T	26995607	3	4	206	1	0	0	0	0	1	0	0	0	8975	14	1	5	91	5	LRRC19	9	26995607	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	8088803	26995607	114217824	28	11348											
VCP	7415	hgsc.bcm.edu;ucsc.edu	37	chr9	35062023	35062023	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcgccgtagagctgggtcaAtgctgttgggtctgttggtt	5	14	15	7	2	2	1	1	0	1	1	3	1	2	1	1	3	2	6	1	3	2	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	35062023	A	T	35062023	3	4	206	1	0	0	0	0	1	0	0	0	17139	101	4	5	1398	5	VCP	9	35062023	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	8066416	35062023	106151408	29	11349											
SLC28A3	64078	hgsc.bcm.edu	37	chr9	86894964	86894964	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccccgaggcgatatcaCgctttctggaaggagccatg	8	8	12	13	3	2	0	1	0	1	0	2	4	2	2	3	3	2	1	3	3	2	2	rs11568398	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	86894964	C	G	86894964	3	3	206	1	0	0	0	0	1	0	0	0	14535	536	19	4	333	4	SLC28A3	9	86894964	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	51832941	86894964	54318467	30	11350											
SFMBT2	57713	hgsc.bcm.edu	37	chr10	7239537	7239537	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaccagcacgcatttgccCggtcccaccgactgaggtag	10	6	11	14	3	0	2	0	1	0	1	1	3	1	2	4	2	3	3	4	2	2	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	7239537	C	A	7239537	2	1	206	1	0	0	0	0	0	0	0	1	14160	639	23	4		4	SFMBT2	10	7239537	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10		7239537	128295210	31	11351											
A1CF	29974	hgsc.bcm.edu	37	chr10	52575931	52575931	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaaagagtaggtatactCtccttgcagcatggtgcccc	9	9	10	13	0	1	1	0	0	1	1	2	1	1	1	4	2	4	4	4	2	4	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	52575931	C	A	52575931	4	1	206	1	0	0	0	0	0	1	0	0	2	922	32	4	828	4	A1CF	10	52575931	Nonsense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	45336394	52575931	82958816	32	11352											
SUFU	51684	hgsc.bcm.edu	37	chr10	104352445	104352445	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacccacagatgcagccCgtgcagacaccctttggggt	9	6	13	13	1	0	2	0	0	0	2	0	4	0	3	3	3	3	2	3	3	0	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	104352445	C	A	104352445	2	1	206	1	0	0	0	0	0	0	0	1	15369	639	23	4		4	SUFU	10	104352445	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10	51776514	104352445	31182302	33	11353											
MTCH2	23788	hgsc.bcm.edu	37	chr11	47644274	47644274	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttttgtagcatgcaccaAcagtctatccaagacgtata	12	13	6	10	1	2	1	0	0	2	1	3	1	3	1	2	0	3	4	2	0	6	6	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	47644274	A	G	47644274	2	3	206	1	0	0	0	0	0	0	0	1	9914	41	2	3		3	MTCH2	11	47644274	Silent	SNP	A	TCGA-BP-4160-01A-02D-1366-10		47644274	87362242	34	11354											
SCYL1	57410	hgsc.bcm.edu	37	chr11	65303520	65303520	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggctttgctgccaccCacaacctctactcaatgaac	9	10	6	16	0	2	1	1	1	1	0	3	1	3	1	4	1	5	2	4	1	4	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	65303520	C	T	65303520	3	4	206	1	0	0	0	0	1	0	0	0	13949	594	21	2	1525	2	SCYL1	11	65303520	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	17659246	65303520	69702996	35	11355											
ITPR2	3709	hgsc.bcm.edu	37	chr12	26784955	26784955	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtaccatctgggtcatcatCtctcccaccccatgaatggt	9	11	7	14	0	4	1	2	1	2	0	6	1	5	1	4	2	1	1	4	2	2	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	26784955	C	T	26784955	2	4	206	1	0	0	0	0	0	0	0	1	7921	912	32	2		2	ITPR2	12	26784955	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10		26784955	107066940	36	11356											
BICD1	636	hgsc.bcm.edu	37	chr12	32481360	32481360	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgtcaaagagcagcggctcgGgagctagcccccatgattga	10	6	13	12	3	1	3	1	2	0	1	2	4	1	4	2	2	4	3	2	2	2	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	32481360	G	C	32481360	2	2	206	1	0	0	0	0	0	0	0	1	1428	1219	43	4		4	BICD1	12	32481360	Silent	SNP	G	TCGA-BP-4160-01A-02D-1366-10	5696405	32481360	101370535	37	11357											
FLT1	2321	hgsc.bcm.edu	37	chr13	28919683	28919683	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagattagacttgtccgAggttcctggagagaaaaaaa	14	9	10	8	1	0	3	0	0	0	3	3	6	3	4	3	2	0	1	3	2	4	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	28919683	A	G	28919683	3	3	206	1	0	0	0	0	1	0	0	0	5941	304	11	3	1822	3	FLT1	13	28919683	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10		28919683	86250195	38	11358											
NALCN	259232	hgsc.bcm.edu	37	chr13	101714442	101714442	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctgcaagctcttccGgatgtccacggaccggtatg	7	9	11	14	3	1	0	0	0	1	0	4	2	4	2	4	3	3	4	4	3	2	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	101714442	G	A	101714442	3	1	206	1	0	0	0	0	1	0	0	0	10148	1115	39	1	599	1	NALCN	13	101714442	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	72794759	101714442	13455436	39	11359											
FAM161B	145483	hgsc.bcm.edu	37	chr14	74411261	74411261	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgggcctcgctgcgctcCatgatctcttggtagagggg	4	11	14	12	3	1	2	0	1	1	1	5	2	2	2	2	4	1	3	2	4	1	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	74411261	C	T	74411261	3	4	206	1	0	0	0	0	1	0	0	0	5473	594	21	2	1269	2	FAM161B	14	74411261	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10		74411261	32938279	40	11360											
TRIP11	9321	hgsc.bcm.edu	37	chr14	92436049	92436049	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtctttcagcacaacccCagcactgttgtcaggtaacg	11	9	9	12	1	3	0	2	0	1	0	3	0	3	0	2	2	4	4	2	2	3	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	92436049	C	T	92436049	3	4	206	1	0	0	0	0	1	0	0	0	16554	594	21	2	35	2	TRIP11	14	92436049	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	18024788	92436049	14913491	41	11361											
EIF5	1983	hgsc.bcm.edu	37	chr14	103803541	103803541	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacatcataaactctgcaCattcattctcaaaaacccac	16	9	1	15	0	4	0	3	0	2	0	5	0	4	0	1	0	3	1	1	0	4	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	103803541	C	A	103803541	3	1	206	1	0	0	0	0	1	0	0	0	5040	478	17	4	430	4	EIF5	14	103803541	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	11367492	103803541	3545999	42	11362											
ATP8B4	79895	hgsc.bcm.edu;ucsc.edu	37	chr15	50215637	50215637	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgaagtttttcaaacAgaatagtatctgctcctttg	13	14	8	6	0	2	2	1	1	1	1	3	3	3	3	1	1	2	3	1	1	6	5	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	50215637	A	T	50215637	3	4	206	1	0	0	0	0	1	0	0	0	1197	188	7	5	1929	5	ATP8B4	15	50215637	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10		50215637	52315755	43	11363											
HMG20A	10363	hgsc.bcm.edu	37	chr15	77756618	77756618	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccatacagtagtggcgcCacatcatccaccaacaatcc	12	8	6	15	1	1	0	1	0	0	0	4	0	4	0	5	1	2	2	5	1	4	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	77756618	C	T	77756618	2	4	206	1	0	0	0	0	0	0	0	1	7221	581	21	2		2	HMG20A	15	77756618	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10	27540981	77756618	24774774	44	11364											
C17orf81	0	hgsc.bcm.edu	37	chr17	7160242	7160242	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaagagcttcatggaccagGccctgtgggagctctcagca	9	8	13	11	0	2	2	2	1	1	1	3	4	2	4	2	3	3	3	2	3	1	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	7160242	G	A	7160242	3	1	206	1	0	0	0	0	1	0	0	0	1886	1203	42	2	542	2	C17orf81	17	7160242	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10		7160242	74034968	45	11365											
CWC25	54883	hgsc.bcm.edu	37	chr17	36959026	36959026	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccttagcatgcctctTgaggatgttcagtctctcct	6	15	7	13	0	4	1	2	1	2	0	7	2	6	2	3	1	2	2	3	1	1	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	36959026	T	C	36959026	3	2	206	1	0	0	0	0	1	0	0	0	4069	1821	63	3	195	3	CWC25	17	36959026	Missense_Mutation	SNP	T	TCGA-BP-4160-01A-02D-1366-10	29798784	36959026	44236184	46	11366											
BRCA1	672	hgsc.bcm.edu	37	chr17	41267787	41267787	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagacaggttccttgatCaactccagactagcagggta	11	9	12	9	0	1	3	1	1	0	2	3	4	3	3	2	3	2	3	2	3	3	4	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	41267787	C	A	41267787	3	1	206	1	0	0	0	0	1	0	0	0	1498	825	29	4	5655	4	BRCA1	17	41267787	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10	4308761	41267787	39927423	47	11367											
ITGB3	3690	hgsc.bcm.edu	37	chr17	45369718	45369719	+	Frame_Shift_Ins	INS	-	-	G																															atgccgttgtgggcctggctINSggctgggatcccagtgtgag																								novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	45369719	-	G	45369718	7	5	206	1	0	1	1	0	0	0	0	0	7895	1580	55	0	1512	0	ITGB3	17	45369718	Frame_Shift_Ins	INS	-	TCGA-BP-4160-01A-02D-1366-10	4101931	45369718	35825492	48	11368											
COG1	9382	hgsc.bcm.edu	37	chr17	71196785	71196785	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtctcgcgggaatccgggAcgccatgtgggagttactta	7	9	16	9	4	1	0	0	0	1	0	3	3	2	3	2	4	1	1	2	4	3	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	71196785	A	G	71196785	3	3	206	1	0	0	0	0	1	0	0	0	3657	275	10	3	1173	3	COG1	17	71196785	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	25827067	71196785	9998425	49	11369											
PTPRM	5797	hgsc.bcm.edu	37	chr18	7955227	7955227	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatgggcccattgtggcccGagaggtggagtactgcacgg	7	7	18	9	2	0	1	0	0	0	1	0	4	0	3	2	6	2	2	2	6	1	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	7955227	G	A	7955227	3	1	206	1	0	0	0	0	1	0	0	0	12808	1058	37	1	973	1	PTPRM	18	7955227	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10		7955227	70122021	50	11370											
ROCK1	6093	hgsc.bcm.edu	37	chr18	18600158	18600158	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taactgcatttcattatgcaGctgttcttccagcttataga	10	16	6	9	0	2	1	1	0	1	1	3	1	3	1	1	0	5	5	1	0	4	7	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	18600158	G	A	18600158	2	1	206	1	0	0	0	0	0	0	0	1	13519	962	34	2		2	ROCK1	18	18600158	Silent	SNP	G	TCGA-BP-4160-01A-02D-1366-10	10644931	18600158	59477090	51	11371											
DAPK3	1613	hgsc.bcm.edu	37	chr19	3964716	3964716	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgggtggcctcgtcctcCgtcagcgactccttctccgc	4	10	10	17	4	2	0	1	0	1	0	7	1	5	0	5	2	2	0	5	2	1	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	3964716	C	T	3964716	2	4	206	1	0	0	0	0	0	0	0	1	4237	639	23	1		1	DAPK3	19	3964716	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10		3964716	55164267	52	11372											
LDLR	3949	hgsc.bcm.edu;ucsc.edu	37	chr19	11217289	11217289	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgctctgatggaaactGcatccatggcagccggcagt	9	8	12	12	1	1	1	0	1	1	0	2	2	2	2	3	3	4	4	3	3	1	0	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	11217289	G	A	11217289	3	1	206	1	0	0	0	0	1	0	0	0	8704	1319	46	2	761	2	LDLR	19	11217289	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	7252573	11217289	47911694	53	11373											
PRMT1	3276	hgsc.bcm.edu	37	chr19	50187293	50187293	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttctacgagtccatgctCaacaccgtgctctatgcccg	7	11	7	16	3	4	0	1	0	3	0	5	1	5	0	3	0	5	2	3	0	3	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	50187293	C	T	50187293	2	4	206	1	0	0	0	0	0	0	0	1	12537	813	29	2		2	PRMT1	19	50187293	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10	38970004	50187293	8941690	54	11374											
PTPRA	5786	hgsc.bcm.edu	37	chr20	3016252	3016252	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagtgtgcccagtactggCcatctgatggactggtgtcc	8	10	13	10	0	1	2	0	1	1	1	2	3	2	3	3	3	2	1	3	3	2	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	3016252	C	A	3016252	3	1	206	1	0	0	0	0	1	0	0	0	12797	739	26	4	2012	4	PTPRA	20	3016252	Missense_Mutation	SNP	C	TCGA-BP-4160-01A-02D-1366-10		3016252	60009268	55	11375											
UMODL1	89766	hgsc.bcm.edu;ucsc.edu	37	chr21	43547853	43547853	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaggcccagttcaagctgaGgatcttttcctttatcaacg	10	13	8	10	1	3	1	2	1	1	0	4	2	4	2	2	2	2	2	2	2	4	6	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	43547853	G	C	43547853	3	2	206	1	0	0	0	0	1	0	0	0	16979	1000	35	4	4060	4	UMODL1	21	43547853	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10		43547853	4582042	56	11376											
USP18	11274	hgsc.bcm.edu	37	chr22	18640565	18640565	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagcccagagagcgtccCagggcctgggactaccctca	9	4	13	15	1	1	1	1	0	0	1	2	4	2	2	4	2	4	1	4	2	1	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	18640565	C	T	18640565	2	4	206	1	0	0	0	0	0	0	0	1	17048	581	21	2		2	USP18	22	18640565	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10		18640565	32664001	57	11377											
CABIN1	23523	hgsc.bcm.edu	37	chr22	24434873	24434873	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaggagtctgccaaagcCtaccatgagctcttggaggc	9	10	12	10	0	2	2	0	2	2	0	2	4	2	4	3	3	4	1	3	3	2	3	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	24434873	C	A	24434873	2	1	206	1	0	0	0	0	0	0	0	1	2528	668	24	4		4	CABIN1	22	24434873	Silent	SNP	C	TCGA-BP-4160-01A-02D-1366-10	5794308	24434873	26869693	58	11378											
MKL1	57591	hgsc.bcm.edu;ucsc.edu	37	chr22	40825689	40825689	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggccaggcctctgtgcAatcttctcattgaggtcatc	7	12	11	11	0	4	1	2	1	3	0	6	1	4	1	2	4	1	1	2	4	1	2	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	40825689	A	C	40825689	3	2	206	1	0	0	0	0	1	0	0	0	9601	126	5	5	2609	5	MKL1	22	40825689	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	16390816	40825689	10478877	59	11379											
NDUFA6	4700	hgsc.bcm.edu;ucsc.edu	37	chr22	42482291	42482291	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccgctgcttccatacttTaattgtttcttccagttcga	6	18	6	11	2	1	0	0	0	1	0	5	1	4	0	3	0	2	4	3	0	2	8	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		C	42482291	T	C	42482291	3	2	206	1	0	0	0	0	1	0	0	0	10269	1763	61	3	107	3	NDUFA6	22	42482291	Missense_Mutation	SNP	T	TCGA-BP-4160-01A-02D-1366-10	1656602	42482291	8822275	60	11380											
ARSD	414	hgsc.bcm.edu	37	chrX	2833631	2833631	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcctccacattatcaccAtataagccatgctgactttt	11	14	3	13	0	2	1	1	1	1	0	4	1	3	1	4	0	2	1	4	0	3	5	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	2833631	A	G	2833631	2	3	206	1	0	0	0	0	0	0	0	1	989	224	8	3		3	ARSD	23	2833631	Silent	SNP	A	TCGA-BP-4160-01A-02D-1366-10		2833631	152436929	61	11381											
OTC	5009	hgsc.bcm.edu	37	chrX	38211976	38211976	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaatctgaggatcctgttAaacaatgcagcttttagaaa	14	14	7	6	0	1	2	0	1	1	1	2	3	2	3	1	1	3	3	1	1	6	5	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		T	38211976	A	T	38211976	3	4	206	1	0	0	0	0	1	0	0	0	11301	359	13	5	29	5	OTC	23	38211976	Missense_Mutation	SNP	A	TCGA-BP-4160-01A-02D-1366-10	35378345	38211976	117058584	62	11382											
USP9X	8239	hgsc.bcm.edu	37	chrX	41047253	41047253	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatcttgcaggcttcaagAtatatgcctgatatttgtgt	9	17	9	6	0	2	2	1	1	1	1	2	2	2	2	1	1	2	3	1	1	5	7	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		G	41047253	A	G	41047253	2	3	206	1	0	0	0	0	0	0	0	1	17089	330	12	3		3	USP9X	23	41047253	Silent	SNP	A	TCGA-BP-4160-01A-02D-1366-10	2835277	41047253	114223307	63	11383											
GAGE10	643832	hgsc.bcm.edu	37	chrX	49173729	49173729	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgatggccaggagatggGcctgccaaatccagaggagg	10	6	15	10	0	0	3	0	1	0	2	2	5	2	4	5	5	1	0	5	5	1	0	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	49173729	G	A	49173729	3	1	206	1	0	0	0	0	1	0	0	0	6187	1203	42	2	300	2	GAGE10	23	49173729	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	8126476	49173729	106096831	64	11384											
CCNB3	85417	hgsc.bcm.edu;ucsc.edu	37	chrX	50052672	50052672	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccactcaggggacaatGtcccacttgaagaaaccact	13	7	8	13	0	1	2	1	1	0	1	2	3	2	3	3	2	2	0	3	2	3	1	novel		TCGA-BP-4160-01A-02D-1366-10	TCGA-BP-4160-11A-01D-1806-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	91fc0b5e-0cb8-48f8-94c0-abf7e668e965	5a1faf3e-afc7-4b3e-880d-5a767db34ab5		A	50052672	G	A	50052672	3	1	206	1	0	0	0	0	1	0	0	0	2914	1377	48	2	1517	2	CCNB3	23	50052672	Missense_Mutation	SNP	G	TCGA-BP-4160-01A-02D-1366-10	878943	50052672	105217888	65	11385											
SEPN1	57190	broad.mit.edu;hgsc.bcm.edu	37	chr1	26138019	26138019	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggtggacatcggctacaTaccccaggtgagcgcacagg	10	5	15	11	2	0	1	0	1	0	0	1	3	0	3	2	6	3	2	2	6	2	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	26138019	T	C	26138019	3	2	207	1	0	0	0	0	1	0	0	0	14058	1406	49	3	1115	3	SEPN1	1	26138019	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10		26138019	223112602	1	11386											
FNBP1L	54874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	93987691	93987691	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccaaagatgaagagccaCggtaaattacatacctgttc	15	9	7	10	1	0	3	0	1	0	2	2	3	1	3	3	1	3	2	3	1	6	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	93987691	C	T	93987691	3	4	207	1	0	0	0	0	1	0	0	0	5966	550	19	1	203	1	FNBP1L	1	93987691	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	67849672	93987691	155262930	2	11387											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu	37	chr1	144931265	144931265	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggcagctgtgtggctcctgGatctgatcctcattctccac	5	13	10	13	0	3	1	1	1	2	0	6	2	5	2	3	3	1	3	3	3	0	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	144931265	G	A	144931265	2	1	207	1	0	0	0	0	0	0	0	1	11643	1164	41	2		2	PDE4DIP	1	144931265	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	50943574	144931265	104319356	3	11388											
ZNF687	57592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151259628	151259628	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcagcccttgaaggaagaAgatgatgatgaggggccagt	12	8	15	6	0	1	6	1	4	0	2	1	7	1	7	2	3	1	0	2	3	3	1	rs149043825		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	151259628	A	T	151259628	3	4	207	1	0	0	0	0	1	0	0	0	18091	69	3	5	863	5	ZNF687	1	151259628	Missense_Mutation	SNP	A	TCGA-BP-4161-01A-02D-1386-10	6328363	151259628	97990993	4	11389											
SLAMF1	6504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160607007	160607007	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcaactgcaggcaaaagCgctgaactgaaacatttttc	13	9	8	11	1	1	2	1	2	0	0	2	2	1	2	1	1	5	3	1	1	5	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	160607007	C	T	160607007	3	4	207	1	0	0	0	0	1	0	0	0	14369	768	27	1	642	1	SLAMF1	1	160607007	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	9347379	160607007	88643614	5	11390											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	216052254	216052254	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaactctctgtgcaccctcCaaggtacccattaccccctg	9	10	5	17	0	1	0	0	0	1	0	3	0	2	0	5	1	4	2	5	1	5	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	216052254	C	T	216052254	3	4	207	1	0	0	0	0	1	0	0	0	17035	603	21	2	7322	2	USH2A	1	216052254	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	55445247	216052254	33198367	6	11391											
OR2G2	81470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247752125	247752125	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atctatggcatggctcagtgGaatagccaccaccctggtac	10	9	10	12	0	2	0	1	0	1	0	2	1	2	1	3	4	2	3	3	4	4	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	247752125	G	A	247752125	3	1	207	1	0	0	0	0	1	0	0	0	10998	1174	41	2	466	2	OR2G2	1	247752125	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	31699871	247752125	1498496	7	11392											
EPAS1	2034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	46605874	46605874	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgagaagctcttcgccatgGacacagaggccaaggaccaa	13	6	11	11	1	1	2	0	1	1	2	2	5	1	4	3	3	1	1	3	3	3	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	46605874	G	A	46605874	3	1	207	1	0	0	0	0	1	0	0	0	5150	1174	41	2	1564	2	EPAS1	2	46605874	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10		46605874	196593499	8	11393											
MEIS1	4211	hgsc.bcm.edu	37	chr2	66739382	66739383	+	Frame_Shift_Ins	INS	-	-	T																															gcgtggcatctttcccaaagINStagccacaaatatcatgagg																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	66739383	-	T	66739382	7	5	207	1	0	1	1	0	0	0	0	0	9467	1029	36	0	874	0	MEIS1	2	66739382	Frame_Shift_Ins	INS	-	TCGA-BP-4161-01A-02D-1386-10	20133508	66739382	176459991	9	11394											
ANKRD36	375248	hgsc.bcm.edu	37	chr2	97883055	97883055	+	Frame_Shift_Del	DEL	G	G	-																															aggttatatttaaaaagaaaGtttctcttttgaatattgcc																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	97883055	G	-	97883055	7	5	207	1	0	1	0	1	0	0	0	0	665	1029	36	0	4053	0	ANKRD36	2	97883055	Frame_Shift_Del	DEL	G	TCGA-BP-4161-01A-02D-1386-10	31143673	97883055	145316318	10	11395											
BAZ2B	29994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160194250	160194250	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaaaatataccaagtcctCcctttctgatgcaggctctg	10	13	6	12	0	3	1	1	1	2	0	5	1	5	1	3	1	2	2	3	1	5	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	160194250	C	A	160194250	4	1	207	1	0	0	0	0	0	1	0	0	1332	864	30	4	1042	4	BAZ2B	2	160194250	Nonsense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	62311195	160194250	83005123	11	11396											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	169995117	169995117	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgtcaatagcagtctcAggtccaaaaccagacactcc	13	7	7	14	0	2	1	2	0	1	1	5	2	4	1	4	1	2	1	4	1	4	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	169995117	A	C	169995117	2	2	207	1	0	0	0	0	0	0	0	1	8956	175	7	5		5	LRP2	2	169995117	Silent	SNP	A	TCGA-BP-4161-01A-02D-1386-10	9800867	169995117	73204256	12	11397											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179457765	179457765	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttagatcgactgaattgCatgttgtatctattgcttca	11	16	8	6	1	2	2	1	1	1	1	3	3	2	2	0	0	2	5	0	0	5	7	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	179457765	C	A	179457765	3	1	207	1	0	0	0	0	1	0	0	0	16734	710	25	4	49150	4	TTN	2	179457765	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	9462648	179457765	63741608	13	11398											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47079180	47079181	+	Frame_Shift_Ins	INS	-	-	G																															tggggttttcatcatatgttINSggagttcccaggtccatctc																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	-	-	-	G	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	47079181	-	G	47079180	7	5	207	1	0	1	1	0	0	0	0	0	14133	1799	63	0	384	0	SETD2	3	47079180	Frame_Shift_Ins	INS	-	TCGA-BP-4161-01A-02D-1386-10		47079180	150943250	14	11399											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52702514	52702514	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatttcataatttcttacCttataataggactttgcatt	13	18	3	7	0	2	0	1	0	1	0	2	1	2	1	1	1	2	1	1	1	6	9	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	52702514	C	T	52702514	2	4	207	1	0	0	0	0	0	0	0	1	11491	695	24	2		2	PBRM1	3	52702514	Silent	SNP	C	TCGA-BP-4161-01A-02D-1386-10	5623334	52702514	145319916	15	11400											
CEP97	79598	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	101476746	101476746	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaacttgggcctagaagaTgatggtgttgcagatgaatc	12	12	12	5	0	0	5	0	2	0	3	1	5	0	5	1	2	2	2	1	2	4	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	101476746	T	C	101476746	2	2	207	1	0	0	0	0	0	0	0	1	3263	1461	51	3		3	CEP97	3	101476746	Silent	SNP	T	TCGA-BP-4161-01A-02D-1386-10	48774232	101476746	96545684	16	11401											
MUC4	4585	broad.mit.edu	37	chr3	195509180	195509180	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgaggaaaggctggtgaCaggaagaggggtggcgtgac	11	6	19	5	1	0	4	0	3	0	1	0	6	0	6	0	7	1	1	0	7	3	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	195509180	G	G	195509180	3	3	207	1	0	0	0	0	1	0	0	0	9978	478	17	4		4	MUC4	3	195509180	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	94032434	195509180	2513250	17	11402											
MUC7	4589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71346891	71346891	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccatatcttcaagagaaAatgttaacacaagctcttct	15	11	4	11	0	4	1	1	0	3	1	4	2	4	1	2	0	2	2	2	0	6	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	71346891	A	T	71346891	3	4	207	1	0	0	0	0	1	0	0	0	9981	14	1	5	436	5	MUC7	4	71346891	Missense_Mutation	SNP	A	TCGA-BP-4161-01A-02D-1386-10		71346891	119807385	18	11403											
SDAD1	55153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	76897076	76897076	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagacagaagagtacttaCtacattcactttattgttct	13	14	7	7	0	2	3	1	0	1	3	2	4	2	4	0	1	3	2	0	1	6	8	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	76897076	C	T	76897076	5	4	207	1	0	0	0	0	0	0	1	0	13952	579	20	2	1657	2	SDAD1	4	76897076	Splice_Site	SNP	C	TCGA-BP-4161-01A-02D-1386-10	5550185	76897076	114257200	19	11404											
ANKRD50	57182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	125631530	125631530	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggtgcattgacagcaCtattgcagcagttacttttc	9	14	10	8	0	0	2	0	2	0	0	1	2	0	2	0	1	5	5	0	1	2	6	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	125631530	C	G	125631530	3	3	207	1	0	0	0	0	1	0	0	0	677	565	20	4	4164	4	ANKRD50	4	125631530	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	48734454	125631530	65522746	20	11405											
PALLD	23022	broad.mit.edu	37	chr4	169433483	169433483	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacctcgattcatccaaaaGctgaggagccaagaagtagc	14	6	10	11	1	1	2	1	1	0	1	3	4	2	3	3	1	3	3	3	1	5	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	169433483	C	C	169433483	3	2	207	1	0	0	0	0	1	0	0	0	11407	962	34	4	830	4	PALLD	4	169433483	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	43801953	169433483	21720793	21	11406											
PCDHGB7	56099	broad.mit.edu	37	chr5	140797646	140797646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgagcgcggagaagctgCacttcagcgtagacgcgcag	10	5	16	10	5	1	3	1	1	0	2	1	5	1	3	0	1	4	4	0	1	2	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	140797646	T	T	140797646	3	4	207	1	0	0	0	0	1	0	0	0	11568	710	25	2	222	2	PCDHGB7	5	140797646	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10		140797646	40117614	22	11407											
PCDHGC5	56097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140869478	140869478	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggaccccagcccgctcagGgaccacccttatctctgtca	7	7	10	17	1	3	0	2	0	1	0	4	2	3	2	5	3	1	1	5	3	1	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	140869478	G	T	140869478	3	4	207	1	0	0	0	0	1	0	0	0	11571	1232	43	4	673	4	PCDHGC5	5	140869478	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	71832	140869478	40045782	23	11408											
PDGFRB	5159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149505045	149505045	+	Silent	SNP	G	G	A																															cgcggcagctcccacgtggaGtcatagggcagctgcatggg																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	149505045	G	A	149505045	2	1	207	1	0	0	0	0	0	0	0	1	11662	1020	36	2		2	PDGFRB	5	149505045	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	8635567	149505045	31410215	24	11409	171	2									
PDGFRB	5159	broad.mit.edu;ucsc.edu	37	chr5	149505046	149505046	+	Missense_Mutation	SNP	T	G	G																															gcggcagctcccacgtggagTcatagggcagctgcatgggg																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	149505046	G	G	149505046	3	3	207	1	0	0	0	0	1	0	0	0	11662	1667	58	5	1599	5	PDGFRB	5	149505046	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10	1	149505046	31410214	25	11410	171	2									
MAPK9	5601	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179668101	179668101	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttcgtctacagagatcCgcttgtcaggatcaatcact	10	11	9	11	2	4	1	3	0	1	1	6	4	5	2	1	1	2	2	1	1	2	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	179668101	C	T	179668101	3	4	207	1	0	0	0	0	1	0	0	0	9287	652	23	1	369	1	MAPK9	5	179668101	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	30163055	179668101	1247159	26	11411											
NUP153	9972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	17624932	17624932	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaataatgctgtggaagatGatatagatccaaagcctggg	15	9	12	5	0	0	3	0	1	0	2	1	5	1	4	2	2	2	1	2	2	6	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	17624932	G	A	17624932	3	1	207	1	0	0	0	0	1	0	0	0	10755	1294	45	2	405	2	NUP153	6	17624932	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10		17624932	153490135	27	11412											
KIF13A	63971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	17783914	17783914	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactggtatgtgggtttcCattccaggaggtgggatcct	8	12	14	7	0	0	1	0	0	0	1	3	3	3	3	3	5	1	2	3	5	2	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	17783914	C	T	17783914	3	4	207	1	0	0	0	0	1	0	0	0	8274	594	21	2	1979	2	KIF13A	6	17783914	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	158982	17783914	153331153	28	11413											
DPCR1	135656	broad.mit.edu;hgsc.bcm.edu	37	chr6	30917885	30917885	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaatagagaaaggacagcCaatgagaagaccacaccatc	20	3	9	9	0	0	3	0	1	0	3	1	7	0	4	3	1	1	0	3	1	6	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	30917885	C	G	30917885	2	3	207	1	0	0	0	0	0	0	0	1	4712	581	21	4		4	DPCR1	6	30917885	Silent	SNP	C	TCGA-BP-4161-01A-02D-1386-10	13133971	30917885	140197182	29	11414											
VARS	7407	broad.mit.edu	37	chr6	31752484	31752485	+	Frame_Shift_Del	DEL	GA	-	-																															aggcctctgtcacagctgctGagagtttctggggtggagga																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	31752485	-	-	31752484	7	5	207	1	0	1	0	1	0	0	0	0	17122	1294	45	0	2519	0	VARS	6	31752484	Frame_Shift_Del	DEL	GA	TCGA-BP-4161-01A-02D-1386-10	834599	31752484	139362583	30	11415											
UBR2	23304	hgsc.bcm.edu;ucsc.edu	37	chr6	42626515	42626515	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaacaaagaactctttcaGcagacattagaactggatgc	17	8	8	8	0	2	3	1	0	1	3	2	5	2	4	0	1	5	1	0	1	6	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	42626515	G	T	42626515	3	4	207	1	0	0	0	0	1	0	0	0	16901	962	34	4	3455	4	UBR2	6	42626515	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	10874031	42626515	128488552	31	11416											
RIMS1	22999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	73001656	73001656	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaatgcaccgacagagaagtCcaacacaatctcctccagca	15	5	7	14	1	1	1	0	0	1	1	4	4	3	1	4	0	3	2	4	0	4	0	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	73001656	C	G	73001656	3	3	207	1	0	0	0	0	1	0	0	0	13369	855	30	4	4022	4	RIMS1	6	73001656	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	30375141	73001656	98113411	32	11417											
MAD1L1	8379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	2255571	2255571	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgcatcttctcctggcgCcccagcttcctctgcagccc	3	11	7	20	1	3	0	0	0	3	0	6	0	5	0	6	1	4	3	6	1	0	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	2255571	C	T	2255571	2	4	207	1	0	0	0	0	0	0	0	1	9147	726	26	2		2	MAD1L1	7	2255571	Silent	SNP	C	TCGA-BP-4161-01A-02D-1386-10		2255571	156883092	33	11418											
CDK13	8621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	40134281	40134281	+	Frame_Shift_Del	DEL	C	C	-																															tggagacatttacctcaatgCtggtcccatgttgtttagtg																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	40134281	C	-	40134281	7	5	207	1	0	1	0	1	0	0	0	0	3129	797	28	0	4295	0	CDK13	7	40134281	Frame_Shift_Del	DEL	C	TCGA-BP-4161-01A-02D-1386-10	37878710	40134281	119004382	34	11419											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82582155	82582155	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctaaatgtatgttatctAgagcaagaggctctggagga	12	12	11	6	0	3	2	0	0	3	2	4	4	3	4	0	3	1	4	0	3	6	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	82582155	A	G	82582155	3	3	207	1	0	0	0	0	1	0	0	0	11583	420	15	3	7415	3	PCLO	7	82582155	Missense_Mutation	SNP	A	TCGA-BP-4161-01A-02D-1386-10	42447874	82582155	76556508	35	11420											
TFR2	7036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100238672	100238672	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgctgccgcccagggaatGaggtttggctgcctgggtct	4	10	15	12	1	1	1	0	1	1	0	1	2	1	2	4	4	3	3	4	4	1	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	100238672	G	A	100238672	2	1	207	1	0	0	0	0	0	0	0	1	15810	1277	45	2		2	TFR2	7	100238672	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	17656517	100238672	58899991	36	11421											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	86044062	86044062	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccttagctaaagaaataGccaaagaagagaaaaagcat	21	6	8	6	0	0	3	0	0	0	3	0	4	0	3	2	0	4	2	2	0	9	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	86044062	G	T	86044062	3	4	207	1	0	0	0	0	1	0	0	0	9026	971	34	4	1880	4	LRRCC1	8	86044062	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10		86044062	60319960	37	11422											
C8orf47	203111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	99101674	99101674	+	Frame_Shift_Del	DEL	A	A	-																															gggacagaggccgagtctctAaaaggaaatgctgaagctca																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	99101674	A	-	99101674	7	5	207	1	0	1	0	1	0	0	0	0	2432	349	13	0	435	0	C8orf47	8	99101674	Frame_Shift_Del	DEL	A	TCGA-BP-4161-01A-02D-1386-10	13057612	99101674	47262348	38	11423											
SMARCA2	6595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2039524	2039524	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcacgtctccagccctatGtctggaggaggcccaactcc	8	7	11	15	1	2	0	0	0	2	0	4	3	3	2	4	3	3	1	4	3	2	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	2039524	G	A	2039524	3	1	207	1	0	0	0	0	1	0	0	0	14771	1377	48	2	424	2	SMARCA2	9	2039524	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10		2039524	139173907	39	11424											
UNC13B	10497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35310690	35310690	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaaggaggcagcatgtGaacccaaggagatgaaagaa	18	3	14	6	0	0	5	0	2	0	3	0	8	0	6	1	3	2	2	1	3	5	0	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	35310690	G	T	35310690	4	4	207	1	0	0	0	0	0	1	0	0	16984	1291	45	4	1022	4	UNC13B	9	35310690	Nonsense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	33271166	35310690	105902741	40	11425											
FAM166A	401565	broad.mit.edu	37	chr9	140140165	140140165	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggactggctgaagtccTcaatgaacttgggtttggac	8	12	13	8	0	1	2	1	2	0	0	2	4	2	4	1	4	1	3	1	4	3	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	140140165	C	C	140140165	3	2	207	1	0	0	0	0	1	0	0	0	5481	1551	54	3	780	3	FAM166A	9	140140165	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10	104829475	140140165	1073266	41	11426											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55568846	55568846	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcacaatgtttttccttGctttttctccttctgactct	6	19	4	12	0	3	1	0	1	3	0	5	1	4	1	2	0	2	3	2	0	2	6	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	55568846	G	A	55568846	3	1	207	1	0	0	0	0	1	0	0	0	11511	1319	46	2	952	2	PCDH15	10	55568846	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10		55568846	79965901	42	11427											
ANK3	288	hgsc.bcm.edu;ucsc.edu	37	chr10	61831858	61831858	+	Frame_Shift_Del	DEL	T	T	-																															acatattccctatataagacTtttttggagggagattttac																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	61831858	T	-	61831858	7	5	207	1	0	1	0	1	0	0	0	0	622	1606	56	0	4693	0	ANK3	10	61831858	Frame_Shift_Del	DEL	T	TCGA-BP-4161-01A-02D-1386-10	6263012	61831858	73702889	43	11428											
PTEN	5728	broad.mit.edu	37	chr10	89725042	89725042	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttaaattttctttctctAggtgaagctgtacttcacaa	11	18	5	7	0	3	1	1	1	2	0	4	1	3	1	0	1	2	2	0	1	6	8	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	89725042	G	G	89725042	5	3	207	1	0	0	0	0	0	0	1	0	12740	434	15	3	1059	3	PTEN	10	89725042	Splice_Site	SNP	A	TCGA-BP-4161-01A-02D-1386-10	27893184	89725042	45809705	44	11429											
TDRD1	56165	broad.mit.edu;ucsc.edu	37	chr10	115962900	115962900	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataatgttttctgatttgAgaagtctacaactcaagaaa	16	13	7	5	0	3	3	1	2	2	2	3	5	3	3	0	0	2	1	0	0	7	5	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	115962900	T	T	115962900	4	4	207	1	0	0	0	0	0	1	0	0	15729	296	11	5	788	5	TDRD1	10	115962900	Nonsense_Mutation	SNP	A	TCGA-BP-4161-01A-02D-1386-10	26237858	115962900	19571847	45	11430											
ATRNL1	26033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	116880014	116880014	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaatataaaactaaatgtaCttggctcattgaaggctagt	16	13	7	5	0	1	1	1	1	0	0	1	1	1	1	0	2	2	3	0	2	10	8	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	116880014	C	A	116880014	3	1	207	1	0	0	0	0	1	0	0	0	1207	565	20	4	365	4	ATRNL1	10	116880014	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	917114	116880014	18654733	46	11431											
SLC2A3	6515	broad.mit.edu;hgsc.bcm.edu	37	chr12	8083142	8083142	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggactttcagggcaaaatgGaagggctgcactttgtagga	11	9	15	6	0	1	0	1	0	0	0	1	3	1	3	0	5	1	4	0	5	4	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	8083142	G	T	8083142	3	4	207	1	0	0	0	0	1	0	0	0	14547	1174	41	4	907	4	SLC2A3	12	8083142	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10		8083142	125768753	47	11432											
PIK3C2G	5288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	18762521	18762521	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttagtcatatcctacgaGgatgtgaagctgaccatact	12	11	9	9	1	1	2	1	2	0	0	2	4	2	3	2	1	3	2	2	1	5	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	18762521	G	A	18762521	2	1	207	1	0	0	0	0	0	0	0	1	11911	991	35	2		2	PIK3C2G	12	18762521	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	10679379	18762521	115089374	48	11433											
SLCO1B3	28234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21032479	21032479	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattttcatttcttacttcGatgatatccttcttgtttca	9	21	3	8	1	4	1	2	1	2	0	6	2	5	1	1	0	1	1	1	0	3	9	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	21032479	G	T	21032479	2	4	207	1	0	0	0	0	0	0	0	1	14726	1045	37	4		4	SLCO1B3	12	21032479	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	2269958	21032479	112819416	49	11434											
COL2A1	1280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48369167	48369167	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggttcttgcgggagccCtcggggctgcggatgctctc	3	9	17	12	3	2	0	0	0	2	0	4	2	2	2	1	5	4	4	1	5	0	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	48369167	C	A	48369167	3	1	207	1	0	0	0	0	1	0	0	0	3687	680	24	4	660	4	COL2A1	12	48369167	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	27336688	48369167	85482728	50	11435											
PRPH	5630	broad.mit.edu;ucsc.edu	37	chr12	49690246	49690246	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactctgtcccgcctggAactagagcgcaagattgagt	9	9	11	12	2	1	3	0	1	1	2	2	4	2	4	3	1	3	1	3	1	3	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	49690246	G	G	49690246	3	3	207	1	0	0	0	0	1	0	0	0	12578	246	9	3	648	3	PRPH	12	49690246	Missense_Mutation	SNP	A	TCGA-BP-4161-01A-02D-1386-10	1321079	49690246	84161649	51	11436											
BIN2	51411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51690950	51690950	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacatagcagccaatacgacTattaggaagcaaaaccacaa	19	5	6	11	1	0	0	0	0	0	0	0	2	0	1	2	1	5	2	2	1	9	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	51690950	T	A	51690950	5	1	207	1	0	0	0	0	0	0	1	0	1433	1536	53	5	1120	5	BIN2	12	51690950	Splice_Site	SNP	T	TCGA-BP-4161-01A-02D-1386-10	2000704	51690950	82160945	52	11437											
MED13L	23389	broad.mit.edu;ucsc.edu	37	chr12	116549250	116549250	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacctttctaacagattgtgGatcgctttgaagagcagcgt	10	13	10	8	2	1	3	0	1	1	2	2	4	1	4	1	1	4	2	1	1	3	5	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	116549250	T	T	116549250	2	4	207	1	0	0	0	0	0	0	0	1	9431	1164	41	4		4	MED13L	12	116549250	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	64858300	116549250	17302645	53	11438											
TESC	54997	hgsc.bcm.edu;ucsc.edu	37	chr12	117513065	117513065	+	RNA	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagcacccaaacccgctGccaatcttaccgaatggtag	12	6	7	16	2	1	0	0	0	1	0	1	1	1	0	5	1	4	3	5	1	5	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	117513065	G	T	117513065	1	4	207	0	1	0	0	0	0	0	0	0	15765	1334	46	4		4	TESC	12	117513065	RNA	SNP	G	TCGA-BP-4161-01A-02D-1386-10	963815	117513065	16338830	54	11439											
CDX2	1045	broad.mit.edu	37	chr13	28542702	28542703	+	Frame_Shift_Ins	INS	-	G	G																															tcggcggcagcggtggcggcINSgggcccaggagggccggggt																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	28542703	G	G	28542702	7	5	207	1	0	1	1	0	0	0	0	0	3183	768	27	0	511	0	CDX2	13	28542702	Frame_Shift_Ins	INS	-	TCGA-BP-4161-01A-02D-1386-10		28542702	86627176	55	11440											
ELF1	1997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41515228	41515228	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaaacttctgatggttgtGcaacttccacaggatctttg	10	14	8	9	0	3	1	1	1	2	0	4	2	4	2	1	2	3	2	1	2	3	4	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	41515228	G	A	41515228	3	1	207	1	0	0	0	0	1	0	0	0	5053	1319	46	2	782	2	ELF1	13	41515228	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	12972526	41515228	73654650	56	11441											
MYBBP1A	10514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4442824	4442824	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgtgccagcgcggacagTggtgatttgcccaagacccc	7	8	12	14	3	0	2	0	1	0	1	1	3	1	3	5	2	3	0	5	2	1	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	4442824	T	A	4442824	2	1	207	1	0	0	0	0	0	0	0	1	10008	1683	59	5		5	MYBBP1A	17	4442824	Silent	SNP	T	TCGA-BP-4161-01A-02D-1386-10		4442824	76752386	57	11442											
POLR2A	5430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7415174	7415174	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggccctggagcgggagctGtaccacgtcatctcctttga	8	9	12	12	2	2	1	1	1	1	0	3	3	2	3	3	3	3	2	3	3	2	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	7415174	G	T	7415174	2	4	207	1	0	0	0	0	0	0	0	1	12214	1364	48	4		4	POLR2A	17	7415174	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	2972350	7415174	73780036	58	11443											
GPR179	440435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36499492	36499492	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctccagagtagagataagCgagggcggcctcggccccct	9	6	13	13	3	1	2	0	0	1	2	3	4	1	2	4	3	1	1	4	3	2	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	36499492	C	T	36499492	3	4	207	1	0	0	0	0	1	0	0	0	6674	768	27	1	6966	1	GPR179	17	36499492	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	29084318	36499492	44695718	59	11444											
MUM1	84939	hgsc.bcm.edu;ucsc.edu	37	chr19	1369580	1369580	+	RNA	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacacagtgctctctcccCtccaccccctgcaggctgcg	5	9	7	20	1	2	0	0	0	2	0	5	0	4	0	5	1	4	3	5	1	1	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	1369580	C	T	1369580	1	4	207	0	1	0	0	0	0	0	0	0	9985	696	24	2		2	MUM1	19	1369580	RNA	SNP	C	TCGA-BP-4161-01A-02D-1386-10		1369580	57759403	60	11445											
FBN3	84467	broad.mit.edu;ucsc.edu	37	chr19	8201371	8201371	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattcagacacaggttggTgaagtgtcggcagatgtcaa	11	9	13	8	1	2	3	2	1	0	2	3	3	2	3	1	3	0	2	1	3	2	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	8201371	G	G	8201371	3	3	207	1	0	0	0	0	1	0	0	0	5704	1696	59	5	7399	5	FBN3	19	8201371	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10	6831791	8201371	50927612	61	11446											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8998753	8998753	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttcccaggtccactgtgggGgtcccaggaactgaggagaa	9	7	15	10	0	0	2	0	1	0	1	3	4	3	3	3	5	1	1	3	5	2	1	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	8998753	G	T	8998753	2	4	207	1	0	0	0	0	0	0	0	1	9973	1219	43	4		4	MUC16	19	8998753	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	797382	8998753	50130230	62	11447											
WIZ	58525	broad.mit.edu	37	chr19	15559003	15559003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accggaagatgccaccttccCcctcagcagcttcggcccca	8	6	8	19	2	1	1	1	0	0	1	3	2	2	2	7	2	3	2	7	2	1	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	15559003	T	T	15559003	3	4	207	1	0	0	0	0	1	0	0	0	17374	623	22	2	2296	2	WIZ	19	15559003	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10	6560250	15559003	43569980	63	11448											
RASAL3	64926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15565475	15565475	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagcacctacggggcacGgttggcgaggttctggatga	7	8	15	11	3	1	1	0	1	1	0	2	3	2	2	2	6	2	4	2	6	1	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	15565475	G	A	15565475	3	1	207	1	0	0	0	0	1	0	0	0	13067	1116	39	1	1112	1	RASAL3	19	15565475	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	6472	15565475	43563508	64	11449											
LYPD3	27076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43969649	43969649	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcagcagacccacctccGcgaagcagcagcagcagcag	11	1	13	16	3	0	1	0	0	0	1	1	2	1	1	3	1	6	7	3	1	1	0	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	43969649	G	A	43969649	2	1	207	1	0	0	0	0	0	0	0	1	9111	1074	38	1		1	LYPD3	19	43969649	Silent	SNP	G	TCGA-BP-4161-01A-02D-1386-10	28404174	43969649	15159334	65	11450											
ZNF221	7638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44469419	44469419	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccaagatactttccacttCttagggaaggaaaagttttg	13	12	8	8	0	1	1	0	0	1	1	2	3	2	3	2	2	1	1	2	2	6	6	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	44469419	C	T	44469419	2	4	207	1	0	0	0	0	0	0	0	1	17774	912	32	2		2	ZNF221	19	44469419	Silent	SNP	C	TCGA-BP-4161-01A-02D-1386-10	499770	44469419	14659564	66	11451											
ZNF285	26974	hgsc.bcm.edu;ucsc.edu	37	chr19	44892225	44892225	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgaaaggtaacttaaccccTttgcctgaagattcaaaatg	14	10	8	9	1	1	2	1	1	0	1	1	3	1	2	3	1	3	1	3	1	6	4	rs114985922	byfrequency	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	44892225	T	G	44892225	3	3	207	1	0	0	0	0	1	0	0	0	17821	1609	56	5	1594	5	ZNF285	19	44892225	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10	422806	44892225	14236758	67	11452											
PPP1R15A	23645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49379159	49379159	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaccacgcccttgagccaaGctgtggccacaccttcccgc	8	6	9	18	2	0	2	0	1	0	1	1	2	1	2	6	1	2	1	6	1	1	2	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		A	49379159	G	A	49379159	3	1	207	1	0	0	0	0	1	0	0	0	12365	971	34	2	1960	2	PPP1R15A	19	49379159	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	4486934	49379159	9749824	68	11453											
C20orf26	26074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	20243669	20243669	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttcccaacagcagtcagCggcggtacacggggaaagtt	11	6	14	10	3	1	0	1	0	0	0	2	1	2	1	1	5	4	4	1	5	3	3	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	20243669	C	T	20243669	3	4	207	1	0	0	0	0	1	0	0	0	2106	759	27	1	2508	1	C20orf26	20	20243669	Missense_Mutation	SNP	C	TCGA-BP-4161-01A-02D-1386-10		20243669	42781851	69	11454											
KRTAP10-2	386679	hgsc.bcm.edu	37	chr21	45970772	45970772	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggacttgcagcagacAggcttgcagcagacggacac	12	5	13	11	1	0	3	0	0	0	3	0	5	0	5	0	3	4	5	0	3	0	2	rs76021731		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		G	45970772	A	G	45970772	2	3	207	1	0	0	0	0	0	0	0	1	8509	175	7	3		3	KRTAP10-2	21	45970772	Silent	SNP	A	TCGA-BP-4161-01A-02D-1386-10		45970772	2159123	70	11455											
ADORA2A	135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24829496	24829496	+	Frame_Shift_Del	DEL	A	A	-																															gcaacctgcagaacgtcaccAactactttgtggtgtcactg																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	24829496	A	-	24829496	7	5	207	1	0	1	0	1	0	0	0	0	327	130	5	0	126	0	ADORA2A	22	24829496	Frame_Shift_Del	DEL	A	TCGA-BP-4161-01A-02D-1386-10		24829496	26475070	71	11456											
ADRBK2	157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	26114290	26114290	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctgactcagtggcagcGtcgctatttttacctctttc	6	17	7	11	2	3	1	1	1	2	0	5	1	3	1	1	1	2	2	1	1	2	6	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		T	26114290	G	T	26114290	3	4	207	1	0	0	0	0	1	0	0	0	344	1145	40	4	1807	4	ADRBK2	22	26114290	Missense_Mutation	SNP	G	TCGA-BP-4161-01A-02D-1386-10	1284794	26114290	25190276	72	11457											
ARSE	415	broad.mit.edu	37	chrX	2856294	2856294	+	Frame_Shift_Del	DEL	C	-	-																															tcccatcctcccatgcccttCccacctgggtttgaacagaa																								novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		-	2856294	-	-	2856294	7	5	207	1	0	1	0	1	0	0	0	0	990	842	30	0	650	0	ARSE	23	2856294	Frame_Shift_Del	DEL	C	TCGA-BP-4161-01A-02D-1386-10		2856294	152414266	73	11458											
AMELX	265	broad.mit.edu	37	chrX	11316960	11316960	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcagccccagccacctgTgcaccccatgcagcccctgc	7	5	8	21	0	0	0	0	0	0	0	0	0	0	0	8	0	7	3	8	0	0	0	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	11316960	C	C	11316960	3	2	207	1	0	0	0	0	1	0	0	0	569	1696	59	3	497	3	AMELX	23	11316960	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10	8460666	11316960	143953600	74	11459											
MED14	9282	broad.mit.edu;hgsc.bcm.edu	37	chrX	40573155	40573155	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggtctggaggaataattTtgtcctgcaaaaaaatttaa	14	14	9	4	0	1	0	0	0	1	0	2	2	2	2	1	3	1	1	1	3	6	6	novel		TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1f164308-3c94-4aca-9592-64eedcabf95f	7ab9f3c3-88b7-4d39-be66-f4ea0798274b		C	40573155	T	C	40573155	3	2	207	1	0	0	0	0	1	0	0	0	9432	1841	64	3	3945	3	MED14	23	40573155	Missense_Mutation	SNP	T	TCGA-BP-4161-01A-02D-1386-10	29256195	40573155	114697405	75	11460											
VHL	7428	hgsc.bcm.edu	37	chr3	10183817	10183817	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttcgacggcgagccgCagccctacccaacgctgccg	8	5	10	18	6	1	0	1	0	0	0	2	2	1	0	4	1	6	2	4	1	3	2	novel		TCGA-BP-4161-01A-02W-1382-10	TCGA-BP-4161-11A-01W-1244-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	13124411-f98d-4603-8022-2e0fd44ae880	63cd168a-94e8-4ee0-96ca-db4199aa6b73		T	10183817	C	T	10183817	4	4	208	1	0	0	0	0	0	1	0	0	17161	711	25	2	288	2	VHL	3	10183817	Nonsense_Mutation	SNP	C	TCGA-BP-4161-01A-02W-1382-10		10183817	187838613	1	11461											
AGRN	375790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	981443	981443	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgtctgcccgatgctcaCctgtccagaggccaacgcta	7	9	10	15	2	2	1	1	0	1	1	3	2	3	1	4	1	3	2	4	1	2	1	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	981443	C	G	981443	3	3	209	1	0	0	0	0	1	0	0	0	397	507	18	4	2842	4	AGRN	1	981443	Missense_Mutation	SNP	C	TCGA-BP-4162-01A-02D-1386-10		981443	248269178	1	11462											
RAP1A	5906	hgsc.bcm.edu;ucsc.edu	37	chr1	112247019	112247019	+	Frame_Shift_Del	DEL	G	G	-																															tggaagatgagcgagtagttGgcaaagagcagggccagaat																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		-	112247019	G	-	112247019	7	5	209	1	0	1	0	1	0	0	0	0	13037	1348	47	0	397	0	RAP1A	1	112247019	Frame_Shift_Del	DEL	G	TCGA-BP-4162-01A-02D-1386-10	111265576	112247019	137003602	2	11463											
DCST1	149095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155014062	155014062	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtcgacacagaagatgtatGagctgaagaccaagctgcgt	13	8	12	8	2	0	5	0	2	0	3	1	6	0	5	1	0	3	3	1	0	4	1	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	155014062	G	C	155014062	3	2	209	1	0	0	0	0	1	0	0	0	4302	1291	45	4	743	4	DCST1	1	155014062	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	42767043	155014062	94236559	3	11464											
YOD1	55432	hgsc.bcm.edu;ucsc.edu	37	chr1	207222973	207222977	+	Frame_Shift_Del	DEL	GCAAA	GCAAA	-																															cacggttctggtaagcacagGcaaagtttccctgacgtaac																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	GCAAA	GCAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		-	207222977	GCAAA	-	207222973	7	5	209	1	0	1	0	1	0	0	0	0	17487	1203	42	0	611	0	YOD1	1	207222973	Frame_Shift_Del	DEL	GCAAA	TCGA-BP-4162-01A-02D-1386-10	52208911	207222973	42027648	4	11465											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237791209	237791209	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtttgtgttgctccatcGgcagtatgacggcattgggg	6	13	14	8	2	0	1	0	1	0	0	2	1	1	1	1	4	1	6	1	4	1	4	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	237791209	G	A	237791209	3	1	209	1	0	0	0	0	1	0	0	0	13771	1116	39	1	6431	1	RYR2	1	237791209	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	30568236	237791209	11459412	5	11466											
OR2T12	127064	broad.mit.edu	37	chr1	248458511	248458511	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcggagtgggtggcagaCagccgcatagcggtcatagg	10	7	16	8	3	1	1	1	0	0	1	2	2	1	2	1	5	2	2	1	5	3	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	248458511	A	A	248458511	3	1	209	1	0	0	0	0	1	0	0	0	11019	478	17	4	595	4	OR2T12	1	248458511	Missense_Mutation	SNP	C	TCGA-BP-4162-01A-02D-1386-10	10667302	248458511	792110	6	11467											
SH3BP5L	80851	broad.mit.edu	37	chr1	249106452	249106452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggggaggcagaccccCgcggcgccgtgcgtgaatct	5	5	19	12	5	1	2	0	1	1	1	1	3	1	3	3	6	1	1	3	6	1	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	249106452	T	T	249106452	3	4	209	1	0	0	0	0	1	0	0	0	14250	652	23	1	356	1	SH3BP5L	1	249106452	Missense_Mutation	SNP	C	TCGA-BP-4162-01A-02D-1386-10	647941	249106452	144169	7	11468											
INHBB	3625	hgsc.bcm.edu	37	chr2	121107175	121107176	+	Frame_Shift_Ins	INS	-	-	G																															tgacttccgcctcatcggctINSggaacgactggatcatagca																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	121107176	-	G	121107175	7	5	209	1	0	1	1	0	0	0	0	0	7742	1580	55	0	955	0	INHBB	2	121107175	Frame_Shift_Ins	INS	-	TCGA-BP-4162-01A-02D-1386-10		121107175	122092198	8	11469											
ITGA6	3655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	173354250	173354250	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcttacaaacctcggcaCagcaaccttgaacattcagt	13	9	5	14	1	2	1	1	1	1	0	3	1	2	1	3	1	5	2	3	1	4	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	173354250	C	A	173354250	3	1	209	1	0	0	0	0	1	0	0	0	7880	478	17	4	2621	4	ITGA6	2	173354250	Missense_Mutation	SNP	C	TCGA-BP-4162-01A-02D-1386-10	52247075	173354250	69845123	9	11470											
FBLN2	2199	broad.mit.edu	37	chr3	13612493	13612493	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaagcagcaacagccctggGgggtgaggtccaggcgggtg	8	4	20	9	1	0	1	0	1	0	0	1	2	1	2	2	7	4	2	2	7	2	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	13612493	C	C	13612493	3	2	209	1	0	0	0	0	1	0	0	0	5699	1232	43	4		4	FBLN2	3	13612493	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10		13612493	184409937	10	11471											
USP4	7375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49373006	49373006	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacttcttccactgcttgAaccaccggctgtcaataaga	11	11	6	13	1	2	2	1	1	1	1	3	2	3	2	3	1	3	2	3	1	4	5	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	49373006	A	C	49373006	3	2	209	1	0	0	0	0	1	0	0	0	17070	246	9	5	2850	5	USP4	3	49373006	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02D-1386-10	35760513	49373006	148649424	11	11472											
CDH12	1010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	21751935	21751935	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagtctgtcagatagtCatagtcctggtcggcttctg	6	13	10	12	1	4	1	2	0	2	1	7	1	6	1	3	2	0	1	3	2	2	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	21751935	C	A	21751935	3	1	209	1	0	0	0	0	1	0	0	0	3098	826	29	4	92	4	CDH12	5	21751935	Missense_Mutation	SNP	C	TCGA-BP-4162-01A-02D-1386-10		21751935	159163325	12	11473											
ZBED3	84327	broad.mit.edu	37	chr5	76373057	76373058	+	In_Frame_Ins	INS	-	GCG	GCG																															accctcggggtcgtccttgaINSgcggcggcggcgcagcgggg																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		GCG	76373058	GCG	GCG	76373057	7	5	209	1	0	1	1	0	0	0	0	0	17518	304	11	0	61	0	ZBED3	5	76373057	In_Frame_Ins	INS	-	TCGA-BP-4162-01A-02D-1386-10	54621122	76373057	104542203	13	11474											
KIF3A	11127	hgsc.bcm.edu;ucsc.edu	37	chr5	132070046	132070062	+	Frame_Shift_Del	DEL	CCCCTCATCTCATCCAC	CCCCTCATCTCATCCAC	-																															tcttatgtacagtgatagttCccctcatctcatccacactg																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	CCCCTCATCTCATCCAC	CCCCTCATCTCATCCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		-	132070062	CCCCTCATCTCATCCAC	-	132070046	7	5	209	1	0	1	0	1	0	0	0	0	8300	855	30	0	2032	0	KIF3A	5	132070046	Frame_Shift_Del	DEL	CCCCTCATCTCATCCAC	TCGA-BP-4162-01A-02D-1386-10	55696989	132070046	48845214	14	11475											
SLC17A1	6568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25830753	25830753	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacagaataaagtgctaccTtttttgggaggcaaccggtt	12	11	11	7	1	0	1	0	0	0	1	0	3	0	2	2	3	4	3	2	3	6	6	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	25830753	T	C	25830753	2	2	209	1	0	0	0	0	0	0	0	1	14418	1623	56	3		3	SLC17A1	6	25830753	Silent	SNP	T	TCGA-BP-4162-01A-02D-1386-10		25830753	145284314	15	11476											
STAG3L2	442582	broad.mit.edu	37	chr7	74298857	74298857	+	RNA	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcagtgtgctctcctgcaTatcacccaggtctggagtgc	7	12	10	12	0	4	0	2	0	2	0	5	1	4	1	2	2	3	2	2	2	2	2	rs1635764	bycluster	TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	74298857	C	C	74298857	1	2	209	0	1	0	0	0	0	0	0	0	15246	1421	49	3		3	STAG3L2	7	74298857	RNA	SNP	T	TCGA-BP-4162-01A-02D-1386-10		74298857	84839806	16	11477											
FAM200A	221786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99145777	99145777	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccatacatgctggaaggAtaattttttcagccgctgtg	9	14	10	8	1	1	0	1	0	0	0	2	2	2	2	2	2	3	2	2	2	3	5	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	99145777	A	T	99145777	3	4	209	1	0	0	0	0	1	0	0	0	5536	333	12	5	1471	5	FAM200A	7	99145777	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02D-1386-10	24846920	99145777	59992886	17	11478											
CUX1	1523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	101923413	101923413	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcctccttcagcaagcggGttcgtgagcccagcctgggc	5	9	12	15	2	2	1	1	1	1	0	5	1	3	1	4	2	4	2	4	2	1	2	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	101923413	G	T	101923413	5	4	209	1	0	0	0	0	0	0	1	0	4064	1275	44	4	5209	4	CUX1	7	101923413	Splice_Site	SNP	G	TCGA-BP-4162-01A-02D-1386-10	2777636	101923413	57215250	18	11479											
WDR86	349136	broad.mit.edu;ucsc.edu	37	chr7	151092874	151092874	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtctcacctccagacagatGacggagccccggtgctcccg	8	6	11	16	3	1	3	1	1	1	2	4	4	3	4	5	2	2	1	5	2	0	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	151092874	A	A	151092874	2	1	209	1	0	0	0	0	0	0	0	1	17333	1277	45	2		2	WDR86	7	151092874	Silent	SNP	G	TCGA-BP-4162-01A-02D-1386-10	49169461	151092874	8045789	19	11480											
POLB	5423	hgsc.bcm.edu	37	chr8	42196541	42196541	+	Frame_Shift_Del	DEL	T	T	-																															gcctttcagaactcgcaaacTttgagaagaacgtgagccaa																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		-	42196541	T	-	42196541	7	5	209	1	0	1	0	1	0	0	0	0	12189	1609	56	0	79	0	POLB	8	42196541	Frame_Shift_Del	DEL	T	TCGA-BP-4162-01A-02D-1386-10		42196541	104167481	20	11481											
MYO3A	53904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26377305	26377305	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatttctgaatatctcctGgaaaaatcccgagttatcca	13	12	6	10	1	2	2	0	1	2	1	5	4	4	3	3	1	0	1	3	1	5	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	26377305	G	T	26377305	2	4	209	1	0	0	0	0	0	0	0	1	10076	1335	47	4		4	MYO3A	10	26377305	Silent	SNP	G	TCGA-BP-4162-01A-02D-1386-10		26377305	109157442	21	11482											
CASP7	840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115489084	115489084	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaggctattactcgtggAggagcccaggaagaggctcc	10	8	14	9	1	0	2	0	1	0	1	2	5	1	5	2	5	2	2	2	5	4	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	115489084	A	T	115489084	3	4	209	1	0	0	0	0	1	0	0	0	2676	295	11	5	900	5	CASP7	10	115489084	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02D-1386-10	89111779	115489084	20045663	22	11483											
DENND5A	23258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	9225842	9225842	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcagcctgggtcttgaatGccagccctttcggcatacat	8	11	10	12	1	2	1	1	1	1	0	3	2	2	1	3	2	4	1	3	2	2	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	9225842	G	A	9225842	3	1	209	1	0	0	0	0	1	0	0	0	4436	1319	46	2	3629	2	DENND5A	11	9225842	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10		9225842	125780674	23	11484											
OR5R1	219479	broad.mit.edu;ucsc.edu	37	chr11	56185258	56185258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggcaaccaggaagctgtAtatatatggaactgccacca	14	7	11	9	0	0	0	0	0	0	0	0	3	0	2	3	3	4	3	3	3	7	4	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	56185258	G	G	56185258	3	3	209	1	0	0	0	0	1	0	0	0	11180	449	16	3	525	3	OR5R1	11	56185258	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02D-1386-10	46959416	56185258	78821258	24	11485											
CACNA2D4	93589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2022187	2022187	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagatcacaggcctggagtAcctggaccgcctcgactttc	8	8	11	14	2	1	1	1	0	0	1	3	4	1	3	4	3	1	2	4	3	1	2	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	2022187	A	G	2022187	5	3	209	1	0	0	0	0	0	0	1	0	2551	405	14	3	3129	3	CACNA2D4	12	2022187	Splice_Site	SNP	A	TCGA-BP-4162-01A-02D-1386-10		2022187	131829708	25	11486											
CASC1	55259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	25347862	25347862	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagccattgctgagaagaGggccgacccaccccaaggta	13	4	12	12	1	0	2	0	1	0	2	0	5	0	2	5	2	2	2	5	2	4	2	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	25347862	G	C	25347862	2	2	209	1	0	0	0	0	0	0	0	1	2660	987	35	4		4	CASC1	12	25347862	Silent	SNP	G	TCGA-BP-4162-01A-02D-1386-10	23325675	25347862	108504033	26	11487											
RPS26	6231	broad.mit.edu;hgsc.bcm.edu	37	chr12	56436231	56436231	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaagaaaagaaggaacaatgGtcgtgccaaaaagggccgcg	18	3	13	7	3	0	2	0	0	0	2	1	3	0	3	2	3	2	0	2	3	8	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	56436231	G	A	56436231	3	1	209	1	0	0	0	0	1	0	0	0	13639	1261	44	2	32	2	RPS26	12	56436231	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	31088369	56436231	77415664	27	11488											
C12orf51	0	broad.mit.edu;hgsc.bcm.edu	37	chr12	112650409	112650409	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctggctgtcccggaggaGgtggagtcccctcagttctc	4	10	15	12	1	2	0	1	0	1	0	5	3	4	3	3	6	0	3	3	6	0	1	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	112650409	G	T	112650409	3	4	209	1	0	0	0	0	1	0	0	0	1696	1000	35	4	5857	4	C12orf51	12	112650409	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	56214178	112650409	21201486	28	11489											
GCN1L1	10985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120582805	120582805	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacggcagcaagtcctcaaAgcacgactcccccatgccct	10	5	7	19	2	1	0	1	0	0	0	3	1	3	0	5	1	3	3	5	1	2	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	120582805	A	T	120582805	3	4	209	1	0	0	0	0	1	0	0	0	6299	72	3	5	3014	5	GCN1L1	12	120582805	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02D-1386-10	7932396	120582805	13269090	29	11490											
C14orf102	0	hgsc.bcm.edu;ucsc.edu	37	chr14	90754790	90754793	+	Frame_Shift_Del	DEL	CACT	CACT	-																															cagaggggccagcgggtaaaCactcactttcatgtggaatc																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	CACT	CACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		-	90754793	CACT	-	90754790	7	5	209	1	0	1	0	1	0	0	0	0	1735	478	17	0	581	0	C14orf102	14	90754790	Frame_Shift_Del	DEL	CACT	TCGA-BP-4162-01A-02D-1386-10		90754790	16594750	30	11491											
C14orf109	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	93652729	93652729	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgagacttacaacaggCtggccttggaacacattcaa	13	9	9	10	0	2	1	2	1	0	1	2	3	2	2	1	3	3	1	1	3	4	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	93652729	C	T	93652729	2	4	209	1	0	0	0	0	0	0	0	1	1739	796	28	2		2	C14orf109	14	93652729	Silent	SNP	C	TCGA-BP-4162-01A-02D-1386-10	2897939	93652729	13696811	31	11492											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105415666	105415666	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaccttcaggtcggcagaaGggggctgaatgctgaggtca	9	7	17	8	1	2	3	2	2	0	1	3	4	2	4	1	6	1	3	1	6	2	1	rs150446570		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	105415666	G	A	105415666	3	1	209	1	0	0	0	0	1	0	0	0	415	1000	35	2	11269	2	AHNAK2	14	105415666	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	11762937	105415666	1933874	32	11493											
SPRED1	161742	broad.mit.edu	37	chr15	38632097	38632097	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcaaagccaagccaatcagGtaagaagataaaatattttt	18	10	7	6	0	1	2	1	0	0	2	1	2	1	2	2	1	3	2	2	1	8	5	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	38632097	T	T	38632097	5	4	209	1	0	0	0	0	0	0	1	0	15093	1275	44	4	601	4	SPRED1	15	38632097	Splice_Site	SNP	G	TCGA-BP-4162-01A-02D-1386-10		38632097	63899295	33	11494											
FEM1B	10116	hgsc.bcm.edu;ucsc.edu	37	chr15	68582267	68582267	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacattgtggagccacagcaTtgcactttgcagctgaagct	10	10	10	11	0	0	1	0	1	0	0	0	2	0	2	1	1	6	5	1	1	1	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	68582267	T	C	68582267	2	2	209	1	0	0	0	0	0	0	0	1	5810	1490	52	3		3	FEM1B	15	68582267	Silent	SNP	T	TCGA-BP-4162-01A-02D-1386-10	29950170	68582267	33949125	34	11495											
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27438794	27438794	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaggcgctccaggagggTgtcctcactggcccctggca	8	6	14	13	1	1	0	1	0	0	0	3	2	3	1	4	5	0	2	4	5	2	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		C	27438794	T	C	27438794	3	2	209	1	0	0	0	0	1	0	0	0	10065	1696	59	3	3586	3	MYO18A	17	27438794	Missense_Mutation	SNP	T	TCGA-BP-4162-01A-02D-1386-10		27438794	53756416	35	11496											
EFCAB5	374786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	28386632	28386632	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcagaagtgggacagtGatggctcaggcttcctggat	8	12	13	8	0	3	2	2	1	1	1	4	4	4	4	1	4	0	2	1	4	1	2	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	28386632	G	T	28386632	3	4	209	1	0	0	0	0	1	0	0	0	4938	1290	45	4	2704	4	EFCAB5	17	28386632	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	947838	28386632	52808578	36	11497											
RDM1	201299	broad.mit.edu;hgsc.bcm.edu	37	chr17	34257122	34257122	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcttccggtcgcatgcCttttgggctctgtgggcagc	3	12	14	12	2	1	0	0	0	1	0	3	0	2	0	2	3	4	5	2	3	0	3	rs145918765	alternate_allele	TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	34257122	C	G	34257122	3	3	209	1	0	0	0	0	1	0	0	0	13199	680	24	4	688	4	RDM1	17	34257122	Missense_Mutation	SNP	C	TCGA-BP-4162-01A-02D-1386-10	5870490	34257122	46938088	37	11498											
ZNF350	59348	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52469415	52469415	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgacatggtttccttctgttCaccaggctttcactctgcaa	7	15	7	12	0	4	1	2	1	2	0	5	1	5	1	2	2	1	4	2	2	1	4	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	52469415	C	G	52469415	2	3	209	1	0	0	0	0	0	0	0	1	17862	813	29	4		4	ZNF350	19	52469415	Silent	SNP	C	TCGA-BP-4162-01A-02D-1386-10		52469415	6659568	38	11499											
ZNF528	84436	hgsc.bcm.edu;ucsc.edu	37	chr19	52918713	52918715	+	In_Frame_Del	DEL	ACC	ACC	-																															agcatctgcaagccttactaAccaagtaatccataacgcag																								novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	ACC	ACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		-	52918715	ACC	-	52918713	7	5	209	1	0	1	0	1	0	0	0	0	17968	43	2	0	622	0	ZNF528	19	52918713	In_Frame_Del	DEL	ACC	TCGA-BP-4162-01A-02D-1386-10	449298	52918713	6210270	39	11500											
ZIM3	114026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57646742	57646742	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctctggtgtttcacaagAtctgacttgtaaatgaaagc	12	14	8	7	0	3	3	1	2	2	1	4	3	3	3	0	1	1	2	0	1	4	4	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	57646742	A	T	57646742	3	4	209	1	0	0	0	0	1	0	0	0	17684	330	12	5	459	5	ZIM3	19	57646742	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02D-1386-10	4728029	57646742	1482241	40	11501											
KIF3B	9371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30898421	30898421	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttgggtaatgtcatctctGctctagtggacggcaaaagc	9	12	11	9	1	3	0	1	0	2	0	4	1	3	1	0	3	2	3	0	3	4	3	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	30898421	G	T	30898421	3	4	209	1	0	0	0	0	1	0	0	0	8301	1319	46	4	843	4	KIF3B	20	30898421	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10		30898421	32127099	41	11502											
MAGED2	10916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54839919	54839919	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttctttttcttctctcAggatacatcattcactcttt	7	22	2	10	0	7	0	3	0	4	0	8	1	7	1	0	1	1	0	0	1	1	8	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		G	54839919	A	G	54839919	5	3	209	1	0	0	0	0	0	0	1	0	9184	202	7	3	1241	3	MAGED2	23	54839919	Splice_Site	SNP	A	TCGA-BP-4162-01A-02D-1386-10		54839919	100430641	42	11503											
ZCCHC13	389874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	73524500	73524500	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtcaagtgttaccgatgCggcgagattggccacgtggc	8	8	15	10	4	1	1	1	0	0	1	1	3	1	1	2	4	2	1	2	4	2	2	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		T	73524500	C	T	73524500	2	4	209	1	0	0	0	0	0	0	0	1	17581	776	27	1		1	ZCCHC13	23	73524500	Silent	SNP	C	TCGA-BP-4162-01A-02D-1386-10	18684581	73524500	81746060	43	11504											
TAF7L	54457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	100524198	100524198	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcacttcttcagaaaacGctgcaactgttcctgtaggg	9	12	8	12	1	3	1	2	0	1	1	5	1	5	1	2	1	3	4	2	1	4	4	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	100524198	G	A	100524198	3	1	209	1	0	0	0	0	1	0	0	0	15532	1087	38	1	20	1	TAF7L	23	100524198	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	26999698	100524198	54746362	44	11505											
AVPR2	554	broad.mit.edu	37	chrX	153171715	153171715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgccgcaggggacgccGgacaggcagccccggtgagg	6	1	21	13	5	0	1	0	1	0	0	0	3	0	3	4	8	1	2	4	8	0	0	novel		TCGA-BP-4162-01A-02D-1386-10	TCGA-BP-4162-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33d9ec10-b162-4bfa-a332-1802bad586bc	56936753-6197-46ae-b994-df957a6023ab		A	153171715	A	A	153171715	3	1	209	1	0	0	0	0	1	0	0	0	1233	1116	39	1	761	1	AVPR2	23	153171715	Missense_Mutation	SNP	G	TCGA-BP-4162-01A-02D-1386-10	52647517	153171715	2098845	45	11506											
VHL	7428	hgsc.bcm.edu	37	chr3	10183614	10183614	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtacggccctgaagaagAcggcggggaggagtcgggcg	10	3	20	8	5	0	4	0	1	0	3	1	6	0	6	1	6	1	1	1	6	3	1	novel		TCGA-BP-4162-01A-02W-1382-10	TCGA-BP-4162-11A-01W-1244-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	c637a3a7-a6a3-4a16-88ce-c25fd22866ee	ca28ed39-29d1-4e3d-9a48-5385d4dd85c3		G	10183614	A	G	10183614	3	3	210	1	0	0	0	0	1	0	0	0	17161	275	10	3	85	3	VHL	3	10183614	Missense_Mutation	SNP	A	TCGA-BP-4162-01A-02W-1382-10		10183614	187838816	1	11507			1	16		2	2	184	N	T_A	1.182287e-05
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-BP-4162-01A-02W-1382-10	TCGA-BP-4162-11A-01W-1244-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	c637a3a7-a6a3-4a16-88ce-c25fd22866ee	ca28ed39-29d1-4e3d-9a48-5385d4dd85c3		A	10183797	T	A	10183797	3	1	210	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-BP-4162-01A-02W-1382-10	183	10183797	187838633	2	11508			1	16		2	2	184	N	T_A	1.182287e-05
KDM4A	9682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44154664	44154664	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctctgagccaactgtggcaGaaccgacctccaaactttga	11	8	8	14	1	1	3	0	2	1	1	2	4	2	3	5	1	4	1	5	1	3	1	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	44154664	G	C	44154664	3	2	211	1	0	0	0	0	1	0	0	0	8128	933	33	4	1981	4	KDM4A	1	44154664	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10		44154664	205095957	1	11509											
BCAS2	10286	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	115123970	115123970	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagctcaggtagttcttagTaggtcggtatctgcgagttt	7	15	13	6	2	3	0	1	0	2	0	4	1	3	0	0	3	2	7	0	3	5	7	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	115123970	T	G	115123970	3	3	211	1	0	0	0	0	1	0	0	0	1351	1638	57	5	565	5	BCAS2	1	115123970	Missense_Mutation	SNP	T	TCGA-BP-4163-01A-02D-1386-10	70969306	115123970	134126651	2	11510											
MRPL9	65005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151732588	151732588	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggctaaccagtacttatAtcttttggtcttgggcttct	6	17	9	9	0	3	0	0	0	3	0	3	0	3	0	1	3	2	3	1	3	4	8	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	151732588	A	T	151732588	3	4	211	1	0	0	0	0	1	0	0	0	9820	449	16	5	65	5	MRPL9	1	151732588	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10	36608618	151732588	97518033	3	11511											
ASPM	259266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197060067	197060067	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctgtattactgatgcagcCctatttcgctggctcagaca	8	14	8	11	1	2	2	1	1	1	1	3	2	2	2	1	1	3	4	1	1	3	5	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	197060067	C	G	197060067	3	3	211	1	0	0	0	0	1	0	0	0	1056	622	22	4	908	4	ASPM	1	197060067	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	45327479	197060067	52190554	4	11512											
WDR35	57539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20153652	20153652	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatttccaatgctgtgagcTtctttgccacacgatattgc	9	15	7	10	1	1	1	0	1	1	0	2	2	2	1	2	0	4	2	2	0	3	6	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	20153652	T	C	20153652	3	2	211	1	0	0	0	0	1	0	0	0	17288	1609	56	3	2233	3	WDR35	2	20153652	Missense_Mutation	SNP	T	TCGA-BP-4163-01A-02D-1386-10		20153652	223045721	5	11513											
THUMPD2	80745	hgsc.bcm.edu;ucsc.edu	37	chr2	39993264	39993264	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatctgaaagaacaaacAcagaagttagaatggaacaa	23	5	8	5	0	1	5	0	1	1	4	1	6	1	6	0	1	3	1	0	1	9	1	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	39993264	A	G	39993264	1	3	211	0	1	0	0	0	0	0	0	0	15882	174	6	3		3	THUMPD2	2	39993264	RNA	SNP	A	TCGA-BP-4163-01A-02D-1386-10	19839612	39993264	203206109	6	11514											
TMEM111	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10005822	10005822	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtctttggccatgagctcTtcttcgacatcatctagtgc	7	14	9	11	1	5	1	1	1	4	0	6	2	5	1	1	2	2	1	1	2	1	4	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	10005822	T	C	10005822	2	2	211	1	0	0	0	0	0	0	0	1	16027	1606	56	3		3	TMEM111	3	10005822	Silent	SNP	T	TCGA-BP-4163-01A-02D-1386-10		10005822	188016608	7	11515											
TEX264	51368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51708346	51708346	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctgctactactgggccTgattgggggcctgactctct	5	11	13	12	0	1	2	0	2	1	0	2	3	1	3	3	4	3	1	3	4	2	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	51708346	T	A	51708346	3	1	211	1	0	0	0	0	1	0	0	0	15782	1580	55	5	28	5	TEX264	3	51708346	Missense_Mutation	SNP	T	TCGA-BP-4163-01A-02D-1386-10	41702524	51708346	146314084	8	11516											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52439876	52439876	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactcctcaggcagctgtGactcttgagacttgtgggtc	6	12	13	10	0	2	2	1	2	1	1	4	4	3	3	1	3	1	2	1	3	0	2	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	52439876	G	T	52439876	4	4	211	1	0	0	0	0	0	1	0	0	1311	1294	45	4	1385	4	BAP1	3	52439876	Nonsense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10	731530	52439876	145582554	9	11517											
TOPBP1	11073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	133362056	133362056	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacataccttgctccaaggAggtttgctaggaatgttaaa	12	13	9	7	0	0	0	0	0	0	0	1	2	1	2	2	3	4	4	2	3	7	6	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	133362056	A	T	133362056	3	4	211	1	0	0	0	0	1	0	0	0	16368	304	11	5	2627	5	TOPBP1	3	133362056	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10	80922180	133362056	64660374	10	11518											
OTOL1	131149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	161221212	161221212	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctcctggtctcctgggaCctactgggccgaagggtgac	5	9	14	13	1	1	1	0	1	1	0	4	3	3	2	5	4	1	0	5	4	2	1	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	161221212	C	A	161221212	3	1	211	1	0	0	0	0	1	0	0	0	11304	507	18	4	930	4	OTOL1	3	161221212	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	27859156	161221212	36801218	11	11519											
ATP13A4	84239	broad.mit.edu;hgsc.bcm.edu	37	chr3	193120483	193120483	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaatactggattgctgtaAgacactcctctgccacactc	11	11	6	13	0	2	1	1	0	1	1	4	2	3	2	2	1	3	2	2	1	3	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	193120483	A	G	193120483	2	3	211	1	0	0	0	0	0	0	0	1	1126	59	3	3		3	ATP13A4	3	193120483	Silent	SNP	A	TCGA-BP-4163-01A-02D-1386-10	31899271	193120483	4901947	12	11520											
THAP6	152815	hgsc.bcm.edu;ucsc.edu	37	chr4	76440718	76440721	+	Frame_Shift_Del	DEL	AGTT	AGTT	-																															tcgctgcttgccaaattcgaAgttaaaaggactgacatttc																								novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	AGTT	AGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		-	76440721	AGTT	-	76440718	7	5	211	1	0	1	0	1	0	0	0	0	15847	72	3	0	58	0	THAP6	4	76440718	Frame_Shift_Del	DEL	AGTT	TCGA-BP-4163-01A-02D-1386-10		76440718	114713558	13	11521											
CENPE	1062	broad.mit.edu;ucsc.edu	37	chr4	104061981	104061981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacaactcactctagctttgGtttcttgcaggctttccttg	6	16	7	12	0	3	0	1	0	2	0	4	0	4	0	1	2	3	4	1	2	2	6	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	104061981	A	A	104061981	3	1	211	1	0	0	0	0	1	0	0	0	3230	1261	44	2	2417	2	CENPE	4	104061981	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10	27621263	104061981	87092295	14	11522											
NIPBL	25836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37022178	37022178	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgagttcttggtgaaaatgCaattgctgttcgaacaaaag	14	11	10	6	2	1	1	0	1	1	0	2	3	1	1	0	1	3	4	0	1	6	4	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	37022178	C	G	37022178	3	3	211	1	0	0	0	0	1	0	0	0	10428	710	25	4	5460	4	NIPBL	5	37022178	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10		37022178	143893082	15	11523											
C5orf42	65250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37226660	37226660	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagtttctctgagaataaCtgacccttttgttgctgagt	11	15	8	7	0	1	3	0	3	1	1	2	4	1	3	1	0	2	3	1	0	4	5	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	37226660	C	G	37226660	3	3	211	1	0	0	0	0	1	0	0	0	2301	564	20	4	7720	4	C5orf42	5	37226660	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	204482	37226660	143688600	16	11524											
PKD2L2	27039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137228267	137228267	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtgaagaaagaaccaacTttaagtccattcgcagcata	15	9	8	9	1	0	3	0	1	0	2	2	3	1	3	2	1	3	2	2	1	6	4	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	137228267	T	G	137228267	3	3	211	1	0	0	0	0	1	0	0	0	11968	1609	56	5	242	5	PKD2L2	5	137228267	Missense_Mutation	SNP	T	TCGA-BP-4163-01A-02D-1386-10	100001607	137228267	43686993	17	11525											
HLA-DQB1	3119	hgsc.bcm.edu;ucsc.edu	37	chr6	32629137	32629137	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcacctttctgactcctTtgacggatgataaggcccag	8	12	8	13	1	2	3	1	3	1	0	4	4	4	4	4	2	0	0	4	2	1	3	rs1140343	bycluster;byfrequency;by1000genomes	TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	32629137	T	G	32629137	2	3	211	1	0	0	0	0	0	0	0	1	7206	1838	64	5		5	HLA-DQB1	6	32629137	Silent	SNP	T	TCGA-BP-4163-01A-02D-1386-10		32629137	138485930	18	11526											
SYTL3	94120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	159184435	159184435	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcatttgtcttcagtggCgtaaccccagctcagctgag	8	11	9	13	1	4	1	3	1	1	0	4	1	4	1	2	1	3	3	2	1	1	3	rs140709967	byfrequency;alternate_allele	TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	159184435	C	A	159184435	2	1	211	1	0	0	0	0	0	0	0	1	15483	755	27	4		4	SYTL3	6	159184435	Silent	SNP	C	TCGA-BP-4163-01A-02D-1386-10	126555298	159184435	11930632	19	11527											
STEAP1	26872	broad.mit.edu	37	chr7	89790291	89790291	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattatagcatctctgacttTtctttacactcttctgaggg	8	18	6	9	0	4	2	0	2	4	0	5	2	4	2	0	1	2	1	0	1	4	8	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	89790291	C	C	89790291	3	2	211	1	0	0	0	0	1	0	0	0	15278	1841	64	3	263	3	STEAP1	7	89790291	Missense_Mutation	SNP	T	TCGA-BP-4163-01A-02D-1386-10		89790291	69348372	20	11528											
TSC22D4	81628	broad.mit.edu;ucsc.edu	37	chr7	100065183	100065183	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttctcttaccatggcttGctcgattttgttgtcaatgc	5	17	9	10	1	2	0	1	0	1	0	4	1	2	0	1	2	3	4	1	2	2	6	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	100065183	T	T	100065183	3	4	211	1	0	0	0	0	1	0	0	0	16609	1328	46	4	225	4	TSC22D4	7	100065183	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10	10274892	100065183	59073480	21	11529											
LAMB4	22798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107717486	107717486	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatctggttctaaacagAtgggtgtgggaagcagcatg	11	10	14	6	0	2	1	0	0	2	1	2	2	2	2	0	3	4	4	0	3	4	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	107717486	A	T	107717486	3	4	211	1	0	0	0	0	1	0	0	0	8613	333	12	5	3330	5	LAMB4	7	107717486	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10	7652303	107717486	51421177	22	11530											
SHARPIN	81858	broad.mit.edu;ucsc.edu	37	chr8	145154959	145154959	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcccaaggctggtggtgaGttgctcttgctgcctagagg	5	10	17	9	0	1	2	0	1	1	1	1	2	1	2	2	5	3	4	2	5	2	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	145154959	C	C	145154959	3	2	211	1	0	0	0	0	1	0	0	0	14269	1020	36	4	797	4	SHARPIN	8	145154959	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10		145154959	1209063	23	11531											
OR56A4	120793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6023936	6023936	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaggaagcaggctgggaagCtgatcgacctgaggtcaaac	12	5	16	8	1	1	2	1	2	0	0	2	6	1	5	1	5	3	3	1	5	3	0	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	6023936	C	G	6023936	3	3	211	1	0	0	0	0	1	0	0	0	11135	797	28	4	656	4	OR56A4	11	6023936	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10		6023936	128982580	24	11532											
SLC25A45	283130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65144051	65144051	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cactctgcgtctcagtccatCcatctgcatccgggacttga	7	11	8	15	2	3	1	1	1	3	0	7	2	6	2	3	1	2	1	3	1	0	1	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	65144051	C	T	65144051	3	4	211	1	0	0	0	0	1	0	0	0	14512	855	30	2	176	2	SLC25A45	11	65144051	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	59120115	65144051	69862465	25	11533											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92577387	92577387	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcggcaagtatgtcctGaatgtgtctgtgagtgatgg	9	11	15	6	1	1	3	0	3	1	0	2	4	2	3	1	2	1	2	1	2	3	1	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	92577387	G	T	92577387	2	4	211	1	0	0	0	0	0	0	0	1	5691	1277	45	4		4	FAT3	11	92577387	Silent	SNP	G	TCGA-BP-4163-01A-02D-1386-10	27433336	92577387	42429129	26	11534											
NFRKB	4798	broad.mit.edu;hgsc.bcm.edu	37	chr11	129754640	129754640	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcagcttggttctcacCtgcagttttcatatccgtgg	6	13	11	11	2	2	0	2	0	1	0	4	0	3	0	2	3	3	5	2	3	1	5	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	129754640	C	T	129754640	3	4	211	1	0	0	0	0	1	0	0	0	10384	695	24	2	3241	2	NFRKB	11	129754640	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	37177253	129754640	5251876	27	11535											
TENC1	23371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53448982	53448982	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcagctcttcaaccttTcagagaaaaggcatgacctg	12	12	7	10	0	4	2	3	1	1	1	4	3	4	2	2	1	2	2	2	1	4	4	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	53448982	T	G	53448982	3	3	211	1	0	0	0	0	1	0	0	0	15757	1783	62	5	674	5	TENC1	12	53448982	Missense_Mutation	SNP	T	TCGA-BP-4163-01A-02D-1386-10		53448982	80402913	28	11536											
TDG	6996	hgsc.bcm.edu	37	chr12	104376608	104376608	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatgtcagggctcagtgaGgtccagctgaaccatatgga	10	11	12	8	0	2	2	2	2	0	0	3	3	3	3	2	3	2	2	2	3	3	3	rs61937629	bycluster;byfrequency	TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	104376608	G	A	104376608	2	1	211	1	0	0	0	0	0	0	0	1	15724	991	35	2		2	TDG	12	104376608	Silent	SNP	G	TCGA-BP-4163-01A-02D-1386-10	50927626	104376608	29475287	29	11537											
RALGAPA1	253959	hgsc.bcm.edu	37	chr14	36140605	36140611	+	Frame_Shift_Del	DEL	GCTGAAG	GCTGAAG	-																															aatgacttacattgagaaaaGctgaagaagccactctacca																								novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	GCTGAAG	GCTGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		-	36140611	GCTGAAG	-	36140605	7	5	211	1	0	1	0	1	0	0	0	0	13015	971	34	0	2653	0	RALGAPA1	14	36140605	Frame_Shift_Del	DEL	GCTGAAG	TCGA-BP-4163-01A-02D-1386-10		36140605	71208935	30	11538											
PSMA3	5684	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58737146	58737146	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctattctagaatttacataGtacatgacgaagttaaggat	15	14	7	5	1	2	2	0	1	2	1	2	4	2	3	0	1	2	2	0	1	8	8	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	58737146	G	A	58737146	3	1	211	1	0	0	0	0	1	0	0	0	12670	1029	36	2	635	2	PSMA3	14	58737146	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10	22596541	58737146	48612394	31	11539											
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71571970	71571970	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcttaggaaaggttgcggAgctggatgtaacagtggtgg	10	9	18	4	1	0	0	0	0	0	0	0	3	0	3	0	7	3	4	0	7	3	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	71571970	A	T	71571970	2	4	211	1	0	0	0	0	0	0	0	1	11591	291	11	5		5	PCNX	14	71571970	Silent	SNP	A	TCGA-BP-4163-01A-02D-1386-10	12834824	71571970	35777570	32	11540											
IVD	3712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40707145	40707145	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgatgagtgggctggAcctggagcggctggtgctgg	4	9	20	8	2	0	2	0	2	0	0	0	4	0	4	1	6	3	4	1	6	0	0	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	40707145	A	T	40707145	3	4	211	1	0	0	0	0	1	0	0	0	7928	275	10	5	881	5	IVD	15	40707145	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10		40707145	61824247	33	11541											
DNAJC17	55192	broad.mit.edu;hgsc.bcm.edu	37	chr15	41065992	41065992	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaaccaggaaatcttcAgagggttatccaccaggcca	12	7	8	14	0	2	1	1	0	1	1	4	2	4	2	6	3	1	1	6	3	3	2	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	41065992	A	T	41065992	3	4	211	1	0	0	0	0	1	0	0	0	4636	188	7	5	197	5	DNAJC17	15	41065992	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10	358847	41065992	61465400	34	11542											
MAP1A	4130	broad.mit.edu	37	chr15	43818938	43818938	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctgggcctcagacttcaAggatttccaggaatcctcac	9	9	8	15	0	3	1	3	0	0	1	5	3	5	3	5	3	0	0	5	3	2	2	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	43818938	G	G	43818938	3	3	211	1	0	0	0	0	1	0	0	0	9227	72	3	3	5269	3	MAP1A	15	43818938	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10	2752946	43818938	58712454	35	11543											
RAB8B	51762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63555808	63555808	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccagtttctttcgttgctCgctactttgatgaactcttt	6	18	7	10	2	2	2	0	2	2	0	4	3	2	2	1	0	3	4	1	0	2	6	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	63555808	C	T	63555808	3	4	211	1	0	0	0	0	1	0	0	0	12959	893	31	1	644	1	RAB8B	15	63555808	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	19736870	63555808	38975584	36	11544											
LRRK1	79705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	101601457	101601457	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatgaaggtgagctgccaGctccaggtccagagatccct	9	7	14	11	0	0	3	0	2	0	1	3	5	3	4	4	3	3	2	4	3	1	0	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	101601457	G	A	101601457	2	1	211	1	0	0	0	0	0	0	0	1	9032	962	34	2		2	LRRK1	15	101601457	Silent	SNP	G	TCGA-BP-4163-01A-02D-1386-10	38045649	101601457	929935	37	11545											
MPV17L	255027	broad.mit.edu;hgsc.bcm.edu	37	chr16	15501819	15501819	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagccttgttcctgttcaAtggagaacagcttacgctgg	8	13	10	10	1	2	1	2	0	0	1	3	2	3	1	2	2	4	4	2	2	3	5	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	15501819	A	G	15501819	3	3	211	1	0	0	0	0	1	0	0	0	9746	101	4	3	455	3	MPV17L	16	15501819	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10		15501819	74852934	38	11546											
HEATR3	55027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50120249	50120249	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatctgtcacagctgctTttttctcaaccaggtattta	9	15	6	11	0	3	0	2	0	2	0	4	0	3	0	1	1	4	4	1	1	3	6	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	50120249	T	G	50120249	2	3	211	1	0	0	0	0	0	0	0	1	7029	1828	64	5		5	HEATR3	16	50120249	Silent	SNP	T	TCGA-BP-4163-01A-02D-1386-10	34618430	50120249	40234504	39	11547											
ZFHX3	463	hgsc.bcm.edu	37	chr16	72992626	72992626	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcttcttcctcctcctcCtccgcctcttcctcctcctc	0	16	1	24	1	3	0	0	0	3	0	13	0	12	0	10	0	0	0	10	0	0	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	72992626	C	T	72992626	2	4	211	1	0	0	0	0	0	0	0	1	17633	680	24	2		2	ZFHX3	16	72992626	Silent	SNP	C	TCGA-BP-4163-01A-02D-1386-10	22872377	72992626	17362127	40	11548											
RARA	5914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38508302	38508302	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccttccctgccctctgcCagctgggcaaatacactacg	10	8	7	16	1	1	0	0	0	1	0	2	0	2	0	4	1	6	2	4	1	4	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	38508302	C	A	38508302	3	1	211	1	0	0	0	0	1	0	0	0	13054	595	21	4	791	4	RARA	17	38508302	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10		38508302	42686908	41	11549											
KRT15	3866	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39673185	39673185	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgttgatgtcagcctcaaCgccctggcgcagggccagct	6	7	13	15	3	2	1	2	1	0	0	2	1	2	1	4	2	3	3	4	2	1	1	rs138271368		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	39673185	C	T	39673185	3	4	211	1	0	0	0	0	1	0	0	0	8452	536	19	1	781	1	KRT15	17	39673185	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10	1164883	39673185	41522025	42	11550											
MLX	6945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40721610	40721610	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcaaggatgtcaccgccctAaagatcatgaaagtgtaaga	15	7	10	9	2	2	3	2	1	0	2	2	4	2	4	2	1	0	2	2	1	5	2	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	40721610	A	G	40721610	2	3	211	1	0	0	0	0	0	0	0	1	9635	349	13	3		3	MLX	17	40721610	Silent	SNP	A	TCGA-BP-4163-01A-02D-1386-10	1048425	40721610	40473600	43	11551											
CCDC47	57003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61829787	61829787	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaagtgttacctgagccagGcactggaaaacaaagccatt	14	8	10	9	0	0	1	0	1	0	0	0	2	0	2	3	2	4	3	3	2	5	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	61829787	G	A	61829787	3	1	211	1	0	0	0	0	1	0	0	0	2818	1203	42	2	367	2	CCDC47	17	61829787	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10	21108177	61829787	19365423	44	11552											
MRPS7	51081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73258639	73258639	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggatcccttgattgacaagGaatattatcgcaagccagtg	13	10	10	8	1	0	2	0	2	0	0	2	4	1	4	2	2	1	1	2	2	5	4	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	73258639	G	C	73258639	3	2	211	1	0	0	0	0	1	0	0	0	9848	1175	41	4	151	4	MRPS7	17	73258639	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10	11428852	73258639	7936571	45	11553											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76496393	76496393	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggccgcgtaccttgtaGtccatctgctcggagcagtt	5	10	11	15	4	1	0	0	0	1	0	3	1	2	1	5	2	3	5	5	2	2	4	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		A	76496393	G	A	76496393	2	1	211	1	0	0	0	0	0	0	0	1	4601	1020	36	2		2	DNAH17	17	76496393	Silent	SNP	G	TCGA-BP-4163-01A-02D-1386-10	3237754	76496393	4698817	46	11554											
IFI30	10437	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18286140	18286140	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaaaatgtcagtggcaGgtgggagttcaagtgccagc	12	7	15	7	0	2	0	2	0	0	0	2	2	2	2	1	4	3	2	1	4	4	1	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	18286140	G	C	18286140	3	2	211	1	0	0	0	0	1	0	0	0	7515	1000	35	4	345	4	IFI30	19	18286140	Missense_Mutation	SNP	G	TCGA-BP-4163-01A-02D-1386-10		18286140	40842843	47	11555											
SULT2B1	6820	broad.mit.edu;ucsc.edu	37	chr19	49096055	49096055	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaacttcctatttatcacCtacgaggagctgcagcaggt	11	10	9	11	1	1	0	1	0	0	0	2	3	2	1	2	2	5	3	2	2	4	5	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	49096055	G	G	49096055	2	3	211	1	0	0	0	0	0	0	0	1	15381	668	24	4		4	SULT2B1	19	49096055	Silent	SNP	C	TCGA-BP-4163-01A-02D-1386-10	30809915	49096055	10032928	48	11556											
ZIK1	284307	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58101848	58101848	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaaggcttccaggcacaaAcacactcctgtttaccatcc	11	8	8	14	0	0	0	0	0	0	0	3	1	3	1	4	3	2	3	4	3	3	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		C	58101848	A	C	58101848	3	2	211	1	0	0	0	0	1	0	0	0	17682	40	2	5	683	5	ZIK1	19	58101848	Missense_Mutation	SNP	A	TCGA-BP-4163-01A-02D-1386-10	9005793	58101848	1027135	49	11557											
TH1L	51497	hgsc.bcm.edu;ucsc.edu	37	chr20	57567073	57567076	+	Frame_Shift_Del	DEL	TAGG	TAGG	-																															agcacactttatcagtgtatTaggtaagcaaaacgaaactc																								novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	TAGG	TAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		-	57567076	TAGG	-	57567073	7	5	211	1	0	1	0	1	0	0	0	0	15838	1742	61	0	1292	0	TH1L	20	57567073	Frame_Shift_Del	DEL	TAGG	TCGA-BP-4163-01A-02D-1386-10		57567073	5458447	50	11558											
C22orf30	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32108234	32108234	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctatggaggctggagacCgtaaccctttcaggccctgt	7	10	12	12	1	1	1	1	0	0	1	1	3	1	2	3	4	2	3	3	4	2	3	rs143043548	bycluster;byfrequency;by1000genomes	TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	32108234	C	T	32108234	3	4	211	1	0	0	0	0	1	0	0	0	2142	652	23	1	888	1	C22orf30	22	32108234	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02D-1386-10		32108234	19196332	51	11559											
PHKA1	5255	broad.mit.edu	37	chrX	71933736	71933736	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctcctcatggcgacaCgttactaattgtcctctgag	7	12	9	13	3	2	1	1	1	1	0	5	2	5	1	3	2	1	2	3	2	2	3	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		T	71933736	T	T	71933736	1	4	211	1	0	0	0	0	0	0	0	0	11843	551	19	1		1	PHKA1	23	71933736	Translation_Start_Site	SNP	C	TCGA-BP-4163-01A-02D-1386-10		71933736	83336824	52	11560											
PLS3	5358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	114864223	114864223	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgtagacatgttataccAatgaaccctaacaccgatga	15	10	7	9	1	0	3	0	2	0	1	0	5	0	3	3	0	3	2	3	0	6	5	novel		TCGA-BP-4163-01A-02D-1386-10	TCGA-BP-4163-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6c16047c-68f3-4023-bc90-6d54cad76b07	96e16b66-2582-47e7-a107-858bf7cbf242		G	114864223	A	G	114864223	2	3	211	1	0	0	0	0	0	0	0	1	12108	117	5	3		3	PLS3	23	114864223	Silent	SNP	A	TCGA-BP-4163-01A-02D-1386-10	42930487	114864223	40406337	53	11561											
CDKN2A	1029	hgsc.bcm.edu	37	chr9	21970901	21970901	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagatcatcagtcctcacCtgagggaccttccgcggcat	8	9	9	15	2	4	2	4	1	0	1	6	3	6	3	4	2	0	1	4	2	0	1	rs45476696	bycluster	TCGA-BP-4163-01A-02W-1382-10	TCGA-BP-4163-11A-01W-1244-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	03533768-49b2-4a13-bf8a-cddce7e8aa43	0c0c2e5a-75e4-4968-8e2a-3a6da1cabcc6		T	21970901	C	T	21970901	3	4	212	1	0	0	0	0	1	0	0	0	3161	695	24	2	21	2	CDKN2A	9	21970901	Missense_Mutation	SNP	C	TCGA-BP-4163-01A-02W-1382-10		21970901	119242530	1	11562											
S100PBP	64766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33292267	33292267	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatggtcttagcccaaaTgaaagcaaactttgtactga	15	10	9	7	0	1	3	0	2	1	1	1	4	1	3	1	1	4	2	1	1	6	3	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	33292267	T	G	33292267	3	3	213	1	0	0	0	0	1	0	0	0	13793	1461	51	5	569	5	S100PBP	1	33292267	Missense_Mutation	SNP	T	TCGA-BP-4164-01A-02D-1386-10		33292267	215958354	1	11563											
KIAA0754	643314	hgsc.bcm.edu	37	chr1	39879397	39879435	+	In_Frame_Del	DEL	GAGGAATCCGCCTCCGCAGCTGTTGCAGTGCCCACCCCC	GAGGAATCCGCCTCCGCAGCTGTTGCAGTGCCCACCCCC	-																															ctcctgcagtgcccaccccaGaggaatccgcctccgcagct																								novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	GAGGAATCCGCCTCCGCAGCTGTTGCAGTGCCCACCCCC	GAGGAATCCGCCTCCGCAGCTGTTGCAGTGCCCACCCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		-	39879435	GAGGAATCCGCCTCCGCAGCTGTTGCAGTGCCCACCCCC	-	39879397	7	5	213	1	0	1	0	1	0	0	0	0	8192	943	33	0	3462	0	KIAA0754	1	39879397	In_Frame_Del	DEL	GAGGAATCCGCCTCCGCAGCTGTTGCAGTGCCCACCCCC	TCGA-BP-4164-01A-02D-1386-10	6587130	39879397	209371224	2	11564											
ECHDC2	55268	broad.mit.edu;hgsc.bcm.edu	37	chr1	53387308	53387308	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgcagccgcgggcccgaaggGgcctccaggggcgcaggagg	6	1	20	14	5	0	0	0	0	0	0	1	2	1	1	4	7	1	2	4	7	1	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	53387308	G	T	53387308	3	4	213	1	0	0	0	0	1	0	0	0	4894	1232	43	4	783	4	ECHDC2	1	53387308	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	13507911	53387308	195863313	3	11565											
LRRC8B	23507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	90049487	90049487	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaagatagaactgcatctTtttatgctcaacggtcttcc	11	13	7	10	1	3	2	1	0	2	2	4	3	4	2	1	1	4	2	1	1	5	5	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	90049487	T	C	90049487	2	2	213	1	0	0	0	0	0	0	0	1	9022	1828	64	3		3	LRRC8B	1	90049487	Silent	SNP	T	TCGA-BP-4164-01A-02D-1386-10	36662179	90049487	159201134	4	11566											
KCND3	3752	broad.mit.edu	37	chr1	112524688	112524688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaaggccaccgagtagcGctccccgcacggcagctcct	9	4	12	16	4	0	1	0	0	0	1	2	3	2	1	5	2	2	5	5	2	3	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	112524688	A	A	112524688	3	1	213	1	0	0	0	0	1	0	0	0	8020	1087	38	1	1334	1	KCND3	1	112524688	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	22475201	112524688	136725933	5	11567											
C1orf116	79098	broad.mit.edu;ucsc.edu	37	chr1	207200938	207200938	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggccacagctccctctcGggcatcacccgaaacaaggt	9	6	10	16	2	2	0	1	0	1	0	4	1	3	0	3	3	2	3	3	3	2	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	207200938	C	C	207200938	2	2	213	1	0	0	0	0	0	0	0	1	1989	1103	39	4		4	C1orf116	1	207200938	Silent	SNP	G	TCGA-BP-4164-01A-02D-1386-10	94676250	207200938	42049683	6	11568											
TP53BP2	7159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223983623	223983623	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtgggggtgggtatggaGggtactcctccaggtacaca	8	9	17	7	0	0	0	0	0	0	0	2	1	2	1	2	7	2	3	2	7	3	3	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	223983623	G	A	223983623	3	1	213	1	0	0	0	0	1	0	0	0	16383	1000	35	2	810	2	TP53BP2	1	223983623	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	16782685	223983623	25266998	7	11569											
SUCLG1	8802	broad.mit.edu;ucsc.edu	37	chr2	84652703	84652703	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttaaaccagcaatgaaggAcactacaggcttggaatttg	15	9	10	7	0	0	1	0	1	0	0	0	3	0	3	1	3	3	3	1	3	6	4	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	84652703	C	C	84652703	3	2	213	1	0	0	0	0	1	0	0	0	15365	275	10	5	198	5	SUCLG1	2	84652703	Missense_Mutation	SNP	A	TCGA-BP-4164-01A-02D-1386-10		84652703	158546670	8	11570											
GALNT13	114805	broad.mit.edu;ucsc.edu	37	chr2	155115568	155115568	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggcctattttctattGacagaaactactttgaagag	11	14	9	7	0	1	4	0	2	1	2	1	4	1	4	1	2	2	0	1	2	5	7	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	155115568	T	T	155115568	3	4	213	1	0	0	0	0	1	0	0	0	6211	1290	45	4	914	4	GALNT13	2	155115568	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	70462865	155115568	88083805	9	11571											
CD28	940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	204591400	204591400	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcccatgcttgtagcgtacGacaatgcggtcaaccttagc	9	9	10	13	4	1	0	1	0	0	0	1	1	1	0	2	1	6	3	2	1	5	4	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	204591400	G	A	204591400	3	1	213	1	0	0	0	0	1	0	0	0	2993	1058	37	1	103	1	CD28	2	204591400	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	49475832	204591400	38607973	10	11572											
KIAA1486	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	226378271	226378271	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacagcagctgtggctcaCggagacaaccaccacccaaa	14	4	9	14	1	1	2	1	1	0	1	1	3	1	2	3	2	3	3	3	2	2	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	226378271	C	T	226378271	3	4	213	1	0	0	0	0	1	0	0	0	8237	527	19	1	412	1	KIAA1486	2	226378271	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	21786871	226378271	16821102	11	11573											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10191532	10191532	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagtcaagcctgagaattaCaggagactggacatcgtcag	13	8	11	9	1	2	2	2	1	0	2	3	5	2	3	1	2	2	0	1	2	4	2	rs5030835	alternate_allele	TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	10191532	C	A	10191532	4	1	213	1	0	0	0	0	0	1	0	0	17161	489	17	4	535	4	VHL	3	10191532	Nonsense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10		10191532	187830898	12	11574											
LTF	4057	broad.mit.edu	37	chr3	46477692	46477692	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catcttcttcggttttacttCctgaggaattcacaggcttc	7	16	7	11	1	3	1	1	1	2	0	6	2	4	2	1	3	1	2	1	3	2	7	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	46477692	T	T	46477692	2	4	213	1	0	0	0	0	0	0	0	1	9079	854	30	2		2	LTF	3	46477692	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10	36286160	46477692	151544738	13	11575											
DOCK3	1795	broad.mit.edu;hgsc.bcm.edu	37	chr3	51246204	51246204	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacctgtccttctgttacaGgtgcaacaacgagagtgagt	11	10	10	10	1	1	2	0	1	1	1	2	3	2	2	2	1	4	2	2	1	3	2	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	51246204	G	C	51246204	5	2	213	1	0	0	0	0	0	0	1	0	4688	1014	35	4	1087	4	DOCK3	3	51246204	Splice_Site	SNP	G	TCGA-BP-4164-01A-02D-1386-10	4768512	51246204	146776226	14	11576											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52584626	52584626	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatatggaggtggtgcctGctgccctggaggccccaaaa	8	7	16	10	0	0	0	0	0	0	0	0	3	0	3	4	6	3	1	4	6	3	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	52584626	G	A	52584626	4	1	213	1	0	0	0	0	0	1	0	0	11491	1328	46	2	369	2	PBRM1	3	52584626	Nonsense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	1338422	52584626	145437804	15	11577											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506487	195506534	+	In_Frame_Del	DEL	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT	-																															gtggatactgaggaagtgtcGgtgacaggaaggggggtggc																								novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		-	195506534	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT	-	195506487	7	5	213	1	0	1	0	1	0	0	0	0	9978	1103	39	0		0	MUC4	3	195506487	In_Frame_Del	DEL	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT	TCGA-BP-4164-01A-02D-1386-10	142921861	195506487	2515943	16	11578			1	17		4	4	5507	N	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT_G_A	1.722577e-07
MUC4	4585	broad.mit.edu	37	chr3	195507717	195507717	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggggtggtgtcacctgtGgatactgaggaaaggctggt	9	9	18	5	0	1	2	1	1	0	1	1	4	1	4	1	7	1	1	1	7	2	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	195507717	T	T	195507717	2	4	213	1	0	0	0	0	0	0	0	1	9978	1335	47	4		4	MUC4	3	195507717	Silent	SNP	G	TCGA-BP-4164-01A-02D-1386-10	1230	195507717	2514713	17	11579			1	17		4	4	5507	N	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT_G_A	1.722577e-07
MUC4	4585	broad.mit.edu	37	chr3	195508500	195508500	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggatgctgaggaagcGtcggtgacaagaagaggagt	11	7	17	6	2	0	4	0	2	0	2	1	7	0	7	1	4	2	1	1	4	3	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	195508500	C	C	195508500	3	2	213	1	0	0	0	0	1	0	0	0	9978	1136	40	4		4	MUC4	3	195508500	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	783	195508500	2513930	18	11580			1	17		4	4	5507	N	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT_G_A	1.722577e-07
MUC4	4585	hgsc.bcm.edu	37	chr3	195511993	195511993	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtggcgtgacctgtggatActgaggaagtttcggtgaca	9	10	16	6	2	0	3	0	3	0	0	1	5	0	5	1	5	1	1	1	5	2	2	rs3107749		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	195511993	A	G	195511993	3	3	213	1	0	0	0	0	1	0	0	0	9978	391	14	3		3	MUC4	3	195511993	Missense_Mutation	SNP	A	TCGA-BP-4164-01A-02D-1386-10	3493	195511993	2510437	19	11581			1	17		4	4	5507	N	GGTGACAGGAAGGGGGGTGGCGTGACCTGTGGATGCTGAGGAACGGCT_G_A	1.722577e-07
ENAM	10117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71495256	71495256	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcttggaacctcttttccTaaactagataacttggtgag	11	13	9	8	0	1	2	0	1	1	1	2	3	2	3	2	3	3	1	2	3	5	7	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	71495256	T	G	71495256	2	3	213	1	0	0	0	0	0	0	0	1	5112	1509	53	5		5	ENAM	4	71495256	Silent	SNP	T	TCGA-BP-4164-01A-02D-1386-10		71495256	119659020	20	11582											
EXOSC9	5393	broad.mit.edu;hgsc.bcm.edu	37	chr4	122728760	122728760	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccatttgtgtcagtttTgcctttttccagcaagggta	7	16	9	9	0	1	0	1	0	0	0	2	0	2	0	3	1	3	3	3	1	2	6	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	122728760	T	A	122728760	3	1	213	1	0	0	0	0	1	0	0	0	5321	1809	63	5	610	5	EXOSC9	4	122728760	Missense_Mutation	SNP	T	TCGA-BP-4164-01A-02D-1386-10	51233504	122728760	68425516	21	11583											
HLA-C	3107	hgsc.bcm.edu	37	chr6	31238179	31238179	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcagtgtgatctccgCagggtagaagcccagggccc	8	6	14	13	1	2	2	1	1	1	1	3	2	2	2	4	3	1	2	4	3	2	1	rs41562012	byfrequency	TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	31238179	C	T	31238179	2	4	213	1	0	0	0	0	0	0	0	1	7197	710	25	2		2	HLA-C	6	31238179	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10		31238179	139876888	22	11584											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56401585	56401585	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaaattaccttcttatTgagagtcttccaccgtgcat	11	14	7	9	1	2	2	0	2	2	2	3	4	3	2	3	0	2	1	3	0	4	5	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	56401585	T	C	56401585	3	2	213	1	0	0	0	0	1	0	0	0	4783	1812	63	3	6790	3	DST	6	56401585	Missense_Mutation	SNP	T	TCGA-BP-4164-01A-02D-1386-10	25163406	56401585	114713482	23	11585											
AUTS2	26053	broad.mit.edu	37	chr7	70255256	70255256	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagcgtgcacccggggccCctggcctcgatgcccatgac	5	6	12	18	3	0	1	0	1	0	0	2	2	1	1	6	3	3	1	6	3	0	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	70255256	T	T	70255256	2	4	213	1	0	0	0	0	0	0	0	1	1225	610	22	2		2	AUTS2	7	70255256	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10		70255256	88883407	24	11586											
CACNA2D1	781	broad.mit.edu	37	chr7	81598283	81598283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccgattcataggcaccaggtCcactttctaaaaaaaaaata	17	9	5	10	1	2	0	1	0	1	0	3	1	3	0	3	2	0	1	3	2	7	5	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	81598283	T	T	81598283	3	4	213	1	0	0	0	0	1	0	0	0	2548	855	30	2	1004	2	CACNA2D1	7	81598283	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	11343027	81598283	77540380	25	11587											
COG5	10466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	106888896	106888896	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctctatagcatctcccaCagaagtgagtaagggttgca	11	9	11	10	0	2	2	0	1	2	1	3	2	2	2	2	2	2	4	2	2	4	4	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	106888896	C	T	106888896	3	4	213	1	0	0	0	0	1	0	0	0	3661	478	17	2	719	2	COG5	7	106888896	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	25290613	106888896	52249767	26	11588											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151860719	151860719	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaataactgttgtgtgctGctggtgctgaagctgctgtg	8	13	14	6	0	0	2	0	1	0	1	0	2	0	2	0	1	6	6	0	1	3	2	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	151860719	G	A	151860719	4	1	213	1	0	0	0	0	0	1	0	0	9622	1328	46	2	4860	2	MLL3	7	151860719	Nonsense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	44971823	151860719	7277944	27	11589											
PKHD1L1	93035	broad.mit.edu;ucsc.edu	37	chr8	110432841	110432841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaacaaatgggccaactatGacaaaccaatattctgttac	18	9	5	9	0	1	1	0	1	1	0	1	1	1	1	2	1	4	1	2	1	9	4	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	110432841	A	A	110432841	3	1	213	1	0	0	0	0	1	0	0	0	11972	1290	45	2	2709	2	PKHD1L1	8	110432841	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10		110432841	35931181	28	11590											
SNTB1	6641	broad.mit.edu;hgsc.bcm.edu	37	chr8	121823811	121823811	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggtcggtgaaagcggtgcgGaccccggcgggcgagtccgg	6	4	20	11	7	0	1	0	1	0	0	2	3	1	2	3	7	2	0	3	7	1	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	121823811	G	C	121823811	2	2	213	1	0	0	0	0	0	0	0	1	14874	1161	41	4		4	SNTB1	8	121823811	Silent	SNP	G	TCGA-BP-4164-01A-02D-1386-10	11390970	121823811	24540211	29	11591											
CACNA1B	774	broad.mit.edu	37	chr9	140918171	140918185	+	In_Frame_Del	DEL	GGAGAAGGAGACCAC	-	-																															cagcctgctcacgaggctgtGgagaaggagaccacggagaa																								rs145816559	bycluster;by1000genomes	TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	GGAGAAGGAGACCAC	GGAGAAGGAGACCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		-	140918185	-	-	140918171	7	5	213	1	0	1	0	1	0	0	0	0	2539	1335	47	0	3050	0	CACNA1B	9	140918171	In_Frame_Del	DEL	GGAGAAGGAGACCAC	TCGA-BP-4164-01A-02D-1386-10		140918171	295260	30	11592											
MMP21	118856	broad.mit.edu;hgsc.bcm.edu	37	chr10	127461203	127461203	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaaggctgatgcccgtgtCactggtgggaggtgtgaagt	8	9	18	6	1	1	3	1	2	0	1	1	5	1	4	1	4	1	1	1	4	2	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	127461203	C	T	127461203	3	4	213	1	0	0	0	0	1	0	0	0	9660	826	29	2	915	2	MMP21	10	127461203	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10		127461203	8073544	31	11593											
OR52I2	143502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4608985	4608985	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgacctgtacgtgatcatcCcagccaccttaaatcccatc	10	10	5	16	1	1	2	1	2	0	0	4	2	3	2	5	0	2	1	5	0	3	2	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	4608985	C	T	4608985	3	4	213	1	0	0	0	0	1	0	0	0	11121	623	22	2	945	2	OR52I2	11	4608985	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10		4608985	130397531	32	11594											
RBM14	10432	hgsc.bcm.edu	37	chr11	66392880	66392880	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggcccaaccttctgccacCctggcagctccttaccgcac	6	7	9	19	1	1	0	0	0	1	0	2	0	2	0	6	3	4	3	6	3	2	2	rs11550057	bycluster;byfrequency;by1000genomes	TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	66392880	C	T	66392880	2	4	213	1	0	0	0	0	0	0	0	1	13117	610	22	2		2	RBM14	11	66392880	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10	61783895	66392880	68613636	33	11595											
DDI1	414301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103908556	103908556	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaggcctagatatgctcCggagacatcaatgttccatc	10	12	8	11	1	2	2	1	0	1	2	5	3	4	2	3	2	1	2	3	2	4	5	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	103908556	C	T	103908556	3	4	213	1	0	0	0	0	1	0	0	0	4328	643	23	1	1008	1	DDI1	11	103908556	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	37515676	103908556	31097960	34	11596											
OR4D5	219875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123810587	123810587	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgacttgctctcaggCaaccctaccatttcctttgg	6	14	8	13	0	1	1	1	1	1	0	3	1	2	1	3	3	3	3	3	3	2	5	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	123810587	C	T	123810587	2	4	213	1	0	0	0	0	0	0	0	1	11057	697	25	2		2	OR4D5	11	123810587	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10	19902031	123810587	11195929	35	11597											
FAM19A2	338811	broad.mit.edu;ucsc.edu	37	chr12	62148719	62148719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagcaggagcacttgaCtgtttgtgaccgttcttcta	9	12	12	8	1	2	2	0	2	2	0	2	4	2	4	1	2	2	4	1	2	2	5	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	62148719	A	A	62148719	3	1	213	1	0	0	0	0	1	0	0	0	5532	565	20	4	214	4	FAM19A2	12	62148719	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10		62148719	71703176	36	11598											
POSTN	10631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	38162097	38162097	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagtaattcaacattcacGttgctctccaaacctctacg	11	13	4	13	2	5	0	3	0	2	0	6	0	5	0	2	0	4	3	2	0	4	6	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	38162097	G	A	38162097	2	1	213	1	0	0	0	0	0	0	0	1	12259	1136	40	1		1	POSTN	13	38162097	Silent	SNP	G	TCGA-BP-4164-01A-02D-1386-10		38162097	77007781	37	11599											
EFS	10278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23826852	23826852	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggacacaaccagtggctcCcctggggacagggcctcctg	7	6	14	14	0	0	0	0	0	0	0	2	2	2	2	5	5	1	1	5	5	1	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	23826852	C	T	23826852	2	4	213	1	0	0	0	0	0	0	0	1	4959	610	22	2		2	EFS	14	23826852	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10		23826852	83522688	38	11600											
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24884470	24884470	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagccacgtggccctgaCggccatcctccatcaggagc	7	6	12	16	3	1	2	1	2	0	0	3	3	3	3	5	3	2	0	5	3	0	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	24884470	C	T	24884470	3	4	213	1	0	0	0	0	1	0	0	0	10796	536	19	1	3545	1	NYNRIN	14	24884470	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	1057618	24884470	82465070	39	11601											
DIO2	1734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	80669284	80669284	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgggctgctgcacatcgAtcttcctggttctggtgctt	3	15	12	11	1	2	0	0	0	2	0	4	1	3	0	1	3	4	6	1	3	0	3	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	80669284	A	G	80669284	2	3	213	1	0	0	0	0	0	0	0	1	4525	330	12	3		3	DIO2	14	80669284	Silent	SNP	A	TCGA-BP-4164-01A-02D-1386-10	55784814	80669284	26680256	40	11602											
SPTBN5	51332	broad.mit.edu;hgsc.bcm.edu	37	chr15	42150817	42150817	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccgctgcagctcctgctGttggtgcatgctcgcgtcca	4	10	11	16	3	0	0	0	0	0	0	3	0	2	0	3	1	5	7	3	1	0	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	42150817	G	C	42150817	3	2	213	1	0	0	0	0	1	0	0	0	15123	1386	48	4	2895	4	SPTBN5	15	42150817	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10		42150817	60380575	41	11603											
USP7	7874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	9012898	9012898	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccatttacctttcgtagcTgattcgtgaaaaataacgtc	12	14	6	9	3	0	2	0	2	0	0	4	2	1	2	2	0	3	2	2	0	5	6	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	9012898	T	G	9012898	3	3	213	1	0	0	0	0	1	0	0	0	17087	1580	55	5	2702	5	USP7	16	9012898	Missense_Mutation	SNP	T	TCGA-BP-4164-01A-02D-1386-10		9012898	81341855	42	11604											
MYH1	4619	broad.mit.edu;hgsc.bcm.edu	37	chr17	10419922	10419922	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcggaggaaaggagcaGcctccccaaaaatggccatc	13	6	10	12	1	0	0	0	0	0	0	3	3	1	3	4	4	2	1	4	4	3	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	10419922	G	A	10419922	3	1	213	1	0	0	0	0	1	0	0	0	10029	971	34	2	5933	2	MYH1	17	10419922	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10		10419922	70775288	43	11605											
DHX8	1659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41582097	41582097	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggaagaagcatgcctttggGggcaacaaagcctcttacgg	11	8	13	9	1	1	1	0	0	1	1	1	2	1	2	2	4	5	2	2	4	5	2	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	41582097	G	T	41582097	2	4	213	1	0	0	0	0	0	0	0	1	4515	1219	43	4		4	DHX8	17	41582097	Silent	SNP	G	TCGA-BP-4164-01A-02D-1386-10	31162175	41582097	39613113	44	11606											
OTOP2	92736	broad.mit.edu;hgsc.bcm.edu	37	chr17	72920812	72920812	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtggaagaagggtggcCgcctgctgtcggtgctgctg	5	9	19	8	2	0	1	0	0	0	1	1	2	0	2	2	5	3	3	2	5	2	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	72920812	C	G	72920812	3	3	213	1	0	0	0	0	1	0	0	0	11306	652	23	4	87	4	OTOP2	17	72920812	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	31338715	72920812	8274398	45	11607											
S1PR4	8698	hgsc.bcm.edu	37	chr19	3179874	3179874	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggccaagggacagctttCgcggctcccgctcgctcagc	6	7	13	15	4	1	1	1	1	0	0	4	2	2	2	2	3	2	4	2	3	1	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	3179874	C	T	3179874	3	4	213	1	0	0	0	0	1	0	0	0	13798	884	31	1	1086	1	S1PR4	19	3179874	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10		3179874	55949109	46	11608											
SCAF1	58506	hgsc.bcm.edu	37	chr19	50154294	50154295	+	Frame_Shift_Ins	INS	-	-	C																															cacccccaccgccccctgcaINScccccagccccacctgcccc																								novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		C	50154295	-	C	50154294	7	5	213	1	0	1	1	0	0	0	0	0	13870	146	6	0	670	0	SCAF1	19	50154294	Frame_Shift_Ins	INS	-	TCGA-BP-4164-01A-02D-1386-10	46974420	50154294	8974689	47	11609											
DEFB115	245929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	29847316	29847316	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgcaggaaatcatgcAaagaaattgagaggaagaaa	20	5	12	4	0	1	4	1	1	0	4	1	7	1	6	0	2	2	3	0	2	5	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	29847316	A	G	29847316	3	3	213	1	0	0	0	0	1	0	0	0	4404	131	5	3	154	3	DEFB115	20	29847316	Missense_Mutation	SNP	A	TCGA-BP-4164-01A-02D-1386-10		29847316	33178204	48	11610											
RPS21	6227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60963416	60963419	+	Frame_Shift_Del	DEL	TCAA	TCAA	-																															ccaaggccgatggcatcgtcTcaaagtaaggttgggggctc																								novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	TCAA	TCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		-	60963419	TCAA	-	60963416	7	5	213	1	0	1	0	1	0	0	0	0	13635	1551	54	0	252	0	RPS21	20	60963416	Frame_Shift_Del	DEL	TCAA	TCGA-BP-4164-01A-02D-1386-10	31116100	60963416	2062104	49	11611											
DIP2A	23181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47969770	47969770	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgcctcggaggaggacaGcttccagtggatgagccgtg	8	7	17	9	2	0	1	0	1	0	0	2	6	1	6	3	5	3	1	3	5	0	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	47969770	G	A	47969770	3	1	213	1	0	0	0	0	1	0	0	0	4527	971	34	2	2744	2	DIP2A	21	47969770	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10		47969770	160125	50	11612											
RIMBP3	85376	hgsc.bcm.edu	37	chr22	20460113	20460115	+	In_Frame_Del	DEL	CCG	CCG	-																															acgccgcagctgcttgttctCcgcttgcagggtataacagc																								rs77846076	alternate_allele	TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		-	20460115	CCG	-	20460113	7	5	213	1	0	1	0	1	0	0	0	0	13366	864	30	0	3734	0	RIMBP3	22	20460113	In_Frame_Del	DEL	CCG	TCGA-BP-4164-01A-02D-1386-10		20460113	30844453	51	11613											
TRIOBP	11078	hgsc.bcm.edu;ucsc.edu	37	chr22	38109337	38109337	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accacttccttgtgtggcagCtgcaacgaggaccccggctc	7	8	11	15	2	0	0	0	0	0	0	2	2	1	1	4	3	3	4	4	3	1	2	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	38109337	C	T	38109337	2	4	213	1	0	0	0	0	0	0	0	1	16552	796	28	2		2	TRIOBP	22	38109337	Silent	SNP	C	TCGA-BP-4164-01A-02D-1386-10	17649224	38109337	13195229	52	11614											
FAM47A	158724	broad.mit.edu	37	chrX	34148877	34148877	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccgacgagtcttgggaggctCcgagcggagactggacgtcc	7	6	16	12	5	1	1	0	0	1	1	3	7	3	3	3	4	1	1	3	4	0	1	rs5973088	byfrequency;by1000genomes	TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		G	34148877	G	G	34148877	3	3	213	1	0	0	0	0	1	0	0	0	5569	864	30	4	860	4	FAM47A	23	34148877	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10		34148877	121121683	53	11615											
PHF16	9767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	46887437	46887437	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgatctgtgatgtgtgcCggtctccagacagtgaagaa	10	11	13	7	1	2	5	0	3	2	2	3	5	2	5	2	1	1	0	2	1	2	0	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	46887437	C	T	46887437	3	4	213	1	0	0	0	0	1	0	0	0	11827	643	23	1	637	1	PHF16	23	46887437	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	12738560	46887437	108383123	54	11616											
TGIF2LX	90316	broad.mit.edu;hgsc.bcm.edu	37	chrX	89177557	89177557	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agacaatgtacaaagcctgcCcctgtggcccttgccaaagg	11	7	10	13	0	0	1	0	0	0	1	0	1	0	1	5	2	4	1	5	2	4	2	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	89177557	C	A	89177557	3	1	213	1	0	0	0	0	1	0	0	0	15826	623	22	4	475	4	TGIF2LX	23	89177557	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02D-1386-10	42290120	89177557	66093003	55	11617											
TBC1D8B	54885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	106093257	106093257	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgatattctgtaggtGccttggtggatcaggcagtc	6	16	12	7	0	3	1	1	1	2	0	4	2	3	2	1	4	1	2	1	4	2	6	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		A	106093257	G	A	106093257	3	1	213	1	0	0	0	0	1	0	0	0	15625	1319	46	2	1952	2	TBC1D8B	23	106093257	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	16915700	106093257	49177303	56	11618											
TAZ	6901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153649068	153649068	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctccgggcggagaacaaGtcggctgtgagtttcctcct	6	9	14	12	4	0	2	0	1	0	1	4	3	3	2	3	4	1	3	3	4	2	1	novel		TCGA-BP-4164-01A-02D-1386-10	TCGA-BP-4164-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	feb8c145-040a-40c0-96f6-a2b389073dd9	8eb5b726-ce04-4244-a453-0dfa12704f79		T	153649068	G	T	153649068	3	4	213	1	0	0	0	0	1	0	0	0	15595	1020	36	4	809	4	TAZ	23	153649068	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02D-1386-10	47555811	153649068	1621492	57	11619											
VHL	7428	hgsc.bcm.edu	37	chr3	10183646	10183646	+	Missense_Mutation	SNP	G	G	A																															agtcgggcgccgaggagtccGgcccggaagagtccggcccg																								novel		TCGA-BP-4164-01A-02W-1382-10	TCGA-BP-4164-11A-01W-1244-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	94a19895-3cda-423b-a794-6944be76cc68	61b19171-22fd-4ca7-ba5b-fc15b0003fd2		A	10183646	G	A	10183646	3	1	214	1	0	0	0	0	1	0	0	0	17161	1116	39	1	117	1	VHL	3	10183646	Missense_Mutation	SNP	G	TCGA-BP-4164-01A-02W-1382-10		10183646	187838784	1	11620	172	4									
VHL	7428	hgsc.bcm.edu	37	chr3	10183653	10183653	+	Missense_Mutation	SNP	A	A	G																															cgccgaggagtccggcccggAagagtccggcccggaggaac																								novel		TCGA-BP-4164-01A-02W-1382-10	TCGA-BP-4164-11A-01W-1244-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	94a19895-3cda-423b-a794-6944be76cc68	61b19171-22fd-4ca7-ba5b-fc15b0003fd2		G	10183653	A	G	10183653	3	3	214	1	0	0	0	0	1	0	0	0	17161	246	9	3	124	3	VHL	3	10183653	Missense_Mutation	SNP	A	TCGA-BP-4164-01A-02W-1382-10	7	10183653	187838777	2	11621	172	4									
VHL	7428	hgsc.bcm.edu	37	chr3	10183659	10183659	+	Missense_Mutation	SNP	C	C	T																															ggagtccggcccggaagagtCcggcccggaggaactgggcg																								novel		TCGA-BP-4164-01A-02W-1382-10	TCGA-BP-4164-11A-01W-1244-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	94a19895-3cda-423b-a794-6944be76cc68	61b19171-22fd-4ca7-ba5b-fc15b0003fd2		T	10183659	C	T	10183659	3	4	214	1	0	0	0	0	1	0	0	0	17161	855	30	2	130	2	VHL	3	10183659	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02W-1382-10	6	10183659	187838771	3	11622	172	4									
VHL	7428	hgsc.bcm.edu	37	chr3	10183665	10183665	+	Missense_Mutation	SNP	C	C	T																															cggcccggaagagtccggccCggaggaactgggcgccgagg																								novel		TCGA-BP-4164-01A-02W-1382-10	TCGA-BP-4164-11A-01W-1244-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	94a19895-3cda-423b-a794-6944be76cc68	61b19171-22fd-4ca7-ba5b-fc15b0003fd2		T	10183665	C	T	10183665	3	4	214	1	0	0	0	0	1	0	0	0	17161	652	23	1	136	1	VHL	3	10183665	Missense_Mutation	SNP	C	TCGA-BP-4164-01A-02W-1382-10	6	10183665	187838765	4	11623	172	4									
EXOSC10	5394	hgsc.bcm.edu	37	chr1	11159823	11159823	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctggcagcaccatctcTccgtcggatttggttgcgct	6	11	11	13	3	1	0	0	0	1	0	4	1	2	1	3	3	3	4	3	3	1	2	rs12133922	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	11159823	T	A	11159823	2	1	215	1	0	0	0	0	0	0	0	1	5314	1538	54	5		5	EXOSC10	1	11159823	Silent	SNP	T	TCGA-BP-4165-01A-02D-1366-10		11159823	238090798	1	11624											
PRAMEF10	343071	hgsc.bcm.edu	37	chr1	12955492	12955492	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggatcccagagggaggcTgaggaagggccaggcctgca	10	3	18	10	0	0	2	0	1	0	1	1	5	1	5	3	6	1	2	3	6	1	0	rs2743620	bycluster	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	12955492	T	G	12955492	3	3	215	1	0	0	0	0	1	0	0	0	12428	1580	55	5	1249	5	PRAMEF10	1	12955492	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	1795669	12955492	236295129	2	11625											
KIAA0754	643314	hgsc.bcm.edu;ucsc.edu	37	chr1	39876896	39876896	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaacagagtctgagctaaAgtttgaggaggatgagcgat	15	8	14	4	1	1	4	0	3	1	1	1	8	1	6	0	2	3	2	0	2	4	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	39876896	A	G	39876896	3	3	215	1	0	0	0	0	1	0	0	0	8192	72	3	3	961	3	KIAA0754	1	39876896	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	26921404	39876896	209373725	3	11626											
KIAA0467	0	hgsc.bcm.edu	37	chr1	43907706	43907706	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttcggcccttgttcccCtgggcaactgggcccctctc	3	11	10	17	1	2	0	0	0	2	0	5	1	3	0	5	3	1	2	5	3	1	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	43907706	C	G	43907706	3	3	215	1	0	0	0	0	1	0	0	0	8178	681	24	4	5235	4	KIAA0467	1	43907706	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	4030810	43907706	205342915	4	11627											
CYP4B1	1580	hgsc.bcm.edu;ucsc.edu	37	chr1	47284326	47284326	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcattgggcagcagtttgCcatgagtgagatgaaggtgg	9	10	16	6	0	0	3	0	3	0	1	0	4	0	3	1	3	3	4	1	3	1	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	47284326	C	T	47284326	3	4	215	1	0	0	0	0	1	0	0	0	4185	739	26	2	1425	2	CYP4B1	1	47284326	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	3376620	47284326	201966295	5	11628											
CDCP2	200008	hgsc.bcm.edu	37	chr1	54605320	54605320	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctggagaagaccattcatgGggggggcaggacaaactggt	11	6	17	7	0	1	2	1	0	0	2	1	4	1	3	1	7	1	2	1	7	2	1	rs75306471	bycluster	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	54605320	G	C	54605320	3	2	215	1	0	0	0	0	1	0	0	0	3094	1232	43	4	130	4	CDCP2	1	54605320	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	7320994	54605320	194645301	6	11629											
C8B	732	hgsc.bcm.edu;ucsc.edu	37	chr1	57395209	57395209	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccaatttgaccagcaattCcacttcccatcaatgggggt	11	10	8	12	0	1	1	1	1	0	0	3	2	3	1	4	2	1	1	4	2	3	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	57395209	C	A	57395209	3	1	215	1	0	0	0	0	1	0	0	0	2417	856	30	4	135	4	C8B	1	57395209	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	2789889	57395209	191855412	7	11630											
ALG14	199857	hgsc.bcm.edu	37	chr1	95538419	95538419	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaggaaaaccgccacagcTcctgcggccgcagctagaac	12	5	10	14	3	0	1	0	0	0	1	1	2	1	2	4	2	5	3	4	2	5	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	95538419	T	A	95538419	2	1	215	1	0	0	0	0	0	0	0	1	516	1538	54	5		5	ALG14	1	95538419	Silent	SNP	T	TCGA-BP-4165-01A-02D-1366-10	38143210	95538419	153712202	8	11631											
RBM15	64783	hgsc.bcm.edu	37	chr1	110882645	110882645	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagtgtgaaaatcagtcaTctgtcgggttctggcagcgg	9	11	14	7	2	4	1	2	1	2	0	5	1	4	1	0	3	1	3	0	3	3	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	110882645	T	C	110882645	2	2	215	1	0	0	0	0	0	0	0	1	13118	1432	50	3		3	RBM15	1	110882645	Silent	SNP	T	TCGA-BP-4165-01A-02D-1366-10	15344226	110882645	138367976	9	11632											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144871742	144871742	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagctcctgctgagcctcAgccaaggagaccactggtgt	8	9	12	12	0	1	2	1	1	0	1	2	3	2	2	4	2	4	3	4	2	2	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	144871742	A	T	144871742	2	4	215	1	0	0	0	0	0	0	0	1	11643	175	7	5		5	PDE4DIP	1	144871742	Silent	SNP	A	TCGA-BP-4165-01A-02D-1366-10	33989097	144871742	104378879	10	11633											
SPRR2A	6700	hgsc.bcm.edu;ucsc.edu	37	chr1	153029010	153029010	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgttacttgctcttcggtgGatactttgactggcagggtg	5	15	13	8	1	1	1	0	1	1	0	2	2	1	2	0	4	3	3	0	4	2	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	153029010	G	A	153029010	3	1	215	1	0	0	0	0	1	0	0	0	15098	1174	41	2	20	2	SPRR2A	1	153029010	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	8157268	153029010	96221611	11	11634											
OR6N1	128372	hgsc.bcm.edu;ucsc.edu	37	chr1	158735945	158735945	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggaagtcacaaaagacGtgctgaatgcgattggggcc	12	6	16	7	2	1	2	1	1	0	1	1	5	1	4	1	4	2	1	1	4	4	1	rs138618527	byfrequency	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	158735945	G	A	158735945	2	1	215	1	0	0	0	0	0	0	0	1	11206	1136	40	1		1	OR6N1	1	158735945	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	5706935	158735945	90514676	12	11635											
C1orf110	339512	hgsc.bcm.edu	37	chr1	162829286	162829286	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttctttttggagctgccTctgctcccaggtcagcaatt	6	14	9	12	0	3	0	1	0	2	0	4	1	4	1	2	2	4	4	2	2	1	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	162829286	T	C	162829286	3	2	215	1	0	0	0	0	1	0	0	0	1983	1550	54	3	769	3	C1orf110	1	162829286	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	4093341	162829286	86421335	13	11636											
ZBTB37	84614	hgsc.bcm.edu	37	chr1	173839525	173839525	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggtgctggctgccagctcCccctatttccgggatcacat	5	11	11	14	1	1	0	1	0	0	0	3	1	3	1	4	3	3	3	4	3	1	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	173839525	C	G	173839525	2	3	215	1	0	0	0	0	0	0	0	1	17537	610	22	4		4	ZBTB37	1	173839525	Silent	SNP	C	TCGA-BP-4165-01A-02D-1366-10	11010239	173839525	75411096	14	11637											
ZP4	57829	hgsc.bcm.edu	37	chr1	238053368	238053368	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactcacccactcagtgacaTagcagctgctataggttgcc	10	10	8	13	0	2	1	2	1	0	0	2	1	2	1	2	1	5	4	2	1	4	5	rs183324278	by1000genomes	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	238053368	T	C	238053368	3	2	215	1	0	0	0	0	1	0	0	0	18217	1406	49	3	1382	3	ZP4	1	238053368	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	64213843	238053368	11197253	15	11638											
GCKR	2646	hgsc.bcm.edu	37	chr2	27730176	27730176	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggctgagctcaccaacCaggtcggagaagaacaggac	15	3	13	10	1	1	4	1	1	0	3	2	6	1	5	2	4	3	2	2	4	4	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	27730176	C	T	27730176	4	4	215	1	0	0	0	0	0	1	0	0	6294	595	21	2	1191	2	GCKR	2	27730176	Nonsense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10		27730176	215469197	16	11639											
SLC3A1	6519	hgsc.bcm.edu	37	chr2	44508564	44508564	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcataccaaaccacacgAgtgataaacatatttggttt	15	13	5	8	1	1	1	1	1	0	0	1	2	1	1	2	1	3	1	2	1	5	6	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	44508564	A	T	44508564	3	4	215	1	0	0	0	0	1	0	0	0	14628	304	11	5	659	5	SLC3A1	2	44508564	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	16778388	44508564	198690809	17	11640											
USP34	9736	hgsc.bcm.edu;ucsc.edu	37	chr2	61454297	61454297	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctgccagagagaggatAtcttcttcctcctcttcttc	6	16	6	13	0	6	2	0	0	6	2	9	4	8	3	3	1	1	0	3	1	1	6	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	61454297	A	C	61454297	3	2	215	1	0	0	0	0	1	0	0	0	17064	446	16	5	3216	5	USP34	2	61454297	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	16945733	61454297	181745076	18	11641											
STARD7	56910	hgsc.bcm.edu;ucsc.edu	37	chr2	96860708	96860708	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactcacctgaacattgaaGaactgccgaggtgtcacatc	13	9	8	11	1	2	3	2	2	0	1	3	4	2	3	2	1	4	0	2	1	4	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	96860708	G	T	96860708	3	4	215	1	0	0	0	0	1	0	0	0	15263	933	33	4	599	4	STARD7	2	96860708	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	35406411	96860708	146338665	19	11642											
PID1	55022	hgsc.bcm.edu;ucsc.edu	37	chr2	229890657	229890657	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctcccctttgtggtcGagatgatggagccaaacttg	7	11	13	10	1	0	2	0	1	0	1	2	4	1	3	4	3	2	0	4	3	1	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	229890657	G	T	229890657	2	4	215	1	0	0	0	0	0	0	0	1	11882	1045	37	4		4	PID1	2	229890657	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	133029949	229890657	13308716	20	11643											
SP110	3431	hgsc.bcm.edu;ucsc.edu	37	chr2	231033926	231033926	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaaattctgcctctaagtCaagtcctacctggccaaagt	11	12	6	12	0	4	0	2	0	2	0	5	0	5	0	4	1	2	0	4	1	5	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	231033926	C	T	231033926	3	4	215	1	0	0	0	0	1	0	0	0	14963	826	29	2	89	2	SP110	2	231033926	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	1143269	231033926	12165447	21	11644											
CCNL1	57018	hgsc.bcm.edu	37	chr3	156877717	156877717	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctccggaatcagagagTggtcgatggtaagtgaaact	11	10	12	8	2	2	2	1	1	1	1	5	5	3	3	2	3	1	1	2	3	3	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	156877717	T	A	156877717	3	1	215	1	0	0	0	0	1	0	0	0	2931	1696	59	5	1457	5	CCNL1	3	156877717	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10		156877717	41144713	22	11645											
KIT	3815	hgsc.bcm.edu	37	chr4	55524186	55524186	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcagctaccgcgatgaGaggcgctcgcggcgcctggg	6	5	16	14	7	0	1	0	1	0	1	2	3	0	1	2	3	2	3	2	3	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	55524186	G	T	55524186	3	4	215	1	0	0	0	0	1	0	0	0	8329	942	33	4	7	4	KIT	4	55524186	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		55524186	135630090	23	11646											
SRD5A3	79644	hgsc.bcm.edu;ucsc.edu	37	chr4	56236195	56236195	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctttctcagccaccaattCtacaaaagcaaatttgtctc	12	12	4	13	0	3	0	1	0	3	0	5	0	3	0	3	0	3	1	3	0	5	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	56236195	C	T	56236195	2	4	215	1	0	0	0	0	0	0	0	1	15141	912	32	2		2	SRD5A3	4	56236195	Silent	SNP	C	TCGA-BP-4165-01A-02D-1366-10	712009	56236195	134918081	24	11647											
PALLD	23022	hgsc.bcm.edu	37	chr4	169842820	169842820	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagtcacgtcacgtgatGccggcatctacacatgtata	11	9	9	12	3	3	1	2	1	1	0	3	1	3	1	2	1	3	2	2	1	3	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	169842820	G	A	169842820	3	1	215	1	0	0	0	0	1	0	0	0	11407	1319	46	2	3559	2	PALLD	4	169842820	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	113606625	169842820	21311456	25	11648											
CMBL	134147	hgsc.bcm.edu;ucsc.edu	37	chr5	10290761	10290761	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagctttgcctgcatcaacGggggatttggtgacataagc	10	10	12	9	1	1	1	1	1	0	0	1	2	1	2	1	3	5	2	1	3	2	3	rs146175625	bycluster;byfrequency;by1000genomes	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	10290761	G	A	10290761	2	1	215	1	0	0	0	0	0	0	0	1	3576	1103	39	1		1	CMBL	5	10290761	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10		10290761	170624499	26	11649											
AGXT2	64902	hgsc.bcm.edu;ucsc.edu	37	chr5	35025932	35025932	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcttcctttagaaaccccTttgggtactggacaactcca	10	11	8	12	0	0	1	0	0	0	1	2	2	2	2	4	3	3	2	4	3	4	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	35025932	T	G	35025932	3	3	215	1	0	0	0	0	1	0	0	0	405	1609	56	5	669	5	AGXT2	5	35025932	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	24735171	35025932	145889328	27	11650											
ENC1	8507	hgsc.bcm.edu	37	chr5	73930904	73930904	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggtacagtccacctgttTtcacactgatcgtaacactg	9	11	8	13	2	1	1	1	1	0	0	3	1	2	1	3	1	2	3	3	1	2	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	73930904	T	G	73930904	3	3	215	1	0	0	0	0	1	0	0	0	5113	1838	64	5	366	5	ENC1	5	73930904	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	38904972	73930904	106984356	28	11651											
FBN2	2201	hgsc.bcm.edu;ucsc.edu	37	chr5	127712442	127712442	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagtacagtaacgcccatTtggagccaagacaaatcctg	14	7	8	12	1	0	1	0	0	0	1	1	2	1	2	4	1	3	2	4	1	4	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	127712442	T	A	127712442	3	1	215	1	0	0	0	0	1	0	0	0	5703	1841	64	5	6992	5	FBN2	5	127712442	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	53781538	127712442	53202818	29	11652											
THOC3	84321	hgsc.bcm.edu	37	chr5	175392006	175392006	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggaagaacatattattgtCattgttccaggagatttcgt	12	14	9	6	1	1	2	1	0	0	2	3	4	2	3	1	2	1	1	1	2	4	6	rs3185226		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	175392006	C	T	175392006	3	4	215	1	0	0	0	0	1	0	0	0	15865	826	29	2	494	2	THOC3	5	175392006	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	47679564	175392006	5523254	30	11653											
GPRIN1	114787	hgsc.bcm.edu	37	chr5	176024673	176024673	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaactgcctggaggaggaGgacggcttggtcttctccag	7	10	14	10	1	3	0	0	0	3	0	4	4	3	4	2	6	2	1	2	6	1	3	rs150980841	alternate_allele	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	176024673	G	C	176024673	2	2	215	1	0	0	0	0	0	0	0	1	6729	987	35	4		4	GPRIN1	5	176024673	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	632667	176024673	4890587	31	11654											
ZNF454	285676	hgsc.bcm.edu;ucsc.edu	37	chr5	178373911	178373911	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaggactcttaggaccCaaaccagatacgttttccca	15	8	6	12	1	1	1	0	0	1	1	2	3	2	3	3	2	3	1	3	2	5	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	178373911	C	G	178373911	2	3	215	1	0	0	0	0	0	0	0	1	17922	581	21	4		4	ZNF454	5	178373911	Silent	SNP	C	TCGA-BP-4165-01A-02D-1366-10	2349238	178373911	2541349	32	11655											
MYLK4	340156	hgsc.bcm.edu	37	chr6	2685575	2685575	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttagactcgaaggcatcgTacagctggatgaggttcgcg	9	10	13	9	4	1	2	0	1	1	1	4	4	1	3	0	3	2	4	0	3	3	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	2685575	T	C	2685575	3	2	215	1	0	0	0	0	1	0	0	0	10059	1638	57	3	694	3	MYLK4	6	2685575	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10		2685575	168429492	33	11656											
ALDH5A1	7915	hgsc.bcm.edu	37	chr6	24520670	24520670	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactctgtgaaaagggtctcTatggagctgggcggccttgc	8	10	14	9	1	2	1	0	1	2	0	3	2	2	2	1	4	3	1	1	4	4	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	24520670	T	C	24520670	2	2	215	1	0	0	0	0	0	0	0	1	502	1509	53	3		3	ALDH5A1	6	24520670	Silent	SNP	T	TCGA-BP-4165-01A-02D-1366-10	21835095	24520670	146594397	34	11657											
OR2B2	81697	hgsc.bcm.edu	37	chr6	27879581	27879581	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acagaagaagtgatccacttCtttgtgaccacacagtggca	13	9	9	10	0	1	4	0	2	1	2	2	4	2	4	2	1	0	1	2	1	2	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	27879581	C	G	27879581	3	3	215	1	0	0	0	0	1	0	0	0	10989	922	32	4	560	4	OR2B2	6	27879581	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	3358911	27879581	143235486	35	11658											
OR2B3	442184	hgsc.bcm.edu	37	chr6	29054494	29054494	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtgcaggcacctcacagaAaaagtggtccacttcctggt	12	8	10	11	0	1	1	1	0	0	1	3	1	3	1	3	3	1	2	3	3	3	1	rs181892071	by1000genomes	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	29054494	A	C	29054494	3	2	215	1	0	0	0	0	1	0	0	0	10990	14	1	5	413	5	OR2B3	6	29054494	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	1174913	29054494	142060573	36	11659											
UHRF1BP1	54887	hgsc.bcm.edu	37	chr6	34826902	34826902	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagtctgatgcctcatcagaCcagggcccagcaagccctga	11	6	10	14	0	3	3	2	2	1	1	3	3	3	3	4	1	3	1	4	1	2	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	34826902	C	G	34826902	3	3	215	1	0	0	0	0	1	0	0	0	16967	506	18	4	2823	4	UHRF1BP1	6	34826902	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	5772408	34826902	136288165	37	11660											
PNRC1	10957	hgsc.bcm.edu	37	chr6	89793882	89793882	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagggagctgatggcagtAcacttaaaaacgctcctcaa	15	7	9	10	1	1	1	1	1	0	0	2	2	2	2	1	2	4	4	1	2	6	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	89793882	A	G	89793882	2	3	215	1	0	0	0	0	0	0	0	1	12174	378	14	3		3	PNRC1	6	89793882	Silent	SNP	A	TCGA-BP-4165-01A-02D-1366-10	54966980	89793882	81321185	38	11661											
PREP	5550	hgsc.bcm.edu;ucsc.edu	37	chr6	105729690	105729690	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtccaagcatggccgatgGtatatttatgaaacttcagc	11	12	10	8	1	1	1	1	1	0	0	2	2	2	1	2	3	3	2	2	3	5	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	105729690	G	T	105729690	3	4	215	1	0	0	0	0	1	0	0	0	12476	1261	44	4	371	4	PREP	6	105729690	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	15935808	105729690	65385377	39	11662											
ABHD11	83451	hgsc.bcm.edu	37	chr7	73153111	73153111	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggagcatgcttgcaagcTgttggccggctcgcatctca	7	9	13	12	3	1	0	1	0	1	0	3	1	1	1	1	3	5	7	1	3	1	2	rs111275772		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	73153111	T	C	73153111	3	2	215	1	0	0	0	0	1	0	0	0	75	1580	55	3	1225	3	ABHD11	7	73153111	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10		73153111	85985552	40	11663											
LAT2	7462	hgsc.bcm.edu;ucsc.edu	37	chr7	73638987	73638987	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcaactccagagagaagCatcccctggcccggtgggaa	11	4	14	12	1	0	2	0	0	0	2	2	4	2	3	4	4	2	2	4	4	3	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	73638987	C	A	73638987	3	1	215	1	0	0	0	0	1	0	0	0	8645	710	25	4	689	4	LAT2	7	73638987	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	485876	73638987	85499676	41	11664											
UPK3B	80761	hgsc.bcm.edu	37	chr7	76143372	76143372	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctactcttggccttctTggcagcctctaccatgcgct	4	13	7	17	1	3	0	0	0	3	0	4	0	4	0	5	2	4	2	5	2	2	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	76143372	T	C	76143372	3	2	215	1	0	0	0	0	1	0	0	0	17010	1821	63	3	829	3	UPK3B	7	76143372	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	2504385	76143372	82995291	42	11665											
GIMAP2	26157	hgsc.bcm.edu;ucsc.edu	37	chr7	150390179	150390179	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaggagccttaatcaaaAcacaactgtgtgttttattt	15	14	6	6	0	1	0	1	0	0	0	1	1	1	1	1	1	3	1	1	1	7	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	150390179	A	C	150390179	3	2	215	1	0	0	0	0	1	0	0	0	6380	43	2	5	811	5	GIMAP2	7	150390179	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	74246807	150390179	8748484	43	11666											
FASTK	10922	hgsc.bcm.edu	37	chr7	150773915	150773915	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggactccagttcctcgaagGgtagctgtggggagaggaga	9	7	18	7	1	0	2	0	0	0	2	3	6	2	3	2	5	1	3	2	5	2	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	150773915	G	C	150773915	3	2	215	1	0	0	0	0	1	0	0	0	5684	1232	43	4	106	4	FASTK	7	150773915	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	383736	150773915	8364748	44	11667											
ANK1	286	hgsc.bcm.edu	37	chr8	41577248	41577248	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accctgtggtgtccacagtgGgcagccacgtggagtggggt	6	8	17	10	1	0	0	0	0	0	0	1	1	1	1	3	5	1	1	3	5	0	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	41577248	G	T	41577248	2	4	215	1	0	0	0	0	0	0	0	1	620	1219	43	4		4	ANK1	8	41577248	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10		41577248	104786774	45	11668											
MATN2	4147	hgsc.bcm.edu;ucsc.edu	37	chr8	99030307	99030307	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacacgtgcgagtgcttggaGggattccggctcgctgagga	7	9	16	9	4	0	1	0	1	0	0	2	5	1	4	1	4	3	3	1	4	1	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	99030307	G	A	99030307	2	1	215	1	0	0	0	0	0	0	0	1	9334	991	35	2		2	MATN2	8	99030307	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	57453059	99030307	47333715	46	11669											
SPAG1	6674	hgsc.bcm.edu;ucsc.edu	37	chr8	101237526	101237526	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagagatgatctcaaaacAagcaggagactccagcagcc	18	4	9	10	0	1	3	1	1	1	2	3	5	2	3	2	1	4	2	2	1	5	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	101237526	A	T	101237526	3	4	215	1	0	0	0	0	1	0	0	0	14977	130	5	5	1864	5	SPAG1	8	101237526	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	2207219	101237526	45126496	47	11670											
ADCY8	114	hgsc.bcm.edu	37	chr8	131916200	131916200	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgatattatgcttcctcaGgaattcattcctctctttac	8	18	4	11	1	3	0	2	0	1	0	7	2	5	1	2	1	2	1	2	1	4	8	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	131916200	G	C	131916200	3	2	215	1	0	0	0	0	1	0	0	0	300	991	35	4	2074	4	ADCY8	8	131916200	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	30678674	131916200	14447822	48	11671											
ST3GAL1	6482	hgsc.bcm.edu	37	chr8	134488010	134488010	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagcgcgttctgggcggtCagcagcggctgcatggtctg	6	8	17	10	4	3	1	1	0	2	1	3	1	3	1	0	4	4	4	0	4	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	134488010	C	T	134488010	2	4	215	1	0	0	0	0	0	0	0	1	15215	813	29	2		2	ST3GAL1	8	134488010	Silent	SNP	C	TCGA-BP-4165-01A-02D-1366-10	2571810	134488010	11876012	49	11672											
ZNF623	9831	hgsc.bcm.edu;ucsc.edu	37	chr8	144732667	144732667	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagaaaagcccttcaaaTgtgcgcagtgtgggaaggcg	12	6	15	8	2	1	1	1	0	0	1	1	3	1	2	1	3	2	1	1	3	4	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	144732667	T	A	144732667	3	1	215	1	0	0	0	0	1	0	0	0	18046	1464	51	5	627	5	ZNF623	8	144732667	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	10244657	144732667	1631355	50	11673											
SLC39A4	55630	hgsc.bcm.edu	37	chr8	145638895	145638895	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggtcgccccctgggctcAcctgggctcagtctcctggg	2	8	15	16	2	3	0	2	0	1	0	5	0	3	0	4	5	0	2	4	5	0	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	145638895	A	C	145638895	5	2	215	1	0	0	0	0	0	0	1	0	14622	173	6	5	483	5	SLC39A4	8	145638895	Splice_Site	SNP	A	TCGA-BP-4165-01A-02D-1366-10	906228	145638895	725127	51	11674											
C9orf125	0	hgsc.bcm.edu;ucsc.edu	37	chr9	104239229	104239229	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggcgcagatagaagtaaGagtgtagaagtcggtgacag	15	7	15	4	2	0	5	0	1	0	4	1	5	0	5	0	2	0	3	0	2	6	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	104239229	G	T	104239229	3	4	215	1	0	0	0	0	1	0	0	0	2454	942	33	4	1069	4	C9orf125	9	104239229	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		104239229	36974202	52	11675											
TTLL11	158135	hgsc.bcm.edu;ucsc.edu	37	chr9	124794125	124794125	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtaattttacgcaccatCtccgtcatgcctggggagaa	11	10	10	10	2	2	2	1	0	1	2	3	3	2	2	3	2	2	2	3	2	3	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	124794125	C	A	124794125	3	1	215	1	0	0	0	0	1	0	0	0	16723	912	32	4	1668	4	TTLL11	9	124794125	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	20554896	124794125	16419306	53	11676											
C9orf106	414318	hgsc.bcm.edu	37	chr9	132084485	132084485	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgaccctggcagccaggtAgagccatcttggccatggca	8	8	13	12	0	1	2	0	1	1	1	1	2	1	2	4	4	2	3	4	4	1	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	132084485	A	T	132084485	2	4	215	1	0	0	0	0	0	0	0	1	2447	407	15	5		5	C9orf106	9	132084485	Silent	SNP	A	TCGA-BP-4165-01A-02D-1366-10	7290360	132084485	9128946	54	11677											
FAM188A	80013	hgsc.bcm.edu;ucsc.edu	37	chr10	15880262	15880262	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcgctcaaagccaagctcTtcgacagccaaggcagctat	13	7	8	13	2	2	0	1	0	1	0	4	1	2	0	2	1	4	4	2	1	5	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	15880262	T	A	15880262	3	1	215	1	0	0	0	0	1	0	0	0	5514	1606	56	5	955	5	FAM188A	10	15880262	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10		15880262	119654485	55	11678											
CUBN	8029	hgsc.bcm.edu;ucsc.edu	37	chr10	17126413	17126413	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagacaactcaggcaagaAgagttcaccctctgggtccg	11	6	10	14	1	3	3	2	0	1	3	4	3	4	3	3	2	1	2	3	2	3	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	17126413	A	C	17126413	3	2	215	1	0	0	0	0	1	0	0	0	4051	72	3	5	8917	5	CUBN	10	17126413	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	1246151	17126413	118408334	56	11679											
CTBP2	1488	hgsc.bcm.edu	37	chr10	126682443	126682443	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgaagggctctgactcatGcacgtcgagggctgcccctc	6	8	12	15	2	2	2	1	2	1	0	4	3	2	2	3	2	2	3	3	2	1	0	rs76582415	bycluster	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	126682443	G	T	126682443	3	4	215	1	0	0	0	0	1	0	0	0	3998	1319	46	4	461	4	CTBP2	10	126682443	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	109556030	126682443	8852304	57	11680											
EBF3	253738	hgsc.bcm.edu	37	chr10	131671768	131671768	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgggtctaggcggcgggcCcgcctcccgtgtttggaatt	4	9	16	12	5	1	0	0	0	1	0	2	2	2	1	3	5	0	1	3	5	2	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	131671768	C	A	131671768	2	1	215	1	0	0	0	0	0	0	0	1	4882	610	22	4		4	EBF3	10	131671768	Silent	SNP	C	TCGA-BP-4165-01A-02D-1366-10	4989325	131671768	3862979	58	11681											
SPTBN2	6712	hgsc.bcm.edu;ucsc.edu	37	chr11	66481623	66481623	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagctggtggtgaagttgtGtacattgacgttgggataac	9	12	14	6	1	0	2	0	2	0	0	0	3	0	3	1	3	3	4	1	3	3	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	66481623	G	A	66481623	3	1	215	1	0	0	0	0	1	0	0	0	15121	1377	48	2	6705	2	SPTBN2	11	66481623	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		66481623	68524893	59	11682											
MYO7A	4647	hgsc.bcm.edu;ucsc.edu	37	chr11	76873961	76873961	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagctcaacgccaactacatCccccccaagaacaaccatga	16	4	4	17	1	1	2	1	1	0	1	2	2	2	2	5	0	6	1	5	0	7	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	76873961	C	T	76873961	2	4	215	1	0	0	0	0	0	0	0	1	10082	845	30	2		2	MYO7A	11	76873961	Silent	SNP	C	TCGA-BP-4165-01A-02D-1366-10	10392338	76873961	58132555	60	11683											
ENO2	2026	hgsc.bcm.edu	37	chr12	7031310	7031310	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcattgctgacctggtggtgGggctgtgcacaggccaggtg	5	10	17	9	0	1	1	1	1	0	0	1	1	1	1	2	6	2	3	2	6	0	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	7031310	G	T	7031310	3	4	215	1	0	0	0	0	1	0	0	0	5122	1232	43	4	1193	4	ENO2	12	7031310	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		7031310	126820585	61	11684											
KRT71	112802	hgsc.bcm.edu	37	chr12	52946779	52946779	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcccggaaggaggatgagCtgccccctgagagcacagct	9	5	14	13	1	0	2	0	2	0	1	0	6	0	5	3	3	5	3	3	3	1	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	52946779	C	T	52946779	3	4	215	1	0	0	0	0	1	0	0	0	8484	797	28	2	1524	2	KRT71	12	52946779	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	45915469	52946779	80905116	62	11685											
GEFT	0	hgsc.bcm.edu;ucsc.edu	37	chr12	58008143	58008143	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagagctacaacggtgtcTgaaagatcctgattggctgg	11	9	13	8	1	1	4	0	2	1	2	2	4	2	4	1	3	3	3	1	3	4	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	58008143	T	A	58008143	3	1	215	1	0	0	0	0	1	0	0	0	6328	1580	55	5	934	5	GEFT	12	58008143	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	5061364	58008143	75843752	63	11686											
AMDHD1	144193	hgsc.bcm.edu	37	chr12	96350642	96350642	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggatatggcctcgacctGgagaccgagctcaagatgct	10	8	13	10	2	1	2	1	0	0	2	2	6	1	3	3	3	2	2	3	3	2	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	96350642	G	T	96350642	2	4	215	1	0	0	0	0	0	0	0	1	567	1335	47	4		4	AMDHD1	12	96350642	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	38342499	96350642	37501253	64	11687											
RNF34	80196	hgsc.bcm.edu	37	chr12	121861336	121861336	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagtgagtgtcccatctGccggcagtatgtggtgcgag	7	10	15	9	2	1	2	0	2	1	0	2	3	2	2	2	2	2	2	2	2	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	121861336	G	A	121861336	3	1	215	1	0	0	0	0	1	0	0	0	13491	1319	46	2	1111	2	RNF34	12	121861336	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	25510694	121861336	11990559	65	11688											
RPGRIP1	57096	hgsc.bcm.edu;ucsc.edu	37	chr14	21771501	21771501	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatttagtgtttctggttCtaacagcataatttctttca	9	20	6	6	0	4	0	1	0	3	0	4	0	4	0	0	1	2	4	0	1	4	9	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	21771501	C	A	21771501	3	1	215	1	0	0	0	0	1	0	0	0	13551	913	32	4	617	4	RPGRIP1	14	21771501	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10		21771501	85578039	66	11689											
GOLGA5	9950	hgsc.bcm.edu	37	chr14	93282749	93282749	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgggccagatacatcagCtcagatccgaattacaggta	13	9	10	9	1	2	3	2	1	0	2	3	4	3	3	2	2	3	2	2	2	4	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	93282749	C	A	93282749	3	1	215	1	0	0	0	0	1	0	0	0	6556	797	28	4	1496	4	GOLGA5	14	93282749	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	71511248	93282749	14066791	67	11690											
FBN1	2200	hgsc.bcm.edu;ucsc.edu	37	chr15	48787391	48787391	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcactgggactttaaggtgGctccattgatgttgatctca	9	13	11	8	0	1	2	1	2	1	0	3	3	2	3	1	3	1	3	1	3	1	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	48787391	G	T	48787391	3	4	215	1	0	0	0	0	1	0	0	0	5702	1203	42	4	6189	4	FBN1	15	48787391	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		48787391	53744001	68	11691											
PLIN1	5346	hgsc.bcm.edu	37	chr15	90210173	90210173	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtggtactcaccggcacGtaatgcaccactgtgtccac	8	8	12	13	2	1	0	1	0	0	0	2	0	2	0	3	4	2	4	3	4	2	2	rs151265993		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	90210173	G	A	90210173	2	1	215	1	0	0	0	0	0	0	0	1	12089	1140	40	1		1	PLIN1	15	90210173	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	41422782	90210173	12321219	69	11692											
ANPEP	290	hgsc.bcm.edu	37	chr15	90342493	90342493	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcggagcactcacctGgccaggttgaaggcgtcatt	9	7	14	11	2	2	1	2	1	0	0	2	2	2	2	2	5	2	3	2	5	1	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	90342493	G	C	90342493	2	2	215	1	0	0	0	0	0	0	0	1	710	1335	47	4		4	ANPEP	15	90342493	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	132320	90342493	12188899	70	11693											
IQGAP1	8826	hgsc.bcm.edu;ucsc.edu	37	chr15	90991847	90991847	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgacctggctttagaacaagGagatgcactggccttgttca	10	10	11	10	1	1	2	1	0	0	2	1	4	1	2	2	3	2	3	2	3	3	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	90991847	G	C	90991847	3	2	215	1	0	0	0	0	1	0	0	0	7814	1174	41	4	994	4	IQGAP1	15	90991847	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	649354	90991847	11539545	71	11694											
RRAD	6236	hgsc.bcm.edu	37	chr16	66956063	66956063	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctacgatgcggcccaaGaagcgcttcgcctttttgcc	7	9	11	14	5	0	1	0	0	0	1	1	3	0	1	3	1	5	2	3	1	3	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	66956063	G	T	66956063	3	4	215	1	0	0	0	0	1	0	0	0	13673	933	33	4	87	4	RRAD	16	66956063	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		66956063	23398690	72	11695											
ZFHX3	463	hgsc.bcm.edu	37	chr16	72991372	72991372	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcccggcgggatccagctgGaatccgctcatcatgaactg	8	7	13	13	3	2	1	2	1	0	0	4	3	4	3	3	4	2	2	3	4	2	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	72991372	G	T	72991372	3	4	215	1	0	0	0	0	1	0	0	0	17633	1165	41	4	8474	4	ZFHX3	16	72991372	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	6035309	72991372	17363381	73	11696											
GSG2	83903	hgsc.bcm.edu	37	chr17	3628888	3628888	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagtgtgcaaccgcacAgaaggctttatcgggctgaa	11	8	14	8	2	0	3	0	2	0	1	1	3	0	3	1	3	2	4	1	3	5	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	3628888	A	C	3628888	2	2	215	1	0	0	0	0	0	0	0	1	6822	175	7	5		5	GSG2	17	3628888	Silent	SNP	A	TCGA-BP-4165-01A-02D-1366-10		3628888	77566322	74	11697											
GPR172B	0	hgsc.bcm.edu	37	chr17	4936580	4936582	+	In_Frame_Del	DEL	GCC	GCC	-																															aggaccacccctgcagtggtGcccaccaggggtgggcaggg																								novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	GCC	GCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		-	4936582	GCC	-	4936580	7	5	215	1	0	1	0	1	0	0	0	0	6670	1306	46	0	244	0	GPR172B	17	4936580	In_Frame_Del	DEL	GCC	TCGA-BP-4165-01A-02D-1366-10	1307692	4936580	76258630	75	11698											
AURKB	9212	hgsc.bcm.edu	37	chr17	8110133	8110133	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgtagagctccccgcgggGggcatactctagaatcaagt	9	9	12	11	2	2	2	1	0	1	2	3	2	3	2	2	3	2	3	2	3	5	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	8110133	G	C	8110133	3	2	215	1	0	0	0	0	1	0	0	0	1223	1232	43	4	578	4	AURKB	17	8110133	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	3173553	8110133	73085077	76	11699											
MYO15A	51168	hgsc.bcm.edu	37	chr17	18057187	18057187	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggctatcaggacgcccccTggaagatcttcctgcgcaaa	10	7	10	14	3	2	1	1	0	1	1	3	3	3	3	3	3	1	2	3	3	3	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	18057187	T	G	18057187	3	3	215	1	0	0	0	0	1	0	0	0	10063	1580	55	5	8227	5	MYO15A	17	18057187	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	9947054	18057187	63138023	77	11700											
GIT1	28964	hgsc.bcm.edu	37	chr17	27902652	27902652	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccagggagcctcaccccaGcagtgggtccccactttgcg	7	6	11	17	1	1	0	1	0	0	0	2	1	2	1	6	2	3	1	6	2	0	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	27902652	G	C	27902652	3	2	215	1	0	0	0	0	1	0	0	0	6396	962	34	4	479	4	GIT1	17	27902652	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	9845465	27902652	53292558	78	11701											
CACNB1	782	hgsc.bcm.edu	37	chr17	37347804	37347804	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggtcctcctccagagataCatcagagtctgatggacggc	9	8	11	13	2	2	3	1	1	1	2	5	5	5	4	4	3	1	0	4	3	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	37347804	C	G	37347804	3	3	215	1	0	0	0	0	1	0	0	0	2552	478	17	4	1894	4	CACNB1	17	37347804	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	9445152	37347804	43847406	79	11702											
STAC2	342667	hgsc.bcm.edu	37	chr17	37374147	37374147	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggtggcacagctcacAagggctagctcgcttgaaga	10	7	14	10	1	1	2	1	1	0	1	2	3	1	2	0	3	3	6	0	3	3	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	37374147	A	G	37374147	3	3	215	1	0	0	0	0	1	0	0	0	15241	130	5	3	905	3	STAC2	17	37374147	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	26343	37374147	43821063	80	11703											
KRT37	8688	hgsc.bcm.edu	37	chr17	39579168	39579168	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctccaccagctggtgaagGgagcgctcactctccagcct	7	7	11	16	1	2	1	1	1	1	0	4	2	3	2	5	2	3	2	5	2	1	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	39579168	G	C	39579168	2	2	215	1	0	0	0	0	0	0	0	1	8474	1219	43	4		4	KRT37	17	39579168	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	2205021	39579168	41616042	81	11704											
AOC2	314	hgsc.bcm.edu;ucsc.edu	37	chr17	40997960	40997960	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccttcgaaggcaccacaaTtaccttcaaaatcatttcta	13	11	3	14	1	3	0	2	0	1	0	4	1	3	0	4	1	1	1	4	1	6	5	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	40997960	T	G	40997960	3	3	215	1	0	0	0	0	1	0	0	0	727	1490	52	5	1319	5	AOC2	17	40997960	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10	1418792	40997960	40197250	82	11705											
MTMR4	9110	hgsc.bcm.edu	37	chr17	56584196	56584196	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttttgaggagctgctGtgctctccactccagagcac	7	10	11	13	0	1	2	0	1	1	1	3	3	2	3	2	1	5	6	2	1	0	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	56584196	G	C	56584196	3	2	215	1	0	0	0	0	1	0	0	0	9946	1377	48	4	2728	4	MTMR4	17	56584196	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	15586236	56584196	24611014	83	11706											
DLGAP1	9229	hgsc.bcm.edu	37	chr18	3742493	3742493	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actccggatctggagtttggGtgagtgttcattggagattc	7	14	14	6	1	2	2	1	1	1	1	4	5	3	4	1	4	0	2	1	4	0	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	3742493	G	A	3742493	3	1	215	1	0	0	0	0	1	0	0	0	4559	1261	44	2	1773	2	DLGAP1	18	3742493	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		3742493	74334755	84	11707											
PLIN4	729359	hgsc.bcm.edu	37	chr19	4511746	4511746	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatggcccctttggccacAttcgcagcaccggtcacccc	6	8	10	17	2	1	0	1	0	0	0	2	1	1	1	6	4	1	2	6	4	0	2	rs62115192	bycluster;by1000genomes	TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	4511746	A	T	4511746	3	4	215	1	0	0	0	0	1	0	0	0	12092	214	8	5	1905	5	PLIN4	19	4511746	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10		4511746	54617237	85	11708											
PKN1	5585	hgsc.bcm.edu	37	chr19	14574545	14574545	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaagaaaattttctccAagcagcaaggtgagagggtg	14	7	14	6	0	1	3	0	1	1	3	2	4	1	3	1	3	2	3	1	3	5	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	14574545	A	T	14574545	4	4	215	1	0	0	0	0	0	1	0	0	11979	131	5	5	1567	5	PKN1	19	14574545	Nonsense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	10062799	14574545	44554438	86	11709											
HSH2D	84941	hgsc.bcm.edu	37	chr19	16259645	16259645	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agatgggccagctggcccaaGacggggtccccgagtggttc	7	6	16	12	2	0	2	0	0	0	2	2	3	1	2	4	5	1	2	4	5	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	16259645	G	A	16259645	3	1	215	1	0	0	0	0	1	0	0	0	7400	942	33	2	87	2	HSH2D	19	16259645	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	1685100	16259645	42869338	87	11710											
ANKRD27	84079	hgsc.bcm.edu;ucsc.edu	37	chr19	33119747	33119747	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttctttctggttacctgaTgcaatgtgctgaaaagtgac	10	14	9	8	0	2	3	0	3	2	0	2	3	2	3	1	1	3	3	1	1	4	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	33119747	T	C	33119747	2	2	215	1	0	0	0	0	0	0	0	1	655	1451	51	3		3	ANKRD27	19	33119747	Silent	SNP	T	TCGA-BP-4165-01A-02D-1366-10	16860102	33119747	26009236	88	11711											
SUPT5H	6829	hgsc.bcm.edu;ucsc.edu	37	chr19	39936543	39936543	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggaagatgtcggacagcGaggacagcaacttttccgag	12	6	14	9	4	0	1	0	0	0	1	2	6	1	4	1	3	4	1	1	3	2	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	39936543	G	T	39936543	4	4	215	1	0	0	0	0	0	1	0	0	15398	1059	37	4	15	4	SUPT5H	19	39936543	Nonsense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	6816796	39936543	19192440	89	11712											
B3GNT8	374907	hgsc.bcm.edu	37	chr19	41932611	41932611	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccgggactcggatgtccActcgatgtacactttgaggc	8	9	13	11	3	0	1	0	1	0	0	3	5	1	3	2	3	2	1	2	3	1	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	41932611	A	G	41932611	3	3	215	1	0	0	0	0	1	0	0	0	1263	159	6	3	1124	3	B3GNT8	19	41932611	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	1996068	41932611	17196372	90	11713											
CGB	1082	hgsc.bcm.edu	37	chr19	49526180	49526180	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtccgagggccccgggAgtcgggatgggcttggaagg	5	6	22	8	3	0	0	0	0	0	0	2	4	1	3	3	7	0	1	3	7	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	49526180	A	G	49526180	3	3	215	1	0	0	0	0	1	0	0	0	3296	304	11	3	40	3	CGB	19	49526180	Missense_Mutation	SNP	A	TCGA-BP-4165-01A-02D-1366-10	7593569	49526180	9602803	91	11714											
IL4I1	259307	hgsc.bcm.edu	37	chr19	50394326	50394326	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtctcccagaagctgcacGgccggccggctcaggttccc	6	6	12	17	4	2	1	1	0	1	1	4	1	3	1	4	4	2	4	4	4	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	50394326	G	T	50394326	2	4	215	1	0	0	0	0	0	0	0	1	7697	1103	39	4		4	IL4I1	19	50394326	Silent	SNP	G	TCGA-BP-4165-01A-02D-1366-10	868146	50394326	8734657	92	11715											
ZNF329	79673	hgsc.bcm.edu;ucsc.edu	37	chr19	58640489	58640489	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatggaatggttgaagcCttttccacaggcatcactgt	9	13	9	10	0	1	1	1	1	0	0	3	2	3	2	3	3	1	2	3	3	2	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	58640489	C	A	58640489	3	1	215	1	0	0	0	0	1	0	0	0	17846	681	24	4	1247	4	ZNF329	19	58640489	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	8246163	58640489	488494	93	11716											
CD93	22918	hgsc.bcm.edu	37	chr20	23065760	23065760	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggggtgttgacacacTcctgggcacagggggagtcc	7	6	15	13	0	0	1	0	1	0	0	2	2	2	2	4	5	0	2	4	5	0	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	23065760	T	A	23065760	3	1	215	1	0	0	0	0	1	0	0	0	3047	1551	54	5	896	5	CD93	20	23065760	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10		23065760	39959760	94	11717											
ASXL1	171023	hgsc.bcm.edu	37	chr20	31021493	31021493	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggctgagccagacaacttgGcacgtgcctctgcatctcca	9	8	10	14	1	2	2	0	1	2	1	3	2	2	2	3	2	4	3	3	2	1	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	31021493	G	T	31021493	3	4	215	1	0	0	0	0	1	0	0	0	1066	1203	42	4	1544	4	ASXL1	20	31021493	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	7955733	31021493	32004027	95	11718											
PIGT	51604	hgsc.bcm.edu	37	chr20	44054403	44054403	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcgaggagccccgcacAggtggcctggccaagcggct	8	4	14	15	3	0	0	0	0	0	0	1	2	0	1	4	5	2	2	4	5	1	0	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	44054403	A	C	44054403	2	2	215	1	0	0	0	0	0	0	0	1	11899	175	7	5		5	PIGT	20	44054403	Silent	SNP	A	TCGA-BP-4165-01A-02D-1366-10	13032910	44054403	18971117	96	11719											
SLC12A5	57468	hgsc.bcm.edu	37	chr20	44680323	44680323	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccctagtctatcaggCgcctgatggaggcagagaag	9	7	12	13	1	2	2	1	1	1	1	3	4	3	3	4	3	0	1	4	3	3	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	44680323	C	A	44680323	3	1	215	1	0	0	0	0	1	0	0	0	14388	768	27	4	2386	4	SLC12A5	20	44680323	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	625920	44680323	18345197	97	11720											
C20orf43	0	hgsc.bcm.edu;ucsc.edu	37	chr20	55088389	55088389	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgtggggctgccttccagGaggatgatgtcatcatgctc	7	11	14	9	0	2	1	2	1	0	0	4	3	3	3	2	4	2	2	2	4	0	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	55088389	G	T	55088389	4	4	215	1	0	0	0	0	0	1	0	0	2112	1175	41	4	518	4	C20orf43	20	55088389	Nonsense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10	10408066	55088389	7937131	98	11721											
SON	6651	hgsc.bcm.edu	37	chr21	34926967	34926967	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaaaataagaaccgtgaTaagggggagaaagagaagaa	23	3	13	2	1	0	6	0	1	0	5	0	8	0	6	1	2	1	0	1	2	9	2	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	34926967	T	A	34926967	3	1	215	1	0	0	0	0	1	0	0	0	14928	1403	49	5	5440	5	SON	21	34926967	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02D-1366-10		34926967	13202928	99	11722											
CLTCL1	8218	hgsc.bcm.edu	37	chr22	19241625	19241625	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctccagtggtagaccgCggtctcggtcaccaaggcaa	9	7	12	13	3	2	1	1	0	1	1	4	1	3	1	3	4	1	3	3	4	3	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	19241625	C	T	19241625	3	4	215	1	0	0	0	0	1	0	0	0	3567	768	27	1	4666	1	CLTCL1	22	19241625	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10		19241625	32062941	100	11723											
SBF1	6305	hgsc.bcm.edu	37	chr22	50904777	50904777	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagggccgggcaggggtcAcctgtatctgagaggaaaca	10	5	18	8	1	2	1	1	1	1	1	2	4	2	3	2	6	1	2	2	6	2	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		C	50904777	A	C	50904777	5	2	215	1	0	0	0	0	0	0	1	0	13860	173	6	5	5031	5	SBF1	22	50904777	Splice_Site	SNP	A	TCGA-BP-4165-01A-02D-1366-10	31663152	50904777	399789	101	11724											
WDR13	64743	hgsc.bcm.edu	37	chrX	48456398	48456398	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggggaatggccgcggtgtGgcagcaagtcttagcagtgg	7	7	18	9	3	1	0	0	0	1	0	1	1	1	1	2	6	2	3	2	6	3	1	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		T	48456398	G	T	48456398	3	4	215	1	0	0	0	0	1	0	0	0	17274	1357	47	4	16	4	WDR13	23	48456398	Missense_Mutation	SNP	G	TCGA-BP-4165-01A-02D-1366-10		48456398	106814162	102	11725											
CLDN2	9075	hgsc.bcm.edu;ucsc.edu	37	chrX	106171559	106171559	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagctggaaaacaagttCttatgtcggtgccagcattg	10	10	10	11	1	1	0	0	0	1	0	2	1	1	1	3	2	4	3	3	2	4	3	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		A	106171559	C	A	106171559	3	1	215	1	0	0	0	0	1	0	0	0	3481	913	32	4	103	4	CLDN2	23	106171559	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	57715161	106171559	49099001	103	11726											
SSR4	6748	hgsc.bcm.edu;ucsc.edu	37	chrX	153063555	153063555	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aataacgaggacatttccatCatcccgcctctgtttacagt	11	12	6	12	2	2	0	1	0	1	0	4	2	4	1	3	1	2	1	3	1	3	4	novel		TCGA-BP-4165-01A-02D-1366-10	TCGA-BP-4165-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d09d49c-d7eb-49f4-b418-246677073bce	da0537a8-235f-4424-af37-501ef124e64d		G	153063555	C	G	153063555	3	3	215	1	0	0	0	0	1	0	0	0	15194	816	29	4	399	4	SSR4	23	153063555	Missense_Mutation	SNP	C	TCGA-BP-4165-01A-02D-1366-10	46891996	153063555	2207005	104	11727											
SUCLG1	8802	hgsc.bcm.edu	37	chr2	84686333	84686337	+	Frame_Shift_Del	DEL	GGCCG	GGCCG	-																															caggagacgggcggcggcgaGgccgctgctgccggagacca																								novel		TCGA-BP-4165-01A-02W-1362-10	TCGA-BP-4165-11A-01W-1362-10	GGCCG	GGCCG	GGCCG	-	GGCCG	GGCCG	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	79837c35-321a-419b-a27b-26a5385c774e	f91c667a-e82c-41f8-9d6a-6bd74620085b		-	84686337	GGCCG	-	84686333	7	5	216	1	0	1	0	1	0	0	0	0	15365	1000	35	0	1015	0	SUCLG1	2	84686333	Frame_Shift_Del	DEL	GGCCG	TCGA-BP-4165-01A-02W-1362-10		84686333	158513040	1	11728	173	2									
SUCLG1	8802	hgsc.bcm.edu	37	chr2	84686342	84686342	+	Missense_Mutation	SNP	T	T	G																															ggcggcggcgaggccgctgcTgccggagaccatggtagcga																								novel		TCGA-BP-4165-01A-02W-1362-10	TCGA-BP-4165-11A-01W-1362-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	79837c35-321a-419b-a27b-26a5385c774e	f91c667a-e82c-41f8-9d6a-6bd74620085b		G	84686342	T	G	84686342	3	3	216	1	0	0	0	0	1	0	0	0	15365	1580	55	5	1024	5	SUCLG1	2	84686342	Missense_Mutation	SNP	T	TCGA-BP-4165-01A-02W-1362-10	9	84686342	158513031	2	11729	173	2									
VPS13D	55187	hgsc.bcm.edu	37	chr1	12409403	12409403	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaacgagagtgccactctAtggacacagaaaaaagccga	17	5	10	9	2	1	2	0	0	1	2	1	5	1	3	2	1	3	1	2	1	6	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	12409403	A	G	12409403	3	3	217	1	0	0	0	0	1	0	0	0	17191	449	16	3	9581	3	VPS13D	1	12409403	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10		12409403	236841218	1	11730											
MAST2	23139	hgsc.bcm.edu	37	chr1	46493446	46493446	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcaagctcacggactttGgactgtccaaaattggcctc	11	10	8	12	1	2	0	2	0	0	0	4	2	3	2	2	3	1	1	2	3	3	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	46493446	G	A	46493446	3	1	217	1	0	0	0	0	1	0	0	0	9325	1349	47	2	2029	2	MAST2	1	46493446	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	34084043	46493446	202757175	2	11731											
SETDB1	9869	hgsc.bcm.edu	37	chr1	150923454	150923454	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaatgagattgacacaaccCctccaccccaggtggcctac	11	7	7	16	0	1	2	1	2	0	1	2	3	2	2	6	2	2	0	6	2	3	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	150923454	C	T	150923454	3	4	217	1	0	0	0	0	1	0	0	0	14140	623	22	2	2147	2	SETDB1	1	150923454	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	104430008	150923454	98327167	3	11732											
FAM78B	149297	hgsc.bcm.edu	37	chr1	166135390	166135390	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaggtctcctcgatgcgCgtggggcactggtcgatggt	4	9	18	10	5	1	0	0	0	1	0	4	3	1	0	1	6	1	1	1	6	0	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	166135390	C	A	166135390	2	1	217	1	0	0	0	0	0	0	0	1	5627	755	27	4		4	FAM78B	1	166135390	Silent	SNP	C	TCGA-BP-4166-01A-02D-1366-10	15211936	166135390	83115231	4	11733											
BAT2L2	0	hgsc.bcm.edu	37	chr1	171526902	171526902	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagccccagcagcctcttCcccagctgccccagtcatca	7	6	7	21	0	3	0	2	0	1	0	4	0	4	0	8	0	5	2	8	0	0	1	rs144754525	alternate_allele	TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	171526902	C	A	171526902	3	1	217	1	0	0	0	0	1	0	0	0	1321	855	30	4	5715	4	BAT2L2	1	171526902	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	5391512	171526902	77723719	5	11734											
FASLG	356	hgsc.bcm.edu	37	chr1	172635132	172635132	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattttgaggaatctcagacGtttttcggcttatataagct	11	16	8	6	2	1	2	1	1	1	1	3	3	1	3	0	2	1	3	0	2	5	7	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	172635132	G	T	172635132	2	4	217	1	0	0	0	0	0	0	0	1	5682	1132	40	4		4	FASLG	1	172635132	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10	1108230	172635132	76615489	6	11735											
TRIM58	25893	hgsc.bcm.edu	37	chr1	248039771	248039771	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttagatcctgcttctgatGtaagagatgatcatctctaa	12	15	7	7	0	3	4	1	2	2	2	5	5	4	4	1	0	1	2	1	0	3	5	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	248039771	G	C	248039771	3	2	217	1	0	0	0	0	1	0	0	0	16530	1377	48	4	1463	4	TRIM58	1	248039771	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	75404639	248039771	1210850	7	11736											
ETAA1	54465	hgsc.bcm.edu	37	chr2	67631831	67631831	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgagatcaataataattccGaacatggagccaaaaacatg	18	8	8	7	1	1	1	1	1	0	1	2	4	2	2	2	1	3	0	2	1	6	3	rs61740794	bycluster;byfrequency;by1000genomes	TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	67631831	G	A	67631831	3	1	217	1	0	0	0	0	1	0	0	0	5267	1059	37	1	2035	1	ETAA1	2	67631831	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10		67631831	175567542	8	11737											
RANBP2	5903	hgsc.bcm.edu;ucsc.edu	37	chr2	109381107	109381107	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgcttcaactgctaagaAatgtgtatcatgccaaaatc	15	11	7	8	0	2	1	2	0	0	1	3	2	2	1	1	0	4	3	1	0	7	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	109381107	A	T	109381107	3	4	217	1	0	0	0	0	1	0	0	0	13030	14	1	5	4190	5	RANBP2	2	109381107	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10	41749276	109381107	133818266	9	11738											
PTPRN	5798	hgsc.bcm.edu	37	chr2	220159785	220159785	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcgtgagcgtgcgcgtctCctgggtctgcacgttcttca	3	12	13	13	5	4	1	1	1	3	0	5	1	4	1	1	1	4	2	1	1	0	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	220159785	C	T	220159785	3	4	217	1	0	0	0	0	1	0	0	0	12809	864	30	2	372	2	PTPRN	2	220159785	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	110778678	220159785	23039588	10	11739											
DLEC1	9940	hgsc.bcm.edu	37	chr3	38141827	38141827	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccagcttcactctctgggGgagtgcagggtggacatcac	7	8	15	11	0	3	0	2	0	1	0	4	2	3	2	1	5	2	2	1	5	0	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	38141827	G	A	38141827	2	1	217	1	0	0	0	0	0	0	0	1	4552	1219	43	2		2	DLEC1	3	38141827	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10		38141827	159880603	11	11740											
KIF15	56992	hgsc.bcm.edu	37	chr3	44846572	44846572	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatgtttgtttgcaaacActgagaagttaaaagcacaa	16	10	8	7	0	0	1	0	1	0	1	0	2	0	1	1	0	4	5	1	0	5	3	rs113556197		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	44846572	A	T	44846572	3	4	217	1	0	0	0	0	1	0	0	0	8277	159	6	5	1799	5	KIF15	3	44846572	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10	6704745	44846572	153175858	12	11741											
SELK	58515	hgsc.bcm.edu;ucsc.edu	37	chr3	53919916	53919916	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgattgattctacccattCttcggggagggtttcctggt	6	15	12	8	1	2	2	0	2	2	0	4	4	3	3	2	4	1	1	2	4	1	6	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	53919916	C	T	53919916	3	4	217	1	0	0	0	0	1	0	0	0	14017	913	32	2	74	2	SELK	3	53919916	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	9073344	53919916	144102514	13	11742											
POU1F1	5449	hgsc.bcm.edu	37	chr3	87322594	87322594	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcccaacgttgtcaccgaGaaatgtgtgcacaaacattt	12	12	7	10	2	1	1	1	0	0	1	2	2	2	1	2	0	3	2	2	0	3	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	87322594	G	C	87322594	3	2	217	1	0	0	0	0	1	0	0	0	12269	933	33	4	778	4	POU1F1	3	87322594	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	33402678	87322594	110699836	14	11743											
ST3GAL6	10402	hgsc.bcm.edu	37	chr3	98503802	98503802	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacagcataccctgtaaaAagtgtgtggtggttggtaat	12	11	11	7	0	0	0	0	0	0	0	0	0	0	0	2	3	3	4	2	3	6	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	98503802	A	C	98503802	3	2	217	1	0	0	0	0	1	0	0	0	15220	15	1	5	367	5	ST3GAL6	3	98503802	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10	11181208	98503802	99518628	15	11744											
NFKBIZ	64332	hgsc.bcm.edu;ucsc.edu	37	chr3	101571994	101571994	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcatctcaatgaaccCaaacaggagagcagtgctga	14	8	10	9	0	2	3	2	2	1	1	3	5	2	3	1	1	4	3	1	1	3	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	101571994	C	T	101571994	2	4	217	1	0	0	0	0	0	0	0	1	10383	581	21	2		2	NFKBIZ	3	101571994	Silent	SNP	C	TCGA-BP-4166-01A-02D-1366-10	3068192	101571994	96450436	16	11745											
ABCC5	10057	hgsc.bcm.edu	37	chr3	183669312	183669312	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagggcttcgaaggatcCttcggaaaagctcgtcatgc	10	10	11	10	3	2	0	2	0	0	0	6	3	3	2	1	3	2	2	1	3	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	183669312	C	T	183669312	3	4	217	1	0	0	0	0	1	0	0	0	56	681	24	2	1496	2	ABCC5	3	183669312	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	82097318	183669312	14353118	17	11746											
WDR53	348793	hgsc.bcm.edu;ucsc.edu	37	chr3	196288045	196288045	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttttccgtttgattcaatGaaagacaattgatttcttct	10	18	7	6	1	3	4	1	3	2	1	4	4	4	4	1	1	0	2	1	1	3	7	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	196288045	G	A	196288045	3	1	217	1	0	0	0	0	1	0	0	0	17304	1294	45	2	782	2	WDR53	3	196288045	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	12618733	196288045	1734385	18	11747											
TEC	100124696	hgsc.bcm.edu	37	chr4	48151686	48151686	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttcctttatatgataatgCctaaaacccgatgaaccttc	12	14	5	10	1	0	2	0	2	0	0	2	3	1	2	4	0	3	1	4	0	6	7	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	48151686	C	A	48151686	3	1	217	1	0	0	0	0	1	0	0	0	15741	738	26	4	1033	4	TEC	4	48151686	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10		48151686	143002590	19	11748											
HPSE	10855	hgsc.bcm.edu	37	chr4	84240608	84240608	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcaggagggatggatcCatatttgcaaatatctgcaa	14	10	9	8	0	2	0	1	0	1	0	3	3	3	3	1	3	2	2	1	3	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	84240608	C	A	84240608	4	1	217	1	0	0	0	0	0	1	0	0	7344	603	21	4	1283	4	HPSE	4	84240608	Nonsense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	36088922	84240608	106913668	20	11749											
TET2	54790	hgsc.bcm.edu	37	chr4	106180797	106180797	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaacttgcgcctgtcagggGctggatccagaaacctgtgg	9	8	14	10	1	1	2	1	0	0	2	2	3	2	3	3	4	3	1	3	4	2	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	106180797	G	A	106180797	2	1	217	1	0	0	0	0	0	0	0	1	15769	1190	42	2		2	TET2	4	106180797	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10	21940189	106180797	84973479	21	11750											
C4orf29	80167	hgsc.bcm.edu	37	chr4	128949839	128949839	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcaagatacctctaagatGaagcgcttcaatcaaacact	15	10	6	10	1	3	3	2	1	1	2	3	3	3	3	1	0	4	2	1	0	6	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	128949839	G	A	128949839	3	1	217	1	0	0	0	0	1	0	0	0	2259	1290	45	2	943	2	C4orf29	4	128949839	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	22769042	128949839	62204437	22	11751											
AFF4	27125	hgsc.bcm.edu	37	chr5	132270357	132270358	+	In_Frame_Ins	INS	-	-	GCT																															ctacctgcgctggtccgctgINSgctactatgtccactctgta																								novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		GCT	132270358	-	GCT	132270357	7	5	217	1	0	1	1	0	0	0	0	0	359	1357	47	0	3167	0	AFF4	5	132270357	In_Frame_Ins	INS	-	TCGA-BP-4166-01A-02D-1366-10		132270357	48644903	23	11752											
CSF1R	1436	hgsc.bcm.edu	37	chr5	149447888	149447888	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccgggggatgcgtgtGggctcctggaaggcatgaag	7	8	17	9	2	1	1	1	1	0	0	3	3	3	3	2	5	1	2	2	5	2	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	149447888	G	A	149447888	3	1	217	1	0	0	0	0	1	0	0	0	3932	1348	47	2	1450	2	CSF1R	5	149447888	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	17177531	149447888	31467372	24	11753											
UIMC1	51720	hgsc.bcm.edu;ucsc.edu	37	chr5	176334129	176334129	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacctgaagtcttgtgcTcagactgttccaagaaacta	11	11	7	12	0	3	3	2	1	1	2	4	3	4	3	3	0	2	2	3	0	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	176334129	T	C	176334129	3	2	217	1	0	0	0	0	1	0	0	0	16970	1551	54	3	273	3	UIMC1	5	176334129	Missense_Mutation	SNP	T	TCGA-BP-4166-01A-02D-1366-10	26886241	176334129	4581131	25	11754											
DNAH8	1769	hgsc.bcm.edu	37	chr6	38754603	38754603	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agttgctggttaatttcgatCccaaaattttggaagttgtt	10	17	9	5	1	0	0	0	0	0	0	2	2	1	1	1	2	1	5	1	2	4	7	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	38754603	C	T	38754603	3	4	217	1	0	0	0	0	1	0	0	0	4607	855	30	2	1861	2	DNAH8	6	38754603	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10		38754603	132360464	26	11755											
SRF	6722	hgsc.bcm.edu;ucsc.edu	37	chr6	43143556	43143556	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcagcggcccctcctttcCcatcaccaactacctggcac	8	7	6	20	1	1	0	1	0	0	0	3	0	3	0	6	2	4	2	6	2	2	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	43143556	C	A	43143556	3	1	217	1	0	0	0	0	1	0	0	0	15144	623	22	4	903	4	SRF	6	43143556	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	4388953	43143556	127971511	27	11756											
PDSS2	57107	hgsc.bcm.edu;ucsc.edu	37	chr6	107595237	107595237	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgcccaattttaccttgGtgttctgtagcagagctagt	7	14	9	11	0	1	1	0	0	1	1	1	1	1	1	3	1	4	4	3	1	4	6	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	107595237	G	C	107595237	3	2	217	1	0	0	0	0	1	0	0	0	11694	1261	44	4	597	4	PDSS2	6	107595237	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	64451681	107595237	63519830	28	11757											
STAG3	10734	hgsc.bcm.edu	37	chr7	99783914	99783914	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcatccaatcttgcggatGtaaaggtgaggaaactgctc	11	12	10	8	1	2	1	1	1	1	0	4	3	3	3	1	3	3	2	1	3	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	99783914	G	A	99783914	3	1	217	1	0	0	0	0	1	0	0	0	15245	1377	48	2	442	2	STAG3	7	99783914	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10		99783914	59354749	29	11758											
POP7	10248	hgsc.bcm.edu	37	chr7	100304542	100304542	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaggcttcccagccgccTgccccggagacccaatgaca	11	4	10	16	2	0	2	0	1	0	1	1	4	1	2	6	2	2	1	6	2	3	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	100304542	T	C	100304542	3	2	217	1	0	0	0	0	1	0	0	0	12254	1580	55	3	91	3	POP7	7	100304542	Missense_Mutation	SNP	T	TCGA-BP-4166-01A-02D-1366-10	520628	100304542	58834121	30	11759											
ZNF746	155061	hgsc.bcm.edu;ucsc.edu	37	chr7	149174659	149174659	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcagccacttaccagaGgtggcatccgtggagatgtc	8	9	12	12	2	1	2	1	0	1	2	4	3	2	2	3	3	2	1	3	3	1	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	149174659	G	T	149174659	2	4	217	1	0	0	0	0	0	0	0	1	18128	987	35	4		4	ZNF746	7	149174659	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10	48870117	149174659	9964004	31	11760											
NAT2	10	hgsc.bcm.edu	37	chr8	18258036	18258036	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtatattacaaacaaagaaTttcttaattctcatctcctg	15	15	3	8	0	3	1	1	0	3	1	5	1	3	1	1	0	2	1	1	0	7	6	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	18258036	T	A	18258036	3	1	217	1	0	0	0	0	1	0	0	0	10177	1493	52	5	525	5	NAT2	8	18258036	Missense_Mutation	SNP	T	TCGA-BP-4166-01A-02D-1366-10		18258036	128105986	32	11761											
GBA2	57704	hgsc.bcm.edu;ucsc.edu	37	chr9	35740010	35740010	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacctgtcatccaataccGggctctgccaagctgagatc	9	8	10	14	1	2	1	1	1	1	1	4	2	3	1	4	2	3	3	4	2	3	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	35740010	G	T	35740010	3	4	217	1	0	0	0	0	1	0	0	0	6267	1116	39	4	1429	4	GBA2	9	35740010	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10		35740010	105473421	33	11762											
TMC1	117531	hgsc.bcm.edu	37	chr9	75369724	75369724	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctctggggtttgccatatgGcagtttacctaggaaaaccg	9	11	11	10	1	1	0	0	0	1	0	1	1	1	1	4	4	3	3	4	4	5	5	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	75369724	G	T	75369724	3	4	217	1	0	0	0	0	1	0	0	0	15983	1203	42	4	695	4	TMC1	9	75369724	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	39629714	75369724	65843707	34	11763											
ZER1	10444	hgsc.bcm.edu;ucsc.edu	37	chr9	131502291	131502291	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctccacctcctcacgctggGgctcacagacgccccaggcc	6	5	9	21	2	2	1	2	0	0	1	4	1	4	1	7	3	0	2	7	3	0	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	131502291	G	T	131502291	3	4	217	1	0	0	0	0	1	0	0	0	17624	1232	43	4	355	4	ZER1	9	131502291	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	56132567	131502291	9711140	35	11764											
C11orf49	79096	hgsc.bcm.edu;ucsc.edu	37	chr11	47182704	47182704	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgacaagggggatctgAtgcacgacccagcaatggat	11	7	13	10	1	1	2	0	2	1	0	1	5	1	4	2	3	3	2	2	3	2	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	47182704	A	G	47182704	3	3	217	1	0	0	0	0	1	0	0	0	1645	333	12	3	814	3	C11orf49	11	47182704	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10		47182704	87823812	36	11765											
NRXN2	9379	hgsc.bcm.edu	37	chr11	64390412	64390412	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaccctcagtccgcacattgGggtcgctctcggcggccagc	5	7	13	16	4	2	0	1	0	1	0	5	1	3	0	3	4	1	2	3	4	0	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	64390412	G	C	64390412	3	2	217	1	0	0	0	0	1	0	0	0	10666	1232	43	4	1164	4	NRXN2	11	64390412	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	17207708	64390412	70616104	37	11766											
ODZ4	0	hgsc.bcm.edu;ucsc.edu	37	chr11	78413073	78413073	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcatccttggcataacCatcgtctccagaaaaacaat	13	11	5	12	1	1	1	0	0	1	1	4	1	2	1	3	1	3	2	3	1	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	78413073	C	A	78413073	3	1	217	1	0	0	0	0	1	0	0	0	10837	594	21	4	3752	4	ODZ4	11	78413073	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	14022661	78413073	56593443	38	11767											
KIAA1826	0	hgsc.bcm.edu	37	chr11	105881275	105881275	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgccacattttgccagtCaaaatttgcatcatttcgga	11	14	6	10	1	3	0	2	0	1	0	4	1	3	1	2	1	3	1	2	1	2	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	105881275	C	A	105881275	3	1	217	1	0	0	0	0	1	0	0	0	8260	826	29	4	675	4	KIAA1826	11	105881275	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	27468202	105881275	29125241	39	11768											
PARP11	57097	hgsc.bcm.edu;ucsc.edu	37	chr12	3921406	3921406	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattcacatagctcccgtcTttggaaggaggtcgcatgta	11	11	10	9	2	2	0	1	0	1	0	4	2	3	2	1	3	1	3	1	3	4	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	3921406	T	C	3921406	2	2	217	1	0	0	0	0	0	0	0	1	11456	1606	56	3		3	PARP11	12	3921406	Silent	SNP	T	TCGA-BP-4166-01A-02D-1366-10		3921406	129930489	40	11769											
ESPL1	9700	hgsc.bcm.edu;ucsc.edu	37	chr12	53684665	53684665	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtctgtgctgggctgctGgaaggggctgctgctgccgt	4	10	18	9	1	1	0	0	0	1	0	1	2	1	1	1	4	5	6	1	4	2	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	53684665	G	A	53684665	4	1	217	1	0	0	0	0	0	1	0	0	5253	1357	47	2	5499	2	ESPL1	12	53684665	Nonsense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	49763259	53684665	80167230	41	11770											
CDK2	1017	hgsc.bcm.edu	37	chr12	56363324	56363324	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatattattccacagctgtGgacatctggagcctgggctg	10	11	11	9	0	1	0	0	0	1	0	2	2	2	2	2	3	2	2	2	3	3	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	56363324	G	A	56363324	2	1	217	1	0	0	0	0	0	0	0	1	3136	1335	47	2		2	CDK2	12	56363324	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10	2678659	56363324	77488571	42	11771											
NAB2	4665	hgsc.bcm.edu	37	chr12	57486952	57486952	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggacagcgccagcctgtctgGggagagtctggatggacatt	8	8	16	9	1	2	1	0	0	2	1	2	5	2	4	2	5	2	0	2	5	0	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	57486952	G	T	57486952	3	4	217	1	0	0	0	0	1	0	0	0	10132	1232	43	4	1268	4	NAB2	12	57486952	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	1123628	57486952	76364943	43	11772											
ZNF828	0	hgsc.bcm.edu;ucsc.edu	37	chr13	115090276	115090277	+	Frame_Shift_Ins	INS	-	-	T																															ccagggccacctgggtccccINStaggccttggaaatccaatc																								novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	115090277	-	T	115090276	7	5	217	1	0	1	1	0	0	0	0	0	18180	681	24	0	961	0	ZNF828	13	115090276	Frame_Shift_Ins	INS	-	TCGA-BP-4166-01A-02D-1366-10		115090276	79602	44	11773											
MUDENG	0	hgsc.bcm.edu	37	chr14	57755564	57755564	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attacatctggaattctaaaGcccctgctccagtaacatat	13	12	5	11	0	2	0	0	0	2	0	3	1	3	1	3	1	4	2	3	1	6	5	rs35759976	bycluster;byfrequency;by1000genomes	TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	57755564	G	A	57755564	3	1	217	1	0	0	0	0	1	0	0	0	9983	971	34	2	1465	2	MUDENG	14	57755564	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10		57755564	49593976	45	11774											
CATSPERB	79820	hgsc.bcm.edu;ucsc.edu	37	chr14	92171025	92171025	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttctggaatcacatccccagGagtccactgaagaatcggtt	11	10	9	11	1	2	2	1	1	1	1	5	4	4	4	3	3	0	1	3	3	3	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	92171025	G	A	92171025	3	1	217	1	0	0	0	0	1	0	0	0	2691	1174	41	2	2947	2	CATSPERB	14	92171025	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	34415461	92171025	15178515	46	11775											
AGBL1	123624	hgsc.bcm.edu;ucsc.edu	37	chr15	86809654	86809654	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatccagccaagtgatgttAtaaataaagttgtcttcagt	13	14	7	7	0	3	1	2	1	1	0	4	1	4	1	2	0	1	2	2	0	6	5	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	86809654	A	G	86809654	3	3	217	1	0	0	0	0	1	0	0	0	375	449	16	3	1617	3	AGBL1	15	86809654	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10		86809654	15721738	47	11776											
PDXDC1	23042	hgsc.bcm.edu	37	chr16	15098047	15098047	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttaattttgcttaacagaatCcaaaatattggagaacaagg	17	12	7	5	0	0	2	0	0	0	2	1	3	1	2	1	2	3	1	1	2	8	6	rs11549900	bycluster;byfrequency;by1000genomes	TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	15098047	C	G	15098047	3	3	217	1	0	0	0	0	1	0	0	0	11696	845	30	4	264	4	PDXDC1	16	15098047	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10		15098047	75256706	48	11777											
ABCC1	4363	hgsc.bcm.edu;ucsc.edu	37	chr16	16142001	16142001	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctcctttgtcccacaggcCctggtgatcaccaattcagc	7	11	7	16	0	3	1	2	1	1	0	5	1	4	1	4	2	1	0	4	2	1	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	16142001	C	A	16142001	2	1	217	1	0	0	0	0	0	0	0	1	49	610	22	4		4	ABCC1	16	16142001	Silent	SNP	C	TCGA-BP-4166-01A-02D-1366-10	1043954	16142001	74212752	49	11778											
PALB2	79728	hgsc.bcm.edu;ucsc.edu	37	chr16	23647169	23647169	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcttcttaggaatgtatcaAcacctttttctggttgggca	8	16	9	8	0	4	0	1	0	3	0	4	1	4	1	1	3	1	3	1	3	4	6	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	23647169	A	T	23647169	3	4	217	1	0	0	0	0	1	0	0	0	11406	43	2	5	2902	5	PALB2	16	23647169	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10	7505168	23647169	66707584	50	11779											
CHD9	80205	hgsc.bcm.edu;ucsc.edu	37	chr16	53352219	53352219	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctcactggagaagaacgTgttcaactgattaacagaag	15	9	10	7	1	2	4	2	1	1	3	3	5	2	4	0	1	3	1	0	1	5	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	53352219	T	A	53352219	2	1	217	1	0	0	0	0	0	0	0	1	3332	1683	59	5		5	CHD9	16	53352219	Silent	SNP	T	TCGA-BP-4166-01A-02D-1366-10	29705050	53352219	37002534	51	11780											
TXNL4B	54957	hgsc.bcm.edu;ucsc.edu	37	chr16	72124573	72124573	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcccaaacctgagaaccaAcaccttctcagcagtacttt	12	10	4	15	0	2	1	1	1	2	1	4	2	2	1	4	0	5	2	4	0	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	72124573	A	G	72124573	2	3	217	1	0	0	0	0	0	0	0	1	16805	40	2	3		3	TXNL4B	16	72124573	Silent	SNP	A	TCGA-BP-4166-01A-02D-1366-10	18772354	72124573	18230180	52	11781											
ANKRD11	29123	hgsc.bcm.edu	37	chr16	89348396	89348396	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctcgggccctcgtccctGgacttgtctttgagcacgcg	4	10	12	15	4	1	1	0	1	1	0	4	2	2	2	3	2	2	1	3	2	0	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	89348396	G	A	89348396	2	1	217	1	0	0	0	0	0	0	0	1	639	1335	47	2		2	ANKRD11	16	89348396	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10	17223823	89348396	1006357	53	11782											
SPACA3	124912	hgsc.bcm.edu	37	chr17	31323913	31323913	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgcagctgctttggactaCgaggctgatgggagcaccaa	11	7	13	10	2	0	1	0	1	0	0	0	4	0	3	1	3	5	5	1	3	3	2	rs146926616	alternate_allele	TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	31323913	C	A	31323913	4	1	217	1	0	0	0	0	0	1	0	0	14975	547	19	4	406	4	SPACA3	17	31323913	Nonsense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10		31323913	49871297	54	11783											
PPM1E	22843	hgsc.bcm.edu	37	chr17	57047047	57047047	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctgtgcagggccttcCgggtcactgatgagcggttt	5	10	15	11	2	1	2	1	2	0	0	2	2	2	2	3	4	2	2	3	4	0	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	57047047	C	T	57047047	3	4	217	1	0	0	0	0	1	0	0	0	12340	643	23	1	945	1	PPM1E	17	57047047	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	25723134	57047047	24148163	55	11784											
MED13	9969	hgsc.bcm.edu;ucsc.edu	37	chr17	60088502	60088502	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcttttcttgcttctcaTtggtcttgtgcttaggaagt	5	19	8	9	0	4	0	1	0	4	0	5	1	4	1	0	2	2	2	0	2	2	7	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	60088502	T	C	60088502	3	2	217	1	0	0	0	0	1	0	0	0	9430	1493	52	3	5236	3	MED13	17	60088502	Missense_Mutation	SNP	T	TCGA-BP-4166-01A-02D-1366-10	3041455	60088502	21106708	56	11785											
LLGL2	3993	hgsc.bcm.edu	37	chr17	73569631	73569631	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagtggctggtggagccccGgtgtctggtggattcagcag	6	9	17	9	1	2	0	1	0	1	0	2	2	2	2	2	6	2	2	2	6	1	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	73569631	G	T	73569631	3	4	217	1	0	0	0	0	1	0	0	0	8834	1116	39	4	2908	4	LLGL2	17	73569631	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	13481129	73569631	7625579	57	11786											
DLGAP1	9229	hgsc.bcm.edu;ucsc.edu	37	chr18	3582181	3582181	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggctgtgatagaaatgaaagGtttcgtggtagttctgggtg	9	13	16	3	1	1	3	0	2	1	1	2	3	1	3	0	4	0	4	0	4	4	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	3582181	G	T	3582181	3	4	217	1	0	0	0	0	1	0	0	0	4559	1261	44	4	1300	4	DLGAP1	18	3582181	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10		3582181	74495067	58	11787											
FBXO15	201456	hgsc.bcm.edu;ucsc.edu	37	chr18	71790669	71790669	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaccgctgtgcagatcaaCatggagttggtagccgtgca	9	8	12	12	2	1	1	1	0	0	1	1	2	1	2	3	2	4	5	3	2	2	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	71790669	C	A	71790669	3	1	217	1	0	0	0	0	1	0	0	0	5728	478	17	4	472	4	FBXO15	18	71790669	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	68208488	71790669	6286579	59	11788											
JUNB	3726	hgsc.bcm.edu	37	chr19	12903620	12903620	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttggggtcaagggacaCgccttctgaacgtcccctgc	6	9	12	14	2	2	1	1	1	1	0	3	2	3	2	3	3	3	1	3	3	2	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	12903620	C	A	12903620	3	1	217	1	0	0	0	0	1	0	0	0	7970	535	19	4	1037	4	JUNB	19	12903620	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10		12903620	46225363	60	11789											
ZNF99	7652	hgsc.bcm.edu	37	chr19	22939931	22939931	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctccacatttgtagggCttctccccagtatgaactgc	8	13	7	13	0	2	1	0	1	2	0	4	1	2	1	3	1	2	3	3	1	3	5	rs34378744	by1000genomes	TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	22939931	C	T	22939931	2	4	217	1	0	0	0	0	0	0	0	1	18203	796	28	2		2	ZNF99	19	22939931	Silent	SNP	C	TCGA-BP-4166-01A-02D-1366-10	10036311	22939931	36189052	61	11790											
KIAA0355	9710	hgsc.bcm.edu;ucsc.edu	37	chr19	34832888	34832888	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatggtgactgagcagaaGgcaggagccatgcaaccaca	13	4	13	11	0	0	3	0	2	0	1	0	4	0	4	3	3	4	3	3	3	2	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	34832888	G	C	34832888	3	2	217	1	0	0	0	0	1	0	0	0	8170	991	35	4	2083	4	KIAA0355	19	34832888	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	11892957	34832888	24296095	62	11791											
SUPT5H	6829	hgsc.bcm.edu	37	chr19	39962250	39962250	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccccggctagggccgAgaaggggagattcgccatct	7	8	13	13	3	2	2	0	0	2	2	5	4	3	2	4	4	0	1	4	4	2	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	39962250	A	G	39962250	2	3	217	1	0	0	0	0	0	0	0	1	15398	291	11	3		3	SUPT5H	19	39962250	Silent	SNP	A	TCGA-BP-4166-01A-02D-1366-10	5129362	39962250	19166733	63	11792											
PPP2R1A	5518	hgsc.bcm.edu	37	chr19	52716326	52716326	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgctgaagacaagtcctGgcgcgtccgctacatggtgg	7	7	15	12	4	0	2	0	1	0	1	2	2	2	2	3	4	1	2	3	4	3	1	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	52716326	G	A	52716326	4	1	217	1	0	0	0	0	0	1	0	0	12384	1357	47	2	792	2	PPP2R1A	19	52716326	Nonsense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10	12754076	52716326	6412657	64	11793											
ZNF274	10782	hgsc.bcm.edu	37	chr19	58718359	58718360	+	Frame_Shift_Ins	INS	-	-	A																															ggacatgacaggtccccgggINSagccctggaccagctccgag																								novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	58718360	-	A	58718359	7	5	217	1	0	1	1	0	0	0	0	0	17808	1175	41	0	543	0	ZNF274	19	58718359	Frame_Shift_Ins	INS	-	TCGA-BP-4166-01A-02D-1366-10	6002033	58718359	410624	65	11794											
SLC12A5	57468	hgsc.bcm.edu;ucsc.edu	37	chr20	44684789	44684789	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctatgtcactccctagAtccagagtatcacagatgag	13	9	7	12	0	2	4	2	1	0	3	4	4	4	4	3	0	1	1	3	0	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	44684789	A	T	44684789	3	4	217	1	0	0	0	0	1	0	0	0	14388	347	12	5	2999	5	SLC12A5	20	44684789	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10		44684789	18340731	66	11795											
SLC13A3	64849	hgsc.bcm.edu;ucsc.edu	37	chr20	45204226	45204226	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttacctcacagcctttggCcatggcgaagccccctccca	7	9	7	18	1	2	0	1	0	1	0	3	1	3	0	6	2	3	0	6	2	2	2	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		T	45204226	C	T	45204226	3	4	217	1	0	0	0	0	1	0	0	0	14395	739	26	2	506	2	SLC13A3	20	45204226	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	519437	45204226	17821294	67	11796											
CACNA1I	8911	hgsc.bcm.edu;ucsc.edu	37	chr22	40038844	40038844	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagatcatgtactacgtgAtggatgctcactccttctac	9	13	9	10	1	3	2	2	1	1	1	4	4	4	3	1	2	4	2	1	2	3	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		C	40038844	A	C	40038844	3	2	217	1	0	0	0	0	1	0	0	0	2546	333	12	5	1125	5	CACNA1I	22	40038844	Missense_Mutation	SNP	A	TCGA-BP-4166-01A-02D-1366-10		40038844	11265722	68	11797											
TCF20	6942	hgsc.bcm.edu;ucsc.edu	37	chr22	42610520	42610520	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagatccagcattcacattGtaactgccatcatagctctg	11	12	7	11	0	3	1	2	1	1	1	4	2	4	1	2	0	4	3	2	0	2	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	42610520	G	A	42610520	2	1	217	1	0	0	0	0	0	0	0	1	15689	1372	48	2		2	TCF20	22	42610520	Silent	SNP	G	TCGA-BP-4166-01A-02D-1366-10	2571676	42610520	8694046	69	11798			1	18		2	2	19	N	G_C	4.1864e-05
TCF20	6942	hgsc.bcm.edu;ucsc.edu	37	chr22	42610538	42610538	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgtaactgccatcatagctCtgtccagactggctaaaacg	11	11	8	11	1	2	1	1	0	1	1	3	1	3	1	2	1	4	3	2	1	4	4	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		G	42610538	C	G	42610538	3	3	217	1	0	0	0	0	1	0	0	0	15689	912	32	4	5146	4	TCF20	22	42610538	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	18	42610538	8694028	70	11799			1	18		2	2	19	N	G_C	4.1864e-05
RBM10	8241	hgsc.bcm.edu	37	chrX	47039844	47039844	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctccaatgaaggcagtcGcatcagtgctgcctctgtgg	7	9	13	12	1	2	1	1	1	1	0	4	1	3	1	3	3	2	3	3	3	2	0	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	47039844	G	A	47039844	3	1	217	1	0	0	0	0	1	0	0	0	13113	1087	38	1	1229	1	RBM10	23	47039844	Missense_Mutation	SNP	G	TCGA-BP-4166-01A-02D-1366-10		47039844	108230716	71	11800											
GABRE	2564	hgsc.bcm.edu;ucsc.edu	37	chrX	151131006	151131006	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaaggtgtccgggatcCatagctggctcaccacattg	12	9	10	10	1	1	0	1	0	0	0	3	1	3	1	3	3	1	2	3	3	4	3	novel		TCGA-BP-4166-01A-02D-1366-10	TCGA-BP-4166-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	69b6d472-ae97-4f02-9bc1-ef5cddd06b0d	4b388afb-5597-450e-994e-30868558f595		A	151131006	C	A	151131006	3	1	217	1	0	0	0	0	1	0	0	0	6170	595	21	4	1092	4	GABRE	23	151131006	Missense_Mutation	SNP	C	TCGA-BP-4166-01A-02D-1366-10	104091162	151131006	4139554	72	11801											
VHL	7428	hgsc.bcm.edu	37	chr3	10183793	10183793	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcgtcgtgctgcccgtaTggctcaacttcgacggcgag	5	8	14	14	8	1	0	1	0	0	0	3	2	1	0	1	2	3	3	1	2	2	2	novel		TCGA-BP-4166-01A-02W-1362-10	TCGA-BP-4166-11A-01W-1362-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	67fc0045-7628-4ef4-bef4-7f4f9354be45	70d9f823-dc5e-4da2-9b33-fde5df0d0459		A	10183793	T	A	10183793	3	1	218	1	0	0	0	0	1	0	0	0	17161	1464	51	5	264	5	VHL	3	10183793	Missense_Mutation	SNP	T	TCGA-BP-4166-01A-02W-1362-10		10183793	187838637	1	11802											
COL11A1	1301	broad.mit.edu;ucsc.edu	37	chr1	103444415	103444415	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagaaaaagtacaggtgataCctttggcccaggtttcccag	12	9	10	10	0	0	2	0	1	0	1	1	2	1	2	3	3	2	2	3	3	4	4	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	103444415	A	A	103444415	5	1	219	1	0	0	0	0	0	0	1	0	3667	521	18	4	2846	4	COL11A1	1	103444415	Splice_Site	SNP	C	TCGA-BP-4167-01A-02D-1386-10		103444415	145806206	1	11803											
ANP32E	81611	hgsc.bcm.edu	37	chr1	150199042	150199042	+	Missense_Mutation	SNP	C	C	A																															tcatcctcatcctcatcctcCtcttcctcttcctcctcctc																								rs28594165		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	150199042	C	A	150199042	3	1	219	1	0	0	0	0	1	0	0	0	709	680	24	4	239	4	ANP32E	1	150199042	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	46754627	150199042	99051579	2	11804	174	2									
ANP32E	81611	hgsc.bcm.edu	37	chr1	150199045	150199045	+	Silent	SNP	T	T	C																															tcctcatcctcatcctcctcTtcctcttcctcctcctcttc																								rs28460085	bycluster;byfrequency	TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	150199045	T	C	150199045	2	2	219	1	0	0	0	0	0	0	0	1	709	1606	56	3		3	ANP32E	1	150199045	Silent	SNP	T	TCGA-BP-4167-01A-02D-1386-10	3	150199045	99051576	3	11805	174	2									
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158655094	158655094	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacgcctctcctggatcTcttctgctgtttccaaaacc	6	13	6	16	1	3	1	0	1	3	0	6	2	4	2	5	1	2	2	5	1	2	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	158655094	T	G	158655094	3	3	219	1	0	0	0	0	1	0	0	0	15117	1551	54	5	7395	5	SPTA1	1	158655094	Missense_Mutation	SNP	T	TCGA-BP-4167-01A-02D-1386-10	8456049	158655094	90595527	4	11806											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179604819	179604819	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aataccagaaagcaagctttCcttagaaagaaggtcccttc	15	9	7	10	0	0	3	0	0	0	3	3	3	2	3	3	1	3	2	3	1	7	4	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	179604819	C	T	179604819	3	4	219	1	0	0	0	0	1	0	0	0	16734	864	30	2	91648	2	TTN	2	179604819	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10		179604819	63594554	5	11807											
VHL	7428	hgsc.bcm.edu	37	chr3	10183820	10183820	+	Frame_Shift_Del	DEL	C	C	-																															acttcgacggcgagccgcagCcctacccaacgctgccgcct																								novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01W-1244-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	06d67c16-1bb7-4454-a190-9e19549a1150		-	10183820	C	-	10183820	7	5	219	1	0	1	0	1	0	0	0	0	17161	739	26	0	291	0	VHL	3	10183820	Frame_Shift_Del	DEL	C	TCGA-BP-4167-01A-02D-1386-10		10183820	187838610	6	11808											
HACL1	26061	broad.mit.edu;ucsc.edu	37	chr3	15609989	15609989	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccgtccaatgtccatagtAtttgctccttcacttaccac	8	14	5	14	1	1	0	1	0	0	0	5	0	5	0	5	0	2	2	5	0	4	5	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	15609989	G	G	15609989	2	3	219	1	0	0	0	0	0	0	0	1	6941	446	16	3		3	HACL1	3	15609989	Silent	SNP	A	TCGA-BP-4167-01A-02D-1386-10	5426169	15609989	182412441	7	11809											
ZNF621	285268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	40574134	40574134	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactggggagaaaccttaTcaatgtaaggagtgtggcaa	14	9	12	6	0	1	1	1	0	0	1	1	3	1	2	1	4	2	2	1	4	6	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	40574134	T	A	40574134	4	1	219	1	0	0	0	0	0	1	0	0	18044	1442	50	5	887	5	ZNF621	3	40574134	Nonsense_Mutation	SNP	T	TCGA-BP-4167-01A-02D-1386-10	24964145	40574134	157448296	8	11810											
OSBPL11	114885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	125286405	125286405	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcattcaattcgtctaattAagtctctttgttgtccttca	8	18	6	9	1	4	0	2	0	2	0	7	0	5	0	1	1	0	2	1	1	3	7	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	125286405	A	C	125286405	4	2	219	1	0	0	0	0	0	1	0	0	11276	372	13	5	1574	5	OSBPL11	3	125286405	Nonsense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	84712271	125286405	72736025	9	11811											
DZIP1L	199221	broad.mit.edu;ucsc.edu	37	chr3	137813771	137813771	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttgggtccactttagcttgGcccgtagctcttctaacacc	6	13	8	14	1	2	0	0	0	2	0	3	0	3	0	3	2	3	3	3	2	3	7	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	137813771	T	T	137813771	3	4	219	1	0	0	0	0	1	0	0	0	4864	1203	42	4	1723	4	DZIP1L	3	137813771	Missense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10	12527366	137813771	60208659	10	11812											
MUC4	4585	hgsc.bcm.edu	37	chr3	195509795	195509795	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtggacactgaggaagCgtcggtgacaggaagagggg	11	5	18	7	2	0	3	0	2	0	1	1	6	0	6	1	6	1	0	1	6	2	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	195509795	C	T	195509795	3	4	219	1	0	0	0	0	1	0	0	0	9978	768	27	1		1	MUC4	3	195509795	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	57696024	195509795	2512635	11	11813											
MEGF10	84466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	126778709	126778709	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgcccttcaggaacataTggctatggctgtcgccagat	9	10	12	10	1	1	1	1	0	0	1	2	3	1	2	2	3	2	2	2	3	3	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	126778709	T	G	126778709	4	3	219	1	0	0	0	0	0	1	0	0	9460	1471	51	5	2452	5	MEGF10	5	126778709	Nonsense_Mutation	SNP	T	TCGA-BP-4167-01A-02D-1386-10		126778709	54136551	12	11814											
ANKHD1-EIF4EBP3	404734	broad.mit.edu;ucsc.edu	37	chr5	139876772	139876772	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgctattactggacaTgatcaggggctgttagttca	10	13	11	7	0	2	2	2	1	0	1	2	3	2	3	0	3	2	4	0	3	3	5	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	139876772	C	C	139876772	2	2	219	1	0	0	0	0	0	0	0	1	629	1461	51	3		3	ANKHD1-EIF4EBP3	5	139876772	Silent	SNP	T	TCGA-BP-4167-01A-02D-1386-10	13098063	139876772	41038488	13	11815											
PCDHA5	56143	broad.mit.edu	37	chr5	140202962	140202962	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagctgctgcagttccaggtGagcgcgcgcgacgcgggcgt	5	6	18	12	7	0	1	0	1	0	0	1	3	1	1	1	2	4	4	1	2	0	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	140202962	A	A	140202962	2	1	219	1	0	0	0	0	0	0	0	1	11527	1277	45	2		2	PCDHA5	5	140202962	Silent	SNP	G	TCGA-BP-4167-01A-02D-1386-10	326190	140202962	40712298	14	11816											
TCF19	6941	broad.mit.edu	37	chr6	31127384	31127384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgatgtggccctgcggccCcagcaggagcctggcctcat	5	8	14	14	1	1	1	1	1	0	0	1	2	1	2	5	4	3	1	5	4	0	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	31127384	T	T	31127384	2	4	219	1	0	0	0	0	0	0	0	1	15688	610	22	2		2	TCF19	6	31127384	Silent	SNP	C	TCGA-BP-4167-01A-02D-1386-10		31127384	139987683	15	11817											
FILIP1	27145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	76022977	76022977	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagctcatttgctgctggAggatacctgtctagaacaga	10	11	12	8	0	2	3	1	1	1	2	2	5	2	5	1	2	5	3	1	2	3	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	76022977	A	T	76022977	2	4	219	1	0	0	0	0	0	0	0	1	5894	291	11	5		5	FILIP1	6	76022977	Silent	SNP	A	TCGA-BP-4167-01A-02D-1386-10	44895593	76022977	95092090	16	11818											
PPIL4	85313	broad.mit.edu	37	chr6	149855820	149855820	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggctttacttacatctaaTtgttcccttgtaggttctgg	7	17	9	8	0	2	0	0	0	2	0	3	0	3	0	1	3	2	4	1	3	4	9	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	149855820	C	C	149855820	2	2	219	1	0	0	0	0	0	0	0	1	12331	1490	52	3		3	PPIL4	6	149855820	Silent	SNP	T	TCGA-BP-4167-01A-02D-1386-10	73832843	149855820	21259247	17	11819											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152443659	152443659	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacagctgtagtcttccTctgacattggtacaaggcag	9	10	12	10	0	2	1	0	1	2	0	3	1	3	1	1	3	2	5	1	3	3	4	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	152443659	T	A	152443659	3	1	219	1	0	0	0	0	1	0	0	0	15444	1551	54	5	91	5	SYNE1	6	152443659	Missense_Mutation	SNP	T	TCGA-BP-4167-01A-02D-1386-10	2587839	152443659	18671408	18	11820											
INTS1	26173	broad.mit.edu	37	chr7	1538900	1538900	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcagctacctgggcatgAgctggccctcctgctcgggg	5	7	14	15	2	0	1	0	1	0	0	2	1	1	1	3	4	4	5	3	4	1	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	1538900	G	G	1538900	3	3	219	1	0	0	0	0	1	0	0	0	7775	304	11	3	5799	3	INTS1	7	1538900	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10		1538900	157599763	19	11821											
DGKB	1607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	14378224	14378224	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctattcgtcgatggcttcGtcttttcttagactctcccc	4	17	6	14	3	4	1	0	0	4	1	8	2	4	1	2	1	0	1	2	1	2	6	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	14378224	G	A	14378224	4	1	219	1	0	0	0	0	0	1	0	0	4466	1153	40	1	404	1	DGKB	7	14378224	Nonsense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10	12839324	14378224	144760439	20	11822											
C7orf51	0	broad.mit.edu;hgsc.bcm.edu	37	chr7	100088627	100088627	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttcacgggaggctaccGcctggggcgctccgcctcca	6	6	13	16	4	1	1	1	0	0	1	3	2	3	2	5	4	1	2	5	4	1	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	100088627	G	A	100088627	3	1	219	1	0	0	0	0	1	0	0	0	2400	1087	38	1	2195	1	C7orf51	7	100088627	Missense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10	85710403	100088627	59050036	21	11823											
ASZ1	136991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117025841	117025841	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgaccatctcgagcagcatAcatgattggggtcataagtc	11	10	11	9	1	2	2	1	2	1	0	4	3	2	2	1	2	3	2	1	2	2	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	117025841	A	G	117025841	3	3	219	1	0	0	0	0	1	0	0	0	1069	391	14	3	1000	3	ASZ1	7	117025841	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	16937214	117025841	42112822	22	11824											
MYST3	0	broad.mit.edu;ucsc.edu	37	chr8	41791800	41791800	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcatcagcgtcgtggTcgtcattctgggcagtctct	5	13	10	13	3	6	0	4	0	2	0	9	0	6	0	1	2	1	1	1	2	0	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	41791800	C	C	41791800	3	2	219	1	0	0	0	0	1	0	0	0	10104	1667	58	3	2080	3	MYST3	8	41791800	Missense_Mutation	SNP	T	TCGA-BP-4167-01A-02D-1386-10		41791800	104572222	23	11825											
KRTAP5-4	387267	broad.mit.edu;hgsc.bcm.edu	37	chr11	1643255	1643255	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccacagccagagccacaGcccccacagccggagccaca	11	0	8	22	1	0	1	0	0	0	1	0	2	0	2	8	1	5	0	8	1	0	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	1643255	G	A	1643255	2	1	219	1	0	0	0	0	0	0	0	1	8563	958	34	2		2	KRTAP5-4	11	1643255	Silent	SNP	G	TCGA-BP-4167-01A-02D-1386-10		1643255	133363261	24	11826											
INSC	387755	hgsc.bcm.edu	37	chr11	15243190	15243190	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggagatcgtgacagccctCgtcagtgagtcaccctgggc	8	7	14	12	2	2	3	2	2	0	1	4	5	2	3	2	2	1	0	2	2	0	0	rs61742947	bycluster;byfrequency;by1000genomes	TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	15243190	C	T	15243190	2	4	219	1	0	0	0	0	0	0	0	1	7764	871	31	1		1	INSC	11	15243190	Silent	SNP	C	TCGA-BP-4167-01A-02D-1386-10	13599935	15243190	119763326	25	11827											
ANO3	63982	broad.mit.edu;hgsc.bcm.edu	37	chr11	26465333	26465333	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatactgaggagaataaaaAcgactctgtgctgagatgtt	15	11	10	5	1	1	3	0	2	1	2	1	6	1	3	0	1	3	2	0	1	6	4	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	26465333	A	G	26465333	3	3	219	1	0	0	0	0	1	0	0	0	698	43	2	3	273	3	ANO3	11	26465333	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	11222143	26465333	108541183	26	11828											
RAG2	5897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	36614945	36614945	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagtcaggattgcactggaGacagagattcctcctggcaa	11	9	12	9	0	1	3	1	1	0	2	3	6	3	4	2	3	1	2	2	3	1	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	36614945	G	A	36614945	2	1	219	1	0	0	0	0	0	0	0	1	13007	929	33	2		2	RAG2	11	36614945	Silent	SNP	G	TCGA-BP-4167-01A-02D-1386-10	10149612	36614945	98391571	27	11829											
OR5AP2	338675	broad.mit.edu;ucsc.edu	37	chr11	56409234	56409234	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttcaagacggcaatgaAgatacacaggtaggaaatga	17	7	10	7	1	2	4	1	2	1	2	2	5	2	5	0	3	1	2	0	3	6	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	56409234	G	G	56409234	3	3	219	1	0	0	0	0	1	0	0	0	11144	72	3	3	272	3	OR5AP2	11	56409234	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	19794289	56409234	78597282	28	11830											
WDR74	54663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62606659	62606659	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgaccctggaatatgccatCctcggtgctgaagtgcttca	8	11	10	12	1	1	2	1	2	0	0	3	3	2	3	3	2	3	2	3	2	3	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	62606659	C	T	62606659	3	4	219	1	0	0	0	0	1	0	0	0	17323	855	30	2	973	2	WDR74	11	62606659	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	6197425	62606659	72399857	29	11831											
PRB1	5542	broad.mit.edu	37	chr12	11506356	11506356	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggaccttggggctggttGcctccttgtgggggtggtcc	1	11	20	9	0	0	0	0	0	0	0	2	1	2	1	4	8	1	2	4	8	0	3	rs78796502		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	11506356	A	A	11506356	2	1	219	1	0	0	0	0	0	0	0	1	12444	1306	46	2		2	PRB1	12	11506356	Silent	SNP	G	TCGA-BP-4167-01A-02D-1386-10		11506356	122345539	30	11832											
C12orf60	144608	broad.mit.edu;ucsc.edu	37	chr12	14976216	14976216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcagctaaagaagtattcaAaagtgcccatacgccagtca	15	8	8	10	1	3	1	3	0	0	1	3	1	3	1	2	0	3	2	2	0	7	4	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	14976216	G	G	14976216	3	3	219	1	0	0	0	0	1	0	0	0	1703	14	1	3	349	3	C12orf60	12	14976216	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	3469860	14976216	118875679	31	11833											
ERP27	121506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	15091412	15091412	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacgtgaggagaaataagaGgaacatgaacctggacgggg	16	4	15	6	2	0	4	0	2	0	2	0	7	0	6	1	5	2	0	1	5	4	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	15091412	G	T	15091412	3	4	219	1	0	0	0	0	1	0	0	0	5241	1000	35	4	818	4	ERP27	12	15091412	Missense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10	115196	15091412	118760483	32	11834											
TMTC3	160418	broad.mit.edu;hgsc.bcm.edu	37	chr12	88589406	88589406	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagactagaagagattgaaCgtattttaaatggtgaataa	19	11	9	2	1	0	5	0	2	0	3	0	6	0	5	0	1	1	1	0	1	9	6	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	88589406	C	T	88589406	3	4	219	1	0	0	0	0	1	0	0	0	16261	536	19	1	2775	1	TMTC3	12	88589406	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	73497994	88589406	45262489	33	11835											
HIP1R	9026	broad.mit.edu	37	chr12	123343650	123343650	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggggcccgggctctggAgctcatggggcagctgcagg	4	6	20	11	2	2	0	1	0	1	0	2	1	2	1	1	7	4	5	1	7	0	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	123343650	G	G	123343650	3	3	219	1	0	0	0	0	1	0	0	0	7115	304	11	3	2287	3	HIP1R	12	123343650	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	34754244	123343650	10508245	34	11836											
PCK2	5106	broad.mit.edu;ucsc.edu	37	chr14	24568786	24568786	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgggcatcaccagccCtgcagggaagaagcgctatg	10	6	13	12	1	1	1	1	0	0	1	2	3	2	2	3	2	3	3	3	2	3	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	24568786	A	A	24568786	3	1	219	1	0	0	0	0	1	0	0	0	11582	681	24	4	894	4	PCK2	14	24568786	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10		24568786	82780754	35	11837											
ESR2	2100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64746834	64746834	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccagtaacagggctggCgcaacggttcccactaacct	10	7	11	13	2	0	0	0	0	0	0	1	1	1	1	3	4	3	4	3	4	3	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	64746834	C	T	64746834	3	4	219	1	0	0	0	0	1	0	0	0	5257	768	27	1	1306	1	ESR2	14	64746834	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	40178048	64746834	42602706	36	11838											
GPHN	10243	broad.mit.edu;hgsc.bcm.edu	37	chr14	67389564	67389564	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaaaggagttcaatgtgAggaagaggaagaagagaaga	20	4	15	2	0	1	6	1	1	0	5	1	10	1	9	0	3	0	1	0	3	6	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	67389564	A	G	67389564	3	3	219	1	0	0	0	0	1	0	0	0	6610	304	11	3	664	3	GPHN	14	67389564	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	2642730	67389564	39959976	37	11839											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105418155	105418155	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcggaagggggctgaatgctGaggtcagtggtcttgaggtc	7	9	19	6	1	2	3	1	3	1	0	3	4	2	4	0	6	1	2	0	6	2	1	rs141600524	by1000genomes	TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	105418155	G	C	105418155	2	2	219	1	0	0	0	0	0	0	0	1	415	1277	45	4		4	AHNAK2	14	105418155	Silent	SNP	G	TCGA-BP-4167-01A-02D-1386-10	38028591	105418155	1931385	38	11840											
JAG2	3714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105617708	105617708	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgccaccggccgcacaCgggttcgaagcacactcatc	9	5	11	16	4	1	0	1	0	0	0	3	1	1	0	3	3	2	3	3	3	1	1	rs147768578		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	105617708	C	T	105617708	2	4	219	1	0	0	0	0	0	0	0	1	7935	523	19	1		1	JAG2	14	105617708	Silent	SNP	C	TCGA-BP-4167-01A-02D-1386-10	199553	105617708	1731832	39	11841											
ZNF200	7752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3274074	3274074	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacattctggacacttaaAtatcttctcccttatatgga	11	14	4	12	0	3	0	0	0	3	0	4	2	3	2	2	2	0	0	2	2	5	6	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	3274074	A	T	3274074	3	4	219	1	0	0	0	0	1	0	0	0	17761	101	4	5	185	5	ZNF200	16	3274074	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10		3274074	87080679	40	11842											
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49672052	49672052	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccaggtggcagtagacAccttccactgaggagaactg	10	8	12	11	0	0	3	0	1	0	2	2	4	2	3	3	3	1	2	3	3	2	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	49672052	A	T	49672052	2	4	219	1	0	0	0	0	0	0	0	1	17897	146	6	5		5	ZNF423	16	49672052	Silent	SNP	A	TCGA-BP-4167-01A-02D-1386-10	46397978	49672052	40682701	41	11843											
RLTPR	146206	broad.mit.edu;ucsc.edu	37	chr16	67685104	67685104	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggaagtgaatgaattGtgtcagtcggtgcaggagca	11	8	14	8	1	1	2	1	2	0	0	2	4	1	4	2	3	2	2	2	3	3	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	67685104	T	T	67685104	3	4	219	1	0	0	0	0	1	0	0	0	13396	1368	48	4	2289	4	RLTPR	16	67685104	Missense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10	18013052	67685104	22669649	42	11844											
TEKT3	64518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15207259	15207259	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acccggtggggtccctagcaGaagccgaccagccggagggt	8	4	16	13	3	0	1	0	0	0	1	1	3	1	2	5	5	3	1	5	5	2	1	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	15207259	G	C	15207259	3	2	219	1	0	0	0	0	1	0	0	0	15753	933	33	4	9	4	TEKT3	17	15207259	Missense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10		15207259	65987951	43	11845											
CDK3	1018	broad.mit.edu;ucsc.edu	37	chr17	73999460	73999460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcccaatctggagccagAgggcagggacctgctcatgg	8	7	15	11	0	2	1	1	0	1	1	2	3	2	3	3	4	3	2	3	4	1	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	73999460	G	G	73999460	3	3	219	1	0	0	0	0	1	0	0	0	3140	304	11	3	795	3	CDK3	17	73999460	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	58792201	73999460	7195750	44	11846											
ZNF519	162655	hgsc.bcm.edu	37	chr18	14105186	14105186	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctccagtatggattctTtgatgtcgagtaaggtgtga	8	16	11	6	1	2	2	0	2	2	0	5	4	3	3	1	2	0	2	1	2	2	5	rs145376132	bycluster;byfrequency;by1000genomes	TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		C	14105186	T	C	14105186	2	2	219	1	0	0	0	0	0	0	0	1	17963	1838	64	3		3	ZNF519	18	14105186	Silent	SNP	T	TCGA-BP-4167-01A-02D-1386-10		14105186	63972062	45	11847											
CTDP1	9150	hgsc.bcm.edu;ucsc.edu	37	chr18	77488985	77488985	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagagcagcctggcccttcTagaagaaagcgacagcccag	12	4	13	12	1	1	3	0	0	1	3	1	5	1	3	3	2	4	1	3	2	3	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	77488985	T	A	77488985	2	1	219	1	0	0	0	0	0	0	0	1	4002	1509	53	5		5	CTDP1	18	77488985	Silent	SNP	T	TCGA-BP-4167-01A-02D-1386-10	63383799	77488985	588263	46	11848											
ATCAY	85300	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3905489	3905489	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taagaggaagacgctggtggCcccagagatcaacatttctc	12	8	11	10	1	2	3	1	0	1	3	3	5	2	4	2	3	1	1	2	3	3	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	3905489	C	T	3905489	3	4	219	1	0	0	0	0	1	0	0	0	1077	739	26	2	204	2	ATCAY	19	3905489	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10		3905489	55223494	47	11849											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9072939	9072939	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaatgctgaaccggtggtcCccacattggtaactactgtg	10	10	10	11	1	0	1	0	1	0	0	1	1	1	1	3	3	4	2	3	3	4	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	9072939	C	T	9072939	3	4	219	1	0	0	0	0	1	0	0	0	9973	623	22	2	29344	2	MUC16	19	9072939	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	5167450	9072939	50056044	48	11850											
USHBP1	83878	broad.mit.edu	37	chr19	17373404	17373404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagctcggatggcctccaggGaggcctgcgtgcggaccagc	6	5	16	14	3	0	0	0	0	0	0	2	3	1	3	4	5	4	1	4	5	0	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	17373404	A	A	17373404	3	1	219	1	0	0	0	0	1	0	0	0	17036	1174	41	2	1552	2	USHBP1	19	17373404	Missense_Mutation	SNP	G	TCGA-BP-4167-01A-02D-1386-10	8300465	17373404	41755579	49	11851											
ZNF98	148198	broad.mit.edu	37	chr19	22574754	22574754	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagggcttctctccagtaTgaattctcttatgtgtagta	8	17	9	7	0	2	1	0	1	2	0	5	1	3	1	1	1	0	5	1	1	6	7	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	22574754	G	G	22574754	3	3	219	1	0	0	0	0	1	0	0	0	18202	1464	51	5	439	5	ZNF98	19	22574754	Missense_Mutation	SNP	T	TCGA-BP-4167-01A-02D-1386-10	5201350	22574754	36554229	50	11852											
CIC	23152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42793535	42793535	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcatggtcatctgtgaggAggaaggggatgatgatgtca	10	9	17	5	1	3	3	2	3	1	0	3	6	3	6	0	5	0	1	0	5	1	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	42793535	A	T	42793535	3	4	219	1	0	0	0	0	1	0	0	0	3424	304	11	5	1367	5	CIC	19	42793535	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	20218781	42793535	16335448	51	11853											
PSG5	5673	broad.mit.edu;hgsc.bcm.edu	37	chr19	43679580	43679580	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggttttctcctgaacggtAataggtgaatgaagggtaaa	13	11	13	4	1	1	3	0	3	1	0	2	4	1	3	1	4	1	3	1	4	7	5	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	43679580	A	G	43679580	3	3	219	1	0	0	0	0	1	0	0	0	12660	362	13	3	264	3	PSG5	19	43679580	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	886045	43679580	15449403	52	11854											
NFS1	9054	broad.mit.edu;hgsc.bcm.edu	37	chr20	34285610	34285610	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctgtgtactaacctgaCgagcacgttccatggctgcc	8	10	9	14	2	0	1	0	1	0	0	2	2	2	1	4	1	4	4	4	1	2	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	34285610	C	T	34285610	3	4	219	1	0	0	0	0	1	0	0	0	10385	536	19	1	1097	1	NFS1	20	34285610	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10		34285610	28739910	53	11855											
GTSE1	51512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	46712158	46712158	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagactccggaaggtggCggccagtggctgaactccag	8	5	14	14	2	0	2	0	1	0	1	2	3	2	3	5	5	1	1	5	5	2	0	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	46712158	C	A	46712158	2	1	219	1	0	0	0	0	0	0	0	1	6885	755	27	4		4	GTSE1	22	46712158	Silent	SNP	C	TCGA-BP-4167-01A-02D-1386-10		46712158	4592408	54	11856											
CELSR1	9620	broad.mit.edu;ucsc.edu	37	chr22	46807533	46807533	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtgccctgggcagcgcAgctgtagttcccgatgtcct	5	10	13	13	2	0	1	0	1	0	0	2	2	2	1	3	1	3	5	3	1	1	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	46807533	G	G	46807533	3	3	219	1	0	0	0	0	1	0	0	0	3221	188	7	3	4429	3	CELSR1	22	46807533	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	95375	46807533	4497033	55	11857											
TAF7L	54457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	100532702	100532702	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatcttcagcaatgacttCccaacctgaaaggagtgggt	11	10	9	11	0	2	2	1	2	1	0	4	3	4	3	3	2	2	1	3	2	3	2	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		A	100532702	C	A	100532702	4	1	219	1	0	0	0	0	0	1	0	0	15532	864	30	4	567	4	TAF7L	23	100532702	Nonsense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10		100532702	54737858	56	11858											
GPR101	83550	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	136112680	136112680	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgggcagaggagggttgCtgttgctgttacgacgactg	7	10	16	8	2	0	1	0	0	0	1	0	4	0	2	1	3	3	6	1	3	1	3	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	136112680	C	T	136112680	3	4	219	1	0	0	0	0	1	0	0	0	6622	797	28	2	375	2	GPR101	23	136112680	Missense_Mutation	SNP	C	TCGA-BP-4167-01A-02D-1386-10	35579978	136112680	19157880	57	11859											
MAGEC3	139081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	140953292	140953292	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagataaggactattctgcCtttcatcttgggcatctgag	10	13	9	9	0	4	2	1	1	3	1	4	3	4	3	1	2	1	1	1	2	2	5	novel		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		T	140953292	C	T	140953292	2	4	219	1	0	0	0	0	0	0	0	1	9182	668	24	2		2	MAGEC3	23	140953292	Silent	SNP	C	TCGA-BP-4167-01A-02D-1386-10	4840612	140953292	14317268	58	11860											
IL9R	3581	broad.mit.edu	37	chrX	155239824	155239824	+	Missense_Mutation	SNP	A	G	G																															cagcagcagcagcagcagcaAcaacaacaactactgtgcct																								rs3852767		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	155239824	G	G	155239824	3	3	219	1	0	0	0	0	1	0	0	0	7708	43	2	3	1350	3	IL9R	23	155239824	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	14286532	155239824	30736	59	11861	175	2									
IL9R	3581	broad.mit.edu	37	chrX	155239827	155239827	+	Missense_Mutation	SNP	A	G	G																															cagcagcagcagcagcaacaAcaacaactactgtgccttgg																								rs3865220		TCGA-BP-4167-01A-02D-1386-10	TCGA-BP-4167-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79b810e1-4de4-496d-9f70-ab62246e781b	be250c13-93c8-4e95-b0b9-c6a4fce00090		G	155239827	G	G	155239827	3	3	219	1	0	0	0	0	1	0	0	0	7708	43	2	3	1353	3	IL9R	23	155239827	Missense_Mutation	SNP	A	TCGA-BP-4167-01A-02D-1386-10	3	155239827	30733	60	11862	175	2									
SFPQ	6421	hgsc.bcm.edu;ucsc.edu	37	chr1	35657116	35657116	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctcctcaagagagacaaAttggctttaaacccctaatg	13	9	8	11	0	1	2	1	0	0	2	2	3	2	2	4	2	1	1	4	2	5	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	35657116	A	T	35657116	3	4	220	1	0	0	0	0	1	0	0	0	14162	98	4	5	1316	5	SFPQ	1	35657116	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10		35657116	213593505	1	11863											
COL9A2	1298	hgsc.bcm.edu;ucsc.edu	37	chr1	40776390	40776390	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggtgttccttaccggtGgtccagggatgccttgctct	5	12	13	11	1	1	0	0	0	1	0	3	1	3	1	4	4	3	3	4	4	2	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	40776390	G	A	40776390	3	1	220	1	0	0	0	0	1	0	0	0	3708	1348	47	2	1469	2	COL9A2	1	40776390	Missense_Mutation	SNP	G	TCGA-BP-4169-01A-02D-1366-10	5119274	40776390	208474231	2	11864											
C1orf173	127254	hgsc.bcm.edu	37	chr1	75102070	75102070	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattactgggaagaggctgtAatcgaattggaggctgcata	12	10	14	5	1	0	1	0	0	0	1	1	5	0	3	0	4	2	4	0	4	5	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	75102070	A	G	75102070	3	3	220	1	0	0	0	0	1	0	0	0	2014	372	13	3	4131	3	C1orf173	1	75102070	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10	34325680	75102070	174148551	3	11865											
C1orf14	0	hgsc.bcm.edu	37	chr1	182869245	182869245	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatctcctgaagaagccCttttgttgagagcttcttct	7	18	7	9	0	3	3	0	2	3	2	4	4	3	3	2	0	2	2	2	0	3	7	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	182869245	C	G	182869245	3	3	220	1	0	0	0	0	1	0	0	0	2000	681	24	4	130	4	C1orf14	1	182869245	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	107767175	182869245	66381376	4	11866											
PLEKHA6	22874	hgsc.bcm.edu;ucsc.edu	37	chr1	204228767	204228767	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcctcggccatcaccctccCctcgagtcttggcctctggc	4	9	9	19	2	3	0	1	0	2	0	6	1	4	0	6	3	1	0	6	3	0	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	204228767	C	T	204228767	3	4	220	1	0	0	0	0	1	0	0	0	12060	623	22	2	2580	2	PLEKHA6	1	204228767	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	21359522	204228767	45021854	5	11867											
OBSCN	84033	hgsc.bcm.edu;ucsc.edu	37	chr1	228511298	228511298	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaccaaggctgagctcCgtgtggactgtgagtactgc	7	9	12	13	1	0	2	0	2	0	0	2	3	2	3	4	2	3	3	4	2	2	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	228511298	C	T	228511298	3	4	220	1	0	0	0	0	1	0	0	0	10812	652	23	1	15861	1	OBSCN	1	228511298	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	24282531	228511298	20739323	6	11868											
MYT1L	23040	hgsc.bcm.edu;ucsc.edu	37	chr2	1921063	1921063	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacgtggccggttccatcaCacccgggggttggacacttg	6	10	13	12	3	1	0	1	0	0	0	2	1	2	1	3	5	1	2	3	5	1	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	1921063	C	A	1921063	3	1	220	1	0	0	0	0	1	0	0	0	10107	478	17	4	2088	4	MYT1L	2	1921063	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10		1921063	241278310	7	11869											
SCN2A	6326	hgsc.bcm.edu;ucsc.edu	37	chr2	166152464	166152464	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacaggaacgcaaggatgAggatgatgaaaatggcccaa	18	4	12	7	1	0	3	0	3	0	0	0	6	0	6	1	4	2	1	1	4	6	0	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	166152464	A	G	166152464	3	3	220	1	0	0	0	0	1	0	0	0	13918	304	11	3	133	3	SCN2A	2	166152464	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10	164231401	166152464	77046909	8	11870											
PER2	8864	hgsc.bcm.edu;ucsc.edu	37	chr2	239185783	239185783	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccttacctgcagccactTgtagatgggttgtgttcaga	7	13	12	9	0	1	2	1	0	0	2	1	2	1	2	3	2	3	4	3	2	2	5	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	239185783	T	C	239185783	2	2	220	1	0	0	0	0	0	0	0	1	11730	1799	63	3		3	PER2	2	239185783	Silent	SNP	T	TCGA-BP-4169-01A-02D-1366-10	73033319	239185783	4013590	9	11871											
TGFBR2	7048	hgsc.bcm.edu	37	chr3	30732950	30732950	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagacgttgactgagtgctgGgaccacgacccagaggcccg	9	5	15	12	3	0	4	0	2	0	2	0	7	0	5	3	2	1	2	3	2	0	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	30732950	G	T	30732950	3	4	220	1	0	0	0	0	1	0	0	0	15821	1241	43	4	1668	4	TGFBR2	3	30732950	Missense_Mutation	SNP	G	TCGA-BP-4169-01A-02D-1366-10		30732950	167289480	10	11872											
SLC6A20	54716	hgsc.bcm.edu;ucsc.edu	37	chr3	45817396	45817396	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttttcctgtaccagaagtActgtgtggaggacgccttct	7	13	12	9	1	1	1	0	0	1	1	2	3	2	3	3	3	2	3	3	3	3	5	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	45817396	A	G	45817396	3	3	220	1	0	0	0	0	1	0	0	0	14686	391	14	3	1371	3	SLC6A20	3	45817396	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10	15084446	45817396	152205034	11	11873											
KLHDC8B	200942	hgsc.bcm.edu	37	chr3	49210262	49210262	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcccccccatgcccacttgCcgggtctatggcacagtggc	5	9	10	17	1	1	0	0	0	1	0	2	0	2	0	5	3	2	1	5	3	1	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	49210262	C	T	49210262	2	4	220	1	0	0	0	0	0	0	0	1	8363	747	26	2		2	KLHDC8B	3	49210262	Silent	SNP	C	TCGA-BP-4169-01A-02D-1366-10	3392866	49210262	148812168	12	11874											
PRKCD	5580	hgsc.bcm.edu	37	chr3	53223226	53223226	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgccacattatccccgCtggatcaccaaggagtccaa	12	6	8	15	2	1	0	1	0	0	0	3	3	3	2	5	2	0	1	5	2	3	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	53223226	C	A	53223226	2	1	220	1	0	0	0	0	0	0	0	1	12511	784	28	4		4	PRKCD	3	53223226	Silent	SNP	C	TCGA-BP-4169-01A-02D-1366-10	4012964	53223226	144799204	13	11875											
CLSTN2	64084	hgsc.bcm.edu	37	chr3	140140114	140140114	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgcaagcctggctggcAaggtgggcctgttttatcag	7	12	14	8	0	1	0	1	0	0	0	1	0	1	0	2	4	2	5	2	4	3	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	140140114	A	G	140140114	3	3	220	1	0	0	0	0	1	0	0	0	3562	130	5	3	803	3	CLSTN2	3	140140114	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10	86916888	140140114	57882316	14	11876											
BCL6	604	hgsc.bcm.edu	37	chr3	187447718	187447718	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttctccaccacctcacgacCccgataggccatgatgtctt	8	10	7	16	2	3	1	1	1	2	0	4	3	3	1	6	1	0	1	6	1	1	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	187447718	C	A	187447718	3	1	220	1	0	0	0	0	1	0	0	0	1376	623	22	4	1669	4	BCL6	3	187447718	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	47307604	187447718	10574712	15	11877											
CENPE	1062	hgsc.bcm.edu	37	chr4	104115562	104115562	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtatgagaacgactgcttCtttgattcatttttgtttct	7	20	8	6	1	3	2	1	2	2	1	3	4	3	2	0	1	2	3	0	1	2	7	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	104115562	C	T	104115562	3	4	220	1	0	0	0	0	1	0	0	0	3230	913	32	2	7681	2	CENPE	4	104115562	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10		104115562	87038714	16	11878											
FAT1	2195	hgsc.bcm.edu	37	chr4	187630234	187630234	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccggagcacattcattggCctgttcgatgtgcaccgtta	8	11	10	12	3	1	0	1	0	0	0	2	2	1	1	3	2	2	4	3	2	1	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	187630234	C	T	187630234	3	4	220	1	0	0	0	0	1	0	0	0	5689	739	26	2	13122	2	FAT1	4	187630234	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	83514672	187630234	3524042	17	11879											
SLC17A1	6568	hgsc.bcm.edu	37	chr6	25813151	25813151	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaacgtaaaactaccagTggaaatagcccagactggaa	19	5	9	8	1	0	1	0	0	0	1	0	4	0	3	2	2	4	1	2	2	8	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	25813151	T	C	25813151	3	2	220	1	0	0	0	0	1	0	0	0	14418	1696	59	3	618	3	SLC17A1	6	25813151	Missense_Mutation	SNP	T	TCGA-BP-4169-01A-02D-1366-10		25813151	145301916	18	11880											
VPS13A	23230	hgsc.bcm.edu	37	chr9	79933403	79933403	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatagttcttgaggctggaAttggtcatagaacagtacct	11	14	10	6	0	2	2	1	1	1	1	2	3	2	3	1	3	2	3	1	3	6	7	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	79933403	A	G	79933403	3	3	220	1	0	0	0	0	1	0	0	0	17188	101	4	3	5371	3	VPS13A	9	79933403	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10		79933403	61280028	19	11881											
TBC1D2	55357	hgsc.bcm.edu;ucsc.edu	37	chr9	100991264	100991264	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttaactccttggtgagcatCagaacctgttgctccaaggc	9	12	9	11	0	1	2	1	1	0	1	3	2	3	2	3	2	4	3	3	2	3	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	100991264	C	T	100991264	2	4	220	1	0	0	0	0	0	0	0	1	15607	813	29	2		2	TBC1D2	9	100991264	Silent	SNP	C	TCGA-BP-4169-01A-02D-1366-10	21057861	100991264	40222167	20	11882											
TBC1D13	54662	hgsc.bcm.edu	37	chr9	131570110	131570110	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggactaccccatcacagaTgtctgccagatcctgcagaa	12	7	8	14	0	2	3	1	0	1	3	3	4	3	4	4	1	3	1	4	1	2	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	131570110	T	C	131570110	2	2	220	1	0	0	0	0	0	0	0	1	15601	1461	51	3		3	TBC1D13	9	131570110	Silent	SNP	T	TCGA-BP-4169-01A-02D-1366-10	30578846	131570110	9643321	21	11883											
SETX	23064	hgsc.bcm.edu;ucsc.edu	37	chr9	135202859	135202859	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgctgtatgtgaccctgCtcttttaacatctgtacttt	6	18	7	10	0	2	1	0	1	2	0	2	1	2	1	1	0	4	4	1	0	3	5	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	135202859	C	T	135202859	3	4	220	1	0	0	0	0	1	0	0	0	14143	797	28	2	3975	2	SETX	9	135202859	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	3632749	135202859	6010572	22	11884											
ARID5B	84159	hgsc.bcm.edu;ucsc.edu	37	chr10	63661481	63661481	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcgagatggagcccaacTcactccaggtatttcgctct	9	10	9	13	3	2	1	1	0	1	1	5	3	3	2	2	2	2	2	2	2	2	2	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	63661481	T	G	63661481	3	3	220	1	0	0	0	0	1	0	0	0	922	1551	54	5	15	5	ARID5B	10	63661481	Missense_Mutation	SNP	T	TCGA-BP-4169-01A-02D-1366-10		63661481	71873266	23	11885											
FAM178A	55719	hgsc.bcm.edu	37	chr10	102676494	102676494	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatagaagctttcatgaaaGgtgttaaagagcaccatgaa	16	11	9	5	0	1	4	1	2	0	2	1	4	1	4	1	1	2	3	1	1	7	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	102676494	G	C	102676494	3	2	220	1	0	0	0	0	1	0	0	0	5503	1000	35	4	362	4	FAM178A	10	102676494	Missense_Mutation	SNP	G	TCGA-BP-4169-01A-02D-1366-10	39015013	102676494	32858253	24	11886											
MICAL2	9645	hgsc.bcm.edu;ucsc.edu	37	chr11	12225972	12225972	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggagccaagaagttctatgGgaagttctgtgctggctcca	9	10	14	8	0	2	1	0	0	2	1	3	3	3	3	2	3	2	4	2	3	4	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	12225972	G	T	12225972	3	4	220	1	0	0	0	0	1	0	0	0	9570	1232	43	4	446	4	MICAL2	11	12225972	Missense_Mutation	SNP	G	TCGA-BP-4169-01A-02D-1366-10		12225972	122780544	25	11887											
MEN1	4221	hgsc.bcm.edu;ucsc.edu	37	chr11	64577153	64577153	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caacctgtgatgaagctgaaGagggactggatgtgggcccg	10	7	16	8	1	0	4	0	3	0	1	0	6	0	6	2	3	2	1	2	3	3	0	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	64577153	G	A	64577153	2	1	220	1	0	0	0	0	0	0	0	1	9472	929	33	2		2	MEN1	11	64577153	Silent	SNP	G	TCGA-BP-4169-01A-02D-1366-10	52351181	64577153	70429363	26	11888											
LALBA	3906	hgsc.bcm.edu;ucsc.edu	37	chr12	48961740	48961740	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccaaggacagcagacacTcacaacttctcacaaagcca	15	5	7	14	0	2	1	2	0	1	1	3	2	2	2	2	1	4	1	2	1	3	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	48961740	T	C	48961740	3	2	220	1	0	0	0	0	1	0	0	0	8604	1564	54	3	3	3	LALBA	12	48961740	Missense_Mutation	SNP	T	TCGA-BP-4169-01A-02D-1366-10		48961740	84890155	27	11889											
LUM	4060	hgsc.bcm.edu	37	chr12	91502421	91502421	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcagttgtttcaatttagaGaaaactctcccttttatctt	10	19	4	8	0	4	1	2	0	2	1	5	2	4	1	1	0	1	2	1	0	5	8	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	91502421	G	A	91502421	2	1	220	1	0	0	0	0	0	0	0	1	9085	933	33	2		2	LUM	12	91502421	Silent	SNP	G	TCGA-BP-4169-01A-02D-1366-10	42540681	91502421	42349474	28	11890											
VEZT	55591	hgsc.bcm.edu;ucsc.edu	37	chr12	95668544	95668544	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaactctgagagtgacaAtgtaaccaactacatctgtg	13	10	8	10	0	2	3	0	3	2	1	2	4	2	3	2	0	4	1	2	0	5	2	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	95668544	A	G	95668544	3	3	220	1	0	0	0	0	1	0	0	0	17155	101	4	3	901	3	VEZT	12	95668544	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10	4166123	95668544	38183351	29	11891											
GLT8D2	83468	hgsc.bcm.edu	37	chr12	104387250	104387250	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcattggggaggtggccaccCctcctcccagggagctgcta	6	7	14	14	0	0	0	0	0	0	0	2	2	2	2	5	5	2	3	5	5	1	2	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	104387250	C	T	104387250	3	4	220	1	0	0	0	0	1	0	0	0	6470	623	22	2	257	2	GLT8D2	12	104387250	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	8718706	104387250	29464645	30	11892											
DNAH10	196385	hgsc.bcm.edu;ucsc.edu	37	chr12	124416606	124416606	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgacaccttaaagtcccttgGaaactggatggtctacttcc	10	12	8	11	0	1	1	0	1	1	0	3	3	3	3	3	3	2	0	3	3	4	4	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	124416606	G	C	124416606	3	2	220	1	0	0	0	0	1	0	0	0	4598	1174	41	4	13191	4	DNAH10	12	124416606	Missense_Mutation	SNP	G	TCGA-BP-4169-01A-02D-1366-10	20029356	124416606	9435289	31	11893											
F7	2155	hgsc.bcm.edu	37	chr13	113769996	113769996	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgaccagctgatctgTgtgaacgagaacggcggctg	11	7	15	8	3	1	4	0	3	1	1	1	6	1	5	1	3	3	2	1	3	3	0	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	113769996	T	A	113769996	4	1	220	1	0	0	0	0	0	1	0	0	5349	1702	59	5	475	5	F7	13	113769996	Nonsense_Mutation	SNP	T	TCGA-BP-4169-01A-02D-1366-10		113769996	1399882	32	11894											
OR10G3	26533	hgsc.bcm.edu	37	chr14	22038054	22038054	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgatggccgtggggactagGgcagctgccccatccagggg	6	6	18	11	1	0	1	0	1	0	0	1	2	1	2	4	6	2	2	4	6	1	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	22038054	G	A	22038054	2	1	220	1	0	0	0	0	0	0	0	1	10900	1219	43	2		2	OR10G3	14	22038054	Silent	SNP	G	TCGA-BP-4169-01A-02D-1366-10		22038054	85311486	33	11895											
CHRM5	1133	hgsc.bcm.edu;ucsc.edu	37	chr15	34356453	34356453	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaagatgctgcttctctGccgatggaaaaagaaaaaag	15	10	9	7	1	1	2	0	0	1	2	2	4	1	3	1	1	3	2	1	1	6	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	34356453	G	A	34356453	3	1	220	1	0	0	0	0	1	0	0	0	3380	1319	46	2	1537	2	CHRM5	15	34356453	Missense_Mutation	SNP	G	TCGA-BP-4169-01A-02D-1366-10		34356453	68174939	34	11896											
SCAPER	49855	hgsc.bcm.edu;ucsc.edu	37	chr15	77096926	77096926	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagctgaatccagtcaaTcaatgctttgaaatctctta	13	13	6	9	0	3	3	2	3	1	0	5	3	4	3	1	0	2	2	1	0	6	2	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	77096926	T	C	77096926	3	2	220	1	0	0	0	0	1	0	0	0	13880	1435	50	3	3906	3	SCAPER	15	77096926	Missense_Mutation	SNP	T	TCGA-BP-4169-01A-02D-1366-10	42740473	77096926	25434466	35	11897											
LASS3	0	hgsc.bcm.edu;ucsc.edu	37	chr15	101031104	101031104	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcgaactgtctctttaatgCcaaatgattttgctagaggt	10	16	8	7	1	1	2	0	1	1	1	3	3	1	2	1	1	3	1	1	1	4	6	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	101031104	C	G	101031104	3	3	220	1	0	0	0	0	1	0	0	0	8640	739	26	4	981	4	LASS3	15	101031104	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	23934178	101031104	1500288	36	11898											
NETO2	81831	hgsc.bcm.edu;ucsc.edu	37	chr16	47165915	47165915	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacggcaatcccttccactAccagtactgttattaacaac	12	10	4	15	1	0	0	0	0	0	0	2	0	2	0	4	1	4	3	4	1	6	5	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	47165915	A	G	47165915	3	3	220	1	0	0	0	0	1	0	0	0	10340	391	14	3	1553	3	NETO2	16	47165915	Missense_Mutation	SNP	A	TCGA-BP-4169-01A-02D-1366-10		47165915	43188838	37	11899											
CHD9	80205	hgsc.bcm.edu	37	chr16	53358033	53358033	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctaaaagtggaattgcaaaGgccacagcagcagcagctgc	14	5	11	11	0	0	0	0	0	0	0	0	1	0	1	2	2	6	5	2	2	4	2	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	53358033	G	A	53358033	2	1	220	1	0	0	0	0	0	0	0	1	3332	991	35	2		2	CHD9	16	53358033	Silent	SNP	G	TCGA-BP-4169-01A-02D-1366-10	6192118	53358033	36996720	38	11900											
NEURL4	84461	hgsc.bcm.edu;ucsc.edu	37	chr17	7224890	7224890	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccacttcacccccagcctctCtaggttccggccatagttca	7	10	6	18	1	3	0	2	0	1	0	5	0	4	0	6	2	1	2	6	2	2	5	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		G	7224890	C	G	7224890	3	3	220	1	0	0	0	0	1	0	0	0	10347	922	32	4	1648	4	NEURL4	17	7224890	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10		7224890	73970320	39	11901											
KSR1	8844	hgsc.bcm.edu;ucsc.edu	37	chr17	25919598	25919598	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggacatcaacaacccggtGgacagagcagccgaacccca	13	3	10	15	3	1	1	1	0	0	1	2	4	1	3	4	3	5	1	4	3	3	0	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	25919598	G	T	25919598	2	4	220	1	0	0	0	0	0	0	0	1	8581	1335	47	4		4	KSR1	17	25919598	Silent	SNP	G	TCGA-BP-4169-01A-02D-1366-10	18694708	25919598	55275612	40	11902											
NDUFV2	4729	hgsc.bcm.edu	37	chr18	9117867	9117867	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaatttgcataagacagTtatgcaaaatggagctggag	16	9	12	4	0	0	1	0	0	0	1	0	4	0	4	0	3	3	4	0	3	6	3	rs906807	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		C	9117867	T	C	9117867	3	2	220	1	0	0	0	0	1	0	0	0	10300	1725	60	3	92	3	NDUFV2	18	9117867	Missense_Mutation	SNP	T	TCGA-BP-4169-01A-02D-1366-10		9117867	68959381	41	11903											
MAPK4	5596	hgsc.bcm.edu	37	chr18	48190484	48190484	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcgctgtgaagaagattgcCctgagcgatgcccgcagcat	9	8	13	11	3	0	4	0	2	0	2	1	5	0	4	2	0	4	3	2	0	2	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	48190484	C	T	48190484	2	4	220	1	0	0	0	0	0	0	0	1	9280	610	22	2		2	MAPK4	18	48190484	Silent	SNP	C	TCGA-BP-4169-01A-02D-1366-10	39072617	48190484	29886764	42	11904											
MALT1	10892	hgsc.bcm.edu;ucsc.edu	37	chr18	56414818	56414818	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatggtccttaccagagttCtgcagccacctcaggaggag	10	9	11	11	0	2	1	1	0	1	1	3	3	3	3	4	3	3	2	4	3	2	3	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	56414818	C	T	56414818	3	4	220	1	0	0	0	0	1	0	0	0	9202	913	32	2	2285	2	MALT1	18	56414818	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	8224334	56414818	21662430	43	11905											
CDH22	64405	hgsc.bcm.edu	37	chr20	44869833	44869833	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgatcaggaagatggtccCagcaccctcgcctgagatgg	9	7	13	12	2	1	2	1	1	0	2	4	5	2	3	3	3	1	1	3	3	1	0	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	44869833	C	A	44869833	3	1	220	1	0	0	0	0	1	0	0	0	3107	594	21	4	2207	4	CDH22	20	44869833	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10		44869833	18155687	44	11906											
CSF2RB	1439	hgsc.bcm.edu	37	chr22	37334375	37334375	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagtaaaccttcttcccCgggacccggtcctgagatca	8	8	10	15	3	2	1	1	1	1	1	4	4	4	3	6	3	1	1	6	3	2	3	rs147019788		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		T	37334375	C	T	37334375	3	4	220	1	0	0	0	0	1	0	0	0	3935	652	23	1	2575	1	CSF2RB	22	37334375	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10		37334375	13970191	45	11907											
CARD10	29775	hgsc.bcm.edu	37	chr22	37891824	37891824	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagtgagggggtcaaccCgggtgcagaaccattcctgc	9	6	15	11	1	1	3	1	1	0	2	2	3	2	3	3	3	4	2	3	3	2	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	37891824	C	A	37891824	3	1	220	1	0	0	0	0	1	0	0	0	2644	652	23	4	880	4	CARD10	22	37891824	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10	557449	37891824	13412742	46	11908											
FMR1	2332	hgsc.bcm.edu;ucsc.edu	37	chrX	147030317	147030317	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtaaccagaagaaagagaagCcagacagcgtggatggtcag	16	4	14	7	1	1	4	1	0	0	4	1	6	1	5	2	2	3	1	2	2	4	1	novel		TCGA-BP-4169-01A-02D-1366-10	TCGA-BP-4169-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c5132145-355e-49d3-b6cd-2a8ba2daaa39	658defa0-ce93-475f-978e-9494b4b619d7		A	147030317	C	A	147030317	3	1	220	1	0	0	0	0	1	0	0	0	5960	739	26	4	1918	4	FMR1	23	147030317	Missense_Mutation	SNP	C	TCGA-BP-4169-01A-02D-1366-10		147030317	8240243	47	11909											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21808126	21808126	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaggtagtagagcctgaGgacttgcaggactcactgga	10	7	15	9	1	1	2	1	1	0	1	1	6	1	6	2	5	2	3	2	5	2	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	21808126	G	A	21808126	2	1	221	1	0	0	0	0	0	0	0	1	10197	991	35	2		2	NBPF3	1	21808126	Silent	SNP	G	TCGA-BP-4170-01A-02D-1366-10		21808126	227442495	1	11910											
COL16A1	1307	hgsc.bcm.edu	37	chr1	32146505	32146505	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacaggcccttggaactcaCcttctctcctcgtggtcctt	5	13	7	16	1	3	0	2	0	1	0	7	1	5	1	4	3	1	0	4	3	1	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	32146505	C	T	32146505	5	4	221	1	0	0	0	0	0	0	1	0	3673	521	18	2	2335	2	COL16A1	1	32146505	Splice_Site	SNP	C	TCGA-BP-4170-01A-02D-1366-10	10338379	32146505	217104116	2	11911											
KIRREL	55243	hgsc.bcm.edu;ucsc.edu	37	chr1	158054231	158054231	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtccccccagaggacaccagGattgacggaggccctgtgat	9	6	13	13	1	0	3	0	2	0	1	1	6	1	6	5	4	0	0	5	4	0	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	158054231	G	C	158054231	3	2	221	1	0	0	0	0	1	0	0	0	8324	1165	41	4	386	4	KIRREL	1	158054231	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10	125907726	158054231	91196390	3	11912											
CHIT1	1118	hgsc.bcm.edu;ucsc.edu	37	chr1	203188447	203188447	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtttggtggcccccttcCaggagcagacctgtgggagc	5	10	14	12	0	1	1	0	0	1	1	2	3	2	3	4	4	2	2	4	4	0	2	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	203188447	C	T	203188447	4	4	221	1	0	0	0	0	0	1	0	0	3346	595	21	2	486	2	CHIT1	1	203188447	Nonsense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	45134216	203188447	46062174	4	11913											
PXDN	7837	hgsc.bcm.edu;ucsc.edu	37	chr2	1667443	1667443	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgacagcctggcattCgtactggccctggtcgtgga	6	11	14	10	2	0	1	0	1	0	0	2	3	0	2	2	4	2	3	2	4	1	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	1667443	C	A	1667443	4	1	221	1	0	0	0	0	0	1	0	0	12849	893	31	4	2986	4	PXDN	2	1667443	Nonsense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10		1667443	241531930	5	11914											
SF3B1	23451	hgsc.bcm.edu	37	chr2	198266833	198266833	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcactgatggtccgaactTtctgctgctcatccacaaga	11	10	8	12	1	2	2	1	1	1	1	4	3	4	2	2	1	4	3	2	1	3	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	198266833	T	C	198266833	3	2	221	1	0	0	0	0	1	0	0	0	14151	1841	64	3	1859	3	SF3B1	2	198266833	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10	196599390	198266833	44932540	6	11915											
AOX1	316	hgsc.bcm.edu;ucsc.edu	37	chr2	201488671	201488671	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaagcgagtgaagattgtcTatcaagacttggagccgctg	11	10	12	8	2	2	3	1	1	1	2	2	5	2	4	1	1	2	1	1	1	4	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	201488671	T	A	201488671	3	1	221	1	0	0	0	0	1	0	0	0	729	1522	53	5	2163	5	AOX1	2	201488671	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10	3221838	201488671	41710702	7	11916											
TRIM42	287015	hgsc.bcm.edu;ucsc.edu	37	chr3	140407023	140407023	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcccaagaaggtacgctcctCaggggactccctgccctccc	7	6	10	18	1	1	1	1	0	0	1	4	2	4	2	5	3	2	2	5	3	3	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	140407023	C	T	140407023	3	4	221	1	0	0	0	0	1	0	0	0	16516	838	29	2	1509	2	TRIM42	3	140407023	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10		140407023	57615407	8	11917											
C4orf14	0	hgsc.bcm.edu;ucsc.edu	37	chr4	57834621	57834621	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttaagcacaaaagttcttgGaacaatggactgtgttggca	13	12	10	6	0	1	0	0	0	1	0	1	2	1	2	0	3	2	4	0	3	5	5	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	57834621	G	A	57834621	3	1	221	1	0	0	0	0	1	0	0	0	2251	1174	41	2	536	2	C4orf14	4	57834621	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10		57834621	133319655	9	11918											
SULT1B1	27284	hgsc.bcm.edu	37	chr4	70599939	70599939	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattaagtcaaaatggtaaTatgagactgaaacatccttg	16	12	7	6	0	2	2	2	2	0	1	3	3	3	2	1	1	1	1	1	1	6	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	70599939	T	A	70599939	3	1	221	1	0	0	0	0	1	0	0	0	15375	1406	49	5	487	5	SULT1B1	4	70599939	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10	12765318	70599939	120554337	10	11919											
ADAMTS16	170690	hgsc.bcm.edu;ucsc.edu	37	chr5	5187899	5187899	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacattgcaattgtaggtcTgattcttctagaagatgaac	13	13	8	7	0	3	4	0	2	3	2	3	4	3	4	0	1	3	2	0	1	6	6	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	5187899	T	A	5187899	3	1	221	1	0	0	0	0	1	0	0	0	261	1580	55	5	1047	5	ADAMTS16	5	5187899	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10		5187899	175727361	11	11920											
APC	324	hgsc.bcm.edu;ucsc.edu	37	chr5	112174812	112174812	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagaaacgtcatgtggAtcagcctattgattatagtt	13	13	10	5	1	2	3	2	2	0	1	2	5	2	4	1	1	2	1	1	1	5	5	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	112174812	A	G	112174812	3	3	221	1	0	0	0	0	1	0	0	0	763	333	12	3	3579	3	APC	5	112174812	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10	106986913	112174812	68740448	12	11921											
ZNF300	91975	hgsc.bcm.edu	37	chr5	150276155	150276155	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgattttccacctccaaAactctgatcaggtttttttc	10	16	5	10	0	2	3	1	2	1	1	5	3	4	3	3	1	1	1	3	1	2	5	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	150276155	A	G	150276155	3	3	221	1	0	0	0	0	1	0	0	0	17830	14	1	3	1172	3	ZNF300	5	150276155	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10	38101343	150276155	30639105	13	11922											
KIAA0319	9856	hgsc.bcm.edu;ucsc.edu	37	chr6	24547461	24547461	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accattcatggaaacctttgGattccctctctccatctttt	8	16	4	13	0	3	0	1	0	2	0	6	2	5	2	4	2	1	0	4	2	1	5	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	24547461	G	A	24547461	3	1	221	1	0	0	0	0	1	0	0	0	8168	1174	41	2	71	2	KIAA0319	6	24547461	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10		24547461	146567606	14	11923											
NOTCH4	4855	hgsc.bcm.edu	37	chr6	32188642	32188642	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggattcacctcacagtcTgggcctatgaaacctgacag	10	10	9	12	0	4	2	2	2	2	0	4	3	4	3	3	2	1	0	3	2	2	2	rs520688	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	32188642	T	C	32188642	2	2	221	1	0	0	0	0	0	0	0	1	10551	1567	55	3		3	NOTCH4	6	32188642	Silent	SNP	T	TCGA-BP-4170-01A-02D-1366-10	7641181	32188642	138926425	15	11924											
REV3L	5980	hgsc.bcm.edu;ucsc.edu	37	chr6	111711296	111711296	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtgtatgaaccttcaatGtccagacgatttaagatatc	13	14	7	7	1	1	3	1	1	0	2	3	4	2	3	2	0	1	1	2	0	5	6	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	111711296	G	A	111711296	2	1	221	1	0	0	0	0	0	0	0	1	13242	1368	48	2		2	REV3L	6	111711296	Silent	SNP	G	TCGA-BP-4170-01A-02D-1366-10	79522654	111711296	59403771	16	11925											
ARHGAP18	93663	hgsc.bcm.edu	37	chr6	129963095	129963095	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgggaaattgatcgatcaAatggaggcttctccataact	12	11	9	9	1	2	1	1	1	1	0	4	4	2	3	2	3	1	1	2	3	3	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	129963095	A	G	129963095	3	3	221	1	0	0	0	0	1	0	0	0	868	14	1	3	1865	3	ARHGAP18	6	129963095	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10	18251799	129963095	41151972	17	11926											
GET4	51608	hgsc.bcm.edu	37	chr7	925701	925701	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctctgtggcaggtacatgtCccagagcaagcacacggagg	10	7	13	11	1	1	1	0	0	1	1	3	2	2	2	1	4	3	4	1	4	2	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	925701	C	T	925701	3	4	221	1	0	0	0	0	1	0	0	0	6336	855	30	2	170	2	GET4	7	925701	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10		925701	158212962	18	11927											
AHR	196	hgsc.bcm.edu;ucsc.edu	37	chr7	17382681	17382681	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatttgacatccagtggatTcctgtaattccaagcccaat	11	13	7	10	0	0	2	0	2	0	0	3	3	3	3	4	1	1	1	4	1	3	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	17382681	T	A	17382681	3	1	221	1	0	0	0	0	1	0	0	0	416	1783	62	5	2582	5	AHR	7	17382681	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10	16456980	17382681	141755982	19	11928											
HERPUD2	64224	hgsc.bcm.edu	37	chr7	35712843	35712843	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctttcagctgcagatgatCgggaagcagtctgcccgaat	9	10	12	10	2	3	2	1	1	2	1	4	4	3	3	1	1	4	3	1	1	2	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	35712843	C	T	35712843	3	4	221	1	0	0	0	0	1	0	0	0	7064	884	31	1	1055	1	HERPUD2	7	35712843	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	18330162	35712843	123425820	20	11929											
MYO1G	64005	hgsc.bcm.edu;ucsc.edu	37	chr7	45011770	45011770	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtgaaattgtatacagcagGgtttctctccaagtgcagtt	10	14	10	7	0	1	1	0	1	1	0	3	1	2	1	1	1	3	5	1	1	4	5	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	45011770	G	A	45011770	3	1	221	1	0	0	0	0	1	0	0	0	10074	1232	43	2	2451	2	MYO1G	7	45011770	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10	9298927	45011770	114126893	21	11930											
CFTR	1080	hgsc.bcm.edu	37	chr7	117170982	117170982	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcagtacagcctctcttActgggaagaatcatagcttc	13	10	8	10	0	2	1	1	0	1	1	4	2	2	2	1	1	5	3	1	1	6	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	117170982	A	T	117170982	3	4	221	1	0	0	0	0	1	0	0	0	3294	388	14	5	317	5	CFTR	7	117170982	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10	72159212	117170982	41967681	22	11931											
DUSP4	1846	hgsc.bcm.edu	37	chr8	29197736	29197736	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaacagaattctgggtacTcggaggaaaacctctcatag	14	9	10	8	1	2	2	1	0	2	2	4	4	2	4	1	3	3	1	1	3	7	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	29197736	T	C	29197736	3	2	221	1	0	0	0	0	1	0	0	0	4827	1551	54	3	738	3	DUSP4	8	29197736	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10		29197736	117166286	23	11932											
RUNX1T1	862	hgsc.bcm.edu;ucsc.edu	37	chr8	93027007	93027007	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattgggtggtgagggggCgccattcaaggctgtaggag	7	8	19	7	1	1	1	1	1	0	0	1	2	1	2	2	6	0	2	2	6	2	3	rs150073605	byfrequency	TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	93027007	C	T	93027007	3	4	221	1	0	0	0	0	1	0	0	0	13749	768	27	1	1582	1	RUNX1T1	8	93027007	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	63829271	93027007	53337015	24	11933											
CSMD3	114788	hgsc.bcm.edu;ucsc.edu	37	chr8	113326746	113326746	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taacccttttccactgaaatGctccatgcacacatttgaag	12	12	5	12	0	0	2	0	2	0	0	2	2	2	2	3	0	3	2	3	0	3	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	113326746	G	T	113326746	3	4	221	1	0	0	0	0	1	0	0	0	3946	1310	46	4	3758	4	CSMD3	8	113326746	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10	20299739	113326746	33037276	25	11934											
MAPK15	225689	hgsc.bcm.edu	37	chr8	144801567	144801567	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatcctgggggagatgctGcgggggagacccctgttccc	5	9	16	11	1	0	2	0	0	0	2	2	4	2	2	4	4	2	3	4	4	1	2	rs140965473	byfrequency	TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	144801567	G	C	144801567	2	2	221	1	0	0	0	0	0	0	0	1	9277	1306	46	4		4	MAPK15	8	144801567	Silent	SNP	G	TCGA-BP-4170-01A-02D-1366-10	31474821	144801567	1562455	26	11935											
POMT1	10585	hgsc.bcm.edu	37	chr9	134385419	134385419	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgctgcatgaggccggcCtgtatggggcagatgcagat	8	8	16	9	1	0	3	0	1	0	2	0	3	0	3	2	4	3	5	2	4	1	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	134385419	C	G	134385419	2	3	221	1	0	0	0	0	0	0	0	1	12245	668	24	4		4	POMT1	9	134385419	Silent	SNP	C	TCGA-BP-4170-01A-02D-1366-10		134385419	6828012	27	11936											
WDR85	92715	hgsc.bcm.edu;ucsc.edu	37	chr9	140449899	140449899	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcatggccctccccatcgTtatcctctctgcattcatga	6	13	7	15	1	2	1	1	1	1	0	6	1	4	1	4	2	1	3	4	2	1	2	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	140449899	T	G	140449899	3	3	221	1	0	0	0	0	1	0	0	0	17332	1725	60	5	211	5	WDR85	9	140449899	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10	6064480	140449899	763532	28	11937											
KIF20B	9585	hgsc.bcm.edu	37	chr10	91532538	91532538	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaaaacgagccaaacggAaattatacacaagtgaaatt	21	6	6	8	2	0	1	0	1	0	0	0	3	0	2	2	1	5	0	2	1	9	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	91532538	A	G	91532538	3	3	221	1	0	0	0	0	1	0	0	0	8287	247	9	3	5337	3	KIF20B	10	91532538	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10		91532538	44002209	29	11938											
TUBGCP2	10844	hgsc.bcm.edu;ucsc.edu	37	chr10	135102393	135102393	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcaggaagtccagcagcaCcttgctggcgtagttaaacg	11	8	11	11	2	1	0	1	0	0	0	2	1	2	1	2	2	4	5	2	2	4	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	135102393	C	T	135102393	3	4	221	1	0	0	0	0	1	0	0	0	16765	507	18	2	1252	2	TUBGCP2	10	135102393	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	43569855	135102393	432354	30	11939											
AMPD3	272	hgsc.bcm.edu;ucsc.edu	37	chr11	10516458	10516458	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctcagggccggcagacaTtccaccgctttgacaagttc	8	8	9	16	2	1	2	1	1	0	1	3	2	2	2	5	2	0	3	5	2	1	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	10516458	T	A	10516458	3	1	221	1	0	0	0	0	1	0	0	0	587	1493	52	5	1224	5	AMPD3	11	10516458	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10		10516458	124490058	31	11940											
BIRC2	329	hgsc.bcm.edu;ucsc.edu	37	chr11	102221130	102221130	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctacagttatgcaatgaGtactgaagaagccagatttc	13	10	8	10	0	0	4	0	2	0	2	1	4	0	4	3	0	4	3	3	0	6	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	102221130	G	A	102221130	3	1	221	1	0	0	0	0	1	0	0	0	1435	1029	36	2	547	2	BIRC2	11	102221130	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10	91704672	102221130	32785386	32	11941											
UBASH3B	84959	hgsc.bcm.edu;ucsc.edu	37	chr11	122665475	122665475	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggatggagtattggagaGgcggccttatgaggaccagg	9	8	19	5	1	0	2	0	1	0	1	0	6	0	5	2	8	0	1	2	8	2	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	122665475	G	A	122665475	3	1	221	1	0	0	0	0	1	0	0	0	16839	1000	35	2	1072	2	UBASH3B	11	122665475	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10	20444345	122665475	12341041	33	11942											
ARID2	196528	hgsc.bcm.edu;ucsc.edu	37	chr12	46230714	46230714	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctattactttctgcacaTagtcattttatttctttaag	9	21	3	8	0	3	0	1	0	2	0	4	0	4	0	1	0	2	1	1	0	5	10	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	46230714	T	C	46230714	2	2	221	1	0	0	0	0	0	0	0	1	915	1403	49	3		3	ARID2	12	46230714	Silent	SNP	T	TCGA-BP-4170-01A-02D-1366-10		46230714	87621181	34	11943											
ELF1	1997	hgsc.bcm.edu	37	chr13	41517220	41517220	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtccacttgatgtatttaGgacaagtagccttgtcctgg	8	13	12	8	0	0	1	0	1	0	0	2	2	2	2	3	3	1	2	3	3	4	6	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	41517220	G	T	41517220	3	4	221	1	0	0	0	0	1	0	0	0	5053	1000	35	4	1197	4	ELF1	13	41517220	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10		41517220	73652658	35	11944											
DACH1	1602	hgsc.bcm.edu;ucsc.edu	37	chr13	72049972	72049972	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccttctttagcctctttTgaactatggctaaaaaagag	11	15	6	9	0	3	2	0	1	3	1	4	2	3	2	2	1	2	1	2	1	6	7	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	72049972	T	C	72049972	3	2	221	1	0	0	0	0	1	0	0	0	4220	1812	63	3	252	3	DACH1	13	72049972	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10	30532752	72049972	43119906	36	11945											
TEP1	7011	hgsc.bcm.edu	37	chr14	20864842	20864842	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgattccaacccgcagcaGgttgcacaggttccgaagca	11	7	10	13	2	0	1	0	1	0	0	2	2	2	1	3	2	4	6	3	2	2	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	20864842	G	T	20864842	3	4	221	1	0	0	0	0	1	0	0	0	15758	991	35	4	6470	4	TEP1	14	20864842	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10		20864842	86484698	37	11946											
CGRRF1	10668	hgsc.bcm.edu;ucsc.edu	37	chr14	54996813	54996813	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaagatagcctccttacAtgctactgggggtgcagtgt	8	12	12	9	0	0	2	0	1	0	1	1	2	1	2	2	2	5	2	2	2	4	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	54996813	A	G	54996813	2	3	221	1	0	0	0	0	0	0	0	1	3306	204	8	3		3	CGRRF1	14	54996813	Silent	SNP	A	TCGA-BP-4170-01A-02D-1366-10	34131971	54996813	52352727	38	11947											
TMEM229B	161145	hgsc.bcm.edu	37	chr14	67940219	67940219	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccttgtcgaagcggaggCggagggtgttgcggatgatg	6	9	19	7	5	0	1	0	1	0	0	2	5	1	4	1	5	2	1	1	5	1	2	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	67940219	C	T	67940219	3	4	221	1	0	0	0	0	1	0	0	0	16147	768	27	1	85	1	TMEM229B	14	67940219	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	12943406	67940219	39409321	39	11948											
MTMR15	0	hgsc.bcm.edu	37	chr15	31221493	31221493	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagctgattcatgatgccCccgaggagagcctgcgggcc	7	7	14	13	2	1	3	1	2	0	1	1	5	1	3	4	2	5	2	4	2	0	1	rs80120912	bycluster;byfrequency;by1000genomes	TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	31221493	C	T	31221493	3	4	221	1	0	0	0	0	1	0	0	0	9943	623	22	2	2747	2	MTMR15	15	31221493	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10		31221493	71309899	40	11949											
PLA2G4E	123745	hgsc.bcm.edu	37	chr15	42292364	42292364	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggactggaagtacttggggtAgtggaagcaggcagcggttt	9	9	18	5	1	0	0	0	0	0	0	0	3	0	3	0	7	3	5	0	7	4	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	42292364	A	G	42292364	3	3	221	1	0	0	0	0	1	0	0	0	12005	420	15	3	1868	3	PLA2G4E	15	42292364	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10	11070871	42292364	60239028	41	11950											
GINS3	64785	hgsc.bcm.edu	37	chr16	58437163	58437163	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacaaaatggggccccatttCtacgggtttggctcccagct	8	10	10	13	1	1	0	0	0	1	0	2	0	2	0	3	4	2	3	3	4	3	3	rs186469314		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	58437163	C	T	58437163	2	4	221	1	0	0	0	0	0	0	0	1	6389	912	32	2		2	GINS3	16	58437163	Silent	SNP	C	TCGA-BP-4170-01A-02D-1366-10		58437163	31917590	42	11951											
GPR172B	0	hgsc.bcm.edu	37	chr17	4937083	4937083	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcctggggatcccagtTgaagttcaggccctgagccc	6	9	12	14	0	1	2	1	2	0	0	3	3	3	3	4	3	2	3	4	3	1	2	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	4937083	T	G	4937083	3	3	221	1	0	0	0	0	1	0	0	0	6670	1812	63	5	657	5	GPR172B	17	4937083	Missense_Mutation	SNP	T	TCGA-BP-4170-01A-02D-1366-10		4937083	76258127	43	11952											
PIGL	9487	hgsc.bcm.edu;ucsc.edu	37	chr17	16221127	16221127	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagtctgtgaatgtgctgCgcaagtacatctcccttctg	7	14	9	11	1	4	1	1	1	3	0	5	1	4	1	1	0	3	3	1	0	3	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		G	16221127	C	G	16221127	3	3	221	1	0	0	0	0	1	0	0	0	11891	768	27	4	587	4	PIGL	17	16221127	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	11284044	16221127	64974083	44	11953											
ZPBP2	124626	hgsc.bcm.edu;ucsc.edu	37	chr17	38032946	38032946	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctctgcagtggtttgtagtCctgcgacttttagtcctgat	5	16	10	10	1	1	1	0	1	1	0	3	2	3	1	3	1	2	3	3	1	2	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	38032946	C	T	38032946	3	4	221	1	0	0	0	0	1	0	0	0	18219	855	30	2	931	2	ZPBP2	17	38032946	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10	21811819	38032946	43162264	45	11954											
KIF18B	146909	hgsc.bcm.edu	37	chr17	43011388	43011388	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcagcgatcatcactGtgcggcagttgcccccgagg	7	8	14	12	3	2	1	2	1	0	0	2	3	2	1	2	3	3	3	2	3	0	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	43011388	G	A	43011388	3	1	221	1	0	0	0	0	1	0	0	0	8281	1377	48	2	1641	2	KIF18B	17	43011388	Missense_Mutation	SNP	G	TCGA-BP-4170-01A-02D-1366-10	4978442	43011388	38183822	46	11955											
MPO	4353	hgsc.bcm.edu;ucsc.edu	37	chr17	56350802	56350802	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgaccctccaggaggcaaAaaagaccctgctgaggggga	13	3	13	12	1	0	2	0	1	0	1	1	5	1	4	3	4	1	2	3	4	3	0	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	56350802	A	C	56350802	3	2	221	1	0	0	0	0	1	0	0	0	9732	14	1	5	659	5	MPO	17	56350802	Missense_Mutation	SNP	A	TCGA-BP-4170-01A-02D-1366-10	13339414	56350802	24844408	47	11956											
SIGLEC12	89858	hgsc.bcm.edu;ucsc.edu	37	chr19	52000158	52000158	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggctgagcccctgacagcGtttgcgtcctccatgcctgt	5	10	12	14	2	0	2	0	2	0	0	2	3	2	2	5	1	4	2	5	1	0	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	52000158	G	A	52000158	2	1	221	1	0	0	0	0	0	0	0	1	14310	1136	40	1		1	SIGLEC12	19	52000158	Silent	SNP	G	TCGA-BP-4170-01A-02D-1366-10		52000158	7128825	48	11957											
ACOT8	10005	hgsc.bcm.edu	37	chr20	44483907	44483907	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccaccaaacagcctcttGgccggtacccagtaatgcct	10	8	8	15	1	1	1	0	1	1	0	1	1	1	1	6	2	4	2	6	2	3	3	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		T	44483907	G	T	44483907	2	4	221	1	0	0	0	0	0	0	0	1	156	1335	47	4		4	ACOT8	20	44483907	Silent	SNP	G	TCGA-BP-4170-01A-02D-1366-10		44483907	18541613	49	11958											
USP18	11274	hgsc.bcm.edu	37	chr22	18640565	18640565	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagcccagagagcgtccCagggcctgggactaccctca	9	4	13	15	1	1	1	1	0	0	1	2	4	2	2	4	2	4	1	4	2	1	1	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	18640565	C	A	18640565	2	1	221	1	0	0	0	0	0	0	0	1	17048	581	21	4		4	USP18	22	18640565	Silent	SNP	C	TCGA-BP-4170-01A-02D-1366-10		18640565	32664001	50	11959											
CLDN2	9075	hgsc.bcm.edu	37	chrX	106171625	106171625	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctggatggaatgtgccaCacacagcacaggcatcaccc	11	6	9	15	0	2	0	1	0	1	0	2	2	2	2	3	3	2	2	3	3	1	0	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		A	106171625	C	A	106171625	3	1	221	1	0	0	0	0	1	0	0	0	3481	478	17	4	169	4	CLDN2	23	106171625	Missense_Mutation	SNP	C	TCGA-BP-4170-01A-02D-1366-10		106171625	49098935	51	11960											
HTATSF1	27336	hgsc.bcm.edu;ucsc.edu	37	chrX	135581831	135581831	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcatctagttctaccgcAaatgttgaagatgtccatgc	10	11	10	10	2	2	2	0	1	2	1	3	2	3	2	2	1	2	4	2	1	4	4	novel		TCGA-BP-4170-01A-02D-1366-10	TCGA-BP-4170-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	16fcd199-55bc-4415-95cf-2a3d0b2d4b1b	021c1ab3-d01f-45ce-9fe5-ed2731e73f12		C	135581831	A	C	135581831	2	2	221	1	0	0	0	0	0	0	0	1	7433	117	5	5		5	HTATSF1	23	135581831	Silent	SNP	A	TCGA-BP-4170-01A-02D-1366-10	29410206	135581831	19688729	52	11961											
ASPM	259266	hgsc.bcm.edu	37	chr1	197055989	197055989	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaaaggaatgcttatagaAgaattcttcttttgcttgta	14	16	7	4	0	2	2	0	0	2	2	2	3	2	3	0	1	2	3	0	1	8	9	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		G	197055989	A	G	197055989	2	3	222	1	0	0	0	0	0	0	0	1	1056	59	3	3		3	ASPM	1	197055989	Silent	SNP	A	TCGA-BP-4173-01A-02D-1366-10		197055989	52194632	1	11962											
KCNH1	3756	hgsc.bcm.edu	37	chr1	210857394	210857394	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgccggacagggtggtcCgggggcaagatcaggggggc	7	3	22	9	3	1	1	1	0	0	1	2	2	2	2	2	9	0	1	2	9	1	0	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		T	210857394	C	T	210857394	2	4	222	1	0	0	0	0	0	0	0	1	8031	639	23	1		1	KCNH1	1	210857394	Silent	SNP	C	TCGA-BP-4173-01A-02D-1366-10	13801405	210857394	38393227	2	11963											
AIDA	64853	hgsc.bcm.edu	37	chr1	222843559	222843559	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtaaacctttttttaggcTtgtagtgtttgaattcaaag	10	18	9	4	0	1	1	1	1	0	0	1	1	1	1	1	2	1	4	1	2	6	9	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		A	222843559	T	A	222843559	3	1	222	1	0	0	0	0	1	0	0	0	423	1609	56	5	188	5	AIDA	1	222843559	Missense_Mutation	SNP	T	TCGA-BP-4173-01A-02D-1366-10	11986165	222843559	26407062	3	11964											
UPP2	151531	hgsc.bcm.edu	37	chr2	158958551	158958551	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcttgacatcaatttaaGgtgacttttcacatagtaga	12	16	6	7	0	3	3	2	2	1	1	3	3	3	3	0	1	0	1	0	1	4	8	rs74924675		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		A	158958551	G	A	158958551	5	1	222	1	0	0	0	0	0	0	1	0	17012	1014	35	2	157	2	UPP2	2	158958551	Splice_Site	SNP	G	TCGA-BP-4173-01A-02D-1366-10		158958551	84240822	4	11965											
NCR2	9436	hgsc.bcm.edu	37	chr6	41304036	41304036	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatctgggacgaccctgaTgctggcttcttcactgtcac	8	11	9	13	1	4	1	2	1	2	0	4	3	4	2	1	2	1	2	1	2	1	2	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		C	41304036	T	C	41304036	2	2	222	1	0	0	0	0	0	0	0	1	10238	1461	51	3		3	NCR2	6	41304036	Silent	SNP	T	TCGA-BP-4173-01A-02D-1366-10		41304036	129811031	5	11966											
GRM8	2918	hgsc.bcm.edu	37	chr7	126173363	126173363	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccagctgagatgctggActaatgaacttgggcgctgt	10	10	12	9	1	1	2	1	2	0	1	1	4	1	3	1	2	3	3	1	2	2	2	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		G	126173363	A	G	126173363	2	3	222	1	0	0	0	0	0	0	0	1	6803	272	10	3		3	GRM8	7	126173363	Silent	SNP	A	TCGA-BP-4173-01A-02D-1366-10		126173363	32965300	6	11967											
KRT4	3851	hgsc.bcm.edu	37	chr12	53207990	53207990	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaatctgaaacatctctGggcttggcccttggcacaag	12	9	10	10	0	2	1	0	1	2	0	3	2	2	1	1	3	1	2	1	3	4	2	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		A	53207990	G	A	53207990	2	1	222	1	0	0	0	0	0	0	0	1	8477	1335	47	2		2	KRT4	12	53207990	Silent	SNP	G	TCGA-BP-4173-01A-02D-1366-10		53207990	80643905	7	11968											
OR6C1	390321	hgsc.bcm.edu	37	chr12	55714409	55714410	+	Frame_Shift_Ins	INS	-	-	G																															aaccatacagaaataacagaINSgtttattcttctgggattaa																								novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		G	55714410	-	G	55714409	7	5	222	1	0	1	1	0	0	0	0	0	11190	304	11	0	28	0	OR6C1	12	55714409	Frame_Shift_Ins	INS	-	TCGA-BP-4173-01A-02D-1366-10	2506419	55714409	78137486	8	11969											
SLC12A1	6557	hgsc.bcm.edu;ucsc.edu	37	chr15	48521422	48521422	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatttccagaagtttagggcCcgagttcggtgggtcaatag	9	12	13	7	2	1	1	1	0	0	1	3	2	2	1	2	3	0	2	2	3	5	6	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		T	48521422	C	T	48521422	3	4	222	1	0	0	0	0	1	0	0	0	14384	623	22	2	879	2	SLC12A1	15	48521422	Missense_Mutation	SNP	C	TCGA-BP-4173-01A-02D-1366-10		48521422	54009970	9	11970											
NLRC3	197358	hgsc.bcm.edu	37	chr16	3614350	3614350	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgacgtgcgggaagacCgagcagatgagtcggtcggc	8	5	16	12	6	0	3	0	1	0	2	3	6	1	4	3	3	2	1	3	3	1	0	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		T	3614350	C	T	3614350	2	4	222	1	0	0	0	0	0	0	0	1	10468	639	23	1		1	NLRC3	16	3614350	Silent	SNP	C	TCGA-BP-4173-01A-02D-1366-10		3614350	86740403	10	11971											
RABEP2	79874	hgsc.bcm.edu	37	chr16	28922429	28922429	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttggcacagtcctcattgctCcgtctcaggccctcttggag	5	12	10	14	1	3	0	2	0	2	0	6	1	5	1	3	3	1	2	3	3	0	3	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		T	28922429	C	T	28922429	2	4	222	1	0	0	0	0	0	0	0	1	12964	842	30	2		2	RABEP2	16	28922429	Silent	SNP	C	TCGA-BP-4173-01A-02D-1366-10	25308079	28922429	61432324	11	11972											
TEX2	55852	hgsc.bcm.edu	37	chr17	62291518	62291518	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctctgcacgtgcactttaggGgctgatggttttggcatgtc	5	14	13	9	1	1	1	0	1	1	0	2	1	1	1	0	4	2	5	0	4	1	4	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		A	62291518	G	A	62291518	2	1	222	1	0	0	0	0	0	0	0	1	15780	1219	43	2		2	TEX2	17	62291518	Silent	SNP	G	TCGA-BP-4173-01A-02D-1366-10		62291518	18903692	12	11973											
STX10	8677	hgsc.bcm.edu;ucsc.edu	37	chr19	13260576	13260576	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aggtcctcgaggtcccactcGatgctgcgcaggccattccg	6	8	12	15	4	0	0	0	0	0	0	5	2	3	0	4	3	2	2	4	3	0	1	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		C	13260576	G	C	13260576	3	2	222	1	0	0	0	0	1	0	0	0	15337	1048	37	4	605	4	STX10	19	13260576	Missense_Mutation	SNP	G	TCGA-BP-4173-01A-02D-1366-10		13260576	45868407	13	11974											
CEBPA	1050	hgsc.bcm.edu	37	chr19	33792387	33792387	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcagctccagcaccttctGctgcgtctccacgttgcgct	4	11	10	16	3	3	0	1	0	2	0	5	0	4	0	3	1	5	5	3	1	0	2	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		A	33792387	G	A	33792387	4	1	222	1	0	0	0	0	0	1	0	0	3199	1328	46	2	146	2	CEBPA	19	33792387	Nonsense_Mutation	SNP	G	TCGA-BP-4173-01A-02D-1366-10	20531811	33792387	25336596	14	11975											
CAPN12	147968	hgsc.bcm.edu;ucsc.edu	37	chr19	39225512	39225512	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcattgagttcttcctccTagtccaggaaagagggcttg	9	11	12	9	0	1	2	0	1	1	1	4	3	4	3	3	3	0	3	3	3	2	5	novel		TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		A	39225512	T	A	39225512	5	1	222	1	0	0	0	0	0	0	1	0	2625	1536	53	5	502	5	CAPN12	19	39225512	Splice_Site	SNP	T	TCGA-BP-4173-01A-02D-1366-10	5433125	39225512	19903471	15	11976											
ASXL1	171023	hgsc.bcm.edu	37	chr20	31024481	31024481	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccccaggcctgcggacccGatgcctcttcctgctgagat	5	8	11	17	3	1	1	0	1	1	1	2	4	2	2	6	2	3	1	6	2	0	1	rs147326327	alternate_allele	TCGA-BP-4173-01A-02D-1366-10	TCGA-BP-4173-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	778685b3-ff34-4f6f-adcf-52c9890ce179	3dda6e59-7c67-4113-81a7-f7cbc31cffa3		T	31024481	G	T	31024481	2	4	222	1	0	0	0	0	0	0	0	1	1066	1045	37	4		4	ASXL1	20	31024481	Silent	SNP	G	TCGA-BP-4173-01A-02D-1366-10		31024481	32001039	16	11977											
HMCN1	83872	ucsc.edu	37	chr1	185958692	185958692	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagtctgtatgtggtatcaCctggaggagaggagagtggg	9	10	18	4	0	2	2	1	0	1	2	2	5	2	3	1	5	0	3	1	5	3	3	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	185958692	C	A	185958692	3	1	223	1	0	0	0	0	1	0	0	0	7220	507	18	4	3203	4	HMCN1	1	185958692	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10		185958692	63291929	1	11978											
C1orf107	0	hgsc.bcm.edu	37	chr1	210010524	210010524	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggagtgggtgatgatgatGacttcagagaccaagggtta	11	11	15	4	0	1	5	1	4	0	1	1	7	1	6	1	3	0	1	1	3	2	3	rs41274840	bycluster;byfrequency;by1000genomes	TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	210010524	G	A	210010524	3	1	223	1	0	0	0	0	1	0	0	0	1981	1290	45	2	1052	2	C1orf107	1	210010524	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10	24051832	210010524	39240097	2	11979											
CENPF	1063	hgsc.bcm.edu	37	chr1	214818442	214818442	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaaactcagatttaagTgaaaaattggaatatttttc	19	13	6	3	0	1	3	1	1	0	2	2	4	1	4	0	1	1	0	0	1	8	6	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	214818442	T	G	214818442	3	3	223	1	0	0	0	0	1	0	0	0	3231	1693	59	5	5575	5	CENPF	1	214818442	Missense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10	4807918	214818442	34432179	3	11980											
TPO	7173	hgsc.bcm.edu	37	chr2	1500518	1500518	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acccaggaaggatgggatttCcagcctcccctctgcaaagg	10	7	11	13	0	1	0	0	0	1	0	3	3	3	3	5	4	2	1	5	4	2	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	1500518	C	T	1500518	2	4	223	1	0	0	0	0	0	0	0	1	16409	854	30	2		2	TPO	2	1500518	Silent	SNP	C	TCGA-BP-4174-01A-02D-1366-10		1500518	241698855	4	11981											
APOB	338	hgsc.bcm.edu;ucsc.edu	37	chr2	21227505	21227505	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcaaatgttcctttagtcTtagaggctaacgtaccatct	10	14	8	9	1	2	1	0	0	2	1	3	1	3	1	2	1	3	4	2	1	5	6	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	21227505	T	C	21227505	3	2	223	1	0	0	0	0	1	0	0	0	785	1609	56	3	1872	3	APOB	2	21227505	Missense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10	19726987	21227505	221971868	5	11982											
SEMA4C	54910	hgsc.bcm.edu	37	chr2	97526749	97526749	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcagctccagggggtacaCcaaggtcctctcagtagcct	8	7	13	13	0	1	0	1	0	1	0	4	0	3	0	4	4	3	4	4	4	3	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	97526749	C	A	97526749	3	1	223	1	0	0	0	0	1	0	0	0	14035	507	18	4	389	4	SEMA4C	2	97526749	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10	76299244	97526749	145672624	6	11983											
DPP10	57628	hgsc.bcm.edu;ucsc.edu	37	chr2	116510852	116510852	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctcacagtctgtgagacCactacaggtgcttgtagtaa	11	11	9	10	0	2	1	1	1	1	1	3	2	3	1	2	1	2	3	2	1	3	4	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	116510852	C	G	116510852	2	3	223	1	0	0	0	0	0	0	0	1	4727	581	21	4		4	DPP10	2	116510852	Silent	SNP	C	TCGA-BP-4174-01A-02D-1366-10	18984103	116510852	126688521	7	11984											
NEB	4703	hgsc.bcm.edu;ucsc.edu	37	chr2	152552137	152552137	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgctggataaaagcaggAgtatcaggggggatatggca	12	9	16	4	0	1	0	1	0	0	0	1	3	1	3	0	6	2	4	0	6	4	4	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	152552137	A	T	152552137	2	4	223	1	0	0	0	0	0	0	0	1	10302	291	11	5		5	NEB	2	152552137	Silent	SNP	A	TCGA-BP-4174-01A-02D-1366-10	36041285	152552137	90647236	8	11985											
CCDC108	255101	hgsc.bcm.edu;ucsc.edu	37	chr2	219875305	219875305	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctagagtgtatggaactgTtgtcccacgaggagatgttg	9	11	14	7	1	0	2	0	0	0	2	1	5	1	3	2	2	1	3	2	2	3	4	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	219875305	T	C	219875305	3	2	223	1	0	0	0	0	1	0	0	0	2743	1725	60	3	1546	3	CCDC108	2	219875305	Missense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10	67323168	219875305	23324068	9	11986											
OBSL1	23363	hgsc.bcm.edu	37	chr2	220431631	220431631	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctgtcctggtgcttgacGgcatgcaggatgagtctgtg	5	11	15	10	2	1	2	0	2	1	0	2	3	2	3	2	3	2	4	2	3	0	1	rs1043537	bycluster;byfrequency;by1000genomes	TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	220431631	G	T	220431631	2	4	223	1	0	0	0	0	0	0	0	1	10813	1103	39	4		4	OBSL1	2	220431631	Silent	SNP	G	TCGA-BP-4174-01A-02D-1366-10	556326	220431631	22767742	10	11987											
TLR9	54106	hgsc.bcm.edu;ucsc.edu	37	chr3	52256548	52256548	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagcgacgtactgcagAgctgctgggacacttggctg	7	7	14	13	3	0	1	0	0	0	1	0	3	0	2	1	2	5	6	1	2	1	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	52256548	A	T	52256548	3	4	223	1	0	0	0	0	1	0	0	0	15957	304	11	5	1318	5	TLR9	3	52256548	Missense_Mutation	SNP	A	TCGA-BP-4174-01A-02D-1366-10		52256548	145765882	11	11988											
GATA2	2624	hgsc.bcm.edu	37	chr3	128204641	128204641	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtccccccaggaagcctccgGggtggaagagtccgctgctg	6	6	15	14	2	0	1	0	0	0	1	3	3	3	3	6	4	2	2	6	4	2	0	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	128204641	G	A	128204641	3	1	223	1	0	0	0	0	1	0	0	0	6254	1232	43	2	658	2	GATA2	3	128204641	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10	75948093	128204641	69817789	12	11989											
DBR1	51163	hgsc.bcm.edu	37	chr3	137893493	137893493	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcacggccatgcagcgtaGatccgcctcgttgcgcaccg	6	6	13	16	7	0	1	0	0	0	1	2	1	1	1	4	2	3	5	4	2	1	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	137893493	G	T	137893493	3	4	223	1	0	0	0	0	1	0	0	0	4257	933	33	4	1521	4	DBR1	3	137893493	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10	9688852	137893493	60128937	13	11990											
ELOVL7	79993	hgsc.bcm.edu;ucsc.edu	37	chr5	60050500	60050500	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcacagttttgggcaacCtctgacctttggtgtaagca	8	15	9	9	0	2	1	1	1	1	0	2	1	2	1	2	2	2	4	2	2	2	6	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	60050500	C	T	60050500	3	4	223	1	0	0	0	0	1	0	0	0	5079	681	24	2	52	2	ELOVL7	5	60050500	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10		60050500	120864760	14	11991											
SYNE1	23345	hgsc.bcm.edu;ucsc.edu	37	chr6	152716701	152716701	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactttatgaacttcattTttcttctcaggaatgtgctg	9	18	6	8	0	4	1	3	1	2	0	5	2	4	2	0	1	3	1	0	1	4	6	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	152716701	T	G	152716701	3	3	223	1	0	0	0	0	1	0	0	0	15444	1838	64	5	19188	5	SYNE1	6	152716701	Missense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10		152716701	18398366	15	11992											
COL1A2	1278	hgsc.bcm.edu;ucsc.edu	37	chr7	94040381	94040381	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatagggccctcctggtaGtcgtggtgcaagtggccctg	6	10	15	10	1	0	1	0	1	0	0	2	1	1	1	3	4	1	2	3	4	4	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	94040381	G	C	94040381	3	2	223	1	0	0	0	0	1	0	0	0	3678	1029	36	4	1355	4	COL1A2	7	94040381	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10		94040381	65098282	16	11993											
SNTG1	54212	hgsc.bcm.edu;ucsc.edu	37	chr8	51705388	51705388	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcaaagtatacaacttGacatactgaactcttcattg	16	11	5	9	0	2	2	1	2	1	0	2	2	2	2	0	0	5	2	0	0	7	6	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	51705388	G	T	51705388	3	4	223	1	0	0	0	0	1	0	0	0	14876	1285	45	4	1619	4	SNTG1	8	51705388	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10		51705388	94658634	17	11994											
KIF24	347240	hgsc.bcm.edu;ucsc.edu	37	chr9	34271874	34271874	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgggagcgggaggagtCtgcattaactccagtggccc	8	7	16	10	1	1	0	0	0	1	0	2	3	2	3	2	5	3	2	2	5	1	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	34271874	C	A	34271874	3	1	223	1	0	0	0	0	1	0	0	0	8292	913	32	4	2864	4	KIF24	9	34271874	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10		34271874	106941557	18	11995											
COL15A1	1306	hgsc.bcm.edu	37	chr9	101777794	101777794	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccagtggggtccccacAgatggcctggctcccctcac	7	6	12	16	0	1	1	1	0	0	1	3	2	3	1	6	4	1	1	6	4	1	0	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	101777794	A	C	101777794	2	2	223	1	0	0	0	0	0	0	0	1	3672	175	7	5		5	COL15A1	9	101777794	Silent	SNP	A	TCGA-BP-4174-01A-02D-1366-10	67505920	101777794	39435637	19	11996											
PTGS1	5742	hgsc.bcm.edu;ucsc.edu	37	chr9	125140798	125140798	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcacgggcgctggttctggGagtttgtcaatgccaccttc	5	12	12	12	2	3	0	2	0	1	0	4	1	3	1	2	3	1	3	2	3	1	3	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	125140798	G	T	125140798	4	4	223	1	0	0	0	0	0	1	0	0	12757	1175	41	4	312	4	PTGS1	9	125140798	Nonsense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10	23363004	125140798	16072633	20	11997											
INPP5E	56623	hgsc.bcm.edu	37	chr9	139333264	139333264	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgctgtcctcagggagtcgGaggcgatgtccaggctcagg	6	9	16	10	2	2	0	2	0	0	0	5	3	4	2	2	5	1	2	2	5	0	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	139333264	G	A	139333264	3	1	223	1	0	0	0	0	1	0	0	0	7757	1174	41	2	1366	2	INPP5E	9	139333264	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10	14192466	139333264	1880167	21	11998											
C8G	733	hgsc.bcm.edu	37	chr9	139839785	139839785	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgccaccatgctgccccctGggactgcgaccctcttgact	5	8	9	19	2	1	1	0	1	1	0	1	3	1	2	6	1	3	1	6	1	0	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	139839785	G	A	139839785	3	1	223	1	0	0	0	0	1	0	0	0	2418	1348	47	2	15	2	C8G	9	139839785	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10	506521	139839785	1373646	22	11999											
ZNF33B	7582	hgsc.bcm.edu	37	chr10	43088537	43088537	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgagtgagttgtgactTctggcagaaggtttttccac	8	14	12	7	0	1	4	0	3	1	1	2	4	2	4	1	2	1	4	1	2	1	4	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	43088537	T	C	43088537	3	2	223	1	0	0	0	0	1	0	0	0	17854	1792	62	3	479	3	ZNF33B	10	43088537	Missense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10		43088537	92446210	23	12000											
PRF1	5551	hgsc.bcm.edu;ucsc.edu	37	chr10	72357903	72357903	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctcccaggtggggcaagCacctggcatgatagcggaat	9	7	13	12	1	0	1	0	1	0	0	2	2	2	2	3	5	2	3	3	5	3	1	rs141702424		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	72357903	C	T	72357903	3	4	223	1	0	0	0	0	1	0	0	0	12480	710	25	2	97	2	PRF1	10	72357903	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10	29269366	72357903	63176844	24	12001											
ARF3	377	hgsc.bcm.edu;ucsc.edu	37	chr12	49333860	49333860	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacactgtaaagctgatgTtcttatactccactgtctcc	9	13	5	14	0	2	1	0	1	2	0	4	1	3	1	3	0	2	3	3	0	4	4	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	49333860	T	C	49333860	3	2	223	1	0	0	0	0	1	0	0	0	845	1725	60	3	378	3	ARF3	12	49333860	Missense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10		49333860	84518035	25	12002											
NCKAP1L	3071	hgsc.bcm.edu;ucsc.edu	37	chr12	54914587	54914587	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctcactttgtccactgcActcatgagatgtgcccagag	8	11	10	12	0	2	2	2	1	0	2	3	3	3	2	2	0	3	2	2	0	0	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	54914587	A	G	54914587	3	3	223	1	0	0	0	0	1	0	0	0	10222	159	6	3	1801	3	NCKAP1L	12	54914587	Missense_Mutation	SNP	A	TCGA-BP-4174-01A-02D-1366-10	5580727	54914587	78937308	26	12003											
AKAP11	11215	hgsc.bcm.edu;ucsc.edu	37	chr13	42875949	42875949	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatcctccctagagacaCtgccatcttgtccagctgtg	8	11	9	13	0	1	1	0	0	1	1	4	3	4	2	4	1	2	1	4	1	1	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	42875949	C	T	42875949	2	4	223	1	0	0	0	0	0	0	0	1	447	564	20	2		2	AKAP11	13	42875949	Silent	SNP	C	TCGA-BP-4174-01A-02D-1366-10		42875949	72293929	27	12004											
TMEM179	388021	hgsc.bcm.edu;ucsc.edu	37	chr14	105061450	105061450	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcaaatgtccagcagtaAatggccccctcccagcattg	11	8	8	14	0	1	0	1	0	0	0	3	0	3	0	4	1	3	4	4	1	3	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	105061450	A	C	105061450	3	2	223	1	0	0	0	0	1	0	0	0	16095	11	1	5	23	5	TMEM179	14	105061450	Missense_Mutation	SNP	A	TCGA-BP-4174-01A-02D-1366-10		105061450	2288090	28	12005											
ACAN	176	hgsc.bcm.edu;ucsc.edu	37	chr15	89402128	89402128	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctagcagtgagacgtcCgcctatcctgaagctgggtt	9	10	12	10	2	1	2	0	2	1	1	3	4	3	2	3	1	2	3	3	1	4	3	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	89402128	C	A	89402128	2	1	223	1	0	0	0	0	0	0	0	1	117	639	23	4		4	ACAN	15	89402128	Silent	SNP	C	TCGA-BP-4174-01A-02D-1366-10		89402128	13129264	29	12006											
ZDHHC1	29800	hgsc.bcm.edu	37	chr16	67428940	67428940	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtctcagacgttcgcactTtatacacgcgcctcttcctc	7	12	7	15	4	2	1	1	0	2	1	6	1	3	1	2	1	1	2	2	1	2	5	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	67428940	T	A	67428940	4	1	223	1	0	0	0	0	0	1	0	0	17599	1850	64	5	270	5	ZDHHC1	16	67428940	Nonsense_Mutation	SNP	T	TCGA-BP-4174-01A-02D-1366-10		67428940	22925813	30	12007											
FUT3	2525	hgsc.bcm.edu	37	chr19	5843822	5843822	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctggattcctgctgcagTttccagcaggccttgcagaa	8	11	10	12	0	0	1	0	0	0	1	2	2	2	2	4	2	5	5	4	2	2	4	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		C	5843822	T	C	5843822	2	2	223	1	0	0	0	0	0	0	0	1	6105	1722	60	3		3	FUT3	19	5843822	Silent	SNP	T	TCGA-BP-4174-01A-02D-1366-10		5843822	53285161	31	12008											
LENG1	79165	hgsc.bcm.edu	37	chr19	54663351	54663351	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgctccttctcctcctccCgggcctgggcctcgtcacgc	2	9	9	21	4	2	0	1	0	1	0	7	0	5	0	6	2	0	1	6	2	0	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	54663351	C	G	54663351	3	3	223	1	0	0	0	0	1	0	0	0	8723	652	23	4	727	4	LENG1	19	54663351	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10	48819529	54663351	4465632	32	12009											
CD93	22918	hgsc.bcm.edu;ucsc.edu	37	chr20	23066400	23066400	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggacaggtccagcagcaGagacacacagcgcttggaga	12	4	14	11	1	0	2	0	0	0	2	1	5	1	3	1	3	3	3	1	3	0	1	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	23066400	G	T	23066400	3	4	223	1	0	0	0	0	1	0	0	0	3047	933	33	4	1536	4	CD93	20	23066400	Missense_Mutation	SNP	G	TCGA-BP-4174-01A-02D-1366-10		23066400	39959120	33	12010											
PROCR	10544	hgsc.bcm.edu	37	chr20	33764031	33764031	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgagggctctagagcccAtgtcttcttcgaagtggctg	6	11	12	12	2	3	1	0	0	3	1	5	3	4	1	2	2	1	2	2	2	2	3	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		T	33764031	A	T	33764031	3	4	223	1	0	0	0	0	1	0	0	0	12549	217	8	5	393	5	PROCR	20	33764031	Missense_Mutation	SNP	A	TCGA-BP-4174-01A-02D-1366-10	10697631	33764031	29261489	34	12011											
CHRNA4	1137	hgsc.bcm.edu;ucsc.edu	37	chr20	61981905	61981905	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgagcagcaggaagacGgtgagcgacagcagcacgga	13	3	17	8	3	0	4	0	3	0	1	0	7	0	6	0	3	5	4	0	3	1	0	rs121912257	bycluster	TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	61981905	G	A	61981905	2	1	223	1	0	0	0	0	0	0	0	1	3385	1103	39	1		1	CHRNA4	20	61981905	Silent	SNP	G	TCGA-BP-4174-01A-02D-1366-10	28217874	61981905	1043615	35	12012											
HIC2	23119	hgsc.bcm.edu	37	chr22	21800836	21800836	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcggcaccatgacgcgtcAcatgcggagccacctgggcc	7	4	14	16	5	1	1	1	1	0	0	1	2	1	2	4	3	2	1	4	3	0	0	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	21800836	A	G	21800836	3	3	223	1	0	0	0	0	1	0	0	0	7102	159	6	3	1658	3	HIC2	22	21800836	Missense_Mutation	SNP	A	TCGA-BP-4174-01A-02D-1366-10		21800836	29503730	36	12013											
PES1	23481	hgsc.bcm.edu;ucsc.edu	37	chr22	30983297	30983299	+	In_Frame_Del	DEL	TTG	TTG	-																															ccttgatgatgtggtcgagtTtgtagttgggcttattgtcc																								novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		-	30983299	TTG	-	30983297	7	5	223	1	0	1	0	1	0	0	0	0	11733	1841	64	0	1470	0	PES1	22	30983297	In_Frame_Del	DEL	TTG	TCGA-BP-4174-01A-02D-1366-10	9182461	30983297	20321269	37	12014											
NCAPH2	29781	hgsc.bcm.edu	37	chr22	50961541	50961541	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctttgcggagctggtGgctggccagccggccttcga	3	10	15	13	3	0	0	0	0	0	0	2	2	1	1	4	5	3	2	4	5	0	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		A	50961541	G	A	50961541	2	1	223	1	0	0	0	0	0	0	0	1	10210	1335	47	2		2	NCAPH2	22	50961541	Silent	SNP	G	TCGA-BP-4174-01A-02D-1366-10	19978244	50961541	343025	38	12015											
MAGED1	9500	hgsc.bcm.edu	37	chrX	51640358	51640358	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacacaaaggtgcccatcAagcgctcaggtatgcatcca	13	7	8	13	1	2	0	2	0	0	0	3	0	3	0	2	2	4	3	2	2	4	2	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	51640358	A	G	51640358	3	3	223	1	0	0	0	0	1	0	0	0	9183	131	5	3	1663	3	MAGED1	23	51640358	Missense_Mutation	SNP	A	TCGA-BP-4174-01A-02D-1366-10		51640358	103630202	39	12016											
NRK	203447	hgsc.bcm.edu;ucsc.edu	37	chrX	105132390	105132390	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttcaagctgagtccccCtggtcagcggcaccaacttt	8	12	8	13	1	2	1	2	1	0	0	3	1	3	1	3	2	3	2	3	2	2	3	novel		TCGA-BP-4174-01A-02D-1366-10	TCGA-BP-4174-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	17bc5432-4fe4-4b0b-a99f-760bee5b9d15	65b270c5-362f-4159-9372-96a1abc44391		G	105132390	C	G	105132390	3	3	223	1	0	0	0	0	1	0	0	0	10655	681	24	4	374	4	NRK	23	105132390	Missense_Mutation	SNP	C	TCGA-BP-4174-01A-02D-1366-10	53492032	105132390	50138170	40	12017											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21798206	21798206	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccggacaactcccagggAcgggacctccgagaacagct	11	3	13	14	3	0	1	0	0	0	1	2	6	2	4	4	3	4	1	4	3	2	0	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	21798206	A	G	21798206	2	3	224	1	0	0	0	0	0	0	0	1	10197	262	10	3		3	NBPF3	1	21798206	Silent	SNP	A	TCGA-BP-4176-01A-02D-1366-10		21798206	227452415	1	12018											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21808128	21808128	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtagtagagcctgaggActtgcaggactcactggata	11	8	15	7	0	1	2	1	1	0	1	1	6	1	6	1	5	2	3	1	5	3	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	21808128	A	T	21808128	3	4	224	1	0	0	0	0	1	0	0	0	10197	275	10	5	1518	5	NBPF3	1	21808128	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	9922	21808128	227442493	2	12019											
AMY1B	277	hgsc.bcm.edu	37	chr1	104233933	104233933	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttttccattttcaaaatAtcttggccaacggtagcttg	10	16	6	9	1	2	0	1	0	1	0	3	0	3	0	2	2	3	2	2	2	6	9	rs1130744		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	104233933	A	G	104233933	3	3	224	1	0	0	0	0	1	0	0	0	592	449	16	3	2043	3	AMY1B	1	104233933	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	82425805	104233933	145016688	3	12020											
SPAG17	200162	hgsc.bcm.edu;ucsc.edu	37	chr1	118658052	118658052	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actatccataattgcttttgCtgccgttaacacctatacag	11	14	5	11	1	0	0	0	0	0	0	1	0	1	0	3	0	5	3	3	0	5	8	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	118658052	C	G	118658052	3	3	224	1	0	0	0	0	1	0	0	0	14981	797	28	4	6523	4	SPAG17	1	118658052	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	14424119	118658052	130592569	4	12021											
FCGR1B	2210	hgsc.bcm.edu	37	chr1	120927292	120927292	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaaagagatttctaaatTccactttttctttcttttca	11	19	2	9	0	4	1	1	0	3	1	6	2	6	1	2	0	0	0	2	0	3	8	rs1050204	bycluster;byfrequency;by2hit2allele	TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	120927292	T	C	120927292	3	2	224	1	0	0	0	0	1	0	0	0	5780	1783	62	3	158	3	FCGR1B	1	120927292	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	2269240	120927292	128323329	5	12022											
HAX1	10456	hgsc.bcm.edu;ucsc.edu	37	chr1	154247938	154247938	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacagtaacccgacacgaaGcagatagcagtcctaggggt	13	6	11	11	2	0	1	0	0	0	1	1	3	1	1	2	2	4	3	2	2	5	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	154247938	G	C	154247938	3	2	224	1	0	0	0	0	1	0	0	0	6975	971	34	4	755	4	HAX1	1	154247938	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	33320646	154247938	95002683	6	12023											
ARHGEF11	9826	hgsc.bcm.edu	37	chr1	156907115	156907115	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgtccctgagggccaggcTtggaggagagcggctggggc	6	5	19	11	2	0	2	0	1	0	1	1	4	1	3	2	7	1	2	2	7	0	1	rs63387061	bycluster;byfrequency;by1000genomes	TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	156907115	T	C	156907115	3	2	224	1	0	0	0	0	1	0	0	0	896	1609	56	3	334	3	ARHGEF11	1	156907115	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	2659177	156907115	92343506	7	12024											
BAT2L2	0	hgsc.bcm.edu	37	chr1	171509616	171509616	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgaccaagctctaacagaaGggaagaagttaatgatagac	18	6	10	7	1	1	4	0	1	1	3	1	6	1	5	1	1	2	2	1	1	7	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	171509616	G	T	171509616	3	4	224	1	0	0	0	0	1	0	0	0	1321	1000	35	4	3063	4	BAT2L2	1	171509616	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	14602501	171509616	77741005	8	12025											
FAM129A	116496	hgsc.bcm.edu;ucsc.edu	37	chr1	184859254	184859254	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caactcaccaagagggtctgGgaaatgcctgtcagacaaca	14	6	10	11	0	3	2	2	0	1	2	3	3	3	3	2	2	3	0	2	2	4	0	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	184859254	G	T	184859254	3	4	224	1	0	0	0	0	1	0	0	0	5436	1232	43	4	2409	4	FAM129A	1	184859254	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	13349638	184859254	64391367	9	12026											
HMCN1	83872	hgsc.bcm.edu	37	chr1	185704113	185704113	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaggggcttccaaaattttgGagacgtctttgaaaagacct	13	11	10	7	1	1	3	0	1	1	2	2	4	2	3	2	3	0	1	2	3	5	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	185704113	G	C	185704113	3	2	224	1	0	0	0	0	1	0	0	0	7220	1175	41	4	204	4	HMCN1	1	185704113	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	844859	185704113	63546508	10	12027											
ITPKB	3707	hgsc.bcm.edu	37	chr1	226924364	226924364	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgggtgagccacagcGgggactggcagggataccct	8	6	17	10	1	0	1	0	1	0	0	0	3	0	3	2	5	4	2	2	5	1	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	226924364	G	A	226924364	3	1	224	1	0	0	0	0	1	0	0	0	7918	1116	39	1	2072	1	ITPKB	1	226924364	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	41220251	226924364	22326257	11	12028											
TARBP1	6894	hgsc.bcm.edu;ucsc.edu	37	chr1	234563467	234563467	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaacttatcagtgtattgaAgactccagtctttatagcag	12	14	8	7	0	2	2	1	1	1	1	3	2	3	2	1	0	2	3	1	0	6	7	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	234563467	A	C	234563467	3	2	224	1	0	0	0	0	1	0	0	0	15554	72	3	5	1811	5	TARBP1	1	234563467	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	7639103	234563467	14687154	12	12029											
OR2M7	391196	hgsc.bcm.edu	37	chr1	248487282	248487282	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagcagatgaaaataacctCttcaaatattgatgtgtcat	16	12	6	7	0	3	3	2	2	1	1	3	3	3	3	1	0	2	1	1	0	5	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	248487282	C	T	248487282	3	4	224	1	0	0	0	0	1	0	0	0	11014	922	32	2	352	2	OR2M7	1	248487282	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	13923815	248487282	763339	13	12030											
OR2T35	403244	hgsc.bcm.edu	37	chr1	248801633	248801633	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctgatgctctgggaggaAccacatctccctagtacttt	9	11	8	13	0	2	1	0	1	2	0	3	3	2	3	3	2	3	2	3	2	3	3	rs74901534		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	248801633	A	G	248801633	2	3	224	1	0	0	0	0	0	0	0	1	11026	30	2	3		3	OR2T35	1	248801633	Silent	SNP	A	TCGA-BP-4176-01A-02D-1366-10	314351	248801633	448988	14	12031											
ADI1	55256	hgsc.bcm.edu	37	chr2	3504658	3504658	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccttctccatgaagatcCggatccactggtcctccttg	6	12	7	16	1	1	2	0	1	1	1	7	3	6	3	6	2	0	0	6	2	1	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	3504658	C	T	3504658	3	4	224	1	0	0	0	0	1	0	0	0	315	652	23	1	200	1	ADI1	2	3504658	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10		3504658	239694715	15	12032											
HSPC159	0	hgsc.bcm.edu;ucsc.edu	37	chr2	64682738	64682738	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagatagttccattttgtGggcacattaaaggtggcatg	10	14	11	6	0	1	1	1	0	0	1	2	1	2	1	1	3	0	3	1	3	3	6	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	64682738	G	T	64682738	3	4	224	1	0	0	0	0	1	0	0	0	7427	1348	47	4	134	4	HSPC159	2	64682738	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	61178080	64682738	178516635	16	12033											
TEKT4	150483	hgsc.bcm.edu	37	chr2	95541442	95541442	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacccggctgtacctgcgctCgcaccggcccaacatggagc	7	5	12	17	4	0	0	0	0	0	0	1	2	0	1	4	3	4	4	4	3	2	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	95541442	C	T	95541442	3	4	224	1	0	0	0	0	1	0	0	0	15754	893	31	1	1064	1	TEKT4	2	95541442	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	30858704	95541442	147657931	17	12034											
MAP4K4	9448	hgsc.bcm.edu;ucsc.edu	37	chr2	102490653	102490653	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actaggccacagagtgacacCccggagattcgtaaatacaa	15	6	9	11	2	0	3	0	1	0	2	1	4	0	3	3	2	1	1	3	2	5	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	102490653	C	A	102490653	2	1	224	1	0	0	0	0	0	0	0	1	9262	610	22	4		4	MAP4K4	2	102490653	Silent	SNP	C	TCGA-BP-4176-01A-02D-1366-10	6949211	102490653	140708720	18	12035											
MCM6	4175	hgsc.bcm.edu	37	chr2	136626383	136626383	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccgcaccacctgcccaCtgatgcgagtgagcaaacca	11	5	10	15	2	0	2	0	2	0	0	1	4	1	2	5	0	4	2	5	0	1	0	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	136626383	C	A	136626383	3	1	224	1	0	0	0	0	1	0	0	0	9391	565	20	4	2108	4	MCM6	2	136626383	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	34135730	136626383	106572990	19	12036											
SESTD1	91404	hgsc.bcm.edu	37	chr2	179997085	179997085	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtagggcctgggaggccctAatggagtctccaatgcccca	8	8	13	12	0	1	0	0	0	1	0	2	2	1	2	5	4	1	1	5	4	3	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	179997085	A	C	179997085	3	2	224	1	0	0	0	0	1	0	0	0	14129	358	13	5	1208	5	SESTD1	2	179997085	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	43370702	179997085	63202288	20	12037											
SLC39A10	57181	hgsc.bcm.edu;ucsc.edu	37	chr2	196593015	196593015	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtatgccaataacatcaCactttggatctttgcagtca	12	13	6	10	0	4	0	3	0	1	0	4	1	4	1	1	1	3	2	1	1	3	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	196593015	C	G	196593015	3	3	224	1	0	0	0	0	1	0	0	0	14615	478	17	4	2309	4	SLC39A10	2	196593015	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	16595930	196593015	46606358	21	12038											
SF3B1	23451	hgsc.bcm.edu;ucsc.edu	37	chr2	198257042	198257042	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaattataagatatagtcAagttcataacgaatataggt	19	13	6	3	1	2	1	2	0	0	1	2	2	2	1	0	1	1	1	0	1	11	9	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	198257042	A	C	198257042	2	2	224	1	0	0	0	0	0	0	0	1	14151	117	5	5		5	SF3B1	2	198257042	Silent	SNP	A	TCGA-BP-4176-01A-02D-1366-10	1664027	198257042	44942331	22	12039											
MARS2	92935	hgsc.bcm.edu	37	chr2	198571042	198571042	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttggtggccggccaccTctcatatcataggtaaggac	10	10	10	11	1	3	0	2	0	2	0	4	1	3	1	3	5	0	1	3	5	4	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	198571042	T	G	198571042	3	3	224	1	0	0	0	0	1	0	0	0	9317	1551	54	5	915	5	MARS2	2	198571042	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	314000	198571042	44628331	23	12040											
TRANK1	9881	hgsc.bcm.edu;ucsc.edu	37	chr3	36872707	36872707	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggaagctgccccctcaaaCgctttgctggggctgaaata	9	9	11	12	2	1	1	1	1	0	0	2	2	1	2	2	3	4	4	2	3	4	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	36872707	C	T	36872707	2	4	224	1	0	0	0	0	0	0	0	1	16453	523	19	1		1	TRANK1	3	36872707	Silent	SNP	C	TCGA-BP-4176-01A-02D-1366-10		36872707	161149723	24	12041											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52584502	52584502	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtccttcaatgtatttcAggtaggcctctgagtgaaga	10	13	11	7	0	3	4	2	3	1	1	4	4	4	4	2	2	0	2	2	2	4	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	52584502	A	G	52584502	3	3	224	1	0	0	0	0	1	0	0	0	11491	188	7	3	245	3	PBRM1	3	52584502	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	15711795	52584502	145437928	25	12042											
EPHA3	2042	hgsc.bcm.edu	37	chr3	89468539	89468539	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaaggagttgttaccaaAagtaagtaaagtagtcataa	17	10	10	4	0	1	0	1	0	0	0	1	2	1	2	1	2	1	5	1	2	9	6	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	89468539	A	T	89468539	3	4	224	1	0	0	0	0	1	0	0	0	5168	28	1	5	2141	5	EPHA3	3	89468539	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	36884037	89468539	108553891	26	12043											
CASR	846	hgsc.bcm.edu;ucsc.edu	37	chr3	121980855	121980855	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggattcgctctgaaggctGggcagatcccaggcttccgg	6	10	14	11	2	1	2	0	1	1	1	4	3	3	3	2	5	0	4	2	5	1	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	121980855	G	A	121980855	3	1	224	1	0	0	0	0	1	0	0	0	2682	1348	47	2	983	2	CASR	3	121980855	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	32512316	121980855	76041575	27	12044											
ATR	545	hgsc.bcm.edu	37	chr3	142254950	142254950	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaattaaaaattaaatacCtttctgtattcctggagaac	17	13	4	7	0	1	1	0	0	1	1	2	2	2	1	2	1	2	1	2	1	9	6	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	142254950	C	A	142254950	3	1	224	1	0	0	0	0	1	0	0	0	1204	695	24	4	4227	4	ATR	3	142254950	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	20274095	142254950	55767480	28	12045											
LRRC34	151827	hgsc.bcm.edu;ucsc.edu	37	chr3	169514626	169514626	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatatcatgcttacacatgTgtagtgcaacaagacagtga	14	12	8	7	0	1	2	1	1	0	1	1	2	1	2	0	0	4	3	0	0	6	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	169514626	T	A	169514626	3	1	224	1	0	0	0	0	1	0	0	0	8989	1696	59	5	617	5	LRRC34	3	169514626	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	27259676	169514626	28507804	29	12046											
SLC34A2	10568	hgsc.bcm.edu	37	chr4	25667856	25667856	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgcagagctccagcacCtcaacgtccatcgttgtcag	8	10	10	13	2	2	1	2	0	0	1	5	1	4	1	3	1	4	4	3	1	1	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	25667856	C	A	25667856	2	1	224	1	0	0	0	0	0	0	0	1	14570	668	24	4		4	SLC34A2	4	25667856	Silent	SNP	C	TCGA-BP-4176-01A-02D-1366-10		25667856	165486420	30	12047											
UGT8	7368	hgsc.bcm.edu;ucsc.edu	37	chr4	115585285	115585286	+	Frame_Shift_Del	DEL	GA	GA	-																															gggagattgcctcaaaaagtGatttggaggtaaggtaataa																								novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		-	115585286	GA	-	115585285	7	5	224	1	0	1	0	1	0	0	0	0	16964	1277	45	0	963	0	UGT8	4	115585285	Frame_Shift_Del	DEL	GA	TCGA-BP-4176-01A-02D-1366-10	89917429	115585285	75568991	31	12048											
GPR98	84059	hgsc.bcm.edu;ucsc.edu	37	chr5	89925092	89925092	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acattttttcctatggaaaaCcagaagattgaaagcagccc	15	10	7	9	0	0	3	0	1	0	2	1	4	1	4	3	1	3	1	3	1	5	5	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	89925092	C	G	89925092	3	3	224	1	0	0	0	0	1	0	0	0	6721	506	18	4	1609	4	GPR98	5	89925092	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10		89925092	90990168	32	12049											
SH3RF2	153769	hgsc.bcm.edu;ucsc.edu	37	chr5	145428752	145428752	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggctcaggggcgtctcCttggtcaccgggcgagtcgg	3	8	18	12	4	3	0	2	0	1	0	5	1	3	0	2	7	0	2	2	7	0	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	145428752	C	T	145428752	2	4	224	1	0	0	0	0	0	0	0	1	14261	668	24	2		2	SH3RF2	5	145428752	Silent	SNP	C	TCGA-BP-4176-01A-02D-1366-10	55503660	145428752	35486508	33	12050											
SCAND3	114821	hgsc.bcm.edu	37	chr6	28543057	28543057	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctttcggatatcctcagtTtgttctgcagaactctggct	6	16	8	11	1	4	1	1	0	3	1	6	2	5	2	1	2	2	4	1	2	2	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	28543057	T	C	28543057	2	2	224	1	0	0	0	0	0	0	0	1	13878	1838	64	3		3	SCAND3	6	28543057	Silent	SNP	T	TCGA-BP-4176-01A-02D-1366-10		28543057	142572010	34	12051											
OR2J2	26707	hgsc.bcm.edu;ucsc.edu	37	chr6	29141432	29141433	+	Frame_Shift_Ins	INS	-	-	A																															atgatgattaaaaaaaatgcINSaagttcggaagacttcttta																								novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	29141433	-	A	29141432	7	5	224	1	0	1	1	0	0	0	0	0	11003	710	25	0	22	0	OR2J2	6	29141432	Frame_Shift_Ins	INS	-	TCGA-BP-4176-01A-02D-1366-10	598375	29141432	141973635	35	12052											
BAK1	578	hgsc.bcm.edu	37	chr6	33545340	33545340	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggcagggcaggctctccGcactcctgcctgggaggacc	6	5	16	14	1	1	0	0	0	1	0	3	3	2	2	4	5	1	4	4	5	0	0	rs2227925	bycluster;byfrequency;by1000genomes	TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	33545340	G	A	33545340	2	1	224	1	0	0	0	0	0	0	0	1	1305	1079	38	1		1	BAK1	6	33545340	Silent	SNP	G	TCGA-BP-4176-01A-02D-1366-10	4403908	33545340	137569727	36	12053											
ITPR3	3710	hgsc.bcm.edu	37	chr6	33662730	33662730	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactggttcccccggatGcgggccatgtcccttgtcag	4	10	13	14	2	1	0	1	0	0	0	3	2	3	2	4	4	1	1	4	4	0	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	33662730	G	A	33662730	3	1	224	1	0	0	0	0	1	0	0	0	7922	1319	46	2	8041	2	ITPR3	6	33662730	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	117390	33662730	137452337	37	12054											
SNX9	51429	hgsc.bcm.edu;ucsc.edu	37	chr6	158330994	158330994	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttgactggttatatgagCgtctcctggttaagtttggg	7	16	12	6	1	1	2	0	2	1	0	2	2	1	2	1	3	1	3	1	3	3	5	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	158330994	C	T	158330994	3	4	224	1	0	0	0	0	1	0	0	0	14911	768	27	1	920	1	SNX9	6	158330994	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	124668264	158330994	12784073	38	12055											
RSPH10B	222967	hgsc.bcm.edu	37	chr7	5972412	5972412	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctacaattaaaatactcaCtgctctcagatgagaaaaag	17	11	5	8	0	3	2	2	1	2	2	4	3	3	2	0	0	3	1	0	0	7	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	5972412	C	G	5972412	5	3	224	1	0	0	0	0	0	0	1	0	13705	579	20	4	390	4	RSPH10B	7	5972412	Splice_Site	SNP	C	TCGA-BP-4176-01A-02D-1366-10		5972412	153166251	39	12056											
C7orf41	222166	hgsc.bcm.edu	37	chr7	30174891	30174891	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttctatgtgctgtgtccgGacaacggctgcggcgacaat	7	10	12	12	4	1	0	0	0	1	0	2	2	2	1	2	3	3	2	2	3	3	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	30174891	G	T	30174891	3	4	224	1	0	0	0	0	1	0	0	0	2391	1174	41	4	141	4	C7orf41	7	30174891	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	24202479	30174891	128963772	40	12057											
AUTS2	26053	hgsc.bcm.edu;ucsc.edu	37	chr7	69364395	69364395	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagagcagactcagccacCcacaccactacagctcagat	15	4	7	15	0	2	4	2	0	0	4	2	4	2	4	3	0	4	2	3	0	2	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	69364395	C	G	69364395	3	3	224	1	0	0	0	0	1	0	0	0	1225	623	22	4	439	4	AUTS2	7	69364395	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	39189504	69364395	89774268	41	12058											
TAS2R3	50831	hgsc.bcm.edu	37	chr7	141464682	141464682	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctttccttcttctttCtcttcttactttactttctt	3	25	0	13	0	6	0	1	0	5	0	9	0	8	0	2	0	2	0	2	0	2	10	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	141464682	C	A	141464682	3	1	224	1	0	0	0	0	1	0	0	0	15571	913	32	4	726	4	TAS2R3	7	141464682	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	72100287	141464682	17673981	42	12059											
ERLIN2	11160	hgsc.bcm.edu;ucsc.edu	37	chr8	37611039	37611039	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctatgaaaatagccgaaGccaataaggtaaagaccccg	16	6	9	10	2	0	2	0	1	0	1	0	3	0	2	4	1	3	2	4	1	9	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	37611039	G	A	37611039	3	1	224	1	0	0	0	0	1	0	0	0	5233	971	34	2	888	2	ERLIN2	8	37611039	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10		37611039	108752983	43	12060											
PTK2	5747	hgsc.bcm.edu	37	chr8	141745400	141745400	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcctgctggggtcataGgcccagcatttcgtcataag	7	9	13	12	2	2	0	2	0	0	0	3	0	2	0	3	4	2	2	3	4	2	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	141745400	G	T	141745400	2	4	224	1	0	0	0	0	0	0	0	1	12764	987	35	4		4	PTK2	8	141745400	Silent	SNP	G	TCGA-BP-4176-01A-02D-1366-10	104134361	141745400	4618622	44	12061											
PUF60	22827	hgsc.bcm.edu	37	chr8	144899131	144899131	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtcgggcgctactgccCgagatgctcatgtgctcctg	5	11	13	12	3	1	1	1	0	0	1	3	2	2	1	2	1	4	3	2	1	1	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	144899131	C	A	144899131	2	1	224	1	0	0	0	0	0	0	0	1	12826	639	23	4		4	PUF60	8	144899131	Silent	SNP	C	TCGA-BP-4176-01A-02D-1366-10	3153731	144899131	1464891	45	12062											
FAM166B	730112	hgsc.bcm.edu;ucsc.edu	37	chr9	35563020	35563020	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaaagtcactcagagccTcggcccagacctggctgcag	10	6	12	13	1	2	2	2	0	0	2	3	3	2	2	3	2	2	3	3	2	2	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	35563020	T	A	35563020	3	1	224	1	0	0	0	0	1	0	0	0	5482	1551	54	5	318	5	FAM166B	9	35563020	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10		35563020	105650411	46	12063											
FRMPD1	22844	hgsc.bcm.edu;ucsc.edu	37	chr9	37731077	37731077	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgaaagaagaccccgtgGcctttgaatacctctatctg	10	11	8	12	1	2	4	0	2	2	2	3	4	3	4	5	1	1	0	5	1	5	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	37731077	G	T	37731077	3	4	224	1	0	0	0	0	1	0	0	0	6057	1203	42	4	865	4	FRMPD1	9	37731077	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	2168057	37731077	103482354	47	12064											
FNBP1	23048	hgsc.bcm.edu;ucsc.edu	37	chr9	132741632	132741632	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttcgagttctttttaggTtggtacttctttgaaagatt	7	20	8	6	1	2	2	0	1	2	1	4	3	3	2	1	2	1	3	1	2	3	10	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	132741632	T	A	132741632	3	1	224	1	0	0	0	0	1	0	0	0	5965	1722	60	5	1751	5	FNBP1	9	132741632	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	95010555	132741632	8471799	48	12065											
ACBD5	91452	hgsc.bcm.edu	37	chr10	27497270	27497270	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgagggcgatctgctcatTgaggctgcctcgggaccctc	6	8	13	14	3	2	1	1	1	1	0	4	4	2	2	2	3	2	2	2	3	0	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	27497270	T	A	27497270	3	1	224	1	0	0	0	0	1	0	0	0	125	1812	63	5	284	5	ACBD5	10	27497270	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10		27497270	108037477	49	12066											
POLR3A	11128	hgsc.bcm.edu;ucsc.edu	37	chr10	79761970	79761970	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacctttggagccgcacaGagccatggtgagggggctgt	8	7	16	10	1	0	3	0	1	0	2	0	4	0	4	3	4	2	2	3	4	0	1	rs137961403	alternate_allele	TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	79761970	G	T	79761970	3	4	224	1	0	0	0	0	1	0	0	0	12228	933	33	4	1888	4	POLR3A	10	79761970	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	52264700	79761970	55772777	50	12067											
RASSF7	8045	hgsc.bcm.edu	37	chr11	563219	563219	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctggaggagctgaacCgagagctccgtcagtgcaac	11	5	15	10	2	1	2	1	1	0	1	2	6	2	5	2	3	6	4	2	3	2	0	rs139977222		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	563219	C	T	563219	4	4	224	1	0	0	0	0	0	1	0	0	13093	644	23	1	863	1	RASSF7	11	563219	Nonsense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10		563219	134443297	51	12068											
ASCL3	56676	hgsc.bcm.edu	37	chr11	8959460	8959460	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggagtactcgcaccctctGtaatttggataaggcatcgg	10	11	11	9	2	1	0	0	0	1	0	3	2	1	2	1	4	1	4	1	4	4	5	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	8959460	G	T	8959460	4	4	224	1	0	0	0	0	0	1	0	0	1035	1372	48	4	300	4	ASCL3	11	8959460	Nonsense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	8396241	8959460	126047056	52	12069											
CCS	9973	hgsc.bcm.edu	37	chr11	66373234	66373234	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaccccaagcagatctgcTcttgcgatggcctcaccatc	10	8	8	15	1	3	2	1	0	2	2	4	3	3	2	4	1	4	2	4	1	2	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	66373234	T	G	66373234	3	3	224	1	0	0	0	0	1	0	0	0	2952	1551	54	5	763	5	CCS	11	66373234	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	57413774	66373234	68633282	53	12070											
C2CD3	26005	hgsc.bcm.edu;ucsc.edu	37	chr11	73814557	73814557	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatcttggttaagttctggTagtgccttatttggacttgt	7	19	10	5	0	2	0	0	0	2	0	2	1	2	1	1	3	1	3	1	3	4	8	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	73814557	T	A	73814557	2	1	224	1	0	0	0	0	0	0	0	1	2154	1625	57	5		5	C2CD3	11	73814557	Silent	SNP	T	TCGA-BP-4176-01A-02D-1366-10	7441323	73814557	61191959	54	12071											
MED17	9440	hgsc.bcm.edu	37	chr11	93526948	93526948	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaagaatacagatctcgAtctggataaaaagatacctg	19	9	7	6	1	2	3	0	0	2	3	3	5	2	4	1	1	2	0	1	1	9	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	93526948	A	C	93526948	3	2	224	1	0	0	0	0	1	0	0	0	9435	333	12	5	706	5	MED17	11	93526948	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	19712391	93526948	41479568	55	12072											
EXPH5	23086	hgsc.bcm.edu;ucsc.edu	37	chr11	108384025	108384025	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaaaatcaggtaaagagtTtgagatccctgtctgtgaaa	14	12	10	5	0	2	4	1	3	1	2	3	5	3	4	1	1	0	2	1	1	5	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	108384025	T	G	108384025	3	3	224	1	0	0	0	0	1	0	0	0	5322	1841	64	5	3764	5	EXPH5	11	108384025	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	14857077	108384025	26622491	56	12073											
ROBO3	64221	hgsc.bcm.edu	37	chr11	124741007	124741007	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggaaaccccccacctgcCatcttctggcagaaggaggg	12	5	11	13	0	2	1	0	0	2	1	2	3	2	3	5	4	2	1	5	4	3	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	124741007	C	A	124741007	2	1	224	1	0	0	0	0	0	0	0	1	13517	581	21	4		4	ROBO3	11	124741007	Silent	SNP	C	TCGA-BP-4176-01A-02D-1366-10	16356982	124741007	10265509	57	12074											
TAPBPL	55080	hgsc.bcm.edu;ucsc.edu	37	chr12	6567862	6567862	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagctctgctgcccacccTcatctgcgacattgctggct	6	10	9	16	2	3	0	1	0	2	0	3	2	3	0	2	1	5	4	2	1	1	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	6567862	T	A	6567862	3	1	224	1	0	0	0	0	1	0	0	0	15552	1551	54	5	974	5	TAPBPL	12	6567862	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10		6567862	127284033	58	12075											
COL2A1	1280	hgsc.bcm.edu;ucsc.edu	37	chr12	48379700	48379700	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcttctcccactcaccttggGacctgccagaccatcttgac	7	11	6	17	0	4	2	1	1	3	1	5	3	4	3	5	1	1	0	5	1	0	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	48379700	G	A	48379700	3	1	224	1	0	0	0	0	1	0	0	0	3687	1174	41	2	3011	2	COL2A1	12	48379700	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	41811838	48379700	85472195	59	12076											
SPATS2	65244	hgsc.bcm.edu;ucsc.edu	37	chr12	49854814	49854814	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtccaggaaacagaacCagaagggtaagattacatgt	17	7	10	7	0	0	3	0	0	0	3	1	4	1	4	2	2	3	1	2	2	6	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	49854814	C	A	49854814	3	1	224	1	0	0	0	0	1	0	0	0	15020	595	21	4	21	4	SPATS2	12	49854814	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	1475114	49854814	83997081	60	12077											
DCTN2	10540	hgsc.bcm.edu;ucsc.edu	37	chr12	57926027	57926027	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgcttgatggtgacaagTctctgcaccagctcagggag	9	9	13	10	0	2	2	1	2	1	0	3	3	2	3	1	2	4	4	1	2	1	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	57926027	T	G	57926027	3	3	224	1	0	0	0	0	1	0	0	0	4307	1664	58	5	221	5	DCTN2	12	57926027	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	8071213	57926027	75925868	61	12078											
BCL7A	605	hgsc.bcm.edu;ucsc.edu	37	chr12	122473306	122473306	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccactccggagaacagtTcctccccagggatgatggac	10	7	11	13	1	0	3	0	2	0	1	3	6	3	5	5	3	1	1	5	3	1	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	122473306	T	G	122473306	3	3	224	1	0	0	0	0	1	0	0	0	1378	1783	62	5	254	5	BCL7A	12	122473306	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	64547279	122473306	11378589	62	12079											
ATP8A2	51761	hgsc.bcm.edu;ucsc.edu	37	chr13	26594067	26594067	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaacacggagctgttagtCaggaagaagtcatccgtgct	13	8	12	8	2	2	2	2	0	0	2	3	4	3	4	1	2	3	3	1	2	5	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	26594067	C	G	26594067	3	3	224	1	0	0	0	0	1	0	0	0	1193	827	29	4	3657	4	ATP8A2	13	26594067	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10		26594067	88575811	63	12080											
TMCO3	55002	hgsc.bcm.edu	37	chr13	114149923	114149923	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgttgggaagaagcttcttCtgggtgctgtttcccgtcct	4	15	13	9	1	2	1	0	0	2	1	4	2	4	2	2	2	2	4	2	2	2	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	114149923	C	G	114149923	3	3	224	1	0	0	0	0	1	0	0	0	15996	912	32	4	29	4	TMCO3	13	114149923	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	87555856	114149923	1019955	64	12081											
HERC2	8924	hgsc.bcm.edu;ucsc.edu	37	chr15	28414709	28414709	+	Missense_Mutation	SNP	G	G	C																															atttccatccaatgacaagaGaatcttggcaagagaagggc																								novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	28414709	G	C	28414709	3	2	224	1	0	0	0	0	1	0	0	0	7058	942	33	4	4466	4	HERC2	15	28414709	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10		28414709	74116683	65	12082	176	2									
HERC2	8924	hgsc.bcm.edu;ucsc.edu	37	chr15	28414719	28414719	+	Silent	SNP	A	A	G																															aatgacaagagaatcttggcAagagaagggcgatttggctt																								novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	28414719	A	G	28414719	2	3	224	1	0	0	0	0	0	0	0	1	7058	117	5	3		3	HERC2	15	28414719	Silent	SNP	A	TCGA-BP-4176-01A-02D-1366-10	10	28414719	74116673	66	12083	176	2									
UBR1	197131	hgsc.bcm.edu;ucsc.edu	37	chr15	43320014	43320014	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgacattctctaagccagTttcattattttcctgttgaa	10	18	5	8	0	2	2	1	2	1	0	4	2	3	2	2	0	1	2	2	0	4	8	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	43320014	T	C	43320014	3	2	224	1	0	0	0	0	1	0	0	0	16900	1725	60	3	2961	3	UBR1	15	43320014	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	14905295	43320014	59211378	67	12084											
LEO1	123169	hgsc.bcm.edu	37	chr15	52254683	52254683	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcactatcactgcctctTgcagattctataagggtaga	10	14	7	10	0	5	2	2	0	3	2	5	2	5	2	1	1	2	2	1	1	4	7	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	52254683	T	C	52254683	2	2	224	1	0	0	0	0	0	0	0	1	8726	1799	63	3		3	LEO1	15	52254683	Silent	SNP	T	TCGA-BP-4176-01A-02D-1366-10	8934669	52254683	50276709	68	12085											
FAM108C1	58489	hgsc.bcm.edu;ucsc.edu	37	chr15	81046580	81046580	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctcccatggcctagcgAtgtacgagcgctgtccccga	7	10	10	14	4	1	0	0	0	1	0	3	3	2	0	4	1	3	2	4	1	2	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	81046580	A	G	81046580	3	3	224	1	0	0	0	0	1	0	0	0	5393	333	12	3	869	3	FAM108C1	15	81046580	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	28791897	81046580	21484812	69	12086											
CNTNAP4	85445	hgsc.bcm.edu	37	chr16	76509834	76509834	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtatctgcaccttcttttAggtgtttgcccaactattgt	6	19	7	9	0	2	0	0	0	2	0	2	0	2	0	2	1	3	3	2	1	4	8	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	76509834	A	T	76509834	5	4	224	1	0	0	0	0	0	0	1	0	3649	434	15	5	1709	5	CNTNAP4	16	76509834	Splice_Site	SNP	A	TCGA-BP-4176-01A-02D-1366-10		76509834	13844919	70	12087											
TP53	7157	hgsc.bcm.edu;ucsc.edu	37	chr17	7573974	7573974	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcccagcctgggcatcCttgagttccaaggcctcatt	6	12	8	15	0	1	1	1	1	0	0	5	1	5	1	6	2	1	2	6	2	1	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	7573974	C	A	7573974	3	1	224	1	0	0	0	0	1	0	0	0	16380	680	24	4	136	4	TP53	17	7573974	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10		7573974	73621236	71	12088											
SLFN13	146857	hgsc.bcm.edu;ucsc.edu	37	chr17	33769171	33769171	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttcaggtccacagcccAgcttctagagaggatcacaa	13	7	9	12	0	3	1	2	0	1	1	4	3	4	2	2	2	2	2	2	2	3	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	33769171	A	G	33769171	3	3	224	1	0	0	0	0	1	0	0	0	14738	188	7	3	1368	3	SLFN13	17	33769171	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10	26195197	33769171	47426039	72	12089											
DUSP3	1845	hgsc.bcm.edu;ucsc.edu	37	chr17	41847147	41847147	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gataactagcgttggggagcGgctataaccttcccggcagt	9	9	13	10	3	0	0	0	0	0	0	1	2	1	1	2	4	4	3	2	4	4	6	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	41847147	G	A	41847147	3	1	224	1	0	0	0	0	1	0	0	0	4826	1116	39	1	173	1	DUSP3	17	41847147	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	8077976	41847147	39348063	73	12090											
SNX11	29916	hgsc.bcm.edu	37	chr17	46190702	46190702	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccaagacttcctgtgtgCggcgccgctaccgtgagttc	5	10	12	14	4	0	2	0	1	0	1	2	2	1	2	4	1	3	2	4	1	2	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	46190702	C	T	46190702	3	4	224	1	0	0	0	0	1	0	0	0	14884	759	27	1	179	1	SNX11	17	46190702	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	4343555	46190702	35004508	74	12091											
CDH2	1000	hgsc.bcm.edu	37	chr18	25593663	25593663	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataccttcactgactcctcaGttaaggttggcttcaggctc	8	13	8	12	0	3	1	3	1	0	0	5	1	4	1	2	3	1	4	2	3	2	5	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	25593663	G	C	25593663	3	2	224	1	0	0	0	0	1	0	0	0	3105	1029	36	4	2393	4	CDH2	18	25593663	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10		25593663	52483585	75	12092											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9087220	9087220	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtgataggaacagttgttAagtccccagttctgcccaaa	11	10	11	9	0	1	1	0	1	1	0	2	2	2	2	3	2	2	3	3	2	4	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	9087220	A	G	9087220	3	3	224	1	0	0	0	0	1	0	0	0	9973	372	13	3	39264	3	MUC16	19	9087220	Missense_Mutation	SNP	A	TCGA-BP-4176-01A-02D-1366-10		9087220	50041763	76	12093											
ACP5	54	hgsc.bcm.edu	37	chr19	11685841	11685841	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcagggcctggctcgcCtcggcagcctggtcttaaag	6	9	14	12	2	2	0	1	0	1	0	4	1	2	0	3	4	1	3	3	4	2	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	11685841	C	T	11685841	3	4	224	1	0	0	0	0	1	0	0	0	164	681	24	2	19	2	ACP5	19	11685841	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	2598621	11685841	47443142	77	12094											
CCDC123	0	hgsc.bcm.edu	37	chr19	33444588	33444588	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcccgggcactgacaTcccccaattccttgccgctg	5	10	8	18	2	0	1	0	1	0	0	4	1	4	1	6	1	1	2	6	1	1	2	rs73035551	bycluster	TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	33444588	T	G	33444588	3	3	224	1	0	0	0	0	1	0	0	0	2759	1435	50	5	1990	5	CCDC123	19	33444588	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	21758747	33444588	25684395	78	12095											
COX6B1	1340	hgsc.bcm.edu;ucsc.edu	37	chr19	36142196	36142196	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactacaagaccgcccctttTgacagccgcttccccaacca	11	7	5	18	2	0	2	0	1	0	1	1	2	1	2	7	0	4	1	7	0	4	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	36142196	T	C	36142196	2	2	224	1	0	0	0	0	0	0	0	1	3776	1809	63	3		3	COX6B1	19	36142196	Silent	SNP	T	TCGA-BP-4176-01A-02D-1366-10	2697608	36142196	22986787	79	12096											
ZNF180	7733	hgsc.bcm.edu	37	chr19	45001361	45001361	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaggccttcgggggctctGggggcttctcatcctgctct	3	11	13	14	1	3	0	1	0	3	0	6	0	4	0	2	5	1	3	2	5	0	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	45001361	G	A	45001361	3	1	224	1	0	0	0	0	1	0	0	0	17747	1348	47	2	1987	2	ZNF180	19	45001361	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10	8859165	45001361	14127622	80	12097											
SIGLEC7	27036	hgsc.bcm.edu;ucsc.edu	37	chr19	51645785	51645785	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctcctacccagtggaCagccagactgactctgaccc	8	9	7	17	0	2	3	0	2	2	1	4	4	3	4	5	1	2	0	5	1	1	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	51645785	C	G	51645785	3	3	224	1	0	0	0	0	1	0	0	0	14315	477	17	4	161	4	SIGLEC7	19	51645785	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	6644424	51645785	7483198	81	12098											
ZNF667	63934	hgsc.bcm.edu;ucsc.edu	37	chr19	56953747	56953747	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctttgattgaagctttccCcacatttattgcattcatgg	8	18	6	9	0	2	2	1	2	1	0	3	2	3	2	2	1	2	2	2	1	2	8	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	56953747	C	G	56953747	3	3	224	1	0	0	0	0	1	0	0	0	18073	623	22	4	1219	4	ZNF667	19	56953747	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	5307962	56953747	2175236	82	12099											
ZNF134	7693	hgsc.bcm.edu	37	chr19	58132725	58132725	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaaggcctacagcttaagctCccacctcaatcggcaccaga	12	6	8	15	1	1	1	1	0	0	1	3	2	2	1	4	2	3	3	4	2	4	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	58132725	C	G	58132725	3	3	224	1	0	0	0	0	1	0	0	0	17723	855	30	4	1244	4	ZNF134	19	58132725	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	1178978	58132725	996258	83	12100											
TMX4	56255	hgsc.bcm.edu;ucsc.edu	37	chr20	7962956	7962956	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggagtcttccaccaccTctgtgtcagctgggcagggt	7	10	12	12	0	4	0	2	0	2	0	5	1	5	1	3	3	1	2	3	3	1	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		C	7962956	T	C	7962956	3	2	224	1	0	0	0	0	1	0	0	0	16268	1551	54	3	61	3	TMX4	20	7962956	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10		7962956	55062564	84	12101											
CSE1L	1434	hgsc.bcm.edu;ucsc.edu	37	chr20	47707554	47707554	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaaaacaaccaagtttaTcaagagtaagtaaaatcatc	19	10	4	8	0	2	1	2	0	0	1	4	1	3	1	2	0	2	3	2	0	9	5	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	47707554	T	A	47707554	3	1	224	1	0	0	0	0	1	0	0	0	3930	1435	50	5	2438	5	CSE1L	20	47707554	Missense_Mutation	SNP	T	TCGA-BP-4176-01A-02D-1366-10	39744598	47707554	15317966	85	12102											
BRWD1	54014	hgsc.bcm.edu;ucsc.edu	37	chr21	40571019	40571019	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttctgcacagacgttgatgGgccagcagttctgttacatg	8	13	11	9	1	2	2	0	1	2	1	2	2	2	2	1	1	3	5	1	1	1	4	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	40571019	G	T	40571019	3	4	224	1	0	0	0	0	1	0	0	0	1525	1232	43	4	1890	4	BRWD1	21	40571019	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10		40571019	7558876	86	12103											
FTCD	10841	hgsc.bcm.edu	37	chr21	47570414	47570414	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catccaggtaccagccaatgCcctgaactttcttcagacgt	10	10	7	14	1	2	2	1	1	1	1	3	2	3	2	4	1	4	1	4	1	3	3	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	47570414	C	G	47570414	3	3	224	1	0	0	0	0	1	0	0	0	6081	739	26	4	999	4	FTCD	21	47570414	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	6999395	47570414	559481	87	12104											
CLTCL1	8218	hgsc.bcm.edu	37	chr22	19220820	19220820	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggttttgaccaagtctcCgagctcctctgagcactcca	8	11	9	13	1	2	2	0	2	2	0	5	3	4	2	4	1	2	3	4	1	1	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		T	19220820	C	T	19220820	3	4	224	1	0	0	0	0	1	0	0	0	3567	661	23	1	3628	1	CLTCL1	22	19220820	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10		19220820	32083746	88	12105											
HDAC6	10013	hgsc.bcm.edu	37	chrX	48681739	48681739	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttgggggagccacgctggGccagactacctcagaggagg	8	6	17	10	1	1	2	1	0	0	2	1	4	1	4	3	5	2	2	3	5	1	2	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	48681739	G	A	48681739	3	1	224	1	0	0	0	0	1	0	0	0	7011	1203	42	2	3024	2	HDAC6	23	48681739	Missense_Mutation	SNP	G	TCGA-BP-4176-01A-02D-1366-10		48681739	106588821	89	12106											
CSTF2	1478	hgsc.bcm.edu	37	chrX	100088269	100088269	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagaggcccgtgcaatggaGgcccgtgcgatggaagctcg	8	7	16	10	4	0	1	0	0	0	1	1	4	0	3	2	4	3	2	2	4	3	1	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		A	100088269	G	A	100088269	2	1	224	1	0	0	0	0	0	0	0	1	3984	991	35	2		2	CSTF2	23	100088269	Silent	SNP	G	TCGA-BP-4176-01A-02D-1366-10	51406530	100088269	55182291	90	12107											
GPR112	139378	hgsc.bcm.edu;ucsc.edu	37	chrX	135432122	135432122	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcactactggcttcccaaCttctctccctatgtctataa	9	15	3	14	0	3	0	1	0	2	0	6	0	5	0	2	1	2	1	2	1	6	7	novel		TCGA-BP-4176-01A-02D-1366-10	TCGA-BP-4176-11A-01D-1366-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	33e2b6cb-7c03-4090-bef5-ba13f7271a19	1eba4efc-588d-4bd6-9a70-3dd29f262753		G	135432122	C	G	135432122	3	3	224	1	0	0	0	0	1	0	0	0	6629	565	20	4	6267	4	GPR112	23	135432122	Missense_Mutation	SNP	C	TCGA-BP-4176-01A-02D-1366-10	35343853	135432122	19838438	91	12108											
HSPG2	3339	hgsc.bcm.edu	37	chr1	22213976	22213976	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcgcagaggtagtctctggGgatgcagtgcccattgcggc	6	9	16	10	2	1	1	0	0	1	1	3	2	1	2	1	4	3	3	1	4	1	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	22213976	G	A	22213976	3	1	225	1	0	0	0	0	1	0	0	0	7430	1232	43	2	12640	2	HSPG2	1	22213976	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10		22213976	227036645	1	12109											
SLC27A3	11000	hgsc.bcm.edu	37	chr1	153750666	153750666	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaacgtggccataaggtccgGctggcagtgggcagcgggct	7	6	18	10	3	0	0	0	0	0	0	1	1	1	0	2	6	2	4	2	6	2	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	153750666	G	T	153750666	2	4	225	1	0	0	0	0	0	0	0	1	14529	1190	42	4		4	SLC27A3	1	153750666	Silent	SNP	G	TCGA-BP-4326-01A-01D-1366-10	131536690	153750666	95499955	2	12110											
SELE	6401	hgsc.bcm.edu	37	chr1	169701011	169701011	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccactgaagccagggtcaCacttgcaagtgtaattattg	11	11	10	9	0	1	1	1	1	0	0	2	1	2	1	2	1	2	2	2	1	4	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	169701011	C	A	169701011	3	1	225	1	0	0	0	0	1	0	0	0	14015	478	17	4	1378	4	SELE	1	169701011	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	15950345	169701011	79549610	3	12111											
SELE	6401	hgsc.bcm.edu;ucsc.edu	37	chr1	169701067	169701067	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgtggccactgcaggaTgtattggtacaggcagctac	9	9	12	11	1	1	0	1	0	0	0	1	1	1	1	2	4	4	5	2	4	3	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	169701067	T	C	169701067	2	2	225	1	0	0	0	0	0	0	0	1	14015	1451	51	3		3	SELE	1	169701067	Silent	SNP	T	TCGA-BP-4326-01A-01D-1366-10	56	169701067	79549554	4	12112											
TOR1AIP1	26092	hgsc.bcm.edu;ucsc.edu	37	chr1	179869288	179869288	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgtccaacagaaggtcaAtttctctgaagaaggtattt	13	12	9	7	0	2	3	1	1	1	2	4	3	3	3	1	2	1	1	1	2	6	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	179869288	A	G	179869288	3	3	225	1	0	0	0	0	1	0	0	0	16371	101	4	3	652	3	TOR1AIP1	1	179869288	Missense_Mutation	SNP	A	TCGA-BP-4326-01A-01D-1366-10	10168221	179869288	69381333	5	12113											
NR5A2	2494	hgsc.bcm.edu;ucsc.edu	37	chr1	200014705	200014705	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctaagtgttggaatgaaGctagaaggtaagattcttct	12	14	11	4	0	3	3	0	1	3	2	3	4	3	4	0	2	1	3	0	2	6	6	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	200014705	G	T	200014705	3	4	225	1	0	0	0	0	1	0	0	0	10636	962	34	4	470	4	NR5A2	1	200014705	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10	20145417	200014705	49235916	6	12114											
ATP6V1C2	245973	hgsc.bcm.edu;ucsc.edu	37	chr2	10923347	10923347	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaataaccaagactatttTccttatgtctacttccatat	12	16	2	11	0	2	1	1	0	1	1	4	1	4	1	3	0	2	0	3	0	7	8	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	10923347	T	C	10923347	2	2	225	1	0	0	0	0	0	0	0	1	1181	1780	62	3		3	ATP6V1C2	2	10923347	Silent	SNP	T	TCGA-BP-4326-01A-01D-1366-10		10923347	232276026	7	12115											
CAD	790	hgsc.bcm.edu;ucsc.edu	37	chr2	27449432	27449432	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaggctctctcgcagcTctgccctggccagtaaggcc	6	8	11	16	1	2	0	0	0	2	0	4	0	2	0	4	3	3	4	4	3	1	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	27449432	T	C	27449432	3	2	225	1	0	0	0	0	1	0	0	0	2565	1551	54	3	2125	3	CAD	2	27449432	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10	16526085	27449432	215749941	8	12116											
TMEM131	23505	hgsc.bcm.edu;ucsc.edu	37	chr2	98373848	98373848	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgttaccgaggaccgacTgcgacaaaacagaaagcgtc	13	6	12	10	4	0	1	0	0	0	1	1	5	0	2	2	2	4	1	2	2	4	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	98373848	T	C	98373848	5	2	225	1	0	0	0	0	0	0	1	0	16043	1594	55	3	289	3	TMEM131	2	98373848	Splice_Site	SNP	T	TCGA-BP-4326-01A-01D-1366-10	70924416	98373848	144825525	9	12117											
RALB	5899	hgsc.bcm.edu	37	chr2	121036308	121036308	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggtgatcatggttggcagcgGaggcgttggcaagtcagccc	7	8	17	9	2	2	1	2	1	0	0	2	2	2	2	1	6	2	4	1	6	1	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	121036308	G	C	121036308	3	2	225	1	0	0	0	0	1	0	0	0	13013	1174	41	4	70	4	RALB	2	121036308	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10	22662460	121036308	122163065	10	12118											
TTN	7273	hgsc.bcm.edu	37	chr2	179464025	179464025	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcactggagacatggaccCatgtcttcctgttagcttct	7	14	9	11	0	3	1	1	0	2	1	4	3	4	2	2	2	1	3	2	2	1	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	179464025	C	T	179464025	4	4	225	1	0	0	0	0	0	1	0	0	16734	595	21	2	51490	2	TTN	2	179464025	Nonsense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	58427717	179464025	63735348	11	12119											
NDUFS1	4719	ucsc.edu	37	chr2	207006752	207006758	+	Frame_Shift_Del	DEL	GCAATTG	GCAATTG	-																															catctgcctcttccacaccaGcaattgtagtattaagaaga																								novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	GCAATTG	GCAATTG	GCAATTG	-	GCAATTG	GCAATTG	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		-	207006758	GCAATTG	-	207006752	7	5	225	1	0	1	0	1	0	0	0	0	10291	971	34	0	1040	0	NDUFS1	2	207006752	Frame_Shift_Del	DEL	GCAATTG	TCGA-BP-4326-01A-01D-1366-10	27542727	207006752	36192621	12	12120											
CCDC108	255101	hgsc.bcm.edu	37	chr2	219875351	219875351	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggctgtgtcccccatcaTatgggggttgtagcccactc	5	11	13	12	0	1	0	1	0	0	0	3	0	2	0	3	4	1	3	3	4	2	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	219875351	T	A	219875351	3	1	225	1	0	0	0	0	1	0	0	0	2743	1406	49	5	1592	5	CCDC108	2	219875351	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10	12868599	219875351	23324022	13	12121											
ROPN1	54763	hgsc.bcm.edu	37	chr3	123694287	123694287	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcgatctcctccgtgaagCgacccacattcatcacacta	11	9	5	16	3	3	1	2	1	1	0	6	3	4	1	3	0	1	0	3	0	2	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	123694287	C	T	123694287	3	4	225	1	0	0	0	0	1	0	0	0	13525	768	27	1	315	1	ROPN1	3	123694287	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10		123694287	74328143	14	12122											
WDFY3	23001	hgsc.bcm.edu;ucsc.edu	37	chr4	85724467	85724467	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtgtcactgacccaacAgaggccagtaggtccagcat	10	7	12	12	0	1	2	1	1	0	1	2	2	2	2	3	3	2	3	3	3	2	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	85724467	A	T	85724467	2	4	225	1	0	0	0	0	0	0	0	1	17269	175	7	5		5	WDFY3	4	85724467	Silent	SNP	A	TCGA-BP-4326-01A-01D-1366-10		85724467	105429809	15	12123											
SPINK9	643394	hgsc.bcm.edu;ucsc.edu	37	chr5	147718053	147718053	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttcaggttgactgcagtCattataaaaagttaccacca	13	14	6	8	0	2	1	2	1	0	0	2	1	2	1	2	1	2	3	2	1	5	6	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	147718053	C	T	147718053	3	4	225	1	0	0	0	0	1	0	0	0	15067	826	29	2	110	2	SPINK9	5	147718053	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10		147718053	33197207	16	12124											
HRH2	3274	hgsc.bcm.edu;ucsc.edu	37	chr5	175111276	175111276	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagctccaggtgtggagtgGgacagaagtcacggcccccc	9	5	15	12	1	1	1	1	0	0	1	2	4	2	3	4	4	1	1	4	4	2	0	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	175111276	G	T	175111276	3	4	225	1	0	0	0	0	1	0	0	0	7356	1232	43	4	1042	4	HRH2	5	175111276	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10	27393223	175111276	5803984	17	12125											
SLC17A2	10246	hgsc.bcm.edu;ucsc.edu	37	chr6	25923943	25923943	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtatcaaattccttgaTggatatgctggagttattga	10	17	9	5	0	1	2	1	2	0	0	2	4	2	4	1	2	1	3	1	2	4	7	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	25923943	T	C	25923943	3	2	225	1	0	0	0	0	1	0	0	0	14419	1464	51	3	1126	3	SLC17A2	6	25923943	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10		25923943	145191124	18	12126											
EPDR1	54749	hgsc.bcm.edu	37	chr7	37960275	37960275	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcagaaggcagtggcagCaggcagtggcagcaggcagt	10	3	19	9	1	0	1	0	0	0	1	0	1	0	1	0	6	2	8	0	6	1	0	rs62443108	by1000genomes	TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	37960275	C	A	37960275	3	1	225	1	0	0	0	0	1	0	0	0	5163	711	25	4	96	4	EPDR1	7	37960275	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10		37960275	121178388	19	12127											
INHBA	3624	hgsc.bcm.edu	37	chr7	41729840	41729840	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcttgccctggtccagcAaccgctggatgctgctggag	6	9	13	13	1	1	0	0	0	1	0	2	2	2	2	3	3	6	5	3	3	1	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	41729840	A	G	41729840	3	3	225	1	0	0	0	0	1	0	0	0	7741	131	5	3	595	3	INHBA	7	41729840	Missense_Mutation	SNP	A	TCGA-BP-4326-01A-01D-1366-10	3769565	41729840	117408823	20	12128											
ZNF713	349075	hgsc.bcm.edu	37	chr7	55991394	55991394	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctggatactcatccaggTaagtgcacactcttgggcac	9	10	10	12	0	2	0	1	0	1	0	3	1	3	1	1	3	3	4	1	3	2	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	55991394	T	A	55991394	5	1	225	1	0	0	0	0	0	0	1	0	18116	1652	57	5	280	5	ZNF713	7	55991394	Splice_Site	SNP	T	TCGA-BP-4326-01A-01D-1366-10	14261554	55991394	103147269	21	12129											
ZNF92	168374	hgsc.bcm.edu;ucsc.edu	37	chr7	64852852	64852852	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggatgtgaaaatagaattctCtctagaggaatggcaatgcc	14	10	11	6	0	2	3	0	1	2	2	3	5	2	5	1	3	1	1	1	3	7	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	64852852	C	G	64852852	3	3	225	1	0	0	0	0	1	0	0	0	18200	913	32	4	47	4	ZNF92	7	64852852	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	8861458	64852852	94285811	22	12130											
SLC7A13	157724	hgsc.bcm.edu	37	chr8	87229702	87229702	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaaatccaattttaccttAtaaggtatagatagattggg	15	14	8	4	0	0	3	0	0	0	3	1	3	1	3	2	2	1	1	2	2	9	9	rs4546639	bycluster;byfrequency;by1000genomes	TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	87229702	A	G	87229702	2	3	225	1	0	0	0	0	0	0	0	1	14697	456	16	3		3	SLC7A13	8	87229702	Silent	SNP	A	TCGA-BP-4326-01A-01D-1366-10		87229702	59134320	23	12131											
PKHD1L1	93035	hgsc.bcm.edu	37	chr8	110530539	110530539	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgtttctttccaattaTctgttgcaacagaagatgac	11	17	6	7	0	2	3	0	1	2	2	3	3	3	3	1	0	2	3	1	0	5	6	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	110530539	T	C	110530539	3	2	225	1	0	0	0	0	1	0	0	0	11972	1435	50	3	12123	3	PKHD1L1	8	110530539	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10	23300837	110530539	35833483	24	12132											
ASAP1	50807	hgsc.bcm.edu;ucsc.edu	37	chr8	131130417	131130417	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacgataccagttttgtaCaaggaagtcaaccaaatgga	18	8	8	7	1	1	0	1	0	0	0	1	3	1	2	2	2	4	2	2	2	8	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	131130417	C	A	131130417	3	1	225	1	0	0	0	0	1	0	0	0	1010	478	17	4	1563	4	ASAP1	8	131130417	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	20599878	131130417	15233605	25	12133											
PTP4A3	11156	hgsc.bcm.edu;ucsc.edu	37	chr8	142437880	142437880	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtggcgctggcccttatTgagagcgggatgaagtacga	8	10	15	8	3	0	2	0	2	0	1	0	5	0	3	1	3	2	2	1	3	3	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	142437880	T	C	142437880	2	2	225	1	0	0	0	0	0	0	0	1	12774	1800	63	3		3	PTP4A3	8	142437880	Silent	SNP	T	TCGA-BP-4326-01A-01D-1366-10	11307463	142437880	3926142	26	12134											
TRPM6	140803	hgsc.bcm.edu	37	chr9	77436728	77436728	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccttccaccaccagcccCacgaccggcacgccttgtct	6	6	7	22	4	1	0	0	0	1	0	2	1	2	0	9	1	1	1	9	1	0	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	77436728	C	A	77436728	2	1	225	1	0	0	0	0	0	0	0	1	16589	581	21	4		4	TRPM6	9	77436728	Silent	SNP	C	TCGA-BP-4326-01A-01D-1366-10		77436728	63776703	27	12135											
ARHGAP21	57584	hgsc.bcm.edu;ucsc.edu	37	chr10	24886905	24886905	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgtattcttttattcttcGactaattagatccctgttag	8	20	6	7	1	2	1	0	0	2	1	4	2	3	1	1	0	0	3	1	0	5	10	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	24886905	G	A	24886905	4	1	225	1	0	0	0	0	0	1	0	0	871	1066	37	1	2758	1	ARHGAP21	10	24886905	Nonsense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10		24886905	110647842	28	12136											
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89653858	89653860	+	In_Frame_Del	DEL	TGT	TGT	-																															tacaggaacaatattgatgaTgtagtaaggtaagaatgctt																								novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	TGT	TGT	TGT	-	TGT	TGT	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		-	89653860	TGT	-	89653858	7	5	225	1	0	1	0	1	0	0	0	0	12740	1461	51	0	162	0	PTEN	10	89653858	In_Frame_Del	DEL	TGT	TCGA-BP-4326-01A-01D-1366-10	64766953	89653858	45880889	29	12137	177	2									
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89653859	89653861	+	In_Frame_Del	DEL	GTA	GTA	-																															acaggaacaatattgatgatGtagtaaggtaagaatgcttt																								novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	GTA	GTA	GTA	-	GTA	GTA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		-	89653861	GTA	-	89653859	7	5	225	1	0	1	0	1	0	0	0	0	12740	1377	48	0	163	0	PTEN	10	89653859	In_Frame_Del	DEL	GTA	TCGA-BP-4326-01A-01D-1366-10	1	89653859	45880888	30	12138	177	2									
ANO2	57101	hgsc.bcm.edu;ucsc.edu	37	chr12	5744453	5744453	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccttattgagagacagagCggctgcagttgttattcgat	10	12	12	7	2	0	3	0	1	0	2	1	5	0	3	1	1	3	4	1	1	2	5	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	5744453	C	T	5744453	3	4	225	1	0	0	0	0	1	0	0	0	697	768	27	1	1355	1	ANO2	12	5744453	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10		5744453	128107442	31	12139											
C1RL	51279	hgsc.bcm.edu	37	chr12	7249550	7249550	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtgtggcccaagaacaCattcacactctggttcttcc	8	11	9	13	0	3	1	1	0	2	1	4	1	4	1	2	3	1	2	2	3	2	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	7249550	C	A	7249550	3	1	225	1	0	0	0	0	1	0	0	0	1973	478	17	4	566	4	C1RL	12	7249550	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	1505097	7249550	126602345	32	12140											
PFKM	5213	hgsc.bcm.edu;ucsc.edu	37	chr12	48526705	48526705	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcgggaacgagaaggaCgactccgagctgcctacaac	12	6	11	12	4	0	1	0	0	0	1	2	6	1	3	2	2	5	1	2	2	4	2	rs138893744		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	48526705	C	T	48526705	4	4	225	1	0	0	0	0	0	1	0	0	11765	528	19	1	527	1	PFKM	12	48526705	Nonsense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	41277155	48526705	85325190	33	12141											
KRT77	374454	hgsc.bcm.edu	37	chr12	53086577	53086577	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctctgcctgcagcctctGgacggtgcggttgagctctg	4	11	14	12	2	3	1	0	1	3	0	4	3	3	2	2	3	5	3	2	3	0	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	53086577	G	T	53086577	3	4	225	1	0	0	0	0	1	0	0	0	8490	1357	47	4	584	4	KRT77	12	53086577	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10	4559872	53086577	80765318	34	12142											
DHX37	57647	hgsc.bcm.edu;ucsc.edu	37	chr12	125435249	125435249	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcggcacctttcatgtacatCttagtggtctccacgatttc	7	15	7	12	2	3	0	1	0	2	0	6	1	3	0	2	2	1	2	2	2	2	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	125435249	C	G	125435249	3	3	225	1	0	0	0	0	1	0	0	0	4510	912	32	4	527	4	DHX37	12	125435249	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	72348672	125435249	8416646	35	12143											
LATS2	26524	hgsc.bcm.edu;ucsc.edu	37	chr13	21557669	21557669	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtagagtttgaccacccactCattgtctgcctcggccagga	8	10	10	13	1	2	2	1	1	1	1	3	3	2	3	4	2	1	2	4	2	1	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	21557669	C	T	21557669	3	4	225	1	0	0	0	0	1	0	0	0	8647	835	29	2	1106	2	LATS2	13	21557669	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10		21557669	93612209	36	12144											
SLITRK1	114798	hgsc.bcm.edu;ucsc.edu	37	chr13	84453865	84453865	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaacccagtgctgtttttaCtgtgcgaagttaacgtgggc	8	12	11	10	2	0	0	0	0	0	0	0	1	0	0	2	1	5	3	2	1	4	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	84453865	C	A	84453865	3	1	225	1	0	0	0	0	1	0	0	0	14744	565	20	4	316	4	SLITRK1	13	84453865	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	62896196	84453865	30716013	37	12145											
IL25	64806	hgsc.bcm.edu	37	chr14	23844833	23844833	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacaagtgccgcccccacaGgttggacagagacttgaacc	11	6	11	13	1	0	3	0	2	0	1	0	5	0	4	4	2	2	1	4	2	2	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	23844833	G	A	23844833	5	1	225	1	0	0	0	0	0	0	1	0	7678	1014	35	2	297	2	IL25	14	23844833	Splice_Site	SNP	G	TCGA-BP-4326-01A-01D-1366-10		23844833	83504707	38	12146											
COCH	1690	hgsc.bcm.edu;ucsc.edu	37	chr14	31348659	31348659	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagtacacaggaggccacagGacaagcagtgtccacagcac	14	4	11	12	0	0	0	0	0	0	0	1	2	1	2	2	3	3	3	2	3	3	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	31348659	G	A	31348659	3	1	225	1	0	0	0	0	1	0	0	0	3656	1174	41	2	422	2	COCH	14	31348659	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10	7503826	31348659	76000881	39	12147											
DUOX1	53905	hgsc.bcm.edu	37	chr15	45436426	45436426	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcaagatccccaaggagtAtgacctggtatggctcagct	10	9	11	11	0	2	2	2	1	0	1	3	3	3	3	3	3	1	5	3	3	4	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	45436426	A	G	45436426	3	3	225	1	0	0	0	0	1	0	0	0	4800	449	16	3	2191	3	DUOX1	15	45436426	Missense_Mutation	SNP	A	TCGA-BP-4326-01A-01D-1366-10		45436426	57094966	40	12148											
TRIP4	9325	hgsc.bcm.edu;ucsc.edu	37	chr15	64717797	64717797	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctgtgtggacctaatTgactgcttgtcccagaagca	8	11	12	10	0	0	2	0	1	0	1	1	3	1	3	2	2	2	3	2	2	2	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	64717797	T	C	64717797	2	2	225	1	0	0	0	0	0	0	0	1	16557	1800	63	3		3	TRIP4	15	64717797	Silent	SNP	T	TCGA-BP-4326-01A-01D-1366-10	19281371	64717797	37813595	41	12149											
SH2D7	646892	hgsc.bcm.edu;ucsc.edu	37	chr15	78385103	78385103	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggattcatcacccgcaaGtaaggctgcttctacccaca	11	9	7	14	1	3	0	2	0	1	0	3	1	3	1	2	2	2	4	2	2	3	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	78385103	G	A	78385103	5	1	225	1	0	0	0	0	0	0	1	0	14241	1043	36	2	179	2	SH2D7	15	78385103	Splice_Site	SNP	G	TCGA-BP-4326-01A-01D-1366-10	13667306	78385103	24146289	42	12150											
TMC7	79905	hgsc.bcm.edu	37	chr16	19070743	19070743	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttgtgttgcagcctcaTcatgttttacttcattgcct	5	19	7	10	0	4	0	3	0	1	0	4	0	4	0	2	0	4	3	2	0	1	6	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	19070743	T	C	19070743	3	2	225	1	0	0	0	0	1	0	0	0	15989	1435	50	3	2091	3	TMC7	16	19070743	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10		19070743	71284010	43	12151											
NF1	4763	hgsc.bcm.edu;ucsc.edu	37	chr17	29670103	29670103	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggatcattttgttggacTcaatttcaactctaacttta	12	17	5	7	0	4	0	3	0	1	0	4	2	4	2	0	2	2	1	0	2	5	7	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	29670103	T	G	29670103	3	3	225	1	0	0	0	0	1	0	0	0	10356	1551	54	5	7390	5	NF1	17	29670103	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10		29670103	51525107	44	12152											
CWC25	54883	hgsc.bcm.edu;ucsc.edu	37	chr17	36959026	36959026	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccttagcatgcctctTgaggatgttcagtctctcct	6	15	7	13	0	4	1	2	1	2	0	7	2	6	2	3	1	2	2	3	1	1	3	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	36959026	T	C	36959026	3	2	225	1	0	0	0	0	1	0	0	0	4069	1821	63	3	195	3	CWC25	17	36959026	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10	7288923	36959026	44236184	45	12153											
KAT2A	2648	hgsc.bcm.edu	37	chr17	40269163	40269163	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcccatccttgatcaaggCcagagtcttgtgcttcctaa	8	11	8	14	1	2	2	1	1	1	1	4	2	4	2	5	1	1	1	5	1	2	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	40269163	C	A	40269163	3	1	225	1	0	0	0	0	1	0	0	0	7981	739	26	4	891	4	KAT2A	17	40269163	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	3310137	40269163	40926047	46	12154											
CPAMD8	27151	hgsc.bcm.edu;ucsc.edu	37	chr19	17068709	17068709	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcggggaagaaagtccTttttctcttctctgttctat	6	19	8	8	1	3	1	0	0	3	1	7	2	4	2	1	2	0	2	1	2	3	6	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	17068709	T	C	17068709	3	2	225	1	0	0	0	0	1	0	0	0	3795	1608	56	3	3523	3	CPAMD8	19	17068709	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10		17068709	42060274	47	12155											
ZNF550	162972	hgsc.bcm.edu;ucsc.edu	37	chr19	58067635	58067635	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccacaggtctccagcatcaCctctcggtacagggtcctct	7	9	8	17	1	4	0	1	0	3	0	7	0	5	0	4	3	2	2	4	3	1	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	58067635	C	T	58067635	3	4	225	1	0	0	0	0	1	0	0	0	17981	507	18	2	1062	2	ZNF550	19	58067635	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	40998926	58067635	1061348	48	12156											
COL20A1	57642	hgsc.bcm.edu	37	chr20	61929274	61929274	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtagcaagcggtctccTgaggctggctgtgctgcctg	4	12	14	11	1	2	1	0	1	2	0	3	1	2	1	2	3	4	5	2	3	2	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	61929274	T	A	61929274	3	1	225	1	0	0	0	0	1	0	0	0	3679	1580	55	5	101	5	COL20A1	20	61929274	Missense_Mutation	SNP	T	TCGA-BP-4326-01A-01D-1366-10		61929274	1096246	49	12157											
MRAP	56246	hgsc.bcm.edu	37	chr21	33684178	33684178	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaggagagctcctccacCttgcccctcgggggtttcca	6	8	11	16	2	0	1	0	0	0	1	4	3	3	1	6	3	2	2	6	3	0	2	rs17855143	bycluster;byfrequency;by1000genomes	TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	33684178	C	G	33684178	2	3	225	1	0	0	0	0	0	0	0	1	9753	668	24	4		4	MRAP	21	33684178	Silent	SNP	C	TCGA-BP-4326-01A-01D-1366-10		33684178	14445717	50	12158											
MYO18B	84700	hgsc.bcm.edu;ucsc.edu	37	chr22	26348307	26348307	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagtccaccgtggatcgagCcatcgtcagcaggcaggagg	10	5	14	12	3	1	0	1	0	0	0	4	3	2	2	3	4	2	2	3	4	0	0	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	26348307	C	A	26348307	3	1	225	1	0	0	0	0	1	0	0	0	10066	739	26	4	6034	4	MYO18B	22	26348307	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10		26348307	24956259	51	12159											
SMTN	6525	hgsc.bcm.edu	37	chr22	31496960	31496960	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgtgtacacgtacatccAggaattctaccgctgtctgg	8	11	11	11	3	2	0	0	0	2	0	3	1	3	1	2	2	4	3	2	2	4	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	31496960	A	G	31496960	3	3	225	1	0	0	0	0	1	0	0	0	14816	188	7	3	2767	3	SMTN	22	31496960	Missense_Mutation	SNP	A	TCGA-BP-4326-01A-01D-1366-10	5148653	31496960	19807606	52	12160											
KCNJ4	3761	hgsc.bcm.edu	37	chr22	38823945	38823945	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagccaggagacaaggaaggCcgcggagaagatcatgagca	15	2	16	8	2	1	4	1	1	0	3	1	8	1	5	2	4	2	1	2	4	3	0	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	38823945	C	T	38823945	3	4	225	1	0	0	0	0	1	0	0	0	8053	739	26	2	1148	2	KCNJ4	22	38823945	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	7326985	38823945	12480621	53	12161											
ZNF182	7569	hgsc.bcm.edu;ucsc.edu	37	chrX	47836677	47836677	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgagatttttggctaaaaGcttttccacattcggtacat	10	15	8	8	1	0	1	0	1	0	1	2	2	1	1	1	2	2	4	1	2	3	7	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		C	47836677	G	C	47836677	3	2	225	1	0	0	0	0	1	0	0	0	17749	971	34	4	1114	4	ZNF182	23	47836677	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10		47836677	107433883	54	12162											
FOXP3	50943	hgsc.bcm.edu	37	chrX	49113206	49113206	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacaggcctgggccactcActtgaggaagtcctctggct	7	8	13	13	0	2	1	1	1	1	0	3	2	3	2	3	5	0	2	3	5	1	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		T	49113206	A	T	49113206	5	4	225	1	0	0	0	0	0	0	1	0	6028	173	6	5	674	5	FOXP3	23	49113206	Splice_Site	SNP	A	TCGA-BP-4326-01A-01D-1366-10	1276529	49113206	106157354	55	12163											
CYLC1	1538	hgsc.bcm.edu;ucsc.edu	37	chrX	83128851	83128851	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgaatcaggagatgcaaagGatgcaagaaatgattcaaga	18	7	11	5	0	2	5	2	2	0	3	2	7	2	6	0	2	2	2	0	2	5	1	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	83128851	G	A	83128851	3	1	225	1	0	0	0	0	1	0	0	0	4141	1174	41	2	1149	2	CYLC1	23	83128851	Missense_Mutation	SNP	G	TCGA-BP-4326-01A-01D-1366-10	34015645	83128851	72141709	56	12164											
CAPN6	827	hgsc.bcm.edu	37	chrX	110494190	110494190	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttgttatagcagcctccTgagcggttcatcaggggatc	7	11	13	10	2	2	1	2	1	0	0	4	2	3	2	2	4	3	4	2	4	2	4	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	110494190	T	G	110494190	2	3	225	1	0	0	0	0	0	0	0	1	2630	1567	55	5		5	CAPN6	23	110494190	Silent	SNP	T	TCGA-BP-4326-01A-01D-1366-10	27365339	110494190	44776370	57	12165											
NKAP	79576	hgsc.bcm.edu;ucsc.edu	37	chrX	119059315	119059315	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatcagcactgtagatCtggttctcttttcgcagtcg	6	16	8	11	2	4	1	2	0	3	1	8	1	4	1	0	1	1	4	0	1	1	5	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		A	119059315	C	A	119059315	3	1	225	1	0	0	0	0	1	0	0	0	10439	912	32	4	135	4	NKAP	23	119059315	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	8565125	119059315	36211245	58	12166											
FLNA	2316	hgsc.bcm.edu	37	chrX	153593804	153593804	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtctccttcacccgcacacCcttgggctggaggccccggc	4	8	11	18	2	2	0	1	0	1	0	3	1	2	1	5	4	0	2	5	4	0	2	novel		TCGA-BP-4326-01A-01D-1366-10	TCGA-BP-4326-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a8e77f8d-f08e-4686-9a40-f5298529da15	fa112d8a-9ce9-4c3f-83ee-0c449f2fc9a9		G	153593804	C	G	153593804	3	3	225	1	0	0	0	0	1	0	0	0	5933	623	22	4	6619	4	FLNA	23	153593804	Missense_Mutation	SNP	C	TCGA-BP-4326-01A-01D-1366-10	34534489	153593804	1676756	59	12167											
PUM1	9698	hgsc.bcm.edu;ucsc.edu	37	chr1	31479895	31479895	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acccaggaatattccttttgGtccatctttgctggattcat	8	16	7	10	0	2	0	1	0	1	0	4	2	4	2	3	3	1	1	3	3	2	6	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	31479895	G	T	31479895	3	4	226	1	0	0	0	0	1	0	0	0	12827	1261	44	4	3155	4	PUM1	1	31479895	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10		31479895	217770726	1	12168											
AHCYL1	10768	hgsc.bcm.edu;ucsc.edu	37	chr1	110553923	110553923	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcagcaatttctgtgTgaagaacatcaagcaggcag	13	7	13	8	0	2	2	1	1	1	1	2	2	2	2	0	2	4	5	0	2	4	1	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	110553923	T	A	110553923	3	1	226	1	0	0	0	0	1	0	0	0	410	1696	59	5	330	5	AHCYL1	1	110553923	Missense_Mutation	SNP	T	TCGA-BP-4329-01A-02D-1366-10	79074028	110553923	138696698	2	12169											
NPR1	4881	hgsc.bcm.edu	37	chr1	153660245	153660246	+	Frame_Shift_Del	DEL	GT	GT	-																															tggggtcttccacgtggaagGtttggacctgagccccaaag																								novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		-	153660246	GT	-	153660245	7	5	226	1	0	1	0	1	0	0	0	0	10594	1261	44	0	2282	0	NPR1	1	153660245	Frame_Shift_Del	DEL	GT	TCGA-BP-4329-01A-02D-1366-10	43106322	153660245	95590376	3	12170											
FAM129A	116496	hgsc.bcm.edu	37	chr1	184764659	184764659	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgggctctttttcctcttCttcttcattttcttggggaa	4	20	7	10	0	6	0	1	0	5	0	7	1	7	1	1	3	0	1	1	3	1	8	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	184764659	C	T	184764659	3	4	226	1	0	0	0	0	1	0	0	0	5436	922	32	2	551	2	FAM129A	1	184764659	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	31104414	184764659	64485962	4	12171											
CR1	1378	hgsc.bcm.edu;ucsc.edu	37	chr1	207791580	207791580	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaatctggagccaattggatCattattgcaaaggtgactta	13	12	10	6	0	2	1	1	1	1	0	2	4	2	3	1	3	2	1	1	3	5	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		G	207791580	C	G	207791580	3	3	226	1	0	0	0	0	1	0	0	0	3840	826	29	4	7220	4	CR1	1	207791580	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	23026921	207791580	41459041	5	12172											
SMYD2	56950	hgsc.bcm.edu;ucsc.edu	37	chr1	214488133	214488133	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcccatgcacaagctggAatgttctcccatggttgttt	7	14	10	10	0	1	0	0	0	1	0	2	1	1	1	2	3	2	5	2	3	2	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	214488133	A	C	214488133	3	2	226	1	0	0	0	0	1	0	0	0	14824	246	9	5	276	5	SMYD2	1	214488133	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10	6696553	214488133	34762488	6	12173											
CENPF	1063	hgsc.bcm.edu	37	chr1	214815523	214815523	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcctcatgagttgtcaaCaagtcaaaacgacaatgcac	15	7	9	10	1	3	1	3	1	0	0	3	2	3	1	1	1	3	2	1	1	5	1	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	214815523	C	T	214815523	3	4	226	1	0	0	0	0	1	0	0	0	3231	478	17	2	3884	2	CENPF	1	214815523	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	327390	214815523	34435098	7	12174											
AFF3	3899	hgsc.bcm.edu	37	chr2	100623382	100623382	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atggcaggtggcctctcctgGgtctgaaggcccacctccac	6	8	12	15	0	2	1	0	1	2	0	4	1	3	1	5	5	0	1	5	5	1	0	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	100623382	G	A	100623382	2	1	226	1	0	0	0	0	0	0	0	1	358	1219	43	2		2	AFF3	2	100623382	Silent	SNP	G	TCGA-BP-4329-01A-02D-1366-10		100623382	142575991	8	12175											
RGPD5	84220	hgsc.bcm.edu	37	chr2	110602778	110602778	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acttaaacggcctgcttcggGaaatagaggcaaccaatgca	14	7	10	10	2	0	1	0	0	0	1	1	2	0	2	2	3	4	3	2	3	6	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	110602778	G	A	110602778	3	1	226	1	0	0	0	0	1	0	0	0	13291	1175	41	2	5219	2	RGPD5	2	110602778	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	9979396	110602778	132596595	9	12176											
R3HDM1	23518	hgsc.bcm.edu	37	chr2	136409444	136409444	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttatatcatgacagcagccCctccaccacatcctcctcca	10	9	4	18	0	1	1	1	1	0	0	5	1	5	1	7	0	2	2	7	0	2	2	rs112729561	alternate_allele	TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	136409444	C	T	136409444	3	4	226	1	0	0	0	0	1	0	0	0	12889	623	22	2	1823	2	R3HDM1	2	136409444	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	25806666	136409444	106789929	10	12177											
TNS1	7145	hgsc.bcm.edu;ucsc.edu	37	chr2	218673368	218673368	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagaaggtgacagtgttgAgagggtagtggcgtctgaaa	12	8	16	5	1	1	4	0	3	1	2	1	5	1	4	0	3	0	2	0	3	3	2	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	218673368	A	T	218673368	3	4	226	1	0	0	0	0	1	0	0	0	16342	304	11	5	231	5	TNS1	2	218673368	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10	82263924	218673368	24526005	11	12178											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188243	10188243	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggacacacgatgggcttcTggttaaccaaactgaattat	13	10	10	8	1	1	1	0	1	1	0	1	3	1	2	1	3	2	2	1	3	4	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	10188243	T	C	10188243	3	2	226	1	0	0	0	0	1	0	0	0	17161	1580	55	3	392	3	VHL	3	10188243	Missense_Mutation	SNP	T	TCGA-BP-4329-01A-02D-1366-10		10188243	187834187	12	12179											
SETD2	29072	hgsc.bcm.edu	37	chr3	47155365	47155365	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtaattaaaaaagaacttaCgaaggaaggtctttggcagc	16	9	11	5	1	1	1	0	0	1	1	1	3	1	2	0	4	3	2	0	4	8	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	47155365	C	T	47155365	5	4	226	1	0	0	0	0	0	0	1	0	14133	550	19	1	3046	1	SETD2	3	47155365	Splice_Site	SNP	C	TCGA-BP-4329-01A-02D-1366-10	36967122	47155365	150867065	13	12180											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52712580	52712580	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcatccttatagtctcGgatggtattatagagttcat	9	17	8	7	1	3	1	2	0	1	1	5	2	4	2	1	2	0	3	1	2	5	7	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	52712580	G	A	52712580	4	1	226	1	0	0	0	0	0	1	0	0	11491	1124	39	1	4844	1	PBRM1	3	52712580	Nonsense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	5557215	52712580	145309850	14	12181											
SLC41A3	54946	hgsc.bcm.edu;ucsc.edu	37	chr3	125725333	125725333	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgttgagtgcagatgaaggGttgtatgaggccccatcctg	9	11	14	7	0	0	4	0	3	0	1	1	4	1	4	3	2	1	4	3	2	2	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	125725333	G	T	125725333	3	4	226	1	0	0	0	0	1	0	0	0	14633	1261	44	4	86	4	SLC41A3	3	125725333	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	73012753	125725333	72297097	15	12182											
RPL22L1	200916	hgsc.bcm.edu;ucsc.edu	37	chr3	170584200	170584200	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgattcatcttcatctTgactaatctggaagtaacga	12	14	6	9	1	6	2	2	2	4	0	6	4	6	3	0	1	1	1	0	1	3	5	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	170584200	T	A	170584200	3	1	226	1	0	0	0	0	1	0	0	0	13571	1812	63	5	34	5	RPL22L1	3	170584200	Missense_Mutation	SNP	T	TCGA-BP-4329-01A-02D-1366-10	44858867	170584200	27438230	16	12183											
STAP1	26228	hgsc.bcm.edu;ucsc.edu	37	chr4	68436805	68436805	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtttctttcccacaggagTatgagcattactggacagag	10	12	11	8	0	1	2	0	1	1	1	2	4	2	4	1	3	2	3	1	3	2	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	68436805	T	A	68436805	3	1	226	1	0	0	0	0	1	0	0	0	15253	1638	57	5	130	5	STAP1	4	68436805	Missense_Mutation	SNP	T	TCGA-BP-4329-01A-02D-1366-10		68436805	122717471	17	12184											
HELQ	113510	hgsc.bcm.edu	37	chr4	84350864	84350864	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaccaaaaaatgtaccattCatgaaatgatagatgtcatc	18	10	5	8	0	2	3	2	2	0	1	3	3	2	3	2	0	1	1	2	0	6	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	84350864	C	T	84350864	3	4	226	1	0	0	0	0	1	0	0	0	7047	826	29	2	1002	2	HELQ	4	84350864	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	15914059	84350864	106803412	18	12185											
HPGDS	27306	hgsc.bcm.edu;ucsc.edu	37	chr4	95229888	95229888	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccatttctgtgtttccaGccaaatctgtggaatagaga	10	14	9	8	0	2	1	0	0	2	1	4	3	4	2	3	1	1	2	3	1	3	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	95229888	G	A	95229888	3	1	226	1	0	0	0	0	1	0	0	0	7335	971	34	2	378	2	HPGDS	4	95229888	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	10879024	95229888	95924388	19	12186											
MMAA	166785	hgsc.bcm.edu;ucsc.edu	37	chr4	146560425	146560425	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatgtgctcagccgtttaAttctcttggactccattgta	7	15	7	12	1	2	0	1	0	1	0	4	1	3	1	3	1	2	3	3	1	2	6	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	146560425	A	C	146560425	3	2	226	1	0	0	0	0	1	0	0	0	9639	101	4	5	136	5	MMAA	4	146560425	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10	51330537	146560425	44593851	20	12187											
ZDHHC11	79844	hgsc.bcm.edu;ucsc.edu	37	chr5	819652	819653	+	Frame_Shift_Ins	INS	-	-	C																															aacttacctgtgccatcgagINScccccgtctgggtgtacacg																								novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	819653	-	C	819652	7	5	226	1	0	1	1	0	0	0	0	0	17600	958	34	0	116	0	ZDHHC11	5	819652	Frame_Shift_Ins	INS	-	TCGA-BP-4329-01A-02D-1366-10		819652	180095608	21	12188											
CPLX2	10814	hgsc.bcm.edu	37	chr5	175306957	175306957	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccatccctgcgggctGcggggacgaggaggaggagg	8	3	21	9	3	0	0	0	0	0	0	1	6	1	4	2	8	2	1	2	8	1	0	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	175306957	G	A	175306957	3	1	226	1	0	0	0	0	1	0	0	0	3805	1319	46	2	324	2	CPLX2	5	175306957	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	174487305	175306957	5608303	22	12189											
MAPK9	5601	hgsc.bcm.edu	37	chr5	179676014	179676014	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggatgacttcgggcgccCggtagtaccgtgtcaccacg	7	7	13	14	5	1	1	1	1	0	0	2	2	1	2	4	3	1	2	4	3	2	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	179676014	C	T	179676014	3	4	226	1	0	0	0	0	1	0	0	0	9287	652	23	1	849	1	MAPK9	5	179676014	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	4369057	179676014	1239246	23	12190											
RIOK1	83732	hgsc.bcm.edu;ucsc.edu	37	chr6	7405162	7405162	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcccataggtaccacggtgGaggcgtgtatatcattgacg	9	9	14	9	3	1	1	1	1	0	0	1	2	1	2	2	5	1	2	2	5	4	5	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	7405162	G	T	7405162	3	4	226	1	0	0	0	0	1	0	0	0	13379	1174	41	4	1046	4	RIOK1	6	7405162	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10		7405162	163709905	24	12191											
UBAP2	55833	hgsc.bcm.edu	37	chr9	33986810	33986810	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttgtccacttgattgcaAtcaattccattttcttcacc	8	17	5	11	0	3	1	2	1	1	0	5	1	5	1	3	1	1	2	3	1	2	7	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	33986810	A	T	33986810	3	4	226	1	0	0	0	0	1	0	0	0	16836	98	4	5	2987	5	UBAP2	9	33986810	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10		33986810	107226621	25	12192											
RORB	6096	hgsc.bcm.edu;ucsc.edu	37	chr9	77282715	77282715	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcctttataggttctgatGacctagtgaatgaagcattt	10	16	8	7	0	1	4	0	4	1	0	2	4	2	4	2	1	1	2	2	1	5	7	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	77282715	G	A	77282715	3	1	226	1	0	0	0	0	1	0	0	0	13531	1290	45	2	1039	2	RORB	9	77282715	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	43295905	77282715	63930716	26	12193											
GLE1	2733	hgsc.bcm.edu	37	chr9	131267089	131267089	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccttagccaaccatgcCgtctgagggtcgctgctggg	5	9	13	14	2	1	1	0	1	1	0	2	1	1	1	5	2	5	2	5	2	2	1	rs150246404	byfrequency	TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		G	131267089	C	G	131267089	3	3	226	1	0	0	0	0	1	0	0	0	6435	652	23	4	7	4	GLE1	9	131267089	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	53984374	131267089	9946342	27	12194											
NOTCH1	4851	hgsc.bcm.edu	37	chr9	139399349	139399349	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacgttggtgtgcagcacGcggctgagctcccgcaggaa	8	6	14	13	4	0	1	0	1	0	0	1	2	1	2	2	3	3	6	2	3	1	1	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	139399349	G	A	139399349	2	1	226	1	0	0	0	0	0	0	0	1	10547	1074	38	1		1	NOTCH1	9	139399349	Silent	SNP	G	TCGA-BP-4329-01A-02D-1366-10	8132260	139399349	1814082	28	12195											
SFXN4	119559	hgsc.bcm.edu;ucsc.edu	37	chr10	120900791	120900791	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagatttctgtttcttctGttggagactgaattttctct	9	19	7	6	0	4	3	0	1	4	2	5	4	4	3	0	1	0	2	0	1	3	6	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	120900791	G	C	120900791	3	2	226	1	0	0	0	0	1	0	0	0	14199	1377	48	4	40	4	SFXN4	10	120900791	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10		120900791	14633956	29	12196											
ECHS1	1892	hgsc.bcm.edu;ucsc.edu	37	chr10	135179506	135179506	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactgattctttggccatcGctactacaattttagaattg	10	16	6	9	1	2	2	1	1	1	1	3	2	2	2	1	1	2	1	1	1	5	7	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	135179506	G	T	135179506	3	4	226	1	0	0	0	0	1	0	0	0	4896	1087	38	4	171	4	ECHS1	10	135179506	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	14278715	135179506	355241	30	12197											
LRRC55	219527	hgsc.bcm.edu	37	chr11	56950122	56950122	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccatggaacccctgctgaAgtggctgcgaaaccggatcc	10	6	11	14	2	0	1	0	1	0	0	1	4	1	3	5	3	4	2	5	3	3	0	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	56950122	A	C	56950122	3	2	226	1	0	0	0	0	1	0	0	0	9011	72	3	5	757	5	LRRC55	11	56950122	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10		56950122	78056394	31	12198											
PDZRN4	29951	hgsc.bcm.edu	37	chr12	41966392	41966392	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgaacttcagtacaatgAgagcctcgtatctggtgaat	11	13	10	7	1	2	3	1	3	1	1	3	4	2	3	1	1	3	3	1	1	5	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	41966392	A	T	41966392	3	4	226	1	0	0	0	0	1	0	0	0	11710	304	11	5	1922	5	PDZRN4	12	41966392	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10		41966392	91885503	32	12199											
OAS3	4940	hgsc.bcm.edu;ucsc.edu	37	chr12	113405908	113405908	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccgccagctctgtatctaCtggaccatcaactacaacgc	11	9	6	15	2	3	0	1	0	2	0	3	1	3	1	3	1	6	2	3	1	6	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		G	113405908	C	G	113405908	4	3	226	1	0	0	0	0	0	1	0	0	10801	576	20	4	3087	4	OAS3	12	113405908	Nonsense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	71439516	113405908	20445987	33	12200											
MAP4K5	11183	hgsc.bcm.edu;ucsc.edu	37	chr14	50952347	50952348	+	Frame_Shift_Del	DEL	AT	AT	-																															acagtattccatacaaatccAtagtttttcccgactaatac																								novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		-	50952348	AT	-	50952347	7	5	226	1	0	1	0	1	0	0	0	0	9263	217	8	0	2381	0	MAP4K5	14	50952347	Frame_Shift_Del	DEL	AT	TCGA-BP-4329-01A-02D-1366-10		50952347	56397193	34	12201											
SGK269	0	hgsc.bcm.edu;ucsc.edu	37	chr15	77407312	77407312	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgctgggccagagagtctCgcacaaaatcagccacagta	13	6	10	12	1	2	1	1	0	1	1	3	2	2	1	2	1	2	3	2	1	3	1	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	77407312	C	T	77407312	3	4	226	1	0	0	0	0	1	0	0	0	14213	884	31	1	817	1	SGK269	15	77407312	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10		77407312	25124080	35	12202											
RASGRF1	5923	hgsc.bcm.edu;ucsc.edu	37	chr15	79317727	79317727	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagaaaacaggaagcactGtcgctcgccctctttcttta	10	12	7	12	2	2	1	0	0	2	1	4	2	2	2	1	1	2	2	1	1	5	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	79317727	G	C	79317727	3	2	226	1	0	0	0	0	1	0	0	0	13074	1386	48	4	2426	4	RASGRF1	15	79317727	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	1910415	79317727	23213665	36	12203											
GLG1	2734	hgsc.bcm.edu;ucsc.edu	37	chr16	74506246	74506246	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcctccagacatcacttaCgtggcagaagttctgaatta	11	11	8	11	1	2	3	1	1	1	2	4	3	4	3	2	1	1	3	2	1	4	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	74506246	C	T	74506246	5	4	226	1	0	0	0	0	0	0	1	0	6436	550	19	1	1555	1	GLG1	16	74506246	Splice_Site	SNP	C	TCGA-BP-4329-01A-02D-1366-10		74506246	15848507	37	12204											
PKD1L2	114780	hgsc.bcm.edu;ucsc.edu	37	chr16	81232574	81232574	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcagtttctgggtttcTctgtccaggatcagattgta	7	15	9	10	0	4	1	2	0	2	1	6	2	5	2	2	2	0	3	2	2	1	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	81232574	T	C	81232574	2	2	226	1	0	0	0	0	0	0	0	1	11965	1548	54	3		3	PKD1L2	16	81232574	Silent	SNP	T	TCGA-BP-4329-01A-02D-1366-10	6726328	81232574	9122179	38	12205											
GALNS	2588	hgsc.bcm.edu;ucsc.edu	37	chr16	88908325	88908325	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtttctggcatgggcgttgGtggtgtagaagccattgcgg	5	12	17	7	3	1	1	0	0	1	1	1	1	1	1	1	5	2	4	1	5	2	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	88908325	G	T	88908325	3	4	226	1	0	0	0	0	1	0	0	0	6206	1261	44	4	1317	4	GALNS	16	88908325	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	7675751	88908325	1446428	39	12206											
SLC46A1	113235	hgsc.bcm.edu;ucsc.edu	37	chr17	26727778	26727778	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggccacagcagaaaagaGagcacctgtgaagaaataaa	20	3	10	8	0	0	4	0	1	0	3	0	5	0	4	2	1	2	2	2	1	6	1	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	26727778	G	T	26727778	3	4	226	1	0	0	0	0	1	0	0	0	14646	942	33	4	217	4	SLC46A1	17	26727778	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10		26727778	54467432	40	12207											
B4GALNT2	124872	hgsc.bcm.edu	37	chr17	47246988	47246988	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggactcagaactggctgcCctagagaagacctacaatac	13	7	10	11	0	1	3	1	0	0	3	1	5	1	4	2	2	4	1	2	2	6	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	47246988	C	A	47246988	2	1	226	1	0	0	0	0	0	0	0	1	1267	610	22	4		4	B4GALNT2	17	47246988	Silent	SNP	C	TCGA-BP-4329-01A-02D-1366-10	20519210	47246988	33948222	41	12208											
GRB2	2885	hgsc.bcm.edu	37	chr17	73316550	73316550	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtctgagttatccatgaCatggataaaatctccccggc	10	10	11	10	1	2	2	0	2	2	0	4	3	3	3	3	4	0	1	3	4	3	2	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	73316550	C	T	73316550	3	4	226	1	0	0	0	0	1	0	0	0	6758	478	17	2	104	2	GRB2	17	73316550	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10	26069562	73316550	7878660	42	12209											
DTNA	1837	hgsc.bcm.edu	37	chr18	32431802	32431802	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatattttacagcagccacCtcagcagagaagtgctcctg	12	9	8	12	0	1	1	1	0	0	1	2	2	2	1	3	0	5	3	3	0	3	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	32431802	C	T	32431802	3	4	226	1	0	0	0	0	1	0	0	0	4788	681	24	2	1450	2	DTNA	18	32431802	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10		32431802	45645446	43	12210											
HAUS1	115106	hgsc.bcm.edu;ucsc.edu	37	chr18	43708041	43708041	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtatgtctttcttcctgtagGatagcattgaagctgaactt	9	16	9	7	0	2	2	0	2	2	0	3	3	3	3	1	1	3	4	1	1	5	7	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		A	43708041	G	A	43708041	3	1	226	1	0	0	0	0	1	0	0	0	6965	1188	41	2	821	2	HAUS1	18	43708041	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	11276239	43708041	34369207	44	12211											
CNDP1	84735	hgsc.bcm.edu;ucsc.edu	37	chr18	72234508	72234508	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatcattgaggggatggAagaggctggctctgttgccc	8	11	14	8	0	3	2	2	1	1	1	3	4	3	4	1	5	1	3	1	5	1	3	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		G	72234508	A	G	72234508	3	3	226	1	0	0	0	0	1	0	0	0	3593	246	9	3	618	3	CNDP1	18	72234508	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10	28526467	72234508	5842740	45	12212											
AP3D1	8943	hgsc.bcm.edu;ucsc.edu	37	chr19	2121803	2121803	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccaggcactgcaggatgAggtccttgtgggactgcacg	7	8	15	11	2	0	1	0	1	0	0	2	3	2	3	2	4	2	3	2	4	0	1	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		G	2121803	A	G	2121803	3	3	226	1	0	0	0	0	1	0	0	0	746	304	11	3	2664	3	AP3D1	19	2121803	Missense_Mutation	SNP	A	TCGA-BP-4329-01A-02D-1366-10		2121803	57007180	46	12213											
ICAM1	3383	hgsc.bcm.edu	37	chr19	10394734	10394734	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgactcccccacaactTgtcagcccccgggtcctaga	8	6	8	19	2	1	1	1	0	0	1	3	2	3	1	6	1	3	0	6	1	2	2	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		C	10394734	T	C	10394734	2	2	226	1	0	0	0	0	0	0	0	1	7479	1799	63	3		3	ICAM1	19	10394734	Silent	SNP	T	TCGA-BP-4329-01A-02D-1366-10	8272931	10394734	48734249	47	12214											
NFKBIB	4793	hgsc.bcm.edu	37	chr19	39390845	39390845	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggctacgtcactgaggatgGggacacgtgagtgaacctta	10	8	14	9	3	1	3	1	3	0	0	1	5	1	5	1	4	2	1	1	4	3	2	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	39390845	G	T	39390845	3	4	226	1	0	0	0	0	1	0	0	0	10378	1232	43	4	175	4	NFKBIB	19	39390845	Missense_Mutation	SNP	G	TCGA-BP-4329-01A-02D-1366-10	28996111	39390845	19738138	48	12215											
SEC14L4	284904	hgsc.bcm.edu;ucsc.edu	37	chr22	30888522	30888522	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgacttgaccaagttgaaGgccacggggaacagttttgg	12	8	13	8	2	0	2	0	2	0	0	0	4	0	3	2	4	2	2	2	4	4	4	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	30888522	G	T	30888522	2	4	226	1	0	0	0	0	0	0	0	1	13986	987	35	4		4	SEC14L4	22	30888522	Silent	SNP	G	TCGA-BP-4329-01A-02D-1366-10		30888522	20416044	49	12216											
OGT	8473	hgsc.bcm.edu;ucsc.edu	37	chrX	70776831	70776831	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctttgctgatgcctactCtaatatgggaaacactctaa	12	13	6	10	0	2	1	0	1	2	0	2	2	2	2	2	1	5	1	2	1	6	6	novel		TCGA-BP-4329-01A-02D-1366-10	TCGA-BP-4329-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	755f62a8-13ea-4def-b5b6-14b536c56ec2	bf401206-d93e-41a9-9daf-42e565f5307d		T	70776831	C	T	70776831	3	4	226	1	0	0	0	0	1	0	0	0	10847	913	32	2	1234	2	OGT	23	70776831	Missense_Mutation	SNP	C	TCGA-BP-4329-01A-02D-1366-10		70776831	84493729	50	12217											
PRAMEF12	390999	hgsc.bcm.edu	37	chr1	12837331	12837331	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctgctggagcaagctgaGgccaccctgcagaccctgga	8	7	13	13	0	1	2	0	1	1	1	1	4	1	4	3	3	4	5	3	3	1	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	12837331	G	T	12837331	3	4	227	1	0	0	0	0	1	0	0	0	12430	991	35	4	1051	4	PRAMEF12	1	12837331	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10		12837331	236413290	1	12218											
PRAMEF12	390999	hgsc.bcm.edu	37	chr1	12837664	12837664	+	Silent	SNP	C	C	T																															agcactgtcccctgccctcgCtgtggcatcagggcctccta																								novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	12837664	C	T	12837664	2	4	227	1	0	0	0	0	0	0	0	1	12430	784	28	2		2	PRAMEF12	1	12837664	Silent	SNP	C	TCGA-BP-4330-01A-01D-1366-10	333	12837664	236412957	2	12219	178	2									
PRAMEF12	390999	hgsc.bcm.edu	37	chr1	12837669	12837669	+	Missense_Mutation	SNP	G	G	T																															tgtcccctgccctcgctgtgGcatcagggcctcctatgacc																								novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	12837669	G	T	12837669	3	4	227	1	0	0	0	0	1	0	0	0	12430	1203	42	4	1389	4	PRAMEF12	1	12837669	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10	5	12837669	236412952	3	12220	178	2									
LIX1L	128077	hgsc.bcm.edu	37	chr1	145497422	145497422	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaagctgacaacccaaaTacagggattggtgccttccg	12	7	12	10	1	0	1	0	1	0	0	1	4	1	3	3	3	4	1	3	3	4	3	rs189730184	by1000genomes	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	145497422	T	A	145497422	3	1	227	1	0	0	0	0	1	0	0	0	8832	1403	49	5	641	5	LIX1L	1	145497422	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	132659753	145497422	103753199	4	12221											
COPA	1314	hgsc.bcm.edu;ucsc.edu	37	chr1	160261203	160261203	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtcttgaagttcttgagCttgaagaacagattgagggc	10	12	13	6	0	2	6	0	4	2	2	2	6	2	6	0	1	2	3	0	1	3	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	160261203	C	A	160261203	3	1	227	1	0	0	0	0	1	0	0	0	3727	796	28	4	344	4	COPA	1	160261203	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10	14763781	160261203	88989418	5	12222											
OR14I1	401994	hgsc.bcm.edu;ucsc.edu	37	chr1	248845202	248845202	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatagcaccctcctgatGtcatcacggctctgtattgg	7	13	9	12	1	4	2	2	2	2	0	5	2	5	2	2	2	1	3	2	2	2	3	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	248845202	G	A	248845202	3	1	227	1	0	0	0	0	1	0	0	0	10947	1377	48	2	535	2	OR14I1	1	248845202	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10	88583999	248845202	405419	6	12223											
FEZ2	9637	hgsc.bcm.edu	37	chr2	36785599	36785599	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actttttgttaatatttgaaGatcttcaacagacggtggtc	11	16	8	6	1	2	3	1	1	1	2	3	3	2	3	0	2	1	1	0	2	4	6	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	36785599	G	A	36785599	3	1	227	1	0	0	0	0	1	0	0	0	5824	942	33	2	112	2	FEZ2	2	36785599	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10		36785599	206413774	7	12224											
EBLN2	55096	hgsc.bcm.edu;ucsc.edu	37	chr3	73111546	73111546	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatattaaggacattaaaaAagcagccaagtctatgctag	17	9	9	6	0	1	0	0	0	1	0	1	2	1	2	1	2	3	2	1	2	8	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	73111546	A	G	73111546	3	3	227	1	0	0	0	0	1	0	0	0	4884	14	1	3	316	3	EBLN2	3	73111546	Missense_Mutation	SNP	A	TCGA-BP-4330-01A-01D-1366-10		73111546	124910884	8	12225											
ARHGAP31	57514	hgsc.bcm.edu	37	chr3	119133102	119133102	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtaggaggcccaggcAatctgtctcctccactccca	9	8	10	14	0	2	0	0	0	2	0	5	2	4	2	4	4	0	2	4	4	3	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	119133102	A	C	119133102	3	2	227	1	0	0	0	0	1	0	0	0	880	130	5	5	2372	5	ARHGAP31	3	119133102	Missense_Mutation	SNP	A	TCGA-BP-4330-01A-01D-1366-10	46021556	119133102	78889328	9	12226											
GPR149	344758	hgsc.bcm.edu	37	chr3	154146465	154146465	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttttgtaagcgctaggaTcaaagcgaagcgcttctgcg	10	10	12	9	4	2	0	1	0	1	0	2	3	2	1	0	1	4	3	0	1	4	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	154146465	T	C	154146465	3	2	227	1	0	0	0	0	1	0	0	0	6654	1435	50	3	1271	3	GPR149	3	154146465	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	35013363	154146465	43875965	10	12227											
MEPE	56955	hgsc.bcm.edu;ucsc.edu	37	chr4	88755919	88755919	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtgacctgggcagcacCagtaagtatttacaaattca	13	10	9	9	0	1	1	1	1	0	0	1	1	1	1	2	1	2	4	2	1	4	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	88755919	C	G	88755919	3	3	227	1	0	0	0	0	1	0	0	0	9478	608	21	4	55	4	MEPE	4	88755919	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10		88755919	102398357	11	12228											
TTC29	83894	hgsc.bcm.edu	37	chr4	147724797	147724797	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagctctactgttgtgtcaAaagcttgctgaaagcattca	11	14	8	8	0	3	1	2	1	1	0	3	1	3	1	0	0	5	5	0	0	5	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	147724797	A	C	147724797	3	2	227	1	0	0	0	0	1	0	0	0	16695	14	1	5	297	5	TTC29	4	147724797	Missense_Mutation	SNP	A	TCGA-BP-4330-01A-01D-1366-10	58968878	147724797	43429479	12	12229											
DAB2	1601	hgsc.bcm.edu;ucsc.edu	37	chr5	39381655	39381655	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctgtgggtgacgcctGgcctgaaggttctgagacgg	5	11	16	9	2	1	3	0	3	1	1	2	4	2	3	3	4	0	1	3	4	1	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	39381655	G	A	39381655	4	1	227	1	0	0	0	0	0	1	0	0	4218	1357	47	2	923	2	DAB2	5	39381655	Nonsense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10		39381655	141533605	13	12230											
ERCC8	1161	hgsc.bcm.edu;ucsc.edu	37	chr5	60183307	60183307	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatataaggatggaaccCaagccagaatgttgcagtct	13	10	10	8	0	2	1	1	0	1	1	2	3	2	3	2	2	3	3	2	2	5	4	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	60183307	C	T	60183307	4	4	227	1	0	0	0	0	0	1	0	0	5219	595	21	2	116	2	ERCC8	5	60183307	Nonsense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10	20801652	60183307	120731953	14	12231											
CDKL3	51265	hgsc.bcm.edu;ucsc.edu	37	chr5	133655130	133655130	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgaacttgaggaagaacTaccccagcaaaaatggggct	14	8	11	8	0	0	3	0	2	0	1	0	4	0	4	2	3	4	3	2	3	6	3	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	133655130	T	C	133655130	2	2	227	1	0	0	0	0	0	0	0	1	3155	1509	53	3		3	CDKL3	5	133655130	Silent	SNP	T	TCGA-BP-4330-01A-01D-1366-10	73471823	133655130	47260130	15	12232											
NDFIP1	80762	hgsc.bcm.edu	37	chr5	141517333	141517333	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggattgggtttttcctGtctttttgcctgaccacttc	5	18	8	10	0	1	1	0	1	1	0	3	2	2	2	3	2	2	1	3	2	1	6	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	141517333	G	T	141517333	2	4	227	1	0	0	0	0	0	0	0	1	10245	1364	48	4		4	NDFIP1	5	141517333	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10	7862203	141517333	39397927	16	12233											
MSH5	4439	hgsc.bcm.edu	37	chr6	31729359	31729359	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagccttgttcagctacaActgctgccacaagggcccct	8	9	9	15	0	1	1	1	1	0	0	1	1	1	1	4	1	6	3	4	1	3	3	rs80093443	bycluster	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	31729359	A	G	31729359	2	3	227	1	0	0	0	0	0	0	0	1	9873	40	2	3		3	MSH5	6	31729359	Silent	SNP	A	TCGA-BP-4330-01A-01D-1366-10		31729359	139385708	17	12234											
HLA-DQB1	3119	hgsc.bcm.edu	37	chr6	32634350	32634350	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagttgctacccgaaggTctccggggatccgcaaagcc	9	7	12	13	3	1	1	0	1	1	0	3	3	2	2	4	3	3	3	4	3	3	2	rs76331164		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	32634350	T	C	32634350	3	2	227	1	0	0	0	0	1	0	0	0	7206	1667	58	3	770	3	HLA-DQB1	6	32634350	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	904991	32634350	138480717	18	12235											
MICALL2	79778	hgsc.bcm.edu	37	chr7	1480280	1480280	+	Silent	SNP	C	C	T																															agattcgctctccatcctgcCggcccgtcctcctggccttc																								rs58636013	bycluster;byfrequency;by1000genomes	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	1480280	C	T	1480280	2	4	227	1	0	0	0	0	0	0	0	1	9574	639	23	1		1	MICALL2	7	1480280	Silent	SNP	C	TCGA-BP-4330-01A-01D-1366-10		1480280	157658383	19	12236	179	2									
MICALL2	79778	hgsc.bcm.edu	37	chr7	1480286	1480286	+	Silent	SNP	G	G	A																															gctctccatcctgccggcccGtcctcctggccttcctggag																								rs61741872	bycluster;byfrequency;by1000genomes	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	1480286	G	A	1480286	2	1	227	1	0	0	0	0	0	0	0	1	9574	1136	40	1		1	MICALL2	7	1480286	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10	6	1480286	157658377	20	12237	179	2									
ZNF786	136051	hgsc.bcm.edu	37	chr7	148768360	148768360	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcctctccccaccgtgccGgagccggtgggctctcagca	4	6	13	18	4	2	0	1	0	2	0	4	1	2	1	6	4	3	2	6	4	0	0	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	148768360	G	T	148768360	2	4	227	1	0	0	0	0	0	0	0	1	18157	1115	39	4		4	ZNF786	7	148768360	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10	147288074	148768360	10370303	21	12238											
MYOM2	9172	hgsc.bcm.edu;ucsc.edu	37	chr8	2033423	2033423	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggttccagggcctcccacCggtgtgcacgcttccgagat	6	8	12	15	3	0	1	0	0	0	1	3	2	3	1	5	3	1	3	5	3	0	2	rs144162836	byfrequency	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	2033423	C	T	2033423	2	4	227	1	0	0	0	0	0	0	0	1	10092	639	23	1		1	MYOM2	8	2033423	Silent	SNP	C	TCGA-BP-4330-01A-01D-1366-10		2033423	144330599	22	12239											
CHRNA2	1135	hgsc.bcm.edu;ucsc.edu	37	chr8	27319259	27319259	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatggcaacatacttccAgtcctccttcacctgtgggg	8	10	9	14	0	1	0	1	0	0	0	4	1	4	0	5	3	2	1	5	3	2	3	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	27319259	A	G	27319259	3	3	227	1	0	0	0	0	1	0	0	0	3383	188	7	3	116	3	CHRNA2	8	27319259	Missense_Mutation	SNP	A	TCGA-BP-4330-01A-01D-1366-10	25285836	27319259	119044763	23	12240											
VCP	7415	hgsc.bcm.edu	37	chr9	35061687	35061687	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctccctgtcaaagcgacCtgtgggacagtacacaaaca	13	7	8	13	1	1	0	1	0	0	0	2	2	2	1	3	1	4	1	3	1	4	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	35061687	C	G	35061687	5	3	227	1	0	0	0	0	0	0	1	0	17139	695	24	4	1371	4	VCP	9	35061687	Splice_Site	SNP	C	TCGA-BP-4330-01A-01D-1366-10		35061687	106151744	24	12241											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98211564	98211564	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgctggggggtggctcaggGgagggtgtgggcaggcggtt	4	7	24	6	2	1	0	1	0	0	0	1	1	1	1	0	10	0	4	0	10	0	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	98211564	G	A	98211564	2	1	227	1	0	0	0	0	0	0	0	1	12732	1219	43	2		2	PTCH1	9	98211564	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10	63149877	98211564	43001867	25	12242											
OR1L8	138881	hgsc.bcm.edu;ucsc.edu	37	chr9	125330260	125330260	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtcacagaaggtgagaCgattcagcagaagtgtgtgc	12	8	15	6	1	2	3	2	1	0	3	2	6	2	4	0	2	2	1	0	2	2	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	125330260	C	T	125330260	3	4	227	1	0	0	0	0	1	0	0	0	10967	536	19	1	436	1	OR1L8	9	125330260	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10	27118696	125330260	15883171	26	12243											
JMJD1C	221037	hgsc.bcm.edu	37	chr10	64975354	64975354	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggcacgagacctgcgtcGtgatgtaatgccaatatttt	10	13	10	8	3	0	2	0	1	0	1	1	3	0	2	2	1	2	2	2	1	3	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	64975354	G	A	64975354	4	1	227	1	0	0	0	0	0	1	0	0	7950	1153	40	1	6925	1	JMJD1C	10	64975354	Nonsense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10		64975354	70559393	27	12244											
C10orf12	26148	hgsc.bcm.edu;ucsc.edu	37	chr10	98741230	98741230	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaggcaatacctgtattaTtcctcaaagaaatttgttca	14	13	7	7	0	2	1	2	0	0	1	3	2	3	2	2	2	1	3	2	2	7	6	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	98741230	T	A	98741230	3	1	227	1	0	0	0	0	1	0	0	0	1589	1493	52	5	85	5	C10orf12	10	98741230	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	33765876	98741230	36793517	28	12245											
STIP1	10963	hgsc.bcm.edu	37	chr11	63965325	63965325	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtccctctttctttatcaGagcatatgctcgaattggca	8	16	7	10	1	3	1	1	0	2	1	5	2	4	1	1	1	2	3	1	1	3	6	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	63965325	G	A	63965325	5	1	227	1	0	0	0	0	0	0	1	0	15286	956	33	2	932	2	STIP1	11	63965325	Splice_Site	SNP	G	TCGA-BP-4330-01A-01D-1366-10		63965325	71041191	29	12246											
ENDOD1	23052	hgsc.bcm.edu;ucsc.edu	37	chr11	94862593	94862593	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgggcgctattccaattgtTtgcaaggacattgcactggg	9	12	12	8	1	0	0	0	0	0	0	1	1	1	1	1	3	2	4	1	3	3	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	94862593	T	G	94862593	2	3	227	1	0	0	0	0	0	0	0	1	5114	1828	64	5		5	ENDOD1	11	94862593	Silent	SNP	T	TCGA-BP-4330-01A-01D-1366-10	30897268	94862593	40143923	30	12247											
SLC38A2	54407	hgsc.bcm.edu;ucsc.edu	37	chr12	46760866	46760866	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaaattcttacctccaatGttctgcattgtaattgatcc	12	15	5	9	0	2	1	0	1	2	0	4	2	4	1	3	0	2	3	3	0	5	6	rs36022751	bycluster;byfrequency;by1000genomes	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	46760866	G	A	46760866	2	1	227	1	0	0	0	0	0	0	0	1	14606	1368	48	2		2	SLC38A2	12	46760866	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10		46760866	87091029	31	12248											
RPH3A	22895	hgsc.bcm.edu;ucsc.edu	37	chr12	113304584	113304584	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgcaccaagtgcggagTggagaccaacaaccgcctgc	10	5	12	14	3	1	1	0	0	1	1	1	3	1	2	4	2	5	1	4	2	3	0	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	113304584	T	A	113304584	3	1	227	1	0	0	0	0	1	0	0	0	13553	1696	59	5	401	5	RPH3A	12	113304584	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	66543718	113304584	20547311	32	12249											
DLL4	54567	hgsc.bcm.edu	37	chr15	41228880	41228880	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggccggacgacggcagcagGgaagccatgaacaacttgtc	11	4	14	12	4	0	1	0	1	0	0	1	4	0	3	2	4	4	2	2	4	3	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	41228880	G	A	41228880	2	1	227	1	0	0	0	0	0	0	0	1	4568	1223	43	2		2	DLL4	15	41228880	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10		41228880	61302512	33	12250											
NR2F2	7026	hgsc.bcm.edu;ucsc.edu	37	chr15	96880591	96880591	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagatgcctgtggtctcTctgatgtagcccatgtggaa	7	13	11	10	0	2	2	0	1	2	1	4	3	3	3	3	2	2	1	3	2	2	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	96880591	T	C	96880591	3	2	227	1	0	0	0	0	1	0	0	0	10628	1551	54	3	1042	3	NR2F2	15	96880591	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	55651711	96880591	5650801	34	12251											
MYH11	4629	hgsc.bcm.edu;ucsc.edu	37	chr16	15931906	15931906	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctttcccaaccgtgacCttcttgccattctccaccag	7	13	4	17	1	4	1	1	1	3	0	6	1	5	1	6	0	2	0	6	0	1	4	rs111777997	alternate_allele	TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	15931906	C	A	15931906	3	1	227	1	0	0	0	0	1	0	0	0	10031	680	24	4	5934	4	MYH11	16	15931906	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10		15931906	74422847	35	12252											
ADAD2	161931	hgsc.bcm.edu	37	chr16	84227694	84227694	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggaagtgctcagagccttCctcctgagaacagggtggcg	8	8	15	10	1	1	2	1	1	0	2	3	4	3	3	3	3	3	1	3	3	2	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	84227694	C	A	84227694	3	1	227	1	0	0	0	0	1	0	0	0	232	854	30	4	507	4	ADAD2	16	84227694	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10	68295788	84227694	6127059	36	12253											
SMG6	23293	hgsc.bcm.edu	37	chr17	2203323	2203323	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgagcgggagtagcgctTtgcggagcccggcctcccgc	4	7	16	14	5	1	1	0	1	1	0	2	3	2	3	3	3	4	2	3	3	1	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	2203323	T	C	2203323	3	2	227	1	0	0	0	0	1	0	0	0	14799	1850	64	3	3607	3	SMG6	17	2203323	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10		2203323	78991887	37	12254											
SHPK	23729	hgsc.bcm.edu;ucsc.edu	37	chr17	3518702	3518702	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcccccgttgagtgacgcgGccacccccaggtaggtcctg	5	7	13	16	3	0	2	0	2	0	0	1	2	1	2	6	3	1	2	6	3	1	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	3518702	G	T	3518702	3	4	227	1	0	0	0	0	1	0	0	0	14292	1203	42	4	491	4	SHPK	17	3518702	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10	1315379	3518702	77676508	38	12255											
CACNA1G	8913	hgsc.bcm.edu	37	chr17	48699064	48699064	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtctctgacgtcagagaTtgtgtctgaaccgtcctgct	6	14	10	11	2	4	3	1	2	3	1	6	4	5	3	2	0	2	1	2	0	1	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	48699064	T	C	48699064	3	2	227	1	0	0	0	0	1	0	0	0	2544	1493	52	3	6374	3	CACNA1G	17	48699064	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10	45180362	48699064	32496146	39	12256											
LAMA3	3909	hgsc.bcm.edu;ucsc.edu	37	chr18	21422710	21422710	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagaaggaaagtccttggTtttggtgcgttccactcgtt	7	14	11	9	2	0	1	0	0	0	1	4	2	3	2	3	3	1	3	3	3	2	5	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		G	21422710	T	G	21422710	3	3	227	1	0	0	0	0	1	0	0	0	8607	1725	60	5	3713	5	LAMA3	18	21422710	Missense_Mutation	SNP	T	TCGA-BP-4330-01A-01D-1366-10		21422710	56654538	40	12257											
EPS15L1	58513	hgsc.bcm.edu;ucsc.edu	37	chr19	16552710	16552710	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttcacataccttcccaAggataatgtccgagaggcca	12	9	7	13	1	2	1	1	0	1	1	4	3	4	2	4	2	1	0	4	2	3	4	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		C	16552710	A	C	16552710	3	2	227	1	0	0	0	0	1	0	0	0	5193	72	3	5	2520	5	EPS15L1	19	16552710	Missense_Mutation	SNP	A	TCGA-BP-4330-01A-01D-1366-10		16552710	42576273	41	12258											
DHX34	9704	hgsc.bcm.edu	37	chr19	47856609	47856609	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacgttaccgcatcaacCtctctgttcttggccctgcc	6	11	6	18	2	3	0	1	0	2	0	4	0	3	0	5	1	3	3	5	1	2	3	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	47856609	C	T	47856609	3	4	227	1	0	0	0	0	1	0	0	0	4507	681	24	2	324	2	DHX34	19	47856609	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10	31303899	47856609	11272374	42	12259											
ZNF613	79898	hgsc.bcm.edu	37	chr19	52448101	52448101	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatggatgcagcctgtgtgGgaaggccttctccaaaaggt	10	9	13	9	0	1	0	0	0	1	0	2	2	1	2	3	4	2	1	3	4	3	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	52448101	G	T	52448101	3	4	227	1	0	0	0	0	1	0	0	0	18037	1232	43	4	979	4	ZNF613	19	52448101	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10	4591492	52448101	6680882	43	12260											
TRIM28	10155	hgsc.bcm.edu	37	chr19	59060881	59060881	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtacctcagccccaggtGgtggcccgggaaccctggat	7	6	15	13	1	1	0	1	0	0	0	1	2	1	2	5	6	3	1	5	6	2	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	59060881	G	A	59060881	3	1	227	1	0	0	0	0	1	0	0	0	16501	1348	47	2	1896	2	TRIM28	19	59060881	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10	6612780	59060881	68102	44	12261											
ATRN	8455	hgsc.bcm.edu	37	chr20	3627468	3627468	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaaccggaagcagcagcccCctgcacagcctgggacctgc	10	3	12	16	1	0	0	0	0	0	0	0	3	0	2	5	2	7	3	5	2	2	0	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	3627468	C	A	3627468	3	1	227	1	0	0	0	0	1	0	0	0	1206	623	22	4	4400	4	ATRN	20	3627468	Missense_Mutation	SNP	C	TCGA-BP-4330-01A-01D-1366-10		3627468	59398052	45	12262											
ZNF133	7692	hgsc.bcm.edu	37	chr20	18297069	18297069	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaggccgtatgtgtgccGagagtgcgggcgaggcttta	7	8	19	7	4	0	2	0	0	0	2	0	5	0	2	2	4	2	2	2	4	2	3	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	18297069	G	A	18297069	3	1	227	1	0	0	0	0	1	0	0	0	17722	1058	37	1	1581	1	ZNF133	20	18297069	Missense_Mutation	SNP	G	TCGA-BP-4330-01A-01D-1366-10	14669601	18297069	44728451	46	12263											
GTSF1L	149699	hgsc.bcm.edu;ucsc.edu	37	chr20	42355035	42355035	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgacattccagatatcgggGctgggaaggcagggtgagac	10	7	16	8	2	0	2	0	1	0	2	3	5	1	3	1	5	0	2	1	5	2	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		A	42355035	G	A	42355035	2	1	227	1	0	0	0	0	0	0	0	1	6887	1194	42	2		2	GTSF1L	20	42355035	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10	24057966	42355035	20670485	47	12264											
DIP2A	23181	hgsc.bcm.edu	37	chr21	47987406	47987406	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagcactacctggtcgtGggagtggtggtcatcgtgga	7	9	18	7	2	1	0	1	0	0	0	3	4	1	3	1	6	2	1	1	6	1	1	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	47987406	G	T	47987406	2	4	227	1	0	0	0	0	0	0	0	1	4527	1335	47	4		4	DIP2A	21	47987406	Silent	SNP	G	TCGA-BP-4330-01A-01D-1366-10		47987406	142489	48	12265											
SH3KBP1	30011	hgsc.bcm.edu;ucsc.edu	37	chrX	19587268	19587268	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgtccaggatgccagatAgcgaactgccggccaagtca	10	8	11	12	2	1	1	1	0	0	1	2	3	2	2	4	2	4	0	4	2	3	2	novel		TCGA-BP-4330-01A-01D-1366-10	TCGA-BP-4330-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	601fd47a-12f9-413d-8c06-cf1f23c406cb	8e83a5db-7371-4374-838d-9c4329dd73e1		T	19587268	A	T	19587268	3	4	227	1	0	0	0	0	1	0	0	0	14257	420	15	5	684	5	SH3KBP1	23	19587268	Missense_Mutation	SNP	A	TCGA-BP-4330-01A-01D-1366-10		19587268	135683292	49	12266											
ZMYM4	9202	hgsc.bcm.edu;ucsc.edu	37	chr1	35859252	35859252	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaacctccaaggcttttGaagaacaaagctttattatg	13	12	6	10	0	0	2	0	1	0	1	2	2	2	2	3	1	3	2	3	1	7	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	35859252	G	T	35859252	3	4	228	1	0	0	0	0	1	0	0	0	17701	1281	45	4	2893	4	ZMYM4	1	35859252	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		35859252	213391369	1	12267											
RPL5	6125	hgsc.bcm.edu	37	chr1	93301855	93301857	+	In_Frame_Del	DEL	TAT	TAT	-																															agccaggtgccttcacctgcTatttggatgcaggccttgcc																								novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	TAT	TAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		-	93301857	TAT	-	93301855	7	5	228	1	0	1	0	1	0	0	0	0	13599	1522	53	0	451	0	RPL5	1	93301855	In_Frame_Del	DEL	TAT	TCGA-BP-4331-01A-01D-1366-10	57442603	93301855	155948766	2	12268											
ETV3L	440695	hgsc.bcm.edu	37	chr1	157062696	157062696	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaaaatgccaggcccctggGaggctcctaggtcctgggag	8	6	16	11	0	0	0	0	0	0	0	2	3	2	3	5	6	1	1	5	6	3	1	rs1176537	bycluster;byfrequency;by1000genomes	TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	157062696	G	T	157062696	2	4	228	1	0	0	0	0	0	0	0	1	5280	1161	41	4		4	ETV3L	1	157062696	Silent	SNP	G	TCGA-BP-4331-01A-01D-1366-10	63760841	157062696	92187925	3	12269											
ARID4B	51742	hgsc.bcm.edu	37	chr1	235345429	235345429	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctttcagcgtttttttaggCcactgtccctgaatacttga	7	17	7	10	1	2	2	1	2	1	0	3	2	3	2	2	1	2	1	2	1	3	7	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	235345429	C	T	235345429	4	4	228	1	0	0	0	0	0	1	0	0	920	740	26	2	1153	2	ARID4B	1	235345429	Nonsense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10	78282733	235345429	13905192	4	12270											
SPAST	6683	hgsc.bcm.edu;ucsc.edu	37	chr2	32362024	32362025	+	Frame_Shift_Ins	INS	-	-	C																															ctaaaaactgaatttctaatINSagaatttgatggtgtaagtg																								novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	32362025	-	C	32362024	7	5	228	1	0	1	1	0	0	0	0	0	14998	1406	49	0	1442	0	SPAST	2	32362024	Frame_Shift_Ins	INS	-	TCGA-BP-4331-01A-01D-1366-10		32362024	210837349	5	12271											
IMMT	10989	hgsc.bcm.edu;ucsc.edu	37	chr2	86406617	86406617	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccatctcgaagagtttgTctgagtaaggtatggttttc	10	14	11	6	1	2	2	0	1	2	1	4	4	2	2	1	2	1	4	1	2	4	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	86406617	T	A	86406617	3	1	228	1	0	0	0	0	1	0	0	0	7718	1667	58	5	2080	5	IMMT	2	86406617	Missense_Mutation	SNP	T	TCGA-BP-4331-01A-01D-1366-10	54044593	86406617	156792756	6	12272											
THNSL2	55258	hgsc.bcm.edu	37	chr2	88472689	88472689	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtggtatgtcagcaccaGgggcgtagccccacgggtca	8	7	14	12	2	2	0	2	0	0	0	2	0	2	0	3	4	2	3	3	4	2	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	88472689	G	T	88472689	3	4	228	1	0	0	0	0	1	0	0	0	15862	1000	35	4	22	4	THNSL2	2	88472689	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	2066072	88472689	154726684	7	12273											
SLC20A1	6574	hgsc.bcm.edu;ucsc.edu	37	chr2	113420443	113420443	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgcttctcttctaggtGggctctgttgtgtctgttgg	1	18	14	8	0	5	0	0	0	5	0	6	0	5	0	0	4	1	4	0	4	1	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	113420443	G	T	113420443	2	4	228	1	0	0	0	0	0	0	0	1	14440	1335	47	4		4	SLC20A1	2	113420443	Silent	SNP	G	TCGA-BP-4331-01A-01D-1366-10	24947754	113420443	129778930	8	12274											
DBI	1622	hgsc.bcm.edu	37	chr2	120128350	120128350	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggacttcacgggcaaggcCaagtgggatgcctggaatga	10	8	15	8	1	1	1	1	1	0	0	1	4	1	4	2	5	1	1	2	5	3	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	120128350	C	A	120128350	2	1	228	1	0	0	0	0	0	0	0	1	4251	581	21	4		4	DBI	2	120128350	Silent	SNP	C	TCGA-BP-4331-01A-01D-1366-10	6707907	120128350	123071023	9	12275											
HDLBP	3069	hgsc.bcm.edu;ucsc.edu	37	chr2	242203956	242203956	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaagcagctttctcaggAagtggagggaaggcatcctt	11	8	14	8	0	1	0	1	0	1	0	3	3	2	3	1	5	2	4	1	5	3	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	242203956	A	C	242203956	2	2	228	1	0	0	0	0	0	0	0	1	7025	233	9	5		5	HDLBP	2	242203956	Silent	SNP	A	TCGA-BP-4331-01A-01D-1366-10	122075606	242203956	995417	10	12276											
MYH15	22989	hgsc.bcm.edu	37	chr3	108224621	108224621	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcatcttcactccctttTacctcagcctcgatataagc	9	13	3	16	1	4	0	3	0	1	0	6	1	5	0	4	0	3	0	4	0	3	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	108224621	T	C	108224621	2	2	228	1	0	0	0	0	0	0	0	1	10034	1741	61	3		3	MYH15	3	108224621	Silent	SNP	T	TCGA-BP-4331-01A-01D-1366-10		108224621	89797809	11	12277											
SH3D19	152503	hgsc.bcm.edu;ucsc.edu	37	chr4	152048840	152048840	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggccttcctccccttcggtActatggccaacatacttttt	6	15	6	14	1	0	0	0	0	0	0	3	0	2	0	5	3	3	1	5	3	4	7	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	152048840	A	T	152048840	3	4	228	1	0	0	0	0	1	0	0	0	14251	391	14	5	194	5	SH3D19	4	152048840	Missense_Mutation	SNP	A	TCGA-BP-4331-01A-01D-1366-10		152048840	39105436	12	12278											
THBS4	7060	hgsc.bcm.edu;ucsc.edu	37	chr5	79351852	79351852	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggactttccagaggaagccAcaggtaggaacccacaaacc	15	4	10	12	0	0	1	0	0	0	1	1	4	1	4	4	4	3	1	4	4	4	2	rs71594659	alternate_allele	TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	79351852	A	T	79351852	2	4	228	1	0	0	0	0	0	0	0	1	15855	146	6	5		5	THBS4	5	79351852	Silent	SNP	A	TCGA-BP-4331-01A-01D-1366-10		79351852	101563408	13	12279											
LOX	4015	hgsc.bcm.edu;ucsc.edu	37	chr5	121411209	121411209	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcagcaccctgtgatcataAtctctgacatctgccctgta	10	11	7	13	0	3	2	1	2	2	0	4	2	3	2	2	0	3	3	2	0	2	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	121411209	A	C	121411209	3	2	228	1	0	0	0	0	1	0	0	0	8898	98	4	5	505	5	LOX	5	121411209	Missense_Mutation	SNP	A	TCGA-BP-4331-01A-01D-1366-10	42059357	121411209	59504051	14	12280											
NMUR2	56923	hgsc.bcm.edu;ucsc.edu	37	chr5	151784054	151784054	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgtagatccacatgggcttGatgaccgtacaggtggccga	9	10	13	9	2	0	3	0	2	0	1	1	4	1	3	3	3	1	3	3	3	2	4	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	151784054	G	C	151784054	3	2	228	1	0	0	0	0	1	0	0	0	10507	1280	45	4	642	4	NMUR2	5	151784054	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	30372845	151784054	29131206	15	12281											
CYFIP2	26999	hgsc.bcm.edu;ucsc.edu	37	chr5	156742017	156742017	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccacagacaagttctgcaAcaaggactgtcctggcaccg	11	7	9	14	1	1	1	0	0	1	1	3	2	3	2	3	2	2	3	3	2	3	1	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		G	156742017	A	G	156742017	3	3	228	1	0	0	0	0	1	0	0	0	4138	43	2	3	1317	3	CYFIP2	5	156742017	Missense_Mutation	SNP	A	TCGA-BP-4331-01A-01D-1366-10	4957963	156742017	24173243	16	12282											
HIST1H1C	3006	hgsc.bcm.edu	37	chr6	26056015	26056015	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagaagtaggcgttcgcCtatttcttcttgggcgccgc	5	15	11	10	4	2	1	0	0	2	1	3	1	2	1	2	2	0	2	2	2	4	8	rs11540003	alternate_allele	TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	26056015	C	T	26056015	2	4	228	1	0	0	0	0	0	0	0	1	7124	692	24	2		2	HIST1H1C	6	26056015	Silent	SNP	C	TCGA-BP-4331-01A-01D-1366-10		26056015	145059052	17	12283											
PHTF2	57157	hgsc.bcm.edu;ucsc.edu	37	chr7	77552042	77552042	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtggacaggacttctgaaGgtgttcttcggaatagaaag	12	11	13	5	1	2	2	0	1	2	1	3	5	2	5	0	4	0	1	0	4	4	4	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	77552042	G	A	77552042	3	1	228	1	0	0	0	0	1	0	0	0	11863	1000	35	2	998	2	PHTF2	7	77552042	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		77552042	81586621	18	12284											
TRPV6	55503	hgsc.bcm.edu;ucsc.edu	37	chr7	142575416	142575416	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccctcaccctcatagagctCagatgtcatgggctcaaaga	11	8	9	13	0	5	3	5	0	0	3	5	3	5	3	2	1	1	2	2	1	2	1	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		G	142575416	C	G	142575416	3	3	228	1	0	0	0	0	1	0	0	0	16599	835	29	4	1892	4	TRPV6	7	142575416	Missense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10	65023374	142575416	16563247	19	12285											
HTRA4	203100	hgsc.bcm.edu;ucsc.edu	37	chr8	38840017	38840017	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcataactttcctttccagGaaaggcgttttcaaataaga	14	13	6	8	1	2	1	2	0	0	1	4	2	4	2	2	2	1	1	2	2	4	6	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	38840017	G	T	38840017	3	4	228	1	0	0	0	0	1	0	0	0	7456	1188	41	4	1141	4	HTRA4	8	38840017	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		38840017	107524005	20	12286											
DFNB31	25861	hgsc.bcm.edu	37	chr9	117165103	117165103	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttagtcttgaaggcctcGgcgataatgcgggcggcctc	6	10	13	12	4	1	1	0	1	1	0	4	2	2	1	3	4	1	0	3	4	3	3	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	117165103	G	T	117165103	2	4	228	1	0	0	0	0	0	0	0	1	4455	1103	39	4		4	DFNB31	9	117165103	Silent	SNP	G	TCGA-BP-4331-01A-01D-1366-10		117165103	24048328	21	12287											
P4HA1	5033	hgsc.bcm.edu;ucsc.edu	37	chr10	74790028	74790028	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggataatgtgattacctaCctgtaattcctctgctgtgg	10	14	9	8	0	1	1	0	1	1	0	2	2	2	2	3	2	3	2	3	2	5	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	74790028	C	T	74790028	5	4	228	1	0	0	0	0	0	0	1	0	11356	521	18	2	379	2	P4HA1	10	74790028	Splice_Site	SNP	C	TCGA-BP-4331-01A-01D-1366-10		74790028	60744719	22	12288											
COPB1	1315	hgsc.bcm.edu	37	chr11	14520433	14520433	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggttctgaatccattggCacgttaattaacgtgtagca	10	13	11	7	2	1	1	0	1	1	0	2	1	2	1	1	3	2	5	1	3	4	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	14520433	C	T	14520433	2	4	228	1	0	0	0	0	0	0	0	1	3728	697	25	2		2	COPB1	11	14520433	Silent	SNP	C	TCGA-BP-4331-01A-01D-1366-10		14520433	120486083	23	12289											
DBX1	120237	hgsc.bcm.edu	37	chr11	20177783	20177783	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacacggtgatttcctcctGttcctcgccctcctcttcct	3	14	7	17	2	1	1	0	1	1	0	7	2	6	2	6	2	0	1	6	2	0	3	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	20177783	G	A	20177783	4	1	228	1	0	0	0	0	0	1	0	0	4259	1386	48	2	26	2	DBX1	11	20177783	Nonsense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	5657350	20177783	114828733	24	12290											
OR9G4	283189	hgsc.bcm.edu	37	chr11	56510711	56510711	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatggtggtgcatcacagaAaaagtggtcaatgatatttt	14	12	10	5	0	2	2	2	1	0	1	2	2	2	2	0	3	1	1	0	3	5	3	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	56510711	A	C	56510711	3	2	228	1	0	0	0	0	1	0	0	0	11251	14	1	5	409	5	OR9G4	11	56510711	Missense_Mutation	SNP	A	TCGA-BP-4331-01A-01D-1366-10	36332928	56510711	78495805	25	12291											
SIK2	23235	hgsc.bcm.edu;ucsc.edu	37	chr11	111558776	111558776	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgaagccaggcgaaaatTctggcaaatcctgtctgctg	10	10	11	10	1	3	1	0	1	3	0	4	2	4	1	2	2	2	2	2	2	4	1	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	111558776	T	A	111558776	3	1	228	1	0	0	0	0	1	0	0	0	14320	1783	62	5	382	5	SIK2	11	111558776	Missense_Mutation	SNP	T	TCGA-BP-4331-01A-01D-1366-10	55048065	111558776	23447740	26	12292											
ITPR2	3709	hgsc.bcm.edu;ucsc.edu	37	chr12	26589195	26589195	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggtagaagagagcaacaGctaaattgatgaacacagcc	17	6	11	7	0	0	4	0	2	0	2	0	5	0	4	1	1	5	3	1	1	6	3	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	26589195	G	T	26589195	3	4	228	1	0	0	0	0	1	0	0	0	7921	971	34	4	1417	4	ITPR2	12	26589195	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		26589195	107262700	27	12293											
PDE1B	5153	hgsc.bcm.edu	37	chr12	54963142	54963142	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtgcaggctgggatcttCgtggaacggtgaggctcgcc	5	9	17	10	3	1	1	0	1	1	0	3	3	1	3	1	5	2	4	1	5	1	1	rs151025806	byfrequency	TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	54963142	C	T	54963142	2	4	228	1	0	0	0	0	0	0	0	1	11634	883	31	1		1	PDE1B	12	54963142	Silent	SNP	C	TCGA-BP-4331-01A-01D-1366-10	28373947	54963142	78888753	28	12294											
IRAK3	11213	hgsc.bcm.edu;ucsc.edu	37	chr12	66597547	66597547	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atattgaaaagtatgtagacCaaggtaaaagtggaacaaga	20	8	10	3	0	0	3	0	1	0	2	0	4	0	4	1	2	1	3	1	2	10	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		G	66597547	C	G	66597547	3	3	228	1	0	0	0	0	1	0	0	0	7824	595	21	4	196	4	IRAK3	12	66597547	Missense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10	11634405	66597547	67254348	29	12295											
TSPAN19	144448	hgsc.bcm.edu;ucsc.edu	37	chr12	85421765	85421765	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatcccattccaatcaaaAtttgagaaataggtactatg	17	11	6	7	0	1	2	1	1	0	2	3	3	3	2	2	1	1	1	2	1	8	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	85421765	A	T	85421765	3	4	228	1	0	0	0	0	1	0	0	0	16642	101	4	5	594	5	TSPAN19	12	85421765	Missense_Mutation	SNP	A	TCGA-BP-4331-01A-01D-1366-10	18824218	85421765	48430130	30	12296											
ATP2A2	488	hgsc.bcm.edu;ucsc.edu	37	chr12	110778740	110778740	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgttttgctcgagttgaaCcctcccacaagtctaaaatc	10	12	7	12	1	1	1	0	1	1	0	4	2	2	1	2	0	2	4	2	0	4	4	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	110778740	C	A	110778740	3	1	228	1	0	0	0	0	1	0	0	0	1137	507	18	4	2092	4	ATP2A2	12	110778740	Missense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10	25356975	110778740	23073155	31	12297											
MYCBP2	23077	hgsc.bcm.edu;ucsc.edu	37	chr13	77730192	77730192	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atttaatccagttataattaCcttcatattgggaacatgta	14	16	5	6	0	1	0	1	0	0	0	2	1	2	1	2	1	2	2	2	1	7	9	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	77730192	C	A	77730192	5	1	228	1	0	0	0	0	0	0	1	0	10018	521	18	4	7272	4	MYCBP2	13	77730192	Splice_Site	SNP	C	TCGA-BP-4331-01A-01D-1366-10		77730192	37439686	32	12298											
UPF3A	65110	hgsc.bcm.edu	37	chr13	115067470	115067470	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggtgtgacgacagtccAgcacccagaaaagagcgact	14	4	12	11	2	0	4	0	1	0	3	1	6	1	4	2	1	2	1	2	1	2	0	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		G	115067470	A	G	115067470	2	3	228	1	0	0	0	0	0	0	0	1	17004	175	7	3		3	UPF3A	13	115067470	Silent	SNP	A	TCGA-BP-4331-01A-01D-1366-10	37337278	115067470	102408	33	12299											
MDGA2	161357	hgsc.bcm.edu	37	chr14	47566320	47566320	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaagagtttaattgacGgtgatgctaaaagacataaa	17	9	8	7	1	0	4	0	2	0	2	0	4	0	4	2	1	1	2	2	1	6	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	47566320	G	T	47566320	3	4	228	1	0	0	0	0	1	0	0	0	9407	1116	39	4	2193	4	MDGA2	14	47566320	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		47566320	59783220	34	12300											
SPTB	6710	hgsc.bcm.edu	37	chr14	65237810	65237810	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctccccagcatatgctGtctgcagacgggtggccacg	6	9	11	15	2	2	1	0	0	2	1	3	1	2	1	4	2	3	3	4	2	1	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	65237810	G	A	65237810	3	1	228	1	0	0	0	0	1	0	0	0	15119	1377	48	2	1504	2	SPTB	14	65237810	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	17671490	65237810	42111730	35	12301											
TUBGCP5	114791	hgsc.bcm.edu	37	chr15	22836163	22836163	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caccacttcccagtataaagGaaataaaggtatgccttcaa	16	9	6	10	0	1	0	1	0	0	0	2	1	2	1	3	2	1	2	3	2	8	6	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	22836163	G	A	22836163	3	1	228	1	0	0	0	0	1	0	0	0	16768	1175	41	2	311	2	TUBGCP5	15	22836163	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		22836163	79695229	36	12302											
KIAA1199	57214	hgsc.bcm.edu;ucsc.edu	37	chr15	81224218	81224218	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaattttccaattagaggAattcagttatatgatggccc	13	13	9	6	0	1	2	1	1	0	1	2	4	2	4	2	3	0	1	2	3	6	6	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	81224218	A	T	81224218	2	4	228	1	0	0	0	0	0	0	0	1	8213	233	9	5		5	KIAA1199	15	81224218	Silent	SNP	A	TCGA-BP-4331-01A-01D-1366-10	58388055	81224218	21307174	37	12303											
ADAMTSL3	57188	hgsc.bcm.edu;ucsc.edu	37	chr15	84651469	84651469	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatagtttgggagtcacatGgcacaaaatgaggcaaatgt	15	9	11	6	0	1	1	1	1	0	0	1	2	1	2	0	3	0	3	0	3	5	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	84651469	G	T	84651469	3	4	228	1	0	0	0	0	1	0	0	0	276	1357	47	4	3167	4	ADAMTSL3	15	84651469	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	3427251	84651469	17879923	38	12304											
CREBBP	1387	hgsc.bcm.edu	37	chr16	3807365	3807365	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atagcagcacaaagtctgtgGggaaaactcatactgcaaaa	17	7	9	8	0	2	0	1	0	1	0	2	1	2	1	0	2	5	3	0	2	7	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	3807365	G	T	3807365	3	4	228	1	0	0	0	0	1	0	0	0	3861	1232	43	4	3758	4	CREBBP	16	3807365	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10		3807365	86547388	39	12305											
ITGAM	3684	hgsc.bcm.edu	37	chr16	31309271	31309271	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatcagcccctcccataGccaggtgagacctggtcact	8	8	10	15	0	2	1	2	1	0	1	3	2	3	1	5	3	2	1	5	3	1	1	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	31309271	G	A	31309271	3	1	228	1	0	0	0	0	1	0	0	0	7887	971	34	2	1760	2	ITGAM	16	31309271	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	27501906	31309271	59045482	40	12306											
TRAF4	9618	hgsc.bcm.edu;ucsc.edu	37	chr17	27075315	27075315	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccccaggagagtgtctaCtgtgagaataagtgtggtgc	9	10	14	8	0	1	2	0	1	1	2	1	4	1	2	2	2	3	0	2	2	3	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	27075315	C	A	27075315	4	1	228	1	0	0	0	0	0	1	0	0	16442	576	20	4	516	4	TRAF4	17	27075315	Nonsense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10		27075315	54119895	41	12307											
CLTC	1213	hgsc.bcm.edu;ucsc.edu	37	chr17	57763155	57763155	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atttcatccaggtcatgaagGagtacttgacaaaggtaatg	14	11	10	6	0	2	2	2	2	0	0	3	3	3	3	1	3	1	2	1	3	4	4	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	57763155	G	A	57763155	3	1	228	1	0	0	0	0	1	0	0	0	3566	1175	41	2	4931	2	CLTC	17	57763155	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	30687840	57763155	23432055	42	12308											
TMEM49	0	hgsc.bcm.edu;ucsc.edu	37	chr17	57886217	57886217	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacagaaagttggattttttGgaattttggcctgtgcttca	9	17	10	5	0	1	1	1	0	0	1	1	3	1	3	1	3	2	2	1	3	3	8	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	57886217	G	A	57886217	3	1	228	1	0	0	0	0	1	0	0	0	16172	1349	47	2	801	2	TMEM49	17	57886217	Missense_Mutation	SNP	G	TCGA-BP-4331-01A-01D-1366-10	123062	57886217	23308993	43	12309											
SLC8A2	6543	hgsc.bcm.edu;ucsc.edu	37	chr19	47940782	47940782	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgggtcccaattaccaaggCcaagttcgttttcttgatga	10	13	9	9	1	1	2	0	2	1	0	3	2	2	2	3	2	1	2	3	2	4	5	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	47940782	C	T	47940782	3	4	228	1	0	0	0	0	1	0	0	0	14709	739	26	2	730	2	SLC8A2	19	47940782	Missense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10		47940782	11188201	44	12310											
KLK2	3817	hgsc.bcm.edu	37	chr19	51378101	51378101	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggtgtcctggtgcacccCcagtgggtgctcacagctgc	4	8	16	13	0	1	0	1	0	0	0	2	0	2	0	3	4	4	3	3	4	0	0	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	51378101	A	A	51378101	2	1	228	1	0	0	0	0	0	0	0	1	8404	610	22	4		4	KLK2	19	51378101	Silent	SNP	C	TCGA-BP-4331-01A-01D-1366-10	3437319	51378101	7750882	45	12311											
NLRP11	204801	hgsc.bcm.edu	37	chr19	56321350	56321350	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaatgggagcctggccgTcaggccagtccttggcgatt	6	9	14	12	2	1	0	1	0	0	0	2	2	2	1	4	4	2	1	4	4	1	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	56321350	T	C	56321350	3	2	228	1	0	0	0	0	1	0	0	0	10473	1667	58	3	2507	3	NLRP11	19	56321350	Missense_Mutation	SNP	T	TCGA-BP-4331-01A-01D-1366-10	4943249	56321350	2807633	46	12312											
SULF2	55959	hgsc.bcm.edu	37	chr20	46365452	46365452	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtccctgctcacctgtcCggtagccagtgctattgagg	5	10	11	15	2	1	1	1	1	0	0	3	1	3	1	5	2	3	3	5	2	2	3	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		A	46365452	C	A	46365452	3	1	228	1	0	0	0	0	1	0	0	0	15372	652	23	4	2278	4	SULF2	20	46365452	Missense_Mutation	SNP	C	TCGA-BP-4331-01A-01D-1366-10		46365452	16660068	47	12313											
MED14	9282	hgsc.bcm.edu;ucsc.edu	37	chrX	40570475	40570475	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatacctttccacctgcacaAggtctccccaccgttctcgg	7	10	7	17	2	2	0	0	0	2	0	5	1	3	0	6	2	2	2	6	2	2	3	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		T	40570475	A	T	40570475	3	4	228	1	0	0	0	0	1	0	0	0	9432	72	3	5	3492	5	MED14	23	40570475	Missense_Mutation	SNP	A	TCGA-BP-4331-01A-01D-1366-10		40570475	114700085	48	12314											
ATP11C	286410	hgsc.bcm.edu;ucsc.edu	37	chrX	138908947	138908947	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgattgccaacaaacacTgtgcgtgtgccaactcgttt	10	11	10	10	2	0	1	0	1	0	0	1	2	0	2	2	1	6	1	2	1	3	2	novel		TCGA-BP-4331-01A-01D-1366-10	TCGA-BP-4331-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	143b6360-f9b9-456a-b409-0afaac1704be	20024ca1-456b-49e1-b984-6cf81ee6e8e9		C	138908947	T	C	138908947	2	2	228	1	0	0	0	0	0	0	0	1	1121	1567	55	3		3	ATP11C	23	138908947	Silent	SNP	T	TCGA-BP-4331-01A-01D-1366-10	98338472	138908947	16361613	49	12315											
TAS1R2	80834	hgsc.bcm.edu	37	chr1	19181061	19181061	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcgatggcccaggactcGgaggcgatccacacggcgcc	7	4	16	14	5	0	0	0	0	0	0	3	4	1	2	3	6	0	0	3	6	0	0	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	19181061	G	A	19181061	2	1	229	1	0	0	0	0	0	0	0	1	15562	1103	39	1		1	TAS1R2	1	19181061	Silent	SNP	G	TCGA-BP-4337-01A-01D-1366-10		19181061	230069560	1	12316											
CLSPN	63967	hgsc.bcm.edu;ucsc.edu	37	chr1	36205125	36205125	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctccaggtatttcctcAacctcctagaaagcaatttt	11	13	4	13	0	1	1	1	0	0	1	5	1	5	1	5	1	2	2	5	1	5	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	36205125	A	T	36205125	4	4	229	1	0	0	0	0	0	1	0	0	3560	131	5	5	898	5	CLSPN	1	36205125	Nonsense_Mutation	SNP	A	TCGA-BP-4337-01A-01D-1366-10	17024064	36205125	213045496	2	12317											
RGS18	64407	hgsc.bcm.edu	37	chr1	192150459	192150459	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accagatttcttaaaactgaAttcagtgaagaaaatattga	18	12	6	5	0	2	5	1	3	1	2	2	5	2	5	1	0	1	0	1	0	7	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		G	192150459	A	G	192150459	2	3	229	1	0	0	0	0	0	0	0	1	13302	98	4	3		3	RGS18	1	192150459	Silent	SNP	A	TCGA-BP-4337-01A-01D-1366-10	155945334	192150459	57100162	3	12318											
NBAS	51594	hgsc.bcm.edu;ucsc.edu	37	chr2	15326915	15326915	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagagcgacacattttcAaaacttcattccccaatcct	15	10	3	13	1	2	1	2	0	0	1	4	2	4	1	3	0	2	0	3	0	4	4	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	15326915	A	T	15326915	4	4	229	1	0	0	0	0	0	1	0	0	10186	131	5	5	465	5	NBAS	2	15326915	Nonsense_Mutation	SNP	A	TCGA-BP-4337-01A-01D-1366-10		15326915	227872458	4	12319											
PRKD3	23683	hgsc.bcm.edu;ucsc.edu	37	chr2	37520414	37520414	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaatccacactctggaaActgagggataatagtcctat	16	9	8	8	0	1	2	0	1	1	1	3	4	3	4	2	2	1	0	2	2	6	3	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	37520414	A	T	37520414	3	4	229	1	0	0	0	0	1	0	0	0	12522	57	2	5	2451	5	PRKD3	2	37520414	Missense_Mutation	SNP	A	TCGA-BP-4337-01A-01D-1366-10	22193499	37520414	205678959	5	12320											
CCDC148	130940	hgsc.bcm.edu;ucsc.edu	37	chr2	159033038	159033038	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatttccataattacctgctGttcattgtatgtattcaatg	11	18	5	7	0	2	0	2	0	0	0	3	0	3	0	2	0	2	4	2	0	6	8	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	159033038	G	A	159033038	4	1	229	1	0	0	0	0	0	1	0	0	2782	1386	48	2	159	2	CCDC148	2	159033038	Nonsense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	121512624	159033038	84166335	6	12321											
SCN3A	6328	hgsc.bcm.edu;ucsc.edu	37	chr2	165953810	165953810	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacattatcaaagtttacTttcacgtttttccaccgagc	11	14	4	12	2	2	0	2	0	0	0	3	1	3	0	3	0	3	2	3	0	4	6	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	165953810	T	A	165953810	3	1	229	1	0	0	0	0	1	0	0	0	13920	1606	56	5	1835	5	SCN3A	2	165953810	Missense_Mutation	SNP	T	TCGA-BP-4337-01A-01D-1366-10	6920772	165953810	77245563	7	12322											
ZC3H15	55854	hgsc.bcm.edu;ucsc.edu	37	chr2	187370523	187370523	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcaatgatgatgatgaGgaagcagatgatacccgcta	13	9	12	7	1	1	6	1	5	0	1	1	7	1	7	1	2	2	2	1	2	4	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	187370523	G	T	187370523	3	4	229	1	0	0	0	0	1	0	0	0	17566	991	35	4	951	4	ZC3H15	2	187370523	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	21416713	187370523	55828850	8	12323											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52442567	52442567	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaaggtagagacctttcGccgggaccggcgctcttcga	8	7	12	14	5	1	1	0	0	1	1	3	4	1	2	4	3	0	2	4	3	2	3	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	52442567	G	A	52442567	4	1	229	1	0	0	0	0	0	1	0	0	1311	1095	38	1	2067	1	BAP1	3	52442567	Nonsense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10		52442567	145579863	9	12324											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52702660	52702660	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcataatagtctggttgatTtctgttataatttaaatttt	11	22	5	3	0	3	1	1	1	2	0	3	1	3	1	0	1	0	2	0	1	6	11	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	52702660	T	A	52702660	3	1	229	1	0	0	0	0	1	0	0	0	11491	1855	64	5	4774	5	PBRM1	3	52702660	Missense_Mutation	SNP	T	TCGA-BP-4337-01A-01D-1366-10	260093	52702660	145319770	10	12325											
MYH15	22989	hgsc.bcm.edu;ucsc.edu	37	chr3	108211422	108211422	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccagcctgctggaaaatcaCcctggacttttcaagcaaat	12	10	7	12	0	2	0	2	0	0	0	3	2	3	2	3	2	3	2	3	2	4	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	108211422	C	T	108211422	3	4	229	1	0	0	0	0	1	0	0	0	10034	507	18	2	5116	2	MYH15	3	108211422	Missense_Mutation	SNP	C	TCGA-BP-4337-01A-01D-1366-10	55508762	108211422	89811008	11	12326											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130300711	130300711	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacctcttggattctctatGggatacatttcagaataaat	14	14	6	7	0	3	1	1	0	2	1	4	3	3	3	1	2	2	0	1	2	6	6	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	130300711	G	T	130300711	3	4	229	1	0	0	0	0	1	0	0	0	3703	1357	47	4	3884	4	COL6A6	3	130300711	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	22089289	130300711	67721719	12	12327											
PPP2R3A	5523	hgsc.bcm.edu;ucsc.edu	37	chr3	135745814	135745814	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccataaacattccacggttCtactttcctgaaggactccc	10	12	5	14	1	1	1	0	1	1	0	5	2	5	2	4	2	2	1	4	2	4	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	135745814	C	T	135745814	2	4	229	1	0	0	0	0	0	0	0	1	12390	912	32	2		2	PPP2R3A	3	135745814	Silent	SNP	C	TCGA-BP-4337-01A-01D-1366-10	5445103	135745814	62276616	13	12328											
CXXC4	80319	hgsc.bcm.edu;ucsc.edu	37	chr4	105393489	105393489	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactactgctttaaaagaacCatcggaatgcttcagcgctg	12	11	8	10	2	1	1	1	0	0	1	2	2	1	2	1	1	6	3	1	1	6	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	105393489	C	T	105393489	4	4	229	1	0	0	0	0	0	1	0	0	4098	595	21	2	13	2	CXXC4	4	105393489	Nonsense_Mutation	SNP	C	TCGA-BP-4337-01A-01D-1366-10		105393489	85760787	14	12329											
SPOCK3	50859	hgsc.bcm.edu;ucsc.edu	37	chr4	167656201	167656201	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcagtccattcatgaaaAtcgccactagcaaaatctcc	14	10	4	13	1	4	1	3	1	1	0	7	1	5	1	3	0	1	1	3	0	5	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	167656201	A	T	167656201	3	4	229	1	0	0	0	0	1	0	0	0	15082	98	4	5	132	5	SPOCK3	4	167656201	Missense_Mutation	SNP	A	TCGA-BP-4337-01A-01D-1366-10	62262712	167656201	23498075	15	12330											
MFAP3L	9848	hgsc.bcm.edu;ucsc.edu	37	chr4	170926995	170926995	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagggcacagaaggtagaaAgcacacagtcagatggctct	16	5	12	8	0	2	3	1	0	1	3	2	3	2	3	0	3	1	4	0	3	4	1	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	170926995	A	T	170926995	3	4	229	1	0	0	0	0	1	0	0	0	9516	72	3	5	1203	5	MFAP3L	4	170926995	Missense_Mutation	SNP	A	TCGA-BP-4337-01A-01D-1366-10	3270794	170926995	20227281	16	12331											
APBB3	10307	hgsc.bcm.edu	37	chr5	139941190	139941190	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgggcacaaagcccatgTagggcactggcaatggcctt	10	7	12	12	0	0	0	0	0	0	0	0	0	0	0	3	4	1	4	3	4	3	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		C	139941190	T	C	139941190	2	2	229	1	0	0	0	0	0	0	0	1	762	1625	57	3		3	APBB3	5	139941190	Silent	SNP	T	TCGA-BP-4337-01A-01D-1366-10		139941190	40974070	17	12332											
DST	667	hgsc.bcm.edu;ucsc.edu	37	chr6	56341042	56341042	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcagcccattgcaaccAagccagcaaagcttccaaca	14	7	6	14	0	1	0	1	0	0	0	2	0	2	0	4	0	7	4	4	0	4	3	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		G	56341042	A	G	56341042	3	3	229	1	0	0	0	0	1	0	0	0	4783	130	5	3	1663	3	DST	6	56341042	Missense_Mutation	SNP	A	TCGA-BP-4337-01A-01D-1366-10		56341042	114774025	18	12333											
KHDRBS2	202559	hgsc.bcm.edu	37	chr6	62604617	62604617	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtgccccccgggctcgagGggtagggacacctcttgcta	5	8	15	13	2	1	0	0	0	1	0	2	2	1	1	4	5	2	3	4	5	2	3	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	62604617	G	T	62604617	3	4	229	1	0	0	0	0	1	0	0	0	8147	1232	43	4	332	4	KHDRBS2	6	62604617	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	6263575	62604617	108510450	19	12334											
GRIK2	2898	hgsc.bcm.edu;ucsc.edu	37	chr6	102266315	102266315	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaagccagcgaacatcaCagattccttatccaatcgtt	13	9	8	11	2	1	1	1	0	0	1	4	3	3	2	3	1	3	1	3	1	4	3	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	102266315	C	A	102266315	3	1	229	1	0	0	0	0	1	0	0	0	6774	478	17	4	1308	4	GRIK2	6	102266315	Missense_Mutation	SNP	C	TCGA-BP-4337-01A-01D-1366-10	39661698	102266315	68848752	20	12335											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98231217	98231217	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcctgtgtcacggtgacgGgctgcacagagatctcggag	7	9	15	10	3	2	2	1	1	1	1	4	4	3	3	1	3	1	2	1	3	0	0	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	98231217	G	T	98231217	3	4	229	1	0	0	0	0	1	0	0	0	12732	1232	43	4	2317	4	PTCH1	9	98231217	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10		98231217	42982214	21	12336											
KIAA0368	23392	hgsc.bcm.edu;ucsc.edu	37	chr9	114182377	114182377	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactggcaaatttcacagcCacttgtcgaacttgaacttc	11	12	7	11	1	1	1	1	1	0	0	3	2	1	1	1	1	4	2	1	1	4	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		G	114182377	C	G	114182377	2	3	229	1	0	0	0	0	0	0	0	1	8171	581	21	4		4	KIAA0368	9	114182377	Silent	SNP	C	TCGA-BP-4337-01A-01D-1366-10	15951160	114182377	27031054	22	12337											
C10orf99	387695	hgsc.bcm.edu	37	chr10	85944492	85944492	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagccagagccccgcctttgGgtggtgcctggggcactccc	4	7	15	15	1	0	1	0	0	0	1	1	2	1	1	6	4	3	1	6	4	0	1	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	85944492	G	T	85944492	3	4	229	1	0	0	0	0	1	0	0	0	1628	1241	43	4	226	4	C10orf99	10	85944492	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10		85944492	49590255	23	12338											
C10orf129	142827	hgsc.bcm.edu;ucsc.edu	37	chr10	96971678	96971678	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagatgtcttgtggagtctgGgtgatgcctttggtggatct	5	15	15	6	0	3	2	0	1	3	1	3	4	3	4	1	4	1	0	1	4	0	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	96971678	G	A	96971678	3	1	229	1	0	0	0	0	1	0	0	0	1593	1232	43	2	817	2	C10orf129	10	96971678	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	11027186	96971678	38563069	24	12339											
ZDHHC5	25921	hgsc.bcm.edu;ucsc.edu	37	chr11	57440565	57440565	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatcagagctccaacatGcccgcagagtctggaaagag	12	6	10	13	1	2	3	1	0	1	3	4	4	4	4	3	1	3	2	3	1	2	0	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	57440565	G	T	57440565	3	4	229	1	0	0	0	0	1	0	0	0	17617	1319	46	4	5	4	ZDHHC5	11	57440565	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10		57440565	77565951	25	12340											
TMEM109	79073	hgsc.bcm.edu	37	chr11	60689310	60689310	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccttcctgctgtggggAgcaggggccctggtcgtcta	5	9	15	12	1	1	1	0	0	1	1	3	2	2	2	3	5	2	2	3	5	1	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	60689310	A	T	60689310	2	4	229	1	0	0	0	0	0	0	0	1	16024	291	11	5		5	TMEM109	11	60689310	Silent	SNP	A	TCGA-BP-4337-01A-01D-1366-10	3248745	60689310	74317206	26	12341											
ARID4A	5926	hgsc.bcm.edu;ucsc.edu	37	chr14	58790270	58790270	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcgccgtctcaatgatGaattactaggaaaagttgta	15	10	9	7	2	1	2	1	2	1	0	2	3	1	3	1	1	2	2	1	1	8	4	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	58790270	G	T	58790270	4	4	229	1	0	0	0	0	0	1	0	0	919	1291	45	4	543	4	ARID4A	14	58790270	Nonsense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10		58790270	48559270	27	12342											
HSPA2	3306	hgsc.bcm.edu	37	chr14	65008972	65008972	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgacctgaccgggattcccCctgcgcctcgcggggtcccc	3	7	12	19	5	0	1	0	1	0	0	4	3	2	2	7	3	1	0	7	3	0	1	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		G	65008972	C	G	65008972	3	3	229	1	0	0	0	0	1	0	0	0	7411	623	22	4	1407	4	HSPA2	14	65008972	Missense_Mutation	SNP	C	TCGA-BP-4337-01A-01D-1366-10	6218702	65008972	42340568	28	12343											
SERPINA11	256394	hgsc.bcm.edu;ucsc.edu	37	chr14	94914808	94914808	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgaggttgaatcccaggcCctccaggatcagagctgagg	9	8	14	10	0	1	4	1	3	0	1	3	5	3	5	3	4	1	2	3	4	1	1	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	94914808	C	A	94914808	3	1	229	1	0	0	0	0	1	0	0	0	14090	623	22	4	980	4	SERPINA11	14	94914808	Missense_Mutation	SNP	C	TCGA-BP-4337-01A-01D-1366-10	29905836	94914808	12434732	29	12344											
CNOT1	23019	hgsc.bcm.edu;ucsc.edu	37	chr16	58579383	58579385	+	In_Frame_Del	DEL	GTA	GTA	-																															aagtggtgttggtagctggtGtagtagaagttgctaaatgt																								novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	GTA	GTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		-	58579385	GTA	-	58579383	7	5	229	1	0	1	0	1	0	0	0	0	3617	1377	48	0	3413	0	CNOT1	16	58579383	In_Frame_Del	DEL	GTA	TCGA-BP-4337-01A-01D-1366-10		58579383	31775370	30	12345											
ACSF2	80221	hgsc.bcm.edu;ucsc.edu	37	chr17	48548424	48548424	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagaacagtcccgtgacAttcgcgcacttccctgagga	11	7	10	13	3	0	3	0	2	0	1	3	5	2	4	2	1	1	1	2	1	1	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		G	48548424	A	G	48548424	2	3	229	1	0	0	0	0	0	0	0	1	175	204	8	3		3	ACSF2	17	48548424	Silent	SNP	A	TCGA-BP-4337-01A-01D-1366-10		48548424	32646786	31	12346											
WFIKKN2	124857	hgsc.bcm.edu;ucsc.edu	37	chr17	48917427	48917427	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcatgcggcccaaccatGtgcgtggcaacgtggtggtc	6	9	15	11	3	1	0	1	0	0	0	2	0	1	0	2	5	4	1	2	5	2	0	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	48917427	G	T	48917427	3	4	229	1	0	0	0	0	1	0	0	0	17358	1377	48	4	784	4	WFIKKN2	17	48917427	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	369003	48917427	32277783	32	12347											
ZNF836	162962	hgsc.bcm.edu;ucsc.edu	37	chr19	52659379	52659379	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgtttctctctggtatgAattatcttatgtcgagtgag	9	17	9	6	2	3	2	0	2	3	0	5	3	3	2	0	1	1	2	0	1	5	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	52659379	A	T	52659379	2	4	229	1	0	0	0	0	0	0	0	1	18186	242	9	5		5	ZNF836	19	52659379	Silent	SNP	A	TCGA-BP-4337-01A-01D-1366-10		52659379	6469604	33	12348											
STMN3	50861	hgsc.bcm.edu;ucsc.edu	37	chr20	62275589	62275589	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtactggtagacggtattGgggtgcggctgtgtgtagaa	7	11	17	6	3	0	2	0	0	0	2	0	2	0	2	1	5	2	5	1	5	5	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	62275589	G	A	62275589	2	1	229	1	0	0	0	0	0	0	0	1	15311	1335	47	2		2	STMN3	20	62275589	Silent	SNP	G	TCGA-BP-4337-01A-01D-1366-10		62275589	749931	34	12349											
COL6A1	1291	hgsc.bcm.edu;ucsc.edu	37	chr21	47420243	47420243	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcgtctctccctccccAggaatgcgagattttggaca	8	10	8	15	2	1	1	0	0	1	1	5	4	3	3	4	2	1	0	4	2	1	2	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		C	47420243	A	C	47420243	5	2	229	1	0	0	0	0	0	0	1	0	3699	202	7	5	1885	5	COL6A1	21	47420243	Splice_Site	SNP	A	TCGA-BP-4337-01A-01D-1366-10		47420243	709652	35	12350											
KLHL22	84861	hgsc.bcm.edu	37	chr22	20843449	20843449	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcacgcagtgtgggtgtgagGgctgtgcaggcaacttgcag	7	9	17	8	1	1	1	1	1	0	0	1	1	1	1	0	3	3	5	0	3	1	1	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	20843449	G	T	20843449	3	4	229	1	0	0	0	0	1	0	0	0	8377	1232	43	4	1878	4	KLHL22	22	20843449	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10		20843449	30461117	36	12351											
KCTD17	79734	hgsc.bcm.edu	37	chr22	37455447	37455447	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctccacagcaccccaaacgGgctgagctcagagtccagcc	10	4	10	17	1	1	2	1	1	0	1	3	2	3	2	5	1	4	4	5	1	1	0	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		T	37455447	G	T	37455447	3	4	229	1	0	0	0	0	1	0	0	0	8104	1232	43	4	620	4	KCTD17	22	37455447	Missense_Mutation	SNP	G	TCGA-BP-4337-01A-01D-1366-10	16611998	37455447	13849119	37	12352											
FAM46D	169966	hgsc.bcm.edu;ucsc.edu	37	chrX	79698230	79698230	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaaagatgccagattgaaTggttccgtagcaagttacat	13	12	10	6	1	0	3	0	1	0	2	1	3	1	3	2	1	3	5	2	1	6	5	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		C	79698230	T	C	79698230	2	2	229	1	0	0	0	0	0	0	0	1	5568	1461	51	3		3	FAM46D	23	79698230	Silent	SNP	T	TCGA-BP-4337-01A-01D-1366-10		79698230	75572330	38	12353											
AFF2	2334	hgsc.bcm.edu;ucsc.edu	37	chrX	148037494	148037494	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgagaagaacaccagcaCtgacgagtttacctggccca	13	7	10	11	1	0	3	0	2	0	2	0	5	0	3	3	1	3	3	3	1	3	3	novel		TCGA-BP-4337-01A-01D-1366-10	TCGA-BP-4337-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ac8f948d-0bb3-4150-9a77-0ec972993a93	06efe36c-7a15-4074-abfe-c915db67fce6		A	148037494	C	A	148037494	3	1	229	1	0	0	0	0	1	0	0	0	357	565	20	4	2016	4	AFF2	23	148037494	Missense_Mutation	SNP	C	TCGA-BP-4337-01A-01D-1366-10	68339264	148037494	7233066	39	12354											
PRAMEF1	65121	hgsc.bcm.edu	37	chr1	12854414	12854414	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattcaagagctggaaattcGcaacatgtcctggccacgtc	11	10	9	11	2	1	1	1	0	0	1	4	2	2	2	2	2	2	2	2	2	4	3	rs1063769	bycluster;byfrequency	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	12854414	G	A	12854414	3	1	230	1	0	0	0	0	1	0	0	0	12427	1087	38	1	644	1	PRAMEF1	1	12854414	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10		12854414	236396207	1	12355											
PRAMEF7	441871	hgsc.bcm.edu	37	chr1	12977626	12977626	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggagctcttccccacActgttcatggaggccttcag	7	9	10	15	0	3	0	2	0	1	0	4	2	4	2	4	3	1	2	4	3	0	3	rs61778319	bycluster;byfrequency	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	12977626	A	G	12977626	2	3	230	1	0	0	0	0	0	0	0	1	12441	146	6	3		3	PRAMEF7	1	12977626	Silent	SNP	A	TCGA-BP-4338-01A-01D-1806-10	123212	12977626	236272995	2	12356											
PRAMEF7	441871	hgsc.bcm.edu	37	chr1	12977766	12977766	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatctgtgctggaaggggTtgatgtgctgttgacccaag	10	11	14	6	0	1	2	0	2	1	0	1	3	1	3	1	3	2	4	1	3	4	2	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	12977766	T	G	12977766	3	3	230	1	0	0	0	0	1	0	0	0	12441	1725	60	5	256	5	PRAMEF7	1	12977766	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	140	12977766	236272855	3	12357											
DMRTB1	63948	hgsc.bcm.edu	37	chr1	53927263	53927263	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacgcccctcctggcgtccCcctgcagcagggcttccggc	3	6	13	19	3	0	0	0	0	0	0	3	1	3	1	6	4	2	3	6	4	0	1	rs146520630	alternate_allele	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	53927263	G	G	53927263	3	3	230	1	0	0	0	0	1	0	0	0	4590	623	22	4	701	4	DMRTB1	1	53927263	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	40949497	53927263	195323358	4	12358											
NOTCH2	4853	hgsc.bcm.edu	37	chr1	120548025	120548025	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtgccgccattcaggcaGggtcgagacacaaagcatgg	11	6	13	11	2	1	1	1	0	0	1	2	2	1	1	2	3	2	2	2	3	1	1	rs2604045	bycluster	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	120548025	G	A	120548025	2	1	230	1	0	0	0	0	0	0	0	1	10548	987	35	2		2	NOTCH2	1	120548025	Silent	SNP	G	TCGA-BP-4338-01A-01D-1806-10	66620762	120548025	128702596	5	12359											
TLR5	7100	hgsc.bcm.edu;ucsc.edu	37	chr1	223284112	223284112	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgctcacaagacaaacGatctttctactgttccagat	11	13	6	11	1	4	2	1	0	3	2	5	3	5	2	1	0	3	2	1	0	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	223284112	G	T	223284112	2	4	230	1	0	0	0	0	0	0	0	1	15953	1048	37	4		4	TLR5	1	223284112	Silent	SNP	G	TCGA-BP-4338-01A-01D-1806-10	102736087	223284112	25966509	6	12360											
PRSS38	339501	hgsc.bcm.edu;ucsc.edu	37	chr1	228033865	228033866	+	Frame_Shift_Ins	INS	-	-	T																															tccagctctggggcccactcINStcagcgtcctaatggccatg																								novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	228033866	-	T	228033865	7	5	230	1	0	1	1	0	0	0	0	0	12629	913	32	0	955	0	PRSS38	1	228033865	Frame_Shift_Ins	INS	-	TCGA-BP-4338-01A-01D-1806-10	4749753	228033865	21216756	7	12361											
NLRP3	114548	hgsc.bcm.edu	37	chr1	247587937	247587937	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagccagggcagccttcagtCtgattcaggagaacgaggtc	11	7	13	10	1	3	2	2	1	1	1	4	4	3	2	2	3	3	1	2	3	2	2	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	247587937	C	G	247587937	3	3	230	1	0	0	0	0	1	0	0	0	10478	912	32	4	1202	4	NLRP3	1	247587937	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	19554072	247587937	1662684	8	12362											
SLC8A1	6546	hgsc.bcm.edu	37	chr2	40392062	40392062	+	Frame_Shift_Del	DEL	T	T	-																															tcccaggatggggcgccccaTttctgcaatgcgcctctcct																								novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		-	40392062	T	-	40392062	7	5	230	1	0	1	0	1	0	0	0	0	14708	1493	52	0	836	0	SLC8A1	2	40392062	Frame_Shift_Del	DEL	T	TCGA-BP-4338-01A-01D-1806-10		40392062	202807311	9	12363											
APLF	200558	hgsc.bcm.edu;ucsc.edu	37	chr2	68772385	68772385	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattatggaggtgtacaaatCgtgggccaagatgagactga	13	9	14	5	1	0	3	0	2	0	2	1	6	0	4	1	3	1	1	1	3	4	2	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	68772385	C	T	68772385	2	4	230	1	0	0	0	0	0	0	0	1	776	874	31	1		1	APLF	2	68772385	Silent	SNP	C	TCGA-BP-4338-01A-01D-1806-10	28380323	68772385	174426988	10	12364											
RGPD5	84220	hgsc.bcm.edu	37	chr2	110585652	110585652	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttcagtattctcccgAaacaccacctcgatggacag	10	13	6	12	2	2	0	1	0	1	0	4	3	2	1	3	1	1	1	3	1	2	5	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	110585652	A	G	110585652	3	3	230	1	0	0	0	0	1	0	0	0	13291	246	9	3	2459	3	RGPD5	2	110585652	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	41813267	110585652	132613721	11	12365											
SAP130	79595	hgsc.bcm.edu	37	chr2	128744480	128744480	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgctgctggagcagcacTgaatggattgctaatagggt	9	12	14	6	0	0	1	0	1	0	0	0	3	0	3	0	3	5	6	0	3	3	4	rs72841716	bycluster;byfrequency;by1000genomes	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		C	128744480	T	C	128744480	3	2	230	1	0	0	0	0	1	0	0	0	13833	1580	55	3	1368	3	SAP130	2	128744480	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	18158828	128744480	114454893	12	12366											
PLEKHB2	55041	hgsc.bcm.edu;ucsc.edu	37	chr2	131883458	131883458	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatggactgcatcaacatccGcacggggcaggaatgtcggg	11	6	14	10	3	1	0	1	0	0	0	3	2	2	2	1	5	2	3	1	5	3	0	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	131883458	G	A	131883458	3	1	230	1	0	0	0	0	1	0	0	0	12065	1087	38	1	176	1	PLEKHB2	2	131883458	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	3138978	131883458	111315915	13	12367											
TTN	7273	hgsc.bcm.edu	37	chr2	179407913	179407913	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttaaggaagtaacagTgtgctctaggactgtgggtt	10	14	12	5	0	2	0	1	0	1	0	2	2	2	2	0	3	2	3	0	3	4	6	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	179407913	T	G	179407913	3	3	230	1	0	0	0	0	1	0	0	0	16734	1696	59	5	11256	5	TTN	2	179407913	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	47524455	179407913	63791460	14	12368											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179614382	179614382	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctctataagtgacaggctCcactgttagatctgaaacac	12	12	7	10	0	2	3	0	2	2	1	4	3	3	3	1	1	1	2	1	1	4	4	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	179614382	C	T	179614382	3	4	230	1	0	0	0	0	1	0	0	0	16734	864	30	2	97552	2	TTN	2	179614382	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	206469	179614382	63584991	15	12369											
PLCD4	84812	hgsc.bcm.edu;ucsc.edu	37	chr2	219501273	219501273	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtgtatatctgcatccaGgaaggcctggagggggatga	9	11	15	6	0	1	1	0	1	1	0	2	4	2	4	2	5	1	2	2	5	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	219501273	G	A	219501273	2	1	230	1	0	0	0	0	0	0	0	1	12033	991	35	2		2	PLCD4	2	219501273	Silent	SNP	G	TCGA-BP-4338-01A-01D-1806-10	39886891	219501273	23698100	16	12370											
SP140	11262	hgsc.bcm.edu;ucsc.edu	37	chr2	231102997	231102997	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attgtgtactcagtgaactgGagaagacatttggctggtca	11	12	12	6	0	2	3	2	1	0	2	2	4	2	3	0	3	2	2	0	3	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	231102997	G	A	231102997	3	1	230	1	0	0	0	0	1	0	0	0	14964	1175	41	2	317	2	SP140	2	231102997	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	11601724	231102997	12096376	17	12371											
MST1	4485	hgsc.bcm.edu	37	chr3	49721998	49721998	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctttggtctcaccccAgcctgcaatctcacacttgg	7	12	6	16	0	2	0	2	0	2	0	4	0	2	0	4	2	3	1	4	2	2	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	49721998	A	G	49721998	3	3	230	1	0	0	0	0	1	0	0	0	9890	188	7	3	328	3	MST1	3	49721998	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10		49721998	148300432	18	12372											
B4GALT4	8702	hgsc.bcm.edu	37	chr3	118931440	118931440	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgatgttgatatataaagGattgtgttccacagatacta	13	15	9	4	0	0	3	0	2	0	1	1	4	1	4	1	1	1	2	1	1	6	8	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	118931440	G	A	118931440	3	1	230	1	0	0	0	0	1	0	0	0	1273	1174	41	2	47	2	B4GALT4	3	118931440	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	69209442	118931440	79090990	19	12373											
TFDP2	7029	hgsc.bcm.edu;ucsc.edu	37	chr3	141678681	141678681	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattgaaaagatactcaaAcctgcatcaggaaacaaagt	21	7	6	7	0	2	2	2	1	0	1	2	3	2	3	1	1	4	1	1	1	8	2	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	141678681	A	G	141678681	3	3	230	1	0	0	0	0	1	0	0	0	15797	57	2	3	466	3	TFDP2	3	141678681	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	22747241	141678681	56343749	20	12374											
ATP11B	23200	hgsc.bcm.edu	37	chr3	182584081	182584081	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacatgatctcttctttaAagcagtcagtctctgtcaca	12	13	6	10	0	5	2	2	1	3	1	7	2	5	2	0	0	2	1	0	0	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	182584081	A	G	182584081	3	3	230	1	0	0	0	0	1	0	0	0	1120	14	1	3	1523	3	ATP11B	3	182584081	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	40905400	182584081	15438349	21	12375											
MUC4	4585	hgsc.bcm.edu	37	chr3	195510766	195510766	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggaagtgtcggtgacaGgaagagaggtggcgtgacct	9	7	18	7	3	0	3	0	2	0	1	1	6	0	5	1	5	1	0	1	5	2	0	rs79949955	byfrequency	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	195510766	G	T	195510766	3	4	230	1	0	0	0	0	1	0	0	0	9978	1000	35	4		4	MUC4	3	195510766	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	12926685	195510766	2511664	22	12376											
CLGN	1047	hgsc.bcm.edu	37	chr4	141321658	141321658	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataatcttctccacatttatCtggtccaaacataatgatat	14	15	3	9	0	3	1	0	1	3	0	5	1	4	1	2	1	1	0	2	1	5	6	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	141321658	C	G	141321658	3	3	230	1	0	0	0	0	1	0	0	0	3524	913	32	4	1321	4	CLGN	4	141321658	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		141321658	49832618	23	12377											
DNAJC21	134218	hgsc.bcm.edu;ucsc.edu	37	chr5	34937560	34937560	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatggaaaaagaaaacaaaAagattcgggacaaagcaagg	22	3	10	6	1	0	2	0	0	0	2	1	4	0	4	1	3	2	1	1	3	8	1	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	34937560	A	G	34937560	3	3	230	1	0	0	0	0	1	0	0	0	4640	15	1	3	586	3	DNAJC21	5	34937560	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10		34937560	145977700	24	12378											
GTF2H2	2966	hgsc.bcm.edu	37	chr5	70351196	70351196	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactttagagtctgcatagcTatgcttagggaattataaag	14	13	9	5	0	1	1	0	0	1	1	1	2	1	2	0	1	4	3	0	1	9	7	rs2576895	byfrequency	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		C	70351196	T	C	70351196	3	2	230	1	0	0	0	0	1	0	0	0	6861	1512	53	3	770	3	GTF2H2	5	70351196	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	35413636	70351196	110564064	25	12379											
SLC17A1	6568	hgsc.bcm.edu	37	chr6	25801166	25801166	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaattagtcctcctatCattccagttaaagttgaaca	14	12	6	9	0	1	1	1	1	0	0	4	2	4	1	3	0	2	3	3	0	7	5	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	25801166	C	A	25801166	3	1	230	1	0	0	0	0	1	0	0	0	14418	826	29	4	190	4	SLC17A1	6	25801166	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		25801166	145313901	26	12380											
BRPF3	27154	hgsc.bcm.edu	37	chr6	36175215	36175215	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagagagaagctcaaacgAgagcaggtaaggaggagccc	17	2	15	7	1	1	3	1	0	0	3	1	8	1	5	1	3	4	3	1	3	4	1	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	36175215	A	T	36175215	2	4	230	1	0	0	0	0	0	0	0	1	1521	291	11	5		5	BRPF3	6	36175215	Silent	SNP	A	TCGA-BP-4338-01A-01D-1806-10	10374049	36175215	134939852	27	12381											
TSPYL1	7259	hgsc.bcm.edu;ucsc.edu	37	chr6	116600312	116600312	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccagagggtccatgcGgagagcctcatgcaaaggcc	9	5	14	13	1	1	2	1	0	0	2	3	3	3	2	5	4	3	1	5	4	1	0	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	116600312	G	T	116600312	3	4	230	1	0	0	0	0	1	0	0	0	16658	1116	39	4	635	4	TSPYL1	6	116600312	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	80425097	116600312	54514755	28	12382											
RAET1L	154064	hgsc.bcm.edu	37	chr6	150343148	150343148	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattctccagctgaatgtcaAgcagttgctctgtaagtatg	11	13	9	8	0	3	1	1	1	2	0	4	1	3	1	1	0	3	6	1	0	5	4	rs78563624		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		C	150343148	A	C	150343148	3	2	230	1	0	0	0	0	1	0	0	0	13003	72	3	5	434	5	RAET1L	6	150343148	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	33742836	150343148	20771919	29	12383											
MCPH1	79648	hgsc.bcm.edu	37	chr8	6302121	6302122	+	Frame_Shift_Del	DEL	GT	GT	-																															aagtcctcagaaatttctgaGtaatctttcaaaggaagaaa																								novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		-	6302122	GT	-	6302121	7	5	230	1	0	1	0	1	0	0	0	0	9398	1029	36	0	908	0	MCPH1	8	6302121	Frame_Shift_Del	DEL	GT	TCGA-BP-4338-01A-01D-1806-10		6302121	140061901	30	12384											
MTUS1	57509	hgsc.bcm.edu;ucsc.edu	37	chr8	17581247	17581247	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggtgcttcctgtcctccGcagcgcaggacttttcaaag	6	10	13	12	2	1	0	1	0	0	0	4	1	4	1	3	3	2	3	3	3	1	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	17581247	G	A	17581247	3	1	230	1	0	0	0	0	1	0	0	0	9965	1086	38	1	1796	1	MTUS1	8	17581247	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	11279126	17581247	128782775	31	12385											
VPS13B	157680	hgsc.bcm.edu;ucsc.edu	37	chr8	100871685	100871685	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctccagagggaccacatCgtttgtaaagcacatctcca	11	9	8	13	2	2	1	0	0	2	1	5	2	2	2	3	1	1	3	3	1	2	2	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	100871685	C	A	100871685	4	1	230	1	0	0	0	0	0	1	0	0	17189	893	31	4	11512	4	VPS13B	8	100871685	Nonsense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	83290438	100871685	45492337	32	12386											
ZFAT	57623	hgsc.bcm.edu	37	chr8	135621044	135621044	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcctctccgaggcaccAggtctgctgaagtggtctca	7	9	13	12	1	3	1	1	1	3	0	5	2	3	1	3	4	2	3	3	4	2	1	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	135621044	A	T	135621044	3	4	230	1	0	0	0	0	1	0	0	0	17631	188	7	5	3066	5	ZFAT	8	135621044	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	34749359	135621044	10742978	33	12387											
C8orf31	286122	hgsc.bcm.edu;ucsc.edu	37	chr8	144124450	144124450	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccacaccagaattcctgcaAttcagtgaggcagctcttca	11	9	8	13	0	3	2	2	1	1	1	4	2	4	2	3	1	2	3	3	1	2	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	144124450	A	G	144124450	3	3	230	1	0	0	0	0	1	0	0	0	2420	101	4	3	34	3	C8orf31	8	144124450	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	8503406	144124450	2239572	34	12388											
HAUS6	54801	hgsc.bcm.edu;ucsc.edu	37	chr9	19058758	19058759	+	Frame_Shift_Del	DEL	AT	AT	-																															tctatgtgactggtcagcacAtgtttctgaggcacacactc																								novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		-	19058759	AT	-	19058758	7	5	230	1	0	1	0	1	0	0	0	0	6970	214	8	0	868	0	HAUS6	9	19058758	Frame_Shift_Del	DEL	AT	TCGA-BP-4338-01A-01D-1806-10		19058758	122154673	35	12389											
SDCCAG3	10807	hgsc.bcm.edu	37	chr9	139297266	139297266	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcttcctcctcgtctttaaCttcagaaattctgtctatag	8	17	5	11	1	5	1	1	0	4	1	8	1	7	1	2	0	1	0	2	0	4	7	rs17855450	bycluster;by1000genomes	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	139297266	C	T	139297266	3	4	230	1	0	0	0	0	1	0	0	0	13960	565	20	2	29	2	SDCCAG3	9	139297266	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	120238508	139297266	1916165	36	12390											
DHTKD1	55526	hgsc.bcm.edu	37	chr10	12139743	12139743	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgctggcggactcatgacGcaggaggaggtgtctgaaat	10	9	15	7	2	2	2	1	2	1	0	2	5	2	5	0	5	1	2	0	5	1	1	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	12139743	G	A	12139743	2	1	230	1	0	0	0	0	0	0	0	1	4500	1074	38	1		1	DHTKD1	10	12139743	Silent	SNP	G	TCGA-BP-4338-01A-01D-1806-10		12139743	123395004	37	12391											
MICAL2	9645	hgsc.bcm.edu	37	chr11	12246315	12246315	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacctgaccacatcctggCgcagtgggttggccctgtgt	5	9	13	14	2	0	1	0	1	0	0	1	2	1	1	5	3	0	2	5	3	0	1	rs190895714	by1000genomes	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	12246315	C	T	12246315	3	4	230	1	0	0	0	0	1	0	0	0	9570	768	27	1	1678	1	MICAL2	11	12246315	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		12246315	122760201	38	12392											
LDHA	3939	hgsc.bcm.edu	37	chr11	18424451	18424451	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaaccgtgttattggaagCggttgcaatctggattcagc	12	11	11	7	2	2	0	1	0	1	0	2	2	2	2	1	3	4	3	1	3	5	4	rs5030621	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	18424451	C	T	18424451	2	4	230	1	0	0	0	0	0	0	0	1	8698	767	27	1		1	LDHA	11	18424451	Silent	SNP	C	TCGA-BP-4338-01A-01D-1806-10	6178136	18424451	116582065	39	12393											
MRGPRX2	117194	hgsc.bcm.edu;ucsc.edu	37	chr11	19077607	19077607	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagcatgctcaggcctgCaaggtaggcacaggtcatca	10	7	12	12	0	4	0	4	0	0	0	4	0	4	0	1	4	3	6	1	4	2	1	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	19077607	C	T	19077607	3	4	230	1	0	0	0	0	1	0	0	0	9767	710	25	2	653	2	MRGPRX2	11	19077607	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	653156	19077607	115928909	40	12394											
ZNF641	121274	hgsc.bcm.edu;ucsc.edu	37	chr12	48739161	48739161	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcccacagttttcctgcaTgacatattctccataaaagt	12	14	4	11	0	1	1	0	1	1	0	4	1	3	1	3	0	1	2	3	0	4	6	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	48739161	T	A	48739161	3	1	230	1	0	0	0	0	1	0	0	0	18056	1464	51	5	913	5	ZNF641	12	48739161	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10		48739161	85112734	41	12395			1	19		2	2	19	N	T_A	3.604965e-05
ZNF641	121274	hgsc.bcm.edu;ucsc.edu	37	chr12	48739179	48739179	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgacatattctccataaaAgtctgtctgagaggggtcca	12	11	9	9	0	3	2	0	2	3	1	5	3	4	2	2	2	0	0	2	2	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	48739179	A	T	48739179	3	4	230	1	0	0	0	0	1	0	0	0	18056	72	3	5	931	5	ZNF641	12	48739179	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	18	48739179	85112716	42	12396			1	19		2	2	19	N	T_A	3.604965e-05
RNF17	56163	hgsc.bcm.edu;ucsc.edu	37	chr13	25419107	25419107	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattttcttaggtcttgctGtatgatgtgggtgttgaact	6	20	11	4	0	2	2	0	2	2	0	2	2	2	2	0	2	2	3	0	2	4	7	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		C	25419107	G	C	25419107	2	2	230	1	0	0	0	0	0	0	0	1	13463	1364	48	4		4	RNF17	13	25419107	Silent	SNP	G	TCGA-BP-4338-01A-01D-1806-10		25419107	89750771	43	12397											
POTEG	404785	hgsc.bcm.edu	37	chr14	19574243	19574243	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggattcccagaaaacctgCctaacggtgccactgctgac	10	8	10	13	1	0	2	0	1	0	1	1	3	1	3	4	2	5	1	4	2	3	2	rs2818572	bycluster;by2hit2allele	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	19574243	C	A	19574243	3	1	230	1	0	0	0	0	1	0	0	0	12266	739	26	4	1334	4	POTEG	14	19574243	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		19574243	87775297	44	12398											
CHRFAM7A	89832	hgsc.bcm.edu	37	chr15	30664489	30664489	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgtgaaggtgacatcAgggtagggctctttgcagca	9	10	14	8	0	3	2	2	2	1	0	3	2	3	2	0	3	2	4	0	3	2	2	rs386715	bycluster;byfrequency	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	30664489	A	G	30664489	2	3	230	1	0	0	0	0	0	0	0	1	3375	175	7	3		3	CHRFAM7A	15	30664489	Silent	SNP	A	TCGA-BP-4338-01A-01D-1806-10		30664489	71866903	45	12399											
DNAH3	55567	hgsc.bcm.edu;ucsc.edu	37	chr16	20975125	20975125	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaacagagaacggcacaCgttgttgtagatgctcaggg	12	8	12	9	2	2	2	2	0	0	2	2	3	2	2	0	2	3	5	0	2	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	20975125	C	T	20975125	3	4	230	1	0	0	0	0	1	0	0	0	4603	536	19	1	2308	1	DNAH3	16	20975125	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		20975125	69379628	46	12400											
TK2	7084	hgsc.bcm.edu;ucsc.edu	37	chr16	66582905	66582905	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattttttctctttttcctgTtctttatctacaaaagaaag	10	20	4	7	0	3	1	0	0	3	1	5	2	4	1	1	0	1	1	1	0	5	9	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	66582905	T	A	66582905	3	1	230	1	0	0	0	0	1	0	0	0	15932	1722	60	5	701	5	TK2	16	66582905	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	45607780	66582905	23771848	47	12401											
ZNF19	7567	hgsc.bcm.edu;ucsc.edu	37	chr16	71512809	71512809	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcaggttcccaaaattctCcaacatcacacttctgtaca	13	11	4	13	0	4	0	2	0	2	0	6	0	5	0	2	1	2	2	2	1	4	4	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	71512809	C	A	71512809	4	1	230	1	0	0	0	0	0	1	0	0	17754	864	30	4	1255	4	ZNF19	16	71512809	Nonsense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10	4929904	71512809	18841944	48	12402											
ZNF286A	57335	hgsc.bcm.edu;ucsc.edu	37	chr17	15620445	15620445	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaaccgtacaaatgtagCgagtgtggaaaagccttcat	16	8	10	7	2	1	1	1	0	0	1	1	3	1	2	2	1	4	2	2	1	7	3	rs2530065		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	15620445	C	T	15620445	2	4	230	1	0	0	0	0	0	0	0	1	17822	767	27	1		1	ZNF286A	17	15620445	Silent	SNP	C	TCGA-BP-4338-01A-01D-1806-10		15620445	65574765	49	12403											
CCDC144B	284047	hgsc.bcm.edu;ucsc.edu	37	chr17	18486814	18486815	+	Frame_Shift_Ins	INS	-	-	T																															tatcggcatttcttttctccINScattttcttgttttaaggca																								rs71208410		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	18486815	-	T	18486814	7	5	230	1	0	1	1	0	0	0	0	0	2778	623	22	0	52	0	CCDC144B	17	18486814	Frame_Shift_Ins	INS	-	TCGA-BP-4338-01A-01D-1806-10	2866369	18486814	62708396	50	12404											
LRRC37B	114659	hgsc.bcm.edu;ucsc.edu	37	chr17	30358422	30358422	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggctgcaatttaattacaAaactgagccttggaacattt	13	13	8	7	0	0	1	0	1	0	0	0	2	0	2	1	2	5	2	1	2	6	5	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	30358422	A	G	30358422	3	3	230	1	0	0	0	0	1	0	0	0	8994	15	1	3	1939	3	LRRC37B	17	30358422	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	11871608	30358422	50836788	51	12405											
NPEPPS	9520	hgsc.bcm.edu;ucsc.edu	37	chr17	45656826	45656826	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggtttctatagaagtaaAtatactaccccttctggaga	15	12	7	7	0	2	2	0	0	2	2	2	3	2	2	2	2	2	2	2	2	9	8	rs2661174	bycluster;by2hit2allele	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	45656826	A	G	45656826	2	3	230	1	0	0	0	0	0	0	0	1	10575	98	4	3		3	NPEPPS	17	45656826	Silent	SNP	A	TCGA-BP-4338-01A-01D-1806-10	15298404	45656826	35538384	52	12406											
MTMR4	9110	hgsc.bcm.edu;ucsc.edu	37	chr17	56572562	56572562	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgactggacaaccacaTctggttctttcctcctgggc	7	12	10	12	0	2	1	0	1	2	0	4	3	4	3	3	4	1	1	3	4	1	2	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		C	56572562	T	C	56572562	3	2	230	1	0	0	0	0	1	0	0	0	9946	1435	50	3	662	3	MTMR4	17	56572562	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	10915736	56572562	24622648	53	12407											
CCDC47	57003	hgsc.bcm.edu	37	chr17	61838603	61838603	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttaccctcagctggataAgcatgccctcacagcacact	11	9	6	15	0	2	0	2	0	0	0	2	1	2	1	2	1	6	3	2	1	3	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	61838603	A	T	61838603	3	4	230	1	0	0	0	0	1	0	0	0	2818	72	3	5	831	5	CCDC47	17	61838603	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10	5266041	61838603	19356607	54	12408											
ANKRD30B	374860	hgsc.bcm.edu	37	chr18	14851929	14851929	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagtgcaggagatgctcCtttgcaaggaataatgaatg	13	9	11	8	0	0	2	0	1	0	1	1	4	1	3	2	2	3	3	2	2	4	2	rs2792527	bycluster;by2hit2allele	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	14851929	C	A	14851929	3	1	230	1	0	0	0	0	1	0	0	0	659	681	24	4	3771	4	ANKRD30B	18	14851929	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		14851929	63225319	55	12409											
PLIN4	729359	hgsc.bcm.edu	37	chr19	4510615	4510615	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggtgaacgtcgccacGtcagtcgcaaggcccttggt	6	9	13	13	4	1	1	1	1	0	0	3	1	1	1	3	3	1	1	3	3	2	2	rs140509702	by1000genomes	TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	4510615	G	A	4510615	2	1	230	1	0	0	0	0	0	0	0	1	12092	1136	40	1		1	PLIN4	19	4510615	Silent	SNP	G	TCGA-BP-4338-01A-01D-1806-10		4510615	54618368	56	12410											
TNFSF9	8744	hgsc.bcm.edu;ucsc.edu	37	chr19	6534712	6534712	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagaggacacgaaggagctgGtggtggccaaggctggagtc	11	5	18	7	1	0	1	0	0	0	1	1	5	0	4	1	7	1	2	1	7	3	0	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	6534712	G	A	6534712	3	1	230	1	0	0	0	0	1	0	0	0	16311	1261	44	2	410	2	TNFSF9	19	6534712	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10	2024097	6534712	52594271	57	12411											
CYP4F11	57834	hgsc.bcm.edu;ucsc.edu	37	chr19	16038275	16038275	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagccatagaaaatcataTccttgggtgcgacagcagct	13	8	11	9	1	1	1	1	0	0	1	2	3	2	2	2	2	4	2	2	2	5	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	16038275	T	A	16038275	3	1	230	1	0	0	0	0	1	0	0	0	4186	1435	50	5	1252	5	CYP4F11	19	16038275	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10	9503563	16038275	43090708	58	12412											
MYT1	4661	hgsc.bcm.edu	37	chr20	62863561	62863561	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcggtcacatcagcgggaAatacgcctctcacaggagcg	10	6	12	13	4	3	0	3	0	1	0	5	2	3	2	1	3	3	1	1	3	2	1	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		T	62863561	A	T	62863561	3	4	230	1	0	0	0	0	1	0	0	0	10106	14	1	5	2786	5	MYT1	20	62863561	Missense_Mutation	SNP	A	TCGA-BP-4338-01A-01D-1806-10		62863561	161959	59	12413											
ZNF295	0	hgsc.bcm.edu	37	chr21	43412479	43412479	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgtgacagatgtcacaagCgtagggcttttctgggttat	8	14	12	7	1	2	2	1	1	1	1	2	2	2	2	0	2	1	3	0	2	3	5	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		G	43412479	C	G	43412479	3	3	230	1	0	0	0	0	1	0	0	0	17826	768	27	4	1478	4	ZNF295	21	43412479	Missense_Mutation	SNP	C	TCGA-BP-4338-01A-01D-1806-10		43412479	4717416	60	12414											
CELSR1	9620	hgsc.bcm.edu;ucsc.edu	37	chr22	46793633	46793633	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcggctattggggggacagGggctcgaggtacaggggtcg	7	6	21	7	3	0	0	0	0	0	0	2	2	0	1	0	9	2	3	0	9	2	3	novel		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		A	46793633	G	A	46793633	3	1	230	1	0	0	0	0	1	0	0	0	3221	1232	43	2	3501	2	CELSR1	22	46793633	Missense_Mutation	SNP	G	TCGA-BP-4338-01A-01D-1806-10		46793633	4510933	61	12415											
SPANXD	64648	hgsc.bcm.edu	37	chrX	140785696	140785696	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagggggttgattctgttctTtcgggcgtggtcattcacca	5	14	14	8	2	4	1	2	1	2	0	5	2	4	1	1	4	0	2	1	4	0	5	rs2983592		TCGA-BP-4338-01A-01D-1806-10	TCGA-BP-4338-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	88266e1d-89b9-41e6-b662-08d144ab0f46	74c2011d-6135-4074-a0de-fedf3b6caa64		C	140785696	T	C	140785696	3	2	230	1	0	0	0	0	1	0	0	0	14990	1850	64	3	77	3	SPANXD	23	140785696	Missense_Mutation	SNP	T	TCGA-BP-4338-01A-01D-1806-10		140785696	14484864	62	12416											
CYP4A22	284541	hgsc.bcm.edu	37	chr1	47610310	47610310	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccacgacaccacagccagtgGgatctcctggatcctctatg	9	8	9	15	1	2	0	0	0	2	0	4	3	3	2	5	2	1	0	5	2	1	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	47610310	G	T	47610310	3	4	231	1	0	0	0	0	1	0	0	0	4184	1232	43	4	1016	4	CYP4A22	1	47610310	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		47610310	201640311	1	12417											
USP24	23358	hgsc.bcm.edu;ucsc.edu	37	chr1	55547097	55547097	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaactccatcgacgtaTctgtcatcagggaagataaa	13	10	9	9	2	3	2	2	1	1	1	5	4	4	3	1	1	2	2	1	1	5	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		C	55547097	T	C	55547097	3	2	231	1	0	0	0	0	1	0	0	0	17054	1449	50	3	926	3	USP24	1	55547097	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	7936787	55547097	193703524	2	12418											
SARS	6301	hgsc.bcm.edu;ucsc.edu	37	chr1	109771043	109771043	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttcgatgaccttactgcaGacgctttagctgtaagttat	9	15	9	8	2	0	2	0	1	0	1	1	3	0	2	1	0	3	6	1	0	4	6	rs145938975		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	109771043	G	A	109771043	3	1	231	1	0	0	0	0	1	0	0	0	13846	942	33	2	287	2	SARS	1	109771043	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	54223946	109771043	139479578	3	12419											
TXNIP	10628	hgsc.bcm.edu;ucsc.edu	37	chr1	145440062	145440064	+	In_Frame_Del	DEL	AAG	AAG	-																															ctgtgtctgctaaaaaagaaAagaaagtttcctgcatgttc																								novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	AAG	AAG	AAG	-	AAG	AAG	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		-	145440064	AAG	-	145440062	7	5	231	1	0	1	0	1	0	0	0	0	16802	15	1	0	510	0	TXNIP	1	145440062	In_Frame_Del	DEL	AAG	TCGA-BP-4340-01A-01D-1366-10	35669019	145440062	103810559	4	12420											
NBAS	51594	hgsc.bcm.edu;ucsc.edu	37	chr2	15468417	15468417	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtagttccgatttgatatGcaccaccacatttttgcccc	8	14	6	13	1	0	1	0	1	0	0	1	2	1	1	5	0	2	3	5	0	2	6	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	15468417	G	A	15468417	3	1	231	1	0	0	0	0	1	0	0	0	10186	1319	46	2	2812	2	NBAS	2	15468417	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		15468417	227730956	5	12421											
TSPYL6	388951	hgsc.bcm.edu	37	chr2	54483083	54483083	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccaagatgtggaaagtaTggccaccatctgcgggatcc	11	7	12	11	2	1	1	0	0	1	1	2	4	2	3	4	3	1	1	4	3	3	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	54483083	T	A	54483083	3	1	231	1	0	0	0	0	1	0	0	0	16662	1464	51	5	1030	5	TSPYL6	2	54483083	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	39014666	54483083	188716290	6	12422											
USP37	57695	hgsc.bcm.edu	37	chr2	219330750	219330750	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgctcttgaaggctctGagccagtgcctgctgaagct	7	12	11	11	0	2	3	0	3	2	0	2	3	2	3	2	1	6	4	2	1	3	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	219330750	G	T	219330750	3	4	231	1	0	0	0	0	1	0	0	0	17067	1299	45	4	514	4	USP37	2	219330750	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	164847667	219330750	23868623	7	12423											
AGFG1	3267	hgsc.bcm.edu	37	chr2	228395821	228395821	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagctcagaattctgcaAatgcagattttgcaaacttt	13	14	6	8	0	2	2	1	0	1	2	2	2	2	2	0	0	6	4	0	0	4	5	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	228395821	A	G	228395821	3	3	231	1	0	0	0	0	1	0	0	0	380	14	1	3	731	3	AGFG1	2	228395821	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10	9065071	228395821	14803552	8	12424											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47059128	47059128	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaagcaaggggagtacCttgcgagccagatgtttaaa	15	7	11	8	1	0	1	0	0	0	1	0	3	0	2	3	2	4	3	3	2	6	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	47059128	C	T	47059128	2	4	231	1	0	0	0	0	0	0	0	1	14133	695	24	2		2	SETD2	3	47059128	Silent	SNP	C	TCGA-BP-4340-01A-01D-1366-10		47059128	150963302	9	12425											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52436689	52436689	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtccttctctggtcatcaAtctgtaggagagaagaagac	11	10	12	8	0	4	3	2	0	2	3	6	5	5	4	1	3	0	1	1	3	4	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	52436689	A	T	52436689	3	4	231	1	0	0	0	0	1	0	0	0	1311	115	4	5	212	5	BAP1	3	52436689	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10	5377561	52436689	145585741	10	12426											
ATG3	64422	hgsc.bcm.edu	37	chr3	112269053	112269053	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaccatttttggttaccAaaaattgtttgcctgttggt	8	19	7	7	0	1	0	0	0	1	0	1	0	1	0	3	2	3	3	3	2	4	7	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	112269053	A	G	112269053	3	3	231	1	0	0	0	0	1	0	0	0	1095	131	5	3	759	3	ATG3	3	112269053	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10	59832364	112269053	85753377	11	12427											
IQCB1	9657	hgsc.bcm.edu;ucsc.edu	37	chr3	121545007	121545007	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcatcttctcctggcTccaagcccacacagcaatgg	8	9	7	17	0	3	0	0	0	3	0	5	0	4	0	4	2	3	3	4	2	2	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	121545007	T	A	121545007	3	1	231	1	0	0	0	0	1	0	0	0	7803	1551	54	5	1556	5	IQCB1	3	121545007	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	9275954	121545007	76477423	12	12428											
RSRC1	51319	hgsc.bcm.edu;ucsc.edu	37	chr3	158261178	158261178	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacatcaggaccagcatcaGcagttgctgatccacccagt	12	7	8	14	0	2	1	2	1	0	0	3	2	3	2	3	1	4	4	3	1	1	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	158261178	G	A	158261178	3	1	231	1	0	0	0	0	1	0	0	0	13716	971	34	2	844	2	RSRC1	3	158261178	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	36716171	158261178	39761252	13	12429											
NAA11	84779	hgsc.bcm.edu;ucsc.edu	37	chr4	80246576	80246576	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagctcatctgccatctgCgagagatcccgcttcatagc	8	10	8	15	2	5	1	3	0	2	1	6	3	6	1	2	0	4	2	2	0	1	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	80246576	C	A	80246576	2	1	231	1	0	0	0	0	0	0	0	1	10117	755	27	4		4	NAA11	4	80246576	Silent	SNP	C	TCGA-BP-4340-01A-01D-1366-10		80246576	110907700	14	12430											
WDFY3	23001	hgsc.bcm.edu;ucsc.edu	37	chr4	85748120	85748120	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctttggattctgcctctTttgcttgttccaatctagaa	7	18	6	10	0	4	1	0	0	4	1	5	2	5	2	2	1	2	2	2	1	3	7	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		C	85748120	T	C	85748120	3	2	231	1	0	0	0	0	1	0	0	0	17269	1841	64	3	9888	3	WDFY3	4	85748120	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	5501544	85748120	105406156	15	12431											
FAM105A	54491	hgsc.bcm.edu;ucsc.edu	37	chr5	14608927	14608927	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacacccttttttcagatgCcattctggaatataaacttt	12	15	4	10	0	2	1	1	0	1	1	2	2	2	2	2	1	3	0	2	1	5	7	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	14608927	C	T	14608927	3	4	231	1	0	0	0	0	1	0	0	0	5387	739	26	2	724	2	FAM105A	5	14608927	Missense_Mutation	SNP	C	TCGA-BP-4340-01A-01D-1366-10		14608927	166306333	16	12432											
AP3B1	8546	hgsc.bcm.edu;ucsc.edu	37	chr5	77523970	77523970	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcactccattatttacctTcagagctcgctgaaaagtgc	11	12	6	12	1	2	2	2	1	0	1	4	2	3	2	2	0	3	2	2	0	4	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		C	77523970	T	C	77523970	3	2	231	1	0	0	0	0	1	0	0	0	744	1792	62	3	3007	3	AP3B1	5	77523970	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	62915043	77523970	103391290	17	12433											
GUCA1B	2979	hgsc.bcm.edu;ucsc.edu	37	chr6	42156333	42156333	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaacctccacaatgttgAgtagctccaggcggtcgatg	10	9	10	12	2	0	1	0	1	0	0	3	2	2	1	3	2	2	3	3	2	3	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	42156333	A	G	42156333	3	3	231	1	0	0	0	0	1	0	0	0	6889	304	11	3	270	3	GUCA1B	6	42156333	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10		42156333	128958734	18	12434											
PCLO	27445	hgsc.bcm.edu;ucsc.edu	37	chr7	82595120	82595120	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggttccacctgatcaggTtttgctgtgcatggtggctg	5	13	13	10	0	1	1	1	1	0	0	2	1	2	1	3	4	2	5	3	4	0	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		C	82595120	T	C	82595120	2	2	231	1	0	0	0	0	0	0	0	1	11583	1722	60	3		3	PCLO	7	82595120	Silent	SNP	T	TCGA-BP-4340-01A-01D-1366-10		82595120	76543543	19	12435											
SDCBP	6386	hgsc.bcm.edu	37	chr8	59490730	59490730	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcacaaggtgctcaaacagGcttttggagagaagattacc	13	8	11	9	1	1	2	1	0	0	2	1	4	1	3	1	3	3	3	1	3	4	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	59490730	G	A	59490730	3	1	231	1	0	0	0	0	1	0	0	0	13957	1203	42	2	559	2	SDCBP	8	59490730	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		59490730	86873292	20	12436											
GML	2765	hgsc.bcm.edu;ucsc.edu	37	chr8	143927977	143927977	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaatgcaggaggacctacTaatcttgaaagggacatgtt	13	10	11	7	0	1	1	0	1	1	0	1	4	1	4	1	3	3	3	1	3	4	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	143927977	T	G	143927977	2	3	231	1	0	0	0	0	0	0	0	1	6492	1509	53	5		5	GML	8	143927977	Silent	SNP	T	TCGA-BP-4340-01A-01D-1366-10	84437247	143927977	2436045	21	12437											
HNRNPK	3190	hgsc.bcm.edu	37	chr9	86585175	86585175	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaaggctcatcaattttGatcgaagctcccgactcatg	11	12	7	11	2	4	1	3	1	1	0	6	3	5	1	1	1	1	2	1	1	4	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	86585175	G	T	86585175	2	4	231	1	0	0	0	0	0	0	0	1	7269	1280	45	4		4	HNRNPK	9	86585175	Silent	SNP	G	TCGA-BP-4340-01A-01D-1366-10		86585175	54628256	22	12438											
SLC16A9	220963	hgsc.bcm.edu;ucsc.edu	37	chr10	61443944	61443944	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccagccattctatgtacaGgactccaacagctagtgggg	11	9	10	11	0	1	0	0	0	1	0	3	1	3	1	3	3	4	2	3	3	4	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	61443944	G	T	61443944	3	4	231	1	0	0	0	0	1	0	0	0	14417	991	35	4	1443	4	SLC16A9	10	61443944	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		61443944	74090803	23	12439											
IKZF5	64376	hgsc.bcm.edu;ucsc.edu	37	chr10	124753309	124753309	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaatcaatgttggttaTgttgccctcttgcaaaatga	10	17	7	7	0	3	1	2	1	1	0	3	1	3	1	1	1	2	4	1	1	5	6	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		C	124753309	T	C	124753309	3	2	231	1	0	0	0	0	1	0	0	0	7618	1464	51	3	16	3	IKZF5	10	124753309	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	63309365	124753309	10781438	24	12440											
TRPM5	29850	hgsc.bcm.edu;ucsc.edu	37	chr11	2439023	2439023	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgctcgaagtcatacaCggtgagcaggtgctggtgtg	7	10	14	10	2	1	1	1	1	0	0	3	2	2	1	1	3	4	3	1	3	2	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	2439023	C	A	2439023	3	1	231	1	0	0	0	0	1	0	0	0	16588	536	19	4	2626	4	TRPM5	11	2439023	Missense_Mutation	SNP	C	TCGA-BP-4340-01A-01D-1366-10		2439023	132567493	25	12441											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6568627	6568627	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggtggagagcagacttGgcagtgtatacttagtgccc	8	11	15	7	0	0	2	0	0	0	2	0	3	0	2	1	3	3	3	1	3	3	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		C	6568627	G	C	6568627	3	2	231	1	0	0	0	0	1	0	0	0	4668	1357	47	4	6541	4	DNHD1	11	6568627	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	4129604	6568627	128437889	26	12442											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6579324	6579326	+	In_Frame_Del	DEL	TGC	TGC	-																															ctacgagatgccagctggcaTgctggcatgttaagccagcc																								novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		-	6579326	TGC	-	6579324	7	5	231	1	0	1	0	1	0	0	0	0	4668	1461	51	0	8898	0	DNHD1	11	6579324	In_Frame_Del	DEL	TGC	TCGA-BP-4340-01A-01D-1366-10	10697	6579324	128427192	27	12443											
SLC5A12	159963	hgsc.bcm.edu;ucsc.edu	37	chr11	26720047	26720047	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagacagcacacaccagaAtgatccagagacccagcaag	18	2	9	12	0	0	5	0	1	0	4	1	6	1	5	3	0	2	2	3	0	3	0	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	26720047	A	G	26720047	3	3	231	1	0	0	0	0	1	0	0	0	14666	101	4	3	1035	3	SLC5A12	11	26720047	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10	20140723	26720047	108286469	28	12444											
PGM2L1	283209	hgsc.bcm.edu	37	chr11	74081946	74081946	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccaacacaacacacttaCtacaaaaggtgtaggaacat	18	7	5	11	0	1	0	1	0	0	0	1	1	1	1	1	2	5	1	1	2	8	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	74081946	C	T	74081946	5	4	231	1	0	0	0	0	0	0	1	0	11799	579	20	2	1440	2	PGM2L1	11	74081946	Splice_Site	SNP	C	TCGA-BP-4340-01A-01D-1366-10	47361899	74081946	60924570	29	12445											
ARID2	196528	hgsc.bcm.edu;ucsc.edu	37	chr12	46230650	46230650	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaatctttcctttgaggAgggcaatgttaagctcttgg	10	13	12	6	0	2	2	0	1	2	1	3	4	3	3	1	3	1	3	1	3	3	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	46230650	A	T	46230650	3	4	231	1	0	0	0	0	1	0	0	0	915	304	11	5	929	5	ARID2	12	46230650	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10		46230650	87621245	30	12446											
LIMA1	51474	hgsc.bcm.edu	37	chr12	50615812	50615812	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccaattcttaccttagtttGagttggttcacctttctcaa	8	17	5	11	0	3	1	2	1	2	0	4	1	3	1	3	1	1	3	3	1	4	7	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	50615812	G	A	50615812	4	1	231	1	0	0	0	0	0	1	0	0	8796	1299	45	2	1692	2	LIMA1	12	50615812	Nonsense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	4385162	50615812	83236083	31	12447											
PCBP2	5094	hgsc.bcm.edu;ucsc.edu	37	chr12	53848638	53848638	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcactctcaccatccggctActtatgcatggaaaggtatg	10	11	9	11	1	2	0	2	0	1	0	4	1	3	1	2	3	2	3	2	3	4	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	53848638	A	T	53848638	2	4	231	1	0	0	0	0	0	0	0	1	11501	378	14	5		5	PCBP2	12	53848638	Silent	SNP	A	TCGA-BP-4340-01A-01D-1366-10	3232826	53848638	80003257	32	12448											
RIMBP2	23504	hgsc.bcm.edu;ucsc.edu	37	chr12	130897262	130897262	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtatctcagagaccatgttaCaaggaataaggccaagccgg	14	7	11	9	1	1	1	1	0	1	1	2	3	1	2	3	3	2	2	3	3	6	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	130897262	C	G	130897262	3	3	231	1	0	0	0	0	1	0	0	0	13365	478	17	4	455	4	RIMBP2	12	130897262	Missense_Mutation	SNP	C	TCGA-BP-4340-01A-01D-1366-10	77048624	130897262	2954633	33	12449											
SPTB	6710	hgsc.bcm.edu	37	chr14	65237810	65237810	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctccccagcatatgctGtctgcagacgggtggccacg	6	9	11	15	2	2	1	0	0	2	1	3	1	2	1	4	2	3	3	4	2	1	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	65237810	G	A	65237810	3	1	231	1	0	0	0	0	1	0	0	0	15119	1377	48	2	1504	2	SPTB	14	65237810	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		65237810	42111730	34	12450											
C15orf2	0	hgsc.bcm.edu	37	chr15	24922520	24922520	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccccccaacacctcctagCtccacaccctccttcaagcc	9	6	3	23	0	1	0	1	0	0	0	4	1	4	0	9	0	3	1	9	0	3	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	24922520	C	T	24922520	2	4	231	1	0	0	0	0	0	0	0	1	1784	796	28	2		2	C15orf2	15	24922520	Silent	SNP	C	TCGA-BP-4340-01A-01D-1366-10		24922520	77608872	35	12451											
CCNDBP1	23582	hgsc.bcm.edu;ucsc.edu	37	chr15	43482567	43482567	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacaacagtgtctgggttgCgtgccagcagatgcctcaga	9	9	12	11	1	2	2	1	0	1	2	2	2	2	2	2	1	6	2	2	1	2	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	43482567	C	T	43482567	3	4	231	1	0	0	0	0	1	0	0	0	2919	768	27	1	495	1	CCNDBP1	15	43482567	Missense_Mutation	SNP	C	TCGA-BP-4340-01A-01D-1366-10	18560047	43482567	59048825	36	12452											
ANPEP	290	hgsc.bcm.edu;ucsc.edu	37	chr15	90348362	90348362	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgaactcactgacaatgaAggccagcaagtacgtggaca	14	6	11	10	2	1	2	1	2	0	0	2	4	1	3	1	2	3	2	1	2	5	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	90348362	A	G	90348362	3	3	231	1	0	0	0	0	1	0	0	0	710	72	3	3	2131	3	ANPEP	15	90348362	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10	46865795	90348362	12183030	37	12453											
PRDM7	11105	hgsc.bcm.edu;ucsc.edu	37	chr16	90127868	90127868	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtggccttacctcatccaGttggccgaggatttatcttt	7	15	9	10	1	2	0	1	0	1	0	3	2	3	1	4	3	1	1	4	3	3	6	rs139778453	alternate_allele	TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	90127868	G	T	90127868	3	4	231	1	0	0	0	0	1	0	0	0	12463	1020	36	4	548	4	PRDM7	16	90127868	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		90127868	226885	38	12454											
CHD3	1107	hgsc.bcm.edu;ucsc.edu	37	chr17	7797795	7797795	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctacgagacggatcaccagGattactgtgaggtgtgccag	10	8	14	9	2	1	2	1	1	0	1	1	5	1	4	2	3	3	1	2	3	2	2	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	7797795	G	A	7797795	3	1	231	1	0	0	0	0	1	0	0	0	3326	1174	41	2	1449	2	CHD3	17	7797795	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10		7797795	73397415	39	12455											
PIGS	94005	hgsc.bcm.edu	37	chr17	26888452	26888452	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctacccaagctggactTgagaggccgcctcttctcag	7	9	10	15	1	2	1	1	1	2	1	3	3	2	2	4	2	3	1	4	2	2	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	26888452	T	G	26888452	3	3	231	1	0	0	0	0	1	0	0	0	11898	1821	63	5	1031	5	PIGS	17	26888452	Missense_Mutation	SNP	T	TCGA-BP-4340-01A-01D-1366-10	19090657	26888452	54306758	40	12456											
SCN4A	6329	hgsc.bcm.edu;ucsc.edu	37	chr17	62018757	62018757	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgaactgggtggcgtcggGgtcgaacttctcccatgtct	6	11	14	10	3	2	1	0	1	2	0	5	3	2	1	1	4	2	0	1	4	2	1	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	62018757	G	A	62018757	3	1	231	1	0	0	0	0	1	0	0	0	13922	1232	43	2	629	2	SCN4A	17	62018757	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	35130305	62018757	19176453	41	12457											
TBCD	6904	hgsc.bcm.edu;ucsc.edu	37	chr17	80887147	80887147	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggaaaagctgtttcccaGgtactgtcggggtgtaggcc	8	10	14	9	1	0	0	0	0	0	0	2	1	1	1	2	5	2	4	2	5	4	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	80887147	G	A	80887147	3	1	231	1	0	0	0	0	1	0	0	0	15632	1014	35	2	2974	2	TBCD	17	80887147	Missense_Mutation	SNP	G	TCGA-BP-4340-01A-01D-1366-10	18868390	80887147	308063	42	12458											
DOCK6	57572	hgsc.bcm.edu	37	chr19	11311437	11311437	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcaatttgttgtgatgcCggaagagcttggggtcttcc	6	12	14	9	2	1	2	0	1	1	1	2	3	2	3	3	3	2	3	3	3	2	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		A	11311437	C	A	11311437	3	1	231	1	0	0	0	0	1	0	0	0	4691	652	23	4	261	4	DOCK6	19	11311437	Missense_Mutation	SNP	C	TCGA-BP-4340-01A-01D-1366-10		11311437	47817546	43	12459											
BRD4	23476	hgsc.bcm.edu;ucsc.edu	37	chr19	15367030	15367030	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttctttggtttgttctgCtggggctgagagagggctgc	3	17	15	6	0	2	2	0	1	2	1	2	3	2	2	0	4	2	5	0	4	0	5	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	15367030	C	T	15367030	2	4	231	1	0	0	0	0	0	0	0	1	1504	796	28	2		2	BRD4	19	15367030	Silent	SNP	C	TCGA-BP-4340-01A-01D-1366-10	4055593	15367030	43761953	44	12460											
KIAA1644	85352	hgsc.bcm.edu	37	chr22	44681611	44681611	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagatccacactcccaacAaggcggtgtaattgctgcga	12	8	9	12	2	0	1	0	0	0	1	2	2	2	1	2	2	3	2	2	2	4	3	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		G	44681611	A	G	44681611	3	3	231	1	0	0	0	0	1	0	0	0	8250	131	5	3	311	3	KIAA1644	22	44681611	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10		44681611	6622955	45	12461											
ZNF280C	55609	hgsc.bcm.edu;ucsc.edu	37	chrX	129377594	129377594	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatttagatacaagatgAaatctaggcgaggcagccac	16	7	11	7	1	1	4	0	1	1	3	1	6	1	4	1	2	2	1	1	2	6	4	novel		TCGA-BP-4340-01A-01D-1366-10	TCGA-BP-4340-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c8748a7-3d9c-48e1-834f-5b0fcaa11ffd	88066acc-daf3-4d73-965e-d4682521dba6		T	129377594	A	T	129377594	3	4	231	1	0	0	0	0	1	0	0	0	17815	243	9	5	1949	5	ZNF280C	23	129377594	Missense_Mutation	SNP	A	TCGA-BP-4340-01A-01D-1366-10		129377594	25892966	46	12462											
VHL	7428	hgsc.bcm.edu	37	chr3	10183850	10183850	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgccgcctggcacgggcCgccgcatccacagctaccga	6	4	12	19	6	0	0	0	0	0	0	1	1	1	0	6	2	3	4	6	2	1	1	novel		TCGA-BP-4340-01A-01W-1362-10	TCGA-BP-4340-11A-01W-1362-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	d171d7fb-084e-4402-bada-d4318793eb71	0c9518f3-0d78-44e3-a5af-cbcc8a2d53bb		G	10183850	C	G	10183850	3	3	232	1	0	0	0	0	1	0	0	0	17161	652	23	4	321	4	VHL	3	10183850	Missense_Mutation	SNP	C	TCGA-BP-4340-01A-01W-1362-10		10183850	187838580	1	12463											
ZBTB48	3104	hgsc.bcm.edu	37	chr1	6640756	6640756	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagtactgcgacgccacTctggacgtggggggcctggt	5	7	17	12	3	1	0	0	0	1	0	1	2	1	1	3	6	2	1	3	6	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	6640756	T	A	6640756	2	1	233	1	0	0	0	0	0	0	0	1	17548	1538	54	5		5	ZBTB48	1	6640756	Silent	SNP	T	TCGA-BP-4341-01A-01D-1366-10		6640756	242609865	1	12464											
CAMTA1	23261	hgsc.bcm.edu;ucsc.edu	37	chr1	7737703	7737703	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagttgccttcaacaacCagatcatctccaactcggtg	12	10	6	13	1	3	1	2	0	1	1	5	1	3	1	3	1	5	1	3	1	5	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	7737703	C	A	7737703	3	1	233	1	0	0	0	0	1	0	0	0	2613	595	21	4	2866	4	CAMTA1	1	7737703	Missense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10	1096947	7737703	241512918	2	12465											
HTR6	3362	hgsc.bcm.edu	37	chr1	20005532	20005532	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggacttcaagcgggcgctgGgcaggttcctgccatgtcca	6	8	15	12	2	1	0	1	0	0	0	3	1	3	1	3	4	2	3	3	4	1	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	20005532	G	C	20005532	3	2	233	1	0	0	0	0	1	0	0	0	7451	1232	43	4	1004	4	HTR6	1	20005532	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	12267829	20005532	229245089	3	12466											
RBM15	64783	hgsc.bcm.edu	37	chr1	110883715	110883715	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaccagaccctttgagggGtgctcgggataggacaccac	9	6	14	12	1	0	2	0	1	0	1	1	4	0	4	3	5	1	2	3	5	1	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	110883715	G	A	110883715	3	1	233	1	0	0	0	0	1	0	0	0	13118	1261	44	2	1690	2	RBM15	1	110883715	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	90878183	110883715	138366906	4	12467											
TCHHL1	126637	hgsc.bcm.edu;ucsc.edu	37	chr1	152058664	152058664	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtgctaaatcttgtgtTctttctcttgcccccagtgt	5	17	9	10	0	3	0	0	0	3	0	4	0	3	0	2	1	2	2	2	1	2	5	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		G	152058664	T	G	152058664	3	3	233	1	0	0	0	0	1	0	0	0	15700	1780	62	5	1224	5	TCHHL1	1	152058664	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10	41174949	152058664	97191957	5	12468											
GON4L	54856	hgsc.bcm.edu;ucsc.edu	37	chr1	155774833	155774833	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatacatatctggagtgaTgtctggagcttggagctctg	8	13	13	7	0	4	1	1	1	3	0	4	4	4	4	0	3	3	2	0	3	2	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	155774833	T	A	155774833	3	1	233	1	0	0	0	0	1	0	0	0	6572	1464	51	5	5375	5	GON4L	1	155774833	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10	3716169	155774833	93475788	6	12469											
DTNB	1838	hgsc.bcm.edu;ucsc.edu	37	chr2	25754365	25754365	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgtgcaaggtcaagtggTttctctggttgctcaggaaa	10	13	12	6	0	3	0	2	0	1	0	4	1	3	1	0	4	2	4	0	4	4	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	25754365	T	C	25754365	2	2	233	1	0	0	0	0	0	0	0	1	4789	1722	60	3		3	DTNB	2	25754365	Silent	SNP	T	TCGA-BP-4341-01A-01D-1366-10		25754365	217445008	7	12470											
ZNF385B	151126	hgsc.bcm.edu;ucsc.edu	37	chr2	180383279	180383279	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagttaaagcgaagctgacaGacattacaagaaataacttg	18	8	9	6	1	0	3	0	1	0	2	0	5	0	3	0	0	4	2	0	0	7	4	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	180383279	G	A	180383279	2	1	233	1	0	0	0	0	0	0	0	1	17876	929	33	2		2	ZNF385B	2	180383279	Silent	SNP	G	TCGA-BP-4341-01A-01D-1366-10	154628914	180383279	62816094	8	12471											
OBSL1	23363	hgsc.bcm.edu	37	chr2	220421377	220421377	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggagacttcacaccggaAcgtggcatcatcgccctcgt	8	8	12	13	4	2	1	2	0	0	1	4	3	2	2	2	4	1	1	2	4	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		G	220421377	A	G	220421377	3	3	233	1	0	0	0	0	1	0	0	0	10813	43	2	3	1614	3	OBSL1	2	220421377	Missense_Mutation	SNP	A	TCGA-BP-4341-01A-01D-1366-10	40038098	220421377	22777996	9	12472											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188289	10188289	+	Frame_Shift_Del	DEL	A	A	-																															ccatctctcaatgttgacggAcagcctatttttgccaatat																								novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		-	10188289	A	-	10188289	7	5	233	1	0	1	0	1	0	0	0	0	17161	262	10	0	438	0	VHL	3	10188289	Frame_Shift_Del	DEL	A	TCGA-BP-4341-01A-01D-1366-10		10188289	187834141	10	12473											
DOCK3	1795	hgsc.bcm.edu;ucsc.edu	37	chr3	51284171	51284171	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccagggagctcatccgctGtttgaagtggtatatggact	8	12	12	9	1	1	1	1	1	0	0	3	3	3	3	2	3	1	4	2	3	3	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	51284171	G	C	51284171	3	2	233	1	0	0	0	0	1	0	0	0	4688	1377	48	4	2203	4	DOCK3	3	51284171	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	41095882	51284171	146738259	11	12474											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52621464	52621464	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttttctagaaattttcGtgtagccaggtggaatgttt	8	19	9	5	1	2	1	0	0	2	1	3	2	2	2	1	2	1	2	1	2	4	8	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	52621464	G	A	52621464	4	1	233	1	0	0	0	0	0	1	0	0	11491	1153	40	1	1920	1	PBRM1	3	52621464	Nonsense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	1337293	52621464	145400966	12	12475											
TNFSF10	8743	hgsc.bcm.edu;ucsc.edu	37	chr3	172232773	172232773	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcaatgccacttttggAgtacttgtcctgcatctggg	9	12	10	10	0	1	0	0	0	1	0	2	1	2	1	2	2	4	3	2	2	3	4	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	172232773	A	T	172232773	3	4	233	1	0	0	0	0	1	0	0	0	16300	304	11	5	713	5	TNFSF10	3	172232773	Missense_Mutation	SNP	A	TCGA-BP-4341-01A-01D-1366-10	119611309	172232773	25789657	13	12476											
POLR2B	5431	hgsc.bcm.edu;ucsc.edu	37	chr4	57873145	57873145	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgatcaaaagaaagctcatCaagccagagctggagtatct	15	8	10	8	0	4	3	3	1	1	2	4	4	4	4	1	1	3	3	1	1	5	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	57873145	C	T	57873145	4	4	233	1	0	0	0	0	0	1	0	0	12215	827	29	2	1419	2	POLR2B	4	57873145	Nonsense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10		57873145	133281131	14	12477											
PALLD	23022	hgsc.bcm.edu	37	chr4	169842820	169842820	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagtcacgtcacgtgatGccggcatctacacatgtata	11	9	9	12	3	3	1	2	1	1	0	3	1	3	1	2	1	3	2	2	1	3	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	169842820	G	A	169842820	3	1	233	1	0	0	0	0	1	0	0	0	11407	1319	46	2	3559	2	PALLD	4	169842820	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	111969675	169842820	21311456	15	12478											
PDGFRB	5159	hgsc.bcm.edu	37	chr5	149506122	149506122	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgataagggagatgatGgtgagcaccaccagggccag	13	5	16	7	0	0	4	0	3	0	1	0	6	0	5	3	4	1	1	3	4	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	149506122	G	C	149506122	2	2	233	1	0	0	0	0	0	0	0	1	11662	1335	47	4		4	PDGFRB	5	149506122	Silent	SNP	G	TCGA-BP-4341-01A-01D-1366-10		149506122	31409138	16	12479											
C6orf146	0	hgsc.bcm.edu;ucsc.edu	37	chr6	4069285	4069285	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttcaatcaattgttttgggGtggaagaactttttagagac	11	16	10	4	0	2	2	2	0	0	2	2	4	2	3	0	3	1	1	0	3	5	7	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	4069285	G	A	4069285	3	1	233	1	0	0	0	0	1	0	0	0	2335	1261	44	2	358	2	C6orf146	6	4069285	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10		4069285	167045782	17	12480											
KLC4	89953	hgsc.bcm.edu;ucsc.edu	37	chr6	43042370	43042370	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgtttcaggtctcccgggGcctcagtgccagcaccatgg	5	10	12	14	1	4	0	2	0	2	0	5	0	4	0	4	4	2	2	4	4	0	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	43042370	G	A	43042370	3	1	233	1	0	0	0	0	1	0	0	0	8336	1203	42	2	2005	2	KLC4	6	43042370	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	38973085	43042370	128072697	18	12481											
GRIK2	2898	hgsc.bcm.edu;ucsc.edu	37	chr6	102483373	102483373	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcgagtttgttacccagcGgaactgtaacctgacacaga	12	9	9	11	2	0	2	0	1	0	1	1	4	0	3	2	1	4	3	2	1	3	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	102483373	G	A	102483373	3	1	233	1	0	0	0	0	1	0	0	0	6774	1116	39	1	2297	1	GRIK2	6	102483373	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	59441003	102483373	68631694	19	12482											
RTN4IP1	84816	hgsc.bcm.edu;ucsc.edu	37	chr6	107069326	107069326	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactgactacaacaaactCtgaaagagtgccttgtttcc	12	10	6	13	0	1	3	0	2	1	1	2	3	2	3	3	0	4	1	3	0	4	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	107069326	C	A	107069326	4	1	233	1	0	0	0	0	0	1	0	0	13731	922	32	4	749	4	RTN4IP1	6	107069326	Nonsense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10	4585953	107069326	64045741	20	12483											
MAP3K5	4217	hgsc.bcm.edu	37	chr6	137112970	137112970	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctgcagggcctcgctcTcggccaccaccagttgccct	5	8	10	18	2	2	0	0	0	2	0	4	0	2	0	5	2	3	4	5	2	0	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	137112970	T	A	137112970	3	1	233	1	0	0	0	0	1	0	0	0	9253	1551	54	5	3918	5	MAP3K5	6	137112970	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10	30043644	137112970	34002097	21	12484											
SYNE1	23345	hgsc.bcm.edu	37	chr6	152461141	152461141	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagtgctgagttccagacGctggagctgttccaactcct	7	11	11	12	1	1	2	1	1	0	1	4	3	4	3	3	1	3	5	3	1	1	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	152461141	G	T	152461141	3	4	233	1	0	0	0	0	1	0	0	0	15444	1087	38	4	1019	4	SYNE1	6	152461141	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	15348171	152461141	18653926	22	12485											
EGFR	1956	hgsc.bcm.edu	37	chr7	55259437	55259437	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactacttggaggaccgtcGcttggtgcaccgcgacctgg	7	8	14	12	4	0	0	0	0	0	0	1	4	0	2	3	4	3	2	3	4	2	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	55259437	G	A	55259437	3	1	233	1	0	0	0	0	1	0	0	0	4967	1087	38	1	2841	1	EGFR	7	55259437	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10		55259437	103879226	23	12486											
FOXP2	93986	hgsc.bcm.edu	37	chr7	114268729	114268729	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaggctgtcatgctgcaGcaggtaatgtgggttacctg	8	10	14	9	0	1	0	1	0	0	0	1	0	1	0	1	3	5	7	1	3	2	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	114268729	G	T	114268729	3	4	233	1	0	0	0	0	1	0	0	0	6027	962	34	4	482	4	FOXP2	7	114268729	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	59009292	114268729	44869934	24	12487											
FAM22F	54754	hgsc.bcm.edu	37	chr9	97081994	97081994	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aattcttccaggaatcggggGtgaatgacggcctccacctg	9	9	12	11	2	1	2	0	2	1	0	4	3	3	3	4	4	0	0	4	4	3	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	97081994	G	A	97081994	2	1	233	1	0	0	0	0	0	0	0	1	5545	1252	44	2		2	FAM22F	9	97081994	Silent	SNP	G	TCGA-BP-4341-01A-01D-1366-10		97081994	44131437	25	12488											
POMT1	10585	hgsc.bcm.edu	37	chr9	134397604	134397604	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcacatcagcgaccacCtgtgcaggtacgggggctgc	8	6	14	13	2	1	0	1	0	0	0	1	1	1	0	2	3	6	5	2	3	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		G	134397604	C	G	134397604	3	3	233	1	0	0	0	0	1	0	0	0	12245	680	24	4	2132	4	POMT1	9	134397604	Missense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10	37315610	134397604	6815827	26	12489											
POLR3A	11128	hgsc.bcm.edu;ucsc.edu	37	chr10	79744977	79744977	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaatccggggcacgcccaGggtgatgttcatggaggcca	8	9	14	10	2	1	1	1	1	0	0	2	2	2	2	3	5	0	2	3	5	1	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	79744977	G	C	79744977	3	2	233	1	0	0	0	0	1	0	0	0	12228	991	35	4	1011	4	POLR3A	10	79744977	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10		79744977	55789770	27	12490											
MPPED2	744	hgsc.bcm.edu;ucsc.edu	37	chr11	30435856	30435856	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctccacacagcccactcTttgaagctcctttggaaccc	9	9	6	17	0	1	1	0	1	1	0	3	2	3	2	4	1	4	2	4	1	2	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	30435856	T	C	30435856	3	2	233	1	0	0	0	0	1	0	0	0	9742	1617	56	3	279	3	MPPED2	11	30435856	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10		30435856	104570660	28	12491											
FADS3	3995	hgsc.bcm.edu;ucsc.edu	37	chr11	61643923	61643923	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgaaccagtggctttccaGgaccctgtggggaggctcgg	7	7	15	12	2	0	0	0	0	0	0	2	3	1	2	3	6	1	2	3	6	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	61643923	G	T	61643923	3	4	233	1	0	0	0	0	1	0	0	0	5367	991	35	4	365	4	FADS3	11	61643923	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	31208067	61643923	73362593	29	12492											
RPS6KB2	6199	hgsc.bcm.edu	37	chr11	67197002	67197002	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccctgccctacaggtgtTccaggtgcgaaaggtgcaag	8	8	12	13	1	0	0	0	0	0	0	2	1	2	0	4	3	4	2	4	3	3	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		G	67197002	T	G	67197002	3	3	233	1	0	0	0	0	1	0	0	0	13659	1783	62	5	259	5	RPS6KB2	11	67197002	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10	5553079	67197002	67809514	30	12493											
MED17	9440	hgsc.bcm.edu;ucsc.edu	37	chr11	93535101	93535101	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttatgaatctagtgtgaaaGttttaatcacatcacaaggc	14	14	7	6	0	3	2	2	2	1	0	3	2	3	2	0	1	0	1	0	1	6	5	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	93535101	G	T	93535101	3	4	233	1	0	0	0	0	1	0	0	0	9435	1029	36	4	1463	4	MED17	11	93535101	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	26338099	93535101	41471415	31	12494											
SLCO1B1	10599	hgsc.bcm.edu	37	chr12	21355424	21355424	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttttttcttttttttctaGgagtcataaccatacctatt	8	22	3	8	0	3	0	1	0	2	0	3	1	3	1	2	1	2	0	2	1	4	12	rs143895524	alternate_allele	TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	21355424	G	T	21355424	5	4	233	1	0	0	0	0	0	0	1	0	14725	1014	35	4	1169	4	SLCO1B1	12	21355424	Splice_Site	SNP	G	TCGA-BP-4341-01A-01D-1366-10		21355424	112496471	32	12495											
ADAMTS20	80070	hgsc.bcm.edu;ucsc.edu	37	chr12	43896209	43896209	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtttcctttatttgactttCtagggagaaaaaaagaatat	14	15	8	4	0	1	3	0	1	1	2	2	4	2	3	1	2	0	1	1	2	7	7	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	43896209	C	T	43896209	5	4	233	1	0	0	0	0	0	0	1	0	266	927	32	2	5262	2	ADAMTS20	12	43896209	Splice_Site	SNP	C	TCGA-BP-4341-01A-01D-1366-10	22540785	43896209	89955686	33	12496											
FGD6	55785	hgsc.bcm.edu;ucsc.edu	37	chr12	95602827	95602827	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatattttcatactccggtgCacagaggcttgtaacagact	11	13	8	9	1	1	2	1	0	0	2	2	2	2	2	1	2	3	3	1	2	4	7	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	95602827	C	A	95602827	3	1	233	1	0	0	0	0	1	0	0	0	5837	710	25	4	2139	4	FGD6	12	95602827	Missense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10	51706618	95602827	38249068	34	12497											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105405419	105405419	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctttgaaattgggggagCttccaaaggcaggttaaggt	11	10	14	6	0	0	1	0	1	0	0	1	3	1	2	2	5	1	3	2	5	3	4	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	105405419	C	A	105405419	3	1	233	1	0	0	0	0	1	0	0	0	415	797	28	4	1022	4	AHNAK2	14	105405419	Missense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10		105405419	1944121	35	12498											
FMN1	342184	hgsc.bcm.edu;ucsc.edu	37	chr15	33358817	33358817	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcgcttgagagcttccagCtcagaggtgtcagctgtggt	6	12	14	9	1	2	2	2	1	0	2	3	3	3	2	1	2	4	4	1	2	0	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	33358817	C	T	33358817	2	4	233	1	0	0	0	0	0	0	0	1	5949	796	28	2		2	FMN1	15	33358817	Silent	SNP	C	TCGA-BP-4341-01A-01D-1366-10		33358817	69172575	36	12499											
TRPM7	54822	hgsc.bcm.edu;ucsc.edu	37	chr15	50899483	50899483	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taactgttccatttgtacaaGaaccacaaatgtataaagca	17	11	5	8	0	0	1	0	0	0	1	1	1	1	1	2	0	4	4	2	0	8	6	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	50899483	G	C	50899483	3	2	233	1	0	0	0	0	1	0	0	0	16590	942	33	4	3054	4	TRPM7	15	50899483	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10	17540666	50899483	51631909	37	12500											
PRC1	9055	hgsc.bcm.edu;ucsc.edu	37	chr15	91523521	91523521	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctggctataaaagcaCtggtcccagtactgaaccag	11	9	9	12	0	0	1	0	1	0	0	2	1	2	1	3	2	4	4	3	2	5	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	91523521	C	T	91523521	2	4	233	1	0	0	0	0	0	0	0	1	12448	564	20	2		2	PRC1	15	91523521	Silent	SNP	C	TCGA-BP-4341-01A-01D-1366-10	40624038	91523521	11007871	38	12501											
BRD7	29117	hgsc.bcm.edu;ucsc.edu	37	chr16	50354652	50354652	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgtcttgagtactggAgtccaaacgccctggtggct	7	10	13	11	1	1	1	0	1	1	0	2	3	2	2	3	3	3	2	3	3	2	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		G	50354652	A	G	50354652	3	3	233	1	0	0	0	0	1	0	0	0	1505	304	11	3	437	3	BRD7	16	50354652	Missense_Mutation	SNP	A	TCGA-BP-4341-01A-01D-1366-10		50354652	40000101	39	12502											
CHD9	80205	hgsc.bcm.edu	37	chr16	53358033	53358033	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctaaaagtggaattgcaaaGgccacagcagcagcagctgc	14	5	11	11	0	0	0	0	0	0	0	0	1	0	1	2	2	6	5	2	2	4	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	53358033	G	A	53358033	2	1	233	1	0	0	0	0	0	0	0	1	3332	991	35	2		2	CHD9	16	53358033	Silent	SNP	G	TCGA-BP-4341-01A-01D-1366-10	3003381	53358033	36996720	40	12503											
CDH8	1006	hgsc.bcm.edu;ucsc.edu	37	chr16	61761058	61761058	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggatgcgaattcaggggcGttgtcattgacatccagcac	9	10	12	10	3	2	1	2	1	0	0	4	3	3	2	1	3	2	2	1	3	1	3	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	61761058	G	A	61761058	2	1	233	1	0	0	0	0	0	0	0	1	3116	1136	40	1		1	CDH8	16	61761058	Silent	SNP	G	TCGA-BP-4341-01A-01D-1366-10	8403025	61761058	28593695	41	12504											
PHLPP2	23035	hgsc.bcm.edu;ucsc.edu	37	chr16	71689235	71689235	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatctgccatcgtacactgCagcaggcgcgggagctcctc	8	7	11	15	3	1	0	0	0	1	0	4	1	2	1	2	2	5	4	2	2	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	71689235	C	T	71689235	2	4	233	1	0	0	0	0	0	0	0	1	11855	697	25	2		2	PHLPP2	16	71689235	Silent	SNP	C	TCGA-BP-4341-01A-01D-1366-10	9928177	71689235	18665518	42	12505											
AP1G1	164	hgsc.bcm.edu;ucsc.edu	37	chr16	71798592	71798592	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcacttgaatcatcatcaTttcgtcctaaaattcttaat	12	17	2	10	1	5	1	4	1	1	0	7	1	6	1	1	0	0	0	1	0	4	6	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	71798592	T	C	71798592	3	2	233	1	0	0	0	0	1	0	0	0	732	1493	52	3	1756	3	AP1G1	16	71798592	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10	109357	71798592	18556161	43	12506											
KRT13	3860	hgsc.bcm.edu	37	chr17	39658938	39658938	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcaggaggctgcaggcataCcatgctcagctgggactgca	9	6	15	11	0	1	0	1	0	0	0	1	2	1	2	1	5	5	7	1	5	1	1	rs145167376		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	39658938	C	T	39658938	5	4	233	1	0	0	0	0	0	0	1	0	8450	521	18	2	368	2	KRT13	17	39658938	Splice_Site	SNP	C	TCGA-BP-4341-01A-01D-1366-10		39658938	41536272	44	12507											
MTMR4	9110	hgsc.bcm.edu	37	chr17	56584197	56584197	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttttgaggagctgctgTgctctccactccagagcacg	7	10	11	13	1	1	2	0	1	1	1	3	3	2	3	2	1	5	5	2	1	0	2	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	56584197	T	A	56584197	3	1	233	1	0	0	0	0	1	0	0	0	9946	1696	59	5	2729	5	MTMR4	17	56584197	Missense_Mutation	SNP	T	TCGA-BP-4341-01A-01D-1366-10	16925259	56584197	24611013	45	12508											
SMCHD1	23347	hgsc.bcm.edu;ucsc.edu	37	chr18	2796405	2796405	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacattttccatcttcacagGtatgactcccatacgtaagt	11	14	5	11	1	2	1	1	1	1	0	4	1	4	1	2	1	2	2	2	1	4	7	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	2796405	G	A	2796405	3	1	233	1	0	0	0	0	1	0	0	0	14790	1275	44	2	6065	2	SMCHD1	18	2796405	Missense_Mutation	SNP	G	TCGA-BP-4341-01A-01D-1366-10		2796405	75280843	46	12509											
FBN3	84467	hgsc.bcm.edu	37	chr19	8193952	8193952	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgccagaagtggaagccgggGgggcaggagcagctgtagct	9	5	19	8	1	0	1	0	0	0	1	0	3	0	3	2	5	5	5	2	5	3	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	8193952	G	A	8193952	2	1	233	1	0	0	0	0	0	0	0	1	5704	1219	43	2		2	FBN3	19	8193952	Silent	SNP	G	TCGA-BP-4341-01A-01D-1366-10		8193952	50935031	47	12510											
EPS15L1	58513	hgsc.bcm.edu	37	chr19	16547765	16547765	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccctcacagcccagtgggCctctgcagagggcggtgtga	7	7	14	13	1	2	2	1	1	1	1	2	2	2	2	3	3	3	1	3	3	1	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		A	16547765	C	A	16547765	3	1	233	1	0	0	0	0	1	0	0	0	5193	739	26	4	2311	4	EPS15L1	19	16547765	Missense_Mutation	SNP	C	TCGA-BP-4341-01A-01D-1366-10	8353813	16547765	42581218	48	12511											
PCK1	5105	hgsc.bcm.edu	37	chr20	56136506	56136506	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggcctgaacctctcggcCaaagttgtccagggaagcct	10	7	11	13	2	1	1	0	1	1	0	3	2	2	2	5	3	3	1	5	3	4	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	56136506	C	T	56136506	2	4	233	1	0	0	0	0	0	0	0	1	11581	581	21	2		2	PCK1	20	56136506	Silent	SNP	C	TCGA-BP-4341-01A-01D-1366-10		56136506	6889014	49	12512											
DONSON	29980	hgsc.bcm.edu	37	chr21	34955918	34955918	+	Nonsense_Mutation	SNP	A	A	C																															tgataggtacaaacgtagaaAtaggggcaaagttttgtctt																								novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		C	34955918	A	C	34955918	4	2	233	1	0	0	0	0	0	1	0	0	4706	108	4	5	884	5	DONSON	21	34955918	Nonsense_Mutation	SNP	A	TCGA-BP-4341-01A-01D-1366-10		34955918	13173977	50	12513	180	2									
DONSON	29980	hgsc.bcm.edu	37	chr21	34955920	34955920	+	Missense_Mutation	SNP	A	A	G																															ataggtacaaacgtagaaatAggggcaaagttttgtcttca																								novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		G	34955920	A	G	34955920	3	3	233	1	0	0	0	0	1	0	0	0	4706	420	15	3	886	3	DONSON	21	34955920	Missense_Mutation	SNP	A	TCGA-BP-4341-01A-01D-1366-10	2	34955920	13173975	51	12514	180	2									
UTP14A	10813	hgsc.bcm.edu;ucsc.edu	37	chrX	129054543	129054543	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaactggaaaaaattgaaaAggccagaatgatggtgagac	19	6	12	4	0	0	5	0	3	0	3	0	7	0	6	1	3	1	0	1	3	7	1	novel		TCGA-BP-4341-01A-01D-1366-10	TCGA-BP-4341-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d641189e-e44b-45e1-b753-73414d7ad31a	70039797-32c1-4349-bb4d-10f6ed415195		T	129054543	A	T	129054543	3	4	233	1	0	0	0	0	1	0	0	0	17094	72	3	5	897	5	UTP14A	23	129054543	Missense_Mutation	SNP	A	TCGA-BP-4341-01A-01D-1366-10		129054543	26216017	52	12515											
STK40	83931	hgsc.bcm.edu	37	chr1	36814314	36814314	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtaccgctgagcacgtcGggactgatgtaggcagggct	8	7	15	11	4	0	2	0	2	0	0	1	3	0	3	1	3	2	6	1	3	2	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	36814314	G	T	36814314	2	4	234	1	0	0	0	0	0	0	0	1	15308	1103	39	4		4	STK40	1	36814314	Silent	SNP	G	TCGA-BP-4342-01A-01D-1366-10		36814314	212436307	1	12516											
NES	10763	hgsc.bcm.edu;ucsc.edu	37	chr1	156641414	156641414	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggattcattgccccctgatTtatttcttctggagtccaca	8	15	7	11	0	3	1	1	1	2	0	4	3	4	3	3	2	1	0	3	2	1	6	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	156641414	T	A	156641414	3	1	234	1	0	0	0	0	1	0	0	0	10337	1841	64	5	2303	5	NES	1	156641414	Missense_Mutation	SNP	T	TCGA-BP-4342-01A-01D-1366-10	119827100	156641414	92609207	2	12517											
CD1D	912	hgsc.bcm.edu;ucsc.edu	37	chr1	158152834	158152834	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcctgcccaatgctgaCgagacatggtatctccgagc	10	8	10	13	2	1	2	0	1	1	1	3	5	2	2	3	1	3	2	3	1	2	1	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	158152834	C	T	158152834	2	4	234	1	0	0	0	0	0	0	0	1	2977	535	19	1		1	CD1D	1	158152834	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10	1511420	158152834	91097787	3	12518											
PIK3C2B	5287	hgsc.bcm.edu	37	chr1	204399061	204399061	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccacctcggccacctcAgggggtgcgtggatcaagtg	7	6	13	15	2	2	0	2	0	0	0	3	1	2	1	5	4	1	0	5	4	1	0	rs2271419	bycluster;byfrequency;by1000genomes	TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		G	204399061	A	G	204399061	2	3	234	1	0	0	0	0	0	0	0	1	11910	175	7	3		3	PIK3C2B	1	204399061	Silent	SNP	A	TCGA-BP-4342-01A-01D-1366-10	46246227	204399061	44851560	4	12519											
CREG2	200407	hgsc.bcm.edu;ucsc.edu	37	chr2	102000000	102000000	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaccgtcgtctacctgcaGaactccccttctgattctgg	8	11	7	15	2	3	2	0	1	3	1	5	2	4	2	4	1	4	1	4	1	3	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	102000000	G	T	102000000	3	4	234	1	0	0	0	0	1	0	0	0	3865	933	33	4	278	4	CREG2	2	102000000	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10		102000000	141199373	5	12520											
TMEM37	140738	hgsc.bcm.edu;ucsc.edu	37	chr2	120194864	120194864	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcgtcctctcctccggcGggctcctgggttttgtgatc	1	15	11	14	3	1	1	0	1	1	0	7	1	4	1	4	3	0	2	4	3	0	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	120194864	G	A	120194864	3	1	234	1	0	0	0	0	1	0	0	0	16157	1116	39	1	427	1	TMEM37	2	120194864	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10	18194864	120194864	123004509	6	12521											
COL6A3	1293	hgsc.bcm.edu;ucsc.edu	37	chr2	238267174	238267174	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatctttaccgggtcccctCgaatcccaacatctcctctt	9	12	4	16	2	3	0	0	0	3	0	7	1	5	0	5	1	2	0	5	1	4	3	rs145561490		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	238267174	C	T	238267174	3	4	234	1	0	0	0	0	1	0	0	0	3701	884	31	1	3168	1	COL6A3	2	238267174	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	118072310	238267174	4932199	7	12522											
ILKAP	80895	hgsc.bcm.edu;ucsc.edu	37	chr2	239096830	239096830	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gttcaggatgacgtgggcatCctgcatctcctccctctcac	6	11	9	15	1	3	1	2	1	2	0	7	2	5	2	3	2	1	3	3	2	0	1	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	239096830	C	T	239096830	3	4	234	1	0	0	0	0	1	0	0	0	7714	855	30	2	843	2	ILKAP	2	239096830	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	829656	239096830	4102543	8	12523											
CEP97	79598	hgsc.bcm.edu;ucsc.edu	37	chr3	101476035	101476035	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgccagatatcccaggAaagtggtaagaaatgaattt	16	10	10	5	0	0	4	0	1	0	3	1	5	1	5	2	2	1	1	2	2	5	4	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		C	101476035	A	C	101476035	3	2	234	1	0	0	0	0	1	0	0	0	3263	246	9	5	1052	5	CEP97	3	101476035	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01D-1366-10		101476035	96546395	9	12524											
PAQR9	344838	hgsc.bcm.edu	37	chr3	142681458	142681458	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacgaaggtgcgcagcgCgaacgggtaggtacaccagt	12	4	16	9	5	0	1	0	0	0	1	0	4	0	1	1	3	4	3	1	3	5	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	142681458	C	T	142681458	3	4	234	1	0	0	0	0	1	0	0	0	11442	768	27	1	416	1	PAQR9	3	142681458	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	41205423	142681458	55340972	10	12525											
SORCS2	57537	hgsc.bcm.edu	37	chr4	7677815	7677815	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acggacgagagtcaggtgttCgtggcggtgcaggagtggta	8	8	19	6	4	1	1	1	0	0	1	2	4	1	3	0	6	1	3	0	6	1	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	7677815	C	T	7677815	2	4	234	1	0	0	0	0	0	0	0	1	14933	883	31	1		1	SORCS2	4	7677815	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10		7677815	183476461	11	12526											
PAPSS1	9061	hgsc.bcm.edu;ucsc.edu	37	chr4	108578089	108578089	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgaaggcactgcaagtaCtccctctctctcataaagcc	13	9	6	13	0	2	1	1	1	2	0	5	1	3	1	2	1	3	3	2	1	6	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	108578089	C	A	108578089	3	1	234	1	0	0	0	0	1	0	0	0	11434	564	20	4	1040	4	PAPSS1	4	108578089	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	100900274	108578089	82576187	12	12527											
MAP3K1	4214	hgsc.bcm.edu;ucsc.edu	37	chr5	56178013	56178013	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaccccatctgtaccagctGgcactgcaacagatgtctct	9	10	7	15	0	2	1	0	0	2	1	3	1	2	1	3	1	5	4	3	1	3	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	56178013	G	T	56178013	3	4	234	1	0	0	0	0	1	0	0	0	9243	1348	47	4	3040	4	MAP3K1	5	56178013	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10		56178013	124737247	13	12528											
DMGDH	29958	hgsc.bcm.edu;ucsc.edu	37	chr5	78328557	78328557	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagaaccagtgcggctgctcCcagccagcatggaaccccat	10	6	10	15	1	0	1	0	0	0	1	1	2	1	2	5	2	6	3	5	2	3	1	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	78328557	C	T	78328557	4	4	234	1	0	0	0	0	0	1	0	0	4581	624	22	2	1162	2	DMGDH	5	78328557	Nonsense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	22150544	78328557	102586703	14	12529											
CMYA5	202333	hgsc.bcm.edu;ucsc.edu	37	chr5	79026966	79026966	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagtgaacgtttcacacCggattcaaagttgatctcca	13	10	9	9	2	3	2	2	2	1	0	4	4	3	4	2	2	1	2	2	2	3	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	79026966	C	T	79026966	3	4	234	1	0	0	0	0	1	0	0	0	3590	652	23	1	2384	1	CMYA5	5	79026966	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	698409	79026966	101888294	15	12530											
FAM172A	83989	hgsc.bcm.edu;ucsc.edu	37	chr5	92956819	92956819	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctcttccaggaagttagCtcgtgacggtcggtgcctgc	7	10	13	11	3	1	1	0	1	1	0	4	2	2	2	2	3	4	3	2	3	3	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	92956819	C	T	92956819	2	4	234	1	0	0	0	0	0	0	0	1	5492	796	28	2		2	FAM172A	5	92956819	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10	13929853	92956819	87958441	16	12531											
PDGFRB	5159	hgsc.bcm.edu;ucsc.edu	37	chr5	149506140	149506140	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgagcaccaccagggcCaggatggctgagatcaccac	11	5	13	12	0	1	2	1	2	0	1	1	4	1	3	4	4	1	2	4	4	0	0	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	149506140	C	T	149506140	2	4	234	1	0	0	0	0	0	0	0	1	11662	581	21	2		2	PDGFRB	5	149506140	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10	56549321	149506140	31409120	17	12532											
XPO5	57510	hgsc.bcm.edu;ucsc.edu	37	chr6	43526277	43526277	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcatcgctatcaaaatCaaaccgagaatattcacagc	15	9	5	12	2	4	1	4	0	0	1	6	2	5	1	2	0	2	1	2	0	6	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	43526277	C	A	43526277	3	1	234	1	0	0	0	0	1	0	0	0	17446	826	29	4	2425	4	XPO5	6	43526277	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10		43526277	127588790	18	12533											
PLA2G7	7941	hgsc.bcm.edu;ucsc.edu	37	chr6	46675800	46675800	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgatattagcaggatatTggaaatattcagagttgata	15	15	9	2	0	1	3	1	2	0	1	1	5	1	5	0	2	1	2	0	2	7	9	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		G	46675800	T	G	46675800	3	3	234	1	0	0	0	0	1	0	0	0	12009	1812	63	5	369	5	PLA2G7	6	46675800	Missense_Mutation	SNP	T	TCGA-BP-4342-01A-01D-1366-10	3149523	46675800	124439267	19	12534											
NR2E1	7101	hgsc.bcm.edu;ucsc.edu	37	chr6	108502843	108502843	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagctaacgctcaacagctAcatccataccaggtgaccct	12	8	6	15	1	2	1	2	1	0	0	3	1	3	1	3	1	6	3	3	1	4	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		G	108502843	A	G	108502843	3	3	234	1	0	0	0	0	1	0	0	0	10625	391	14	3	1013	3	NR2E1	6	108502843	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01D-1366-10	61827043	108502843	62612224	20	12535											
RAC1	5879	hgsc.bcm.edu;ucsc.edu	37	chr7	6431566	6431566	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctacagctttgacaattAttctgccaatgttatggtag	11	16	7	7	0	2	1	0	1	2	0	2	1	2	1	1	1	3	3	1	1	6	7	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		C	6431566	A	C	6431566	3	2	234	1	0	0	0	0	1	0	0	0	12976	449	16	5	129	5	RAC1	7	6431566	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01D-1366-10		6431566	152707097	21	12536											
PCLO	27445	hgsc.bcm.edu;ucsc.edu	37	chr7	82581464	82581464	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacagcacacagctcttctCcctgcggttaaatcaacggg	10	9	8	14	2	4	0	2	0	2	0	5	0	4	0	1	2	4	3	1	2	3	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	82581464	C	A	82581464	2	1	234	1	0	0	0	0	0	0	0	1	11583	842	30	4		4	PCLO	7	82581464	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10	76149898	82581464	76557199	22	12537											
ARHGEF10	9639	hgsc.bcm.edu;ucsc.edu	37	chr8	1844542	1844542	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatacagtgaatatgtgaAcaatttcagcacagccgtgg	13	10	10	8	1	1	2	1	2	0	0	1	2	1	2	1	1	5	2	1	1	5	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	1844542	A	T	1844542	3	4	234	1	0	0	0	0	1	0	0	0	894	43	2	5	1534	5	ARHGEF10	8	1844542	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01D-1366-10		1844542	144519480	23	12538											
DMRT2	10655	hgsc.bcm.edu	37	chr9	1055746	1055746	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggattattctacagctAttatgtgtacataatgaacc	12	15	6	8	0	1	1	0	1	1	0	1	2	1	2	2	1	4	2	2	1	7	8	rs112564390		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		G	1055746	A	G	1055746	3	3	234	1	0	0	0	0	1	0	0	0	4586	449	16	3	663	3	DMRT2	9	1055746	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01D-1366-10		1055746	140157685	24	12539											
OR10AG1	282770	hgsc.bcm.edu;ucsc.edu	37	chr11	55735576	55735576	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcatcactagaggatactGcaaaggcttacaaatagcca	15	9	8	9	0	2	1	2	0	0	1	2	2	2	2	1	2	4	3	1	2	6	5	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	55735576	G	A	55735576	4	1	234	1	0	0	0	0	0	1	0	0	10897	1328	46	2	544	2	OR10AG1	11	55735576	Nonsense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10		55735576	79270940	25	12540											
MMP27	64066	hgsc.bcm.edu;ucsc.edu	37	chr11	102564715	102564715	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatctattttcttcacaCgtcctggaaaacctaatgta	11	14	5	11	1	3	0	1	0	2	0	4	1	4	1	2	1	2	2	2	1	5	6	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	102564715	C	T	102564715	3	4	234	1	0	0	0	0	1	0	0	0	9664	536	19	1	438	1	MMP27	11	102564715	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	46829139	102564715	32441801	26	12541											
LRP1	4035	hgsc.bcm.edu;ucsc.edu	37	chr12	57570892	57570892	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcctggctgtagactggAttgcaggcaacatctactgg	9	9	14	9	0	1	1	0	0	1	1	1	2	1	2	1	5	3	4	1	5	3	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		C	57570892	A	C	57570892	3	2	234	1	0	0	0	0	1	0	0	0	8951	333	12	5	4158	5	LRP1	12	57570892	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01D-1366-10		57570892	76281003	27	12542											
SACS	26278	hgsc.bcm.edu;ucsc.edu	37	chr13	23912564	23912564	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaagtacacagaagccaCgtggtacactctactgtttt	12	11	8	10	1	1	1	0	0	1	1	1	1	1	1	1	1	5	4	1	1	5	5	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	23912564	C	T	23912564	2	4	234	1	0	0	0	0	0	0	0	1	13806	523	19	1		1	SACS	13	23912564	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10		23912564	91257314	28	12543											
SMOC1	64093	hgsc.bcm.edu;ucsc.edu	37	chr14	70480128	70480128	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaagggaagaaaatggaGtttatcaccagcctactgga	15	7	11	8	0	1	2	1	0	0	2	1	5	1	5	3	3	2	1	3	3	6	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	70480128	G	A	70480128	2	1	234	1	0	0	0	0	0	0	0	1	14803	1020	36	2		2	SMOC1	14	70480128	Silent	SNP	G	TCGA-BP-4342-01A-01D-1366-10		70480128	36869412	29	12544											
PAPOLA	10914	hgsc.bcm.edu;ucsc.edu	37	chr14	97010493	97010493	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcttctttgcagggaagaaTttcgcacgatgtgggtgatt	8	14	12	7	2	2	2	0	1	2	1	3	4	2	3	0	2	1	2	0	2	2	4	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		G	97010493	T	G	97010493	3	3	234	1	0	0	0	0	1	0	0	0	11429	1493	52	5	1355	5	PAPOLA	14	97010493	Missense_Mutation	SNP	T	TCGA-BP-4342-01A-01D-1366-10	26530365	97010493	10339047	30	12545											
WDR72	256764	hgsc.bcm.edu	37	chr15	53815521	53815521	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaccgggctgactggagcTattaaaagagagagagagag	14	7	15	5	1	0	5	0	2	0	3	0	9	0	6	1	2	1	2	1	2	3	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	53815521	T	A	53815521	5	1	234	1	0	0	0	0	0	0	1	0	17321	1536	53	5	169	5	WDR72	15	53815521	Splice_Site	SNP	T	TCGA-BP-4342-01A-01D-1366-10		53815521	48715871	31	12546											
ZNF280D	54816	hgsc.bcm.edu;ucsc.edu	37	chr15	56923779	56923779	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccaggaatgtcatctgtttGatcagacactacttcatcag	11	13	7	10	0	5	2	4	1	1	1	6	3	6	3	1	1	1	1	1	1	2	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		C	56923779	G	C	56923779	3	2	234	1	0	0	0	0	1	0	0	0	17816	1299	45	4	86	4	ZNF280D	15	56923779	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10	3108258	56923779	45607613	32	12547											
MEGF11	84465	hgsc.bcm.edu;ucsc.edu	37	chr15	66411490	66411490	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccgccggtacatggtccGgaggcctctccgatacgccg	5	7	12	17	6	1	0	0	0	1	0	4	2	3	1	7	4	2	1	7	4	2	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	66411490	G	A	66411490	3	1	234	1	0	0	0	0	1	0	0	0	9461	1115	39	1	2979	1	MEGF11	15	66411490	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10	9487711	66411490	36119902	33	12548											
C16orf46	123775	hgsc.bcm.edu	37	chr16	81095065	81095065	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggaccaatgcaggcagcGctgctccggatcggtcagca	9	5	15	12	3	1	0	1	0	0	0	3	3	2	2	2	4	4	5	2	4	1	0	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	81095065	G	A	81095065	3	1	234	1	0	0	0	0	1	0	0	0	1815	1087	38	1	330	1	C16orf46	16	81095065	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10		81095065	9259688	34	12549											
ITGAE	3682	hgsc.bcm.edu;ucsc.edu	37	chr17	3643168	3643168	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttgcaggccttctcatagGgcagctgtaaccagacagag	10	9	11	11	0	2	2	1	0	2	2	3	2	2	2	2	2	3	4	2	2	2	4	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	3643168	G	T	3643168	3	4	234	1	0	0	0	0	1	0	0	0	7885	1232	43	4	1134	4	ITGAE	17	3643168	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10		3643168	77552042	35	12550											
GIT1	28964	hgsc.bcm.edu;ucsc.edu	37	chr17	27902334	27902334	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaactcctgggctgcccGcaacagttcctgaatgttct	7	12	9	13	1	1	2	0	2	1	0	3	2	3	2	3	1	3	4	3	1	3	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	27902334	G	T	27902334	2	4	234	1	0	0	0	0	0	0	0	1	6396	1086	38	4		4	GIT1	17	27902334	Silent	SNP	G	TCGA-BP-4342-01A-01D-1366-10	24259166	27902334	53292876	36	12551											
BCAS3	54828	hgsc.bcm.edu;ucsc.edu	37	chr17	58967107	58967107	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctattgctcttgggagccGctggcttgcttatgcagaaa	7	13	11	10	1	1	1	0	0	1	1	2	2	2	2	2	2	4	5	2	2	3	5	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	58967107	G	T	58967107	3	4	234	1	0	0	0	0	1	0	0	0	1352	1087	38	4	747	4	BCAS3	17	58967107	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10	31064773	58967107	22228103	37	12552											
ZNF521	25925	hgsc.bcm.edu;ucsc.edu	37	chr18	22804358	22804358	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcattggtgatacttggggcGttttcaactgtgtgctgttg	5	16	14	6	1	1	1	1	1	0	0	1	1	1	1	0	3	3	4	0	3	2	6	rs190029761	by1000genomes;alternate_allele	TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	22804358	G	A	22804358	3	1	234	1	0	0	0	0	1	0	0	0	17964	1145	40	1	431	1	ZNF521	18	22804358	Missense_Mutation	SNP	G	TCGA-BP-4342-01A-01D-1366-10		22804358	55272890	38	12553											
RTTN	25914	hgsc.bcm.edu;ucsc.edu	37	chr18	67727215	67727215	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtaacaaaaacacacagtTtgggcaggggagcagaaaga	18	4	13	6	0	0	2	0	0	0	2	0	4	0	3	0	3	3	4	0	3	4	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		C	67727215	T	C	67727215	3	2	234	1	0	0	0	0	1	0	0	0	13739	1841	64	3	1925	3	RTTN	18	67727215	Missense_Mutation	SNP	T	TCGA-BP-4342-01A-01D-1366-10	44922857	67727215	10350033	39	12554											
NWD1	284434	hgsc.bcm.edu	37	chr19	16910747	16910747	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggacatcctggaaggcgtCggggcccccgtgagcctgct	5	7	15	14	3	0	1	0	1	0	0	2	3	1	3	4	5	2	1	4	5	1	0	rs112320677	bycluster;byfrequency;by1000genomes	TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	16910747	C	T	16910747	2	4	234	1	0	0	0	0	0	0	0	1	10781	871	31	1		1	NWD1	19	16910747	Silent	SNP	C	TCGA-BP-4342-01A-01D-1366-10		16910747	42218236	40	12555											
ZNF569	148266	hgsc.bcm.edu	37	chr19	37904476	37904476	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaaaactgagagaaggCtttaccacatttatcacatt	15	11	7	8	0	1	2	1	1	0	1	1	4	1	3	1	2	2	1	1	2	5	5	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		T	37904476	C	T	37904476	3	4	234	1	0	0	0	0	1	0	0	0	17999	797	28	2	980	2	ZNF569	19	37904476	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10	20993729	37904476	21224507	41	12556											
C20orf29	0	hgsc.bcm.edu;ucsc.edu	37	chr20	3802931	3802931	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggaaggaacagattttagCtgtggccaggtaaccacaca	13	7	11	10	1	0	1	0	0	0	1	0	3	0	3	3	4	3	2	3	4	4	3	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	3802931	C	A	3802931	3	1	234	1	0	0	0	0	1	0	0	0	2108	797	28	4	169	4	C20orf29	20	3802931	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10		3802931	59222589	42	12557											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53230855	53230855	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagccatcttgcagataagCtcctcatgggagaagacgca	12	7	11	11	1	2	3	1	0	1	3	3	4	3	3	2	1	3	4	2	1	2	2	novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		A	53230855	C	A	53230855	3	1	234	1	0	0	0	0	1	0	0	0	8135	796	28	4	2894	4	KDM5C	23	53230855	Missense_Mutation	SNP	C	TCGA-BP-4342-01A-01D-1366-10		53230855	102039705	43	12558											
MAGEC1	9947	hgsc.bcm.edu;ucsc.edu	37	chrX	140996378	140996380	+	In_Frame_Del	DEL	CTC	CTC	-																															ccgggaggtgcccaactcttCtcctcctcgttacgaattcc																								novel		TCGA-BP-4342-01A-01D-1366-10	TCGA-BP-4342-11A-01D-1366-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	538cbccc-8fa8-4ead-a9ec-9fe19f709a18	1ef3a31d-ac99-401c-89a9-44b8466b9177		-	140996380	CTC	-	140996378	7	5	234	1	0	1	0	1	0	0	0	0	9180	913	32	0	3194	0	MAGEC1	23	140996378	In_Frame_Del	DEL	CTC	TCGA-BP-4342-01A-01D-1366-10	87765523	140996378	14274182	44	12559											
VHL	7428	hgsc.bcm.edu	37	chr3	10183764	10183764	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcccaggtcatcttctgcaAtcgcagtccgcgcgtcgtgc	5	10	10	16	5	3	0	1	0	2	0	7	0	5	0	2	1	2	2	2	1	1	1	rs5030804		TCGA-BP-4342-01A-01W-1362-10	TCGA-BP-4342-11A-01W-1362-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	7da54727-f4bb-4f89-b348-c3f18775fda2	9734fa6e-4568-41db-963f-22cf694aac6c		G	10183764	A	G	10183764	3	3	235	1	0	0	0	0	1	0	0	0	17161	101	4	3	235	3	VHL	3	10183764	Missense_Mutation	SNP	A	TCGA-BP-4342-01A-01W-1362-10		10183764	187838666	1	12560											
ATAD3C	219293	hgsc.bcm.edu	37	chr1	1403814	1403814	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccgaggccatgatggaCgcctgcgtgcaagactttgt	8	9	13	11	3	0	3	0	2	0	1	0	5	0	4	3	2	2	1	3	2	1	1	rs146537972	by1000genomes	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	1403814	C	T	1403814	2	4	236	1	0	0	0	0	0	0	0	1	1075	535	19	1		1	ATAD3C	1	1403814	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10		1403814	247846807	1	12561											
VPS13D	55187	hgsc.bcm.edu;ucsc.edu	37	chr1	12403073	12403073	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacaggtgaagagattccCtttgaatttgaagcaagagg	13	11	11	6	0	0	5	0	3	0	2	1	6	1	5	1	2	2	1	1	2	5	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	12403073	C	T	12403073	2	4	236	1	0	0	0	0	0	0	0	1	17191	668	24	2		2	VPS13D	1	12403073	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10	10999259	12403073	236847548	2	12562											
AKR7L	246181	hgsc.bcm.edu	37	chr1	19595194	19595194	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtggtgctccttccagaAgctgttcagtggggatggtg	7	11	16	7	0	1	1	1	0	0	1	3	3	3	2	2	4	2	3	2	4	2	2	rs75616155	bycluster;byfrequency;by1000genomes	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		G	19595194	A	G	19595194	3	3	236	1	0	0	0	0	1	0	0	0	477	86	3	3	297	3	AKR7L	1	19595194	Missense_Mutation	SNP	A	TCGA-BP-4343-01A-02D-1366-10	7192121	19595194	229655427	3	12563											
PTPRU	10076	hgsc.bcm.edu	37	chr1	29618536	29618536	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacccatggctacagcacccGgggtgagtgcccggccctcc	6	5	12	18	2	0	1	0	1	0	0	1	1	1	1	5	4	3	2	5	4	1	1	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	29618536	G	T	29618536	3	4	236	1	0	0	0	0	1	0	0	0	12815	1116	39	4	2566	4	PTPRU	1	29618536	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10	10023342	29618536	219632085	4	12564											
DMBX1	127343	hgsc.bcm.edu	37	chr1	46976717	46976717	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatggggaaggcaaggcCgaggcccccactccagatac	10	4	12	15	1	0	1	0	0	0	1	2	3	2	2	5	5	1	1	5	5	3	1	rs12045245	bycluster;byfrequency;by1000genomes	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	46976717	C	T	46976717	2	4	236	1	0	0	0	0	0	0	0	1	4578	639	23	1		1	DMBX1	1	46976717	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10	17358181	46976717	202273904	5	12565											
IWS1	55677	hgsc.bcm.edu	37	chr2	128262648	128262648	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccttgggggatcctcactTtccgaatcactgattcgggg	6	13	11	11	2	2	1	2	1	0	0	6	3	5	2	3	4	0	0	3	4	1	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	128262648	T	C	128262648	2	2	236	1	0	0	0	0	0	0	0	1	7931	1838	64	3		3	IWS1	2	128262648	Silent	SNP	T	TCGA-BP-4343-01A-02D-1366-10		128262648	114936725	6	12566											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47079155	47079155	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acatgtgtaagccacactcaCcttcatggggttttcatcat	10	13	7	11	0	4	0	4	0	0	0	4	0	4	0	2	2	1	2	2	2	1	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		G	47079155	C	G	47079155	5	3	236	1	0	0	0	0	0	0	1	0	14133	521	18	4	359	4	SETD2	3	47079155	Splice_Site	SNP	C	TCGA-BP-4343-01A-02D-1366-10		47079155	150943275	7	12567											
C3orf72	401089	hgsc.bcm.edu	37	chr3	138669387	138669387	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgcggtgcttggctagCaaagggaagcttcactgtgt	7	11	13	10	1	2	0	1	0	1	0	2	1	2	1	1	3	4	4	1	3	3	3	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	138669387	C	T	138669387	2	4	236	1	0	0	0	0	0	0	0	1	2244	709	25	2		2	C3orf72	3	138669387	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10	91590232	138669387	59353043	8	12568											
EIF4G1	1981	hgsc.bcm.edu	37	chr3	184041029	184041029	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggagctgccccgtgggccGgtgagtggggctgggtaaag	5	6	22	8	2	0	1	0	1	0	0	0	2	0	2	3	7	2	3	3	7	2	1	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	184041029	G	T	184041029	2	4	236	1	0	0	0	0	0	0	0	1	5036	1130	39	4		4	EIF4G1	3	184041029	Silent	SNP	G	TCGA-BP-4343-01A-02D-1366-10	45371642	184041029	13981401	9	12569											
PPARGC1A	10891	hgsc.bcm.edu;ucsc.edu	37	chr4	23886513	23886513	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagatcaagttcaggaagAtctgggcaaagaggctggtc	14	7	14	6	0	3	3	2	0	1	3	4	5	3	4	0	4	0	3	0	4	4	1	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	23886513	A	C	23886513	3	2	236	1	0	0	0	0	1	0	0	0	12300	330	12	5	2348	5	PPARGC1A	4	23886513	Missense_Mutation	SNP	A	TCGA-BP-4343-01A-02D-1366-10		23886513	167267763	10	12570											
PLEKHG4B	153478	hgsc.bcm.edu	37	chr5	155056	155056	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccagctgaccgcagacCtcgacggctcctttccctac	6	8	9	18	3	0	2	0	1	0	1	3	3	2	2	5	1	3	4	5	1	1	2	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	155056	C	A	155056	3	1	236	1	0	0	0	0	1	0	0	0	12072	681	24	4	1013	4	PLEKHG4B	5	155056	Missense_Mutation	SNP	C	TCGA-BP-4343-01A-02D-1366-10		155056	180760204	11	12571											
SPZ1	84654	hgsc.bcm.edu;ucsc.edu	37	chr5	79616716	79616716	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	acgaaactcaacaaagtcagGaaaaagcaaaaaacagactt	23	4	6	8	1	2	1	2	0	0	1	2	3	2	2	0	1	4	1	0	1	8	1	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	79616716	G	C	79616716	3	2	236	1	0	0	0	0	1	0	0	0	15128	1175	41	4	684	4	SPZ1	5	79616716	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10	79461660	79616716	101298544	12	12572											
MAML1	9794	hgsc.bcm.edu	37	chr5	179201298	179201298	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggtttaacaaagccacCggtcccaagggtgtcaccag	10	7	10	14	1	1	0	1	0	0	0	2	0	2	0	5	3	2	1	5	3	3	2	rs61753466	bycluster;byfrequency;by1000genomes	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	179201298	C	T	179201298	3	4	236	1	0	0	0	0	1	0	0	0	9205	652	23	1	2489	1	MAML1	5	179201298	Missense_Mutation	SNP	C	TCGA-BP-4343-01A-02D-1366-10	99584582	179201298	1713962	13	12573											
MOCS1	4337	hgsc.bcm.edu	37	chr6	39895231	39895231	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaggaagcatgggcccctGctaccgggctgggaagaggc	8	4	19	10	1	0	1	0	0	0	1	0	4	0	4	3	6	3	3	3	6	3	1	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	39895231	G	T	39895231	3	4	236	1	0	0	0	0	1	0	0	0	9690	1310	46	4	1106	4	MOCS1	6	39895231	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10		39895231	131219836	14	12574											
SLC35B2	347734	hgsc.bcm.edu	37	chr6	44223195	44223195	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaaggagtaccggtacaTgggtgccccatgccggggct	8	6	16	11	2	0	0	0	0	0	0	0	1	0	1	4	6	4	4	4	6	3	2	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	44223195	T	C	44223195	3	2	236	1	0	0	0	0	1	0	0	0	14578	1464	51	3	755	3	SLC35B2	6	44223195	Missense_Mutation	SNP	T	TCGA-BP-4343-01A-02D-1366-10	4327964	44223195	126891872	15	12575											
TRHR	7201	hgsc.bcm.edu	37	chr8	110100374	110100374	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctggctaccgtcctctaTggattcatagctagaatcct	9	13	7	12	1	2	1	1	0	1	1	5	2	5	2	4	2	2	2	4	2	5	5	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	110100374	T	A	110100374	4	1	236	1	0	0	0	0	0	1	0	0	16479	1471	51	5	635	5	TRHR	8	110100374	Nonsense_Mutation	SNP	T	TCGA-BP-4343-01A-02D-1366-10		110100374	36263648	16	12576											
JAK2	3717	hgsc.bcm.edu	37	chr9	5072549	5072549	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaaggcgtacgaagagaaGtaggagactacggtcaactg	15	7	13	6	3	1	2	1	0	0	2	1	5	1	2	0	3	3	2	0	3	8	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	5072549	G	T	5072549	3	4	236	1	0	0	0	0	1	0	0	0	7938	1029	36	4	1741	4	JAK2	9	5072549	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10		5072549	136140882	17	12577											
GATA3	2625	hgsc.bcm.edu;ucsc.edu	37	chr10	8115905	8115905	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccagccacatgctgacCacgcccacgccgatgcaccc	9	4	7	21	3	0	1	0	1	0	0	1	2	1	1	6	0	3	2	6	0	0	0	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	8115905	C	T	8115905	2	4	236	1	0	0	0	0	0	0	0	1	6255	581	21	2		2	GATA3	10	8115905	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10		8115905	127418842	18	12578											
ZNF365	22891	hgsc.bcm.edu;ucsc.edu	37	chr10	64159446	64159446	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtcctcaagagacctctgCagacctccaaagaaagggga	14	5	11	11	0	2	3	1	0	1	3	4	6	4	4	4	2	1	1	4	2	3	0	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		G	64159446	C	G	64159446	3	3	236	1	0	0	0	0	1	0	0	0	17868	718	25	4	1136	4	ZNF365	10	64159446	Missense_Mutation	SNP	C	TCGA-BP-4343-01A-02D-1366-10	56043541	64159446	71375301	19	12579											
TET1	80312	hgsc.bcm.edu	37	chr10	70450818	70450818	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtacgatgccttcgggAagactcagtggtgccaatgc	9	9	12	11	2	1	1	1	0	0	1	2	3	1	2	2	2	4	1	2	2	3	2	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		G	70450818	A	G	70450818	2	3	236	1	0	0	0	0	0	0	0	1	15768	233	9	3		3	TET1	10	70450818	Silent	SNP	A	TCGA-BP-4343-01A-02D-1366-10	6291372	70450818	65083929	20	12580											
C10orf79	0	hgsc.bcm.edu;ucsc.edu	37	chr10	105893489	105893489	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcaatctgaagtattctTttgtgtacatctttactttc	9	19	4	9	0	4	1	1	1	3	0	5	1	4	1	0	0	2	2	0	0	5	8	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	105893489	T	C	105893489	2	2	236	1	0	0	0	0	0	0	0	1	1618	1838	64	3		3	C10orf79	10	105893489	Silent	SNP	T	TCGA-BP-4343-01A-02D-1366-10	35442671	105893489	29641258	21	12581											
VENTX	27287	hgsc.bcm.edu	37	chr10	135053527	135053527	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctcggggtctctccatgCgcccccagctttctactcaa	5	12	7	17	2	4	0	1	0	3	0	7	0	5	0	3	2	3	1	3	2	2	3	rs150065198	byfrequency	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	135053527	C	T	135053527	3	4	236	1	0	0	0	0	1	0	0	0	17152	768	27	1	504	1	VENTX	10	135053527	Missense_Mutation	SNP	C	TCGA-BP-4343-01A-02D-1366-10	29160038	135053527	481220	22	12582											
ZP1	22917	hgsc.bcm.edu	37	chr11	60637829	60637829	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgagccaggagcagtGccaggtggcctcagggcacc	8	4	14	15	0	1	1	1	1	0	0	1	2	1	2	6	4	3	2	6	4	0	0	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	60637829	G	A	60637829	3	1	236	1	0	0	0	0	1	0	0	0	18214	1319	46	2	721	2	ZP1	11	60637829	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10		60637829	74368687	23	12583											
KIF21A	55605	hgsc.bcm.edu	37	chr12	39695437	39695437	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactgggtggtctggcacCactcccagggcacagaccca	11	5	11	14	0	1	1	0	0	1	1	2	1	2	1	3	4	1	2	3	4	2	0	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	39695437	C	A	39695437	2	1	236	1	0	0	0	0	0	0	0	1	8288	581	21	4		4	KIF21A	12	39695437	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10		39695437	94156458	24	12584											
CDK4	1019	hgsc.bcm.edu;ucsc.edu	37	chr12	58144726	58144726	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgggtgtaagtgccatctGgtagctgtagattctggcca	8	11	13	9	1	2	1	0	0	2	1	2	1	2	1	2	3	2	4	2	3	3	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	58144726	G	C	58144726	3	2	236	1	0	0	0	0	1	0	0	0	3141	1357	47	4	429	4	CDK4	12	58144726	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10	18449289	58144726	75707169	25	12585											
TRPM1	4308	hgsc.bcm.edu;ucsc.edu	37	chr15	31355418	31355418	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgggaggctcttcttgcaGgtattccaagacgatggaca	10	10	13	8	1	2	1	0	0	2	1	3	5	3	3	1	4	1	3	1	4	2	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	31355418	G	A	31355418	2	1	236	1	0	0	0	0	0	0	0	1	16584	991	35	2		2	TRPM1	15	31355418	Silent	SNP	G	TCGA-BP-4343-01A-02D-1366-10		31355418	71175974	26	12586											
ATP2C2	9914	hgsc.bcm.edu	37	chr16	84495698	84495698	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatttacatccccccgctGcagagggtcttccagacgga	8	9	10	14	2	2	2	1	0	1	2	4	3	4	3	4	2	2	2	4	2	1	3	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	84495698	G	C	84495698	2	2	236	1	0	0	0	0	0	0	0	1	1144	1306	46	4		4	ATP2C2	16	84495698	Silent	SNP	G	TCGA-BP-4343-01A-02D-1366-10		84495698	5859055	27	12587											
SLC13A2	9058	hgsc.bcm.edu	37	chr17	26817926	26817926	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaggtgaccaagcttggTgagaaaaatgaggctagact	15	7	14	5	0	0	4	0	3	0	2	0	6	0	5	1	4	1	2	1	4	5	2	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		G	26817926	T	G	26817926	5	3	236	1	0	0	0	0	0	0	1	0	14394	1710	59	5	737	5	SLC13A2	17	26817926	Splice_Site	SNP	T	TCGA-BP-4343-01A-02D-1366-10		26817926	54377284	28	12588											
EHD2	30846	hgsc.bcm.edu	37	chr19	48239721	48239721	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcctcaaactgcccgtCatctttgcgaagattcagct	9	12	7	13	2	4	2	3	1	1	1	5	3	5	2	2	0	4	1	2	0	2	2	rs141588825	alternate_allele	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	48239721	C	A	48239721	2	1	236	1	0	0	0	0	0	0	0	1	4978	813	29	4		4	EHD2	19	48239721	Silent	SNP	C	TCGA-BP-4343-01A-02D-1366-10		48239721	10889262	29	12589											
TMC4	147798	hgsc.bcm.edu	37	chr19	54675643	54675643	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtggggcctcacctgtGtgcccgtctggcctgcatgg	3	9	17	12	1	2	0	1	0	1	0	2	1	2	1	4	6	2	1	4	6	0	0	rs77215230	bycluster;byfrequency;by1000genomes	TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	54675643	G	A	54675643	3	1	236	1	0	0	0	0	1	0	0	0	15986	1377	48	2	1887	2	TMC4	19	54675643	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10	6435922	54675643	4453340	30	12590											
CHRNA4	1137	hgsc.bcm.edu	37	chr20	61987735	61987735	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccactcacctgcttcacccaTacgttcgtggtcatcatctg	7	12	6	16	2	5	0	4	0	1	0	6	0	5	0	3	1	2	2	3	1	1	3	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		C	61987735	T	C	61987735	2	2	236	1	0	0	0	0	0	0	0	1	3385	1393	49	3		3	CHRNA4	20	61987735	Silent	SNP	T	TCGA-BP-4343-01A-02D-1366-10		61987735	1037785	31	12591											
TRAPPC10	7109	hgsc.bcm.edu;ucsc.edu	37	chr21	45502925	45502925	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcattaactttccacccgaGaccgcacctttccctgtatc	9	12	4	16	2	1	1	1	0	0	1	4	2	3	1	5	0	1	2	5	0	2	4	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	45502925	G	A	45502925	2	1	236	1	0	0	0	0	0	0	0	1	16456	933	33	2		2	TRAPPC10	21	45502925	Silent	SNP	G	TCGA-BP-4343-01A-02D-1366-10		45502925	2626970	32	12592											
PHKA2	5256	hgsc.bcm.edu	37	chrX	18926100	18926100	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggttcaagccggctttcCcatagagctcaccaagaagg	10	8	10	13	1	2	2	2	0	0	2	3	2	3	2	4	3	2	3	4	3	4	3	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		T	18926100	C	T	18926100	3	4	236	1	0	0	0	0	1	0	0	0	11844	623	22	2	1320	2	PHKA2	23	18926100	Missense_Mutation	SNP	C	TCGA-BP-4343-01A-02D-1366-10		18926100	136344460	33	12593											
IL1RAPL2	26280	hgsc.bcm.edu;ucsc.edu	37	chrX	104961395	104961395	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgcaaagcattcttcGgattcagtggagagtctggg	8	11	12	10	1	3	1	1	0	2	1	5	3	4	2	2	3	2	2	2	3	1	3	novel		TCGA-BP-4343-01A-02D-1366-10	TCGA-BP-4343-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7195f58b-26ad-4015-af27-07f1c578b3ab	488a3842-7fc6-401c-b901-2cae0e89a9de		A	104961395	G	A	104961395	3	1	236	1	0	0	0	0	1	0	0	0	7662	1117	39	1	830	1	IL1RAPL2	23	104961395	Missense_Mutation	SNP	G	TCGA-BP-4343-01A-02D-1366-10	86035295	104961395	50309165	34	12594											
CCDC17	149483	hgsc.bcm.edu	37	chr1	46086449	46086449	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggattgatctctgccagtgtCtgtacagctgcatctcttgc	6	14	10	11	0	3	1	0	1	3	0	5	2	3	2	1	1	5	3	1	1	1	3	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		G	46086449	C	G	46086449	3	3	237	1	0	0	0	0	1	0	0	0	2793	912	32	4	220	4	CCDC17	1	46086449	Missense_Mutation	SNP	C	TCGA-BP-4345-01A-01D-1366-10		46086449	203164172	1	12595											
OR6N1	128372	hgsc.bcm.edu;ucsc.edu	37	chr1	158735712	158735712	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacatacatggaaaggatgCtcccatagaagatgagaacc	16	6	10	9	0	0	3	0	1	0	3	1	6	1	5	2	2	3	2	2	2	5	2	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	158735712	C	A	158735712	3	1	237	1	0	0	0	0	1	0	0	0	11206	797	28	4	180	4	OR6N1	1	158735712	Missense_Mutation	SNP	C	TCGA-BP-4345-01A-01D-1366-10	112649263	158735712	90514909	2	12596											
TRIM58	25893	hgsc.bcm.edu	37	chr1	248039262	248039262	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcttgaccgccgacctgcGcagtgtgcaggatggagaac	8	7	14	12	3	1	2	0	1	1	1	1	5	1	3	3	2	3	3	3	2	1	1	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		T	248039262	G	T	248039262	3	4	237	1	0	0	0	0	1	0	0	0	16530	1087	38	4	954	4	TRIM58	1	248039262	Missense_Mutation	SNP	G	TCGA-BP-4345-01A-01D-1366-10	89303550	248039262	1211359	3	12597											
RNF144A	9781	hgsc.bcm.edu	37	chr2	7160712	7160712	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagccagtgcagtgcaaagCctgccgtatggaattctgct	9	9	11	12	1	1	0	0	0	1	0	1	1	1	1	4	1	6	4	4	1	3	2	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	7160712	C	A	7160712	3	1	237	1	0	0	0	0	1	0	0	0	13447	739	26	4	424	4	RNF144A	2	7160712	Missense_Mutation	SNP	C	TCGA-BP-4345-01A-01D-1366-10		7160712	236038661	4	12598											
ZDBF2	57683	hgsc.bcm.edu;ucsc.edu	37	chr2	207169576	207169576	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaccgaagagagaccatcCgaggtttcagaacctattga	13	8	10	10	2	1	4	1	1	0	3	2	7	2	4	4	1	2	2	4	1	4	4	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		G	207169576	C	G	207169576	2	3	237	1	0	0	0	0	0	0	0	1	17598	639	23	4		4	ZDBF2	2	207169576	Silent	SNP	C	TCGA-BP-4345-01A-01D-1366-10	200008864	207169576	36029797	5	12599											
DNER	92737	hgsc.bcm.edu	37	chr2	230231641	230231641	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactcgctgtcgatgctgcGgcagttgtagaactcctcat	8	11	11	11	3	1	1	1	0	0	1	4	3	2	1	1	1	4	5	1	1	3	2	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		T	230231641	G	T	230231641	3	4	237	1	0	0	0	0	1	0	0	0	4667	1116	39	4	171	4	DNER	2	230231641	Missense_Mutation	SNP	G	TCGA-BP-4345-01A-01D-1366-10	23062065	230231641	12967732	6	12600											
NFKBIL1	4795	hgsc.bcm.edu	37	chr6	31525512	31525512	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgggctggggaccccccTgggattctgctgaagaggag	6	10	16	9	0	1	2	0	1	1	1	1	5	1	5	3	5	1	2	3	5	1	3	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		G	31525512	T	G	31525512	3	3	237	1	0	0	0	0	1	0	0	0	10381	1580	55	5	452	5	NFKBIL1	6	31525512	Missense_Mutation	SNP	T	TCGA-BP-4345-01A-01D-1366-10		31525512	139589555	7	12601											
TIAM2	26230	hgsc.bcm.edu	37	chr6	155451458	155451458	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagcccaaagcctttgtTgaggatactgcgaagaagga	13	7	13	8	2	0	2	0	1	0	1	0	6	0	5	2	3	4	1	2	3	5	3	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		C	155451458	T	C	155451458	2	2	237	1	0	0	0	0	0	0	0	1	15890	1799	63	3		3	TIAM2	6	155451458	Silent	SNP	T	TCGA-BP-4345-01A-01D-1366-10	123925946	155451458	15663609	8	12602											
C7orf27	0	hgsc.bcm.edu	37	chr7	2579268	2579268	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggcgtttctgcagcacagGgaacagctctagggtgggaa	10	7	15	9	1	2	0	0	0	2	0	2	2	2	2	0	4	4	4	0	4	3	2	rs147745609	byfrequency	TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	2579268	G	A	2579268	3	1	237	1	0	0	0	0	1	0	0	0	2382	1232	43	2	970	2	C7orf27	7	2579268	Missense_Mutation	SNP	G	TCGA-BP-4345-01A-01D-1366-10		2579268	156559395	9	12603											
TECPR1	25851	hgsc.bcm.edu	37	chr7	97874261	97874261	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagactcccactcccagTgcggcgagggcagtgccacc	8	5	12	16	2	1	1	1	0	0	1	3	2	3	1	4	2	2	1	4	2	0	0	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		C	97874261	T	C	97874261	3	2	237	1	0	0	0	0	1	0	0	0	15742	1696	59	3	3245	3	TECPR1	7	97874261	Missense_Mutation	SNP	T	TCGA-BP-4345-01A-01D-1366-10	95294993	97874261	61264402	10	12604											
PPP3R2	5535	hgsc.bcm.edu	37	chr9	104356948	104356948	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caacttctgctcctcgtcgcCcttgacgctgaactgggagg	6	10	11	14	3	1	2	0	2	1	0	4	3	2	3	2	2	3	2	2	2	2	2	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	104356948	C	A	104356948	3	1	237	1	0	0	0	0	1	0	0	0	12403	623	22	4	260	4	PPP3R2	9	104356948	Missense_Mutation	SNP	C	TCGA-BP-4345-01A-01D-1366-10		104356948	36856483	11	12605											
PAPSS2	9060	hgsc.bcm.edu	37	chr10	89503130	89503130	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctttcctctcccagAtgcggtgtttgcattccagt	4	16	8	13	1	2	1	0	0	2	1	5	1	4	1	3	1	3	3	3	1	0	4	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		G	89503130	A	G	89503130	3	3	237	1	0	0	0	0	1	0	0	0	11435	347	12	3	1265	3	PAPSS2	10	89503130	Missense_Mutation	SNP	A	TCGA-BP-4345-01A-01D-1366-10		89503130	46031617	12	12606											
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89692905	89692905	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtaaagctggaaagggacGaactggtgtaatgatatgtg	13	10	14	4	1	0	1	0	1	0	0	0	4	0	3	0	3	2	3	0	3	6	3	rs121909229	bycluster	TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	89692905	G	A	89692905	3	1	237	1	0	0	0	0	1	0	0	0	12740	1058	37	1	407	1	PTEN	10	89692905	Missense_Mutation	SNP	G	TCGA-BP-4345-01A-01D-1366-10	189775	89692905	45841842	13	12607											
INO80	54617	hgsc.bcm.edu;ucsc.edu	37	chr15	41313241	41313241	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaacactgcttggctgccAgactccctccttccttcaga	9	10	6	16	0	1	2	1	0	0	2	4	2	4	2	4	1	3	2	4	1	1	3	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		T	41313241	A	T	41313241	3	4	237	1	0	0	0	0	1	0	0	0	7746	188	7	5	1583	5	INO80	15	41313241	Missense_Mutation	SNP	A	TCGA-BP-4345-01A-01D-1366-10		41313241	61218151	14	12608											
DUOX1	53905	hgsc.bcm.edu	37	chr15	45436386	45436386	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcgtcctgtccagcaacCgtggacgccgcactctgctg	6	9	10	16	4	1	0	0	0	1	0	4	1	3	1	4	1	3	3	4	1	1	1	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		T	45436386	C	T	45436386	3	4	237	1	0	0	0	0	1	0	0	0	4800	652	23	1	2151	1	DUOX1	15	45436386	Missense_Mutation	SNP	C	TCGA-BP-4345-01A-01D-1366-10	4123145	45436386	57095006	15	12609											
ANPEP	290	hgsc.bcm.edu	37	chr15	90342657	90342657	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggtggcagacactcacCgagtggtctctctgcagctg	7	8	15	11	1	3	1	1	0	2	1	4	3	3	1	1	4	2	3	1	4	0	0	rs184252270	by1000genomes;alternate_allele	TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	90342657	C	A	90342657	2	1	237	1	0	0	0	0	0	0	0	1	710	666	23	4		4	ANPEP	15	90342657	Silent	SNP	C	TCGA-BP-4345-01A-01D-1366-10	44906271	90342657	12188735	16	12610											
MMP2	4313	hgsc.bcm.edu	37	chr16	55530885	55530885	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaagcccatggggccccTgctggtggccacattctggc	6	8	13	14	0	1	1	0	1	1	0	1	1	1	1	4	5	2	1	4	5	1	1	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		C	55530885	T	C	55530885	3	2	237	1	0	0	0	0	1	0	0	0	9658	1580	55	3	1565	3	MMP2	16	55530885	Missense_Mutation	SNP	T	TCGA-BP-4345-01A-01D-1366-10		55530885	34823868	17	12611											
NTN5	126147	hgsc.bcm.edu;ucsc.edu	37	chr19	49166772	49166772	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtaccctggtgtccgaCatattgcagtagttttgaca	9	14	10	8	1	0	1	0	1	0	0	1	2	1	1	2	1	2	4	2	1	3	6	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		T	49166772	C	T	49166772	3	4	237	1	0	0	0	0	1	0	0	0	10703	478	17	2	424	2	NTN5	19	49166772	Missense_Mutation	SNP	C	TCGA-BP-4345-01A-01D-1366-10		49166772	9962211	18	12612											
MAMLD1	10046	hgsc.bcm.edu;ucsc.edu	37	chrX	149613802	149613802	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggatgactggaaaagtcGgcttgtaatcaagagcatgc	14	9	12	6	1	1	2	1	1	0	1	2	4	1	4	0	3	2	3	0	3	5	2	novel		TCGA-BP-4345-01A-01D-1366-10	TCGA-BP-4345-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	deda137c-5c13-41d4-95e1-9105db3c953b	6831bc8a-3618-41d4-99d3-5c570ed37ae7		A	149613802	G	A	149613802	3	1	237	1	0	0	0	0	1	0	0	0	9208	1116	39	1	22	1	MAMLD1	23	149613802	Missense_Mutation	SNP	G	TCGA-BP-4345-01A-01D-1366-10		149613802	5656758	19	12613											
ATP13A2	23400	hgsc.bcm.edu	37	chr1	17318322	17318322	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcctcatgaccagcagccCcaggaggctcaggtctcctt	7	9	10	15	0	3	1	2	1	1	0	5	2	4	2	5	3	2	3	5	3	0	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	17318322	C	T	17318322	3	4	238	1	0	0	0	0	1	0	0	0	1124	623	22	2	1660	2	ATP13A2	1	17318322	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10		17318322	231932299	1	12614											
LGTN	100529141	hgsc.bcm.edu	37	chr1	206776435	206776435	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcttccccctccagggtCatgtgcctcatgtctccctg	3	13	7	18	0	4	0	2	0	2	0	8	0	7	0	6	1	1	0	6	1	0	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	206776435	C	T	206776435	3	4	238	1	0	0	0	0	1	0	0	0	8760	826	29	2	1140	2	LGTN	1	206776435	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10	189458113	206776435	42474186	2	12615											
HLX	3142	hgsc.bcm.edu;ucsc.edu	37	chr1	221055659	221055659	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccggaccgaaagcagcTggcggcgatgctgggcctca	9	4	15	13	4	1	0	1	0	0	0	1	3	1	1	3	4	4	3	3	4	2	0	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	221055659	T	C	221055659	3	2	238	1	0	0	0	0	1	0	0	0	7216	1580	55	3	936	3	HLX	1	221055659	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10	14279224	221055659	28194962	3	12616											
AIDA	64853	hgsc.bcm.edu	37	chr1	222843559	222843559	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtaaacctttttttaggcTtgtagtgtttgaattcaaag	10	18	9	4	0	1	1	1	1	0	0	1	1	1	1	1	2	1	4	1	2	6	9	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	222843559	T	A	222843559	3	1	238	1	0	0	0	0	1	0	0	0	423	1609	56	5	188	5	AIDA	1	222843559	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10	1787900	222843559	26407062	4	12617											
HNRPLL	92906	hgsc.bcm.edu;ucsc.edu	37	chr2	38800465	38800465	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggatttcctccatgcaTgtaagaggaagaagcctgtg	12	9	13	7	0	0	3	0	0	0	3	2	5	2	5	3	2	2	2	3	2	3	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	38800465	T	C	38800465	3	2	238	1	0	0	0	0	1	0	0	0	7277	1464	51	3	673	3	HNRPLL	2	38800465	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10		38800465	204398908	5	12618											
ANKRD44	91526	hgsc.bcm.edu;ucsc.edu	37	chr2	197954719	197954719	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagagtgagcatttagggCagctaaatgtaaagggaaca	15	8	13	5	0	1	2	1	1	0	1	1	3	1	3	0	2	3	4	0	2	6	4	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	197954719	C	T	197954719	3	4	238	1	0	0	0	0	1	0	0	0	672	710	25	2	1760	2	ANKRD44	2	197954719	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10	159154254	197954719	45244654	6	12619											
LARS2	23395	hgsc.bcm.edu	37	chr3	45583404	45583404	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcatggcctgctgtggacCcggagttcctgcagcagcct	6	8	14	13	1	0	0	0	0	0	0	1	2	1	2	4	4	4	5	4	4	0	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	45583404	C	A	45583404	3	1	238	1	0	0	0	0	1	0	0	0	8635	623	22	4	2562	4	LARS2	3	45583404	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10		45583404	152439026	7	12620											
CACNA1D	776	hgsc.bcm.edu;ucsc.edu	37	chr3	53845146	53845146	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttctgtacaggtcctgAtatccgaaggcttgggacgc	7	13	11	10	2	2	1	0	1	2	0	4	3	4	2	2	3	1	2	2	3	3	5	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	53845146	A	G	53845146	3	3	238	1	0	0	0	0	1	0	0	0	2541	333	12	3	6561	3	CACNA1D	3	53845146	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10	8261742	53845146	144177284	8	12621											
C3orf30	152405	hgsc.bcm.edu	37	chr3	118865300	118865300	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtacacctggtcaggctggCcgcagagcatccaaccctgc	9	6	11	15	1	1	1	1	0	0	1	2	1	2	1	4	3	4	4	4	3	2	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	118865300	C	A	118865300	2	1	238	1	0	0	0	0	0	0	0	1	2220	726	26	4		4	C3orf30	3	118865300	Silent	SNP	C	TCGA-BP-4346-01A-01D-1366-10	65020154	118865300	79157130	9	12622											
RHO	6010	hgsc.bcm.edu	37	chr3	129249846	129249846	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgccttcacctgggtcatGgcgctggcctgcgccgcacc	3	9	13	16	3	2	0	2	0	0	0	2	0	2	0	5	3	2	3	5	3	0	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	129249846	G	T	129249846	3	4	238	1	0	0	0	0	1	0	0	0	13332	1348	47	4	495	4	RHO	3	129249846	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10	10384546	129249846	68772584	10	12623											
SERPINI1	5274	hgsc.bcm.edu;ucsc.edu	37	chr3	167508176	167508176	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaggtgaagaattttctttCttgaaggagttttcaaacat	12	16	8	5	0	4	3	2	2	2	1	4	4	4	4	0	2	1	1	0	2	4	6	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	167508176	C	T	167508176	2	4	238	1	0	0	0	0	0	0	0	1	14120	912	32	2		2	SERPINI1	3	167508176	Silent	SNP	C	TCGA-BP-4346-01A-01D-1366-10	38258330	167508176	30514254	11	12624											
TIGD2	166815	hgsc.bcm.edu	37	chr4	90034133	90034133	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttagacacttaaaatgttggGgaaacgtaagcgtgtggtgt	12	12	13	4	2	0	1	0	0	0	1	0	2	0	2	0	3	2	2	0	3	5	4	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	90034133	G	T	90034133	3	4	238	1	0	0	0	0	1	0	0	0	15895	1232	43	4	10	4	TIGD2	4	90034133	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10		90034133	101120143	12	12625											
PRDM5	11107	hgsc.bcm.edu;ucsc.edu	37	chr4	121631520	121631520	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtgctcatccaggcctcGcttctggctgaaggccttgc	4	12	11	14	1	2	1	1	1	1	0	4	1	3	1	3	3	2	3	3	3	1	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	121631520	G	T	121631520	2	4	238	1	0	0	0	0	0	0	0	1	12462	1095	38	4		4	PRDM5	4	121631520	Silent	SNP	G	TCGA-BP-4346-01A-01D-1366-10	31597387	121631520	69522756	13	12626											
NUP153	9972	hgsc.bcm.edu	37	chr6	17637570	17637570	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actttccgaaaccactgtcaAtgtaagggctcgcttcacac	11	10	7	13	2	2	0	2	0	0	0	4	1	3	0	2	1	1	3	2	1	3	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	17637570	A	G	17637570	2	3	238	1	0	0	0	0	0	0	0	1	10755	98	4	3		3	NUP153	6	17637570	Silent	SNP	A	TCGA-BP-4346-01A-01D-1366-10		17637570	153477497	14	12627											
PRSS16	10279	hgsc.bcm.edu	37	chr6	27216901	27216901	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcccgcagccttggccccAgcctggggcgccctggtgat	4	7	13	17	2	0	1	0	1	0	0	1	1	1	1	6	4	2	1	6	4	0	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	27216901	A	C	27216901	2	2	238	1	0	0	0	0	0	0	0	1	12618	175	7	5		5	PRSS16	6	27216901	Silent	SNP	A	TCGA-BP-4346-01A-01D-1366-10	9579331	27216901	143898166	15	12628											
HLA-DQB1	3119	hgsc.bcm.edu	37	chr6	32632777	32632777	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggttatagatgtatctggtCacaagacgcacgcgctccgt	9	10	11	11	5	2	2	1	0	1	2	3	2	3	2	1	2	0	4	1	2	4	3	rs79502177		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	32632777	C	T	32632777	2	4	238	1	0	0	0	0	0	0	0	1	7206	813	29	2		2	HLA-DQB1	6	32632777	Silent	SNP	C	TCGA-BP-4346-01A-01D-1366-10	5415876	32632777	138482290	16	12629											
SKAP2	8935	hgsc.bcm.edu	37	chr7	26765559	26765559	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccttgcaatacaaatttcAgctgctgtacccattcttca	11	14	4	12	0	3	0	2	0	1	0	3	0	3	0	2	0	6	4	2	0	5	7	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	26765559	A	C	26765559	3	2	238	1	0	0	0	0	1	0	0	0	14358	188	7	5	458	5	SKAP2	7	26765559	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10		26765559	132373104	17	12630											
URGCP	55665	hgsc.bcm.edu	37	chr7	43918276	43918276	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatgcgcacgaaggcgaaGgcgggcgccctggacaagac	10	3	15	13	5	0	1	0	0	0	1	1	4	1	2	2	4	1	1	2	4	3	0	rs144106376	alternate_allele	TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	43918276	G	C	43918276	2	2	238	1	0	0	0	0	0	0	0	1	17025	987	35	4		4	URGCP	7	43918276	Silent	SNP	G	TCGA-BP-4346-01A-01D-1366-10	17152717	43918276	115220387	18	12631											
PTCD1	26024	hgsc.bcm.edu	37	chr7	99022803	99022803	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgttccaaaggagaccactGtagggggaacggccccgggg	9	4	16	12	3	0	1	0	0	0	1	1	3	1	2	5	6	1	2	5	6	3	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	99022803	G	T	99022803	3	4	238	1	0	0	0	0	1	0	0	0	12729	1377	48	4	762	4	PTCD1	7	99022803	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10	55104527	99022803	60115860	19	12632											
TAS2R38	5726	hgsc.bcm.edu	37	chr7	141672558	141672558	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctctgagcccagagcagaAtggtcatcacagctctcctc	9	9	9	14	0	4	3	2	1	2	2	6	3	4	3	2	1	4	3	2	1	1	0	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	141672558	A	G	141672558	3	3	238	1	0	0	0	0	1	0	0	0	15574	101	4	3	73	3	TAS2R38	7	141672558	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10	42649755	141672558	17466105	20	12633											
ASPH	444	hgsc.bcm.edu;ucsc.edu	37	chr8	62577970	62577970	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggttttagcactttttTctaggtccactttctctttt	4	22	5	10	0	2	0	0	0	2	0	4	0	3	0	2	2	1	2	2	2	2	10	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	62577970	T	A	62577970	3	1	238	1	0	0	0	0	1	0	0	0	1053	1783	62	5	2218	5	ASPH	8	62577970	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10		62577970	83786052	21	12634											
VCP	7415	hgsc.bcm.edu;ucsc.edu	37	chr9	35059494	35059494	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgatcttgcacctgccttgGcaactggggacttgcgcagg	7	10	13	11	1	1	1	0	1	1	0	1	2	1	2	2	4	4	3	2	4	1	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	35059494	G	A	35059494	3	1	238	1	0	0	0	0	1	0	0	0	17139	1203	42	2	436	2	VCP	9	35059494	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10		35059494	106153937	22	12635											
COL15A1	1306	hgsc.bcm.edu	37	chr9	101748184	101748184	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagccaggctcccatgtgtcCcaagaggctgctgccttctc	6	9	11	15	0	1	1	0	0	1	1	4	2	3	1	4	2	3	3	4	2	1	1	rs7045978	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	101748184	C	A	101748184	2	1	238	1	0	0	0	0	0	0	0	1	3672	610	22	4		4	COL15A1	9	101748184	Silent	SNP	C	TCGA-BP-4346-01A-01D-1366-10	66688690	101748184	39465247	23	12636											
DCHS1	8642	hgsc.bcm.edu	37	chr11	6646503	6646503	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgtgaggttggcacggcCctcatgaggcccatcatgtg	7	9	13	12	1	2	2	2	2	0	0	2	2	2	2	2	4	0	2	2	4	0	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	6646503	C	A	6646503	3	1	238	1	0	0	0	0	1	0	0	0	4287	623	22	4	2836	4	DCHS1	11	6646503	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10		6646503	128360013	24	12637											
CCDC88B	283234	hgsc.bcm.edu;ucsc.edu	37	chr11	64121227	64121227	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgagaagcagaagctcGtggagaagatcatggaccaa	14	4	14	9	3	1	4	1	0	0	4	2	7	1	5	2	2	2	2	2	2	4	0	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	64121227	G	A	64121227	3	1	238	1	0	0	0	0	1	0	0	0	2864	1145	40	1	3964	1	CCDC88B	11	64121227	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10	57474724	64121227	70885289	25	12638											
RPS3	6188	hgsc.bcm.edu	37	chr11	75113406	75113406	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttaaagctttatgctgAaaaggtggccactagaggtc	11	12	10	8	0	0	2	0	1	0	1	2	2	1	2	2	3	2	2	2	3	6	5	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	75113406	A	C	75113406	3	2	238	1	0	0	0	0	1	0	0	0	13645	246	9	5	280	5	RPS3	11	75113406	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10	10992179	75113406	59893110	26	12639											
TMPRSS12	283471	hgsc.bcm.edu;ucsc.edu	37	chr12	51252806	51252806	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggaaacacaaagtgttttAtaagtggctggggaagaaca	16	8	12	5	1	0	1	0	0	0	1	0	3	0	3	0	4	2	2	0	4	6	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	51252806	A	G	51252806	3	3	238	1	0	0	0	0	1	0	0	0	16243	449	16	3	632	3	TMPRSS12	12	51252806	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10		51252806	82599089	27	12640											
SDR9C7	121214	hgsc.bcm.edu	37	chr12	57323228	57323228	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtctcctgaggcagcctctCccaaagctttcgcatgcgtg	6	10	11	14	2	2	1	0	1	2	0	5	1	2	1	3	2	3	3	3	2	1	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	57323228	C	T	57323228	3	4	238	1	0	0	0	0	1	0	0	0	13976	864	30	2	279	2	SDR9C7	12	57323228	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10	6070422	57323228	76528667	28	12641											
FAM179B	23116	hgsc.bcm.edu	37	chr14	45514044	45514044	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtaactcctgcacgtgcAgttgtttctcttatcaatgg	9	15	8	9	1	2	0	1	0	1	0	4	0	3	0	1	1	3	5	1	1	4	4	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	45514044	A	G	45514044	2	3	238	1	0	0	0	0	0	0	0	1	5506	175	7	3		3	FAM179B	14	45514044	Silent	SNP	A	TCGA-BP-4346-01A-01D-1366-10		45514044	61835496	29	12642											
SDCCAG1	0	hgsc.bcm.edu;ucsc.edu	37	chr14	50312885	50312885	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagagctcaatgattaaatgGtaagcagcttcatcacttcc	13	12	7	9	0	3	2	3	1	0	1	4	2	4	2	1	1	3	4	1	1	5	5	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	50312885	G	C	50312885	4	2	238	1	0	0	0	0	0	1	0	0	13959	1256	44	4	3020	4	SDCCAG1	14	50312885	Nonsense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10	4798841	50312885	57036655	30	12643											
PLEKHH1	57475	hgsc.bcm.edu;ucsc.edu	37	chr14	68040063	68040063	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacgtggaagaggcgctggtTtgtcctgagacagggacaga	10	7	17	7	2	0	3	0	1	0	3	1	7	1	5	1	4	0	2	1	4	1	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	68040063	T	G	68040063	3	3	238	1	0	0	0	0	1	0	0	0	12076	1841	64	5	1841	5	PLEKHH1	14	68040063	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10	17727178	68040063	39309477	31	12644											
CPSF2	53981	hgsc.bcm.edu;ucsc.edu	37	chr14	92604675	92604675	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctagaagaaaacagagAgatgagcagcttctgagtac	16	6	11	8	0	1	6	0	2	1	4	1	7	1	6	1	0	5	3	1	0	5	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	92604675	A	T	92604675	3	4	238	1	0	0	0	0	1	0	0	0	3825	301	11	5	663	5	CPSF2	14	92604675	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10	24564612	92604675	14744865	32	12645											
PAK6	56924	hgsc.bcm.edu;ucsc.edu	37	chr15	40564426	40564426	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttgctttgtccctgcagcCcaactcctctttccgaccgc	4	13	7	17	2	1	0	0	0	1	0	4	1	4	0	5	0	4	3	5	0	1	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	40564426	C	T	40564426	3	4	238	1	0	0	0	0	1	0	0	0	11404	637	22	2	870	2	PAK6	15	40564426	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10		40564426	61966966	33	12646											
UBN1	29855	hgsc.bcm.edu	37	chr16	4911047	4911047	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaattcaggcagccctctTctctccccgaaggcctgcca	8	8	9	16	1	3	0	1	0	2	0	5	2	4	1	5	3	2	1	5	3	2	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	4911047	T	C	4911047	3	2	238	1	0	0	0	0	1	0	0	0	16891	1783	62	3	1076	3	UBN1	16	4911047	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10		4911047	85443706	34	12647											
SLC6A2	6530	hgsc.bcm.edu	37	chr16	55734212	55734212	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagcacgcagggctctctTtgggaggtgagctctggtcc	5	10	14	12	1	3	1	1	1	2	0	5	2	4	2	1	4	2	4	1	4	0	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	55734212	T	C	55734212	2	2	238	1	0	0	0	0	0	0	0	1	14685	1828	64	3		3	SLC6A2	16	55734212	Silent	SNP	T	TCGA-BP-4346-01A-01D-1366-10	50823165	55734212	34620541	35	12648											
CTU2	348180	hgsc.bcm.edu	37	chr16	88781504	88781504	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggctgaggcccagctcCgcacacagaggtactggggc	7	6	14	14	1	0	2	0	1	0	1	2	2	2	2	3	5	2	4	3	5	1	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	88781504	C	A	88781504	3	1	238	1	0	0	0	0	1	0	0	0	4048	652	23	4	1522	4	CTU2	16	88781504	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10	33047292	88781504	1573249	36	12649											
FAM83G	644815	hgsc.bcm.edu;ucsc.edu	37	chr17	18882881	18882881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgtaggagccgcacacagCccggtctccatccacaaaca	11	5	8	17	2	1	0	0	0	1	0	3	1	2	1	5	2	3	2	5	2	2	1	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	18882881	C	T	18882881	3	4	238	1	0	0	0	0	1	0	0	0	5639	739	26	2	1687	2	FAM83G	17	18882881	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10		18882881	62312329	37	12650											
BRD4	23476	hgsc.bcm.edu;ucsc.edu	37	chr19	15366320	15366320	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagctgccgcttctcctcaTaggacataggcttgcacttg	7	12	10	12	1	2	1	1	1	1	0	3	2	2	2	2	2	3	4	2	2	2	5	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	15366320	T	C	15366320	3	2	238	1	0	0	0	0	1	0	0	0	1504	1406	49	3	2312	3	BRD4	19	15366320	Missense_Mutation	SNP	T	TCGA-BP-4346-01A-01D-1366-10		15366320	43762663	38	12651											
CPAMD8	27151	hgsc.bcm.edu	37	chr19	17086920	17086920	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatccgcaggtcgacaacCtccccaggttgggtctcatt	7	10	10	14	2	1	1	1	1	1	0	5	2	3	1	4	3	1	2	4	3	1	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		G	17086920	C	G	17086920	3	3	238	1	0	0	0	0	1	0	0	0	3795	680	24	4	3965	4	CPAMD8	19	17086920	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10	1720600	17086920	42042063	39	12652											
SETD4	54093	hgsc.bcm.edu	37	chr21	37418057	37418057	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcaacagcctccgcaaaCagaggctgcagagaagagaa	15	4	11	11	1	1	3	1	0	0	3	2	5	2	3	2	1	4	3	2	1	4	0	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	37418057	C	T	37418057	2	4	238	1	0	0	0	0	0	0	0	1	14135	465	17	2		2	SETD4	21	37418057	Silent	SNP	C	TCGA-BP-4346-01A-01D-1366-10		37418057	10711838	40	12653											
MICAL3	57553	hgsc.bcm.edu;ucsc.edu	37	chr22	18382260	18382260	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctgctttttggctgtcAtaacgaaatagtgtgtgtca	10	15	9	7	1	3	0	2	0	1	0	3	1	3	0	0	1	3	2	0	1	4	4	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		C	18382260	A	C	18382260	3	2	238	1	0	0	0	0	1	0	0	0	9571	217	8	5	5947	5	MICAL3	22	18382260	Missense_Mutation	SNP	A	TCGA-BP-4346-01A-01D-1366-10		18382260	32922306	41	12654											
MORC2	22880	hgsc.bcm.edu	37	chr22	31328970	31328970	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccacggctgtgacacggcCcgtgtaccactccctgttca	6	9	9	17	3	1	1	1	1	0	0	3	1	3	1	4	2	1	3	4	2	1	2	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	31328970	C	A	31328970	3	1	238	1	0	0	0	0	1	0	0	0	9702	623	22	4	690	4	MORC2	22	31328970	Missense_Mutation	SNP	C	TCGA-BP-4346-01A-01D-1366-10	12946710	31328970	19975596	42	12655											
TLR8	51311	hgsc.bcm.edu;ucsc.edu	37	chrX	12937473	12937473	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caatgtacagcaccagaacgGaaatcccggtatacaatcaa	17	6	7	11	2	1	1	1	0	0	1	2	2	2	2	2	2	4	3	2	2	8	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	12937473	G	A	12937473	3	1	238	1	0	0	0	0	1	0	0	0	15956	1174	41	2	320	2	TLR8	23	12937473	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10		12937473	142333087	43	12656											
RS1	6247	hgsc.bcm.edu	37	chrX	18660196	18660196	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgtgccagcccagcgggatGaggcggatgaagcgggagat	10	4	18	9	4	0	3	0	2	0	1	0	6	0	5	2	4	4	0	2	4	1	0	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	18660196	G	A	18660196	2	1	238	1	0	0	0	0	0	0	0	1	13695	1277	45	2		2	RS1	23	18660196	Silent	SNP	G	TCGA-BP-4346-01A-01D-1366-10	5722723	18660196	136610364	44	12657											
FGD1	2245	hgsc.bcm.edu;ucsc.edu	37	chrX	54475346	54475346	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgcacacacggttggagcGgttgttgtcatagacgaggc	9	9	15	8	3	1	1	1	0	0	1	1	3	1	2	0	4	2	4	0	4	1	4	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		A	54475346	G	A	54475346	3	1	238	1	0	0	0	0	1	0	0	0	5832	1116	39	1	568	1	FGD1	23	54475346	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10	35815150	54475346	100795214	45	12658											
XPNPEP2	7512	hgsc.bcm.edu	37	chrX	128886126	128886126	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtcttcccaccccacccagGttgtttgcaaacaagagtcg	9	10	8	14	1	1	1	0	0	1	1	3	1	2	1	4	1	2	3	4	1	2	3	novel		TCGA-BP-4346-01A-01D-1366-10	TCGA-BP-4346-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	20735253-1ba8-41c9-b4ab-682c1af79b9d	69e027cf-071a-4b3e-97de-c450555f38c1		T	128886126	G	T	128886126	3	4	238	1	0	0	0	0	1	0	0	0	17442	1275	44	4	860	4	XPNPEP2	23	128886126	Missense_Mutation	SNP	G	TCGA-BP-4346-01A-01D-1366-10	74410780	128886126	26384434	46	12659											
TAS1R2	80834	hgsc.bcm.edu;ucsc.edu	37	chr1	19166613	19166613	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacccagtagctgtaggcgCgtgggaagcggctggccatc	7	6	17	11	3	0	0	0	0	0	0	1	2	0	2	2	5	2	4	2	5	3	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	19166613	C	T	19166613	3	4	239	1	0	0	0	0	1	0	0	0	15562	768	27	1	523	1	TAS1R2	1	19166613	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10		19166613	230084008	1	12660											
KIF17	57576	hgsc.bcm.edu	37	chr1	21042033	21042033	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctggggatgatgcctcTctgggagggcggatccggca	5	7	18	11	2	1	1	0	1	1	0	3	4	2	4	3	7	1	1	3	7	0	0	rs35835983	bycluster;byfrequency;by1000genomes	TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	21042033	T	C	21042033	3	2	239	1	0	0	0	0	1	0	0	0	8279	1559	54	3	2814	3	KIF17	1	21042033	Missense_Mutation	SNP	T	TCGA-BP-4347-01A-01D-1366-10	1875420	21042033	228208588	2	12661											
GPR61	83873	hgsc.bcm.edu;ucsc.edu	37	chr1	110086265	110086265	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagtgcctactgccagctTtttgtggtggtctttgctgt	4	16	11	10	0	1	0	0	0	1	0	1	0	1	0	2	2	5	2	2	2	1	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	110086265	T	C	110086265	2	2	239	1	0	0	0	0	0	0	0	1	6702	1828	64	3		3	GPR61	1	110086265	Silent	SNP	T	TCGA-BP-4347-01A-01D-1366-10	89044232	110086265	139164356	3	12662											
SOX13	9580	hgsc.bcm.edu	37	chr1	204092030	204092030	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagccatccaggatgctcGgcagctgctgcacagccaca	11	5	10	15	1	0	0	0	0	0	0	2	1	1	1	3	2	6	5	3	2	1	0	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	204092030	G	A	204092030	3	1	239	1	0	0	0	0	1	0	0	0	14946	1116	39	1	1107	1	SOX13	1	204092030	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10	94005765	204092030	45158591	4	12663											
PRKCE	5581	hgsc.bcm.edu	37	chr2	46203638	46203638	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagcggcagggggccgtcagGcgcagggtccatcaggtcaa	9	4	17	11	3	3	0	3	0	0	0	4	0	4	0	2	6	1	2	2	6	2	0	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	46203638	G	A	46203638	2	1	239	1	0	0	0	0	0	0	0	1	12513	1194	42	2		2	PRKCE	2	46203638	Silent	SNP	G	TCGA-BP-4347-01A-01D-1366-10		46203638	196995735	5	12664											
DYSF	8291	hgsc.bcm.edu;ucsc.edu	37	chr2	71838425	71838425	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagagggaggccaacatCtacatggttcctcagaacat	12	7	9	13	0	2	2	1	0	1	2	3	3	3	3	4	3	3	1	4	3	3	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	71838425	C	A	71838425	2	1	239	1	0	0	0	0	0	0	0	1	4859	903	32	4		4	DYSF	2	71838425	Silent	SNP	C	TCGA-BP-4347-01A-01D-1366-10	25634787	71838425	171360948	6	12665											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179665291	179665291	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggatttcggctccatcccgGtagaacttcaccacaggtgt	8	11	10	12	2	1	1	1	0	0	1	4	2	3	2	3	4	1	2	3	4	2	3	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	179665291	G	T	179665291	4	4	239	1	0	0	0	0	0	1	0	0	16734	1256	44	4	111010	4	TTN	2	179665291	Nonsense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10	107826866	179665291	63534082	7	12666											
PSMD1	5707	hgsc.bcm.edu;ucsc.edu	37	chr2	231937037	231937037	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagcagtttttgtcatcTgtaatccagaatcttcgaac	11	13	7	10	1	3	1	1	0	2	1	5	2	4	1	2	0	3	3	2	0	3	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	231937037	T	A	231937037	2	1	239	1	0	0	0	0	0	0	0	1	12694	1567	55	5		5	PSMD1	2	231937037	Silent	SNP	T	TCGA-BP-4347-01A-01D-1366-10	52271746	231937037	11262336	8	12667											
MFSD10	10227	hgsc.bcm.edu;ucsc.edu	37	chr4	2933580	2933580	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagcgctggtgtgtgaGgaagctcagcgtgtactcca	8	9	15	9	2	1	1	1	1	0	0	2	3	2	3	1	3	4	3	1	3	3	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	2933580	G	A	2933580	3	1	239	1	0	0	0	0	1	0	0	0	9528	1000	35	2	505	2	MFSD10	4	2933580	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10		2933580	188220696	9	12668											
TBL2	26608	hgsc.bcm.edu;ucsc.edu	37	chr7	72988762	72988762	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagttgtgttgttgaggcTtctccttccgaatccgctga	6	15	11	9	2	1	3	0	3	1	0	4	4	3	3	3	1	0	5	3	1	2	5	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	72988762	T	A	72988762	3	1	239	1	0	0	0	0	1	0	0	0	15641	1609	56	5	1155	5	TBL2	7	72988762	Missense_Mutation	SNP	T	TCGA-BP-4347-01A-01D-1366-10		72988762	86149901	10	12669											
ZNHIT1	10467	hgsc.bcm.edu	37	chr7	100867081	100867081	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtcagctgcggtgcccGgtactgcactgtgcgctgtc	3	11	14	13	3	1	0	1	0	0	0	2	0	1	0	1	2	6	4	1	2	1	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	100867081	G	T	100867081	3	4	239	1	0	0	0	0	1	0	0	0	18205	1116	39	4	415	4	ZNHIT1	7	100867081	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10	27878319	100867081	58271582	11	12670											
TAS2R3	50831	hgsc.bcm.edu;ucsc.edu	37	chr7	141464727	141464727	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttaattgcatcatttggtAatttcctaccaaaaaccaag	14	14	4	9	0	2	0	1	0	1	0	3	0	3	0	3	1	3	2	3	1	6	6	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		G	141464727	A	G	141464727	3	3	239	1	0	0	0	0	1	0	0	0	15571	362	13	3	771	3	TAS2R3	7	141464727	Missense_Mutation	SNP	A	TCGA-BP-4347-01A-01D-1366-10	40597646	141464727	17673936	12	12671											
UTP23	84294	hgsc.bcm.edu;ucsc.edu	37	chr8	117783987	117783987	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaggcaccggacacacaatCatctgcttctgaaaagaaaa	18	6	7	10	1	3	2	1	1	2	1	3	3	3	3	1	2	1	2	1	2	6	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	117783987	C	T	117783987	3	4	239	1	0	0	0	0	1	0	0	0	17099	838	29	2	666	2	UTP23	8	117783987	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10		117783987	28580035	13	12672											
KANK1	23189	hgsc.bcm.edu;ucsc.edu	37	chr9	712578	712578	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtctgcgaaacaggcagCaacacagaggagtctgtgaa	14	5	13	9	2	2	2	0	1	2	1	2	4	2	3	0	2	5	2	0	2	3	0	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	712578	C	A	712578	3	1	239	1	0	0	0	0	1	0	0	0	7976	709	25	4	1818	4	KANK1	9	712578	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10		712578	140500853	14	12673											
C9orf171	389799	hgsc.bcm.edu	37	chr9	135374869	135374869	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccggcctggtgactgccCgggagaacttgctctaccgt	7	8	13	13	3	1	2	0	1	1	1	1	3	1	2	4	3	5	1	4	3	3	2	rs149346027	bycluster;byfrequency;by1000genomes	TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	135374869	C	T	135374869	3	4	239	1	0	0	0	0	1	0	0	0	2470	643	23	1	528	1	C9orf171	9	135374869	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10	134662291	135374869	5838562	15	12674											
PTER	9317	hgsc.bcm.edu;ucsc.edu	37	chr10	16547025	16547025	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcattgtttctaggactatTcttgataagaaagagctctt	11	15	8	7	1	3	3	0	1	3	2	3	4	3	4	0	1	1	3	0	1	4	8	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	16547025	T	C	16547025	2	2	239	1	0	0	0	0	0	0	0	1	12741	1771	62	3		3	PTER	10	16547025	Silent	SNP	T	TCGA-BP-4347-01A-01D-1366-10		16547025	118987722	16	12675											
RRP12	23223	hgsc.bcm.edu;ucsc.edu	37	chr10	99148128	99148128	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcagcgtggtggtggcctCcttggagcctggtatacaga	6	10	16	9	1	0	1	0	0	0	1	1	2	1	2	3	5	4	2	3	5	2	3	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	99148128	C	A	99148128	4	1	239	1	0	0	0	0	0	1	0	0	13688	864	30	4	3103	4	RRP12	10	99148128	Nonsense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10	82601103	99148128	36386619	17	12676											
CLRN3	119467	hgsc.bcm.edu;ucsc.edu	37	chr10	129690978	129690978	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtcccaagaatagagcaaAttacaatgaaggacccaagg	17	6	10	8	0	0	3	0	1	0	2	1	4	1	4	2	2	2	1	2	2	8	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	129690978	A	T	129690978	3	4	239	1	0	0	0	0	1	0	0	0	3559	101	4	5	621	5	CLRN3	10	129690978	Missense_Mutation	SNP	A	TCGA-BP-4347-01A-01D-1366-10	30542850	129690978	5843769	18	12677											
NARS2	79731	hgsc.bcm.edu;ucsc.edu	37	chr11	78152161	78152161	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtagacttctgtaagtcccGatctgtttaaaggaaaataa	14	12	9	6	1	2	1	0	0	2	1	3	3	3	2	1	2	0	3	1	2	7	6	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	78152161	G	A	78152161	3	1	239	1	0	0	0	0	1	0	0	0	10171	1059	37	1	176	1	NARS2	11	78152161	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10		78152161	56854355	19	12678											
NAB2	4665	hgsc.bcm.edu;ucsc.edu	37	chr12	57485620	57485620	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgctggggaggtcacaTccctgctaaagctgaataag	11	8	14	8	0	1	1	1	1	0	0	2	3	2	3	1	4	3	3	1	4	4	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	57485620	T	C	57485620	3	2	239	1	0	0	0	0	1	0	0	0	10132	1435	50	3	802	3	NAB2	12	57485620	Missense_Mutation	SNP	T	TCGA-BP-4347-01A-01D-1366-10		57485620	76366275	20	12679											
SART3	9733	hgsc.bcm.edu;ucsc.edu	37	chr12	108929189	108929189	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtacttggcatttcctctgGtcatgatgctatcccagagt	7	14	9	11	1	2	2	1	1	1	1	4	2	4	2	2	2	2	3	2	2	2	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	108929189	G	C	108929189	3	2	239	1	0	0	0	0	1	0	0	0	13849	1261	44	4	1421	4	SART3	12	108929189	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10	51443569	108929189	24922706	21	12680											
MIPEP	4285	hgsc.bcm.edu	37	chr13	24411774	24411774	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagattttccatcatgctaGgagttagcaaagttggagaa	15	11	10	5	0	1	2	1	0	0	2	2	4	2	3	1	2	2	4	1	2	5	5	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	24411774	G	T	24411774	3	4	239	1	0	0	0	0	1	0	0	0	9592	1000	35	4	709	4	MIPEP	13	24411774	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10		24411774	90758104	22	12681											
RNF113B	140432	hgsc.bcm.edu	37	chr13	98828965	98828965	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgccctggcgcacgtatggGgcccttcctcgccatccccg	4	8	11	18	4	0	0	0	0	0	0	3	0	2	0	6	3	1	2	6	3	1	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	98828965	G	T	98828965	3	4	239	1	0	0	0	0	1	0	0	0	13430	1232	43	4	450	4	RNF113B	13	98828965	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10	74417191	98828965	16340913	23	12682											
SCFD1	23256	hgsc.bcm.edu;ucsc.edu	37	chr14	31171516	31171516	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaggctgatttggagcaAtataaaaaagctttaactga	15	13	8	5	0	1	2	1	2	0	0	1	3	1	3	0	2	3	3	0	2	6	6	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	31171516	A	C	31171516	3	2	239	1	0	0	0	0	1	0	0	0	13891	98	4	5	1491	5	SCFD1	14	31171516	Missense_Mutation	SNP	A	TCGA-BP-4347-01A-01D-1366-10		31171516	76178024	24	12683											
GNB5	10681	hgsc.bcm.edu;ucsc.edu	37	chr15	52433455	52433455	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaggggtacacagaacacTtattatccaaaccactagga	16	8	7	10	0	1	1	1	0	0	1	2	2	2	2	2	3	3	1	2	3	7	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		G	52433455	T	G	52433455	3	3	239	1	0	0	0	0	1	0	0	0	6521	1609	56	5	706	5	GNB5	15	52433455	Missense_Mutation	SNP	T	TCGA-BP-4347-01A-01D-1366-10		52433455	50097937	25	12684											
UBN1	29855	hgsc.bcm.edu	37	chr16	4924285	4924285	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggccccattgctttgccctCagatcaccaaacaggaggcc	9	8	9	15	0	2	1	2	0	0	1	2	2	2	2	5	3	3	1	5	3	1	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		G	4924285	C	G	4924285	4	3	239	1	0	0	0	0	0	1	0	0	16891	838	29	4	1928	4	UBN1	16	4924285	Nonsense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10		4924285	85430468	26	12685											
CNOT1	23019	hgsc.bcm.edu;ucsc.edu	37	chr16	58585658	58585658	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccagtgcaatacttccAggggttgtgatagagccttg	9	11	13	8	0	0	3	0	2	0	1	1	3	1	3	3	2	4	2	3	2	3	5	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	58585658	A	T	58585658	2	4	239	1	0	0	0	0	0	0	0	1	3617	175	7	5		5	CNOT1	16	58585658	Silent	SNP	A	TCGA-BP-4347-01A-01D-1366-10	53661373	58585658	31769095	27	12686											
GAN	8139	hgsc.bcm.edu;ucsc.edu	37	chr16	81411067	81411067	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaagaagcacaggaaccTggcaccacactaaaccactc	17	5	6	13	0	0	1	0	0	0	1	1	2	0	2	3	2	3	2	3	2	6	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		G	81411067	T	G	81411067	3	3	239	1	0	0	0	0	1	0	0	0	6232	1580	55	5	1702	5	GAN	16	81411067	Missense_Mutation	SNP	T	TCGA-BP-4347-01A-01D-1366-10	22825409	81411067	8943686	28	12687											
ZC3H18	124245	hgsc.bcm.edu;ucsc.edu	37	chr16	88644135	88644135	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatgatggggaaatagacGtgagtatgatggagcagagc	13	8	16	4	2	0	5	0	3	0	2	1	8	0	7	0	3	2	2	0	3	3	2	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	88644135	G	A	88644135	5	1	239	1	0	0	0	0	0	0	1	0	17567	1159	40	1	606	1	ZC3H18	16	88644135	Splice_Site	SNP	G	TCGA-BP-4347-01A-01D-1366-10	7233068	88644135	1710618	29	12688											
POLI	11201	hgsc.bcm.edu;ucsc.edu	37	chr18	51804217	51804217	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtcgggtcatgtatacaAtaatcagtgtgagtgggttc	9	14	13	5	1	2	1	2	1	0	0	4	1	2	1	0	2	1	2	0	2	4	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		G	51804217	A	G	51804217	3	3	239	1	0	0	0	0	1	0	0	0	12203	101	4	3	565	3	POLI	18	51804217	Missense_Mutation	SNP	A	TCGA-BP-4347-01A-01D-1366-10		51804217	26273031	30	12689											
MAST1	22983	hgsc.bcm.edu	37	chr19	12975920	12975920	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcggcctctccaagatgggGctcatgagcctcaccaccaa	9	8	9	15	1	3	2	2	1	1	1	5	2	3	2	5	3	1	1	5	3	2	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	12975920	G	T	12975920	2	4	239	1	0	0	0	0	0	0	0	1	9324	1190	42	4		4	MAST1	19	12975920	Silent	SNP	G	TCGA-BP-4347-01A-01D-1366-10		12975920	46153063	31	12690											
ZNF569	148266	hgsc.bcm.edu	37	chr19	37905300	37905300	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctggtttttctgatgcTcatcaactccccatatttct	6	18	5	12	0	4	1	2	1	2	0	6	1	6	1	3	1	2	2	3	1	2	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		C	37905300	T	C	37905300	3	2	239	1	0	0	0	0	1	0	0	0	17999	1551	54	3	1804	3	ZNF569	19	37905300	Missense_Mutation	SNP	T	TCGA-BP-4347-01A-01D-1366-10	24929380	37905300	21223683	32	12691											
HNRNPUL1	11100	hgsc.bcm.edu;ucsc.edu	37	chr19	41808629	41808629	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttctgttcattgagctgCagcgggaggaagcggacaag	10	8	16	7	2	2	1	1	1	1	0	2	4	2	4	0	4	4	4	0	4	2	3	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	41808629	C	A	41808629	3	1	239	1	0	0	0	0	1	0	0	0	7274	711	25	4	1793	4	HNRNPUL1	19	41808629	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10	3903329	41808629	17320354	33	12692											
C19orf76	0	hgsc.bcm.edu	37	chr19	50193437	50193437	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccggacccaccgcctggCggagatcatatactggattc	9	8	11	13	3	1	1	1	0	0	1	2	4	1	3	4	4	2	0	4	4	2	3	rs45613034	bycluster;byfrequency;by1000genomes	TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	50193437	C	A	50193437	3	1	239	1	0	0	0	0	1	0	0	0	1950	768	27	4	155	4	C19orf76	19	50193437	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10	8384808	50193437	8935546	34	12693											
ZNF274	10782	hgsc.bcm.edu	37	chr19	58718359	58718360	+	Frame_Shift_Ins	INS	-	-	A																															ggacatgacaggtccccgggINSagccctggaccagctccgag																								novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	58718360	-	A	58718359	7	5	239	1	0	1	1	0	0	0	0	0	17808	1175	41	0	543	0	ZNF274	19	58718359	Frame_Shift_Ins	INS	-	TCGA-BP-4347-01A-01D-1366-10	8524922	58718359	410624	35	12694											
C22orf30	0	hgsc.bcm.edu;ucsc.edu	37	chr22	32108910	32108910	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagttcagaggaacaccGtcggtatcttagcttctgag	12	10	11	8	2	3	3	1	1	2	2	4	4	3	4	1	2	2	3	1	2	5	4	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	32108910	G	A	32108910	3	1	239	1	0	0	0	0	1	0	0	0	2142	1144	40	1	1564	1	C22orf30	22	32108910	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10		32108910	19195656	36	12695											
CBX6	23466	hgsc.bcm.edu;ucsc.edu	37	chr22	39267730	39267730	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaatgagccgcgagtccAggatgttctcctcgggctcc	6	9	12	14	3	1	1	0	1	1	0	5	3	3	2	4	2	2	3	4	2	1	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		T	39267730	A	T	39267730	3	4	239	1	0	0	0	0	1	0	0	0	2722	188	7	5	1104	5	CBX6	22	39267730	Missense_Mutation	SNP	A	TCGA-BP-4347-01A-01D-1366-10	7158820	39267730	12036836	37	12696											
IL1RAPL2	26280	hgsc.bcm.edu;ucsc.edu	37	chrX	103903657	103903657	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcacaaatctgaagatGgtgtcaaagagaaattctgg	15	9	11	6	0	4	3	2	1	2	2	4	4	4	3	0	2	1	1	0	2	4	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	103903657	G	A	103903657	3	1	239	1	0	0	0	0	1	0	0	0	7662	1348	47	2	65	2	IL1RAPL2	23	103903657	Missense_Mutation	SNP	G	TCGA-BP-4347-01A-01D-1366-10		103903657	51366903	38	12697											
L1CAM	3897	hgsc.bcm.edu	37	chrX	153131185	153131185	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgcggaggtggcccttgaCctgggccaggtccaccggcc	4	6	15	16	3	0	1	0	1	0	0	2	2	2	2	7	6	0	0	7	6	0	1	novel		TCGA-BP-4347-01A-01D-1366-10	TCGA-BP-4347-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	249697ef-19f1-4d5e-8182-1eb1b5c38ec1	e453d958-081b-4680-a2ec-1e14aa549c08		A	153131185	C	A	153131185	3	1	239	1	0	0	0	0	1	0	0	0	8588	507	18	4	1292	4	L1CAM	23	153131185	Missense_Mutation	SNP	C	TCGA-BP-4347-01A-01D-1366-10	49227528	153131185	2139375	39	12698											
AGMAT	79814	hgsc.bcm.edu;ucsc.edu	37	chr1	15905364	15905364	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctgtcacctggctccggTtgtatctgtagggatccaag	6	12	13	10	1	3	0	1	0	2	0	5	1	5	1	3	4	0	4	3	4	3	3	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	15905364	T	C	15905364	3	2	240	1	0	0	0	0	1	0	0	0	385	1725	60	3	364	3	AGMAT	1	15905364	Missense_Mutation	SNP	T	TCGA-BP-4349-01A-01D-1366-10		15905364	233345257	1	12699											
TMEM54	113452	hgsc.bcm.edu	37	chr1	33360429	33360429	+	Missense_Mutation	SNP	T	T	A																															gagggtcagaggctcagagcTggtgcagctcagcaggtcac																								rs147308790		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	33360429	T	A	33360429	3	1	240	1	0	0	0	0	1	0	0	0	16179	1580	55	5	26	5	TMEM54	1	33360429	Missense_Mutation	SNP	T	TCGA-BP-4349-01A-01D-1366-10	17455065	33360429	215890192	2	12700	181	2									
TMEM54	113452	hgsc.bcm.edu	37	chr1	33360433	33360433	+	Frame_Shift_Del	DEL	G	G	-																															gtcagaggctcagagctggtGcagctcagcaggtcacggcc																								novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		-	33360433	G	-	33360433	7	5	240	1	0	1	0	1	0	0	0	0	16179	1311	46	0	30	0	TMEM54	1	33360433	Frame_Shift_Del	DEL	G	TCGA-BP-4349-01A-01D-1366-10	4	33360433	215890188	3	12701	181	2									
SELP	6403	hgsc.bcm.edu;ucsc.edu	37	chr1	169588410	169588410	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagttgggaaattccaaaGaccactctctggaatctctg	12	10	10	9	0	2	1	0	0	2	1	5	4	3	4	2	3	0	1	2	3	3	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	169588410	G	T	169588410	2	4	240	1	0	0	0	0	0	0	0	1	14021	929	33	4		4	SELP	1	169588410	Silent	SNP	G	TCGA-BP-4349-01A-01D-1366-10	136227977	169588410	79662211	4	12702											
PAPOLG	64895	hgsc.bcm.edu;ucsc.edu	37	chr2	61024285	61024285	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaattccattcgactgacccTtaatcggtaaaagcagtgcc	13	10	7	11	2	0	1	0	1	0	0	3	2	1	1	3	1	2	2	3	1	4	4	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	61024285	T	A	61024285	3	1	240	1	0	0	0	0	1	0	0	0	11431	1609	56	5	2287	5	PAPOLG	2	61024285	Missense_Mutation	SNP	T	TCGA-BP-4349-01A-01D-1366-10		61024285	182175088	5	12703											
CNTNAP5	129684	hgsc.bcm.edu;ucsc.edu	37	chr2	125261996	125261996	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtgagtttccagtttcGaacatggaacaaggatggtc	11	11	11	8	1	1	1	1	1	0	0	4	4	2	3	1	3	2	2	1	3	3	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	125261996	G	T	125261996	3	4	240	1	0	0	0	0	1	0	0	0	3650	1058	37	4	1217	4	CNTNAP5	2	125261996	Missense_Mutation	SNP	G	TCGA-BP-4349-01A-01D-1366-10	64237711	125261996	117937377	6	12704											
ANO10	55129	hgsc.bcm.edu;ucsc.edu	37	chr3	43618256	43618256	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacaatggcatagatgaTgctgggcacatacaacagga	16	7	10	8	0	1	2	1	1	0	1	1	3	1	3	0	3	3	3	0	3	5	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	43618256	T	C	43618256	3	2	240	1	0	0	0	0	1	0	0	0	696	1464	51	3	924	3	ANO10	3	43618256	Missense_Mutation	SNP	T	TCGA-BP-4349-01A-01D-1366-10		43618256	154404174	7	12705											
FAM55C	0	hgsc.bcm.edu;ucsc.edu	37	chr3	101540501	101540501	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgtacatccggcggctcagGaacatccgtcgagcagtggt	8	8	14	11	4	1	0	1	0	0	0	4	2	3	1	2	4	3	3	2	4	2	1	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	101540501	G	A	101540501	2	1	240	1	0	0	0	0	0	0	0	1	5586	1165	41	2		2	FAM55C	3	101540501	Silent	SNP	G	TCGA-BP-4349-01A-01D-1366-10	57922245	101540501	96481929	8	12706											
ZBTB20	26137	hgsc.bcm.edu	37	chr3	114058034	114058034	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgctggcactgtgcagggCcacgtgtcgctccaggaggg	6	8	16	11	2	0	0	0	0	0	0	2	1	1	1	2	4	2	4	2	4	0	1	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	114058034	C	T	114058034	3	4	240	1	0	0	0	0	1	0	0	0	17528	739	26	2	185	2	ZBTB20	3	114058034	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	12517533	114058034	83964396	9	12707											
ISY1	57461	hgsc.bcm.edu	37	chr3	128875499	128875499	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgaatctgagccacttttTtagagatctctccaatgatc	10	15	6	10	0	3	4	0	3	3	1	6	5	4	4	2	0	1	0	2	0	3	3	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	128875499	T	C	128875499	3	2	240	1	0	0	0	0	1	0	0	0	7866	1841	64	3	721	3	ISY1	3	128875499	Missense_Mutation	SNP	T	TCGA-BP-4349-01A-01D-1366-10	14817465	128875499	69146931	10	12708											
AFF1	4299	hgsc.bcm.edu;ucsc.edu	37	chr4	88029314	88029314	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggttgctttgcagtgcTccacagtcccttccagaacc	6	14	8	13	0	0	1	0	0	0	1	3	1	3	1	4	1	4	4	4	1	1	5	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	88029314	T	C	88029314	2	2	240	1	0	0	0	0	0	0	0	1	356	1538	54	3		3	AFF1	4	88029314	Silent	SNP	T	TCGA-BP-4349-01A-01D-1366-10		88029314	103124962	11	12709											
ANP32C	23520	hgsc.bcm.edu	37	chr4	165118362	165118362	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctcctcatgctcaccctCctcctcgtcatccaggccct	4	11	4	22	1	3	0	3	0	0	0	9	0	8	0	7	1	1	1	7	1	0	0	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	165118362	C	A	165118362	4	1	240	1	0	0	0	0	0	1	0	0	707	864	30	4	205	4	ANP32C	4	165118362	Nonsense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	77089048	165118362	26035914	12	12710											
THBS4	7060	hgsc.bcm.edu	37	chr5	79375847	79375847	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatgtgggctggaaggaCaaggtgtcctaccgctggtt	9	9	16	7	1	0	0	0	0	0	0	1	3	1	3	2	6	1	3	2	6	4	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	79375847	C	A	79375847	3	1	240	1	0	0	0	0	1	0	0	0	15855	477	17	4	2709	4	THBS4	5	79375847	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10		79375847	101539413	13	12711											
TTC37	9652	hgsc.bcm.edu;ucsc.edu	37	chr5	94852697	94852697	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagatgttgtgcttggcgatAataattaattccaaggtcac	12	14	9	6	1	1	1	1	0	0	1	2	2	2	1	1	2	1	2	1	2	5	7	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	94852697	A	C	94852697	3	2	240	1	0	0	0	0	1	0	0	0	16704	362	13	5	2423	5	TTC37	5	94852697	Missense_Mutation	SNP	A	TCGA-BP-4349-01A-01D-1366-10	15476850	94852697	86062563	14	12712											
TTLL2	83887	hgsc.bcm.edu	37	chr6	167753863	167753863	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcttaccaggaaagactgtTtggccaaacacctgaagcac	14	7	9	11	0	0	2	0	1	0	1	0	3	0	3	3	2	4	3	3	2	4	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	167753863	T	C	167753863	2	2	240	1	0	0	0	0	0	0	0	1	16726	1838	64	3		3	TTLL2	6	167753863	Silent	SNP	T	TCGA-BP-4349-01A-01D-1366-10		167753863	3361204	15	12713											
RADIL	55698	hgsc.bcm.edu	37	chr7	4843307	4843307	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgctgtcgtccaggcagTtggcttccaagtccacctgg	7	10	12	12	1	0	1	0	0	0	1	4	1	3	1	4	3	1	4	4	3	1	2	rs187128776	by1000genomes	TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	4843307	T	C	4843307	3	2	240	1	0	0	0	0	1	0	0	0	12999	1725	60	3	878	3	RADIL	7	4843307	Missense_Mutation	SNP	T	TCGA-BP-4349-01A-01D-1366-10		4843307	154295356	16	12714											
SCIN	85477	hgsc.bcm.edu;ucsc.edu	37	chr7	12620697	12620697	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcatcaggctggaggcgtgGcatctggattaaatcatgtt	9	13	12	7	1	4	0	3	0	1	0	4	2	4	2	0	5	0	3	0	5	2	3	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	12620697	G	A	12620697	3	1	240	1	0	0	0	0	1	0	0	0	13907	1203	42	2	377	2	SCIN	7	12620697	Missense_Mutation	SNP	G	TCGA-BP-4349-01A-01D-1366-10	7777390	12620697	146517966	17	12715											
COBL	23242	hgsc.bcm.edu	37	chr7	51095591	51095591	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agagaacacactgggcttttCctctctttctaggagaatgt	10	13	9	9	0	2	2	0	0	2	2	4	4	3	2	1	2	1	1	1	2	3	4	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	51095591	C	T	51095591	3	4	240	1	0	0	0	0	1	0	0	0	3653	864	30	2	599	2	COBL	7	51095591	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	38474894	51095591	108043072	18	12716											
CDHR3	222256	hgsc.bcm.edu;ucsc.edu	37	chr7	105672876	105672876	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcaactcaaaaactggAgccagaaagtggaaagatcc	18	6	9	8	0	2	2	2	0	0	2	3	5	3	4	2	2	3	0	2	2	6	1	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	105672876	A	T	105672876	2	4	240	1	0	0	0	0	0	0	0	1	3120	291	11	5		5	CDHR3	7	105672876	Silent	SNP	A	TCGA-BP-4349-01A-01D-1366-10	54577285	105672876	53465787	19	12717											
SECISBP2	79048	hgsc.bcm.edu;ucsc.edu	37	chr9	91964776	91964776	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagagctccagagggaCacagaggcctcccaccttgc	10	4	12	15	0	0	3	0	0	0	3	2	4	2	4	4	3	2	2	4	3	0	1	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		G	91964776	C	G	91964776	3	3	240	1	0	0	0	0	1	0	0	0	14008	477	17	4	1874	4	SECISBP2	9	91964776	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10		91964776	49248655	20	12718											
FBP1	2203	hgsc.bcm.edu;ucsc.edu	37	chr9	97369216	97369216	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcacatccttgtccaccaAaatgaactccccgatggcct	10	10	5	16	1	1	1	1	1	0	0	4	2	4	1	6	1	1	0	6	1	3	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	97369216	A	T	97369216	3	4	240	1	0	0	0	0	1	0	0	0	5705	11	1	5	442	5	FBP1	9	97369216	Missense_Mutation	SNP	A	TCGA-BP-4349-01A-01D-1366-10	5404440	97369216	43844215	21	12719											
JMJD1C	221037	hgsc.bcm.edu;ucsc.edu	37	chr10	64967020	64967020	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtgcctgagaacccagaaCtgggttgaacaacacttcct	11	10	9	11	0	0	3	0	2	0	2	1	4	1	3	3	1	5	1	3	1	4	3	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	64967020	C	T	64967020	3	4	240	1	0	0	0	0	1	0	0	0	7950	565	20	2	3281	2	JMJD1C	10	64967020	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10		64967020	70567727	22	12720											
DDB1	1642	hgsc.bcm.edu;ucsc.edu	37	chr11	61097462	61097462	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgggctcgcgtaatgatgtCaatgctctcgccactctgtt	7	13	10	11	3	3	1	1	1	2	0	5	1	3	1	1	1	1	4	1	1	2	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	61097462	C	T	61097462	3	4	240	1	0	0	0	0	1	0	0	0	4323	826	29	2	3227	2	DDB1	11	61097462	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10		61097462	73909054	23	12721											
SIDT2	51092	hgsc.bcm.edu;ucsc.edu	37	chr11	117058118	117058118	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccctcgagtcctggctgattCttttcctggcagttcccctt	3	15	8	15	1	1	1	0	1	1	0	5	2	4	1	5	2	0	3	5	2	0	5	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		G	117058118	C	G	117058118	3	3	240	1	0	0	0	0	1	0	0	0	14305	913	32	4	1082	4	SIDT2	11	117058118	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	55960656	117058118	17948398	24	12722											
TREH	11181	hgsc.bcm.edu;ucsc.edu	37	chr11	118531934	118531934	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttccctccaagctcacagaGacagtcctgttcttggtcca	8	12	7	14	0	2	1	1	0	1	1	6	2	6	1	4	1	1	2	4	1	1	3	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	118531934	G	C	118531934	2	2	240	1	0	0	0	0	0	0	0	1	16468	929	33	4		4	TREH	11	118531934	Silent	SNP	G	TCGA-BP-4349-01A-01D-1366-10	1473816	118531934	16474582	25	12723											
IGSF9B	22997	hgsc.bcm.edu;ucsc.edu	37	chr11	133807740	133807740	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcaccgaggagcgtcccctCcttgagccaggtgacaatgg	9	6	13	13	2	0	2	0	2	0	0	2	4	2	3	5	3	3	1	5	3	1	1	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	133807740	C	T	133807740	3	4	240	1	0	0	0	0	1	0	0	0	7606	864	30	2	3587	2	IGSF9B	11	133807740	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	15275806	133807740	1198776	26	12724											
ITPR2	3709	hgsc.bcm.edu	37	chr12	26775308	26775308	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaacgtcctgcctccttcAtcgtcaagttgaactggatt	11	12	7	11	2	2	1	2	1	0	0	5	2	4	2	3	1	3	1	3	1	4	3	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	26775308	A	C	26775308	3	2	240	1	0	0	0	0	1	0	0	0	7921	214	8	5	5084	5	ITPR2	12	26775308	Missense_Mutation	SNP	A	TCGA-BP-4349-01A-01D-1366-10		26775308	107076587	27	12725											
FAR2	55711	hgsc.bcm.edu;ucsc.edu	37	chr12	29469894	29469894	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatgcggtcagccaccgggCccctgccattatctatgact	8	9	10	14	2	2	1	1	1	1	0	2	2	2	1	5	2	3	0	5	2	3	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		G	29469894	C	G	29469894	3	3	240	1	0	0	0	0	1	0	0	0	5675	739	26	4	1106	4	FAR2	12	29469894	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	2694586	29469894	104382001	28	12726											
SLC6A15	55117	hgsc.bcm.edu	37	chr12	85257319	85257319	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaggagaaatatatttccAcatatagtagtaatatctgc	16	13	7	5	0	1	2	0	0	1	2	2	3	2	2	1	1	1	2	1	1	9	9	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		G	85257319	A	G	85257319	3	3	240	1	0	0	0	0	1	0	0	0	14680	159	6	3	483	3	SLC6A15	12	85257319	Missense_Mutation	SNP	A	TCGA-BP-4349-01A-01D-1366-10	55787425	85257319	48594576	29	12727											
SPTB	6710	hgsc.bcm.edu	37	chr14	65264450	65264450	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaaatgctgtggtaccctGttgatgtcagacactagttt	10	13	11	7	0	1	2	1	1	0	1	1	3	1	3	1	2	2	4	1	2	4	4	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	65264450	G	T	65264450	3	4	240	1	0	0	0	0	1	0	0	0	15119	1368	48	4	5984	4	SPTB	14	65264450	Missense_Mutation	SNP	G	TCGA-BP-4349-01A-01D-1366-10		65264450	42085090	30	12728											
PROX2	283571	hgsc.bcm.edu	37	chr14	75329730	75329730	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccacaggaggtgagggctCgcttctaccctctgccacct	6	9	10	16	1	2	1	0	1	2	0	4	2	3	2	4	3	2	2	4	3	1	2	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	75329730	C	T	75329730	3	4	240	1	0	0	0	0	1	0	0	0	12563	893	31	1	986	1	PROX2	14	75329730	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10	10065280	75329730	32019810	31	12729											
MESDC2	23184	hgsc.bcm.edu;ucsc.edu	37	chr15	81274514	81274514	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatctccttcttcaatgtCatcatctttctatcagatta	11	17	3	10	0	8	2	4	0	4	2	9	2	8	2	1	0	0	0	1	0	4	5	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	81274514	C	T	81274514	3	4	240	1	0	0	0	0	1	0	0	0	9481	826	29	2	489	2	MESDC2	15	81274514	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10		81274514	21256878	32	12730											
CIITA	4261	hgsc.bcm.edu	37	chr16	11001467	11001467	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggccgcagagtccgagctGgccttccccagcttcctcct	4	8	11	18	3	0	1	0	0	0	1	4	2	4	1	7	2	2	3	7	2	0	2	rs139717340	by1000genomes;alternate_allele	TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	11001467	G	A	11001467	2	1	240	1	0	0	0	0	0	0	0	1	3428	1335	47	2		2	CIITA	16	11001467	Silent	SNP	G	TCGA-BP-4349-01A-01D-1366-10		11001467	79353286	33	12731											
MYH11	4629	hgsc.bcm.edu;ucsc.edu	37	chr16	15931773	15931773	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatactcacatatattaGccctgagaagtaccgctccc	12	10	6	13	1	1	1	1	1	0	1	2	2	2	1	3	0	4	3	3	0	7	5	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	15931773	G	A	15931773	2	1	240	1	0	0	0	0	0	0	0	1	10031	962	34	2		2	MYH11	16	15931773	Silent	SNP	G	TCGA-BP-4349-01A-01D-1366-10	4930306	15931773	74422980	34	12732											
GRB7	2886	hgsc.bcm.edu	37	chr17	37898909	37898909	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctccctcacagagcccAattctcgggggcccctccag	7	7	9	18	1	2	1	1	0	1	1	6	1	5	1	6	2	1	0	6	2	1	1	rs36079893	bycluster;byfrequency;by1000genomes	TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		C	37898909	A	C	37898909	2	2	240	1	0	0	0	0	0	0	0	1	6759	117	5	5		5	GRB7	17	37898909	Silent	SNP	A	TCGA-BP-4349-01A-01D-1366-10		37898909	43296301	35	12733											
MYBPC2	4606	hgsc.bcm.edu;ucsc.edu	37	chr19	50963349	50963349	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggaggtgtggggcacgaaCgcgctggtggagtggcaggc	8	5	21	7	3	0	0	0	0	0	0	0	3	0	2	0	8	1	3	0	8	2	0	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		A	50963349	C	A	50963349	3	1	240	1	0	0	0	0	1	0	0	0	10012	535	19	4	2938	4	MYBPC2	19	50963349	Missense_Mutation	SNP	C	TCGA-BP-4349-01A-01D-1366-10		50963349	8165634	36	12734											
MYO18B	84700	hgsc.bcm.edu;ucsc.edu	37	chr22	26291196	26291196	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaagcgtctgcagcaatgCgaggagaggctggactcgga	12	5	16	8	3	1	2	0	0	1	2	2	6	1	4	0	4	4	3	0	4	2	0	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		T	26291196	C	T	26291196	2	4	240	1	0	0	0	0	0	0	0	1	10066	776	27	1		1	MYO18B	22	26291196	Silent	SNP	C	TCGA-BP-4349-01A-01D-1366-10		26291196	25013370	37	12735											
ARSF	416	hgsc.bcm.edu	37	chrX	3007535	3007535	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcattgatgtcttctcAggcacagtaaggaaactttc	11	14	8	8	0	3	1	2	1	2	0	5	2	3	2	0	2	1	3	0	2	2	5	novel		TCGA-BP-4349-01A-01D-1366-10	TCGA-BP-4349-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	18e1c19a-0e28-4f55-8119-ceae36f5454f	85dfe563-5a82-421d-a595-64c336324e66		G	3007535	A	G	3007535	5	3	240	1	0	0	0	0	0	0	1	0	991	202	7	3	851	3	ARSF	23	3007535	Splice_Site	SNP	A	TCGA-BP-4349-01A-01D-1366-10		3007535	152263025	38	12736											
VHL	7428	hgsc.bcm.edu	37	chr3	10183871	10183871	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcatccacagctaccgaGgtacgggcccggcgcttagg	7	5	14	15	5	0	0	0	0	0	0	1	1	1	0	4	4	3	4	4	4	3	3	novel		TCGA-BP-4349-01A-01W-1362-10	TCGA-BP-4349-11A-01W-1362-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	f40c15b0-29c0-4b3d-9cd0-3d98e36bedec	9776512e-1277-4973-9831-bf6bb4124639		C	10183871	G	C	10183871	3	2	241	1	0	0	0	0	1	0	0	0	17161	1014	35	4	342	4	VHL	3	10183871	Missense_Mutation	SNP	G	TCGA-BP-4349-01A-01W-1362-10		10183871	187838559	1	12737											
ISG15	9636	hgsc.bcm.edu	37	chr1	949654	949654	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcagcagcacctacgaggtAcggctgacgcagaccgtggc	9	4	14	14	5	0	2	0	1	0	1	0	3	0	2	2	3	4	6	2	3	2	2	rs8997	bycluster;byfrequency;by1000genomes	TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	949654	A	G	949654	2	3	242	1	0	0	0	0	0	0	0	1	7853	378	14	3		3	ISG15	1	949654	Silent	SNP	A	TCGA-BP-4351-01A-01D-1366-10		949654	248300967	1	12738											
CLCN6	1185	hgsc.bcm.edu;ucsc.edu	37	chr1	11894064	11894064	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggagctgcttttggacgTttagttgccaatgtcctaaa	8	15	11	7	1	0	0	0	0	0	0	1	2	1	2	2	2	3	4	2	2	4	6	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	11894064	T	C	11894064	2	2	242	1	0	0	0	0	0	0	0	1	3467	1712	60	3		3	CLCN6	1	11894064	Silent	SNP	T	TCGA-BP-4351-01A-01D-1366-10	10944410	11894064	237356557	2	12739											
LRP8	7804	hgsc.bcm.edu	37	chr1	53792606	53792606	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgcatctccacacagaGgggatgcagcgctcgttccg	7	8	12	14	5	1	1	0	0	1	1	6	2	2	2	2	2	2	4	2	2	0	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	53792606	G	T	53792606	2	4	242	1	0	0	0	0	0	0	0	1	8963	987	35	4		4	LRP8	1	53792606	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10	41898542	53792606	195458015	3	12740											
NEGR1	257194	hgsc.bcm.edu;ucsc.edu	37	chr1	71873192	71873192	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggacagtgtcaacacaagGtaccagcaggagaaaagaac	18	3	12	8	0	1	2	1	0	0	2	1	5	1	3	1	3	4	2	1	3	6	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	71873192	G	A	71873192	2	1	242	1	0	0	0	0	0	0	0	1	10317	1256	44	2		2	NEGR1	1	71873192	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10	18080586	71873192	177377429	4	12741											
LRRC8B	23507	hgsc.bcm.edu;ucsc.edu	37	chr1	90049857	90049857	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacttgaagagcagcctcTcccggatcccacaagttgtt	9	11	9	12	1	1	2	0	1	1	1	3	3	2	3	3	1	3	4	3	1	3	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	90049857	T	C	90049857	3	2	242	1	0	0	0	0	1	0	0	0	9022	1551	54	3	1650	3	LRRC8B	1	90049857	Missense_Mutation	SNP	T	TCGA-BP-4351-01A-01D-1366-10	18176665	90049857	159200764	5	12742											
OR6K2	81448	hgsc.bcm.edu;ucsc.edu	37	chr1	158669955	158669955	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaccacaaaatggcagtgtaGagatccaggcaatctcagga	16	6	10	9	0	1	1	1	0	1	1	3	3	2	2	2	3	1	3	2	3	5	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	158669955	G	C	158669955	3	2	242	1	0	0	0	0	1	0	0	0	11202	942	33	4	490	4	OR6K2	1	158669955	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	68620098	158669955	90580666	6	12743											
CRB1	23418	hgsc.bcm.edu;ucsc.edu	37	chr1	197390461	197390461	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggtcaaaagtggctcagtGacaaccaagggctcagtttg	11	9	13	8	0	3	1	3	1	0	0	3	1	3	1	1	3	1	3	1	3	4	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	197390461	G	C	197390461	2	2	242	1	0	0	0	0	0	0	0	1	3848	1277	45	4		4	CRB1	1	197390461	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10	38720506	197390461	51860160	7	12744											
MYT1L	23040	hgsc.bcm.edu;ucsc.edu	37	chr2	1926319	1926319	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggtggtatcgtcgtcccGctcatgacacccatcctcct	7	10	9	15	3	1	2	1	1	0	1	6	2	4	2	4	2	0	2	4	2	1	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	1926319	G	A	1926319	3	1	242	1	0	0	0	0	1	0	0	0	10107	1086	38	1	2396	1	MYT1L	2	1926319	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10		1926319	241273054	8	12745											
HNRPLL	92906	hgsc.bcm.edu	37	chr2	38800465	38800465	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggatttcctccatgcaTgtaagaggaagaagcctgtg	12	9	13	7	0	0	3	0	0	0	3	2	5	2	5	3	2	2	2	3	2	3	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	38800465	T	C	38800465	3	2	242	1	0	0	0	0	1	0	0	0	7277	1464	51	3	673	3	HNRPLL	2	38800465	Missense_Mutation	SNP	T	TCGA-BP-4351-01A-01D-1366-10	36874146	38800465	204398908	9	12746											
XPO1	7514	hgsc.bcm.edu;ucsc.edu	37	chr2	61706043	61706043	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcttcatcagcctgcCgtagggctatttctctctct	4	17	7	13	1	5	0	2	0	3	0	8	0	5	0	2	1	2	3	2	1	2	5	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	61706043	C	G	61706043	3	3	242	1	0	0	0	0	1	0	0	0	17444	652	23	4	91	4	XPO1	2	61706043	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10	22905578	61706043	181493330	10	12747											
GMCL1	64395	hgsc.bcm.edu;ucsc.edu	37	chr2	70096896	70096896	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcggcttcgacctacttGtaacttacaccaatcgatac	11	12	5	13	3	0	0	0	0	0	0	3	2	0	0	2	1	4	2	2	1	5	7	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	70096896	G	T	70096896	3	4	242	1	0	0	0	0	1	0	0	0	6485	1377	48	4	1310	4	GMCL1	2	70096896	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	8390853	70096896	173102477	11	12748											
EDAR	10913	hgsc.bcm.edu;ucsc.edu	37	chr2	109513432	109513432	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagtatgtctgcacacaaGgactccacagcatccagccg	11	7	8	15	1	1	0	0	0	1	0	4	1	4	1	4	1	3	3	4	1	2	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	109513432	G	T	109513432	2	4	242	1	0	0	0	0	0	0	0	1	4905	987	35	4		4	EDAR	2	109513432	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10	39416536	109513432	133685941	12	12749											
PASK	23178	hgsc.bcm.edu	37	chr2	242047620	242047620	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggtgtatggcagcctccAcggtctcctccagctcacag	6	8	12	15	2	2	0	1	0	1	0	5	0	4	0	4	3	2	3	4	3	1	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	242047620	A	T	242047620	3	4	242	1	0	0	0	0	1	0	0	0	11472	159	6	5	354	5	PASK	2	242047620	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	132534188	242047620	1151753	13	12750											
ZNF619	285267	hgsc.bcm.edu;ucsc.edu	37	chr3	40529519	40529519	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcctctctcctctgcctccCcaacatacctgctctgccct	5	12	3	21	0	3	0	0	0	3	0	7	0	6	0	7	0	5	1	7	0	2	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	40529519	C	G	40529519	2	3	242	1	0	0	0	0	0	0	0	1	18042	610	22	4		4	ZNF619	3	40529519	Silent	SNP	C	TCGA-BP-4351-01A-01D-1366-10		40529519	157492911	14	12751											
PDS5A	23244	hgsc.bcm.edu;ucsc.edu	37	chr4	39850476	39850476	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggaagaaaattaccttttCaggttgtgtaaaaaatttca	16	13	8	4	0	2	1	2	0	0	1	2	3	2	2	1	2	1	2	1	2	7	6	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	39850476	C	T	39850476	3	4	242	1	0	0	0	0	1	0	0	0	11691	835	29	2	703	2	PDS5A	4	39850476	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10		39850476	151303800	15	12752											
PCDHB3	56132	hgsc.bcm.edu;ucsc.edu	37	chr5	140481267	140481267	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtcaacgacaacccacCggaactgaccttgtcttcag	11	9	8	13	2	3	2	2	2	1	0	3	4	3	3	3	1	3	0	3	1	3	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	140481267	C	A	140481267	3	1	242	1	0	0	0	0	1	0	0	0	11543	652	23	4	1036	4	PCDHB3	5	140481267	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10		140481267	40433993	16	12753											
RNF44	22838	hgsc.bcm.edu;ucsc.edu	37	chr5	175957205	175957206	+	Frame_Shift_Del	DEL	TG	TG	-																															cgtggcatcatgtgagaataTggctgcaagaggggccaggt																								novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		-	175957206	TG	-	175957205	7	5	242	1	0	1	0	1	0	0	0	0	13498	1451	51	0	514	0	RNF44	5	175957205	Frame_Shift_Del	DEL	TG	TCGA-BP-4351-01A-01D-1366-10	35475938	175957205	4958055	17	12754											
GRM4	2914	hgsc.bcm.edu	37	chr6	34059775	34059775	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacgatgtccaccatggcCtgggcctggtacgtgtccga	6	8	14	13	4	0	0	0	0	0	0	2	3	2	1	5	4	1	1	5	4	1	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	34059775	C	A	34059775	3	1	242	1	0	0	0	0	1	0	0	0	6799	680	24	4	2153	4	GRM4	6	34059775	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10		34059775	137055292	18	12755											
SENP6	26054	hgsc.bcm.edu;ucsc.edu	37	chr6	76388338	76388338	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacaacttagaagcaaacaaGaatttcagttttttgatgaa	17	13	6	5	0	1	4	1	2	0	2	1	4	1	4	0	0	4	2	0	0	8	6	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	76388338	G	C	76388338	3	2	242	1	0	0	0	0	1	0	0	0	14052	943	33	4	1946	4	SENP6	6	76388338	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	42328563	76388338	94726729	19	12756											
C6orf167	0	hgsc.bcm.edu	37	chr6	97629924	97629924	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgtccattgctagcaaaGtaaagtctagattcaaaatg	15	11	8	7	0	2	1	1	0	1	1	3	1	3	1	1	0	2	4	1	0	7	5	rs189009132	by1000genomes	TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	97629924	G	C	97629924	3	2	242	1	0	0	0	0	1	0	0	0	2342	1029	36	4	1531	4	C6orf167	6	97629924	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	21241586	97629924	73485143	20	12757											
OGDH	4967	hgsc.bcm.edu	37	chr7	44747514	44747514	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggctgctccagccacCggcaacaagaagacccacct	11	3	9	18	2	0	2	0	0	0	2	1	2	1	2	6	2	4	3	6	2	3	0	rs61756583	bycluster;byfrequency;by1000genomes	TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	44747514	C	T	44747514	2	4	242	1	0	0	0	0	0	0	0	1	10839	639	23	1		1	OGDH	7	44747514	Silent	SNP	C	TCGA-BP-4351-01A-01D-1366-10		44747514	114391149	21	12758											
AGK	55750	hgsc.bcm.edu;ucsc.edu	37	chr7	141255279	141255279	+	Missense_Mutation	SNP	T	T	C																															tctagaagatgacggtgttcTttaaaacgcttcgaaatcac																								novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	141255279	T	C	141255279	3	2	242	1	0	0	0	0	1	0	0	0	383	1609	56	3	15	3	AGK	7	141255279	Missense_Mutation	SNP	T	TCGA-BP-4351-01A-01D-1366-10	96507765	141255279	17883384	22	12759	182	2									
AGK	55750	hgsc.bcm.edu;ucsc.edu	37	chr7	141255283	141255283	+	Missense_Mutation	SNP	A	A	T																															gaagatgacggtgttctttaAaacgcttcgaaatcactgga																								rs148294392	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	141255283	A	T	141255283	3	4	242	1	0	0	0	0	1	0	0	0	383	14	1	5	19	5	AGK	7	141255283	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	4	141255283	17883380	23	12760	182	2									
CSMD1	64478	hgsc.bcm.edu;ucsc.edu	37	chr8	3046472	3046472	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaagttgtttccgtatggCtcagggtagccgggggacag	7	11	15	8	2	2	0	2	0	0	0	3	1	3	1	2	4	1	5	2	4	3	5	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	3046472	C	A	3046472	3	1	242	1	0	0	0	0	1	0	0	0	3944	796	28	4	5378	4	CSMD1	8	3046472	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10		3046472	143317550	24	12761											
PCMTD1	115294	hgsc.bcm.edu;ucsc.edu	37	chr8	52773607	52773607	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaatctccacgatcaatCgctctgaaggcttgctccac	10	11	7	13	2	3	1	1	1	2	0	6	2	4	1	2	1	1	4	2	1	4	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	52773607	C	A	52773607	2	1	242	1	0	0	0	0	0	0	0	1	11586	871	31	4		4	PCMTD1	8	52773607	Silent	SNP	C	TCGA-BP-4351-01A-01D-1366-10	49727135	52773607	93590415	25	12762											
C9orf116	138162	hgsc.bcm.edu;ucsc.edu	37	chr9	138387377	138387377	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcacgatgcttttctccaGgtaaacattgagagtattgt	11	14	9	7	1	2	1	1	1	1	1	3	3	2	1	1	1	2	3	1	1	3	6	rs140869229		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	138387377	G	A	138387377	2	1	242	1	0	0	0	0	0	0	0	1	2450	991	35	2		2	C9orf116	9	138387377	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10		138387377	2826054	26	12763											
PTEN	5728	hgsc.bcm.edu	37	chr10	89692891	89692891	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgcagcaattcactgtaaAgctggaaagggacgaactgg	13	8	13	7	1	1	0	1	0	0	0	1	3	1	2	0	3	4	5	0	3	5	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	89692891	A	C	89692891	3	2	242	1	0	0	0	0	1	0	0	0	12740	69	3	5	393	5	PTEN	10	89692891	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10		89692891	45841856	27	12764											
COX15	1355	hgsc.bcm.edu;ucsc.edu	37	chr10	101478155	101478155	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctcaaaaacattcctcAggatgggggagaaggtaaag	15	8	12	6	0	2	1	2	0	1	1	4	4	3	2	1	4	1	1	1	4	5	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	101478155	A	C	101478155	3	2	242	1	0	0	0	0	1	0	0	0	3764	188	7	5	379	5	COX15	10	101478155	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	11785264	101478155	34056592	28	12765											
PLEKHA1	59338	hgsc.bcm.edu;ucsc.edu	37	chr10	124189325	124189325	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaggtccagactgtctcTccaagagaaccagcttccaa	12	9	7	13	0	2	2	1	0	1	2	6	3	5	2	4	1	2	1	4	1	4	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	124189325	T	A	124189325	2	1	242	1	0	0	0	0	0	0	0	1	12055	1538	54	5		5	PLEKHA1	10	124189325	Silent	SNP	T	TCGA-BP-4351-01A-01D-1366-10	22711170	124189325	11345422	29	12766											
PTPRJ	5795	hgsc.bcm.edu;ucsc.edu	37	chr11	48171013	48171013	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacaggaaagatgcaaagaAtaatgaagtgtccttttctc	17	10	8	6	0	1	3	0	1	1	2	3	4	2	4	1	1	2	1	1	1	6	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	48171013	A	C	48171013	3	2	242	1	0	0	0	0	1	0	0	0	12806	101	4	5	3085	5	PTPRJ	11	48171013	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10		48171013	86835503	30	12767											
DAGLA	747	hgsc.bcm.edu	37	chr11	61505673	61505673	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcagcgaagcaccaaGcccaaagtgagcccccacct	11	4	9	17	1	0	1	0	1	0	0	1	2	1	1	6	0	5	2	6	0	3	0	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	61505673	G	A	61505673	2	1	242	1	0	0	0	0	0	0	0	1	4226	962	34	2		2	DAGLA	11	61505673	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10	13334660	61505673	73500843	31	12768											
ARAP1	116985	hgsc.bcm.edu	37	chr11	72418405	72418405	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctccttctctagctctGagtcagcagagaagctgggg	8	10	12	11	0	3	2	1	1	2	1	5	3	4	2	1	2	4	4	1	2	2	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	72418405	G	T	72418405	4	4	242	1	0	0	0	0	0	1	0	0	838	1294	45	4	2910	4	ARAP1	11	72418405	Nonsense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	10912732	72418405	62588111	32	12769											
WNT11	7481	hgsc.bcm.edu	37	chr11	75898207	75898207	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgctcgaccacgcggtCtgtgtaggggttgtagccac	6	8	14	13	4	1	0	0	0	1	0	2	1	1	0	3	3	1	5	3	3	2	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	75898207	C	A	75898207	3	1	242	1	0	0	0	0	1	0	0	0	17383	913	32	4	101	4	WNT11	11	75898207	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10	3479802	75898207	59108309	33	12770											
GRIA4	2893	hgsc.bcm.edu;ucsc.edu	37	chr11	105795320	105795320	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtctttgcctacattggtGtcagcgtggtcttattccta	6	17	9	9	1	3	0	1	0	2	0	4	0	4	0	2	2	3	0	2	2	4	7	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	105795320	G	A	105795320	3	1	242	1	0	0	0	0	1	0	0	0	6770	1377	48	2	1751	2	GRIA4	11	105795320	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	29897113	105795320	29211196	34	12771											
APOC3	345	hgsc.bcm.edu	37	chr11	116703546	116703546	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgttaaggacaagttctcTgagttctgggatttggaccc	9	12	11	9	1	2	1	0	1	2	0	3	4	2	4	2	3	0	3	2	3	2	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	116703546	T	C	116703546	2	2	242	1	0	0	0	0	0	0	0	1	799	1567	55	3		3	APOC3	11	116703546	Silent	SNP	T	TCGA-BP-4351-01A-01D-1366-10	10908226	116703546	18302970	35	12772											
ROBO4	54538	hgsc.bcm.edu	37	chr11	124763776	124763776	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcccaggtgcaccctaGctcggcgccggcggtggata	5	6	16	14	4	0	0	0	0	0	0	1	1	0	1	3	6	2	2	3	6	2	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	124763776	G	A	124763776	3	1	242	1	0	0	0	0	1	0	0	0	13518	971	34	2	1579	2	ROBO4	11	124763776	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	8060230	124763776	10242740	36	12773											
FGF6	2251	hgsc.bcm.edu	37	chr12	4553398	4553398	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacagtggaaatttccagCaggcctgacaaggaaagggg	13	6	13	9	0	0	1	0	1	0	0	2	3	2	3	3	5	1	1	3	5	3	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	4553398	C	G	4553398	2	3	242	1	0	0	0	0	0	0	0	1	5856	697	25	4		4	FGF6	12	4553398	Silent	SNP	C	TCGA-BP-4351-01A-01D-1366-10		4553398	129298497	37	12774											
TAS2R9	50835	hgsc.bcm.edu;ucsc.edu	37	chr12	10962229	10962229	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgataccacatatcatcaTtctttggaacactaataatt	14	14	5	8	0	3	1	2	1	1	0	3	2	3	2	1	2	2	0	1	2	5	7	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	10962229	T	A	10962229	3	1	242	1	0	0	0	0	1	0	0	0	15587	1493	52	5	496	5	TAS2R9	12	10962229	Missense_Mutation	SNP	T	TCGA-BP-4351-01A-01D-1366-10	6408831	10962229	122889666	38	12775											
STAT6	6778	hgsc.bcm.edu;ucsc.edu	37	chr12	57501489	57501489	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaagtagggcactagccaAgttgcagcagaaggcgtcgg	12	6	15	8	2	0	2	0	1	0	1	1	2	0	2	1	3	3	5	1	3	5	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	57501489	A	C	57501489	3	2	242	1	0	0	0	0	1	0	0	0	15271	69	3	5	2469	5	STAT6	12	57501489	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	46539260	57501489	76350406	39	12776											
NUAK1	9891	hgsc.bcm.edu	37	chr12	106461281	106461281	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagtcctgctccatcttgaAagtagagggtaaggcaggac	12	8	12	9	0	1	2	0	1	1	1	3	3	3	3	2	3	1	4	2	3	4	3	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	106461281	A	G	106461281	3	3	242	1	0	0	0	0	1	0	0	0	10712	14	1	3	704	3	NUAK1	12	106461281	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	48959792	106461281	27390614	40	12777											
NALCN	259232	hgsc.bcm.edu;ucsc.edu	37	chr13	101944628	101944628	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaaatagaagtaggaacGccaacggggaaagctgtcaa	17	5	13	6	2	1	2	1	1	0	1	1	5	1	4	1	3	3	2	1	3	8	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	101944628	G	A	101944628	3	1	242	1	0	0	0	0	1	0	0	0	10148	1087	38	1	4475	1	NALCN	13	101944628	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10		101944628	13225250	41	12778											
BNC1	646	hgsc.bcm.edu;ucsc.edu	37	chr15	83926300	83926300	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatggtgttgcagcctggtActttgcatttgtggagctgc	6	14	13	8	0	0	0	0	0	0	0	0	1	0	1	1	3	6	5	1	3	1	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	83926300	A	T	83926300	3	4	242	1	0	0	0	0	1	0	0	0	1474	391	14	5	109	5	BNC1	15	83926300	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10		83926300	18605092	42	12779											
GLYR1	84656	hgsc.bcm.edu;ucsc.edu	37	chr16	4855240	4855240	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggtgtcgacagcttaGtgtatgtaggctcggtacac	7	10	16	8	3	0	0	0	0	0	0	2	1	0	0	0	5	2	5	0	5	4	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	4855240	G	C	4855240	3	2	242	1	0	0	0	0	1	0	0	0	6483	1020	36	4	6	4	GLYR1	16	4855240	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10		4855240	85499513	43	12780											
VWA3A	146177	hgsc.bcm.edu	37	chr16	22122217	22122217	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtccaacagagcctcatCgatgagcagctgagccacaa	12	8	9	12	1	1	3	1	2	0	1	3	4	2	3	3	0	5	2	3	0	2	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	22122217	C	T	22122217	2	4	242	1	0	0	0	0	0	0	0	1	17239	874	31	1		1	VWA3A	16	22122217	Silent	SNP	C	TCGA-BP-4351-01A-01D-1366-10	17266977	22122217	68232536	44	12781											
LRRC48	83450	hgsc.bcm.edu;ucsc.edu	37	chr17	17910368	17910368	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgggacctggagaatcaCcaccacgagaagctcctgga	11	5	12	13	2	1	2	1	0	0	2	2	6	2	4	5	3	2	1	5	3	2	0	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	17910368	C	G	17910368	3	3	242	1	0	0	0	0	1	0	0	0	9005	506	18	4	1271	4	LRRC48	17	17910368	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10		17910368	63284842	45	12782											
C18orf21	83608	hgsc.bcm.edu;ucsc.edu	37	chr18	33557476	33557476	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactcctacaagtaaacTcagcctgaagacaccagaga	15	6	7	13	0	1	3	1	1	0	2	2	4	2	3	4	0	4	1	4	0	5	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	33557476	T	G	33557476	3	3	242	1	0	0	0	0	1	0	0	0	1897	1551	54	5	418	5	C18orf21	18	33557476	Missense_Mutation	SNP	T	TCGA-BP-4351-01A-01D-1366-10		33557476	44519772	46	12783											
TXNL4A	10907	hgsc.bcm.edu	37	chr18	77733688	77733688	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagactgagggcgcctcaGtagcggtacttggtggagta	8	8	16	9	3	1	2	1	1	0	1	1	3	1	3	1	4	2	4	1	4	3	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	77733688	G	T	77733688	4	4	242	1	0	0	0	0	0	1	0	0	16804	1024	36	4	6	4	TXNL4A	18	77733688	Nonsense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	44176212	77733688	343560	47	12784											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9087231	9087231	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttgttaagtccccagtTctgcccaaactcctgattcc	9	12	6	14	0	1	1	0	1	1	0	4	1	4	1	5	0	2	3	5	0	2	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	9087231	T	G	9087231	3	3	242	1	0	0	0	0	1	0	0	0	9973	1780	62	5	39275	5	MUC16	19	9087231	Missense_Mutation	SNP	T	TCGA-BP-4351-01A-01D-1366-10		9087231	50041752	48	12785											
GIPC1	10755	hgsc.bcm.edu	37	chr19	14591229	14591229	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagcaggctctgcccgttAatggcctcgatcatgtcgcc	6	9	10	16	3	2	0	1	0	1	0	4	1	2	0	4	2	2	3	4	2	1	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	14591229	A	G	14591229	2	3	242	1	0	0	0	0	0	0	0	1	6392	358	13	3		3	GIPC1	19	14591229	Silent	SNP	A	TCGA-BP-4351-01A-01D-1366-10	5503998	14591229	44537754	49	12786											
NWD1	284434	hgsc.bcm.edu	37	chr19	16910780	16910780	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcctgctggcccgcggcggGgctttggtggcatctgcttc	2	10	16	13	3	1	0	0	0	1	0	2	0	1	0	2	6	3	4	2	6	0	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	16910780	G	T	16910780	2	4	242	1	0	0	0	0	0	0	0	1	10781	1219	43	4		4	NWD1	19	16910780	Silent	SNP	G	TCGA-BP-4351-01A-01D-1366-10	2319551	16910780	42218203	50	12787											
CCDC97	90324	hgsc.bcm.edu	37	chr19	41822486	41822486	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcctgtttgcagccagcagCagggtgaacccgacttgaca	9	8	12	12	1	0	2	0	2	0	0	0	3	0	2	3	1	6	4	3	1	1	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	41822486	C	A	41822486	3	1	242	1	0	0	0	0	1	0	0	0	2875	711	25	4	250	4	CCDC97	19	41822486	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10	24911706	41822486	17306497	51	12788											
PRR19	284338	hgsc.bcm.edu	37	chr19	42814578	42814578	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatgcccactgcgcacaggGggagtctggcaccgccaaga	9	4	14	14	2	1	1	0	0	1	1	1	2	1	2	3	3	2	3	3	3	1	0	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	42814578	G	A	42814578	3	1	242	1	0	0	0	0	1	0	0	0	12593	1232	43	2	763	2	PRR19	19	42814578	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	992092	42814578	16314405	52	12789											
ZNF225	7768	hgsc.bcm.edu;ucsc.edu	37	chr19	44636673	44636673	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggaaagagcttcagatggGcctcaactcatctaacccat	12	9	9	11	0	4	2	3	0	1	2	4	3	4	3	2	2	3	1	2	2	3	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	44636673	G	T	44636673	3	4	242	1	0	0	0	0	1	0	0	0	17778	1203	42	4	1920	4	ZNF225	19	44636673	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	1822095	44636673	14492310	53	12790											
PRKD2	25865	hgsc.bcm.edu	37	chr19	47177809	47177809	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgatgcgctccgccagccCctgcatgtcgtggtcctgtg	4	10	12	15	3	0	1	0	1	0	0	3	1	2	1	5	1	3	2	5	1	0	0	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	47177809	C	T	47177809	3	4	242	1	0	0	0	0	1	0	0	0	12521	623	22	2	32	2	PRKD2	19	47177809	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10	2541136	47177809	11951174	54	12791											
CCDC114	93233	hgsc.bcm.edu	37	chr19	48821663	48821663	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgcttgtccagggccctgGtctgctcctgcagctcctcg	2	11	11	17	1	1	0	0	0	1	0	5	0	4	0	5	2	4	4	5	2	0	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		C	48821663	G	C	48821663	3	2	242	1	0	0	0	0	1	0	0	0	2751	1261	44	4	1830	4	CCDC114	19	48821663	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	1643854	48821663	10307320	55	12792											
SIGLEC8	27181	hgsc.bcm.edu	37	chr19	51958885	51958885	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgacagcacagaccaggcGcagagactggccctcaagga	12	4	13	12	1	1	3	1	1	0	2	1	5	1	4	2	3	1	3	2	3	1	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	51958885	G	A	51958885	3	1	242	1	0	0	0	0	1	0	0	0	14316	1087	38	1	677	1	SIGLEC8	19	51958885	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	3137222	51958885	7170098	56	12793											
CNOT3	4849	hgsc.bcm.edu;ucsc.edu	37	chr19	54656179	54656179	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagacatcatcctgagcAgtacatcagcacctccggcc	11	6	7	17	1	2	2	2	1	0	1	4	2	4	2	5	1	3	3	5	1	1	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	54656179	A	T	54656179	3	4	242	1	0	0	0	0	1	0	0	0	3620	188	7	5	1774	5	CNOT3	19	54656179	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	2697294	54656179	4472804	57	12794											
GGT7	2686	hgsc.bcm.edu;ucsc.edu	37	chr20	33450696	33450696	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgtccacagaagatccctGtttactgagcacctcgatgc	9	10	9	13	2	0	3	0	1	0	2	3	4	2	3	3	0	4	2	3	0	2	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	33450696	G	A	33450696	4	1	242	1	0	0	0	0	0	1	0	0	6364	1386	48	2	1562	2	GGT7	20	33450696	Nonsense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10		33450696	29574824	58	12795											
MAGEB16	139604	hgsc.bcm.edu;ucsc.edu	37	chrX	35821146	35821146	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgatatgaattcctgtgggGcccaagagccaaagctgaaa	14	7	11	9	1	0	3	0	2	0	1	1	4	1	3	3	2	2	1	3	2	5	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	35821146	G	A	35821146	3	1	242	1	0	0	0	0	1	0	0	0	9174	1203	42	2	835	2	MAGEB16	23	35821146	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10		35821146	119449414	59	12796											
CCNB3	85417	hgsc.bcm.edu;ucsc.edu	37	chrX	50090767	50090767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctctacatgaagaagctcgGatactgggtaaacacttgcg	12	9	10	10	2	1	2	0	1	1	1	2	3	1	3	1	2	5	2	1	2	6	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	50090767	G	A	50090767	3	1	242	1	0	0	0	0	1	0	0	0	2914	1174	41	2	3987	2	CCNB3	23	50090767	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	14269621	50090767	105179793	60	12797											
KDM5C	8242	ucsc.edu	37	chrX	53224160	53224160	+	Frame_Shift_Del	DEL	C	C	-																															cgcagacagccccagcagctCtgtgtcagatttgtacaacc																								novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	C	-	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		-	53224160	C	-	53224160	7	5	242	1	0	1	0	1	0	0	0	0	8135	922	32	0	1409	0	KDM5C	23	53224160	Frame_Shift_Del	DEL	C	TCGA-BP-4351-01A-01D-1366-10	3133393	53224160	102046400	61	12798											
TEX11	56159	hgsc.bcm.edu;ucsc.edu	37	chrX	69811638	69811638	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatggatgtcattgcatgtCtggatctcctcaagtgcacg	8	14	10	9	1	4	0	2	0	2	0	5	2	4	2	1	2	2	2	1	2	2	2	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		A	69811638	C	A	69811638	3	1	242	1	0	0	0	0	1	0	0	0	15773	912	32	4	698	4	TEX11	23	69811638	Missense_Mutation	SNP	C	TCGA-BP-4351-01A-01D-1366-10	16587478	69811638	85458922	62	12799											
UBE2A	7319	hgsc.bcm.edu;ucsc.edu	37	chrX	118716565	118716565	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttagtctatgcagatggtAgtatatgtctggacatactt	10	16	9	6	0	3	1	0	0	3	1	3	2	3	2	0	2	2	3	0	2	6	7	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	118716565	A	G	118716565	3	3	242	1	0	0	0	0	1	0	0	0	16843	420	15	3	274	3	UBE2A	23	118716565	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	48904927	118716565	36553995	63	12800											
PHF6	84295	hgsc.bcm.edu;ucsc.edu	37	chrX	133547905	133547905	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacaccaggcctaaatgtgGattttgccatgtaggggagg	10	10	14	7	0	0	1	0	1	0	0	0	3	0	3	3	5	1	1	3	5	3	4	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		T	133547905	G	T	133547905	3	4	242	1	0	0	0	0	1	0	0	0	11838	1174	41	4	663	4	PHF6	23	133547905	Missense_Mutation	SNP	G	TCGA-BP-4351-01A-01D-1366-10	14831340	133547905	21722655	64	12801											
DUSP9	1852	hgsc.bcm.edu;ucsc.edu	37	chrX	152915555	152915555	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctctctctcaacgatgcctAtgacctggtcaagaggaaga	11	9	9	12	1	3	3	2	1	2	2	5	5	3	4	3	2	2	0	3	2	4	1	novel		TCGA-BP-4351-01A-01D-1366-10	TCGA-BP-4351-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dfe72e10-d0cd-47dd-a0f2-c6517849c2fc	9c41f931-d361-47f4-a1c4-87c7114b3ccf		G	152915555	A	G	152915555	3	3	242	1	0	0	0	0	1	0	0	0	4832	449	16	3	960	3	DUSP9	23	152915555	Missense_Mutation	SNP	A	TCGA-BP-4351-01A-01D-1366-10	19367650	152915555	2355005	65	12802											
PADI6	353238	hgsc.bcm.edu;ucsc.edu	37	chr1	17708507	17708507	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgaatgtccaaggccccaGctgtatcttaaagaaatatc	13	11	7	10	0	2	2	0	1	2	1	4	2	3	2	3	1	1	2	3	1	7	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	17708507	G	T	17708507	3	4	243	1	0	0	0	0	1	0	0	0	11381	971	34	4	621	4	PADI6	1	17708507	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10		17708507	231542114	1	12803											
MACF1	23499	hgsc.bcm.edu;ucsc.edu	37	chr1	39889851	39889851	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagatggactgaactactcaGtaaggcagcagccaggtaag	14	7	12	8	0	1	2	1	1	0	1	1	3	1	3	1	3	4	4	1	3	5	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	39889851	G	T	39889851	3	4	243	1	0	0	0	0	1	0	0	0	9144	1029	36	4	16488	4	MACF1	1	39889851	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	22181344	39889851	209360770	2	12804											
ZNF642	0	hgsc.bcm.edu;ucsc.edu	37	chr1	40954792	40954792	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaggacatatctattgaCttcacccaggaagagtgggg	12	10	11	8	0	3	2	2	1	1	1	3	4	3	4	1	4	0	0	1	4	4	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	40954792	C	G	40954792	3	3	243	1	0	0	0	0	1	0	0	0	18057	564	20	4	262	4	ZNF642	1	40954792	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	1064941	40954792	208295829	3	12805											
PCSK9	255738	hgsc.bcm.edu	37	chr1	55512295	55512295	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattacccctccacggtacCgggcggatgaataccagccc	9	6	11	15	3	0	1	0	1	0	0	1	3	1	3	6	4	4	1	6	4	4	3	rs137878146	alternate_allele	TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	55512295	C	G	55512295	3	3	243	1	0	0	0	0	1	0	0	0	11606	643	23	4	509	4	PCSK9	1	55512295	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	14557503	55512295	193738326	4	12806											
PPM1J	333926	hgsc.bcm.edu	37	chr1	113252813	113252813	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aactgcctggccctcccaggGggatgacgaagacagagatg	11	5	14	11	1	0	3	0	1	0	2	1	6	1	4	3	3	2	0	3	3	2	0	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	113252813	G	C	113252813	3	2	243	1	0	0	0	0	1	0	0	0	12344	1232	43	4	31	4	PPM1J	1	113252813	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	57740518	113252813	135997808	5	12807											
LRIG2	9860	hgsc.bcm.edu;ucsc.edu	37	chr1	113652931	113652931	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctctaagaggcatgaatgtGactctgacgtgcactgcagt	10	10	12	9	1	2	4	0	3	2	1	2	4	2	4	0	1	2	4	0	1	2	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	113652931	G	A	113652931	2	1	243	1	0	0	0	0	0	0	0	1	8945	1277	45	2		2	LRIG2	1	113652931	Silent	SNP	G	TCGA-BP-4352-01A-01D-1366-10	400118	113652931	135597690	6	12808											
TNR	7143	hgsc.bcm.edu	37	chr1	175355249	175355249	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctcgtatcgggagccagGccgcagggcctgcactgagt	7	6	14	14	3	0	1	0	1	0	0	2	2	0	2	4	3	2	3	4	3	1	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	175355249	G	T	175355249	3	4	243	1	0	0	0	0	1	0	0	0	16337	1203	42	4	2444	4	TNR	1	175355249	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	61702318	175355249	73895372	7	12809											
HHAT	55733	hgsc.bcm.edu	37	chr1	210761285	210761285	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtcccagcatggcctgctgGggacactgttttccacggcg	5	9	14	13	2	0	0	0	0	0	0	2	1	2	1	3	5	2	3	3	5	0	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	210761285	G	T	210761285	3	4	243	1	0	0	0	0	1	0	0	0	7089	1232	43	4	1219	4	HHAT	1	210761285	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	35406036	210761285	38489336	8	12810											
INTS7	25896	hgsc.bcm.edu	37	chr1	212161322	212161322	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttaagctgtcataaggagtCtggagggcacactcacaaag	13	9	11	8	0	3	0	2	0	1	0	3	2	3	2	0	3	1	2	0	3	3	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	212161322	C	G	212161322	3	3	243	1	0	0	0	0	1	0	0	0	7783	912	32	4	2037	4	INTS7	1	212161322	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	1400037	212161322	37089299	9	12811											
TMEM206	55248	hgsc.bcm.edu	37	chr1	212548582	212548582	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccattcaaagaccacaaAaaacaattgagcactttttt	16	13	3	9	0	1	2	1	1	0	1	2	2	2	2	2	0	2	1	2	0	5	6	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	212548582	A	G	212548582	3	3	243	1	0	0	0	0	1	0	0	0	16130	14	1	3	216	3	TMEM206	1	212548582	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	387260	212548582	36702039	10	12812											
SPATA17	128153	hgsc.bcm.edu;ucsc.edu	37	chr1	217955528	217955528	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgtcaggggcccttccgaGatatcaccgaagtattagaa	11	10	10	10	2	2	2	2	0	0	2	3	4	3	2	3	2	0	1	3	2	5	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	217955528	G	A	217955528	3	1	243	1	0	0	0	0	1	0	0	0	15003	942	33	2	766	2	SPATA17	1	217955528	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	5406946	217955528	31295093	11	12813											
RYR2	6262	hgsc.bcm.edu;ucsc.edu	37	chr1	237801753	237801753	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacccagttgaaggagagAgatatcttgactttcttaga	13	11	11	6	0	2	5	0	2	2	3	2	8	2	6	1	2	1	1	1	2	4	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	237801753	A	G	237801753	3	3	243	1	0	0	0	0	1	0	0	0	13771	296	11	3	7067	3	RYR2	1	237801753	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	19846225	237801753	11448868	12	12814											
LCT	3938	hgsc.bcm.edu;ucsc.edu	37	chr2	136566271	136566271	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttagcctgggtgttttgtGctgcacgattctggagtagt	5	16	14	6	1	1	0	0	0	1	0	1	2	1	1	1	2	3	5	1	2	2	6	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	136566271	G	C	136566271	3	2	243	1	0	0	0	0	1	0	0	0	8693	1319	46	4	2177	4	LCT	2	136566271	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10		136566271	106633102	13	12815											
TTLL4	9654	hgsc.bcm.edu;ucsc.edu	37	chr2	219618334	219618334	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccgacatcacttctgactAtctcaaaggatgacgtgata	12	11	7	11	2	3	3	2	3	2	0	5	5	4	4	1	1	0	0	1	1	3	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	219618334	A	G	219618334	3	3	243	1	0	0	0	0	1	0	0	0	16728	449	16	3	3352	3	TTLL4	2	219618334	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	83052063	219618334	23581039	14	12816											
STK11IP	114790	hgsc.bcm.edu	37	chr2	220478482	220478482	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctccacagtgagcctcCagctagctggctgcagctga	7	9	10	15	0	1	2	0	2	1	0	4	2	3	2	3	1	5	5	3	1	1	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	220478482	C	T	220478482	3	4	243	1	0	0	0	0	1	0	0	0	15289	594	21	2	2661	2	STK11IP	2	220478482	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	860148	220478482	22720891	15	12817											
RAB5A	5868	hgsc.bcm.edu;ucsc.edu	37	chr3	20017171	20017171	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatacagctggtcaagaacGataccatagcctagcaccaa	15	6	9	11	1	1	1	1	0	0	1	1	3	1	2	3	2	6	2	3	2	7	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	20017171	G	A	20017171	3	1	243	1	0	0	0	0	1	0	0	0	12950	1058	37	1	248	1	RAB5A	3	20017171	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10		20017171	178005259	16	12818											
CSRNP1	64651	hgsc.bcm.edu	37	chr3	39184799	39184799	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagagcctggagtaacTcaaaggagtcacaagaagac	15	5	12	9	0	2	3	2	0	0	3	2	5	2	5	1	3	2	2	1	3	4	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	39184799	T	A	39184799	3	1	243	1	0	0	0	0	1	0	0	0	3963	1551	54	5	256	5	CSRNP1	3	39184799	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	19167628	39184799	158837631	17	12819											
FYCO1	79443	hgsc.bcm.edu	37	chr3	46001032	46001032	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccagagagcatccttgTccctgggacaaaaccacatt	11	9	8	13	0	1	1	0	0	1	1	3	3	3	2	4	1	3	1	4	1	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	46001032	T	C	46001032	3	2	243	1	0	0	0	0	1	0	0	0	6125	1667	58	3	1024	3	FYCO1	3	46001032	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	6816233	46001032	152021398	18	12820											
UBA7	7318	hgsc.bcm.edu	37	chr3	49850746	49850746	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgacgacctggacagctctgTtgagctgagccaagagctct	9	8	12	12	2	2	3	0	2	2	1	2	6	2	4	2	1	4	4	2	1	1	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	49850746	T	C	49850746	3	2	243	1	0	0	0	0	1	0	0	0	16832	1725	60	3	2830	3	UBA7	3	49850746	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	3849714	49850746	148171684	19	12821											
BAP1	8314	hgsc.bcm.edu	37	chr3	52440367	52440367	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaccactgccatcaggtTgaagcggatgtcgtggtagg	8	8	16	9	2	1	1	1	1	0	0	2	2	1	2	2	5	2	3	2	5	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	52440367	T	G	52440367	3	3	243	1	0	0	0	0	1	0	0	0	1311	1812	63	5	1540	5	BAP1	3	52440367	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	2589621	52440367	145582063	20	12822											
FAM3D	131177	hgsc.bcm.edu;ucsc.edu	37	chr3	58620032	58620032	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcttcgggggcatgcagcCctccatctccagcagctctg	5	9	12	15	1	2	0	0	0	2	0	5	0	3	0	3	3	4	5	3	3	0	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	58620032	C	T	58620032	3	4	243	1	0	0	0	0	1	0	0	0	5559	623	22	2	29	2	FAM3D	3	58620032	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	6179665	58620032	139402398	21	12823											
VGLL3	389136	hgsc.bcm.edu;ucsc.edu	37	chr3	87027696	87027696	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgccataggggggttagcCccatcttgctttttgaaatg	7	13	11	10	1	1	1	0	1	1	0	2	1	1	1	3	3	2	2	3	3	3	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	87027696	C	A	87027696	3	1	243	1	0	0	0	0	1	0	0	0	17159	623	22	4	609	4	VGLL3	3	87027696	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	28407664	87027696	110994734	22	12824											
KIAA2018	205717	hgsc.bcm.edu;ucsc.edu	37	chr3	113377605	113377605	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcagcaatgatttctaccTcagaaacacagtcagtactt	13	12	6	10	0	4	2	3	1	1	1	4	2	4	2	1	0	4	3	1	0	4	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	113377605	T	C	113377605	3	2	243	1	0	0	0	0	1	0	0	0	8268	1551	54	3	3817	3	KIAA2018	3	113377605	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	26349909	113377605	84644825	23	12825											
ZBTB38	253461	hgsc.bcm.edu;ucsc.edu	37	chr3	141163202	141163202	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggtaccaaatggggagagGaggcattgaaaatggatctt	14	8	15	4	0	1	2	0	1	1	1	1	5	1	4	1	6	1	2	1	6	4	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	141163202	G	T	141163202	4	4	243	1	0	0	0	0	0	1	0	0	17538	1175	41	4	1974	4	ZBTB38	3	141163202	Nonsense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	27785597	141163202	56859228	24	12826											
PIK3CA	5290	hgsc.bcm.edu;ucsc.edu	37	chr3	178916854	178916854	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaagaagcagaaagggaaGaattttttgatgaaacaaga	19	8	10	4	0	1	6	1	2	0	4	1	7	1	7	0	1	2	1	0	1	7	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	178916854	G	A	178916854	3	1	243	1	0	0	0	0	1	0	0	0	11913	943	33	2	243	2	PIK3CA	3	178916854	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	37753652	178916854	19105576	25	12827											
KLHL24	54800	hgsc.bcm.edu;ucsc.edu	37	chr3	183368567	183368567	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatgtacagtatctctttgaGacatcaagcctctttcagat	12	14	6	9	0	4	2	2	1	2	2	5	3	4	2	1	0	2	2	1	0	4	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	183368567	G	C	183368567	3	2	243	1	0	0	0	0	1	0	0	0	8379	933	33	4	425	4	KLHL24	3	183368567	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	4451713	183368567	14653863	26	12828											
CWH43	80157	hgsc.bcm.edu;ucsc.edu	37	chr4	49034691	49034691	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccgttaacatttcgggCaagctggtggattttgtcgt	7	15	12	7	3	0	1	0	1	0	0	2	2	0	2	1	3	2	3	1	3	2	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	49034691	C	T	49034691	2	4	243	1	0	0	0	0	0	0	0	1	4073	697	25	2		2	CWH43	4	49034691	Silent	SNP	C	TCGA-BP-4352-01A-01D-1366-10		49034691	142119585	27	12829											
BDP1	55814	hgsc.bcm.edu;ucsc.edu	37	chr5	70806004	70806004	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagaagacaccagaggtgAttgatgctactgaggaaata	15	7	14	5	0	0	6	0	3	0	3	0	8	0	7	1	3	2	1	1	3	4	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	70806004	A	G	70806004	3	3	243	1	0	0	0	0	1	0	0	0	1395	333	12	3	3151	3	BDP1	5	70806004	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10		70806004	110109256	28	12830											
HIST1H4H	8365	hgsc.bcm.edu;ucsc.edu	37	chr6	26285450	26285450	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtaaagagtgcgtccctgtCgcttcagcgcgtagaccaca	9	8	11	13	5	1	2	1	0	0	2	3	2	2	2	2	0	2	3	2	0	3	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	26285450	C	T	26285450	3	4	243	1	0	0	0	0	1	0	0	0	7172	884	31	1	37	1	HIST1H4H	6	26285450	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10		26285450	144829617	29	12831											
ZNF323	0	hgsc.bcm.edu;ucsc.edu	37	chr6	28293947	28293947	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaaactcatcacccttatGgtctctctccagtgtggatt	8	13	6	14	0	4	0	2	0	2	0	6	1	4	1	3	2	1	0	3	2	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	28293947	G	A	28293947	3	1	243	1	0	0	0	0	1	0	0	0	17842	1348	47	2	7	2	ZNF323	6	28293947	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	2008497	28293947	142821120	30	12832											
GCM1	8521	hgsc.bcm.edu	37	chr6	52995691	52995691	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttgcctcagcttctaaCttggtttctggttttggatg	4	19	9	9	0	4	0	1	0	3	0	4	1	4	1	1	3	3	3	1	3	1	8	rs76623467	byfrequency;by1000genomes;alternate_allele	TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	52995691	C	G	52995691	3	3	243	1	0	0	0	0	1	0	0	0	6297	564	20	4	838	4	GCM1	6	52995691	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	24701744	52995691	118119376	31	12833											
FAM46A	55603	hgsc.bcm.edu;ucsc.edu	37	chr6	82459989	82459989	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtgaaatgtctcagtcAttgggttctctgaacattca	9	14	11	7	0	4	2	3	2	2	0	6	2	4	2	0	3	1	1	0	3	2	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	82459989	A	G	82459989	3	3	243	1	0	0	0	0	1	0	0	0	5565	217	8	3	580	3	FAM46A	6	82459989	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	29464298	82459989	88655078	32	12834											
PREP	5550	hgsc.bcm.edu	37	chr6	105800846	105800846	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtctgaaaaaataactcaCccgcgatgccactggattcc	12	9	8	12	2	2	1	1	1	1	0	3	3	3	2	3	1	2	0	3	1	4	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	105800846	C	T	105800846	5	4	243	1	0	0	0	0	0	0	1	0	12476	521	18	2	1344	2	PREP	6	105800846	Splice_Site	SNP	C	TCGA-BP-4352-01A-01D-1366-10	23340857	105800846	65314221	33	12835											
MICAL1	64780	hgsc.bcm.edu;ucsc.edu	37	chr6	109771217	109771217	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgccctctgcccaccgCttcaccatccaggctgcatc	6	8	7	20	2	3	0	2	0	1	0	5	0	4	0	5	1	3	3	5	1	0	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	109771217	C	A	109771217	3	1	243	1	0	0	0	0	1	0	0	0	9569	796	28	4	2008	4	MICAL1	6	109771217	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	3970371	109771217	61343850	34	12836											
PLG	5340	hgsc.bcm.edu;ucsc.edu	37	chr6	161135849	161135849	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtatgcattgcagtggaGaaaactatgacggcaaaatt	16	10	10	5	1	0	2	0	1	0	1	0	3	0	2	0	2	3	4	0	2	7	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	161135849	G	T	161135849	4	4	243	1	0	0	0	0	0	1	0	0	12086	943	33	4	597	4	PLG	6	161135849	Nonsense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	51364632	161135849	9979218	35	12837											
SDK1	221935	hgsc.bcm.edu;ucsc.edu	37	chr7	3678698	3678698	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccgctgcgtggtgcgaaacaGaatgggagcactcctgcaaa	11	6	13	11	3	0	1	0	0	0	1	1	3	1	2	2	2	5	3	2	2	3	0	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	3678698	G	C	3678698	3	2	243	1	0	0	0	0	1	0	0	0	13970	942	33	4	531	4	SDK1	7	3678698	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10		3678698	155459965	36	12838											
TACC1	6867	hgsc.bcm.edu;ucsc.edu	37	chr8	38704295	38704295	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgctggactccgcaaagaGcagatgaaggtggagtccct	11	7	13	10	1	0	3	0	1	0	2	2	5	2	5	2	3	2	3	2	3	2	0	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	38704295	G	T	38704295	3	4	243	1	0	0	0	0	1	0	0	0	15500	962	34	4	2353	4	TACC1	8	38704295	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10		38704295	107659727	37	12839											
ZNF572	137209	hgsc.bcm.edu;ucsc.edu	37	chr8	125990031	125990031	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggattttcctcatgaatgGacttggaaaaactgttcagg	11	12	12	6	0	2	1	2	1	0	0	3	4	3	4	1	5	1	1	1	5	3	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	125990031	G	T	125990031	3	4	243	1	0	0	0	0	1	0	0	0	18003	1183	41	4	1527	4	ZNF572	8	125990031	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	87285736	125990031	20373991	38	12840											
OPLAH	26873	hgsc.bcm.edu	37	chr8	145107992	145107992	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcctgccgggaggttccaAaggcacgcaacatgtctcgc	8	6	14	13	3	1	0	0	0	1	0	3	1	2	1	3	4	2	3	3	4	2	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	145107992	A	C	145107992	3	2	243	1	0	0	0	0	1	0	0	0	10876	14	1	5	984	5	OPLAH	8	145107992	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	19117961	145107992	1256030	39	12841											
CDK9	1025	hgsc.bcm.edu	37	chr9	130548496	130548496	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaatacgagaagctcgcCaagatcggccaaggcacctt	13	6	9	13	3	0	2	0	0	0	2	3	3	1	2	4	2	2	2	4	2	5	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	130548496	C	G	130548496	2	3	243	1	0	0	0	0	0	0	0	1	3151	581	21	4		4	CDK9	9	130548496	Silent	SNP	C	TCGA-BP-4352-01A-01D-1366-10		130548496	10664935	40	12842											
GOLGA2	2801	hgsc.bcm.edu	37	chr9	131019438	131019438	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caagcctgggcgctcccgggGgttctgcatctcacgaagca	7	7	13	14	3	2	0	1	0	2	0	4	1	3	0	2	3	3	4	2	3	2	1	rs113640242	bycluster	TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	131019438	G	A	131019438	3	1	243	1	0	0	0	0	1	0	0	0	6552	1232	43	2	95	2	GOLGA2	9	131019438	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	470942	131019438	10193993	41	12843											
TTF1	7270	hgsc.bcm.edu	37	chr9	135277682	135277682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgctggctctcccaggatGcagctttcctctgatgcttt	4	13	9	15	1	2	1	0	1	2	0	4	2	3	2	3	2	3	5	3	2	0	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	135277682	G	A	135277682	3	1	243	1	0	0	0	0	1	0	0	0	16717	1319	46	2	2230	2	TTF1	9	135277682	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	4258244	135277682	5935749	42	12844											
PITRM1	10531	hgsc.bcm.edu	37	chr10	3187802	3187802	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatacctcgaccgtgtgtgGgcgcacaggcctccgttcct	5	9	12	15	4	0	0	0	0	0	0	3	1	2	0	5	2	1	3	5	2	1	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	3187802	G	T	3187802	3	4	243	1	0	0	0	0	1	0	0	0	11953	1232	43	4	698	4	PITRM1	10	3187802	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10		3187802	132346945	43	12845											
ITGA8	8516	hgsc.bcm.edu;ucsc.edu	37	chr10	15714684	15714684	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcttttctcctgccagtttCctgaggatatccttgaatga	7	16	8	10	0	1	3	0	3	1	0	4	4	3	4	4	1	2	2	4	1	2	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	15714684	C	T	15714684	2	4	243	1	0	0	0	0	0	0	0	1	7882	854	30	2		2	ITGA8	10	15714684	Silent	SNP	C	TCGA-BP-4352-01A-01D-1366-10	12526882	15714684	119820063	44	12846											
FAM21A	387680	hgsc.bcm.edu	37	chr10	51863872	51863872	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcaagctccccacgtTggtttccctgtttgatgatg	5	13	11	12	1	0	2	0	2	0	0	2	2	2	2	4	2	1	5	4	2	1	3	rs2490899		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	51863872	T	C	51863872	3	2	243	1	0	0	0	0	1	0	0	0	5540	1821	63	3	1776	3	FAM21A	10	51863872	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	36149188	51863872	83670875	45	12847											
SGPL1	8879	hgsc.bcm.edu;ucsc.edu	37	chr10	72610956	72610956	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccaggaagatgcccattAttggtcgtaaggtaagtaga	13	10	11	7	1	1	2	1	0	0	2	2	3	1	3	2	3	1	3	2	3	5	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	72610956	A	G	72610956	3	3	243	1	0	0	0	0	1	0	0	0	14220	449	16	3	260	3	SGPL1	10	72610956	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	20747084	72610956	62923791	46	12848											
MYST4	0	hgsc.bcm.edu;ucsc.edu	37	chr10	76788380	76788380	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggcaaaacaaagagaggaaGaccggatttaaactgaattt	19	7	10	5	1	0	3	0	1	0	2	0	6	0	5	1	3	2	1	1	3	7	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	76788380	G	C	76788380	3	2	243	1	0	0	0	0	1	0	0	0	10105	933	33	4	3860	4	MYST4	10	76788380	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	4177424	76788380	58746367	47	12849											
CSTF3	1479	hgsc.bcm.edu;ucsc.edu	37	chr11	33127147	33127147	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagtctctccagagctgtTcaatgttgatcatcggatta	10	15	8	8	1	3	2	2	1	1	1	6	3	4	3	1	1	1	3	1	1	4	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	33127147	T	G	33127147	3	3	243	1	0	0	0	0	1	0	0	0	3986	1783	62	5	1658	5	CSTF3	11	33127147	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10		33127147	101879369	48	12850											
CREB3L1	90993	hgsc.bcm.edu	37	chr11	46332690	46332690	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagccctgtcaggcccatgGcgcgctcctccacggccatc	5	6	10	20	3	1	0	1	0	0	0	4	0	3	0	6	3	1	1	6	3	0	0	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	46332690	G	C	46332690	3	2	243	1	0	0	0	0	1	0	0	0	3856	1203	42	4	721	4	CREB3L1	11	46332690	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	13205543	46332690	88673826	49	12851											
KDM2A	22992	hgsc.bcm.edu;ucsc.edu	37	chr11	67021798	67021798	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctcgactcgacctcagTcactgcagccaccttacaga	9	9	7	16	2	3	1	2	0	1	1	5	3	3	1	3	0	3	1	3	0	1	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	67021798	T	G	67021798	3	3	243	1	0	0	0	0	1	0	0	0	8124	1664	58	5	3290	5	KDM2A	11	67021798	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	20689108	67021798	67984718	50	12852											
ARHGEF17	9828	hgsc.bcm.edu	37	chr11	73021667	73021667	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgcagcattttgcggcCtgggtaccacagggatgtgg	6	11	15	9	1	0	0	0	0	0	0	0	1	0	1	2	4	4	4	2	4	1	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	73021667	C	A	73021667	3	1	243	1	0	0	0	0	1	0	0	0	900	680	24	4	1986	4	ARHGEF17	11	73021667	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	5999869	73021667	61984849	51	12853											
JRKL	8690	hgsc.bcm.edu;ucsc.edu	37	chr11	96124291	96124291	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aagatttttgtaataactttCgagattttattgaacgagag	14	16	8	3	2	0	4	0	1	0	3	1	6	0	4	0	0	2	1	0	0	5	8	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	96124291	C	G	96124291	3	3	243	1	0	0	0	0	1	0	0	0	7965	876	31	4	480	4	JRKL	11	96124291	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	23102624	96124291	38882225	52	12854											
FRS2	10818	hgsc.bcm.edu;ucsc.edu	37	chr12	69965176	69965176	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagaaataatcatcagaCagaattggaagtccctagaa	20	7	8	6	0	2	5	2	0	0	5	3	6	3	6	1	1	0	0	1	1	7	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	69965176	C	A	69965176	3	1	243	1	0	0	0	0	1	0	0	0	6061	478	17	4	384	4	FRS2	12	69965176	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10		69965176	63886719	53	12855											
NOS1	4842	hgsc.bcm.edu;ucsc.edu	37	chr12	117710228	117710228	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagttgtcacagtagtcgcGgacaccaatctctgtgccca	9	9	11	12	2	2	0	1	0	1	0	4	2	2	2	2	2	1	2	2	2	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	117710228	G	A	117710228	3	1	243	1	0	0	0	0	1	0	0	0	10541	1116	39	1	2583	1	NOS1	12	117710228	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	47745052	117710228	16141667	54	12856											
SLC15A4	121260	hgsc.bcm.edu;ucsc.edu	37	chr12	129278856	129278856	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtagctccttgaatagcaGccagaagaaaaaagtaatag	17	7	11	6	0	0	3	0	1	0	2	1	3	1	3	2	1	3	4	2	1	9	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	129278856	G	A	129278856	3	1	243	1	0	0	0	0	1	0	0	0	14403	971	34	2	118	2	SLC15A4	12	129278856	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	11568628	129278856	4573039	55	12857											
NEK3	4752	hgsc.bcm.edu;ucsc.edu	37	chr13	52707349	52707349	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagtcggggttgtcatcttCctcctcaaagtccctgtgaa	7	12	9	13	1	3	1	2	1	1	0	7	1	6	1	4	2	0	1	4	2	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	52707349	C	A	52707349	4	1	243	1	0	0	0	0	0	1	0	0	10325	864	30	4	74	4	NEK3	13	52707349	Nonsense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10		52707349	62462529	56	12858											
RNASE9	390443	hgsc.bcm.edu;ucsc.edu	37	chr14	21024785	21024785	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttacacgctggtatttcAaatgcttctgttaaattaca	12	17	5	7	1	2	0	1	0	1	0	2	0	2	0	0	1	3	4	0	1	7	8	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	21024785	A	G	21024785	2	3	243	1	0	0	0	0	0	0	0	1	13412	127	5	3		3	RNASE9	14	21024785	Silent	SNP	A	TCGA-BP-4352-01A-01D-1366-10		21024785	86324755	57	12859											
RNASE1	6035	hgsc.bcm.edu	37	chr14	21270086	21270086	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtaggtggagctgctgcTgggggaactgtctgagtcca	8	9	16	8	0	1	1	0	1	1	0	2	3	2	3	1	4	4	4	1	4	2	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	21270086	T	G	21270086	3	3	243	1	0	0	0	0	1	0	0	0	13401	1580	55	5	332	5	RNASE1	14	21270086	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	245301	21270086	86079454	58	12860											
MYH6	4624	hgsc.bcm.edu	37	chr14	23855332	23855332	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accgcatcgtccagctggatCtgggtgtcctgagcatcagg	7	9	13	12	2	2	1	1	1	1	0	5	2	4	2	3	3	2	3	3	3	0	0	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	23855332	C	G	23855332	3	3	243	1	0	0	0	0	1	0	0	0	10038	912	32	4	875	4	MYH6	14	23855332	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	2585246	23855332	83494208	59	12861											
POLE2	5427	hgsc.bcm.edu;ucsc.edu	37	chr14	50131848	50131848	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactaaggtctagttggaCtgttccagtaggatcttcca	9	15	9	8	0	2	0	0	0	2	0	4	2	4	2	2	3	1	3	2	3	4	8	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	50131848	C	G	50131848	3	3	243	1	0	0	0	0	1	0	0	0	12197	565	20	4	1021	4	POLE2	14	50131848	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	26276516	50131848	57217692	60	12862											
ZFP36L1	677	hgsc.bcm.edu;ucsc.edu	37	chr14	69257206	69257207	+	Frame_Shift_Ins	INS	-	-	A																															ctatagttgagcatcttgttINSaccctggagagagaagagaa																								novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	69257207	-	A	69257206	7	5	243	1	0	1	1	0	0	0	0	0	17645	1754	61	0	959	0	ZFP36L1	14	69257206	Frame_Shift_Ins	INS	-	TCGA-BP-4352-01A-01D-1366-10	19125358	69257206	38092334	61	12863											
NRXN3	9369	hgsc.bcm.edu	37	chr14	80130119	80130119	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttgtgtttctttattatAggaacaggggaaaattggag	11	16	11	3	0	1	0	0	0	1	0	1	3	1	3	0	4	1	1	0	4	6	8	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	80130119	A	G	80130119	5	3	243	1	0	0	0	0	0	0	1	0	10667	434	15	3	2621	3	NRXN3	14	80130119	Splice_Site	SNP	A	TCGA-BP-4352-01A-01D-1366-10	10872913	80130119	27219421	62	12864											
CYFIP1	23191	hgsc.bcm.edu;ucsc.edu	37	chr15	22956552	22956552	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacatagaaaaatttcatCgagagtcattcttctacact	14	13	6	8	1	4	2	2	0	2	2	5	4	4	3	0	1	1	0	0	1	4	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	22956552	C	T	22956552	4	4	243	1	0	0	0	0	0	1	0	0	4137	876	31	1	2228	1	CYFIP1	15	22956552	Nonsense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10		22956552	79574840	63	12865											
GABRG3	2567	hgsc.bcm.edu;ucsc.edu	37	chr15	27772598	27772598	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaccacggtgctgacCatgaccaccctgagcaccat	10	6	9	16	1	1	3	1	3	0	0	1	3	1	3	5	2	2	3	5	2	0	0	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	27772598	C	T	27772598	2	4	243	1	0	0	0	0	0	0	0	1	6173	581	21	2		2	GABRG3	15	27772598	Silent	SNP	C	TCGA-BP-4352-01A-01D-1366-10	4816046	27772598	74758794	64	12866											
AQR	9716	hgsc.bcm.edu;ucsc.edu	37	chr15	35174721	35174721	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgaaacctagcttgacCaagtcatgtcgttttaaggc	11	12	8	10	1	1	2	1	2	0	0	2	2	1	2	3	1	2	2	3	1	4	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	35174721	C	G	35174721	3	3	243	1	0	0	0	0	1	0	0	0	835	593	21	4	1346	4	AQR	15	35174721	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	7402123	35174721	67356671	65	12867											
DTWD1	56986	hgsc.bcm.edu;ucsc.edu	37	chr15	49917573	49917573	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccagaatgttctactgctAtacatgttatgttccagttg	9	17	7	8	0	1	1	0	0	1	1	3	1	3	1	2	0	3	5	2	0	5	8	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	49917573	A	C	49917573	3	2	243	1	0	0	0	0	1	0	0	0	4791	449	16	5	211	5	DTWD1	15	49917573	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	14742852	49917573	52613819	66	12868											
HMG20A	10363	hgsc.bcm.edu;ucsc.edu	37	chr15	77771582	77771582	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaacagactgcacagtatTattttagctaatccccaaga	15	11	6	9	0	0	3	0	1	0	2	1	3	1	3	2	0	3	3	2	0	6	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	77771582	T	G	77771582	3	3	243	1	0	0	0	0	1	0	0	0	7221	1742	61	5	999	5	HMG20A	15	77771582	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	27854009	77771582	24759810	67	12869											
TMC3	342125	hgsc.bcm.edu;ucsc.edu	37	chr15	81644159	81644159	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccaggatgttggcaataAtcctcaggcagatggtcact	11	9	11	10	0	2	1	2	0	0	1	3	2	3	2	2	4	0	4	2	4	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	81644159	A	G	81644159	3	3	243	1	0	0	0	0	1	0	0	0	15985	101	4	3	2395	3	TMC3	15	81644159	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	3872577	81644159	20887233	68	12870											
LRRK1	79705	hgsc.bcm.edu;ucsc.edu	37	chr15	101569276	101569276	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccgaatgtctgcagaggatCtttaatattaagggctctcg	10	13	10	8	2	3	1	0	0	3	1	5	3	4	2	1	2	1	2	1	2	4	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	101569276	C	G	101569276	3	3	243	1	0	0	0	0	1	0	0	0	9032	903	32	4	2876	4	LRRK1	15	101569276	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	19925117	101569276	962116	69	12871											
RAB40C	57799	hgsc.bcm.edu	37	chr16	675459	675459	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggtgtatgacatcaccAaccgctggtcctttgacggc	7	12	10	12	2	2	2	1	2	1	0	3	2	3	2	3	3	1	2	3	3	2	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	675459	A	G	675459	3	3	243	1	0	0	0	0	1	0	0	0	12944	130	5	3	306	3	RAB40C	16	675459	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10		675459	89679294	70	12872											
TMC5	79838	hgsc.bcm.edu;ucsc.edu	37	chr16	19451434	19451434	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctattcagggtctcagaaccGtacgcaggggtatttgaaaa	12	10	11	8	2	2	2	2	1	1	1	3	2	2	2	1	3	2	3	1	3	6	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	19451434	G	A	19451434	3	1	243	1	0	0	0	0	1	0	0	0	15987	1145	40	1	76	1	TMC5	16	19451434	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	18775975	19451434	70903319	71	12873											
CACNG3	10368	hgsc.bcm.edu;ucsc.edu	37	chr16	24268095	24268095	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatgaggatgtgtgacagagGtatccagatgttgatcacca	12	11	12	6	0	1	5	1	3	0	2	2	6	2	6	2	2	0	2	2	2	2	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	24268095	G	A	24268095	3	1	243	1	0	0	0	0	1	0	0	0	2558	1261	44	2	22	2	CACNG3	16	24268095	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	4816661	24268095	66086658	72	12874											
LONP2	83752	hgsc.bcm.edu;ucsc.edu	37	chr16	48311325	48311325	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgaacaacccagtgttcCtattagatgaggttgacaaa	14	10	10	7	0	0	4	0	3	0	1	1	5	1	4	2	1	2	2	2	1	5	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	48311325	C	G	48311325	3	3	243	1	0	0	0	0	1	0	0	0	8893	680	24	4	1348	4	LONP2	16	48311325	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	24043230	48311325	42043428	73	12875											
ZNF821	55565	hgsc.bcm.edu	37	chr16	71893982	71893982	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagaagctggctgtccAactccaccccacttacaggc	9	7	8	17	0	0	1	0	0	0	1	2	1	2	1	5	2	4	2	5	2	3	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	71893982	A	C	71893982	3	2	243	1	0	0	0	0	1	0	0	0	18177	131	5	5	64	5	ZNF821	16	71893982	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	23582657	71893982	18460771	74	12876											
TAF1C	9013	hgsc.bcm.edu;ucsc.edu	37	chr16	84216708	84216708	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggtgtccaccgaggtcCtggagcagcttcttcacact	6	10	12	13	1	2	0	1	0	1	0	4	2	4	1	3	4	2	3	3	4	0	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	84216708	C	G	84216708	3	3	243	1	0	0	0	0	1	0	0	0	15520	680	24	4	2189	4	TAF1C	16	84216708	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	12322726	84216708	6138045	75	12877											
MTHFSD	64779	hgsc.bcm.edu;ucsc.edu	37	chr16	86585687	86585687	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggtttatcagggtccacTttaacttcctgtgttctggc	6	16	10	9	0	2	0	1	0	1	0	4	0	4	0	2	3	1	2	2	3	2	6	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	86585687	T	A	86585687	3	1	243	1	0	0	0	0	1	0	0	0	9933	1606	56	5	986	5	MTHFSD	16	86585687	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	2368979	86585687	3769066	76	12878											
IMPA2	3613	hgsc.bcm.edu;ucsc.edu	37	chr18	12030440	12030440	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagacgattaactatgggCgggatgatgagaagtgactg	13	9	14	5	2	0	4	0	3	0	2	0	7	0	5	0	2	2	0	0	2	4	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	12030440	C	T	12030440	3	4	243	1	0	0	0	0	1	0	0	0	7723	759	27	1	880	1	IMPA2	18	12030440	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10		12030440	66046808	77	12879											
SLC14A2	8170	hgsc.bcm.edu;ucsc.edu	37	chr18	43249307	43249307	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgggtaccatcttcagCaagtgggacctcccagtctt	7	10	10	14	0	3	0	1	0	2	0	4	1	4	1	4	2	2	2	4	2	2	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	43249307	C	T	43249307	2	4	243	1	0	0	0	0	0	0	0	1	14399	709	25	2		2	SLC14A2	18	43249307	Silent	SNP	C	TCGA-BP-4352-01A-01D-1366-10	31218867	43249307	34827941	78	12880											
MYO1F	4542	hgsc.bcm.edu	37	chr19	8612963	8612963	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgataaagatttgctgcagcTtctcattgacgaagttgatg	11	13	10	7	2	1	3	1	2	1	1	2	5	1	3	0	0	3	4	0	0	3	5	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	8612963	T	A	8612963	3	1	243	1	0	0	0	0	1	0	0	0	10073	1609	56	5	2138	5	MYO1F	19	8612963	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10		8612963	50516020	79	12881											
CACNA1A	773	hgsc.bcm.edu	37	chr19	13366050	13366050	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtcagcggcttggcgctGatggcgaaatcaatgcaggc	8	7	16	10	4	2	1	2	1	0	0	2	2	2	1	0	5	2	3	0	5	2	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	13366050	G	T	13366050	2	4	243	1	0	0	0	0	0	0	0	1	2538	1280	45	4		4	CACNA1A	19	13366050	Silent	SNP	G	TCGA-BP-4352-01A-01D-1366-10	4753087	13366050	45762933	80	12882											
CACNA1A	773	hgsc.bcm.edu;ucsc.edu	37	chr19	13414666	13414666	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagacttgatcccgtcgtaCatgacctcgttccagtcttc	7	13	8	13	3	1	3	0	3	1	1	6	4	3	3	3	0	1	2	3	0	1	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	13414666	C	A	13414666	3	1	243	1	0	0	0	0	1	0	0	0	2538	478	17	4	5740	4	CACNA1A	19	13414666	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	48616	13414666	45714317	81	12883											
PODNL1	79883	hgsc.bcm.edu	37	chr19	14046562	14046562	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcttctccccaaaggtgaGggggaagatctccatcactt	9	9	11	12	1	3	2	1	1	2	1	5	3	3	3	3	4	0	1	3	4	2	2	rs151337979	alternate_allele	TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	14046562	G	C	14046562	3	2	243	1	0	0	0	0	1	0	0	0	12179	1000	35	4	1067	4	PODNL1	19	14046562	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	631896	14046562	45082421	82	12884											
ZNF781	163115	hgsc.bcm.edu;ucsc.edu	37	chr19	38160410	38160410	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgatgttgagtaagatgtGcactttgcctaaaagccttt	10	16	9	6	0	0	3	0	2	0	1	0	3	0	3	2	0	3	3	2	0	3	6	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	38160410	G	A	38160410	3	1	243	1	0	0	0	0	1	0	0	0	18153	1319	46	2	347	2	ZNF781	19	38160410	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	24113848	38160410	20968573	83	12885											
DIDO1	11083	hgsc.bcm.edu;ucsc.edu	37	chr20	61527636	61527636	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctgcgatatttactcttGtagcgattatctgtaacttg	9	17	8	7	2	2	0	0	0	2	0	2	2	2	0	0	0	5	3	0	0	5	8	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	61527636	G	A	61527636	2	1	243	1	0	0	0	0	0	0	0	1	4522	1372	48	2		2	DIDO1	20	61527636	Silent	SNP	G	TCGA-BP-4352-01A-01D-1366-10		61527636	1497884	84	12886											
NCAM2	4685	hgsc.bcm.edu;ucsc.edu	37	chr21	22652947	22652947	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtagagcttagtgttggAgaatctaaattcttcacatg	14	13	9	5	0	3	2	1	0	2	2	3	3	3	2	0	1	1	3	0	1	6	6	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	22652947	A	G	22652947	2	3	243	1	0	0	0	0	0	0	0	1	10203	291	11	3		3	NCAM2	21	22652947	Silent	SNP	A	TCGA-BP-4352-01A-01D-1366-10		22652947	25476948	85	12887											
IFNAR1	3454	hgsc.bcm.edu;ucsc.edu	37	chr21	34713364	34713364	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatattactagtaccaaatGcaacttttcttcactcaagc	14	13	4	10	0	3	0	2	0	1	0	3	1	3	0	1	0	5	2	1	0	8	7	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		A	34713364	G	A	34713364	3	1	243	1	0	0	0	0	1	0	0	0	7544	1319	46	2	270	2	IFNAR1	21	34713364	Missense_Mutation	SNP	G	TCGA-BP-4352-01A-01D-1366-10	12060417	34713364	13416531	86	12888											
ASMTL	8623	hgsc.bcm.edu	37	chrX	1537881	1537881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggccacccacctcccaCgtcgcaggcggaggagaagc	8	2	16	15	3	0	1	0	0	0	1	2	3	1	2	4	6	1	1	4	6	1	0	rs4503285	bycluster;byfrequency;by1000genomes	TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	1537881	C	T	1537881	3	4	243	1	0	0	0	0	1	0	0	0	1046	536	19	1	509	1	ASMTL	23	1537881	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10		1537881	153732679	87	12889											
HUWE1	10075	hgsc.bcm.edu;ucsc.edu	37	chrX	53585980	53585980	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgagaactttgcattcttCtgtccagcgggtcagggctg	7	12	12	10	2	3	1	1	0	2	1	5	2	4	1	1	2	3	2	1	2	1	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	53585980	C	T	53585980	3	4	243	1	0	0	0	0	1	0	0	0	7461	922	32	2	5275	2	HUWE1	23	53585980	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	52048099	53585980	101684580	88	12890											
ALAS2	212	hgsc.bcm.edu;ucsc.edu	37	chrX	55051164	55051164	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaacctgtcttgaaagcCttcacatcttcctggacttc	8	13	5	15	0	3	1	1	1	2	0	6	2	5	2	4	1	2	0	4	1	2	4	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		G	55051164	C	G	55051164	3	3	243	1	0	0	0	0	1	0	0	0	485	680	24	4	1508	4	ALAS2	23	55051164	Missense_Mutation	SNP	C	TCGA-BP-4352-01A-01D-1366-10	1465184	55051164	100219396	89	12891											
ABCB7	22	hgsc.bcm.edu;ucsc.edu	37	chrX	74290344	74290344	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccattactagatctccAacagtaagggtaccttaaaa	15	11	5	10	0	2	1	1	0	1	1	3	1	2	1	3	1	3	2	3	1	7	6	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	74290344	A	C	74290344	2	2	243	1	0	0	0	0	0	0	0	1	46	117	5	5		5	ABCB7	23	74290344	Silent	SNP	A	TCGA-BP-4352-01A-01D-1366-10	19239180	74290344	80980216	90	12892											
ZNF711	7552	hgsc.bcm.edu	37	chrX	84526278	84526278	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttggtgatgagagggagcTtcaacgccatctggatttgt	9	13	13	6	1	2	2	1	2	1	1	2	5	2	4	1	3	2	1	1	3	1	3	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		C	84526278	T	C	84526278	3	2	243	1	0	0	0	0	1	0	0	0	18115	1609	56	3	1756	3	ZNF711	23	84526278	Missense_Mutation	SNP	T	TCGA-BP-4352-01A-01D-1366-10	10235934	84526278	70744282	91	12893											
HCFC1	3054	hgsc.bcm.edu	37	chrX	153215992	153215992	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggtgagcaccatccggActctagaagccagggggtca	10	6	15	10	1	2	3	1	2	1	1	3	4	3	4	3	4	2	1	3	4	2	1	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	153215992	A	T	153215992	3	4	243	1	0	0	0	0	1	0	0	0	6991	272	10	5	413	5	HCFC1	23	153215992	Missense_Mutation	SNP	A	TCGA-BP-4352-01A-01D-1366-10	68689714	153215992	2054568	92	12894											
ATP6AP1	537	hgsc.bcm.edu	37	chrX	153662580	153662580	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgtagccgtggtggcCggagggctaggtcgccagct	5	8	18	10	4	0	1	0	1	0	0	1	2	0	2	3	5	2	3	3	5	2	2	novel		TCGA-BP-4352-01A-01D-1366-10	TCGA-BP-4352-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b976a492-5792-42d3-bec3-5bbb7292cac5	9461b657-9b8f-4cf6-a0eb-27cb3ae9923a		T	153662580	C	T	153662580	2	4	243	1	0	0	0	0	0	0	0	1	1165	639	23	1		1	ATP6AP1	23	153662580	Silent	SNP	C	TCGA-BP-4352-01A-01D-1366-10	446588	153662580	1607980	93	12895											
PLA2G2C	391013	hgsc.bcm.edu;ucsc.edu	37	chr1	20499305	20499305	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaccactgcgccattgaCgatgtggaactggtagctgt	11	9	11	10	2	0	1	0	1	0	0	0	3	0	2	2	2	4	2	2	2	3	2	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	20499305	C	T	20499305	3	4	244	1	0	0	0	0	1	0	0	0	11996	536	19	1	192	1	PLA2G2C	1	20499305	Missense_Mutation	SNP	C	TCGA-BP-4354-01A-02D-1366-10		20499305	228751316	1	12896											
SPTA1	6708	hgsc.bcm.edu;ucsc.edu	37	chr1	158621257	158621257	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctcattggtattcaaaTcctgaatgggaaaattcatc	13	12	9	7	0	3	1	3	1	0	0	5	3	4	2	1	3	0	2	1	3	5	4	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		G	158621257	T	G	158621257	3	3	244	1	0	0	0	0	1	0	0	0	15117	1449	50	5	3998	5	SPTA1	1	158621257	Missense_Mutation	SNP	T	TCGA-BP-4354-01A-02D-1366-10	138121952	158621257	90629364	2	12897											
PRSS38	339501	hgsc.bcm.edu;ucsc.edu	37	chr1	228033871	228033871	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggggcccactctcagcGtcctaatggccatgctggct	5	10	11	15	1	2	0	1	0	2	0	4	0	3	0	3	4	2	2	3	4	1	1	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	228033871	G	A	228033871	3	1	244	1	0	0	0	0	1	0	0	0	12629	1145	40	1	961	1	PRSS38	1	228033871	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10	69412614	228033871	21216750	3	12898											
NID1	4811	hgsc.bcm.edu	37	chr1	236143954	236143954	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctgtccagtaaaggttcCtggaggaggaaaaagggggg	12	7	17	5	0	1	0	0	0	1	0	3	3	3	3	2	7	0	2	2	7	4	2	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	236143954	C	T	236143954	5	4	244	1	0	0	0	0	0	0	1	0	10414	695	24	2	532	2	NID1	1	236143954	Splice_Site	SNP	C	TCGA-BP-4354-01A-02D-1366-10	8110083	236143954	13106667	4	12899											
TNS1	7145	hgsc.bcm.edu	37	chr2	218683139	218683139	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctgggggcagccatgctggGattgatggcccgccagccga	6	6	17	12	2	0	1	0	1	0	0	0	3	0	2	4	4	3	3	4	4	0	1	rs34291329	bycluster;byfrequency;by1000genomes	TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	218683139	G	A	218683139	3	1	244	1	0	0	0	0	1	0	0	0	16342	1174	41	2	1643	2	TNS1	2	218683139	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10		218683139	24516234	5	12900											
CDCP1	64866	hgsc.bcm.edu	37	chr3	45127493	45127493	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaacttttttggctgcctCggcatctcagtattgatgtt	7	17	9	8	1	1	2	1	2	1	0	3	2	1	2	1	2	2	4	1	2	2	6	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	45127493	C	T	45127493	2	4	244	1	0	0	0	0	0	0	0	1	3093	871	31	1		1	CDCP1	3	45127493	Silent	SNP	C	TCGA-BP-4354-01A-02D-1366-10		45127493	152894937	6	12901											
LTF	4057	hgsc.bcm.edu	37	chr3	46480866	46480866	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgattcggggccatggcaAgatggcagcttctagcctca	9	9	12	11	1	2	2	1	1	1	1	3	2	2	2	2	4	2	3	2	4	2	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	46480866	A	T	46480866	3	4	244	1	0	0	0	0	1	0	0	0	9079	72	3	5	315	5	LTF	3	46480866	Missense_Mutation	SNP	A	TCGA-BP-4354-01A-02D-1366-10	1353373	46480866	151541564	7	12902											
CWH43	80157	hgsc.bcm.edu;ucsc.edu	37	chr4	49005842	49005842	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctttactgcatccatgtGgccccaaacacttggacacc	10	10	6	15	0	1	0	0	0	1	0	2	1	2	1	4	2	3	1	4	2	2	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	49005842	G	T	49005842	3	4	244	1	0	0	0	0	1	0	0	0	4073	1357	47	4	919	4	CWH43	4	49005842	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10		49005842	142148434	8	12903											
GRIA2	2891	hgsc.bcm.edu;ucsc.edu	37	chr4	158254482	158254482	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacaattaacatcatggagCtcaaaactaatgggccccgg	15	8	8	10	1	2	0	2	0	0	0	2	1	2	1	2	3	4	1	2	3	6	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	158254482	C	A	158254482	3	1	244	1	0	0	0	0	1	0	0	0	6768	797	28	4	1162	4	GRIA2	4	158254482	Missense_Mutation	SNP	C	TCGA-BP-4354-01A-02D-1366-10	109248640	158254482	32899794	9	12904											
APC	324	hgsc.bcm.edu	37	chr5	112177788	112177788	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagtaataaaggcccacGaattctaaaaccaggggaga	18	6	9	8	1	1	1	0	0	1	1	1	3	1	1	2	3	2	1	2	3	8	5	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	112177788	G	T	112177788	3	4	244	1	0	0	0	0	1	0	0	0	763	1058	37	4	6555	4	APC	5	112177788	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10		112177788	68737472	10	12905											
EGFR	1956	hgsc.bcm.edu	37	chr7	55259455	55259455	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttggtgcaccgcgaccTggcagccaggaacgtactgg	7	7	14	13	4	0	0	0	0	0	0	1	2	0	1	3	4	4	4	3	4	2	2	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		C	55259455	T	C	55259455	3	2	244	1	0	0	0	0	1	0	0	0	4967	1580	55	3	2859	3	EGFR	7	55259455	Missense_Mutation	SNP	T	TCGA-BP-4354-01A-02D-1366-10		55259455	103879208	11	12906											
RP1	6101	hgsc.bcm.edu	37	chr8	55540233	55540233	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgtgagatgtgcactgTaaataaggcttattctccaa	12	13	8	8	0	1	1	0	1	1	1	3	2	2	1	2	1	1	3	2	1	5	4	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		C	55540233	T	C	55540233	3	2	244	1	0	0	0	0	1	0	0	0	13534	1638	57	3	3801	3	RP1	8	55540233	Missense_Mutation	SNP	T	TCGA-BP-4354-01A-02D-1366-10		55540233	90823789	12	12907											
CPSF1	29894	hgsc.bcm.edu	37	chr8	145623779	145623779	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaagaccgtggggccctGagtggcgaagccactggtgt	9	6	16	10	2	0	2	0	1	0	1	0	3	0	2	3	4	2	1	3	4	2	0	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	145623779	G	T	145623779	3	4	244	1	0	0	0	0	1	0	0	0	3824	1299	45	4	2604	4	CPSF1	8	145623779	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10	90083546	145623779	740243	13	12908											
FBXO10	26267	hgsc.bcm.edu	37	chr9	37537374	37537374	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagaaatgagccccccaaTacagggcgtgggccctgcac	10	4	11	16	1	0	2	0	1	0	1	0	2	0	2	5	2	3	1	5	2	3	1	rs186419638	by1000genomes	TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	37537374	T	A	37537374	2	1	244	1	0	0	0	0	0	0	0	1	5726	1393	49	5		5	FBXO10	9	37537374	Silent	SNP	T	TCGA-BP-4354-01A-02D-1366-10		37537374	103676057	14	12909											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6567893	6567893	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctagctgccattgaggaGgctgccctactgcgctcacc	7	8	11	15	1	1	1	1	1	0	0	1	2	1	2	4	2	6	3	4	2	2	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		C	6567893	G	C	6567893	3	2	244	1	0	0	0	0	1	0	0	0	4668	991	35	4	5807	4	DNHD1	11	6567893	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10		6567893	128438623	15	12910											
ST3GAL4	6484	hgsc.bcm.edu;ucsc.edu	37	chr11	126283465	126283465	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgacttggtgcacattgcCggctttggctacccagacgc	6	11	12	12	2	0	2	0	1	0	1	0	2	0	2	2	3	3	3	2	3	1	4	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	126283465	C	T	126283465	2	4	244	1	0	0	0	0	0	0	0	1	15218	639	23	1		1	ST3GAL4	11	126283465	Silent	SNP	C	TCGA-BP-4354-01A-02D-1366-10	119715572	126283465	8723051	16	12911											
ETNK1	55500	hgsc.bcm.edu;ucsc.edu	37	chr12	22826447	22826447	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctaaaggtgtgagtgatgtAgactatagtctgtatccaga	12	13	11	5	0	2	4	0	2	2	2	3	4	3	4	1	1	0	2	1	1	6	5	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		G	22826447	A	G	22826447	2	3	244	1	0	0	0	0	0	0	0	1	5273	407	15	3		3	ETNK1	12	22826447	Silent	SNP	A	TCGA-BP-4354-01A-02D-1366-10		22826447	111025448	17	12912											
ADAMTS20	80070	hgsc.bcm.edu;ucsc.edu	37	chr12	43777460	43777460	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattatagactatttcattCacttgtctgatttggttatc	10	19	6	6	0	3	2	2	1	1	1	4	3	3	2	0	1	0	1	0	1	5	8	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	43777460	C	A	43777460	2	1	244	1	0	0	0	0	0	0	0	1	266	813	29	4		4	ADAMTS20	12	43777460	Silent	SNP	C	TCGA-BP-4354-01A-02D-1366-10	20951013	43777460	90074435	18	12913											
SHMT2	6472	hgsc.bcm.edu	37	chr12	57627119	57627119	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attgctgcagtagctgtggcCctaaagcaggttggggatcc	8	10	14	9	0	0	0	0	0	0	0	1	1	1	1	2	4	4	6	2	4	3	4	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	57627119	C	A	57627119	2	1	244	1	0	0	0	0	0	0	0	1	14288	610	22	4		4	SHMT2	12	57627119	Silent	SNP	C	TCGA-BP-4354-01A-02D-1366-10	13849659	57627119	76224776	19	12914											
HCFC2	29915	hgsc.bcm.edu;ucsc.edu	37	chr12	104461864	104461864	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcaaacgaaagcgaagAttcaaacaataatgttccca	17	7	7	10	2	1	1	1	0	0	1	2	3	2	1	2	1	3	2	2	1	6	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		C	104461864	A	C	104461864	3	2	244	1	0	0	0	0	1	0	0	0	6993	333	12	5	462	5	HCFC2	12	104461864	Missense_Mutation	SNP	A	TCGA-BP-4354-01A-02D-1366-10	46834745	104461864	29390031	20	12915											
SLC10A2	6555	hgsc.bcm.edu	37	chr13	103718249	103718249	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatgtcgccatcgacccaAtaggccaagatattggaggc	11	8	10	12	2	0	1	0	0	0	1	3	3	1	2	4	3	0	0	4	3	4	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	103718249	A	T	103718249	4	4	244	1	0	0	0	0	0	1	0	0	14376	108	4	5	719	5	SLC10A2	13	103718249	Nonsense_Mutation	SNP	A	TCGA-BP-4354-01A-02D-1366-10		103718249	11451629	21	12916											
TGM1	7051	hgsc.bcm.edu	37	chr14	24729679	24729679	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaggggttgaagaggAtgtagatctcattgcggggg	9	8	18	6	1	1	3	1	1	1	2	2	4	1	4	1	6	1	3	1	6	2	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		G	24729679	A	G	24729679	3	3	244	1	0	0	0	0	1	0	0	0	15828	333	12	3	1767	3	TGM1	14	24729679	Missense_Mutation	SNP	A	TCGA-BP-4354-01A-02D-1366-10		24729679	82619861	22	12917											
HERC1	8925	hgsc.bcm.edu;ucsc.edu	37	chr15	64005710	64005710	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcagcagtgtacacatcCtgaccctcaggaaggtctgt	10	9	10	12	0	2	1	1	1	1	0	3	2	3	2	2	2	3	3	2	2	2	1	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	64005710	C	T	64005710	2	4	244	1	0	0	0	0	0	0	0	1	7057	680	24	2		2	HERC1	15	64005710	Silent	SNP	C	TCGA-BP-4354-01A-02D-1366-10		64005710	38525682	23	12918											
CASKIN1	57524	hgsc.bcm.edu	37	chr16	2236740	2236740	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caatggcctcgcccagggagGacgggaagtagcccacccgg	9	3	15	14	3	0	0	0	0	0	0	1	3	0	3	4	5	1	1	4	5	3	1	rs141907746		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	2236740	G	A	2236740	3	1	244	1	0	0	0	0	1	0	0	0	2666	1174	41	2	3323	2	CASKIN1	16	2236740	Missense_Mutation	SNP	G	TCGA-BP-4354-01A-02D-1366-10		2236740	88118013	24	12919											
BCAS3	54828	hgsc.bcm.edu;ucsc.edu	37	chr17	58952032	58952032	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaattttaggatccttgtCgtagtcttgcaggagaaaat	11	15	9	6	1	2	1	0	0	2	1	4	3	3	2	1	2	1	2	1	2	5	6	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	58952032	C	A	58952032	2	1	244	1	0	0	0	0	0	0	0	1	1352	871	31	4		4	BCAS3	17	58952032	Silent	SNP	C	TCGA-BP-4354-01A-02D-1366-10		58952032	22243178	25	12920											
MUC16	94025	hgsc.bcm.edu	37	chr19	9085330	9085330	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcgggttagcagtactcTcagatgtaaggccagaaaca	14	8	10	9	1	1	2	1	0	1	2	3	2	1	2	1	2	4	4	1	2	5	3	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		C	9085330	T	C	9085330	3	2	244	1	0	0	0	0	1	0	0	0	9973	1551	54	3	37374	3	MUC16	19	9085330	Missense_Mutation	SNP	T	TCGA-BP-4354-01A-02D-1366-10		9085330	50043653	26	12921											
SYT5	6861	hgsc.bcm.edu	37	chr19	55690359	55690359	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctgatgcgactggagtcGggaggcgtgtcgggcgatgg	5	8	21	7	5	0	1	0	1	0	0	2	5	0	3	0	6	1	1	0	6	0	0	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	55690359	G	A	55690359	2	1	244	1	0	0	0	0	0	0	0	1	15476	1103	39	1		1	SYT5	19	55690359	Silent	SNP	G	TCGA-BP-4354-01A-02D-1366-10	46605029	55690359	3438624	27	12922											
LAMA5	3911	hgsc.bcm.edu	37	chr20	60906109	60906109	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggggccaaaggcgccgTggctgctgatgcagctgacc	6	8	16	11	2	0	2	0	2	0	0	0	2	0	2	3	4	3	5	3	4	1	1	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		C	60906109	T	C	60906109	3	2	244	1	0	0	0	0	1	0	0	0	8609	1696	59	3	7666	3	LAMA5	20	60906109	Missense_Mutation	SNP	T	TCGA-BP-4354-01A-02D-1366-10		60906109	2119411	28	12923											
USP18	11274	hgsc.bcm.edu	37	chr22	18640560	18640560	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagagagcagcccagagagCgtcccagggcctgggactac	11	3	15	12	1	0	3	0	0	0	3	1	6	1	4	3	2	4	1	3	2	1	1	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	18640560	C	A	18640560	3	1	244	1	0	0	0	0	1	0	0	0	17048	768	27	4	132	4	USP18	22	18640560	Missense_Mutation	SNP	C	TCGA-BP-4354-01A-02D-1366-10		18640560	32664006	29	12924											
NRK	203447	hgsc.bcm.edu;ucsc.edu	37	chrX	105197102	105197102	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttgcaatccagggttctGgaaagtgagctgaagcgcag	10	10	13	8	1	2	2	0	2	2	0	3	3	3	3	1	2	3	4	1	2	3	2	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		A	105197102	G	A	105197102	2	1	244	1	0	0	0	0	0	0	0	1	10655	1335	47	2		2	NRK	23	105197102	Silent	SNP	G	TCGA-BP-4354-01A-02D-1366-10		105197102	50073458	30	12925											
GABRQ	55879	hgsc.bcm.edu;ucsc.edu	37	chrX	151808916	151808916	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgatgtccgcctgagacCgaattttggaggtaaggcat	11	10	12	8	3	0	1	0	1	0	1	1	5	1	2	3	3	1	2	3	3	3	4	novel		TCGA-BP-4354-01A-02D-1366-10	TCGA-BP-4354-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	48897095-d6f8-481a-9dfb-b1d1e6b4c723	ee2d7355-8f21-4626-9979-9dcf6d03a88e		T	151808916	C	T	151808916	3	4	244	1	0	0	0	0	1	0	0	0	6175	652	23	1	233	1	GABRQ	23	151808916	Missense_Mutation	SNP	C	TCGA-BP-4354-01A-02D-1366-10	46611814	151808916	3461644	31	12926											
HSPG2	3339	hgsc.bcm.edu	37	chr1	22191827	22191827	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcagggccctgcagcgctGgctgggaggccactagcatg	6	7	15	13	1	1	0	1	0	1	0	2	1	1	1	2	4	3	4	2	4	1	1	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		C	22191827	G	C	22191827	3	2	245	1	0	0	0	0	1	0	0	0	7430	1348	47	4	9081	4	HSPG2	1	22191827	Missense_Mutation	SNP	G	TCGA-BP-4355-01A-01D-1366-10		22191827	227058794	1	12927											
CD1D	912	hgsc.bcm.edu	37	chr1	158151840	158151840	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcccttggagctccaggTgtccgctggctgtgaggtgc	5	10	15	11	1	0	2	0	1	0	1	3	3	3	3	3	4	2	3	3	4	0	1	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		C	158151840	T	C	158151840	3	2	245	1	0	0	0	0	1	0	0	0	2977	1696	59	3	357	3	CD1D	1	158151840	Missense_Mutation	SNP	T	TCGA-BP-4355-01A-01D-1366-10	135960013	158151840	91098781	2	12928											
LGTN	100529141	hgsc.bcm.edu;ucsc.edu	37	chr1	206776436	206776436	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttccccctccagggtcAtgtgcctcatgtctccctgc	3	12	7	19	0	4	0	2	0	2	0	7	0	6	0	6	1	2	0	6	1	0	1	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		G	206776436	A	G	206776436	3	3	245	1	0	0	0	0	1	0	0	0	8760	217	8	3	1141	3	LGTN	1	206776436	Missense_Mutation	SNP	A	TCGA-BP-4355-01A-01D-1366-10	48624596	206776436	42474185	3	12929											
KCNS3	3790	hgsc.bcm.edu	37	chr2	18113407	18113407	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggctatggagacacccacCcggtcaccttggcgggaaag	9	6	14	12	2	1	1	1	0	0	1	1	3	1	2	3	5	0	1	3	5	2	2	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		T	18113407	C	T	18113407	3	4	245	1	0	0	0	0	1	0	0	0	8090	623	22	2	1134	2	KCNS3	2	18113407	Missense_Mutation	SNP	C	TCGA-BP-4355-01A-01D-1366-10		18113407	225085966	4	12930											
IKZF2	22807	hgsc.bcm.edu;ucsc.edu	37	chr2	213872194	213872194	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcccggtagccatggcaacCcatgtgaatggtgtacatga	10	9	12	10	1	0	2	0	2	0	0	1	2	1	2	3	3	3	3	3	3	4	2	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		A	213872194	C	A	213872194	3	1	245	1	0	0	0	0	1	0	0	0	7615	623	22	4	113	4	IKZF2	2	213872194	Missense_Mutation	SNP	C	TCGA-BP-4355-01A-01D-1366-10	195758787	213872194	29327179	5	12931											
VHL	7428	hgsc.bcm.edu	37	chr3	10188244	10188244	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggacacacgatgggcttctGgttaaccaaactgaattatt	12	11	10	8	1	1	1	0	1	1	0	1	3	1	2	1	3	2	2	1	3	4	4	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		T	10188244	G	T	10188244	2	4	245	1	0	0	0	0	0	0	0	1	17161	1335	47	4		4	VHL	3	10188244	Silent	SNP	G	TCGA-BP-4355-01A-01D-1366-10		10188244	187834186	6	12932											
BAP1	8314	hgsc.bcm.edu	37	chr3	52442585	52442585	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgccgggaccggcgctcttCgatccatttgaacaggaaga	9	8	12	12	5	1	2	0	1	1	1	4	5	2	4	3	3	1	1	3	3	2	2	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		T	52442585	C	T	52442585	3	4	245	1	0	0	0	0	1	0	0	0	1311	893	31	1	2085	1	BAP1	3	52442585	Missense_Mutation	SNP	C	TCGA-BP-4355-01A-01D-1366-10	42254341	52442585	145579845	7	12933											
KIT	3815	hgsc.bcm.edu	37	chr4	55593631	55593631	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgaggagataaatggaaAcaattatgtttacatagacc	16	12	9	4	0	0	3	0	1	0	2	0	5	0	4	1	2	2	2	1	2	7	6	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		G	55593631	A	G	55593631	3	3	245	1	0	0	0	0	1	0	0	0	8329	43	2	3	1739	3	KIT	4	55593631	Missense_Mutation	SNP	A	TCGA-BP-4355-01A-01D-1366-10		55593631	135560645	8	12934											
TSPAN17	26262	hgsc.bcm.edu	37	chr5	176083768	176083768	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgagaagtggctgcaggAcaacctgattgtggtggcgg	8	10	17	6	1	0	2	0	2	0	1	0	4	0	3	1	5	2	3	1	5	2	2	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		G	176083768	A	G	176083768	3	3	245	1	0	0	0	0	1	0	0	0	16640	275	10	3	733	3	TSPAN17	5	176083768	Missense_Mutation	SNP	A	TCGA-BP-4355-01A-01D-1366-10		176083768	4831492	9	12935											
NDRG1	10397	hgsc.bcm.edu;ucsc.edu	37	chr8	134296522	134296522	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccaaaggcttcacctcAgcgaggtctacatcctgcat	10	9	7	15	1	3	0	2	0	1	0	5	1	5	0	4	2	3	2	4	2	2	2	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		T	134296522	A	T	134296522	2	4	245	1	0	0	0	0	0	0	0	1	10251	175	7	5		5	NDRG1	8	134296522	Silent	SNP	A	TCGA-BP-4355-01A-01D-1366-10		134296522	12067500	10	12936											
IFNA1	3439	hgsc.bcm.edu	37	chr9	21440579	21440579	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagctgctctctgggctgtGatctccctgagacccacagc	7	9	10	15	0	2	2	0	2	2	1	4	3	2	2	2	1	3	3	2	1	1	0	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		A	21440579	G	A	21440579	3	1	245	1	0	0	0	0	1	0	0	0	7531	1290	45	2	75	2	IFNA1	9	21440579	Missense_Mutation	SNP	G	TCGA-BP-4355-01A-01D-1366-10		21440579	119772852	11	12937											
ERBB3	2065	hgsc.bcm.edu;ucsc.edu	37	chr12	56477580	56477580	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgtgaccggcgatgctgAgaaccaataccagacactgt	12	7	12	10	2	0	3	0	2	0	2	0	6	0	3	3	1	3	1	3	1	3	1	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		G	56477580	A	G	56477580	3	3	245	1	0	0	0	0	1	0	0	0	5208	304	11	3	134	3	ERBB3	12	56477580	Missense_Mutation	SNP	A	TCGA-BP-4355-01A-01D-1366-10		56477580	77374315	12	12938											
FARP1	10160	hgsc.bcm.edu;ucsc.edu	37	chr13	98896767	98896767	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtcctcatcctccttccTcaaagccaccggctcctcct	5	11	6	19	1	2	0	2	0	0	0	8	0	8	0	8	2	1	1	8	2	1	1	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		A	98896767	T	A	98896767	3	1	245	1	0	0	0	0	1	0	0	0	5676	1551	54	5	200	5	FARP1	13	98896767	Missense_Mutation	SNP	T	TCGA-BP-4355-01A-01D-1366-10		98896767	16273111	13	12939											
CDH4	1002	hgsc.bcm.edu	37	chr20	60419771	60419771	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatccggtacagcatcacGggagtgggcgccgaccagcc	8	4	13	16	4	1	0	1	0	0	0	2	2	2	1	5	3	3	2	5	3	1	1	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		T	60419771	G	T	60419771	2	4	245	1	0	0	0	0	0	0	0	1	3112	1103	39	4		4	CDH4	20	60419771	Silent	SNP	G	TCGA-BP-4355-01A-01D-1366-10		60419771	2605749	14	12940											
MX2	4600	hgsc.bcm.edu;ucsc.edu	37	chr21	42771182	42771182	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaaggagaagaagttgtaagGgagaatgagacccgtttata	16	8	14	3	1	0	4	0	1	0	4	0	8	0	4	1	2	0	3	1	2	7	5	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		A	42771182	G	A	42771182	2	1	245	1	0	0	0	0	0	0	0	1	9998	1223	43	2		2	MX2	21	42771182	Silent	SNP	G	TCGA-BP-4355-01A-01D-1366-10		42771182	5358713	15	12941											
L1CAM	3897	hgsc.bcm.edu	37	chrX	153131183	153131183	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatccgcggaggtggcccttGacctgggccaggtccaccgg	5	7	15	14	3	0	1	0	1	0	0	2	2	2	2	6	6	0	0	6	6	1	2	novel		TCGA-BP-4355-01A-01D-1366-10	TCGA-BP-4355-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2661143d-1dbb-441d-aaae-a985fab1f7b3	55d14726-2b71-4df9-900b-01d973e2c054		A	153131183	G	A	153131183	2	1	245	1	0	0	0	0	0	0	0	1	8588	1277	45	2		2	L1CAM	23	153131183	Silent	SNP	G	TCGA-BP-4355-01A-01D-1366-10		153131183	2139377	16	12942											
VHL	7428	hgsc.bcm.edu	37	chr3	10183748	10183748	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactcgcgcgagccctccCaggtcatcttctgcaatcgc	7	9	9	16	4	3	1	1	1	2	0	6	2	4	1	2	1	3	1	2	1	2	1	novel		TCGA-BP-4355-01A-01W-1362-10	TCGA-BP-4355-11A-01W-1363-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	e183f6ca-cc02-42ce-85ba-cad6e78f9f40	9d979529-ef8a-4af7-839e-ae8e4dca629f		T	10183748	C	T	10183748	4	4	246	1	0	0	0	0	0	1	0	0	17161	595	21	2	219	2	VHL	3	10183748	Nonsense_Mutation	SNP	C	TCGA-BP-4355-01A-01W-1362-10		10183748	187838682	1	12943											
ST6GALNAC3	256435	hgsc.bcm.edu;ucsc.edu	37	chr1	77094396	77094396	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgaacatgccccatatGggggtcataggtttatcact	10	13	9	9	0	3	1	3	1	0	0	3	1	3	1	2	3	2	1	2	3	4	5	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	77094396	G	A	77094396	3	1	247	1	0	0	0	0	1	0	0	0	15226	1348	47	2	855	2	ST6GALNAC3	1	77094396	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10		77094396	172156225	1	12944											
AGL	178	hgsc.bcm.edu;ucsc.edu	37	chr1	100343224	100343225	+	Frame_Shift_Ins	INS	-	-	TA																															gtttacctaaggagagaactINStatttgctggggagacagtg																								novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		TA	100343225	-	TA	100343224	7	5	247	1	0	1	1	0	0	0	0	0	384	1609	56	0	1562	0	AGL	1	100343224	Frame_Shift_Ins	INS	-	TCGA-BP-4756-01A-01D-1366-10	23248828	100343224	148907397	2	12945											
MAGI3	260425	hgsc.bcm.edu;ucsc.edu	37	chr1	114157263	114157263	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatagaggaccctcagtaTgggacatactatgttgagta	15	10	10	6	0	1	2	1	1	0	1	1	4	1	4	1	2	1	3	1	2	7	6	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	114157263	T	A	114157263	4	1	247	1	0	0	0	0	0	1	0	0	9192	1471	51	5	1085	5	MAGI3	1	114157263	Nonsense_Mutation	SNP	T	TCGA-BP-4756-01A-01D-1366-10	13814039	114157263	135093358	3	12946											
CACNA1S	779	hgsc.bcm.edu	37	chr1	201058500	201058500	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgggccctggccagccgccCcggcactcactgccattgat	5	8	11	17	2	1	1	1	1	0	0	1	1	1	1	6	3	2	1	6	3	0	2	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	201058500	C	A	201058500	2	1	247	1	0	0	0	0	0	0	0	1	2547	610	22	4		4	CACNA1S	1	201058500	Silent	SNP	C	TCGA-BP-4756-01A-01D-1366-10	86901237	201058500	48192121	4	12947											
IFT172	26160	hgsc.bcm.edu;ucsc.edu	37	chr2	27671791	27671791	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggctggtacctgtgggttAgcaggggctccgtgctgtac	6	10	16	9	1	0	0	0	0	0	0	1	0	1	0	2	5	4	7	2	5	4	3	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	27671791	A	G	27671791	2	3	247	1	0	0	0	0	0	0	0	1	7557	407	15	3		3	IFT172	2	27671791	Silent	SNP	A	TCGA-BP-4756-01A-01D-1366-10		27671791	215527582	5	12948											
OXER1	165140	hgsc.bcm.edu;ucsc.edu	37	chr2	42991163	42991163	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagggagaacagaggaggAgagagagggagatggagagc	15	1	23	2	0	0	6	0	0	0	6	0	13	0	8	0	6	2	0	0	6	1	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	42991163	A	G	42991163	3	3	247	1	0	0	0	0	1	0	0	0	11331	304	11	3	1118	3	OXER1	2	42991163	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10	15319372	42991163	200208210	6	12949											
EHBP1	23301	hgsc.bcm.edu;ucsc.edu	37	chr2	63175596	63175596	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttggaaactatgaaacaGatacaaacagttctgttgat	17	11	8	5	0	1	3	0	2	1	1	1	4	1	4	0	1	4	3	0	1	6	5	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	63175596	G	A	63175596	3	1	247	1	0	0	0	0	1	0	0	0	4975	942	33	2	1770	2	EHBP1	2	63175596	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	20184433	63175596	180023777	7	12950											
CCBP2	1238	hgsc.bcm.edu;ucsc.edu	37	chr3	42906057	42906057	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgattctgagaatagcagCttctattactatgactacct	11	13	7	10	1	2	2	0	2	2	1	2	4	2	2	2	0	4	2	2	0	6	7	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	42906057	C	G	42906057	3	3	247	1	0	0	0	0	1	0	0	0	2734	796	28	4	65	4	CCBP2	3	42906057	Missense_Mutation	SNP	C	TCGA-BP-4756-01A-01D-1366-10		42906057	155116373	8	12951											
C3orf75	0	hgsc.bcm.edu;ucsc.edu	37	chr3	47551730	47551730	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgagtgccacaaagcAgactttacaattagctagaa	15	9	9	8	0	0	3	0	1	0	2	0	4	0	4	1	1	4	2	1	1	6	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	47551730	A	G	47551730	3	3	247	1	0	0	0	0	1	0	0	0	2245	188	7	3	672	3	C3orf75	3	47551730	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10	4645673	47551730	150470700	9	12952											
USP4	7375	hgsc.bcm.edu;ucsc.edu	37	chr3	49321434	49321434	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccacctgattgggaattcTacgactgtgtcgagcttatc	9	12	9	11	2	1	1	0	1	1	0	3	4	1	2	2	1	2	1	2	1	3	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	49321434	T	A	49321434	2	1	247	1	0	0	0	0	0	0	0	1	17070	1509	53	5		5	USP4	3	49321434	Silent	SNP	T	TCGA-BP-4756-01A-01D-1366-10	1769704	49321434	148700996	10	12953											
ACOX2	8309	hgsc.bcm.edu	37	chr3	58512375	58512375	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcatgcccgtgctcagTgcgtggagctgtgagaacat	7	10	13	11	2	2	1	2	1	0	1	2	3	2	2	2	1	5	2	2	1	1	1	rs1127743	bycluster;byfrequency;by1000genomes	TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	58512375	T	C	58512375	2	2	247	1	0	0	0	0	0	0	0	1	159	1683	59	3		3	ACOX2	3	58512375	Silent	SNP	T	TCGA-BP-4756-01A-01D-1366-10	9190941	58512375	139510055	11	12954											
GOLGB1	2804	hgsc.bcm.edu;ucsc.edu	37	chr3	121415214	121415214	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagatgttctaggccagcaaTttgtagttggctgctttcca	8	15	10	8	0	1	1	0	0	1	1	2	1	2	1	2	2	2	6	2	2	4	7	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	121415214	T	A	121415214	3	1	247	1	0	0	0	0	1	0	0	0	6565	1493	52	5	5678	5	GOLGB1	3	121415214	Missense_Mutation	SNP	T	TCGA-BP-4756-01A-01D-1366-10	62902839	121415214	76607216	12	12955											
NFXL1	152518	hgsc.bcm.edu;ucsc.edu	37	chr4	47892656	47892656	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagacagatggacacttaTggtttctacatcctaaagtc	13	11	8	9	0	1	2	0	0	1	2	3	4	2	3	1	2	1	1	1	2	4	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	47892656	T	G	47892656	3	3	247	1	0	0	0	0	1	0	0	0	10388	1464	51	5	1266	5	NFXL1	4	47892656	Missense_Mutation	SNP	T	TCGA-BP-4756-01A-01D-1366-10		47892656	143261620	13	12956											
EDNRA	1909	hgsc.bcm.edu;ucsc.edu	37	chr4	148463689	148463689	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacctcggtccccatgaaCggaacaagcatccagtggaa	13	6	10	12	2	0	2	0	2	0	0	3	4	2	4	4	3	3	1	4	3	4	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	148463689	C	T	148463689	2	4	247	1	0	0	0	0	0	0	0	1	4919	535	19	1		1	EDNRA	4	148463689	Silent	SNP	C	TCGA-BP-4756-01A-01D-1366-10	100571033	148463689	42690587	14	12957											
SLC35A4	113829	hgsc.bcm.edu	37	chr5	139946945	139946946	+	Frame_Shift_Ins	INS	-	-	A																															gagctgaccaagctactgttINSatgcgccttctcccttctgg																								novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	139946946	-	A	139946945	7	5	247	1	0	1	1	0	0	0	0	0	14575	1764	61	0	193	0	SLC35A4	5	139946945	Frame_Shift_Ins	INS	-	TCGA-BP-4756-01A-01D-1366-10		139946945	40968315	15	12958											
AKR1B1	231	hgsc.bcm.edu	37	chr7	134136494	134136494	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcacggcctcagtcacctgCcctggaggggactgaaagga	9	7	13	12	1	3	1	3	1	0	0	3	4	3	4	3	5	1	0	3	5	1	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	134136494	C	A	134136494	2	1	247	1	0	0	0	0	0	0	0	1	466	726	26	4		4	AKR1B1	7	134136494	Silent	SNP	C	TCGA-BP-4756-01A-01D-1366-10		134136494	25002169	16	12959											
SLC37A3	84255	hgsc.bcm.edu;ucsc.edu	37	chr7	140035229	140035229	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcactccctcaatatgtGagcctgtctccttagcacga	8	11	8	14	2	3	1	2	1	1	0	5	2	4	1	3	1	2	1	3	1	3	2	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	140035229	G	T	140035229	4	4	247	1	0	0	0	0	0	1	0	0	14601	1294	45	4	169	4	SLC37A3	7	140035229	Nonsense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	5898735	140035229	19103434	17	12960											
MLL3	58508	hgsc.bcm.edu;ucsc.edu	37	chr7	151882665	151882665	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatggtgctctttcttgtGagcttgcttttctccacaat	6	18	7	10	0	3	1	0	1	3	0	4	1	3	1	1	1	3	3	1	1	2	6	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	151882665	G	T	151882665	4	4	247	1	0	0	0	0	0	1	0	0	9622	1294	45	4	9779	4	MLL3	7	151882665	Nonsense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	11847436	151882665	7255998	18	12961											
TG	7038	hgsc.bcm.edu	37	chr8	133941401	133941401	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggctgtcagatccaaagttCctgattctgagttccccgtg	7	13	10	11	1	2	3	1	2	1	1	5	3	5	3	4	1	0	3	4	1	1	3	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	133941401	C	T	133941401	3	4	247	1	0	0	0	0	1	0	0	0	15812	855	30	2	4870	2	TG	8	133941401	Missense_Mutation	SNP	C	TCGA-BP-4756-01A-01D-1366-10		133941401	12422621	19	12962											
SECISBP2	79048	hgsc.bcm.edu	37	chr9	91964776	91964776	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagagctccagagggaCacagaggcctcccaccttgc	10	4	12	15	0	0	3	0	0	0	3	2	4	2	4	4	3	2	2	4	3	0	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	91964776	C	G	91964776	3	3	247	1	0	0	0	0	1	0	0	0	14008	477	17	4	1874	4	SECISBP2	9	91964776	Missense_Mutation	SNP	C	TCGA-BP-4756-01A-01D-1366-10		91964776	49248655	20	12963											
DPM2	8818	hgsc.bcm.edu;ucsc.edu	37	chr9	130698858	130698858	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggagcagcaggaggcctGcagccagtgggatggcgaca	11	3	17	10	1	0	0	0	0	0	0	0	4	0	3	2	5	4	3	2	5	0	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	130698858	G	A	130698858	3	1	247	1	0	0	0	0	1	0	0	0	4725	1319	46	2	92	2	DPM2	9	130698858	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	38734082	130698858	10514573	21	12964											
MYST4	0	hgsc.bcm.edu;ucsc.edu	37	chr10	76788758	76788758	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagccaagaaaaagaggaAccagaaatctccacggaaaa	23	2	8	8	1	1	3	0	0	1	3	2	5	1	5	3	2	2	0	3	2	9	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	76788758	A	G	76788758	2	3	247	1	0	0	0	0	0	0	0	1	10105	40	2	3		3	MYST4	10	76788758	Silent	SNP	A	TCGA-BP-4756-01A-01D-1366-10		76788758	58745989	22	12965											
POLL	27343	hgsc.bcm.edu;ucsc.edu	37	chr10	103345150	103345150	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaggaggaggaggagaaaGggctgtctgaagcagggcct	11	4	21	5	0	1	2	0	1	1	1	1	7	1	6	1	7	1	2	1	7	2	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	103345150	G	C	103345150	3	2	247	1	0	0	0	0	1	0	0	0	12205	1000	35	4	1255	4	POLL	10	103345150	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	26556392	103345150	32189597	23	12966											
MGEA5	10724	hgsc.bcm.edu	37	chr10	103547234	103547234	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggaaattagcaaggaaaGtttctggcagtacttcctgt	13	11	11	6	0	1	0	0	0	1	0	2	2	2	2	1	3	2	4	1	3	6	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	103547234	G	T	103547234	3	4	247	1	0	0	0	0	1	0	0	0	9555	1029	36	4	257	4	MGEA5	10	103547234	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	202084	103547234	31987513	24	12967											
PNLIPRP3	119548	hgsc.bcm.edu;ucsc.edu	37	chr10	118228715	118228715	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaaattgcttcttttgtTccaaagaaggttgcccaaca	12	12	9	8	0	1	1	0	0	1	1	2	2	2	2	2	2	3	3	2	2	4	6	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	118228715	T	C	118228715	3	2	247	1	0	0	0	0	1	0	0	0	12152	1783	62	3	980	3	PNLIPRP3	10	118228715	Missense_Mutation	SNP	T	TCGA-BP-4756-01A-01D-1366-10	14681481	118228715	17306032	25	12968											
SLC22A25	387601	hgsc.bcm.edu	37	chr11	62984813	62984813	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagaaagaagacaaagcatGgtgcagacatcaccaactgg	18	4	10	9	0	1	4	1	0	0	4	1	4	1	4	1	2	3	2	1	2	4	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	62984813	G	A	62984813	3	1	247	1	0	0	0	0	1	0	0	0	14456	1348	47	2	864	2	SLC22A25	11	62984813	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10		62984813	72021703	26	12969											
ODZ4	0	hgsc.bcm.edu;ucsc.edu	37	chr11	78565192	78565192	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacttctgactcctttccGtcattgtaaaaagccaagtg	11	12	6	12	1	2	1	1	1	1	0	4	1	4	1	4	0	1	1	4	0	4	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	78565192	G	A	78565192	2	1	247	1	0	0	0	0	0	0	0	1	10837	1136	40	1		1	ODZ4	11	78565192	Silent	SNP	G	TCGA-BP-4756-01A-01D-1366-10	15580379	78565192	56441324	27	12970											
BIRC2	329	hgsc.bcm.edu;ucsc.edu	37	chr11	102239263	102239263	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagaaggaaaaacaagcTgaagaaatggcatcaggtat	19	5	13	4	0	1	3	1	1	0	2	1	6	1	4	0	4	2	3	0	4	7	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	102239263	T	C	102239263	2	2	247	1	0	0	0	0	0	0	0	1	1435	1567	55	3		3	BIRC2	11	102239263	Silent	SNP	T	TCGA-BP-4756-01A-01D-1366-10	23674071	102239263	32767253	28	12971											
ASB8	140461	hgsc.bcm.edu;ucsc.edu	37	chr12	48547222	48547222	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattgttcggattaagcgctCggagagagagtatttgctct	10	13	12	6	3	1	2	0	0	1	2	3	5	1	3	0	2	2	4	0	2	3	5	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	48547222	C	T	48547222	3	4	247	1	0	0	0	0	1	0	0	0	1029	893	31	1	820	1	ASB8	12	48547222	Missense_Mutation	SNP	C	TCGA-BP-4756-01A-01D-1366-10		48547222	85304673	29	12972											
KRT76	51350	hgsc.bcm.edu	37	chr12	53162773	53162773	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccactgactccatagccActgctgctgctgctgctgct	5	10	9	17	1	0	1	0	1	0	0	1	1	1	1	4	0	7	6	4	0	1	1	rs1464423	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	53162773	A	G	53162773	2	3	247	1	0	0	0	0	0	0	0	1	8489	156	6	3		3	KRT76	12	53162773	Silent	SNP	A	TCGA-BP-4756-01A-01D-1366-10	4615551	53162773	80689122	30	12973											
KRT4	3851	hgsc.bcm.edu	37	chr12	53207576	53207576	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccactgaaggagcccccAaatccaccaccaaagccacc	14	4	5	18	0	0	1	0	1	0	0	1	2	1	2	8	1	3	0	8	1	4	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	53207576	A	T	53207576	3	4	247	1	0	0	0	0	1	0	0	0	8477	127	5	5	1331	5	KRT4	12	53207576	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10	44803	53207576	80644319	31	12974											
MSRB3	253827	hgsc.bcm.edu;ucsc.edu	37	chr12	65856991	65856991	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgtccaactgggaaaagAtactgcataaattcggctgc	12	9	9	11	2	0	1	0	0	0	1	3	2	1	2	2	2	4	2	2	2	6	3	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	65856991	A	T	65856991	3	4	247	1	0	0	0	0	1	0	0	0	9889	330	12	5	570	5	MSRB3	12	65856991	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10	12649415	65856991	67994904	32	12975											
VSIG10	54621	hgsc.bcm.edu	37	chr12	118506355	118506355	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcctcctcctcctctTcctcttctgaatccaccaaa	6	13	1	21	0	3	1	0	1	3	0	10	1	10	1	9	0	0	0	9	0	2	2	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	118506355	T	C	118506355	3	2	247	1	0	0	0	0	1	0	0	0	17222	1783	62	3	236	3	VSIG10	12	118506355	Missense_Mutation	SNP	T	TCGA-BP-4756-01A-01D-1366-10	52649364	118506355	15345540	33	12976											
CLIP1	6249	hgsc.bcm.edu;ucsc.edu	37	chr12	122812845	122812845	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaattctttcttttctTcctcatgctttttagctgct	4	22	3	12	0	5	0	1	0	4	0	7	0	6	0	2	0	3	3	2	0	2	8	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	122812845	T	A	122812845	3	1	247	1	0	0	0	0	1	0	0	0	3532	1783	62	5	1364	5	CLIP1	12	122812845	Missense_Mutation	SNP	T	TCGA-BP-4756-01A-01D-1366-10	4306490	122812845	11039050	34	12977											
DHRS2	10202	hgsc.bcm.edu	37	chr14	24108525	24108525	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcgggcattgtgtgccAcgtggggaaggctgaggacc	6	8	19	8	2	0	1	0	1	0	0	0	3	0	3	2	6	1	2	2	6	1	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	24108525	A	G	24108525	3	3	247	1	0	0	0	0	1	0	0	0	4490	159	6	3	284	3	DHRS2	14	24108525	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10		24108525	83241015	35	12978											
MTHFD1	4522	hgsc.bcm.edu	37	chr14	64891605	64891605	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcgagcttcatcactcctGttcctggcggcgtagggccc	4	9	14	14	3	2	0	2	0	0	0	4	1	4	0	3	4	1	3	3	4	1	3	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	64891605	G	T	64891605	3	4	247	1	0	0	0	0	1	0	0	0	9927	1377	48	4	845	4	MTHFD1	14	64891605	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	40783080	64891605	42457935	36	12979											
RAGE	0	hgsc.bcm.edu;ucsc.edu	37	chr14	102699021	102699021	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatccctttttaaaaggAaaatcaaaattcatagctct	15	13	4	9	0	3	1	2	1	1	0	4	2	4	2	2	1	1	1	2	1	7	5	rs144699014	alternate_allele	TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	102699021	A	C	102699021	3	2	247	1	0	0	0	0	1	0	0	0	13008	243	9	5	558	5	RAGE	14	102699021	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10	37807416	102699021	4650519	37	12980											
ZSCAN2	54993	hgsc.bcm.edu	37	chr15	85164205	85164205	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgtggaaaaagctttaGtgatggttcaaattttagta	14	15	10	2	0	1	2	1	2	0	0	1	3	1	3	0	2	1	3	0	2	7	6	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	85164205	G	T	85164205	3	4	247	1	0	0	0	0	1	0	0	0	18230	1029	36	4	875	4	ZSCAN2	15	85164205	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10		85164205	17367187	38	12981											
RANBP10	57610	hgsc.bcm.edu	37	chr16	67763369	67763369	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacgcgacgccattgctaCagctgggactgtctgctcct	6	10	12	13	3	1	0	0	0	1	0	2	3	2	2	2	2	4	3	2	2	1	2	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	67763369	C	T	67763369	3	4	247	1	0	0	0	0	1	0	0	0	13028	478	17	2	716	2	RANBP10	16	67763369	Missense_Mutation	SNP	C	TCGA-BP-4756-01A-01D-1366-10		67763369	22591384	39	12982											
RPH3AL	9501	hgsc.bcm.edu	37	chr17	171082	171082	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgattctctgctgctccaGgacgtcgagccgctctgccc	4	9	10	18	4	2	0	0	0	2	0	5	3	3	1	4	1	4	3	4	1	0	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	171082	G	A	171082	2	1	247	1	0	0	0	0	0	0	0	1	13554	991	35	2		2	RPH3AL	17	171082	Silent	SNP	G	TCGA-BP-4756-01A-01D-1366-10		171082	81024128	40	12983											
GRB7	2886	hgsc.bcm.edu	37	chr17	37903011	37903011	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtaccccagagcgaggAggagggccgcctgtacttca	9	7	13	12	2	1	1	1	0	0	1	1	4	1	3	4	3	4	2	4	3	3	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		C	37903011	A	C	37903011	3	2	247	1	0	0	0	0	1	0	0	0	6759	304	11	5	1514	5	GRB7	17	37903011	Missense_Mutation	SNP	A	TCGA-BP-4756-01A-01D-1366-10	37731929	37903011	43292199	41	12984											
SLC25A19	60386	hgsc.bcm.edu	37	chr17	73279618	73279618	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagtgcactgagaattcccgGgcgtcatacacgctgcctct	9	9	10	13	3	2	1	1	1	1	1	3	2	3	1	2	1	3	2	2	1	3	2	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	73279618	G	A	73279618	2	1	247	1	0	0	0	0	0	0	0	1	14483	1219	43	2		2	SLC25A19	17	73279618	Silent	SNP	G	TCGA-BP-4756-01A-01D-1366-10	35376607	73279618	7915592	42	12985											
CCDC57	284001	hgsc.bcm.edu	37	chr17	80130525	80130525	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttactcaccaggagtggcgGcatctcccccagcctctggg	6	8	11	16	1	3	0	1	0	2	0	4	1	3	1	4	4	2	1	4	4	1	1	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	80130525	G	A	80130525	3	1	247	1	0	0	0	0	1	0	0	0	2827	1203	42	2	1057	2	CCDC57	17	80130525	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	6850907	80130525	1064685	43	12986											
TYK2	7297	hgsc.bcm.edu	37	chr19	10468470	10468470	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggctctgcagaggggcCtctccgtcaaagcagatctc	7	8	12	14	2	4	2	1	0	3	2	6	2	4	2	2	3	3	3	2	3	1	0	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		G	10468470	C	G	10468470	3	3	247	1	0	0	0	0	1	0	0	0	16809	680	24	4	1163	4	TYK2	19	10468470	Missense_Mutation	SNP	C	TCGA-BP-4756-01A-01D-1366-10		10468470	48660513	44	12987											
ARHGAP8	23779	hgsc.bcm.edu	37	chr22	45255656	45255656	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctgccgccagatcttacGgagcctcccagagcacaact	9	7	10	15	2	1	2	0	0	1	2	2	3	2	3	4	2	5	2	4	2	2	1	rs148303608	alternate_allele	TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		T	45255656	G	T	45255656	3	4	247	1	0	0	0	0	1	0	0	0	888	1116	39	4	1058	4	ARHGAP8	22	45255656	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10		45255656	6048910	45	12988											
CLCN5	1184	hgsc.bcm.edu;ucsc.edu	37	chrX	49853520	49853520	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccccggcctttatgcaatgGttggggctgcagcctgctta	5	11	12	13	1	0	0	0	0	0	0	0	0	0	0	4	4	4	5	4	4	3	4	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	49853520	G	A	49853520	3	1	247	1	0	0	0	0	1	0	0	0	3466	1261	44	2	1761	2	CLCN5	23	49853520	Missense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10		49853520	105417040	46	12989											
ACTRT1	139741	hgsc.bcm.edu;ucsc.edu	37	chrX	127185831	127185831	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catttctgctagcttttctcGaatttccctaggattcaaag	9	16	6	10	1	3	0	1	0	2	0	5	2	4	1	1	1	2	2	1	1	4	7	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	127185831	G	A	127185831	4	1	247	1	0	0	0	0	0	1	0	0	218	1066	37	1	779	1	ACTRT1	23	127185831	Nonsense_Mutation	SNP	G	TCGA-BP-4756-01A-01D-1366-10	77332311	127185831	28084729	47	12990											
SAGE1	55511	hgsc.bcm.edu;ucsc.edu	37	chrX	134992605	134992605	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcacaacatccgtgaagaGaagataaataacagccaacc	19	5	6	11	1	1	3	1	1	0	2	2	4	2	3	3	0	4	0	3	0	7	2	novel		TCGA-BP-4756-01A-01D-1366-10	TCGA-BP-4756-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7ff2eeb7-4f50-4365-acca-4f67bc73fa38	7d113813-ebeb-4dfa-9fce-fa8f2aabab42		A	134992605	G	A	134992605	2	1	247	1	0	0	0	0	0	0	0	1	13811	933	33	2		2	SAGE1	23	134992605	Silent	SNP	G	TCGA-BP-4756-01A-01D-1366-10	7806774	134992605	20277955	48	12991											
UBR4	23352	hgsc.bcm.edu;ucsc.edu	37	chr1	19414403	19414403	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagtgctgtcttggtcacGacctggcccttttcatttgt	5	15	11	10	1	3	0	2	0	1	0	3	2	3	1	2	3	1	1	2	3	0	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	19414403	G	A	19414403	2	1	248	1	0	0	0	0	0	0	0	1	16903	1045	37	1		1	UBR4	1	19414403	Silent	SNP	G	TCGA-BP-4758-01A-01D-1366-10		19414403	229836218	1	12992											
ZNF683	257101	hgsc.bcm.edu	37	chr1	26691355	26691355	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcatagccatggtggggtAggaggggtcttggggcagca	8	7	20	6	0	1	0	0	0	1	0	1	1	1	1	1	9	2	4	1	9	2	3	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	26691355	A	G	26691355	3	3	248	1	0	0	0	0	1	0	0	0	18089	420	15	3	844	3	ZNF683	1	26691355	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10	7276952	26691355	222559266	2	12993											
FGGY	55277	hgsc.bcm.edu	37	chr1	60139710	60139710	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggccttgtcctgcgcaGgcatgcctgtggtcctgtcg	2	12	15	12	2	0	0	0	0	0	0	3	0	2	0	4	3	2	2	4	3	0	1	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	60139710	G	C	60139710	5	2	248	1	0	0	0	0	0	0	1	0	5871	1014	35	4	1543	4	FGGY	1	60139710	Splice_Site	SNP	G	TCGA-BP-4758-01A-01D-1366-10	33448355	60139710	189110911	3	12994											
ATP1A1	476	hgsc.bcm.edu;ucsc.edu	37	chr1	116932279	116932279	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggctgtcatcttcctcAtcggtatcatcgtagccaat	8	14	8	11	2	4	1	3	1	1	0	7	1	5	1	2	2	1	3	2	2	3	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	116932279	A	G	116932279	3	3	248	1	0	0	0	0	1	0	0	0	1128	217	8	3	1019	3	ATP1A1	1	116932279	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10	56792569	116932279	132318342	4	12995											
CHRNB2	1141	hgsc.bcm.edu;ucsc.edu	37	chr1	154544124	154544124	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatctcagtgctgctggcGctcacggtcttcctgctgct	3	13	11	14	2	3	0	2	0	2	0	5	0	4	0	1	2	5	6	1	2	0	1	rs140739605		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	154544124	G	A	154544124	2	1	248	1	0	0	0	0	0	0	0	1	3391	1074	38	1		1	CHRNB2	1	154544124	Silent	SNP	G	TCGA-BP-4758-01A-01D-1366-10	37611845	154544124	94706497	5	12996											
GON4L	54856	hgsc.bcm.edu;ucsc.edu	37	chr1	155726848	155726848	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccacatcaggcagggcCacttcttcaaagccatcaaa	12	9	6	14	0	5	0	3	0	2	0	6	0	6	0	3	2	1	1	3	2	2	3	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	155726848	C	A	155726848	2	1	248	1	0	0	0	0	0	0	0	1	6572	581	21	4		4	GON4L	1	155726848	Silent	SNP	C	TCGA-BP-4758-01A-01D-1366-10	1182724	155726848	93523773	6	12997											
FASLG	356	hgsc.bcm.edu	37	chr1	172635130	172635130	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaattttgaggaatctcagAcgtttttcggcttatataag	11	16	8	6	2	2	2	2	1	1	1	4	3	2	3	0	2	0	2	0	2	5	7	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	172635130	A	G	172635130	3	3	248	1	0	0	0	0	1	0	0	0	5682	275	10	3	834	3	FASLG	1	172635130	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10	16908282	172635130	76615491	7	12998											
MUC13	56667	hgsc.bcm.edu	37	chr3	124646701	124646702	+	In_Frame_Ins	INS	-	-	GAA																															gagcaggtgaagtagctgttINSgggaaaggtgtatttgctgt																								novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		GAA	124646702	-	GAA	124646701	7	5	248	1	0	1	1	0	0	0	0	0	9971	1799	63	0	1386	0	MUC13	3	124646701	In_Frame_Ins	INS	-	TCGA-BP-4758-01A-01D-1366-10		124646701	73375729	8	12999											
NPHP3	27031	hgsc.bcm.edu;ucsc.edu	37	chr3	132433973	132433973	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtttcatctgtataaaTgaggtaacatctgacagtgt	11	14	10	6	0	3	2	1	2	2	0	3	2	3	2	0	2	1	3	0	2	4	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	132433973	T	C	132433973	3	2	248	1	0	0	0	0	1	0	0	0	10580	1464	51	3	3171	3	NPHP3	3	132433973	Missense_Mutation	SNP	T	TCGA-BP-4758-01A-01D-1366-10	7787272	132433973	65588457	9	13000											
NAA15	80155	hgsc.bcm.edu;ucsc.edu	37	chr4	140297620	140297620	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcctttgagatttacttTaggaaaggtaggcaattagg	11	15	11	4	0	0	1	0	1	0	1	0	3	0	2	1	4	2	2	1	4	6	8	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	140297620	T	A	140297620	3	1	248	1	0	0	0	0	1	0	0	0	10118	1751	61	5	2111	5	NAA15	4	140297620	Missense_Mutation	SNP	T	TCGA-BP-4758-01A-01D-1366-10		140297620	50856656	10	13001											
MAML3	55534	hgsc.bcm.edu;ucsc.edu	37	chr4	140646919	140646919	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaccttgaaactgattgAcctgctgcactgggtatgga	9	11	10	11	0	1	3	1	3	0	0	1	4	1	4	3	2	3	3	3	2	2	3	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	140646919	A	C	140646919	3	2	248	1	0	0	0	0	1	0	0	0	9207	275	10	5	1022	5	MAML3	4	140646919	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10	349299	140646919	50507357	11	13002											
SERINC5	256987	hgsc.bcm.edu;ucsc.edu	37	chr5	79465263	79465263	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagctgtctttctgtgtatAaaacactgccatcaaaacca	13	11	6	11	0	3	0	1	0	2	0	3	0	3	0	2	0	4	3	2	0	5	3	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	79465263	A	G	79465263	3	3	248	1	0	0	0	0	1	0	0	0	14085	362	13	3	793	3	SERINC5	5	79465263	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10		79465263	101449997	12	13003											
BTNL9	153579	hgsc.bcm.edu	37	chr5	180481242	180481242	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttttttttctctagagaAactcactgcagagctgggta	9	17	8	7	0	2	2	1	0	1	2	3	3	2	2	0	1	3	3	0	1	3	7	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	180481242	A	C	180481242	3	2	248	1	0	0	0	0	1	0	0	0	1568	14	1	5	912	5	BTNL9	5	180481242	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10	101015979	180481242	434018	13	13004											
HLA-DQB1	3119	hgsc.bcm.edu	37	chr6	32628022	32628022	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctcaggagtcagtgcagAagccctggagaagagagaag	14	5	15	7	0	2	4	2	0	1	4	3	7	2	5	1	2	2	1	1	2	3	0	rs1140347	bycluster;byfrequency;by1000genomes	TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	32628022	A	G	32628022	2	3	248	1	0	0	0	0	0	0	0	1	7206	233	9	3		3	HLA-DQB1	6	32628022	Silent	SNP	A	TCGA-BP-4758-01A-01D-1366-10		32628022	138487045	14	13005											
GRM1	2911	hgsc.bcm.edu;ucsc.edu	37	chr6	146720530	146720530	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaacttcaacgaggccaaAtatatcgcgttcaccatgta	13	9	7	12	3	2	0	2	0	0	0	3	1	2	0	3	1	2	2	3	1	6	5	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	146720530	A	C	146720530	3	2	248	1	0	0	0	0	1	0	0	0	6796	98	4	5	2381	5	GRM1	6	146720530	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10	114092508	146720530	24394537	15	13006											
SMARCD3	6604	hgsc.bcm.edu;ucsc.edu	37	chr7	150938597	150938597	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgctggaaatacttgtccCcattgatgtattccttgtca	8	15	7	11	0	1	1	1	1	0	0	3	2	3	2	4	1	2	2	4	1	3	6	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		T	150938597	C	T	150938597	3	4	248	1	0	0	0	0	1	0	0	0	14781	623	22	2	555	2	SMARCD3	7	150938597	Missense_Mutation	SNP	C	TCGA-BP-4758-01A-01D-1366-10		150938597	8200066	16	13007											
DPYSL2	1808	hgsc.bcm.edu;ucsc.edu	37	chr8	26509869	26509869	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctggaggacggcaccctgCatgtcaccgaaggctctgga	8	7	13	13	2	2	0	1	0	1	0	3	4	3	3	3	5	1	3	3	5	1	0	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	26509869	C	G	26509869	3	3	248	1	0	0	0	0	1	0	0	0	4747	710	25	4	1424	4	DPYSL2	8	26509869	Missense_Mutation	SNP	C	TCGA-BP-4758-01A-01D-1366-10		26509869	119854153	17	13008											
HEMGN	55363	hgsc.bcm.edu;ucsc.edu	37	chr9	100693494	100693494	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttctctgctgcttgcgtttTttctgttctctgcagaaaga	5	18	9	9	1	3	2	0	0	3	2	5	2	3	2	0	0	4	6	0	0	1	6	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	100693494	T	A	100693494	3	1	248	1	0	0	0	0	1	0	0	0	7050	1838	64	5	1279	5	HEMGN	9	100693494	Missense_Mutation	SNP	T	TCGA-BP-4758-01A-01D-1366-10		100693494	40519937	18	13009											
CEP110	0	hgsc.bcm.edu;ucsc.edu	37	chr9	123860779	123860779	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taccattttccacctccgttCattggaaagtttggaaggtc	9	14	8	10	1	1	0	1	0	0	0	4	2	3	2	4	3	1	2	4	3	3	6	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		T	123860779	C	T	123860779	3	4	248	1	0	0	0	0	1	0	0	0	3245	838	29	2	755	2	CEP110	9	123860779	Missense_Mutation	SNP	C	TCGA-BP-4758-01A-01D-1366-10	23167285	123860779	17352652	19	13010											
RABGAP1	23637	hgsc.bcm.edu;ucsc.edu	37	chr9	125777884	125777884	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatgtgcagaaaaaattCttgaaacatggggagaactg	18	8	11	4	0	1	4	0	1	1	3	1	5	1	4	0	2	3	1	0	2	7	2	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	125777884	C	A	125777884	3	1	248	1	0	0	0	0	1	0	0	0	12966	913	32	4	1654	4	RABGAP1	9	125777884	Missense_Mutation	SNP	C	TCGA-BP-4758-01A-01D-1366-10	1917105	125777884	15435547	20	13011											
ZNF485	220992	hgsc.bcm.edu;ucsc.edu	37	chr10	44111891	44111891	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaagaactataagtgcaagGaatgtgggaaagtcttcaaa	18	8	11	4	0	2	2	1	0	1	2	2	4	2	4	0	2	2	1	0	2	8	3	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	44111891	G	A	44111891	3	1	248	1	0	0	0	0	1	0	0	0	17937	1175	41	2	414	2	ZNF485	10	44111891	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10		44111891	91422856	21	13012											
TMEM109	79073	hgsc.bcm.edu	37	chr11	60689459	60689459	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctgacccttccacccGggccctgctactcctggcct	3	9	10	19	1	0	1	0	1	0	0	2	1	2	1	7	3	3	1	7	3	1	2	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	60689459	G	A	60689459	3	1	248	1	0	0	0	0	1	0	0	0	16024	1116	39	1	564	1	TMEM109	11	60689459	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10		60689459	74317057	22	13013											
ALKBH8	91801	hgsc.bcm.edu;ucsc.edu	37	chr11	107423862	107423863	+	Frame_Shift_Ins	INS	-	-	T																															atggcttatctttatctacaINSttgttgttctcatagtggaa																								novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		T	107423863	-	T	107423862	7	5	248	1	0	1	1	0	0	0	0	0	533	214	8	0	1459	0	ALKBH8	11	107423862	Frame_Shift_Ins	INS	-	TCGA-BP-4758-01A-01D-1366-10	46734403	107423862	27582654	23	13014											
MAPKAPK5	8550	hgsc.bcm.edu;ucsc.edu	37	chr12	112305374	112305374	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttcctctgttctctttaAggtacgtctgcacatgatgt	7	17	7	10	1	3	1	0	1	3	0	5	1	4	1	1	1	2	3	1	1	2	5	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	112305374	A	C	112305374	5	2	248	1	0	0	0	0	0	0	1	0	9291	86	3	5	199	5	MAPKAPK5	12	112305374	Splice_Site	SNP	A	TCGA-BP-4758-01A-01D-1366-10		112305374	21546521	24	13015											
RNF10	9921	hgsc.bcm.edu;ucsc.edu	37	chr12	120995400	120995400	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggtgataccattacgatGcagctgatgaagagggagaa	13	9	14	5	1	0	5	0	3	0	2	0	7	0	5	1	2	4	3	1	2	4	3	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		T	120995400	G	T	120995400	3	4	248	1	0	0	0	0	1	0	0	0	13424	1319	46	4	904	4	RNF10	12	120995400	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10	8690026	120995400	12856495	25	13016											
STON2	85439	hgsc.bcm.edu;ucsc.edu	37	chr14	81744156	81744156	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tataggtgacacggtctatcCgcaagctgtggattctgcca	9	11	11	10	2	2	1	0	1	2	0	3	2	3	2	2	3	2	2	2	3	4	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		T	81744156	C	T	81744156	3	4	248	1	0	0	0	0	1	0	0	0	15319	652	23	1	1224	1	STON2	14	81744156	Missense_Mutation	SNP	C	TCGA-BP-4758-01A-01D-1366-10		81744156	25605384	26	13017											
ZSCAN2	54993	hgsc.bcm.edu;ucsc.edu	37	chr15	85164823	85164823	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtctgattgcacaccaggGcatgcacacaggggagaaac	13	5	12	11	0	1	2	0	1	1	1	1	3	1	2	1	3	3	3	1	3	1	1	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	85164823	G	C	85164823	3	2	248	1	0	0	0	0	1	0	0	0	18230	1203	42	4	1493	4	ZSCAN2	15	85164823	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10		85164823	17366569	27	13018											
WDR93	56964	hgsc.bcm.edu;ucsc.edu	37	chr15	90246244	90246244	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtttattggaggagccaaaGgattctcaatttataatctg	12	15	9	5	0	2	0	1	0	2	0	3	3	2	3	1	3	1	1	1	3	5	7	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	90246244	G	C	90246244	3	2	248	1	0	0	0	0	1	0	0	0	17339	1001	35	4	373	4	WDR93	15	90246244	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10	5081421	90246244	12285148	28	13019											
ABR	29	hgsc.bcm.edu;ucsc.edu	37	chr17	994934	994934	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagaggtggcccatggtgaCctggctgtcccactgttgca	7	9	14	11	0	0	2	0	1	0	1	1	3	1	2	3	4	1	3	3	4	1	1	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	994934	C	A	994934	3	1	248	1	0	0	0	0	1	0	0	0	99	507	18	4	2157	4	ABR	17	994934	Missense_Mutation	SNP	C	TCGA-BP-4758-01A-01D-1366-10		994934	80200276	29	13020											
MAP2K3	5606	hgsc.bcm.edu	37	chr17	21215557	21215557	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccagctcccagccgaccGtttctcccccgagtttgtgg	4	9	9	19	3	1	0	0	0	1	0	3	2	2	0	7	1	2	3	7	1	0	2	rs35206134	bycluster;byfrequency;by1000genomes	TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	21215557	G	A	21215557	3	1	248	1	0	0	0	0	1	0	0	0	9238	1145	40	1	916	1	MAP2K3	17	21215557	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10	20220623	21215557	59979653	30	13021											
EZH1	2145	hgsc.bcm.edu;ucsc.edu	37	chr17	40854913	40854913	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtaatcaaagaagagcTcttcgccagcttgaattgcc	12	10	8	11	1	2	3	1	1	1	2	3	3	2	3	3	0	3	3	3	0	4	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	40854913	T	C	40854913	3	2	248	1	0	0	0	0	1	0	0	0	5333	1551	54	3	86	3	EZH1	17	40854913	Missense_Mutation	SNP	T	TCGA-BP-4758-01A-01D-1366-10	19639356	40854913	40340297	31	13022											
ADAMTSL5	339366	hgsc.bcm.edu	37	chr19	1507322	1507322	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcgggtgtagaccacatgCgtgccggccgcctcgtaggt	5	9	14	13	5	1	1	0	0	1	1	3	1	1	1	4	3	2	2	4	3	2	2	rs151178039	bycluster;byfrequency;by1000genomes	TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		T	1507322	C	T	1507322	2	4	248	1	0	0	0	0	0	0	0	1	278	755	27	1		1	ADAMTSL5	19	1507322	Silent	SNP	C	TCGA-BP-4758-01A-01D-1366-10		1507322	57621661	32	13023											
ACSS2	55902	hgsc.bcm.edu;ucsc.edu	37	chr20	33501582	33501582	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttctcttcagagtctctAtgtgaacggatcttggattc	7	15	10	9	1	4	2	1	1	3	1	7	4	4	4	0	3	1	1	0	3	2	5	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	33501582	A	G	33501582	2	3	248	1	0	0	0	0	0	0	0	1	189	436	16	3		3	ACSS2	20	33501582	Silent	SNP	A	TCGA-BP-4758-01A-01D-1366-10		33501582	29523938	33	13024											
ZNFX1	57169	hgsc.bcm.edu;ucsc.edu	37	chr20	47869361	47869361	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcatacacgttggcactggGgcgcagctgagaagagaaac	13	6	13	9	2	1	2	1	1	0	2	1	4	1	2	0	3	3	4	0	3	3	2	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	47869361	G	A	47869361	3	1	248	1	0	0	0	0	1	0	0	0	18204	1232	43	2	2656	2	ZNFX1	20	47869361	Missense_Mutation	SNP	G	TCGA-BP-4758-01A-01D-1366-10	14367779	47869361	15156159	34	13025											
APCDD1L	164284	hgsc.bcm.edu	37	chr20	57036163	57036163	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcggtaggcagccgtTggtggctgtgacatcccgct	5	8	15	13	3	0	1	0	1	0	0	1	1	1	1	3	4	2	5	3	4	1	2	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		C	57036163	T	C	57036163	3	2	248	1	0	0	0	0	1	0	0	0	766	1812	63	3	320	3	APCDD1L	20	57036163	Missense_Mutation	SNP	T	TCGA-BP-4758-01A-01D-1366-10	9166802	57036163	5989357	35	13026											
NCAM2	4685	hgsc.bcm.edu;ucsc.edu	37	chr21	22656694	22656694	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaaggacaaacacaagAagctacagtagttttggaaa	18	7	9	7	0	0	1	0	0	0	1	0	3	0	3	1	2	4	3	1	2	7	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		G	22656694	A	G	22656694	3	3	248	1	0	0	0	0	1	0	0	0	10203	246	9	3	321	3	NCAM2	21	22656694	Missense_Mutation	SNP	A	TCGA-BP-4758-01A-01D-1366-10		22656694	25473201	36	13027											
PRDM15	63977	hgsc.bcm.edu	37	chr21	43287445	43287445	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttccccagggctgggggcaGattttcctggttcccccagg	4	10	13	14	0	0	1	0	0	0	1	3	1	3	1	5	5	0	3	5	5	0	4	novel		TCGA-BP-4758-01A-01D-1366-10	TCGA-BP-4758-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	325972d8-51f2-4a83-8a29-a3760a4e0cb3	cb80eb7a-de82-4852-8339-5d4ecf9d38d6		A	43287445	G	A	43287445	2	1	248	1	0	0	0	0	0	0	0	1	12458	933	33	2		2	PRDM15	21	43287445	Silent	SNP	G	TCGA-BP-4758-01A-01D-1366-10	20630751	43287445	4842450	37	13028											
VHL	7428	hgsc.bcm.edu	37	chr3	10183871	10183871	+	Frame_Shift_Del	DEL	G	G	-																															gccgcatccacagctaccgaGgtacgggcccggcgcttagg																								novel		TCGA-BP-4758-01A-01W-1362-10	TCGA-BP-4758-11A-01W-1363-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	77986546-a7bb-4425-8cd1-01c22bdcac6b	8bce1fd2-0c1c-4d91-8455-763c2888128d		-	10183871	G	-	10183871	7	5	249	1	0	1	0	1	0	0	0	0	17161	1014	35	0	342	0	VHL	3	10183871	Frame_Shift_Del	DEL	G	TCGA-BP-4758-01A-01W-1362-10		10183871	187838559	1	13029											
ATAD3C	219293	hgsc.bcm.edu	37	chr1	1396229	1396229	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacctgccagggcaggaGgagcgggcgcgcctggtgag	6	5	19	11	4	0	1	0	1	0	0	1	4	0	3	3	5	2	1	3	5	0	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	1396229	G	T	1396229	3	4	250	1	0	0	0	0	1	0	0	0	1075	991	35	4	950	4	ATAD3C	1	1396229	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10		1396229	247854392	1	13030											
UBR4	23352	hgsc.bcm.edu	37	chr1	19501507	19501507	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggacaggacacagtagaAtctggggtgtgggacagcat	11	7	17	6	0	1	1	0	0	1	1	1	4	1	4	0	6	1	2	0	6	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	19501507	A	G	19501507	3	3	250	1	0	0	0	0	1	0	0	0	16903	101	4	3	13101	3	UBR4	1	19501507	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	18105278	19501507	229749114	2	13031											
GDAP2	54834	hgsc.bcm.edu	37	chr1	118462880	118462880	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcttcctgaaatatttcaGctgtagtatcagaggaattt	11	16	8	6	0	3	2	2	1	1	1	4	3	4	3	1	1	1	3	1	1	5	6	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	118462880	G	T	118462880	3	4	250	1	0	0	0	0	1	0	0	0	6309	971	34	4	1489	4	GDAP2	1	118462880	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	98961373	118462880	130787741	3	13032											
GPR161	23432	hgsc.bcm.edu	37	chr1	168073747	168073747	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaccccgagggttagcatGctggcagagctgatcagcag	10	7	14	10	1	1	3	1	2	0	1	1	4	1	3	2	2	4	6	2	2	1	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	168073747	G	A	168073747	2	1	250	1	0	0	0	0	0	0	0	1	6665	1310	46	2		2	GPR161	1	168073747	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	49610867	168073747	81176874	4	13033											
CENPA	1058	hgsc.bcm.edu;ucsc.edu	37	chr2	27015008	27015008	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttttgctcaggcgcttcctCccatcaacacagtcggcgga	7	10	9	15	3	2	0	2	0	0	0	5	1	4	1	2	3	2	2	2	3	1	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	27015008	C	T	27015008	3	4	250	1	0	0	0	0	1	0	0	0	3226	855	30	2	116	2	CENPA	2	27015008	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10		27015008	216184365	5	13034											
PLEKHH2	130271	hgsc.bcm.edu	37	chr2	43991495	43991495	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattactttttgccatggcAaaacccaaggtgagtagaag	15	10	9	7	0	0	2	0	1	0	1	0	2	0	2	2	2	3	2	2	2	7	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	43991495	A	G	43991495	2	3	250	1	0	0	0	0	0	0	0	1	12077	117	5	3		3	PLEKHH2	2	43991495	Silent	SNP	A	TCGA-BP-4759-01A-01D-1366-10	16976487	43991495	199207878	6	13035											
GTF2A1L	11036	hgsc.bcm.edu;ucsc.edu	37	chr2	48896938	48896938	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataattcaagtagatggaagCggtgatacatcttccaatga	15	11	9	6	1	2	3	1	2	1	1	3	4	3	4	1	2	2	1	1	2	6	5	rs144474589	bycluster;by1000genomes	TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	48896938	C	T	48896938	2	4	250	1	0	0	0	0	0	0	0	1	6853	767	27	1		1	GTF2A1L	2	48896938	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	4905443	48896938	194302435	7	13036											
PROC	5624	hgsc.bcm.edu	37	chr2	128184763	128184763	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgctgacagcggcccactGcatggatgagtccaagaagc	10	6	14	11	1	0	3	0	2	0	1	1	4	1	4	2	3	4	2	2	3	2	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	128184763	G	T	128184763	3	4	250	1	0	0	0	0	1	0	0	0	12547	1319	46	4	787	4	PROC	2	128184763	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	79287825	128184763	115014610	8	13037											
CWC22	57703	hgsc.bcm.edu;ucsc.edu	37	chr2	180819021	180819021	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccaagcgatggatggtatCatactgttctttgaatatac	11	15	8	7	1	2	1	1	1	1	0	3	3	3	2	1	2	3	2	1	2	6	7	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	180819021	C	T	180819021	3	4	250	1	0	0	0	0	1	0	0	0	4068	826	29	2	1146	2	CWC22	2	180819021	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	52634258	180819021	62380352	9	13038											
CPS1	1373	hgsc.bcm.edu;ucsc.edu	37	chr2	211518750	211518750	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttttccttcgtgacaggAgcacccagtggtgctgacaa	8	11	11	11	1	0	2	0	2	0	0	2	3	1	3	2	2	2	3	2	2	1	3	rs1129684	alternate_allele	TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	211518750	A	T	211518750	3	4	250	1	0	0	0	0	1	0	0	0	3823	318	11	5	3618	5	CPS1	2	211518750	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	30699729	211518750	31680623	10	13039											
LHFPL4	375323	hgsc.bcm.edu	37	chr3	9543917	9543917	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtccctgtgagtgagccAcggggcagggaaggactccc	8	5	17	11	1	0	2	0	2	0	0	2	4	2	4	3	5	1	1	3	5	1	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	9543917	A	G	9543917	3	3	250	1	0	0	0	0	1	0	0	0	8767	159	6	3	25	3	LHFPL4	3	9543917	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10		9543917	188478513	11	13040											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47164514	47164514	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatgaccctcgtcggaatcCcagttcattagggggagaac	10	9	12	10	2	1	3	1	2	0	1	4	5	2	4	2	3	1	1	2	3	3	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	47164514	C	A	47164514	4	1	250	1	0	0	0	0	0	1	0	0	14133	632	22	4	6158	4	SETD2	3	47164514	Nonsense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	37620597	47164514	150857916	12	13041											
QRICH1	54870	hgsc.bcm.edu	37	chr3	49095139	49095139	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctggatctgagctgctTgcagctgcgagggactggga	7	8	16	10	1	1	1	0	1	1	0	1	5	1	4	1	3	5	5	1	3	0	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	49095139	T	A	49095139	3	1	250	1	0	0	0	0	1	0	0	0	12881	1812	63	5	1868	5	QRICH1	3	49095139	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10	1930625	49095139	148927291	13	13042											
PBRM1	55193	ucsc.edu	37	chr3	52651454	52651454	+	Frame_Shift_Del	DEL	C	C	-																															gtcctttttggatggtttaaCcataaataggtcacaaagtc																								novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	C	-	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		-	52651454	C	-	52651454	7	5	250	1	0	1	0	1	0	0	0	0	11491	507	18	0	3326	0	PBRM1	3	52651454	Frame_Shift_Del	DEL	C	TCGA-BP-4759-01A-01D-1366-10	3556315	52651454	145370976	14	13043											
MXD4	10608	hgsc.bcm.edu	37	chr4	2254228	2254228	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttgcttgagctgctcaagGtacagcctgagtttggctcg	7	12	13	9	1	1	2	1	2	0	0	2	2	1	2	1	2	5	7	1	2	2	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	2254228	G	A	2254228	2	1	250	1	0	0	0	0	0	0	0	1	10001	1256	44	2		2	MXD4	4	2254228	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10		2254228	188900048	15	13044											
ZFR	51663	hgsc.bcm.edu;ucsc.edu	37	chr5	32355948	32355948	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactatctcttcttcgtttcCtgttgttgtggatgttaaaa	7	19	7	8	1	2	0	0	0	2	0	5	1	3	1	1	1	0	4	1	1	3	7	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	32355948	C	T	32355948	3	4	250	1	0	0	0	0	1	0	0	0	17658	681	24	2	85	2	ZFR	5	32355948	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10		32355948	148559312	16	13045											
SLC25A2	83884	hgsc.bcm.edu;ucsc.edu	37	chr5	140682766	140682766	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaacacgacaagccacaGgcaaattccagcaactccac	15	4	8	14	1	0	0	0	0	0	0	2	2	2	1	3	2	4	2	3	2	4	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	140682766	G	A	140682766	2	1	250	1	0	0	0	0	0	0	0	1	14484	991	35	2		2	SLC25A2	5	140682766	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	108326818	140682766	40232494	17	13046											
SLC36A2	153201	hgsc.bcm.edu;ucsc.edu	37	chr5	150704898	150704898	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatgtcatctccaaacCgcaggtagcccagagccgcc	9	7	9	16	2	2	2	1	1	1	1	3	2	2	2	6	1	3	2	6	1	2	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	150704898	C	T	150704898	3	4	250	1	0	0	0	0	1	0	0	0	14596	652	23	1	504	1	SLC36A2	5	150704898	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	10022132	150704898	30210362	18	13047											
HLA-C	3107	hgsc.bcm.edu	37	chr6	31237817	31237817	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacaaccaggacagccaggCcagcaacgatgcccatgatg	13	3	12	13	1	0	1	0	1	0	0	0	4	0	3	4	3	5	1	4	3	2	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	31237817	C	A	31237817	3	1	250	1	0	0	0	0	1	0	0	0	7197	739	26	4	175	4	HLA-C	6	31237817	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10		31237817	139877250	19	13048											
DOM3Z	1797	hgsc.bcm.edu;ucsc.edu	37	chr6	31939209	31939209	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatccgtctctgaggtcaaAgttggggcctggaccgttag	7	11	14	9	2	2	1	1	1	1	0	4	2	3	2	3	4	0	3	3	4	3	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	31939209	A	C	31939209	3	2	250	1	0	0	0	0	1	0	0	0	4705	72	3	5	970	5	DOM3Z	6	31939209	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	701392	31939209	139175858	20	13049											
KCNK16	83795	hgsc.bcm.edu	37	chr6	39285598	39285598	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtcctcccatctttcaatGgcggccagatgggcacgcag	7	8	12	14	3	2	1	1	0	1	1	4	1	4	1	3	4	0	2	3	4	1	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	39285598	G	A	39285598	2	1	250	1	0	0	0	0	0	0	0	1	8063	1335	47	2		2	KCNK16	6	39285598	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	7346389	39285598	131829469	21	13050											
EEF1A1	1915	hgsc.bcm.edu;ucsc.edu	37	chr6	74228564	74228564	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactttccatcccttgaacCaaggcatctgaaacacaagc	13	9	6	13	0	1	3	0	3	1	0	3	3	3	3	3	1	3	1	3	1	4	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	74228564	C	T	74228564	4	4	250	1	0	0	0	0	0	1	0	0	4923	595	21	2	775	2	EEF1A1	6	74228564	Nonsense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	34942966	74228564	96886503	22	13051											
SEMA3D	223117	hgsc.bcm.edu;ucsc.edu	37	chr7	84710863	84710863	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccagctaatttacataaTtccacccgttcctttgcagc	9	14	4	14	1	0	0	0	0	0	0	3	0	3	0	4	0	4	3	4	0	3	8	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	84710863	T	G	84710863	3	3	250	1	0	0	0	0	1	0	0	0	14029	1490	52	5	2048	5	SEMA3D	7	84710863	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10		84710863	74427800	23	13052											
TSPAN33	340348	hgsc.bcm.edu	37	chr7	128802362	128802362	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatctgcctcctgcagacGgtgagtggtcaaggccccac	9	7	11	14	1	2	2	1	1	1	1	3	2	3	2	4	3	3	1	4	3	2	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	128802362	G	T	128802362	2	4	250	1	0	0	0	0	0	0	0	1	16647	1130	39	4		4	TSPAN33	7	128802362	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	44091499	128802362	30336301	24	13053											
KIAA1967	57805	hgsc.bcm.edu	37	chr8	22463673	22463673	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccacagaactgtcccagaAtgccaggcaccttcaggtag	11	6	11	13	0	1	2	1	0	0	2	2	2	2	2	4	3	2	2	4	3	3	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	22463673	A	C	22463673	3	2	250	1	0	0	0	0	1	0	0	0	8265	101	4	5	140	5	KIAA1967	8	22463673	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10		22463673	123900349	25	13054											
RBPMS	11030	hgsc.bcm.edu	37	chr8	30332299	30332299	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatttatttttccaggtccGgaccctatttgtcagtggcc	8	15	8	10	1	1	0	1	0	0	0	3	1	3	1	4	3	0	0	4	3	3	6	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	30332299	G	T	30332299	3	4	250	1	0	0	0	0	1	0	0	0	13165	1116	39	4	77	4	RBPMS	8	30332299	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	7868626	30332299	116031723	26	13055											
MATN2	4147	hgsc.bcm.edu;ucsc.edu	37	chr8	99028832	99028832	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtaagcagtgaagattcGtttgtgtgccagtgctttga	8	15	13	5	1	0	3	0	2	0	1	1	3	0	3	1	0	3	4	1	0	2	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	99028832	G	A	99028832	2	1	250	1	0	0	0	0	0	0	0	1	9334	1132	40	1		1	MATN2	8	99028832	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	68696533	99028832	47335190	27	13056											
SYBU	55638	hgsc.bcm.edu;ucsc.edu	37	chr8	110590177	110590177	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctttctgctgcagtggagtCaaatactgctctgggtttgg	6	15	12	8	0	4	0	1	0	3	0	4	1	4	1	0	3	4	4	0	3	2	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	110590177	C	T	110590177	2	4	250	1	0	0	0	0	0	0	0	1	15426	825	29	2		2	SYBU	8	110590177	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	11561345	110590177	35773845	28	13057											
TBC1D13	54662	hgsc.bcm.edu	37	chr9	131553914	131553914	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaaatgatcatccagcCtggcattgccaaggccaaca	13	6	11	11	0	1	1	1	1	0	0	2	3	2	2	4	3	3	1	4	3	3	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	131553914	C	A	131553914	3	1	250	1	0	0	0	0	1	0	0	0	15601	681	24	4	260	4	TBC1D13	9	131553914	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10		131553914	9659517	29	13058											
GPSM1	26086	hgsc.bcm.edu	37	chr9	139234168	139234168	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctccctctctggcagagtgGgcgagggccgggcgtgctgg	3	8	18	12	3	2	1	0	0	2	1	4	2	2	1	2	5	1	2	2	5	0	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	139234168	G	A	139234168	3	1	250	1	0	0	0	0	1	0	0	0	6734	1232	43	2	1009	2	GPSM1	9	139234168	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	7680254	139234168	1979263	30	13059											
AGPAT2	10555	hgsc.bcm.edu	37	chr9	139568309	139568309	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccggtggcaggtgtccacGagcgcagggacgtccgccgc	5	4	17	15	6	0	0	0	0	0	0	2	2	2	1	4	4	1	2	4	4	0	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	139568309	G	A	139568309	2	1	250	1	0	0	0	0	0	0	0	1	387	1045	37	1		1	AGPAT2	9	139568309	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	334141	139568309	1645122	31	13060											
IL15RA	3601	hgsc.bcm.edu;ucsc.edu	37	chr10	6001735	6001735	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accagtggtgtcgctgtggcCctgtggatacacacctgcgg	6	9	14	12	2	0	0	0	0	0	0	1	1	0	1	3	4	2	1	3	4	1	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	6001735	C	A	6001735	3	1	250	1	0	0	0	0	1	0	0	0	7632	623	22	4	217	4	IL15RA	10	6001735	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10		6001735	129533012	32	13061											
RET	5979	hgsc.bcm.edu	37	chr10	43613844	43613844	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcctccccgagtgagctgCgagacctgctgtcagagttc	7	8	12	14	3	1	3	1	1	0	2	3	5	2	3	4	0	3	3	4	0	0	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	43613844	C	A	43613844	2	1	250	1	0	0	0	0	0	0	0	1	13237	760	27	4		4	RET	10	43613844	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	37612109	43613844	91920903	33	13062											
EBF3	253738	hgsc.bcm.edu	37	chr10	131671770	131671770	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtctaggcggcgggcccGcctcccgtgtttggaattgt	3	10	16	12	5	1	0	0	0	1	0	2	1	2	1	3	5	0	1	3	5	2	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	131671770	G	A	131671770	3	1	250	1	0	0	0	0	1	0	0	0	4882	1086	38	1	964	1	EBF3	10	131671770	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	88057926	131671770	3862977	34	13063											
TUB	7275	hgsc.bcm.edu;ucsc.edu	37	chr11	8118839	8118839	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacgttgaggtccaggatcTtgaggagtttgcactgaggc	8	10	16	7	1	1	3	0	3	1	0	2	6	2	6	1	5	1	3	1	5	0	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	8118839	T	A	8118839	3	1	250	1	0	0	0	0	1	0	0	0	16741	1609	56	5	989	5	TUB	11	8118839	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10		8118839	126887677	35	13064											
SBF2	81846	hgsc.bcm.edu	37	chr11	9829597	9829597	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gactggagcaaaaccactccCctgacagttgagggtcaagc	12	6	11	12	0	1	2	1	2	0	0	2	4	2	3	3	2	3	2	3	2	3	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	9829597	C	A	9829597	3	1	250	1	0	0	0	0	1	0	0	0	13861	623	22	4	1192	4	SBF2	11	9829597	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	1710758	9829597	125176919	36	13065											
HYOU1	10525	hgsc.bcm.edu	37	chr11	118923033	118923033	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catttcggcactctggagggCctgctgtacaggcccaggca	7	8	13	13	1	1	0	0	0	1	0	2	1	1	1	2	5	2	4	2	5	1	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	118923033	C	T	118923033	3	4	250	1	0	0	0	0	1	0	0	0	7470	739	26	2	1971	2	HYOU1	11	118923033	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	109093436	118923033	16083483	37	13066											
PPFIBP1	8496	hgsc.bcm.edu;ucsc.edu	37	chr12	27787873	27787873	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggaatattccaatgggaTttttgattgccaatctccca	10	15	7	9	0	2	1	0	1	2	0	4	3	3	3	3	2	1	0	3	2	4	5	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	27787873	T	G	27787873	3	3	250	1	0	0	0	0	1	0	0	0	12313	1493	52	5	101	5	PPFIBP1	12	27787873	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10		27787873	106064022	38	13067											
KLHDC5	57542	hgsc.bcm.edu;ucsc.edu	37	chr12	27944776	27944776	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacccaatcctctggctgaGttctctgcctgtgagtgtaa	7	14	9	11	0	2	2	0	2	2	0	4	2	3	2	3	1	2	3	3	1	3	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	27944776	G	A	27944776	2	1	250	1	0	0	0	0	0	0	0	1	8359	1020	36	2		2	KLHDC5	12	27944776	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	156903	27944776	105907119	39	13068											
DENND5B	160518	hgsc.bcm.edu	37	chr12	31540654	31540654	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcgcaggagagcgctctcTtcatacattcgagtgatggc	8	11	11	11	3	3	2	1	1	2	1	6	4	3	2	0	2	2	2	0	2	1	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	31540654	T	G	31540654	3	3	250	1	0	0	0	0	1	0	0	0	4437	1606	56	5	120	5	DENND5B	12	31540654	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10	3595878	31540654	102311241	40	13069											
GXYLT1	283464	hgsc.bcm.edu	37	chr12	42481617	42481617	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctttggtgatctggcataacGatctcttacactttttgcta	8	17	7	9	1	2	1	0	1	2	0	3	2	2	1	0	2	3	2	0	2	3	6	rs75740340		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	42481617	G	C	42481617	3	2	250	1	0	0	0	0	1	0	0	0	6903	1058	37	4	32	4	GXYLT1	12	42481617	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	10940963	42481617	91370278	41	13070											
KRT3	3850	hgsc.bcm.edu	37	chr12	53185580	53185580	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccccatgcctgccagcCgtggtctgcagctcccccaa	6	8	8	19	1	2	0	1	0	1	0	4	0	4	0	7	1	5	2	7	1	1	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	53185580	C	A	53185580	2	1	250	1	0	0	0	0	0	0	0	1	8466	639	23	4		4	KRT3	12	53185580	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	10703963	53185580	80666315	42	13071											
NCKAP1L	3071	hgsc.bcm.edu	37	chr12	54925591	54925591	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagtttcagggccatggcCcaagagggacttcgggaggt	8	8	15	10	1	2	1	2	0	0	1	3	3	2	3	2	5	0	1	2	5	1	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	54925591	C	T	54925591	2	4	250	1	0	0	0	0	0	0	0	1	10222	610	22	2		2	NCKAP1L	12	54925591	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	1740011	54925591	78926304	43	13072											
NAB2	4665	hgsc.bcm.edu	37	chr12	57485235	57485235	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tctgagactgcgggtacccgGaaagggagcatgagcaatgg	11	6	16	8	2	1	2	0	2	1	1	1	5	1	4	1	4	4	3	1	4	3	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	57485235	G	C	57485235	2	2	250	1	0	0	0	0	0	0	0	1	10132	1161	41	4		4	NAB2	12	57485235	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	2559644	57485235	76366660	44	13073											
XPOT	11260	hgsc.bcm.edu;ucsc.edu	37	chr12	64818820	64818820	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catattataccttggtaggaAttggcagactacacggttta	12	13	9	7	1	0	1	0	0	0	1	0	2	0	2	1	4	2	3	1	4	7	9	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	64818820	A	C	64818820	3	2	250	1	0	0	0	0	1	0	0	0	17449	101	4	5	1356	5	XPOT	12	64818820	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	7333585	64818820	69033075	45	13074											
DYRK2	8445	hgsc.bcm.edu	37	chr12	68052359	68052359	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggataactgagagcaccGgtgctatcacatctatatcc	14	9	8	10	1	2	1	1	1	1	1	3	3	3	2	2	2	3	2	2	2	5	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	68052359	G	T	68052359	3	4	250	1	0	0	0	0	1	0	0	0	4856	1116	39	4	1682	4	DYRK2	12	68052359	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	3233539	68052359	65799536	46	13075											
ZC3H13	23091	hgsc.bcm.edu;ucsc.edu	37	chr13	46539482	46539482	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgccagaatttcatctagTtcgtcatcactgattggctc	8	14	7	12	1	4	2	3	1	1	1	6	2	4	2	2	1	1	2	2	1	2	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	46539482	T	G	46539482	3	3	250	1	0	0	0	0	1	0	0	0	17564	1722	60	5	295	5	ZC3H13	13	46539482	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10		46539482	68630396	47	13076											
CLEC14A	161198	hgsc.bcm.edu	37	chr14	38723784	38723784	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	actagagccaagaggggactCcgccagcaaggcaccctctg	11	4	12	14	1	1	2	0	0	1	2	2	3	2	3	4	3	2	2	4	3	3	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	38723784	C	G	38723784	3	3	250	1	0	0	0	0	1	0	0	0	3499	864	30	4	32	4	CLEC14A	14	38723784	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10		38723784	68625756	48	13077											
ZFYVE26	23503	hgsc.bcm.edu;ucsc.edu	37	chr14	68260458	68260458	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctcattccggccagacAtggcactcagacttccctct	8	9	8	16	1	3	2	2	0	1	2	5	2	5	2	3	2	1	3	3	2	0	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	68260458	A	G	68260458	3	3	250	1	0	0	0	0	1	0	0	0	17667	217	8	3	5315	3	ZFYVE26	14	68260458	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	29536674	68260458	39089082	49	13078											
COQ6	51004	hgsc.bcm.edu	37	chr14	74428169	74428169	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcttagggatgcagcccAcagagtccatccgcttgcag	9	10	10	12	1	1	1	0	0	1	1	3	2	3	2	3	1	3	3	3	1	2	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	74428169	A	C	74428169	3	2	250	1	0	0	0	0	1	0	0	0	3749	159	6	5	1144	5	COQ6	14	74428169	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	6167711	74428169	32921371	50	13079											
TRIP11	9321	hgsc.bcm.edu	37	chr14	92469812	92469812	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaagagccttctccttcAttgagtggcactcaaactct	11	11	7	12	0	4	2	2	1	2	1	5	2	4	2	2	1	3	2	2	1	3	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	92469812	A	T	92469812	3	4	250	1	0	0	0	0	1	0	0	0	16554	217	8	5	1475	5	TRIP11	14	92469812	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	18041643	92469812	14879728	51	13080											
CCNK	8812	hgsc.bcm.edu	37	chr14	99959139	99959139	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaacttgaaggacttgAtccagccaccgaggcccggt	10	7	10	14	2	1	2	1	2	0	0	2	4	2	3	4	3	2	0	4	3	2	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	99959139	A	T	99959139	3	4	250	1	0	0	0	0	1	0	0	0	2930	333	12	5	127	5	CCNK	14	99959139	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	7489327	99959139	7390401	52	13081											
ADAL	161823	hgsc.bcm.edu;ucsc.edu	37	chr15	43638090	43638090	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaagaggtggccctttagTagccaaggagactgtaaaac	14	7	12	8	0	0	3	0	0	0	3	0	4	0	3	2	3	2	2	2	3	6	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	43638090	T	C	43638090	3	2	250	1	0	0	0	0	1	0	0	0	233	1638	57	3	486	3	ADAL	15	43638090	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10		43638090	58893302	53	13082											
IGDCC3	9543	hgsc.bcm.edu	37	chr15	65622992	65622992	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcttgaagccgccctcgTgctgggccagccggggccaa	7	5	14	15	3	0	1	0	1	0	0	1	1	0	1	5	3	4	2	5	3	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	65622992	T	G	65622992	3	3	250	1	0	0	0	0	1	0	0	0	7568	1696	59	5	815	5	IGDCC3	15	65622992	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10	21984902	65622992	36908400	54	13083											
DPP8	54878	hgsc.bcm.edu;ucsc.edu	37	chr15	65780068	65780068	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctgccctccttgtttcCaacataggggatgtaacatg	10	12	9	10	0	1	0	0	0	1	0	3	2	3	1	3	2	3	2	3	2	4	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	65780068	C	A	65780068	3	1	250	1	0	0	0	0	1	0	0	0	4732	593	21	4	1789	4	DPP8	15	65780068	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	157076	65780068	36751324	55	13084											
ATP2A1	487	hgsc.bcm.edu	37	chr16	28913193	28913193	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccctcagacaggtgatGgcgtcaatgacgcccctgcc	7	8	10	16	2	2	3	2	2	0	1	4	3	4	3	5	2	1	0	5	2	1	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	28913193	G	T	28913193	3	4	250	1	0	0	0	0	1	0	0	0	1136	1348	47	4	2172	4	ATP2A1	16	28913193	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10		28913193	61441560	56	13085											
SEPT1	1731	hgsc.bcm.edu	37	chr16	30389840	30389840	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctcttgcatgcggcgcAgctgtgcagggcgagattgc	6	9	15	11	3	1	1	0	0	1	1	2	2	1	1	0	2	5	5	0	2	0	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	30389840	A	G	30389840	3	3	250	1	0	0	0	0	1	0	0	0	14061	202	7	3	88	3	SEPT1	16	30389840	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	1476647	30389840	59964913	57	13086											
ABCC12	94160	hgsc.bcm.edu	37	chr16	48141279	48141279	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagccaccagttgctgaagGcagcgctgccaatcatcagg	10	6	11	14	1	2	1	2	1	0	0	2	1	2	1	4	2	4	4	4	2	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	48141279	G	A	48141279	3	1	250	1	0	0	0	0	1	0	0	0	52	1203	42	2	1698	2	ABCC12	16	48141279	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	17751439	48141279	42213474	58	13087											
RSPRY1	89970	hgsc.bcm.edu	37	chr16	57261305	57261305	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgcgtatgatggctgcCggcagctgatttggtacaat	7	12	13	9	2	0	2	0	2	0	0	0	2	0	2	2	3	4	5	2	3	3	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	57261305	C	A	57261305	2	1	250	1	0	0	0	0	0	0	0	1	13715	643	23	4		4	RSPRY1	16	57261305	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	9120026	57261305	33093448	59	13088											
GPR97	222487	hgsc.bcm.edu	37	chr16	57719575	57719575	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctggttccgtgaagggaCaaccatgtacgccctctata	10	10	10	11	2	1	1	0	1	1	0	2	2	2	2	3	2	3	3	3	2	5	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	57719575	C	A	57719575	3	1	250	1	0	0	0	0	1	0	0	0	6720	478	17	4	1319	4	GPR97	16	57719575	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	458270	57719575	32635178	60	13089											
PSKH1	5681	hgsc.bcm.edu	37	chr16	67942656	67942656	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgccctcgtgtccgtgatgGgctgtgggacaagcaaggtc	7	9	15	10	2	0	1	0	1	0	0	3	2	1	2	2	3	2	2	2	3	2	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	67942656	G	T	67942656	3	4	250	1	0	0	0	0	1	0	0	0	12666	1232	43	4	6	4	PSKH1	16	67942656	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	10223081	67942656	22412097	61	13090											
PSKH1	5681	hgsc.bcm.edu	37	chr16	67943579	67943579	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccggctgtaccggcagatCctcaggggcaagtacagtta	10	7	12	12	2	1	1	1	0	0	1	2	1	2	1	3	4	2	6	3	4	4	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	67943579	C	A	67943579	2	1	250	1	0	0	0	0	0	0	0	1	12666	845	30	4		4	PSKH1	16	67943579	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	923	67943579	22411174	62	13091											
IRF8	3394	hgsc.bcm.edu	37	chr16	85946834	85946834	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agactggtgggcgcagcagcCcagcacaggtgagggtgggt	8	5	19	9	1	0	2	0	1	0	1	0	2	0	2	1	5	3	3	1	5	0	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	85946834	C	A	85946834	3	1	250	1	0	0	0	0	1	0	0	0	7836	623	22	4	559	4	IRF8	16	85946834	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	18003255	85946834	4407919	63	13092											
PRDM7	11105	hgsc.bcm.edu;ucsc.edu	37	chr16	90130158	90130158	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaactagattcattattgaAtgacgccttgggcattccct	11	13	7	10	1	1	3	1	2	0	1	2	3	2	3	2	1	1	1	2	1	4	6	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	90130158	A	C	90130158	3	2	250	1	0	0	0	0	1	0	0	0	12463	101	4	5	1132	5	PRDM7	16	90130158	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	4183324	90130158	224595	64	13093											
SMG6	23293	hgsc.bcm.edu	37	chr17	2203200	2203200	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctccttggtcctatcctGtcggcggcggcgacatccat	4	11	10	16	4	1	0	0	0	1	0	6	1	4	0	5	4	0	0	5	4	1	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	2203200	G	A	2203200	4	1	250	1	0	0	0	0	0	1	0	0	14799	1386	48	2	3484	2	SMG6	17	2203200	Nonsense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10		2203200	78992010	65	13094											
KIAA0664	0	hgsc.bcm.edu	37	chr17	2597324	2597324	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgagctcacagccctccTtcaggaagcctgcagggcac	9	7	11	14	0	2	2	2	2	0	0	3	3	3	3	3	2	4	3	3	2	1	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	2597324	T	C	2597324	3	2	250	1	0	0	0	0	1	0	0	0	8189	1609	56	3	977	3	KIAA0664	17	2597324	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10	394124	2597324	78597886	66	13095											
OR3A1	4994	hgsc.bcm.edu	37	chr17	3195191	3195191	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctacagagcgaattcgcAggactgcagctgccacgtgg	9	7	12	13	3	1	1	0	0	1	1	2	3	1	2	2	2	5	3	2	2	2	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	3195191	A	T	3195191	3	4	250	1	0	0	0	0	1	0	0	0	11037	188	7	5	265	5	OR3A1	17	3195191	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	597867	3195191	78000019	67	13096											
NEURL4	84461	hgsc.bcm.edu	37	chr17	7226057	7226057	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgccctgctgccgcacctgGggagtgcagtgggaaggact	6	6	16	13	2	0	0	0	0	0	0	0	3	0	3	4	4	3	3	4	4	1	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	7226057	G	T	7226057	3	4	250	1	0	0	0	0	1	0	0	0	10347	1232	43	4	2022	4	NEURL4	17	7226057	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	4030866	7226057	73969153	68	13097											
TMEM102	284114	hgsc.bcm.edu	37	chr17	7339626	7339626	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacccctgggtccctacGcccggggacctcactacgat	7	7	10	17	3	1	0	1	0	0	0	2	2	2	1	5	3	3	1	5	3	2	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	7339626	G	C	7339626	3	2	250	1	0	0	0	0	1	0	0	0	16016	1087	38	4	334	4	TMEM102	17	7339626	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	113569	7339626	73855584	69	13098											
CD300LG	146894	hgsc.bcm.edu	37	chr17	41931333	41931334	+	Frame_Shift_Ins	INS	-	-	C																															ctctcctcctgcagggagctINScccgcccccccatgcagctg																								novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	41931334	-	C	41931333	7	5	250	1	0	1	1	0	0	0	0	0	3002	1551	54	0	654	0	CD300LG	17	41931333	Frame_Shift_Ins	INS	-	TCGA-BP-4759-01A-01D-1366-10	34591707	41931333	39263877	70	13099											
ABCA5	23461	hgsc.bcm.edu;ucsc.edu	37	chr17	67264115	67264115	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcattttccatggcaaagTaaggtggcattgcagtaaca	12	11	10	8	0	0	0	0	0	0	0	1	0	1	0	1	3	3	6	1	3	3	5	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	67264115	T	G	67264115	3	3	250	1	0	0	0	0	1	0	0	0	35	1638	57	5	1883	5	ABCA5	17	67264115	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10	25332782	67264115	13931095	71	13100											
SDK2	54549	hgsc.bcm.edu	37	chr17	71429894	71429894	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccaagtgatagctggtCggggcgcccccgaggtctca	6	8	14	13	3	2	1	1	1	2	0	4	2	2	1	3	4	2	1	3	4	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	71429894	C	A	71429894	3	1	250	1	0	0	0	0	1	0	0	0	13971	884	31	4	5373	4	SDK2	17	71429894	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01D-1366-10	4165779	71429894	9765316	72	13101											
METTL4	64863	hgsc.bcm.edu	37	chr18	2555005	2555005	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagaccttcctggatcaaCtgtaaagatccatccaaaat	14	11	6	10	0	1	2	1	1	0	2	4	4	4	3	4	1	1	1	4	1	5	3	rs61730027	bycluster;byfrequency;by1000genomes	TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	2555005	C	T	2555005	2	4	250	1	0	0	0	0	0	0	0	1	9502	564	20	2		2	METTL4	18	2555005	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10		2555005	75522243	73	13102											
TMEM200C	645369	hgsc.bcm.edu	37	chr18	5891547	5891547	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaagatgccgatgcccatGatgaggggcccgaagacctt	11	6	14	10	2	0	4	0	2	0	2	0	7	0	5	4	3	2	0	4	3	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	5891547	G	A	5891547	2	1	250	1	0	0	0	0	0	0	0	1	16124	1280	45	2		2	TMEM200C	18	5891547	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	3336542	5891547	72185701	74	13103											
SLC39A6	25800	hgsc.bcm.edu	37	chr18	33706899	33706899	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggggaaagcagctgctttTagttcatgaaggggatttgt	9	13	15	4	0	1	1	1	1	0	0	1	3	1	3	0	4	3	4	0	4	3	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	33706899	T	C	33706899	2	2	250	1	0	0	0	0	0	0	0	1	14624	1741	61	3		3	SLC39A6	18	33706899	Silent	SNP	T	TCGA-BP-4759-01A-01D-1366-10	27815352	33706899	44370349	75	13104											
MBD1	4152	hgsc.bcm.edu;ucsc.edu	37	chr18	47799782	47799782	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcgtcctgggtatccgcCttctcttgcttcacctgggg	3	13	10	15	2	2	0	1	0	1	0	6	0	4	0	4	3	1	2	4	3	1	4	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	47799782	C	T	47799782	2	4	250	1	0	0	0	0	0	0	0	1	9342	680	24	2		2	MBD1	18	47799782	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	14092883	47799782	30277466	76	13105											
VAV1	7409	hgsc.bcm.edu	37	chr19	6828447	6828447	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggagctggtgaaacacacGcaggaggcgatggagaagga	14	3	17	7	2	0	2	0	1	0	1	0	7	0	5	0	6	2	2	0	6	2	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	6828447	G	A	6828447	2	1	250	1	0	0	0	0	0	0	0	1	17130	1074	38	1		1	VAV1	19	6828447	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10		6828447	52300536	77	13106											
RASAL3	64926	hgsc.bcm.edu;ucsc.edu	37	chr19	15565261	15565261	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgccctggtaaccactggGggcagcatccacatccacca	10	6	9	16	0	0	0	0	0	0	0	2	0	2	0	5	3	3	3	5	3	1	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	15565261	G	A	15565261	3	1	250	1	0	0	0	0	1	0	0	0	13067	1232	43	2	988	2	RASAL3	19	15565261	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	8736814	15565261	43563722	78	13107											
CPAMD8	27151	hgsc.bcm.edu	37	chr19	17113103	17113103	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacagtgcctgtctcacagGcgtccaggtcttggatatac	8	10	11	12	1	2	0	1	0	2	0	4	1	3	1	2	3	2	1	2	3	2	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	17113103	G	A	17113103	3	1	250	1	0	0	0	0	1	0	0	0	3795	1203	42	2	5062	2	CPAMD8	19	17113103	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	1547842	17113103	42015880	79	13108											
KCNN1	3780	hgsc.bcm.edu;ucsc.edu	37	chr19	18100537	18100537	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccccaggtaaaaaacgccGctgctaacgttctcagggag	11	6	12	12	3	1	0	1	0	1	0	2	1	1	1	3	3	3	4	3	3	4	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	18100537	G	A	18100537	3	1	250	1	0	0	0	0	1	0	0	0	8078	1087	38	1	1205	1	KCNN1	19	18100537	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	987434	18100537	41028446	80	13109											
ZNF566	84924	hgsc.bcm.edu;ucsc.edu	37	chr19	36940081	36940081	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgatgtctagtaaggtctGagccagaacgaaaagccttt	12	11	10	8	1	3	3	0	2	3	1	3	4	3	3	2	1	3	1	2	1	5	3	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	36940081	G	T	36940081	4	4	250	1	0	0	0	0	0	1	0	0	17996	1294	45	4	205	4	ZNF566	19	36940081	Nonsense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10	18839544	36940081	22188902	81	13110											
KCNN4	3783	hgsc.bcm.edu;ucsc.edu	37	chr19	44276215	44276215	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggcaccacgtcaccataGccgatggtcaggaatgtgat	10	7	11	13	3	2	1	2	1	0	0	2	3	2	2	4	3	1	1	4	3	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	44276215	G	C	44276215	2	2	250	1	0	0	0	0	0	0	0	1	8081	958	34	4		4	KCNN4	19	44276215	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	7336134	44276215	14852768	82	13111											
ERCC1	2067	hgsc.bcm.edu	37	chr19	45917284	45917284	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttcacggtggtcagacaTtcagtcacctggaaagggtg	10	9	13	9	1	4	1	4	0	0	1	4	3	4	2	1	4	0	0	1	4	1	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	45917284	T	C	45917284	2	2	250	1	0	0	0	0	0	0	0	1	5212	1490	52	3		3	ERCC1	19	45917284	Silent	SNP	T	TCGA-BP-4759-01A-01D-1366-10	1641069	45917284	13211699	83	13112											
NFS1	9054	hgsc.bcm.edu;ucsc.edu	37	chr20	34285709	34285709	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtaagggagcatggcatcaAgcacccgggggtcctgaaca	11	5	15	10	1	1	1	1	1	0	0	2	2	2	2	2	5	3	4	2	5	3	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		T	34285709	A	T	34285709	3	4	250	1	0	0	0	0	1	0	0	0	10385	72	3	5	1196	5	NFS1	20	34285709	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10		34285709	28739811	84	13113											
PMM1	5372	hgsc.bcm.edu	37	chr22	41973900	41973900	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcgcttgtcccagccctcgGggaagacgtcaaagctgatc	9	7	12	13	3	1	2	1	1	0	1	4	3	2	3	2	2	3	2	2	2	2	1	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	41973900	G	C	41973900	3	2	250	1	0	0	0	0	1	0	0	0	12136	1232	43	4	218	4	PMM1	22	41973900	Missense_Mutation	SNP	G	TCGA-BP-4759-01A-01D-1366-10		41973900	9330666	85	13114											
ARSD	414	hgsc.bcm.edu	37	chrX	2836060	2836060	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaaaccgcaggtctggccGgcagccagggtgagaatccc	11	4	14	12	2	1	2	0	1	1	2	2	3	2	2	4	4	2	2	4	4	3	0	rs113318393	bycluster;by1000genomes	TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	2836060	G	A	2836060	2	1	250	1	0	0	0	0	0	0	0	1	989	1103	39	1		1	ARSD	23	2836060	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10		2836060	152434500	86	13115											
TLR7	51284	hgsc.bcm.edu;ucsc.edu	37	chrX	12906217	12906217	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacagcaagtcacctctatTtctgggatgtgtggtatatt	9	15	10	7	0	3	1	1	1	2	0	3	2	3	2	1	2	1	2	1	2	4	5	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		C	12906217	T	C	12906217	3	2	250	1	0	0	0	0	1	0	0	0	15955	1841	64	3	2596	3	TLR7	23	12906217	Missense_Mutation	SNP	T	TCGA-BP-4759-01A-01D-1366-10	10070157	12906217	142364343	87	13116											
CCDC120	90060	hgsc.bcm.edu	37	chrX	48919829	48919829	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtcaaaggtcagctgAtcagctctcctaccttcaat	11	11	8	11	0	5	1	4	1	1	0	6	2	5	2	2	2	3	2	2	2	4	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	48919829	A	G	48919829	3	3	250	1	0	0	0	0	1	0	0	0	2756	333	12	3	24	3	CCDC120	23	48919829	Missense_Mutation	SNP	A	TCGA-BP-4759-01A-01D-1366-10	36013612	48919829	106350731	88	13117											
GAGE10	643832	hgsc.bcm.edu	37	chrX	49173718	49173718	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggagatggtcctgatggCcaggagatgggcctgccaaa	9	8	16	8	0	0	3	0	1	0	2	1	5	1	3	4	5	1	0	4	5	1	0	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		G	49173718	C	G	49173718	2	3	250	1	0	0	0	0	0	0	0	1	6187	726	26	4		4	GAGE10	23	49173718	Silent	SNP	C	TCGA-BP-4759-01A-01D-1366-10	253889	49173718	106096842	89	13118											
SLC25A5	292	hgsc.bcm.edu	37	chrX	118604412	118604412	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actgtcactgctgttgccggGttgacttcctatccatttga	6	15	9	11	1	1	2	1	2	0	0	3	2	3	2	3	1	2	3	3	1	1	5	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	118604412	G	A	118604412	2	1	250	1	0	0	0	0	0	0	0	1	14514	1248	44	2		2	SLC25A5	23	118604412	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	69430694	118604412	36666148	90	13119											
ATP2B3	492	hgsc.bcm.edu	37	chrX	152815550	152815550	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccaggtgggcaataagacGgagtgcgccctgctgggctt	7	7	16	11	3	0	1	0	0	0	1	0	2	0	2	2	4	2	3	2	4	2	2	novel		TCGA-BP-4759-01A-01D-1366-10	TCGA-BP-4759-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a71f7878-9066-4d08-a7be-e643844e4c1b	42829599-0463-45ed-803a-2758cea4ea5c		A	152815550	G	A	152815550	2	1	250	1	0	0	0	0	0	0	0	1	1141	1103	39	1		1	ATP2B3	23	152815550	Silent	SNP	G	TCGA-BP-4759-01A-01D-1366-10	34211138	152815550	2455010	91	13120											
VHL	7428	hgsc.bcm.edu	37	chr3	10183725	10183725	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826	alternate_allele	TCGA-BP-4759-01A-01W-1362-10	TCGA-BP-4759-11A-01W-1363-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	5f466419-8d6e-4bab-92b6-7678a006a720	ef9eaae7-3722-4232-9650-9837c345b865		T	10183725	C	T	10183725	3	4	251	1	0	0	0	0	1	0	0	0	17161	893	31	1	196	1	VHL	3	10183725	Missense_Mutation	SNP	C	TCGA-BP-4759-01A-01W-1362-10		10183725	187838705	1	13121											
NASP	4678	hgsc.bcm.edu;ucsc.edu	37	chr1	46083164	46083164	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaagagagtccccggaaAgatgatgcaaagaaagccaa	18	3	13	7	1	0	4	0	1	0	3	1	8	1	6	3	2	2	1	3	2	5	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	46083164	A	G	46083164	2	3	252	1	0	0	0	0	0	0	0	1	10172	69	3	3		3	NASP	1	46083164	Silent	SNP	A	TCGA-BP-4761-01A-01D-1366-10		46083164	203167457	1	13122											
BEND5	79656	hgsc.bcm.edu	37	chr1	49202004	49202004	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtgacgcttctgttttTcagaacatctgttccccaaa	8	14	7	12	1	3	2	1	1	2	1	4	2	4	2	3	0	1	3	3	0	2	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	49202004	T	C	49202004	3	2	252	1	0	0	0	0	1	0	0	0	1401	1792	62	3	258	3	BEND5	1	49202004	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	3118840	49202004	200048617	2	13123											
ZNF644	84146	hgsc.bcm.edu;ucsc.edu	37	chr1	91404914	91404914	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacttgattgtgaggttgatCcaaatgttcgcttcacatct	9	16	8	8	1	2	3	1	3	1	0	4	3	3	3	1	1	1	3	1	1	2	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	91404914	C	A	91404914	3	1	252	1	0	0	0	0	1	0	0	0	18059	855	30	4	2002	4	ZNF644	1	91404914	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	42202910	91404914	157845707	3	13124											
BCAS2	10286	hgsc.bcm.edu	37	chr1	115112664	115112664	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgagttgcatgttctttCtctgccagtttaaatcttga	7	18	8	8	0	3	2	0	2	3	0	4	2	3	2	1	0	2	4	1	0	2	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	115112664	C	G	115112664	3	3	252	1	0	0	0	0	1	0	0	0	1351	913	32	4	185	4	BCAS2	1	115112664	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	23707750	115112664	134137957	4	13125											
TTF2	8458	hgsc.bcm.edu;ucsc.edu	37	chr1	117641487	117641487	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagatcaagcttgtgaccGaatttaccgagtagggcagc	12	9	12	8	2	1	3	1	2	0	1	1	5	1	3	2	1	3	3	2	1	5	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	117641487	G	A	117641487	3	1	252	1	0	0	0	0	1	0	0	0	16718	1058	37	1	3388	1	TTF2	1	117641487	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	2528823	117641487	131609134	5	13126											
MAN1A2	10905	hgsc.bcm.edu;ucsc.edu	37	chr1	117984948	117984948	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaatggtgaatttgaaaagGtaactctatgtgggtattct	12	14	11	4	0	2	2	0	2	2	0	2	2	2	2	0	3	1	3	0	3	7	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	117984948	G	A	117984948	5	1	252	1	0	0	0	0	0	0	1	0	9211	1275	44	2	973	2	MAN1A2	1	117984948	Splice_Site	SNP	G	TCGA-BP-4761-01A-01D-1366-10	343461	117984948	131265673	6	13127											
ACP6	51205	hgsc.bcm.edu;ucsc.edu	37	chr1	147119248	147119248	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcatttccaacttccaTcacctgagtttgagagcaga	10	13	6	12	0	3	3	2	2	1	2	5	4	5	3	3	0	2	2	3	0	1	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	147119248	T	G	147119248	3	3	252	1	0	0	0	0	1	0	0	0	165	1435	50	5	26	5	ACP6	1	147119248	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	29134300	147119248	102131373	7	13128											
SV2A	9900	hgsc.bcm.edu	37	chr1	149883492	149883492	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtcagccagacctccccaGaggaaggctcccaccatcat	10	5	9	17	1	2	2	2	0	0	2	4	3	4	3	6	3	1	1	6	3	1	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	149883492	G	A	149883492	2	1	252	1	0	0	0	0	0	0	0	1	15416	929	33	2		2	SV2A	1	149883492	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	2764244	149883492	99367129	8	13129											
GON4L	54856	hgsc.bcm.edu	37	chr1	155733233	155733233	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggctttccattccttcTgcttcttcttcctcctcttc	2	19	4	16	0	4	0	0	0	4	0	9	0	8	0	4	1	2	3	4	1	0	7	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	155733233	T	C	155733233	2	2	252	1	0	0	0	0	0	0	0	1	6572	1567	55	3		3	GON4L	1	155733233	Silent	SNP	T	TCGA-BP-4761-01A-01D-1366-10	5849741	155733233	93517388	9	13130											
ATF6	22926	hgsc.bcm.edu;ucsc.edu	37	chr1	161736220	161736220	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggactctttcacaggctgGatgaagattggggtgagtgg	8	10	17	6	1	2	3	1	2	1	1	2	5	2	5	0	6	0	1	0	6	1	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	161736220	G	T	161736220	3	4	252	1	0	0	0	0	1	0	0	0	1084	1174	41	4	72	4	ATF6	1	161736220	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	6002987	161736220	87514401	10	13131											
DUSP27	92235	hgsc.bcm.edu;ucsc.edu	37	chr1	167096184	167096184	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtgggcagtgagaacaagGaggaggtggtggagctcagc	11	5	20	5	0	1	1	1	1	0	1	1	5	1	4	0	7	3	2	0	7	2	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	167096184	G	T	167096184	4	4	252	1	0	0	0	0	0	1	0	0	4824	1175	41	4	1834	4	DUSP27	1	167096184	Nonsense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	5359964	167096184	82154437	11	13132											
RCSD1	92241	hgsc.bcm.edu	37	chr1	167663408	167663408	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcctggactcaaggctatgGtgtcgccatttcacagccca	8	10	10	13	1	2	0	2	0	0	0	4	1	3	1	3	3	1	1	3	3	2	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	167663408	G	T	167663408	3	4	252	1	0	0	0	0	1	0	0	0	13187	1261	44	4	361	4	RCSD1	1	167663408	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	567224	167663408	81587213	12	13133											
SCYL3	57147	hgsc.bcm.edu;ucsc.edu	37	chr1	169831811	169831811	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgctccacgtaggcctcGatgtgagacagcagcaccat	11	7	11	12	2	0	1	0	1	0	1	2	3	1	1	3	1	3	4	3	1	2	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	169831811	G	A	169831811	2	1	252	1	0	0	0	0	0	0	0	1	13951	1048	37	1		1	SCYL3	1	169831811	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	2168403	169831811	79418810	13	13134											
TNR	7143	hgsc.bcm.edu;ucsc.edu	37	chr1	175372418	175372418	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcgcataaacaggtaccGttggcacatctccccttccc	8	10	6	17	2	1	0	0	0	1	0	5	0	3	0	5	2	2	4	5	2	3	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	175372418	G	T	175372418	3	4	252	1	0	0	0	0	1	0	0	0	16337	1136	40	4	3322	4	TNR	1	175372418	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	5540607	175372418	73878203	14	13135											
PAPPA2	60676	hgsc.bcm.edu;ucsc.edu	37	chr1	176525830	176525830	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggggtgcagttgaagaGccggctgccccatgggtagg	7	7	18	9	1	0	3	0	2	0	1	0	3	0	3	3	5	3	4	3	5	2	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	176525830	G	T	176525830	3	4	252	1	0	0	0	0	1	0	0	0	11433	962	34	4	374	4	PAPPA2	1	176525830	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	1153412	176525830	72724791	15	13136											
LAMB3	3914	hgsc.bcm.edu	37	chr1	209796913	209796913	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctcagggccacaagcttGgggctgccggtgcctcctcc	5	7	13	16	1	1	0	1	0	0	0	3	0	3	0	6	4	4	2	6	4	1	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	209796913	G	A	209796913	2	1	252	1	0	0	0	0	0	0	0	1	8612	1335	47	2		2	LAMB3	1	209796913	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	33271083	209796913	39453708	16	13137											
HHAT	55733	hgsc.bcm.edu;ucsc.edu	37	chr1	210573841	210573841	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggattctcatgctctatggGatgtgggcctgctggtgtgt	4	15	15	7	0	2	0	1	0	2	0	3	2	2	2	1	4	2	2	1	4	1	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	210573841	G	T	210573841	2	4	252	1	0	0	0	0	0	0	0	1	7089	1161	41	4		4	HHAT	1	210573841	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	776928	210573841	38676780	17	13138											
RYR2	6262	hgsc.bcm.edu;ucsc.edu	37	chr1	237778053	237778053	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtggacgatgcaaagctGcaaggagctggtgaggaaga	13	6	17	5	1	0	2	0	1	0	1	0	6	0	5	0	4	4	4	0	4	3	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	237778053	G	A	237778053	2	1	252	1	0	0	0	0	0	0	0	1	13771	1306	46	2		2	RYR2	1	237778053	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	27204212	237778053	11472568	18	13139											
HNRNPU	3192	hgsc.bcm.edu;ucsc.edu	37	chr1	245022575	245022575	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagtcaaaaagaagctttAccaagtaacattccacttgt	16	11	5	9	0	2	1	2	0	0	1	3	1	3	1	2	0	3	2	2	0	6	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	245022575	A	G	245022575	5	3	252	1	0	0	0	0	0	0	1	0	7273	405	14	3	1398	3	HNRNPU	1	245022575	Splice_Site	SNP	A	TCGA-BP-4761-01A-01D-1366-10	7244522	245022575	4228046	19	13140											
ITSN2	50618	hgsc.bcm.edu;ucsc.edu	37	chr2	24493591	24493591	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatggttccttgcttcAaaggggtataatgctctata	10	15	8	8	0	4	0	3	0	1	0	5	0	5	0	1	3	2	4	1	3	5	7	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	24493591	A	G	24493591	2	3	252	1	0	0	0	0	0	0	0	1	7927	127	5	3		3	ITSN2	2	24493591	Silent	SNP	A	TCGA-BP-4761-01A-01D-1366-10		24493591	218705782	20	13141											
C2orf53	339779	hgsc.bcm.edu;ucsc.edu	37	chr2	27360063	27360063	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacctgttttggtgcccgagGtggaggcccggagaaacatc	8	8	15	10	2	0	1	0	0	0	1	1	5	0	2	3	5	2	1	3	5	1	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	27360063	G	T	27360063	3	4	252	1	0	0	0	0	1	0	0	0	2174	1261	44	4	107	4	C2orf53	2	27360063	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	2866472	27360063	215839310	21	13142											
EIF2AK2	5610	hgsc.bcm.edu	37	chr2	37374007	37374007	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcactcaccttcttttcctTattaagtatctcaacagcta	11	16	2	12	0	4	0	3	0	2	0	6	0	5	0	2	0	2	2	2	0	5	7	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	37374007	T	A	37374007	4	1	252	1	0	0	0	0	0	1	0	0	4997	1763	61	5	1482	5	EIF2AK2	2	37374007	Nonsense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	10013944	37374007	205825366	22	13143											
POLR1A	25885	hgsc.bcm.edu;ucsc.edu	37	chr2	86327173	86327173	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgctgaagtcctgcacgCaggtggagcacacctctttg	8	10	12	11	1	1	1	0	1	1	0	2	2	2	2	2	2	3	5	2	2	1	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	86327173	C	A	86327173	3	1	252	1	0	0	0	0	1	0	0	0	12209	710	25	4	5094	4	POLR1A	2	86327173	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	48953166	86327173	156872200	23	13144											
EPC2	26122	hgsc.bcm.edu	37	chr2	149447846	149447846	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagaaaaaaaagagagtatgGtcattcctgttcctgaggca	15	9	11	6	0	1	3	1	1	0	2	3	5	3	3	2	2	0	3	2	2	5	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	149447846	G	A	149447846	3	1	252	1	0	0	0	0	1	0	0	0	5161	1261	44	2	223	2	EPC2	2	149447846	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	63120673	149447846	93751527	24	13145											
NEB	4703	hgsc.bcm.edu	37	chr2	152467134	152467134	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcccatcccttggtgtaaaGtttctagggaagggataata	12	12	10	7	0	1	0	0	0	1	0	3	2	3	2	2	3	0	2	2	3	6	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	152467134	G	T	152467134	3	4	252	1	0	0	0	0	1	0	0	0	10302	1029	36	4	14184	4	NEB	2	152467134	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	3019288	152467134	90732239	25	13146											
AGFG1	3267	hgsc.bcm.edu;ucsc.edu	37	chr2	228398343	228398343	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccagtgctgattttggaaCcttcaatacttcccagagtc	9	13	7	12	0	1	2	1	1	0	1	4	3	3	3	3	1	3	1	3	1	3	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	228398343	C	A	228398343	3	1	252	1	0	0	0	0	1	0	0	0	380	507	18	4	995	4	AGFG1	2	228398343	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	75931209	228398343	14801030	26	13147											
ATXN7	6314	hgsc.bcm.edu;ucsc.edu	37	chr3	63938069	63938069	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagacatgccaatatttGgtttctgtccagcccatgat	9	14	8	10	0	1	2	0	1	1	1	2	2	2	2	3	1	3	2	3	1	2	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	63938069	G	C	63938069	3	2	252	1	0	0	0	0	1	0	0	0	1215	1348	47	4	419	4	ATXN7	3	63938069	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		63938069	134084361	27	13148											
CADM2	253559	hgsc.bcm.edu;ucsc.edu	37	chr3	85961677	85961677	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccctcaggtagccatgcaGgtgctagaaatacactgtaa	13	8	9	11	0	1	1	1	0	0	1	1	1	1	1	3	2	4	4	3	2	5	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	85961677	G	A	85961677	2	1	252	1	0	0	0	0	0	0	0	1	2567	991	35	2		2	CADM2	3	85961677	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	22023608	85961677	112060753	28	13149											
CLDND1	56650	hgsc.bcm.edu;ucsc.edu	37	chr3	98240229	98240229	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggaaatgaggctaagcaCacaagcaattacaaatgctg	16	7	11	7	0	0	1	0	1	0	0	0	2	0	2	0	3	4	4	0	3	6	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	98240229	C	A	98240229	3	1	252	1	0	0	0	0	1	0	0	0	3493	478	17	4	737	4	CLDND1	3	98240229	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	12278552	98240229	99782201	29	13150											
ZBTB38	253461	hgsc.bcm.edu;ucsc.edu	37	chr3	141161504	141161504	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaatacttaattatatcTacagttccacagtcgttgtc	12	15	5	9	1	1	1	0	1	1	0	4	1	2	1	1	0	2	2	1	0	6	7	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	141161504	T	G	141161504	3	3	252	1	0	0	0	0	1	0	0	0	17538	1522	53	5	276	5	ZBTB38	3	141161504	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	42921275	141161504	56860926	30	13151											
TFDP2	7029	hgsc.bcm.edu;ucsc.edu	37	chr3	141693004	141693004	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttaaagcatcataaacTcttcgcctaatgttcttctg	12	15	4	10	1	4	0	1	0	3	0	5	0	4	0	1	0	2	2	1	0	5	7	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	141693004	T	G	141693004	3	3	252	1	0	0	0	0	1	0	0	0	15797	1548	54	5	815	5	TFDP2	3	141693004	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	531500	141693004	56329426	31	13152											
RAP2B	5912	hgsc.bcm.edu;ucsc.edu	37	chr3	152880655	152880664	+	Frame_Shift_Del	DEL	CGGCGGGCAC	CGGCGGGCAC	-																															ggtgctggagatcctggataCggcgggcaccgagcagttcg																								novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	CGGCGGGCAC	CGGCGGGCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		-	152880664	CGGCGGGCAC	-	152880655	7	5	252	1	0	1	0	1	0	0	0	0	13043	536	19	0	175	0	RAP2B	3	152880655	Frame_Shift_Del	DEL	CGGCGGGCAC	TCGA-BP-4761-01A-01D-1366-10	11187651	152880655	45141775	32	13153											
SLC33A1	9197	hgsc.bcm.edu;ucsc.edu	37	chr3	155547594	155547594	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttcctcccagattggaCacggtatttaaaagggtcat	11	12	9	9	1	1	1	1	0	0	1	3	2	3	2	2	3	0	2	2	3	3	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	155547594	C	T	155547594	2	4	252	1	0	0	0	0	0	0	0	1	14568	465	17	2		2	SLC33A1	3	155547594	Silent	SNP	C	TCGA-BP-4761-01A-01D-1366-10	2666939	155547594	42474836	33	13154											
ACAP2	23527	hgsc.bcm.edu	37	chr3	195022890	195022890	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctgtggatggagatgatTtcttatccagcttctaaaag	10	15	9	7	0	2	2	0	1	2	1	4	4	4	3	2	2	1	1	2	2	3	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	195022890	T	A	195022890	3	1	252	1	0	0	0	0	1	0	0	0	119	1841	64	5	1246	5	ACAP2	3	195022890	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	39475296	195022890	2999540	34	13155											
KDR	3791	hgsc.bcm.edu;ucsc.edu	37	chr4	55968633	55968633	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttccccaatacttgtcGtctgattctccaggtttcct	5	17	6	13	1	2	1	0	1	2	0	6	1	4	1	4	1	2	2	4	1	2	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	55968633	G	A	55968633	3	1	252	1	0	0	0	0	1	0	0	0	8139	1145	40	1	2108	1	KDR	4	55968633	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		55968633	135185643	35	13156											
PPEF2	5470	hgsc.bcm.edu	37	chr4	76787408	76787408	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactccagcatgttgtctgcTgagctgttcaccagctgtgg	6	13	11	11	0	2	1	1	1	1	0	3	1	3	1	2	1	5	6	2	1	1	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	76787408	T	C	76787408	2	2	252	1	0	0	0	0	0	0	0	1	12308	1567	55	3		3	PPEF2	4	76787408	Silent	SNP	T	TCGA-BP-4761-01A-01D-1366-10	20818775	76787408	114366868	36	13157											
SNX18	112574	hgsc.bcm.edu;ucsc.edu	37	chr5	53839014	53839014	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatttttaactacaggagctCttaccaaagtcaaggagagt	14	12	8	7	0	2	1	1	0	1	1	2	3	2	2	1	2	4	1	1	2	6	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	53839014	C	G	53839014	3	3	252	1	0	0	0	0	1	0	0	0	14891	913	32	4	1899	4	SNX18	5	53839014	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10		53839014	127076246	37	13158											
VCAN	1462	hgsc.bcm.edu;ucsc.edu	37	chr5	82837110	82837110	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggtccttcttttcagcCagaattctcttcaggagctg	6	15	9	11	0	4	1	2	0	2	1	6	2	5	2	2	2	3	2	2	2	1	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	82837110	C	T	82837110	3	4	252	1	0	0	0	0	1	0	0	0	17137	594	21	2	8314	2	VCAN	5	82837110	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	28998096	82837110	98078150	38	13159											
ADAMTS19	171019	hgsc.bcm.edu	37	chr5	128984499	128984499	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcttttctaggctagattCtgaagcaagggattgtaatg	10	16	10	5	0	3	2	0	1	3	1	3	3	3	3	0	2	1	3	0	2	5	8	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	128984499	C	T	128984499	3	4	252	1	0	0	0	0	1	0	0	0	264	913	32	2	2044	2	ADAMTS19	5	128984499	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	46147389	128984499	51930761	39	13160											
PLAC8L1	153770	hgsc.bcm.edu;ucsc.edu	37	chr5	145483813	145483813	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtgacaacagaggtgagTatatgttgagtaaggaaaga	15	10	14	2	0	0	5	0	3	0	2	0	6	0	6	0	2	1	3	0	2	5	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	145483813	T	A	145483813	3	1	252	1	0	0	0	0	1	0	0	0	12016	1638	57	5	487	5	PLAC8L1	5	145483813	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	16499314	145483813	35431447	40	13161											
RREB1	6239	hgsc.bcm.edu	37	chr6	7231121	7231121	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccctggtcccctatgactGctccatggagcccatcgacc	6	10	8	17	1	0	1	0	1	0	0	4	3	3	2	6	2	2	1	6	2	1	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	7231121	G	A	7231121	3	1	252	1	0	0	0	0	1	0	0	0	13681	1319	46	2	2815	2	RREB1	6	7231121	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		7231121	163883946	41	13162											
BTBD9	114781	hgsc.bcm.edu;ucsc.edu	37	chr6	38224273	38224273	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctatagcttcgatcatCacaatcccaaagtagtaacc	14	10	6	11	1	2	0	2	0	0	0	4	1	3	0	2	0	3	5	2	0	7	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	38224273	C	A	38224273	3	1	252	1	0	0	0	0	1	0	0	0	1548	826	29	4	376	4	BTBD9	6	38224273	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	30993152	38224273	132890794	42	13163											
CUL9	23113	hgsc.bcm.edu;ucsc.edu	37	chr6	43182827	43182827	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctatccaggtgctggaggCctggcagaagggtccaaatc	9	8	13	11	0	0	1	0	0	0	1	4	2	3	2	4	5	1	2	4	5	3	1	rs146106470	alternate_allele	TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	43182827	C	A	43182827	3	1	252	1	0	0	0	0	1	0	0	0	4061	739	26	4	5813	4	CUL9	6	43182827	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	4958554	43182827	127932240	43	13164											
HMGCLL1	54511	hgsc.bcm.edu;ucsc.edu	37	chr6	55406919	55406919	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttaacaaactcagggagtCcagataactgggatgtttcc	12	12	9	8	0	1	1	1	0	0	1	3	3	3	3	2	2	3	1	2	2	3	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	55406919	C	A	55406919	3	1	252	1	0	0	0	0	1	0	0	0	7230	855	30	4	926	4	HMGCLL1	6	55406919	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	12224092	55406919	115708148	44	13165											
NMBR	4829	hgsc.bcm.edu	37	chr6	142409628	142409628	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgttgcccagcaagccCacggtgatgatgagcaggta	11	8	13	9	1	0	4	0	4	0	0	0	4	0	4	2	2	4	4	2	2	2	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	142409628	C	T	142409628	2	4	252	1	0	0	0	0	0	0	0	1	10487	581	21	2		2	NMBR	6	142409628	Silent	SNP	C	TCGA-BP-4761-01A-01D-1366-10	87002709	142409628	28705439	45	13166											
KIAA1549	57670	hgsc.bcm.edu	37	chr7	138546115	138546115	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacggctggggtgggatgtActgggaggccgggaagggaa	8	5	23	5	2	0	0	0	0	0	0	0	5	0	5	1	9	1	2	1	9	3	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	138546115	A	G	138546115	3	3	252	1	0	0	0	0	1	0	0	0	8244	391	14	3	855	3	KIAA1549	7	138546115	Missense_Mutation	SNP	A	TCGA-BP-4761-01A-01D-1366-10		138546115	20592548	46	13167											
PPP2CB	5516	hgsc.bcm.edu	37	chr8	30643766	30643766	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatttataggaagtagtcTggggtgcgccgtgtaacatg	11	11	14	5	2	1	0	0	0	1	0	1	2	1	1	1	3	2	2	1	3	6	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	30643766	T	G	30643766	2	3	252	1	0	0	0	0	0	0	0	1	12383	1567	55	5		5	PPP2CB	8	30643766	Silent	SNP	T	TCGA-BP-4761-01A-01D-1366-10		30643766	115720256	47	13168											
CDH17	1015	hgsc.bcm.edu	37	chr8	95183103	95183103	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccttttcttctcggtcCaagggctgagtcacgtaaat	8	13	9	11	2	3	1	1	1	2	0	6	1	5	1	2	2	0	3	2	2	3	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	95183103	C	A	95183103	3	1	252	1	0	0	0	0	1	0	0	0	3102	593	21	4	1648	4	CDH17	8	95183103	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	64539337	95183103	51180919	48	13169											
DPY19L4	286148	hgsc.bcm.edu	37	chr8	95793334	95793334	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcccagattaatgacagAattaatggaactacaggaat	16	12	7	6	0	0	3	0	1	0	2	1	5	1	5	1	2	2	0	1	2	6	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	95793334	A	C	95793334	3	2	252	1	0	0	0	0	1	0	0	0	4743	246	9	5	1717	5	DPY19L4	8	95793334	Missense_Mutation	SNP	A	TCGA-BP-4761-01A-01D-1366-10	610231	95793334	50570688	49	13170											
RIMS2	9699	hgsc.bcm.edu	37	chr8	104987673	104987673	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaccatcagggtctcctCatcgagtagatgttatagga	10	12	10	9	1	4	1	3	0	1	1	6	3	4	2	2	2	0	3	2	2	3	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	104987673	C	A	104987673	3	1	252	1	0	0	0	0	1	0	0	0	13370	826	29	4	3054	4	RIMS2	8	104987673	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	9194339	104987673	41376349	50	13171											
DEPDC6	0	hgsc.bcm.edu;ucsc.edu	37	chr8	121021276	121021276	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctctctagattgttggTgacgcggttggctggggttt	3	17	14	7	2	1	2	0	1	1	1	3	2	2	2	1	5	0	4	1	5	1	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	121021276	T	C	121021276	2	2	252	1	0	0	0	0	0	0	0	1	4443	1683	59	3		3	DEPDC6	8	121021276	Silent	SNP	T	TCGA-BP-4761-01A-01D-1366-10	16033603	121021276	25342746	51	13172											
SMARCA2	6595	hgsc.bcm.edu;ucsc.edu	37	chr9	2081838	2081838	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actcttcatttcagctccagGgcctggaatggatggtttcc	7	13	10	11	0	3	0	2	0	1	0	5	2	5	2	3	4	1	2	3	4	1	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	2081838	G	T	2081838	3	4	252	1	0	0	0	0	1	0	0	0	14771	1232	43	4	2245	4	SMARCA2	9	2081838	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		2081838	139131593	52	13173											
DOLPP1	57171	hgsc.bcm.edu	37	chr9	131848530	131848530	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtcctcaccccgctgttcCccaggatagcagcctggtaa	8	8	10	15	1	1	0	1	0	0	0	3	1	3	1	6	3	2	4	6	3	2	3	rs140111931		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	131848530	C	T	131848530	3	4	252	1	0	0	0	0	1	0	0	0	4704	623	22	2	596	2	DOLPP1	9	131848530	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	129766692	131848530	9364901	53	13174											
ITIH2	3698	hgsc.bcm.edu;ucsc.edu	37	chr10	7780665	7780665	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacgcccgtgatctccaTgctggcacaaggatctcagg	10	7	10	14	2	2	1	1	1	2	0	4	2	2	2	3	3	2	2	3	3	2	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	7780665	T	C	7780665	3	2	252	1	0	0	0	0	1	0	0	0	7904	1464	51	3	2101	3	ITIH2	10	7780665	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10		7780665	127754082	54	13175											
CDHR1	92211	hgsc.bcm.edu;ucsc.edu	37	chr10	85960364	85960364	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccccctcaggacatacCtgctgggagcatcatcttta	9	10	9	13	0	3	1	2	1	1	0	3	3	3	3	3	2	3	2	3	2	2	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	85960364	C	T	85960364	3	4	252	1	0	0	0	0	1	0	0	0	3118	681	24	2	468	2	CDHR1	10	85960364	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	78179699	85960364	49574383	55	13176											
ACCSL	390110	hgsc.bcm.edu;ucsc.edu	37	chr11	44081417	44081417	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggttctgtgatgtgctgcagGagcagaaggaggctttgata	9	11	16	5	0	1	3	0	2	1	1	1	5	1	5	0	4	3	5	0	4	2	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	44081417	G	A	44081417	3	1	252	1	0	0	0	0	1	0	0	0	134	1175	41	2	1708	2	ACCSL	11	44081417	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		44081417	90925099	56	13177											
NRXN2	9379	hgsc.bcm.edu;ucsc.edu	37	chr11	64417942	64417942	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagatcgaggtttcgggcGccattggagtgctgcgtgac	6	11	16	8	4	0	2	0	2	0	1	2	5	0	3	1	3	2	2	1	3	0	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	64417942	G	A	64417942	2	1	252	1	0	0	0	0	0	0	0	1	10666	1074	38	1		1	NRXN2	11	64417942	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	20336525	64417942	70588574	57	13178											
ARHGAP20	57569	hgsc.bcm.edu;ucsc.edu	37	chr11	110451543	110451543	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagctttgaatccagataGtcgatgctgggctctgagca	11	10	12	8	1	1	3	0	2	1	1	3	5	2	3	1	1	3	4	1	1	3	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	110451543	G	T	110451543	3	4	252	1	0	0	0	0	1	0	0	0	870	1020	36	4	1452	4	ARHGAP20	11	110451543	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	46033601	110451543	24554973	58	13179											
DDX23	9416	hgsc.bcm.edu;ucsc.edu	37	chr12	49224320	49224320	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcttatgctgggcatctgGgtggttggctagttcggggg	3	13	19	6	1	1	0	0	0	1	0	2	0	1	0	0	7	1	6	0	7	2	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	49224320	G	C	49224320	3	2	252	1	0	0	0	0	1	0	0	0	4350	1232	43	4	71	4	DDX23	12	49224320	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		49224320	84627575	59	13180											
LIMA1	51474	hgsc.bcm.edu	37	chr12	50589647	50589647	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggtggaacggactgcCaggctattctcatttgcaga	9	9	14	9	1	1	1	1	0	1	1	2	3	1	3	1	5	3	3	1	5	2	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	50589647	C	T	50589647	2	4	252	1	0	0	0	0	0	0	0	1	8796	581	21	2		2	LIMA1	12	50589647	Silent	SNP	C	TCGA-BP-4761-01A-01D-1366-10	1365327	50589647	83262248	60	13181											
KDM2B	84678	hgsc.bcm.edu;ucsc.edu	37	chr12	122013702	122013702	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacttaattcccagtccatCcttttctcgaaatatcaggg	10	15	5	11	1	2	0	1	0	1	0	6	1	5	0	3	1	1	0	3	1	4	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	122013702	C	A	122013702	3	1	252	1	0	0	0	0	1	0	0	0	8125	855	30	4	3812	4	KDM2B	12	122013702	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	71424055	122013702	11838193	61	13182											
MPHOSPH8	54737	hgsc.bcm.edu	37	chr13	20208028	20208028	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccgcgagaggagcggaggCctttggcgacagtgaggagg	9	4	20	8	4	0	2	0	1	0	1	0	7	0	5	2	6	2	0	2	6	0	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	20208028	C	G	20208028	3	3	252	1	0	0	0	0	1	0	0	0	9727	739	26	4	142	4	MPHOSPH8	13	20208028	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10		20208028	94961850	62	13183											
IRF9	10379	hgsc.bcm.edu;ucsc.edu	37	chr14	24632648	24632648	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agttctgtgtcctctgagagGaaggaggaagaggatgccat	11	9	15	6	0	2	2	0	1	2	2	3	7	3	6	2	4	1	1	2	4	2	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	24632648	G	A	24632648	2	1	252	1	0	0	0	0	0	0	0	1	7837	1165	41	2		2	IRF9	14	24632648	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10		24632648	82716892	63	13184											
DUOXA1	90527	hgsc.bcm.edu;ucsc.edu	37	chr15	45412946	45412946	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatagttctcacccaggCgccaggtgaactcctcgttg	8	9	10	14	2	1	1	1	1	1	0	4	1	2	1	3	2	2	3	3	2	2	3	rs75981505	byfrequency;by1000genomes;alternate_allele	TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	45412946	C	T	45412946	3	4	252	1	0	0	0	0	1	0	0	0	4802	768	27	1	1073	1	DUOXA1	15	45412946	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10		45412946	57118446	64	13185											
RBBP6	5930	hgsc.bcm.edu;ucsc.edu	37	chr16	24580912	24580912	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaacctacaggtgttgaAgaaaataaaacagactcatt	19	8	8	6	0	1	4	1	1	0	3	1	5	1	4	1	1	3	1	1	1	7	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	24580912	A	G	24580912	2	3	252	1	0	0	0	0	0	0	0	1	13105	69	3	3		3	RBBP6	16	24580912	Silent	SNP	A	TCGA-BP-4761-01A-01D-1366-10		24580912	65773841	65	13186											
ZNF423	23090	hgsc.bcm.edu;ucsc.edu	37	chr16	49670635	49670635	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggccttgctgcagaactTacagttatacttcttgctgt	9	14	9	9	0	1	1	0	0	1	1	1	2	1	1	1	1	6	4	1	1	5	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	49670635	T	C	49670635	3	2	252	1	0	0	0	0	1	0	0	0	17897	1763	61	3	1446	3	ZNF423	16	49670635	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	25089723	49670635	40684118	66	13187											
BANP	54971	hgsc.bcm.edu	37	chr16	88052146	88052146	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccaactgccgcacggcCgagaagatggcgctcacgct	10	4	12	15	5	1	2	1	0	0	2	1	3	1	2	3	2	3	4	3	2	2	0	rs17850504	bycluster;byfrequency;by1000genomes	TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	88052146	C	T	88052146	2	4	252	1	0	0	0	0	0	0	0	1	1310	639	23	1		1	BANP	16	88052146	Silent	SNP	C	TCGA-BP-4761-01A-01D-1366-10	38381511	88052146	2302607	67	13188											
DEF8	54849	hgsc.bcm.edu	37	chr16	90020723	90020723	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaccccttcaacaagcaGtctgggccgagacagcatga	12	6	9	14	1	3	2	2	1	1	1	3	3	3	2	3	1	4	2	3	1	3	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	90020723	G	T	90020723	3	4	252	1	0	0	0	0	1	0	0	0	4387	1020	36	4	252	4	DEF8	16	90020723	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	1968577	90020723	334030	68	13189											
ITGAE	3682	hgsc.bcm.edu;ucsc.edu	37	chr17	3667207	3667207	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacaagggaacatcgaTggaggggccctggtgtcctc	8	7	15	11	1	0	0	0	0	0	0	3	4	1	3	3	6	1	0	3	6	2	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	3667207	T	C	3667207	3	2	252	1	0	0	0	0	1	0	0	0	7885	1464	51	3	3452	3	ITGAE	17	3667207	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10		3667207	77528003	69	13190											
GPR172B	0	hgsc.bcm.edu	37	chr17	4936580	4936582	+	In_Frame_Del	DEL	GCC	GCC	-																															aggaccacccctgcagtggtGcccaccaggggtgggcaggg																								novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	GCC	GCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		-	4936582	GCC	-	4936580	7	5	252	1	0	1	0	1	0	0	0	0	6670	1306	46	0	244	0	GPR172B	17	4936580	In_Frame_Del	DEL	GCC	TCGA-BP-4761-01A-01D-1366-10	1269373	4936580	76258630	70	13191											
PIK3R5	23533	hgsc.bcm.edu	37	chr17	8791992	8791992	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagcagatggcgcgagAgggccggccccgaggcctgg	8	3	18	12	4	1	2	1	0	0	2	1	4	1	2	4	5	1	1	4	5	1	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	8791992	A	C	8791992	3	2	252	1	0	0	0	0	1	0	0	0	11922	304	11	5	1570	5	PIK3R5	17	8791992	Missense_Mutation	SNP	A	TCGA-BP-4761-01A-01D-1366-10	3855412	8791992	72403218	71	13192											
NBR1	4077	hgsc.bcm.edu;ucsc.edu	37	chr17	41327859	41327859	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgacttttaaaaatgaaAttcaaagctttctggtttct	13	17	6	5	0	3	2	1	2	2	0	3	2	3	2	0	1	1	2	0	1	5	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	41327859	A	T	41327859	3	4	252	1	0	0	0	0	1	0	0	0	10200	101	4	5	45	5	NBR1	17	41327859	Missense_Mutation	SNP	A	TCGA-BP-4761-01A-01D-1366-10	32535867	41327859	39867351	72	13193											
GPATCH8	23131	hgsc.bcm.edu;ucsc.edu	37	chr17	42475998	42475998	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcgggtagctgggagcttCcctatcagtggaaggacagg	8	10	15	8	1	1	0	1	0	0	0	3	3	2	3	1	5	2	3	1	5	3	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	42475998	C	T	42475998	2	4	252	1	0	0	0	0	0	0	0	1	6594	842	30	2		2	GPATCH8	17	42475998	Silent	SNP	C	TCGA-BP-4761-01A-01D-1366-10	1148139	42475998	38719212	73	13194											
SP2	6668	hgsc.bcm.edu;ucsc.edu	37	chr17	45993786	45993786	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tggtgttcgctatccagaatCccaccatgatcaacaaaggg	12	9	9	11	1	1	2	1	1	0	1	4	2	3	2	3	2	1	2	3	2	4	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	45993786	C	G	45993786	3	3	252	1	0	0	0	0	1	0	0	0	14966	855	30	4	359	4	SP2	17	45993786	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10	3517788	45993786	35201424	74	13195											
APPBP2	10513	hgsc.bcm.edu;ucsc.edu	37	chr17	58529363	58529363	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcttcttgaccaagaagtTgttctttaatctgaattgct	11	17	6	7	0	4	3	0	2	4	1	4	3	4	3	1	0	1	3	1	0	5	7	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	58529363	T	G	58529363	3	3	252	1	0	0	0	0	1	0	0	0	816	1812	63	5	383	5	APPBP2	17	58529363	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	12535577	58529363	22665847	75	13196											
NARF	26502	hgsc.bcm.edu;ucsc.edu	37	chr17	80430448	80430448	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctcctgcaggggtgcacTatgtatttgatacgacgata	9	13	10	9	2	1	1	0	1	1	0	3	3	2	1	1	2	3	3	1	2	4	5	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	80430448	T	A	80430448	3	1	252	1	0	0	0	0	1	0	0	0	10167	1522	53	5	412	5	NARF	17	80430448	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	21901085	80430448	764762	76	13197											
MEGF8	1954	hgsc.bcm.edu	37	chr19	42840365	42840365	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtttccgccttgacagcAccagcgggggctattgggag	6	9	14	12	3	0	1	0	1	0	0	2	2	2	2	4	3	2	3	4	3	1	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	42840365	A	G	42840365	3	3	252	1	0	0	0	0	1	0	0	0	9463	159	6	3	1133	3	MEGF8	19	42840365	Missense_Mutation	SNP	A	TCGA-BP-4761-01A-01D-1366-10		42840365	16288618	77	13198											
ZFP112	7771	hgsc.bcm.edu;ucsc.edu	37	chr19	44832958	44832958	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatctgaaggtcctgaaaaTgtgaggccagactgaagcca	13	8	11	9	0	1	5	0	4	1	1	2	5	2	5	3	2	1	0	3	2	5	1	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	44832958	T	A	44832958	3	1	252	1	0	0	0	0	1	0	0	0	17637	1464	51	5	1375	5	ZFP112	19	44832958	Missense_Mutation	SNP	T	TCGA-BP-4761-01A-01D-1366-10	1992593	44832958	14296025	78	13199											
PPP2R1A	5518	hgsc.bcm.edu;ucsc.edu	37	chr19	52729234	52729234	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagttctgtctctcgcctgAtgctggaagaggagcaaaca	10	10	11	10	1	2	2	0	1	2	1	4	4	2	4	1	2	3	3	1	2	3	2	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		G	52729234	A	G	52729234	3	3	252	1	0	0	0	0	1	0	0	0	12384	346	12	3	1828	3	PPP2R1A	19	52729234	Missense_Mutation	SNP	A	TCGA-BP-4761-01A-01D-1366-10	7896276	52729234	6399749	79	13200											
PTPRT	11122	hgsc.bcm.edu;ucsc.edu	37	chr20	41385109	41385109	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggcactcacctttcacGatcagctccgcgtagttgga	8	10	11	12	3	3	0	3	0	0	0	4	3	4	2	2	3	1	4	2	3	1	3	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	41385109	G	A	41385109	2	1	252	1	0	0	0	0	0	0	0	1	12814	1048	37	1		1	PTPRT	20	41385109	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10		41385109	21640411	80	13201											
SYCP2	10388	hgsc.bcm.edu;ucsc.edu	37	chr20	58455486	58455486	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatctgtactctgtttcaGtatcactaaacagatttttc	11	16	4	10	0	4	1	2	0	2	1	5	1	4	1	0	0	2	3	0	0	4	6	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	58455486	G	T	58455486	3	4	252	1	0	0	0	0	1	0	0	0	15431	1029	36	4	1839	4	SYCP2	20	58455486	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	17070377	58455486	4570034	81	13202											
CCT8L2	150160	hgsc.bcm.edu	37	chr22	17072822	17072822	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtccccccgggcagcgCgcacaccccaacacgctcag	8	3	10	20	4	1	0	1	0	0	0	2	0	2	0	5	1	2	3	5	1	1	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	17072822	C	T	17072822	3	4	252	1	0	0	0	0	1	0	0	0	2961	768	27	1	1058	1	CCT8L2	22	17072822	Missense_Mutation	SNP	C	TCGA-BP-4761-01A-01D-1366-10		17072822	34231744	82	13203											
PDGFB	5155	hgsc.bcm.edu	37	chr22	39621821	39621821	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccggcggactcgcaccgtCcgaatggtcacccgagtttg	6	7	14	14	6	1	0	1	0	0	0	3	3	2	1	4	4	0	2	4	4	1	1	rs148231529	alternate_allele	TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	39621821	C	A	39621821	2	1	252	1	0	0	0	0	0	0	0	1	11658	842	30	4		4	PDGFB	22	39621821	Silent	SNP	C	TCGA-BP-4761-01A-01D-1366-10	22548999	39621821	11682745	83	13204											
SEPT3	55964	hgsc.bcm.edu;ucsc.edu	37	chr22	42383241	42383241	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcggtgtcaaaatgaagctGaccgtcatcgacaccccagg	11	6	12	12	3	2	2	2	2	0	0	3	3	2	2	3	3	1	1	3	3	3	0	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		A	42383241	G	A	42383241	2	1	252	1	0	0	0	0	0	0	0	1	14067	1277	45	2		2	SEPT3	22	42383241	Silent	SNP	G	TCGA-BP-4761-01A-01D-1366-10	2761420	42383241	8921325	84	13205											
TUBGCP6	85378	hgsc.bcm.edu;ucsc.edu	37	chr22	50682713	50682713	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtagttttgacatgtcaGgctgcagctgttgagtctca	7	14	12	8	0	2	2	2	2	1	0	3	2	2	2	0	2	2	6	0	2	1	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		T	50682713	G	T	50682713	3	4	252	1	0	0	0	0	1	0	0	0	16769	1000	35	4	5383	4	TUBGCP6	22	50682713	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10	8299472	50682713	621853	85	13206											
ACSL4	2182	hgsc.bcm.edu	37	chrX	108926066	108926066	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtgagtccactaccaaaGttattcactctgcgattcac	11	11	7	12	1	3	1	2	1	1	0	4	2	4	1	2	0	2	2	2	0	3	4	novel		TCGA-BP-4761-01A-01D-1366-10	TCGA-BP-4761-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9f040c94-45f7-4bf8-8942-874f64582355	31b833b1-bdf1-414a-9a37-36039d4a7204		C	108926066	G	C	108926066	3	2	252	1	0	0	0	0	1	0	0	0	179	1020	36	4	1776	4	ACSL4	23	108926066	Missense_Mutation	SNP	G	TCGA-BP-4761-01A-01D-1366-10		108926066	46344494	86	13207											
CLCNKA	1187	hgsc.bcm.edu	37	chr1	16356522	16356522	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccctgagggcattgtgActggaggggttaccaatccc	7	10	12	12	0	0	2	0	2	0	0	2	3	2	3	4	4	1	2	4	4	2	3	rs71587743	alternate_allele	TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	16356522	A	G	16356522	3	3	253	1	0	0	0	0	1	0	0	0	3469	275	10	3	1410	3	CLCNKA	1	16356522	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10		16356522	232894099	1	13208											
TAS1R2	80834	hgsc.bcm.edu	37	chr1	19168259	19168259	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gaaggtgccgggaaggcagtCgatgcactcgaagcagcaga	12	4	16	9	3	0	1	0	0	0	1	2	5	0	2	1	3	4	4	1	3	3	0	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	19168259	C	G	19168259	3	3	253	1	0	0	0	0	1	0	0	0	15562	884	31	4	972	4	TAS1R2	1	19168259	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	2811737	19168259	230082362	2	13209											
PTPRU	10076	hgsc.bcm.edu;ucsc.edu	37	chr1	29618444	29618444	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaagacacacatgatgagCgccgtggaccgcagcttcac	12	5	12	12	3	1	4	1	2	0	2	1	6	1	5	2	1	2	2	2	1	1	1	rs41302038	byfrequency;by1000genomes;alternate_allele	TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	29618444	C	A	29618444	3	1	253	1	0	0	0	0	1	0	0	0	12815	767	27	4	2474	4	PTPRU	1	29618444	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	10450185	29618444	219632177	3	13210											
CSMD2	114784	hgsc.bcm.edu	37	chr1	34083218	34083218	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactgctcaggcccaccgCtagacaagacagagacagaa	16	3	9	13	1	1	4	1	0	0	4	1	5	1	4	2	1	2	2	2	1	4	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	34083218	C	T	34083218	5	4	253	1	0	0	0	0	0	0	1	0	3945	811	28	2	4884	2	CSMD2	1	34083218	Splice_Site	SNP	C	TCGA-BP-4762-01A-02D-1366-10	4464774	34083218	215167403	4	13211											
ZMYM4	9202	hgsc.bcm.edu;ucsc.edu	37	chr1	35871038	35871038	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtactcaagaccatgcactCtctcaagaatcctcagagcc	13	8	6	14	0	4	3	3	0	1	3	6	3	5	3	3	0	3	2	3	0	4	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	C	G	C	C	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	35871038	C	G	35871038	2	3	253	1	0	0	0	0	0	0	0	1	17701	900	32	4		4	ZMYM4	1	35871038	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	1787820	35871038	213379583	5	13212											
TRIT1	54802	hgsc.bcm.edu;ucsc.edu	37	chr1	40313333	40313333	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatgttgatagtcctggCtgggaacaggagggtatcag	10	10	14	7	0	1	1	1	1	0	0	2	3	2	3	2	4	2	3	2	4	4	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	40313333	C	A	40313333	5	1	253	1	0	0	0	0	0	0	1	0	16559	811	28	4	608	4	TRIT1	1	40313333	Splice_Site	SNP	C	TCGA-BP-4762-01A-02D-1366-10	4442295	40313333	208937288	6	13213											
NRD1	4898	hgsc.bcm.edu;ucsc.edu	37	chr1	52257262	52257262	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcacttgtatttggttGcctgagtccccacagtgaca	8	13	8	12	0	2	2	2	2	0	0	3	2	3	2	3	1	1	2	3	1	1	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	52257262	G	A	52257262	3	1	253	1	0	0	0	0	1	0	0	0	10645	1319	46	2	527	2	NRD1	1	52257262	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	11943929	52257262	196993359	7	13214											
CCBL2	56267	hgsc.bcm.edu;ucsc.edu	37	chr1	89430535	89430535	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctccctcatcaattaatgCttgaatggtgttaaaaagag	14	13	7	7	0	3	2	2	1	1	1	4	2	3	2	1	1	1	2	1	1	6	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	89430535	C	T	89430535	3	4	253	1	0	0	0	0	1	0	0	0	2733	797	28	2	974	2	CCBL2	1	89430535	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	37173273	89430535	159820086	8	13215											
AP4B1	10717	hgsc.bcm.edu;ucsc.edu	37	chr1	114440494	114440494	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgttctcttcacagccggGcagggcctgacatacagctt	9	10	10	12	1	2	1	1	1	1	0	3	1	2	1	2	2	3	3	2	2	2	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	114440494	G	A	114440494	3	1	253	1	0	0	0	0	1	0	0	0	751	1203	42	2	965	2	AP4B1	1	114440494	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	25009959	114440494	134810127	9	13216											
NBPF7	343505	hgsc.bcm.edu;ucsc.edu	37	chr1	120384043	120384043	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggacaaggtgccgtgccagCctacacccctcagccagctg	8	6	11	16	1	1	0	1	0	0	0	1	1	1	1	6	2	6	1	6	2	2	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	120384043	C	T	120384043	2	4	253	1	0	0	0	0	0	0	0	1	10198	738	26	2		2	NBPF7	1	120384043	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	5943549	120384043	128866578	10	13217											
BCL9	607	hgsc.bcm.edu	37	chr1	147095956	147095956	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctcacaatggccccagTggggggcagggcagcttccc	6	7	13	15	0	1	0	1	0	0	0	3	0	3	0	4	5	1	3	4	5	1	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	147095956	T	G	147095956	3	3	253	1	0	0	0	0	1	0	0	0	1381	1693	59	5	3503	5	BCL9	1	147095956	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	26711913	147095956	102154665	11	13218											
BAT2L2	0	hgsc.bcm.edu;ucsc.edu	37	chr1	171527018	171527018	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccctaccccagtctcaGccccaaatcctgccccacct	8	6	4	23	0	1	0	1	0	1	0	3	0	2	0	10	0	4	0	10	0	2	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	171527018	G	T	171527018	3	4	253	1	0	0	0	0	1	0	0	0	1321	971	34	4	5831	4	BAT2L2	1	171527018	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	24431062	171527018	77723603	12	13219											
PTPRC	5788	hgsc.bcm.edu;ucsc.edu	37	chr1	198704330	198704330	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgttgttgtaaagatcaaCcagcacaaaagatgtccaga	16	9	9	7	0	1	3	1	0	0	3	2	4	2	3	2	0	2	4	2	0	5	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	198704330	C	T	198704330	2	4	253	1	0	0	0	0	0	0	0	1	12799	506	18	2		2	PTPRC	1	198704330	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	27177312	198704330	50546291	13	13220											
CHI3L1	1116	hgsc.bcm.edu	37	chr1	203149655	203149655	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcctggaattcccggtccTgagattggggctccaacacc	7	8	12	14	2	0	1	0	1	0	1	3	3	3	2	5	5	1	1	5	5	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	203149655	T	G	203149655	2	3	253	1	0	0	0	0	0	0	0	1	3340	1567	55	5		5	CHI3L1	1	203149655	Silent	SNP	T	TCGA-BP-4762-01A-02D-1366-10	4445325	203149655	46100966	14	13221											
WDR26	80232	hgsc.bcm.edu;ucsc.edu	37	chr1	224606085	224606085	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggagagtctgtaaacgcCgtgggggaagcatcactgat	11	7	15	8	2	2	2	1	1	1	1	2	4	2	3	1	3	2	3	1	3	3	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	224606085	C	G	224606085	3	3	253	1	0	0	0	0	1	0	0	0	17282	652	23	4	1125	4	WDR26	1	224606085	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	21456430	224606085	24644536	15	13222											
KHK	3795	hgsc.bcm.edu	37	chr2	27319663	27319663	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagttcaagtggatccaCattgaggtaagccctgcctt	10	10	9	12	0	1	1	1	1	0	0	2	2	2	2	4	2	2	2	4	2	2	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	27319663	C	G	27319663	3	3	253	1	0	0	0	0	1	0	0	0	8149	477	17	4	564	4	KHK	2	27319663	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10		27319663	215879710	16	13223											
BIRC6	57448	hgsc.bcm.edu;ucsc.edu	37	chr2	32613998	32613998	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcggagtggggccaggcCgttctgtagacaggtatgaa	10	8	15	8	2	1	2	0	1	1	1	2	3	1	3	2	5	1	3	2	5	4	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	32613998	C	T	32613998	3	4	253	1	0	0	0	0	1	0	0	0	1438	652	23	1	840	1	BIRC6	2	32613998	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	5294335	32613998	210585375	17	13224											
ATP6V1B1	525	hgsc.bcm.edu;ucsc.edu	37	chr2	71188741	71188741	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtgaacatggagacaGccagattcttcaagtctgac	12	9	10	10	0	3	4	1	2	2	2	4	5	4	4	2	2	2	0	2	2	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	71188741	G	A	71188741	3	1	253	1	0	0	0	0	1	0	0	0	1178	971	34	2	733	2	ATP6V1B1	2	71188741	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	38574743	71188741	172010632	18	13225											
DGUOK	1716	hgsc.bcm.edu;ucsc.edu	37	chr2	74173854	74173854	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccctctaggcctgcacTgcccaaagtcttggaaactt	9	11	7	14	0	3	0	0	0	3	0	4	1	3	1	3	2	3	1	3	2	3	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	74173854	T	A	74173854	2	1	253	1	0	0	0	0	0	0	0	1	4475	1567	55	5		5	DGUOK	2	74173854	Silent	SNP	T	TCGA-BP-4762-01A-02D-1366-10	2985113	74173854	169025519	19	13226											
CCDC93	54520	hgsc.bcm.edu;ucsc.edu	37	chr2	118693136	118693136	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtaaaaactggtcccgggCagcaggggaggccatggccc	10	4	15	12	2	0	0	0	0	0	0	1	1	1	1	3	6	2	3	3	6	3	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	118693136	C	T	118693136	3	4	253	1	0	0	0	0	1	0	0	0	2872	710	25	2	244	2	CCDC93	2	118693136	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	44519282	118693136	124506237	20	13227											
NCKAP1	10787	hgsc.bcm.edu;ucsc.edu	37	chr2	183806831	183806831	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaacagtgcagccatctggtCtggtttgtcaaagctggtcc	9	11	11	10	0	3	0	1	0	2	0	4	0	4	0	2	3	4	3	2	3	2	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	183806831	C	G	183806831	3	3	253	1	0	0	0	0	1	0	0	0	10221	913	32	4	756	4	NCKAP1	2	183806831	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	65113695	183806831	59392542	21	13228											
EFHB	151651	hgsc.bcm.edu;ucsc.edu	37	chr3	19956903	19956903	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccacatctttagcagagtAttctgaaggaagaattaata	16	11	7	7	0	2	3	0	1	2	2	2	4	2	4	1	1	1	2	1	1	7	6	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	19956903	A	G	19956903	3	3	253	1	0	0	0	0	1	0	0	0	4945	449	16	3	1357	3	EFHB	3	19956903	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10		19956903	178065527	22	13229											
MUC13	56667	hgsc.bcm.edu	37	chr3	124653519	124653519	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttacctgtgtttacagaaAggagagcaagaagagtaaga	16	8	11	6	0	0	5	0	0	0	5	0	6	0	5	2	1	3	3	2	1	6	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	124653519	A	G	124653519	3	3	253	1	0	0	0	0	1	0	0	0	9971	72	3	3	1541	3	MUC13	3	124653519	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10	104696616	124653519	73368911	23	13230											
ZBTB38	253461	hgsc.bcm.edu;ucsc.edu	37	chr3	141163555	141163555	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagacccaaaagcattaaGgagaaaaagaaaactacatc	22	4	7	8	0	0	3	0	0	0	3	1	4	0	3	1	1	4	2	1	1	8	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	141163555	G	A	141163555	2	1	253	1	0	0	0	0	0	0	0	1	17538	991	35	2		2	ZBTB38	3	141163555	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10	16510036	141163555	56858875	24	13231											
ZNF732	654254	hgsc.bcm.edu	37	chr4	265967	265967	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtaaagatgttgccacattCttcacatgtgaagggtttct	10	14	10	7	0	3	2	1	1	2	1	3	2	3	2	1	2	1	3	1	2	3	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	265967	C	G	265967	3	3	253	1	0	0	0	0	1	0	0	0	18122	922	32	4	1082	4	ZNF732	4	265967	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10		265967	190888309	25	13232											
ZNF131	7690	hgsc.bcm.edu;ucsc.edu	37	chr5	43173498	43173498	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgtcacctcactgcatGccaaactggagtaggggcaa	13	7	11	10	0	2	0	2	0	0	0	2	2	2	1	2	3	3	3	2	3	4	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	43173498	G	A	43173498	3	1	253	1	0	0	0	0	1	0	0	0	17720	1319	46	2	1053	2	ZNF131	5	43173498	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10		43173498	137741762	26	13233											
WDR55	54853	hgsc.bcm.edu;ucsc.edu	37	chr5	140048292	140048292	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgggaccagcggaaggaggGccccttaatggatatgaggc	10	6	16	9	1	0	1	0	1	0	0	0	5	0	5	3	6	1	0	3	6	3	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	140048292	G	A	140048292	3	1	253	1	0	0	0	0	1	0	0	0	17306	1203	42	2	490	2	WDR55	5	140048292	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	96874794	140048292	40866968	27	13234											
PCDHB7	56129	hgsc.bcm.edu	37	chr5	140553793	140553793	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctcctacaccctgttTgtccgtgagaacaacagccc	11	8	6	16	1	0	1	0	1	0	1	2	2	2	1	5	0	5	1	5	0	4	2	rs114684348	byfrequency	TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	140553793	T	C	140553793	2	2	253	1	0	0	0	0	0	0	0	1	11547	1809	63	3		3	PCDHB7	5	140553793	Silent	SNP	T	TCGA-BP-4762-01A-02D-1366-10	505501	140553793	40361467	28	13235											
CYFIP2	26999	hgsc.bcm.edu	37	chr5	156738710	156738710	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcatcagcccccagtacaAtatctgcgagcagatggttc	11	8	9	13	1	2	1	1	0	1	1	3	2	2	1	2	1	5	4	2	1	3	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	156738710	A	G	156738710	3	3	253	1	0	0	0	0	1	0	0	0	4138	101	4	3	1069	3	CYFIP2	5	156738710	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10	16184917	156738710	24176550	29	13236											
ODZ2	0	hgsc.bcm.edu	37	chr5	167617459	167617459	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagggccagacggattGgcccgcagtgaagtccttct	8	8	13	12	2	2	2	1	1	1	1	3	3	3	3	3	3	1	2	3	3	1	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	167617459	G	A	167617459	4	1	253	1	0	0	0	0	0	1	0	0	10835	1357	47	2	2714	2	ODZ2	5	167617459	Nonsense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	10878749	167617459	13297801	30	13237											
ERVFRDE1	0	hgsc.bcm.edu;ucsc.edu	37	chr6	11105373	11105373	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctgggcgaggctggataAgctgtccctggtgtttcagt	5	13	14	9	1	2	0	1	0	1	0	4	2	3	1	1	4	1	3	1	4	1	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	11105373	A	C	11105373	2	2	253	1	0	0	0	0	0	0	0	1	5246	59	3	5		5	ERVFRDE1	6	11105373	Silent	SNP	A	TCGA-BP-4762-01A-02D-1366-10		11105373	160009694	31	13238											
PKHD1	5314	hgsc.bcm.edu;ucsc.edu	37	chr6	51890586	51890586	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgttgccctggaaggacTgtgtctcaacatcacagttc	9	11	9	12	1	3	0	3	0	1	0	5	2	3	2	1	2	2	2	1	2	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	51890586	T	C	51890586	3	2	253	1	0	0	0	0	1	0	0	0	11971	1580	55	3	8385	3	PKHD1	6	51890586	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	40785213	51890586	119224481	32	13239											
PLEKHG1	57480	hgsc.bcm.edu	37	chr6	151161484	151161484	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actaccctagtgatgtgggaAagcagcagctgctgtcttta	10	11	11	9	0	1	1	0	1	1	0	1	2	1	2	1	1	5	4	1	1	4	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	151161484	A	C	151161484	3	2	253	1	0	0	0	0	1	0	0	0	12068	15	1	5	3668	5	PLEKHG1	6	151161484	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10	99270898	151161484	19953583	33	13240											
NEUROD6	63974	hgsc.bcm.edu;ucsc.edu	37	chr7	31378184	31378184	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgcactgcaataattgtaGggtttcatggacttggaatt	11	14	10	6	1	1	0	1	0	0	0	1	2	1	2	0	3	2	4	0	3	5	7	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	31378184	G	T	31378184	2	4	253	1	0	0	0	0	0	0	0	1	10351	987	35	4		4	NEUROD6	7	31378184	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10		31378184	127760479	34	13241											
COBL	23242	hgsc.bcm.edu	37	chr7	51098568	51098570	+	In_Frame_Del	DEL	TCT	TCT	-																															actctccagcaattaataggTcttcttcatcatttgaggct																								rs142060269	bycluster;by1000genomes	TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		-	51098570	TCT	-	51098568	7	5	253	1	0	1	0	1	0	0	0	0	3653	1667	58	0	2360	0	COBL	7	51098568	In_Frame_Del	DEL	TCT	TCGA-BP-4762-01A-02D-1366-10	19720384	51098568	108040095	35	13242											
FAM200A	221786	hgsc.bcm.edu	37	chr7	99145240	99145240	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaattaacagttttcactGcatttttcaatacatccatc	14	16	2	9	0	2	0	2	0	0	0	4	0	3	0	1	0	3	2	1	0	5	7	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	99145240	G	T	99145240	3	4	253	1	0	0	0	0	1	0	0	0	5536	1319	46	4	934	4	FAM200A	7	99145240	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	48046672	99145240	59993423	36	13243											
NOS3	4846	hgsc.bcm.edu	37	chr7	150699340	150699340	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgaacacgagacgctggTgctggtggtaaccagcacat	10	7	12	12	3	0	1	0	0	0	1	1	3	0	1	2	3	4	4	2	3	2	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	150699340	T	C	150699340	3	2	253	1	0	0	0	0	1	0	0	0	10544	1696	59	3	1750	3	NOS3	7	150699340	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	51554100	150699340	8439323	37	13244											
PTK2B	2185	hgsc.bcm.edu	37	chr8	27295368	27295368	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatatgcaaagccatggcCtacctggagagcatcaactg	13	7	10	11	0	1	2	1	0	0	2	1	3	1	2	3	2	5	2	3	2	4	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	27295368	C	A	27295368	2	1	253	1	0	0	0	0	0	0	0	1	12765	668	24	4		4	PTK2B	8	27295368	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10		27295368	119068654	38	13245											
ST18	9705	hgsc.bcm.edu	37	chr8	53074097	53074097	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgatggcttgtgacgggaAattgaattcaatttgcttca	10	14	12	5	1	2	3	2	3	0	0	2	4	2	4	0	3	1	2	0	3	3	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	53074097	A	C	53074097	3	2	253	1	0	0	0	0	1	0	0	0	15213	14	1	5	1763	5	ST18	8	53074097	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10	25778729	53074097	93289925	39	13246											
MYC	4609	hgsc.bcm.edu	37	chr8	128750929	128750929	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggagcggcttctcggccGccgccaagctcgtctcagag	5	8	14	14	5	2	1	1	0	2	1	5	2	2	2	3	3	2	2	3	3	1	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	128750929	G	T	128750929	3	4	253	1	0	0	0	0	1	0	0	0	10016	1087	38	4	472	4	MYC	8	128750929	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	75676832	128750929	17613093	40	13247											
KCNK9	51305	hgsc.bcm.edu	37	chr8	140630792	140630792	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggccggctgggccgcggCtcctcagggatgtgaatgac	5	7	17	12	3	1	2	1	2	0	0	2	3	2	3	3	5	0	2	3	5	1	0	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	140630792	C	T	140630792	2	4	253	1	0	0	0	0	0	0	0	1	8072	796	28	2		2	KCNK9	8	140630792	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	11879863	140630792	5733230	41	13248											
TJP2	9414	hgsc.bcm.edu;ucsc.edu	37	chr9	71867781	71867781	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgcagttccaatcaaaacGcacaagccagaccctggcac	14	6	7	14	1	1	1	1	0	0	1	2	1	2	1	3	1	3	4	3	1	5	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	71867781	G	A	71867781	2	1	253	1	0	0	0	0	0	0	0	1	15929	1074	38	1		1	TJP2	9	71867781	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10		71867781	69345650	42	13249											
ANP32B	10541	hgsc.bcm.edu	37	chr9	100777710	100777710	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgatgaaggagaagatgaTtaagaccccagatgacctgc	15	7	12	7	0	0	8	0	4	0	4	0	10	0	8	3	1	1	0	3	1	3	1	rs112073824		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	100777710	T	A	100777710	3	1	253	1	0	0	0	0	1	0	0	0	706	1490	52	5	779	5	ANP32B	9	100777710	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	28909929	100777710	40435721	43	13250											
ACTL7B	10880	hgsc.bcm.edu	37	chr9	111616989	111616989	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgtagatggccacgcTgccccgctcctcaaactctt	6	11	8	16	2	2	1	1	0	1	1	3	1	3	1	4	1	3	4	4	1	2	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	111616989	T	C	111616989	3	2	253	1	0	0	0	0	1	0	0	0	201	1580	55	3	29	3	ACTL7B	9	111616989	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	10839279	111616989	29596442	44	13251											
C9orf171	389799	hgsc.bcm.edu	37	chr9	135413022	135413022	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgatctgctgcagcacCggtacctgcagctgtgggta	6	12	12	11	1	2	1	0	1	2	0	2	1	2	1	2	2	6	7	2	2	2	3	rs182716958	by1000genomes	TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	135413022	C	A	135413022	2	1	253	1	0	0	0	0	0	0	0	1	2470	643	23	4		4	C9orf171	9	135413022	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	23796033	135413022	5800409	45	13252											
ARHGAP12	94134	hgsc.bcm.edu;ucsc.edu	37	chr10	32098018	32098018	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctccagtaatgacatgaaTatcttcccatttactgtcat	11	14	6	10	0	2	2	1	2	1	0	4	2	4	2	2	1	1	2	2	1	4	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	32098018	T	C	32098018	3	2	253	1	0	0	0	0	1	0	0	0	865	1406	49	3	385	3	ARHGAP12	10	32098018	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10		32098018	103436729	46	13253											
CDHR1	92211	hgsc.bcm.edu;ucsc.edu	37	chr10	85961624	85961624	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcgcctccaggctggggCcactctggactacgagaggt	6	7	15	13	2	1	1	0	0	1	1	2	3	2	2	3	5	2	2	3	5	1	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	85961624	C	T	85961624	3	4	253	1	0	0	0	0	1	0	0	0	3118	739	26	2	613	2	CDHR1	10	85961624	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	53863606	85961624	49573123	47	13254											
SOX6	55553	hgsc.bcm.edu	37	chr11	16010674	16010674	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgctgctggcacggccgCgggcgtccctgtagactcgt	3	8	15	15	6	0	1	0	0	0	1	3	1	1	1	2	3	1	5	2	3	1	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	16010674	C	T	16010674	3	4	253	1	0	0	0	0	1	0	0	0	14957	768	27	1	663	1	SOX6	11	16010674	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10		16010674	118995842	48	13255											
MTA2	9219	hgsc.bcm.edu	37	chr11	62361740	62361740	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacgccttacctggtatccTttgtggccacaaacaccaca	11	9	7	14	1	0	1	0	0	0	1	1	1	1	1	5	2	2	1	5	2	3	3	rs112851477		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	62361740	T	A	62361740	3	1	253	1	0	0	0	0	1	0	0	0	9909	1609	56	5	182	5	MTA2	11	62361740	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	46351066	62361740	72644776	49	13256											
PPP2R5B	5526	hgsc.bcm.edu;ucsc.edu	37	chr11	64694267	64694267	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgacttcttggactgtgtgGccgacctcaaggggaaggag	8	10	15	8	1	2	1	1	1	1	0	2	5	2	4	2	5	0	0	2	5	2	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	64694267	G	A	64694267	3	1	253	1	0	0	0	0	1	0	0	0	12395	1203	42	2	289	2	PPP2R5B	11	64694267	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	2332527	64694267	70312249	50	13257											
FOXR1	283150	hgsc.bcm.edu;ucsc.edu	37	chr11	118850320	118850320	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttccacctaattgccctgGcattaagaaacagttccccc	11	10	5	15	0	0	1	0	0	0	1	2	1	2	1	5	1	2	2	5	1	3	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	118850320	G	C	118850320	3	2	253	1	0	0	0	0	1	0	0	0	6031	1203	42	4	567	4	FOXR1	11	118850320	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	54156053	118850320	16156196	51	13258											
GLB1L2	89944	hgsc.bcm.edu	37	chr11	134217318	134217318	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgatgtccagggtggtGccactccaggtacaagcaaa	11	7	11	12	0	0	1	0	1	0	0	2	1	2	1	4	3	3	2	4	3	3	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	134217318	G	A	134217318	2	1	253	1	0	0	0	0	0	0	0	1	6429	1306	46	2		2	GLB1L2	11	134217318	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10	15366998	134217318	789198	52	13259											
ATN1	1822	hgsc.bcm.edu	37	chr12	7048337	7048337	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagcaagatgctatccatGcaggtgagacccctccttcc	10	8	8	15	0	0	2	0	1	0	2	3	3	3	2	6	1	3	3	6	1	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	7048337	G	A	7048337	3	1	253	1	0	0	0	0	1	0	0	0	1111	1319	46	2	3233	2	ATN1	12	7048337	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10		7048337	126803558	53	13260											
RPAP3	79657	hgsc.bcm.edu;ucsc.edu	37	chr12	48091482	48091482	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtactatcgtctttgtcAagctcatcaaggatacggtc	9	13	10	9	2	4	0	3	0	1	0	6	1	4	1	0	3	3	2	0	3	5	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	48091482	A	T	48091482	2	4	253	1	0	0	0	0	0	0	0	1	13545	117	5	5		5	RPAP3	12	48091482	Silent	SNP	A	TCGA-BP-4762-01A-02D-1366-10	41043145	48091482	85760413	54	13261											
GPR84	53831	hgsc.bcm.edu;ucsc.edu	37	chr12	54757068	54757068	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccaacactgctgagccCaagcacaaagtagatgccca	14	5	9	13	0	0	2	0	1	0	1	0	3	0	2	3	0	6	3	3	0	4	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	54757068	C	A	54757068	3	1	253	1	0	0	0	0	1	0	0	0	6714	594	21	4	626	4	GPR84	12	54757068	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	6665586	54757068	79094827	55	13262											
LRP1	4035	hgsc.bcm.edu;ucsc.edu	37	chr12	57548278	57548278	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaggaaggtgtttttcactGactatgggcagatcccaaag	12	10	11	8	0	1	2	1	1	0	1	2	3	2	3	1	3	0	2	1	3	3	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	57548278	G	C	57548278	3	2	253	1	0	0	0	0	1	0	0	0	8951	1290	45	4	1051	4	LRP1	12	57548278	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	2791210	57548278	76303617	56	13263											
LATS2	26524	hgsc.bcm.edu;ucsc.edu	37	chr13	21557521	21557521	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactctcaatggccaaagtcAgctctgcgatgtagaaccgg	11	8	10	12	2	3	1	2	0	2	1	4	2	3	1	2	2	3	2	2	2	4	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	21557521	A	G	21557521	3	3	253	1	0	0	0	0	1	0	0	0	8647	188	7	3	958	3	LATS2	13	21557521	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10		21557521	93612357	57	13264											
HSPH1	10808	hgsc.bcm.edu;ucsc.edu	37	chr13	31725283	31725283	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttccactaacttttcatCgaagttttttcctcctaaga	10	17	4	10	1	1	1	1	0	0	1	5	2	4	1	3	0	1	2	3	0	3	8	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	31725283	C	T	31725283	3	4	253	1	0	0	0	0	1	0	0	0	7431	884	31	1	1915	1	HSPH1	13	31725283	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	10167762	31725283	83444595	58	13265											
INTS6	26512	hgsc.bcm.edu;ucsc.edu	37	chr13	51943308	51943308	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcctccatatgattggttGgccgttccagtaaactggct	8	12	11	10	1	0	1	0	1	0	0	2	2	2	1	4	3	2	4	4	3	3	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	51943308	G	C	51943308	3	2	253	1	0	0	0	0	1	0	0	0	7782	1348	47	4	432	4	INTS6	13	51943308	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	20218025	51943308	63226570	59	13266											
PCDH20	64881	hgsc.bcm.edu;ucsc.edu	37	chr13	61986576	61986576	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatacagcttagtcaaaaaGgcattgggtgagttgttctc	11	12	11	7	0	2	1	1	1	1	0	3	1	2	1	0	2	2	5	0	2	4	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	61986576	G	T	61986576	2	4	253	1	0	0	0	0	0	0	0	1	11515	987	35	4		4	PCDH20	13	61986576	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10	10043268	61986576	53183302	60	13267											
HEATR5A	25938	hgsc.bcm.edu	37	chr14	31852794	31852794	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacaaagctgctacagcaAaactgaagccagtcactgct	15	6	7	13	0	1	1	1	1	0	0	1	1	1	1	2	0	8	4	2	0	6	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	31852794	A	C	31852794	3	2	253	1	0	0	0	0	1	0	0	0	7031	14	1	5	4719	5	HEATR5A	14	31852794	Missense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10		31852794	75496746	61	13268											
SYNE2	23224	hgsc.bcm.edu;ucsc.edu	37	chr14	64516356	64516356	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacccagttggaagcaaagAaagcagccattaagccactg	16	6	9	10	0	0	1	0	0	0	1	0	2	0	2	3	1	5	3	3	1	5	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	64516356	A	T	64516356	4	4	253	1	0	0	0	0	0	1	0	0	15445	247	9	5	7587	5	SYNE2	14	64516356	Nonsense_Mutation	SNP	A	TCGA-BP-4762-01A-02D-1366-10	32663562	64516356	42833184	62	13269											
RPS6KL1	83694	hgsc.bcm.edu;ucsc.edu	37	chr14	75376624	75376624	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttcagcctccctctgggGtctggtggatggggcctccc	3	10	13	15	0	3	0	1	0	2	0	5	1	5	1	5	6	1	0	5	6	0	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	75376624	G	T	75376624	3	4	253	1	0	0	0	0	1	0	0	0	13661	1261	44	4	850	4	RPS6KL1	14	75376624	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	10860268	75376624	31972916	63	13270											
SECISBP2L	9728	hgsc.bcm.edu;ucsc.edu	37	chr15	49309095	49309095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatactcttgagctgtggCaagggctgctgctaaagctt	9	12	12	8	0	1	2	0	2	1	0	1	2	1	2	0	2	5	6	0	2	5	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	49309095	C	T	49309095	3	4	253	1	0	0	0	0	1	0	0	0	14009	710	25	2	1972	2	SECISBP2L	15	49309095	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10		49309095	53222297	64	13271											
GLCE	26035	hgsc.bcm.edu	37	chr15	69561195	69561195	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatggagttaaagctgTgtttatgaataaacatgact	14	12	10	5	0	0	2	0	2	0	0	0	3	0	3	0	1	3	5	0	1	6	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	69561195	T	C	69561195	3	2	253	1	0	0	0	0	1	0	0	0	6432	1696	59	3	1476	3	GLCE	15	69561195	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	20252100	69561195	32970197	65	13272											
AKAP13	11214	hgsc.bcm.edu	37	chr15	86123926	86123926	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagagcatgagggtcccgCccctccagcaatcccagaag	10	5	12	14	1	0	3	0	1	0	2	3	4	3	3	5	2	2	2	5	2	2	0	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	86123926	C	T	86123926	3	4	253	1	0	0	0	0	1	0	0	0	449	739	26	2	2649	2	AKAP13	15	86123926	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	16562731	86123926	16407466	66	13273											
CRAMP1L	57585	hgsc.bcm.edu	37	chr16	1706435	1706435	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgagctctcgcttctagaCcccttgccccgctacctaaa	8	9	7	17	3	2	1	0	0	2	1	3	3	2	1	5	0	3	3	5	0	4	5	rs61739874	bycluster;byfrequency;by1000genomes	TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	1706435	C	T	1706435	2	4	253	1	0	0	0	0	0	0	0	1	3846	506	18	2		2	CRAMP1L	16	1706435	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10		1706435	88648318	67	13274											
CREBBP	1387	hgsc.bcm.edu	37	chr16	3820642	3820642	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgaggggtagccacagacgGgggctgaactggggtttgag	8	7	19	7	1	0	4	0	3	0	1	0	4	0	4	1	6	2	3	1	6	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	3820642	G	T	3820642	3	4	253	1	0	0	0	0	1	0	0	0	3861	1232	43	4	4591	4	CREBBP	16	3820642	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	2114207	3820642	86534111	68	13275											
TNRC6A	27327	hgsc.bcm.edu;ucsc.edu	37	chr16	24788558	24788558	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggggtcagcattttccTgttatagcagcaaaccttgg	11	11	11	8	0	1	1	1	0	0	1	2	1	2	1	2	3	4	4	2	3	4	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	24788558	T	A	24788558	2	1	253	1	0	0	0	0	0	0	0	1	16339	1567	55	5		5	TNRC6A	16	24788558	Silent	SNP	T	TCGA-BP-4762-01A-02D-1366-10	20967916	24788558	65566195	69	13276											
BCL7C	9274	hgsc.bcm.edu	37	chr16	30899307	30899307	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caaagacagggtaagcttcgGgggcctggagaggaagggtg	11	5	19	6	1	0	2	0	0	0	2	1	4	0	3	1	6	1	2	1	6	3	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	30899307	G	A	30899307	3	1	253	1	0	0	0	0	1	0	0	0	1380	1232	43	2	124	2	BCL7C	16	30899307	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	6110749	30899307	59455446	70	13277											
GAS8	2622	hgsc.bcm.edu;ucsc.edu	37	chr16	90104179	90104179	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcctccagtgcacaaaaGcccgtttgaaagtcagggag	11	10	10	10	1	1	1	1	1	0	0	3	2	3	2	3	1	2	2	3	1	3	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	90104179	G	A	90104179	3	1	253	1	0	0	0	0	1	0	0	0	6251	971	34	2	964	2	GAS8	16	90104179	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	59204872	90104179	250574	71	13278											
ALDH3A2	224	hgsc.bcm.edu	37	chr17	19568312	19568312	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggaggtgtcacaggcaatGacgtcattatgcacttcacg	10	10	12	9	2	3	1	3	1	0	0	3	2	3	2	0	3	1	2	0	3	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	19568312	G	C	19568312	3	2	253	1	0	0	0	0	1	0	0	0	498	1290	45	4	1189	4	ALDH3A2	17	19568312	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10		19568312	61626898	72	13279											
FOXN1	8456	hgsc.bcm.edu	37	chr17	26861924	26861924	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcaggacctacttatgggGcacacaccctcctgctatgg	8	9	10	14	0	0	0	0	0	0	0	1	1	1	1	3	4	3	3	3	4	3	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	26861924	G	A	26861924	2	1	253	1	0	0	0	0	0	0	0	1	6019	1190	42	2		2	FOXN1	17	26861924	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10	7293612	26861924	54333286	73	13280											
KIAA0100	9703	hgsc.bcm.edu;ucsc.edu	37	chr17	26961036	26961036	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaccactctgctcggtgcCcacaagtcgacccattagcc	8	8	8	17	2	1	1	0	1	1	0	3	2	1	1	4	1	3	1	4	1	2	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	26961036	C	T	26961036	3	4	253	1	0	0	0	0	1	0	0	0	8154	623	22	2	3660	2	KIAA0100	17	26961036	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	99112	26961036	54234174	74	13281											
PIPOX	51268	hgsc.bcm.edu;ucsc.edu	37	chr17	27379941	27379941	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacttattttttaacaggcaGactggattactgctgctggg	9	14	11	7	0	0	1	0	0	0	1	0	3	0	2	0	3	4	3	0	3	3	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	27379941	G	C	27379941	3	2	253	1	0	0	0	0	1	0	0	0	11943	933	33	4	277	4	PIPOX	17	27379941	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	418905	27379941	53815269	75	13282											
LIG3	3980	hgsc.bcm.edu	37	chr17	33326363	33326363	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctcatgggctgctacgaCcctggcagccagaagtggtg	7	9	13	12	1	1	1	1	0	0	1	2	2	2	1	3	3	3	3	3	3	2	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		G	33326363	C	G	33326363	3	3	253	1	0	0	0	0	1	0	0	0	8782	506	18	4	2205	4	LIG3	17	33326363	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	5946422	33326363	47868847	76	13283											
NKIRAS2	28511	hgsc.bcm.edu;ucsc.edu	37	chr17	40174435	40174435	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcggagatgatcgagaCgcaggaggacatctacgtgg	11	7	16	7	4	1	3	0	1	1	2	3	7	1	5	0	5	1	2	0	5	1	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	40174435	C	T	40174435	3	4	253	1	0	0	0	0	1	0	0	0	10445	536	19	1	119	1	NKIRAS2	17	40174435	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	6848072	40174435	41020775	77	13284											
DYM	54808	hgsc.bcm.edu;ucsc.edu	37	chr18	46623772	46623772	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catttctttagccttcttacCttcagtctgtctttgggcag	5	18	7	11	0	5	0	1	0	4	0	5	0	5	0	2	1	2	1	2	1	2	7	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	46623772	C	A	46623772	3	1	253	1	0	0	0	0	1	0	0	0	4840	695	24	4	157	4	DYM	18	46623772	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10		46623772	31453476	78	13285											
NKG7	4818	hgsc.bcm.edu	37	chr19	51875455	51875455	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttgagacaagcgggccgtgGcctggggggaacagtgaggg	8	5	21	7	2	0	2	0	2	0	1	0	4	0	3	2	6	2	1	2	6	2	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	51875455	G	T	51875455	2	4	253	1	0	0	0	0	0	0	0	1	10443	1190	42	4		4	NKG7	19	51875455	Silent	SNP	G	TCGA-BP-4762-01A-02D-1366-10		51875455	7253528	79	13286											
RBCK1	10616	hgsc.bcm.edu	37	chr20	409176	409176	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaaggagtatcaggaggaCctggccctgcgggctcagaa	10	6	15	10	1	2	1	2	0	0	1	2	4	2	4	2	5	2	3	2	5	3	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	409176	C	A	409176	3	1	253	1	0	0	0	0	1	0	0	0	13109	506	18	4	1308	4	RBCK1	20	409176	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10		409176	62616344	80	13287											
CSRP2BP	57325	hgsc.bcm.edu;ucsc.edu	37	chr20	18163922	18163922	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaacgatcaactccatgtGtcaggagtttttttggcctg	8	13	9	11	1	2	0	2	0	0	0	3	2	3	1	3	2	2	1	3	2	2	3	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	18163922	G	A	18163922	3	1	253	1	0	0	0	0	1	0	0	0	3968	1377	48	2	1994	2	CSRP2BP	20	18163922	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	17754746	18163922	44861598	81	13288											
GTPBP5	26164	hgsc.bcm.edu;ucsc.edu	37	chr20	60774274	60774274	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaccctgaagccccacGtcgggatcgtccactacgaa	10	6	8	17	4	1	1	1	1	0	0	4	3	2	2	5	1	2	0	5	1	3	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	60774274	G	C	60774274	3	2	253	1	0	0	0	0	1	0	0	0	6883	1145	40	4	805	4	GTPBP5	20	60774274	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02D-1366-10	42610352	60774274	2251246	82	13289											
SMARCB1	6598	hgsc.bcm.edu	37	chr22	24176329	24176329	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccactcctcttccaggCggatgaggcgtcttgccaac	6	9	9	17	2	2	1	0	1	2	0	5	2	5	2	5	3	2	0	5	3	1	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	24176329	C	A	24176329	2	1	253	1	0	0	0	0	0	0	0	1	14776	782	27	4		4	SMARCB1	22	24176329	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10		24176329	27128237	83	13290											
SMC1A	8243	hgsc.bcm.edu;ucsc.edu	37	chrX	53436014	53436014	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagccagggtaaaggcgCttgatgctttccattatctc	10	11	10	10	1	1	2	0	1	1	1	3	2	2	2	2	2	2	3	2	2	3	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	53436014	C	T	53436014	2	4	253	1	0	0	0	0	0	0	0	1	14783	796	28	2		2	SMC1A	23	53436014	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10		53436014	101834546	84	13291											
MED12	9968	hgsc.bcm.edu	37	chrX	70349584	70349584	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaggaggaacagaagaacTtccagaggaggagggaggag	16	2	18	5	0	0	3	0	0	0	3	1	10	1	9	1	6	2	0	1	6	3	1	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		C	70349584	T	C	70349584	3	2	253	1	0	0	0	0	1	0	0	0	9428	1609	56	3	3852	3	MED12	23	70349584	Missense_Mutation	SNP	T	TCGA-BP-4762-01A-02D-1366-10	16913570	70349584	84920976	85	13292											
COL4A5	1287	hgsc.bcm.edu	37	chrX	107923920	107923920	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttattcagggtaatcctggCcggccgggtctcaatggaat	8	12	12	9	2	2	0	2	0	1	0	4	1	3	1	3	5	0	1	3	5	4	4	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	107923920	C	T	107923920	2	4	253	1	0	0	0	0	0	0	0	1	3694	726	26	2		2	COL4A5	23	107923920	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	37574336	107923920	47346640	86	13293											
SLC25A5	292	hgsc.bcm.edu;ucsc.edu	37	chrX	118604409	118604409	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactgtcactgctgttgcCgggttgacttcctatccatt	6	14	9	12	1	1	2	1	1	0	1	3	2	3	2	3	1	2	3	3	1	1	5	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		T	118604409	C	T	118604409	2	4	253	1	0	0	0	0	0	0	0	1	14514	639	23	1		1	SLC25A5	23	118604409	Silent	SNP	C	TCGA-BP-4762-01A-02D-1366-10	10680489	118604409	36666151	87	13294											
SRPK3	26576	hgsc.bcm.edu	37	chrX	153047007	153047007	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgttcaatgggcggtacCacgtggtgcgcaaactgggc	8	8	15	10	4	1	0	1	0	0	0	1	0	1	0	1	4	3	3	1	4	3	2	novel		TCGA-BP-4762-01A-02D-1366-10	TCGA-BP-4762-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d90b3ef0-c5fd-45ab-a86f-b47400bc3469	bab6d0f3-2893-4706-91ab-a79c383fdaaa		A	153047007	C	A	153047007	3	1	253	1	0	0	0	0	1	0	0	0	15162	594	21	4	248	4	SRPK3	23	153047007	Missense_Mutation	SNP	C	TCGA-BP-4762-01A-02D-1366-10	34442598	153047007	2223553	88	13295											
VHL	7428	hgsc.bcm.edu	37	chr3	10183851	10183851	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgcctggcacgggccGccgcatccacagctaccgag	6	4	13	18	5	0	0	0	0	0	0	1	1	1	0	6	2	3	4	6	2	1	1	novel		TCGA-BP-4762-01A-02W-1362-10	TCGA-BP-4762-11A-01W-1363-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	2ef103f7-37e9-437b-bda4-62dbd0980dc0	eda59487-6daa-4ba5-9bf5-a412822188d8		C	10183851	G	C	10183851	3	2	254	1	0	0	0	0	1	0	0	0	17161	1087	38	4	322	4	VHL	3	10183851	Missense_Mutation	SNP	G	TCGA-BP-4762-01A-02W-1362-10		10183851	187838579	1	13296											
GNL2	29889	hgsc.bcm.edu;ucsc.edu	37	chr1	38058356	38058356	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcttgccactgtgccagaAgccaccgttgattgatattg	9	12	9	11	1	1	3	0	2	1	1	1	3	1	3	4	0	3	1	4	0	2	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	38058356	A	G	38058356	2	3	255	1	0	0	0	0	0	0	0	1	6536	59	3	3		3	GNL2	1	38058356	Silent	SNP	A	TCGA-BP-4763-01A-01D-1366-10		38058356	211192265	1	13297											
RNF220	55182	hgsc.bcm.edu	37	chr1	45098019	45098019	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcgatcttctcccagacctTtctgcgagtacgagccaacc	8	9	8	16	4	3	1	0	0	3	1	4	4	3	1	4	0	4	1	4	0	2	3	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		C	45098019	T	C	45098019	3	2	255	1	0	0	0	0	1	0	0	0	13485	1841	64	3	929	3	RNF220	1	45098019	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10	7039663	45098019	204152602	2	13298											
KIAA0494	0	hgsc.bcm.edu;ucsc.edu	37	chr1	47144229	47144229	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggttctggcatagcagaAcctagggaggtccagatttc	9	11	12	9	0	2	2	0	0	2	2	4	3	3	3	2	4	2	3	2	4	3	4	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	47144229	A	G	47144229	2	3	255	1	0	0	0	0	0	0	0	1	8179	30	2	3		3	KIAA0494	1	47144229	Silent	SNP	A	TCGA-BP-4763-01A-01D-1366-10	2046210	47144229	202106392	3	13299											
LRRC8C	84230	hgsc.bcm.edu	37	chr1	90179731	90179731	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatatttccagaaatgtcacCcttgagtctctgcgggatct	9	13	9	10	1	3	2	1	1	2	1	5	4	4	3	2	1	1	0	2	1	2	3	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	90179731	C	T	90179731	2	4	255	1	0	0	0	0	0	0	0	1	9023	610	22	2		2	LRRC8C	1	90179731	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10	43035502	90179731	159070890	4	13300											
F5	2153	hgsc.bcm.edu;ucsc.edu	37	chr1	169499051	169499051	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaagcctgagtgaatatcTttttcctggaaaaacagagt	14	12	8	7	0	2	3	1	2	1	1	3	4	3	4	2	1	2	0	2	1	5	3	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	169499051	T	G	169499051	3	3	255	1	0	0	0	0	1	0	0	0	5348	1606	56	5	1500	5	F5	1	169499051	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10	79319320	169499051	79751570	5	13301											
C2orf78	388960	hgsc.bcm.edu	37	chr2	74042713	74042713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggaggatacttacctccccCcgatcttcagttccttacaa	9	12	6	14	1	2	0	1	0	1	0	4	3	4	2	5	2	3	1	5	2	4	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	74042713	C	T	74042713	3	4	255	1	0	0	0	0	1	0	0	0	2195	623	22	2	1373	2	C2orf78	2	74042713	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10		74042713	169156660	6	13302											
PRSS42	339906	hgsc.bcm.edu;ucsc.edu	37	chr3	46873491	46873491	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atagcacatgatgtattggtCcacatcctgaagaatttctg	12	13	8	8	0	1	3	0	2	1	1	3	3	3	3	2	1	1	2	2	1	4	4	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	46873491	C	A	46873491	3	1	255	1	0	0	0	0	1	0	0	0	12630	855	30	4	221	4	PRSS42	3	46873491	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10		46873491	151148939	7	13303											
DUSP7	1849	hgsc.bcm.edu	37	chr3	52084903	52084903	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagtagagctgctcactCgacgcgtggttgtcgcacgg	9	8	14	10	5	1	1	1	0	0	1	3	3	1	1	0	2	2	5	0	2	3	2	rs149589220	alternate_allele	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	52084903	C	A	52084903	2	1	255	1	0	0	0	0	0	0	0	1	4830	871	31	4		4	DUSP7	3	52084903	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10	5211412	52084903	145937527	8	13304											
ATP8A1	10396	hgsc.bcm.edu;ucsc.edu	37	chr4	42487678	42487678	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacgactgagagtttccCttgttccctggaatattaaa	11	13	9	8	1	0	2	0	2	0	1	2	5	2	3	2	1	0	2	2	1	4	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	42487678	C	T	42487678	3	4	255	1	0	0	0	0	1	0	0	0	1192	681	24	2	1387	2	ATP8A1	4	42487678	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10		42487678	148666598	9	13305											
PARP8	79668	hgsc.bcm.edu;ucsc.edu	37	chr5	50125784	50125784	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaatgtcaagcatatcatTtggttactcaggtaattcct	11	15	6	9	0	3	0	3	0	0	0	5	0	5	0	2	2	2	3	2	2	5	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	50125784	T	A	50125784	3	1	255	1	0	0	0	0	1	0	0	0	11465	1841	64	5	2308	5	PARP8	5	50125784	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10		50125784	130789476	10	13306											
DMXL1	1657	hgsc.bcm.edu;ucsc.edu	37	chr5	118456679	118456679	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaggtaaatctgagacAttttcgtagaggtcggagga	13	9	12	7	2	1	2	0	1	1	2	3	5	1	4	0	4	0	2	0	4	3	4	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	118456679	A	T	118456679	3	4	255	1	0	0	0	0	1	0	0	0	4594	217	8	5	981	5	DMXL1	5	118456679	Missense_Mutation	SNP	A	TCGA-BP-4763-01A-01D-1366-10	68330895	118456679	62458581	11	13307											
SERPINB1	1992	hgsc.bcm.edu;ucsc.edu	37	chr6	2838791	2838791	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtacttacaggaaggaAattgtaagttttctctccat	14	13	7	7	0	1	0	0	0	1	0	3	2	2	2	1	2	2	3	1	2	6	6	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	2838791	A	T	2838791	3	4	255	1	0	0	0	0	1	0	0	0	14098	14	1	5	861	5	SERPINB1	6	2838791	Missense_Mutation	SNP	A	TCGA-BP-4763-01A-01D-1366-10		2838791	168276276	12	13308											
GNMT	27232	hgsc.bcm.edu	37	chr6	42931344	42931344	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctccaagcagccttcggagGtaagtgccagcacagcgtcc	9	6	12	14	2	0	0	0	0	0	0	3	1	2	1	4	2	5	4	4	2	2	2	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	42931344	G	A	42931344	3	1	255	1	0	0	0	0	1	0	0	0	6540	1261	44	2	810	2	GNMT	6	42931344	Missense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10	40092553	42931344	128183723	13	13309											
PRDM13	59336	hgsc.bcm.edu;ucsc.edu	37	chr6	100057099	100057099	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgcgagacgtccagccagggGaggagctgacagtgtggtat	9	7	17	8	2	0	2	0	1	0	1	1	5	1	4	2	4	3	2	2	4	1	1	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		C	100057099	G	C	100057099	3	2	255	1	0	0	0	0	1	0	0	0	12456	1175	41	4	323	4	PRDM13	6	100057099	Missense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10	57125755	100057099	71057968	14	13310											
SAMD5	389432	hgsc.bcm.edu	37	chr6	147830070	147830070	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcccggtcccaccatgtgCaccaacatagtttacgagtg	9	10	9	13	2	0	0	0	0	0	0	2	1	2	0	4	1	3	3	4	1	3	4	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	147830070	C	A	147830070	4	1	255	1	0	0	0	0	0	1	0	0	13825	718	25	4	8	4	SAMD5	6	147830070	Nonsense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10	47772971	147830070	23284997	15	13311											
SPAM1	6677	hgsc.bcm.edu;ucsc.edu	37	chr7	123594563	123594563	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttttactgatcaagttttGaaattcctttctcaagtaag	11	18	6	6	0	2	2	2	2	1	0	4	2	3	2	1	0	1	3	1	0	5	8	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	123594563	G	A	123594563	2	1	255	1	0	0	0	0	0	0	0	1	14988	1281	45	2		2	SPAM1	7	123594563	Silent	SNP	G	TCGA-BP-4763-01A-01D-1366-10		123594563	35544100	16	13312											
GRM8	2918	hgsc.bcm.edu	37	chr7	126544621	126544621	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgtcatcctcattggCaaacataatcactgctcgag	11	11	7	12	1	3	1	3	1	0	0	5	2	4	1	2	1	2	2	2	1	2	2	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	126544621	C	T	126544621	3	4	255	1	0	0	0	0	1	0	0	0	6803	710	25	2	1964	2	GRM8	7	126544621	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10	2950058	126544621	32594042	17	13313											
KIAA1429	25962	hgsc.bcm.edu;ucsc.edu	37	chr8	95539238	95539238	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatagcttaacccttttaTtattaaacttggaatttctt	13	18	3	7	0	1	0	0	0	1	0	1	1	1	1	1	1	3	1	1	1	8	9	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		C	95539238	T	C	95539238	3	2	255	1	0	0	0	0	1	0	0	0	8231	1493	52	3	4326	3	KIAA1429	8	95539238	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10		95539238	50824784	18	13314											
LRP12	29967	hgsc.bcm.edu;ucsc.edu	37	chr8	105544140	105544140	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaaaaatgacttaccagttGacactcctgaaatatgcaca	17	9	5	10	0	0	3	0	3	0	0	1	3	1	3	2	0	2	2	2	0	6	3	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		C	105544140	G	C	105544140	4	2	255	1	0	0	0	0	0	1	0	0	8954	1294	45	4	2472	4	LRP12	8	105544140	Nonsense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10	10004902	105544140	40819882	19	13315											
KCNQ3	3786	hgsc.bcm.edu;ucsc.edu	37	chr8	133142094	133142094	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagatgatggttttcaaatcGgaatacctgttgtcctcctt	9	15	8	9	1	1	2	1	1	0	1	4	3	3	3	3	2	1	2	3	2	3	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	133142094	G	A	133142094	2	1	255	1	0	0	0	0	0	0	0	1	8084	1103	39	1		1	KCNQ3	8	133142094	Silent	SNP	G	TCGA-BP-4763-01A-01D-1366-10	27597954	133142094	13221928	20	13316											
CCIN	881	hgsc.bcm.edu	37	chr9	36170277	36170277	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagagtgtcctgatggacCgcaagcaggagcggccatgc	9	7	15	10	2	0	2	0	2	0	1	1	5	1	4	3	3	3	2	3	3	1	1	rs140883913	bycluster;byfrequency;by1000genomes	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	36170277	C	T	36170277	3	4	255	1	0	0	0	0	1	0	0	0	2878	652	23	1	780	1	CCIN	9	36170277	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10		36170277	105043154	21	13317											
KIAA0368	23392	hgsc.bcm.edu;ucsc.edu	37	chr9	114199285	114199285	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggctgcataaaagctcaTtcccggaggaggctgtggga	9	10	14	8	1	1	0	1	0	0	0	2	3	2	3	1	5	2	4	1	5	2	3	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	114199285	T	A	114199285	3	1	255	1	0	0	0	0	1	0	0	0	8171	1493	52	5	5052	5	KIAA0368	9	114199285	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10	78029008	114199285	27014146	22	13318											
ING4	51147	hgsc.bcm.edu;ucsc.edu	37	chr12	6762198	6762198	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggtctgtgtccagccGccgaatgtgtttgtccacct	5	11	12	13	2	1	0	0	0	1	0	3	1	3	0	6	2	1	1	6	2	1	1	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	6762198	G	A	6762198	3	1	255	1	0	0	0	0	1	0	0	0	7738	1086	38	1	474	1	ING4	12	6762198	Missense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10		6762198	127089697	23	13319											
FOXO1	2308	hgsc.bcm.edu	37	chr13	41133892	41133892	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattgcagctgctcacggagGagtagccccccagggcactc	8	6	12	15	1	1	0	1	0	0	0	2	2	1	2	3	3	4	5	3	3	1	2	rs150896957	byfrequency;alternate_allele	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	41133892	G	T	41133892	3	4	255	1	0	0	0	0	1	0	0	0	6023	1174	41	4	235	4	FOXO1	13	41133892	Missense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10		41133892	74035986	24	13320											
SLC24A1	9187	hgsc.bcm.edu;ucsc.edu	37	chr15	65946267	65946267	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaattgttttgctttttctCatgcttctgtttgtgatctc	4	22	7	8	0	3	1	1	1	3	0	5	1	3	1	0	0	2	5	0	0	1	7	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	65946267	C	T	65946267	2	4	255	1	0	0	0	0	0	0	0	1	14467	813	29	2		2	SLC24A1	15	65946267	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10		65946267	36585125	25	13321											
PML	5371	hgsc.bcm.edu	37	chr15	74328116	74328116	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtggtgggggcaggggaaAgcagagcccagactcttgga	9	5	18	9	1	1	2	0	0	1	2	1	4	1	4	2	6	2	2	2	6	1	1	rs743580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	74328116	A	G	74328116	3	3	255	1	0	0	0	0	1	0	0	0	12135	72	3	3	2478	3	PML	15	74328116	Missense_Mutation	SNP	A	TCGA-BP-4763-01A-01D-1366-10	8381849	74328116	28203276	26	13322											
EFTUD1	79631	hgsc.bcm.edu	37	chr15	82444107	82444107	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaatttacttaggtcccaTttttccagaacaaaacagac	15	12	4	10	0	1	2	1	0	0	2	3	2	3	2	2	1	3	0	2	1	6	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	82444107	T	G	82444107	3	3	255	1	0	0	0	0	1	0	0	0	4960	1490	52	5	686	5	EFTUD1	15	82444107	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10	8115991	82444107	20087285	27	13323											
GFER	2671	hgsc.bcm.edu	37	chr16	2035868	2035868	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctctccctacacaggCtgtgcaggaaccacccagac	10	6	8	17	0	1	1	0	0	1	1	2	2	1	2	4	2	4	3	4	2	2	1	rs1046502	bycluster;byfrequency;by1000genomes	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	2035868	C	T	2035868	2	4	255	1	0	0	0	0	0	0	0	1	6338	811	28	2		2	GFER	16	2035868	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10		2035868	88318885	28	13324											
WWP2	11060	hgsc.bcm.edu;ucsc.edu	37	chr16	69967969	69967969	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgcctgcagatcaacccCgcctcctccatcaacccgga	9	7	6	19	2	2	1	2	0	0	1	4	2	4	2	7	1	5	1	7	1	3	1	rs8047888	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	69967969	C	A	69967969	2	1	255	1	0	0	0	0	0	0	0	1	17415	639	23	4		4	WWP2	16	69967969	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10	67932101	69967969	20386784	29	13325											
CDH13	1012	hgsc.bcm.edu	37	chr16	83378559	83378559	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcagaatgacaaccgaccGatctttcgggaaggccccta	12	7	10	12	3	2	2	1	1	1	1	3	6	2	3	4	2	1	0	4	2	4	2	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	83378559	G	T	83378559	2	4	255	1	0	0	0	0	0	0	0	1	3099	1045	37	4		4	CDH13	16	83378559	Silent	SNP	G	TCGA-BP-4763-01A-01D-1366-10	13410590	83378559	6976194	30	13326											
MYBBP1A	10514	hgsc.bcm.edu	37	chr17	4443760	4443760	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacacccaggagcaccGtcaggtccaaggtcagcttc	10	5	11	15	1	2	0	2	0	0	0	4	1	3	1	3	3	3	4	3	3	1	1	rs142989122	byfrequency	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	4443760	G	A	4443760	3	1	255	1	0	0	0	0	1	0	0	0	10008	1145	40	1	717	1	MYBBP1A	17	4443760	Missense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10		4443760	76751450	31	13327											
KAT2A	2648	hgsc.bcm.edu;ucsc.edu	37	chr17	40266241	40266241	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctggtctccccaccttgAtttgggccagcaggtttttg	6	13	10	12	0	1	1	0	1	1	0	2	1	1	1	5	3	2	2	5	3	1	4	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	40266241	A	T	40266241	3	4	255	1	0	0	0	0	1	0	0	0	7981	333	12	5	294	5	KAT2A	17	40266241	Missense_Mutation	SNP	A	TCGA-BP-4763-01A-01D-1366-10	35822481	40266241	40928969	32	13328											
STK11	6794	hgsc.bcm.edu	37	chr19	1220427	1220427	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatagccagggcattgtgCacaaggacatcaagccgggg	11	6	14	10	1	1	0	1	0	0	0	1	1	1	1	2	4	4	3	2	4	3	2	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	1220427	C	T	1220427	3	4	255	1	0	0	0	0	1	0	0	0	15288	710	25	2	534	2	STK11	19	1220427	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10		1220427	57908556	33	13329											
CCDC123	0	hgsc.bcm.edu;ucsc.edu	37	chr19	33439254	33439254	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcatcgtcttcactgttCacctcatgtaacaatggcac	9	15	5	12	1	5	0	4	0	1	0	6	0	5	0	1	1	1	3	1	1	2	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	33439254	C	A	33439254	2	1	255	1	0	0	0	0	0	0	0	1	2759	813	29	4		4	CCDC123	19	33439254	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10	32218827	33439254	25689729	34	13330											
C20orf117	0	hgsc.bcm.edu	37	chr20	35431379	35431379	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctcactgatctgcagctgCcgagtcagctccatgacagc	8	8	10	15	2	3	2	2	2	1	0	4	3	4	2	2	0	5	4	2	0	0	0	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	35431379	C	T	35431379	2	4	255	1	0	0	0	0	0	0	0	1	2083	726	26	2		2	C20orf117	20	35431379	Silent	SNP	C	TCGA-BP-4763-01A-01D-1366-10		35431379	27594141	35	13331											
NRIP1	8204	hgsc.bcm.edu;ucsc.edu	37	chr21	16338266	16338266	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttattttcaccatcagtaTttgttcacttaaagctctct	9	20	3	9	0	4	0	3	0	1	0	5	0	4	0	1	0	1	3	1	0	4	8	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	16338266	T	G	16338266	3	3	255	1	0	0	0	0	1	0	0	0	10652	1493	52	5	1232	5	NRIP1	21	16338266	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01D-1366-10		16338266	31791629	36	13332											
AIRE	326	hgsc.bcm.edu	37	chr21	45717550	45717550	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgcagcacaccttcgaTggcatcctgcagtgggccat	7	8	11	15	2	0	0	0	0	0	0	3	1	2	0	4	2	2	4	4	2	0	1	rs1133779	bycluster;byfrequency;by1000genomes	TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		C	45717550	T	C	45717550	2	2	255	1	0	0	0	0	0	0	0	1	437	1461	51	3		3	AIRE	21	45717550	Silent	SNP	T	TCGA-BP-4763-01A-01D-1366-10	29379284	45717550	2412345	37	13333											
MYH9	4627	hgsc.bcm.edu;ucsc.edu	37	chr22	36722685	36722685	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcttggtgttctccgtCttgccagctccagattcacc	5	14	7	15	1	4	1	1	0	3	1	6	1	5	1	5	1	2	2	5	1	0	5	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	36722685	C	A	36722685	3	1	255	1	0	0	0	0	1	0	0	0	10042	912	32	4	5490	4	MYH9	22	36722685	Missense_Mutation	SNP	C	TCGA-BP-4763-01A-01D-1366-10		36722685	14581881	38	13334											
ARSD	414	hgsc.bcm.edu	37	chrX	2825370	2825370	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggaaatgtccgcagcacGgctgcagccacggcttccac	9	5	12	15	4	0	0	0	0	0	0	2	1	2	1	3	3	3	5	3	3	1	1	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		A	2825370	G	A	2825370	3	1	255	1	0	0	0	0	1	0	0	0	989	1116	39	1	61	1	ARSD	23	2825370	Missense_Mutation	SNP	G	TCGA-BP-4763-01A-01D-1366-10		2825370	152445190	39	13335											
ODZ1	0	hgsc.bcm.edu;ucsc.edu	37	chrX	123654383	123654383	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atacccaaagcctctgccagGccccaaaccttctgtccata	11	8	5	17	0	2	0	0	0	2	0	3	0	3	0	7	1	4	0	7	1	4	3	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		T	123654383	G	T	123654383	2	4	255	1	0	0	0	0	0	0	0	1	10834	1190	42	4		4	ODZ1	23	123654383	Silent	SNP	G	TCGA-BP-4763-01A-01D-1366-10	120829013	123654383	31616177	40	13336											
ZNF449	203523	hgsc.bcm.edu	37	chrX	134481213	134481213	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgggagctttgctgtcAatggctgaagccaaagatgc	10	10	12	9	0	2	2	1	1	1	1	2	3	2	3	1	2	4	3	1	2	3	1	novel		TCGA-BP-4763-01A-01D-1366-10	TCGA-BP-4763-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fbd099-4ba8-4ef0-9848-6db8ee40c839	304c1220-19a3-4b13-9604-51635e6674c2		G	134481213	A	G	134481213	3	3	255	1	0	0	0	0	1	0	0	0	17919	130	5	3	172	3	ZNF449	23	134481213	Missense_Mutation	SNP	A	TCGA-BP-4763-01A-01D-1366-10	10826830	134481213	20789347	41	13337											
VHL	7428	hgsc.bcm.edu	37	chr3	10183865	10183865	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggccgccgcatccacagcTaccgaggtacgggcccggcg	6	3	15	17	7	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	rs104893824	bycluster	TCGA-BP-4763-01A-01W-1362-10	TCGA-BP-4763-11A-01W-1363-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	ef75f641-71b8-4f30-bd7b-9a431511a148	fccc7484-7937-42da-8aa1-0a383b7ccfb8		G	10183865	T	G	10183865	3	3	256	1	0	0	0	0	1	0	0	0	17161	1522	53	5	336	5	VHL	3	10183865	Missense_Mutation	SNP	T	TCGA-BP-4763-01A-01W-1362-10		10183865	187838565	1	13338											
IQGAP3	128239	hgsc.bcm.edu;ucsc.edu	37	chr1	156521811	156521811	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgacctggctcacggtggCctgcaggtcattccagctca	7	10	11	13	1	3	1	3	1	0	0	4	1	4	1	3	4	2	3	3	4	0	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	156521811	C	T	156521811	3	4	257	1	0	0	0	0	1	0	0	0	7816	739	26	2	3470	2	IQGAP3	1	156521811	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10		156521811	92728810	1	13339											
SLAMF9	89886	hgsc.bcm.edu;ucsc.edu	37	chr1	159922170	159922170	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggatgtgctgaggacaggGccttcatggaatgtataagt	11	10	14	6	0	1	1	1	1	0	0	1	4	1	4	1	4	1	2	1	4	3	3	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	159922170	G	T	159922170	2	4	257	1	0	0	0	0	0	0	0	1	14373	1190	42	4		4	SLAMF9	1	159922170	Silent	SNP	G	TCGA-BP-4765-01A-01D-1366-10	3400359	159922170	89328451	2	13340											
VANGL2	57216	hgsc.bcm.edu	37	chr1	160389236	160389236	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctcgggagcgcagctacCagggcgtggtgcagttcgcc	6	7	16	12	4	0	0	0	0	0	0	2	1	0	1	2	3	5	5	2	3	1	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	160389236	C	T	160389236	4	4	257	1	0	0	0	0	0	1	0	0	17119	595	21	2	647	2	VANGL2	1	160389236	Nonsense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10	467066	160389236	88861385	3	13341											
F13B	2165	hgsc.bcm.edu	37	chr1	197030048	197030048	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtacattttggtgtgagAgaccatccgtatgtgagaca	10	12	12	7	1	0	3	0	2	0	2	1	5	1	3	2	2	1	2	2	2	2	4	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	197030048	A	T	197030048	2	4	257	1	0	0	0	0	0	0	0	1	5341	291	11	5		5	F13B	1	197030048	Silent	SNP	A	TCGA-BP-4765-01A-01D-1366-10	36640812	197030048	52220573	4	13342											
TAS2R1	50834	hgsc.bcm.edu	37	chr5	9629483	9629483	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaacgcgctgatgggtgcaCccctgccaggaaccctgctg	7	6	13	15	2	0	1	0	1	0	0	0	2	0	2	4	2	5	4	4	2	2	0	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	9629483	C	A	9629483	3	1	257	1	0	0	0	0	1	0	0	0	15564	507	18	4	241	4	TAS2R1	5	9629483	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10		9629483	171285777	5	13343											
DST	667	hgsc.bcm.edu;ucsc.edu	37	chr6	56470322	56470322	+	Intron	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcacttttgccatctctcCctttaatgagatcgcttcca	8	16	4	13	1	2	1	1	1	1	1	6	2	4	1	3	0	1	1	3	0	2	6	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		G	56470322	C	G	56470322	1	3	257	0	1	0	0	0	0	0	0	0	4783	638	22	4		4	DST	6	56470322	Intron	SNP	C	TCGA-BP-4765-01A-01D-1366-10		56470322	114644745	6	13344											
ALDH8A1	64577	hgsc.bcm.edu	37	chr6	135263586	135263586	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccgtgtagtgcatgcagcCcaggtggtccatctgcgtgc	6	9	13	13	2	1	0	0	0	1	0	2	0	2	0	3	2	5	3	3	2	1	1	rs143707042	alternate_allele	TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	135263586	C	A	135263586	3	1	257	1	0	0	0	0	1	0	0	0	505	623	22	4	1080	4	ALDH8A1	6	135263586	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10	78793264	135263586	35851481	7	13345											
TTC26	79989	hgsc.bcm.edu;ucsc.edu	37	chr7	138845757	138845757	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgctaaagaactcatcAggcacaatctggtgaataac	16	10	7	8	0	3	2	2	1	1	1	3	2	3	2	0	2	3	2	0	2	7	3	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	138845757	A	T	138845757	3	4	257	1	0	0	0	0	1	0	0	0	16693	179	7	5	811	5	TTC26	7	138845757	Missense_Mutation	SNP	A	TCGA-BP-4765-01A-01D-1366-10		138845757	20292906	8	13346											
TPK1	27010	hgsc.bcm.edu	37	chr7	144532676	144532676	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagcaggggctccaacGgggtaaaggcatgctccata	12	6	14	9	1	0	0	0	0	0	0	2	1	2	1	2	6	3	5	2	6	5	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	144532676	G	A	144532676	3	1	257	1	0	0	0	0	1	0	0	0	16403	1116	39	1	743	1	TPK1	7	144532676	Missense_Mutation	SNP	G	TCGA-BP-4765-01A-01D-1366-10	5686919	144532676	14605987	9	13347											
TNFRSF10A	8797	hgsc.bcm.edu	37	chr8	23049492	23049492	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggagtcaaagggcacGatgtttgcaaacttgtcaaa	13	9	10	9	1	2	0	2	0	0	0	3	2	3	1	1	2	2	3	1	2	3	2	rs145547481	alternate_allele	TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	23049492	G	T	23049492	2	4	257	1	0	0	0	0	0	0	0	1	16279	1048	37	4		4	TNFRSF10A	8	23049492	Silent	SNP	G	TCGA-BP-4765-01A-01D-1366-10		23049492	123314530	10	13348											
PLEKHA2	59339	hgsc.bcm.edu;ucsc.edu	37	chr8	38814852	38814852	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtctagtgatctcttaaTgagggacaacctgtttgaaa	11	14	9	7	0	3	3	0	3	3	0	4	4	3	4	1	1	1	1	1	1	4	3	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	38814852	T	A	38814852	3	1	257	1	0	0	0	0	1	0	0	0	12056	1464	51	5	819	5	PLEKHA2	8	38814852	Missense_Mutation	SNP	T	TCGA-BP-4765-01A-01D-1366-10	15765360	38814852	107549170	11	13349											
SLCO5A1	81796	hgsc.bcm.edu;ucsc.edu	37	chr8	70667745	70667745	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccttcagaacatcgtcaTcactaacagcatcaacagaa	15	9	4	13	1	5	2	4	0	1	2	7	2	5	2	1	0	4	1	1	0	4	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		G	70667745	T	G	70667745	3	3	257	1	0	0	0	0	1	0	0	0	14733	1435	50	5	1402	5	SLCO5A1	8	70667745	Missense_Mutation	SNP	T	TCGA-BP-4765-01A-01D-1366-10	31852893	70667745	75696277	12	13350											
RAPGEF1	2889	hgsc.bcm.edu	37	chr9	134464199	134464199	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttctcacctggctgctacCccccgggctgccaggggctg	3	8	13	17	1	1	0	1	0	1	0	2	0	1	0	5	4	3	5	5	4	1	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	134464199	C	A	134464199	2	1	257	1	0	0	0	0	0	0	0	1	13045	610	22	4		4	RAPGEF1	9	134464199	Silent	SNP	C	TCGA-BP-4765-01A-01D-1366-10		134464199	6749232	13	13351											
CDH23	64072	hgsc.bcm.edu	37	chr10	73450274	73450274	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctggaccgctcccgggaGtacggccaggagtccatcat	8	6	13	14	3	1	0	1	0	0	0	3	4	3	3	5	4	1	2	5	4	1	1	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	73450274	G	A	73450274	2	1	257	1	0	0	0	0	0	0	0	1	3108	1020	36	2		2	CDH23	10	73450274	Silent	SNP	G	TCGA-BP-4765-01A-01D-1366-10		73450274	62084473	14	13352											
LTBP3	4054	hgsc.bcm.edu;ucsc.edu	37	chr11	65310998	65310998	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgccattgtcacacacgtcCccagcctcacactcgtccac	9	8	5	19	2	2	0	2	0	0	0	5	0	4	0	5	0	2	0	5	0	0	1	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	65310998	C	A	65310998	2	1	257	1	0	0	0	0	0	0	0	1	9075	610	22	4		4	LTBP3	11	65310998	Silent	SNP	C	TCGA-BP-4765-01A-01D-1366-10		65310998	69695518	15	13353											
TMEM132D	121256	hgsc.bcm.edu;ucsc.edu	37	chr12	129559173	129559173	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgccccgtccctccatGagtcccatagaagaactgcc	8	8	10	15	1	0	3	0	1	0	2	3	3	3	3	6	1	3	0	6	1	3	1	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	129559173	G	T	129559173	2	4	257	1	0	0	0	0	0	0	0	1	16046	1277	45	4		4	TMEM132D	12	129559173	Silent	SNP	G	TCGA-BP-4765-01A-01D-1366-10		129559173	4292722	16	13354											
TGFB3	7043	hgsc.bcm.edu;ucsc.edu	37	chr14	76446970	76446970	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttttcctgggtgcagccTtcctccctctccccatgcat	3	14	8	16	0	1	0	0	0	1	0	5	0	4	0	6	1	3	3	6	1	0	3	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		G	76446970	T	G	76446970	3	3	257	1	0	0	0	0	1	0	0	0	15818	1606	56	5	999	5	TGFB3	14	76446970	Missense_Mutation	SNP	T	TCGA-BP-4765-01A-01D-1366-10		76446970	30902570	17	13355											
MYO9A	4649	hgsc.bcm.edu;ucsc.edu	37	chr15	72190127	72190127	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgatagggaccccagtaCattaagttctcccttatttg	11	14	7	9	0	1	1	0	1	1	0	2	2	1	2	3	1	1	2	3	1	5	7	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	72190127	C	T	72190127	3	4	257	1	0	0	0	0	1	0	0	0	10084	478	17	2	3001	2	MYO9A	15	72190127	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10		72190127	30341265	18	13356											
MSLN	10232	hgsc.bcm.edu	37	chr16	815528	815528	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtcccgtgtctgcacagcCccccgtcgacatggtctgtc	4	10	11	16	3	2	0	0	0	2	0	5	1	3	0	4	1	2	1	4	1	0	0	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	815528	C	A	815528	3	1	257	1	0	0	0	0	1	0	0	0	9881	637	22	4	736	4	MSLN	16	815528	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10		815528	89539225	19	13357											
TEX101	83639	hgsc.bcm.edu;ucsc.edu	37	chr19	43922506	43922506	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgtttgggggttacagcTactgctgccattgctgctgc	4	14	12	11	0	0	0	0	0	0	0	1	0	1	0	2	2	8	6	2	2	2	4	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	43922506	T	A	43922506	3	1	257	1	0	0	0	0	1	0	0	0	15772	1522	53	5	783	5	TEX101	19	43922506	Missense_Mutation	SNP	T	TCGA-BP-4765-01A-01D-1366-10		43922506	15206477	20	13358											
NUCB1	4924	hgsc.bcm.edu;ucsc.edu	37	chr19	49425593	49425593	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacgatgtacctgtcccagCtccagccggtgaccagaagg	10	6	12	13	2	0	3	0	1	0	2	2	4	2	3	5	2	3	2	5	2	2	1	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	49425593	C	A	49425593	3	1	257	1	0	0	0	0	1	0	0	0	10718	797	28	4	1344	4	NUCB1	19	49425593	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10	5503087	49425593	9703390	21	13359											
PEG3	5178	hgsc.bcm.edu;ucsc.edu	37	chr19	57327195	57327195	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctctggcaggaatcttctgtCgcttatcattaaggtctgag	8	14	10	9	1	5	1	1	1	4	0	6	2	5	2	0	3	0	2	0	3	3	3	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		G	57327195	C	G	57327195	3	3	257	1	0	0	0	0	1	0	0	0	11720	884	31	4	2155	4	PEG3	19	57327195	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10	7901602	57327195	1801788	22	13360											
TMEM47	83604	hgsc.bcm.edu	37	chrX	34657472	34657472	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaatgatggcagcgccgcCcaggagtaaagccagagtag	13	4	15	9	2	0	3	0	1	0	2	0	5	0	4	3	2	2	3	3	2	4	2	rs112608415		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	34657472	C	T	34657472	3	4	257	1	0	0	0	0	1	0	0	0	16170	623	22	2	294	2	TMEM47	23	34657472	Missense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10		34657472	120613088	23	13361											
BCOR	54880	hgsc.bcm.edu	37	chrX	39932111	39932111	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcgctctggccaacacTctctgctgcaaagctgggtt	7	10	10	14	1	3	0	1	0	2	0	4	0	3	0	1	2	5	5	1	2	2	1	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	39932111	T	A	39932111	3	1	257	1	0	0	0	0	1	0	0	0	1386	1551	54	5	2827	5	BCOR	23	39932111	Missense_Mutation	SNP	T	TCGA-BP-4765-01A-01D-1366-10	5274639	39932111	115338449	24	13362											
KDM6A	7403	hgsc.bcm.edu	37	chrX	44922760	44922760	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaaactcagtctctggcCagcagccacagcttgctctg	9	9	8	15	0	3	0	1	0	2	0	4	0	3	0	2	1	6	3	2	1	2	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	44922760	C	T	44922760	4	4	257	1	0	0	0	0	0	1	0	0	8137	595	21	2	1683	2	KDM6A	23	44922760	Nonsense_Mutation	SNP	C	TCGA-BP-4765-01A-01D-1366-10	4990649	44922760	110347800	25	13363											
AKAP4	8852	hgsc.bcm.edu	37	chrX	49957702	49957702	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttagtctgctgggtcagatgGtactggatcagcttaagggc	8	12	14	7	0	3	1	2	0	1	1	3	2	3	2	0	4	3	3	0	4	3	3	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		T	49957702	G	T	49957702	4	4	257	1	0	0	0	0	0	1	0	0	453	1256	44	4	910	4	AKAP4	23	49957702	Nonsense_Mutation	SNP	G	TCGA-BP-4765-01A-01D-1366-10	5034942	49957702	105312858	26	13364											
FOXO4	4303	hgsc.bcm.edu	37	chrX	70320888	70320888	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccagcagtgtcagcaccCggctgtcccccttgaggcca	7	7	11	16	1	1	1	1	1	0	0	2	1	2	1	5	2	3	3	5	2	0	1	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		A	70320888	C	A	70320888	2	1	257	1	0	0	0	0	0	0	0	1	6025	643	23	4		4	FOXO4	23	70320888	Silent	SNP	C	TCGA-BP-4765-01A-01D-1366-10	20363186	70320888	84949672	27	13365											
CYLC1	1538	hgsc.bcm.edu	37	chrX	83128982	83128982	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggagagtcagaaagatgaAaaaaaggataaaaaagattc	24	5	10	2	0	1	5	1	1	0	4	2	7	1	6	0	2	0	0	0	2	8	2	novel		TCGA-BP-4765-01A-01D-1366-10	TCGA-BP-4765-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	466e3402-24ee-4819-b4b0-769547541096	ad5cbf0f-6aa3-4f0d-9490-5e8ae7fd96d9		G	83128982	A	G	83128982	2	3	257	1	0	0	0	0	0	0	0	1	4141	11	1	3		3	CYLC1	23	83128982	Silent	SNP	A	TCGA-BP-4765-01A-01D-1366-10	12808094	83128982	72141578	28	13366											
VHL	7428	hgsc.bcm.edu	37	chr3	10183734	10183734	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgcgctcggtgaactCgcgcgagccctcccaggtca	5	7	13	16	6	1	1	1	1	0	0	4	2	2	1	2	2	4	2	2	2	1	0	novel		TCGA-BP-4765-01A-01W-1362-10	TCGA-BP-4765-11A-01W-1363-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	460dfbb1-09ac-4532-aa75-29523009ce18	024b16d4-763e-42e6-ab9f-fdf43bf87a05		A	10183734	C	A	10183734	4	1	258	1	0	0	0	0	0	1	0	0	17161	893	31	4	205	4	VHL	3	10183734	Nonsense_Mutation	SNP	C	TCGA-BP-4765-01A-01W-1362-10		10183734	187838696	1	13367											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21806631	21806631	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaactccttttgagtacctGgaactgcctgacttatgcca	9	13	7	12	0	1	2	1	2	0	0	2	3	2	3	4	1	5	1	4	1	4	4	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	21806631	G	T	21806631	2	4	259	1	0	0	0	0	0	0	0	1	10197	1335	47	4		4	NBPF3	1	21806631	Silent	SNP	G	TCGA-BP-4766-01A-01D-1366-10		21806631	227443990	1	13368			1	20		4	4	3079	N	T_G_C_A	1.389628e-08
NBPF3	84224	hgsc.bcm.edu	37	chr1	21806710	21806710	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttggcttggctcttgacTtggacagtgagtaccttact	7	14	10	10	0	1	2	0	2	1	0	1	3	1	3	2	3	2	3	2	3	2	6	rs71512986	alternate_allele	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	21806710	T	A	21806710	3	1	259	1	0	0	0	0	1	0	0	0	10197	1606	56	5	1413	5	NBPF3	1	21806710	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	79	21806710	227443911	2	13369			1	20		4	4	3079	N	T_G_C_A	1.389628e-08
NBPF3	84224	hgsc.bcm.edu	37	chr1	21808250	21808250	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaacacgttggcttttctCttgacgtggatggtgagtac	9	13	12	7	2	1	3	0	2	1	1	2	4	1	4	0	3	2	3	0	3	3	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		G	21808250	C	G	21808250	3	3	259	1	0	0	0	0	1	0	0	0	10197	913	32	4	1640	4	NBPF3	1	21808250	Missense_Mutation	SNP	C	TCGA-BP-4766-01A-01D-1366-10	1540	21808250	227442371	3	13370			1	20		4	4	3079	N	T_G_C_A	1.389628e-08
NBPF3	84224	hgsc.bcm.edu	37	chr1	21809709	21809709	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatagatgttattcgactActtcaacttactttcaacta	12	16	5	8	1	2	1	2	0	0	1	3	3	2	2	0	1	4	1	0	1	7	8	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	21809709	A	C	21809709	3	2	259	1	0	0	0	0	1	0	0	0	10197	391	14	5	1786	5	NBPF3	1	21809709	Missense_Mutation	SNP	A	TCGA-BP-4766-01A-01D-1366-10	1459	21809709	227440912	4	13371			1	20		4	4	3079	N	T_G_C_A	1.389628e-08
MTF1	4520	hgsc.bcm.edu;ucsc.edu	37	chr1	38300849	38300849	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattgagtgctgaatgtttTctcacagccattactggggc	8	14	11	8	0	1	2	1	2	1	0	2	2	1	2	1	2	3	3	1	2	3	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	38300849	T	C	38300849	3	2	259	1	0	0	0	0	1	0	0	0	9922	1792	62	3	1393	3	MTF1	1	38300849	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	16491140	38300849	210949772	5	13372											
LRRC7	57554	hgsc.bcm.edu;ucsc.edu	37	chr1	70555438	70555438	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagaatagaaaagaatcctgGccttggatttagtatcagtg	14	11	11	5	0	1	3	1	0	0	3	2	5	2	4	2	2	0	1	2	2	7	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	70555438	G	A	70555438	3	1	259	1	0	0	0	0	1	0	0	0	9020	1203	42	2	4457	2	LRRC7	1	70555438	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	32254589	70555438	178695183	6	13373											
NBPF14	25832	hgsc.bcm.edu	37	chr1	148004722	148004722	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaagtacattgacggagtCgaataacatatatccagtga	16	10	8	7	2	1	2	1	2	0	0	3	4	2	3	1	1	2	1	1	1	6	5	rs138813155	byfrequency	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	148004722	C	T	148004722	2	4	259	1	0	0	0	0	0	0	0	1	10194	871	31	1		1	NBPF14	1	148004722	Silent	SNP	C	TCGA-BP-4766-01A-01D-1366-10	77449284	148004722	101245899	7	13374											
USH2A	7399	hgsc.bcm.edu;ucsc.edu	37	chr1	216373233	216373233	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaggggcacaggacaaaaTatatttctctatgggaccag	15	8	10	8	0	1	0	0	0	1	0	2	2	1	2	1	4	0	1	1	4	6	4	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	216373233	T	C	216373233	3	2	259	1	0	0	0	0	1	0	0	0	17035	1406	49	3	12299	3	USH2A	1	216373233	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	68368511	216373233	32877388	8	13375											
GPR45	11250	hgsc.bcm.edu;ucsc.edu	37	chr2	105859154	105859154	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggcttctccctctgctGgctgccccactccgtctaca	3	11	9	18	2	3	0	0	0	3	0	5	0	4	0	4	2	3	3	4	2	1	2	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	105859154	G	A	105859154	4	1	259	1	0	0	0	0	0	1	0	0	6696	1357	47	2	841	2	GPR45	2	105859154	Nonsense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10		105859154	137340219	9	13376											
RIF1	55183	hgsc.bcm.edu	37	chr2	152319431	152319431	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgacattgtcattcctCaagatgtcacggaagactgt	12	11	9	9	1	3	3	3	1	0	2	4	4	4	4	1	1	0	0	1	1	2	2	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	152319431	C	A	152319431	3	1	259	1	0	0	0	0	1	0	0	0	13361	827	29	4	3511	4	RIF1	2	152319431	Missense_Mutation	SNP	C	TCGA-BP-4766-01A-01D-1366-10	46460277	152319431	90879942	10	13377											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179405009	179405009	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcctgtgactttagatccTccttcatcttctggaacact	8	15	6	12	0	3	2	1	1	2	1	5	3	5	3	3	1	2	0	3	1	3	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	179405009	T	A	179405009	2	1	259	1	0	0	0	0	0	0	0	1	16734	1538	54	5		5	TTN	2	179405009	Silent	SNP	T	TCGA-BP-4766-01A-01D-1366-10	27085578	179405009	63794364	11	13378											
BARD1	580	hgsc.bcm.edu;ucsc.edu	37	chr2	215595187	215595187	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccttcaggaatttcatacTtttcttcctgttcacatact	9	17	4	11	0	4	0	3	0	1	0	5	2	5	1	2	1	2	1	2	1	3	8	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		G	215595187	T	G	215595187	3	3	259	1	0	0	0	0	1	0	0	0	1312	1609	56	5	392	5	BARD1	2	215595187	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	36190178	215595187	27604186	12	13379											
ADD1	118	hgsc.bcm.edu	37	chr4	2900254	2900254	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtggttgcctgtgagaTccaggtaggggacagccatt	7	11	14	9	0	0	1	0	1	0	1	1	3	1	2	4	4	2	2	4	4	1	4	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	2900254	T	C	2900254	3	2	259	1	0	0	0	0	1	0	0	0	304	1435	50	3	1006	3	ADD1	4	2900254	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10		2900254	188254022	13	13380											
DCHS2	54798	hgsc.bcm.edu	37	chr4	155410650	155410650	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacctctcggtctagagTccggatagtgctgatcgcac	7	10	12	12	3	2	2	0	1	2	1	5	4	3	4	2	3	1	2	2	3	2	2	rs72731014	bycluster;byfrequency;by1000genomes	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	155410650	T	C	155410650	3	2	259	1	0	0	0	0	1	0	0	0	4288	1667	58	3	9226	3	DCHS2	4	155410650	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	152510396	155410650	35743626	14	13381											
MTRR	4552	hgsc.bcm.edu;ucsc.edu	37	chr5	7897260	7897260	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagatgctcctgttggggagGaggaagccccagcaaagtat	11	7	15	8	0	0	1	0	0	0	1	1	5	1	4	3	4	3	4	3	4	3	2	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	7897260	G	T	7897260	4	4	259	1	0	0	0	0	0	1	0	0	9961	1175	41	4	1987	4	MTRR	5	7897260	Nonsense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10		7897260	173018000	15	13382											
ESM1	11082	hgsc.bcm.edu;ucsc.edu	37	chr5	54277855	54277855	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaatctgttggaagactTggttactgaatattggaaga	15	12	10	4	0	1	3	0	1	1	2	1	5	1	5	0	3	2	2	0	3	7	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		G	54277855	T	G	54277855	3	3	259	1	0	0	0	0	1	0	0	0	5252	1821	63	5	141	5	ESM1	5	54277855	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	46380595	54277855	126637405	16	13383											
DMGDH	29958	hgsc.bcm.edu;ucsc.edu	37	chr5	78322310	78322310	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatggcataggttccaaaAttgtcgattccctcctcctg	8	14	7	12	1	1	0	1	0	0	0	6	1	5	0	4	2	0	2	4	2	3	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	78322310	A	T	78322310	3	4	259	1	0	0	0	0	1	0	0	0	4581	98	4	5	489	5	DMGDH	5	78322310	Missense_Mutation	SNP	A	TCGA-BP-4766-01A-01D-1366-10	24044455	78322310	102592950	17	13384											
WRNIP1	56897	hgsc.bcm.edu;ucsc.edu	37	chr6	2768965	2768965	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagcaacagcaagaaacAtagcataaggtttgtgacat	17	7	9	8	0	0	2	0	1	0	1	0	2	0	2	1	1	6	4	1	1	5	3	rs77289107	bycluster;byfrequency;by1000genomes	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		G	2768965	A	G	2768965	3	3	259	1	0	0	0	0	1	0	0	0	17402	217	8	3	869	3	WRNIP1	6	2768965	Missense_Mutation	SNP	A	TCGA-BP-4766-01A-01D-1366-10		2768965	168346102	18	13385											
RREB1	6239	hgsc.bcm.edu;ucsc.edu	37	chr6	7189542	7189542	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagtcatttaccaccaatGggaacatgcacaggtgggtg	11	8	12	10	0	1	0	1	0	0	0	1	1	1	1	3	3	3	1	3	3	3	2	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	7189542	G	T	7189542	3	4	259	1	0	0	0	0	1	0	0	0	13681	1348	47	4	422	4	RREB1	6	7189542	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	4420577	7189542	163925525	19	13386											
TRPV6	55503	hgsc.bcm.edu	37	chr7	142583152	142583152	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctcttctgctgcagcaggTtctgctcatctcggctctgg	4	13	10	14	1	6	0	1	0	5	0	7	0	6	0	1	3	4	6	1	3	0	2	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	142583152	T	C	142583152	3	2	259	1	0	0	0	0	1	0	0	0	16599	1725	60	3	2127	3	TRPV6	7	142583152	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10		142583152	16555511	20	13387											
SPATC1	375686	hgsc.bcm.edu	37	chr8	145086876	145086876	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggcaacagcaggccttTcctcacgccagaacaatggt	11	7	11	12	1	1	2	1	1	0	1	2	2	2	2	3	3	3	2	3	3	3	1	rs60050811	bycluster;by1000genomes	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	145086876	T	C	145086876	3	2	259	1	0	0	0	0	1	0	0	0	15018	1783	62	3	195	3	SPATC1	8	145086876	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10		145086876	1277146	21	13388											
ERMP1	79956	hgsc.bcm.edu;ucsc.edu	37	chr9	5801303	5801303	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagcatggttttttttgtgCtcttggcaaggtagatgaag	8	17	12	4	0	1	2	0	1	1	1	1	2	1	2	0	3	2	5	0	3	4	7	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	5801303	C	T	5801303	3	4	259	1	0	0	0	0	1	0	0	0	5236	797	28	2	794	2	ERMP1	9	5801303	Missense_Mutation	SNP	C	TCGA-BP-4766-01A-01D-1366-10		5801303	135412128	22	13389											
AQP7	364	hgsc.bcm.edu	37	chr9	33387073	33387073	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttagaaccatatgggccacGgaaccaaggccgaataccta	14	7	9	11	2	0	1	0	0	0	1	0	3	0	2	5	3	3	0	5	3	8	5	rs73645276	bycluster;byfrequency	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	33387073	G	A	33387073	2	1	259	1	0	0	0	0	0	0	0	1	831	1103	39	1		1	AQP7	9	33387073	Silent	SNP	G	TCGA-BP-4766-01A-01D-1366-10	27585770	33387073	107826358	23	13390											
NPR2	4882	hgsc.bcm.edu	37	chr9	35794073	35794073	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaatcgcacccgggaacaGgcccaggccctcagagaggc	11	2	13	15	2	1	1	1	0	0	1	2	4	1	2	3	4	1	1	3	4	2	0	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	35794073	G	C	35794073	3	2	259	1	0	0	0	0	1	0	0	0	10595	991	35	4	852	4	NPR2	9	35794073	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	2407000	35794073	105419358	24	13391											
C9orf64	84267	hgsc.bcm.edu;ucsc.edu	37	chr9	86570341	86570341	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaaaactttcaaccacCaggtgcattaacttctgcgc	13	9	8	11	1	2	0	1	0	1	0	2	2	2	1	2	2	5	1	2	2	5	3	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	86570341	C	T	86570341	2	4	259	1	0	0	0	0	0	0	0	1	2489	581	21	2		2	C9orf64	9	86570341	Silent	SNP	C	TCGA-BP-4766-01A-01D-1366-10	50776268	86570341	54643090	25	13392											
PDCL	5082	hgsc.bcm.edu;ucsc.edu	37	chr9	125582825	125582825	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccttgtgaagctgctgccGcatctcttccattcgctgct	4	13	8	16	2	1	1	0	1	1	0	4	1	2	1	4	0	4	5	4	0	1	3	rs147830688	byfrequency	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	125582825	G	A	125582825	3	1	259	1	0	0	0	0	1	0	0	0	11626	1086	38	1	464	1	PDCL	9	125582825	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	39012484	125582825	15630606	26	13393											
ARHGAP22	58504	hgsc.bcm.edu;ucsc.edu	37	chr10	49812835	49812835	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcctgatctttgggcTcagcatgttcttgcagccgt	4	13	12	12	1	3	1	1	1	2	0	3	1	3	1	3	2	4	4	3	2	0	3	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	49812835	T	A	49812835	3	1	259	1	0	0	0	0	1	0	0	0	872	1551	54	5	2129	5	ARHGAP22	10	49812835	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10		49812835	85721912	27	13394											
VCL	7414	hgsc.bcm.edu	37	chr10	75854046	75854046	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggggaaaggagattctcCagaggctcgagccttggcca	10	7	15	9	1	1	2	0	0	1	2	3	5	1	3	3	5	1	1	3	5	2	3	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	75854046	C	A	75854046	3	1	259	1	0	0	0	0	1	0	0	0	17138	594	21	4	1412	4	VCL	10	75854046	Missense_Mutation	SNP	C	TCGA-BP-4766-01A-01D-1366-10	26041211	75854046	59680701	28	13395											
GRK5	2869	hgsc.bcm.edu;ucsc.edu	37	chr10	121190918	121190918	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgtgcctgccaggttcGggccacgggtaaaatgtatg	7	10	15	9	2	1	0	0	0	1	0	2	0	1	0	3	4	2	3	3	4	3	3	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	121190918	G	A	121190918	3	1	259	1	0	0	0	0	1	0	0	0	6792	1116	39	1	647	1	GRK5	10	121190918	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	45336872	121190918	14343829	29	13396											
STK32C	282974	hgsc.bcm.edu	37	chr10	134036270	134036270	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggtcgcagtgcagacGgcctttctacagagggatgg	7	8	18	8	2	1	2	0	0	1	2	2	3	1	3	1	6	2	2	1	6	1	2	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	134036270	G	A	134036270	3	1	259	1	0	0	0	0	1	0	0	0	15300	1116	39	1	346	1	STK32C	10	134036270	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	12845352	134036270	1498477	30	13397											
MTCH2	23788	hgsc.bcm.edu	37	chr11	47663986	47663986	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaggatggtgagaccggagCccaggagcacctgactggcc	10	4	15	12	1	0	2	0	2	0	1	0	6	0	5	4	5	2	1	4	5	0	0	rs72909898	bycluster	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	47663986	C	T	47663986	3	4	259	1	0	0	0	0	1	0	0	0	9914	739	26	2	931	2	MTCH2	11	47663986	Missense_Mutation	SNP	C	TCGA-BP-4766-01A-01D-1366-10		47663986	87342530	31	13398											
OR10G7	390265	hgsc.bcm.edu	37	chr11	123909234	123909234	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatggaaagtcaatatggTctggacagcagagtgcagag	15	7	13	6	0	2	2	1	0	1	2	2	4	2	4	0	3	2	2	0	3	4	1	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	123909234	T	C	123909234	3	2	259	1	0	0	0	0	1	0	0	0	10902	1667	58	3	464	3	OR10G7	11	123909234	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	76245248	123909234	11097282	32	13399											
PKNOX2	63876	hgsc.bcm.edu	37	chr11	125300008	125300008	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggggtgctgcagcagcAgggcggtgccccagggacaa	7	4	19	11	2	0	0	0	0	0	0	0	1	0	1	2	5	6	4	2	5	1	0	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	125300008	A	C	125300008	3	2	259	1	0	0	0	0	1	0	0	0	11983	188	7	5	1197	5	PKNOX2	11	125300008	Missense_Mutation	SNP	A	TCGA-BP-4766-01A-01D-1366-10	1390774	125300008	9706508	33	13400											
EEA1	8411	hgsc.bcm.edu	37	chr12	93192687	93192687	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttctgtaaaacagcaattTtaagctctccttggagtgct	10	14	7	10	0	2	0	0	0	2	0	3	1	2	1	2	1	4	4	2	1	4	5	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	93192687	T	C	93192687	3	2	259	1	0	0	0	0	1	0	0	0	4921	1841	64	3	1323	3	EEA1	12	93192687	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10		93192687	40659208	34	13401											
PLEKHH1	57475	hgsc.bcm.edu;ucsc.edu	37	chr14	68045252	68045252	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtctgtgtccctggcagtGctggcagctcctcgctctgt	2	13	12	14	1	2	0	0	0	2	0	5	0	4	0	2	2	2	5	2	2	0	0	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	68045252	G	T	68045252	3	4	259	1	0	0	0	0	1	0	0	0	12076	1333	46	4	2827	4	PLEKHH1	14	68045252	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10		68045252	39304288	35	13402											
ITGA11	22801	hgsc.bcm.edu;ucsc.edu	37	chr15	68661592	68661592	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccgtcttctggtagccAttggtttccagtggggcgcc	3	13	12	13	2	3	0	0	0	3	0	5	0	4	0	4	4	1	2	4	4	1	4	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		G	68661592	A	G	68661592	2	3	259	1	0	0	0	0	0	0	0	1	7874	214	8	3		3	ITGA11	15	68661592	Silent	SNP	A	TCGA-BP-4766-01A-01D-1366-10		68661592	33869800	36	13403											
GRIN2A	2903	hgsc.bcm.edu	37	chr16	9857305	9857305	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgtgggagtggaggaaagGgttatcggaggtgtggtctg	7	10	20	4	1	1	0	0	0	1	0	2	4	1	4	1	7	0	1	1	7	2	1	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	9857305	G	A	9857305	3	1	259	1	0	0	0	0	1	0	0	0	6779	1232	43	2	302	2	GRIN2A	16	9857305	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10		9857305	80497448	37	13404											
DBNDD1	79007	hgsc.bcm.edu	37	chr16	90075259	90075259	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcggccagctcctggtcCgacatgtcggtgagctcagt	6	9	12	14	3	1	1	1	1	0	0	5	2	3	1	4	3	2	2	4	3	0	0	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	90075259	C	T	90075259	2	4	259	1	0	0	0	0	0	0	0	1	4253	639	23	1		1	DBNDD1	16	90075259	Silent	SNP	C	TCGA-BP-4766-01A-01D-1366-10	80217954	90075259	279494	38	13405											
PELP1	27043	hgsc.bcm.edu	37	chr17	4576620	4576620	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgggcagcgaggagaCggggccagcagcagcgccag	9	1	21	10	3	0	1	0	0	0	1	0	4	0	2	2	6	4	3	2	6	0	0	rs55677157	byfrequency;by1000genomes	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	4576620	C	T	4576620	2	4	259	1	0	0	0	0	0	0	0	1	11725	523	19	1		1	PELP1	17	4576620	Silent	SNP	C	TCGA-BP-4766-01A-01D-1366-10		4576620	76618590	39	13406											
MLLT6	4302	hgsc.bcm.edu	37	chr17	36875827	36875827	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcccctcaggagagtcTgtcttccatgtgagggaagg	8	9	13	11	0	3	2	1	1	2	1	5	5	5	3	4	3	0	0	4	3	1	1	rs62620198	bycluster;byfrequency;by1000genomes	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		C	36875827	T	C	36875827	3	2	259	1	0	0	0	0	1	0	0	0	9630	1580	55	3	2050	3	MLLT6	17	36875827	Missense_Mutation	SNP	T	TCGA-BP-4766-01A-01D-1366-10	32299207	36875827	44319383	40	13407											
CNTNAP1	8506	hgsc.bcm.edu	37	chr17	40839832	40839832	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcccggtttcccacgccGtggccgcctggcagtctcat	4	9	12	16	4	1	0	1	0	1	0	3	0	2	0	5	3	1	2	5	3	0	1	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		T	40839832	G	T	40839832	3	4	259	1	0	0	0	0	1	0	0	0	3646	1145	40	4	1169	4	CNTNAP1	17	40839832	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	3964005	40839832	40355378	41	13408											
ILVBL	10994	hgsc.bcm.edu	37	chr19	15229993	15229993	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgctaggacaatgacAtccgccttcttcagggccgc	8	8	9	16	2	2	1	1	1	1	0	3	2	3	2	5	2	1	1	5	2	2	3	rs1131177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		G	15229993	A	G	15229993	2	3	259	1	0	0	0	0	0	0	0	1	7715	214	8	3		3	ILVBL	19	15229993	Silent	SNP	A	TCGA-BP-4766-01A-01D-1366-10		15229993	43898990	42	13409											
TRO	7216	hgsc.bcm.edu	37	chrX	54957276	54957276	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcggtggaccaagcacTggtgttggcttctgcagtgg	6	11	15	9	1	2	0	1	0	1	0	2	1	2	1	1	5	3	4	1	5	1	3	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	54957276	T	A	54957276	2	1	259	1	0	0	0	0	0	0	0	1	16573	1567	55	5		5	TRO	23	54957276	Silent	SNP	T	TCGA-BP-4766-01A-01D-1366-10		54957276	100313284	43	13410											
CXorf41	0	hgsc.bcm.edu;ucsc.edu	37	chrX	106462183	106462183	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatatgatgatatgtgggatGttagagaaatcccagagtaa	16	11	11	3	0	0	4	0	2	0	2	1	6	1	5	1	1	0	2	1	1	6	4	novel		TCGA-BP-4766-01A-01D-1366-10	TCGA-BP-4766-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	246a22b2-db14-489d-9bd3-3a5e91a5c715	131b822f-4ad9-4645-bab7-665d8fd54a2c		A	106462183	G	A	106462183	3	1	259	1	0	0	0	0	1	0	0	0	4110	1377	48	2	326	2	CXorf41	23	106462183	Missense_Mutation	SNP	G	TCGA-BP-4766-01A-01D-1366-10	51504907	106462183	48808377	44	13411											
NECAP2	55707	hgsc.bcm.edu;ucsc.edu	37	chr1	16775619	16775619	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagtgtgaatttgcaaaaCaagcccagaacccagaccaa	17	5	8	11	0	0	3	0	1	0	2	0	3	0	3	3	0	5	2	3	0	6	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	16775619	C	G	16775619	3	3	260	1	0	0	0	0	1	0	0	0	10308	479	17	4	430	4	NECAP2	1	16775619	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10		16775619	232475002	1	13412											
COL11A1	1301	hgsc.bcm.edu;ucsc.edu	37	chr1	103354185	103354185	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacctttctggccagcgggtCcctgttagaaagaagagaga	11	8	12	10	1	1	4	0	0	1	4	2	5	2	4	3	2	1	1	3	2	3	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	103354185	C	T	103354185	3	4	260	1	0	0	0	0	1	0	0	0	3667	869	30	2	888	2	COL11A1	1	103354185	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	86578566	103354185	145896436	2	13413											
LAX1	54900	hgsc.bcm.edu;ucsc.edu	37	chr1	203741246	203741246	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtactgagagcctcctcTccagaaattctgagagcccg	10	9	9	13	1	3	3	1	2	2	3	5	5	4	3	4	0	3	1	4	0	2	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	203741246	T	C	203741246	3	2	260	1	0	0	0	0	1	0	0	0	8648	1551	54	3	420	3	LAX1	1	203741246	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10	100387061	203741246	45509375	3	13414											
KIDINS220	57498	hgsc.bcm.edu;ucsc.edu	37	chr2	8891618	8891618	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaataatttcccgtagtttGggatctaggtttacagtgca	10	14	10	7	1	1	0	0	0	1	0	2	1	2	1	1	2	2	5	1	2	5	7	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	8891618	G	C	8891618	2	2	260	1	0	0	0	0	0	0	0	1	8271	1335	47	4		4	KIDINS220	2	8891618	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10		8891618	234307755	4	13415											
CCT7	10574	hgsc.bcm.edu	37	chr2	73471736	73471736	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccaagctgatctcccagCagaaagctttctttgctaag	10	11	8	12	0	2	2	0	1	2	1	4	2	3	2	2	0	4	5	2	0	3	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	73471736	C	A	73471736	3	1	260	1	0	0	0	0	1	0	0	0	2959	711	25	4	533	4	CCT7	2	73471736	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	64580118	73471736	169727637	5	13416											
EPC2	26122	hgsc.bcm.edu;ucsc.edu	37	chr2	149520266	149520266	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggagactatggtggtgaAatccttaatgaagtaaaaat	15	12	11	3	0	0	3	0	2	0	1	1	4	1	3	1	3	0	1	1	3	7	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	149520266	A	C	149520266	3	2	260	1	0	0	0	0	1	0	0	0	5161	11	1	5	865	5	EPC2	2	149520266	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10	76048530	149520266	93679107	6	13417											
CHN1	1123	hgsc.bcm.edu;ucsc.edu	37	chr2	175742775	175742775	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccatcagtcaccagatcGtggatggactcaaagcgttt	12	9	10	10	2	3	1	3	0	0	1	4	3	3	3	2	2	2	1	2	2	2	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	175742775	G	T	175742775	3	4	260	1	0	0	0	0	1	0	0	0	3362	1136	40	4	1069	4	CHN1	2	175742775	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	26222509	175742775	67456598	7	13418											
NFE2L2	4780	hgsc.bcm.edu;ucsc.edu	37	chr2	178096052	178096052	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacaggcaattctttctCtggtgtgttctcacattggg	7	16	9	9	0	3	0	1	0	3	0	5	0	3	0	0	3	1	2	0	3	2	5	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	178096052	C	A	178096052	4	1	260	1	0	0	0	0	0	1	0	0	10368	922	32	4	542	4	NFE2L2	2	178096052	Nonsense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	2353277	178096052	65103321	8	13419											
C2orf66	401027	hgsc.bcm.edu;ucsc.edu	37	chr2	197674050	197674050	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatagtagcaggagaggtGctctggtcatggtggagtga	10	9	16	6	0	2	2	1	1	1	1	2	4	2	3	0	5	2	3	0	5	2	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	197674050	G	A	197674050	3	1	260	1	0	0	0	0	1	0	0	0	2185	1319	46	2	299	2	C2orf66	2	197674050	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	19577998	197674050	45525323	9	13420											
PLCD4	84812	hgsc.bcm.edu;ucsc.edu	37	chr2	219500531	219500531	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacaggtgatcagcggtCagcaactccccaaagtggac	12	6	11	12	1	2	1	2	1	0	0	3	3	3	2	2	3	4	1	2	3	3	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	219500531	C	A	219500531	3	1	260	1	0	0	0	0	1	0	0	0	12033	827	29	4	1959	4	PLCD4	2	219500531	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	21826481	219500531	23698842	10	13421											
OGG1	4968	hgsc.bcm.edu	37	chr3	9798842	9798842	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggaaggctagatggggcAccctggacaaagaaattccc	12	5	13	11	1	0	2	0	0	0	2	1	4	1	4	3	5	0	2	3	5	4	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	9798842	A	T	9798842	3	4	260	1	0	0	0	0	1	0	0	0	10845	159	6	5	1116	5	OGG1	3	9798842	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10		9798842	188223588	11	13422											
SI	6476	hgsc.bcm.edu	37	chr3	164777762	164777762	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacttataattccagcgActtagttggaatccaagatt	13	13	8	7	1	0	2	0	1	0	1	2	4	2	3	2	1	1	1	2	1	5	6	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	164777762	A	T	164777762	3	4	260	1	0	0	0	0	1	0	0	0	14299	272	10	5	4565	5	SI	3	164777762	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10	154978920	164777762	33244668	12	13423											
FNDC3B	64778	hgsc.bcm.edu;ucsc.edu	37	chr3	172115178	172115178	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagcatgatgcctactgaTgaacagtttgcagccatcat	13	10	9	9	0	1	4	1	3	0	1	1	4	1	4	2	0	6	3	2	0	3	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	172115178	T	A	172115178	3	1	260	1	0	0	0	0	1	0	0	0	5970	1461	51	5	3626	5	FNDC3B	3	172115178	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10	7337416	172115178	25907252	13	13424											
TBC1D1	23216	hgsc.bcm.edu;ucsc.edu	37	chr4	38029477	38029477	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattaaccaatcaggagcagGcgactatttttgaagaggtt	13	11	10	7	1	1	2	1	1	0	1	1	4	1	3	1	3	2	2	1	3	4	5	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	38029477	G	T	38029477	3	4	260	1	0	0	0	0	1	0	0	0	15596	1203	42	4	1301	4	TBC1D1	4	38029477	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10		38029477	153124799	14	13425											
APBB2	323	hgsc.bcm.edu	37	chr4	40892444	40892444	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgcgagtgcagcacgCtgcggtccatggggtccacc	5	7	16	13	3	0	0	0	0	0	0	2	1	2	0	3	4	4	4	3	4	0	0	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	40892444	C	A	40892444	3	1	260	1	0	0	0	0	1	0	0	0	761	797	28	4	841	4	APBB2	4	40892444	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	2862967	40892444	150261832	15	13426											
SLC4A4	8671	hgsc.bcm.edu	37	chr4	72313420	72313420	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcctaccacgagattggCagagccattgccaccctgat	11	8	9	13	1	0	3	0	1	0	2	1	4	1	3	5	1	3	1	5	1	2	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	72313420	C	T	72313420	2	4	260	1	0	0	0	0	0	0	0	1	14658	697	25	2		2	SLC4A4	4	72313420	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10	31420976	72313420	118840856	16	13427											
C4orf29	80167	hgsc.bcm.edu;ucsc.edu	37	chr4	128949871	128949871	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaacactttcaaccaacaAaagtggttatacaagtcgca	17	9	5	10	1	2	0	2	0	0	0	3	0	2	0	1	1	4	2	1	1	8	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	128949871	A	G	128949871	3	3	260	1	0	0	0	0	1	0	0	0	2259	14	1	3	975	3	C4orf29	4	128949871	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10	56636451	128949871	62204405	17	13428											
LRBA	987	hgsc.bcm.edu	37	chr4	151358010	151358010	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttgggttcagagctcCtattggctgccaatagggag	7	14	12	8	0	2	1	1	0	1	1	3	2	3	2	2	3	2	3	2	3	3	6	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	151358010	C	T	151358010	3	4	260	1	0	0	0	0	1	0	0	0	8931	690	24	2	1823	2	LRBA	4	151358010	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	22408139	151358010	39796266	18	13429											
TERT	7015	hgsc.bcm.edu	37	chr5	1254527	1254527	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacgtaggtgacacggtgtCgagtcagcttgagcaggaat	10	8	15	8	3	1	2	1	2	0	0	2	4	1	3	0	3	2	4	0	3	2	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	1254527	C	T	1254527	3	4	260	1	0	0	0	0	1	0	0	0	15763	884	31	1	155	1	TERT	5	1254527	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10		1254527	179660733	19	13430											
OXCT1	5019	hgsc.bcm.edu;ucsc.edu	37	chr5	41807505	41807505	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaatatggatgtcttcTggagcaaatgctccaatatc	12	12	10	7	0	2	1	0	1	2	0	4	4	3	4	1	3	2	2	1	3	5	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	41807505	T	A	41807505	2	1	260	1	0	0	0	0	0	0	0	1	11329	1567	55	5		5	OXCT1	5	41807505	Silent	SNP	T	TCGA-BP-4768-01A-01D-1366-10	40552978	41807505	139107755	20	13431											
HARS2	23438	hgsc.bcm.edu;ucsc.edu	37	chr5	140076951	140076951	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgtgtgggactcagcattgGggttgagcgaatcttctaca	9	12	13	7	1	3	1	1	1	2	0	3	3	3	2	0	3	3	2	0	3	2	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	140076951	G	A	140076951	3	1	260	1	0	0	0	0	1	0	0	0	6960	1232	43	2	1195	2	HARS2	5	140076951	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	98269446	140076951	40838309	21	13432											
GEMIN5	25929	hgsc.bcm.edu;ucsc.edu	37	chr5	154278063	154278063	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttgttggccagaagcagCtcttgggcacatctgagagc	9	9	13	10	0	2	2	0	1	2	2	2	3	2	2	1	2	3	5	1	2	1	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	154278063	C	T	154278063	2	4	260	1	0	0	0	0	0	0	0	1	6331	796	28	2		2	GEMIN5	5	154278063	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10	14201112	154278063	26637197	22	13433											
PPP1R10	5514	hgsc.bcm.edu	37	chr6	30570687	30570687	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggcccccaggacccccTggtgggaaaccattggctat	7	8	13	13	0	0	0	0	0	0	0	0	2	0	2	5	6	1	1	5	6	2	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	30570687	T	A	30570687	2	1	260	1	0	0	0	0	0	0	0	1	12354	1567	55	5		5	PPP1R10	6	30570687	Silent	SNP	T	TCGA-BP-4768-01A-01D-1366-10		30570687	140544380	23	13434											
TNRC18	84629	hgsc.bcm.edu	37	chr7	5434094	5434094	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggcgtgggcggcccacAgctgcaccatgggcaggttg	6	6	17	12	2	0	0	0	0	0	0	0	0	0	0	2	5	2	4	2	5	0	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	5434094	A	G	5434094	3	3	260	1	0	0	0	0	1	0	0	0	16338	188	7	3	8698	3	TNRC18	7	5434094	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10		5434094	153704569	24	13435											
RFC2	5982	hgsc.bcm.edu	37	chr7	73661019	73661019	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatccagaatgatgatcTtatgtcggcctttgggaaga	10	13	10	8	1	2	4	1	2	1	2	4	5	3	5	2	2	0	0	2	2	3	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	73661019	T	A	73661019	3	1	260	1	0	0	0	0	1	0	0	0	13247	1609	56	5	685	5	RFC2	7	73661019	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10	68226925	73661019	85477644	25	13436											
SOX7	83595	hgsc.bcm.edu	37	chr8	10583337	10583337	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgggacccgttggtgtcaCctgggagaccggaacatgcc	7	8	15	11	2	1	1	1	0	0	1	1	4	1	3	4	4	2	1	4	4	1	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	10583337	C	T	10583337	3	4	260	1	0	0	0	0	1	0	0	0	14958	507	18	2	92	2	SOX7	8	10583337	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10		10583337	135780685	26	13437											
JPH1	56704	hgsc.bcm.edu	37	chr8	75157095	75157095	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttggactggggcacaaccGctcctgcctccttcgtggga	6	9	12	14	2	0	0	0	0	0	0	3	2	2	2	4	4	2	2	4	4	1	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	75157095	G	C	75157095	3	2	260	1	0	0	0	0	1	0	0	0	7960	1087	38	4	419	4	JPH1	8	75157095	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	64573758	75157095	71206927	27	13438											
PKIA	5569	hgsc.bcm.edu;ucsc.edu	37	chr8	79510666	79510666	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agattttattgcttcaggaaGaacaggtagaagaaatgcaa	17	10	10	4	0	1	4	1	0	0	4	1	5	1	5	0	2	3	3	0	2	7	5	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	79510666	G	C	79510666	3	2	260	1	0	0	0	0	1	0	0	0	11973	942	33	4	49	4	PKIA	8	79510666	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	4353571	79510666	66853356	28	13439											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98242754	98242754	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcggtccatgtaaccatgaCcaacctcagccttattcagc	10	9	8	14	1	2	1	2	1	0	0	3	1	3	1	5	2	4	1	5	2	3	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	98242754	C	T	98242754	3	4	260	1	0	0	0	0	1	0	0	0	12732	507	18	2	3552	2	PTCH1	9	98242754	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10		98242754	42970677	29	13440											
RET	5979	hgsc.bcm.edu;ucsc.edu	37	chr10	43608353	43608353	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaccaagacctgccccgaCggccactgcgatgttgtgga	9	6	12	14	3	0	1	0	0	0	1	0	4	0	2	5	2	3	2	5	2	1	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	43608353	C	T	43608353	2	4	260	1	0	0	0	0	0	0	0	1	13237	535	19	1		1	RET	10	43608353	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10		43608353	91926394	30	13441											
DDX50	79009	hgsc.bcm.edu;ucsc.edu	37	chr10	70673216	70673216	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcaaagaccatctgcagaGtggccgattggatctttcta	11	12	9	9	1	4	2	1	0	3	2	4	4	4	3	2	2	1	1	2	2	3	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	70673216	G	C	70673216	3	2	260	1	0	0	0	0	1	0	0	0	4368	1029	36	4	849	4	DDX50	10	70673216	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	27064863	70673216	64861531	31	13442											
SORCS1	114815	hgsc.bcm.edu;ucsc.edu	37	chr10	108447986	108447986	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtccccccttagatccgtGtccggcgcctgcagcaaacg	6	7	12	16	4	0	1	0	0	0	1	3	1	3	1	6	2	3	2	6	2	2	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	108447986	G	T	108447986	3	4	260	1	0	0	0	0	1	0	0	0	14932	1368	48	4	2284	4	SORCS1	10	108447986	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	37774770	108447986	27086761	32	13443											
XPNPEP1	7511	hgsc.bcm.edu;ucsc.edu	37	chr10	111643872	111643874	+	In_Frame_Del	DEL	GTG	GTG	-																															taggagaaaaatactggattGtgctccacatctgatcctcg																								novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	GTG	GTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		-	111643874	GTG	-	111643872	7	5	260	1	0	1	0	1	0	0	0	0	17441	1368	48	0	1269	0	XPNPEP1	10	111643872	In_Frame_Del	DEL	GTG	TCGA-BP-4768-01A-01D-1366-10	3195886	111643872	23890875	33	13444											
PDZD8	118987	hgsc.bcm.edu;ucsc.edu	37	chr10	119043260	119043260	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaactttattcctgtgctgTttccccgtttagaaggactg	7	16	8	10	1	0	1	0	0	0	1	2	2	2	2	3	1	2	3	3	1	4	7	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	119043260	T	C	119043260	3	2	260	1	0	0	0	0	1	0	0	0	11705	1725	60	3	484	3	PDZD8	10	119043260	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10	7399388	119043260	16491487	34	13445											
PTPN5	84867	hgsc.bcm.edu	37	chr11	18787397	18787397	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtccagggcccctccctcGgagtcatcagcagcgtggtt	6	9	12	14	2	2	0	2	0	0	0	5	1	4	1	4	3	2	2	4	3	0	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	18787397	G	T	18787397	2	4	260	1	0	0	0	0	0	0	0	1	12793	1103	39	4		4	PTPN5	11	18787397	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10		18787397	116219119	35	13446											
NUP160	23279	hgsc.bcm.edu;ucsc.edu	37	chr11	47857324	47857324	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctttcttcacagggacaTactccagcatgtcagctacc	9	11	8	13	0	4	0	2	0	2	0	5	1	5	1	2	2	4	2	2	2	2	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	47857324	T	C	47857324	3	2	260	1	0	0	0	0	1	0	0	0	10757	1406	49	3	3450	3	NUP160	11	47857324	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10	29069927	47857324	87149192	36	13447											
CDCA5	113130	hgsc.bcm.edu	37	chr11	64846929	64846929	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggctttgcacaaaccctggGgacctcggtgagtttggagc	7	9	15	10	1	0	1	0	1	0	0	1	3	0	3	2	5	3	3	2	5	1	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	64846929	G	A	64846929	3	1	260	1	0	0	0	0	1	0	0	0	3089	1232	43	2	192	2	CDCA5	11	64846929	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	16989605	64846929	70159587	37	13448											
PAAF1	80227	hgsc.bcm.edu;ucsc.edu	37	chr11	73620605	73620605	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgggtgctgctgacaacTccataaaccttggctcccct	7	10	10	14	1	0	1	0	1	0	0	2	1	2	1	4	3	4	3	4	3	3	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	73620605	T	A	73620605	3	1	260	1	0	0	0	0	1	0	0	0	11362	1551	54	5	720	5	PAAF1	11	73620605	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10	8773676	73620605	61385911	38	13449											
MMP27	64066	hgsc.bcm.edu;ucsc.edu	37	chr11	102564646	102564646	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaacttacctccagcacCaaatgcccacaaagaagtag	16	7	6	12	0	0	1	0	0	0	1	1	1	1	1	4	0	4	3	4	0	7	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	102564646	C	A	102564646	3	1	260	1	0	0	0	0	1	0	0	0	9664	595	21	4	369	4	MMP27	11	102564646	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	28944041	102564646	32441870	39	13450											
DDX23	9416	hgsc.bcm.edu;ucsc.edu	37	chr12	49233687	49233687	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctccagggataatggCtgggcctgaagataaaacag	13	7	12	9	0	0	2	0	1	0	1	2	3	2	3	3	3	2	2	3	3	4	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	49233687	C	T	49233687	2	4	260	1	0	0	0	0	0	0	0	1	4350	796	28	2		2	DDX23	12	49233687	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10		49233687	84618208	40	13451											
KRT86	3892	hgsc.bcm.edu;ucsc.edu	37	chr12	52695702	52695703	+	Frame_Shift_Ins	INS	-	-	G																															tcttccccaaaaagcaccatINSgacttgtggatcttactgtg																								novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	52695703	-	G	52695702	7	5	260	1	0	1	1	0	0	0	0	0	8500	1464	51	0	4	0	KRT86	12	52695702	Frame_Shift_Ins	INS	-	TCGA-BP-4768-01A-01D-1366-10	3462015	52695702	81156193	41	13452											
ANKRD52	283373	hgsc.bcm.edu	37	chr12	56646070	56646070	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttactgcacactggtagctaCcgttagcagctgcatagtgc	9	11	10	11	1	0	0	0	0	0	0	0	0	0	0	1	1	8	7	1	1	5	5	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	56646070	C	T	56646070	3	4	260	1	0	0	0	0	1	0	0	0	678	507	18	2	1890	2	ANKRD52	12	56646070	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	3950368	56646070	77205825	42	13453											
TGM1	7051	hgsc.bcm.edu;ucsc.edu	37	chr14	24727575	24727575	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcctcttcatccagcagtCgttccacacatggaagttcc	8	10	8	15	2	2	0	1	0	1	0	6	1	5	1	4	2	1	3	4	2	1	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	24727575	C	T	24727575	3	4	260	1	0	0	0	0	1	0	0	0	15828	884	31	1	1163	1	TGM1	14	24727575	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10		24727575	82621965	43	13454											
CPSF2	53981	hgsc.bcm.edu;ucsc.edu	37	chr14	92624218	92624218	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgccactagtgaaactcAcatctaccaggtaaacatgc	14	9	7	11	0	2	2	1	2	1	0	2	2	2	2	2	1	5	1	2	1	5	3	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	92624218	A	T	92624218	3	4	260	1	0	0	0	0	1	0	0	0	3825	159	6	5	1853	5	CPSF2	14	92624218	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10	67896643	92624218	14725322	44	13455											
WDR76	79968	hgsc.bcm.edu;ucsc.edu	37	chr15	44136119	44136119	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctacaaagccaatttaaatgGcatggtcattagtgaagata	16	11	8	6	0	1	2	1	1	0	1	1	2	1	2	1	2	2	1	1	2	8	5	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	44136119	G	T	44136119	3	4	260	1	0	0	0	0	1	0	0	0	17325	1203	42	4	929	4	WDR76	15	44136119	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10		44136119	58395273	45	13456											
ATP8B4	79895	hgsc.bcm.edu;ucsc.edu	37	chr15	50154547	50154547	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attacaagccagatgcacttCtgggtcagggaatgtcgtgc	10	10	12	9	1	2	1	1	0	1	1	3	2	2	2	1	2	4	1	1	2	3	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	50154547	C	T	50154547	2	4	260	1	0	0	0	0	0	0	0	1	1197	912	32	2		2	ATP8B4	15	50154547	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10	6018428	50154547	52376845	46	13457											
ZNF598	90850	hgsc.bcm.edu	37	chr16	2052325	2052325	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtgggccttgaggtcgatCtcggtgcggaaggcgtgggt	4	10	19	8	4	1	1	0	1	1	0	3	3	1	2	1	6	1	0	1	6	1	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	2052325	C	T	2052325	2	4	260	1	0	0	0	0	0	0	0	1	18027	912	32	2		2	ZNF598	16	2052325	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10		2052325	88302428	47	13458											
KDM6B	23135	hgsc.bcm.edu	37	chr17	7755027	7755027	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcatgcgggtaacatccacgGgcaacatgctgagccacgtg	10	7	12	12	3	1	1	1	1	0	0	2	1	2	1	2	2	5	3	2	2	2	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	7755027	G	T	7755027	3	4	260	1	0	0	0	0	1	0	0	0	8138	1232	43	4	4132	4	KDM6B	17	7755027	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10		7755027	73440183	48	13459											
MC2R	4158	hgsc.bcm.edu;ucsc.edu	37	chr18	13885200	13885200	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggacaaacagggagtcGatgatgtcatcggctgtggt	11	8	16	6	2	1	2	1	1	0	1	3	6	1	4	0	4	1	1	0	4	1	0	rs147706299	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	13885200	G	T	13885200	2	4	260	1	0	0	0	0	0	0	0	1	9364	1048	37	4		4	MC2R	18	13885200	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10		13885200	64192048	49	13460											
SMAD4	4089	hgsc.bcm.edu	37	chr18	48604770	48604770	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattgaaattcacttacaccGggccctccagctcctagacg	10	9	8	14	2	1	2	1	1	0	1	3	3	3	2	4	1	2	1	4	1	3	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	48604770	G	A	48604770	3	1	260	1	0	0	0	0	1	0	0	0	14762	1116	39	1	1634	1	SMAD4	18	48604770	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	34719570	48604770	29472478	50	13461											
ZNF407	55628	hgsc.bcm.edu;ucsc.edu	37	chr18	72345311	72345311	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaatgtattgaaagggtatGtataggtgcaaatgataaaa	18	11	11	1	0	0	3	0	2	0	1	0	3	0	3	0	2	1	4	0	2	9	6	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	72345311	G	T	72345311	3	4	260	1	0	0	0	0	1	0	0	0	17886	1377	48	4	2338	4	ZNF407	18	72345311	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	23740541	72345311	5731937	51	13462											
APBA3	9546	hgsc.bcm.edu	37	chr19	3754020	3754020	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggtccctgccccgtacctgGgagtccgctgtcaagacctt	5	9	12	15	2	1	1	1	0	0	1	3	2	3	2	6	2	2	2	6	2	2	2	rs61731066	bycluster;byfrequency;by1000genomes	TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		C	3754020	G	C	3754020	2	2	260	1	0	0	0	0	0	0	0	1	758	1219	43	4		4	APBA3	19	3754020	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10		3754020	55374963	52	13463											
CHAF1A	10036	hgsc.bcm.edu	37	chr19	4428837	4428837	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaaaggccggcagcccctGaggtccggacccacgcacgt	8	4	12	17	4	1	1	1	1	0	0	2	2	2	2	5	4	1	2	5	4	1	0	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	4428837	G	A	4428837	2	1	260	1	0	0	0	0	0	0	0	1	3311	1277	45	2		2	CHAF1A	19	4428837	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10	674817	4428837	54700146	53	13464											
TRIP10	9322	hgsc.bcm.edu;ucsc.edu	37	chr19	6750048	6750048	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccctgagcaacattgaaCggctgaaattggaagtgcag	15	7	11	8	1	0	3	0	3	0	0	0	4	0	4	1	2	5	3	1	2	5	2	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	6750048	C	G	6750048	3	3	260	1	0	0	0	0	1	0	0	0	16553	527	19	4	1240	4	TRIP10	19	6750048	Missense_Mutation	SNP	C	TCGA-BP-4768-01A-01D-1366-10	2321211	6750048	52378935	54	13465											
NOTCH3	4854	hgsc.bcm.edu	37	chr19	15300136	15300136	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccacccgtgaagccgggAggacaggtgcaaatggcccg	9	3	15	14	3	0	1	0	1	0	0	0	3	0	3	5	4	2	1	5	4	2	0	rs61749020	bycluster;byfrequency;by1000genomes	TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	15300136	A	G	15300136	2	3	260	1	0	0	0	0	0	0	0	1	10550	291	11	3		3	NOTCH3	19	15300136	Silent	SNP	A	TCGA-BP-4768-01A-01D-1366-10	8550088	15300136	43828847	55	13466											
JAK3	3718	hgsc.bcm.edu	37	chr19	17945471	17945471	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgcactgttgaatcagcagGgccagctctgtccacttggg	8	10	12	11	0	2	1	1	1	1	0	3	1	3	1	2	2	3	4	2	2	1	2	rs35458530	bycluster;byfrequency;by1000genomes	TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	17945471	G	A	17945471	2	1	260	1	0	0	0	0	0	0	0	1	7939	1219	43	2		2	JAK3	19	17945471	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10	2645335	17945471	41183512	56	13467											
CDK5RAP1	51654	hgsc.bcm.edu	37	chr20	31946927	31946927	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgagaactggctgaggtGatctgaaagaaaaccaggca	14	7	13	7	0	2	5	0	4	2	2	2	6	2	5	1	3	2	2	1	3	4	0	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	31946927	G	T	31946927	2	4	260	1	0	0	0	0	0	0	0	1	3145	1280	45	4		4	CDK5RAP1	20	31946927	Silent	SNP	G	TCGA-BP-4768-01A-01D-1366-10		31946927	31078593	57	13468											
BCAS1	8537	hgsc.bcm.edu;ucsc.edu	37	chr20	52583461	52583461	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccatttgtctgagaaacGccatcagagaggttcttggt	10	13	10	8	1	3	2	1	1	2	2	3	4	3	2	2	2	2	1	2	2	2	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	52583461	G	A	52583461	3	1	260	1	0	0	0	0	1	0	0	0	1350	1087	38	1	436	1	BCAS1	20	52583461	Missense_Mutation	SNP	G	TCGA-BP-4768-01A-01D-1366-10	20636534	52583461	10442059	58	13469											
MORC2	22880	hgsc.bcm.edu;ucsc.edu	37	chr22	31346363	31346363	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaataatctcatcacttacTtggatccattcctgctccat	11	14	3	13	0	2	0	2	0	1	0	6	1	5	1	3	1	2	1	3	1	3	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		A	31346363	T	A	31346363	3	1	260	1	0	0	0	0	1	0	0	0	9702	1623	56	5	2964	5	MORC2	22	31346363	Missense_Mutation	SNP	T	TCGA-BP-4768-01A-01D-1366-10		31346363	19958203	59	13470											
CACNA1I	8911	hgsc.bcm.edu	37	chr22	39966976	39966976	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcccccggaactggtgcatCaagatggtgtgcaacccata	11	7	11	12	1	1	1	1	0	0	1	1	2	1	2	3	3	5	2	3	3	4	1	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		T	39966976	C	T	39966976	2	4	260	1	0	0	0	0	0	0	0	1	2546	816	29	2		2	CACNA1I	22	39966976	Silent	SNP	C	TCGA-BP-4768-01A-01D-1366-10	8620613	39966976	11337590	60	13471											
ASB11	140456	hgsc.bcm.edu;ucsc.edu	37	chrX	15320875	15320875	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattaaagttttaagggccAgtaagcgcccctgagctgca	12	9	10	10	1	0	1	0	1	0	0	0	1	0	1	3	1	3	4	3	1	5	4	novel		TCGA-BP-4768-01A-01D-1366-10	TCGA-BP-4768-11A-01D-1366-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	402c7965-466c-4117-a3c6-3e26aabd0ece	4ebf48fe-dd53-40aa-b19f-a8a21d1b0329		G	15320875	A	G	15320875	3	3	260	1	0	0	0	0	1	0	0	0	1015	188	7	3	759	3	ASB11	23	15320875	Missense_Mutation	SNP	A	TCGA-BP-4768-01A-01D-1366-10		15320875	139949685	61	13472											
FAM131C	348487	broad.mit.edu	37	chr1	16361919	16361919	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctgtgaggggccgctGggaaggctgtcctgaaggta	7	9	16	9	1	1	2	1	2	0	0	3	3	3	3	3	5	0	3	3	5	3	1	rs148785270	by1000genomes	TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	16361919	A	A	16361919	2	1	261	1	0	0	0	0	0	0	0	1	5441	1363	47	2		2	FAM131C	1	16361919	Silent	SNP	G	TCGA-BP-4770-01A-01D-1501-10		16361919	232888702	1	13473											
TNR	7143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	175323627	175323627	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacaggccctccagtcgAatccaggtgtcttctgcatc	8	10	8	15	1	2	0	0	0	2	0	7	1	5	0	4	2	2	1	4	2	2	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	175323627	A	T	175323627	2	4	261	1	0	0	0	0	0	0	0	1	16337	242	9	5		5	TNR	1	175323627	Silent	SNP	A	TCGA-BP-4770-01A-01D-1501-10	158961708	175323627	73926994	2	13474											
OR2T4	127074	broad.mit.edu;hgsc.bcm.edu	37	chr1	248525734	248525734	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtggtcatcctcttctaTggggctgccatctacaccta	7	13	8	13	0	4	0	1	0	3	0	5	0	5	0	3	3	2	1	3	3	3	4	rs138844789		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	248525734	T	C	248525734	2	2	261	1	0	0	0	0	0	0	0	1	11027	1471	51	3		3	OR2T4	1	248525734	Silent	SNP	T	TCGA-BP-4770-01A-01D-1501-10	73202107	248525734	724887	3	13475											
FAM110C	642273	broad.mit.edu	37	chr2	45667	45667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagggtcacacagtccgacCccgcggtgaagttctccctc	7	8	11	15	3	2	2	1	2	1	0	5	3	3	2	4	2	0	1	4	2	1	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	45667	T	T	45667	3	4	261	1	0	0	0	0	1	0	0	0	5398	623	22	2	254	2	FAM110C	2	45667	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10		45667	243153706	4	13476											
SRBD1	55133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	45620107	45620107	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaaagtcaaagctttcaGgctggctgagaccatctatg	11	11	10	9	1	3	1	2	1	1	1	4	3	3	1	1	2	1	3	1	2	3	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	45620107	G	T	45620107	3	4	261	1	0	0	0	0	1	0	0	0	15134	1000	35	4	320	4	SRBD1	2	45620107	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	45574440	45620107	197579266	5	13477											
DYSF	8291	broad.mit.edu;ucsc.edu	37	chr2	71738941	71738941	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtctcatctcttccaggcctCgctggtcctgcaggtgtcct	3	13	10	15	1	2	0	1	0	2	0	8	0	5	0	4	3	1	2	4	3	0	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	71738941	G	G	71738941	3	3	261	1	0	0	0	0	1	0	0	0	4859	893	31	4	460	4	DYSF	2	71738941	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	26118834	71738941	171460432	6	13478											
MKI67IP	84365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	122488643	122488643	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaatattccagtctttaaaGagttctttatgtactttttc	10	19	6	6	0	2	1	0	0	2	1	4	2	3	2	1	1	1	2	1	1	6	10	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	122488643	G	A	122488643	2	1	261	1	0	0	0	0	0	0	0	1	9599	929	33	2		2	MKI67IP	2	122488643	Silent	SNP	G	TCGA-BP-4770-01A-01D-1501-10	50749702	122488643	120710730	7	13479											
SMARCAL1	50485	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	217285020	217285020	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgattcttcttctttggcAgtgaaagcagcccagagcct	8	13	9	11	1	3	2	0	1	3	1	4	3	3	2	2	1	3	2	2	1	1	5	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	217285020	A	T	217285020	5	4	261	1	0	0	0	0	0	0	1	0	14775	202	7	5	871	5	SMARCAL1	2	217285020	Splice_Site	SNP	A	TCGA-BP-4770-01A-01D-1501-10	94796377	217285020	25914353	8	13480											
VPRBP	9730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51455599	51455599	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatactgacttcattccccaAagtgcagacaaaggctggct	13	9	8	11	0	1	2	1	1	0	1	2	2	2	2	2	2	2	3	2	2	4	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	51455599	A	C	51455599	2	2	261	1	0	0	0	0	0	0	0	1	17184	1	1	5		5	VPRBP	3	51455599	Silent	SNP	A	TCGA-BP-4770-01A-01D-1501-10		51455599	146566831	9	13481											
GPR15	2838	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	98251797	98251797	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttactatatcttcgacaGctacatccgccgggccattg	9	12	7	13	3	1	0	0	0	1	0	3	1	2	0	3	1	3	1	3	1	4	7	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	98251797	G	T	98251797	3	4	261	1	0	0	0	0	1	0	0	0	6655	971	34	4	922	4	GPR15	3	98251797	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	46796198	98251797	99770633	10	13482											
RAB6B	51560	broad.mit.edu;ucsc.edu	37	chr3	133558406	133558406	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgatgataacatcactgccCctctctgtcctgacgtcgtc	8	12	7	14	2	2	3	1	3	1	0	6	3	3	3	3	0	2	0	3	0	1	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	133558406	G	G	133558406	3	3	261	1	0	0	0	0	1	0	0	0	12954	622	22	4	297	4	RAB6B	3	133558406	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	35306609	133558406	64464024	11	13483											
MUC4	4585	broad.mit.edu	37	chr3	195510133	195510133	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggatactgaggaagtgTtggtgacaggaagaggggtg	10	9	19	3	0	0	3	0	2	0	1	0	6	0	6	0	6	1	1	0	6	3	2	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	195510133	C	C	195510133	3	2	261	1	0	0	0	0	1	0	0	0	9978	1725	60	3		3	MUC4	3	195510133	Missense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10	61951727	195510133	2512297	12	13484			1	21		2	2	14	N	T_G	2.687585e-05
MUC4	4585	broad.mit.edu	37	chr3	195510146	195510146	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaagtgttggtgacaggaaGaggggtggcgtgacctgtgg	8	8	21	4	1	0	3	0	2	0	1	0	5	0	5	1	7	0	1	1	7	2	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	195510146	C	C	195510146	3	2	261	1	0	0	0	0	1	0	0	0	9978	942	33	4		4	MUC4	3	195510146	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	13	195510146	2512284	13	13485			1	21		2	2	14	N	T_G	2.687585e-05
ZNF141	7700	broad.mit.edu;hgsc.bcm.edu	37	chr4	367075	367075	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgctggagagaaacccatCacatgtgaagaatgtaggaa	16	7	11	7	0	1	3	1	1	0	2	1	6	1	5	1	2	2	2	1	2	5	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	367075	C	T	367075	2	4	261	1	0	0	0	0	0	0	0	1	17729	816	29	2		2	ZNF141	4	367075	Silent	SNP	C	TCGA-BP-4770-01A-01D-1501-10		367075	190787201	14	13486											
CD180	4064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66478939	66478939	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgagcaagtgcagtccagggGgttatgacttaaattaatgg	12	10	13	6	1	0	1	0	1	0	0	1	2	1	1	1	3	2	3	1	3	5	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	66478939	G	T	66478939	3	4	261	1	0	0	0	0	1	0	0	0	2972	1232	43	4	257	4	CD180	5	66478939	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10		66478939	114436321	15	13487											
PCDHA10	56139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140236094	140236094	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactctcgatttccactagAaggcgcatctgatgcggatg	9	11	11	10	3	2	3	0	2	2	1	4	5	3	4	1	2	1	1	1	2	2	2	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	140236094	A	G	140236094	3	3	261	1	0	0	0	0	1	0	0	0	11520	246	9	3	463	3	PCDHA10	5	140236094	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	73757155	140236094	40679166	16	13488											
PCDHGB7	56099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140798186	140798186	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acagggttagccttcgggaaGacgtgcctccaggcacctcc	8	7	12	14	2	0	1	0	0	0	1	3	2	2	2	5	3	2	2	5	3	2	2	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	140798186	G	C	140798186	3	2	261	1	0	0	0	0	1	0	0	0	11568	942	33	4	762	4	PCDHGB7	5	140798186	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	562092	140798186	40117074	17	13489											
EYS	346007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	65655781	65655781	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaaaaatttccttcccaAtcagataggcacacacactg	15	9	4	13	0	2	1	2	0	0	1	4	1	4	1	2	1	0	1	2	1	4	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	65655781	A	C	65655781	3	2	261	1	0	0	0	0	1	0	0	0	5332	98	4	5	7109	5	EYS	6	65655781	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10		65655781	105459286	18	13490											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152809562	152809562	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtaaatttgattccaccAtctgtgctcttgtcaaatct	9	16	5	11	0	4	1	1	1	3	0	5	1	5	1	3	0	1	2	3	0	3	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	152809562	A	G	152809562	3	3	261	1	0	0	0	0	1	0	0	0	15444	217	8	3	25990	3	SYNE1	6	152809562	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	87153781	152809562	18305505	19	13491											
KLHL7	55975	broad.mit.edu;ucsc.edu	37	chr7	23207478	23207478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcagctctgtatttatttGagtgctatgatacgagaact	11	15	8	7	1	2	3	1	2	1	1	2	4	2	3	0	0	4	3	0	0	5	6	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	23207478	A	A	23207478	3	1	261	1	0	0	0	0	1	0	0	0	8394	1291	45	2	1298	2	KLHL7	7	23207478	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10		23207478	135931185	20	13492											
NCF1	653361	broad.mit.edu;hgsc.bcm.edu	37	chr7	74191683	74191683	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggcgcttcaccgagatctAcgagttccatgtgagtgtgg	7	10	13	11	4	2	2	1	1	1	1	3	4	3	2	3	2	1	2	3	2	1	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	74191683	A	G	74191683	3	3	261	1	0	0	0	0	1	0	0	0	10216	391	14	3	149	3	NCF1	7	74191683	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	50984205	74191683	84946980	21	13493											
TRRAP	8295	broad.mit.edu	37	chr7	98574329	98574329	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgaaaagggtctgagtcTtcagattaagccgaagcaaa	14	11	10	6	1	3	3	1	2	2	1	3	4	3	3	1	1	2	1	1	1	5	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	98574329	G	G	98574329	3	3	261	1	0	0	0	0	1	0	0	0	16600	1609	56	5	8314	5	TRRAP	7	98574329	Missense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10	24382646	98574329	60564334	22	13494											
SLC12A9	56996	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100463346	100463346	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctctgcccccaggtggcAtgaagcccaacacgttggtc	7	7	11	16	2	1	1	0	1	1	0	2	1	1	1	4	3	3	3	4	3	2	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	100463346	A	C	100463346	3	2	261	1	0	0	0	0	1	0	0	0	14392	217	8	5	1914	5	SLC12A9	7	100463346	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	1889017	100463346	58675317	23	13495											
MLL3	58508	broad.mit.edu	37	chr7	151970836	151970836	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggacaaagcaggaagatGtgactgaaatcctgaaaggt	15	8	12	6	0	1	4	0	3	1	1	2	6	2	6	1	3	1	1	1	3	4	0	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	151970836	A	A	151970836	2	1	261	1	0	0	0	0	0	0	0	1	9622	1368	48	2		2	MLL3	7	151970836	Silent	SNP	G	TCGA-BP-4770-01A-01D-1501-10	51507490	151970836	7167827	24	13496											
STAR	6770	broad.mit.edu;hgsc.bcm.edu	37	chr8	38001871	38001871	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccacctgggtctgggacaGgacctggttgatgatgctct	7	11	13	10	0	2	2	0	2	2	0	3	4	3	4	3	4	1	2	3	4	0	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	38001871	G	T	38001871	3	4	261	1	0	0	0	0	1	0	0	0	15255	991	35	4	83	4	STAR	8	38001871	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10		38001871	108362151	25	13497											
PLEC	5339	broad.mit.edu;hgsc.bcm.edu	37	chr8	144992443	144992443	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggcgctcgtcggtggacGggtccacgtagctgcgcacc	5	7	16	13	6	0	1	0	1	0	0	3	2	1	2	2	4	2	4	2	4	1	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	144992443	G	T	144992443	3	4	261	1	0	0	0	0	1	0	0	0	12052	1116	39	4	2101	4	PLEC	8	144992443	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	106990572	144992443	1371579	26	13498											
DMRT2	10655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	1056689	1056689	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaatgccaccacctcagttCaagccctgaagcctggggcc	10	7	9	15	0	2	1	2	1	0	0	2	1	2	1	6	2	3	1	6	2	4	2	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	1056689	C	G	1056689	3	3	261	1	0	0	0	0	1	0	0	0	4586	827	29	4	1169	4	DMRT2	9	1056689	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10		1056689	140156742	27	13499											
FREM1	158326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	14748599	14748599	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccttctcccatgtgctgtGcttgctttggttggaggaat	4	15	12	10	0	1	0	0	0	1	0	2	2	1	2	2	3	3	4	2	3	1	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	14748599	G	T	14748599	3	4	261	1	0	0	0	0	1	0	0	0	6044	1319	46	4	971	4	FREM1	9	14748599	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	13691910	14748599	126464832	28	13500											
TBC1D2	55357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100963824	100963824	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgctaatgagactgtcCgcaaagaccacgaggaacca	14	7	10	10	2	0	2	0	1	0	2	1	5	1	3	3	1	2	3	3	1	3	2	rs145936813	byfrequency	TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	100963824	C	T	100963824	2	4	261	1	0	0	0	0	0	0	0	1	15607	639	23	1		1	TBC1D2	9	100963824	Silent	SNP	C	TCGA-BP-4770-01A-01D-1501-10	86215225	100963824	40249607	29	13501											
C5	727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123745015	123745015	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcaactagccacaataaaGaattacaaattgaattttgg	17	12	5	7	0	1	2	1	1	1	1	2	2	1	2	1	1	3	0	1	1	9	6	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	123745015	G	A	123745015	3	1	261	1	0	0	0	0	1	0	0	0	2280	942	33	2	1786	2	C5	9	123745015	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	22781191	123745015	17468416	30	13502											
C10orf18	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5800947	5800947	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaataaaaagctaaaagaAgatgaaaggtaaggacttgc	22	6	10	3	0	0	3	0	1	0	2	0	5	0	4	0	2	2	2	0	2	10	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	5800947	A	T	5800947	3	4	261	1	0	0	0	0	1	0	0	0	1596	69	3	5	7042	5	C10orf18	10	5800947	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10		5800947	129733800	31	13503											
LRRC56	115399	broad.mit.edu	37	chr11	551241	551241	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccaccggcccccccgcggctGagccaggactggcttgcggt	4	5	14	18	4	0	1	0	1	0	0	0	2	0	2	6	5	2	2	6	5	0	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	551241	C	C	551241	2	2	261	1	0	0	0	0	0	0	0	1	9012	1277	45	4		4	LRRC56	11	551241	Silent	SNP	G	TCGA-BP-4770-01A-01D-1501-10		551241	134455275	32	13504											
OR2AG1	144125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6806389	6806389	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacttgttggccctgatcAgcaatggcctactgctcctg	7	13	9	12	0	1	1	1	1	0	0	2	1	2	1	3	2	4	3	3	2	4	5	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	6806389	A	G	6806389	3	3	261	1	0	0	0	0	1	0	0	0	10984	188	7	3	123	3	OR2AG1	11	6806389	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	6255148	6806389	128200127	33	13505											
OR4A5	81318	broad.mit.edu;hgsc.bcm.edu	37	chr11	51412339	51412339	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatgctttttgcacaccAggatcctgagaaaagcccag	14	9	8	10	0	0	1	0	1	0	1	1	3	1	2	3	1	3	2	3	1	4	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	51412339	A	T	51412339	2	4	261	1	0	0	0	0	0	0	0	1	11043	175	7	5		5	OR4A5	11	51412339	Silent	SNP	A	TCGA-BP-4770-01A-01D-1501-10	44605950	51412339	83594177	34	13506											
OR8H1	219469	broad.mit.edu	37	chr11	56057618	56057618	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaattacctggagtcctgTcttctctgcatgactctaat	8	17	6	10	0	3	1	0	1	3	0	5	2	4	2	2	1	2	1	2	1	3	5	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	56057618	C	C	56057618	2	2	261	1	0	0	0	0	0	0	0	1	11237	1664	58	3		3	OR8H1	11	56057618	Silent	SNP	T	TCGA-BP-4770-01A-01D-1501-10	4645279	56057618	78948898	35	13507											
OR1S1	219959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57982325	57982325	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaagcaggatgagcatCaaaacctcctctttgtgctt	10	14	7	10	0	3	1	2	1	1	0	4	2	4	2	2	1	4	3	2	1	3	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	57982325	C	A	57982325	3	1	261	1	0	0	0	0	1	0	0	0	10972	827	29	4	111	4	OR1S1	11	57982325	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	1924707	57982325	77024191	36	13508											
NAALADL1	10004	broad.mit.edu;hgsc.bcm.edu	37	chr11	64822097	64822097	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccactcctgaggggggCaggtaccaggagttgggaaa	9	6	16	10	1	0	1	0	1	0	0	2	3	2	3	3	6	1	4	3	6	2	2	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	64822097	C	A	64822097	2	1	261	1	0	0	0	0	0	0	0	1	10129	697	25	4		4	NAALADL1	11	64822097	Silent	SNP	C	TCGA-BP-4770-01A-01D-1501-10	6839772	64822097	70184419	37	13509											
OR10G7	390265	broad.mit.edu;hgsc.bcm.edu	37	chr11	123909632	123909632	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccaccaggaagattccaAagaggggggcgtccagccct	13	4	12	12	1	0	2	0	0	0	2	2	3	2	3	5	4	2	0	5	4	3	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	123909632	A	T	123909632	3	4	261	1	0	0	0	0	1	0	0	0	10902	14	1	5	862	5	OR10G7	11	123909632	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	59087535	123909632	11096884	38	13510											
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	13761600	13761600	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatcatgaaggcagctaaGttggcagtgtagctggccag	10	9	15	7	0	1	1	1	1	0	0	1	2	1	2	1	4	2	6	1	4	3	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	13761600	G	T	13761600	3	4	261	1	0	0	0	0	1	0	0	0	6780	1020	36	4	2527	4	GRIN2B	12	13761600	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10		13761600	120090295	39	13511											
EP400	57634	broad.mit.edu	37	chr12	132547141	132547141	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcaacaGcagcagcagcaacagacgac	16	0	11	14	1	0	1	0	0	0	1	0	2	0	1	0	0	11	9	0	0	2	0	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	132547141	A	A	132547141	2	1	261	1	0	0	0	0	0	0	0	1	5149	962	34	2		2	EP400	12	132547141	Silent	SNP	G	TCGA-BP-4770-01A-01D-1501-10	118785541	132547141	1304754	40	13512											
MTUS2	23281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	30062042	30062042	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgactctcctccaggtggaAgatctcaccgccagccatga	9	7	10	15	2	2	2	1	1	2	1	5	4	3	3	5	2	1	0	5	2	1	0	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	30062042	A	T	30062042	3	4	261	1	0	0	0	0	1	0	0	0	9966	69	3	5	3527	5	MTUS2	13	30062042	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10		30062042	85107836	41	13513											
RB1	5925	broad.mit.edu;hgsc.bcm.edu	37	chr13	49030485	49030485	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcactgttttataaaaaaGgttagtagatgattattttc	13	19	6	3	0	1	2	1	1	0	1	2	2	1	2	0	1	0	3	0	1	7	9	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	49030485	G	A	49030485	3	1	261	1	0	0	0	0	1	0	0	0	13100	1014	35	2	2034	2	RB1	13	49030485	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	18968443	49030485	66139393	42	13514											
RPGRIP1	57096	broad.mit.edu;ucsc.edu	37	chr14	21793025	21793025	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgtaccccattatctgtgGggccacagcccctctatgac	8	10	8	15	0	2	1	0	1	2	0	2	1	2	1	5	2	2	1	5	2	3	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	21793025	T	T	21793025	3	4	261	1	0	0	0	0	1	0	0	0	13551	1232	43	4	2065	4	RPGRIP1	14	21793025	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10		21793025	85556515	43	13515											
C14orf37	145407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58563699	58563699	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctcatcttcttgtcccTctaggcaaaaagaaatcaaa	14	11	4	12	0	5	1	2	0	3	1	7	1	7	1	2	1	0	1	2	1	5	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	58563699	T	C	58563699	3	2	261	1	0	0	0	0	1	0	0	0	1771	1565	54	3	508	3	C14orf37	14	58563699	Missense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10	36770674	58563699	48785841	44	13516											
RGS6	9628	broad.mit.edu	37	chr14	72976891	72976891	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaacagcgagtaaaaaGatggggcttctctttcgatg	12	9	11	9	2	1	1	0	0	1	1	3	3	1	1	1	2	3	2	1	2	4	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	72976891	T	T	72976891	3	4	261	1	0	0	0	0	1	0	0	0	13311	942	33	4	1045	4	RGS6	14	72976891	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	14413192	72976891	34372649	45	13517											
SERPINA3	12	broad.mit.edu;hgsc.bcm.edu	37	chr14	95080851	95080851	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctgctgtcctctgccacCctaacagcccacttgacgag	7	8	8	18	1	1	1	0	1	1	0	2	2	2	1	5	0	4	1	5	0	1	2	rs144060757	alternate_allele	TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	95080851	C	A	95080851	3	1	261	1	0	0	0	0	1	0	0	0	14092	623	22	4	75	4	SERPINA3	14	95080851	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	22103960	95080851	12268689	46	13518											
ULK3	25989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75134629	75134629	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccaggctcacacctgaaagtCtttcagctgcacaatgtggg	10	9	10	12	0	3	1	2	1	1	0	3	1	3	1	2	2	2	3	2	2	2	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	75134629	C	G	75134629	3	3	261	1	0	0	0	0	1	0	0	0	16976	913	32	4	1243	4	ULK3	15	75134629	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10		75134629	27396763	47	13519											
PDE8A	5151	broad.mit.edu;hgsc.bcm.edu	37	chr15	85659326	85659326	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggactttgatatttttgAactggaggctgccacccaca	9	12	10	10	0	0	2	0	2	0	0	0	4	0	4	2	3	2	1	2	3	2	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	85659326	A	T	85659326	3	4	261	1	0	0	0	0	1	0	0	0	11653	246	9	5	1573	5	PDE8A	15	85659326	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	10524697	85659326	16872066	48	13520											
TEKT5	146279	broad.mit.edu;ucsc.edu	37	chr16	10788637	10788637	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgatagcattcctggaTcactggcgcctgtacagctg	7	10	13	11	1	1	1	1	1	0	0	2	2	2	2	2	3	3	4	2	3	2	3	rs145065368		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	10788637	C	C	10788637	3	2	261	1	0	0	0	0	1	0	0	0	15755	1435	50	3	1391	3	TEKT5	16	10788637	Missense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10		10788637	79566116	49	13521											
SPEM1	374768	broad.mit.edu;ucsc.edu	37	chr17	7324820	7324820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcttcgggaactgaccCgggaggtggaggccctgtcc	5	6	18	12	3	0	1	0	1	0	0	2	4	1	4	3	7	1	1	3	7	1	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	7324820	T	T	7324820	3	4	261	1	0	0	0	0	1	0	0	0	15038	643	23	1	836	1	SPEM1	17	7324820	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10		7324820	73870390	50	13522											
TP53	7157	broad.mit.edu;hgsc.bcm.edu	37	chr17	7577498	7577498	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtggcaagtggctcctgaCctggagtcttccagtgtgat	6	11	15	9	0	1	2	0	2	1	0	3	3	3	3	3	4	0	2	3	4	1	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	7577498	C	A	7577498	5	1	261	1	0	0	0	0	0	0	1	0	16380	521	18	4	507	4	TP53	17	7577498	Splice_Site	SNP	C	TCGA-BP-4770-01A-01D-1501-10	252678	7577498	73617712	51	13523											
WNK4	65266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40945664	40945664	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggatttctcagacggattCgggagattatccagcgagtg	10	11	13	7	3	1	2	1	0	1	2	4	6	2	4	1	3	1	0	1	3	1	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	40945664	C	T	40945664	3	4	261	1	0	0	0	0	1	0	0	0	17379	875	31	1	2258	1	WNK4	17	40945664	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	33368166	40945664	40249546	52	13524											
UNC13D	201294	broad.mit.edu	37	chr17	73830529	73830529	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacggcccctacccgctgCtccagggcctcccatgccag	6	5	10	20	2	0	0	0	0	0	0	2	0	2	0	7	2	4	3	7	2	1	1	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	73830529	T	T	73830529	2	4	261	1	0	0	0	0	0	0	0	1	16986	796	28	2		2	UNC13D	17	73830529	Silent	SNP	C	TCGA-BP-4770-01A-01D-1501-10	32884865	73830529	7364681	53	13525											
SERPINB13	5275	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61255920	61255920	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggattcacttggcgccGtcagcactcgacttgggttt	6	13	11	11	3	3	0	3	0	0	0	4	2	3	1	1	3	1	2	1	3	0	4	rs139825462		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	61255920	G	A	61255920	3	1	261	1	0	0	0	0	1	0	0	0	14102	1145	40	1	21	1	SERPINB13	18	61255920	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10		61255920	16821328	54	13526											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9047434	9047434	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttaccatatctggtacAtcaggtgagacagttattgt	11	13	11	6	0	2	1	1	1	1	1	2	3	2	1	1	3	2	3	1	3	4	5	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	9047434	A	G	9047434	2	3	261	1	0	0	0	0	0	0	0	1	9973	214	8	3		3	MUC16	19	9047434	Silent	SNP	A	TCGA-BP-4770-01A-01D-1501-10		9047434	50081549	55	13527											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9074345	9074345	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggttggtgctcacatcTgtaaatgtgttggtagaagt	9	13	15	4	0	2	1	1	0	1	1	2	2	2	1	0	4	1	5	0	4	4	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	9074345	T	C	9074345	2	2	261	1	0	0	0	0	0	0	0	1	9973	1567	55	3		3	MUC16	19	9074345	Silent	SNP	T	TCGA-BP-4770-01A-01D-1501-10	26911	9074345	50054638	56	13528											
CYP4F2	8529	broad.mit.edu;hgsc.bcm.edu	37	chr19	15989682	15989682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaggcaggacgcggaagcGcagcagcgtgagcgccagga	10	2	18	11	5	1	1	1	1	0	0	1	4	1	4	1	4	4	3	1	4	1	0	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	15989682	G	A	15989682	3	1	261	1	0	0	0	0	1	0	0	0	4188	1087	38	1	104	1	CYP4F2	19	15989682	Missense_Mutation	SNP	G	TCGA-BP-4770-01A-01D-1501-10	6915337	15989682	43139301	57	13529											
UNC13A	23025	broad.mit.edu	37	chr19	17799246	17799247	+	Frame_Shift_Ins	INS	-	G	G																															gggcgggggcgctgcgggctINSgggggggcgttaaagggcct																								novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	17799247	G	G	17799246	7	5	261	1	0	1	1	0	0	0	0	0	16983	1595	55	0		0	UNC13A	19	17799246	Frame_Shift_Ins	INS	-	TCGA-BP-4770-01A-01D-1501-10	1809564	17799246	41329737	58	13530											
ZNF99	7652	broad.mit.edu;hgsc.bcm.edu	37	chr19	22940439	22940439	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcacatttgcagggtttctCtgcagtatgaattaccttat	9	17	7	8	0	2	1	1	1	1	0	3	1	2	1	1	1	3	4	1	1	4	6	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		G	22940439	C	G	22940439	3	3	261	1	0	0	0	0	1	0	0	0	18203	922	32	4	1125	4	ZNF99	19	22940439	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	5141193	22940439	36188544	59	13531											
IL28B	0	broad.mit.edu;hgsc.bcm.edu	37	chr19	39735134	39735134	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcagcagaagcgactcttCctagacagcaaaggcacagg	13	6	10	12	1	2	2	1	0	1	2	3	3	3	2	1	2	3	3	1	2	3	3	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	39735134	C	T	39735134	3	4	261	1	0	0	0	0	1	0	0	0	7683	869	30	2	424	2	IL28B	19	39735134	Missense_Mutation	SNP	C	TCGA-BP-4770-01A-01D-1501-10	16794695	39735134	19393849	60	13532											
ALDH16A1	126133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49972161	49972161	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggcctggccaacgtggTgacaggagaccgggaccatc	10	4	15	12	2	0	2	0	1	0	1	1	4	0	3	4	5	2	1	4	5	1	0	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	49972161	T	A	49972161	3	1	261	1	0	0	0	0	1	0	0	0	488	1696	59	5	2227	5	ALDH16A1	19	49972161	Missense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10	10237027	49972161	9156822	61	13533											
ARFGEF2	10564	broad.mit.edu;ucsc.edu	37	chr20	47605027	47605027	+	Splice_Site	DEL	G	-	-																															tttaattttttttaattacaGgtaaaaaataaaatgacgaa																								novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		-	47605027	-	-	47605027	8	5	261	1	0	1	0	1	0	0	1	0	853	1014	35	0	2431	0	ARFGEF2	20	47605027	Splice_Site	DEL	G	TCGA-BP-4770-01A-01D-1501-10		47605027	15420493	62	13534	183	4	2	22		5	2	31	N	T_G_AAATAAAATGACGAAAGAGCAGTAT_A	6.202011e-05
ARFGEF2	10564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47605030	47605030	+	Frame_Shift_Del	DEL	A	A	-																															aattttttttaattacaggtAaaaaataaaatgacgaaaga																								novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		-	47605030	A	-	47605030	7	5	261	1	0	1	0	1	0	0	0	0	853	349	13	0	2434	0	ARFGEF2	20	47605030	Frame_Shift_Del	DEL	A	TCGA-BP-4770-01A-01D-1501-10	3	47605030	15420490	63	13535	183	4	2	22		5	2	31	N	T_G_AAATAAAATGACGAAAGAGCAGTAT_A	6.202011e-05
ARFGEF2	10564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47605033	47605057	+	Frame_Shift_Del	DEL	AAATAAAATGACGAAAGAGCAGTAT	AAATAAAATGACGAAAGAGCAGTAT	-																															tttttttaattacaggtaaaAaataaaatgacgaaagagca																								novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	AAATAAAATGACGAAAGAGCAGTAT	AAATAAAATGACGAAAGAGCAGTAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		-	47605057	AAATAAAATGACGAAAGAGCAGTAT	-	47605033	7	5	261	1	0	1	0	1	0	0	0	0	853	11	1	0	2437	0	ARFGEF2	20	47605033	Frame_Shift_Del	DEL	AAATAAAATGACGAAAGAGCAGTAT	TCGA-BP-4770-01A-01D-1501-10	3	47605033	15420487	64	13536	183	4	2	22		5	2	31	N	T_G_AAATAAAATGACGAAAGAGCAGTAT_A	6.202011e-05
ARFGEF2	10564	hgsc.bcm.edu	37	chr20	47605035	47605035	+	Missense_Mutation	SNP	A	A	T																															tttttaattacaggtaaaaaAtaaaatgacgaaagagcagt																								novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		T	47605035	A	T	47605035	3	4	261	1	0	0	0	0	1	0	0	0	853	101	4	5	2439	5	ARFGEF2	20	47605035	Missense_Mutation	SNP	A	TCGA-BP-4770-01A-01D-1501-10	2	47605035	15420485	65	13537	183	4	2	22		5	2	31	N	T_G_AAATAAAATGACGAAAGAGCAGTAT_A	6.202011e-05
ARFGEF2	10564	hgsc.bcm.edu	37	chr20	47605057	47605057	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatgacgaaagagcagtaTattaaaatgaatcggggtat	19	9	10	3	2	0	3	0	2	0	1	1	4	0	3	0	2	1	3	0	2	9	4	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		A	47605057	T	A	47605057	4	1	261	1	0	0	0	0	0	1	0	0	853	1413	49	5	2461	5	ARFGEF2	20	47605057	Nonsense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10	22	47605057	15420463	66	13538			2	22		5	2	31	N	T_G_AAATAAAATGACGAAAGAGCAGTAT_A	6.202011e-05
TIMM17B	10245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48751506	48751506	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccccccacactgcgaagcTacctgtagtggaaccgaggc	9	5	11	16	2	0	0	0	0	0	0	0	3	0	1	5	2	4	2	5	2	4	2	novel		TCGA-BP-4770-01A-01D-1501-10	TCGA-BP-4770-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	aecbc5db-f75a-42d0-a84d-aa0369b08eec	acf4697e-e118-46c4-827a-76e2e4ab0124		C	48751506	T	C	48751506	3	2	261	1	0	0	0	0	1	0	0	0	15908	1522	53	3	337	3	TIMM17B	23	48751506	Missense_Mutation	SNP	T	TCGA-BP-4770-01A-01D-1501-10		48751506	106519054	67	13539											
PTGFR	5737	hgsc.bcm.edu	37	chr1	78958515	78958515	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggaaaaccggctttcCgtatttttttcagtaatctt	10	15	7	9	3	2	1	1	0	1	1	3	2	3	2	2	2	1	3	2	2	4	7	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	78958515	C	A	78958515	2	1	262	1	0	0	0	0	0	0	0	1	12751	639	23	4		4	PTGFR	1	78958515	Silent	SNP	C	TCGA-BP-4771-01A-01D-1366-10		78958515	170292106	1	13540											
SETDB1	9869	hgsc.bcm.edu	37	chr1	150923431	150923431	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagatgttcccctatcctGtgtcaatgagattgacacaa	12	11	9	9	0	1	3	1	2	0	2	3	5	3	4	3	1	0	1	3	1	4	3	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	150923431	G	A	150923431	3	1	262	1	0	0	0	0	1	0	0	0	14140	1377	48	2	2124	2	SETDB1	1	150923431	Missense_Mutation	SNP	G	TCGA-BP-4771-01A-01D-1366-10	71964916	150923431	98327190	2	13541											
CR2	1380	hgsc.bcm.edu	37	chr1	207644230	207644230	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atacagtgtacctctgagggGgtgtggacaccccctgtacc	8	9	12	12	0	1	1	0	1	1	0	1	2	1	2	4	3	3	2	4	3	3	3	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		T	207644230	G	T	207644230	2	4	262	1	0	0	0	0	0	0	0	1	3842	1219	43	4		4	CR2	1	207644230	Silent	SNP	G	TCGA-BP-4771-01A-01D-1366-10	56720799	207644230	41606391	3	13542											
LRP1B	53353	hgsc.bcm.edu	37	chr2	141665553	141665553	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcacaaggatgcttgggtGgtccacacaagaaactgtca	13	8	11	9	0	1	1	1	0	0	1	2	2	2	2	1	3	3	2	1	3	4	2	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	141665553	G	A	141665553	3	1	262	1	0	0	0	0	1	0	0	0	8955	1348	47	2	10666	2	LRP1B	2	141665553	Missense_Mutation	SNP	G	TCGA-BP-4771-01A-01D-1366-10		141665553	101533820	4	13543											
NMUR1	10316	hgsc.bcm.edu	37	chr2	232393300	232393300	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgagcactgaggccaggcaGaccatctcaaacagtagcgt	12	7	11	11	1	1	3	1	2	1	1	2	3	1	3	2	2	3	3	2	2	2	2	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		C	232393300	G	C	232393300	2	2	262	1	0	0	0	0	0	0	0	1	10506	929	33	4		4	NMUR1	2	232393300	Silent	SNP	G	TCGA-BP-4771-01A-01D-1366-10	90727747	232393300	10806073	5	13544											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191558	10191558	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggacatcgtcaggtcgcTctacgaagatctggaagacc	11	8	11	11	3	3	2	1	0	2	2	5	5	3	4	1	3	1	1	1	3	3	1	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		C	10191558	T	C	10191558	3	2	262	1	0	0	0	0	1	0	0	0	17161	1551	54	3	561	3	VHL	3	10191558	Missense_Mutation	SNP	T	TCGA-BP-4771-01A-01D-1366-10		10191558	187830872	6	13545											
CLCN3	1182	hgsc.bcm.edu	37	chr4	170611793	170611793	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccatatgcctgtggctctgGaattccagaggtaagccaag	10	10	11	10	0	1	1	0	0	1	1	3	2	3	2	4	3	2	2	4	3	4	3	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	170611793	G	A	170611793	3	1	262	1	0	0	0	0	1	0	0	0	3464	1174	41	2	737	2	CLCN3	4	170611793	Missense_Mutation	SNP	G	TCGA-BP-4771-01A-01D-1366-10		170611793	20542483	7	13546											
FAT2	2196	hgsc.bcm.edu;ucsc.edu	37	chr5	150897291	150897291	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgctggggccctgtaccGcacatagctctgaccactga	8	7	11	15	2	1	2	0	2	1	0	1	2	1	2	4	2	3	4	4	2	2	2	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		T	150897291	G	T	150897291	2	4	262	1	0	0	0	0	0	0	0	1	5690	1086	38	4		4	FAT2	5	150897291	Silent	SNP	G	TCGA-BP-4771-01A-01D-1366-10		150897291	30017969	8	13547											
C7orf28B	0	hgsc.bcm.edu	37	chr7	6844681	6844681	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatccaacgttgggtggaCagaggctggcaagtcatgac	13	7	13	8	1	1	2	1	1	0	1	2	3	2	3	1	4	1	3	1	4	4	1	rs8058		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		T	6844681	C	T	6844681	3	4	262	1	0	0	0	0	1	0	0	0	2384	478	17	2	470	2	C7orf28B	7	6844681	Missense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10		6844681	152293982	9	13548											
ADCY1	107	hgsc.bcm.edu	37	chr7	45697340	45697340	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcagatctgtggctgaagCcaccgaggtggatctgaaca	10	9	13	9	1	2	3	0	2	2	1	2	5	2	4	2	3	3	2	2	3	2	1	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	45697340	C	A	45697340	3	1	262	1	0	0	0	0	1	0	0	0	292	739	26	4	1185	4	ADCY1	7	45697340	Missense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10	38852659	45697340	113441323	10	13549											
ADAMDEC1	27299	hgsc.bcm.edu;ucsc.edu	37	chr8	24254839	24254839	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacctctgaaaagcacagAcgagaaagaacatgccgtct	18	5	8	10	2	2	4	0	1	2	3	2	5	2	4	2	0	4	1	2	0	6	0	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		G	24254839	A	G	24254839	3	3	262	1	0	0	0	0	1	0	0	0	254	275	10	3	519	3	ADAMDEC1	8	24254839	Missense_Mutation	SNP	A	TCGA-BP-4771-01A-01D-1366-10		24254839	122109183	11	13550											
TRIB1	10221	hgsc.bcm.edu	37	chr8	126448323	126448323	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctttgtcagacaaacaTggctgcccagcctacgtgag	10	9	11	11	1	1	2	1	1	0	1	1	3	1	2	2	1	5	2	2	1	2	2	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		C	126448323	T	C	126448323	2	2	262	1	0	0	0	0	0	0	0	1	16481	1461	51	3		3	TRIB1	8	126448323	Silent	SNP	T	TCGA-BP-4771-01A-01D-1366-10	102193484	126448323	19915699	12	13551											
FBXW5	54461	hgsc.bcm.edu	37	chr9	139837902	139837902	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcccgcagcgtctgcacctCcacgcagggcaccgtgtcat	6	8	10	17	4	2	0	1	0	1	0	4	0	4	0	4	1	2	4	4	1	0	1	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	139837902	C	A	139837902	4	1	262	1	0	0	0	0	0	1	0	0	5768	864	30	4	1478	4	FBXW5	9	139837902	Nonsense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10		139837902	1375529	13	13552											
MYO3A	53904	hgsc.bcm.edu	37	chr10	26385322	26385322	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttccagtggagaaaaaaaTtttcatattttttactacat	14	18	4	5	0	1	1	1	0	0	1	2	2	2	1	1	1	2	0	1	1	6	9	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		C	26385322	T	C	26385322	2	2	262	1	0	0	0	0	0	0	0	1	10076	1490	52	3		3	MYO3A	10	26385322	Silent	SNP	T	TCGA-BP-4771-01A-01D-1366-10		26385322	109149425	14	13553											
HK1	3098	hgsc.bcm.edu	37	chr10	71048514	71048514	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccacaatggggcagatctgCcagcgagaatcggtaagctc	11	6	12	12	2	1	2	0	0	1	2	3	3	1	2	2	3	3	3	2	3	3	1	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	71048514	C	A	71048514	4	1	262	1	0	0	0	0	0	1	0	0	7190	747	26	4	17	4	HK1	10	71048514	Nonsense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10	44663192	71048514	64486233	15	13554											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6567890	6567890	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcctagctgccattgaGgaggctgccctactgcgctc	6	8	12	15	2	0	1	0	1	0	0	1	2	0	2	3	2	6	4	3	2	2	3	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		T	6567890	G	T	6567890	3	4	262	1	0	0	0	0	1	0	0	0	4668	991	35	4	5804	4	DNHD1	11	6567890	Missense_Mutation	SNP	G	TCGA-BP-4771-01A-01D-1366-10		6567890	128438626	16	13555											
GDF3	9573	hgsc.bcm.edu	37	chr12	7843115	7843115	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggccccacacatgaggctCctgaaccaggaacagagcca	12	4	10	15	0	0	3	0	2	0	1	1	4	1	4	5	3	3	1	5	3	2	0	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	7843115	C	A	7843115	4	1	262	1	0	0	0	0	0	1	0	0	6315	864	30	4	644	4	GDF3	12	7843115	Nonsense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10		7843115	126008780	17	13556											
FAM90A1	55138	hgsc.bcm.edu	37	chr12	8374782	8374783	+	In_Frame_Ins	INS	-	-	CGG																															cgtgcctgtctggggtgacgINStacgtggtccaagttcggtt																								novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		CGG	8374783	-	CGG	8374782	7	5	262	1	0	1	1	0	0	0	0	0	5650	1145	40	0	367	0	FAM90A1	12	8374782	In_Frame_Ins	INS	-	TCGA-BP-4771-01A-01D-1366-10	531667	8374782	125477113	18	13557											
ATF1	466	hgsc.bcm.edu;ucsc.edu	37	chr12	51213502	51213502	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtcctggaaaatcaaaaTaaaactctaatagaagagtt	19	9	7	6	0	2	2	1	0	1	2	3	3	3	3	1	1	1	2	1	1	9	4	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		G	51213502	T	G	51213502	3	3	262	1	0	0	0	0	1	0	0	0	1079	1403	49	5	778	5	ATF1	12	51213502	Missense_Mutation	SNP	T	TCGA-BP-4771-01A-01D-1366-10	42838720	51213502	82638393	19	13558											
HVCN1	84329	hgsc.bcm.edu	37	chr12	111099084	111099084	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcagctctgccttcctcgCctgagactggtgtgggtggt	3	12	14	12	1	1	1	0	1	1	1	3	2	2	1	3	3	3	2	3	3	0	1	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		T	111099084	C	T	111099084	3	4	262	1	0	0	0	0	1	0	0	0	7462	739	26	2	650	2	HVCN1	12	111099084	Missense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10	59885582	111099084	22752811	20	13559											
SGK269	0	hgsc.bcm.edu;ucsc.edu	37	chr15	77407253	77407253	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagcatagctgtaagagcaGcagacacacctgcctctcat	13	7	9	12	0	1	3	1	0	1	3	2	3	1	3	2	0	5	5	2	0	2	2	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	77407253	G	A	77407253	2	1	262	1	0	0	0	0	0	0	0	1	14213	962	34	2		2	SGK269	15	77407253	Silent	SNP	G	TCGA-BP-4771-01A-01D-1366-10		77407253	25124139	21	13560											
USP43	124739	hgsc.bcm.edu	37	chr17	9604523	9604523	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcagcacagctgtacCttggatgaatgttttcagtt	10	13	9	9	0	2	1	2	1	0	0	2	2	2	2	1	1	4	6	1	1	2	5	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	9604523	C	A	9604523	2	1	262	1	0	0	0	0	0	0	0	1	17073	668	24	4		4	USP43	17	9604523	Silent	SNP	C	TCGA-BP-4771-01A-01D-1366-10		9604523	71590687	22	13561											
KRT10	3858	hgsc.bcm.edu;ucsc.edu	37	chr17	38977371	38977371	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttgttaggttgagaatcTggagggagaggcacagttat	11	11	15	4	0	1	2	0	1	1	2	1	5	1	3	0	4	0	5	0	4	3	4	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	38977371	T	A	38977371	5	1	262	1	0	0	0	0	0	0	1	0	8448	1594	55	5	1156	5	KRT10	17	38977371	Splice_Site	SNP	T	TCGA-BP-4771-01A-01D-1366-10	29372848	38977371	42217839	23	13562											
EVPL	2125	hgsc.bcm.edu	37	chr17	74023229	74023229	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaccccttggcgggggaGcccttgggggaccccttccc	3	6	17	15	1	0	0	0	0	0	0	1	3	1	3	6	7	1	0	6	7	0	3	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		A	74023229	G	A	74023229	2	1	262	1	0	0	0	0	0	0	0	1	5292	958	34	2		2	EVPL	17	74023229	Silent	SNP	G	TCGA-BP-4771-01A-01D-1366-10	35045858	74023229	7171981	24	13563											
FAM59A	0	hgsc.bcm.edu;ucsc.edu	37	chr18	29868022	29868022	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaattgagcttcccaatctTtttgaagattgtgttgagtc	9	16	10	6	0	1	4	0	3	1	1	3	5	2	5	1	1	1	2	1	1	3	6	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		G	29868022	T	G	29868022	3	3	262	1	0	0	0	0	1	0	0	0	5592	1850	64	5	2101	5	FAM59A	18	29868022	Missense_Mutation	SNP	T	TCGA-BP-4771-01A-01D-1366-10		29868022	48209226	25	13564											
VSTM1	284415	hgsc.bcm.edu	37	chr19	54561641	54561641	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggcacaaaagtacctccCagcatccttaggcttcaggt	11	9	9	12	0	1	0	1	0	0	0	3	0	3	0	3	3	2	5	3	3	5	4	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		G	54561641	C	G	54561641	3	3	262	1	0	0	0	0	1	0	0	0	17227	594	21	4	464	4	VSTM1	19	54561641	Missense_Mutation	SNP	C	TCGA-BP-4771-01A-01D-1366-10		54561641	4567342	26	13565											
PTK6	5753	hgsc.bcm.edu;ucsc.edu	37	chr20	62164915	62164915	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactcacctcgagaaatcAccttaatggccacctggacc	11	7	6	17	1	2	1	2	0	0	1	3	3	2	2	6	2	0	0	6	2	2	1	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		T	62164915	A	T	62164915	3	4	262	1	0	0	0	0	1	0	0	0	12766	159	6	5	716	5	PTK6	20	62164915	Missense_Mutation	SNP	A	TCGA-BP-4771-01A-01D-1366-10		62164915	860605	27	13566											
SRPX2	27286	hgsc.bcm.edu;ucsc.edu	37	chrX	99922295	99922295	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagattaacgtcaacgtcaActcagctgctggtctcttgg	10	11	10	10	2	4	1	3	0	1	1	5	2	4	1	0	2	5	2	0	2	4	2	novel		TCGA-BP-4771-01A-01D-1366-10	TCGA-BP-4771-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e1c00898-84ed-4fcb-b167-be6464a960e3	319a361d-cb17-4a06-89dc-421b28936aa7		G	99922295	A	G	99922295	3	3	262	1	0	0	0	0	1	0	0	0	15166	43	2	3	1016	3	SRPX2	23	99922295	Missense_Mutation	SNP	A	TCGA-BP-4771-01A-01D-1366-10		99922295	55348265	28	13567											
SPATA21	374955	hgsc.bcm.edu	37	chr1	16725989	16725989	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaggatgcagggcaccTgggcataggggctctgcagg	9	5	18	9	0	1	1	0	0	1	1	1	2	1	2	1	6	3	6	1	6	1	1	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	16725989	T	C	16725989	3	2	263	1	0	0	0	0	1	0	0	0	15008	1580	55	3	215	3	SPATA21	1	16725989	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10		16725989	232524632	1	13568											
C1orf63	57035	hgsc.bcm.edu	37	chr1	25569164	25569164	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctcttctgtggcagctttAgctgatttttgtattggctt	4	19	10	8	0	2	1	0	1	2	0	2	1	2	1	1	2	2	5	1	2	2	8	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	25569164	A	C	25569164	2	2	263	1	0	0	0	0	0	0	0	1	2053	407	15	5		5	C1orf63	1	25569164	Silent	SNP	A	TCGA-BP-4774-01A-01D-1366-10	8843175	25569164	223681457	2	13569											
ODF2L	57489	hgsc.bcm.edu	37	chr1	86851139	86851139	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatattcataagtcactcAcattttcaaaattaatcttt	15	18	1	7	0	5	0	4	0	1	0	5	0	5	0	0	0	0	0	0	0	7	9	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	86851139	A	C	86851139	5	2	263	1	0	0	0	0	0	0	1	0	10828	173	6	5	1902	5	ODF2L	1	86851139	Splice_Site	SNP	A	TCGA-BP-4774-01A-01D-1366-10	61281975	86851139	162399482	3	13570											
HFM1	164045	hgsc.bcm.edu	37	chr1	91726880	91726880	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatattcccaataaagaCttcatttcatcagcttcatc	14	14	2	11	0	5	1	5	0	0	1	7	1	6	1	1	0	1	1	1	0	5	6	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	91726880	C	T	91726880	2	4	263	1	0	0	0	0	0	0	0	1	7083	564	20	2		2	HFM1	1	91726880	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10	4875741	91726880	157523741	4	13571											
RCOR3	55758	hgsc.bcm.edu	37	chr1	211447566	211447566	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcagtggatgaatacattGcaattgcaaaggaaaagcat	16	10	10	5	0	0	1	0	1	0	0	0	3	0	3	0	2	5	4	0	2	6	4	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	211447566	G	A	211447566	3	1	263	1	0	0	0	0	1	0	0	0	13186	1319	46	2	330	2	RCOR3	1	211447566	Missense_Mutation	SNP	G	TCGA-BP-4774-01A-01D-1366-10	119720686	211447566	37803055	5	13572											
CDCA7	83879	hgsc.bcm.edu;ucsc.edu	37	chr2	174223501	174223501	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgtgaagttgatttccaTggaaacctcgtcatcctctg	10	14	8	9	1	2	2	1	2	1	0	5	3	4	3	3	1	1	1	3	1	3	3	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	174223501	T	C	174223501	3	2	263	1	0	0	0	0	1	0	0	0	3090	1464	51	3	89	3	CDCA7	2	174223501	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10		174223501	68975872	6	13573											
ALS2	57679	hgsc.bcm.edu	37	chr2	202580492	202580492	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggccctcacagcccagttGgcgccaacattcgtcaaaca	10	7	9	15	2	2	0	2	0	0	0	3	0	2	0	3	2	3	1	3	2	2	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	202580492	G	T	202580492	3	4	263	1	0	0	0	0	1	0	0	0	550	1357	47	4	1106	4	ALS2	2	202580492	Missense_Mutation	SNP	G	TCGA-BP-4774-01A-01D-1366-10	28356991	202580492	40618881	7	13574											
ABCB6	10058	hgsc.bcm.edu;ucsc.edu	37	chr2	220075156	220075156	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactttggccagagaagcCtggatggccctctcattaga	10	9	11	11	0	1	3	1	0	1	3	2	5	1	4	3	3	1	0	3	3	2	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	220075156	C	T	220075156	2	4	263	1	0	0	0	0	0	0	0	1	45	680	24	2		2	ABCB6	2	220075156	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10	17494664	220075156	23124217	8	13575											
DOCK10	55619	hgsc.bcm.edu;ucsc.edu	37	chr2	225761077	225761077	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaccacatgccactgggaActataaaatttacaagcctg	14	11	6	10	0	0	0	0	0	0	0	0	1	0	1	3	1	5	0	3	1	7	6	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	225761077	A	G	225761077	2	3	263	1	0	0	0	0	0	0	0	1	4685	40	2	3		3	DOCK10	2	225761077	Silent	SNP	A	TCGA-BP-4774-01A-01D-1366-10	5685921	225761077	17438296	9	13576											
DLEC1	9940	hgsc.bcm.edu;ucsc.edu	37	chr3	38138227	38138227	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgtgaagaaggcttttaAggtaggtcattgtctctccc	11	13	10	7	0	2	2	1	1	1	1	4	2	3	2	1	3	0	2	1	3	5	4	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	38138227	A	G	38138227	3	3	263	1	0	0	0	0	1	0	0	0	4552	86	3	3	2397	3	DLEC1	3	38138227	Missense_Mutation	SNP	A	TCGA-BP-4774-01A-01D-1366-10		38138227	159884203	10	13577											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47144909	47144909	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctttttgagtggcatctAttatctgggagaagaggatc	9	15	11	6	0	2	3	0	1	2	2	4	5	3	4	1	3	0	1	1	3	3	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	47144909	A	G	47144909	3	3	263	1	0	0	0	0	1	0	0	0	14133	449	16	3	2910	3	SETD2	3	47144909	Missense_Mutation	SNP	A	TCGA-BP-4774-01A-01D-1366-10	9006682	47144909	150877521	11	13578											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52651292	52651292	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacctgggagccctcctCattatagtgcctggcattcc	6	12	8	15	0	1	0	1	0	0	0	3	1	3	1	6	2	3	1	6	2	3	4	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	52651292	C	A	52651292	4	1	263	1	0	0	0	0	0	1	0	0	11491	835	29	4	3164	4	PBRM1	3	52651292	Nonsense_Mutation	SNP	C	TCGA-BP-4774-01A-01D-1366-10	5506383	52651292	145371138	12	13579											
PROK2	60675	hgsc.bcm.edu	37	chr3	71830711	71830711	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactgacagcacagcacatGcctccaccacattgggagtc	12	7	8	14	0	0	1	0	1	0	0	2	2	1	2	3	1	4	2	3	1	1	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	71830711	G	A	71830711	2	1	263	1	0	0	0	0	0	0	0	1	12553	1306	46	2		2	PROK2	3	71830711	Silent	SNP	G	TCGA-BP-4774-01A-01D-1366-10	19179419	71830711	126191719	13	13580											
CRMP1	1400	hgsc.bcm.edu	37	chr4	5827342	5827342	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagctggtacctcgtacacAggaccgtcatacatgcccct	9	9	9	14	2	1	0	1	0	0	0	2	1	1	1	4	2	5	4	4	2	4	4	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	5827342	A	T	5827342	2	4	263	1	0	0	0	0	0	0	0	1	3890	175	7	5		5	CRMP1	4	5827342	Silent	SNP	A	TCGA-BP-4774-01A-01D-1366-10		5827342	185326934	14	13581											
TBC1D1	23216	hgsc.bcm.edu	37	chr4	38016542	38016542	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccacctcattagcggacAcaatattgtgcagcccacag	13	7	8	13	1	1	0	1	0	0	0	1	2	1	1	3	1	4	1	3	1	4	3	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	38016542	A	G	38016542	3	3	263	1	0	0	0	0	1	0	0	0	15596	159	6	3	836	3	TBC1D1	4	38016542	Missense_Mutation	SNP	A	TCGA-BP-4774-01A-01D-1366-10	32189200	38016542	153137734	15	13582											
KIAA1211	57482	hgsc.bcm.edu	37	chr4	57182389	57182389	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcatggtccatccctcccCcaagagcggaagcaagcccc	11	4	9	17	1	0	1	0	0	0	1	3	2	3	2	6	2	4	2	6	2	4	0	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	57182389	C	T	57182389	2	4	263	1	0	0	0	0	0	0	0	1	8215	610	22	2		2	KIAA1211	4	57182389	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10	19165847	57182389	133971887	16	13583											
FGB	2244	hgsc.bcm.edu	37	chr4	155487151	155487151	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcacgctgacccagacctGgtgggtgcactgatgtttct	6	12	11	12	1	2	3	1	2	1	1	2	3	2	3	2	2	1	3	2	2	0	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	155487151	G	T	155487151	2	4	263	1	0	0	0	0	0	0	0	1	5831	1362	47	4		4	FGB	4	155487151	Silent	SNP	G	TCGA-BP-4774-01A-01D-1366-10	98304762	155487151	35667125	17	13584											
TRIML2	205860	hgsc.bcm.edu	37	chr4	189026066	189026066	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtttctccctcgatgtgttCaatatttcctggaataactt	9	17	6	9	1	2	0	1	0	1	0	5	2	3	1	2	1	1	2	2	1	4	6	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	189026066	C	T	189026066	2	4	263	1	0	0	0	0	0	0	0	1	16550	825	29	2		2	TRIML2	4	189026066	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10	33538915	189026066	2128210	18	13585											
FEM1C	56929	hgsc.bcm.edu	37	chr5	114860558	114860558	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttatttaactgtaatgggTcagctggacactgagtttgt	9	15	10	7	0	1	1	1	1	0	0	1	2	1	2	1	2	2	3	1	2	3	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	114860558	T	C	114860558	3	2	263	1	0	0	0	0	1	0	0	0	5811	1667	58	3	556	3	FEM1C	5	114860558	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10		114860558	66054702	19	13586											
FNIP1	96459	hgsc.bcm.edu;ucsc.edu	37	chr5	131039810	131039810	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttcaaagagaggaaaaTgtgaaaaaaagaattcatta	20	9	9	3	0	2	3	2	1	0	2	2	5	2	4	0	2	0	1	0	2	8	3	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	131039810	T	C	131039810	3	2	263	1	0	0	0	0	1	0	0	0	5975	1464	51	3	2472	3	FNIP1	5	131039810	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10	16179252	131039810	49875450	20	13587											
CRISP3	10321	hgsc.bcm.edu;ucsc.edu	37	chr6	49696473	49696473	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttgaacaattgcaggaGgccttgcaactgtccctgac	9	11	10	11	0	0	2	0	2	0	0	1	3	1	3	2	2	4	3	2	2	3	3	rs488132	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	49696473	G	T	49696473	2	4	263	1	0	0	0	0	0	0	0	1	3881	987	35	4		4	CRISP3	6	49696473	Silent	SNP	G	TCGA-BP-4774-01A-01D-1366-10		49696473	121418594	21	13588											
NPC1L1	29881	hgsc.bcm.edu	37	chr7	44579311	44579311	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgaatcccactccccaCggcctggccaggctccaaga	9	5	10	17	1	0	2	0	1	0	1	3	2	3	2	6	4	0	2	6	4	2	0	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	44579311	C	G	44579311	3	3	263	1	0	0	0	0	1	0	0	0	10571	536	19	4	3470	4	NPC1L1	7	44579311	Missense_Mutation	SNP	C	TCGA-BP-4774-01A-01D-1366-10		44579311	114559352	22	13589											
VPS13B	157680	hgsc.bcm.edu;ucsc.edu	37	chr8	100479735	100479735	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgcctagtggaacctatggGttgcacctccactctagctg	7	12	10	12	0	1	0	0	0	1	0	2	1	2	1	4	2	4	3	4	2	4	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	100479735	G	A	100479735	3	1	263	1	0	0	0	0	1	0	0	0	17189	1261	44	2	3752	2	VPS13B	8	100479735	Missense_Mutation	SNP	G	TCGA-BP-4774-01A-01D-1366-10		100479735	45884287	23	13590											
LRP12	29967	hgsc.bcm.edu;ucsc.edu	37	chr8	105503566	105503566	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtgagtatgatttctctCaggttctctactggtactct	6	18	8	9	0	5	2	1	2	4	0	7	2	5	2	0	2	2	3	0	2	3	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	105503566	C	T	105503566	3	4	263	1	0	0	0	0	1	0	0	0	8954	835	29	2	668	2	LRP12	8	105503566	Missense_Mutation	SNP	C	TCGA-BP-4774-01A-01D-1366-10	5023831	105503566	40860456	24	13591											
LAMC3	10319	hgsc.bcm.edu	37	chr9	133942399	133942399	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttggggacccgctggggctCtttgggcacccccagccctg	3	9	14	15	1	1	0	0	0	1	0	1	1	1	1	4	5	1	3	4	5	0	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	133942399	C	T	133942399	2	4	263	1	0	0	0	0	0	0	0	1	8616	900	32	2		2	LAMC3	9	133942399	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10		133942399	7271032	25	13592											
KIAA1217	56243	hgsc.bcm.edu	37	chr10	24832825	24832825	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaaatgaacagaacggaGctgaacaagttcagccacgt	16	5	11	9	2	1	3	1	2	0	1	1	5	1	5	1	2	5	2	1	2	5	1	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	24832825	G	A	24832825	2	1	263	1	0	0	0	0	0	0	0	1	8216	962	34	2		2	KIAA1217	10	24832825	Silent	SNP	G	TCGA-BP-4774-01A-01D-1366-10		24832825	110701922	26	13593											
ARHGAP1	392	hgsc.bcm.edu	37	chr11	46717596	46717596	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaggccagcttcagctggTtcagagcctcgctggtgtca	6	10	14	11	1	3	1	3	0	0	1	4	2	3	2	2	4	3	4	2	4	0	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	46717596	T	A	46717596	3	1	263	1	0	0	0	0	1	0	0	0	861	1725	60	5	1305	5	ARHGAP1	11	46717596	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10		46717596	88288920	27	13594											
OR5T2	219464	hgsc.bcm.edu;ucsc.edu	37	chr11	56000108	56000108	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccagcaacataggaagcaTtgatgagtggcatgtagact	13	9	12	7	0	0	3	0	2	0	1	0	4	0	4	1	2	4	4	1	2	4	3	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	56000108	T	G	56000108	3	3	263	1	0	0	0	0	1	0	0	0	11182	1493	52	5	524	5	OR5T2	11	56000108	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10	9282512	56000108	79006408	28	13595											
AHNAK	79026	hgsc.bcm.edu;ucsc.edu	37	chr11	62287670	62287670	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactttaggaagggtaacaTccacatcgcccttcactttg	10	11	7	13	1	1	0	1	0	0	0	3	1	2	1	3	2	1	1	3	2	3	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	62287670	T	G	62287670	3	3	263	1	0	0	0	0	1	0	0	0	414	1435	50	5	3573	5	AHNAK	11	62287670	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10	6287562	62287670	72718846	29	13596											
MLL2	8085	hgsc.bcm.edu	37	chr12	49433132	49433132	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggcaaccccacaaggcTgctcttgtcctagaagagac	10	7	12	12	0	1	2	0	0	1	2	2	3	2	2	3	3	2	3	3	3	4	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	49433132	T	C	49433132	3	2	263	1	0	0	0	0	1	0	0	0	9621	1580	55	3	8462	3	MLL2	12	49433132	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10		49433132	84418763	30	13597											
MYF6	4618	hgsc.bcm.edu	37	chr12	81101767	81101767	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacctgcaagagaaaatctgCccccactgaccggcgaaaag	14	4	10	13	2	1	2	0	1	1	1	1	5	1	2	4	1	2	1	4	1	5	0	rs138296448	byfrequency	TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	81101767	C	A	81101767	3	1	263	1	0	0	0	0	1	0	0	0	10028	739	26	4	271	4	MYF6	12	81101767	Missense_Mutation	SNP	C	TCGA-BP-4774-01A-01D-1366-10	31668635	81101767	52750128	31	13598											
PARP4	143	hgsc.bcm.edu	37	chr13	25016008	25016008	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgacggcttcttggggCtccccctgccagctcatgta	4	12	10	15	1	2	1	1	1	1	0	4	1	4	1	4	3	2	4	4	3	1	4	rs80008060		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	25016008	C	T	25016008	2	4	263	1	0	0	0	0	0	0	0	1	11463	796	28	2		2	PARP4	13	25016008	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10		25016008	90153870	32	13599											
DNAJC15	29103	hgsc.bcm.edu;ucsc.edu	37	chr13	43652746	43652746	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctctttctttcctatacAgagcttttcatcctactata	8	19	3	11	0	3	1	1	0	2	1	5	1	5	1	2	0	4	2	2	0	5	10	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	43652746	A	G	43652746	5	3	263	1	0	0	0	0	0	0	1	0	4634	202	7	3	247	3	DNAJC15	13	43652746	Splice_Site	SNP	A	TCGA-BP-4774-01A-01D-1366-10	18636738	43652746	71517132	33	13600											
SSTR1	6751	hgsc.bcm.edu	37	chr14	38679408	38679409	+	Frame_Shift_Ins	INS	-	-	TG																															ggagcgcaagatcaccttaaINStggtgatgatggtggtgatg																								novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		TG	38679409	-	TG	38679408	7	5	263	1	0	1	1	0	0	0	0	0	15198	101	4	0	816	0	SSTR1	14	38679408	Frame_Shift_Ins	INS	-	TCGA-BP-4774-01A-01D-1366-10		38679408	68670132	34	13601											
SNAPC1	6617	hgsc.bcm.edu;ucsc.edu	37	chr14	62234060	62234060	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatttcactttacagcaaTgcccaaattggtatgttgcc	11	13	7	10	0	1	0	1	0	0	0	1	0	1	0	2	1	5	4	2	1	4	6	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	62234060	T	A	62234060	3	1	263	1	0	0	0	0	1	0	0	0	14836	1464	51	5	429	5	SNAPC1	14	62234060	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10	23554652	62234060	45115480	35	13602											
KCNAB3	9196	hgsc.bcm.edu	37	chr17	7827771	7827771	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcgggatgtcccccagtAtagggccaggccctggttga	7	8	13	13	1	0	1	0	1	0	0	2	2	1	2	5	4	0	2	5	4	2	3	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	7827771	A	T	7827771	3	4	263	1	0	0	0	0	1	0	0	0	8011	449	16	5	565	5	KCNAB3	17	7827771	Missense_Mutation	SNP	A	TCGA-BP-4774-01A-01D-1366-10		7827771	73367439	36	13603											
TEX2	55852	hgsc.bcm.edu	37	chr17	62290991	62290991	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cttttggctccacctcggtcGacagggacttcacaaggctc	7	10	10	14	2	1	0	1	0	0	0	5	2	2	1	2	4	0	2	2	4	1	3	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	62290991	G	C	62290991	3	2	263	1	0	0	0	0	1	0	0	0	15780	1059	37	4	2861	4	TEX2	17	62290991	Missense_Mutation	SNP	G	TCGA-BP-4774-01A-01D-1366-10	54463220	62290991	18904219	37	13604											
ZNF554	115196	hgsc.bcm.edu;ucsc.edu	37	chr19	2833757	2833757	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaccagccagtggtataaAtatgataaagcttatcagag	16	9	10	6	0	1	2	1	1	0	1	1	3	1	3	2	2	3	2	2	2	8	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	2833757	A	G	2833757	3	3	263	1	0	0	0	0	1	0	0	0	17984	101	4	3	542	3	ZNF554	19	2833757	Missense_Mutation	SNP	A	TCGA-BP-4774-01A-01D-1366-10		2833757	56295226	38	13605											
FZR1	51343	hgsc.bcm.edu	37	chr19	3532608	3532608	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtatcgacacgggctcccAagtgtgcaatctggcctggt	7	10	13	11	2	1	0	0	0	1	0	3	1	2	0	2	3	1	3	2	3	3	1	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	3532608	A	G	3532608	3	3	263	1	0	0	0	0	1	0	0	0	6138	130	5	3	1240	3	FZR1	19	3532608	Missense_Mutation	SNP	A	TCGA-BP-4774-01A-01D-1366-10	698851	3532608	55596375	39	13606											
OR10H1	26539	hgsc.bcm.edu	37	chr19	15918527	15918527	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaaggagtgggtgaagccGaagctgaaggagaagaacat	16	4	17	4	1	0	4	0	2	0	2	0	8	0	6	1	4	3	1	1	4	6	0	rs74730938		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	15918527	G	A	15918527	2	1	263	1	0	0	0	0	0	0	0	1	10905	1049	37	1		1	OR10H1	19	15918527	Silent	SNP	G	TCGA-BP-4774-01A-01D-1366-10	12385919	15918527	43210456	40	13607											
TOP3B	8940	hgsc.bcm.edu	37	chr22	22318352	22318352	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggatggtcgccggcgtCatggcctttccgcgggcggt	2	8	20	11	6	1	0	1	0	0	0	3	1	2	1	3	8	0	0	3	8	0	1	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	22318352	C	A	22318352	3	1	263	1	0	0	0	0	1	0	0	0	16367	826	29	4	1473	4	TOP3B	22	22318352	Missense_Mutation	SNP	C	TCGA-BP-4774-01A-01D-1366-10		22318352	28986214	41	13608											
ARSA	410	hgsc.bcm.edu	37	chr22	51065093	51065093	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgtcatcagggtcccCacagctgcatccagctccat	8	9	9	15	0	2	0	2	0	0	0	5	0	5	0	4	2	3	4	4	2	0	0	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		G	51065093	C	G	51065093	2	3	263	1	0	0	0	0	0	0	0	1	987	581	21	4		4	ARSA	22	51065093	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10	28746741	51065093	239473	42	13609											
HUWE1	10075	hgsc.bcm.edu	37	chrX	53622278	53622278	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgctggcagcatgatggctCcttctctggcggacaggaga	7	9	15	10	1	1	2	0	1	1	1	3	4	2	3	1	5	2	4	1	5	0	1	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	53622278	C	A	53622278	3	1	263	1	0	0	0	0	1	0	0	0	7461	854	30	4	10095	4	HUWE1	23	53622278	Missense_Mutation	SNP	C	TCGA-BP-4774-01A-01D-1366-10		53622278	101648282	43	13610											
FAAH2	158584	hgsc.bcm.edu;ucsc.edu	37	chrX	57337126	57337126	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ataaatggcccttccttgggGttcctttgacagtcaaggaa	10	12	10	9	0	1	1	1	1	0	0	3	2	3	2	3	4	0	1	3	4	4	5	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	57337126	G	A	57337126	3	1	263	1	0	0	0	0	1	0	0	0	5354	1261	44	2	386	2	FAAH2	23	57337126	Missense_Mutation	SNP	G	TCGA-BP-4774-01A-01D-1366-10	3714848	57337126	97933434	44	13611											
RGAG4	340526	hgsc.bcm.edu	37	chrX	71349973	71349973	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggatgacgcgtgaacaaagGtcggctccatctccatcagc	10	7	12	12	3	2	2	1	2	1	0	5	3	3	3	2	3	2	1	2	3	2	0	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	71349973	G	C	71349973	3	2	263	1	0	0	0	0	1	0	0	0	13277	1261	44	4	295	4	RGAG4	23	71349973	Missense_Mutation	SNP	G	TCGA-BP-4774-01A-01D-1366-10	14012847	71349973	83920587	45	13612											
NXF2B	728343	hgsc.bcm.edu	37	chrX	101615546	101615546	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatttgcttgaaggcctcCgcggggatcttgccctcggt	5	11	14	11	3	1	2	0	1	1	1	3	4	2	3	3	4	2	1	3	4	1	3	rs13944	bycluster	TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		T	101615546	C	T	101615546	2	4	263	1	0	0	0	0	0	0	0	1	10784	639	23	1		1	NXF2B	23	101615546	Silent	SNP	C	TCGA-BP-4774-01A-01D-1366-10	30265573	101615546	53655014	46	13613											
PAK3	5063	hgsc.bcm.edu	37	chrX	110406199	110406199	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtctgaagaagaagaTgaagaggaagaagaagaaga	19	5	14	3	0	1	10	0	2	1	8	1	11	1	11	1	1	0	0	1	1	8	0	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		C	110406199	T	C	110406199	2	2	263	1	0	0	0	0	0	0	0	1	11402	1461	51	3		3	PAK3	23	110406199	Silent	SNP	T	TCGA-BP-4774-01A-01D-1366-10	8790653	110406199	44864361	47	13614											
IDH3G	3421	hgsc.bcm.edu	37	chrX	153055662	153055662	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccatacctgaagacggacTtgacatgcagcatgagctct	11	9	9	12	1	1	4	0	3	1	1	2	5	2	5	2	1	4	3	2	1	2	2	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	153055662	T	A	153055662	3	1	263	1	0	0	0	0	1	0	0	0	7498	1609	56	5	1063	5	IDH3G	23	153055662	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10	42649463	153055662	2214898	48	13615											
PLXNA3	55558	hgsc.bcm.edu	37	chrX	153699461	153699461	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacagcctgccgctgcgcTtctgggtgaatgtgatcaag	7	10	12	12	2	2	2	1	2	1	0	3	2	3	2	3	1	3	2	3	1	2	1	novel		TCGA-BP-4774-01A-01D-1366-10	TCGA-BP-4774-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4034d194-0264-4594-a86f-a79daf5aca3f	ca015746-b3f1-488e-88e2-e0eed1ac69d6		A	153699461	T	A	153699461	3	1	263	1	0	0	0	0	1	0	0	0	12121	1609	56	5	5288	5	PLXNA3	23	153699461	Missense_Mutation	SNP	T	TCGA-BP-4774-01A-01D-1366-10	643799	153699461	1571099	49	13616											
FGR	2268	hgsc.bcm.edu;ucsc.edu	37	chr1	27941092	27941092	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtaggccatgccctcagcTacctgggggaccatagtgtg	8	9	13	11	0	1	0	1	0	0	0	1	1	1	1	4	3	3	2	4	3	3	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		C	27941092	T	C	27941092	2	2	264	1	0	0	0	0	0	0	0	1	5874	1509	53	3		3	FGR	1	27941092	Silent	SNP	T	TCGA-BP-4775-01A-01D-1366-10		27941092	221309529	1	13617											
FCRL1	115350	hgsc.bcm.edu;ucsc.edu	37	chr1	157765910	157765910	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatagcatcttcatagtcCacatctgtaatgtttgcttt	10	17	5	9	0	3	0	1	0	2	0	4	0	4	0	1	0	3	4	1	0	4	7	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	157765910	C	T	157765910	2	4	264	1	0	0	0	0	0	0	0	1	5794	581	21	2		2	FCRL1	1	157765910	Silent	SNP	C	TCGA-BP-4775-01A-01D-1366-10	129824818	157765910	91484711	2	13618											
RGL1	23179	hgsc.bcm.edu;ucsc.edu	37	chr1	183895346	183895346	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaagaacaagtgaaactgCgtagccggaccagcttgacg	13	6	13	9	3	0	3	0	2	0	1	0	5	0	5	2	2	5	2	2	2	5	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	183895346	C	T	183895346	3	4	264	1	0	0	0	0	1	0	0	0	13278	768	27	1	2402	1	RGL1	1	183895346	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	26129436	183895346	65355275	3	13619											
EXO1	9156	hgsc.bcm.edu;ucsc.edu	37	chr1	242030291	242030291	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtactgtgggagtggaaCgagtgattagtactaaaggg	13	9	15	4	1	0	1	0	1	0	0	0	4	0	3	0	3	3	2	0	3	7	4	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	242030291	C	T	242030291	4	4	264	1	0	0	0	0	0	1	0	0	5300	528	19	1	1231	1	EXO1	1	242030291	Nonsense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	58134945	242030291	7220330	4	13620											
PLEKHH2	130271	hgsc.bcm.edu;ucsc.edu	37	chr2	43973017	43973017	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttctagatttgtgacattAtttccaaatgggaacaggct	11	15	8	7	0	1	2	0	1	1	1	2	3	2	3	1	2	1	1	1	2	4	5	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	43973017	A	G	43973017	3	3	264	1	0	0	0	0	1	0	0	0	12077	449	16	3	3658	3	PLEKHH2	2	43973017	Missense_Mutation	SNP	A	TCGA-BP-4775-01A-01D-1366-10		43973017	199226356	5	13621											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179399891	179399891	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttcagcaatcatatatttCtcatagagttccttggttga	10	17	6	8	0	4	2	3	1	2	1	6	2	5	2	1	1	1	3	1	1	4	8	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	179399891	C	G	179399891	3	3	264	1	0	0	0	0	1	0	0	0	16734	912	32	4	6548	4	TTN	2	179399891	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	135426874	179399891	63799482	6	13622											
GLS	2744	hgsc.bcm.edu;ucsc.edu	37	chr2	191796274	191796274	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtataactgtttacaggatCttgtttctctgtgtaatttc	8	20	7	6	0	2	0	0	0	2	0	4	1	2	1	0	1	2	4	0	1	4	8	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	191796274	C	A	191796274	3	1	264	1	0	0	0	0	1	0	0	0	6463	913	32	4	1615	4	GLS	2	191796274	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	12396383	191796274	51403099	7	13623											
TNS1	7145	hgsc.bcm.edu	37	chr2	218686541	218686541	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccagggtcccgttcctcAggggtatctcatggccatag	7	9	11	14	1	2	0	2	0	1	0	5	0	4	0	4	4	0	2	4	4	2	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	218686541	A	G	218686541	3	3	264	1	0	0	0	0	1	0	0	0	16342	188	7	3	2069	3	TNS1	2	218686541	Missense_Mutation	SNP	A	TCGA-BP-4775-01A-01D-1366-10	26890267	218686541	24512832	8	13624											
TRANK1	9881	hgsc.bcm.edu;ucsc.edu	37	chr3	36871105	36871108	+	Frame_Shift_Del	DEL	CTGA	CTGA	-																															tcaaccagtctcgtgcatccCtgactgacaggatcagaatg																								novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	CTGA	CTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		-	36871108	CTGA	-	36871105	7	5	264	1	0	1	0	1	0	0	0	0	16453	681	24	0	158	0	TRANK1	3	36871105	Frame_Shift_Del	DEL	CTGA	TCGA-BP-4775-01A-01D-1366-10		36871105	161151325	9	13625											
BOC	91653	hgsc.bcm.edu	37	chr3	113002344	113002344	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctgaaaccatagagcggCcggtgggcactggggccatg	8	7	15	11	2	0	2	0	1	0	1	1	2	1	2	4	5	2	1	4	5	2	2	rs147067616		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	113002344	C	T	113002344	3	4	264	1	0	0	0	0	1	0	0	0	1481	739	26	2	2572	2	BOC	3	113002344	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	76131239	113002344	85020086	10	13626											
ACPL2	92370	hgsc.bcm.edu;ucsc.edu	37	chr3	141011927	141011927	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaagaccaccacaagcgTtctcccaagcccatgtgccc	10	6	7	18	1	1	1	0	0	1	1	2	1	1	1	6	0	4	1	6	0	3	1	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		C	141011927	T	C	141011927	2	2	264	1	0	0	0	0	0	0	0	1	166	1712	60	3		3	ACPL2	3	141011927	Silent	SNP	T	TCGA-BP-4775-01A-01D-1366-10	28009583	141011927	57010503	11	13627											
BBS7	55212	hgsc.bcm.edu;ucsc.edu	37	chr4	122776665	122776665	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatttccattgtgtagtgCtaagacagtagggggtccag	9	11	13	8	0	0	1	0	0	0	1	2	1	2	1	3	2	1	3	3	2	3	5	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	122776665	C	T	122776665	3	4	264	1	0	0	0	0	1	0	0	0	1341	797	28	2	1628	2	BBS7	4	122776665	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10		122776665	68377611	12	13628											
KIAA1430	57587	hgsc.bcm.edu;ucsc.edu	37	chr4	186096970	186096970	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaatcctttgttgttcCttctgtctgttgagagcact	5	18	7	11	0	3	1	1	1	3	1	6	2	5	1	2	0	1	4	2	0	1	5	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	186096970	C	G	186096970	3	3	264	1	0	0	0	0	1	0	0	0	8232	680	24	4	320	4	KIAA1430	4	186096970	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	63320305	186096970	5057306	13	13629											
ZNF131	7690	hgsc.bcm.edu;ucsc.edu	37	chr5	43175076	43175076	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaccacgtgaccccagaaatCatgaaccaagaggagagaga	17	3	11	10	1	1	6	1	2	0	4	1	9	1	6	4	1	1	0	4	1	3	0	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	43175076	C	G	43175076	3	3	264	1	0	0	0	0	1	0	0	0	17720	816	29	4	1637	4	ZNF131	5	43175076	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10		43175076	137740184	14	13630											
ITGA1	3672	hgsc.bcm.edu;ucsc.edu	37	chr5	52206160	52206160	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatggatttaatgacatcGtgataggagctccgctggaa	11	12	12	6	2	0	3	0	3	0	0	2	6	1	6	1	3	1	2	1	3	3	4	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	52206160	G	A	52206160	3	1	264	1	0	0	0	0	1	0	0	0	7872	1145	40	1	1822	1	ITGA1	5	52206160	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10	9031084	52206160	128709100	15	13631											
SNX24	28966	hgsc.bcm.edu;ucsc.edu	37	chr5	122335673	122335673	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctaaatgtgcgacacttgCcctctctaccaaaggcagaa	12	9	7	13	1	1	1	0	0	1	1	3	2	2	1	3	1	3	1	3	1	5	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	122335673	C	T	122335673	3	4	264	1	0	0	0	0	1	0	0	0	14897	739	26	2	330	2	SNX24	5	122335673	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	70129513	122335673	58579587	16	13632											
BTN1A1	696	hgsc.bcm.edu;ucsc.edu	37	chr6	26505216	26505216	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagaaatctgtctggagtGcacctcagtgggatggtacc	9	10	14	8	0	3	1	1	0	2	1	3	4	3	3	2	4	2	2	2	4	2	1	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	26505216	G	A	26505216	3	1	264	1	0	0	0	0	1	0	0	0	1559	1319	46	2	501	2	BTN1A1	6	26505216	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10		26505216	144609851	17	13633											
TMEM200A	114801	hgsc.bcm.edu;ucsc.edu	37	chr6	130762739	130762739	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatacatccttgcatttgcTctcgtcacactcaaagtcct	10	13	4	14	1	3	0	2	0	1	0	6	0	5	0	2	0	3	2	2	0	3	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		C	130762739	T	C	130762739	3	2	264	1	0	0	0	0	1	0	0	0	16122	1551	54	3	1174	3	TMEM200A	6	130762739	Missense_Mutation	SNP	T	TCGA-BP-4775-01A-01D-1366-10	104257523	130762739	40352328	18	13634											
FAM200A	221786	hgsc.bcm.edu;ucsc.edu	37	chr7	99144481	99144481	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtagttgtgaatggtagtAacagcaatatactcttccta	13	14	8	6	0	1	1	0	1	1	0	2	1	2	1	1	1	3	5	1	1	8	8	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	99144481	A	G	99144481	3	3	264	1	0	0	0	0	1	0	0	0	5536	372	13	3	175	3	FAM200A	7	99144481	Missense_Mutation	SNP	A	TCGA-BP-4775-01A-01D-1366-10		99144481	59994182	19	13635											
CRISPLD1	83690	hgsc.bcm.edu	37	chr8	75924705	75924705	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagatctgcagaatcctGggctgaaagttgcttgtggg	10	10	15	6	0	1	3	0	1	1	2	2	4	2	4	1	3	2	4	1	3	3	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	75924705	G	A	75924705	4	1	264	1	0	0	0	0	0	1	0	0	3882	1357	47	2	302	2	CRISPLD1	8	75924705	Nonsense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10		75924705	70439317	20	13636											
ADCY8	114	hgsc.bcm.edu;ucsc.edu	37	chr8	131796014	131796014	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggcgagtgagaagtcaGccagagcacacaaatgtccc	13	5	12	11	1	2	2	2	1	0	2	3	4	3	2	2	1	2	1	2	1	2	0	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	131796014	G	T	131796014	3	4	264	1	0	0	0	0	1	0	0	0	300	971	34	4	572	4	ADCY8	8	131796014	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10	55871309	131796014	14568008	21	13637											
GBA2	57704	hgsc.bcm.edu;ucsc.edu	37	chr9	35748456	35748456	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgcgccagccaaagggAggcacctggtagcccatagc	11	4	13	13	1	0	1	0	0	0	1	0	2	0	2	4	3	4	2	4	3	3	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	35748456	A	T	35748456	2	4	264	1	0	0	0	0	0	0	0	1	6267	291	11	5		5	GBA2	9	35748456	Silent	SNP	A	TCGA-BP-4775-01A-01D-1366-10		35748456	105464975	22	13638											
NANS	54187	hgsc.bcm.edu	37	chr9	100845161	100845161	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggtggccaaagtgaaaattCcggaaggcaccattctaaca	14	8	10	9	1	1	1	0	1	1	0	2	2	2	2	3	4	1	1	3	4	5	3	rs143794024		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	100845161	C	T	100845161	3	4	264	1	0	0	0	0	1	0	0	0	10155	855	30	2	926	2	NANS	9	100845161	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	65096705	100845161	40368270	23	13639											
HELLS	3070	hgsc.bcm.edu;ucsc.edu	37	chr10	96354517	96354517	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagacaaagccagttgtTgtttatcgccttgttacagc	9	13	10	9	1	1	1	1	0	0	1	2	1	1	1	2	1	3	4	2	1	3	6	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	96354517	T	G	96354517	2	3	264	1	0	0	0	0	0	0	0	1	7046	1799	63	5		5	HELLS	10	96354517	Silent	SNP	T	TCGA-BP-4775-01A-01D-1366-10		96354517	39180230	24	13640											
NLRP14	338323	hgsc.bcm.edu	37	chr11	7064163	7064163	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgctccctgaggcatcCttattggtgacaacaagact	10	11	10	10	0	0	4	0	3	0	1	2	4	2	4	2	2	2	2	2	2	3	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	7064163	C	G	7064163	2	3	264	1	0	0	0	0	0	0	0	1	10476	668	24	4		4	NLRP14	11	7064163	Silent	SNP	C	TCGA-BP-4775-01A-01D-1366-10		7064163	127942353	25	13641											
OR4D10	390197	hgsc.bcm.edu	37	chr11	59244948	59244948	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaaagaatttattttccttGgcctgacccagaatcgggaa	13	12	8	8	1	0	3	0	1	0	2	2	4	1	4	3	2	0	0	3	2	6	6	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	59244948	G	A	59244948	2	1	264	1	0	0	0	0	0	0	0	1	11054	1348	47	2		2	OR4D10	11	59244948	Silent	SNP	G	TCGA-BP-4775-01A-01D-1366-10	52180785	59244948	75761568	26	13642											
HSPB2	3316	hgsc.bcm.edu	37	chr11	111784450	111784450	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtcctgcctgctgatgTcgacccctggcgagtccgag	5	10	12	14	3	0	1	0	1	0	0	3	4	2	1	5	1	2	1	5	1	1	1	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	111784450	T	A	111784450	3	1	264	1	0	0	0	0	1	0	0	0	7420	1667	58	5	386	5	HSPB2	11	111784450	Missense_Mutation	SNP	T	TCGA-BP-4775-01A-01D-1366-10	52539502	111784450	23222066	27	13643											
FAM55A	0	hgsc.bcm.edu;ucsc.edu	37	chr11	114401131	114401131	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgaaaataattttatcaTagccttggttccttgccctc	9	17	5	10	0	1	1	1	1	0	0	3	1	2	1	3	1	2	1	3	1	5	8	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	114401131	T	A	114401131	3	1	264	1	0	0	0	0	1	0	0	0	5584	1406	49	5	1060	5	FAM55A	11	114401131	Missense_Mutation	SNP	T	TCGA-BP-4775-01A-01D-1366-10	2616681	114401131	20605385	28	13644											
NCAPD3	23310	hgsc.bcm.edu;ucsc.edu	37	chr11	134046230	134046230	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtctgggtgtgaatcgatcaGagtgctgacaaatcggaaga	12	9	14	6	2	2	4	1	2	1	2	4	6	2	5	0	2	1	1	0	2	3	0	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		C	134046230	G	C	134046230	3	2	264	1	0	0	0	0	1	0	0	0	10206	933	33	4	1471	4	NCAPD3	11	134046230	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10	19645099	134046230	960286	29	13645											
ACCN2	0	hgsc.bcm.edu;ucsc.edu	37	chr12	50472709	50472709	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcttttctcctctgtagggGatgccccatactgtactcca	6	14	8	13	0	3	0	0	0	3	0	5	1	4	1	4	2	3	2	4	2	3	5	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	50472709	G	T	50472709	3	4	264	1	0	0	0	0	1	0	0	0	129	1174	41	4	1019	4	ACCN2	12	50472709	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10		50472709	83379186	30	13646											
KRT80	144501	hgsc.bcm.edu	37	chr12	52565297	52565297	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccttggagaggcctgatCtggaggcagctacagggaac	9	6	17	9	0	1	2	0	1	1	1	1	5	1	4	2	6	3	2	2	6	2	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	52565297	C	A	52565297	3	1	264	1	0	0	0	0	1	0	0	0	8494	913	32	4	118	4	KRT80	12	52565297	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	2092588	52565297	81286598	31	13647											
KIAA0748	0	hgsc.bcm.edu;ucsc.edu	37	chr12	55356980	55356980	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acataggagtagagacagaaGaaggcatcagcagtgacagc	17	4	13	7	0	1	4	1	1	0	3	1	6	1	5	0	2	2	3	0	2	4	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	55356980	G	A	55356980	2	1	264	1	0	0	0	0	0	0	0	1	8190	933	33	2		2	KIAA0748	12	55356980	Silent	SNP	G	TCGA-BP-4775-01A-01D-1366-10	2791683	55356980	78494915	32	13648											
DCN	1634	hgsc.bcm.edu;ucsc.edu	37	chr12	91572254	91572254	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcttctagcataaagtCaaataagcctctctgttgaa	13	13	5	10	0	5	1	2	1	3	0	6	1	5	1	1	0	2	2	1	0	6	5	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	91572254	C	A	91572254	3	1	264	1	0	0	0	0	1	0	0	0	4297	826	29	4	1031	4	DCN	12	91572254	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	36215274	91572254	42279641	33	13649											
EP400	57634	hgsc.bcm.edu	37	chr12	132471271	132471271	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggtggcatctgccccCaccaaaccacagagtcctgc	8	6	12	15	0	1	1	0	0	1	1	2	1	2	1	5	4	3	1	5	4	1	0	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	132471271	C	A	132471271	2	1	264	1	0	0	0	0	0	0	0	1	5149	581	21	4		4	EP400	12	132471271	Silent	SNP	C	TCGA-BP-4775-01A-01D-1366-10	40899017	132471271	1380624	34	13650											
N6AMT2	221143	hgsc.bcm.edu;ucsc.edu	37	chr13	21306082	21306082	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggatctgctattacgatgtCaaaactatgtgcagcaattc	13	12	8	8	1	2	0	1	0	1	0	3	2	2	1	0	1	5	3	0	1	6	4	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	21306082	C	T	21306082	3	4	264	1	0	0	0	0	1	0	0	0	10115	826	29	2	246	2	N6AMT2	13	21306082	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10		21306082	93863796	35	13651											
NIPA1	123606	hgsc.bcm.edu;ucsc.edu	37	chr15	23049093	23049095	+	In_Frame_Del	DEL	GAT	GAT	-																															ttgatgtacctgaactggacGatgatgctgcagccgagcac																								novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		-	23049095	GAT	-	23049093	7	5	264	1	0	1	0	1	0	0	0	0	10422	1048	37	0	267	0	NIPA1	15	23049093	In_Frame_Del	DEL	GAT	TCGA-BP-4775-01A-01D-1366-10		23049093	79482299	36	13652											
TRPM1	4308	hgsc.bcm.edu	37	chr15	31295002	31295002	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaataataactcttctcCgttaaaatgatatcgataca	16	13	3	9	2	3	1	1	1	2	0	5	2	3	1	1	0	2	1	1	0	7	6	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	31295002	C	A	31295002	4	1	264	1	0	0	0	0	0	1	0	0	16584	661	23	4	980	4	TRPM1	15	31295002	Nonsense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	8245909	31295002	71236390	37	13653											
ELL3	80237	hgsc.bcm.edu;ucsc.edu	37	chr15	44067734	44067734	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagtacctcacttcccaCtgtgccatgtgctcccttga	8	11	6	16	0	1	1	1	1	0	0	3	1	3	1	5	0	3	2	5	0	2	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	44067734	C	T	44067734	2	4	264	1	0	0	0	0	0	0	0	1	5064	564	20	2		2	ELL3	15	44067734	Silent	SNP	C	TCGA-BP-4775-01A-01D-1366-10	12772732	44067734	58463658	38	13654											
STRA6	64220	hgsc.bcm.edu;ucsc.edu	37	chr15	74483211	74483211	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtccctgtcagtgtagcTgaaagcaccagcttcagcgg	8	8	12	13	2	2	1	2	1	0	0	3	1	3	1	3	1	4	4	3	1	2	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		C	74483211	T	C	74483211	2	2	264	1	0	0	0	0	0	0	0	1	15323	1567	55	3		3	STRA6	15	74483211	Silent	SNP	T	TCGA-BP-4775-01A-01D-1366-10	30415477	74483211	28048181	39	13655											
PDE8A	5151	hgsc.bcm.edu;ucsc.edu	37	chr15	85643406	85643406	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgagaaaatatccgaatGtgttcagtctgacactcata	13	11	9	8	1	3	2	2	2	1	1	4	4	4	2	1	1	0	2	1	1	5	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	85643406	G	A	85643406	3	1	264	1	0	0	0	0	1	0	0	0	11653	1377	48	2	1055	2	PDE8A	15	85643406	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10	11160195	85643406	16887986	40	13656											
SEMA4B	10509	hgsc.bcm.edu;ucsc.edu	37	chr15	90768609	90768609	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgggacagcccgtgcagaatCtgctcctggacacccacagg	9	5	12	15	2	1	1	0	0	1	1	2	3	2	3	3	3	3	2	3	3	1	0	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	90768609	C	T	90768609	2	4	264	1	0	0	0	0	0	0	0	1	14034	912	32	2		2	SEMA4B	15	90768609	Silent	SNP	C	TCGA-BP-4775-01A-01D-1366-10	5125203	90768609	11762783	41	13657											
CTCF	10664	hgsc.bcm.edu;ucsc.edu	37	chr16	67644949	67644949	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctggaccccacccttcttCagatgaagactgaagtaatg	12	9	9	11	0	2	4	1	2	1	2	2	5	2	5	3	1	1	2	3	1	3	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	67644949	C	T	67644949	4	4	264	1	0	0	0	0	0	1	0	0	4000	827	29	2	216	2	CTCF	16	67644949	Nonsense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10		67644949	22709804	42	13658											
PITPNM3	83394	hgsc.bcm.edu	37	chr17	6381331	6381331	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccccttccggctgctgctGgcagggctgtcccctgaggg	2	9	14	16	1	0	1	0	1	0	0	3	1	3	1	5	4	2	5	5	4	0	1	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	6381331	G	A	6381331	2	1	264	1	0	0	0	0	0	0	0	1	11952	1335	47	2		2	PITPNM3	17	6381331	Silent	SNP	G	TCGA-BP-4775-01A-01D-1366-10		6381331	74813879	43	13659											
CNTROB	116840	hgsc.bcm.edu;ucsc.edu	37	chr17	7839782	7839782	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgcaagaaagataccatGattgaacaactggacaaggt	17	6	10	8	1	0	4	0	2	0	2	0	6	0	5	2	2	3	1	2	2	6	2	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	7839782	G	T	7839782	3	4	264	1	0	0	0	0	1	0	0	0	3651	1290	45	4	711	4	CNTROB	17	7839782	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10	1458451	7839782	73355428	44	13660											
GGNBP2	79893	hgsc.bcm.edu;ucsc.edu	37	chr17	34945653	34945653	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaggatgagtctgaatgtActtcagatgaggaaatcttt	12	13	11	5	0	3	4	1	3	2	1	3	6	3	6	0	2	2	2	0	2	3	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		G	34945653	A	G	34945653	3	3	264	1	0	0	0	0	1	0	0	0	6359	391	14	3	1956	3	GGNBP2	17	34945653	Missense_Mutation	SNP	A	TCGA-BP-4775-01A-01D-1366-10	27105871	34945653	46249557	45	13661											
SLC16A3	9123	hgsc.bcm.edu	37	chr17	80195666	80195666	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgggggccctgcagttCgaggtgctcatggccatcgt	5	10	16	10	2	1	0	1	0	0	0	3	1	1	0	2	5	2	3	2	5	0	1	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	80195666	C	A	80195666	3	1	264	1	0	0	0	0	1	0	0	0	14411	883	31	4	1030	4	SLC16A3	17	80195666	Missense_Mutation	SNP	C	TCGA-BP-4775-01A-01D-1366-10	45250013	80195666	999544	46	13662											
ZNF227	7770	hgsc.bcm.edu	37	chr19	44739196	44739196	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaataacctgcaaatacatGaagacttcatgaagaaatca	21	8	5	7	0	2	4	2	2	0	2	2	4	2	4	1	0	3	1	1	0	8	3	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		A	44739196	G	A	44739196	3	1	264	1	0	0	0	0	1	0	0	0	17780	1291	45	2	627	2	ZNF227	19	44739196	Missense_Mutation	SNP	G	TCGA-BP-4775-01A-01D-1366-10		44739196	14389787	47	13663											
ATF5	22809	hgsc.bcm.edu	37	chr19	50435817	50435817	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctatggcctccctcctcaAgaaggagctggaacagatgg	11	7	12	11	0	1	2	1	0	0	2	3	4	3	4	3	4	3	2	3	4	4	1	novel		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	50435817	A	T	50435817	3	4	264	1	0	0	0	0	1	0	0	0	1083	72	3	5	323	5	ATF5	19	50435817	Missense_Mutation	SNP	A	TCGA-BP-4775-01A-01D-1366-10	5696621	50435817	8693166	48	13664											
PCNT	5116	hgsc.bcm.edu;ucsc.edu	37	chr21	47832897	47832897	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcctgagtctggaggaCggcggcaaggtgtggggagg	7	6	21	7	3	1	1	0	1	1	0	1	4	1	4	1	8	1	1	1	8	1	0	rs144445891		TCGA-BP-4775-01A-01D-1366-10	TCGA-BP-4775-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a3b3efb4-d6c5-4249-b125-1bb2232d2ea9	7548d4f2-9c42-43d0-b807-44695c970ea1		T	47832897	C	T	47832897	2	4	264	1	0	0	0	0	0	0	0	1	11590	535	19	1		1	PCNT	21	47832897	Silent	SNP	C	TCGA-BP-4775-01A-01D-1366-10		47832897	296998	49	13665											
IL6R	3570	hgsc.bcm.edu;ucsc.edu	37	chr1	154401718	154401718	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaggagacagcgtgacTctgacctgcccgggggtaga	8	6	15	12	2	1	4	0	2	1	2	1	5	1	4	3	3	3	1	3	3	1	1	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		A	154401718	T	A	154401718	2	1	265	1	0	0	0	0	0	0	0	1	7702	1538	54	5		5	IL6R	1	154401718	Silent	SNP	T	TCGA-BP-4777-01A-01D-1366-10		154401718	94848903	1	13666											
STAT1	6772	hgsc.bcm.edu;ucsc.edu	37	chr2	191849113	191849113	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagctcttcagtaacgatgaGaggacccttggaagagaaaa	16	7	11	7	1	2	2	1	1	1	2	2	7	2	4	1	2	2	2	1	2	5	3	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		C	191849113	G	C	191849113	3	2	265	1	0	0	0	0	1	0	0	0	15265	942	33	4	1026	4	STAT1	2	191849113	Missense_Mutation	SNP	G	TCGA-BP-4777-01A-01D-1366-10		191849113	51350260	2	13667											
COX18	285521	hgsc.bcm.edu;ucsc.edu	37	chr4	73927583	73927583	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgacattgcacggacaaAgtacgtaatatacgtctgaa	15	8	8	10	4	1	1	0	1	1	0	1	3	1	2	1	1	3	3	1	1	6	5	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		T	73927583	A	T	73927583	3	4	265	1	0	0	0	0	1	0	0	0	3767	72	3	5	234	5	COX18	4	73927583	Missense_Mutation	SNP	A	TCGA-BP-4777-01A-01D-1366-10		73927583	117226693	3	13668											
MAP1B	4131	hgsc.bcm.edu;ucsc.edu	37	chr5	71493194	71493194	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggtcacacaccttactatCaatctcctactgacgagaaa	13	10	5	13	1	3	2	2	1	1	1	4	3	3	2	2	1	2	0	2	1	5	3	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		T	71493194	C	T	71493194	4	4	265	1	0	0	0	0	0	1	0	0	9228	827	29	2	4030	2	MAP1B	5	71493194	Nonsense_Mutation	SNP	C	TCGA-BP-4777-01A-01D-1366-10		71493194	109422066	4	13669											
SLC27A6	28965	hgsc.bcm.edu;ucsc.edu	37	chr5	128368807	128368807	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgctttacaggaaaaaatGgaagcaacaggaacattcaa	19	8	8	6	0	1	0	1	0	0	0	1	3	1	3	0	3	5	2	0	3	8	4	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		A	128368807	G	A	128368807	3	1	265	1	0	0	0	0	1	0	0	0	14532	1348	47	2	1730	2	SLC27A6	5	128368807	Missense_Mutation	SNP	G	TCGA-BP-4777-01A-01D-1366-10	56875613	128368807	52546453	5	13670											
C6orf27	0	hgsc.bcm.edu;ucsc.edu	37	chr6	31743892	31743892	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaggtcggggtcattcCtggaagttggcaggaagtcc	8	9	16	8	1	1	0	1	0	0	0	4	2	3	2	2	6	1	3	2	6	2	2	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		G	31743892	C	G	31743892	3	3	265	1	0	0	0	0	1	0	0	0	2362	681	24	4	2372	4	C6orf27	6	31743892	Missense_Mutation	SNP	C	TCGA-BP-4777-01A-01D-1366-10		31743892	139371175	6	13671											
PHKG1	5260	hgsc.bcm.edu	37	chr7	56155438	56155438	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggctcgtgggcttgtGgatgcatcgcctgaccacac	5	10	12	14	2	0	1	0	1	0	0	3	2	1	2	3	3	1	3	3	3	0	1	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		A	56155438	G	A	56155438	3	1	265	1	0	0	0	0	1	0	0	0	11846	1348	47	2	1080	2	PHKG1	7	56155438	Missense_Mutation	SNP	G	TCGA-BP-4777-01A-01D-1366-10		56155438	102983225	7	13672											
PTCH1	5727	hgsc.bcm.edu	37	chr9	98240434	98240434	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaaggaaagcacctttTgagtggagttctgtgcgaca	10	11	14	6	1	1	2	0	2	1	0	1	5	1	4	1	3	2	2	1	3	2	3	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		G	98240434	T	G	98240434	3	3	265	1	0	0	0	0	1	0	0	0	12732	1812	63	5	3153	5	PTCH1	9	98240434	Missense_Mutation	SNP	T	TCGA-BP-4777-01A-01D-1366-10		98240434	42972997	8	13673											
A2BP1	0	hgsc.bcm.edu;ucsc.edu	37	chr16	7726799	7726799	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttatgctgcataccgctaCgcccagcctacccctgccac	7	8	8	18	2	0	0	0	0	0	0	0	0	0	0	6	1	7	4	6	1	4	4	rs182244522	by1000genomes;alternate_allele	TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		G	7726799	C	G	7726799	4	3	265	1	0	0	0	0	0	1	0	0	3	547	19	4	1134	4	A2BP1	16	7726799	Nonsense_Mutation	SNP	C	TCGA-BP-4777-01A-01D-1366-10		7726799	82627954	9	13674											
KIAA1609	57707	hgsc.bcm.edu	37	chr16	84523001	84523001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtggcttagcacgtgcaCcacagagccaaccagatcct	10	8	9	14	1	1	2	0	0	1	2	2	2	2	2	4	1	4	3	4	1	2	1	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		T	84523001	C	T	84523001	3	4	265	1	0	0	0	0	1	0	0	0	8247	507	18	2	978	2	KIAA1609	16	84523001	Missense_Mutation	SNP	C	TCGA-BP-4777-01A-01D-1366-10	76796202	84523001	5831752	10	13675											
AFG3L2	10939	hgsc.bcm.edu;ucsc.edu	37	chr18	12337401	12337401	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttttataagcatcattaAtaagtattcgtacttcatca	13	18	3	7	1	4	0	3	0	1	0	5	0	4	0	0	0	2	3	0	0	6	10	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		G	12337401	A	G	12337401	3	3	265	1	0	0	0	0	1	0	0	0	360	101	4	3	287	3	AFG3L2	18	12337401	Missense_Mutation	SNP	A	TCGA-BP-4777-01A-01D-1366-10		12337401	65739847	11	13676											
RYR1	6261	hgsc.bcm.edu;ucsc.edu	37	chr19	39002238	39002238	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctcgtccgccaccgaGtctctctctttggtaagtgg	4	13	10	14	3	3	0	0	0	3	0	7	1	4	0	3	2	1	2	3	2	1	2	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		A	39002238	G	A	39002238	3	1	265	1	0	0	0	0	1	0	0	0	13770	1029	36	2	9402	2	RYR1	19	39002238	Missense_Mutation	SNP	G	TCGA-BP-4777-01A-01D-1366-10		39002238	20126745	12	13677											
COL4A6	1288	hgsc.bcm.edu;ucsc.edu	37	chrX	107420105	107420105	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agggctggcaacccagcgacCcctggagagcctgggcttcc	7	5	14	15	1	0	1	0	0	0	1	1	3	1	1	5	4	3	3	5	4	1	1	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		T	107420105	C	T	107420105	2	4	265	1	0	0	0	0	0	0	0	1	3695	610	22	2		2	COL4A6	23	107420105	Silent	SNP	C	TCGA-BP-4777-01A-01D-1366-10		107420105	47850455	13	13678											
ATP11C	286410	hgsc.bcm.edu;ucsc.edu	37	chrX	138840003	138840003	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaagaactggtacaaaaaCtgtggcaaaatgaaacaaag	21	5	9	6	0	0	3	0	1	0	2	0	3	0	3	0	2	4	2	0	2	9	1	novel		TCGA-BP-4777-01A-01D-1366-10	TCGA-BP-4777-11A-01D-1367-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	dccd4d15-8a3a-49f1-b6f9-236ae5262be3	74aadb21-b60b-438f-8eb6-6f163f77d21d		G	138840003	C	G	138840003	3	3	265	1	0	0	0	0	1	0	0	0	1121	564	20	4	820	4	ATP11C	23	138840003	Missense_Mutation	SNP	C	TCGA-BP-4777-01A-01D-1366-10	31419898	138840003	16430557	14	13679											
TUFT1	7286	hgsc.bcm.edu;ucsc.edu	37	chr1	151512886	151512886	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccctggtggacgtgcaccCagaggaccaggcggcggtaa	9	5	15	12	3	0	1	0	0	0	1	0	3	0	3	3	6	2	2	3	6	2	2	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	151512886	C	T	151512886	3	4	266	1	0	0	0	0	1	0	0	0	16771	594	21	2	46	2	TUFT1	1	151512886	Missense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10		151512886	97737735	1	13680											
F5	2153	hgsc.bcm.edu	37	chr1	169510701	169510701	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctggagagagagtcgtgtgGctgaggtctggagagaggtt	8	10	19	4	1	2	4	0	1	2	3	3	8	2	5	0	5	0	2	0	5	0	1	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	169510701	G	T	169510701	3	4	266	1	0	0	0	0	1	0	0	0	5348	1194	42	4	3099	4	F5	1	169510701	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10	17997815	169510701	79739920	2	13681											
LRP1B	53353	hgsc.bcm.edu	37	chr2	141259355	141259355	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctcatctgaaccatcGccacagtcatccttattgtc	8	15	4	14	1	4	1	2	1	2	0	8	1	5	1	3	0	1	0	3	0	2	3	rs148504930		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	141259355	G	A	141259355	2	1	266	1	0	0	0	0	0	0	0	1	8955	1074	38	1		1	LRP1B	2	141259355	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10		141259355	101940018	3	13682											
SLC4A10	57282	hgsc.bcm.edu;ucsc.edu	37	chr2	162821636	162821636	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactcagctggttggatgatTtgatgcccgagagtaagaaa	13	10	12	6	1	1	4	1	2	0	2	1	6	1	5	1	2	3	3	1	2	3	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		G	162821636	T	G	162821636	3	3	266	1	0	0	0	0	1	0	0	0	14653	1838	64	5	3287	5	SLC4A10	2	162821636	Missense_Mutation	SNP	T	TCGA-BP-4781-01A-01D-1373-10	21562281	162821636	80377737	4	13683											
C2orf77	0	hgsc.bcm.edu;ucsc.edu	37	chr2	170505754	170505754	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcagctttgcattttttctCcttttcatgttcccagaaaa	9	18	4	10	0	3	1	2	0	1	1	5	1	4	1	2	0	2	3	2	0	2	7	rs138449065	by1000genomes;alternate_allele	TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	170505754	C	A	170505754	4	1	266	1	0	0	0	0	0	1	0	0	2194	864	30	4	411	4	C2orf77	2	170505754	Nonsense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10	7684118	170505754	72693619	5	13684											
IL17RC	84818	hgsc.bcm.edu	37	chr3	9960273	9960273	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagtgcctgctgcccttGtgcagtttggtcagtctgtg	4	14	13	10	0	2	0	1	0	1	0	2	0	2	0	2	1	5	4	2	1	1	2	rs112627391	bycluster;byfrequency;by1000genomes	TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	9960273	G	C	9960273	3	2	266	1	0	0	0	0	1	0	0	0	7641	1377	48	4	676	4	IL17RC	3	9960273	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		9960273	188062157	6	13685											
KCNH8	131096	hgsc.bcm.edu;ucsc.edu	37	chr3	19492864	19492864	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgctcgggctccatggaagTtcttaaagacagcatggtgc	10	10	12	9	1	1	1	0	0	1	1	3	2	2	2	1	3	3	4	1	3	3	2	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	19492864	T	A	19492864	3	1	266	1	0	0	0	0	1	0	0	0	8038	1725	60	5	1831	5	KCNH8	3	19492864	Missense_Mutation	SNP	T	TCGA-BP-4781-01A-01D-1373-10	9532591	19492864	178529566	7	13686											
PDS5A	23244	hgsc.bcm.edu;ucsc.edu	37	chr4	39905679	39905679	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgtcgtcaatgctgttctGataataaatatgcagaagtt	12	15	8	6	1	2	2	1	1	1	1	3	2	2	2	0	0	2	4	0	0	6	6	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	39905679	G	A	39905679	4	1	266	1	0	0	0	0	0	1	0	0	11691	1299	45	2	2768	2	PDS5A	4	39905679	Nonsense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		39905679	151248597	8	13687											
TET2	54790	hgsc.bcm.edu	37	chr4	106155681	106155681	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagtgctaattaccatgaCaagaacattgtattacttaa	18	12	5	6	0	0	2	0	1	0	1	0	2	0	2	1	0	4	2	1	0	9	6	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	106155681	C	A	106155681	3	1	266	1	0	0	0	0	1	0	0	0	15769	477	17	4	584	4	TET2	4	106155681	Missense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10	66250002	106155681	84998595	9	13688											
PLEKHG4B	153478	hgsc.bcm.edu	37	chr5	145006	145006	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggagtccagctgcccctGccgtctcccaggccctctca	5	7	10	19	1	2	0	1	0	2	0	5	1	3	1	6	2	3	2	6	2	0	0	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	145006	G	C	145006	3	2	266	1	0	0	0	0	1	0	0	0	12072	1319	46	4	822	4	PLEKHG4B	5	145006	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		145006	180770254	10	13689											
SLC36A3	285641	hgsc.bcm.edu;ucsc.edu	37	chr5	150666901	150666901	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccttgaggttctggataAacaccaacaggatcaggaag	14	7	11	9	0	2	1	1	1	1	0	2	4	2	4	2	4	2	2	2	4	4	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		G	150666901	A	G	150666901	3	3	266	1	0	0	0	0	1	0	0	0	14597	14	1	3	818	3	SLC36A3	5	150666901	Missense_Mutation	SNP	A	TCGA-BP-4781-01A-01D-1373-10	150521895	150666901	30248359	11	13690											
FUCA2	2519	hgsc.bcm.edu;ucsc.edu	37	chr6	143825091	143825091	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaagcctgtgctgttccaGtattgatccggtgctcctcc	7	12	10	12	1	0	2	0	1	0	1	4	2	4	2	5	1	3	4	5	1	3	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	143825091	G	C	143825091	4	2	266	1	0	0	0	0	0	1	0	0	6095	1024	36	4	712	4	FUCA2	6	143825091	Nonsense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		143825091	27289976	12	13691											
RNF216	54476	hgsc.bcm.edu;ucsc.edu	37	chr7	5781389	5781389	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctcccaaccttttcagatCttgccactgggcagctggtt	6	14	8	13	0	3	1	1	0	2	1	4	1	3	1	3	2	3	3	3	2	1	5	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	5781389	C	T	5781389	3	4	266	1	0	0	0	0	1	0	0	0	13482	913	32	2	2568	2	RNF216	7	5781389	Missense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10		5781389	153357274	13	13692											
CALCR	799	hgsc.bcm.edu;ucsc.edu	37	chr7	93116284	93116284	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcaccggcttgtaaatgTgaacctcatttttgattttt	10	16	7	8	1	1	2	1	2	0	0	1	2	1	2	2	1	2	3	2	1	4	6	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		G	93116284	T	G	93116284	3	3	266	1	0	0	0	0	1	0	0	0	2579	1696	59	5	1514	5	CALCR	7	93116284	Missense_Mutation	SNP	T	TCGA-BP-4781-01A-01D-1373-10	87334895	93116284	66022379	14	13693											
CBLL1	79872	hgsc.bcm.edu	37	chr7	107395874	107395874	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttacagattccatgcaaGcatgttttttgctatgactg	9	17	8	7	0	0	2	0	1	0	1	1	2	1	2	1	0	4	5	1	0	3	7	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	107395874	G	A	107395874	2	1	266	1	0	0	0	0	0	0	0	1	2703	962	34	2		2	CBLL1	7	107395874	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10	14279590	107395874	51742789	15	13694											
E2F5	1875	hgsc.bcm.edu;ucsc.edu	37	chr8	86118418	86118418	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctatgacagtacattttcCtatgtaactcatgaagacat	13	14	5	9	0	1	3	1	2	0	1	3	3	3	3	2	0	2	2	2	0	5	6	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	86118418	C	A	86118418	2	1	266	1	0	0	0	0	0	0	0	1	4870	668	24	4		4	E2F5	8	86118418	Silent	SNP	C	TCGA-BP-4781-01A-01D-1373-10		86118418	60245604	16	13695											
TM7SF4	0	hgsc.bcm.edu	37	chr8	105361354	105361354	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agctaaatgacagcaaagggGaagtcctgagcgtcttgtac	13	8	12	8	1	1	2	0	2	1	0	2	3	2	3	1	2	4	3	1	2	5	3	rs67114147	bycluster;byfrequency;by1000genomes	TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	105361354	G	C	105361354	3	2	266	1	0	0	0	0	1	0	0	0	15975	1175	41	4	576	4	TM7SF4	8	105361354	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10	19242936	105361354	41002668	17	13696											
ZFAT	57623	hgsc.bcm.edu;ucsc.edu	37	chr8	135613761	135613761	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccataaaccttccggatcCgctcacacaagctggtgttc	9	10	7	15	2	1	0	1	0	0	0	5	1	4	1	4	2	2	3	4	2	3	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	135613761	C	T	135613761	3	4	266	1	0	0	0	0	1	0	0	0	17631	652	23	1	1574	1	ZFAT	8	135613761	Missense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10	30252407	135613761	10750261	18	13697											
XPA	7507	hgsc.bcm.edu;ucsc.edu	37	chr9	100437766	100437766	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggccacacatagtacaagtCttacggtacatgtcatcttc	11	12	7	11	1	3	0	1	0	2	0	4	0	3	0	1	2	3	2	1	2	5	5	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	100437766	C	T	100437766	2	4	266	1	0	0	0	0	0	0	0	1	17439	912	32	2		2	XPA	9	100437766	Silent	SNP	C	TCGA-BP-4781-01A-01D-1373-10		100437766	40775665	19	13698											
CAMSAP1	157922	hgsc.bcm.edu;ucsc.edu	37	chr9	138703339	138703339	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatgttctttggccccGtgccagtgagtttgtagatt	5	16	13	7	1	1	3	0	2	1	1	1	3	1	3	3	2	1	3	3	2	1	5	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	138703339	G	A	138703339	3	1	266	1	0	0	0	0	1	0	0	0	2611	1145	40	1	187	1	CAMSAP1	9	138703339	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10	38265573	138703339	2510092	20	13699											
WAC	51322	hgsc.bcm.edu;ucsc.edu	37	chr10	28897283	28897283	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttcaggacccaaatcttcTtagacaattgcttcctgctt	10	14	5	12	0	3	1	1	0	2	1	4	2	4	2	2	1	2	2	2	1	3	6	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		G	28897283	T	G	28897283	3	3	266	1	0	0	0	0	1	0	0	0	17246	1609	56	5	1118	5	WAC	10	28897283	Missense_Mutation	SNP	T	TCGA-BP-4781-01A-01D-1373-10		28897283	106637464	21	13700											
EGR2	1959	hgsc.bcm.edu	37	chr10	64573811	64573811	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtaggccagagaggaagagGtggaggtggtggctgctgac	9	6	21	5	0	0	3	0	1	0	2	0	6	0	5	1	8	1	3	1	8	2	1	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	64573811	G	C	64573811	3	2	266	1	0	0	0	0	1	0	0	0	4972	1261	44	4	847	4	EGR2	10	64573811	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10	35676528	64573811	70960936	22	13701											
PYROXD2	84795	hgsc.bcm.edu	37	chr10	100152266	100152266	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttctcacctctgtgccatCttccagcacaactccttgaa	8	12	5	16	0	3	1	1	1	3	0	6	1	5	1	4	0	3	2	4	0	2	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	100152266	C	T	100152266	3	4	266	1	0	0	0	0	1	0	0	0	12869	913	32	2	788	2	PYROXD2	10	100152266	Missense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10	35578455	100152266	35382481	23	13702											
FGF8	2253	hgsc.bcm.edu	37	chr10	103534502	103534502	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttaccgaaggggtcgccGtcctctgccatggcgttgat	5	10	13	13	4	1	1	0	1	1	0	3	2	2	1	5	3	2	1	5	3	2	2	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	103534502	G	A	103534502	2	1	266	1	0	0	0	0	0	0	0	1	5858	1136	40	1		1	FGF8	10	103534502	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10	3382236	103534502	32000245	24	13703											
PLEKHG6	55200	hgsc.bcm.edu	37	chr12	6436888	6436888	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcccctgggagtcctcaggGgaggaggaagaagaggggcc	10	3	19	9	0	1	2	1	0	0	2	2	6	2	6	4	7	1	0	4	7	2	0	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	6436888	G	A	6436888	2	1	266	1	0	0	0	0	0	0	0	1	12074	1219	43	2		2	PLEKHG6	12	6436888	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10		6436888	127415007	25	13704											
GRIN2B	2904	hgsc.bcm.edu	37	chr12	13906649	13906649	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtccagggacatgtccagTaggaggacctcctctagctc	8	9	11	13	1	1	0	0	0	1	0	6	3	4	3	4	3	1	2	4	3	2	2	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	13906649	T	A	13906649	2	1	266	1	0	0	0	0	0	0	0	1	6780	1625	57	5		5	GRIN2B	12	13906649	Silent	SNP	T	TCGA-BP-4781-01A-01D-1373-10	7469761	13906649	119945246	26	13705											
ADAMTS20	80070	hgsc.bcm.edu;ucsc.edu	37	chr12	43825141	43825141	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatcatatactcacaggaccCcatggtcctacttgccagga	11	10	7	13	0	2	0	2	0	0	0	3	2	3	2	4	3	3	0	4	3	4	5	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	43825141	C	T	43825141	4	4	266	1	0	0	0	0	0	1	0	0	266	624	22	2	2548	2	ADAMTS20	12	43825141	Nonsense_Mutation	SNP	C	TCGA-BP-4781-01A-01D-1373-10	29918492	43825141	90026754	27	13706											
NAA25	80018	hgsc.bcm.edu;ucsc.edu	37	chr12	112498998	112498998	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcaccaaattccagtccAtgctggtaccttaacatcaa	12	11	5	13	0	2	0	2	0	0	0	4	0	4	0	4	1	4	3	4	1	4	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		G	112498998	A	G	112498998	2	3	266	1	0	0	0	0	0	0	0	1	10121	214	8	3		3	NAA25	12	112498998	Silent	SNP	A	TCGA-BP-4781-01A-01D-1373-10	68673857	112498998	21352897	28	13707											
NEK5	341676	hgsc.bcm.edu;ucsc.edu	37	chr13	52649897	52649897	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagacttaatggcatacctcTtcctcttggaggatgttttc	8	16	8	9	0	2	1	0	0	2	1	4	3	3	3	2	3	1	2	2	3	3	7	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	52649897	T	C	52649897	2	2	266	1	0	0	0	0	0	0	0	1	10327	1606	56	3		3	NEK5	13	52649897	Silent	SNP	T	TCGA-BP-4781-01A-01D-1373-10		52649897	62519981	29	13708											
C14orf101	54916	hgsc.bcm.edu	37	chr14	57113992	57113992	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgtctatttacaaaaggAgcacccagtgaattggcaca	14	10	9	8	0	1	1	0	1	1	0	1	3	1	2	1	2	2	2	1	2	5	5	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		G	57113992	A	G	57113992	3	3	266	1	0	0	0	0	1	0	0	0	1734	304	11	3	1963	3	C14orf101	14	57113992	Missense_Mutation	SNP	A	TCGA-BP-4781-01A-01D-1373-10		57113992	50235548	30	13709											
ERCC4	2072	hgsc.bcm.edu;ucsc.edu	37	chr16	14041533	14041533	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgcgtgaatttcgaagtGagcttccatctctgatccat	10	14	8	9	2	1	3	0	3	1	0	5	4	3	3	2	0	2	1	2	0	3	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	14041533	G	T	14041533	4	4	266	1	0	0	0	0	0	1	0	0	5215	1291	45	4	2122	4	ERCC4	16	14041533	Nonsense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		14041533	76313220	31	13710											
SPDYE4	388333	hgsc.bcm.edu	37	chr17	8660584	8660584	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tggggtatcctcctaccaagGagcctgttgaaggcctcgtg	7	10	13	11	1	0	1	0	1	0	0	3	2	2	2	5	4	2	2	5	4	4	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	8660584	G	C	8660584	2	2	266	1	0	0	0	0	0	0	0	1	15032	1161	41	4		4	SPDYE4	17	8660584	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10		8660584	72534626	32	13711											
CCDC144A	9720	hgsc.bcm.edu	37	chr17	16638643	16638644	+	Frame_Shift_Ins	INS	-	-	T																															gaagaaagaaactgaacaaaINStgtaccaaattgaacaaagc																								novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	16638644	-	T	16638643	7	5	266	1	0	1	1	0	0	0	0	0	2777	101	4	0	3104	0	CCDC144A	17	16638643	Frame_Shift_Ins	INS	-	TCGA-BP-4781-01A-01D-1373-10	7978059	16638643	64556567	33	13712											
PCYT2	5833	hgsc.bcm.edu	37	chr17	79866843	79866843	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacctcgtccacccatttGatggcctgcaccatcttgta	8	11	6	16	1	1	1	0	1	1	0	3	1	2	1	6	1	1	2	6	1	1	3	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	79866843	G	T	79866843	2	4	266	1	0	0	0	0	0	0	0	1	11612	1280	45	4		4	PCYT2	17	79866843	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10	63228200	79866843	1328367	34	13713											
STXBP2	6813	hgsc.bcm.edu	37	chr19	7707347	7707347	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggctgagcgaggcgcgggAgaaggccgtcttgctggacg	6	5	20	10	6	1	2	0	1	1	1	1	5	1	3	1	5	2	2	1	5	1	1	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	7707347	A	C	7707347	3	2	266	1	0	0	0	0	1	0	0	0	15354	304	11	5	865	5	STXBP2	19	7707347	Missense_Mutation	SNP	A	TCGA-BP-4781-01A-01D-1373-10		7707347	51421636	35	13714											
NOTCH3	4854	hgsc.bcm.edu;ucsc.edu	37	chr19	15278141	15278141	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccatggctggtgccacgcGgatgtcagcagcaaccagat	9	7	13	12	2	1	1	1	0	0	1	1	2	1	2	3	3	5	3	3	3	1	0	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	15278141	G	A	15278141	3	1	266	1	0	0	0	0	1	0	0	0	10550	1116	39	1	1704	1	NOTCH3	19	15278141	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10	7570794	15278141	43850842	36	13715											
KRTAP10-3	386682	hgsc.bcm.edu	37	chr21	45978591	45978591	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagacggacatggtagacGtggccatgctggggtgggga	9	6	19	7	2	0	2	0	0	0	2	0	4	0	4	1	7	2	3	1	7	1	1	rs79221051	bycluster;by1000genomes	TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		A	45978591	G	A	45978591	3	1	266	1	0	0	0	0	1	0	0	0	8510	1145	40	1	661	1	KRTAP10-3	21	45978591	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		45978591	2151304	37	13716											
CRYBB3	1417	hgsc.bcm.edu;ucsc.edu	37	chr22	25597418	25597418	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagctggcaagagccatggaGaccttgggggcagctacaag	11	5	15	10	0	0	2	0	0	0	2	0	3	0	2	2	4	4	4	2	4	3	2	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	25597418	G	C	25597418	3	2	266	1	0	0	0	0	1	0	0	0	3912	942	33	4	57	4	CRYBB3	22	25597418	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10		25597418	25707148	38	13717											
ARSD	414	hgsc.bcm.edu	37	chrX	2832696	2832696	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagaatctgcagcctcacTggtcctctccagggtttctt	7	14	8	12	0	4	1	1	0	3	1	6	1	5	1	3	2	2	2	3	2	2	3	rs113031742	bycluster;by1000genomes	TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	2832696	T	C	2832696	2	2	266	1	0	0	0	0	0	0	0	1	989	1567	55	3		3	ARSD	23	2832696	Silent	SNP	T	TCGA-BP-4781-01A-01D-1373-10		2832696	152437864	39	13718											
MED14	9282	hgsc.bcm.edu	37	chrX	40526075	40526075	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggggctctcaaagccccActgggggagctggcagcatg	8	6	16	11	0	1	0	1	0	1	0	2	2	1	1	2	5	3	4	2	5	1	0	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	40526075	A	C	40526075	3	2	266	1	0	0	0	0	1	0	0	0	9432	156	6	5	1234	5	MED14	23	40526075	Missense_Mutation	SNP	A	TCGA-BP-4781-01A-01D-1373-10	37693379	40526075	114744485	40	13719											
SAGE1	55511	hgsc.bcm.edu;ucsc.edu	37	chrX	134991924	134991924	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggtattccggccatgaGtaccagggatcagtgtatgt	9	11	13	8	1	1	1	1	1	0	0	2	2	2	2	3	3	2	4	3	3	3	4	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		T	134991924	G	T	134991924	3	4	266	1	0	0	0	0	1	0	0	0	13811	1029	36	4	1759	4	SAGE1	23	134991924	Missense_Mutation	SNP	G	TCGA-BP-4781-01A-01D-1373-10	94465849	134991924	20278636	41	13720											
SLITRK4	139065	hgsc.bcm.edu	37	chrX	142718802	142718802	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgaaaccttctcacagttGacatagagcacattctcaac	14	10	5	12	0	2	3	2	2	2	1	4	3	2	3	1	0	3	2	1	0	3	4	novel		TCGA-BP-4781-01A-01D-1373-10	TCGA-BP-4781-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9c2726a8-ef24-4653-80c3-247a9c2a0608	ecd9132b-830c-48a8-ba7f-1da213c154b4		C	142718802	G	C	142718802	2	2	266	1	0	0	0	0	0	0	0	1	14747	1277	45	4		4	SLITRK4	23	142718802	Silent	SNP	G	TCGA-BP-4781-01A-01D-1373-10	7726878	142718802	12551758	42	13721											
CELA3A	10136	broad.mit.edu;ucsc.edu	37	chr1	22336337	22336337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagtctccgccttcatcgActggattgaggaggtgagga	8	10	14	9	3	2	2	1	2	1	0	5	7	2	5	2	4	0	0	2	4	0	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	22336337	G	G	22336337	3	3	267	1	0	0	0	0	1	0	0	0	3213	275	10	3	808	3	CELA3A	1	22336337	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08		22336337	226914284	1	13722											
RAD54L	8438	broad.mit.edu;hgsc.bcm.edu	37	chr1	46743873	46743873	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccgggatgaggtactccaGgctgcctgggatgctgcctc	5	9	14	13	1	0	1	0	1	0	0	3	3	2	3	4	4	4	3	4	4	1	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	46743873	G	A	46743873	2	1	267	1	0	0	0	0	0	0	0	1	12995	991	35	2		2	RAD54L	1	46743873	Silent	SNP	G	TCGA-BP-4782-01A-02D-1421-08	24407536	46743873	202506748	2	13723											
TNR	7143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	175360502	175360502	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgacaatgtattcctcccCaggctttagtcctgtctggt	7	15	8	11	0	1	1	0	1	1	0	4	1	4	1	4	2	0	2	4	2	3	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	175360502	C	G	175360502	3	3	267	1	0	0	0	0	1	0	0	0	16337	594	21	4	2715	4	TNR	1	175360502	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	128616629	175360502	73890119	3	13724											
FMOD	2331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203316788	203316788	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattgtgttggaggtacaagGccgtgaggttctccagcccc	7	10	13	11	1	1	1	0	1	1	0	2	2	1	2	4	4	2	3	4	4	2	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	203316788	G	A	203316788	3	1	267	1	0	0	0	0	1	0	0	0	5959	1203	42	2	527	2	FMOD	1	203316788	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	27956286	203316788	45933833	4	13725											
PRELP	5549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203453269	203453269	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaacacctgtacctcaaCaacaatagcatcgagagtga	15	7	8	11	1	1	2	1	1	0	1	2	4	1	3	2	1	5	2	2	1	6	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	203453269	C	A	203453269	3	1	267	1	0	0	0	0	1	0	0	0	12475	477	17	4	959	4	PRELP	1	203453269	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	136481	203453269	45797352	5	13726											
OPTC	26254	broad.mit.edu;hgsc.bcm.edu	37	chr1	203468978	203468978	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatacagcctgcagccttcaGggtgagtcaaggccttagat	10	9	12	10	0	2	2	2	1	0	1	2	3	2	2	3	2	4	1	3	2	3	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	203468978	G	C	203468978	3	2	267	1	0	0	0	0	1	0	0	0	10888	1014	35	4	745	4	OPTC	1	203468978	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	15709	203468978	45781643	6	13727											
LYST	1130	broad.mit.edu	37	chr1	235907322	235907322	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagatatgtaaaaatttctTtctgaaatggattgaaaaca	17	13	6	5	0	2	3	0	2	2	1	2	4	2	4	1	1	1	1	1	1	7	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	235907322	C	C	235907322	3	2	267	1	0	0	0	0	1	0	0	0	9128	1841	64	3	3393	3	LYST	1	235907322	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	32438344	235907322	13343299	7	13728											
PKDCC	91461	broad.mit.edu	37	chr2	42275952	42275952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagatggtgctgctggagCggctgcggcaccccaacgtg	7	6	17	11	3	0	1	0	0	0	1	0	3	0	2	2	5	5	4	2	5	1	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	42275952	T	T	42275952	3	4	267	1	0	0	0	0	1	0	0	0	11969	759	27	1	615	1	PKDCC	2	42275952	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08		42275952	200923421	8	13729											
TIA1	7072	broad.mit.edu	37	chr2	70475612	70475612	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagctccctgcccttcaCtacctcccaaatcgtttaag	8	11	5	17	1	1	0	1	0	0	0	5	0	4	0	5	0	3	2	5	0	3	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	70475612	T	T	70475612	1	4	267	1	0	0	0	0	0	0	0	0	15886	580	20	2		2	TIA1	2	70475612	Translation_Start_Site	SNP	C	TCGA-BP-4782-01A-02D-1421-08	28199660	70475612	172723761	9	13730											
TTN	7273	broad.mit.edu	37	chr2	179406098	179406098	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgacacggtgttcatatTctaagccttcagtaaggcca	10	12	9	10	1	3	1	2	1	1	0	3	1	3	1	2	2	1	2	2	2	3	6	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	179406098	A	A	179406098	3	1	267	1	0	0	0	0	1	0	0	0	16734	1783	62	5	10325	5	TTN	2	179406098	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	108930486	179406098	63793275	10	13731											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179410271	179410271	+	Frame_Shift_Del	DEL	G	G	-																															cacatagtctttgttgacacGtgtccagcgcaggctcttct																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	179410271	G	-	179410271	7	5	267	1	0	1	0	1	0	0	0	0	16734	1145	40	0	12489	0	TTN	2	179410271	Frame_Shift_Del	DEL	G	TCGA-BP-4782-01A-02D-1421-08	4173	179410271	63789102	11	13732											
PLCL1	5334	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	198949407	198949407	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatcagaatgtgacatttTtgatcctgagcaaaagaagg	14	11	10	6	0	2	5	2	3	0	2	3	5	3	5	1	1	1	1	1	1	4	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	198949407	T	G	198949407	3	3	267	1	0	0	0	0	1	0	0	0	12039	1841	64	5	1172	5	PLCL1	2	198949407	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	19539136	198949407	44249966	12	13733											
KIAA1486	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	226447525	226447525	+	Missense_Mutation	SNP	C	C	A																															gacgctgtgcattcgggcagCctctcaaggagctctccttc																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	226447525	C	A	226447525	3	1	267	1	0	0	0	0	1	0	0	0	8237	738	26	4	1402	4	KIAA1486	2	226447525	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	27498118	226447525	16751848	13	13734	184	2									
KIAA1486	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	226447526	226447526	+	Missense_Mutation	SNP	C	C	G																															acgctgtgcattcgggcagcCtctcaaggagctctccttca																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	226447526	C	G	226447526	3	3	267	1	0	0	0	0	1	0	0	0	8237	681	24	4	1403	4	KIAA1486	2	226447526	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	1	226447526	16751847	14	13735	184	2									
NCL	4691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	232321358	232321358	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacggcttctggcattaggTgatcccctgggtccttgcaa	6	13	11	11	1	1	1	0	1	1	0	3	1	3	1	3	4	2	3	3	4	3	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	232321358	T	C	232321358	2	2	267	1	0	0	0	0	0	0	0	1	10226	1683	59	3		3	NCL	2	232321358	Silent	SNP	T	TCGA-BP-4782-01A-02D-1421-08	5873832	232321358	10878015	15	13736											
ALPP	250	broad.mit.edu	37	chr2	233246044	233246044	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctatgtgctcaaggacGgcgcccggccggatgttacc	7	7	14	13	4	1	0	1	0	0	0	1	2	1	2	3	5	2	3	3	5	3	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	233246044	T	T	233246044	3	4	267	1	0	0	0	0	1	0	0	0	548	1116	39	4	1314	4	ALPP	2	233246044	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	924686	233246044	9953329	16	13737											
ALPPL2	251	broad.mit.edu	37	chr2	233274125	233274125	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctatgtgctcaaggacGgcgcccggccggatgttacg	7	7	15	12	5	1	0	1	0	0	0	1	2	1	2	2	5	2	3	2	5	3	2	rs145179673	byfrequency;alternate_allele	TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	233274125	T	T	233274125	3	4	267	1	0	0	0	0	1	0	0	0	549	1116	39	4	1305	4	ALPPL2	2	233274125	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	28081	233274125	9925248	17	13738											
KAT2B	8850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	20153227	20153227	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaacaagcaagacaggaaAaagataaactgcctcttgaa	19	6	9	7	0	1	3	0	1	1	2	1	5	1	5	1	2	4	1	1	2	8	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	20153227	A	G	20153227	3	3	267	1	0	0	0	0	1	0	0	0	7982	15	1	3	1013	3	KAT2B	3	20153227	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08		20153227	177869203	18	13739											
DNAH1	25981	broad.mit.edu;ucsc.edu	37	chr3	52393986	52393986	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccgcatgcagcgggcaGtgctgtcagcgctaatcgtc	6	9	13	13	4	1	0	1	0	0	0	4	0	2	0	1	1	4	5	1	1	1	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	52393986	C	C	52393986	3	2	267	1	0	0	0	0	1	0	0	0	4597	1029	36	4	4564	4	DNAH1	3	52393986	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	32240759	52393986	145628444	19	13740											
GPR15	2838	broad.mit.edu;ucsc.edu	37	chr3	98251550	98251550	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaaggaagctgtgtgccCattaccagcaatcaggaaag	13	8	11	9	0	1	0	1	0	0	0	1	2	1	2	2	2	5	3	2	2	5	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	98251550	A	A	98251550	3	1	267	1	0	0	0	0	1	0	0	0	6655	594	21	4	675	4	GPR15	3	98251550	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	45857564	98251550	99770880	20	13741											
PLD1	5337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	171323102	171323102	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcaccttgtcataaattGtagcatttcgagctgctgtt	9	16	7	9	1	2	0	2	0	0	0	3	1	2	0	1	0	3	5	1	0	3	7	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	171323102	G	T	171323102	3	4	267	1	0	0	0	0	1	0	0	0	12045	1377	48	4	245	4	PLD1	3	171323102	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	73071552	171323102	26699328	21	13742											
EIF4A2	1974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186504360	186504360	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaattcatgagagatccaAttcgaattctggtgaaaaag	18	10	8	5	1	2	3	1	2	1	1	4	5	3	3	1	1	0	0	1	1	6	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	186504360	A	C	186504360	3	2	267	1	0	0	0	0	1	0	0	0	5025	101	4	5	723	5	EIF4A2	3	186504360	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08	15181258	186504360	11518070	22	13743											
KLF3	51274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	38690220	38690220	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatagtcatacccatctaaTtacatggaatccatgaagcc	15	11	5	10	0	2	1	1	1	1	0	3	2	3	2	3	1	3	0	3	1	7	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	38690220	T	G	38690220	3	3	267	1	0	0	0	0	1	0	0	0	8347	1490	52	5	78	5	KLF3	4	38690220	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08		38690220	152464056	23	13744											
CDC23	8697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137524758	137524758	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtaggaaaaagggagcaGgcacctcggtggtaggagtc	12	5	17	7	1	0	0	0	0	0	0	2	3	0	3	1	7	1	4	1	7	4	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	137524758	G	C	137524758	3	2	267	1	0	0	0	0	1	0	0	0	3061	1000	35	4	94	4	CDC23	5	137524758	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08		137524758	43390502	24	13745											
CTNNA1	1495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138269640	138269640	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgctgtgtcatggaagatGaaggcaccagagaaaaagcc	14	6	12	9	0	1	3	1	1	0	2	1	5	1	4	3	2	2	2	3	2	4	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	138269640	G	A	138269640	3	1	267	1	0	0	0	0	1	0	0	0	4012	1290	45	2	2649	2	CTNNA1	5	138269640	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	744882	138269640	42645620	25	13746											
C6orf105	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	11778959	11778959	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtataccagctcagaacaaGgaagtggtatatgcatgtag	15	9	11	6	0	1	1	1	0	0	1	1	2	1	2	1	2	4	5	1	2	8	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	11778959	G	C	11778959	3	2	267	1	0	0	0	0	1	0	0	0	2318	1000	35	4	740	4	C6orf105	6	11778959	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08		11778959	159336108	26	13747											
ATXN1	6310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	16328126	16328126	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatgggatgaagctggcaTaggttccactgtattgggag	9	11	16	5	0	0	2	0	2	0	0	1	4	1	4	1	4	1	4	1	4	3	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	16328126	T	C	16328126	3	2	267	1	0	0	0	0	1	0	0	0	1209	1406	49	3	2039	3	ATXN1	6	16328126	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	4549167	16328126	154786941	27	13748											
DNAH8	1769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	38891824	38891824	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaccttggtcctttcaaTcagatatttaggaactattt	10	17	5	9	0	2	1	2	0	0	1	4	2	4	2	3	2	2	0	3	2	6	8	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	38891824	T	G	38891824	3	3	267	1	0	0	0	0	1	0	0	0	4607	1432	50	5	10471	5	DNAH8	6	38891824	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	22563698	38891824	132223243	28	13749											
RIMS1	22999	broad.mit.edu	37	chr6	72960946	72960946	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaattggagacagcgctttTagatgatgaaccgcattggt	12	11	12	6	2	0	5	0	2	0	3	0	6	0	5	1	2	2	2	1	2	3	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	72960946	A	A	72960946	4	1	267	1	0	0	0	0	0	1	0	0	13369	1764	61	5	2794	5	RIMS1	6	72960946	Nonsense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	34069122	72960946	98154121	29	13750											
CYTH3	9265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6226736	6226736	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctatctgtttgttcctcTgagtcgttttgctattggtg	3	20	11	7	1	2	1	0	1	2	0	4	1	3	1	1	2	1	5	1	2	2	7	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	6226736	T	G	6226736	3	3	267	1	0	0	0	0	1	0	0	0	4205	1580	55	5	1045	5	CYTH3	7	6226736	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08		6226736	152911927	30	13751											
RPA3	6119	broad.mit.edu;hgsc.bcm.edu	37	chr7	7680049	7680049	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtccatcatgtccaccaTgattatggtccaagactgcg	11	10	8	12	1	1	2	1	1	0	1	4	2	4	2	4	1	1	0	4	1	3	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	7680049	T	C	7680049	3	2	267	1	0	0	0	0	1	0	0	0	13540	1464	51	3	380	3	RPA3	7	7680049	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	1453313	7680049	151458614	31	13752											
C7orf46	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23737866	23737866	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggcagtagacagcccattCctaaaagcatttcaagcatc	14	8	7	12	1	1	1	1	0	0	1	3	1	2	1	2	1	3	4	2	1	4	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	23737866	C	A	23737866	3	1	267	1	0	0	0	0	1	0	0	0	2396	854	30	4	711	4	C7orf46	7	23737866	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	16057817	23737866	135400797	32	13753											
HECW1	23072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	43503283	43503283	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacattcagcgaaccatTgcaacagagaggtccgaaga	17	5	9	10	2	1	2	1	0	0	2	2	5	2	2	2	1	5	1	2	1	5	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	43503283	T	C	43503283	2	2	267	1	0	0	0	0	0	0	0	1	7042	1800	63	3		3	HECW1	7	43503283	Silent	SNP	T	TCGA-BP-4782-01A-02D-1421-08	19765417	43503283	115635380	33	13754											
MRPS17	51373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	56022693	56022693	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagagctttacctgttcCacgagcaaagcatgtgaaac	12	10	8	11	1	1	2	1	1	1	1	3	3	2	2	2	0	5	4	2	0	3	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	56022693	C	T	56022693	3	4	267	1	0	0	0	0	1	0	0	0	9827	594	21	2	221	2	MRPS17	7	56022693	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	12519410	56022693	103115970	34	13755											
RABGEF1	27342	broad.mit.edu;hgsc.bcm.edu	37	chr7	66248812	66248812	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gaccaagctgtttttggaagGaatgcattacaaaagggtag	14	10	12	5	0	0	0	0	0	0	0	0	3	0	2	1	3	3	4	1	3	7	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	66248812	G	C	66248812	3	2	267	1	0	0	0	0	1	0	0	0	12968	1174	41	4	507	4	RABGEF1	7	66248812	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	10226119	66248812	92889851	35	13756											
LHFPL3	375612	broad.mit.edu	37	chr7	103969251	103969251	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggagccgccgccgctgcCgccgccgccgccgccgcgat	2	2	14	23	11	0	0	0	0	0	0	0	2	0	1	10	1	2	1	10	1	0	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	103969251	T	T	103969251	2	4	267	1	0	0	0	0	0	0	0	1	8766	639	23	1		1	LHFPL3	7	103969251	Silent	SNP	C	TCGA-BP-4782-01A-02D-1421-08	37720439	103969251	55169412	36	13757											
LRRC4	64101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127670011	127670011	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgatctcagggaagtggTtccctgacatctccagctcc	7	10	10	14	0	2	2	1	2	2	0	6	3	4	3	4	2	1	2	4	2	1	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	127670011	T	C	127670011	3	2	267	1	0	0	0	0	1	0	0	0	8997	1725	60	3	1282	3	LRRC4	7	127670011	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	23700760	127670011	31468652	37	13758											
RP1L1	94137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10465398	10465398	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccttctgcctcctggacCtccccttcagcctcctgtgc	2	12	6	21	0	2	0	1	0	1	0	6	1	6	1	9	1	3	0	9	1	0	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	10465398	C	G	10465398	3	3	267	1	0	0	0	0	1	0	0	0	13535	680	24	4	996	4	RP1L1	8	10465398	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08		10465398	135898624	38	13759											
RPL7	6129	broad.mit.edu;hgsc.bcm.edu	37	chr8	74204500	74204500	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctgatgacaaacgccaaTttgggttctgcaggtacata	12	12	9	8	1	2	2	0	2	2	0	2	2	2	2	1	2	3	3	1	2	4	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	74204500	T	A	74204500	3	1	267	1	0	0	0	0	1	0	0	0	13601	1490	52	5	498	5	RPL7	8	74204500	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	63739102	74204500	72159522	39	13760											
TRAPPC9	83696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141310714	141310714	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcaatagtttcacatgcCtgttgtttcaaacagaacac	12	13	7	9	0	3	1	3	0	0	1	3	1	3	1	1	1	3	4	1	1	4	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	141310714	C	T	141310714	5	4	267	1	0	0	0	0	0	0	1	0	16464	695	24	2	1876	2	TRAPPC9	8	141310714	Splice_Site	SNP	C	TCGA-BP-4782-01A-02D-1421-08	67106214	141310714	5053308	40	13761											
CHRAC1	54108	broad.mit.edu	37	chr8	141521619	141521619	+	Frame_Shift_Del	DEL	T	-	-																															atggcggacgtggtcgtgggTaaagacaagggcggggagca																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	141521619	-	-	141521619	7	5	267	1	0	1	0	1	0	0	0	0	3371	1625	57	0	23	0	CHRAC1	8	141521619	Frame_Shift_Del	DEL	T	TCGA-BP-4782-01A-02D-1421-08	210905	141521619	4842403	41	13762											
FANCG	2189	broad.mit.edu;hgsc.bcm.edu	37	chr9	35075002	35075002	+	Missense_Mutation	SNP	G	G	A																															ggctacccattccagtccacGactaattagggcggctgccc																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	35075002	G	A	35075002	3	1	267	1	0	0	0	0	1	0	0	0	5668	1058	37	1	322	1	FANCG	9	35075002	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08		35075002	106138429	42	13763	185	2									
FANCG	2189	broad.mit.edu;hgsc.bcm.edu	37	chr9	35075004	35075004	+	Missense_Mutation	SNP	C	C	G																															ctacccattccagtccacgaCtaattagggcggctgcccga																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	35075004	C	G	35075004	3	3	267	1	0	0	0	0	1	0	0	0	5668	565	20	4	324	4	FANCG	9	35075004	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	2	35075004	106138427	43	13764	185	2									
GBA2	57704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35738346	35738346	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccatcacagccacagctgCcagccacagccctccacagt	11	4	7	19	0	1	0	1	0	0	0	2	1	2	0	6	0	5	1	6	0	0	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	35738346	C	T	35738346	3	4	267	1	0	0	0	0	1	0	0	0	6267	739	26	2	719	2	GBA2	9	35738346	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	663342	35738346	105475085	44	13765											
GOLGA2	2801	broad.mit.edu	37	chr9	131021536	131021536	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtccacgagctgggtctgCagcagtagctgattatgcag	8	10	14	9	1	1	1	0	1	1	0	2	2	2	1	1	2	5	6	1	2	2	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	131021536	T	T	131021536	2	4	267	1	0	0	0	0	0	0	0	1	6552	697	25	2		2	GOLGA2	9	131021536	Silent	SNP	C	TCGA-BP-4782-01A-02D-1421-08	95283190	131021536	10191895	45	13766											
LIPF	8513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	90438403	90438403	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccctcaagaagtttacaatGacattgtttctatgatatca	13	14	5	9	0	3	3	2	2	1	1	3	3	3	3	2	0	1	2	2	0	6	6	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	90438403	G	A	90438403	3	1	267	1	0	0	0	0	1	0	0	0	8822	1290	45	2	1196	2	LIPF	10	90438403	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08		90438403	45096344	46	13767											
TMEM80	283232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	703112	703112	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcacggcctggaggccGtcctgcaggtggttgccatc	4	9	13	15	2	1	0	1	0	0	0	3	1	2	1	5	5	2	2	5	5	0	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	703112	G	C	703112	3	2	267	1	0	0	0	0	1	0	0	0	16203	1145	40	4	487	4	TMEM80	11	703112	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08		703112	134303404	47	13768											
CAPN1	823	hgsc.bcm.edu	37	chr11	64972256	64972260	+	Frame_Shift_Del	DEL	TTATG	TTATG	-																															ctgcagcttcgtgctcgcccTtatgcagaagcaccgtcgcc																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	TTATG	TTATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	64972260	TTATG	-	64972256	7	5	267	1	0	1	0	1	0	0	0	0	2622	1609	56	0	1306	0	CAPN1	11	64972256	Frame_Shift_Del	DEL	TTATG	TCGA-BP-4782-01A-02D-1421-08	64269144	64972256	70034260	48	13769											
KCTD14	65987	broad.mit.edu;ucsc.edu	37	chr11	77727894	77727894	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctcctcagtttccaccagGcacacaagcacgctggactt	9	9	8	15	1	1	0	1	0	0	0	3	1	3	1	3	2	2	5	3	2	1	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	77727894	T	T	77727894	4	4	267	1	0	0	0	0	0	1	0	0	8101	1195	42	4	258	4	KCTD14	11	77727894	Nonsense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	12755638	77727894	57278622	49	13770											
ITPR2	3709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	26839514	26839514	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaccaaagtatacatgaTcttctcccctgcctggcgtt	10	12	7	12	1	2	2	0	2	2	0	3	2	2	2	4	1	3	2	4	1	4	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	26839514	T	C	26839514	3	2	267	1	0	0	0	0	1	0	0	0	7921	1435	50	3	7245	3	ITPR2	12	26839514	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08		26839514	107012381	50	13771											
KIF21A	55605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	39730918	39730918	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcttttacgttgatcctTtttcaactgagcaatctctc	8	18	4	11	1	3	2	1	2	2	0	7	2	4	2	1	0	3	2	1	0	3	5	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	39730918	T	G	39730918	3	3	267	1	0	0	0	0	1	0	0	0	8288	1850	64	5	2714	5	KIF21A	12	39730918	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	12891404	39730918	94120977	51	13772											
STAT2	6773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56750313	56750313	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagctggtgcagctgatcctGaaaggggctgtcaagattct	10	10	13	8	0	2	3	1	2	1	1	3	3	3	3	1	3	3	4	1	3	3	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	56750313	G	A	56750313	4	1	267	1	0	0	0	0	0	1	0	0	15266	1299	45	2	2604	2	STAT2	12	56750313	Nonsense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	17019395	56750313	77101582	52	13773											
INHBC	3626	hgsc.bcm.edu	37	chr12	57843412	57843413	+	Frame_Shift_Ins	INS	-	-	G																															cccataggccttttgtggcaINSgcccgggtgagagttggggg																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	57843413	-	G	57843412	7	5	267	1	0	1	1	0	0	0	0	0	7743	175	7	0	672	0	INHBC	12	57843412	Frame_Shift_Ins	INS	-	TCGA-BP-4782-01A-02D-1421-08	1093099	57843412	76008483	53	13774											
CYP27B1	1594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58158259	58158259	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggctcagggcagctgtgatCtctgagtggagtgctgtctg	5	11	17	8	0	3	2	1	2	2	0	4	3	3	3	0	3	2	4	0	3	0	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	58158259	C	T	58158259	2	4	267	1	0	0	0	0	0	0	0	1	4159	912	32	2		2	CYP27B1	12	58158259	Silent	SNP	C	TCGA-BP-4782-01A-02D-1421-08	314847	58158259	75693636	54	13775											
FRY	10129	broad.mit.edu;ucsc.edu	37	chr13	32841377	32841377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccatccttgccgcctttCagcccgcagcctgtgacgat	6	9	9	17	3	1	1	1	1	0	0	2	2	2	1	6	0	4	1	6	0	0	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	32841377	A	A	32841377	3	1	267	1	0	0	0	0	1	0	0	0	6063	827	29	4	8235	4	FRY	13	32841377	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08		32841377	82328501	55	13776											
MAB21L1	4081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	36049398	36049398	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgatcacccaggcaagacTcgtcccagtccgactctcgg	8	6	10	17	4	2	1	1	0	1	1	6	3	4	1	4	2	0	1	4	2	1	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	36049398	T	A	36049398	3	1	267	1	0	0	0	0	1	0	0	0	9141	1551	54	5	205	5	MAB21L1	13	36049398	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	3208021	36049398	79120480	56	13777											
WDFY2	115825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	52293353	52293353	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcgcatcagagcagagtgacGatgatcctgtttgtcctgga	9	10	13	9	2	1	4	1	2	0	2	3	6	3	5	2	1	1	3	2	1	0	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	52293353	G	C	52293353	2	2	267	1	0	0	0	0	0	0	0	1	17268	1045	37	4		4	WDFY2	13	52293353	Silent	SNP	G	TCGA-BP-4782-01A-02D-1421-08	16243955	52293353	62876525	57	13778											
MYH7	4625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23891451	23891451	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgatgctctcctgggtCagcttcaggtcgccctccag	5	11	10	15	1	3	1	2	1	1	0	7	1	5	1	4	2	2	2	4	2	0	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	23891451	C	A	23891451	2	1	267	1	0	0	0	0	0	0	0	1	10039	813	29	4		4	MYH7	14	23891451	Silent	SNP	C	TCGA-BP-4782-01A-02D-1421-08		23891451	83458089	58	13779											
RFX7	64864	hgsc.bcm.edu;ucsc.edu	37	chr15	56393665	56393665	+	Frame_Shift_Del	DEL	T	T	-																															gacggtgtcaaatggttggcTtaacactttctgggcccact																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	56393665	T	-	56393665	7	5	267	1	0	1	0	1	0	0	0	0	13270	1609	56	0	3691	0	RFX7	15	56393665	Frame_Shift_Del	DEL	T	TCGA-BP-4782-01A-02D-1421-08		56393665	46137727	59	13780											
SPSB3	90864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1827748	1827748	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcctgtgacggcctcacCtatacacttcctgttcttga	8	13	7	13	1	2	2	1	2	1	0	4	2	4	2	4	1	1	1	4	1	3	5	rs147512809	alternate_allele	TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	1827748	C	G	1827748	3	3	267	1	0	0	0	0	1	0	0	0	15115	695	24	4	354	4	SPSB3	16	1827748	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08		1827748	88527005	60	13781											
PPL	5493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4953994	4953994	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaacaccttctgcagggtCacgtcccggtgctcaggctg	6	9	11	15	2	3	0	2	0	1	0	5	0	5	0	3	3	3	3	3	3	1	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	4953994	C	A	4953994	2	1	267	1	0	0	0	0	0	0	0	1	12336	813	29	4		4	PPL	16	4953994	Silent	SNP	C	TCGA-BP-4782-01A-02D-1421-08	3126246	4953994	85400759	61	13782											
PYCARD	29108	hgsc.bcm.edu	37	chr16	31213523	31213523	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctggcgcggctccagaGcctggaaggatatgggccaa	9	5	15	12	2	0	1	0	0	0	1	1	3	1	3	4	5	2	2	4	5	3	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	31213523	G	T	31213523	2	4	267	1	0	0	0	0	0	0	0	1	12856	985	34	4		4	PYCARD	16	31213523	Silent	SNP	G	TCGA-BP-4782-01A-02D-1421-08	26259529	31213523	59141230	62	13783											
TMEM208	29100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67262757	67262757	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgctcagctgcttctcTctctatgtctggtccttctg	3	16	9	13	0	5	0	1	0	4	0	8	0	6	0	1	2	3	3	1	2	1	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	67262757	T	A	67262757	2	1	267	1	0	0	0	0	0	0	0	1	16132	1538	54	5		5	TMEM208	16	67262757	Silent	SNP	T	TCGA-BP-4782-01A-02D-1421-08	36049234	67262757	23091996	63	13784											
GPR172B	0	hgsc.bcm.edu;ucsc.edu	37	chr17	4937468	4937468	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacagagtggagctgccctgCcactggggccacgtggtgcc	6	6	15	14	1	0	1	0	0	0	1	0	2	0	2	4	4	4	1	4	4	0	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	4937468	C	T	4937468	3	4	267	1	0	0	0	0	1	0	0	0	6670	739	26	2	1042	2	GPR172B	17	4937468	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08		4937468	76257742	64	13785											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11648206	11648206	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccggcctgaggaccaGgtcctgatgcgctccttgcg	5	8	13	15	3	0	3	0	3	0	0	2	4	2	4	6	3	2	1	6	3	0	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	11648206	G	T	11648206	3	4	267	1	0	0	0	0	1	0	0	0	4608	991	35	4	6326	4	DNAH9	17	11648206	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	6710738	11648206	69547004	65	13786											
TMUB2	79089	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42266747	42266747	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgggggtggtgttgaGcccagccttgagcatctcct	5	10	16	10	0	1	2	0	2	1	0	2	3	1	3	3	4	4	3	3	4	0	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	42266747	G	A	42266747	2	1	267	1	0	0	0	0	0	0	0	1	16264	962	34	2		2	TMUB2	17	42266747	Silent	SNP	G	TCGA-BP-4782-01A-02D-1421-08	30618541	42266747	38928463	66	13787											
PLEKHM1	9842	hgsc.bcm.edu;ucsc.edu	37	chr17	43517526	43517526	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggggaagcatgacactctTacctgttggaggtcagcaac	10	8	13	10	1	2	1	1	1	1	0	2	3	2	3	1	4	4	3	1	4	3	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	43517526	T	C	43517526	1	2	267	0	1	0	0	0	0	0	0	0	12080	1769	61	3		3	PLEKHM1	17	43517526	RNA	SNP	T	TCGA-BP-4782-01A-02D-1421-08	1250779	43517526	37677684	67	13788											
CACNA1G	8913	broad.mit.edu;ucsc.edu	37	chr17	48703477	48703477	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccgcccctggcccgggccTactctttctggggccagtca	3	8	11	19	2	3	0	1	0	2	0	3	0	3	0	7	4	1	0	7	4	1	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	48703477	A	A	48703477	3	1	267	1	0	0	0	0	1	0	0	0	2544	1522	53	5	6916	5	CACNA1G	17	48703477	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	5185951	48703477	32491733	68	13789											
KIF2B	84643	hgsc.bcm.edu;ucsc.edu	37	chr17	51902361	51902361	+	Frame_Shift_Del	DEL	A	A	-																															tgatgctctgaccgagatccAaaagaaactgaaattattac																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	51902361	A	-	51902361	7	5	267	1	0	1	0	1	0	0	0	0	8298	130	5	0	1969	0	KIF2B	17	51902361	Frame_Shift_Del	DEL	A	TCGA-BP-4782-01A-02D-1421-08	3198884	51902361	29292849	69	13790											
UNK	85451	broad.mit.edu	37	chr17	73814863	73814863	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgcaaacgctctgcccttCtaccccaccagcgacacggt	10	7	7	17	3	2	0	0	0	2	0	2	1	2	0	4	1	5	2	4	1	3	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	73814863	T	T	73814863	2	4	267	1	0	0	0	0	0	0	0	1	16999	912	32	2		2	UNK	17	73814863	Silent	SNP	C	TCGA-BP-4782-01A-02D-1421-08	21912502	73814863	7380347	70	13791											
UNK	85451	hgsc.bcm.edu;ucsc.edu	37	chr17	73816152	73816152	+	Frame_Shift_Del	DEL	C	C	-																															cacctgagtcagtcggaaaaCacatttttgggaacctcagc																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	73816152	C	-	73816152	7	5	267	1	0	1	0	1	0	0	0	0	16999	477	17	0	2082	0	UNK	17	73816152	Frame_Shift_Del	DEL	C	TCGA-BP-4782-01A-02D-1421-08	1289	73816152	7379058	71	13792											
QRICH2	84074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74276934	74276934	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtccttctgtttctgcCgatggtcctcgatgaggttg	5	15	11	10	2	2	1	0	1	2	0	5	3	4	1	3	2	1	2	3	2	1	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	74276934	C	T	74276934	3	4	267	1	0	0	0	0	1	0	0	0	12882	652	23	1	1169	1	QRICH2	17	74276934	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	460782	74276934	6918276	72	13793											
APC2	10297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1461048	1461048	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccaggtggtgtccagcAtccttcggaacttgtcctgg	6	10	11	14	1	0	0	0	0	0	0	4	1	3	1	5	4	2	1	5	4	1	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	1461048	A	G	1461048	3	3	267	1	0	0	0	0	1	0	0	0	764	217	8	3	1580	3	APC2	19	1461048	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08		1461048	57667935	73	13794											
CPAMD8	27151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17010350	17010350	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcatccccatgtgcttgTcaaggagcagctgcagagga	9	10	11	11	0	3	1	2	0	1	1	4	3	4	3	2	2	4	4	2	2	1	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	17010350	T	G	17010350	3	3	267	1	0	0	0	0	1	0	0	0	3795	1667	58	5	897	5	CPAMD8	19	17010350	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	15549302	17010350	42118633	74	13795											
TMEM143	55260	broad.mit.edu	37	chr19	48845836	48845836	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgaagagcagcagcagcaggGaggtggccaccttgaggtcg	10	4	17	10	2	0	2	0	1	0	1	1	4	0	3	2	4	4	4	2	4	1	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	48845836	T	T	48845836	3	4	267	1	0	0	0	0	1	0	0	0	16056	1174	41	4	465	4	TMEM143	19	48845836	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	31835486	48845836	10283147	75	13796											
MED25	81857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50322487	50322487	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agtggactgcgctcccgagtCctacgtacaatgtcacgctc	8	9	10	14	4	1	0	1	0	0	0	4	2	3	1	2	1	3	3	2	1	3	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	50322487	C	G	50322487	3	3	267	1	0	0	0	0	1	0	0	0	9443	855	30	4	249	4	MED25	19	50322487	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	1476651	50322487	8806496	76	13797											
ZNF17	7565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57931180	57931180	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagcatgacggaacacaccCcaagcgtacagccaagcttt	13	6	9	13	2	0	2	0	2	0	0	0	3	0	3	3	1	6	3	3	1	4	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	57931180	C	G	57931180	3	3	267	1	0	0	0	0	1	0	0	0	17742	623	22	4	330	4	ZNF17	19	57931180	Missense_Mutation	SNP	C	TCGA-BP-4782-01A-02D-1421-08	7608693	57931180	1197803	77	13798											
CD93	22918	broad.mit.edu;hgsc.bcm.edu	37	chr20	23066499	23066499	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccagctgaagcccttcaGcggcagactagggtccaggc	9	5	12	15	1	1	2	1	1	0	1	2	2	2	2	3	3	3	2	3	3	2	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	23066499	G	A	23066499	2	1	267	1	0	0	0	0	0	0	0	1	3047	962	34	2		2	CD93	20	23066499	Silent	SNP	G	TCGA-BP-4782-01A-02D-1421-08		23066499	39959021	78	13799											
RBM39	9584	broad.mit.edu;hgsc.bcm.edu	37	chr20	34292611	34292611	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaaaccacctgccatgcaAtgcattgacagcagcaatag	15	6	8	12	0	0	1	0	1	0	0	0	1	0	1	3	0	7	5	3	0	4	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	34292611	A	G	34292611	2	3	267	1	0	0	0	0	0	0	0	1	13135	98	4	3		3	RBM39	20	34292611	Silent	SNP	A	TCGA-BP-4782-01A-02D-1421-08	11226112	34292611	28732909	79	13800											
SH3BGR	6450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	40834425	40834425	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaatgttcctggagagaAaaaacctcaaaatgggattc	17	8	10	6	0	1	2	1	0	0	2	3	6	2	4	2	2	1	1	2	2	6	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	40834425	A	G	40834425	3	3	267	1	0	0	0	0	1	0	0	0	14242	14	1	3	365	3	SH3BGR	21	40834425	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08		40834425	7295470	80	13801											
RIPK4	54101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	43164104	43164104	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggaagagaaggcggagTccaccgaggacacccccgag	11	3	14	13	3	1	1	0	0	1	1	2	7	2	4	4	4	0	0	4	4	2	0	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	43164104	T	A	43164104	3	1	267	1	0	0	0	0	1	0	0	0	13385	1667	58	5	1229	5	RIPK4	21	43164104	Missense_Mutation	SNP	T	TCGA-BP-4782-01A-02D-1421-08	2329679	43164104	4965791	81	13802											
PRAME	23532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	22890580	22890580	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggttggcactaagccagAccatgctgggccgccccaac	9	5	13	14	1	0	1	0	0	0	1	0	1	0	1	5	4	3	3	5	4	2	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		G	22890580	A	G	22890580	3	3	267	1	0	0	0	0	1	0	0	0	12426	275	10	3	94	3	PRAME	22	22890580	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08		22890580	28413986	82	13803											
APOBEC3F	200316	broad.mit.edu;hgsc.bcm.edu	37	chr22	39441014	39441014	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtggcaaccagctgccTgcttacaagtgtttccagat	8	13	9	11	0	1	1	0	0	1	1	2	1	2	1	3	1	5	4	3	1	3	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		A	39441014	T	A	39441014	2	1	267	1	0	0	0	0	0	0	0	1	793	1567	55	5		5	APOBEC3F	22	39441014	Silent	SNP	T	TCGA-BP-4782-01A-02D-1421-08	16550434	39441014	11863552	83	13804											
CDKL5	6792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	18622979	18622979	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacagcctgcaactcttGtcaccccaggtacagttgag	10	8	9	14	0	2	1	1	1	1	0	2	1	2	1	4	1	5	3	4	1	3	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	18622979	G	C	18622979	3	2	267	1	0	0	0	0	1	0	0	0	3157	1368	48	4	1977	4	CDKL5	23	18622979	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08		18622979	136647581	84	13805											
NHSL2	340527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	71359245	71359245	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcactcgtcccacccagAtgctcagggtcacccagcta	10	7	7	17	1	3	1	3	0	0	1	5	1	4	1	3	1	2	2	3	1	1	1	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		C	71359245	A	C	71359245	3	2	267	1	0	0	0	0	1	0	0	0	10412	333	12	5	1869	5	NHSL2	23	71359245	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08	52736266	71359245	83911315	85	13806											
FAM46D	169966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	79698411	79698411	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaaagctctccccagatAtcatgaaagacgcttacgta	15	8	8	10	2	2	3	1	1	1	2	3	4	2	4	2	1	2	3	2	1	6	3	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	79698411	A	T	79698411	3	4	267	1	0	0	0	0	1	0	0	0	5568	449	16	5	375	5	FAM46D	23	79698411	Missense_Mutation	SNP	A	TCGA-BP-4782-01A-02D-1421-08	8339166	79698411	75572149	86	13807											
ALG13	79868	hgsc.bcm.edu;ucsc.edu	37	chrX	110951455	110951455	+	Frame_Shift_Del	DEL	T	T	-																															ttgccacgctttttttcctcTccctcttacccccaccctgt																								novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		-	110951455	T	-	110951455	7	5	267	1	0	1	0	1	0	0	0	0	515	1551	54	0	740	0	ALG13	23	110951455	Frame_Shift_Del	DEL	T	TCGA-BP-4782-01A-02D-1421-08	31253044	110951455	44319105	87	13808											
NKAP	79576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	119077352	119077352	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcgaccgcgagcgtgagcGgtaggactggtttcgggagc	7	6	18	10	7	0	1	0	1	0	0	1	5	0	3	1	4	3	2	1	4	1	2	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	119077352	G	T	119077352	3	4	267	1	0	0	0	0	1	0	0	0	10439	1116	39	4	1066	4	NKAP	23	119077352	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	8125897	119077352	36193208	88	13809											
CUL4B	8450	broad.mit.edu;ucsc.edu	37	chrX	119694026	119694026	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagaagatttggctaggccGtttgcatgatgcaccgaagc	10	10	13	8	2	0	3	0	1	0	2	0	4	0	3	2	2	3	5	2	2	4	4	novel		TCGA-BP-4782-01A-02D-1421-08	TCGA-BP-4782-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	468ba8c3-0141-4150-aeba-fa0a7e8e007e	bae9db07-4abb-48f6-a598-9477dc0795b4		T	119694026	T	T	119694026	3	4	267	1	0	0	0	0	1	0	0	0	4058	1136	40	4	2299	4	CUL4B	23	119694026	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-1421-08	616674	119694026	35576534	89	13810											
VHL	7428	hgsc.bcm.edu	37	chr3	10183871	10183871	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcatccacagctaccgaGgtacgggcccggcgcttagg	7	5	14	15	5	0	0	0	0	0	0	1	1	1	0	4	4	3	4	4	4	3	3	novel		TCGA-BP-4782-01A-02D-2099-10	TCGA-BP-4782-11A-01W-1476-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq	.	.	PacBio RS	ec9b5e3e-36a9-4533-a621-1b4864773544	ecaca359-731a-46a3-99dd-6e34d91ccb13		C	10183871	G	C	10183871	3	2	268	1	0	0	0	0	1	0	0	0	17161	1014	35	4	342	4	VHL	3	10183871	Missense_Mutation	SNP	G	TCGA-BP-4782-01A-02D-2099-10		10183871	187838559	1	13811											
CSMD2	114784	hgsc.bcm.edu	37	chr1	34191120	34191120	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacttccagggtgtcatagTtgacctcggttttgaatctg	7	15	11	8	1	2	2	1	2	1	0	4	2	3	2	2	2	1	3	2	2	3	6	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	34191120	T	C	34191120	3	2	269	1	0	0	0	0	1	0	0	0	3945	1725	60	3	8270	3	CSMD2	1	34191120	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		34191120	215059501	1	13812											
ST7L	54879	hgsc.bcm.edu	37	chr1	113084576	113084576	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgagatcatacttacagcTttagcaaaaatacccatgat	15	12	5	9	0	1	2	1	2	0	1	1	3	1	2	1	0	5	2	1	0	6	6	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		G	113084576	T	G	113084576	3	3	269	1	0	0	0	0	1	0	0	0	15231	1606	56	5	148	5	ST7L	1	113084576	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10	78893456	113084576	136166045	2	13813											
CASQ1	844	hgsc.bcm.edu;ucsc.edu	37	chr1	160167358	160167358	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactctgtctgtctcttctaGatcaaccctgaggaaactga	10	12	7	12	0	5	3	1	2	4	1	6	4	5	4	1	1	2	0	1	1	3	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	160167358	G	C	160167358	5	2	269	1	0	0	0	0	0	0	1	0	2680	956	33	4	808	4	CASQ1	1	160167358	Splice_Site	SNP	G	TCGA-BP-4787-01A-01D-1373-10	47082782	160167358	89083263	3	13814											
LMX1A	4009	hgsc.bcm.edu	37	chr1	165183037	165183037	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttgcagagactttcttcAtcatcacttttacctgaaag	11	14	6	10	0	4	2	3	1	1	1	4	4	4	2	1	0	2	1	1	0	2	5	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	165183037	A	C	165183037	3	2	269	1	0	0	0	0	1	0	0	0	8861	214	8	5	658	5	LMX1A	1	165183037	Missense_Mutation	SNP	A	TCGA-BP-4787-01A-01D-1373-10	5015679	165183037	84067584	4	13815											
GREB1	9687	hgsc.bcm.edu	37	chr2	11702633	11702633	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaggaagaagagggagaaGgagggctggaaacaaatggc	18	2	18	3	0	0	4	0	0	0	4	0	8	0	7	0	6	1	1	0	6	6	0	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	11702633	G	A	11702633	3	1	269	1	0	0	0	0	1	0	0	0	6760	1001	35	2	208	2	GREB1	2	11702633	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10		11702633	231496740	5	13816											
HEATR5B	54497	hgsc.bcm.edu	37	chr2	37283587	37283587	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgactttatactaaccggtGtttataagaaacatgaggaa	15	13	8	5	1	0	3	0	2	0	1	0	4	0	4	1	2	3	1	1	2	7	8	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	37283587	G	A	37283587	3	1	269	1	0	0	0	0	1	0	0	0	7032	1377	48	2	3904	2	HEATR5B	2	37283587	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	25580954	37283587	205915786	6	13817											
FBXO11	80204	hgsc.bcm.edu	37	chr2	48040362	48040364	+	In_Frame_Del	DEL	AAC	AAC	-																															tttttcactaatgcaaaattAacaacaatacctcgaccccc																								novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		-	48040364	AAC	-	48040362	7	5	269	1	0	1	0	1	0	0	0	0	5727	349	13	0	655	0	FBXO11	2	48040362	In_Frame_Del	DEL	AAC	TCGA-BP-4787-01A-01D-1373-10	10756775	48040362	195159011	7	13818											
SUCLG1	8802	hgsc.bcm.edu	37	chr2	84652567	84652567	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggttcccagctgtgcaGgagacatactgaccacaact	10	9	10	12	1	0	2	0	1	0	1	2	3	1	2	2	2	4	3	2	2	2	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	84652567	G	T	84652567	3	4	269	1	0	0	0	0	1	0	0	0	15365	1000	35	4	62	4	SUCLG1	2	84652567	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	36612205	84652567	158546806	8	13819											
CERKL	375298	hgsc.bcm.edu	37	chr2	182403925	182403925	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctggattatatccacCagtattattccttggatgaa	10	15	6	10	0	1	1	0	1	1	0	4	3	4	3	4	2	0	1	4	2	5	6	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	182403925	C	T	182403925	3	4	269	1	0	0	0	0	1	0	0	0	3268	594	21	2	174	2	CERKL	2	182403925	Missense_Mutation	SNP	C	TCGA-BP-4787-01A-01D-1373-10	97751358	182403925	60795448	9	13820											
NBEAL1	65065	hgsc.bcm.edu	37	chr2	204039911	204039911	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgggaactattgataagtTtcactatggtactcactatt	12	16	7	6	0	2	1	2	1	0	0	2	2	2	2	0	2	2	2	0	2	7	9	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	204039911	T	A	204039911	3	1	269	1	0	0	0	0	1	0	0	0	10188	1841	64	5	6436	5	NBEAL1	2	204039911	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10	21635986	204039911	39159462	10	13821											
FN1	2335	hgsc.bcm.edu;ucsc.edu	37	chr2	216295547	216295547	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctccgaccacataggaagtCccagcagcatgatcaaaaca	15	6	7	13	1	2	1	1	1	1	0	4	3	3	2	3	1	3	2	3	1	4	1	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	216295547	C	T	216295547	2	4	269	1	0	0	0	0	0	0	0	1	5962	842	30	2		2	FN1	2	216295547	Silent	SNP	C	TCGA-BP-4787-01A-01D-1373-10	12255636	216295547	26903826	11	13822											
DLEC1	9940	hgsc.bcm.edu;ucsc.edu	37	chr3	38158548	38158548	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatcctgcacaaggtggAgtgtactggctacgccctgg	8	9	14	10	1	0	1	0	1	0	1	1	3	1	2	2	4	3	3	2	4	3	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		G	38158548	A	G	38158548	3	3	269	1	0	0	0	0	1	0	0	0	4552	304	11	3	4380	3	DLEC1	3	38158548	Missense_Mutation	SNP	A	TCGA-BP-4787-01A-01D-1373-10		38158548	159863882	12	13823											
TTC33	23548	hgsc.bcm.edu	37	chr5	40716407	40716407	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacaaacagcaacaatcTcatcactttcaaagtcatag	16	9	4	12	0	4	0	4	0	1	0	5	0	4	0	0	0	4	2	0	0	5	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	40716407	T	A	40716407	3	1	269	1	0	0	0	0	1	0	0	0	16701	1551	54	5	163	5	TTC33	5	40716407	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		40716407	140198853	13	13824											
SLC27A6	28965	hgsc.bcm.edu;ucsc.edu	37	chr5	128368959	128368959	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttatgatcaaataatgttagGggaaataaaactttaagatt	18	14	7	2	0	1	2	1	1	0	1	1	3	1	3	0	2	1	1	0	2	8	7	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	128368959	G	C	128368959	3	2	269	1	0	0	0	0	1	0	0	0	14532	1232	43	4	1882	4	SLC27A6	5	128368959	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	87652552	128368959	52546301	14	13825											
NMUR2	56923	hgsc.bcm.edu	37	chr5	151784357	151784357	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaagggtagttgcgccaCatctcatagacctccagggg	12	7	12	10	1	1	2	1	0	1	2	3	2	2	2	3	3	1	2	3	3	4	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	151784357	C	T	151784357	3	4	269	1	0	0	0	0	1	0	0	0	10507	478	17	2	945	2	NMUR2	5	151784357	Missense_Mutation	SNP	C	TCGA-BP-4787-01A-01D-1373-10	23415398	151784357	29130903	15	13826											
EYS	346007	hgsc.bcm.edu;ucsc.edu	37	chr6	64791859	64791859	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaagggcagttctaaatagGaattcccattgaaagatgga	17	9	10	5	0	1	2	0	1	1	1	2	4	2	4	1	3	0	2	1	3	7	5	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	64791859	G	T	64791859	3	4	269	1	0	0	0	0	1	0	0	0	5332	1174	41	4	3021	4	EYS	6	64791859	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10		64791859	106323208	16	13827											
NPY	4852	hgsc.bcm.edu;ucsc.edu	37	chr7	24329150	24329150	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccagcccagagacactgaTttcagacctcttgatgagag	12	9	9	11	0	2	5	1	3	1	3	3	7	3	5	3	0	1	0	3	0	0	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	24329150	T	C	24329150	3	2	269	1	0	0	0	0	1	0	0	0	10607	1493	52	3	227	3	NPY	7	24329150	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		24329150	134809513	17	13828											
FGL2	10875	hgsc.bcm.edu	37	chr7	76828961	76828961	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggggcactcccctgcctcTtcgcatttccctctgctttc	3	14	7	17	1	2	0	0	0	2	0	6	0	4	0	4	2	2	3	4	2	1	4	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	76828961	T	C	76828961	2	2	269	1	0	0	0	0	0	0	0	1	5873	1606	56	3		3	FGL2	7	76828961	Silent	SNP	T	TCGA-BP-4787-01A-01D-1373-10	52499811	76828961	82309702	18	13829											
FBXL13	222235	hgsc.bcm.edu;ucsc.edu	37	chr7	102518015	102518015	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgttcacaatttcgtaAactcaagtagtttaaattag	16	14	5	6	1	2	0	2	0	0	0	3	0	2	0	0	0	1	4	0	0	9	7	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	102518015	A	C	102518015	3	2	269	1	0	0	0	0	1	0	0	0	5709	11	1	5	693	5	FBXL13	7	102518015	Missense_Mutation	SNP	A	TCGA-BP-4787-01A-01D-1373-10	25689054	102518015	56620648	19	13830											
PTPRZ1	5803	hgsc.bcm.edu	37	chr7	121651295	121651295	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatgcttttaccccatcctCcagacaacaggatttggtct	9	13	6	13	0	2	1	1	0	1	1	4	2	4	2	4	2	3	1	4	2	2	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	121651295	C	A	121651295	3	1	269	1	0	0	0	0	1	0	0	0	12816	855	30	4	2241	4	PTPRZ1	7	121651295	Missense_Mutation	SNP	C	TCGA-BP-4787-01A-01D-1373-10	19133280	121651295	37487368	20	13831											
VPS13B	157680	hgsc.bcm.edu	37	chr8	100155297	100155297	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccttgttataggtcctcttGattttcgtttggatagcagt	6	18	10	7	1	1	1	0	1	1	0	3	2	2	2	2	2	1	3	2	2	3	8	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	100155297	G	A	100155297	3	1	269	1	0	0	0	0	1	0	0	0	17189	1290	45	2	1835	2	VPS13B	8	100155297	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10		100155297	46208725	21	13832											
IFNB1	3456	hgsc.bcm.edu;ucsc.edu	37	chr9	21077494	21077494	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcttctttctccagtttTtcttccaggactgtcttcag	7	18	5	11	0	6	0	1	0	5	0	8	1	7	1	2	1	0	1	2	1	1	6	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	21077494	T	A	21077494	3	1	269	1	0	0	0	0	1	0	0	0	7546	1838	64	5	192	5	IFNB1	9	21077494	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		21077494	120135937	22	13833											
C9orf3	84909	hgsc.bcm.edu	37	chr9	97522820	97522820	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatggtacaaaactaaacCtgaagggcgatcggttacat	15	9	10	7	2	0	1	0	1	0	0	1	3	0	1	1	3	4	2	1	3	8	4	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	97522820	C	A	97522820	3	1	269	1	0	0	0	0	1	0	0	0	2477	681	24	4	757	4	C9orf3	9	97522820	Missense_Mutation	SNP	C	TCGA-BP-4787-01A-01D-1373-10	76445326	97522820	43690611	23	13834											
BAT2L1	0	hgsc.bcm.edu	37	chr9	134308050	134308050	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgggaaagttgctgcagcCcggcgcatgccaccgcctgc	6	7	13	15	3	0	0	0	0	0	0	0	1	0	1	4	2	5	4	4	2	1	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		G	134308050	C	G	134308050	2	3	269	1	0	0	0	0	0	0	0	1	1320	610	22	4		4	BAT2L1	9	134308050	Silent	SNP	C	TCGA-BP-4787-01A-01D-1373-10	36785230	134308050	6905381	24	13835											
PNPLA7	375775	hgsc.bcm.edu	37	chr9	140416146	140416146	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagccagaaaggtcaccCtctgcagccgcaccatgatg	11	5	11	14	1	2	3	1	1	1	2	2	3	2	3	4	1	3	3	4	1	1	0	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	140416146	C	A	140416146	3	1	269	1	0	0	0	0	1	0	0	0	12170	681	24	4	3233	4	PNPLA7	9	140416146	Missense_Mutation	SNP	C	TCGA-BP-4787-01A-01D-1373-10	6108096	140416146	797285	25	13836											
CUBN	8029	hgsc.bcm.edu;ucsc.edu	37	chr10	16873255	16873255	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgcaaatgtcttaccagaGggtgatgaagtccagatgat	13	10	12	6	0	1	5	0	3	1	2	2	5	2	5	2	1	2	1	2	1	3	1	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	16873255	G	T	16873255	2	4	269	1	0	0	0	0	0	0	0	1	4051	987	35	4		4	CUBN	10	16873255	Silent	SNP	G	TCGA-BP-4787-01A-01D-1373-10		16873255	118661492	26	13837											
GDF10	2662	hgsc.bcm.edu;ucsc.edu	37	chr10	48428675	48428675	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcacatgctcccgcgcagTagtaggcatcaaaagatttc	12	9	8	12	2	2	1	2	0	0	1	4	1	3	1	1	1	1	5	1	1	4	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	48428675	T	C	48428675	3	2	269	1	0	0	0	0	1	0	0	0	6311	1638	57	3	233	3	GDF10	10	48428675	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10	31555420	48428675	87106072	27	13838											
ARFGAP2	84364	hgsc.bcm.edu	37	chr11	47195002	47195002	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctttgggtgaggtgccAagcaggtctgtgttggggcc	5	10	19	7	0	1	1	0	1	1	0	1	2	1	1	2	6	2	3	2	6	1	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	47195002	A	C	47195002	2	2	269	1	0	0	0	0	0	0	0	1	850	117	5	5		5	ARFGAP2	11	47195002	Silent	SNP	A	TCGA-BP-4787-01A-01D-1373-10		47195002	87811514	28	13839											
OR10AG1	282770	hgsc.bcm.edu;ucsc.edu	37	chr11	55735474	55735474	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttccgcaaaagggcaaaaGgaaaatttggcatgtttccc	14	9	10	8	1	0	0	0	0	0	0	2	1	2	1	2	3	0	5	2	3	6	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	55735474	G	A	55735474	3	1	269	1	0	0	0	0	1	0	0	0	10897	1000	35	2	442	2	OR10AG1	11	55735474	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	8540472	55735474	79271042	29	13840											
RIN1	9610	hgsc.bcm.edu	37	chr11	66100155	66100155	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtggcaatcgaggcttcTgggggcacggccagggtctt	6	8	18	9	2	2	0	0	0	2	0	3	1	2	0	1	7	0	3	1	7	1	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	66100155	T	C	66100155	2	2	269	1	0	0	0	0	0	0	0	1	13373	1567	55	3		3	RIN1	11	66100155	Silent	SNP	T	TCGA-BP-4787-01A-01D-1373-10	10364681	66100155	68906361	30	13841											
SHANK2	22941	hgsc.bcm.edu;ucsc.edu	37	chr11	70349010	70349010	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaccacctgcctgtggccGactttgacaacattctcatt	8	13	6	14	1	2	1	2	1	1	0	3	2	2	1	4	1	2	0	4	1	1	4	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	70349010	G	A	70349010	2	1	269	1	0	0	0	0	0	0	0	1	14267	1045	37	1		1	SHANK2	11	70349010	Silent	SNP	G	TCGA-BP-4787-01A-01D-1373-10	4248855	70349010	64657506	31	13842											
MPZL3	196264	hgsc.bcm.edu;ucsc.edu	37	chr11	118106270	118106270	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcacaaagacaaggatggaAagaagggccacagaggaaag	19	1	15	6	0	0	3	0	0	0	3	0	6	0	6	1	5	0	1	1	5	5	0	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		G	118106270	A	G	118106270	2	3	269	1	0	0	0	0	0	0	0	1	9751	1	1	3		3	MPZL3	11	118106270	Silent	SNP	A	TCGA-BP-4787-01A-01D-1373-10	47757260	118106270	16900246	32	13843											
ARCN1	372	hgsc.bcm.edu;ucsc.edu	37	chr11	118454621	118454621	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagggcaaaaaagcaccagGatttggcggatttggcagct	13	7	13	8	1	0	0	0	0	0	0	0	2	0	2	1	5	2	4	1	5	3	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	118454621	G	T	118454621	3	4	269	1	0	0	0	0	1	0	0	0	842	1174	41	4	559	4	ARCN1	11	118454621	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	348351	118454621	16551895	33	13844											
KDM5A	5927	hgsc.bcm.edu;ucsc.edu	37	chr12	416170	416170	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtctgtttcttcatcaTcatagtccattgtttgtcga	8	17	7	9	1	5	1	3	0	2	1	7	2	6	1	1	0	0	2	1	0	1	5	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	416170	T	A	416170	3	1	269	1	0	0	0	0	1	0	0	0	8133	1435	50	5	1076	5	KDM5A	12	416170	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		416170	133435725	34	13845											
C12orf60	144608	hgsc.bcm.edu	37	chr12	14976418	14976419	+	Frame_Shift_Del	DEL	TA	TA	-																															ccaggttcttccaaaaccacTatgatagacaccttgaaaaa																								rs139293175	bycluster;by1000genomes	TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		-	14976419	TA	-	14976418	7	5	269	1	0	1	0	1	0	0	0	0	1703	1509	53	0	551	0	C12orf60	12	14976418	Frame_Shift_Del	DEL	TA	TCGA-BP-4787-01A-01D-1373-10	14560248	14976418	118875477	35	13846											
ST8SIA1	6489	hgsc.bcm.edu;ucsc.edu	37	chr12	22440140	22440140	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagtataaaaactccccGtcataccacatgctcttccc	13	10	4	14	1	2	1	1	1	1	0	4	1	4	1	4	0	3	2	4	0	6	4	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	22440140	G	A	22440140	2	1	269	1	0	0	0	0	0	0	0	1	15232	1136	40	1		1	ST8SIA1	12	22440140	Silent	SNP	G	TCGA-BP-4787-01A-01D-1373-10	7463722	22440140	111411755	36	13847											
ACSS3	79611	hgsc.bcm.edu	37	chr12	81503485	81503485	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagaagttctggagcaggTaatatcataaactttatata	17	13	7	4	0	2	1	1	0	1	1	2	2	2	2	0	2	2	3	0	2	10	9	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	81503485	T	C	81503485	5	2	269	1	0	0	0	0	0	0	1	0	190	1652	57	3	464	3	ACSS3	12	81503485	Splice_Site	SNP	T	TCGA-BP-4787-01A-01D-1373-10	59063345	81503485	52348410	37	13848											
SLC24A6	80024	hgsc.bcm.edu	37	chr12	113737765	113737765	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggacccacaccagcagTccgtctggctccagctgtgg	7	6	12	16	1	1	0	0	0	1	0	3	1	3	1	5	3	2	3	5	3	0	0	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		G	113737765	T	G	113737765	2	3	269	1	0	0	0	0	0	0	0	1	14472	1654	58	5		5	SLC24A6	12	113737765	Silent	SNP	T	TCGA-BP-4787-01A-01D-1373-10	32234280	113737765	20114130	38	13849											
FRMD6	122786	hgsc.bcm.edu	37	chr14	52174837	52174837	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactacatcctgaagcacatTccaaacatgcacaaagatca	17	7	5	12	0	1	2	1	1	0	1	3	3	3	2	2	0	4	2	2	0	4	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	52174837	T	A	52174837	2	1	269	1	0	0	0	0	0	0	0	1	6054	1771	62	5		5	FRMD6	14	52174837	Silent	SNP	T	TCGA-BP-4787-01A-01D-1373-10		52174837	55174703	39	13850											
ZWILCH	55055	hgsc.bcm.edu	37	chr15	66824728	66824728	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaactaaagaaagattatatCagttttttcataggtaagta	18	14	6	3	0	2	2	2	0	0	2	2	2	2	2	0	1	1	3	0	1	9	9	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	66824728	C	T	66824728	2	4	269	1	0	0	0	0	0	0	0	1	18247	816	29	2		2	ZWILCH	15	66824728	Silent	SNP	C	TCGA-BP-4787-01A-01D-1373-10		66824728	35706664	40	13851											
UACA	55075	hgsc.bcm.edu	37	chr15	70963410	70963410	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatacatctgaccttgttTaagaagcatatcttcttttc	11	17	4	9	0	3	2	0	1	3	1	4	2	3	2	1	0	2	2	1	0	5	9	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	70963410	T	C	70963410	3	2	269	1	0	0	0	0	1	0	0	0	16823	1763	61	3	3081	3	UACA	15	70963410	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10	4138682	70963410	31567982	41	13852											
GRIN2A	2903	hgsc.bcm.edu;ucsc.edu	37	chr16	9916232	9916232	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccgtgcttccattaGgcactgtcccaaatcgaaaa	10	12	6	13	2	1	0	0	0	1	0	6	1	4	0	3	1	1	2	3	1	4	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	9916232	G	A	9916232	3	1	269	1	0	0	0	0	1	0	0	0	6779	1000	35	2	2353	2	GRIN2A	16	9916232	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10		9916232	80438521	42	13853											
CDH8	1006	hgsc.bcm.edu;ucsc.edu	37	chr16	61935249	61935249	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtatactcagccttttcCtcccggtcaagtctttttat	7	16	7	11	1	3	0	2	0	1	0	5	0	5	0	3	2	2	1	3	2	4	7	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		T	61935249	C	T	61935249	2	4	269	1	0	0	0	0	0	0	0	1	3116	680	24	2		2	CDH8	16	61935249	Silent	SNP	C	TCGA-BP-4787-01A-01D-1373-10	52019017	61935249	28419504	43	13854											
CDH13	1012	hgsc.bcm.edu;ucsc.edu	37	chr16	83816959	83816959	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccacccatgacgaatatCacagatctcagggtacaagt	16	7	7	11	1	2	2	2	1	1	1	3	3	2	2	2	1	2	1	2	1	5	2	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	83816959	C	A	83816959	2	1	269	1	0	0	0	0	0	0	0	1	3099	816	29	4		4	CDH13	16	83816959	Silent	SNP	C	TCGA-BP-4787-01A-01D-1373-10	21881710	83816959	6537794	44	13855											
ACSF2	80221	hgsc.bcm.edu	37	chr17	48549820	48549820	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatggaggcagggacgcTggcaaagctgaacacgcccg	12	3	15	11	3	0	1	0	1	0	0	0	4	0	3	1	4	3	4	1	4	3	0	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	48549820	T	C	48549820	3	2	269	1	0	0	0	0	1	0	0	0	175	1580	55	3	1401	3	ACSF2	17	48549820	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		48549820	32645390	45	13856											
SMURF2	64750	hgsc.bcm.edu	37	chr17	62551963	62551963	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccacactaaactgttgtgaaGatccggatctactaactcca	13	10	6	12	1	1	2	0	1	1	1	3	3	3	3	3	1	3	1	3	1	5	4	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	62551963	G	C	62551963	3	2	269	1	0	0	0	0	1	0	0	0	14822	942	33	4	685	4	SMURF2	17	62551963	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	14002143	62551963	18643247	46	13857											
DSC2	1824	hgsc.bcm.edu	37	chr18	28647999	28648000	+	Frame_Shift_Ins	INS	-	-	TC																															ctcatctcttcatgcatgctINStctgctagtgtcctaaattt																								novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		TC	28648000	-	TC	28647999	7	5	269	1	0	1	1	0	0	0	0	0	4766	1606	56	0	21	0	DSC2	18	28647999	Frame_Shift_Ins	INS	-	TCGA-BP-4787-01A-01D-1373-10		28647999	49429249	47	13858											
CYP4F11	57834	hgsc.bcm.edu	37	chr19	16024651	16024651	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggtcggcaggatgcggAagtgcagcagggtgagcgcc	7	6	20	8	3	0	1	0	1	0	0	1	3	0	3	1	5	4	3	1	5	1	0	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	16024651	A	C	16024651	3	2	269	1	0	0	0	0	1	0	0	0	4186	246	9	5	112	5	CYP4F11	19	16024651	Missense_Mutation	SNP	A	TCGA-BP-4787-01A-01D-1373-10		16024651	43104332	48	13859											
CEACAM1	634	hgsc.bcm.edu;ucsc.edu	37	chr19	43023295	43023295	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggagattccagtgtcatTtgtggagcaggtcaggttca	9	12	14	6	0	3	1	3	0	0	1	4	4	4	2	1	4	1	2	1	4	0	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	43023295	T	A	43023295	3	1	269	1	0	0	0	0	1	0	0	0	3187	1841	64	5	646	5	CEACAM1	19	43023295	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10	26998644	43023295	16105688	49	13860											
ZC3H7B	23264	hgsc.bcm.edu;ucsc.edu	37	chr22	41721776	41721776	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctgagggcaatgatctgTtccgggagaaggactataag	11	10	14	6	1	1	3	0	2	1	1	2	5	2	4	1	3	1	3	1	3	4	4	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		A	41721776	T	A	41721776	3	1	269	1	0	0	0	0	1	0	0	0	17572	1725	60	5	149	5	ZC3H7B	22	41721776	Missense_Mutation	SNP	T	TCGA-BP-4787-01A-01D-1373-10		41721776	9582790	50	13861											
AMOT	154796	hgsc.bcm.edu	37	chrX	112022297	112022298	+	In_Frame_Ins	INS	-	-	AGG																															ggaccggtagctggacttgcINSaggaacctcagcctgagcca																								novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		AGG	112022298	-	AGG	112022297	7	5	269	1	0	1	1	0	0	0	0	0	582	710	25	0	177	0	AMOT	23	112022297	In_Frame_Ins	INS	-	TCGA-BP-4787-01A-01D-1373-10		112022297	43248263	51	13862											
GABRA3	2556	hgsc.bcm.edu;ucsc.edu	37	chrX	151336969	151336969	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtccttggccaggttgatggGataggtggtccccacgatgt	6	11	15	9	1	0	1	0	1	0	0	2	3	2	2	4	5	0	1	4	5	1	3	novel		TCGA-BP-4787-01A-01D-1373-10	TCGA-BP-4787-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9df0698d-bfe4-4afc-aaab-720a9471b04b	eef34c03-44b0-4812-ae4d-6496b1ccd643		C	151336969	G	C	151336969	3	2	269	1	0	0	0	0	1	0	0	0	6162	1174	41	4	272	4	GABRA3	23	151336969	Missense_Mutation	SNP	G	TCGA-BP-4787-01A-01D-1373-10	39314672	151336969	3933591	52	13863											
EPHA8	2046	hgsc.bcm.edu	37	chr1	22902954	22902954	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcggaccgcgacctgggggCcagcacacaagaaagccagt	11	3	14	13	3	0	1	0	0	0	1	1	3	0	2	4	3	2	1	4	3	2	0	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	22902954	C	T	22902954	3	4	270	1	0	0	0	0	1	0	0	0	5173	739	26	2	414	2	EPHA8	1	22902954	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10		22902954	226347667	1	13864											
ZFYVE9	9372	hgsc.bcm.edu	37	chr1	52703736	52703736	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaacaaatggatccatTgaatagaccgaaaacagagg	20	5	10	6	1	0	4	0	1	0	3	1	7	1	5	2	2	2	0	2	2	6	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	52703736	T	A	52703736	4	1	270	1	0	0	0	0	0	1	0	0	17670	1821	63	5	653	5	ZFYVE9	1	52703736	Nonsense_Mutation	SNP	T	TCGA-BP-4789-01A-01D-1373-10	29800782	52703736	196546885	2	13865											
FAM5B	57795	hgsc.bcm.edu;ucsc.edu	37	chr1	177249970	177249970	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaagcgcatgctgctcaCcctgaagagcaacaagtaca	14	5	11	11	1	1	2	1	1	0	1	1	4	1	3	1	1	6	5	1	1	5	1	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	177249970	C	T	177249970	3	4	270	1	0	0	0	0	1	0	0	0	5593	507	18	2	1684	2	FAM5B	1	177249970	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10	124546234	177249970	72000651	3	13866											
PIK3C2B	5287	hgsc.bcm.edu	37	chr1	204411750	204411750	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctcctccaggcccgtGcggaggattccctggaaaga	8	8	11	14	2	1	1	1	0	0	1	4	4	4	4	5	4	1	0	5	4	1	2	rs147527449	alternate_allele	TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	204411750	G	C	204411750	2	2	270	1	0	0	0	0	0	0	0	1	11910	1306	46	4		4	PIK3C2B	1	204411750	Silent	SNP	G	TCGA-BP-4789-01A-01D-1373-10	27161780	204411750	44838871	4	13867											
ALK	238	hgsc.bcm.edu	37	chr2	29450494	29450494	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgatgaaggaaaccccatCttccccatccatttcggggt	10	10	8	13	1	1	2	0	2	1	0	4	3	3	3	5	3	1	0	5	3	2	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	29450494	C	T	29450494	3	4	270	1	0	0	0	0	1	0	0	0	525	913	32	2	2054	2	ALK	2	29450494	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10		29450494	213748879	5	13868											
SAP130	79595	hgsc.bcm.edu	37	chr2	128775373	128775373	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgacaacatctgcacctGtggatagggccttaccacaa	11	9	9	12	1	1	0	0	0	1	0	2	2	1	1	3	2	3	1	3	2	4	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	128775373	G	A	128775373	4	1	270	1	0	0	0	0	0	1	0	0	13833	1386	48	2	3020	2	SAP130	2	128775373	Nonsense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10	99324879	128775373	114424000	6	13869											
PASK	23178	hgsc.bcm.edu	37	chr2	242082263	242082263	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcattaccagagagcgctGtcctgctctggcagagtctg	7	10	13	11	1	3	2	1	0	2	2	4	3	4	2	2	2	3	3	2	2	1	1	rs144572631		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	242082263	G	A	242082263	3	1	270	1	0	0	0	0	1	0	0	0	11472	1377	48	2	3854	2	PASK	2	242082263	Missense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10	113306890	242082263	1117110	7	13870											
MED12L	116931	hgsc.bcm.edu	37	chr3	150845660	150845660	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttgcatatttagctaaaTattctgtgccaatggttcga	10	18	7	6	1	1	0	0	0	1	0	2	1	1	0	1	1	3	3	1	1	6	9	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	150845660	T	C	150845660	3	2	270	1	0	0	0	0	1	0	0	0	9429	1406	49	3	459	3	MED12L	3	150845660	Missense_Mutation	SNP	T	TCGA-BP-4789-01A-01D-1373-10		150845660	47176770	8	13871											
ATP11B	23200	hgsc.bcm.edu	37	chr3	182563289	182563289	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttcgtggagccagattaAaaaacacaaaagaaattttt	17	11	7	6	1	0	2	0	0	0	2	1	3	0	3	1	1	3	1	1	1	6	4	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	182563289	A	G	182563289	3	3	270	1	0	0	0	0	1	0	0	0	1120	15	1	3	782	3	ATP11B	3	182563289	Missense_Mutation	SNP	A	TCGA-BP-4789-01A-01D-1373-10	31717629	182563289	15459141	9	13872											
AGXT2L1	64850	hgsc.bcm.edu	37	chr4	109677614	109677614	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtggcctctgaactgccGagccaggcgtaaggctaagt	8	8	14	11	2	1	1	0	1	1	0	1	2	1	1	3	4	3	2	3	4	3	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	109677614	G	A	109677614	3	1	270	1	0	0	0	0	1	0	0	0	406	1057	37	1	1169	1	AGXT2L1	4	109677614	Missense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10		109677614	81476662	10	13873											
TRIO	7204	hgsc.bcm.edu;ucsc.edu	37	chr5	14364826	14364826	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggacctgctggagtttctTcatgaaaaacagcaggaatt	13	10	10	8	0	2	1	1	1	1	0	2	4	2	4	1	3	3	3	1	3	3	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	14364826	T	A	14364826	2	1	270	1	0	0	0	0	0	0	0	1	16551	1770	62	5		5	TRIO	5	14364826	Silent	SNP	T	TCGA-BP-4789-01A-01D-1373-10		14364826	166550434	11	13874											
TDRD6	221400	hgsc.bcm.edu	37	chr6	46658231	46658231	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccctggctatttctggtGtcagctgaccaggaacatac	11	10	9	11	0	2	1	1	1	1	0	2	2	2	2	2	3	4	2	2	3	4	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	46658231	G	C	46658231	3	2	270	1	0	0	0	0	1	0	0	0	15733	1377	48	4	2368	4	TDRD6	6	46658231	Missense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10		46658231	124456836	12	13875											
INTS1	26173	hgsc.bcm.edu	37	chr7	1523682	1523682	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctctgccgcatgcgcCtcacgtagcgtgagaagatg	7	9	12	13	4	2	2	1	1	1	2	2	3	2	2	3	0	4	3	3	0	2	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	1523682	C	G	1523682	3	3	270	1	0	0	0	0	1	0	0	0	7775	681	24	4	3282	4	INTS1	7	1523682	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10		1523682	157614981	13	13876											
FZD1	8321	hgsc.bcm.edu	37	chr7	90895381	90895381	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggcacgcactgtggcgcagGgcaccaagaaggagggctgc	9	3	18	11	2	0	1	0	0	0	1	0	2	0	2	1	5	1	5	1	5	2	0	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	90895381	G	C	90895381	3	2	270	1	0	0	0	0	1	0	0	0	6128	1232	43	4	1188	4	FZD1	7	90895381	Missense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10	89371699	90895381	68243282	14	13877											
MOGAT3	346606	hgsc.bcm.edu	37	chr7	100844112	100844112	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttggaagtggttgggggCtgcagggttgtggcaactcc	5	12	18	6	0	0	0	0	0	0	0	1	1	1	1	1	6	2	6	1	6	2	4	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	100844112	C	T	100844112	2	4	270	1	0	0	0	0	0	0	0	1	9696	796	28	2		2	MOGAT3	7	100844112	Silent	SNP	C	TCGA-BP-4789-01A-01D-1373-10	9948731	100844112	58294551	15	13878											
TAS2R16	50833	hgsc.bcm.edu;ucsc.edu	37	chr7	122634964	122634964	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctataatggtgatgagtatgGttagaaagtaagaggtaaac	16	11	12	2	0	0	4	0	2	0	2	0	4	0	4	0	3	1	4	0	3	8	6	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	122634964	G	T	122634964	3	4	270	1	0	0	0	0	1	0	0	0	15568	1261	44	4	154	4	TAS2R16	7	122634964	Missense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10	21790852	122634964	36503699	16	13879											
KIAA0196	9897	hgsc.bcm.edu	37	chr8	126036907	126036907	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaaattaggcacatgtgcTtcagcaacctgaaaaattaa	17	10	7	7	0	1	2	1	2	0	0	1	2	1	2	1	1	3	3	1	1	6	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	126036907	T	G	126036907	3	3	270	1	0	0	0	0	1	0	0	0	8161	1606	56	5	51	5	KIAA0196	8	126036907	Missense_Mutation	SNP	T	TCGA-BP-4789-01A-01D-1373-10		126036907	20327115	17	13880											
SLC3A2	6520	hgsc.bcm.edu;ucsc.edu	37	chr11	62650393	62650393	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttaggcatccgtgtcatTctggaccttactcccaacta	8	14	7	12	1	2	0	1	0	1	0	4	1	4	1	3	2	2	2	3	2	4	5	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	62650393	T	C	62650393	2	2	270	1	0	0	0	0	0	0	0	1	14629	1771	62	3		3	SLC3A2	11	62650393	Silent	SNP	T	TCGA-BP-4789-01A-01D-1373-10		62650393	72356123	18	13881											
LGALS12	85329	hgsc.bcm.edu	37	chr11	63276054	63276054	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtcacgacgatttttggAggcctgcatgcaggcaagat	10	11	12	8	2	1	1	1	0	0	1	1	4	1	2	1	3	2	3	1	3	2	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	63276054	A	G	63276054	2	3	270	1	0	0	0	0	0	0	0	1	8739	291	11	3		3	LGALS12	11	63276054	Silent	SNP	A	TCGA-BP-4789-01A-01D-1373-10	625661	63276054	71730462	19	13882											
P4HA3	283208	hgsc.bcm.edu	37	chr11	73978334	73978334	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggtctgcggaattcctGtccatactcatgtatccact	8	12	9	12	1	2	0	1	0	1	0	5	1	5	1	3	2	2	2	3	2	3	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	73978334	G	A	73978334	4	1	270	1	0	0	0	0	0	1	0	0	11358	1386	48	2	44	2	P4HA3	11	73978334	Nonsense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10	10702280	73978334	61028182	20	13883											
NAV3	89795	hgsc.bcm.edu	37	chr12	78400503	78400503	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctagtcaatgcccggacTgctttacgccccccgcagcc	8	7	9	17	3	1	0	1	0	0	0	1	1	1	1	5	1	5	3	5	1	4	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	78400503	T	C	78400503	2	2	270	1	0	0	0	0	0	0	0	1	10185	1567	55	3		3	NAV3	12	78400503	Silent	SNP	T	TCGA-BP-4789-01A-01D-1373-10		78400503	55451392	21	13884											
HSP90B1	7184	hgsc.bcm.edu	37	chr12	104328066	104328066	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggggaacgacaattacGtgagtatgaccaattcctta	13	9	11	8	3	0	2	0	2	0	0	1	5	1	4	2	3	2	1	2	3	6	4	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	104328066	G	A	104328066	5	1	270	1	0	0	0	0	0	0	1	0	7403	1159	40	1	762	1	HSP90B1	12	104328066	Splice_Site	SNP	G	TCGA-BP-4789-01A-01D-1373-10	25927563	104328066	29523829	22	13885											
HOMEZ	57594	hgsc.bcm.edu	37	chr14	23744912	23744912	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatctagacaaactaccaCctcagctggctgaggtaatc	12	10	7	12	0	3	2	2	1	1	1	4	2	3	2	2	2	3	3	2	2	4	4	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	23744912	C	G	23744912	3	3	270	1	0	0	0	0	1	0	0	0	7281	507	18	4	131	4	HOMEZ	14	23744912	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10		23744912	83604628	23	13886											
MTHFD1	4522	hgsc.bcm.edu	37	chr14	64886600	64886600	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttaaaggggagtggatcaaAcctggggcaatagtcatcga	13	8	14	6	1	2	0	2	0	0	0	3	3	2	2	1	5	1	2	1	5	5	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	64886600	A	G	64886600	2	3	270	1	0	0	0	0	0	0	0	1	9927	40	2	3		3	MTHFD1	14	64886600	Silent	SNP	A	TCGA-BP-4789-01A-01D-1373-10	41141688	64886600	42462940	24	13887											
RIN3	79890	hgsc.bcm.edu	37	chr14	93118739	93118739	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctcacagcatgccagagCtgcccaggacagccaaacaa	14	4	8	15	0	1	1	1	0	0	1	2	2	2	2	4	1	6	2	4	1	2	0	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	93118739	C	G	93118739	3	3	270	1	0	0	0	0	1	0	0	0	13375	796	28	4	1367	4	RIN3	14	93118739	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10	28232139	93118739	14230801	25	13888											
AP1G1	164	hgsc.bcm.edu	37	chr16	71803568	71803568	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgggcttcgctcacacatTtctgtgaggaggactacaga	9	11	11	10	1	3	2	1	1	2	1	4	4	3	4	0	3	1	2	0	3	1	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	71803568	T	G	71803568	3	3	270	1	0	0	0	0	1	0	0	0	732	1838	64	5	1953	5	AP1G1	16	71803568	Missense_Mutation	SNP	T	TCGA-BP-4789-01A-01D-1373-10		71803568	18551185	26	13889											
NLRP1	22861	hgsc.bcm.edu	37	chr17	5461895	5461895	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggctgcagcagcagctgCagggacgggacccactgcat	8	6	15	12	1	0	0	0	0	0	0	0	2	0	2	1	3	6	7	1	3	0	0	rs61753137	bycluster;byfrequency;by1000genomes	TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	5461895	C	A	5461895	2	1	270	1	0	0	0	0	0	0	0	1	10471	697	25	4		4	NLRP1	17	5461895	Silent	SNP	C	TCGA-BP-4789-01A-01D-1373-10		5461895	75733315	27	13890											
MFAP4	4239	hgsc.bcm.edu	37	chr17	19289709	19289709	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatgaggtacacgccgtCtgactggtagccctgggcat	8	9	14	10	2	1	3	0	2	1	1	1	3	1	3	2	3	2	4	2	3	3	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	19289709	C	A	19289709	3	1	270	1	0	0	0	0	1	0	0	0	9517	913	32	4	629	4	MFAP4	17	19289709	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10	13827814	19289709	61905501	28	13891											
CYTSB	0	hgsc.bcm.edu;ucsc.edu	37	chr17	20108593	20108593	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacaggaattgacagctGaaaatgagaagctggtggat	14	9	14	4	0	0	3	0	3	0	1	0	6	0	5	0	4	3	3	0	4	5	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	20108593	G	T	20108593	4	4	270	1	0	0	0	0	0	1	0	0	4210	1291	45	4	1285	4	CYTSB	17	20108593	Nonsense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10	818884	20108593	61086617	29	13892											
AP1M1	8907	hgsc.bcm.edu	37	chr19	16314301	16314301	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaactaccgtggcgacgTggacatgtcagaggtggagc	9	6	16	10	4	1	1	1	0	0	1	1	5	1	4	2	5	3	0	2	5	2	1	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		C	16314301	T	C	16314301	3	2	270	1	0	0	0	0	1	0	0	0	734	1696	59	3	80	3	AP1M1	19	16314301	Missense_Mutation	SNP	T	TCGA-BP-4789-01A-01D-1373-10		16314301	42814682	30	13893											
KLK13	26085	hgsc.bcm.edu	37	chr19	51561827	51561829	+	In_Frame_Del	DEL	CGG	CGG	-																															tttgccaccctcttttgtgcCggcacacaacatgttgtcag																								novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	CGG	CGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		-	51561829	CGG	-	51561827	7	5	270	1	0	1	0	1	0	0	0	0	8401	652	23	0	228	0	KLK13	19	51561827	In_Frame_Del	DEL	CGG	TCGA-BP-4789-01A-01D-1373-10	35247526	51561827	7567156	31	13894											
MX1	4599	hgsc.bcm.edu	37	chr21	42824741	42824741	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggctttccagtccagctCggcaacagactcttccatgg	7	10	11	13	1	1	1	0	0	1	1	5	1	4	1	3	4	2	3	3	4	1	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		T	42824741	C	T	42824741	3	4	270	1	0	0	0	0	1	0	0	0	9997	893	31	1	1749	1	MX1	21	42824741	Missense_Mutation	SNP	C	TCGA-BP-4789-01A-01D-1373-10		42824741	5305154	32	13895											
FIGF	2277	hgsc.bcm.edu;ucsc.edu	37	chrX	15376270	15376270	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactggccacctccacgcacGtttctctagggctgcactga	7	9	9	16	2	1	1	0	1	1	0	3	1	2	1	3	2	1	4	3	2	1	2	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		A	15376270	G	A	15376270	3	1	270	1	0	0	0	0	1	0	0	0	5889	1145	40	1	737	1	FIGF	23	15376270	Missense_Mutation	SNP	G	TCGA-BP-4789-01A-01D-1373-10		15376270	139894290	33	13896											
CCNB3	85417	hgsc.bcm.edu	37	chrX	50090718	50090718	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccaggagaaggcttccAagctagctgctgcctcctta	9	10	10	12	0	0	1	0	0	0	1	3	2	3	1	4	2	4	4	4	2	4	3	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	50090718	A	G	50090718	3	3	270	1	0	0	0	0	1	0	0	0	2914	131	5	3	3938	3	CCNB3	23	50090718	Missense_Mutation	SNP	A	TCGA-BP-4789-01A-01D-1373-10	34714448	50090718	105179842	34	13897											
ZDHHC15	158866	hgsc.bcm.edu	37	chrX	74649805	74649805	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggcagtgatgatccatttTtaacacacacctacgaaggg	13	9	10	9	1	0	2	0	2	0	0	1	3	1	2	2	2	2	1	2	2	3	4	novel		TCGA-BP-4789-01A-01D-1373-10	TCGA-BP-4789-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6aac8b4c-11ab-41ec-81b1-cec7bc36fbd8	5230b040-78d1-4c29-be26-138b9c91eb48		G	74649805	T	G	74649805	3	3	270	1	0	0	0	0	1	0	0	0	17604	1850	64	5	577	5	ZDHHC15	23	74649805	Missense_Mutation	SNP	T	TCGA-BP-4789-01A-01D-1373-10	24559087	74649805	80620755	35	13898											
VHL	7428	hgsc.bcm.edu	37	chr3	10183817	10183817	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttcgacggcgagccgCagccctacccaacgctgccg	8	5	10	18	6	1	0	1	0	0	0	2	2	1	0	4	1	6	2	4	1	3	2	novel		TCGA-BP-4789-01A-01W-1369-10	TCGA-BP-4789-11A-01W-1369-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	379e77cc-5bd5-4def-b4a5-84bcded28d18	5f6770ed-4d85-47ef-805f-14faf3c12c0b		T	10183817	C	T	10183817	4	4	271	1	0	0	0	0	0	1	0	0	17161	711	25	2	288	2	VHL	3	10183817	Nonsense_Mutation	SNP	C	TCGA-BP-4789-01A-01W-1369-10		10183817	187838613	1	13899											
SPTA1	6708	hgsc.bcm.edu	37	chr1	158585040	158585040	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctccaggttgtgttgcaTccgcaacccaagctggtaga	8	11	11	11	1	0	1	0	0	0	1	2	1	2	1	3	2	4	7	3	2	3	4	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		C	158585040	T	C	158585040	3	2	272	1	0	0	0	0	1	0	0	0	15117	1435	50	3	525	3	SPTA1	1	158585040	Missense_Mutation	SNP	T	TCGA-BP-4790-01A-01D-1373-10		158585040	90665581	1	13900											
WDR26	80232	hgsc.bcm.edu;ucsc.edu	37	chr1	224586648	224586648	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcgctggtgtgtatctGatgccagaacagtctttcca	9	13	10	9	1	2	2	0	1	2	1	4	3	3	2	2	1	2	2	2	1	3	3	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	224586648	G	T	224586648	4	4	272	1	0	0	0	0	0	1	0	0	17282	1294	45	4	497	4	WDR26	1	224586648	Nonsense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10	66001608	224586648	24663973	2	13901											
KIAA1310	0	hgsc.bcm.edu;ucsc.edu	37	chr2	97270575	97270575	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgaagcctgccccagtgtCatggtgatgggcttcccacc	6	9	12	14	0	1	2	1	2	0	0	2	2	2	2	5	2	2	2	5	2	1	1	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	97270575	C	T	97270575	3	4	272	1	0	0	0	0	1	0	0	0	8222	826	29	2	701	2	KIAA1310	2	97270575	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10		97270575	145928798	3	13902											
IL18RAP	8807	hgsc.bcm.edu;ucsc.edu	37	chr2	103068343	103068343	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaagcagcagtgaatcttgCcttggatgatcaaacactga	14	9	9	9	0	2	3	1	3	1	0	2	4	2	4	1	1	4	2	1	1	3	2	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	103068343	C	T	103068343	3	4	272	1	0	0	0	0	1	0	0	0	7648	739	26	2	1540	2	IL18RAP	2	103068343	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10	5797768	103068343	140131030	4	13903											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47142965	47142965	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccatatctctggaactgAtagtcaaacgttaactctga	13	12	6	10	1	3	2	1	2	2	0	4	3	3	3	1	1	4	1	1	1	6	4	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		C	47142965	A	C	47142965	4	2	272	1	0	0	0	0	0	1	0	0	14133	340	12	5	2752	5	SETD2	3	47142965	Nonsense_Mutation	SNP	A	TCGA-BP-4790-01A-01D-1373-10		47142965	150879465	5	13904											
EVC	2121	hgsc.bcm.edu	37	chr4	5755604	5755604	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctggcccaagaggaggaaCagagaagcttcctggctgag	11	5	15	10	1	0	3	0	1	0	2	1	6	1	5	2	4	2	3	2	4	3	1	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		G	5755604	C	G	5755604	3	3	272	1	0	0	0	0	1	0	0	0	5285	479	17	4	1446	4	EVC	4	5755604	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10		5755604	185398672	6	13905											
KIAA0232	9778	hgsc.bcm.edu;ucsc.edu	37	chr4	6862718	6862718	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtctaaagtctgttcttaCtctagctcttcttcatcatc	9	17	4	11	0	8	0	2	0	6	0	9	0	8	0	0	0	2	2	0	0	5	6	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	6862718	C	T	6862718	2	4	272	1	0	0	0	0	0	0	0	1	8163	576	20	2		2	KIAA0232	4	6862718	Silent	SNP	C	TCGA-BP-4790-01A-01D-1373-10	1107114	6862718	184291558	7	13906											
RAPGEF6	51735	hgsc.bcm.edu	37	chr5	130928142	130928142	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtaggatataccaacatCtggcaatcgtttctgaactg	14	11	8	8	1	2	1	0	1	2	0	3	2	2	2	1	2	3	3	1	2	7	4	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		A	130928142	C	A	130928142	3	1	272	1	0	0	0	0	1	0	0	0	13050	913	32	4	5176	4	RAPGEF6	5	130928142	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10		130928142	49987118	8	13907											
ZNF354C	30832	hgsc.bcm.edu	37	chr5	178506270	178506270	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtaatgaatgtgagaaGgcatttagcaacagttcaac	16	10	10	5	0	1	2	1	2	0	1	1	3	1	2	0	1	3	4	0	1	7	4	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	178506270	G	T	178506270	3	4	272	1	0	0	0	0	1	0	0	0	17865	991	35	4	851	4	ZNF354C	5	178506270	Missense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10	47578128	178506270	2408990	9	13908											
OGDH	4967	hgsc.bcm.edu;ucsc.edu	37	chr7	44747245	44747245	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaccccaatgctgagctggCctggtgccaggaggagcaca	9	6	14	12	0	0	1	0	1	0	0	0	3	0	3	4	4	5	4	4	4	2	1	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	44747245	C	T	44747245	3	4	272	1	0	0	0	0	1	0	0	0	10839	739	26	2	3116	2	OGDH	7	44747245	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10		44747245	114391418	10	13909											
GRM8	2918	hgsc.bcm.edu;ucsc.edu	37	chr7	126883202	126883202	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggatccagtagaacttGgcggtcaagaggaagaaaca	15	6	14	6	1	1	4	1	1	0	3	2	6	2	6	1	4	2	1	1	4	5	2	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		A	126883202	G	A	126883202	2	1	272	1	0	0	0	0	0	0	0	1	6803	1335	47	2		2	GRM8	7	126883202	Silent	SNP	G	TCGA-BP-4790-01A-01D-1373-10	82135957	126883202	32255461	11	13910											
GADD45G	10912	hgsc.bcm.edu	37	chr9	92220937	92220937	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggagaagctcagcctgttTtgcgaggagagccgcagcgt	8	9	15	9	3	1	2	1	0	0	2	1	5	1	2	2	2	5	3	2	2	1	3	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		C	92220937	T	C	92220937	2	2	272	1	0	0	0	0	0	0	0	1	6183	1838	64	3		3	GADD45G	9	92220937	Silent	SNP	T	TCGA-BP-4790-01A-01D-1373-10		92220937	48992494	12	13911											
PGBD3	267004	hgsc.bcm.edu	37	chr10	50725062	50725062	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcagaaacaggtgctgtAgcattttcaggtggttgtat	10	14	11	6	0	3	1	3	0	0	1	3	1	3	1	0	3	3	5	0	3	3	5	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	50725062	A	T	50725062	2	4	272	1	0	0	0	0	0	0	0	1	11782	407	15	5		5	PGBD3	10	50725062	Silent	SNP	A	TCGA-BP-4790-01A-01D-1373-10		50725062	84809685	13	13912											
ZMYND17	0	hgsc.bcm.edu	37	chr10	75186103	75186103	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacagcttcaggtggccAtggccaaggtcctgagggta	8	9	14	10	0	1	1	1	1	0	0	2	1	2	1	3	5	2	3	3	5	3	3	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		G	75186103	A	G	75186103	3	3	272	1	0	0	0	0	1	0	0	0	17708	217	8	3	859	3	ZMYND17	10	75186103	Missense_Mutation	SNP	A	TCGA-BP-4790-01A-01D-1373-10	24461041	75186103	60348644	14	13913											
OR51V1	283111	hgsc.bcm.edu	37	chr11	5221519	5221519	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatggaggaataacgtagtgGattgcaaattgcaatgtacc	14	10	12	5	1	0	0	0	0	0	0	0	4	0	3	1	3	4	4	1	3	6	5	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	5221519	G	T	5221519	3	4	272	1	0	0	0	0	1	0	0	0	11107	1174	41	4	556	4	OR51V1	11	5221519	Missense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10		5221519	129784997	15	13914											
PRDM10	56980	hgsc.bcm.edu	37	chr11	129782003	129782003	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggaggacggggccgaggCggtaggctcgctgacctgga	6	4	21	10	5	0	1	0	1	0	0	1	5	0	4	2	9	0	3	2	9	1	1	rs141397814	byfrequency	TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		G	129782003	C	G	129782003	3	3	272	1	0	0	0	0	1	0	0	0	12453	768	27	4	527	4	PRDM10	11	129782003	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10	124560484	129782003	5224513	16	13915											
LDHB	3945	hgsc.bcm.edu;ucsc.edu	37	chr12	21791314	21791314	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccatcttatgcacttccTtccaattttcactatcattg	9	16	2	14	0	3	0	2	0	1	0	5	0	5	0	4	0	1	1	4	0	3	7	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		A	21791314	T	A	21791314	3	1	272	1	0	0	0	0	1	0	0	0	8701	1609	56	5	330	5	LDHB	12	21791314	Missense_Mutation	SNP	T	TCGA-BP-4790-01A-01D-1373-10		21791314	112060581	17	13916											
FREM2	341640	hgsc.bcm.edu;ucsc.edu	37	chr13	39265273	39265273	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagagagttccagcattatTtatgagcatgatgactccga	13	12	9	7	1	0	4	0	3	0	1	2	6	2	4	2	0	2	3	2	0	3	5	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		G	39265273	T	G	39265273	3	3	272	1	0	0	0	0	1	0	0	0	6045	1829	64	5	3794	5	FREM2	13	39265273	Missense_Mutation	SNP	T	TCGA-BP-4790-01A-01D-1373-10		39265273	75904605	18	13917											
CIRH1A	84916	hgsc.bcm.edu	37	chr16	69184578	69184578	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactcatgacgtgcgcactGtggcccacagcccaacagcg	10	5	10	16	3	1	1	1	1	0	0	1	1	1	1	2	1	4	1	2	1	1	0	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	69184578	G	T	69184578	3	4	272	1	0	0	0	0	1	0	0	0	3434	1377	48	4	899	4	CIRH1A	16	69184578	Missense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10		69184578	21170175	19	13918											
CTRB2	440387	hgsc.bcm.edu	37	chr16	75241033	75241033	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggagaggagccagaggaAagccatggtgccgctggcag	11	3	18	9	1	0	2	0	0	0	2	0	5	0	4	3	5	3	3	3	5	1	0	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		G	75241033	A	G	75241033	3	3	272	1	0	0	0	0	1	0	0	0	4026	14	1	3	812	3	CTRB2	16	75241033	Missense_Mutation	SNP	A	TCGA-BP-4790-01A-01D-1373-10	6056455	75241033	15113720	20	13919											
SMURF2	64750	hgsc.bcm.edu;ucsc.edu	37	chr17	62542419	62542419	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgttagtgcaggcatcAatctggtgtatggtaaagag	11	12	14	4	0	2	1	1	0	1	1	2	1	2	1	0	4	1	6	0	4	5	4	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	62542419	A	T	62542419	2	4	272	1	0	0	0	0	0	0	0	1	14822	126	5	5		5	SMURF2	17	62542419	Silent	SNP	A	TCGA-BP-4790-01A-01D-1373-10		62542419	18652791	21	13920											
KCNJ2	3759	hgsc.bcm.edu;ucsc.edu	37	chr17	68172170	68172170	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caccgctatgagcctgtgctCtttgaagagaagcactacta	11	10	9	11	1	1	3	0	2	1	1	1	4	1	3	2	0	4	3	2	0	5	4	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		G	68172170	C	G	68172170	2	3	272	1	0	0	0	0	0	0	0	1	8051	900	32	4		4	KCNJ2	17	68172170	Silent	SNP	C	TCGA-BP-4790-01A-01D-1373-10	5629751	68172170	13023040	22	13921											
PGS1	9489	hgsc.bcm.edu;ucsc.edu	37	chr17	76388642	76388642	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgtgtccagaaggcGtgcaccggttccagtggatc	6	9	14	12	2	0	1	0	0	0	1	3	2	2	2	4	3	2	3	4	3	1	1	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		A	76388642	G	A	76388642	3	1	272	1	0	0	0	0	1	0	0	0	11808	1145	40	1	235	1	PGS1	17	76388642	Missense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10	8216472	76388642	4806568	23	13922											
SS18	6760	hgsc.bcm.edu	37	chr18	23637608	23637608	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgcaggaggacccccaccTaccattccatctgaaggcat	10	7	10	14	0	1	1	0	1	1	0	2	3	2	3	5	4	2	2	5	4	2	2	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		A	23637608	T	A	23637608	2	1	272	1	0	0	0	0	0	0	0	1	15176	1509	53	5		5	SS18	18	23637608	Silent	SNP	T	TCGA-BP-4790-01A-01D-1373-10		23637608	54439640	24	13923											
CDH19	28513	hgsc.bcm.edu;ucsc.edu	37	chr18	64172432	64172432	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctgtatcttcttctccacCcccttcatcatcatattgga	7	16	3	15	0	7	0	3	0	4	0	8	1	7	1	3	1	0	1	3	1	2	6	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	64172432	C	T	64172432	3	4	272	1	0	0	0	0	1	0	0	0	3104	623	22	2	386	2	CDH19	18	64172432	Missense_Mutation	SNP	C	TCGA-BP-4790-01A-01D-1373-10	40534824	64172432	13904816	25	13924											
MAP3K10	4294	hgsc.bcm.edu	37	chr19	40698258	40698258	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaggagatcatcggtgtggGgggctttggcaaggtctatc	8	10	17	6	1	2	2	1	0	1	2	4	3	2	2	0	7	0	2	0	7	2	2	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	40698258	G	T	40698258	3	4	272	1	0	0	0	0	1	0	0	0	9244	1232	43	4	322	4	MAP3K10	19	40698258	Missense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10		40698258	18430725	26	13925											
CNFN	84518	hgsc.bcm.edu	37	chr19	42893091	42893091	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactcacagacaggcatgtcGttgcagcagtccgtgagacc	10	7	11	13	2	1	2	1	1	0	2	3	3	2	2	2	1	2	4	2	1	0	1	rs139046031	bycluster;byfrequency;by1000genomes	TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		A	42893091	G	A	42893091	2	1	272	1	0	0	0	0	0	0	0	1	3595	1136	40	1		1	CNFN	19	42893091	Silent	SNP	G	TCGA-BP-4790-01A-01D-1373-10	2194833	42893091	16235892	27	13926											
DMD	1756	hgsc.bcm.edu;ucsc.edu	37	chrX	31947776	31947777	+	Frame_Shift_Del	DEL	TA	TA	-																															ttatcttgctcttctgggctTatgggagcacttacaagcac																								novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		-	31947777	TA	-	31947776	7	5	272	1	0	1	0	1	0	0	0	0	4580	1744	61	0	4488	0	DMD	23	31947776	Frame_Shift_Del	DEL	TA	TCGA-BP-4790-01A-01D-1373-10		31947776	123322784	28	13927											
ZNF275	10838	hgsc.bcm.edu	37	chrX	152612540	152612540	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggctgggaatgtggcGactgcgggaaggtctttagg	9	8	19	5	2	1	1	0	0	1	1	1	4	1	3	0	6	1	1	0	6	4	2	novel		TCGA-BP-4790-01A-01D-1373-10	TCGA-BP-4790-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0221c6f-dbe6-4a2c-849d-0f554e107d5d	697e3e79-1b90-497a-b917-0ed7883f7ac6		T	152612540	G	T	152612540	3	4	272	1	0	0	0	0	1	0	0	0	17809	1058	37	4	407	4	ZNF275	23	152612540	Missense_Mutation	SNP	G	TCGA-BP-4790-01A-01D-1373-10	120664764	152612540	2658020	29	13928											
PHF13	148479	hgsc.bcm.edu;ucsc.edu	37	chr1	6676887	6676887	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attctgcacctttgtcttggCctatgctggctacatccctt	5	16	7	13	0	2	0	0	0	2	0	3	0	3	0	3	2	3	3	3	2	2	6	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	6676887	C	T	6676887	3	4	273	1	0	0	0	0	1	0	0	0	11824	739	26	2	116	2	PHF13	1	6676887	Missense_Mutation	SNP	C	TCGA-BP-4797-01A-01D-1373-10		6676887	242573734	1	13929											
MACF1	23499	hgsc.bcm.edu;ucsc.edu	37	chr1	39799692	39799692	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accctgatagtaaagcacctTtaacagttgtgcagtccatt	12	12	7	10	0	0	1	0	1	0	0	1	1	1	1	3	0	3	4	3	0	4	6	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	39799692	T	G	39799692	3	3	273	1	0	0	0	0	1	0	0	0	9144	1838	64	5	7523	5	MACF1	1	39799692	Missense_Mutation	SNP	T	TCGA-BP-4797-01A-01D-1373-10	33122805	39799692	209450929	2	13930											
KANK4	163782	hgsc.bcm.edu	37	chr1	62740019	62740019	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaagcacattctggaatgAgaaaggagggcctgggagag	14	6	15	6	0	1	2	0	1	1	2	1	6	1	4	1	4	2	1	1	4	4	2	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	62740019	A	G	62740019	3	3	273	1	0	0	0	0	1	0	0	0	7979	304	11	3	2262	3	KANK4	1	62740019	Missense_Mutation	SNP	A	TCGA-BP-4797-01A-01D-1373-10	22940327	62740019	186510602	3	13931											
BAT2L2	0	hgsc.bcm.edu;ucsc.edu	37	chr1	171505374	171505374	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacatggatcctcgaatGatgtcaggaagacctgctat	11	11	9	10	1	1	2	1	1	0	1	4	5	3	4	3	2	2	1	3	2	4	2	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	171505374	G	T	171505374	3	4	273	1	0	0	0	0	1	0	0	0	1321	1290	45	4	2294	4	BAT2L2	1	171505374	Missense_Mutation	SNP	G	TCGA-BP-4797-01A-01D-1373-10	108765355	171505374	77745247	4	13932											
GREB1	9687	hgsc.bcm.edu;ucsc.edu	37	chr2	11755345	11755345	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggagaagggggctaggaAcgaggccttggagagtgatg	10	7	19	5	1	0	3	0	1	0	2	0	7	0	4	1	6	1	1	1	6	3	3	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	11755345	A	G	11755345	3	3	273	1	0	0	0	0	1	0	0	0	6760	43	2	3	3433	3	GREB1	2	11755345	Missense_Mutation	SNP	A	TCGA-BP-4797-01A-01D-1373-10		11755345	231444028	5	13933											
FAM98A	25940	hgsc.bcm.edu;ucsc.edu	37	chr2	33809869	33809869	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtaatgtcttccctgtcCaaatccagaatgattatact	12	14	6	9	0	1	2	0	1	1	1	4	2	4	2	3	0	1	1	3	0	5	4	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	33809869	C	G	33809869	3	3	273	1	0	0	0	0	1	0	0	0	5656	603	21	4	29	4	FAM98A	2	33809869	Missense_Mutation	SNP	C	TCGA-BP-4797-01A-01D-1373-10	22054524	33809869	209389504	6	13934											
NDUFS1	4719	hgsc.bcm.edu;ucsc.edu	37	chr2	206994925	206994925	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgaattgcttccaccccaGgcttatagccaaggtccaaa	11	9	7	14	1	0	0	0	0	0	0	3	1	3	0	6	2	2	2	6	2	5	4	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	206994925	G	T	206994925	3	4	273	1	0	0	0	0	1	0	0	0	10291	1000	35	4	608	4	NDUFS1	2	206994925	Missense_Mutation	SNP	G	TCGA-BP-4797-01A-01D-1373-10	173185056	206994925	36204448	7	13935											
SLC2A9	56606	hgsc.bcm.edu	37	chr4	9922170	9922170	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctctacctcttgggaaacgtCtgctttacccaagaacgttt	9	13	7	12	2	3	1	0	0	3	1	3	2	3	2	2	1	5	2	2	1	5	5	rs73225891	bycluster;byfrequency;by1000genomes	TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	9922170	C	G	9922170	3	3	273	1	0	0	0	0	1	0	0	0	14554	913	32	4	805	4	SLC2A9	4	9922170	Missense_Mutation	SNP	C	TCGA-BP-4797-01A-01D-1373-10		9922170	181232106	8	13936											
NFKB1	4790	hgsc.bcm.edu	37	chr4	103528456	103528456	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcacgacaacatctcattgGcaggctgcctgctcctggag	9	8	11	13	1	1	0	1	0	1	0	3	2	2	1	2	3	4	4	2	3	1	1	rs111293796		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		A	103528456	G	A	103528456	3	1	273	1	0	0	0	0	1	0	0	0	10375	1203	42	2	2170	2	NFKB1	4	103528456	Missense_Mutation	SNP	G	TCGA-BP-4797-01A-01D-1373-10	93606286	103528456	87625820	9	13937											
ADAD1	132612	hgsc.bcm.edu;ucsc.edu	37	chr4	123332503	123332503	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatatcaacatttgcctttaCatgaaccagttgcctaaagg	14	12	6	9	0	1	1	1	1	0	0	1	1	1	1	3	1	5	1	3	1	7	6	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	123332503	C	T	123332503	2	4	273	1	0	0	0	0	0	0	0	1	231	489	17	2		2	ADAD1	4	123332503	Silent	SNP	C	TCGA-BP-4797-01A-01D-1373-10	19804047	123332503	67821773	10	13938											
JARID2	3720	hgsc.bcm.edu;ucsc.edu	37	chr6	15513604	15513604	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtggctgcagttggagaCgtcagagaggaggtgtcaga	12	7	17	5	1	2	3	2	0	0	3	2	6	2	4	0	4	1	3	0	4	1	1	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		A	15513604	C	A	15513604	3	1	273	1	0	0	0	0	1	0	0	0	7945	536	19	4	3463	4	JARID2	6	15513604	Missense_Mutation	SNP	C	TCGA-BP-4797-01A-01D-1373-10		15513604	155601463	11	13939											
C14orf174	0	hgsc.bcm.edu	37	chr14	77844691	77844691	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgagcggactaaaccAgactttccagaccacaagcc	13	6	7	15	1	0	3	0	1	0	2	1	4	1	4	5	1	4	0	5	1	4	3	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	77844691	A	G	77844691	2	3	273	1	0	0	0	0	0	0	0	1	1759	175	7	3		3	C14orf174	14	77844691	Silent	SNP	A	TCGA-BP-4797-01A-01D-1373-10		77844691	29504849	12	13940											
PAK6	56924	hgsc.bcm.edu	37	chr15	40568129	40568129	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgccctgcctctacaggTctccccagtgctgcgagact	6	10	9	16	1	2	1	0	0	2	1	3	2	2	1	4	1	6	1	4	1	2	2	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		C	40568129	T	C	40568129	3	2	273	1	0	0	0	0	1	0	0	0	11404	1681	58	3	1910	3	PAK6	15	40568129	Missense_Mutation	SNP	T	TCGA-BP-4797-01A-01D-1373-10		40568129	61963263	13	13941											
ZNF844	284391	hgsc.bcm.edu;ucsc.edu	37	chr19	12186207	12186207	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccagattccagatgacaCactgaacaaaaaaacttctc	17	8	5	11	0	1	4	0	2	1	2	3	4	2	4	2	0	3	0	2	0	5	3	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	12186207	C	G	12186207	3	3	273	1	0	0	0	0	1	0	0	0	18189	478	17	4	286	4	ZNF844	19	12186207	Missense_Mutation	SNP	C	TCGA-BP-4797-01A-01D-1373-10		12186207	46942776	14	13942											
AKT2	208	hgsc.bcm.edu	37	chr19	40741045	40741045	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgacctgaggtttgaaggGtggcaggagctacggaggag	9	7	19	6	2	0	3	0	3	0	0	0	6	0	6	1	6	2	3	1	6	2	2	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		A	40741045	G	A	40741045	3	1	273	1	0	0	0	0	1	0	0	0	480	1261	44	2	180	2	AKT2	19	40741045	Missense_Mutation	SNP	G	TCGA-BP-4797-01A-01D-1373-10	28554838	40741045	18387938	15	13943											
ANKRD5	0	hgsc.bcm.edu	37	chr20	10030475	10030475	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagaaaaaggaaaaagggAtgggcaaaaaaggaaagaaa	25	2	12	2	0	0	2	0	0	0	2	0	5	0	5	0	4	0	1	0	4	10	1	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	10030475	A	T	10030475	3	4	273	1	0	0	0	0	1	0	0	0	676	333	12	5	1276	5	ANKRD5	20	10030475	Missense_Mutation	SNP	A	TCGA-BP-4797-01A-01D-1373-10		10030475	52995045	16	13944											
ASMTL	8623	hgsc.bcm.edu	37	chrX	1537002	1537002	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctcgggccagtgcaccCgtgcagcctgcggggaagca	7	5	15	14	3	1	0	0	0	1	0	2	1	1	1	3	3	6	4	3	3	1	0	rs71298853	alternate_allele	TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		G	1537002	C	G	1537002	2	3	273	1	0	0	0	0	0	0	0	1	1046	639	23	4		4	ASMTL	23	1537002	Silent	SNP	C	TCGA-BP-4797-01A-01D-1373-10		1537002	153733558	17	13945											
GATA1	2623	hgsc.bcm.edu	37	chrX	48649553	48649553	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggggtccctggggacctcaGagcccctcccccagtttgtg	4	9	13	15	0	1	1	1	0	0	1	3	2	3	2	6	4	1	1	6	4	0	1	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		A	48649553	G	A	48649553	3	1	273	1	0	0	0	0	1	0	0	0	6253	943	33	2	39	2	GATA1	23	48649553	Missense_Mutation	SNP	G	TCGA-BP-4797-01A-01D-1373-10	47112551	48649553	106621007	18	13946											
MAGED1	9500	hgsc.bcm.edu	37	chrX	51638328	51638328	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgccgctaggcctaaGtcagcctttaaagtccagaa	11	8	10	12	1	1	1	1	0	0	1	2	1	2	1	4	1	3	3	4	1	5	4	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	51638328	G	T	51638328	3	4	273	1	0	0	0	0	1	0	0	0	9183	1020	36	4	403	4	MAGED1	23	51638328	Missense_Mutation	SNP	G	TCGA-BP-4797-01A-01D-1373-10	2988775	51638328	103632232	19	13947											
TRO	7216	hgsc.bcm.edu	37	chrX	54953023	54953023	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccctcacagctgtcatCtgggaggtgctgcgcaagtt	6	10	11	14	1	3	0	2	0	1	0	4	1	4	1	3	2	3	4	3	2	1	1	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		A	54953023	C	A	54953023	2	1	273	1	0	0	0	0	0	0	0	1	16573	903	32	4		4	TRO	23	54953023	Silent	SNP	C	TCGA-BP-4797-01A-01D-1373-10	3314695	54953023	100317537	20	13948											
MCTS1	28985	hgsc.bcm.edu	37	chrX	119739390	119739390	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatcaaatcatgcctaagaAagatcctgtcaaaatagtcc	17	10	5	9	0	3	2	3	0	0	2	5	2	5	2	3	0	1	0	3	0	7	3	novel		TCGA-BP-4797-01A-01D-1373-10	TCGA-BP-4797-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9b7e1bde-7d7f-4fa7-8e87-e1a555c6ebad	5467d704-d6d5-410a-b8b3-15ee3afe92e9		T	119739390	A	T	119739390	3	4	273	1	0	0	0	0	1	0	0	0	9402	14	1	5	164	5	MCTS1	23	119739390	Missense_Mutation	SNP	A	TCGA-BP-4797-01A-01D-1373-10	64786367	119739390	35531170	21	13949											
EDEM3	80267	hgsc.bcm.edu;ucsc.edu	37	chr1	184663341	184663341	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgattgttcttgaagctgGttatctaaatctgtacattc	9	18	7	7	0	4	2	0	2	4	0	5	2	4	2	0	1	2	4	0	1	5	7	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	184663341	G	T	184663341	3	4	274	1	0	0	0	0	1	0	0	0	4913	1252	44	4	147	4	EDEM3	1	184663341	Missense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10		184663341	64587280	1	13950											
IARS2	55699	hgsc.bcm.edu;ucsc.edu	37	chr1	220316384	220316384	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgcgtgtgcaatgcgaGactcatttcttggaagcatc	10	11	12	8	2	2	2	1	0	1	2	3	4	2	3	0	1	4	2	0	1	2	2	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	220316384	G	T	220316384	3	4	274	1	0	0	0	0	1	0	0	0	7474	942	33	4	2741	4	IARS2	1	220316384	Missense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10	35653043	220316384	28934237	2	13951											
BAP1	8314	ucsc.edu	37	chr3	52439312	52439312	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctcctctgcaccatcTgagacagggcaagaacacag	11	5	10	15	1	2	2	0	1	2	2	3	3	3	2	4	1	2	2	4	1	2	0	rs112194987		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		C	52439312	T	C	52439312	5	2	274	1	0	0	0	0	0	0	1	0	1311	1594	55	3	1287	3	BAP1	3	52439312	Splice_Site	SNP	T	TCGA-BP-4798-01A-01D-1373-10		52439312	145583118	3	13952											
ABCC5	10057	hgsc.bcm.edu	37	chr3	183655834	183655834	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagacggaagagggccatccCcagcgaggacttccctgatg	10	5	13	13	2	0	3	0	1	0	2	2	6	2	5	4	3	1	0	4	3	1	1	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	183655834	C	T	183655834	3	4	274	1	0	0	0	0	1	0	0	0	56	623	22	2	624	2	ABCC5	3	183655834	Missense_Mutation	SNP	C	TCGA-BP-4798-01A-01D-1373-10	131216522	183655834	14366596	4	13953											
PDGFRA	5156	hgsc.bcm.edu	37	chr4	55141031	55141031	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccgaggtatgaaattcgctgGagggtcattgaatcaatcag	12	10	12	7	2	3	2	3	2	0	0	4	4	3	3	1	3	0	2	1	3	4	3	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		A	55141031	G	A	55141031	4	1	274	1	0	0	0	0	0	1	0	0	11661	1183	41	2	1719	2	PDGFRA	4	55141031	Nonsense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10		55141031	136013245	5	13954											
GCNT2	2651	hgsc.bcm.edu;ucsc.edu	37	chr6	10557023	10557023	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgccccaaaatatctacTgtgttcatgtggatgaaaaa	15	11	7	8	0	2	1	1	1	1	0	2	2	2	2	2	1	2	1	2	1	6	3	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		G	10557023	T	G	10557023	3	3	274	1	0	0	0	0	1	0	0	0	6301	1580	55	5	1298	5	GCNT2	6	10557023	Missense_Mutation	SNP	T	TCGA-BP-4798-01A-01D-1373-10		10557023	160558044	6	13955											
NMBR	4829	hgsc.bcm.edu;ucsc.edu	37	chr6	142399949	142399949	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgggaactgccagcaacaCggagaccacccagataccca	13	4	9	15	2	0	2	0	0	0	2	1	4	0	3	4	2	5	1	4	2	3	2	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	142399949	C	T	142399949	3	4	274	1	0	0	0	0	1	0	0	0	10487	536	19	1	666	1	NMBR	6	142399949	Missense_Mutation	SNP	C	TCGA-BP-4798-01A-01D-1373-10	131842926	142399949	28715118	7	13956											
PPIL4	85313	hgsc.bcm.edu	37	chr6	149826604	149826604	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctttcatctatacttagaTttttctttatctttggactt	8	23	3	7	0	5	1	1	0	4	1	5	2	5	2	0	1	1	0	0	1	4	10	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		C	149826604	T	C	149826604	2	2	274	1	0	0	0	0	0	0	0	1	12331	1490	52	3		3	PPIL4	6	149826604	Silent	SNP	T	TCGA-BP-4798-01A-01D-1373-10	7426655	149826604	21288463	8	13957											
ZC3HAV1	56829	hgsc.bcm.edu	37	chr7	138732448	138732448	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattcgatctggtatccacAcagctgtcgaactgtggagg	9	10	13	9	2	1	0	0	0	1	0	4	4	2	2	1	4	2	2	1	4	2	2	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		G	138732448	A	G	138732448	2	3	274	1	0	0	0	0	0	0	0	1	17574	157	6	3		3	ZC3HAV1	7	138732448	Silent	SNP	A	TCGA-BP-4798-01A-01D-1373-10		138732448	20406215	9	13958											
TMEM2	23670	hgsc.bcm.edu	37	chr9	74360416	74360416	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaatatgaagcgccccAccatcctggatcaggatgta	11	8	9	13	1	1	1	1	1	0	0	3	3	3	3	5	2	1	2	5	2	4	2	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		G	74360416	A	G	74360416	2	3	274	1	0	0	0	0	0	0	0	1	16120	146	6	3		3	TMEM2	9	74360416	Silent	SNP	A	TCGA-BP-4798-01A-01D-1373-10		74360416	66853015	10	13959											
KIAA1529	0	hgsc.bcm.edu	37	chr9	100079448	100079448	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggacagccgccaccgCtggcaaggcttggtggacac	8	5	15	13	2	0	0	0	0	0	0	0	3	0	2	3	5	2	4	3	5	1	1	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	100079448	C	T	100079448	2	4	274	1	0	0	0	0	0	0	0	1	8240	784	28	2		2	KIAA1529	9	100079448	Silent	SNP	C	TCGA-BP-4798-01A-01D-1373-10	25719032	100079448	41133983	11	13960											
CAPN5	726	hgsc.bcm.edu	37	chr11	76825307	76825307	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactggcaggctgttaccagGccctggatggaggcaacaca	10	6	14	11	0	0	0	0	0	0	0	0	3	0	2	2	6	2	4	2	6	2	1	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	76825307	G	T	76825307	3	4	274	1	0	0	0	0	1	0	0	0	2629	1203	42	4	540	4	CAPN5	11	76825307	Missense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10		76825307	58181209	12	13961											
PDE3A	5139	hgsc.bcm.edu;ucsc.edu	37	chr12	20803458	20803458	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgtataaagttggctgAtatcaatggtccagctaaat	14	13	9	5	0	1	1	1	1	0	0	2	1	2	1	1	2	1	4	1	2	8	5	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		C	20803458	A	C	20803458	3	2	274	1	0	0	0	0	1	0	0	0	11637	333	12	5	2903	5	PDE3A	12	20803458	Missense_Mutation	SNP	A	TCGA-BP-4798-01A-01D-1373-10		20803458	113048437	13	13962											
SHCBP1	79801	hgsc.bcm.edu;ucsc.edu	37	chr16	46651587	46651587	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagtgtgccagactgcccGccatccagatggctcaagga	10	8	11	12	1	1	2	1	0	0	2	2	3	2	3	4	2	2	1	4	2	2	1	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		A	46651587	G	A	46651587	3	1	274	1	0	0	0	0	1	0	0	0	14276	1086	38	1	1716	1	SHCBP1	16	46651587	Missense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10		46651587	43703166	14	13963											
NLRP1	22861	hgsc.bcm.edu	37	chr17	5462053	5462053	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatatgcttctagcgtctTttccaaatctatgatgcaat	10	16	5	10	1	3	1	0	1	3	0	5	1	5	1	2	0	3	2	2	0	5	6	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		A	5462053	T	A	5462053	4	1	274	1	0	0	0	0	0	1	0	0	10471	1850	64	5	2589	5	NLRP1	17	5462053	Nonsense_Mutation	SNP	T	TCGA-BP-4798-01A-01D-1373-10		5462053	75733157	15	13964											
TP53	7157	hgsc.bcm.edu;ucsc.edu	37	chr17	7577581	7577581	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgttacacatgtagttgtAgtggatggtggtacagtcag	10	13	13	5	0	1	0	1	0	0	0	1	1	1	1	0	3	2	5	0	3	4	5	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		G	7577581	A	G	7577581	3	3	274	1	0	0	0	0	1	0	0	0	16380	420	15	3	590	3	TP53	17	7577581	Missense_Mutation	SNP	A	TCGA-BP-4798-01A-01D-1373-10	2115528	7577581	73617629	16	13965											
TOM1L2	146691	hgsc.bcm.edu;ucsc.edu	37	chr17	17810782	17810782	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctccgtctcattgatgAtgtcacagatctccatattc	8	15	5	13	1	3	3	2	2	2	1	8	3	5	3	3	0	0	0	3	0	1	4	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		G	17810782	A	G	17810782	3	3	274	1	0	0	0	0	1	0	0	0	16352	333	12	3	1463	3	TOM1L2	17	17810782	Missense_Mutation	SNP	A	TCGA-BP-4798-01A-01D-1373-10	10233201	17810782	63384428	17	13966											
PRPSAP2	5636	hgsc.bcm.edu	37	chr17	18814497	18814497	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgccgagtcggacttggtGgatggacggcattccccacc	7	8	14	12	3	0	0	0	0	0	0	2	5	1	3	4	5	1	1	4	5	0	2	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		C	18814497	G	C	18814497	2	2	274	1	0	0	0	0	0	0	0	1	12584	1335	47	4		4	PRPSAP2	17	18814497	Silent	SNP	G	TCGA-BP-4798-01A-01D-1373-10	1003715	18814497	62380713	18	13967											
KLK4	9622	hgsc.bcm.edu	37	chr19	51411978	51411978	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaggtcgttagcgagcaagGgtctgttgtactctgggtgc	6	12	16	7	2	2	1	0	1	2	0	3	2	2	1	0	3	4	4	0	3	3	3	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		T	51411978	G	T	51411978	3	4	274	1	0	0	0	0	1	0	0	0	8406	1232	43	4	444	4	KLK4	19	51411978	Missense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10		51411978	7717005	19	13968											
C22orf30	0	hgsc.bcm.edu;ucsc.edu	37	chr22	32112085	32112085	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctcacttacaggacttatTtgatcctctggcattaaact	11	14	5	11	0	2	1	1	1	1	0	3	2	3	2	2	2	2	1	2	2	4	4	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		A	32112085	T	A	32112085	3	1	274	1	0	0	0	0	1	0	0	0	2142	1838	64	5	4739	5	C22orf30	22	32112085	Missense_Mutation	SNP	T	TCGA-BP-4798-01A-01D-1373-10		32112085	19192481	20	13969											
FAM109B	150368	hgsc.bcm.edu	37	chr22	42473544	42473544	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggccgaggctcccgtgcccGaggagtttgcctttgccatc	4	10	13	14	3	0	0	0	0	0	0	2	3	1	1	5	3	3	2	5	3	0	2	novel		TCGA-BP-4798-01A-01D-1373-10	TCGA-BP-4798-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	47b064e2-2ae9-42d9-9cc7-1835f12b6907	769eeb31-8f39-4ac2-804c-584b4565cca0		A	42473544	G	A	42473544	3	1	274	1	0	0	0	0	1	0	0	0	5395	1059	37	1	249	1	FAM109B	22	42473544	Missense_Mutation	SNP	G	TCGA-BP-4798-01A-01D-1373-10	10361459	42473544	8831022	21	13970											
VHL	7428	hgsc.bcm.edu	37	chr3	10183729	10183730	+	Frame_Shift_Ins	INS	-	-	A																															ggcccgtgctgcgctcggtgINSaactcgcgcgagccctccca																								novel		TCGA-BP-4798-01A-01W-1369-10	TCGA-BP-4798-11A-01W-1369-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	7535dcc0-e9d8-4fe0-88ae-1e6f4fa69994	2bb32f23-045f-45de-8f8c-06c1d0049c8a		A	10183730	-	A	10183729	7	5	275	1	0	1	1	0	0	0	0	0	17161	1277	45	0	200	0	VHL	3	10183729	Frame_Shift_Ins	INS	-	TCGA-BP-4798-01A-01W-1369-10		10183729	187838701	1	13971											
FCN3	8547	hgsc.bcm.edu	37	chr1	27699671	27699671	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtcacaaaagactgggaGggccctgccctcaggtaggc	10	6	13	12	0	2	1	2	0	0	1	2	2	2	2	2	4	1	1	2	4	3	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	27699671	G	A	27699671	3	1	276	1	0	0	0	0	1	0	0	0	5793	1000	35	2	566	2	FCN3	1	27699671	Missense_Mutation	SNP	G	TCGA-BP-4799-01A-01D-1373-10		27699671	221550950	1	13972											
EPHX4	253152	hgsc.bcm.edu	37	chr1	92518079	92518079	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaattaggttttgaaacatCtgtttaccagtcacagcact	13	14	6	8	0	2	1	1	1	1	0	2	1	2	1	1	1	3	3	1	1	5	6	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		T	92518079	C	T	92518079	2	4	276	1	0	0	0	0	0	0	0	1	5182	912	32	2		2	EPHX4	1	92518079	Silent	SNP	C	TCGA-BP-4799-01A-01D-1373-10	64818408	92518079	156732542	2	13973											
AGL	178	hgsc.bcm.edu;ucsc.edu	37	chr1	100349949	100349949	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccacaaaagggcccaatGaatatattcaagaaatagaa	19	8	7	7	0	1	3	1	1	0	2	1	3	1	3	2	1	1	0	2	1	10	5	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		T	100349949	G	T	100349949	4	4	276	1	0	0	0	0	0	1	0	0	384	1291	45	4	2627	4	AGL	1	100349949	Nonsense_Mutation	SNP	G	TCGA-BP-4799-01A-01D-1373-10	7831870	100349949	148900672	3	13974											
CNGA3	1261	hgsc.bcm.edu	37	chr2	98994251	98994251	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggctccttcaccggccAggggatcgccaggtaactga	8	6	14	13	2	1	1	1	1	0	0	3	2	2	2	4	5	1	3	4	5	1	2	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		C	98994251	A	C	98994251	3	2	276	1	0	0	0	0	1	0	0	0	3598	188	7	5	209	5	CNGA3	2	98994251	Missense_Mutation	SNP	A	TCGA-BP-4799-01A-01D-1373-10		98994251	144205122	4	13975											
HDAC4	9759	hgsc.bcm.edu	37	chr2	240011717	240011717	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactgaccttcagctccccTgtggccaccttgaagaccag	8	8	9	16	1	1	3	1	2	0	1	2	4	2	3	6	1	1	1	6	1	1	2	rs61752234	bycluster;byfrequency;by1000genomes	TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		C	240011717	T	C	240011717	2	2	276	1	0	0	0	0	0	0	0	1	7009	1567	55	3		3	HDAC4	2	240011717	Silent	SNP	T	TCGA-BP-4799-01A-01D-1373-10	141017466	240011717	3187656	5	13976											
SHISA5	51246	hgsc.bcm.edu;ucsc.edu	37	chr3	48538657	48538657	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggtcatcacaggtaccaCagcagaaatctggacaggac	14	7	10	10	0	3	1	2	0	1	1	3	3	3	3	1	4	2	2	1	4	2	2	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		G	48538657	C	G	48538657	3	3	276	1	0	0	0	0	1	0	0	0	14285	478	17	4	596	4	SHISA5	3	48538657	Missense_Mutation	SNP	C	TCGA-BP-4799-01A-01D-1373-10		48538657	149483773	6	13977											
PRDM9	56979	hgsc.bcm.edu;ucsc.edu	37	chr5	23526898	23526898	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttagctggaagtcacacctCctcattcaccagaggataca	12	10	7	12	0	3	1	3	0	0	1	4	3	4	3	3	2	2	1	3	2	3	4	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		T	23526898	C	T	23526898	2	4	276	1	0	0	0	0	0	0	0	1	12465	842	30	2		2	PRDM9	5	23526898	Silent	SNP	C	TCGA-BP-4799-01A-01D-1373-10		23526898	157388362	7	13978											
BRD8	10902	hgsc.bcm.edu;ucsc.edu	37	chr5	137498825	137498825	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcagatactcacaactgtGaagaagcagggctgctgggg	11	8	13	9	0	2	3	2	1	1	2	3	3	2	3	0	3	4	3	0	3	4	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	137498825	G	A	137498825	3	1	276	1	0	0	0	0	1	0	0	0	1506	1294	45	2	1742	2	BRD8	5	137498825	Missense_Mutation	SNP	G	TCGA-BP-4799-01A-01D-1373-10	113971927	137498825	43416435	8	13979											
EYA4	2070	hgsc.bcm.edu;ucsc.edu	37	chr6	133804175	133804175	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttttgtcttcagcgtgtGtttgtctgggatttggatga	5	20	12	4	1	3	1	1	1	2	0	3	3	3	3	0	2	1	1	0	2	0	6	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	133804175	G	A	133804175	2	1	276	1	0	0	0	0	0	0	0	1	5331	1364	48	2		2	EYA4	6	133804175	Silent	SNP	G	TCGA-BP-4799-01A-01D-1373-10		133804175	37310892	9	13980											
MOBKL2B	0	hgsc.bcm.edu;ucsc.edu	37	chr9	27359175	27359175	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagacgtggacaaagacccGgaaaaggcggcacaggatct	15	4	13	9	3	1	2	0	0	1	2	1	5	1	5	1	5	0	1	1	5	4	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	27359175	G	A	27359175	3	1	276	1	0	0	0	0	1	0	0	0	9685	1115	39	1	180	1	MOBKL2B	9	27359175	Missense_Mutation	SNP	G	TCGA-BP-4799-01A-01D-1373-10		27359175	113854256	10	13981											
WEE1	7465	hgsc.bcm.edu	37	chr11	9608378	9608378	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatagaattgaatgccgaaAagttcaaaaattcactttta	18	12	6	5	1	2	2	2	1	0	1	2	4	2	2	1	0	1	1	1	0	9	6	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		C	9608378	A	C	9608378	3	2	276	1	0	0	0	0	1	0	0	0	17343	15	1	5	1800	5	WEE1	11	9608378	Missense_Mutation	SNP	A	TCGA-BP-4799-01A-01D-1373-10		9608378	125398138	11	13982											
DDX11	1663	hgsc.bcm.edu	37	chr12	31253615	31253616	+	Frame_Shift_Ins	INS	-	-	TG																															gcctgtgccggggtggaagcINStgagcgcgtggtggagtttt																								novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		TG	31253616	-	TG	31253615	7	5	276	1	0	1	1	0	0	0	0	0	4343	797	28	0	1992	0	DDX11	12	31253615	Frame_Shift_Ins	INS	-	TCGA-BP-4799-01A-01D-1373-10		31253615	102598280	12	13983											
AMN	81693	hgsc.bcm.edu	37	chr14	103390308	103390308	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagaaggtcacgccgtcTcagacatggtaaggccgggc	10	6	14	11	3	2	2	2	0	1	2	3	2	2	2	2	4	1	2	2	4	3	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	103390308	T	A	103390308	3	1	276	1	0	0	0	0	1	0	0	0	580	1551	54	5	209	5	AMN	14	103390308	Missense_Mutation	SNP	T	TCGA-BP-4799-01A-01D-1373-10		103390308	3959232	13	13984											
IFT140	9742	hgsc.bcm.edu	37	chr16	1614096	1614096	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcatacaaacagccggggctCactctggtcccagaagtggt	10	7	12	12	1	2	1	1	0	1	1	3	1	3	1	2	4	3	2	2	4	3	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		T	1614096	C	T	1614096	3	4	276	1	0	0	0	0	1	0	0	0	7556	835	29	2	2479	2	IFT140	16	1614096	Missense_Mutation	SNP	C	TCGA-BP-4799-01A-01D-1373-10		1614096	88740657	14	13985											
CNGB1	1258	hgsc.bcm.edu	37	chr16	57951275	57951275	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagcagccagtggtggAtgttgtccggggtctggtag	6	10	16	9	1	2	0	1	0	1	0	3	1	3	1	3	5	2	3	3	5	1	2	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		T	57951275	A	T	57951275	3	4	276	1	0	0	0	0	1	0	0	0	3600	333	12	5	1744	5	CNGB1	16	57951275	Missense_Mutation	SNP	A	TCGA-BP-4799-01A-01D-1373-10	56337179	57951275	32403478	15	13986											
TRIM37	4591	hgsc.bcm.edu	37	chr17	57181741	57181741	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacaaatgaaacatcggaaAacctcagcaatgctctgaaa	19	7	6	9	1	2	2	1	2	1	0	3	3	2	3	1	1	5	2	1	1	7	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		G	57181741	A	G	57181741	2	3	276	1	0	0	0	0	0	0	0	1	16510	1	1	3		3	TRIM37	17	57181741	Silent	SNP	A	TCGA-BP-4799-01A-01D-1373-10		57181741	24013469	16	13987											
SCN4A	6329	hgsc.bcm.edu	37	chr17	62024487	62024487	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgatgggtcccagctccGagtagcccagccagttggcc	7	9	12	13	1	0	1	0	1	0	0	2	2	2	1	5	2	3	3	5	2	1	3	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		T	62024487	G	T	62024487	4	4	276	1	0	0	0	0	0	1	0	0	13922	1059	37	4	2179	4	SCN4A	17	62024487	Nonsense_Mutation	SNP	G	TCGA-BP-4799-01A-01D-1373-10	4842746	62024487	19170723	17	13988											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9047853	9047853	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatgagatatttgtaaacgGctcaccagtggagacagtca	14	9	10	8	1	2	2	2	1	0	2	2	4	2	2	1	2	1	2	1	2	4	3	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		C	9047853	G	C	9047853	3	2	276	1	0	0	0	0	1	0	0	0	9973	1203	42	4	10065	4	MUC16	19	9047853	Missense_Mutation	SNP	G	TCGA-BP-4799-01A-01D-1373-10		9047853	50081130	18	13989											
MEIS3	56917	hgsc.bcm.edu	37	chr19	47912501	47912501	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgctggtgtccagcccgTctcctgagggaaggcaggca	7	6	14	14	2	1	1	0	1	1	0	3	2	2	2	4	4	1	3	4	4	1	0	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	47912501	T	A	47912501	3	1	276	1	0	0	0	0	1	0	0	0	9469	1667	58	5	572	5	MEIS3	19	47912501	Missense_Mutation	SNP	T	TCGA-BP-4799-01A-01D-1373-10	38864648	47912501	11216482	19	13990											
GATA5	140628	hgsc.bcm.edu	37	chr20	61040459	61040459	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcttggctttcgaagtGgctgctgagctgtcagtgct	4	13	15	9	1	1	1	1	1	0	0	2	2	1	1	0	3	3	6	0	3	1	2	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	61040459	G	A	61040459	2	1	276	1	0	0	0	0	0	0	0	1	6257	1335	47	2		2	GATA5	20	61040459	Silent	SNP	G	TCGA-BP-4799-01A-01D-1373-10		61040459	1985061	20	13991											
TRPM2	7226	hgsc.bcm.edu	37	chr21	45798894	45798894	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagaccatcgacaacgcCaccaccaacggcaccccctg	11	4	7	19	3	0	1	0	0	0	1	1	2	0	1	6	1	3	2	6	1	2	1	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		A	45798894	C	A	45798894	2	1	276	1	0	0	0	0	0	0	0	1	16585	581	21	4		4	TRPM2	21	45798894	Silent	SNP	C	TCGA-BP-4799-01A-01D-1373-10		45798894	2331001	21	13992											
USP9Y	8287	hgsc.bcm.edu;ucsc.edu	37	chrY	14952324	14952324	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatacttttttatgaacaaAtggatatgatagatgaagat	17	14	7	3	0	0	5	0	3	0	2	0	6	0	6	0	1	2	0	0	1	7	6	novel		TCGA-BP-4799-01A-01D-1373-10	TCGA-BP-4799-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4bda2877-8fb7-4d05-b335-5d4528a555e5	f4ecc60a-f13d-4e80-aefd-ea2518dd5d93		G	14952324	A	G	14952324	3	3	276	1	0	0	0	0	1	0	0	0	17090	101	4	3	6006	3	USP9Y	24	14952324	Missense_Mutation	SNP	A	TCGA-BP-4799-01A-01D-1373-10		14952324	44421242	22	13993											
STIL	6491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47725984	47725984	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgatccacgttatgtgcAtttttcttcactttagtggg	6	17	10	8	2	2	1	1	1	1	0	3	1	3	1	1	1	1	2	1	1	2	6	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	47725984	A	C	47725984	3	2	277	1	0	0	0	0	1	0	0	0	15283	214	8	5	817	5	STIL	1	47725984	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08		47725984	201524637	1	13994											
LRRC42	115353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54433413	54433413	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaactcttccgagaaacTccagttctataaagagaaag	16	9	7	9	1	2	3	0	1	2	2	4	5	4	3	2	0	2	1	2	0	6	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	54433413	T	A	54433413	3	1	277	1	0	0	0	0	1	0	0	0	9000	1551	54	5	1114	5	LRRC42	1	54433413	Missense_Mutation	SNP	T	TCGA-BP-4801-01A-02D-1421-08	6707429	54433413	194817208	2	13995											
ATP8B2	57198	hgsc.bcm.edu	37	chr1	154316516	154316516	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggctagcatctatgaggagGttgagaacaacatgatggta	13	10	13	5	0	1	3	0	3	1	1	1	5	1	4	0	4	3	4	0	4	5	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	154316516	G	A	154316516	3	1	277	1	0	0	0	0	1	0	0	0	1195	1261	44	2	2205	2	ATP8B2	1	154316516	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	99883103	154316516	94934105	3	13996											
FAM5C	339479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	190067930	190067930	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggcatggacttctattcGtctgtccgttttctgcagca	7	15	9	10	2	3	0	0	0	3	0	5	1	4	1	1	2	2	4	1	2	2	5	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	190067930	G	A	190067930	4	1	277	1	0	0	0	0	0	1	0	0	5594	1153	40	1	785	1	FAM5C	1	190067930	Nonsense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	35751414	190067930	59182691	4	13997											
RGS18	64407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	192150572	192150572	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatgagaaatttatacagaCtgatgccccaaaagaggtac	17	9	8	7	0	0	4	0	2	0	3	0	5	0	4	2	1	3	1	2	1	7	5	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	192150572	C	G	192150572	3	3	277	1	0	0	0	0	1	0	0	0	13302	565	20	4	448	4	RGS18	1	192150572	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	2082642	192150572	57100049	5	13998											
GEN1	348654	hgsc.bcm.edu	37	chr2	17946312	17946312	+	Frame_Shift_Del	DEL	T	T	-																															cctttatggggcccagactgTttacaggaatttcactatga																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	17946312	T	-	17946312	7	5	277	1	0	1	0	1	0	0	0	0	6335	1725	60	0	507	0	GEN1	2	17946312	Frame_Shift_Del	DEL	T	TCGA-BP-4801-01A-02D-1421-08		17946312	225253061	6	13999											
PTPN4	5775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	120720267	120720267	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagttacctgccactctGaagaaggaaacactgcctat	14	8	7	12	0	1	2	0	1	1	1	1	3	1	3	4	1	4	1	4	1	6	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	120720267	G	T	120720267	4	4	277	1	0	0	0	0	0	1	0	0	12792	1291	45	4	2446	4	PTPN4	2	120720267	Nonsense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	102773955	120720267	122479106	7	14000											
IWS1	55677	broad.mit.edu;ucsc.edu	37	chr2	128262532	128262532	+	Missense_Mutation	SNP	T	A	A																															gtctggacgcatcctcagttTctgagtcactggcaggcccc																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	128262532	A	A	128262532	3	1	277	1	0	0	0	0	1	0	0	0	7931	1783	62	5	1560	5	IWS1	2	128262532	Missense_Mutation	SNP	T	TCGA-BP-4801-01A-02D-1421-08	7542265	128262532	114936841	8	14001	186	2									
IWS1	55677	broad.mit.edu;ucsc.edu	37	chr2	128262533	128262533	+	Nonsense_Mutation	SNP	C	A	A																															tctggacgcatcctcagtttCtgagtcactggcaggcccct																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	128262533	A	A	128262533	4	1	277	1	0	0	0	0	0	1	0	0	7931	922	32	4	1561	4	IWS1	2	128262533	Nonsense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	1	128262533	114936840	9	14002	186	2									
TTN	7273	broad.mit.edu	37	chr2	179604751	179604751	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgctggccacggctgcttgCaaagcccggcagatttgaat	8	9	12	12	3	0	2	0	1	0	1	1	2	0	2	2	3	3	5	2	3	2	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	179604751	G	G	179604751	3	3	277	1	0	0	0	0	1	0	0	0	16734	709	25	4	91580	4	TTN	2	179604751	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	51342218	179604751	63594622	10	14003											
TUBA4A	7277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220115231	220115231	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccctcttggcatacatcAggtcgaacttgtggtccagg	8	10	11	12	2	2	0	1	0	1	0	4	1	3	0	2	4	2	1	2	4	2	3	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	220115231	A	C	220115231	3	2	277	1	0	0	0	0	1	0	0	0	16748	188	7	5	160	5	TUBA4A	2	220115231	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08	40510480	220115231	23084142	11	14004											
TRAF3IP1	26146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	239233980	239233980	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtttcatgaagggcctcTacacagacgccgagatgaag	11	8	12	10	2	2	4	1	2	1	2	2	5	2	4	2	2	1	1	2	2	3	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	239233980	T	C	239233980	3	2	277	1	0	0	0	0	1	0	0	0	16439	1522	53	3	163	3	TRAF3IP1	2	239233980	Missense_Mutation	SNP	T	TCGA-BP-4801-01A-02D-1421-08	19118749	239233980	3965393	12	14005											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52696148	52696148	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttccagctacacacttaCtccttcagtcactgtgccct	9	12	5	15	0	2	0	2	0	0	0	4	0	4	0	3	0	4	2	3	0	3	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	52696148	A	A	52696148	5	1	277	1	0	0	0	0	0	0	1	0	11491	579	20	4	4479	4	PBRM1	3	52696148	Splice_Site	SNP	C	TCGA-BP-4801-01A-02D-1421-08		52696148	145326282	13	14006											
CRYGS	1427	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186256604	186256604	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggtagttgggtagctcatAgaaaatccagacaccctcca	13	8	9	11	1	1	2	1	0	0	2	3	2	3	2	3	2	1	4	3	2	5	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	186256604	A	T	186256604	3	4	277	1	0	0	0	0	1	0	0	0	3919	420	15	5	122	5	CRYGS	3	186256604	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08	133560456	186256604	11765826	14	14007											
NFXL1	152518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47880552	47880552	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaacattaccttgttttttCcagtgcagccatcagttttg	9	16	7	9	0	1	1	1	0	0	1	2	1	2	1	3	0	4	3	3	0	2	7	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	47880552	C	A	47880552	3	1	277	1	0	0	0	0	1	0	0	0	10388	855	30	4	694	4	NFXL1	4	47880552	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08		47880552	143273724	15	14008											
UBA6	55236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68547886	68547886	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaagaaaacatgggacttGgccatcttctgcattgctgt	10	13	9	9	0	2	1	0	0	2	1	2	2	2	2	1	2	3	2	1	2	3	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	68547886	G	A	68547886	2	1	277	1	0	0	0	0	0	0	0	1	16831	1335	47	2		2	UBA6	4	68547886	Silent	SNP	G	TCGA-BP-4801-01A-02D-1421-08	20667334	68547886	122606390	16	14009											
ARHGAP10	79658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148861022	148861022	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgggggtgagttcaaaGgtccagagacttctgagtat	9	12	15	5	0	2	3	1	2	1	1	3	4	3	3	1	3	0	3	1	3	2	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	148861022	G	C	148861022	3	2	277	1	0	0	0	0	1	0	0	0	862	991	35	4	1329	4	ARHGAP10	4	148861022	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	80313136	148861022	42293254	17	14010											
HIST1H2AH	85235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27115055	27115055	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttggagccggcgcgccaGtgtacctggctgcggtgctg	3	8	19	11	4	0	0	0	0	0	0	0	1	0	1	3	5	4	4	3	5	1	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	27115055	G	A	27115055	3	1	277	1	0	0	0	0	1	0	0	0	7134	1029	36	2	150	2	HIST1H2AH	6	27115055	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08		27115055	144000012	18	14011											
SYNGAP1	8831	broad.mit.edu	37	chr6	33411625	33411625	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtccccagagccaagttAtggccccgcccgtccacggc	7	5	11	18	3	0	1	0	0	0	1	2	1	2	1	7	2	1	2	7	2	2	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	33411625	G	G	33411625	3	3	277	1	0	0	0	0	1	0	0	0	15446	449	16	3	3354	3	SYNGAP1	6	33411625	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08	6296570	33411625	137703442	19	14012											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56500387	56500387	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataggttttgtattagtacCattgattcctgaacaaggtc	11	15	8	7	0	0	2	0	2	0	0	2	2	1	2	2	2	2	3	2	2	6	8	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	56500387	C	A	56500387	3	1	277	1	0	0	0	0	1	0	0	0	4783	608	21	4	18880	4	DST	6	56500387	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	23088762	56500387	114614680	20	14013											
FHL5	9457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	97063550	97063550	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagcgaatgctttaactgcGggaaatgctctgtctccttg	9	13	10	9	2	2	0	0	0	2	0	3	2	2	1	1	1	5	2	1	1	4	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	97063550	G	A	97063550	3	1	277	1	0	0	0	0	1	0	0	0	5881	1116	39	1	775	1	FHL5	6	97063550	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	40563163	97063550	74051517	21	14014											
WTAP	9589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160174528	160174528	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaatggcgaagtgtcgaatGcttatccaggagaatcaaga	14	10	11	6	2	1	2	1	0	0	2	3	5	2	2	1	2	1	1	1	2	6	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	160174528	G	A	160174528	3	1	277	1	0	0	0	0	1	0	0	0	17408	1319	46	2	515	2	WTAP	6	160174528	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	63110978	160174528	10940539	22	14015											
AMPH	273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	38429478	38429478	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtaagttcatcagaatttGctgcctcaaaatcatgcagt	13	12	8	8	0	4	1	4	0	0	1	4	1	4	1	1	1	3	4	1	1	4	3	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	38429478	G	A	38429478	3	1	277	1	0	0	0	0	1	0	0	0	588	1319	46	2	188	2	AMPH	7	38429478	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08		38429478	120709185	23	14016											
NCOA2	10499	hgsc.bcm.edu;ucsc.edu	37	chr8	71069452	71069452	+	Frame_Shift_Del	DEL	T	T	-																															tttgtccagtcagatccggaTtcatcacacacacattctgc																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	71069452	T	-	71069452	7	5	277	1	0	1	0	1	0	0	0	0	10229	1493	52	0	3298	0	NCOA2	8	71069452	Frame_Shift_Del	DEL	T	TCGA-BP-4801-01A-02D-1421-08		71069452	75294570	24	14017											
FAM135B	51059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	139165076	139165076	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgtaggtcagcactggggCctgtccatcctctggacctg	7	10	12	12	0	2	0	1	0	1	0	4	1	4	1	4	4	1	2	4	4	2	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	139165076	C	A	139165076	3	1	277	1	0	0	0	0	1	0	0	0	5449	739	26	4	2610	4	FAM135B	8	139165076	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	68095624	139165076	7198946	25	14018											
DOCK8	81704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	304680	304680	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtttgagtcggaaaccttGgagtgcagtgaacccgctgc	9	9	13	10	3	0	2	0	2	0	0	1	4	0	4	2	2	4	3	2	2	2	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	304680	G	A	304680	2	1	277	1	0	0	0	0	0	0	0	1	4693	1339	47	2		2	DOCK8	9	304680	Silent	SNP	G	TCGA-BP-4801-01A-02D-1421-08		304680	140908751	26	14019											
PCSK5	5125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	78601100	78601100	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggacaaagagggattatgActtcagtcgtgcccagtcta	11	9	12	9	2	2	2	1	1	1	1	3	4	2	4	1	2	1	0	1	2	3	3	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	78601100	A	C	78601100	3	2	277	1	0	0	0	0	1	0	0	0	11603	275	10	5	360	5	PCSK5	9	78601100	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08	78296420	78601100	62612331	27	14020											
AKNA	80709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117139683	117139683	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagctctctccagcctccTcaacctccagacttccgagg	8	8	8	17	1	2	1	1	0	1	1	7	3	6	2	6	2	3	1	6	2	1	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	117139683	T	A	117139683	3	1	277	1	0	0	0	0	1	0	0	0	463	1551	54	5	3995	5	AKNA	9	117139683	Missense_Mutation	SNP	T	TCGA-BP-4801-01A-02D-1421-08	38538583	117139683	24073748	28	14021											
ADAMTS13	11093	broad.mit.edu;hgsc.bcm.edu	37	chr9	136313849	136313849	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtcccgtgccctgctcGgtgagtgaggggagcaagac	6	7	17	11	2	0	3	0	2	0	1	2	4	1	4	2	4	3	3	2	4	1	0	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	136313849	G	C	136313849	3	2	277	1	0	0	0	0	1	0	0	0	258	1130	39	4	2947	4	ADAMTS13	9	136313849	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	19174166	136313849	4899582	29	14022											
HTR7	3363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	92617162	92617162	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtcagcagcgtgatgagCgtcaggatggagccgatcac	10	7	14	10	4	3	2	3	2	0	0	4	5	3	4	1	2	4	1	1	2	0	0	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	92617162	C	G	92617162	2	3	277	1	0	0	0	0	0	0	0	1	7452	755	27	4		4	HTR7	10	92617162	Silent	SNP	C	TCGA-BP-4801-01A-02D-1421-08		92617162	42917585	30	14023											
ATG2A	23130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64676580	64676580	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccttctccggggccacctcCcactgtgtgctgctggactg	3	10	11	17	1	1	0	0	0	1	0	3	1	2	1	5	3	2	2	5	3	0	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	64676580	C	G	64676580	3	3	277	1	0	0	0	0	1	0	0	0	1093	624	22	4	3673	4	ATG2A	11	64676580	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08		64676580	70329936	31	14024											
MRGPRD	116512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68747868	68747868	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagagggtcaggctggaCagagtcatcactggggttaa	13	7	14	7	0	3	2	3	0	0	2	3	3	3	3	0	5	0	2	0	5	2	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	68747868	C	G	68747868	2	3	277	1	0	0	0	0	0	0	0	1	9763	465	17	4		4	MRGPRD	11	68747868	Silent	SNP	C	TCGA-BP-4801-01A-02D-1421-08	4071288	68747868	66258648	32	14025											
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117332278	117332278	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtcagaagtgatggaCagggcccggacgttctcagg	9	6	15	11	3	2	2	2	1	1	1	3	4	2	4	2	4	0	1	2	4	1	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	117332278	C	G	117332278	2	3	277	1	0	0	0	0	0	0	0	1	4769	465	17	4		4	DSCAML1	11	117332278	Silent	SNP	C	TCGA-BP-4801-01A-02D-1421-08	48584410	117332278	17674238	33	14026											
PRMT8	56341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	3659255	3659255	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggccaagaaggtgtttGgggtgagcacgccgcttcct	7	8	16	10	2	0	2	0	1	0	1	1	2	1	2	3	5	1	3	3	5	2	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	3659255	G	A	3659255	3	1	277	1	0	0	0	0	1	0	0	0	12544	1348	47	2	425	2	PRMT8	12	3659255	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08		3659255	130192640	34	14027											
PTPRB	5787	broad.mit.edu;hgsc.bcm.edu	37	chr12	71029653	71029653	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggaacagcggtccaaGatggctgagcgggaggggcc	8	4	19	10	2	0	2	0	1	0	1	1	4	1	4	3	6	3	1	3	6	2	0	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	71029653	G	T	71029653	2	4	277	1	0	0	0	0	0	0	0	1	12798	932	33	4		4	PTPRB	12	71029653	Silent	SNP	G	TCGA-BP-4801-01A-02D-1421-08	67370398	71029653	62822242	35	14028											
HCFC2	29915	hgsc.bcm.edu;ucsc.edu	37	chr12	104476286	104476286	+	Frame_Shift_Del	DEL	T	T	-																															gttgttgctcaggatgtacaTttttggtggatgggtcccac																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	104476286	T	-	104476286	7	5	277	1	0	1	0	1	0	0	0	0	6993	1493	52	0	798	0	HCFC2	12	104476286	Frame_Shift_Del	DEL	T	TCGA-BP-4801-01A-02D-1421-08	33446633	104476286	29375609	36	14029											
ATP2A2	488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110783864	110783864	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggagaacatctggctcgtgGgctccatctgcctgtccatg	6	10	13	12	1	2	1	0	0	2	1	5	2	4	1	3	3	2	2	3	3	1	0	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	110783864	G	C	110783864	3	2	277	1	0	0	0	0	1	0	0	0	1137	1232	43	4	2874	4	ATP2A2	12	110783864	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	6307578	110783864	23068031	37	14030											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32906553	32906553	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtttttcattatgtttttCtaaatgtagaacaaaaaatc	15	18	4	4	0	2	1	1	0	1	1	3	1	2	1	0	0	1	3	0	0	9	8	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	32906553	C	A	32906553	3	1	277	1	0	0	0	0	1	0	0	0	1499	913	32	4	972	4	BRCA2	13	32906553	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08		32906553	82263325	38	14031											
DCT	1638	hgsc.bcm.edu;ucsc.edu	37	chr13	95092164	95092165	+	Frame_Shift_Del	DEL	TG	TG	-																															tgagcaccctaggcttcttcTgtgtatctcttgctgcttaa																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	95092165	TG	-	95092164	7	5	277	1	0	1	0	1	0	0	0	0	4304	1567	55	0	15	0	DCT	13	95092164	Frame_Shift_Del	DEL	TG	TCGA-BP-4801-01A-02D-1421-08	62185611	95092164	20077714	39	14032											
GPR183	1880	hgsc.bcm.edu;ucsc.edu	37	chr13	99947650	99947652	+	In_Frame_Del	DEL	AAT	AAT	-																															aaacagagaacaaacacaacAataataagaataattgtgtt																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	99947652	AAT	-	99947650	7	5	277	1	0	1	0	1	0	0	0	0	6678	126	5	0	339	0	GPR183	13	99947650	In_Frame_Del	DEL	AAT	TCGA-BP-4801-01A-02D-1421-08	4855486	99947650	15222228	40	14033											
SPRED1	161742	broad.mit.edu	37	chr15	38591664	38591664	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggagtggactaagcagCgtcactgtcttcaaagtccc	10	8	13	10	1	3	0	2	0	1	0	4	3	4	3	1	3	2	1	1	3	2	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	38591664	T	T	38591664	2	4	277	1	0	0	0	0	0	0	0	1	15093	767	27	1		1	SPRED1	15	38591664	Silent	SNP	C	TCGA-BP-4801-01A-02D-1421-08		38591664	63939728	41	14034											
SHF	90525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45470431	45470431	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggaccttctctggggctCctgaagctcctgctgagcct	5	10	12	14	0	1	2	0	2	1	0	4	3	3	3	4	3	3	3	4	3	1	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	45470431	C	A	45470431	3	1	277	1	0	0	0	0	1	0	0	0	14279	855	30	4	918	4	SHF	15	45470431	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	6878767	45470431	57060961	42	14035											
FES	2242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91430480	91430480	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaagctctttgctcaccAcaaccgctatgtgctgggcg	7	10	12	12	2	2	0	1	0	1	0	2	1	2	1	2	2	4	4	2	2	3	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	91430480	A	G	91430480	3	3	277	1	0	0	0	0	1	0	0	0	5820	159	6	3	562	3	FES	15	91430480	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08	45960049	91430480	11100912	43	14036											
TSC2	7249	hgsc.bcm.edu	37	chr16	2126068	2126068	+	Splice_Site	SNP	G	G	A																															ccagcccccttctcatctcaGgtttaatcagtacatcgtgt																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	2126068	G	A	2126068	5	1	277	1	0	0	0	0	0	0	1	0	16605	1014	35	2	2729	2	TSC2	16	2126068	Splice_Site	SNP	G	TCGA-BP-4801-01A-02D-1421-08		2126068	88228685	44	14037	187	2									
TSC2	7249	hgsc.bcm.edu	37	chr16	2126070	2126070	+	Missense_Mutation	SNP	T	T	A																															agcccccttctcatctcaggTttaatcagtacatcgtgtgt																								rs45463498	bycluster;alternate_allele	TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	2126070	T	A	2126070	3	1	277	1	0	0	0	0	1	0	0	0	16605	1739	60	5	2731	5	TSC2	16	2126070	Missense_Mutation	SNP	T	TCGA-BP-4801-01A-02D-1421-08	2	2126070	88228683	45	14038	187	2									
GPRC5B	51704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	19883415	19883415	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgccgaagaggtacatggtCatccaggccacccagatgag	11	7	12	11	1	1	3	1	1	0	2	2	4	2	3	4	3	2	1	4	3	2	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	19883415	C	T	19883415	3	4	277	1	0	0	0	0	1	0	0	0	6725	826	29	2	470	2	GPRC5B	16	19883415	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	17757345	19883415	70471338	46	14039											
IL21R	50615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27460474	27460474	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtttgacagtggctttgtggGctctgactgcagcagccctg	5	12	14	10	0	1	2	0	2	1	0	1	2	1	2	1	2	3	5	1	2	0	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	27460474	G	T	27460474	3	4	277	1	0	0	0	0	1	0	0	0	7671	1203	42	4	1517	4	IL21R	16	27460474	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	7577059	27460474	62894279	47	14040											
TSR1	55720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	2238674	2238674	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttagccatgtctaacaCaacgtgcagatcccctgcag	11	10	7	13	1	1	1	0	0	1	1	2	1	2	1	3	0	6	2	3	0	4	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	2238674	C	A	2238674	3	1	277	1	0	0	0	0	1	0	0	0	16663	478	17	4	2026	4	TSR1	17	2238674	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08		2238674	78956536	48	14041											
MIS12	79003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5392574	5392574	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagaagtacaagactgAattatgtactaagcaggccc	16	7	10	8	0	0	3	0	1	0	2	0	4	0	3	1	2	3	3	1	2	7	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	5392574	A	C	5392574	3	2	277	1	0	0	0	0	1	0	0	0	9594	246	9	5	394	5	MIS12	17	5392574	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08	3153900	5392574	75802636	49	14042											
TOP3A	7156	hgsc.bcm.edu;ucsc.edu	37	chr17	18178133	18178133	+	Frame_Shift_Del	DEL	A	A	-																															agctcatctgttctgaggacAaaagggacgggtgtgtccag																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	18178133	A	-	18178133	7	5	277	1	0	1	0	1	0	0	0	0	16366	130	5	0	20	0	TOP3A	17	18178133	Frame_Shift_Del	DEL	A	TCGA-BP-4801-01A-02D-1421-08	12785559	18178133	63017077	50	14043											
ASB16	92591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42249679	42249679	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcacgatccccgagtccttGcagtaggtgcctgggggctg	5	9	15	12	2	0	0	0	0	0	0	2	2	2	0	4	3	3	4	4	3	1	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	42249679	G	A	42249679	2	1	277	1	0	0	0	0	0	0	0	1	1020	1310	46	2		2	ASB16	17	42249679	Silent	SNP	G	TCGA-BP-4801-01A-02D-1421-08	24071546	42249679	38945531	51	14044											
OSBPL7	114881	broad.mit.edu	37	chr17	45891939	45891939	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcatctcctcagacaggctGgtggtgatttcactggtaca	9	11	11	10	0	3	2	2	1	1	1	4	2	3	2	1	4	2	3	1	4	1	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	45891939	C	C	45891939	2	2	277	1	0	0	0	0	0	0	0	1	11282	1335	47	4		4	OSBPL7	17	45891939	Silent	SNP	G	TCGA-BP-4801-01A-02D-1421-08	3642260	45891939	35303271	52	14045											
RAB40B	10966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80622419	80622419	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcaggatggtggtcgtCttgtagtcgatgcctgcgga	6	11	15	9	3	1	0	0	0	1	0	4	3	2	2	2	4	3	2	2	4	1	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	80622419	C	A	80622419	3	1	277	1	0	0	0	0	1	0	0	0	12943	912	32	4	700	4	RAB40B	17	80622419	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	34730480	80622419	572791	53	14046											
MRO	83876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	48335764	48335764	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggattctcctctgtctttGgtccatggaactaaaaacaa	12	12	7	10	0	3	0	0	0	3	0	5	2	4	2	2	3	2	0	2	3	5	3	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		T	48335764	G	T	48335764	3	4	277	1	0	0	0	0	1	0	0	0	9772	1357	47	4	763	4	MRO	18	48335764	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08		48335764	29741484	54	14047											
LMAN1	3998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	57013225	57013225	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaattcttgttgaaagtgcTcaaattcctcctgatacttt	10	16	5	10	0	2	2	1	2	1	0	4	2	4	2	3	0	2	2	3	0	4	6	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	57013225	T	C	57013225	3	2	277	1	0	0	0	0	1	0	0	0	8836	1551	54	3	675	3	LMAN1	18	57013225	Missense_Mutation	SNP	T	TCGA-BP-4801-01A-02D-1421-08	8677461	57013225	21064023	55	14048											
CACNA1A	773	hgsc.bcm.edu;ucsc.edu	37	chr19	13566012	13566013	+	Frame_Shift_Del	DEL	AT	AT	-																															ctatgatggtggctaaaatcAtatattcaaagggagtattg																								novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		-	13566013	AT	-	13566012	7	5	277	1	0	1	0	1	0	0	0	0	2538	217	8	0	7510	0	CACNA1A	19	13566012	Frame_Shift_Del	DEL	AT	TCGA-BP-4801-01A-02D-1421-08		13566012	45562971	56	14049											
COPE	11316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19014155	19014155	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcaggccgcctgcccattGagcagcagcagggtgggcga	7	5	17	12	2	0	1	0	1	0	0	0	2	0	1	3	4	4	4	3	4	0	1	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	19014155	G	A	19014155	2	1	277	1	0	0	0	0	0	0	0	1	3730	1277	45	2		2	COPE	19	19014155	Silent	SNP	G	TCGA-BP-4801-01A-02D-1421-08	5448143	19014155	40114828	57	14050											
PSG6	5675	broad.mit.edu;hgsc.bcm.edu	37	chr19	43415010	43415010	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagggcttgggagtctccGctgtgcagaaaacagagaga	11	7	16	7	1	1	3	0	0	1	3	2	6	1	5	1	3	2	3	1	3	2	1	rs186311462	by1000genomes	TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	43415010	G	A	43415010	3	1	277	1	0	0	0	0	1	0	0	0	12661	1101	38	1	934	1	PSG6	19	43415010	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	24400855	43415010	15713973	58	14051											
SIRPA	140885	hgsc.bcm.edu	37	chr20	1895842	1895842	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgctgcactgcgacctcTctgatccctgtggggcccat	4	10	11	16	2	1	1	0	1	1	0	3	2	2	1	3	2	3	2	3	2	0	0	rs17853847	bycluster;byfrequency;by1000genomes	TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	1895842	T	C	1895842	2	2	277	1	0	0	0	0	0	0	0	1	14334	1538	54	3		3	SIRPA	20	1895842	Silent	SNP	T	TCGA-BP-4801-01A-02D-1421-08		1895842	61129678	59	14052											
EDEM2	55741	broad.mit.edu;hgsc.bcm.edu	37	chr20	33703674	33703674	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtagaggtatttcacAgtctcggccaggaagaacga	13	7	14	7	2	2	2	1	0	1	2	3	5	2	4	1	5	1	2	1	5	4	3	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	33703674	A	C	33703674	2	2	277	1	0	0	0	0	0	0	0	1	4912	175	7	5		5	EDEM2	20	33703674	Silent	SNP	A	TCGA-BP-4801-01A-02D-1421-08	31807832	33703674	29321846	60	14053											
KIAA1755	85449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	36869596	36869596	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttttgaaataagggagtttCcttagttccagctatctcct	9	16	7	9	0	1	1	0	1	1	0	4	2	3	2	3	1	1	3	3	1	4	7	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	36869596	C	A	36869596	4	1	277	1	0	0	0	0	0	1	0	0	8257	864	30	4	2713	4	KIAA1755	20	36869596	Nonsense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	3165922	36869596	26155924	61	14054											
PLTP	5360	broad.mit.edu	37	chr20	44534935	44534935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccatgtccaggttgctggtgGaagccacaggatccttcatg	8	10	12	11	0	1	0	1	0	0	0	3	2	3	2	4	4	2	2	4	4	1	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	44534935	A	A	44534935	3	1	277	1	0	0	0	0	1	0	0	0	12114	1174	41	2	840	2	PLTP	20	44534935	Missense_Mutation	SNP	G	TCGA-BP-4801-01A-02D-1421-08	7665339	44534935	18490585	62	14055											
CECR1	51816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	17672628	17672628	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagggtgagtttccacaaActtctgagctacttcctggt	8	13	9	11	0	2	2	1	2	1	0	4	2	4	2	2	2	3	2	2	2	2	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		C	17672628	A	C	17672628	3	2	277	1	0	0	0	0	1	0	0	0	3205	43	2	5	733	5	CECR1	22	17672628	Missense_Mutation	SNP	A	TCGA-BP-4801-01A-02D-1421-08		17672628	33631938	63	14056											
EWSR1	2130	broad.mit.edu;hgsc.bcm.edu	37	chr22	29686417	29686417	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacaggttacaaagtgagagCcttgtatacacttcaatact	14	12	7	8	0	1	1	1	1	0	1	1	2	1	1	1	1	5	2	1	1	7	7	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	29686417	C	A	29686417	3	1	277	1	0	0	0	0	1	0	0	0	5296	738	26	4	1046	4	EWSR1	22	29686417	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	12013789	29686417	21618149	64	14057											
BRD1	23774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50191673	50191673	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatcaaaatcctcctcaaaCtcatggaggtttttataccc	13	12	5	11	0	3	1	3	0	0	1	5	2	5	2	3	2	2	1	3	2	5	4	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		G	50191673	C	G	50191673	3	3	277	1	0	0	0	0	1	0	0	0	1501	564	20	4	1330	4	BRD1	22	50191673	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08	20505256	50191673	1112893	65	14058											
G6PD	2539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153762612	153762612	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtggtcgatgcggtagatCtggtcctcacggaacaggga	9	9	15	8	3	2	1	1	0	1	1	4	4	3	3	1	5	2	1	1	5	3	2	novel		TCGA-BP-4801-01A-02D-1421-08	TCGA-BP-4801-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d3e62cb1-5ced-42cb-a360-479ee01877aa	8e5edfea-ec07-46dd-824f-6b0ea9a34e3e		A	153762612	C	A	153762612	3	1	277	1	0	0	0	0	1	0	0	0	6146	912	32	4	994	4	G6PD	23	153762612	Missense_Mutation	SNP	C	TCGA-BP-4801-01A-02D-1421-08		153762612	1507948	66	14059											
LRRC8D	55144	hgsc.bcm.edu;ucsc.edu	37	chr1	90400549	90400549	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaatgtcgctgagctggAactccagaactgtgagctag	11	9	13	8	1	0	4	0	3	0	1	2	6	1	5	1	1	4	3	1	1	4	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	90400549	A	C	90400549	3	2	278	1	0	0	0	0	1	0	0	0	9024	246	9	5	1924	5	LRRC8D	1	90400549	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10		90400549	158850072	1	14060											
GFI1	2672	hgsc.bcm.edu;ucsc.edu	37	chr1	92944149	92944149	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttttagctcaccagtGtggatgaaagtgtgtttctt	7	16	11	7	0	2	1	1	1	1	0	2	2	2	2	2	2	1	2	2	2	2	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	92944149	G	A	92944149	2	1	278	1	0	0	0	0	0	0	0	1	6339	1368	48	2		2	GFI1	1	92944149	Silent	SNP	G	TCGA-BP-4803-01A-01D-1373-10	2543600	92944149	156306472	2	14061											
SELE	6401	hgsc.bcm.edu;ucsc.edu	37	chr1	169695896	169695896	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctaatgtcaggagggagAgtccagcagcagaaagtcca	13	6	14	8	0	1	2	1	0	0	2	3	4	3	3	2	2	3	3	2	2	2	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	169695896	A	G	169695896	3	3	278	1	0	0	0	0	1	0	0	0	14015	304	11	3	147	3	SELE	1	169695896	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	76751747	169695896	79554725	3	14062											
CDC73	79577	hgsc.bcm.edu;ucsc.edu	37	chr1	193094288	193094289	+	Frame_Shift_Ins	INS	-	-	T																															gtactacacattggattccaINSttttatttctacttaataac																								novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	193094289	-	T	193094288	7	5	278	1	0	1	1	0	0	0	0	0	3085	217	8	0	184	0	CDC73	1	193094288	Frame_Shift_Ins	INS	-	TCGA-BP-4803-01A-01D-1373-10	23398392	193094288	56156333	4	14063											
ADD2	119	hgsc.bcm.edu	37	chr2	70917963	70917963	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaggttgatccgatcggcTtcctgctccatttccccatt	5	14	8	14	2	0	1	0	1	0	0	5	2	4	1	5	2	2	4	5	2	0	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	70917963	T	A	70917963	3	1	278	1	0	0	0	0	1	0	0	0	305	1606	56	5	1589	5	ADD2	2	70917963	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10		70917963	172281410	5	14064											
DNAH6	1768	hgsc.bcm.edu;ucsc.edu	37	chr2	84931422	84931422	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatctccattcttttgaatGccaagtgagtaattcagagt	12	14	7	8	0	3	3	1	2	2	1	4	3	3	3	2	0	1	1	2	0	4	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	84931422	G	A	84931422	3	1	278	1	0	0	0	0	1	0	0	0	4605	1319	46	2	8659	2	DNAH6	2	84931422	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	14013459	84931422	158267951	6	14065											
USP39	10713	hgsc.bcm.edu;ucsc.edu	37	chr2	85866457	85866457	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacgagaaggagcagctcatCattccccaagtgccactctt	11	8	9	13	1	3	1	2	0	1	1	4	4	4	2	3	1	3	2	3	1	2	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	85866457	C	T	85866457	2	4	278	1	0	0	0	0	0	0	0	1	17069	816	29	2		2	USP39	2	85866457	Silent	SNP	C	TCGA-BP-4803-01A-01D-1373-10	935035	85866457	157332916	7	14066											
DNAJC10	54431	hgsc.bcm.edu	37	chr2	183622508	183622508	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgttcaaagataccctgaGataagattttttcccccaaa	15	11	5	10	1	1	3	1	1	0	3	2	4	2	3	3	0	2	1	3	0	5	6	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	183622508	G	A	183622508	2	1	278	1	0	0	0	0	0	0	0	1	4629	933	33	2		2	DNAJC10	2	183622508	Silent	SNP	G	TCGA-BP-4803-01A-01D-1373-10	97756051	183622508	59576865	8	14067											
FAM134A	79137	hgsc.bcm.edu	37	chr2	220046449	220046449	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatcttggagagtggtggcTtctccgtatcccgggccaca	6	11	12	12	2	2	1	0	0	2	1	4	2	3	1	3	4	0	2	3	4	2	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	220046449	T	A	220046449	3	1	278	1	0	0	0	0	1	0	0	0	5445	1609	56	5	997	5	FAM134A	2	220046449	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	36423941	220046449	23152924	9	14068											
PBRM1	55193	ucsc.edu	37	chr3	52682360	52682362	+	In_Frame_Del	DEL	CTT	CTT	-																															acaacaacaacaaaactaacCttgaatacttgagagccagg																								novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	CTT	CTT	CTT	-	CTT	CTT	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		-	52682362	CTT	-	52682360	7	5	278	1	0	1	0	1	0	0	0	0	11491	695	24	0	4183	0	PBRM1	3	52682360	In_Frame_Del	DEL	CTT	TCGA-BP-4803-01A-01D-1373-10		52682360	145340070	10	14069											
SLC41A3	54946	hgsc.bcm.edu	37	chr3	125769795	125769795	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtccacttacagctgtggaGagtctggatgccagtgtcat	8	12	12	9	0	2	1	1	0	1	1	3	3	3	2	2	2	3	1	2	2	1	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	125769795	G	C	125769795	2	2	278	1	0	0	0	0	0	0	0	1	14633	929	33	4		4	SLC41A3	3	125769795	Silent	SNP	G	TCGA-BP-4803-01A-01D-1373-10	73087435	125769795	72252635	11	14070											
CLSTN2	64084	hgsc.bcm.edu;ucsc.edu	37	chr3	140282917	140282917	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacttcatccaggagaCtgaggctgccaaggaatctg	11	7	11	12	0	2	2	1	1	1	1	3	4	3	3	3	3	2	2	3	3	2	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	140282917	C	A	140282917	3	1	278	1	0	0	0	0	1	0	0	0	3562	565	20	4	2659	4	CLSTN2	3	140282917	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10	14513122	140282917	57739513	12	14071											
ACAP2	23527	hgsc.bcm.edu;ucsc.edu	37	chr3	195013057	195013057	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattggcccagttcacgtcTgcaccatgagccaaagcctc	10	8	9	14	1	2	1	1	1	1	0	3	2	2	1	4	1	3	2	4	1	2	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	195013057	T	C	195013057	2	2	278	1	0	0	0	0	0	0	0	1	119	1567	55	3		3	ACAP2	3	195013057	Silent	SNP	T	TCGA-BP-4803-01A-01D-1373-10	54730140	195013057	3009373	13	14072											
ANXA3	306	hgsc.bcm.edu;ucsc.edu	37	chr4	79516573	79516573	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaagtggatgagcatctGgccaaacaagatgcccaggt	13	7	12	9	0	1	3	0	2	1	1	1	4	1	4	2	3	3	1	2	3	3	0	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	79516573	G	A	79516573	2	1	278	1	0	0	0	0	0	0	0	1	719	1335	47	2		2	ANXA3	4	79516573	Silent	SNP	G	TCGA-BP-4803-01A-01D-1373-10		79516573	111637703	14	14073											
FAT1	2195	hgsc.bcm.edu;ucsc.edu	37	chr4	187549412	187549412	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccgattcataaacccgcCctttgtaggaggaagcggtg	9	9	12	11	3	1	0	1	0	0	0	1	3	1	2	3	3	3	1	3	3	4	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	187549412	C	T	187549412	3	4	278	1	0	0	0	0	1	0	0	0	5689	623	22	2	9136	2	FAT1	4	187549412	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10	108032839	187549412	3604864	15	14074											
TARS	6897	hgsc.bcm.edu;ucsc.edu	37	chr5	33458717	33458717	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcagccctggaagttgctTttttctgccaaaaggagcct	9	12	9	11	0	2	0	1	0	1	0	2	2	2	2	3	2	4	2	3	2	3	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	33458717	T	C	33458717	3	2	278	1	0	0	0	0	1	0	0	0	15558	1841	64	3	1069	3	TARS	5	33458717	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10		33458717	147456543	16	14075											
DMXL1	1657	hgsc.bcm.edu;ucsc.edu	37	chr5	118506472	118506472	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagagaaaaacagataaaAagttggatgacataagttct	20	9	8	4	0	1	3	0	1	1	2	1	5	1	4	0	1	2	2	0	1	7	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	118506472	A	G	118506472	3	3	278	1	0	0	0	0	1	0	0	0	4594	15	1	3	6080	3	DMXL1	5	118506472	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	85047755	118506472	62408788	17	14076											
HSD17B4	3295	hgsc.bcm.edu;ucsc.edu	37	chr5	118809663	118809663	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttagctgctgataaggTtgttgaagaaataagaagga	14	11	11	5	0	0	4	0	2	0	2	1	5	1	5	1	2	2	4	1	2	6	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	118809663	T	C	118809663	3	2	278	1	0	0	0	0	1	0	0	0	7386	1725	60	3	183	3	HSD17B4	5	118809663	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	303191	118809663	62105597	18	14077											
ZNF608	57507	hgsc.bcm.edu;ucsc.edu	37	chr5	123984358	123984358	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctaagtgtgcatgagcctgGtggtacctcaggccgttaat	8	12	12	9	1	2	1	1	1	1	0	2	1	2	1	3	3	3	3	3	3	3	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	123984358	G	C	123984358	3	2	278	1	0	0	0	0	1	0	0	0	18033	1252	44	4	2843	4	ZNF608	5	123984358	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	5174695	123984358	56930902	19	14078											
RANBP17	64901	hgsc.bcm.edu;ucsc.edu	37	chr5	170305135	170305135	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtgttatgtactcatcTctacatagggactgatctta	11	14	9	7	0	3	1	1	1	2	0	4	3	3	3	0	2	2	2	0	2	6	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	170305135	T	G	170305135	3	3	278	1	0	0	0	0	1	0	0	0	13029	1551	54	5	59	5	RANBP17	5	170305135	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	46320777	170305135	10610125	20	14079											
BTNL3	10917	hgsc.bcm.edu;ucsc.edu	37	chr5	180432688	180432688	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccagcacccctcctacacGagtaggggtcttcctggact	7	8	9	17	1	1	0	0	0	1	0	3	2	3	1	6	3	2	2	6	3	2	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	180432688	G	A	180432688	3	1	278	1	0	0	0	0	1	0	0	0	1566	1058	37	1	1247	1	BTNL3	5	180432688	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	10127553	180432688	482572	21	14080											
NMBR	4829	hgsc.bcm.edu;ucsc.edu	37	chr6	142397016	142397016	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgacacaagaattgccAaaactgagaacccgggcaac	15	5	11	10	1	0	3	0	2	0	2	0	4	0	3	2	2	4	2	2	2	6	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	142397016	A	G	142397016	2	3	278	1	0	0	0	0	0	0	0	1	10487	127	5	3		3	NMBR	6	142397016	Silent	SNP	A	TCGA-BP-4803-01A-01D-1373-10		142397016	28718051	22	14081											
SYNJ2	8871	hgsc.bcm.edu	37	chr6	158499241	158499241	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatctagatgttgacaccaAagtcagacacacctggtctc	12	10	8	11	0	3	4	1	2	2	2	4	4	3	4	2	1	0	1	2	1	2	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	158499241	A	C	158499241	3	2	278	1	0	0	0	0	1	0	0	0	15452	14	1	5	2565	5	SYNJ2	6	158499241	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	16102225	158499241	12615826	23	14082											
PNLDC1	154197	hgsc.bcm.edu;ucsc.edu	37	chr6	160240086	160240086	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccataagtttcagaatCtctgcaagtttgatgtcagg	11	14	8	8	0	4	2	2	1	2	1	5	2	4	2	1	1	2	3	1	1	4	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	160240086	C	A	160240086	3	1	278	1	0	0	0	0	1	0	0	0	12148	913	32	4	1395	4	PNLDC1	6	160240086	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10	1740845	160240086	10874981	24	14083											
DFNA5	1687	hgsc.bcm.edu;ucsc.edu	37	chr7	24784219	24784219	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagctgctgcaaatccacCtcctgcttcctcagggttcc	7	11	8	15	0	1	1	1	1	0	0	5	1	5	1	5	1	4	5	5	1	1	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	24784219	C	G	24784219	3	3	278	1	0	0	0	0	1	0	0	0	4454	680	24	4	1156	4	DFNA5	7	24784219	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10		24784219	134354444	25	14084											
PVRIG	79037	hgsc.bcm.edu	37	chr7	99818783	99818783	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggactctacgctcaggcagGggagaggcctcctcacactg	8	7	13	13	1	3	1	2	0	1	1	4	3	4	2	2	5	1	2	2	5	1	1	rs145493958		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	99818783	G	A	99818783	3	1	278	1	0	0	0	0	1	0	0	0	12840	1232	43	2	908	2	PVRIG	7	99818783	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	75034564	99818783	59319880	26	14085											
AGPAT6	137964	hgsc.bcm.edu;ucsc.edu	37	chr8	41476308	41476308	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattgtctgcagcgtgtggTacctgcctcccatgactaga	7	11	10	13	1	1	2	0	1	1	1	2	2	2	2	4	1	4	2	4	1	2	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	41476308	T	C	41476308	3	2	278	1	0	0	0	0	1	0	0	0	391	1638	57	3	1197	3	AGPAT6	8	41476308	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10		41476308	104887714	27	14086											
RUNX1T1	862	hgsc.bcm.edu	37	chr8	92982930	92982930	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gataactgccagtgcgtcctCcgccgcctgccgtttggcct	4	10	11	16	4	0	0	0	0	0	0	2	1	2	0	7	1	4	1	7	1	1	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	92982930	C	A	92982930	4	1	278	1	0	0	0	0	0	1	0	0	13749	864	30	4	327	4	RUNX1T1	8	92982930	Nonsense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10	51506622	92982930	53381092	28	14087											
ABCA1	19	hgsc.bcm.edu;ucsc.edu	37	chr9	107589428	107589428	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacaccacgctgggatcaCtgtagggcagcaggtttcct	10	8	11	12	1	1	0	1	0	0	0	2	1	2	1	2	3	2	5	2	3	2	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	107589428	C	T	107589428	3	4	278	1	0	0	0	0	1	0	0	0	28	565	20	2	4787	2	ABCA1	9	107589428	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10		107589428	33624003	29	14088											
C9orf84	158401	hgsc.bcm.edu;ucsc.edu	37	chr9	114490155	114490155	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttactggttcttggtcattcTttggtttttcttcttttgct	2	25	7	7	0	5	0	1	0	4	0	5	0	5	0	0	3	2	3	0	3	1	10	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	114490155	T	G	114490155	3	3	278	1	0	0	0	0	1	0	0	0	2500	1609	56	5	2998	5	C9orf84	9	114490155	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	6900727	114490155	26723276	30	14089											
C9orf173	441476	hgsc.bcm.edu;ucsc.edu	37	chr9	140146888	140146888	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccatcctccaactacaGagggcggtggccgcagggca	8	6	12	15	2	1	1	0	0	1	1	4	1	3	1	4	4	2	2	4	4	2	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	140146888	G	T	140146888	5	4	278	1	0	0	0	0	0	0	1	0	2472	956	33	4	417	4	C9orf173	9	140146888	Splice_Site	SNP	G	TCGA-BP-4803-01A-01D-1373-10	25656733	140146888	1066543	31	14090											
FAM178A	55719	hgsc.bcm.edu;ucsc.edu	37	chr10	102697179	102697179	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtcagttcatacagaCtgtattgtgtcagtgcagat	11	14	10	6	0	3	3	3	1	0	2	3	3	3	3	0	0	2	3	0	0	2	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	102697179	C	T	102697179	2	4	278	1	0	0	0	0	0	0	0	1	5503	564	20	2		2	FAM178A	10	102697179	Silent	SNP	C	TCGA-BP-4803-01A-01D-1373-10		102697179	32837568	32	14091											
C10orf84	0	hgsc.bcm.edu;ucsc.edu	37	chr10	120085698	120085698	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctggttgctgagttcctCagccttctcaatattccact	7	15	7	12	0	2	1	2	1	1	0	5	1	4	1	3	1	3	4	3	1	3	6	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	120085698	C	A	120085698	4	1	278	1	0	0	0	0	0	1	0	0	1621	835	29	4	202	4	C10orf84	10	120085698	Nonsense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10	17388519	120085698	15449049	33	14092											
RNF141	50862	hgsc.bcm.edu	37	chr11	10536463	10536463	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagactttcacttcaaggTcatggcctgtggggctggcc	8	10	13	10	0	3	2	3	0	0	2	3	2	3	2	2	5	0	1	2	5	2	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	10536463	T	A	10536463	3	1	278	1	0	0	0	0	1	0	0	0	13446	1680	58	5	3	5	RNF141	11	10536463	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10		10536463	124470053	34	14093											
MRPL16	54948	hgsc.bcm.edu;ucsc.edu	37	chr11	59577390	59577390	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcggggaggagtgcccagGaatctacaaagacaaatcaa	15	5	13	8	1	2	1	1	0	1	1	2	4	2	4	1	5	2	0	1	5	5	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	59577390	G	T	59577390	3	4	278	1	0	0	0	0	1	0	0	0	9781	1174	41	4	708	4	MRPL16	11	59577390	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	49040927	59577390	75429126	35	14094											
MTL5	9633	hgsc.bcm.edu	37	chr11	68483356	68483356	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaagttgttgcaacaattAttacaattgcagttgttgca	12	15	8	6	0	0	0	0	0	0	0	0	0	0	0	0	0	6	8	0	0	6	7	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	68483356	A	G	68483356	2	3	278	1	0	0	0	0	0	0	0	1	9936	446	16	3		3	MTL5	11	68483356	Silent	SNP	A	TCGA-BP-4803-01A-01D-1373-10	8905966	68483356	66523160	36	14095											
CLSTN3	9746	hgsc.bcm.edu	37	chr12	7286184	7286184	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggtgagatctgcggctTccggctccatgggtctgggg	4	9	17	11	2	2	1	0	1	2	1	4	2	4	1	3	6	1	2	3	6	0	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	7286184	T	C	7286184	3	2	278	1	0	0	0	0	1	0	0	0	3563	1783	62	3	213	3	CLSTN3	12	7286184	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10		7286184	126565711	37	14096											
PRICKLE1	144165	hgsc.bcm.edu;ucsc.edu	37	chr12	42854246	42854246	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggattgagacttggaccTtctgagcactggcagatgta	9	12	12	8	0	2	3	0	2	2	2	2	6	2	5	1	3	1	3	1	3	1	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	42854246	T	G	42854246	2	3	278	1	0	0	0	0	0	0	0	1	12488	1608	56	5		5	PRICKLE1	12	42854246	Silent	SNP	T	TCGA-BP-4803-01A-01D-1373-10	35568062	42854246	90997649	38	14097											
GPR182	11318	hgsc.bcm.edu	37	chr12	57390041	57390041	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaaggcgggcacatgcGcctcctcttcctcctgttcc	6	9	9	17	2	1	1	0	0	1	1	5	1	5	1	6	2	1	2	6	2	1	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	57390041	G	A	57390041	3	1	278	1	0	0	0	0	1	0	0	0	6677	1087	38	1	1050	1	GPR182	12	57390041	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	14535795	57390041	76461854	39	14098											
IL22	50616	hgsc.bcm.edu	37	chr12	68647174	68647174	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaagagaaggaggcagcTggtggccagggtccccataa	11	4	16	10	0	0	1	0	0	0	1	1	3	1	2	4	6	1	2	4	6	3	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	68647174	T	C	68647174	3	2	278	1	0	0	0	0	1	0	0	0	7672	1580	55	3	504	3	IL22	12	68647174	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	11257133	68647174	65204721	40	14099											
FMN1	342184	hgsc.bcm.edu;ucsc.edu	37	chr15	33358776	33358776	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcaaacacagctcttagcGactccttctcatgtctcatc	9	13	5	14	1	4	0	3	0	3	0	8	1	5	0	1	0	3	2	1	0	2	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	33358776	G	A	33358776	3	1	278	1	0	0	0	0	1	0	0	0	5949	1059	37	1	2348	1	FMN1	15	33358776	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10		33358776	69172616	41	14100											
GATM	2628	hgsc.bcm.edu	37	chr15	45654318	45654318	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcctgttcagtccaagtAggactgtaaggtgcctcggc	8	9	13	11	1	1	0	1	0	0	0	3	1	2	1	3	4	1	3	3	4	3	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	45654318	A	C	45654318	3	2	278	1	0	0	0	0	1	0	0	0	6263	420	15	5	14	5	GATM	15	45654318	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	12295542	45654318	56877074	42	14101											
PML	5371	hgsc.bcm.edu	37	chr15	74328141	74328141	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcccagactcttggagcagGtgttccccctggggactctg	6	9	13	13	0	2	1	0	0	2	1	3	3	3	3	3	4	2	2	3	4	0	2	rs743581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	74328141	G	T	74328141	3	4	278	1	0	0	0	0	1	0	0	0	12135	1261	44	4	2503	4	PML	15	74328141	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	28673823	74328141	28203251	43	14102											
ZNF597	146434	hgsc.bcm.edu;ucsc.edu	37	chr16	3486668	3486668	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggtcatgtcacagtcaGgacactgtaagggcttgaat	13	9	12	7	0	3	1	3	1	0	0	3	3	3	2	0	3	0	2	0	3	3	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	3486668	G	A	3486668	3	1	278	1	0	0	0	0	1	0	0	0	18026	1000	35	2	247	2	ZNF597	16	3486668	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10		3486668	86868085	44	14103											
DNAH3	55567	hgsc.bcm.edu;ucsc.edu	37	chr16	21117847	21117847	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccatcaggaactccagccGttcacttgcatctctaagtt	9	12	7	13	1	3	0	2	0	1	0	6	1	5	1	3	1	3	3	3	1	2	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	21117847	G	T	21117847	2	4	278	1	0	0	0	0	0	0	0	1	4603	1144	40	4		4	DNAH3	16	21117847	Silent	SNP	G	TCGA-BP-4803-01A-01D-1373-10	17631179	21117847	69236906	45	14104											
CENPN	55839	hgsc.bcm.edu;ucsc.edu	37	chr16	81056260	81056260	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggacctgagaagtcggtAtctggactctcttaaggcta	11	11	11	8	1	2	1	0	1	2	1	4	4	2	3	1	4	0	2	1	4	5	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	81056260	A	C	81056260	3	2	278	1	0	0	0	0	1	0	0	0	3238	449	16	5	612	5	CENPN	16	81056260	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	59938413	81056260	9298493	46	14105											
SLC2A4	6517	hgsc.bcm.edu;ucsc.edu	37	chr17	7186902	7186902	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggccctctccgtggccatCttttccgtgggcggcatgat	3	12	13	13	3	2	1	0	1	2	0	4	1	3	1	4	4	0	1	4	4	0	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	7186902	C	G	7186902	3	3	278	1	0	0	0	0	1	0	0	0	14548	903	32	4	271	4	SLC2A4	17	7186902	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10		7186902	74008308	47	14106											
PER1	5187	hgsc.bcm.edu	37	chr17	8051110	8051110	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgggcacagaagcggatagGggagtggtcaaagggctggc	10	4	20	7	2	1	1	1	0	0	1	1	3	1	3	0	7	1	2	0	7	3	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	8051110	G	C	8051110	3	2	278	1	0	0	0	0	1	0	0	0	11729	1232	43	4	2654	4	PER1	17	8051110	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	864208	8051110	73144100	48	14107											
C17orf53	78995	hgsc.bcm.edu	37	chr17	42225907	42225907	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgaccccccttgagacctGgtgctgtgggtcaccttcct	5	10	10	16	1	1	1	1	1	0	1	2	3	2	1	6	2	1	1	6	2	0	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	42225907	G	T	42225907	3	4	278	1	0	0	0	0	1	0	0	0	1862	1348	47	4	746	4	C17orf53	17	42225907	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	34174797	42225907	38969303	49	14108											
PPM1E	22843	hgsc.bcm.edu;ucsc.edu	37	chr17	57057404	57057404	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgttctggatgggaccgAagactacctcattctggcct	8	11	10	12	1	3	1	1	0	2	1	3	4	3	3	3	3	1	1	3	3	2	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	57057404	A	C	57057404	3	2	278	1	0	0	0	0	1	0	0	0	12340	246	9	5	1306	5	PPM1E	17	57057404	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	14831497	57057404	24137806	50	14109											
SMURF2	64750	hgsc.bcm.edu;ucsc.edu	37	chr17	62574659	62574659	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaccagtctgtgtatgtaAgaaatacacctggccttgtt	11	12	8	10	0	1	1	0	0	1	1	1	1	1	1	3	1	1	3	3	1	4	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	62574659	A	T	62574659	3	4	278	1	0	0	0	0	1	0	0	0	14822	69	3	5	1482	5	SMURF2	17	62574659	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	5517255	62574659	18620551	51	14110											
QRICH2	84074	hgsc.bcm.edu	37	chr17	74288814	74288814	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccatgccaggctgatctAcaccaggctgtaccaagaca	12	6	10	13	0	1	2	0	1	1	1	1	3	1	3	4	3	3	3	4	3	3	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	74288814	A	T	74288814	3	4	278	1	0	0	0	0	1	0	0	0	12882	391	14	5	3559	5	QRICH2	17	74288814	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	11714155	74288814	6906396	52	14111											
CCDC11	220136	hgsc.bcm.edu;ucsc.edu	37	chr18	47753857	47753857	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgtccaaacacatcttgTttgctgctacacctgcttca	8	14	5	14	0	2	0	1	0	1	0	3	0	3	0	3	0	5	4	3	0	2	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	47753857	T	C	47753857	3	2	278	1	0	0	0	0	1	0	0	0	2746	1725	60	3	109	3	CCDC11	18	47753857	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10		47753857	30323391	53	14112											
PLIN4	729359	hgsc.bcm.edu	37	chr19	4511365	4511365	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccactttcgcagcaccggtCaccccactgccaagggtgtt	7	8	10	16	2	1	0	1	0	0	0	2	0	1	0	5	2	2	3	5	2	1	2	rs116973517	byfrequency;by1000genomes	TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	4511365	C	G	4511365	2	3	278	1	0	0	0	0	0	0	0	1	12092	813	29	4		4	PLIN4	19	4511365	Silent	SNP	C	TCGA-BP-4803-01A-01D-1373-10		4511365	54617618	54	14113											
GPR108	56927	hgsc.bcm.edu;ucsc.edu	37	chr19	6736679	6736679	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccagagagccattggtgTagaaaccgaagctgttcagc	11	8	11	11	1	1	2	1	0	0	2	2	4	2	2	4	1	4	3	4	1	3	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	6736679	T	C	6736679	3	2	278	1	0	0	0	0	1	0	0	0	6624	1638	57	3	1535	3	GPR108	19	6736679	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	2225314	6736679	52392304	55	14114											
CCDC151	115948	hgsc.bcm.edu	37	chr19	11533441	11533441	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgcttctcctgcttcAgcctcaccaacgtctgctcg	4	14	8	15	2	4	0	2	0	2	0	6	0	4	0	3	0	5	5	3	0	1	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	11533441	A	T	11533441	3	4	278	1	0	0	0	0	1	0	0	0	2786	188	7	5	602	5	CCDC151	19	11533441	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	4796762	11533441	47595542	56	14115											
PDCD2L	84306	hgsc.bcm.edu	37	chr19	34900211	34900211	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacgtagactggactgctcGgctccaagacctccgcctgc	8	7	11	15	3	0	3	0	0	0	3	3	4	2	4	4	2	2	3	4	2	2	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	34900211	G	T	34900211	3	4	278	1	0	0	0	0	1	0	0	0	11620	1116	39	4	496	4	PDCD2L	19	34900211	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10	23366770	34900211	24228772	57	14116											
ZNF573	126231	hgsc.bcm.edu;ucsc.edu	37	chr19	38229952	38229952	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaataaggtttgagccagtaCtataggccttcccacattcc	11	11	8	11	0	0	1	0	1	0	0	2	2	2	1	4	2	2	2	4	2	5	7	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	38229952	C	T	38229952	3	4	278	1	0	0	0	0	1	0	0	0	18004	565	20	2	562	2	ZNF573	19	38229952	Missense_Mutation	SNP	C	TCGA-BP-4803-01A-01D-1373-10	3329741	38229952	20899031	58	14117											
IDH3B	3420	hgsc.bcm.edu;ucsc.edu	37	chr20	2641180	2641180	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaaggcgaactttgcaatCcgctgagacttggctcgtgt	9	11	11	10	3	1	1	1	1	0	1	3	3	2	1	1	2	2	3	1	2	3	2	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	2641180	C	A	2641180	2	1	278	1	0	0	0	0	0	0	0	1	7497	842	30	4		4	IDH3B	20	2641180	Silent	SNP	C	TCGA-BP-4803-01A-01D-1373-10		2641180	60384340	59	14118											
PCMTD2	55251	hgsc.bcm.edu;ucsc.edu	37	chr20	62891425	62891425	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaggctttcagagctaTcgatcgtgcagactattatc	11	11	10	9	2	1	3	1	0	0	3	4	4	1	3	0	1	3	4	0	1	3	4	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		G	62891425	T	G	62891425	3	3	278	1	0	0	0	0	1	0	0	0	11587	1435	50	5	109	5	PCMTD2	20	62891425	Missense_Mutation	SNP	T	TCGA-BP-4803-01A-01D-1373-10	60250245	62891425	134095	60	14119											
NCAPH2	29781	hgsc.bcm.edu;ucsc.edu	37	chr22	50960440	50960440	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaccatgccgacagcaggcgGcttcggcgaaagggtccgtc	8	5	15	13	5	0	0	0	0	0	0	3	3	1	0	3	4	2	2	3	4	1	1	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	50960440	G	A	50960440	2	1	278	1	0	0	0	0	0	0	0	1	10210	1190	42	2		2	NCAPH2	22	50960440	Silent	SNP	G	TCGA-BP-4803-01A-01D-1373-10		50960440	344126	61	14120											
MAP7D2	256714	hgsc.bcm.edu	37	chrX	20060638	20060638	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttggatatcacaggagaaGatggtctcttaggaatgcct	12	11	11	7	0	2	2	1	0	1	2	3	5	2	4	1	4	1	0	1	4	4	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		A	20060638	G	A	20060638	3	1	278	1	0	0	0	0	1	0	0	0	9268	942	33	2	1368	2	MAP7D2	23	20060638	Missense_Mutation	SNP	G	TCGA-BP-4803-01A-01D-1373-10		20060638	135209922	62	14121											
KDM5C	8242	hgsc.bcm.edu	37	chrX	53228259	53228259	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggccagggctgacaggaAacacgtagtcttgcacttga	11	7	13	10	1	1	2	0	2	1	0	1	3	1	3	1	3	2	4	1	3	2	3	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		C	53228259	A	C	53228259	3	2	278	1	0	0	0	0	1	0	0	0	8135	14	1	5	2685	5	KDM5C	23	53228259	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	33167621	53228259	102042301	63	14122											
AMMECR1	9949	hgsc.bcm.edu;ucsc.edu	37	chrX	109445697	109445697	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcctttgcaacctccggtAggtaggtggcggtgcgtttt	4	13	14	10	3	0	0	0	0	0	0	2	0	2	0	3	5	3	5	3	5	3	5	novel		TCGA-BP-4803-01A-01D-1373-10	TCGA-BP-4803-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	699ca81e-1f9c-48ea-b02f-aac6ab5ff452	46b958de-2b69-46be-9efd-29207ecbad2e		T	109445697	A	T	109445697	3	4	278	1	0	0	0	0	1	0	0	0	578	420	15	5	246	5	AMMECR1	23	109445697	Missense_Mutation	SNP	A	TCGA-BP-4803-01A-01D-1373-10	56217438	109445697	45824863	64	14123											
WT1	7490	hgsc.bcm.edu	37	chr11	32456513	32456514	+	Frame_Shift_Del	DEL	CC	CC	-																															cggcgggggtggcggcggagCcggtggcggcgcggggccgc																								novel		TCGA-BP-4803-01A-01W-1369-10	TCGA-BP-4803-11A-01W-1369-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	730d4208-4bcf-46c4-bdc1-706b003eda3d	5d0ee48f-c925-437e-b9ba-d2cfb57846a2		-	32456514	CC	-	32456513	7	5	279	1	0	1	0	1	0	0	0	0	17407	739	26	0	1214	0	WT1	11	32456513	Frame_Shift_Del	DEL	CC	TCGA-BP-4803-01A-01W-1369-10		32456513	102550003	1	14124											
KANK4	163782	hgsc.bcm.edu	37	chr1	62740072	62740072	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaccttcaccacaccctctGgaggctcagctccctcctgg	7	8	8	18	0	3	0	2	0	1	0	5	2	5	1	5	3	2	2	5	3	1	1	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		A	62740072	G	A	62740072	3	1	280	1	0	0	0	0	1	0	0	0	7979	1348	47	2	2315	2	KANK4	1	62740072	Missense_Mutation	SNP	G	TCGA-BP-4804-01A-02D-1373-10		62740072	186510549	1	14125											
SEMA6C	10500	hgsc.bcm.edu	37	chr1	151112489	151112489	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtccggttcaaggtcaggaAtctctgaaagtccagcccaa	11	8	11	11	1	3	1	2	1	1	0	6	2	5	2	3	4	1	1	3	4	4	1	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	151112489	A	G	151112489	3	3	280	1	0	0	0	0	1	0	0	0	14043	101	4	3	2760	3	SEMA6C	1	151112489	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10	88372417	151112489	98138132	2	14126											
UBAP2L	9898	hgsc.bcm.edu	37	chr1	154218831	154218831	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcctgcttcagggaacAcattttctcatcacagtatg	11	11	7	12	0	3	0	3	0	1	0	4	1	3	1	1	1	3	2	1	1	2	4	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		C	154218831	A	C	154218831	3	2	280	1	0	0	0	0	1	0	0	0	16837	159	6	5	1032	5	UBAP2L	1	154218831	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10	3106342	154218831	95031790	3	14127											
ODC1	4953	hgsc.bcm.edu	37	chr2	10583632	10583632	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccccatgtcaaaaacaCagcgggcatcagagattgcc	13	6	8	14	1	3	1	3	0	0	1	3	2	3	1	3	1	3	1	3	1	2	1	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		A	10583632	C	A	10583632	3	1	280	1	0	0	0	0	1	0	0	0	10825	478	17	4	759	4	ODC1	2	10583632	Missense_Mutation	SNP	C	TCGA-BP-4804-01A-02D-1373-10		10583632	232615741	4	14128											
STAT1	6772	hgsc.bcm.edu	37	chr2	191862646	191862646	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggcgctctgctgtctccGcttccactccactagttcat	6	12	7	16	2	3	0	1	0	2	0	6	0	5	0	3	1	1	4	3	1	1	3	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		A	191862646	G	A	191862646	3	1	280	1	0	0	0	0	1	0	0	0	15265	1086	38	1	1603	1	STAT1	2	191862646	Missense_Mutation	SNP	G	TCGA-BP-4804-01A-02D-1373-10	181279014	191862646	51336727	5	14129											
FARP2	9855	hgsc.bcm.edu	37	chr2	242429386	242429386	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacccacaggtggaagaaAgtgataacgagtggtctgtt	12	8	12	9	1	1	2	0	1	1	1	1	4	1	3	2	3	1	1	2	3	3	2	rs150907406	alternate_allele	TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	242429386	A	G	242429386	3	3	280	1	0	0	0	0	1	0	0	0	5677	72	3	3	2513	3	FARP2	2	242429386	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10	50566740	242429386	769987	6	14130											
UBP1	7342	hgsc.bcm.edu	37	chr3	33450220	33450220	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaatcaccgtagtctgctgGcaaagtccgcttgctggact	9	10	11	11	2	2	1	1	0	1	1	3	2	3	2	2	2	2	5	2	2	3	2	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		A	33450220	G	A	33450220	3	1	280	1	0	0	0	0	1	0	0	0	16894	1203	42	2	769	2	UBP1	3	33450220	Missense_Mutation	SNP	G	TCGA-BP-4804-01A-02D-1373-10		33450220	164572210	7	14131											
PDIA5	10954	hgsc.bcm.edu	37	chr3	122849455	122849455	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtcctcgtcatgttccAcgccccatgtgagtggaact	6	12	9	14	2	2	1	1	1	1	0	5	2	4	2	4	1	1	1	4	1	1	1	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		C	122849455	A	C	122849455	3	2	280	1	0	0	0	0	1	0	0	0	11671	159	6	5	944	5	PDIA5	3	122849455	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10	89399235	122849455	75172975	8	14132											
OSMR	9180	hgsc.bcm.edu;ucsc.edu	37	chr5	38886147	38886147	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtttttaaagattttcTggggaaaagaaactttgtac	12	18	8	3	0	1	2	0	0	1	2	1	3	1	3	0	2	2	2	0	2	6	9	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	38886147	T	G	38886147	2	3	280	1	0	0	0	0	0	0	0	1	11292	1567	55	5		5	OSMR	5	38886147	Silent	SNP	T	TCGA-BP-4804-01A-02D-1373-10		38886147	142029113	9	14133											
DDX41	51428	hgsc.bcm.edu;ucsc.edu	37	chr5	176942816	176942816	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaacataacggggtggAgtccagctgtggatgggtaa	11	8	15	7	1	1	1	1	0	0	1	2	3	2	3	1	5	3	2	1	5	3	2	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	176942816	A	G	176942816	2	3	280	1	0	0	0	0	0	0	0	1	4361	291	11	3		3	DDX41	5	176942816	Silent	SNP	A	TCGA-BP-4804-01A-02D-1373-10	138056669	176942816	3972444	10	14134											
HIST1H1A	3024	hgsc.bcm.edu	37	chr6	26017707	26017707	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaggctcttaatgcccAgcttaatgcggctgttgttc	7	14	9	11	1	1	0	0	0	1	0	2	0	1	0	2	2	4	5	2	2	3	5	rs150074424		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	26017707	A	G	26017707	3	3	280	1	0	0	0	0	1	0	0	0	7122	188	7	3	397	3	HIST1H1A	6	26017707	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10		26017707	145097360	11	14135											
ZAN	7455	hgsc.bcm.edu	37	chr7	100371474	100371474	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccctggatgggctgctccGtttcgggcctcaggtaggag	4	9	17	11	2	1	0	1	0	0	0	3	2	2	2	3	6	1	4	3	6	1	2	rs78193191	bycluster;byfrequency;by1000genomes	TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		A	100371474	G	A	100371474	3	1	280	1	0	0	0	0	1	0	0	0	17512	1145	40	1	5883	1	ZAN	7	100371474	Missense_Mutation	SNP	G	TCGA-BP-4804-01A-02D-1373-10		100371474	58767189	12	14136											
ADAM28	10863	hgsc.bcm.edu	37	chr8	24192996	24192996	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgcagaccagcaaaagAtgagtgcgacctgcctgaaa	13	6	13	9	1	0	4	0	2	0	2	0	5	0	4	3	1	4	2	3	1	3	0	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		T	24192996	A	T	24192996	3	4	280	1	0	0	0	0	1	0	0	0	246	333	12	5	1463	5	ADAM28	8	24192996	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10		24192996	122171026	13	14137											
TLR4	7099	hgsc.bcm.edu	37	chr9	120475463	120475463	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacattgaaactcaaatctCtcaaaaggcttactttcact	14	12	3	12	0	4	1	3	1	1	0	5	1	4	1	1	1	2	1	1	1	5	3	rs148638298		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		T	120475463	C	T	120475463	3	4	280	1	0	0	0	0	1	0	0	0	15952	913	32	2	1067	2	TLR4	9	120475463	Missense_Mutation	SNP	C	TCGA-BP-4804-01A-02D-1373-10		120475463	20737968	14	14138											
FAM179B	23116	hgsc.bcm.edu	37	chr14	45514043	45514043	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgtaactcctgcacgtgCagttgtttctcttatcaatg	9	16	7	9	1	2	0	1	0	1	0	4	0	3	0	1	0	3	5	1	0	4	5	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		A	45514043	C	A	45514043	3	1	280	1	0	0	0	0	1	0	0	0	5506	710	25	4	4174	4	FAM179B	14	45514043	Missense_Mutation	SNP	C	TCGA-BP-4804-01A-02D-1373-10		45514043	61835497	15	14139											
SYNE2	23224	hgsc.bcm.edu	37	chr14	64450489	64450489	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgatgataaaaaaacaggAtcagcccacttttgacaatt	17	10	6	8	0	1	3	1	3	0	0	1	4	1	4	1	1	2	0	1	1	5	4	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	64450489	A	G	64450489	3	3	280	1	0	0	0	0	1	0	0	0	15445	333	12	3	2102	3	SYNE2	14	64450489	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10	18936446	64450489	42899051	16	14140											
AQR	9716	hgsc.bcm.edu	37	chr15	35202458	35202458	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacgacagtgaaagccacaAtgggctgggccattcgcgcc	11	5	12	13	3	0	1	0	1	0	0	1	2	0	1	3	2	2	1	3	2	3	1	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		T	35202458	A	T	35202458	3	4	280	1	0	0	0	0	1	0	0	0	835	101	4	5	2992	5	AQR	15	35202458	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10		35202458	67328934	17	14141											
MAP2K5	5607	hgsc.bcm.edu	37	chr15	68099075	68099075	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagaggcggagccagcAggggcccccgtgaggctgcc	7	2	20	12	2	0	2	0	1	0	1	0	5	0	4	4	7	3	2	4	7	0	0	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		G	68099075	A	G	68099075	3	3	280	1	0	0	0	0	1	0	0	0	9240	188	7	3	1420	3	MAP2K5	15	68099075	Missense_Mutation	SNP	A	TCGA-BP-4804-01A-02D-1373-10	32896617	68099075	34432317	18	14142											
LARP6	55323	hgsc.bcm.edu	37	chr15	71124525	71124525	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagcaggggactcgtaccggGgcttttctcctgggtcccca	5	9	14	13	2	1	0	0	0	1	0	4	2	2	1	4	5	2	3	4	5	1	3	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		T	71124525	G	T	71124525	3	4	280	1	0	0	0	0	1	0	0	0	8632	1232	43	4	137	4	LARP6	15	71124525	Missense_Mutation	SNP	G	TCGA-BP-4804-01A-02D-1373-10	3025450	71124525	31406867	19	14143											
SERPINB4	6318	hgsc.bcm.edu	37	chr18	61306561	61306561	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgcctcatcatctgtacaGatttgtatgtattctgcaat	10	17	6	8	0	4	1	2	0	2	1	4	1	4	1	1	0	3	4	1	0	4	6	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		C	61306561	G	C	61306561	3	2	280	1	0	0	0	0	1	0	0	0	14105	942	33	4	554	4	SERPINB4	18	61306561	Missense_Mutation	SNP	G	TCGA-BP-4804-01A-02D-1373-10		61306561	16770687	20	14144											
ZNF30	90075	hgsc.bcm.edu;ucsc.edu	37	chr19	35434174	35434174	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtaaagaaatgcccaccTctgaaaactgtccatctttt	12	12	6	11	0	2	2	0	1	2	1	3	2	3	2	3	0	2	2	3	0	5	3	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		C	35434174	T	C	35434174	3	2	280	1	0	0	0	0	1	0	0	0	17829	1551	54	3	321	3	ZNF30	19	35434174	Missense_Mutation	SNP	T	TCGA-BP-4804-01A-02D-1373-10		35434174	23694809	21	14145											
MGAT3	4248	hgsc.bcm.edu	37	chr22	39883403	39883403	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttctgtatggccggcctGtgcctcatctccttcctgca	4	14	9	14	1	3	0	1	0	2	0	5	0	4	0	5	2	2	3	5	2	1	3	novel		TCGA-BP-4804-01A-02D-1373-10	TCGA-BP-4804-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d310a284-76e2-41e0-8641-11c3e206c3f4	cc9fe2bf-0a9d-49fa-a4a5-4fc6016b1257		C	39883403	G	C	39883403	2	2	280	1	0	0	0	0	0	0	0	1	9544	1364	48	4		4	MGAT3	22	39883403	Silent	SNP	G	TCGA-BP-4804-01A-02D-1373-10		39883403	11421163	22	14146											
LRRC41	10489	hgsc.bcm.edu	37	chr1	46744679	46744679	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttggaagaggcgcaggTgaccaaaggctccacggccc	10	6	14	11	2	0	2	0	1	0	1	1	3	1	3	3	5	0	3	3	5	2	2	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	46744679	T	C	46744679	3	2	281	1	0	0	0	0	1	0	0	0	8999	1696	59	3	145	3	LRRC41	1	46744679	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10		46744679	202505942	1	14147											
COL11A1	1301	hgsc.bcm.edu	37	chr1	103496778	103496778	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttgggatcacctgtgAtcaaaaactgctgaatgtcc	10	11	9	11	0	2	2	2	2	0	0	3	3	3	3	3	1	3	1	3	1	3	1	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	103496778	A	G	103496778	3	3	281	1	0	0	0	0	1	0	0	0	3667	333	12	3	5155	3	COL11A1	1	103496778	Missense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10	56752099	103496778	145753843	2	14148											
RBBP5	5929	hgsc.bcm.edu;ucsc.edu	37	chr1	205084072	205084072	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccatgctgatacaatcCaaagttccatcagcttccta	14	10	5	12	0	1	1	1	1	0	0	4	1	4	1	4	0	4	3	4	0	5	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	205084072	C	G	205084072	3	3	281	1	0	0	0	0	1	0	0	0	13104	593	21	4	1601	4	RBBP5	1	205084072	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	101587294	205084072	44166549	3	14149											
DISP1	84976	hgsc.bcm.edu	37	chr1	223178162	223178162	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccacagggtacctgtggTcagattcctttacctaaaaa	12	10	9	10	0	1	1	1	0	0	1	2	2	2	2	4	3	2	1	4	3	5	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	223178162	T	C	223178162	2	2	281	1	0	0	0	0	0	0	0	1	4539	1654	58	3		3	DISP1	1	223178162	Silent	SNP	T	TCGA-BP-4807-01A-01D-1373-10	18094090	223178162	26072459	4	14150											
USP34	9736	hgsc.bcm.edu	37	chr2	61417437	61417437	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcacttgctttggaaattTcaactcggttggagaaatca	13	12	9	7	1	2	1	2	0	0	1	3	3	2	2	0	3	3	3	0	3	4	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	61417437	T	C	61417437	3	2	281	1	0	0	0	0	1	0	0	0	17064	1783	62	3	810	3	USP34	2	61417437	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10		61417437	181781936	5	14151											
EIF2AK3	9451	hgsc.bcm.edu;ucsc.edu	37	chr2	88874521	88874521	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatggttgccaatatgcAatcgattagttttcggctct	10	14	8	9	2	1	0	0	0	1	0	3	1	1	0	1	2	2	4	1	2	5	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	88874521	A	T	88874521	4	4	281	1	0	0	0	0	0	1	0	0	4998	131	5	5	890	5	EIF2AK3	2	88874521	Nonsense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10	27457084	88874521	154324852	6	14152											
VHL	7428	hgsc.bcm.edu	37	chr3	10188235	10188236	+	Frame_Shift_Ins	INS	-	-	G																															gagatgcagggacacacgatINSgggcttctggttaaccaaac																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	10188236	-	G	10188235	7	5	281	1	0	1	1	0	0	0	0	0	17161	1461	51	0	384	0	VHL	3	10188235	Frame_Shift_Ins	INS	-	TCGA-BP-4807-01A-01D-1373-10		10188235	187834195	7	14153											
IMPDH2	3615	hgsc.bcm.edu;ucsc.edu	37	chr3	49065754	49065754	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagccaataccgcctgtaAgctacaggataaaaagagac	17	6	9	9	1	0	2	0	1	0	1	0	4	0	3	3	1	4	2	3	1	8	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	49065754	A	C	49065754	3	2	281	1	0	0	0	0	1	0	0	0	7727	86	3	5	1337	5	IMPDH2	3	49065754	Missense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10	38877519	49065754	148956676	8	14154											
PRKCD	5580	hgsc.bcm.edu	37	chr3	53219628	53219628	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccctccccagagagcctcCcggagatcagactcagcctc	8	6	8	19	1	2	3	2	0	0	3	6	5	5	3	6	1	2	0	6	1	0	0	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	53219628	C	T	53219628	2	4	281	1	0	0	0	0	0	0	0	1	12511	610	22	2		2	PRKCD	3	53219628	Silent	SNP	C	TCGA-BP-4807-01A-01D-1373-10	4153874	53219628	144802802	9	14155											
COL25A1	84570	hgsc.bcm.edu;ucsc.edu	37	chr4	109810856	109810856	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tacttgcaaggttatagttaCcttaattcctgcagcagatg	11	14	8	8	0	0	1	0	0	0	1	1	1	1	1	2	1	5	5	2	1	6	7	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	109810856	C	T	109810856	5	4	281	1	0	0	0	0	0	0	1	0	3684	521	18	2	1196	2	COL25A1	4	109810856	Splice_Site	SNP	C	TCGA-BP-4807-01A-01D-1373-10		109810856	81343420	10	14156											
MTMR12	54545	hgsc.bcm.edu;ucsc.edu	37	chr5	32268894	32268894	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatgatgaattatgccacTgacaatctaaaaaagaatcg	17	10	8	6	1	1	4	0	3	1	1	2	4	1	4	1	1	1	1	1	1	8	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	32268894	T	C	32268894	3	2	281	1	0	0	0	0	1	0	0	0	9941	1580	55	3	1791	3	MTMR12	5	32268894	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10		32268894	148646366	11	14157											
PARP8	79668	hgsc.bcm.edu	37	chr5	50093025	50093025	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaatgaatattgtgtggtTtgtgatgagccacatgtgtt	10	17	11	3	0	0	3	0	3	0	0	0	3	0	3	1	1	1	2	1	1	4	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	50093025	T	G	50093025	2	3	281	1	0	0	0	0	0	0	0	1	11465	1828	64	5		5	PARP8	5	50093025	Silent	SNP	T	TCGA-BP-4807-01A-01D-1373-10	17824131	50093025	130822235	12	14158											
ANKHD1-EIF4EBP3	404734	hgsc.bcm.edu	37	chr5	139886426	139886426	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attttactttgtaggtggtaGacttgctgctggctcgaggt	6	16	13	6	1	0	1	0	0	0	1	1	2	0	1	0	4	3	5	0	4	3	6	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	139886426	G	C	139886426	3	2	281	1	0	0	0	0	1	0	0	0	629	942	33	4	3489	4	ANKHD1-EIF4EBP3	5	139886426	Missense_Mutation	SNP	G	TCGA-BP-4807-01A-01D-1373-10	89793401	139886426	41028834	13	14159											
TRDN	10345	hgsc.bcm.edu	37	chr6	123539746	123539746	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagggtcatacatgtgtgtTtactgtccttgttgcttctg	6	18	10	7	0	2	0	1	0	1	0	3	0	3	0	1	1	3	3	1	1	3	7	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	123539746	T	G	123539746	3	3	281	1	0	0	0	0	1	0	0	0	16467	1848	64	5	3	5	TRDN	6	123539746	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10		123539746	47575321	14	14160											
LATS1	9113	hgsc.bcm.edu;ucsc.edu	37	chr6	150001249	150001249	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcatatcacccccaggAatgtagtccattacaaagta	14	10	5	12	0	3	0	3	0	0	0	4	1	4	1	3	1	1	2	3	1	6	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	150001249	A	G	150001249	2	3	281	1	0	0	0	0	0	0	0	1	8646	242	9	3		3	LATS1	6	150001249	Silent	SNP	A	TCGA-BP-4807-01A-01D-1373-10	26461503	150001249	21113818	15	14161											
DAGLB	221955	hgsc.bcm.edu;ucsc.edu	37	chr7	6474529	6474529	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcttgaggccattaagtAactggcttgaatcatgacta	11	13	9	8	0	2	3	1	3	1	0	2	3	2	3	1	2	1	2	1	2	4	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	6474529	A	T	6474529	4	4	281	1	0	0	0	0	0	1	0	0	4227	372	13	5	1524	5	DAGLB	7	6474529	Nonsense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10		6474529	152664134	16	14162											
DNAH11	8701	hgsc.bcm.edu;ucsc.edu	37	chr7	21784607	21784607	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgaagacgattcttacAgaaacgttagacaactacaa	16	9	8	8	2	1	4	0	1	1	3	1	5	1	4	0	0	5	2	0	0	7	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	21784607	A	T	21784607	2	4	281	1	0	0	0	0	0	0	0	1	4599	175	7	5		5	DNAH11	7	21784607	Silent	SNP	A	TCGA-BP-4807-01A-01D-1373-10	15310078	21784607	137354056	17	14163											
ZP3	7784	hgsc.bcm.edu	37	chr7	76071183	76071184	+	Frame_Shift_Ins	INS	-	-	G																															gaagaagcagatgtcaccgtINSggggccactgatcttcctgg																								rs3215870	bycluster	TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	76071184	-	G	76071183	7	5	281	1	0	1	1	0	0	0	0	0	18216	1696	59	0	1115	0	ZP3	7	76071183	Frame_Shift_Ins	INS	-	TCGA-BP-4807-01A-01D-1373-10	54286576	76071183	83067480	18	14164											
ZAN	7455	hgsc.bcm.edu	37	chr7	100353014	100353016	+	In_Frame_Del	DEL	ACA	ACA	-																															ctcttcctgcaattgcttctAcaacaacgactactatgagg																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	ACA	ACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		-	100353016	ACA	-	100353014	7	5	281	1	0	1	0	1	0	0	0	0	17512	391	14	0	3344	0	ZAN	7	100353014	In_Frame_Del	DEL	ACA	TCGA-BP-4807-01A-01D-1373-10	24281831	100353014	58785649	19	14165											
DPYSL2	1808	hgsc.bcm.edu	37	chr8	26505237	26505238	+	Frame_Shift_Ins	INS	-	-	TA																															tacccccggaaaggccgcatINStgctgtgggatccgatgccg																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		TA	26505238	-	TA	26505237	7	5	281	1	0	1	1	0	0	0	0	0	4747	1493	52	0	1244	0	DPYSL2	8	26505237	Frame_Shift_Ins	INS	-	TCGA-BP-4807-01A-01D-1373-10		26505237	119858785	20	14166											
CHD7	55636	hgsc.bcm.edu	37	chr8	61743043	61743043	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgagaagaatttcacatttCtttccaaaggcggtggtcaa	12	13	9	7	1	3	2	2	1	1	2	4	3	4	2	1	3	0	0	1	3	4	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	61743043	C	G	61743043	3	3	281	1	0	0	0	0	1	0	0	0	3330	913	32	4	3739	4	CHD7	8	61743043	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	35237806	61743043	84620979	21	14167											
CNBD1	168975	hgsc.bcm.edu	37	chr8	88297032	88297032	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccagcaaagggatatgcaAagataaaggaggtaagatga	18	6	12	5	0	0	3	0	1	0	2	1	5	1	5	1	3	2	3	1	3	6	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	88297032	A	G	88297032	3	3	281	1	0	0	0	0	1	0	0	0	3591	15	1	3	924	3	CNBD1	8	88297032	Missense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10	26553989	88297032	58066990	22	14168											
ZNF572	137209	hgsc.bcm.edu	37	chr8	125987897	125987897	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgtgatggagcaagaaaaAaaactgttggtctcagattc	15	11	10	5	0	1	3	1	1	1	2	3	4	1	4	0	2	2	2	0	2	5	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	125987897	A	G	125987897	2	3	281	1	0	0	0	0	0	0	0	1	18003	11	1	3		3	ZNF572	8	125987897	Silent	SNP	A	TCGA-BP-4807-01A-01D-1373-10	37690865	125987897	20376125	23	14169											
MRPL50	54534	hgsc.bcm.edu	37	chr9	104152751	104152752	+	Frame_Shift_Ins	INS	-	-	TA																															ttctcttccgaattgcttagINStaactccaagtgattttcaa																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		TA	104152752	-	TA	104152751	7	5	281	1	0	1	1	0	0	0	0	0	9814	1024	36	0	6	0	MRPL50	9	104152751	Frame_Shift_Ins	INS	-	TCGA-BP-4807-01A-01D-1373-10		104152751	37060680	24	14170											
SPTAN1	6709	hgsc.bcm.edu	37	chr9	131343279	131343279	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcagtacgagcagtgcatgGacctgcagctcttctaccgg	9	8	12	12	2	2	0	0	0	2	0	2	2	2	1	2	2	7	6	2	2	2	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	131343279	G	T	131343279	3	4	281	1	0	0	0	0	1	0	0	0	15118	1174	41	4	1440	4	SPTAN1	9	131343279	Missense_Mutation	SNP	G	TCGA-BP-4807-01A-01D-1373-10	27190528	131343279	9870152	25	14171											
MYO3A	53904	hgsc.bcm.edu	37	chr10	26385321	26385321	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttccagtggagaaaaaaAttttcatattttttactaca	14	18	4	5	0	1	1	1	0	0	1	2	2	2	1	1	1	2	0	1	1	6	9	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	26385321	A	G	26385321	3	3	281	1	0	0	0	0	1	0	0	0	10076	101	4	3	1628	3	MYO3A	10	26385321	Missense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10		26385321	109149426	26	14172											
CTNNA3	29119	hgsc.bcm.edu;ucsc.edu	37	chr10	67726369	67726369	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtgctaggcagtactcaCagctgacatgatgagctctc	11	10	10	10	0	2	3	1	3	1	0	3	3	2	3	0	1	4	5	0	1	3	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		A	67726369	C	A	67726369	5	1	281	1	0	0	0	0	0	0	1	0	4014	492	17	4	294	4	CTNNA3	10	67726369	Splice_Site	SNP	C	TCGA-BP-4807-01A-01D-1373-10	41341048	67726369	67808378	27	14173											
OR52D1	390066	hgsc.bcm.edu	37	chr11	5510540	5510541	+	Frame_Shift_Ins	INS	-	-	GGCT																															cactgtcaatattgtctatgINSggctaactgtggctctgctg																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		GGCT	5510541	-	GGCT	5510540	7	5	281	1	0	1	1	0	0	0	0	0	11114	1348	47	0	606	0	OR52D1	11	5510540	Frame_Shift_Ins	INS	-	TCGA-BP-4807-01A-01D-1373-10		5510540	129495976	28	14174											
AMPD3	272	hgsc.bcm.edu	37	chr11	10517135	10517135	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggaggttgcccgggagctgGaggagagcaagtaccagtac	11	5	17	8	1	0	1	0	0	0	1	0	5	0	4	2	5	5	5	2	5	3	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	10517135	G	C	10517135	3	2	281	1	0	0	0	0	1	0	0	0	587	1175	41	4	1366	4	AMPD3	11	10517135	Missense_Mutation	SNP	G	TCGA-BP-4807-01A-01D-1373-10	5006595	10517135	124489381	29	14175											
OR5T1	390155	hgsc.bcm.edu	37	chr11	56043250	56043253	+	Frame_Shift_Del	DEL	ATCT	ATCT	-																															tatttttattatttttagcaAtctatctattcactctaata																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	ATCT	ATCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		-	56043253	ATCT	-	56043250	7	5	281	1	0	1	0	1	0	0	0	0	11181	101	4	0	138	0	OR5T1	11	56043250	Frame_Shift_Del	DEL	ATCT	TCGA-BP-4807-01A-01D-1373-10	45526115	56043250	78963266	30	14176											
SNX15	29907	hgsc.bcm.edu	37	chr11	64799918	64799918	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataggtggtggtctggaagCggtacagcgacttccgcaag	9	8	15	9	3	1	0	0	0	1	0	2	2	2	1	1	5	3	2	1	5	4	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	64799918	C	T	64799918	3	4	281	1	0	0	0	0	1	0	0	0	14888	759	27	1	161	1	SNX15	11	64799918	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	8756668	64799918	70206598	31	14177											
RBM14	10432	hgsc.bcm.edu	37	chr11	66392311	66392312	+	Frame_Shift_Del	DEL	GC	GC	-																															tttcctcctatgggggtcagGcagctgcagcttcttcgctc																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		-	66392312	GC	-	66392311	7	5	281	1	0	1	0	1	0	0	0	0	13117	1203	42	0	970	0	RBM14	11	66392311	Frame_Shift_Del	DEL	GC	TCGA-BP-4807-01A-01D-1373-10	1592393	66392311	68614205	32	14178											
BIRC3	330	hgsc.bcm.edu	37	chr11	102206736	102206736	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagaatagaatggcactttTtcaacatttgacttgtgtaa	14	14	8	5	0	1	3	1	1	0	2	1	4	1	3	0	1	1	2	0	1	6	6	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	102206736	T	G	102206736	3	3	281	1	0	0	0	0	1	0	0	0	1436	1841	64	5	1386	5	BIRC3	11	102206736	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10	35814425	102206736	32799780	33	14179											
GSG1	83445	hgsc.bcm.edu	37	chr12	13241706	13241706	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggaggggaggggagggAagccttctccatcaaccgct	10	5	16	10	1	2	0	1	0	1	0	3	4	2	4	3	6	2	1	3	6	3	1	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	13241706	A	G	13241706	3	3	281	1	0	0	0	0	1	0	0	0	6820	246	9	3	657	3	GSG1	12	13241706	Missense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10		13241706	120610189	34	14180											
MLL2	8085	hgsc.bcm.edu	37	chr12	49442448	49442448	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactgtatggtacctgcatTaggacaaatttgtctgtgtt	9	16	9	7	0	2	0	1	0	1	0	2	1	2	1	1	2	2	4	1	2	4	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	49442448	T	C	49442448	2	2	281	1	0	0	0	0	0	0	0	1	9621	1741	61	3		3	MLL2	12	49442448	Silent	SNP	T	TCGA-BP-4807-01A-01D-1373-10	36200742	49442448	84409447	35	14181											
DCN	1634	hgsc.bcm.edu;ucsc.edu	37	chr12	91550907	91550907	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgtaggagagcttcttCattccctggaaagccccatt	9	11	10	11	1	2	1	1	0	1	1	3	4	3	3	3	3	2	2	3	3	2	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		A	91550907	C	A	91550907	3	1	281	1	0	0	0	0	1	0	0	0	4297	826	29	4	498	4	DCN	12	91550907	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	42108459	91550907	42300988	36	14182											
MAP4K5	11183	hgsc.bcm.edu	37	chr14	50943023	50943023	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagtatgcaaataggcaagaCcctaaaagtttaaaaaaaaa	22	8	6	5	0	0	1	0	0	0	1	0	1	0	1	1	1	1	4	1	1	12	6	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		A	50943023	C	A	50943023	3	1	281	1	0	0	0	0	1	0	0	0	9263	521	18	4	2264	4	MAP4K5	14	50943023	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10		50943023	56406517	37	14183											
DYNC1H1	1778	hgsc.bcm.edu;ucsc.edu	37	chr14	102516872	102516872	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgcagcttctacgagcGgggtgtcgcagtcttgtgca	5	11	13	12	4	2	0	0	0	2	0	5	1	3	0	1	2	4	4	1	2	1	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		A	102516872	G	A	102516872	3	1	281	1	0	0	0	0	1	0	0	0	4841	1116	39	1	14223	1	DYNC1H1	14	102516872	Missense_Mutation	SNP	G	TCGA-BP-4807-01A-01D-1373-10	51573849	102516872	4832668	38	14184											
FMN1	342184	hgsc.bcm.edu;ucsc.edu	37	chr15	33261563	33261563	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catctttcctctcttcacaaCcccctcgccatctgtgttct	5	15	3	18	1	5	0	1	0	4	0	8	0	6	0	4	0	1	1	4	0	1	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		A	33261563	C	A	33261563	3	1	281	1	0	0	0	0	1	0	0	0	5949	507	18	4	1976	4	FMN1	15	33261563	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10		33261563	69269829	39	14185											
THBS1	7057	hgsc.bcm.edu	37	chr15	39887564	39887564	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttgtttatttaacagaTccctaatcatcaaattgttg	13	18	4	6	0	2	1	2	0	0	1	3	1	3	1	1	0	1	2	1	0	5	9	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	39887564	T	C	39887564	2	2	281	1	0	0	0	0	0	0	0	1	15852	1449	50	3		3	THBS1	15	39887564	Silent	SNP	T	TCGA-BP-4807-01A-01D-1373-10	6626001	39887564	62643828	40	14186											
FBN1	2200	hgsc.bcm.edu;ucsc.edu	37	chr15	48780624	48780624	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcacacctgcacttaaagCtgccaatggtgtttctgcac	9	12	8	12	0	2	0	1	0	1	0	2	0	2	0	2	1	4	4	2	1	3	2	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	48780624	C	T	48780624	3	4	281	1	0	0	0	0	1	0	0	0	5702	797	28	2	5630	2	FBN1	15	48780624	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	8893060	48780624	53750768	41	14187											
SCAMP2	10066	hgsc.bcm.edu	37	chr15	75143007	75143007	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcagaaacagagtcacTgaatgcactggggaagggga	14	6	15	6	0	2	3	2	1	0	2	2	5	2	5	0	5	2	2	0	5	3	1	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	75143007	T	G	75143007	2	3	281	1	0	0	0	0	0	0	0	1	13873	1567	55	5		5	SCAMP2	15	75143007	Silent	SNP	T	TCGA-BP-4807-01A-01D-1373-10	26362383	75143007	27388385	42	14188											
SEPHS2	22928	hgsc.bcm.edu	37	chr16	30456532	30456532	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgctgagtaacatcaacaTgttgtcacactcagtaatcc	13	10	7	11	1	3	1	3	1	0	0	4	2	4	1	1	0	2	4	1	0	3	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	30456532	T	C	30456532	3	2	281	1	0	0	0	0	1	0	0	0	14057	1464	51	3	833	3	SEPHS2	16	30456532	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10		30456532	59898221	43	14189											
TMCO7	0	hgsc.bcm.edu;ucsc.edu	37	chr16	68893912	68893912	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagaatctgaaactcctaAgagatgaaattgctgataag	17	9	10	5	0	1	5	0	3	1	2	2	7	2	6	1	1	2	1	1	1	6	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	68893912	A	C	68893912	2	2	281	1	0	0	0	0	0	0	0	1	16000	64	3	5		5	TMCO7	16	68893912	Silent	SNP	A	TCGA-BP-4807-01A-01D-1373-10	38437380	68893912	21460841	44	14190											
MTHFSD	64779	hgsc.bcm.edu	37	chr16	86575780	86575780	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggataccatcatggcatatTccagatcggcgtagccttct	9	12	9	11	2	2	1	1	0	1	1	4	2	3	2	3	3	2	2	3	3	3	5	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		A	86575780	T	A	86575780	3	1	281	1	0	0	0	0	1	0	0	0	9933	1783	62	5	681	5	MTHFSD	16	86575780	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10	17681868	86575780	3778973	45	14191											
SPAG5	10615	hgsc.bcm.edu;ucsc.edu	37	chr17	26911463	26911463	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tagctcttttagctggctgtCcatgttggccagaatctgca	7	14	10	10	0	2	1	0	0	2	1	3	1	3	1	2	2	3	5	2	2	3	4	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	26911463	C	G	26911463	3	3	281	1	0	0	0	0	1	0	0	0	14983	855	30	4	1436	4	SPAG5	17	26911463	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10		26911463	54283747	46	14192											
RNF135	84282	hgsc.bcm.edu;ucsc.edu	37	chr17	29311739	29311739	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatcagaggcccctatcAgaatctggaccagacaacga	15	5	9	12	1	3	4	2	0	1	4	3	6	3	5	3	2	1	0	3	2	4	1	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	29311739	A	T	29311739	2	4	281	1	0	0	0	0	0	0	0	1	13442	175	7	5		5	RNF135	17	29311739	Silent	SNP	A	TCGA-BP-4807-01A-01D-1373-10	2400276	29311739	51883471	47	14193											
TOP2A	7153	hgsc.bcm.edu;ucsc.edu	37	chr17	38556798	38556798	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgggtccatgttctgaCgggaagctctgagatttcaa	9	12	11	9	1	3	2	1	2	2	1	4	4	4	3	2	2	2	2	2	2	3	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	38556798	C	T	38556798	3	4	281	1	0	0	0	0	1	0	0	0	16364	536	19	1	1869	1	TOP2A	17	38556798	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	9245059	38556798	42638412	48	14194											
CLTC	1213	hgsc.bcm.edu	37	chr17	57763101	57763101	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcgtcctagaaactgcaTggaggcacaatatcatggat	13	10	10	8	1	1	1	1	0	0	1	3	3	2	3	1	3	2	2	1	3	4	2	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	57763101	T	G	57763101	3	3	281	1	0	0	0	0	1	0	0	0	3566	1464	51	5	4877	5	CLTC	17	57763101	Missense_Mutation	SNP	T	TCGA-BP-4807-01A-01D-1373-10	19206303	57763101	23432109	49	14195											
LRRC45	201255	hgsc.bcm.edu;ucsc.edu	37	chr17	79986136	79986136	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcagagcgggagtctaaactCctcagagacttgtctgctgc	9	9	12	11	1	3	2	1	0	2	2	4	4	4	3	1	1	4	2	1	1	2	2	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	79986136	C	T	79986136	2	4	281	1	0	0	0	0	0	0	0	1	9002	842	30	2		2	LRRC45	17	79986136	Silent	SNP	C	TCGA-BP-4807-01A-01D-1373-10	22223035	79986136	1209074	50	14196											
ATP8B3	148229	hgsc.bcm.edu	37	chr19	1783237	1783239	+	In_Frame_Del	DEL	CTC	CTC	-																															aagggctccatggtgaaaatCtcctcgctggggccctcctc																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		-	1783239	CTC	-	1783237	7	5	281	1	0	1	0	1	0	0	0	0	1196	912	32	0	213	0	ATP8B3	19	1783237	In_Frame_Del	DEL	CTC	TCGA-BP-4807-01A-01D-1373-10		1783237	57345746	51	14197											
MUC16	94025	hgsc.bcm.edu	37	chr19	9047853	9047853	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatgagatatttgtaaacgGctcaccagtggagacagtca	14	9	10	8	1	2	2	2	1	0	2	2	4	2	2	1	2	1	2	1	2	4	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	9047853	G	C	9047853	3	2	281	1	0	0	0	0	1	0	0	0	9973	1203	42	4	10065	4	MUC16	19	9047853	Missense_Mutation	SNP	G	TCGA-BP-4807-01A-01D-1373-10	7264616	9047853	50081130	52	14198											
ZNF433	163059	hgsc.bcm.edu	37	chr19	12126886	12126886	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcatgaaggcatgtggAactatggaatgctttcccac	12	10	11	8	0	0	2	0	2	0	0	1	4	1	4	1	3	3	3	1	3	4	2	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	12126886	A	C	12126886	3	2	281	1	0	0	0	0	1	0	0	0	17906	246	9	5	1229	5	ZNF433	19	12126886	Missense_Mutation	SNP	A	TCGA-BP-4807-01A-01D-1373-10	3079033	12126886	47002097	53	14199											
IL27RA	9466	hgsc.bcm.edu;ucsc.edu	37	chr19	14157032	14157032	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttggaggtcgtgagctgagtCcagaaggaattacctgctgc	9	10	14	8	1	0	3	0	2	0	1	2	5	1	5	2	3	4	2	2	3	3	2	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		T	14157032	C	T	14157032	3	4	281	1	0	0	0	0	1	0	0	0	7681	855	30	2	861	2	IL27RA	19	14157032	Missense_Mutation	SNP	C	TCGA-BP-4807-01A-01D-1373-10	2030146	14157032	44971951	54	14200											
CARD8	22900	hgsc.bcm.edu	37	chr19	48735017	48735018	+	Frame_Shift_Ins	INS	-	-	TT																															tcttcgatctcaaaacagacINStttagaagcataagaggaaa																								novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		TT	48735018	-	TT	48735017	7	5	281	1	0	1	1	0	0	0	0	0	2651	565	20	0	1199	0	CARD8	19	48735017	Frame_Shift_Ins	INS	-	TCGA-BP-4807-01A-01D-1373-10	34577985	48735017	10393966	55	14201											
NLRP11	204801	hgsc.bcm.edu	37	chr19	56320980	56320980	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcgactcggcacagacccacGagtatttcatcctcatgtac	10	9	8	14	3	2	1	2	0	0	1	4	3	3	1	2	1	1	3	2	1	2	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	56320980	G	C	56320980	2	2	281	1	0	0	0	0	0	0	0	1	10473	1045	37	4		4	NLRP11	19	56320980	Silent	SNP	G	TCGA-BP-4807-01A-01D-1373-10	7585963	56320980	2808003	56	14202											
SON	6651	hgsc.bcm.edu;ucsc.edu	37	chr21	34929511	34929511	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaatgcagctgccatgtgTgctaaggctggtgtcccttt	6	13	12	10	0	0	0	0	0	0	0	1	0	1	0	2	2	4	5	2	2	2	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		C	34929511	T	C	34929511	2	2	281	1	0	0	0	0	0	0	0	1	14928	1702	59	3		3	SON	21	34929511	Silent	SNP	T	TCGA-BP-4807-01A-01D-1373-10		34929511	13200384	57	14203											
LAMP2	3920	hgsc.bcm.edu;ucsc.edu	37	chrX	119562465	119562465	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagttgaggtcagagtcAgcagaacattcttcagctgt	13	10	11	7	0	4	4	3	1	1	3	4	4	4	4	0	1	3	3	0	1	2	3	novel		TCGA-BP-4807-01A-01D-1373-10	TCGA-BP-4807-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	c0faca5d-acc8-4d08-828a-a38a6fa41b67	e319f0fd-0382-4169-9d41-5c159cb280da		G	119562465	A	G	119562465	2	3	281	1	0	0	0	0	0	0	0	1	8618	175	7	3		3	LAMP2	23	119562465	Silent	SNP	A	TCGA-BP-4807-01A-01D-1373-10		119562465	35708095	58	14204											
SEPN1	57190	hgsc.bcm.edu;ucsc.edu	37	chr1	26136292	26136293	+	Frame_Shift_Del	DEL	CT	CT	-																															cccacgtccgcgacttccggCtcttcgtgcccaaccacagg																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		-	26136293	CT	-	26136292	7	5	282	1	0	1	0	1	0	0	0	0	14058	797	28	0	1017	0	SEPN1	1	26136292	Frame_Shift_Del	DEL	CT	TCGA-BP-4960-01A-01D-1462-08		26136292	223114329	1	14205											
HSPB11	51668	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54405733	54405733	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcggacccttcagagctcAgacagagatcaatttttctc	10	12	7	12	1	4	3	3	0	1	3	6	5	4	4	1	1	1	1	1	1	1	4	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	54405733	A	T	54405733	3	4	282	1	0	0	0	0	1	0	0	0	7419	188	7	5	431	5	HSPB11	1	54405733	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08	28269441	54405733	194844888	2	14206											
LRRIQ3	127255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	74575231	74575231	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttttttttgtggaaaaaCacagggctgaatataagggg	12	14	12	3	0	0	1	0	1	0	0	0	2	0	2	0	4	1	2	0	4	5	6	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	74575231	C	T	74575231	2	4	282	1	0	0	0	0	0	0	0	1	9030	465	17	2		2	LRRIQ3	1	74575231	Silent	SNP	C	TCGA-BP-4960-01A-01D-1462-08	20169498	74575231	174675390	3	14207											
LPHN2	23266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	82408996	82408996	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaggccataattaactaTgccaactaccatgatacctc	13	9	7	12	1	0	1	0	1	0	0	1	2	0	1	4	2	5	0	4	2	6	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	82408996	T	C	82408996	2	2	282	1	0	0	0	0	0	0	0	1	8916	1471	51	3		3	LPHN2	1	82408996	Silent	SNP	T	TCGA-BP-4960-01A-01D-1462-08	7833765	82408996	166841625	4	14208											
PPM1J	333926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113255367	113255367	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggtcacccactcaccAtgagctggaaggcattctca	10	7	9	15	0	3	1	3	1	1	0	4	2	3	2	3	3	1	2	3	3	1	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	113255367	A	G	113255367	3	3	282	1	0	0	0	0	1	0	0	0	12344	231	8	3	821	3	PPM1J	1	113255367	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08	30846371	113255367	135995254	5	14209											
LRIG2	9860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113657274	113657274	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaatatacctgcattatgtCtaacacccttgggacagaac	14	10	7	10	0	1	1	0	0	1	1	1	3	1	2	2	1	4	1	2	1	6	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	113657274	C	G	113657274	3	3	282	1	0	0	0	0	1	0	0	0	8945	913	32	4	2364	4	LRIG2	1	113657274	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	401907	113657274	135593347	6	14210											
OR6K2	81448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158670021	158670021	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcaacttaaagtcagttggGtacatagcttgggggtcatg	11	11	13	6	0	2	0	2	0	0	0	2	0	2	0	0	3	4	4	0	3	5	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	158670021	G	T	158670021	3	4	282	1	0	0	0	0	1	0	0	0	11202	1261	44	4	556	4	OR6K2	1	158670021	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	45012747	158670021	90580600	7	14211											
TBX19	9095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	168260459	168260459	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaatgccatgtactccCtcctgctggactttgtccct	6	12	6	17	0	0	0	0	0	0	0	3	1	3	1	6	1	3	2	6	1	2	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	168260459	C	T	168260459	3	4	282	1	0	0	0	0	1	0	0	0	15653	681	24	2	271	2	TBX19	1	168260459	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	9590438	168260459	80990162	8	14212											
TNR	7143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	175365838	175365838	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccccccagggccgtcGgctggtaagagatcacatat	9	6	14	12	2	1	1	1	0	0	1	2	3	1	2	4	5	0	2	4	5	2	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	175365838	G	A	175365838	3	1	282	1	0	0	0	0	1	0	0	0	16337	1116	39	1	3070	1	TNR	1	175365838	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	7105379	175365838	73884783	9	14213											
NUP133	55746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	229641823	229641823	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcttccatgactttaacagGaagagaagatccaaacgttt	14	10	9	8	1	0	3	0	1	0	2	2	5	2	4	2	2	2	2	2	2	4	4	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	229641823	G	T	229641823	3	4	282	1	0	0	0	0	1	0	0	0	10754	1174	41	4	3305	4	NUP133	1	229641823	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	54275985	229641823	19608798	10	14214											
MBOAT2	129642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	9048798	9048798	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcaaagatatagactcgAgtaacttggcacactgtgag	14	10	10	7	1	1	3	1	1	0	2	2	4	1	3	0	1	1	2	0	1	5	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	9048798	A	C	9048798	2	2	282	1	0	0	0	0	0	0	0	1	9357	291	11	5		5	MBOAT2	2	9048798	Silent	SNP	A	TCGA-BP-4960-01A-01D-1462-08		9048798	234150575	11	14215											
ASB3	51130	hgsc.bcm.edu;ucsc.edu	37	chr2	53956692	53956697	+	In_Frame_Del	DEL	TGTCCA	TGTCCA	-																															acagccttaacacatctatcTgtccattttcaacagctgta																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	TGTCCA	TGTCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		-	53956697	TGTCCA	-	53956692	7	5	282	1	0	1	0	1	0	0	0	0	1024	1580	55	0	1213	0	ASB3	2	53956692	In_Frame_Del	DEL	TGTCCA	TCGA-BP-4960-01A-01D-1462-08	44907894	53956692	189242681	12	14216											
ALMS1	7840	hgsc.bcm.edu;ucsc.edu	37	chr2	73717436	73717437	+	Frame_Shift_Ins	INS	-	-	A																															tagtaattcacaagataaagINSaagtgactattttagcagaa																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	73717437	-	A	73717436	7	5	282	1	0	1	1	0	0	0	0	0	535	943	33	0	8385	0	ALMS1	2	73717436	Frame_Shift_Ins	INS	-	TCGA-BP-4960-01A-01D-1462-08	19760744	73717436	169481937	13	14217											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191480	10191480	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccttccagtgtatactcTgaaagagcgatgcctccagg	9	10	10	12	1	1	2	0	1	1	1	3	3	3	2	4	1	4	1	4	1	3	3	rs121913346	alternate_allele	TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	10191480	T	C	10191480	3	2	282	1	0	0	0	0	1	0	0	0	17161	1580	55	3	483	3	VHL	3	10191480	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08		10191480	187830950	14	14218											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52649377	52649377	+	Frame_Shift_Del	DEL	T	T	-																															gctgccttactcagcttgagTttgggagaagccatgtcatc																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		-	52649377	T	-	52649377	7	5	282	1	0	1	0	1	0	0	0	0	11491	1722	60	0	3050	0	PBRM1	3	52649377	Frame_Shift_Del	DEL	T	TCGA-BP-4960-01A-01D-1462-08	42457897	52649377	145373053	15	14219											
ADAMTS9	56999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	64589693	64589693	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtagcacaggcactctcgtCagccacagagccattctcat	10	8	9	14	1	3	1	2	0	2	1	5	1	3	1	2	2	3	3	2	2	1	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	64589693	C	T	64589693	3	4	282	1	0	0	0	0	1	0	0	0	273	826	29	2	2215	2	ADAMTS9	3	64589693	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	11940316	64589693	133432737	16	14220											
NEK11	79858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130748629	130748629	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatccaaagaccttgattgCaagaagatacgtgcttcaac	14	11	7	9	1	1	4	1	1	0	3	2	4	2	4	2	0	4	2	2	0	6	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	130748629	C	G	130748629	3	3	282	1	0	0	0	0	1	0	0	0	10323	710	25	4	79	4	NEK11	3	130748629	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	66158936	130748629	67273801	17	14221											
PIK3CA	5290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279	bycluster	TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	178952085	A	T	178952085	3	4	282	1	0	0	0	0	1	0	0	0	11913	217	8	5	3218	5	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08	48203456	178952085	19070345	18	14222											
PGM2	55276	hgsc.bcm.edu;ucsc.edu	37	chr4	37845989	37845989	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtatctgattctaggagcGtgaacagggagacaaaggtg	12	9	15	5	1	2	3	0	2	2	1	2	5	2	4	0	3	2	1	0	3	4	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	37845989	G	A	37845989	3	1	282	1	0	0	0	0	1	0	0	0	11798	1145	40	1	750	1	PGM2	4	37845989	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08		37845989	153308287	19	14223											
SEC31A	22872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83770070	83770070	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaattttaggtgattcatGtcctgctacaggctctcctt	7	15	9	10	1	2	1	1	1	1	0	4	2	3	2	2	3	2	2	2	3	3	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	83770070	G	T	83770070	3	4	282	1	0	0	0	0	1	0	0	0	14000	1377	48	4	1305	4	SEC31A	4	83770070	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	45924081	83770070	107384206	20	14224											
TMEM144	55314	hgsc.bcm.edu	37	chr4	159138559	159138560	+	Frame_Shift_Ins	INS	-	-	G																															atttaatgccttaactggctINSgggcaagctcaaggtaattc																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	159138560	-	G	159138559	7	5	282	1	0	1	1	0	0	0	0	0	16057	1580	55	0	329	0	TMEM144	4	159138559	Frame_Shift_Ins	INS	-	TCGA-BP-4960-01A-01D-1462-08	75368489	159138559	32015717	21	14225											
OXCT1	5019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41794778	41794778	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggggctctgttattacataCcctctaatcattgcaaatga	12	13	7	9	0	3	1	1	1	2	0	3	1	3	1	1	2	3	3	1	2	5	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	41794778	C	G	41794778	5	3	282	1	0	0	0	0	0	0	1	0	11329	521	18	4	413	4	OXCT1	5	41794778	Splice_Site	SNP	C	TCGA-BP-4960-01A-01D-1462-08		41794778	139120482	22	14226											
ISL1	3670	hgsc.bcm.edu	37	chr5	50685624	50685624	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaaacccgcggccagatgCgctcatgaaggagcaactgg	11	4	13	13	4	1	2	1	1	0	1	1	3	1	3	2	3	4	3	2	3	3	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	50685624	C	T	50685624	3	4	282	1	0	0	0	0	1	0	0	0	7856	768	27	1	637	1	ISL1	5	50685624	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	8890846	50685624	130229636	23	14227											
GPX8	493869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54456928	54456928	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcccacttcagcgtgtTggcttttccctgcaatcagt	7	13	7	14	1	2	0	2	0	0	0	4	0	4	0	3	1	2	3	3	1	1	4	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	54456928	T	G	54456928	3	3	282	1	0	0	0	0	1	0	0	0	6746	1821	63	5	317	5	GPX8	5	54456928	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	3771304	54456928	126458332	24	14228											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89941846	89941846	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcactggaggagctaaagTgggaaatagaacaactgcaa	16	6	13	6	0	0	1	0	0	0	1	0	4	0	4	0	4	4	3	0	4	7	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	89941846	T	G	89941846	3	3	282	1	0	0	0	0	1	0	0	0	6721	1696	59	5	3022	5	GPR98	5	89941846	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	35484918	89941846	90973414	25	14229											
PCDHA9	9752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140230065	140230065	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccagcgctgacggccaCggccactgtgctggtgtcgc	5	6	16	14	4	0	1	0	1	0	0	1	2	0	2	3	4	3	2	3	4	0	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	140230065	C	T	140230065	3	4	282	1	0	0	0	0	1	0	0	0	11531	536	19	1	1987	1	PCDHA9	5	140230065	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	50288219	140230065	40685195	26	14230											
CPEB4	80315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	173372085	173372085	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcaccagaatggggaaagAgtggaacgatattctcgaaa	16	7	12	6	2	2	2	1	0	1	2	3	6	2	4	1	3	1	0	1	3	5	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	173372085	A	G	173372085	2	3	282	1	0	0	0	0	0	0	0	1	3803	301	11	3		3	CPEB4	5	173372085	Silent	SNP	A	TCGA-BP-4960-01A-01D-1462-08	33142020	173372085	7543175	27	14231											
FAM136B	0	broad.mit.edu	37	chr6	3045892	3045892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaatgacaaagccaaagAttcaatagatgctgggagta	16	9	10	6	0	1	3	1	1	0	2	1	4	1	4	1	1	3	3	1	1	6	4	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	3045892	G	G	3045892	3	3	282	1	0	0	0	0	1	0	0	0	5451	333	12	3	277	3	FAM136B	6	3045892	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08		3045892	168069175	28	14232											
HDGFL1	154150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	22569865	22569865	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtgtttgccaagttaaagGgctatgcccactggccggcg	7	10	14	10	2	0	0	0	0	0	0	0	0	0	0	3	4	2	3	3	4	4	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	22569865	G	T	22569865	3	4	282	1	0	0	0	0	1	0	0	0	7019	1232	43	4	63	4	HDGFL1	6	22569865	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	19523973	22569865	148545202	29	14233											
SNX14	57231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	86258079	86258079	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagacagaatctctcttatAagtaaggtcagagatctgga	14	10	9	8	0	4	3	1	0	3	3	5	5	4	4	1	2	0	1	1	2	4	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	86258079	A	T	86258079	2	4	282	1	0	0	0	0	0	0	0	1	14887	349	13	5		5	SNX14	6	86258079	Silent	SNP	A	TCGA-BP-4960-01A-01D-1462-08	63688214	86258079	84856988	30	14234											
LAMA4	3910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	112471821	112471821	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctagtgtcagccactgcttCatcactgcctgtggaagagc	8	10	11	12	0	3	1	3	0	0	1	3	2	3	2	2	1	4	2	2	1	2	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	112471821	C	T	112471821	3	4	282	1	0	0	0	0	1	0	0	0	8608	835	29	2	3498	2	LAMA4	6	112471821	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	26213742	112471821	58643246	31	14235											
PLG	5340	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161139402	161139402	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactatcgcgggaatgtggcTgttaccgtgtccgggcacac	8	9	13	11	4	0	0	0	0	0	0	2	1	1	1	2	3	2	3	2	3	4	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	161139402	T	A	161139402	2	1	282	1	0	0	0	0	0	0	0	1	12086	1567	55	5		5	PLG	6	161139402	Silent	SNP	T	TCGA-BP-4960-01A-01D-1462-08	48667581	161139402	9975665	32	14236											
COL1A2	1278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94059617	94059617	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacaaataagccatcacGcctgcccttccttgatattg	13	10	5	13	1	1	1	1	1	0	0	2	1	2	1	4	0	3	0	4	0	5	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	94059617	G	A	94059617	3	1	282	1	0	0	0	0	1	0	0	0	3678	1087	38	1	4219	1	COL1A2	7	94059617	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08		94059617	65079046	33	14237											
STRA8	346673	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134928142	134928142	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaagaaagaatatgccagCatgtattctggaaatgacag	16	9	10	6	0	2	3	1	1	1	2	2	4	2	4	1	1	2	2	1	1	6	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	134928142	C	T	134928142	2	4	282	1	0	0	0	0	0	0	0	1	15324	709	25	2		2	STRA8	7	134928142	Silent	SNP	C	TCGA-BP-4960-01A-01D-1462-08	40868525	134928142	24210521	34	14238											
ZNF395	55893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28214212	28214212	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttggcctcggtcccgggAggactctgtacaacagggct	8	8	14	11	2	1	0	0	0	1	0	3	2	2	2	2	5	2	3	2	5	3	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	28214212	A	G	28214212	2	3	282	1	0	0	0	0	0	0	0	1	17880	291	11	3		3	ZNF395	8	28214212	Silent	SNP	A	TCGA-BP-4960-01A-01D-1462-08		28214212	118149810	35	14239											
MCM4	4173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48874107	48874107	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccaggtcatctccctcTcagagacgtagaggcgagga	10	7	13	11	2	3	2	2	0	2	2	5	6	3	3	2	3	1	1	2	3	1	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	48874107	T	A	48874107	2	1	282	1	0	0	0	0	0	0	0	1	9389	1538	54	5		5	MCM4	8	48874107	Silent	SNP	T	TCGA-BP-4960-01A-01D-1462-08	20659895	48874107	97489915	36	14240											
ADHFE1	137872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67357547	67357547	+	Frame_Shift_Del	DEL	A	A	-																															tggacacctgtaaggctgctAatctgtatgcatccagccct																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		-	67357547	A	-	67357547	7	5	282	1	0	1	0	1	0	0	0	0	314	362	13	0	470	0	ADHFE1	8	67357547	Frame_Shift_Del	DEL	A	TCGA-BP-4960-01A-01D-1462-08	18483440	67357547	79006475	37	14241											
SLC1A1	6505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	4576614	4576614	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctgtgctgaagaaaataaCcaggtggacaagaggatcac	15	6	12	8	1	1	3	1	1	0	2	1	5	1	5	1	3	2	2	1	3	5	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	4576614	C	G	4576614	3	3	282	1	0	0	0	0	1	0	0	0	14433	506	18	4	1082	4	SLC1A1	9	4576614	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		4576614	136636817	38	14242											
TRPM3	80036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	73477850	73477850	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttggaatggccacctcCttggaactcaatggtcccaa	9	12	9	11	0	1	0	1	0	0	0	3	2	3	2	4	4	1	1	4	4	4	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	73477850	C	A	73477850	4	1	282	1	0	0	0	0	0	1	0	0	16586	690	24	4	4902	4	TRPM3	9	73477850	Nonsense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	68901236	73477850	67735581	39	14243											
GCNT1	2650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79118325	79118325	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccagccataagtatgAtctgtctgacatgcaagcag	11	9	9	12	0	2	2	0	2	2	0	2	2	2	2	3	0	4	3	3	0	3	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	79118325	A	G	79118325	3	3	282	1	0	0	0	0	1	0	0	0	6300	333	12	3	1030	3	GCNT1	9	79118325	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08	5640475	79118325	62095106	40	14244											
ATAD1	84896	broad.mit.edu;hgsc.bcm.edu	37	chr10	89550085	89550085	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttggaggctgcagaaGcctggaattctcaaacaaat	13	10	9	9	0	1	1	1	0	1	1	2	3	1	3	2	3	3	2	2	3	4	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	89550085	G	T	89550085	3	4	282	1	0	0	0	0	1	0	0	0	1070	971	34	4	749	4	ATAD1	10	89550085	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08		89550085	45984662	41	14245											
KIF20B	9585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91528517	91528517	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccatacgtccatcatctaAgaaaacatattctttacgga	14	12	5	10	2	3	1	1	0	2	1	4	2	4	2	2	1	4	0	2	1	6	6	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	91528517	A	C	91528517	3	2	282	1	0	0	0	0	1	0	0	0	8287	72	3	5	5112	5	KIF20B	10	91528517	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08	1978432	91528517	44006230	42	14246											
NLRP6	171389	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	281411	281411	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggagcggatgcgcgacatCgagcgccacttcggctgcat	7	6	15	13	7	0	0	0	0	0	0	2	4	0	2	1	3	4	2	1	3	0	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	281411	C	T	281411	2	4	282	1	0	0	0	0	0	0	0	1	10481	874	31	1		1	NLRP6	11	281411	Silent	SNP	C	TCGA-BP-4960-01A-01D-1462-08		281411	134725105	43	14247											
TNKS1BP1	85456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57068043	57068043	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcttcagtttcagggCttgaagccagttgggcgacg	6	13	12	10	2	4	1	2	1	2	0	4	2	4	1	1	2	1	3	1	2	1	6	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	57068043	C	A	57068043	3	1	282	1	0	0	0	0	1	0	0	0	16319	797	28	4	32	4	TNKS1BP1	11	57068043	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	56786632	57068043	77938473	44	14248											
CTNND1	1500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57563067	57563067	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatcacagtcaccttctaTatagcaccatccccaggatg	12	9	7	13	0	3	0	2	0	1	0	4	2	4	2	4	2	1	1	4	2	3	4	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	57563067	T	G	57563067	3	3	282	1	0	0	0	0	1	0	0	0	4019	1406	49	5	296	5	CTNND1	11	57563067	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	495024	57563067	77443449	45	14249											
NRXN2	9379	hgsc.bcm.edu;ucsc.edu	37	chr11	64428577	64428577	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcgctgtctccagtggccaaGaacggcgtgctgcgactatt	7	10	12	12	4	1	1	0	0	1	1	3	2	1	1	2	2	3	2	2	2	3	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	64428577	G	C	64428577	3	2	282	1	0	0	0	0	1	0	0	0	10666	933	33	4	3630	4	NRXN2	11	64428577	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	6865510	64428577	70577939	46	14250											
HTR3A	3359	hgsc.bcm.edu;ucsc.edu	37	chr11	113857420	113857420	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatcgtttctgacacgctgCcggccactgccatcggcact	6	10	9	16	4	2	1	1	1	1	0	4	1	2	1	3	2	2	3	3	2	0	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	113857420	C	T	113857420	3	4	282	1	0	0	0	0	1	0	0	0	7444	739	26	2	956	2	HTR3A	11	113857420	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08	49428843	113857420	21149096	47	14251											
ATP8A2	51761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	26104186	26104186	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctcgattcttgtatgagCagattagaagagctgctaat	12	13	9	7	1	1	4	0	1	1	3	2	5	1	4	1	0	4	4	1	0	5	6	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	26104186	C	G	26104186	3	3	282	1	0	0	0	0	1	0	0	0	1193	711	25	4	281	4	ATP8A2	13	26104186	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		26104186	89065692	48	14252											
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24885951	24885951	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcccaggtgctgcttcagCatgtgtttgcaaggtggggt	5	12	16	8	0	1	0	1	0	0	0	1	0	1	0	1	5	4	5	1	5	1	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	24885951	C	A	24885951	3	1	282	1	0	0	0	0	1	0	0	0	10796	710	25	4	5026	4	NYNRIN	14	24885951	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		24885951	82463589	49	14253											
KHNYN	23351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24901665	24901665	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggggtcgggggcctcaaTggaaacgaggcgcccgaggg	8	3	19	11	5	1	0	1	0	0	0	2	3	1	1	2	7	1	0	2	7	2	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	24901665	T	A	24901665	3	1	282	1	0	0	0	0	1	0	0	0	8150	1464	51	5	1204	5	KHNYN	14	24901665	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	15714	24901665	82447875	50	14254											
ACTN1	87	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	69349271	69349271	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcgggcatgctcctcCgtcagagcttggtccctccg	3	11	12	15	3	1	1	1	0	0	1	6	1	5	1	4	2	3	4	4	2	0	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	69349271	C	G	69349271	2	3	282	1	0	0	0	0	0	0	0	1	204	639	23	4		4	ACTN1	14	69349271	Silent	SNP	C	TCGA-BP-4960-01A-01D-1462-08	44447606	69349271	38000269	51	14255											
BTBD7	55727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	93709191	93709191	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgagaagtcatagaaatccgGatattcctgtggattttctc	11	14	9	7	1	2	2	1	1	1	2	5	5	4	4	2	2	0	0	2	2	4	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	93709191	G	C	93709191	3	2	282	1	0	0	0	0	1	0	0	0	1546	1174	41	4	575	4	BTBD7	14	93709191	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	24359920	93709191	13640349	52	14256											
TLN2	83660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63125718	63125718	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagcaagcggatgagaccCtggactttgaggaacagatc	13	8	12	8	1	0	3	0	2	0	2	1	7	0	6	1	3	3	1	1	3	4	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	63125718	C	A	63125718	3	1	282	1	0	0	0	0	1	0	0	0	15947	680	24	4	7224	4	TLN2	15	63125718	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		63125718	39405674	53	14257											
ZWILCH	55055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	66797733	66797733	+	RNA	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattctcgtctccttcagtgAgtctagtctcttcttttggc	4	19	7	11	1	6	1	1	1	5	0	9	1	6	1	1	1	0	0	1	1	2	7	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	66797733	A	C	66797733	1	2	282	0	1	0	0	0	0	0	0	0	18247	319	11	5		5	ZWILCH	15	66797733	RNA	SNP	A	TCGA-BP-4960-01A-01D-1462-08	3672015	66797733	35733659	54	14258											
ITGA11	22801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	68596122	68596122	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcaccttccacagtgcCaggaccagcagggccagcag	9	4	11	17	0	1	0	1	0	0	0	2	1	2	1	6	2	3	2	6	2	0	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	68596122	C	T	68596122	2	4	282	1	0	0	0	0	0	0	0	1	7874	581	21	2		2	ITGA11	15	68596122	Silent	SNP	C	TCGA-BP-4960-01A-01D-1462-08	1798389	68596122	33935270	55	14259											
FHOD1	29109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67264329	67264329	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaagcgcaaattcccgcAgcgtgtggcagaactgcatg	11	7	11	12	3	1	1	1	0	0	1	2	1	2	1	1	1	4	4	1	1	3	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	67264329	A	G	67264329	3	3	282	1	0	0	0	0	1	0	0	0	5882	188	7	3	571	3	FHOD1	16	67264329	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08		67264329	23090424	56	14260											
TMEM231	79583	broad.mit.edu	37	chr16	75590097	75590097	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgggtgagagaagagctcaTagagcgccatgagcaccgct	11	5	14	11	3	1	5	1	2	0	3	1	6	1	5	3	1	3	3	3	1	2	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	75590097	G	G	75590097	3	3	282	1	0	0	0	0	1	0	0	0	16148	1406	49	5	1060	5	TMEM231	16	75590097	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	8325768	75590097	14764656	57	14261											
ZNF594	84622	broad.mit.edu;hgsc.bcm.edu	37	chr17	5086351	5086351	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttacattcatatggtttctCtcctgtatgagttacctgat	8	19	6	8	0	2	2	1	2	1	0	4	2	3	2	2	1	2	3	2	1	4	7	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	5086351	C	T	5086351	3	4	282	1	0	0	0	0	1	0	0	0	18023	922	32	2	1226	2	ZNF594	17	5086351	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		5086351	76108859	58	14262											
RCVRN	5957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	9808162	9808162	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgatggtcccgttaccGtccacgtcgtagagggagaa	8	10	13	10	4	0	3	0	1	0	2	3	4	2	3	3	2	2	3	3	2	3	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	9808162	G	A	9808162	2	1	282	1	0	0	0	0	0	0	0	1	13188	1136	40	1		1	RCVRN	17	9808162	Silent	SNP	G	TCGA-BP-4960-01A-01D-1462-08	4721811	9808162	71387048	59	14263											
NOS2	4843	broad.mit.edu;hgsc.bcm.edu	37	chr17	26086097	26086097	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgcaggatgtcctgaacaTagacctgaaaccagaggaaa	15	5	11	10	1	0	4	0	2	0	2	1	6	1	6	4	2	2	1	4	2	4	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	26086097	T	C	26086097	3	2	282	1	0	0	0	0	1	0	0	0	10543	1406	49	3	305	3	NOS2	17	26086097	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	16277935	26086097	55109113	60	14264											
NOL11	25926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65730487	65730487	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattttatagaatgcctcTctgtatggaacataaaattt	13	17	5	6	0	1	1	0	0	1	1	2	2	1	2	1	1	2	1	1	1	8	7	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	65730487	T	A	65730487	3	1	282	1	0	0	0	0	1	0	0	0	10521	1551	54	5	892	5	NOL11	17	65730487	Missense_Mutation	SNP	T	TCGA-BP-4960-01A-01D-1462-08	39644390	65730487	15464723	61	14265											
TRIM65	201292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73888859	73888859	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctggctgctttgcttgcGcagctctagtagctggcctt	4	14	12	11	1	2	0	0	0	2	0	2	1	2	0	1	2	5	7	1	2	2	5	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	73888859	G	A	73888859	3	1	282	1	0	0	0	0	1	0	0	0	16538	1087	38	1	1086	1	TRIM65	17	73888859	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	8158372	73888859	7306351	62	14266											
ABCA7	10347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1051287	1051287	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgtgcagactcgccacCtctctggtgagcccatcccc	7	8	10	16	1	1	3	0	1	1	2	4	3	2	3	5	1	2	1	5	1	0	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		G	1051287	C	G	1051287	3	3	282	1	0	0	0	0	1	0	0	0	37	681	24	4	2892	4	ABCA7	19	1051287	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		1051287	58077696	63	14267											
UHRF1	29128	broad.mit.edu;hgsc.bcm.edu	37	chr19	4954476	4954476	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgtcccccaggacgggcaagGgcaagtggaagcggaagtcg	10	3	17	11	4	0	0	0	0	0	0	2	3	1	3	2	5	1	2	2	5	4	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	4954476	G	T	4954476	3	4	282	1	0	0	0	0	1	0	0	0	16966	1232	43	4	2022	4	UHRF1	19	4954476	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	3903189	4954476	54174507	64	14268											
LASS4	0	hgsc.bcm.edu;ucsc.edu	37	chr19	8322833	8322835	+	In_Frame_Del	DEL	TCT	TCT	-																															cttcctcatcttctcctttgTcttcttctacacccgactgg																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		-	8322835	TCT	-	8322833	7	5	282	1	0	1	0	1	0	0	0	0	8641	1667	58	0	842	0	LASS4	19	8322833	In_Frame_Del	DEL	TCT	TCGA-BP-4960-01A-01D-1462-08	3368357	8322833	50806150	65	14269											
PGLYRP2	114770	broad.mit.edu;hgsc.bcm.edu	37	chr19	15586606	15586606	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtggctgagggatggccggGgctcaggagtccggctcagg	6	6	20	9	2	2	1	2	1	0	0	3	3	3	3	2	8	0	3	2	8	0	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	15586606	G	A	15586606	3	1	282	1	0	0	0	0	1	0	0	0	11794	1232	43	2	871	2	PGLYRP2	19	15586606	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	7263773	15586606	43542377	66	14270											
MAST3	23031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18254635	18254635	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcgtcccagcccgagcgggGtcccagcccatctctcctga	5	8	10	18	3	1	1	0	1	1	0	6	2	4	1	5	2	3	0	5	2	0	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		T	18254635	G	T	18254635	3	4	282	1	0	0	0	0	1	0	0	0	9326	1261	44	4	2397	4	MAST3	19	18254635	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	2668029	18254635	40874348	67	14271											
CEACAM4	1089	hgsc.bcm.edu;ucsc.edu	37	chr19	42132122	42132123	+	Frame_Shift_Del	DEL	CC	CC	-																															ctctcgaccactgtatgcggCccctgggatatttgcttgaa																								novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		-	42132123	CC	-	42132122	7	5	282	1	0	1	0	1	0	0	0	0	3194	739	26	0	481	0	CEACAM4	19	42132122	Frame_Shift_Del	DEL	CC	TCGA-BP-4960-01A-01D-1462-08	23877487	42132122	16996861	68	14272											
PRKCG	5582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54395811	54395811	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggctcagcgtggaggtgtgGgactgggaccggacctcccg	5	6	18	12	4	1	0	1	0	0	0	2	4	2	4	3	6	1	1	3	6	0	0	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	54395811	G	A	54395811	4	1	282	1	0	0	0	0	0	1	0	0	12514	1241	43	2	761	2	PRKCG	19	54395811	Nonsense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	12263689	54395811	4733172	69	14273											
TNNT1	7138	broad.mit.edu	37	chr19	55645564	55645564	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgatggaggcagccaggcaGaccgggccctaggcccaggg	8	3	18	12	1	0	2	0	1	0	1	0	3	0	3	4	6	1	2	4	6	1	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	55645564	C	C	55645564	3	2	282	1	0	0	0	0	1	0	0	0	16329	942	33	4	228	4	TNNT1	19	55645564	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	1249753	55645564	3483419	70	14274											
PARD6B	84612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	49367004	49367004	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaactcttagaagaagaTggaacaatcataacattatg	20	9	6	6	0	2	3	1	0	1	3	2	4	2	4	0	1	3	0	0	1	9	3	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	49367004	T	C	49367004	2	2	282	1	0	0	0	0	0	0	0	1	11446	1461	51	3		3	PARD6B	20	49367004	Silent	SNP	T	TCGA-BP-4960-01A-01D-1462-08		49367004	13658516	71	14275											
C2CD2	25966	broad.mit.edu	37	chr21	43338331	43338331	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgcacttgtctcagccacCtggtcctggtgaaagaggag	9	9	12	11	1	1	2	1	1	1	1	4	3	2	3	3	3	1	1	3	3	1	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	43338331	A	A	43338331	3	1	282	1	0	0	0	0	1	0	0	0	2152	680	24	4	1527	4	C2CD2	21	43338331	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		43338331	4791564	72	14276											
LSS	4047	broad.mit.edu	37	chr21	47629493	47629493	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcctcaggaactcatgaGccttctgcaggcaggacgaa	12	6	12	11	1	3	2	2	1	1	1	3	5	3	4	2	3	4	2	2	3	2	1	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	47629493	C	C	47629493	3	2	282	1	0	0	0	0	1	0	0	0	9065	971	34	4	997	4	LSS	21	47629493	Missense_Mutation	SNP	G	TCGA-BP-4960-01A-01D-1462-08	4291162	47629493	500402	73	14277											
ZDHHC8	29801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	20130731	20130731	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctaccccgcagcttcagCcccgtgctgggcccccgccc	3	5	9	24	3	1	0	1	0	0	0	1	0	1	0	9	1	4	3	9	1	1	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		A	20130731	C	A	20130731	3	1	282	1	0	0	0	0	1	0	0	0	17620	738	26	4	1616	4	ZDHHC8	22	20130731	Missense_Mutation	SNP	C	TCGA-BP-4960-01A-01D-1462-08		20130731	31173835	74	14278											
GPC4	2239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132437029	132437029	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatggtcagtggcattgtAgtcaaactctgaagggcact	11	10	12	8	0	3	1	2	1	1	0	3	1	3	1	0	3	2	4	0	3	3	2	novel		TCGA-BP-4960-01A-01D-1462-08	TCGA-BP-4960-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	36d21be3-2f46-47af-84aa-2305f2513aa1	3bcb9c19-2edf-45a0-8889-6b066351e8ef		C	132437029	A	C	132437029	3	2	282	1	0	0	0	0	1	0	0	0	6600	420	15	5	137	5	GPC4	23	132437029	Missense_Mutation	SNP	A	TCGA-BP-4960-01A-01D-1462-08		132437029	22833531	75	14279											
VHL	7428	hgsc.bcm.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-BP-4961-01A-01D-1392-10	TCGA-BP-4961-11A-01D-1392-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	a121fc07-a7cd-4561-8cff-de1d3af81e5b	de2de206-b708-4406-9b05-5573e729213a		A	10183725	C	A	10183725	4	1	283	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-BP-4961-01A-01D-1392-10		10183725	187838705	1	14280											
C1orf173	127254	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	75037720	75037720	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctcaggggcctgcacctttCctgctggctcagcttcagga	5	10	11	15	0	3	0	3	0	0	0	4	1	4	1	4	4	3	4	4	4	0	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	75037720	C	T	75037720	3	4	284	1	0	0	0	0	1	0	0	0	2014	855	30	2	922	2	C1orf173	1	75037720	Missense_Mutation	SNP	C	TCGA-BP-4961-01A-01D-1462-08		75037720	174212901	1	14281											
DNTTIP2	30836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94343391	94343391	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtactactttctggatGcgcttgaatcccattagcag	9	13	8	11	1	1	1	0	1	1	0	3	2	3	2	2	1	4	3	2	1	4	5	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	94343391	G	T	94343391	3	4	284	1	0	0	0	0	1	0	0	0	4682	1319	46	4	2194	4	DNTTIP2	1	94343391	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08	19305671	94343391	154907230	2	14282											
KCND3	3752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	112524490	112524490	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaagacccggagcgtgaCgaaggcgccggacacgtcct	9	3	16	13	7	0	2	0	1	0	1	1	6	1	5	3	4	1	0	3	4	2	0	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	112524490	C	T	112524490	3	4	284	1	0	0	0	0	1	0	0	0	8020	536	19	1	1136	1	KCND3	1	112524490	Missense_Mutation	SNP	C	TCGA-BP-4961-01A-01D-1462-08	18181099	112524490	136726131	3	14283											
HMGCS2	3158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120307117	120307117	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtatactttcctgcttcCacattgttatacttctccag	8	17	4	12	0	1	0	0	0	1	0	4	0	3	0	3	0	3	3	3	0	4	8	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	120307117	C	A	120307117	2	1	284	1	0	0	0	0	0	0	0	1	7233	581	21	4		4	HMGCS2	1	120307117	Silent	SNP	C	TCGA-BP-4961-01A-01D-1462-08	7782627	120307117	128943504	4	14284											
RFX5	5993	hgsc.bcm.edu	37	chr1	151315565	151315566	+	Frame_Shift_Ins	INS	-	-	C																															taacctgcaggttattggctINScctggggccgagctctcaac																								novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	151315566	-	C	151315565	7	5	284	1	0	1	1	0	0	0	0	0	13268	1538	54	0	906	0	RFX5	1	151315565	Frame_Shift_Ins	INS	-	TCGA-BP-4961-01A-01D-1462-08	31008448	151315565	97935056	5	14285											
ZBTB41	360023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197169423	197169423	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaacttaaaagctttcTctgatctggagagggaggaa	15	9	11	6	0	2	3	0	1	2	2	3	6	2	5	0	3	2	1	0	3	5	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	197169423	T	C	197169423	3	2	284	1	0	0	0	0	1	0	0	0	17542	1559	54	3	2588	3	ZBTB41	1	197169423	Missense_Mutation	SNP	T	TCGA-BP-4961-01A-01D-1462-08	45853858	197169423	52081198	6	14286											
PTPN4	5775	hgsc.bcm.edu;ucsc.edu	37	chr2	120690059	120690060	+	Frame_Shift_Ins	INS	-	-	A																															gaagtagtaagcagaaattcINSaatatctgatgacaggttag																								novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	120690060	-	A	120690059	7	5	284	1	0	1	1	0	0	0	0	0	12792	838	29	0	1180	0	PTPN4	2	120690059	Frame_Shift_Ins	INS	-	TCGA-BP-4961-01A-01D-1462-08		120690059	122509314	7	14287											
VHL	7428	broad.mit.edu	37	chr3	10183714	10183720	+	Frame_Shift_Del	DEL	CGTGCTG	-	-																															gaggccgggcggccgcggccCgtgctgcgctcggtgaactc																								rs5030651	alternate_allele	TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	CGTGCTG	CGTGCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		-	10183720	-	-	10183714	7	5	284	1	0	1	0	1	0	0	0	0	17161	639	23	0	185	0	VHL	3	10183714	Frame_Shift_Del	DEL	CGTGCTG	TCGA-BP-4961-01A-01D-1462-08		10183714	187838716	8	14288											
WNT7A	7476	broad.mit.edu	37	chr3	13921263	13921263	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatccggaggtagaccatGcccaggctgagaaagaggtg	11	5	15	10	2	0	3	0	1	0	3	1	6	1	4	4	4	1	2	4	4	2	1	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	13921263	T	T	13921263	2	4	284	1	0	0	0	0	0	0	0	1	17393	1306	46	4		4	WNT7A	3	13921263	Silent	SNP	G	TCGA-BP-4961-01A-01D-1462-08	3737549	13921263	184101167	9	14289											
MAP4	4134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47957988	47957988	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccctggccagggctacCtctgtttctgaggacaaagc	8	10	11	12	0	2	1	0	1	2	0	3	2	3	2	3	3	2	2	3	3	2	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	47957988	C	T	47957988	2	4	284	1	0	0	0	0	0	0	0	1	9258	680	24	2		2	MAP4	3	47957988	Silent	SNP	C	TCGA-BP-4961-01A-01D-1462-08	34036725	47957988	150064442	10	14290											
SLC12A2	6558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127466804	127466804	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtctagggccagaatttgGtggtgcaattggtctaatct	10	13	12	6	0	3	1	0	0	3	1	3	1	3	1	1	4	1	1	1	4	5	4	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	127466804	G	T	127466804	3	4	284	1	0	0	0	0	1	0	0	0	14385	1261	44	4	1112	4	SLC12A2	5	127466804	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08		127466804	53448456	11	14291											
FSTL4	23105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132585226	132585226	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccacggtcactgtggtcAcactgaccctgtcctcgggg	5	8	12	16	2	2	1	2	1	0	0	4	1	3	1	4	4	0	0	4	4	0	0	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		G	132585226	A	G	132585226	3	3	284	1	0	0	0	0	1	0	0	0	6079	159	6	3	1798	3	FSTL4	5	132585226	Missense_Mutation	SNP	A	TCGA-BP-4961-01A-01D-1462-08	5118422	132585226	48330034	12	14292											
MAGI2	9863	hgsc.bcm.edu;ucsc.edu	37	chr7	78131009	78131010	+	Frame_Shift_Ins	INS	-	-	C																															gtgtcatccatctgctccttINScagctcctcaggctgactgt																								novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	78131010	-	C	78131009	7	5	284	1	0	1	1	0	0	0	0	0	9191	1792	62	0	3589	0	MAGI2	7	78131009	Frame_Shift_Ins	INS	-	TCGA-BP-4961-01A-01D-1462-08		78131009	81007654	13	14293											
COPG2	26958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	130295934	130295934	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacatcttggaaacagcAagtcgatcattctttctaag	13	13	6	9	1	5	0	2	0	3	0	6	2	5	1	0	1	3	1	0	1	4	5	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		G	130295934	A	G	130295934	2	3	284	1	0	0	0	0	0	0	0	1	3732	117	5	3		3	COPG2	7	130295934	Silent	SNP	A	TCGA-BP-4961-01A-01D-1462-08	52164925	130295934	28842729	14	14294											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151851228	151851228	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcattccttcttgattctGaacctttaaaaagagagaaa	14	14	6	7	0	3	4	1	2	2	2	4	5	4	4	2	0	1	0	2	0	5	6	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	151851228	G	T	151851228	4	4	284	1	0	0	0	0	0	1	0	0	9622	1294	45	4	2640	4	MLL3	7	151851228	Nonsense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08	21555294	151851228	7287435	15	14295											
GPAA1	8733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145138388	145138388	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaactgcccttcccagatgaGacccacgagcgctatgtact	11	8	8	14	2	0	2	0	1	0	2	1	4	1	2	3	0	4	2	3	0	3	3	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	145138388	G	C	145138388	3	2	284	1	0	0	0	0	1	0	0	0	6587	933	33	4	361	4	GPAA1	8	145138388	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08		145138388	1225634	16	14296											
ASTN2	23245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	119802150	119802150	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaccttcacagtgagtggAcaagacatctggctgccaca	11	8	10	12	0	3	2	2	1	1	1	3	3	3	3	2	2	1	1	2	2	1	1	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		G	119802150	A	G	119802150	2	3	284	1	0	0	0	0	0	0	0	1	1065	273	10	3		3	ASTN2	9	119802150	Silent	SNP	A	TCGA-BP-4961-01A-01D-1462-08		119802150	21411281	17	14297											
KIF20B	9585	broad.mit.edu;hgsc.bcm.edu	37	chr10	91476196	91476196	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctttattttttaaagatcTacaatggattcaagtatctg	12	18	5	6	0	4	1	1	0	3	1	4	2	4	2	0	1	1	1	0	1	7	8	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	91476196	T	C	91476196	3	2	284	1	0	0	0	0	1	0	0	0	8287	1522	53	3	974	3	KIF20B	10	91476196	Missense_Mutation	SNP	T	TCGA-BP-4961-01A-01D-1462-08		91476196	44058551	18	14298											
RRP12	23223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99120376	99120376	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcttctggtgctttttCtatagagagagaataggtgg	9	15	13	4	0	2	3	0	1	2	2	2	5	2	3	0	3	2	2	0	3	4	7	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	99120376	C	A	99120376	5	1	284	1	0	0	0	0	0	0	1	0	13688	927	32	4	342	4	RRP12	10	99120376	Splice_Site	SNP	C	TCGA-BP-4961-01A-01D-1462-08	7644180	99120376	36414371	19	14299											
HSPA12A	259217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118464696	118464696	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattccggctccttggtgaAgctgtaggcatagccactgg	7	10	13	11	1	0	1	0	1	0	0	2	1	2	1	3	4	2	5	3	4	3	4	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		G	118464696	A	G	118464696	3	3	284	1	0	0	0	0	1	0	0	0	7404	72	3	3	1847	3	HSPA12A	10	118464696	Missense_Mutation	SNP	A	TCGA-BP-4961-01A-01D-1462-08	19344320	118464696	17070051	20	14300											
OSBPL5	114879	broad.mit.edu	37	chr11	3150289	3150289	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctccgctgaggagcaagttCcgggtgagcttccgggggtc	5	9	16	11	3	1	2	0	2	1	0	5	3	3	3	3	4	2	4	3	4	1	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	3150289	T	T	3150289	2	4	284	1	0	0	0	0	0	0	0	1	11280	842	30	2		2	OSBPL5	11	3150289	Silent	SNP	C	TCGA-BP-4961-01A-01D-1462-08		3150289	131856227	21	14301											
MARK2	2011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63668343	63668343	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgactacaaggacccccGgcggacaggtgaggctgtgc	8	5	14	14	2	0	2	0	2	0	0	0	4	0	4	3	5	2	1	3	5	2	1	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	63668343	G	A	63668343	3	1	284	1	0	0	0	0	1	0	0	0	9313	1116	39	1	1018	1	MARK2	11	63668343	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08	60518054	63668343	71338173	22	14302											
EFEMP2	30008	hgsc.bcm.edu;ucsc.edu	37	chr11	65637667	65637667	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagccaggcaggttcaCgcagcggtgctggcagtagc	9	5	17	10	2	1	0	1	0	0	0	1	2	1	1	1	5	4	6	1	5	2	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	65637667	C	T	65637667	3	4	284	1	0	0	0	0	1	0	0	0	4942	536	19	1	823	1	EFEMP2	11	65637667	Missense_Mutation	SNP	C	TCGA-BP-4961-01A-01D-1462-08	1969324	65637667	69368849	23	14303											
PCF11	51585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	82877718	82877718	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggcaaagttccaagtcTgccaaaagatggaaatctgg	15	8	10	8	0	2	1	0	0	2	1	3	2	3	2	2	3	2	2	2	3	6	1	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	82877718	T	C	82877718	2	2	284	1	0	0	0	0	0	0	0	1	11573	1567	55	3		3	PCF11	11	82877718	Silent	SNP	T	TCGA-BP-4961-01A-01D-1462-08	17240051	82877718	52128798	24	14304											
ZNF770	54989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35274804	35274804	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggattattctcctcagAttcaccaatctcaccatttt	11	15	4	11	0	4	1	3	0	2	1	6	2	4	2	3	1	0	0	3	1	3	5	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	35274804	A	T	35274804	3	4	284	1	0	0	0	0	1	0	0	0	18142	333	12	5	1247	5	ZNF770	15	35274804	Missense_Mutation	SNP	A	TCGA-BP-4961-01A-01D-1462-08		35274804	67256588	25	14305											
MYO9A	4649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72300251	72300251	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatgtcttctttttgtaacaGatattacccaaatgtagtat	12	18	5	6	0	2	1	0	0	2	1	2	1	2	1	1	0	2	3	1	0	7	9	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	72300251	G	C	72300251	3	2	284	1	0	0	0	0	1	0	0	0	10084	932	33	4	6490	4	MYO9A	15	72300251	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08	37025447	72300251	30231141	26	14306											
ACAN	176	broad.mit.edu;hgsc.bcm.edu	37	chr15	89395179	89395179	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaccctcaggggagactacTgccatcctagagttcaccac	10	8	9	14	0	2	2	2	0	0	2	3	3	3	2	4	2	3	2	4	2	3	4	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	89395179	T	A	89395179	2	1	284	1	0	0	0	0	0	0	0	1	117	1567	55	5		5	ACAN	15	89395179	Silent	SNP	T	TCGA-BP-4961-01A-01D-1462-08	17094928	89395179	13136213	27	14307											
ANPEP	290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90340889	90340889	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcggcctcccagggcatgtActgtctctcttcaatcagga	7	10	11	13	1	4	0	2	0	2	0	6	1	5	1	2	4	1	2	2	4	2	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		G	90340889	A	G	90340889	3	3	284	1	0	0	0	0	1	0	0	0	710	391	14	3	857	3	ANPEP	15	90340889	Missense_Mutation	SNP	A	TCGA-BP-4961-01A-01D-1462-08	945710	90340889	12190503	28	14308											
VWA3A	146177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	22162103	22162103	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccttgtcctaaatgaaGtccaaaaactcagggagaaa	16	7	9	9	0	1	2	1	1	0	1	3	3	3	2	3	1	2	1	3	1	6	2	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	22162103	G	A	22162103	3	1	284	1	0	0	0	0	1	0	0	0	17239	1029	36	2	3335	2	VWA3A	16	22162103	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08		22162103	68192650	29	14309											
CHD3	1107	broad.mit.edu;hgsc.bcm.edu	37	chr17	7806304	7806304	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtccacccgagctgggggCctgggcatcaatctggccac	6	7	13	15	1	2	0	1	0	1	0	3	1	3	0	4	4	1	2	4	4	1	0	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	7806304	C	T	7806304	2	4	284	1	0	0	0	0	0	0	0	1	3326	726	26	2		2	CHD3	17	7806304	Silent	SNP	C	TCGA-BP-4961-01A-01D-1462-08		7806304	73388906	30	14310											
FLCN	201163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	17119744	17119744	+	Frame_Shift_Del	DEL	A	A	-																															cgtgcgggctgagccccaggAagttgcaccgataggcctcc																								novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		-	17119744	A	-	17119744	7	5	284	1	0	1	0	1	0	0	0	0	5921	246	9	0	505	0	FLCN	17	17119744	Frame_Shift_Del	DEL	A	TCGA-BP-4961-01A-01D-1462-08	9313440	17119744	64075466	31	14311											
IMP5	0	hgsc.bcm.edu;ucsc.edu	37	chr17	43923077	43923077	+	Frame_Shift_Del	DEL	C	C	-																															tgtcctgctcgctcatgctgCtgctctacttcttctatgac																								novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		-	43923077	C	-	43923077	7	5	284	1	0	1	0	1	0	0	0	0	7721	796	28	0	807	0	IMP5	17	43923077	Frame_Shift_Del	DEL	C	TCGA-BP-4961-01A-01D-1462-08	26803333	43923077	37272133	32	14312											
ACOX1	51	hgsc.bcm.edu	37	chr17	73946942	73946942	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatatttggaagaccactgCaatgagaatagccatgccca	16	8	8	9	0	0	2	0	1	0	2	0	4	0	3	3	1	3	1	3	1	6	3	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	73946942	C	A	73946942	3	1	284	1	0	0	0	0	1	0	0	0	158	710	25	4	795	4	ACOX1	17	73946942	Missense_Mutation	SNP	C	TCGA-BP-4961-01A-01D-1462-08	30023865	73946942	7248268	33	14313											
MC5R	4161	hgsc.bcm.edu;ucsc.edu	37	chr18	13826006	13826006	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgcagcctggcagtggCggacatgctggtgagcatgt	6	9	17	9	2	0	1	0	1	0	0	0	2	0	2	1	4	4	4	1	4	0	0	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		T	13826006	C	T	13826006	3	4	284	1	0	0	0	0	1	0	0	0	9367	768	27	1	244	1	MC5R	18	13826006	Missense_Mutation	SNP	C	TCGA-BP-4961-01A-01D-1462-08		13826006	64251242	34	14314											
CXXC1	30827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47808972	47808972	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggaggctcagcggtcGgcactggagcgcaggtcggt	6	5	19	11	4	1	0	1	0	0	0	3	2	1	2	1	8	2	3	1	8	0	0	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	47808972	G	A	47808972	2	1	284	1	0	0	0	0	0	0	0	1	4097	1103	39	1		1	CXXC1	18	47808972	Silent	SNP	G	TCGA-BP-4961-01A-01D-1462-08	33982966	47808972	30268276	35	14315											
SERPINB5	5268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61154215	61154215	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcaaagatgtaccctttGgatttcaaacagtaacatcg	14	12	7	8	1	2	1	2	0	0	1	3	2	2	2	1	1	3	2	1	1	4	4	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		A	61154215	G	A	61154215	3	1	284	1	0	0	0	0	1	0	0	0	14106	1349	47	2	211	2	SERPINB5	18	61154215	Missense_Mutation	SNP	G	TCGA-BP-4961-01A-01D-1462-08	13345243	61154215	16923033	36	14316											
SUPT5H	6829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39964875	39964875	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctcctgtctctgcaggTacaacacagaccagttctct	8	13	6	14	0	3	1	0	0	3	1	7	1	4	1	2	1	3	3	2	1	2	3	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		C	39964875	T	C	39964875	3	2	284	1	0	0	0	0	1	0	0	0	15398	1652	57	3	2755	3	SUPT5H	19	39964875	Missense_Mutation	SNP	T	TCGA-BP-4961-01A-01D-1462-08		39964875	19164108	37	14317											
FAM116B	0	broad.mit.edu;hgsc.bcm.edu	37	chr22	50752245	50752245	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccacaaaccatatacctTgagcagccgtttgagcagcg	11	7	9	14	2	0	2	0	2	0	0	0	2	0	2	5	0	6	3	5	0	3	4	novel		TCGA-BP-4961-01A-01D-1462-08	TCGA-BP-4961-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e2b3d42d-a775-4dfd-8d26-276487654093	f94e3b28-7dfa-4eae-98b3-9f133e05c91b		G	50752245	T	G	50752245	3	3	284	1	0	0	0	0	1	0	0	0	5408	1821	63	5	584	5	FAM116B	22	50752245	Missense_Mutation	SNP	T	TCGA-BP-4961-01A-01D-1462-08		50752245	552321	38	14318											
SLC45A1	50651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	8390936	8390936	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccttggccatcccggaCgcagccggaggagggggtcc	7	4	16	14	3	0	1	0	0	0	1	2	4	2	4	5	6	1	1	5	6	0	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	8390936	C	T	8390936	2	4	285	1	0	0	0	0	0	0	0	1	14642	535	19	1		1	SLC45A1	1	8390936	Silent	SNP	C	TCGA-BP-4962-01A-01D-1462-08		8390936	240859685	1	14319											
NCDN	23154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36026446	36026446	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagtgaggatttccagaaaGctgaggatgccagcaagttt	12	10	12	7	0	1	3	1	2	0	1	2	5	2	5	2	2	3	3	2	2	2	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		C	36026446	G	C	36026446	3	2	285	1	0	0	0	0	1	0	0	0	10214	971	34	4	704	4	NCDN	1	36026446	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08	27635510	36026446	213224175	2	14320											
CLASP1	23332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	122273322	122273322	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatttccactaagctgtttAttgctgcatctcgaacctag	11	14	6	10	1	1	0	0	0	1	0	3	1	2	0	2	0	4	4	2	0	5	6	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		G	122273322	A	G	122273322	3	3	285	1	0	0	0	0	1	0	0	0	3454	449	16	3	4241	3	CLASP1	2	122273322	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08		122273322	120926051	3	14321											
TANC1	85461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160035470	160035470	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcatccctccaccccatgaCagacgagcagatctttcagg	10	7	8	16	2	2	3	1	1	1	2	4	4	4	3	4	1	1	2	4	1	0	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		G	160035470	C	G	160035470	3	3	285	1	0	0	0	0	1	0	0	0	15543	478	17	4	2352	4	TANC1	2	160035470	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	37762148	160035470	83163903	4	14322											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179452123	179452123	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacatctgaaacttttaaaTcagacacaggcccaggagtg	14	9	9	9	0	2	3	1	2	1	1	2	4	2	4	1	2	1	0	1	2	3	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		C	179452123	T	C	179452123	3	2	285	1	0	0	0	0	1	0	0	0	16734	1435	50	3	44388	3	TTN	2	179452123	Missense_Mutation	SNP	T	TCGA-BP-4962-01A-01D-1462-08	19416653	179452123	63747250	5	14323											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443892	52443892	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctccagccagcccttattCatcttcccgcggggcggccc	5	8	10	18	3	2	0	1	0	1	0	4	0	4	0	5	3	3	1	5	3	1	3	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	52443892	C	T	52443892	3	4	285	1	0	0	0	0	1	0	0	0	1311	826	29	2	2254	2	BAP1	3	52443892	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08		52443892	145578538	6	14324											
CHRD	8646	broad.mit.edu;ucsc.edu	37	chr3	184103856	184103856	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtgtggtgaaggaccTggagccggaactgctgcggc	7	6	18	10	2	0	1	0	1	0	0	0	4	0	4	3	6	4	1	3	6	2	0	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		G	184103856	G	G	184103856	3	3	285	1	0	0	0	0	1	0	0	0	3372	1580	55	5	1899	5	CHRD	3	184103856	Missense_Mutation	SNP	T	TCGA-BP-4962-01A-01D-1462-08	131659964	184103856	13918574	7	14325											
MFI2	4241	broad.mit.edu	37	chr3	196733606	196733606	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccagggctcggaattgtgGcctgaggggggtaaagcagt	8	7	18	8	1	0	1	0	1	0	0	1	2	0	2	2	6	1	3	2	6	3	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	196733606	T	T	196733606	2	4	285	1	0	0	0	0	0	0	0	1	9522	1217	42	4		4	MFI2	3	196733606	Silent	SNP	G	TCGA-BP-4962-01A-01D-1462-08	12629750	196733606	1288824	8	14326											
SPEF2	79925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	35771808	35771808	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagatgggtgcaaataaaaAagtcaaaaaggagccaccca	19	5	9	8	0	2	1	2	0	0	1	2	2	2	2	2	2	2	1	2	2	6	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		C	35771808	A	C	35771808	3	2	285	1	0	0	0	0	1	0	0	0	15036	14	1	5	4026	5	SPEF2	5	35771808	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08		35771808	145143452	9	14327											
SPINK5	11005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147481422	147481422	+	Missense_Mutation	SNP	C	C	A																															agaatgaccccatccagggcCcagatggaaaaatgcatggc																								novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	147481422	C	A	147481422	3	1	285	1	0	0	0	0	1	0	0	0	15063	623	22	4	1439	4	SPINK5	5	147481422	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	111709614	147481422	33433838	10	14328	188	2									
SPINK5	11005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147481423	147481423	+	Missense_Mutation	SNP	C	C	A																															gaatgaccccatccagggccCagatggaaaaatgcatggca																								novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	147481423	C	A	147481423	3	1	285	1	0	0	0	0	1	0	0	0	15063	594	21	4	1440	4	SPINK5	5	147481423	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	1	147481423	33433837	11	14329	188	2									
NIPAL4	348938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156899742	156899742	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacattgcaggcaccctctCgggctttgtcaccatcatct	7	11	9	14	1	4	0	2	0	2	0	5	1	4	1	2	3	1	3	2	3	0	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	156899742	C	T	156899742	3	4	285	1	0	0	0	0	1	0	0	0	10427	893	31	1	1197	1	NIPAL4	5	156899742	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	9418319	156899742	24015518	12	14330											
ABCA13	154664	broad.mit.edu;ucsc.edu	37	chr7	48411895	48411895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtggcatctttgcacacaGcaatacctttattgttttcc	10	15	6	10	0	1	0	0	0	1	0	2	0	2	0	2	1	3	4	2	1	4	7	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	48411895	A	A	48411895	3	1	285	1	0	0	0	0	1	0	0	0	31	971	34	2	10893	2	ABCA13	7	48411895	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08		48411895	110726768	13	14331											
SEMA3A	10371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	83590955	83590955	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctttggtcttagagccatctCcatcatcatctttatgaaga	10	15	6	10	0	5	3	2	1	3	2	6	3	5	3	2	1	1	0	2	1	3	4	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	83590955	C	T	83590955	3	4	285	1	0	0	0	0	1	0	0	0	14026	855	30	2	271	2	SEMA3A	7	83590955	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	35179060	83590955	75547708	14	14332											
SMARCA2	6595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2056787	2056787	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaagctcgcatgaccgAgaagctggagaagcagcaga	15	3	15	8	2	0	5	0	1	0	4	1	9	0	5	1	1	4	5	1	1	3	0	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	2056787	A	T	2056787	3	4	285	1	0	0	0	0	1	0	0	0	14771	304	11	5	1311	5	SMARCA2	9	2056787	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08		2056787	139156644	15	14333											
DBH	1621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136505100	136505100	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttggcacctgcgaccccaagGattacctcattgaagtaagg	11	9	10	11	1	1	1	1	1	0	0	1	3	1	2	4	3	2	2	4	3	4	4	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	136505100	G	A	136505100	3	1	285	1	0	0	0	0	1	0	0	0	4250	1174	41	2	478	2	DBH	9	136505100	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08	134448313	136505100	4708331	16	14334											
CCDC88B	283234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64108611	64108611	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgctgatcctgtcgccaCccccagacctccagacattg	8	8	8	17	1	0	3	0	1	0	2	3	3	2	3	6	0	2	2	6	0	0	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	64108611	C	T	64108611	3	4	285	1	0	0	0	0	1	0	0	0	2864	507	18	2	363	2	CCDC88B	11	64108611	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08		64108611	70897905	17	14335											
FAM55B	0	broad.mit.edu;ucsc.edu	37	chr11	114569272	114569272	+	Missense_Mutation	SNP	G	A	A																															aaggaaccaaggatgtgataGgatcatcttcactggcctgt																								novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	114569272	A	A	114569272	3	1	285	1	0	0	0	0	1	0	0	0	5585	1000	35	2	648	2	FAM55B	11	114569272	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08	50460661	114569272	20437244	18	14336	189	2									
FAM55B	0	broad.mit.edu;ucsc.edu	37	chr11	114569274	114569274	+	Missense_Mutation	SNP	A	G	G																															ggaaccaaggatgtgataggAtcatcttcactggcctgttt																								novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		G	114569274	G	G	114569274	3	3	285	1	0	0	0	0	1	0	0	0	5585	333	12	3	650	3	FAM55B	11	114569274	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08	2	114569274	20437242	19	14337	189	2									
SIDT2	51092	broad.mit.edu;hgsc.bcm.edu	37	chr11	117052642	117052642	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccctgtcaccagtcaacaCcacataccagctccgggtca	11	6	6	18	1	3	0	3	0	0	0	4	0	4	0	5	1	3	1	5	1	2	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	117052642	C	A	117052642	3	1	285	1	0	0	0	0	1	0	0	0	14305	507	18	4	435	4	SIDT2	11	117052642	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	2483368	117052642	17953874	20	14338											
SOX5	6660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	23818384	23818384	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacagtacttactacatcCagccttatagctgaagcctg	12	11	6	12	0	1	1	1	1	0	0	2	1	2	1	3	0	7	2	3	0	7	5	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	23818384	C	T	23818384	3	4	285	1	0	0	0	0	1	0	0	0	14956	603	21	2	1412	2	SOX5	12	23818384	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08		23818384	110033511	21	14339											
ARL11	115761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	50204841	50204841	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacagatatcctcgtgtaCgtgctggacagcacagatga	11	8	12	10	2	0	3	0	1	0	2	2	4	1	4	1	2	3	4	1	2	2	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	50204841	C	T	50204841	2	4	285	1	0	0	0	0	0	0	0	1	927	547	19	1		1	ARL11	13	50204841	Silent	SNP	C	TCGA-BP-4962-01A-01D-1462-08		50204841	64965037	22	14340											
MGA	23269	hgsc.bcm.edu;ucsc.edu	37	chr15	41961876	41961876	+	Frame_Shift_Del	DEL	G	G	-																															ccaaaggctttcgggatgatGggctgaataataagccccag																								novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		-	41961876	G	-	41961876	7	5	285	1	0	1	0	1	0	0	0	0	9540	1348	47	0	786	0	MGA	15	41961876	Frame_Shift_Del	DEL	G	TCGA-BP-4962-01A-01D-1462-08		41961876	60569516	23	14341											
ACAN	176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89386810	89386810	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctgggcgtgaggaccGtctacgtgcatgccaaccag	8	7	12	14	3	1	1	0	1	1	0	2	2	2	2	5	2	4	1	5	2	2	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	89386810	G	A	89386810	3	1	285	1	0	0	0	0	1	0	0	0	117	1145	40	1	1000	1	ACAN	15	89386810	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08	47424934	89386810	13144582	24	14342											
SALL1	6299	hgsc.bcm.edu;ucsc.edu	37	chr16	51172715	51172716	+	Frame_Shift_Ins	INS	-	-	A																															gatgaggagaaggttttgccINSacatgtgttgcagtagtgct																								novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	51172716	-	A	51172715	7	5	285	1	0	1	1	0	0	0	0	0	13812	594	21	0	564	0	SALL1	16	51172715	Frame_Shift_Ins	INS	-	TCGA-BP-4962-01A-01D-1462-08		51172715	39182038	25	14343											
CMIP	80790	broad.mit.edu	37	chr16	81712128	81712128	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgacagcgagcccaaccTcatcgactgcctcatggtca	11	6	8	16	3	3	0	3	0	0	0	4	3	3	0	3	1	5	0	3	1	2	0	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		C	81712128	C	C	81712128	3	2	285	1	0	0	0	0	1	0	0	0	3578	1551	54	3	1343	3	CMIP	16	81712128	Missense_Mutation	SNP	T	TCGA-BP-4962-01A-01D-1462-08	30539413	81712128	8642625	26	14344											
KIAA0664	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	2606746	2606746	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcccggtccatgagcAcctggtgaatctcctgcacc	6	10	9	16	1	1	2	0	2	1	0	5	2	4	2	6	2	2	2	6	2	1	0	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	2606746	A	T	2606746	3	4	285	1	0	0	0	0	1	0	0	0	8189	159	6	5	3798	5	KIAA0664	17	2606746	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08		2606746	78588464	27	14345											
SLC26A11	284129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78199688	78199688	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttcctgcaggtgtaccAcaccttcctcaggattgcag	7	12	9	13	0	2	0	1	0	1	0	4	1	4	1	4	2	3	4	4	2	1	5	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		G	78199688	A	G	78199688	3	3	285	1	0	0	0	0	1	0	0	0	14518	159	6	3	580	3	SLC26A11	17	78199688	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08	75592942	78199688	2995522	28	14346											
PTPRM	5797	broad.mit.edu	37	chr18	8253332	8253332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactgggcagctccaccccGccatccgggtggcagacctc	7	5	12	17	2	0	2	0	0	0	2	3	2	2	2	6	3	1	3	6	3	0	0	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	8253332	A	A	8253332	3	1	285	1	0	0	0	0	1	0	0	0	12808	1087	38	1	2748	1	PTPRM	18	8253332	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08		8253332	69823916	29	14347											
FECH	2235	broad.mit.edu;ucsc.edu	37	chr18	55221616	55221616	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacaaagccctttgataGattcgtctgtttgaggaccc	9	13	8	11	1	2	3	1	2	2	1	4	4	2	4	2	1	1	1	2	1	2	4	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	55221616	T	T	55221616	3	4	285	1	0	0	0	0	1	0	0	0	5808	942	33	4	330	4	FECH	18	55221616	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08	46968284	55221616	22855632	30	14348											
ECSIT	51295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11618611	11618611	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggccctcaacaaagacaGgccgggctggattgtggcgg	9	5	17	10	2	1	1	1	0	0	1	1	2	1	2	2	7	1	1	2	7	2	1	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	11618611	G	T	11618611	3	4	285	1	0	0	0	0	1	0	0	0	4900	1000	35	4	456	4	ECSIT	19	11618611	Missense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08		11618611	47510372	31	14349											
ERCC1	2067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45923622	45923622	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctggcccagcacatagtCgggaattacgtcgccaaatt	10	9	10	12	3	1	0	0	0	1	0	3	1	1	1	2	2	2	2	2	2	4	3	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	45923622	C	T	45923622	3	4	285	1	0	0	0	0	1	0	0	0	5212	884	31	1	665	1	ERCC1	19	45923622	Missense_Mutation	SNP	C	TCGA-BP-4962-01A-01D-1462-08	34305011	45923622	13205361	32	14350											
GRIK1	2897	broad.mit.edu;hgsc.bcm.edu	37	chr21	31023608	31023608	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccagatccaaagcaaataAgtcctgcatagtatcaaaaa	18	9	5	9	0	1	1	1	0	0	1	4	1	4	1	3	0	2	3	3	0	7	4	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		T	31023608	A	T	31023608	3	4	285	1	0	0	0	0	1	0	0	0	6773	69	3	5	2180	5	GRIK1	21	31023608	Missense_Mutation	SNP	A	TCGA-BP-4962-01A-01D-1462-08		31023608	17106287	33	14351											
SYNJ1	8867	broad.mit.edu;ucsc.edu	37	chr21	34011316	34011316	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttggctgggggccagactGaggcataggtgctgccacag	8	8	16	9	0	0	2	0	1	0	1	0	2	0	2	2	5	2	3	2	5	1	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		A	34011316	A	A	34011316	4	1	285	1	0	0	0	0	0	1	0	0	15451	1299	45	2	937	2	SYNJ1	21	34011316	Nonsense_Mutation	SNP	G	TCGA-BP-4962-01A-01D-1462-08	2987708	34011316	14118579	34	14352											
NONO	4841	broad.mit.edu;hgsc.bcm.edu	37	chrX	70511743	70511743	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacatcactgaggaagaaaTgaggaaactatttgagaaat	18	8	10	5	1	1	4	1	3	0	2	1	8	1	6	0	2	1	0	0	2	5	2	novel		TCGA-BP-4962-01A-01D-1462-08	TCGA-BP-4962-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3454a6fe-2547-4531-a0be-cb27c1879e72	bb91bd89-bf58-47f8-a5fc-e54adf4264f8		G	70511743	T	G	70511743	3	3	285	1	0	0	0	0	1	0	0	0	10534	1464	51	5	275	5	NONO	23	70511743	Missense_Mutation	SNP	T	TCGA-BP-4962-01A-01D-1462-08		70511743	84758817	35	14353											
MMEL1	79258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	2541226	2541226	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcaaactggtagaagtcgtCacacggttccgtggtcgggt	8	10	14	9	4	1	1	1	0	0	1	4	1	2	1	1	4	2	3	1	4	3	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	2541226	C	T	2541226	3	4	286	1	0	0	0	0	1	0	0	0	9646	826	29	2	2082	2	MMEL1	1	2541226	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		2541226	246709395	1	14354											
UBXN11	91544	broad.mit.edu	37	chr1	26623424	26623424	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcacctccatctccctgaCctgccgctgcagctgcacac	6	9	6	20	1	2	1	1	1	2	0	5	1	3	1	5	0	4	4	5	0	0	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	26623424	G	G	26623424	3	3	286	1	0	0	0	0	1	0	0	0	16912	507	18	4	1180	4	UBXN11	1	26623424	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	24082198	26623424	222627197	2	14355											
CC2D1B	200014	hgsc.bcm.edu	37	chr1	52824974	52824975	+	Frame_Shift_Ins	INS	-	-	G																															gctgcactcgctccacggctINSgggggaatgactgagggtgc																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	52824975	-	G	52824974	7	5	286	1	0	1	1	0	0	0	0	0	2727	1567	55	0	1562	0	CC2D1B	1	52824974	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	26201550	52824974	196425647	3	14356											
LEPR	3953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	66067338	66067338	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaatgaacatgaatgccatCatcgctatgctgaattatat	14	12	7	8	1	1	3	1	3	0	0	2	3	1	3	1	0	3	3	1	0	7	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	66067338	C	T	66067338	3	4	286	1	0	0	0	0	1	0	0	0	8728	826	29	2	1284	2	LEPR	1	66067338	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	13242364	66067338	183183283	4	14357											
RPRD2	23248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150432593	150432593	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtatccacttctgtacctaCaaagccaacagaaaatatct	15	11	4	11	0	2	1	0	0	2	1	3	1	3	1	3	0	4	2	3	0	8	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	150432593	C	T	150432593	3	4	286	1	0	0	0	0	1	0	0	0	13619	478	17	2	1245	2	RPRD2	1	150432593	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	84365255	150432593	98818028	5	14358											
SLC39A1	27173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153932643	153932643	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcagaatgaccttgaggatCctttgctcagaactggccag	11	9	11	10	0	1	4	1	2	0	2	2	5	2	5	3	2	3	2	3	2	2	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	153932643	C	T	153932643	2	4	286	1	0	0	0	0	0	0	0	1	14614	854	30	2		2	SLC39A1	1	153932643	Silent	SNP	C	TCGA-BP-4963-01A-01D-1462-08	3500050	153932643	95317978	6	14359											
SLC25A44	9673	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156169881	156169881	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggttcctggtcaatacCttcaccctcatctctggcca	7	11	8	15	1	4	0	3	0	1	0	6	1	5	0	4	3	1	1	4	3	2	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	156169881	C	A	156169881	2	1	286	1	0	0	0	0	0	0	0	1	14511	668	24	4		4	SLC25A44	1	156169881	Silent	SNP	C	TCGA-BP-4963-01A-01D-1462-08	2237238	156169881	93080740	7	14360											
SLAMF7	57823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160718025	160718025	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaagagctggtcggttccGttggtggggccgtgactttc	5	12	16	8	3	0	3	0	2	0	1	3	3	1	3	2	5	1	3	2	5	1	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	160718025	G	A	160718025	3	1	286	1	0	0	0	0	1	0	0	0	14371	1145	40	1	103	1	SLAMF7	1	160718025	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	4548144	160718025	88532596	8	14361											
MPZL1	9019	broad.mit.edu;hgsc.bcm.edu	37	chr1	167734877	167734877	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagaaatcttcgtggcaaAtggtacacaagggaagctga	17	7	11	6	1	1	2	0	1	1	1	2	3	1	3	0	3	2	3	0	3	7	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	167734877	A	C	167734877	3	2	286	1	0	0	0	0	1	0	0	0	9749	101	4	5	155	5	MPZL1	1	167734877	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08	7016852	167734877	81515744	9	14362											
ALLC	55821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	3727474	3727474	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggtcacgactggtgtgTcctcaggctggggatccaag	7	8	15	11	2	2	0	2	0	0	0	4	2	4	1	2	5	0	2	2	5	1	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	3727474	T	C	3727474	3	2	286	1	0	0	0	0	1	0	0	0	534	1667	58	3	202	3	ALLC	2	3727474	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08		3727474	239471899	10	14363											
MAPRE3	22924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27245101	27245101	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggtatggccgtcaatgtGtactccacatctgtgaccag	8	11	12	10	1	2	1	1	1	1	0	3	1	3	1	3	3	1	2	3	3	3	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	27245101	G	A	27245101	2	1	286	1	0	0	0	0	0	0	0	1	9296	1364	48	2		2	MAPRE3	2	27245101	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	23517627	27245101	215954272	11	14364											
EIF2AK2	5610	hgsc.bcm.edu;ucsc.edu	37	chr2	37368712	37368712	+	Frame_Shift_Del	DEL	C	C	-																															ttacccttctggcccatgcaCccccgatgcacactgttcat																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	37368712	C	-	37368712	7	5	286	1	0	1	0	1	0	0	0	0	4997	507	18	0	1334	0	EIF2AK2	2	37368712	Frame_Shift_Del	DEL	C	TCGA-BP-4963-01A-01D-1462-08	10123611	37368712	205830661	12	14365											
SMEK2	57223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	55825590	55825590	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaactttgttgaagaaaaTaaaagacgtaagagtagaaa	20	9	8	4	1	1	5	1	1	0	4	1	5	1	5	0	0	1	3	0	0	9	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	55825590	T	A	55825590	3	1	286	1	0	0	0	0	1	0	0	0	14796	1406	49	5	1722	5	SMEK2	2	55825590	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	18456878	55825590	187373783	13	14366											
USP34	9736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61566797	61566797	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcattactgttgaattgAtgtttatgaactacaggtcc	12	14	8	7	0	0	3	0	3	0	0	1	3	1	3	1	1	4	3	1	1	5	6	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	61566797	A	G	61566797	2	3	286	1	0	0	0	0	0	0	0	1	17064	330	12	3		3	USP34	2	61566797	Silent	SNP	A	TCGA-BP-4963-01A-01D-1462-08	5741207	61566797	181632576	14	14367											
ANKRD36	375248	broad.mit.edu	37	chr2	97864367	97864367	+	Frame_Shift_Del	DEL	A	-	-																															gttttgaatatagccagaggAaaaaaggatggagaaaaaac																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	97864367	-	-	97864367	7	5	286	1	0	1	0	1	0	0	0	0	665	233	9	0	2901	0	ANKRD36	2	97864367	Frame_Shift_Del	DEL	A	TCGA-BP-4963-01A-01D-1462-08	36297570	97864367	145335006	15	14368											
GLI2	2736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	121747767	121747767	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgatgggcaacatggggtCggtgcctccccagccgcctc	6	6	14	15	3	0	0	0	0	0	0	3	1	1	0	5	4	4	1	5	4	1	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	121747767	C	T	121747767	3	4	286	1	0	0	0	0	1	0	0	0	6438	893	31	1	4327	1	GLI2	2	121747767	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	23883400	121747767	121451606	16	14369											
MARS2	92935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	198571443	198571443	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccagggttggtggggccGtcagttcgtgctcaggcaga	6	8	18	9	2	2	1	2	0	0	1	3	2	2	1	2	5	2	4	2	5	0	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	198571443	G	A	198571443	2	1	286	1	0	0	0	0	0	0	0	1	9317	1132	40	1		1	MARS2	2	198571443	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	76823676	198571443	44627930	17	14370											
SMARCAL1	50485	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	217280065	217280065	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccattctagctcagagaGtgtaacgcccaggacagaag	13	7	10	11	1	2	2	1	0	1	2	3	4	3	3	2	1	2	2	2	1	3	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	217280065	G	C	217280065	3	2	286	1	0	0	0	0	1	0	0	0	14775	1029	36	4	640	4	SMARCAL1	2	217280065	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	18708622	217280065	25919308	18	14371											
CUL3	8452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225368421	225368421	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagaaacacttttatttGtgagaagtctccttgccaag	12	13	7	9	0	2	2	1	1	1	2	3	3	2	2	2	0	2	0	2	0	4	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	225368421	G	C	225368421	3	2	286	1	0	0	0	0	1	0	0	0	4056	1377	48	4	1013	4	CUL3	2	225368421	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	8088356	225368421	17830952	19	14372											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191507	10191507	+	Frame_Shift_Del	DEL	G	G	-																															gcgatgcctccaggttgtccGgagcctagtcaagcctgaga																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	10191507	G	-	10191507	7	5	286	1	0	1	0	1	0	0	0	0	17161	1116	39	0	510	0	VHL	3	10191507	Frame_Shift_Del	DEL	G	TCGA-BP-4963-01A-01D-1462-08		10191507	187830923	20	14373	190	2									
VHL	7428	hgsc.bcm.edu	37	chr3	10191509	10191509	+	Missense_Mutation	SNP	A	A	T																															gatgcctccaggttgtccggAgcctagtcaagcctgagaat																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	10191509	A	T	10191509	3	4	286	1	0	0	0	0	1	0	0	0	17161	304	11	5	512	5	VHL	3	10191509	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08	2	10191509	187830921	21	14374	190	2									
SLC35A5	55032	hgsc.bcm.edu;ucsc.edu	37	chr3	112299395	112299396	+	Frame_Shift_Ins	INS	-	-	A																															ttttcatctttgaacaggagINSgcgtctaaactggatccagt																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	112299396	-	A	112299395	7	5	286	1	0	1	1	0	0	0	0	0	14576	1000	35	0	449	0	SLC35A5	3	112299395	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	102107886	112299395	85723035	22	14375											
ZXDC	79364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	126160625	126160625	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgcaccagctggacctGgacgccctgcgccccgcact	6	5	10	20	3	0	0	0	0	0	0	0	2	0	2	6	2	3	3	6	2	0	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	126160625	G	A	126160625	4	1	286	1	0	0	0	0	0	1	0	0	18251	1357	47	2	211	2	ZXDC	3	126160625	Nonsense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	13861230	126160625	71861805	23	14376											
EPHB1	2047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	134967305	134967305	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaccctagataagatgAtccggaacccggcaagtctc	13	7	8	13	2	2	3	1	1	1	2	4	4	3	4	3	2	2	1	3	2	5	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	134967305	A	T	134967305	3	4	286	1	0	0	0	0	1	0	0	0	5174	333	12	5	2698	5	EPHB1	3	134967305	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08	8806680	134967305	63055125	24	14377											
TP63	8626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	189604291	189604291	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttatcaaccctcagcaGcgcaacgccctcactcctac	10	7	5	19	2	3	0	3	0	0	0	4	0	4	0	3	0	6	3	3	0	4	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	189604291	G	A	189604291	2	1	286	1	0	0	0	0	0	0	0	1	16391	962	34	2		2	TP63	3	189604291	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	54636986	189604291	8418139	25	14378											
SPZ1	84654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79616823	79616823	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagtaaacaacatactgaGctcagtaaactgataaaatc	18	9	7	7	0	1	2	1	2	0	0	2	3	1	3	0	1	5	3	0	1	8	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	79616823	G	A	79616823	2	1	286	1	0	0	0	0	0	0	0	1	15128	962	34	2		2	SPZ1	5	79616823	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08		79616823	101298437	26	14379											
XRCC4	7518	hgsc.bcm.edu;ucsc.edu	37	chr5	82491622	82491623	+	Frame_Shift_Ins	INS	-	-	A																															cttcaacctagagaaagttgINSaaaacccagctgaagtcatt																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	82491623	-	A	82491622	7	5	286	1	0	1	1	0	0	0	0	0	17454	1291	45	0	359	0	XRCC4	5	82491622	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	2874799	82491622	98423638	27	14380											
DDX46	9879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134126242	134126242	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatgggttttgaaccccaGgtaatcattaaatttcttaa	13	14	7	7	0	2	1	1	1	1	0	2	2	2	1	2	2	1	2	2	2	5	6	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	134126242	G	A	134126242	2	1	286	1	0	0	0	0	0	0	0	1	4364	1014	35	2		2	DDX46	5	134126242	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	51634620	134126242	46789018	28	14381											
MBOAT1	154141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	20144501	20144501	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggaagatgtatattcggctGatgtggcatattgtaagata	12	14	12	3	1	0	3	0	1	0	2	1	4	0	4	0	3	0	4	0	3	6	7	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	20144501	G	A	20144501	2	1	286	1	0	0	0	0	0	0	0	1	9356	1280	45	2		2	MBOAT1	6	20144501	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08		20144501	150970566	29	14382											
B3GAT2	135152	broad.mit.edu;ucsc.edu	37	chr6	71571408	71571408	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaggtggtactttggctcGttggctagattaaccttctc	6	15	10	10	1	1	1	0	0	1	1	4	1	2	1	2	4	2	4	2	4	3	6	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	71571408	C	C	71571408	3	2	286	1	0	0	0	0	1	0	0	0	1254	1136	40	4	45	4	B3GAT2	6	71571408	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	51426907	71571408	99543659	30	14383											
RBM16	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	155154022	155154022	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagattttgatgagagagaGcatcgggttctaccggtcta	10	11	14	6	2	2	4	0	2	2	3	3	7	2	4	1	3	2	2	1	3	2	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	155154022	G	T	155154022	3	4	286	1	0	0	0	0	1	0	0	0	13120	962	34	4	3387	4	RBM16	6	155154022	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	83582614	155154022	15961045	31	14384											
HEATR2	54919	broad.mit.edu;ucsc.edu	37	chr7	780466	780466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcgcaggtccggcgggCggtggcctccgtggtgggcg	2	7	20	12	6	1	0	1	0	0	0	3	0	3	0	3	7	1	1	3	7	0	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	780466	T	T	780466	3	4	286	1	0	0	0	0	1	0	0	0	7028	768	27	1	801	1	HEATR2	7	780466	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		780466	158358197	32	14385											
MYL7	58498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	44179950	44179950	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttctccccaaagagcgtgagGaagacggtgaagttgatggg	11	8	15	7	2	1	5	0	3	1	2	2	6	1	6	2	3	1	1	2	3	3	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	44179950	G	C	44179950	3	2	286	1	0	0	0	0	1	0	0	0	10053	1165	41	4	273	4	MYL7	7	44179950	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	43399484	44179950	114958713	33	14386											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82583794	82583794	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaaaatcagcgattcatGggcaattatctcttgaattt	12	14	8	7	1	4	1	3	1	1	0	5	2	4	1	0	2	1	1	0	2	5	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	82583794	G	A	82583794	3	1	286	1	0	0	0	0	1	0	0	0	11583	1348	47	2	9054	2	PCLO	7	82583794	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	38403844	82583794	76554869	34	14387											
DNAJC2	27000	broad.mit.edu;hgsc.bcm.edu	37	chr7	102982243	102982243	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcaagtgttttcagcaTgggaaactcttccaactgca	11	11	10	9	0	3	0	2	0	1	0	4	2	4	2	1	2	4	3	1	2	3	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	102982243	T	C	102982243	3	2	286	1	0	0	0	0	1	0	0	0	4639	1464	51	3	1706	3	DNAJC2	7	102982243	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	20398449	102982243	56156420	35	14388											
PLXNA4	91584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	131895713	131895713	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgactcacagaggtgttctGgcactgtacgctggagctgt	7	10	14	10	2	2	1	1	0	1	1	2	3	2	2	0	3	2	5	0	3	1	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	131895713	G	T	131895713	3	4	286	1	0	0	0	0	1	0	0	0	12122	1357	47	4	3489	4	PLXNA4	7	131895713	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	28913470	131895713	27242950	36	14389											
CNTNAP2	26047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	146829512	146829512	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcactttgcggataatttggGcaatgtggagattgacctca	10	13	11	7	1	2	2	2	1	0	1	2	4	2	3	1	3	1	1	1	3	2	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	146829512	G	A	146829512	3	1	286	1	0	0	0	0	1	0	0	0	3647	1203	42	2	1289	2	CNTNAP2	7	146829512	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	14933799	146829512	12309151	37	14390											
SGK223	157285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	8185726	8185726	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagctaaagtgagattcgtCgtggacgttggtttccgagt	9	13	13	6	4	0	1	0	1	0	1	3	4	1	2	1	2	1	3	1	2	3	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	8185726	C	T	8185726	3	4	286	1	0	0	0	0	1	0	0	0	14212	884	31	1	1650	1	SGK223	8	8185726	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		8185726	138178296	38	14391											
MFHAS1	9258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	8748228	8748228	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggagctgggtggcccGgagcagttcctggctggggg	4	8	20	9	1	0	1	0	1	0	0	1	3	1	3	2	7	2	4	2	7	0	1	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	8748228	G	T	8748228	2	4	286	1	0	0	0	0	0	0	0	1	9521	1115	39	4		4	MFHAS1	8	8748228	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	562502	8748228	137615794	39	14392											
EXTL3	2137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28575522	28575522	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggggttctggcaaggAatttcaggcagcgcttggag	8	9	17	7	1	2	0	1	0	1	0	2	2	2	2	0	6	2	5	0	6	2	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	28575522	A	C	28575522	3	2	286	1	0	0	0	0	1	0	0	0	5327	246	9	5	1948	5	EXTL3	8	28575522	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08	19827294	28575522	117788500	40	14393											
WHSC1L1	54904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38135924	38135924	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttataattaaatgttaacTccatccctgaaacacaggag	15	11	7	8	0	0	1	0	1	0	0	2	2	2	2	2	2	2	2	2	2	6	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	38135924	T	G	38135924	3	3	286	1	0	0	0	0	1	0	0	0	17362	1551	54	5	558	5	WHSC1L1	8	38135924	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	9560402	38135924	108228098	41	14394											
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	61769234	61769234	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatctctttcttcaaagttTatcttgcctaatgtctcaac	9	18	3	11	0	6	0	3	0	4	0	8	0	6	0	1	0	2	1	1	0	4	6	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	61769234	T	C	61769234	2	2	286	1	0	0	0	0	0	0	0	1	3330	1751	61	3		3	CHD7	8	61769234	Silent	SNP	T	TCGA-BP-4963-01A-01D-1462-08	23633310	61769234	84594788	42	14395											
ZNF250	58500	hgsc.bcm.edu;ucsc.edu	37	chr8	146107815	146107816	+	Frame_Shift_Ins	INS	-	-	T																															cttttccacactcattacacINStcatagggcttctcacctgt																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	146107816	-	T	146107815	7	5	286	1	0	1	1	0	0	0	0	0	17794	564	20	0	918	0	ZNF250	8	146107815	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	84338581	146107815	256207	43	14396											
DOCK8	81704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	340260	340260	+	Missense_Mutation	SNP	C	C	A																															ttcctgaaaaccggacacgcCcgcacaaagagattttggaa																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	340260	C	A	340260	3	1	286	1	0	0	0	0	1	0	0	0	4693	623	22	4	1672	4	DOCK8	9	340260	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		340260	140873171	44	14397	191	2									
DOCK8	81704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	340261	340261	+	Missense_Mutation	SNP	C	C	A																															tcctgaaaaccggacacgccCgcacaaagagattttggaat																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	340261	C	A	340261	3	1	286	1	0	0	0	0	1	0	0	0	4693	652	23	4	1673	4	DOCK8	9	340261	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	1	340261	140873170	45	14398	191	2									
PIP4K2A	5305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	22896899	22896899	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacctctcccgcaggttaCggaagaccatcgggcagtat	11	7	10	13	3	1	1	0	0	1	1	3	2	1	2	3	3	2	4	3	3	4	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	22896899	C	T	22896899	3	4	286	1	0	0	0	0	1	0	0	0	11936	536	19	1	956	1	PIP4K2A	10	22896899	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		22896899	112637848	46	14399											
CLRN3	119467	hgsc.bcm.edu;ucsc.edu	37	chr10	129682022	129682023	+	Frame_Shift_Ins	INS	-	-	TGCG																															tgtctggtaagggttgctgaINStgctgttgtagaaggtaaac																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		TGCG	129682023	-	TGCG	129682022	7	5	286	1	0	1	1	0	0	0	0	0	3559	333	12	0	341	0	CLRN3	10	129682022	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	106785123	129682022	5852725	47	14400											
MS4A12	54860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60265040	60265040	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggaacagcagtaatgaaCtttaaagaagaagcaaaggc	18	6	12	5	0	0	3	0	1	0	2	0	4	0	4	0	2	4	3	0	2	8	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	60265040	C	A	60265040	3	1	286	1	0	0	0	0	1	0	0	0	9856	564	20	4	251	4	MS4A12	11	60265040	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		60265040	74741476	48	14401											
PRPF19	27339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60658695	60658695	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaagcgatgaacttggcGtgatgcccgaaggccacccc	9	7	13	12	3	0	3	0	3	0	0	0	5	0	3	4	2	3	1	4	2	3	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	60658695	G	A	60658695	2	1	286	1	0	0	0	0	0	0	0	1	12566	1136	40	1		1	PRPF19	11	60658695	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	393655	60658695	74347821	49	14402											
PAK1	5058	hgsc.bcm.edu	37	chr11	77103527	77103528	+	Frame_Shift_Ins	INS	-	-	G																															tatttctcatcggaggggctINSgggggtttgtcttgaatgtc																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	77103528	-	G	77103527	7	5	286	1	0	1	1	0	0	0	0	0	11399	1567	55	0	1707	0	PAK1	11	77103527	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	16444832	77103527	57902989	50	14403											
OR8G5	219865	hgsc.bcm.edu	37	chr11	124134972	124134973	+	Frame_Shift_Ins	INS	-	-	T																															cctgggcatgatcacactgaINSttgggctcagttctcacctg																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	124134973	-	T	124134972	7	5	286	1	0	1	1	0	0	0	0	0	11236	333	12	0	252	0	OR8G5	11	124134972	Frame_Shift_Ins	INS	-	TCGA-BP-4963-01A-01D-1462-08	47031445	124134972	10871544	51	14404											
LPCAT3	10162	hgsc.bcm.edu;ucsc.edu	37	chr12	7090193	7090193	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatctttcctggtatgtcaAtcagctctccctgcaccagc	7	13	7	14	0	4	0	2	0	2	0	6	0	5	0	3	1	3	4	3	1	3	3	rs1984564	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes;alternate_allele	TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	7090193	A	C	7090193	3	2	286	1	0	0	0	0	1	0	0	0	8912	101	4	5	841	5	LPCAT3	12	7090193	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08		7090193	126761702	52	14405											
CLSTN3	9746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7301668	7301668	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgagtggcactgctCattttgcccgcccagctgtg	4	12	11	14	1	1	1	1	1	0	0	2	1	2	1	3	1	4	4	3	1	0	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	7301668	C	A	7301668	3	1	286	1	0	0	0	0	1	0	0	0	3563	826	29	4	1998	4	CLSTN3	12	7301668	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	211475	7301668	126550227	53	14406											
STYK1	55359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10772767	10772767	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcatgctatagttgtagaaGaggctctccactctgatgcc	10	11	10	10	0	2	3	0	1	2	2	3	3	2	3	2	1	3	5	2	1	4	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	10772767	G	C	10772767	2	2	286	1	0	0	0	0	0	0	0	1	15360	929	33	4		4	STYK1	12	10772767	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	3471099	10772767	123079128	54	14407											
ALG10	84920	broad.mit.edu;hgsc.bcm.edu	37	chr12	34178892	34178892	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctttattatacagaagcagGatctatgttttttactcttt	10	19	5	7	0	2	1	0	0	2	1	2	2	2	2	1	1	3	2	1	1	6	9	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	34178892	G	A	34178892	3	1	286	1	0	0	0	0	1	0	0	0	511	1174	41	2	474	2	ALG10	12	34178892	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	23406125	34178892	99673003	55	14408											
FBXW8	26259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117448166	117448166	+	Silent	SNP	G	G	A																															gaagcaggacgccgcctcttGaagctgggtaacgttctccg																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	117448166	G	A	117448166	2	1	286	1	0	0	0	0	0	0	0	1	5770	1281	45	2		2	FBXW8	12	117448166	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	83269274	117448166	16403729	56	14409	192	2									
FBXW8	26259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117448167	117448167	+	Missense_Mutation	SNP	A	A	C																															aagcaggacgccgcctcttgAagctgggtaacgttctccgt																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	117448167	A	C	117448167	3	2	286	1	0	0	0	0	1	0	0	0	5770	247	9	5	1309	5	FBXW8	12	117448167	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08	1	117448167	16403728	57	14410	192	2									
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32911477	32911477	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacatgaacaaatgggcaggActcttaggtccaatttcaaa	15	10	8	8	0	2	1	1	1	1	0	3	2	3	2	1	3	2	1	1	3	6	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	32911477	A	T	32911477	2	4	286	1	0	0	0	0	0	0	0	1	1499	262	10	5		5	BRCA2	13	32911477	Silent	SNP	A	TCGA-BP-4963-01A-01D-1462-08		32911477	82258401	58	14411											
ATP7B	540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	52539139	52539139	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtttggactctatgttgtGgacacaggacgcgcaggtca	9	10	14	8	2	2	0	1	0	1	0	2	4	2	3	0	4	0	3	0	4	1	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	52539139	G	T	52539139	3	4	286	1	0	0	0	0	1	0	0	0	1191	1348	47	4	2727	4	ATP7B	13	52539139	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	19627662	52539139	62630739	59	14412											
EDDM3B	64184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21238699	21238699	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattccattgtagcatggaCgggtatgttgatagcataga	12	12	12	5	1	0	2	0	1	0	1	1	4	1	3	1	2	2	5	1	2	5	7	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	21238699	C	T	21238699	2	4	286	1	0	0	0	0	0	0	0	1	4910	535	19	1		1	EDDM3B	14	21238699	Silent	SNP	C	TCGA-BP-4963-01A-01D-1462-08		21238699	86110841	60	14413											
NUMB	8650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	73746101	73746101	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtatgggctggcttagcAagcacatggaaggctgagtc	10	8	15	8	0	0	1	0	1	0	0	1	2	0	2	0	4	2	7	0	4	4	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	73746101	A	G	73746101	2	3	286	1	0	0	0	0	0	0	0	1	10751	117	5	3		3	NUMB	14	73746101	Silent	SNP	A	TCGA-BP-4963-01A-01D-1462-08	52507402	73746101	33603439	61	14414											
GPR65	8477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	88477438	88477438	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagacaactggactttcTctcctgccttgtgcaaaggg	11	11	9	10	0	1	1	0	0	1	1	3	2	2	2	2	2	3	1	2	2	4	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	88477438	T	G	88477438	3	3	286	1	0	0	0	0	1	0	0	0	6706	1551	54	5	249	5	GPR65	14	88477438	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	14731337	88477438	18872102	62	14415											
DUOX1	53905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45454451	45454451	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatttggagagggccaccAggagtggcataagtttgagg	11	8	15	7	0	0	2	0	1	0	1	0	4	0	3	3	5	0	2	3	5	1	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	45454451	A	T	45454451	3	4	286	1	0	0	0	0	1	0	0	0	4800	188	7	5	4242	5	DUOX1	15	45454451	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08		45454451	57076941	63	14416											
FBN1	2200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48779393	48779393	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcactcagctcacattcattGatgtctgtcgggaaaataag	12	11	9	9	1	4	1	3	1	1	0	5	2	4	2	0	1	1	2	0	1	3	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	48779393	G	A	48779393	2	1	286	1	0	0	0	0	0	0	0	1	5702	1280	45	2		2	FBN1	15	48779393	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	3324942	48779393	53751999	64	14417											
UNC13C	440279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	54626051	54626051	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtatcaccttttttaggatGaaggtatctcattttatttc	10	19	6	6	0	2	1	2	1	1	0	4	2	2	2	1	2	0	2	1	2	5	8	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	54626051	G	A	54626051	3	1	286	1	0	0	0	0	1	0	0	0	16985	1290	45	2	4635	2	UNC13C	15	54626051	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	5846658	54626051	47905341	65	14418											
LRRK1	79705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	101597210	101597210	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagtgcagttccggcgActgcaggcgctcatgatgga	9	7	16	9	3	1	1	1	1	0	0	2	5	2	3	1	4	2	4	1	4	1	1	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	101597210	A	T	101597210	2	4	286	1	0	0	0	0	0	0	0	1	9032	262	10	5		5	LRRK1	15	101597210	Silent	SNP	A	TCGA-BP-4963-01A-01D-1462-08	46971159	101597210	934182	66	14419											
PIGQ	9091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	633428	633428	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgggggctccccagtGgctctgccctggctgtgggg	1	9	16	15	0	1	0	0	0	1	0	3	0	3	0	4	6	1	3	4	6	0	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	633428	G	T	633428	3	4	286	1	0	0	0	0	1	0	0	0	11896	1348	47	4	2177	4	PIGQ	16	633428	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08		633428	89721325	67	14420											
RTN4RL1	146760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1840903	1840903	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcggggctgaagtggccGggctggaggaggccgatgcg	6	5	22	8	4	0	1	0	1	0	0	0	4	0	3	2	8	1	2	2	8	1	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	1840903	G	T	1840903	2	4	286	1	0	0	0	0	0	0	0	1	13733	1103	39	4		4	RTN4RL1	17	1840903	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08		1840903	79354307	68	14421											
EPN2	22905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	19186717	19186717	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaacgtgtggcccagcaGtgccgggagaacatcttcgc	8	7	13	13	4	1	1	0	0	1	1	3	3	2	1	3	2	4	1	3	2	2	1	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	19186717	G	A	19186717	2	1	286	1	0	0	0	0	0	0	0	1	5186	1020	36	2		2	EPN2	17	19186717	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	17345814	19186717	62008493	69	14422											
NLK	51701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26449740	26449740	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggaattgaagatgttgtgTttttttaagcatgataatgt	11	17	11	2	1	0	3	0	2	0	1	0	4	0	4	0	1	1	3	0	1	4	7	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	26449740	T	C	26449740	2	2	286	1	0	0	0	0	0	0	0	1	10466	1731	60	3		3	NLK	17	26449740	Silent	SNP	T	TCGA-BP-4963-01A-01D-1462-08	7263023	26449740	54745470	70	14423											
ACCN1	0	hgsc.bcm.edu;ucsc.edu	37	chr17	31438954	31438961	+	Frame_Shift_Del	DEL	CAGGTACT	CAGGTACT	-																															cctgtctctccccagatgggCaggtactcatcctgctgaat																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	CAGGTACT	CAGGTACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	31438961	CAGGTACT	-	31438954	7	5	286	1	0	1	0	1	0	0	0	0	128	697	25	0	887	0	ACCN1	17	31438954	Frame_Shift_Del	DEL	CAGGTACT	TCGA-BP-4963-01A-01D-1462-08	4989214	31438954	49756256	71	14424											
KRT36	8689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39643672	39643672	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctcgatgatctccgtCtggcagcactgcagctgctc	6	10	10	15	2	3	1	1	1	2	0	6	2	3	1	1	1	5	6	1	1	0	0	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	39643672	C	A	39643672	3	1	286	1	0	0	0	0	1	0	0	0	8473	912	32	4	497	4	KRT36	17	39643672	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08	8204718	39643672	41551538	72	14425											
GPATCH8	23131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42477630	42477630	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggctcaccaggatctagGccttggagatggtcctttga	7	13	12	9	0	2	2	1	1	1	1	3	4	3	3	3	5	0	1	3	5	1	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	42477630	G	A	42477630	2	1	286	1	0	0	0	0	0	0	0	1	6594	1190	42	2		2	GPATCH8	17	42477630	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	2833958	42477630	38717580	73	14426											
KIAA1267	0	hgsc.bcm.edu;ucsc.edu	37	chr17	44144984	44144984	+	Frame_Shift_Del	DEL	C	C	-																															acagtgactctgaaatatgaCcaataatacgggcaccatgg																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	44144984	C	-	44144984	7	5	286	1	0	1	0	1	0	0	0	0	8219	507	18	0	1778	0	KIAA1267	17	44144984	Frame_Shift_Del	DEL	C	TCGA-BP-4963-01A-01D-1462-08	1667354	44144984	37050226	74	14427											
CCDC47	57003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61841511	61841511	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtcaccatcaaaatttctaGataataactctcccagctgt	14	12	4	11	0	4	1	2	0	2	1	5	1	4	1	2	0	2	1	2	0	5	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	61841511	G	C	61841511	3	2	286	1	0	0	0	0	1	0	0	0	2818	933	33	4	1079	4	CCDC47	17	61841511	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	17696527	61841511	19353699	75	14428											
TNRC6C	57690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76046332	76046332	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttctggaactacagcaagtGaaggaagtagtgatggttct	12	11	12	6	0	2	2	0	2	2	0	2	4	2	4	0	3	3	3	0	3	6	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	76046332	G	A	76046332	3	1	286	1	0	0	0	0	1	0	0	0	16341	1291	45	2	1191	2	TNRC6C	17	76046332	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	14204821	76046332	5148878	76	14429											
ASPSCR1	79058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79954308	79954308	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcaggtttgtcatgaaGtgctacgaccccgtgggcaa	9	9	11	12	2	2	1	2	1	0	0	2	2	2	1	3	2	2	3	3	2	3	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	79954308	G	T	79954308	3	4	286	1	0	0	0	0	1	0	0	0	1059	1020	36	4	545	4	ASPSCR1	17	79954308	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08	3907976	79954308	1240902	77	14430											
C18orf19	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	13681730	13681730	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagactaatagatttgtctTgcaaaggatcaggctcttcc	13	12	8	8	0	3	2	1	0	2	2	4	3	4	3	1	2	1	2	1	2	4	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	13681730	T	C	13681730	3	2	286	1	0	0	0	0	1	0	0	0	1896	1812	63	3	483	3	C18orf19	18	13681730	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08		13681730	64395518	78	14431											
AP3D1	8943	broad.mit.edu	37	chr19	2115366	2115366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttctccagcttctgcCggtgccgccgctcctcctcc	1	12	8	20	3	2	0	0	0	2	0	7	0	6	0	8	1	3	2	8	1	0	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	2115366	T	T	2115366	3	4	286	1	0	0	0	0	1	0	0	0	746	652	23	1	1462	1	AP3D1	19	2115366	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		2115366	57013617	79	14432											
SLC39A3	29985	hgsc.bcm.edu;ucsc.edu	37	chr19	2737131	2737131	+	Frame_Shift_Del	DEL	T	T	-																															tgttgcagagagagaggatcTttttcgagcgatgggccttc																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	2737131	T	-	2737131	7	5	286	1	0	1	0	1	0	0	0	0	14621	1609	56	0	935	0	SLC39A3	19	2737131	Frame_Shift_Del	DEL	T	TCGA-BP-4963-01A-01D-1462-08	621765	2737131	56391852	80	14433											
VAV1	7409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6853050	6853050	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaccaccttgcagttcccCttcaaggagcctgaaaagag	12	7	9	13	0	1	2	1	1	0	1	2	4	2	3	5	1	2	2	5	1	3	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	6853050	C	T	6853050	2	4	286	1	0	0	0	0	0	0	0	1	17130	668	24	2		2	VAV1	19	6853050	Silent	SNP	C	TCGA-BP-4963-01A-01D-1462-08	4115919	6853050	52275933	81	14434											
SMARCA4	6597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11129632	11129632	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcatttccttgttccatcaGaacgctgtccaactgggcgt	7	13	8	13	2	2	1	2	0	0	1	5	1	5	1	3	1	2	2	3	1	2	3	rs113895708	alternate_allele	TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	11129632	G	A	11129632	5	1	286	1	0	0	0	0	0	0	1	0	14772	956	33	2	2500	2	SMARCA4	19	11129632	Splice_Site	SNP	G	TCGA-BP-4963-01A-01D-1462-08	4276582	11129632	47999351	82	14435											
EMR3	84658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14740973	14740973	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaagcccagacaccatgTgcagcccaggatgaagagct	13	5	11	12	0	0	3	0	1	0	2	0	4	0	4	3	1	5	3	3	1	3	1	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	14740973	T	A	14740973	3	1	286	1	0	0	0	0	1	0	0	0	5106	1696	59	5	280	5	EMR3	19	14740973	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	3611341	14740973	44388010	83	14436											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39026031	39026031	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcactgatgcaaacatgcAggtaggttcgagtggacctc	11	8	13	9	1	0	1	0	1	0	0	2	3	0	2	1	4	3	5	1	4	2	2	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		G	39026031	A	G	39026031	3	3	286	1	0	0	0	0	1	0	0	0	13770	202	7	3	11837	3	RYR1	19	39026031	Missense_Mutation	SNP	A	TCGA-BP-4963-01A-01D-1462-08	24285058	39026031	20102952	84	14437											
DONSON	29980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34956957	34956957	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaaggacttgtctttccagCcatttttctatcagctccaa	9	14	5	13	0	3	0	1	0	2	0	5	1	5	1	4	1	2	1	4	1	3	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	34956957	C	T	34956957	3	4	286	1	0	0	0	0	1	0	0	0	4706	739	26	2	1004	2	DONSON	21	34956957	Missense_Mutation	SNP	C	TCGA-BP-4963-01A-01D-1462-08		34956957	13172938	85	14438											
SIM2	6493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38084845	38084845	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttacagactttggatggaTttgtttttgtggtagcatct	7	20	10	4	0	1	1	0	0	1	1	1	3	1	3	0	3	2	3	0	3	2	7	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	38084845	T	A	38084845	3	1	286	1	0	0	0	0	1	0	0	0	14326	1493	52	5	281	5	SIM2	21	38084845	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	3127888	38084845	10045050	86	14439											
TRPM2	7226	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	45859019	45859019	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggcaggagcactggccgTcttttgaaaacttgctgaag	9	10	12	10	2	1	2	0	2	1	0	2	3	2	3	2	3	3	3	2	3	3	3	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		A	45859019	T	A	45859019	3	1	286	1	0	0	0	0	1	0	0	0	16585	1667	58	5	4355	5	TRPM2	21	45859019	Missense_Mutation	SNP	T	TCGA-BP-4963-01A-01D-1462-08	7774174	45859019	2270876	87	14440											
MPST	4357	broad.mit.edu	37	chr22	37420445	37420445	+	Frame_Shift_Del	DEL	C	-	-																															gccgctttcttcgacatcgaCcagtgcagcgaccgcacctc																								novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		-	37420445	-	-	37420445	7	5	286	1	0	1	0	1	0	0	0	0	9744	506	18	0	255	0	MPST	22	37420445	Frame_Shift_Del	DEL	C	TCGA-BP-4963-01A-01D-1462-08		37420445	13884121	88	14441											
BHLHB9	80823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	102004677	102004677	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catatattgttctggcctccGctgaagaaaatgcctgttct	9	14	8	10	1	2	2	0	1	2	1	3	2	3	2	3	1	1	3	3	1	5	5	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		T	102004677	G	T	102004677	3	4	286	1	0	0	0	0	1	0	0	0	1420	1087	38	4	756	4	BHLHB9	23	102004677	Missense_Mutation	SNP	G	TCGA-BP-4963-01A-01D-1462-08		102004677	53265883	89	14442											
PLS3	5358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	114880823	114880823	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatgatgggaaccaaaccctGactttagctttagtctggca	12	11	9	9	0	1	2	0	2	1	0	1	3	1	3	2	2	3	2	2	2	5	4	novel		TCGA-BP-4963-01A-01D-1462-08	TCGA-BP-4963-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	154bfa5d-0d9a-40c6-a2a5-bde1054702c3	b04cb512-8edf-466c-af10-9a2fba9bc4a9		C	114880823	G	C	114880823	2	2	286	1	0	0	0	0	0	0	0	1	12108	1277	45	4		4	PLS3	23	114880823	Silent	SNP	G	TCGA-BP-4963-01A-01D-1462-08	12876146	114880823	40389737	90	14443											
TAS1R3	83756	broad.mit.edu;hgsc.bcm.edu	37	chr1	1268364	1268364	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgctgcggttcgacagcAgcggaaacgtggacatggag	9	6	16	10	5	0	0	0	0	0	0	1	4	0	3	1	4	5	3	1	4	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	1268364	A	G	1268364	3	3	287	1	0	0	0	0	1	0	0	0	15563	188	7	3	1353	3	TAS1R3	1	1268364	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08		1268364	247982257	1	14444											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu	37	chr1	19480421	19480421	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaggagaagtcttactGccaccattggaactgcagac	13	7	11	10	0	1	3	0	0	1	3	1	5	1	4	2	2	5	2	2	2	3	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	19480421	G	T	19480421	2	4	287	1	0	0	0	0	0	0	0	1	16903	1306	46	4		4	UBR4	1	19480421	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	18212057	19480421	229770200	2	14445											
OTUD3	23252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20224088	20224088	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacatcgcatatcggtatgGagagcactacgacagtgttc	12	9	10	10	3	0	1	0	0	0	1	3	3	0	1	0	2	2	4	0	2	3	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	20224088	G	T	20224088	3	4	287	1	0	0	0	0	1	0	0	0	11313	1174	41	4	553	4	OTUD3	1	20224088	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	743667	20224088	229026533	3	14446											
PIGV	55650	hgsc.bcm.edu;ucsc.edu	37	chr1	27121228	27121228	+	Frame_Shift_Del	DEL	T	T	-																															tgaatcctctgagacagctcTttaagctgatggcctctctg																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		-	27121228	T	-	27121228	7	5	287	1	0	1	0	1	0	0	0	0	11901	1609	56	0	709	0	PIGV	1	27121228	Frame_Shift_Del	DEL	T	TCGA-BP-4964-01A-01D-1462-08	6897140	27121228	222129393	4	14447											
CLSPN	63967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36230877	36230877	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccactatctgaaggactAtctgcttcctcttgtgaaat	9	15	7	10	0	3	2	0	2	3	0	5	3	5	3	2	1	1	1	2	1	4	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	36230877	A	C	36230877	3	2	287	1	0	0	0	0	1	0	0	0	3560	446	16	5	4040	5	CLSPN	1	36230877	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	9109649	36230877	213019744	5	14448											
NDUFS5	4725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39494463	39494463	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggttgacaatccagagtGgtgaacagccctacaagatg	13	8	12	8	0	0	4	0	2	0	2	1	5	1	4	2	2	3	1	2	2	4	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	39494463	G	T	39494463	3	4	287	1	0	0	0	0	1	0	0	0	10295	1348	47	4	69	4	NDUFS5	1	39494463	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	3263586	39494463	209756158	6	14449											
HECTD3	79654	broad.mit.edu;hgsc.bcm.edu	37	chr1	45476654	45476654	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggagctcaatgctgtcgcgGgcggcgcggaggggcccgga	5	4	20	12	7	1	0	1	0	0	0	2	3	1	3	1	7	2	2	1	7	1	0	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	45476654	G	C	45476654	2	2	287	1	0	0	0	0	0	0	0	1	7041	1219	43	4		4	HECTD3	1	45476654	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	5982191	45476654	203773967	7	14450											
ZNF326	284695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	90475839	90475839	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagataagcctcagcaaaTcacccagtaagtaagaaaac	20	5	7	9	0	2	3	2	0	0	3	2	3	2	3	2	0	3	3	2	0	7	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	90475839	T	G	90475839	3	3	287	1	0	0	0	0	1	0	0	0	17845	1435	50	5	834	5	ZNF326	1	90475839	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	44999185	90475839	158774782	8	14451											
ARHGAP30	257106	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161039395	161039395	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgcgctgcccttcttctttCctttctgccgagacttcatg	3	17	7	14	2	4	1	1	0	3	1	5	2	5	1	3	0	3	1	3	0	0	6	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	161039395	C	T	161039395	3	4	287	1	0	0	0	0	1	0	0	0	879	855	30	2	3333	2	ARHGAP30	1	161039395	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	70563556	161039395	88211226	9	14452											
RALGPS2	55103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	178852665	178852665	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcttccagagaagatttaGtaggtcagtacgtagttttc	10	14	10	7	1	1	2	1	0	0	2	3	3	2	2	1	1	2	5	1	1	5	8	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	178852665	G	T	178852665	3	4	287	1	0	0	0	0	1	0	0	0	13020	1029	36	4	939	4	RALGPS2	1	178852665	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	17813270	178852665	70397956	10	14453											
PTGS2	5743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186645102	186645102	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagcaatatagagttgttGtagataaactgttgatagtt	13	15	9	4	0	0	3	0	1	0	2	1	3	1	3	1	0	2	6	1	0	7	9	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	186645102	G	T	186645102	4	4	287	1	0	0	0	0	0	1	0	0	12758	1372	48	4	641	4	PTGS2	1	186645102	Nonsense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	7792437	186645102	62605519	11	14454											
ASPM	259266	hgsc.bcm.edu;ucsc.edu	37	chr1	197072929	197072929	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgtttgattagctggcGtactttataacctctgtaag	8	18	9	6	1	1	1	0	1	1	0	1	1	1	1	1	1	3	5	1	1	5	9	rs41299625	bycluster;byfrequency;by1000genomes	TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	197072929	G	A	197072929	3	1	287	1	0	0	0	0	1	0	0	0	1056	1145	40	1	5025	1	ASPM	1	197072929	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	10427827	197072929	52177692	12	14455											
ITSN2	50618	broad.mit.edu	37	chr2	24524884	24524884	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcagtggtaatggctgTccagctttggccatgtcagt	9	12	12	8	0	2	0	2	0	0	0	3	0	3	0	2	3	1	3	2	3	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	24524884	G	G	24524884	2	3	287	1	0	0	0	0	0	0	0	1	7927	1654	58	5		5	ITSN2	2	24524884	Silent	SNP	T	TCGA-BP-4964-01A-01D-1462-08		24524884	218674489	13	14456											
SEMA4F	10505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74907017	74907017	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtgggggcgggactggctgGcttcttcttggggattctcg	3	12	18	8	2	3	0	0	0	3	0	4	2	3	2	0	7	0	2	0	7	0	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	74907017	G	T	74907017	3	4	287	1	0	0	0	0	1	0	0	0	14037	1203	42	4	2048	4	SEMA4F	2	74907017	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	50382133	74907017	168292356	14	14457											
SCN1A	6323	hgsc.bcm.edu;ucsc.edu	37	chr2	166848925	166848925	+	Frame_Shift_Del	DEL	A	A	-																															ttttctatcagctcggcaagAaacatacctatgaataaaca																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		-	166848925	A	-	166848925	7	5	287	1	0	1	0	1	0	0	0	0	13916	243	9	0	1173	0	SCN1A	2	166848925	Frame_Shift_Del	DEL	A	TCGA-BP-4964-01A-01D-1462-08	91941908	166848925	76350448	15	14458											
CHN1	1123	broad.mit.edu;hgsc.bcm.edu	37	chr2	175742574	175742574	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagtagcttacccttttCtctgacaccccatcctggcc	7	13	5	16	0	2	1	1	1	1	0	4	1	3	1	5	1	2	2	5	1	3	5	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	175742574	C	A	175742574	3	1	287	1	0	0	0	0	1	0	0	0	3362	912	32	4	868	4	CHN1	2	175742574	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	8893649	175742574	67456799	16	14459											
TTN	7273	broad.mit.edu;hgsc.bcm.edu	37	chr2	179572409	179572409	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctgtctgaaggctttatttCcctgccagccttcaaccact	7	14	6	14	0	3	1	1	1	2	0	4	1	4	1	4	1	3	1	4	1	3	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	179572409	C	G	179572409	3	3	287	1	0	0	0	0	1	0	0	0	16734	864	30	4	75696	4	TTN	2	179572409	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	3829835	179572409	63626964	17	14460											
CPO	130749	broad.mit.edu	37	chr2	207820279	207820279	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgagacccaccccatgtaTtatctgaaggtgagtgagaa	13	10	10	8	0	1	4	0	4	1	2	1	6	1	4	3	1	0	1	3	1	5	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	207820279	A	A	207820279	4	1	287	1	0	0	0	0	0	1	0	0	3820	1500	52	5	268	5	CPO	2	207820279	Nonsense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	28247870	207820279	35379094	18	14461											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238277415	238277415	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactcacaatgcccgaggaaCggatcacctgggcgaacctg	12	5	11	13	3	2	0	2	0	0	0	2	4	2	2	3	3	4	0	3	3	4	0	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	238277415	C	T	238277415	3	4	287	1	0	0	0	0	1	0	0	0	3701	536	19	1	4982	1	COL6A3	2	238277415	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	30457136	238277415	4921958	19	14462											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10183763	10183763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccaggtcatcttctgcAatcgcagtccgcgcgtcgtg	5	10	10	16	5	3	0	1	0	2	0	7	0	5	0	3	1	1	2	3	1	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	10183763	G	G	10183763	3	3	287	1	0	0	0	0	1	0	0	0	17161	130	5	3	234	3	VHL	3	10183763	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08		10183763	187838667	20	14463											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu	37	chr3	52651293	52651293	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctgggagccctcctcAttatagtgcctggcattccg	6	12	9	14	1	1	0	1	0	0	0	3	1	3	1	5	2	3	1	5	2	3	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	52651293	A	C	52651293	3	2	287	1	0	0	0	0	1	0	0	0	11491	214	8	5	3165	5	PBRM1	3	52651293	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	42467530	52651293	145371137	21	14464											
MSL2	55167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	135913893	135913893	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacgccttggggtctccgggGtcgtagttgagcactaggcg	6	9	16	10	4	1	1	0	1	1	0	3	1	1	1	2	5	2	3	2	5	3	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	135913893	G	A	135913893	2	1	287	1	0	0	0	0	0	0	0	1	9878	1252	44	2		2	MSL2	3	135913893	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	83262600	135913893	62108537	22	14465											
MYNN	55892	broad.mit.edu;ucsc.edu	37	chr3	169496987	169496987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcacaaataaatgataattCagaactcgagttgacatcag	17	10	7	7	1	2	3	2	2	0	1	3	4	2	3	0	0	2	2	0	0	5	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	169496987	T	T	169496987	3	4	287	1	0	0	0	0	1	0	0	0	10061	838	29	2	704	2	MYNN	3	169496987	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	33583094	169496987	28525443	23	14466											
SKIL	6498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170078221	170078221	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgaaaaaaatgataacGgacattcatgcaaatggaaa	20	6	8	7	2	1	1	1	1	0	0	1	4	1	3	1	2	3	1	1	2	6	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	170078221	G	A	170078221	2	1	287	1	0	0	0	0	0	0	0	1	14360	1103	39	1		1	SKIL	3	170078221	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	581234	170078221	27944209	24	14467											
CCDC50	152137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	191087771	191087771	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaagagaaagaaacactttCcagagttccctgcaacccgt	16	7	7	11	1	0	3	0	0	0	3	2	4	2	3	3	0	3	2	3	0	5	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	191087771	C	T	191087771	3	4	287	1	0	0	0	0	1	0	0	0	2820	855	30	2	412	2	CCDC50	3	191087771	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	21009550	191087771	6934659	25	14468											
LMLN	89782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	197707203	197707203	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtgggtgcagcaatgcCgggtctaccgtgggggtaag	6	8	17	10	3	1	0	0	0	1	0	2	0	2	0	3	4	4	3	3	4	3	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	197707203	C	T	197707203	3	4	287	1	0	0	0	0	1	0	0	0	8847	643	23	1	578	1	LMLN	3	197707203	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	6619432	197707203	315227	26	14469											
ZNF721	170960	broad.mit.edu;hgsc.bcm.edu	37	chr4	436954	436954	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtatgaattttcttataTtcattcaggtttgtggacaa	11	17	7	6	0	3	1	2	1	1	0	3	2	3	2	1	2	0	2	1	2	5	8	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	436954	T	G	436954	3	3	287	1	0	0	0	0	1	0	0	0	18121	1490	52	5	1473	5	ZNF721	4	436954	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08		436954	190717322	27	14470											
CRIPAK	285464	broad.mit.edu;hgsc.bcm.edu	37	chr4	1389122	1389122	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccgcctgctcacgtgcCgatgtggggtgcccgcctgc	2	8	15	16	4	1	0	1	0	0	0	1	1	1	0	5	2	5	1	5	2	0	0	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	1389122	C	T	1389122	4	4	287	1	0	0	0	0	0	1	0	0	3877	644	23	1	825	1	CRIPAK	4	1389122	Nonsense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	952168	1389122	189765154	28	14471											
MRPL1	65008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	78792972	78792972	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgttcttgttctgtaaacAtccgagtgcccaacagacat	10	14	7	10	1	2	1	0	0	2	1	3	2	3	1	2	0	3	3	2	0	3	5	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	78792972	A	T	78792972	3	4	287	1	0	0	0	0	1	0	0	0	9774	217	8	5	112	5	MRPL1	4	78792972	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	77403850	78792972	112361304	29	14472											
EGF	1950	hgsc.bcm.edu	37	chr4	110865129	110865130	+	Frame_Shift_Ins	INS	-	-	G																															gatgtgcttgataagcggctINSgttttggattcagtacaaca																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	110865130	-	G	110865129	7	5	287	1	0	1	1	0	0	0	0	0	4962	1580	55	0	655	0	EGF	4	110865129	Frame_Shift_Ins	INS	-	TCGA-BP-4964-01A-01D-1462-08	32072157	110865129	80289147	30	14473											
RANBP3L	202151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	36257042	36257042	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtaaaacatgatatacagaCctttaacacattatgttctg	16	13	5	7	0	1	2	0	1	1	1	1	2	1	2	1	0	3	2	1	0	6	7	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	36257042	C	T	36257042	5	4	287	1	0	0	0	0	0	0	1	0	13032	521	18	2	513	2	RANBP3L	5	36257042	Splice_Site	SNP	C	TCGA-BP-4964-01A-01D-1462-08		36257042	144658218	31	14474											
F2RL1	2150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	76128711	76128711	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtgggtttgccaagtaaCggcatggccctgtgggtctt	5	12	16	8	1	1	0	0	0	1	0	1	0	1	0	2	5	2	3	2	5	2	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	76128711	C	T	76128711	2	4	287	1	0	0	0	0	0	0	0	1	5344	535	19	1		1	F2RL1	5	76128711	Silent	SNP	C	TCGA-BP-4964-01A-01D-1462-08	39871669	76128711	104786549	32	14475											
SLC27A6	28965	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	128351731	128351731	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatctttcatgaactacactGggagaattggagcaattggg	12	12	11	6	0	2	2	1	1	1	1	2	4	2	3	0	3	3	1	0	3	5	5	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	128351731	G	T	128351731	3	4	287	1	0	0	0	0	1	0	0	0	14532	1348	47	4	1141	4	SLC27A6	5	128351731	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	52223020	128351731	52563529	33	14476											
KIAA0319	9856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24569057	24569057	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgctcagtccctgctGgtctttcactgtcaaacgga	6	12	10	13	2	4	0	3	0	1	0	5	1	5	1	1	2	4	3	1	2	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	24569057	G	T	24569057	3	4	287	1	0	0	0	0	1	0	0	0	8168	1357	47	4	1162	4	KIAA0319	6	24569057	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08		24569057	146546010	34	14477											
ZNF322A	0	broad.mit.edu	37	chr6	26638479	26638479	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagctcttctcacatttgctAcatttataaggtttctcgta	10	17	5	9	1	3	0	1	0	3	0	5	0	3	0	0	1	3	4	0	1	5	8	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	26638479	G	G	26638479	2	3	287	1	0	0	0	0	0	0	0	1	17840	389	14	3		3	ZNF322A	6	26638479	Silent	SNP	A	TCGA-BP-4964-01A-01D-1462-08	2069422	26638479	144476588	35	14478											
HUS1	3364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48015247	48015247	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcattttttccacaacaCtcttcatagtcttcaagact	10	18	2	11	0	5	1	3	0	2	1	6	1	6	1	1	0	1	0	1	0	3	8	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	48015247	C	T	48015247	3	4	287	1	0	0	0	0	1	0	0	0	7459	565	20	2	355	2	HUS1	7	48015247	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08		48015247	111123416	36	14479											
ANKIB1	54467	hgsc.bcm.edu;ucsc.edu	37	chr7	91974300	91974310	+	Frame_Shift_Del	DEL	TTGTATGTGCA	TTGTATGTGCA	-																															cttcatctccagtgtgacatTtgtatgtgcagtatctctgt																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	TTGTATGTGCA	TTGTATGTGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		-	91974310	TTGTATGTGCA	-	91974300	7	5	287	1	0	1	0	1	0	0	0	0	630	1829	64	0	1027	0	ANKIB1	7	91974300	Frame_Shift_Del	DEL	TTGTATGTGCA	TCGA-BP-4964-01A-01D-1462-08	43959053	91974300	67164363	37	14480											
C7orf51	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100085830	100085830	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccggaaggttcctccgcaGaagcccaggcgaagccctaa	11	4	12	14	3	0	1	0	0	0	1	2	3	2	2	5	3	3	2	5	3	4	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	100085830	G	A	100085830	2	1	287	1	0	0	0	0	0	0	0	1	2400	933	33	2		2	C7orf51	7	100085830	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	8111530	100085830	59052833	38	14481											
AGFG2	3268	broad.mit.edu	37	chr7	100137100	100137101	+	Frame_Shift_Ins	INS	-	C	C																															ggctgcagccaggccgggaaINSccgccactgcttcgagtgcg																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	100137101	C	C	100137100	7	5	287	1	0	1	1	0	0	0	0	0	381	43	2	0	133	0	AGFG2	7	100137100	Frame_Shift_Ins	INS	-	TCGA-BP-4964-01A-01D-1462-08	51270	100137100	59001563	39	14482											
PLXNA4	91584	broad.mit.edu	37	chr7	132193205	132193205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccggccctgtctcatgcGtcaccaagaccttcaggtcg	6	9	10	16	4	3	1	3	0	1	1	6	1	4	1	4	2	1	0	4	2	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	132193205	A	A	132193205	3	1	287	1	0	0	0	0	1	0	0	0	12122	1145	40	1	5874	1	PLXNA4	7	132193205	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	32056105	132193205	26945458	40	14483											
TMEM140	55281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134849219	134849219	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccaaggcctcggtggcGcgaccagctgctgttcatga	6	7	14	14	4	1	1	1	1	0	0	2	2	1	1	3	4	2	3	3	4	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	134849219	G	A	134849219	3	1	287	1	0	0	0	0	1	0	0	0	16054	1087	38	1	28	1	TMEM140	7	134849219	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	2656014	134849219	24289444	41	14484											
TMEM213	155006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138487680	138487680	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagcagcccggtgctgcCgcacaggagtggacgagtac	10	4	14	13	3	0	0	0	0	0	0	0	3	0	2	2	3	5	4	2	3	2	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	138487680	C	T	138487680	3	4	287	1	0	0	0	0	1	0	0	0	16135	652	23	1	200	1	TMEM213	7	138487680	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	3638461	138487680	20650983	42	14485											
LOXL2	4017	broad.mit.edu;hgsc.bcm.edu	37	chr8	23167334	23167334	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgagaggcagttctccTccatggcacactgcagcatg	9	7	12	13	1	1	1	0	0	1	1	3	2	2	1	3	3	2	5	3	3	0	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	23167334	T	G	23167334	3	3	287	1	0	0	0	0	1	0	0	0	8900	1551	54	5	617	5	LOXL2	8	23167334	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08		23167334	123196688	43	14486											
DOCK5	80005	broad.mit.edu	37	chr8	25158135	25158135	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagtaacgggatgcccaagGaaatagagaagctcaataac	17	5	11	8	1	1	1	1	0	0	1	1	4	1	3	1	2	4	3	1	2	7	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	25158135	T	T	25158135	4	4	287	1	0	0	0	0	0	1	0	0	4690	1175	41	4	842	4	DOCK5	8	25158135	Nonsense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	1990801	25158135	121205887	44	14487											
EPHX2	2053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27362496	27362496	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactactgccatcctcaccAacacctggctggacgaccgt	9	8	7	17	2	2	0	2	0	0	0	3	2	3	1	5	2	3	1	5	2	2	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	27362496	A	T	27362496	3	4	287	1	0	0	0	0	1	0	0	0	5180	130	5	5	384	5	EPHX2	8	27362496	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	2204361	27362496	119001526	45	14488											
ZNF572	137209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125989480	125989480	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatcagagaatacatacaGgagaaaagccttatcaatgt	19	8	7	7	0	2	2	2	0	0	2	2	4	2	2	1	1	4	0	1	1	8	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	125989480	G	A	125989480	3	1	287	1	0	0	0	0	1	0	0	0	18003	1001	35	2	976	2	ZNF572	8	125989480	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	98626984	125989480	20374542	46	14489											
EIF2C2	27161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141549418	141549418	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggagtcatgcagaaactcaCccgctcgttcttgtcagtgc	8	11	10	12	2	4	1	3	0	1	1	5	2	4	2	1	1	3	3	1	1	1	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	141549418	C	T	141549418	5	4	287	1	0	0	0	0	0	0	1	0	5006	521	18	2	425	2	EIF2C2	8	141549418	Splice_Site	SNP	C	TCGA-BP-4964-01A-01D-1462-08	15559938	141549418	4814604	47	14490											
EIF2C2	27161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141566069	141566069	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctcatctttgaccatgaTtccaaattcacggacgtatg	11	13	6	11	2	3	2	2	2	2	0	5	3	4	3	2	1	0	1	2	1	2	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	141566069	T	C	141566069	3	2	287	1	0	0	0	0	1	0	0	0	5006	1493	52	3	1424	3	EIF2C2	8	141566069	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	16651	141566069	4797953	48	14491											
FAM120A	23196	broad.mit.edu;hgsc.bcm.edu	37	chr9	96214409	96214409	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtcagcggcggccagtGgaaccacatgcttggctacc	7	7	14	13	2	1	0	1	0	0	0	1	1	1	1	3	5	4	2	3	5	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	96214409	G	T	96214409	3	4	287	1	0	0	0	0	1	0	0	0	5415	1357	47	4	214	4	FAM120A	9	96214409	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08		96214409	44999022	49	14492											
CORO2A	7464	hgsc.bcm.edu	37	chr9	100919886	100919887	+	Frame_Shift_Ins	INS	-	-	G																															agcagttctccttgctggctINSggtttgccaaagacatgacg																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	100919887	-	G	100919886	7	5	287	1	0	1	1	0	0	0	0	0	3756	1567	55	0	1564	0	CORO2A	9	100919886	Frame_Shift_Ins	INS	-	TCGA-BP-4964-01A-01D-1462-08	4705477	100919886	40293545	50	14493											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113168633	113168633	+	Frame_Shift_Del	DEL	C	C	-																															gctgtaagttatcacattttCcttccaagagctggtctcac																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		-	113168633	C	-	113168633	7	5	287	1	0	1	0	1	0	0	0	0	15419	864	30	0	1512	0	SVEP1	9	113168633	Frame_Shift_Del	DEL	C	TCGA-BP-4964-01A-01D-1462-08	12248747	113168633	28044798	51	14494											
ZNF79	7633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130207059	130207059	+	Silent	SNP	C	C	T																															attcacaccggggagaagccCtacagatgtgccgcgtgtgg																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	130207059	C	T	130207059	2	4	287	1	0	0	0	0	0	0	0	1	18160	668	24	2		2	ZNF79	9	130207059	Silent	SNP	C	TCGA-BP-4964-01A-01D-1462-08	17038426	130207059	11006372	52	14495	193	2									
ZNF79	7633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130207060	130207060	+	Missense_Mutation	SNP	T	T	C																															ttcacaccggggagaagcccTacagatgtgccgcgtgtggg																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	130207060	T	C	130207060	3	2	287	1	0	0	0	0	1	0	0	0	18160	1522	53	3	1099	3	ZNF79	9	130207060	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	1	130207060	11006371	53	14496	193	2									
FRMD4A	55691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	13702514	13702514	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggagtcccttgtgaggaGaatgtaggggggatattgtg	9	10	19	3	0	0	2	0	1	0	1	1	6	1	4	1	5	0	1	1	5	3	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	13702514	G	A	13702514	3	1	287	1	0	0	0	0	1	0	0	0	6051	942	33	2	1439	2	FRMD4A	10	13702514	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08		13702514	121832233	54	14497											
PARVA	55742	broad.mit.edu;hgsc.bcm.edu	37	chr11	12518075	12518075	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgctcagaagcaaaaactGcagactgtcctggagaagat	15	8	10	8	0	1	4	1	0	0	4	2	5	2	4	1	1	4	3	1	1	4	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	12518075	G	T	12518075	2	4	287	1	0	0	0	0	0	0	0	1	11468	1306	46	4		4	PARVA	11	12518075	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08		12518075	122488441	55	14498											
INCENP	3619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61897891	61897891	+	Missense_Mutation	SNP	A	A	T																															ccacgcccacgggctctcgcAcggactctcaatcggtgcgg																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	61897891	A	T	61897891	3	4	287	1	0	0	0	0	1	0	0	0	7733	159	6	5	902	5	INCENP	11	61897891	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	49379816	61897891	73108625	56	14499	194	2									
INCENP	3619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61897892	61897892	+	Missense_Mutation	SNP	C	C	T																															cacgcccacgggctctcgcaCggactctcaatcggtgcggc																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	61897892	C	T	61897892	3	4	287	1	0	0	0	0	1	0	0	0	7733	536	19	1	903	1	INCENP	11	61897892	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	1	61897892	73108624	57	14500	194	2									
ME3	10873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	86159278	86159278	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaaacatctccttttcaTggttcaggtggctcctcccc	6	12	9	14	0	3	0	2	0	1	0	6	0	5	0	4	4	1	3	4	4	1	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	86159278	T	C	86159278	3	2	287	1	0	0	0	0	1	0	0	0	9419	1464	51	3	683	3	ME3	11	86159278	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	24261386	86159278	48847238	58	14501											
GRM5	2915	broad.mit.edu;hgsc.bcm.edu	37	chr11	88780709	88780709	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggaatctcttatgaacTcaatgctctgctctagggcc	9	12	10	10	0	4	2	1	2	3	0	5	3	4	3	1	2	3	2	1	2	5	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	88780709	T	G	88780709	3	3	287	1	0	0	0	0	1	0	0	0	6800	1551	54	5	3342	5	GRM5	11	88780709	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	2621431	88780709	46225807	59	14502											
AMOTL1	154810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94554897	94554897	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgcgattgtggagcgagcCcagcaaatggtggagatatt	10	11	14	6	2	0	1	0	0	0	1	0	5	0	2	1	3	4	1	1	3	2	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	94554897	C	G	94554897	2	3	287	1	0	0	0	0	0	0	0	1	583	610	22	4		4	AMOTL1	11	94554897	Silent	SNP	C	TCGA-BP-4964-01A-01D-1462-08	5774188	94554897	40451619	60	14503											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108236074	108236074	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattgaccagagtttcaacAaagtagctgaacgtgtctta	14	12	8	7	1	2	3	1	2	1	1	2	3	2	3	1	0	3	3	1	0	6	5	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	108236074	A	G	108236074	3	3	287	1	0	0	0	0	1	0	0	0	1109	131	5	3	9256	3	ATM	11	108236074	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	13681177	108236074	26770442	61	14504											
WNT5B	81029	broad.mit.edu	37	chr12	1748873	1748873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagagaccgccttcaccCacgcggtgagcgccgcgggc	6	3	15	17	7	1	2	1	1	0	1	1	4	1	2	5	2	1	0	5	2	0	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	1748873	T	T	1748873	3	4	287	1	0	0	0	0	1	0	0	0	17391	594	21	2	362	2	WNT5B	12	1748873	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08		1748873	132103022	62	14505											
MRPL51	51258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6602132	6602132	+	Missense_Mutation	SNP	G	G	C																															gccttataccgatcaatctaGgcacacctggggatggggaa																								rs11559083	bycluster;alternate_allele	TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	6602132	G	C	6602132	3	2	287	1	0	0	0	0	1	0	0	0	9815	1000	35	4	308	4	MRPL51	12	6602132	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	4853259	6602132	127249763	63	14506	195	2									
MRPL51	51258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6602137	6602137	+	Silent	SNP	A	A	C																															ataccgatcaatctaggcacAcctggggatggggaagggag																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	6602137	A	C	6602137	2	2	287	1	0	0	0	0	0	0	0	1	9815	173	6	5		5	MRPL51	12	6602137	Silent	SNP	A	TCGA-BP-4964-01A-01D-1462-08	5	6602137	127249758	64	14507	195	2									
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49443747	49443747	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaccctggctcagattagaGatctcgttaacgatgtcgga	10	11	10	10	3	3	2	2	0	1	2	5	5	3	3	1	2	1	2	1	2	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	49443747	G	A	49443747	2	1	287	1	0	0	0	0	0	0	0	1	9621	932	33	2		2	MLL2	12	49443747	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	42841610	49443747	84408148	65	14508											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu	37	chr12	57588284	57588284	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgatgagcgcgactgccCaggtgggcgggggcaggtgt	6	6	20	9	3	0	2	0	2	0	0	0	3	0	2	1	5	2	1	1	5	0	0	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	57588284	C	A	57588284	3	1	287	1	0	0	0	0	1	0	0	0	8951	594	21	4	8260	4	LRP1	12	57588284	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	8144537	57588284	76263611	66	14509											
AVIL	10677	broad.mit.edu	37	chr12	58204236	58204236	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtcctgaaggaccttcatCagctctgggctggctgcctc	5	11	12	13	0	3	1	2	1	1	0	5	2	4	2	3	3	2	3	3	3	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	58204236	T	T	58204236	2	4	287	1	0	0	0	0	0	0	0	1	1227	813	29	2		2	AVIL	12	58204236	Silent	SNP	C	TCGA-BP-4964-01A-01D-1462-08	615952	58204236	75647659	67	14510											
BEST3	144453	hgsc.bcm.edu	37	chr12	70088220	70088220	+	Frame_Shift_Del	DEL	T	T	-																															gataatttttcaaagtaacgTttttggactcctgtaagtaa																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		-	70088220	T	-	70088220	7	5	287	1	0	1	0	1	0	0	0	0	1406	1722	60	0	1861	0	BEST3	12	70088220	Frame_Shift_Del	DEL	T	TCGA-BP-4964-01A-01D-1462-08	11883984	70088220	63763675	68	14511											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117710301	117710301	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tccaggccgccaatctctagGagcatgttggacacggcggg	8	7	14	12	3	1	0	0	0	1	0	3	2	2	2	3	5	1	2	3	5	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	117710301	G	C	117710301	2	2	287	1	0	0	0	0	0	0	0	1	10541	1161	41	4		4	NOS1	12	117710301	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08	47622081	117710301	16141594	69	14512											
TSSK4	283629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24675911	24675911	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcattgcctacctgcacaGcaagagcatcgtgcaccggt	9	7	12	13	2	0	1	0	0	0	1	1	1	0	1	3	2	6	5	3	2	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	24675911	G	T	24675911	3	4	287	1	0	0	0	0	1	0	0	0	16670	971	34	4	428	4	TSSK4	14	24675911	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08		24675911	82673629	70	14513											
PSMA3	5684	hgsc.bcm.edu	37	chr14	58724704	58724705	+	Frame_Shift_Ins	INS	-	-	T																															ctctacagtgctgttagaccINSttttggctgcaggtaagaaa																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	58724705	-	T	58724704	7	5	287	1	0	1	1	0	0	0	0	0	12670	681	24	0	410	0	PSMA3	14	58724704	Frame_Shift_Ins	INS	-	TCGA-BP-4964-01A-01D-1462-08	34048793	58724704	48624836	71	14514											
PLEKHH1	57475	broad.mit.edu;hgsc.bcm.edu	37	chr14	68038960	68038960	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaaactgcagcgcacctCatcctactccaccgacgggc	10	5	8	18	3	1	0	1	0	0	0	3	1	3	0	4	1	4	3	4	1	2	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	68038960	C	A	68038960	4	1	287	1	0	0	0	0	0	1	0	0	12076	838	29	4	1732	4	PLEKHH1	14	68038960	Nonsense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	9314256	68038960	39310580	72	14515											
KIAA1409	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94088745	94088745	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctggaagaccctatggaCgccgaaggatcctcaaagcc	12	6	10	13	2	2	1	1	0	1	1	3	5	3	4	4	3	1	0	4	3	4	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	94088745	C	T	94088745	2	4	287	1	0	0	0	0	0	0	0	1	8230	535	19	1		1	KIAA1409	14	94088745	Silent	SNP	C	TCGA-BP-4964-01A-01D-1462-08	26049785	94088745	13260795	73	14516											
C15orf41	84529	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	36984363	36984363	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgttacggaccactagtgGactgcatcaagcagtatcct	10	10	10	11	1	1	0	1	0	0	0	2	2	2	2	2	2	3	5	2	2	4	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	36984363	G	T	36984363	3	4	287	1	0	0	0	0	1	0	0	0	1795	1174	41	4	489	4	C15orf41	15	36984363	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08		36984363	65547029	74	14517											
DENND4A	10260	broad.mit.edu;hgsc.bcm.edu	37	chr15	65957783	65957783	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatatttgctatcttcagaCatacagtggcggggaatctg	11	12	10	8	1	3	1	1	0	2	1	3	2	3	2	0	3	2	1	0	3	4	5	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	65957783	C	T	65957783	3	4	287	1	0	0	0	0	1	0	0	0	4433	478	17	2	480	2	DENND4A	15	65957783	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	28973420	65957783	36573609	75	14518											
BRD7	29117	broad.mit.edu;hgsc.bcm.edu	37	chr16	50402667	50402667	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtttgtccgacttgtgctTcttgtgcttcttgcccatgt	2	19	10	10	1	2	0	0	0	2	0	3	1	3	0	2	0	3	3	2	0	0	6	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	50402667	T	C	50402667	3	2	287	1	0	0	0	0	1	0	0	0	1505	1792	62	3	2007	3	BRD7	16	50402667	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08		50402667	39952086	76	14519											
SLC9A5	6553	broad.mit.edu;hgsc.bcm.edu	37	chr16	67290903	67290903	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgtcctatgggggcctgCggggggctgtggcctttgct	2	12	18	9	1	0	1	0	1	0	0	1	1	1	1	3	6	2	2	3	6	1	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	67290903	C	T	67290903	3	4	287	1	0	0	0	0	1	0	0	0	14719	759	27	1	1248	1	SLC9A5	16	67290903	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	16888236	67290903	23063850	77	14520											
CNTNAP4	85445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	76481968	76481968	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagatttgatcaaaaaTccctgagcccaataaaagac	17	9	5	10	0	2	4	1	2	1	2	3	4	3	4	2	0	2	0	2	0	6	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	76481968	T	C	76481968	3	2	287	1	0	0	0	0	1	0	0	0	3649	1435	50	3	629	3	CNTNAP4	16	76481968	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	9191065	76481968	13872785	78	14521											
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3921211	3921211	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agactcttactgggctgccaCcgctgagccagggaccgtat	8	8	12	13	2	1	2	0	1	1	1	1	3	1	3	4	2	3	3	4	2	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	3921211	C	T	3921211	2	4	287	1	0	0	0	0	0	0	0	1	18254	494	18	2		2	ZZEF1	17	3921211	Silent	SNP	C	TCGA-BP-4964-01A-01D-1462-08		3921211	77273999	79	14522											
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4005690	4005690	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacatcacatgcctgaagAgtcaactggagaggtttacc	12	10	10	9	0	2	4	2	2	0	2	2	5	2	4	2	2	3	1	2	2	3	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	4005690	A	G	4005690	2	3	287	1	0	0	0	0	0	0	0	1	18254	291	11	3		3	ZZEF1	17	4005690	Silent	SNP	A	TCGA-BP-4964-01A-01D-1462-08	84479	4005690	77189520	80	14523											
UTP6	55813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30213014	30213014	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctacctttaattatgcttaCagaatttttgtagatgatcc	11	17	5	8	0	0	3	0	1	0	2	1	3	1	3	3	0	3	2	3	0	6	8	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	30213014	C	G	30213014	3	3	287	1	0	0	0	0	1	0	0	0	17101	478	17	4	1149	4	UTP6	17	30213014	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	26207324	30213014	50982196	81	14524											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9066807	9066807	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcttgtggaaggatgcAtggcttctatagctgtggtg	6	14	15	6	0	1	0	0	0	1	0	1	2	1	2	0	4	3	4	0	4	3	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	9066807	A	T	9066807	3	4	287	1	0	0	0	0	1	0	0	0	9973	217	8	5	23212	5	MUC16	19	9066807	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08		9066807	50062176	82	14525											
SMARCA4	6597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11144146	11144146	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagtcctccagccatgagCggcgcgccttcctgcaggcc	7	6	12	16	3	0	2	0	1	0	1	3	2	3	2	6	2	3	1	6	2	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	11144146	C	T	11144146	3	4	287	1	0	0	0	0	1	0	0	0	14772	759	27	1	3825	1	SMARCA4	19	11144146	Missense_Mutation	SNP	C	TCGA-BP-4964-01A-01D-1462-08	2077339	11144146	47984837	83	14526											
ZNF878	729747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12155240	12155240	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcttttcatgatagcgaaAggaagtggaagaaataaatc	17	10	10	4	1	2	2	1	1	1	1	3	5	2	4	0	2	1	0	0	2	7	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	12155240	A	T	12155240	3	4	287	1	0	0	0	0	1	0	0	0	18195	72	3	5	623	5	ZNF878	19	12155240	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08	1011094	12155240	46973743	84	14527											
ZNF574	64763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42582777	42582777	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccatgactgaggaatcagagGagacagtcctgtacattgag	13	8	12	8	0	1	5	1	3	0	2	2	7	2	6	2	2	1	1	2	2	2	2	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	42582777	G	C	42582777	3	2	287	1	0	0	0	0	1	0	0	0	18005	1175	41	4	21	4	ZNF574	19	42582777	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	30427537	42582777	16546206	85	14528											
SEMG1	6406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	43837138	43837138	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaagagccatggcatggTgaaaatgcaaaaggagagtc	17	5	13	6	0	0	3	0	1	0	2	1	4	0	3	1	3	3	3	1	3	6	0	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	43837138	T	C	43837138	2	2	287	1	0	0	0	0	0	0	0	1	14046	1683	59	3		3	SEMG1	20	43837138	Silent	SNP	T	TCGA-BP-4964-01A-01D-1462-08		43837138	19188382	86	14529											
KRTAP10-5	386680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	46000020	46000020	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgaagaggaatcctcagAacaggtgggcacacagcaca	15	4	12	10	0	1	3	1	1	0	2	2	4	2	4	1	3	2	3	1	3	3	0	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		G	46000020	A	G	46000020	3	3	287	1	0	0	0	0	1	0	0	0	8512	246	9	3	383	3	KRTAP10-5	21	46000020	Missense_Mutation	SNP	A	TCGA-BP-4964-01A-01D-1462-08		46000020	2129875	87	14530											
PCNT	5116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47841950	47841950	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctgaggctcaaactgctgGtcctgtgacccctgcttcca	6	10	9	16	0	1	2	1	2	0	0	3	2	3	2	5	2	3	3	5	2	1	1	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		C	47841950	G	C	47841950	3	2	287	1	0	0	0	0	1	0	0	0	11590	1261	44	4	7217	4	PCNT	21	47841950	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	1841930	47841950	287945	88	14531											
RIMBP3	85376	hgsc.bcm.edu	37	chr22	20460113	20460115	+	In_Frame_Del	DEL	CCG	CCG	-																															acgccgcagctgcttgttctCcgcttgcagggtataacagc																								rs77846076	alternate_allele	TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		-	20460115	CCG	-	20460113	7	5	287	1	0	1	0	1	0	0	0	0	13366	864	30	0	3734	0	RIMBP3	22	20460113	In_Frame_Del	DEL	CCG	TCGA-BP-4964-01A-01D-1462-08		20460113	30844453	89	14532											
SEC14L2	23541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30805428	30805428	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacagtttctctgcatgtTtgaggaaaattatcccgaaa	12	13	7	9	1	1	1	0	1	1	0	4	3	3	2	2	1	1	3	2	1	4	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	30805428	T	A	30805428	3	1	287	1	0	0	0	0	1	0	0	0	13984	1841	64	5	559	5	SEC14L2	22	30805428	Missense_Mutation	SNP	T	TCGA-BP-4964-01A-01D-1462-08	10345315	30805428	20499138	90	14533											
DCAF8L1	139425	broad.mit.edu;hgsc.bcm.edu	37	chrX	27998267	27998267	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcgtggctgtacacaacGcaggtgatgtttgttgggaa	9	11	13	8	2	0	1	0	1	0	0	1	2	0	2	1	3	2	5	1	3	3	3	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		A	27998267	G	A	27998267	2	1	287	1	0	0	0	0	0	0	0	1	4277	1079	38	1		1	DCAF8L1	23	27998267	Silent	SNP	G	TCGA-BP-4964-01A-01D-1462-08		27998267	127272293	91	14534											
MUM1L1	139221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	105450813	105450813	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagccagggaggattataGtgagagtattgactggtgca	13	9	14	5	0	0	2	0	2	0	1	0	5	0	4	1	3	2	2	1	3	4	4	novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		T	105450813	G	T	105450813	3	4	287	1	0	0	0	0	1	0	0	0	9986	1029	36	4	1390	4	MUM1L1	23	105450813	Missense_Mutation	SNP	G	TCGA-BP-4964-01A-01D-1462-08	77452546	105450813	49819747	92	14535											
DKC1	1736	hgsc.bcm.edu	37	chrX	154005088	154005089	+	In_Frame_Ins	INS	-	-	AAG																															tctaggacagtgataccaccINSaagaagaagaagaagaagaa																								novel		TCGA-BP-4964-01A-01D-1462-08	TCGA-BP-4964-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b838251-67f5-4e22-a291-8a9e206d56db	30a80165-2c9b-4170-9907-275a227b32bf		AAG	154005089	-	AAG	154005088	7	5	287	1	0	1	1	0	0	0	0	0	4542	581	21	0	1549	0	DKC1	23	154005088	In_Frame_Ins	INS	-	TCGA-BP-4964-01A-01D-1462-08	48554275	154005088	1265472	93	14536											
AHDC1	27245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27874262	27874262	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagctgggggaatcgtaGtggggctggcccagcggcag	6	7	19	9	2	0	0	0	0	0	0	1	1	0	1	1	6	3	5	1	6	2	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	27874262	G	A	27874262	2	1	288	1	0	0	0	0	0	0	0	1	412	1020	36	2		2	AHDC1	1	27874262	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08		27874262	221376359	1	14537											
TXLNA	200081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32646917	32646917	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccgccaactggaagacAtactgagcacatactgtgtg	12	8	11	10	1	0	3	0	2	0	1	0	4	0	4	2	1	5	1	2	1	4	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	32646917	A	C	32646917	3	2	288	1	0	0	0	0	1	0	0	0	16786	217	8	5	250	5	TXLNA	1	32646917	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	4772655	32646917	216603704	2	14538											
EIF2C3	192669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36499790	36499790	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catagcggaagtgaaacgtgTaggagacacacttttgggta	13	9	13	6	2	0	2	0	1	0	1	0	4	0	3	0	3	2	2	0	3	5	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	36499790	T	G	36499790	3	3	288	1	0	0	0	0	1	0	0	0	5007	1638	57	5	1657	5	EIF2C3	1	36499790	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	3852873	36499790	212750831	3	14539											
RIMKLA	284716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	42880262	42880262	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcattgatctccttatcatgGacgatggctcctttgtggtg	6	15	11	9	1	2	1	1	1	1	0	4	3	3	2	2	3	0	2	2	3	1	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	42880262	G	C	42880262	3	2	288	1	0	0	0	0	1	0	0	0	13367	1174	41	4	811	4	RIMKLA	1	42880262	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08	6380472	42880262	206370359	4	14540											
BSND	7809	hgsc.bcm.edu;ucsc.edu	37	chr1	55464986	55464986	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctatgccatgggcagcGtcatggtgatcgggggcatc	6	10	14	11	2	2	1	1	1	1	0	4	1	2	1	2	4	2	2	2	4	1	2	rs34561376	bycluster;byfrequency;by1000genomes	TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	55464986	G	A	55464986	3	1	288	1	0	0	0	0	1	0	0	0	1531	1145	40	1	129	1	BSND	1	55464986	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08	12584724	55464986	193785635	5	14541											
RPL5	6125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	93299160	93299160	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacaagataaaaataaataCaacacacccaaatacaggat	24	6	3	8	0	0	1	0	0	0	1	0	2	0	2	1	1	4	0	1	1	11	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	93299160	C	A	93299160	4	1	288	1	0	0	0	0	0	1	0	0	13599	489	17	4	142	4	RPL5	1	93299160	Nonsense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	37834174	93299160	155951461	6	14542											
ITGA10	8515	broad.mit.edu;hgsc.bcm.edu	37	chr1	145534208	145534208	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgtggctgtgggggcGcctctggaagatgggcacca	6	8	18	9	1	1	2	0	1	1	1	1	3	1	3	2	5	0	3	2	5	1	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	145534208	G	A	145534208	2	1	288	1	0	0	0	0	0	0	0	1	7873	1074	38	1		1	ITGA10	1	145534208	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08	52235048	145534208	103716413	7	14543											
IGSF8	93185	broad.mit.edu;hgsc.bcm.edu	37	chr1	160063938	160063938	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctgggggggcagcagAcacctggaggacatctggaa	9	4	18	10	0	1	1	0	0	1	1	1	4	1	4	2	7	1	2	2	7	1	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	160063938	A	G	160063938	3	3	288	1	0	0	0	0	1	0	0	0	7604	275	10	3	1391	3	IGSF8	1	160063938	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	14529730	160063938	89186683	8	14544											
RXRG	6258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	165386398	165386398	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgtagatgaggtccttccTtatcgtcctcttgaagaacc	8	13	9	11	2	1	4	0	2	1	2	5	4	4	4	4	1	1	1	4	1	4	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	165386398	T	C	165386398	3	2	288	1	0	0	0	0	1	0	0	0	13767	1608	56	3	917	3	RXRG	1	165386398	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	5322460	165386398	83864223	9	14545											
RABGAP1L	9910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	174245014	174245014	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagagcttatgtcatcaCtggcatgtggaaccccaatg	10	10	12	9	0	2	1	2	0	0	1	2	3	2	2	2	3	2	2	2	3	3	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	174245014	C	T	174245014	3	4	288	1	0	0	0	0	1	0	0	0	12967	565	20	2	1127	2	RABGAP1L	1	174245014	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	8858616	174245014	75005607	10	14546											
PTPRC	5788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	198687421	198687421	+	Frame_Shift_Del	DEL	A	A	-																															tcttcaatattcaacagactAcacttttaaggtaaaagtat																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	198687421	A	-	198687421	7	5	288	1	0	1	0	1	0	0	0	0	12799	391	14	0	1704	0	PTPRC	1	198687421	Frame_Shift_Del	DEL	A	TCGA-BP-4967-01A-01D-1462-08	24442407	198687421	50563200	11	14547											
CHIT1	1118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203188874	203188874	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcccccactctggtgTctgatgaggaggccagtgtg	5	9	16	11	0	2	2	0	2	2	0	2	3	2	3	3	5	0	0	3	5	0	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	203188874	T	A	203188874	3	1	288	1	0	0	0	0	1	0	0	0	3346	1667	58	5	583	5	CHIT1	1	203188874	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	4501453	203188874	46061747	12	14548											
KCNK2	3776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	215408257	215408257	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaggcgactgagtgtggaGatttatgacaagttccagcg	11	9	15	6	2	0	3	0	2	0	1	1	6	1	4	1	3	1	1	1	3	2	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	215408257	G	A	215408257	2	1	288	1	0	0	0	0	0	0	0	1	8066	933	33	2		2	KCNK2	1	215408257	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08	12219383	215408257	33842364	13	14549											
SOS1	6654	broad.mit.edu;hgsc.bcm.edu	37	chr2	39222302	39222302	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgatcggaatcaaatacaCtgcaaacatctgtggtactg	15	10	8	8	1	2	1	1	1	1	0	3	2	2	2	0	2	4	2	0	2	6	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	39222302	C	T	39222302	3	4	288	1	0	0	0	0	1	0	0	0	14938	565	20	2	709	2	SOS1	2	39222302	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08		39222302	203977071	14	14550											
TMEM150A	129303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	85828149	85828149	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccaggccttacctgatGagggggacatcgtccagggt	8	9	14	10	1	0	2	0	2	0	0	3	3	2	3	4	4	1	0	4	4	1	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	85828149	G	T	85828149	2	4	288	1	0	0	0	0	0	0	0	1	16066	1277	45	4		4	TMEM150A	2	85828149	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08	46605847	85828149	157371224	15	14551											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152362014	152362014	+	Frame_Shift_Del	DEL	T	T	-																															agctaatgtgcttctgcgtcTccttcacacgtttcacttca																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	152362014	T	-	152362014	7	5	288	1	0	1	0	1	0	0	0	0	10302	1551	54	0	1929	0	NEB	2	152362014	Frame_Shift_Del	DEL	T	TCGA-BP-4967-01A-01D-1462-08	66533865	152362014	90837359	16	14552											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188263	10188263	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggttaaccaaactgaattaTttgtgccatctctcaatgtt	11	16	6	8	0	2	1	1	1	1	0	3	1	2	1	2	1	3	2	2	1	5	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	10188263	T	G	10188263	3	3	288	1	0	0	0	0	1	0	0	0	17161	1493	52	5	412	5	VHL	3	10188263	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08		10188263	187834167	17	14553											
SLC7A14	57709	broad.mit.edu;hgsc.bcm.edu	37	chr3	170244556	170244556	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgccaagagagatgaggTccactgtggtgagtacctgg	11	7	14	9	1	0	4	0	2	0	2	1	5	1	4	3	3	2	1	3	3	3	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	170244556	T	C	170244556	3	2	288	1	0	0	0	0	1	0	0	0	14698	1667	58	3	2173	3	SLC7A14	3	170244556	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	160056293	170244556	27777874	18	14554											
MAP9	79884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	156281456	156281457	+	Frame_Shift_Ins	INS	-	-	T																															gtcatcagcagtcacttgacINStttccttggatttctcaact																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	156281457	-	T	156281456	7	5	288	1	0	1	1	0	0	0	0	0	9270	565	20	0	1061	0	MAP9	4	156281456	Frame_Shift_Ins	INS	-	TCGA-BP-4967-01A-01D-1462-08		156281456	34872820	19	14555											
WWC2	80014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184175071	184175071	+	Frame_Shift_Del	DEL	A	A	-																															acgtacccaagatgaattagAacgcctagaagctgaaaggc																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	184175071	A	-	184175071	7	5	288	1	0	1	0	1	0	0	0	0	17411	246	9	0	1149	0	WWC2	4	184175071	Frame_Shift_Del	DEL	A	TCGA-BP-4967-01A-01D-1462-08	27893615	184175071	6979205	20	14556											
PAIP1	10605	broad.mit.edu;hgsc.bcm.edu	37	chr5	43543190	43543190	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattacacaggcgagctcccAtataagagaaatttgggata	16	9	9	7	1	0	1	0	0	0	1	1	4	1	2	1	2	2	1	1	2	6	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	43543190	A	T	43543190	3	4	288	1	0	0	0	0	1	0	0	0	11396	217	8	5	821	5	PAIP1	5	43543190	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08		43543190	137372070	21	14557											
ITGA1	3672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	52221264	52221264	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacaaaggacagtgcctatAacaccaggacaatagtgcat	17	7	8	9	0	0	0	0	0	0	0	0	2	0	2	2	2	4	1	2	2	6	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	52221264	A	T	52221264	3	4	288	1	0	0	0	0	1	0	0	0	7872	362	13	5	2634	5	ITGA1	5	52221264	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	8678074	52221264	128693996	22	14558											
SEC24A	10802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	133996855	133996855	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaagagtcagtgagccaAggatacaatttccagcttcc	13	9	8	11	0	2	2	2	1	0	1	4	3	4	3	3	1	3	1	3	1	4	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	133996855	A	C	133996855	3	2	288	1	0	0	0	0	1	0	0	0	13996	69	3	5	150	5	SEC24A	5	133996855	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	81775591	133996855	46918405	23	14559											
CYFIP2	26999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156810297	156810297	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgcctggaggtccggaTgaaacgtctggaagccaagt	10	6	16	9	3	1	1	0	1	1	0	2	5	2	5	3	5	3	0	3	5	3	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	156810297	T	G	156810297	3	3	288	1	0	0	0	0	1	0	0	0	4138	1464	51	5	3243	5	CYFIP2	5	156810297	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	22813442	156810297	24104963	24	14560											
KIF13A	63971	broad.mit.edu;hgsc.bcm.edu	37	chr6	17850652	17850652	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gttggtagcagctaccgttcGagacttatttccctcagaca	9	12	9	11	2	1	2	1	0	0	2	3	3	2	2	2	1	3	5	2	1	3	6	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	17850652	G	C	17850652	3	2	288	1	0	0	0	0	1	0	0	0	8274	1066	37	4	4951	4	KIF13A	6	17850652	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08		17850652	153264415	25	14561											
DOM3Z	1797	broad.mit.edu;hgsc.bcm.edu	37	chr6	31939426	31939426	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacctctgtcttctcagcTcctctcttggtccccctggg	2	14	8	17	0	4	0	1	0	4	0	8	0	6	0	4	2	2	2	4	2	1	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	31939426	T	C	31939426	2	2	288	1	0	0	0	0	0	0	0	1	4705	1538	54	3		3	DOM3Z	6	31939426	Silent	SNP	T	TCGA-BP-4967-01A-01D-1462-08	14088774	31939426	139175641	26	14562											
SPDEF	25803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	34506194	34506194	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgcggatgccccacagccGggccacctgggctgagtcct	5	7	13	16	2	0	1	0	1	0	0	1	2	1	2	6	3	3	1	6	3	0	1	rs148079586		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	34506194	G	A	34506194	3	1	288	1	0	0	0	0	1	0	0	0	15027	1115	39	1	146	1	SPDEF	6	34506194	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08	2566768	34506194	136608873	27	14563											
C6orf89	221477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36882108	36882108	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagcagaatgagtcagagcCcattcctgccaactgcactg	11	8	10	12	0	1	4	1	2	0	2	2	4	2	4	3	0	5	2	3	0	2	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	36882108	C	A	36882108	3	1	288	1	0	0	0	0	1	0	0	0	2373	623	22	4	487	4	C6orf89	6	36882108	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	2375914	36882108	134232959	28	14564											
FAM135A	57579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	71185175	71185175	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcagtaaaacatttcaaAttttgtacaaaaatgaagag	18	13	6	4	0	1	2	1	1	0	1	1	2	1	2	0	0	3	3	0	0	7	6	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	71185175	A	G	71185175	3	3	288	1	0	0	0	0	1	0	0	0	5448	101	4	3	230	3	FAM135A	6	71185175	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	34303067	71185175	99929892	29	14565											
MDN1	23195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90399594	90399595	+	Frame_Shift_Ins	INS	-	-	G																															gtaaactaccatacccatcaINSgggggtagaagtgtgtcaca																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	90399595	-	G	90399594	7	5	288	1	0	1	1	0	0	0	0	0	9415	188	7	0	5924	0	MDN1	6	90399594	Frame_Shift_Ins	INS	-	TCGA-BP-4967-01A-01D-1462-08	19214419	90399594	80715473	30	14566											
FSCN1	6624	broad.mit.edu;hgsc.bcm.edu	37	chr7	5632985	5632985	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtgcacatcgccatgcacCctcaggtcaacatctacagc	10	7	8	16	2	3	0	2	0	1	0	4	0	3	0	2	1	5	2	2	1	2	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	5632985	C	T	5632985	3	4	288	1	0	0	0	0	1	0	0	0	6067	623	22	2	420	2	FSCN1	7	5632985	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08		5632985	153505678	31	14567											
CFTR	1080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117232369	117232369	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattttccattgtgcaaaaGactcccttacaaatgaatgg	15	12	6	8	0	0	2	0	1	0	1	2	2	2	2	2	1	2	1	2	1	6	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	117232369	G	T	117232369	3	4	288	1	0	0	0	0	1	0	0	0	3294	933	33	4	2202	4	CFTR	7	117232369	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08	111599384	117232369	41906294	32	14568											
ASAH1	427	hgsc.bcm.edu	37	chr8	17942197	17942203	+	Frame_Shift_Del	DEL	AGCAAAG	AGCAAAG	-																															ttacccacttgggctttcacAgcaaagctgccaaatcccag																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	AGCAAAG	AGCAAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	17942203	AGCAAAG	-	17942197	7	5	288	1	0	1	0	1	0	0	0	0	1006	175	7	0	1284	0	ASAH1	8	17942197	Frame_Shift_Del	DEL	AGCAAAG	TCGA-BP-4967-01A-01D-1462-08		17942197	128421825	33	14569											
CYP7A1	1581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	59404310	59404310	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcttcccgttttcatcAagatacctatcatatttaaa	11	18	3	9	1	4	1	3	0	1	1	5	1	5	1	2	0	1	1	2	0	6	9	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	59404310	A	C	59404310	2	2	288	1	0	0	0	0	0	0	0	1	4196	117	5	5		5	CYP7A1	8	59404310	Silent	SNP	A	TCGA-BP-4967-01A-01D-1462-08	41462113	59404310	86959712	34	14570											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106813474	106813474	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagctccatgtccctagCggcaaacttcccagagaaag	12	6	10	13	1	0	1	0	0	0	1	3	3	3	2	3	2	3	2	3	2	3	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	106813474	C	T	106813474	2	4	288	1	0	0	0	0	0	0	0	1	17657	767	27	1		1	ZFPM2	8	106813474	Silent	SNP	C	TCGA-BP-4967-01A-01D-1462-08	47409164	106813474	39550548	35	14571											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113277723	113277723	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattcaattccatcgtgtagCctggctggcacatgtaagaa	11	11	9	10	1	1	1	1	0	0	1	3	1	2	1	2	2	1	4	2	2	4	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	113277723	C	T	113277723	3	4	288	1	0	0	0	0	1	0	0	0	3946	739	26	2	1566	2	CSMD3	8	113277723	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	6464249	113277723	33086299	36	14572											
PTPDC1	138639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	96870182	96870183	+	Frame_Shift_Ins	INS	-	-	A																															atttaagcacacgctggaagINSaaaaaagaaaaatgacaaaa																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	96870183	-	A	96870182	7	5	288	1	0	1	1	0	0	0	0	0	12775	943	33	0	2497	0	PTPDC1	9	96870182	Frame_Shift_Ins	INS	-	TCGA-BP-4967-01A-01D-1462-08		96870182	44343249	37	14573											
HK1	3098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	71103744	71103744	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccattcctgatggctcTggtaagtctgtcacccagag	8	11	11	11	0	3	2	1	1	2	1	5	2	5	2	3	3	0	2	3	3	1	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	71103744	T	C	71103744	2	2	288	1	0	0	0	0	0	0	0	1	7190	1594	55	3		3	HK1	10	71103744	Silent	SNP	T	TCGA-BP-4967-01A-01D-1462-08		71103744	64431003	38	14574											
MGEA5	10724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103557823	103557823	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcataaagaattgtcctgTtggcacaattggagagccga	12	11	11	7	1	1	2	1	0	0	2	2	4	2	2	2	2	1	2	2	2	4	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	103557823	T	C	103557823	3	2	288	1	0	0	0	0	1	0	0	0	9555	1725	60	3	880	3	MGEA5	10	103557823	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	32454079	103557823	31976924	39	14575											
ST5	6764	broad.mit.edu	37	chr11	8752274	8752274	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgctcccagagccctccCgcttctctccacacatgctc	6	9	5	21	2	1	1	0	0	1	1	7	1	4	1	4	0	2	3	4	0	0	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	8752274	A	A	8752274	3	1	288	1	0	0	0	0	1	0	0	0	15221	652	23	4	2922	4	ST5	11	8752274	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08		8752274	126254242	40	14576											
PZP	5858	hgsc.bcm.edu	37	chr12	9305862	9305862	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgaatcctgaacggtGacctgtgcagttttctcagt	7	14	11	9	1	2	3	1	3	2	0	4	3	3	3	2	1	2	2	2	1	2	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	9305862	G	T	9305862	2	4	288	1	0	0	0	0	0	0	0	1	12871	1277	45	4		4	PZP	12	9305862	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08		9305862	124546033	41	14577											
ATF7IP	55729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14613557	14613557	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaatacagctactgtagttGctactactcaggtgcctagt	10	12	8	11	0	1	0	1	0	0	0	1	0	1	0	2	1	7	4	2	1	7	7	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	14613557	G	C	14613557	3	2	288	1	0	0	0	0	1	0	0	0	1087	1319	46	4	2317	4	ATF7IP	12	14613557	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08	5307695	14613557	119238338	42	14578											
NELL2	4753	broad.mit.edu;hgsc.bcm.edu	37	chr12	44917251	44917251	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcacagctgtgcctcccggtCccacactcatcaatatctat	9	10	6	16	1	3	0	2	0	1	0	5	0	5	0	3	1	2	2	3	1	3	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	44917251	C	T	44917251	2	4	288	1	0	0	0	0	0	0	0	1	10334	842	30	2		2	NELL2	12	44917251	Silent	SNP	C	TCGA-BP-4967-01A-01D-1462-08	30303694	44917251	88934644	43	14579											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49425039	49425039	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccgttgatctcagctcgCagcccctcggacccccgccc	4	7	9	21	4	1	1	1	1	1	0	4	2	1	2	6	1	3	3	6	1	0	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	49425039	C	T	49425039	2	4	288	1	0	0	0	0	0	0	0	1	9621	697	25	2		2	MLL2	12	49425039	Silent	SNP	C	TCGA-BP-4967-01A-01D-1462-08	4507788	49425039	84426856	44	14580											
KRT4	3851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53207945	53207945	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatatgtcctggagcagcaGggcttggttgcaggggcata	8	11	15	7	0	0	0	0	0	0	0	1	1	1	1	1	5	3	6	1	5	3	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	53207945	G	T	53207945	2	4	288	1	0	0	0	0	0	0	0	1	8477	987	35	4		4	KRT4	12	53207945	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08	3782906	53207945	80643950	45	14581											
DACH1	1602	broad.mit.edu	37	chr13	72204836	72204836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcagctgctgcagcGgctgctgtcagaccttaaaa	10	7	12	12	1	1	1	1	0	0	1	1	1	1	1	1	1	7	8	1	1	2	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	72204836	A	A	72204836	2	1	288	1	0	0	0	0	0	0	0	1	4220	1103	39	1		1	DACH1	13	72204836	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08		72204836	42965042	46	14582											
ZIC5	85416	broad.mit.edu;hgsc.bcm.edu	37	chr13	100622569	100622569	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagacgtggctgctctgcTcggggcctcccacgtgctcc	4	8	13	16	3	1	1	0	0	1	1	4	1	3	1	3	3	4	5	3	3	0	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	100622569	T	C	100622569	3	2	288	1	0	0	0	0	1	0	0	0	17681	1551	54	3	638	3	ZIC5	13	100622569	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	28417733	100622569	14547309	47	14583											
RNASE8	122665	broad.mit.edu;ucsc.edu	37	chr14	21526326	21526326	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacatagcctgcaagaataGctgtaaaaactgccaccaga	17	6	7	11	0	0	2	0	0	0	2	0	2	0	2	3	0	6	3	3	0	8	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	21526326	T	T	21526326	3	4	288	1	0	0	0	0	1	0	0	0	13411	971	34	4	277	4	RNASE8	14	21526326	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08		21526326	85823214	48	14584											
MTHFD1	4522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64855180	64855180	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctgaacgggaaggagaTctccgcgtaagcacctgaca	13	6	11	11	3	1	3	0	2	1	1	3	5	2	4	3	2	2	2	3	2	4	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	64855180	T	A	64855180	3	1	288	1	0	0	0	0	1	0	0	0	9927	1435	50	5	37	5	MTHFD1	14	64855180	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	43328854	64855180	42494360	49	14585											
ZDHHC22	283576	broad.mit.edu;hgsc.bcm.edu	37	chr14	77600035	77600035	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtgtctactacttatcCtgctgcttggagctctcact	6	14	10	11	0	2	0	1	0	2	0	4	2	3	2	1	2	5	3	1	2	3	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	77600035	C	G	77600035	3	3	288	1	0	0	0	0	1	0	0	0	17612	680	24	4	12	4	ZDHHC22	14	77600035	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	12744855	77600035	29749505	50	14586											
CYP46A1	10858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	100166423	100166423	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcggagagtcatagaccTggccttcagccggaggtgag	9	6	16	10	2	2	3	2	1	0	2	2	5	2	4	3	4	2	1	3	4	1	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	100166423	T	C	100166423	3	2	288	1	0	0	0	0	1	0	0	0	4182	1580	55	3	446	3	CYP46A1	14	100166423	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	22566388	100166423	7183117	51	14587											
USP8	9101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50763851	50763851	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcactgctagttggattgaAgcacacctgccagatgattc	10	11	10	10	0	1	3	1	2	0	1	2	4	1	4	2	1	3	3	2	1	2	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	50763851	A	G	50763851	2	3	288	1	0	0	0	0	0	0	0	1	17088	69	3	3		3	USP8	15	50763851	Silent	SNP	A	TCGA-BP-4967-01A-01D-1462-08		50763851	51767541	52	14588											
MYO1E	4643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59470597	59470597	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cagccaagcactcacagactCgggggctttgatgaacactt	11	8	10	12	1	1	3	1	2	0	1	2	3	1	3	1	2	3	2	1	2	2	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	59470597	C	G	59470597	3	3	288	1	0	0	0	0	1	0	0	0	10072	893	31	4	1322	4	MYO1E	15	59470597	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	8706746	59470597	43060795	53	14589											
SPSB3	90864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1828480	1828480	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtccctgccccggtgggccGagtgcaggctgctacagaag	7	6	15	13	2	0	1	0	0	0	1	1	2	1	1	4	3	4	3	4	3	2	1	rs150535227		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	1828480	G	A	1828480	3	1	288	1	0	0	0	0	1	0	0	0	15115	1059	37	1	827	1	SPSB3	16	1828480	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08		1828480	88526273	54	14590											
TCEB2	6923	hgsc.bcm.edu	37	chr16	2825480	2825481	+	Frame_Shift_Ins	INS	-	-	G																															aggccagccccactgtggctINSggggcctgtggccgtgctgt																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	2825481	-	G	2825480	7	5	288	1	0	1	1	0	0	0	0	0	15679	1567	55	0	285	0	TCEB2	16	2825480	Frame_Shift_Ins	INS	-	TCGA-BP-4967-01A-01D-1462-08	997000	2825480	87529273	55	14591											
NOD2	64127	broad.mit.edu;ucsc.edu	37	chr16	50745117	50745117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtccggccgctgtgtcggCgttcctcaggaagtacatcc	5	9	12	15	5	1	0	1	0	0	0	5	1	4	1	5	3	1	3	5	3	2	2	rs2076754	bycluster;byfrequency	TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	50745117	T	T	50745117	3	4	288	1	0	0	0	0	1	0	0	0	10517	768	27	1	1309	1	NOD2	16	50745117	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	47919637	50745117	39609636	56	14592											
IRX3	79191	broad.mit.edu;hgsc.bcm.edu	37	chr16	54319294	54319294	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtgagggtcatcttggTgatgatggccagcatgatct	7	12	15	7	0	3	4	1	4	2	0	3	4	3	4	1	4	1	1	1	4	0	1	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	54319294	T	C	54319294	3	2	288	1	0	0	0	0	1	0	0	0	7845	1696	59	3	1018	3	IRX3	16	54319294	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	3574177	54319294	36035459	57	14593											
SLC12A4	6560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67979424	67979424	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtacaggctctccagccgCagggccgagtgccgatcctt	7	7	13	14	3	1	0	0	0	1	0	3	3	2	0	5	2	3	3	5	2	1	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	67979424	C	A	67979424	2	1	288	1	0	0	0	0	0	0	0	1	14387	697	25	4		4	SLC12A4	16	67979424	Silent	SNP	C	TCGA-BP-4967-01A-01D-1462-08	13660130	67979424	22375329	58	14594											
PELP1	27043	hgsc.bcm.edu;ucsc.edu	37	chr17	4577915	4577915	+	Frame_Shift_Del	DEL	G	G	-																															ttagcttcttgggggcgctaGgcttcccagtctgcaaactc																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	4577915	G	-	4577915	7	5	288	1	0	1	0	1	0	0	0	0	11725	1000	35	0	1940	0	PELP1	17	4577915	Frame_Shift_Del	DEL	G	TCGA-BP-4967-01A-01D-1462-08		4577915	76617295	59	14595											
PER1	5187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8048306	8048306	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaggtcctccatcatgaTgatgtctgaggagagtgaga	11	9	14	7	0	2	5	1	4	1	2	4	7	4	5	2	3	0	1	2	3	0	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	8048306	T	A	8048306	3	1	288	1	0	0	0	0	1	0	0	0	11729	1464	51	5	1672	5	PER1	17	8048306	Missense_Mutation	SNP	T	TCGA-BP-4967-01A-01D-1462-08	3470391	8048306	73146904	60	14596											
SEZ6	124925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27308944	27308944	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgggggctgttgtgacaaAgtggacgcctcgttctggct	5	11	17	8	2	1	1	0	1	1	0	2	2	1	2	1	5	0	4	1	5	1	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	27308944	A	C	27308944	3	2	288	1	0	0	0	0	1	0	0	0	14144	72	3	5	2892	5	SEZ6	17	27308944	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	19260638	27308944	53886266	61	14597											
STAT5B	6777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40359718	40359718	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaagtctctggtggtaaaAggcatcagattccaaaacat	15	9	10	7	0	2	2	1	0	1	2	4	3	3	2	1	3	1	2	1	3	5	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	40359718	A	G	40359718	2	3	288	1	0	0	0	0	0	0	0	1	15270	59	3	3		3	STAT5B	17	40359718	Silent	SNP	A	TCGA-BP-4967-01A-01D-1462-08	13050774	40359718	40835492	62	14598											
CEP192	55125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	13114196	13114196	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctcattaaaatagatcAtttagttaagccccgaagac	14	12	5	10	1	2	2	2	0	0	2	3	3	3	2	3	0	1	1	3	0	6	6	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		C	13114196	A	C	13114196	3	2	288	1	0	0	0	0	1	0	0	0	3251	217	8	5	7397	5	CEP192	18	13114196	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08		13114196	64963052	63	14599											
CHST9	83539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	24496340	24496340	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcacgacttgagcattGgttctttcatcggaagagtg	8	14	11	8	2	3	2	2	1	2	1	5	4	3	3	0	2	1	2	0	2	1	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	24496340	G	T	24496340	2	4	288	1	0	0	0	0	0	0	0	1	3411	1335	47	4		4	CHST9	18	24496340	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08	11382144	24496340	53580908	64	14600											
POLRMT	5442	broad.mit.edu	37	chr19	632854	632854	+	Frame_Shift_Del	DEL	C	-	-																															cctccagcagctccacgtggCcccagtccttcctgcggtct																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	632854	-	-	632854	7	5	288	1	0	1	0	1	0	0	0	0	12238	739	26	0	3599	0	POLRMT	19	632854	Frame_Shift_Del	DEL	C	TCGA-BP-4967-01A-01D-1462-08		632854	58496129	65	14601											
BTBD2	55643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1993133	1993133	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcggtgtatagcgtggtcatCaccgtctccgggccaatctg	6	10	13	12	4	4	0	2	0	2	0	5	0	4	0	3	3	1	1	3	3	3	2	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	1993133	C	T	1993133	2	4	288	1	0	0	0	0	0	0	0	1	1543	813	29	2		2	BTBD2	19	1993133	Silent	SNP	C	TCGA-BP-4967-01A-01D-1462-08	1360279	1993133	57135850	66	14602											
RINL	126432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39361507	39361507	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcgtcctcccttccttcctCctttccttcaaggtcttcct	2	17	4	18	1	2	0	1	0	1	0	10	0	9	0	7	1	0	0	7	1	1	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	39361507	C	T	39361507	3	4	288	1	0	0	0	0	1	0	0	0	13377	864	30	2	993	2	RINL	19	39361507	Missense_Mutation	SNP	C	TCGA-BP-4967-01A-01D-1462-08	37368374	39361507	19767476	67	14603											
PRKD2	25865	hgsc.bcm.edu;ucsc.edu	37	chr19	47177890	47177899	+	Frame_Shift_Del	DEL	CTGCTGCAAA	CTGCTGCAAA	-																															agacccaggcagcggatgctCtgctgcaaactgctcccagc																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	CTGCTGCAAA	CTGCTGCAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	47177899	CTGCTGCAAA	-	47177890	7	5	288	1	0	1	0	1	0	0	0	0	12521	922	32	0	113	0	PRKD2	19	47177890	Frame_Shift_Del	DEL	CTGCTGCAAA	TCGA-BP-4967-01A-01D-1462-08	7816383	47177890	11951093	68	14604											
ZNF765	91661	broad.mit.edu	37	chr19	53926630	53926630	+	RNA	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatctgcctggggctcatgCtctggggcagcagctccatc	5	10	13	13	0	3	1	1	1	2	0	5	1	4	1	2	4	4	5	2	4	0	0	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	53926630	T	T	53926630	1	4	288	0	1	0	0	0	0	0	0	0	18138	812	28	2		2	ZNF765	19	53926630	RNA	SNP	C	TCGA-BP-4967-01A-01D-1462-08	6748740	53926630	5202353	69	14605											
ZIM3	114026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57646763	57646763	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacttgtaaatgaaagcCtttccacagtccgtacattg	11	13	7	10	1	1	2	0	2	1	0	3	2	3	2	3	0	2	2	3	0	4	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	57646763	C	T	57646763	2	4	288	1	0	0	0	0	0	0	0	1	17684	680	24	2		2	ZIM3	19	57646763	Silent	SNP	C	TCGA-BP-4967-01A-01D-1462-08	3720133	57646763	1482220	70	14606											
C20orf46	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	1162182	1162183	+	Frame_Shift_Ins	INS	-	-	G																															tcagttccagaccagggggaINSgatgccattgggaaggaggg																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		G	1162183	-	G	1162182	7	5	288	1	0	1	1	0	0	0	0	0	2113	291	11	0	693	0	C20orf46	20	1162182	Frame_Shift_Ins	INS	-	TCGA-BP-4967-01A-01D-1462-08		1162182	61863338	71	14607											
CNKSR2	22866	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	21667030	21667030	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccagtctgtcaccactagGagaacatcgtatttcaacca	12	9	8	12	1	3	1	2	0	1	1	4	2	3	1	3	2	2	1	3	2	4	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	21667030	G	T	21667030	3	4	288	1	0	0	0	0	1	0	0	0	3607	1174	41	4	2865	4	CNKSR2	23	21667030	Missense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08		21667030	133603530	72	14608											
GAGE12J	729396	broad.mit.edu;hgsc.bcm.edu	37	chrX	49179737	49179737	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctatgtacagcctcctgAaatgattgggcctatgcggg	9	10	11	11	1	0	2	0	2	0	0	1	2	1	2	4	2	3	1	4	2	4	4	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	49179737	A	T	49179737	3	4	288	1	0	0	0	0	1	0	0	0	6188	246	9	5	67	5	GAGE12J	23	49179737	Missense_Mutation	SNP	A	TCGA-BP-4967-01A-01D-1462-08	27512707	49179737	106090823	73	14609											
MAGEE1	57692	broad.mit.edu;hgsc.bcm.edu	37	chrX	75649863	75649863	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagcaagtaccctatccggGagtctgaaatgcgggaatat	13	8	12	8	2	1	2	0	1	1	1	2	4	2	4	2	2	3	2	2	2	6	3	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	75649863	G	T	75649863	4	4	288	1	0	0	0	0	0	1	0	0	9185	1175	41	4	1542	4	MAGEE1	23	75649863	Nonsense_Mutation	SNP	G	TCGA-BP-4967-01A-01D-1462-08	26470126	75649863	79620697	74	14610											
ITM2A	9452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	78618083	78618083	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaaaatacataccgccaGtttgccaaagagctctacca	14	9	5	13	1	1	1	0	0	1	1	2	1	2	1	5	0	5	2	5	0	6	5	novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		A	78618083	G	A	78618083	2	1	288	1	0	0	0	0	0	0	0	1	7912	1020	36	2		2	ITM2A	23	78618083	Silent	SNP	G	TCGA-BP-4967-01A-01D-1462-08	2968220	78618083	76652477	75	14611											
GPRASP1	9737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101912814	101912815	+	Frame_Shift_Ins	INS	-	-	T																															agtgtcagaatttataggccINStctttaacagggaagagaca																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		T	101912815	-	T	101912814	7	5	288	1	0	1	1	0	0	0	0	0	6722	681	24	0	3975	0	GPRASP1	23	101912814	Frame_Shift_Ins	INS	-	TCGA-BP-4967-01A-01D-1462-08	23294731	101912814	53357746	76	14612											
SLITRK4	139065	hgsc.bcm.edu	37	chrX	142717055	142717058	+	Frame_Shift_Del	DEL	TACT	TACT	-																															taaaatgaggaccactaagaTacttaagattaaaatagaca																								novel		TCGA-BP-4967-01A-01D-1462-08	TCGA-BP-4967-11A-01D-1462-08	TACT	TACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75866d14-47d5-4560-a5a0-32ba3e15ac63	dd634438-8fad-4ff4-b306-f372c978a350		-	142717058	TACT	-	142717055	7	5	288	1	0	1	0	1	0	0	0	0	14747	1406	49	0	647	0	SLITRK4	23	142717055	Frame_Shift_Del	DEL	TACT	TCGA-BP-4967-01A-01D-1462-08	40804241	142717055	12553505	77	14613											
PLEKHG5	57449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	6532596	6532596	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccctactcacgttgatgatCacccgcagtttcctgatgta	8	12	7	14	2	2	3	2	3	0	0	3	3	3	3	4	0	1	4	4	0	2	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	6532596	C	G	6532596	2	3	289	1	0	0	0	0	0	0	0	1	12073	813	29	4		4	PLEKHG5	1	6532596	Silent	SNP	C	TCGA-BP-4968-01A-01D-1462-08		6532596	242718025	1	14614											
VPS13D	55187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12336481	12336481	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgttggagcagcataccCgcgaggttctggtggagtcg	6	11	16	8	3	1	0	0	0	1	0	2	3	1	2	1	4	3	5	1	4	1	4	rs41279448	bycluster;byfrequency;by1000genomes	TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	12336481	C	T	12336481	3	4	289	1	0	0	0	0	1	0	0	0	17191	652	23	1	2906	1	VPS13D	1	12336481	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	5803885	12336481	236914140	2	14615											
EPHA8	2046	broad.mit.edu;hgsc.bcm.edu	37	chr1	22920118	22920118	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacgtgttccaggtccgagcCcgcacctcagcaggctgtgg	6	8	13	14	3	1	0	1	0	0	0	3	1	3	0	4	3	3	4	4	3	1	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	22920118	C	G	22920118	2	3	289	1	0	0	0	0	0	0	0	1	5173	610	22	4		4	EPHA8	1	22920118	Silent	SNP	C	TCGA-BP-4968-01A-01D-1462-08	10583637	22920118	226330503	3	14616											
PROX1	5629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214171381	214171381	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccattaggtgctccctcCggctccttctctggaaaaga	8	10	9	14	1	1	1	0	0	1	1	5	2	4	2	4	3	2	2	4	3	3	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	214171381	C	T	214171381	2	4	289	1	0	0	0	0	0	0	0	1	12562	639	23	1		1	PROX1	1	214171381	Silent	SNP	C	TCGA-BP-4968-01A-01D-1462-08	191251263	214171381	35079240	4	14617											
TTC13	79573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	231076263	231076263	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatagctttagtgaggtCattcactgcttcattaattc	9	17	8	7	0	3	1	3	1	0	0	4	2	3	2	0	2	2	2	0	2	3	8	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	231076263	C	A	231076263	3	1	289	1	0	0	0	0	1	0	0	0	16679	826	29	4	1938	4	TTC13	1	231076263	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	16904882	231076263	18174358	5	14618											
ZFP36L2	678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43452170	43452170	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggaagcccgagaagctgAggctgtggtgcaacttgggc	9	6	17	9	2	0	2	0	1	0	1	0	4	0	3	1	4	4	3	1	4	3	1	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	43452170	A	G	43452170	3	3	289	1	0	0	0	0	1	0	0	0	17646	304	11	3	715	3	ZFP36L2	2	43452170	Missense_Mutation	SNP	A	TCGA-BP-4968-01A-01D-1462-08		43452170	199747203	6	14619											
CCDC142	84865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74709054	74709054	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacagcagggtccagtatTggctccacaaggccccagcc	9	5	10	17	0	0	0	0	0	0	0	2	0	2	0	6	3	2	3	6	3	2	2	rs138040614	alternate_allele	TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	74709054	T	G	74709054	3	3	289	1	0	0	0	0	1	0	0	0	2776	1812	63	5	1356	5	CCDC142	2	74709054	Missense_Mutation	SNP	T	TCGA-BP-4968-01A-01D-1462-08	31256884	74709054	168490319	7	14620											
TADA3	10474	broad.mit.edu	37	chr3	9825848	9825848	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactccaaaaggccctgggCaattagctcctccttgatgc	10	9	9	13	0	0	2	0	1	0	1	3	2	3	2	4	2	2	2	4	2	4	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	9825848	A	A	9825848	3	1	289	1	0	0	0	0	1	0	0	0	15511	710	25	4	340	4	TADA3	3	9825848	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08		9825848	188196582	8	14621											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183734	10183734	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgcgctcggtgaactCgcgcgagccctcccaggtca	5	7	13	16	6	1	1	1	1	0	0	4	2	2	1	2	2	4	2	2	2	1	0	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	10183734	C	A	10183734	4	1	289	1	0	0	0	0	0	1	0	0	17161	893	31	4	205	4	VHL	3	10183734	Nonsense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	357886	10183734	187838696	9	14622											
PRDM5	11107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	121828700	121828700	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctctccagcaaagggtcCgaacttttcaccctgagtag	9	11	8	13	1	2	1	1	1	1	0	5	2	4	1	3	1	2	2	3	1	3	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	121828700	C	T	121828700	3	4	289	1	0	0	0	0	1	0	0	0	12462	661	23	1	1846	1	PRDM5	4	121828700	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08		121828700	69325576	10	14623											
ELF2	1998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	139983076	139983076	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgttcttatgctttcccCaaagcttagagacagccttt	8	16	7	10	0	1	1	0	0	1	1	2	2	2	1	3	0	3	4	3	0	3	6	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	139983076	C	T	139983076	4	4	289	1	0	0	0	0	0	1	0	0	5054	595	21	2	1044	2	ELF2	4	139983076	Nonsense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	18154376	139983076	51171200	11	14624											
OTUD4	54726	hgsc.bcm.edu	37	chr4	146063397	146063398	+	Frame_Shift_Ins	INS	-	-	G																															gccaggctggcacagtggctINSggtaaagaaggcaccgcagg																								novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	146063398	-	G	146063397	7	5	289	1	0	1	1	0	0	0	0	0	11314	1567	55	0	1587	0	OTUD4	4	146063397	Frame_Shift_Ins	INS	-	TCGA-BP-4968-01A-01D-1462-08	6080321	146063397	45090879	12	14625											
ADAM29	11086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	175896895	175896895	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaaggtcaagaagcttttGttttccaaacacctccctgt	12	13	6	10	0	1	1	1	0	0	1	3	1	3	1	3	1	2	2	3	1	5	5	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	175896895	G	A	175896895	2	1	289	1	0	0	0	0	0	0	0	1	247	1368	48	2		2	ADAM29	4	175896895	Silent	SNP	G	TCGA-BP-4968-01A-01D-1462-08	29833498	175896895	15257381	13	14626											
CDH12	1010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	21752149	21752149	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaaacagagagagtctggTtttatatccctgcgaatttt	11	14	10	6	1	1	2	0	0	1	2	2	4	2	2	1	2	2	2	1	2	5	6	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	21752149	T	A	21752149	3	1	289	1	0	0	0	0	1	0	0	0	3098	1722	60	5	306	5	CDH12	5	21752149	Missense_Mutation	SNP	T	TCGA-BP-4968-01A-01D-1462-08		21752149	159163111	14	14627											
C5orf42	65250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37186442	37186442	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtgatatttgtctcttaAaggaaccctcacgtcctcag	11	12	8	10	1	3	2	2	1	1	1	5	3	4	3	2	1	1	0	2	1	4	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		C	37186442	A	C	37186442	3	2	289	1	0	0	0	0	1	0	0	0	2301	11	1	5	5574	5	C5orf42	5	37186442	Missense_Mutation	SNP	A	TCGA-BP-4968-01A-01D-1462-08	15434293	37186442	143728818	15	14628											
AQPEP	206338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	115323525	115323525	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagatacgcatctgggccCggaaagatgcaattgcaaat	13	10	10	8	2	1	2	0	0	1	2	1	3	1	3	1	2	3	3	1	2	5	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	115323525	C	T	115323525	3	4	289	1	0	0	0	0	1	0	0	0	834	643	23	1	1008	1	AQPEP	5	115323525	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	78137083	115323525	65591735	16	14629											
HIST1H2BC	8347	hgsc.bcm.edu	37	chr6	26124127	26124127	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcagacttggctggctcAggcatcttaaaacaccagaa	13	7	11	10	0	2	2	1	0	1	2	2	3	2	3	1	4	2	4	1	4	3	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	26124127	A	G	26124127	2	3	289	1	0	0	0	0	0	0	0	1	7142	175	7	3		3	HIST1H2BC	6	26124127	Silent	SNP	A	TCGA-BP-4968-01A-01D-1462-08		26124127	144990940	17	14630											
NRCAM	4897	hgsc.bcm.edu;ucsc.edu	37	chr7	107834765	107834766	+	Frame_Shift_Ins	INS	-	-	TA																															tttattccttgcaacacacgINStataagttcctgtactgtcc																								novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		TA	107834766	-	TA	107834765	7	5	289	1	0	1	1	0	0	0	0	0	10644	1145	40	0	2445	0	NRCAM	7	107834765	Frame_Shift_Ins	INS	-	TCGA-BP-4968-01A-01D-1462-08		107834765	51303898	18	14631											
ZNF800	168850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127013721	127013721	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttttttatagctctgatctCtaaactggctgttattttcc	7	20	5	9	0	2	1	0	1	2	0	4	1	3	1	1	1	2	3	1	1	5	8	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	127013721	C	G	127013721	3	3	289	1	0	0	0	0	1	0	0	0	18168	922	32	4	333	4	ZNF800	7	127013721	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	19178956	127013721	32124942	19	14632											
ATP6V1B2	526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	20077883	20077883	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagagcaccctcagcgaAttttaccctcgagactctgc	9	9	7	16	2	3	2	2	0	1	2	4	4	3	2	3	0	4	1	3	0	2	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	20077883	A	T	20077883	3	4	289	1	0	0	0	0	1	0	0	0	1179	98	4	5	1560	5	ATP6V1B2	8	20077883	Missense_Mutation	SNP	A	TCGA-BP-4968-01A-01D-1462-08		20077883	126286139	20	14633											
SECISBP2	79048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	91972394	91972394	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaacattccctttgtgtttGctctcaaccgcaaagctctg	9	13	7	12	1	2	1	1	0	2	1	4	1	3	1	2	0	4	4	2	0	3	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	91972394	G	A	91972394	3	1	289	1	0	0	0	0	1	0	0	0	14008	1319	46	2	2240	2	SECISBP2	9	91972394	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08		91972394	49241037	21	14634											
ABCA2	20	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139906470	139906470	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgacatccgtgccctgcagCctggggcaaggaagccctca	9	5	12	15	2	1	0	1	0	0	0	2	2	2	1	4	3	4	2	4	3	2	0	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	139906470	C	T	139906470	3	4	289	1	0	0	0	0	1	0	0	0	32	753	26	2	2009	2	ABCA2	9	139906470	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	47934076	139906470	1306961	22	14635											
MARCH8	220972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	45959707	45959707	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagatgtcctggctggaTggcgtgatagaagtgcgaga	9	9	16	7	2	0	4	0	1	0	3	1	6	1	5	1	3	2	2	1	3	2	1	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	45959707	T	A	45959707	2	1	289	1	0	0	0	0	0	0	0	1	9307	1451	51	5		5	MARCH8	10	45959707	Silent	SNP	T	TCGA-BP-4968-01A-01D-1462-08		45959707	89575040	23	14636											
ADAMTS14	140766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	72493772	72493772	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcaagctggagctcaGccgctacctcccgtaggtca	8	7	11	15	2	2	0	2	0	0	0	3	1	3	1	3	2	6	6	3	2	3	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	72493772	G	A	72493772	3	1	289	1	0	0	0	0	1	0	0	0	259	971	34	2	1379	2	ADAMTS14	10	72493772	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08	26534065	72493772	63040975	24	14637											
PDE3B	5140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	14852297	14852297	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaacttatggaaactcaaCaagaagaggaaacagagaag	21	5	9	6	0	2	3	2	0	0	3	2	6	2	5	0	2	4	0	0	2	8	1	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	14852297	C	A	14852297	3	1	289	1	0	0	0	0	1	0	0	0	11638	479	17	4	1891	4	PDE3B	11	14852297	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08		14852297	120154219	25	14638											
SLC22A6	9356	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62744739	62744739	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagcgctggcggccacAggaacagcaccgtagatgaa	12	4	14	11	3	0	3	0	2	0	1	0	4	0	4	2	3	3	3	2	3	3	1	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	62744739	A	G	62744739	2	3	289	1	0	0	0	0	0	0	0	1	14460	175	7	3		3	SLC22A6	11	62744739	Silent	SNP	A	TCGA-BP-4968-01A-01D-1462-08	47892442	62744739	72261777	26	14639											
FAM168A	23201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73130927	73130927	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgtatttactgaaagccGcagaggatgcttggtaagtt	10	12	13	6	1	0	2	0	1	0	1	0	3	0	3	1	3	3	6	1	3	4	6	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	73130927	G	A	73130927	3	1	289	1	0	0	0	0	1	0	0	0	5485	1087	38	1	454	1	FAM168A	11	73130927	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08	10386188	73130927	61875589	27	14640											
APOBEC1	339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7807218	7807218	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctcagagtggggtcaccGgttgaaggacctgttgacca	9	9	13	10	1	2	3	2	2	0	1	2	4	2	4	4	4	1	2	4	4	2	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	7807218	G	A	7807218	2	1	289	1	0	0	0	0	0	0	0	1	787	1103	39	1		1	APOBEC1	12	7807218	Silent	SNP	G	TCGA-BP-4968-01A-01D-1462-08		7807218	126044677	28	14641											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53673565	53673565	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacggattgtctctgagaGactgaaggaccactcgaagg	11	8	13	9	2	1	3	0	2	1	1	3	7	1	5	1	3	1	1	1	3	3	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	53673565	G	T	53673565	3	4	289	1	0	0	0	0	1	0	0	0	5253	942	33	4	2456	4	ESPL1	12	53673565	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08	45866347	53673565	80178330	29	14642											
SIRT4	23409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120741603	120741603	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctacaggtcagaaaaagtggGgctttatgcccgcactgacc	11	8	11	11	1	1	2	1	1	0	1	1	2	1	2	2	3	2	2	2	3	4	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	120741603	G	T	120741603	3	4	289	1	0	0	0	0	1	0	0	0	14342	1232	43	4	241	4	SIRT4	12	120741603	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08	67068038	120741603	13110292	30	14643											
PNP	4860	broad.mit.edu;hgsc.bcm.edu	37	chr14	20940624	20940624	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acggtgaaatccccaactttCcccgaagtacaggtactggc	11	8	9	13	2	0	1	0	1	0	0	2	2	2	1	4	3	3	2	4	3	5	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	20940624	C	T	20940624	3	4	289	1	0	0	0	0	1	0	0	0	12163	855	30	2	175	2	PNP	14	20940624	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08		20940624	86408916	31	14644											
CDH24	64403	broad.mit.edu;hgsc.bcm.edu	37	chr14	23522709	23522709	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcccagctcacctacctgaTtgggctggcaggggagtcca	8	8	12	13	0	1	1	1	1	0	0	3	2	3	2	4	4	2	3	4	4	1	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		C	23522709	T	C	23522709	3	2	289	1	0	0	0	0	1	0	0	0	3109	1493	52	3	1265	3	CDH24	14	23522709	Missense_Mutation	SNP	T	TCGA-BP-4968-01A-01D-1462-08	2582085	23522709	83826831	32	14645											
PAX9	5083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	37132609	37132609	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctatcacggcggcggccgCcaaggtgcccacgccacccg	6	3	12	20	6	1	0	1	0	0	0	1	0	1	0	6	4	1	0	6	4	2	1	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	37132609	C	T	37132609	3	4	289	1	0	0	0	0	1	0	0	0	11486	739	26	2	518	2	PAX9	14	37132609	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08	13609900	37132609	70216931	33	14646											
RFX7	64864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56395867	56395867	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagattgtcacaatagcTcctgcaaaagaaggaaggac	17	6	9	9	0	1	2	1	0	0	2	2	4	2	4	2	2	2	2	2	2	7	2	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	56395867	T	A	56395867	3	1	289	1	0	0	0	0	1	0	0	0	13270	1565	54	5	3999	5	RFX7	15	56395867	Missense_Mutation	SNP	T	TCGA-BP-4968-01A-01D-1462-08		56395867	46135525	34	14647											
HMG20A	10363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	77763256	77763256	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatttctttcctagcgctAccttgatgaagcagacagag	10	13	9	9	1	1	4	0	2	1	2	2	4	2	4	2	0	3	3	2	0	4	6	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	77763256	A	G	77763256	3	3	289	1	0	0	0	0	1	0	0	0	7221	391	14	3	469	3	HMG20A	15	77763256	Missense_Mutation	SNP	A	TCGA-BP-4968-01A-01D-1462-08	21367389	77763256	24768136	35	14648											
MYH2	4620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10432798	10432798	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctccaaggacccttcaaGctaaatataaattatgttga	14	13	6	8	0	1	1	1	1	0	0	2	2	2	2	2	1	2	3	2	1	8	7	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	10432798	G	A	10432798	3	1	289	1	0	0	0	0	1	0	0	0	10035	985	34	2	2771	2	MYH2	17	10432798	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08		10432798	70762412	36	14649											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11845736	11845736	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagttgccttccaggagtgTggccggatgaatatcctcac	8	11	12	10	1	1	1	1	1	0	0	3	3	3	3	4	3	1	2	4	3	3	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	11845736	T	A	11845736	4	1	289	1	0	0	0	0	0	1	0	0	4608	1702	59	5	13043	5	DNAH9	17	11845736	Nonsense_Mutation	SNP	T	TCGA-BP-4968-01A-01D-1462-08	1412938	11845736	69349474	37	14650											
C17orf66	256957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34190556	34190556	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcactttctctggaccaGtttgggcctaatttaagagg	9	14	9	9	0	2	1	1	0	1	1	3	2	2	2	2	3	0	1	2	3	2	6	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	34190556	G	A	34190556	3	1	289	1	0	0	0	0	1	0	0	0	1874	1029	36	2	1173	2	C17orf66	17	34190556	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08	22344820	34190556	47004654	38	14651											
ACLY	47	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40061042	40061042	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaatgatgaggatcttGcctggatttggagtaagaga	11	11	12	7	0	1	3	0	2	1	1	2	7	2	6	3	3	1	1	3	3	2	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	40061042	G	T	40061042	2	4	289	1	0	0	0	0	0	0	0	1	143	1333	46	4		4	ACLY	17	40061042	Silent	SNP	G	TCGA-BP-4968-01A-01D-1462-08	5870486	40061042	41134168	39	14652											
KCNH4	23415	broad.mit.edu;ucsc.edu	37	chr17	40330118	40330118	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgggggtgggactcacAttattggccttcatgcctcc	5	12	14	10	0	2	0	2	0	0	0	3	1	3	1	3	5	1	1	3	5	1	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	40330118	G	G	40330118	2	3	289	1	0	0	0	0	0	0	0	1	8034	231	8	3		3	KCNH4	17	40330118	Silent	SNP	A	TCGA-BP-4968-01A-01D-1462-08	269076	40330118	40865092	40	14653											
ABCA5	23461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	67302951	67302951	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacgatatgaattgccaaaaAgtatccaaaaggtgaaaatg	19	9	8	5	1	0	2	0	2	0	0	1	3	1	2	2	1	2	1	2	1	10	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		T	67302951	A	T	67302951	3	4	289	1	0	0	0	0	1	0	0	0	35	72	3	5	4361	5	ABCA5	17	67302951	Missense_Mutation	SNP	A	TCGA-BP-4968-01A-01D-1462-08	26972833	67302951	13892259	41	14654											
RNF213	57674	hgsc.bcm.edu;ucsc.edu	37	chr17	78343583	78343584	+	Frame_Shift_Ins	INS	-	-	A																															taaggacactgtgaacacacINSaaaatctctctctccattca																								novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	78343584	-	A	78343583	7	5	289	1	0	1	1	0	0	0	0	0	13479	478	17	0	12838	0	RNF213	17	78343583	Frame_Shift_Ins	INS	-	TCGA-BP-4968-01A-01D-1462-08	11040632	78343583	2851627	42	14655											
XAB2	56949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7688070	7688070	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcacatcgtccagctgtcCgttgtcctcataaaacttgg	8	12	8	13	2	2	0	2	0	0	0	6	0	5	0	3	1	2	3	3	1	2	3	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		G	7688070	C	G	7688070	3	3	289	1	0	0	0	0	1	0	0	0	17417	661	23	4	1386	4	XAB2	19	7688070	Missense_Mutation	SNP	C	TCGA-BP-4968-01A-01D-1462-08		7688070	51440913	43	14656											
TSKS	60385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50266419	50266419	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagcctctgggactagctggGagcagctctccacccccgtg	6	7	13	15	1	2	0	0	0	2	0	3	3	2	2	4	2	4	3	4	2	1	1	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	50266419	G	A	50266419	3	1	289	1	0	0	0	0	1	0	0	0	16625	1174	41	2	1736	2	TSKS	19	50266419	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08	42578349	50266419	8862564	44	14657											
MMP9	4318	hgsc.bcm.edu;ucsc.edu	37	chr20	44641977	44641977	+	Frame_Shift_Del	DEL	C	C	-																															cgacggtctgccccaccggaCcccccactgtccacccctca																								novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		-	44641977	C	-	44641977	7	5	289	1	0	1	0	1	0	0	0	0	9669	507	18	0	1448	0	MMP9	20	44641977	Frame_Shift_Del	DEL	C	TCGA-BP-4968-01A-01D-1462-08		44641977	18383543	45	14658											
SYNJ1	8867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34099147	34099147	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatgcctagtttccactatGaggctgaaaggtgggggatc	9	12	13	7	0	0	2	0	2	0	0	2	3	1	3	2	4	1	2	2	4	4	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	34099147	G	A	34099147	2	1	289	1	0	0	0	0	0	0	0	1	15451	1277	45	2		2	SYNJ1	21	34099147	Silent	SNP	G	TCGA-BP-4968-01A-01D-1462-08		34099147	14030748	46	14659											
SEZ6L	23544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	26693016	26693016	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccggaccttccaggacgacGgccttgggaccttccagctt	6	9	11	15	3	0	0	0	0	0	0	3	4	3	3	6	4	1	1	6	4	0	4	novel		TCGA-BP-4968-01A-01D-1462-08	TCGA-BP-4968-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d777d5ec-4632-446e-aeac-8ae3e5273fe2	4833d13e-8856-4646-a528-49cf6c34cd82		A	26693016	G	A	26693016	3	1	289	1	0	0	0	0	1	0	0	0	14145	1116	39	1	1146	1	SEZ6L	22	26693016	Missense_Mutation	SNP	G	TCGA-BP-4968-01A-01D-1462-08		26693016	24611550	47	14660											
EPHA8	2046	broad.mit.edu;hgsc.bcm.edu	37	chr1	22902833	22902833	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcccccgagacggcgccCggcgcgtctatgctgagatc	5	6	15	15	6	1	2	0	1	1	2	3	4	2	2	3	3	1	1	3	3	1	1	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	22902833	C	T	22902833	3	4	290	1	0	0	0	0	1	0	0	0	5173	643	23	1	293	1	EPHA8	1	22902833	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08		22902833	226347788	1	14661											
POGZ	23126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151380970	151380970	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtccattgaggaggtcagcgGtgctgcctcctgcaaggcgc	6	8	15	12	2	1	1	1	1	0	0	3	2	3	2	3	4	4	2	3	4	1	1	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	151380970	G	T	151380970	3	4	290	1	0	0	0	0	1	0	0	0	12186	1261	44	4	2107	4	POGZ	1	151380970	Missense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08	128478137	151380970	97869651	2	14662											
NT5C1B	93034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	18757590	18757590	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggagctgagtgtcacagtAagccatgtctttggctccat	9	11	11	10	1	2	1	1	1	1	0	3	2	3	2	2	2	2	3	2	2	1	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	18757590	A	G	18757590	3	3	290	1	0	0	0	0	1	0	0	0	10686	362	13	3	471	3	NT5C1B	2	18757590	Missense_Mutation	SNP	A	TCGA-BP-4970-01A-01D-1462-08		18757590	224441783	3	14663											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188321	10188321	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccaatatcacactgccagGtactgacgttttacttttta	10	15	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	5	7	rs5030814	bycluster;alternate_allele	TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	10188321	G	T	10188321	5	4	290	1	0	0	0	0	0	0	1	0	17161	1275	44	4	470	4	VHL	3	10188321	Splice_Site	SNP	G	TCGA-BP-4970-01A-01D-1462-08		10188321	187834109	4	14664											
ZBTB38	253461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141161609	141161609	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaccttactgatcgcaacTtctcaaattccccgggtccc	10	10	6	15	2	1	2	1	1	1	1	5	2	3	2	4	1	2	1	4	1	4	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		C	141161609	T	C	141161609	3	2	290	1	0	0	0	0	1	0	0	0	17538	1609	56	3	381	3	ZBTB38	3	141161609	Missense_Mutation	SNP	T	TCGA-BP-4970-01A-01D-1462-08	130973288	141161609	56860821	5	14665											
PROM1	8842	broad.mit.edu	37	chr4	16020105	16020105	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctaagctgtgtactttgttgGtgcaagctcttcaaggtgct	7	15	11	8	0	2	0	1	0	1	0	2	0	2	0	0	2	5	6	0	2	4	5	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	16020105	A	A	16020105	2	1	290	1	0	0	0	0	0	0	0	1	12557	1252	44	2		2	PROM1	4	16020105	Silent	SNP	G	TCGA-BP-4970-01A-01D-1462-08		16020105	175134171	6	14666											
PCDHA2	56146	broad.mit.edu;hgsc.bcm.edu	37	chr5	140176057	140176057	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgggtgggcgagcgcgCgttgtcgagctacgtttcgg	3	8	20	10	9	0	0	0	0	0	0	2	2	0	0	0	4	3	3	0	4	1	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	140176057	C	T	140176057	3	4	290	1	0	0	0	0	1	0	0	0	11524	768	27	1	1510	1	PCDHA2	5	140176057	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08		140176057	40739203	7	14667											
HSD17B8	7923	broad.mit.edu;hgsc.bcm.edu	37	chr6	33173664	33173664	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaacacccatgacacagaAagtgccacagaaagtggtgg	15	5	11	10	0	0	3	0	1	0	2	0	3	0	3	2	2	3	1	2	2	3	0	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	33173664	A	G	33173664	3	3	290	1	0	0	0	0	1	0	0	0	7389	14	1	3	648	3	HSD17B8	6	33173664	Missense_Mutation	SNP	A	TCGA-BP-4970-01A-01D-1462-08		33173664	137941403	8	14668											
COL19A1	1310	broad.mit.edu;ucsc.edu	37	chr6	70733567	70733567	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggctggccttaatggaGaaaatgtaagcctaactctt	11	12	9	9	0	2	1	0	0	2	1	2	2	2	1	2	3	2	2	2	3	5	4	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	70733567	T	T	70733567	4	4	290	1	0	0	0	0	0	1	0	0	3676	943	33	4	1117	4	COL19A1	6	70733567	Nonsense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08	37559903	70733567	100381500	9	14669											
EXOC4	60412	broad.mit.edu;ucsc.edu	37	chr7	133059626	133059626	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtttgacaagtttaatgCtgtagccgctgcacactctg	9	13	9	10	1	1	1	0	1	1	0	1	1	1	1	1	0	3	6	1	0	3	4	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	133059626	A	A	133059626	3	1	290	1	0	0	0	0	1	0	0	0	5306	797	28	4	1078	4	EXOC4	7	133059626	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08		133059626	26079037	10	14670											
UBE3C	9690	broad.mit.edu;hgsc.bcm.edu	37	chr7	156967613	156967613	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatgttttgctgtttcagAtatggctgtatcagaactta	9	19	8	5	0	2	2	2	0	0	2	2	2	2	2	0	1	2	5	0	1	5	8	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	156967613	A	G	156967613	3	3	290	1	0	0	0	0	1	0	0	0	16880	347	12	3	361	3	UBE3C	7	156967613	Missense_Mutation	SNP	A	TCGA-BP-4970-01A-01D-1462-08	23907987	156967613	2171050	11	14671											
PPP3CC	5533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22370886	22370886	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagaggattatggcaaTgagaagaccttggagcacta	13	8	11	9	0	1	3	1	1	0	3	1	6	1	5	2	3	1	2	2	3	4	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	22370886	T	G	22370886	3	3	290	1	0	0	0	0	1	0	0	0	12401	1461	51	5	733	5	PPP3CC	8	22370886	Missense_Mutation	SNP	T	TCGA-BP-4970-01A-01D-1462-08		22370886	123993136	12	14672											
C8orf84	0	hgsc.bcm.edu	37	chr8	74005131	74005131	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcagcagtccccggtgaAgcgacaggcttggtcgcaga	10	5	15	11	3	0	2	0	1	0	1	2	4	1	2	2	3	3	4	2	3	2	1	rs59331088	bycluster;by1000genomes	TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	74005131	A	G	74005131	3	3	290	1	0	0	0	0	1	0	0	0	2440	72	3	3	642	3	C8orf84	8	74005131	Missense_Mutation	SNP	A	TCGA-BP-4970-01A-01D-1462-08	51634245	74005131	72358891	13	14673											
MTDH	92140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	98703207	98703207	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggattgaatgaaaacctcaCtgtcaatggaggaggctgga	14	8	13	6	0	2	2	2	2	0	0	2	6	2	6	1	5	1	1	1	5	4	1	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	98703207	C	G	98703207	3	3	290	1	0	0	0	0	1	0	0	0	9917	565	20	4	861	4	MTDH	8	98703207	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08	24698076	98703207	47660815	14	14674											
CSTF2T	23283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	53458229	53458229	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcatgatgcatggggggacCctgatggggtggacccagat	8	7	18	8	0	0	3	0	2	0	1	0	5	0	5	2	7	1	2	2	7	0	0	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	53458229	C	T	53458229	3	4	290	1	0	0	0	0	1	0	0	0	3985	623	22	2	773	2	CSTF2T	10	53458229	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08		53458229	82076518	15	14675											
TRIM5	85363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5687233	5687233	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaacacttctagcattccTttcagatcaggagctcgaaa	13	11	6	11	1	3	1	2	0	1	1	5	3	4	2	1	1	3	2	1	1	4	5	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		C	5687233	T	C	5687233	2	2	290	1	0	0	0	0	0	0	0	1	16524	1606	56	3		3	TRIM5	11	5687233	Silent	SNP	T	TCGA-BP-4970-01A-01D-1462-08		5687233	129319283	16	14676											
SF3B2	10992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65822560	65822560	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccacagctccctggaattcCcatgccaccaccacctttgg	8	9	6	18	0	0	0	0	0	0	0	3	1	3	1	7	2	2	1	7	2	1	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	65822560	C	A	65822560	3	1	290	1	0	0	0	0	1	0	0	0	14153	623	22	4	286	4	SF3B2	11	65822560	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08	60135327	65822560	69183956	17	14677											
DDN	23109	broad.mit.edu	37	chr12	49390707	49390707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctctcattccgccaggagGcgcccggggcttctgtgtcg	3	10	13	15	4	2	0	1	0	2	0	6	1	4	1	4	4	0	1	4	4	0	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	49390707	A	A	49390707	3	1	290	1	0	0	0	0	1	0	0	0	4333	1203	42	2	187	2	DDN	12	49390707	Missense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08		49390707	84461188	18	14678											
PRKAG1	5571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49396983	49396983	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctcatgcaggtagcactTgagaacaccctcaaagtaat	14	9	8	10	0	2	1	2	1	1	1	3	2	2	1	1	1	3	4	1	1	4	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	49396983	T	G	49396983	3	3	290	1	0	0	0	0	1	0	0	0	12502	1821	63	5	171	5	PRKAG1	12	49396983	Missense_Mutation	SNP	T	TCGA-BP-4970-01A-01D-1462-08	6276	49396983	84454912	19	14679											
SOAT2	8435	hgsc.bcm.edu;ucsc.edu	37	chr12	53516966	53516966	+	Frame_Shift_Del	DEL	T	T	-																															ttcgtcctggggttcttctaTcccgtcatgctgatactctt																								novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		-	53516966	T	-	53516966	7	5	290	1	0	1	0	1	0	0	0	0	14913	1442	50	0	1388	0	SOAT2	12	53516966	Frame_Shift_Del	DEL	T	TCGA-BP-4970-01A-01D-1462-08	4119983	53516966	80334929	20	14680											
C13orf26	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	31526903	31526903	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatcacactctaaagaaGatttgatcaaaactgagact	18	9	7	7	0	3	4	2	2	1	3	3	6	3	5	0	1	1	0	0	1	6	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	31526903	G	T	31526903	3	4	290	1	0	0	0	0	1	0	0	0	1722	942	33	4	263	4	C13orf26	13	31526903	Missense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08		31526903	83642975	21	14681											
UGGT2	55757	hgsc.bcm.edu;ucsc.edu	37	chr13	96589247	96589247	+	Frame_Shift_Del	DEL	T	T	-																															agaacagccatttttagttcTttaatattcatctcttcatg																								novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		-	96589247	T	-	96589247	7	5	290	1	0	1	0	1	0	0	0	0	16941	1606	56	0	2734	0	UGGT2	13	96589247	Frame_Shift_Del	DEL	T	TCGA-BP-4970-01A-01D-1462-08	65062344	96589247	18580631	22	14682											
FSCB	84075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	44975908	44975908	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacatcagctgacttttcttCaggtaccacggtttcctcaa	10	13	6	12	1	4	1	3	1	1	0	5	1	5	1	2	2	3	3	2	2	3	5	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	44975908	C	T	44975908	3	4	290	1	0	0	0	0	1	0	0	0	6066	835	29	2	2198	2	FSCB	14	44975908	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08		44975908	62373632	23	14683											
TAF1C	9013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84215586	84215586	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcaccacttgccggacaGgtccctggagctggatgcgt	7	9	13	12	2	1	0	1	0	0	0	2	3	2	3	3	4	3	1	3	4	0	1	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	84215586	G	A	84215586	3	1	290	1	0	0	0	0	1	0	0	0	15520	1000	35	2	1837	2	TAF1C	16	84215586	Missense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08		84215586	6139167	24	14684											
C17orf66	256957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34182253	34182253	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctttgcaagtcgaaagtcTtgaatagttaactcttctgg	11	14	9	7	1	3	1	0	1	3	0	4	2	3	1	0	1	3	3	0	1	5	5	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		C	34182253	T	C	34182253	2	2	290	1	0	0	0	0	0	0	0	1	1874	1606	56	3		3	C17orf66	17	34182253	Silent	SNP	T	TCGA-BP-4970-01A-01D-1462-08		34182253	47012957	25	14685											
OSBPL7	114881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	45894652	45894652	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggataacaggggctgagggGattcggtgcagggactccag	9	6	19	7	1	0	1	0	1	0	0	2	4	1	4	1	7	2	2	1	7	1	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	45894652	G	A	45894652	2	1	290	1	0	0	0	0	0	0	0	1	11282	1164	41	2		2	OSBPL7	17	45894652	Silent	SNP	G	TCGA-BP-4970-01A-01D-1462-08	11712399	45894652	35300558	26	14686											
ACSF2	80221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48539834	48539834	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccctttgccggggacccTgctcctggatgaagtggtgg	4	10	15	12	1	0	1	0	1	0	0	1	3	1	3	5	5	3	1	5	5	1	1	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		C	48539834	T	C	48539834	3	2	290	1	0	0	0	0	1	0	0	0	175	1580	55	3	702	3	ACSF2	17	48539834	Missense_Mutation	SNP	T	TCGA-BP-4970-01A-01D-1462-08	2645182	48539834	32655376	27	14687											
MKS1	54903	broad.mit.edu;hgsc.bcm.edu	37	chr17	56283522	56283522	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcggcgccgggctcgaCggaaggcctctgtaaggaaa	9	5	16	11	5	1	0	0	0	1	0	2	3	1	2	2	5	1	3	2	5	3	1	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	56283522	C	T	56283522	3	4	290	1	0	0	0	0	1	0	0	0	9609	536	19	1	85	1	MKS1	17	56283522	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08	7743688	56283522	24911688	28	14688											
DNAH17	8632	hgsc.bcm.edu	37	chr17	76486812	76486813	+	Frame_Shift_Del	DEL	AG	AG	-																															caggtcggctgggttgatgtAgaggatgccggctctggaaa																								novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		-	76486813	AG	-	76486812	7	5	290	1	0	1	0	1	0	0	0	0	4601	420	15	0	6753	0	DNAH17	17	76486812	Frame_Shift_Del	DEL	AG	TCGA-BP-4970-01A-01D-1462-08	20203290	76486812	4708398	29	14689											
SHC2	25759	hgsc.bcm.edu	37	chr19	434718	434718	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagaggctgacctggtcgagGgccgtgagggcgcagggctg	6	5	20	10	3	0	3	0	2	0	1	1	4	0	3	2	5	0	3	2	5	0	0	rs61749991	bycluster;byfrequency;by1000genomes	TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	434718	G	A	434718	2	1	290	1	0	0	0	0	0	0	0	1	14273	1219	43	2		2	SHC2	19	434718	Silent	SNP	G	TCGA-BP-4970-01A-01D-1462-08		434718	58694265	30	14690											
B3GNT3	10331	broad.mit.edu	37	chr19	17918663	17918663	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caatgccaccctcattctggCcatcggcgctttcaccctcc	6	10	6	19	2	3	0	2	0	1	0	5	0	4	0	5	2	1	1	5	2	1	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	17918663	A	A	17918663	3	1	290	1	0	0	0	0	1	0	0	0	1258	739	26	4	49	4	B3GNT3	19	17918663	Missense_Mutation	SNP	C	TCGA-BP-4970-01A-01D-1462-08	17483945	17918663	41210320	31	14691											
DMKN	93099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36003526	36003526	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagtttggtggccctccaTtgcctccttgaccccaggga	7	10	10	14	0	0	1	0	1	0	0	2	2	2	2	6	3	1	1	6	3	1	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	36003526	T	G	36003526	3	3	290	1	0	0	0	0	1	0	0	0	4582	1493	52	5	1214	5	DMKN	19	36003526	Missense_Mutation	SNP	T	TCGA-BP-4970-01A-01D-1462-08	18084863	36003526	23125457	32	14692											
LILRA6	79168	hgsc.bcm.edu	37	chr19	54744772	54744772	+	Missense_Mutation	SNP	T	T	G																															aggagaggttgtgtgcaccaTagcacctgtactggcccccg																								rs77717986		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		G	54744772	T	G	54744772	3	3	290	1	0	0	0	0	1	0	0	0	8789	1406	49	5	571	5	LILRA6	19	54744772	Missense_Mutation	SNP	T	TCGA-BP-4970-01A-01D-1462-08	18741246	54744772	4384211	33	14693	196	2									
LILRA6	79168	hgsc.bcm.edu	37	chr19	54744777	54744777	+	Silent	SNP	C	C	T																															aggttgtgtgcaccatagcaCctgtactggcccccgtggga																								rs76127474		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	54744777	C	T	54744777	2	4	290	1	0	0	0	0	0	0	0	1	8789	506	18	2		2	LILRA6	19	54744777	Silent	SNP	C	TCGA-BP-4970-01A-01D-1462-08	5	54744777	4384206	34	14694	196	2									
TRIM28	10155	broad.mit.edu	37	chr19	59060112	59060112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctttgttcacagcccatGgaggtgcaggaaggctatgg	8	10	14	9	0	1	0	1	0	0	0	1	2	1	2	1	5	3	4	1	5	2	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		A	59060112	A	A	59060112	3	1	290	1	0	0	0	0	1	0	0	0	16501	1348	47	2	1367	2	TRIM28	19	59060112	Missense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08	4315335	59060112	68871	35	14695											
PIGU	128869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33225754	33225754	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggccacatctggggcataCtggtccagttctaggaggag	8	9	14	10	1	2	0	0	0	2	0	4	2	3	2	2	6	1	2	2	6	2	3	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	33225754	C	T	33225754	2	4	290	1	0	0	0	0	0	0	0	1	11900	564	20	2		2	PIGU	20	33225754	Silent	SNP	C	TCGA-BP-4970-01A-01D-1462-08		33225754	29799766	36	14696											
ACOT8	10005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44477168	44477168	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcatggagaactggtgctGcatggggctgggctgggcct	5	8	20	8	0	0	1	0	0	0	1	0	2	0	1	1	7	3	5	1	7	1	0	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	44477168	G	T	44477168	3	4	290	1	0	0	0	0	1	0	0	0	156	1328	46	4	566	4	ACOT8	20	44477168	Missense_Mutation	SNP	G	TCGA-BP-4970-01A-01D-1462-08	11251414	44477168	18548352	37	14697											
SLC12A5	57468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44669098	44669098	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaacaacatgcgtgtttaCggcacctgtgtgctcacctg	8	11	10	12	2	1	1	1	1	0	0	1	1	1	1	2	1	5	3	2	1	3	2	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	44669098	C	T	44669098	2	4	290	1	0	0	0	0	0	0	0	1	14388	547	19	1		1	SLC12A5	20	44669098	Silent	SNP	C	TCGA-BP-4970-01A-01D-1462-08	191930	44669098	18356422	38	14698											
INPP5J	27124	broad.mit.edu	37	chr22	31520974	31520974	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctctggcatctccccgAccaatcctggctccactgtg	5	10	9	17	1	2	0	0	0	2	0	5	1	4	0	5	3	0	3	5	3	1	0	novel		TCGA-BP-4970-01A-01D-1462-08	TCGA-BP-4970-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	205e81c6-235a-450f-b1f8-80c518eb3478	aeb90fcf-ea28-4119-a410-9e7ce8ddcbc9		T	31520974	T	T	31520974	2	4	290	1	0	0	0	0	0	0	0	1	7759	290	10	5		5	INPP5J	22	31520974	Silent	SNP	A	TCGA-BP-4970-01A-01D-1462-08		31520974	19783592	39	14699											
PDPN	10630	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	13936955	13936955	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaagcacagtccacgCgcaagaacaaagtccaagcg	16	4	9	12	3	1	2	1	0	0	2	3	2	3	2	2	0	3	2	2	0	5	1	rs189019995	by1000genomes	TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	13936955	C	T	13936955	3	4	291	1	0	0	0	0	1	0	0	0	11688	768	27	1	513	1	PDPN	1	13936955	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08		13936955	235313666	1	14700											
TNN	63923	broad.mit.edu;hgsc.bcm.edu	37	chr1	175046949	175046949	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtagtgcccagcgctgctGccagggagtcactggtgagc	6	8	16	11	1	1	1	1	1	0	0	1	2	1	2	2	2	5	3	2	2	1	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	175046949	G	A	175046949	3	1	291	1	0	0	0	0	1	0	0	0	16322	1319	46	2	397	2	TNN	1	175046949	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	161109994	175046949	74203672	2	14701											
CAMSAP1L1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200817766	200817766	+	Missense_Mutation	SNP	G	G	A																															gaagatattcctgaaactatGgacgaagattcttcgttgag																								novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	200817766	G	A	200817766	3	1	291	1	0	0	0	0	1	0	0	0	2612	1348	47	2	1911	2	CAMSAP1L1	1	200817766	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	25770817	200817766	48432855	3	14702	197	2									
CAMSAP1L1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200817767	200817767	+	Missense_Mutation	SNP	G	G	T																															aagatattcctgaaactatgGacgaagattcttcgttgaga																								novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	200817767	G	T	200817767	3	4	291	1	0	0	0	0	1	0	0	0	2612	1174	41	4	1912	4	CAMSAP1L1	1	200817767	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	1	200817767	48432854	4	14703	197	2									
GIGYF2	26058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	233677188	233677188	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggagcttcagccaacagcTtcacagcctacaggtaaaaa	14	7	9	11	0	2	0	2	0	0	0	2	1	2	1	2	2	6	3	2	2	5	4	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	233677188	T	C	233677188	2	2	291	1	0	0	0	0	0	0	0	1	6378	1596	56	3		3	GIGYF2	2	233677188	Silent	SNP	T	TCGA-BP-4971-01A-01D-1462-08		233677188	9522185	5	14704											
GBX2	2637	broad.mit.edu	37	chr2	237076138	237076138	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggagaaggcgagcagcgaGccctctttggccaggaagcc	9	4	16	12	3	1	1	0	0	1	1	1	5	1	2	3	4	4	1	3	4	2	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	237076138	A	A	237076138	2	1	291	1	0	0	0	0	0	0	0	1	6281	958	34	2		2	GBX2	2	237076138	Silent	SNP	G	TCGA-BP-4971-01A-01D-1462-08	3398950	237076138	6123235	6	14705											
IQSEC1	9922	broad.mit.edu	37	chr3	12949880	12949880	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcccgcagggagctgctGagggcgctgcgcttgaggcc	5	6	18	12	3	0	2	0	2	0	0	1	3	1	3	2	4	3	5	2	4	0	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	12949880	T	T	12949880	2	4	291	1	0	0	0	0	0	0	0	1	7817	1277	45	4		4	IQSEC1	3	12949880	Silent	SNP	G	TCGA-BP-4971-01A-01D-1462-08		12949880	185072550	7	14706											
KAT2B	8850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	20153265	20153265	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaaacgaactctaatcctCactcatttcccaaagtaagg	16	9	5	11	1	3	0	2	0	1	0	5	2	5	0	2	1	2	1	2	1	6	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	20153265	C	T	20153265	2	4	291	1	0	0	0	0	0	0	0	1	7982	813	29	2		2	KAT2B	3	20153265	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08	7203385	20153265	177869165	8	14707											
KBTBD8	84541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	67054477	67054477	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaaaatgatttctggatGtatgatcattccaccaatag	14	12	8	7	0	2	3	1	2	1	1	3	4	3	4	2	1	0	2	2	1	5	4	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	67054477	G	T	67054477	3	4	291	1	0	0	0	0	1	0	0	0	7999	1377	48	4	1096	4	KBTBD8	3	67054477	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	46901212	67054477	130967953	9	14708											
RPL22L1	200916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170584196	170584196	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgactctgattcatcttcAtcttgactaatctggaagta	10	15	6	10	1	6	2	2	2	4	0	7	4	7	3	1	1	0	1	1	1	3	5	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		G	170584196	A	G	170584196	2	3	291	1	0	0	0	0	0	0	0	1	13571	214	8	3		3	RPL22L1	3	170584196	Silent	SNP	A	TCGA-BP-4971-01A-01D-1462-08	103529719	170584196	27438234	10	14709											
ALB	213	hgsc.bcm.edu;ucsc.edu	37	chr4	74283260	74283260	+	Frame_Shift_Del	DEL	T	T	-																															tttttcaggctattagttcgTtacaccaagaaagtacccca																								novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		-	74283260	T	-	74283260	7	5	291	1	0	1	0	1	0	0	0	0	486	1712	60	0	1344	0	ALB	4	74283260	Frame_Shift_Del	DEL	T	TCGA-BP-4971-01A-01D-1462-08		74283260	116871016	11	14710											
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79369243	79369243	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaactgcttctgagcctcTggagaatgggagagttttag	10	11	13	7	0	2	3	0	1	2	2	2	5	2	3	1	2	3	3	1	2	3	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	79369243	T	C	79369243	3	2	291	1	0	0	0	0	1	0	0	0	6042	1580	55	3	6296	3	FRAS1	4	79369243	Missense_Mutation	SNP	T	TCGA-BP-4971-01A-01D-1462-08	5085983	79369243	111785033	12	14711											
TERT	7015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1282650	1282650	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	aaagaaagacctgagcagctCgacgacgtacacactcatca	16	5	8	12	3	2	3	2	1	0	2	3	5	2	3	1	0	3	3	1	0	3	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		G	1282650	C	G	1282650	3	3	291	1	0	0	0	0	1	0	0	0	15763	893	31	4	1791	4	TERT	5	1282650	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08		1282650	179632610	13	14712											
ANKH	56172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	14711323	14711323	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttattcattctcctctcTcatttccacgatgtctgtca	6	17	4	14	1	6	0	3	0	3	0	9	1	7	0	3	0	0	0	3	0	1	4	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	14711323	T	A	14711323	4	1	291	1	0	0	0	0	0	1	0	0	627	1559	54	5	20	5	ANKH	5	14711323	Nonsense_Mutation	SNP	T	TCGA-BP-4971-01A-01D-1462-08	13428673	14711323	166203937	14	14713											
POC5	134359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	74981284	74981284	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccaggaccatactcttcCtttttattatttgtggagtc	9	16	6	10	0	1	0	0	0	1	0	3	2	2	2	3	2	1	0	3	2	3	7	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	74981284	C	A	74981284	3	1	291	1	0	0	0	0	1	0	0	0	12177	680	24	4	584	4	POC5	5	74981284	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08	60269961	74981284	105933976	15	14714											
PCDHA5	56143	broad.mit.edu	37	chr5	140201665	140201665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggcggagggcggagtgcaGcatccacctggaggtgatcg	7	5	18	11	4	0	1	0	1	0	0	2	4	1	4	3	6	2	2	3	6	0	0	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	140201665	A	A	140201665	3	1	291	1	0	0	0	0	1	0	0	0	11527	971	34	2	307	2	PCDHA5	5	140201665	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	65220381	140201665	40713595	16	14715											
MUC21	394263	broad.mit.edu;hgsc.bcm.edu	37	chr6	30954884	30954884	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtccagtacgacctccagtgGggccaacacagccaccaact	11	5	9	16	1	0	0	0	0	0	0	2	1	2	0	6	2	4	1	6	2	3	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	30954884	G	C	30954884	3	2	291	1	0	0	0	0	1	0	0	0	9977	1232	43	4	938	4	MUC21	6	30954884	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08		30954884	140160183	17	14716											
VPS41	27072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	38857441	38857441	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccctccggtcacaaactgCttgcaactggatctcacgaa	10	10	7	14	2	2	0	2	0	1	0	5	2	4	1	2	2	4	2	2	2	3	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	38857441	C	A	38857441	3	1	291	1	0	0	0	0	1	0	0	0	17209	796	28	4	2230	4	VPS41	7	38857441	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08		38857441	120281222	18	14717											
TRRAP	8295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	98601971	98601971	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatttctcggcacagacaGctgaagtggaaattcctggg	11	9	12	9	1	1	2	0	1	1	1	3	3	2	3	1	3	1	3	1	3	3	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	98601971	G	C	98601971	3	2	291	1	0	0	0	0	1	0	0	0	16600	971	34	4	10597	4	TRRAP	7	98601971	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	59744530	98601971	60536692	19	14718											
DNAJC2	27000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	102960089	102960089	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcctttcctacttctttTgtgcatgatgtgagtgtttc	5	18	9	9	0	1	2	0	2	1	0	3	2	2	2	2	0	3	3	2	0	1	6	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	102960089	T	A	102960089	2	1	291	1	0	0	0	0	0	0	0	1	4639	1799	63	5		5	DNAJC2	7	102960089	Silent	SNP	T	TCGA-BP-4971-01A-01D-1462-08	4358118	102960089	56178574	20	14719											
KEL	3792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	142655413	142655413	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctcaataacttgtctgaggGgaccagtccctgcagcttca	9	10	9	13	0	3	1	2	1	1	0	4	2	4	2	3	2	3	2	3	2	2	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	142655413	G	A	142655413	3	1	291	1	0	0	0	0	1	0	0	0	8142	1232	43	2	1755	2	KEL	7	142655413	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	39695324	142655413	16483250	21	14720											
DPP6	1804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	154172047	154172047	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagataatagtctgtctcaaAagaagaaggtcactgtagaa	18	9	9	5	0	3	4	2	0	2	4	4	4	3	4	0	1	0	1	0	1	9	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	154172047	A	C	154172047	3	2	291	1	0	0	0	0	1	0	0	0	4730	15	1	5	508	5	DPP6	7	154172047	Missense_Mutation	SNP	A	TCGA-BP-4971-01A-01D-1462-08	11516634	154172047	4966616	22	14721											
WNK2	65268	broad.mit.edu;ucsc.edu	37	chr9	96002217	96002217	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccatagagttcaccttcGacctggagaaggagacgccg	11	6	13	11	3	1	3	1	0	0	3	2	7	1	3	4	2	1	1	4	2	2	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	96002217	T	T	96002217	3	4	291	1	0	0	0	0	1	0	0	0	17377	1058	37	4	1523	4	WNK2	9	96002217	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08		96002217	45211214	23	14722											
ANO3	63982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	26563538	26563538	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaaacccatggacctcaGaataacagacatctattata	18	10	4	9	0	2	2	1	0	1	2	2	3	2	3	2	1	2	0	2	1	7	5	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	26563538	G	T	26563538	3	4	291	1	0	0	0	0	1	0	0	0	698	933	33	4	1119	4	ANO3	11	26563538	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08		26563538	108442978	24	14723											
DPP3	10072	broad.mit.edu;hgsc.bcm.edu	37	chr11	66255471	66255471	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggctggcttctgtgctTggctcaggtgagcttagccc	3	12	15	11	1	2	1	1	1	1	0	2	1	2	1	1	4	4	5	1	4	1	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	66255471	T	A	66255471	2	1	291	1	0	0	0	0	0	0	0	1	4728	1799	63	5		5	DPP3	11	66255471	Silent	SNP	T	TCGA-BP-4971-01A-01D-1462-08	39691933	66255471	68751045	25	14724											
RSF1	51773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77378304	77378304	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttgttctgagggcaggacCctaggctggctgtcacgggc	5	10	15	11	1	3	1	1	1	2	0	3	2	3	2	1	5	0	4	1	5	1	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	77378304	C	T	77378304	2	4	291	1	0	0	0	0	0	0	0	1	13701	622	22	2		2	RSF1	11	77378304	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08	11122833	77378304	57628212	26	14725											
SYTL2	54843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	85416035	85416035	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgccaaatggacaggttcaAtttctgtgtctttaagattt	11	16	8	6	0	3	1	1	0	2	1	3	2	3	2	1	2	1	1	1	2	3	5	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	85416035	A	C	85416035	3	2	291	1	0	0	0	0	1	0	0	0	15482	98	4	5	684	5	SYTL2	11	85416035	Missense_Mutation	SNP	A	TCGA-BP-4971-01A-01D-1462-08	8037731	85416035	49590481	27	14726											
NOX4	50507	broad.mit.edu;hgsc.bcm.edu	37	chr11	89135577	89135577	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactctgccggttttgaaaAtccttcagggaaaggttcat	12	12	9	8	1	3	1	2	1	1	0	4	2	4	2	2	3	2	2	2	3	4	4	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	89135577	A	T	89135577	3	4	291	1	0	0	0	0	1	0	0	0	10558	101	4	5	1013	5	NOX4	11	89135577	Missense_Mutation	SNP	A	TCGA-BP-4971-01A-01D-1462-08	3719542	89135577	45870939	28	14727											
PZP	5858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9321469	9321469	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaattgctgttttacctccAtagtatccttgacctactgc	9	15	5	12	0	0	1	0	1	0	0	2	1	2	1	4	0	4	3	4	0	5	7	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		G	9321469	A	G	9321469	2	3	291	1	0	0	0	0	0	0	0	1	12871	224	8	3		3	PZP	12	9321469	Silent	SNP	A	TCGA-BP-4971-01A-01D-1462-08		9321469	124530426	29	14728											
KRT72	140807	hgsc.bcm.edu;ucsc.edu	37	chr12	52981581	52981581	+	Frame_Shift_Del	DEL	G	G	-																															cttggcccgggcatctttcaGggcgcagtccccccgctgtt																								novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		-	52981581	G	-	52981581	7	5	291	1	0	1	0	1	0	0	0	0	8485	991	35	0	403	0	KRT72	12	52981581	Frame_Shift_Del	DEL	G	TCGA-BP-4971-01A-01D-1462-08	43660112	52981581	80870314	30	14729											
NT5DC3	51559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104186991	104186991	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcctgaacaatgaccaCatcgaacaggtccctccagt	12	7	7	15	1	1	2	1	2	0	0	4	3	3	2	4	1	3	0	4	1	3	0	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	104186991	C	A	104186991	3	1	291	1	0	0	0	0	1	0	0	0	10692	478	17	4	700	4	NT5DC3	12	104186991	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08	51205410	104186991	29664904	31	14730											
TRAFD1	10906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112580008	112580008	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtctgcaaaatgaaggccaAgcctccagtgtggcagagca	13	6	12	10	0	1	2	0	1	1	1	2	2	2	2	3	2	3	3	3	2	4	0	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		G	112580008	A	G	112580008	2	3	291	1	0	0	0	0	0	0	0	1	16446	69	3	3		3	TRAFD1	12	112580008	Silent	SNP	A	TCGA-BP-4971-01A-01D-1462-08	8393017	112580008	21271887	32	14731											
OR4K15	81127	broad.mit.edu;ucsc.edu	37	chr14	20444219	20444219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtgggcttcatccatactaCcagccagttggcattcactg	8	12	9	12	0	2	0	2	0	0	0	3	0	3	0	3	2	3	3	3	2	2	5	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	20444219	T	T	20444219	3	4	291	1	0	0	0	0	1	0	0	0	11070	507	18	2	544	2	OR4K15	14	20444219	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08		20444219	86905321	33	14732											
SPG21	51324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65255989	65255989	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggctgatgccaaggCtgcctttctgcacctcaagc	6	10	9	16	0	2	1	1	1	1	0	3	1	3	1	5	2	4	3	5	2	2	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	65255989	C	A	65255989	3	1	291	1	0	0	0	0	1	0	0	0	15044	797	28	4	31	4	SPG21	15	65255989	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08		65255989	37275403	34	14733											
KIAA1609	57707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84516270	84516270	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtagcccgtgtgtgtgtaCacagccatgctggggcagat	7	11	14	9	1	0	1	0	0	0	1	0	1	0	1	2	2	4	4	2	2	2	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	84516270	C	T	84516270	2	4	291	1	0	0	0	0	0	0	0	1	8247	465	17	2		2	KIAA1609	16	84516270	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08		84516270	5838483	35	14734											
C17orf75	64149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30666861	30666861	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagatgcaacattacccagCccttcaaagactgcacctct	13	8	5	15	0	2	2	1	0	1	2	2	2	2	2	3	0	5	2	3	0	3	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	30666861	C	A	30666861	2	1	291	1	0	0	0	0	0	0	0	1	1880	726	26	4		4	C17orf75	17	30666861	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08		30666861	50528349	36	14735											
ZNF407	55628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72346684	72346684	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagggtgaaggaggaaacGcaggagacggtggaggtgtt	11	6	21	3	2	0	3	0	2	0	1	0	7	0	6	0	7	1	2	0	7	2	1	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	72346684	G	A	72346684	3	1	291	1	0	0	0	0	1	0	0	0	17886	1087	38	1	3711	1	ZNF407	18	72346684	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08		72346684	5730564	37	14736											
SALL3	27164	broad.mit.edu	37	chr18	76753526	76753526	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgagaagcccgtgaccacctGgctggacagcaagcccgtgc	9	4	13	15	3	0	2	0	1	0	1	0	4	0	3	4	2	4	2	4	2	2	0	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	76753526	A	A	76753526	4	1	291	1	0	0	0	0	0	1	0	0	13814	1357	47	2	1541	2	SALL3	18	76753526	Nonsense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	4406842	76753526	1323722	38	14737											
WDR18	57418	broad.mit.edu;ucsc.edu	37	chr19	990274	990274	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccaggcacgtctggtcTcaccacgcgctccccatcac	6	6	9	20	4	3	0	2	0	2	0	5	0	4	0	4	2	0	2	4	2	0	0	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	990274	A	A	990274	2	1	291	1	0	0	0	0	0	0	0	1	17277	1538	54	5		5	WDR18	19	990274	Silent	SNP	T	TCGA-BP-4971-01A-01D-1462-08		990274	58138709	39	14738											
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu	37	chr19	31768041	31768041	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcctcttctgggcgggCgtcgactcctcagcctcctc	2	11	9	19	3	3	0	1	0	2	0	8	1	6	0	5	2	1	0	5	2	0	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	31768041	C	T	31768041	2	4	291	1	0	0	0	0	0	0	0	1	16624	755	27	1		1	TSHZ3	19	31768041	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08	30777767	31768041	27360942	40	14739											
PRKD2	25865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47181735	47181735	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattgatgtcctcatcctcGttgaaagggaaggtgccgct	8	12	11	10	2	2	2	2	2	0	0	5	3	4	3	3	2	1	2	3	2	2	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		A	47181735	G	A	47181735	2	1	291	1	0	0	0	0	0	0	0	1	12521	1136	40	1		1	PRKD2	19	47181735	Silent	SNP	G	TCGA-BP-4971-01A-01D-1462-08	15413694	47181735	11947248	41	14740											
ZNF274	10782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58723904	58723904	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagaaaacgattgcgcaaaCgtgactcacaagttaaaagt	17	8	8	8	3	1	2	1	1	0	1	1	3	1	2	0	0	3	2	0	0	7	3	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	58723904	C	T	58723904	2	4	291	1	0	0	0	0	0	0	0	1	17808	536	19	1		1	ZNF274	19	58723904	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08	11542169	58723904	405079	42	14741											
TRMT6	51605	broad.mit.edu;ucsc.edu	37	chr20	5924213	5924213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaaatcttacctcccattCgttccatcattgcacccagc	10	13	3	15	1	2	0	1	0	1	0	5	0	4	0	4	0	3	2	4	0	3	5	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	5924213	T	T	5924213	3	4	291	1	0	0	0	0	1	0	0	0	16567	884	31	1	858	1	TRMT6	20	5924213	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08		5924213	57101307	43	14742											
ZNF337	26152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	25656758	25656758	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctggtgtctgaggagacttCctttcacgctaaaactttgc	8	14	9	10	1	3	2	1	1	2	1	4	3	4	2	1	2	2	1	1	2	2	4	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	25656758	C	T	25656758	3	4	291	1	0	0	0	0	1	0	0	0	17852	855	30	2	1093	2	ZNF337	20	25656758	Missense_Mutation	SNP	C	TCGA-BP-4971-01A-01D-1462-08	19732545	25656758	37368762	44	14743											
C20orf4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34843594	34843594	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccaagaagttccggtGggactttgctgcggaacctg	8	9	13	11	2	0	2	0	1	0	1	1	4	1	4	4	3	3	2	4	3	3	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	34843594	G	T	34843594	3	4	291	1	0	0	0	0	1	0	0	0	2111	1357	47	4	1092	4	C20orf4	20	34843594	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	9186836	34843594	28181926	45	14744											
SHANK3	85358	broad.mit.edu	37	chr22	51160606	51160606	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcccagcagcaccacGccgcctctgccgggctggcc	5	5	12	19	3	2	0	1	0	1	0	2	0	2	0	6	3	3	3	6	3	0	0	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	51160606	T	T	51160606	3	4	291	1	0	0	0	0	1	0	0	0	14268	1087	38	4	4479	4	SHANK3	22	51160606	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08		51160606	143960	46	14745											
ASMT	438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	1748789	1748789	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgggagaagcgtgctgacCgcctttgacctgtcagtgtt	8	10	13	10	3	1	3	1	2	0	1	1	4	1	3	3	1	3	2	3	1	2	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	1748789	C	T	1748789	2	4	291	1	0	0	0	0	0	0	0	1	1045	639	23	1		1	ASMT	23	1748789	Silent	SNP	C	TCGA-BP-4971-01A-01D-1462-08		1748789	153521771	47	14746											
MXRA5	25878	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	3228209	3228209	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtttgggggccctccaGatgcatgccattggggagcg	6	8	17	10	1	0	1	0	0	0	1	1	2	1	2	3	5	3	2	3	5	0	2	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		T	3228209	G	T	3228209	3	4	291	1	0	0	0	0	1	0	0	0	10003	933	33	4	455	4	MXRA5	23	3228209	Missense_Mutation	SNP	G	TCGA-BP-4971-01A-01D-1462-08	1479420	3228209	152042351	48	14747											
PTCHD1	139411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	23410647	23410647	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctttttctgccctcttaGgtcatggattatatgggact	6	17	10	8	0	4	0	1	0	3	0	4	2	4	2	1	4	1	0	1	4	3	5	novel		TCGA-BP-4971-01A-01D-1462-08	TCGA-BP-4971-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c07945e8-8133-4237-9d1f-18c023bc9d2c	9fa5413f-5599-45cd-9b1b-e425eab73870		C	23410647	G	C	23410647	5	2	291	1	0	0	0	0	0	0	1	0	12734	1014	35	4	1022	4	PTCHD1	23	23410647	Splice_Site	SNP	G	TCGA-BP-4971-01A-01D-1462-08	20182438	23410647	131859913	49	14748											
NPHP4	261734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	5934998	5934998	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgggggttcttaagcaCaaactcaaagaactcggcga	12	9	12	8	2	2	1	1	0	1	1	3	2	2	1	0	3	3	3	0	3	4	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	5934998	C	G	5934998	3	3	292	1	0	0	0	0	1	0	0	0	10581	478	17	4	1340	4	NPHP4	1	5934998	Missense_Mutation	SNP	C	TCGA-BP-4972-01A-01D-1462-08		5934998	243315623	1	14749											
SLC2A5	6518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	9118229	9118229	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtgctggggagttgacAgcagccacgttgtacccata	10	8	12	11	1	0	1	0	1	0	0	0	2	0	2	3	2	4	5	3	2	2	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	9118229	A	T	9118229	2	4	292	1	0	0	0	0	0	0	0	1	14550	175	7	5		5	SLC2A5	1	9118229	Silent	SNP	A	TCGA-BP-4972-01A-01D-1462-08	3183231	9118229	240132392	2	14750											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu	37	chr1	11190694	11190694	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggtggtggcagtggcGgccgtggtggcggcagtggt	3	8	23	7	3	0	0	0	0	0	0	0	0	0	0	1	9	0	3	1	9	0	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	11190694	G	A	11190694	2	1	292	1	0	0	0	0	0	0	0	1	9954	1103	39	1		1	MTOR	1	11190694	Silent	SNP	G	TCGA-BP-4972-01A-01D-1462-08	2072465	11190694	238059927	3	14751											
PTCHD2	57540	hgsc.bcm.edu	37	chr1	11589932	11589933	+	Frame_Shift_Ins	INS	-	-	A																															cggtgcggccactagtggatINSaccggggccatggtctttgt																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	11589933	-	A	11589932	7	5	292	1	0	1	1	0	0	0	0	0	12735	1403	49	0	3072	0	PTCHD2	1	11589932	Frame_Shift_Ins	INS	-	TCGA-BP-4972-01A-01D-1462-08	399238	11589932	237660689	4	14752											
EFNA1	1942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155104091	155104091	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaggagttcaaagaaggAcacagctactactacatctg	15	7	10	9	0	2	1	1	0	1	1	2	3	2	3	0	3	4	3	0	3	6	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	155104091	A	G	155104091	2	3	292	1	0	0	0	0	0	0	0	1	4950	262	10	3		3	EFNA1	1	155104091	Silent	SNP	A	TCGA-BP-4972-01A-01D-1462-08	143514159	155104091	94146530	5	14753											
B3GALT2	8707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	193150003	193150003	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttcatgcccattagtgtTttaatggtcaaattatagta	12	16	7	6	0	2	0	2	0	0	0	2	0	2	0	1	1	1	3	1	1	6	7	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	193150003	T	G	193150003	3	3	292	1	0	0	0	0	1	0	0	0	1248	1838	64	5	582	5	B3GALT2	1	193150003	Missense_Mutation	SNP	T	TCGA-BP-4972-01A-01D-1462-08	38045912	193150003	56100618	6	14754											
NFASC	23114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204971841	204971841	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccgggacaacgagggcaTcagcagtaccgtcatcacct	10	7	10	14	3	3	0	3	0	0	0	4	2	4	1	3	2	3	3	3	2	2	2	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	204971841	T	C	204971841	3	2	292	1	0	0	0	0	1	0	0	0	10359	1435	50	3	3765	3	NFASC	1	204971841	Missense_Mutation	SNP	T	TCGA-BP-4972-01A-01D-1462-08	11821838	204971841	44278780	7	14755											
MSH6	2956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48026389	48026389	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagtctcagaactttgatCttgtcatctgttacaaggtg	10	16	8	7	0	4	2	2	1	3	1	5	2	4	2	0	1	2	1	0	1	4	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	48026389	C	A	48026389	3	1	292	1	0	0	0	0	1	0	0	0	9874	913	32	4	1281	4	MSH6	2	48026389	Missense_Mutation	SNP	C	TCGA-BP-4972-01A-01D-1462-08		48026389	195172984	8	14756											
KCNJ3	3760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	155555495	155555495	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacaagccgctacctctcgGacctcttcaccacgctggtg	8	8	9	16	3	3	1	1	0	2	1	4	2	3	2	4	2	2	2	4	2	2	2	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	155555495	G	T	155555495	3	4	292	1	0	0	0	0	1	0	0	0	8052	1174	41	4	210	4	KCNJ3	2	155555495	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08	107529106	155555495	87643878	9	14757											
TTLL4	9654	hgsc.bcm.edu	37	chr2	219609933	219609934	+	Frame_Shift_Ins	INS	-	-	T																															aacgttccccctaccatctaINSttttggcactcgggatgaga																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	219609934	-	T	219609933	7	5	292	1	0	1	1	0	0	0	0	0	16728	449	16	0	1777	0	TTLL4	2	219609933	Frame_Shift_Ins	INS	-	TCGA-BP-4972-01A-01D-1462-08	64054438	219609933	23589440	10	14758											
DNAH1	25981	broad.mit.edu;ucsc.edu	37	chr3	52360871	52360871	+	Frame_Shift_Del	DEL	C	-	-																															ccccaaaccatcgaacagggCcatgacccaatcttccccat																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		-	52360871	-	-	52360871	7	5	292	1	0	1	0	1	0	0	0	0	4597	726	26	0	716	0	DNAH1	3	52360871	Frame_Shift_Del	DEL	C	TCGA-BP-4972-01A-01D-1462-08		52360871	145661559	11	14759											
ADAMTS9	56999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	64579996	64579996	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcatgtgtgttacactgctCacgatcgggaggtttatcaa	10	12	11	8	2	2	0	2	0	0	0	3	2	2	1	0	2	3	4	0	2	3	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	64579996	C	T	64579996	3	4	292	1	0	0	0	0	1	0	0	0	273	835	29	2	1561	2	ADAMTS9	3	64579996	Missense_Mutation	SNP	C	TCGA-BP-4972-01A-01D-1462-08	12219125	64579996	133442434	12	14760											
PPM1L	151742	hgsc.bcm.edu	37	chr3	160783277	160783277	+	Frame_Shift_Del	DEL	G	G	-																															gcggggtcctgtgtgacaaaGatgggaacgctattcctttg																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		-	160783277	G	-	160783277	7	5	292	1	0	1	0	1	0	0	0	0	12346	942	33	0	671	0	PPM1L	3	160783277	Frame_Shift_Del	DEL	G	TCGA-BP-4972-01A-01D-1462-08	96203281	160783277	37239153	13	14761											
UNC5C	8633	broad.mit.edu;hgsc.bcm.edu	37	chr4	96127874	96127874	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catagtgaggacgactgggcGggtgagcagagctcctgggg	8	6	19	8	2	0	3	0	2	0	1	1	5	1	4	1	5	2	2	1	5	1	1	rs139568380	byfrequency;alternate_allele	TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	96127874	G	T	96127874	3	4	292	1	0	0	0	0	1	0	0	0	16992	1116	39	4	1012	4	UNC5C	4	96127874	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		96127874	95026402	14	14762											
HPGD	3248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	175443219	175443219	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaatccaccagcgctacCtatagacaagaggagaggaa	15	6	9	11	1	0	3	0	0	0	3	2	5	2	4	4	2	2	1	4	2	6	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	175443219	C	A	175443219	5	1	292	1	0	0	0	0	0	0	1	0	7334	695	24	4	731	4	HPGD	4	175443219	Splice_Site	SNP	C	TCGA-BP-4972-01A-01D-1462-08	79315345	175443219	15711057	15	14763											
TERT	7015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1272327	1272327	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacgacggcatccctcagCgggctggtctcctgcaggtg	6	8	14	13	3	2	1	1	1	1	0	4	2	3	1	2	4	2	3	2	4	0	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	1272327	C	A	1272327	2	1	292	1	0	0	0	0	0	0	0	1	15763	755	27	4		4	TERT	5	1272327	Silent	SNP	C	TCGA-BP-4972-01A-01D-1462-08		1272327	179642933	16	14764											
C7	730	broad.mit.edu	37	chr5	40959677	40959677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatcctgcgttggagaaaCgacagaaagcacacaatgcg	15	5	12	9	3	0	3	0	0	0	3	1	6	1	3	1	1	4	2	1	1	3	1	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	40959677	T	T	40959677	3	4	292	1	0	0	0	0	1	0	0	0	2375	536	19	1	1662	1	C7	5	40959677	Missense_Mutation	SNP	C	TCGA-BP-4972-01A-01D-1462-08	39687350	40959677	139955583	17	14765											
PCDHA6	56142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140209867	140209867	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgccacccaccgagggcGcgtgcacggcggacaagccc	7	1	15	18	7	0	0	0	0	0	0	0	2	0	1	4	4	2	1	4	4	1	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	140209867	G	A	140209867	3	1	292	1	0	0	0	0	1	0	0	0	11528	1087	38	1	2193	1	PCDHA6	5	140209867	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08	99250190	140209867	40705393	18	14766											
C6orf114	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	13470345	13470345	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtttgaaaaaccgataaaTactgcagttggaaaatcctg	15	11	8	7	2	0	1	0	1	0	0	2	3	1	2	2	1	3	3	2	1	7	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	13470345	T	C	13470345	2	2	292	1	0	0	0	0	0	0	0	1	2321	1393	49	3		3	C6orf114	6	13470345	Silent	SNP	T	TCGA-BP-4972-01A-01D-1462-08		13470345	157644722	19	14767											
PACSIN1	29993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	34499375	34499375	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccttcctccgcgtctcAgtgttagcagctacgacaga	7	10	10	14	3	1	1	1	0	1	1	5	2	4	1	3	1	3	4	3	1	2	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	34499375	A	C	34499375	5	2	292	1	0	0	0	0	0	0	1	0	11374	202	7	5	1066	5	PACSIN1	6	34499375	Splice_Site	SNP	A	TCGA-BP-4972-01A-01D-1462-08	21029030	34499375	136615692	20	14768											
RIMS1	22999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	72974723	72974723	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctcccaagatgcctttAttacagagcagttctcactg	10	13	6	12	0	1	2	1	0	1	2	3	2	2	2	3	0	4	2	3	0	4	5	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	72974723	A	G	72974723	2	3	292	1	0	0	0	0	0	0	0	1	13369	446	16	3		3	RIMS1	6	72974723	Silent	SNP	A	TCGA-BP-4972-01A-01D-1462-08	38475348	72974723	98140344	21	14769											
NUP205	23165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135261060	135261060	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggccttaccagaggatTagtagctgttcttctgtact	7	15	9	10	0	2	1	0	0	2	1	3	2	3	2	3	2	3	4	3	2	4	6	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	135261060	T	C	135261060	3	2	292	1	0	0	0	0	1	0	0	0	10759	1764	61	3	400	3	NUP205	7	135261060	Missense_Mutation	SNP	T	TCGA-BP-4972-01A-01D-1462-08		135261060	23877603	22	14770											
USP17L2	377630	broad.mit.edu	37	chr8	11995803	11995803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catgggcatcttcctgcttgCctctatggaagccagcagcc	7	10	10	14	0	2	0	0	0	2	0	3	1	3	1	4	2	5	3	4	2	2	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	11995803	T	T	11995803	3	4	292	1	0	0	0	0	1	0	0	0	17047	739	26	2	1129	2	USP17L2	8	11995803	Missense_Mutation	SNP	C	TCGA-BP-4972-01A-01D-1462-08		11995803	134368219	23	14771											
CIZ1	25792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130938657	130938657	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtctccaggacgtcccggGgcacgggcagcagggacagg	7	4	17	13	3	1	0	0	0	1	0	3	2	2	2	2	6	1	3	2	6	0	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	130938657	G	A	130938657	3	1	292	1	0	0	0	0	1	0	0	0	3441	1232	43	2	808	2	CIZ1	9	130938657	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		130938657	10274774	24	14772											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61830323	61830323	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatatctttcttaatttccAtggcttgaattgggagttta	10	18	8	5	0	2	2	0	1	2	1	3	3	3	3	1	2	0	2	1	2	4	8	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	61830323	A	G	61830323	3	3	292	1	0	0	0	0	1	0	0	0	622	217	8	3	3158	3	ANK3	10	61830323	Missense_Mutation	SNP	A	TCGA-BP-4972-01A-01D-1462-08		61830323	73704424	25	14773											
RRP12	23223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99116876	99116876	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcgacgatcctttctgcggTttttgtgtcccacctgggaa	5	14	11	11	3	1	0	0	0	1	0	4	3	3	1	3	2	1	1	3	2	1	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	99116876	T	C	99116876	3	2	292	1	0	0	0	0	1	0	0	0	13688	1725	60	3	28	3	RRP12	10	99116876	Missense_Mutation	SNP	T	TCGA-BP-4972-01A-01D-1462-08	37286553	99116876	36417871	26	14774											
TCERG1L	256536	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	132965070	132965070	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaaactgaccttgtcttctTtgtctccatcccggctcttc	5	15	6	15	2	4	1	0	1	4	0	7	2	5	1	3	1	1	1	3	1	1	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	132965070	T	A	132965070	3	1	292	1	0	0	0	0	1	0	0	0	15685	1841	64	5	857	5	TCERG1L	10	132965070	Missense_Mutation	SNP	T	TCGA-BP-4972-01A-01D-1462-08	33848194	132965070	2569677	27	14775											
PLEKHA7	144100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	16838611	16838611	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcgctgtggggctgccGtgccggaactgctggcgctg	3	8	19	11	4	0	0	0	0	0	0	0	1	0	1	2	5	4	4	2	5	1	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	16838611	G	A	16838611	2	1	292	1	0	0	0	0	0	0	0	1	12061	1136	40	1		1	PLEKHA7	11	16838611	Silent	SNP	G	TCGA-BP-4972-01A-01D-1462-08		16838611	118167905	28	14776											
TULP3	7289	hgsc.bcm.edu;ucsc.edu	37	chr12	3031528	3031528	+	Frame_Shift_Del	DEL	T	T	-																															gctgaaaacaccgtggatacTgcttccaagccaggacttca																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		-	3031528	T	-	3031528	7	5	292	1	0	1	0	1	0	0	0	0	16774	1567	55	0	368	0	TULP3	12	3031528	Frame_Shift_Del	DEL	T	TCGA-BP-4972-01A-01D-1462-08		3031528	130820367	29	14777											
PTPRB	5787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	70965011	70965011	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccattagctcctgaccaagtCacatgcaagtcctcagtgct	10	10	7	14	0	2	1	2	1	0	0	4	1	4	1	4	0	3	3	4	0	3	1	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	70965011	C	T	70965011	2	4	292	1	0	0	0	0	0	0	0	1	12798	813	29	2		2	PTPRB	12	70965011	Silent	SNP	C	TCGA-BP-4972-01A-01D-1462-08	67933483	70965011	62886884	30	14778											
WASF3	10810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	27246116	27246116	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacaaaaggaaagagaaaaGgcgtcaaaaggtaaataatt	23	5	10	3	1	1	2	1	0	0	2	1	4	1	3	0	3	0	1	0	3	10	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	27246116	G	T	27246116	3	4	292	1	0	0	0	0	1	0	0	0	17253	1000	35	4	544	4	WASF3	13	27246116	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		27246116	87923762	31	14779											
SLITRK6	84189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	86370342	86370342	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcacctatctcaatatctGcaatattgttaaatccaagg	14	13	5	9	0	2	0	1	0	2	0	4	0	3	0	2	1	2	3	2	1	8	5	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	86370342	G	A	86370342	3	1	292	1	0	0	0	0	1	0	0	0	14749	1319	46	2	2227	2	SLITRK6	13	86370342	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08	59124226	86370342	28799536	32	14780											
C14orf159	80017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	91636352	91636352	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccttatgtccccaggatggGccatccccagttctggaaat	8	10	9	14	0	1	0	0	0	1	0	3	2	3	2	6	3	0	1	6	3	2	2	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	91636352	G	T	91636352	3	4	292	1	0	0	0	0	1	0	0	0	1755	1203	42	4	273	4	C14orf159	14	91636352	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		91636352	15713188	33	14781											
TGM5	9333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43552389	43552389	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcacaagctcacctctgtGgaggtggccccattggtctc	6	9	12	14	1	3	0	1	0	2	0	4	1	3	1	3	4	1	2	3	4	1	1	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	43552389	G	A	43552389	2	1	292	1	0	0	0	0	0	0	0	1	15832	1335	47	2		2	TGM5	15	43552389	Silent	SNP	G	TCGA-BP-4972-01A-01D-1462-08		43552389	58979003	34	14782											
LRRK1	79705	broad.mit.edu;hgsc.bcm.edu	37	chr15	101528945	101528945	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacgcacggggctgacccGgagagctacgctgtcaggaa	9	5	15	12	4	1	3	1	2	0	1	1	5	1	4	1	4	2	4	1	4	2	1	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	101528945	G	A	101528945	2	1	292	1	0	0	0	0	0	0	0	1	9032	1103	39	1		1	LRRK1	15	101528945	Silent	SNP	G	TCGA-BP-4972-01A-01D-1462-08	57976556	101528945	1002447	35	14783											
SALL1	6299	hgsc.bcm.edu;ucsc.edu	37	chr16	51175662	51175662	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccgccgccgccgctgctGctgctgctgctgctgctgct	0	10	13	18	4	0	0	0	0	0	0	0	0	0	0	4	0	9	9	4	0	0	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	51175662	G	C	51175662	3	2	292	1	0	0	0	0	1	0	0	0	13812	1310	46	4	3511	4	SALL1	16	51175662	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		51175662	39179091	36	14784											
THAP11	57215	hgsc.bcm.edu	37	chr16	67876820	67876820	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaacagcagcagcagcaGcaacagcagcagcagcagca	16	0	11	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	11	0	0	2	0	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	67876820	G	A	67876820	2	1	292	1	0	0	0	0	0	0	0	1	15842	962	34	2		2	THAP11	16	67876820	Silent	SNP	G	TCGA-BP-4972-01A-01D-1462-08	16701158	67876820	22477933	37	14785											
CACNB1	782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37341384	37341384	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaagctgtgatactcacCgacttctgcttctgtttggc	8	13	9	11	1	3	2	1	1	2	1	3	3	3	2	1	1	3	3	1	1	2	4	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	37341384	C	T	37341384	2	4	292	1	0	0	0	0	0	0	0	1	2552	666	23	1		1	CACNB1	17	37341384	Silent	SNP	C	TCGA-BP-4972-01A-01D-1462-08		37341384	43853826	38	14786											
HGS	9146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79667601	79667601	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagccccgcttactcatccTaccagcctactcccacagcg	8	7	5	21	2	1	0	1	0	0	0	3	0	3	0	7	0	6	1	7	0	3	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	79667601	T	C	79667601	3	2	292	1	0	0	0	0	1	0	0	0	7087	1522	53	3	2061	3	HGS	17	79667601	Missense_Mutation	SNP	T	TCGA-BP-4972-01A-01D-1462-08	42326217	79667601	1527609	39	14787											
ACP5	54	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11687390	11687390	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagtgcaggcggtagaaagGgctggggaagttcctgtgga	10	7	19	5	1	0	1	0	0	0	1	1	4	1	3	1	6	1	4	1	6	4	2	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	11687390	G	A	11687390	3	1	292	1	0	0	0	0	1	0	0	0	164	1232	43	2	582	2	ACP5	19	11687390	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		11687390	47441593	40	14788											
ZNF714	148206	hgsc.bcm.edu	37	chr19	21300833	21300835	+	In_Frame_Del	DEL	GAA	GAA	-																															gagagaaaccctacaaatgtGaagaatgtggcaaagctttc																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		-	21300835	GAA	-	21300833	7	5	292	1	0	1	0	1	0	0	0	0	18117	1291	45	0	1373	0	ZNF714	19	21300833	In_Frame_Del	DEL	GAA	TCGA-BP-4972-01A-01D-1462-08	9613443	21300833	37828150	41	14789											
C22orf9	0	broad.mit.edu	37	chr22	45601765	45601765	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggagtcccgccggtacAcctccacctccacctcaggc	6	8	8	19	2	2	0	1	0	1	0	5	1	5	1	7	3	1	1	7	3	1	2	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		C	45601765	C	C	45601765	3	2	292	1	0	0	0	0	1	0	0	0	2151	159	6	5	1001	5	C22orf9	22	45601765	Missense_Mutation	SNP	A	TCGA-BP-4972-01A-01D-1462-08		45601765	5702801	42	14790											
GPRASP1	9737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101910199	101910199	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatggggactggggctagcaGtaaatccagaccaaggactg	12	7	14	8	0	0	1	0	0	0	1	1	3	1	3	2	5	1	3	2	5	5	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	101910199	G	T	101910199	3	4	292	1	0	0	0	0	1	0	0	0	6722	1029	36	4	1360	4	GPRASP1	23	101910199	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08		101910199	53360361	43	14791											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107868987	107868987	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcttataggacctccTggacttaaaggaaccatcgg	11	9	10	11	1	1	0	0	0	1	0	3	3	2	3	4	5	1	0	4	5	5	3	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	107868987	T	G	107868987	2	3	292	1	0	0	0	0	0	0	0	1	3694	1567	55	5		5	COL4A5	23	107868987	Silent	SNP	T	TCGA-BP-4972-01A-01D-1462-08	5958788	107868987	47401573	44	14792											
LRCH2	57631	broad.mit.edu;hgsc.bcm.edu	37	chrX	114398272	114398272	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgctgcaataactgagcaGctattttcctcaaatcagtt	11	14	6	10	0	2	1	2	1	0	0	3	1	3	1	1	0	5	5	1	0	4	6	novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		T	114398272	G	T	114398272	3	4	292	1	0	0	0	0	1	0	0	0	8933	971	34	4	911	4	LRCH2	23	114398272	Missense_Mutation	SNP	G	TCGA-BP-4972-01A-01D-1462-08	6529285	114398272	40872288	45	14793											
SLC6A14	11254	hgsc.bcm.edu	37	chrX	115572174	115572175	+	Frame_Shift_Ins	INS	-	-	G																															caattatgttagcattggctINSggtttacctttgttctttct																								novel		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		G	115572175	-	G	115572174	7	5	292	1	0	1	1	0	0	0	0	0	14679	1567	55	0	265	0	SLC6A14	23	115572174	Frame_Shift_Ins	INS	-	TCGA-BP-4972-01A-01D-1462-08	1173902	115572174	39698386	46	14794											
AIFM1	9131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129265759	129265759	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagcttcatagccaacatcGgggcccaaatcactcctaag	13	8	7	13	1	2	0	2	0	0	0	4	0	3	0	3	2	3	1	3	2	5	4	rs146608893		TCGA-BP-4972-01A-01D-1462-08	TCGA-BP-4972-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b2da5d39-33f6-4807-9d1d-92b7cef2a8df	81fc4193-ce13-4390-b0ad-1c40656c0841		A	129265759	G	A	129265759	2	1	292	1	0	0	0	0	0	0	0	1	426	1103	39	1		1	AIFM1	23	129265759	Silent	SNP	G	TCGA-BP-4972-01A-01D-1462-08	13693585	129265759	26004801	47	14795											
CDK11B	984	hgsc.bcm.edu	37	chr1	1571829	1571829	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggccagattttctcactAggggtccccagatcctgaaa	9	9	10	13	1	1	3	1	1	1	2	4	3	3	3	5	3	0	0	5	3	2	3	rs147836863		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	1571829	A	G	1571829	2	3	293	1	0	0	0	0	0	0	0	1	3127	407	15	3		3	CDK11B	1	1571829	Silent	SNP	A	TCGA-BP-4973-01A-01D-1462-08		1571829	247678792	1	14796											
COL8A2	1296	broad.mit.edu;hgsc.bcm.edu	37	chr1	36564618	36564618	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggggggccgggggcaccccCctgccctggggccccaggca	3	2	19	17	1	0	0	0	0	0	0	0	0	0	0	7	8	1	2	7	8	0	0	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	36564618	C	A	36564618	3	1	293	1	0	0	0	0	1	0	0	0	3706	623	22	4	1451	4	COL8A2	1	36564618	Missense_Mutation	SNP	C	TCGA-BP-4973-01A-01D-1462-08	34992789	36564618	212686003	2	14797											
ARHGAP29	9411	broad.mit.edu;ucsc.edu	37	chr1	94649704	94649707	+	Splice_Site	DEL	TACC	-	-																															gtttcaagggtaaaaattttTacctgccgaaggtataattt																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	TACC	TACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		-	94649707	-	-	94649704	8	5	293	1	0	1	0	1	0	0	1	0	878	1769	61	0		0	ARHGAP29	1	94649704	Splice_Site	DEL	TACC	TCGA-BP-4973-01A-01D-1462-08	58085086	94649704	154600917	3	14798											
NUP210L	91181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154042867	154042867	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctagcattagtgaactgaaAttatcaaactttctcctatg	13	15	5	8	0	3	2	1	2	2	0	4	2	3	2	1	0	3	1	1	0	7	5	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		C	154042867	A	C	154042867	3	2	293	1	0	0	0	0	1	0	0	0	10761	98	4	5	3326	5	NUP210L	1	154042867	Missense_Mutation	SNP	A	TCGA-BP-4973-01A-01D-1462-08	59393163	154042867	95207754	4	14799											
URB2	9816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	229773797	229773797	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaaggaagcgacaggaCgctgctctcccatgttgccc	8	8	10	15	2	1	0	0	0	1	0	3	3	2	2	3	2	3	3	3	2	2	2	rs141779194		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	229773797	C	T	229773797	3	4	293	1	0	0	0	0	1	0	0	0	17024	536	19	1	3447	1	URB2	1	229773797	Missense_Mutation	SNP	C	TCGA-BP-4973-01A-01D-1462-08	75730930	229773797	19476824	5	14800											
CNNM3	26505	broad.mit.edu	37	chr2	97493923	97493923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagtgtcggccctaactgtgCcatcctcgggtaagccacgg	7	8	13	13	3	0	0	0	0	0	0	3	1	1	0	4	3	3	1	4	3	2	2	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	97493923	T	T	97493923	3	4	293	1	0	0	0	0	1	0	0	0	3614	739	26	2	1795	2	CNNM3	2	97493923	Missense_Mutation	SNP	C	TCGA-BP-4973-01A-01D-1462-08		97493923	145705450	6	14801											
VHL	7428	hgsc.bcm.edu	37	chr3	10183744	10183744	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgaactcgcgcgagccCtcccaggtcatcttctgcaa	7	9	10	15	4	3	1	1	1	2	0	6	2	4	1	2	2	3	1	2	2	2	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	10183744	C	T	10183744	2	4	293	1	0	0	0	0	0	0	0	1	17161	668	24	2		2	VHL	3	10183744	Silent	SNP	C	TCGA-BP-4973-01A-01D-1462-08		10183744	187838686	7	14802											
CTNNB1	1499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	41275110	41275110	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcagctggaattctttctAacctcacttgcaataattat	11	15	6	9	0	3	0	1	0	2	0	3	1	3	1	1	1	4	3	1	1	5	6	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	41275110	A	G	41275110	3	3	293	1	0	0	0	0	1	0	0	0	4016	362	13	3	1306	3	CTNNB1	3	41275110	Missense_Mutation	SNP	A	TCGA-BP-4973-01A-01D-1462-08	31091366	41275110	156747320	8	14803											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643770	52643770	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggccatcatgtgacttcgaAttttttccatgtccatgggc	7	15	9	10	1	1	1	1	1	0	0	4	2	3	1	3	2	0	0	3	2	1	4	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	52643770	A	G	52643770	3	3	293	1	0	0	0	0	1	0	0	0	11491	101	4	3	2834	3	PBRM1	3	52643770	Missense_Mutation	SNP	A	TCGA-BP-4973-01A-01D-1462-08	11368660	52643770	145378660	9	14804											
NPHP3	27031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132418875	132418875	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagcaggatccagtgtcaGagcagagactgaccaagagt	13	7	12	9	0	1	4	1	1	0	3	2	6	2	5	2	1	2	2	2	1	2	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	132418875	G	T	132418875	3	4	293	1	0	0	0	0	1	0	0	0	10580	933	33	4	2282	4	NPHP3	3	132418875	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08	79775105	132418875	65603555	10	14805											
RBPJ	3516	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	26426100	26426100	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagccttttttattcatctCtgtgagtataaaagtgtgca	10	16	9	6	0	2	1	1	1	1	0	3	2	2	2	1	1	2	2	1	1	4	6	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	26426100	C	T	26426100	2	4	293	1	0	0	0	0	0	0	0	1	13163	927	32	2		2	RBPJ	4	26426100	Silent	SNP	C	TCGA-BP-4973-01A-01D-1462-08		26426100	164728176	11	14806											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89979836	89979836	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttccacctaatttagcgaGagcaactcaaggaagagact	14	10	8	9	1	1	2	1	0	0	2	2	5	2	3	2	1	3	1	2	1	5	5	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		C	89979836	G	C	89979836	3	2	293	1	0	0	0	0	1	0	0	0	6721	942	33	4	6208	4	GPR98	5	89979836	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08		89979836	90935424	12	14807											
PCDHB15	56121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140625223	140625223	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactggaagtgactctggCaggctgggaaccccgtcgct	7	10	13	11	2	1	1	0	1	1	0	2	3	1	3	2	4	2	3	2	4	3	2	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	140625223	C	T	140625223	3	4	293	1	0	0	0	0	1	0	0	0	11540	710	25	2	79	2	PCDHB15	5	140625223	Missense_Mutation	SNP	C	TCGA-BP-4973-01A-01D-1462-08	50645387	140625223	40290037	13	14808											
ATP10B	23120	broad.mit.edu;ucsc.edu	37	chr5	160061395	160061395	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatactcgctgcccatgatGgtgcaacgtcggaacaccat	11	8	10	12	3	0	1	0	1	0	0	2	3	0	2	2	2	5	2	2	2	4	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	160061395	A	A	160061395	2	1	293	1	0	0	0	0	0	0	0	1	1117	1335	47	2		2	ATP10B	5	160061395	Silent	SNP	G	TCGA-BP-4973-01A-01D-1462-08	19436172	160061395	20853865	14	14809											
SLIT3	6586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	168098202	168098202	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggctcctgggacactgaCctgtggccgaggcaggggtc	6	6	17	12	1	0	1	0	1	0	0	2	3	1	2	3	6	0	2	3	6	0	0	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	168098202	C	G	168098202	5	3	293	1	0	0	0	0	0	0	1	0	14743	521	18	4	455	4	SLIT3	5	168098202	Splice_Site	SNP	C	TCGA-BP-4973-01A-01D-1462-08	8036807	168098202	12817058	15	14810											
DOCK2	1794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	169477270	169477270	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctgcagaacaaagtgtTcatctaccgcgggaaggaat	12	10	10	9	2	3	1	1	0	2	1	4	3	3	3	1	2	3	2	1	2	5	3	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	169477270	T	A	169477270	3	1	293	1	0	0	0	0	1	0	0	0	4687	1783	62	5	4244	5	DOCK2	5	169477270	Missense_Mutation	SNP	T	TCGA-BP-4973-01A-01D-1462-08	1379068	169477270	11437990	16	14811											
NEDD9	4739	hgsc.bcm.edu;ucsc.edu	37	chr6	11185683	11185684	+	Frame_Shift_Ins	INS	-	-	G																															tgtgtgccacgaagattcgcINSgggggctgggctgagctgac																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	11185684	-	G	11185683	7	5	293	1	0	1	1	0	0	0	0	0	10313	755	27	0	291	0	NEDD9	6	11185683	Frame_Shift_Ins	INS	-	TCGA-BP-4973-01A-01D-1462-08		11185683	159929384	17	14812											
HSP90AB1	3326	hgsc.bcm.edu;ucsc.edu	37	chr6	44219502	44219503	+	Frame_Shift_Ins	INS	-	-	C																															cacgaagactccactaaccgINSccgccgcctgtctgagctgc																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		C	44219503	-	C	44219502	7	5	293	1	0	1	1	0	0	0	0	0	7402	1087	38	0	1373	0	HSP90AB1	6	44219502	Frame_Shift_Ins	INS	-	TCGA-BP-4973-01A-01D-1462-08	33033819	44219502	126895565	18	14813											
TINAG	27283	hgsc.bcm.edu;ucsc.edu	37	chr6	54173613	54173614	+	Frame_Shift_Del	DEL	AG	AG	-																															actgtgataaattctgtgacAgagaaaattctgattgctgt																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		-	54173614	AG	-	54173613	7	5	293	1	0	1	0	1	0	0	0	0	15920	180	7	0	267	0	TINAG	6	54173613	Frame_Shift_Del	DEL	AG	TCGA-BP-4973-01A-01D-1462-08	9954111	54173613	116941454	19	14814											
FLNC	2318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	128484237	128484237	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccggaggaggggccctacAaggtggatatcacctacgat	10	6	13	12	2	1	0	1	0	0	0	1	4	1	3	4	6	2	0	4	6	4	3	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	128484237	A	G	128484237	3	3	293	1	0	0	0	0	1	0	0	0	5935	131	5	3	3187	3	FLNC	7	128484237	Missense_Mutation	SNP	A	TCGA-BP-4973-01A-01D-1462-08		128484237	30654426	20	14815											
PABPC1	26986	hgsc.bcm.edu	37	chr8	101725327	101725327	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacttactttctgtgcatcTtcatgcctttcaaagcttac	8	16	4	13	0	4	0	2	0	2	0	4	0	4	0	2	0	5	2	2	0	3	5	rs62513927		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		C	101725327	T	C	101725327	2	2	293	1	0	0	0	0	0	0	0	1	11363	1606	56	3		3	PABPC1	8	101725327	Silent	SNP	T	TCGA-BP-4973-01A-01D-1462-08		101725327	44638695	21	14816											
TNC	3371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117825304	117825304	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgggatttccatggaacGcaggctgccaggaaccgtga	9	7	14	11	2	0	1	0	1	0	0	1	4	1	4	4	4	3	2	4	4	2	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	117825304	G	A	117825304	3	1	293	1	0	0	0	0	1	0	0	0	16269	1087	38	1	2744	1	TNC	9	117825304	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08		117825304	23388127	22	14817											
PNLIP	5406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118321017	118321017	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatagtactcattccaaTgaatttgactcagatgtgga	13	12	8	8	0	2	4	2	2	0	2	3	5	3	5	2	1	1	1	2	1	4	4	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	118321017	T	A	118321017	3	1	293	1	0	0	0	0	1	0	0	0	12149	1461	51	5	1245	5	PNLIP	10	118321017	Missense_Mutation	SNP	T	TCGA-BP-4973-01A-01D-1462-08		118321017	17213730	23	14818											
PTPRJ	5795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	48166268	48166268	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgaaatacacgtatgagGatttcaaaaagggagcctca	15	9	9	8	1	2	2	2	2	0	0	3	4	3	4	2	2	2	1	2	2	5	3	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	48166268	G	T	48166268	3	4	293	1	0	0	0	0	1	0	0	0	12806	1174	41	4	2676	4	PTPRJ	11	48166268	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08		48166268	86840248	24	14819											
HNRNPUL2	221092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62489317	62489317	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgattgagcacagtctcaGctcccaggacattgtatctt	9	14	8	10	0	2	2	1	2	2	0	4	3	3	3	1	1	2	3	1	1	1	5	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	62489317	G	T	62489317	3	4	293	1	0	0	0	0	1	0	0	0	7275	971	34	4	814	4	HNRNPUL2	11	62489317	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08	14323049	62489317	72517199	25	14820											
NBEA	26960	broad.mit.edu;hgsc.bcm.edu	37	chr13	36220480	36220480	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctcggagctctgccatgCacctggtaagacatatcagc	9	8	10	14	2	2	1	1	0	1	1	3	2	2	2	3	2	4	3	3	2	2	2	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	36220480	C	T	36220480	3	4	293	1	0	0	0	0	1	0	0	0	10187	710	25	2	7900	2	NBEA	13	36220480	Missense_Mutation	SNP	C	TCGA-BP-4973-01A-01D-1462-08		36220480	78949398	26	14821											
CYFIP1	23191	hgsc.bcm.edu;ucsc.edu	37	chr15	22928433	22928434	+	Frame_Shift_Del	DEL	AG	AG	-																															aatgtaacgagcagcctaacAgagtggaaatctacgagaaa																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		-	22928434	AG	-	22928433	7	5	293	1	0	1	0	1	0	0	0	0	4137	180	7	0	324	0	CYFIP1	15	22928433	Frame_Shift_Del	DEL	AG	TCGA-BP-4973-01A-01D-1462-08		22928433	79602959	27	14822											
SEMA6D	80031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48053615	48053615	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgcattcaatcccatgtGtagatactacagggtaagta	14	11	8	8	0	1	1	1	0	0	1	2	1	2	1	1	1	3	4	1	1	7	6	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	48053615	G	T	48053615	3	4	293	1	0	0	0	0	1	0	0	0	14044	1377	48	4	452	4	SEMA6D	15	48053615	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08	25125182	48053615	54477777	28	14823											
KIAA0556	23247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27715251	27715251	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaaagtcctccaggccGtcgaaagtgactctgcccat	9	10	9	13	2	2	2	0	2	2	0	5	3	4	2	4	1	1	0	4	1	2	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		T	27715251	G	T	27715251	3	4	293	1	0	0	0	0	1	0	0	0	8183	1145	40	4	1367	4	KIAA0556	16	27715251	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08		27715251	62639502	29	14824											
ATMIN	23300	hgsc.bcm.edu	37	chr16	81077767	81077774	+	Frame_Shift_Del	DEL	TAAATCAA	TAAATCAA	-																															tcagaatgagcctaagacttTaaatcaagatattgagaaat																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	TAAATCAA	TAAATCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		-	81077774	TAAATCAA	-	81077767	7	5	293	1	0	1	0	1	0	0	0	0	1110	1764	61	0	1678	0	ATMIN	16	81077767	Frame_Shift_Del	DEL	TAAATCAA	TCGA-BP-4973-01A-01D-1462-08	53362516	81077767	9276986	30	14825											
KEAP1	9817	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10610395	10610395	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaacatggccttgaagacAgggctggatgaggccagcac	11	6	15	9	0	0	4	0	3	0	1	0	5	0	5	2	4	2	2	2	4	2	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	10610395	A	G	10610395	2	3	293	1	0	0	0	0	0	0	0	1	8141	175	7	3		3	KEAP1	19	10610395	Silent	SNP	A	TCGA-BP-4973-01A-01D-1462-08		10610395	48518588	31	14826											
ZNF223	7766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44570596	44570596	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggagagaaactctttaaGtgtgacgtgtgtggtaagga	11	11	15	4	1	1	2	0	1	1	1	1	5	1	4	0	3	1	1	0	3	3	3	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	44570596	G	A	44570596	2	1	293	1	0	0	0	0	0	0	0	1	17776	1020	36	2		2	ZNF223	19	44570596	Silent	SNP	G	TCGA-BP-4973-01A-01D-1462-08	33960201	44570596	14558387	32	14827											
HAS1	3036	broad.mit.edu	37	chr19	52216712	52216712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtagcccccggtccgccGccggcaaagcctccgcacgc	5	3	13	20	7	0	0	0	0	0	0	2	0	2	0	7	3	2	3	7	3	2	1	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	52216712	A	A	52216712	3	1	293	1	0	0	0	0	1	0	0	0	6961	1086	38	1	35	1	HAS1	19	52216712	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08	7646116	52216712	6912271	33	14828											
PLXNB2	23654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50717397	50717397	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagttgaggaccttcaccGggatggcgtccactccctcg	7	8	11	15	3	1	1	1	1	0	0	4	3	3	3	4	3	0	1	4	3	0	2	novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		A	50717397	G	A	50717397	3	1	293	1	0	0	0	0	1	0	0	0	12124	1116	39	1	1123	1	PLXNB2	22	50717397	Missense_Mutation	SNP	G	TCGA-BP-4973-01A-01D-1462-08		50717397	587169	34	14829											
BCORL1	63035	hgsc.bcm.edu	37	chrX	129189951	129189952	+	Frame_Shift_Ins	INS	-	-	G																															aaggccgagttctacaggcaINSggtggcctccagtcagctgc																								novel		TCGA-BP-4973-01A-01D-1462-08	TCGA-BP-4973-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5db95dcc-97e3-42a5-87dd-75a09b9c164a	64a62b71-e48d-4e06-ab02-23f2b8a6c567		G	129189952	-	G	129189951	7	5	293	1	0	1	1	0	0	0	0	0	1387	188	7	0	5248	0	BCORL1	23	129189951	Frame_Shift_Ins	INS	-	TCGA-BP-4973-01A-01D-1462-08		129189951	26080609	35	14830											
VHL	7428	hgsc.bcm.edu	37	chr3	10183776	10183776	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcaatcgcagtccgcGcgtcgtgctgcccgtatggc	4	10	12	15	6	1	0	0	0	1	0	4	0	2	0	2	1	3	4	2	1	2	2	novel		TCGA-BP-4974-01A-01D-1392-10	TCGA-BP-4974-11A-01D-1392-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	d82f43d1-a746-4ee6-a58b-3f0966072ae7	629d67a8-8738-427e-8276-926929e06641		C	10183776	G	C	10183776	3	2	294	1	0	0	0	0	1	0	0	0	17161	1087	38	4	247	4	VHL	3	10183776	Missense_Mutation	SNP	G	TCGA-BP-4974-01A-01D-1392-10		10183776	187838654	1	14831											
FAM76A	199870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28060630	28060630	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagaaaagaagtatggacCaccctattcttgtgaacagt	14	11	8	8	0	2	3	1	1	1	2	2	4	2	4	2	1	1	1	2	1	6	5	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	28060630	C	T	28060630	3	4	295	1	0	0	0	0	1	0	0	0	5624	594	21	2	410	2	FAM76A	1	28060630	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08		28060630	221189991	1	14832											
METTL13	51603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171753287	171753287	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagggtgcaccaagtggcCaacagccaggaccaggtgtt	10	6	15	10	0	0	1	0	1	0	0	0	2	0	2	4	4	3	2	4	4	2	1	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	171753287	C	T	171753287	2	4	295	1	0	0	0	0	0	0	0	1	9497	581	21	2		2	METTL13	1	171753287	Silent	SNP	C	TCGA-BP-4974-01A-01D-1462-08	143692657	171753287	77497334	2	14833											
METTL13	51603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171756896	171756896	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctttctgtctgtgggtGgggacattggggtccggacc	3	12	15	11	1	2	0	0	0	2	0	4	2	4	2	4	6	0	0	4	6	0	2	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	171756896	G	A	171756896	3	1	295	1	0	0	0	0	1	0	0	0	9497	1348	47	2	1149	2	METTL13	1	171756896	Missense_Mutation	SNP	G	TCGA-BP-4974-01A-01D-1462-08	3609	171756896	77493725	3	14834											
MARK1	4139	broad.mit.edu;hgsc.bcm.edu	37	chr1	220835248	220835248	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggagtatgaagaccactAgttcaatggaccctaatgac	14	9	9	9	0	1	3	1	2	0	1	1	5	1	5	2	2	0	2	2	2	5	4	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		G	220835248	A	G	220835248	3	3	295	1	0	0	0	0	1	0	0	0	9312	420	15	3	2198	3	MARK1	1	220835248	Missense_Mutation	SNP	A	TCGA-BP-4974-01A-01D-1462-08	49078352	220835248	28415373	4	14835											
HEATR1	55127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	236766491	236766491	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactccagacacttctgtgCtggcttaagcaggaagtaag	11	9	10	11	0	1	1	0	0	1	1	2	2	2	2	2	2	2	4	2	2	3	3	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	236766491	C	T	236766491	3	4	295	1	0	0	0	0	1	0	0	0	7027	797	28	2	6278	2	HEATR1	1	236766491	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08	15931243	236766491	12484130	5	14836											
REG3G	130120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	79255044	79255044	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctggccactgtgggagcCtgtcaagaagcacaggtaag	11	6	13	11	0	1	1	1	0	0	1	1	2	1	2	3	3	2	2	3	3	3	1	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	79255044	C	A	79255044	3	1	295	1	0	0	0	0	1	0	0	0	13215	680	24	4	459	4	REG3G	2	79255044	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08		79255044	163944329	6	14837											
SLC11A1	6556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219254723	219254723	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catggctgtctttgggcaggCcttctaccagaaaaccaacc	10	9	9	13	0	2	1	0	0	2	1	2	1	2	1	4	3	3	2	4	3	4	3	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	219254723	C	A	219254723	3	1	295	1	0	0	0	0	1	0	0	0	14382	739	26	4	960	4	SLC11A1	2	219254723	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08	139999679	219254723	23944650	7	14838											
CRELD1	78987	broad.mit.edu;hgsc.bcm.edu	37	chr3	9982650	9982650	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctacgggggtgaggcctgtGgccagtgtggccttggctac	4	9	18	10	1	0	1	0	1	0	0	0	1	0	1	3	6	2	2	3	6	2	3	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	9982650	G	A	9982650	3	1	295	1	0	0	0	0	1	0	0	0	3866	1348	47	2	595	2	CRELD1	3	9982650	Missense_Mutation	SNP	G	TCGA-BP-4974-01A-01D-1462-08		9982650	188039780	8	14839											
ACAP2	23527	hgsc.bcm.edu;ucsc.edu	37	chr3	195016613	195016613	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctctgatatatgcctccTtctcctgtctgacagacata	8	15	6	12	0	3	3	0	2	3	1	5	3	4	3	3	0	2	1	3	0	3	5	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		G	195016613	T	G	195016613	3	3	295	1	0	0	0	0	1	0	0	0	119	1609	56	5	868	5	ACAP2	3	195016613	Missense_Mutation	SNP	T	TCGA-BP-4974-01A-01D-1462-08	185033963	195016613	3005817	9	14840											
KLHL8	57563	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	88106697	88106697	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtaacttcatgtattcAcaacaagctctagccaccag	15	10	5	11	0	3	0	2	0	1	0	3	0	3	0	2	0	4	3	2	0	6	5	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		G	88106697	A	G	88106697	2	3	295	1	0	0	0	0	0	0	0	1	8395	157	6	3		3	KLHL8	4	88106697	Silent	SNP	A	TCGA-BP-4974-01A-01D-1462-08		88106697	103047579	10	14841											
UCP1	7350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	141484270	141484270	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgggaagttacctgctaAtatgttgtttttcacaaagg	13	14	9	5	0	1	0	1	0	0	0	1	1	1	1	1	2	2	4	1	2	6	6	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	141484270	A	T	141484270	3	4	295	1	0	0	0	0	1	0	0	0	16929	98	4	5	311	5	UCP1	4	141484270	Missense_Mutation	SNP	A	TCGA-BP-4974-01A-01D-1462-08	53377573	141484270	49670006	11	14842											
LMAN2	10960	broad.mit.edu	37	chr5	176778599	176778599	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagaagcccaggccttcccAggcaccgccggccccagccc	7	2	11	21	3	0	1	0	0	0	1	1	2	1	1	8	3	2	1	8	3	1	1	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		G	176778599	G	G	176778599	3	3	295	1	0	0	0	0	1	0	0	0	8838	188	7	3	1052	3	LMAN2	5	176778599	Missense_Mutation	SNP	A	TCGA-BP-4974-01A-01D-1462-08		176778599	4136661	12	14843											
GABRR1	2569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	89891701	89891701	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatgaccatcagggtagcgGggaaataagtttggagcaag	13	7	15	6	1	1	1	1	1	0	0	1	3	1	3	1	4	2	4	1	4	4	3	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	89891701	G	T	89891701	3	4	295	1	0	0	0	0	1	0	0	0	6176	1232	43	4	579	4	GABRR1	6	89891701	Missense_Mutation	SNP	G	TCGA-BP-4974-01A-01D-1462-08		89891701	81223366	13	14844											
MAP3K5	4217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	136972151	136972151	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagcacgtgccaaatagAgattgtcttttcctcaactt	12	12	8	9	1	2	1	1	0	1	1	3	3	3	2	2	1	3	1	2	1	4	5	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		C	136972151	A	C	136972151	3	2	295	1	0	0	0	0	1	0	0	0	9253	304	11	5	2445	5	MAP3K5	6	136972151	Missense_Mutation	SNP	A	TCGA-BP-4974-01A-01D-1462-08	47080450	136972151	34142916	14	14845											
PRKDC	5591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48767813	48767813	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggataaacaatccttccagCactcgacaagggtctttata	13	11	7	10	1	1	0	0	0	1	0	4	2	3	1	2	2	2	1	2	2	6	5	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	48767813	C	T	48767813	3	4	295	1	0	0	0	0	1	0	0	0	12523	710	25	2	5803	2	PRKDC	8	48767813	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08		48767813	97596209	15	14846											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110412378	110412378	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagatactggaatacaaTgaaaaaacgcctgggtacat	18	7	10	6	1	0	2	0	1	0	1	0	5	0	3	1	2	4	1	1	2	9	3	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	110412378	T	A	110412378	3	1	295	1	0	0	0	0	1	0	0	0	11972	1461	51	5	1136	5	PKHD1L1	8	110412378	Missense_Mutation	SNP	T	TCGA-BP-4974-01A-01D-1462-08	61644565	110412378	35951644	16	14847											
YEATS4	8089	broad.mit.edu	37	chr12	69756582	69756582	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagggtgttactatcgtTaaaccaatagtttacggtaa	12	16	8	5	2	0	0	0	0	0	0	1	0	0	0	1	2	3	4	1	2	9	9	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		G	69756582	G	G	69756582	2	3	295	1	0	0	0	0	0	0	0	1	17472	1741	61	5		5	YEATS4	12	69756582	Silent	SNP	T	TCGA-BP-4974-01A-01D-1462-08		69756582	64095313	17	14848											
ANKS1B	56899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	99194855	99194855	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccggggtagaggctgtggCttcattcggaggtcgcaagg	7	9	17	8	3	1	1	1	0	0	1	3	2	1	2	1	7	1	4	1	7	3	4	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	99194855	C	T	99194855	3	4	295	1	0	0	0	0	1	0	0	0	689	797	28	2	774	2	ANKS1B	12	99194855	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08	29438273	99194855	34657040	18	14849											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	33873752	33873752	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcattgaccgcttaaatgTctacaatagcgtagcacact	12	12	7	10	2	1	1	0	1	1	0	1	1	1	1	1	0	4	4	1	0	6	6	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		C	33873752	T	C	33873752	3	2	295	1	0	0	0	0	1	0	0	0	13772	1667	58	3	1535	3	RYR3	15	33873752	Missense_Mutation	SNP	T	TCGA-BP-4974-01A-01D-1462-08		33873752	68657640	19	14850											
DHX33	56919	broad.mit.edu	37	chr17	5372140	5372140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaggtccagagcctggccGgaatctcttggccggcggga	6	6	17	12	4	1	1	0	0	1	1	3	4	2	4	4	7	1	0	4	7	1	1	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	5372140	A	A	5372140	3	1	295	1	0	0	0	0	1	0	0	0	4506	1115	39	1	2131	1	DHX33	17	5372140	Missense_Mutation	SNP	G	TCGA-BP-4974-01A-01D-1462-08		5372140	75823070	20	14851											
FAM83G	644815	hgsc.bcm.edu	37	chr17	18874924	18874925	+	Frame_Shift_Ins	INS	-	-	C																															tggcctgccagtggtgggggINSccagccatggctgggccagc																								novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		C	18874925	-	C	18874924	7	5	295	1	0	1	1	0	0	0	0	0	5639	1190	42	0	255	0	FAM83G	17	18874924	Frame_Shift_Ins	INS	-	TCGA-BP-4974-01A-01D-1462-08	13502784	18874924	62320286	21	14852											
MED1	5469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37565879	37565879	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgttcaataaatcaggattGaaatctactccatcatgaaa	16	12	5	8	0	4	2	3	2	1	0	5	3	5	3	1	1	1	1	1	1	6	4	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	37565879	G	A	37565879	2	1	295	1	0	0	0	0	0	0	0	1	9425	1281	45	2		2	MED1	17	37565879	Silent	SNP	G	TCGA-BP-4974-01A-01D-1462-08	18690955	37565879	43629331	22	14853											
ZNF320	162967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53385021	53385021	+	Missense_Mutation	SNP	T	T	C																															atatcggtctgtactactagTcaacttttttatttctgtca																								novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		C	53385021	T	C	53385021	3	2	295	1	0	0	0	0	1	0	0	0	17838	1667	58	3	1175	3	ZNF320	19	53385021	Missense_Mutation	SNP	T	TCGA-BP-4974-01A-01D-1462-08		53385021	5743962	23	14854	198	2									
ZNF320	162967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53385022	53385022	+	Missense_Mutation	SNP	C	C	A																															tatcggtctgtactactagtCaacttttttatttctgtcat																								novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	53385022	C	A	53385022	3	1	295	1	0	0	0	0	1	0	0	0	17838	825	29	4	1176	4	ZNF320	19	53385022	Missense_Mutation	SNP	C	TCGA-BP-4974-01A-01D-1462-08	1	53385022	5743961	24	14855	198	2									
RFPL1	5988	hgsc.bcm.edu	37	chr22	29834853	29834853	+	Frame_Shift_Del	DEL	C	C	-																															ttcttcccttgtgcacttttCccctggcagtggacatggct																								novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		-	29834853	C	-	29834853	7	5	295	1	0	1	0	1	0	0	0	0	13255	855	30	0	75	0	RFPL1	22	29834853	Frame_Shift_Del	DEL	C	TCGA-BP-4974-01A-01D-1462-08		29834853	21469713	25	14856											
POLA1	5422	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	24735484	24735484	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaagatggtgactttgatGagcccatggaagttgaagag	12	11	14	4	0	0	7	0	5	0	2	0	8	0	8	1	2	1	1	1	2	3	3	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		A	24735484	G	A	24735484	3	1	295	1	0	0	0	0	1	0	0	0	12187	1291	45	2	800	2	POLA1	23	24735484	Missense_Mutation	SNP	G	TCGA-BP-4974-01A-01D-1462-08		24735484	130535076	26	14857											
SHROOM4	57477	hgsc.bcm.edu	37	chrX	50350758	50350758	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcctcctcctgttgcttCtgctgctgctgttgctgctt	0	18	8	15	0	1	0	0	0	1	0	5	0	5	0	4	0	6	8	4	0	0	4	novel		TCGA-BP-4974-01A-01D-1462-08	TCGA-BP-4974-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3e787cd9-fd58-4818-b68f-19ce1550c566	6bc3f689-898a-431d-b2ca-9661ecf14ac2		T	50350758	C	T	50350758	2	4	295	1	0	0	0	0	0	0	0	1	14298	912	32	2		2	SHROOM4	23	50350758	Silent	SNP	C	TCGA-BP-4974-01A-01D-1462-08	25615274	50350758	104919802	27	14858											
MACF1	23499	hgsc.bcm.edu;ucsc.edu	37	chr1	39781186	39781194	+	In_Frame_Del	DEL	ACACCCAGG	ACACCCAGG	-																															tgtgtcttgttcctggcagcAcacccaggaggatttacagc																								novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	ACACCCAGG	ACACCCAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		-	39781194	ACACCCAGG	-	39781186	7	5	296	1	0	1	0	1	0	0	0	0	9144	173	6	0	3389	0	MACF1	1	39781186	In_Frame_Del	DEL	ACACCCAGG	TCGA-BP-4975-01A-01D-1462-08		39781186	209469435	1	14859											
CHIA	27159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111860638	111860638	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatccatgtcatgacctaCgacctccatggctcctggga	9	10	8	14	1	1	1	1	1	0	0	4	3	4	2	5	2	2	1	5	2	2	2	rs148384495	byfrequency	TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		T	111860638	C	T	111860638	2	4	296	1	0	0	0	0	0	0	0	1	3342	547	19	1		1	CHIA	1	111860638	Silent	SNP	C	TCGA-BP-4975-01A-01D-1462-08	72079452	111860638	137389983	2	14860											
KCNJ10	3766	broad.mit.edu	37	chr1	160011200	160011200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatcagacattgctgatgcGcacactaagggcactgccct	10	9	9	13	1	2	2	2	1	0	1	2	2	2	2	1	1	3	3	1	1	1	2	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	160011200	A	A	160011200	3	1	296	1	0	0	0	0	1	0	0	0	8044	1087	38	1	20	1	KCNJ10	1	160011200	Missense_Mutation	SNP	G	TCGA-BP-4975-01A-01D-1462-08	48150562	160011200	89239421	3	14861											
TEKT4	150483	hgsc.bcm.edu	37	chr2	95539855	95539855	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccttccaagagaggTgggccccagctctgcccctg	7	6	10	18	0	1	1	0	0	1	1	2	2	2	1	8	2	2	1	8	2	1	1	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		G	95539855	T	G	95539855	5	3	296	1	0	0	0	0	0	0	1	0	15754	1710	59	5	725	5	TEKT4	2	95539855	Splice_Site	SNP	T	TCGA-BP-4975-01A-01D-1462-08		95539855	147659518	4	14862											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238249678	238249678	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacagggtggtggtctcAgcgctgtctaagatgaaagc	10	9	15	7	1	2	2	1	1	2	1	3	3	2	3	0	4	3	1	0	4	3	1	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		C	238249678	A	C	238249678	2	2	296	1	0	0	0	0	0	0	0	1	3701	175	7	5		5	COL6A3	2	238249678	Silent	SNP	A	TCGA-BP-4975-01A-01D-1462-08	142709823	238249678	4949695	5	14863											
VHL	7428	broad.mit.edu	37	chr3	10183752	10183752	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgcgagccctcccaggTcatcttctgcaatcgcagtc	6	9	9	17	4	3	0	1	0	2	0	7	1	4	0	2	1	2	2	2	1	1	1	rs5030803	alternate_allele	TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	10183752	A	A	10183752	3	1	296	1	0	0	0	0	1	0	0	0	17161	1667	58	5	223	5	VHL	3	10183752	Missense_Mutation	SNP	T	TCGA-BP-4975-01A-01D-1462-08		10183752	187838678	6	14864											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52621433	52621434	+	Frame_Shift_Del	DEL	CT	CT	-																															gaactttgttgtaatagtcaCtcttaaaaacttctttttct																								novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	CT	CT	CT	-	CT	CT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		-	52621434	CT	-	52621433	7	5	296	1	0	1	0	1	0	0	0	0	11491	565	20	0	1889	0	PBRM1	3	52621433	Frame_Shift_Del	DEL	CT	TCGA-BP-4975-01A-01D-1462-08	42437681	52621433	145400997	7	14865											
ZFYVE28	57732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2306052	2306052	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgaggcgcctcgtgagccGaggggctcccagcatgcagc	6	5	15	15	3	0	2	0	2	0	0	2	3	1	2	4	3	4	3	4	3	0	0	rs117669252	bycluster;byfrequency;by1000genomes	TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	2306052	G	A	2306052	3	1	296	1	0	0	0	0	1	0	0	0	17669	1059	37	1	672	1	ZFYVE28	4	2306052	Missense_Mutation	SNP	G	TCGA-BP-4975-01A-01D-1462-08		2306052	188848224	8	14866											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	90025457	90025457	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttctatttcattattgcAggagatcagaattcaattga	13	15	7	6	0	4	3	3	1	1	2	4	5	4	3	0	1	1	1	0	1	4	7	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		C	90025457	A	C	90025457	5	2	296	1	0	0	0	0	0	0	1	0	6721	202	7	5	10623	5	GPR98	5	90025457	Splice_Site	SNP	A	TCGA-BP-4975-01A-01D-1462-08		90025457	90889803	9	14867											
KIF13A	63971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	17828563	17828563	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	attcctatgccaaaaagctgGatatcttgagaggtatctgc	12	12	9	8	0	2	1	0	1	2	1	3	3	3	2	2	2	3	2	2	2	5	5	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		C	17828563	G	C	17828563	3	2	296	1	0	0	0	0	1	0	0	0	8274	1164	41	4	4106	4	KIF13A	6	17828563	Missense_Mutation	SNP	G	TCGA-BP-4975-01A-01D-1462-08		17828563	153286504	10	14868											
SKIV2L	6499	broad.mit.edu;hgsc.bcm.edu	37	chr6	31932019	31932019	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccaaaggtcctgcacaTgtcagagctcctgaatcgcg	10	7	9	15	2	1	2	1	1	0	1	4	2	3	2	4	1	2	2	4	1	2	0	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		C	31932019	T	C	31932019	3	2	296	1	0	0	0	0	1	0	0	0	14361	1464	51	3	1937	3	SKIV2L	6	31932019	Missense_Mutation	SNP	T	TCGA-BP-4975-01A-01D-1462-08	14103456	31932019	139183048	11	14869											
NOX3	50508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	155776182	155776182	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacacccaaaataactcGtgtgtaatggaaagactcct	15	10	6	10	1	0	1	0	0	0	1	2	2	1	2	2	1	2	1	2	1	6	3	rs143358981	byfrequency	TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	155776182	G	A	155776182	4	1	296	1	0	0	0	0	0	1	0	0	10557	1153	40	1	1624	1	NOX3	6	155776182	Nonsense_Mutation	SNP	G	TCGA-BP-4975-01A-01D-1462-08	123844163	155776182	15338885	12	14870											
C7orf27	0	broad.mit.edu	37	chr7	2577862	2577862	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggccagcacagcctcAggctcctggtcccctggggg	6	6	14	15	0	1	0	1	0	0	0	3	0	3	0	5	5	3	3	5	5	0	0	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		G	2577862	G	G	2577862	2	3	296	1	0	0	0	0	0	0	0	1	2382	175	7	3		3	C7orf27	7	2577862	Silent	SNP	A	TCGA-BP-4975-01A-01D-1462-08		2577862	156560801	13	14871											
ODF2	4957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131256884	131256884	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggctgagtgccaagaccaActgcagggctatgagcggaa	11	6	14	10	1	0	3	0	2	0	1	0	4	0	4	2	3	4	3	2	3	4	1	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		G	131256884	A	G	131256884	2	3	296	1	0	0	0	0	0	0	0	1	10827	40	2	3		3	ODF2	9	131256884	Silent	SNP	A	TCGA-BP-4975-01A-01D-1462-08		131256884	9956547	14	14872											
CKAP5	9793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46782199	46782199	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctcagctggtcccttgcGtaacatgttggcattggagc	6	12	12	11	1	1	0	1	0	0	0	3	1	3	1	2	3	4	4	2	3	1	4	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	46782199	G	A	46782199	3	1	296	1	0	0	0	0	1	0	0	0	3445	1145	40	1	1789	1	CKAP5	11	46782199	Missense_Mutation	SNP	G	TCGA-BP-4975-01A-01D-1462-08		46782199	88224317	15	14873											
P2RX3	5024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57118271	57118271	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaagatcggctgggtgtgCgacttggacaaggcctggga	9	9	16	7	2	0	1	0	0	0	1	1	4	0	3	1	5	1	1	1	5	2	2	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		T	57118271	C	T	57118271	2	4	296	1	0	0	0	0	0	0	0	1	11341	776	27	1		1	P2RX3	11	57118271	Silent	SNP	C	TCGA-BP-4975-01A-01D-1462-08	10336072	57118271	77888245	16	14874											
DDI1	414301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103908554	103908554	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctaggcctagatatgcTccggagacatcaatgttcca	10	11	9	11	1	2	2	1	0	1	2	4	3	4	2	3	2	1	3	3	2	4	5	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		C	103908554	T	C	103908554	3	2	296	1	0	0	0	0	1	0	0	0	4328	1551	54	3	1006	3	DDI1	11	103908554	Missense_Mutation	SNP	T	TCGA-BP-4975-01A-01D-1462-08	46790283	103908554	31097962	17	14875											
VWA5A	4013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123995002	123995002	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtgtaattaaagaagttaGgatcaacagacagaaacaca	20	8	8	5	0	1	3	1	0	0	3	1	4	1	4	0	1	2	2	0	1	8	4	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	123995002	G	A	123995002	3	1	296	1	0	0	0	0	1	0	0	0	17241	1000	35	2	1257	2	VWA5A	11	123995002	Missense_Mutation	SNP	G	TCGA-BP-4975-01A-01D-1462-08	20086448	123995002	11011514	18	14876											
H2AFJ	55766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14927791	14927791	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcagaagacgaagagcaaAtgaccctgacgccgccctca	14	4	10	13	3	2	5	2	2	0	3	2	6	2	5	3	0	1	1	3	0	3	0	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		T	14927791	A	T	14927791	3	4	296	1	0	0	0	0	1	0	0	0	6926	98	4	5	389	5	H2AFJ	12	14927791	Missense_Mutation	SNP	A	TCGA-BP-4975-01A-01D-1462-08		14927791	118924104	19	14877											
C13orf18	0	broad.mit.edu;hgsc.bcm.edu	37	chr13	46935677	46935677	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagctctttggctaatagttCtgcagaattgaagtctggct	9	14	10	8	0	3	2	0	1	3	1	3	2	3	2	0	2	2	5	0	2	4	5	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		G	46935677	C	G	46935677	3	3	296	1	0	0	0	0	1	0	0	0	1720	922	32	4	1002	4	C13orf18	13	46935677	Missense_Mutation	SNP	C	TCGA-BP-4975-01A-01D-1462-08		46935677	68234201	20	14878											
PCSK6	5046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	101933619	101933619	+	Frame_Shift_Del	DEL	C	C	-																															agacgaaaatggagcccaggCcctgccggccctggagggac																								novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		-	101933619	C	-	101933619	7	5	296	1	0	1	0	1	0	0	0	0	11604	739	26	0	2441	0	PCSK6	15	101933619	Frame_Shift_Del	DEL	C	TCGA-BP-4975-01A-01D-1462-08		101933619	597773	21	14879											
HAGH	3029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1866933	1866933	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccggatggcggcattgccGggctccacgtggcgtgcaaa	6	7	15	13	5	0	0	0	0	0	0	2	1	2	1	3	5	2	3	3	5	1	1	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	1866933	G	A	1866933	2	1	296	1	0	0	0	0	0	0	0	1	6945	1103	39	1		1	HAGH	16	1866933	Silent	SNP	G	TCGA-BP-4975-01A-01D-1462-08		1866933	88487820	22	14880											
PLEKHG4	25894	broad.mit.edu;hgsc.bcm.edu	37	chr16	67318759	67318759	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccgaaagatgtgggctctGgccacggggctgggctcaga	7	8	16	10	2	2	2	1	0	1	2	3	3	3	2	2	5	0	3	2	5	1	1	novel		TCGA-BP-4975-01A-01D-1462-08	TCGA-BP-4975-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	109d2752-17f8-4b00-a61f-dfd8e2e3ca81	412ed2d9-14aa-4f99-8fb3-91713e0e43c9		A	67318759	G	A	67318759	2	1	296	1	0	0	0	0	0	0	0	1	12071	1335	47	2		2	PLEKHG4	16	67318759	Silent	SNP	G	TCGA-BP-4975-01A-01D-1462-08	65451826	67318759	23035994	23	14881											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19488213	19488213	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacgccatccaccattttaCaggtgtgacagtggtaccta	10	10	8	13	1	0	1	0	1	0	0	1	1	1	1	5	2	2	1	5	2	3	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	19488213	C	T	19488213	3	4	297	1	0	0	0	0	1	0	0	0	16903	478	17	2	10786	2	UBR4	1	19488213	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08		19488213	229762408	1	14882											
ZBTB40	9923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22828055	22828055	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctgggtaaagtaagagAggaaagcctggatgttcaaa	16	8	12	5	0	1	1	1	0	0	1	2	4	2	3	2	3	1	3	2	3	6	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	22828055	A	G	22828055	3	3	297	1	0	0	0	0	1	0	0	0	17541	304	11	3	912	3	ZBTB40	1	22828055	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	3339842	22828055	226422566	2	14883											
SLC25A24	29957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	108700179	108700179	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgcctccaccattgtcCggattttttttcgtcttccg	5	16	7	13	3	1	0	0	0	1	0	5	1	4	1	5	1	2	1	5	1	1	6	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	108700179	C	T	108700179	3	4	297	1	0	0	0	0	1	0	0	0	14489	661	23	1	883	1	SLC25A24	1	108700179	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	85872124	108700179	140550442	3	14884											
SYPL2	284612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110020593	110020593	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagcagtgtgcagtgccGgggccacgccctctatgggc	7	6	16	12	2	1	0	0	0	1	0	1	1	1	1	3	4	3	2	3	4	2	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	110020593	G	C	110020593	3	2	297	1	0	0	0	0	1	0	0	0	15462	1116	39	4	628	4	SYPL2	1	110020593	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	1320414	110020593	139230028	4	14885											
ABL2	27	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	179090792	179090792	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgccaacgtaaacctctcCatactgaccgcccccaagtt	11	7	6	17	3	1	1	0	1	1	0	2	2	1	1	6	0	3	2	6	0	5	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	179090792	C	T	179090792	3	4	297	1	0	0	0	0	1	0	0	0	93	603	21	2	2727	2	ABL2	1	179090792	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	69070199	179090792	70159829	5	14886											
SLC45A3	85414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205632093	205632093	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgcacagctcagccaCgaagagccggcgcagggtgc	9	3	14	15	3	1	1	1	0	0	1	1	2	1	1	3	2	6	4	3	2	1	0	rs138897809		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	205632093	C	T	205632093	3	4	297	1	0	0	0	0	1	0	0	0	14644	536	19	1	847	1	SLC45A3	1	205632093	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	26541301	205632093	43618528	6	14887											
TAF5L	27097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	229738593	229738593	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcggactgttttggacCaggttgagatggaggtagac	8	12	14	7	1	1	2	0	1	1	2	2	6	1	5	1	5	0	3	1	5	1	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	229738593	C	A	229738593	2	1	297	1	0	0	0	0	0	0	0	1	15528	581	21	4		4	TAF5L	1	229738593	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	24106500	229738593	19512028	7	14888											
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235944201	235944201	+	Frame_Shift_Del	DEL	A	A	-																															tccacatctttcttggtcatAaaaagttctctgatttgttc																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	235944201	A	-	235944201	7	5	297	1	0	1	0	1	0	0	0	0	9128	359	13	0	6379	0	LYST	1	235944201	Frame_Shift_Del	DEL	A	TCGA-BP-4976-01A-01D-1462-08	6205608	235944201	13306420	8	14889											
KCNS3	3790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	18113665	18113665	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtaggcattgtggtgagcGatcctgactccacagatgct	8	11	12	10	1	0	3	0	2	0	1	2	4	2	3	2	2	2	3	2	2	1	2	rs150320186		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	18113665	G	A	18113665	3	1	297	1	0	0	0	0	1	0	0	0	8090	1058	37	1	1392	1	KCNS3	2	18113665	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08		18113665	225085708	9	14890											
KLRAQ1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48687267	48687267	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctagaaaaggaagccaagGaatgtcgacttcgaacggaa	16	6	11	8	3	1	1	0	0	1	1	3	6	1	4	1	3	2	0	1	3	8	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	48687267	G	T	48687267	4	4	297	1	0	0	0	0	0	1	0	0	8413	1175	41	4	596	4	KLRAQ1	2	48687267	Nonsense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	30573602	48687267	194512106	10	14891											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141032077	141032077	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcaacctcacattttggtCcttcatagcgcgttggacag	8	13	9	11	2	3	0	3	0	0	0	4	1	4	1	2	2	2	1	2	2	2	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	141032077	C	A	141032077	3	1	297	1	0	0	0	0	1	0	0	0	8955	855	30	4	769	4	LRP1B	2	141032077	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	92344810	141032077	102167296	11	14892											
UBR3	130507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170863656	170863656	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaagcatacaagatctcAtaaaggaagtggaggagctg	18	6	11	6	0	1	1	1	0	1	1	2	4	1	4	0	3	3	2	0	3	7	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	170863656	A	G	170863656	3	3	297	1	0	0	0	0	1	0	0	0	16902	217	8	3	4296	3	UBR3	2	170863656	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	29831579	170863656	72335717	12	14893											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179437362	179437362	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaactattttctacagtTagtatatatttgccactgtc	10	17	5	9	0	1	1	0	1	1	0	2	1	1	1	2	0	3	2	2	0	7	9	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	179437362	T	A	179437362	2	1	297	1	0	0	0	0	0	0	0	1	16734	1741	61	5		5	TTN	2	179437362	Silent	SNP	T	TCGA-BP-4976-01A-01D-1462-08	8573706	179437362	63762011	13	14894											
RUFY4	285180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	218954028	218954028	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcttccatggctcccgAgtgctgtgtggcctgtagca	4	13	11	13	1	2	0	0	0	2	0	5	1	4	0	3	2	2	4	3	2	1	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	218954028	A	C	218954028	3	2	297	1	0	0	0	0	1	0	0	0	13743	304	11	5	1594	5	RUFY4	2	218954028	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	39516666	218954028	24245345	14	14895											
DOCK10	55619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225721605	225721605	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgatactagtttaactaGgtcctcagttgaaatcttgc	11	15	7	8	0	3	2	1	2	2	0	4	2	4	2	1	1	3	2	1	1	5	7	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	225721605	G	C	225721605	3	2	297	1	0	0	0	0	1	0	0	0	4685	991	35	4	4948	4	DOCK10	2	225721605	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	6767577	225721605	17477768	15	14896											
BRPF1	7862	broad.mit.edu;hgsc.bcm.edu	37	chr3	9785380	9785380	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagcaagcagagtgtgggCcgctcacggcgtgcaaagat	10	5	15	11	3	1	2	1	0	0	2	1	2	1	2	2	2	3	4	2	2	2	0	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	9785380	C	G	9785380	2	3	297	1	0	0	0	0	0	0	0	1	1520	726	26	4		4	BRPF1	3	9785380	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08		9785380	188237050	16	14897											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188299	10188306	+	Frame_Shift_Del	DEL	TTTGCCAA	TTTGCCAA	-																															atgttgacggacagcctattTttgccaatatcacactgcca																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	TTTGCCAA	TTTGCCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	10188306	TTTGCCAA	-	10188299	7	5	297	1	0	1	0	1	0	0	0	0	17161	1841	64	0	448	0	VHL	3	10188299	Frame_Shift_Del	DEL	TTTGCCAA	TCGA-BP-4976-01A-01D-1462-08	402919	10188299	187834131	17	14898											
VIPR1	7433	broad.mit.edu;hgsc.bcm.edu	37	chr3	42568970	42568970	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccttctggtcgccacagCtatcctgagcctgttcaggt	6	11	9	15	1	2	1	1	1	1	0	4	1	3	1	4	2	2	2	4	2	1	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	42568970	C	T	42568970	3	4	297	1	0	0	0	0	1	0	0	0	17168	797	28	2	503	2	VIPR1	3	42568970	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	32380671	42568970	155453460	18	14899											
NBEAL2	23218	broad.mit.edu	37	chr3	47038048	47038048	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatctttcacgaagccctGcaggcgacggctctgaggac	8	7	12	14	3	3	1	1	1	2	0	3	4	3	2	2	3	2	2	2	3	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	47038048	A	A	47038048	2	1	297	1	0	0	0	0	0	0	0	1	10189	1306	46	2		2	NBEAL2	3	47038048	Silent	SNP	G	TCGA-BP-4976-01A-01D-1462-08	4469078	47038048	150984382	19	14900											
MUC4	4585	hgsc.bcm.edu	37	chr3	195505746	195505746	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaggggtggcgtgaccTgtggatactgaggaaaggct	10	7	18	6	1	0	3	0	2	0	1	0	5	0	5	1	6	1	2	1	6	3	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	195505746	T	G	195505746	2	3	297	1	0	0	0	0	0	0	0	1	9978	1567	55	5		5	MUC4	3	195505746	Silent	SNP	T	TCGA-BP-4976-01A-01D-1462-08	148467698	195505746	2516684	20	14901											
POLR2B	5431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57876947	57876947	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacttgtgaagaatttagccTtgatggcgtatatttcagtt	10	16	10	5	1	1	3	1	2	0	1	1	4	1	3	1	1	1	2	1	1	5	8	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	57876947	T	G	57876947	3	3	297	1	0	0	0	0	1	0	0	0	12215	1606	56	5	1628	5	POLR2B	4	57876947	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08		57876947	133277329	21	14902											
AIMP1	9255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	107252948	107252948	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctagaaaacaccctgatGcagattctttgtatgtggaa	12	12	9	8	0	1	3	0	1	1	2	1	4	1	4	1	1	3	3	1	1	5	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	107252948	G	A	107252948	3	1	297	1	0	0	0	0	1	0	0	0	433	1319	46	2	601	2	AIMP1	4	107252948	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	49376001	107252948	83901328	22	14903											
ZFR	51663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32403288	32403288	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatactttagtgttagatGtgctattaagagacgagttt	11	16	10	4	1	0	3	0	1	0	2	0	5	0	3	0	0	2	3	0	0	5	7	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	32403288	G	A	32403288	3	1	297	1	0	0	0	0	1	0	0	0	17658	1377	48	2	1837	2	ZFR	5	32403288	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08		32403288	148511972	23	14904											
PRLR	5618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	35065723	35065723	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattcaacagagtggccggtGcacctgcagggcccacagcc	9	5	12	15	1	1	1	1	0	0	1	1	1	1	1	4	3	4	2	4	3	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	35065723	G	A	35065723	3	1	297	1	0	0	0	0	1	0	0	0	12533	1319	46	2	535	2	PRLR	5	35065723	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	2662435	35065723	145849537	24	14905											
TGFBI	7045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	135385220	135385220	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aatgaggccttcgagaagatCcctagtgagactttgaaccg	12	9	11	9	2	0	5	0	3	0	3	2	7	1	5	3	1	1	0	3	1	4	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	135385220	C	G	135385220	3	3	297	1	0	0	0	0	1	0	0	0	15819	845	30	4	890	4	TGFBI	5	135385220	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	100319497	135385220	45530040	25	14906											
DOCK2	1794	broad.mit.edu;ucsc.edu	37	chr5	169494675	169494675	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgctgtcatgggaggcttCgccaagtatgagaaggtgag	9	9	15	8	1	1	2	1	2	0	1	2	4	1	3	2	3	1	3	2	3	3	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	169494675	T	T	169494675	2	4	297	1	0	0	0	0	0	0	0	1	4687	883	31	1		1	DOCK2	5	169494675	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	34109455	169494675	11420585	26	14907											
GRK6	2870	broad.mit.edu	37	chr5	176863393	176863393	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgactcacccctgccacaGctcctctgcaaggaccctgc	7	6	8	20	1	2	0	1	0	1	0	3	2	3	1	6	1	4	2	6	1	1	0	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	176863393	T	T	176863393	5	4	297	1	0	0	0	0	0	0	1	0	6793	985	34	4	1316	4	GRK6	5	176863393	Splice_Site	SNP	G	TCGA-BP-4976-01A-01D-1462-08	7368718	176863393	4051867	27	14908											
PRPF4B	8899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	4032532	4032532	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagatctcctactgatGataaggttaaaattgaagat	15	11	9	6	0	1	5	0	3	1	2	2	5	1	5	2	2	1	1	2	2	5	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	4032532	G	T	4032532	3	4	297	1	0	0	0	0	1	0	0	0	12575	1290	45	4	787	4	PRPF4B	6	4032532	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08		4032532	167082535	28	14909											
BAT1	0	hgsc.bcm.edu	37	chr6	31504362	31504363	+	Frame_Shift_Ins	INS	-	-	AG																															tcttatttcgagccagggctINSaggatacggcctggagtccc																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		AG	31504363	-	AG	31504362	7	5	297	1	0	1	1	0	0	0	0	0	1318	1509	53	0	783	0	BAT1	6	31504362	Frame_Shift_Ins	INS	-	TCGA-BP-4976-01A-01D-1462-08	27471830	31504362	139610705	29	14910											
SLC26A8	116369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35987387	35987387	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgttcctgttgaaaggtcTcctcattgtatacttcacgc	7	16	8	10	1	3	1	2	1	1	0	5	1	4	1	2	1	1	3	2	1	3	6	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	35987387	T	A	35987387	3	1	297	1	0	0	0	0	1	0	0	0	14525	1551	54	5	2890	5	SLC26A8	6	35987387	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	4483025	35987387	135127680	30	14911											
CPNE5	57699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36742765	36742765	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgccgttgcagagggctCtcacgggaatggagaaagtt	10	8	15	8	3	1	2	1	0	1	2	3	4	1	3	1	3	1	4	1	3	2	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	36742765	C	A	36742765	3	1	297	1	0	0	0	0	1	0	0	0	3815	913	32	4	1119	4	CPNE5	6	36742765	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	755378	36742765	134372302	31	14912											
MUT	4594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	49425564	49425564	+	Frame_Shift_Del	DEL	T	T	-																															cttctccagttactataaaaTttgcaagaactggaataact																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	49425564	T	-	49425564	7	5	297	1	0	1	0	1	0	0	0	0	9991	1493	52	0	1703	0	MUT	6	49425564	Frame_Shift_Del	DEL	T	TCGA-BP-4976-01A-01D-1462-08	12682799	49425564	121689503	32	14913											
SNX14	57231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	86256928	86256928	+	Frame_Shift_Del	DEL	A	A	-																															gttgctctctgatttgcttcAattctaacttcagcaccttg																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	86256928	A	-	86256928	7	5	297	1	0	1	0	1	0	0	0	0	14887	131	5	0	1902	0	SNX14	6	86256928	Frame_Shift_Del	DEL	A	TCGA-BP-4976-01A-01D-1462-08	36831364	86256928	84858139	33	14914											
FNDC1	84624	broad.mit.edu	37	chr6	159659602	159659602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggttgtggaccttgatcGtgggttagtattgaatgcag	8	15	14	4	1	0	2	0	2	0	0	1	3	0	3	1	3	1	4	1	3	4	6	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	159659602	A	A	159659602	3	1	297	1	0	0	0	0	1	0	0	0	5968	1145	40	1	4135	1	FNDC1	6	159659602	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	73402674	159659602	11455465	34	14915											
IGF2R	3482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160461597	160461597	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaattgtgcaggtaacGatgggaaaggaactcctgta	12	11	12	6	1	1	1	0	1	1	0	2	4	2	3	1	3	3	3	1	3	5	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	160461597	G	T	160461597	3	4	297	1	0	0	0	0	1	0	0	0	7576	1058	37	4	1363	4	IGF2R	6	160461597	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	801995	160461597	10653470	35	14916											
C7orf27	0	broad.mit.edu;ucsc.edu	37	chr7	2577853	2577853	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggacctgagcatggccagCacagcctcaggctcctggtc	8	6	13	14	0	1	1	1	1	0	0	3	2	2	2	4	4	3	3	4	4	0	0	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	2577853	G	G	2577853	2	3	297	1	0	0	0	0	0	0	0	1	2382	697	25	4		4	C7orf27	7	2577853	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08		2577853	156560810	36	14917											
SFRP4	6424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	37955990	37955990	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggatggcgttctcctgCgtgctgtggtgcaggtggtt	3	12	17	9	2	1	0	0	0	1	0	2	1	1	1	2	5	3	4	2	5	0	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	37955990	C	A	37955990	2	1	297	1	0	0	0	0	0	0	0	1	14165	755	27	4		4	SFRP4	7	37955990	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	35378137	37955990	121182673	37	14918											
SAMD9	54809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92732506	92732506	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acattcgatgacctctgtttTtatcagaattgtagagtagg	11	15	9	6	1	2	3	1	1	1	2	3	4	2	3	1	1	0	3	1	1	4	7	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	92732506	T	G	92732506	3	3	297	1	0	0	0	0	1	0	0	0	13828	1850	64	5	1868	5	SAMD9	7	92732506	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	54776516	92732506	66406157	38	14919											
IMPDH1	3614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	128049515	128049515	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacggggtgtcgtcgggTgtgtagcgaggtccaatcta	7	10	16	8	4	1	1	0	1	1	0	4	2	2	1	1	4	2	1	1	4	4	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	128049515	T	C	128049515	3	2	297	1	0	0	0	0	1	0	0	0	7726	1696	59	3	1707	3	IMPDH1	7	128049515	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	35317009	128049515	31089148	39	14920											
PARP12	64761	broad.mit.edu;ucsc.edu	37	chr7	139754561	139754561	+	Frame_Shift_Del	DEL	T	-	-																															agaacctgaactgtcttttcTttctgcaaagaaacaccaca																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	139754561	-	-	139754561	7	5	297	1	0	1	0	1	0	0	0	0	11457	1617	56	0	1378	0	PARP12	7	139754561	Frame_Shift_Del	DEL	T	TCGA-BP-4976-01A-01D-1462-08	11705046	139754561	19384102	40	14921											
MLL3	58508	broad.mit.edu	37	chr7	151962234	151962234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgaccacaagtagtacaaAagaactgatctaagaggtct	16	8	9	8	0	2	4	0	2	2	2	2	4	2	4	1	1	2	3	1	1	7	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	151962234	C	C	151962234	3	2	297	1	0	0	0	0	1	0	0	0	9622	14	1	5	13870	5	MLL3	7	151962234	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	12207673	151962234	7176429	41	14922											
FAM86B1	85002	broad.mit.edu	37	chr8	12044016	12044016	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggacattccctcggagcTgctcgaggacccggctgtga	8	7	14	12	3	0	1	0	1	0	0	3	6	1	4	2	4	2	3	2	4	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	12044016	A	A	12044016	3	1	297	1	0	0	0	0	1	0	0	0	5644	1580	55	5	417	5	FAM86B1	8	12044016	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08		12044016	134320006	42	14923											
DLC1	10395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	12950255	12950255	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcaggaaataaagcagggtCtgcagaacctcccggttctc	11	8	10	12	1	3	1	1	0	2	1	5	2	4	2	2	3	3	3	2	3	4	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	12950255	C	G	12950255	3	3	297	1	0	0	0	0	1	0	0	0	4550	912	32	4	1004	4	DLC1	8	12950255	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	906239	12950255	133413767	43	14924											
PLEKHA2	59339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38775521	38775521	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgagaacagcggcaagtTtctgcggaggtacttcattc	10	10	12	9	2	2	1	1	1	1	1	3	3	2	2	0	3	4	4	0	3	3	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	38775521	T	A	38775521	3	1	297	1	0	0	0	0	1	0	0	0	12056	1841	64	5	76	5	PLEKHA2	8	38775521	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	25825266	38775521	107588501	44	14925											
WWP1	11059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87464827	87464827	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctcgaggagtacaagaAcagaccaaagctttccttga	13	11	8	9	1	1	3	0	1	1	2	3	5	2	4	2	1	3	2	2	1	4	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	87464827	A	G	87464827	2	3	297	1	0	0	0	0	0	0	0	1	17414	40	2	3		3	WWP1	8	87464827	Silent	SNP	A	TCGA-BP-4976-01A-01D-1462-08	48689306	87464827	58899195	45	14926											
MED30	90390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	118552190	118552190	+	Frame_Shift_Del	DEL	A	A	-																															cgaaatctcatctgggatatAaatgccatgttggcaatgag																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	118552190	A	-	118552190	7	5	297	1	0	1	0	1	0	0	0	0	9448	352	13	0	524	0	MED30	8	118552190	Frame_Shift_Del	DEL	A	TCGA-BP-4976-01A-01D-1462-08	31087363	118552190	27811832	46	14927											
ZNF16	7564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	146156465	146156465	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacattcatggggcttcaGcccattatgaatcctctgat	9	14	8	10	0	3	2	2	2	1	0	4	2	4	2	2	2	2	2	2	2	3	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	146156465	G	T	146156465	3	4	297	1	0	0	0	0	1	0	0	0	17737	962	34	4	344	4	ZNF16	8	146156465	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	27604275	146156465	207557	47	14928											
JAK2	3717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5073717	5073717	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctttctttgaagcagcaaGtatgatgagcaagctttctc	10	14	9	8	0	3	3	0	3	3	0	4	3	3	3	0	0	4	5	0	0	4	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	5073717	G	T	5073717	3	4	297	1	0	0	0	0	1	0	0	0	7938	1029	36	4	1842	4	JAK2	9	5073717	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08		5073717	136139714	48	14929											
FBXO18	84893	hgsc.bcm.edu;ucsc.edu	37	chr10	5967396	5967404	+	In_Frame_Del	DEL	ATTTTGTGA	ATTTTGTGA	-																															cactgtgcatgttttggatgAttttgtgaaagtgccttgtg																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	ATTTTGTGA	ATTTTGTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	5967404	ATTTTGTGA	-	5967396	7	5	297	1	0	1	0	1	0	0	0	0	5731	333	12	0	2895	0	FBXO18	10	5967396	In_Frame_Del	DEL	ATTTTGTGA	TCGA-BP-4976-01A-01D-1462-08		5967396	129567351	49	14930											
ITIH2	3698	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7759749	7759749	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacggctggccaaacacttaGaggtaagcctggatctgtag	11	8	13	9	1	1	1	0	0	1	1	1	3	1	2	2	4	2	3	2	4	4	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	7759749	G	C	7759749	3	2	297	1	0	0	0	0	1	0	0	0	7904	943	33	4	650	4	ITIH2	10	7759749	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	1792353	7759749	127774998	50	14931											
SEPHS1	22929	broad.mit.edu;hgsc.bcm.edu	37	chr10	13386847	13386848	+	Frame_Shift_Ins	INS	-	-	G																															caatttttgcaggacatcttINSggggcactttgcagcctgtg																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	13386848	-	G	13386847	7	5	297	1	0	1	1	0	0	0	0	0	14056	1812	63	0	1106	0	SEPHS1	10	13386847	Frame_Shift_Ins	INS	-	TCGA-BP-4976-01A-01D-1462-08	5627098	13386847	122147900	51	14932											
FAM21C	253725	broad.mit.edu	37	chr10	46272804	46272804	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacttggagtgaagtctgtGgataagaaggttgagagtgc	12	10	15	4	0	1	3	0	2	1	2	1	6	1	5	0	3	2	1	0	3	4	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	46272804	A	A	46272804	2	1	297	1	0	0	0	0	0	0	0	1	5542	1335	47	2		2	FAM21C	10	46272804	Silent	SNP	G	TCGA-BP-4976-01A-01D-1462-08	32885957	46272804	89261943	52	14933											
SEC24C	9632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75520026	75520026	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctcagtgagccagccCaaccatgtgtcttcacctcc	7	8	9	17	0	3	1	2	1	1	0	4	1	4	1	6	1	3	0	6	1	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	75520026	C	T	75520026	2	4	297	1	0	0	0	0	0	0	0	1	13998	581	21	2		2	SEC24C	10	75520026	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	29247222	75520026	60014721	53	14934											
ADAM12	8038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	127824195	127824195	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactgactgctgaatcagaaTatccccgtacatgtccatgg	11	10	9	11	1	1	3	1	2	0	1	3	4	3	3	3	1	2	2	3	1	4	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	127824195	T	A	127824195	3	1	297	1	0	0	0	0	1	0	0	0	236	1406	49	5	2530	5	ADAM12	10	127824195	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	52304169	127824195	7710552	54	14935											
FAM160A2	84067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6233063	6233063	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggactgtgtgcatgccgcagGagtaactcccccaaggatgg	9	7	14	11	1	0	0	0	0	0	0	1	3	1	3	3	4	3	3	3	4	2	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	6233063	G	T	6233063	2	4	297	1	0	0	0	0	0	0	0	1	5469	1161	41	4		4	FAM160A2	11	6233063	Silent	SNP	G	TCGA-BP-4976-01A-01D-1462-08		6233063	128773453	55	14936											
CTNND1	1500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57571149	57571149	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatggagattgtggaccatGcactgcatgccttgacagat	12	10	11	8	0	0	3	0	1	0	2	0	5	0	4	2	2	3	2	2	2	1	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	57571149	G	A	57571149	3	1	297	1	0	0	0	0	1	0	0	0	4019	1319	46	2	1499	2	CTNND1	11	57571149	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	51338086	57571149	77435367	56	14937											
SLC15A3	51296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60714170	60714170	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagggatgctgtagcccaGcaggaagctgatgttctgct	9	9	13	10	0	1	1	0	1	1	0	1	3	1	3	1	2	5	6	1	2	2	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	60714170	G	T	60714170	3	4	297	1	0	0	0	0	1	0	0	0	14402	962	34	4	1091	4	SLC15A3	11	60714170	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	3143021	60714170	74292346	57	14938											
ZNHIT2	741	hgsc.bcm.edu;ucsc.edu	37	chr11	64883959	64883959	+	Frame_Shift_Del	DEL	G	G	-																															gttcttggggcaggtggcacGgggcctccccaaagccgctc																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	64883959	G	-	64883959	7	5	297	1	0	1	0	1	0	0	0	0	18206	1103	39	0	48	0	ZNHIT2	11	64883959	Frame_Shift_Del	DEL	G	TCGA-BP-4976-01A-01D-1462-08	4169789	64883959	70122557	58	14939											
MUS81	80198	broad.mit.edu	37	chr11	65629418	65629418	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactcctctgtacctttcagGttcctgcccagcccaaagcg	8	10	7	16	1	2	0	1	0	1	0	4	0	4	0	5	1	5	2	5	1	3	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	65629418	C	C	65629418	3	2	297	1	0	0	0	0	1	0	0	0	9988	1275	44	4	366	4	MUS81	11	65629418	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	745459	65629418	69377098	59	14940											
GPR152	390212	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67219269	67219269	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgccgcgaaggacgagagCacggagcgcagcagggtccg	9	2	18	12	6	0	1	0	0	0	1	1	5	1	3	2	3	4	4	2	3	1	0	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	67219269	C	A	67219269	2	1	297	1	0	0	0	0	0	0	0	1	6658	697	25	4		4	GPR152	11	67219269	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	1589851	67219269	67787247	60	14941											
PPFIA1	8500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	70201888	70201888	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaaagaaaagggccgacctgGacaaactggcaaagaagcat	18	3	12	8	1	0	2	0	0	0	2	0	5	0	3	2	3	2	2	2	3	6	0	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	70201888	G	A	70201888	3	1	297	1	0	0	0	0	1	0	0	0	12309	1174	41	2	2525	2	PPFIA1	11	70201888	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	2982619	70201888	64804628	61	14942											
AQP11	282679	broad.mit.edu;hgsc.bcm.edu	37	chr11	77314713	77314713	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatactggctggctccttcTttaggtaagcgtatttttat	7	18	9	7	1	1	0	0	0	1	0	2	0	2	0	1	3	2	5	1	3	6	10	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	77314713	T	C	77314713	2	2	297	1	0	0	0	0	0	0	0	1	823	1596	56	3		3	AQP11	11	77314713	Silent	SNP	T	TCGA-BP-4976-01A-01D-1462-08	7112825	77314713	57691803	62	14943											
NLRX1	79671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119045325	119045325	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgggtatgccgttggcggttCaggtgtctctgccacaccag	5	10	14	12	3	2	0	1	0	1	0	3	0	2	0	3	4	2	3	3	4	1	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	119045325	C	T	119045325	3	4	297	1	0	0	0	0	1	0	0	0	10485	838	29	2	1031	2	NLRX1	11	119045325	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	41730612	119045325	15961191	63	14944											
CHD4	1108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6690827	6690827	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttaccagcaggtgggaCaggtgcaggagtgttgggct	9	8	17	7	0	0	1	0	0	0	1	0	3	0	3	1	5	3	4	1	5	1	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	6690827	C	T	6690827	3	4	297	1	0	0	0	0	1	0	0	0	3327	478	17	2	1109	2	CHD4	12	6690827	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08		6690827	127161068	64	14945											
KRT6C	286887	broad.mit.edu	37	chr12	52864378	52864378	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttggtgttgcgcaggtcgtCcccatgtctgcctgctgtga	3	13	13	12	2	1	1	0	1	1	0	3	1	2	1	3	2	3	3	3	2	0	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	52864378	G	G	52864378	3	3	297	1	0	0	0	0	1	0	0	0	8482	855	30	4	596	4	KRT6C	12	52864378	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	46173551	52864378	80987517	65	14946											
NACA	4666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57112266	57112266	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttcctttgggggagggAggagtcacagctgggggtgt	6	9	20	6	0	1	0	1	0	0	0	2	4	2	4	1	7	1	1	1	7	0	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	57112266	A	G	57112266	2	3	297	1	0	0	0	0	0	0	0	1	10133	291	11	3		3	NACA	12	57112266	Silent	SNP	A	TCGA-BP-4976-01A-01D-1462-08	4247888	57112266	76739629	66	14947											
SHMT2	6472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57626066	57626066	+	Frame_Shift_Del	DEL	T	T	-																															ttcttcgagtctatgccctaTaagctcaacgtgagtgctct																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	57626066	T	-	57626066	7	5	297	1	0	1	0	1	0	0	0	0	14288	1413	49	0	603	0	SHMT2	12	57626066	Frame_Shift_Del	DEL	T	TCGA-BP-4976-01A-01D-1462-08	513800	57626066	76225829	67	14948											
HELB	92797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	66731858	66731858	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccaggcaacttttcaaGcccaccgataatcaagaaac	15	8	5	13	1	2	1	2	0	0	1	3	2	3	1	3	1	3	1	3	1	5	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	66731858	G	A	66731858	2	1	297	1	0	0	0	0	0	0	0	1	7045	962	34	2		2	HELB	12	66731858	Silent	SNP	G	TCGA-BP-4976-01A-01D-1462-08	9105792	66731858	67120037	68	14949											
MTERFD3	80298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	107371722	107371722	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatacttcttgggcaaagTtgaaaaagaaatcctttgag	14	13	9	5	0	1	3	0	2	1	1	2	3	2	3	1	1	1	3	1	1	6	6	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	107371722	T	C	107371722	2	2	297	1	0	0	0	0	0	0	0	1	9921	1722	60	3		3	MTERFD3	12	107371722	Silent	SNP	T	TCGA-BP-4976-01A-01D-1462-08	40639864	107371722	26480173	69	14950											
SSH1	54434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109186220	109186220	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaggagccgctccgacCtttgggactcccaaactcta	10	7	9	15	2	1	0	0	0	1	0	3	3	3	2	4	2	3	2	4	2	3	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	109186220	C	T	109186220	3	4	297	1	0	0	0	0	1	0	0	0	15185	681	24	2	1608	2	SSH1	12	109186220	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	1814498	109186220	24665675	70	14951											
ANAPC7	51434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110815266	110815266	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtcagggctttatctaatAatgttttggctttctcctgt	6	18	10	7	0	3	0	1	0	2	0	4	0	3	0	1	3	0	3	1	3	3	7	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	110815266	A	T	110815266	4	4	297	1	0	0	0	0	0	1	0	0	606	372	13	5	424	5	ANAPC7	12	110815266	Nonsense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	1629046	110815266	23036629	71	14952											
ACAD10	80724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112186993	112186993	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcaggtggccatggtgaagtCcgatttgagcacgtgcgtgt	7	11	15	8	3	1	2	1	2	0	0	2	3	2	2	2	3	2	1	2	3	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	112186993	C	T	112186993	2	4	297	1	0	0	0	0	0	0	0	1	108	842	30	2		2	ACAD10	12	112186993	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	1371727	112186993	21664902	72	14953											
C13orf1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	50495711	50495711	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcgacatggtcataagtAataccctaggaaggaaaaaa	19	8	8	6	1	1	0	1	0	0	0	2	3	1	2	1	3	1	1	1	3	9	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	50495711	A	G	50495711	2	3	297	1	0	0	0	0	0	0	0	1	1717	358	13	3		3	C13orf1	13	50495711	Silent	SNP	A	TCGA-BP-4976-01A-01D-1462-08		50495711	64674167	73	14954											
CGRRF1	10668	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55004493	55004493	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacttataaactatcctgCagaatattgtatcaatattt	15	15	5	6	0	1	1	1	0	0	1	2	2	2	2	1	1	2	2	1	1	9	8	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	55004493	C	T	55004493	2	4	297	1	0	0	0	0	0	0	0	1	3306	718	25	2		2	CGRRF1	14	55004493	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08		55004493	52345047	74	14955											
C14orf45	0	broad.mit.edu;hgsc.bcm.edu	37	chr14	74489763	74489763	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaaaagtaatgaggacttAaagaaaaagcaatgtaaaat	23	7	8	3	0	0	2	0	1	0	1	0	3	0	3	0	1	1	4	0	1	10	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	74489763	A	T	74489763	3	4	297	1	0	0	0	0	1	0	0	0	1775	359	13	5	207	5	C14orf45	14	74489763	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	19485270	74489763	32859777	75	14956											
SERF2	10169	broad.mit.edu;hgsc.bcm.edu	37	chr15	44087848	44087848	+	RNA	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttatggcactccacagaGatctaccacttcttatggtt	9	15	6	11	0	3	1	0	0	3	1	4	2	4	1	2	2	1	2	2	2	3	6	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	44087848	G	T	44087848	1	4	297	0	1	0	0	0	0	0	0	0	14078	957	33	4		4	SERF2	15	44087848	RNA	SNP	G	TCGA-BP-4976-01A-01D-1462-08		44087848	58443544	76	14957											
MPV17L	255027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15501886	15501886	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgtttttcccagcagAgtggtgacggcacattcaag	9	12	10	10	1	3	2	2	1	1	1	4	2	4	2	1	2	1	3	1	2	1	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	15501886	A	T	15501886	3	4	297	1	0	0	0	0	1	0	0	0	9746	304	11	5	522	5	MPV17L	16	15501886	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08		15501886	74852867	77	14958											
METTL9	51108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21666709	21666709	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggcgacatgtataatgacTactacgttctggatgacgct	12	11	10	8	3	1	2	0	2	1	0	1	4	1	3	0	2	2	3	0	2	5	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	21666709	T	A	21666709	3	1	297	1	0	0	0	0	1	0	0	0	9508	1522	53	5	931	5	METTL9	16	21666709	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	6164823	21666709	68688044	78	14959											
N4BP1	9683	hgsc.bcm.edu;ucsc.edu	37	chr16	48595915	48595918	+	Frame_Shift_Del	DEL	TGTT	TGTT	-																															gcagcattctgtgtaaactcTgtttgttgagaatctctcat																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	TGTT	TGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	48595918	TGTT	-	48595915	7	5	297	1	0	1	0	1	0	0	0	0	10109	1567	55	0	2075	0	N4BP1	16	48595915	Frame_Shift_Del	DEL	TGTT	TCGA-BP-4976-01A-01D-1462-08	26929206	48595915	41758838	79	14960											
ALOXE3	59344	broad.mit.edu;ucsc.edu	37	chr17	8018347	8018347	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttgacgtctaccatgcAggggaagccaggggcataga	10	7	15	9	1	1	2	0	1	1	1	1	3	1	3	2	4	3	4	2	4	3	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	8018347	C	C	8018347	3	2	297	1	0	0	0	0	1	0	0	0	542	188	7	5	1720	5	ALOXE3	17	8018347	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08		8018347	73176863	80	14961											
SGK494	124923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26940338	26940338	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccttgaggacagttccaaagGagcctttagccacgaggcct	10	8	11	12	1	0	1	0	1	0	0	1	4	1	3	5	3	2	1	5	3	2	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	26940338	G	C	26940338	3	2	297	1	0	0	0	0	1	0	0	0	14215	1174	41	4	922	4	SGK494	17	26940338	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	18921991	26940338	54254872	81	14962											
GJC1	10052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42882647	42882647	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggtccttgccagcaacTgcagcacatagattttcatg	11	10	8	12	1	1	1	1	0	0	1	2	1	2	1	2	1	5	3	2	1	2	4	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	42882647	T	A	42882647	3	1	297	1	0	0	0	0	1	0	0	0	6414	1580	55	5	655	5	GJC1	17	42882647	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	15942309	42882647	38312563	82	14963											
PRR11	55771	hgsc.bcm.edu;ucsc.edu	37	chr17	57262419	57262419	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtttttcctacagagtcGgtatttcttcaatagatata	10	19	6	6	1	2	2	1	0	1	2	4	2	3	2	1	1	1	2	1	1	6	10	rs114400215	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	57262419	G	C	57262419	3	2	297	1	0	0	0	0	1	0	0	0	12585	1116	39	4	139	4	PRR11	17	57262419	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	14379772	57262419	23932791	83	14964											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7032162	7032162	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccatccacgcggtaatagCcagagaggcacgactgcaag	12	6	11	12	3	0	1	0	0	0	1	2	3	2	1	3	2	2	3	3	2	3	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	7032162	C	T	7032162	3	4	297	1	0	0	0	0	1	0	0	0	8605	739	26	2	7242	2	LAMA1	18	7032162	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08		7032162	71045086	84	14965											
ASXL3	80816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	31324962	31324962	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacctcaagtcccatggAagaggctatttccttggcta	9	12	8	12	0	1	1	1	0	0	1	4	2	4	2	4	3	0	2	4	3	4	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	31324962	A	C	31324962	3	2	297	1	0	0	0	0	1	0	0	0	1068	246	9	5	5196	5	ASXL3	18	31324962	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	24292800	31324962	46752286	85	14966											
SMAD7	4092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	46474803	46474803	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagtaaggaggggggggAgactctgaaattaaaaaagc	15	6	16	4	0	1	2	0	1	1	1	1	5	1	4	0	6	1	1	0	6	5	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	46474803	A	G	46474803	2	3	297	1	0	0	0	0	0	0	0	1	14765	291	11	3		3	SMAD7	18	46474803	Silent	SNP	A	TCGA-BP-4976-01A-01D-1462-08	15149841	46474803	31602445	86	14967											
APC2	10297	broad.mit.edu	37	chr19	1453570	1453570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctttggggagctgagcCgggccaccatccggctgctg	6	7	15	13	2	0	1	0	1	0	0	1	2	1	2	4	4	4	4	4	4	0	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	1453570	T	T	1453570	3	4	297	1	0	0	0	0	1	0	0	0	764	643	23	1	383	1	APC2	19	1453570	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08		1453570	57675413	87	14968											
FZR1	51343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3533330	3533330	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagaaccagatccttgtCtggaagtacccctccctgac	10	9	7	15	0	2	3	1	1	1	2	4	4	4	4	5	1	2	1	5	1	3	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	3533330	C	A	3533330	2	1	297	1	0	0	0	0	0	0	0	1	6138	900	32	4		4	FZR1	19	3533330	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	2079760	3533330	55595653	88	14969											
SH2D3A	10045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6760899	6760899	+	Frame_Shift_Del	DEL	C	C	-																															gaacacctcaaaatggagggCtgagccccgccagcggcagg																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	6760899	C	-	6760899	7	5	297	1	0	1	0	1	0	0	0	0	14235	797	28	0	1593	0	SH2D3A	19	6760899	Frame_Shift_Del	DEL	C	TCGA-BP-4976-01A-01D-1462-08	3227569	6760899	52368084	89	14970											
RPL18A	6142	broad.mit.edu;hgsc.bcm.edu	37	chr19	17972160	17972160	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccaaatgccacacgccgcCcctctaccgcatgcgaatct	9	6	6	20	4	2	0	0	0	2	0	2	1	2	0	7	0	3	1	7	0	3	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	17972160	C	A	17972160	3	1	297	1	0	0	0	0	1	0	0	0	13567	623	22	4	83	4	RPL18A	19	17972160	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	11211261	17972160	41156823	90	14971											
ATP1A3	478	broad.mit.edu;hgsc.bcm.edu	37	chr19	42490382	42490382	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacgatgcccaggtacagCtgtggggagatgtggggatg	9	7	18	7	1	0	1	0	0	0	1	0	4	0	2	1	5	4	3	1	5	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	42490382	C	A	42490382	5	1	297	1	0	0	0	0	0	0	1	0	1130	811	28	4	2760	4	ATP1A3	19	42490382	Splice_Site	SNP	C	TCGA-BP-4976-01A-01D-1462-08	24518222	42490382	16638601	91	14972											
PHLDB3	653583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43999463	43999463	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaggtgttccctgaaggCaattgagctcgagcagccgg	8	7	14	12	3	0	2	0	2	0	0	2	3	1	2	3	3	3	4	3	3	2	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	43999463	C	T	43999463	3	4	297	1	0	0	0	0	1	0	0	0	11853	710	25	2	978	2	PHLDB3	19	43999463	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08	1509081	43999463	15129520	92	14973											
MYBPC2	4606	broad.mit.edu	37	chr19	50962223	50962223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccgccagacctacatccGcaaagtgggcgagcagctca	10	6	10	15	3	2	1	1	0	1	1	4	2	3	1	4	1	3	3	4	1	2	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	50962223	A	A	50962223	3	1	297	1	0	0	0	0	1	0	0	0	10012	1087	38	1	2641	1	MYBPC2	19	50962223	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	6962760	50962223	8166760	93	14974											
SIGLEC9	27180	broad.mit.edu;ucsc.edu	37	chr19	51628430	51628430	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggttccgggaaggggccAatacagaccaggatgctcca	11	6	13	11	1	0	1	0	0	0	1	2	3	2	3	4	5	2	2	4	5	3	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	51628430	C	C	51628430	3	2	297	1	0	0	0	0	1	0	0	0	14317	130	5	5	201	5	SIGLEC9	19	51628430	Missense_Mutation	SNP	A	TCGA-BP-4976-01A-01D-1462-08	666207	51628430	7500553	94	14975											
ZNF343	79175	broad.mit.edu;hgsc.bcm.edu	37	chr20	2464152	2464152	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgcttctcccctgagtgtgtCctctggtggacaaggaggag	6	11	14	10	0	2	1	0	1	2	0	4	4	3	4	3	4	1	1	3	4	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		G	2464152	C	G	2464152	3	3	297	1	0	0	0	0	1	0	0	0	17857	854	30	4	348	4	ZNF343	20	2464152	Missense_Mutation	SNP	C	TCGA-BP-4976-01A-01D-1462-08		2464152	60561368	95	14976											
XRN2	22803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	21314413	21314413	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagaggagcattgatgactgGgttttcatgtgcttctttgt	7	16	13	5	0	2	3	1	2	1	1	2	5	2	4	0	2	2	3	0	2	0	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	21314413	G	C	21314413	3	2	297	1	0	0	0	0	1	0	0	0	17459	1241	43	4	1047	4	XRN2	20	21314413	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	18850261	21314413	41711107	96	14977											
KIF3B	9371	hgsc.bcm.edu;ucsc.edu	37	chr20	30919118	30919119	+	Frame_Shift_Del	DEL	AG	AG	-																															gtctcgggggctggttccaaAgtaaagccagcttctcctct																								novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		-	30919119	AG	-	30919118	7	5	297	1	0	1	0	1	0	0	0	0	8301	72	3	0	2270	0	KIF3B	20	30919118	Frame_Shift_Del	DEL	AG	TCGA-BP-4976-01A-01D-1462-08	9604705	30919118	32106402	97	14978											
SRC	6714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	36024602	36024602	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctgacttcgacaacgcCaagggcctcaacgtgaagca	11	7	11	12	3	2	2	1	2	1	0	3	3	2	2	2	1	3	1	2	1	4	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	36024602	C	A	36024602	2	1	297	1	0	0	0	0	0	0	0	1	15135	581	21	4		4	SRC	20	36024602	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	5105484	36024602	27000918	98	14979											
OPRL1	4987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62729653	62729653	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtgcctggtggagatccCtacccctcaggattactggg	7	9	13	12	1	1	1	1	0	0	1	2	4	2	2	4	4	3	0	4	4	2	2	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	62729653	C	T	62729653	2	4	297	1	0	0	0	0	0	0	0	1	10886	681	24	2		2	OPRL1	20	62729653	Silent	SNP	C	TCGA-BP-4976-01A-01D-1462-08	26705051	62729653	295867	99	14980											
SEZ6L	23544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	26743810	26743810	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccccggctatgacatcGtggggagtgacaccctcacc	8	7	12	14	2	1	3	1	3	0	0	2	4	1	4	4	3	0	1	4	3	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		A	26743810	G	A	26743810	3	1	297	1	0	0	0	0	1	0	0	0	14145	1145	40	1	2380	1	SEZ6L	22	26743810	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08		26743810	24560756	100	14981											
DEPDC5	9681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32188047	32188047	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagtcatgaagtgacagTggtcctgttttctagaactt	9	15	10	7	0	2	3	1	2	1	1	3	3	3	3	1	1	1	2	1	1	4	5	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	32188047	T	C	32188047	3	2	297	1	0	0	0	0	1	0	0	0	4442	1696	59	3	691	3	DEPDC5	22	32188047	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	5444237	32188047	19116519	101	14982											
MPST	4357	broad.mit.edu	37	chr22	37420797	37420797	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatcccggcgcttccaggtgGtggactcccgagccactggc	6	7	13	15	3	0	0	0	0	0	0	3	2	3	1	4	5	1	1	4	5	1	1	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		T	37420797	T	T	37420797	3	4	297	1	0	0	0	0	1	0	0	0	9744	1261	44	4	607	4	MPST	22	37420797	Missense_Mutation	SNP	G	TCGA-BP-4976-01A-01D-1462-08	5232750	37420797	13883769	102	14983											
CYLC1	1538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	83128529	83128529	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaggaattactcacagaaTaattcaaagaattattcttt	17	15	4	5	0	3	2	2	0	1	2	3	3	3	3	0	1	1	0	0	1	8	7	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	83128529	T	C	83128529	2	2	297	1	0	0	0	0	0	0	0	1	4141	1403	49	3		3	CYLC1	23	83128529	Silent	SNP	T	TCGA-BP-4976-01A-01D-1462-08		83128529	72142031	103	14984											
PNMA3	29944	broad.mit.edu	37	chrX	152226515	152226515	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggttggggcagtacctcTccctgcctctggcaacagtt	5	11	13	12	0	2	0	0	0	2	0	3	0	2	0	3	5	3	5	3	5	2	3	novel		TCGA-BP-4976-01A-01D-1462-08	TCGA-BP-4976-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95bd81ec-3c06-4c4d-9915-5cc3dd7a7155	68ce0389-a530-4c46-bb35-d7308b0549f1		C	152226515	C	C	152226515	3	2	297	1	0	0	0	0	1	0	0	0	12155	1551	54	3	1105	3	PNMA3	23	152226515	Missense_Mutation	SNP	T	TCGA-BP-4976-01A-01D-1462-08	69097986	152226515	3044045	104	14985											
TAS1R2	80834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19167003	19167003	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accactcgttattcgggcagGcctggcattcatattcatct	8	13	8	12	2	3	0	2	0	1	0	5	0	3	0	2	3	0	3	2	3	2	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	19167003	G	A	19167003	3	1	298	1	0	0	0	0	1	0	0	0	15562	1203	42	2	913	2	TAS1R2	1	19167003	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08		19167003	230083618	1	14986											
ZBTB41	360023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197159944	197159944	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatggaaataaattcttgtGcattttcaggatgaaatcta	15	15	7	4	0	3	1	1	1	2	0	3	3	3	3	0	2	1	1	0	2	6	7	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	197159944	G	T	197159944	3	4	298	1	0	0	0	0	1	0	0	0	17542	1319	46	4	1415	4	ZBTB41	1	197159944	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08	177992941	197159944	52090677	2	14987											
CAPN9	10753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	230891141	230891141	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggactgatatctgccAgggagagctgggtgagtgta	10	8	15	8	0	1	3	0	2	1	1	1	5	1	4	2	3	2	2	2	3	2	2	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		G	230891141	A	G	230891141	3	3	298	1	0	0	0	0	1	0	0	0	2632	188	7	3	278	3	CAPN9	1	230891141	Missense_Mutation	SNP	A	TCGA-BP-4977-01A-01D-1462-08	33731197	230891141	18359480	3	14988											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32693017	32693017	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaaatgccagagccaaaaTcccattaggattttactatg	15	11	6	9	0	0	1	0	0	0	1	1	2	1	2	3	1	4	0	3	1	7	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		G	32693017	T	G	32693017	3	3	298	1	0	0	0	0	1	0	0	0	1438	1435	50	5	5728	5	BIRC6	2	32693017	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08		32693017	210506356	4	14989											
RANBP2	5903	broad.mit.edu	37	chr2	109382975	109382975	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaataaagcaaacacttccGgtgactttgagaaagatgat	16	9	8	8	1	0	4	0	3	0	2	1	5	1	4	2	1	2	1	2	1	5	3	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		C	109382975	C	C	109382975	3	2	298	1	0	0	0	0	1	0	0	0	13030	1116	39	4	6058	4	RANBP2	2	109382975	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08	76689958	109382975	133816398	5	14990											
GALNT5	11227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158115425	158115425	+	Frame_Shift_Del	DEL	T	T	-																															aaagccaatacgagtcttccTtttcctaagttcactgtcaa																								novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		-	158115425	T	-	158115425	7	5	298	1	0	1	0	1	0	0	0	0	6216	1596	56	0	833	0	GALNT5	2	158115425	Frame_Shift_Del	DEL	T	TCGA-BP-4977-01A-01D-1462-08	48732450	158115425	85083948	6	14991											
COL5A2	1290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	189906379	189906379	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcccaagtggcccagggTttccttctttacctgaagga	7	12	11	11	0	1	1	0	1	1	0	2	2	2	2	4	4	1	1	4	4	3	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		C	189906379	T	C	189906379	3	2	298	1	0	0	0	0	1	0	0	0	3697	1725	60	3	953	3	COL5A2	2	189906379	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	31790954	189906379	53292994	7	14992											
SERPINE2	5270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	224866441	224866441	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcatccccaggaccgaCgcaatcccatggggagagat	12	5	12	12	2	0	2	0	1	0	1	2	6	2	4	4	3	1	2	4	3	2	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	224866441	C	T	224866441	2	4	298	1	0	0	0	0	0	0	0	1	14114	523	19	1		1	SERPINE2	2	224866441	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08	34960062	224866441	18332932	8	14993											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191611	10191612	+	Frame_Shift_Del	DEL	AC	AC	-																															agaaagacctggagcggctgAcacaggagcgcattgcacat																								novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	AC	AC	AC	-	AC	AC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		-	10191612	AC	-	10191611	7	5	298	1	0	1	0	1	0	0	0	0	17161	275	10	0	614	0	VHL	3	10191611	Frame_Shift_Del	DEL	AC	TCGA-BP-4977-01A-01D-1462-08		10191611	187830819	9	14994											
MBD4	8930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	129152917	129152917	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggataccttctttgttatAtttgctggaaaaatacaggc	12	14	9	6	0	1	0	0	0	1	0	1	2	1	2	1	3	3	2	1	3	6	7	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		G	129152917	A	G	129152917	3	3	298	1	0	0	0	0	1	0	0	0	9346	449	16	3	498	3	MBD4	3	129152917	Missense_Mutation	SNP	A	TCGA-BP-4977-01A-01D-1462-08	118961306	129152917	68869513	10	14995											
TMEM165	55858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	56277929	56277929	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattttttatagcagccaTcatggcaatgcgctataacc	12	12	7	10	1	1	0	1	0	0	0	1	1	1	0	2	1	4	3	2	1	5	6	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		C	56277929	T	C	56277929	3	2	298	1	0	0	0	0	1	0	0	0	16079	1435	50	3	362	3	TMEM165	4	56277929	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08		56277929	134876347	11	14996											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127714472	127714472	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaactgccttaccaatgcatGcttgcttggtaggagtcctc	9	12	9	11	0	0	0	0	0	0	0	2	1	1	1	3	2	6	4	3	2	4	4	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	127714472	G	A	127714472	3	1	298	1	0	0	0	0	1	0	0	0	5703	1319	46	2	7239	2	FBN2	5	127714472	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08		127714472	53200788	12	14997											
SLC22A4	6583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131671519	131671519	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcttttccagattattacTtcttatccattggtctggtc	6	20	5	10	0	3	1	0	0	3	1	7	1	5	1	2	2	1	0	2	2	3	7	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	131671519	T	A	131671519	3	1	298	1	0	0	0	0	1	0	0	0	14458	1609	56	5	1300	5	SLC22A4	5	131671519	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	3957047	131671519	49243741	13	14998											
RXRB	6257	broad.mit.edu	37	chr6	33168094	33168094	+	Frame_Shift_Del	DEL	C	-	-																															ggtttgttgttctccgcctgCcaccgccgccgccgccgccg																								novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		-	33168094	-	-	33168094	7	5	298	1	0	1	0	1	0	0	0	0	13766	739	26	0	1481	0	RXRB	6	33168094	Frame_Shift_Del	DEL	C	TCGA-BP-4977-01A-01D-1462-08		33168094	137946973	14	14999											
SEC63	11231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	108227661	108227661	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcacaaataccttcttcaaGggtctcaggaattttcattc	12	14	5	10	0	5	0	4	0	2	0	7	1	5	1	1	2	1	0	1	2	4	6	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	108227661	G	A	108227661	3	1	298	1	0	0	0	0	1	0	0	0	14007	1000	35	2	1378	2	SEC63	6	108227661	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08	75059567	108227661	62887406	15	15000											
CCDC129	223075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	31683360	31683360	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcaggcttctctagtatCtgcccaatgggcacctgcca	8	10	9	14	0	3	0	1	0	2	0	4	1	3	0	3	2	2	3	3	2	3	3	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	31683360	C	A	31683360	2	1	298	1	0	0	0	0	0	0	0	1	2764	903	32	4		4	CCDC129	7	31683360	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08		31683360	127455303	16	15001											
AEBP1	165	broad.mit.edu	37	chr7	44147521	44147521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccccggccccagccccggagGagaggattggtaggatgggg	7	4	18	12	2	0	1	0	0	0	1	0	5	0	4	6	8	1	1	6	8	1	2	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	44147521	A	A	44147521	3	1	298	1	0	0	0	0	1	0	0	0	349	1175	41	2	871	2	AEBP1	7	44147521	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08	12464161	44147521	114991142	17	15002											
COBL	23242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	51261213	51261213	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggtttctgaagaccgaaTttcaagggcatggtgggatg	9	12	15	5	1	2	2	1	1	1	1	2	4	2	3	1	4	0	2	1	4	3	3	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	51261213	T	A	51261213	3	1	298	1	0	0	0	0	1	0	0	0	3653	1493	52	5	3510	5	COBL	7	51261213	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	7113692	51261213	107877450	18	15003											
AKR1B10	57016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134221461	134221461	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttggggtctccaatttcagCcacttccagatcgagaagct	9	11	9	12	1	2	2	1	0	1	2	5	3	3	2	3	2	2	1	3	2	2	3	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		G	134221461	C	G	134221461	3	3	298	1	0	0	0	0	1	0	0	0	467	738	26	4	507	4	AKR1B10	7	134221461	Missense_Mutation	SNP	C	TCGA-BP-4977-01A-01D-1462-08	82960248	134221461	24917202	19	15004											
RNF32	140545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156450264	156450264	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgctcccatgtgttccaCaaagtaagtccacccctcac	10	10	5	16	0	2	0	2	0	0	0	5	0	5	0	5	0	1	3	5	0	2	2	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	156450264	C	T	156450264	2	4	298	1	0	0	0	0	0	0	0	1	13490	477	17	2		2	RNF32	7	156450264	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08	22228803	156450264	2688399	20	15005											
ZNF782	158431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	99581317	99581317	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatctgttgcatgagttcTctgatgcactgggagggttg	6	16	13	6	0	2	2	0	2	2	0	3	3	2	3	0	2	2	5	0	2	1	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		C	99581317	T	C	99581317	3	2	298	1	0	0	0	0	1	0	0	0	18154	1559	54	3	1115	3	ZNF782	9	99581317	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08		99581317	41632114	21	15006											
TNC	3371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117840239	117840239	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgttgtgaaggtctctTtggctgggttgcttgacatg	5	16	13	7	0	1	2	0	2	1	0	2	2	1	2	1	3	2	4	1	3	2	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	117840239	T	A	117840239	3	1	298	1	0	0	0	0	1	0	0	0	16269	1841	64	5	4036	5	TNC	9	117840239	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	18258922	117840239	23373192	22	15007											
LHX6	26468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	124975917	124975917	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcagggtgaccatgcgcGcccgctcggggctgctgaac	5	6	16	14	5	0	2	0	2	0	0	1	2	0	2	2	3	4	4	2	3	1	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	124975917	G	A	124975917	3	1	298	1	0	0	0	0	1	0	0	0	8775	1087	38	1	227	1	LHX6	9	124975917	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08	7135678	124975917	16237514	23	15008											
MAMDC4	158056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139748706	139748706	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacaccaccactgccagaaCaaggtctgcgtggagcccca	11	4	11	15	1	1	1	0	0	1	1	1	3	1	3	5	3	4	0	5	3	2	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	139748706	C	T	139748706	2	4	298	1	0	0	0	0	0	0	0	1	9204	477	17	2		2	MAMDC4	9	139748706	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08	14772789	139748706	1464725	24	15009											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	17151661	17151661	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttgaggagcatgaggcAtctgggtggcagcctccatt	9	9	15	8	0	1	3	0	2	1	1	2	4	2	4	2	4	2	4	2	4	0	2	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	17151661	A	T	17151661	3	4	298	1	0	0	0	0	1	0	0	0	4051	214	8	5	10014	5	CUBN	10	17151661	Missense_Mutation	SNP	A	TCGA-BP-4977-01A-01D-1462-08		17151661	118383086	25	15010											
C10orf107	219621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	63520664	63520664	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggagtctcagccagaaaCtgacacctcagacatggatc	13	7	10	11	0	2	4	2	2	1	2	4	6	2	6	2	2	2	0	2	2	1	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	63520664	C	T	63520664	3	4	298	1	0	0	0	0	1	0	0	0	1581	565	20	2	473	2	C10orf107	10	63520664	Missense_Mutation	SNP	C	TCGA-BP-4977-01A-01D-1462-08	46369003	63520664	72014083	26	15011											
ATE1	11101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123503288	123503288	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcacttgggtctttctgCtgtttcttataaacaccgta	7	17	6	11	1	4	0	1	0	3	0	5	0	5	0	2	1	2	3	2	1	4	6	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	123503288	C	T	123503288	2	4	298	1	0	0	0	0	0	0	0	1	1078	796	28	2		2	ATE1	10	123503288	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08	59982624	123503288	12031459	27	15012											
MOB2	81532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1491652	1491652	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccagtagatgtgtgccAgcacgtggaacaggtgtctg	8	8	16	9	1	1	1	0	0	1	1	1	2	1	2	2	3	3	2	2	3	2	1	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	1491652	A	T	1491652	3	4	298	1	0	0	0	0	1	0	0	0	9681	188	7	5	253	5	MOB2	11	1491652	Missense_Mutation	SNP	A	TCGA-BP-4977-01A-01D-1462-08		1491652	133514864	28	15013											
C11orf73	51501	broad.mit.edu;hgsc.bcm.edu	37	chr11	86048459	86048459	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggagccatgaatattGtccgaactccatctgttgct	8	15	8	10	1	1	1	0	1	1	0	3	3	3	2	3	1	3	2	3	1	3	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	86048459	G	A	86048459	3	1	298	1	0	0	0	0	1	0	0	0	1661	1377	48	2	317	2	C11orf73	11	86048459	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08	84556807	86048459	48958057	29	15014											
PARP11	57097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	3939160	3939160	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgttgttttagaaaataAttcttctgctttgtgaaaca	11	19	7	4	0	2	2	0	1	2	1	2	2	2	2	0	0	2	4	0	0	5	8	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	3939160	A	T	3939160	3	4	298	1	0	0	0	0	1	0	0	0	11456	98	4	5	1001	5	PARP11	12	3939160	Missense_Mutation	SNP	A	TCGA-BP-4977-01A-01D-1462-08		3939160	129912735	30	15015											
MON2	23041	broad.mit.edu	37	chr12	62887719	62887719	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagagaacagctcagaggTtgtacagccttttttaatgg	13	11	11	6	0	1	2	1	0	0	2	1	4	1	2	1	2	4	3	1	2	4	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	62887719	A	A	62887719	3	1	298	1	0	0	0	0	1	0	0	0	9700	1725	60	5	210	5	MON2	12	62887719	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	58948559	62887719	70964176	31	15016											
C12orf74	338809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	93100735	93100735	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactccactcaagattgaccTctgaacctgaaagggccctg	11	8	9	13	0	2	4	1	3	1	1	3	5	3	4	4	1	1	0	4	1	3	1	rs183080897	by1000genomes;alternate_allele	TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		G	93100735	T	G	93100735	3	3	298	1	0	0	0	0	1	0	0	0	1714	1551	54	5	330	5	C12orf74	12	93100735	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	30213016	93100735	40751160	32	15017											
C13orf31	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	44458052	44458052	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagatccagtcaaaaaagCatgtggggttgctcacgctg	11	9	12	9	1	2	1	2	0	0	1	3	1	3	1	1	2	3	5	1	2	3	1	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	44458052	C	A	44458052	3	1	298	1	0	0	0	0	1	0	0	0	1726	710	25	4	897	4	C13orf31	13	44458052	Missense_Mutation	SNP	C	TCGA-BP-4977-01A-01D-1462-08		44458052	70711826	33	15018											
ATP7B	540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	52511675	52511675	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtgccaatggccacaccCatgtctgcctgggccaaggc	7	6	12	16	1	1	0	0	0	1	0	1	0	1	0	6	4	2	0	6	4	2	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	52511675	C	T	52511675	3	4	298	1	0	0	0	0	1	0	0	0	1191	594	21	2	573	2	ATP7B	13	52511675	Missense_Mutation	SNP	C	TCGA-BP-4977-01A-01D-1462-08	8053623	52511675	62658203	34	15019											
ZFYVE26	23503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68270971	68270971	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacaacagatctctctttgGtatggggttgctgaatggaa	11	13	11	6	0	2	2	0	1	2	1	3	3	2	3	0	4	3	3	0	4	5	4	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	68270971	G	T	68270971	3	4	298	1	0	0	0	0	1	0	0	0	17667	1261	44	4	6473	4	ZFYVE26	14	68270971	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08		68270971	39078569	35	15020											
THBS1	7057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	39877708	39877708	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaaggtgtcctgccccaTcatgccctgctccaatgcca	10	8	7	16	0	1	0	1	0	0	0	3	0	3	0	6	1	4	1	6	1	3	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		C	39877708	T	C	39877708	3	2	298	1	0	0	0	0	1	0	0	0	15852	1435	50	3	1086	3	THBS1	15	39877708	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08		39877708	62653684	36	15021											
ADCY9	115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4165079	4165079	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggcaggcgaagccgatgTagaagagcgcataccggaac	14	3	15	9	4	0	2	0	0	0	2	0	6	0	3	2	3	4	3	2	3	6	2	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		C	4165079	T	C	4165079	3	2	298	1	0	0	0	0	1	0	0	0	301	1638	57	3	3736	3	ADCY9	16	4165079	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08		4165079	86189674	37	15022											
CDH1	999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68862136	68862136	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtggtcaaagagcccttaCtgcccccagaggatgacacc	10	6	11	14	1	1	3	1	1	0	2	1	4	1	4	4	3	3	0	4	3	2	1	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	68862136	C	T	68862136	2	4	298	1	0	0	0	0	0	0	0	1	3095	564	20	2		2	CDH1	16	68862136	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08	64697057	68862136	21492617	38	15023											
OR3A1	4994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3195183	3195183	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcctgccctctacagagcGaattcgcaggactgcagctg	8	9	10	14	2	1	1	0	0	1	1	3	3	2	2	2	1	5	3	2	1	2	3	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	3195183	G	A	3195183	3	1	298	1	0	0	0	0	1	0	0	0	11037	1058	37	1	257	1	OR3A1	17	3195183	Missense_Mutation	SNP	G	TCGA-BP-4977-01A-01D-1462-08		3195183	78000027	39	15024											
SSH2	85464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27999019	27999019	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgcattgcattccattcaTtgactgaggattgatctgag	9	15	9	8	0	2	4	1	4	1	0	3	5	3	5	1	1	2	2	1	1	0	6	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		G	27999019	T	G	27999019	3	3	298	1	0	0	0	0	1	0	0	0	15186	1493	52	5	3641	5	SSH2	17	27999019	Missense_Mutation	SNP	T	TCGA-BP-4977-01A-01D-1462-08	24803836	27999019	53196191	40	15025											
SDK2	54549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	71429905	71429905	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagctggtcggggcgccccCgaggtctcacatgctagcac	7	7	13	14	3	1	0	1	0	1	0	3	1	1	0	2	4	3	3	2	4	2	2	rs142980422	by1000genomes	TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		T	71429905	C	T	71429905	2	4	298	1	0	0	0	0	0	0	0	1	13971	639	23	1		1	SDK2	17	71429905	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08	43430886	71429905	9765305	41	15026											
TMX3	54495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	66367641	66367641	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcctttcctaataacttaCccagatactctgtgagcaaa	13	11	6	11	0	1	2	0	1	1	1	2	2	2	2	3	1	4	1	3	1	5	5	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	66367641	C	A	66367641	5	1	298	1	0	0	0	0	0	0	1	0	16267	521	18	4	1015	4	TMX3	18	66367641	Splice_Site	SNP	C	TCGA-BP-4977-01A-01D-1462-08		66367641	11709607	42	15027											
FXYD5	53827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35651641	35651641	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccccagacccagacccagCaactggaaggaacggatggg	14	2	12	13	1	0	2	0	0	0	2	0	5	0	5	4	4	4	1	4	4	4	0	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	35651641	C	A	35651641	3	1	298	1	0	0	0	0	1	0	0	0	6121	711	25	4	243	4	FXYD5	19	35651641	Missense_Mutation	SNP	C	TCGA-BP-4977-01A-01D-1462-08		35651641	23477342	43	15028											
TEX11	56159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	69825332	69825332	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatgttttccgtgcaatCagaattacttgatcagaagg	14	12	8	7	1	2	3	2	1	0	2	3	3	3	3	1	1	3	2	1	1	5	4	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	69825332	C	A	69825332	2	1	298	1	0	0	0	0	0	0	0	1	15773	813	29	4		4	TEX11	23	69825332	Silent	SNP	C	TCGA-BP-4977-01A-01D-1462-08		69825332	85445228	44	15029											
SLC7A3	84889	broad.mit.edu;hgsc.bcm.edu	37	chrX	70148386	70148386	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtgcacgtcccccttaacGaagccagagatcatgacgaa	12	8	9	12	3	1	2	1	1	0	1	2	5	2	2	3	0	3	1	3	0	3	2	novel		TCGA-BP-4977-01A-01D-1462-08	TCGA-BP-4977-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c3bf7c1-07d9-4540-9a5e-614fd60b63ec	1a98cd70-7661-4e02-8d83-30b08d24ceac		A	70148386	G	A	70148386	2	1	298	1	0	0	0	0	0	0	0	1	14700	1049	37	1		1	SLC7A3	23	70148386	Silent	SNP	G	TCGA-BP-4977-01A-01D-1462-08	323054	70148386	85122174	45	15030											
MKNK1	8569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47028508	47028508	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggggccatgtattctgcaGagccacactgtgggggccag	8	7	15	11	0	1	1	0	0	1	1	1	1	1	1	3	4	2	2	3	4	1	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	47028508	G	C	47028508	3	2	299	1	0	0	0	0	1	0	0	0	9604	942	33	4	637	4	MKNK1	1	47028508	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08		47028508	202222113	1	15031											
CYP4A11	1579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47401233	47401233	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgatggctgaaggcacaCttcatgatggtgtccagggt	8	10	13	10	0	1	3	1	3	0	0	2	3	2	3	2	4	0	2	2	4	1	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	47401233	C	T	47401233	2	4	299	1	0	0	0	0	0	0	0	1	4183	564	20	2		2	CYP4A11	1	47401233	Silent	SNP	C	TCGA-BP-4981-01A-01D-1462-08	372725	47401233	201849388	2	15032											
FLG	2312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152285874	152285874	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtctcgtgcctgctcgtgGtgcgatccttgtcttcctcc	1	15	10	15	3	2	0	0	0	2	0	7	1	5	0	4	1	3	1	4	1	0	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	152285874	G	T	152285874	3	4	299	1	0	0	0	0	1	0	0	0	5922	1252	44	4	10701	4	FLG	1	152285874	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08	104884641	152285874	96964747	3	15033											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu	37	chr1	186017962	186017962	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaaaaaactacaatgtcAacatttggggtaagtgtaat	17	11	8	5	0	1	1	1	1	0	0	1	1	1	1	0	2	3	2	0	2	8	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	186017962	A	C	186017962	3	2	299	1	0	0	0	0	1	0	0	0	7220	130	5	5	6734	5	HMCN1	1	186017962	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	33732088	186017962	63232659	4	15034											
KIF14	9928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200586908	200586908	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggaactttttggtcttTgtttaacttgaaggttagac	11	16	10	4	0	1	2	0	1	1	1	1	4	1	3	0	3	2	2	0	3	5	7	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	200586908	T	A	200586908	3	1	299	1	0	0	0	0	1	0	0	0	8276	1812	63	5	4118	5	KIF14	1	200586908	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	14568946	200586908	48663713	5	15035											
ASXL2	55252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	25967152	25967152	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggaatggtccctccaactGaggcggctgcagcagctgcg	7	7	14	13	2	0	1	0	1	0	0	2	2	2	2	2	4	5	4	2	4	2	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	25967152	G	C	25967152	4	2	299	1	0	0	0	0	0	1	0	0	1067	1294	45	4	2257	4	ASXL2	2	25967152	Nonsense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08		25967152	217232221	6	15036											
INO80B	83444	hgsc.bcm.edu	37	chr2	74684832	74684832	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcggccatccccctcaggCccgccgccgcgctgctctgt	3	6	11	21	5	2	0	1	0	1	0	3	0	3	0	6	2	2	2	6	2	0	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	74684832	C	G	74684832	2	3	299	1	0	0	0	0	0	0	0	1	7747	726	26	4		4	INO80B	2	74684832	Silent	SNP	C	TCGA-BP-4981-01A-01D-1462-08	48717680	74684832	168514541	7	15037											
GCC2	9648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109103098	109103098	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacaggaagagtgccgtgcTgccaaggtgcgttcttcagg	8	9	14	10	2	2	1	1	0	1	1	2	2	2	2	2	3	5	2	2	3	3	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	109103098	T	A	109103098	2	1	299	1	0	0	0	0	0	0	0	1	6286	1567	55	5		5	GCC2	2	109103098	Silent	SNP	T	TCGA-BP-4981-01A-01D-1462-08	34418266	109103098	134096275	8	15038											
GADL1	339896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	30769765	30769765	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccagtaagtctatctcaTccaggaggaagtccatgtcc	11	10	8	12	0	2	0	1	0	2	0	6	2	5	2	4	2	1	1	4	2	4	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	30769765	T	C	30769765	3	2	299	1	0	0	0	0	1	0	0	0	6185	1435	50	3	34	3	GADL1	3	30769765	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08		30769765	167252665	9	15039											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52662911	52662911	+	Frame_Shift_Del	DEL	T	T	-																															caaaaacaataaatcacaccTgcataacttgctgcaatttt																								novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		-	52662911	T	-	52662911	7	5	299	1	0	1	0	1	0	0	0	0	11491	1594	55	0	3534	0	PBRM1	3	52662911	Frame_Shift_Del	DEL	T	TCGA-BP-4981-01A-01D-1462-08	21893146	52662911	145359519	10	15040											
ZNF148	7707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	125032327	125032327	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaggatctcctggtgaGgcatacttcgatcttgaagt	10	11	11	9	1	2	2	0	2	2	0	4	4	2	3	1	3	2	2	1	3	3	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	125032327	G	T	125032327	3	4	299	1	0	0	0	0	1	0	0	0	17733	1000	35	4	2250	4	ZNF148	3	125032327	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08	72369416	125032327	72990103	11	15041											
MRPS22	56945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	139074556	139074556	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccaacttggtccagctgtAtcacgtgctccatccagatg	10	10	8	13	1	1	1	1	0	0	1	4	1	4	1	4	1	4	3	4	1	3	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	139074556	A	G	139074556	3	3	299	1	0	0	0	0	1	0	0	0	9833	449	16	3	937	3	MRPS22	3	139074556	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	14042229	139074556	58947874	12	15042											
PLSCR5	389158	broad.mit.edu	37	chr3	146311927	146311927	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctcagtaccaagtatcActaatggaacaaaaaaaaaa	21	7	6	7	0	2	0	2	0	1	0	3	1	2	1	1	2	2	2	1	2	10	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	146311927	C	C	146311927	3	2	299	1	0	0	0	0	1	0	0	0	12113	173	6	5	598	5	PLSCR5	3	146311927	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	7237371	146311927	51710503	13	15043											
KPNA4	3840	broad.mit.edu;ucsc.edu	37	chr3	160254590	160254590	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatcagactcaccttcctTaattcaactacaacttcatt	13	15	1	12	0	4	1	4	0	0	1	5	1	5	1	2	0	3	0	2	0	5	7	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	160254590	G	G	160254590	3	3	299	1	0	0	0	0	1	0	0	0	8432	1751	61	5	1521	5	KPNA4	3	160254590	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	13942663	160254590	37767840	14	15044											
FAM193A	8603	hgsc.bcm.edu	37	chr4	2664872	2664873	+	Frame_Shift_Ins	INS	-	-	A																															taccagcagtagttcctcagINSaagctgatgatgaagaagcg																								novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	2664873	-	A	2664872	7	5	299	1	0	1	1	0	0	0	0	0	5524	943	33	0	1093	0	FAM193A	4	2664872	Frame_Shift_Ins	INS	-	TCGA-BP-4981-01A-01D-1462-08		2664872	188489404	15	15045											
BOD1L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	13602085	13602085	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgaattcttcccctatgcTtgtggaaatcatggcacact	9	14	7	11	1	2	0	1	0	1	0	4	2	3	1	2	2	1	2	2	2	3	5	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	13602085	T	C	13602085	3	2	299	1	0	0	0	0	1	0	0	0	1483	1609	56	3	2784	3	BOD1L	4	13602085	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	10937213	13602085	177552191	16	15046											
UTP3	57050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71555786	71555786	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaacgttatagtggtgaAttatctggcattcgtgcagg	10	12	13	6	2	1	1	0	1	1	0	2	2	1	1	0	3	3	4	0	3	5	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	71555786	A	C	71555786	3	2	299	1	0	0	0	0	1	0	0	0	17100	98	4	5	1394	5	UTP3	4	71555786	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	57953701	71555786	119598490	17	15047											
HNRPDL	9987	broad.mit.edu	37	chr4	83350567	83350567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggagcgttgtatggagcTggatttaaaatggcggcgga	9	9	18	5	4	0	0	0	0	0	0	0	4	0	4	0	7	2	3	0	7	3	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	83350567	C	C	83350567	3	2	299	1	0	0	0	0	1	0	0	0	7276	1580	55	3	1013	3	HNRPDL	4	83350567	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	11794781	83350567	107803709	18	15048											
INTU	27152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	128605608	128605608	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatagaaaatgtcatccAaaccttaaaatttatgtatg	17	13	5	6	0	1	2	1	1	0	1	2	2	2	2	2	0	1	1	2	0	8	5	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	128605608	A	T	128605608	3	4	299	1	0	0	0	0	1	0	0	0	7786	130	5	5	1252	5	INTU	4	128605608	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	45255041	128605608	62548668	19	15049											
PCDHA12	56137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140255597	140255597	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaatgagaattttgagctTaaaataaaaacaaaaaaaga	24	9	5	3	0	0	3	0	2	0	2	0	4	0	3	0	0	2	1	0	0	11	5	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	140255597	T	G	140255597	2	3	299	1	0	0	0	0	0	0	0	1	11522	1741	61	5		5	PCDHA12	5	140255597	Silent	SNP	T	TCGA-BP-4981-01A-01D-1462-08		140255597	40659663	20	15050											
C5orf25	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	175772242	175772242	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taataatcaaaaggattaagCccaaaccccagcaaggagat	19	6	7	9	0	1	1	1	0	0	1	1	3	1	2	3	2	3	1	3	2	7	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	175772242	C	T	175772242	3	4	299	1	0	0	0	0	1	0	0	0	2288	739	26	2	1202	2	C5orf25	5	175772242	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08	35516645	175772242	5143018	21	15051											
MICA	100507436	broad.mit.edu;ucsc.edu	37	chr6	31379000	31379000	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagtcctccagagctcaGaccttggccatgaacgtcag	9	7	9	16	1	2	3	2	1	0	2	4	3	4	3	6	1	2	1	6	1	1	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	31379000	T	T	31379000	3	4	299	1	0	0	0	0	1	0	0	0	9568	933	33	4	487	4	MICA	6	31379000	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08		31379000	139736067	22	15052											
TINAG	27283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54212217	54212217	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtcgatacacggccaaTctatcccctcagaatttgat	12	10	8	11	2	2	2	1	1	1	1	4	3	3	2	3	2	1	0	3	2	5	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	54212217	T	C	54212217	2	2	299	1	0	0	0	0	0	0	0	1	15920	1432	50	3		3	TINAG	6	54212217	Silent	SNP	T	TCGA-BP-4981-01A-01D-1462-08	22833217	54212217	116902850	23	15053											
TNS3	64759	broad.mit.edu;ucsc.edu	37	chr7	47384579	47384579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacacatggactccttgcTacttaaaattctgccatcga	12	12	6	11	1	1	1	0	1	1	0	3	3	2	2	2	1	4	1	2	1	4	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	47384579	C	C	47384579	3	2	299	1	0	0	0	0	1	0	0	0	16343	1522	53	3	1880	3	TNS3	7	47384579	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08		47384579	111754084	24	15054											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48313955	48313955	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaaaaggtatttactttaaCatcctggaaaataattcctc	15	14	5	7	0	0	0	0	0	0	0	3	1	2	1	2	2	2	2	2	2	8	8	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	48313955	C	T	48313955	2	4	299	1	0	0	0	0	0	0	0	1	31	477	17	2		2	ABCA13	7	48313955	Silent	SNP	C	TCGA-BP-4981-01A-01D-1462-08	929376	48313955	110824708	25	15055											
ASPH	444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	62588827	62588827	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcctctgctaaaatattaAggacttcctcaagagaatca	14	13	5	9	0	3	1	2	0	1	1	5	3	5	2	2	1	1	1	2	1	6	5	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	62588827	A	G	62588827	3	3	299	1	0	0	0	0	1	0	0	0	1053	72	3	3	2657	3	ASPH	8	62588827	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08		62588827	83775195	26	15056											
HRCT1	646962	hgsc.bcm.edu	37	chr9	35906601	35906601	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctccaccaccaccaccaccCccaccgccaccatccccgcc	8	2	2	29	2	0	0	0	0	0	0	2	0	2	0	14	0	0	0	14	0	0	0	rs112212538	bycluster;byfrequency;by1000genomes	TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	35906601	C	A	35906601	3	1	299	1	0	0	0	0	1	0	0	0	7353	623	22	4	319	4	HRCT1	9	35906601	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08		35906601	105306830	27	15057											
UCK1	83549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	134405914	134405914	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctttcaaggccttggccTtctgctctgccgtcaggacc	4	12	10	15	1	4	0	2	0	2	0	5	1	5	1	5	3	2	1	5	3	1	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	134405914	T	G	134405914	3	3	299	1	0	0	0	0	1	0	0	0	16922	1609	56	5	630	5	UCK1	9	134405914	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	98499313	134405914	6807517	28	15058											
RAPGEF1	2889	broad.mit.edu	37	chr9	134612882	134612882	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttctctgggagcaggcaCtttcatctacaaccccctag	9	10	8	14	0	3	0	1	0	2	0	4	1	3	1	2	2	4	3	2	2	3	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	134612882	T	T	134612882	1	4	299	1	0	0	0	0	0	0	0	0	13045	580	20	2		2	RAPGEF1	9	134612882	Translation_Start_Site	SNP	C	TCGA-BP-4981-01A-01D-1462-08	206968	134612882	6600549	29	15059											
C9orf96	169436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136260828	136260828	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcagatcccggatgtggaAaccttcaggaatcttctgcc	11	9	10	11	1	3	1	1	0	2	1	4	4	4	4	3	3	3	1	3	3	3	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	136260828	A	C	136260828	3	2	299	1	0	0	0	0	1	0	0	0	2508	11	1	5	838	5	C9orf96	9	136260828	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	1647946	136260828	4952603	30	15060											
ERCC6	2074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50738880	50738880	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgccttagggatgtcgtAcatgacctgaaaaataagat	14	12	9	6	1	0	3	0	2	0	1	1	4	0	4	2	1	2	1	2	1	5	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	50738880	A	C	50738880	3	2	299	1	0	0	0	0	1	0	0	0	5217	389	14	5	4128	5	ERCC6	10	50738880	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08		50738880	84795867	31	15061											
VCL	7414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75860838	75860838	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcagtgaagacggccCgagaactcacaccccaggtt	11	5	11	14	2	2	3	2	1	0	2	2	4	2	3	4	3	1	1	4	3	2	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	75860838	C	G	75860838	3	3	299	1	0	0	0	0	1	0	0	0	17138	644	23	4	2059	4	VCL	10	75860838	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08	25121958	75860838	59673909	32	15062											
SMPD1	6609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6415569	6415569	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctctacagggctcgagAaacctatgggctgcccaaca	10	8	10	13	1	1	1	0	0	1	1	3	2	1	1	2	2	4	3	2	2	4	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	6415569	A	T	6415569	3	4	299	1	0	0	0	0	1	0	0	0	14806	246	9	5	1690	5	SMPD1	11	6415569	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08		6415569	128590947	33	15063											
MTCH2	23788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47652589	47652589	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaacaaaaatacttaccAgtacttggattctctgccaa	16	11	5	9	0	1	1	0	1	1	0	2	2	1	2	2	1	5	1	2	1	8	5	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	47652589	A	G	47652589	3	3	299	1	0	0	0	0	1	0	0	0	9914	202	7	3	461	3	MTCH2	11	47652589	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	41237020	47652589	87353927	34	15064											
KDM5A	5927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	442728	442728	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagatcaggctgggattcAaataactcgggggccagctc	12	7	13	9	1	2	2	2	0	0	2	4	3	2	3	1	4	2	2	1	4	3	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	442728	A	G	442728	2	3	299	1	0	0	0	0	0	0	0	1	8133	127	5	3		3	KDM5A	12	442728	Silent	SNP	A	TCGA-BP-4981-01A-01D-1462-08		442728	133409167	35	15065											
PKP2	5318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32949147	32949147	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttgttcaatgtgtaacaGgcagaggctgtagtttcaat	11	14	11	5	0	2	1	2	0	0	1	2	1	2	1	0	2	1	7	0	2	4	5	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	32949147	G	A	32949147	2	1	299	1	0	0	0	0	0	0	0	1	11985	987	35	2		2	PKP2	12	32949147	Silent	SNP	G	TCGA-BP-4981-01A-01D-1462-08	32506419	32949147	100902748	36	15066											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53682952	53682952	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtcctcctagtgggcTctatgcccacctctgccgct	4	12	8	17	1	3	0	1	0	2	0	5	0	5	0	5	1	2	2	5	1	2	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	53682952	T	C	53682952	3	2	299	1	0	0	0	0	1	0	0	0	5253	1551	54	3	4865	3	ESPL1	12	53682952	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	20733805	53682952	80168943	37	15067											
RDH16	8608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57346629	57346629	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtctgcaacaaacttctCgccataggcctccttgacct	10	10	6	15	1	2	1	0	1	2	0	4	1	3	1	4	1	3	1	4	1	3	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	57346629	C	T	57346629	3	4	299	1	0	0	0	0	1	0	0	0	13196	893	31	1	243	1	RDH16	12	57346629	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08	3663677	57346629	76505266	38	15068											
P2RX2	22953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133198270	133198270	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaggtctacagccataaGaaatttgacaaggtgtgtac	16	9	9	7	0	1	2	0	1	1	1	1	2	1	2	1	2	4	1	1	2	7	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	133198270	G	T	133198270	3	4	299	1	0	0	0	0	1	0	0	0	11340	933	33	4	1244	4	P2RX2	12	133198270	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08	75851641	133198270	653625	39	15069											
PCID2	55795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	113854792	113854792	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaagacaccaactctgcAcaagatgctccatctctgct	13	10	5	13	0	2	2	0	0	2	2	4	2	3	2	2	0	4	3	2	0	4	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	113854792	A	G	113854792	2	3	299	1	0	0	0	0	0	0	0	1	11579	157	6	3		3	PCID2	13	113854792	Silent	SNP	A	TCGA-BP-4981-01A-01D-1462-08		113854792	1315086	40	15070											
PRKCH	5583	broad.mit.edu	37	chr14	61789073	61789073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcggccacctcgagttggCcgtcttccacgagacgcccc	5	6	12	18	6	1	1	0	0	1	1	3	3	2	1	6	3	0	1	6	3	0	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	61789073	T	T	61789073	3	4	299	1	0	0	0	0	1	0	0	0	12515	739	26	2	256	2	PRKCH	14	61789073	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08		61789073	45560467	41	15071											
HSP90AA1	3320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102551690	102551690	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcttcacaatctcctttAttcttcgttcctccaagtac	7	18	3	13	1	4	0	1	0	3	0	8	0	6	0	3	0	1	3	3	0	4	8	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	102551690	A	G	102551690	3	3	299	1	0	0	0	0	1	0	0	0	7401	449	16	3	1622	3	HSP90AA1	14	102551690	Missense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	40762617	102551690	4797850	42	15072											
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu	37	chr14	105410662	105410662	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctccctcgggcacctggCcctccgggagcttcacatcc	4	7	11	19	3	1	0	1	0	0	0	5	1	4	1	5	4	1	3	5	4	0	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	105410662	C	T	105410662	3	4	299	1	0	0	0	0	1	0	0	0	415	739	26	2	6265	2	AHNAK2	14	105410662	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08	2858972	105410662	1938878	43	15073											
MSLN	10232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	816775	816775	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgtgctccctcagcccCgaggagctgagctccgtgcc	5	8	11	17	2	1	1	1	1	0	0	3	3	3	2	6	1	6	3	6	1	1	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		G	816775	C	G	816775	2	3	299	1	0	0	0	0	0	0	0	1	9881	639	23	4		4	MSLN	16	816775	Silent	SNP	C	TCGA-BP-4981-01A-01D-1462-08		816775	89537978	44	15074											
MYH11	4629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15872668	15872668	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctcccacgatgtaaccCgtgacgtcgaagttgatgcg	8	10	12	11	5	0	2	0	2	0	0	2	4	1	2	2	1	2	3	2	1	2	3	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	15872668	C	T	15872668	2	4	299	1	0	0	0	0	0	0	0	1	10031	639	23	1		1	MYH11	16	15872668	Silent	SNP	C	TCGA-BP-4981-01A-01D-1462-08	15055893	15872668	74482085	45	15075											
NOMO3	408050	hgsc.bcm.edu	37	chr16	16374089	16374089	+	Frame_Shift_Del	DEL	G	G	-																															taaacggagagcccgaacaaGgggttgccatggaagcggtg																								novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		-	16374089	G	-	16374089	7	5	299	1	0	1	0	1	0	0	0	0	10533	1000	35	0	3027	0	NOMO3	16	16374089	Frame_Shift_Del	DEL	G	TCGA-BP-4981-01A-01D-1462-08	501421	16374089	73980664	46	15076											
NOMO2	283820	hgsc.bcm.edu	37	chr16	18525759	18525759	+	Frame_Shift_Del	DEL	C	C	-																															gcccaccgcttccatggcaaCcccttgttcgggctctccgt																								novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		-	18525759	C	-	18525759	7	5	299	1	0	1	0	1	0	0	0	0	10532	507	18	0	907	0	NOMO2	16	18525759	Frame_Shift_Del	DEL	C	TCGA-BP-4981-01A-01D-1462-08	2151670	18525759	71828994	47	15077											
METTL9	51108	broad.mit.edu;hgsc.bcm.edu	37	chr16	21611123	21611123	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcgcggaggatgtggacGctgcggagcccgctcacccg	5	5	17	14	6	1	0	1	0	0	0	1	4	1	4	2	5	2	2	2	5	0	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	21611123	G	C	21611123	2	2	299	1	0	0	0	0	0	0	0	1	9508	1074	38	4		4	METTL9	16	21611123	Silent	SNP	G	TCGA-BP-4981-01A-01D-1462-08	3085364	21611123	68743630	48	15078											
CDH11	1009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	64984852	64984852	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgccatcgctgatcactatgGgcagaaggtacaagtcctgc	10	8	11	12	2	1	2	1	1	0	1	3	2	2	2	2	2	2	3	2	2	4	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	64984852	G	A	64984852	3	1	299	1	0	0	0	0	1	0	0	0	3097	1232	43	2	686	2	CDH11	16	64984852	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08	43373729	64984852	25369901	49	15079											
TMEM49	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57915760	57915760	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaaatgggcacaccacaggTaagactttaatccggtttct	12	10	9	10	2	1	1	0	0	1	1	2	2	2	1	2	3	0	3	2	3	3	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	57915760	T	C	57915760	5	2	299	1	0	0	0	0	0	0	1	0	16172	1652	57	3	1117	3	TMEM49	17	57915760	Splice_Site	SNP	T	TCGA-BP-4981-01A-01D-1462-08		57915760	23279450	50	15080											
ANKRD12	23253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	9211598	9211598	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagattccacaccaaatcaTccatcacaaacaacgcctgc	16	6	3	16	1	2	1	2	0	0	1	4	1	4	1	4	0	3	0	4	0	3	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	9211598	T	C	9211598	2	2	299	1	0	0	0	0	0	0	0	1	640	1432	50	3		3	ANKRD12	18	9211598	Silent	SNP	T	TCGA-BP-4981-01A-01D-1462-08		9211598	68865650	51	15081											
THEG	51298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	375870	375870	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggctctcgtacacagagCtctggaggccacgggggtcg	6	6	16	13	4	2	1	0	0	2	1	4	2	2	2	2	5	2	3	2	5	1	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	375870	C	T	375870	3	4	299	1	0	0	0	0	1	0	0	0	15856	797	28	2	1070	2	THEG	19	375870	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08		375870	58753113	52	15082											
DOT1L	84444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2214517	2214517	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggactgggccacgctgtcGctggagaagctgttgaagga	8	8	16	9	2	0	2	0	1	0	1	1	5	0	4	1	4	1	4	1	4	2	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	2214517	G	A	2214517	2	1	299	1	0	0	0	0	0	0	0	1	4709	1074	38	1		1	DOT1L	19	2214517	Silent	SNP	G	TCGA-BP-4981-01A-01D-1462-08	1838647	2214517	56914466	53	15083											
VAV1	7409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6828883	6828883	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggggaactcaagatcaccTcggtggaacggcgctccaag	11	5	13	12	4	2	1	2	0	0	1	4	3	3	3	2	5	2	1	2	5	4	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		C	6828883	T	C	6828883	3	2	299	1	0	0	0	0	1	0	0	0	17130	1551	54	3	1287	3	VAV1	19	6828883	Missense_Mutation	SNP	T	TCGA-BP-4981-01A-01D-1462-08	4614366	6828883	52300100	54	15084											
EMR3	84658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14749072	14749072	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttccgtgcagtgaggaagagGtgcacaccctccagcagcat	10	7	12	12	1	0	2	0	1	0	1	2	3	2	3	3	2	4	4	3	2	1	1	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	14749072	G	T	14749072	3	4	299	1	0	0	0	0	1	0	0	0	5106	1252	44	4	653	4	EMR3	19	14749072	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08	7920189	14749072	44379911	55	15085											
SIGLEC11	114132	broad.mit.edu;hgsc.bcm.edu	37	chr19	50461806	50461806	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagcctcccaggagcaggagGggcccagcagctgtggaggg	8	3	18	12	0	0	0	0	0	0	0	1	3	1	3	3	6	4	3	3	6	0	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	50461806	G	A	50461806	3	1	299	1	0	0	0	0	1	0	0	0	14309	1232	43	2	727	2	SIGLEC11	19	50461806	Missense_Mutation	SNP	G	TCGA-BP-4981-01A-01D-1462-08	35712734	50461806	8667177	56	15086											
CHGB	1114	broad.mit.edu;hgsc.bcm.edu	37	chr20	5903114	5903114	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagaggcaggagccccaggGgaggaggacatccaaggccc	11	1	18	11	0	0	1	0	0	0	1	1	6	1	5	4	8	1	1	4	8	1	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		A	5903114	G	A	5903114	2	1	299	1	0	0	0	0	0	0	0	1	3339	1219	43	2		2	CHGB	20	5903114	Silent	SNP	G	TCGA-BP-4981-01A-01D-1462-08		5903114	57122406	57	15087											
PHF20	51230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34487450	34487450	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatttccatggaatggagAagtcactggagccagaagag	14	8	13	6	0	1	3	1	0	0	3	2	6	2	5	2	3	1	1	2	3	4	2	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	34487450	A	T	34487450	4	4	299	1	0	0	0	0	0	1	0	0	11831	247	9	5	1475	5	PHF20	20	34487450	Nonsense_Mutation	SNP	A	TCGA-BP-4981-01A-01D-1462-08	28584336	34487450	28538070	58	15088											
MC3R	4159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	54824097	54824097	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctggccgtggtcaggaaCggcaacctgcactccccgat	8	7	11	15	3	1	0	1	0	0	0	3	2	3	1	5	4	3	2	5	4	2	0	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	54824097	C	T	54824097	2	4	299	1	0	0	0	0	0	0	0	1	9365	535	19	1		1	MC3R	20	54824097	Silent	SNP	C	TCGA-BP-4981-01A-01D-1462-08	20336647	54824097	8201423	59	15089											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107909822	107909822	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggacagaagggtgaacCaggtgctgtagtttttcatt	10	12	13	6	0	1	2	1	1	0	1	1	3	1	3	1	3	3	4	1	3	3	4	novel		TCGA-BP-4981-01A-01D-1462-08	TCGA-BP-4981-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64a1f085-50cc-4129-a617-e0f691a58039	9e6bf5b2-d784-40eb-a221-80f2bf7894dd		T	107909822	C	T	107909822	3	4	299	1	0	0	0	0	1	0	0	0	3694	594	21	2	3705	2	COL4A5	23	107909822	Missense_Mutation	SNP	C	TCGA-BP-4981-01A-01D-1462-08		107909822	47360738	60	15090											
AGRN	375790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	970662	970662	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttgttttcttccagataaaCccgggacccacttcactcca	9	13	5	14	1	2	1	1	0	1	1	4	2	4	2	4	1	1	1	4	1	2	6	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	970662	C	A	970662	3	1	300	1	0	0	0	0	1	0	0	0	397	507	18	4	479	4	AGRN	1	970662	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		970662	248279959	1	15091											
ACADM	34	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	76205772	76205772	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggtcagaagatgtggatAaccaacggaggaaaagctaa	18	6	12	5	1	1	2	1	0	0	2	1	5	1	5	1	4	3	1	1	4	7	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		G	76205772	A	G	76205772	3	3	300	1	0	0	0	0	1	0	0	0	113	352	13	3	614	3	ACADM	1	76205772	Missense_Mutation	SNP	A	TCGA-BP-4982-01A-01D-1462-08	75235110	76205772	173044849	2	15092											
CLCC1	23155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109482394	109482394	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaaatgtggtgaatgtaActgcaagtgcctaaaacgag	15	10	10	6	1	0	1	0	1	0	0	0	2	0	1	1	1	5	2	1	1	7	3	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	109482394	A	T	109482394	3	4	300	1	0	0	0	0	1	0	0	0	3460	43	2	5	762	5	CLCC1	1	109482394	Missense_Mutation	SNP	A	TCGA-BP-4982-01A-01D-1462-08	33276622	109482394	139768227	3	15093											
UBL4B	164153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110655193	110655193	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctcctgggccagagaTgcagtctgaaggtgtcaggg	8	8	16	9	0	2	2	1	1	1	1	3	3	3	2	2	3	3	3	2	3	1	0	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	110655193	T	A	110655193	3	1	300	1	0	0	0	0	1	0	0	0	16887	1464	51	5	39	5	UBL4B	1	110655193	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08	1172799	110655193	138595428	4	15094											
AP4B1	10717	broad.mit.edu;ucsc.edu	37	chr1	114439000	114439000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaatgtttccgacttcaCattctcaacaaagtcctcta	12	13	5	11	1	3	0	2	0	2	0	6	2	5	1	2	1	1	1	2	1	4	4	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	114439000	A	A	114439000	3	1	300	1	0	0	0	0	1	0	0	0	751	478	17	4	841	4	AP4B1	1	114439000	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08	3783807	114439000	134811621	5	15095											
C1orf65	164127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223568377	223568377	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgacaggccaggagtcaCgtgcacaagaccactaggga	13	4	12	12	2	1	1	1	0	0	1	2	4	2	3	3	3	1	1	3	3	2	1	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	223568377	C	T	223568377	2	4	300	1	0	0	0	0	0	0	0	1	2055	535	19	1		1	C1orf65	1	223568377	Silent	SNP	C	TCGA-BP-4982-01A-01D-1462-08	109129377	223568377	25682244	6	15096											
PARP1	142	broad.mit.edu;ucsc.edu	37	chr1	226564845	226564845	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagggggtagaactttttGggatacttcgtgaaattttt	9	16	11	5	1	0	2	0	1	0	1	2	3	1	3	1	3	2	1	1	3	4	7	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		C	226564845	C	C	226564845	2	2	300	1	0	0	0	0	0	0	0	1	11454	1335	47	4		4	PARP1	1	226564845	Silent	SNP	G	TCGA-BP-4982-01A-01D-1462-08	2996468	226564845	22685776	7	15097											
PLB1	151056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	28752200	28752200	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtcctttcagacatcatCagatatttcagtccttctgt	9	17	5	10	0	5	2	4	0	1	2	7	2	7	2	2	0	0	0	2	0	2	5	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	28752200	C	A	28752200	2	1	300	1	0	0	0	0	0	0	0	1	12024	816	29	4		4	PLB1	2	28752200	Silent	SNP	C	TCGA-BP-4982-01A-01D-1462-08		28752200	214447173	8	15098											
VHL	7428	broad.mit.edu	37	chr3	10183794	10183794	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtcgtgctgcccgtatGgctcaacttcgacggcgagc	5	8	14	14	7	1	0	1	0	0	0	3	2	1	0	1	2	4	3	1	2	2	2	rs119103277	alternate_allele	TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454;Illumina Miseq;PacBio			Illumina GAIIx	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	10183794	A	A	10183794	4	1	300	1	0	0	0	0	0	1	0	0	17161	1357	47	2	265	2	VHL	3	10183794	Nonsense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08		10183794	187838636	9	15099											
XPC	7508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	14188848	14188848	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagacctttggccagcaacTtccagttccctagagcccgc	8	8	9	16	1	0	2	0	0	0	2	2	2	2	2	5	1	3	3	5	1	2	4	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		G	14188848	T	G	14188848	3	3	300	1	0	0	0	0	1	0	0	0	17440	1609	56	5	284	5	XPC	3	14188848	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08	4005054	14188848	183833582	10	15100											
SCAP	22937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47455554	47455554	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcaccagcaggttgtcTgagatgacacccaagcttgc	10	8	10	13	0	2	2	1	2	1	1	2	3	2	2	3	1	3	3	3	1	1	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	47455554	T	A	47455554	2	1	300	1	0	0	0	0	0	0	0	1	13879	1567	55	5		5	SCAP	3	47455554	Silent	SNP	T	TCGA-BP-4982-01A-01D-1462-08	33266706	47455554	150566876	11	15101											
NDUFAF3	25915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49059885	49059885	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggcaatgtacatcgacAgctacaacagccgcggcttc	11	7	9	14	3	1	0	1	0	0	0	3	1	1	0	1	2	5	4	1	2	4	3	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		G	49059885	A	G	49059885	3	3	300	1	0	0	0	0	1	0	0	0	10276	188	7	3	190	3	NDUFAF3	3	49059885	Missense_Mutation	SNP	A	TCGA-BP-4982-01A-01D-1462-08	1604331	49059885	148962545	12	15102											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52702612	52702612	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagtttctgttggatttTcatcaagtcaatgggctgag	8	18	10	5	0	4	1	3	1	1	0	4	2	4	2	0	2	0	3	0	2	3	6	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	52702612	T	A	52702612	4	1	300	1	0	0	0	0	0	1	0	0	11491	1792	62	5	4726	5	PBRM1	3	52702612	Nonsense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08	3642727	52702612	145319818	13	15103											
NIT2	56954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	100059917	100059917	+	Missense_Mutation	SNP	G	G	T																															gtttcttctctcaatgaaagGctctatccctgaagaggatg																								novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	100059917	G	T	100059917	3	4	300	1	0	0	0	0	1	0	0	0	10434	1217	42	4	262	4	NIT2	3	100059917	Missense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08	47357305	100059917	97962513	14	15104	199	2									
NIT2	56954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	100059918	100059918	+	Silent	SNP	C	C	T																															tttcttctctcaatgaaaggCtctatccctgaagaggatgc																								novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	100059918	C	T	100059918	2	4	300	1	0	0	0	0	0	0	0	1	10434	811	28	2		2	NIT2	3	100059918	Silent	SNP	C	TCGA-BP-4982-01A-01D-1462-08	1	100059918	97962512	15	15105	199	2									
C3orf17	25871	broad.mit.edu;hgsc.bcm.edu	37	chr3	112732116	112732116	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttcaagatattcaaggaTacagaaaagttttgcagcag	16	12	8	5	0	2	2	2	0	0	2	2	3	2	3	0	1	3	3	0	1	7	7	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		C	112732116	T	C	112732116	1	2	300	0	1	0	0	0	0	0	0	0	2210	1421	49	3		3	C3orf17	3	112732116	RNA	SNP	T	TCGA-BP-4982-01A-01D-1462-08	12672198	112732116	85290314	16	15106											
SKIV2L2	23517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54618206	54618206	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaactaataatggaaaaaaTaagagagatgtagatttcga	20	10	8	3	1	1	3	1	0	0	3	2	6	1	4	0	1	1	1	0	1	8	5	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		C	54618206	T	C	54618206	2	2	300	1	0	0	0	0	0	0	0	1	14362	1403	49	3		3	SKIV2L2	5	54618206	Silent	SNP	T	TCGA-BP-4982-01A-01D-1462-08		54618206	126297054	17	15107											
OR2H2	7932	broad.mit.edu;hgsc.bcm.edu	37	chr6	29556320	29556320	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagatccaggtggctgttgCcagtgtcttcatcttggttg	5	15	13	8	0	3	1	1	1	2	1	4	2	4	1	2	3	1	3	2	3	0	4	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	29556320	C	T	29556320	3	4	300	1	0	0	0	0	1	0	0	0	11002	739	26	2	601	2	OR2H2	6	29556320	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		29556320	141558747	18	15108											
TCP11	6954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35086135	35086135	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagggaccaaacacctgctGattgtgatgtgtcaagttga	11	11	12	7	0	1	3	1	3	0	0	1	4	1	4	2	1	2	3	2	1	3	3	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	35086135	G	T	35086135	3	4	300	1	0	0	0	0	1	0	0	0	15712	1299	45	4	92	4	TCP11	6	35086135	Missense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08	5529815	35086135	136028932	19	15109											
CUX1	1523	broad.mit.edu;hgsc.bcm.edu	37	chr7	101813771	101813771	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggagaccttaagggaacagCtctcatcggccaatcactcc	11	7	9	14	2	2	1	2	0	1	1	5	3	3	2	3	3	2	1	3	3	3	1	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	101813771	C	A	101813771	3	1	300	1	0	0	0	0	1	0	0	0	4064	797	28	4	874	4	CUX1	7	101813771	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		101813771	57324892	20	15110											
UBE2H	7328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129592346	129592346	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctccacgaaggatacagcTtgaccacgtccgtgtccatc	9	8	8	16	3	0	1	0	1	0	0	4	3	3	2	5	1	2	1	5	1	2	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	129592346	T	A	129592346	3	1	300	1	0	0	0	0	1	0	0	0	16857	1609	56	5	529	5	UBE2H	7	129592346	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08	27778575	129592346	29546317	21	15111											
WHSC1L1	54904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38173525	38173525	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggcgcgactccttttctTtagaggtttacaggaatctg	8	14	11	8	2	2	2	0	1	2	1	3	4	3	3	1	3	1	1	1	3	3	6	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		C	38173525	T	C	38173525	3	2	300	1	0	0	0	0	1	0	0	0	17362	1850	64	3	2482	3	WHSC1L1	8	38173525	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08		38173525	108190497	22	15112											
SPAG8	26206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35810979	35810979	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatagtcagcagtccccGgtgtccgtgtcggaagaaaa	10	9	12	10	3	1	1	1	0	0	1	4	2	3	2	3	2	2	2	3	2	4	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	35810979	G	A	35810979	3	1	300	1	0	0	0	0	1	0	0	0	14986	1115	39	1	788	1	SPAG8	9	35810979	Missense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08		35810979	105402452	23	15113											
SYT15	83849	broad.mit.edu;hgsc.bcm.edu	37	chr10	46968685	46968685	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcacccaatctcggcctTgaagggttgggggcaccacg	7	6	16	12	2	1	1	0	1	1	0	2	1	1	1	3	6	0	3	3	6	2	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		G	46968685	T	G	46968685	3	3	300	1	0	0	0	0	1	0	0	0	15470	1812	63	5	1092	5	SYT15	10	46968685	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08		46968685	88566062	24	15114											
SUPV3L1	6832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70967647	70967647	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaagaatattaaagacctCatggatcttgaagctgtcca	14	11	7	9	0	2	3	1	1	1	2	3	4	3	4	3	1	1	1	3	1	6	4	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	70967647	C	A	70967647	2	1	300	1	0	0	0	0	0	0	0	1	15401	813	29	4		4	SUPV3L1	10	70967647	Silent	SNP	C	TCGA-BP-4982-01A-01D-1462-08	23998962	70967647	64567100	25	15115											
HPSE2	60495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	100481428	100481428	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctacccatctaggagggcGatgacattcttcctcggccg	8	9	10	14	3	2	1	0	1	2	0	4	3	3	2	4	3	1	0	4	3	2	4	rs142810016	alternate_allele	TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	100481428	G	A	100481428	2	1	300	1	0	0	0	0	0	0	0	1	7345	1048	37	1		1	HPSE2	10	100481428	Silent	SNP	G	TCGA-BP-4982-01A-01D-1462-08	29513781	100481428	35053319	26	15116											
CCDC59	29080	hgsc.bcm.edu;ucsc.edu	37	chr12	82752142	82752143	+	Frame_Shift_Del	DEL	CT	CT	-																															gccgccacttcgcggaccgcCtcaccggcgccattgcagcc																								novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		-	82752143	CT	-	82752142	7	5	300	1	0	1	0	1	0	0	0	0	2829	681	24	0	727	0	CCDC59	12	82752142	Frame_Shift_Del	DEL	CT	TCGA-BP-4982-01A-01D-1462-08		82752142	51099753	27	15117											
ACIN1	22985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23549183	23549183	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagatccttctgggctgagTagtcagccagtgtgcttttc	7	13	11	10	0	2	2	1	1	1	1	4	2	3	2	2	1	2	3	2	1	2	4	rs112438189	alternate_allele	TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	23549183	T	A	23549183	3	1	300	1	0	0	0	0	1	0	0	0	142	1638	57	5	2693	5	ACIN1	14	23549183	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08		23549183	83800357	28	15118											
GLDN	342035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51696755	51696755	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatcctctatgtcacagacaCcaaagatatgagggtcacat	15	9	7	10	0	3	3	2	1	1	2	4	3	4	3	2	1	0	0	2	1	4	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	51696755	C	A	51696755	3	1	300	1	0	0	0	0	1	0	0	0	6434	507	18	4	1498	4	GLDN	15	51696755	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		51696755	50834637	29	15119											
NDE1	54820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15761201	15761201	+	Missense_Mutation	SNP	G	G	A																															agggaagccgagaatatgaaGctgaattggagacgcagctg																								novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	15761201	G	A	15761201	3	1	300	1	0	0	0	0	1	0	0	0	10243	971	34	2	148	2	NDE1	16	15761201	Missense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08		15761201	74593552	30	15120	200	2									
NDE1	54820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15761202	15761202	+	Missense_Mutation	SNP	C	C	G																															gggaagccgagaatatgaagCtgaattggagacgcagctgc																								novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		G	15761202	C	G	15761202	3	3	300	1	0	0	0	0	1	0	0	0	10243	797	28	4	149	4	NDE1	16	15761202	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08	1	15761202	74593551	31	15121	200	2									
RABEP1	9135	hgsc.bcm.edu	37	chr17	5268432	5268432	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaggtgaaaaaactacagCtgatgctaaggcaagctaat	17	8	9	7	0	0	2	0	2	0	0	0	2	0	2	0	2	6	4	0	2	8	4	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	5268432	C	A	5268432	3	1	300	1	0	0	0	0	1	0	0	0	12963	796	28	4	1726	4	RABEP1	17	5268432	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		5268432	75926778	32	15122											
LUC7L3	51747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48818534	48818534	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgatacttacagagcttacTtgcagaagtagaacgtagga	14	9	11	7	2	0	3	0	0	0	3	0	5	0	4	0	1	6	4	0	1	7	6	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		G	48818534	T	G	48818534	3	3	300	1	0	0	0	0	1	0	0	0	9084	1609	56	5	292	5	LUC7L3	17	48818534	Missense_Mutation	SNP	T	TCGA-BP-4982-01A-01D-1462-08	43550102	48818534	32376676	33	15123											
SETBP1	26040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	42531862	42531862	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctaaaggaaatcacgCtgtcccctgtgagcgagtcc	9	8	10	14	2	1	1	1	1	0	0	4	3	4	2	4	1	1	2	4	1	3	1	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	42531862	C	A	42531862	3	1	300	1	0	0	0	0	1	0	0	0	14131	796	28	4	2760	4	SETBP1	18	42531862	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		42531862	35545386	34	15124											
ST8SIA3	51046	broad.mit.edu;ucsc.edu	37	chr18	55020256	55020256	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgttccacgcgggattccGgtgagtgcgggcctctgtgt	4	11	15	11	4	1	1	0	1	1	0	3	2	3	2	3	3	1	1	3	3	0	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	55020256	T	T	55020256	3	4	300	1	0	0	0	0	1	0	0	0	15234	1130	39	4	181	4	ST8SIA3	18	55020256	Missense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08	12488394	55020256	23056992	35	15125											
AZU1	566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	830861	830861	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcccaggtttgtcaacGtgactgtgacccccgaggac	7	11	11	12	2	1	2	1	2	0	0	2	4	2	3	3	2	1	2	3	2	1	3	rs145363133		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	830861	G	A	830861	3	1	300	1	0	0	0	0	1	0	0	0	1243	1145	40	1	528	1	AZU1	19	830861	Missense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08		830861	58298122	36	15126											
ZNF283	284349	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44352476	44352476	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaaacctttcaaatgtaagGaatgtgggaaggccttcagt	14	10	11	6	0	2	1	2	0	0	1	2	3	2	3	2	3	1	1	2	3	5	3	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	44352476	G	T	44352476	4	4	300	1	0	0	0	0	0	1	0	0	17819	1175	41	4	1737	4	ZNF283	19	44352476	Nonsense_Mutation	SNP	G	TCGA-BP-4982-01A-01D-1462-08	43521615	44352476	14776507	37	15127											
FTL	2512	broad.mit.edu;hgsc.bcm.edu	37	chr19	49468842	49468842	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcaatttgtacctgcaGgcctcctacacctacctctc	7	12	6	16	0	2	0	1	0	1	0	4	0	3	0	5	2	4	2	5	2	4	4	rs11553227	alternate_allele	TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	49468842	G	A	49468842	2	1	300	1	0	0	0	0	0	0	0	1	6084	991	35	2		2	FTL	19	49468842	Silent	SNP	G	TCGA-BP-4982-01A-01D-1462-08	5116366	49468842	9660141	38	15128											
PSMF1	9491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	1144992	1144992	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggcatgattgtggatccCctgagatctggcttcccaag	7	11	13	10	0	1	2	0	2	1	1	3	4	3	3	3	4	0	2	3	4	1	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		T	1144992	C	T	1144992	2	4	300	1	0	0	0	0	0	0	0	1	12712	610	22	2		2	PSMF1	20	1144992	Silent	SNP	C	TCGA-BP-4982-01A-01D-1462-08		1144992	61880528	39	15129											
BPI	671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	36946865	36946865	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgagctgcaaccttatttCcagactctgccaggtgaggg	8	10	11	12	1	1	2	0	1	1	1	3	3	3	2	4	2	4	2	4	2	2	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	36946865	C	A	36946865	3	1	300	1	0	0	0	0	1	0	0	0	1490	854	30	4	685	4	BPI	20	36946865	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08	35801873	36946865	26078655	40	15130											
KRTAP10-3	386682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	45978577	45978577	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtaagcgctggagcagaCggacatggtagacgtggcca	12	5	16	8	3	0	3	0	0	0	3	0	5	0	5	1	4	2	4	1	4	2	2	novel		TCGA-BP-4982-01A-01D-1462-08	TCGA-BP-4982-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84591a73-bed0-4ad5-9acd-8f31acf27af0	7e643798-5764-43b3-bd79-a92f2c34415b		A	45978577	C	A	45978577	3	1	300	1	0	0	0	0	1	0	0	0	8510	536	19	4	647	4	KRTAP10-3	21	45978577	Missense_Mutation	SNP	C	TCGA-BP-4982-01A-01D-1462-08		45978577	2151318	41	15131											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16256120	16256120	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggaccagagagagaagacGttaggaaaaactattgcagt	18	6	12	5	1	0	3	0	0	0	3	0	7	0	5	1	2	2	2	1	2	6	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	16256120	G	A	16256120	3	1	301	1	0	0	0	0	1	0	0	0	15039	1145	40	1	3427	1	SPEN	1	16256120	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08		16256120	232994501	1	15132											
EPHB2	2048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	23191446	23191446	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagtggacccctccccgCgactccggaggccgagagga	7	4	15	15	4	0	1	0	0	0	1	2	7	2	5	6	5	0	0	6	5	0	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	23191446	C	T	23191446	2	4	301	1	0	0	0	0	0	0	0	1	5175	755	27	1		1	EPHB2	1	23191446	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08	6935326	23191446	226059175	2	15133											
HIVEP3	59269	broad.mit.edu	37	chr1	41976454	41976454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggctctgcaggtgcccCggtcccatggggtgtccagt	3	10	16	12	1	1	0	0	0	1	0	3	0	3	0	4	5	2	2	4	5	0	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	41976454	A	A	41976454	3	1	301	1	0	0	0	0	1	0	0	0	7188	652	23	4	335	4	HIVEP3	1	41976454	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	18785008	41976454	207274167	3	15134											
PTBP2	58155	broad.mit.edu;ucsc.edu	37	chr1	97236294	97236294	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactagcaaccgaggaagcaGctattactatggttaattac	15	10	8	8	1	0	0	0	0	0	0	0	2	0	1	1	2	7	4	1	2	9	6	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	97236294	C	C	97236294	3	2	301	1	0	0	0	0	1	0	0	0	12728	971	34	4	337	4	PTBP2	1	97236294	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	55259840	97236294	152014327	4	15135											
HCN3	57657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155252388	155252388	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtggtggaggagggtgcTgagatcctgctggcaccgcg	6	8	18	9	3	0	1	0	1	0	1	2	4	1	3	2	5	2	3	2	5	0	0	rs140564885	alternate_allele	TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	155252388	T	C	155252388	2	2	301	1	0	0	0	0	0	0	0	1	6998	1567	55	3		3	HCN3	1	155252388	Silent	SNP	T	TCGA-BP-4983-01A-01D-1462-08	58016094	155252388	93998233	5	15136											
CADM3	57863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159170640	159170640	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccgacgatgctccagaCgcggacacggccatcatcaa	10	5	11	15	5	2	1	2	0	0	1	4	4	4	2	3	3	1	2	3	3	1	0	rs143855176		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	159170640	C	T	159170640	2	4	301	1	0	0	0	0	0	0	0	1	2568	535	19	1		1	CADM3	1	159170640	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08	3918252	159170640	90079981	6	15137											
C1orf129	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	170964596	170964596	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcggtggcccagtatttcCcccagctcttgacgactctt	7	11	9	14	2	2	1	0	1	2	0	3	2	3	1	3	2	2	2	3	2	2	4	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	170964596	C	T	170964596	3	4	301	1	0	0	0	0	1	0	0	0	1996	623	22	2	1307	2	C1orf129	1	170964596	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	11793956	170964596	78286025	7	15138											
CACNA1E	777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	181549889	181549889	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagtgcatcaccatggaaGggtggaccactgtgctgtac	9	9	12	11	0	1	0	1	0	0	0	2	2	2	2	3	3	3	3	3	3	2	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	181549889	G	T	181549889	3	4	301	1	0	0	0	0	1	0	0	0	2542	1000	35	4	950	4	CACNA1E	1	181549889	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	10585293	181549889	67700732	8	15139											
ASPM	259266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197087083	197087083	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagaaaattgattacagccaAttgaataattcttgcagctt	15	14	6	6	0	1	3	0	2	1	1	1	3	1	3	1	0	4	2	1	0	7	8	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	197087083	A	G	197087083	2	3	301	1	0	0	0	0	0	0	0	1	1056	98	4	3		3	ASPM	1	197087083	Silent	SNP	A	TCGA-BP-4983-01A-01D-1462-08	15537194	197087083	52163538	9	15140											
GOLT1A	127845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204170926	204170926	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgatgagggacaggcccGtcaggaacagcagctgtagg	12	5	15	9	1	1	2	1	2	0	0	1	4	1	4	1	4	3	3	1	4	3	1	rs150924607	by1000genomes	TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	204170926	G	A	204170926	3	1	301	1	0	0	0	0	1	0	0	0	6570	1145	40	1	279	1	GOLT1A	1	204170926	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	7083843	204170926	45079695	10	15141											
OR2T4	127074	broad.mit.edu;hgsc.bcm.edu	37	chr1	248525256	248525256	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggtgtgaataagatctCagcccctgagtgtgggatgc	9	10	14	8	0	1	3	1	2	1	1	2	4	1	4	2	2	2	0	2	2	2	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	248525256	C	A	248525256	4	1	301	1	0	0	0	0	0	1	0	0	11027	838	29	4	376	4	OR2T4	1	248525256	Nonsense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	44354330	248525256	725365	11	15142											
C2orf71	388939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29295510	29295510	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttcatcttcagaatcaTttcctgggcctggaggctcc	6	13	8	14	0	4	1	3	0	1	1	7	2	7	2	4	3	0	1	4	3	1	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	29295510	T	G	29295510	3	3	301	1	0	0	0	0	1	0	0	0	2191	1493	52	5	2256	5	C2orf71	2	29295510	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08		29295510	213903863	12	15143											
PCBP1	5093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	70315104	70315104	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctttcgctatgatcatcGacaagctggaggaagatatc	12	10	11	8	2	1	2	1	1	0	1	4	5	1	4	0	3	1	3	0	3	4	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	70315104	G	T	70315104	3	4	301	1	0	0	0	0	1	0	0	0	11500	1058	37	4	231	4	PCBP1	2	70315104	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	41019594	70315104	172884269	13	15144											
FARP2	9855	hgsc.bcm.edu;ucsc.edu	37	chr2	242380935	242380935	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgacacaccatcggccCagcccctcgggccccccgca	6	2	9	24	4	0	0	0	0	0	0	2	1	0	0	9	2	1	1	9	2	0	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	242380935	C	A	242380935	3	1	301	1	0	0	0	0	1	0	0	0	5677	595	21	4	1421	4	FARP2	2	242380935	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	172065831	242380935	818438	14	15145											
PDCD6IP	10015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33905544	33905544	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacctagtgctccttcaattCctacacctgcgtatcagtcc	9	12	5	15	1	2	0	2	0	0	0	5	0	5	0	5	0	4	2	5	0	5	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	33905544	C	T	33905544	3	4	301	1	0	0	0	0	1	0	0	0	11624	855	30	2	2244	2	PDCD6IP	3	33905544	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08		33905544	164116886	15	15146											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47098412	47098413	+	Frame_Shift_Ins	INS	-	-	AT																															gttgcttgagactgtgcaggINSagagtactgctgctgtacac																								novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	-	-	-	AT	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		AT	47098413	-	AT	47098412	7	5	301	1	0	1	1	0	0	0	0	0	14133	1174	41	0	860	0	SETD2	3	47098412	Frame_Shift_Ins	INS	-	TCGA-BP-4983-01A-01D-1462-08	13192868	47098412	150924018	16	15147											
GNAI2	2771	broad.mit.edu;hgsc.bcm.edu	37	chr3	50290461	50290461	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccactgtgcccaggacgaCgccaggcagctatttgcact	8	7	11	15	3	0	0	0	0	0	0	0	2	0	1	3	2	3	3	3	2	1	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	50290461	C	T	50290461	2	4	301	1	0	0	0	0	0	0	0	1	6505	535	19	1		1	GNAI2	3	50290461	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08	3192049	50290461	147731969	17	15148											
FAM19A1	407738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	68466568	68466568	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccggccttcttgcgtcgAtggtaggtacctggttttac	7	13	11	10	3	1	0	0	0	1	0	2	1	1	0	3	4	4	3	3	4	4	6	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	68466568	A	G	68466568	3	3	301	1	0	0	0	0	1	0	0	0	5531	333	12	3	263	3	FAM19A1	3	68466568	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08	18176107	68466568	129555862	18	15149											
MCF2L2	23101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	183035915	183035915	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttccgtggatagcatgcTtctgggcagctctgctgtgg	4	13	14	10	1	3	0	0	0	3	0	4	1	4	1	1	3	4	5	1	3	1	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	183035915	T	C	183035915	3	2	301	1	0	0	0	0	1	0	0	0	9380	1609	56	3	2746	3	MCF2L2	3	183035915	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08	114569347	183035915	14986515	19	15150											
ABCC5	10057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	183669339	183669339	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaagctcgtcatgcagccggGaggaagctcgcagcgtgccc	9	5	14	13	4	1	0	1	0	0	0	3	2	1	2	2	2	6	4	2	2	2	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	183669339	G	A	183669339	3	1	301	1	0	0	0	0	1	0	0	0	56	1174	41	2	1523	2	ABCC5	3	183669339	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	633424	183669339	14353091	20	15151											
PDS5A	23244	broad.mit.edu;hgsc.bcm.edu	37	chr4	39851255	39851255	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttgtcattaaaacttcaAgcatgaaccataggcaccta	14	12	5	10	0	3	1	2	1	1	0	3	1	3	1	2	1	3	2	2	1	6	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	39851255	A	G	39851255	3	3	301	1	0	0	0	0	1	0	0	0	11691	72	3	3	937	3	PDS5A	4	39851255	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08		39851255	151303021	21	15152											
UGT2B7	7364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	69962460	69962460	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcatccgctcttaaaatTgaaatttatcccacatcttt	13	15	2	11	1	3	1	1	1	2	0	5	1	5	1	2	0	1	1	2	0	5	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	69962460	T	G	69962460	3	3	301	1	0	0	0	0	1	0	0	0	16961	1800	63	5	224	5	UGT2B7	4	69962460	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08	30111205	69962460	121191816	22	15153											
BANK1	55024	hgsc.bcm.edu;ucsc.edu	37	chr4	102751231	102751231	+	Frame_Shift_Del	DEL	A	A	-																															attcaccaaaaagtgtagttActttgctttgtggagtgaag																								novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		-	102751231	A	-	102751231	7	5	301	1	0	1	0	1	0	0	0	0	1309	391	14	0	343	0	BANK1	4	102751231	Frame_Shift_Del	DEL	A	TCGA-BP-4983-01A-01D-1462-08	32788771	102751231	88403045	23	15154											
POU4F2	5458	broad.mit.edu	37	chr4	147560212	147560212	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccagctccagccccggCtggcccggcacttctcggag	4	7	11	19	3	1	0	0	0	1	0	4	1	3	1	5	4	2	3	5	4	0	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	147560212	A	A	147560212	1	1	301	1	0	0	0	0	0	0	0	0	12279	812	28	4		4	POU4F2	4	147560212	Translation_Start_Site	SNP	C	TCGA-BP-4983-01A-01D-1462-08	44808981	147560212	43594064	24	15155											
TTC29	83894	broad.mit.edu;hgsc.bcm.edu	37	chr4	147830304	147830304	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgcagcctccctcagggcatCccaccgctccatcagagcga	8	5	9	19	3	2	1	2	0	0	1	5	2	5	1	5	1	2	3	5	1	0	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	147830304	C	T	147830304	3	4	301	1	0	0	0	0	1	0	0	0	16695	855	30	2	1189	2	TTC29	4	147830304	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	270092	147830304	43323972	25	15156											
MUT	4594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	49419319	49419319	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattcgagcacttttcacagTtggcaaacccaaagcttcat	13	11	6	11	1	2	0	2	0	0	0	3	1	2	0	1	1	3	4	1	1	3	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	49419319	T	C	49419319	3	2	301	1	0	0	0	0	1	0	0	0	9991	1725	60	3	1092	3	MUT	6	49419319	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08		49419319	121695748	26	15157											
PRDM13	59336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	100062550	100062550	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccggagcctggggatcccaAgagcgacgacagtgacgtgg	9	4	16	12	4	0	2	0	1	0	1	1	6	1	4	3	4	2	0	3	4	1	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	100062550	A	G	100062550	3	3	301	1	0	0	0	0	1	0	0	0	12456	72	3	3	2053	3	PRDM13	6	100062550	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08	50643231	100062550	71052517	27	15158											
SDK1	221935	broad.mit.edu;hgsc.bcm.edu	37	chr7	4011189	4011189	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgccacacatgacccccgGgtttcactccggtcagcaca	8	7	10	16	2	2	1	2	1	0	0	3	1	3	1	4	3	2	2	4	3	0	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	4011189	G	T	4011189	2	4	301	1	0	0	0	0	0	0	0	1	13970	1219	43	4		4	SDK1	7	4011189	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08		4011189	155127474	28	15159											
HDAC9	9734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	18625053	18625053	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttatccagcagcagcaaCaaatccagaagcagcttctg	13	9	7	12	0	2	1	0	0	2	1	4	1	4	1	2	0	6	5	2	0	4	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	18625053	C	A	18625053	3	1	301	1	0	0	0	0	1	0	0	0	7014	479	17	4	178	4	HDAC9	7	18625053	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	14613864	18625053	140513610	29	15160											
AMPH	273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	38530710	38530710	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaaggacccatccacgagTttttgatggaagtcttccca	11	10	9	11	1	1	1	0	1	1	0	3	4	3	3	3	2	1	2	3	2	2	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	38530710	T	A	38530710	3	1	301	1	0	0	0	0	1	0	0	0	588	1722	60	5	1819	5	AMPH	7	38530710	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08	19905657	38530710	120607953	30	15161											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48314761	48314761	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacacaaattctggatttcGgcagaattcaaagatagacc	15	10	7	9	1	3	3	2	0	1	3	4	4	3	4	1	2	0	1	1	2	4	4	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	48314761	G	A	48314761	3	1	301	1	0	0	0	0	1	0	0	0	31	1116	39	1	5393	1	ABCA13	7	48314761	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	9784051	48314761	110823902	31	15162											
DMTF1	9988	broad.mit.edu;hgsc.bcm.edu	37	chr7	86811528	86811528	+	RNA	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaccaaatgctgattggCagactcttgttttaggctcc	9	14	9	9	0	1	3	0	2	1	1	2	3	2	3	2	2	2	4	2	2	3	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	86811528	C	G	86811528	1	3	301	0	1	0	0	0	0	0	0	0	4592	725	25	4		4	DMTF1	7	86811528	RNA	SNP	C	TCGA-BP-4983-01A-01D-1462-08	38496767	86811528	72327135	32	15163											
MOSPD3	64598	broad.mit.edu;hgsc.bcm.edu	37	chr7	100211116	100211116	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagtgtgattcgccatgtgGcacccattcccagccactat	8	10	8	15	1	0	1	0	1	0	0	2	1	1	1	5	1	1	1	5	1	1	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	100211116	G	A	100211116	3	1	301	1	0	0	0	0	1	0	0	0	9717	1203	42	2	308	2	MOSPD3	7	100211116	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	13399588	100211116	58927547	33	15164											
MUC17	140453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100681776	100681776	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaacaagcacactttctaCaactcctgctgacaccagca	14	8	5	14	0	1	2	0	2	1	0	2	2	2	2	2	0	6	3	2	0	4	2	rs143338962	alternate_allele	TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	100681776	C	A	100681776	3	1	301	1	0	0	0	0	1	0	0	0	9974	478	17	4	7089	4	MUC17	7	100681776	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	470660	100681776	58456887	34	15165											
SND1	27044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127341301	127341301	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgaggggaacggttcacaTactatccgggatctcaagta	12	9	12	8	2	2	1	2	1	1	0	4	3	3	3	1	4	2	2	1	4	5	4	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	127341301	T	C	127341301	2	2	301	1	0	0	0	0	0	0	0	1	14846	1403	49	3		3	SND1	7	127341301	Silent	SNP	T	TCGA-BP-4983-01A-01D-1462-08	26659525	127341301	31797362	35	15166											
RBM33	155435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	155537939	155537939	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatgtgaagaacagactTcttgttaaaaaccaggatgt	17	10	8	6	0	1	3	0	1	1	2	1	4	1	4	1	1	2	1	1	1	7	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	155537939	T	G	155537939	2	3	301	1	0	0	0	0	0	0	0	1	13132	1770	62	5		5	RBM33	7	155537939	Silent	SNP	T	TCGA-BP-4983-01A-01D-1462-08	28196638	155537939	3600724	36	15167											
IL33	90865	hgsc.bcm.edu	37	chr9	6256088	6256088	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttataggtgtaaaggatAatcatcttgctctgattaaa	13	16	8	4	0	3	1	1	1	2	0	3	2	3	2	0	2	1	3	0	2	7	7	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	6256088	A	T	6256088	3	4	301	1	0	0	0	0	1	0	0	0	7693	362	13	5	759	5	IL33	9	6256088	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08		6256088	134957343	37	15168											
C9orf93	0	hgsc.bcm.edu	37	chr9	15744426	15744427	+	Frame_Shift_Ins	INS	-	-	G																															cagcctgtgcattaatggctINSggtgccttatatcccctcta																								novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	15744427	-	G	15744426	7	5	301	1	0	1	1	0	0	0	0	0	2506	1567	55	0	2267	0	C9orf93	9	15744426	Frame_Shift_Ins	INS	-	TCGA-BP-4983-01A-01D-1462-08	9488338	15744426	125469005	38	15169											
KIF12	113220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116859632	116859632	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcccaaattccaccacccGcagctgctccacatagaagc	12	6	5	18	1	0	1	0	0	0	1	3	1	3	1	5	0	3	3	5	0	3	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	116859632	G	C	116859632	3	2	301	1	0	0	0	0	1	0	0	0	8273	1086	38	4	1412	4	KIF12	9	116859632	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	101115206	116859632	24353799	39	15170											
RABGAP1	23637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125760994	125760994	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctaatgaaagattattctgGcccttcagcaaacgtagtac	13	11	7	10	1	2	2	1	1	1	1	2	2	2	2	2	1	3	3	2	1	6	6	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	125760994	G	A	125760994	4	1	301	1	0	0	0	0	0	1	0	0	12966	1212	42	2	1357	2	RABGAP1	9	125760994	Nonsense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	8901362	125760994	15452437	40	15171											
ACBD5	91452	broad.mit.edu	37	chr10	27529390	27529390	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcaggcagcagcagcaccaGctttcccaagagcctgcatg	11	6	10	14	0	1	1	1	0	0	1	2	1	2	1	3	1	6	6	3	1	1	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	27529390	A	A	27529390	2	1	301	1	0	0	0	0	0	0	0	1	125	962	34	2		2	ACBD5	10	27529390	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08		27529390	108005357	41	15172											
RTKN2	219790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	63958099	63958099	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgtggcccaaggaggtggTaaggattcttcatgctgacc	9	10	14	8	0	2	1	1	1	1	0	2	3	2	3	2	5	1	2	2	5	2	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	63958099	T	C	63958099	2	2	301	1	0	0	0	0	0	0	0	1	13725	1635	57	3		3	RTKN2	10	63958099	Silent	SNP	T	TCGA-BP-4983-01A-01D-1462-08	36428709	63958099	71576648	42	15173											
LTBP3	4054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65318874	65318874	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacagtgcccagctcaccGgggtagggccgggcaggagt	7	5	16	13	2	1	0	1	0	0	0	1	1	1	1	4	5	3	3	4	5	2	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	65318874	G	A	65318874	2	1	301	1	0	0	0	0	0	0	0	1	9075	1130	39	1		1	LTBP3	11	65318874	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08		65318874	69687642	43	15174											
XRRA1	143570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	74555233	74555233	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtttctctttgtgaacatAgggtttctgaagagtgtcca	8	15	10	8	1	2	3	0	2	2	1	4	3	3	3	2	1	1	2	2	1	3	4	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	74555233	A	G	74555233	3	3	301	1	0	0	0	0	1	0	0	0	17460	420	15	3	391	3	XRRA1	11	74555233	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08	9236359	74555233	60451283	44	15175											
CACNA1C	775	broad.mit.edu	37	chr12	2800179	2800179	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagaggagatggagagcgcGgccgacaacatcctcagcgg	12	4	15	10	4	1	3	1	0	0	3	2	6	2	3	2	4	3	0	2	4	2	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	2800179	A	A	2800179	2	1	301	1	0	0	0	0	0	0	0	1	2540	1103	39	1		1	CACNA1C	12	2800179	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08		2800179	131051716	45	15176											
MLF2	8079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6859423	6859423	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtattggagtaggagatgaCagtggaagatgagaaggtct	13	9	16	3	1	1	4	0	2	1	3	1	8	1	6	0	4	0	2	0	4	4	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	6859423	C	T	6859423	3	4	301	1	0	0	0	0	1	0	0	0	9616	478	17	2	439	2	MLF2	12	6859423	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	4059244	6859423	126992472	46	15177											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57600464	57600464	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcctgccacctgctgcGcctcctaccacttccaaccg	6	7	7	21	3	0	0	0	0	0	0	2	0	2	0	8	0	6	2	8	0	2	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	57600464	G	A	57600464	2	1	301	1	0	0	0	0	0	0	0	1	8951	1074	38	1		1	LRP1	12	57600464	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08	50741041	57600464	76251431	47	15178											
LRRIQ1	84125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	85450294	85450294	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaatgaagagcagaaaataAtcaaagataatcagcagaaa	23	5	7	6	0	2	5	2	1	0	4	2	5	2	5	1	0	2	2	1	0	8	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	85450294	A	C	85450294	3	2	301	1	0	0	0	0	1	0	0	0	9029	101	4	5	1749	5	LRRIQ1	12	85450294	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08	27849830	85450294	48401601	48	15179											
EP400	57634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	132491323	132491323	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggactggctggccaaaCtttacaggaagaatctcaat	12	9	10	10	0	1	1	1	0	1	1	2	3	1	3	2	4	2	1	2	4	5	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	132491323	C	T	132491323	3	4	301	1	0	0	0	0	1	0	0	0	5149	565	20	2	3256	2	EP400	12	132491323	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	47041029	132491323	1360572	49	15180											
RALGAPA1	253959	broad.mit.edu;hgsc.bcm.edu	37	chr14	36096963	36096963	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attatttaacacaaagaactGgatatttggactctcaaaga	17	12	6	6	0	1	2	1	0	1	2	2	4	1	4	0	2	2	0	0	2	6	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	36096963	G	A	36096963	4	1	301	1	0	0	0	0	0	1	0	0	13015	1357	47	2	1623	2	RALGAPA1	14	36096963	Nonsense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08		36096963	71252577	50	15181											
NIN	51199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	51259502	51259502	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaatcaccgtcacttcAggaaactcctccacggactc	10	8	7	16	2	4	0	4	0	0	0	7	2	6	2	3	3	1	1	3	3	2	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	51259502	A	C	51259502	2	2	301	1	0	0	0	0	0	0	0	1	10417	175	7	5		5	NIN	14	51259502	Silent	SNP	A	TCGA-BP-4983-01A-01D-1462-08	15162539	51259502	56090038	51	15182											
ATG2B	55102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	96789061	96789061	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatggctggtggatttattTtcagtacaattctgatagca	10	15	10	6	0	2	1	1	1	1	0	2	2	2	2	0	3	2	4	0	3	4	7	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	96789061	T	C	96789061	3	2	301	1	0	0	0	0	1	0	0	0	1094	1841	64	3	3788	3	ATG2B	14	96789061	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08	45529559	96789061	10560479	52	15183											
HERC2	8924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	28501377	28501377	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggccagggtcaccacCgtctgcttcaggctgttcag	5	10	12	14	1	4	0	3	0	1	0	4	0	4	0	3	3	2	4	3	3	0	2	rs139718674	by1000genomes	TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	28501377	C	T	28501377	2	4	301	1	0	0	0	0	0	0	0	1	7058	639	23	1		1	HERC2	15	28501377	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08		28501377	74030015	53	15184											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	33988670	33988670	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgggcaaggaagaggagTtgctcatgatcaatgggctg	11	8	17	5	0	2	2	2	1	0	1	2	5	2	5	0	5	1	4	0	5	3	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	33988670	T	C	33988670	2	2	301	1	0	0	0	0	0	0	0	1	13772	1722	60	3		3	RYR3	15	33988670	Silent	SNP	T	TCGA-BP-4983-01A-01D-1462-08	5487293	33988670	68542722	54	15185											
PLCB2	5330	broad.mit.edu;hgsc.bcm.edu	37	chr15	40594520	40594520	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccgtcagcggatgttTgactagggccagtacgtcct	6	11	14	10	3	1	1	1	1	0	0	2	2	2	2	3	3	2	3	3	3	2	4	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	40594520	T	A	40594520	4	1	301	1	0	0	0	0	0	1	0	0	12028	1821	63	5	3266	5	PLCB2	15	40594520	Nonsense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08	6605850	40594520	61936872	55	15186											
DENND4A	10260	broad.mit.edu;hgsc.bcm.edu	37	chr15	65954291	65954291	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgactaggtgtgagacgAtcgtatgccatcttgtactc	9	13	10	9	2	1	2	0	2	1	1	3	4	1	2	1	1	2	2	1	1	3	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	65954291	A	C	65954291	3	2	301	1	0	0	0	0	1	0	0	0	4433	330	12	5	105	5	DENND4A	15	65954291	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08	25359771	65954291	36577101	56	15187											
ACAN	176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89382103	89382103	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggccactgaagggcgcGtgcgggtcaacagtgcctat	7	8	16	10	3	1	1	1	1	0	0	1	1	1	1	2	4	3	0	2	4	3	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	89382103	G	A	89382103	3	1	301	1	0	0	0	0	1	0	0	0	117	1145	40	1	286	1	ACAN	15	89382103	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	23427812	89382103	13149289	57	15188											
TPSAB1	7177	broad.mit.edu;hgsc.bcm.edu	37	chr16	1291647	1291647	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctgcctcagagacctTccccccggggatgccgtgct	4	7	11	19	2	1	1	1	0	0	1	2	3	2	2	8	2	3	1	8	2	0	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	1291647	T	C	1291647	3	2	301	1	0	0	0	0	1	0	0	0	16422	1783	62	3	456	3	TPSAB1	16	1291647	Missense_Mutation	SNP	T	TCGA-BP-4983-01A-01D-1462-08		1291647	89063106	58	15189											
TRAF7	84231	broad.mit.edu;ucsc.edu	37	chr16	2225568	2225568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcctcaaccactgggtgcGggccctggtggctgcccaga	6	6	15	14	1	1	1	1	0	0	1	1	1	1	1	4	5	3	1	4	5	1	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	2225568	A	A	2225568	3	1	301	1	0	0	0	0	1	0	0	0	16445	1116	39	1	1633	1	TRAF7	16	2225568	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	933921	2225568	88129185	59	15190											
ZZEF1	23140	broad.mit.edu	37	chr17	3984690	3984690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgagcagcaacagagaCgagagtgtccatgaccgcca	12	5	11	13	3	1	3	0	1	1	2	3	6	2	3	3	0	3	2	3	0	1	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	3984690	T	T	3984690	3	4	301	1	0	0	0	0	1	0	0	0	18254	536	19	1	6228	1	ZZEF1	17	3984690	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08		3984690	77210520	60	15191											
C17orf66	256957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34190111	34190111	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgatgagagcccggatcAcatgcttattcaggcaacct	10	11	10	10	1	2	2	2	2	0	1	2	4	2	3	2	2	3	3	2	2	2	3	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		G	34190111	A	G	34190111	3	3	301	1	0	0	0	0	1	0	0	0	1874	159	6	3	1100	3	C17orf66	17	34190111	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08	30205421	34190111	47005099	61	15192											
CHAD	1101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48545894	48545894	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttgcttgaggccgcggaagGcaccggcggccacctcgcgg	5	5	17	14	6	0	1	0	1	0	0	1	2	0	2	4	6	1	3	4	6	1	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	48545894	G	A	48545894	3	1	301	1	0	0	0	0	1	0	0	0	3310	1203	42	2	810	2	CHAD	17	48545894	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	14355783	48545894	32649316	62	15193											
MRC2	9902	broad.mit.edu	37	chr17	60743545	60743545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccacggctgcaccagcaCgggccgcgaggatggtcacc	7	5	14	15	4	1	0	1	0	0	0	2	2	2	1	4	4	2	4	4	4	0	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	60743545	T	T	60743545	3	4	301	1	0	0	0	0	1	0	0	0	9758	536	19	1	621	1	MRC2	17	60743545	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	12197651	60743545	20451665	63	15194											
CD79B	974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62009607	62009607	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgggcacaggagacaaCgccagcctggccatggtcac	9	5	14	13	1	1	1	1	0	0	1	1	2	1	1	3	5	2	2	3	5	1	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	62009607	C	T	62009607	2	4	301	1	0	0	0	0	0	0	0	1	3037	523	19	1		1	CD79B	17	62009607	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08	1266062	62009607	19185603	64	15195											
SLC38A10	124565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79220707	79220707	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgggtttatcctcctcGtcctcctgcctctgctggtg	1	15	10	15	1	1	0	0	0	1	0	6	0	5	0	6	2	3	2	6	2	1	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	79220707	G	A	79220707	2	1	301	1	0	0	0	0	0	0	0	1	14604	1136	40	1		1	SLC38A10	17	79220707	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08	17211100	79220707	1974503	65	15196											
ELP2	55250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33750159	33750159	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctccacccttctcaacGgtcagtctctgtgtggggct	5	12	11	13	1	3	0	2	0	2	0	6	0	4	0	2	3	2	2	2	3	1	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	33750159	G	T	33750159	3	4	301	1	0	0	0	0	1	0	0	0	5080	1130	39	4	2288	4	ELP2	18	33750159	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08		33750159	44327089	66	15197											
CDH20	28316	broad.mit.edu;hgsc.bcm.edu	37	chr18	59195205	59195205	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcattgcttttcagcccctGagttttgaaagcaagaaaag	12	12	9	8	0	2	3	2	2	0	1	2	3	2	3	2	0	3	3	2	0	4	5	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	59195205	G	A	59195205	2	1	301	1	0	0	0	0	0	0	0	1	3106	1277	45	2		2	CDH20	18	59195205	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08	25445046	59195205	18882043	67	15198											
CYP2B6	1555	broad.mit.edu;hgsc.bcm.edu	37	chr19	41515984	41515984	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttgctggcactgagaccaCcagcaccactctccgctacg	8	8	8	17	2	1	1	0	1	1	1	2	2	1	1	4	1	3	4	4	1	1	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	41515984	C	T	41515984	3	4	301	1	0	0	0	0	1	0	0	0	4164	507	18	2	930	2	CYP2B6	19	41515984	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08		41515984	17612999	68	15199											
ASXL1	171023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31023504	31023504	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcactgagtcctcacggtGagtccacggatacagcctct	10	8	10	13	2	2	2	1	2	1	0	4	3	4	3	3	2	3	1	3	2	2	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	31023504	G	T	31023504	4	4	301	1	0	0	0	0	0	1	0	0	1066	1291	45	4	3045	4	ASXL1	20	31023504	Nonsense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08		31023504	32002016	69	15200											
LPIN3	64900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39987126	39987126	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcctgagtcacgcatcttCacagtcaacccccggggaga	9	7	10	15	2	4	2	3	1	1	1	4	3	4	2	3	2	2	1	3	2	1	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	39987126	C	T	39987126	2	4	301	1	0	0	0	0	0	0	0	1	8920	825	29	2		2	LPIN3	20	39987126	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08	8963622	39987126	23038394	70	15201											
ZMYND8	23613	broad.mit.edu;hgsc.bcm.edu	37	chr20	45927547	45927547	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttagcgtgataaacccgggGacagagctcacagcaaagga	14	5	12	10	2	1	2	1	1	0	1	1	4	1	4	1	3	4	2	1	3	4	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	45927547	G	T	45927547	3	4	301	1	0	0	0	0	1	0	0	0	17710	1174	41	4	3267	4	ZMYND8	20	45927547	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	5940421	45927547	17097973	71	15202											
GCFC1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34117899	34117899	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttacctgttagtttaggaAgaatcaccttttccacaatg	12	15	6	8	0	1	1	1	0	0	1	2	2	2	2	3	1	1	2	3	1	6	7	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		C	34117899	A	C	34117899	3	2	301	1	0	0	0	0	1	0	0	0	6289	72	3	5	845	5	GCFC1	21	34117899	Missense_Mutation	SNP	A	TCGA-BP-4983-01A-01D-1462-08		34117899	14011996	72	15203											
OSBP2	23762	broad.mit.edu	37	chr22	31091334	31091334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtcaggatcgctgccagcGttaaagcccctgcctcttct	7	10	10	14	2	3	0	1	0	2	0	4	2	3	1	4	1	4	2	4	1	2	2	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	31091334	A	A	31091334	2	1	301	1	0	0	0	0	0	0	0	1	11274	1132	40	1		1	OSBP2	22	31091334	Silent	SNP	G	TCGA-BP-4983-01A-01D-1462-08		31091334	20213232	73	15204											
TUBGCP6	85378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50660936	50660936	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagccgtgcactctccagtcGgtgcctctggattctccaca	7	10	9	15	2	3	0	0	0	3	0	6	1	3	1	4	2	3	1	4	2	1	1	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	50660936	G	A	50660936	4	1	301	1	0	0	0	0	0	1	0	0	16769	1124	39	1	3151	1	TUBGCP6	22	50660936	Nonsense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	19569602	50660936	643630	74	15205											
GPR174	84636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	78426732	78426732	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccttgccactgaggatCttctactacttgaatcatga	9	15	6	11	0	3	3	1	3	2	0	4	4	4	4	2	1	3	0	2	1	3	6	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	78426732	C	A	78426732	2	1	301	1	0	0	0	0	0	0	0	1	6672	903	32	4		4	GPR174	23	78426732	Silent	SNP	C	TCGA-BP-4983-01A-01D-1462-08		78426732	76843828	75	15206											
CYLC1	1538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	83128044	83128044	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttatacttccaaaacccatCttaaaaaagcagaatataaa	20	11	2	8	0	1	1	0	0	1	1	2	1	2	1	2	0	3	1	2	0	11	7	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		T	83128044	C	T	83128044	3	4	301	1	0	0	0	0	1	0	0	0	4141	913	32	2	342	2	CYLC1	23	83128044	Missense_Mutation	SNP	C	TCGA-BP-4983-01A-01D-1462-08	4701312	83128044	72142516	76	15207											
L1CAM	3897	broad.mit.edu	37	chrX	153130647	153130647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggcactccaggtgcaacGcctcggggtggccaggcact	7	6	14	14	2	0	0	0	0	0	0	2	0	1	0	3	6	2	3	3	6	1	0	novel		TCGA-BP-4983-01A-01D-1462-08	TCGA-BP-4983-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	beaafdf9-d5c0-4bc4-b08b-833c3c91c9ae	b50f962c-326f-4b05-a0a2-76015c7e84b2		A	153130647	A	A	153130647	3	1	301	1	0	0	0	0	1	0	0	0	8588	1087	38	1	1037	1	L1CAM	23	153130647	Missense_Mutation	SNP	G	TCGA-BP-4983-01A-01D-1462-08	70002603	153130647	2139913	77	15208											
GUCA2A	2980	hgsc.bcm.edu;ucsc.edu	37	chr1	42629119	42629119	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attgggctccttgcagagagGcttgagttcttctggaaagt	8	13	13	7	0	2	2	0	1	2	1	3	4	3	3	1	3	1	4	1	3	1	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	42629119	G	A	42629119	3	1	302	1	0	0	0	0	1	0	0	0	6891	1203	42	2	117	2	GUCA2A	1	42629119	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08		42629119	206621502	1	15209											
C1orf175	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55166858	55166858	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctccatggtgaagggcCtgaagaacatggatgggatg	10	8	15	8	0	0	3	0	2	0	1	1	5	1	5	3	4	2	0	3	4	3	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	55166858	C	T	55166858	2	4	302	1	0	0	0	0	0	0	0	1	2016	680	24	2		2	C1orf175	1	55166858	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	12537739	55166858	194083763	2	15210											
OLFM3	118427	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	102302569	102302569	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cacctgccacccttctttagGactaatctgagtctgaggaa	10	11	8	12	0	3	2	0	2	3	0	3	4	3	4	3	2	1	0	3	2	3	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	102302569	G	C	102302569	3	2	302	1	0	0	0	0	1	0	0	0	10854	1174	41	4	1314	4	OLFM3	1	102302569	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	47135711	102302569	146948052	3	15211											
AHCYL1	10768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110553967	110553967	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggacgccgggagattgagAttgcagagcaaggtaaagaa	14	7	15	5	2	0	4	0	1	0	4	0	7	0	5	1	3	2	3	1	3	4	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	110553967	A	C	110553967	3	2	302	1	0	0	0	0	1	0	0	0	410	333	12	5	374	5	AHCYL1	1	110553967	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	8251398	110553967	138696654	4	15212											
TMCO1	54499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	165712544	165712544	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttgccaccactctaccatCaaatctaaaagaaaaaaaaa	20	8	2	11	0	3	1	1	0	2	1	3	1	3	1	3	0	2	0	3	0	8	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	165712544	C	T	165712544	3	4	302	1	0	0	0	0	1	0	0	0	15994	826	29	2	246	2	TMCO1	1	165712544	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	55158577	165712544	83538077	5	15213											
TOR1AIP2	163590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	179833916	179833916	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattttgactattatagaagCtatttgttttggcccagttt	10	19	7	5	0	0	2	0	1	0	1	0	2	0	2	1	1	1	3	1	1	6	10	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	179833916	C	A	179833916	3	1	302	1	0	0	0	0	1	0	0	0	16372	808	28	4	1432	4	TOR1AIP2	1	179833916	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	14121372	179833916	69416705	6	15214											
APOBEC4	403314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183617328	183617328	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttataaagctgtggagaaCagaatgccagatcccaccac	15	7	8	11	0	0	3	0	0	0	3	1	4	1	3	3	1	3	1	3	1	5	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	183617328	C	A	183617328	3	1	302	1	0	0	0	0	1	0	0	0	796	478	17	4	518	4	APOBEC4	1	183617328	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	3783412	183617328	65633293	7	15215											
C1orf26	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	185259906	185259906	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaaaaacaggggatggTgtgaagacatgctcaactat	15	7	12	7	0	1	2	1	1	0	1	1	3	1	3	1	4	3	1	1	4	5	1	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	185259906	T	C	185259906	3	2	302	1	0	0	0	0	1	0	0	0	2035	1696	59	3	2744	3	C1orf26	1	185259906	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	1642578	185259906	63990715	8	15216											
OR2T8	343172	broad.mit.edu	37	chr1	248084574	248084574	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcggctgactacttgacCggaagtaaggccatctcccg	9	8	12	12	3	1	2	0	2	1	0	2	3	1	3	3	4	1	2	3	4	3	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	248084574	A	A	248084574	2	1	302	1	0	0	0	0	0	0	0	1	11030	639	23	4		4	OR2T8	1	248084574	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	62824668	248084574	1166047	9	15217											
OR2T33	391195	broad.mit.edu;hgsc.bcm.edu	37	chr1	248436862	248436862	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggagatggccttacttccGgtcaagtagtcagccgccat	8	9	12	12	3	2	1	2	0	0	1	3	2	3	1	4	3	2	1	4	3	3	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	248436862	G	T	248436862	2	4	302	1	0	0	0	0	0	0	0	1	11024	1103	39	4		4	OR2T33	1	248436862	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	352288	248436862	813759	10	15218											
HNRPLL	92906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	38797055	38797055	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtaccaggaatggtctTcataaattttacctgtaaac	12	14	7	8	0	2	0	1	0	1	0	2	1	2	1	2	2	4	3	2	2	7	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	38797055	T	C	38797055	3	2	302	1	0	0	0	0	1	0	0	0	7277	1792	62	3	543	3	HNRPLL	2	38797055	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08		38797055	204402318	11	15219											
SOS1	6654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39250293	39250293	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccatcaatattcttctGaatctcgttcatcttcttga	10	16	3	12	1	7	2	2	2	5	0	8	2	7	2	2	0	1	1	2	0	4	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	39250293	G	T	39250293	3	4	302	1	0	0	0	0	1	0	0	0	14938	1299	45	4	2781	4	SOS1	2	39250293	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	453238	39250293	203949080	12	15220											
FAM136A	84908	broad.mit.edu;hgsc.bcm.edu	37	chr2	70529085	70529085	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggatgttctctctttccAgactcttcaccatggactcc	6	14	6	15	1	4	1	1	0	3	1	8	3	7	3	4	2	0	1	4	2	0	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	70529085	A	T	70529085	3	4	302	1	0	0	0	0	1	0	0	0	5450	188	7	5	369	5	FAM136A	2	70529085	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	31278792	70529085	172670288	13	15221											
CTNNA2	1496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	80874879	80874879	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggctccagagaagaagcCccttgtgaagagagaaaagc	16	4	13	8	0	0	5	0	1	0	4	1	8	1	5	3	1	2	1	3	1	6	1	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	80874879	C	A	80874879	3	1	302	1	0	0	0	0	1	0	0	0	4013	623	22	4	2458	4	CTNNA2	2	80874879	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	10345794	80874879	162324494	14	15222											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109379898	109379898	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaattacaatgttcaacAgacaagcacaaatccacctt	16	11	3	11	0	1	1	1	0	0	1	2	1	2	1	2	0	3	2	2	0	6	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	109379898	A	G	109379898	3	3	302	1	0	0	0	0	1	0	0	0	13030	188	7	3	2981	3	RANBP2	2	109379898	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	28505019	109379898	133819475	15	15223											
RIF1	55183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152318926	152318926	+	Missense_Mutation	SNP	G	G	T																															cttactaatatttatttcagGgaaattcctactttaaccag																								novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	152318926	G	T	152318926	3	4	302	1	0	0	0	0	1	0	0	0	13361	1246	43	4	3419	4	RIF1	2	152318926	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	42939028	152318926	90880447	16	15224	201	2									
RIF1	55183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152318927	152318927	+	Missense_Mutation	SNP	G	G	A																															ttactaatatttatttcaggGaaattcctactttaaccaga																								novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	152318927	G	A	152318927	3	1	302	1	0	0	0	0	1	0	0	0	13361	1188	41	2	3420	2	RIF1	2	152318927	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	1	152318927	90880446	17	15225	201	2									
TM4SF20	79853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228228665	228228665	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgggtttattgaaaccAgtaggaggtgcacaagagtc	11	10	14	6	0	0	2	0	1	0	1	1	3	0	3	1	4	2	3	1	4	4	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	228228665	A	T	228228665	2	4	302	1	0	0	0	0	0	0	0	1	15968	175	7	5		5	TM4SF20	2	228228665	Silent	SNP	A	TCGA-BP-4985-01A-01D-1462-08	75909738	228228665	14970708	18	15226											
IQCA1	79781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	237300665	237300665	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcgctccctttctctgTccacagctagctttaagttt	5	15	8	13	1	1	0	0	0	1	0	4	0	3	0	2	1	2	4	2	1	2	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	237300665	T	G	237300665	3	3	302	1	0	0	0	0	1	0	0	0	7802	1667	58	5	1137	5	IQCA1	2	237300665	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	9072000	237300665	5898708	19	15227											
CLASP2	23122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33648252	33648252	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaagacccatgtatgtccTgttaaaaaaaaagaaaagca	19	9	6	7	0	1	2	0	0	1	2	2	2	2	2	2	0	1	3	2	0	9	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	33648252	T	C	33648252	5	2	302	1	0	0	0	0	0	0	1	0	3455	1594	55	3	3087	3	CLASP2	3	33648252	Splice_Site	SNP	T	TCGA-BP-4985-01A-01D-1462-08		33648252	164374178	20	15228											
MAP4	4134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47912403	47912403	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattggtggccaggcggctgAgccggggggtggtggagctg	4	8	22	7	2	0	1	0	1	0	0	0	2	0	2	2	9	2	2	2	9	1	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	47912403	A	T	47912403	3	4	302	1	0	0	0	0	1	0	0	0	9258	304	11	5	878	5	MAP4	3	47912403	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	14264151	47912403	150110027	21	15229											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52623110	52623110	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcctcccacagtctttCaatacagacgatatgtggtt	11	13	7	10	1	2	2	1	1	1	1	4	3	4	2	2	1	1	1	2	1	4	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	52623110	C	A	52623110	4	1	302	1	0	0	0	0	0	1	0	0	11491	835	29	4	2011	4	PBRM1	3	52623110	Nonsense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	4710707	52623110	145399320	22	15230											
PARP14	54625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122433220	122433220	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcagtttcctctgtttTgcaggagtgtgaaaaaaaaa	13	13	10	5	0	2	1	1	1	1	0	3	3	3	2	1	1	1	4	1	1	4	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	122433220	T	C	122433220	3	2	302	1	0	0	0	0	1	0	0	0	11458	1821	63	3	3990	3	PARP14	3	122433220	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	69810110	122433220	75589210	23	15231											
IL1RAP	3556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	190366339	190366339	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctgaagagggctaagacgGtgctcacggtcattaaatgg	12	8	14	7	2	2	3	2	1	0	2	2	3	2	3	0	4	2	3	0	4	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	190366339	G	A	190366339	3	1	302	1	0	0	0	0	1	0	0	0	7660	1261	44	2	1616	2	IL1RAP	3	190366339	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	67933119	190366339	7656091	24	15232											
ATP13A3	79572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	194177901	194177901	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagaaacaccttcatccagtCccctaaataaatccaaagtt	17	9	3	12	0	1	1	1	0	0	1	4	1	4	1	5	0	1	1	5	0	7	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	194177901	C	T	194177901	3	4	302	1	0	0	0	0	1	0	0	0	1125	855	30	2	3306	2	ATP13A3	3	194177901	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	3811562	194177901	3844529	25	15233											
ZNF141	7700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	367443	367443	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtggcaaagcctttagacGgtccacagatcggagtcaac	12	8	11	10	2	1	2	1	0	0	2	3	3	2	3	2	3	2	1	2	3	3	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	367443	G	A	367443	3	1	302	1	0	0	0	0	1	0	0	0	17729	1116	39	1	1231	1	ZNF141	4	367443	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08		367443	190786833	26	15234											
HTT	3064	broad.mit.edu;ucsc.edu	37	chr4	3208562	3208562	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaagaaaactcttcagtGcttggaggggatccatctca	11	10	11	9	0	3	2	2	1	2	1	5	4	4	4	1	3	2	2	1	3	3	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	3208562	T	T	3208562	3	4	302	1	0	0	0	0	1	0	0	0	7457	1319	46	4	6101	4	HTT	4	3208562	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	2841119	3208562	187945714	27	15235											
GABRG1	2565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	46060386	46060386	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtcatgataacataatccCctgtaagaaaaaaaagtttt	17	13	5	6	0	1	2	1	1	0	1	2	2	2	2	2	0	1	2	2	0	7	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	46060386	C	T	46060386	3	4	302	1	0	0	0	0	1	0	0	0	6171	637	22	2	645	2	GABRG1	4	46060386	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	42851824	46060386	145093890	28	15236											
UGT2B7	7364	hgsc.bcm.edu;ucsc.edu	37	chr4	69962480	69962483	+	Frame_Shift_Del	DEL	TAAC	TAAC	-																															tgaaatttatcccacatcttTaactaaaactgagttggaga																								novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	TAAC	TAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		-	69962483	TAAC	-	69962480	7	5	302	1	0	1	0	1	0	0	0	0	16961	1764	61	0	244	0	UGT2B7	4	69962480	Frame_Shift_Del	DEL	TAAC	TCGA-BP-4985-01A-01D-1462-08	23902094	69962480	121191796	29	15237											
AGXT2L1	64850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	109669293	109669293	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagccaaaccaacagcaCaagatactggatttcctcca	15	6	7	13	0	0	1	0	0	0	1	2	3	2	3	4	2	5	1	4	2	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	109669293	C	G	109669293	3	3	302	1	0	0	0	0	1	0	0	0	406	478	17	4	569	4	AGXT2L1	4	109669293	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	39706813	109669293	81484983	30	15238											
C4orf27	54969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	170663225	170663225	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agattgattttctttttatcCgttatttctctaagtttttt	7	25	4	5	1	2	2	0	1	2	1	4	2	3	2	1	0	0	2	1	0	3	12	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	170663225	C	T	170663225	2	4	302	1	0	0	0	0	0	0	0	1	2258	639	23	1		1	C4orf27	4	170663225	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	60993932	170663225	20491051	31	15239											
C5orf42	65250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37165738	37165738	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcagtttctcacatcttTtttcttgcagctctttctca	5	20	3	13	0	6	0	3	0	5	0	9	0	7	0	1	0	2	3	1	0	0	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	37165738	T	C	37165738	3	2	302	1	0	0	0	0	1	0	0	0	2301	1841	64	3	2225	3	C5orf42	5	37165738	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08		37165738	143749522	32	15240											
ATG12	9140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	115177263	115177263	+	RNA	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccatcttgcttggagacActcgagagcggaagtagcga	10	7	13	11	4	1	2	0	0	1	2	2	6	1	3	2	2	3	2	2	2	2	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	115177263	A	T	115177263	1	4	302	0	1	0	0	0	0	0	0	0	1090	174	6	5		5	ATG12	5	115177263	RNA	SNP	A	TCGA-BP-4985-01A-01D-1462-08	78011525	115177263	65737997	33	15241											
PCDHB11	56125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140579545	140579545	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacggggggctcgggtGgtctctaatgataagaaaca	10	9	13	9	2	2	2	1	1	1	1	5	2	3	2	1	5	1	1	1	5	3	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	140579545	G	C	140579545	2	2	302	1	0	0	0	0	0	0	0	1	11536	1335	47	4		4	PCDHB11	5	140579545	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	25402282	140579545	40335715	34	15242											
LARS	51520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145524053	145524053	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtttccaggttcttcaagCactgagatgtctgtttcttc	7	16	8	10	1	4	1	1	1	3	1	6	2	5	1	1	1	1	4	1	1	1	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	145524053	C	T	145524053	3	4	302	1	0	0	0	0	1	0	0	0	8634	710	25	2	1957	2	LARS	5	145524053	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	4944508	145524053	35391207	35	15243											
TNXB	7148	broad.mit.edu;hgsc.bcm.edu	37	chr6	32047063	32047063	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcactgtcagctcccccagGagcggctcctcgggggactc	5	7	13	16	2	2	0	2	0	0	0	6	2	4	2	3	4	2	2	3	4	0	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	32047063	G	A	32047063	2	1	302	1	0	0	0	0	0	0	0	1	16345	1161	41	2		2	TNXB	6	32047063	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08		32047063	139068004	36	15244											
TCTE1	202500	broad.mit.edu;hgsc.bcm.edu	37	chr6	44255550	44255550	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacaatgctgatgtcgttaCggtatcctgcatgctggagg	9	11	12	9	2	0	1	0	1	0	0	2	2	1	2	1	3	5	5	1	3	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	44255550	C	T	44255550	3	4	302	1	0	0	0	0	1	0	0	0	15716	536	19	1	1508	1	TCTE1	6	44255550	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	12208487	44255550	126859517	37	15245											
ELOVL4	6785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	80635976	80635976	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataatgagcactagacgcaTctgaaaaggttctcggtcct	12	10	10	9	2	2	3	0	2	2	1	4	4	3	3	1	2	1	3	1	2	4	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	80635976	T	A	80635976	3	1	302	1	0	0	0	0	1	0	0	0	5076	1435	50	5	741	5	ELOVL4	6	80635976	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	36380426	80635976	90479091	38	15246											
IBTK	25998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	82925803	82925803	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaagtataccttgttttagGatctgactgcaggattgcaa	12	13	9	7	0	1	1	0	1	1	0	1	3	1	3	1	2	3	4	1	2	5	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	82925803	G	A	82925803	3	1	302	1	0	0	0	0	1	0	0	0	7476	1174	41	2	2546	2	IBTK	6	82925803	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	2289827	82925803	88189264	39	15247											
TAB2	23118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	149691195	149691195	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctgcgacaaaaattccCtgaagtacctgaagttgttg	12	11	9	9	1	0	3	0	3	0	0	1	4	1	3	3	0	2	3	3	0	5	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	149691195	C	G	149691195	3	3	302	1	0	0	0	0	1	0	0	0	15495	681	24	4	64	4	TAB2	6	149691195	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	66765392	149691195	21423872	40	15248											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu	37	chr7	48312183	48312183	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattttaccgatatatttatGaattattgaatattcagagt	14	18	5	4	1	1	3	1	2	0	1	1	4	1	3	1	0	1	0	1	0	8	10	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	48312183	G	A	48312183	3	1	302	1	0	0	0	0	1	0	0	0	31	1291	45	2	2815	2	ABCA13	7	48312183	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08		48312183	110826480	41	15249											
SEMA3D	223117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	84694820	84694820	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagggatcgagtgaatgcaGtatctttgccaaggaaatca	14	9	11	7	1	2	1	1	1	1	0	3	4	2	3	1	2	2	2	1	2	5	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	84694820	G	C	84694820	3	2	302	1	0	0	0	0	1	0	0	0	14029	1029	36	4	1743	4	SEMA3D	7	84694820	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	36382637	84694820	74443843	42	15250											
IQUB	154865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123142671	123142671	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctttagtctttgagcatGgtattctgctgctgaaaaat	9	15	9	8	1	2	2	0	2	2	0	2	2	2	2	1	1	3	4	1	1	4	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	123142671	G	A	123142671	3	1	302	1	0	0	0	0	1	0	0	0	7820	1348	47	2	1404	2	IQUB	7	123142671	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	38447851	123142671	35995992	43	15251											
WASL	8976	broad.mit.edu;ucsc.edu	37	chr7	123346339	123346339	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagggttaccagatttcCtttgtcgacggcccaaaagg	13	9	10	9	2	0	1	0	0	0	1	2	2	1	1	3	3	1	1	3	3	5	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	123346339	G	G	123346339	3	3	302	1	0	0	0	0	1	0	0	0	17255	681	24	4	1121	4	WASL	7	123346339	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	203668	123346339	35792324	44	15252											
ZC3HAV1	56829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138764442	138764442	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcctgagttccacttttGccattgatgatcctgtagtc	7	16	8	10	0	0	3	0	3	0	0	4	3	3	3	4	0	1	2	4	0	1	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	138764442	G	A	138764442	2	1	302	1	0	0	0	0	0	0	0	1	17574	1306	46	2		2	ZC3HAV1	7	138764442	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	15418103	138764442	20374221	45	15253											
TAS2R38	5726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	141672669	141672669	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcacccctattttgtcgCgccacagaatcagtaggggc	9	9	9	14	2	2	1	2	0	0	1	3	1	2	1	4	2	0	1	4	2	3	4	rs139085046	byfrequency	TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	141672669	C	T	141672669	3	4	302	1	0	0	0	0	1	0	0	0	15574	768	27	1	184	1	TAS2R38	7	141672669	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	2908227	141672669	17465994	46	15254											
IDO1	3620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	39775606	39775606	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattgctccatttgttttcaGttaaacatgctcagcattga	11	16	6	8	0	2	1	2	1	0	0	3	1	3	1	1	0	4	5	1	0	3	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	39775606	G	A	39775606	5	1	302	1	0	0	0	0	0	0	1	0	7501	1043	36	2	193	2	IDO1	8	39775606	Splice_Site	SNP	G	TCGA-BP-4985-01A-01D-1462-08		39775606	106588416	47	15255											
SLC7A13	157724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87242198	87242198	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaactacccctgacccCagaaacaaggatgtccagag	14	4	8	15	0	0	3	0	1	0	2	1	4	1	4	6	1	4	1	6	1	4	1	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	87242198	C	T	87242198	2	4	302	1	0	0	0	0	0	0	0	1	14697	581	21	2		2	SLC7A13	8	87242198	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	47466592	87242198	59121824	48	15256											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	100533198	100533198	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggctccccaggctgacAatccccttggcagatctgtc	7	9	9	16	0	1	2	0	1	1	1	4	2	3	2	5	3	0	3	5	3	1	1	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	100533198	A	C	100533198	3	2	302	1	0	0	0	0	1	0	0	0	17189	130	5	5	5088	5	VPS13B	8	100533198	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	13291000	100533198	45830824	49	15257											
PLEC	5339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144995815	144995815	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagcaggatgagggccGtgccgggactcagcagctgc	7	5	15	14	2	1	1	1	1	0	0	2	3	2	3	4	3	5	3	4	3	0	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	144995815	G	A	144995815	3	1	302	1	0	0	0	0	1	0	0	0	12052	1145	40	1	5473	1	PLEC	8	144995815	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	44462617	144995815	1368207	50	15258											
KIAA1984	84960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139701099	139701099	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacctctatgtccggctgaTgggcattaacttgcctgcga	8	11	10	12	2	1	1	0	1	1	0	2	2	2	1	3	2	4	2	3	2	3	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	139701099	T	C	139701099	3	2	302	1	0	0	0	0	1	0	0	0	8266	1464	51	3	1295	3	KIAA1984	9	139701099	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08		139701099	1512332	51	15259											
ALOX5	240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	45935891	45935891	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcagctcaaccaaatccCgggagatgagaaccctattt	13	9	8	11	1	2	2	2	1	0	2	3	4	3	2	3	1	3	2	3	1	5	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	45935891	C	T	45935891	3	4	302	1	0	0	0	0	1	0	0	0	540	652	23	1	1025	1	ALOX5	10	45935891	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08		45935891	89598856	52	15260											
MYPN	84665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	69881502	69881502	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctagaaaacgactttctcctGatcagatgaaacactcacct	14	10	5	12	1	3	4	2	2	1	2	4	5	3	4	2	0	2	0	2	0	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	69881502	G	C	69881502	3	2	302	1	0	0	0	0	1	0	0	0	10098	1290	45	4	309	4	MYPN	10	69881502	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	23945611	69881502	65653245	53	15261											
TET1	80312	hgsc.bcm.edu;ucsc.edu	37	chr10	70451380	70451382	+	In_Frame_Del	DEL	AAG	AAG	-																															agtttgaggctaaagaagctAagaataagaaaatgaaggcc																								novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		-	70451382	AAG	-	70451380	7	5	302	1	0	1	0	1	0	0	0	0	15768	363	13	0	6262	0	TET1	10	70451380	In_Frame_Del	DEL	AAG	TCGA-BP-4985-01A-01D-1462-08	569878	70451380	65083367	54	15262											
PLAC9	219348	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	81904026	81904026	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggacagaggtgaaaggcctGctgggcctgctggaggagct	8	6	19	8	0	0	2	0	1	0	1	0	5	0	5	2	6	3	3	2	6	1	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	81904026	G	C	81904026	2	2	302	1	0	0	0	0	0	0	0	1	12017	1306	46	4		4	PLAC9	10	81904026	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	11452646	81904026	53630721	55	15263											
MYOF	26509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	95148802	95148802	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaacctttccagtattcagCtcatcataggggtctgggaa	10	11	9	11	0	4	0	3	0	1	0	5	1	5	1	3	3	2	2	3	3	4	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	95148802	C	A	95148802	3	1	302	1	0	0	0	0	1	0	0	0	10089	796	28	4	4767	4	MYOF	10	95148802	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	13244776	95148802	40385945	56	15264											
DOCK1	1793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129202630	129202630	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaaaacatcgtcaaagtgatCaggcccaagcctgactattt	14	9	8	10	1	2	2	2	2	0	0	3	3	2	2	2	1	2	0	2	1	5	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	129202630	C	T	129202630	2	4	302	1	0	0	0	0	0	0	0	1	4684	816	29	2		2	DOCK1	10	129202630	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	34053828	129202630	6332117	57	15265											
SCUBE2	57758	broad.mit.edu;ucsc.edu	37	chr11	9048918	9048918	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtgagacgcacaggttttCcgcatcaccagatagtcccc	10	8	10	13	2	1	2	1	1	0	2	3	4	3	2	4	1	0	3	4	1	1	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	9048918	A	A	9048918	2	1	302	1	0	0	0	0	0	0	0	1	13947	842	30	4		4	SCUBE2	11	9048918	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08		9048918	125957598	58	15266											
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62300776	62300776	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagtgatttgggggccCttcagcttcccctcaaggcc	5	9	12	15	0	2	1	2	1	0	0	3	1	3	1	5	4	1	1	5	4	1	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	62300776	C	A	62300776	3	1	302	1	0	0	0	0	1	0	0	0	414	680	24	4	16679	4	AHNAK	11	62300776	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	53251858	62300776	72705740	59	15267											
PCNXL3	399909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65386188	65386188	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctcctcttctacttcctGctactcccctgagagctccc	5	12	5	19	0	2	1	0	1	2	1	6	2	6	1	5	0	5	3	5	0	2	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	65386188	G	A	65386188	3	1	302	1	0	0	0	0	1	0	0	0	11593	1319	46	2	1377	2	PCNXL3	11	65386188	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	3085412	65386188	69620328	60	15268											
C11orf1	64776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111754535	111754535	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttcccaggacatcaaccTgaactggatcctccccgata	10	9	8	14	1	1	1	1	1	0	0	4	4	4	3	5	3	2	1	5	3	3	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	111754535	T	C	111754535	2	2	302	1	0	0	0	0	0	0	0	1	1629	1567	55	3		3	C11orf1	11	111754535	Silent	SNP	T	TCGA-BP-4985-01A-01D-1462-08	46368347	111754535	23251981	61	15269											
TREH	11181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118531943	118531943	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctcacagagacagtcctGttcttggtccaaaagtccaa	13	9	8	11	0	2	1	1	0	1	1	5	2	5	1	3	1	1	2	3	1	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	118531943	G	A	118531943	2	1	302	1	0	0	0	0	0	0	0	1	16468	1368	48	2		2	TREH	11	118531943	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	6777408	118531943	16474573	62	15270											
CLSTN3	9746	hgsc.bcm.edu;ucsc.edu	37	chr12	7295471	7295472	+	Frame_Shift_Ins	INS	-	-	T																															gttcctaccctaggagacccINStttgtcgatccaccactact																								novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	7295472	-	T	7295471	7	5	302	1	0	1	1	0	0	0	0	0	3563	681	24	0	1589	0	CLSTN3	12	7295471	Frame_Shift_Ins	INS	-	TCGA-BP-4985-01A-01D-1462-08		7295471	126556424	63	15271											
A2ML1	144568	broad.mit.edu;hgsc.bcm.edu	37	chr12	8995734	8995734	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcttttattctcagggaaAgtttcaaatggaagacttag	12	15	8	6	0	3	1	2	0	2	1	5	3	3	3	0	2	0	1	0	2	5	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	8995734	A	G	8995734	3	3	302	1	0	0	0	0	1	0	0	0	5	72	3	3	1299	3	A2ML1	12	8995734	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	1700263	8995734	124856161	64	15272											
ALG10B	144245	broad.mit.edu;ucsc.edu	37	chr12	38710783	38710783	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttctccgccttcagccggGcgctgcgagagccctacatg	5	9	11	16	4	3	1	1	0	2	1	4	2	3	1	4	1	4	1	4	1	1	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	38710783	T	T	38710783	3	4	302	1	0	0	0	0	1	0	0	0	512	1203	42	4	90	4	ALG10B	12	38710783	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	29715049	38710783	95141112	65	15273											
C12orf64	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	80752068	80752068	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttccactatgtcatgaTggggaatttctcacagtaga	10	13	9	9	0	2	2	2	1	1	1	4	3	3	3	2	2	0	2	2	2	3	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	80752068	T	A	80752068	3	1	302	1	0	0	0	0	1	0	0	0	1707	1461	51	5	6227	5	C12orf64	12	80752068	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	42041285	80752068	53099827	66	15274											
TMTC2	160335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	83290181	83290181	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgccacgaacctgtttttCtatgtcggctttgtaattgc	6	16	8	11	2	1	0	0	0	1	0	2	1	1	0	3	1	3	3	3	1	3	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	83290181	C	G	83290181	3	3	302	1	0	0	0	0	1	0	0	0	16260	912	32	4	1249	4	TMTC2	12	83290181	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	2538113	83290181	50561714	67	15275											
IRS2	8660	broad.mit.edu;hgsc.bcm.edu	37	chr13	110437883	110437883	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccggcggcgccggcagagCcgcccagggcgccgggcagg	4	0	19	18	7	0	1	0	0	0	1	0	1	0	1	6	6	1	2	6	6	0	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	110437883	C	G	110437883	3	3	302	1	0	0	0	0	1	0	0	0	7841	739	26	4	3506	4	IRS2	13	110437883	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08		110437883	4731995	68	15276											
DCAF11	80344	broad.mit.edu;hgsc.bcm.edu	37	chr14	24590705	24590705	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagttcatctacagtggcTgctccactggcaaagtggtt	9	11	11	10	0	2	0	1	0	1	0	3	0	3	0	1	3	3	6	1	3	2	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	24590705	T	A	24590705	3	1	302	1	0	0	0	0	1	0	0	0	4262	1580	55	5	1424	5	DCAF11	14	24590705	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08		24590705	82758835	69	15277											
RIPK3	11035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24808452	24808452	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttggtcccagttcaccttCtcgataaccccttctaggcg	6	13	7	15	2	4	0	1	0	3	0	6	1	5	0	4	2	1	1	4	2	2	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	24808452	C	T	24808452	2	4	302	1	0	0	0	0	0	0	0	1	13384	912	32	2		2	RIPK3	14	24808452	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	217747	24808452	82541088	70	15278											
AQR	9716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35196564	35196564	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttattttcctttggttttctCctcattattatattaaaagt	9	23	3	6	0	2	0	1	0	1	0	4	0	3	0	2	1	0	1	2	1	6	10	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	35196564	C	T	35196564	2	4	302	1	0	0	0	0	0	0	0	1	835	854	30	2		2	AQR	15	35196564	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08		35196564	67334828	71	15279											
DISP2	85455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40662245	40662245	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagtgcccgtgtaccagAttccgtgggtgtgtccccag	5	9	13	14	2	0	1	0	0	0	1	2	1	2	1	6	1	2	1	6	1	1	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	40662245	A	C	40662245	3	2	302	1	0	0	0	0	1	0	0	0	4540	333	12	5	3962	5	DISP2	15	40662245	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08	5465681	40662245	61869147	72	15280											
RCN2	5955	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	77241529	77241529	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagattatggcagacagcTccatgatgactatttctatc	12	12	7	10	0	1	4	0	2	1	2	3	4	2	4	1	1	1	2	1	1	3	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	77241529	T	G	77241529	3	3	302	1	0	0	0	0	1	0	0	0	13182	1551	54	5	946	5	RCN2	15	77241529	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	36579284	77241529	25289863	73	15281											
C15orf58	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90785079	90785079	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggggtccgagtaattctGtgggcccggaagtccagctt	8	9	14	10	2	1	0	0	0	1	0	3	2	3	1	3	4	1	2	3	4	2	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	90785079	G	T	90785079	2	4	302	1	0	0	0	0	0	0	0	1	1806	1364	48	4		4	C15orf58	15	90785079	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	13543550	90785079	11746313	74	15282											
GRIN2A	2903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	9943692	9943692	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctatgtcttccacgatgaCgaatggggcctcctccaggg	7	10	12	12	2	2	1	0	1	2	0	5	3	5	1	4	3	0	0	4	3	2	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	9943692	C	T	9943692	3	4	302	1	0	0	0	0	1	0	0	0	6779	536	19	1	3181	1	GRIN2A	16	9943692	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08		9943692	80411061	75	15283											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7681680	7681680	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcacaggcaagaccgagAccgtcaaggacctgggcaag	13	2	14	12	2	1	2	1	0	0	2	1	4	1	3	3	4	0	3	3	4	3	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	7681680	A	G	7681680	3	3	302	1	0	0	0	0	1	0	0	0	4602	275	10	3	5568	3	DNAH2	17	7681680	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08		7681680	73513530	76	15284											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11593618	11593618	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgttgctttcttcttggaGgaggtgtcgggctggcagaa	6	14	15	6	1	2	1	0	0	2	1	3	3	2	3	0	5	1	4	0	5	2	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	11593618	G	C	11593618	3	2	302	1	0	0	0	0	1	0	0	0	4608	991	35	4	4557	4	DNAH9	17	11593618	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08	3911938	11593618	69601592	77	15285											
MPRIP	23164	broad.mit.edu;hgsc.bcm.edu	37	chr17	17078669	17078669	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgctgactggggacggCggtggggaggccactgggtc	5	6	20	10	3	0	1	0	1	0	0	1	3	0	3	1	8	1	2	1	8	0	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	17078669	C	A	17078669	2	1	302	1	0	0	0	0	0	0	0	1	9743	755	27	4		4	MPRIP	17	17078669	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	5485051	17078669	64116541	78	15286											
PHF12	57649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27233901	27233901	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actctgcactttggcaacaaTactgcttgggggggttggcg	7	11	14	9	1	1	0	0	0	1	0	1	0	1	0	0	5	4	4	0	5	3	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	27233901	T	A	27233901	3	1	302	1	0	0	0	0	1	0	0	0	11823	1406	49	5	369	5	PHF12	17	27233901	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	10155232	27233901	53961309	79	15287											
FZD2	2535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42636502	42636502	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcatcgcttgctacttctaCgagcaggccttccgcgagca	7	10	10	14	4	2	0	1	0	1	0	4	2	3	0	2	1	5	4	2	1	2	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	42636502	C	T	42636502	2	4	302	1	0	0	0	0	0	0	0	1	6130	547	19	1		1	FZD2	17	42636502	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08	15402601	42636502	38558708	80	15288											
VEZF1	7716	broad.mit.edu;hgsc.bcm.edu	37	chr17	56058037	56058037	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtctttaagtggctggtGatgtatgctgcactcaggag	8	13	14	6	0	2	2	1	2	1	0	2	3	2	3	0	3	2	4	0	3	2	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	56058037	G	T	56058037	2	4	302	1	0	0	0	0	0	0	0	1	17154	1280	45	4		4	VEZF1	17	56058037	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	13421535	56058037	25137173	81	15289											
LLGL2	3993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73565078	73565078	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacgaggacggcacggtgCggttctgggatgcctcgggt	5	7	19	10	5	1	0	0	0	1	0	2	3	1	2	1	7	2	3	1	7	0	1	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	73565078	C	T	73565078	3	4	302	1	0	0	0	0	1	0	0	0	8834	759	27	1	1423	1	LLGL2	17	73565078	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	17507041	73565078	7630132	82	15290											
DTNA	1837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	32409025	32409025	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcggacggtgcttttggtgGatgcgtctagatggataaca	8	12	14	7	3	1	1	0	0	1	1	2	4	1	4	0	5	3	1	0	5	2	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	32409025	G	T	32409025	3	4	302	1	0	0	0	0	1	0	0	0	4788	1174	41	4	1157	4	DTNA	18	32409025	Missense_Mutation	SNP	G	TCGA-BP-4985-01A-01D-1462-08		32409025	45668223	83	15291											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9067640	9067640	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgaataagattccttttcAgaagtggtggtccccacatt	11	12	9	9	1	1	2	1	0	0	2	3	4	3	2	3	2	0	0	3	2	3	5	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	9067640	A	G	9067640	2	3	302	1	0	0	0	0	0	0	0	1	9973	175	7	3		3	MUC16	19	9067640	Silent	SNP	A	TCGA-BP-4985-01A-01D-1462-08		9067640	50061343	84	15292											
TYK2	7297	broad.mit.edu;hgsc.bcm.edu	37	chr19	10476537	10476537	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggcgctgtgctgccggaTatgccggcggaaggagcgcg	6	5	19	11	6	0	0	0	0	0	0	0	3	0	3	2	5	4	2	2	5	2	1	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	10476537	T	C	10476537	3	2	302	1	0	0	0	0	1	0	0	0	16809	1406	49	3	2972	3	TYK2	19	10476537	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	1408897	10476537	48652446	85	15293											
POLR2I	5438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36605736	36605736	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatacccacgaagcccggcTcgtaagtcccgtcgggctcc	8	6	11	16	5	0	0	0	0	0	0	4	2	2	0	4	2	2	3	4	2	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		A	36605736	T	A	36605736	3	1	302	1	0	0	0	0	1	0	0	0	12222	1551	54	5	378	5	POLR2I	19	36605736	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	26129199	36605736	22523247	86	15294											
PTOV1	53635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50358129	50358129	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgatcatgcagctgaTccctcagcagctgctggtga	9	9	12	11	0	2	3	2	3	0	0	3	4	3	3	1	1	6	6	1	1	1	0	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	50358129	T	C	50358129	3	2	302	1	0	0	0	0	1	0	0	0	12771	1435	50	3	448	3	PTOV1	19	50358129	Missense_Mutation	SNP	T	TCGA-BP-4985-01A-01D-1462-08	13752393	50358129	8770854	87	15295											
ZNF665	79788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53668435	53668435	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcgcacactaaaggctttGccacactcatcacacctgta	12	9	6	14	1	2	0	2	0	0	0	3	1	2	0	2	1	1	3	2	1	3	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	53668435	G	T	53668435	2	4	302	1	0	0	0	0	0	0	0	1	18072	1306	46	4		4	ZNF665	19	53668435	Silent	SNP	G	TCGA-BP-4985-01A-01D-1462-08	3310306	53668435	5460548	88	15296											
SLC4A11	83959	broad.mit.edu;ucsc.edu	37	chr20	3211240	3211240	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actattccacaggcccgtccAtgcgtagaaggagttgaagt	11	9	11	10	2	0	2	0	1	0	1	2	3	2	3	3	2	1	2	3	2	4	4	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	3211240	G	G	3211240	3	3	302	1	0	0	0	0	1	0	0	0	14654	217	8	3	1327	3	SLC4A11	20	3211240	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08		3211240	59814280	89	15297											
DOPEY2	9980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37603371	37603371	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgctggattgtgccactttCcctgtctacctgtccgagga	5	13	10	13	1	1	0	0	0	1	0	3	3	3	2	4	2	3	1	4	2	1	3	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	37603371	C	T	37603371	2	4	302	1	0	0	0	0	0	0	0	1	4708	854	30	2		2	DOPEY2	21	37603371	Silent	SNP	C	TCGA-BP-4985-01A-01D-1462-08		37603371	10526524	90	15298											
ZNF295	0	broad.mit.edu;hgsc.bcm.edu	37	chr21	43413025	43413025	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggcctgtcatctagggCtgttttttcactacaatctt	7	17	8	9	0	4	1	2	1	2	0	4	1	4	1	1	2	1	2	1	2	3	7	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	43413025	C	T	43413025	3	4	302	1	0	0	0	0	1	0	0	0	17826	797	28	2	2024	2	ZNF295	21	43413025	Missense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	5809654	43413025	4716870	91	15299											
MAPK8IP2	23542	broad.mit.edu	37	chr22	51042064	51042064	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaccccaggactccctaAacaacaacggaggctttgac	12	6	7	16	1	0	1	0	1	0	0	2	3	2	3	4	3	3	1	4	3	4	2	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		C	51042064	C	C	51042064	3	2	302	1	0	0	0	0	1	0	0	0	9285	14	1	5	561	5	MAPK8IP2	22	51042064	Missense_Mutation	SNP	A	TCGA-BP-4985-01A-01D-1462-08		51042064	262502	92	15300											
SLC6A14	11254	hgsc.bcm.edu	37	chrX	115572174	115572175	+	Frame_Shift_Ins	INS	-	-	G																															caattatgttagcattggctINSggtttacctttgttctttct																								novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		G	115572175	-	G	115572174	7	5	302	1	0	1	1	0	0	0	0	0	14679	1567	55	0	265	0	SLC6A14	23	115572174	Frame_Shift_Ins	INS	-	TCGA-BP-4985-01A-01D-1462-08		115572174	39698386	93	15301											
STAG2	10735	broad.mit.edu;hgsc.bcm.edu	37	chrX	123197044	123197044	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaatatataccactggaCgattagaaaaggtaagatta	18	10	9	4	1	0	2	0	0	0	2	0	5	0	4	1	3	1	1	1	3	9	6	novel		TCGA-BP-4985-01A-01D-1462-08	TCGA-BP-4985-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e56acfea-aec6-4102-8fe0-25df396c10ae	3c2a1dd1-1800-482c-97c6-a20e014864c2		T	123197044	C	T	123197044	4	4	302	1	0	0	0	0	0	1	0	0	15244	528	19	1	1876	1	STAG2	23	123197044	Nonsense_Mutation	SNP	C	TCGA-BP-4985-01A-01D-1462-08	7624870	123197044	32073516	94	15302											
ATAD3A	55210	broad.mit.edu;ucsc.edu	37	chr1	1459280	1459280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggaacaccaagaagaaccGcagcctgtacaggaacatcc	17	3	9	12	1	0	2	0	0	0	2	1	4	1	4	4	2	5	2	4	2	7	1	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	1459280	A	A	1459280	3	1	303	1	0	0	0	0	1	0	0	0	1073	1087	38	1	1207	1	ATAD3A	1	1459280	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08		1459280	247791341	1	15303											
KLHDC7A	127707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	18807868	18807868	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcggggcgggcagggctcGgactctgagcaggtgcctcc	5	5	19	12	3	1	1	0	1	1	0	3	3	2	2	2	6	3	3	2	6	0	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	18807868	G	A	18807868	2	1	303	1	0	0	0	0	0	0	0	1	8360	1103	39	1		1	KLHDC7A	1	18807868	Silent	SNP	G	TCGA-BP-4986-01A-01D-1462-08	17348588	18807868	230442753	2	15304											
PIGC	5279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	172411549	172411549	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcatccatataccaccAgataaccacaaaaacacaaa	20	5	1	15	0	1	1	1	0	0	1	2	1	2	1	5	0	3	0	5	0	6	3	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	172411549	A	T	172411549	3	4	303	1	0	0	0	0	1	0	0	0	11886	188	7	5	683	5	PIGC	1	172411549	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08	153603681	172411549	76839072	3	15305											
NCF2	4688	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183532672	183532672	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgactaccgtgtactTgtagtgcaccttgagtgtgt	7	15	10	9	1	1	2	1	2	0	0	1	2	1	2	2	0	3	3	2	0	3	6	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	183532672	T	A	183532672	4	1	303	1	0	0	0	0	0	1	0	0	10217	1821	63	5	521	5	NCF2	1	183532672	Nonsense_Mutation	SNP	T	TCGA-BP-4986-01A-01D-1462-08	11121123	183532672	65717949	4	15306											
DEGS1	8560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	224377767	224377767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggaagttatcaataccGtggcacaggtcacttttgac	11	12	9	9	1	3	1	2	1	1	0	3	2	3	2	1	3	1	2	1	3	4	4	rs188450448	by1000genomes	TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	224377767	G	A	224377767	3	1	303	1	0	0	0	0	1	0	0	0	4422	1145	40	1	577	1	DEGS1	1	224377767	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08	40845095	224377767	24872854	5	15307											
OR2T10	127069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	248756885	248756885	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagtgagagctggtttataAagaagtacatgggagtatgc	13	11	14	3	0	0	3	0	2	0	2	0	5	0	4	0	2	3	4	0	2	6	5	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	248756885	A	C	248756885	3	2	303	1	0	0	0	0	1	0	0	0	11017	14	1	5	756	5	OR2T10	1	248756885	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08	24379118	248756885	493736	6	15308											
CAD	790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27457500	27457500	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccacgcgggtcatcatggggGaagaagtggaacctgtgggg	9	6	18	8	2	2	1	2	0	0	1	2	3	2	3	2	6	1	0	2	6	3	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	27457500	G	A	27457500	3	1	303	1	0	0	0	0	1	0	0	0	2565	1175	41	2	3823	2	CAD	2	27457500	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08		27457500	215741873	7	15309											
PRKCE	5581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	45879259	45879259	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtagtgttcaatggccTtcttaagatcaaaatctgcg	11	13	9	8	1	4	1	2	0	2	1	4	1	4	1	1	2	1	2	1	2	5	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	45879259	T	A	45879259	3	1	303	1	0	0	0	0	1	0	0	0	12513	1609	56	5	22	5	PRKCE	2	45879259	Missense_Mutation	SNP	T	TCGA-BP-4986-01A-01D-1462-08	18421759	45879259	197320114	8	15310											
VPS54	51542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	64160992	64160992	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctcaccgaatgcatcactTataaacatgccttcatggat	12	11	5	13	1	3	0	3	0	0	0	3	2	3	1	3	1	3	1	3	1	4	3	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	64160992	T	C	64160992	3	2	303	1	0	0	0	0	1	0	0	0	17215	1744	61	3	1427	3	VPS54	2	64160992	Missense_Mutation	SNP	T	TCGA-BP-4986-01A-01D-1462-08	18281733	64160992	179038381	9	15311											
STEAP3	55240	hgsc.bcm.edu	37	chr2	120003082	120003090	+	In_Frame_Del	DEL	GAGATGGAC	GAGATGGAC	-																															cagccaccaaaatgccagaaGagatggacaagccactgatc																								novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	GAGATGGAC	GAGATGGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		-	120003090	GAGATGGAC	-	120003082	7	5	303	1	0	1	0	1	0	0	0	0	15280	943	33	0	46	0	STEAP3	2	120003082	In_Frame_Del	DEL	GAGATGGAC	TCGA-BP-4986-01A-01D-1462-08	55842090	120003082	123196291	10	15312											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179664360	179664360	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gactttggcttcggaggaatCctgggaggtgttttatgtgg	6	14	16	5	1	0	0	0	0	0	0	2	4	1	3	1	6	0	2	1	6	2	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	179664360	C	T	179664360	2	4	303	1	0	0	0	0	0	0	0	1	16734	854	30	2		2	TTN	2	179664360	Silent	SNP	C	TCGA-BP-4986-01A-01D-1462-08	59661278	179664360	63535013	11	15313											
VHL	7428	hgsc.bcm.edu	37	chr3	10188262	10188262	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggttaaccaaactgaattAtttgtgccatctctcaatgt	11	15	6	9	0	2	1	1	1	1	0	3	1	2	1	2	1	3	1	2	1	5	3	rs119103278	alternate_allele	TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	10188262	A	T	10188262	3	4	303	1	0	0	0	0	1	0	0	0	17161	446	16	5	411	5	VHL	3	10188262	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08		10188262	187834168	12	15314											
EPHA5	2044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	66213782	66213782	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatactcacatcttgattgGtcatctcccagtagggtctc	8	13	7	13	0	5	1	2	1	3	0	7	1	5	1	2	2	1	1	2	2	2	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	66213782	G	C	66213782	3	2	303	1	0	0	0	0	1	0	0	0	5170	1261	44	4	481	4	EPHA5	4	66213782	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08		66213782	124940494	13	15315											
ENAM	10117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71510239	71510239	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggctccaatccagaaggCatccaaagtcaagtccaaga	16	5	9	11	0	1	2	1	0	0	2	5	3	5	2	4	2	0	2	4	2	6	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	71510239	C	A	71510239	2	1	303	1	0	0	0	0	0	0	0	1	5112	697	25	4		4	ENAM	4	71510239	Silent	SNP	C	TCGA-BP-4986-01A-01D-1462-08	5296457	71510239	119644037	14	15316											
F11	2160	broad.mit.edu;hgsc.bcm.edu	37	chr4	187208887	187208887	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatacccttagtgaccaaCgaagagtgccagaagagata	17	6	10	8	1	0	5	0	1	0	4	0	7	0	5	3	0	3	0	3	0	7	3	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	187208887	C	T	187208887	2	4	303	1	0	0	0	0	0	0	0	1	5337	535	19	1		1	F11	4	187208887	Silent	SNP	C	TCGA-BP-4986-01A-01D-1462-08	115698648	187208887	3945389	15	15317											
PAIP1	10605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43555964	43555964	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaataacctgaagggtaaaAttcaggggcattcacagaca	17	7	10	7	0	2	3	2	1	0	2	2	3	2	3	1	3	1	2	1	3	5	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	43555964	A	T	43555964	3	4	303	1	0	0	0	0	1	0	0	0	11396	101	4	5	1076	5	PAIP1	5	43555964	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08		43555964	137359296	16	15318											
PCDHA9	9752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140230078	140230078	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggccacggccactgtgctGgtgtcgctggtggagagcgg	5	7	18	11	4	0	1	0	0	0	1	1	2	0	1	2	6	2	2	2	6	0	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	140230078	G	A	140230078	2	1	303	1	0	0	0	0	0	0	0	1	11531	1335	47	2		2	PCDHA9	5	140230078	Silent	SNP	G	TCGA-BP-4986-01A-01D-1462-08	96674114	140230078	40685182	17	15319											
SLC25A2	83884	broad.mit.edu;ucsc.edu	37	chr5	140682821	140682821	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacagggcctagttcatcTtttgatctccctgacgcaaa	9	12	9	11	1	3	2	1	2	2	0	4	3	3	3	2	2	0	2	2	2	2	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	140682821	G	G	140682821	3	3	303	1	0	0	0	0	1	0	0	0	14484	1606	56	5	297	5	SLC25A2	5	140682821	Missense_Mutation	SNP	T	TCGA-BP-4986-01A-01D-1462-08	452743	140682821	40232439	18	15320											
NKAPL	222698	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28227271	28227271	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcctcttgggatggctgttCccgctctcactcccgcggcc	2	12	10	17	3	2	0	1	0	2	0	6	1	5	1	4	3	0	3	4	3	0	3	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	28227271	C	T	28227271	3	4	303	1	0	0	0	0	1	0	0	0	10440	855	30	2	124	2	NKAPL	6	28227271	Missense_Mutation	SNP	C	TCGA-BP-4986-01A-01D-1462-08		28227271	142887796	19	15321											
BRD2	6046	broad.mit.edu;hgsc.bcm.edu	37	chr6	32943251	32943251	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgggctgcttcagagtgtAtgcaagattttaataccatg	11	14	10	6	0	1	2	1	0	0	2	1	2	1	2	1	1	3	4	1	1	4	6	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	32943251	A	G	32943251	3	3	303	1	0	0	0	0	1	0	0	0	1502	449	16	3	434	3	BRD2	6	32943251	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08	4715980	32943251	138171816	20	15322											
KIAA1009	22832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	84894950	84894950	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatcgatctcaagttttTgctttttataatgtcctctg	10	18	6	7	1	2	1	1	0	2	1	5	2	3	1	1	0	1	2	1	0	4	6	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	84894950	T	C	84894950	3	2	303	1	0	0	0	0	1	0	0	0	8203	1821	63	3	2653	3	KIAA1009	6	84894950	Missense_Mutation	SNP	T	TCGA-BP-4986-01A-01D-1462-08	51951699	84894950	86220117	21	15323											
PNPLA8	50640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	108155092	108155092	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatactttgtttagttgAaacttgaagaacatcaggta	15	13	8	5	0	1	3	1	2	0	1	1	3	1	3	0	1	4	4	0	1	7	7	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	108155092	A	C	108155092	3	2	303	1	0	0	0	0	1	0	0	0	12171	246	9	5	1540	5	PNPLA8	7	108155092	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08		108155092	50983571	22	15324											
PLEC	5339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145007369	145007369	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcggggcccacctgcGgtacatctgctcgccctgcg	4	6	15	16	4	1	0	0	0	1	0	2	0	1	0	3	4	4	3	3	4	1	1	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	145007369	G	A	145007369	3	1	303	1	0	0	0	0	1	0	0	0	12052	1116	39	1	12309	1	PLEC	8	145007369	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08		145007369	1356653	23	15325											
IL2RA	3559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6054846	6054846	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggttttctagattgttcTtctactcttcctcctgtagt	4	22	6	9	0	4	1	0	0	4	1	6	1	6	1	2	1	1	3	2	1	3	10	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	6054846	T	G	6054846	2	3	303	1	0	0	0	0	0	0	0	1	7686	1617	56	5		5	IL2RA	10	6054846	Silent	SNP	T	TCGA-BP-4986-01A-01D-1462-08		6054846	129479901	24	15326											
ITIH5	80760	hgsc.bcm.edu	37	chr10	7608335	7608336	+	Frame_Shift_Ins	INS	-	-	G																															ttgtggccatttggaggggcINSgggtgccccaattaactctc																								novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	7608336	-	G	7608335	7	5	303	1	0	1	1	0	0	0	0	0	7907	768	27	0	693	0	ITIH5	10	7608335	Frame_Shift_Ins	INS	-	TCGA-BP-4986-01A-01D-1462-08	1553489	7608335	127926412	25	15327											
CHUK	1147	hgsc.bcm.edu;ucsc.edu	37	chr10	101961883	101961883	+	Frame_Shift_Del	DEL	A	A	-																															cttttcttccatttctttccAtgcttttagcattttttctg																								novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		-	101961883	A	-	101961883	7	5	303	1	0	1	0	1	0	0	0	0	3416	217	8	0	738	0	CHUK	10	101961883	Frame_Shift_Del	DEL	A	TCGA-BP-4986-01A-01D-1462-08	94353548	101961883	33572864	26	15328											
B4GALNT4	338707	broad.mit.edu	37	chr11	379656	379656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgagctctgccggccactgCgcctggcctggcgccaggac	4	5	14	18	4	1	0	0	0	1	0	1	2	1	1	6	4	3	1	6	4	0	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		T	379656	T	T	379656	3	4	303	1	0	0	0	0	1	0	0	0	1269	768	27	1	2501	1	B4GALNT4	11	379656	Missense_Mutation	SNP	C	TCGA-BP-4986-01A-01D-1462-08		379656	134626860	27	15329											
FREM2	341640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	39451280	39451280	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatccagtggctgctgagttTagcttgaacacccaaatgta	11	11	10	9	0	0	2	0	2	0	0	1	3	1	2	2	1	3	5	2	1	4	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	39451280	T	C	39451280	2	2	303	1	0	0	0	0	0	0	0	1	6045	1751	61	3		3	FREM2	13	39451280	Silent	SNP	T	TCGA-BP-4986-01A-01D-1462-08		39451280	75718598	28	15330											
MGA	23269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42035185	42035185	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcttcagttgcttttcCtaagtctttggtagcatctc	5	18	9	9	0	3	0	1	0	2	0	5	0	4	0	1	2	2	5	1	2	2	7	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	42035185	C	G	42035185	3	3	303	1	0	0	0	0	1	0	0	0	9540	681	24	4	5081	4	MGA	15	42035185	Missense_Mutation	SNP	C	TCGA-BP-4986-01A-01D-1462-08		42035185	60496207	29	15331											
MYO1E	4643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59506883	59506883	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctaggacgccaatgttgtAttcttcatggtctttctcca	7	16	8	10	1	5	0	1	0	4	0	6	1	5	1	2	2	0	2	2	2	3	6	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	59506883	A	G	59506883	3	3	303	1	0	0	0	0	1	0	0	0	10072	449	16	3	2254	3	MYO1E	15	59506883	Missense_Mutation	SNP	A	TCGA-BP-4986-01A-01D-1462-08	17471698	59506883	43024509	30	15332											
NGRN	51335	hgsc.bcm.edu;ucsc.edu	37	chr15	90815002	90815005	+	Frame_Shift_Del	DEL	CTTC	CTTC	-																															ttctttgacagcaacgggaaCttcctgtacagaatttgagt																								novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	CTTC	CTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		-	90815005	CTTC	-	90815002	7	5	303	1	0	1	0	1	0	0	0	0	10399	564	20	0	868	0	NGRN	15	90815002	Frame_Shift_Del	DEL	CTTC	TCGA-BP-4986-01A-01D-1462-08	31308119	90815002	11716390	31	15333			1	23		2	2	13	N	CTTC_A	1.666828e-05
NGRN	51335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90815014	90815014	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgggaacttcctgtacagAatttgagtcggggcttggct	9	11	13	8	2	0	2	0	1	0	1	2	3	1	3	1	4	3	3	1	4	4	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	90815014	A	G	90815014	2	3	303	1	0	0	0	0	0	0	0	1	10399	243	9	3		3	NGRN	15	90815014	Silent	SNP	A	TCGA-BP-4986-01A-01D-1462-08	12	90815014	11716378	32	15334			1	23		2	2	13	N	CTTC_A	1.666828e-05
SPNS3	201305	broad.mit.edu	37	chr17	4381896	4381896	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttggggagctgcttctGtcctgcaactgggcagtggt	4	11	16	10	0	1	0	0	0	1	0	2	1	2	1	2	5	4	4	2	5	1	2	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	4381896	C	C	4381896	2	2	303	1	0	0	0	0	0	0	0	1	15077	1364	48	4		4	SPNS3	17	4381896	Silent	SNP	G	TCGA-BP-4986-01A-01D-1462-08		4381896	76813314	33	15335											
KCNJ12	3768	broad.mit.edu	37	chr17	21319528	21319528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaggacctggagacggacGactttgagatcgtggtcatc	9	8	15	9	3	1	2	1	1	0	2	3	7	1	4	1	5	0	1	1	5	0	1	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	21319528	A	A	21319528	3	1	303	1	0	0	0	0	1	0	0	0	8046	1058	37	1	876	1	KCNJ12	17	21319528	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08	16937632	21319528	59875682	34	15336											
TBC1D16	125058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	77926601	77926601	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cgggaaccgcaggccggcgtCggagctggacggggggctgg	5	3	22	11	6	0	0	0	0	0	0	1	3	0	3	2	9	2	3	2	9	1	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	77926601	C	G	77926601	3	3	303	1	0	0	0	0	1	0	0	0	15604	884	31	4	1543	4	TBC1D16	17	77926601	Missense_Mutation	SNP	C	TCGA-BP-4986-01A-01D-1462-08	56607073	77926601	3268609	35	15337											
EPS15L1	58513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16536069	16536069	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagggtgggatgagggacGggggcagggcggagggcacg	7	3	26	5	3	0	1	0	1	0	0	0	5	0	5	0	9	0	2	0	9	0	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	16536069	G	A	16536069	3	1	303	1	0	0	0	0	1	0	0	0	5193	1116	39	1	2037	1	EPS15L1	19	16536069	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08		16536069	42592914	36	15338											
ATP4A	495	broad.mit.edu	37	chr19	36046428	36046428	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggggtgggtgcgcagggcctCgaccagttccgatgggtcca	5	7	18	11	3	0	0	0	0	0	0	3	2	2	0	4	5	1	2	4	5	0	1	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		G	36046428	G	G	36046428	3	3	303	1	0	0	0	0	1	0	0	0	1145	893	31	4	1072	4	ATP4A	19	36046428	Missense_Mutation	SNP	C	TCGA-BP-4986-01A-01D-1462-08	19510359	36046428	23082555	37	15339											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38985048	38985048	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggcccaagaggacttcGtgcagagccccgagctggtg	7	6	16	12	2	0	2	0	0	0	2	1	4	0	3	3	3	3	3	3	3	1	1	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	38985048	G	A	38985048	3	1	303	1	0	0	0	0	1	0	0	0	13770	1145	40	1	6485	1	RYR1	19	38985048	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08	2938620	38985048	20143935	38	15340											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu	37	chr19	39008218	39008218	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccgccggcgccccccCaccctgcacagctgtcacct	4	5	8	24	3	1	0	1	0	0	0	1	0	1	0	8	1	3	2	8	1	0	0	rs139289204		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	39008218	C	A	39008218	3	1	303	1	0	0	0	0	1	0	0	0	13770	594	21	4	10167	4	RYR1	19	39008218	Missense_Mutation	SNP	C	TCGA-BP-4986-01A-01D-1462-08	23170	39008218	20120765	39	15341											
ZNF234	10780	broad.mit.edu;ucsc.edu	37	chr19	44660625	44660625	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattttaccaatgtgatgaGtacaaaaaatccttcactga	17	12	5	7	0	1	3	1	3	0	0	2	3	2	3	2	0	2	1	2	0	7	4	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	44660625	C	C	44660625	3	2	303	1	0	0	0	0	1	0	0	0	17786	1020	36	4	470	4	ZNF234	19	44660625	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08	5652407	44660625	14468358	40	15342											
ZNF473	25888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50549932	50549932	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttcggcctgagtgctgaGcttgtccgccaccagagaat	7	9	12	13	2	0	3	0	2	0	1	2	4	1	3	5	1	2	2	5	1	1	2	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		C	50549932	G	C	50549932	3	2	303	1	0	0	0	0	1	0	0	0	17930	962	34	4	2246	4	ZNF473	19	50549932	Missense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08	5889307	50549932	8579051	41	15343											
POLD1	5424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50905747	50905747	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacatcgtcggctgcaactgGctggagctcccagctgggaa	8	7	14	12	2	0	0	0	0	0	0	3	3	1	2	1	4	4	5	1	4	2	0	novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		A	50905747	G	A	50905747	4	1	303	1	0	0	0	0	0	1	0	0	12190	1212	42	2	817	2	POLD1	19	50905747	Nonsense_Mutation	SNP	G	TCGA-BP-4986-01A-01D-1462-08	355815	50905747	8223236	42	15344											
NF2	4771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30032866	30032867	+	Frame_Shift_Del	DEL	GT	GT	-																															ggctcaaaatggacaagaagGttgggctagaactcgatgaa																								novel		TCGA-BP-4986-01A-01D-1462-08	TCGA-BP-4986-11A-01D-1462-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4465171a-d048-4078-b1ae-021b2c635ff4	2ed78cfb-2ff0-4682-9c25-21174a4e4853		-	30032867	GT	-	30032866	7	5	303	1	0	1	0	1	0	0	0	0	10357	1275	44	0	247	0	NF2	22	30032866	Frame_Shift_Del	DEL	GT	TCGA-BP-4986-01A-01D-1462-08		30032866	21271700	43	15345											
JAK1	3716	hgsc.bcm.edu;ucsc.edu	37	chr1	65310524	65310524	+	Frame_Shift_Del	DEL	G	G	-																															gtcgatgccctcacgggccaGgaggaggtttttagtacaca																								novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		-	65310524	G	-	65310524	7	5	304	1	0	1	0	1	0	0	0	0	7937	991	35	0	1340	0	JAK1	1	65310524	Frame_Shift_Del	DEL	G	TCGA-BP-4987-01A-01D-1462-08		65310524	183940097	1	15346											
GBP6	163351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89847441	89847441	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acacgctccaggagctgctgGacatgcatgcggcctgtgag	8	7	14	12	2	0	1	0	1	0	0	1	3	1	3	2	3	4	4	2	3	0	0	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	89847441	G	A	89847441	3	1	304	1	0	0	0	0	1	0	0	0	6278	1174	41	2	1082	2	GBP6	1	89847441	Missense_Mutation	SNP	G	TCGA-BP-4987-01A-01D-1462-08	24536917	89847441	159403180	2	15347											
CLK2	1196	hgsc.bcm.edu;ucsc.edu	37	chr1	155240724	155240729	+	In_Frame_Del	DEL	CCGGCT	CCGGCT	-																															tagtgttcacggtaactcccCcggctgcctcgctctgagga																								novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	CCGGCT	CCGGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		-	155240729	CCGGCT	-	155240724	7	5	304	1	0	1	0	1	0	0	0	0	3537	610	22	0	1499	0	CLK2	1	155240724	In_Frame_Del	DEL	CCGGCT	TCGA-BP-4987-01A-01D-1462-08	65393283	155240724	94009897	3	15348											
SPAST	6683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32323916	32323916	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcacaaacggacgtctataAtgacagtactaacttggcat	14	10	8	9	2	2	1	1	1	1	0	2	2	2	2	0	2	3	2	0	2	5	5	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		G	32323916	A	G	32323916	3	3	304	1	0	0	0	0	1	0	0	0	14998	101	4	3	652	3	SPAST	2	32323916	Missense_Mutation	SNP	A	TCGA-BP-4987-01A-01D-1462-08		32323916	210875457	4	15349											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52712580	52712580	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcatccttatagtctcGgatggtattatagagttcat	9	17	8	7	1	3	1	2	0	1	1	5	2	4	2	1	2	0	3	1	2	5	7	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	52712580	G	A	52712580	4	1	304	1	0	0	0	0	0	1	0	0	11491	1124	39	1	4844	1	PBRM1	3	52712580	Nonsense_Mutation	SNP	G	TCGA-BP-4987-01A-01D-1462-08		52712580	145309850	5	15350											
GOLGB1	2804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121415221	121415221	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaggccagcaatttgtagTtggctgctttccaatttctg	7	16	9	9	0	2	0	0	0	2	0	3	0	3	0	2	2	2	5	2	2	4	6	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		C	121415221	T	C	121415221	2	2	304	1	0	0	0	0	0	0	0	1	6565	1722	60	3		3	GOLGB1	3	121415221	Silent	SNP	T	TCGA-BP-4987-01A-01D-1462-08	68702641	121415221	76607209	6	15351											
PPARGC1A	10891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	23833232	23833232	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtgccgtcaggcatggagGaaggactagcctcattgtca	9	8	15	9	1	3	0	3	0	0	0	3	3	3	3	2	5	2	1	2	5	2	2	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		T	23833232	G	T	23833232	3	4	304	1	0	0	0	0	1	0	0	0	12300	1174	41	4	2063	4	PPARGC1A	4	23833232	Missense_Mutation	SNP	G	TCGA-BP-4987-01A-01D-1462-08		23833232	167321044	7	15352											
GRID2	2895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	94376877	94376877	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaatgtggtggactttaCgacacgttacatggactact	12	12	10	7	2	0	1	0	1	0	0	0	4	0	3	0	3	3	1	0	3	5	4	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		T	94376877	C	T	94376877	3	4	304	1	0	0	0	0	1	0	0	0	6772	536	19	1	1652	1	GRID2	4	94376877	Missense_Mutation	SNP	C	TCGA-BP-4987-01A-01D-1462-08	70543645	94376877	96777399	8	15353											
PPP2R2B	5521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	146077636	146077636	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctaaactcttcaggtaatcGaactcgggttcatggctctg	9	13	9	10	2	5	0	2	0	3	0	7	1	5	0	0	3	2	3	0	3	4	4	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	146077636	G	A	146077636	2	1	304	1	0	0	0	0	0	0	0	1	12387	1049	37	1		1	PPP2R2B	5	146077636	Silent	SNP	G	TCGA-BP-4987-01A-01D-1462-08		146077636	34837624	9	15354											
PKD1L1	168507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	47897277	47897277	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaatgtagcatgggctctGtgtctccgccccagcaggac	7	9	12	13	1	2	0	0	0	2	0	3	1	2	1	3	2	2	5	3	2	2	2	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		C	47897277	G	C	47897277	3	2	304	1	0	0	0	0	1	0	0	0	11964	1386	48	4	4153	4	PKD1L1	7	47897277	Missense_Mutation	SNP	G	TCGA-BP-4987-01A-01D-1462-08		47897277	111241386	10	15355											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113243821	113243821	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatctttgccttgaataaatCcttgaaatacataagtagct	15	14	5	7	0	1	2	0	2	1	0	2	2	2	2	2	0	3	2	2	0	8	7	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	113243821	C	A	113243821	3	1	304	1	0	0	0	0	1	0	0	0	3946	855	30	4	354	4	CSMD3	8	113243821	Missense_Mutation	SNP	C	TCGA-BP-4987-01A-01D-1462-08		113243821	33120201	11	15356											
IFNA8	3445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	21409486	21409486	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctttggatgagacccTtctagatgaattctacatcg	9	14	9	9	1	2	3	0	2	2	2	3	5	2	4	1	1	3	2	1	1	3	5	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	21409486	T	A	21409486	3	1	304	1	0	0	0	0	1	0	0	0	7543	1609	56	5	313	5	IFNA8	9	21409486	Missense_Mutation	SNP	T	TCGA-BP-4987-01A-01D-1462-08		21409486	119803945	12	15357											
INPPL1	3636	hgsc.bcm.edu;ucsc.edu	37	chr11	71939276	71939278	+	In_Frame_Del	DEL	AGA	AGA	-																															tatcgcattctgcctgatggAgaagatttcttggctgtgca																								novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		-	71939278	AGA	-	71939276	7	5	304	1	0	1	0	1	0	0	0	0	7761	291	11	0	231	0	INPPL1	11	71939276	In_Frame_Del	DEL	AGA	TCGA-BP-4987-01A-01D-1462-08		71939276	63067240	13	15358											
RIC8B	55188	hgsc.bcm.edu;ucsc.edu	37	chr12	107254049	107254053	+	Frame_Shift_Del	DEL	ATAGT	ATAGT	-																															ctattctgtttttgcagtggAtagtctgctgaaatacactg																								novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	ATAGT	ATAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		-	107254053	ATAGT	-	107254049	7	5	304	1	0	1	0	1	0	0	0	0	13358	333	12	0	1340	0	RIC8B	12	107254049	Frame_Shift_Del	DEL	ATAGT	TCGA-BP-4987-01A-01D-1462-08		107254049	26597846	14	15359											
NOC4L	79050	broad.mit.edu	37	chr12	132633361	132633361	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctacaagaaggtgctgctGattgtgcatgacgccatcct	9	11	10	11	1	1	3	0	2	1	1	2	3	2	3	2	1	4	3	2	1	3	2	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		T	132633361	T	T	132633361	2	4	304	1	0	0	0	0	0	0	0	1	10515	1277	45	4		4	NOC4L	12	132633361	Silent	SNP	G	TCGA-BP-4987-01A-01D-1462-08	25379312	132633361	1218534	15	15360											
ATP7B	540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	52539025	52539025	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctcaataattttgataaTatcccgtggaccgataattt	13	15	5	8	2	1	1	1	1	0	0	2	3	2	2	3	1	1	0	3	1	6	8	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		C	52539025	T	C	52539025	3	2	304	1	0	0	0	0	1	0	0	0	1191	1406	49	3	2613	3	ATP7B	13	52539025	Missense_Mutation	SNP	T	TCGA-BP-4987-01A-01D-1462-08		52539025	62630853	16	15361											
RPGRIP1	57096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21771589	21771589	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgcccacatcatggccagCaataccatgcaagtggaaga	14	6	10	11	0	1	1	1	0	0	1	1	2	1	2	3	2	4	2	3	2	4	1	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		T	21771589	C	T	21771589	2	4	304	1	0	0	0	0	0	0	0	1	13551	709	25	2		2	RPGRIP1	14	21771589	Silent	SNP	C	TCGA-BP-4987-01A-01D-1462-08		21771589	85577951	17	15362											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64447732	64447732	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcagaatattaataaacaGtatatgatggtgaaatctga	17	13	8	3	0	2	4	1	3	1	1	2	4	2	4	0	1	1	1	0	1	8	5	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	64447732	G	A	64447732	2	1	304	1	0	0	0	0	0	0	0	1	15445	1020	36	2		2	SYNE2	14	64447732	Silent	SNP	G	TCGA-BP-4987-01A-01D-1462-08	42676143	64447732	42901808	18	15363											
ITGB3	3690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	45377874	45377874	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagtgtaagaagtttgaccgGggagccctacatgacgaaaa	14	7	13	7	2	0	3	0	2	0	1	0	6	0	4	2	2	2	2	2	2	5	3	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		C	45377874	G	C	45377874	2	2	304	1	0	0	0	0	0	0	0	1	7895	1219	43	4		4	ITGB3	17	45377874	Silent	SNP	G	TCGA-BP-4987-01A-01D-1462-08		45377874	35817336	19	15364											
STAP2	55620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4325497	4325497	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagcttgtcctggctaGacgcaggtgacagcggcttg	6	8	17	10	2	0	2	0	1	0	1	1	2	1	2	1	5	2	5	1	5	1	3	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		T	4325497	G	T	4325497	3	4	304	1	0	0	0	0	1	0	0	0	15254	942	33	4	490	4	STAP2	19	4325497	Missense_Mutation	SNP	G	TCGA-BP-4987-01A-01D-1462-08		4325497	54803486	20	15365											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38985140	38985140	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgtgccctgccgcgggcGtacaccatctcaccgtcctc	4	8	10	19	5	1	0	1	0	1	0	4	0	2	0	5	1	4	1	5	1	1	1	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	38985140	G	A	38985140	2	1	304	1	0	0	0	0	0	0	0	1	13770	1132	40	1		1	RYR1	19	38985140	Silent	SNP	G	TCGA-BP-4987-01A-01D-1462-08	34659643	38985140	20143843	21	15366											
DEFB123	245936	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30037860	30037860	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagatgctggaatctttaTggcaaatgccgttacagatg	13	11	10	7	1	1	2	0	0	1	2	1	3	1	3	1	2	3	3	1	2	5	3	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	30037860	T	A	30037860	4	1	304	1	0	0	0	0	0	1	0	0	4409	1471	51	5	93	5	DEFB123	20	30037860	Nonsense_Mutation	SNP	T	TCGA-BP-4987-01A-01D-1462-08		30037860	32987660	22	15367											
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu	37	chr22	21104191	21104191	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttttgatggtttcaagtAcctgcaggtgggacttggtg	6	14	14	7	0	1	1	1	1	0	0	1	2	1	2	2	4	2	3	2	4	2	5	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		G	21104191	A	G	21104191	5	3	304	1	0	0	0	0	0	0	1	0	11873	405	14	3	3175	3	PI4KA	22	21104191	Splice_Site	SNP	A	TCGA-BP-4987-01A-01D-1462-08		21104191	30200375	23	15368											
SHROOM4	57477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50376678	50376678	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggtctctgggtaaaagTcttgttgctatgagtggtta	7	18	12	4	0	2	1	0	1	2	0	3	1	2	1	0	3	1	4	0	3	4	7	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		A	50376678	T	A	50376678	3	1	304	1	0	0	0	0	1	0	0	0	14298	1667	58	5	2110	5	SHROOM4	23	50376678	Missense_Mutation	SNP	T	TCGA-BP-4987-01A-01D-1462-08		50376678	104893882	24	15369											
MED12	9968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70342188	70342188	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagggtaacagtgccttcActcagcaggtatgtctgacc	10	9	11	11	0	3	2	2	1	1	1	3	2	3	2	2	2	3	3	2	2	2	3	novel		TCGA-BP-4987-01A-01D-1462-08	TCGA-BP-4987-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7924f8ff-8e78-4910-9dc5-db14d5ee7011	10d7ba85-b3b5-4a53-a686-70be8848a041		G	70342188	A	G	70342188	3	3	304	1	0	0	0	0	1	0	0	0	9428	159	6	3	1270	3	MED12	23	70342188	Missense_Mutation	SNP	A	TCGA-BP-4987-01A-01D-1462-08	19965510	70342188	84928372	25	15370											
DNAJC11	55735	broad.mit.edu;ucsc.edu	37	chr1	6741001	6741001	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaacaaggttaaacagtcGttccgcctgtgacttgagct	10	11	11	9	2	0	3	0	3	0	0	2	3	1	3	2	1	3	3	2	1	4	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	6741001	A	A	6741001	4	1	305	1	0	0	0	0	0	1	0	0	4630	1153	40	1	1570	1	DNAJC11	1	6741001	Nonsense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		6741001	242509620	1	15371											
KIAA2013	90231	hgsc.bcm.edu	37	chr1	11985493	11985494	+	Frame_Shift_Del	DEL	TC	TC	-																															ttggaggcggttcaccagctTcttggcggccaccaccacca																								novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		-	11985494	TC	-	11985493	7	5	305	1	0	1	0	1	0	0	0	0	8267	1792	62	0	1114	0	KIAA2013	1	11985493	Frame_Shift_Del	DEL	TC	TCGA-BP-4988-01A-01D-1462-08	5244492	11985493	237265128	2	15372											
CYP4X1	260293	broad.mit.edu;ucsc.edu	37	chr1	47498916	47498916	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttttatttctcaaggaaAaggactagcggctctagacg	11	11	10	9	2	2	1	1	0	2	1	3	3	2	3	1	3	1	1	1	3	6	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	47498916	C	C	47498916	3	2	305	1	0	0	0	0	1	0	0	0	4193	14	1	5	382	5	CYP4X1	1	47498916	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08	35513423	47498916	201751705	3	15373											
RALGPS2	55103	broad.mit.edu	37	chr1	178753614	178753614	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgaagaaaagctttgatgCtgtggtattcgatgttctta	11	16	10	4	1	1	3	0	2	1	1	2	4	1	3	0	1	2	4	0	1	5	6	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	178753614	A	A	178753614	3	1	305	1	0	0	0	0	1	0	0	0	13020	797	28	4	125	4	RALGPS2	1	178753614	Missense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08	131254698	178753614	70497007	4	15374											
SCCPDH	51097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	246923346	246923346	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctttttgttctttgtgAggtttggaattggaaggcaa	7	20	11	3	0	2	1	0	1	2	0	2	3	2	3	0	4	0	3	0	4	3	8	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	246923346	A	T	246923346	3	4	305	1	0	0	0	0	1	0	0	0	13887	295	11	5	931	5	SCCPDH	1	246923346	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08	68169732	246923346	2327275	5	15375											
USP34	9736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61571006	61571006	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaagatgttgttggaggTgagatgtcagttccgcatgt	8	13	16	4	1	1	2	1	1	0	2	2	5	2	4	1	3	0	4	1	3	1	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	61571006	T	C	61571006	3	2	305	1	0	0	0	0	1	0	0	0	17064	1696	59	3	8456	3	USP34	2	61571006	Missense_Mutation	SNP	T	TCGA-BP-4988-01A-01D-1462-08		61571006	181628367	6	15376											
LCT	3938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	136566891	136566891	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgggaaagatgttgcttGccaccaagccattgatcagc	11	9	10	11	0	1	2	1	1	0	1	1	3	1	3	4	1	4	2	4	1	2	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	136566891	G	T	136566891	3	4	305	1	0	0	0	0	1	0	0	0	8693	1319	46	4	2797	4	LCT	2	136566891	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08	74995885	136566891	106632482	7	15377											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170060531	170060531	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccccattaaactgttCacaaggattgttacactgtt	11	12	7	11	0	1	0	1	0	0	0	1	1	1	1	2	1	3	4	2	1	4	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	170060531	C	A	170060531	4	1	305	1	0	0	0	0	0	1	0	0	8956	835	29	4	6153	4	LRP2	2	170060531	Nonsense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08	33493640	170060531	73138842	8	15378											
CNTN6	27255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	1363473	1363473	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatgagtgcattgcaagcAaccttcgaggaagaaacctt	13	11	9	8	1	0	2	0	1	0	1	1	4	0	3	2	1	5	3	2	1	5	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	1363473	A	G	1363473	3	3	305	1	0	0	0	0	1	0	0	0	3645	130	5	3	927	3	CNTN6	3	1363473	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08		1363473	196658957	9	15379											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191480	10191480	+	Missense_Mutation	SNP	T	T	C																															tgcccttccagtgtatactcTgaaagagcgatgcctccagg																								rs121913346	alternate_allele	TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	10191480	T	C	10191480	3	2	305	1	0	0	0	0	1	0	0	0	17161	1580	55	3	483	3	VHL	3	10191480	Missense_Mutation	SNP	T	TCGA-BP-4988-01A-01D-1462-08	8828007	10191480	187830950	10	15380	202	2									
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191481	10191481	+	Silent	SNP	G	G	C																															gcccttccagtgtatactctGaaagagcgatgcctccaggt																								novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	10191481	G	C	10191481	2	2	305	1	0	0	0	0	0	0	0	1	17161	1277	45	4		4	VHL	3	10191481	Silent	SNP	G	TCGA-BP-4988-01A-01D-1462-08	1	10191481	187830949	11	15381	202	2									
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643348	52643348	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgattcatccttcttgctcGttccaatacttcaaacatat	10	15	3	13	2	3	0	2	0	1	0	6	1	5	0	3	0	3	2	3	0	4	7	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	52643348	G	A	52643348	4	1	305	1	0	0	0	0	0	1	0	0	11491	1153	40	1	2412	1	PBRM1	3	52643348	Nonsense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08	42451867	52643348	145379082	12	15382											
CHRD	8646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184102984	184102984	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgggcctcctggaacGccagggcctcggcggctgct	3	8	14	16	3	0	0	0	0	0	0	3	1	2	1	5	5	2	2	5	5	1	1	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	184102984	G	T	184102984	2	4	305	1	0	0	0	0	0	0	0	1	3372	1074	38	4		4	CHRD	3	184102984	Silent	SNP	G	TCGA-BP-4988-01A-01D-1462-08	131459636	184102984	13919446	13	15383											
ATP13A4	84239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	193188727	193188727	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attagcactttgttccctgtCaaaattaataaatctccagg	13	14	5	9	0	2	0	1	0	1	0	4	0	3	0	2	1	1	2	2	1	6	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	193188727	C	A	193188727	3	1	305	1	0	0	0	0	1	0	0	0	1126	825	29	4	2814	4	ATP13A4	3	193188727	Missense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08	9085743	193188727	4833703	14	15384											
LETM1	3954	hgsc.bcm.edu	37	chr4	1823987	1823988	+	Frame_Shift_Ins	INS	-	-	C																															aggcatttctggctgtggctINScggtccccggcctttgggga																								novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	1823988	-	C	1823987	7	5	305	1	0	1	1	0	0	0	0	0	8734	1551	54	0	710	0	LETM1	4	1823987	Frame_Shift_Ins	INS	-	TCGA-BP-4988-01A-01D-1462-08		1823987	189330289	15	15385											
BOD1L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	13605133	13605133	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttagatacttcaaacaCattttcaacacctggctcag	12	13	6	10	0	3	1	3	0	0	1	3	1	3	1	1	2	3	2	1	2	4	6	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	13605133	C	T	13605133	3	4	305	1	0	0	0	0	1	0	0	0	1483	478	17	2	5832	2	BOD1L	4	13605133	Missense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08	11781146	13605133	177549143	16	15386											
GABRB1	2560	broad.mit.edu;ucsc.edu	37	chr4	47033947	47033947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcaccaatgaacccagcAacatgtcatacgtgaaagag	16	7	8	10	1	1	3	1	2	0	1	1	3	1	3	2	0	5	2	2	0	6	2	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	47033947	C	C	47033947	3	2	305	1	0	0	0	0	1	0	0	0	6166	130	5	5	103	5	GABRB1	4	47033947	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08	33428814	47033947	144120329	17	15387											
UGT2A1	10941	broad.mit.edu	37	chr4	70455274	70455274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcttggctcctttgtggCgcatgacaaactcgatccag	7	11	12	11	2	0	1	0	1	0	0	3	2	2	1	2	3	2	3	2	3	1	2	rs150861593	byfrequency	TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	70455274	T	T	70455274	3	4	305	1	0	0	0	0	1	0	0	0	16952	768	27	1	187	1	UGT2A1	4	70455274	Missense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08	23421327	70455274	120699002	18	15388											
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	134071487	134071487	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactcaaggaccccttacttAgacctcaacctggagacagg	13	7	8	13	0	2	2	2	0	0	2	2	4	2	3	4	3	3	0	4	3	5	2	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	134071487	A	C	134071487	3	2	305	1	0	0	0	0	1	0	0	0	11507	417	15	5	194	5	PCDH10	4	134071487	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08	63616213	134071487	57082789	19	15389											
ST8SIA4	7903	hgsc.bcm.edu;ucsc.edu	37	chr5	100147701	100147701	+	Frame_Shift_Del	DEL	T	T	-																															taataatgatatttgaccgcTtttccatttaaatccttagg																								novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		-	100147701	T	-	100147701	7	5	305	1	0	1	0	1	0	0	0	0	15235	1606	56	0	153	0	ST8SIA4	5	100147701	Frame_Shift_Del	DEL	T	TCGA-BP-4988-01A-01D-1462-08		100147701	80767559	20	15390											
CSNK1G3	1456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	122911473	122911473	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttgatatacagagatgtAaaacctgagaacttcttaat	17	12	6	6	0	1	3	0	2	1	2	1	5	1	3	1	0	4	1	1	0	7	6	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	122911473	A	G	122911473	2	3	305	1	0	0	0	0	0	0	0	1	3956	349	13	3		3	CSNK1G3	5	122911473	Silent	SNP	A	TCGA-BP-4988-01A-01D-1462-08	22763772	122911473	58003787	21	15391											
NSD1	64324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176637818	176637818	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggcagaacccccagttatAaatgaggagtgcagtttgaa	14	9	11	7	0	0	3	0	2	0	1	0	4	0	4	2	2	2	4	2	2	5	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	176637818	A	C	176637818	2	2	305	1	0	0	0	0	0	0	0	1	10669	352	13	5		5	NSD1	5	176637818	Silent	SNP	A	TCGA-BP-4988-01A-01D-1462-08	53726345	176637818	4277442	22	15392											
BAI3	577	broad.mit.edu	37	chr6	69349081	69349081	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggttgccatgtattaTgtacttggttggagagctgc	7	16	13	5	0	0	1	0	0	0	1	0	2	0	1	1	3	4	6	1	3	3	7	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	69349081	C	C	69349081	3	2	305	1	0	0	0	0	1	0	0	0	1300	1464	51	3	516	3	BAI3	6	69349081	Missense_Mutation	SNP	T	TCGA-BP-4988-01A-01D-1462-08		69349081	101765986	23	15393											
KIAA0146	23514	broad.mit.edu;ucsc.edu	37	chr8	48309113	48309113	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaatcaacagagaccattTtgcatacacctcagaaaccc	17	7	4	13	0	2	2	2	0	0	2	2	3	2	2	3	0	4	1	3	0	5	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	48309113	C	C	48309113	2	2	305	1	0	0	0	0	0	0	0	1	8157	1838	64	3		3	KIAA0146	8	48309113	Silent	SNP	T	TCGA-BP-4988-01A-01D-1462-08		48309113	98054909	24	15394											
DCAF4L2	138009	broad.mit.edu;ucsc.edu	37	chr8	88885732	88885732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgacgctgggagcagcacGgcacagcttggagtatctgc	9	6	15	11	3	1	0	0	0	1	0	1	3	1	2	0	3	5	6	0	3	1	2	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	88885732	A	A	88885732	2	1	305	1	0	0	0	0	0	0	0	1	4272	1103	39	1		1	DCAF4L2	8	88885732	Silent	SNP	G	TCGA-BP-4988-01A-01D-1462-08	40576619	88885732	57478290	25	15395											
TRAPPC9	83696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141415691	141415691	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaccttgctgtaataggaAatcgcctctttatacttgtc	10	15	6	10	1	2	0	1	0	1	0	4	1	2	1	2	1	2	2	2	1	5	7	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	141415691	A	G	141415691	2	3	305	1	0	0	0	0	0	0	0	1	16464	10	1	3		3	TRAPPC9	8	141415691	Silent	SNP	A	TCGA-BP-4988-01A-01D-1462-08	52529959	141415691	4948331	26	15396											
NUP214	8021	broad.mit.edu;hgsc.bcm.edu	37	chr9	134077067	134077067	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taatactggttctgtgtttgGtcaagcagccagtactggtg	8	14	12	7	0	2	0	1	0	1	0	2	0	2	0	1	3	4	4	1	3	4	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	134077067	G	C	134077067	3	2	305	1	0	0	0	0	1	0	0	0	10762	1261	44	4	5673	4	NUP214	9	134077067	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		134077067	7136364	27	15397											
TRIM6	117854	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5624933	5624933	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaccgtggtcaccacacgTtcctcgtggaggaggttgcc	7	8	13	13	3	1	0	1	0	0	0	3	2	2	2	4	4	2	3	4	4	0	2	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	5624933	T	G	5624933	3	3	305	1	0	0	0	0	1	0	0	0	16532	1725	60	5	481	5	TRIM6	11	5624933	Missense_Mutation	SNP	T	TCGA-BP-4988-01A-01D-1462-08		5624933	129381583	28	15398											
OR56A5	390084	broad.mit.edu	37	chr11	5988973	5988973	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgtggtgaagaagaggAtgaggatgaagtgggaacca	14	6	18	3	0	0	5	0	3	0	2	0	9	0	9	1	5	1	0	1	5	4	0	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	5988973	G	G	5988973	3	3	305	1	0	0	0	0	1	0	0	0	11136	333	12	3	191	3	OR56A5	11	5988973	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08	364040	5988973	129017543	29	15399											
GLS2	27165	broad.mit.edu	37	chr12	56865561	56865561	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttagcctattcctcacctgtCcttggcaaaaggattcactt	9	14	6	12	0	2	0	2	0	0	0	4	1	4	1	4	2	1	1	4	2	4	6	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	56865561	A	A	56865561	3	1	305	1	0	0	0	0	1	0	0	0	6464	855	30	4	168	4	GLS2	12	56865561	Missense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08		56865561	76986334	30	15400											
GCN1L1	10985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120586152	120586152	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaagctccactgacccTgtggatagcagacacaagcc	13	5	9	14	0	0	3	0	1	0	2	1	4	1	4	4	1	3	2	4	1	4	1	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	120586152	T	C	120586152	5	2	305	1	0	0	0	0	0	0	1	0	6299	1594	55	3	3558	3	GCN1L1	12	120586152	Splice_Site	SNP	T	TCGA-BP-4988-01A-01D-1462-08	63720591	120586152	13265743	31	15401											
RNF219	79596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	79212988	79212988	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatccacatcatctttcacTttttcatagatttcattagc	10	19	2	10	0	5	1	4	0	1	1	6	1	6	1	1	0	1	0	1	0	3	7	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	79212988	T	G	79212988	3	3	305	1	0	0	0	0	1	0	0	0	13484	1606	56	5	1673	5	RNF219	13	79212988	Missense_Mutation	SNP	T	TCGA-BP-4988-01A-01D-1462-08		79212988	35956890	32	15402											
ACIN1	22985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23533399	23533399	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctcatcctcagagatgcgaGagtcatcagcatgaagatcc	12	9	9	11	1	4	4	4	1	1	3	7	6	6	4	2	0	2	1	2	0	1	0	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		C	23533399	G	C	23533399	3	2	305	1	0	0	0	0	1	0	0	0	142	942	33	4	1373	4	ACIN1	14	23533399	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		23533399	83816141	33	15403											
THSD4	79875	broad.mit.edu;ucsc.edu	37	chr15	72039333	72039333	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgagaccaccagcacctgCcaactcaagatctgcagcga	12	5	8	16	1	2	2	1	1	1	2	2	4	2	2	5	0	5	2	5	0	2	0	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	72039333	T	T	72039333	2	4	305	1	0	0	0	0	0	0	0	1	15877	747	26	2		2	THSD4	15	72039333	Silent	SNP	C	TCGA-BP-4988-01A-01D-1462-08		72039333	30492059	34	15404											
ANKS4B	257629	broad.mit.edu;ucsc.edu	37	chr16	21261470	21261470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctgctcctggcacattcGggtcactatctaagggcatt	7	13	9	12	1	3	0	1	0	2	0	5	0	4	0	1	3	1	3	1	3	2	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	21261470	A	A	21261470	3	1	305	1	0	0	0	0	1	0	0	0	691	1116	39	1	589	1	ANKS4B	16	21261470	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		21261470	69093283	35	15405											
XYLT2	64132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48433278	48433278	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctgacacgcagctttGtggagtatgtggtgtacaca	8	12	13	8	2	0	1	0	1	0	0	1	2	0	2	0	2	3	5	0	2	2	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	48433278	G	A	48433278	3	1	305	1	0	0	0	0	1	0	0	0	17463	1377	48	2	1247	2	XYLT2	17	48433278	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		48433278	32761932	36	15406											
ITGB4	3691	broad.mit.edu;hgsc.bcm.edu	37	chr17	73729634	73729634	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcagccctgcctgcgggaGggcgaggacaagccgtgctc	7	6	15	13	3	1	0	1	0	0	0	2	3	1	2	3	3	5	1	3	3	1	1	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	73729634	G	A	73729634	2	1	305	1	0	0	0	0	0	0	0	1	7897	991	35	2		2	ITGB4	17	73729634	Silent	SNP	G	TCGA-BP-4988-01A-01D-1462-08	25296356	73729634	7465576	37	15407											
SEC14L1	6397	broad.mit.edu	37	chr17	75209464	75209464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccacagcatgcctgcgtgCgccgccagcagccttccccg	5	7	10	19	4	0	0	0	0	0	0	2	0	2	0	7	0	6	2	7	0	0	2	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	75209464	T	T	75209464	2	4	305	1	0	0	0	0	0	0	0	1	13983	776	27	1		1	SEC14L1	17	75209464	Silent	SNP	C	TCGA-BP-4988-01A-01D-1462-08	1479830	75209464	5985746	38	15408											
CTDP1	9150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	77477938	77477938	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacgactccaacacggggaAgctcatcaggacgggcgccc	10	4	12	15	4	2	0	2	0	0	0	3	3	3	2	2	4	3	1	2	4	3	1	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	77477938	A	T	77477938	3	4	305	1	0	0	0	0	1	0	0	0	4002	72	3	5	2377	5	CTDP1	18	77477938	Missense_Mutation	SNP	A	TCGA-BP-4988-01A-01D-1462-08		77477938	599310	39	15409			1	24		2	2	19	N	C_A	2.558375e-05
CTDP1	9150	broad.mit.edu	37	chr18	77477956	77477956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagctcatcaggacgggcgCccgggggcccccagcaccct	7	3	14	17	3	2	0	2	0	0	0	2	2	2	1	4	4	2	2	4	4	1	0	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		T	77477956	T	T	77477956	3	4	305	1	0	0	0	0	1	0	0	0	4002	739	26	2	2395	2	CTDP1	18	77477956	Missense_Mutation	SNP	C	TCGA-BP-4988-01A-01D-1462-08	18	77477956	599292	40	15410			1	24		2	2	19	N	C_A	2.558375e-05
ZNF136	7695	broad.mit.edu	37	chr19	12298092	12298092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaccttacgaatacatgaaaGaacccatactggagagaaac	19	6	7	9	1	0	3	0	1	0	2	0	6	0	4	2	1	6	0	2	1	8	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	12298092	A	A	12298092	3	1	305	1	0	0	0	0	1	0	0	0	17725	942	33	2	913	2	ZNF136	19	12298092	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		12298092	46830891	41	15411											
ZNF44	51710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12383395	12383395	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagtgtttacattcataggGtctttctccagtgtgagtcc	8	15	9	9	0	3	1	1	1	2	0	5	1	4	1	2	1	1	1	2	1	2	5	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	12383395	G	A	12383395	3	1	305	1	0	0	0	0	1	0	0	0	17911	1261	44	2	176	2	ZNF44	19	12383395	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08	85303	12383395	46745588	42	15412											
RYR1	6261	hgsc.bcm.edu	37	chr19	38990455	38990455	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccgcagggaccggcggcGcgagcagtgagtctcccggc	6	4	16	15	6	1	1	0	1	1	0	3	3	2	2	3	4	1	2	3	4	0	0	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	38990455	G	A	38990455	3	1	305	1	0	0	0	0	1	0	0	0	13770	1087	38	1	7382	1	RYR1	19	38990455	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08	26607060	38990455	20138528	43	15413											
CBR1	873	broad.mit.edu	37	chr21	37444758	37444758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttagggagagtggtgaacGtatctagcatcatgagcgtc	10	11	13	7	2	3	3	1	2	2	1	4	4	3	3	0	2	3	2	0	2	4	3	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		A	37444758	A	A	37444758	3	1	305	1	0	0	0	0	1	0	0	0	2708	1145	40	1	422	1	CBR1	21	37444758	Missense_Mutation	SNP	G	TCGA-BP-4988-01A-01D-1462-08		37444758	10685137	44	15414											
ZMYM3	9203	broad.mit.edu	37	chrX	70472956	70472956	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggctcccgaggatggagaAgggccagggggggcccatcc	8	3	19	11	1	0	1	0	0	0	1	2	4	2	2	4	7	0	1	4	7	1	0	novel		TCGA-BP-4988-01A-01D-1462-08	TCGA-BP-4988-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	792c9867-ceea-4520-bbb7-5dabe290664f	c9ae8ce7-d59d-4ddc-a305-066ac8b6a0c2		G	70472956	G	G	70472956	2	3	305	1	0	0	0	0	0	0	0	1	17700	59	3	3		3	ZMYM3	23	70472956	Silent	SNP	A	TCGA-BP-4988-01A-01D-1462-08		70472956	84797604	45	15415											
ATP1B1	481	broad.mit.edu	37	chr1	169076145	169076145	+	RNA	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaaggagtttctgggCaggaccggtggcagttggtg	9	8	19	5	1	1	2	0	0	1	2	1	5	1	4	1	6	0	4	1	6	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	169076145	T	T	169076145	1	4	306	0	1	0	0	0	0	0	0	0	1132	697	25	2		2	ATP1B1	1	169076145	RNA	SNP	C	TCGA-BP-4989-01A-01D-1462-08		169076145	80174476	1	15416											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	168101917	168101917	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaagtgaccacagttaaaAaagaagaggtaattcatgga	19	8	10	4	0	1	4	1	2	0	2	1	5	1	5	1	2	0	2	1	2	6	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	168101917	A	T	168101917	4	4	306	1	0	0	0	0	0	1	0	0	17429	15	1	5	4045	5	XIRP2	2	168101917	Nonsense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08		168101917	75097456	2	15417											
MYO3B	140469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	171243748	171243748	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaatgatgtttacaccaActggagttgtgatgggggca	11	11	14	5	0	0	2	0	2	0	0	0	4	0	4	1	4	2	3	1	4	3	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	171243748	A	G	171243748	3	3	306	1	0	0	0	0	1	0	0	0	10077	43	2	3	1561	3	MYO3B	2	171243748	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	3141831	171243748	71955625	3	15418											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179484439	179484439	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatatcacaaatctgtagTcgatgtatctttccttcact	11	17	4	9	1	4	0	2	0	2	0	6	1	5	0	1	0	0	2	1	0	5	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	179484439	T	C	179484439	2	2	306	1	0	0	0	0	0	0	0	1	16734	1654	58	3		3	TTN	2	179484439	Silent	SNP	T	TCGA-BP-4989-01A-01D-1462-08	8240691	179484439	63714934	4	15419											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179504809	179504809	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtttcggttcaggtgcaggGagaggtattgctggcttgat	6	13	17	5	1	1	2	1	1	0	1	2	3	1	2	0	6	2	6	0	6	1	5	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	179504809	G	A	179504809	2	1	306	1	0	0	0	0	0	0	0	1	16734	1161	41	2		2	TTN	2	179504809	Silent	SNP	G	TCGA-BP-4989-01A-01D-1462-08	20370	179504809	63694564	5	15420											
FN1	2335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216262451	216262451	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctctttcctgtccatctcTcaggacttggatggtgtaga	7	15	9	10	0	3	1	1	0	2	1	7	3	5	3	2	3	0	1	2	3	1	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	216262451	T	C	216262451	3	2	306	1	0	0	0	0	1	0	0	0	5962	1559	54	3	4064	3	FN1	2	216262451	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	36757642	216262451	26936922	6	15421											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188202	10188202	+	Frame_Shift_Del	DEL	C	C	-																															ttgcttgtcccgataggtcaCctttggctcttcagagatgc																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		-	10188202	C	-	10188202	7	5	306	1	0	1	0	1	0	0	0	0	17161	506	18	0	351	0	VHL	3	10188202	Frame_Shift_Del	DEL	C	TCGA-BP-4989-01A-01D-1462-08		10188202	187834228	7	15422											
LRRC3B	116135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	26751684	26751684	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacaacgtgatctgtaaaaCgtccgtgttggatgaacatg	12	10	10	9	3	1	2	0	2	1	0	2	3	2	3	2	1	3	2	2	1	4	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	26751684	C	A	26751684	3	1	306	1	0	0	0	0	1	0	0	0	8996	536	19	4	523	4	LRRC3B	3	26751684	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	16563482	26751684	171270746	8	15423											
PLXNB1	5364	broad.mit.edu;hgsc.bcm.edu	37	chr3	48461035	48461035	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtcgaggctggacgggAggatgaggggggcgggaggg	7	4	26	4	3	0	1	0	1	0	0	1	6	0	5	0	10	0	2	0	10	1	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	48461035	A	G	48461035	3	3	306	1	0	0	0	0	1	0	0	0	12123	304	11	3	3859	3	PLXNB1	3	48461035	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	21709351	48461035	149561395	9	15424											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52610639	52610640	+	Frame_Shift_Del	DEL	CT	CT	-																															aacatttttgtgggctcatgCtctgtttcttctgggtgaat																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		-	52610640	CT	-	52610639	7	5	306	1	0	1	0	1	0	0	0	0	11491	796	28	0	1327	0	PBRM1	3	52610639	Frame_Shift_Del	DEL	CT	TCGA-BP-4989-01A-01D-1462-08	4149604	52610639	145411791	10	15425											
ROBO1	6091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	78706388	78706388	+	Missense_Mutation	SNP	T	T	C																															catccactgttttgttgatgTggtatcgagtttcattgccc																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	78706388	T	C	78706388	3	2	306	1	0	0	0	0	1	0	0	0	13515	1696	59	3	2537	3	ROBO1	3	78706388	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	26095749	78706388	119316042	11	15426	203	2									
ROBO1	6091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	78706390	78706390	+	Nonsense_Mutation	SNP	G	G	T																															tccactgttttgttgatgtgGtatcgagtttcattgcccag																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	78706390	G	T	78706390	4	4	306	1	0	0	0	0	0	1	0	0	13515	1256	44	4	2539	4	ROBO1	3	78706390	Nonsense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	2	78706390	119316040	12	15427	203	2									
WDR5B	54554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122134164	122134164	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttctcatattttccatcaTatgctccccaaattatgatt	10	19	2	10	0	2	1	2	1	1	0	5	1	4	1	3	0	1	1	3	0	4	8	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	122134164	T	C	122134164	3	2	306	1	0	0	0	0	1	0	0	0	17308	1406	49	3	784	3	WDR5B	3	122134164	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	43427774	122134164	75888266	13	15428											
DHX36	170506	hgsc.bcm.edu;ucsc.edu	37	chr3	153994678	153994678	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaacctctgtgcagtcaTacaagtatatctgtaatgaa	14	11	9	7	0	3	1	1	1	2	0	3	2	3	2	1	1	3	3	1	1	7	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	153994678	T	C	153994678	3	2	306	1	0	0	0	0	1	0	0	0	4509	1406	49	3	335	3	DHX36	3	153994678	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	31860514	153994678	44027752	14	15429											
DGKG	1608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	185882703	185882703	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctgatggtgacagaggCgcactgggccagcctcctgc	8	7	13	13	1	0	3	0	2	0	1	1	3	1	3	4	3	3	1	4	3	1	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	185882703	C	T	185882703	3	4	306	1	0	0	0	0	1	0	0	0	4469	768	27	1	187	1	DGKG	3	185882703	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	31888025	185882703	12139727	15	15430											
FAM193A	8603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2674032	2674032	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgtgcctttgcacactgTtccacacctgccacgccctc	7	10	6	18	1	0	0	0	0	0	0	2	0	1	0	5	0	3	2	5	0	0	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	2674032	T	C	2674032	3	2	306	1	0	0	0	0	1	0	0	0	5524	1725	60	3	1425	3	FAM193A	4	2674032	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08		2674032	188480244	16	15431											
GPR78	27201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8584304	8584304	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcggcgccgccaccgcGccaccaggaagattggcatt	10	4	13	14	5	0	2	0	0	0	2	0	3	0	3	5	3	1	1	5	3	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	8584304	G	A	8584304	3	1	306	1	0	0	0	0	1	0	0	0	6710	1087	38	1	721	1	GPR78	4	8584304	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	5910272	8584304	182569972	17	15432											
SEC24B	10427	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	110402835	110402835	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctttccactttacaggcGtgcagtatggtgaatatgtt	8	15	11	7	1	0	1	0	1	0	0	1	1	1	1	1	2	3	4	1	2	4	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	110402835	G	A	110402835	3	1	306	1	0	0	0	0	1	0	0	0	13997	1145	40	1	1077	1	SEC24B	4	110402835	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	101818531	110402835	80751441	18	15433											
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	134072133	134072133	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgccaccgacccggacgagGgccagaacggtgaggtcgtg	9	3	16	13	6	0	2	0	1	0	1	1	5	0	3	4	4	1	0	4	4	1	0	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	134072133	G	A	134072133	3	1	306	1	0	0	0	0	1	0	0	0	11507	1232	43	2	840	2	PCDH10	4	134072133	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	23669298	134072133	57082143	19	15434											
ODZ3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	183714119	183714119	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatgagatattcaggtcgctCatgtactggattacaattca	12	14	8	7	1	3	1	3	1	0	1	4	3	3	2	0	2	2	2	0	2	5	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	183714119	C	G	183714119	2	3	306	1	0	0	0	0	0	0	0	1	10836	813	29	4		4	ODZ3	4	183714119	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08	49641986	183714119	7440157	20	15435											
EDIL3	10085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	83356228	83356228	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaacatgtccatgttgagcGttctgaagatgctggaggca	10	11	13	7	1	1	4	0	3	1	1	2	5	2	5	1	2	3	4	1	2	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	83356228	G	A	83356228	3	1	306	1	0	0	0	0	1	0	0	0	4915	1145	40	1	426	1	EDIL3	5	83356228	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08		83356228	97559032	21	15436											
PCDHA3	56145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140182765	140182765	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaccctcattgaccgcCacggccactgtgctggtgtc	6	9	12	14	2	1	2	1	2	0	0	2	2	1	2	4	3	2	1	4	3	1	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	140182765	C	A	140182765	2	1	306	1	0	0	0	0	0	0	0	1	11525	581	21	4		4	PCDHA3	5	140182765	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08	56826537	140182765	40732495	22	15437											
PCDHA7	56141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140216218	140216218	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtggggagctggtcattCtcccagcagaggcggcagag	7	6	18	10	2	2	2	1	0	1	2	3	3	2	3	1	6	2	3	1	6	0	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	140216218	C	A	140216218	3	1	306	1	0	0	0	0	1	0	0	0	11529	912	32	4	2252	4	PCDHA7	5	140216218	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	33453	140216218	40699042	23	15438											
MFAP3	4238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153432673	153432673	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgcctttacaatcacactCatcttgaatgtcacacggct	11	13	5	12	1	4	1	3	1	1	0	4	1	4	1	1	1	2	1	1	1	3	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	153432673	C	T	153432673	2	4	306	1	0	0	0	0	0	0	0	1	9515	813	29	2		2	MFAP3	5	153432673	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08	13216455	153432673	27482587	24	15439											
SLIT3	6586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	168114104	168114104	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacagagcttcccgctgtagCcagggacacactcgcagctg	9	6	11	15	2	0	1	0	0	0	1	2	2	1	2	2	1	3	5	2	1	1	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	168114104	C	T	168114104	3	4	306	1	0	0	0	0	1	0	0	0	14743	739	26	2	1405	2	SLIT3	5	168114104	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	14681431	168114104	12801156	25	15440											
FLT4	2324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180056415	180056415	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtcgctcgggcacccactTaccccgctctgcctgcccgc	3	7	10	21	5	1	0	0	0	1	0	3	0	1	0	5	1	3	3	5	1	1	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	180056415	T	G	180056415	3	3	306	1	0	0	0	0	1	0	0	0	5944	1763	61	5	3366	5	FLT4	5	180056415	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	11942311	180056415	858845	26	15441											
KIF13A	63971	broad.mit.edu;ucsc.edu	37	chr6	17898399	17898399	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcatattagtgcttacCttgggaggtttccttaatga	10	17	8	6	0	1	1	1	1	0	0	2	2	2	2	2	2	2	2	2	2	5	7	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	17898399	T	T	17898399	2	4	306	1	0	0	0	0	0	0	0	1	8274	695	24	2		2	KIF13A	6	17898399	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08		17898399	153216668	27	15442											
FAM135A	57579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	71186969	71186969	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgttatgtttgattactTccacctttctgttgtgtctg	6	21	7	7	0	2	1	0	1	2	0	3	1	3	1	2	0	1	3	2	0	3	7	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	71186969	T	G	71186969	3	3	306	1	0	0	0	0	1	0	0	0	5448	1783	62	5	494	5	FAM135A	6	71186969	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	53288570	71186969	99928098	28	15443											
GABRR1	2569	hgsc.bcm.edu	37	chr6	89888680	89888680	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgtcgggcttctctcCattctctggcatgtagttgt	4	16	9	12	1	2	0	0	0	2	0	7	0	4	0	2	2	0	4	2	2	1	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	89888680	C	G	89888680	3	3	306	1	0	0	0	0	1	0	0	0	6176	603	21	4	194	4	GABRR1	6	89888680	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	18701711	89888680	81226387	29	15444											
FBXL4	26235	broad.mit.edu;hgsc.bcm.edu	37	chr6	99365256	99365256	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttttggcttacctcataAggtagtttatcaaaataccc	12	16	5	8	0	2	0	2	0	0	0	2	0	2	0	2	2	2	3	2	2	8	9	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	99365256	A	C	99365256	2	2	306	1	0	0	0	0	0	0	0	1	5721	59	3	5		5	FBXL4	6	99365256	Silent	SNP	A	TCGA-BP-4989-01A-01D-1462-08	9476576	99365256	71749811	30	15445											
MED23	9439	broad.mit.edu	37	chr6	131931276	131931276	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttgagagatgctgccacagGagttggcttgttcccccatc	7	11	11	12	0	0	2	0	1	0	1	2	4	1	3	3	2	2	4	3	2	0	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	131931276	T	T	131931276	2	4	306	1	0	0	0	0	0	0	0	1	9441	1161	41	4		4	MED23	6	131931276	Silent	SNP	G	TCGA-BP-4989-01A-01D-1462-08	32566020	131931276	39183791	31	15446											
LATS1	9113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150004564	150004564	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgggtagggtggtggtggtCcttgatagtttggagcttca	5	15	17	4	0	1	1	1	1	0	0	2	2	2	2	1	6	1	3	1	6	2	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	150004564	C	T	150004564	3	4	306	1	0	0	0	0	1	0	0	0	8646	855	30	2	1751	2	LATS1	6	150004564	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	18073288	150004564	21110503	32	15447											
MLL5	55904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	104719411	104719411	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttgtacacccaatgcagagGtaagcttatagaaatttttt	13	14	7	7	0	0	2	0	0	0	2	0	2	0	2	1	1	3	4	1	1	6	8	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	104719411	G	A	104719411	5	1	306	1	0	0	0	0	0	0	1	0	9624	1275	44	2	1287	2	MLL5	7	104719411	Splice_Site	SNP	G	TCGA-BP-4989-01A-01D-1462-08		104719411	54419252	33	15448											
OR2A1	346528	broad.mit.edu	37	chr7	143929685	143929685	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgggcttggctggatgcagGaggttcgccagcatctgggg	6	9	18	8	1	1	0	0	0	1	0	2	2	1	2	1	7	2	5	1	7	0	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	143929685	T	T	143929685	2	4	306	1	0	0	0	0	0	0	0	1	10974	1161	41	4		4	OR2A1	7	143929685	Silent	SNP	G	TCGA-BP-4989-01A-01D-1462-08	39210274	143929685	15208978	34	15449											
PRKACG	5568	broad.mit.edu;hgsc.bcm.edu	37	chr9	71628614	71628614	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttccgacgcgctgtaggCgggagaacatctccccaccc	8	6	10	17	4	1	1	0	0	1	1	3	3	2	1	5	2	1	2	5	2	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	71628614	C	T	71628614	3	4	306	1	0	0	0	0	1	0	0	0	12501	768	27	1	664	1	PRKACG	9	71628614	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08		71628614	69584817	35	15450											
NR4A3	8013	broad.mit.edu	37	chr9	102591255	102591255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acggcgtgcgaacctgcgagGgctgcaagggctttttcaag	8	8	15	10	4	1	0	1	0	0	0	1	2	1	0	1	3	4	3	1	3	3	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	102591255	A	A	102591255	3	1	306	1	0	0	0	0	1	0	0	0	10634	1232	43	2	970	2	NR4A3	9	102591255	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	30962641	102591255	38622176	36	15451											
RGS3	5998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116299108	116299108	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattcactttggaagcgcaCtcgcaggagcagaagaagag	13	8	12	8	2	1	3	1	0	0	3	2	5	1	5	0	2	2	3	0	2	4	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	116299108	C	G	116299108	3	3	306	1	0	0	0	0	1	0	0	0	13308	564	20	4	2162	4	RGS3	9	116299108	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	13707853	116299108	24914323	37	15452											
ABO	28	hgsc.bcm.edu	37	chr9	136131622	136131622	+	Frame_Shift_Del	DEL	T	T	-																															cactgacagctgccgaccggTccccagcgtcacgcggggca																								rs56284703		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		-	136131622	T	-	136131622	7	5	306	1	0	1	0	1	0	0	0	0	97	1667	58	0	572	0	ABO	9	136131622	Frame_Shift_Del	DEL	T	TCGA-BP-4989-01A-01D-1462-08	19832514	136131622	5081809	38	15453											
KIAA1217	56243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	24834980	24834980	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcactctgcctccctCatcccttctgtctctaatgg	4	14	5	18	0	5	0	2	0	3	0	8	0	7	0	4	1	2	1	4	1	1	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	24834980	C	A	24834980	2	1	306	1	0	0	0	0	0	0	0	1	8216	813	29	4		4	KIAA1217	10	24834980	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08		24834980	110699767	39	15454											
ZNF438	220929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	31138528	31138528	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttggtgataaattggtcAtggtttttgcaagatcaact	10	16	11	4	0	2	2	2	1	0	1	2	2	2	2	0	4	2	3	0	4	4	5	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	31138528	A	G	31138528	3	3	306	1	0	0	0	0	1	0	0	0	17909	217	8	3	1688	3	ZNF438	10	31138528	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	6303548	31138528	104396219	40	15455											
PLAU	5328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75673067	75673067	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacccagacaaccggaggCgaccctggtgctatgtgcag	10	5	14	12	2	0	1	0	0	0	1	0	4	0	3	3	4	4	2	3	4	3	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	75673067	C	T	75673067	4	4	306	1	0	0	0	0	0	1	0	0	12022	760	27	1	444	1	PLAU	10	75673067	Nonsense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	44534539	75673067	59861680	41	15456											
ZFYVE27	118813	broad.mit.edu;hgsc.bcm.edu	37	chr10	99512825	99512825	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggcgccccgtgcccagcaGaggatgagctggccctgcag	7	4	16	14	2	0	2	0	1	0	1	0	3	0	3	4	3	4	3	4	3	0	0	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	99512825	G	A	99512825	3	1	306	1	0	0	0	0	1	0	0	0	17668	943	33	2	977	2	ZFYVE27	10	99512825	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	23839758	99512825	36021922	42	15457											
OR51D1	390038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4661302	4661302	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctatcaccatgcccaagatGgccagtcttttcctgatggg	8	12	9	12	0	3	2	1	1	2	1	4	2	4	2	4	2	1	0	4	2	2	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	4661302	G	T	4661302	3	4	306	1	0	0	0	0	1	0	0	0	11093	1348	47	4	284	4	OR51D1	11	4661302	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08		4661302	130345214	43	15458											
PAAF1	80227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73638349	73638349	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagccacatgggagaagcAgatctacacatgctgtcgag	12	7	13	9	1	1	2	0	0	1	2	2	4	1	2	1	2	4	3	1	2	3	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	73638349	A	T	73638349	3	4	306	1	0	0	0	0	1	0	0	0	11362	188	7	5	1167	5	PAAF1	11	73638349	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	68977047	73638349	61368167	44	15459											
ALG8	79053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77812070	77812070	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actgaaacatacagtttgaaCcaagcatatgtgatgcctac	15	10	7	9	0	0	3	0	3	0	0	0	3	0	3	2	0	6	2	2	0	6	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	77812070	C	A	77812070	3	1	306	1	0	0	0	0	1	0	0	0	523	508	18	4	63	4	ALG8	11	77812070	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	4173721	77812070	57194446	45	15460											
CHD4	1108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6688041	6688041	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccacaataggggtcagaTctattgctgacttttcctcc	9	13	7	12	0	2	2	1	1	1	1	4	2	4	2	3	2	2	1	3	2	4	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	6688041	T	G	6688041	3	3	306	1	0	0	0	0	1	0	0	0	3327	1435	50	5	814	5	CHD4	12	6688041	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08		6688041	127163854	46	15461											
PLEKHA5	54477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	19410396	19410396	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcaaaaaaagttcataaTtttggaaagaggtcaaattc	17	12	7	5	0	3	1	3	0	0	1	4	2	3	2	0	2	0	2	0	2	6	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	19410396	T	C	19410396	2	2	306	1	0	0	0	0	0	0	0	1	12059	1490	52	3		3	PLEKHA5	12	19410396	Silent	SNP	T	TCGA-BP-4989-01A-01D-1462-08	12722355	19410396	114441499	47	15462											
OR8S1	341568	broad.mit.edu	37	chr12	48921863	48921863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcatgctccgcgctgcgcGcggcgcccacggccctgccc	2	4	14	21	8	0	0	0	0	0	0	1	0	1	0	4	2	3	3	4	2	0	0	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	48921863	A	A	48921863	3	1	306	1	0	0	0	0	1	0	0	0	11246	1087	38	1	1063	1	OR8S1	12	48921863	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	29511467	48921863	84930032	48	15463											
KRT85	3891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52756641	52756641	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctccacagaccccacctgGcacttggcattctcaatctc	8	10	5	18	0	2	1	1	0	2	1	6	1	4	1	5	2	0	2	5	2	1	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	52756641	G	T	52756641	4	4	306	1	0	0	0	0	0	1	0	0	8499	1195	42	4	465	4	KRT85	12	52756641	Nonsense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	3834778	52756641	81095254	49	15464											
KRT1	3848	broad.mit.edu;ucsc.edu	37	chr12	53069018	53069018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtagaaacaaacttcaCgctggaactgccaccagagg	14	6	11	10	1	1	2	1	0	0	2	1	3	1	3	2	3	4	2	2	3	4	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	53069018	T	T	53069018	3	4	306	1	0	0	0	0	1	0	0	0	8447	536	19	1	44	1	KRT1	12	53069018	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	312377	53069018	80782877	50	15465											
ERBB3	2065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56487573	56487573	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggcaaagtgtgtgacccActgtgctcctctgggggatg	7	9	16	9	0	1	1	0	1	1	0	2	3	2	2	2	3	1	2	2	3	1	0	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	56487573	A	G	56487573	2	3	306	1	0	0	0	0	0	0	0	1	5208	146	6	3		3	ERBB3	12	56487573	Silent	SNP	A	TCGA-BP-4989-01A-01D-1462-08	3418555	56487573	77364322	51	15466											
TSPAN19	144448	broad.mit.edu;ucsc.edu	37	chr12	85421790	85421790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaaataggtactatgaagtGattattttcatctgtgaaaa	16	14	8	3	0	2	4	1	3	1	1	2	4	2	4	0	1	1	1	0	1	8	6	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	85421790	A	A	85421790	3	1	306	1	0	0	0	0	1	0	0	0	16642	1290	45	2	619	2	TSPAN19	12	85421790	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	28934217	85421790	48430105	52	15467											
SLC7A1	6541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	30091722	30091722	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcttacctatgaggctggTtgaaatgttcacaattagcc	10	13	9	9	0	2	2	1	2	1	0	2	2	2	2	2	2	2	4	2	2	5	5	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	30091722	T	C	30091722	3	2	306	1	0	0	0	0	1	0	0	0	14694	1725	60	3	407	3	SLC7A1	13	30091722	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08		30091722	85078156	53	15468											
PCDH9	5101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	67205519	67205519	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcctgggagccatcagggaGatgaaacgtaacacggcgct	11	7	13	10	3	1	2	1	1	0	1	2	4	2	3	2	3	3	2	2	3	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	67205519	G	A	67205519	3	1	306	1	0	0	0	0	1	0	0	0	11518	942	33	2	558	2	PCDH9	13	67205519	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	37113797	67205519	47964359	54	15469											
FAM158A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24608257	24608257	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attagtgggaccaacccactGggtgatttgagtgttgagcc	9	11	13	8	0	0	3	0	3	0	0	0	4	0	4	3	2	2	1	3	2	2	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	24608257	G	C	24608257	3	2	306	1	0	0	0	0	1	0	0	0	5467	1357	47	4	41	4	FAM158A	14	24608257	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08		24608257	82741283	55	15470											
KLC1	3831	hgsc.bcm.edu;ucsc.edu	37	chr14	104129226	104129226	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggacacgaccacccggaCgtggccaccatgctcaacat	11	5	9	16	3	2	0	2	0	0	0	2	3	2	2	4	3	2	1	4	3	1	0	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	104129226	C	T	104129226	2	4	306	1	0	0	0	0	0	0	0	1	8333	535	19	1		1	KLC1	14	104129226	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08	79520969	104129226	3220314	56	15471											
MAN2C1	4123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75650634	75650634	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcctgggaactccgcaCgcgagcagggaactccacct	8	5	14	14	3	0	0	0	0	0	0	2	3	2	2	4	4	3	2	4	4	2	0	rs150703780		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	75650634	C	G	75650634	3	3	306	1	0	0	0	0	1	0	0	0	9218	536	19	4	691	4	MAN2C1	15	75650634	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08		75650634	26880758	57	15472											
IL16	3603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81589274	81589274	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtttacaccacaggaagcGagagagctgctgccactgct	10	8	11	12	1	0	1	0	0	0	1	0	4	0	2	2	1	6	4	2	1	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	81589274	G	A	81589274	2	1	306	1	0	0	0	0	0	0	0	1	7633	1045	37	1		1	IL16	15	81589274	Silent	SNP	G	TCGA-BP-4989-01A-01D-1462-08	5938640	81589274	20942118	58	15473											
AXIN1	8312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	396290	396290	+	Missense_Mutation	SNP	C	C	T																															gtcctggtcacacttccattCctcatcttcatttaaggtcg																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	396290	C	T	396290	3	4	306	1	0	0	0	0	1	0	0	0	1236	864	30	2	1892	2	AXIN1	16	396290	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08		396290	89958463	59	15474	204	2									
AXIN1	8312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	396291	396291	+	Silent	SNP	C	C	T																															tcctggtcacacttccattcCtcatcttcatttaaggtcgg																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	396291	C	T	396291	2	4	306	1	0	0	0	0	0	0	0	1	1236	680	24	2		2	AXIN1	16	396291	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08	1	396291	89958462	60	15475	204	2									
SEC14L5	9717	broad.mit.edu	37	chr16	5050877	5050877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccgtcaacgaggaaGgacagaagcggtgtgagggg	10	7	16	8	3	2	2	1	1	1	1	4	5	3	4	1	5	2	0	1	5	3	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	5050877	A	A	5050877	3	1	306	1	0	0	0	0	1	0	0	0	13987	1001	35	2	1115	2	SEC14L5	16	5050877	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	4654586	5050877	85303876	61	15476											
ABCC6	368	broad.mit.edu;ucsc.edu	37	chr16	16244592	16244592	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctgggtcttccggagaaGggcacgtgccagacacagga	10	6	15	10	2	2	2	0	0	2	2	3	5	3	3	2	4	1	1	2	4	1	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	16244592	T	T	16244592	3	4	306	1	0	0	0	0	1	0	0	0	57	1000	35	4	273	4	ABCC6	16	16244592	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	11193715	16244592	74110161	62	15477											
GINS3	64785	hgsc.bcm.edu	37	chr16	58438630	58438630	+	Frame_Shift_Del	DEL	C	C	-																															aaattcactgatatggaagaCtgaaagccggaagaacacag																								novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		-	58438630	C	-	58438630	7	5	306	1	0	1	0	1	0	0	0	0	6389	564	20	0	779	0	GINS3	16	58438630	Frame_Shift_Del	DEL	C	TCGA-BP-4989-01A-01D-1462-08	42194038	58438630	31916123	63	15478											
HOXB1	3211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46608210	46608210	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgggcgctgtaggcgctGggtccccggttacagagtgg	4	9	18	10	3	0	1	0	0	0	1	1	1	1	1	2	5	1	4	2	5	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	46608210	G	T	46608210	2	4	306	1	0	0	0	0	0	0	0	1	7299	1335	47	4		4	HOXB1	17	46608210	Silent	SNP	G	TCGA-BP-4989-01A-01D-1462-08		46608210	34587000	64	15479											
KIF2B	84643	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	51900736	51900736	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccagcgtaccgccacgaaAtgggttgcgatgatccccca	10	6	11	14	4	0	1	0	1	0	0	1	4	1	1	5	1	3	2	5	1	2	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	51900736	A	C	51900736	3	2	306	1	0	0	0	0	1	0	0	0	8298	98	4	5	344	5	KIF2B	17	51900736	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	5292526	51900736	29294474	65	15480											
TTYH2	94015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72249930	72249930	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggtaggaacccacgctaCgagaacgtgccactaatcgg	11	8	11	11	4	0	1	0	0	0	1	1	3	0	2	2	3	4	2	2	3	5	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	72249930	C	T	72249930	2	4	306	1	0	0	0	0	0	0	0	1	16739	547	19	1		1	TTYH2	17	72249930	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08	20349194	72249930	8945280	66	15481											
ILF3	3609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10799269	10799269	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcgggaacagctacggCtcaggcggggcatcctacaa	10	4	15	12	4	1	0	1	0	0	0	2	1	2	1	1	6	5	3	1	6	4	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	10799269	C	T	10799269	2	4	306	1	0	0	0	0	0	0	0	1	7712	784	28	2		2	ILF3	19	10799269	Silent	SNP	C	TCGA-BP-4989-01A-01D-1462-08		10799269	48329714	67	15482											
DHX34	9704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47856562	47856562	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaagcacagcatcccagCgctggccgacctacctcgca	9	4	9	19	3	0	0	0	0	0	0	2	1	1	0	5	1	4	4	5	1	2	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	47856562	C	T	47856562	3	4	306	1	0	0	0	0	1	0	0	0	4507	768	27	1	277	1	DHX34	19	47856562	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	37057293	47856562	11272421	68	15483											
ZFP28	140612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57065721	57065721	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accacatagggcttaatcaaCacaggagaattcatactgga	16	8	8	9	0	2	1	2	0	0	1	2	3	2	2	1	3	2	1	1	3	5	4	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	57065721	C	A	57065721	3	1	306	1	0	0	0	0	1	0	0	0	17641	478	17	4	1597	4	ZFP28	19	57065721	Missense_Mutation	SNP	C	TCGA-BP-4989-01A-01D-1462-08	9209159	57065721	2063262	69	15484											
FLRT3	23767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	14307334	14307334	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggacatatccagtcgataGagctgccttagataagaaaa	15	10	9	7	1	0	3	0	0	0	3	2	5	1	4	2	1	2	1	2	1	6	5	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		C	14307334	G	C	14307334	2	2	306	1	0	0	0	0	0	0	0	1	5940	929	33	4		4	FLRT3	20	14307334	Silent	SNP	G	TCGA-BP-4989-01A-01D-1462-08		14307334	48718186	70	15485											
BACH1	571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	30693729	30693729	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatctttgtggagggacAgcggttccgcgctcaccggt	6	9	13	13	4	2	0	1	0	1	0	3	2	3	2	3	4	1	2	3	4	0	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	30693729	A	G	30693729	3	3	306	1	0	0	0	0	1	0	0	0	1283	188	7	3	130	3	BACH1	21	30693729	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08		30693729	17436166	71	15486											
KRTAP13-2	337959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	31744251	31744251	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagacccagagtaagtcGtcttgcaaggactgcagagc	12	7	12	10	1	1	3	0	0	1	3	2	5	1	4	1	1	3	3	1	1	3	3	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	31744251	G	A	31744251	3	1	306	1	0	0	0	0	1	0	0	0	8523	1145	40	1	250	1	KRTAP13-2	21	31744251	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08	1050522	31744251	16385644	72	15487											
BRWD1	54014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	40590148	40590148	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagctactacagtacagtActtcgggtatgtacacaaat	15	11	7	8	1	0	0	0	0	0	0	1	0	0	0	0	1	6	5	0	1	8	8	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	40590148	A	G	40590148	3	3	306	1	0	0	0	0	1	0	0	0	1525	391	14	3	3660	3	BRWD1	21	40590148	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	8845897	40590148	7539747	73	15488											
OTUD6A	139562	broad.mit.edu	37	chrX	69282742	69282742	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgtcggagcacctggccgGcttcaagcgcgaggaggagg	8	5	18	10	4	1	0	1	0	0	0	2	5	1	3	2	6	2	2	2	6	1	1	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		T	69282742	T	T	69282742	3	4	306	1	0	0	0	0	1	0	0	0	11316	1203	42	4	370	4	OTUD6A	23	69282742	Missense_Mutation	SNP	G	TCGA-BP-4989-01A-01D-1462-08		69282742	85987818	74	15489											
MORC4	79710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	106186437	106186437	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggatccatttgtacttacTgcaagaagaggaaattaaat	16	12	8	5	0	0	2	0	0	0	2	1	4	1	4	1	2	3	2	1	2	8	5	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		A	106186437	T	A	106186437	5	1	306	1	0	0	0	0	0	0	1	0	9704	1594	55	5	1141	5	MORC4	23	106186437	Splice_Site	SNP	T	TCGA-BP-4989-01A-01D-1462-08	36903695	106186437	49084123	75	15490											
LONRF3	79836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118140161	118140161	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaagatgcctagatcacaAcgcaaagtgtccattgtgca	15	8	9	9	1	1	3	1	0	0	3	2	3	2	3	2	0	3	2	2	0	4	2	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	118140161	A	G	118140161	3	3	306	1	0	0	0	0	1	0	0	0	8896	43	2	3	1515	3	LONRF3	23	118140161	Missense_Mutation	SNP	A	TCGA-BP-4989-01A-01D-1462-08	11953724	118140161	37130399	76	15491											
FRMD7	90167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	131212433	131212433	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaagctcttcattctgaTattccttgggcttctttcag	7	17	7	10	0	5	2	2	2	3	0	6	2	6	2	1	1	1	2	1	1	2	7	novel		TCGA-BP-4989-01A-01D-1462-08	TCGA-BP-4989-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7096085b-cd5b-4cd1-8957-a6adcf7e818a	79d2b099-9648-4699-a5c3-17e90c5aed60		G	131212433	T	G	131212433	3	3	306	1	0	0	0	0	1	0	0	0	6055	1406	49	5	536	5	FRMD7	23	131212433	Missense_Mutation	SNP	T	TCGA-BP-4989-01A-01D-1462-08	13072272	131212433	24058127	77	15492											
NOL9	79707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	6592628	6592628	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcatcagcaaattccaaaGcatctgcaaatgctgcgagt	13	10	7	11	1	3	0	2	0	1	0	4	1	4	0	1	0	5	4	1	0	3	2	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	6592628	G	T	6592628	3	4	307	1	0	0	0	0	1	0	0	0	10528	971	34	4	698	4	NOL9	1	6592628	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08		6592628	242657993	1	15493											
RNF19B	127544	hgsc.bcm.edu;ucsc.edu	37	chr1	33402518	33402518	+	Frame_Shift_Del	DEL	G	G	-																															ccttgggctctgggggtcgaGgggcaggctgcagtatggga																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		-	33402518	G	-	33402518	7	5	307	1	0	1	0	1	0	0	0	0	13473	987	35	0	114	0	RNF19B	1	33402518	Frame_Shift_Del	DEL	G	TCGA-BP-4991-01A-01D-1462-08	26809890	33402518	215848103	2	15494											
GJA5	2702	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	147230622	147230622	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttagccatgtgctgcCgcggtttgacaaatcgctgt	7	11	12	11	3	0	1	0	1	0	0	1	1	0	1	2	2	3	4	2	2	2	2	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	147230622	C	T	147230622	3	4	307	1	0	0	0	0	1	0	0	0	6404	652	23	1	355	1	GJA5	1	147230622	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	113828104	147230622	102019999	3	15495											
FCRL1	115350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157767975	157767975	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatatataggctgtagctGccctggggtaggtgagttga	8	13	14	6	0	1	2	1	2	0	0	1	2	1	2	1	4	2	5	1	4	5	7	rs150869330	alternate_allele	TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	157767975	G	T	157767975	3	4	307	1	0	0	0	0	1	0	0	0	5794	1328	46	4	281	4	FCRL1	1	157767975	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	10537353	157767975	91482646	4	15496											
DSTYK	25778	hgsc.bcm.edu;ucsc.edu	37	chr1	205129247	205129247	+	Frame_Shift_Del	DEL	A	A	-																															gaggccaggacccacctcatAtagtgaaattccaaagccag																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		-	205129247	A	-	205129247	7	5	307	1	0	1	0	1	0	0	0	0	4785	456	16	0	713	0	DSTYK	1	205129247	Frame_Shift_Del	DEL	A	TCGA-BP-4991-01A-01D-1462-08	47361272	205129247	44121374	5	15497											
WDR26	80232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	224599175	224599175	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtatcttttgatcctgttGctagtttagtgccatcatta	7	20	7	7	0	2	1	1	1	1	0	3	1	3	1	2	0	2	4	2	0	4	9	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	224599175	G	T	224599175	3	4	307	1	0	0	0	0	1	0	0	0	17282	1319	46	4	905	4	WDR26	1	224599175	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	19469928	224599175	24651446	6	15498											
RGPD3	653489	broad.mit.edu	37	chr2	107049575	107049575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttaccttgtaacttttaCttggtgatagtgaatatttg	9	20	8	4	0	0	2	0	2	0	0	0	2	0	2	1	1	3	2	1	1	6	10	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	107049575	T	T	107049575	3	4	307	1	0	0	0	0	1	0	0	0	13289	565	20	2	2936	2	RGPD3	2	107049575	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08		107049575	136149798	7	15499											
GLI2	2736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	121742131	121742131	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcatgtgaaaacggtccacGgcccagatgcccacgtcacc	11	5	10	15	3	1	2	1	1	0	1	2	2	2	2	4	2	3	1	4	2	2	0	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	121742131	G	T	121742131	3	4	307	1	0	0	0	0	1	0	0	0	6438	1116	39	4	1810	4	GLI2	2	121742131	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	14692556	121742131	121457242	8	15500											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188215	10188226	+	In_Frame_Del	DEL	AGAGATGCAGGG	AGAGATGCAGGG	-																															taggtcacctttggctcttcAgagatgcagggacacacgat																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	AGAGATGCAGGG	AGAGATGCAGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		-	10188226	AGAGATGCAGGG	-	10188215	7	5	307	1	0	1	0	1	0	0	0	0	17161	180	7	0	364	0	VHL	3	10188215	In_Frame_Del	DEL	AGAGATGCAGGG	TCGA-BP-4991-01A-01D-1462-08		10188215	187834215	9	15501											
CC2D2A	57545	broad.mit.edu;hgsc.bcm.edu	37	chr4	15511767	15511767	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttccactcatatagccaggGaaagaggtagaaaggactca	15	8	10	8	0	2	2	2	0	0	2	3	4	3	4	2	3	1	1	2	3	5	4	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	15511767	G	A	15511767	2	1	307	1	0	0	0	0	0	0	0	1	2728	1161	41	2		2	CC2D2A	4	15511767	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08		15511767	175642509	10	15502											
SLC7A11	23657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	139100476	139100476	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaatccctgtactaaatgGgtccgaatagagggaaaggg	13	7	13	8	1	0	1	0	0	0	1	2	3	2	2	3	3	1	1	3	3	7	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	139100476	G	T	139100476	3	4	307	1	0	0	0	0	1	0	0	0	14696	1232	43	4	174	4	SLC7A11	4	139100476	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	123588709	139100476	52053800	11	15503											
HEATR7B2	0	hgsc.bcm.edu	37	chr5	41052635	41052635	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggccatccttcccgagcttCaatataggacttttcacaca	10	12	6	13	1	2	0	2	0	0	0	4	2	4	1	3	2	1	1	3	2	3	6	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	41052635	C	G	41052635	3	3	307	1	0	0	0	0	1	0	0	0	7035	835	29	4	3719	4	HEATR7B2	5	41052635	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08		41052635	139862625	12	15504											
SLC27A6	28965	broad.mit.edu;hgsc.bcm.edu	37	chr5	128302249	128302249	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctcaacaccaacattcGctccaactccctcctgaatt	10	12	2	17	1	1	1	1	1	1	0	6	1	4	1	4	0	3	1	4	0	4	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	128302249	G	T	128302249	3	4	307	1	0	0	0	0	1	0	0	0	14532	1087	38	4	421	4	SLC27A6	5	128302249	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	87249614	128302249	52613011	13	15505											
ADAMTS19	171019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	129070698	129070698	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taagatcacaggaagacatgGaaatgaatgtttttcctcag	15	11	9	6	0	2	3	2	1	0	2	3	5	3	5	1	2	0	1	1	2	4	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	129070698	G	T	129070698	3	4	307	1	0	0	0	0	1	0	0	0	264	1174	41	4	3454	4	ADAMTS19	5	129070698	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	768449	129070698	51844562	14	15506											
SGCD	6444	broad.mit.edu;ucsc.edu	37	chr5	156074477	156074477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgttttgtttacaggagCggagggcacagtgttcccta	7	14	12	8	1	1	0	0	0	1	0	2	2	2	2	1	3	2	4	1	3	2	7	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	156074477	T	T	156074477	3	4	307	1	0	0	0	0	1	0	0	0	14203	768	27	1	528	1	SGCD	5	156074477	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	27003779	156074477	24840783	15	15507											
C6orf47	57827	broad.mit.edu;hgsc.bcm.edu	37	chr6	31627292	31627292	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgcctaccaggtttctccaAtggggctcctggcccaggga	7	8	12	14	1	1	0	0	0	1	0	3	1	2	1	5	5	1	2	5	5	2	2	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	31627292	A	G	31627292	2	3	307	1	0	0	0	0	0	0	0	1	2364	98	4	3		3	C6orf47	6	31627292	Silent	SNP	A	TCGA-BP-4991-01A-01D-1462-08		31627292	139487775	16	15508											
TRRAP	8295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	98547298	98547298	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagatcataagcattataGtgaaaaacgatgactcctgg	16	9	9	7	1	1	3	1	2	0	1	2	5	2	3	1	1	2	1	1	1	5	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	98547298	G	T	98547298	3	4	307	1	0	0	0	0	1	0	0	0	16600	1029	36	4	5028	4	TRRAP	7	98547298	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08		98547298	60591365	17	15509											
SPAM1	6677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123594289	123594289	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggttattatctttttcCggattgttacaaccatcact	8	17	8	8	1	2	0	1	0	1	0	3	1	3	1	2	3	2	2	2	3	4	6	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	123594289	C	T	123594289	3	4	307	1	0	0	0	0	1	0	0	0	14988	652	23	1	667	1	SPAM1	7	123594289	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	25046991	123594289	35544374	18	15510											
CNGB3	54714	hgsc.bcm.edu;ucsc.edu	37	chr8	87683239	87683244	+	In_Frame_Del	DEL	TCTTTG	TCTTTG	-																															tttttcttgtagagggctgtTctttgacgcattcttttcac																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	TCTTTG	TCTTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		-	87683244	TCTTTG	-	87683239	7	5	307	1	0	1	0	1	0	0	0	0	3601	1780	62	0	2063	0	CNGB3	8	87683239	In_Frame_Del	DEL	TCTTTG	TCGA-BP-4991-01A-01D-1462-08		87683239	58680783	19	15511											
MEGF9	1955	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123476115	123476115	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgctgctggggagatcgggGgtcggggtccggggagtcgt	3	8	22	8	4	0	1	0	0	0	1	4	3	1	2	1	8	2	2	1	8	0	0	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	123476115	G	A	123476115	2	1	307	1	0	0	0	0	0	0	0	1	9464	1219	43	2		2	MEGF9	9	123476115	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08		123476115	17737316	20	15512											
CREM	1390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	35495906	35495906	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgatggctgcatcgcccGgaagtttgcacagtccccag	7	9	13	12	2	0	1	0	1	0	0	2	2	1	2	3	3	2	4	3	3	1	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	35495906	G	A	35495906	3	1	307	1	0	0	0	0	1	0	0	0	3868	1117	39	1	956	1	CREM	10	35495906	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08		35495906	100038841	21	15513											
FRMPD2	143162	broad.mit.edu;hgsc.bcm.edu	37	chr10	49420020	49420020	+	Missense_Mutation	SNP	C	C	G																															caagaacttcagctcagcatCctctccccacagtgcagagc																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	49420020	C	G	49420020	3	3	307	1	0	0	0	0	1	0	0	0	6058	855	30	4	2409	4	FRMPD2	10	49420020	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	13924114	49420020	86114727	22	15514	205	2									
FRMPD2	143162	broad.mit.edu;hgsc.bcm.edu	37	chr10	49420021	49420021	+	Silent	SNP	C	C	T																															aagaacttcagctcagcatcCtctccccacagtgcagagct																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	49420021	C	T	49420021	2	4	307	1	0	0	0	0	0	0	0	1	6058	680	24	2		2	FRMPD2	10	49420021	Silent	SNP	C	TCGA-BP-4991-01A-01D-1462-08	1	49420021	86114726	23	15515	205	2									
OR51E1	143503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4674482	4674482	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggccaaggcatttggcacTtgcgtctctcatgtgtgtgc	6	12	12	11	1	2	0	1	0	1	0	3	0	2	0	1	3	2	2	1	3	1	2	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	4674482	T	G	4674482	2	3	307	1	0	0	0	0	0	0	0	1	11094	1596	56	5		5	OR51E1	11	4674482	Silent	SNP	T	TCGA-BP-4991-01A-01D-1462-08		4674482	130332034	24	15516											
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117352764	117352764	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agggtcgatgactgtgtcccCcttctcccagcggatgatga	7	10	12	12	2	1	3	0	3	1	0	4	5	2	4	3	2	1	0	3	2	0	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	117352764	C	A	117352764	3	1	307	1	0	0	0	0	1	0	0	0	4769	623	22	4	3776	4	DSCAML1	11	117352764	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	112678282	117352764	17653752	25	15517											
PLXNC1	10154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	94642074	94642074	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccatggggaaaatgggcaAttaaattgcagttttgaaaa	15	12	10	4	0	0	1	0	1	0	0	1	2	1	2	1	3	1	3	1	3	7	5	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		C	94642074	A	C	94642074	3	2	307	1	0	0	0	0	1	0	0	0	12126	98	4	5	2718	5	PLXNC1	12	94642074	Missense_Mutation	SNP	A	TCGA-BP-4991-01A-01D-1462-08		94642074	39209821	26	15518											
SLC25A3	5250	hgsc.bcm.edu;ucsc.edu	37	chr12	98995243	98995244	+	Frame_Shift_Ins	INS	-	-	C																															tgaaggtctacttcagacttINScctcgccctcctccacccga																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		C	98995244	-	C	98995243	7	5	307	1	0	1	1	0	0	0	0	0	14495	1770	62	0	1178	0	SLC25A3	12	98995243	Frame_Shift_Ins	INS	-	TCGA-BP-4991-01A-01D-1462-08	4353169	98995243	34856652	27	15519											
HTR2A	3356	broad.mit.edu	37	chr13	47470003	47470003	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattagggagttcgtagtTgagctcaaagaagtattttc	11	14	11	5	1	1	2	1	1	0	1	3	3	1	3	0	1	2	6	0	1	5	7	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	47470003	A	A	47470003	2	1	307	1	0	0	0	0	0	0	0	1	7441	1799	63	5		5	HTR2A	13	47470003	Silent	SNP	T	TCGA-BP-4991-01A-01D-1462-08		47470003	67699875	28	15520											
SLC7A8	23428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23608686	23608686	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggacattgcagtgacatAagcgacattggcaaagacat	14	7	13	7	1	0	2	0	1	0	1	0	4	0	3	0	3	2	2	0	3	2	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	23608686	A	G	23608686	3	3	307	1	0	0	0	0	1	0	0	0	14706	362	13	3	772	3	SLC7A8	14	23608686	Missense_Mutation	SNP	A	TCGA-BP-4991-01A-01D-1462-08		23608686	83740854	29	15521											
SERPINA1	5265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94844895	94844895	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgacctcgggggggataGacatgggtatggcctctaaa	10	9	14	8	1	1	2	0	1	1	1	2	3	1	3	2	5	0	1	2	5	4	4	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	94844895	G	T	94844895	3	4	307	1	0	0	0	0	1	0	0	0	14088	942	33	4	112	4	SERPINA1	14	94844895	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08	71236209	94844895	12504645	30	15522											
APBA2	321	broad.mit.edu;hgsc.bcm.edu	37	chr15	29346935	29346935	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacgaggcgaggcccaagtCgctgaacctccttcccgagg	8	5	13	15	4	0	1	0	1	0	0	3	4	2	1	4	3	1	2	4	3	2	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	29346935	C	T	29346935	3	4	307	1	0	0	0	0	1	0	0	0	757	893	31	1	850	1	APBA2	15	29346935	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08		29346935	73184457	31	15523											
TM6SF1	53346	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83805262	83805262	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacattggtgcatctctTcatgctagaactgcttatgt	8	16	7	10	0	3	1	2	0	2	1	5	1	3	1	0	1	4	3	0	1	3	4	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	83805262	T	A	83805262	2	1	307	1	0	0	0	0	0	0	0	1	15971	1770	62	5		5	TM6SF1	15	83805262	Silent	SNP	T	TCGA-BP-4991-01A-01D-1462-08	54458327	83805262	18726130	32	15524											
MFGE8	4240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89449935	89449935	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccaccttgaaggccttcagGtactcatgactggccaagcg	9	8	11	13	1	2	2	2	2	0	0	2	2	2	2	4	3	2	1	4	3	3	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	89449935	G	A	89449935	2	1	307	1	0	0	0	0	0	0	0	1	9520	1256	44	2		2	MFGE8	15	89449935	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08	5644673	89449935	13081457	33	15525											
RHOT2	89941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	722787	722787	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttgatgtttgatggcagtGacccaaagtcctttgcacat	9	13	10	9	0	0	3	0	3	0	0	1	3	1	3	2	1	1	4	2	1	1	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	722787	G	A	722787	3	1	307	1	0	0	0	0	1	0	0	0	13346	1290	45	2	1555	2	RHOT2	16	722787	Missense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08		722787	89631966	34	15526											
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	21151927	21151927	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgtaacatgacatcgAgctgctgttctggactcatt	8	13	9	11	1	2	1	1	1	1	0	3	3	2	2	1	1	4	5	1	1	1	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		C	21151927	A	C	21151927	3	2	307	1	0	0	0	0	1	0	0	0	4603	304	11	5	11955	5	DNAH3	16	21151927	Missense_Mutation	SNP	A	TCGA-BP-4991-01A-01D-1462-08	20429140	21151927	69202826	35	15527											
SLC12A4	6560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67980916	67980916	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccaacaatggtcaggcccTtgccagccttgagctgggag	10	7	12	12	0	1	1	1	1	0	0	1	2	1	2	4	3	5	1	4	3	3	2	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	67980916	T	G	67980916	3	3	307	1	0	0	0	0	1	0	0	0	14387	1609	56	5	1124	5	SLC12A4	16	67980916	Missense_Mutation	SNP	T	TCGA-BP-4991-01A-01D-1462-08	46828989	67980916	22373837	36	15528											
EFCAB5	374786	broad.mit.edu;hgsc.bcm.edu	37	chr17	28405489	28405489	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggggtgtccctagagccGgtgtatagtgagacctttaa	9	11	14	7	1	0	2	0	1	0	2	1	3	1	2	3	3	1	1	3	3	4	5	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	28405489	G	A	28405489	2	1	307	1	0	0	0	0	0	0	0	1	4938	1103	39	1		1	EFCAB5	17	28405489	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08		28405489	52789721	37	15529											
KRT35	3886	broad.mit.edu;hgsc.bcm.edu	37	chr17	39635602	39635602	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcccccatgctcacctcCtcatggttcttcttcaggca	5	15	5	16	0	5	0	3	0	2	0	7	0	7	0	4	2	1	3	4	2	0	5	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	39635602	C	T	39635602	2	4	307	1	0	0	0	0	0	0	0	1	8472	680	24	2		2	KRT35	17	39635602	Silent	SNP	C	TCGA-BP-4991-01A-01D-1462-08	11230113	39635602	41559608	38	15530											
HOXB13	10481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46805884	46805884	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtgggcgaccagattccgCccccctcccgctcccagcaa	7	5	10	19	3	0	1	0	0	0	1	3	3	3	1	7	1	1	2	7	1	1	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	46805884	C	T	46805884	2	4	307	1	0	0	0	0	0	0	0	1	7300	726	26	2		2	HOXB13	17	46805884	Silent	SNP	C	TCGA-BP-4991-01A-01D-1462-08	7170282	46805884	34389326	39	15531											
TOB1	10140	hgsc.bcm.edu;ucsc.edu	37	chr17	48940796	48940797	+	Frame_Shift_Del	DEL	TA	TA	-																															aaccttgttgctacggccacTattcttcattttggtagagc																								novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		-	48940797	TA	-	48940796	7	5	307	1	0	1	0	1	0	0	0	0	16346	1522	53	0	458	0	TOB1	17	48940796	Frame_Shift_Del	DEL	TA	TCGA-BP-4991-01A-01D-1462-08	2134912	48940796	32254414	40	15532											
TRIM25	7706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	54985850	54985850	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacatcctgctgcctgttTctcacatcatccagtgctct	6	13	6	16	1	3	0	2	0	2	0	6	0	5	0	3	0	3	4	3	0	0	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	54985850	T	G	54985850	3	3	307	1	0	0	0	0	1	0	0	0	16498	1780	62	5	1252	5	TRIM25	17	54985850	Missense_Mutation	SNP	T	TCGA-BP-4991-01A-01D-1462-08	6045054	54985850	26209360	41	15533											
MPO	4353	broad.mit.edu	37	chr17	56350261	56350261	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggccatgaggccccggAggatggggtcaatgccacct	7	6	17	11	1	1	1	1	1	0	0	1	3	1	3	5	7	1	0	5	7	1	0	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		G	56350261	G	G	56350261	3	3	307	1	0	0	0	0	1	0	0	0	9732	304	11	3	609	3	MPO	17	56350261	Missense_Mutation	SNP	A	TCGA-BP-4991-01A-01D-1462-08	1364411	56350261	24844949	42	15534											
POLG2	11232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62474074	62474074	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtagtttcagtaaccaAaactgtgaagagaatactca	18	9	7	7	0	2	2	2	1	0	1	2	3	2	2	1	0	3	3	1	0	8	4	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	62474074	A	T	62474074	3	4	307	1	0	0	0	0	1	0	0	0	12201	11	1	5	137	5	POLG2	17	62474074	Missense_Mutation	SNP	A	TCGA-BP-4991-01A-01D-1462-08	6123813	62474074	18721136	43	15535											
FASN	2194	broad.mit.edu;hgsc.bcm.edu	37	chr17	80046746	80046746	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcttcaggccacgcttcaGgacagcctgggggcggcagg	6	5	17	13	3	2	0	2	0	0	0	2	1	2	1	2	7	1	3	2	7	0	2	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	80046746	G	A	80046746	2	1	307	1	0	0	0	0	0	0	0	1	5683	991	35	2		2	FASN	17	80046746	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08	17572672	80046746	1148464	44	15536											
COL5A3	50509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10071471	10071471	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagctgcattctggcaggaGtaggtgaagttctggcgagc	8	9	16	8	1	2	1	0	1	2	0	2	3	2	2	0	4	3	6	0	4	2	3	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	10071471	G	T	10071471	4	4	307	1	0	0	0	0	0	1	0	0	3698	1024	36	4	298	4	COL5A3	19	10071471	Nonsense_Mutation	SNP	G	TCGA-BP-4991-01A-01D-1462-08		10071471	49057512	45	15537											
ECSIT	51295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11618640	11618640	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattgtggcgggccagggcGgcctgctgatcgggactctg	4	8	19	10	3	1	1	0	1	1	0	2	3	1	3	2	6	1	1	2	6	0	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	11618640	G	A	11618640	2	1	307	1	0	0	0	0	0	0	0	1	4900	1103	39	1		1	ECSIT	19	11618640	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08	1547169	11618640	47510343	46	15538											
GGT1	2678	broad.mit.edu;hgsc.bcm.edu	37	chr22	25010806	25010806	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagccctgttgtgtgtgggGctcatgaatgcccacagcat	7	10	13	11	0	1	1	1	1	0	0	1	1	1	1	2	2	3	4	2	2	1	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	25010806	G	A	25010806	2	1	307	1	0	0	0	0	0	0	0	1	6361	1190	42	2		2	GGT1	22	25010806	Silent	SNP	G	TCGA-BP-4991-01A-01D-1462-08		25010806	26293760	47	15539											
HUWE1	10075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53612105	53612105	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactacaccaacgcccagagCgatcatcaaaccagcgccag	15	3	7	16	3	2	1	2	0	0	1	2	2	2	1	4	0	6	0	4	0	4	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	53612105	C	A	53612105	3	1	307	1	0	0	0	0	1	0	0	0	7461	768	27	4	8436	4	HUWE1	23	53612105	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08		53612105	101658455	48	15540											
MSN	4478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	64959702	64959702	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatacaagaccctgcgcCagatccggcagggcaacacc	14	3	9	15	2	0	2	0	0	0	2	1	2	1	2	4	2	3	2	4	2	4	1	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		T	64959702	C	T	64959702	4	4	307	1	0	0	0	0	0	1	0	0	9885	595	21	2	1731	2	MSN	23	64959702	Nonsense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	11347597	64959702	90310858	49	15541											
GUCY2F	2986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	108636245	108636245	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatccgaagcatagaatCaataatattggtcttcttcc	14	12	5	10	1	3	1	1	0	2	1	5	2	5	1	2	1	2	1	2	1	7	6	novel		TCGA-BP-4991-01A-01D-1462-08	TCGA-BP-4991-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	d54c714e-b1c4-4669-986d-5e13d2fc3cc3	11980286-4f68-4660-88d1-949a55304a45		A	108636245	C	A	108636245	3	1	307	1	0	0	0	0	1	0	0	0	6898	826	29	4	890	4	GUCY2F	23	108636245	Missense_Mutation	SNP	C	TCGA-BP-4991-01A-01D-1462-08	43676543	108636245	46634315	50	15542											
VHL	7428	hgsc.bcm.edu	37	chr3	10183830	10183831	+	Frame_Shift_Del	DEL	CG	CG	-																															cgagccgcagccctacccaaCgctgccgcctggcacgggcc																								novel		TCGA-BP-4992-01A-01D-1392-10	TCGA-BP-4992-11A-01D-1392-10	CG	CG	CG	-	CG	CG	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	d5f862a5-be33-4943-8746-41a354bbf03f	af086602-7697-47db-9386-999d8ab33c5a		-	10183831	CG	-	10183830	7	5	308	1	0	1	0	1	0	0	0	0	17161	536	19	0	301	0	VHL	3	10183830	Frame_Shift_Del	DEL	CG	TCGA-BP-4992-01A-01D-1392-10		10183830	187838600	1	15543	206	2									
VHL	7428	hgsc.bcm.edu	37	chr3	10183832	10183833	+	Missense_Mutation	DNP	CT	CT	AA																															agccgcagccctacccaacgCtgccgcctggcacgggccgc																								novel		TCGA-BP-4992-01A-01D-1392-10	TCGA-BP-4992-11A-01D-1392-10	CT	CT	CT	AA	CT	CT	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	d5f862a5-be33-4943-8746-41a354bbf03f	af086602-7697-47db-9386-999d8ab33c5a		AA	10183833	CT	AA	10183832	3	1	308	1	0	0	0	0	1	0	0	0	17161	796	28	4	303	4	VHL	3	10183832	Missense_Mutation	DNP	CT	TCGA-BP-4992-01A-01D-1392-10	2	10183832	187838598	2	15544	206	2									
MYOM3	127294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24419478	24419478	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgttcccggggtccgaagGgcgagggcacccggaccatg	6	6	16	13	4	1	0	0	0	1	0	3	3	3	1	4	5	0	2	4	5	1	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	24419478	G	A	24419478	3	1	309	1	0	0	0	0	1	0	0	0	10093	1232	43	2	3376	2	MYOM3	1	24419478	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08		24419478	224831143	1	15545											
TAF1B	9014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	10051037	10051037	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttctattggatgacagtttCgagtggtaagtgtacgtcaa	10	15	11	5	2	2	1	1	1	1	0	3	3	2	2	0	2	1	3	0	2	4	6	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	10051037	C	T	10051037	2	4	309	1	0	0	0	0	0	0	0	1	15519	883	31	1		1	TAF1B	2	10051037	Silent	SNP	C	TCGA-BP-4992-01A-01D-1462-08		10051037	233148336	2	15546											
PDIA6	10130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	10931989	10931989	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttcactgtccagaacattCttatcaaagctgtcgtctgt	9	15	6	11	1	5	1	2	0	3	1	7	1	6	1	1	0	2	1	1	0	3	3	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	10931989	C	G	10931989	3	3	309	1	0	0	0	0	1	0	0	0	11672	912	32	4	838	4	PDIA6	2	10931989	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	880952	10931989	232267384	3	15547											
TET3	200424	broad.mit.edu	37	chr2	74328533	74328533	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccgtgggcgctgggggcaGgggatttcaactcggccctg	5	7	18	11	3	1	0	1	0	0	0	2	1	1	1	2	6	2	2	2	6	1	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	74328533	T	T	74328533	3	4	309	1	0	0	0	0	1	0	0	0	15770	1000	35	4	4247	4	TET3	2	74328533	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08	63396544	74328533	168870840	4	15548											
ITPRIPL1	150771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	96993809	96993809	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccaggacattctctggttCttgggccgtggcctccagca	5	11	11	14	1	2	0	0	0	2	0	5	1	4	1	4	4	1	2	4	4	0	3	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	96993809	C	T	96993809	2	4	309	1	0	0	0	0	0	0	0	1	7924	912	32	2		2	ITPRIPL1	2	96993809	Silent	SNP	C	TCGA-BP-4992-01A-01D-1462-08	22665276	96993809	146205564	5	15549											
SH3RF3	344558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	110053415	110053415	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggtctccactggccaaaggGataaccacaaccatgcaccc	12	5	9	15	0	1	0	0	0	1	0	2	1	1	1	5	3	3	1	5	3	3	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	110053415	G	T	110053415	2	4	309	1	0	0	0	0	0	0	0	1	14262	1161	41	4		4	SH3RF3	2	110053415	Silent	SNP	G	TCGA-BP-4992-01A-01D-1462-08	13059606	110053415	133145958	6	15550											
BZW1	9689	broad.mit.edu;hgsc.bcm.edu	37	chr2	201682967	201682967	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactctttcctgccaataagCaaagtgttgaacacttcaca	14	11	5	11	0	2	1	1	1	1	0	3	1	3	1	2	0	4	2	2	0	5	4	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	201682967	C	G	201682967	3	3	309	1	0	0	0	0	1	0	0	0	1578	711	25	4	696	4	BZW1	2	201682967	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	91629552	201682967	41516406	7	15551											
AQP12A	375318	broad.mit.edu;hgsc.bcm.edu	37	chr2	241631411	241631411	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaggcgggcctccaaggcCctgctcccagtgggcgccta	5	5	14	17	2	0	0	0	0	0	0	2	0	2	0	6	4	1	1	6	4	2	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	241631411	C	A	241631411	2	1	309	1	0	0	0	0	0	0	0	1	824	610	22	4		4	AQP12A	2	241631411	Silent	SNP	C	TCGA-BP-4992-01A-01D-1462-08	39948444	241631411	1567962	8	15552											
MYL5	4636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	674308	674308	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtggcaggtaccgacgcCgaggagaccattcttaacgc	9	9	12	11	4	1	1	0	0	1	1	1	4	1	1	3	3	2	2	3	3	2	4	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	674308	C	T	674308	2	4	309	1	0	0	0	0	0	0	0	1	10050	639	23	1		1	MYL5	4	674308	Silent	SNP	C	TCGA-BP-4992-01A-01D-1462-08		674308	190479968	9	15553											
BOD1L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	13604991	13604991	+	Missense_Mutation	SNP	G	G	C																															ggcctggcttataagctggaGctgttgcttttgaatctgct																								novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	13604991	G	C	13604991	3	2	309	1	0	0	0	0	1	0	0	0	1483	971	34	4	5690	4	BOD1L	4	13604991	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08	12930683	13604991	177549285	10	15554	207	2									
BOD1L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	13604992	13604992	+	Missense_Mutation	SNP	C	C	T																															gcctggcttataagctggagCtgttgcttttgaatctgctg																								novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	13604992	C	T	13604992	3	4	309	1	0	0	0	0	1	0	0	0	1483	797	28	2	5691	2	BOD1L	4	13604992	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	1	13604992	177549284	11	15555	207	2									
FAM134B	54463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	16475310	16475310	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaaatctgaaagatctCtagagaaaacttcctcactg	16	10	7	8	0	3	3	1	1	2	2	5	5	4	4	1	1	1	0	1	1	6	2	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	16475310	C	A	16475310	3	1	309	1	0	0	0	0	1	0	0	0	5446	913	32	4	463	4	FAM134B	5	16475310	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08		16475310	164439950	12	15556											
PCDHA12	56137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140257019	140257019	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgctggtgaaggaccaCggtgagcccgcgctgacgtc	6	7	16	12	4	0	3	0	3	0	0	1	4	0	4	2	4	2	2	2	4	1	0	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	140257019	C	T	140257019	2	4	309	1	0	0	0	0	0	0	0	1	11522	535	19	1		1	PCDHA12	5	140257019	Silent	SNP	C	TCGA-BP-4992-01A-01D-1462-08	123781709	140257019	40658241	13	15557											
RNF130	55819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179382657	179382657	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaggttttttcttcttcaAaaccattctaccctatggaa	11	15	5	10	0	4	0	1	0	3	0	4	1	4	1	2	2	3	2	2	2	5	8	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	179382657	A	G	179382657	2	3	309	1	0	0	0	0	0	0	0	1	13440	11	1	3		3	RNF130	5	179382657	Silent	SNP	A	TCGA-BP-4992-01A-01D-1462-08	39125638	179382657	1532603	14	15558											
C7orf25	79020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	42949681	42949681	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttgttctgtgagcactttCtctttgaaaataaagtggca	10	15	9	7	0	2	2	0	2	2	0	3	2	2	2	0	1	1	4	0	1	4	5	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	42949681	C	T	42949681	2	4	309	1	0	0	0	0	0	0	0	1	2380	912	32	2		2	C7orf25	7	42949681	Silent	SNP	C	TCGA-BP-4992-01A-01D-1462-08		42949681	116188982	15	15559											
ATP6V0A4	50617	broad.mit.edu;hgsc.bcm.edu	37	chr7	138417644	138417644	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtttgtagaggggtgcgTtggaagagtcactgtagtta	9	13	16	3	1	1	2	1	0	0	2	1	4	1	3	0	3	1	5	0	3	4	5	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	138417644	T	C	138417644	3	2	309	1	0	0	0	0	1	0	0	0	1170	1725	60	3	660	3	ATP6V0A4	7	138417644	Missense_Mutation	SNP	T	TCGA-BP-4992-01A-01D-1462-08	95467963	138417644	20721019	16	15560											
PRSS37	136242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	141540818	141540818	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtcttgagtacataccaGcgaggacacccaaatagaag	16	6	10	9	1	1	2	0	1	1	1	1	4	1	3	2	2	3	1	2	2	6	4	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	141540818	G	A	141540818	3	1	309	1	0	0	0	0	1	0	0	0	12628	971	34	2	695	2	PRSS37	7	141540818	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08	3123174	141540818	17597845	17	15561											
RHEB	6009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151188050	151188050	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttctatggttggatcgtAggagtccacaaattggcctt	8	15	11	7	1	1	0	0	0	1	0	3	2	2	2	2	4	0	3	2	4	3	7	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	151188050	A	T	151188050	3	4	309	1	0	0	0	0	1	0	0	0	13330	420	15	5	479	5	RHEB	7	151188050	Missense_Mutation	SNP	A	TCGA-BP-4992-01A-01D-1462-08	9647232	151188050	7950613	18	15562											
MTAP	4507	broad.mit.edu;hgsc.bcm.edu	37	chr9	21818193	21818193	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgtcattattgatcagttCattgacaggtaagcagtcat	12	15	8	6	0	4	2	4	2	0	0	4	2	4	2	0	1	1	3	0	1	2	6	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	21818193	C	G	21818193	3	3	309	1	0	0	0	0	1	0	0	0	9911	825	29	4	353	4	MTAP	9	21818193	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08		21818193	119395238	19	15563											
ABCA1	19	broad.mit.edu;hgsc.bcm.edu	37	chr9	107558674	107558674	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagcagatgaagatgataAtgaccagtgtggcagggaca	15	6	15	5	0	0	5	0	3	0	2	0	7	0	7	1	3	1	2	1	3	3	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	107558674	A	C	107558674	3	2	309	1	0	0	0	0	1	0	0	0	28	101	4	5	1684	5	ABCA1	9	107558674	Missense_Mutation	SNP	A	TCGA-BP-4992-01A-01D-1462-08	85740481	107558674	33654757	20	15564											
FKBP15	23307	broad.mit.edu	37	chr9	115973865	115973865	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtccaaaaagtgaggccaAtctggcactgttagtagaaa	15	8	10	8	0	1	2	0	1	1	1	2	2	2	2	2	2	0	3	2	2	6	2	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	115973865	C	C	115973865	3	2	309	1	0	0	0	0	1	0	0	0	5905	98	4	5	3706	5	FKBP15	9	115973865	Missense_Mutation	SNP	A	TCGA-BP-4992-01A-01D-1462-08	8415191	115973865	25239566	21	15565											
WAC	51322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	28906668	28906668	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaattaaaaaatttaagatCtttagtccgagtatgtgaaa	17	14	7	3	1	1	3	0	2	1	1	2	4	2	3	1	0	0	1	1	0	8	6	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	28906668	C	A	28906668	3	1	309	1	0	0	0	0	1	0	0	0	17246	913	32	4	1879	4	WAC	10	28906668	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08		28906668	106628079	22	15566											
INPP5A	3632	broad.mit.edu;ucsc.edu	37	chr10	134523924	134523924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagcccttccgtgtactcggGaatccggcacaaggcactgg	9	7	12	13	3	0	0	0	0	0	0	3	1	2	1	3	4	2	3	3	4	4	2	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	134523924	A	A	134523924	3	1	309	1	0	0	0	0	1	0	0	0	7754	1174	41	2	641	2	INPP5A	10	134523924	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08	105617256	134523924	1010823	23	15567											
MICALCL	84953	broad.mit.edu	37	chr11	12316358	12316358	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcagctcctcctcctccTcctcctcctcctcctcctcc	2	11	3	25	0	0	0	0	0	0	0	11	0	11	0	11	1	1	2	11	1	0	0	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	12316358	C	C	12316358	2	2	309	1	0	0	0	0	0	0	0	1	9572	1538	54	3		3	MICALCL	11	12316358	Silent	SNP	T	TCGA-BP-4992-01A-01D-1462-08		12316358	122690158	24	15568											
BTG1	694	hgsc.bcm.edu;ucsc.edu	37	chr12	92539248	92539249	+	Frame_Shift_Ins	INS	-	-	G																															gtgcggagaaacttggagatINSgaaggacacggcggcggcga																								novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	92539249	-	G	92539248	7	5	309	1	0	1	1	0	0	0	0	0	1553	1464	51	0	459	0	BTG1	12	92539248	Frame_Shift_Ins	INS	-	TCGA-BP-4992-01A-01D-1462-08		92539248	41312647	25	15569											
KIAA1033	23325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	105538583	105538583	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttatagtgagatgagaaActtagctactcagcgttatg	13	12	9	7	1	1	2	1	2	0	2	1	4	1	2	0	0	4	2	0	0	6	5	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	105538583	A	C	105538583	3	2	309	1	0	0	0	0	1	0	0	0	8206	43	2	5	2353	5	KIAA1033	12	105538583	Missense_Mutation	SNP	A	TCGA-BP-4992-01A-01D-1462-08	12999335	105538583	28313312	26	15570											
CDC16	8881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	115007656	115007656	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctctagataaccgaaccCtggctacctacagctacaaa	14	8	6	13	1	1	1	0	0	1	1	1	2	1	1	3	1	7	3	3	1	7	5	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	115007656	C	A	115007656	3	1	309	1	0	0	0	0	1	0	0	0	3058	680	24	4	464	4	CDC16	13	115007656	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08		115007656	162222	27	15571											
BNC1	646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83935682	83935682	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaacacactgaagagcCggtccagtaggatttttagg	11	10	11	9	1	1	2	1	1	0	1	2	3	2	3	2	3	2	2	2	3	4	5	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	83935682	C	T	83935682	3	4	309	1	0	0	0	0	1	0	0	0	1474	652	23	1	2655	1	BNC1	15	83935682	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08		83935682	18595710	28	15572											
MMP25	64386	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3100517	3100517	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggggacactcactttgacGatgaggagacctggactttt	9	10	12	10	2	1	3	1	2	0	1	1	7	1	5	2	4	0	0	2	4	0	3	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	3100517	G	A	3100517	3	1	309	1	0	0	0	0	1	0	0	0	9662	1058	37	1	645	1	MMP25	16	3100517	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08		3100517	87254236	29	15573											
NOD2	64127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50733767	50733767	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcaggaggctccacagcCatgtggagaacatgctggac	10	8	13	10	0	1	1	1	0	0	1	2	4	2	3	2	4	3	2	2	4	1	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	50733767	C	T	50733767	3	4	309	1	0	0	0	0	1	0	0	0	10517	594	21	2	448	2	NOD2	16	50733767	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	47633250	50733767	39620986	30	15574											
KIAA0664	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	2596082	2596082	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgactcacgtattcctGgatggtgttggggtgctcgg	4	12	15	10	4	1	0	1	0	0	0	4	2	2	1	1	5	1	3	1	5	1	3	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	2596082	G	A	2596082	4	1	309	1	0	0	0	0	0	1	0	0	8189	1357	47	2	770	2	KIAA0664	17	2596082	Nonsense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08		2596082	78599128	31	15575											
ACE	1636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61555382	61555382	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgatctggcagaacttcacgGacccgcagctgcgcaggatc	9	6	12	14	4	2	1	1	0	1	1	3	4	2	3	1	3	3	4	1	3	1	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	61555382	G	A	61555382	3	1	309	1	0	0	0	0	1	0	0	0	136	1174	41	2	346	2	ACE	17	61555382	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08	58959300	61555382	19639828	32	15576											
ZNF407	55628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72346181	72346181	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcatgcagcaacagagaAgcacaaaatgaaaaggcagt	19	3	11	8	0	0	2	0	1	0	1	0	3	0	2	0	2	4	5	0	2	6	0	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	72346181	A	C	72346181	3	2	309	1	0	0	0	0	1	0	0	0	17886	72	3	5	3208	5	ZNF407	18	72346181	Missense_Mutation	SNP	A	TCGA-BP-4992-01A-01D-1462-08		72346181	5731067	33	15577											
MYO1F	4542	broad.mit.edu;hgsc.bcm.edu	37	chr19	8606866	8606866	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgcagaagccgctgacgtCgtaggagacctggaggggac	9	5	16	11	4	0	3	0	1	0	2	2	6	0	5	2	4	1	3	2	4	2	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	8606866	C	T	8606866	3	4	309	1	0	0	0	0	1	0	0	0	10073	884	31	1	1818	1	MYO1F	19	8606866	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08		8606866	50522117	34	15578											
SMARCA4	6597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11143976	11143976	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcccccaggacctgcaagCgcaggaccgagcccaccgca	9	3	10	19	3	0	0	0	0	0	0	1	3	1	2	6	2	3	3	6	2	1	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	11143976	C	G	11143976	3	3	309	1	0	0	0	0	1	0	0	0	14772	768	27	4	3655	4	SMARCA4	19	11143976	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	2537110	11143976	47985007	35	15579											
KCNN1	3780	broad.mit.edu	37	chr19	18104303	18104303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgtccccacaggctcCggagtgtgaagatcgagcaa	9	6	12	14	3	0	2	0	1	0	1	3	4	2	3	5	2	1	2	5	2	2	0	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		T	18104303	T	T	18104303	3	4	309	1	0	0	0	0	1	0	0	0	8078	643	23	1	1342	1	KCNN1	19	18104303	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	6960327	18104303	41024680	36	15580											
C19orf55	148137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36258775	36258775	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggaagagcgaagccactcCttcccctggagcctgcctgc	8	6	11	16	2	0	1	0	0	0	1	2	4	2	3	6	2	5	0	6	2	2	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	36258775	C	A	36258775	3	1	309	1	0	0	0	0	1	0	0	0	1937	681	24	4	1062	4	C19orf55	19	36258775	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	18154472	36258775	22870208	37	15581											
PNKP	11284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50364761	50364761	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgagaggagtccgtcatctCtcgaaactgtggggaacatc	11	9	12	9	2	2	1	1	1	1	1	6	5	3	3	1	3	2	0	1	3	2	0	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	50364761	C	G	50364761	3	3	309	1	0	0	0	0	1	0	0	0	12147	922	32	4	180	4	PNKP	19	50364761	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	14105986	50364761	8764222	38	15582											
ZNF473	25888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50550275	50550275	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccactcgagcctcagcCgccatcagcgtgtacacaac	9	6	10	16	3	2	0	2	0	0	0	3	1	2	0	4	1	6	1	4	1	2	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		G	50550275	C	G	50550275	3	3	309	1	0	0	0	0	1	0	0	0	17930	652	23	4	2589	4	ZNF473	19	50550275	Missense_Mutation	SNP	C	TCGA-BP-4992-01A-01D-1462-08	185514	50550275	8578708	39	15583											
SLC13A3	64849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	45239178	45239178	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggcaatgggaagcatcaTggcagtggaggcggtgttgc	9	9	17	6	1	1	0	1	0	0	0	1	2	1	2	0	6	2	4	0	6	2	2	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		C	45239178	T	C	45239178	3	2	309	1	0	0	0	0	1	0	0	0	14395	1464	51	3	1404	3	SLC13A3	20	45239178	Missense_Mutation	SNP	T	TCGA-BP-4992-01A-01D-1462-08		45239178	17786342	40	15584											
FBLN1	2192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45960802	45960802	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaggcagaacaccccagcggGatcaagtaaagaggactgca	16	3	12	10	1	1	2	1	0	0	2	1	4	1	4	2	3	3	3	2	3	5	1	novel		TCGA-BP-4992-01A-01D-1462-08	TCGA-BP-4992-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39df0e80-84d8-4ed8-9273-4743b14ee408	576f56ed-b2c7-4c79-ab0a-5bdc6b472431		A	45960802	G	A	45960802	3	1	309	1	0	0	0	0	1	0	0	0	5698	1174	41	2	2161	2	FBLN1	22	45960802	Missense_Mutation	SNP	G	TCGA-BP-4992-01A-01D-1462-08		45960802	5343764	41	15585											
GNB1	2782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1749311	1749311	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcacatgctttcctggCgtcctgggaagcaaggacag	9	9	12	11	1	1	0	0	0	1	0	3	2	3	2	2	3	3	3	2	3	2	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	1749311	C	A	1749311	3	1	310	1	0	0	0	0	1	0	0	0	6515	768	27	4	993	4	GNB1	1	1749311	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08		1749311	247501310	1	15586											
NPPB	4879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11918438	11918438	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgggacttccagacacctGtgggacgggggctctcctgg	5	7	15	14	2	1	1	0	0	1	1	3	3	2	3	4	5	0	1	4	5	0	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	11918438	G	A	11918438	3	1	310	1	0	0	0	0	1	0	0	0	10592	1377	48	2	191	2	NPPB	1	11918438	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	10169127	11918438	237332183	2	15587											
ECE1	1889	broad.mit.edu;hgsc.bcm.edu	37	chr1	21616586	21616586	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggccgttggggtatgcgtCgccctcggagagcgagtcca	6	7	16	12	5	0	1	0	0	0	1	3	3	1	1	3	4	2	2	3	4	1	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	21616586	C	T	21616586	3	4	310	1	0	0	0	0	1	0	0	0	4889	884	31	1	2371	1	ECE1	1	21616586	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	9698148	21616586	227634035	3	15588											
LUZP1	7798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	23418890	23418890	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattaaccccttctttatgtGaggttgaaaatccctgaagg	11	13	9	8	0	1	3	0	3	1	0	2	4	2	3	3	2	1	1	3	2	5	5	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	23418890	G	A	23418890	3	1	310	1	0	0	0	0	1	0	0	0	9086	1294	45	2	1373	2	LUZP1	1	23418890	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	1802304	23418890	225831731	4	15589											
OPRD1	4985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	29189406	29189406	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgcgcctgcgcagtgtgCgcctgctgtcgggctccaag	3	9	15	14	4	0	0	0	0	0	0	2	0	1	0	3	1	5	4	3	1	1	0	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	29189406	C	T	29189406	3	4	310	1	0	0	0	0	1	0	0	0	10884	768	27	1	740	1	OPRD1	1	29189406	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	5770516	29189406	220061215	5	15590											
EIF2C4	192670	hgsc.bcm.edu;ucsc.edu	37	chr1	36290935	36290935	+	Frame_Shift_Del	DEL	C	C	-																															ttgatatggaggtgactcttCcaggcgagggtaaagaccaa																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	36290935	C	-	36290935	7	5	310	1	0	1	0	1	0	0	0	0	5008	855	30	0	342	0	EIF2C4	1	36290935	Frame_Shift_Del	DEL	C	TCGA-BP-4993-01A-02D-1421-08	7101529	36290935	212959686	6	15591											
NEGR1	257194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	72748110	72748110	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtagcaggcagcacaggCtgaggagcaccgccgccagc	10	2	16	13	2	0	1	0	1	0	0	0	2	0	2	3	4	4	6	3	4	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	72748110	C	T	72748110	3	4	310	1	0	0	0	0	1	0	0	0	10317	797	28	2	1024	2	NEGR1	1	72748110	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	36457175	72748110	176502511	7	15592											
WDR63	126820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85546974	85546974	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccaagaaatatttaactGccgaatagatgaagatgtca	17	9	8	7	1	1	4	1	1	0	3	1	6	1	4	2	0	2	0	2	0	7	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	85546974	G	A	85546974	3	1	310	1	0	0	0	0	1	0	0	0	17313	1319	46	2	171	2	WDR63	1	85546974	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	12798864	85546974	163703647	8	15593											
CDC14A	8556	broad.mit.edu	37	chr1	100964716	100964716	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacctgaacagccccccAggcccccacagcgccaagac	11	1	9	20	1	0	2	0	1	0	1	0	2	0	2	7	2	4	1	7	2	3	0	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	100964716	T	T	100964716	2	4	310	1	0	0	0	0	0	0	0	1	3056	175	7	5		5	CDC14A	1	100964716	Silent	SNP	A	TCGA-BP-4993-01A-02D-1421-08	15417742	100964716	148285905	9	15594											
PRPF3	9129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150310685	150310685	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacaagcagctcgaaaaaCaggcatccatacttcgacta	15	8	6	12	2	1	0	1	0	0	0	4	2	2	0	1	1	4	3	1	1	5	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	150310685	C	G	150310685	3	3	310	1	0	0	0	0	1	0	0	0	12567	478	17	4	1111	4	PRPF3	1	150310685	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	49345969	150310685	98939936	10	15595											
ATP1A2	477	broad.mit.edu;ucsc.edu	37	chr1	160093040	160093040	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaggacgttctggctcGagatgggcccaacgccctca	7	7	13	14	3	3	1	2	0	1	1	4	3	3	2	2	4	1	3	2	4	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	160093040	T	T	160093040	3	4	310	1	0	0	0	0	1	0	0	0	1129	1058	37	4	229	4	ATP1A2	1	160093040	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	9782355	160093040	89157581	11	15596											
ZNF672	79894	broad.mit.edu;hgsc.bcm.edu	37	chr1	249142695	249142695	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagtgcttcagccacagcCgctcgctgtcacagcatcag	9	7	10	15	2	3	0	3	0	0	0	4	0	3	0	2	0	4	5	2	0	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	249142695	C	A	249142695	3	1	310	1	0	0	0	0	1	0	0	0	18078	652	23	4	1224	4	ZNF672	1	249142695	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	89049655	249142695	107926	12	15597											
ADCY3	109	hgsc.bcm.edu	37	chr2	25061418	25061419	+	Frame_Shift_Ins	INS	-	-	G																															tctaggtaatcacagcggctINSgcccccatcgcctggctcca																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	25061419	-	G	25061418	7	5	310	1	0	1	1	0	0	0	0	0	295	1580	55	0	2065	0	ADCY3	2	25061418	Frame_Shift_Ins	INS	-	TCGA-BP-4993-01A-02D-1421-08		25061418	218137955	13	15598											
TET3	200424	hgsc.bcm.edu;ucsc.edu	37	chr2	74328262	74328263	+	Frame_Shift_Ins	INS	-	-	A																															gcatgtcccccaagaggactINSaacggtgtgggtggcagctg																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	74328263	-	A	74328262	7	5	310	1	0	1	1	0	0	0	0	0	15770	1509	53	0	3976	0	TET3	2	74328262	Frame_Shift_Ins	INS	-	TCGA-BP-4993-01A-02D-1421-08	49266844	74328262	168871111	14	15599											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu	37	chr2	109365421	109365421	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcaagcaagattttttaaAagagattgttgaaacttttg	14	15	9	3	0	0	3	0	1	0	2	0	4	0	3	0	1	2	3	0	1	5	7	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	109365421	A	C	109365421	3	2	310	1	0	0	0	0	1	0	0	0	13030	14	1	5	1143	5	RANBP2	2	109365421	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08	35037159	109365421	133833952	15	15600											
AGXT	189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241808356	241808356	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatccccaaccagctccTgctggggcctggtccttcca	5	9	8	19	0	0	0	0	0	0	0	5	0	5	0	8	3	3	2	8	3	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	241808356	T	C	241808356	3	2	310	1	0	0	0	0	1	0	0	0	404	1580	55	3	76	3	AGXT	2	241808356	Missense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08	132442935	241808356	1391017	16	15601											
ANO10	55129	broad.mit.edu	37	chr3	43474215	43474215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaactttaaagccaggagtGcgtgctgaaaacaagaaaga	18	7	10	6	1	0	3	0	1	0	2	0	4	0	4	1	1	5	1	1	1	8	3	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	43474215	A	A	43474215	3	1	310	1	0	0	0	0	1	0	0	0	696	1319	46	2	188	2	ANO10	3	43474215	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08		43474215	154548215	17	15602											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643348	52643348	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgattcatccttcttgctcGttccaatacttcaaacatat	10	15	3	13	2	3	0	2	0	1	0	6	1	5	0	3	0	3	2	3	0	4	7	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	52643348	G	A	52643348	4	1	310	1	0	0	0	0	0	1	0	0	11491	1153	40	1	2412	1	PBRM1	3	52643348	Nonsense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	9169133	52643348	145379082	18	15603											
ADCY5	111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	123005537	123005537	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctgcactcacctggaTgcggtcgggtacaccggtgc	5	9	13	14	3	1	0	1	0	0	0	3	1	2	1	3	4	5	3	3	4	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	123005537	T	C	123005537	3	2	310	1	0	0	0	0	1	0	0	0	297	1464	51	3	141	3	ADCY5	3	123005537	Missense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08	70362189	123005537	75016893	19	15604											
C4orf14	0	hgsc.bcm.edu	37	chr4	57842813	57842813	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttggcgctgatcagccgCacgtccctgaccactgtgcg	5	9	12	15	4	2	2	1	2	1	0	3	2	3	2	3	1	2	2	3	1	0	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	57842813	C	T	57842813	2	4	310	1	0	0	0	0	0	0	0	1	2251	697	25	2		2	C4orf14	4	57842813	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08		57842813	133311463	20	15605											
PDHA2	5161	hgsc.bcm.edu	37	chr4	96761930	96761949	+	Frame_Shift_Del	DEL	CTTTATGGAAATTACCTTGT	CTTTATGGAAATTACCTTGT	-																															cgaagctttcaatatggcagCtttatggaaattaccttgtg																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	CTTTATGGAAATTACCTTGT	CTTTATGGAAATTACCTTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	96761949	CTTTATGGAAATTACCTTGT	-	96761930	7	5	310	1	0	1	0	1	0	0	0	0	11665	797	28	0	631	0	PDHA2	4	96761930	Frame_Shift_Del	DEL	CTTTATGGAAATTACCTTGT	TCGA-BP-4993-01A-02D-1421-08	38919117	96761930	94392346	21	15606											
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	134071517	134071517	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggagacaggggtgctgtaCgtgaacgagaaaatagaccg	13	6	15	7	3	0	4	0	1	0	3	0	6	0	4	1	3	3	2	1	3	5	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	134071517	C	A	134071517	4	1	310	1	0	0	0	0	0	1	0	0	11507	547	19	4	224	4	PCDH10	4	134071517	Nonsense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	37309587	134071517	57082759	22	15607											
MAML3	55534	hgsc.bcm.edu;ucsc.edu	37	chr4	140641167	140641167	+	Frame_Shift_Del	DEL	A	A	-																															ccaaagccactcaccattccAaccccctgcccagaggcagg																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	140641167	A	-	140641167	7	5	310	1	0	1	0	1	0	0	0	0	9207	117	5	0	693	0	MAML3	4	140641167	Frame_Shift_Del	DEL	A	TCGA-BP-4993-01A-02D-1421-08	6569650	140641167	50513109	23	15608											
CLCN3	1182	hgsc.bcm.edu;ucsc.edu	37	chr4	170618812	170618815	+	Frame_Shift_Del	DEL	ATTC	ATTC	-																															tccagcaggcattggagtatAttcagctatatggcagttat																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	ATTC	ATTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	170618815	ATTC	-	170618812	7	5	310	1	0	1	0	1	0	0	0	0	3464	449	16	0	1520	0	CLCN3	4	170618812	Frame_Shift_Del	DEL	ATTC	TCGA-BP-4993-01A-02D-1421-08	29977645	170618812	20535464	24	15609											
MCCC2	64087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70930789	70930789	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtctggagtaagtgacCactgggctttggatgatcat	11	11	13	6	0	2	2	1	2	1	0	2	5	2	4	1	3	0	2	1	3	2	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	70930789	C	G	70930789	3	3	310	1	0	0	0	0	1	0	0	0	9375	594	21	4	857	4	MCCC2	5	70930789	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08		70930789	109984471	25	15610											
SFXN1	94081	hgsc.bcm.edu;ucsc.edu	37	chr5	174940584	174940584	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggattctcatggcagccCctggcatgggttagcaggac	8	8	13	12	0	1	0	1	0	1	0	2	2	1	2	3	5	2	4	3	5	1	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	174940584	C	T	174940584	3	4	310	1	0	0	0	0	1	0	0	0	14196	623	22	2	737	2	SFXN1	5	174940584	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	104009795	174940584	5974676	26	15611											
SYNCRIP	10492	broad.mit.edu;hgsc.bcm.edu	37	chr6	86324828	86324828	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgacctctggatggagcAgcaccccttgctcctctacc	7	8	8	18	1	2	0	0	0	2	0	3	3	3	2	6	2	4	3	6	2	1	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	86324828	A	G	86324828	2	3	310	1	0	0	0	0	0	0	0	1	15443	175	7	3		3	SYNCRIP	6	86324828	Silent	SNP	A	TCGA-BP-4993-01A-02D-1421-08		86324828	84790239	27	15612											
OPRM1	4988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	154412549	154412549	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaactccactcgaattcGtcagaacactagagaccacc	16	6	5	14	2	1	2	1	0	0	2	4	4	2	2	3	0	2	0	3	0	5	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	154412549	G	A	154412549	3	1	310	1	0	0	0	0	1	0	0	0	10887	1145	40	1	1450	1	OPRM1	6	154412549	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	68087721	154412549	16702518	28	15613											
SAMD9	54809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92731889	92731889	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatctttccttcacttcataCtctctatcttcactttgctg	7	19	2	13	0	6	0	3	0	3	0	8	0	7	0	1	0	2	1	1	0	3	7	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	92731889	C	T	92731889	2	4	310	1	0	0	0	0	0	0	0	1	13828	564	20	2		2	SAMD9	7	92731889	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08		92731889	66406774	29	15614											
CNGB3	54714	broad.mit.edu	37	chr8	87588236	87588236	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcttctggctctcttccTttatctttatcttcattttc	3	24	2	12	0	6	0	1	0	5	0	10	0	7	0	1	1	0	1	1	1	2	10	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	87588236	A	A	87588236	3	1	310	1	0	0	0	0	1	0	0	0	3601	1606	56	5	207	5	CNGB3	8	87588236	Missense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08		87588236	58775786	30	15615											
LYPD2	137797	broad.mit.edu;hgsc.bcm.edu	37	chr8	143832568	143832568	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgggctccggacagaCgtagcagcgcagggccggcg	6	5	17	13	5	0	1	0	0	0	1	2	2	2	2	3	4	2	4	3	4	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	143832568	C	G	143832568	3	3	310	1	0	0	0	0	1	0	0	0	9110	536	19	4	306	4	LYPD2	8	143832568	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	56244332	143832568	2531454	31	15616											
C8orf73	0	broad.mit.edu	37	chr8	144654816	144654816	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggattccttcagtcagTgctgtcagggttagagcccc	6	10	12	13	1	3	1	3	0	0	1	4	2	4	2	4	2	2	2	4	2	1	3	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	144654816	C	C	144654816	2	2	310	1	0	0	0	0	0	0	0	1	2435	1683	59	3		3	C8orf73	8	144654816	Silent	SNP	T	TCGA-BP-4993-01A-02D-1421-08	822248	144654816	1709206	32	15617											
AGTPBP1	23287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	88207597	88207597	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttgcccacctgcagcaaCtgaacttcttgagaaatgat	11	12	7	11	0	1	3	0	3	1	1	1	4	1	3	2	0	5	2	2	0	3	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	88207597	C	T	88207597	3	4	310	1	0	0	0	0	1	0	0	0	400	565	20	2	1266	2	AGTPBP1	9	88207597	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08		88207597	53005834	33	15618											
SYK	6850	broad.mit.edu;ucsc.edu	37	chr9	93624627	93624627	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agttcgacacgctctggcagGtacccagcctcctctcccca	7	8	8	18	2	2	0	0	0	2	0	5	1	3	0	5	2	2	4	5	2	1	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	93624627	A	A	93624627	5	1	310	1	0	0	0	0	0	0	1	0	15437	1275	44	2	728	2	SYK	9	93624627	Splice_Site	SNP	G	TCGA-BP-4993-01A-02D-1421-08	5417030	93624627	47588804	34	15619											
SMC2	10592	broad.mit.edu;hgsc.bcm.edu	37	chr9	106877025	106877025	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggacttgtggcttctcTgattagtgtgaaagacactt	11	13	11	6	0	1	3	0	2	1	1	2	5	1	4	0	2	0	1	0	2	3	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	106877025	T	C	106877025	3	2	310	1	0	0	0	0	1	0	0	0	14785	1580	55	3	1632	3	SMC2	9	106877025	Missense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08	13252398	106877025	34336406	35	15620											
FKTN	2218	hgsc.bcm.edu;ucsc.edu	37	chr9	108377609	108377609	+	Frame_Shift_Del	DEL	A	A	-																															gtggcctttcggaagagtgcAaaggaattactgcaactagc																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	108377609	A	-	108377609	7	5	310	1	0	1	0	1	0	0	0	0	5919	117	5	0	853	0	FKTN	9	108377609	Frame_Shift_Del	DEL	A	TCGA-BP-4993-01A-02D-1421-08	1500584	108377609	32835822	36	15621											
CAMK1D	57118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12595350	12595350	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatgagatagccgtcctGagaaagtaagtgctggaggg	13	7	16	5	1	0	3	0	2	0	3	1	7	1	4	2	2	2	2	2	2	4	2	rs56079552	alternate_allele	TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	12595350	G	T	12595350	2	4	310	1	0	0	0	0	0	0	0	1	2597	1277	45	4		4	CAMK1D	10	12595350	Silent	SNP	G	TCGA-BP-4993-01A-02D-1421-08		12595350	122939397	37	15622											
NOX4	50507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	89075257	89075257	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catacaacagggtgttgagtAttgatgcaaatggagttact	13	12	11	5	0	0	2	0	2	0	0	0	3	0	3	0	2	4	4	0	2	5	5	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	89075257	A	C	89075257	3	2	310	1	0	0	0	0	1	0	0	0	10558	449	16	5	434	5	NOX4	11	89075257	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08		89075257	45931259	38	15623											
HEPHL1	341208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	93797666	93797666	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgttttccagaggagtaaCaaaatgcatggtgagtacct	12	11	11	7	0	0	2	0	1	0	1	1	3	1	3	2	2	3	5	2	2	4	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	93797666	C	A	93797666	3	1	310	1	0	0	0	0	1	0	0	0	7055	477	17	4	812	4	HEPHL1	11	93797666	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	4722409	93797666	41208850	39	15624											
CD4	920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6923323	6923323	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggtccatccaagctgaAtgatcgcgctgactcaagaa	12	7	9	13	2	1	4	1	3	0	1	4	4	3	4	3	1	1	2	3	1	4	0	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	6923323	A	T	6923323	3	4	310	1	0	0	0	0	1	0	0	0	3014	101	4	5	240	5	CD4	12	6923323	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08		6923323	126928572	40	15625											
KLRC2	3822	hgsc.bcm.edu	37	chr12	10586422	10586422	+	Frame_Shift_Del	DEL	T	T	-																															attatctatagaaagcagacTggagttcttcgaagtacagg																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	10586422	T	-	10586422	7	5	310	1	0	1	0	1	0	0	0	0	8416	1580	55	0	256	0	KLRC2	12	10586422	Frame_Shift_Del	DEL	T	TCGA-BP-4993-01A-02D-1421-08	3663099	10586422	123265473	41	15626											
GPR19	2842	broad.mit.edu;ucsc.edu	37	chr12	12815272	12815272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttaattccatcaggtattgGcttggcagaggtgtggctgt	7	14	13	7	0	1	1	1	0	0	1	2	1	2	1	1	5	0	4	1	5	2	5	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	12815272	A	A	12815272	2	1	310	1	0	0	0	0	0	0	0	1	6679	1194	42	2		2	GPR19	12	12815272	Silent	SNP	G	TCGA-BP-4993-01A-02D-1421-08	2228850	12815272	121036623	42	15627											
CS	1431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56668847	56668847	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctgctgcaaaggacaggTaagggtcggaaagggcactg	11	6	17	7	1	0	0	0	0	0	0	1	2	0	2	0	6	2	5	0	6	3	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	56668847	T	A	56668847	3	1	310	1	0	0	0	0	1	0	0	0	3924	1638	57	5	559	5	CS	12	56668847	Missense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08	43853575	56668847	77183048	43	15628											
C12orf51	0	broad.mit.edu;hgsc.bcm.edu	37	chr12	112673071	112673071	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagaactgtctgacatcCtttaagcaaaaaacaaagct	19	8	6	8	0	1	3	0	1	1	2	2	3	2	3	1	0	4	2	1	0	7	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	112673071	C	A	112673071	5	1	310	1	0	0	0	0	0	0	1	0	1696	695	24	4	7691	4	C12orf51	12	112673071	Splice_Site	SNP	C	TCGA-BP-4993-01A-02D-1421-08	56004224	112673071	21178824	44	15629											
CIT	11113	broad.mit.edu	37	chr12	120151395	120151395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggcatattcagcaggCaagccgcaggtggctggcaa	9	8	15	9	1	1	0	1	0	0	0	1	0	1	0	1	5	2	6	1	5	3	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	120151395	A	A	120151395	3	1	310	1	0	0	0	0	1	0	0	0	3438	709	25	4	1904	4	CIT	12	120151395	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	7478324	120151395	13700500	45	15630											
ACOT2	10965	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74036025	74036025	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atggcctcatctcctgctgtCcttcgagcgtcccggctgta	4	12	10	15	3	2	0	1	0	1	0	6	1	4	0	4	2	2	3	4	2	1	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	74036025	C	G	74036025	2	3	310	1	0	0	0	0	0	0	0	1	152	842	30	4		4	ACOT2	14	74036025	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08		74036025	33313515	46	15631											
C14orf148	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77880341	77880341	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggatggggccaagctgcagCagtgtgccagccagctgctt	7	7	16	11	0	0	0	0	0	0	0	0	1	0	1	3	3	7	5	3	3	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	77880341	C	T	77880341	2	4	310	1	0	0	0	0	0	0	0	1	1751	697	25	2		2	C14orf148	14	77880341	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08	3844316	77880341	29469199	47	15632											
RYR3	6263	broad.mit.edu	37	chr15	34113725	34113725	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatcttcaccatggcaggTgagatgagccccatggtggt	9	9	13	10	1	2	2	1	2	1	1	2	4	2	2	3	4	1	1	3	4	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	34113725	G	G	34113725	2	3	310	1	0	0	0	0	0	0	0	1	13772	1710	59	5		5	RYR3	15	34113725	Silent	SNP	T	TCGA-BP-4993-01A-02D-1421-08		34113725	68417667	48	15633											
RPAP1	26015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41813028	41813028	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggtgtctgtgggagagagtCccgagggggtgtctgaagcc	6	9	19	7	1	2	2	0	1	2	1	3	5	3	3	2	4	1	0	2	4	1	0	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	41813028	C	T	41813028	3	4	310	1	0	0	0	0	1	0	0	0	13543	855	30	2	841	2	RPAP1	15	41813028	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	7699303	41813028	60718364	49	15634											
DUOXA1	90527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45412823	45412823	+	Missense_Mutation	SNP	C	C	A																															aggtgtagtgtcccgccaggCggtactggcggtataggcca																								rs147223934	byfrequency;alternate_allele	TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	45412823	C	A	45412823	3	1	310	1	0	0	0	0	1	0	0	0	4802	768	27	4	950	4	DUOXA1	15	45412823	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	3599795	45412823	57118569	50	15635	208	2									
DUOXA1	90527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45412824	45412824	+	Missense_Mutation	SNP	G	G	A																															ggtgtagtgtcccgccaggcGgtactggcggtataggccac																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	45412824	G	A	45412824	3	1	310	1	0	0	0	0	1	0	0	0	4802	1116	39	1	951	1	DUOXA1	15	45412824	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	1	45412824	57118568	51	15636	208	2									
CASKIN1	57524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2233883	2233883	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtagccggcgctgatgaaGttgggggcgtagagctgcag	7	8	18	8	4	0	3	0	2	0	1	1	3	0	3	1	3	3	6	1	3	3	3	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	2233883	G	A	2233883	2	1	310	1	0	0	0	0	0	0	0	1	2666	1020	36	2		2	CASKIN1	16	2233883	Silent	SNP	G	TCGA-BP-4993-01A-02D-1421-08		2233883	88120870	52	15637											
ARHGAP17	55114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24942263	24942263	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagcatgtggctgtgcaGtttcagggttaccccctgcc	5	12	11	13	0	1	0	1	0	0	0	2	0	2	0	4	2	4	5	4	2	1	3	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	24942263	G	T	24942263	3	4	310	1	0	0	0	0	1	0	0	0	867	1029	36	4	296	4	ARHGAP17	16	24942263	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	22708380	24942263	65412490	53	15638											
TOX3	27324	hgsc.bcm.edu	37	chr16	52478206	52478206	+	Silent	SNP	C	C	T																															accttagaaacgaggctggcCctgtatgccgccagggcctt																								rs3743796	bycluster;byfrequency;by1000genomes	TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	52478206	C	T	52478206	2	4	310	1	0	0	0	0	0	0	0	1	16378	622	22	2		2	TOX3	16	52478206	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08	27535943	52478206	37876547	54	15639	209	2									
TOX3	27324	hgsc.bcm.edu	37	chr16	52478215	52478215	+	Silent	SNP	C	C	T																															acgaggctggccctgtatgcCgccagggccttcaggtattc																								rs3743797	bycluster;byfrequency;by1000genomes	TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	52478215	C	T	52478215	2	4	310	1	0	0	0	0	0	0	0	1	16378	639	23	1		1	TOX3	16	52478215	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08	9	52478215	37876538	55	15640	209	2									
CHD9	80205	broad.mit.edu	37	chr16	53308192	53308192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggaaatgagtgtcagaaaGtatttgatggagttgatgca	13	13	13	2	0	1	4	1	3	0	1	1	6	1	6	0	2	1	3	0	2	3	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	G	G	G	G	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	53308192	A	A	53308192	3	1	310	1	0	0	0	0	1	0	0	0	3332	1029	36	2	5035	2	CHD9	16	53308192	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	829977	53308192	37046561	56	15641											
THAP11	57215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67877045	67877045	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagtgcaagtggagttTgcagccgcagagggcgcagc	9	6	15	11	2	1	1	1	0	0	1	1	2	1	2	1	2	4	5	1	2	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	67877045	T	C	67877045	2	2	310	1	0	0	0	0	0	0	0	1	15842	1809	63	3		3	THAP11	16	67877045	Silent	SNP	T	TCGA-BP-4993-01A-02D-1421-08	14568853	67877045	22477708	57	15642											
FXR2	9513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7508978	7508978	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacctccacttcatccccTtctgtgatctccttattata	7	17	2	15	0	3	1	1	1	2	0	6	1	5	1	5	0	1	0	5	0	4	6	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	7508978	T	C	7508978	2	2	310	1	0	0	0	0	0	0	0	1	6116	1606	56	3		3	FXR2	17	7508978	Silent	SNP	T	TCGA-BP-4993-01A-02D-1421-08		7508978	73686232	58	15643											
SLFN5	162394	broad.mit.edu;hgsc.bcm.edu	37	chr17	33585670	33585670	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctatctttctgtttttcagGagaacatttcaggataggaa	11	16	8	6	0	5	1	2	0	3	1	5	4	5	3	0	3	1	1	0	3	4	6	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	33585670	G	A	33585670	5	1	310	1	0	0	0	0	0	0	1	0	14739	1188	41	2		2	SLFN5	17	33585670	Splice_Site	SNP	G	TCGA-BP-4993-01A-02D-1421-08	26076692	33585670	47609540	59	15644											
LHX1	3975	broad.mit.edu	37	chr17	35299577	35299577	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcccggcgccacgccttcttCcgcagtccgcgccggatgcg	3	6	13	19	8	1	0	0	0	1	0	3	1	3	1	6	2	1	1	6	2	0	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	35299577	T	T	35299577	2	4	310	1	0	0	0	0	0	0	0	1	8770	854	30	2		2	LHX1	17	35299577	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08	1713907	35299577	45895633	60	15645											
ITGA3	3675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48148238	48148238	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgattcagcgcaaggagtGggacttatctgagtatagtt	11	12	12	6	1	2	2	1	2	1	0	2	4	2	4	0	2	1	3	0	2	4	5	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	48148238	G	T	48148238	3	4	310	1	0	0	0	0	1	0	0	0	7877	1357	47	4	713	4	ITGA3	17	48148238	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	12848661	48148238	33046972	61	15646											
MARCH10	162333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60802312	60802312	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctacctgatgttattttCactttcagccactttttcag	8	17	4	12	0	3	1	3	1	0	0	3	1	3	1	3	0	2	1	3	0	2	7	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	60802312	C	A	60802312	2	1	310	1	0	0	0	0	0	0	0	1	9299	813	29	4		4	MARCH10	17	60802312	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08	12654074	60802312	20392898	62	15647											
DDX5	1655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62496043	62496043	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatatacttctaaagtcttAttgggaatatcctgttggca	12	15	7	7	0	2	0	0	0	2	0	3	1	3	1	1	2	1	2	1	2	7	8	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	62496043	A	G	62496043	3	3	310	1	0	0	0	0	1	0	0	0	4367	462	16	3	5	3	DDX5	17	62496043	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08	1693731	62496043	18699167	63	15648											
RIOK3	8780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21059323	21059323	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaagcccttagtgaacgaGaactcttcaatgctgtttca	12	11	9	9	1	3	2	2	1	1	1	3	4	3	3	1	1	4	2	1	1	5	3	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	21059323	G	A	21059323	3	1	310	1	0	0	0	0	1	0	0	0	13381	943	33	2	1433	2	RIOK3	18	21059323	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08		21059323	57017925	64	15649											
ZNF532	55205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56587466	56587466	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtaacgtgcaaccattgTacaaagaacctcgtttttta	14	12	7	8	2	0	1	0	0	0	1	1	2	0	1	2	0	5	4	2	0	7	6	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	56587466	T	C	56587466	2	2	310	1	0	0	0	0	0	0	0	1	17971	1644	57	3		3	ZNF532	18	56587466	Silent	SNP	T	TCGA-BP-4993-01A-02D-1421-08	35528143	56587466	21489782	65	15650											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9076252	9076252	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcaagagtggacagagAatcaaacagaaaagtggaca	19	4	11	7	0	2	3	2	0	0	3	2	6	2	5	1	2	1	0	1	2	5	0	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	9076252	A	T	9076252	3	4	310	1	0	0	0	0	1	0	0	0	9973	246	9	5	32657	5	MUC16	19	9076252	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08		9076252	50052731	66	15651											
LRFN3	79414	broad.mit.edu	37	chr19	36435683	36435683	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggcgtcatcgtagcctCggtactggtcttcatcttcg	4	12	13	12	5	4	0	2	0	2	0	7	0	4	0	1	4	2	2	1	4	2	4	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	36435683	A	A	36435683	4	1	310	1	0	0	0	0	0	1	0	0	8939	893	31	4	1655	4	LRFN3	19	36435683	Nonsense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08	27359431	36435683	22693300	67	15652											
ZFP112	7771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44833609	44833609	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagtaatgataccttcatgAtatcttctccacagtcatgg	12	14	6	9	0	4	2	2	2	2	0	5	2	4	2	2	1	1	1	2	1	4	6	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		G	44833609	A	G	44833609	3	3	310	1	0	0	0	0	1	0	0	0	17637	333	12	3	2026	3	ZFP112	19	44833609	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08	8397926	44833609	14295374	68	15653											
CCDC8	83987	hgsc.bcm.edu	37	chr19	46914620	46914620	+	Frame_Shift_Del	DEL	G	G	-																															aaaaccacgaaaagcgtccaGgggtctggaacctcactgtc																								novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		-	46914620	G	-	46914620	7	5	310	1	0	1	0	1	0	0	0	0	2853	1000	35	0	172	0	CCDC8	19	46914620	Frame_Shift_Del	DEL	G	TCGA-BP-4993-01A-02D-1421-08	2081011	46914620	12214363	69	15654											
NLRP7	199713	broad.mit.edu;hgsc.bcm.edu	37	chr19	55450880	55450880	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctgcaccccgagccttTccaggtcctctcggtggaac	6	9	9	17	2	1	0	0	0	1	0	5	2	4	1	6	3	3	1	6	3	1	1	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	55450880	T	C	55450880	3	2	310	1	0	0	0	0	1	0	0	0	10482	1783	62	3	1838	3	NLRP7	19	55450880	Missense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08	8536260	55450880	3678103	70	15655											
PANK2	80025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3899360	3899360	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaaatttcttgagaattAatacgatcgccatgcggctt	11	14	9	7	3	1	1	0	1	1	1	2	4	1	2	1	2	2	1	1	2	4	6	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	3899360	A	C	3899360	3	2	310	1	0	0	0	0	1	0	0	0	11417	362	13	5	1601	5	PANK2	20	3899360	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08		3899360	59126160	71	15656											
SMOX	54498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	4164251	4164251	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctccagcggggcggatGtggagaagctggccaagccc	7	5	18	11	2	0	1	0	0	0	1	1	3	1	2	3	6	3	2	3	6	2	0	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	4164251	G	A	4164251	3	1	310	1	0	0	0	0	1	0	0	0	14805	1377	48	2	1498	2	SMOX	20	4164251	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	264891	4164251	58861269	72	15657											
PAK7	57144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	9520140	9520140	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtattgtctcatgagggggAcgatgcaagacggtggacct	9	10	15	7	2	1	2	1	1	1	1	2	5	1	4	1	4	1	2	1	4	2	2	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	9520140	A	T	9520140	3	4	310	1	0	0	0	0	1	0	0	0	11405	275	10	5	34	5	PAK7	20	9520140	Missense_Mutation	SNP	A	TCGA-BP-4993-01A-02D-1421-08	5355889	9520140	53505380	73	15658											
DEFB116	245930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	29891069	29891069	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaagttggagttagagtcGtaatcctccttcacattttt	10	15	8	8	1	1	1	1	0	0	1	4	3	3	2	2	1	0	3	2	1	3	6	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	29891069	G	A	29891069	2	1	310	1	0	0	0	0	0	0	0	1	4405	1140	40	1		1	DEFB116	20	29891069	Silent	SNP	G	TCGA-BP-4993-01A-02D-1421-08	20370929	29891069	33134451	74	15659											
MCM3AP	8888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47692476	47692476	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggatgtgaaaattcaccTtaggatgtctcccttgttga	9	16	9	7	0	2	2	1	2	1	0	3	4	2	4	2	2	0	1	2	2	3	5	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		A	47692476	T	A	47692476	4	1	310	1	0	0	0	0	0	1	0	0	9388	1623	56	5	3562	5	MCM3AP	21	47692476	Nonsense_Mutation	SNP	T	TCGA-BP-4993-01A-02D-1421-08		47692476	437419	75	15660											
MN1	4330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	28192794	28192794	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttggccttctcccagggCgccaacgtcttgtcgtcgtc	3	12	12	14	4	2	0	0	0	2	0	6	0	2	0	3	3	1	1	3	3	1	3	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	28192794	C	T	28192794	2	4	310	1	0	0	0	0	0	0	0	1	9673	755	27	1		1	MN1	22	28192794	Silent	SNP	C	TCGA-BP-4993-01A-02D-1421-08		28192794	23111772	76	15661											
MAP7D3	79649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135314179	135314179	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgcttgtgttgcagaataCttccacattcacctgggggg	8	12	11	10	0	1	1	1	0	0	1	2	1	2	1	2	3	3	3	2	3	2	5	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		T	135314179	C	T	135314179	3	4	310	1	0	0	0	0	1	0	0	0	9269	565	20	2	1737	2	MAP7D3	23	135314179	Missense_Mutation	SNP	C	TCGA-BP-4993-01A-02D-1421-08		135314179	19956381	77	15662											
MAGEC1	9947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	140993825	140993825	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctcctccactttattgaGtattttccagagttcccctg	6	17	5	13	0	1	2	0	1	1	1	5	2	4	2	5	0	0	2	5	0	2	8	novel		TCGA-BP-4993-01A-02D-1421-08	TCGA-BP-4993-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	34315bea-6ef2-42ec-b17e-c73eed40647f	e592ee8d-8949-4639-a397-3035c7ab07ad		C	140993825	G	C	140993825	3	2	310	1	0	0	0	0	1	0	0	0	9180	1029	36	4	641	4	MAGEC1	23	140993825	Missense_Mutation	SNP	G	TCGA-BP-4993-01A-02D-1421-08	5679646	140993825	14276735	78	15663											
LRP8	7804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53741419	53741419	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	actcgtccccacggcaggtgCccagtgctgccaggagaggg	7	5	15	14	2	0	1	0	0	0	1	2	2	1	1	4	4	3	2	4	4	0	0	rs149347479		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	53741419	C	T	53741419	3	4	311	1	0	0	0	0	1	0	0	0	8963	739	26	2	2057	2	LRP8	1	53741419	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		53741419	195509202	1	15664											
PTGFR	5737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78958841	78958841	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcggtgtattggagtcaCaaaaccaatatttcattcta	13	13	8	7	1	3	1	2	1	1	0	3	2	3	2	1	2	2	1	1	2	6	6	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		G	78958841	C	G	78958841	3	3	311	1	0	0	0	0	1	0	0	0	12751	478	17	4	415	4	PTGFR	1	78958841	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	25217422	78958841	170291780	2	15665											
UBE2Q1	55585	broad.mit.edu;ucsc.edu	37	chr1	154522941	154522941	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttcttttgggggtgtgtaCcagcctgcaaagaaatggaa	10	12	12	7	0	2	1	0	0	2	1	2	2	2	2	2	3	3	2	2	3	4	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	154522941	T	T	154522941	4	4	311	1	0	0	0	0	0	1	0	0	16868	508	18	2	30	2	UBE2Q1	1	154522941	Nonsense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	75564100	154522941	94727680	3	15666											
LY9	4063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160769615	160769615	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agggggttccgtgactctccCcctaaacatctcagtagaca	10	9	9	13	1	2	2	1	1	2	1	5	2	3	2	3	2	1	2	3	2	3	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		G	160769615	C	G	160769615	3	3	311	1	0	0	0	0	1	0	0	0	9101	623	22	4	203	4	LY9	1	160769615	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	6246674	160769615	88481006	4	15667											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201009799	201009799	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcattgccctctgggtcAgcagtcccttcagcatctcc	5	11	10	15	0	4	0	2	0	2	0	6	0	5	0	3	2	3	3	3	2	0	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	201009799	A	T	201009799	3	4	311	1	0	0	0	0	1	0	0	0	2547	188	7	5	456	5	CACNA1S	1	201009799	Missense_Mutation	SNP	A	TCGA-BP-4995-01A-01D-1462-08	40240184	201009799	48240822	5	15668											
CDC42BPA	8476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227227835	227227835	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctttgtgttcttaccttCacatgaacagccctgtctta	7	17	5	12	0	3	1	1	1	2	0	4	1	4	1	3	0	3	1	3	0	3	6	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	227227835	C	A	227227835	4	1	311	1	0	0	0	0	0	1	0	0	3072	835	29	4	2124	4	CDC42BPA	1	227227835	Nonsense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	26218036	227227835	22022786	6	15669											
ACTN2	88	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	236924371	236924371	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcccaacgggcaaggcacCgtcaccttccaatccttcat	10	8	7	16	2	2	0	2	0	0	0	5	1	5	0	5	2	1	2	5	2	3	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	236924371	C	A	236924371	2	1	311	1	0	0	0	0	0	0	0	1	205	639	23	4		4	ACTN2	1	236924371	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08	9696536	236924371	12326250	7	15670											
RSAD2	91543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	7023597	7023597	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttctgcaaagtagagttgCggctgcccagcgtgagcatc	8	9	14	10	2	1	2	0	1	1	1	2	2	1	2	1	2	5	6	1	2	2	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	7023597	C	T	7023597	3	4	311	1	0	0	0	0	1	0	0	0	13697	759	27	1	448	1	RSAD2	2	7023597	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		7023597	236175776	8	15671											
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128927889	128927889	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaactgaggccgaaggaaggGgagacatactttgatgttgt	13	9	14	5	1	0	3	0	2	0	1	0	6	0	4	1	4	2	1	1	4	4	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	128927889	G	T	128927889	2	4	311	1	0	0	0	0	0	0	0	1	16940	1219	43	4		4	UGGT1	2	128927889	Silent	SNP	G	TCGA-BP-4995-01A-01D-1462-08	121904292	128927889	114271484	9	15672											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179454614	179454614	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaattgaccagcctttcTggtttggtttgcgatattct	8	16	8	9	1	2	1	0	1	2	0	2	2	2	1	2	2	3	2	2	2	3	6	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	179454614	T	A	179454614	3	1	311	1	0	0	0	0	1	0	0	0	16734	1580	55	5	46377	5	TTN	2	179454614	Missense_Mutation	SNP	T	TCGA-BP-4995-01A-01D-1462-08	50526725	179454614	63744759	10	15673											
PIKFYVE	200576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	209169642	209169642	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagtgactcagccgcttCtatcagcctgaacgtggagc	9	8	12	12	2	3	2	2	2	1	0	3	4	3	4	2	2	4	1	2	2	2	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	209169642	C	A	209169642	3	1	311	1	0	0	0	0	1	0	0	0	11924	913	32	4	1583	4	PIKFYVE	2	209169642	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	29715028	209169642	34029731	11	15674											
VHL	7428	broad.mit.edu	37	chr3	10183734	10183734	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgcgctcggtgaactCgcgcgagccctcccaggtca	5	7	13	16	6	1	1	1	1	0	0	4	2	2	1	2	2	4	2	2	2	1	0	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	10183734	A	A	10183734	4	1	311	1	0	0	0	0	0	1	0	0	17161	893	31	4	205	4	VHL	3	10183734	Nonsense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		10183734	187838696	12	15675											
OXSM	54995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	25832713	25832713	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtttgggatcgtcttatcGgaggagagagtggaattgtt	8	14	16	3	2	1	1	0	0	1	1	3	6	1	5	0	5	0	2	0	5	2	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		C	25832713	G	C	25832713	3	2	311	1	0	0	0	0	1	0	0	0	11335	1117	39	4	204	4	OXSM	3	25832713	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	15648979	25832713	172189717	13	15676											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52620685	52620685	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcatctcggaagttttctGggcataacttaaagtattcc	10	14	7	10	1	3	0	1	0	2	0	5	1	4	1	2	2	1	3	2	2	5	6	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		C	52620685	G	C	52620685	3	2	311	1	0	0	0	0	1	0	0	0	11491	1348	47	4	1801	4	PBRM1	3	52620685	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	26787972	52620685	145401745	14	15677											
COL6A6	131873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130289957	130289957	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcttctcagaccacatgttCactgaagcccggggcagccg	8	7	12	14	2	2	2	2	1	1	1	3	2	2	2	3	3	2	3	3	3	1	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	130289957	C	T	130289957	2	4	311	1	0	0	0	0	0	0	0	1	3703	825	29	2		2	COL6A6	3	130289957	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08	77669272	130289957	67732473	15	15678											
NCEH1	57552	broad.mit.edu;hgsc.bcm.edu	37	chr3	172365895	172365895	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagtcccaggtagtggaTcaggttactctgcagggcga	8	9	14	10	1	3	0	2	0	1	0	4	2	4	1	1	4	2	4	1	4	2	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	172365895	T	A	172365895	3	1	311	1	0	0	0	0	1	0	0	0	10215	1435	50	5	1118	5	NCEH1	3	172365895	Missense_Mutation	SNP	T	TCGA-BP-4995-01A-01D-1462-08	42075938	172365895	25656535	16	15679											
TEC	100124696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48147523	48147523	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggctcgccatttgccaagCctcaccactccaaacagtcc	9	8	7	17	1	1	0	1	0	0	0	4	0	3	0	6	1	3	1	6	1	2	1	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	48147523	C	A	48147523	3	1	311	1	0	0	0	0	1	0	0	0	15741	738	26	4	764	4	TEC	4	48147523	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		48147523	143006753	17	15680											
ANK2	287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	114277953	114277953	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaagatgaatgaagatactCaggaagagccaggcaaatca	18	6	10	7	0	3	5	3	2	0	3	3	6	3	6	1	2	2	1	1	2	6	1	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	114277953	C	T	114277953	4	4	311	1	0	0	0	0	0	1	0	0	621	827	29	2	8394	2	ANK2	4	114277953	Nonsense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	66130430	114277953	76876323	18	15681											
TLR2	7097	hgsc.bcm.edu	37	chr4	154626180	154626188	+	In_Frame_Del	DEL	TGTGAAGAG	TGTGAAGAG	-																															tttgtgctttctgaaaacttTgtgaagagtgagtggtgcaa																								novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	TGTGAAGAG	TGTGAAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		-	154626188	TGTGAAGAG	-	154626180	7	5	311	1	0	1	0	1	0	0	0	0	15950	1809	63	0	2123	0	TLR2	4	154626180	In_Frame_Del	DEL	TGTGAAGAG	TCGA-BP-4995-01A-01D-1462-08	40348227	154626180	36528096	19	15682											
DCHS2	54798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	155253991	155253991	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtctacgctgggttccagCgagtacctaagaggcgaggc	9	7	15	10	3	1	1	0	0	1	1	2	4	2	1	2	3	3	3	2	3	3	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	155253991	C	T	155253991	2	4	311	1	0	0	0	0	0	0	0	1	4288	755	27	1		1	DCHS2	4	155253991	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08	627811	155253991	35900285	20	15683											
PCDHA5	56143	hgsc.bcm.edu	37	chr5	140202821	140202821	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggacgcgcaggagaacgcCctggtgtcctactcgctggt	6	7	15	13	5	0	1	0	0	0	1	2	3	1	2	2	4	2	2	2	4	2	1	rs80008076	bycluster;byfrequency;by1000genomes	TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		G	140202821	C	G	140202821	2	3	311	1	0	0	0	0	0	0	0	1	11527	610	22	4		4	PCDHA5	5	140202821	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08		140202821	40712439	21	15684											
PCDHB7	56129	broad.mit.edu;hgsc.bcm.edu	37	chr5	140553991	140553991	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggactacgaggccctgcaGgcgttcgagttccgcgtggg	5	8	16	12	5	0	0	0	0	0	0	2	3	1	1	2	4	2	3	2	4	1	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	140553991	G	A	140553991	2	1	311	1	0	0	0	0	0	0	0	1	11547	991	35	2		2	PCDHB7	5	140553991	Silent	SNP	G	TCGA-BP-4995-01A-01D-1462-08	351170	140553991	40361269	22	15685											
GRK6	2870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176860405	176860405	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgggcaaaggtggcttTggggaggtgagtggccaggc	6	8	20	7	0	0	1	0	1	0	0	1	2	1	2	2	8	0	2	2	8	1	1	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	176860405	T	A	176860405	3	1	311	1	0	0	0	0	1	0	0	0	6793	1809	63	5	617	5	GRK6	5	176860405	Missense_Mutation	SNP	T	TCGA-BP-4995-01A-01D-1462-08	36306414	176860405	4054855	23	15686											
RREB1	6239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7231266	7231266	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagcacccggcccttcTcttcctgtaactttggggcc	4	11	9	17	1	1	0	0	0	1	0	3	0	2	0	5	3	3	2	5	3	1	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	7231266	T	A	7231266	2	1	311	1	0	0	0	0	0	0	0	1	13681	1538	54	5		5	RREB1	6	7231266	Silent	SNP	T	TCGA-BP-4995-01A-01D-1462-08		7231266	163883801	24	15687											
CYP3A7	1551	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99313483	99313483	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagagtcgatgctcactcCaaatgatgtgctagtgatca	12	10	11	8	1	2	3	2	2	0	1	4	6	3	3	1	0	2	2	1	0	2	1	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	99313483	C	A	99313483	4	1	311	1	0	0	0	0	0	1	0	0	4181	603	21	4	971	4	CYP3A7	7	99313483	Nonsense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		99313483	59825180	25	15688											
SPAM1	6677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123593857	123593857	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttctctttcataggaaGcccccgaataaacgccaccg	10	9	6	16	3	3	0	1	0	2	0	4	2	3	1	5	1	2	0	5	1	5	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	123593857	G	A	123593857	3	1	311	1	0	0	0	0	1	0	0	0	14988	971	34	2	235	2	SPAM1	7	123593857	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	24280374	123593857	35544806	26	15689											
C8orf42	157695	broad.mit.edu	37	chr8	442623	442623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtcttcaagagcaagttttgGaggctcccaaccttcaattt	10	13	8	10	0	3	1	2	0	1	1	4	2	4	2	2	2	2	3	2	2	4	5	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	442623	A	A	442623	3	1	311	1	0	0	0	0	1	0	0	0	2428	1174	41	2	227	2	C8orf42	8	442623	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08		442623	145921399	27	15690											
SLC7A2	6542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17412117	17412117	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtaatctatgctatggcGgaggatgggttgcttttcaa	8	14	13	6	2	2	0	1	0	1	0	2	2	2	2	0	4	2	4	0	4	4	6	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	17412117	G	A	17412117	2	1	311	1	0	0	0	0	0	0	0	1	14699	1103	39	1		1	SLC7A2	8	17412117	Silent	SNP	G	TCGA-BP-4995-01A-01D-1462-08	16969494	17412117	128951905	28	15691											
CHMP7	91782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	23118090	23118090	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctccaaaaaggcaattggAaccgactctaaagccattgt	15	9	7	10	1	2	0	0	0	2	0	3	2	2	1	3	2	2	1	3	2	6	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		C	23118090	A	C	23118090	3	2	311	1	0	0	0	0	1	0	0	0	3361	246	9	5	1378	5	CHMP7	8	23118090	Missense_Mutation	SNP	A	TCGA-BP-4995-01A-01D-1462-08	5705973	23118090	123245932	29	15692											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113212507	113212507	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttaagcatgggtttgacTggcattcattgacttctgtt	8	18	9	6	0	2	2	1	2	1	0	2	2	2	2	0	2	1	4	0	2	2	8	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		C	113212507	T	C	113212507	3	2	311	1	0	0	0	0	1	0	0	0	15419	1580	55	3	6880	3	SVEP1	9	113212507	Missense_Mutation	SNP	T	TCGA-BP-4995-01A-01D-1462-08		113212507	28000924	30	15693											
ZNF438	220929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	31134199	31134199	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaggtggagctgccttttCagtcttggacatgcatgtga	8	13	13	7	0	2	2	1	2	1	0	2	4	2	4	1	3	3	2	1	3	1	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	31134199	C	T	31134199	2	4	311	1	0	0	0	0	0	0	0	1	17909	813	29	2		2	ZNF438	10	31134199	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08		31134199	104400548	31	15694											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61815520	61815520	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatactgacaggcacacAgggtttagtctcttctatta	10	15	7	9	0	3	1	1	1	2	0	4	1	3	1	0	2	1	2	0	2	4	7	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	61815520	A	T	61815520	3	4	311	1	0	0	0	0	1	0	0	0	622	188	7	5	180	5	ANK3	10	61815520	Missense_Mutation	SNP	A	TCGA-BP-4995-01A-01D-1462-08	30681321	61815520	73719227	32	15695											
DLG5	9231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	79553777	79553777	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacctacctgtgaagtacCtgctgtactcctgctcaagc	9	10	7	15	0	1	1	1	1	0	0	2	1	2	1	4	0	6	4	4	0	5	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		G	79553777	C	G	79553777	3	3	311	1	0	0	0	0	1	0	0	0	4558	681	24	4	122	4	DLG5	10	79553777	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08	17738257	79553777	55980970	33	15696											
FANCF	2188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22646844	22646844	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctcctgcagacgctcCagcagcagctccgcctgggt	6	6	10	19	2	0	1	0	0	0	1	3	1	3	1	6	1	4	5	6	1	0	0	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	22646844	C	T	22646844	2	4	311	1	0	0	0	0	0	0	0	1	5667	581	21	2		2	FANCF	11	22646844	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08		22646844	112359672	34	15697											
CHRM4	1132	broad.mit.edu	37	chr11	46407571	46407571	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcactggttgtcgggcacCgtccgcttacccaccacaaa	10	7	9	15	3	0	0	0	0	0	0	2	0	1	0	4	2	2	4	4	2	3	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	46407571	A	A	46407571	2	1	311	1	0	0	0	0	0	0	0	1	3379	639	23	4		4	CHRM4	11	46407571	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08	23760727	46407571	88598945	35	15698											
MTA2	9219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62366080	62366080	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcgctgctgctcagacacCcctggctgctttgattcctc	4	12	10	15	1	1	2	1	1	0	1	3	2	2	2	3	2	3	5	3	2	0	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		G	62366080	C	G	62366080	2	3	311	1	0	0	0	0	0	0	0	1	9909	610	22	4		4	MTA2	11	62366080	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08	15958509	62366080	72640436	36	15699											
TPCN2	219931	broad.mit.edu	37	chr11	68853399	68853399	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcggcgctactcaggcccGtgagtcctcgtctccctgac	5	10	10	16	4	2	2	1	2	1	0	6	2	3	2	3	2	1	1	3	2	2	2	rs145113932		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	68853399	A	A	68853399	5	1	311	1	0	0	0	0	0	0	1	0	16395	1159	40	1	2090	1	TPCN2	11	68853399	Splice_Site	SNP	G	TCGA-BP-4995-01A-01D-1462-08	6487319	68853399	66153117	37	15700											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92087535	92087535	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagattaaagcctatgatGccgactctggcttcaatgga	12	11	10	8	1	2	3	1	2	1	1	2	5	2	4	2	2	2	1	2	2	5	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	92087535	G	A	92087535	3	1	311	1	0	0	0	0	1	0	0	0	5691	1319	46	2	2259	2	FAT3	11	92087535	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	23234136	92087535	42918981	38	15701											
VEZT	55591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	95694240	95694240	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagtggtctgaccactgccCctccaactcccagggactca	9	7	9	16	0	2	1	1	1	1	0	4	3	4	2	5	2	2	0	5	2	2	0	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	95694240	C	T	95694240	3	4	311	1	0	0	0	0	1	0	0	0	17155	623	22	2	2177	2	VEZT	12	95694240	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		95694240	38157655	39	15702											
KIAA0564	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42440166	42440166	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaatagcctggtcccggCtggcacctataattaaagag	12	10	9	10	1	0	1	0	0	0	1	1	1	1	1	3	3	1	2	3	3	6	5	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	42440166	C	T	42440166	3	4	311	1	0	0	0	0	1	0	0	0	8185	797	28	2	4642	2	KIAA0564	13	42440166	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		42440166	72729712	40	15703											
SLC8A3	6547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	70634851	70634851	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatagatgccatgaagcGgtcagcaatgatggacaccc	13	8	10	10	1	2	3	2	2	0	1	2	4	2	4	2	2	3	1	2	2	4	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	70634851	G	A	70634851	3	1	311	1	0	0	0	0	1	0	0	0	14710	1116	39	1	2633	1	SLC8A3	14	70634851	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08		70634851	36714689	41	15704											
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105418040	105418040	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcttcaaactaggcatctGcaccttgggcaggtgccctt	8	11	9	13	0	3	0	1	0	2	0	3	0	3	0	2	3	3	3	2	3	2	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	105418040	G	A	105418040	4	1	311	1	0	0	0	0	0	1	0	0	415	1328	46	2	13643	2	AHNAK2	14	105418040	Nonsense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	34783189	105418040	1931500	42	15705											
RAD51	5888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41011016	41011016	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctatagcttcccattgaccGgggtggaggtgaaggaaagg	10	9	15	7	1	1	2	0	2	1	0	2	4	2	4	2	6	1	1	2	6	4	4	rs121917739	bycluster;byfrequency;by1000genomes	TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	41011016	G	A	41011016	3	1	311	1	0	0	0	0	1	0	0	0	12987	1116	39	1	592	1	RAD51	15	41011016	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08		41011016	61520376	43	15706											
PLA2G4D	283748	broad.mit.edu	37	chr15	42363002	42363002	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggagggagagctggtgttGatgaagtaggcggcgtccac	9	8	18	6	2	0	3	0	2	0	1	1	5	1	4	1	5	1	3	1	5	2	2	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	42363002	A	A	42363002	2	1	311	1	0	0	0	0	0	0	0	1	12004	1280	45	2		2	PLA2G4D	15	42363002	Silent	SNP	G	TCGA-BP-4995-01A-01D-1462-08	1351986	42363002	60168390	44	15707											
MAP1A	4130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43821933	43821933	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgcagtggcaagactgcTgaccttgacttcttccgtcg	7	12	10	12	2	1	3	0	2	1	1	3	3	2	3	2	1	2	3	2	1	1	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	43821933	T	A	43821933	2	1	311	1	0	0	0	0	0	0	0	1	9227	1567	55	5		5	MAP1A	15	43821933	Silent	SNP	T	TCGA-BP-4995-01A-01D-1462-08	1458931	43821933	58709459	45	15708											
NMRAL1	57407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4519369	4519369	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcaccttgcagcctcagCtcctttgctgccttcttcct	3	15	6	17	0	3	0	1	0	2	0	5	0	5	0	5	0	6	4	5	0	0	4	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	4519369	C	T	4519369	2	4	311	1	0	0	0	0	0	0	0	1	10501	796	28	2		2	NMRAL1	16	4519369	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08		4519369	85835384	46	15709											
ABCC1	4363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	16108476	16108476	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccaaaattatgacagcCttaaaagaggtaagtggcag	17	8	10	6	0	0	3	0	1	0	2	1	3	1	3	2	2	1	2	2	2	6	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	16108476	C	T	16108476	2	4	311	1	0	0	0	0	0	0	0	1	49	668	24	2		2	ABCC1	16	16108476	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08	11589107	16108476	74246277	47	15710											
GALNS	2588	broad.mit.edu	37	chr16	88893182	88893182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgtcgctgggcggcGtcaggcccgcaagggccagg	4	5	18	14	4	1	0	1	0	0	0	2	0	1	0	3	6	0	2	3	6	1	0	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	88893182	A	A	88893182	3	1	311	1	0	0	0	0	1	0	0	0	6206	1145	40	1	521	1	GALNS	16	88893182	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	72784706	88893182	1461571	48	15711											
DDX5	1655	hgsc.bcm.edu	37	chr17	62500099	62500102	+	Frame_Shift_Del	DEL	ACAG	ACAG	-																															tcaagagttctcccaaacttAcagacaatgttttcccagat																								novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	ACAG	ACAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		-	62500102	ACAG	-	62500099	7	5	311	1	0	1	0	1	0	0	0	0	4367	405	14	0	1441	0	DDX5	17	62500099	Frame_Shift_Del	DEL	ACAG	TCGA-BP-4995-01A-01D-1462-08		62500099	18695111	49	15712											
ZNF521	25925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	22804557	22804557	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattcgtgccgggagggaCgttaatgcctgggctggcgc	5	10	16	10	4	1	0	0	0	1	0	2	2	1	2	2	4	2	2	2	4	2	3	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	22804557	C	T	22804557	3	4	311	1	0	0	0	0	1	0	0	0	17964	536	19	1	630	1	ZNF521	18	22804557	Missense_Mutation	SNP	C	TCGA-BP-4995-01A-01D-1462-08		22804557	55272691	50	15713											
CDH20	28316	broad.mit.edu;hgsc.bcm.edu	37	chr18	59221899	59221899	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctggccgagctctacgggGcgtcggagggacccgcgccg	5	4	18	14	7	1	0	0	0	1	0	2	3	1	2	3	5	3	2	3	5	1	1	novel		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		A	59221899	G	A	59221899	3	1	311	1	0	0	0	0	1	0	0	0	3106	1203	42	2	2419	2	CDH20	18	59221899	Missense_Mutation	SNP	G	TCGA-BP-4995-01A-01D-1462-08	36417342	59221899	18855349	51	15714											
PRMT1	3276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50185319	50185319	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggggcccgcaaggtcatCggggtgagtctccagggtgg	5	6	19	11	3	2	1	1	1	1	0	4	1	2	1	3	7	0	1	3	7	1	0	rs143554083		TCGA-BP-4995-01A-01D-1462-08	TCGA-BP-4995-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	93b9afac-e12e-49d2-96ac-274da6581d76	7e603e4c-0053-49f2-b4f3-07daa946fd34		T	50185319	C	T	50185319	2	4	311	1	0	0	0	0	0	0	0	1	12537	874	31	1		1	PRMT1	19	50185319	Silent	SNP	C	TCGA-BP-4995-01A-01D-1462-08		50185319	8943664	52	15715											
CTRC	11330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	15771156	15771156	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcccgtggtggatcaCgccacgtgctccaggattga	7	8	13	13	3	1	1	1	1	0	0	2	3	2	3	3	3	3	2	3	3	0	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	15771156	C	T	15771156	2	4	312	1	0	0	0	0	0	0	0	1	4027	535	19	1		1	CTRC	1	15771156	Silent	SNP	C	TCGA-BP-4998-01A-01D-1462-08		15771156	233479465	1	15716											
IRF2BP2	359948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234743247	234743247	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctctggggcccagccttCtttggttcatagaggacgga	6	11	12	12	1	3	1	1	0	2	1	4	3	3	3	3	5	1	1	3	5	1	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	234743247	C	A	234743247	3	1	312	1	0	0	0	0	1	0	0	0	7830	913	32	4	367	4	IRF2BP2	1	234743247	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08	218972091	234743247	14507374	2	15717											
SNX17	9784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27598749	27598749	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcacgagcagcccaggcCggggccggggtgaggtgcgc	7	2	20	12	4	0	1	0	1	0	0	0	3	0	1	3	6	4	2	3	6	1	0	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	27598749	C	T	27598749	3	4	312	1	0	0	0	0	1	0	0	0	14890	643	23	1	1057	1	SNX17	2	27598749	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08		27598749	215600624	3	15718											
NPHP1	4867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	110919218	110919218	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacatcagatctctgaaggCcagttgtgaaggcatgagct	11	9	11	10	0	2	4	1	3	1	1	3	4	2	4	2	2	1	3	2	2	2	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	110919218	C	T	110919218	3	4	312	1	0	0	0	0	1	0	0	0	10579	739	26	2	1161	2	NPHP1	2	110919218	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08	83320469	110919218	132280155	4	15719											
SLC4A10	57282	broad.mit.edu;hgsc.bcm.edu	37	chr2	162730485	162730485	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatgaaacaaaggcatgaAaaaggacctccacaccagca	18	3	10	10	0	0	2	0	2	0	0	1	4	1	4	3	3	2	2	3	3	4	0	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		C	162730485	A	C	162730485	3	2	312	1	0	0	0	0	1	0	0	0	14653	11	1	5	1033	5	SLC4A10	2	162730485	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	51811267	162730485	80468888	5	15720											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179598118	179598118	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattttttactggcgaccAagggtctcccatctttgtac	7	15	9	10	1	2	0	0	0	2	0	3	1	2	0	2	3	2	2	2	3	4	6	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	179598118	A	T	179598118	4	4	312	1	0	0	0	0	0	1	0	0	16734	131	5	5	88863	5	TTN	2	179598118	Nonsense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	16867633	179598118	63601255	6	15721											
WNT10A	80326	hgsc.bcm.edu	37	chr2	219746998	219746998	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagatggaggtgtgtgtgCgtcaccctgatgtggctgcc	5	10	17	9	1	1	2	1	1	0	1	1	3	1	3	2	4	2	2	2	4	0	0	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	219746998	C	T	219746998	3	4	312	1	0	0	0	0	1	0	0	0	17381	768	27	1	235	1	WNT10A	2	219746998	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08	40148880	219746998	23452375	7	15722											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188315	10188315	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttttgccaatatcacacTgccaggtactgacgttttac	10	15	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	4	2	2	1	5	7	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		C	10188315	T	C	10188315	3	2	312	1	0	0	0	0	1	0	0	0	17161	1580	55	3	464	3	VHL	3	10188315	Missense_Mutation	SNP	T	TCGA-BP-4998-01A-01D-1462-08		10188315	187834115	8	15723											
NBEAL2	23218	broad.mit.edu	37	chr3	47043759	47043759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgccacacccgaatggcGccacttcatcgacaaacagg	11	7	9	14	3	1	0	1	0	0	0	2	2	1	0	3	2	2	0	3	2	2	2	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	47043759	A	A	47043759	3	1	312	1	0	0	0	0	1	0	0	0	10189	1087	38	1	5254	1	NBEAL2	3	47043759	Missense_Mutation	SNP	G	TCGA-BP-4998-01A-01D-1462-08	36855444	47043759	150978671	9	15724											
ALAS1	211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52236547	52236547	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaactgctaaggccaaggTccaacagactcctgatggat	14	7	9	11	0	0	2	0	1	0	1	2	3	2	3	3	3	3	1	3	3	5	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		C	52236547	T	C	52236547	3	2	312	1	0	0	0	0	1	0	0	0	484	1667	58	3	230	3	ALAS1	3	52236547	Missense_Mutation	SNP	T	TCGA-BP-4998-01A-01D-1462-08	5192788	52236547	145785883	10	15725											
KNG1	3827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186459690	186459690	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taagcataagcatggtcatgGccacggaaaacataaaaata	19	7	8	7	1	1	0	1	0	0	0	1	1	1	1	1	3	3	2	1	3	8	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	186459690	G	A	186459690	3	1	312	1	0	0	0	0	1	0	0	0	8427	1203	42	2	1543	2	KNG1	3	186459690	Missense_Mutation	SNP	G	TCGA-BP-4998-01A-01D-1462-08	134223143	186459690	11562740	11	15726											
PECI	0	broad.mit.edu;hgsc.bcm.edu	37	chr6	4125471	4125471	+	RNA	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgacctcttgctttctaGgagctgacttaccctgtcag	6	13	9	13	0	3	2	1	2	2	0	3	3	3	3	3	1	3	2	3	1	2	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	4125471	G	T	4125471	1	4	312	0	1	0	0	0	0	0	0	0	11716	1015	35	4		4	PECI	6	4125471	RNA	SNP	G	TCGA-BP-4998-01A-01D-1462-08		4125471	166989596	12	15727											
RREB1	6239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7230362	7230362	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccagtgcaacatctgcgActacatcgccgccgacaagg	12	6	9	14	4	1	0	0	0	1	0	2	2	1	0	3	1	5	1	3	1	4	2	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	7230362	A	T	7230362	3	4	312	1	0	0	0	0	1	0	0	0	13681	275	10	5	2056	5	RREB1	6	7230362	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	3104891	7230362	163884705	13	15728											
C6orf62	81688	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24714642	24714642	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggccaaagaatgaaatcCatctcctgagtacagccaat	15	7	8	11	1	1	3	0	2	1	1	3	4	2	3	4	1	2	1	4	1	5	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	24714642	C	T	24714642	3	4	312	1	0	0	0	0	1	0	0	0	2368	594	21	2	368	2	C6orf62	6	24714642	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08	17484280	24714642	146400425	14	15729											
TDRD6	221400	broad.mit.edu;ucsc.edu	37	chr6	46657418	46657418	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccttcagtaagctgatgaGgagaatgtgtggtttctatt	10	14	11	6	0	2	3	1	2	1	1	2	4	2	3	1	2	1	3	1	2	3	5	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	46657418	T	T	46657418	3	4	312	1	0	0	0	0	1	0	0	0	15733	1000	35	4	1555	4	TDRD6	6	46657418	Missense_Mutation	SNP	G	TCGA-BP-4998-01A-01D-1462-08	21942776	46657418	124457649	15	15730											
PHF3	23469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	64416765	64416765	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccccagaatacctgacagAggtactgtgaacttttctgc	10	11	8	12	0	1	4	0	2	1	2	2	4	2	4	3	1	4	1	3	1	4	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		G	64416765	A	G	64416765	3	3	312	1	0	0	0	0	1	0	0	0	11836	318	11	3	3756	3	PHF3	6	64416765	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	17759347	64416765	106698302	16	15731											
LRP11	84918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150174138	150174138	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcagtgacaacatgcgttaCcttcatgtccactgacgggt	10	10	10	11	2	1	2	1	2	0	0	2	2	2	2	2	1	4	2	2	1	2	2	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	150174138	C	A	150174138	5	1	312	1	0	0	0	0	0	0	1	0	8953	521	18	4	754	4	LRP11	6	150174138	Splice_Site	SNP	C	TCGA-BP-4998-01A-01D-1462-08	85757373	150174138	20940929	17	15732											
PPP1R3A	5506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	113559039	113559039	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaatctgactaggtacttCagaaggctccattgggctct	9	12	10	10	0	3	2	1	1	2	1	4	2	4	2	1	3	1	4	1	3	4	5	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	113559039	C	A	113559039	4	1	312	1	0	0	0	0	0	1	0	0	12373	835	29	4	3371	4	PPP1R3A	7	113559039	Nonsense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08		113559039	45579624	18	15733											
PARP12	64761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	139724549	139724549	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgttgctccagccctccttGgccggcggacggacaaagga	7	6	14	14	4	0	0	0	0	0	0	2	3	2	3	4	5	2	2	4	5	1	2	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		C	139724549	G	C	139724549	2	2	312	1	0	0	0	0	0	0	0	1	11457	1335	47	4		4	PARP12	7	139724549	Silent	SNP	G	TCGA-BP-4998-01A-01D-1462-08	26165510	139724549	19414114	19	15734											
NKAIN3	286183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	63492147	63492147	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttggtttccagtgggCgcctattcttggaaattttc	5	17	9	10	1	1	0	0	0	1	0	4	1	3	1	3	3	0	1	3	3	2	8	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		G	63492147	C	G	63492147	3	3	312	1	0	0	0	0	1	0	0	0	10437	768	27	4	110	4	NKAIN3	8	63492147	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08		63492147	82871875	20	15735											
ABL1	25	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133760875	133760875	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaaaaacctctacacgttCtgcgtgagctatgtggattc	10	11	10	10	2	2	1	0	1	2	0	3	2	2	2	1	2	4	3	1	2	4	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	133760875	C	T	133760875	2	4	312	1	0	0	0	0	0	0	0	1	92	912	32	2		2	ABL1	9	133760875	Silent	SNP	C	TCGA-BP-4998-01A-01D-1462-08		133760875	7452556	21	15736											
ANO9	338440	broad.mit.edu;ucsc.edu	37	chr11	430378	430378	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccagccagacgaagtacaGggccaccttttccccaaagt	11	6	9	15	1	0	1	0	0	0	1	1	2	1	1	6	1	2	1	6	1	3	3	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	430378	T	T	430378	3	4	312	1	0	0	0	0	1	0	0	0	704	991	35	4	1847	4	ANO9	11	430378	Missense_Mutation	SNP	G	TCGA-BP-4998-01A-01D-1462-08		430378	134576138	22	15737											
OSBP	5007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	59361486	59361486	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgaggttcctttacctgTtcacagagggatcggtaccc	7	13	10	11	1	2	2	1	1	1	1	4	3	3	3	3	3	2	3	3	3	2	6	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		G	59361486	T	G	59361486	3	3	312	1	0	0	0	0	1	0	0	0	11273	1722	60	5	897	5	OSBP	11	59361486	Missense_Mutation	SNP	T	TCGA-BP-4998-01A-01D-1462-08	58931108	59361486	75645030	23	15738											
CASC1	55259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	25264775	25264775	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagtccagcttctttcaaAgcaataatgaaaggaatagg	15	11	8	7	0	3	1	2	1	1	0	4	2	4	2	1	2	2	2	1	2	6	5	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	25264775	A	T	25264775	2	4	312	1	0	0	0	0	0	0	0	1	2660	59	3	5		5	CASC1	12	25264775	Silent	SNP	A	TCGA-BP-4998-01A-01D-1462-08		25264775	108587120	24	15739											
RPLP0	6175	broad.mit.edu;hgsc.bcm.edu	37	chr12	120636946	120636946	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagcaacatgtccctgAtctcagtgaggtcctccttg	7	11	10	13	0	1	2	1	2	1	0	5	2	4	2	4	2	2	1	4	2	1	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		C	120636946	A	C	120636946	3	2	312	1	0	0	0	0	1	0	0	0	13606	333	12	5	680	5	RPLP0	12	120636946	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	95372171	120636946	13214949	25	15740											
CENPJ	55835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25466970	25466970	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtttcctttcttttcaaAtcttcccgtaaatctgctat	7	20	4	10	1	4	0	1	0	3	0	6	0	6	0	2	1	1	3	2	1	4	8	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	25466970	A	T	25466970	3	4	312	1	0	0	0	0	1	0	0	0	3234	98	4	5	1021	5	CENPJ	13	25466970	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08		25466970	89702908	26	15741											
SLC12A6	9990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34544539	34544539	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccttggtcttagagcaaaCgtcaatgtgtcttgatgaaa	11	14	9	7	1	3	3	1	2	2	1	4	3	4	3	1	1	2	1	1	1	4	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	34544539	C	T	34544539	3	4	312	1	0	0	0	0	1	0	0	0	14389	536	19	1	2355	1	SLC12A6	15	34544539	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08		34544539	67986853	27	15742											
EID1	23741	broad.mit.edu	37	chr15	49170496	49170496	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcgggagccgggagctatcCctgcgtccctcccgcagcgg	5	5	15	16	5	0	0	0	0	0	0	3	2	3	2	4	3	5	2	4	3	1	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	49170496	A	A	49170496	2	1	312	1	0	0	0	0	0	0	0	1	4986	610	22	4		4	EID1	15	49170496	Silent	SNP	C	TCGA-BP-4998-01A-01D-1462-08	14625957	49170496	53360896	28	15743											
SRRM2	23524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2817282	2817282	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggacacctgccattccAacagcagtgaacctggctga	11	6	10	14	0	0	2	0	2	0	0	1	3	1	3	5	2	4	2	5	2	2	1	rs111703345	alternate_allele	TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	2817282	A	T	2817282	2	4	312	1	0	0	0	0	0	0	0	1	15170	117	5	5		5	SRRM2	16	2817282	Silent	SNP	A	TCGA-BP-4998-01A-01D-1462-08		2817282	87537471	29	15744											
BRCA1	672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41197795	41197795	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccactctcgggtcaccacaGgtgcctcacacatctgccca	8	7	7	19	1	4	0	2	0	2	0	5	0	4	0	4	2	2	0	4	2	0	0	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	41197795	G	A	41197795	3	1	312	1	0	0	0	0	1	0	0	0	1498	1000	35	2	103	2	BRCA1	17	41197795	Missense_Mutation	SNP	G	TCGA-BP-4998-01A-01D-1462-08		41197795	39997415	30	15745											
AZI1	22994	broad.mit.edu;ucsc.edu	37	chr17	79180636	79180636	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcactggaactccgggcAttggatggcaaggtgaagcc	10	6	16	9	1	0	1	0	1	0	0	1	3	1	3	2	6	2	3	2	6	3	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	79180636	T	T	79180636	3	4	312	1	0	0	0	0	1	0	0	0	1240	214	8	5	2907	5	AZI1	17	79180636	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	37982841	79180636	2014574	31	15746											
C3	718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6681963	6681963	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccttaccttgtccaggtAgatgatgagggtgttcctat	8	13	11	9	0	0	3	0	2	0	1	2	3	2	3	4	2	2	2	4	2	3	5	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		G	6681963	A	G	6681963	3	3	312	1	0	0	0	0	1	0	0	0	2204	420	15	3	680	3	C3	19	6681963	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08		6681963	52447020	32	15747											
PGPEP1	54858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18466813	18466813	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccctgtgggagaagcacAgtccacaggtgagtggtgcc	8	6	15	12	1	0	2	0	1	0	1	1	3	1	2	4	3	2	1	4	3	1	0	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		G	18466813	A	G	18466813	3	3	312	1	0	0	0	0	1	0	0	0	11803	188	7	3	206	3	PGPEP1	19	18466813	Missense_Mutation	SNP	A	TCGA-BP-4998-01A-01D-1462-08	11784850	18466813	40662170	33	15748											
SNX5	27131	broad.mit.edu;ucsc.edu	37	chr20	17930825	17930825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggctatgtaagcaggctgCggtgtggatatagtcatcgg	9	10	15	7	2	1	0	1	0	0	0	2	1	1	1	0	5	2	4	0	5	4	4	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		T	17930825	T	T	17930825	3	4	312	1	0	0	0	0	1	0	0	0	14907	768	27	1	496	1	SNX5	20	17930825	Missense_Mutation	SNP	C	TCGA-BP-4998-01A-01D-1462-08		17930825	45094695	34	15749											
REM1	28954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30064360	30064360	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctgagcacagtgcctTccactcaatcccagcatccc	8	7	7	19	1	1	1	1	1	0	0	4	1	4	1	6	0	3	2	6	0	1	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		G	30064360	T	G	30064360	3	3	312	1	0	0	0	0	1	0	0	0	13224	1783	62	5	114	5	REM1	20	30064360	Missense_Mutation	SNP	T	TCGA-BP-4998-01A-01D-1462-08	12133535	30064360	32961160	35	15750											
COL6A2	1292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47542435	47542435	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggcgagcccggcccacGcggccccgaggtatgtgtgg	8	4	16	13	5	0	0	0	0	0	0	0	2	0	0	4	5	1	1	4	5	3	1	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		A	47542435	G	A	47542435	3	1	312	1	0	0	0	0	1	0	0	0	3700	1087	38	1	1672	1	COL6A2	21	47542435	Missense_Mutation	SNP	G	TCGA-BP-4998-01A-01D-1462-08		47542435	587460	36	15751											
PHF8	23133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54048718	54048718	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcctactccggagctcTctgacgaacgtagggctccc	9	8	10	14	3	1	1	0	1	1	0	5	3	4	2	3	2	3	3	3	2	4	2	novel		TCGA-BP-4998-01A-01D-1462-08	TCGA-BP-4998-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e646f930-967b-43a3-bd70-184e5c38efe5	10e99e0b-b3d0-4fbe-ab04-a579616e45a9		C	54048718	T	C	54048718	2	2	312	1	0	0	0	0	0	0	0	1	11840	1548	54	3		3	PHF8	23	54048718	Silent	SNP	T	TCGA-BP-4998-01A-01D-1462-08		54048718	101221842	37	15752											
RCC2	55920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17747210	17747210	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taaaaaatgtacttccatacCcagctgaccatattcagggc	14	10	6	11	0	1	1	1	1	0	0	2	1	2	1	3	1	3	2	3	1	6	6	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	17747210	C	G	17747210	3	3	313	1	0	0	0	0	1	0	0	0	13176	637	22	4	737	4	RCC2	1	17747210	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08		17747210	231503411	1	15753											
TEKT2	27285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36552420	36552420	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccccaaacatctcgctgAaggttgaccccacacgtgta	11	8	8	14	2	1	2	0	2	1	0	3	3	2	2	4	1	1	3	4	1	3	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	36552420	A	G	36552420	3	3	313	1	0	0	0	0	1	0	0	0	15752	247	9	3	618	3	TEKT2	1	36552420	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08	18805210	36552420	212698201	2	15754											
USP33	23032	hgsc.bcm.edu;ucsc.edu	37	chr1	78167136	78167136	+	Frame_Shift_Del	DEL	T	T	-																															aaagtagctggagagtcctcTttttggaacgctctgttaag																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	78167136	T	-	78167136	7	5	313	1	0	1	0	1	0	0	0	0	17063	1606	56	0	320	0	USP33	1	78167136	Frame_Shift_Del	DEL	T	TCGA-BP-4999-01A-01D-1462-08	41614716	78167136	171083485	3	15755											
SSX2IP	117178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85117618	85117618	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagttctggtggtcaaaGgtagtcatatttagaaactg	11	14	11	5	0	4	2	2	1	2	1	4	2	4	2	0	3	1	2	0	3	5	5	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	85117618	G	T	85117618	2	4	313	1	0	0	0	0	0	0	0	1	15205	987	35	4		4	SSX2IP	1	85117618	Silent	SNP	G	TCGA-BP-4999-01A-01D-1462-08	6950482	85117618	164133003	4	15756											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu	37	chr1	144931029	144931029	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatgctttctccatctgggGgtacctttgtgcttgctaag	5	15	10	11	0	2	0	0	0	2	0	3	0	2	0	3	2	4	4	3	2	2	5	rs149466177	alternate_allele	TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	144931029	G	A	144931029	3	1	313	1	0	0	0	0	1	0	0	0	11643	1232	43	2	7019	2	PDE4DIP	1	144931029	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	59813411	144931029	104319592	5	15757											
CD84	8832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160523749	160523749	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggttctgggctgtacaCgtgtaagtcagctcttggtc	7	12	13	9	1	3	0	1	0	2	0	4	0	3	0	0	3	2	5	0	3	2	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	160523749	C	T	160523749	2	4	313	1	0	0	0	0	0	0	0	1	3042	523	19	1		1	CD84	1	160523749	Silent	SNP	C	TCGA-BP-4999-01A-01D-1462-08	15592720	160523749	88726872	6	15758											
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186324584	186324584	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtagaaattttggtatttTgtgatcgcaaatctgtaact	11	16	10	4	1	1	2	0	1	1	1	2	2	1	2	0	2	1	4	0	2	5	7	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	186324584	T	C	186324584	3	2	313	1	0	0	0	0	1	0	0	0	16415	1812	63	3	5102	3	TPR	1	186324584	Missense_Mutation	SNP	T	TCGA-BP-4999-01A-01D-1462-08	25800835	186324584	62926037	7	15759											
HHIPL2	79802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222721137	222721137	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atcaaaatattccatgatgtCccagtaccgggcagcgatgc	12	9	9	11	2	1	1	1	1	0	0	3	2	3	1	3	1	3	2	3	1	4	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	222721137	C	G	222721137	3	3	313	1	0	0	0	0	1	0	0	0	7094	855	30	4	1960	4	HHIPL2	1	222721137	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08	36396553	222721137	26529484	8	15760											
DNMT3A	1788	hgsc.bcm.edu;ucsc.edu	37	chr2	25467027	25467027	+	Frame_Shift_Del	DEL	T	T	-																															ccaggcccagcactcacaaaTtcctggtcgtggttattagc																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	25467027	T	-	25467027	7	5	313	1	0	1	0	1	0	0	0	0	4676	1490	52	0	926	0	DNMT3A	2	25467027	Frame_Shift_Del	DEL	T	TCGA-BP-4999-01A-01D-1462-08		25467027	217732346	9	15761											
ALMS1	7840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73717074	73717074	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttatacctgatgaattcaAaatcagcaaaggtcttcgaa	15	12	6	8	1	3	2	2	2	1	0	4	3	3	2	1	1	2	1	1	1	7	5	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	73717074	A	G	73717074	3	3	313	1	0	0	0	0	1	0	0	0	535	14	1	3	8023	3	ALMS1	2	73717074	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08	48250047	73717074	169482299	10	15762											
TMBIM1	64114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219140333	219140333	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggaccagctgtgtgtcGtaagccaggaactgcaagga	11	6	13	11	1	0	0	0	0	0	0	1	3	0	3	3	3	4	3	3	3	3	1	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	219140333	G	A	219140333	2	1	313	1	0	0	0	0	0	0	0	1	15980	1140	40	1		1	TMBIM1	2	219140333	Silent	SNP	G	TCGA-BP-4999-01A-01D-1462-08	145423259	219140333	24059040	11	15763											
ZFAND2B	130617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220073738	220073738	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagctttagcacaagcactGtcagccagtgaggcagaata	13	8	10	10	0	1	2	1	1	0	1	1	2	1	2	1	1	4	4	1	1	5	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	220073738	G	A	220073738	2	1	313	1	0	0	0	0	0	0	0	1	17627	1364	48	2		2	ZFAND2B	2	220073738	Silent	SNP	G	TCGA-BP-4999-01A-01D-1462-08	933405	220073738	23125635	12	15764											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183763	10183763	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccaggtcatcttctgcAatcgcagtccgcgcgtcgtg	5	10	10	16	5	3	0	1	0	2	0	7	0	5	0	3	1	1	2	3	1	1	1	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	10183763	A	G	10183763	3	3	313	1	0	0	0	0	1	0	0	0	17161	130	5	3	234	3	VHL	3	10183763	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08		10183763	187838667	13	15765											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52663035	52663035	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctaaagtttcatattcttGattcttcagttttgttctgt	8	22	5	6	0	6	1	2	1	4	0	6	1	6	1	0	0	0	3	0	0	3	10	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	52663035	G	A	52663035	4	1	313	1	0	0	0	0	0	1	0	0	11491	1299	45	2	3658	2	PBRM1	3	52663035	Nonsense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	42479272	52663035	145359395	14	15766											
APBB2	323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	40829224	40829224	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcgctttggcattcttccGttcagccataatctaagggg	8	12	10	11	2	3	0	1	0	2	0	4	0	4	0	2	3	2	3	2	3	2	6	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	40829224	G	A	40829224	3	1	313	1	0	0	0	0	1	0	0	0	761	1144	40	1	642	1	APBB2	4	40829224	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08		40829224	150325052	15	15767											
CNGA1	1259	broad.mit.edu;hgsc.bcm.edu	37	chr4	47939840	47939840	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccagcagtccttgttctAggtaacctaaaatagaaaat	15	12	6	8	0	1	1	0	0	1	1	2	1	2	1	3	1	3	3	3	1	8	7	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	47939840	A	C	47939840	3	2	313	1	0	0	0	0	1	0	0	0	3596	420	15	5	1405	5	CNGA1	4	47939840	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08	7110616	47939840	143214436	16	15768											
CLPTM1L	81037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1330417	1330417	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggcggctccaacacccGccgggaccagcaccagcagg	10	2	12	17	3	0	0	0	0	0	0	1	1	1	1	5	4	3	3	5	4	2	0	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	1330417	G	A	1330417	3	1	313	1	0	0	0	0	1	0	0	0	3555	1087	38	1	594	1	CLPTM1L	5	1330417	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08		1330417	179584843	17	15769											
NSUN2	54888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	6600260	6600260	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctgagataatgaagccGttcattcttgggcacaaaag	13	10	9	9	1	2	2	1	2	1	1	3	3	3	2	2	1	1	2	2	1	4	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	6600260	G	C	6600260	3	2	313	1	0	0	0	0	1	0	0	0	10678	1144	40	4	224	4	NSUN2	5	6600260	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	5269843	6600260	174315000	18	15770											
MCC	4163	hgsc.bcm.edu	37	chr5	112399691	112399692	+	Frame_Shift_Ins	INS	-	-	G																															gagcattacctggtgtggctINSgttggaggaaaggctctccc																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	112399692	-	G	112399691	7	5	313	1	0	1	1	0	0	0	0	0	9373	1580	55	0	880	0	MCC	5	112399691	Frame_Shift_Ins	INS	-	TCGA-BP-4999-01A-01D-1462-08	105799431	112399691	68515569	19	15771											
RELL2	285613	hgsc.bcm.edu;ucsc.edu	37	chr5	141019628	141019628	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggagggcagcccaaggcaggGatgcctgccatggagaggct	9	4	18	10	0	0	1	0	0	0	1	0	4	0	3	3	6	3	3	3	6	1	0	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	141019628	G	A	141019628	2	1	313	1	0	0	0	0	0	0	0	1	13221	1161	41	2		2	RELL2	5	141019628	Silent	SNP	G	TCGA-BP-4999-01A-01D-1462-08	28619937	141019628	39895632	20	15772											
HLA-DPA1	3113	broad.mit.edu;hgsc.bcm.edu	37	chr6	33036464	33036464	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgggggtcatggccagaaCgcagagactttatgatgagg	10	7	15	9	2	1	4	1	2	0	2	1	5	1	4	2	4	1	1	2	4	2	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	33036464	C	T	33036464	3	4	313	1	0	0	0	0	1	0	0	0	7202	536	19	1	40	1	HLA-DPA1	6	33036464	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08		33036464	138078603	21	15773											
MYO6	4646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	76591436	76591436	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatcagatcatgaagtctGaccctgaccacttagcagag	12	10	9	10	0	3	6	2	4	1	2	3	6	3	6	2	0	1	1	2	0	2	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	76591436	G	A	76591436	3	1	313	1	0	0	0	0	1	0	0	0	10081	1290	45	2	2403	2	MYO6	6	76591436	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	43554972	76591436	94523631	22	15774											
MICALL2	79778	broad.mit.edu;ucsc.edu	37	chr7	1474748	1474748	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagtcacccagcttctcaAtcatgtcccgcagcatctga	9	9	6	17	1	4	1	3	1	2	0	6	1	5	1	3	0	2	3	3	0	1	1	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	1474748	G	G	1474748	3	3	313	1	0	0	0	0	1	0	0	0	9574	101	4	3	95	3	MICALL2	7	1474748	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08		1474748	157663915	23	15775											
GPNMB	10457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23307604	23307604	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctttgtcgtgacctgccaagGgaggtgagtatattatctcc	8	13	11	9	1	1	2	0	2	1	0	3	3	1	3	3	2	1	1	3	2	4	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	23307604	G	A	23307604	3	1	313	1	0	0	0	0	1	0	0	0	6620	1232	43	2	1283	2	GPNMB	7	23307604	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	21832856	23307604	135831059	24	15776											
ESYT2	57488	hgsc.bcm.edu;ucsc.edu	37	chr7	158557475	158557475	+	Frame_Shift_Del	DEL	C	C	-																															ggggtctgactttcccttgaCaagtcccttaaggtaagtgt																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	158557475	C	-	158557475	7	5	313	1	0	1	0	1	0	0	0	0	5265	478	17	0	1599	0	ESYT2	7	158557475	Frame_Shift_Del	DEL	C	TCGA-BP-4999-01A-01D-1462-08	135249871	158557475	581188	25	15777											
RP1	6101	hgsc.bcm.edu;ucsc.edu	37	chr8	55539690	55539695	+	In_Frame_Del	DEL	TACCAG	TACCAG	-																															ggaaactccaaaagacctctTaccagtcctgatgcttcacc																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	TACCAG	TACCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	55539695	TACCAG	-	55539690	7	5	313	1	0	1	0	1	0	0	0	0	13534	1764	61	0	3258	0	RP1	8	55539690	In_Frame_Del	DEL	TACCAG	TCGA-BP-4999-01A-01D-1462-08		55539690	90824332	26	15778											
ZNF658	26149	broad.mit.edu	37	chr9	40772750	40772750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgaattctctgatgtgcaCagaggtgtgttctttgggag	8	15	13	5	0	2	3	0	2	2	1	3	4	2	4	0	2	1	2	0	2	2	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	40772750	T	T	40772750	3	4	313	1	0	0	0	0	1	0	0	0	18068	478	17	2	658	2	ZNF658	9	40772750	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08		40772750	100440681	27	15779											
PRDM12	59335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133543580	133543580	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacggtgcgctacttcatCgatgccagccaggaggacca	9	6	13	13	3	1	0	1	0	0	0	2	3	1	2	3	4	4	2	3	4	1	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	133543580	C	A	133543580	2	1	313	1	0	0	0	0	0	0	0	1	12455	874	31	4		4	PRDM12	9	133543580	Silent	SNP	C	TCGA-BP-4999-01A-01D-1462-08	92770830	133543580	7669851	28	15780											
HHEX	3087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	94454334	94454334	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcaataaaaaagaagaaCtggaaagtttggacagttcc	20	7	9	5	0	0	2	0	0	0	2	1	4	1	4	1	2	2	3	1	2	8	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	94454334	C	G	94454334	3	3	313	1	0	0	0	0	1	0	0	0	7091	564	20	4	636	4	HHEX	10	94454334	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08		94454334	41080413	29	15781											
TALDO1	6888	broad.mit.edu	37	chr11	747520	747520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcgtcagaggatggagtcCgcgctggaccagctcaagca	11	5	14	11	3	2	1	2	0	0	1	3	4	3	4	2	3	3	3	2	3	2	0	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	747520	T	T	747520	2	4	313	1	0	0	0	0	0	0	0	1	15542	639	23	1		1	TALDO1	11	747520	Silent	SNP	C	TCGA-BP-4999-01A-01D-1462-08		747520	134258996	30	15782											
EIF4G2	1982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	10825853	10825853	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtgctttgcttctgtcctGgttgaccctctgctgctggg	1	15	13	12	1	2	1	0	1	2	0	3	1	3	1	2	3	4	5	2	3	0	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	10825853	G	C	10825853	3	2	313	1	0	0	0	0	1	0	0	0	5037	1348	47	4	2327	4	EIF4G2	11	10825853	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	10078333	10825853	124180663	31	15783											
ACTN3	89	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66322058	66322058	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccagaggaagacagcacCgtaccgcaacgtcaacgtgc	12	4	12	13	4	1	2	1	0	0	2	1	3	1	3	3	1	6	3	3	1	4	1	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	66322058	C	T	66322058	3	4	313	1	0	0	0	0	1	0	0	0	206	652	23	1	539	1	ACTN3	11	66322058	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08	55496205	66322058	68684458	32	15784											
INPPL1	3636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	71948448	71948448	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cactgccccctccagactttCcacctccaccactgccggac	7	7	5	22	1	0	1	0	0	0	1	3	2	3	2	8	1	2	0	8	1	0	1	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	71948448	C	G	71948448	3	3	313	1	0	0	0	0	1	0	0	0	7761	855	30	4	3262	4	INPPL1	11	71948448	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08	5626390	71948448	63058068	33	15785											
THY1	7070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119290972	119290972	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcttctttgtctcacgggtCaggctgaactcgtactggat	6	14	11	10	2	3	1	2	1	2	0	5	2	3	2	0	3	3	3	0	3	2	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	119290972	C	G	119290972	2	3	313	1	0	0	0	0	0	0	0	1	15884	813	29	4		4	THY1	11	119290972	Silent	SNP	C	TCGA-BP-4999-01A-01D-1462-08	47342524	119290972	15715544	34	15786											
RAB21	23011	hgsc.bcm.edu;ucsc.edu	37	chr12	72164429	72164431	+	In_Frame_Del	DEL	AAT	AAT	-																															caatttactacagagattcaAatggagcgattttagtttat																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	72164431	AAT	-	72164429	7	5	313	1	0	1	0	1	0	0	0	0	12910	14	1	0	287	0	RAB21	12	72164429	In_Frame_Del	DEL	AAT	TCGA-BP-4999-01A-01D-1462-08		72164429	61687466	35	15787											
CLIP1	6249	hgsc.bcm.edu	37	chr12	122845659	122845660	+	Frame_Shift_Ins	INS	-	-	G																															ctttggctggtgtagtggaaINSgggaagccaatcttggtaac																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	122845660	-	G	122845659	7	5	313	1	0	1	1	0	0	0	0	0	3532	59	3	0	3515	0	CLIP1	12	122845659	Frame_Shift_Ins	INS	-	TCGA-BP-4999-01A-01D-1462-08	50681230	122845659	11006236	36	15788											
PDS5B	23047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33222938	33222938	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaagactaggaccaatgAtggaaaaattacatatccgc	17	9	7	8	1	1	2	1	1	0	1	2	4	2	4	2	2	1	0	2	2	7	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	33222938	A	C	33222938	3	2	313	1	0	0	0	0	1	0	0	0	11692	333	12	5	31	5	PDS5B	13	33222938	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08		33222938	81946940	37	15789											
PDS5B	23047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33316758	33316758	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attaaaatgatggttcgatgGctacttggaatgaaaaataa	17	12	9	3	1	0	2	0	2	0	0	1	4	0	3	0	3	1	2	0	3	7	5	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	33316758	G	A	33316758	4	1	313	1	0	0	0	0	0	1	0	0	11692	1212	42	2	2591	2	PDS5B	13	33316758	Nonsense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	93820	33316758	81853120	38	15790											
OR10G3	26533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	22038804	22038804	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaacacaaaaaagagtgtCcttagcctgagtggatacgg	16	7	11	7	1	0	3	0	1	0	2	1	4	1	4	2	2	3	0	2	2	7	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	22038804	C	A	22038804	3	1	313	1	0	0	0	0	1	0	0	0	10900	854	30	4	872	4	OR10G3	14	22038804	Missense_Mutation	SNP	C	TCGA-BP-4999-01A-01D-1462-08		22038804	85310736	39	15791											
RDH11	51109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68151872	68151872	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagatgagtgccgaaccagTtcagattggactgtgccagg	12	8	13	8	1	1	3	1	1	0	2	1	5	1	4	3	2	3	1	3	2	2	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	68151872	T	A	68151872	3	1	313	1	0	0	0	0	1	0	0	0	13192	1722	60	5	250	5	RDH11	14	68151872	Missense_Mutation	SNP	T	TCGA-BP-4999-01A-01D-1462-08	46113068	68151872	39197668	40	15792											
RYR3	6263	broad.mit.edu	37	chr15	34119402	34119402	+	Frame_Shift_Del	DEL	T	-	-																															cagcactggtgctctcagacTttcagaacttcctgcggact																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	34119402	-	-	34119402	7	5	313	1	0	1	0	1	0	0	0	0	13772	1609	56	0	11586	0	RYR3	15	34119402	Frame_Shift_Del	DEL	T	TCGA-BP-4999-01A-01D-1462-08		34119402	68411990	41	15793											
ZFYVE19	84936	broad.mit.edu;hgsc.bcm.edu	37	chr15	41105065	41105065	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctggccctggccaagcGactagccatgctgcggggac	7	7	14	13	2	1	0	0	0	1	0	1	3	1	1	3	4	4	1	3	4	2	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	41105065	G	T	41105065	3	4	313	1	0	0	0	0	1	0	0	0	17664	1058	37	4	1021	4	ZFYVE19	15	41105065	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	6985663	41105065	61426327	42	15794											
RFX7	64864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56390306	56390306	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactagggacagctgccacAacgataccaataggttgagg	13	6	13	9	1	0	1	0	1	0	0	0	4	0	3	2	4	4	2	2	4	5	4	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	56390306	A	G	56390306	2	3	313	1	0	0	0	0	0	0	0	1	13270	117	5	3		3	RFX7	15	56390306	Silent	SNP	A	TCGA-BP-4999-01A-01D-1462-08	15285241	56390306	46141086	43	15795											
ZC3H7A	29066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11873154	11873154	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcttatcgagttgttccaAtcatgttcccgataaacgtc	9	14	8	10	3	1	0	1	0	0	0	5	2	3	0	2	1	1	4	2	1	4	5	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	11873154	A	G	11873154	2	3	313	1	0	0	0	0	0	0	0	1	17571	98	4	3		3	ZC3H7A	16	11873154	Silent	SNP	A	TCGA-BP-4999-01A-01D-1462-08		11873154	78481599	44	15796											
SETD1A	9739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30977377	30977377	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccccgcaggaggcagcCtacggcttgccgtatgctct	6	7	11	17	3	1	0	0	0	1	0	1	1	1	1	5	3	4	5	5	3	2	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	30977377	C	G	30977377	2	3	313	1	0	0	0	0	0	0	0	1	14132	668	24	4		4	SETD1A	16	30977377	Silent	SNP	C	TCGA-BP-4999-01A-01D-1462-08	19104223	30977377	59377376	45	15797											
CCT6B	10693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33269618	33269618	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagcttttaccaatttcTctttctcttctgcagtctta	6	21	3	11	0	5	0	1	0	4	0	7	0	5	0	1	0	3	2	1	0	3	7	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		A	33269618	T	A	33269618	3	1	313	1	0	0	0	0	1	0	0	0	2958	1551	54	5	854	5	CCT6B	17	33269618	Missense_Mutation	SNP	T	TCGA-BP-4999-01A-01D-1462-08		33269618	47925592	46	15798											
KRT24	192666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38859430	38859430	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatttgtcataccactccttGattttgttctccagatcagt	8	18	5	10	0	3	2	2	1	1	1	5	2	4	2	3	0	1	1	3	0	2	7	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	38859430	G	C	38859430	3	2	313	1	0	0	0	0	1	0	0	0	8461	1280	45	4	1093	4	KRT24	17	38859430	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	5589812	38859430	42335780	47	15799											
APOH	350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	64216834	64216834	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acgaagtgttgcaaacgtagGtatggatggtggagggcaga	12	8	17	4	2	0	1	0	0	0	1	0	4	0	3	0	5	2	5	0	5	4	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	64216834	G	T	64216834	3	4	313	1	0	0	0	0	1	0	0	0	804	1261	44	4	611	4	APOH	17	64216834	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	25357404	64216834	16978376	48	15800											
COG1	9382	hgsc.bcm.edu;ucsc.edu	37	chr17	71197678	71197678	+	Frame_Shift_Del	DEL	G	G	-																															gaccgtgcaggagatgctgcGgactcagtccgtggcatgca																								novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		-	71197678	G	-	71197678	7	5	313	1	0	1	0	1	0	0	0	0	3657	1116	39	0	1738	0	COG1	17	71197678	Frame_Shift_Del	DEL	G	TCGA-BP-4999-01A-01D-1462-08	6980844	71197678	9997532	49	15801											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9070296	9070296	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacgttggccactgcagtgTttgtatgcatggaagcatgc	8	11	12	10	1	0	0	0	0	0	0	0	1	0	1	2	2	4	6	2	2	2	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		G	9070296	T	G	9070296	3	3	313	1	0	0	0	0	1	0	0	0	9973	1725	60	5	26701	5	MUC16	19	9070296	Missense_Mutation	SNP	T	TCGA-BP-4999-01A-01D-1462-08		9070296	50058687	50	15802											
TMEM59L	25789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18724826	18724826	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaaactgagtgtgaagcaGgtgagggcccgccggcaggg	9	4	17	11	2	0	3	0	3	0	0	0	3	0	3	3	4	2	2	3	4	2	0	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	18724826	G	C	18724826	3	2	313	1	0	0	0	0	1	0	0	0	16185	1014	35	4	322	4	TMEM59L	19	18724826	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08	9654530	18724826	40404157	51	15803											
ZNF607	84775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38190552	38190552	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgagcattaattttctgAtgctttctaaggtctgtaag	10	16	8	7	1	4	1	1	1	3	0	4	2	4	1	0	1	2	3	0	1	3	6	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	38190552	A	T	38190552	3	4	313	1	0	0	0	0	1	0	0	0	18032	330	12	5	1614	5	ZNF607	19	38190552	Missense_Mutation	SNP	A	TCGA-BP-4999-01A-01D-1462-08	19465726	38190552	20938431	52	15804											
MZF1	7593	broad.mit.edu	37	chr19	59073897	59073897	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggagatgctgcgtgagcgTaggccgctggcggaaggcct	6	6	19	10	5	0	2	0	1	0	1	0	4	0	3	2	5	3	3	2	5	2	1	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		C	59073897	C	C	59073897	3	2	313	1	0	0	0	0	1	0	0	0	10108	1638	57	3	461	3	MZF1	19	59073897	Missense_Mutation	SNP	T	TCGA-BP-4999-01A-01D-1462-08	20883345	59073897	55086	53	15805											
PYGB	5834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	25249816	25249816	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagaagaagatgctggccttGggaatggaggcctggggagg	10	7	19	5	0	0	3	0	0	0	3	0	6	0	6	2	7	1	1	2	7	4	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	25249816	G	T	25249816	3	4	313	1	0	0	0	0	1	0	0	0	12862	1348	47	4	407	4	PYGB	20	25249816	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08		25249816	37775704	54	15806											
MYH9	4627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	36693020	36693020	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagcttccggcgggtcttCtccagctcctgtcgctgctt	2	13	10	16	3	2	0	0	0	2	0	7	0	5	0	4	2	3	4	4	2	0	3	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	36693020	C	T	36693020	2	4	313	1	0	0	0	0	0	0	0	1	10042	912	32	2		2	MYH9	22	36693020	Silent	SNP	C	TCGA-BP-4999-01A-01D-1462-08		36693020	14611546	55	15807											
MAGEA4	4103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151092616	151092616	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcctccgagtccctgaaGatgatctttggcattgacgt	10	11	10	10	2	1	4	0	3	1	1	3	5	3	4	3	1	1	1	3	1	2	2	novel		TCGA-BP-4999-01A-01D-1462-08	TCGA-BP-4999-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	86ffb814-7c65-426b-b7b5-7250322c4d01	5f731fb4-2c74-4c8b-b498-7e5d036658a8		T	151092616	G	T	151092616	3	4	313	1	0	0	0	0	1	0	0	0	9168	933	33	4	482	4	MAGEA4	23	151092616	Missense_Mutation	SNP	G	TCGA-BP-4999-01A-01D-1462-08		151092616	4177944	56	15808											
SAMD11	148398	broad.mit.edu	37	chr1	878409	878409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactgcccctgggcttccCttatgccgtcagcccctact	5	10	7	19	1	1	0	1	0	0	0	2	0	2	0	6	1	4	1	6	1	2	3	rs181205550	by1000genomes	TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	878409	T	T	878409	3	4	314	1	0	0	0	0	1	0	0	0	13818	681	24	2	1573	2	SAMD11	1	878409	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08		878409	248372212	1	15809											
CDCP2	200008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54605450	54605450	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgtaggccacagagaagcCcctgcgggtggtgctgcggt	7	7	17	10	2	0	1	0	0	0	1	0	3	0	1	3	4	4	2	3	4	2	1	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	54605450	C	T	54605450	3	4	314	1	0	0	0	0	1	0	0	0	3094	623	22	2	260	2	CDCP2	1	54605450	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08	53727041	54605450	194645171	2	15810											
SPAG17	200162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	118581935	118581935	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttcaagactttgttccTcatctccttcttcttcctct	4	19	3	15	1	6	1	2	0	4	1	9	1	8	1	4	0	0	2	4	0	1	6	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		G	118581935	T	G	118581935	3	3	314	1	0	0	0	0	1	0	0	0	14981	1551	54	5	3476	5	SPAG17	1	118581935	Missense_Mutation	SNP	T	TCGA-BP-5000-01A-01D-1462-08	63976485	118581935	130668686	3	15811											
ADAM15	8751	hgsc.bcm.edu;ucsc.edu	37	chr1	155028946	155028946	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaggaggtgtgaacatGgtgagttatttccaggtctc	8	14	12	7	0	2	2	1	2	2	0	5	3	3	3	1	4	1	1	1	4	2	3	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	155028946	G	A	155028946	3	1	314	1	0	0	0	0	1	0	0	0	237	1362	47	2	1037	2	ADAM15	1	155028946	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08	36447011	155028946	94221675	4	15812											
RUSC1	23623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155291906	155291906	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctcagatcttagcccCgatgagtcccctgtctcagt	6	12	8	15	1	3	2	2	1	2	1	6	3	5	2	5	0	2	1	5	0	1	1	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	155291906	C	A	155291906	2	1	314	1	0	0	0	0	0	0	0	1	13752	639	23	4		4	RUSC1	1	155291906	Silent	SNP	C	TCGA-BP-5000-01A-01D-1462-08	262960	155291906	93958715	5	15813											
TTC24	164118	hgsc.bcm.edu	37	chr1	156553232	156553232	+	Frame_Shift_Del	DEL	C	C	-																															gtactataaggaagcactggCccagtgtcaggtgagacccc																								rs140853435	by1000genomes	TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		-	156553232	C	-	156553232	7	5	314	1	0	1	0	1	0	0	0	0	16691	739	26	0	1156	0	TTC24	1	156553232	Frame_Shift_Del	DEL	C	TCGA-BP-5000-01A-01D-1462-08	1261326	156553232	92697389	6	15814											
RNPEP	6051	hgsc.bcm.edu;ucsc.edu	37	chr1	201970845	201970845	+	Frame_Shift_Del	DEL	A	A	-																															cgatgactttctggacttctActtggaatatttccctgagc																								novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		-	201970845	A	-	201970845	7	5	314	1	0	1	0	1	0	0	0	0	13511	391	14	0	1406	0	RNPEP	1	201970845	Frame_Shift_Del	DEL	A	TCGA-BP-5000-01A-01D-1462-08	45417613	201970845	47279776	7	15815											
LBR	3930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	225599096	225599096	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagatcaaaagtaccaatTcgagggtttaattcacggcc	13	11	9	8	2	2	1	2	1	0	1	3	3	2	1	2	2	1	2	2	2	5	6	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	225599096	T	A	225599096	2	1	314	1	0	0	0	0	0	0	0	1	8652	1770	62	5		5	LBR	1	225599096	Silent	SNP	T	TCGA-BP-5000-01A-01D-1462-08	23628251	225599096	23651525	8	15816											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152548582	152548582	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaacttacatcactgttTtgagctgcaactttcatgca	11	15	5	10	0	3	1	3	1	0	0	3	1	3	1	0	0	6	4	0	0	3	5	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	152548582	T	C	152548582	2	2	314	1	0	0	0	0	0	0	0	1	10302	1838	64	3		3	NEB	2	152548582	Silent	SNP	T	TCGA-BP-5000-01A-01D-1462-08		152548582	90650791	9	15817											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179643760	179643760	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaagaacaacaggtataCgcagactagctctgccatct	13	8	9	11	1	2	2	0	0	2	2	2	3	2	3	1	2	5	3	1	2	6	3	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	179643760	C	T	179643760	3	4	314	1	0	0	0	0	1	0	0	0	16734	536	19	1	107295	1	TTN	2	179643760	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08	27095178	179643760	63555613	10	15818											
UGT1A6	54578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234602164	234602164	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccatctgtgtacctcttcAggggttttccgtgttccctg	4	16	9	12	1	3	0	1	0	2	0	5	0	5	0	4	2	2	3	4	2	2	6	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		G	234602164	A	G	234602164	3	3	314	1	0	0	0	0	1	0	0	0	16948	179	7	3	516	3	UGT1A6	2	234602164	Missense_Mutation	SNP	A	TCGA-BP-5000-01A-01D-1462-08	54958404	234602164	8597209	11	15819											
RAMP1	10267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238820196	238820196	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggagctggccgactgcaCctggcacatggcggagaagc	9	4	16	12	2	0	1	0	0	0	1	0	4	0	2	2	5	3	3	2	5	1	0	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	238820196	C	T	238820196	3	4	314	1	0	0	0	0	1	0	0	0	13023	507	18	2	228	2	RAMP1	2	238820196	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08	4218032	238820196	4379177	12	15820											
PRSS50	29122	broad.mit.edu	37	chr3	46753884	46753884	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagatgggtggggcctcgCtcttctggcagcctgcaccc	4	9	15	13	1	2	1	0	0	2	1	3	1	2	1	3	5	2	4	3	5	1	2	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	46753884	A	A	46753884	3	1	314	1	0	0	0	0	1	0	0	0	12633	797	28	4	151	4	PRSS50	3	46753884	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08		46753884	151268546	13	15821											
RNF123	63891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49734822	49734822	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagggcggcttggcccaTccactgtggtcctggaccac	6	9	13	13	1	0	1	0	1	0	0	2	2	2	2	4	5	0	1	4	5	1	2	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	49734822	T	C	49734822	3	2	314	1	0	0	0	0	1	0	0	0	13435	1435	50	3	288	3	RNF123	3	49734822	Missense_Mutation	SNP	T	TCGA-BP-5000-01A-01D-1462-08	2980938	49734822	148287608	14	15822											
HTT	3064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	3208255	3208255	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgactccgagcacttaacGtggctcattgtaaatcacat	12	11	7	11	2	2	1	2	1	0	0	3	2	3	1	1	1	2	3	1	1	3	3	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	3208255	G	T	3208255	2	4	314	1	0	0	0	0	0	0	0	1	7457	1132	40	4		4	HTT	4	3208255	Silent	SNP	G	TCGA-BP-5000-01A-01D-1462-08		3208255	187946021	15	15823											
AASDH	132949	broad.mit.edu;hgsc.bcm.edu	37	chr4	57204599	57204599	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacccaataaatccagaCaataaacataattatctcta	18	10	2	11	0	1	1	0	0	1	1	3	1	2	1	3	0	2	0	3	0	9	5	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	57204599	C	T	57204599	3	4	314	1	0	0	0	0	1	0	0	0	22	478	17	2	34	2	AASDH	4	57204599	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08	53996344	57204599	133949677	16	15824											
IPO11	51194	broad.mit.edu;ucsc.edu	37	chr5	61779841	61779841	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttcatttttctagatagCagccctgaaactcttgaagc	12	14	6	9	0	3	3	1	2	2	1	3	3	3	3	1	0	4	1	1	0	5	6	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	61779841	T	T	61779841	2	4	314	1	0	0	0	0	0	0	0	1	7793	709	25	2		2	IPO11	5	61779841	Silent	SNP	C	TCGA-BP-5000-01A-01D-1462-08		61779841	119135419	17	15825											
PCDHB7	56129	broad.mit.edu;hgsc.bcm.edu	37	chr5	140553992	140553992	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggactacgaggccctgcagGcgttcgagttccgcgtgggc	5	8	16	12	5	0	0	0	0	0	0	2	3	1	1	2	4	2	3	2	4	1	3	rs146429251	byfrequency;alternate_allele	TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	140553992	G	T	140553992	3	4	314	1	0	0	0	0	1	0	0	0	11547	1203	42	4	1578	4	PCDHB7	5	140553992	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08	78774151	140553992	40361268	18	15826											
PHF1	5252	hgsc.bcm.edu;ucsc.edu	37	chr6	33382506	33382507	+	Frame_Shift_Ins	INS	-	-	T																															ctcttcttgccccagtttcaINStttcagggagagagattaag																								novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	33382507	-	T	33382506	7	5	314	1	0	1	1	0	0	0	0	0	11820	217	8	0	987	0	PHF1	6	33382506	Frame_Shift_Ins	INS	-	TCGA-BP-5000-01A-01D-1462-08		33382506	137732561	19	15827											
PRIM2	5558	broad.mit.edu;hgsc.bcm.edu	37	chr6	57498975	57498975	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcattttagattttggaTttagtaaaggggacacatta	13	16	8	4	0	1	1	1	0	0	1	1	3	1	3	0	3	0	1	0	3	5	9	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	57498975	T	C	57498975	2	2	314	1	0	0	0	0	0	0	0	1	12493	1490	52	3		3	PRIM2	6	57498975	Silent	SNP	T	TCGA-BP-5000-01A-01D-1462-08	24116469	57498975	113616092	20	15828											
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21789334	21789334	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacatccgaactggagccaaGaacatgcccactgtgttcct	11	9	8	13	1	0	1	0	0	0	1	2	3	2	2	4	1	5	1	4	1	4	2	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	21789334	G	C	21789334	3	2	314	1	0	0	0	0	1	0	0	0	4599	933	33	4	8944	4	DNAH11	7	21789334	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08		21789334	137349329	21	15829											
C7orf29	113763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150027696	150027696	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaacaagctcttctaccGcgaggagtttgtgctggcca	8	10	11	12	2	3	0	1	0	2	0	3	2	3	1	2	2	4	4	2	2	3	3	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	150027696	G	A	150027696	3	1	314	1	0	0	0	0	1	0	0	0	2385	1087	38	1	205	1	C7orf29	7	150027696	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08	128238362	150027696	9110967	22	15830											
C8orf34	116328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	69351861	69351861	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctggatctgcagctctatGggcagaaagtgaaaaatcag	13	9	12	7	0	4	2	1	1	3	1	4	3	4	3	0	2	2	3	0	2	4	1	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	69351861	G	A	69351861	4	1	314	1	0	0	0	0	0	1	0	0	2422	1357	47	2	124	2	C8orf34	8	69351861	Nonsense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08		69351861	77012161	23	15831											
TATDN1	83940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125500921	125500921	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatctctcactgctgacaTtatctccaatatttgactaa	11	15	3	12	0	4	2	2	2	2	0	6	2	4	2	1	0	1	1	1	0	4	4	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	125500921	T	C	125500921	3	2	314	1	0	0	0	0	1	0	0	0	15590	1493	52	3	89	3	TATDN1	8	125500921	Missense_Mutation	SNP	T	TCGA-BP-5000-01A-01D-1462-08	56149060	125500921	20863101	24	15832											
ANKRD20A4	728747	hgsc.bcm.edu	37	chr9	69393857	69393860	+	Frame_Shift_Del	DEL	TACT	TACT	-																															tttggaacataaaaagaagaTacttaaaaaggagaaatcag																								novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	TACT	TACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		-	69393860	TACT	-	69393857	7	5	314	1	0	1	0	1	0	0	0	0	650	1406	49	0	795	0	ANKRD20A4	9	69393857	Frame_Shift_Del	DEL	TACT	TCGA-BP-5000-01A-01D-1462-08		69393857	71819574	25	15833											
UPF2	26019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	12009405	12009405	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttagttctcctataaaacGaacagttttattctttgttt	11	19	5	6	1	2	0	0	0	2	0	3	1	2	0	1	0	2	4	1	0	6	9	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	12009405	G	T	12009405	3	4	314	1	0	0	0	0	1	0	0	0	17003	1058	37	4	1868	4	UPF2	10	12009405	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08		12009405	123525342	26	15834											
KIAA0913	0	broad.mit.edu	37	chr10	75551975	75551975	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagggggtcccctcatcaCagcggggtccccgccgcctc	4	6	14	17	3	2	1	2	1	0	0	5	1	4	1	6	4	1	0	6	4	0	0	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	75551975	A	A	75551975	3	1	314	1	0	0	0	0	1	0	0	0	8200	479	17	4	1716	4	KIAA0913	10	75551975	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08	63542570	75551975	59982772	27	15835											
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu	37	chr11	62288165	62288165	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaatttggggcccttcagtTtcccttctggaccatgaatg	8	14	9	10	0	2	1	1	1	1	0	3	2	3	2	3	3	0	1	3	3	3	5	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		G	62288165	T	G	62288165	3	3	314	1	0	0	0	0	1	0	0	0	414	1841	64	5	4068	5	AHNAK	11	62288165	Missense_Mutation	SNP	T	TCGA-BP-5000-01A-01D-1462-08		62288165	72718351	28	15836											
SLC22A12	116085	broad.mit.edu;hgsc.bcm.edu	37	chr11	64360346	64360346	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgcgtgcggccctgcCtcagacaggtgagtaccccc	5	7	13	16	2	1	2	1	1	0	1	1	2	1	2	4	2	5	3	4	2	1	1	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	64360346	C	A	64360346	2	1	314	1	0	0	0	0	0	0	0	1	14445	668	24	4		4	SLC22A12	11	64360346	Silent	SNP	C	TCGA-BP-5000-01A-01D-1462-08	2072181	64360346	70646170	29	15837											
C2CD3	26005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73825591	73825591	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacttagtgtcatcgttTgggcatcttctggagtttct	6	16	9	10	1	4	0	1	0	3	0	5	1	4	1	1	2	0	3	1	2	1	4	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	73825591	T	C	73825591	3	2	314	1	0	0	0	0	1	0	0	0	2154	1812	63	3	4411	3	C2CD3	11	73825591	Missense_Mutation	SNP	T	TCGA-BP-5000-01A-01D-1462-08	9465245	73825591	61180925	30	15838											
TMED2	10959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124069276	124069276	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgacgcccatgctgaagaGtgcttctttgagcgggtcac	8	10	12	11	3	2	3	1	2	1	1	3	4	2	3	1	1	3	2	1	1	1	2	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	124069276	G	A	124069276	2	1	314	1	0	0	0	0	0	0	0	1	16003	1020	36	2		2	TMED2	12	124069276	Silent	SNP	G	TCGA-BP-5000-01A-01D-1462-08		124069276	9782619	31	15839											
NDFIP2	54602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	80094986	80094986	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagaatcatcggctatagaGcagccacctacttcaaaccc	13	8	6	14	1	3	2	3	0	0	2	4	2	3	2	3	1	4	2	3	1	5	4	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	80094986	G	A	80094986	2	1	314	1	0	0	0	0	0	0	0	1	10246	962	34	2		2	NDFIP2	13	80094986	Silent	SNP	G	TCGA-BP-5000-01A-01D-1462-08		80094986	35074892	32	15840											
CLYBL	171425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	100511253	100511253	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttgcaatcccgggtccttCcttccagcctgatgctacca	6	13	7	15	1	0	1	0	1	0	0	4	1	4	1	6	1	4	2	6	1	2	5	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	100511253	C	A	100511253	3	1	314	1	0	0	0	0	1	0	0	0	3573	855	30	4	398	4	CLYBL	13	100511253	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08	20416267	100511253	14658625	33	15841											
ADCY4	196883	broad.mit.edu;hgsc.bcm.edu	37	chr14	24801009	24801009	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacctggtgcttcttctcGgtgtccagccgccggcgtga	3	11	13	14	4	2	2	0	2	2	0	4	2	3	2	4	3	2	1	4	3	0	2	rs146843899	byfrequency;alternate_allele	TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	24801009	G	C	24801009	2	2	314	1	0	0	0	0	0	0	0	1	296	1103	39	4		4	ADCY4	14	24801009	Silent	SNP	G	TCGA-BP-5000-01A-01D-1462-08		24801009	82548531	34	15842											
RPL4	6124	hgsc.bcm.edu	37	chr15	66791809	66791809	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcttcttttcaggggctGgtttcttggtagctgctgcc	3	15	13	10	0	3	0	1	0	2	0	3	0	3	0	1	5	3	6	1	5	1	6	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	66791809	G	A	66791809	3	1	314	1	0	0	0	0	1	0	0	0	13597	1348	47	2	67	2	RPL4	15	66791809	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08		66791809	35739583	35	15843											
AGBL1	123624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	86940775	86940775	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatggtgtcatcaacggCaagtatgtcaggcacctggc	10	8	12	11	1	3	1	3	0	0	1	3	1	3	1	2	4	1	3	2	4	3	1	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	86940775	C	T	86940775	2	4	314	1	0	0	0	0	0	0	0	1	375	697	25	2		2	AGBL1	15	86940775	Silent	SNP	C	TCGA-BP-5000-01A-01D-1462-08	20148966	86940775	15590617	36	15844											
FBXL19	54620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30939867	30939867	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcggacccaggcggccCgggcctgctgccccccaggg	5	3	16	17	3	0	0	0	0	0	0	1	2	0	2	6	6	2	1	6	6	0	0	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	30939867	C	T	30939867	3	4	314	1	0	0	0	0	1	0	0	0	5715	652	23	1	789	1	FBXL19	16	30939867	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08		30939867	59414886	37	15845											
MYST1	0	broad.mit.edu;hgsc.bcm.edu	37	chr16	31141808	31141808	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaagctggagagcacagtCggctccccggagaagccact	10	5	12	14	2	0	2	0	0	0	2	3	4	2	2	4	3	3	3	4	3	2	0	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	31141808	C	T	31141808	2	4	314	1	0	0	0	0	0	0	0	1	10102	871	31	1		1	MYST1	16	31141808	Silent	SNP	C	TCGA-BP-5000-01A-01D-1462-08	201941	31141808	59212945	38	15846											
ZNF257	113835	broad.mit.edu;hgsc.bcm.edu	37	chr19	22271484	22271484	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacataagagaattcataCtggagagaaaccctacaaat	19	8	6	8	0	2	2	2	0	0	2	2	5	2	3	1	1	4	0	1	1	7	4	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		T	22271484	C	T	22271484	3	4	314	1	0	0	0	0	1	0	0	0	17799	565	20	2	946	2	ZNF257	19	22271484	Missense_Mutation	SNP	C	TCGA-BP-5000-01A-01D-1462-08		22271484	36857499	39	15847											
ZNF528	84436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52918813	52918813	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatcgaagaatgcatacTggagagaagccttacaaatg	17	8	9	7	1	0	2	0	0	0	2	1	5	0	3	1	1	5	1	1	1	7	3	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	52918813	T	C	52918813	2	2	314	1	0	0	0	0	0	0	0	1	17968	1567	55	3		3	ZNF528	19	52918813	Silent	SNP	T	TCGA-BP-5000-01A-01D-1462-08	30647329	52918813	6210170	40	15848											
EMILIN3	90187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39990048	39990048	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctccacaggccctctcTgggcctcagtggctcagtgg	5	9	13	14	0	3	0	2	0	1	0	5	0	4	0	3	5	0	2	3	5	0	0	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		G	39990048	T	G	39990048	2	3	314	1	0	0	0	0	0	0	0	1	5095	1588	55	5		5	EMILIN3	20	39990048	Silent	SNP	T	TCGA-BP-5000-01A-01D-1462-08		39990048	23035472	41	15849											
COL6A2	1292	broad.mit.edu;hgsc.bcm.edu	37	chr21	47531392	47531392	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacaggtgctgccaagaTgctccagggcacctgctccg	7	6	13	15	1	0	1	0	0	0	1	2	1	2	1	5	3	4	4	5	3	1	0	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	47531392	T	C	47531392	3	2	314	1	0	0	0	0	1	0	0	0	3700	1464	51	3	4	3	COL6A2	21	47531392	Missense_Mutation	SNP	T	TCGA-BP-5000-01A-01D-1462-08		47531392	598503	42	15850											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu	37	chrX	53227751	53227751	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcagttctttagttgctGcagcagctcactattaggaa	10	12	10	9	0	2	0	1	0	1	0	2	1	2	1	0	2	4	7	0	2	4	6	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		A	53227751	G	A	53227751	4	1	314	1	0	0	0	0	0	1	0	0	8135	1328	46	2	2383	2	KDM5C	23	53227751	Nonsense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08		53227751	102042809	43	15851											
BCORL1	63035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129146951	129146951	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctcacggcagttggaagtgGcagcaatgcccggggggcag	8	5	18	10	2	1	0	1	0	0	0	1	1	1	1	1	6	2	6	1	6	2	1	novel		TCGA-BP-5000-01A-01D-1462-08	TCGA-BP-5000-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b9816eaa-3c60-4fbf-abd6-6d869ca9cca7	ec0ff7f5-675f-4168-85f8-edf28a5d2e36		C	129146951	G	C	129146951	3	2	314	1	0	0	0	0	1	0	0	0	1387	1203	42	4	213	4	BCORL1	23	129146951	Missense_Mutation	SNP	G	TCGA-BP-5000-01A-01D-1462-08	75919200	129146951	26123609	44	15852											
VHL	7428	hgsc.bcm.edu	37	chr3	10183811	10183811	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggctcaacttcgacggcGagccgcagccctacccaacg	9	6	10	16	5	1	0	1	0	0	0	2	2	1	0	3	2	5	2	3	2	4	3	rs5030829		TCGA-BP-5001-01A-01D-1392-10	TCGA-BP-5001-11A-01D-1392-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	b2427ca6-bcd0-4ab1-8e6d-3f48f7ff3a37	971f136c-e7eb-442a-a028-7491d68f3e57		T	10183811	G	T	10183811	4	4	315	1	0	0	0	0	0	1	0	0	17161	1059	37	4	282	4	VHL	3	10183811	Nonsense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1392-10		10183811	187838619	1	15853											
SKI	6497	broad.mit.edu;hgsc.bcm.edu	37	chr1	2234822	2234822	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctctccccacacctcccGgccctcatccgagacaggtg	7	6	9	19	2	2	1	1	0	1	1	5	3	4	1	6	2	1	1	6	2	0	0	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	2234822	G	A	2234822	2	1	316	1	0	0	0	0	0	0	0	1	14359	1103	39	1		1	SKI	1	2234822	Silent	SNP	G	TCGA-BP-5001-01A-01D-1462-08		2234822	247015799	1	15854											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11227530	11227530	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgtttcatggcatattctAacactccggccgctgcctcc	7	12	8	14	2	2	0	1	0	1	0	4	0	4	0	4	2	2	3	4	2	2	4	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	11227530	A	G	11227530	3	3	316	1	0	0	0	0	1	0	0	0	9954	372	13	3	3471	3	MTOR	1	11227530	Missense_Mutation	SNP	A	TCGA-BP-5001-01A-01D-1462-08	8992708	11227530	238023091	2	15855											
EIF4G3	8672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21133885	21133885	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacagatttcagagccacgCccttcccattctgctctgca	8	11	7	15	1	3	3	1	1	2	2	4	3	4	3	3	0	3	2	3	0	0	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	21133885	C	T	21133885	3	4	316	1	0	0	0	0	1	0	0	0	5038	739	26	2	76	2	EIF4G3	1	21133885	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08	9906355	21133885	228116736	3	15856											
FCRL5	83416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	157494128	157494128	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaccattgtctgcctcaCaggagtagattccagaatgt	11	10	9	11	0	2	3	1	0	1	3	3	4	3	4	4	1	1	1	4	1	2	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	157494128	C	T	157494128	3	4	316	1	0	0	0	0	1	0	0	0	5798	478	17	2	785	2	FCRL5	1	157494128	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08	136360243	157494128	91756493	4	15857											
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158582607	158582607	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcaaccagaatcggacCtgcttcatgtcttctttggt	9	12	10	10	1	3	1	1	0	2	1	4	3	3	3	2	3	3	2	2	3	3	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	158582607	C	A	158582607	3	1	316	1	0	0	0	0	1	0	0	0	15117	695	24	4	133	4	SPTA1	1	158582607	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08	1088479	158582607	90668014	5	15858											
CEP170	9859	hgsc.bcm.edu	37	chr1	243328392	243328393	+	Frame_Shift_Del	DEL	TT	TT	-																															tatagaggctagtgaaactcTttcgcttttgggttgacttt																								novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		-	243328393	TT	-	243328392	7	5	316	1	0	1	0	1	0	0	0	0	3250	1609	56	0	1946	0	CEP170	1	243328392	Frame_Shift_Del	DEL	TT	TCGA-BP-5001-01A-01D-1462-08	84745785	243328392	5922229	6	15859											
SDCCAG8	10806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	243581287	243581287	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaaaatgaacagtatttgTtgctgacctcccagaataca	15	11	7	8	0	0	4	0	2	0	2	1	4	1	4	2	0	3	3	2	0	7	5	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		C	243581287	T	C	243581287	2	2	316	1	0	0	0	0	0	0	0	1	13961	1722	60	3		3	SDCCAG8	1	243581287	Silent	SNP	T	TCGA-BP-5001-01A-01D-1462-08	252895	243581287	5669334	7	15860											
PLEKHH2	130271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43973091	43973091	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggactgttcgtctgacAtacaaaaacaggtgtgtaat	15	10	9	7	1	1	1	0	1	1	0	2	2	1	2	0	2	2	2	0	2	5	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	43973091	A	T	43973091	2	4	316	1	0	0	0	0	0	0	0	1	12077	204	8	5		5	PLEKHH2	2	43973091	Silent	SNP	A	TCGA-BP-5001-01A-01D-1462-08		43973091	199226282	8	15861											
IL1RL1	9173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	102956734	102956734	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctcttgagtggtttaaggTaagaagaaatttggaaggaa	15	11	12	3	0	1	3	0	1	1	2	1	5	1	5	1	4	0	2	1	4	6	5	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	102956734	T	G	102956734	5	3	316	1	0	0	0	0	0	0	1	0	7663	1652	57	5	459	5	IL1RL1	2	102956734	Splice_Site	SNP	T	TCGA-BP-5001-01A-01D-1462-08	58983643	102956734	140242639	9	15862											
KCNH7	90134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	163279898	163279898	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgtgctggaaatattctTcaagacgttgcctcagaggg	10	11	12	8	2	3	2	2	0	1	2	3	3	3	3	1	2	3	2	1	2	3	4	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	163279898	T	G	163279898	3	3	316	1	0	0	0	0	1	0	0	0	8037	1783	62	5	1586	5	KCNH7	2	163279898	Missense_Mutation	SNP	T	TCGA-BP-5001-01A-01D-1462-08	60323164	163279898	79919475	10	15863											
SATB2	23314	broad.mit.edu;hgsc.bcm.edu	37	chr2	200193631	200193631	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagaatctcagacaacaaTccctgattaaatgggggaaa	16	7	9	9	1	1	3	1	1	1	2	3	4	2	4	1	2	1	1	1	2	6	1	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	200193631	T	A	200193631	2	1	316	1	0	0	0	0	0	0	0	1	13856	1422	50	5		5	SATB2	2	200193631	Silent	SNP	T	TCGA-BP-5001-01A-01D-1462-08	36913733	200193631	43005742	11	15864											
ATG16L1	55054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234178666	234178666	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggcggcaagcccggctGcagaaagagcttgcagaagc	12	3	16	10	2	0	3	0	0	0	3	0	4	0	4	1	4	5	5	1	4	3	1	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	234178666	G	T	234178666	2	4	316	1	0	0	0	0	0	0	0	1	1091	1306	46	4		4	ATG16L1	2	234178666	Silent	SNP	G	TCGA-BP-5001-01A-01D-1462-08	33985035	234178666	9020707	12	15865											
ITIH3	3699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52842629	52842629	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggttgtctgctggttcGtccacaacaacggagaaggg	10	8	14	9	3	1	1	0	0	1	1	3	3	2	1	1	4	3	3	1	4	4	2	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	52842629	G	A	52842629	3	1	316	1	0	0	0	0	1	0	0	0	7905	1145	40	1	2691	1	ITIH3	3	52842629	Missense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08		52842629	145179801	13	15866											
MYNN	55892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	169502437	169502437	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatttatctgcgaattatGtggaaattcttacacagata	14	14	6	7	1	2	1	0	0	2	1	2	3	2	2	1	1	2	0	1	1	6	6	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	169502437	G	T	169502437	3	4	316	1	0	0	0	0	1	0	0	0	10061	1377	48	4	1533	4	MYNN	3	169502437	Missense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08	116659808	169502437	28519993	14	15867											
SH3BP2	6452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2833702	2833702	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggagtcctgcgaagtggAaaggtcagcacaaagccctg	12	5	13	11	2	1	0	1	0	0	0	2	3	2	2	2	3	3	1	2	3	3	0	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	2833702	A	G	2833702	3	3	316	1	0	0	0	0	1	0	0	0	14247	246	9	3	1696	3	SH3BP2	4	2833702	Missense_Mutation	SNP	A	TCGA-BP-5001-01A-01D-1462-08		2833702	188320574	15	15868											
GUCY1B3	2983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	156723600	156723600	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctctttagtggcattGtgggcttcaatgctttctgt	5	17	9	10	0	3	0	1	0	2	0	4	0	4	0	2	2	1	3	2	2	2	5	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	156723600	G	A	156723600	3	1	316	1	0	0	0	0	1	0	0	0	6895	1377	48	2	1320	2	GUCY1B3	4	156723600	Missense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08	153889898	156723600	34430676	16	15869											
PCDHGA2	56113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140718869	140718869	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaattttaacattctgctgGaggataaattgactatttat	13	17	7	4	0	1	2	0	2	1	0	1	4	1	4	0	2	2	1	0	2	6	8	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	140718869	G	T	140718869	4	4	316	1	0	0	0	0	0	1	0	0	11554	1175	41	4	333	4	PCDHGA2	5	140718869	Nonsense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08		140718869	40196391	17	15870											
LAMA4	3910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	112513053	112513053	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catagtaaccgggagcacatCtgaagaggaatatcacacat	16	7	9	9	1	2	2	1	1	1	1	2	4	2	4	1	2	2	2	1	2	5	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	112513053	C	G	112513053	5	3	316	1	0	0	0	0	0	0	1	0	8608	927	32	4	5104	4	LAMA4	6	112513053	Splice_Site	SNP	C	TCGA-BP-5001-01A-01D-1462-08		112513053	58602014	18	15871											
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu	37	chr7	21639512	21639512	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcaggctataatgcaCgacttagacttctttctgaa	10	17	6	8	1	3	2	1	1	2	1	3	3	3	2	0	1	1	2	0	1	4	8	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	21639512	C	T	21639512	2	4	316	1	0	0	0	0	0	0	0	1	4599	535	19	1		1	DNAH11	7	21639512	Silent	SNP	C	TCGA-BP-5001-01A-01D-1462-08		21639512	137499151	19	15872											
KIAA0196	9897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	126075842	126075842	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccgctccgaaccctcttTcttgtaatgctcccatttgg	6	14	6	15	2	2	0	0	0	2	0	5	1	5	0	4	1	2	3	4	1	2	4	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		C	126075842	T	C	126075842	3	2	316	1	0	0	0	0	1	0	0	0	8161	1792	62	3	2225	3	KIAA0196	8	126075842	Missense_Mutation	SNP	T	TCGA-BP-5001-01A-01D-1462-08		126075842	20288180	20	15873											
PTCH1	5727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	98209386	98209386	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaggcccagggacaggCggcgggtgcacggcgacagt	7	2	18	14	5	0	0	0	0	0	0	0	2	0	1	2	6	1	1	2	6	0	0	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	98209386	C	G	98209386	2	3	316	1	0	0	0	0	0	0	0	1	12732	755	27	4		4	PTCH1	9	98209386	Silent	SNP	C	TCGA-BP-5001-01A-01D-1462-08		98209386	43004045	21	15874											
WAC	51322	hgsc.bcm.edu;ucsc.edu	37	chr10	28878756	28878756	+	Frame_Shift_Del	DEL	A	A	-																															aacagaagtttcacaatgggAaaaaccaaaagagtggcttg																								novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		-	28878756	A	-	28878756	7	5	316	1	0	1	0	1	0	0	0	0	17246	246	9	0	491	0	WAC	10	28878756	Frame_Shift_Del	DEL	A	TCGA-BP-5001-01A-01D-1462-08		28878756	106655991	22	15875											
DDX50	79009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70695795	70695795	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgtgtaggtgttccttctAcaatggatttagttaaatct	11	16	8	6	1	2	0	0	0	2	0	3	1	3	1	1	2	2	3	1	2	7	7	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	70695795	A	G	70695795	3	3	316	1	0	0	0	0	1	0	0	0	4368	391	14	3	1597	3	DDX50	10	70695795	Missense_Mutation	SNP	A	TCGA-BP-5001-01A-01D-1462-08	41817039	70695795	64838952	23	15876											
VWA2	340706	broad.mit.edu	37	chr10	116045700	116045700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgtgatccccgcagccCtgaagctgagcctggaatgc	7	9	12	13	1	0	3	0	3	0	0	1	4	1	4	4	1	5	3	4	1	2	1	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	116045700	A	A	116045700	3	1	316	1	0	0	0	0	1	0	0	0	17238	680	24	4	1038	4	VWA2	10	116045700	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08	45349905	116045700	19489047	24	15877											
C11orf30	56946	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	76261122	76261122	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggagacagcaatggagcagGacatagacagtagcacggag	16	3	15	7	1	0	2	0	0	0	2	0	6	0	5	0	4	3	4	0	4	3	2	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	76261122	G	A	76261122	3	1	316	1	0	0	0	0	1	0	0	0	1636	1174	41	2	3979	2	C11orf30	11	76261122	Missense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08		76261122	58745394	25	15878											
CHD4	1108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6701634	6701634	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaacacatcggctttgAgccgccgcaacatgtgcggc	8	9	11	13	4	1	2	0	2	1	0	2	2	1	2	2	2	4	2	2	2	2	2	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	6701634	A	T	6701634	3	4	316	1	0	0	0	0	1	0	0	0	3327	304	11	5	2953	5	CHD4	12	6701634	Missense_Mutation	SNP	A	TCGA-BP-5001-01A-01D-1462-08		6701634	127150261	26	15879											
SLCO1A2	6579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21454187	21454187	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaaggaccaataatagcTcctgtttctacaagccctaa	15	10	5	11	0	2	0	1	0	1	0	3	1	3	1	3	1	3	2	3	1	7	5	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	21454187	T	A	21454187	2	1	316	1	0	0	0	0	0	0	0	1	14724	1538	54	5		5	SLCO1A2	12	21454187	Silent	SNP	T	TCGA-BP-5001-01A-01D-1462-08	14752553	21454187	112397708	27	15880											
PCBP2	5094	broad.mit.edu;hgsc.bcm.edu	37	chr12	53853119	53853119	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccggtcaccctgaggctgGtggtccctgctagtcagtgt	4	10	13	14	1	2	1	2	1	0	0	3	1	3	1	4	4	1	2	4	4	1	1	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	53853119	G	A	53853119	3	1	316	1	0	0	0	0	1	0	0	0	11501	1261	44	2	325	2	PCBP2	12	53853119	Missense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08	32398932	53853119	79998776	28	15881											
GAS2L3	283431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	101017385	101017385	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcgcgttggtggaggctggGatactcttcaaggatttttg	6	15	14	6	2	2	0	1	0	1	0	3	3	2	3	0	5	1	2	0	5	2	6	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	101017385	G	A	101017385	3	1	316	1	0	0	0	0	1	0	0	0	6248	1174	41	2	832	2	GAS2L3	12	101017385	Missense_Mutation	SNP	G	TCGA-BP-5001-01A-01D-1462-08	47164266	101017385	32834510	29	15882											
GCN1L1	10985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120622633	120622633	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctgggactcacctatatCgatgcagagtcaagcagaac	12	8	11	10	1	2	2	2	0	0	2	3	4	2	3	1	2	3	3	1	2	4	2	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	120622633	C	T	120622633	3	4	316	1	0	0	0	0	1	0	0	0	6299	884	31	1	8060	1	GCN1L1	12	120622633	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08	19605248	120622633	13229262	30	15883											
FLRT2	23768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	86088842	86088842	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acagaatggctcaaatatatCccttcatctctcaacgtgcg	12	11	6	12	2	4	1	3	0	1	1	6	1	5	1	1	1	2	1	1	1	5	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	86088842	C	T	86088842	2	4	316	1	0	0	0	0	0	0	0	1	5939	845	30	2		2	FLRT2	14	86088842	Silent	SNP	C	TCGA-BP-5001-01A-01D-1462-08		86088842	21260698	31	15884											
TRADD	8717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67190505	67190505	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccttgtccagcgaggacTccacaaacaggtatgcgctg	10	7	10	14	2	0	0	0	0	0	0	2	2	2	1	4	2	3	2	4	2	2	2	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		C	67190505	T	C	67190505	3	2	316	1	0	0	0	0	1	0	0	0	16435	1551	54	3	895	3	TRADD	16	67190505	Missense_Mutation	SNP	T	TCGA-BP-5001-01A-01D-1462-08		67190505	23164248	32	15885											
ATMIN	23300	hgsc.bcm.edu	37	chr16	81069751	81069751	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccgtgcgcggctgcggCaagatcctgcccaacagccc	7	5	12	17	4	0	1	0	0	0	1	1	1	1	1	4	2	6	3	4	2	2	0	rs150799758	byfrequency	TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	81069751	C	G	81069751	2	3	316	1	0	0	0	0	0	0	0	1	1110	697	25	4		4	ATMIN	16	81069751	Silent	SNP	C	TCGA-BP-5001-01A-01D-1462-08	13879246	81069751	9285002	33	15886											
CHAD	1101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48543170	48543170	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagggtagctggttcaagCggttgttctccaaatggacg	8	11	15	7	2	2	0	1	0	1	0	3	2	2	2	1	5	2	5	1	5	3	4	rs142146358		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	48543170	C	T	48543170	3	4	316	1	0	0	0	0	1	0	0	0	3310	768	27	1	251	1	CHAD	17	48543170	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08		48543170	32652040	34	15887											
GRIN3B	116444	broad.mit.edu	37	chr19	1003373	1003374	+	Frame_Shift_Ins	INS	-	G	G																															cgcctggccccgatggcggcINSgccagtggggggtgaagcac																								novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	1003374	G	G	1003373	7	5	316	1	0	1	1	0	0	0	0	0	6784	768	27	0	677	0	GRIN3B	19	1003373	Frame_Shift_Ins	INS	-	TCGA-BP-5001-01A-01D-1462-08		1003373	58125610	35	15888											
PTPRS	5802	broad.mit.edu	37	chr19	5231368	5231368	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgagctctcgggccctggtCccacctctgtgtgagcgaca	5	8	13	15	3	2	1	0	1	2	0	4	3	3	1	3	2	2	1	3	2	0	0	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	5231368	A	A	5231368	3	1	316	1	0	0	0	0	1	0	0	0	12813	855	30	4	3838	4	PTPRS	19	5231368	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08	4227995	5231368	53897615	36	15889											
PLEKHG2	64857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39915872	39915872	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgctctcttggcctccAcacaggaatctatgggcctt	7	11	8	15	0	2	0	0	0	2	0	4	1	3	1	4	3	1	1	4	3	2	3	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		G	39915872	A	G	39915872	3	3	316	1	0	0	0	0	1	0	0	0	12069	159	6	3	4169	3	PLEKHG2	19	39915872	Missense_Mutation	SNP	A	TCGA-BP-5001-01A-01D-1462-08	34684504	39915872	19213111	37	15890											
C20orf11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	61574871	61574871	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatttgatcgagctgatcCgccagcgggagacagaggcg	10	6	15	10	4	0	4	0	2	0	2	2	6	1	4	2	2	3	2	2	2	0	1	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		T	61574871	C	T	61574871	3	4	316	1	0	0	0	0	1	0	0	0	2079	652	23	1	350	1	C20orf11	20	61574871	Missense_Mutation	SNP	C	TCGA-BP-5001-01A-01D-1462-08		61574871	1450649	38	15891											
RNF113A	7737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	119004755	119004755	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaataatgcctgcacttggtGacaactgggttttggaagct	11	12	11	7	0	0	1	0	1	0	0	0	2	0	2	1	3	4	3	1	3	4	4	novel		TCGA-BP-5001-01A-01D-1462-08	TCGA-BP-5001-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	35f1f66f-e018-489c-915f-a12d7a15dc72	f3051a5d-409a-44db-8ad3-2cf4b12da802		A	119004755	G	A	119004755	2	1	316	1	0	0	0	0	0	0	0	1	13429	1277	45	2		2	RNF113A	23	119004755	Silent	SNP	G	TCGA-BP-5001-01A-01D-1462-08		119004755	36265805	39	15892											
SYT11	23208	hgsc.bcm.edu;ucsc.edu	37	chr1	155829566	155829566	+	Frame_Shift_Del	DEL	C	C	-																															ttacgacatggctgagatcaCcaatatccgacctagctttg																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	155829566	C	-	155829566	7	5	317	1	0	1	0	1	0	0	0	0	15466	507	18	0	16	0	SYT11	1	155829566	Frame_Shift_Del	DEL	C	TCGA-BP-5004-01A-01D-1462-08		155829566	93421055	1	15893											
MEMO1	51072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32117195	32117195	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaataatggtaaactcaTccttatggcttaaagaaaac	17	10	7	7	0	1	1	1	0	0	1	2	2	2	2	1	3	2	2	1	3	9	4	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	32117195	T	G	32117195	3	3	317	1	0	0	0	0	1	0	0	0	9471	1435	50	5	463	5	MEMO1	2	32117195	Missense_Mutation	SNP	T	TCGA-BP-5004-01A-01D-1462-08		32117195	211082178	2	15894											
CCDC75	253635	broad.mit.edu;ucsc.edu	37	chr2	37319307	37319307	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaattttttctttcaattaGaatgcgacttaaaaataagc	16	15	4	6	1	2	1	1	0	1	1	2	2	2	1	0	0	2	0	0	0	8	7	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	37319307	C	C	37319307	5	2	317	1	0	0	0	0	0	0	1	0	2849	956	33	4	455	4	CCDC75	2	37319307	Splice_Site	SNP	G	TCGA-BP-5004-01A-01D-1462-08	5202112	37319307	205880066	3	15895											
KIF5C	3800	broad.mit.edu;hgsc.bcm.edu	37	chr2	149793902	149793902	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctggagtttcacataaaGgtacgtattactgattggtc	12	13	9	7	1	1	1	1	1	0	0	2	2	1	2	1	3	3	3	1	3	6	6	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	149793902	G	T	149793902	3	4	317	1	0	0	0	0	1	0	0	0	8307	1014	35	4	332	4	KIF5C	2	149793902	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08	112474595	149793902	93405471	4	15896											
TTC30A	92104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178482340	178482340	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctggcaagtgatcagggCatctaagaagtcatagagat	13	10	12	6	0	4	3	2	1	2	2	4	4	4	3	0	2	0	2	0	2	4	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	178482340	C	T	178482340	3	4	317	1	0	0	0	0	1	0	0	0	16697	710	25	2	911	2	TTC30A	2	178482340	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	28688438	178482340	64717033	5	15897											
TNS1	7145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	218713105	218713105	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctctggtagccagctaaaCcctcctgtgcagagtaggag	9	8	11	13	0	1	1	0	0	1	1	2	2	2	2	4	2	4	4	4	2	4	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	218713105	C	A	218713105	3	1	317	1	0	0	0	0	1	0	0	0	16342	507	18	4	3515	4	TNS1	2	218713105	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	40230765	218713105	24486268	6	15898											
VHL	7428	hgsc.bcm.edu	37	chr3	10183833	10183833	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcagccctacccaacgcTgccgcctggcacgggccgcc	5	3	12	21	5	0	0	0	0	0	0	0	0	0	0	7	2	4	3	7	2	2	1	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	10183833	T	C	10183833	3	2	317	1	0	0	0	0	1	0	0	0	17161	1580	55	3	304	3	VHL	3	10183833	Missense_Mutation	SNP	T	TCGA-BP-5004-01A-01D-1462-08		10183833	187838597	7	15899											
GNAT1	2779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50231595	50231595	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgagggcgtgacctgcAtcatcttcatcgcggcgctg	5	10	13	13	5	3	1	2	1	1	0	5	2	3	1	1	2	1	3	1	2	0	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	50231595	A	G	50231595	3	3	317	1	0	0	0	0	1	0	0	0	6511	217	8	3	671	3	GNAT1	3	50231595	Missense_Mutation	SNP	A	TCGA-BP-5004-01A-01D-1462-08	40047762	50231595	147790835	8	15900											
SFMBT1	51460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52940142	52940142	+	Frame_Shift_Del	DEL	A	A	-																															tgattacctggtctaggaatAttcttgctaatggagcacag																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	52940142	A	-	52940142	7	5	317	1	0	1	0	1	0	0	0	0	14159	449	16	0	161	0	SFMBT1	3	52940142	Frame_Shift_Del	DEL	A	TCGA-BP-5004-01A-01D-1462-08	2708547	52940142	145082288	9	15901											
C3orf37	56941	broad.mit.edu;hgsc.bcm.edu	37	chr3	129023468	129023468	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtagccagaggatgttgCagtggttggccacaaagtca	11	8	14	8	0	1	1	1	0	0	1	1	2	1	2	2	3	2	5	2	3	2	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	129023468	C	T	129023468	4	4	317	1	0	0	0	0	0	1	0	0	2227	711	25	2	887	2	C3orf37	3	129023468	Nonsense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	76083326	129023468	68998962	10	15902											
ATP13A4	84239	hgsc.bcm.edu;ucsc.edu	37	chr3	193159265	193159267	+	In_Frame_Del	DEL	AGG	AGG	-																															tagaacttacctttggcagtAggctgctgaaatgttgactt																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	193159267	AGG	-	193159265	7	5	317	1	0	1	0	1	0	0	0	0	1126	420	15	0	1205	0	ATP13A4	3	193159265	In_Frame_Del	DEL	AGG	TCGA-BP-5004-01A-01D-1462-08	64135797	193159265	4863165	11	15903											
NDUFC1	4717	hgsc.bcm.edu;ucsc.edu	37	chr4	140216207	140216209	+	In_Frame_Del	DEL	AAG	AAG	-																															aagtacttacatagatccacAagaagacagtggtgcccaag																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	140216209	AAG	-	140216207	7	5	317	1	0	1	0	1	0	0	0	0	10289	131	5	0	77	0	NDUFC1	4	140216207	In_Frame_Del	DEL	AAG	TCGA-BP-5004-01A-01D-1462-08		140216207	50938069	12	15904											
DHX29	54505	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54585151	54585151	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaataaattaaaattcaatGcactttctccttctgtggct	13	15	4	9	0	3	0	1	0	2	0	4	0	3	0	1	1	1	2	1	1	6	5	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	54585151	G	A	54585151	3	1	317	1	0	0	0	0	1	0	0	0	4503	1319	46	2	3176	2	DHX29	5	54585151	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08		54585151	126330109	13	15905											
PCDHA10	56139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140236546	140236546	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgggagaaataaaagtaaatGatgctattgactttgaggac	16	10	11	4	1	0	4	0	3	0	1	0	6	0	5	0	2	1	2	0	2	6	5	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	140236546	G	A	140236546	3	1	317	1	0	0	0	0	1	0	0	0	11520	1290	45	2	915	2	PCDHA10	5	140236546	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08	85651395	140236546	40678714	14	15906											
MYO6	4646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	76570739	76570739	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgattatttcatttttaGgaacaagaactctatcaaaa	16	16	4	5	0	3	2	2	1	1	1	3	3	3	3	0	1	2	0	0	1	9	7	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	76570739	G	C	76570739	5	2	317	1	0	0	0	0	0	0	1	0	10081	1014	35	4	1527	4	MYO6	6	76570739	Splice_Site	SNP	G	TCGA-BP-5004-01A-01D-1462-08		76570739	94544328	15	15907											
MLLT4	4301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	168363200	168363200	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcgaggcaagaggaagagCgccggcggcaggaggaggag	12	0	22	7	4	0	2	0	0	0	2	0	8	0	6	1	7	2	2	1	7	2	0	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	168363200	C	T	168363200	3	4	317	1	0	0	0	0	1	0	0	0	9629	768	27	1	5130	1	MLLT4	6	168363200	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	91792461	168363200	2751867	16	15908											
USP42	84132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6190120	6190120	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagcaacaaactgaaaggCtcgacggatgaaatgaggta	16	7	11	7	2	0	3	0	3	0	0	1	5	0	4	0	3	3	3	0	3	6	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	6190120	C	T	6190120	2	4	317	1	0	0	0	0	0	0	0	1	17072	784	28	2		2	USP42	7	6190120	Silent	SNP	C	TCGA-BP-5004-01A-01D-1462-08		6190120	152948543	17	15909											
GLI3	2737	broad.mit.edu;hgsc.bcm.edu	37	chr7	42006052	42006052	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacgcctcgctggagcggcgGctggagaagcagggcgagat	8	4	19	10	5	0	2	0	0	0	2	1	6	0	3	1	5	2	3	1	5	1	0	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	42006052	G	T	42006052	3	4	317	1	0	0	0	0	1	0	0	0	6439	1194	42	4	2127	4	GLI3	7	42006052	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08	35815932	42006052	117132611	18	15910											
CCDC146	57639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	76916144	76916144	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtacagacagaattaaagaCctggagaaacagttcgtaaa	18	8	9	6	1	0	4	0	0	0	4	1	5	0	4	1	1	2	3	1	1	7	4	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	76916144	C	T	76916144	2	4	317	1	0	0	0	0	0	0	0	1	2780	506	18	2		2	CCDC146	7	76916144	Silent	SNP	C	TCGA-BP-5004-01A-01D-1462-08	34910092	76916144	82222519	19	15911											
C7orf51	0	hgsc.bcm.edu;ucsc.edu	37	chr7	100086161	100086161	+	Frame_Shift_Del	DEL	G	G	-																															acccgctgccggaagaggctGgggaaggccgggccaatggc																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	100086161	G	-	100086161	7	5	317	1	0	1	0	1	0	0	0	0	2400	1348	47	0	827	0	C7orf51	7	100086161	Frame_Shift_Del	DEL	G	TCGA-BP-5004-01A-01D-1462-08	23170017	100086161	59052502	20	15912											
RNF148	378925	broad.mit.edu;hgsc.bcm.edu	37	chr7	122342196	122342196	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcaatctaagtaaaagtaGgcaattgtggcagccaggaa	16	7	11	7	1	1	0	0	0	1	0	1	1	1	1	1	3	1	5	1	3	7	4	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	122342196	G	C	122342196	2	2	317	1	0	0	0	0	0	0	0	1	13451	987	35	4		4	RNF148	7	122342196	Silent	SNP	G	TCGA-BP-5004-01A-01D-1462-08	22256035	122342196	36796467	21	15913											
SH2D3C	10044	hgsc.bcm.edu;ucsc.edu	37	chr9	130502552	130502552	+	Frame_Shift_Del	DEL	G	G	-																															agtacctttgccctcgttgaGgctcttgagaaaaggcttga																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	130502552	G	-	130502552	7	5	317	1	0	1	0	1	0	0	0	0	14236	1000	35	0	409	0	SH2D3C	9	130502552	Frame_Shift_Del	DEL	G	TCGA-BP-5004-01A-01D-1462-08		130502552	10710879	22	15914											
COL5A1	1289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	137623935	137623935	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agattggaggacctcggggcGagaaaggccaaaagggagaa	15	3	17	6	2	0	3	0	0	0	3	1	7	0	5	2	6	0	0	2	6	4	1	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	137623935	G	A	137623935	3	1	317	1	0	0	0	0	1	0	0	0	3696	1059	37	1	1385	1	COL5A1	9	137623935	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08	7121383	137623935	3589496	23	15915											
BEND7	222389	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	13523079	13523079	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatatagagtccagctgagAtttaggcataaacacgtcaa	16	9	8	8	1	1	2	1	1	0	2	2	3	2	2	1	1	2	2	1	1	7	5	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	13523079	A	G	13523079	3	3	317	1	0	0	0	0	1	0	0	0	1403	333	12	3	707	3	BEND7	10	13523079	Missense_Mutation	SNP	A	TCGA-BP-5004-01A-01D-1462-08		13523079	122011668	24	15916											
TNNT3	7140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1955173	1955173	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgcaggagaagcgccgtGcagagagagcggagcagcag	11	2	19	9	3	0	3	0	0	0	3	0	6	0	4	1	3	6	5	1	3	1	0	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	1955173	G	A	1955173	3	1	317	1	0	0	0	0	1	0	0	0	16331	1319	46	2	380	2	TNNT3	11	1955173	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08		1955173	133051343	25	15917											
FADS2	9415	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61608124	61608124	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatggctgcaacatgattAtggccacctgtctgtctaca	9	12	10	10	0	2	1	0	1	2	0	2	2	2	2	2	3	3	2	2	3	3	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	61608124	A	C	61608124	3	2	317	1	0	0	0	0	1	0	0	0	5366	449	16	5	559	5	FADS2	11	61608124	Missense_Mutation	SNP	A	TCGA-BP-5004-01A-01D-1462-08	59652951	61608124	73398392	26	15918											
PPFIA1	8500	hgsc.bcm.edu;ucsc.edu	37	chr11	70172880	70172888	+	In_Frame_Del	DEL	AAATCTGAA	AAATCTGAA	-																															cggctagaaaagatctcatcAaatctgaagaaatgaacaca																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	AAATCTGAA	AAATCTGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	70172888	AAATCTGAA	-	70172880	7	5	317	1	0	1	0	1	0	0	0	0	12309	131	5	0	908	0	PPFIA1	11	70172880	In_Frame_Del	DEL	AAATCTGAA	TCGA-BP-5004-01A-01D-1462-08	8564756	70172880	64833636	27	15919											
DEFB108B	245911	broad.mit.edu;hgsc.bcm.edu	37	chr11	71548458	71548458	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catgtagccaggggcaaattCaaggagatctgtgaacgtcc	12	8	12	9	1	2	2	1	1	1	1	3	3	3	2	2	3	2	2	2	3	4	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	71548458	C	G	71548458	3	3	317	1	0	0	0	0	1	0	0	0	4399	825	29	4	78	4	DEFB108B	11	71548458	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	1375578	71548458	63458058	28	15920											
UVRAG	7405	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	75852292	75852292	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccacaggtttcgcctcAggtgatcagctagaagcatt	11	9	11	10	1	2	2	2	1	0	1	3	3	2	2	2	2	3	3	2	2	3	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	75852292	A	T	75852292	2	4	317	1	0	0	0	0	0	0	0	1	17107	175	7	5		5	UVRAG	11	75852292	Silent	SNP	A	TCGA-BP-5004-01A-01D-1462-08	4303834	75852292	59154224	29	15921											
DIP2B	57609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51127944	51127944	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggcctgatccgactacTgtgtatgtggatctgaaatc	9	12	11	9	1	2	2	1	2	1	0	4	4	3	3	2	2	1	1	2	2	3	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	51127944	T	C	51127944	2	2	317	1	0	0	0	0	0	0	0	1	4528	1567	55	3		3	DIP2B	12	51127944	Silent	SNP	T	TCGA-BP-5004-01A-01D-1462-08		51127944	82723951	30	15922											
UNC119B	84747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121154504	121154504	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgttttgtccgctatcagttCacaccggcatttctccgcct	5	14	7	15	4	3	0	2	0	1	0	5	0	4	0	4	1	0	4	4	1	1	5	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	121154504	C	G	121154504	3	3	317	1	0	0	0	0	1	0	0	0	16982	825	29	4	442	4	UNC119B	12	121154504	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	70026560	121154504	12697391	31	15923											
FAM70B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	114469231	114469231	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactacccagggatcattGtgagtgcgccgggcgggcgg	6	7	17	11	4	1	1	1	1	0	0	1	2	1	2	2	4	3	1	2	4	2	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	114469231	G	T	114469231	5	4	317	1	0	0	0	0	0	0	1	0	5606	1391	48	4	196	4	FAM70B	13	114469231	Splice_Site	SNP	G	TCGA-BP-5004-01A-01D-1462-08		114469231	700647	32	15924											
RNASE3	6037	hgsc.bcm.edu;ucsc.edu	37	chr14	21359893	21359893	+	Frame_Shift_Del	DEL	G	G	-																															atttgtctgcttcttctgttGgggcttatgggtgtggaggg																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	21359893	G	-	21359893	7	5	317	1	0	1	0	1	0	0	0	0	13407	1339	47	0	50	0	RNASE3	14	21359893	Frame_Shift_Del	DEL	G	TCGA-BP-5004-01A-01D-1462-08		21359893	85989647	33	15925											
NUMB	8650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	73759584	73759584	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtcaactatgaggtccTagaaaatacgacacacaaag	16	8	8	9	1	2	2	1	1	1	1	3	3	3	2	1	2	2	0	1	2	7	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	73759584	T	C	73759584	5	2	317	1	0	0	0	0	0	0	1	0	10751	1536	53	3	1671	3	NUMB	14	73759584	Splice_Site	SNP	T	TCGA-BP-5004-01A-01D-1462-08	52399691	73759584	33589956	34	15926											
CAPN3	825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42678049	42678049	+	RNA	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagaacaacccagttatGatcacctactgctctgtctc	12	10	7	12	0	3	2	1	1	2	1	4	3	3	3	2	1	4	2	2	1	5	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	42678049	G	T	42678049	1	4	317	0	1	0	0	0	0	0	0	0	2628	1305	45	4		4	CAPN3	15	42678049	RNA	SNP	G	TCGA-BP-5004-01A-01D-1462-08		42678049	59853343	35	15927											
TP53BP1	7158	hgsc.bcm.edu;ucsc.edu	37	chr15	43724668	43724668	+	Frame_Shift_Del	DEL	C	C	-																															ttagtactccgtccttctttCtggtcttctagcacatctgt																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	43724668	C	-	43724668	7	5	317	1	0	1	0	1	0	0	0	0	16382	912	32	0	2582	0	TP53BP1	15	43724668	Frame_Shift_Del	DEL	C	TCGA-BP-5004-01A-01D-1462-08	1046619	43724668	58806724	36	15928											
TLN2	83660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63030474	63030474	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctccctgggcagaaggAtgtggacgtggccttgaaga	8	9	15	9	1	0	3	0	1	0	2	1	5	1	5	3	4	1	1	3	4	2	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	63030474	A	T	63030474	3	4	317	1	0	0	0	0	1	0	0	0	15947	333	12	5	3735	5	TLN2	15	63030474	Missense_Mutation	SNP	A	TCGA-BP-5004-01A-01D-1462-08	19305806	63030474	39500918	37	15929											
SEPX1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1990864	1990864	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttcaggaactcgtggccCaacccattgccacacttgcc	8	9	8	16	2	1	0	1	0	0	0	3	1	1	1	4	2	4	1	4	2	2	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	1990864	C	G	1990864	3	3	317	1	0	0	0	0	1	0	0	0	14075	593	21	4	124	4	SEPX1	16	1990864	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08		1990864	88363889	38	15930											
ALDOA	226	hgsc.bcm.edu;ucsc.edu	37	chr16	30078964	30078964	+	Frame_Shift_Del	DEL	C	C	-																															caagttatcaaatccaagggCggtgttgtgggcatcaaggt																								novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		-	30078964	C	-	30078964	7	5	317	1	0	1	0	1	0	0	0	0	507	755	27	0	312	0	ALDOA	16	30078964	Frame_Shift_Del	DEL	C	TCGA-BP-5004-01A-01D-1462-08	28088100	30078964	60275789	39	15931											
PRPF8	10594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1586888	1586888	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtctccatggtctcgaaTgatcttcctgacatgttctg	7	15	8	11	1	4	2	0	2	4	0	7	3	5	2	2	1	0	1	2	1	1	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	1586888	T	G	1586888	3	3	317	1	0	0	0	0	1	0	0	0	12577	1464	51	5	6963	5	PRPF8	17	1586888	Missense_Mutation	SNP	T	TCGA-BP-5004-01A-01D-1462-08		1586888	79608322	40	15932											
C17orf66	256957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34185482	34185482	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctaggatggccttgatGactggggctgagtgcacgtg	6	11	17	7	1	1	3	0	3	1	0	1	4	1	4	1	5	1	2	1	5	1	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	34185482	G	T	34185482	2	4	317	1	0	0	0	0	0	0	0	1	1874	1277	45	4		4	C17orf66	17	34185482	Silent	SNP	G	TCGA-BP-5004-01A-01D-1462-08	32598594	34185482	47009728	41	15933											
PPP1R1B	84152	broad.mit.edu	37	chr17	37785438	37785438	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttagatccggcgcaggagaCcaacgcctgccatgctgttc	8	8	11	14	3	0	2	0	0	0	2	2	3	1	2	4	2	3	3	4	2	2	2	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	37785438	G	G	37785438	3	3	317	1	0	0	0	0	1	0	0	0	12370	507	18	4	103	4	PPP1R1B	17	37785438	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	3599956	37785438	43409772	42	15934											
LRRC59	55379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48470252	48470252	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgtgtgaggccacagaAatccgactaggatccaaaga	14	6	12	9	1	0	3	0	1	0	2	2	5	2	4	3	3	0	0	3	3	3	1	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	48470252	A	T	48470252	3	4	317	1	0	0	0	0	1	0	0	0	9015	14	1	5	771	5	LRRC59	17	48470252	Missense_Mutation	SNP	A	TCGA-BP-5004-01A-01D-1462-08	10684814	48470252	32724958	43	15935											
SERPINB4	6318	broad.mit.edu;hgsc.bcm.edu	37	chr18	61310791	61310791	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaacatgaacttggtgttGgcttcactgagtgaattcat	10	14	10	7	1	2	3	2	3	0	0	3	4	2	3	0	2	2	2	0	2	3	4	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	61310791	G	C	61310791	2	2	317	1	0	0	0	0	0	0	0	1	14105	1335	47	4		4	SERPINB4	18	61310791	Silent	SNP	G	TCGA-BP-5004-01A-01D-1462-08		61310791	16766457	44	15936											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9062883	9062883	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attctgtcattatgctggagGtagggagtctggtgatggtt	7	15	15	4	0	3	1	1	1	2	0	3	3	3	3	0	5	1	3	0	5	2	4	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	9062883	G	A	9062883	3	1	317	1	0	0	0	0	1	0	0	0	9973	1261	44	2	19288	2	MUC16	19	9062883	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08		9062883	50066100	45	15937											
ZNF492	57615	broad.mit.edu;hgsc.bcm.edu	37	chr19	22836216	22836216	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgtgatgttagagaactaCagaaacctggtcttcgtggg	12	11	12	6	1	1	3	0	1	1	2	2	4	1	3	1	2	3	1	1	2	5	3	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		A	22836216	C	A	22836216	4	1	317	1	0	0	0	0	0	1	0	0	17942	489	17	4	17	4	ZNF492	19	22836216	Nonsense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08	13773333	22836216	36292767	46	15938											
LILRB3	11025	broad.mit.edu	37	chr19	54746128	54746128	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacaccagatggtcacgggGctcccccagctgatcacaga	10	6	11	14	1	2	4	2	2	0	2	3	4	3	4	3	3	1	2	3	3	0	0	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		C	54746128	C	C	54746128	3	2	317	1	0	0	0	0	1	0	0	0	8792	1194	42	4		4	LILRB3	19	54746128	Missense_Mutation	SNP	G	TCGA-BP-5004-01A-01D-1462-08	31909912	54746128	4382855	47	15939											
EEF1A2	1917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62122020	62122020	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggtgatgttcactggcgCaaaggtcaccaccatgcccg	9	8	12	12	2	2	1	2	1	0	0	2	1	2	1	3	3	1	2	3	3	1	1	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		T	62122020	C	T	62122020	3	4	317	1	0	0	0	0	1	0	0	0	4924	710	25	2	562	2	EEF1A2	20	62122020	Missense_Mutation	SNP	C	TCGA-BP-5004-01A-01D-1462-08		62122020	903500	48	15940											
CHAF1B	8208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37783835	37783835	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccgtgcttctgtatgacAcccagcagtccttccctttt	6	15	6	14	1	1	1	0	1	1	0	4	1	4	1	4	0	2	3	4	0	1	6	novel		TCGA-BP-5004-01A-01D-1462-08	TCGA-BP-5004-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e3d82fe4-b491-4172-86da-429cf16508de	5df4ce0c-d0cf-4b9e-8182-ee09f3a2be9c		G	37783835	A	G	37783835	3	3	317	1	0	0	0	0	1	0	0	0	3312	159	6	3	1032	3	CHAF1B	21	37783835	Missense_Mutation	SNP	A	TCGA-BP-5004-01A-01D-1462-08		37783835	10346060	49	15941											
GPN1	11321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27851883	27851883	+	RNA	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcggaagtttctctaccCatgcggtgtctctatggtcg	6	14	11	10	3	2	0	0	0	2	0	5	1	2	1	1	3	3	1	1	3	3	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	27851883	C	A	27851883	1	1	318	0	1	0	0	0	0	0	0	0	6617	609	21	4		4	GPN1	2	27851883	RNA	SNP	C	TCGA-BP-5006-01A-01D-1462-08		27851883	215347490	1	15942											
FABP1	2168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	88425757	88425757	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccgtgaattcgttttGgatcactttggacccagcgg	7	11	10	13	3	1	1	1	1	0	0	2	3	1	3	4	3	1	1	4	3	1	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		C	88425757	G	C	88425757	3	2	318	1	0	0	0	0	1	0	0	0	5355	1357	47	4	217	4	FABP1	2	88425757	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08	60573874	88425757	154773616	2	15943											
C2orf69	205327	hgsc.bcm.edu;ucsc.edu	37	chr2	200790244	200790244	+	Frame_Shift_Del	DEL	A	A	-																															ttactttgattggattcagtAaaggttgtgttgttttgaat																								novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		-	200790244	A	-	200790244	7	5	318	1	0	1	0	1	0	0	0	0	2188	363	13	0	799	0	C2orf69	2	200790244	Frame_Shift_Del	DEL	A	TCGA-BP-5006-01A-01D-1462-08	112364487	200790244	42409129	3	15944											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183788	10183788	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtccgcgcgtcgtgctgcCcgtatggctcaacttcgacg	5	9	12	15	7	1	0	1	0	0	0	4	1	2	0	2	1	3	3	2	1	2	2	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	10183788	C	T	10183788	3	4	318	1	0	0	0	0	1	0	0	0	17161	623	22	2	259	2	VHL	3	10183788	Missense_Mutation	SNP	C	TCGA-BP-5006-01A-01D-1462-08		10183788	187838642	4	15945											
SETD2	29072	broad.mit.edu	37	chr3	47161671	47161671	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaagtattaattagacttaCctttctgttaaataaacatt	16	16	3	6	0	1	1	0	0	1	1	1	1	1	1	1	0	2	2	1	0	9	8	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	47161671	G	G	47161671	5	3	318	1	0	0	0	0	0	0	1	0	14133	521	18	4	3315	4	SETD2	3	47161671	Splice_Site	SNP	C	TCGA-BP-5006-01A-01D-1462-08	36977883	47161671	150860759	5	15946											
SEC61A1	29927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	127785928	127785928	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggtgtccaacctttatgtCatctcccaaatgctctcagc	8	13	6	14	0	3	0	2	0	2	0	6	0	4	0	3	1	3	1	3	1	3	2	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	127785928	C	T	127785928	2	4	318	1	0	0	0	0	0	0	0	1	14002	813	29	2		2	SEC61A1	3	127785928	Silent	SNP	C	TCGA-BP-5006-01A-01D-1462-08	80624257	127785928	70236502	6	15947											
NMNAT3	349565	hgsc.bcm.edu;ucsc.edu	37	chr3	139279902	139279902	+	Frame_Shift_Del	DEL	T	T	-																															gcttttgcctttccaggtacTgcccttggtgtagaggccat																								novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		-	139279902	T	-	139279902	7	5	318	1	0	1	0	1	0	0	0	0	10500	1580	55	0	53	0	NMNAT3	3	139279902	Frame_Shift_Del	DEL	T	TCGA-BP-5006-01A-01D-1462-08	11493974	139279902	58742528	7	15948											
P2RY14	9934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150931635	150931635	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactctggttggtgagaataAtatttggaacagcaaggagg	13	10	13	5	0	1	1	0	1	1	1	1	4	1	3	0	5	2	2	0	5	5	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	150931635	A	G	150931635	3	3	318	1	0	0	0	0	1	0	0	0	11351	101	4	3	550	3	P2RY14	3	150931635	Missense_Mutation	SNP	A	TCGA-BP-5006-01A-01D-1462-08	11651733	150931635	47090795	8	15949											
ARHGAP10	79658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148861016	148861016	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagagttgtgggggtgagTtcaaaggtccagagacttct	10	11	14	6	0	2	3	1	1	1	2	3	4	3	3	1	3	1	2	1	3	2	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	148861016	T	A	148861016	3	1	318	1	0	0	0	0	1	0	0	0	862	1722	60	5	1323	5	ARHGAP10	4	148861016	Missense_Mutation	SNP	T	TCGA-BP-5006-01A-01D-1462-08		148861016	42293260	9	15950											
GRIA2	2891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	158257620	158257620	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttcatgagcctcgggatatCtatcatgatcaagaagcctc	11	11	8	11	1	4	3	3	2	1	1	6	4	4	4	2	1	2	0	2	1	4	3	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	158257620	C	G	158257620	3	3	318	1	0	0	0	0	1	0	0	0	6768	913	32	4	1607	4	GRIA2	4	158257620	Missense_Mutation	SNP	C	TCGA-BP-5006-01A-01D-1462-08	9396604	158257620	32896656	10	15951											
IL31RA	133396	broad.mit.edu;hgsc.bcm.edu	37	chr5	55203210	55203210	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattaaaacctttctggtgcTataacatctctgtgtatcca	12	15	5	9	0	2	0	0	0	2	0	4	0	3	0	2	1	3	2	2	1	6	5	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		C	55203210	T	C	55203210	3	2	318	1	0	0	0	0	1	0	0	0	7691	1522	53	3	1314	3	IL31RA	5	55203210	Missense_Mutation	SNP	T	TCGA-BP-5006-01A-01D-1462-08		55203210	125712050	11	15952											
GALNT10	55568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153796478	153796478	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctctctcacccagcaGtggctgtttgaacacaccaa	10	9	6	16	0	2	1	1	1	1	0	4	1	3	1	4	1	2	3	4	1	2	1	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	153796478	G	A	153796478	2	1	318	1	0	0	0	0	0	0	0	1	6208	1020	36	2		2	GALNT10	5	153796478	Silent	SNP	G	TCGA-BP-5006-01A-01D-1462-08	98593268	153796478	27118782	12	15953											
AGXT2L2	85007	hgsc.bcm.edu	37	chr5	177649405	177649406	+	Frame_Shift_Ins	INS	-	-	G																															aaatgccctcgccacaggctINSgggttgcggccacgcaggca																								novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	177649406	-	G	177649405	7	5	318	1	0	1	1	0	0	0	0	0	407	1580	55	0	494	0	AGXT2L2	5	177649405	Frame_Shift_Ins	INS	-	TCGA-BP-5006-01A-01D-1462-08	23852927	177649405	3265855	13	15954											
SYCP2L	221711	broad.mit.edu;ucsc.edu	37	chr6	10898272	10898272	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctggtttgaaagaacaacagGaattctgacctcggaaggcc	13	8	11	9	1	1	3	0	2	1	1	2	5	1	5	2	4	2	1	2	4	5	2	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	10898272	A	A	10898272	3	1	318	1	0	0	0	0	1	0	0	0	15432	1174	41	2	383	2	SYCP2L	6	10898272	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08		10898272	160216795	14	15955											
GTPBP2	54676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43592645	43592645	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatcccagtgttggcactgAcgaggagcagggcgcagtcg	9	6	15	11	3	0	1	0	1	0	0	2	3	1	2	1	3	1	4	1	3	1	1	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	43592645	A	T	43592645	3	4	318	1	0	0	0	0	1	0	0	0	6880	275	10	5	976	5	GTPBP2	6	43592645	Missense_Mutation	SNP	A	TCGA-BP-5006-01A-01D-1462-08	32694373	43592645	127522422	15	15956											
AIM1	202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	107009363	107009363	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatctatcaagaaggatgTatcaaatgcagggtgagctt	13	11	12	5	0	3	2	2	1	1	1	3	4	3	4	0	3	2	3	0	3	5	3	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		C	107009363	T	C	107009363	2	2	318	1	0	0	0	0	0	0	0	1	430	1644	57	3		3	AIM1	6	107009363	Silent	SNP	T	TCGA-BP-5006-01A-01D-1462-08	63416718	107009363	64105704	16	15957											
TYW1	55253	broad.mit.edu;hgsc.bcm.edu	37	chr7	66703498	66703498	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagaaagaacaaatcaaaGgctatttctggatgttgaga	17	9	10	5	0	2	3	1	1	1	3	2	6	2	4	0	2	1	2	0	2	5	3	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	66703498	G	T	66703498	3	4	318	1	0	0	0	0	1	0	0	0	16817	991	35	4	2243	4	TYW1	7	66703498	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08		66703498	92435165	17	15958											
WASL	8976	hgsc.bcm.edu	37	chr7	123332871	123332871	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggacctgagttgtgtggagGgggaggaggaggaggtggcc	8	6	23	4	0	0	1	0	1	0	0	0	7	0	7	2	9	0	1	2	9	0	1	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	123332871	G	A	123332871	3	1	318	1	0	0	0	0	1	0	0	0	17255	1232	43	2	652	2	WASL	7	123332871	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08	56629373	123332871	35805792	18	15959											
KLHDC10	23008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129761893	129761893	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacctttccttgttatccaGgctatggccatcatcaatgg	8	14	7	12	0	3	0	3	0	0	0	5	0	5	0	4	3	0	2	4	3	3	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	129761893	G	A	129761893	5	1	318	1	0	0	0	0	0	0	1	0	8355	1014	35	2	648	2	KLHDC10	7	129761893	Splice_Site	SNP	G	TCGA-BP-5006-01A-01D-1462-08	6429022	129761893	29376770	19	15960											
MFHAS1	9258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	8747924	8747924	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaggaaagctatattcaAtctgcaactgctcagccaca	16	9	6	10	0	3	0	2	0	1	0	3	1	3	1	1	1	5	3	1	1	7	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	8747924	A	G	8747924	3	3	318	1	0	0	0	0	1	0	0	0	9521	101	4	3	525	3	MFHAS1	8	8747924	Missense_Mutation	SNP	A	TCGA-BP-5006-01A-01D-1462-08		8747924	137616098	20	15961											
CHD7	55636	broad.mit.edu;ucsc.edu	37	chr8	61768568	61768568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgcttagacaacatctGtgaagcagtgttgaaaggca	15	8	10	8	1	1	3	0	2	1	1	1	3	1	3	1	1	3	4	1	1	5	2	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	61768568	A	A	61768568	3	1	318	1	0	0	0	0	1	0	0	0	3330	1377	48	2	7097	2	CHD7	8	61768568	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08	53020644	61768568	84595454	21	15962											
CDK5RAP2	55755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123292386	123292386	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgaattaaagcttctttgCtcttcaaagacagcttcaac	13	13	5	10	0	4	2	2	1	2	1	4	2	4	2	0	0	4	3	0	0	5	5	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	123292386	C	G	123292386	3	3	318	1	0	0	0	0	1	0	0	0	3146	797	28	4	5110	4	CDK5RAP2	9	123292386	Missense_Mutation	SNP	C	TCGA-BP-5006-01A-01D-1462-08		123292386	17921045	22	15963											
PLXDC2	84898	broad.mit.edu;hgsc.bcm.edu	37	chr10	20465933	20465933	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tccttttttttctagatgttCgaagaagaacaatttatgaa	13	17	6	5	1	1	4	0	1	1	3	3	5	2	4	1	0	1	1	1	0	7	8	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	20465933	C	G	20465933	3	3	318	1	0	0	0	0	1	0	0	0	12118	876	31	4	919	4	PLXDC2	10	20465933	Missense_Mutation	SNP	C	TCGA-BP-5006-01A-01D-1462-08		20465933	115068814	23	15964											
H2AFY2	55506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	71868913	71868913	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaactgcctgtcagcggcGgaggacaagaagctaaagtc	15	5	12	9	2	1	1	1	0	0	1	2	3	1	3	1	3	4	1	1	3	6	1	rs41277966	bycluster;byfrequency;by1000genomes	TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	71868913	G	A	71868913	2	1	318	1	0	0	0	0	0	0	0	1	6930	1103	39	1		1	H2AFY2	10	71868913	Silent	SNP	G	TCGA-BP-5006-01A-01D-1462-08	51402980	71868913	63665834	24	15965											
PCGF6	84108	broad.mit.edu	37	chr10	105110747	105110747	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcggggagacaggaggcGgaggcggcaaggctgcagct	8	2	22	9	4	0	1	0	0	0	1	0	4	0	3	0	9	2	4	0	9	1	0	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	105110747	T	T	105110747	3	4	318	1	0	0	0	0	1	0	0	0	11578	1116	39	4	1015	4	PCGF6	10	105110747	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08	33241834	105110747	30424000	25	15966											
DPPA3	359787	broad.mit.edu;hgsc.bcm.edu	37	chr12	7869602	7869602	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtccctgcagtttctgcGtgtctaatggatgggatcct	7	14	11	9	1	2	0	0	0	2	0	4	2	4	2	2	2	2	2	2	2	2	2	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	7869602	G	A	7869602	3	1	318	1	0	0	0	0	1	0	0	0	4735	1145	40	1	423	1	DPPA3	12	7869602	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08		7869602	125982293	26	15967											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53662902	53662902	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgagggcttgcaaccAgcagctgactgctaagctag	10	8	11	12	0	0	2	0	2	0	0	1	2	1	2	2	1	6	6	2	1	3	3	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	53662902	A	G	53662902	3	3	318	1	0	0	0	0	1	0	0	0	5253	188	7	3	182	3	ESPL1	12	53662902	Missense_Mutation	SNP	A	TCGA-BP-5006-01A-01D-1462-08	45793300	53662902	80188993	27	15968											
C12orf64	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	80650146	80650146	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggtctgccttcagtctatAactctgattctggaggatga	8	15	10	8	0	5	2	1	2	4	0	5	4	5	4	1	3	2	0	1	3	2	5	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		C	80650146	A	C	80650146	2	2	318	1	0	0	0	0	0	0	0	1	1707	352	13	5		5	C12orf64	12	80650146	Silent	SNP	A	TCGA-BP-5006-01A-01D-1462-08	26987244	80650146	53201749	28	15969											
HSPH1	10808	broad.mit.edu	37	chr13	31712675	31712675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttctccacttttttcatttCagactcatcaatatggttgt	8	19	4	10	0	5	1	4	0	1	1	6	1	5	1	1	1	0	1	1	1	2	7	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	31712675	T	T	31712675	3	4	318	1	0	0	0	0	1	0	0	0	7431	835	29	2	345	2	HSPH1	13	31712675	Missense_Mutation	SNP	C	TCGA-BP-5006-01A-01D-1462-08		31712675	83457203	29	15970											
KIAA0564	0	hgsc.bcm.edu	37	chr13	42273315	42273324	+	Frame_Shift_Del	DEL	GTCCACAAAG	GTCCACAAAG	-																															cttgggaagatatcaaaaaaGtccacaaagaagccactttt																								novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	GTCCACAAAG	GTCCACAAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		-	42273324	GTCCACAAAG	-	42273315	7	5	318	1	0	1	0	1	0	0	0	0	8185	1020	36	0	2329	0	KIAA0564	13	42273315	Frame_Shift_Del	DEL	GTCCACAAAG	TCGA-BP-5006-01A-01D-1462-08	10560640	42273315	72896563	30	15971											
FNDC3A	22862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	49776041	49776041	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgtaatgaagctggggaAggtcccctctcccaagaata	11	9	11	10	0	1	2	0	1	1	1	3	3	2	3	3	3	1	3	3	3	6	3	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	49776041	A	T	49776041	3	4	318	1	0	0	0	0	1	0	0	0	5969	69	3	5	3194	5	FNDC3A	13	49776041	Missense_Mutation	SNP	A	TCGA-BP-5006-01A-01D-1462-08	7502726	49776041	65393837	31	15972											
NALCN	259232	broad.mit.edu;hgsc.bcm.edu	37	chr13	101720364	101720364	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcagtggaataaaacaagGagaaattctccacaattatg	17	9	7	8	0	2	1	1	0	1	1	3	3	2	2	2	2	1	0	2	2	7	3	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	101720364	G	A	101720364	3	1	318	1	0	0	0	0	1	0	0	0	10148	1174	41	2	888	2	NALCN	13	101720364	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08	51944323	101720364	13449514	32	15973											
CDC42BPB	9578	broad.mit.edu	37	chr14	103418834	103418834	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagctgcaacgacactcaCcctcgcaggcgtagccctgc	9	5	11	16	3	1	0	1	0	0	0	2	2	1	1	2	2	5	4	2	2	2	1	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	103418834	A	A	103418834	5	1	318	1	0	0	0	0	0	0	1	0	3073	521	18	4	2018	4	CDC42BPB	14	103418834	Splice_Site	SNP	C	TCGA-BP-5006-01A-01D-1462-08		103418834	3930706	33	15974											
SCNN1B	6338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	23359975	23359975	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcggctgcagaagggccccGgctacacgtacaaggagctg	10	5	14	12	3	0	1	0	0	0	1	1	2	0	2	2	4	4	5	2	4	4	2	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	23359975	G	A	23359975	3	1	318	1	0	0	0	0	1	0	0	0	13930	1116	39	1	57	1	SCNN1B	16	23359975	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08		23359975	66994778	34	15975											
FASN	2194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80039936	80039936	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatacgctccatggcggaatTggcaaagccgtagttgctct	9	10	12	10	3	1	0	0	0	1	0	2	2	2	1	2	3	3	5	2	3	4	4	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	80039936	T	G	80039936	3	3	318	1	0	0	0	0	1	0	0	0	5683	1812	63	5	1455	5	FASN	17	80039936	Missense_Mutation	SNP	T	TCGA-BP-5006-01A-01D-1462-08		80039936	1155274	35	15976											
METTL4	64863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	2547514	2547514	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgctgtatttgcaggggtGacaaataactgtacctaaaa	13	13	9	6	0	0	1	0	1	0	0	0	1	0	1	1	2	4	4	1	2	6	6	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		C	2547514	G	C	2547514	4	2	318	1	0	0	0	0	0	1	0	0	9502	1294	45	4	520	4	METTL4	18	2547514	Nonsense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08		2547514	75529734	36	15977											
UNC13A	23025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17760372	17760372	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggatgtctggcatgctgtcGatgatgatgagaccgccccc	7	9	13	12	3	1	3	0	3	1	1	2	6	1	4	3	2	1	2	3	2	0	0	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	17760372	G	A	17760372	2	1	318	1	0	0	0	0	0	0	0	1	16983	1048	37	1		1	UNC13A	19	17760372	Silent	SNP	G	TCGA-BP-5006-01A-01D-1462-08		17760372	41368611	37	15978											
RINL	126432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39360226	39360226	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcaccctctccccgcagCtcatctggatctaagagctc	7	9	8	17	1	5	1	2	0	3	1	7	2	5	2	3	2	2	4	3	2	1	1	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	39360226	C	G	39360226	3	3	318	1	0	0	0	0	1	0	0	0	13377	796	28	4	251	4	RINL	19	39360226	Missense_Mutation	SNP	C	TCGA-BP-5006-01A-01D-1462-08	21599854	39360226	19768757	38	15979											
ZNF428	126299	broad.mit.edu	37	chr19	44112165	44112165	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggatcatattcaggatcGtcagtggtctcctcttcctc	7	13	8	13	1	5	0	3	0	2	0	9	2	6	2	3	3	0	0	3	3	1	3	rs151333697	alternate_allele	TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		T	44112165	T	T	44112165	3	4	318	1	0	0	0	0	1	0	0	0	17900	1136	40	4	399	4	ZNF428	19	44112165	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08	4751939	44112165	15016818	39	15980											
C20orf185	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31657707	31657707	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcaggtcatgactgtgcGtgcccagctggctccctcgg	5	9	13	14	2	1	1	1	1	0	0	3	1	2	1	2	3	4	3	2	3	0	0	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		A	31657707	G	A	31657707	3	1	318	1	0	0	0	0	1	0	0	0	2097	1145	40	1	1205	1	C20orf185	20	31657707	Missense_Mutation	SNP	G	TCGA-BP-5006-01A-01D-1462-08		31657707	31367813	40	15981											
SPIN3	169981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	57020792	57020794	+	In_Frame_Del	DEL	GAG	GAG	-																															tcctggctccctctctgccaGaggagaatcattggaatctt																								novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		-	57020794	GAG	-	57020792	7	5	318	1	0	1	0	1	0	0	0	0	15056	933	33	0	191	0	SPIN3	23	57020792	In_Frame_Del	DEL	GAG	TCGA-BP-5006-01A-01D-1462-08		57020792	98249768	41	15982											
GPR112	139378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135441605	135441605	+	Frame_Shift_Del	DEL	A	A	-																															actgtgaacacgttgcagtgAaaaaactaggtaattttttt																								novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		-	135441605	A	-	135441605	7	5	318	1	0	1	0	1	0	0	0	0	6629	247	9	0	7165	0	GPR112	23	135441605	Frame_Shift_Del	DEL	A	TCGA-BP-5006-01A-01D-1462-08	78420813	135441605	19828955	42	15983											
FLNA	2316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153594983	153594983	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggagaaggtgcggttctTgtcgttattggcggtcactt	6	13	15	7	4	2	1	1	0	1	1	3	3	2	1	0	5	1	2	0	5	2	5	novel		TCGA-BP-5006-01A-01D-1462-08	TCGA-BP-5006-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	11fb962b-b4b8-46f4-bde4-3f87309e94f3	bab0bd83-abc3-4e81-a927-e65cf576777d		G	153594983	T	G	153594983	3	3	318	1	0	0	0	0	1	0	0	0	5933	1821	63	5	7099	5	FLNA	23	153594983	Missense_Mutation	SNP	T	TCGA-BP-5006-01A-01D-1462-08	18153378	153594983	1675577	43	15984											
VHL	7428	hgsc.bcm.edu	37	chr3	10183809	10183809	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtatggctcaacttcgacgGcgagccgcagccctacccaa	9	6	10	16	5	1	0	1	0	0	0	2	2	1	0	3	2	4	3	3	2	4	3	novel		TCGA-BP-5007-01A-01D-1392-10	TCGA-BP-5007-11A-01D-1392-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	1e0b2622-e2ea-4abe-a70c-a248b11fd937	3c7e187c-b62f-430d-9f0c-f16b2b73186a		T	10183809	G	T	10183809	3	4	319	1	0	0	0	0	1	0	0	0	17161	1203	42	4	280	4	VHL	3	10183809	Missense_Mutation	SNP	G	TCGA-BP-5007-01A-01D-1392-10		10183809	187838621	1	15985											
MTOR	2475	broad.mit.edu	37	chr1	11217230	11217230	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccccaaggcctcgaggCagcgcatgcggcccagcatc	8	5	11	17	3	0	0	0	0	0	0	3	1	1	0	4	3	3	3	4	3	1	1	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	11217230	A	A	11217230	3	1	320	1	0	0	0	0	1	0	0	0	9954	710	25	4	3317	4	MTOR	1	11217230	Missense_Mutation	SNP	C	TCGA-BP-5007-01A-01D-1462-08		11217230	238033391	1	15986											
GPN2	54707	broad.mit.edu;hgsc.bcm.edu	37	chr1	27216524	27216524	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcagtacgtggtctTccctgagcccggcgggccga	5	6	15	15	4	1	1	0	1	1	0	2	2	2	1	4	4	2	2	4	4	1	2	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		C	27216524	T	C	27216524	3	2	320	1	0	0	0	0	1	0	0	0	6618	1792	62	3	888	3	GPN2	1	27216524	Missense_Mutation	SNP	T	TCGA-BP-5007-01A-01D-1462-08	15999294	27216524	222034097	2	15987											
MYSM1	114803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	59125681	59125681	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaataatcacattaacaaTtcctttgtacagttctcttc	14	16	2	9	0	2	0	1	0	1	0	5	0	3	0	1	0	2	2	1	0	6	8	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	59125681	T	A	59125681	3	1	320	1	0	0	0	0	1	0	0	0	10101	1490	52	5	15	5	MYSM1	1	59125681	Missense_Mutation	SNP	T	TCGA-BP-5007-01A-01D-1462-08	31909157	59125681	190124940	3	15988											
SUPT7L	9913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27880496	27880497	+	Frame_Shift_Del	DEL	AG	AG	-																															ctggtagaggagctgccgacAggagtgccagctgagttcag																								novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		-	27880497	AG	-	27880496	7	5	320	1	0	1	0	1	0	0	0	0	15400	188	7	0	796	0	SUPT7L	2	27880496	Frame_Shift_Del	DEL	AG	TCGA-BP-5007-01A-01D-1462-08		27880496	215318877	4	15989											
HAPLN1	1404	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	82948369	82948369	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagagtgaggtctgtgatGaccagagaagcatcactatc	12	9	11	9	0	2	5	1	3	1	2	4	6	3	5	2	1	1	1	2	1	2	1	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	82948369	G	T	82948369	2	4	320	1	0	0	0	0	0	0	0	1	6954	1277	45	4		4	HAPLN1	5	82948369	Silent	SNP	G	TCGA-BP-5007-01A-01D-1462-08		82948369	97966891	5	15990											
SLC17A4	10050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25770630	25770630	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggttatggtattaactggtCagtattcaatttgggtcaaa	12	15	10	4	0	3	0	3	0	0	0	3	0	3	0	0	4	1	3	0	4	6	6	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		G	25770630	C	G	25770630	3	3	320	1	0	0	0	0	1	0	0	0	14421	827	29	4	564	4	SLC17A4	6	25770630	Missense_Mutation	SNP	C	TCGA-BP-5007-01A-01D-1462-08		25770630	145344437	6	15991											
ZSCAN16	80345	hgsc.bcm.edu;ucsc.edu	37	chr6	28093441	28093441	+	Frame_Shift_Del	DEL	T	T	-																															gtcagtggctgaggccagaaTgccacaccaaggagcagatt																								novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		-	28093441	T	-	28093441	7	5	320	1	0	1	0	1	0	0	0	0	18228	1464	51	0	222	0	ZSCAN16	6	28093441	Frame_Shift_Del	DEL	T	TCGA-BP-5007-01A-01D-1462-08	2322811	28093441	143021626	7	15992											
AKR1B15	441282	broad.mit.edu;hgsc.bcm.edu	37	chr7	134254201	134254201	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagagaccccttgtgaggAaagcctttgagaagaccctc	11	9	11	10	0	0	5	0	3	0	3	1	8	0	6	4	1	1	0	4	1	2	3	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		C	134254201	A	C	134254201	3	2	320	1	0	0	0	0	1	0	0	0	468	247	9	5	365	5	AKR1B15	7	134254201	Missense_Mutation	SNP	A	TCGA-BP-5007-01A-01D-1462-08		134254201	24884462	8	15993											
DOLPP1	57171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131851258	131851258	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgttttgcaggaacagacAacgcaagctggggacgaaac	13	6	12	10	2	0	1	0	0	0	1	0	4	0	3	1	3	5	4	1	3	4	2	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		C	131851258	A	C	131851258	3	2	320	1	0	0	0	0	1	0	0	0	4704	130	5	5	719	5	DOLPP1	9	131851258	Missense_Mutation	SNP	A	TCGA-BP-5007-01A-01D-1462-08		131851258	9362173	9	15994											
DDX31	64794	hgsc.bcm.edu	37	chr9	135545604	135545607	+	Frame_Shift_Del	DEL	TGAA	TGAA	-																															ttcacgctggggaagctctcTgaatgcctctgagaagcgag																								novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	TGAA	TGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		-	135545607	TGAA	-	135545604	7	5	320	1	0	1	0	1	0	0	0	0	4356	1567	55	0	2609	0	DDX31	9	135545604	Frame_Shift_Del	DEL	TGAA	TCGA-BP-5007-01A-01D-1462-08	3694346	135545604	5667827	10	15995											
RUFY2	55680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70140991	70140991	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaagaacaatccttacctGcaacttttgatacatctcta	13	15	3	10	0	1	2	0	1	1	1	3	2	2	2	2	0	5	1	2	0	7	7	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	70140991	G	A	70140991	4	1	320	1	0	0	0	0	0	1	0	0	13741	1328	46	2	860	2	RUFY2	10	70140991	Nonsense_Mutation	SNP	G	TCGA-BP-5007-01A-01D-1462-08		70140991	65393756	11	15996											
IFIT3	3437	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91099779	91099779	+	Frame_Shift_Del	DEL	T	T	-																															cccttcaggcataggcagtaTtttcctgtcagcatctgagc																								novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		-	91099779	T	-	91099779	7	5	320	1	0	1	0	1	0	0	0	0	7524	1493	52	0	1382	0	IFIT3	10	91099779	Frame_Shift_Del	DEL	T	TCGA-BP-5007-01A-01D-1462-08	20958788	91099779	44434968	12	15997											
C10orf118	55088	broad.mit.edu;hgsc.bcm.edu	37	chr10	115885644	115885644	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaatgagaaacacaaataCcttcaaagtaatatttttta	18	13	5	5	0	1	2	1	2	0	1	1	3	1	2	1	0	2	1	1	0	8	7	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	115885644	C	A	115885644	5	1	320	1	0	0	0	0	0	0	1	0	1587	521	18	4	90	4	C10orf118	10	115885644	Splice_Site	SNP	C	TCGA-BP-5007-01A-01D-1462-08	24785865	115885644	19649103	13	15998											
MS4A12	54860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60265014	60265014	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaaatatacaaatgataaatCcaagtgtgggaacagcagta	19	8	9	5	0	0	1	0	1	0	0	1	3	1	2	1	1	3	2	1	1	9	4	rs146116909		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		G	60265014	C	G	60265014	3	3	320	1	0	0	0	0	1	0	0	0	9856	855	30	4	225	4	MS4A12	11	60265014	Missense_Mutation	SNP	C	TCGA-BP-5007-01A-01D-1462-08		60265014	74741502	14	15999											
DAGLA	747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61495757	61495757	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgcaacgccgtgctggacGaggtgagcaccaccagcccc	9	3	13	16	4	0	1	0	1	0	0	0	3	0	2	5	2	5	3	5	2	1	0	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	61495757	G	A	61495757	3	1	320	1	0	0	0	0	1	0	0	0	4226	1059	37	1	791	1	DAGLA	11	61495757	Missense_Mutation	SNP	G	TCGA-BP-5007-01A-01D-1462-08	1230743	61495757	73510759	15	16000											
HOXC8	3224	broad.mit.edu;ucsc.edu	37	chr12	54403161	54403161	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgccggttccctcagagCgtgggcaggagccatgcgct	6	7	15	13	3	1	1	1	0	0	1	2	3	2	2	3	3	4	3	3	3	0	1	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	54403161	A	A	54403161	3	1	320	1	0	0	0	0	1	0	0	0	7316	767	27	4	95	4	HOXC8	12	54403161	Missense_Mutation	SNP	C	TCGA-BP-5007-01A-01D-1462-08		54403161	79448734	16	16001											
VEZT	55591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	95645766	95645766	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggacacacagactttgaAatatgttcttctttgtcacc	10	14	7	10	0	3	2	1	1	2	1	3	3	3	3	1	1	0	1	1	1	2	5	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	95645766	A	T	95645766	3	4	320	1	0	0	0	0	1	0	0	0	17155	11	1	5	93	5	VEZT	12	95645766	Missense_Mutation	SNP	A	TCGA-BP-5007-01A-01D-1462-08	41242605	95645766	38206129	17	16002											
GPC5	2262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	92345764	92345764	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtaatgggacagatggggAggtccctgctgcccagccgc	8	6	16	11	1	0	1	0	0	0	1	1	4	1	3	3	4	3	2	3	4	1	1	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	92345764	A	T	92345764	3	4	320	1	0	0	0	0	1	0	0	0	6601	295	11	5	659	5	GPC5	13	92345764	Missense_Mutation	SNP	A	TCGA-BP-5007-01A-01D-1462-08		92345764	22824114	18	16003											
FAM179B	23116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45537687	45537687	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaagtaaatctggtggctCtggaaacaatgcacaaaatg	16	9	10	6	0	2	0	0	0	2	0	2	1	2	1	0	3	2	4	0	3	8	2	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	45537687	C	T	45537687	2	4	320	1	0	0	0	0	0	0	0	1	5506	912	32	2		2	FAM179B	14	45537687	Silent	SNP	C	TCGA-BP-5007-01A-01D-1462-08		45537687	61811853	19	16004											
WDR72	256764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	53908347	53908347	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagttcaacaaggttttccaGatcaaatagaagaatatgaa	19	10	7	5	0	2	4	2	1	0	3	3	4	3	4	1	1	1	2	1	1	9	5	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		C	53908347	G	C	53908347	3	2	320	1	0	0	0	0	1	0	0	0	17321	933	33	4	1276	4	WDR72	15	53908347	Missense_Mutation	SNP	G	TCGA-BP-5007-01A-01D-1462-08		53908347	48623045	20	16005											
PIF1	80119	hgsc.bcm.edu	37	chr15	65114501	65114502	+	Frame_Shift_Ins	INS	-	-	G																															gtggtgcccccgatgtggcaINSggctgccaccccagtgctgg																								novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		G	65114502	-	G	65114501	7	5	320	1	0	1	1	0	0	0	0	0	11883	188	7	0	1184	0	PIF1	15	65114501	Frame_Shift_Ins	INS	-	TCGA-BP-5007-01A-01D-1462-08	11206154	65114501	37416891	21	16006											
IFT140	9742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1639724	1639724	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaacagcatctgaatcgtgCtgtctgcggacaccacctga	11	8	10	12	2	2	3	0	2	2	1	3	4	2	4	2	1	4	2	2	1	2	0	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	1639724	C	T	1639724	3	4	320	1	0	0	0	0	1	0	0	0	7556	797	28	2	3796	2	IFT140	16	1639724	Missense_Mutation	SNP	C	TCGA-BP-5007-01A-01D-1462-08		1639724	88715029	22	16007											
TBC1D10B	26000	broad.mit.edu	37	chr16	30380671	30380671	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccgccaaggactccaaggtCccagacatgaggctcacgga	11	5	11	14	2	1	2	1	1	0	1	4	4	4	4	4	4	0	1	4	4	2	0	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	30380671	T	T	30380671	2	4	320	1	0	0	0	0	0	0	0	1	15598	842	30	2		2	TBC1D10B	16	30380671	Silent	SNP	C	TCGA-BP-5007-01A-01D-1462-08	28740947	30380671	59974082	23	16008											
KIF19	124602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72340956	72340956	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggagcccacggccgcCaaccagacgtcctcccgctc	8	3	9	21	4	0	1	0	0	0	1	3	2	2	2	7	2	2	1	7	2	1	0	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	72340956	C	A	72340956	2	1	320	1	0	0	0	0	0	0	0	1	8282	581	21	4		4	KIF19	17	72340956	Silent	SNP	C	TCGA-BP-5007-01A-01D-1462-08		72340956	8854254	24	16009											
LMAN1	3998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	57026429	57026429	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagcagcaaggcgcagaaCagcggccgaactctggcccg	11	2	14	14	4	1	1	0	0	1	1	1	3	1	1	2	3	5	3	2	3	3	0	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	57026429	C	T	57026429	2	4	320	1	0	0	0	0	0	0	0	1	8836	465	17	2		2	LMAN1	18	57026429	Silent	SNP	C	TCGA-BP-5007-01A-01D-1462-08		57026429	21050819	25	16010											
C19orf26	255057	broad.mit.edu;hgsc.bcm.edu	37	chr19	1234610	1234610	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggagaggtggccgggTggggcgtggtggctgagctg	3	8	23	7	2	0	2	0	1	0	1	0	3	0	2	2	8	1	2	2	8	0	1	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		C	1234610	T	C	1234610	3	2	320	1	0	0	0	0	1	0	0	0	1916	1696	59	3	790	3	C19orf26	19	1234610	Missense_Mutation	SNP	T	TCGA-BP-5007-01A-01D-1462-08		1234610	57894373	26	16011											
DOT1L	84444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2223398	2223398	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgctcaagaaggagcGgcctctgagccagaccaatg	10	5	12	14	2	2	3	1	1	1	2	2	4	2	4	5	2	3	1	5	2	3	0	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		A	2223398	G	A	2223398	3	1	320	1	0	0	0	0	1	0	0	0	4709	1116	39	1	3607	1	DOT1L	19	2223398	Missense_Mutation	SNP	G	TCGA-BP-5007-01A-01D-1462-08	988788	2223398	56905585	27	16012											
ZNF100	163227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	21909595	21909595	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagatttctctccagtatGagttatcttatgtttagtaa	11	18	7	5	0	2	2	0	1	2	1	4	2	3	2	1	0	0	5	1	0	6	8	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	21909595	G	T	21909595	3	4	320	1	0	0	0	0	1	0	0	0	17712	1290	45	4	113	4	ZNF100	19	21909595	Missense_Mutation	SNP	G	TCGA-BP-5007-01A-01D-1462-08	19686197	21909595	37219388	28	16013											
PARD6B	84612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	49366663	49366664	+	Frame_Shift_Del	DEL	AA	AA	-																															tgagaccggcaaaccagaggAataatgttgtgaggaacagt																								novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	AA	AA	AA	-	AA	AA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		-	49366664	AA	-	49366663	7	5	320	1	0	1	0	1	0	0	0	0	11446	246	9	0	767	0	PARD6B	20	49366663	Frame_Shift_Del	DEL	AA	TCGA-BP-5007-01A-01D-1462-08		49366663	13658857	29	16014											
SFRS15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33066569	33066569	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcagacatatgtcgcttaaCctcttgaatacaaggttgtt	12	14	7	8	1	2	2	1	1	1	1	3	2	2	2	1	1	2	3	1	1	5	6	novel		TCGA-BP-5007-01A-01D-1462-08	TCGA-BP-5007-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	830e29e4-acf5-4247-b2d4-c19ad859820f	42a08dce-9507-40d4-80f8-9b0f18ddd0c4		T	33066569	C	T	33066569	3	4	320	1	0	0	0	0	1	0	0	0	14173	507	18	2	2213	2	SFRS15	21	33066569	Missense_Mutation	SNP	C	TCGA-BP-5007-01A-01D-1462-08		33066569	15063326	30	16015											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-BP-5008-01A-01D-1392-10	TCGA-BP-5008-11A-01D-1392-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	70d9fb04-75b3-445f-8c8a-0004211428e3	053cd8bf-5805-41a8-ac61-78e77051a4d6		A	10183797	T	A	10183797	3	1	321	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-BP-5008-01A-01D-1392-10		10183797	187838633	1	16016											
AIM1L	55057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26663759	26663759	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttaccgtccggatgacccgGagggaggtcagcaactcgtc	8	7	13	13	4	1	1	1	1	0	0	4	4	2	4	3	4	3	1	3	4	2	1	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	26663759	G	A	26663759	2	1	322	1	0	0	0	0	0	0	0	1	431	1161	41	2		2	AIM1L	1	26663759	Silent	SNP	G	TCGA-BP-5008-01A-01D-1462-08		26663759	222586862	1	16017											
C1orf198	84886	broad.mit.edu	37	chr1	230979640	230979640	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatactgaactccatctgActctagggtgggacatgaga	12	9	12	8	0	2	4	0	3	2	2	3	7	3	5	1	2	2	0	1	2	3	2	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	230979640	T	T	230979640	3	4	322	1	0	0	0	0	1	0	0	0	2026	272	10	5	604	5	C1orf198	1	230979640	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08	204315881	230979640	18270981	2	16018											
ROCK2	9475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11361380	11361380	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgatttccaacaaaagcTttaggaattgggaaggtttc	13	12	10	6	0	0	1	0	1	0	0	2	3	1	3	1	3	3	3	1	3	6	5	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	11361380	T	C	11361380	2	2	322	1	0	0	0	0	0	0	0	1	13520	1606	56	3		3	ROCK2	2	11361380	Silent	SNP	T	TCGA-BP-5008-01A-01D-1462-08		11361380	231837993	3	16019											
PLEKHH2	130271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43924441	43924441	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtagtaaaatctgaggaaAtgagcaagatatcatcgaaa	20	8	9	4	1	2	3	1	2	1	1	3	5	2	4	0	1	1	3	0	1	8	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	43924441	A	C	43924441	3	2	322	1	0	0	0	0	1	0	0	0	12077	101	4	5	656	5	PLEKHH2	2	43924441	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08	32563061	43924441	199274932	4	16020											
DBI	1622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	120129819	120129819	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcctgtcgattccttacAgggacttccaaggaagatgc	11	11	9	10	1	0	1	0	0	0	1	4	4	3	3	3	2	2	0	3	2	4	4	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	120129819	A	T	120129819	5	4	322	1	0	0	0	0	0	0	1	0	4251	202	7	5	509	5	DBI	2	120129819	Splice_Site	SNP	A	TCGA-BP-5008-01A-01D-1462-08	76205378	120129819	123069554	5	16021											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196837108	196837108	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagttgacatactcgatgAggaaggcgaggcagtttttg	13	10	13	5	2	0	2	0	2	0	0	1	5	0	3	0	3	1	3	0	3	4	4	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	196837108	A	C	196837108	3	2	322	1	0	0	0	0	1	0	0	0	4606	304	11	5	10358	5	DNAH7	2	196837108	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08	76707289	196837108	46362265	6	16022											
RASSF6	166824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	74459276	74459276	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactccccagaaaatgtccAgcattccttcaacaattagt	13	12	4	12	0	1	1	1	0	0	1	4	1	4	1	4	0	3	1	4	0	6	4	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	74459276	A	C	74459276	3	2	322	1	0	0	0	0	1	0	0	0	13092	188	7	5	866	5	RASSF6	4	74459276	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08		74459276	116695000	7	16023											
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	126389800	126389800	+	Missense_Mutation	SNP	G	G	C																															attaaaagtcatgccttattGctttacaactatgacaacca																								novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	126389800	G	C	126389800	3	2	322	1	0	0	0	0	1	0	0	0	5692	1310	46	4	12075	4	FAT4	4	126389800	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08	51930524	126389800	64764476	8	16024	210	2									
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	126389801	126389801	+	Missense_Mutation	SNP	C	C	A																															ttaaaagtcatgccttattgCtttacaactatgacaaccag																								novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	126389801	C	A	126389801	3	1	322	1	0	0	0	0	1	0	0	0	5692	797	28	4	12076	4	FAT4	4	126389801	Missense_Mutation	SNP	C	TCGA-BP-5008-01A-01D-1462-08	1	126389801	64764475	9	16025	210	2									
FBXO38	81545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147781573	147781573	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgccagttttctaacactAttaaagaagatgccagatgt	14	12	8	7	0	1	3	0	0	1	3	1	4	1	3	2	0	3	1	2	0	5	5	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	147781573	A	G	147781573	2	3	322	1	0	0	0	0	0	0	0	1	5746	436	16	3		3	FBXO38	5	147781573	Silent	SNP	A	TCGA-BP-5008-01A-01D-1462-08		147781573	33133687	10	16026											
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178579193	178579193	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggccccttcttggtctTgcaaaagtaggggttgtcag	6	11	16	8	0	3	0	1	0	2	0	3	0	3	0	2	6	1	3	2	6	3	5	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	178579193	T	G	178579193	3	3	322	1	0	0	0	0	1	0	0	0	265	1821	63	5	2183	5	ADAMTS2	5	178579193	Missense_Mutation	SNP	T	TCGA-BP-5008-01A-01D-1462-08	30797620	178579193	2336067	11	16027											
SCAND3	114821	broad.mit.edu;ucsc.edu	37	chr6	28542935	28542935	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcactttcacatggagtcTgttgcatgcttctgtgatag	8	15	10	8	0	3	1	1	1	2	0	3	2	3	2	0	1	3	4	0	1	1	4	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	28542935	A	A	28542935	3	1	322	1	0	0	0	0	1	0	0	0	13878	1580	55	5	2438	5	SCAND3	6	28542935	Missense_Mutation	SNP	T	TCGA-BP-5008-01A-01D-1462-08		28542935	142572132	12	16028											
PLEKHG1	57480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	151153138	151153138	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccagaaaaccctgaccTggggatggaggccacagata	14	4	12	11	0	0	4	0	1	0	3	0	6	0	6	4	4	1	0	4	4	3	1	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	151153138	T	C	151153138	3	2	322	1	0	0	0	0	1	0	0	0	12068	1580	55	3	2945	3	PLEKHG1	6	151153138	Missense_Mutation	SNP	T	TCGA-BP-5008-01A-01D-1462-08	122610203	151153138	19961929	13	16029											
HECW1	23072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	43400541	43400541	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagtggggccctgcgagcaAccacccccagtgtcacggtc	7	6	13	15	2	1	1	1	1	0	0	2	2	1	1	4	3	3	1	4	3	1	0	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	43400541	A	T	43400541	3	4	322	1	0	0	0	0	1	0	0	0	7042	43	2	5	531	5	HECW1	7	43400541	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08		43400541	115738122	14	16030											
ZNF862	643641	broad.mit.edu	37	chr7	149544912	149544912	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccgcctcagaagaaagcCtacctttcccacctcagtac	10	8	5	18	1	2	2	2	0	0	2	4	2	4	2	6	0	3	1	6	0	4	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	149544912	A	A	149544912	2	1	322	1	0	0	0	0	0	0	0	1	18194	668	24	4		4	ZNF862	7	149544912	Silent	SNP	C	TCGA-BP-5008-01A-01D-1462-08	106144371	149544912	9593751	15	16031											
RPL30	6156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	99054939	99054939	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgtgcccagttcaatatTattgccactgtagtgatgga	9	14	10	8	0	1	1	1	1	0	0	1	2	1	2	2	1	3	3	2	1	4	5	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	99054939	T	C	99054939	3	2	322	1	0	0	0	0	1	0	0	0	13582	1754	61	3	123	3	RPL30	8	99054939	Missense_Mutation	SNP	T	TCGA-BP-5008-01A-01D-1462-08		99054939	47309083	16	16032											
IFNA5	3442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	21304871	21304871	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagaggagtgtcttccaCtccaacctcctgcatcatac	10	10	6	15	0	3	1	2	0	1	1	6	2	6	2	4	1	3	1	4	1	2	2	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	21304871	C	G	21304871	3	3	322	1	0	0	0	0	1	0	0	0	7540	565	20	4	188	4	IFNA5	9	21304871	Missense_Mutation	SNP	C	TCGA-BP-5008-01A-01D-1462-08		21304871	119908560	17	16033											
ABCA1	19	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	107564349	107564349	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttaccttggccagctttaGgtgtttcttcatttgtttga	5	21	8	7	0	2	1	1	1	1	0	2	1	2	1	2	2	2	3	2	2	2	9	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	107564349	G	T	107564349	3	4	322	1	0	0	0	0	1	0	0	0	28	991	35	4	2169	4	ABCA1	9	107564349	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08	86259478	107564349	33649082	18	16034											
SLC29A3	55315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	73111405	73111405	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactggtgaaggtggacaCttcctcctggacccgtggct	6	10	13	12	1	0	1	0	1	0	0	2	3	2	3	3	5	1	2	3	5	1	1	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	73111405	C	G	73111405	3	3	322	1	0	0	0	0	1	0	0	0	14538	565	20	4	484	4	SLC29A3	10	73111405	Missense_Mutation	SNP	C	TCGA-BP-5008-01A-01D-1462-08		73111405	62423342	19	16035											
MYST4	0	broad.mit.edu	37	chr10	76789332	76789332	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagaccaaagtccacagAttgccaccacgctcgacgat	12	6	9	14	3	0	2	0	0	0	2	2	4	1	2	4	0	2	2	4	0	1	1	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	76789332	T	T	76789332	3	4	322	1	0	0	0	0	1	0	0	0	10105	333	12	5	4812	5	MYST4	10	76789332	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08	3677927	76789332	58745415	20	16036											
BTAF1	9044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93695500	93695500	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaacttggagaagtggtgaAgcttcatccccatgaactaa	13	9	10	9	0	1	3	1	2	0	1	2	4	2	3	2	2	3	2	2	2	5	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	93695500	A	T	93695500	3	4	322	1	0	0	0	0	1	0	0	0	1536	72	3	5	107	5	BTAF1	10	93695500	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08	16906168	93695500	41839247	21	16037											
LOXL4	84171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	100015482	100015482	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggcccttggcgtccccgaCcagaaccaggtttcctaaga	8	8	11	14	2	0	2	0	0	0	2	2	3	2	2	6	3	1	1	6	3	2	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	100015482	C	G	100015482	3	3	322	1	0	0	0	0	1	0	0	0	8902	508	18	4	851	4	LOXL4	10	100015482	Missense_Mutation	SNP	C	TCGA-BP-5008-01A-01D-1462-08	6319982	100015482	35519265	22	16038											
SLCO1B1	10599	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21353532	21353532	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaagtaagcagctatattgGtgcttttacttatgtcttca	11	16	7	7	0	2	0	1	0	1	0	2	0	2	0	0	1	4	4	0	1	6	8	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	21353532	G	A	21353532	3	1	322	1	0	0	0	0	1	0	0	0	14725	1261	44	2	1091	2	SLCO1B1	12	21353532	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08		21353532	112498363	23	16039											
C12orf10	60314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53700821	53700821	+	Missense_Mutation	SNP	G	G	A																															ggtcagtgggatccctggctGcatcttcgtccatgcaagcg																								novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	53700821	G	A	53700821	3	1	322	1	0	0	0	0	1	0	0	0	1674	1319	46	2	1045	2	C12orf10	12	53700821	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08	32347289	53700821	80151074	24	16040	211	2									
C12orf10	60314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53700822	53700822	+	Nonsense_Mutation	SNP	C	C	A																															gtcagtgggatccctggctgCatcttcgtccatgcaagcgg																								novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	53700822	C	A	53700822	4	1	322	1	0	0	0	0	0	1	0	0	1674	718	25	4	1046	4	C12orf10	12	53700822	Nonsense_Mutation	SNP	C	TCGA-BP-5008-01A-01D-1462-08	1	53700822	80151073	25	16041	211	2									
CS	1431	broad.mit.edu;hgsc.bcm.edu	37	chr12	56669791	56669791	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagcttacctgtggatggtGaggtacaggcgcgtgagctc	7	10	15	9	2	0	2	0	2	0	0	1	3	0	3	1	4	4	3	1	4	3	3	rs146737473		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	56669791	G	A	56669791	2	1	322	1	0	0	0	0	0	0	0	1	3924	1277	45	2		2	CS	12	56669791	Silent	SNP	G	TCGA-BP-5008-01A-01D-1462-08	2968969	56669791	77182104	26	16042											
DIAPH3	81624	broad.mit.edu;hgsc.bcm.edu	37	chr13	60584726	60584726	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaccacatctgtcatcatAttggggtgtctgggatccac	9	13	9	10	0	4	0	2	0	2	0	5	1	5	1	2	3	1	0	2	3	2	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	60584726	A	T	60584726	3	4	322	1	0	0	0	0	1	0	0	0	4520	446	16	5	2836	5	DIAPH3	13	60584726	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08		60584726	54585152	27	16043											
RALGAPA1	253959	broad.mit.edu;hgsc.bcm.edu	37	chr14	36133906	36133906	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgggatgaagagaaggcAgttcacaatataagttggga	14	10	14	3	0	1	2	1	1	0	1	1	5	1	4	0	3	0	4	0	3	5	5	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	36133906	A	G	36133906	3	3	322	1	0	0	0	0	1	0	0	0	13015	188	7	3	2571	3	RALGAPA1	14	36133906	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08		36133906	71215634	28	16044											
HAGH	3029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1866929	1866929	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcccggatggcggcatTgccgggctccacgtggcgtg	3	9	15	14	5	1	0	0	0	1	0	3	1	2	1	3	5	1	2	3	5	0	2	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		C	1866929	T	C	1866929	3	2	322	1	0	0	0	0	1	0	0	0	6945	1812	63	3	226	3	HAGH	16	1866929	Missense_Mutation	SNP	T	TCGA-BP-5008-01A-01D-1462-08		1866929	88487824	29	16045											
ACSM3	6296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20796410	20796410	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcctggatatctacgaagGatatggacagactgaaacgg	13	7	14	7	2	1	2	0	1	1	1	1	6	1	5	1	5	2	0	1	5	5	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	20796410	G	T	20796410	3	4	322	1	0	0	0	0	1	0	0	0	185	1174	41	4	1150	4	ACSM3	16	20796410	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08	18929481	20796410	69558343	30	16046											
FAM108A1	81926	broad.mit.edu	37	chr19	1881411	1881411	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggctctcagggtccccaagGgggcggccccggccccacca	6	3	14	18	2	1	0	1	0	1	0	3	0	2	0	7	6	0	1	7	6	1	0	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	1881411	T	T	1881411	3	4	322	1	0	0	0	0	1	0	0	0	5391	1232	43	4	950	4	FAM108A1	19	1881411	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08		1881411	57247572	31	16047											
DAPK3	1613	hgsc.bcm.edu	37	chr19	3964978	3964984	+	Frame_Shift_Del	DEL	GCAAACT	GCAAACT	-																															gccggcacttccgcacgatcGcaaactggccgctggaggag																								novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	GCAAACT	GCAAACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		-	3964984	GCAAACT	-	3964978	7	5	322	1	0	1	0	1	0	0	0	0	4237	1087	38	0	1318	0	DAPK3	19	3964978	Frame_Shift_Del	DEL	GCAAACT	TCGA-BP-5008-01A-01D-1462-08	2083567	3964978	55164005	32	16048											
PRODH2	58510	broad.mit.edu	37	chr19	36304176	36304176	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggagtttgagactaccctgGgcgacatagtgagaccccat	11	8	12	10	1	0	2	0	2	0	2	0	6	0	3	3	2	1	1	3	2	2	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	36304176	T	T	36304176	3	4	322	1	0	0	0	0	1	0	0	0	12551	1232	43	4	1646	4	PRODH2	19	36304176	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08	32339198	36304176	22824807	33	16049											
DHX35	60625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37632409	37632409	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaagaggtagaaactgtTgtgtcgatgctcatcgagca	12	10	13	6	2	1	2	1	0	0	2	3	5	1	3	0	2	3	4	0	2	4	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		A	37632409	T	A	37632409	2	1	322	1	0	0	0	0	0	0	0	1	4508	1799	63	5		5	DHX35	20	37632409	Silent	SNP	T	TCGA-BP-5008-01A-01D-1462-08		37632409	25393111	34	16050											
CECR2	27443	broad.mit.edu	37	chr22	18021869	18021869	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagttggaattaacagcctCcgaggacccaggctaggcac	11	6	11	13	1	0	0	0	0	0	0	1	3	1	2	4	4	2	3	4	4	3	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	18021869	T	T	18021869	2	4	322	1	0	0	0	0	0	0	0	1	3206	842	30	2		2	CECR2	22	18021869	Silent	SNP	C	TCGA-BP-5008-01A-01D-1462-08		18021869	33282697	35	16051											
CELSR1	9620	hgsc.bcm.edu;ucsc.edu	37	chr22	46930036	46930036	+	Frame_Shift_Del	DEL	T	T	-																															ccaccgaccccactgggttgTtctcctcaacaaacagctcc																								novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		-	46930036	T	-	46930036	7	5	322	1	0	1	0	1	0	0	0	0	3221	1725	60	0	6152	0	CELSR1	22	46930036	Frame_Shift_Del	DEL	T	TCGA-BP-5008-01A-01D-1462-08	28908167	46930036	4374530	36	16052											
CLCN5	1184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	49840554	49840554	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgaacattgttgctggAactctgagcatgtcaccttt	10	13	8	10	0	2	2	1	2	1	0	2	3	2	3	2	1	4	3	2	1	2	3	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		G	49840554	A	G	49840554	3	3	322	1	0	0	0	0	1	0	0	0	3466	246	9	3	538	3	CLCN5	23	49840554	Missense_Mutation	SNP	A	TCGA-BP-5008-01A-01D-1462-08		49840554	105430006	37	16053											
KLF8	11279	broad.mit.edu	37	chrX	56291625	56291625	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatttaaggtcactgcttctGttcggaacagagatccccct	9	13	8	11	1	2	1	1	0	1	1	4	3	3	2	2	2	2	2	2	2	3	5	novel		TCGA-BP-5008-01A-01D-1462-08	TCGA-BP-5008-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a945d50e-a61d-46e3-ade6-c295a5ecf54a	d5e54023-831c-486a-9e5a-57dd34c6ebb0		T	56291625	T	T	56291625	3	4	322	1	0	0	0	0	1	0	0	0	8352	1377	48	4	104	4	KLF8	23	56291625	Missense_Mutation	SNP	G	TCGA-BP-5008-01A-01D-1462-08	6451071	56291625	98978935	38	16054											
SLC30A2	7780	broad.mit.edu;hgsc.bcm.edu	37	chr1	26370857	26370857	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatccagagggagaagaggCtgatgagcatgctggcaaag	14	5	15	7	0	0	5	0	2	0	3	1	6	1	5	1	3	2	4	1	3	2	0	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	26370857	C	G	26370857	3	3	323	1	0	0	0	0	1	0	0	0	14557	797	28	4	792	4	SLC30A2	1	26370857	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08		26370857	222879764	1	16055											
JUN	3725	hgsc.bcm.edu	37	chr1	59248076	59248076	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctcctccttcagggcctGcagccgcgggtgctgcacgg	4	7	15	15	3	1	0	1	0	0	0	3	0	3	0	4	4	4	4	4	4	0	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	59248076	G	C	59248076	3	2	323	1	0	0	0	0	1	0	0	0	7969	1328	46	4	332	4	JUN	1	59248076	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	32877219	59248076	190002545	2	16056											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201030579	201030579	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcctccgcattggagtctAtggccttgtacagcagcctg	6	11	11	13	2	1	0	0	0	1	0	3	1	3	1	4	2	3	3	4	2	2	4	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	201030579	A	T	201030579	3	4	323	1	0	0	0	0	1	0	0	0	2547	449	16	5	2630	5	CACNA1S	1	201030579	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08	141782503	201030579	48220042	3	16057											
NAV1	89796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201687817	201687817	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatgaggtggacctcaagtCcggctacatgagcgacagtg	10	7	15	9	2	1	2	1	2	0	0	2	5	2	4	2	4	2	1	2	4	2	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	201687817	C	A	201687817	3	1	323	1	0	0	0	0	1	0	0	0	10183	855	30	4	1170	4	NAV1	1	201687817	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	657238	201687817	47562804	4	16058											
LAMB3	3914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	209799337	209799337	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgccttgtcgcagccCgggccctctgttccccggaa	4	9	11	17	3	1	1	0	1	1	0	3	2	2	2	6	2	2	2	6	2	1	2	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	209799337	C	T	209799337	2	4	323	1	0	0	0	0	0	0	0	1	8612	639	23	1		1	LAMB3	1	209799337	Silent	SNP	C	TCGA-BP-5009-01A-01D-1462-08	8111520	209799337	39451284	5	16059											
CDC42BPA	8476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227216801	227216801	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaccctttagtttctgacAgcttgtaaaaatcggtctct	10	14	7	10	1	2	1	0	1	2	0	4	2	2	1	1	1	1	3	1	1	4	5	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	227216801	A	G	227216801	3	3	323	1	0	0	0	0	1	0	0	0	3072	188	7	3	1307	3	CDC42BPA	1	227216801	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08	17417464	227216801	22033820	6	16060											
AKT3	10000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	243859016	243859016	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctccagttttttatatattCtcctacatgaggaaagcacg	11	14	6	10	1	1	1	0	1	1	0	3	2	2	2	3	1	2	2	3	1	5	7	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	243859016	C	T	243859016	3	4	323	1	0	0	0	0	1	0	0	0	481	922	32	2	1486	2	AKT3	1	243859016	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	16642215	243859016	5391605	7	16061											
TPO	7173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1499872	1499872	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcaccagggtgcccatGgatgccttccaagtcggcaa	8	7	12	14	1	1	0	1	0	0	0	3	1	2	1	5	4	2	1	5	4	2	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	1499872	G	A	1499872	3	1	323	1	0	0	0	0	1	0	0	0	16409	1348	47	2	2160	2	TPO	2	1499872	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08		1499872	241699501	8	16062											
SDC1	6382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20403634	20403634	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctccatcctcagcagccctCtcggtggcagaaggacctcc	7	7	10	17	1	2	1	1	0	1	1	6	2	5	2	5	3	2	3	5	3	1	0	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	20403634	C	T	20403634	2	4	323	1	0	0	0	0	0	0	0	1	13953	912	32	2		2	SDC1	2	20403634	Silent	SNP	C	TCGA-BP-5009-01A-01D-1462-08	18903762	20403634	222795739	9	16063											
GALNT14	79623	hgsc.bcm.edu;ucsc.edu	37	chr2	31165110	31165110	+	Frame_Shift_Del	DEL	C	C	-																															tccatgtccatatcatatttCcccaggtaatcaaaccaagc																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		-	31165110	C	-	31165110	7	5	323	1	0	1	0	1	0	0	0	0	6212	842	30	0	798	0	GALNT14	2	31165110	Frame_Shift_Del	DEL	C	TCGA-BP-5009-01A-01D-1462-08	10761476	31165110	212034263	10	16064											
FN1	2335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	216245654	216245654	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcagtgtcttcttcaccatCaggtgcagggaatagctcat	9	12	10	10	0	5	0	3	0	2	0	5	1	5	1	1	2	3	3	1	2	2	3	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	216245654	C	G	216245654	3	3	323	1	0	0	0	0	1	0	0	0	5962	826	29	4	2175	4	FN1	2	216245654	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	185080544	216245654	26953719	11	16065											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183763	10183763	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcccaggtcatcttctgcAatcgcagtccgcgcgtcgtg	5	10	10	16	5	3	0	1	0	2	0	7	0	5	0	3	1	1	2	3	1	1	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	10183763	A	T	10183763	3	4	323	1	0	0	0	0	1	0	0	0	17161	130	5	5	234	5	VHL	3	10183763	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08		10183763	187838667	12	16066											
CELSR3	1951	broad.mit.edu	37	chr3	48682540	48682540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccgcggtccacgttgcgtgGctcaacctgcatgcggtaga	6	8	14	13	5	1	1	1	0	0	1	2	1	2	1	3	3	4	4	3	3	2	2	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	48682540	A	A	48682540	3	1	323	1	0	0	0	0	1	0	0	0	3223	1203	42	2	2082	2	CELSR3	3	48682540	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	38498777	48682540	149339890	13	16067											
PROS1	5627	broad.mit.edu	37	chr3	93643109	93643109	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttggataaaaataatcCtagaaagaagaaaaagaaaa	24	9	6	2	0	0	4	0	0	0	4	1	5	1	5	1	1	0	0	1	1	12	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	93643109	A	A	93643109	5	1	323	1	0	0	0	0	0	0	1	0	12560	695	24	4	1848	4	PROS1	3	93643109	Splice_Site	SNP	C	TCGA-BP-5009-01A-01D-1462-08	44960569	93643109	104379321	14	16068											
ADD1	118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2906737	2906737	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagtcccaagtcgaagActaaggtgtggacgaacatt	14	7	12	8	2	0	1	0	0	0	1	2	5	1	2	1	2	2	1	1	2	5	2	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	2906737	A	G	2906737	3	3	323	1	0	0	0	0	1	0	0	0	304	275	10	3	1442	3	ADD1	4	2906737	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08		2906737	188247539	15	16069											
SLIT2	9353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	20550708	20550708	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttacaaccgtctgagatgtAttcctcctcgcacctttgat	8	14	7	12	2	1	2	0	2	1	1	4	3	3	2	4	0	2	3	4	0	3	4	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	20550708	A	C	20550708	3	2	323	1	0	0	0	0	1	0	0	0	14742	449	16	5	2540	5	SLIT2	4	20550708	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08	17643971	20550708	170603568	16	16070											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87692395	87692395	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcagccatcatgtgtggaGcaaagcaccagctcagatga	12	8	10	11	0	3	2	3	1	1	1	4	3	3	3	2	1	4	3	2	1	1	0	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	87692395	G	C	87692395	3	2	323	1	0	0	0	0	1	0	0	0	12784	962	34	4	5008	4	PTPN13	4	87692395	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	67141687	87692395	103461881	17	16071											
ANK2	287	hgsc.bcm.edu;ucsc.edu	37	chr4	114277376	114277376	+	Frame_Shift_Del	DEL	C	C	-																															atggagagctcagggaagagCcccctttctcctgacacccc																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		-	114277376	C	-	114277376	7	5	323	1	0	1	0	1	0	0	0	0	621	738	26	0	7817	0	ANK2	4	114277376	Frame_Shift_Del	DEL	C	TCGA-BP-5009-01A-01D-1462-08	26584981	114277376	76876900	18	16072											
AGA	175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	178352921	178352921	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcggaattataaaccatgaAactaaactgagtaaatgttg	17	12	7	5	1	0	2	0	2	0	0	1	3	0	3	1	1	3	2	1	1	9	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	178352921	A	T	178352921	3	4	323	1	0	0	0	0	1	0	0	0	365	14	1	5	62	5	AGA	4	178352921	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08	64075545	178352921	12801355	19	16073											
TERT	7015	broad.mit.edu;hgsc.bcm.edu	37	chr5	1294723	1294723	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggccagcacgttcttcGcgccgcgctcgcacagcctc	6	6	11	18	7	1	0	0	0	1	0	4	1	1	0	3	1	2	4	3	1	1	2	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	1294723	G	A	1294723	3	1	323	1	0	0	0	0	1	0	0	0	15763	1087	38	1	3180	1	TERT	5	1294723	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08		1294723	179620537	20	16074											
PKD2L2	27039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137230170	137230170	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaggagttcccagagttcgTcaactaaaagtccgcaacaa	14	8	8	11	2	1	1	1	0	0	1	4	2	3	2	2	1	2	3	2	1	6	4	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	137230170	T	G	137230170	2	3	323	1	0	0	0	0	0	0	0	1	11968	1654	58	5		5	PKD2L2	5	137230170	Silent	SNP	T	TCGA-BP-5009-01A-01D-1462-08	135935447	137230170	43685090	21	16075											
TUBB	203068	broad.mit.edu;hgsc.bcm.edu	37	chr6	30692126	30692126	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtaccaggatgccacCgcagaagaggaggaggattt	13	5	14	9	1	0	2	0	0	0	2	0	6	0	6	3	4	3	3	3	4	2	2	rs146810731	alternate_allele	TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	30692126	C	A	30692126	2	1	323	1	0	0	0	0	0	0	0	1	16751	639	23	4		4	TUBB	6	30692126	Silent	SNP	C	TCGA-BP-5009-01A-01D-1462-08		30692126	140422941	22	16076											
HIVEP2	3097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	143094139	143094139	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtatgcccacggtcccTggatagaatacatcgtcgga	9	8	14	10	3	0	1	0	0	0	1	3	3	1	3	2	5	2	1	2	5	4	3	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	143094139	T	A	143094139	2	1	323	1	0	0	0	0	0	0	0	1	7187	1567	55	5		5	HIVEP2	6	143094139	Silent	SNP	T	TCGA-BP-5009-01A-01D-1462-08	112402013	143094139	28020928	23	16077											
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21657267	21657267	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcaacaaggaagtccgcGtctgggatgcttacacgggc	10	7	12	12	3	2	0	1	0	1	0	3	2	3	2	1	3	3	1	1	3	4	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	21657267	G	A	21657267	3	1	323	1	0	0	0	0	1	0	0	0	4599	1145	40	1	4231	1	DNAH11	7	21657267	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08		21657267	137481396	24	16078											
NCAPG2	54892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	158472689	158472689	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctggatttcactatccAtttcaatagcatgaaggttt	10	17	7	7	0	3	1	2	1	1	0	4	2	4	2	1	2	1	3	1	2	4	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	158472689	A	C	158472689	3	2	323	1	0	0	0	0	1	0	0	0	10208	217	8	5	2394	5	NCAPG2	7	158472689	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08	136815422	158472689	665974	25	16079											
OR52B4	143496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	4388624	4388624	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaaccacctgttcctggAtttgcttggttttgatccca	7	15	8	11	0	0	2	0	2	0	0	2	3	2	3	4	2	2	3	4	2	1	5	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	4388624	A	G	4388624	3	3	323	1	0	0	0	0	1	0	0	0	11112	333	12	3	46	3	OR52B4	11	4388624	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08		4388624	130617892	26	16080											
SLC17A6	57084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22397548	22397548	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttggcatggaagccacaCtgctcctggtcgttggctat	6	13	12	10	1	0	0	0	0	0	0	2	1	1	1	2	4	2	5	2	4	2	4	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	22397548	C	G	22397548	3	3	323	1	0	0	0	0	1	0	0	0	14423	564	20	4	1233	4	SLC17A6	11	22397548	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	18008924	22397548	112608968	27	16081											
OR5M8	219484	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56258042	56258042	+	Nonsense_Mutation	SNP	G	G	A																															tacagctaccattttaccctGttcaacagattcctttgagg																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	56258042	G	A	56258042	4	1	323	1	0	0	0	0	0	1	0	0	11176	1386	48	2	134	2	OR5M8	11	56258042	Nonsense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	33860494	56258042	78748474	28	16082	212	2									
OR5M8	219484	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56258050	56258050	+	Missense_Mutation	SNP	G	G	C																															ccattttaccctgttcaacaGattcctttgaggggggtctg																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	56258050	G	C	56258050	3	2	323	1	0	0	0	0	1	0	0	0	11176	942	33	4	142	4	OR5M8	11	56258050	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	8	56258050	78748466	29	16083	212	2									
C11orf24	53838	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68029933	68029933	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtggcggtagtggacgggGtccgccctgtggaagtggac	6	7	19	9	3	0	0	0	0	0	0	1	3	1	3	2	7	0	1	2	7	2	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	68029933	G	A	68029933	3	1	323	1	0	0	0	0	1	0	0	0	1635	1261	44	2	823	2	C11orf24	11	68029933	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	11771883	68029933	66976583	30	16084											
RPS3	6188	broad.mit.edu;hgsc.bcm.edu	37	chr11	75113456	75113456	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcccaggcagagtctctgCgttacaaactcctaggaggg	9	9	12	11	1	1	1	0	0	1	1	3	2	2	2	2	3	4	2	2	3	3	3	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	75113456	C	T	75113456	3	4	323	1	0	0	0	0	1	0	0	0	13645	768	27	1	330	1	RPS3	11	75113456	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	7083523	75113456	59893060	31	16085											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92533045	92533045	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacccccctattttcgatcAgcctacatacaatacaacac	14	9	2	16	1	1	0	1	0	0	0	2	1	1	0	4	0	6	0	4	0	7	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	92533045	A	G	92533045	3	3	323	1	0	0	0	0	1	0	0	0	5691	188	7	3	6900	3	FAT3	11	92533045	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08	17419589	92533045	42473471	32	16086											
PIWIL4	143689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94308185	94308185	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataaatatgggatatcttctGgtgatgctggaagtaccttc	11	14	10	6	0	2	1	0	1	2	0	3	3	2	3	1	3	2	2	1	3	6	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	94308185	G	C	94308185	3	2	323	1	0	0	0	0	1	0	0	0	11960	1348	47	4	197	4	PIWIL4	11	94308185	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08	1775140	94308185	40698331	33	16087											
MMP20	9313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102482517	102482517	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagatatcataatatccgcTtctcctgagtttattctgac	12	15	5	9	1	3	3	1	2	2	1	5	3	4	3	2	0	0	2	2	0	5	7	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	102482517	T	G	102482517	3	3	323	1	0	0	0	0	1	0	0	0	9659	1606	56	5	991	5	MMP20	11	102482517	Missense_Mutation	SNP	T	TCGA-BP-5009-01A-01D-1462-08	8174332	102482517	32523999	34	16088											
KCNJ8	3764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21918783	21918783	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttcttctcatggagttGcgcttcctcagagaattttg	6	18	9	8	1	3	1	2	0	2	1	5	3	4	2	1	1	1	3	1	1	1	7	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	21918783	G	T	21918783	2	4	323	1	0	0	0	0	0	0	0	1	8056	1306	46	4		4	KCNJ8	12	21918783	Silent	SNP	G	TCGA-BP-5009-01A-01D-1462-08		21918783	111933112	35	16089											
RAN	5901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	131357432	131357432	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaacgaccttcgtgaaacgtCatttgactggtgaatttgag	12	12	10	7	3	1	4	1	4	0	0	2	5	1	4	1	1	2	0	1	1	3	3	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	131357432	C	T	131357432	3	4	323	1	0	0	0	0	1	0	0	0	13026	826	29	2	94	2	RAN	12	131357432	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	109438649	131357432	2494463	36	16090											
C14orf135	0	hgsc.bcm.edu	37	chr14	60592395	60592396	+	In_Frame_Ins	INS	-	-	TAT																															tgataaagcaagtttaggtcINScaatagaagactttagagaa																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		TAT	60592396	-	TAT	60592395	7	5	323	1	0	1	1	0	0	0	0	0	1745	855	30	0	2449	0	C14orf135	14	60592395	In_Frame_Ins	INS	-	TCGA-BP-5009-01A-01D-1462-08		60592395	46757145	37	16091											
CSK	1445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75092775	75092775	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctacacctcagacgcagatgGactctgtacgcgcctcatta	10	9	8	14	3	3	2	2	0	1	2	3	3	3	3	2	1	2	2	2	1	3	3	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	75092775	G	A	75092775	3	1	323	1	0	0	0	0	1	0	0	0	3943	1174	41	2	503	2	CSK	15	75092775	Missense_Mutation	SNP	G	TCGA-BP-5009-01A-01D-1462-08		75092775	27438617	38	16092											
PRSS36	146547	broad.mit.edu;hgsc.bcm.edu	37	chr16	31160816	31160816	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttcctgggtaggactgAgagctgggagccagagggga	8	8	18	7	0	1	2	0	1	1	2	2	6	2	5	2	5	2	3	2	5	1	3	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	31160816	A	G	31160816	3	3	323	1	0	0	0	0	1	0	0	0	12627	304	11	3	2542	3	PRSS36	16	31160816	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08		31160816	59193937	39	16093											
WDR81	124997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1633775	1633775	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgcctgctgacgtcttgtTatgttggtaaggaggcctgc	5	13	13	10	2	1	1	0	1	1	0	2	2	2	2	3	3	2	4	3	3	2	4	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	1633775	T	C	1633775	3	2	323	1	0	0	0	0	1	0	0	0	17329	1754	61	3	3837	3	WDR81	17	1633775	Missense_Mutation	SNP	T	TCGA-BP-5009-01A-01D-1462-08		1633775	79561435	40	16094											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7680805	7680805	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagaagccatcagggggaaCttgaccaagatcatgcggct	12	7	12	10	1	3	3	3	1	0	2	3	4	3	4	2	3	3	1	2	3	3	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	7680805	C	A	7680805	3	1	323	1	0	0	0	0	1	0	0	0	4602	564	20	4	5226	4	DNAH2	17	7680805	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	6047030	7680805	73514405	41	16095											
JUP	3728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39927930	39927930	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccccctgggtgtaagtGgtggttttcttgagcgtgta	5	13	15	8	1	1	1	0	1	1	0	1	1	1	1	2	4	1	4	2	4	2	5	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		A	39927930	G	A	39927930	2	1	323	1	0	0	0	0	0	0	0	1	7972	1335	47	2		2	JUP	17	39927930	Silent	SNP	G	TCGA-BP-5009-01A-01D-1462-08	32247125	39927930	41267280	42	16096											
SLC4A1	6521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42338113	42338113	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctccagttgcacccagCgcgccgcctccatccatctc	5	9	6	21	3	2	0	0	0	2	0	7	0	5	0	7	0	2	2	7	0	0	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		T	42338113	C	T	42338113	3	4	323	1	0	0	0	0	1	0	0	0	14652	768	27	1	2560	1	SLC4A1	17	42338113	Missense_Mutation	SNP	C	TCGA-BP-5009-01A-01D-1462-08	2410183	42338113	38857097	43	16097											
CALCOCO2	10241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46928942	46928944	+	In_Frame_Del	DEL	GAT	GAT	-																															ctgaaagaacaaaaccagaaGatgtcctcagaaaatgagaa																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		-	46928944	GAT	-	46928942	7	5	323	1	0	1	0	1	0	0	0	0	2578	933	33	0	676	0	CALCOCO2	17	46928942	In_Frame_Del	DEL	GAT	TCGA-BP-5009-01A-01D-1462-08	4590829	46928942	34266268	44	16098											
ECSIT	51295	hgsc.bcm.edu	37	chr19	11618629	11618630	+	Frame_Shift_Ins	INS	-	-	G																															aggccgggctggattgtggcINSgggccagggcggcctgctga																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		G	11618630	-	G	11618629	7	5	323	1	0	1	1	0	0	0	0	0	4900	768	27	0	474	0	ECSIT	19	11618629	Frame_Shift_Ins	INS	-	TCGA-BP-5009-01A-01D-1462-08		11618629	47510354	45	16099											
ZNF564	163050	hgsc.bcm.edu;ucsc.edu	37	chr19	12637642	12637643	+	Frame_Shift_Ins	INS	-	-	CA																															aagagaaatgaaggctttccINScacatacctgacattcatag																								novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		CA	12637643	-	CA	12637642	7	5	323	1	0	1	1	0	0	0	0	0	17994	623	22	0	385	0	ZNF564	19	12637642	Frame_Shift_Ins	INS	-	TCGA-BP-5009-01A-01D-1462-08	1019013	12637642	46491341	46	16100											
EML2	24139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46136177	46136177	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccccaagcccagcacgTgtaaggtggagagggaaact	13	4	12	12	1	0	1	0	0	0	1	0	3	0	2	3	3	3	2	3	3	3	1	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	46136177	T	C	46136177	3	2	323	1	0	0	0	0	1	0	0	0	5097	1696	59	3	1553	3	EML2	19	46136177	Missense_Mutation	SNP	T	TCGA-BP-5009-01A-01D-1462-08	33498535	46136177	12992806	47	16101											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57327329	57327329	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagacctactgtattccctTccttcagaggtgttccctcc	7	13	6	15	0	1	2	1	0	0	2	5	2	5	2	5	1	1	2	5	1	2	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	57327329	T	C	57327329	2	2	323	1	0	0	0	0	0	0	0	1	11720	1770	62	3		3	PEG3	19	57327329	Silent	SNP	T	TCGA-BP-5009-01A-01D-1462-08	11191152	57327329	1801654	48	16102											
CHM	1121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	85213896	85213896	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccttctcgaaatgcaagAatcctggtaatatttttaaa	13	14	6	8	2	1	1	0	0	1	1	4	2	3	1	2	1	1	2	2	1	7	6	novel		TCGA-BP-5009-01A-01D-1462-08	TCGA-BP-5009-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3baa3cdc-c63e-4556-baf1-c3b03175b0fa	898e7605-5dd0-48b9-9fbc-0fc073d4a49c		C	85213896	A	C	85213896	3	2	323	1	0	0	0	0	1	0	0	0	3350	242	9	5	1212	5	CHM	23	85213896	Missense_Mutation	SNP	A	TCGA-BP-5009-01A-01D-1462-08		85213896	70056664	49	16103											
CLSTN1	22883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	9801267	9801267	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacatagagagtcacactCgggaattctacattgaggac	13	9	9	10	1	2	2	1	1	1	1	4	5	3	4	1	2	1	0	1	2	3	4	rs149205224		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	9801267	C	T	9801267	2	4	324	1	0	0	0	0	0	0	0	1	3561	871	31	1		1	CLSTN1	1	9801267	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08		9801267	239449354	1	16104											
EIF4G3	8672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21221941	21221941	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgaactggaagtccagcaGaaactccctgtcatactgct	12	9	8	12	0	1	2	1	1	0	1	3	3	3	3	2	1	5	2	2	1	4	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	21221941	G	A	21221941	2	1	324	1	0	0	0	0	0	0	0	1	5038	933	33	2		2	EIF4G3	1	21221941	Silent	SNP	G	TCGA-BP-5010-01A-02D-1421-08	11420674	21221941	228028680	2	16105											
ZSCAN20	7579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33956856	33956856	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctatgaggagaccaagaCtttcctggcaattttgagtg	10	11	13	7	0	0	4	0	2	0	2	1	5	1	4	2	3	0	2	2	3	3	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	33956856	C	A	33956856	3	1	324	1	0	0	0	0	1	0	0	0	18231	565	20	4	1016	4	ZSCAN20	1	33956856	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	12734915	33956856	215293765	3	16106											
DENND2C	163259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	115144173	115144173	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggcgactaaccatgcagtAtacctcagggagtcgctttc	10	10	10	11	2	1	0	1	0	0	0	3	2	1	1	2	2	3	3	2	2	4	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		C	115144173	A	C	115144173	3	2	324	1	0	0	0	0	1	0	0	0	4430	449	16	5	1051	5	DENND2C	1	115144173	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08	81187317	115144173	134106448	4	16107											
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	144912241	144912241	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaaatattggcgcagggcCtgtaattctgaatttctttc	9	15	8	9	1	2	1	0	1	2	0	3	1	2	1	2	2	0	2	2	2	5	7	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	144912241	C	A	144912241	3	1	324	1	0	0	0	0	1	0	0	0	11643	680	24	4	5136	4	PDE4DIP	1	144912241	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	29768068	144912241	104338380	5	16108											
OAZ3	51686	broad.mit.edu;hgsc.bcm.edu	37	chr1	151740624	151740624	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccttacctcccagaccTctgcccattggcacggcctt	5	10	7	19	2	1	1	0	0	1	1	3	1	3	1	7	2	2	1	7	2	1	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	151740624	T	G	151740624	3	3	324	1	0	0	0	0	1	0	0	0	10806	1551	54	5	441	5	OAZ3	1	151740624	Missense_Mutation	SNP	T	TCGA-BP-5010-01A-02D-1421-08	6828383	151740624	97509997	6	16109											
MEF2D	4209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156446973	156446973	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaggccaggggaagccCgagcactgacgtagccattc	10	4	16	11	2	0	1	0	1	0	0	1	5	0	4	3	5	3	2	3	5	2	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	156446973	C	T	156446973	3	4	324	1	0	0	0	0	1	0	0	0	9458	652	23	1	903	1	MEF2D	1	156446973	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	4706349	156446973	92803648	7	16110											
SIPA1L2	57568	broad.mit.edu;hgsc.bcm.edu	37	chr1	232651061	232651061	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctagcttgtgcttctcttCttgtgactgccttgggtcac	3	16	10	12	0	3	1	1	1	2	0	4	1	3	1	2	1	3	2	2	1	1	6	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	232651061	C	A	232651061	4	1	324	1	0	0	0	0	0	1	0	0	14332	922	32	4	5227	4	SIPA1L2	1	232651061	Nonsense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	76204088	232651061	16599560	8	16111											
PFN4	375189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24338472	24338472	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaacttcctttttttcttAggtagtctcctgaaagcaaa	10	17	5	9	0	2	1	0	1	2	0	4	1	3	1	2	1	2	2	2	1	5	7	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	24338472	A	T	24338472	3	4	324	1	0	0	0	0	1	0	0	0	11770	420	15	5	22	5	PFN4	2	24338472	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		24338472	218860901	9	16112											
XPO1	7514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61706022	61706022	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagacatttgacgtttaTgtttctcttcatcagcctgc	8	15	8	10	1	3	2	2	1	1	1	4	3	3	3	1	1	2	2	1	1	1	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		C	61706022	T	C	61706022	3	2	324	1	0	0	0	0	1	0	0	0	17444	1464	51	3	70	3	XPO1	2	61706022	Missense_Mutation	SNP	T	TCGA-BP-5010-01A-02D-1421-08	37367550	61706022	181493351	10	16113											
CNOT10	25904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	32750281	32750281	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaagccatatcagttggTgaaaaactttatcagttcat	15	12	7	7	0	3	2	3	1	0	1	3	2	3	2	1	1	2	2	1	1	5	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	32750281	T	A	32750281	2	1	324	1	0	0	0	0	0	0	0	1	3618	1683	59	5		5	CNOT10	3	32750281	Silent	SNP	T	TCGA-BP-5010-01A-02D-1421-08		32750281	165272149	11	16114											
SCN10A	6336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38798548	38798548	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggaatcctgtgtcatgagGcggaacagtgagaggaaagc	13	6	15	7	1	1	2	1	2	0	1	2	6	2	5	1	4	2	0	1	4	3	0	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	38798548	G	T	38798548	2	4	324	1	0	0	0	0	0	0	0	1	13914	1190	42	4		4	SCN10A	3	38798548	Silent	SNP	G	TCGA-BP-5010-01A-02D-1421-08	6048267	38798548	159223882	12	16115											
TWF2	11344	broad.mit.edu;ucsc.edu	37	chr3	52273016	52273016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccgccctcaccgtggatgCccgtttggtgcgccatggct	4	10	12	15	4	1	0	1	0	0	0	2	1	2	1	5	3	2	2	5	3	0	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	52273016	T	T	52273016	3	4	324	1	0	0	0	0	1	0	0	0	16781	739	26	2	1068	2	TWF2	3	52273016	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	13474468	52273016	145749414	13	16116											
CCDC80	151887	hgsc.bcm.edu;ucsc.edu	37	chr3	112357355	112357356	+	Frame_Shift_Ins	INS	-	-	T																															gttcccgcctgtccatgcggINSttgtcccggaaacggcctgg																								novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	112357356	-	T	112357355	7	5	324	1	0	1	1	0	0	0	0	0	2854	1252	44	0	1482	0	CCDC80	3	112357355	Frame_Shift_Ins	INS	-	TCGA-BP-5010-01A-02D-1421-08	60084339	112357355	85665075	14	16117											
KLF3	51274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	38698861	38698861	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaccatcttgccctccatAggaaacgccacatgctagtc	10	9	7	15	1	1	1	0	1	1	0	3	2	2	2	4	1	3	1	4	1	3	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	38698861	A	G	38698861	3	3	324	1	0	0	0	0	1	0	0	0	8347	411	15	3	1033	3	KLF3	4	38698861	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		38698861	152455415	15	16118											
KDR	3791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	55955623	55955623	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcatcaatctttacccCaggatatggagaagcaccta	12	12	6	11	0	4	1	2	0	2	1	4	3	4	2	3	2	2	1	3	2	5	6	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	55955623	C	A	55955623	3	1	324	1	0	0	0	0	1	0	0	0	8139	594	21	4	772	4	KDR	4	55955623	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	17256762	55955623	135198653	16	16119											
CD180	4064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66481767	66481767	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaaagctgaattccaaaaAttctgttgtgtttggtagag	13	15	9	4	0	1	2	0	1	1	1	2	2	2	2	1	1	1	4	1	1	6	6	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		C	66481767	A	C	66481767	3	2	324	1	0	0	0	0	1	0	0	0	2972	101	4	5	1824	5	CD180	5	66481767	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		66481767	114433493	17	16120											
RAD17	5884	hgsc.bcm.edu;ucsc.edu	37	chr5	68682089	68682090	+	Frame_Shift_Del	DEL	TT	TT	-																															ataataatcaaaggttattgTttcccaaagaaattcaggaa																								novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		-	68682090	TT	-	68682089	7	5	324	1	0	1	0	1	0	0	0	0	12981	1725	60	0	853	0	RAD17	5	68682089	Frame_Shift_Del	DEL	TT	TCGA-BP-5010-01A-02D-1421-08	2200322	68682089	112233171	18	16121											
RASGRF2	5924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	80511696	80511696	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcttttctttttagaCaaaagctctaatggacaaac	12	18	4	7	0	3	1	0	0	3	1	3	2	3	2	0	1	2	1	0	1	5	9	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	80511696	C	A	80511696	3	1	324	1	0	0	0	0	1	0	0	0	13075	492	17	4	3450	4	RASGRF2	5	80511696	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	11829607	80511696	100403564	19	16122											
PCDHB11	56125	hgsc.bcm.edu;ucsc.edu	37	chr5	140580451	140580453	+	In_Frame_Del	DEL	TAG	TAG	-																															gagaccgtggttatggttttTagtatccaagatatagactc																								novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	TAG	TAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		-	140580453	TAG	-	140580451	7	5	324	1	0	1	0	1	0	0	0	0	11536	1751	61	0	1106	0	PCDHB11	5	140580451	In_Frame_Del	DEL	TAG	TCGA-BP-5010-01A-02D-1421-08	60068755	140580451	40334809	20	16123											
CAGE1	285782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7373333	7373333	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatctgacttcaagacttcCtctaattgatcctttaactg	11	16	4	10	0	3	3	1	2	2	1	5	3	5	3	2	0	1	0	2	0	4	7	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	7373333	C	T	7373333	2	4	324	1	0	0	0	0	0	0	0	1	2572	680	24	2		2	CAGE1	6	7373333	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08		7373333	163741734	21	16124											
GPLD1	2822	hgsc.bcm.edu;ucsc.edu	37	chr6	24473886	24473886	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcctctgaataggagccgtGaaaatcaatctaagaaagaa	18	7	9	7	1	3	4	1	2	2	2	3	5	3	5	2	1	2	0	2	1	8	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	24473886	G	A	24473886	3	1	324	1	0	0	0	0	1	0	0	0	6614	1290	45	2	2192	2	GPLD1	6	24473886	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08	17100553	24473886	146641181	22	16125											
TTBK1	84630	broad.mit.edu;hgsc.bcm.edu	37	chr6	43252048	43252048	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggacacagccatcaccagCaggtgagaaaccgctgccag	12	5	11	13	1	1	1	1	1	0	1	1	3	1	2	4	2	4	2	4	2	1	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	43252048	C	A	43252048	3	1	324	1	0	0	0	0	1	0	0	0	16675	709	25	4	3620	4	TTBK1	6	43252048	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	18778162	43252048	127863019	23	16126											
CYP39A1	51302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46563727	46563727	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaaccaaagcttaccaaAatttccacaggcttcaccac	16	7	3	15	0	1	0	1	0	0	0	2	0	2	0	5	1	3	2	5	1	5	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	46563727	A	T	46563727	2	4	324	1	0	0	0	0	0	0	0	1	4177	10	1	5		5	CYP39A1	6	46563727	Silent	SNP	A	TCGA-BP-5010-01A-02D-1421-08	3311679	46563727	124551340	24	16127											
C6orf138	0	broad.mit.edu;ucsc.edu	37	chr6	48035980	48035980	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaccttcatttccagcaCggctcggtgggtctgcagga	6	11	12	12	2	3	0	2	0	1	0	5	1	4	1	2	4	2	4	2	4	0	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	48035980	A	A	48035980	3	1	324	1	0	0	0	0	1	0	0	0	2332	536	19	4	2140	4	C6orf138	6	48035980	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	1472253	48035980	123079087	25	16128											
KLHL31	401265	broad.mit.edu;hgsc.bcm.edu	37	chr6	53520057	53520057	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttctttttgacaatcttcTttttgggtgccatgttggca	5	20	9	7	0	3	1	0	1	3	0	3	1	3	1	1	2	1	3	1	2	1	7	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	53520057	T	A	53520057	3	1	324	1	0	0	0	0	1	0	0	0	8385	1609	56	5	1898	5	KLHL31	6	53520057	Missense_Mutation	SNP	T	TCGA-BP-5010-01A-02D-1421-08	5484077	53520057	117595010	26	16129											
COX7A2	1347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	75947673	75947673	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcttgggaaatgaagcCacagccagctcatatatggc	11	10	10	10	0	2	1	1	1	1	0	2	2	2	2	2	2	4	2	2	2	4	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	75947673	C	T	75947673	2	4	324	1	0	0	0	0	0	0	0	1	3780	581	21	2		2	COX7A2	6	75947673	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08	22427616	75947673	95167394	27	16130											
MICAL1	64780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	109774523	109774523	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accccagtgaatttccacccCcagcagcaatgctaccttca	11	8	5	17	0	1	1	1	1	0	0	2	1	2	1	6	0	4	3	6	0	3	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	109774523	C	G	109774523	3	3	324	1	0	0	0	0	1	0	0	0	9569	623	22	4	2777	4	MICAL1	6	109774523	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	33826850	109774523	61340544	28	16131											
RFX6	222546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	117241586	117241586	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttaccatttcaggcagCacagacactgaatctggtat	11	12	7	11	0	3	2	1	1	2	1	3	2	3	2	1	2	2	3	1	2	3	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	117241586	C	T	117241586	2	4	324	1	0	0	0	0	0	0	0	1	13269	709	25	2		2	RFX6	6	117241586	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08	7467063	117241586	53873481	29	16132											
MAS1	4142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160328147	160328147	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgagaatgggattctcCtctggttcctgtgcttccgg	4	16	12	9	1	2	1	0	1	2	1	5	3	4	2	3	3	1	3	3	3	1	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	160328147	C	A	160328147	3	1	324	1	0	0	0	0	1	0	0	0	9320	681	24	4	162	4	MAS1	6	160328147	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	43086561	160328147	10786920	30	16133											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu	37	chr7	48634311	48634311	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctttccttcaggatgaGcccagctctgggatggatcc	6	12	11	12	0	2	1	1	1	1	0	4	4	4	4	4	3	3	1	4	3	0	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	48634311	G	A	48634311	2	1	324	1	0	0	0	0	0	0	0	1	31	962	34	2		2	ABCA13	7	48634311	Silent	SNP	G	TCGA-BP-5010-01A-02D-1421-08		48634311	110504352	31	16134											
FBXL13	222235	hgsc.bcm.edu;ucsc.edu	37	chr7	102517966	102517966	+	Frame_Shift_Del	DEL	T	T	-																															ttgataccaaggaaaagatgTttacaatatatccaattcct																								novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		-	102517966	T	-	102517966	7	5	324	1	0	1	0	1	0	0	0	0	5709	1725	60	0	644	0	FBXL13	7	102517966	Frame_Shift_Del	DEL	T	TCGA-BP-5010-01A-02D-1421-08	53883655	102517966	56620697	32	16135											
NUP205	23165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135298932	135298932	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atatcagttatgtgcatgctCtgatacatctggtcctacta	10	15	7	9	0	3	1	1	1	2	0	4	1	4	1	1	1	4	3	1	1	5	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	135298932	C	T	135298932	3	4	324	1	0	0	0	0	1	0	0	0	10759	913	32	2	3311	2	NUP205	7	135298932	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	32780966	135298932	23839731	33	16136											
CDCA2	157313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	25327412	25327412	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcaatttttccccaagAtatcatctaaacttggttca	11	17	3	10	0	5	1	3	0	2	1	6	1	6	1	2	1	1	1	2	1	5	7	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	25327412	A	G	25327412	3	3	324	1	0	0	0	0	1	0	0	0	3086	347	12	3	758	3	CDCA2	8	25327412	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		25327412	121036610	34	16137											
PCMTD1	115294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	52746175	52746175	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccagctccacaataaattCgatcatactgatgactgtca	13	11	5	12	1	2	2	2	2	0	0	5	3	4	2	2	0	2	1	2	0	4	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	52746175	C	T	52746175	3	4	324	1	0	0	0	0	1	0	0	0	11586	884	31	1	600	1	PCMTD1	8	52746175	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	27418763	52746175	93617847	35	16138											
CREB3	10488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35736114	35736114	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaacaaaaccagcagcagCagcacctgcatcttggtgag	14	6	9	12	0	2	1	1	1	1	0	2	1	2	1	2	1	7	5	2	1	3	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	35736114	C	T	35736114	2	4	324	1	0	0	0	0	0	0	0	1	3855	709	25	2		2	CREB3	9	35736114	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08		35736114	105477317	36	16139											
INVS	27130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	103002449	103002449	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtggttgatgtcttgacCtcatatgaaagctgcaatat	11	13	9	8	1	2	3	1	3	1	0	2	3	2	3	2	1	2	3	2	1	4	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	103002449	C	T	103002449	2	4	324	1	0	0	0	0	0	0	0	1	7787	668	24	2		2	INVS	9	103002449	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08	67266335	103002449	38210982	37	16140											
PTEN	5728	hgsc.bcm.edu	37	chr10	89711969	89711970	+	Frame_Shift_Ins	INS	-	-	C																															ccagtggcactgttgtttcaINScaagatgatgtttgaaacta																								novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	-	-	-	C	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		C	89711970	-	C	89711969	7	5	324	1	0	1	1	0	0	0	0	0	12740	159	6	0	609	0	PTEN	10	89711969	Frame_Shift_Ins	INS	-	TCGA-BP-5010-01A-02D-1421-08		89711969	45822778	38	16141											
OR9G1	390174	hgsc.bcm.edu	37	chr11	56468235	56468235	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttatgaccgctacgtggcCatctccaagcccctgcttta	7	11	8	15	2	1	1	0	1	1	0	2	1	1	1	5	1	3	3	5	1	4	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	56468235	C	T	56468235	2	4	324	1	0	0	0	0	0	0	0	1	11250	581	21	2		2	OR9G1	11	56468235	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08		56468235	78538281	39	16142											
BBS1	582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66291217	66291217	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagctgtggacagtgcAgatgcccgcagccatcctga	11	6	13	11	1	0	3	0	1	0	2	1	5	1	4	3	1	4	3	3	1	2	0	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		C	66291217	A	C	66291217	3	2	324	1	0	0	0	0	1	0	0	0	1335	188	7	5	1016	5	BBS1	11	66291217	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08	9822982	66291217	68715299	40	16143											
PAH	5053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	103306603	103306603	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atactttggccaatgcaccaActtcttctttgagtgagaag	11	13	8	9	0	2	2	0	2	2	1	2	3	2	2	2	1	3	1	2	1	4	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	103306603	A	T	103306603	3	4	324	1	0	0	0	0	1	0	0	0	11394	43	2	5	1272	5	PAH	12	103306603	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		103306603	30545292	41	16144											
TMEM132D	121256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130184668	130184668	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccacgggggtcccctccgGctggtccacggacttcctcc	3	8	11	19	3	0	0	0	0	0	0	6	1	6	1	7	5	0	1	7	5	0	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	130184668	G	T	130184668	3	4	324	1	0	0	0	0	1	0	0	0	16046	1203	42	4	2676	4	TMEM132D	12	130184668	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08	26878065	130184668	3667227	42	16145											
RBM26	64062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	79911406	79911406	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatgaattcctctgcccCgaccagatgaaagaatccct	12	10	7	12	1	1	5	0	3	1	2	3	6	3	5	5	0	1	0	5	0	4	2	rs140188767	alternate_allele	TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	79911406	C	G	79911406	3	3	324	1	0	0	0	0	1	0	0	0	13128	652	23	4	475	4	RBM26	13	79911406	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08		79911406	35258472	43	16146											
STRN3	29966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31404443	31404443	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagtcactaaaaaatcaAattctttcagtgcttcctca	14	12	4	11	0	5	0	4	0	1	0	6	0	6	0	1	0	2	2	1	0	4	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	31404443	A	T	31404443	3	4	324	1	0	0	0	0	1	0	0	0	15331	14	1	5	1527	5	STRN3	14	31404443	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		31404443	75945097	44	16147											
TTLL5	23093	hgsc.bcm.edu;ucsc.edu	37	chr14	76349240	76349240	+	Frame_Shift_Del	DEL	T	T	-																															agggcaacatcccagaaagcTtccaagtaagtttttttctg																								novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		-	76349240	T	-	76349240	7	5	324	1	0	1	0	1	0	0	0	0	16729	1596	56	0	3849	0	TTLL5	14	76349240	Frame_Shift_Del	DEL	T	TCGA-BP-5010-01A-02D-1421-08	44944797	76349240	31000300	45	16148											
AQR	9716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35196663	35196663	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggatccaaaaacactctAaatgtccttgattctcctct	11	15	4	11	0	3	1	0	1	3	0	6	2	5	2	3	1	1	0	3	1	4	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	35196663	A	T	35196663	3	4	324	1	0	0	0	0	1	0	0	0	835	359	13	5	2650	5	AQR	15	35196663	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		35196663	67334729	46	16149											
SPG11	80208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	44877930	44877930	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgcagtctttccaaaatAgatctacattcatgctgaag	12	13	7	9	0	4	2	1	1	3	1	5	2	5	2	1	0	3	2	1	0	5	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	44877930	A	T	44877930	2	4	324	1	0	0	0	0	0	0	0	1	15042	407	15	5		5	SPG11	15	44877930	Silent	SNP	A	TCGA-BP-5010-01A-02D-1421-08	9681267	44877930	57653462	47	16150											
CYP1A2	1544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75042328	75042328	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatccgcattggctccacGcccgtgctggtgctgagccg	5	8	13	15	4	0	2	0	1	0	1	2	2	2	2	4	2	3	4	4	2	0	1	rs17861153	bycluster;byfrequency	TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	75042328	G	A	75042328	2	1	324	1	0	0	0	0	0	0	0	1	4150	1074	38	1		1	CYP1A2	15	75042328	Silent	SNP	G	TCGA-BP-5010-01A-02D-1421-08	30164398	75042328	27489064	48	16151											
SNX33	257364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75942230	75942230	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccatgctgcctcacccGtctaccggcgctacaaacac	9	6	6	20	3	2	0	1	0	1	0	2	0	2	0	5	1	5	2	5	1	3	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	75942230	G	A	75942230	3	1	324	1	0	0	0	0	1	0	0	0	14905	1145	40	1	789	1	SNX33	15	75942230	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08	899902	75942230	26589162	49	16152											
TARSL2	123283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	102261432	102261432	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgttgcttgtatccccctTttttccataaatggcaagta	9	16	7	9	0	0	0	0	0	0	0	2	1	2	0	3	1	1	5	3	1	5	8	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	102261432	T	A	102261432	4	1	324	1	0	0	0	0	0	1	0	0	15560	1850	64	5	2013	5	TARSL2	15	102261432	Nonsense_Mutation	SNP	T	TCGA-BP-5010-01A-02D-1421-08	26319202	102261432	269960	50	16153											
CACNA1H	8912	broad.mit.edu	37	chr16	1257814	1257814	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacgaggacaagacgtcggtCcacttcgaggaggacttcca	11	6	13	11	4	0	1	0	0	0	1	4	7	2	4	2	4	0	0	2	4	1	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	1257814	T	T	1257814	2	4	324	1	0	0	0	0	0	0	0	1	2545	842	30	2		2	CACNA1H	16	1257814	Silent	SNP	C	TCGA-BP-5010-01A-02D-1421-08		1257814	89096939	51	16154											
PDILT	204474	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20380853	20380853	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgcggccaaatttcttGaggctttcgtaggttatgtc	8	14	11	8	2	1	1	0	1	1	0	3	1	1	1	1	3	2	4	1	3	4	5	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	20380853	G	T	20380853	2	4	324	1	0	0	0	0	0	0	0	1	11674	1277	45	4		4	PDILT	16	20380853	Silent	SNP	G	TCGA-BP-5010-01A-02D-1421-08	19123039	20380853	69973900	52	16155											
SCNN1G	6340	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	23203706	23203706	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgactgtgccacctacAccttcagctcgggaatcaat	9	9	7	16	2	2	0	2	0	0	0	4	2	3	1	5	1	3	1	5	1	3	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	23203706	A	G	23203706	3	3	324	1	0	0	0	0	1	0	0	0	13932	159	6	3	662	3	SCNN1G	16	23203706	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08	2822853	23203706	67151047	53	16156											
CPNE7	27132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89657544	89657544	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccccccacaggcatccaggGcgtggtggaggcctaccaga	8	4	14	15	1	0	1	0	0	0	1	1	2	1	2	6	5	1	1	6	5	1	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	89657544	G	A	89657544	3	1	324	1	0	0	0	0	1	0	0	0	3817	1203	42	2	1461	2	CPNE7	16	89657544	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08	66453838	89657544	697209	54	16157											
CD300LG	146894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41926061	41926061	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgggatcctcttctctcGctgctctggcaccatctatg	4	13	11	13	1	4	0	0	0	4	0	7	1	5	1	2	3	1	3	2	3	1	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	41926061	G	A	41926061	3	1	324	1	0	0	0	0	1	0	0	0	3002	1087	38	1	185	1	CD300LG	17	41926061	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08		41926061	39269149	55	16158											
HNRNPM	4670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8528506	8528506	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaagatggaagagagcaTgaaaaaagctgcggaagtcc	17	6	12	6	1	1	3	1	1	0	2	2	6	2	5	1	2	3	2	1	2	6	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	8528506	T	A	8528506	3	1	324	1	0	0	0	0	1	0	0	0	7271	1464	51	5	392	5	HNRNPM	19	8528506	Missense_Mutation	SNP	T	TCGA-BP-5010-01A-02D-1421-08		8528506	50600477	56	16159											
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu	37	chr19	31768802	31768802	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggcggggaaagcttccCatccggctccttcatcttct	5	12	10	14	2	3	0	1	0	2	0	6	1	6	1	3	4	1	2	3	4	1	4	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	31768802	C	A	31768802	3	1	324	1	0	0	0	0	1	0	0	0	16624	594	21	4	1352	4	TSHZ3	19	31768802	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	23240296	31768802	27360181	57	16160											
RUVBL2	10856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49517740	49517740	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctttctgcctcttcctcaGaatccggggcaccagctacc	6	11	7	17	1	4	1	1	0	3	1	6	1	6	1	5	2	3	2	5	2	2	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	49517740	G	A	49517740	5	1	324	1	0	0	0	0	0	0	1	0	13755	956	33	2	1047	2	RUVBL2	19	49517740	Splice_Site	SNP	G	TCGA-BP-5010-01A-02D-1421-08	17748938	49517740	9611243	58	16161											
ZNF415	55786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53612726	53612726	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaatcagtcccatatttaTtagaaacatgggttttgatg	13	15	8	5	0	1	3	1	2	0	1	2	3	2	3	1	1	1	1	1	1	5	6	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		C	53612726	T	C	53612726	3	2	324	1	0	0	0	0	1	0	0	0	17891	1493	52	3	1099	3	ZNF415	19	53612726	Missense_Mutation	SNP	T	TCGA-BP-5010-01A-02D-1421-08	4094986	53612726	5516257	59	16162											
SALL4	57167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	50406800	50406800	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccctggcgctgcaggttaAaaggggcaggacccactttc	8	8	13	12	1	0	0	0	0	0	0	1	1	0	1	2	5	2	4	2	5	2	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	50406800	A	G	50406800	3	3	324	1	0	0	0	0	1	0	0	0	13815	14	1	3	951	3	SALL4	20	50406800	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		50406800	12618720	60	16163											
N6AMT1	29104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	30255320	30255320	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttacatgtacaaagcctGagggcctatcatagaggcta	13	10	9	9	0	1	2	1	1	0	1	1	2	1	2	2	2	4	2	2	2	7	6	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		T	30255320	G	T	30255320	3	4	324	1	0	0	0	0	1	0	0	0	10114	1299	45	4	456	4	N6AMT1	21	30255320	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08		30255320	17874575	61	16164											
DSCAM	1826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	41450747	41450747	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taggacttggagagagaggtCctctgagctgtggtccaaac	10	9	14	8	0	1	3	0	1	1	2	3	6	3	4	2	4	2	1	2	4	2	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	41450747	C	A	41450747	3	1	324	1	0	0	0	0	1	0	0	0	4768	854	30	4	1492	4	DSCAM	21	41450747	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	11195427	41450747	6679148	62	16165											
MYO18B	84700	broad.mit.edu;hgsc.bcm.edu	37	chr22	26422488	26422488	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccggtccaccaatgtccAcagcaagacctcaggagaca	13	4	9	15	1	1	2	1	0	0	2	3	3	3	2	5	2	2	1	5	2	2	0	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	26422488	A	G	26422488	3	3	324	1	0	0	0	0	1	0	0	0	10066	159	6	3	6714	3	MYO18B	22	26422488	Missense_Mutation	SNP	A	TCGA-BP-5010-01A-02D-1421-08		26422488	24882078	63	16166											
C22orf9	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45607978	45607978	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagacgatgcggtcatcCttgaagcaccctgcagaggg	11	6	13	11	2	1	4	1	1	0	3	2	5	2	4	2	2	3	2	2	2	2	1	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		G	45607978	C	G	45607978	3	3	324	1	0	0	0	0	1	0	0	0	2151	680	24	4	1175	4	C22orf9	22	45607978	Missense_Mutation	SNP	C	TCGA-BP-5010-01A-02D-1421-08	19185490	45607978	5696588	64	16167											
ZFX	7543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	24197791	24197791	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaagaagtattggtagcaGactgtgcctctgaagcagtc	12	9	12	8	0	1	4	0	1	1	3	2	4	1	4	1	1	3	4	1	1	5	3	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	24197791	G	A	24197791	3	1	324	1	0	0	0	0	1	0	0	0	17660	942	33	2	556	2	ZFX	23	24197791	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08		24197791	131072769	65	16168											
STAG2	10735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123179198	123179198	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcacaagtcagagcatttcGacatacaagcaccctggcag	13	7	8	13	1	2	1	2	0	0	1	3	2	2	1	1	1	3	3	1	1	3	2	novel		TCGA-BP-5010-01A-02D-1421-08	TCGA-BP-5010-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	553cbe18-6dd3-4b34-b7fe-96a6dd2e6943	6df74e94-bcef-4451-93d9-381eb5804f28		A	123179198	G	A	123179198	3	1	324	1	0	0	0	0	1	0	0	0	15244	1058	37	1	669	1	STAG2	23	123179198	Missense_Mutation	SNP	G	TCGA-BP-5010-01A-02D-1421-08	98981407	123179198	32091362	66	16169											
C1orf128	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24106410	24106410	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatgggagaggatgatgactCacacccctctgagatgagac	13	7	12	9	0	2	5	1	4	1	3	2	9	2	6	2	2	0	0	2	2	1	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	24106410	C	G	24106410	4	3	325	1	0	0	0	0	0	1	0	0	1995	838	29	4	309	4	C1orf128	1	24106410	Nonsense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08		24106410	225144211	1	16170											
BSDC1	55108	hgsc.bcm.edu;ucsc.edu	37	chr1	32842305	32842306	+	Frame_Shift_Del	DEL	CT	CT	-																															ttggccacaggaacctttgcCtcttttggagatatgggtga																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	32842306	CT	-	32842305	7	5	325	1	0	1	0	1	0	0	0	0	1528	680	24	0	590	0	BSDC1	1	32842305	Frame_Shift_Del	DEL	CT	TCGA-BP-5168-01A-01D-1421-08	8735895	32842305	216408316	2	16171											
MYCBP	26292	broad.mit.edu	37	chr1	39338699	39338700	+	Frame_Shift_Del	DEL	GC	-	-																															cccaggctcacccttggtcaGcgtgtccagcacccccgact																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	39338700	-	-	39338699	7	5	325	1	0	1	0	1	0	0	0	0	10017	962	34	0	248	0	MYCBP	1	39338699	Frame_Shift_Del	DEL	GC	TCGA-BP-5168-01A-01D-1421-08	6496394	39338699	209911922	3	16172											
LRRC8B	23507	broad.mit.edu;ucsc.edu	37	chr1	90048980	90048980	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggacatcatttatagagtAtatctgaaacagataatagt	18	12	7	4	0	2	3	1	1	1	2	2	4	2	4	0	1	1	1	0	1	8	7	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	90048980	G	G	90048980	2	3	325	1	0	0	0	0	0	0	0	1	9022	436	16	3		3	LRRC8B	1	90048980	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08	50710281	90048980	159201641	4	16173											
CCDC76	0	hgsc.bcm.edu;ucsc.edu	37	chr1	100613814	100613814	+	Frame_Shift_Del	DEL	T	T	-																															aagaggcaagataatcagaaTgatgatagtgaagagcatga																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	100613814	T	-	100613814	7	5	325	1	0	1	0	1	0	0	0	0	2850	1461	51	0	1220	0	CCDC76	1	100613814	Frame_Shift_Del	DEL	T	TCGA-BP-5168-01A-01D-1421-08	10564834	100613814	148636807	5	16174											
CACYBP	27101	hgsc.bcm.edu;ucsc.edu	37	chr1	174977836	174977836	+	Frame_Shift_Del	DEL	A	A	-																															ggttgaaaaggagtgcaaagAaaaagagtgagtctacttcc																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	174977836	A	-	174977836	7	5	325	1	0	1	0	1	0	0	0	0	2564	246	9	0	542	0	CACYBP	1	174977836	Frame_Shift_Del	DEL	A	TCGA-BP-5168-01A-01D-1421-08	74364022	174977836	74272785	6	16175											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186151399	186151399	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggctatcaactcacacAcaatggaaagacatgccaag	16	6	7	12	0	2	1	2	0	0	1	2	2	2	2	2	2	2	1	2	2	5	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	186151399	A	T	186151399	3	4	325	1	0	0	0	0	1	0	0	0	7220	159	6	5	16812	5	HMCN1	1	186151399	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	11173563	186151399	63099222	7	16176											
CHI3L1	1116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203155750	203155750	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgagacgccttcacacccAttctggctgcagcagagcag	9	9	10	13	1	2	2	1	1	1	2	2	3	2	2	2	1	3	4	2	1	0	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	203155750	A	G	203155750	3	3	325	1	0	0	0	0	1	0	0	0	3340	217	8	3	1189	3	CHI3L1	1	203155750	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	17004351	203155750	46094871	8	16177											
TAF1A	9015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222750908	222750908	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttcaccatgtctccatgtCtctgcctcactcagatttct	6	17	4	14	0	6	1	3	0	3	1	8	1	6	1	3	0	1	0	3	0	0	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	222750908	C	G	222750908	3	3	325	1	0	0	0	0	1	0	0	0	15518	912	32	4	897	4	TAF1A	1	222750908	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	19595158	222750908	26499713	9	16178											
OBSCN	84033	hgsc.bcm.edu	37	chr1	228505318	228505318	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggccagtggcggctgtGccacgagctggtgcctggac	6	6	16	13	2	0	0	0	0	0	0	0	2	0	1	3	5	3	2	3	5	0	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	228505318	G	T	228505318	3	4	325	1	0	0	0	0	1	0	0	0	10812	1319	46	4	13917	4	OBSCN	1	228505318	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	5754410	228505318	20745303	10	16179											
OBSCN	84033	broad.mit.edu;hgsc.bcm.edu	37	chr1	228559759	228559759	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgccaaagcaagccccccaTtggactctaagatggggcct	10	7	10	14	0	1	1	0	0	1	1	1	2	1	2	5	3	3	1	5	3	3	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	228559759	T	C	228559759	2	2	325	1	0	0	0	0	0	0	0	1	10812	1490	52	3		3	OBSCN	1	228559759	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	54441	228559759	20690862	11	16180											
RRM2	6241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	10269379	10269379	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggttttcagagtagagaacCcatttgactttatggagaat	13	13	10	5	0	1	4	1	1	0	3	1	6	1	4	1	2	1	2	1	2	4	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	10269379	C	T	10269379	3	4	325	1	0	0	0	0	1	0	0	0	13684	623	22	2	1254	2	RRM2	2	10269379	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08		10269379	232929994	12	16181											
ITSN2	50618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24535240	24535240	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccttgtttaggtctgataAagccctaaaaggagcatgag	13	11	10	7	0	1	2	0	2	1	0	2	3	2	3	2	2	2	2	2	2	5	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	24535240	A	G	24535240	2	3	325	1	0	0	0	0	0	0	0	1	7927	11	1	3		3	ITSN2	2	24535240	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08	14265861	24535240	218664133	13	16182											
KHK	3795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27320383	27320383	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccagggccggaacgcaTcggagcaggtgaagatgctg	10	6	16	9	3	0	2	0	1	0	1	1	4	0	4	2	4	4	4	2	4	3	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	27320383	T	C	27320383	3	2	325	1	0	0	0	0	1	0	0	0	8149	1435	50	3	587	3	KHK	2	27320383	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08	2785143	27320383	215878990	14	16183											
ABCG5	64240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44065039	44065039	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacatctttgaggatctGcctggtccactgctgccggc	6	10	13	12	1	2	2	0	1	2	1	3	4	3	3	3	4	3	1	3	4	0	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	44065039	G	C	44065039	3	2	325	1	0	0	0	0	1	0	0	0	71	1328	46	4	1804	4	ABCG5	2	44065039	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	16744656	44065039	199134334	15	16184											
CNRIP1	25927	broad.mit.edu	37	chr2	68546472	68546472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgtaaaagaccgggcCgtcattaggctggatgcgca	10	8	12	11	3	1	1	1	0	0	1	1	2	1	2	3	3	1	3	3	3	3	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	68546472	A	A	68546472	3	1	325	1	0	0	0	0	1	0	0	0	3633	652	23	4	506	4	CNRIP1	2	68546472	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	24481433	68546472	174652901	16	16185											
NCAPH	23397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97024901	97024901	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgtcgatgtgggctggcccgGatcactggcgctttaggcct	4	11	15	11	3	1	0	1	0	0	0	2	2	1	1	2	5	0	2	2	5	1	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	97024901	G	C	97024901	3	2	325	1	0	0	0	0	1	0	0	0	10209	1174	41	4	1365	4	NCAPH	2	97024901	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	28478429	97024901	146174472	17	16186											
FASTKD2	22868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207639092	207639092	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatacttactcttctctCaatcatgtctacaaatgcca	11	15	2	13	0	6	0	3	0	3	0	7	0	6	0	1	0	4	0	1	0	5	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	207639092	C	A	207639092	2	1	325	1	0	0	0	0	0	0	0	1	5686	813	29	4		4	FASTKD2	2	207639092	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	110614191	207639092	35560281	18	16187											
SLC16A14	151473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	230910577	230910577	+	Frame_Shift_Del	DEL	A	A	-																															tcactacgggcattagggagAaataaccactggaaaaccct																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	230910577	A	-	230910577	7	5	325	1	0	1	0	1	0	0	0	0	14409	246	9	0	275	0	SLC16A14	2	230910577	Frame_Shift_Del	DEL	A	TCGA-BP-5168-01A-01D-1421-08	23271485	230910577	12288796	19	16188											
ASB1	51665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	239353054	239353054	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgattctcccggcggctcaCctccttggtggtctgcccct	2	12	10	17	3	3	0	1	0	2	0	6	1	4	0	5	4	1	1	5	4	0	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	239353054	C	T	239353054	3	4	325	1	0	0	0	0	1	0	0	0	1013	507	18	2	580	2	ASB1	2	239353054	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	8442477	239353054	3846319	20	16189											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52623262	52623262	+	Frame_Shift_Del	DEL	T	T	-																															caccagaggaatcttcactcTtttcagcttcttaggtaaaa																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	52623262	T	-	52623262	7	5	325	1	0	1	0	1	0	0	0	0	11491	1609	56	0	2163	0	PBRM1	3	52623262	Frame_Shift_Del	DEL	T	TCGA-BP-5168-01A-01D-1421-08		52623262	145399168	21	16190	213	2									
PBRM1	55193	hgsc.bcm.edu	37	chr3	52623267	52623267	+	Silent	SNP	A	A	G																															gaggaatcttcactcttttcAgcttcttaggtaaaaaaata																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	52623267	A	G	52623267	2	3	325	1	0	0	0	0	0	0	0	1	11491	175	7	3		3	PBRM1	3	52623267	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08	5	52623267	145399163	22	16191	213	2									
CADM2	253559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	85851226	85851226	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtttccactaacacagAatgtaaccgttgttgaaggt	12	11	10	8	1	0	2	0	1	0	1	1	2	1	2	2	2	2	5	2	2	4	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	85851226	A	G	85851226	3	3	325	1	0	0	0	0	1	0	0	0	2567	246	9	3	168	3	CADM2	3	85851226	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	33227959	85851226	112171204	23	16192											
PVRL3	25945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	110837735	110837735	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctagaggaaggcgaattacTtgtgttgtaaaacatccagc	13	10	11	7	1	0	1	0	0	0	1	1	3	1	2	1	2	3	3	1	2	6	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	110837735	T	A	110837735	2	1	325	1	0	0	0	0	0	0	0	1	12843	1596	56	5		5	PVRL3	3	110837735	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	24986509	110837735	87184695	24	16193											
GRAMD1C	54762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113627861	113627861	+	Frame_Shift_Del	DEL	A	A	-																															accaaaaagagtctcttaccAactttggaaaagaagttaac																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	113627861	A	-	113627861	7	5	325	1	0	1	0	1	0	0	0	0	6749	117	5	0	880	0	GRAMD1C	3	113627861	Frame_Shift_Del	DEL	A	TCGA-BP-5168-01A-01D-1421-08	2790126	113627861	84394569	25	16194											
DRD3	1814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113858392	113858392	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgcactgactgttctgTcgagtgaggatccttttccg	5	15	11	10	2	1	2	0	2	1	0	4	4	3	3	2	1	1	3	2	1	0	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	113858392	T	A	113858392	2	1	325	1	0	0	0	0	0	0	0	1	4758	1654	58	5		5	DRD3	3	113858392	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	230531	113858392	84164038	26	16195											
LRRIQ4	344657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	169555371	169555371	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctctccaaaagataagaaAggaaagaaggatgtaaaagg	21	5	10	5	0	1	3	0	0	1	3	2	5	1	5	2	3	0	1	2	3	8	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	169555371	A	G	169555371	2	3	325	1	0	0	0	0	0	0	0	1	9031	69	3	3		3	LRRIQ4	3	169555371	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08	55696979	169555371	28467059	27	16196											
WDR19	57728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39206807	39206807	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcaagaaaactttgtttTttttaaatctgaatgaacca	14	16	6	5	0	1	3	0	2	1	1	1	3	1	3	1	1	2	2	1	1	7	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	39206807	T	A	39206807	3	1	325	1	0	0	0	0	1	0	0	0	17278	1841	64	5	667	5	WDR19	4	39206807	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08		39206807	151947469	28	16197											
TMPRSS11D	9407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68692994	68692994	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaccagcatattcttgagCgccccatcctgttacataag	10	12	6	13	1	1	1	0	1	1	0	2	1	2	1	4	0	4	2	4	0	4	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	68692994	C	T	68692994	3	4	325	1	0	0	0	0	1	0	0	0	16240	768	27	1	331	1	TMPRSS11D	4	68692994	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	29486187	68692994	122461282	29	16198											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87679432	87679432	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatgtgctacacaaaagatgGagcatagtatcttcaccaga	15	9	9	8	0	2	2	1	0	1	2	2	4	2	3	1	1	3	3	1	1	5	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	87679432	G	A	87679432	4	1	325	1	0	0	0	0	0	1	0	0	12784	1183	41	2	3321	2	PTPN13	4	87679432	Nonsense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	18986438	87679432	103474844	30	16199											
NPNT	255743	broad.mit.edu;ucsc.edu	37	chr4	106861265	106861265	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctacaggaagagcctcctGccctagatttaggcaatgtg	10	10	11	10	0	0	2	0	0	0	2	1	3	1	3	3	2	4	2	3	2	5	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	106861265	T	T	106861265	3	4	325	1	0	0	0	0	1	0	0	0	10590	1319	46	4	710	4	NPNT	4	106861265	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	19181833	106861265	84293011	31	16200											
OTUD4	54726	hgsc.bcm.edu	37	chr4	146076739	146076739	+	Frame_Shift_Del	DEL	A	A	-																															accttgtttagacttcagccAaatttcatattccacatttc																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	146076739	A	-	146076739	7	5	325	1	0	1	0	1	0	0	0	0	11314	130	5	0	2606	0	OTUD4	4	146076739	Frame_Shift_Del	DEL	A	TCGA-BP-5168-01A-01D-1421-08	39215474	146076739	45077537	32	16201											
MFAP3L	9848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	170913100	170913100	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttttgaactgggtgactttgGcaagctctagagttttggcg	7	15	13	6	1	1	3	0	2	1	1	1	3	1	3	0	3	2	3	0	3	3	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	170913100	G	T	170913100	3	4	325	1	0	0	0	0	1	0	0	0	9516	1203	42	4	574	4	MFAP3L	4	170913100	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	24836361	170913100	20241176	33	16202											
FYB	2533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	39202847	39202847	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgggttccttgtcaggcttTtcctcagaagaaggtttgac	7	15	11	8	0	2	3	2	1	0	2	4	3	4	3	2	3	0	3	2	3	2	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	39202847	T	C	39202847	2	2	325	1	0	0	0	0	0	0	0	1	6124	1838	64	3		3	FYB	5	39202847	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08		39202847	141712413	34	16203											
SKIV2L2	23517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54701366	54701366	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggttgggatttgctacTtcttctgatgtaatagagat	11	15	11	4	0	2	3	0	1	2	2	2	5	2	4	0	2	2	3	0	2	4	7	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	54701366	T	A	54701366	2	1	325	1	0	0	0	0	0	0	0	1	14362	1596	56	5		5	SKIV2L2	5	54701366	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	15498519	54701366	126213894	35	16204											
TTC37	9652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	94860289	94860289	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtatctttctcaagagctctCtgaaaactaagccaccaaag	14	10	6	11	0	3	2	1	1	3	1	5	2	3	2	2	0	3	2	2	0	6	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	94860289	C	G	94860289	3	3	325	1	0	0	0	0	1	0	0	0	16704	912	32	4	3474	4	TTC37	5	94860289	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	40158923	94860289	86054971	36	16205											
PCDHB13	56123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140596070	140596070	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattctaccttccccaataActttgggttcaatattcagt	12	15	4	10	0	3	0	2	0	1	0	4	0	4	0	3	1	2	1	3	1	6	8	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	140596070	A	G	140596070	3	3	325	1	0	0	0	0	1	0	0	0	11538	43	2	3	2377	3	PCDHB13	5	140596070	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	45735781	140596070	40319190	37	16206											
LARP1	23367	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154191178	154191185	+	Frame_Shift_Del	DEL	GTCTTGAA	GTCTTGAA	-																															atacctcggcaaattccgacGtcttgaagacttccgagtag																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	GTCTTGAA	GTCTTGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	154191185	GTCTTGAA	-	154191178	7	5	325	1	0	1	0	1	0	0	0	0	8628	1145	40	0	2898	0	LARP1	5	154191178	Frame_Shift_Del	DEL	GTCTTGAA	TCGA-BP-5168-01A-01D-1421-08	13595108	154191178	26724082	38	16207											
MAML1	9794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179193308	179193308	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtccacatggcagcagAcggggccctcccacagttcc	9	6	11	15	1	0	2	0	0	0	2	3	2	3	2	4	3	1	3	4	3	0	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	179193308	A	T	179193308	3	4	325	1	0	0	0	0	1	0	0	0	9205	275	10	5	1303	5	MAML1	5	179193308	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	25002130	179193308	1721952	39	16208											
BMP6	654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7727745	7727745	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccgctcaaccgcaagaGccttctggcccccggatctg	7	6	10	18	3	3	1	1	0	2	1	3	2	3	2	5	2	2	3	5	2	2	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	7727745	G	T	7727745	3	4	325	1	0	0	0	0	1	0	0	0	1464	971	34	4	559	4	BMP6	6	7727745	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		7727745	163387322	40	16209											
PPP1R10	5514	broad.mit.edu;hgsc.bcm.edu	37	chr6	30569885	30569885	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgtgtccagggccttcatgGggacgatgtccaccacttcc	6	9	11	15	2	1	0	1	0	0	0	4	2	4	1	6	3	0	0	6	3	0	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	30569885	G	A	30569885	2	1	325	1	0	0	0	0	0	0	0	1	12354	1219	43	2		2	PPP1R10	6	30569885	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	22842140	30569885	140545182	41	16210											
C6orf58	352999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	127901450	127901450	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattaccctttcttgctgcGgttgattctggtgtaatggg	5	17	11	8	1	3	1	1	1	2	0	3	1	3	1	1	3	3	3	1	3	2	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	127901450	G	A	127901450	2	1	325	1	0	0	0	0	0	0	0	1	2367	1103	39	1		1	C6orf58	6	127901450	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	97331565	127901450	43213617	42	16211											
VNN2	8875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	133065439	133065439	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtgataaagagacgccCtataacattacaatattttg	15	12	7	7	1	0	3	0	2	0	1	0	4	0	3	1	0	2	0	1	0	7	7	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	133065439	C	T	133065439	2	4	325	1	0	0	0	0	0	0	0	1	17182	692	24	2		2	VNN2	6	133065439	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	5163989	133065439	38049628	43	16212											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152757208	152757208	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggttctcagcctggactGcaatactttctgtccgttta	8	14	8	11	1	2	0	1	0	2	0	4	1	3	1	2	2	3	3	2	2	4	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	152757208	G	A	152757208	3	1	325	1	0	0	0	0	1	0	0	0	15444	1319	46	2	22744	2	SYNE1	6	152757208	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	19691769	152757208	18357859	44	16213											
RBAK	57786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5104366	5104366	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaacacacacgggagagAagccctatcagtgtagcgag	15	4	13	9	2	1	2	1	0	0	2	1	6	1	3	1	1	3	1	1	1	4	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	5104366	A	G	5104366	3	3	325	1	0	0	0	0	1	0	0	0	13102	247	9	3	1293	3	RBAK	7	5104366	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08		5104366	154034297	45	16214											
DFNA5	1687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	24738852	24738852	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgggtcttcaagatcagaTactccatcatcagacagagc	12	10	9	10	0	5	4	4	0	1	4	6	4	6	4	1	1	2	1	1	1	2	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	24738852	T	C	24738852	2	2	325	1	0	0	0	0	0	0	0	1	4454	1393	49	3		3	DFNA5	7	24738852	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	19634486	24738852	134399811	46	16215											
MLXIPL	51085	broad.mit.edu	37	chr7	73011708	73011708	+	Frame_Shift_Del	DEL	G	-	-																															ggtagaagctctatggggaaGggggtgggggctgggctggg																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	73011708	-	-	73011708	7	5	325	1	0	1	0	1	0	0	0	0	9637	987	35	0	1187	0	MLXIPL	7	73011708	Frame_Shift_Del	DEL	G	TCGA-BP-5168-01A-01D-1421-08	48272856	73011708	86126955	47	16216											
PEX1	5189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92132412	92132414	+	In_Frame_Del	DEL	AAC	AAC	-																															atgtgaactccttgagcagaAacaagtaaaggatgtagaga																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	92132414	AAC	-	92132412	7	5	325	1	0	1	0	1	0	0	0	0	11735	1	1	0	1730	0	PEX1	7	92132412	In_Frame_Del	DEL	AAC	TCGA-BP-5168-01A-01D-1421-08	19120704	92132412	67006251	48	16217											
THAP5	168451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	108205177	108205177	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtttccaaagattgatGaatactttctgaatttgaag	13	16	8	4	0	1	6	0	5	1	1	2	6	2	6	1	0	1	1	1	0	5	6	rs192004311	by1000genomes;alternate_allele	TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	108205177	G	T	108205177	3	4	325	1	0	0	0	0	1	0	0	0	15846	1290	45	4	545	4	THAP5	7	108205177	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	16072765	108205177	50933486	49	16218											
CAPZA2	830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116538867	116538867	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccagtttactccagtaaAaattgaaggttatgaagatc	15	11	9	6	0	0	3	0	2	0	1	2	4	1	4	2	2	1	3	2	2	7	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	116538867	A	G	116538867	3	3	325	1	0	0	0	0	1	0	0	0	2641	14	1	3	211	3	CAPZA2	7	116538867	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	8333690	116538867	42599796	50	16219											
PTPRN2	5799	broad.mit.edu;hgsc.bcm.edu	37	chr7	157985188	157985188	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgctgtgttttgagggcCtgaaaaagcaaaagaaacca	16	7	10	8	1	0	3	0	2	0	1	0	3	0	3	2	1	3	3	2	1	6	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	157985188	C	T	157985188	5	4	325	1	0	0	0	0	0	0	1	0	12810	695	24	2	2743	2	PTPRN2	7	157985188	Splice_Site	SNP	C	TCGA-BP-5168-01A-01D-1421-08	41446321	157985188	1153475	51	16220											
CSMD1	64478	hgsc.bcm.edu;ucsc.edu	37	chr8	3141831	3141831	+	Frame_Shift_Del	DEL	C	C	-																															gtcccagaccttgaggatgtCgtgagccatctccgtgtcga																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	3141831	C	-	3141831	7	5	325	1	0	1	0	1	0	0	0	0	3944	884	31	0	6886	0	CSMD1	8	3141831	Frame_Shift_Del	DEL	C	TCGA-BP-5168-01A-01D-1421-08		3141831	143222191	52	16221											
PLAT	5327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	42036456	42036456	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgcctggggcccgccgctccGagtgtctccagcacacagca	6	6	12	17	3	1	0	0	0	1	0	3	1	2	0	5	2	3	3	5	2	0	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	42036456	G	C	42036456	3	2	325	1	0	0	0	0	1	0	0	0	12021	1057	37	4	207	4	PLAT	8	42036456	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	38894625	42036456	104327566	53	16222											
NCOA2	10499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	71050557	71050557	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccccatgttcatctctaaTtcagatggccctagaaaggg	10	10	8	13	0	3	2	2	0	1	2	4	2	3	2	4	2	0	1	4	2	3	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	71050557	T	C	71050557	2	2	325	1	0	0	0	0	0	0	0	1	10229	1490	52	3		3	NCOA2	8	71050557	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	29014101	71050557	75313465	54	16223											
OTUD6B	51633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	92083453	92083453	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgtggccaagttggaaaAagaaatggaacagaaacata	20	6	11	4	0	0	3	0	0	0	3	0	5	0	5	1	3	2	1	1	3	7	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	92083453	A	C	92083453	3	2	325	1	0	0	0	0	1	0	0	0	11317	14	1	5	266	5	OTUD6B	8	92083453	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	21032896	92083453	54280569	55	16224											
TMEM67	91147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	94821184	94821184	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attcatgagacactaataagGgtttgtataaagtacagttc	15	13	8	5	0	1	1	1	1	0	1	2	2	1	1	0	1	1	4	0	1	6	8	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	94821184	G	A	94821184	2	1	325	1	0	0	0	0	0	0	0	1	16195	1246	43	2		2	TMEM67	8	94821184	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	2737731	94821184	51542838	56	16225											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu	37	chr8	113421242	113421242	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagtgatgtctggaaaaaTacaaactggccaaacaccac	16	7	9	9	0	1	1	0	1	1	0	1	3	1	3	2	3	3	0	2	3	5	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	113421242	T	C	113421242	2	2	325	1	0	0	0	0	0	0	0	1	3946	1393	49	3		3	CSMD3	8	113421242	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	18600058	113421242	32942780	57	16226											
COLEC10	10584	broad.mit.edu;hgsc.bcm.edu	37	chr8	120101991	120101991	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggacgcatggggccgaaagGtaactaaaatgatgtgaaac	15	6	14	6	2	0	2	0	2	0	0	0	4	0	3	1	4	2	2	1	4	5	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	120101991	G	A	120101991	5	1	325	1	0	0	0	0	0	0	1	0	3710	1275	44	2	227	2	COLEC10	8	120101991	Splice_Site	SNP	G	TCGA-BP-5168-01A-01D-1421-08	6680749	120101991	26262031	58	16227											
FLJ43860	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	142445230	142445230	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatcccaggcctctcaccagGcaggtccagaggaagtggcg	9	5	14	13	1	1	1	1	0	1	1	4	3	3	2	4	5	0	1	4	5	1	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	142445230	G	C	142445230	3	2	325	1	0	0	0	0	1	0	0	0	5930	1195	42	4	297	4	FLJ43860	8	142445230	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	22343239	142445230	3918792	59	16228											
TOP1MT	116447	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144411529	144411529	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtacctacctttcgccaGtcattgaagaagttcttccg	9	12	9	11	2	2	2	1	1	1	1	4	2	3	2	4	1	2	2	4	1	4	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	144411529	G	A	144411529	2	1	325	1	0	0	0	0	0	0	0	1	16363	1020	36	2		2	TOP1MT	8	144411529	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	1966299	144411529	1952493	60	16229											
SCRIB	23513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144874929	144874929	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcacccaccagggacacgcGcttaggggggccctcggcct	7	4	14	16	3	0	0	0	0	0	0	1	1	0	1	4	5	1	2	4	5	1	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	144874929	G	A	144874929	3	1	325	1	0	0	0	0	1	0	0	0	13939	1087	38	1	873	1	SCRIB	8	144874929	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	463400	144874929	1489093	61	16230											
ACO1	48	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32425989	32425989	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaatccgtctgtgatgttaGgggcaggtaagtgcatttga	9	13	14	5	1	1	2	0	2	1	0	2	2	2	2	1	3	1	5	1	3	3	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	32425989	G	C	32425989	3	2	325	1	0	0	0	0	1	0	0	0	146	1000	35	4	1380	4	ACO1	9	32425989	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		32425989	108787442	62	16231											
C9orf84	158401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114518734	114518734	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggaggtattaagaattCatactcaataagaaaacttg	16	12	8	5	0	2	2	2	0	0	2	2	3	2	3	0	2	2	2	0	2	8	7	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	114518734	C	A	114518734	4	1	325	1	0	0	0	0	0	1	0	0	2500	835	29	4	3877	4	C9orf84	9	114518734	Nonsense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	82092745	114518734	26694697	63	16232											
POLE3	54107	broad.mit.edu;hgsc.bcm.edu	37	chr9	116171064	116171064	+	RNA	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcatttcaagtggtaccttCcaaggtgccacagtctcccg	8	11	8	14	1	3	0	2	0	1	0	5	0	4	0	4	2	2	1	4	2	3	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	116171064	C	T	116171064	1	4	325	0	1	0	0	0	0	0	0	0	12198	870	30	2		2	POLE3	9	116171064	RNA	SNP	C	TCGA-BP-5168-01A-01D-1421-08	1652330	116171064	25042367	64	16233											
OR1B1	347169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125391234	125391234	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagaatgtatgtcagaacaaGaggctcgcagaagtggccgg	13	7	14	7	2	1	4	1	0	0	4	2	4	1	4	1	3	1	3	1	3	6	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	125391234	G	A	125391234	3	1	325	1	0	0	0	0	1	0	0	0	10951	942	33	2	378	2	OR1B1	9	125391234	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	9220170	125391234	15822197	65	16234											
FPGS	2356	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130575544	130575544	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacaccagcagcactggaaCcacctggacgaagagcaggc	14	2	12	13	1	0	1	0	0	0	1	0	5	0	3	3	3	5	3	3	3	3	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	130575544	C	G	130575544	3	3	325	1	0	0	0	0	1	0	0	0	6036	506	18	4	1483	4	FPGS	9	130575544	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	5184310	130575544	10637887	66	16235											
LAMC3	10319	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133914405	133914405	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttctatcactgggacccgcgGatgccatgccagccctgtga	7	9	11	14	2	2	1	1	1	1	0	2	3	2	3	4	2	3	0	4	2	1	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	133914405	G	A	133914405	2	1	325	1	0	0	0	0	0	0	0	1	8616	1161	41	2		2	LAMC3	9	133914405	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	3338861	133914405	7299026	67	16236											
ADAMTS13	11093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136290722	136290722	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagatggtcattctgaCagagcctgaggtaggcatgg	10	9	16	6	0	2	5	1	3	1	2	2	5	2	5	1	5	1	2	1	5	2	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	136290722	C	T	136290722	3	4	325	1	0	0	0	0	1	0	0	0	258	478	17	2	418	2	ADAMTS13	9	136290722	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	2376317	136290722	4922709	68	16237											
IDI2	91734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	1066837	1066837	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacaggagtcggtaaaatacCctggaaaaaatgcatgtggg	15	8	12	6	1	0	0	0	0	0	0	1	2	0	2	1	4	3	2	1	4	7	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	1066837	C	G	1066837	3	3	325	1	0	0	0	0	1	0	0	0	7500	637	22	4	455	4	IDI2	10	1066837	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08		1066837	134467910	69	16238											
TACR2	6865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	71166878	71166878	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagatgatgggattgtacatGgtagagctcatggccaacca	12	10	12	7	0	1	3	1	1	0	2	1	4	1	4	2	3	3	3	2	3	4	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	71166878	G	A	71166878	2	1	325	1	0	0	0	0	0	0	0	1	15505	1335	47	2		2	TACR2	10	71166878	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	70100041	71166878	64367869	70	16239											
IDE	3416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	94297189	94297189	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgataagaagtactttgaTaccattggccagctctagcc	12	11	8	10	0	1	3	0	2	1	1	1	3	1	3	3	1	4	2	3	1	5	6	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	94297189	T	A	94297189	3	1	325	1	0	0	0	0	1	0	0	0	7493	1406	49	5	2938	5	IDE	10	94297189	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08	23130311	94297189	41237558	71	16240											
ZDHHC16	84287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99213291	99213291	+	Missense_Mutation	SNP	G	G	T																															atcatttcccaaccagcctgGctaaacaattgtgtgggcca																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	99213291	G	T	99213291	3	4	325	1	0	0	0	0	1	0	0	0	17605	1212	42	4	579	4	ZDHHC16	10	99213291	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	4916102	99213291	36321456	72	16241	214	2									
ZDHHC16	84287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99213292	99213292	+	Missense_Mutation	SNP	C	C	A																															tcatttcccaaccagcctggCtaaacaattgtgtgggccac																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	99213292	C	A	99213292	3	1	325	1	0	0	0	0	1	0	0	0	17605	796	28	4	580	4	ZDHHC16	10	99213292	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	1	99213292	36321455	73	16242	214	2									
HPS6	79803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103827518	103827518	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catatgaggacatcctatggGaccccagcactccacccccg	10	6	8	17	1	0	1	0	1	0	0	2	3	2	3	6	2	1	1	6	2	2	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	103827518	G	T	103827518	3	4	325	1	0	0	0	0	1	0	0	0	7343	1174	41	4	2289	4	HPS6	10	103827518	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	4614226	103827518	31707229	74	16243											
EPS8L2	64787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	710481	710481	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagacctcgcagtaccacGtccaggtaaggccccgcccc	9	4	10	18	4	0	1	0	0	0	1	2	2	1	1	7	2	1	3	7	2	2	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	710481	G	C	710481	3	2	325	1	0	0	0	0	1	0	0	0	5196	1145	40	4	170	4	EPS8L2	11	710481	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		710481	134296035	75	16244											
MUC6	4588	broad.mit.edu;hgsc.bcm.edu	37	chr11	1017614	1017614	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattggctggtcccactggtGgtcactgtcattggtggggt	4	13	16	8	0	2	0	2	0	0	0	3	1	3	0	1	7	0	1	1	7	0	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	1017614	G	A	1017614	2	1	325	1	0	0	0	0	0	0	0	1	9980	1335	47	2		2	MUC6	11	1017614	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	307133	1017614	133988902	76	16245											
OR51A2	401667	broad.mit.edu;hgsc.bcm.edu	37	chr11	4976107	4976107	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtacaagtaggagaacAtttgccatgagaacattaat	16	9	11	5	0	0	2	0	1	0	2	0	5	0	3	1	3	4	2	1	3	6	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	4976107	A	C	4976107	3	2	325	1	0	0	0	0	1	0	0	0	11086	214	8	5	106	5	OR51A2	11	4976107	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	3958493	4976107	130030409	77	16246											
TMEM179B	374395	broad.mit.edu;ucsc.edu	37	chr11	62557433	62557433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtggaagtctgaagccAccccataccggcctctggag	9	7	12	13	1	2	1	0	1	2	0	2	3	2	3	5	3	3	1	5	3	3	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	62557433	G	G	62557433	3	3	325	1	0	0	0	0	1	0	0	0	16096	159	6	3	592	3	TMEM179B	11	62557433	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	57581326	62557433	72449083	78	16247											
B3GNT6	192134	broad.mit.edu;hgsc.bcm.edu	37	chr11	76751055	76751055	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggcggccagtgcgccgcCtctttctattgggcaccccg	3	8	14	16	5	2	0	0	0	2	0	2	0	2	0	5	3	1	1	5	3	1	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	76751055	C	T	76751055	3	4	325	1	0	0	0	0	1	0	0	0	1261	681	24	2	462	2	B3GNT6	11	76751055	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	14193622	76751055	58255461	79	16248											
MLL	4297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118352713	118352713	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagcactggtcatcccGcctcagccacctactacagg	9	6	8	18	1	2	0	2	0	0	0	3	0	3	0	5	2	5	1	5	2	2	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	118352713	G	A	118352713	2	1	325	1	0	0	0	0	0	0	0	1	9620	1074	38	1		1	MLL	11	118352713	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	41601658	118352713	16653803	80	16249											
OR8G2	26492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124095984	124095984	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttgtgatctcttccCtctcttggggctctcctgct	2	20	7	12	0	3	1	0	1	3	0	7	1	4	1	2	2	1	2	2	2	1	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	124095984	C	T	124095984	3	4	325	1	0	0	0	0	1	0	0	0	11235	681	24	2	589	2	OR8G2	11	124095984	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	5743271	124095984	10910532	81	16250											
LPCAT3	10162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7086391	7086391	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatagtaggctcaggaagaAgatgtggccaaggaaataga	17	6	14	4	0	1	3	1	0	0	3	1	6	1	5	1	4	0	2	1	4	8	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	7086391	A	T	7086391	3	4	325	1	0	0	0	0	1	0	0	0	8912	72	3	5	86	5	LPCAT3	12	7086391	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08		7086391	126765504	82	16251											
CLEC12A	160364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10132016	10132016	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccagagaaatatttctcTacaactgatgagtaacatga	15	11	7	8	0	1	4	0	3	1	1	3	5	2	4	1	0	3	2	1	0	5	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	10132016	T	C	10132016	3	2	325	1	0	0	0	0	1	0	0	0	3497	1522	53	3	282	3	CLEC12A	12	10132016	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08	3045625	10132016	123719879	83	16252											
CLEC12A	160364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10132045	10132045	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtaacatgaatatctccAacaagatcaggaacctctcc	15	9	6	11	0	3	3	1	2	2	1	5	4	3	4	3	1	3	1	3	1	6	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	10132045	A	T	10132045	3	4	325	1	0	0	0	0	1	0	0	0	3497	130	5	5	311	5	CLEC12A	12	10132045	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	29	10132045	123719850	84	16253											
ATF7IP	55729	hgsc.bcm.edu;ucsc.edu	37	chr12	14650805	14650805	+	Frame_Shift_Del	DEL	A	A	-																															tctctatgcttaccatgaggAacccagtgccactgtgccct																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	14650805	A	-	14650805	7	5	325	1	0	1	0	1	0	0	0	0	1087	246	9	0	3665	0	ATF7IP	12	14650805	Frame_Shift_Del	DEL	A	TCGA-BP-5168-01A-01D-1421-08	4518760	14650805	119201090	85	16254											
H3F3C	440093	broad.mit.edu;hgsc.bcm.edu	37	chr12	31944927	31944927	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttccggatgagcagctcGgtcgacttctgataacgacg	9	9	12	11	5	1	2	0	2	1	0	4	5	2	3	1	2	4	3	1	2	1	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	31944927	G	A	31944927	2	1	325	1	0	0	0	0	0	0	0	1	6935	1103	39	1		1	H3F3C	12	31944927	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	17294122	31944927	101906968	86	16255											
LMBR1L	55716	broad.mit.edu	37	chr12	49496928	49496928	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagtagaggtaggggagatAgtactcccaaaagtctaagg	14	8	14	5	0	1	3	0	1	1	2	2	4	2	3	1	4	1	3	1	4	7	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	49496928	G	G	49496928	3	3	325	1	0	0	0	0	1	0	0	0	8841	420	15	3	936	3	LMBR1L	12	49496928	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	17552001	49496928	84354967	87	16256											
SUOX	6821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56396036	56396036	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacagagctgtggtcctcAggctccaacaggcctgcagg	8	7	13	13	0	1	1	1	0	0	1	3	1	3	1	3	4	4	4	3	4	1	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	56396036	A	G	56396036	3	3	325	1	0	0	0	0	1	0	0	0	15394	179	7	3	33	3	SUOX	12	56396036	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	6899108	56396036	77455859	88	16257											
TRHDE	29953	broad.mit.edu;ucsc.edu	37	chr12	72956769	72956769	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataattacccaacagcattTtatctatgatatcagtgcta	15	14	4	8	0	2	1	1	1	1	0	2	1	2	1	1	0	4	2	1	0	8	7	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	72956769	A	A	72956769	3	1	325	1	0	0	0	0	1	0	0	0	16478	1841	64	5	1890	5	TRHDE	12	72956769	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08	16560733	72956769	60895126	89	16258											
MYBPC1	4604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	102067221	102067221	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagggaaaaccaagaccagAattaacttggaagaaggatg	18	7	11	5	0	0	3	0	0	0	3	0	6	0	6	2	3	2	0	2	3	8	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	102067221	A	T	102067221	3	4	325	1	0	0	0	0	1	0	0	0	10011	246	9	5	2786	5	MYBPC1	12	102067221	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	29110452	102067221	31784674	90	16259											
ACAD10	80724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112167663	112167663	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagcagtatcgagcttccGaaactagcaccatcccagcc	12	8	7	14	2	0	0	0	0	0	0	3	2	2	0	4	0	5	4	4	0	4	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	112167663	G	T	112167663	4	4	325	1	0	0	0	0	0	1	0	0	108	1059	37	4	1428	4	ACAD10	12	112167663	Nonsense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	10100442	112167663	21684232	91	16260											
RPH3A	22895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113285641	113285641	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagagatggagcaggagcGaatcgggtgaggcttaacgc	12	5	18	6	3	0	2	0	1	0	1	1	7	0	5	0	5	3	2	0	5	3	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	113285641	G	A	113285641	3	1	325	1	0	0	0	0	1	0	0	0	13553	1058	37	1	234	1	RPH3A	12	113285641	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	1117978	113285641	20566254	92	16261											
CLIP1	6249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122826194	122826194	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttcctgtactctcaatgcTaggtctttctccagttccat	7	16	5	13	0	3	0	1	0	3	0	7	0	5	0	3	1	2	3	3	1	3	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	122826194	T	G	122826194	2	3	325	1	0	0	0	0	0	0	0	1	3532	1509	53	5		5	CLIP1	12	122826194	Silent	SNP	T	TCGA-BP-5168-01A-01D-1421-08	9540553	122826194	11025701	93	16262											
FAM101A	144347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124798830	124798830	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcacggcctacagcgagaCcatcgtggcagcacccaact	10	5	10	16	4	1	1	1	0	0	1	2	2	1	1	3	2	4	2	3	2	2	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	124798830	C	T	124798830	3	4	325	1	0	0	0	0	1	0	0	0	5380	507	18	2	173	2	FAM101A	12	124798830	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	1972636	124798830	9053065	94	16263											
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	23909182	23909182	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatgaataggggtgttctGtaacactgataatgttggat	13	13	11	4	0	1	2	0	2	1	0	1	3	1	3	0	3	2	3	0	3	5	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	23909182	G	T	23909182	3	4	325	1	0	0	0	0	1	0	0	0	13806	1386	48	4	4910	4	SACS	13	23909182	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		23909182	91260696	95	16264											
COL4A1	1282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	110835582	110835582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtccttctgctccaggggGgcctggtaaaggaacaattt	9	10	12	10	0	1	0	0	0	1	0	3	1	3	1	3	5	2	2	3	5	4	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	110835582	G	A	110835582	3	1	325	1	0	0	0	0	1	0	0	0	3689	1232	43	2	3174	2	COL4A1	13	110835582	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	86926400	110835582	4334296	96	16265											
TUBGCP3	10426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	113242269	113242269	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttctgcagcagaacgttcGgcgacttctggtccggggtc	5	10	15	11	4	2	1	0	0	2	1	5	2	3	1	1	5	3	4	1	5	1	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	113242269	G	A	113242269	3	1	325	1	0	0	0	0	1	0	0	0	16766	1116	39	1	2785	1	TUBGCP3	13	113242269	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	2406687	113242269	1927609	97	16266											
RAB2B	84932	broad.mit.edu;hgsc.bcm.edu	37	chr14	21944786	21944786	+	RNA	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaaagcacactcccggaatCacgcagccctggaacacctt	13	5	8	15	2	1	1	1	0	0	1	2	3	2	3	3	2	3	2	3	2	3	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	21944786	C	T	21944786	1	4	325	0	1	0	0	0	0	0	0	0	12920	841	29	2		2	RAB2B	14	21944786	RNA	SNP	C	TCGA-BP-5168-01A-01D-1421-08		21944786	85404754	98	16267											
DHRS4L2	317749	broad.mit.edu;hgsc.bcm.edu	37	chr14	24459472	24459472	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggaagcagcagaatgtggaCcaggcggtggccacgctgca	10	4	16	11	3	0	1	0	0	0	1	0	3	0	3	2	5	3	4	2	5	2	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	24459472	C	T	24459472	2	4	325	1	0	0	0	0	0	0	0	1	4494	506	18	2		2	DHRS4L2	14	24459472	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	2514686	24459472	82890068	99	16268											
RABGGTA	5875	hgsc.bcm.edu;ucsc.edu	37	chr14	24740082	24740084	+	In_Frame_Del	DEL	CAG	CAG	-																															gtggctgactggtatagcttCagcttctgctctcgctctag																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	24740084	CAG	-	24740082	7	5	325	1	0	1	0	1	0	0	0	0	12969	813	29	0	1688	0	RABGGTA	14	24740082	In_Frame_Del	DEL	CAG	TCGA-BP-5168-01A-01D-1421-08	280610	24740082	82609458	100	16269											
NID2	22795	broad.mit.edu;hgsc.bcm.edu	37	chr14	52534720	52534720	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggccaggcccagcactgcGggggaggtgtcctctcggta	5	6	17	13	3	1	0	0	0	1	0	3	1	2	1	3	6	2	2	3	6	1	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	52534720	G	C	52534720	2	2	325	1	0	0	0	0	0	0	0	1	10415	1103	39	4		4	NID2	14	52534720	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	27794638	52534720	54814820	101	16270											
PACS2	23241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105843253	105843253	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctcagcacccccaagcCgaagctgcggtgagccctac	8	5	10	18	3	1	1	1	1	0	0	2	2	2	1	5	1	6	2	5	1	3	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	105843253	C	G	105843253	3	3	325	1	0	0	0	0	1	0	0	0	11373	652	23	4	984	4	PACS2	14	105843253	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	53308533	105843253	1506287	102	16271											
CCNDBP1	23582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43482264	43482264	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccacagggatcaccctgAgaaagctggtacggggcgcc	9	5	15	12	2	1	1	1	1	0	1	1	3	1	2	3	5	2	2	3	5	2	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	43482264	A	C	43482264	2	2	325	1	0	0	0	0	0	0	0	1	2919	296	11	5		5	CCNDBP1	15	43482264	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08		43482264	59049128	103	16272											
MYO5C	55930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52521378	52521378	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgccttcaagccatcagaAgtgacgtgctccccctccac	8	8	7	18	2	2	2	2	1	0	1	5	2	5	2	6	0	2	1	6	0	2	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	52521378	A	T	52521378	2	4	325	1	0	0	0	0	0	0	0	1	10080	59	3	5		5	MYO5C	15	52521378	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08	9039114	52521378	50010014	104	16273											
LACTB	114294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63419762	63419762	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaatgaagccaaatgcCggaattcaaaacctggcaag	17	5	11	8	1	1	2	1	1	0	1	1	4	1	3	3	3	3	1	3	3	7	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	63419762	C	A	63419762	2	1	325	1	0	0	0	0	0	0	0	1	8597	643	23	4		4	LACTB	15	63419762	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	10898384	63419762	39111630	105	16274											
ABCC1	4363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	16149977	16149977	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgaagagcaaagacaatcGgatcaagctgatgaacgaaa	19	5	10	7	2	1	5	1	3	0	2	2	7	1	6	0	1	3	2	0	1	6	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	16149977	G	A	16149977	3	1	325	1	0	0	0	0	1	0	0	0	49	1116	39	1	1548	1	ABCC1	16	16149977	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		16149977	74204776	106	16275											
GTF3C1	2975	hgsc.bcm.edu;ucsc.edu	37	chr16	27500985	27500986	+	Frame_Shift_Ins	INS	-	-	T																															tgtccatggcgctctcctgcINStccttctgcaggctgccctc																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	27500986	-	T	27500985	7	5	325	1	0	1	1	0	0	0	0	0	6872	796	28	0	3170	0	GTF3C1	16	27500985	Frame_Shift_Ins	INS	-	TCGA-BP-5168-01A-01D-1421-08	11351008	27500985	62853768	107	16276											
EDC4	23644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67912713	67912713	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttggacctctcagcagaaTacctgattctcagcgatgtg	9	11	10	11	1	2	2	2	1	2	1	4	4	2	3	2	1	3	2	2	1	2	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	67912713	T	C	67912713	3	2	325	1	0	0	0	0	1	0	0	0	4908	1406	49	3	1300	3	EDC4	16	67912713	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08	40411728	67912713	22442040	108	16277											
WDR81	124997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1634217	1634217	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgtcctcacctaccagtAcctgccctacatcagctacc	8	9	5	19	0	2	0	2	0	0	0	3	0	3	0	7	0	6	2	7	0	4	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	1634217	A	T	1634217	3	4	325	1	0	0	0	0	1	0	0	0	17329	391	14	5	4016	5	WDR81	17	1634217	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08		1634217	79560993	109	16278											
BLMH	642	hgsc.bcm.edu;ucsc.edu	37	chr17	28599644	28599655	+	Frame_Shift_Del	DEL	AGCCTAGAAACA	AGCCTAGAAACA	-																															acatcacagccaaaccacacAgcctagaaacagaagaaaga																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	AGCCTAGAAACA	AGCCTAGAAACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	28599655	AGCCTAGAAACA	-	28599644	7	5	325	1	0	1	0	1	0	0	0	0	1446	175	7	0	420	0	BLMH	17	28599644	Frame_Shift_Del	DEL	AGCCTAGAAACA	TCGA-BP-5168-01A-01D-1421-08	26965427	28599644	52595566	110	16279											
SUZ12	23512	hgsc.bcm.edu	37	chr17	30310087	30310088	+	Frame_Shift_Ins	INS	-	-	A																															aagaatgtccaataagcaagINSaaaagagcaacatgggagac																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	30310088	-	A	30310087	7	5	325	1	0	1	1	0	0	0	0	0	15415	933	33	0	1021	0	SUZ12	17	30310087	Frame_Shift_Ins	INS	-	TCGA-BP-5168-01A-01D-1421-08	1710443	30310087	50885123	111	16280											
MSL1	339287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38285875	38285875	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaagaaggaggagactgTagcaagtaaggcatagagaa	18	5	13	5	0	0	3	0	0	0	3	1	6	1	4	1	3	1	4	1	3	7	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	38285875	T	A	38285875	3	1	325	1	0	0	0	0	1	0	0	0	9877	1638	57	5	587	5	MSL1	17	38285875	Missense_Mutation	SNP	T	TCGA-BP-5168-01A-01D-1421-08	7975788	38285875	42909335	112	16281											
NXPH3	11248	hgsc.bcm.edu;ucsc.edu	37	chr17	47656509	47656509	+	Frame_Shift_Del	DEL	C	C	-																															gccaagatctgctcccgagaCcacgctcagagctcagccac																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	47656509	C	-	47656509	7	5	325	1	0	1	0	1	0	0	0	0	10792	506	18	0	612	0	NXPH3	17	47656509	Frame_Shift_Del	DEL	C	TCGA-BP-5168-01A-01D-1421-08	9370634	47656509	33538701	113	16282											
KIAA1543	0	hgsc.bcm.edu	37	chr19	7675454	7675455	+	Frame_Shift_Ins	INS	-	-	G																															ctctcgccttcctcgtggctINSgccccctgtcccttgaggac																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	7675455	-	G	7675454	7	5	325	1	0	1	1	0	0	0	0	0	8243	1580	55	0	964	0	KIAA1543	19	7675454	Frame_Shift_Ins	INS	-	TCGA-BP-5168-01A-01D-1421-08		7675454	51453529	114	16283											
ZNF561	93134	broad.mit.edu;hgsc.bcm.edu	37	chr19	9724746	9724746	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaaaaaaccctgctgaagtGatgaccgtttggttctaggt	11	12	10	8	1	2	3	1	3	1	0	2	3	2	3	2	2	2	3	2	2	5	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	9724746	G	A	9724746	3	1	325	1	0	0	0	0	1	0	0	0	17991	1294	45	2	1193	2	ZNF561	19	9724746	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	2049292	9724746	49404237	115	16284											
NFIX	4784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	13192531	13192531	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcagccctgcacttcccCtccacgtccatcatccagca	8	8	5	20	1	2	0	2	0	0	0	6	0	6	0	6	0	3	3	6	0	0	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	13192531	C	T	13192531	2	4	325	1	0	0	0	0	0	0	0	1	10374	668	24	2		2	NFIX	19	13192531	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	3467785	13192531	45936452	116	16285											
MAP1S	55201	broad.mit.edu	37	chr19	17838751	17838751	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgctgccccccaagacagCacggcaaacggagaacgtca	13	3	11	14	3	1	2	1	0	0	2	1	4	1	2	3	2	5	3	3	2	3	0	rs138807804	alternate_allele	TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	17838751	A	A	17838751	3	1	325	1	0	0	0	0	1	0	0	0	9234	710	25	4	2576	4	MAP1S	19	17838751	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	4646220	17838751	41290232	117	16286											
ZNF492	57615	broad.mit.edu	37	chr19	22847963	22847963	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaacagacataagatgAttcatactggagagaaactc	16	11	7	7	0	2	4	1	1	1	3	3	6	2	5	0	1	3	0	0	1	4	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	22847963	T	T	22847963	3	4	325	1	0	0	0	0	1	0	0	0	17942	333	12	5	1502	5	ZNF492	19	22847963	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	5009212	22847963	36281020	118	16287											
VRK3	51231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50512604	50512604	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggaccatttcactttcttagGagaggtttcaaaactggagt	11	13	10	7	0	3	1	2	0	1	1	3	4	3	3	1	4	1	1	1	4	3	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	50512604	G	C	50512604	3	2	325	1	0	0	0	0	1	0	0	0	17220	1174	41	4	1290	4	VRK3	19	50512604	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	27664641	50512604	8616379	119	16288											
ZNF677	342926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53740381	53740381	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttcaatgtgtattttctgGtgtctagtgaggtttgcaaa	8	19	10	4	0	3	1	1	1	2	0	3	1	3	1	0	2	1	3	0	2	4	7	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	53740381	G	C	53740381	3	2	325	1	0	0	0	0	1	0	0	0	18083	1252	44	4	159	4	ZNF677	19	53740381	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08	3227777	53740381	5388602	120	16289											
ZCCHC3	85364	hgsc.bcm.edu	37	chr20	278733	278733	+	Missense_Mutation	SNP	G	G	A																															caagggtcgcttcctcgtccGcatctgtttccagggagacg																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	278733	G	A	278733	3	1	325	1	0	0	0	0	1	0	0	0	17588	1087	38	1	508	1	ZCCHC3	20	278733	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		278733	62746787	121	16290	215	2									
ZCCHC3	85364	hgsc.bcm.edu	37	chr20	278734	278734	+	Silent	SNP	C	C	T																															aagggtcgcttcctcgtccgCatctgtttccagggagacga																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	278734	C	T	278734	2	4	325	1	0	0	0	0	0	0	0	1	17588	697	25	2		2	ZCCHC3	20	278734	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	1	278734	62746786	122	16291	215	2									
SCRT2	85508	broad.mit.edu	37	chr20	656174	656174	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtctccaaggggtggtaGgtgggggccggcaccccgct	4	7	18	12	2	1	0	0	0	1	0	2	0	1	0	4	7	0	4	4	7	2	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	656174	A	A	656174	2	1	325	1	0	0	0	0	0	0	0	1	13944	987	35	2		2	SCRT2	20	656174	Silent	SNP	G	TCGA-BP-5168-01A-01D-1421-08	377440	656174	62369346	123	16292											
CPXM1	56265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2775211	2775211	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcatggttaatcccatcCacggcaatgacagcgtcagc	11	8	9	13	3	2	1	2	1	0	0	4	1	4	1	2	2	2	2	2	2	2	1	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	2775211	C	T	2775211	2	4	325	1	0	0	0	0	0	0	0	1	3837	581	21	2		2	CPXM1	20	2775211	Silent	SNP	C	TCGA-BP-5168-01A-01D-1421-08	2119037	2775211	60250309	124	16293											
NKX2-2	4821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	21494259	21494259	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcgttggtgtccggcaggtCtaagatgtccttgaccgaaa	9	11	12	9	3	1	2	0	1	1	1	4	3	3	2	3	3	0	2	3	3	2	3	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	21494259	C	G	21494259	3	3	325	1	0	0	0	0	1	0	0	0	10450	913	32	4	780	4	NKX2-2	20	21494259	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	18719048	21494259	41531261	125	16294											
CPNE1	8904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34219486	34219486	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgacccgtcactgtcataAtcggagcattgcacctgagg	9	10	11	11	2	2	2	2	2	0	0	3	3	2	3	2	2	2	2	2	2	1	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	34219486	A	G	34219486	2	3	325	1	0	0	0	0	0	0	0	1	3811	98	4	3		3	CPNE1	20	34219486	Silent	SNP	A	TCGA-BP-5168-01A-01D-1421-08	12725227	34219486	28806034	126	16295											
GDAP1L1	78997	hgsc.bcm.edu	37	chr20	42876070	42876070	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccagcggaggcccccgaCgctcccgaggcggccagccc	7	1	14	19	5	0	0	0	0	0	0	1	3	1	1	6	4	3	1	6	4	1	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		G	42876070	C	G	42876070	3	3	325	1	0	0	0	0	1	0	0	0	6308	535	19	4	98	4	GDAP1L1	20	42876070	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	8656584	42876070	20149450	127	16296											
SON	6651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34925507	34925507	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctcaggacatgttgcctcaGaagtatctacatccttgttg	9	13	8	11	0	3	1	2	0	1	1	4	2	4	2	3	1	2	3	3	1	3	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	34925507	G	C	34925507	3	2	325	1	0	0	0	0	1	0	0	0	14928	943	33	4	3980	4	SON	21	34925507	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		34925507	13204388	128	16297											
SETD4	54093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37418054	37418054	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgtcaacagcctccgcAaacagaggctgcagagaaga	14	5	11	11	1	1	3	1	0	0	3	2	4	2	3	2	1	5	4	2	1	3	0	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	37418054	A	T	37418054	3	4	325	1	0	0	0	0	1	0	0	0	14135	127	5	5	817	5	SETD4	21	37418054	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	2492547	37418054	10711841	129	16298											
MMP11	4320	hgsc.bcm.edu;ucsc.edu	37	chr22	24121517	24121517	+	Frame_Shift_Del	DEL	C	C	-																															ccccgctgtggcgtgcccgaCccatctgatgggctgagtgc																								novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		-	24121517	C	-	24121517	7	5	325	1	0	1	0	1	0	0	0	0	9650	506	18	0	258	0	MMP11	22	24121517	Frame_Shift_Del	DEL	C	TCGA-BP-5168-01A-01D-1421-08		24121517	27183049	130	16299											
CSF2RA	1438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	1422842	1422842	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacgggaacctcggctctGtgtacatttatgtgctccta	8	12	10	11	3	1	0	0	0	1	0	3	2	2	1	2	2	3	3	2	2	4	4	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		C	1422842	G	C	1422842	3	2	325	1	0	0	0	0	1	0	0	0	3934	1377	48	4	1113	4	CSF2RA	23	1422842	Missense_Mutation	SNP	G	TCGA-BP-5168-01A-01D-1421-08		1422842	153847718	131	16300											
ARHGAP6	395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	11204520	11204520	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgagactgattgtcatcaAgatcggtgatagaatccact	12	11	10	8	2	2	5	2	2	0	3	5	6	3	5	1	1	0	0	1	1	3	2	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		T	11204520	A	T	11204520	3	4	325	1	0	0	0	0	1	0	0	0	887	72	3	5	1973	5	ARHGAP6	23	11204520	Missense_Mutation	SNP	A	TCGA-BP-5168-01A-01D-1421-08	9781678	11204520	144066040	132	16301											
USP9X	8239	broad.mit.edu;hgsc.bcm.edu	37	chrX	41088595	41088595	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatcactatcaaaaaagagCataccagtgtataaaatgta	20	9	6	6	0	2	1	2	0	0	1	2	2	2	1	1	0	2	3	1	0	10	5	novel		TCGA-BP-5168-01A-01D-1421-08	TCGA-BP-5168-11A-01D-1421-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9930560d-22e6-43aa-a6f0-02515f7af8f0	e250a536-2616-4483-8fd8-ceb70790d262		A	41088595	C	A	41088595	3	1	325	1	0	0	0	0	1	0	0	0	17089	710	25	4	7313	4	USP9X	23	41088595	Missense_Mutation	SNP	C	TCGA-BP-5168-01A-01D-1421-08	29884075	41088595	114181965	133	16302											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10363881	10363881	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcaaaggagcctgttggtGctggtgttagtagcacctct	9	11	13	8	0	1	0	0	0	1	0	1	1	1	1	2	3	4	6	2	3	4	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	10363881	G	T	10363881	3	4	326	1	0	0	0	0	1	0	0	0	8284	1319	46	4	2716	4	KIF1B	1	10363881	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		10363881	238886740	1	16303											
MTHFR	4524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11855302	11855302	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctcgatgccatagttgCggatggcagcatcgttgtct	7	11	12	11	3	1	0	0	0	1	0	3	2	1	1	2	2	4	5	2	2	1	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	11855302	C	A	11855302	3	1	326	1	0	0	0	0	1	0	0	0	9931	768	27	4	1114	4	MTHFR	1	11855302	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	1491421	11855302	237395319	2	16304											
HSPG2	3339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22168731	22168731	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggcatctgccatactcaCggtaggaagacccctcactg	10	8	9	14	1	3	1	2	0	1	1	3	2	3	2	3	3	2	2	3	3	3	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	22168731	C	T	22168731	5	4	326	1	0	0	0	0	0	0	1	0	7430	550	19	1	4242	1	HSPG2	1	22168731	Splice_Site	SNP	C	TCGA-BP-5169-01A-01D-1429-08	10313429	22168731	227081890	3	16305											
ZMYM4	9202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35857906	35857906	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtagtatcattggcaaGtgcccctgctgctcagccta	9	11	9	12	0	2	0	2	0	0	0	2	0	2	0	3	1	4	5	3	1	5	4	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	35857906	G	C	35857906	3	2	326	1	0	0	0	0	1	0	0	0	17701	1029	36	4	2743	4	ZMYM4	1	35857906	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	13689175	35857906	213392715	4	16306											
FCRL5	83416	hgsc.bcm.edu	37	chr1	157485438	157485438	+	Frame_Shift_Del	DEL	A	A	-																															actttggggtgcagaggctgAaacagcagttggagagacgt																								novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		-	157485438	A	-	157485438	7	5	326	1	0	1	0	1	0	0	0	0	5798	261	9	0		0	FCRL5	1	157485438	Frame_Shift_Del	DEL	A	TCGA-BP-5169-01A-01D-1429-08	121627532	157485438	91765183	5	16307											
SELE	6401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169697008	169697008	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtaggtgaattctccaataGgggaatgagcacacctcacc	12	9	10	10	0	2	2	1	2	1	0	3	3	2	3	3	3	1	2	3	3	5	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	169697008	G	A	169697008	3	1	326	1	0	0	0	0	1	0	0	0	14015	1000	35	2	512	2	SELE	1	169697008	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	12211570	169697008	79553613	6	16308											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32689778	32689778	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactcactccacccaatgaaGcagtttccgttgtgattaat	11	12	6	12	1	1	2	1	2	0	0	3	2	3	2	3	0	1	3	3	0	3	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	32689778	G	T	32689778	3	4	326	1	0	0	0	0	1	0	0	0	1438	971	34	4	5241	4	BIRC6	2	32689778	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		32689778	210509595	7	16309											
SLC9A4	389015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	103120167	103120167	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctctccggcatcctggcGtgagtacaaaccaaggatca	11	9	9	12	2	2	1	1	1	1	0	5	2	4	2	3	3	2	2	3	3	4	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	103120167	G	A	103120167	5	1	326	1	0	0	0	0	0	0	1	0	14718	1159	40	1	991	1	SLC9A4	2	103120167	Splice_Site	SNP	G	TCGA-BP-5169-01A-01D-1429-08	70430389	103120167	140079206	8	16310											
IWS1	55677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128252517	128252517	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctttttttgattgttcAactgtctgtcttcctattca	5	21	6	9	0	4	1	2	1	2	0	5	1	5	1	1	1	1	2	1	1	2	8	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	128252517	A	C	128252517	3	2	326	1	0	0	0	0	1	0	0	0	7931	131	5	5	757	5	IWS1	2	128252517	Missense_Mutation	SNP	A	TCGA-BP-5169-01A-01D-1429-08	25132350	128252517	114946856	9	16311											
SLC23A3	151295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220033819	220033819	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacaaaggtgcagcatgaGggaggctaggaaaagtttgg	13	7	15	6	0	0	1	0	1	0	0	0	3	0	3	1	5	3	4	1	5	5	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	220033819	G	A	220033819	3	1	326	1	0	0	0	0	1	0	0	0	14466	1000	35	2	1444	2	SLC23A3	2	220033819	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	91781302	220033819	23165554	10	16312											
PAX3	5077	broad.mit.edu;hgsc.bcm.edu	37	chr2	223066808	223066808	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgactgcagctggccgaCaccgtggtggtaggttccag	6	9	14	12	2	1	1	0	1	1	0	2	2	2	1	3	4	2	4	3	4	1	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	223066808	C	A	223066808	2	1	326	1	0	0	0	0	0	0	0	1	11480	465	17	4		4	PAX3	2	223066808	Silent	SNP	C	TCGA-BP-5169-01A-01D-1429-08	3032989	223066808	20132565	11	16313											
HJURP	55355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234749963	234749963	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttttgctttgctggaaGgtaaactcagcctgcgggtt	6	15	12	8	1	1	0	1	0	0	0	1	1	1	1	1	3	6	5	1	3	3	6	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	234749963	G	A	234749963	3	1	326	1	0	0	0	0	1	0	0	0	7189	1000	35	2	791	2	HJURP	2	234749963	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	11683155	234749963	8449410	12	16314											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188200	10188200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttgcttgtcccgataggtCacctttggctcttcagagat	6	15	9	11	1	3	1	2	0	1	1	4	3	4	1	2	2	1	2	2	2	1	5	rs5030811	bycluster	TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	10188200	T	T	10188200	3	4	326	1	0	0	0	0	1	0	0	0	17161	826	29	2	349	2	VHL	3	10188200	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08		10188200	187834230	13	16315											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47125380	47125380	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttttgtgccgttgctctCtttgggctctatttcagcgt	3	19	10	9	2	3	0	1	0	2	0	4	0	3	0	1	1	3	4	1	1	2	7	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	47125380	C	A	47125380	4	1	326	1	0	0	0	0	0	1	0	0	14133	922	32	4	1844	4	SETD2	3	47125380	Nonsense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	36937180	47125380	150897050	14	16316											
LAMB2	3913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49160288	49160288	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgagtctcagccactctgctGaggatgctaccaccttctgc	7	10	9	15	1	3	1	1	1	3	0	4	3	3	2	3	1	5	2	3	1	1	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	49160288	G	A	49160288	2	1	326	1	0	0	0	0	0	0	0	1	8611	1277	45	2		2	LAMB2	3	49160288	Silent	SNP	G	TCGA-BP-5169-01A-01D-1429-08	2034908	49160288	148862142	15	16317											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52595787	52595787	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaggctctatttaccttcAtattctgctttcttggctgt	5	19	6	11	0	4	0	1	0	3	0	4	0	4	0	2	2	2	3	2	2	4	9	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	52595787	A	C	52595787	4	2	326	1	0	0	0	0	0	1	0	0	11491	224	8	5	640	5	PBRM1	3	52595787	Nonsense_Mutation	SNP	A	TCGA-BP-5169-01A-01D-1429-08	3435499	52595787	145426643	16	16318											
ACAD11	84129	broad.mit.edu;hgsc.bcm.edu	37	chr3	132323956	132323956	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttacctgtcatacagaagCaagaggtaatgttcccttga	13	12	8	8	0	1	3	1	1	0	2	2	3	2	3	2	1	3	3	2	1	5	6	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		G	132323956	C	G	132323956	3	3	326	1	0	0	0	0	1	0	0	0	109	710	25	4	870	4	ACAD11	3	132323956	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	79728169	132323956	65698474	17	16319											
FBXL21	26223	hgsc.bcm.edu	37	chr5	135276202	135276204	+	In_Frame_Del	DEL	GTT	GTT	-																															attttgtgtcagcacttacaGttgtttttatcaactcaaaa																								rs1160982	bycluster;byfrequency;by1000genomes	TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		-	135276204	GTT	-	135276202	7	5	326	1	0	1	0	1	0	0	0	0	5718	1029	36	0	524	0	FBXL21	5	135276202	In_Frame_Del	DEL	GTT	TCGA-BP-5169-01A-01D-1429-08		135276202	45639058	18	16320											
CLINT1	9685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	157232998	157232998	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgctgtgcgcttgtgtctgGttgtggtggtctctgtggcc	0	17	16	8	1	2	0	0	0	2	0	3	0	2	0	1	4	2	3	1	4	0	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	157232998	G	T	157232998	3	4	326	1	0	0	0	0	1	0	0	0	3531	1261	44	4	1083	4	CLINT1	5	157232998	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	21956796	157232998	23682262	19	16321											
PRDM13	59336	broad.mit.edu	37	chr6	100057184	100057184	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccgactcacgacgagaaagGtacccattccaaaagcgtgg	13	6	10	12	4	1	1	1	0	0	1	3	4	3	1	3	2	2	1	3	2	4	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	100057184	A	A	100057184	5	1	326	1	0	0	0	0	0	0	1	0	12456	1275	44	2	408	2	PRDM13	6	100057184	Splice_Site	SNP	G	TCGA-BP-5169-01A-01D-1429-08		100057184	71057883	20	16322											
AIM1	202	ucsc.edu	37	chr6	106960877	106960877	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcccaggaaccatttcGgcgtgggcaggtcgacagtg	9	7	15	10	3	0	1	0	1	0	0	2	3	0	2	2	4	2	1	2	4	2	1	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	.	WXS	454	.	.	Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	106960877	G	T	106960877	3	4	326	1	0	0	0	0	1	0	0	0	430	1116	39	4	663	4	AIM1	6	106960877	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	6903693	106960877	64154190	21	16323											
TPST1	8460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	65705680	65705680	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactcatgagggccatgctgGacgcacatcctgacattcgc	9	8	10	14	2	1	2	1	2	0	0	3	3	2	3	2	2	1	2	2	2	0	1	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	65705680	G	T	65705680	3	4	326	1	0	0	0	0	1	0	0	0	16426	1174	41	4	270	4	TPST1	7	65705680	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		65705680	93432983	22	16324											
ZNF3	7551	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99668973	99668973	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaataaggcctgaactgtaGgtaaactttcctccacattc	12	12	7	10	0	0	2	0	2	0	0	3	2	2	2	3	2	2	2	3	2	6	5	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	99668973	G	C	99668973	2	2	326	1	0	0	0	0	0	0	0	1	17828	987	35	4		4	ZNF3	7	99668973	Silent	SNP	G	TCGA-BP-5169-01A-01D-1429-08	33963293	99668973	59469690	23	16325											
AGFG2	3268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100160277	100160277	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacgatgggcggcggcggCggcagcagcacagggctggc	6	3	20	12	5	1	0	1	0	0	0	1	1	1	0	0	7	2	4	0	7	0	0	rs146791629		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	100160277	C	T	100160277	2	4	326	1	0	0	0	0	0	0	0	1	381	755	27	1		1	AGFG2	7	100160277	Silent	SNP	C	TCGA-BP-5169-01A-01D-1429-08	491304	100160277	58978386	24	16326											
SSPO	23145	broad.mit.edu	37	chr7	149482073	149482073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccctgcaggcagtactgatgGctgtgtctgtccaccaggca	7	9	12	13	0	1	1	0	1	1	0	2	1	2	1	3	3	2	5	3	3	1	1	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	149482073	T	T	149482073	3	4	326	1	0	0	0	0	1	0	0	0	15190	1203	42	4	2935	4	SSPO	7	149482073	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	49321796	149482073	9656590	25	16327											
ZNF572	137209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125989952	125989952	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaatgcttcagcagaagtgCctacctcagtcagcatcgga	12	8	10	11	1	3	1	3	0	0	1	4	3	3	2	2	1	5	3	2	1	3	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		G	125989952	C	G	125989952	3	3	326	1	0	0	0	0	1	0	0	0	18003	739	26	4	1448	4	ZNF572	8	125989952	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08		125989952	20374070	26	16328											
CALHM1	255022	hgsc.bcm.edu	37	chr10	105218252	105218259	+	Frame_Shift_Del	DEL	AGCGGCCG	AGCGGCCG	-																															ggtccttggcccggcggcccAgcggccgcttccactcttcg																								novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	AGCGGCCG	AGCGGCCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		-	105218259	AGCGGCCG	-	105218252	7	5	326	1	0	1	0	1	0	0	0	0	2582	188	7	0	791	0	CALHM1	10	105218252	Frame_Shift_Del	DEL	AGCGGCCG	TCGA-BP-5169-01A-01D-1429-08		105218252	30316495	27	16329											
OR5I1	10798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55703464	55703464	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatacagatgcccctagacAtcacaactgtgtacaataaa	16	8	6	11	0	1	2	1	0	0	2	1	2	1	2	2	0	4	2	2	0	7	4	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	55703464	A	C	55703464	3	2	326	1	0	0	0	0	1	0	0	0	11164	217	8	5	534	5	OR5I1	11	55703464	Missense_Mutation	SNP	A	TCGA-BP-5169-01A-01D-1429-08		55703464	79303052	28	16330											
OR10W1	81341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	58034733	58034733	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgaggaagaaaggcaCagcaatggctagtatggctg	13	7	16	5	0	0	3	0	2	0	1	0	4	0	4	0	5	1	5	0	5	5	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	58034733	C	T	58034733	3	4	326	1	0	0	0	0	1	0	0	0	10921	478	17	2	323	2	OR10W1	11	58034733	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	2331269	58034733	76971783	29	16331											
PPFIA1	8500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	70218604	70218604	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagtttccagtgtggaatTatgtgcctgagaaggttaaa	13	12	11	5	0	0	1	0	1	0	1	1	3	1	2	2	2	2	2	2	2	6	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	70218604	T	C	70218604	2	2	326	1	0	0	0	0	0	0	0	1	12309	1742	61	3		3	PPFIA1	11	70218604	Silent	SNP	T	TCGA-BP-5169-01A-01D-1429-08	12183871	70218604	64787912	30	16332											
CCDC89	220388	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	85396828	85396828	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagtttccgactgtactcacCctgggccttgagcttctcag	6	13	9	13	1	2	1	2	1	1	0	4	2	3	1	3	1	2	3	3	1	2	5	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	85396828	C	T	85396828	3	4	326	1	0	0	0	0	1	0	0	0	2866	623	22	2	782	2	CCDC89	11	85396828	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	15178224	85396828	49609688	31	16333											
DDX25	29118	broad.mit.edu	37	chr11	125786947	125786947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaatgctcctcttttcagCaacctttgaggactctgtgt	8	14	7	12	0	3	1	1	1	2	0	4	2	4	2	3	1	3	2	3	1	2	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	125786947	T	T	125786947	3	4	326	1	0	0	0	0	1	0	0	0	4352	710	25	2	873	2	DDX25	11	125786947	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	40390119	125786947	9219569	32	16334											
VWF	7450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6219564	6219564	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgggtcataaagtcatcttCagcaaagatgttaaagttgc	13	13	9	6	0	4	1	3	0	1	1	4	1	4	1	0	1	2	3	0	1	5	5	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	6219564	C	T	6219564	3	4	326	1	0	0	0	0	1	0	0	0	17245	835	29	2	8125	2	VWF	12	6219564	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08		6219564	127632331	33	16335											
LRRK2	120892	hgsc.bcm.edu;ucsc.edu	37	chr12	40702937	40702937	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctatagtactcatcccCattttatgacgcagcgagca	12	12	6	11	2	2	1	1	1	1	0	3	2	3	1	2	0	3	3	2	0	5	6	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	40702937	C	A	40702937	3	1	326	1	0	0	0	0	1	0	0	0	9033	594	21	4	4337	4	LRRK2	12	40702937	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	34483373	40702937	93148958	34	16336											
CDK17	5128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96683053	96683053	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctttgtgggaactgacttgGctcgggctagtccttcatag	6	14	12	9	1	2	1	1	1	1	0	4	2	3	2	1	3	1	2	1	3	3	5	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	96683053	G	A	96683053	3	1	326	1	0	0	0	0	1	0	0	0	3133	1203	42	2	627	2	CDK17	12	96683053	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	55980116	96683053	37168842	35	16337											
BCL7A	605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122492742	122492742	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gagcagaattcacagtcctcGatggaacattcgatgaacag	14	8	10	9	2	1	2	1	1	0	1	4	6	2	3	1	1	3	1	1	1	3	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	122492742	G	C	122492742	2	2	326	1	0	0	0	0	0	0	0	1	1378	1045	37	4		4	BCL7A	12	122492742	Silent	SNP	G	TCGA-BP-5169-01A-01D-1429-08	25809689	122492742	11359153	36	16338											
C13orf23	0	hgsc.bcm.edu;ucsc.edu	37	chr13	39587067	39587067	+	Frame_Shift_Del	DEL	G	G	-																															agaggtccttgagtaacagaGaaaagtgagggaacagcagt																								novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		-	39587067	G	-	39587067	7	5	326	1	0	1	0	1	0	0	0	0	1721	933	33	0	524	0	C13orf23	13	39587067	Frame_Shift_Del	DEL	G	TCGA-BP-5169-01A-01D-1429-08		39587067	75582811	37	16339											
HOMEZ	57594	hgsc.bcm.edu	37	chr14	23745517	23745518	+	Frame_Shift_Ins	INS	-	-	G																															tgggacacagcctagtggctINSggaggggtttagaggcggca																								novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		G	23745518	-	G	23745517	7	5	326	1	0	1	1	0	0	0	0	0	7281	1580	55	0	736	0	HOMEZ	14	23745517	Frame_Shift_Ins	INS	-	TCGA-BP-5169-01A-01D-1429-08		23745517	83604023	38	16340											
GALK2	2585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49611861	49611861	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgaggctgcgcgagtgcTccagtttaagaagatatgtg	10	9	14	8	3	0	2	0	0	0	2	1	4	1	2	1	1	3	3	1	1	3	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	49611861	T	C	49611861	3	2	326	1	0	0	0	0	1	0	0	0	6204	1551	54	3	1086	3	GALK2	15	49611861	Missense_Mutation	SNP	T	TCGA-BP-5169-01A-01D-1429-08		49611861	52919531	39	16341											
USP31	57478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	23079995	23079995	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagtcctgctcttcccaGgtgggaaagggctccttgtg	6	11	13	11	0	1	1	0	1	1	0	4	2	4	2	3	3	1	2	3	3	2	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	23079995	G	T	23079995	3	4	326	1	0	0	0	0	1	0	0	0	17061	1000	35	4	631	4	USP31	16	23079995	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		23079995	67274758	40	16342											
ABCC12	94160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	48173117	48173117	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactgatatcccgatgagaGctgtgggccccagaatgaaa	13	7	11	10	1	0	4	0	3	0	2	1	6	1	4	3	1	1	1	3	1	3	1	rs141109408	byfrequency;alternate_allele	TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	48173117	G	A	48173117	3	1	326	1	0	0	0	0	1	0	0	0	52	971	34	2	3391	2	ABCC12	16	48173117	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	25093122	48173117	42181636	41	16343											
BCAR1	9564	broad.mit.edu;hgsc.bcm.edu	37	chr16	75269312	75269312	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccagcggctcctgtggCtcagaggggctacgccagct	6	7	14	14	2	1	1	1	0	0	1	2	1	2	1	3	4	4	5	3	4	1	1	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	75269312	C	A	75269312	3	1	326	1	0	0	0	0	1	0	0	0	1348	796	28	4	1139	4	BCAR1	16	75269312	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	27096195	75269312	15085441	42	16344											
TNK1	8711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7291994	7291994	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctggaggcctcttgtccGatcctgagttgcagaggaag	7	11	13	10	1	2	2	0	1	2	1	5	5	4	4	3	3	1	2	3	3	1	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	7291994	G	T	7291994	3	4	326	1	0	0	0	0	1	0	0	0	16316	1058	37	4	1785	4	TNK1	17	7291994	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		7291994	73903216	43	16345											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11757612	11757612	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcggctgcaggcctctgctCctgggtcatcaatattgtga	6	12	12	11	1	3	1	2	1	1	0	4	1	4	1	2	3	3	3	2	3	2	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	11757612	C	A	11757612	3	1	326	1	0	0	0	0	1	0	0	0	4608	855	30	4	9998	4	DNAH9	17	11757612	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	4465618	11757612	69437598	44	16346											
SDK2	54549	broad.mit.edu;hgsc.bcm.edu	37	chr17	71344797	71344797	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctctctgcagggatgaGgtcgttgtatttggtgacat	6	14	14	7	1	1	2	0	2	1	0	3	3	1	3	0	3	2	5	0	3	1	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	71344797	G	A	71344797	3	1	326	1	0	0	0	0	1	0	0	0	13971	1000	35	2	420	2	SDK2	17	71344797	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	59587185	71344797	9850413	45	16347											
UBE2O	63893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74392798	74392798	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccattgtccgtctcccaGctgtcactatcatcttccca	7	12	5	17	1	4	0	2	0	2	0	7	0	6	0	4	0	2	1	4	0	1	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	74392798	G	A	74392798	2	1	326	1	0	0	0	0	0	0	0	1	16867	962	34	2		2	UBE2O	17	74392798	Silent	SNP	G	TCGA-BP-5169-01A-01D-1429-08	3048001	74392798	6802412	46	16348											
KIAA0802	0	broad.mit.edu	37	chr18	8786001	8786001	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacgagcgggagagcctgcGcctccgagccgcgcgggagc	6	2	19	14	7	0	1	0	0	0	1	1	6	1	3	4	3	5	0	4	3	0	0	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		T	8786001	T	T	8786001	3	4	326	1	0	0	0	0	1	0	0	0	8194	1087	38	4	1817	4	KIAA0802	18	8786001	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		8786001	69291247	47	16349											
ALPK2	115701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56202373	56202373	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctctctccctggacttTttcgcacagcccagggtgcc	4	13	8	16	1	2	0	0	0	2	0	6	1	3	1	3	2	2	1	3	2	0	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	56202373	T	C	56202373	2	2	326	1	0	0	0	0	0	0	0	1	545	1838	64	3		3	ALPK2	18	56202373	Silent	SNP	T	TCGA-BP-5169-01A-01D-1429-08	47416372	56202373	21874875	48	16350											
GRIN3B	116444	hgsc.bcm.edu	37	chr19	1007860	1007861	+	Frame_Shift_Ins	INS	-	-	C																															cccggccccagcaggagcgaINScccccccaagctcaacgcct																								novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	1007861	-	C	1007860	7	5	326	1	0	1	1	0	0	0	0	0	6784	275	10	0	2222	0	GRIN3B	19	1007860	Frame_Shift_Ins	INS	-	TCGA-BP-5169-01A-01D-1429-08		1007860	58121123	49	16351											
MUC16	94025	broad.mit.edu	37	chr19	9067792	9067792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgccagcatatctgtggTcttcactaggccagaggtgg	9	10	13	9	0	3	2	1	0	2	2	3	2	3	2	2	4	2	1	2	4	2	3	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	9067792	C	C	9067792	3	2	326	1	0	0	0	0	1	0	0	0	9973	1667	58	3	24197	3	MUC16	19	9067792	Missense_Mutation	SNP	T	TCGA-BP-5169-01A-01D-1429-08	8059932	9067792	50061191	50	16352											
YIF1B	90522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38799931	38799931	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatggtgtccacagcaaagTaatacttgagcttggtgatg	12	11	11	7	0	0	2	0	2	0	0	1	2	1	2	1	2	3	3	1	2	3	4	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	38799931	T	A	38799931	3	1	326	1	0	0	0	0	1	0	0	0	17475	1638	57	5	714	5	YIF1B	19	38799931	Missense_Mutation	SNP	T	TCGA-BP-5169-01A-01D-1429-08	29732139	38799931	20329052	51	16353											
TPX2	22974	broad.mit.edu;ucsc.edu	37	chr20	30365398	30365398	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaggaggaatataaggAagtgaactttacatctgaac	17	8	10	6	0	1	2	0	2	1	0	1	6	1	5	1	3	4	0	1	3	8	4	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		C	30365398	C	C	30365398	3	2	326	1	0	0	0	0	1	0	0	0	16431	246	9	5	865	5	TPX2	20	30365398	Missense_Mutation	SNP	A	TCGA-BP-5169-01A-01D-1429-08		30365398	32660122	52	16354											
MYL9	10398	broad.mit.edu	37	chr20	35177531	35177531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcaccaccatgggtgaccGcttcacagatgaggaagtgg	10	7	13	11	1	2	3	2	2	0	1	2	4	2	4	3	3	0	2	3	3	1	1	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	35177531	A	A	35177531	3	1	326	1	0	0	0	0	1	0	0	0	10054	1087	38	1	408	1	MYL9	20	35177531	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	4812133	35177531	27847989	53	16355											
NTSR1	4923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	61341142	61341142	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcagcgccatctggctcGcctcggccctgctggcggtg	3	9	13	16	4	3	0	2	0	1	0	5	0	3	0	3	4	2	2	3	4	0	0	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	61341142	G	A	61341142	3	1	326	1	0	0	0	0	1	0	0	0	10710	1087	38	1	585	1	NTSR1	20	61341142	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08	26163611	61341142	1684378	54	16356											
IL17RA	23765	hgsc.bcm.edu	37	chr22	17589955	17589955	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgctgcctccgggaaccGgcatcgtgaagcgggcgccc	6	5	14	16	5	0	1	0	1	0	0	2	2	1	2	4	3	4	2	4	3	2	0	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	17589955	G	A	17589955	3	1	326	1	0	0	0	0	1	0	0	0	7639	1116	39	1	1896	1	IL17RA	22	17589955	Missense_Mutation	SNP	G	TCGA-BP-5169-01A-01D-1429-08		17589955	33714611	55	16357											
C22orf9	0	hgsc.bcm.edu	37	chr22	45601731	45601731	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgatgtcagggtctccCaggcctggcagcttcttgga	6	10	13	12	1	3	0	1	0	2	0	5	2	3	1	2	4	1	2	2	4	0	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	45601731	C	A	45601731	2	1	326	1	0	0	0	0	0	0	0	1	2151	581	21	4		4	C22orf9	22	45601731	Silent	SNP	C	TCGA-BP-5169-01A-01D-1429-08	28011776	45601731	5702835	56	16358											
GSPT2	23708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	51488138	51488138	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaagcacaatgtagaagtTcttggaatactttctgatga	15	12	8	6	0	2	3	0	2	2	1	2	4	2	4	0	1	3	3	0	1	7	5	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	51488138	T	A	51488138	2	1	326	1	0	0	0	0	0	0	0	1	6827	1770	62	5		5	GSPT2	23	51488138	Silent	SNP	T	TCGA-BP-5169-01A-01D-1429-08		51488138	103782422	57	16359											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53228213	53228213	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcattgatgtgggaaaggCagacaaggccgtctgggcag	11	7	16	7	1	2	2	1	1	1	1	2	4	2	3	1	4	0	2	1	4	2	1	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	53228213	C	A	53228213	3	1	326	1	0	0	0	0	1	0	0	0	8135	710	25	4	2639	4	KDM5C	23	53228213	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	1740075	53228213	102042347	58	16360											
FAM122C	159091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	133941717	133941717	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgagaagagtcaacagtgCccctttgatcaatggacttg	11	11	10	9	0	3	3	2	2	1	2	3	5	3	4	2	1	2	0	2	1	3	2	novel		TCGA-BP-5169-01A-01D-1429-08	TCGA-BP-5169-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3527b21e-972b-4c31-b5de-8c394ce0e500	5ea7625d-1eb6-45d7-add0-a91070f4ebcb		A	133941717	C	A	133941717	3	1	326	1	0	0	0	0	1	0	0	0	5421	739	26	4	203	4	FAM122C	23	133941717	Missense_Mutation	SNP	C	TCGA-BP-5169-01A-01D-1429-08	80713504	133941717	21328843	59	16361											
CLSPN	63967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36230187	36230187	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatataaattctctttatTttcctcctcggcactgtcat	9	17	4	11	1	2	0	1	0	1	0	6	0	4	0	2	1	1	2	2	1	4	7	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	36230187	T	A	36230187	3	1	327	1	0	0	0	0	1	0	0	0	3560	1841	64	5	3849	5	CLSPN	1	36230187	Missense_Mutation	SNP	T	TCGA-BP-5170-01A-01D-1429-08		36230187	213020434	1	16362											
TSPAN1	10103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46646810	46646810	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttcattaagaccatgAtgatcctcttcaatttgctc	10	15	5	11	0	4	3	3	2	1	1	6	3	5	3	2	0	2	2	2	0	2	4	rs184135661	by1000genomes	TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	46646810	A	G	46646810	3	3	327	1	0	0	0	0	1	0	0	0	16632	333	12	3	33	3	TSPAN1	1	46646810	Missense_Mutation	SNP	A	TCGA-BP-5170-01A-01D-1429-08	10416623	46646810	202603811	2	16363											
IL12RB2	3595	hgsc.bcm.edu;ucsc.edu	37	chr1	67845752	67845761	+	Frame_Shift_Del	DEL	CTGACAGCTG	CTGACAGCTG	-																															atgtcctgtggatgacagctCtgacagctgctggtgaaagt																								novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	CTGACAGCTG	CTGACAGCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		-	67845761	CTGACAGCTG	-	67845752	7	5	327	1	0	1	0	1	0	0	0	0	7627	912	32	0	1847	0	IL12RB2	1	67845752	Frame_Shift_Del	DEL	CTGACAGCTG	TCGA-BP-5170-01A-01D-1429-08	21198942	67845752	181404869	3	16364											
ABCD3	5825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94953300	94953300	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtcgccctttcttagatTtgtctcatcctcgacatctc	6	16	5	14	2	4	1	2	0	3	1	9	2	5	1	2	0	0	0	2	0	1	3	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	94953300	T	C	94953300	2	2	327	1	0	0	0	0	0	0	0	1	62	1838	64	3		3	ABCD3	1	94953300	Silent	SNP	T	TCGA-BP-5170-01A-01D-1429-08	27107548	94953300	154297321	4	16365											
S100A5	6276	hgsc.bcm.edu;ucsc.edu	37	chr1	153509895	153509895	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctcttcatcaagtcatcGatgctgctctccttcatctt	7	15	6	13	1	7	0	4	0	3	0	9	1	7	0	1	1	2	3	1	1	1	3	rs3795395	bycluster;byfrequency;by1000genomes	TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	153509895	G	A	153509895	2	1	327	1	0	0	0	0	0	0	0	1	13783	1048	37	1		1	S100A5	1	153509895	Silent	SNP	G	TCGA-BP-5170-01A-01D-1429-08	58556595	153509895	95740726	5	16366											
ISG20L2	81875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156697247	156697247	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttccaagtgccatcgacCgtaggagtttcccctttctt	6	14	8	13	2	2	0	0	0	2	0	5	2	4	1	5	1	1	2	5	1	2	5	rs61742814		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	156697247	C	T	156697247	2	4	327	1	0	0	0	0	0	0	0	1	7855	639	23	1		1	ISG20L2	1	156697247	Silent	SNP	C	TCGA-BP-5170-01A-01D-1429-08	3187352	156697247	92553374	6	16367											
BRP44	0	broad.mit.edu;hgsc.bcm.edu	37	chr1	167887490	167887490	+	RNA	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttagctttgctttatcaAtaaccaaataataaactagg	16	13	5	7	0	1	0	1	0	0	0	1	0	1	0	1	1	4	3	1	1	9	8	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	167887490	A	T	167887490	1	4	327	0	1	0	0	0	0	0	0	0	1518	116	4	5		5	BRP44	1	167887490	RNA	SNP	A	TCGA-BP-5170-01A-01D-1429-08	11190243	167887490	81363131	7	16368											
APOB	338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	21225774	21225774	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtaactcgtaccaagcCatcaaacacgttatccttga	13	11	6	11	2	1	2	1	2	0	0	3	2	2	2	3	0	4	3	3	0	5	5	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	21225774	C	T	21225774	3	4	327	1	0	0	0	0	1	0	0	0	785	594	21	2	1175	2	APOB	2	21225774	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08		21225774	221973599	8	16369											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu	37	chr2	109384150	109384150	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactttgtgccaatcacagAataactccagacatgacttt	15	11	5	10	0	1	3	1	1	0	2	2	3	2	3	2	0	3	0	2	0	4	3	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	109384150	A	G	109384150	2	3	327	1	0	0	0	0	0	0	0	1	13030	243	9	3		3	RANBP2	2	109384150	Silent	SNP	A	TCGA-BP-5170-01A-01D-1429-08	88158376	109384150	133815223	9	16370											
SCG2	7857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	224463043	224463043	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacctcccacttcctgcagCatttactaaccttttcaaat	11	14	2	14	0	1	0	1	0	0	0	3	0	3	0	4	0	5	2	4	0	4	7	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	224463043	C	A	224463043	3	1	327	1	0	0	0	0	1	0	0	0	13893	710	25	4	899	4	SCG2	2	224463043	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08	115078893	224463043	18736330	10	16371											
VHL	7428	ucsc.edu	37	chr3	10188190	10188196	+	Splice_Site	DEL	CCCGATA	CCCGATA	-																															ctttaacaacctttgcttgtCccgataggtcacctttggct																								novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	CCCGATA	CCCGATA	CCCGATA	-	CCCGATA	CCCGATA	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		-	10188196	CCCGATA	-	10188190	8	5	327	1	0	1	0	1	0	0	1	0	17161	870	30	0		0	VHL	3	10188190	Splice_Site	DEL	CCCGATA	TCGA-BP-5170-01A-01D-1429-08		10188190	187834240	11	16372											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52668655	52668655	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgggcattttaatttgctGgtaataatcagggtattttt	10	19	9	3	0	1	0	1	0	0	0	1	0	1	0	0	3	1	4	0	3	5	9	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	52668655	G	A	52668655	4	1	327	1	0	0	0	0	0	1	0	0	11491	1357	47	2	3716	2	PBRM1	3	52668655	Nonsense_Mutation	SNP	G	TCGA-BP-5170-01A-01D-1429-08	42480465	52668655	145353775	12	16373											
CACNA1D	776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53844188	53844188	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacggcagcctgccgtccCtgcaccgcagctcctggtac	6	7	11	17	3	0	1	0	1	0	0	2	1	2	1	5	2	6	5	5	2	2	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	53844188	C	A	53844188	3	1	327	1	0	0	0	0	1	0	0	0	2541	680	24	4	6413	4	CACNA1D	3	53844188	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08	1175533	53844188	144178242	13	16374											
PIK3R4	30849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130454821	130454821	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaataatggtacaccttcTgtaaaaagctcagctatcac	15	11	5	10	0	4	0	3	0	1	0	4	0	4	0	1	1	3	4	1	1	7	5	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	130454821	T	C	130454821	2	2	327	1	0	0	0	0	0	0	0	1	11921	1567	55	3		3	PIK3R4	3	130454821	Silent	SNP	T	TCGA-BP-5170-01A-01D-1429-08	76610633	130454821	67567609	14	16375											
TBC1D19	55296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	26741524	26741524	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tataccatgaaccttccaaaTtgtatcagatattccgtgag	13	13	6	9	1	1	3	1	2	0	1	3	3	3	3	4	0	2	1	4	0	6	7	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	26741524	T	C	26741524	2	2	327	1	0	0	0	0	0	0	0	1	15606	1490	52	3		3	TBC1D19	4	26741524	Silent	SNP	T	TCGA-BP-5170-01A-01D-1429-08		26741524	164412752	15	16376											
DCTD	1635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	183836682	183836682	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cataaaatactctggccattCcaaatagtcgtcccgtttct	11	13	5	12	2	2	0	0	0	2	0	5	0	4	0	3	1	1	1	3	1	5	5	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	183836682	C	T	183836682	3	4	327	1	0	0	0	0	1	0	0	0	4305	864	30	2	516	2	DCTD	4	183836682	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08	157095158	183836682	7317594	16	16377											
ZNF622	90441	hgsc.bcm.edu;ucsc.edu	37	chr5	16465400	16465400	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccgcgttcatggcatcCttgtccacactgtccacgcc	6	10	9	16	3	1	0	1	0	0	0	4	0	4	0	5	2	0	2	5	2	0	2	rs113566156	bycluster;byfrequency;by1000genomes	TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	16465400	C	G	16465400	3	3	327	1	0	0	0	0	1	0	0	0	18045	680	24	4	1082	4	ZNF622	5	16465400	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08		16465400	164449860	17	16378											
PRR16	51334	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	120021872	120021872	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctccaccacctcctccaaGgttgacacctgtgaagtgtg	8	9	8	16	0	0	2	0	2	0	0	3	2	3	2	7	1	0	1	7	1	2	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	120021872	G	T	120021872	3	4	327	1	0	0	0	0	1	0	0	0	12591	1000	35	4	320	4	PRR16	5	120021872	Missense_Mutation	SNP	G	TCGA-BP-5170-01A-01D-1429-08	103556472	120021872	60893388	18	16379											
CD74	972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149792311	149792311	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcttctcctcctgtgcAtctgggaccctgaccccccg	3	11	8	19	1	2	1	0	1	2	0	5	2	4	2	7	1	2	2	7	1	0	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	149792311	A	T	149792311	3	4	327	1	0	0	0	0	1	0	0	0	3035	217	8	5	924	5	CD74	5	149792311	Missense_Mutation	SNP	A	TCGA-BP-5170-01A-01D-1429-08	29770439	149792311	31122949	19	16380											
RNF145	153830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	158603687	158603687	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaaggttataaggtaccaAaagattagacccaagaaaat	20	7	8	6	0	0	3	0	0	0	3	0	3	0	3	2	2	2	3	2	2	10	4	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	158603687	A	G	158603687	2	3	327	1	0	0	0	0	0	0	0	1	13449	11	1	3		3	RNF145	5	158603687	Silent	SNP	A	TCGA-BP-5170-01A-01D-1429-08	8811376	158603687	22311573	20	16381											
UIMC1	51720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176332369	176332369	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctttttaaagtccactaAgcaatctgtggcttctgaaa	11	15	7	8	0	2	1	0	1	2	0	3	1	3	1	1	1	2	3	1	1	5	6	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	176332369	A	G	176332369	2	3	327	1	0	0	0	0	0	0	0	1	16970	69	3	3		3	UIMC1	5	176332369	Silent	SNP	A	TCGA-BP-5170-01A-01D-1429-08	17728682	176332369	4582891	21	16382											
RREB1	6239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7231393	7231393	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggtcccaatctactccTcagccctggtcagcagccct	6	9	9	17	1	3	0	2	0	1	0	5	0	5	0	4	3	4	1	4	3	2	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	7231393	T	A	7231393	3	1	327	1	0	0	0	0	1	0	0	0	13681	1551	54	5	3087	5	RREB1	6	7231393	Missense_Mutation	SNP	T	TCGA-BP-5170-01A-01D-1429-08		7231393	163883674	22	16383											
MOXD1	26002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	132643865	132643865	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactgaaactcctggaaatTgaagtcaaaatcatcatcat	17	11	5	8	0	4	2	4	2	0	0	5	3	5	3	1	1	2	0	1	1	6	2	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	132643865	T	C	132643865	3	2	327	1	0	0	0	0	1	0	0	0	9720	1812	63	3	603	3	MOXD1	6	132643865	Missense_Mutation	SNP	T	TCGA-BP-5170-01A-01D-1429-08	125412472	132643865	38471202	23	16384											
CDK6	1021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92252376	92252376	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttcctagttgatcaacAtctgaacttccacgaaaaag	14	13	5	9	1	2	2	1	2	1	0	4	3	4	2	2	0	2	1	2	0	5	5	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	92252376	A	G	92252376	2	3	327	1	0	0	0	0	0	0	0	1	3148	214	8	3		3	CDK6	7	92252376	Silent	SNP	A	TCGA-BP-5170-01A-01D-1429-08		92252376	66886287	24	16385											
FOXP2	93986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	114282567	114282567	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagggctagacctcactaCtaacaattcctcctcgacta	11	10	7	13	1	1	1	1	0	0	1	4	3	3	2	3	2	2	1	3	2	5	5	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	114282567	C	T	114282567	3	4	327	1	0	0	0	0	1	0	0	0	6027	565	20	2	1034	2	FOXP2	7	114282567	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08	22030191	114282567	44856096	25	16386											
ADAM9	8754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38899622	38899622	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctggggaagagtgtgacTgtggtactccaaaggtcagt	10	9	15	7	1	1	2	1	1	0	1	2	3	2	3	1	4	1	2	1	4	3	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	38899622	T	A	38899622	3	1	327	1	0	0	0	0	1	0	0	0	253	1580	55	5	1334	5	ADAM9	8	38899622	Missense_Mutation	SNP	T	TCGA-BP-5170-01A-01D-1429-08		38899622	107464400	26	16387											
DCAF13	25879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	104438314	104438314	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaactgtgaagcagtggAaaatggatgggccaggctat	15	7	13	6	0	0	1	0	1	0	0	0	3	0	3	1	4	2	2	1	4	6	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	104438314	A	G	104438314	3	3	327	1	0	0	0	0	1	0	0	0	4266	247	9	3	879	3	DCAF13	8	104438314	Missense_Mutation	SNP	A	TCGA-BP-5170-01A-01D-1429-08	65538692	104438314	41925708	27	16388											
ERP44	23071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	102822388	102822388	+	Frame_Shift_Del	DEL	T	T	-																															attgaggtacttacttaaaaTttcatctatattctctgtat																								novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		-	102822388	T	-	102822388	7	5	327	1	0	1	0	1	0	0	0	0	5243	1493	52	0	1140	0	ERP44	9	102822388	Frame_Shift_Del	DEL	T	TCGA-BP-5170-01A-01D-1429-08		102822388	38391043	28	16389											
C10orf2	56652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102749574	102749574	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcaactggacaaatatgatCactgggctgaccgctttgag	12	10	10	9	1	2	3	2	3	0	0	2	4	2	4	1	2	1	2	1	2	3	2	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	102749574	C	T	102749574	3	4	327	1	0	0	0	0	1	0	0	0	1597	826	29	2	1423	2	C10orf2	10	102749574	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08		102749574	32785173	29	16390											
PLA2G16	11145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63357820	63357820	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggacatgacactggctgCaccagctcctgcgacctcac	8	6	11	16	2	1	1	1	1	0	0	2	3	2	2	3	3	3	3	3	3	0	0	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	63357820	C	T	63357820	3	4	327	1	0	0	0	0	1	0	0	0	11993	710	25	2	357	2	PLA2G16	11	63357820	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08		63357820	71648696	30	16391											
CEP164	22897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117265695	117265695	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctaaagatgtcaaggcCagattggctctgctggaggt	11	9	14	7	0	2	3	1	0	1	3	2	4	2	4	1	4	2	3	1	4	3	2	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	117265695	C	T	117265695	2	4	327	1	0	0	0	0	0	0	0	1	3249	581	21	2		2	CEP164	11	117265695	Silent	SNP	C	TCGA-BP-5170-01A-01D-1429-08	53907875	117265695	17740821	31	16392											
MLL	4297	hgsc.bcm.edu;ucsc.edu	37	chr11	118372561	118372561	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccctggctgtcgaccgtTgccttctgcaggtaaaagac	8	10	10	13	2	1	1	0	0	1	1	3	2	2	1	4	2	2	4	4	2	2	3	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	118372561	T	A	118372561	4	1	327	1	0	0	0	0	0	1	0	0	9620	1821	63	5	6587	5	MLL	11	118372561	Nonsense_Mutation	SNP	T	TCGA-BP-5170-01A-01D-1429-08	1106866	118372561	16633955	32	16393											
SLC6A12	6539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	318976	318976	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagagatagggaaacctccaGacattgcccagcccaatgat	14	6	9	12	0	0	3	0	1	0	2	1	5	1	4	4	1	3	0	4	1	3	2	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	318976	G	C	318976	2	2	327	1	0	0	0	0	0	0	0	1	14677	929	33	4		4	SLC6A12	12	318976	Silent	SNP	G	TCGA-BP-5170-01A-01D-1429-08		318976	133532919	33	16394											
PARP4	143	broad.mit.edu;hgsc.bcm.edu	37	chr13	25008976	25008976	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagagagaaatgaagctgggGagaatccagctcagggaagg	16	4	16	5	0	1	4	1	1	0	3	2	7	2	5	1	4	2	2	1	4	5	0	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	25008976	G	T	25008976	3	4	327	1	0	0	0	0	1	0	0	0	11463	1174	41	4	887	4	PARP4	13	25008976	Missense_Mutation	SNP	G	TCGA-BP-5170-01A-01D-1429-08		25008976	90160902	34	16395											
SNW1	22938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	78217740	78217740	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctgaatggccagcgcAttcgacatttttttctttcg	7	15	7	12	3	1	1	0	1	1	0	4	2	2	1	3	1	1	1	3	1	1	5	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		G	78217740	A	G	78217740	2	3	327	1	0	0	0	0	0	0	0	1	14881	214	8	3		3	SNW1	14	78217740	Silent	SNP	A	TCGA-BP-5170-01A-01D-1429-08		78217740	29131800	35	16396											
RPS2	6187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2012906	2012906	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtagtccccgatagcaacaAatgcctgcgaaaagatgtgt	13	9	10	9	2	0	1	0	0	0	1	1	3	1	1	3	0	4	2	3	0	6	2	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	2012906	A	T	2012906	3	4	327	1	0	0	0	0	1	0	0	0	13633	14	1	5	513	5	RPS2	16	2012906	Missense_Mutation	SNP	A	TCGA-BP-5170-01A-01D-1429-08		2012906	88341847	36	16397											
ZFP3	124961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4995604	4995604	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagggttagttcacagcttAttcagcatcagagaattcat	12	14	8	7	0	4	1	4	0	0	1	4	2	4	1	0	1	2	4	0	1	4	6	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	4995604	A	C	4995604	3	2	327	1	0	0	0	0	1	0	0	0	17642	449	16	5	807	5	ZFP3	17	4995604	Missense_Mutation	SNP	A	TCGA-BP-5170-01A-01D-1429-08		4995604	76199606	37	16398											
CD300LG	146894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41931245	41931245	+	Missense_Mutation	SNP	G	G	T																															ggggctgaggcccctccattGccagggacttcccagtacgg																								novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		T	41931245	G	T	41931245	3	4	327	1	0	0	0	0	1	0	0	0	3002	1310	46	4	566	4	CD300LG	17	41931245	Missense_Mutation	SNP	G	TCGA-BP-5170-01A-01D-1429-08	36935641	41931245	39263965	38	16399	216	2									
CD300LG	146894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41931246	41931246	+	Missense_Mutation	SNP	C	C	A																															gggctgaggcccctccattgCcagggacttcccagtacggg																								novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	41931246	C	A	41931246	3	1	327	1	0	0	0	0	1	0	0	0	3002	739	26	4	567	4	CD300LG	17	41931246	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08	1	41931246	39263964	39	16400	216	2									
C17orf71	0	hgsc.bcm.edu;ucsc.edu	37	chr17	57292221	57292225	+	Frame_Shift_Del	DEL	CCCTT	CCCTT	-																															cccagaaaaacaagaaatcaCccttccacctgatggccttt																								novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	CCCTT	CCCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		-	57292225	CCCTT	-	57292221	7	5	327	1	0	1	0	1	0	0	0	0	1878	507	18	0	2848	0	C17orf71	17	57292221	Frame_Shift_Del	DEL	CCCTT	TCGA-BP-5170-01A-01D-1429-08	15360975	57292221	23902989	40	16401											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6983136	6983136	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcctgtgagcatctctggCcagttcctccgattcttcaa	7	13	8	13	1	3	1	1	1	2	0	7	2	6	1	4	1	1	2	4	1	1	3	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	6983136	C	A	6983136	3	1	327	1	0	0	0	0	1	0	0	0	8605	739	26	4	3565	4	LAMA1	18	6983136	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08		6983136	71094112	41	16402											
CATSPERG	57828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38853135	38853135	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctgccggagcgcattttCctggacaagggcactgagta	9	8	14	10	2	0	1	0	1	0	0	1	4	1	3	2	3	3	4	2	3	2	3	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	38853135	C	A	38853135	3	1	327	1	0	0	0	0	1	0	0	0	2692	854	30	4	2347	4	CATSPERG	19	38853135	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08		38853135	20275848	42	16403											
ZNF611	81856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53209367	53209367	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacactcattacaattgtaaCgttttactccagtatgaagt	13	14	5	9	1	1	1	1	1	0	0	2	1	2	1	1	0	3	3	1	0	6	6	rs144132013	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	53209367	C	A	53209367	3	1	327	1	0	0	0	0	1	0	0	0	18036	536	19	4	1180	4	ZNF611	19	53209367	Missense_Mutation	SNP	C	TCGA-BP-5170-01A-01D-1429-08	14356232	53209367	5919616	43	16404											
PAX1	5075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	21689243	21689243	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttactctcccaagatggaaGactgggccggcgtgaaccgc	9	7	12	13	3	1	3	0	1	1	2	2	4	1	4	3	3	2	0	3	3	4	1	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		A	21689243	G	A	21689243	3	1	327	1	0	0	0	0	1	0	0	0	11478	942	33	2	974	2	PAX1	20	21689243	Missense_Mutation	SNP	G	TCGA-BP-5170-01A-01D-1429-08		21689243	41336277	44	16405											
CXorf21	80231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	30578381	30578381	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaatttgtctcctcttccTtttccccagccacctgctca	6	14	4	17	0	3	1	1	0	2	1	6	1	5	1	6	0	2	1	6	0	1	4	novel		TCGA-BP-5170-01A-01D-1429-08	TCGA-BP-5170-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	68761b2c-66b9-4adf-9b60-955f79ed0f11	bd5e01bf-68f5-4812-be2b-ccf301ca6b1b		C	30578381	T	C	30578381	3	2	327	1	0	0	0	0	1	0	0	0	4101	1609	56	3	817	3	CXorf21	23	30578381	Missense_Mutation	SNP	T	TCGA-BP-5170-01A-01D-1429-08		30578381	124692179	45	16406											
DNASE2B	58511	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	84864297	84864297	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacatcctttgctttgcTcttccttggcctctttgggg	5	16	9	11	0	2	1	0	0	2	1	4	1	4	1	3	3	3	2	3	3	2	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	84864297	T	C	84864297	3	2	328	1	0	0	0	0	1	0	0	0	4665	1551	54	3	52	3	DNASE2B	1	84864297	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08		84864297	164386324	1	16407											
HIPK1	204851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114483183	114483183	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcaagccaactcctctCaccaggtagcaaatttcaac	14	7	7	13	0	2	0	2	0	1	0	4	0	3	0	3	2	4	3	3	2	6	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	114483183	C	A	114483183	3	1	328	1	0	0	0	0	1	0	0	0	7116	826	29	4	180	4	HIPK1	1	114483183	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	29618886	114483183	134767438	2	16408											
SNX27	81609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151665946	151665946	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggtgttctgcgagctcaAgtggagaaaagaggtaattc	12	9	15	5	1	2	2	1	0	1	2	3	5	2	2	0	3	2	3	0	3	4	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	151665946	A	G	151665946	3	3	328	1	0	0	0	0	1	0	0	0	14899	72	3	3	1607	3	SNX27	1	151665946	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	37182763	151665946	97584675	3	16409											
DDR2	4921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	162749936	162749936	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagccatttgtcctgactCtgtgtataagctgatgctca	9	13	8	11	0	2	2	1	2	1	0	3	2	3	2	3	0	3	3	3	0	2	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	162749936	C	T	162749936	3	4	328	1	0	0	0	0	1	0	0	0	4337	913	32	2	2530	2	DDR2	1	162749936	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	11083990	162749936	86500685	4	16410											
C1orf112	55732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169811586	169811586	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtctgctttgcttgcagTatgtaattctgctggtgaag	7	16	11	7	0	2	1	0	1	2	0	2	1	2	1	0	1	4	6	0	1	3	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	169811586	T	A	169811586	3	1	328	1	0	0	0	0	1	0	0	0	1985	1638	57	5	1816	5	C1orf112	1	169811586	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	7061650	169811586	79439035	5	16411											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186147782	186147782	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattacagacagtactcacAtctctacagctcctactcag	12	10	5	14	0	3	1	2	0	1	1	5	1	4	1	1	0	5	3	1	0	4	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	186147782	A	T	186147782	3	4	328	1	0	0	0	0	1	0	0	0	7220	217	8	5	16592	5	HMCN1	1	186147782	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	16336196	186147782	63102839	6	16412											
B3GALT2	8707	hgsc.bcm.edu;ucsc.edu	37	chr1	193149452	193149452	+	Frame_Shift_Del	DEL	C	C	-																															gtttacggtggcgatacctgCctgccttttcttttgctgcg																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		-	193149452	C	-	193149452	7	5	328	1	0	1	0	1	0	0	0	0	1248	739	26	0	31	0	B3GALT2	1	193149452	Frame_Shift_Del	DEL	C	TCGA-BP-5173-01A-01D-1429-08	7001670	193149452	56101169	7	16413											
DUSP10	11221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	221912420	221912420	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaagatcctcttgaaagagtCcttgccttccctacaggaaa	13	10	7	11	0	1	3	0	1	1	2	4	4	4	4	4	1	2	0	4	1	4	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	221912420	C	T	221912420	3	4	328	1	0	0	0	0	1	0	0	0	4810	855	30	2	793	2	DUSP10	1	221912420	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	28762968	221912420	27338201	8	16414											
TARBP1	6894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234565028	234565028	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatataattttccacgccaTgtcaaaagactctatgcaga	15	11	6	9	1	2	3	1	0	1	3	3	3	3	3	2	0	1	1	2	0	5	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	234565028	T	A	234565028	3	1	328	1	0	0	0	0	1	0	0	0	15554	1464	51	5	2007	5	TARBP1	1	234565028	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	12652608	234565028	14685593	9	16415											
TTC32	130502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20101521	20101521	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgcaccggcgaatgtaagcgGagtacagtgcctcggcctcc	8	6	13	14	5	0	0	0	0	0	0	2	2	1	1	4	3	3	3	4	3	3	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	20101521	G	A	20101521	3	1	328	1	0	0	0	0	1	0	0	0	16700	1174	41	2	372	2	TTC32	2	20101521	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08		20101521	223097852	10	16416											
C2orf77	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170506866	170506866	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcgatattctgcaattgtTtttaattctgctttgttttt	6	23	6	6	1	2	0	0	0	2	0	3	1	2	0	0	0	2	5	0	0	3	10	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	170506866	T	G	170506866	3	3	328	1	0	0	0	0	1	0	0	0	2194	1838	64	5	545	5	C2orf77	2	170506866	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	150405345	170506866	72692507	11	16417											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179485254	179485254	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatttttggtccacttcaGtgttacattgagacgattca	10	15	7	9	1	2	1	2	1	0	1	3	3	3	1	2	1	1	1	2	1	1	6	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	179485254	G	T	179485254	3	4	328	1	0	0	0	0	1	0	0	0	16734	1020	36	4	62159	4	TTN	2	179485254	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	8978388	179485254	63714119	12	16418											
ZNF804A	91752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	185801482	185801482	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaactacgaaaccatcaatTtcctatagctgtaatcctct	14	12	3	12	1	2	0	1	0	1	0	4	1	4	0	3	0	4	2	3	0	7	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	185801482	T	G	185801482	3	3	328	1	0	0	0	0	1	0	0	0	18169	1829	64	5	1373	5	ZNF804A	2	185801482	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	6316228	185801482	57397891	13	16419											
OBFC2A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	192550402	192550402	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagcaatggccggggacttAtaaatccacaactacaagga	16	6	10	9	1	0	0	0	0	0	0	1	3	1	2	2	4	3	1	2	4	8	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	192550402	A	C	192550402	3	2	328	1	0	0	0	0	1	0	0	0	10808	449	16	5	545	5	OBFC2A	2	192550402	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	6748920	192550402	50648971	14	16420											
NBEAL1	65065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	204002984	204002984	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccgactagtgctgatcatAcaggactttcttcagtcaga	10	13	8	10	1	4	2	3	1	1	1	5	4	5	3	1	1	2	1	1	1	2	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	204002984	A	T	204002984	2	4	328	1	0	0	0	0	0	0	0	1	10188	381	14	5		5	NBEAL1	2	204002984	Silent	SNP	A	TCGA-BP-5173-01A-01D-1429-08	11452582	204002984	39196389	15	16421											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228886626	228886626	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatgatgcagttggtactGtttggtctgttccctcttgc	6	16	11	8	0	2	2	0	1	2	1	3	2	3	2	1	2	3	5	1	2	2	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	228886626	G	T	228886626	3	4	328	1	0	0	0	0	1	0	0	0	15049	1368	48	4	4632	4	SPHKAP	2	228886626	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	24883642	228886626	14312747	16	16422											
TRIP12	9320	broad.mit.edu;ucsc.edu	37	chr2	230650536	230650536	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcctgcatcacagactcCgcctgtttcagcagctcctc	7	10	8	16	1	2	1	2	0	0	1	6	1	5	1	4	1	3	4	4	1	0	1	rs189366062	by1000genomes;alternate_allele	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	230650536	A	A	230650536	2	1	328	1	0	0	0	0	0	0	0	1	16555	639	23	4		4	TRIP12	2	230650536	Silent	SNP	C	TCGA-BP-5173-01A-01D-1429-08	1763910	230650536	12548837	17	16423											
VHL	7428	broad.mit.edu	37	chr3	10183739	10183739	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctcggtgaactcgcgcGagccctcccaggtcatcttc	5	9	11	16	5	2	1	1	1	1	0	6	2	3	1	2	2	3	1	2	2	1	1	rs5030802		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	10183739	T	T	10183739	4	4	328	1	0	0	0	0	0	1	0	0	17161	1059	37	4	210	4	VHL	3	10183739	Nonsense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08		10183739	187838691	18	16424											
C3orf58	205428	broad.mit.edu	37	chr3	143691724	143691724	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcctggtgcgccgctacGcggagaccaaggactcgggc	7	4	15	15	6	0	1	0	0	0	1	1	3	0	2	4	4	2	1	4	4	2	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	143691724	T	T	143691724	3	4	328	1	0	0	0	0	1	0	0	0	2236	1087	38	4	552	4	C3orf58	3	143691724	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	133507985	143691724	54330706	19	16425											
ATP10D	57205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47527622	47527622	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagtaggatagaatgtgaaAgcccaaacaatgacctcagc	16	6	9	10	0	1	3	1	2	0	1	1	4	1	4	3	1	3	1	3	1	6	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	47527622	A	T	47527622	3	4	328	1	0	0	0	0	1	0	0	0	1118	72	3	5	753	5	ATP10D	4	47527622	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08		47527622	143626654	20	16426											
CXCL11	6373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	76956490	76956490	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgtcctcttttgaacatggGgaagcctagaatagatcata	12	11	10	8	1	2	3	1	1	1	2	3	4	3	4	2	2	2	0	2	2	6	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	76956490	G	T	76956490	3	4	328	1	0	0	0	0	1	0	0	0	4079	1232	43	4	229	4	CXCL11	4	76956490	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	29428868	76956490	114197786	21	16427											
C4orf37	0	hgsc.bcm.edu	37	chr4	99064290	99064290	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatttgagcaggcggggagcCcgatcatacatagtgctcgg	10	8	14	9	3	1	1	1	1	0	0	2	3	1	2	1	4	4	2	1	4	3	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	99064290	C	A	99064290	2	1	328	1	0	0	0	0	0	0	0	1	2267	610	22	4		4	C4orf37	4	99064290	Silent	SNP	C	TCGA-BP-5173-01A-01D-1429-08	22107800	99064290	92089986	22	16428											
SYNPO2	171024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	119947951	119947951	+	Missense_Mutation	SNP	G	G	C																															tcaagactgaagttcccctaGctgagaaccaaagaagtggt																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	119947951	G	C	119947951	3	2	328	1	0	0	0	0	1	0	0	0	15456	971	34	4	437	4	SYNPO2	4	119947951	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	20883661	119947951	71206325	23	16429	217	2									
SYNPO2	171024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	119947953	119947953	+	Silent	SNP	T	T	A																															aagactgaagttcccctagcTgagaaccaaagaagtggtcc																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	119947953	T	A	119947953	2	1	328	1	0	0	0	0	0	0	0	1	15456	1567	55	5		5	SYNPO2	4	119947953	Silent	SNP	T	TCGA-BP-5173-01A-01D-1429-08	2	119947953	71206323	24	16430	217	2									
USP53	54532	broad.mit.edu;ucsc.edu	37	chr4	120182905	120182905	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatgaaaatgccaaaaaTagtgaacttaaccttgttgg	16	11	8	6	0	0	3	0	3	0	0	0	3	0	3	2	1	3	1	2	1	7	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	120182905	C	C	120182905	2	2	328	1	0	0	0	0	0	0	0	1	17083	1403	49	3		3	USP53	4	120182905	Silent	SNP	T	TCGA-BP-5173-01A-01D-1429-08	234952	120182905	70971371	25	16431											
TMEM184C	55751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148555356	148555356	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatcccaggaaaaaattgtTtcccgaggatcaagatcaaa	17	8	7	9	1	2	1	2	0	0	1	4	4	4	3	2	2	0	1	2	2	5	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	148555356	T	G	148555356	3	3	328	1	0	0	0	0	1	0	0	0	16105	1841	64	5	1126	5	TMEM184C	4	148555356	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	28372451	148555356	42598920	26	16432											
GALNT7	51809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	174219381	174219381	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcatgggattggagtatgCtctggaaacgggtgcctctg	8	10	16	7	1	2	0	0	0	2	0	2	4	2	3	1	4	4	3	1	4	2	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	174219381	C	A	174219381	3	1	328	1	0	0	0	0	1	0	0	0	6218	797	28	4	1103	4	GALNT7	4	174219381	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	25664025	174219381	16934895	27	16433											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89971958	89971958	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatacattttcataaacaTcactgataattctattcctg	15	16	2	8	0	3	1	2	1	1	0	4	1	4	1	1	0	2	0	1	0	7	9	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	89971958	T	A	89971958	3	1	328	1	0	0	0	0	1	0	0	0	6721	1435	50	5	5473	5	GPR98	5	89971958	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08		89971958	90943302	28	16434											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127782277	127782277	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctccttggcatatccctggGatagcctggcattcatcaac	8	11	8	14	0	2	0	2	0	0	0	4	1	4	1	4	3	2	2	4	3	3	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	127782277	G	A	127782277	2	1	328	1	0	0	0	0	0	0	0	1	5703	1164	41	2		2	FBN2	5	127782277	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	37810319	127782277	53132983	29	16435											
CHSY3	337876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	129520380	129520380	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgccaagagcagaggacgGctcattgacttcaaggaaat	15	7	11	8	1	2	3	2	1	0	2	2	5	2	5	1	3	2	2	1	3	4	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	129520380	G	T	129520380	2	4	328	1	0	0	0	0	0	0	0	1	3413	1190	42	4		4	CHSY3	5	129520380	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	1738103	129520380	51394880	30	16436											
BRD8	10902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137503709	137503709	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggaccccgcctacctccAggaggacacctgtactgttc	9	7	10	15	1	0	0	0	0	0	0	2	4	1	3	6	3	2	2	6	3	3	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	137503709	A	T	137503709	3	4	328	1	0	0	0	0	1	0	0	0	1506	188	7	5	3146	5	BRD8	5	137503709	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	7983329	137503709	43411551	31	16437											
PCDHB8	56128	broad.mit.edu;hgsc.bcm.edu	37	chr5	140559268	140559268	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgctggtgcgcgtgctGgtgctggacgccaacgacaa	7	6	17	11	5	0	0	0	0	0	0	0	3	0	1	1	4	4	3	1	4	2	0	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	140559268	G	T	140559268	2	4	328	1	0	0	0	0	0	0	0	1	11548	1335	47	4		4	PCDHB8	5	140559268	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	3055559	140559268	40355992	32	16438											
POLH	5429	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43571729	43571729	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatcccagctccagagtCattttggggagaagaatggg	11	9	13	8	0	1	4	1	1	0	3	3	5	3	4	2	3	1	1	2	3	3	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	43571729	C	A	43571729	3	1	328	1	0	0	0	0	1	0	0	0	12202	826	29	4	887	4	POLH	6	43571729	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08		43571729	127543338	33	16439											
GJA10	84694	hgsc.bcm.edu	37	chr6	90604514	90604514	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttgagaaagacaggcagagGaaaaagtcacaccttagagc	17	6	11	7	0	1	4	1	1	0	4	1	6	1	5	1	2	1	1	1	2	4	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	90604514	G	A	90604514	2	1	328	1	0	0	0	0	0	0	0	1	6401	1165	41	2		2	GJA10	6	90604514	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	47032785	90604514	80510553	34	16440											
PLG	5340	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161152841	161152841	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accactgttactgggacgccAtgccaggactgggctgccca	8	7	12	14	1	0	0	0	0	0	0	0	2	0	2	4	3	3	2	4	3	1	1	rs150227219	alternate_allele	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	161152841	A	G	161152841	2	3	328	1	0	0	0	0	0	0	0	1	12086	204	8	3		3	PLG	6	161152841	Silent	SNP	A	TCGA-BP-5173-01A-01D-1429-08	70548327	161152841	9962226	35	16441											
COBL	23242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	51094361	51094361	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccccggtgtgttctgccGtctagaatattaacagtgtc	7	13	9	12	2	2	1	0	0	2	1	4	1	3	1	4	1	2	1	4	1	4	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	51094361	G	A	51094361	3	1	328	1	0	0	0	0	1	0	0	0	3653	1159	40	1	411	1	COBL	7	51094361	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08		51094361	108044302	36	16442											
MUC17	140453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100680818	100680818	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacaaacctcaactcctagtGaacggaccactccattagca	14	8	5	14	1	1	1	1	1	0	0	3	2	3	2	4	1	5	1	4	1	6	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	100680818	G	A	100680818	3	1	328	1	0	0	0	0	1	0	0	0	9974	1291	45	2	6131	2	MUC17	7	100680818	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	49586457	100680818	58457845	37	16443											
SLC13A1	6561	hgsc.bcm.edu;ucsc.edu	37	chr7	122757654	122757654	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagagggttcacatgaatGgcttcggcctgttgtaagag	11	11	13	6	1	1	3	1	1	0	2	2	3	1	3	1	3	0	4	1	3	4	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	122757654	G	A	122757654	2	1	328	1	0	0	0	0	0	0	0	1	14393	1335	47	2		2	SLC13A1	7	122757654	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	22076836	122757654	36381009	38	16444											
HIPK2	28996	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	139415959	139415959	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggggcaaggggctaaacTtgttttgcttcagaaagtca	11	11	13	6	0	2	2	2	1	0	1	2	2	2	2	0	4	2	4	0	4	4	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	139415959	T	C	139415959	3	2	328	1	0	0	0	0	1	0	0	0	7117	1609	56	3	2777	3	HIPK2	7	139415959	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	16658305	139415959	19722704	39	16445											
CNTNAP2	26047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	146829477	146829477	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacatggaaccccaatggTctcctggtcttcagtcactt	9	11	9	12	0	4	0	2	0	2	0	5	2	4	2	3	4	1	0	3	4	2	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	146829477	T	C	146829477	2	2	328	1	0	0	0	0	0	0	0	1	3647	1654	58	3		3	CNTNAP2	7	146829477	Silent	SNP	T	TCGA-BP-5173-01A-01D-1429-08	7413518	146829477	12309186	40	16446											
DAPK1	1612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	90321652	90321652	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagcaccattgagaacgtCatggccaccacgctgccagg	10	6	11	14	2	1	1	1	1	0	1	1	2	1	1	4	2	4	3	4	2	1	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	90321652	C	T	90321652	2	4	328	1	0	0	0	0	0	0	0	1	4235	813	29	2		2	DAPK1	9	90321652	Silent	SNP	C	TCGA-BP-5173-01A-01D-1429-08		90321652	50891779	41	16447											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113276281	113276281	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcagacacagtcttcaGgggatgtgcttccaggtgga	8	10	13	10	0	3	1	1	0	2	1	4	3	4	3	1	4	2	2	1	4	0	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	113276281	G	A	113276281	3	1	328	1	0	0	0	0	1	0	0	0	15419	1000	35	2	9825	2	SVEP1	9	113276281	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	22954629	113276281	27937150	42	16448											
DBH	1621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136522203	136522203	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccaggttcaacaacgAggatgtctgcacctgccctc	9	7	8	17	1	2	0	1	0	1	0	3	2	2	1	5	2	4	2	5	2	2	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	136522203	A	G	136522203	3	3	328	1	0	0	0	0	1	0	0	0	4250	304	11	3	1616	3	DBH	9	136522203	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	23245922	136522203	4691228	43	16449											
SEC16A	9919	broad.mit.edu;hgsc.bcm.edu	37	chr9	139370322	139370322	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacgctgccacggtaattCtggctcacagtggtctcgtc	7	10	11	13	3	3	0	1	0	2	0	5	1	3	0	1	3	1	3	1	3	1	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	139370322	C	A	139370322	3	1	328	1	0	0	0	0	1	0	0	0	13988	912	32	4	5447	4	SEC16A	9	139370322	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	2848119	139370322	1843109	44	16450											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	445051	445051	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagggcgcattccttacctTcctggtgagcggcacctcga	8	9	11	13	3	0	1	0	1	0	0	3	2	2	1	4	3	2	2	4	3	2	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	445051	T	A	445051	4	1	328	1	0	0	0	0	0	1	0	0	4529	1792	62	5	3524	5	DIP2C	10	445051	Nonsense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08		445051	135089696	45	16451											
IL2RA	3559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6067802	6067802	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagggacacttaccagagCttgtgcattgacattggttg	11	11	12	7	0	0	3	0	1	0	2	0	4	0	4	1	2	3	3	1	2	2	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	6067802	C	T	6067802	3	4	328	1	0	0	0	0	1	0	0	0	7686	797	28	2	595	2	IL2RA	10	6067802	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	5622751	6067802	129466945	46	16452											
OGDHL	55753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50947858	50947858	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaccagggcattggggCtggccatggcatagcccagc	9	5	16	11	0	0	1	0	0	0	1	0	2	0	2	3	6	2	3	3	6	1	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	50947858	C	T	50947858	3	4	328	1	0	0	0	0	1	0	0	0	10840	797	28	2	892	2	OGDHL	10	50947858	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	44880056	50947858	84586889	47	16453											
LCOR	84458	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	98715214	98715214	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagctatagctctttggtAatgggttcacaaacggagag	12	11	11	7	1	2	1	1	0	1	1	2	2	2	1	0	3	4	4	0	3	5	6	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	98715214	A	G	98715214	2	3	328	1	0	0	0	0	0	0	0	1	8689	349	13	3		3	LCOR	10	98715214	Silent	SNP	A	TCGA-BP-5173-01A-01D-1429-08	47767356	98715214	36819533	48	16454											
FAM178A	55719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102719193	102719193	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatttttaaggtgaaagaCttggtcgccaggatacatgg	12	12	12	5	1	0	2	0	1	0	1	1	4	0	3	1	4	1	0	1	4	4	6	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	102719193	C	A	102719193	3	1	328	1	0	0	0	0	1	0	0	0	5503	564	20	4	3500	4	FAM178A	10	102719193	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	4003979	102719193	32815554	49	16455											
EBF3	253738	broad.mit.edu;hgsc.bcm.edu	37	chr10	131761928	131761928	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgttggcgtccaccacGcccgccgtgtgcatccacga	5	7	12	17	6	0	0	0	0	0	0	2	1	2	0	6	1	1	2	6	1	0	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	131761928	G	A	131761928	2	1	328	1	0	0	0	0	0	0	0	1	4882	1074	38	1		1	EBF3	10	131761928	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	29042735	131761928	3772819	50	16456											
CREBZF	58487	broad.mit.edu;ucsc.edu	37	chr11	85374911	85374911	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgagcagaactccaccgAcaccttatccttgtccacat	10	8	6	17	3	0	1	0	0	0	1	3	3	3	1	6	0	2	1	6	0	2	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	85374911	C	C	85374911	3	2	328	1	0	0	0	0	1	0	0	0	3863	275	10	5	59	5	CREBZF	11	85374911	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08		85374911	49631605	51	16457											
FOLH1B	219595	broad.mit.edu;hgsc.bcm.edu	37	chr11	89429850	89429850	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactcatgtttctggaaagaGcatttattgatccattaggg	12	14	9	6	0	2	2	1	1	1	1	3	3	3	3	1	2	2	2	1	2	4	5	rs141697840	alternate_allele	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	89429850	G	C	89429850	3	2	328	1	0	0	0	0	1	0	0	0	5980	971	34	4	1138	4	FOLH1B	11	89429850	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	4054939	89429850	45576666	52	16458											
ATM	472	hgsc.bcm.edu	37	chr11	108206572	108206572	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgcttaattattctgaagGgccgtgatgacctgagacaa	12	11	10	8	1	1	4	0	4	1	1	1	5	1	4	2	1	1	1	2	1	4	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	108206572	G	C	108206572	3	2	328	1	0	0	0	0	1	0	0	0	1109	1246	43	4	8370	4	ATM	11	108206572	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	18776722	108206572	26799944	53	16459											
SDHD	6392	broad.mit.edu;hgsc.bcm.edu	37	chr11	111959648	111959648	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggttgtcagtgttttgcTcctgggtctgcttccggctg	2	15	15	9	1	2	0	1	0	1	0	4	1	4	0	2	3	2	5	2	3	0	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	111959648	T	A	111959648	3	1	328	1	0	0	0	0	1	0	0	0	13969	1551	54	5	237	5	SDHD	11	111959648	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	3753076	111959648	23046868	54	16460											
OR10G9	219870	broad.mit.edu;hgsc.bcm.edu	37	chr11	123894277	123894277	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgcccatcctgaaactGgcctgtgcagacacctcagc	9	6	9	17	1	1	2	1	1	0	1	2	2	2	2	5	1	3	2	5	1	1	0	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	123894277	G	A	123894277	2	1	328	1	0	0	0	0	0	0	0	1	10904	1335	47	2		2	OR10G9	11	123894277	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	11934629	123894277	11112239	55	16461											
VWA5A	4013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123988558	123988558	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggatgggaagaaaattgtAgcagaattacaagacaagat	18	8	12	3	0	0	4	0	0	0	4	0	6	0	6	0	2	2	2	0	2	8	3	rs150034934	byfrequency	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	123988558	A	G	123988558	2	3	328	1	0	0	0	0	0	0	0	1	17241	407	15	3		3	VWA5A	11	123988558	Silent	SNP	A	TCGA-BP-5173-01A-01D-1429-08	94281	123988558	11017958	56	16462											
GLIPR1L1	256710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	75737689	75737689	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattttgatagtctatcaTgctccagagtctgtggccat	9	15	9	8	0	3	3	1	2	2	1	4	3	4	3	2	1	1	1	2	1	2	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	75737689	T	G	75737689	3	3	328	1	0	0	0	0	1	0	0	0	6442	1464	51	5	397	5	GLIPR1L1	12	75737689	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08		75737689	58114206	57	16463											
MGAT4C	25834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	86373140	86373140	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgacatatatcctcataCaatgtatatcaaatggaatt	15	14	6	6	0	2	1	2	1	0	0	3	2	3	2	1	2	1	1	1	2	8	6	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	86373140	C	T	86373140	3	4	328	1	0	0	0	0	1	0	0	0	9547	478	17	2	76	2	MGAT4C	12	86373140	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	10635451	86373140	47478755	58	16464											
UBE3B	89910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109967774	109967774	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctgccctcattagcggaTtccgttccattatcaaaccc	9	11	6	15	2	2	0	2	0	0	0	4	1	4	1	4	1	4	2	4	1	3	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	109967774	T	A	109967774	3	1	328	1	0	0	0	0	1	0	0	0	16879	1493	52	5	2797	5	UBE3B	12	109967774	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	23594634	109967774	23884121	59	16465											
OR4K13	390433	broad.mit.edu;ucsc.edu	37	chr14	20502565	20502565	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatacctgtctattgccAtggctacaagcaacatcatc	13	10	5	13	0	2	0	1	0	1	0	3	0	2	0	2	1	6	2	2	1	6	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	20502565	G	G	20502565	3	3	328	1	0	0	0	0	1	0	0	0	11068	217	8	3	563	3	OR4K13	14	20502565	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08		20502565	86846975	60	16466											
PDIA3	2923	broad.mit.edu;hgsc.bcm.edu	37	chr15	44060741	44060741	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattactttgatggcaatctGaagagatacctgaagtctga	13	12	10	6	0	2	5	0	4	2	1	2	7	2	5	1	1	2	1	1	1	5	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	44060741	G	A	44060741	2	1	328	1	0	0	0	0	0	0	0	1	11669	1277	45	2		2	PDIA3	15	44060741	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08		44060741	58470651	61	16467											
SPATA5L1	79029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45706846	45706846	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaagggagttctcctctaTgggccccctggatgtgctaa	8	10	11	12	0	2	0	0	0	2	0	3	2	2	2	4	3	1	2	4	3	3	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	45706846	T	C	45706846	2	2	328	1	0	0	0	0	0	0	0	1	15013	1471	51	3		3	SPATA5L1	15	45706846	Silent	SNP	T	TCGA-BP-5173-01A-01D-1429-08	1646105	45706846	56824546	62	16468											
PRTG	283659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56032778	56032778	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaccatgtgaccttaatagGaacttctccgtgagcctggc	10	10	9	12	1	1	2	0	2	1	0	2	3	1	3	4	2	3	0	4	2	4	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	56032778	G	A	56032778	3	1	328	1	0	0	0	0	1	0	0	0	12640	1174	41	2	3329	2	PRTG	15	56032778	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	10325932	56032778	46498614	63	16469											
GLCE	26035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	69561171	69561171	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agccccttataagtttctatCtgagcagcatggagttaaag	12	12	9	8	0	2	1	0	1	2	0	2	2	2	2	2	1	3	4	2	1	5	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	69561171	C	G	69561171	3	3	328	1	0	0	0	0	1	0	0	0	6432	913	32	4	1452	4	GLCE	15	69561171	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	13528393	69561171	32970221	64	16470											
LASS3	0	broad.mit.edu;hgsc.bcm.edu	37	chr15	100943022	100943022	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agcctcttcttcttcctcttCctcttcctcttcataatcct	4	19	1	17	0	7	0	1	0	6	0	11	0	11	0	5	0	1	0	5	0	1	7	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	100943022	C	G	100943022	3	3	328	1	0	0	0	0	1	0	0	0	8640	864	30	4	107	4	LASS3	15	100943022	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	31381851	100943022	1588370	65	16471											
CHST4	10164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71570904	71570904	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtgcgacatgagcgtCtttgatgcctacatggaacc	8	13	10	10	2	2	2	0	2	2	0	2	4	2	3	2	1	5	0	2	1	2	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	71570904	C	A	71570904	2	1	328	1	0	0	0	0	0	0	0	1	3406	900	32	4		4	CHST4	16	71570904	Silent	SNP	C	TCGA-BP-5173-01A-01D-1429-08		71570904	18783849	66	16472											
CHST5	23563	hgsc.bcm.edu	37	chr16	75564068	75564068	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagaaggatgagcccgagCgccacgaggacagcaccagc	13	1	13	14	3	0	2	0	1	0	1	0	6	0	4	4	2	4	1	4	2	2	0	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	75564068	C	T	75564068	3	4	328	1	0	0	0	0	1	0	0	0	3407	768	27	1	1024	1	CHST5	16	75564068	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	3993164	75564068	14790685	67	16473											
MAF	4094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	79633710	79633710	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggttcctttttcacttcAaacttcatcagatcgaagtc	10	14	5	12	2	4	1	4	0	0	1	7	2	5	1	2	1	1	1	2	1	2	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	79633710	A	G	79633710	2	3	328	1	0	0	0	0	0	0	0	1	9155	127	5	3		3	MAF	16	79633710	Silent	SNP	A	TCGA-BP-5173-01A-01D-1429-08	4069642	79633710	10721043	68	16474											
OR1D2	4991	broad.mit.edu;hgsc.bcm.edu	37	chr17	2996190	2996190	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccgtgaccaggtacAtggacaggaacatccaaaac	15	4	8	14	1	0	1	0	1	0	0	1	3	1	3	5	3	3	1	5	3	4	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	2996190	A	G	2996190	3	3	328	1	0	0	0	0	1	0	0	0	10953	217	8	3	840	3	OR1D2	17	2996190	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08		2996190	78199020	69	16475											
C17orf98	388381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36997521	36997521	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgcgcgttgtagggcGgaatcgccgaccacagcttg	6	8	14	13	5	0	0	0	0	0	0	1	2	0	1	3	2	3	4	3	2	2	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	36997521	G	A	36997521	3	1	328	1	0	0	0	0	1	0	0	0	1893	1116	39	1	354	1	C17orf98	17	36997521	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	34001331	36997521	44197689	70	16476											
C17orf53	78995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42232723	42232723	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacaacctggtccatattTacagcccggattctggggat	10	10	9	12	1	1	0	0	0	1	0	2	2	2	2	4	4	4	0	4	4	4	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	42232723	T	A	42232723	3	1	328	1	0	0	0	0	1	0	0	0	1862	1754	61	5	1747	5	C17orf53	17	42232723	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	5235202	42232723	38962487	71	16477											
ZNF652	22834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	47388778	47388778	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caatatgaatgctcatgtggGagcgtagctggtacttgtac	10	12	12	7	1	1	1	1	1	0	0	1	2	1	2	0	2	5	5	0	2	6	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	47388778	G	T	47388778	3	4	328	1	0	0	0	0	1	0	0	0	18064	1174	41	4	623	4	ZNF652	17	47388778	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	5156055	47388778	33806432	72	16478											
BZRAP1	9256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56395795	56395795	+	Missense_Mutation	SNP	C	C	T																															gggtgcagcgcccaggggagCccggcgggaggtcaaggtct																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	56395795	C	T	56395795	3	4	328	1	0	0	0	0	1	0	0	0	1577	739	26	2	3927	2	BZRAP1	17	56395795	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	9007017	56395795	24799415	73	16479	218	2									
BZRAP1	9256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56395796	56395796	+	Missense_Mutation	SNP	C	C	T																															ggtgcagcgcccaggggagcCcggcgggaggtcaaggtcta																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	56395796	C	T	56395796	3	4	328	1	0	0	0	0	1	0	0	0	1577	623	22	2	3928	2	BZRAP1	17	56395796	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	1	56395796	24799414	74	16480	218	2									
COG1	9382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	71197742	71197742	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcagagctacagagcatTgaagagggtgtgcaagggca	12	5	17	7	1	0	4	0	1	0	3	0	4	0	4	0	3	4	5	0	3	3	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	71197742	T	C	71197742	2	2	328	1	0	0	0	0	0	0	0	1	3657	1800	63	3		3	COG1	17	71197742	Silent	SNP	T	TCGA-BP-5173-01A-01D-1429-08	14801946	71197742	9997468	75	16481											
THOC1	9984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	214641	214641	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagctaactatttgtctcAttgtcattagttagactttc	11	17	6	7	0	2	2	2	0	1	2	4	2	2	2	0	0	2	2	0	0	5	7	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	214641	A	C	214641	3	2	328	1	0	0	0	0	1	0	0	0	15863	214	8	5	18	5	THOC1	18	214641	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08		214641	77862607	76	16482											
MYO5B	4645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47463681	47463681	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggtctggcagaacggacGctgatcttcgaagatgaccc	9	7	15	10	3	2	4	0	2	2	2	3	6	2	5	1	4	1	2	1	4	2	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	47463681	G	A	47463681	2	1	328	1	0	0	0	0	0	0	0	1	10079	1078	38	1		1	MYO5B	18	47463681	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	47249040	47463681	30613567	77	16483											
SERPINB5	5268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61154236	61154236	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatttcaaacagtaacatcgGatgtaaacaaacttagttcc	16	11	6	8	1	1	0	1	0	0	0	3	2	2	1	1	1	4	3	1	1	6	5	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	61154236	G	A	61154236	3	1	328	1	0	0	0	0	1	0	0	0	14106	1174	41	2	232	2	SERPINB5	18	61154236	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	13690555	61154236	16923012	78	16484											
TMEM146	0	hgsc.bcm.edu;ucsc.edu	37	chr19	5749189	5749191	+	In_Frame_Del	DEL	ATC	ATC	-																															gcatcgtgccaagttccataAtcaaagtaggtaaaaagaaa																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		-	5749191	ATC	-	5749189	7	5	328	1	0	1	0	1	0	0	0	0	16059	101	4	0	1024	0	TMEM146	19	5749189	In_Frame_Del	DEL	ATC	TCGA-BP-5173-01A-01D-1429-08		5749189	53379794	79	16485											
ZNF560	147741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9578114	9578114	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagttctcaaatgagcaaaAagagatgagaaagaaacaaa	22	6	9	4	0	1	5	1	3	1	3	2	7	1	5	0	0	2	2	0	0	6	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	9578114	A	C	9578114	2	2	328	1	0	0	0	0	0	0	0	1	17990	1	1	5		5	ZNF560	19	9578114	Silent	SNP	A	TCGA-BP-5173-01A-01D-1429-08	3828925	9578114	49550869	80	16486											
PLVAP	83483	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17487791	17487791	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgcggcgagcattcaGccacatctgcatgatggcat	9	8	12	12	3	2	1	1	1	1	0	3	2	2	1	1	3	3	3	1	3	0	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	17487791	G	T	17487791	3	4	328	1	0	0	0	0	1	0	0	0	12116	962	34	4	1045	4	PLVAP	19	17487791	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	7909677	17487791	41641192	81	16487											
MAP1S	55201	broad.mit.edu	37	chr19	17836823	17836823	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctgagggcctgtgcgaattCctggagtacgtggctgagtc	6	11	15	9	2	1	2	0	2	1	0	3	4	2	3	2	3	2	2	2	3	2	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	17836823	T	T	17836823	2	4	328	1	0	0	0	0	0	0	0	1	9234	854	30	2		2	MAP1S	19	17836823	Silent	SNP	C	TCGA-BP-5173-01A-01D-1429-08	349032	17836823	41292160	82	16488											
KIAA1683	80726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18376414	18376414	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtctacaggcacatacacgtGaggtggcttgtccccttcct	7	11	10	13	1	1	1	0	1	1	0	3	1	3	1	3	3	2	2	3	3	2	4	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	18376414	G	C	18376414	3	2	328	1	0	0	0	0	1	0	0	0	8251	1290	45	4	2175	4	KIAA1683	19	18376414	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	539591	18376414	40752569	83	16489											
DPY19L3	147991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	32968514	32968514	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgggaaggaccctaaccaAccacccgcactatgaagaca	15	3	8	15	2	0	2	0	1	0	1	0	4	0	4	4	2	2	1	4	2	5	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		G	32968514	A	G	32968514	3	3	328	1	0	0	0	0	1	0	0	0	4742	43	2	3	1846	3	DPY19L3	19	32968514	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	14592100	32968514	26160469	84	16490											
ARHGAP33	115703	hgsc.bcm.edu;ucsc.edu	37	chr19	36275074	36275074	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcccgctcctcccacccagGtccatggagctggagtcagt	6	8	10	17	1	1	0	1	0	0	0	5	2	5	2	5	3	1	2	5	3	0	0	rs62112163	bycluster;byfrequency;by1000genomes	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	36275074	G	A	36275074	2	1	328	1	0	0	0	0	0	0	0	1	882	1275	44	2		2	ARHGAP33	19	36275074	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	3306560	36275074	22853909	85	16491											
ZNF761	388561	broad.mit.edu;hgsc.bcm.edu	37	chr19	53958116	53958116	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgacaaaaatcaaaaagTtgacaggtattacagaacga	20	7	7	7	1	1	3	1	2	0	1	1	4	1	3	1	1	2	2	1	1	7	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	53958116	T	A	53958116	3	1	328	1	0	0	0	0	1	0	0	0	18135	1722	60	5	366	5	ZNF761	19	53958116	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	17683042	53958116	5170867	86	16492											
LILRB3	11025	hgsc.bcm.edu	37	chr19	54726241	54726241	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccctgcatggtgctctgtCatggatgggatggagaatct	7	12	13	9	0	3	1	1	0	2	1	4	4	4	3	1	4	2	2	1	4	1	0	rs77279742	bycluster;by1000genomes	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	54726241	C	T	54726241	3	4	328	1	0	0	0	0	1	0	0	0	8792	826	29	2	1678	2	LILRB3	19	54726241	Missense_Mutation	SNP	C	TCGA-BP-5173-01A-01D-1429-08	768125	54726241	4402742	87	16493											
HMOX1	3162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	35783139	35783139	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcagagggtgatagaagaGgccaagactgcgttcctgct	11	7	15	8	1	0	5	0	1	0	4	1	5	1	5	2	3	2	3	2	3	3	2	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	35783139	G	T	35783139	3	4	328	1	0	0	0	0	1	0	0	0	7243	991	35	4	616	4	HMOX1	22	35783139	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08		35783139	15521427	88	16494											
FBLN1	2192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45938163	45938163	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcagcaggatgtgtgtcGgtgcgtggggggccccgcag	5	7	19	10	3	1	0	1	0	0	0	2	1	1	1	2	5	2	3	2	5	0	0	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	45938163	G	A	45938163	3	1	328	1	0	0	0	0	1	0	0	0	5698	1130	39	1	1233	1	FBLN1	22	45938163	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	10155024	45938163	5366403	89	16495											
SAT1	6303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	23803813	23803813	+	Missense_Mutation	SNP	G	G	A																															ctcataataggttgcaatgaGgtgtcgctgcagcagcatgc																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	23803813	G	A	23803813	3	1	328	1	0	0	0	0	1	0	0	0	13853	1000	35	2	378	2	SAT1	23	23803813	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08		23803813	131466747	90	16496	219	2									
SAT1	6303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	23803814	23803814	+	Silent	SNP	G	G	A																															tcataataggttgcaatgagGtgtcgctgcagcagcatgca																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	23803814	G	A	23803814	2	1	328	1	0	0	0	0	0	0	0	1	13853	1252	44	2		2	SAT1	23	23803814	Silent	SNP	G	TCGA-BP-5173-01A-01D-1429-08	1	23803814	131466746	91	16497	219	2									
HDAC6	10013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48674583	48674583	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccagcgcatcttgcggaTcatgtgccgtctggaggagc	7	8	13	13	3	3	0	1	0	2	0	3	3	3	3	3	3	4	1	3	3	0	1	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		C	48674583	T	C	48674583	3	2	328	1	0	0	0	0	1	0	0	0	7011	1435	50	3	1595	3	HDAC6	23	48674583	Missense_Mutation	SNP	T	TCGA-BP-5173-01A-01D-1429-08	24870769	48674583	106595977	92	16498											
OGT	8473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70756094	70756094	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatcgagaatatcaggcagGagattttgaggcagctgaga	14	8	13	6	1	1	4	1	2	0	3	2	7	1	4	0	3	1	3	0	3	2	3	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	70756094	G	T	70756094	3	4	328	1	0	0	0	0	1	0	0	0	10847	1174	41	4	110	4	OGT	23	70756094	Missense_Mutation	SNP	G	TCGA-BP-5173-01A-01D-1429-08	22081511	70756094	84514466	93	16499											
MAGEA12	4111	broad.mit.edu	37	chrX	151896334	151896334	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggtccctgttcccttccGggttgtcttggcaacctgga	4	12	12	13	2	1	0	0	0	1	0	4	1	4	1	4	4	1	3	4	4	1	4	rs2515828	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		A	151896334	A	A	151896334	1	1	328	0	1	0	0	0	0	0	0	0	9166	1131	39	1		1	MAGEA12	23	151896334	RNA	SNP	G	TCGA-BP-5173-01A-01D-1429-08	81140240	151896334	3374226	94	16500											
FLNA	2316	broad.mit.edu	37	chrX	153599613	153599613	+	Frame_Shift_Del	DEL	T	-	-																															ccgagagtgggagctactcaTtttgaggcgcgagaagccgg																								novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		-	153599613	-	-	153599613	7	5	328	1	0	1	0	1	0	0	0	0	5933	1493	52	0	8130	0	FLNA	23	153599613	Frame_Shift_Del	DEL	T	TCGA-BP-5173-01A-01D-1429-08	1703279	153599613	1670947	95	16501											
F8	2157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	154157680	154157680	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggttagaatggctaaagaaAggttattttttttggctcct	11	16	10	4	0	0	2	0	0	0	2	1	2	1	2	1	4	0	4	1	4	6	7	novel		TCGA-BP-5173-01A-01D-1429-08	TCGA-BP-5173-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ce0a5fc-09ae-412a-8a5b-56d9a44433aa	e8cec496-e3ba-4927-8c01-cb8ad45b56b6		T	154157680	A	T	154157680	3	4	328	1	0	0	0	0	1	0	0	0	5350	72	3	5	2750	5	F8	23	154157680	Missense_Mutation	SNP	A	TCGA-BP-5173-01A-01D-1429-08	558067	154157680	1112880	96	16502											
MFAP2	4237	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17303611	17303611	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaaggcccttaccgatctgGtcgctatagtgggtgtactg	7	11	13	10	2	1	0	0	0	1	0	2	1	1	0	2	3	2	3	2	3	5	4	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		C	17303611	G	C	17303611	3	2	329	1	0	0	0	0	1	0	0	0	9514	1252	44	4	459	4	MFAP2	1	17303611	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08		17303611	231947010	1	16503											
GRHL3	57822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24666207	24666207	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcacattgaggaggtggcCtataatgcactgtcctttgt	9	12	12	8	0	0	1	0	1	0	0	1	3	1	2	2	3	2	2	2	3	2	4	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	24666207	C	G	24666207	2	3	329	1	0	0	0	0	0	0	0	1	6765	668	24	4		4	GRHL3	1	24666207	Silent	SNP	C	TCGA-BP-5174-01A-01D-1429-08	7362596	24666207	224584414	2	16504											
TMEM39B	55116	broad.mit.edu	37	chr1	32557586	32557586	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgagcgcctactatgtgGcctttgtgcctgtctggttc	3	15	12	11	1	1	1	0	1	1	0	2	1	1	1	3	2	4	2	3	2	2	4	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	32557586	T	T	32557586	3	4	329	1	0	0	0	0	1	0	0	0	16161	1203	42	4	923	4	TMEM39B	1	32557586	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08	7891379	32557586	216693035	3	16505											
PIGK	10026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	77627328	77627328	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagctagagccattatgttaGgagaataaaatcgttcatac	15	12	8	6	1	1	2	1	0	0	2	2	3	1	2	1	1	3	3	1	1	8	7	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	77627328	G	T	77627328	3	4	329	1	0	0	0	0	1	0	0	0	11890	1000	35	4	554	4	PIGK	1	77627328	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08	45069742	77627328	171623293	4	16506											
SASS6	163786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100571393	100571393	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaggcggagtagtagaaGgtcccaatacatcttgcttt	10	11	12	8	1	1	1	0	0	1	1	2	2	2	2	1	3	3	4	1	3	5	5	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	100571393	G	T	100571393	3	4	329	1	0	0	0	0	1	0	0	0	13852	1000	35	4	518	4	SASS6	1	100571393	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08	22944065	100571393	148679228	5	16507											
ZNF687	57592	broad.mit.edu	37	chr1	151262327	151262328	+	Frame_Shift_Ins	INS	-	C	C																															aagtacccagctcccctgagINScccccccgtccagccaaacg																								novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		C	151262328	C	C	151262327	7	5	329	1	0	1	1	0	0	0	0	0	18091	962	34	0	2826	0	ZNF687	1	151262327	Frame_Shift_Ins	INS	-	TCGA-BP-5174-01A-01D-1429-08	50690934	151262327	97988294	6	16508											
DISC1	27185	broad.mit.edu;hgsc.bcm.edu	37	chr1	231829671	231829671	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagggcctgggatcgggtTcctttccccagcagtgggca	6	8	15	12	1	0	0	0	0	0	0	3	2	2	1	4	4	1	3	4	4	0	2	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	231829671	T	A	231829671	3	1	329	1	0	0	0	0	1	0	0	0	4538	1783	62	5	173	5	DISC1	1	231829671	Missense_Mutation	SNP	T	TCGA-BP-5174-01A-01D-1429-08	80567344	231829671	17420950	7	16509											
TEKT4	150483	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	95537442	95537442	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccgcacctccaagtacCtgctggaggagtggttccag	7	9	12	13	1	0	0	0	0	0	0	3	2	3	2	5	3	2	5	5	3	2	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	95537442	C	A	95537442	3	1	329	1	0	0	0	0	1	0	0	0	15754	680	24	4	120	4	TEKT4	2	95537442	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08		95537442	147661931	8	16510											
DNAJC10	54431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	183601013	183601013	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggatggatggactgtgccaCccaggataacctttgtaaaa	13	9	11	8	0	0	0	0	0	0	0	0	4	0	4	3	4	2	1	3	4	3	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	183601013	C	T	183601013	3	4	329	1	0	0	0	0	1	0	0	0	4629	507	18	2	921	2	DNAJC10	2	183601013	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	88063571	183601013	59598360	9	16511											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188204	10188219	+	Frame_Shift_Del	DEL	TTTGGCTCTTCAGAGA	TTTGGCTCTTCAGAGA	-																															gcttgtcccgataggtcaccTttggctcttcagagatgcag																								novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	TTTGGCTCTTCAGAGA	TTTGGCTCTTCAGAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		-	10188219	TTTGGCTCTTCAGAGA	-	10188204	7	5	329	1	0	1	0	1	0	0	0	0	17161	1609	56	0	353	0	VHL	3	10188204	Frame_Shift_Del	DEL	TTTGGCTCTTCAGAGA	TCGA-BP-5174-01A-01D-1429-08		10188204	187834226	10	16512											
BAP1	8314	broad.mit.edu	37	chr3	52436397	52436397	+	Frame_Shift_Del	DEL	C	-	-																															atgctgaccccttggcgccgCcgcacggagatgttctgctc																								novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		-	52436397	-	-	52436397	7	5	329	1	0	1	0	1	0	0	0	0	1311	726	26	0	96	0	BAP1	3	52436397	Frame_Shift_Del	DEL	C	TCGA-BP-5174-01A-01D-1429-08	42248193	52436397	145586033	11	16513											
TRAT1	50852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	108572551	108572551	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaggaaacagaatactCatttctcagacaaggatgga	16	7	9	9	0	2	2	2	0	1	2	3	5	2	5	1	3	3	0	1	3	4	2	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	108572551	C	A	108572551	3	1	329	1	0	0	0	0	1	0	0	0	16465	826	29	4	410	4	TRAT1	3	108572551	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	56136154	108572551	89449879	12	16514											
DHX36	170506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154022915	154022915	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccactgaaggatgattccTgttgtacagtataagataga	14	11	10	6	0	0	4	0	2	0	2	1	5	1	5	2	1	2	3	2	1	5	6	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	154022915	T	A	154022915	2	1	329	1	0	0	0	0	0	0	0	1	4509	1567	55	5		5	DHX36	3	154022915	Silent	SNP	T	TCGA-BP-5174-01A-01D-1429-08	45450364	154022915	43999515	13	16515											
SH3TC1	54436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8217896	8217896	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccttctggctgctcttGcccagtgaggaggaggagac	7	8	15	11	0	2	2	0	1	2	1	2	5	2	4	2	5	2	2	2	5	0	2	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	8217896	G	T	8217896	3	4	329	1	0	0	0	0	1	0	0	0	14263	1310	46	4	558	4	SH3TC1	4	8217896	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08		8217896	182936380	14	16516											
C4orf37	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	98902354	98902354	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtgaatcgaacagcaCtttgaccaaatggaatattt	13	12	8	8	1	0	2	0	2	0	0	1	4	0	3	2	1	2	1	2	1	5	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	98902354	C	T	98902354	3	4	329	1	0	0	0	0	1	0	0	0	2267	565	20	2	675	2	C4orf37	4	98902354	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	90684458	98902354	92251922	15	16517											
TACR3	6870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	104512654	104512654	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttttaccttttattcaGacagcagtagatgatgggat	10	17	9	5	0	1	3	1	1	0	2	1	4	1	4	1	1	2	3	1	1	3	8	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	104512654	G	T	104512654	3	4	329	1	0	0	0	0	1	0	0	0	15506	933	33	4	330	4	TACR3	4	104512654	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08	5610300	104512654	86641622	16	16518											
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	126328192	126328192	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgctgatgatggtcttcagtCctcggatatgagaattaata	11	14	10	6	1	2	3	1	3	1	1	4	5	3	4	1	2	1	1	1	2	4	4	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	126328192	C	T	126328192	3	4	329	1	0	0	0	0	1	0	0	0	5692	855	30	2	5475	2	FAT4	4	126328192	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	21815538	126328192	64826084	17	16519											
SLC35A4	113829	broad.mit.edu;ucsc.edu	37	chr5	139947164	139947164	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctctgcctccggcaccGcctctctgtgcgtcaggggt	2	10	12	17	3	3	0	1	0	2	0	5	0	4	0	5	3	3	1	5	3	0	0	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	139947164	T	T	139947164	3	4	329	1	0	0	0	0	1	0	0	0	14575	1087	38	4	412	4	SLC35A4	5	139947164	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08		139947164	40968096	18	16520											
RSPH9	221421	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43613007	43613007	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcctcgtcgccgattacTacatcgcgcagggcctgagt	6	10	12	13	5	0	1	0	1	0	0	3	2	0	1	3	2	2	1	3	2	2	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		C	43613007	T	C	43613007	3	2	329	1	0	0	0	0	1	0	0	0	13710	1522	53	3	174	3	RSPH9	6	43613007	Missense_Mutation	SNP	T	TCGA-BP-5174-01A-01D-1429-08		43613007	127502060	19	16521											
SNX14	57231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	86258029	86258029	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagtcttactggatcagctAggaaatccaaagaaggaagg	16	8	11	6	0	2	1	1	0	1	1	3	4	3	4	1	4	2	1	1	4	7	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	86258029	A	G	86258029	3	3	329	1	0	0	0	0	1	0	0	0	14887	420	15	3	2067	3	SNX14	6	86258029	Missense_Mutation	SNP	A	TCGA-BP-5174-01A-01D-1429-08	42645022	86258029	84857038	20	16522											
SLC22A16	85413	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	110763477	110763477	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtttaagtattcattgcCtcctaagttaacagaattca	13	14	7	7	0	2	1	2	0	0	1	3	2	3	1	2	1	2	3	2	1	5	8	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	110763477	C	T	110763477	3	4	329	1	0	0	0	0	1	0	0	0	14449	681	24	2	600	2	SLC22A16	6	110763477	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	24505448	110763477	60351590	21	16523											
PKD1L1	168507	broad.mit.edu;hgsc.bcm.edu	37	chr7	47869026	47869026	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggtaattttttttactttTtcaacctcgcctgcacagtc	8	18	5	10	1	1	0	1	0	0	0	3	0	1	0	2	1	3	2	2	1	4	8	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	47869026	T	G	47869026	3	3	329	1	0	0	0	0	1	0	0	0	11964	1838	64	5	1873	5	PKD1L1	7	47869026	Missense_Mutation	SNP	T	TCGA-BP-5174-01A-01D-1429-08		47869026	111269637	22	16524											
TMEM168	64418	hgsc.bcm.edu;ucsc.edu	37	chr7	112412960	112412960	+	Frame_Shift_Del	DEL	A	A	-																															agtttggaatgcagagtatcAaatgacagtccacttgtgga																								novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		-	112412960	A	-	112412960	7	5	329	1	0	1	0	1	0	0	0	0	16082	127	5	0	679	0	TMEM168	7	112412960	Frame_Shift_Del	DEL	A	TCGA-BP-5174-01A-01D-1429-08	64543934	112412960	46725703	23	16525											
RBM28	55131	broad.mit.edu;hgsc.bcm.edu	37	chr7	127979814	127979814	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttccagcattgaaaaagtGacatagccaaagcctcgaca	15	8	7	11	1	1	2	0	2	1	0	3	3	2	2	3	0	3	1	3	0	4	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	127979814	G	A	127979814	2	1	329	1	0	0	0	0	0	0	0	1	13130	1277	45	2		2	RBM28	7	127979814	Silent	SNP	G	TCGA-BP-5174-01A-01D-1429-08	15566854	127979814	31158849	24	16526											
AKR1B15	441282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134261744	134261744	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttccatatccagaggaaTgtgacagtgatccccaagtc	11	10	9	11	1	0	3	0	2	0	1	4	4	3	4	4	1	0	1	4	1	3	2	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	134261744	T	G	134261744	3	3	329	1	0	0	0	0	1	0	0	0	468	1461	51	5	885	5	AKR1B15	7	134261744	Missense_Mutation	SNP	T	TCGA-BP-5174-01A-01D-1429-08	6281930	134261744	24876919	25	16527											
PTPRN2	5799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	157475557	157475557	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggatgcaggcgagggagaCcagggtgagcgcgatgaact	11	4	18	8	3	0	3	0	2	0	1	0	7	0	4	1	4	3	1	1	4	1	0	rs144004975	alternate_allele	TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	157475557	C	G	157475557	3	3	329	1	0	0	0	0	1	0	0	0	12810	507	18	4	1230	4	PTPRN2	7	157475557	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	23213813	157475557	1663106	26	16528											
DPYS	1807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	105456595	105456595	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgtggcctctgcctccActgcctctgggcggcacagc	4	8	12	17	2	3	0	1	0	2	0	4	0	4	0	4	3	4	1	4	3	0	0	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	105456595	A	G	105456595	3	3	329	1	0	0	0	0	1	0	0	0	4746	159	6	3	909	3	DPYS	8	105456595	Missense_Mutation	SNP	A	TCGA-BP-5174-01A-01D-1429-08		105456595	40907427	27	16529											
APBA1	320	broad.mit.edu	37	chr9	72131197	72131197	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcagcccggggctgtcgggGcgacccccggccggggtagg	3	4	20	14	5	0	0	0	0	0	0	1	1	0	0	4	8	2	3	4	8	1	1	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	72131197	A	A	72131197	2	1	329	1	0	0	0	0	0	0	0	1	756	1190	42	2		2	APBA1	9	72131197	Silent	SNP	G	TCGA-BP-5174-01A-01D-1429-08		72131197	69082234	28	16530											
SMC5	23137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	72897437	72897437	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaagggcagattcctgtaAcatgtcgaattgaagaaatg	16	9	11	5	1	0	4	0	1	0	3	2	5	1	4	1	1	1	2	1	1	6	3	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		C	72897437	A	C	72897437	3	2	329	1	0	0	0	0	1	0	0	0	14788	43	2	5	945	5	SMC5	9	72897437	Missense_Mutation	SNP	A	TCGA-BP-5174-01A-01D-1429-08	766240	72897437	68315994	29	16531											
FAM188A	80013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	15879243	15879243	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagaaaaagcaatactccaAatttatttccccacattgaa	18	10	3	10	0	0	2	0	1	0	1	2	2	2	2	3	0	2	1	3	0	7	5	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		G	15879243	A	G	15879243	3	3	329	1	0	0	0	0	1	0	0	0	5514	14	1	3	841	3	FAM188A	10	15879243	Missense_Mutation	SNP	A	TCGA-BP-5174-01A-01D-1429-08		15879243	119655504	30	16532											
MICAL2	9645	hgsc.bcm.edu	37	chr11	12243299	12243299	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccctcccctggagctgctgGctgaaaggtgagctttgaca	7	9	12	13	0	0	3	0	3	0	0	1	4	1	4	4	3	3	4	4	3	1	1	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	12243299	G	A	12243299	3	1	329	1	0	0	0	0	1	0	0	0	9570	1203	42	2	1345	2	MICAL2	11	12243299	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08		12243299	122763217	31	16533											
C11orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33566837	33566837	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaacacagatgctgtccttCctgctgcatcggctgcagtg	9	10	10	12	1	0	1	0	0	0	1	3	1	2	1	2	1	5	5	2	1	2	1	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	33566837	C	T	33566837	3	4	329	1	0	0	0	0	1	0	0	0	1640	855	30	2	2431	2	C11orf41	11	33566837	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08	21323538	33566837	101439679	32	16534											
ELK3	2004	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	96640767	96640767	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgtacaagtttgtctCtttcccggagatcctgaaga	8	15	10	8	1	1	3	0	1	1	2	4	4	3	3	2	1	1	3	2	1	3	4	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	96640767	C	A	96640767	3	1	329	1	0	0	0	0	1	0	0	0	5060	913	32	4	263	4	ELK3	12	96640767	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08		96640767	37211128	33	16535											
MYH7	4625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23894489	23894489	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctcttgagatctctcAcctacgttccagcagctttt	7	14	5	15	1	3	1	1	1	2	1	6	2	5	1	4	0	3	3	4	0	1	5	rs111726379	bycluster	TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	23894489	A	T	23894489	5	4	329	1	0	0	0	0	0	0	1	0	10039	173	6	5	3462	5	MYH7	14	23894489	Splice_Site	SNP	A	TCGA-BP-5174-01A-01D-1429-08		23894489	83455051	34	16536											
SLC38A8	146167	hgsc.bcm.edu;ucsc.edu	37	chr16	84066953	84066953	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cttgtgtatttctggaaggcGatctcccgcggggcagacag	7	10	14	10	3	2	1	0	0	2	1	3	3	2	2	1	4	0	2	1	4	2	3	rs142587413	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		C	84066953	G	C	84066953	3	2	329	1	0	0	0	0	1	0	0	0	14612	1048	37	4	829	4	SLC38A8	16	84066953	Missense_Mutation	SNP	G	TCGA-BP-5174-01A-01D-1429-08		84066953	6287800	35	16537											
LILRA2	11027	broad.mit.edu	37	chr19	55086976	55086976	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcacacaacctctcctcCgagtggtcggcccccagtga	8	7	10	16	2	1	1	0	1	1	0	4	2	2	1	5	2	2	1	5	2	1	0	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	55086976	T	T	55086976	2	4	329	1	0	0	0	0	0	0	0	1	8785	639	23	1		1	LILRA2	19	55086976	Silent	SNP	C	TCGA-BP-5174-01A-01D-1429-08		55086976	4042007	36	16538											
ADIG	149685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37214721	37214721	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggattgggagccctggagCaaaggcccagctgagttttg	8	10	15	8	0	0	1	0	1	0	0	0	4	0	4	2	4	3	3	2	4	1	4	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	37214721	C	A	37214721	3	1	329	1	0	0	0	0	1	0	0	0	316	709	25	4	180	4	ADIG	20	37214721	Missense_Mutation	SNP	C	TCGA-BP-5174-01A-01D-1429-08		37214721	25810799	37	16539											
C20orf108	0	hgsc.bcm.edu;ucsc.edu	37	chr20	54941313	54941314	+	Frame_Shift_Ins	INS	-	-	T																															gatattttcgaaaagtgggaINSttttttaaacctccagctgc																								novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		T	54941314	-	T	54941313	7	5	329	1	0	1	1	0	0	0	0	0	2078	320	12	0	559	0	C20orf108	20	54941313	Frame_Shift_Ins	INS	-	TCGA-BP-5174-01A-01D-1429-08	17726592	54941313	8084207	38	16540											
DSCAM	1826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	41385099	41385099	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctgaggtaatgtggccacGgcccccggctgccacgactg	6	6	14	15	4	0	1	0	1	0	0	0	2	0	1	4	4	1	3	4	4	1	1	novel		TCGA-BP-5174-01A-01D-1429-08	TCGA-BP-5174-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	53b5cf8d-f3cf-4e7e-91ec-b0c907d1c13f	7ad1d38e-234e-42e5-8518-258dc6c72e00		A	41385099	G	A	41385099	2	1	329	1	0	0	0	0	0	0	0	1	4768	1103	39	1		1	DSCAM	21	41385099	Silent	SNP	G	TCGA-BP-5174-01A-01D-1429-08		41385099	6744796	39	16541											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11217299	11217299	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcttgtcataggccacaAgggcatcctcccactcgtgc	7	12	8	14	1	2	0	1	0	1	0	5	0	4	0	3	2	1	1	3	2	2	4	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	11217299	A	G	11217299	3	3	330	1	0	0	0	0	1	0	0	0	9954	72	3	3	3386	3	MTOR	1	11217299	Missense_Mutation	SNP	A	TCGA-BP-5175-01A-01D-1429-08		11217299	238033322	1	16542											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19455528	19455528	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtaattgaggcagggtctGcagtaatctctccaacagca	11	10	10	10	1	2	1	0	1	2	0	5	1	3	1	1	2	3	5	1	2	3	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	19455528	G	A	19455528	4	1	330	1	0	0	0	0	0	1	0	0	16903	1328	46	2	6788	2	UBR4	1	19455528	Nonsense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08	8238229	19455528	229795093	2	16543											
COL24A1	255631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86453338	86453338	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatatctcctggaaaaccCtagggaatataaaaatgtag	17	9	7	8	0	1	0	0	0	1	0	2	2	1	2	3	2	1	1	3	2	11	5	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	86453338	C	A	86453338	5	1	330	1	0	0	0	0	0	0	1	0	3683	695	24	4	2998	4	COL24A1	1	86453338	Splice_Site	SNP	C	TCGA-BP-5175-01A-01D-1429-08	66997810	86453338	162797283	3	16544											
GPATCH4	54865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156565621	156565621	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaagcttggccttcattGtgatcccaagacgggcagcc	9	8	12	12	1	1	2	1	1	0	1	2	3	2	2	3	2	3	3	3	2	2	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	156565621	G	T	156565621	3	4	330	1	0	0	0	0	1	0	0	0	6593	1377	48	4	619	4	GPATCH4	1	156565621	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08	70112283	156565621	92685000	4	16545											
DEDD	9191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161093979	161093979	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggtcgtggcgagtgaTgatgcgcagcagctgcagca	9	6	16	10	3	0	2	0	2	0	0	1	3	0	2	0	2	6	6	0	2	0	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	161093979	T	A	161093979	3	1	330	1	0	0	0	0	1	0	0	0	4384	1464	51	5	698	5	DEDD	1	161093979	Missense_Mutation	SNP	T	TCGA-BP-5175-01A-01D-1429-08	4528358	161093979	88156642	5	16546											
PCP4L1	654790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161254256	161254256	+	Frame_Shift_Del	DEL	G	G	-																															cgatttcagaaaaggaaaaaGgatcccagctcctgaatggc																								novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		-	161254256	G	-	161254256	7	5	330	1	0	1	0	1	0	0	0	0	11599	991	35	0	202	0	PCP4L1	1	161254256	Frame_Shift_Del	DEL	G	TCGA-BP-5175-01A-01D-1429-08	160277	161254256	87996365	6	16547											
KIDINS220	57498	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	8953448	8953448	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttgtaacatgcccacatAagagctgtccatcctcccta	10	11	5	15	0	0	1	0	0	0	1	3	1	3	1	5	0	3	2	5	0	3	4	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		C	8953448	A	C	8953448	2	2	330	1	0	0	0	0	0	0	0	1	8271	349	13	5		5	KIDINS220	2	8953448	Silent	SNP	A	TCGA-BP-5175-01A-01D-1429-08		8953448	234245925	7	16548											
C2orf49	79074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	105959481	105959481	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatcaaattcctcttcgaGtgtttcacccctaattttgt	9	18	4	10	1	3	0	2	0	1	0	5	1	4	0	3	0	0	1	3	0	3	7	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	105959481	G	A	105959481	3	1	330	1	0	0	0	0	1	0	0	0	2171	1029	36	2	453	2	C2orf49	2	105959481	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08	97006033	105959481	137239892	8	16549											
GPR17	2840	broad.mit.edu	37	chr2	128407597	128407597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgtcaggatgtccaaacGgagttggtgggctggatcca	9	9	14	9	1	1	0	1	0	0	0	3	3	3	3	3	5	1	2	3	5	1	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	128407597	A	A	128407597	3	1	330	1	0	0	0	0	1	0	0	0	6667	1116	39	1	13	1	GPR17	2	128407597	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08	22448116	128407597	114791776	9	16550											
ZNF804A	91752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	185802977	185802977	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatgaaaagcaaattcctTttcaggtgcctaatattgaa	15	14	6	6	0	1	2	1	2	0	0	2	2	2	2	2	1	2	1	2	1	7	7	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		C	185802977	T	C	185802977	3	2	330	1	0	0	0	0	1	0	0	0	18169	1841	64	3	2868	3	ZNF804A	2	185802977	Missense_Mutation	SNP	T	TCGA-BP-5175-01A-01D-1429-08	57395380	185802977	57396396	10	16551											
CUL3	8452	hgsc.bcm.edu;ucsc.edu	37	chr2	225370726	225370727	+	Frame_Shift_Del	DEL	GA	GA	-																															aaataatgagaggtattcagGagacctggagttgaggttga																								novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		-	225370727	GA	-	225370726	7	5	330	1	0	1	0	1	0	0	0	0	4056	1174	41	0	1189	0	CUL3	2	225370726	Frame_Shift_Del	DEL	GA	TCGA-BP-5175-01A-01D-1429-08	39567749	225370726	17828647	11	16552											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10183752	10183752	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgcgagccctcccaggTcatcttctgcaatcgcagtc	6	9	9	17	4	3	0	1	0	2	0	7	1	4	0	2	1	2	2	2	1	1	1	rs5030803	alternate_allele	TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	10183752	A	A	10183752	3	1	330	1	0	0	0	0	1	0	0	0	17161	1667	58	5	223	5	VHL	3	10183752	Missense_Mutation	SNP	T	TCGA-BP-5175-01A-01D-1429-08		10183752	187838678	12	16553											
OXSR1	9943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38287677	38287677	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacagccaactcaagtctctCtcccacccaccgcagagcca	11	5	5	20	1	3	1	1	0	2	1	5	1	3	1	5	0	3	1	5	0	2	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	38287677	C	G	38287677	3	3	330	1	0	0	0	0	1	0	0	0	11336	913	32	4	1272	4	OXSR1	3	38287677	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	28103925	38287677	159734753	13	16554											
FBXO40	51725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121340772	121340772	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaatggtgaaaccagtGtggaggaaatgggaggagca	14	7	16	4	0	0	2	0	2	0	0	0	6	0	6	1	5	2	1	1	5	4	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	121340772	G	T	121340772	3	4	330	1	0	0	0	0	1	0	0	0	5749	1377	48	4	502	4	FBXO40	3	121340772	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08	83053095	121340772	76681658	14	16555											
GPR78	27201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8584302	8584302	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagcggcgccgccaccGcgccaccaggaagattggca	10	2	14	15	5	0	2	0	0	0	2	0	3	0	3	5	3	1	2	5	3	2	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	8584302	G	A	8584302	3	1	330	1	0	0	0	0	1	0	0	0	6710	1087	38	1	719	1	GPR78	4	8584302	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08		8584302	182569974	15	16556											
UBA6	55236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68514833	68514833	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttacagctttcaatacttCttggctggcaacacctccta	9	14	6	12	0	2	0	1	0	1	0	3	0	3	0	2	2	4	4	2	2	5	6	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	68514833	C	T	68514833	3	4	330	1	0	0	0	0	1	0	0	0	16831	922	32	2	2037	2	UBA6	4	68514833	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	59930531	68514833	122639443	16	16557											
NDST4	64579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	115858556	115858556	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtgctggtgacttgaataCcccagaccttcttccaagct	9	11	8	13	0	1	3	0	2	1	1	2	3	2	3	4	1	3	2	4	1	3	4	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	115858556	C	T	115858556	3	4	330	1	0	0	0	0	1	0	0	0	10258	507	18	2	1333	2	NDST4	4	115858556	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	47343723	115858556	75295720	17	16558											
BRD9	65980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	864640	864640	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaaactcataggggtcgtgGgtgacgtctggctgctcccc	7	9	14	11	2	2	2	1	1	1	1	4	2	3	2	2	4	2	2	2	4	2	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	864640	G	T	864640	2	4	330	1	0	0	0	0	0	0	0	1	1507	1219	43	4		4	BRD9	5	864640	Silent	SNP	G	TCGA-BP-5175-01A-01D-1429-08		864640	180050620	18	16559											
CDH12	1010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	21783501	21783501	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attatggagaaattatactgCgcagtgctttctctgtctag	10	15	9	7	1	2	1	0	0	2	1	3	2	2	1	0	1	3	2	0	1	5	5	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	21783501	C	T	21783501	2	4	330	1	0	0	0	0	0	0	0	1	3098	755	27	1		1	CDH12	5	21783501	Silent	SNP	C	TCGA-BP-5175-01A-01D-1429-08	20918861	21783501	159131759	19	16560											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu	37	chr5	32088233	32088233	+	Missense_Mutation	SNP	C	C	T																															cgatgctgaggattcttcttCtgaccctgagtcactcactg																								novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	32088233	C	T	32088233	3	4	330	1	0	0	0	0	1	0	0	0	11701	913	32	2	4753	2	PDZD2	5	32088233	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	10304732	32088233	148827027	20	16561	220	2									
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu	37	chr5	32088238	32088238	+	Missense_Mutation	SNP	C	C	T																															ctgaggattcttcttctgacCctgagtcactcactgaagcc																								novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	32088238	C	T	32088238	3	4	330	1	0	0	0	0	1	0	0	0	11701	623	22	2	4758	2	PDZD2	5	32088238	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	5	32088238	148827022	21	16562	220	2									
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu	37	chr5	32090571	32090571	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctctgtgaagcagcggatCaagtcttttgagaacctggc	9	12	11	9	1	3	2	1	2	2	1	4	4	3	3	1	2	3	1	1	2	3	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	32090571	C	T	32090571	2	4	330	1	0	0	0	0	0	0	0	1	11701	816	29	2		2	PDZD2	5	32090571	Silent	SNP	C	TCGA-BP-5175-01A-01D-1429-08	2333	32090571	148824689	22	16563											
PDE6A	5145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149240511	149240511	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accccctgggctggggtttcCccccggctgatttcctgcgg	2	10	13	16	2	0	1	0	1	0	0	2	1	2	1	6	5	1	3	6	5	0	2	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	149240511	C	A	149240511	4	1	330	1	0	0	0	0	0	1	0	0	11645	632	22	4	56	4	PDE6A	5	149240511	Nonsense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	117149940	149240511	31674749	23	16564											
TNXB	7148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	32065169	32065169	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctcacaggaacaggtgCagcggctcagatcaaacaca	13	5	11	12	1	3	1	3	0	0	1	3	2	3	2	0	4	4	3	0	4	2	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	32065169	C	T	32065169	3	4	330	1	0	0	0	0	1	0	0	0	16345	710	25	2	14420	2	TNXB	6	32065169	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08		32065169	139049898	24	16565											
MRPS18A	55168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43642986	43642986	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactccttcaggaagccgAggcctgtgatttggtaatag	11	10	11	9	1	1	1	1	1	0	0	2	3	2	2	3	3	2	1	3	3	4	4	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	43642986	A	T	43642986	2	4	330	1	0	0	0	0	0	0	0	1	9828	291	11	5		5	MRPS18A	6	43642986	Silent	SNP	A	TCGA-BP-5175-01A-01D-1429-08	11577817	43642986	127472081	25	16566											
ANKRD6	22881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90338835	90338835	+	Frame_Shift_Del	DEL	C	C	-																															tgtttttttttttaagatatCcttggtggatgaattaaaaa																								novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		-	90338835	C	-	90338835	7	5	330	1	0	1	0	1	0	0	0	0	685	855	30	0	1544	0	ANKRD6	6	90338835	Frame_Shift_Del	DEL	C	TCGA-BP-5175-01A-01D-1429-08	46695849	90338835	80776232	26	16567											
RUNX1T1	862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	92982925	92982925	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgataactgccagtgcGtcctccgccgcctgccgttt	5	12	10	14	4	0	2	0	2	0	0	2	2	2	2	6	0	4	1	6	0	1	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	92982925	G	A	92982925	2	1	330	1	0	0	0	0	0	0	0	1	13749	1136	40	1		1	RUNX1T1	8	92982925	Silent	SNP	G	TCGA-BP-5175-01A-01D-1429-08		92982925	53381097	27	16568											
SYT15	83849	broad.mit.edu;hgsc.bcm.edu	37	chr10	46968694	46968694	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctcggccttgaagggttGggggcaccacgaatggcaca	10	7	14	10	2	1	1	0	1	1	0	2	2	1	1	2	5	0	3	2	5	3	2	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	46968694	G	A	46968694	3	1	330	1	0	0	0	0	1	0	0	0	15470	1348	47	2	1101	2	SYT15	10	46968694	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08		46968694	88566053	28	16569											
KNDC1	85442	broad.mit.edu;hgsc.bcm.edu	37	chr10	135012532	135012532	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaaggccaccgagcgcccGggccaggagccagagggccc	9	0	16	16	3	0	1	0	0	0	1	0	3	0	2	6	4	3	1	6	4	1	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	135012532	G	A	135012532	2	1	330	1	0	0	0	0	0	0	0	1	8426	1103	39	1		1	KNDC1	10	135012532	Silent	SNP	G	TCGA-BP-5175-01A-01D-1429-08	88043838	135012532	522215	29	16570											
MUC2	4583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1078457	1078457	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgcgtctgtccccagcGcgccgagtgtgagaggctgc	5	7	14	15	4	1	1	0	1	1	1	2	3	2	1	4	1	3	1	4	1	0	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	1078457	G	A	1078457	3	1	330	1	0	0	0	0	1	0	0	0	9975	1101	38	1	687	1	MUC2	11	1078457	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08		1078457	133928059	30	16571											
WT1	7490	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32417899	32417899	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggggcgtttctcactggTctcagatgccgaccgtacaa	9	9	12	11	3	2	1	2	0	2	1	4	3	2	1	2	3	2	2	2	3	3	2	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	32417899	T	A	32417899	3	1	330	1	0	0	0	0	1	0	0	0	17407	1667	58	5	416	5	WT1	11	32417899	Missense_Mutation	SNP	T	TCGA-BP-5175-01A-01D-1429-08	31339442	32417899	102588617	31	16572											
MAPK8IP1	9479	broad.mit.edu;hgsc.bcm.edu	37	chr11	45925587	45925587	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctggaagtggatgaccCtctgctagtggagctccagg	8	9	15	9	0	1	2	0	2	1	0	2	5	2	5	2	4	3	3	2	4	2	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	45925587	C	A	45925587	3	1	330	1	0	0	0	0	1	0	0	0	9284	681	24	4	1567	4	MAPK8IP1	11	45925587	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	13507688	45925587	89080929	32	16573											
SSRP1	6749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57099909	57099909	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccttggagaagaggaggaTcaggaagtggtagcgagttt	11	9	17	4	1	1	2	1	0	0	2	2	7	2	5	1	5	1	2	1	5	3	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	57099909	T	G	57099909	3	3	330	1	0	0	0	0	1	0	0	0	15195	1435	50	5	1353	5	SSRP1	11	57099909	Missense_Mutation	SNP	T	TCGA-BP-5175-01A-01D-1429-08	11174322	57099909	77906607	33	16574											
MS4A10	341116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60561455	60561455	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctatagaagatgttgtGcctgatgacaaacctcatca	13	11	7	10	0	3	4	3	2	0	2	3	4	3	4	3	0	2	1	3	0	4	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	60561455	G	A	60561455	3	1	330	1	0	0	0	0	1	0	0	0	9855	1319	46	2	385	2	MS4A10	11	60561455	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08	3461546	60561455	74445061	34	16575											
SLC22A8	9376	hgsc.bcm.edu;ucsc.edu	37	chr11	62782211	62782211	+	Frame_Shift_Del	DEL	G	G	-																															gggcggatgtacaaaacggaGgcacctctcaggcttcccat																								novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		-	62782211	G	-	62782211	7	5	330	1	0	1	0	1	0	0	0	0	14462	1000	35	0	1448	0	SLC22A8	11	62782211	Frame_Shift_Del	DEL	G	TCGA-BP-5175-01A-01D-1429-08	2220756	62782211	72224305	35	16576											
PCNXL3	399909	broad.mit.edu;hgsc.bcm.edu	37	chr11	65402821	65402821	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgccatcctcagcaacacgCcctccctgctggcgctgcgc	5	6	10	20	4	1	0	1	0	0	0	3	0	3	0	4	1	4	3	4	1	1	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	65402821	C	T	65402821	3	4	330	1	0	0	0	0	1	0	0	0	11593	739	26	2	5208	2	PCNXL3	11	65402821	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	2620610	65402821	69603695	36	16577											
OR6C3	254786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55725604	55725604	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagtgttactggaaacctGactatcatcaccctaacctt	12	13	5	11	0	2	1	2	1	0	0	2	2	2	2	3	1	3	1	3	1	5	5	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	55725604	G	T	55725604	2	4	330	1	0	0	0	0	0	0	0	1	11192	1277	45	4		4	OR6C3	12	55725604	Silent	SNP	G	TCGA-BP-5175-01A-01D-1429-08		55725604	78126291	37	16578											
OR5AU1	390445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21623848	21623848	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggagaggctcttcaggaGggagtacatgggtgtgtgca	10	8	18	5	0	2	1	1	0	1	1	2	5	2	3	0	5	2	3	0	5	2	2	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	21623848	G	A	21623848	3	1	330	1	0	0	0	0	1	0	0	0	11147	1000	35	2	754	2	OR5AU1	14	21623848	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08		21623848	85725692	38	16579											
MYH7	4625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23894068	23894068	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcgagcctcggacttctcTagcgcctctttgaggcgtgt	4	11	13	13	5	2	1	0	1	2	0	4	3	2	2	2	3	2	0	2	3	1	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		C	23894068	T	C	23894068	2	2	330	1	0	0	0	0	0	0	0	1	10039	1509	53	3		3	MYH7	14	23894068	Silent	SNP	T	TCGA-BP-5175-01A-01D-1429-08	2270220	23894068	83455472	39	16580											
PTGER2	5732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	52782081	52782081	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggctatcatgaccatcaCcttcgccgtctgctccttgc	5	12	7	17	2	3	1	2	1	1	0	5	1	4	1	5	1	2	2	5	1	1	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	52782081	C	T	52782081	3	4	330	1	0	0	0	0	1	0	0	0	12745	507	18	2	817	2	PTGER2	14	52782081	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	28888013	52782081	54567459	40	16581											
CCNB2	9133	broad.mit.edu	37	chr15	59417125	59417125	+	3'UTR	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgtgccctttttcttaTtggtttagaactcttgattt	6	22	6	7	0	3	2	1	1	2	1	3	2	3	2	1	1	2	1	1	1	3	9	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		C	59417125	C	C	59417125	1	2	330	0	1	0	0	0	0	0	0	0	2913	1508	52	3		3	CCNB2	15	59417125	3'UTR	SNP	T	TCGA-BP-5175-01A-01D-1429-08		59417125	43114267	41	16582											
CLEC16A	23274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11217730	11217730	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttctcagaccacatccgCtgcatcatcgccaagcagcg	10	8	7	16	3	3	1	2	0	2	1	6	1	4	1	3	0	3	3	3	0	1	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	11217730	C	G	11217730	2	3	330	1	0	0	0	0	0	0	0	1	3500	784	28	4		4	CLEC16A	16	11217730	Silent	SNP	C	TCGA-BP-5175-01A-01D-1429-08		11217730	79137023	42	16583											
NKD1	85407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50583388	50583388	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagggcatcgaggagtggatCgggagacagcgctgcccggg	9	4	19	9	4	0	1	0	0	0	1	2	5	0	3	1	5	2	2	1	5	1	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	50583388	C	T	50583388	2	4	330	1	0	0	0	0	0	0	0	1	10441	874	31	1		1	NKD1	16	50583388	Silent	SNP	C	TCGA-BP-5175-01A-01D-1429-08	39365658	50583388	39771365	43	16584											
SYNRG	11276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35946642	35946642	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccgctgctggcattggtcCcattggtattcctgcctaga	5	13	10	13	1	0	1	0	0	0	1	3	1	3	1	4	3	2	4	4	3	2	5	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	35946642	C	T	35946642	3	4	330	1	0	0	0	0	1	0	0	0	15459	632	22	2	3837	2	SYNRG	17	35946642	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08		35946642	45248568	44	16585											
ITGA3	3675	broad.mit.edu	37	chr17	48148756	48148756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccacggcaccgacataTgggcgcggtgttcttgctga	6	9	13	13	4	1	1	0	1	1	0	1	2	1	1	3	3	2	3	3	3	1	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		C	48148756	C	C	48148756	3	2	330	1	0	0	0	0	1	0	0	0	7877	1464	51	3	855	3	ITGA3	17	48148756	Missense_Mutation	SNP	T	TCGA-BP-5175-01A-01D-1429-08	12202114	48148756	33046454	45	16586											
CACNG5	27091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	64880873	64880873	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggagaagggacattccacAaccattttggaccccggacc	11	6	12	12	1	0	1	0	0	0	1	1	5	1	4	5	5	1	0	5	5	2	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	64880873	A	G	64880873	3	3	330	1	0	0	0	0	1	0	0	0	2560	130	5	3	679	3	CACNG5	17	64880873	Missense_Mutation	SNP	A	TCGA-BP-5175-01A-01D-1429-08	16732117	64880873	16314337	46	16587											
HMHA1	23526	hgsc.bcm.edu	37	chr19	1067422	1067422	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcatgttctccaggaagaaAcgagagctcatgaaaacccc	15	7	8	11	1	3	3	2	1	1	2	4	5	3	4	3	1	3	2	3	1	4	1	rs76139012	bycluster;byfrequency;by1000genomes	TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	1067422	A	G	1067422	2	3	330	1	0	0	0	0	0	0	0	1	7240	40	2	3		3	HMHA1	19	1067422	Silent	SNP	A	TCGA-BP-5175-01A-01D-1429-08		1067422	58061561	47	16588											
ZNF347	84671	broad.mit.edu;ucsc.edu	37	chr19	53656986	53656986	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgataatattaccttacCtgggtgagagccatgcctga	11	11	9	10	0	0	3	0	3	0	1	0	4	0	3	4	1	4	0	4	1	4	4	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		G	53656986	G	G	53656986	3	3	330	1	0	0	0	0	1	0	0	0	17860	695	24	4	2523	4	ZNF347	19	53656986	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	52589564	53656986	5471997	48	16589											
ACSS1	84532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	25011448	25011448	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccagcaaagatgactGtgtggacagctccgatcctg	11	8	12	10	1	0	3	0	2	0	1	2	5	2	4	3	1	3	2	3	1	2	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	25011448	G	A	25011448	3	1	330	1	0	0	0	0	1	0	0	0	188	1377	48	2	1539	2	ACSS1	20	25011448	Missense_Mutation	SNP	G	TCGA-BP-5175-01A-01D-1429-08		25011448	38014072	49	16590											
MYH7B	57644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33575921	33575921	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcgaacagctgtgcatCaacttcaccaatgagaaatt	14	10	7	10	1	2	1	2	1	0	1	3	3	2	1	1	0	5	3	1	0	4	3	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	33575921	C	A	33575921	2	1	330	1	0	0	0	0	0	0	0	1	10040	816	29	4		4	MYH7B	20	33575921	Silent	SNP	C	TCGA-BP-5175-01A-01D-1429-08	8564473	33575921	29449599	50	16591											
EDN3	1908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	57876745	57876745	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggagtgtgtctactattgCcacctggacatcatttggat	10	13	10	8	0	2	0	1	0	1	0	2	3	2	3	2	3	2	0	2	3	3	4	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	57876745	C	T	57876745	2	4	330	1	0	0	0	0	0	0	0	1	4918	747	26	2		2	EDN3	20	57876745	Silent	SNP	C	TCGA-BP-5175-01A-01D-1429-08	24300824	57876745	5148775	51	16592											
MED15	51586	broad.mit.edu	37	chr22	20920819	20920819	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaacaacagcaacagcaGcagcagcagcagcagcagca	16	1	9	15	0	0	0	0	0	0	0	1	0	1	0	1	0	12	9	1	0	3	0	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	20920819	A	A	20920819	2	1	330	1	0	0	0	0	0	0	0	1	9433	962	34	2		2	MED15	22	20920819	Silent	SNP	G	TCGA-BP-5175-01A-01D-1429-08		20920819	30383747	52	16593											
BRD1	23774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50187702	50187702	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctcgcccgcctccggcCccagcgcagctccgtcctct	2	8	8	23	5	1	0	0	0	1	0	6	0	5	0	8	1	2	2	8	1	0	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		A	50187702	C	A	50187702	3	1	330	1	0	0	0	0	1	0	0	0	1501	623	22	4	865	4	BRD1	22	50187702	Missense_Mutation	SNP	C	TCGA-BP-5175-01A-01D-1429-08	29266883	50187702	1116864	53	16594											
PLXNB2	23654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50724518	50724518	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccagcggttgctcacgcaGgagatgcacctgcatccaga	9	7	12	13	2	1	2	1	0	0	2	3	3	3	2	3	2	4	5	3	2	0	1	novel		TCGA-BP-5175-01A-01D-1429-08	TCGA-BP-5175-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	30e58a1e-e7db-43ce-a7e8-a1fd21f4438e	7859fd3d-1bb7-4c19-ae09-58763723a5b9		T	50724518	G	T	50724518	2	4	330	1	0	0	0	0	0	0	0	1	12124	987	35	4		4	PLXNB2	22	50724518	Silent	SNP	G	TCGA-BP-5175-01A-01D-1429-08	536816	50724518	580048	54	16595											
PER3	8863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	7886603	7886603	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccagcccctttgacctCggaagaatttaaacacgtgg	11	8	10	12	2	0	2	0	1	0	1	1	3	0	3	4	2	3	1	4	2	4	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	7886603	C	A	7886603	4	1	331	1	0	0	0	0	0	1	0	0	11731	893	31	4	2059	4	PER3	1	7886603	Nonsense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08		7886603	241364018	1	16596											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11217303	11217303	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcataggccacaagggCatcctcccactcgtgcagtt	8	10	9	14	1	1	0	1	0	0	0	4	0	3	0	3	2	1	3	3	2	2	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	11217303	C	G	11217303	3	3	331	1	0	0	0	0	1	0	0	0	9954	710	25	4	3390	4	MTOR	1	11217303	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	3330700	11217303	238033318	2	16597											
PRDM2	7799	hgsc.bcm.edu;ucsc.edu	37	chr1	14108935	14108935	+	Frame_Shift_Del	DEL	T	T	-																															cccaagtcccacttccctccTcatccttcaggtccaagcag																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	14108935	T	-	14108935	7	5	331	1	0	1	0	1	0	0	0	0	12460	1551	54	0	4671	0	PRDM2	1	14108935	Frame_Shift_Del	DEL	T	TCGA-BP-5176-01A-01D-1429-08	2891632	14108935	235141686	3	16598											
MYOM3	127294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24434560	24434560	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgctgaactcatgctcttcTtcgctgctcccagaaggagg	7	10	11	13	2	3	2	1	1	2	1	5	3	4	3	1	2	3	4	1	2	2	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	24434560	T	C	24434560	2	2	331	1	0	0	0	0	0	0	0	1	10093	1606	56	3		3	MYOM3	1	24434560	Silent	SNP	T	TCGA-BP-5176-01A-01D-1429-08	10325625	24434560	224816061	4	16599											
NOTCH2	4853	hgsc.bcm.edu;ucsc.edu	37	chr1	120458462	120458463	+	Frame_Shift_Ins	INS	-	-	TATA																															aagggctcccgaggggtggtINStatgtgcttcccttcaggtg																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		TATA	120458463	-	TATA	120458462	7	5	331	1	0	1	1	0	0	0	0	0	10548	1725	60	0	536	0	NOTCH2	1	120458462	Frame_Shift_Ins	INS	-	TCGA-BP-5176-01A-01D-1429-08	96023902	120458462	128792159	5	16600											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201013477	201013477	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cggaatattccctcctccatCgcagcctccaccatggctct	7	10	6	18	2	1	0	0	0	1	0	6	1	5	1	6	2	1	2	6	2	2	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	201013477	C	G	201013477	2	3	331	1	0	0	0	0	0	0	0	1	2547	871	31	4		4	CACNA1S	1	201013477	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	80555015	201013477	48237144	6	16601											
SIPA1L2	57568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	232650976	232650976	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccattaatggctttaaatTtccgagcaaaataatcatct	14	14	5	8	1	2	0	1	0	1	0	3	1	3	0	2	1	2	2	2	1	6	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	232650976	T	A	232650976	3	1	331	1	0	0	0	0	1	0	0	0	14332	1841	64	5	5142	5	SIPA1L2	1	232650976	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	31637499	232650976	16599645	7	16602											
PCNXL2	80003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	233296143	233296143	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgttacaaaccccacggCtccagccaaggcaaacagca	14	5	8	14	1	0	0	0	0	0	0	1	0	1	0	4	2	5	4	4	2	4	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	233296143	C	A	233296143	3	1	331	1	0	0	0	0	1	0	0	0	11592	797	28	4	3074	4	PCNXL2	1	233296143	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	645167	233296143	15954478	8	16603											
GTF3C2	2976	hgsc.bcm.edu;ucsc.edu	37	chr2	27550049	27550049	+	Frame_Shift_Del	DEL	G	G	-																															aggatgagagactaccttatGaatagcctccagctgcagcc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	27550049	G	-	27550049	7	5	331	1	0	1	0	1	0	0	0	0	6873	1290	45	0	231	0	GTF3C2	2	27550049	Frame_Shift_Del	DEL	G	TCGA-BP-5176-01A-01D-1429-08		27550049	215649324	9	16604											
OTX1	5013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63283120	63283120	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcctcttcctactttggcgGcgtggactgcagctcatacc	5	12	9	15	2	2	0	1	0	1	0	4	1	4	1	3	3	4	2	3	3	2	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	63283120	G	A	63283120	3	1	331	1	0	0	0	0	1	0	0	0	11320	1203	42	2	744	2	OTX1	2	63283120	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	35733071	63283120	179916253	10	16605											
RNF103	7844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86831681	86831681	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accattctaagttattggcaTtgacttcatcattgttgttg	9	18	7	7	0	3	1	2	1	1	0	3	1	3	1	1	1	0	4	1	1	2	9	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	86831681	T	A	86831681	3	1	331	1	0	0	0	0	1	0	0	0	13425	1493	52	5	718	5	RNF103	2	86831681	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	23548561	86831681	156367692	11	16606											
BAZ2B	29994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160268963	160268963	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattcctctcttgctcgttGtctatctggatttggtggtc	3	18	11	9	1	3	0	0	0	3	0	7	2	4	2	1	4	1	2	1	4	1	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	160268963	G	T	160268963	3	4	331	1	0	0	0	0	1	0	0	0	1332	1386	48	4	4042	4	BAZ2B	2	160268963	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	73437282	160268963	82930410	12	16607											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179613182	179613182	+	Frame_Shift_Del	DEL	T	T	-																															taacgtttcagggctaggaaTtttttctttataatgtattt																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	179613182	T	-	179613182	7	5	331	1	0	1	0	1	0	0	0	0	16734	1493	52	0	96352	0	TTN	2	179613182	Frame_Shift_Del	DEL	T	TCGA-BP-5176-01A-01D-1429-08	19344219	179613182	63586191	13	16608											
FAM171B	165215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	187615886	187615886	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacattgaattgactccTcttgctgcaatatgtgtgaa	13	13	8	7	0	1	3	0	3	1	0	2	4	2	3	1	0	3	2	1	0	6	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	187615886	T	C	187615886	2	2	331	1	0	0	0	0	0	0	0	1	5491	1538	54	3		3	FAM171B	2	187615886	Silent	SNP	T	TCGA-BP-5176-01A-01D-1429-08	8002704	187615886	55583487	14	16609											
ABCB6	10058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220075171	220075171	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctggatggccctctcAttagatgtatccagcgctga	9	10	11	11	1	1	2	1	1	1	1	3	4	2	3	3	2	2	2	3	2	3	2	rs151051476	byfrequency;alternate_allele	TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	220075171	A	C	220075171	3	2	331	1	0	0	0	0	1	0	0	0	45	214	8	5	257	5	ABCB6	2	220075171	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	32459285	220075171	23124202	15	16610											
SP100	6672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	231407658	231407658	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaacattataatgtttatTtagccattcttatctcctcc	12	17	3	9	0	2	1	0	0	2	1	4	1	3	1	3	0	2	1	3	0	7	8	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	231407658	T	G	231407658	3	3	331	1	0	0	0	0	1	0	0	0	14962	1829	64	5	3319	5	SP100	2	231407658	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	11332487	231407658	11791715	16	16611											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191571	10191571	+	Silent	SNP	G	G	T																															aggtcgctctacgaagatctGgaagaccacccaaatgtgca																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	10191571	G	T	10191571	2	4	331	1	0	0	0	0	0	0	0	1	17161	1335	47	4		4	VHL	3	10191571	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08		10191571	187830859	17	16612	221	2									
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191572	10191572	+	Nonsense_Mutation	SNP	G	G	T																															ggtcgctctacgaagatctgGaagaccacccaaatgtgcag																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	10191572	G	T	10191572	4	4	331	1	0	0	0	0	0	1	0	0	17161	1175	41	4	575	4	VHL	3	10191572	Nonsense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	1	10191572	187830858	18	16613	221	2									
RRP9	9136	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	51971260	51971260	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagatggctgagtcatcgggGgtgacgaccaaacatgtgat	12	8	14	7	2	1	4	1	3	0	1	2	5	1	4	1	3	1	1	1	3	2	0	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	51971260	G	T	51971260	2	4	331	1	0	0	0	0	0	0	0	1	13693	1219	43	4		4	RRP9	3	51971260	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08	41779688	51971260	146051170	19	16614											
RAB43	339122	broad.mit.edu;hgsc.bcm.edu	37	chr3	128813982	128813982	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggtgatggtgcggaaccGctcctggccggccgtgtccc	3	8	16	14	4	0	1	0	1	0	0	2	2	2	2	5	5	2	1	5	5	1	0	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	128813982	G	A	128813982	3	1	331	1	0	0	0	0	1	0	0	0	12947	1086	38	1	411	1	RAB43	3	128813982	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	76842722	128813982	69208448	20	16615											
CDV3	55573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	133306843	133306843	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttcagctagacaaccaaTatgctgtgcttgaaaatcag	15	10	7	9	0	2	2	2	1	0	1	2	2	2	2	1	0	5	3	1	0	7	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	133306843	T	C	133306843	3	2	331	1	0	0	0	0	1	0	0	0	3181	1406	49	3	768	3	CDV3	3	133306843	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	4492861	133306843	64715587	21	16616											
GPR171	29909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150916820	150916820	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcggtagatcttgcagctGtgtgtcagctgaagacagcg	9	11	13	8	2	2	3	1	1	1	2	3	3	2	3	0	1	4	4	0	1	2	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	150916820	G	A	150916820	2	1	331	1	0	0	0	0	0	0	0	1	6668	1368	48	2		2	GPR171	3	150916820	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08	17609977	150916820	47105610	22	16617											
KCNAB1	7881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	156249255	156249255	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggatcatccactcctgAacaactcattgaaaaccttg	12	10	6	13	0	2	2	2	2	0	0	4	3	4	3	4	1	3	0	4	1	4	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	156249255	A	T	156249255	3	4	331	1	0	0	0	0	1	0	0	0	8009	246	9	5	1660	5	KCNAB1	3	156249255	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	5332435	156249255	41773175	23	16618											
KIAA0226	9711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	197410178	197410178	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagagctaaggacctacCttctgaggggcatcatgctc	12	8	11	10	0	2	3	1	1	1	2	3	4	2	4	2	3	3	3	2	3	4	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	197410178	C	T	197410178	2	4	331	1	0	0	0	0	0	0	0	1	8162	695	24	2		2	KIAA0226	3	197410178	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	41160923	197410178	612252	24	16619											
FAM114A1	92689	hgsc.bcm.edu;ucsc.edu	37	chr4	38924467	38924467	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaatttccattaaagacaTctttgcagccaaagaattag	15	12	5	9	0	1	2	0	0	1	2	2	2	2	2	3	0	2	1	3	0	6	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	38924467	T	C	38924467	3	2	331	1	0	0	0	0	1	0	0	0	5403	1435	50	3	1048	3	FAM114A1	4	38924467	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08		38924467	152229809	25	16620											
SCARB2	950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77082897	77082897	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggggtgctctttcatccGctgttccctgaaacacagaa	9	11	10	11	1	2	3	1	2	1	1	4	3	4	3	2	2	2	3	2	2	2	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	77082897	G	A	77082897	3	1	331	1	0	0	0	0	1	0	0	0	13884	1087	38	1	34	1	SCARB2	4	77082897	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	38158430	77082897	114071379	26	16621											
RASGEF1B	153020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	82380577	82380577	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtcatggtaatacaaccctCcacagctgtcctctgcagac	10	10	7	14	0	2	1	1	0	1	1	4	1	4	1	3	1	4	3	3	1	3	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	82380577	C	T	82380577	3	4	331	1	0	0	0	0	1	0	0	0	13072	855	30	2	1387	2	RASGEF1B	4	82380577	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	5297680	82380577	108773699	27	16622											
IL15	3600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	142651079	142651079	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagtccggagatgcaagtaTtcatgatacagtagaaaatc	15	10	10	6	1	1	4	1	2	0	2	3	5	2	4	1	1	2	3	1	1	6	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	142651079	T	G	142651079	3	3	331	1	0	0	0	0	1	0	0	0	7631	1493	52	5	338	5	IL15	4	142651079	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	60270502	142651079	48503197	28	16623											
ACCN5	0	hgsc.bcm.edu;ucsc.edu	37	chr4	156787340	156787340	+	Frame_Shift_Del	DEL	G	G	-																															gagttcactctttactcaccGttctcagcatatacttttga																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	156787340	G	-	156787340	7	5	331	1	0	1	0	1	0	0	0	0	132	1159	40	0	1518	0	ACCN5	4	156787340	Frame_Shift_Del	DEL	G	TCGA-BP-5176-01A-01D-1429-08	14136261	156787340	34366936	29	16624											
SLCO4C1	353189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	101631681	101631681	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgcagcgctggagacattGaggatggaagttcctccagc	9	9	14	9	1	0	2	0	1	0	1	2	5	2	4	2	3	3	4	2	3	1	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	101631681	G	A	101631681	4	1	331	1	0	0	0	0	0	1	0	0	14732	1299	45	2	1940	2	SLCO4C1	5	101631681	Nonsense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08		101631681	79283579	30	16625											
SPOCK1	6695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	136328254	136328254	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaccaatccttcagccGggaggcaaggttccgcaact	11	7	9	14	2	1	0	1	0	0	0	4	1	4	1	5	3	3	3	5	3	4	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	136328254	G	A	136328254	3	1	331	1	0	0	0	0	1	0	0	0	15080	1115	39	1	714	1	SPOCK1	5	136328254	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	34696573	136328254	44587006	31	16626											
PCDHGA8	9708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140773214	140773214	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatcaacggaaaagtggcAtacaaattccggaaaattaa	19	7	9	6	2	1	0	1	0	0	0	2	3	2	3	1	4	2	1	1	4	9	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	140773214	A	G	140773214	2	3	331	1	0	0	0	0	0	0	0	1	11560	204	8	3		3	PCDHGA8	5	140773214	Silent	SNP	A	TCGA-BP-5176-01A-01D-1429-08	4444960	140773214	40142046	32	16627											
FAT2	2196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150901058	150901058	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgagtgatgatggatgctAgctcctgaaactcgtagaag	12	10	13	6	1	0	5	0	4	0	1	2	6	1	6	1	1	3	3	1	1	4	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	150901058	A	T	150901058	3	4	331	1	0	0	0	0	1	0	0	0	5690	420	15	5	1977	5	FAT2	5	150901058	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	10127844	150901058	30014202	33	16628											
CNOT8	9337	hgsc.bcm.edu;ucsc.edu	37	chr5	154254886	154254899	+	Frame_Shift_Del	DEL	TGTGGGCGGCTCTA	TGTGGGCGGCTCTA	-																															gcattgatgatgccaagtacTgtgggcggctctatggctta																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	TGTGGGCGGCTCTA	TGTGGGCGGCTCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	154254899	TGTGGGCGGCTCTA	-	154254886	7	5	331	1	0	1	0	1	0	0	0	0	3625	1580	55	0	788	0	CNOT8	5	154254886	Frame_Shift_Del	DEL	TGTGGGCGGCTCTA	TCGA-BP-5176-01A-01D-1429-08	3353828	154254886	26660374	34	16629											
ZNF354C	30832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178506605	178506605	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacatgcttggaatgtgggaGaaccttcacacgtattgtaa	12	12	10	7	1	1	1	1	0	0	1	1	3	1	2	1	2	3	3	1	2	5	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	178506605	G	A	178506605	3	1	331	1	0	0	0	0	1	0	0	0	17865	942	33	2	1186	2	ZNF354C	5	178506605	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	24251719	178506605	2408655	35	16630											
BTNL9	153579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180483000	180483000	+	Missense_Mutation	SNP	G	G	T																															ttgcttcagactggagacggGctgaaggccaggctggtgag																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	180483000	G	T	180483000	3	4	331	1	0	0	0	0	1	0	0	0	1568	1203	42	4	970	4	BTNL9	5	180483000	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	1976395	180483000	432260	36	16631	222	2									
BTNL9	153579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180483001	180483001	+	Missense_Mutation	SNP	C	C	G																															tgcttcagactggagacgggCtgaaggccaggctggtgagt																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	180483001	C	G	180483001	3	3	331	1	0	0	0	0	1	0	0	0	1568	797	28	4	971	4	BTNL9	5	180483001	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	1	180483001	432259	37	16632	222	2									
ABCF1	23	hgsc.bcm.edu	37	chr6	30558477	30558478	+	Frame_Shift_Ins	INS	-	-	A																															gtcagccggccccgagagtgINSagctttccttcccagaagtc																								rs72545970	bycluster	TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	30558478	-	A	30558477	7	5	331	1	0	1	1	0	0	0	0	0	65	1285	45	0	2635	0	ABCF1	6	30558477	Frame_Shift_Ins	INS	-	TCGA-BP-5176-01A-01D-1429-08		30558477	140556590	38	16633											
TULP1	7287	broad.mit.edu;hgsc.bcm.edu	37	chr6	35471404	35471404	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgatgacggtcatgcgccGggggccacggaagcccagca	10	4	15	12	4	1	2	1	2	0	0	1	3	1	3	3	4	3	1	3	4	2	0	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	35471404	G	A	35471404	3	1	331	1	0	0	0	0	1	0	0	0	16772	1115	39	1	385	1	TULP1	6	35471404	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	4912927	35471404	135643663	39	16634											
GPR111	222611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	47650019	47650019	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgccctttggccattgCtgccatcactgttgctgcca	5	13	10	13	0	1	0	1	0	0	0	1	1	1	1	4	2	5	3	4	2	0	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	47650019	C	T	47650019	3	4	331	1	0	0	0	0	1	0	0	0	6628	797	28	2	1538	2	GPR111	6	47650019	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	12178615	47650019	123465048	40	16635											
PM20D2	135293	hgsc.bcm.edu	37	chr6	89855893	89855893	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggggagcggcccgtggaAgggggcgcgtgcaatggccg	6	3	23	9	5	0	0	0	0	0	0	0	3	0	3	2	8	2	1	2	8	2	0	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	89855893	A	C	89855893	3	2	331	1	0	0	0	0	1	0	0	0	12129	69	3	5	32	5	PM20D2	6	89855893	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	42205874	89855893	81259174	41	16636											
UTRN	7402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	144768773	144768773	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaatgaagcgtcaaacAttggatcagctgagtgagat	15	9	12	5	1	2	3	2	3	0	1	2	6	2	5	0	2	3	1	0	2	3	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	144768773	A	T	144768773	2	4	331	1	0	0	0	0	0	0	0	1	17102	204	8	5		5	UTRN	6	144768773	Silent	SNP	A	TCGA-BP-5176-01A-01D-1429-08	54912880	144768773	26346294	42	16637											
SERAC1	84947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	158541585	158541585	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtggggagatttcattgcTtctgccatgatggaaaccca	10	12	11	8	0	2	2	1	1	1	1	2	4	2	3	2	3	3	1	2	3	1	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	158541585	T	C	158541585	2	2	331	1	0	0	0	0	0	0	0	1	14076	1606	56	3		3	SERAC1	6	158541585	Silent	SNP	T	TCGA-BP-5176-01A-01D-1429-08	13772812	158541585	12573482	43	16638											
TBL2	26608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	72985071	72985071	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgatacactcgccatggacCcgctcaaagcactcctcctt	9	8	7	17	3	1	0	1	0	0	0	4	2	3	1	4	1	2	2	4	1	2	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	72985071	C	A	72985071	2	1	331	1	0	0	0	0	0	0	0	1	15641	610	22	4		4	TBL2	7	72985071	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08		72985071	86153592	44	16639											
HGF	3082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	81346622	81346622	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtccatgagcatcatcaTctggatttcggcagtaattc	10	12	10	9	1	3	1	2	1	1	0	6	2	4	2	1	3	1	3	1	3	1	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	81346622	T	G	81346622	3	3	331	1	0	0	0	0	1	0	0	0	7085	1435	50	5	887	5	HGF	7	81346622	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	8361551	81346622	77792041	45	16640											
KCND2	3751	broad.mit.edu;ucsc.edu	37	chr7	119914961	119914961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccgtgacccagacatctTccgccacatcctgaatttct	9	11	6	15	2	2	4	0	3	2	1	4	4	4	4	5	0	0	0	5	0	1	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	119914961	C	C	119914961	3	2	331	1	0	0	0	0	1	0	0	0	8019	1783	62	3	277	3	KCND2	7	119914961	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	38568339	119914961	39223702	46	16641											
ZNF862	643641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	149559035	149559035	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggacagtcctgacggggaTtgagtacctccagcagaggt	10	7	15	9	1	0	3	0	2	0	1	2	6	2	5	3	4	2	2	3	4	1	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	149559035	T	C	149559035	3	2	331	1	0	0	0	0	1	0	0	0	18194	1493	52	3	2812	3	ZNF862	7	149559035	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	29644074	149559035	9579628	47	16642											
ABP1	26	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150558103	150558103	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acattcccaacacagccacaCctgggaactccgtgggcttc	10	7	8	16	1	0	0	0	0	0	0	3	1	2	1	4	2	3	1	4	2	2	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	150558103	C	G	150558103	3	3	331	1	0	0	0	0	1	0	0	0	98	507	18	4	2076	4	ABP1	7	150558103	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	999068	150558103	8580560	48	16643											
MYOM2	9172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	2020501	2020501	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttggggtcaccttcaggagGgaaggcgagacggtcactct	8	9	15	9	2	4	1	3	0	1	1	4	4	4	3	1	6	0	0	1	6	1	2	rs137913055	alternate_allele	TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	2020501	G	A	2020501	2	1	331	1	0	0	0	0	0	0	0	1	10092	1223	43	2		2	MYOM2	8	2020501	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08		2020501	144343521	49	16644											
EBF2	64641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	25744310	25744310	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggctcctttgcagaactGtttagatttataagataatg	11	15	10	5	0	0	3	0	0	0	3	1	3	1	3	1	2	2	3	1	2	5	7	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	25744310	G	C	25744310	3	2	331	1	0	0	0	0	1	0	0	0	4881	1386	48	4	785	4	EBF2	8	25744310	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	23723809	25744310	120619712	50	16645											
ZNF703	80139	broad.mit.edu;hgsc.bcm.edu	37	chr8	37556057	37556057	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgggcctaagccggtaccaCccctatggcaagagccactt	9	8	10	14	1	0	1	0	0	0	1	0	1	0	1	6	3	3	2	6	3	4	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	37556057	C	A	37556057	3	1	331	1	0	0	0	0	1	0	0	0	18105	506	18	4	1644	4	ZNF703	8	37556057	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	11811747	37556057	108807965	51	16646											
ADAM2	2515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	39624434	39624434	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctatacagatccattgAttcagtccacacggatgccc	11	10	6	14	1	2	2	1	1	1	1	4	3	4	3	4	1	2	0	4	1	2	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	39624434	A	C	39624434	3	2	331	1	0	0	0	0	1	0	0	0	241	330	12	5	795	5	ADAM2	8	39624434	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	2068377	39624434	106739588	52	16647											
C8orf45	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67790811	67790811	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactgttttctttcaggaTttcagtatataagagtgcat	11	16	7	7	0	3	1	2	0	1	1	3	2	3	2	1	1	1	3	1	1	3	7	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	67790811	T	A	67790811	3	1	331	1	0	0	0	0	1	0	0	0	2430	1493	52	5	502	5	C8orf45	8	67790811	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	28166377	67790811	78573211	53	16648											
PEX2	5828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	77896064	77896064	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaaatcatagcatcgttcTtctaaccacctgccaccaat	14	10	3	14	1	3	0	1	0	2	0	4	0	3	0	4	0	4	2	4	0	5	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	77896064	T	A	77896064	3	1	331	1	0	0	0	0	1	0	0	0	11745	1606	56	5	570	5	PEX2	8	77896064	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	10105253	77896064	68467958	54	16649											
EPPK1	83481	hgsc.bcm.edu	37	chr8	144940723	144940725	+	In_Frame_Del	DEL	GGC	GGC	-																															tggcggccgggctggtccttGgcgggcaccaggacgcccgc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	144940725	GGC	-	144940723	7	5	331	1	0	1	0	1	0	0	0	0	5190	1335	47	0	567	0	EPPK1	8	144940723	In_Frame_Del	DEL	GGC	TCGA-BP-5176-01A-01D-1429-08	67044659	144940723	1423299	55	16650											
IFNA21	3452	broad.mit.edu	37	chr9	21166125	21166125	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctgacaacctcccaggCacaagggctgtatttcttct	8	12	8	13	0	3	1	0	1	3	0	4	1	4	1	2	2	2	4	2	2	3	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	21166125	A	A	21166125	3	1	331	1	0	0	0	0	1	0	0	0	7538	710	25	4	86	4	IFNA21	9	21166125	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08		21166125	120047306	56	16651											
UNC13B	10497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35396577	35396577	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggatctgcctgtcctccagGggcaggtgcctgagtaccca	6	8	14	13	0	1	1	0	1	1	0	3	2	3	2	5	4	3	2	5	4	1	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	35396577	G	C	35396577	3	2	331	1	0	0	0	0	1	0	0	0	16984	1232	43	4	3268	4	UNC13B	9	35396577	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	14230452	35396577	105816854	57	16652											
FAM166B	730112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35563218	35563218	+	Silent	SNP	T	T	G																															tcttgcccacgcctgacaggTagactctccctgggaacctc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	35563218	T	G	35563218	2	3	331	1	0	0	0	0	0	0	0	1	5482	1625	57	5		5	FAM166B	9	35563218	Silent	SNP	T	TCGA-BP-5176-01A-01D-1429-08	166641	35563218	105650213	58	16653	223	2									
FAM166B	730112	broad.mit.edu;ucsc.edu	37	chr9	35563221	35563221	+	Silent	SNP	A	G	G																															tgcccacgcctgacaggtagActctccctgggaacctcagg																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	35563221	G	G	35563221	2	3	331	1	0	0	0	0	0	0	0	1	5482	272	10	3		3	FAM166B	9	35563221	Silent	SNP	A	TCGA-BP-5176-01A-01D-1429-08	3	35563221	105650210	59	16654	223	2									
ZNF658	26149	broad.mit.edu	37	chr9	40772272	40772272	+	Frame_Shift_Del	DEL	T	-	-																															gttgaattttgggcaaaagcTtttccgcattcattacactc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	40772272	-	-	40772272	7	5	331	1	0	1	0	1	0	0	0	0	18068	1606	56	0	180	0	ZNF658	9	40772272	Frame_Shift_Del	DEL	T	TCGA-BP-5176-01A-01D-1429-08	5209051	40772272	100441159	60	16655											
C9orf125	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104238257	104238257	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctacataggccctctctcccTtggccctcaacagcgagtac	8	9	7	17	1	2	0	1	0	1	0	4	1	3	0	3	2	4	1	3	2	4	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	104238257	T	A	104238257	3	1	331	1	0	0	0	0	1	0	0	0	2454	1609	56	5	97	5	C9orf125	9	104238257	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	63465985	104238257	36975174	61	16656											
SEC16A	9919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139360547	139360547	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggaggaagcggggcctcGtaggaaccggcagccacatt	9	5	15	12	3	0	0	0	0	0	0	1	3	0	3	4	6	3	2	4	6	3	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	139360547	G	T	139360547	4	4	331	1	0	0	0	0	0	1	0	0	13988	1140	40	4	3003	4	SEC16A	9	139360547	Nonsense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	35122290	139360547	1852884	62	16657											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	16979763	16979763	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaattaggcgggcgtgAatgctaggcccatcatagat	10	9	12	10	2	1	2	1	1	0	1	2	2	2	2	2	3	1	2	2	3	5	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	16979763	A	C	16979763	3	2	331	1	0	0	0	0	1	0	0	0	4051	242	9	5	5233	5	CUBN	10	16979763	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08		16979763	118554984	63	16658											
NSUN6	221078	hgsc.bcm.edu;ucsc.edu	37	chr10	18874976	18874977	+	Frame_Shift_Ins	INS	-	-	T																															caataaggcattctgtttgaINSttttttctactttgttgaag																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	18874977	-	T	18874976	7	5	331	1	0	1	1	0	0	0	0	0	10682	333	12	0	601	0	NSUN6	10	18874976	Frame_Shift_Ins	INS	-	TCGA-BP-5176-01A-01D-1429-08	1895213	18874976	116659771	64	16659											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61829377	61829377	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatagtttcattttctaaTccctgacaactggtcatcac	10	16	5	10	0	4	1	3	1	1	0	5	1	5	1	1	1	1	2	1	1	4	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	61829377	T	C	61829377	2	2	331	1	0	0	0	0	0	0	0	1	622	1422	50	3		3	ANK3	10	61829377	Silent	SNP	T	TCGA-BP-5176-01A-01D-1429-08	42954401	61829377	73705370	65	16660											
GOT1	2805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	101163595	101163595	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttccagatgcgaagccctGataggctgagtcaaagaagg	12	8	13	8	1	1	4	1	2	0	2	2	5	2	4	2	2	2	2	2	2	4	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	101163595	G	A	101163595	4	1	331	1	0	0	0	0	0	1	0	0	6579	1299	45	2	578	2	GOT1	10	101163595	Nonsense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	39334218	101163595	34371152	66	16661											
TH	7054	hgsc.bcm.edu;ucsc.edu	37	chr11	2185540	2185540	+	Frame_Shift_Del	DEL	G	G	-																															cagggagcgccgcacggcctGggggctgtccagcacgtcga																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	2185540	G	-	2185540	7	5	331	1	0	1	0	1	0	0	0	0	15837	1357	47	0	80	0	TH	11	2185540	Frame_Shift_Del	DEL	G	TCGA-BP-5176-01A-01D-1429-08		2185540	132820976	67	16662											
STK33	65975	hgsc.bcm.edu	37	chr11	8414087	8414088	+	In_Frame_Ins	INS	-	-	CCAGAA																															ttttggttctggacagggcgINSccggatttagcagggtactt																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		CCAGAA	8414088	-	CCAGAA	8414087	7	5	331	1	0	1	1	0	0	0	0	0	15301	1074	38	0	33	0	STK33	11	8414087	In_Frame_Ins	INS	-	TCGA-BP-5176-01A-01D-1429-08	6228547	8414087	126592429	68	16663											
C11orf46	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	30352900	30352900	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgatactgaagaccgccaGaaaaggaaacctgagtcaga	16	6	11	8	1	1	6	1	3	0	3	1	7	1	7	3	1	2	1	3	1	5	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	30352900	G	A	30352900	2	1	331	1	0	0	0	0	0	0	0	1	1643	933	33	2		2	C11orf46	11	30352900	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08	21938813	30352900	104653616	69	16664											
NPAS4	266743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66191067	66191067	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggctgagagtggagataTtcaggcagagatggtggtga	11	9	18	3	0	1	4	1	2	0	3	1	7	1	4	0	5	0	2	0	5	1	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	66191067	T	G	66191067	3	3	331	1	0	0	0	0	1	0	0	0	10565	1493	52	5	849	5	NPAS4	11	66191067	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	35838167	66191067	68815449	70	16665											
RNF169	254225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	74546695	74546695	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaccatcgaaaagcgtctAcccttcagctccctttcatc	10	12	4	15	2	3	0	2	0	1	0	6	1	4	0	3	0	4	1	3	0	4	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	74546695	A	T	74546695	2	4	331	1	0	0	0	0	0	0	0	1	13462	378	14	5		5	RNF169	11	74546695	Silent	SNP	A	TCGA-BP-5176-01A-01D-1429-08	8355628	74546695	60459821	71	16666											
DLAT	1737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111930750	111930750	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgtttctttagcaacCaaagcaagagagggtaaact	14	11	10	6	0	1	1	0	0	1	1	1	3	1	1	1	1	4	5	1	1	6	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	111930750	C	G	111930750	2	3	331	1	0	0	0	0	0	0	0	1	4549	581	21	4		4	DLAT	11	111930750	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	37384055	111930750	23075766	72	16667											
SORL1	6653	hgsc.bcm.edu	37	chr11	121416109	121416109	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccggtggtcgtgtccaaCtgctcctgcacccgggagga	6	7	15	13	3	0	0	0	0	0	0	3	2	2	2	4	5	3	2	4	5	1	0	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	121416109	C	A	121416109	3	1	331	1	0	0	0	0	1	0	0	0	14936	564	20	4	2076	4	SORL1	11	121416109	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	9485359	121416109	13590407	73	16668											
OR8B12	219858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124413531	124413531	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgaggataaactctgtcacaGaagagtttttggctgccatt	11	12	10	8	1	2	2	1	0	1	2	2	4	2	3	1	2	2	2	1	2	3	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	124413531	G	A	124413531	3	1	331	1	0	0	0	0	1	0	0	0	11226	942	33	2	914	2	OR8B12	11	124413531	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	2997422	124413531	10592985	74	16669											
NCAPD3	23310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	134029917	134029917	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagctctgatgccagctgtTtgtcaactgcaaagaagtcc	11	10	9	11	0	2	2	1	1	1	1	3	2	3	2	2	0	5	4	2	0	4	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	134029917	T	C	134029917	3	2	331	1	0	0	0	0	1	0	0	0	10206	1841	64	3	787	3	NCAPD3	11	134029917	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	9616386	134029917	976599	75	16670											
ETNK1	55500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	22812052	22812052	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaagtatttctctctcaTtcccacaggatttgcagatg	10	13	9	9	0	2	1	1	0	2	1	5	3	3	3	1	2	1	2	1	2	2	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	22812052	T	A	22812052	3	1	331	1	0	0	0	0	1	0	0	0	5273	1493	52	5	896	5	ETNK1	12	22812052	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08		22812052	111039843	76	16671											
FAM113B	0	broad.mit.edu;hgsc.bcm.edu	37	chr12	47629733	47629733	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtccccacccttaccttCccccacataccgccccctgc	5	9	3	24	1	1	0	0	0	1	0	3	0	3	0	9	0	3	0	9	0	2	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	47629733	C	A	47629733	3	1	331	1	0	0	0	0	1	0	0	0	5402	855	30	4	889	4	FAM113B	12	47629733	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	24817681	47629733	86222162	77	16672											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57589705	57589705	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcgctgtctgagctccCgccagtgggagtgtgatggc	5	9	17	10	2	1	2	0	2	1	0	2	3	2	3	2	3	1	2	2	3	0	0	rs148336699	alternate_allele	TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	57589705	C	A	57589705	3	1	331	1	0	0	0	0	1	0	0	0	8951	652	23	4	8834	4	LRP1	12	57589705	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	9959972	57589705	76262190	78	16673											
NUDT4	11163	broad.mit.edu;hgsc.bcm.edu	37	chr12	93793101	93793101	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcccttccggataataaTgccttgtttgtaaccgctgc	7	14	7	13	2	0	0	0	0	0	0	2	1	2	1	5	1	3	3	5	1	3	7	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	93793101	T	C	93793101	2	2	331	1	0	0	0	0	0	0	0	1	10741	1461	51	3		3	NUDT4	12	93793101	Silent	SNP	T	TCGA-BP-5176-01A-01D-1429-08	36203396	93793101	40058794	79	16674											
TPCN1	53373	broad.mit.edu;ucsc.edu	37	chr12	113727990	113727990	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccgtgggcaacaggacCgtggtggaggaaggctacta	11	5	15	10	2	0	0	0	0	0	0	0	3	0	3	2	6	2	2	2	6	4	2	rs150639944	alternate_allele	TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	113727990	A	A	113727990	2	1	331	1	0	0	0	0	0	0	0	1	16394	639	23	4		4	TPCN1	12	113727990	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	19934889	113727990	20123905	80	16675											
NOS1	4842	broad.mit.edu;ucsc.edu	37	chr12	117665305	117665305	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacatgtctggggaggagcTgatggaatagtagcggggct	9	9	18	5	1	1	1	0	1	1	0	1	4	1	4	0	6	3	4	0	6	4	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	117665305	G	G	117665305	3	3	331	1	0	0	0	0	1	0	0	0	10541	1580	55	5	785	5	NOS1	12	117665305	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	3937315	117665305	16186590	81	16676											
RNF10	9921	broad.mit.edu;ucsc.edu	37	chr12	121013684	121013684	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcccagttttcaaaatTccttcagccaagctattgaa	11	13	6	11	0	2	1	2	1	0	0	3	1	3	1	3	0	3	2	3	0	5	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	121013684	C	C	121013684	3	2	331	1	0	0	0	0	1	0	0	0	13424	1783	62	3	2352	3	RNF10	12	121013684	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	3348379	121013684	12838211	82	16677											
AKAP11	11215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42891796	42891796	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcagaactttattttcAtgactctgcaaataaggagt	13	14	8	6	0	2	2	1	1	1	1	2	3	2	3	0	1	3	3	0	1	4	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	42891796	A	T	42891796	3	4	331	1	0	0	0	0	1	0	0	0	447	217	8	5	5575	5	AKAP11	13	42891796	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08		42891796	72278082	83	16678											
PRMT5	10419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23393369	23393369	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcacttggcttccccatTcttcaaactgccagttctct	6	14	6	15	1	4	0	2	0	2	0	6	0	5	0	3	2	2	2	3	2	1	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	23393369	T	A	23393369	3	1	331	1	0	0	0	0	1	0	0	0	12541	1783	62	5	714	5	PRMT5	14	23393369	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08		23393369	83956171	84	16679											
AKAP6	9472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	33292170	33292170	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcccggaatcgaatgcatcGttcaggaagcgtctgactcg	10	9	11	11	5	2	1	1	1	1	0	6	4	3	3	1	2	2	2	1	2	3	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	33292170	G	C	33292170	2	2	331	1	0	0	0	0	0	0	0	1	455	1132	40	4		4	AKAP6	14	33292170	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08	9898801	33292170	74057370	85	16680											
RALGAPA1	253959	hgsc.bcm.edu	37	chr14	36096435	36096436	+	Frame_Shift_Ins	INS	-	-	T																															aagtgcttctcaacaaattcINStttttcttctgtatgttgct																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	36096436	-	T	36096435	7	5	331	1	0	1	1	0	0	0	0	0	13015	922	32	0	1095	0	RALGAPA1	14	36096435	Frame_Shift_Ins	INS	-	TCGA-BP-5176-01A-01D-1429-08	2804265	36096435	71253105	86	16681											
ATP5S	27109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	50790719	50790719	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtgtcattatatcgaggatGactgtttgctgagacttagt	10	15	11	5	1	1	2	1	2	0	1	2	5	1	3	0	1	1	2	0	1	3	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	50790719	G	A	50790719	3	1	331	1	0	0	0	0	1	0	0	0	1163	1290	45	2	482	2	ATP5S	14	50790719	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	14694284	50790719	56558821	87	16682											
OTX2	5015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	57271023	57271023	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctagctgcgcccgagtgaaCgtcgtcctctcccggcgctg	4	9	12	16	6	2	1	0	1	2	0	5	2	3	1	3	1	3	2	3	1	2	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	57271023	C	A	57271023	2	1	331	1	0	0	0	0	0	0	0	1	11321	523	19	4		4	OTX2	14	57271023	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	6480304	57271023	50078517	88	16683											
DICER1	23405	broad.mit.edu;ucsc.edu	37	chr14	95557550	95557550	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaacaatacctattagtggCcgcatcatgggatagtacac	13	9	8	11	1	1	0	1	0	0	0	1	1	1	1	3	2	3	2	3	2	7	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	95557550	A	A	95557550	2	1	331	1	0	0	0	0	0	0	0	1	4521	726	26	4		4	DICER1	14	95557550	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	38286527	95557550	11791990	89	16684											
CDC42BPB	9578	hgsc.bcm.edu;ucsc.edu	37	chr14	103416228	103416229	+	Frame_Shift_Del	DEL	GT	GT	-																															gccatcccttcttcacccccGtgggctttgggacctatgaa																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	103416229	GT	-	103416228	7	5	331	1	0	1	0	1	0	0	0	0	3073	1145	40	0	1860	0	CDC42BPB	14	103416228	Frame_Shift_Del	DEL	GT	TCGA-BP-5176-01A-01D-1429-08	7858678	103416228	3933312	90	16685											
PPP1R13B	23368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	104208276	104208276	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccttgaccctttatcaGccaggaaaggcctaatggcc	9	9	11	12	0	1	1	1	1	0	0	1	2	1	2	5	4	1	0	5	4	3	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	104208276	G	A	104208276	3	1	331	1	0	0	0	0	1	0	0	0	12359	971	34	2	1627	2	PPP1R13B	14	104208276	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	792048	104208276	3141264	91	16686											
ACTC1	70	broad.mit.edu;hgsc.bcm.edu	37	chr15	35085454	35085454	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccagcatacctgtggtaCggccagaagcatacagggat	12	6	12	11	1	0	1	0	0	0	1	0	2	0	2	3	3	6	3	3	3	4	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	35085454	C	T	35085454	3	4	331	1	0	0	0	0	1	0	0	0	195	536	19	1	707	1	ACTC1	15	35085454	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08		35085454	67445938	92	16687											
INO80	54617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41364204	41364204	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgccagacttgtttgctGcccgtagggcagctgctcga	6	10	13	12	2	0	1	0	0	0	1	1	2	0	1	2	1	5	6	2	1	1	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	41364204	G	T	41364204	3	4	331	1	0	0	0	0	1	0	0	0	7746	1319	46	4	3322	4	INO80	15	41364204	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	6278750	41364204	61167188	93	16688											
SLTM	79811	hgsc.bcm.edu;ucsc.edu	37	chr15	59205785	59205786	+	Frame_Shift_Del	DEL	TA	TA	-																															ttgttttcttctgcagagagTaactccttggaatgcacatt																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	59205786	TA	-	59205785	7	5	331	1	0	1	0	1	0	0	0	0	14756	1635	57	0	2750	0	SLTM	15	59205785	Frame_Shift_Del	DEL	TA	TCGA-BP-5176-01A-01D-1429-08	17841581	59205785	43325607	94	16689											
HERC1	8925	broad.mit.edu	37	chr15	63944712	63944712	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttgtagccaaaagacctTttttattacaccaaacacat	15	12	3	11	0	0	1	0	0	0	1	0	1	0	1	3	0	3	1	3	0	6	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	63944712	G	G	63944712	3	3	331	1	0	0	0	0	1	0	0	0	7057	1841	64	5	4374	5	HERC1	15	63944712	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	4738927	63944712	38586680	95	16690											
USP7	7874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	9010986	9010986	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacgcttttagacgaatcatCcccctcggttggcatcatgt	8	12	9	12	3	2	1	2	0	0	1	4	3	3	1	2	2	0	3	2	2	2	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	9010986	C	T	9010986	3	4	331	1	0	0	0	0	1	0	0	0	17087	855	30	2	2660	2	USP7	16	9010986	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08		9010986	81343767	96	16691											
ACSM1	116285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20651789	20651789	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaccacctaccgtttcCgactgcccatagttctcgta	7	13	6	15	3	1	0	0	0	1	0	3	1	2	0	5	0	3	4	5	0	3	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	20651789	C	T	20651789	2	4	331	1	0	0	0	0	0	0	0	1	182	639	23	1		1	ACSM1	16	20651789	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08	11640803	20651789	69702964	97	16692											
DNAH3	55567	hgsc.bcm.edu;ucsc.edu	37	chr16	20998759	20998759	+	Frame_Shift_Del	DEL	T	T	-																															tggatccaaagccggatacaTttttctacatcctaaaaatc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	20998759	T	-	20998759	7	5	331	1	0	1	0	1	0	0	0	0	4603	1490	52	0	5519	0	DNAH3	16	20998759	Frame_Shift_Del	DEL	T	TCGA-BP-5176-01A-01D-1429-08	346970	20998759	69355994	98	16693											
CD19	930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28944420	28944420	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgagggacagcctgaacCagagcctcagccagggtatg	11	4	13	13	1	1	2	1	1	0	1	1	4	1	3	5	2	4	1	5	2	2	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	28944420	C	T	28944420	4	4	331	1	0	0	0	0	0	1	0	0	2973	595	21	2	554	2	CD19	16	28944420	Nonsense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	7945661	28944420	61410333	99	16694											
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49557609	49557609	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcctcctgcccgtgcaCggcaaagatgtgctgctgca	6	10	11	14	2	0	1	0	0	0	1	2	1	2	1	3	1	5	5	3	1	1	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	49557609	C	A	49557609	3	1	331	1	0	0	0	0	1	0	0	0	17897	536	19	4	111	4	ZNF423	16	49557609	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	20613189	49557609	40797144	100	16695											
HERPUD1	9709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	56974151	56974151	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggggccaccgttgttaTgtacctgtaagcagatggtt	8	12	13	8	1	0	1	0	0	0	1	0	1	0	1	3	3	2	6	3	3	3	5	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	56974151	T	C	56974151	3	2	331	1	0	0	0	0	1	0	0	0	7063	1464	51	3	921	3	HERPUD1	16	56974151	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	7416542	56974151	33380602	101	16696											
SLC47A2	146802	broad.mit.edu;hgsc.bcm.edu	37	chr17	19582221	19582221	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaactgcctgtagccacTgcggaagcaaacaggagcaa	13	4	14	10	1	0	0	0	0	0	0	0	3	0	3	2	4	7	3	2	4	5	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	19582221	T	C	19582221	5	2	331	1	0	0	0	0	0	0	1	0	14650	1594	55	3	225	3	SLC47A2	17	19582221	Splice_Site	SNP	T	TCGA-BP-5176-01A-01D-1429-08		19582221	61612989	102	16697											
MAP2K3	5606	hgsc.bcm.edu	37	chr17	21207813	21207813	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttggcatcagtggctactTggtggactctgtggccaaga	7	12	13	9	0	2	1	1	0	1	1	2	2	2	2	1	5	1	2	1	5	2	3	rs74575904	bycluster;byfrequency	TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	21207813	T	G	21207813	3	3	331	1	0	0	0	0	1	0	0	0	9238	1821	63	5	674	5	MAP2K3	17	21207813	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	1625592	21207813	59987397	103	16698											
TP53I13	90313	broad.mit.edu;hgsc.bcm.edu	37	chr17	27896080	27896080	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgggagcccattgtcccgaGagcctgtggcctctgcctcc	4	8	13	16	2	1	1	0	0	1	1	3	3	3	2	6	2	3	0	6	2	0	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	27896080	G	A	27896080	2	1	331	1	0	0	0	0	0	0	0	1	16385	933	33	2		2	TP53I13	17	27896080	Silent	SNP	G	TCGA-BP-5176-01A-01D-1429-08	6688267	27896080	53299130	104	16699											
NF1	4763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29684022	29684022	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagcacccacatttacgtAaagtttcagtgtctgaatca	14	11	6	10	1	3	1	2	1	1	0	3	1	3	1	1	0	3	3	1	0	5	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	29684022	A	G	29684022	3	3	331	1	0	0	0	0	1	0	0	0	10356	363	13	3	8054	3	NF1	17	29684022	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	1787942	29684022	51511188	105	16700											
TMEM92	162461	broad.mit.edu;hgsc.bcm.edu	37	chr17	48356271	48356271	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagacagcccagtggatTgccgggggcccctggaactg	8	5	15	13	1	0	1	0	0	0	1	0	3	0	3	5	4	4	0	5	4	1	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	48356271	T	A	48356271	3	1	331	1	0	0	0	0	1	0	0	0	16220	1812	63	5	294	5	TMEM92	17	48356271	Missense_Mutation	SNP	T	TCGA-BP-5176-01A-01D-1429-08	18672249	48356271	32838939	106	16701											
SMAD2	4087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	45395769	45395769	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatatataacatgtggcaatCcttttcgatgggatacctgg	12	13	9	7	1	0	0	0	0	0	0	2	2	1	1	2	3	2	1	2	3	6	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	45395769	C	A	45395769	3	1	331	1	0	0	0	0	1	0	0	0	14760	855	30	4	1070	4	SMAD2	18	45395769	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08		45395769	32681479	107	16702											
ALPK2	115701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56204268	56204268	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactgcacttgggaaggaaAttgggaaaccttttcatggg	12	10	12	7	0	1	0	1	0	0	0	1	3	1	3	1	4	3	1	1	4	4	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	56204268	A	G	56204268	3	3	331	1	0	0	0	0	1	0	0	0	545	101	4	3	3397	3	ALPK2	18	56204268	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	10808499	56204268	21872980	108	16703											
SOCS6	9306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	67992983	67992983	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttgcaagagtttatgactCagtgcaaagtagtggtccca	11	11	12	7	0	1	2	1	1	0	1	2	2	2	2	1	2	2	5	1	2	4	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	67992983	C	T	67992983	3	4	331	1	0	0	0	0	1	0	0	0	14920	838	29	2	1081	2	SOCS6	18	67992983	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	11788715	67992983	10084265	109	16704											
FAM69C	125704	hgsc.bcm.edu;ucsc.edu	37	chr18	72109246	72109246	+	Frame_Shift_Del	DEL	A	A	-																															gactcgtaaatcacatcttgAaaaacagtcaaagaaattgc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	72109246	A	-	72109246	7	5	331	1	0	1	0	1	0	0	0	0	5604	246	9	0	285	0	FAM69C	18	72109246	Frame_Shift_Del	DEL	A	TCGA-BP-5176-01A-01D-1429-08	4116263	72109246	5968002	110	16705											
ZNF407	55628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72346444	72346444	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagactgaagaagaatctAatttcaatgaagaccattcc	16	11	7	7	0	2	6	1	3	1	4	3	7	3	6	2	0	0	0	2	0	6	4	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	72346444	A	C	72346444	3	2	331	1	0	0	0	0	1	0	0	0	17886	362	13	5	3471	5	ZNF407	18	72346444	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	237198	72346444	5730804	111	16706											
ZFR2	23217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3813874	3813874	+	Frame_Shift_Del	DEL	T	T	-																															aggtgacagatatggtgaccTgcatcctgggctcctcacag																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	3813874	T	-	3813874	7	5	331	1	0	1	0	1	0	0	0	0	17659	1580	55	0	657	0	ZFR2	19	3813874	Frame_Shift_Del	DEL	T	TCGA-BP-5176-01A-01D-1429-08		3813874	55315109	112	16707											
DNAJB1	3337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14627690	14627690	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccagagaatgggtcatcaAtgtccatgccttcctccccg	9	9	9	14	1	2	1	2	0	0	1	5	2	5	1	6	1	2	0	6	1	2	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		C	14627690	A	C	14627690	3	2	331	1	0	0	0	0	1	0	0	0	4615	101	4	5	650	5	DNAJB1	19	14627690	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	10813816	14627690	44501293	113	16708											
SYDE1	85360	hgsc.bcm.edu;ucsc.edu	37	chr19	15224541	15224561	+	In_Frame_Del	DEL	GGGCGGGACTTCCTGCCCTGT	GGGCGGGACTTCCTGCCCTGT	-																															ccggcgactggagcgtttgcGggcgggacttcctgccctgt																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	GGGCGGGACTTCCTGCCCTGT	GGGCGGGACTTCCTGCCCTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	15224561	GGGCGGGACTTCCTGCCCTGT	-	15224541	7	5	331	1	0	1	0	1	0	0	0	0	15434	1116	39	0	2005	0	SYDE1	19	15224541	In_Frame_Del	DEL	GGGCGGGACTTCCTGCCCTGT	TCGA-BP-5176-01A-01D-1429-08	596851	15224541	43904442	114	16709											
CDS2	8760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	5154171	5154171	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatttctgccacttaggaGtcagagtcagaagcaaaggt	12	11	11	7	0	3	2	2	0	1	2	3	3	3	3	1	2	2	2	1	2	4	3	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	5154171	G	T	5154171	3	4	331	1	0	0	0	0	1	0	0	0	3178	1020	36	4	66	4	CDS2	20	5154171	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08		5154171	57871349	115	16710											
SLC12A5	57468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44684805	44684805	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagatccagagtatcacagAtgagtcacgaggctcaatcc	13	8	9	11	1	3	4	3	1	0	3	5	5	5	4	2	1	0	2	2	1	3	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	44684805	A	T	44684805	3	4	331	1	0	0	0	0	1	0	0	0	14388	333	12	5	3015	5	SLC12A5	20	44684805	Missense_Mutation	SNP	A	TCGA-BP-5176-01A-01D-1429-08	39530634	44684805	18340715	116	16711											
PPP1R3D	5509	broad.mit.edu;hgsc.bcm.edu	37	chr20	58514505	58514505	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcggcggcctcgacgggcGgcgggaaatcgggcaccagg	7	3	19	12	7	0	0	0	0	0	0	3	2	0	1	2	7	0	1	2	7	1	0	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	58514505	G	A	58514505	3	1	331	1	0	0	0	0	1	0	0	0	12376	1116	39	1	421	1	PPP1R3D	20	58514505	Missense_Mutation	SNP	G	TCGA-BP-5176-01A-01D-1429-08	13829700	58514505	4511015	117	16712											
GABPA	2551	broad.mit.edu	37	chr21	27141472	27141472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgcaaagatgcagctcCatggaattgcccagccagtc	12	8	9	12	0	0	1	0	0	0	1	2	2	1	2	3	1	6	3	3	1	3	2	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		A	27141472	A	A	27141472	3	1	331	1	0	0	0	0	1	0	0	0	6157	594	21	4	1328	4	GABPA	21	27141472	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08		27141472	20988423	118	16713											
IFNAR1	3454	broad.mit.edu;hgsc.bcm.edu	37	chr21	34721421	34721421	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttaaaaaggaatcctggAaaccatttgtataaatggaa	17	13	7	4	0	0	0	0	0	0	0	1	3	1	3	2	3	1	1	2	3	9	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	34721421	A	T	34721421	2	4	331	1	0	0	0	0	0	0	0	1	7544	233	9	5		5	IFNAR1	21	34721421	Silent	SNP	A	TCGA-BP-5176-01A-01D-1429-08	7579949	34721421	13408474	119	16714											
CABIN1	23523	broad.mit.edu;hgsc.bcm.edu	37	chr22	24451598	24451598	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccactgcacagtcctggtCtgttggagacaggcgctcct	6	10	11	14	1	1	1	0	0	1	1	4	2	4	1	3	3	1	3	3	3	0	1	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		T	24451598	C	T	24451598	2	4	331	1	0	0	0	0	0	0	0	1	2528	912	32	2		2	CABIN1	22	24451598	Silent	SNP	C	TCGA-BP-5176-01A-01D-1429-08		24451598	26852968	120	16715											
SFI1	9814	hgsc.bcm.edu;ucsc.edu	37	chr22	31927108	31927108	+	Frame_Shift_Del	DEL	A	A	-																															ttggaagagtatttccctctAaagccaggtagtattagctc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	31927108	A	-	31927108	7	5	331	1	0	1	0	1	0	0	0	0	14158	363	13	0	341	0	SFI1	22	31927108	Frame_Shift_Del	DEL	A	TCGA-BP-5176-01A-01D-1429-08	7475510	31927108	19377458	121	16716											
ASMTL	8623	hgsc.bcm.edu	37	chrX	1522164	1522164	+	In_Frame_Del	DEL	A	A	-																															gaacatgctgcctgggcttcAgggggccactttggtggcca																								rs113329185		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	1522164	A	-	1522164	7	5	331	1	0	1	0	1	0	0	0	0	1046	201	7	0	5	0	ASMTL	23	1522164	In_Frame_Del	DEL	A	TCGA-BP-5176-01A-01D-1429-08		1522164	153748396	122	16717											
DMD	1756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	31792262	31792262	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tagtttggagatggcagtttCcttagtaaccacaggttgtg	9	14	12	6	0	0	1	0	0	0	1	1	2	1	1	2	3	1	5	2	3	3	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	31792262	C	G	31792262	3	3	331	1	0	0	0	0	1	0	0	0	4580	864	30	4	3964	4	DMD	23	31792262	Missense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	30270098	31792262	123478298	123	16718											
TBC1D8B	54885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	106109183	106109183	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcattctgcaaataaagactCactagctttatggacattca	14	13	5	9	0	4	1	3	0	1	1	4	2	4	2	0	1	2	2	0	1	5	6	novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		G	106109183	C	G	106109183	4	3	331	1	0	0	0	0	0	1	0	0	15625	838	29	4	2710	4	TBC1D8B	23	106109183	Nonsense_Mutation	SNP	C	TCGA-BP-5176-01A-01D-1429-08	74316921	106109183	49161377	124	16719											
ODZ1	0	hgsc.bcm.edu;ucsc.edu	37	chrX	124097394	124097394	+	Frame_Shift_Del	DEL	G	G	-																															ataaaaacataccttgagtaGatttttctacttctttcctc																								novel		TCGA-BP-5176-01A-01D-1429-08	TCGA-BP-5176-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	607eb48b-1647-4e35-ac60-f6c50341e304	b4effa58-b677-4f97-9653-38ca864a9114		-	124097394	G	-	124097394	7	5	331	1	0	1	0	1	0	0	0	0	10834	942	33	0	8117	0	ODZ1	23	124097394	Frame_Shift_Del	DEL	G	TCGA-BP-5176-01A-01D-1429-08	17988211	124097394	31173166	125	16720											
PTCHD2	57540	broad.mit.edu;ucsc.edu	37	chr1	11579432	11579432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaccagaattgcagccGgaagacctccctgcacttcc	9	7	8	17	1	0	2	0	0	0	2	2	3	2	3	6	1	4	2	6	1	2	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	11579432	A	A	11579432	3	1	332	1	0	0	0	0	1	0	0	0	12735	1116	39	1	1936	1	PTCHD2	1	11579432	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08		11579432	237671189	1	16721											
ANKRD13C	81573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70766485	70766485	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaactttttgttcattgtCtaatactacaaaagattcag	15	16	4	6	0	3	1	2	0	1	1	3	1	3	1	0	0	3	1	0	0	7	9	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	70766485	C	A	70766485	3	1	332	1	0	0	0	0	1	0	0	0	643	913	32	4	770	4	ANKRD13C	1	70766485	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08	59187053	70766485	178484136	2	16722											
CLCA2	9635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86913358	86913358	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgatgatttatgccaaTgtgaaacagggattttatcc	11	14	9	7	0	0	3	0	3	0	0	1	4	1	4	3	1	2	0	3	1	4	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		C	86913358	T	C	86913358	2	2	332	1	0	0	0	0	0	0	0	1	3458	1461	51	3		3	CLCA2	1	86913358	Silent	SNP	T	TCGA-BP-5177-01A-01D-1429-08	16146873	86913358	162337263	3	16723											
RBM8A	9939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	145508564	145508564	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcgcagaatatggggaaAttaaaaacattcatctcaac	18	10	6	7	1	2	1	2	0	1	1	4	2	2	2	0	2	2	1	0	2	8	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		C	145508564	A	C	145508564	3	2	332	1	0	0	0	0	1	0	0	0	13148	101	4	5	309	5	RBM8A	1	145508564	Missense_Mutation	SNP	A	TCGA-BP-5177-01A-01D-1429-08	58595206	145508564	103742057	4	16724											
KCNN3	3782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154705482	154705482	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaggcgggtactcaccatGatgccagtgaggagacagac	12	5	15	9	1	1	5	1	2	0	3	1	7	1	5	2	3	2	1	2	3	1	1	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	154705482	G	A	154705482	2	1	332	1	0	0	0	0	0	0	0	1	8080	1280	45	2		2	KCNN3	1	154705482	Silent	SNP	G	TCGA-BP-5177-01A-01D-1429-08	9196918	154705482	94545139	5	16725											
RFWD2	64326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	176055007	176055007	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgctaacgtgctattaTaccaaggctgtttctttgtc	8	17	8	8	1	1	1	0	1	1	0	2	1	1	1	1	1	4	4	1	1	5	7	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		C	176055007	T	C	176055007	3	2	332	1	0	0	0	0	1	0	0	0	13262	1406	49	3	1193	3	RFWD2	1	176055007	Missense_Mutation	SNP	T	TCGA-BP-5177-01A-01D-1429-08	21349525	176055007	73195614	6	16726											
NAV1	89796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201751584	201751584	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaaatgggcgcaagactagCttagatgtttccaacagtgc	12	10	11	8	1	0	2	0	0	0	2	1	2	1	2	1	1	3	4	1	1	6	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	201751584	C	T	201751584	2	4	332	1	0	0	0	0	0	0	0	1	10183	796	28	2		2	NAV1	1	201751584	Silent	SNP	C	TCGA-BP-5177-01A-01D-1429-08	25696577	201751584	47499037	7	16727											
NCKAP5	344148	broad.mit.edu;ucsc.edu	37	chr2	133540492	133540492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attggtaatgatctgagtgcGgactttgcctgacccttcga	8	13	11	9	2	1	3	0	3	1	0	2	5	1	4	2	2	2	1	2	2	1	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	133540492	A	A	133540492	3	1	332	1	0	0	0	0	1	0	0	0	10223	1116	39	1	1865	1	NCKAP5	2	133540492	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08		133540492	109658881	8	16728											
HOXD4	3233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	177016412	177016412	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aagtatgtggaccccaagttCcctccgtgcgaggagtattt	9	11	11	10	2	0	0	0	0	0	0	2	3	2	2	4	2	1	3	4	2	4	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		G	177016412	C	G	177016412	3	3	332	1	0	0	0	0	1	0	0	0	7324	854	30	4	53	4	HOXD4	2	177016412	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08	43475920	177016412	66182961	9	16729											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188246	10188246	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacacacgatgggcttctggTtaaccaaactgaattatttg	12	12	9	8	1	1	1	0	1	1	0	1	3	1	1	1	2	2	2	1	2	4	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	10188246	T	A	10188246	3	1	332	1	0	0	0	0	1	0	0	0	17161	1725	60	5	395	5	VHL	3	10188246	Missense_Mutation	SNP	T	TCGA-BP-5177-01A-01D-1429-08		10188246	187834184	10	16730											
SKIV2L	6499	broad.mit.edu;hgsc.bcm.edu	37	chr6	31928014	31928014	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaaaatggcagaggaagaCggatccctggtctcttttgg	11	9	13	8	1	1	3	0	0	1	3	3	5	2	5	1	5	0	1	1	5	3	2	rs146717555		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	31928014	C	T	31928014	3	4	332	1	0	0	0	0	1	0	0	0	14361	536	19	1	268	1	SKIV2L	6	31928014	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		31928014	139187053	11	16731											
AIM1	202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	106968602	106968602	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcagccagaaatgtcaccGgctttacatttgatgcagaa	13	10	9	9	1	2	3	2	1	0	2	2	3	2	3	2	1	3	2	2	1	3	3	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	106968602	G	A	106968602	2	1	332	1	0	0	0	0	0	0	0	1	430	1103	39	1		1	AIM1	6	106968602	Silent	SNP	G	TCGA-BP-5177-01A-01D-1429-08	75040588	106968602	64146465	12	16732											
KIAA1244	57221	hgsc.bcm.edu;ucsc.edu	37	chr6	138601236	138601236	+	Frame_Shift_Del	DEL	T	T	-																															ggtgctcgacaggaacatgcTtggagaggctggctattggg																								novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		-	138601236	T	-	138601236	7	5	332	1	0	1	0	1	0	0	0	0	8217	1609	56	0	2450	0	KIAA1244	6	138601236	Frame_Shift_Del	DEL	T	TCGA-BP-5177-01A-01D-1429-08	31632634	138601236	32513831	13	16733											
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21639591	21639591	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagcacaaatgatcttgttgCctcctgagattgtgtttaaa	12	14	8	7	0	1	2	0	2	1	1	2	3	2	2	2	0	2	3	2	0	4	5	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	21639591	C	T	21639591	3	4	332	1	0	0	0	0	1	0	0	0	4599	739	26	2	2912	2	DNAH11	7	21639591	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		21639591	137499072	14	16734											
KCTD7	154881	hgsc.bcm.edu;ucsc.edu	37	chr7	66103415	66103415	+	Frame_Shift_Del	DEL	A	A	-																															tgggactcatgccctattacAaaggtgagggtcagctgccc																								novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		-	66103415	A	-	66103415	7	5	332	1	0	1	0	1	0	0	0	0	8114	131	5	0	500	0	KCTD7	7	66103415	Frame_Shift_Del	DEL	A	TCGA-BP-5177-01A-01D-1429-08	44463824	66103415	93035248	15	16735											
NOL8	55035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95077535	95077535	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgatgcagaatcagcatCttcactgctactggagtgag	10	12	10	9	0	4	3	2	2	2	1	4	4	4	4	0	1	4	3	0	1	2	3	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	95077535	C	T	95077535	3	4	332	1	0	0	0	0	1	0	0	0	10527	913	32	2	2175	2	NOL8	9	95077535	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		95077535	46135896	16	16736											
BMS1	9790	hgsc.bcm.edu	37	chr10	43315792	43315792	+	Frame_Shift_Del	DEL	T	T	-																															ttgaaaatgttccctgtgaaTttgtgcagaactttgacccc																								novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		-	43315792	T	-	43315792	7	5	332	1	0	1	0	1	0	0	0	0	1472	1493	52	0	2747	0	BMS1	10	43315792	Frame_Shift_Del	DEL	T	TCGA-BP-5177-01A-01D-1429-08		43315792	92218955	17	16737											
EPS8L2	64787	broad.mit.edu	37	chr11	726936	726936	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcggagctggaagaactcatGaacaagtttcattccatgaa	14	10	9	8	1	2	3	2	2	0	1	4	5	3	5	1	2	3	2	1	2	5	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		C	726936	C	C	726936	3	2	332	1	0	0	0	0	1	0	0	0	5196	1290	45	4	2181	4	EPS8L2	11	726936	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08		726936	134279580	18	16738											
GNG3	2785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62475843	62475843	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggaacagcttaagattGaagccagcttgtgtcggata	11	11	13	6	1	0	2	0	1	0	1	1	4	0	4	1	3	4	2	1	3	4	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	62475843	G	T	62475843	4	4	332	1	0	0	0	0	0	1	0	0	6528	1291	45	4	78	4	GNG3	11	62475843	Nonsense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08	61748907	62475843	72530673	19	16739											
NXPH4	11247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57619419	57619419	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctggctctgtgccaaGcccttcaaagtcatctgtat	7	11	9	14	1	4	0	2	0	2	0	4	0	4	0	4	1	2	2	4	1	3	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	57619419	G	A	57619419	2	1	332	1	0	0	0	0	0	0	0	1	10793	962	34	2		2	NXPH4	12	57619419	Silent	SNP	G	TCGA-BP-5177-01A-01D-1429-08		57619419	76232476	20	16740											
SRGAP1	57522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	64377783	64377783	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagcagcaaacggagatgCgagttcagcttctccaggat	11	8	13	9	2	2	1	1	0	1	1	3	5	2	3	1	3	5	4	1	3	1	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	64377783	C	T	64377783	4	4	332	1	0	0	0	0	0	1	0	0	15146	760	27	1	130	1	SRGAP1	12	64377783	Nonsense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08	6758364	64377783	69474112	21	16741											
ADPRHL1	113622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	114107552	114107552	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctacctgtggtgagggcCtcggcggttgcgatgtgcat	5	10	16	10	3	0	1	0	1	0	0	1	2	0	1	3	4	4	2	3	4	1	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		G	114107552	C	G	114107552	3	3	332	1	0	0	0	0	1	0	0	0	332	680	24	4	891	4	ADPRHL1	13	114107552	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		114107552	1062326	22	16742											
SMOC1	64093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	70459140	70459140	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaccctcaattcagatgacgGgtctaagccgacacccacga	13	6	8	14	3	3	2	2	1	1	1	3	4	3	2	3	1	2	0	3	1	3	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	70459140	G	A	70459140	3	1	332	1	0	0	0	0	1	0	0	0	14803	1232	43	2	555	2	SMOC1	14	70459140	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08		70459140	36890400	23	16743											
UBR7	55148	hgsc.bcm.edu;ucsc.edu	37	chr14	93686659	93686659	+	Frame_Shift_Del	DEL	A	A	-																															cgacacagttctggcttatgAaaacaaagggaagattgccc																								novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		-	93686659	A	-	93686659	7	5	332	1	0	1	0	1	0	0	0	0	16905	246	9	0	1059	0	UBR7	14	93686659	Frame_Shift_Del	DEL	A	TCGA-BP-5177-01A-01D-1429-08	23227519	93686659	13662881	24	16744											
TECPR2	9895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102901086	102901086	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actttttgtgaagtccccctCctgaactcactcactgtgcc	7	13	6	15	0	2	2	2	2	0	0	4	2	4	2	4	0	2	0	4	0	2	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	102901086	C	T	102901086	2	4	332	1	0	0	0	0	0	0	0	1	15743	842	30	2		2	TECPR2	14	102901086	Silent	SNP	C	TCGA-BP-5177-01A-01D-1429-08	9214427	102901086	4448454	25	16745											
MAPKBP1	23005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42108803	42108803	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctgaaggtggaggccCatgactctgagattctgtgc	9	10	14	8	0	2	4	0	3	2	2	2	6	2	5	1	3	2	1	1	3	1	1	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	42108803	C	A	42108803	3	1	332	1	0	0	0	0	1	0	0	0	9292	594	21	4	1608	4	MAPKBP1	15	42108803	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		42108803	60422589	26	16746											
PLA2G4F	255189	broad.mit.edu;hgsc.bcm.edu	37	chr15	42446347	42446347	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacacttgaggcttctcagGtcaaacaggagcagagagag	13	6	12	10	0	2	3	2	1	1	2	3	5	2	4	1	3	2	2	1	3	1	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	42446347	G	A	42446347	2	1	332	1	0	0	0	0	0	0	0	1	12006	1252	44	2		2	PLA2G4F	15	42446347	Silent	SNP	G	TCGA-BP-5177-01A-01D-1429-08	337544	42446347	60085045	27	16747											
TBC1D24	57465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2546654	2546654	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccccggcaggaggctgAtcgaccagagcttcctggcc	8	6	13	14	2	0	3	0	2	0	1	2	5	1	4	5	4	1	3	5	4	0	1	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		G	2546654	A	G	2546654	3	3	332	1	0	0	0	0	1	0	0	0	15613	333	12	3	507	3	TBC1D24	16	2546654	Missense_Mutation	SNP	A	TCGA-BP-5177-01A-01D-1429-08		2546654	87808099	28	16748											
TOB1	10140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48941286	48941286	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttaagaagtctttcaagTtcttcaccaaaaatgttgac	13	15	5	8	0	5	2	2	1	3	1	5	2	5	2	1	0	0	2	1	0	5	6	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		C	48941286	T	C	48941286	2	2	332	1	0	0	0	0	0	0	0	1	16346	1722	60	3		3	TOB1	17	48941286	Silent	SNP	T	TCGA-BP-5177-01A-01D-1429-08		48941286	32253924	29	16749											
ABCA8	10351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66881449	66881449	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatccagccacagagaatAcagtgacctaaaagaagcaa	20	4	7	10	0	0	3	0	1	0	2	1	4	1	3	3	0	3	1	3	0	7	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		G	66881449	A	G	66881449	3	3	332	1	0	0	0	0	1	0	0	0	38	391	14	3	1484	3	ABCA8	17	66881449	Missense_Mutation	SNP	A	TCGA-BP-5177-01A-01D-1429-08	17940163	66881449	14313761	30	16750											
CABLES1	91768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	20716478	20716478	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagggaatcctgcccatcgCcttctccaggccgacttcgc	6	9	9	17	3	2	0	1	0	1	0	6	2	3	1	5	2	1	0	5	2	1	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	20716478	C	T	20716478	3	4	332	1	0	0	0	0	1	0	0	0	2529	739	26	2	754	2	CABLES1	18	20716478	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		20716478	57360770	31	16751											
GALNT1	2589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33272259	33272259	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcctgattctcaaattcCacgtcactatttctcattgg	10	16	4	11	1	3	1	3	1	2	0	7	1	5	1	2	1	0	0	2	1	3	6	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	33272259	C	A	33272259	3	1	332	1	0	0	0	0	1	0	0	0	6207	594	21	4	1304	4	GALNT1	18	33272259	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08	12555781	33272259	44804989	32	16752											
TBXA2R	6915	broad.mit.edu	37	chr19	3600380	3600380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggcgtgctgggacaccaCgatggtaccggtcaccagca	8	5	14	14	5	1	0	1	0	0	0	1	2	1	1	3	4	3	3	3	4	1	1	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	3600380	T	T	3600380	3	4	332	1	0	0	0	0	1	0	0	0	15662	536	19	1	1031	1	TBXA2R	19	3600380	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		3600380	55528603	33	16753											
TIMM44	10469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7999040	7999040	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttggataccgactcggcCgactgcttggccgtcttggc	4	11	12	14	4	1	0	0	0	1	0	2	3	1	1	4	4	2	1	4	4	1	4	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	7999040	C	T	7999040	2	4	332	1	0	0	0	0	0	0	0	1	15911	639	23	1		1	TIMM44	19	7999040	Silent	SNP	C	TCGA-BP-5177-01A-01D-1429-08	4398660	7999040	51129943	34	16754											
NCAN	1463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19329874	19329874	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcccgagatgcccctcGgataaagtggaccaaggtgc	10	5	13	13	3	0	1	0	0	0	1	1	4	0	3	4	3	3	1	4	3	3	1	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	19329874	G	T	19329874	3	4	332	1	0	0	0	0	1	0	0	0	10204	1116	39	4	230	4	NCAN	19	19329874	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08	11330834	19329874	39799109	35	16755											
TSSK6	83983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19625999	19625999	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtttcccgttgcacacctCgatgaactcgaagacgtgca	10	9	9	13	4	0	2	0	1	0	1	3	4	1	2	2	0	3	4	2	0	2	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	19625999	C	T	19625999	3	4	332	1	0	0	0	0	1	0	0	0	16671	893	31	1	587	1	TSSK6	19	19625999	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08	296125	19625999	39502984	36	16756											
SPIB	6689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50926877	50926877	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcagaccctggttcccccgGcatatgccccgtaccccagc	6	6	9	20	3	0	1	0	0	0	1	1	1	1	1	7	2	3	4	7	2	2	3	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	50926877	G	A	50926877	3	1	332	1	0	0	0	0	1	0	0	0	15051	1203	42	2	373	2	SPIB	19	50926877	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08	31300878	50926877	8202106	37	16757											
ZNF480	147657	broad.mit.edu;hgsc.bcm.edu	37	chr19	52825621	52825621	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagagaaaccttacaaatGtaatgaatgtggaaaggtct	16	10	11	4	0	1	2	0	1	1	1	1	5	1	4	1	3	2	1	1	3	6	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		A	52825621	G	A	52825621	3	1	332	1	0	0	0	0	1	0	0	0	17934	1377	48	2	1132	2	ZNF480	19	52825621	Missense_Mutation	SNP	G	TCGA-BP-5177-01A-01D-1429-08	1898744	52825621	6303362	38	16758											
ZNF304	57343	hgsc.bcm.edu;ucsc.edu	37	chr19	57865095	57865095	+	Frame_Shift_Del	DEL	T	T	-																															ctgtacttatcatggcagagTtgtgtgaccttcgaggatgt																								novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		-	57865095	T	-	57865095	7	5	332	1	0	1	0	1	0	0	0	0	17832	1722	60	0	42	0	ZNF304	19	57865095	Frame_Shift_Del	DEL	T	TCGA-BP-5177-01A-01D-1429-08	5039474	57865095	1263888	39	16759											
OGFR	11054	hgsc.bcm.edu	37	chr20	61444720	61444720	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcggagaccccaggccccAgcccggcaggacctacaagg	10	2	12	17	2	0	1	0	0	0	1	1	3	0	2	6	5	2	1	6	5	2	1	rs79127826		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		C	61444720	A	C	61444720	3	2	332	1	0	0	0	0	1	0	0	0	10843	188	7	5	1779	5	OGFR	20	61444720	Missense_Mutation	SNP	A	TCGA-BP-5177-01A-01D-1429-08		61444720	1580800	40	16760											
WNT7B	7477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	46319160	46319160	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcaggttttggtggtgCaggagccagacacgccgtgg	7	8	16	10	2	0	1	0	0	0	1	1	2	1	2	3	5	3	3	3	5	0	2	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		T	46319160	C	T	46319160	3	4	332	1	0	0	0	0	1	0	0	0	17394	710	25	2	427	2	WNT7B	22	46319160	Missense_Mutation	SNP	C	TCGA-BP-5177-01A-01D-1429-08		46319160	4985406	41	16761											
CXorf26	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	75397644	75397644	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatagtggagaagaaaaAgaggaaggaatcaacagaga	20	4	14	3	0	1	5	1	1	0	4	1	9	1	7	0	3	1	1	0	3	7	1	novel		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad4cc7e3-c4d1-4cc0-9c93-33b47dadaaae	5b505dca-8443-4884-90a8-4514479783f8		G	75397644	A	G	75397644	2	3	332	1	0	0	0	0	0	0	0	1	4104	69	3	3		3	CXorf26	23	75397644	Silent	SNP	A	TCGA-BP-5177-01A-01D-1429-08		75397644	79872916	42	16762											
TINAGL1	64129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32042883	32042883	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcatccgggacgcgggagGccggtactgccaggagcagg	7	3	20	11	4	0	0	0	0	0	0	1	3	1	3	3	7	3	3	3	7	1	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	32042883	G	A	32042883	3	1	333	1	0	0	0	0	1	0	0	0	15921	1203	42	2	136	2	TINAGL1	1	32042883	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		32042883	217207738	1	16763											
KHDRBS1	10657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32504213	32504213	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaaggctattacagccagAgtcaagggtgagtcaggcag	13	6	14	8	1	2	2	2	1	0	1	2	3	2	2	1	3	2	2	1	3	4	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	32504213	A	T	32504213	3	4	333	1	0	0	0	0	1	0	0	0	8146	304	11	5	1194	5	KHDRBS1	1	32504213	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	461330	32504213	216746408	2	16764											
COPA	1314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160302290	160302290	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggctgatactaccaaGtcttctgtggggtggaactg	8	11	14	8	0	2	1	0	1	2	0	2	2	2	2	1	5	3	2	1	5	4	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		C	160302290	G	C	160302290	3	2	333	1	0	0	0	0	1	0	0	0	3727	1020	36	4	3369	4	COPA	1	160302290	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	127798077	160302290	88948331	3	16765											
KIF26B	55083	broad.mit.edu	37	chr1	245848753	245848753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctcctgcgaagaaggccGcatgcgcaggcccacccagc	9	3	13	16	3	0	1	0	0	0	1	1	3	1	1	4	2	4	3	4	2	2	0	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	245848753	A	A	245848753	3	1	333	1	0	0	0	0	1	0	0	0	8295	1087	38	1	2514	1	KIF26B	1	245848753	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	85546463	245848753	3401868	4	16766											
GPR148	344561	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	131487497	131487497	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggcagggctattcccGggccaggggcaccctgctga	5	6	17	13	1	0	1	0	1	0	0	1	1	1	1	3	6	1	4	3	6	1	2	rs113110453	byfrequency;alternate_allele	TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	131487497	G	T	131487497	3	4	333	1	0	0	0	0	1	0	0	0	6653	1116	39	4	775	4	GPR148	2	131487497	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		131487497	111711876	5	16767											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	142238027	142238027	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacaccattgcacagctggGataaatgaacacatttgttg	14	10	9	8	0	0	2	0	1	0	1	0	3	0	3	1	1	3	3	1	1	3	4	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	142238027	G	T	142238027	3	4	333	1	0	0	0	0	1	0	0	0	8955	1174	41	4	13874	4	LRP1B	2	142238027	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	10750530	142238027	100961346	6	16768											
NFE2L2	4780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178098956	178098956	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacttctcgacttactccaAgatctatatcttgcctccaa	11	14	3	13	1	3	1	0	0	3	1	6	2	5	1	3	0	3	0	3	0	6	6	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	178098956	A	T	178098956	3	4	333	1	0	0	0	0	1	0	0	0	10368	72	3	5	1744	5	NFE2L2	2	178098956	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	35860929	178098956	65100417	7	16769											
CPS1	1373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	211473212	211473212	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attacatggtcaccaagattCcccgctgggatcttgaccgt	9	11	9	12	2	2	2	1	1	1	1	3	3	3	3	4	2	1	1	4	2	2	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	211473212	C	A	211473212	3	1	333	1	0	0	0	0	1	0	0	0	3823	855	30	4	2416	4	CPS1	2	211473212	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08	33374256	211473212	31726161	8	16770											
SCG2	7857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	224463615	224463615	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catagggcttattttcttttGgtgcagactgaggctcattt	7	17	10	7	0	2	2	1	1	1	1	2	2	2	2	0	3	1	3	0	3	2	7	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	224463615	G	A	224463615	3	1	333	1	0	0	0	0	1	0	0	0	13893	1348	47	2	1471	2	SCG2	2	224463615	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	12990403	224463615	18735758	9	16771											
STT3B	201595	hgsc.bcm.edu	37	chr3	31659455	31659456	+	Frame_Shift_Ins	INS	-	-	G																															cattgcaccatggagtggcaINSggttttattcattgtgggat																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	31659456	-	G	31659455	7	5	333	1	0	1	1	0	0	0	0	0	15335	179	7	0	1177	0	STT3B	3	31659455	Frame_Shift_Ins	INS	-	TCGA-BP-5178-01A-01D-1429-08		31659455	166362975	10	16772											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47142967	47142967	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatatctctggaactgatAgtcaaacgttaactctgagc	12	11	7	11	1	3	2	1	2	2	0	4	3	3	3	1	1	4	1	1	1	5	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	47142967	A	G	47142967	3	3	333	1	0	0	0	0	1	0	0	0	14133	420	15	3	2754	3	SETD2	3	47142967	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	15483512	47142967	150879463	11	16773											
SENP7	57337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	101060582	101060582	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaccgctactttgcttctgCaggaaggtgtaagtaggctt	9	12	11	9	1	1	0	0	0	1	0	1	1	1	1	1	3	4	6	1	3	5	6	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	101060582	C	A	101060582	2	1	333	1	0	0	0	0	0	0	0	1	14053	697	25	4		4	SENP7	3	101060582	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08	53917615	101060582	96961848	12	16774											
TP63	8626	broad.mit.edu;hgsc.bcm.edu	37	chr3	189586483	189586483	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caagtttcggacagtacaaaGaacggtgatggtacgaagcg	14	7	13	7	4	0	2	0	1	0	1	1	4	0	3	0	3	4	3	0	3	6	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		C	189586483	G	C	189586483	3	2	333	1	0	0	0	0	1	0	0	0	16391	933	33	4	1183	4	TP63	3	189586483	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	88525901	189586483	8435947	13	16775											
SEMA6A	57556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	115803361	115803361	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcagatgcttccagtcCagcattcctcccctagactc	9	10	6	16	0	1	2	1	0	0	2	6	2	5	2	5	0	3	3	5	0	2	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	115803361	C	G	115803361	2	3	333	1	0	0	0	0	0	0	0	1	14041	581	21	4		4	SEMA6A	5	115803361	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08		115803361	65111899	14	16776											
DNAJC18	202052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138749940	138749940	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatctctgtataatcctGccaaatttgtcagctctgac	9	15	6	11	0	4	1	2	1	2	0	6	1	5	1	2	0	2	3	2	0	3	4	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	138749940	G	A	138749940	3	1	333	1	0	0	0	0	1	0	0	0	4637	1319	46	2	106	2	DNAJC18	5	138749940	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	22946579	138749940	42165320	15	16777											
PCDHGA1	56114	broad.mit.edu;hgsc.bcm.edu	37	chr5	140712520	140712520	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcagacctattcccacgagGtctccctcactgcggactcg	7	9	9	16	3	2	1	1	0	1	1	5	3	3	2	3	2	2	1	3	2	1	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	140712520	G	T	140712520	3	4	333	1	0	0	0	0	1	0	0	0	11550	1261	44	4	2271	4	PCDHGA1	5	140712520	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	1962580	140712520	40202740	16	16778											
SLC35B3	51000	hgsc.bcm.edu;ucsc.edu	37	chr6	8417152	8417152	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaccaaaaattttaatcAaagccagaacaaaggagatt	19	8	7	7	0	1	2	1	0	0	2	1	3	1	2	2	1	3	1	2	1	6	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	8417152	A	T	8417152	4	4	333	1	0	0	0	0	0	1	0	0	14579	131	5	5	267	5	SLC35B3	6	8417152	Nonsense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08		8417152	162697915	17	16779											
C2	717	broad.mit.edu;hgsc.bcm.edu	37	chr6	31912529	31912529	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagctgtgccgaggttgtctCccaagaaaaaaccatgttcc	12	9	9	11	1	1	1	0	0	1	1	3	2	2	1	4	1	3	3	4	1	5	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	31912529	C	T	31912529	3	4	333	1	0	0	0	0	1	0	0	0	2074	855	30	2	2067	2	C2	6	31912529	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08	23495377	31912529	139202538	18	16780											
GRIK2	2898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	102503298	102503298	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaaatggtggaggggcaAtggttgcccagaagaggaga	13	5	19	4	0	0	4	0	0	0	4	0	7	0	5	1	7	1	2	1	7	3	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	102503298	A	G	102503298	3	3	333	1	0	0	0	0	1	0	0	0	6774	101	4	3	2463	3	GRIK2	6	102503298	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	70590769	102503298	68611769	19	16781											
ACHE	43	hgsc.bcm.edu;ucsc.edu	37	chr7	100490365	100490367	+	In_Frame_Del	DEL	GTT	GTT	-																															gcccggctgatgagagactcGttgtctttgctgaagcctgg																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		-	100490367	GTT	-	100490365	7	5	333	1	0	1	0	1	0	0	0	0	141	1136	40	0	848	0	ACHE	7	100490365	In_Frame_Del	DEL	GTT	TCGA-BP-5178-01A-01D-1429-08		100490365	58648298	20	16782											
SMO	6608	broad.mit.edu	37	chr7	128852025	128852025	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccctgcccctgcccccagTaccattcctcgactgcctca	5	8	5	23	1	1	0	1	0	0	0	3	1	2	0	9	0	4	1	9	0	1	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	128852025	G	G	128852025	3	3	333	1	0	0	0	0	1	0	0	0	14802	1635	57	5	2143	5	SMO	7	128852025	Missense_Mutation	SNP	T	TCGA-BP-5178-01A-01D-1429-08	28361660	128852025	30286638	21	16783											
RBM33	155435	broad.mit.edu	37	chr7	155465597	155465597	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacttggagaagatttgctAtctggcaaaaaggtaagaag	15	11	11	4	0	1	3	0	0	1	3	1	4	1	3	0	3	2	3	0	3	7	5	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	155465597	T	T	155465597	2	4	333	1	0	0	0	0	0	0	0	1	13132	436	16	5		5	RBM33	7	155465597	Silent	SNP	A	TCGA-BP-5178-01A-01D-1429-08	26613572	155465597	3673066	22	16784											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106813670	106813670	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctttctcacgaaccagagaCcagagatacagcctacaaca	15	7	6	13	1	2	2	1	0	2	2	3	5	2	2	3	0	5	0	3	0	4	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	106813670	C	A	106813670	3	1	333	1	0	0	0	0	1	0	0	0	17657	507	18	4	1390	4	ZFPM2	8	106813670	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08		106813670	39550352	23	16785											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110476839	110476839	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggatgaacaaccaccctgAtgggccatcctatgacagaa	13	6	9	13	1	0	4	0	3	0	1	1	5	1	5	5	2	2	0	5	2	4	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	110476839	A	T	110476839	3	4	333	1	0	0	0	0	1	0	0	0	11972	333	12	5	7972	5	PKHD1L1	8	110476839	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	3663169	110476839	35887183	24	16786											
ZRANB1	54764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	126670374	126670374	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggcaagaagactgggcAtttatactctctcttgctag	10	12	10	9	0	2	2	0	0	2	2	3	2	2	2	0	2	2	3	0	2	5	5	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	126670374	A	G	126670374	2	3	333	1	0	0	0	0	0	0	0	1	18221	204	8	3		3	ZRANB1	10	126670374	Silent	SNP	A	TCGA-BP-5178-01A-01D-1429-08		126670374	8864373	25	16787											
UEVLD	55293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18600293	18600293	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtgtccatggaatatttGaaatgtgggaaaaatacatt	15	13	10	3	0	0	1	0	1	0	0	1	3	1	3	1	3	1	0	1	3	7	5	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	18600293	G	T	18600293	3	4	333	1	0	0	0	0	1	0	0	0	16932	1281	45	4	1354	4	UEVLD	11	18600293	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		18600293	116406223	26	16788											
MS4A3	932	broad.mit.edu;hgsc.bcm.edu	37	chr11	59834429	59834429	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattcttttttagatacaGaacagttttggaatgaacat	13	17	6	5	0	1	3	0	1	1	2	1	4	1	4	0	1	3	1	0	1	6	8	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	59834429	G	T	59834429	3	4	333	1	0	0	0	0	1	0	0	0	9861	933	33	4	371	4	MS4A3	11	59834429	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	41234136	59834429	75172087	27	16789											
EHBP1L1	254102	broad.mit.edu	37	chr11	65346872	65346872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaccgtggtgtggatggtaCctgagaatgtggacatctct	8	11	14	8	1	1	1	0	1	1	1	2	4	1	3	2	4	1	2	2	4	2	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	65346872	T	T	65346872	3	4	333	1	0	0	0	0	1	0	0	0	4976	507	18	2	233	2	EHBP1L1	11	65346872	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08	5512443	65346872	69659644	28	16790											
RSF1	51773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77412660	77412660	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaagaatcaagagaagtTtccatttctggaggatcggg	13	10	12	6	1	3	3	2	0	1	3	5	6	4	5	1	3	0	1	1	3	4	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	77412660	T	G	77412660	3	3	333	1	0	0	0	0	1	0	0	0	13701	1838	64	5	2755	5	RSF1	11	77412660	Missense_Mutation	SNP	T	TCGA-BP-5178-01A-01D-1429-08	12065788	77412660	57593856	29	16791											
FOXRED1	55572	broad.mit.edu;hgsc.bcm.edu	37	chr11	126146919	126146919	+	RNA	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaaacaagtctgggcctgtCcttgtgtcccaggcaatgta	9	12	10	10	0	1	0	0	0	1	0	3	0	3	0	3	2	1	2	3	2	5	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	126146919	C	T	126146919	1	4	333	0	1	0	0	0	0	0	0	0	6033	870	30	2		2	FOXRED1	11	126146919	RNA	SNP	C	TCGA-BP-5178-01A-01D-1429-08	48734259	126146919	8859597	30	16792											
FLI1	2313	broad.mit.edu;ucsc.edu	37	chr11	128680490	128680490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggccaggcgctggggCgagcggaaaagcaagcccaa	11	2	18	10	3	0	0	0	0	0	0	0	3	0	1	2	6	3	2	2	6	4	0	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	128680490	T	T	128680490	2	4	333	1	0	0	0	0	0	0	0	1	5924	755	27	1		1	FLI1	11	128680490	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08	2533571	128680490	6326026	31	16793											
ARNTL2	56938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27529304	27529304	+	Frame_Shift_Del	DEL	A	A	-																															aagatggtgaacaccaagttAaaatgaaggccttcaggtac																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		-	27529304	A	-	27529304	7	5	333	1	0	1	0	1	0	0	0	0	968	363	13	0	324	0	ARNTL2	12	27529304	Frame_Shift_Del	DEL	A	TCGA-BP-5178-01A-01D-1429-08		27529304	106322591	32	16794											
ADAMTS20	80070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	43777521	43777521	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaatcttttctctcacatGatgttgaacactagaaatgc	12	14	7	8	0	3	4	1	3	2	1	4	4	3	4	0	0	2	1	0	0	4	4	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	43777521	G	A	43777521	3	1	333	1	0	0	0	0	1	0	0	0	266	1294	45	2	1130	2	ADAMTS20	12	43777521	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	16248217	43777521	90074374	33	16795											
MUCL1	118430	broad.mit.edu	37	chr12	55250594	55250594	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgatgctgaaaccacTgctgctgcaaccactgcaac	10	7	8	16	0	0	2	0	2	0	0	0	2	0	2	4	0	8	5	4	0	3	0	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	55250594	A	A	55250594	2	1	333	1	0	0	0	0	0	0	0	1	9982	1567	55	5		5	MUCL1	12	55250594	Silent	SNP	T	TCGA-BP-5178-01A-01D-1429-08	11473073	55250594	78601301	34	16796											
ERCC5	2073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103520522	103520522	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagtgattataccgaaGgaataccaactgtgggttgt	12	12	12	5	1	0	1	0	1	0	0	0	4	0	3	2	3	3	1	2	3	7	5	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	103520522	G	A	103520522	3	1	333	1	0	0	0	0	1	0	0	0	5216	1001	35	2	2639	2	ERCC5	13	103520522	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		103520522	11649356	35	16797											
TEP1	7011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	20847178	20847178	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagagctccaggagcccGtcgaaggcagtaagaaagag	13	4	13	11	2	0	3	0	0	0	3	3	5	2	4	3	2	2	3	3	2	3	1	rs138032035		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	20847178	G	A	20847178	2	1	333	1	0	0	0	0	0	0	0	1	15758	1136	40	1		1	TEP1	14	20847178	Silent	SNP	G	TCGA-BP-5178-01A-01D-1429-08		20847178	86502362	36	16798											
C14orf101	54916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	57070637	57070637	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaggtttttagcttaaacaAtctctttgtggggctgctta	9	16	10	6	0	1	1	0	0	1	1	2	1	1	1	0	3	3	4	0	3	5	6	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	57070637	A	G	57070637	3	3	333	1	0	0	0	0	1	0	0	0	1734	101	4	3	463	3	C14orf101	14	57070637	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	36223459	57070637	50278903	37	16799											
C15orf60	283677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	73843391	73843391	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacataaccgtgcaggtgcCtgatggaaacatccaggagc	13	7	11	10	1	0	1	0	1	0	0	1	3	1	3	3	3	6	1	3	3	3	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	73843391	C	T	73843391	3	4	333	1	0	0	0	0	1	0	0	0	1808	681	24	2	460	2	C15orf60	15	73843391	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08		73843391	28688001	38	16800											
ADAMTS17	170691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	100594117	100594117	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttaccatcaagtgcagcggTagtttggttggtcccttggc	6	13	13	9	1	1	0	1	0	0	0	2	0	2	0	2	4	3	5	2	4	3	5	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		C	100594117	T	C	100594117	2	2	333	1	0	0	0	0	0	0	0	1	262	1625	57	3		3	ADAMTS17	15	100594117	Silent	SNP	T	TCGA-BP-5178-01A-01D-1429-08	26750726	100594117	1937275	39	16801											
PDXDC1	23042	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15126793	15126793	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatccatgctggactcctGaagaagttaaatgaactgga	15	9	9	8	0	0	3	0	2	0	1	2	5	2	5	2	2	3	2	2	2	6	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	15126793	G	T	15126793	2	4	333	1	0	0	0	0	0	0	0	1	11696	1277	45	4		4	PDXDC1	16	15126793	Silent	SNP	G	TCGA-BP-5178-01A-01D-1429-08		15126793	75227960	40	16802											
ZNF747	65988	broad.mit.edu	37	chr16	30545836	30545836	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacagggccctctgcgcgggCcgcaggcagccccactcctc	5	5	12	19	3	1	0	0	0	1	0	3	0	2	0	5	3	3	2	5	3	1	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	30545836	A	A	30545836	2	1	333	1	0	0	0	0	0	0	0	1	18129	726	26	4		4	ZNF747	16	30545836	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08	15419043	30545836	59808917	41	16803											
SLC9A5	6553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67290936	67290936	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttgctctcgtcatcctaCtggataggaccaaggtccct	7	12	8	14	1	2	0	1	0	1	0	5	2	4	2	4	3	2	1	4	3	3	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	67290936	C	T	67290936	2	4	333	1	0	0	0	0	0	0	0	1	14719	564	20	2		2	SLC9A5	16	67290936	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08	36745100	67290936	23063817	42	16804											
MON1B	22879	hgsc.bcm.edu;ucsc.edu	37	chr16	77228407	77228409	+	In_Frame_Del	DEL	CCT	CCT	-																															gcacacaagcagaactatgaCctccgccgcctgctggctgg																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		-	77228409	CCT	-	77228407	7	5	333	1	0	1	0	1	0	0	0	0	9699	506	18	0	661	0	MON1B	16	77228407	In_Frame_Del	DEL	CCT	TCGA-BP-5178-01A-01D-1429-08	9937471	77228407	13126346	43	16805											
ZNF207	7756	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30692370	30692370	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcccccacctgttccacGtcctggaattcctccaatga	8	11	6	16	1	0	1	0	1	0	0	4	2	4	2	7	1	1	1	7	1	3	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	30692370	G	A	30692370	3	1	333	1	0	0	0	0	1	0	0	0	17764	1145	40	1	722	1	ZNF207	17	30692370	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		30692370	50502840	44	16806											
TOM1L1	10040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	53014035	53014035	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagaaaccaacaaaggattTtggagcaaaataagaaccag	20	6	8	7	0	0	2	0	0	0	2	0	4	0	4	2	2	4	1	2	2	8	4	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		C	53014035	T	C	53014035	2	2	333	1	0	0	0	0	0	0	0	1	16351	1838	64	3		3	TOM1L1	17	53014035	Silent	SNP	T	TCGA-BP-5178-01A-01D-1429-08	22321665	53014035	28181175	45	16807											
EPX	8288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56277703	56277703	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcggcaagtgaggaggattgGgctggacctggcagctctca	8	8	16	9	1	1	1	1	1	1	0	3	4	1	4	1	6	1	4	1	6	1	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	56277703	G	A	56277703	3	1	333	1	0	0	0	0	1	0	0	0	5200	1232	43	2	1693	2	EPX	17	56277703	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	3263668	56277703	24917507	46	16808											
AZI1	22994	broad.mit.edu;hgsc.bcm.edu	37	chr17	79166553	79166553	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggctgcctgctggccCagccgctccctctcctcagc	3	8	9	21	1	2	0	1	0	1	0	4	0	3	0	6	2	4	3	6	2	0	0	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	79166553	C	T	79166553	2	4	333	1	0	0	0	0	0	0	0	1	1240	581	21	2		2	AZI1	17	79166553	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08	22888850	79166553	2028657	47	16809											
B3GNTL1	146712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80915092	80915092	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatagaagcctttcctgaTcttgttctcgtccacgtcac	8	13	7	13	2	3	2	1	1	2	1	6	2	5	2	3	0	1	2	3	0	3	4	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	80915092	T	G	80915092	3	3	333	1	0	0	0	0	1	0	0	0	1265	1435	50	5	202	5	B3GNTL1	17	80915092	Missense_Mutation	SNP	T	TCGA-BP-5178-01A-01D-1429-08	1748539	80915092	280118	48	16810											
REXO1	57455	broad.mit.edu;hgsc.bcm.edu	37	chr19	1827759	1827759	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggtcccccacgtcgcaCtgcacggccgtctccttggt	4	9	12	16	4	1	0	0	0	1	0	4	1	2	1	4	4	1	2	4	4	0	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	1827759	C	A	1827759	3	1	333	1	0	0	0	0	1	0	0	0	13243	564	20	4	2696	4	REXO1	19	1827759	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08		1827759	57301224	49	16811											
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	31769985	31769985	+	Missense_Mutation	SNP	A	A	T																															tcatggttgtcgtcgcggtaAtgccccgtctcgttcatgtg																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	31769985	A	T	31769985	3	4	333	1	0	0	0	0	1	0	0	0	16624	98	4	5	2535	5	TSHZ3	19	31769985	Missense_Mutation	SNP	A	TCGA-BP-5178-01A-01D-1429-08	29942226	31769985	27358998	50	16812	224	2									
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	31769986	31769986	+	Missense_Mutation	SNP	T	T	A																															catggttgtcgtcgcggtaaTgccccgtctcgttcatgtgc																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	31769986	T	A	31769986	3	1	333	1	0	0	0	0	1	0	0	0	16624	1464	51	5	2536	5	TSHZ3	19	31769986	Missense_Mutation	SNP	T	TCGA-BP-5178-01A-01D-1429-08	1	31769986	27358997	51	16813	224	2									
PLEKHG2	64857	hgsc.bcm.edu;ucsc.edu	37	chr19	39914662	39914671	+	Frame_Shift_Del	DEL	CCTCCAGGTG	CCTCCAGGTG	-																															aagcaagaaggccccctgcaCctccaggtgccggctcttac																								novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	CCTCCAGGTG	CCTCCAGGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		-	39914671	CCTCCAGGTG	-	39914662	7	5	333	1	0	1	0	1	0	0	0	0	12069	506	18	0	2959	0	PLEKHG2	19	39914662	Frame_Shift_Del	DEL	CCTCCAGGTG	TCGA-BP-5178-01A-01D-1429-08	8144676	39914662	19214321	52	16814											
PRX	57716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40903260	40903260	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaggccaggtccaccccCacagtcggtgctgccacatc	8	5	11	17	1	0	0	0	0	0	0	3	0	1	0	5	4	2	2	5	4	1	0	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	40903260	C	T	40903260	2	4	333	1	0	0	0	0	0	0	0	1	12644	581	21	2		2	PRX	19	40903260	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08	988598	40903260	18225723	53	16815											
GIPR	2696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46174612	46174612	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacccaatgccactgcccGtgcgtcctgcccctggtacc	5	8	9	19	2	0	0	0	0	0	0	1	0	1	0	7	1	6	2	7	1	2	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	46174612	G	A	46174612	3	1	333	1	0	0	0	0	1	0	0	0	6395	1145	40	1	252	1	GIPR	19	46174612	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	5271352	46174612	12954371	54	16816											
KLK6	5653	broad.mit.edu;hgsc.bcm.edu	37	chr19	51462556	51462556	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtctccacataccagcGgacccccagaatcaccctgc	9	6	9	17	1	2	1	1	0	1	1	3	2	2	2	5	3	3	0	5	3	2	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	51462556	G	A	51462556	3	1	333	1	0	0	0	0	1	0	0	0	8408	1116	39	1	139	1	KLK6	19	51462556	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	5287944	51462556	7666427	55	16817											
CACNG6	59285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54515324	54515324	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgagtactcctggtccctgGgctgcggcgtgggggccggc	3	7	18	13	4	0	0	0	0	0	0	2	1	2	0	3	6	2	2	3	6	1	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	54515324	G	A	54515324	3	1	333	1	0	0	0	0	1	0	0	0	2561	1232	43	2	678	2	CACNG6	19	54515324	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	3052768	54515324	4613659	56	16818											
PLCB1	23236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	8698474	8698474	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactcctccagcatgttcGagccctcatccccaggagcc	7	8	9	17	1	1	1	1	1	0	0	5	3	4	2	6	1	3	2	6	1	0	1	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	8698474	G	T	8698474	4	4	333	1	0	0	0	0	0	1	0	0	12027	1059	37	4	1546	4	PLCB1	20	8698474	Nonsense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		8698474	54327046	57	16819											
DIP2A	23181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47970565	47970565	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttctgaaaccaaacagcGctttctggaagggacgctgc	11	9	10	11	2	2	1	0	1	2	0	2	3	2	3	1	2	4	2	1	2	3	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	47970565	G	A	47970565	3	1	333	1	0	0	0	0	1	0	0	0	4527	1087	38	1	2919	1	DIP2A	21	47970565	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08		47970565	159330	58	16820											
NDUFA6	4700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42482196	42482196	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaatgacttcatggatcGtggccaacatagaacttgga	13	10	10	8	1	1	3	1	2	0	1	2	5	1	5	1	3	2	0	1	3	4	3	rs150607291	byfrequency	TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	42482196	G	A	42482196	2	1	333	1	0	0	0	0	0	0	0	1	10269	1136	40	1		1	NDUFA6	22	42482196	Silent	SNP	G	TCGA-BP-5178-01A-01D-1429-08		42482196	8822370	59	16821											
CELSR1	9620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	46793698	46793698	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaccttgagtgcgttgttCatgttcagggtggcgacgtt	5	14	14	8	3	2	2	2	2	0	0	2	3	2	2	1	2	1	4	1	2	0	5	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	46793698	C	T	46793698	3	4	333	1	0	0	0	0	1	0	0	0	3221	826	29	2	3566	2	CELSR1	22	46793698	Missense_Mutation	SNP	C	TCGA-BP-5178-01A-01D-1429-08	4311502	46793698	4510868	60	16822											
SBF1	6305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50893063	50893063	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcttcctctgggggttcagGgggcccctgggccagttccc	2	11	14	14	0	3	0	1	0	2	0	5	0	5	0	5	5	0	2	5	5	0	4	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		A	50893063	G	A	50893063	3	1	333	1	0	0	0	0	1	0	0	0	13860	1232	43	2	784	2	SBF1	22	50893063	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	4099365	50893063	411503	61	16823											
CA5B	11238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	15790716	15790716	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctgagcacaccgtggaCagcaaatgcttcccagcaga	11	7	11	12	1	1	2	0	1	1	1	2	3	2	3	2	2	4	5	2	2	1	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	15790716	C	T	15790716	2	4	333	1	0	0	0	0	0	0	0	1	2520	477	17	2		2	CA5B	23	15790716	Silent	SNP	C	TCGA-BP-5178-01A-01D-1429-08		15790716	139479844	62	16824											
MED12	9968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	70341181	70341181	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccctggtacccataggatgGaatgctggacagacatgagt	11	8	12	10	0	0	2	0	1	0	1	0	5	0	5	3	4	2	2	3	4	3	2	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		T	70341181	G	T	70341181	3	4	333	1	0	0	0	0	1	0	0	0	9428	1174	41	4	762	4	MED12	23	70341181	Missense_Mutation	SNP	G	TCGA-BP-5178-01A-01D-1429-08	54550465	70341181	84929379	63	16825											
NONO	4841	broad.mit.edu;hgsc.bcm.edu	37	chrX	70516749	70516749	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggctcctttgagtaTgaatatgccatgcgctggaa	9	11	11	10	1	0	2	0	2	0	0	1	3	1	3	3	2	3	3	3	2	4	3	novel		TCGA-BP-5178-01A-01D-1429-08	TCGA-BP-5178-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	60888dc5-1408-4bfb-bf27-f3e22f5488e4	ff9ec7ea-b456-45d6-87bb-78d0a4546c3e		G	70516749	T	G	70516749	4	3	333	1	0	0	0	0	0	1	0	0	10534	1471	51	5	813	5	NONO	23	70516749	Nonsense_Mutation	SNP	T	TCGA-BP-5178-01A-01D-1429-08	175568	70516749	84753811	64	16826											
NIPAL3	57185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24766690	24766690	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattggcgccctcttggcgaTcttcgggcacctcgtggtca	4	11	13	13	4	3	0	1	0	2	0	5	2	3	0	2	4	0	1	2	4	0	3	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	24766690	T	A	24766690	3	1	334	1	0	0	0	0	1	0	0	0	10426	1435	50	5	128	5	NIPAL3	1	24766690	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08		24766690	224483931	1	16827											
IPP	3652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46184982	46184982	+	Missense_Mutation	SNP	G	G	C																															taactggatcatagcattcaGtacaatcaaaaatcattgaa																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	46184982	G	C	46184982	3	2	334	1	0	0	0	0	1	0	0	0	7800	1029	36	4	793	4	IPP	1	46184982	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	21418292	46184982	203065639	2	16828	225	2									
IPP	3652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46184983	46184983	+	Missense_Mutation	SNP	T	T	A																															aactggatcatagcattcagTacaatcaaaaatcattgaat																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	46184983	T	A	46184983	3	1	334	1	0	0	0	0	1	0	0	0	7800	1638	57	5	794	5	IPP	1	46184983	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08	1	46184983	203065638	3	16829	225	2									
LOC642587	0	broad.mit.edu	37	chr1	209605623	209605623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaccgccaccaccgccGccgccaccaccgtagcagca	9	1	8	23	5	0	0	0	0	0	0	0	0	0	0	10	0	3	3	10	0	1	1	rs12407854	byhapmap	TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	209605623	A	A	209605623	3	1	334	1	0	0	0	0	1	0	0	0	8882	1087	38	1	248	1	LOC642587	1	209605623	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	163420640	209605623	39644998	4	16830											
C2orf44	80304	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24261024	24261024	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcactgaaagtagagtaGgtagtctggctttcacctga	11	10	13	7	0	2	3	1	2	1	1	2	4	2	4	1	3	1	5	1	3	4	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	24261024	G	C	24261024	2	2	334	1	0	0	0	0	0	0	0	1	2168	987	35	4		4	C2orf44	2	24261024	Silent	SNP	G	TCGA-BP-5180-01A-01D-1429-08		24261024	218938349	5	16831											
SCN1A	6323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166870294	166870294	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaatcatgaaaacaatgaagGtctcaaaccagttatgttca	17	10	7	7	0	3	2	3	2	1	0	4	3	3	2	1	1	2	2	1	1	7	2	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	166870294	G	T	166870294	3	4	334	1	0	0	0	0	1	0	0	0	13916	1261	44	4	2400	4	SCN1A	2	166870294	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	142609270	166870294	76329079	6	16832											
CASP10	843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202050621	202050621	+	Frame_Shift_Del	DEL	T	T	-																															aagatgtggagaacctcaagTttctctgcataggattggtc																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		-	202050621	T	-	202050621	7	5	334	1	0	1	0	1	0	0	0	0	2669	1725	60	0	123	0	CASP10	2	202050621	Frame_Shift_Del	DEL	T	TCGA-BP-5180-01A-01D-1429-08	35180327	202050621	41148752	7	16833											
DOCK10	55619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225710302	225710302	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtcacaggtgacgtgatAaaaagaaaacaaaatatggt	19	8	10	4	1	1	3	1	2	0	1	1	4	1	3	0	2	1	0	0	2	8	2	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	225710302	A	C	225710302	3	2	334	1	0	0	0	0	1	0	0	0	4685	362	13	5	4415	5	DOCK10	2	225710302	Missense_Mutation	SNP	A	TCGA-BP-5180-01A-01D-1429-08	23659681	225710302	17489071	8	16834											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183747	10183747	+	Silent	SNP	C	C	A																															gtgaactcgcgcgagccctcCcaggtcatcttctgcaatcg																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	10183747	C	A	10183747	2	1	334	1	0	0	0	0	0	0	0	1	17161	610	22	4		4	VHL	3	10183747	Silent	SNP	C	TCGA-BP-5180-01A-01D-1429-08		10183747	187838683	9	16835	226	2									
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183748	10183748	+	Nonsense_Mutation	SNP	C	C	T																															tgaactcgcgcgagccctccCaggtcatcttctgcaatcgc																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	10183748	C	T	10183748	4	4	334	1	0	0	0	0	0	1	0	0	17161	595	21	2	219	2	VHL	3	10183748	Nonsense_Mutation	SNP	C	TCGA-BP-5180-01A-01D-1429-08	1	10183748	187838682	10	16836	226	2									
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52637711	52637711	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattttaataaaaaactgctGaagttctactgcatcttcat	15	15	4	7	0	3	1	1	1	2	0	3	1	3	1	0	0	4	3	0	0	7	6	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	52637711	G	A	52637711	4	1	334	1	0	0	0	0	0	1	0	0	11491	1299	45	2	2351	2	PBRM1	3	52637711	Nonsense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	42453963	52637711	145384719	11	16837											
ROBO2	6092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	77666705	77666705	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaccattgccagtacaaaCttacttacaccaaggtctgg	12	9	6	14	0	1	0	0	0	1	0	1	0	1	0	4	2	5	1	4	2	5	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		G	77666705	C	G	77666705	3	3	334	1	0	0	0	0	1	0	0	0	13516	565	20	4	3423	4	ROBO2	3	77666705	Missense_Mutation	SNP	C	TCGA-BP-5180-01A-01D-1429-08	25028994	77666705	120355725	12	16838											
DNAJC21	134218	hgsc.bcm.edu;ucsc.edu	37	chr5	34935891	34935892	+	Frame_Shift_Del	DEL	CG	CG	-																															atgacagcttagatttgctaCgctatttcaccgttacctgt																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		-	34935892	CG	-	34935891	7	5	334	1	0	1	0	1	0	0	0	0	4640	536	19	0	278	0	DNAJC21	5	34935891	Frame_Shift_Del	DEL	CG	TCGA-BP-5180-01A-01D-1429-08		34935891	145979369	13	16839											
KIF2A	3796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	61677018	61677018	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtagattatgatgtcgattCatatgctacacaacttgaag	14	13	8	6	1	1	3	1	2	0	1	2	4	1	3	0	0	3	2	0	0	6	6	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	61677018	C	T	61677018	3	4	334	1	0	0	0	0	1	0	0	0	8297	838	29	2	2165	2	KIF2A	5	61677018	Missense_Mutation	SNP	C	TCGA-BP-5180-01A-01D-1429-08	26741127	61677018	119238242	14	16840											
PCDHA12	56137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140255906	140255906	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttcctatgggatcaaaatGattttgccagtgagtgagaa	13	13	10	5	0	1	3	1	3	0	1	2	5	2	4	2	1	1	0	2	1	4	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	140255906	G	A	140255906	3	1	334	1	0	0	0	0	1	0	0	0	11522	1290	45	2	851	2	PCDHA12	5	140255906	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	78578888	140255906	40659354	15	16841											
RAB32	10981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146875689	146875689	+	Frame_Shift_Del	DEL	T	T	-																															agaaaacgatgtggacaaaaTtaagctagatcaagagacct																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		-	146875689	T	-	146875689	7	5	334	1	0	1	0	1	0	0	0	0	12923	1493	52	0	636	0	RAB32	6	146875689	Frame_Shift_Del	DEL	T	TCGA-BP-5180-01A-01D-1429-08		146875689	24239378	16	16842											
PRKDC	5591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48794597	48794597	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcaagtttcagtccttggTgtttctggtttgctcgctcc	3	17	10	11	2	2	0	1	0	1	0	6	0	4	0	2	2	1	6	2	2	1	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	48794597	T	C	48794597	3	2	334	1	0	0	0	0	1	0	0	0	12523	1696	59	3	7748	3	PRKDC	8	48794597	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08		48794597	97569425	17	16843											
SULF1	23213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	70533276	70533276	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggcttttgcagaagtggCaatgcattgaggatacatct	10	13	12	6	0	1	2	0	1	1	1	1	3	1	3	0	3	3	5	0	3	3	5	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	70533276	C	T	70533276	4	4	334	1	0	0	0	0	0	1	0	0	15371	711	25	2	1422	2	SULF1	8	70533276	Nonsense_Mutation	SNP	C	TCGA-BP-5180-01A-01D-1429-08	21738679	70533276	75830746	18	16844											
NCOA4	8031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	51582253	51582253	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcctggagaagagaggctGtatctccatgccagagcagg	10	8	13	10	0	1	3	0	0	1	3	3	5	2	3	3	3	2	3	3	3	2	2	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	51582253	G	A	51582253	3	1	334	1	0	0	0	0	1	0	0	0	10231	1377	48	2	621	2	NCOA4	10	51582253	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08		51582253	83952494	19	16845											
TRIM8	81603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104404879	104404879	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtgtgccagtactgctgcTactacagcggcgcgcatcag	7	8	12	14	4	1	0	1	0	0	0	1	0	1	0	2	1	7	4	2	1	3	3	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	104404879	T	C	104404879	3	2	334	1	0	0	0	0	1	0	0	0	16547	1522	53	3	507	3	TRIM8	10	104404879	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08	52822626	104404879	31129868	20	16846											
GPR123	84435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	134910562	134910562	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgcacggccgtcatgctgCtctgcctcctggcctccttc	2	11	10	18	3	2	0	1	0	1	0	5	0	4	0	5	2	4	3	5	2	0	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	134910562	C	T	134910562	3	4	334	1	0	0	0	0	1	0	0	0	6637	797	28	2	94	2	GPR123	10	134910562	Missense_Mutation	SNP	C	TCGA-BP-5180-01A-01D-1429-08	30505683	134910562	624185	21	16847											
PHRF1	57661	broad.mit.edu;ucsc.edu	37	chr11	608267	608267	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctgcggaggccatccccCccagagccctgggatgagga	7	4	15	15	2	0	2	0	1	0	1	1	5	1	5	5	5	2	1	5	5	0	0	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	608267	A	A	608267	2	1	334	1	0	0	0	0	0	0	0	1	11861	610	22	4		4	PHRF1	11	608267	Silent	SNP	C	TCGA-BP-5180-01A-01D-1429-08		608267	134398249	22	16848											
CACNA1C	775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2711091	2711091	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaacatcctggacctgctGgtggtcagcgtgtccctcat	6	12	10	13	1	3	0	3	0	0	0	5	1	5	1	3	3	3	1	3	3	1	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	2711091	G	T	2711091	2	4	334	1	0	0	0	0	0	0	0	1	2540	1335	47	4		4	CACNA1C	12	2711091	Silent	SNP	G	TCGA-BP-5180-01A-01D-1429-08		2711091	131140804	23	16849											
PRH1	5554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	11035696	11035696	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacatcttcctggctgacatCtagaaaagaagtacaggatg	15	9	9	8	0	2	3	0	1	2	2	3	4	3	4	1	2	2	2	1	2	6	3	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	11035696	C	T	11035696	5	4	334	1	0	0	0	0	0	0	1	0	12484	927	32	2	448	2	PRH1	12	11035696	Splice_Site	SNP	C	TCGA-BP-5180-01A-01D-1429-08	8324605	11035696	122816199	24	16850											
ARID2	196528	hgsc.bcm.edu	37	chr12	46123828	46123828	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctttttctctcccgcaggTcgccttttaaaaaaatccct	8	14	6	13	2	1	0	0	0	1	0	5	0	3	0	3	2	0	2	3	2	4	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	46123828	T	A	46123828	3	1	334	1	0	0	0	0	1	0	0	0	915	1681	58	5	100	5	ARID2	12	46123828	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08	35088132	46123828	87728067	25	16851											
UHRF1BP1L	23074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100433380	100433380	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtttcccattacctgttcCctagtgaagtcaaaggagaa	12	11	9	9	0	1	2	1	1	0	1	3	3	3	2	3	2	1	2	3	2	5	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	100433380	C	T	100433380	2	4	334	1	0	0	0	0	0	0	0	1	16968	622	22	2		2	UHRF1BP1L	12	100433380	Silent	SNP	C	TCGA-BP-5180-01A-01D-1429-08	54309552	100433380	33418515	26	16852											
SKA3	221150	hgsc.bcm.edu	37	chr13	21746645	21746645	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagaatattaacatcatccTtttatgaataaagaaagtac	19	12	5	5	0	1	3	1	1	0	2	2	4	2	3	1	0	2	1	1	0	10	6	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		G	21746645	T	G	21746645	5	3	334	1	0	0	0	0	0	0	1	0	14356	1623	56	5	1149	5	SKA3	13	21746645	Splice_Site	SNP	T	TCGA-BP-5180-01A-01D-1429-08		21746645	93423233	27	16853											
KIAA0564	0	hgsc.bcm.edu;ucsc.edu	37	chr13	42461418	42461428	+	Frame_Shift_Del	DEL	GGCAAGCCCAA	GGCAAGCCCAA	-																															tcccagaataccttggcactGgcaagcccaaggcaatcact																								novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	GGCAAGCCCAA	GGCAAGCCCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		-	42461428	GGCAAGCCCAA	-	42461418	7	5	334	1	0	1	0	1	0	0	0	0	8185	1348	47	0	5150	0	KIAA0564	13	42461418	Frame_Shift_Del	DEL	GGCAAGCCCAA	TCGA-BP-5180-01A-01D-1429-08	20714773	42461418	72708460	28	16854											
IPO4	79711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24655987	24655987	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcattgcccagggccacaTttctagctacctgtccacag	8	10	8	15	1	1	0	0	0	1	0	3	0	2	0	4	1	3	2	4	1	2	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		G	24655987	T	G	24655987	3	3	334	1	0	0	0	0	1	0	0	0	7795	1493	52	5	2566	5	IPO4	14	24655987	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08		24655987	82693553	29	16855											
RASGRF1	5923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	79356851	79356851	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggttctcatggctgaaGttcaccgtgaagtaatgctg	8	14	11	8	1	3	2	2	2	2	0	4	2	3	2	1	2	1	5	1	2	3	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	79356851	G	T	79356851	3	4	334	1	0	0	0	0	1	0	0	0	13074	1020	36	4	3635	4	RASGRF1	15	79356851	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08		79356851	23174541	30	16856											
AP3S2	10239	broad.mit.edu;ucsc.edu	37	chr15	90431758	90431758	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgactacacatacctggaTgaggtccaagattccaagtt	12	10	9	10	0	0	3	0	2	0	1	2	4	2	4	3	2	2	2	3	2	4	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	90431758	C	C	90431758	3	2	334	1	0	0	0	0	1	0	0	0	750	1464	51	3	329	3	AP3S2	15	90431758	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08	11074907	90431758	12099634	31	16857											
C17orf103	256302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	21146678	21146678	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggttctccttgacgtacTtctggatgtaccagcaggtg	6	12	14	9	1	2	1	0	1	2	0	3	2	2	2	2	4	3	4	2	4	2	5	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	21146678	T	A	21146678	3	1	334	1	0	0	0	0	1	0	0	0	1850	1609	56	5		5	C17orf103	17	21146678	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08		21146678	60048532	32	16858											
HOXB3	3213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46628008	46628008	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggacgtgcggctcataCtcgggcgccggggtcggagg	5	6	20	10	6	1	0	1	0	0	0	3	3	1	3	1	8	2	1	1	8	1	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	46628008	C	T	46628008	2	4	334	1	0	0	0	0	0	0	0	1	7302	564	20	2		2	HOXB3	17	46628008	Silent	SNP	C	TCGA-BP-5180-01A-01D-1429-08	25481330	46628008	34567202	33	16859											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1508092	1508092	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcacccgagcccaacaacCcatcacagccggcgctctaa	11	3	9	18	3	2	0	1	0	1	0	2	1	2	0	4	2	4	2	4	2	3	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		G	1508092	G	G	1508092	3	3	334	1	0	0	0	0	1	0	0	0	278	623	22	4	933	4	ADAMTSL5	19	1508092	Missense_Mutation	SNP	C	TCGA-BP-5180-01A-01D-1429-08		1508092	57620891	34	16860											
ZNF77	58492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2933730	2933730	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttcccacattgattacaTtcgtacggtttctctccgct	6	16	6	13	3	1	1	0	1	1	0	5	1	3	1	2	1	2	4	2	1	2	6	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	2933730	T	A	2933730	3	1	334	1	0	0	0	0	1	0	0	0	18141	1490	52	5	246	5	ZNF77	19	2933730	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08	1425638	2933730	56195253	35	16861											
TLE6	79816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2987728	2987728	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttccattttccaggggcagGaaagcaaggcaccaggatcc	11	8	11	11	0	0	0	0	0	0	0	3	2	3	2	4	5	1	3	4	5	2	3	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	2987728	G	A	2987728	3	1	334	1	0	0	0	0	1	0	0	0	15941	1175	41	2	595	2	TLE6	19	2987728	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	53998	2987728	56141255	36	16862											
MYO9B	4650	broad.mit.edu	37	chr19	17306197	17306197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcaagaagctggtggccGccgccagccctagtgccatg	7	5	16	13	2	0	1	0	0	0	1	0	1	0	1	5	4	3	2	5	4	3	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	17306197	A	A	17306197	3	1	334	1	0	0	0	0	1	0	0	0	10085	1087	38	1	4043	1	MYO9B	19	17306197	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	14318469	17306197	41822786	37	16863											
ANO8	57719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17439020	17439020	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctgcctgggtgagctggggcGagtgttcctcctccggcggg	2	9	18	12	3	0	1	0	1	0	0	3	2	3	1	4	5	2	2	4	5	0	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	17439020	G	C	17439020	3	2	334	1	0	0	0	0	1	0	0	0	703	1059	37	4	1545	4	ANO8	19	17439020	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	132823	17439020	41689963	38	16864											
SYT3	84258	broad.mit.edu;hgsc.bcm.edu	37	chr19	51135742	51135742	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtccatgtccaagtaggaggGctcaggggtgtcagaacccc	9	7	14	11	0	2	1	2	0	0	1	4	2	4	2	4	4	1	2	4	4	3	1	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		T	51135742	G	T	51135742	3	4	334	1	0	0	0	0	1	0	0	0	15474	1203	42	4	1325	4	SYT3	19	51135742	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	33696722	51135742	7993241	39	16865											
EIF2S2	8894	broad.mit.edu	37	chr20	32699916	32699916	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacctcgtccccagacaTggctgcggctcgagtgggct	5	8	12	16	3	1	1	1	0	0	1	4	2	2	1	4	3	1	3	4	3	0	0	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	32699916	A	A	32699916	3	1	334	1	0	0	0	0	1	0	0	0	5010	1464	51	5	1036	5	EIF2S2	20	32699916	Missense_Mutation	SNP	T	TCGA-BP-5180-01A-01D-1429-08		32699916	30325604	40	16866											
LIPI	149998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	15561671	15561671	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatggtctctattctcGgaataaataaatctctgaag	14	13	7	7	1	4	2	1	1	3	1	7	3	4	3	0	2	0	0	0	2	8	4	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		A	15561671	G	A	15561671	3	1	334	1	0	0	0	0	1	0	0	0	8825	1116	39	1	1302	1	LIPI	21	15561671	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08		15561671	32568224	41	16867											
CLIC6	54102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	36081739	36081739	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgaaatagatgcctacaGcaccgaggatgtcactgttt	12	11	10	8	1	1	3	1	2	0	1	1	5	1	4	2	1	3	2	2	1	3	3	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		C	36081739	G	C	36081739	3	2	334	1	0	0	0	0	1	0	0	0	3530	971	34	4	1820	4	CLIC6	21	36081739	Missense_Mutation	SNP	G	TCGA-BP-5180-01A-01D-1429-08	20520068	36081739	12048156	42	16868											
OSBP2	23762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	31266569	31266569	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagcgctccctgacagAgctggacggcctcaagatcc	9	6	10	16	2	1	3	1	1	0	2	4	4	4	4	4	2	2	2	4	2	1	0	novel		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		G	31266569	A	G	31266569	3	3	334	1	0	0	0	0	1	0	0	0	11274	304	11	3	1017	3	OSBP2	22	31266569	Missense_Mutation	SNP	A	TCGA-BP-5180-01A-01D-1429-08		31266569	20037997	43	16869											
ARSD	414	hgsc.bcm.edu	37	chrX	2835999	2836007	+	In_Frame_Del	DEL	CCACGCCGG	CCACGCCGG	-																															agagatgaaaaacaggcagcCcacgccggccatgccggtga																								rs113556864		TCGA-BP-5180-01A-01D-1429-08	TCGA-BP-5180-11A-01D-1429-08	CCACGCCGG	CCACGCCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a776bde5-7503-459c-8419-dc0d744a651e	f0385a6f-db22-4f21-a571-206fb7f74285		-	2836007	CCACGCCGG	-	2835999	7	5	334	1	0	1	0	1	0	0	0	0	989	623	22	0	1249	0	ARSD	23	2835999	In_Frame_Del	DEL	CCACGCCGG	TCGA-BP-5180-01A-01D-1429-08		2835999	152434561	44	16870											
SPSB1	80176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	9416147	9416147	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaccgatcgctcaatgtctTtgtgaaggaggacgacaagc	11	8	12	10	4	2	1	1	1	1	0	3	6	2	3	1	2	1	1	1	2	3	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		C	9416147	T	C	9416147	3	2	335	1	0	0	0	0	1	0	0	0	15113	1841	64	3	199	3	SPSB1	1	9416147	Missense_Mutation	SNP	T	TCGA-BP-5182-01A-01D-1429-08		9416147	239834474	1	16871											
UBE4B	10277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10166557	10166557	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccagcagttccagacagaGgcccagcagcacgggtccac	10	3	12	16	2	0	2	0	0	0	2	2	2	2	2	4	2	3	4	4	2	0	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	10166557	G	A	10166557	3	1	335	1	0	0	0	0	1	0	0	0	16882	1000	35	2	1138	2	UBE4B	1	10166557	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	750410	10166557	239084064	2	16872											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16199600	16199600	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccgtcacttcatgcaCgagaaggacgttatgagcgg	10	7	11	13	4	2	2	2	1	0	1	2	4	2	3	3	2	2	2	3	2	2	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	16199600	C	T	16199600	4	4	335	1	0	0	0	0	0	1	0	0	15039	528	19	1	379	1	SPEN	1	16199600	Nonsense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	6033043	16199600	233051021	3	16873											
USP48	84196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22032286	22032286	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgtggggacacaaaagaGcactgttcccaactgatgac	12	6	10	13	1	0	3	0	2	0	1	1	4	1	4	3	2	2	2	3	2	3	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	22032286	G	A	22032286	3	1	335	1	0	0	0	0	1	0	0	0	17078	971	34	2	825	2	USP48	1	22032286	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	5832686	22032286	227218335	4	16874											
DCDC2B	149069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32678141	32678141	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagggaaggagctggtaaCtggccattactatgtggctg	10	9	15	7	0	0	0	0	0	0	0	0	2	0	2	1	5	4	4	1	5	4	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	32678141	C	G	32678141	3	3	335	1	0	0	0	0	1	0	0	0	4286	565	20	4	596	4	DCDC2B	1	32678141	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	10645855	32678141	216572480	5	16875											
DENND2D	79961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111734927	111734927	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcagcagcatggatgcaCtgagacaaggtgctgggaca	11	5	16	9	1	0	1	0	1	0	1	0	4	0	3	0	4	4	5	0	4	1	0	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	111734927	C	T	111734927	2	4	335	1	0	0	0	0	0	0	0	1	4431	564	20	2		2	DENND2D	1	111734927	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08	79056786	111734927	137515694	6	16876											
KIF14	9928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200562851	200562851	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atttacatatgtctttgcttCcccaactgggataatactca	11	15	5	10	0	2	0	1	0	1	0	3	1	3	1	2	1	4	1	2	1	5	7	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	200562851	C	T	200562851	3	4	335	1	0	0	0	0	1	0	0	0	8276	864	30	2	2414	2	KIF14	1	200562851	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	88827924	200562851	48687770	7	16877											
KIF21B	23046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200959172	200959172	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtggagtccagctcctcCtaggaccgggaggcagagag	8	7	15	11	1	1	1	0	0	1	1	4	5	4	4	4	4	1	2	4	4	1	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	200959172	C	T	200959172	5	4	335	1	0	0	0	0	0	0	1	0	8289	695	24	2	1900	2	KIF21B	1	200959172	Splice_Site	SNP	C	TCGA-BP-5182-01A-01D-1429-08	396321	200959172	48291449	8	16878											
TRAF5	7188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	211545849	211545849	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggaccagagtggcaaaaaGaacattatggagaccttcaa	16	7	10	8	0	1	3	1	0	0	3	1	5	1	4	2	3	1	1	2	3	5	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	211545849	G	A	211545849	2	1	335	1	0	0	0	0	0	0	0	1	16443	933	33	2		2	TRAF5	1	211545849	Silent	SNP	G	TCGA-BP-5182-01A-01D-1429-08	10586677	211545849	37704772	9	16879											
ARHGAP25	9938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	69045086	69045086	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgattggtgtgaatctCatcaggtcgaaggtcgaaga	11	11	13	6	2	2	3	2	2	1	1	5	5	2	3	0	3	0	0	0	3	3	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	69045086	C	A	69045086	2	1	335	1	0	0	0	0	0	0	0	1	874	813	29	4		4	ARHGAP25	2	69045086	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08		69045086	174154287	10	16880											
ARHGAP25	9938	hgsc.bcm.edu;ucsc.edu	37	chr2	69046267	69046267	+	Frame_Shift_Del	DEL	T	T	-																															tctttcagggactcctcagaTccaaagagtgatgactatga																								novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		-	69046267	T	-	69046267	7	5	335	1	0	1	0	1	0	0	0	0	874	1435	50	0	1090	0	ARHGAP25	2	69046267	Frame_Shift_Del	DEL	T	TCGA-BP-5182-01A-01D-1429-08	1181	69046267	174153106	11	16881											
POLR1A	25885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86325787	86325787	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtagggccccgacttccaGaaccctcagctggcagagta	9	8	11	13	1	1	2	1	0	0	2	2	3	2	2	4	2	2	4	4	2	3	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	86325787	G	A	86325787	2	1	335	1	0	0	0	0	0	0	0	1	12209	933	33	2		2	POLR1A	2	86325787	Silent	SNP	G	TCGA-BP-5182-01A-01D-1429-08	17279520	86325787	156873586	12	16882											
NEB	4703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152551064	152551064	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttcttggtgttggctttgGctgccagcaggggaatggca	5	13	16	7	0	1	0	0	0	1	0	1	1	1	1	1	6	2	6	1	6	1	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	152551064	G	T	152551064	3	4	335	1	0	0	0	0	1	0	0	0	10302	1203	42	4	24588	4	NEB	2	152551064	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	66225277	152551064	90648309	13	16883											
AOX1	316	broad.mit.edu	37	chr2	201450857	201450857	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcgtccgagctgctctTctacgtgaacggccgcaagg	6	7	14	14	6	2	1	0	1	2	0	3	2	3	1	3	3	4	3	3	3	3	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	201450857	G	G	201450857	3	3	335	1	0	0	0	0	1	0	0	0	729	1783	62	5	28	5	AOX1	2	201450857	Missense_Mutation	SNP	T	TCGA-BP-5182-01A-01D-1429-08	48899793	201450857	41748516	14	16884											
CPS1	1373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	211441087	211441087	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtacccagaagctattaCtgaccctgcctacaaaggac	13	7	8	13	0	0	2	0	1	0	1	0	3	0	3	3	2	5	2	3	2	6	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	211441087	C	G	211441087	3	3	335	1	0	0	0	0	1	0	0	0	3823	565	20	4	286	4	CPS1	2	211441087	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	9990230	211441087	31758286	15	16885											
ACSL3	2181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	223795455	223795455	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaaagctgatttctttgaaGatgaaaatggacaaaggtgg	16	10	11	4	0	1	4	0	3	1	1	1	5	1	5	0	3	1	1	0	3	6	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	223795455	G	A	223795455	3	1	335	1	0	0	0	0	1	0	0	0	178	942	33	2	1699	2	ACSL3	2	223795455	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	12354368	223795455	19403918	16	16886											
TRANK1	9881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	36872739	36872739	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaatagttctctgggcCacgggtaaacttcactccac	10	10	9	12	1	2	1	1	1	1	0	4	1	3	1	2	2	1	3	2	2	4	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	36872739	C	A	36872739	3	1	335	1	0	0	0	0	1	0	0	0	16453	594	21	4	586	4	TRANK1	3	36872739	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08		36872739	161149691	17	16887											
SNRK	54861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	43389698	43389698	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcgttgagagcctcaaactCatgagcctctgcctcggctc	7	10	9	15	2	3	2	2	2	1	1	6	3	3	2	3	1	4	2	3	1	1	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	43389698	C	T	43389698	2	4	335	1	0	0	0	0	0	0	0	1	14853	813	29	2		2	SNRK	3	43389698	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08	6516959	43389698	154632732	18	16888											
KLHDC8B	200942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49212294	49212294	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgctggctgcgccatggctGaaggcagcgtctttagcctg	5	11	14	11	2	1	1	0	1	1	0	1	1	1	1	2	3	4	4	2	3	2	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	49212294	G	A	49212294	3	1	335	1	0	0	0	0	1	0	0	0	8363	1291	45	2	671	2	KLHDC8B	3	49212294	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	5822596	49212294	148810136	19	16889											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443892	52443892	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctccagccagcccttattCatcttcccgcggggcggccc	5	8	10	18	3	2	0	1	0	1	0	4	0	4	0	5	3	3	1	5	3	1	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	52443892	C	T	52443892	3	4	335	1	0	0	0	0	1	0	0	0	1311	826	29	2	2254	2	BAP1	3	52443892	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	3231598	52443892	145578538	20	16890											
C3orf17	25871	broad.mit.edu;hgsc.bcm.edu	37	chr3	112724334	112724334	+	RNA	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagttctacttagaacaCtgaactagccttgttaatca	13	13	6	9	0	2	2	1	1	1	1	2	2	2	2	1	0	5	3	1	0	7	7	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	112724334	C	A	112724334	1	1	335	0	1	0	0	0	0	0	0	0	2210	580	20	4		4	C3orf17	3	112724334	RNA	SNP	C	TCGA-BP-5182-01A-01D-1429-08	60280442	112724334	85298096	21	16891											
ZBTB20	26137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	114058081	114058081	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagaacttctttttgcagAtgtagcactcgtaggacttc	10	13	10	8	1	1	2	0	0	1	2	3	5	1	3	0	1	3	4	0	1	3	6	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	114058081	A	G	114058081	3	3	335	1	0	0	0	0	1	0	0	0	17528	333	12	3	232	3	ZBTB20	3	114058081	Missense_Mutation	SNP	A	TCGA-BP-5182-01A-01D-1429-08	1333747	114058081	83964349	22	16892											
CCDC48	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128753037	128753037	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggcggagaagctcatGacttactttggtcacttcgg	9	10	12	10	3	2	3	2	1	0	2	3	4	2	3	0	4	2	1	0	4	2	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	128753037	G	T	128753037	3	4	335	1	0	0	0	0	1	0	0	0	2819	1290	45	4	1332	4	CCDC48	3	128753037	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	14694956	128753037	69269393	23	16893											
TLR1	7096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	38799865	38799865	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggaattctttgtttgtgggGaacacaatgtgcagactctc	9	14	11	7	0	2	1	0	0	2	1	3	3	2	3	0	3	2	2	0	3	3	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	38799865	G	T	38799865	3	4	335	1	0	0	0	0	1	0	0	0	15948	1165	41	4	1776	4	TLR1	4	38799865	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08		38799865	152354411	24	16894											
AGXT2L1	64850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	109681436	109681436	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactattttgatgggatccGatgcaaagaaaactttgcat	13	13	8	7	1	1	2	1	1	0	1	2	4	2	3	1	1	3	2	1	1	4	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	109681436	G	T	109681436	4	4	335	1	0	0	0	0	0	1	0	0	406	1059	37	4	1464	4	AGXT2L1	4	109681436	Nonsense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	70881571	109681436	81472840	25	16895											
NAF1	92345	broad.mit.edu;hgsc.bcm.edu	37	chr4	164087855	164087855	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcagagtttccagctgagCggcggcggcctccactacct	6	10	11	14	3	1	2	1	1	0	1	3	2	3	2	4	3	3	2	4	3	1	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	164087855	C	A	164087855	3	1	335	1	0	0	0	0	1	0	0	0	10140	768	27	4	1632	4	NAF1	4	164087855	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	54406419	164087855	27066421	26	16896											
ENPP6	133121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	185138820	185138820	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcccctgctcacaatctcTttgaaaccaggcaatgactc	11	10	5	15	0	2	2	1	2	1	0	5	2	3	2	3	1	2	2	3	1	3	1	rs148715663		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		C	185138820	T	C	185138820	2	2	335	1	0	0	0	0	0	0	0	1	5134	1606	56	3		3	ENPP6	4	185138820	Silent	SNP	T	TCGA-BP-5182-01A-01D-1429-08	21050965	185138820	6015456	27	16897											
DDX46	9879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134153324	134153324	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgccgttagagaaacaaGaagaagagagacaggatggt	17	6	14	4	1	0	5	0	0	0	5	0	8	0	6	1	2	2	1	1	2	5	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	134153324	G	T	134153324	4	4	335	1	0	0	0	0	0	1	0	0	4364	943	33	4	2827	4	DDX46	5	134153324	Nonsense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08		134153324	46761936	28	16898											
MGC29506	0	broad.mit.edu	37	chr5	138724269	138724269	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgcctttgccagattttgCcacatctggaacaaggaggg	9	11	11	10	0	2	1	0	0	2	1	2	3	2	3	3	3	4	0	3	3	2	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	138724269	T	T	138724269	4	4	335	1	0	0	0	0	0	1	0	0	9551	740	26	2	398	2	MGC29506	5	138724269	Nonsense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	4570945	138724269	42190991	29	16899											
SKIV2L	6499	broad.mit.edu;hgsc.bcm.edu	37	chr6	31930533	31930533	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttattcgggacctggaGtgggtcatctttgatgaggt	7	14	15	5	1	2	2	1	2	1	0	3	5	2	4	1	4	0	1	1	4	1	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	31930533	G	A	31930533	2	1	335	1	0	0	0	0	0	0	0	1	14361	1020	36	2		2	SKIV2L	6	31930533	Silent	SNP	G	TCGA-BP-5182-01A-01D-1429-08		31930533	139184534	30	16900											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56471874	56471874	+	Intron	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcattgtgatattgtacttGaggattactagaaatcatat	14	16	7	4	0	2	3	2	2	0	1	2	4	2	4	0	1	2	1	0	1	6	8	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	56471874	G	T	56471874	1	4	335	0	1	0	0	0	0	0	0	0	4783	1305	45	4		4	DST	6	56471874	Intron	SNP	G	TCGA-BP-5182-01A-01D-1429-08	24541341	56471874	114643193	31	16901											
LRRC4	64101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127670481	127670481	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtgttcgagggaataccCtgcgggacctcggagaggcc	7	6	17	11	4	0	1	0	0	0	1	2	5	0	3	3	5	2	1	3	5	2	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	127670481	C	T	127670481	2	4	335	1	0	0	0	0	0	0	0	1	8997	680	24	2		2	LRRC4	7	127670481	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08		127670481	31468182	32	16902											
FLNC	2318	hgsc.bcm.edu;ucsc.edu	37	chr7	128483008	128483008	+	Frame_Shift_Del	DEL	G	G	-																															atggtgctgtttgccaaccaGgtacctaagctcctgggtac																								novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		-	128483008	G	-	128483008	7	5	335	1	0	1	0	1	0	0	0	0	5935	1014	35	0	2612	0	FLNC	7	128483008	Frame_Shift_Del	DEL	G	TCGA-BP-5182-01A-01D-1429-08	812527	128483008	30655655	33	16903											
ZMYND11	10771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	298337	298337	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactgctgctggaacacatCctactgctccatcaagtgcc	9	9	7	16	0	1	0	1	0	0	0	3	1	3	1	4	1	6	3	4	1	3	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	298337	C	A	298337	3	1	335	1	0	0	0	0	1	0	0	0	17705	855	30	4	1811	4	ZMYND11	10	298337	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08		298337	135236410	34	16904											
ADAMTS14	140766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	72498659	72498659	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacatatggccaggatggagGctggagctcctggaccaagt	10	7	15	9	0	0	0	0	0	0	0	1	5	1	4	3	6	1	2	3	6	2	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		C	72498659	G	C	72498659	3	2	335	1	0	0	0	0	1	0	0	0	259	1203	42	4	1712	4	ADAMTS14	10	72498659	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	72200322	72498659	63036088	35	16905											
TLL2	7093	broad.mit.edu;ucsc.edu	37	chr10	98182331	98182331	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatgttttccctgatgatGgtgacatgttggtctctgtc	5	17	12	7	0	1	3	0	3	1	0	4	4	2	4	1	3	0	2	1	3	0	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	98182331	T	T	98182331	2	4	335	1	0	0	0	0	0	0	0	1	15945	1335	47	4		4	TLL2	10	98182331	Silent	SNP	G	TCGA-BP-5182-01A-01D-1429-08	25683672	98182331	37352416	36	16906											
SEC31B	25956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102249094	102249094	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaagaatcccttgtagcTcaggggtgaggctcataact	11	9	13	8	0	2	2	2	1	0	1	3	3	3	3	1	4	2	3	1	4	4	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	102249094	T	A	102249094	3	1	335	1	0	0	0	0	1	0	0	0	14001	1551	54	5	469	5	SEC31B	10	102249094	Missense_Mutation	SNP	T	TCGA-BP-5182-01A-01D-1429-08	4066763	102249094	33285653	37	16907											
TAF5	6877	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105133273	105133273	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcagagttgtcccaacttTtttatcctctgtttgtgcac	6	16	9	10	0	1	1	0	0	1	1	3	1	3	1	2	1	2	4	2	1	2	5	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	105133273	T	G	105133273	3	3	335	1	0	0	0	0	1	0	0	0	15527	1841	64	5	724	5	TAF5	10	105133273	Missense_Mutation	SNP	T	TCGA-BP-5182-01A-01D-1429-08	2884179	105133273	30401474	38	16908											
CARS	833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3039892	3039892	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaatggtgatgaagttttTtagtgactttgacattttgc	9	20	9	3	0	0	4	0	4	0	0	0	4	0	4	0	1	1	1	0	1	3	8	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	3039892	T	G	3039892	3	3	335	1	0	0	0	0	1	0	0	0	2657	1850	64	5	1064	5	CARS	11	3039892	Missense_Mutation	SNP	T	TCGA-BP-5182-01A-01D-1429-08		3039892	131966624	39	16909											
ARFGAP2	84364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47193064	47193064	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcttttcctctttcttaCgatcaatctggagctcctgg	5	17	7	12	1	5	0	1	0	4	0	7	2	7	1	2	2	2	2	2	2	2	5	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	47193064	C	A	47193064	3	1	335	1	0	0	0	0	1	0	0	0	850	536	19	4	739	4	ARFGAP2	11	47193064	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	44153172	47193064	87813452	40	16910											
BBS1	582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66278152	66278152	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggccgctgcgtcctcatcgGattccgacgcctgcggagct	4	9	13	15	6	1	0	1	0	0	0	4	3	3	2	4	3	3	2	4	3	0	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	66278152	G	A	66278152	3	1	335	1	0	0	0	0	1	0	0	0	1335	1174	41	2	24	2	BBS1	11	66278152	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	19085088	66278152	68728364	41	16911											
EXPH5	23086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108383516	108383516	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaggacttctcctggaGaacactgtagtagatggaac	12	10	11	8	0	2	3	0	1	2	2	3	6	2	5	1	3	2	2	1	3	5	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	108383516	G	T	108383516	3	4	335	1	0	0	0	0	1	0	0	0	5322	933	33	4	3255	4	EXPH5	11	108383516	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	42105364	108383516	26623000	42	16912											
MLL	4297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118375278	118375278	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcttgacagtaatcgtGaaaaagacatgggtcttttt	11	14	11	5	1	2	3	0	2	2	1	3	3	2	3	0	2	0	1	0	2	3	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	118375278	G	T	118375278	4	4	335	1	0	0	0	0	0	1	0	0	9620	1291	45	4	8768	4	MLL	11	118375278	Nonsense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	9991762	118375278	16631238	43	16913											
FEZ1	9638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	125324081	125324081	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgccactctgcagaatgTtggagatgccttccatgctg	8	11	12	10	0	1	2	0	0	1	2	2	4	2	3	3	2	4	3	3	2	1	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	125324081	T	G	125324081	3	3	335	1	0	0	0	0	1	0	0	0	5823	1725	60	5	229	5	FEZ1	11	125324081	Missense_Mutation	SNP	T	TCGA-BP-5182-01A-01D-1429-08	6948803	125324081	9682435	44	16914											
PRIM1	5557	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57139904	57139904	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctaactgattcatcacagacCcaacaatgaacacctctcct	14	9	3	15	0	3	3	2	2	1	1	4	3	3	3	3	0	3	0	3	0	4	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	57139904	C	T	57139904	4	4	335	1	0	0	0	0	0	1	0	0	12492	624	22	2	794	2	PRIM1	12	57139904	Nonsense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08		57139904	76711991	45	16915											
PTPRB	5787	broad.mit.edu;ucsc.edu	37	chr12	70970258	70970258	+	Frame_Shift_Del	DEL	A	-	-																															tggggtgagggagctgaaggAacattctctgacagacttgg																								novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		-	70970258	-	-	70970258	7	5	335	1	0	1	0	1	0	0	0	0	12798	246	9	0	3997	0	PTPRB	12	70970258	Frame_Shift_Del	DEL	A	TCGA-BP-5182-01A-01D-1429-08	13830354	70970258	62881637	46	16916											
PSMB11	122706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23511526	23511526	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcggctgggctgtgccccGgggttgtgaccctcaaacct	4	9	15	13	2	1	1	1	1	0	0	1	1	1	1	4	5	2	3	4	5	1	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	23511526	G	A	23511526	3	1	335	1	0	0	0	0	1	0	0	0	12678	1116	39	1	94	1	PSMB11	14	23511526	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08		23511526	83838014	47	16917											
FNTB	2342	broad.mit.edu;ucsc.edu	37	chr14	65482387	65482387	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctattggatcctgcaCagcttggaactgctagatga	9	12	10	10	0	1	2	0	1	1	1	2	4	2	4	1	2	5	4	1	2	3	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	65482387	G	G	65482387	3	3	335	1	0	0	0	0	1	0	0	0	5978	477	17	4	341	4	FNTB	14	65482387	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	41970861	65482387	41867153	48	16918											
TMEM87A	25963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42512318	42512318	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcttcctcagacaaTggtgaaaaggcaaacctaac	13	9	6	13	0	2	2	1	1	1	1	5	2	5	2	4	2	2	1	4	2	5	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	42512318	T	A	42512318	2	1	335	1	0	0	0	0	0	0	0	1	16209	1451	51	5		5	TMEM87A	15	42512318	Silent	SNP	T	TCGA-BP-5182-01A-01D-1429-08		42512318	60019074	49	16919											
CCDC78	124093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	775560	775560	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcagctccagctccagtacCcggctctccagccgaaggat	8	6	10	17	3	1	0	0	0	1	0	4	2	3	1	5	2	4	5	5	2	2	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	775560	C	T	775560	2	4	335	1	0	0	0	0	0	0	0	1	2852	610	22	2		2	CCDC78	16	775560	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08		775560	89579193	50	16920											
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30735820	30735820	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agctttagcacccactcttgGaggctcatctccatctcaga	9	11	7	14	0	4	1	2	0	3	1	6	2	4	2	2	2	2	3	2	2	1	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		C	30735820	G	C	30735820	3	2	335	1	0	0	0	0	1	0	0	0	15136	1174	41	4	5165	4	SRCAP	16	30735820	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	29960260	30735820	59618933	51	16921											
PYDC1	260434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31228342	31228342	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggatggcctcgcgcttcGttcccatggctcagccctgc	4	10	11	16	3	2	0	2	0	0	0	5	1	3	1	3	3	2	3	3	3	0	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		C	31228342	G	C	31228342	3	2	335	1	0	0	0	0	1	0	0	0	12860	1145	40	4	265	4	PYDC1	16	31228342	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	492522	31228342	59126411	52	16922											
HAS3	3038	broad.mit.edu;hgsc.bcm.edu	37	chr16	69149149	69149149	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagccggagcagtacagcTtggcttttgctgaggtgtga	9	10	15	7	1	0	3	0	2	0	1	0	4	0	4	1	3	5	5	1	3	2	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		C	69149149	T	C	69149149	2	2	335	1	0	0	0	0	0	0	0	1	6963	1606	56	3		3	HAS3	16	69149149	Silent	SNP	T	TCGA-BP-5182-01A-01D-1429-08	37920807	69149149	21205604	53	16923											
KLHL36	79786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84691436	84691436	+	Frame_Shift_Del	DEL	G	G	-																															cggagccaccactgtgtcgcGgtgctggggggcttcatctt																								novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		-	84691436	G	-	84691436	7	5	335	1	0	1	0	1	0	0	0	0	8389	1103	39	0	1029	0	KLHL36	16	84691436	Frame_Shift_Del	DEL	G	TCGA-BP-5182-01A-01D-1429-08	15542287	84691436	5663317	54	16924											
NUP88	4927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5322749	5322749	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgactaagaaggagctgtcTtctccgtcccacaggaaaag	13	7	10	11	2	2	1	0	0	2	1	4	4	3	3	2	2	1	1	2	2	4	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	5322749	T	A	5322749	2	1	335	1	0	0	0	0	0	0	0	1	10771	1606	56	5		5	NUP88	17	5322749	Silent	SNP	T	TCGA-BP-5182-01A-01D-1429-08		5322749	75872461	55	16925											
GPR179	440435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36486397	36486397	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctggggcaggggagtggtGgcctcgctctggccctgagg	4	7	20	10	1	1	1	0	1	1	0	2	2	1	2	2	8	1	3	2	8	0	0	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	36486397	G	T	36486397	3	4	335	1	0	0	0	0	1	0	0	0	6674	1348	47	4	4052	4	GPR179	17	36486397	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	31163648	36486397	44708813	56	16926											
EIF1	10209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39846142	39846142	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacccttactactgtccaAgggatcgctgatgattacga	12	10	9	10	2	0	3	0	2	0	1	2	5	1	4	2	1	3	1	2	1	5	3	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	39846142	A	T	39846142	3	4	335	1	0	0	0	0	1	0	0	0	4990	69	3	5	150	5	EIF1	17	39846142	Missense_Mutation	SNP	A	TCGA-BP-5182-01A-01D-1429-08	3359745	39846142	41349068	57	16927											
L3MBTL4	91133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6311557	6311557	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggatggacatcttaccaagCgtccgtcctgatccaaacgc	10	8	10	13	3	1	1	0	1	1	0	4	3	4	3	4	2	3	0	4	2	3	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	6311557	C	T	6311557	3	4	335	1	0	0	0	0	1	0	0	0	8594	768	27	1	1875	1	L3MBTL4	18	6311557	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08		6311557	71765691	58	16928											
APC2	10297	broad.mit.edu;hgsc.bcm.edu	37	chr19	1467881	1467881	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgcgcccacgccaacccaCcggcgcacatcggccatccc	7	2	9	23	6	0	0	0	0	0	0	2	0	1	0	7	2	1	1	7	2	1	0	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		G	1467881	C	G	1467881	3	3	335	1	0	0	0	0	1	0	0	0	764	506	18	4	4635	4	APC2	19	1467881	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08		1467881	57661102	59	16929											
DNAJB1	3337	hgsc.bcm.edu;ucsc.edu	37	chr19	14627721	14627722	+	Frame_Shift_Ins	INS	-	-	A																															tcctccccgttccgctgcccINSaaaaaaggtgtcaaagggat																								novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	14627722	-	A	14627721	7	5	335	1	0	1	1	0	0	0	0	0	4615	594	21	0	681	0	DNAJB1	19	14627721	Frame_Shift_Ins	INS	-	TCGA-BP-5182-01A-01D-1429-08	13159840	14627721	44501262	60	16930											
OR7A10	390892	broad.mit.edu;hgsc.bcm.edu	37	chr19	14952548	14952548	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggagtctgagattgtggCcaggatgatgagcaggttcc	8	10	17	6	0	1	3	0	3	1	1	2	6	2	5	2	4	1	2	2	4	0	2	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	14952548	C	T	14952548	3	4	335	1	0	0	0	0	1	0	0	0	11214	739	26	2	791	2	OR7A10	19	14952548	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08	324827	14952548	44176435	61	16931											
JAK3	3718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17945490	17945490	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggccagctctgtccacttgGgggccggcagctgctgccgg	3	7	17	14	2	1	0	0	0	1	0	2	0	2	0	4	5	4	4	4	5	0	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	17945490	G	T	17945490	3	4	335	1	0	0	0	0	1	0	0	0	7939	1232	43	4	1166	4	JAK3	19	17945490	Missense_Mutation	SNP	G	TCGA-BP-5182-01A-01D-1429-08	2992942	17945490	41183493	62	16932											
ADARB1	104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	46642103	46642103	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggaccagttctcactCacgccctgacccgggcagac	9	5	11	16	2	2	2	2	1	1	1	3	4	2	3	3	2	1	3	3	2	0	1	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	46642103	C	A	46642103	2	1	335	1	0	0	0	0	0	0	0	1	282	813	29	4		4	ADARB1	21	46642103	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08		46642103	1487792	63	16933											
CLTCL1	8218	broad.mit.edu;hgsc.bcm.edu	37	chr22	19184099	19184099	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagctcagtgaacatgccCatgtgggcccgctccaggcc	7	6	12	16	1	1	1	1	1	0	0	2	1	2	1	5	2	3	2	5	2	1	0	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	19184099	C	A	19184099	3	1	335	1	0	0	0	0	1	0	0	0	3567	594	21	4	1012	4	CLTCL1	22	19184099	Missense_Mutation	SNP	C	TCGA-BP-5182-01A-01D-1429-08		19184099	32120467	64	16934											
LIMK2	3985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	31674310	31674310	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgaaattggaggactcCtttgaggccctctccctgta	7	13	9	12	1	2	1	0	1	2	0	5	4	3	3	3	3	0	1	3	3	2	4	novel		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		A	31674310	C	A	31674310	2	1	335	1	0	0	0	0	0	0	0	1	8802	668	24	4		4	LIMK2	22	31674310	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08	12490211	31674310	19630256	65	16935											
H1F0	3005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38201647	38201647	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaagtattcagacatgatCgtggctgccatccaggccga	10	8	10	13	2	1	2	1	1	0	1	3	3	2	2	4	2	1	2	4	2	2	2	rs151035348		TCGA-BP-5182-01A-01D-1429-08	TCGA-BP-5182-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	00523547-da1c-4bb1-a627-c0946849b376	24dc7a15-3446-419c-b2be-75107c669f93		T	38201647	C	T	38201647	2	4	335	1	0	0	0	0	0	0	0	1	6920	874	31	1		1	H1F0	22	38201647	Silent	SNP	C	TCGA-BP-5182-01A-01D-1429-08	6527337	38201647	13102919	66	16936											
SYF2	25949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	25549846	25549846	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgttgaatttggcatTcctttcattaatgtagtcga	8	20	7	6	1	2	1	1	1	1	0	4	2	3	1	1	1	0	3	1	1	3	8	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	25549846	T	A	25549846	3	1	336	1	0	0	0	0	1	0	0	0	15436	1783	62	5	92	5	SYF2	1	25549846	Missense_Mutation	SNP	T	TCGA-BP-5183-01A-01D-1429-08		25549846	223700775	1	16937											
CNKSR1	10256	broad.mit.edu;hgsc.bcm.edu	37	chr1	26514973	26514973	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggacccggacgatgaGgctgggtcccactcagcctc	8	5	14	14	2	1	2	1	1	0	1	3	5	2	4	3	4	1	2	3	4	0	0	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	26514973	G	A	26514973	2	1	336	1	0	0	0	0	0	0	0	1	3606	991	35	2		2	CNKSR1	1	26514973	Silent	SNP	G	TCGA-BP-5183-01A-01D-1429-08	965127	26514973	222735648	2	16938											
RABGGTB	5876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	76254935	76254935	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaacttcatcgcatgaataGagaagagattctggcattta	15	11	8	7	1	2	3	1	1	1	2	3	5	2	3	0	1	1	2	0	1	5	5	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		C	76254935	G	C	76254935	3	2	336	1	0	0	0	0	1	0	0	0	12970	942	33	4	213	4	RABGGTB	1	76254935	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	49739962	76254935	172995686	3	16939											
NOS1AP	9722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	162324977	162324977	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcccctgttgttcctgcagGccgccagctcactggagccg	4	9	11	17	2	1	0	1	0	0	0	3	1	3	1	6	2	3	4	6	2	0	2	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	162324977	G	T	162324977	3	4	336	1	0	0	0	0	1	0	0	0	10542	1217	42	4	622	4	NOS1AP	1	162324977	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	86070042	162324977	86925644	4	16940											
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186302399	186302399	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacaaaagctgtagcctgTgtttgttgctgaacagttaa	11	13	10	7	0	0	1	0	1	0	0	0	1	0	1	1	0	5	7	1	0	5	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		C	186302399	T	C	186302399	2	2	336	1	0	0	0	0	0	0	0	1	16415	1683	59	3		3	TPR	1	186302399	Silent	SNP	T	TCGA-BP-5183-01A-01D-1429-08	23977422	186302399	62948222	5	16941											
RPS6KC1	26750	broad.mit.edu;hgsc.bcm.edu	37	chr1	213349818	213349818	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaaggccttcagagtcCttggggtgattgacaaggta	10	10	14	7	0	1	4	1	3	0	1	2	4	2	4	2	4	1	2	2	4	3	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	213349818	C	G	213349818	3	3	336	1	0	0	0	0	1	0	0	0	13660	681	24	4	1057	4	RPS6KC1	1	213349818	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08	27047419	213349818	35900803	6	16942											
ARF1	375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	228285075	228285075	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgtggagtacaagaacAtcagcttcactgtgtgggac	13	8	11	9	1	2	1	2	0	0	1	2	3	2	3	1	2	4	2	1	2	4	2	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		C	228285075	A	C	228285075	3	2	336	1	0	0	0	0	1	0	0	0	844	217	8	5	187	5	ARF1	1	228285075	Missense_Mutation	SNP	A	TCGA-BP-5183-01A-01D-1429-08	14935257	228285075	20965546	7	16943											
ZFP36L2	678	hgsc.bcm.edu	37	chr2	43452740	43452740	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgccggggctgggcGcggggtgggcgagtgcatgc	4	5	22	10	4	0	0	0	0	0	0	0	1	0	0	1	6	5	4	1	6	0	0	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	43452740	G	A	43452740	3	1	336	1	0	0	0	0	1	0	0	0	17646	1087	38	1	1285	1	ZFP36L2	2	43452740	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08		43452740	199746633	8	16944											
XPO1	7514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61709537	61709537	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaggtgagggaaggccgActtaaggagattagccacat	12	9	14	6	1	0	2	0	1	0	1	0	5	0	3	2	4	1	1	2	4	4	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	61709537	A	G	61709537	3	3	336	1	0	0	0	0	1	0	0	0	17444	275	10	3	277	3	XPO1	2	61709537	Missense_Mutation	SNP	A	TCGA-BP-5183-01A-01D-1429-08	18256797	61709537	181489836	9	16945											
HOXD11	3237	broad.mit.edu	37	chr2	176972132	176972132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgcagccagcatgtacctgCcgggctgcgcctactatgtg	6	8	13	14	3	0	0	0	0	0	0	0	0	0	0	4	1	6	4	4	1	3	3	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	176972132	T	T	176972132	3	4	336	1	0	0	0	0	1	0	0	0	7320	739	26	2	51	2	HOXD11	2	176972132	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08	115262595	176972132	66227241	10	16946											
ABI2	10152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	204281636	204281636	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatacgttcttagtttcaGatacaccacctccaccgcca	10	11	5	15	2	2	2	1	1	1	1	3	2	3	2	5	0	2	2	5	0	3	5	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	204281636	G	T	204281636	3	4	336	1	0	0	0	0	1	0	0	0	89	942	33	4	1118	4	ABI2	2	204281636	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	27309504	204281636	38917737	11	16947											
CAB39	51719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	231682474	231682474	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaatgtcttctcagcttctCggtgaactactactagatag	11	14	7	9	1	3	2	1	1	3	1	5	2	3	2	0	1	4	1	0	1	7	7	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	231682474	C	T	231682474	2	4	336	1	0	0	0	0	0	0	0	1	2525	871	31	1		1	CAB39	2	231682474	Silent	SNP	C	TCGA-BP-5183-01A-01D-1429-08	27400838	231682474	11516899	12	16948											
SH3BP4	23677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	235949909	235949910	+	Frame_Shift_Del	DEL	CA	CA	-																															accctttctggaatggggtcCagaccaatccatttctgaat																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	235949910	CA	-	235949909	7	5	336	1	0	1	0	1	0	0	0	0	14248	595	21	0	502	0	SH3BP4	2	235949909	Frame_Shift_Del	DEL	CA	TCGA-BP-5183-01A-01D-1429-08	4267435	235949909	7249464	13	16949											
CXCR7	57007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	237489349	237489349	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaggctatgacacgcacTgctacatcttgaacctggcc	10	8	8	15	1	1	2	0	2	1	0	1	2	1	2	3	2	3	3	3	2	3	3	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	237489349	T	A	237489349	3	1	336	1	0	0	0	0	1	0	0	0	4096	1580	55	5	243	5	CXCR7	2	237489349	Missense_Mutation	SNP	T	TCGA-BP-5183-01A-01D-1429-08	1539440	237489349	5710024	14	16950											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188248	10188248	+	Frame_Shift_Del	DEL	A	A	-																															cacacgatgggcttctggttAaccaaactgaattatttgtg																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	10188248	A	-	10188248	7	5	336	1	0	1	0	1	0	0	0	0	17161	362	13	0	397	0	VHL	3	10188248	Frame_Shift_Del	DEL	A	TCGA-BP-5183-01A-01D-1429-08		10188248	187834182	15	16951											
ITGA9	3680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	37821430	37821442	+	Frame_Shift_Del	DEL	ACTGTAACTTTAG	ACTGTAACTTTAG	-																															aatttcttgcctaacagcacActgtaactttagtgctcttg																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	ACTGTAACTTTAG	ACTGTAACTTTAG	ACTGTAACTTTAG	-	ACTGTAACTTTAG	ACTGTAACTTTAG	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	37821442	ACTGTAACTTTAG	-	37821430	7	5	336	1	0	1	0	1	0	0	0	0	7883	159	6	0	2803	0	ITGA9	3	37821430	Frame_Shift_Del	DEL	ACTGTAACTTTAG	TCGA-BP-5183-01A-01D-1429-08	27633182	37821430	160201000	16	16952											
MUC4	4585	broad.mit.edu	37	chr3	195505763	195505763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggatactgaggaaaGgctggtgacaggaagagggg	12	6	18	5	0	0	3	0	2	0	1	0	6	0	6	1	7	1	1	1	7	3	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	195505763	A	A	195505763	3	1	336	1	0	0	0	0	1	0	0	0	9978	1000	35	2		2	MUC4	3	195505763	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	157684333	195505763	2516667	17	16953											
RAPGEF6	51735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	130841087	130841087	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactttagtcctgacaatTccatgcatgtactgcttatc	9	16	5	11	0	1	1	0	1	1	0	4	1	3	1	2	0	4	3	2	0	5	6	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	130841087	T	G	130841087	2	3	336	1	0	0	0	0	0	0	0	1	13050	1770	62	5		5	RAPGEF6	5	130841087	Silent	SNP	T	TCGA-BP-5183-01A-01D-1429-08		130841087	50074173	18	16954											
TRERF1	55809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	42232448	42232448	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggctcctgctaacctgtttGaggttgggggaggccctcat	5	12	14	10	0	1	1	1	1	0	0	2	2	2	2	3	5	2	4	3	5	1	3	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	42232448	G	A	42232448	2	1	336	1	0	0	0	0	0	0	0	1	16474	1277	45	2		2	TRERF1	6	42232448	Silent	SNP	G	TCGA-BP-5183-01A-01D-1429-08		42232448	128882619	19	16955											
PGAM2	5224	hgsc.bcm.edu;ucsc.edu	37	chr7	44104731	44104735	+	Frame_Shift_Del	DEL	TAGTA	TAGTA	-																															ccaccttgctaatggagttgTagtaggggtgcttctcgtcc																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	TAGTA	TAGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	44104735	TAGTA	-	44104731	7	5	336	1	0	1	0	1	0	0	0	0	11774	1638	57	0	375	0	PGAM2	7	44104731	Frame_Shift_Del	DEL	TAGTA	TCGA-BP-5183-01A-01D-1429-08		44104731	115033932	20	16956											
MCPH1	79648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	6302771	6302771	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagaagccctaaggtgtTgtagacaggctgggaaagaa	14	7	14	6	0	0	4	0	1	0	3	0	5	0	5	1	3	1	3	1	3	6	3	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	6302771	T	G	6302771	3	3	336	1	0	0	0	0	1	0	0	0	9398	1812	63	5	1558	5	MCPH1	8	6302771	Missense_Mutation	SNP	T	TCGA-BP-5183-01A-01D-1429-08		6302771	140061251	21	16957											
CTSB	1508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11710155	11710155	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacccaggaaggtaccaCatagcctcttcaagtagctc	11	7	8	15	0	2	0	1	0	1	0	3	1	2	1	4	2	3	3	4	2	5	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	11710155	C	A	11710155	3	1	336	1	0	0	0	0	1	0	0	0	4030	478	17	4	875	4	CTSB	8	11710155	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08	5407384	11710155	134653867	22	16958											
DOCK5	80005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	25167945	25167945	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttgggtatccttgaagctCttgcccggtgacctcaccca	6	12	9	14	1	2	2	1	2	1	0	3	2	3	2	4	2	2	2	4	2	2	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	25167945	C	G	25167945	2	3	336	1	0	0	0	0	0	0	0	1	4690	900	32	4		4	DOCK5	8	25167945	Silent	SNP	C	TCGA-BP-5183-01A-01D-1429-08	13457790	25167945	121196077	23	16959											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113650949	113650949	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgttatgttaaatccttCatatgatattgaaaaatctg	15	16	6	4	0	2	2	1	2	1	0	3	3	3	2	1	0	0	2	1	0	8	6	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	113650949	C	A	113650949	4	1	336	1	0	0	0	0	0	1	0	0	3946	835	29	4	7825	4	CSMD3	8	113650949	Nonsense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08	88483004	113650949	32713073	24	16960											
FAM83A	84985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	124204063	124204063	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggtcatcctgatggaTgtgttcacggatgtggagat	7	13	14	7	1	2	2	2	1	0	1	4	5	4	4	2	4	0	1	2	4	0	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		C	124204063	T	C	124204063	2	2	336	1	0	0	0	0	0	0	0	1	5633	1461	51	3		3	FAM83A	8	124204063	Silent	SNP	T	TCGA-BP-5183-01A-01D-1429-08	10553114	124204063	22159959	25	16961											
FREM1	158326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	14748627	14748627	+	Frame_Shift_Del	DEL	A	A	-																															tggttggaggaatatgaaggAtggcattgtcctggaggcat																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	14748627	A	-	14748627	7	5	336	1	0	1	0	1	0	0	0	0	6044	330	12	0	999	0	FREM1	9	14748627	Frame_Shift_Del	DEL	A	TCGA-BP-5183-01A-01D-1429-08		14748627	126464804	26	16962											
C9orf114	51490	broad.mit.edu	37	chr9	131587330	131587330	+	Splice_Site	DEL	T	-	-																															tcttgtcaatcttcacctccTggggagaagccagaagaaat																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	131587330	-	-	131587330	8	5	336	1	0	1	0	1	0	0	1	0	2449	1594	55	0	512	0	C9orf114	9	131587330	Splice_Site	DEL	T	TCGA-BP-5183-01A-01D-1429-08	116838703	131587330	9626101	27	16963											
CHAT	1103	broad.mit.edu;hgsc.bcm.edu	37	chr10	50833615	50833615	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctcctaccggctcccCggccatacccaggacacgct	6	8	7	20	3	1	0	0	0	1	0	4	1	3	1	7	3	2	2	7	3	2	3	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	50833615	C	T	50833615	2	4	336	1	0	0	0	0	0	0	0	1	3313	639	23	1		1	CHAT	10	50833615	Silent	SNP	C	TCGA-BP-5183-01A-01D-1429-08		50833615	84701132	28	16964											
VWA2	340706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	116038497	116038497	+	Frame_Shift_Del	DEL	C	C	-																															gactgcagggtcgaggctcaCccctgtgagcacaggacgct																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	116038497	C	-	116038497	7	5	336	1	0	1	0	1	0	0	0	0	17238	506	18	0	746	0	VWA2	10	116038497	Frame_Shift_Del	DEL	C	TCGA-BP-5183-01A-01D-1429-08	65204882	116038497	19496250	29	16965											
LRP5	4041	broad.mit.edu;ucsc.edu	37	chr11	68181463	68181474	+	In_Frame_Del	DEL	GCAGCCGCAACT	-	-																															acactacaccctggaccccaGcagccgcaactgcagccgta																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	GCAGCCGCAACT	GCAGCCGCAACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	68181474	-	-	68181463	7	5	336	1	0	1	0	1	0	0	0	0	8960	971	34	0	2856	0	LRP5	11	68181463	In_Frame_Del	DEL	GCAGCCGCAACT	TCGA-BP-5183-01A-01D-1429-08		68181463	66825053	30	16966											
NEK3	4752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	52709999	52709999	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtactttattacagaaccaCctagttgcaaaaagacaaaa	18	10	5	8	0	0	2	0	0	0	2	0	2	0	2	2	0	4	3	2	0	9	6	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	52709999	C	T	52709999	3	4	336	1	0	0	0	0	1	0	0	0	10325	521	18	2	357	2	NEK3	13	52709999	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08		52709999	62459879	31	16967											
CLDN10	9071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	96086287	96086287	+	Frame_Shift_Del	DEL	T	T	-																															ttgccgaccgcattttactaTcttcaaagtagcaggtaaat																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	96086287	T	-	96086287	7	5	336	1	0	1	0	1	0	0	0	0	3472	1435	50	0	202	0	CLDN10	13	96086287	Frame_Shift_Del	DEL	T	TCGA-BP-5183-01A-01D-1429-08	43376288	96086287	19083591	32	16968											
UACA	55075	hgsc.bcm.edu;ucsc.edu	37	chr15	70961379	70961380	+	Frame_Shift_Ins	INS	-	-	TA																															cttcatattttactttcaagINStctttcaactgatccttcag																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		TA	70961380	-	TA	70961379	7	5	336	1	0	1	1	0	0	0	0	0	16823	1020	36	0	2622	0	UACA	15	70961379	Frame_Shift_Ins	INS	-	TCGA-BP-5183-01A-01D-1429-08		70961379	31570013	33	16969											
GP2	2813	broad.mit.edu;hgsc.bcm.edu	37	chr16	20331781	20331781	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacagtctagctgaggctGcaaactgtggacatctgcaa	11	8	10	12	0	2	1	0	1	2	0	2	2	2	2	1	2	4	4	1	2	3	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	20331781	G	A	20331781	4	1	336	1	0	0	0	0	0	1	0	0	6582	1328	46	2	971	2	GP2	16	20331781	Nonsense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08		20331781	70022972	34	16970											
RLTPR	146206	hgsc.bcm.edu	37	chr16	67688684	67688685	+	Frame_Shift_Ins	INS	-	-	G																															gcatctctgtccctagcggcINSggcccctggagcggggagaa																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	67688685	-	G	67688684	7	5	336	1	0	1	1	0	0	0	0	0	13396	759	27	0	3712	0	RLTPR	16	67688684	Frame_Shift_Ins	INS	-	TCGA-BP-5183-01A-01D-1429-08	47356903	67688684	22666069	35	16971											
POLR2A	5430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7416113	7416113	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagtggaatgaccccagggGcagccggcttctctcccagt	7	7	14	13	1	1	1	0	1	1	0	3	3	2	3	4	5	1	2	4	5	1	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	7416113	G	A	7416113	3	1	336	1	0	0	0	0	1	0	0	0	12214	1203	42	2	4737	2	POLR2A	17	7416113	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08		7416113	73779097	36	16972											
POLR2A	5430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7416181	7416181	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggttactcccctgcctgGtctcccacaccgggctcccc	4	8	8	21	1	1	0	0	0	1	0	4	0	3	0	8	3	2	2	8	3	1	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	7416181	G	A	7416181	4	1	336	1	0	0	0	0	0	1	0	0	12214	1270	44	2	4805	2	POLR2A	17	7416181	Nonsense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	68	7416181	73779029	37	16973											
KRBA2	124751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8273274	8273274	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttggtgacattcccataTtttccttgcagctccttgag	6	17	7	11	0	1	2	0	2	1	0	4	2	4	2	3	1	2	2	3	1	1	7	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	8273274	T	A	8273274	3	1	336	1	0	0	0	0	1	0	0	0	8440	1490	52	5	825	5	KRBA2	17	8273274	Missense_Mutation	SNP	T	TCGA-BP-5183-01A-01D-1429-08	857093	8273274	72921936	38	16974											
STX8	9482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	9153958	9153958	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagtaaaatcaccatgatCatccctggaaaaaagcagca	18	6	7	10	0	2	1	2	1	0	0	3	2	3	2	2	1	3	4	2	1	5	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	9153958	C	T	9153958	3	4	336	1	0	0	0	0	1	0	0	0	15352	826	29	2	66	2	STX8	17	9153958	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08	880684	9153958	72041252	39	16975											
UBE2O	63893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74392558	74392558	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgttcttgaggctctccagGatcttgatggcctctttcaa	7	15	9	10	0	5	2	1	2	4	0	6	3	5	3	2	3	0	2	2	3	1	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	74392558	G	T	74392558	2	4	336	1	0	0	0	0	0	0	0	1	16867	1164	41	4		4	UBE2O	17	74392558	Silent	SNP	G	TCGA-BP-5183-01A-01D-1429-08	65238600	74392558	6802652	40	16976											
TMX3	54495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	66348333	66348333	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattcagtacaactacagttGggactgtcaattcactgaaa	14	12	7	8	0	3	1	3	1	0	0	3	2	3	2	0	1	3	2	0	1	6	6	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	66348333	G	A	66348333	3	1	336	1	0	0	0	0	1	0	0	0	16267	1348	47	2	456	2	TMX3	18	66348333	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08		66348333	11728915	41	16977											
ZFR2	23217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3813939	3813939	+	Missense_Mutation	SNP	C	C	G																															gggtcggaggagacctcataCtcatcctcggtcaccatctg																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	3813939	C	G	3813939	3	3	336	1	0	0	0	0	1	0	0	0	17659	564	20	4	722	4	ZFR2	19	3813939	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08		3813939	55315044	42	16978	227	2									
ZFR2	23217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3813948	3813948	+	Silent	SNP	G	G	T																															gagacctcatactcatcctcGgtcaccatctgggaggggta																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	3813948	G	T	3813948	2	4	336	1	0	0	0	0	0	0	0	1	17659	1103	39	4		4	ZFR2	19	3813948	Silent	SNP	G	TCGA-BP-5183-01A-01D-1429-08	9	3813948	55315035	43	16979	227	2									
ZNF266	10781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9525150	9525150	+	Frame_Shift_Del	DEL	T	T	-																															atcaaaagctttctctcctgTgcacgttctctggcaaacaa																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	9525150	T	-	9525150	7	5	336	1	0	1	0	1	0	0	0	0	17804	1696	59	0	1202	0	ZNF266	19	9525150	Frame_Shift_Del	DEL	T	TCGA-BP-5183-01A-01D-1429-08	5711202	9525150	49603833	44	16980											
KEAP1	9817	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10602352	10602352	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggttacggggcacgctcAtgggggcgcagggcgaccac	6	5	18	12	5	1	0	1	0	0	0	1	1	1	0	1	6	2	4	1	6	1	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	10602352	A	G	10602352	3	3	336	1	0	0	0	0	1	0	0	0	8141	217	8	3	664	3	KEAP1	19	10602352	Missense_Mutation	SNP	A	TCGA-BP-5183-01A-01D-1429-08	1077202	10602352	48526631	45	16981											
ZNF257	113835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	22270900	22270900	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttacaattaagaaagggCtgtaaaagtgtggatgagtg	16	11	12	2	0	0	2	0	1	0	1	0	3	0	3	0	2	1	2	0	2	7	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	22270900	C	A	22270900	2	1	336	1	0	0	0	0	0	0	0	1	17799	784	28	4		4	ZNF257	19	22270900	Silent	SNP	C	TCGA-BP-5183-01A-01D-1429-08	11668548	22270900	36858083	46	16982											
ZNF568	374900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37428114	37428114	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagaggagccctgggtgatgGaggaagaaatgtttgggagg	12	7	19	3	0	0	3	0	1	0	2	0	7	0	7	1	6	1	1	1	6	3	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	37428114	G	A	37428114	3	1	336	1	0	0	0	0	1	0	0	0	17998	1175	41	2	342	2	ZNF568	19	37428114	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	15157214	37428114	21700869	47	16983											
PSG1	5669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43376181	43376181	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagttgctgctggagatggaGggcttaggagtctccactgt	8	11	15	7	0	1	1	0	0	1	1	2	4	1	3	1	4	2	4	1	4	2	2	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	43376181	G	A	43376181	2	1	336	1	0	0	0	0	0	0	0	1	12655	987	35	2		2	PSG1	19	43376181	Silent	SNP	G	TCGA-BP-5183-01A-01D-1429-08	5948067	43376181	15752802	48	16984											
SLC6A16	28968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49797187	49797187	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctcagccccatggccagCaacatcaggaagaagataaa	15	5	9	12	0	2	2	2	0	0	2	2	3	2	3	3	2	4	2	3	2	5	1	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	49797187	C	T	49797187	2	4	336	1	0	0	0	0	0	0	0	1	14681	709	25	2		2	SLC6A16	19	49797187	Silent	SNP	C	TCGA-BP-5183-01A-01D-1429-08	6421006	49797187	9331796	49	16985											
NCOA3	8202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	46268421	46268421	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaacctatgaattcaaaCtccatgggaagaccaggagg	15	7	11	8	0	1	2	1	1	0	1	2	5	2	5	3	4	2	0	3	4	5	2	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		G	46268421	C	G	46268421	3	3	336	1	0	0	0	0	1	0	0	0	10230	564	20	4	2888	4	NCOA3	20	46268421	Missense_Mutation	SNP	C	TCGA-BP-5183-01A-01D-1429-08		46268421	16757099	50	16986											
ITSN1	6453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	35254745	35254745	+	Frame_Shift_Del	DEL	A	A	-																															ccaaatcaaacctgcagtatAaaatgtataaaacagtaagt																								novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		-	35254745	A	-	35254745	7	5	336	1	0	1	0	1	0	0	0	0	7926	363	13	0	4680	0	ITSN1	21	35254745	Frame_Shift_Del	DEL	A	TCGA-BP-5183-01A-01D-1429-08		35254745	12875150	51	16987											
DSCR6	53820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38385914	38385914	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttgggtttcagcatcctGtaaggtaatatacgacttca	10	14	8	9	1	2	0	2	0	0	0	3	1	3	0	2	2	2	4	2	2	4	7	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		C	38385914	G	C	38385914	3	2	336	1	0	0	0	0	1	0	0	0	4773	1377	48	4	245	4	DSCR6	21	38385914	Missense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	3131169	38385914	9743981	52	16988											
CECR1	51816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	17690279	17690279	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttagaatattaaacacttGacttctctcaatgagatgct	13	14	5	9	0	2	3	1	2	1	2	3	4	2	3	1	0	2	1	1	0	6	5	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		A	17690279	G	A	17690279	4	1	336	1	0	0	0	0	0	1	0	0	3205	1299	45	2	1316	2	CECR1	22	17690279	Nonsense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08		17690279	33614287	53	16989											
SEPT3	55964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42383654	42383654	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattgagaagtacatcaatGagcagtacgagaagttcctg	14	9	10	8	1	1	3	1	2	0	2	2	5	2	3	2	0	3	4	2	0	5	4	novel		TCGA-BP-5183-01A-01D-1429-08	TCGA-BP-5183-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cd4c37c3-95f2-4612-b6a8-9d6d1dfb5fd4	3ac4a265-3777-4983-a7ce-c4a1674df004		T	42383654	G	T	42383654	4	4	336	1	0	0	0	0	0	1	0	0	14067	1291	45	4	460	4	SEPT3	22	42383654	Nonsense_Mutation	SNP	G	TCGA-BP-5183-01A-01D-1429-08	24693375	42383654	8920912	54	16990											
ELOVL1	64834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43829743	43829743	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgaataatgactgggtaCtggtagttacagctggacat	12	11	13	5	0	0	2	0	2	0	0	0	3	0	3	0	4	3	4	0	4	5	4	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	43829743	C	T	43829743	2	4	337	1	0	0	0	0	0	0	0	1	5073	564	20	2		2	ELOVL1	1	43829743	Silent	SNP	C	TCGA-BP-5184-01A-01D-1429-08		43829743	205420878	1	16991											
CACHD1	57685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	65117974	65117974	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactctttggcttcctatacTtttctcatagacgacaaagg	10	14	7	10	1	2	1	1	0	2	1	4	3	3	1	1	2	1	1	1	2	4	7	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		C	65117974	T	C	65117974	2	2	337	1	0	0	0	0	0	0	0	1	2537	1596	56	3		3	CACHD1	1	65117974	Silent	SNP	T	TCGA-BP-5184-01A-01D-1429-08	21288231	65117974	184132647	2	16992											
PMVK	10654	broad.mit.edu	37	chr1	154904889	154904889	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcacagacatcagctccaAgtctgcaggacagggagatc	13	5	11	12	0	2	2	1	0	1	2	4	4	3	3	1	2	3	3	1	2	1	0	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	154904889	T	T	154904889	3	4	337	1	0	0	0	0	1	0	0	0	12144	72	3	5	496	5	PMVK	1	154904889	Missense_Mutation	SNP	A	TCGA-BP-5184-01A-01D-1429-08	89786915	154904889	94345732	3	16993											
KCNH7	90134	broad.mit.edu;hgsc.bcm.edu	37	chr2	163253263	163253263	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatacctttgcgctctcaTgccttaggttgaaagtcaac	10	13	7	11	1	2	1	2	1	1	0	3	1	2	1	2	1	4	2	2	1	5	5	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		G	163253263	T	G	163253263	3	3	337	1	0	0	0	0	1	0	0	0	8037	1464	51	5	1014	5	KCNH7	2	163253263	Missense_Mutation	SNP	T	TCGA-BP-5184-01A-01D-1429-08		163253263	79946110	4	16994											
CHRNA1	1134	hgsc.bcm.edu;ucsc.edu	37	chr2	175614765	175614767	+	In_Frame_Del	DEL	AAC	AAC	-																															tgatgatggaggcaatgacgAacaccatggtgaacagcatg																								novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		-	175614767	AAC	-	175614765	7	5	337	1	0	1	0	1	0	0	0	0	3381	246	9	0	474	0	CHRNA1	2	175614765	In_Frame_Del	DEL	AAC	TCGA-BP-5184-01A-01D-1429-08	12361502	175614765	67584608	5	16995											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188284	10188287	+	Frame_Shift_Del	DEL	GACG	GACG	-																															ttgtgccatctctcaatgttGacggacagcctatttttgcc																								novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	GACG	GACG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		-	10188287	GACG	-	10188284	7	5	337	1	0	1	0	1	0	0	0	0	17161	1290	45	0	433	0	VHL	3	10188284	Frame_Shift_Del	DEL	GACG	TCGA-BP-5184-01A-01D-1429-08		10188284	187834146	6	16996											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52613123	52613123	+	Frame_Shift_Del	DEL	A	A	-																															ttgatgaagacacagtcgccAaccttcagccacatgtcatt																								novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	A	A	A	-	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		-	52613123	A	-	52613123	7	5	337	1	0	1	0	1	0	0	0	0	11491	117	5	0	1460	0	PBRM1	3	52613123	Frame_Shift_Del	DEL	A	TCGA-BP-5184-01A-01D-1429-08	42424839	52613123	145409307	7	16997											
THAP9	79725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83839957	83839957	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcattcagagagaactgaTatgaaaactttatcaaggaa	18	10	7	6	0	3	4	3	2	0	2	3	6	3	5	0	1	2	0	0	1	7	4	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	83839957	T	A	83839957	3	1	337	1	0	0	0	0	1	0	0	0	15850	1403	49	5	2610	5	THAP9	4	83839957	Missense_Mutation	SNP	T	TCGA-BP-5184-01A-01D-1429-08		83839957	107314319	8	16998											
HERC5	51191	broad.mit.edu;hgsc.bcm.edu	37	chr4	89425491	89425491	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtgcgacgaagacattatCaaattattccaccccgaaga	15	9	7	10	3	1	2	1	0	0	2	2	5	2	2	3	0	1	0	3	0	5	3	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	89425491	C	T	89425491	2	4	337	1	0	0	0	0	0	0	0	1	7061	816	29	2		2	HERC5	4	89425491	Silent	SNP	C	TCGA-BP-5184-01A-01D-1429-08	5585534	89425491	101728785	9	16999											
NRG2	9542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139232130	139232130	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatggtctgtggctggcacGttcttggaaatatactggaa	10	12	12	7	1	2	0	0	0	2	0	2	2	2	2	0	5	1	3	0	5	4	4	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	139232130	G	A	139232130	2	1	337	1	0	0	0	0	0	0	0	1	10648	1136	40	1		1	NRG2	5	139232130	Silent	SNP	G	TCGA-BP-5184-01A-01D-1429-08		139232130	41683130	10	17000											
UTRN	7402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	145103091	145103091	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgagtacaacaaatgaaaTtttcaaacagcacaagttga	18	10	7	6	0	1	3	1	3	0	0	1	3	1	3	0	0	4	4	0	0	6	5	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	145103091	T	A	145103091	3	1	337	1	0	0	0	0	1	0	0	0	17102	1493	52	5	8904	5	UTRN	6	145103091	Missense_Mutation	SNP	T	TCGA-BP-5184-01A-01D-1429-08		145103091	26011976	11	17001											
UNC93A	54346	broad.mit.edu;ucsc.edu	37	chr6	167721380	167721380	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgtggcagatgccgtcTggcagacacaaaacaatggt	11	6	15	9	2	1	2	0	0	1	2	1	2	1	2	1	5	2	2	1	5	3	0	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		C	167721380	C	C	167721380	3	2	337	1	0	0	0	0	1	0	0	0	16995	1580	55	3	1116	3	UNC93A	6	167721380	Missense_Mutation	SNP	T	TCGA-BP-5184-01A-01D-1429-08	22618289	167721380	3393687	12	17002											
ABCB1	5243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	87183102	87183102	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttgtccaatagaatatTcccctgagaggaccaaggtg	12	10	10	9	0	0	2	0	1	0	2	2	4	2	3	4	2	1	1	4	2	6	5	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		C	87183102	T	C	87183102	3	2	337	1	0	0	0	0	1	0	0	0	40	1783	62	3	2948	3	ABCB1	7	87183102	Missense_Mutation	SNP	T	TCGA-BP-5184-01A-01D-1429-08		87183102	71955561	13	17003											
CSPP1	79848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	68007701	68007701	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaggacagataccgacaActagatgatgaaatcgaatt	17	7	11	6	2	0	4	0	2	0	2	1	9	0	6	1	2	2	0	1	2	5	3	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	68007701	A	T	68007701	3	4	337	1	0	0	0	0	1	0	0	0	3962	40	2	5	819	5	CSPP1	8	68007701	Missense_Mutation	SNP	A	TCGA-BP-5184-01A-01D-1429-08		68007701	78356321	14	17004											
EBAG9	9166	broad.mit.edu;ucsc.edu	37	chr8	110567065	110567065	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaattctttggaacaactGgaacctgactattttaagga	15	12	7	7	0	1	1	0	1	1	0	1	4	1	4	1	3	3	0	1	3	7	5	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	110567065	A	A	110567065	2	1	337	1	0	0	0	0	0	0	0	1	4879	1335	47	2		2	EBAG9	8	110567065	Silent	SNP	G	TCGA-BP-5184-01A-01D-1429-08	42559364	110567065	35796957	15	17005											
TSNARE1	203062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	143412303	143412303	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcactcggtgtccctaaGgactgaaggctccgctccaa	8	9	11	13	2	1	1	1	1	0	0	5	2	4	2	3	3	0	2	3	3	3	1	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	143412303	G	A	143412303	2	1	337	1	0	0	0	0	0	0	0	1	16629	987	35	2		2	TSNARE1	8	143412303	Silent	SNP	G	TCGA-BP-5184-01A-01D-1429-08	32845238	143412303	2951719	16	17006											
HBB	3043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5247899	5247899	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtccaggtgagccaggcCatcactaaaggcaccgagca	11	6	12	12	1	1	1	1	1	0	0	2	2	2	1	4	3	2	3	4	3	2	2	rs121909804	alternate_allele	TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	5247899	C	A	5247899	3	1	337	1	0	0	0	0	1	0	0	0	6978	594	21	4	228	4	HBB	11	5247899	Missense_Mutation	SNP	C	TCGA-BP-5184-01A-01D-1429-08		5247899	129758617	17	17007											
C11orf2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64875906	64875906	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgccaggtggcggcggcCtaccaggagctgtttgcggc	4	8	16	13	3	1	0	0	0	1	0	1	1	1	1	3	6	4	2	3	6	1	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	64875906	C	A	64875906	2	1	337	1	0	0	0	0	0	0	0	1	1633	668	24	4		4	C11orf2	11	64875906	Silent	SNP	C	TCGA-BP-5184-01A-01D-1429-08	59628007	64875906	70130610	18	17008											
PCF11	51585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	82877723	82877723	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaagttccaagtctgccaAaagatggaaatctggttggg	13	9	12	7	0	2	1	0	0	2	1	3	2	3	2	2	3	1	3	2	3	5	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		G	82877723	A	G	82877723	3	3	337	1	0	0	0	0	1	0	0	0	11573	14	1	3	1802	3	PCF11	11	82877723	Missense_Mutation	SNP	A	TCGA-BP-5184-01A-01D-1429-08	18001817	82877723	52128793	19	17009											
GRIA4	2893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	105842733	105842733	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtacgataaaggtgaatgtgGacccaaggactctggaagca	14	7	13	7	1	1	1	0	1	1	0	1	5	1	4	1	4	2	2	1	4	6	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	105842733	G	A	105842733	3	1	337	1	0	0	0	0	1	0	0	0	6770	1174	41	2	2597	2	GRIA4	11	105842733	Missense_Mutation	SNP	G	TCGA-BP-5184-01A-01D-1429-08	22965010	105842733	29163783	20	17010											
FDXACB1	91893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	111749783	111749783	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtaagttgagtgctctgaTccagggtttcgctcagagcg	7	11	14	9	3	2	3	1	2	1	1	4	3	3	3	1	2	2	5	1	2	1	3	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		C	111749783	T	C	111749783	3	2	337	1	0	0	0	0	1	0	0	0	5806	1435	50	3	1820	3	FDXACB1	11	111749783	Missense_Mutation	SNP	T	TCGA-BP-5184-01A-01D-1429-08	5907050	111749783	23256733	21	17011											
NCAPD3	23310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	134062791	134062791	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctttctggatctgcacgCatctaggctgagccttagga	8	11	12	10	1	3	1	0	1	3	0	3	3	3	3	1	4	2	4	1	4	2	3	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	134062791	C	T	134062791	3	4	337	1	0	0	0	0	1	0	0	0	10206	710	25	2	2738	2	NCAPD3	11	134062791	Missense_Mutation	SNP	C	TCGA-BP-5184-01A-01D-1429-08	22313008	134062791	943725	22	17012											
TRPV4	59341	broad.mit.edu;hgsc.bcm.edu	37	chr12	110226511	110226511	+	Silent	SNP	G	G	A																															ttggcacacgggttcaggagGgagaccagggctgtgggagg																								novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	110226511	G	A	110226511	2	1	337	1	0	0	0	0	0	0	0	1	16597	1219	43	2		2	TRPV4	12	110226511	Silent	SNP	G	TCGA-BP-5184-01A-01D-1429-08		110226511	23625384	23	17013	228	2									
TRPV4	59341	hgsc.bcm.edu	37	chr12	110226512	110226512	+	Missense_Mutation	SNP	G	G	C																															tggcacacgggttcaggaggGagaccagggctgtgggagga																								novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		C	110226512	G	C	110226512	3	2	337	1	0	0	0	0	1	0	0	0	16597	1174	41	4	730	4	TRPV4	12	110226512	Missense_Mutation	SNP	G	TCGA-BP-5184-01A-01D-1429-08	1	110226512	23625383	24	17014	228	2									
ZC3H13	23091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	46584527	46584527	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatactgcagatgtcttcctAtctttcttgctagctgaaga	9	15	8	9	0	3	3	0	1	3	2	4	4	4	3	1	0	4	3	1	0	4	6	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		G	46584527	A	G	46584527	2	3	337	1	0	0	0	0	0	0	0	1	17564	446	16	3		3	ZC3H13	13	46584527	Silent	SNP	A	TCGA-BP-5184-01A-01D-1429-08		46584527	68585351	25	17015											
PRKD1	5587	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	30066775	30066775	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtcgtgtatgtcttcatCttcattaaatgggaatgtgc	8	17	10	6	1	4	0	2	0	2	0	5	1	4	1	0	2	1	1	0	2	4	5	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	30066775	C	A	30066775	3	1	337	1	0	0	0	0	1	0	0	0	12520	913	32	4	394	4	PRKD1	14	30066775	Missense_Mutation	SNP	C	TCGA-BP-5184-01A-01D-1429-08		30066775	77282765	26	17016											
ZNF592	9640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	85326331	85326331	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaccttcaaccagttcaGtccaatctccagcccagaac	12	7	4	18	0	3	1	2	0	1	1	5	1	4	1	6	0	3	1	6	0	3	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	85326331	G	T	85326331	3	4	337	1	0	0	0	0	1	0	0	0	18021	1029	36	4	427	4	ZNF592	15	85326331	Missense_Mutation	SNP	G	TCGA-BP-5184-01A-01D-1429-08		85326331	17205061	27	17017											
ALPK2	115701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56205081	56205081	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagggcagtatctgtgggttCaggggaagcaacagagacag	12	6	17	6	0	2	1	1	0	1	1	2	4	2	2	0	4	2	4	0	4	3	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	56205081	C	T	56205081	3	4	337	1	0	0	0	0	1	0	0	0	545	835	29	2	4210	2	ALPK2	18	56205081	Missense_Mutation	SNP	C	TCGA-BP-5184-01A-01D-1429-08		56205081	21872167	28	17018											
OLFM2	93145	hgsc.bcm.edu;ucsc.edu	37	chr19	9968474	9968475	+	Frame_Shift_Ins	INS	-	-	AT																															agggtctccatgccgcgtacINSatactggaggtcgcgatacg																								novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		AT	9968475	-	AT	9968474	7	5	337	1	0	1	1	0	0	0	0	0	10853	478	17	0	1103	0	OLFM2	19	9968474	Frame_Shift_Ins	INS	-	TCGA-BP-5184-01A-01D-1429-08		9968474	49160509	29	17019											
KCNN4	3783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44273604	44273604	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccctcacgcgttgatggCggccagcagcttgcgctgat	5	8	14	14	5	1	2	1	2	0	0	1	2	1	2	2	3	3	4	2	3	0	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		T	44273604	C	T	44273604	3	4	337	1	0	0	0	0	1	0	0	0	8081	768	27	1	256	1	KCNN4	19	44273604	Missense_Mutation	SNP	C	TCGA-BP-5184-01A-01D-1429-08	34305130	44273604	14855379	30	17020											
CDK5RAP1	51654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31946924	31946924	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctgagaactggctgaGgtgatctgaaagaaaaccag	14	8	13	6	0	2	5	0	4	2	2	2	6	2	5	1	2	2	1	1	2	4	0	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	31946924	G	A	31946924	2	1	337	1	0	0	0	0	0	0	0	1	3145	987	35	2		2	CDK5RAP1	20	31946924	Silent	SNP	G	TCGA-BP-5184-01A-01D-1429-08		31946924	31078596	31	17021											
FGF13	2258	broad.mit.edu;ucsc.edu	37	chrX	137715047	137715047	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctcatggatttgcctccGttcagcacgccagagacact	8	10	10	13	2	2	1	2	0	0	1	3	3	3	2	3	2	2	3	3	2	0	2	novel		TCGA-BP-5184-01A-01D-1429-08	TCGA-BP-5184-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ddebed14-f47f-46e6-ac39-c74ed3363211	5d1f5125-65c2-4c47-843d-da1c531fdb04		A	137715047	A	A	137715047	2	1	337	1	0	0	0	0	0	0	0	1	5842	1136	40	1		1	FGF13	23	137715047	Silent	SNP	G	TCGA-BP-5184-01A-01D-1429-08		137715047	17555513	32	17022											
EPHA8	2046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22920016	22920016	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaccaccgtcccgtggcaGgacaaggagatgcagagcta	11	5	13	12	2	0	3	0	1	0	2	1	5	1	4	3	3	2	3	3	3	2	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	22920016	G	C	22920016	5	2	338	1	0	0	0	0	0	0	1	0	5173	1014	35	4	1639	4	EPHA8	1	22920016	Splice_Site	SNP	G	TCGA-BP-5185-01A-01D-1429-08		22920016	226330605	1	17023											
MED18	54797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28661113	28661113	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcaccctggcatctgcgcTacctgggacagccagaaatg	9	6	13	13	1	1	1	0	0	1	1	1	2	1	2	3	3	3	3	3	3	2	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	28661113	T	A	28661113	3	1	338	1	0	0	0	0	1	0	0	0	9436	1522	53	5	265	5	MED18	1	28661113	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08	5741097	28661113	220589508	2	17024											
RNF19B	127544	broad.mit.edu	37	chr1	33415334	33415334	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccttccctctcacaagttAgcttcgggcagctggcacag	9	9	9	14	1	1	0	1	0	1	0	4	0	2	0	2	2	3	5	2	2	3	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	33415334	G	G	33415334	3	3	338	1	0	0	0	0	1	0	0	0	13473	420	15	3	1579	3	RNF19B	1	33415334	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	4754221	33415334	215835287	3	17025											
ATXN7L2	127002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110031529	110031529	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaggactttgacgtgctgGtggcagagctgaaggccaac	10	7	14	10	1	0	3	0	2	0	1	0	4	0	4	2	4	3	3	2	4	3	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	110031529	G	C	110031529	3	2	338	1	0	0	0	0	1	0	0	0	1217	1261	44	4	870	4	ATXN7L2	1	110031529	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	76616195	110031529	139219092	4	17026											
ZNF687	57592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151259347	151259347	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agggggctctgaccccgcctCctttcccctcttcctttgag	3	12	9	17	1	2	2	0	2	2	0	5	2	5	2	7	2	0	1	7	2	0	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	151259347	C	G	151259347	3	3	338	1	0	0	0	0	1	0	0	0	18091	855	30	4	582	4	ZNF687	1	151259347	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	41227818	151259347	97991274	5	17027											
FLG	2312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152286259	152286260	+	Frame_Shift_Del	DEL	TG	TG	-																															gttcatgggatgatgcagtcTgtccacgagaggaagtctct																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	152286260	TG	-	152286259	7	5	338	1	0	1	0	1	0	0	0	0	5922	1580	55	0	11086	0	FLG	1	152286259	Frame_Shift_Del	DEL	TG	TCGA-BP-5185-01A-01D-1429-08	1026912	152286259	96964362	6	17028	229	2									
FLG	2312	hgsc.bcm.edu	37	chr1	152286260	152286260	+	Missense_Mutation	SNP	G	G	C																															ttcatgggatgatgcagtctGtccacgagaggaagtctctg																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	152286260	G	C	152286260	3	2	338	1	0	0	0	0	1	0	0	0	5922	1386	48	4	11087	4	FLG	1	152286260	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	1	152286260	96964361	7	17029	229	2									
UBAP2L	9898	broad.mit.edu;ucsc.edu	37	chr1	154229659	154229659	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagtctcaatagtggcAgtagcctgggcctcagccta	8	9	10	14	0	2	0	2	0	1	0	4	0	3	0	5	2	2	2	5	2	4	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	154229659	C	C	154229659	3	2	338	1	0	0	0	0	1	0	0	0	16837	188	7	5	2348	5	UBAP2L	1	154229659	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	1943399	154229659	95020962	8	17030											
CHI3L1	1116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203148901	203148901	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacctaccttgcttttgacGctttcctggtcgtcgtatcc	6	15	7	13	3	0	1	0	1	0	0	4	1	2	1	4	1	3	3	4	1	3	6	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	203148901	G	C	203148901	3	2	338	1	0	0	0	0	1	0	0	0	3340	1078	38	4	160	4	CHI3L1	1	203148901	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	48919242	203148901	46101720	9	17031											
MYCN	4613	broad.mit.edu;hgsc.bcm.edu	37	chr2	16085629	16085629	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcagatgatgaagatgatGaagaggaagatgaagaggaa	18	7	14	2	0	1	10	1	5	1	5	2	12	1	12	0	2	0	0	0	2	5	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	16085629	G	A	16085629	3	1	338	1	0	0	0	0	1	0	0	0	10021	1291	45	2	811	2	MYCN	2	16085629	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		16085629	227113744	10	17032											
PPM1B	5495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44428909	44428909	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcagcgtgatgatacaaCgtgttaatggttcattagca	12	11	12	6	2	1	2	1	2	0	0	1	3	1	2	0	2	4	4	0	2	4	4	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	44428909	C	A	44428909	3	1	338	1	0	0	0	0	1	0	0	0	12338	536	19	4	573	4	PPM1B	2	44428909	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	28343280	44428909	198770464	11	17033											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141643767	141643767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaacatctgtccaataaaGtaaactttgattgaagtgaa	17	12	6	6	0	1	3	0	3	1	0	2	3	2	3	1	0	3	1	1	0	9	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	141643767	G	A	141643767	3	1	338	1	0	0	0	0	1	0	0	0	8955	1029	36	2	10167	2	LRP1B	2	141643767	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	97214858	141643767	101555606	12	17034											
PKP4	8502	hgsc.bcm.edu;ucsc.edu	37	chr2	159499100	159499101	+	In_Frame_Ins	INS	-	-	GCAAGT																															ccttcgaaacctcgtttttgINSgcaagtctacagatgaaaat																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		GCAAGT	159499101	-	GCAAGT	159499100	7	5	338	1	0	1	1	0	0	0	0	0	11987	1348	47	0	1836	0	PKP4	2	159499100	In_Frame_Ins	INS	-	TCGA-BP-5185-01A-01D-1429-08	17855333	159499100	83700273	13	17035	230	2									
PKP4	8502	broad.mit.edu;hgsc.bcm.edu	37	chr2	159499107	159499107	+	Missense_Mutation	SNP	C	C	G																															aaacctcgtttttggcaagtCtacagatgaaaataaaatag																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	159499107	C	G	159499107	3	3	338	1	0	0	0	0	1	0	0	0	11987	913	32	4	1843	4	PKP4	2	159499107	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	7	159499107	83700266	14	17036	230	2									
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179428026	179428026	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccattcatccgcagcagcTtctttgacctctacaacata	10	12	5	14	1	3	1	1	1	2	0	5	1	5	1	3	0	4	3	3	0	3	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	179428026	T	C	179428026	2	2	338	1	0	0	0	0	0	0	0	1	16734	1606	56	3		3	TTN	2	179428026	Silent	SNP	T	TCGA-BP-5185-01A-01D-1429-08	19928919	179428026	63771347	15	17037											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179441832	179441832	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctggtttctctcttttcaAgtatataggacttaattggt	8	18	9	6	0	3	0	1	0	2	0	4	1	3	1	0	4	0	3	0	4	5	8	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	179441832	A	T	179441832	3	4	338	1	0	0	0	0	1	0	0	0	16734	72	3	5	38905	5	TTN	2	179441832	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	13806	179441832	63757541	16	17038											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179616303	179616303	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttctgctcttttcagaaaTtctaaatatttctcatcttg	9	19	4	9	1	6	1	2	0	5	1	7	1	6	1	0	0	1	2	0	0	4	8	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	179616303	T	G	179616303	3	3	338	1	0	0	0	0	1	0	0	0	16734	1490	52	5	99473	5	TTN	2	179616303	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08	174471	179616303	63583070	17	17039											
ZNF804A	91752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	185801058	185801058	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attattattaccttcattttGcaagtttcaacttcagttat	11	20	3	7	0	3	0	3	0	0	0	3	0	3	0	1	0	3	3	1	0	6	9	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	185801058	G	C	185801058	3	2	338	1	0	0	0	0	1	0	0	0	18169	1319	46	4	949	4	ZNF804A	2	185801058	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	6184755	185801058	57398315	18	17040											
USP40	55230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234431973	234431973	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgacacctgctgggattgCtaaggctgtgaggacagtgc	9	9	15	8	0	0	2	0	2	0	0	0	5	0	4	1	3	3	3	1	3	1	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	234431973	C	T	234431973	3	4	338	1	0	0	0	0	1	0	0	0	17071	797	28	2	1734	2	USP40	2	234431973	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	48630915	234431973	8767400	19	17041											
AGAP1	116987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	236706509	236706509	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtctgttccgcgcaggtGtctgccgtgcacatcagcca	5	10	11	15	4	3	0	1	0	2	0	5	0	5	0	4	1	3	3	4	1	0	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	236706509	G	A	236706509	2	1	338	1	0	0	0	0	0	0	0	1	366	1364	48	2		2	AGAP1	2	236706509	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08	2274536	236706509	6492864	20	17042											
ITIH4	3700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52854657	52854657	+	Frame_Shift_Del	DEL	G	G	-																															ccacacccaccgccttccatGggcttctcagcaacttgaga																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	52854657	G	-	52854657	7	5	338	1	0	1	0	1	0	0	0	0	7906	1335	47	0	1016	0	ITIH4	3	52854657	Frame_Shift_Del	DEL	G	TCGA-BP-5185-01A-01D-1429-08		52854657	145167773	21	17043											
NPHP3	27031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132419270	132419270	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatcagtgtgttgggggAattcttctgttgtaattgaa	11	15	12	3	0	3	2	1	1	2	1	3	3	3	3	0	2	0	3	0	2	5	6	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	132419270	A	G	132419270	3	3	338	1	0	0	0	0	1	0	0	0	10580	246	9	3	2409	3	NPHP3	3	132419270	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	79564613	132419270	65603160	22	17044											
ATR	545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142184019	142184019	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacacatcatgatgtagaActttccatctgagcctttta	11	15	5	10	0	2	3	1	2	1	1	3	3	3	3	2	0	3	1	2	0	4	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	142184019	A	T	142184019	3	4	338	1	0	0	0	0	1	0	0	0	1204	43	2	5	1001	5	ATR	3	142184019	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	9764749	142184019	55838411	23	17045											
SCD5	79966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83719576	83719576	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttctgccgctgcccgcGcgcgcctggcctctccgggc	1	8	14	18	6	2	0	0	0	2	0	3	1	2	0	5	2	2	2	5	2	0	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	83719576	G	A	83719576	3	1	338	1	0	0	0	0	1	0	0	0	13889	1087	38	1	1103	1	SCD5	4	83719576	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		83719576	107434700	24	17046											
ARFIP1	27236	hgsc.bcm.edu;ucsc.edu	37	chr4	153831304	153831304	+	Frame_Shift_Del	DEL	T	T	-																															gaagcagcttgaacagacacTtaaacagttccatatcaaat																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	153831304	T	-	153831304	7	5	338	1	0	1	0	1	0	0	0	0	854	1609	56	0	1085	0	ARFIP1	4	153831304	Frame_Shift_Del	DEL	T	TCGA-BP-5185-01A-01D-1429-08	70111728	153831304	37322972	25	17047											
NAF1	92345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	164050071	164050071	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagtaaggtccaaaatgaGaattactatctccagaagag	18	9	8	6	0	1	3	0	1	1	3	3	4	2	3	2	1	1	1	2	1	9	4	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	164050071	G	T	164050071	3	4	338	1	0	0	0	0	1	0	0	0	10140	942	33	4	166	4	NAF1	4	164050071	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	10218767	164050071	27104205	26	17048											
FEM1C	56929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	114878826	114878826	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatggccatcgaaacacgcaGctcgaagaggagttgaattg	14	7	12	8	3	0	2	0	1	0	1	2	5	0	3	1	2	2	3	1	2	4	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	114878826	G	A	114878826	3	1	338	1	0	0	0	0	1	0	0	0	5811	971	34	2	1496	2	FEM1C	5	114878826	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		114878826	66036434	27	17049											
AQPEP	206338	broad.mit.edu;ucsc.edu	37	chr5	115298600	115298600	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccggggccctgggaccagCtacgcctgccgccctggctc	3	5	13	20	3	0	0	0	0	0	0	1	1	0	1	7	4	3	2	7	4	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	115298600	G	G	115298600	3	3	338	1	0	0	0	0	1	0	0	0	834	796	28	4	288	4	AQPEP	5	115298600	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	419774	115298600	65616660	28	17050											
PCDHAC2	56134	broad.mit.edu;ucsc.edu	37	chr5	140346845	140346845	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaatcggtggcgcctggagCgcgctttcacatagagagtg	8	8	15	10	5	1	1	1	0	0	1	2	4	1	2	1	3	1	1	1	3	2	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	140346845	A	A	140346845	3	1	338	1	0	0	0	0	1	0	0	0	11533	768	27	4	496	4	PCDHAC2	5	140346845	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	25048245	140346845	40568415	29	17051											
PCDHGB7	56099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140798869	140798869	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agtgcctctgacccagacttCgggctcaacggccgtgtctc	6	9	11	15	3	3	2	1	1	2	1	5	2	3	2	3	2	2	1	3	2	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	140798869	C	G	140798869	3	3	338	1	0	0	0	0	1	0	0	0	11568	883	31	4	1445	4	PCDHGB7	5	140798869	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	452024	140798869	40116391	30	17052											
PCDHGC5	56097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140870296	140870296	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctactccattgtaggaaatCaggttcagggagccccagcc	10	8	10	13	0	2	0	2	0	0	0	3	2	3	2	5	3	3	2	5	3	3	4	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	140870296	C	T	140870296	4	4	338	1	0	0	0	0	0	1	0	0	11571	827	29	2	1491	2	PCDHGC5	5	140870296	Nonsense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	71427	140870296	40044964	31	17053											
MAML1	9794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179193074	179193074	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacacctctggtcagcccCgggcggacaatcccagtcca	8	6	9	18	2	2	0	1	0	1	0	5	1	5	1	6	3	1	0	6	3	1	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	179193074	C	G	179193074	3	3	338	1	0	0	0	0	1	0	0	0	9205	643	23	4	1069	4	MAML1	5	179193074	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	38322778	179193074	1722186	32	17054											
CDYL	9425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	4892566	4892566	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actagtgcctcaggtgcccgGccctgtgactgcagccatgg	6	8	13	14	1	1	1	1	1	0	0	1	1	1	1	4	3	4	1	4	3	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	4892566	G	A	4892566	3	1	338	1	0	0	0	0	1	0	0	0	3185	1203	42	2	650	2	CDYL	6	4892566	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		4892566	166222501	33	17055											
HIVEP1	3096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	12164030	12164030	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcatggaaaccgtcaataTtgtaggcctagccaatacaa	16	8	8	9	1	1	0	1	0	0	0	1	1	1	1	3	2	4	2	3	2	9	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	12164030	T	C	12164030	3	2	338	1	0	0	0	0	1	0	0	0	7186	1493	52	3	7523	3	HIVEP1	6	12164030	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08	7271464	12164030	158951037	34	17056											
LRP11	84918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150164137	150164137	+	Missense_Mutation	SNP	C	C	T																															acctcctgtggagtaggctgCgcgaagcactgtcactgaca																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	150164137	C	T	150164137	3	4	338	1	0	0	0	0	1	0	0	0	8953	768	27	1	627	1	LRP11	6	150164137	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	138000107	150164137	20950930	35	17057	231	2									
LRP11	84918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150164138	150164138	+	Silent	SNP	G	G	A																															cctcctgtggagtaggctgcGcgaagcactgtcactgacac																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	150164138	G	A	150164138	2	1	338	1	0	0	0	0	0	0	0	1	8953	1074	38	1		1	LRP11	6	150164138	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08	1	150164138	20950929	36	17058	231	2									
TULP4	56995	broad.mit.edu	37	chr6	158923758	158923758	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccaagggcgggcccgggggGgtggtgacacagctcccagc	6	4	18	13	2	0	1	0	1	0	0	2	1	2	1	3	6	2	1	3	6	1	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	158923758	C	C	158923758	2	2	338	1	0	0	0	0	0	0	0	1	16775	1219	43	4		4	TULP4	6	158923758	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08	8759620	158923758	12191309	37	17059											
FSCN1	6624	broad.mit.edu;hgsc.bcm.edu	37	chr7	5632742	5632742	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgacgaggcgggcagcgcgGccgtgtgcctgcgcagccac	5	4	17	15	6	0	1	0	1	0	0	0	2	0	1	3	3	4	2	3	3	0	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	5632742	G	C	5632742	3	2	338	1	0	0	0	0	1	0	0	0	6067	1203	42	4	177	4	FSCN1	7	5632742	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		5632742	153505921	38	17060											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82544733	82544733	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattagtgatttcttatgcTttgactgcttttgataaagt	10	19	7	5	0	1	3	0	3	1	0	1	3	1	3	0	0	2	2	0	0	5	7	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	82544733	T	C	82544733	3	2	338	1	0	0	0	0	1	0	0	0	11583	1609	56	3	2952	3	PCLO	7	82544733	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08	76911991	82544733	76593930	39	17061											
CALU	813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	128407619	128407619	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgggaagatggacaaGgaagagaccaaagactggat	16	5	15	5	1	0	4	0	1	0	3	0	9	0	8	1	4	0	0	1	4	4	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	128407619	G	T	128407619	3	4	338	1	0	0	0	0	1	0	0	0	2594	991	35	4	969	4	CALU	7	128407619	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	45862886	128407619	30731044	40	17062											
CPA4	51200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129938646	129938646	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagcaaattgagtcaactAgtgaattcaaacaacttgaa	18	10	6	7	0	3	3	3	3	0	0	3	3	3	3	0	0	4	1	0	0	7	4	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	129938646	A	T	129938646	2	4	338	1	0	0	0	0	0	0	0	1	3792	407	15	5		5	CPA4	7	129938646	Silent	SNP	A	TCGA-BP-5185-01A-01D-1429-08	1531027	129938646	29200017	41	17063											
ZC3HAV1	56829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138794026	138794026	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagggccatgcggccccCgtgggcgcacaggattttgg	5	7	16	13	3	0	0	0	0	0	0	1	1	1	1	4	5	1	1	4	5	0	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	138794026	C	T	138794026	3	4	338	1	0	0	0	0	1	0	0	0	17574	652	23	1	2712	1	ZC3HAV1	7	138794026	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	8855380	138794026	20344637	42	17064											
INSL6	11172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5185530	5185530	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcctggcactgctgatgtCgctcagttcacgagaaaacc	9	10	9	13	2	2	2	2	1	0	1	4	3	3	2	2	1	2	4	2	1	2	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	5185530	C	T	5185530	3	4	338	1	0	0	0	0	1	0	0	0	7770	884	31	1	576	1	INSL6	9	5185530	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08		5185530	136027901	43	17065											
DDX58	23586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32488009	32488009	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaacatgatcatattgtaCgggtgttgtttactagtgtt	10	18	9	4	1	1	1	1	1	0	0	1	1	1	1	0	1	3	4	0	1	6	9	rs151092988		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	32488009	C	T	32488009	2	4	338	1	0	0	0	0	0	0	0	1	4375	523	19	1		1	DDX58	9	32488009	Silent	SNP	C	TCGA-BP-5185-01A-01D-1429-08	27302479	32488009	108725422	44	17066											
ZBTB43	23099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	129595818	129595818	+	Frame_Shift_Del	DEL	G	G	-																															acagacaggaggctgccctcGcagcaggttacagtgagaat																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	129595818	G	-	129595818	7	5	338	1	0	1	0	1	0	0	0	0	17543	1087	38	0	1032	0	ZBTB43	9	129595818	Frame_Shift_Del	DEL	G	TCGA-BP-5185-01A-01D-1429-08	97107809	129595818	11617613	45	17067											
QSOX2	169714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139118696	139118696	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccatgcagtccagagctGcgacgcgaatggcactggcc	8	7	12	14	3	0	1	0	0	0	1	2	3	2	1	3	2	3	3	3	2	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	139118696	G	A	139118696	3	1	338	1	0	0	0	0	1	0	0	0	12886	1319	46	2	1787	2	QSOX2	9	139118696	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	9522878	139118696	2094735	46	17068											
ARMC4	55130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	28270411	28270411	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccaatttagacatatttTctgaaaattttggtgatttt	12	20	5	4	0	1	3	0	2	1	1	1	3	1	3	1	1	1	0	1	1	6	10	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	28270411	T	G	28270411	3	3	338	1	0	0	0	0	1	0	0	0	953	1783	62	5	2270	5	ARMC4	10	28270411	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08		28270411	107264336	47	17069											
GBF1	8729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104111114	104111114	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagtgatgaagttgtcCtgatgaaaatccttcaggta	11	12	10	8	0	1	4	1	4	0	0	3	4	3	4	3	1	1	2	3	1	4	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	104111114	C	G	104111114	3	3	338	1	0	0	0	0	1	0	0	0	6271	680	24	4	411	4	GBF1	10	104111114	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	75840703	104111114	31423633	48	17070											
OR51Q1	390061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5443672	5443672	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcaccctcaccaccctacCcacagtcatgcagcttctct	8	10	3	20	0	4	0	3	0	2	0	6	0	4	0	4	0	3	2	4	0	1	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	5443672	C	G	5443672	3	3	338	1	0	0	0	0	1	0	0	0	11104	623	22	4	244	4	OR51Q1	11	5443672	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08		5443672	129562844	49	17071											
DNHD1	144132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6519865	6519865	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctccagacagctctttGttagacagtgcttcccatgc	7	14	7	13	0	1	2	0	0	1	2	4	2	4	2	3	0	3	3	3	0	1	4	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	6519865	G	C	6519865	3	2	338	1	0	0	0	0	1	0	0	0	4668	1368	48	4	422	4	DNHD1	11	6519865	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	1076193	6519865	128486651	50	17072											
USH1C	10083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17531374	17531374	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggcgggggaggcgggggCcctgtggtcatctgggggtg	4	6	24	7	2	2	0	1	0	1	0	2	2	2	1	1	9	0	0	1	9	1	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	17531374	C	T	17531374	2	4	338	1	0	0	0	0	0	0	0	1	17033	726	26	2		2	USH1C	11	17531374	Silent	SNP	C	TCGA-BP-5185-01A-01D-1429-08	11011509	17531374	117475142	51	17073											
NUP160	23279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47833875	47833875	+	Frame_Shift_Del	DEL	T	T	-																															tggattgaatcccttttccaTttccacttctgtttcataat																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	47833875	T	-	47833875	7	5	338	1	0	1	0	1	0	0	0	0	10757	1493	52	0	2335	0	NUP160	11	47833875	Frame_Shift_Del	DEL	T	TCGA-BP-5185-01A-01D-1429-08	30302501	47833875	87172641	52	17074											
MYO7A	4647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	76893001	76893001	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgtctccttcaggaccTggagcgagggcggagggaga	7	8	16	10	2	3	1	1	0	2	1	4	6	3	4	2	5	1	0	2	5	0	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	76893001	T	G	76893001	3	3	338	1	0	0	0	0	1	0	0	0	10082	1580	55	5	2999	5	MYO7A	11	76893001	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08	29059126	76893001	58113515	53	17075											
ARHGAP20	57569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	110451607	110451607	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagcatttgctgcagctGtggacaggtagctgggtgtg	6	12	16	7	0	0	0	0	0	0	0	0	1	0	1	0	3	6	7	0	3	1	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	110451607	G	T	110451607	3	4	338	1	0	0	0	0	1	0	0	0	870	1377	48	4	1516	4	ARHGAP20	11	110451607	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	33558606	110451607	24554909	54	17076											
FOXR1	283150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118849549	118849549	+	Missense_Mutation	SNP	C	C	T																															attacccctagagaaaaaacCcaaccctgataaggatggta																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	118849549	C	T	118849549	3	4	338	1	0	0	0	0	1	0	0	0	6031	623	22	2	125	2	FOXR1	11	118849549	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	8397942	118849549	16156967	55	17077	232	2									
FOXR1	283150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118849551	118849551	+	Missense_Mutation	SNP	A	A	T																															tacccctagagaaaaaacccAaccctgataaggatggtacg																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	118849551	A	T	118849551	3	4	338	1	0	0	0	0	1	0	0	0	6031	130	5	5	127	5	FOXR1	11	118849551	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	2	118849551	16156965	56	17078	232	2									
TNFRSF1A	7132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6440021	6440021	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggtcacttctcctcacctGagtcctcagtgcccttaaca	8	11	6	16	0	4	1	3	1	1	0	6	1	5	1	4	1	2	0	4	1	1	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	6440021	G	A	6440021	3	1	338	1	0	0	0	0	1	0	0	0	16292	1294	45	2	764	2	TNFRSF1A	12	6440021	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		6440021	127411874	57	17079											
KLRC2	3822	broad.mit.edu;hgsc.bcm.edu	37	chr12	10584769	10584769	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctgttacgaaacacacCaatccatgaggaaggtaaaa	17	7	8	9	1	0	1	0	1	0	0	1	3	1	2	2	2	3	3	2	2	6	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	10584769	C	G	10584769	3	3	338	1	0	0	0	0	1	0	0	0	8416	594	21	4	183	4	KLRC2	12	10584769	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	4144748	10584769	123267126	58	17080											
AVIL	10677	broad.mit.edu;hgsc.bcm.edu	37	chr12	58207208	58207208	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggccactctccgggtcTgggaggtagtcagagagatc	8	8	15	10	1	3	2	1	0	2	2	5	5	3	3	2	4	0	1	2	4	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	58207208	T	C	58207208	5	2	338	1	0	0	0	0	0	0	1	0	1227	1594	55	3	2387	3	AVIL	12	58207208	Splice_Site	SNP	T	TCGA-BP-5185-01A-01D-1429-08	47622439	58207208	75644687	59	17081											
FAM71C	196472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100042363	100042363	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaacagcgtaaaaaaacaGctccacctgaagcttgccac	16	5	6	14	1	0	1	0	1	0	0	1	1	1	1	3	0	6	3	3	0	6	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	100042363	G	T	100042363	3	4	338	1	0	0	0	0	1	0	0	0	5609	962	34	4	413	4	FAM71C	12	100042363	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	41835155	100042363	33809532	60	17082											
DDX54	79039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113618759	113618759	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gactggaagcctccagacttCttcttcttcttgttctgggc	5	15	9	12	0	5	1	0	0	5	1	6	3	6	2	2	2	1	1	2	2	1	6	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	113618759	C	T	113618759	2	4	338	1	0	0	0	0	0	0	0	1	4372	912	32	2		2	DDX54	12	113618759	Silent	SNP	C	TCGA-BP-5185-01A-01D-1429-08	13576396	113618759	20233136	61	17083											
CDK8	1024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	26923220	26923220	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttgcagttacttcgagaGcttaagcatccaaacgtcat	11	13	8	9	2	1	1	1	0	0	1	3	2	2	1	1	0	5	5	1	0	3	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	26923220	G	A	26923220	2	1	338	1	0	0	0	0	0	0	0	1	3150	962	34	2		2	CDK8	13	26923220	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08		26923220	88246658	62	17084											
KBTBD6	89890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41704758	41704758	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtatttcttcttcttcagtGaggaaactctgaccaggttc	8	15	9	9	0	5	2	1	2	4	0	6	3	5	3	1	3	1	2	1	3	2	6	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	41704758	G	A	41704758	2	1	338	1	0	0	0	0	0	0	0	1	7997	1277	45	2		2	KBTBD6	13	41704758	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08	14781538	41704758	73465120	63	17085											
CKAP2	26586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	53035798	53035798	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacttctgccaatgttacAatccggaaagggcctcatga	13	9	9	10	1	2	2	1	1	1	1	3	3	3	3	3	2	3	1	3	2	5	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	53035798	A	T	53035798	2	4	338	1	0	0	0	0	0	0	0	1	3442	117	5	5		5	CKAP2	13	53035798	Silent	SNP	A	TCGA-BP-5185-01A-01D-1429-08	11331040	53035798	62134080	64	17086											
DAAM1	23002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59834206	59834206	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatacaaccagatgagttCtttggcatttttgatcaatt	14	15	6	6	0	2	3	1	2	1	1	2	3	2	3	1	1	2	2	1	1	5	6	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	59834206	C	A	59834206	3	1	338	1	0	0	0	0	1	0	0	0	4215	912	32	4	3010	4	DAAM1	14	59834206	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08		59834206	47515334	65	17087											
APBA2	321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	29400578	29400578	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaccagctgggcttcagcGtgcagaatggaattgtgagt	10	10	14	7	1	1	2	1	1	0	1	1	3	1	3	1	2	4	4	1	2	3	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	29400578	G	A	29400578	3	1	338	1	0	0	0	0	1	0	0	0	757	1145	40	1	2061	1	APBA2	15	29400578	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		29400578	73130814	66	17088											
RTF1	23168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41762545	41762545	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgacaaatccagtgaaaAgtcagaccgctcatcacgaa	16	6	9	10	2	3	3	3	2	0	1	4	5	4	4	2	1	0	1	2	1	4	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	41762545	A	G	41762545	3	3	338	1	0	0	0	0	1	0	0	0	13723	72	3	3	1006	3	RTF1	15	41762545	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	12361967	41762545	60768847	67	17089											
DENND4A	10260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65959941	65959942	+	Frame_Shift_Del	DEL	TC	TC	-																															ttgcatgatcaccttcatttTccaataagctttcaagttct																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	65959942	TC	-	65959941	7	5	338	1	0	1	0	1	0	0	0	0	4433	1783	62	0	656	0	DENND4A	15	65959941	Frame_Shift_Del	DEL	TC	TCGA-BP-5185-01A-01D-1429-08	24197396	65959941	36571451	68	17090											
PGPEP1L	145814	broad.mit.edu;hgsc.bcm.edu	37	chr15	99511854	99511854	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcccgcgcgatagtggAgggacatggatgagtgccgc	8	5	19	9	4	0	1	0	1	0	0	0	6	0	5	2	4	2	0	2	4	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	99511854	A	T	99511854	2	4	338	1	0	0	0	0	0	0	0	1	11804	291	11	5		5	PGPEP1L	15	99511854	Silent	SNP	A	TCGA-BP-5185-01A-01D-1429-08	33551913	99511854	3019538	69	17091											
CNOT1	23019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58594198	58594198	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtggtggttgtctggccTtattcataacattactgcaa	9	14	10	8	0	2	0	1	0	1	0	2	0	2	0	1	4	3	2	1	4	4	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	58594198	T	G	58594198	3	3	338	1	0	0	0	0	1	0	0	0	3617	1609	56	5	5436	5	CNOT1	16	58594198	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08		58594198	31760555	70	17092											
SNAI3	333929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88744902	88744902	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcatgccgcgccaggaggGacatgcgggagaaggtcttg	8	6	16	11	3	2	1	1	0	1	1	2	4	2	3	3	4	2	0	3	4	1	1	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	88744902	G	A	88744902	3	1	338	1	0	0	0	0	1	0	0	0	14830	1174	41	2	49	2	SNAI3	16	88744902	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08	30150704	88744902	1609851	71	17093											
SPAG5	10615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26920003	26920003	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtttctagccactttgAggaatgactgaaatgttctg	12	13	9	7	0	2	3	0	3	2	0	2	4	2	4	1	1	1	2	1	1	4	4	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	26920003	A	G	26920003	3	3	338	1	0	0	0	0	1	0	0	0	14983	304	11	3	3410	3	SPAG5	17	26920003	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08		26920003	54275207	72	17094											
KRTAP4-12	83755	broad.mit.edu;hgsc.bcm.edu	37	chr17	39279933	39279933	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggggcagcagctgctggAgatgcagcagctggggcggc	8	4	20	9	1	0	2	0	0	0	2	0	3	0	2	0	6	6	7	0	6	0	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	39279933	A	T	39279933	3	4	338	1	0	0	0	0	1	0	0	0	8550	304	11	5	167	5	KRTAP4-12	17	39279933	Missense_Mutation	SNP	A	TCGA-BP-5185-01A-01D-1429-08	12359930	39279933	41915277	73	17095											
MED13	9969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60038959	60038959	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atatacttacatcaggacttCtaagggcagtttccatggct	11	13	8	9	0	2	0	1	0	1	0	3	1	3	1	1	3	2	3	1	3	4	6	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	60038959	C	G	60038959	3	3	338	1	0	0	0	0	1	0	0	0	9430	913	32	4	1314	4	MED13	17	60038959	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	20759026	60038959	21156251	74	17096											
SOX9	6662	broad.mit.edu;ucsc.edu	37	chr17	70119068	70119068	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggccgactcgccacacTcctcctccggcatgagcgag	7	6	11	17	4	0	1	0	1	0	0	4	3	3	1	5	2	2	2	5	2	0	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	70119068	C	C	70119068	3	2	338	1	0	0	0	0	1	0	0	0	14960	1551	54	3	646	3	SOX9	17	70119068	Missense_Mutation	SNP	T	TCGA-BP-5185-01A-01D-1429-08	10080109	70119068	11076142	75	17097											
UNK	85451	broad.mit.edu;hgsc.bcm.edu	37	chr17	73814848	73814848	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtccccggcatgaatgcAaacgctctgcccttctaccc	8	8	8	17	3	2	1	0	1	2	0	3	1	3	1	4	1	5	3	4	1	3	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	73814848	A	C	73814848	2	2	338	1	0	0	0	0	0	0	0	1	16999	117	5	5		5	UNK	17	73814848	Silent	SNP	A	TCGA-BP-5185-01A-01D-1429-08	3695780	73814848	7380362	76	17098											
EXOC7	23265	broad.mit.edu;hgsc.bcm.edu	37	chr17	74077512	74077512	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgggaggaggccgacagAgggctgctggaggcgggtgg	7	4	23	7	3	0	1	0	0	0	1	1	5	0	4	1	8	1	2	1	8	0	0	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	74077512	A	G	74077512	1	3	338	0	1	0	0	0	0	0	0	0	5310	319	11	3		3	EXOC7	17	74077512	RNA	SNP	A	TCGA-BP-5185-01A-01D-1429-08	262664	74077512	7117698	77	17099											
ANKRD12	23253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	9256041	9256042	+	Frame_Shift_Del	DEL	AA	AA	-																															agaggcatctagcagaaagcAaagaaaagcacttgatggag																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	9256042	AA	-	9256041	7	5	338	1	0	1	0	1	0	0	0	0	640	131	5	0	2806	0	ANKRD12	18	9256041	Frame_Shift_Del	DEL	AA	TCGA-BP-5185-01A-01D-1429-08		9256041	68821207	78	17100											
KIAA1468	57614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	59949659	59949659	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagttggccctaacgcagaaCccaggttccgagatgagtgt	10	8	13	10	2	0	3	0	1	0	2	1	5	1	3	3	2	2	3	3	2	2	3	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		G	59949659	C	G	59949659	3	3	338	1	0	0	0	0	1	0	0	0	8236	507	18	4	3333	4	KIAA1468	18	59949659	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	50693618	59949659	18127589	79	17101											
FBN3	84467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8175825	8175825	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagctcccaaatgcacagaGgttcccttgcgcacactcgt	10	8	8	15	2	0	1	0	0	0	1	3	1	2	1	2	1	3	4	2	1	1	2	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	8175825	G	A	8175825	3	1	338	1	0	0	0	0	1	0	0	0	5704	1000	35	2	4316	2	FBN3	19	8175825	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		8175825	50953158	80	17102											
NLRP12	91662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54313706	54313706	+	Missense_Mutation	SNP	C	C	A																															cacccagcacaccagggggaCgaagcacatggtgaagagag																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	54313706	C	A	54313706	3	1	338	1	0	0	0	0	1	0	0	0	10474	536	19	4	2106	4	NLRP12	19	54313706	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	46137881	54313706	4815277	81	17103	233	2									
NLRP12	91662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54313711	54313711	+	Missense_Mutation	SNP	C	C	T																															agcacaccagggggacgaagCacatggtgaagagaggctcg																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		T	54313711	C	T	54313711	3	4	338	1	0	0	0	0	1	0	0	0	10474	710	25	2	2111	2	NLRP12	19	54313711	Missense_Mutation	SNP	C	TCGA-BP-5185-01A-01D-1429-08	5	54313711	4815272	82	17104	233	2									
CLDN14	23562	hgsc.bcm.edu;ucsc.edu	37	chr21	37833694	37833694	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcgcgtgcacttcatcccGatgacggcgcaggcgcaggc	7	5	14	15	6	1	1	1	1	0	0	2	2	2	1	1	3	2	3	1	3	0	1	rs113350364	bycluster;byfrequency;by1000genomes	TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	37833694	G	A	37833694	2	1	338	1	0	0	0	0	0	0	0	1	3475	1048	37	1		1	CLDN14	21	37833694	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08		37833694	10296201	83	17105											
CABIN1	23523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24463082	24463082	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttgaccgggccaaacacctgGagtttatgacttccattcct	9	12	8	12	1	0	2	0	2	0	0	2	3	2	3	5	2	1	1	5	2	2	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		C	24463082	G	C	24463082	3	2	338	1	0	0	0	0	1	0	0	0	2528	1175	41	4	2240	4	CABIN1	22	24463082	Missense_Mutation	SNP	G	TCGA-BP-5185-01A-01D-1429-08		24463082	26841484	84	17106											
GAL3ST1	9514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30952062	30952062	+	Frame_Shift_Del	DEL	C	C	-																															agtgcaggtggagagcaggaCgctgcggcctccggggtcct																								novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		-	30952062	C	-	30952062	7	5	338	1	0	1	0	1	0	0	0	0	6197	523	19	0	1125	0	GAL3ST1	22	30952062	Frame_Shift_Del	DEL	C	TCGA-BP-5185-01A-01D-1429-08	6488980	30952062	20352504	85	17107											
EIF4ENIF1	56478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	31850208	31850208	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaacgcagtcatgtctccGtctttcttcagttgtcgatt	6	17	8	10	3	5	1	2	1	3	0	7	2	5	1	1	0	1	2	1	0	1	5	novel		TCGA-BP-5185-01A-01D-1429-08	TCGA-BP-5185-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	42dc6d82-f52a-4b13-b3bc-c63002b47e98	b196abf3-5cdd-43a6-9891-67410109b05a		A	31850208	G	A	31850208	2	1	338	1	0	0	0	0	0	0	0	1	5035	1136	40	1		1	EIF4ENIF1	22	31850208	Silent	SNP	G	TCGA-BP-5185-01A-01D-1429-08	898146	31850208	19454358	86	17108											
INPP5B	3633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38343913	38343913	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactggtcttcagggccaTgtggctctggtaactcagct	6	12	12	11	0	5	0	3	0	2	0	5	0	5	0	1	4	2	3	1	4	1	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		C	38343913	T	C	38343913	3	2	339	1	0	0	0	0	1	0	0	0	7755	1464	51	3	1153	3	INPP5B	1	38343913	Missense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08		38343913	210906708	1	17109											
PRG4	23572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186278973	186278973	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagatggactgactacttTgcgcaatgggacattagttg	11	12	12	6	1	0	2	0	1	0	1	0	4	0	4	0	2	2	3	0	2	4	5	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	186278973	T	A	186278973	4	1	339	1	0	0	0	0	0	1	0	0	12483	1821	63	5	3496	5	PRG4	1	186278973	Nonsense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08	147935060	186278973	62971648	2	17110											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201017771	201017771	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtggcattgaaggtgacTgtgccgtcgctgttcagggg	6	11	17	7	2	1	2	1	2	0	0	2	2	1	2	1	4	1	3	1	4	1	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	201017771	T	A	201017771	2	1	339	1	0	0	0	0	0	0	0	1	2547	1567	55	5		5	CACNA1S	1	201017771	Silent	SNP	T	TCGA-BP-5186-01A-01D-1429-08	14738798	201017771	48232850	3	17111											
PLEKHH2	130271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	43934682	43934682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccccagagccatgaaacGaggtgagggaaaatcgcagg	14	3	14	10	2	0	3	0	2	0	1	1	5	0	4	3	3	3	1	3	3	3	0	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	43934682	G	A	43934682	3	1	339	1	0	0	0	0	1	0	0	0	12077	1058	37	1	2002	1	PLEKHH2	2	43934682	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08		43934682	199264691	4	17112											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188320	10188324	+	Frame_Shift_Del	DEL	GGTAC	GGTAC	-																															ttgccaatatcacactgccaGgtactgacgttttacttttt																								novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	GGTAC	GGTAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		-	10188324	GGTAC	-	10188320	7	5	339	1	0	1	0	1	0	0	0	0	17161	1014	35	0	469	0	VHL	3	10188320	Frame_Shift_Del	DEL	GGTAC	TCGA-BP-5186-01A-01D-1429-08		10188320	187834110	5	17113											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52610643	52610643	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttgtgggctcatgctctGtttcttctgggtgaatgaag	5	18	12	6	0	4	2	1	2	3	0	4	2	4	2	0	2	1	3	0	2	2	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	52610643	G	T	52610643	3	4	339	1	0	0	0	0	1	0	0	0	11491	1377	48	4	1331	4	PBRM1	3	52610643	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08	42422323	52610643	145411787	6	17114											
ADAMTS9	56999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	64619448	64619448	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgcttcccgtcaaagtgaGcacactgttcatctcggaag	11	10	9	11	2	3	1	2	1	1	0	5	2	4	2	1	1	2	3	1	1	3	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	64619448	G	T	64619448	3	4	339	1	0	0	0	0	1	0	0	0	273	971	34	4	3951	4	ADAMTS9	3	64619448	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08	12008805	64619448	133402982	7	17115											
SPARCL1	8404	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	88394938	88394938	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatcttcgttcaaaacaagaGattttcatctatgtcctcta	13	15	4	9	1	5	1	2	0	3	1	7	2	6	1	1	0	1	1	1	0	6	6	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		C	88394938	G	C	88394938	3	2	339	1	0	0	0	0	1	0	0	0	14997	942	33	4	14	4	SPARCL1	4	88394938	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08		88394938	102759338	8	17116											
GRID2	2895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	94693413	94693413	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaacactcatattaccacaAcaacctttatcccagagcag	15	8	5	13	0	1	1	1	0	0	1	2	2	2	2	3	1	5	1	3	1	6	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	94693413	A	T	94693413	3	4	339	1	0	0	0	0	1	0	0	0	6772	43	2	5	2850	5	GRID2	4	94693413	Missense_Mutation	SNP	A	TCGA-BP-5186-01A-01D-1429-08	6298475	94693413	96460863	9	17117											
ANKRA2	57763	broad.mit.edu;hgsc.bcm.edu	37	chr5	72849308	72849308	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattgttggatcagccccaCtttctataccaaaatagaaa	15	11	5	10	0	2	1	1	0	1	1	2	2	2	2	3	1	2	1	3	1	7	6	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	72849308	C	A	72849308	3	1	339	1	0	0	0	0	1	0	0	0	636	565	20	4	140	4	ANKRA2	5	72849308	Missense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08		72849308	108065952	10	17118											
COL11A2	1302	hgsc.bcm.edu	37	chr6	33156155	33156155	+	Frame_Shift_Del	DEL	T	T	-																															ttacctcaaagacttcttcaTccagaatacgggcaccaaag																								novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		-	33156155	T	-	33156155	7	5	339	1	0	1	0	1	0	0	0	0	3668	1435	50	0	4947	0	COL11A2	6	33156155	Frame_Shift_Del	DEL	T	TCGA-BP-5186-01A-01D-1429-08		33156155	137958912	11	17119											
SSPO	23145	broad.mit.edu;hgsc.bcm.edu	37	chr7	149486417	149486417	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgccgatggacgctgcCtgccgccggccctgctctgc	2	8	13	18	4	1	0	0	0	1	0	1	2	1	1	6	2	5	2	6	2	0	0	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		G	149486417	C	G	149486417	3	3	339	1	0	0	0	0	1	0	0	0	15190	680	24	4	4507	4	SSPO	7	149486417	Missense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08		149486417	9652246	12	17120											
PIWIL2	55124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22167480	22167480	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattttctgtttagattgaaGgacgtgttctgccaatggaa	10	16	10	5	1	2	2	0	1	2	1	2	4	2	4	1	2	1	2	1	2	5	7	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	22167480	G	A	22167480	3	1	339	1	0	0	0	0	1	0	0	0	11958	1001	35	2	1747	2	PIWIL2	8	22167480	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08		22167480	124196542	13	17121											
IKBKAP	8518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	111659236	111659236	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgagcggatctctaccttGaagctcgtgtactttttgca	7	15	10	9	2	1	2	0	2	1	0	3	3	1	3	1	1	5	3	1	1	3	5	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	111659236	G	A	111659236	4	1	339	1	0	0	0	0	0	1	0	0	7610	1299	45	2	1470	2	IKBKAP	9	111659236	Nonsense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08		111659236	29554195	14	17122											
ZFP37	7539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	115818875	115818875	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggacacagccatctccaGtggtcgcccggcctctttgg	5	9	11	16	3	2	0	0	0	2	0	5	1	2	1	4	4	1	0	4	4	0	1	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	115818875	G	T	115818875	3	4	339	1	0	0	0	0	1	0	0	0	17647	1020	36	4	1814	4	ZFP37	9	115818875	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08	4159639	115818875	25394556	15	17123											
NMT2	9397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	15151770	15151770	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattgccatctcctataccAaacttgagtttttccaagaa	14	13	4	10	0	1	2	0	1	1	1	3	2	2	2	4	0	3	1	4	0	6	6	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	15151770	A	T	15151770	3	4	339	1	0	0	0	0	1	0	0	0	10504	127	5	5	97	5	NMT2	10	15151770	Missense_Mutation	SNP	A	TCGA-BP-5186-01A-01D-1429-08		15151770	120382977	16	17124											
MICALCL	84953	broad.mit.edu;ucsc.edu	37	chr11	12316166	12316166	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaagaaaagaatctcactTttttcctccctcagactcaa	14	11	3	13	0	3	3	3	0	1	3	6	3	5	3	3	0	0	0	3	0	5	3	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		G	12316166	G	G	12316166	2	3	339	1	0	0	0	0	0	0	0	1	9572	1828	64	5		5	MICALCL	11	12316166	Silent	SNP	T	TCGA-BP-5186-01A-01D-1429-08		12316166	122690350	17	17125											
KDM4D	55693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94731985	94731985	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgggcacaacatgcacagcTtcgggcccagaacctgagcc	10	4	12	15	2	0	2	0	1	0	1	1	2	0	2	3	2	5	3	3	2	2	1	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	94731985	T	A	94731985	2	1	339	1	0	0	0	0	0	0	0	1	8131	1596	56	5		5	KDM4D	11	94731985	Silent	SNP	T	TCGA-BP-5186-01A-01D-1429-08	82415819	94731985	40274531	18	17126											
ST14	6768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130066577	130066577	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttagctgaatacctcTcctacgactccagtgaccgt	8	12	7	14	2	2	2	0	2	2	0	4	3	3	2	4	0	3	2	4	0	4	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	130066577	T	A	130066577	3	1	339	1	0	0	0	0	1	0	0	0	15212	1551	54	5	1378	5	ST14	11	130066577	Missense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08	35334592	130066577	4939939	19	17127											
EMG1	10436	hgsc.bcm.edu	37	chr12	7080210	7080211	+	Frame_Shift_Ins	INS	-	-	G																															aaacaagatcggaggccgtaINSgtttattgtggtgctggaag																								rs113953006	bycluster;by1000genomes	TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		G	7080211	-	G	7080210	7	5	339	1	0	1	1	0	0	0	0	0	5090	420	15	0	126	0	EMG1	12	7080210	Frame_Shift_Ins	INS	-	TCGA-BP-5186-01A-01D-1429-08		7080210	126771685	20	17128											
FZD10	11211	broad.mit.edu;hgsc.bcm.edu	37	chr12	130648146	130648146	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgtggacgtgtactggaGccgcgaggacaagcgcttcg	7	6	17	11	7	0	0	0	0	0	0	1	4	0	3	1	4	3	2	1	4	2	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	130648146	G	A	130648146	3	1	339	1	0	0	0	0	1	0	0	0	6129	971	34	2	661	2	FZD10	12	130648146	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08	123567936	130648146	3203749	21	17129											
CSNK1A1L	122011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	37678647	37678647	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattctgcaggaaaccccttAcataaaacttcaacaggggt	15	9	7	10	0	2	0	1	0	1	0	2	1	2	1	2	3	5	1	2	3	6	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		G	37678647	A	G	37678647	2	3	339	1	0	0	0	0	0	0	0	1	3951	389	14	3		3	CSNK1A1L	13	37678647	Silent	SNP	A	TCGA-BP-5186-01A-01D-1429-08		37678647	77491231	22	17130											
DACT1	51339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59113389	59113389	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggcggtggaagtcctcggCcgagatttcctacgaagagg	8	7	15	11	5	0	2	0	0	0	2	3	5	2	3	4	5	1	0	4	5	3	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	59113389	C	A	59113389	3	1	339	1	0	0	0	0	1	0	0	0	4222	739	26	4	2062	4	DACT1	14	59113389	Missense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08		59113389	48236151	23	17131											
SIX1	6495	hgsc.bcm.edu	37	chr14	61113204	61113204	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggggaggtgagaattcctCttctgagctggacatgagcg	8	11	15	7	1	2	3	0	3	2	1	3	6	3	5	1	4	2	1	1	4	1	3	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	61113204	C	T	61113204	3	4	339	1	0	0	0	0	1	0	0	0	14348	922	32	2	206	2	SIX1	14	61113204	Missense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08	1999815	61113204	46236336	24	17132											
ACACA	31	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35545400	35545400	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccataccgcattaccatGctccgcacggattcctcaat	9	11	5	16	3	1	0	1	0	0	0	4	1	4	1	5	1	3	3	5	1	3	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	35545400	G	T	35545400	3	4	339	1	0	0	0	0	1	0	0	0	106	1310	46	4	2630	4	ACACA	17	35545400	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08		35545400	45649810	25	17133											
KRTAP4-9	100132386	broad.mit.edu	37	chr17	39261865	39261865	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtcagaccacctgttgCaggaccacctgctaccgccc	7	8	9	17	1	1	1	1	0	0	1	1	2	1	2	6	1	4	4	6	1	1	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	39261865	A	A	39261865	4	1	339	1	0	0	0	0	0	1	0	0	8557	718	25	4	227	4	KRTAP4-9	17	39261865	Nonsense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08	3716465	39261865	41933345	26	17134											
ATG4D	84971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10663721	10663721	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccaaacgccccagctCtgaggactttgtgtttttat	8	12	10	11	1	1	1	0	1	1	0	1	2	1	2	3	2	2	2	3	2	2	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	10663721	C	A	10663721	3	1	339	1	0	0	0	0	1	0	0	0	1099	913	32	4	1441	4	ATG4D	19	10663721	Missense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08		10663721	48465262	27	17135											
FCGBP	8857	broad.mit.edu;hgsc.bcm.edu	37	chr19	40420153	40420153	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tggaagggcagatactgaagGacgtcatccacctgggtgga	11	7	15	8	1	1	2	1	1	0	1	2	5	2	5	2	5	1	1	2	5	3	1	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		C	40420153	G	C	40420153	2	2	339	1	0	0	0	0	0	0	0	1	5778	1161	41	4		4	FCGBP	19	40420153	Silent	SNP	G	TCGA-BP-5186-01A-01D-1429-08	29756432	40420153	18708830	28	17136											
CLPTM1	1209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45465320	45465320	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcctggcaggtcatcaaagGtgtgctgtttaggtgagcag	8	11	15	7	0	2	1	2	1	0	0	2	1	2	1	1	4	3	4	1	4	2	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	45465320	G	A	45465320	3	1	339	1	0	0	0	0	1	0	0	0	3554	1261	44	2	179	2	CLPTM1	19	45465320	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08	5045167	45465320	13663663	29	17137											
SLC1A5	6510	broad.mit.edu;hgsc.bcm.edu	37	chr19	47285647	47285647	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaccacctaccacatgaTccaggagaccagaaccatgg	13	5	7	16	0	0	3	0	1	0	2	2	4	2	3	7	2	2	0	7	2	2	1	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		C	47285647	T	C	47285647	3	2	339	1	0	0	0	0	1	0	0	0	14437	1435	50	3	828	3	SLC1A5	19	47285647	Missense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08	1820327	47285647	11843336	30	17138											
RIN2	54453	hgsc.bcm.edu;ucsc.edu	37	chr20	19955468	19955468	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgcagccagaccaacGgggccctgtgctttattaat	9	10	12	10	1	0	1	0	0	0	1	0	2	0	2	3	3	4	2	3	3	3	3	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		T	19955468	G	T	19955468	3	4	339	1	0	0	0	0	1	0	0	0	13374	1116	39	4	825	4	RIN2	20	19955468	Missense_Mutation	SNP	G	TCGA-BP-5186-01A-01D-1429-08		19955468	43070052	31	17139											
ZMYND8	23613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	45853096	45853096	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggcgcaccactgcttctTcttggtctcatccaccgcct	4	13	8	16	2	3	0	1	0	3	0	5	0	4	0	4	2	1	3	4	2	0	4	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		C	45853096	T	C	45853096	3	2	339	1	0	0	0	0	1	0	0	0	17710	1792	62	3	594	3	ZMYND8	20	45853096	Missense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08	25897628	45853096	17172424	32	17140											
NUP50	10762	broad.mit.edu;hgsc.bcm.edu	37	chr22	45574718	45574718	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacccagagtaaaccagtcTcttcaccatttcccactaaa	13	10	3	15	0	2	1	1	0	1	1	4	1	3	1	4	0	2	1	4	0	5	5	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		G	45574718	T	G	45574718	3	3	339	1	0	0	0	0	1	0	0	0	10766	1551	54	5	954	5	NUP50	22	45574718	Missense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08		45574718	5729848	33	17141											
USP51	158880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	55513238	55513238	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaagtggtctggtaagacTagtctttctctagaccctgt	9	14	10	8	0	3	2	0	0	3	2	4	2	3	2	1	2	0	2	1	2	4	5	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		A	55513238	T	A	55513238	3	1	339	1	0	0	0	0	1	0	0	0	17082	1535	53	5	4	5	USP51	23	55513238	Missense_Mutation	SNP	T	TCGA-BP-5186-01A-01D-1429-08		55513238	99757322	34	17142											
SLC10A3	8273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153716013	153716013	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccagcaggctgttctgcaCccctacctcaatgctgaccg	7	8	10	16	1	2	1	1	1	1	0	2	1	2	1	5	2	4	5	5	2	2	2	novel		TCGA-BP-5186-01A-01D-1429-08	TCGA-BP-5186-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02b98f85-07df-4fb2-b27e-efd368c84ec8	f874ff04-d379-4de4-9a87-c04c045a70ca		G	153716013	C	G	153716013	3	3	339	1	0	0	0	0	1	0	0	0	14377	507	18	4	170	4	SLC10A3	23	153716013	Missense_Mutation	SNP	C	TCGA-BP-5186-01A-01D-1429-08	98202775	153716013	1554547	35	17143											
ALPL	249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21903878	21903878	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttcccctggcccacagctCacaacaactaccaggcgcag	10	6	8	17	1	1	0	1	0	0	0	2	0	2	0	4	2	4	3	4	2	3	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	21903878	C	T	21903878	3	4	340	1	0	0	0	0	1	0	0	0	547	826	29	2	1354	2	ALPL	1	21903878	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08		21903878	227346743	1	17144											
BSND	7809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55474113	55474113	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccaagaggggcagcagTgggaaatagccctgcccaac	12	3	13	13	0	0	1	0	0	0	1	0	2	0	2	4	3	5	2	4	3	4	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	55474113	T	A	55474113	3	1	340	1	0	0	0	0	1	0	0	0	1531	1696	59	5	789	5	BSND	1	55474113	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	33570235	55474113	193776508	2	17145											
CLCC1	23155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109477333	109477333	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatcctgtccacgtggtcCagccacacctcttgcggggc	5	8	12	16	3	1	0	0	0	1	0	4	1	4	1	5	4	2	0	5	4	0	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	109477333	C	T	109477333	3	4	340	1	0	0	0	0	1	0	0	0	3460	603	21	2	44	2	CLCC1	1	109477333	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	54003220	109477333	139773288	3	17146											
DENND4B	9909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153916542	153916542	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcacacaccccagctcAacgagggggggcttgtcacg	9	4	15	13	2	2	0	2	0	0	0	2	1	2	0	2	5	2	3	2	5	1	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	153916542	A	T	153916542	2	4	340	1	0	0	0	0	0	0	0	1	4434	117	5	5		5	DENND4B	1	153916542	Silent	SNP	A	TCGA-BP-5187-01A-01D-1429-08	44439209	153916542	95334079	4	17147											
IQGAP3	128239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156498730	156498730	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggagtcgggggccaggtggtCcaggcaggcccggatgtact	6	6	19	10	2	0	0	0	0	0	0	2	2	1	2	3	8	1	2	3	8	1	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	156498730	C	T	156498730	3	4	340	1	0	0	0	0	1	0	0	0	7816	855	30	2	362	2	IQGAP3	1	156498730	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	2582188	156498730	92751891	5	17148											
FMO2	2327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171173043	171173043	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcacctgggtcatgagcCgtatctctgaagatggctat	9	11	12	9	1	2	3	1	2	1	1	3	3	2	3	2	3	1	3	2	3	3	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	171173043	C	A	171173043	3	1	340	1	0	0	0	0	1	0	0	0	5955	652	23	4	685	4	FMO2	1	171173043	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	14674313	171173043	78077578	6	17149											
THADA	63892	broad.mit.edu	37	chr2	43571338	43571338	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagtctgaattcgttccGtgtttggagtctgagtaggc	7	14	14	6	2	2	2	0	2	2	0	4	4	3	4	1	3	0	3	1	3	3	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	43571338	C	C	43571338	3	2	340	1	0	0	0	0	1	0	0	0	15839	1136	40	4	1631	4	THADA	2	43571338	Missense_Mutation	SNP	G	TCGA-BP-5187-01A-01D-1429-08		43571338	199628035	7	17150											
TTC7A	57217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	47221561	47221561	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggagtgctactggagcccCctgtcccaccctctgcctga	6	8	11	16	0	1	1	0	1	1	0	2	4	2	3	5	2	4	1	5	2	1	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	47221561	C	A	47221561	2	1	340	1	0	0	0	0	0	0	0	1	16711	610	22	4		4	TTC7A	2	47221561	Silent	SNP	C	TCGA-BP-5187-01A-01D-1429-08	3650223	47221561	195977812	8	17151											
SUCLG1	8802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84652566	84652566	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtggttcccagctgtgcAggagacatactgaccacaac	11	8	10	12	1	0	2	0	1	0	1	2	3	1	2	2	2	4	3	2	2	2	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	84652566	A	G	84652566	2	3	340	1	0	0	0	0	0	0	0	1	15365	175	7	3		3	SUCLG1	2	84652566	Silent	SNP	A	TCGA-BP-5187-01A-01D-1429-08	37431005	84652566	158546807	9	17152											
SLC4A10	57282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	162815017	162815017	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttattcccatgccagtgctAtatggagtgtttctttatat	8	19	7	7	0	1	0	0	0	1	0	2	1	2	1	2	1	2	2	2	1	5	9	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	162815017	A	G	162815017	2	3	340	1	0	0	0	0	0	0	0	1	14653	436	16	3		3	SLC4A10	2	162815017	Silent	SNP	A	TCGA-BP-5187-01A-01D-1429-08	78162451	162815017	80384356	10	17153											
RFTN2	130132	broad.mit.edu	37	chr2	198508984	198508984	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtccactgggtgctgcCgaattctttgggctgtaaca	6	14	11	10	1	1	0	0	0	1	0	2	1	2	0	2	2	3	3	2	2	2	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	198508984	T	T	198508984	2	4	340	1	0	0	0	0	0	0	0	1	13261	639	23	1		1	RFTN2	2	198508984	Silent	SNP	C	TCGA-BP-5187-01A-01D-1429-08	35693967	198508984	44690389	11	17154											
SAG	6295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234237149	234237149	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcgattactgatccgcAaagtacagcatgccccactt	10	9	8	14	3	0	1	0	1	0	0	1	2	1	1	4	0	5	3	4	0	3	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	234237149	A	G	234237149	3	3	340	1	0	0	0	0	1	0	0	0	13810	131	5	3	564	3	SAG	2	234237149	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	35728165	234237149	8962224	12	17155											
ATG7	10533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	11348441	11348441	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcccaccccagcccgttgCtgcccagctattggaacact	7	8	8	18	1	0	0	0	0	0	0	1	1	1	1	5	1	5	4	5	1	2	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	11348441	C	A	11348441	4	1	340	1	0	0	0	0	0	1	0	0	1101	805	28	4	250	4	ATG7	3	11348441	Nonsense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08		11348441	186673989	13	17156											
FBLN2	2199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	13659663	13659663	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgggcgatgaccaggAtgagtgccttctcctcccgg	5	8	13	15	3	1	2	0	2	1	0	3	4	2	3	6	3	2	0	6	3	0	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	13659663	A	T	13659663	3	4	340	1	0	0	0	0	1	0	0	0	5699	333	12	5	525	5	FBLN2	3	13659663	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	2311222	13659663	184362767	14	17157											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643768	52643768	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttggccatcatgtgacttcGaattttttccatgtccatgg	7	16	9	9	1	1	1	1	1	0	0	4	2	3	1	3	2	0	1	3	2	1	5	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	52643768	G	A	52643768	4	1	340	1	0	0	0	0	0	1	0	0	11491	1066	37	1	2832	1	PBRM1	3	52643768	Nonsense_Mutation	SNP	G	TCGA-BP-5187-01A-01D-1429-08	38984105	52643768	145378662	15	17158											
MUC4	4585	broad.mit.edu	37	chr3	195505876	195505876	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtcggtgacaggaagaGgggtggtgtcacctgtggat	9	9	18	5	1	1	2	1	1	0	1	2	4	1	4	1	6	0	0	1	6	2	0	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	195505876	C	C	195505876	3	2	340	1	0	0	0	0	1	0	0	0	9978	1000	35	4		4	MUC4	3	195505876	Missense_Mutation	SNP	G	TCGA-BP-5187-01A-01D-1429-08	142862108	195505876	2516554	16	17159											
CCKAR	886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	26487295	26487295	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatttggcagtagaaagCggcacatattcgcggtctgg	10	10	12	9	3	2	1	1	0	1	1	3	1	2	1	0	4	1	3	0	4	3	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	26487295	C	T	26487295	3	4	340	1	0	0	0	0	1	0	0	0	2880	768	27	1	708	1	CCKAR	4	26487295	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08		26487295	164666981	17	17160											
C4orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184629723	184629723	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacctaccagtatttttgTcaaggtaaagcttagcaatt	13	15	6	7	0	1	0	1	0	0	0	1	0	1	0	2	1	4	4	2	1	9	9	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	184629723	T	C	184629723	3	2	340	1	0	0	0	0	1	0	0	0	2270	1676	58	3	3463	3	C4orf41	4	184629723	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	158142428	184629723	6524553	18	17161											
PPIC	5480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	122359616	122359616	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggcgttttcacgtctatcTtgccactgttgatgatcgag	8	14	10	9	3	3	2	1	2	2	0	4	3	3	2	1	1	1	2	1	1	2	5	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	122359616	T	A	122359616	3	1	340	1	0	0	0	0	1	0	0	0	12322	1609	56	5	49	5	PPIC	5	122359616	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08		122359616	58555644	19	17162											
SIL1	64374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138378410	138378410	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtgttgatatccagccTgtccaaagaaaactgagagt	12	11	11	7	0	0	3	0	2	0	2	2	4	2	3	3	1	2	2	3	1	4	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	138378410	T	A	138378410	5	1	340	1	0	0	0	0	0	0	1	0	14323	1594	55	5	1057	5	SIL1	5	138378410	Splice_Site	SNP	T	TCGA-BP-5187-01A-01D-1429-08	16018794	138378410	42536850	20	17163											
SLU7	10569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	159835383	159835383	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attccggacagtaattcgtcTcttggagtcaaaattctgtc	10	14	8	9	2	3	0	1	0	2	0	7	2	4	2	1	2	0	1	1	2	3	5	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	159835383	T	C	159835383	3	2	340	1	0	0	0	0	1	0	0	0	14757	1559	54	3	1024	3	SLU7	5	159835383	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	21456973	159835383	21079877	21	17164											
UNC5A	90249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176295140	176295140	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgcccccagggctgcccaCcatggaggtccgcattaatg	7	6	11	17	2	0	0	0	0	0	0	1	1	1	1	6	3	1	2	6	3	1	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	176295140	C	A	176295140	3	1	340	1	0	0	0	0	1	0	0	0	16990	507	18	4	312	4	UNC5A	5	176295140	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	16459757	176295140	4620120	22	17165											
HLA-E	3133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30457321	30457321	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggatcatggtagatggaAccctccttttactcctctcg	7	13	9	12	1	2	1	1	0	1	1	5	3	4	3	3	3	2	1	3	3	3	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	30457321	A	G	30457321	3	3	340	1	0	0	0	0	1	0	0	0	7210	43	2	3	15	3	HLA-E	6	30457321	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08		30457321	140657746	23	17166											
GRM4	2914	broad.mit.edu	37	chr6	34100855	34100855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttggtgatgatgggtgggCcgccactgccacagcggacc	6	7	16	12	2	0	2	0	2	0	0	0	3	0	3	4	4	2	1	4	4	0	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	34100855	T	T	34100855	3	4	340	1	0	0	0	0	1	0	0	0	6799	739	26	2	2359	2	GRM4	6	34100855	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	3643534	34100855	137014212	24	17167											
DSE	29940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	116752301	116752301	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcaacatcaaccacttTggccatccgtggcttaaaca	12	10	5	14	1	2	0	2	0	0	0	3	0	3	0	3	2	3	1	3	2	4	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	116752301	T	A	116752301	3	1	340	1	0	0	0	0	1	0	0	0	4774	1809	63	5	865	5	DSE	6	116752301	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	82651446	116752301	54362766	25	17168											
POR	5447	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	75611556	75611556	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcattcgccagtacgAgcttgtggtccacaccgaca	9	9	9	14	3	0	0	0	0	0	0	3	2	2	0	4	1	3	3	4	1	1	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	75611556	A	G	75611556	3	3	340	1	0	0	0	0	1	0	0	0	12257	304	11	3	772	3	POR	7	75611556	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08		75611556	83527107	26	17169											
MCM7	4176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99697218	99697218	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaaccactcacttccctCtccttgtactgaggcagcag	8	11	6	16	0	3	1	1	1	2	0	5	1	4	1	3	1	3	3	3	1	2	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	99697218	C	A	99697218	3	1	340	1	0	0	0	0	1	0	0	0	9392	912	32	4	1941	4	MCM7	7	99697218	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	24085662	99697218	59441445	27	17170											
ACO1	48	broad.mit.edu	37	chr9	32434667	32434667	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggaaatattgcaagaaaCagtcctgctgctcgctactt	11	11	9	10	1	0	1	0	0	0	1	2	2	1	2	1	1	5	5	1	1	5	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	32434667	T	T	32434667	2	4	340	1	0	0	0	0	0	0	0	1	146	477	17	2		2	ACO1	9	32434667	Silent	SNP	C	TCGA-BP-5187-01A-01D-1429-08		32434667	108778764	28	17171											
S1PR3	1903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	91616543	91616543	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttgacaatgatcaaaaTgaggccttacgacgccaaca	15	7	8	11	2	1	3	1	3	0	0	1	4	1	3	2	1	2	1	2	1	5	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	91616543	T	C	91616543	3	2	340	1	0	0	0	0	1	0	0	0	13797	1464	51	3	430	3	S1PR3	9	91616543	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	59181876	91616543	49596888	29	17172											
TEX10	54881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	103109629	103109629	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacaaaaggtctttaagTccaagaagagcactttgttt	14	12	9	6	0	1	3	0	1	1	3	2	4	2	3	1	1	1	2	1	1	5	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	103109629	T	G	103109629	2	3	340	1	0	0	0	0	0	0	0	1	15771	1654	58	5		5	TEX10	9	103109629	Silent	SNP	T	TCGA-BP-5187-01A-01D-1429-08	11493086	103109629	38103802	30	17173											
TOR2A	27433	hgsc.bcm.edu	37	chr9	130495610	130495610	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctaaggctgtagagcTgaacctctgagaagtggccc	11	7	13	10	0	1	3	0	2	1	2	1	4	1	3	2	3	2	4	2	3	4	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	130495610	T	C	130495610	3	2	340	1	0	0	0	0	1	0	0	0	16374	1580	55	3	499	3	TOR2A	9	130495610	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	27385981	130495610	10717821	31	17174											
GPR158	57512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	25887644	25887644	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaagttcaaaagcacgtatCtattgtggcttctgaaatgg	14	12	9	6	1	3	1	1	1	2	0	3	1	3	1	0	2	1	4	0	2	7	5	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	25887644	C	G	25887644	3	3	340	1	0	0	0	0	1	0	0	0	6663	913	32	4	3131	4	GPR158	10	25887644	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08		25887644	109647103	32	17175											
CTNNA3	29119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	68139003	68139003	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccgtgacgatgtgagcaaCtcttgctgcccggcctctga	7	9	11	14	3	2	3	0	3	2	0	2	4	2	3	3	1	4	2	3	1	1	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	68139003	C	G	68139003	3	3	340	1	0	0	0	0	1	0	0	0	4014	565	20	4	1076	4	CTNNA3	10	68139003	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	42251359	68139003	67395744	33	17176											
CCNJ	54619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97816869	97816869	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctttctaaattatgcacCttctttagtagctgctgcat	8	17	6	10	0	2	0	0	0	2	0	2	0	2	0	2	0	5	5	2	0	5	7	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	97816869	C	T	97816869	3	4	340	1	0	0	0	0	1	0	0	0	2928	681	24	2	619	2	CCNJ	10	97816869	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	29677866	97816869	37717878	34	17177											
PRMT3	10196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	20486044	20486044	+	Missense_Mutation	SNP	A	A	C																															acgtctatctcagatttggaAttttcatcagattttaccct																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	20486044	A	C	20486044	3	2	340	1	0	0	0	0	1	0	0	0	12540	98	4	5	1349	5	PRMT3	11	20486044	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08		20486044	114520472	35	17178	234	2									
PRMT3	10196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	20486049	20486049	+	Missense_Mutation	SNP	C	C	T																															tatctcagatttggaattttCatcagattttaccctgaaaa																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	20486049	C	T	20486049	3	4	340	1	0	0	0	0	1	0	0	0	12540	838	29	2	1354	2	PRMT3	11	20486049	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	5	20486049	114520467	36	17179	234	2									
CTNND1	1500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57573353	57573353	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcccttttatgtccctaaGcttgtagagaactgtgtttg	7	16	10	8	0	0	1	0	0	0	1	1	2	1	1	2	1	2	3	2	1	4	6	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	57573353	G	A	57573353	5	1	340	1	0	0	0	0	0	0	1	0	4019	985	34	2	1752	2	CTNND1	11	57573353	Splice_Site	SNP	G	TCGA-BP-5187-01A-01D-1429-08	37087304	57573353	77433163	37	17180											
MAML2	84441	broad.mit.edu;hgsc.bcm.edu	37	chr11	95825502	95825502	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctgctggttcgcttgatCtgagttaaaatgaaacaaag	13	12	9	7	1	2	3	0	3	2	0	3	3	2	3	0	1	2	4	0	1	4	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	95825502	C	T	95825502	3	4	340	1	0	0	0	0	1	0	0	0	9206	913	32	2	1793	2	MAML2	11	95825502	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	38252149	95825502	39181014	38	17181											
ADAMTS20	80070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	43862444	43862444	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtaaaagcagaaatgagTcctttttcttcattaataaa	17	14	5	5	0	2	2	1	1	1	1	3	2	3	2	1	0	1	2	1	0	7	7	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	43862444	T	G	43862444	2	3	340	1	0	0	0	0	0	0	0	1	266	1654	58	5		5	ADAMTS20	12	43862444	Silent	SNP	T	TCGA-BP-5187-01A-01D-1429-08		43862444	89989451	39	17182											
BBS10	79738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	76741471	76741471	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctctgtctgtgattgcAtgaagtcctctaagcaaatg	9	16	8	8	0	3	2	0	2	3	0	5	2	4	2	1	0	2	2	1	0	3	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	76741471	A	G	76741471	2	3	340	1	0	0	0	0	0	0	0	1	1336	214	8	3		3	BBS10	12	76741471	Silent	SNP	A	TCGA-BP-5187-01A-01D-1429-08	32879027	76741471	57110424	40	17183											
KIAA1033	23325	broad.mit.edu;hgsc.bcm.edu	37	chr12	105537004	105537004	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgctatgacaaggaaattAtggaaattttaaatgaggta	17	13	9	2	0	0	2	0	2	0	0	0	4	0	4	0	3	1	2	0	3	8	6	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	105537004	A	G	105537004	3	3	340	1	0	0	0	0	1	0	0	0	8206	449	16	3	2071	3	KIAA1033	12	105537004	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	28795533	105537004	28314891	41	17184											
N4BP2L2	10443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33110645	33110645	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcaatttctttgtaaaactGgaataattcattgtcaatct	13	18	4	6	0	5	0	3	0	2	0	5	1	5	1	0	1	1	1	0	1	6	7	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	33110645	G	T	33110645	3	4	340	1	0	0	0	0	1	0	0	0	10112	1357	47	4	3112	4	N4BP2L2	13	33110645	Missense_Mutation	SNP	G	TCGA-BP-5187-01A-01D-1429-08		33110645	82059233	42	17185											
C14orf106	0	hgsc.bcm.edu	37	chr14	45716018	45716019	+	Frame_Shift_Ins	INS	-	-	T																															cataggtaggtatgctgcaaINStttttttttttcaactctgt																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	45716019	-	T	45716018	7	5	340	1	0	1	1	0	0	0	0	0	1738	98	4	0	2990	0	C14orf106	14	45716018	Frame_Shift_Ins	INS	-	TCGA-BP-5187-01A-01D-1429-08		45716018	61633522	43	17186											
MPP5	64398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	67779288	67779288	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgacccctcagatgacccTtatgttccatgtcgagagtt	9	13	8	11	1	1	4	1	2	0	2	3	5	2	4	4	0	0	2	4	0	2	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	67779288	T	C	67779288	2	2	340	1	0	0	0	0	0	0	0	1	9737	1596	56	3		3	MPP5	14	67779288	Silent	SNP	T	TCGA-BP-5187-01A-01D-1429-08	22063270	67779288	39570252	44	17187											
SMEK1	55671	broad.mit.edu;hgsc.bcm.edu	37	chr14	91925215	91925215	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagacccacgaggcctcccTgttaagaaataaggattatt	13	9	8	11	1	0	2	0	0	0	2	1	4	1	3	4	2	0	1	4	2	4	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	91925215	T	A	91925215	5	1	340	1	0	0	0	0	0	0	1	0	14795	1594	55	5	115	5	SMEK1	14	91925215	Splice_Site	SNP	T	TCGA-BP-5187-01A-01D-1429-08	24145927	91925215	15424325	45	17188											
THBS1	7057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	39885311	39885311	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagaccgatttccgccgaTtccagatgattcctctggac	8	11	10	12	3	1	3	0	2	1	2	4	7	4	4	5	1	0	0	5	1	0	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	39885311	T	C	39885311	3	2	340	1	0	0	0	0	1	0	0	0	15852	1493	52	3	2944	3	THBS1	15	39885311	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08		39885311	62646081	46	17189											
TMOD2	29767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52065996	52065996	+	Missense_Mutation	SNP	C	C	A																															agaactggaagaagctttggCcagtgcctctgacaccgaac																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	52065996	C	A	52065996	3	1	340	1	0	0	0	0	1	0	0	0	16233	739	26	4	381	4	TMOD2	15	52065996	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	12180685	52065996	50465396	47	17190	235	2									
TMOD2	29767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52066002	52066002	+	Missense_Mutation	SNP	C	C	T																															ggaagaagctttggccagtgCctctgacaccgaactctatg																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	52066002	C	T	52066002	3	4	340	1	0	0	0	0	1	0	0	0	16233	739	26	2	387	2	TMOD2	15	52066002	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	6	52066002	50465390	48	17191	235	2									
PPL	5493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4953981	4953981	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcttctcagagtccaacaCcttctgcagggtcacgtccc	8	9	8	16	1	3	1	2	0	2	1	6	1	5	1	3	1	3	2	3	1	1	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	4953981	C	G	4953981	3	3	340	1	0	0	0	0	1	0	0	0	12336	507	18	4	5127	4	PPL	16	4953981	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08		4953981	85400772	49	17192											
SAMD14	201191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48191587	48191587	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagcgtgtggtaggggtaAgaacatttggcctcctgcca	9	9	14	9	1	0	1	0	0	0	1	1	2	1	1	3	4	3	2	3	4	3	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	48191587	A	G	48191587	2	3	340	1	0	0	0	0	0	0	0	1	13821	59	3	3		3	SAMD14	17	48191587	Silent	SNP	A	TCGA-BP-5187-01A-01D-1429-08		48191587	33003623	50	17193											
SPAG9	9043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	49057150	49057150	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgtccacatcctgtagAtgttgataagtgtgtgcatg	10	14	10	7	0	1	2	1	1	0	1	3	2	3	2	2	0	1	3	2	0	3	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	49057150	A	C	49057150	3	2	340	1	0	0	0	0	1	0	0	0	14987	330	12	5	619	5	SPAG9	17	49057150	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	865563	49057150	32138060	51	17194											
COX11	1353	broad.mit.edu;hgsc.bcm.edu	37	chr17	53040153	53040153	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcaaaaaaagtgtaagAaagagtgataagatcaactt	19	10	8	4	0	2	4	2	1	0	3	2	4	2	4	0	0	2	2	0	0	7	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	53040153	A	G	53040153	3	3	340	1	0	0	0	0	1	0	0	0	3763	246	9	3	128	3	COX11	17	53040153	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	3983003	53040153	28155057	52	17195											
GAA	2548	broad.mit.edu;hgsc.bcm.edu	37	chr17	78090863	78090863	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaggccgggaaggccgaAgtgactggctacttcccctt	7	8	12	14	2	0	1	0	1	0	0	2	3	2	2	5	4	1	1	5	4	3	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	78090863	A	T	78090863	3	4	340	1	0	0	0	0	1	0	0	0	6147	69	3	5	2344	5	GAA	17	78090863	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	25050710	78090863	3104347	53	17196											
CEP76	79959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	12701062	12701062	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgatcaggtgccaattcTtcccgtatagtctcagcaag	9	13	9	10	1	3	1	2	1	2	0	5	1	4	1	2	1	2	3	2	1	4	5	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	12701062	T	C	12701062	2	2	340	1	0	0	0	0	0	0	0	1	3261	1606	56	3		3	CEP76	18	12701062	Silent	SNP	T	TCGA-BP-5187-01A-01D-1429-08		12701062	65376186	54	17197											
ZNF257	113835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	22271280	22271280	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttttaaccggtcttcacAccttactcaacataaggtaa	13	12	5	11	1	3	0	2	0	1	0	3	0	3	0	2	2	4	2	2	2	5	6	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	22271280	A	G	22271280	3	3	340	1	0	0	0	0	1	0	0	0	17799	159	6	3	742	3	ZNF257	19	22271280	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08		22271280	36857703	55	17198											
MARK4	57787	broad.mit.edu;ucsc.edu	37	chr19	45800968	45800968	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgccccctgcctcccccTccagtcacagcctggcaccc	4	6	9	22	0	1	0	1	0	0	0	3	0	3	0	8	2	3	1	8	2	0	0	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	45800968	C	C	45800968	3	2	340	1	0	0	0	0	1	0	0	0	9315	1551	54	3	1691	3	MARK4	19	45800968	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	23529688	45800968	13328015	56	17199											
KLK14	43847	broad.mit.edu;hgsc.bcm.edu	37	chr19	51582708	51582708	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgcaggagtcctcaccgAtggggctggatatagttccc	9	8	13	11	2	1	1	1	0	0	1	3	4	3	3	3	4	0	3	3	4	2	3	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	51582708	A	T	51582708	3	4	340	1	0	0	0	0	1	0	0	0	8402	333	12	5	303	5	KLK14	19	51582708	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	5781740	51582708	7546275	57	17200											
NLRP2	55655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55497591	55497591	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaggtcacaagactgtaacGtatctgacccttcaaggcaa	13	8	9	11	2	3	2	2	1	1	1	3	3	3	2	1	2	1	3	1	2	5	3	rs144434448	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	55497591	G	T	55497591	2	4	340	1	0	0	0	0	0	0	0	1	10477	1132	40	4		4	NLRP2	19	55497591	Silent	SNP	G	TCGA-BP-5187-01A-01D-1429-08	3914883	55497591	3631392	58	17201											
TGM6	343641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2381082	2381082	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggacctgacagaagaCagcatgtggtgggtcctgcc	9	7	15	10	0	0	3	0	1	0	2	1	5	1	5	3	4	2	1	3	4	1	0	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	2381082	C	G	2381082	3	3	340	1	0	0	0	0	1	0	0	0	15833	477	17	4	1007	4	TGM6	20	2381082	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08		2381082	60644438	59	17202											
GNAS	2778	hgsc.bcm.edu;ucsc.edu	37	chr20	57484440	57484441	+	Frame_Shift_Ins	INS	-	-	T																															gtgtcctgacttctggaatcINStttgagaccaagttccaggt																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	57484441	-	T	57484440	7	5	340	1	0	1	1	0	0	0	0	0	6510	903	32	0	3468	0	GNAS	20	57484440	Frame_Shift_Ins	INS	-	TCGA-BP-5187-01A-01D-1429-08	55103358	57484440	5541080	60	17203											
CDH4	1002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60499490	60499490	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaccgtgagtccctctacaCcaaaaacaacgtctacgagg	13	6	9	13	3	2	1	0	1	2	0	3	3	3	2	3	2	4	0	3	2	5	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	60499490	C	G	60499490	3	3	340	1	0	0	0	0	1	0	0	0	3112	507	18	4	1769	4	CDH4	20	60499490	Missense_Mutation	SNP	C	TCGA-BP-5187-01A-01D-1429-08	3015050	60499490	2526030	61	17204											
SGSM1	129049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	25251635	25251635	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctatggcaaaaacaacgtTcttgttcagccggtgagagg	11	10	11	9	2	3	1	1	1	2	1	3	2	3	1	1	3	3	3	1	3	4	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	25251635	T	A	25251635	2	1	340	1	0	0	0	0	0	0	0	1	14224	1770	62	5		5	SGSM1	22	25251635	Silent	SNP	T	TCGA-BP-5187-01A-01D-1429-08		25251635	26052931	62	17205											
SSTR3	6753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37603580	37603580	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgaagagctcgtcggccAgcgccaggttgaggatgtag	9	7	16	9	3	0	3	0	2	0	1	2	4	0	4	2	3	2	4	2	3	2	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	37603580	A	G	37603580	3	3	340	1	0	0	0	0	1	0	0	0	15200	188	7	3	997	3	SSTR3	22	37603580	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	12351945	37603580	13700986	63	17206											
SMS	6611	broad.mit.edu;hgsc.bcm.edu	37	chrX	22010764	22010764	+	Frame_Shift_Del	DEL	T	T	-																															gtcgctctatgaagaacagcTggggcgcctgtattgtcctg																								novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		-	22010764	T	-	22010764	7	5	340	1	0	1	0	1	0	0	0	0	14815	1580	55	0	1033	0	SMS	23	22010764	Frame_Shift_Del	DEL	T	TCGA-BP-5187-01A-01D-1429-08		22010764	133259796	64	17207											
HDAC6	10013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48674573	48674573	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgaggtaccccagcgcAtcttgcggatcatgtgccgt	7	9	11	14	3	2	1	1	1	1	0	2	2	2	2	4	2	4	2	4	2	1	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		G	48674573	A	G	48674573	3	3	340	1	0	0	0	0	1	0	0	0	7011	217	8	3	1585	3	HDAC6	23	48674573	Missense_Mutation	SNP	A	TCGA-BP-5187-01A-01D-1429-08	26663809	48674573	106595987	65	17208											
SPIN2A	54466	broad.mit.edu;hgsc.bcm.edu	37	chrX	57162317	57162317	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcaaacttgatgaaataCacagagggtttggtttccac	13	12	8	8	0	2	3	2	2	0	1	3	3	3	3	1	2	2	2	1	2	3	4	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		T	57162317	C	T	57162317	2	4	340	1	0	0	0	0	0	0	0	1	15054	465	17	2		2	SPIN2A	23	57162317	Silent	SNP	C	TCGA-BP-5187-01A-01D-1429-08	8487744	57162317	98108243	66	17209											
SLITRK2	84631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	144905975	144905975	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacaacactgagactcacGataaaacagacggccatgtc	15	7	7	12	2	1	2	1	1	0	2	2	4	1	2	1	1	3	0	1	1	4	2	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		A	144905975	G	A	144905975	3	1	340	1	0	0	0	0	1	0	0	0	14745	1058	37	1	2034	1	SLITRK2	23	144905975	Missense_Mutation	SNP	G	TCGA-BP-5187-01A-01D-1429-08	87743658	144905975	10364585	67	17210											
RENBP	5973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153209149	153209149	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggaggtgccacccgggcaTaccgcagcaagaactcacca	12	3	11	15	2	1	1	1	0	0	1	1	2	1	2	4	3	4	3	4	3	3	1	novel		TCGA-BP-5187-01A-01D-1429-08	TCGA-BP-5187-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1a0367d6-1237-454c-a4b0-4fa53782303e	6cc23233-3e06-4b8e-9c48-de62e5c49ebf		C	153209149	T	C	153209149	3	2	340	1	0	0	0	0	1	0	0	0	13227	1406	49	3	1000	3	RENBP	23	153209149	Missense_Mutation	SNP	T	TCGA-BP-5187-01A-01D-1429-08	8303174	153209149	2061411	68	17211											
VHL	7428	hgsc.bcm.edu	37	chr3	10183863	10183863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggccgccgcatccacaGctaccgaggtacgggcccgg	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-BP-5187-01A-01W-1477-10	TCGA-BP-5187-11A-01W-1477-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	b7a53f90-c15e-4b5d-9c9f-2e4818b2e5af	f355d7f7-5d7c-49e5-b272-76709cbfa0d7		A	10183863	G	A	10183863	3	1	341	1	0	0	0	0	1	0	0	0	17161	971	34	2	334	2	VHL	3	10183863	Missense_Mutation	SNP	G	TCGA-BP-5187-01A-01W-1477-10		10183863	187838567	1	17212											
ATP6V0B	533	hgsc.bcm.edu;ucsc.edu	37	chr1	44442331	44442331	+	Frame_Shift_Del	DEL	G	G	-																															gtcattagcaacatggctgaGgtatggaaggccagggtggt																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		-	44442331	G	-	44442331	7	5	342	1	0	1	0	1	0	0	0	0	1171	1014	35	0	366	0	ATP6V0B	1	44442331	Frame_Shift_Del	DEL	G	TCGA-BP-5189-01A-02D-1429-08		44442331	204808290	1	17213											
ROR1	4919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	64643611	64643611	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcggagagcaacttcatgtAaagatttcagacttggggct	12	11	11	7	1	2	3	2	0	0	3	3	4	2	3	0	3	2	3	0	3	3	4	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	64643611	A	G	64643611	2	3	342	1	0	0	0	0	0	0	0	1	13528	349	13	3		3	ROR1	1	64643611	Silent	SNP	A	TCGA-BP-5189-01A-02D-1429-08	20201280	64643611	184607010	2	17214											
SORT1	6272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109888450	109888450	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcacaccaatagttttgaAgctttttcccaagtctgaag	11	15	6	9	0	2	2	1	2	1	0	3	2	3	2	2	0	1	2	2	0	5	6	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	109888450	A	G	109888450	3	3	342	1	0	0	0	0	1	0	0	0	14937	72	3	3	1661	3	SORT1	1	109888450	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08	45244839	109888450	139362171	3	17215											
OTUD7B	56957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	149920957	149920957	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtgcaagggcagcagcttAtactctgaatctgtaagtgg	12	10	12	7	0	2	1	0	1	2	0	2	1	2	1	0	2	4	5	0	2	6	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	149920957	A	G	149920957	2	3	342	1	0	0	0	0	0	0	0	1	11319	456	16	3		3	OTUD7B	1	149920957	Silent	SNP	A	TCGA-BP-5189-01A-02D-1429-08	40032507	149920957	99329664	4	17216											
TMOD4	29765	hgsc.bcm.edu;ucsc.edu	37	chr1	151143053	151143054	+	Frame_Shift_Del	DEL	AA	AA	-																															gctcgtggcccctgctgtgtAaagtggtagccaaagcggac																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		-	151143054	AA	-	151143053	7	5	342	1	0	1	0	1	0	0	0	0	16235	359	13	0	88	0	TMOD4	1	151143053	Frame_Shift_Del	DEL	AA	TCGA-BP-5189-01A-02D-1429-08	1222096	151143053	98107568	5	17217											
ATP1A2	477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160098797	160098797	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgacaaacgatcccctaCgtggacggccctgtctcgaa	9	10	9	13	4	1	1	0	1	1	0	3	4	2	2	3	2	2	0	3	2	3	3	rs121918618		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	160098797	C	T	160098797	3	4	342	1	0	0	0	0	1	0	0	0	1129	536	19	1	1282	1	ATP1A2	1	160098797	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08	8955744	160098797	89151824	6	17218											
NAT8	9027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73868095	73868095	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactccctaccttagaagAagggaggtggtagatgaaat	14	8	12	7	0	0	5	0	1	0	4	1	6	1	6	2	3	1	1	2	3	6	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	73868095	A	G	73868095	3	3	342	1	0	0	0	0	1	0	0	0	10179	246	9	3	26	3	NAT8	2	73868095	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08		73868095	169331278	7	17219											
STAT4	6775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191900934	191900934	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagttgatctgagttaagaCcacgaccaacgtacgatgaa	14	8	11	8	3	1	4	0	3	1	1	1	7	1	5	2	1	2	3	2	1	4	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	191900934	C	A	191900934	3	1	342	1	0	0	0	0	1	0	0	0	15268	507	18	4	752	4	STAT4	2	191900934	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08	118032839	191900934	51298439	8	17220											
CLK1	1195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201719363	201719363	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgtatcatatgttttGgtagaggtccaagaatcctt	9	18	8	6	0	2	2	1	0	1	2	4	2	4	2	2	2	0	3	2	2	5	8	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	201719363	G	C	201719363	3	2	342	1	0	0	0	0	1	0	0	0	3536	1348	47	4	270	4	CLK1	2	201719363	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08	9818429	201719363	41480010	9	17221											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu	37	chr3	52595822	52595822	+	Missense_Mutation	SNP	A	A	C																															ggctgtctcaagatttctccAttctgtccccaccaggcggc																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	52595822	A	C	52595822	3	2	342	1	0	0	0	0	1	0	0	0	11491	217	8	5	675	5	PBRM1	3	52595822	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08		52595822	145426608	10	17222	236	2									
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52595829	52595829	+	Frame_Shift_Del	DEL	C	C	-																															tcaagatttctccattctgtCcccaccaggcggctgagctc																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		-	52595829	C	-	52595829	7	5	342	1	0	1	0	1	0	0	0	0	11491	842	30	0	682	0	PBRM1	3	52595829	Frame_Shift_Del	DEL	C	TCGA-BP-5189-01A-02D-1429-08	7	52595829	145426601	11	17223	236	2									
GBA3	57733	broad.mit.edu;hgsc.bcm.edu	37	chr4	22749618	22749618	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactaggtattctccaggAtgcggaaattgaattttttc	12	14	9	6	1	1	2	0	1	1	1	3	4	1	4	1	3	2	1	1	3	5	7	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	22749618	A	G	22749618	3	3	342	1	0	0	0	0	1	0	0	0	6268	333	12	3	996	3	GBA3	4	22749618	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08		22749618	168404658	12	17224											
EPHA5	2044	hgsc.bcm.edu;ucsc.edu	37	chr4	66189869	66189869	+	Frame_Shift_Del	DEL	A	A	-																															cgtttaccagctgcaccttcAtttcttgaaggctgttcatg																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		-	66189869	A	-	66189869	7	5	342	1	0	1	0	1	0	0	0	0	5170	217	8	0	40	0	EPHA5	4	66189869	Frame_Shift_Del	DEL	A	TCGA-BP-5189-01A-02D-1429-08	43440251	66189869	124964407	13	17225											
ANKRD34B	340120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79854670	79854670	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatctttttctttcctataAgtgctttgccgtcttctgaa	6	19	7	9	1	4	1	0	1	4	0	5	2	5	2	2	1	2	1	2	1	3	7	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	79854670	A	T	79854670	3	4	342	1	0	0	0	0	1	0	0	0	663	72	3	5	379	5	ANKRD34B	5	79854670	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08		79854670	101060590	14	17226											
PPP2R2B	5521	broad.mit.edu;hgsc.bcm.edu	37	chr5	145980011	145980011	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgttgcttggatcttccGgctcttcaaaaactgcagaa	10	13	8	10	1	4	1	1	0	3	1	5	2	5	2	1	2	3	4	1	2	3	4	rs148423117		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	145980011	G	A	145980011	3	1	342	1	0	0	0	0	1	0	0	0	12387	1116	39	1	540	1	PPP2R2B	5	145980011	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08	66125341	145980011	34935249	15	17227											
UBLCP1	134510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	158696067	158696067	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgccaaaagttacttggactCaaagttaaaggtaattctct	14	12	7	8	1	2	0	1	0	1	0	3	1	2	1	1	2	1	3	1	2	7	5	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	158696067	C	G	158696067	2	3	342	1	0	0	0	0	0	0	0	1	16890	813	29	4		4	UBLCP1	5	158696067	Silent	SNP	C	TCGA-BP-5189-01A-02D-1429-08	12716056	158696067	22219193	16	17228											
SLC29A1	2030	broad.mit.edu	37	chr6	44200593	44200593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgctggcccggctggTgtttgtgccactgctgctgc	1	12	15	13	1	0	0	0	0	0	0	0	0	0	0	3	4	5	5	3	4	0	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	44200593	G	G	44200593	3	3	342	1	0	0	0	0	1	0	0	0	14536	1696	59	5	1151	5	SLC29A1	6	44200593	Missense_Mutation	SNP	T	TCGA-BP-5189-01A-02D-1429-08		44200593	126914474	17	17229											
SASH1	23328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	148853944	148853944	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtacaggcggtcaaacaGtgagcaccactgattcctca	11	8	9	13	1	2	2	2	2	0	0	3	2	3	2	3	2	3	2	3	2	2	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	148853944	G	C	148853944	3	2	342	1	0	0	0	0	1	0	0	0	13850	1029	36	4	1630	4	SASH1	6	148853944	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08	104653351	148853944	22261123	18	17230											
AKAP9	10142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91736718	91736718	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggactatattaggtcccCtttaccatttcagaataggt	10	15	7	9	0	2	1	1	0	1	1	3	2	3	2	3	3	1	0	3	3	6	7	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	91736718	C	T	91736718	3	4	342	1	0	0	0	0	1	0	0	0	459	681	24	2	11718	2	AKAP9	7	91736718	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08		91736718	67401945	19	17231											
ZNF212	7988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148947875	148947875	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaaacgtgatggagagtaActatgagacactggtctctc	13	9	11	8	1	1	4	0	2	1	3	3	6	1	4	0	2	2	1	0	2	3	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	148947875	A	G	148947875	3	3	342	1	0	0	0	0	1	0	0	0	17767	43	2	3	528	3	ZNF212	7	148947875	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08	57211157	148947875	10190788	20	17232											
CTSB	1508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11703216	11703216	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttggcaaccagccagtaGggtgtgccattctccactcc	8	9	11	13	0	1	0	0	0	1	0	3	1	2	0	5	2	3	3	5	2	2	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	11703216	G	T	11703216	2	4	342	1	0	0	0	0	0	0	0	1	4030	987	35	4		4	CTSB	8	11703216	Silent	SNP	G	TCGA-BP-5189-01A-02D-1429-08		11703216	134660806	21	17233											
COLEC10	10584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	120118232	120118232	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtgttcattggcgtgaaTgaccttgaaagggagggaca	10	9	16	6	2	1	3	1	3	0	0	1	5	1	5	1	4	0	1	1	4	2	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	120118232	T	C	120118232	2	2	342	1	0	0	0	0	0	0	0	1	3710	1461	51	3		3	COLEC10	8	120118232	Silent	SNP	T	TCGA-BP-5189-01A-02D-1429-08	108415016	120118232	26245790	22	17234											
CYP11B2	1585	broad.mit.edu	37	chr8	143994277	143994277	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagctcaccactcgctcCaaaaacagacccacagggta	13	6	7	15	1	2	2	1	1	1	1	4	2	3	2	3	1	2	3	3	1	3	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	143994277	A	A	143994277	3	1	342	1	0	0	0	0	1	0	0	0	4146	593	21	4	377	4	CYP11B2	8	143994277	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08	23876045	143994277	2369745	23	17235											
TNC	3371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	117848654	117848654	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctcacatacacatttGccctcgacacagcggccccg	8	8	7	18	3	1	0	1	0	0	0	2	1	1	0	4	1	4	1	4	1	1	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	117848654	G	A	117848654	2	1	342	1	0	0	0	0	0	0	0	1	16269	1306	46	2		2	TNC	9	117848654	Silent	SNP	G	TCGA-BP-5189-01A-02D-1429-08		117848654	23364777	24	17236											
C10orf71	118461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50532616	50532616	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgggctctccagatctGtgtcccaagagacagaacct	12	8	10	11	0	2	4	0	0	2	4	4	5	3	4	3	1	1	1	3	1	3	0	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	50532616	G	A	50532616	3	1	342	1	0	0	0	0	1	0	0	0	1614	1377	48	2	2028	2	C10orf71	10	50532616	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08		50532616	85002131	25	17237											
ADAMTS14	140766	broad.mit.edu;hgsc.bcm.edu	37	chr10	72496510	72496510	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacttctgcaagaccaagaaGgggcccccgctggatgggac	10	6	13	12	1	1	2	0	0	1	2	1	4	1	4	3	4	2	2	3	4	4	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	72496510	G	T	72496510	3	4	342	1	0	0	0	0	1	0	0	0	259	991	35	4	1607	4	ADAMTS14	10	72496510	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08	21963894	72496510	63038237	26	17238											
CCDC147	159686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	106209950	106209950	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgctcagaaacgtaaagAacaacttcaaaagtaagaat	19	7	6	9	2	2	3	2	0	0	3	3	3	2	3	1	0	3	3	1	0	9	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	106209950	A	T	106209950	3	4	342	1	0	0	0	0	1	0	0	0	2781	246	9	5	2564	5	CCDC147	10	106209950	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08	33713440	106209950	29324797	27	17239											
PLEKHA7	144100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	16838838	16838838	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacagggattggccaggacCctggcgaggaagcgtctggt	8	6	18	9	2	1	0	0	0	1	0	1	5	1	4	2	7	1	0	2	7	1	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	16838838	C	T	16838838	3	4	342	1	0	0	0	0	1	0	0	0	12061	623	22	2	2042	2	PLEKHA7	11	16838838	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08		16838838	118167678	28	17240											
PLEKHA7	144100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	16847952	16847952	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccggtcccgcttgcccTccagtgggtccctctgggaa	3	10	12	16	2	1	0	0	0	1	0	5	1	5	1	5	3	2	2	5	3	1	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	16847952	T	G	16847952	3	3	342	1	0	0	0	0	1	0	0	0	12061	1551	54	5	2363	5	PLEKHA7	11	16847952	Missense_Mutation	SNP	T	TCGA-BP-5189-01A-02D-1429-08	9114	16847952	118158564	29	17241											
OR4C3	256144	broad.mit.edu;hgsc.bcm.edu	37	chr11	48346849	48346849	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggagaaccatctcttaTgagtgctgcatggctcagct	9	10	13	9	0	2	2	1	1	1	1	3	4	2	2	1	3	4	4	1	3	2	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	48346849	T	A	48346849	4	1	342	1	0	0	0	0	0	1	0	0	11050	1471	51	5	359	5	OR4C3	11	48346849	Nonsense_Mutation	SNP	T	TCGA-BP-5189-01A-02D-1429-08	31498897	48346849	86659667	30	17242											
ULK1	8408	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	132400471	132400471	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcactctccccgcacttccGggctgggctgccgcctgcac	4	7	11	19	3	1	0	0	0	1	0	3	0	2	0	5	2	3	5	5	2	0	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	132400471	G	A	132400471	3	1	342	1	0	0	0	0	1	0	0	0	16974	1116	39	1	1719	1	ULK1	12	132400471	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08		132400471	1451424	31	17243											
RALGAPA1	253959	broad.mit.edu;hgsc.bcm.edu	37	chr14	36125081	36125081	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgagactcatggactagttCttcacaaatccaaataccta	15	11	5	10	0	3	1	2	1	1	1	4	3	4	2	2	1	1	1	2	1	5	5	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	36125081	C	T	36125081	3	4	342	1	0	0	0	0	1	0	0	0	13015	922	32	2	2405	2	RALGAPA1	14	36125081	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08		36125081	71224459	32	17244											
KIAA0586	9786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58937442	58937442	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgcaaacttggataaagGtatatttcagaattttatca	14	15	7	5	0	2	1	2	0	0	1	2	2	2	2	0	2	2	2	0	2	7	7	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	58937442	G	T	58937442	5	4	342	1	0	0	0	0	0	0	1	0	8186	1275	44	4	2388	4	KIAA0586	14	58937442	Splice_Site	SNP	G	TCGA-BP-5189-01A-02D-1429-08	22812361	58937442	48412098	33	17245											
SIPA1L1	26037	hgsc.bcm.edu;ucsc.edu	37	chr14	72117112	72117112	+	Frame_Shift_Del	DEL	G	G	-																															ctggacagagcactgaagaaGagatgtacaacaatgagtca																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		-	72117112	G	-	72117112	7	5	342	1	0	1	0	1	0	0	0	0	14331	943	33	0	1893	0	SIPA1L1	14	72117112	Frame_Shift_Del	DEL	G	TCGA-BP-5189-01A-02D-1429-08	13179670	72117112	35232428	34	17246											
EIF2B2	8892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75475794	75475794	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactacgttcccccagagcTcattaccctctttatctcca	8	13	4	16	1	3	2	1	1	2	1	5	2	4	2	4	0	3	2	4	0	3	5	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	75475794	T	C	75475794	3	2	342	1	0	0	0	0	1	0	0	0	5001	1551	54	3	989	3	EIF2B2	14	75475794	Missense_Mutation	SNP	T	TCGA-BP-5189-01A-02D-1429-08	3358682	75475794	31873746	35	17247											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	33822793	33822793	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attcttcctcattcccacagGcagcacaaggaggtggccac	10	8	9	14	0	2	0	1	0	1	0	4	1	4	1	3	4	1	2	3	4	1	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	33822793	G	A	33822793	3	1	342	1	0	0	0	0	1	0	0	0	13772	1217	42	2	294	2	RYR3	15	33822793	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08		33822793	68708599	36	17248											
PARP16	54956	broad.mit.edu;ucsc.edu	37	chr15	65551800	65551800	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggagttgatgacactcActatgagcagcagcagcaga	14	6	12	9	0	1	5	1	3	0	2	1	6	1	6	0	1	4	5	0	1	1	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	65551800	C	C	65551800	3	2	342	1	0	0	0	0	1	0	0	0	11460	159	6	5	58	5	PARP16	15	65551800	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08	31729007	65551800	36979592	37	17249											
LOXL1	4016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	74239564	74239564	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcacctctcatacccaGgttgggctggagagatgggg	8	8	15	10	0	1	1	1	0	1	1	2	3	1	2	2	5	2	4	2	5	1	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	74239564	G	A	74239564	2	1	342	1	0	0	0	0	0	0	0	1	8899	1014	35	2		2	LOXL1	15	74239564	Silent	SNP	G	TCGA-BP-5189-01A-02D-1429-08	8687764	74239564	28291828	38	17250											
SCAMP2	10066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75142952	75142952	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaagtccactcccttggAgctgttgcccgagaaccagg	9	7	11	14	1	0	1	0	0	0	1	2	3	2	2	5	2	3	2	5	2	2	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	75142952	A	C	75142952	3	2	342	1	0	0	0	0	1	0	0	0	13873	304	11	5	470	5	SCAMP2	15	75142952	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08	903388	75142952	27388440	39	17251											
FHOD1	29109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67265179	67265179	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagggagcagagatggtgtAgcagtgactgtcgacgcacc	10	7	15	9	2	0	2	0	1	0	1	1	5	0	3	1	2	2	4	1	2	2	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		C	67265179	A	C	67265179	3	2	342	1	0	0	0	0	1	0	0	0	5882	420	15	5	939	5	FHOD1	16	67265179	Missense_Mutation	SNP	A	TCGA-BP-5189-01A-02D-1429-08		67265179	23089574	40	17252											
FAM65A	79567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67579292	67579292	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cctgcagtgtgtgtgaagttCctggaggatgccctggggca	6	10	16	9	0	0	1	0	1	0	0	1	3	1	3	3	4	2	3	3	4	1	1	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	67579292	C	G	67579292	3	3	342	1	0	0	0	0	1	0	0	0	5599	854	30	4	3111	4	FAM65A	16	67579292	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08	314113	67579292	22775461	41	17253											
MLYCD	23417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	83940609	83940609	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaatgaatggggtgctGaaaggaatgctctcagaatg	14	8	14	5	0	1	3	1	2	1	1	2	5	1	5	0	4	2	2	0	4	5	0	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	83940609	G	T	83940609	2	4	342	1	0	0	0	0	0	0	0	1	9638	1277	45	4		4	MLYCD	16	83940609	Silent	SNP	G	TCGA-BP-5189-01A-02D-1429-08	16361317	83940609	6414144	42	17254											
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10351442	10351442	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcatgctcaagagatGccttaataaaagcaacattt	14	13	5	9	0	3	1	2	0	1	1	3	2	3	1	1	0	4	2	1	0	5	5	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	10351442	G	A	10351442	3	1	342	1	0	0	0	0	1	0	0	0	10037	1333	46	2	1189	2	MYH4	17	10351442	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08		10351442	70843768	43	17255											
SEC14L1	6397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	75209495	75209495	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttccccgggtggacgacGtgcttgcgtccctgcaggtc	3	9	14	15	4	0	0	0	0	0	0	3	2	2	1	4	3	3	2	4	3	0	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	75209495	G	A	75209495	3	1	342	1	0	0	0	0	1	0	0	0	13983	1145	40	1	2017	1	SEC14L1	17	75209495	Missense_Mutation	SNP	G	TCGA-BP-5189-01A-02D-1429-08	64858053	75209495	5985715	44	17256											
HSH2D	84941	broad.mit.edu	37	chr19	16263872	16263872	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccaaagcagctgctgcCatttcatggtgaagctcttg	9	10	11	11	0	2	1	1	1	1	0	2	2	2	1	2	1	6	4	2	1	2	2	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		G	16263872	G	G	16263872	3	3	342	1	0	0	0	0	1	0	0	0	7400	594	21	4	245	4	HSH2D	19	16263872	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08		16263872	42865111	45	17257											
ZNF93	81931	broad.mit.edu;hgsc.bcm.edu	37	chr19	20044531	20044531	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cattcatactggaaagaaacCctacaagtgtgaagaatgtg	16	9	9	7	0	1	3	1	1	0	2	1	4	1	4	1	1	3	0	1	1	7	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		A	20044531	C	A	20044531	3	1	342	1	0	0	0	0	1	0	0	0	18201	623	22	4	781	4	ZNF93	19	20044531	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08	3780659	20044531	39084452	46	17258											
FTL	2512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49469167	49469167	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcgctctcttccaggaCatcaaggtaactagtgtgtg	8	10	12	11	2	2	0	1	0	1	0	4	1	3	1	2	3	1	2	2	3	3	3	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	49469167	C	T	49469167	2	4	342	1	0	0	0	0	0	0	0	1	6084	477	17	2		2	FTL	19	49469167	Silent	SNP	C	TCGA-BP-5189-01A-02D-1429-08	29424636	49469167	9659816	47	17259											
PTPRH	5794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55710122	55710122	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttagggtgatgtcagtacCtgaggtgctttgggtcctgg	5	14	15	7	0	1	2	1	2	0	0	2	2	2	2	2	4	2	2	2	4	2	4	novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		T	55710122	C	T	55710122	3	4	342	1	0	0	0	0	1	0	0	0	12805	681	24	2	1820	2	PTPRH	19	55710122	Missense_Mutation	SNP	C	TCGA-BP-5189-01A-02D-1429-08	6240955	55710122	3418861	48	17260											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53225887	53225887	+	Frame_Shift_Del	DEL	G	G	-																															cctggcctccaggcagaggtGggctttctcctcccagcgtt																								novel		TCGA-BP-5189-01A-02D-1429-08	TCGA-BP-5189-11A-01D-1429-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ca98342a-65ec-468a-9cc1-44c7d31a67d6	e83a85aa-b0d1-4c20-9434-2b3d28114c03		-	53225887	G	-	53225887	7	5	342	1	0	1	0	1	0	0	0	0	8135	1348	47	0	1850	0	KDM5C	23	53225887	Frame_Shift_Del	DEL	G	TCGA-BP-5189-01A-02D-1429-08		53225887	102044673	49	17261											
VPS13D	55187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12566928	12566928	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcgctgtggagaacatTgacagctactgcgtgctcat	9	12	10	10	2	2	2	2	1	0	1	3	3	2	2	0	1	5	3	0	1	2	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	12566928	T	A	12566928	2	1	343	1	0	0	0	0	0	0	0	1	17191	1800	63	5		5	VPS13D	1	12566928	Silent	SNP	T	TCGA-BP-5190-01A-01D-1429-08		12566928	236683693	1	17262											
MRPS21	54460	broad.mit.edu;hgsc.bcm.edu	37	chr1	150266811	150266811	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaacatctgaagttcatcGccaggactgtgatggtacag	13	9	10	9	1	2	2	1	2	1	0	3	3	2	3	1	2	2	2	1	2	4	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	150266811	G	A	150266811	3	1	343	1	0	0	0	0	1	0	0	0	9832	1087	38	1	27	1	MRPS21	1	150266811	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	137699883	150266811	98983810	2	17263											
IPO9	55705	broad.mit.edu;ucsc.edu	37	chr1	201845133	201845133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgctacataatgttttcagGccaccttaatgacaatgaga	13	12	7	9	0	1	2	1	2	0	1	1	3	1	2	2	1	2	2	2	1	4	5	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	201845133	T	T	201845133	3	4	343	1	0	0	0	0	1	0	0	0	7799	1203	42	4	3171	4	IPO9	1	201845133	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	51578322	201845133	47405488	3	17264											
EMILIN1	11117	hgsc.bcm.edu;ucsc.edu	37	chr2	27308027	27308032	+	Frame_Shift_Del	DEL	GGAGTG	GGAGTG	-																															acatccacccttcccactcaGgagtggagggggcaccagca																								novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	GGAGTG	GGAGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		-	27308032	GGAGTG	-	27308027	7	5	343	1	0	1	0	1	0	0	0	0	5093	1014	35	0	2601	0	EMILIN1	2	27308027	Frame_Shift_Del	DEL	GGAGTG	TCGA-BP-5190-01A-01D-1429-08		27308027	215891346	4	17265											
CTNNA2	1496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	80136882	80136882	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcggagtgcaacgccgtgCggcaggcgctccaggacctg	6	5	17	13	5	0	0	0	0	0	0	1	2	1	2	3	5	3	3	3	5	1	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	80136882	C	T	80136882	3	4	343	1	0	0	0	0	1	0	0	0	4013	759	27	1		1	CTNNA2	2	80136882	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	52828855	80136882	163062491	5	17266											
RPL31	6160	broad.mit.edu;hgsc.bcm.edu	37	chr2	101622534	101622534	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgttaccactttcaaaaGtaagttctccatcccataaa	14	12	3	12	0	2	0	1	0	1	0	4	0	3	0	4	0	1	3	4	0	6	5	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		C	101622534	G	C	101622534	3	2	343	1	0	0	0	0	1	0	0	0	13583	1043	36	4	357	4	RPL31	2	101622534	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	21485652	101622534	141576839	6	17267											
NCKAP5	344148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	133541011	133541011	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctgttatggcttttggCgggtgatgaggatgatgagg	7	12	19	3	1	0	4	0	4	0	0	0	5	0	5	0	6	0	3	0	6	1	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	133541011	C	A	133541011	3	1	343	1	0	0	0	0	1	0	0	0	10223	768	27	4	2384	4	NCKAP5	2	133541011	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	31918477	133541011	109658362	7	17268											
SCRN3	79634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	175289230	175289230	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaagcctttcatatttgtGccacatatttcacaactatt	11	18	3	9	0	2	0	2	0	0	0	2	0	2	0	2	0	3	0	2	0	5	9	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	175289230	G	A	175289230	2	1	343	1	0	0	0	0	0	0	0	1	13942	1306	46	2		2	SCRN3	2	175289230	Silent	SNP	G	TCGA-BP-5190-01A-01D-1429-08	41748219	175289230	67910143	8	17269											
CPS1	1373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	211476961	211476961	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaatggccatctaatttaGatcttagaaaagagttgtct	15	13	8	5	0	3	4	0	0	3	4	3	4	3	4	1	1	0	1	1	1	7	5	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	211476961	G	A	211476961	3	1	343	1	0	0	0	0	1	0	0	0	3823	942	33	2	2612	2	CPS1	2	211476961	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	36187731	211476961	31722412	9	17270											
VHL	7428	broad.mit.edu	37	chr3	10183715	10183716	+	Frame_Shift_Del	DEL	GT	-	-																															aggccgggcggccgcggcccGtgctgcgctcggtgaactcg																								novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	GT	GT	GT	-	GT	GT	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		-	10183716	-	-	10183715	7	5	343	1	0	1	0	1	0	0	0	0	17161	1145	40	0	186	0	VHL	3	10183715	Frame_Shift_Del	DEL	GT	TCGA-BP-5190-01A-01D-1429-08		10183715	187838715	10	17271											
CNTN3	5067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	74474063	74474063	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacgcacagacactgtactCctcattttggttttaaaatt	11	15	5	10	1	2	1	2	0	0	1	3	1	3	1	1	1	1	3	1	1	3	6	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	74474063	C	A	74474063	3	1	343	1	0	0	0	0	1	0	0	0	3642	854	30	4	2775	4	CNTN3	3	74474063	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	64290348	74474063	123548367	11	17272											
LAMP3	27074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182871600	182871600	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggtgggcccaggaaccGtggaggcaggtgcagctgtg	8	5	19	9	1	0	0	0	0	0	0	0	2	0	2	2	6	3	3	2	6	2	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	182871600	G	A	182871600	3	1	343	1	0	0	0	0	1	0	0	0	8619	1145	40	1	641	1	LAMP3	3	182871600	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	108397537	182871600	15150830	12	17273											
BCL6	604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	187446848	187446848	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaatcacctgttaacgaTgttattgagccggctggctt	9	13	10	9	2	1	2	1	2	0	0	1	3	1	2	2	2	2	4	2	2	3	4	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		C	187446848	T	C	187446848	3	2	343	1	0	0	0	0	1	0	0	0	1376	1464	51	3	799	3	BCL6	3	187446848	Missense_Mutation	SNP	T	TCGA-BP-5190-01A-01D-1429-08	4575248	187446848	10575582	13	17274											
SCD5	79966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83719638	83719638	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcccggcacggatttctTccttggcgtcgcagaaaggg	7	8	14	12	5	1	1	0	0	1	1	3	3	2	2	2	4	1	2	2	4	1	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		G	83719638	T	G	83719638	3	3	343	1	0	0	0	0	1	0	0	0	13889	1783	62	5	1165	5	SCD5	4	83719638	Missense_Mutation	SNP	T	TCGA-BP-5190-01A-01D-1429-08		83719638	107434638	14	17275											
PLA2G12A	81579	broad.mit.edu;hgsc.bcm.edu	37	chr4	110650931	110650931	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggccatgaggaggagcAggagggtgagcgcggggcgc	8	2	22	9	4	0	2	0	2	0	0	0	5	0	5	1	7	3	1	1	7	0	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		G	110650931	A	G	110650931	3	3	343	1	0	0	0	0	1	0	0	0	11990	188	7	3	550	3	PLA2G12A	4	110650931	Missense_Mutation	SNP	A	TCGA-BP-5190-01A-01D-1429-08	26931293	110650931	80503345	15	17276											
TRPC3	7222	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	122853762	122853762	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtaagcgtagaagtcgtcGtcctgcagctcctgctcaca	8	10	10	13	4	1	1	1	0	0	1	6	1	3	1	2	0	4	5	2	0	3	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	122853762	G	A	122853762	2	1	343	1	0	0	0	0	0	0	0	1	16578	1136	40	1		1	TRPC3	4	122853762	Silent	SNP	G	TCGA-BP-5190-01A-01D-1429-08	12202831	122853762	68300514	16	17277											
PCDHA2	56146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140174870	140174870	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtagcatccacgtggaGgtgatcgtggacaggccgct	9	8	15	9	3	0	1	0	1	0	0	2	4	1	3	2	4	1	3	2	4	2	1	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	140174870	G	A	140174870	2	1	343	1	0	0	0	0	0	0	0	1	11524	991	35	2		2	PCDHA2	5	140174870	Silent	SNP	G	TCGA-BP-5190-01A-01D-1429-08		140174870	40740390	17	17278											
LSM11	134353	broad.mit.edu	37	chr5	157170976	157170976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtccggggcggcgggcgcgGgcgcgggcgggctcggggcg	1	2	26	12	10	0	0	0	0	0	0	2	0	1	0	1	9	0	1	1	9	0	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	157170976	A	A	157170976	3	1	343	1	0	0	0	0	1	0	0	0	9052	1232	43	2	220	2	LSM11	5	157170976	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	16996106	157170976	23744284	18	17279											
CCHCR1	54535	broad.mit.edu;hgsc.bcm.edu	37	chr6	31122472	31122472	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgcagcgaggtctccCgcaggagccggacctcctcc	5	7	12	17	3	2	0	0	0	2	0	5	3	4	2	5	3	4	3	5	3	0	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	31122472	C	T	31122472	3	4	343	1	0	0	0	0	1	0	0	0	2877	652	23	1	2073	1	CCHCR1	6	31122472	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08		31122472	139992595	19	17280											
DST	667	broad.mit.edu	37	chr6	56373344	56373344	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctctgctgcttcttgctGttgttttactactgaaggat	6	18	8	9	0	2	1	0	1	2	0	2	2	2	2	1	1	6	5	1	1	4	7	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		C	56373344	C	C	56373344	3	2	343	1	0	0	0	0	1	0	0	0	4783	1386	48	4	4278	4	DST	6	56373344	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	25250872	56373344	114741723	20	17281											
MLLT4	4301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	168297599	168297599	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccaaagctttaccgccttCagttaagtgttactgaagtt	11	13	8	9	1	1	1	1	1	0	0	1	1	1	1	3	0	4	4	3	0	5	6	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	168297599	C	T	168297599	4	4	343	1	0	0	0	0	0	1	0	0	9629	827	29	2	1302	2	MLLT4	6	168297599	Nonsense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	111924255	168297599	2817468	21	17282											
VPS41	27072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	38803128	38803128	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagaactggatcacctcttGgcaaataaggactaatagcc	14	9	8	10	0	3	1	2	0	1	1	3	3	3	3	2	3	2	1	2	3	5	4	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		C	38803128	G	C	38803128	3	2	343	1	0	0	0	0	1	0	0	0	17209	1348	47	4	1267	4	VPS41	7	38803128	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08		38803128	120335535	22	17283											
AGPAT5	55326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	6614716	6614716	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttatgagtcaccagatcCagaaagaagaaaaagatttc	18	10	7	6	0	1	6	1	1	0	5	3	6	2	6	2	0	0	0	2	0	5	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	6614716	C	T	6614716	3	4	343	1	0	0	0	0	1	0	0	0	390	594	21	2	932	2	AGPAT5	8	6614716	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08		6614716	139749306	23	17284											
EEF1D	1936	hgsc.bcm.edu;ucsc.edu	37	chr8	144672056	144672056	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgcctgctgccgccgtcagGggcttccgcctcatcagcgt	4	8	12	17	5	3	0	3	0	0	0	4	0	4	0	5	2	3	2	5	2	0	1	rs138749465		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	144672056	G	A	144672056	3	1	343	1	0	0	0	0	1	0	0	0	4926	1232	43	2	1779	2	EEF1D	8	144672056	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	138057340	144672056	1691966	24	17285											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	430563	430563	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggatgctgatcacatgcAtcatgttcatgacgctctgc	9	11	10	11	2	4	2	3	2	1	0	4	3	4	3	0	1	3	4	0	1	0	1	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		G	430563	A	G	430563	3	3	343	1	0	0	0	0	1	0	0	0	4529	217	8	3	3083	3	DIP2C	10	430563	Missense_Mutation	SNP	A	TCGA-BP-5190-01A-01D-1429-08		430563	135104184	25	17286											
FUT11	170384	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75533416	75533416	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcttcgagtgtttcgtctgtGactacgaactggctcggctg	5	13	13	10	4	1	1	0	1	1	0	4	3	1	1	0	2	2	4	0	2	2	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		C	75533416	G	C	75533416	3	2	343	1	0	0	0	0	1	0	0	0	6103	1290	45	4	1183	4	FUT11	10	75533416	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	75102853	75533416	60001331	26	17287											
MUC6	4588	broad.mit.edu	37	chr11	1017647	1017647	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggttcctgtactggtGgggttgggggtgatgttggt	2	14	22	3	0	0	1	0	1	0	0	1	1	1	1	1	9	1	4	1	9	1	4	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	1017647	T	T	1017647	2	4	343	1	0	0	0	0	0	0	0	1	9980	1335	47	4		4	MUC6	11	1017647	Silent	SNP	G	TCGA-BP-5190-01A-01D-1429-08		1017647	133988869	27	17288											
RAG2	5897	hgsc.bcm.edu	37	chr11	36614395	36614396	+	Frame_Shift_Ins	INS	-	-	G																															tgagagcagtagatcatggcINSgggtttgttgagctcagttg																								novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		G	36614396	-	G	36614395	7	5	343	1	0	1	1	0	0	0	0	0	13007	768	27	0	263	0	RAG2	11	36614395	Frame_Shift_Ins	INS	-	TCGA-BP-5190-01A-01D-1429-08	35596748	36614395	98392121	28	17289											
CD6	923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60785461	60785461	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcccccaaacttggagctgGccggcacccagccagccttt	8	6	10	17	1	0	0	0	0	0	0	0	1	0	1	6	3	5	2	6	3	1	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	60785461	G	A	60785461	3	1	343	1	0	0	0	0	1	0	0	0	3028	1203	42	2	1855	2	CD6	11	60785461	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	24171066	60785461	74221055	29	17290											
ARID2	196528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	46245701	46245701	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaacgtaaaattgaagtCatggagaacccgtcctgccg	13	8	10	10	3	1	3	1	2	0	1	2	4	2	3	3	1	3	1	3	1	5	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	46245701	C	A	46245701	2	1	343	1	0	0	0	0	0	0	0	1	915	813	29	4		4	ARID2	12	46245701	Silent	SNP	C	TCGA-BP-5190-01A-01D-1429-08		46245701	87606194	30	17291											
KSR2	283455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	118020150	118020150	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatctgcggggaccagcgtgGcactgacagtgtgtctacag	8	8	15	10	2	2	1	0	1	2	0	2	3	2	2	1	3	3	1	1	3	1	1	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		C	118020150	G	C	118020150	3	2	343	1	0	0	0	0	1	0	0	0	8582	1203	42	4	1726	4	KSR2	12	118020150	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08	71774449	118020150	15831745	31	17292											
POSTN	10631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	38154095	38154095	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtgtcaggagctctttCaagtctgcagcttcaagtag	8	13	12	8	0	5	0	3	0	2	0	5	1	5	1	0	2	3	5	0	2	3	4	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	38154095	C	A	38154095	3	1	343	1	0	0	0	0	1	0	0	0	12259	825	29	4	995	4	POSTN	13	38154095	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08		38154095	77015783	32	17293											
GAS6	2621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	114549554	114549554	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacggagacccatacttgtTgatgcagtctgcaggaagaa	12	9	12	8	1	1	3	0	1	1	2	1	5	1	4	1	2	4	4	1	2	4	4	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		G	114549554	T	G	114549554	3	3	343	1	0	0	0	0	1	0	0	0	6249	1812	63	5	1795	5	GAS6	13	114549554	Missense_Mutation	SNP	T	TCGA-BP-5190-01A-01D-1429-08	76395459	114549554	620324	33	17294											
OR4M2	390538	broad.mit.edu;hgsc.bcm.edu	37	chr15	22369272	22369272	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaactttcaggctcaggtGagaataccaacagggccatg	14	7	11	9	0	2	2	2	1	0	2	2	3	2	2	2	3	3	1	2	3	4	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	22369272	G	T	22369272	4	4	343	1	0	0	0	0	0	1	0	0	11076	1291	45	4	699	4	OR4M2	15	22369272	Nonsense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08		22369272	80162120	34	17295											
MINK1	50488	broad.mit.edu;hgsc.bcm.edu	37	chr17	4794820	4794820	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccgatcccagtccctgcagGaccagcccacccgaaacctg	9	4	8	20	2	0	0	0	0	0	0	2	3	2	1	7	1	3	1	7	1	1	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	4794820	G	A	4794820	3	1	343	1	0	0	0	0	1	0	0	0	9587	1174	41	2	1611	2	MINK1	17	4794820	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08		4794820	76400390	35	17296											
ELAC2	60528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	12920219	12920219	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaccagtgcattcgtgtcagGaatatgttgtccaggcgagc	9	10	13	9	2	1	0	1	0	0	0	3	3	2	1	2	2	2	2	2	2	2	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	12920219	G	A	12920219	2	1	343	1	0	0	0	0	0	0	0	1	5047	1165	41	2		2	ELAC2	17	12920219	Silent	SNP	G	TCGA-BP-5190-01A-01D-1429-08	8125399	12920219	68274991	36	17297											
KRT27	342574	broad.mit.edu;ucsc.edu	37	chr17	38933946	38933946	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagctgtgcacagtagttActctcggtctctgtcaagga	8	11	11	11	1	3	0	1	0	2	0	5	1	3	1	1	2	3	4	1	2	3	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	38933946	T	T	38933946	3	4	343	1	0	0	0	0	1	0	0	0	8464	388	14	5	380	5	KRT27	17	38933946	Missense_Mutation	SNP	A	TCGA-BP-5190-01A-01D-1429-08	26013727	38933946	42261264	37	17298											
ARL16	339231	hgsc.bcm.edu	37	chr17	79650800	79650800	+	Frame_Shift_Del	DEL	C	C	-																															acattccgtgcttcgctccaCccggcacccgtagctcggcg																								novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		-	79650800	C	-	79650800	7	5	343	1	0	1	0	1	0	0	0	0	932	507	18	0	557	0	ARL16	17	79650800	Frame_Shift_Del	DEL	C	TCGA-BP-5190-01A-01D-1429-08	40716854	79650800	1544410	38	17299											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9009312	9009312	+	Missense_Mutation	SNP	G	G	A																															agtacagagggccgacactgGagttcttgaacaagggacca																								novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	9009312	G	A	9009312	3	1	343	1	0	0	0	0	1	0	0	0	9973	1174	41	2	4542	2	MUC16	19	9009312	Missense_Mutation	SNP	G	TCGA-BP-5190-01A-01D-1429-08		9009312	50119671	39	17300	237	2									
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9009313	9009313	+	Missense_Mutation	SNP	A	A	T																															gtacagagggccgacactggAgttcttgaacaagggaccaa																								novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	9009313	A	T	9009313	3	4	343	1	0	0	0	0	1	0	0	0	9973	304	11	5	4543	5	MUC16	19	9009313	Missense_Mutation	SNP	A	TCGA-BP-5190-01A-01D-1429-08	1	9009313	50119670	40	17301	237	2									
PEPD	5184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	33902626	33902626	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgttgggagctccggcgtgtCcgtagtgtagcacggctgag	5	9	17	10	5	0	1	0	1	0	0	2	2	2	2	2	3	2	6	2	3	2	3	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	33902626	C	A	33902626	3	1	343	1	0	0	0	0	1	0	0	0	11728	855	30	4	731	4	PEPD	19	33902626	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	24893313	33902626	25226357	41	17302											
MLL4	9757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36219945	36219945	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacccccgtcagtgtgcaCtctgcctcaaatacggggat	9	8	11	13	2	3	0	2	0	1	0	3	2	3	2	3	3	3	1	3	3	2	1	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	36219945	C	T	36219945	3	4	343	1	0	0	0	0	1	0	0	0	9623	565	20	2	4829	2	MLL4	19	36219945	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	2317319	36219945	22909038	42	17303											
TMEM149	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36231433	36231433	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgttacgaaatcgccgtggtCattgagtccgcagttttccc	7	12	10	12	5	1	1	1	1	0	0	4	2	3	1	3	1	1	3	3	1	2	4	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		T	36231433	C	T	36231433	3	4	343	1	0	0	0	0	1	0	0	0	16061	826	29	2	889	2	TMEM149	19	36231433	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	11488	36231433	22897550	43	17304											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53228204	53228204	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgcagagatcattgatgTgggaaaggcagacaaggccg	13	7	14	7	1	1	3	1	1	0	2	1	5	1	4	1	3	1	2	1	3	2	2	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		G	53228204	T	G	53228204	3	3	343	1	0	0	0	0	1	0	0	0	8135	1696	59	5	2630	5	KDM5C	23	53228204	Missense_Mutation	SNP	T	TCGA-BP-5190-01A-01D-1429-08		53228204	102042356	44	17305											
MAGEE2	139599	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	75004670	75004670	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacgtctggactgctcgtCgatcaggacctccaggtcat	9	9	10	13	3	3	0	2	0	1	0	6	3	4	2	2	3	2	1	2	3	1	0	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	75004670	C	A	75004670	3	1	343	1	0	0	0	0	1	0	0	0	9186	884	31	4	1358	4	MAGEE2	23	75004670	Missense_Mutation	SNP	C	TCGA-BP-5190-01A-01D-1429-08	21776466	75004670	80265890	45	17306											
HCFC1	3054	broad.mit.edu	37	chrX	153236256	153236256	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggggctgcagaagcacCgctggcaagttggcgggcga	8	4	18	11	4	0	1	0	0	0	1	0	2	0	1	1	5	3	6	1	5	2	1	novel		TCGA-BP-5190-01A-01D-1429-08	TCGA-BP-5190-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5491645b-552c-47a9-b081-e8e508d1df3d	d2f881a8-f629-40a3-a179-3f8749a51d48		A	153236256	A	A	153236256	2	1	343	1	0	0	0	0	0	0	0	1	6991	639	23	4		4	HCFC1	23	153236256	Silent	SNP	C	TCGA-BP-5190-01A-01D-1429-08	78231586	153236256	2034304	46	17307											
APITD1	378708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10502399	10502399	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagaagaaaaagaagtcAgaggatggaagcaaaaattc	21	4	11	5	0	1	4	1	0	0	4	2	6	1	6	0	2	1	2	0	2	7	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	10502399	A	G	10502399	2	3	344	1	0	0	0	0	0	0	0	1	775	175	7	3		3	APITD1	1	10502399	Silent	SNP	A	TCGA-BP-5191-01A-01D-1429-08		10502399	238748222	1	17308											
UBIAD1	29914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11345987	11345987	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgccctacctggtcttCagcatcctggccacacactg	6	11	7	17	0	2	0	1	0	1	0	4	0	4	0	5	2	3	1	5	2	1	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	11345987	C	A	11345987	3	1	344	1	0	0	0	0	1	0	0	0	16884	825	29	4	822	4	UBIAD1	1	11345987	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	843588	11345987	237904634	2	17309											
ZBTB40	9923	hgsc.bcm.edu;ucsc.edu	37	chr1	22850736	22850737	+	Frame_Shift_Ins	INS	-	-	T																															agccattccggtgcttgtacINStgtgctgctactttccgttt																								novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	22850737	-	T	22850736	7	5	344	1	0	1	1	0	0	0	0	0	17541	576	20	0	3386	0	ZBTB40	1	22850736	Frame_Shift_Ins	INS	-	TCGA-BP-5191-01A-01D-1429-08	11504749	22850736	226399885	3	17310											
YY1AP1	55249	broad.mit.edu;hgsc.bcm.edu	37	chr1	155630682	155630682	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccatgtgccgcagttctTcctggatggatggcagactg	7	10	13	11	1	1	1	0	0	1	1	2	3	2	3	3	3	2	3	3	3	0	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	155630682	T	A	155630682	4	1	344	1	0	0	0	0	0	1	0	0	17507	1783	62	5	1237	5	YY1AP1	1	155630682	Nonsense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08	132779946	155630682	93619939	4	17311											
EPRS	2058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220213565	220213565	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttcccttcttcaacGgaaatgctgacatcgtcttt	7	17	5	12	2	4	1	1	1	3	0	7	2	5	2	1	1	2	1	1	1	2	5	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	220213565	G	A	220213565	2	1	344	1	0	0	0	0	0	0	0	1	5191	1103	39	1		1	EPRS	1	220213565	Silent	SNP	G	TCGA-BP-5191-01A-01D-1429-08	64582883	220213565	29037056	5	17312											
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235918806	235918806	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggccaatatgtcgaccaaAgaacatttcgatgaagcatt	16	9	8	8	2	0	2	0	1	0	1	2	4	0	2	2	1	2	1	2	1	6	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	235918806	A	C	235918806	3	2	344	1	0	0	0	0	1	0	0	0	9128	72	3	5	4320	5	LYST	1	235918806	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08	15705241	235918806	13331815	6	17313											
EPAS1	2034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	46587819	46587819	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagacatgtccacagagcGggacttcttcatgaggatga	13	8	11	9	1	2	4	1	2	1	2	3	6	3	6	1	2	1	0	1	2	1	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	46587819	G	T	46587819	3	4	344	1	0	0	0	0	1	0	0	0	5150	1116	39	4	515	4	EPAS1	2	46587819	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08		46587819	196611554	7	17314											
UPP2	151531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158971713	158971713	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaagacataaaagacaTctgtgctgggacagacagat	17	7	11	6	0	1	6	0	1	1	5	1	7	1	7	0	1	1	1	0	1	4	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	158971713	T	C	158971713	3	2	344	1	0	0	0	0	1	0	0	0	17012	1435	50	3	470	3	UPP2	2	158971713	Missense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08	112383894	158971713	84227660	8	17315											
SCN2A	6326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	166170262	166170262	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagacttctgggaaaacctTtatcaactggtgagaacaga	15	9	9	8	0	2	3	1	1	1	3	2	5	2	4	1	2	3	0	1	2	6	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	166170262	T	G	166170262	2	3	344	1	0	0	0	0	0	0	0	1	13918	1828	64	5		5	SCN2A	2	166170262	Silent	SNP	T	TCGA-BP-5191-01A-01D-1429-08	7198549	166170262	77029111	9	17316											
CCDC150	284992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197511118	197511118	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttctccaacccacatcaaCgctacagcttctgaaacatt	12	11	3	15	1	3	1	1	1	2	0	4	1	3	1	2	0	5	2	2	0	4	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	197511118	C	A	197511118	3	1	344	1	0	0	0	0	1	0	0	0	2785	535	19	4	72	4	CCDC150	2	197511118	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	31340856	197511118	45688255	10	17317											
GLB1	2720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33114174	33114174	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggaaggagtcccggctaTagtcaatttcaaacatcctc	12	10	9	10	1	2	1	2	1	0	0	5	3	4	3	2	3	1	1	2	3	5	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	33114174	T	C	33114174	3	2	344	1	0	0	0	0	1	0	0	0	6427	1406	49	3	1986	3	GLB1	3	33114174	Missense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08		33114174	164908256	11	17318											
PRKCD	5580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53220309	53220309	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgggtgctgacacttgccGcagagaatccctttctcacc	8	9	10	14	2	1	2	1	1	1	1	3	3	2	2	3	1	3	2	3	1	1	2	rs150331740		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	53220309	G	A	53220309	3	1	344	1	0	0	0	0	1	0	0	0	12511	1087	38	1	1255	1	PRKCD	3	53220309	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	20106135	53220309	144802121	12	17319											
PLXND1	23129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	129324730	129324730	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaggtcgaaggtgaagagCttggccaggtcgccgcgcgt	7	8	17	9	5	0	3	0	2	0	1	2	4	0	3	2	4	1	1	2	4	2	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	129324730	C	A	129324730	3	1	344	1	0	0	0	0	1	0	0	0	12127	796	28	4	5168	4	PLXND1	3	129324730	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	76104421	129324730	68697700	13	17320											
DGKQ	1609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	954842	954842	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctcaccccacataccttagGgccagcagctgagatgatca	11	7	8	15	0	2	2	2	2	0	1	2	3	2	2	5	1	3	2	5	1	2	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	954842	G	C	954842	3	2	344	1	0	0	0	0	1	0	0	0	4473	1232	43	4	114	4	DGKQ	4	954842	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08		954842	190199434	14	17321											
CTBP1	1487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1206792	1206792	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatggtccttgttgacacAgttcttcaggctgtctggga	7	13	12	9	0	3	2	1	1	2	1	4	3	4	3	1	3	0	3	1	3	0	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	1206792	A	C	1206792	3	2	344	1	0	0	0	0	1	0	0	0	3997	188	7	5	282	5	CTBP1	4	1206792	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08	251950	1206792	189947484	15	17322											
DNAH5	1767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	13753411	13753411	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgtggatcaattaacaaAgggtaacgagatgccttcgt	12	11	11	7	2	2	1	1	0	1	1	3	3	2	2	1	2	3	1	1	2	4	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	13753411	A	T	13753411	2	4	344	1	0	0	0	0	0	0	0	1	4604	59	3	5		5	DNAH5	5	13753411	Silent	SNP	A	TCGA-BP-5191-01A-01D-1429-08		13753411	167161849	16	17323											
EGFLAM	133584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	38427321	38427321	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggggccacgtggagttccGctttgactgtggctctggga	5	10	17	9	2	1	1	0	1	1	0	2	3	2	3	2	5	0	3	2	5	0	2	rs144065923	bycluster;byfrequency;by1000genomes	TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	38427321	G	A	38427321	3	1	344	1	0	0	0	0	1	0	0	0	4966	1087	38	1	2089	1	EGFLAM	5	38427321	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	24673910	38427321	142487939	17	17324											
TRPC7	57113	broad.mit.edu	37	chr5	135561876	135561879	+	Frame_Shift_Del	DEL	CTTC	-	-																															taaaaggagcaggtagagttCttccttcatcaaagtaagac																								novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	CTTC	CTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		-	135561879	-	-	135561876	7	5	344	1	0	1	0	1	0	0	0	0	16583	913	32	0	496	0	TRPC7	5	135561876	Frame_Shift_Del	DEL	CTTC	TCGA-BP-5191-01A-01D-1429-08	97134555	135561876	45353384	18	17325											
SLC35B2	347734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44222678	44222678	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcccaatggtgtaaaagAtgaagagctggccacatgcg	13	7	12	9	1	0	3	0	1	0	2	0	3	0	3	2	2	3	2	2	2	4	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	44222678	A	G	44222678	3	3	344	1	0	0	0	0	1	0	0	0	14578	333	12	3	238	3	SLC35B2	6	44222678	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08		44222678	126892389	19	17326											
C6orf70	55780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	170162545	170162545	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctgactgcgccatatTgttgctgacacaactggaga	9	12	11	9	1	0	3	0	2	0	1	0	4	0	3	1	1	4	4	1	1	2	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	170162545	T	A	170162545	4	1	344	1	0	0	0	0	0	1	0	0	2370	1821	63	5	912	5	C6orf70	6	170162545	Nonsense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08	125939867	170162545	952522	20	17327											
CCDC146	57639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	76912017	76912017	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaaaatgaagattgctgAgaagcaaagacaaatttgtg	17	9	10	5	0	0	5	0	3	0	3	0	6	0	5	1	0	2	2	1	0	6	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	76912017	A	T	76912017	3	4	344	1	0	0	0	0	1	0	0	0	2780	304	11	5	2117	5	CCDC146	7	76912017	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08		76912017	82226646	21	17328											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82595361	82595361	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttttgcctctgggagtAgctttttgtcttcaggggtt	4	19	12	6	0	3	0	1	0	2	0	3	1	3	1	1	3	2	4	1	3	1	7	rs61995907	by1000genomes	TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	82595361	A	G	82595361	3	3	344	1	0	0	0	0	1	0	0	0	11583	420	15	3	11790	3	PCLO	7	82595361	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08	5683344	82595361	76543302	22	17329											
AKAP9	10142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91712684	91712684	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacagatgggactctgaaGatcagtagcagcaatcagac	15	6	11	9	0	3	5	2	1	1	4	3	6	3	6	0	1	2	3	0	1	3	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	91712684	G	T	91712684	3	4	344	1	0	0	0	0	1	0	0	0	459	933	33	4	8491	4	AKAP9	7	91712684	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	9117323	91712684	67425979	23	17330											
DECR1	1666	broad.mit.edu;hgsc.bcm.edu	37	chr8	91013753	91013753	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagggttttctttactctGgggtcccggctgccctgtgg	2	13	14	12	1	2	0	0	0	2	0	3	0	3	0	3	5	2	2	3	5	1	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	91013753	G	A	91013753	2	1	344	1	0	0	0	0	0	0	0	1	4382	1335	47	2		2	DECR1	8	91013753	Silent	SNP	G	TCGA-BP-5191-01A-01D-1429-08		91013753	55350269	24	17331											
TRPM6	140803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	77442693	77442693	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcccctgtgatactcaCggcagtgtattttctgcaga	8	12	10	11	1	2	3	1	2	1	1	2	3	2	3	2	1	3	3	2	1	2	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	77442693	C	T	77442693	5	4	344	1	0	0	0	0	0	0	1	0	16589	550	19	1	5358	1	TRPM6	9	77442693	Splice_Site	SNP	C	TCGA-BP-5191-01A-01D-1429-08		77442693	63770738	25	17332											
FAM22G	441457	broad.mit.edu;hgsc.bcm.edu	37	chr9	99700276	99700276	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggaggaaggactcacccTtgcccaggtagagcagcaga	12	4	14	11	0	1	2	1	0	0	2	1	5	1	5	2	4	3	4	2	4	2	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	99700276	T	A	99700276	3	1	344	1	0	0	0	0	1	0	0	0	5546	1609	56	5	1455	5	FAM22G	9	99700276	Missense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08	22257583	99700276	41513155	26	17333											
PHYHIPL	84457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	60994152	60994152	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatataacgtgtgactcAttcaagatttcatgggaaat	15	12	8	6	1	3	2	3	1	0	1	3	3	3	3	0	1	2	1	0	1	5	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	60994152	A	C	60994152	2	2	344	1	0	0	0	0	0	0	0	1	11867	204	8	5		5	PHYHIPL	10	60994152	Silent	SNP	A	TCGA-BP-5191-01A-01D-1429-08		60994152	74540595	27	17334											
KIF11	3832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	94397051	94397051	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catattttcaagacttcattGacagtggccgataaggtaac	13	12	8	8	1	2	2	2	1	0	1	2	3	2	2	1	2	1	1	1	2	4	7	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	94397051	G	C	94397051	3	2	344	1	0	0	0	0	1	0	0	0	8272	1281	45	4	2044	4	KIF11	10	94397051	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	33402899	94397051	41137696	28	17335											
ANKRD2	26287	broad.mit.edu;hgsc.bcm.edu	37	chr10	99343409	99343409	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggagcatcctgagccggGggctgagcataacgggctgg	7	6	17	11	2	0	2	0	2	0	0	1	3	1	3	3	5	4	4	3	5	1	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	99343409	G	C	99343409	3	2	344	1	0	0	0	0	1	0	0	0	647	1232	43	4	1044	4	ANKRD2	10	99343409	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	4946358	99343409	36191338	29	17336											
TACC2	10579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123845033	123845033	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttggaagaaggcagccaGcatgaagaagcatgtcaaag	15	5	13	8	0	1	3	1	1	0	2	1	4	1	4	2	2	3	3	2	2	5	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	123845033	G	A	123845033	2	1	344	1	0	0	0	0	0	0	0	1	15501	962	34	2		2	TACC2	10	123845033	Silent	SNP	G	TCGA-BP-5191-01A-01D-1429-08	24501624	123845033	11689714	30	17337											
NLRP6	171389	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	281628	281628	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacgagacgcaggaggacGcgtttgtgcgccaagccctg	8	7	15	11	5	0	1	0	0	0	1	0	4	0	3	2	2	3	3	2	2	2	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	281628	G	A	281628	3	1	344	1	0	0	0	0	1	0	0	0	10481	1087	38	1	1908	1	NLRP6	11	281628	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08		281628	134724888	31	17338											
INCENP	3619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61897770	61897770	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggtctgcgtctaagctCaggattgcgcaggtctcccc	5	9	14	13	3	4	0	1	0	3	0	5	1	4	1	2	4	3	2	2	4	1	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	61897770	C	A	61897770	2	1	344	1	0	0	0	0	0	0	0	1	7733	813	29	4		4	INCENP	11	61897770	Silent	SNP	C	TCGA-BP-5191-01A-01D-1429-08	61616142	61897770	73108746	32	17339											
MTMR2	8898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	95581057	95581057	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcactttcataacctccacCctttgcctggaaaaaagcac	12	11	4	14	0	2	0	2	0	0	0	3	1	3	1	4	1	3	1	4	1	4	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	95581057	C	G	95581057	3	3	344	1	0	0	0	0	1	0	0	0	9944	623	22	4	955	4	MTMR2	11	95581057	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	33683287	95581057	39425459	33	17340											
IL23A	51561	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56733621	56733621	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcagccaactcctgcaGgtatgaagtaggggcgtgga	9	7	15	10	1	1	1	1	1	0	0	2	2	2	2	3	5	3	3	3	5	4	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	56733621	G	T	56733621	3	4	344	1	0	0	0	0	1	0	0	0	7675	1014	35	4	418	4	IL23A	12	56733621	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08		56733621	77118274	34	17341											
LRP1	4035	hgsc.bcm.edu;ucsc.edu	37	chr12	57550598	57550598	+	Frame_Shift_Del	DEL	C	C	-																															aaaacgaccagtatgggaagCcgggtggctgctctgacatc																								novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		-	57550598	C	-	57550598	7	5	344	1	0	1	0	1	0	0	0	0	8951	739	26	0	1494	0	LRP1	12	57550598	Frame_Shift_Del	DEL	C	TCGA-BP-5191-01A-01D-1429-08	816977	57550598	76301297	35	17342											
C12orf34	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110205829	110205829	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccacaggcgaggcggtggCcagcgccatgcattcctccc	6	6	12	17	3	0	0	0	0	0	0	3	1	3	0	5	4	2	1	5	4	0	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	110205829	C	T	110205829	3	4	344	1	0	0	0	0	1	0	0	0	1681	739	26	2	101	2	C12orf34	12	110205829	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	52655231	110205829	23646066	36	17343											
FAM179B	23116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45468576	45468576	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcttcaaaaggtactactggGactcatcaaacaaatctttc	14	12	5	10	0	5	0	3	0	2	0	6	1	5	1	0	2	3	1	0	2	6	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	45468576	G	A	45468576	2	1	344	1	0	0	0	0	0	0	0	1	5506	1161	41	2		2	FAM179B	14	45468576	Silent	SNP	G	TCGA-BP-5191-01A-01D-1429-08		45468576	61880964	37	17344											
PRPF39	55015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45571777	45571777	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaacagatttccgttcTgacagactgtgggaaatgta	12	10	12	7	1	1	3	0	1	1	2	2	5	2	5	1	2	1	3	1	2	3	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	45571777	T	C	45571777	2	2	344	1	0	0	0	0	0	0	0	1	12571	1567	55	3		3	PRPF39	14	45571777	Silent	SNP	T	TCGA-BP-5191-01A-01D-1429-08	103201	45571777	61777763	38	17345											
SPTB	6710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	65253682	65253682	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gatggcggccacgtcacgctCcagccctgacaacttcctct	7	8	9	17	3	2	1	1	1	1	0	4	2	4	1	4	2	2	1	4	2	1	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	65253682	C	G	65253682	3	3	344	1	0	0	0	0	1	0	0	0	15119	864	30	4	4138	4	SPTB	14	65253682	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	19681905	65253682	42095858	39	17346											
SPTB	6710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	65253739	65253739	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgccaggtcccgccccaggtCttttgtggactccactacct	5	11	9	16	1	1	0	0	0	1	0	3	1	3	1	6	3	2	0	6	3	1	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	65253739	C	G	65253739	3	3	344	1	0	0	0	0	1	0	0	0	15119	913	32	4	4195	4	SPTB	14	65253739	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	57	65253739	42095801	40	17347											
RBM25	58517	broad.mit.edu	37	chr14	73570019	73570019	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgagaacgggaacgagaaagGgaaagagaacgtgaacgaga	19	1	16	5	5	0	5	0	1	0	4	0	11	0	7	0	2	4	0	0	2	6	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	73570019	T	T	73570019	3	4	344	1	0	0	0	0	1	0	0	0	13127	1223	43	4	1021	4	RBM25	14	73570019	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	8316280	73570019	33779521	41	17348											
TTC8	123016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	89307274	89307274	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcctagccaggccgttaggTatgtacttctgcttcataac	8	12	10	11	1	2	0	1	0	1	0	2	0	2	0	3	3	4	4	3	3	5	7	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	89307274	T	C	89307274	5	2	344	1	0	0	0	0	0	0	1	0	16713	1652	57	3	345	3	TTC8	14	89307274	Splice_Site	SNP	T	TCGA-BP-5191-01A-01D-1429-08	15737255	89307274	18042266	42	17349											
TTC7B	145567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	91110479	91110479	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctgacagcaggagggcaAggaggtgcagggagttggca	10	5	20	6	0	0	1	0	1	0	0	0	4	0	4	0	6	3	6	0	6	1	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	91110479	A	T	91110479	3	4	344	1	0	0	0	0	1	0	0	0	16712	72	3	5	891	5	TTC7B	14	91110479	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08	1803205	91110479	16239061	43	17350											
GNB5	10681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52476835	52476835	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttgaaacatttgtcacaTgagccaaatacattaacgag	15	12	7	7	1	1	2	1	2	0	0	1	3	1	2	1	0	4	1	1	0	4	4	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		G	52476835	T	G	52476835	2	3	344	1	0	0	0	0	0	0	0	1	6521	1451	51	5		5	GNB5	15	52476835	Silent	SNP	T	TCGA-BP-5191-01A-01D-1429-08		52476835	50054557	44	17351											
GGA2	23062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	23494281	23494281	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagtggtgtcactcgccaaCcggaacagcgtgggccgcag	8	6	14	13	4	2	0	2	0	0	0	3	1	2	1	3	3	3	1	3	3	2	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	23494281	C	A	23494281	2	1	344	1	0	0	0	0	0	0	0	1	6353	494	18	4		4	GGA2	16	23494281	Silent	SNP	C	TCGA-BP-5191-01A-01D-1429-08		23494281	66860472	45	17352											
IL4R	3566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27375116	27375116	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaaaatcgtgaactttGtctccgtgggacccacatac	10	9	7	15	2	1	1	0	1	1	0	3	2	1	2	4	1	2	0	4	1	4	2	rs147700319	bycluster;by1000genomes;alternate_allele	TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	27375116	G	T	27375116	3	4	344	1	0	0	0	0	1	0	0	0	7698	1377	48	4	2495	4	IL4R	16	27375116	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	3880835	27375116	62979637	46	17353											
XPO6	23214	broad.mit.edu;ucsc.edu	37	chr16	28181115	28181115	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacctggtccagtagcagcTtccgcaactcctccttccga	7	9	8	17	2	0	0	0	0	0	0	5	1	5	0	6	1	3	5	6	1	2	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	28181115	C	C	28181115	3	2	344	1	0	0	0	0	1	0	0	0	17447	1609	56	3	2936	3	XPO6	16	28181115	Missense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08	805999	28181115	62173638	47	17354											
CLEC18B	497190	broad.mit.edu	37	chr16	74455087	74455087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcagctggggtggccacaCctctgcccaggtggtgccaa	6	7	14	14	0	1	0	0	0	1	0	1	0	1	0	4	5	4	2	4	5	1	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	74455087	T	T	74455087	3	4	344	1	0	0	0	0	1	0	0	0	3503	507	18	2	1337	2	CLEC18B	16	74455087	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	46273972	74455087	15899666	48	17355											
UNC13D	201294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73835999	73835999	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcctggggactcagcgAcccgtcccaggaggtgcttc	6	6	15	14	2	1	0	1	0	0	0	3	3	2	2	3	5	3	2	3	5	0	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	73835999	A	C	73835999	3	2	344	1	0	0	0	0	1	0	0	0	16986	275	10	5	2380	5	UNC13D	17	73835999	Missense_Mutation	SNP	A	TCGA-BP-5191-01A-01D-1429-08		73835999	7359211	49	17356											
MKNK2	2872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2041090	2041090	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcactcagcctctgcttGgcgtcacggaccagcagctt	6	8	12	15	3	3	0	2	0	1	0	3	1	3	1	2	3	4	4	2	3	0	2	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	2041090	G	T	2041090	2	4	344	1	0	0	0	0	0	0	0	1	9605	1335	47	4		4	MKNK2	19	2041090	Silent	SNP	G	TCGA-BP-5191-01A-01D-1429-08		2041090	57087893	50	17357											
LMNB2	84823	hgsc.bcm.edu	37	chr19	2444467	2444467	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcagccgggcacgctcTcgagccgtctcatccaggac	7	7	11	16	4	3	0	1	0	3	0	6	2	4	1	3	2	3	3	3	2	0	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	2444467	T	A	2444467	2	1	344	1	0	0	0	0	0	0	0	1	8850	1538	54	5		5	LMNB2	19	2444467	Silent	SNP	T	TCGA-BP-5191-01A-01D-1429-08	403377	2444467	56684516	51	17358											
CHAF1A	10036	broad.mit.edu;hgsc.bcm.edu	37	chr19	4430546	4430546	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttttttttctccttttgagGatgatgatgacgacatggga	8	18	10	5	1	1	4	0	4	1	0	2	7	1	6	1	2	0	0	1	2	0	6	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	4430546	G	T	4430546	3	4	344	1	0	0	0	0	1	0	0	0	3311	1188	41	4	1897	4	CHAF1A	19	4430546	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	1986079	4430546	54698437	52	17359											
TICAM1	148022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4817858	4817858	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgtcaatggggcgtgggaGgctcctggtcccagagggca	7	6	17	11	2	1	1	1	0	0	1	3	2	3	2	3	6	0	2	3	6	1	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	4817858	G	T	4817858	3	4	344	1	0	0	0	0	1	0	0	0	15891	1000	35	4	1610	4	TICAM1	19	4817858	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	387312	4817858	54311125	53	17360											
NCAN	1463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19329806	19329806	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgcaggctgcgctggcGgagctggtggccctgccctg	3	8	17	13	2	1	0	1	0	0	0	1	1	1	1	2	5	4	4	2	5	0	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	19329806	G	A	19329806	2	1	344	1	0	0	0	0	0	0	0	1	10204	1103	39	1		1	NCAN	19	19329806	Silent	SNP	G	TCGA-BP-5191-01A-01D-1429-08	14511948	19329806	39799177	54	17361											
PSENEN	55851	broad.mit.edu;ucsc.edu	37	chr19	36237651	36237651	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcttctgggtgatagTgctcacctcctggatcacca	6	13	8	14	0	4	1	2	1	2	0	6	2	6	2	4	2	1	1	4	2	1	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	36237651	C	C	36237651	3	2	344	1	0	0	0	0	1	0	0	0	12654	1696	59	3	219	3	PSENEN	19	36237651	Missense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08	16907845	36237651	22891332	55	17362											
ZNF223	7766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44571333	44571333	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaacaaaaaaaccacaGtggagaaaatccatccaaat	22	4	5	10	0	0	2	0	0	0	2	2	3	2	2	4	1	2	0	4	1	7	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	44571333	G	C	44571333	3	2	344	1	0	0	0	0	1	0	0	0	17776	1029	36	4	1366	4	ZNF223	19	44571333	Missense_Mutation	SNP	G	TCGA-BP-5191-01A-01D-1429-08	8333682	44571333	14557650	56	17363											
KLK8	11202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51503868	51503868	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagggagagggttggatcgCcaccctctggggcagtgcga	7	6	19	9	2	1	1	0	0	1	1	2	5	1	3	2	6	1	2	2	6	0	1	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	51503868	C	T	51503868	4	4	344	1	0	0	0	0	0	1	0	0	8410	740	26	2	756	2	KLK8	19	51503868	Nonsense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	6932535	51503868	7625115	57	17364											
CSRP2BP	57325	broad.mit.edu;hgsc.bcm.edu	37	chr20	18123411	18123411	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaagtggagggagagaCgctcctgatcgtcgaatccg	10	7	16	8	4	0	3	0	2	0	1	4	7	2	5	2	3	0	1	2	3	2	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	18123411	C	T	18123411	3	4	344	1	0	0	0	0	1	0	0	0	3968	536	19	1	109	1	CSRP2BP	20	18123411	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08		18123411	44902109	58	17365											
SALL4	57167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	50408862	50408862	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatcctcactcgccacctCgtcattccctgggtggttca	5	13	7	16	2	4	0	4	0	0	0	8	0	6	0	4	2	0	1	4	2	0	3	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	50408862	C	T	50408862	3	4	344	1	0	0	0	0	1	0	0	0	13815	893	31	1	3013	1	SALL4	20	50408862	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08	32285451	50408862	12616658	59	17366											
TSHZ2	128553	hgsc.bcm.edu;ucsc.edu	37	chr20	51870779	51870779	+	Frame_Shift_Del	DEL	G	G	-																															ctattcaaagcccaggaaaaGggctttccaggatatggaca																								novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		-	51870779	G	-	51870779	7	5	344	1	0	1	0	1	0	0	0	0	16623	1000	35	0	788	0	TSHZ2	20	51870779	Frame_Shift_Del	DEL	G	TCGA-BP-5191-01A-01D-1429-08	1461917	51870779	11154741	60	17367											
LIPI	149998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	15481370	15481370	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacacttcctctctgtcttTaagtacaatattatacctgc	12	15	3	11	0	2	0	0	0	2	0	4	0	3	0	2	0	4	1	2	0	7	7	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		C	15481370	T	C	15481370	3	2	344	1	0	0	0	0	1	0	0	0	8825	1763	61	3	59	3	LIPI	21	15481370	Missense_Mutation	SNP	T	TCGA-BP-5191-01A-01D-1429-08		15481370	32648525	61	17368											
KRTAP10-9	386676	hgsc.bcm.edu	37	chr21	46047394	46047394	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggcctgctgcgtgccCgtctgctgcaagcctgtgtg	4	9	14	14	2	1	0	0	0	1	0	1	0	1	0	3	1	7	4	3	1	1	0	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	46047394	C	A	46047394	2	1	344	1	0	0	0	0	0	0	0	1	8516	639	23	4		4	KRTAP10-9	21	46047394	Silent	SNP	C	TCGA-BP-5191-01A-01D-1429-08	30566024	46047394	2082501	62	17369											
TRIOBP	11078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38119680	38119680	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcttttcctacttgtactCcccagcgggaaaaccccagg	8	11	7	15	1	1	0	0	0	1	0	3	1	3	1	5	2	4	1	5	2	4	6	novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		A	38119680	C	A	38119680	3	1	344	1	0	0	0	0	1	0	0	0	16552	855	30	4	1135	4	TRIOBP	22	38119680	Missense_Mutation	SNP	C	TCGA-BP-5191-01A-01D-1429-08		38119680	13184886	63	17370											
XRCC6	2547	broad.mit.edu;hgsc.bcm.edu	37	chr22	42054277	42054277	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgacagctttgagaacccCgtgctgcagcagcacttcag	10	8	11	12	1	1	2	1	2	0	1	1	3	1	2	2	0	6	5	2	0	1	2	rs139850731		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		T	42054277	C	T	42054277	2	4	344	1	0	0	0	0	0	0	0	1	17456	639	23	1		1	XRCC6	22	42054277	Silent	SNP	C	TCGA-BP-5191-01A-01D-1429-08	3934597	42054277	9250289	64	17371											
ZFX	7543	hgsc.bcm.edu;ucsc.edu	37	chrX	24197441	24197458	+	In_Frame_Del	DEL	TTATTGAGGACGTTGTTA	TTATTGAGGACGTTGTTA	-																															ttcagttgtaatccaagatgTtattgaggacgttgttatag																								novel		TCGA-BP-5191-01A-01D-1429-08	TCGA-BP-5191-11A-01D-1429-08	TTATTGAGGACGTTGTTA	TTATTGAGGACGTTGTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	64dd8a08-483e-4dce-90b0-64a751fdbebd	326c2936-1793-4fca-bf83-30d569ebcc07		-	24197458	TTATTGAGGACGTTGTTA	-	24197441	7	5	344	1	0	1	0	1	0	0	0	0	17660	1725	60	0	206	0	ZFX	23	24197441	In_Frame_Del	DEL	TTATTGAGGACGTTGTTA	TCGA-BP-5191-01A-01D-1429-08		24197441	131073119	65	17372											
KIF17	57576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20998503	20998503	+	Missense_Mutation	SNP	A	A	G																															gttatcttcgtcccagcaggActcacgcagaatcttctcca																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	20998503	A	G	20998503	3	3	345	1	0	0	0	0	1	0	0	0	8279	275	10	3	455	3	KIF17	1	20998503	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		20998503	228252118	1	17373	238	2									
KIF17	57576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20998504	20998504	+	Silent	SNP	C	C	T																															ttatcttcgtcccagcaggaCtcacgcagaatcttctccag																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	20998504	C	T	20998504	2	4	345	1	0	0	0	0	0	0	0	1	8279	564	20	2		2	KIF17	1	20998504	Silent	SNP	C	TCGA-BP-5192-01A-01D-1429-08	1	20998504	228252117	2	17374	238	2									
RUNX3	864	broad.mit.edu;hgsc.bcm.edu	37	chr1	25256188	25256188	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcgtggtccgccagcaCgtccaccatcgagcgcacct	6	6	11	18	5	0	0	0	0	0	0	3	1	2	0	6	1	3	2	6	1	0	0	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	25256188	C	G	25256188	3	3	345	1	0	0	0	0	1	0	0	0	13751	536	19	4	1095	4	RUNX3	1	25256188	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	4257684	25256188	223994433	3	17375											
KCND3	3752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	112319724	112319724	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgctgcgcaggcgagtagCtggcaggttagaattgggca	9	8	16	8	2	0	1	0	0	0	1	0	2	0	1	0	4	3	7	0	4	3	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	112319724	C	T	112319724	3	4	345	1	0	0	0	0	1	0	0	0	8020	797	28	2	285	2	KCND3	1	112319724	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	87063536	112319724	136930897	4	17376											
PLEKHA6	22874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204230552	204230552	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctcggcactgaagaagtAggtgcggaccccggcatgct	8	7	14	12	3	1	2	0	1	1	1	2	3	1	3	2	4	2	5	2	4	3	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		C	204230552	A	C	204230552	3	2	345	1	0	0	0	0	1	0	0	0	12060	420	15	5	2804	5	PLEKHA6	1	204230552	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08	91910828	204230552	45020069	5	17377											
TMEM81	388730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205053016	205053016	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcatatttaaacttcaCaaagtgggagttggcttgaa	13	12	10	6	0	1	2	1	2	0	0	1	3	1	3	0	2	2	3	0	2	5	6	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	205053016	C	A	205053016	3	1	345	1	0	0	0	0	1	0	0	0	16204	478	17	4	338	4	TMEM81	1	205053016	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	822464	205053016	44197605	6	17378											
R3HDM1	23518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	136402959	136402959	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttttcaggtcagcccttCataaacccagatgggagtcc	11	11	8	11	0	3	1	3	0	0	1	4	2	4	2	3	2	2	0	3	2	3	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	136402959	C	T	136402959	2	4	345	1	0	0	0	0	0	0	0	1	12889	825	29	2		2	R3HDM1	2	136402959	Silent	SNP	C	TCGA-BP-5192-01A-01D-1429-08		136402959	106796414	7	17379											
DUSP19	142679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	183960371	183960371	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataagtgtgacagaatacaGgagaacagttcatgagttgc	16	9	11	5	0	1	4	1	2	0	2	1	5	1	4	0	1	3	2	0	1	5	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	183960371	G	A	183960371	2	1	345	1	0	0	0	0	0	0	0	1	4818	991	35	2		2	DUSP19	2	183960371	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08	47557412	183960371	59239002	8	17380											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228883287	228883287	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattcagtggcttttgtccaAgcttgactagcacccggatc	8	12	10	11	1	1	1	1	1	0	0	3	3	2	2	2	2	2	3	2	2	2	5	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	228883287	A	G	228883287	2	3	345	1	0	0	0	0	0	0	0	1	15049	59	3	3		3	SPHKAP	2	228883287	Silent	SNP	A	TCGA-BP-5192-01A-01D-1429-08	44922916	228883287	14316086	9	17381											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191508	10191511	+	Frame_Shift_Del	DEL	GAGC	GAGC	-																															cgatgcctccaggttgtccgGagcctagtcaagcctgagaa																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	GAGC	GAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	10191511	GAGC	-	10191508	7	5	345	1	0	1	0	1	0	0	0	0	17161	1161	41	0	511	0	VHL	3	10191508	Frame_Shift_Del	DEL	GAGC	TCGA-BP-5192-01A-01D-1429-08		10191508	187830922	10	17382											
PLCL2	23228	hgsc.bcm.edu	37	chr3	17052987	17052988	+	Frame_Shift_Ins	INS	-	-	G																															gatggacctgaatattggctINSggtttaggcagaacggaaac																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	17052988	-	G	17052987	7	5	345	1	0	1	1	0	0	0	0	0	12040	1580	55	0	2149	0	PLCL2	3	17052987	Frame_Shift_Ins	INS	-	TCGA-BP-5192-01A-01D-1429-08	6861479	17052987	180969443	11	17383											
PRSS50	29122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	46754550	46754550	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaatggtccggaactgaggCcacatgcctgtgggacaggg	9	7	16	9	1	0	2	0	2	0	0	1	4	1	4	3	5	2	0	3	5	2	0	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	46754550	C	T	46754550	4	4	345	1	0	0	0	0	0	1	0	0	12633	740	26	2	403	2	PRSS50	3	46754550	Nonsense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	29701563	46754550	151267880	12	17384											
DNAJB11	51726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186299170	186299170	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttcctaggtagttagaaAcaaacctgtggcaaggcagg	13	8	11	9	0	0	1	0	0	0	1	1	1	1	1	2	4	2	4	2	4	6	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		C	186299170	A	C	186299170	3	2	345	1	0	0	0	0	1	0	0	0	4616	43	2	5	485	5	DNAJB11	3	186299170	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08	139544620	186299170	11723260	13	17385											
RFC1	5981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39308288	39308288	+	Missense_Mutation	SNP	C	C	A																															acgctgctttaaaactagagCcatcatctttgccggaaaat																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	39308288	C	A	39308288	3	1	345	1	0	0	0	0	1	0	0	0	13246	739	26	4	1572	4	RFC1	4	39308288	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08		39308288	151845988	14	17386	239	2									
RFC1	5981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39308289	39308289	+	Missense_Mutation	SNP	C	C	A																															cgctgctttaaaactagagcCatcatctttgccggaaaatt																								rs1135544	alternate_allele	TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	39308289	C	A	39308289	3	1	345	1	0	0	0	0	1	0	0	0	13246	594	21	4	1573	4	RFC1	4	39308289	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	1	39308289	151845987	15	17387	239	2									
KDR	3791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	55979581	55979581	+	Frame_Shift_Del	DEL	A	A	-																															catctatagttaaggtgctcAaaaatttcttcatctcactc																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	A	-	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	55979581	A	-	55979581	7	5	345	1	0	1	0	1	0	0	0	0	8139	131	5	0	3300	0	KDR	4	55979581	Frame_Shift_Del	DEL	A	TCGA-BP-5192-01A-01D-1429-08	16671292	55979581	135174695	16	17388											
ANKRD17	26057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	74005971	74005971	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctggctgtttgctggcaAatggctgctggacttttgtt	5	16	12	8	0	0	0	0	0	0	0	1	1	1	1	1	4	2	7	1	4	1	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	74005971	A	T	74005971	3	4	345	1	0	0	0	0	1	0	0	0	646	11	1	5	5529	5	ANKRD17	4	74005971	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08	18026390	74005971	117148305	17	17389											
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	126411497	126411497	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcctttgtgggctgtgcctgCcatcgtgggcagctgcgcaa	4	10	15	12	2	0	0	0	0	0	0	1	0	0	0	3	2	4	4	3	2	1	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	126411497	C	T	126411497	3	4	345	1	0	0	0	0	1	0	0	0	5692	739	26	2	13586	2	FAT4	4	126411497	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	52405526	126411497	64742779	18	17390											
CDC25C	995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137665253	137665253	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccctaccagtttcatcaAggtctgcagaagtggtaagc	10	11	9	11	0	4	1	2	0	2	1	5	1	4	1	2	2	3	3	2	2	4	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	137665253	A	T	137665253	3	4	345	1	0	0	0	0	1	0	0	0	3064	72	3	5	1191	5	CDC25C	5	137665253	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		137665253	43250007	19	17391											
PSD2	84249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139193067	139193067	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcgaggcccccctcacacCcctcatccagcagcgggccc	6	5	8	22	2	2	0	2	0	0	0	4	1	3	0	7	2	2	1	7	2	0	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	139193067	C	T	139193067	3	4	345	1	0	0	0	0	1	0	0	0	12649	623	22	2	551	2	PSD2	5	139193067	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	1527814	139193067	41722193	20	17392											
PCDHA12	56137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140255065	140255065	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattttctgcaatggtgaTtatcggaccaagaggcccgg	9	11	11	10	2	2	2	1	1	1	1	3	3	2	3	2	4	1	1	2	4	3	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	140255065	T	A	140255065	3	1	345	1	0	0	0	0	1	0	0	0	11522	1493	52	5	10	5	PCDHA12	5	140255065	Missense_Mutation	SNP	T	TCGA-BP-5192-01A-01D-1429-08	1061998	140255065	40660195	21	17393											
PPARGC1B	133522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149216300	149216300	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagagaccatgagatccGtgccagcctcaccaaacact	12	6	9	14	1	1	3	1	2	0	2	2	5	2	3	5	0	3	1	5	0	1	0	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	149216300	G	A	149216300	3	1	345	1	0	0	0	0	1	0	0	0	12301	1145	40	1	2319	1	PPARGC1B	5	149216300	Missense_Mutation	SNP	G	TCGA-BP-5192-01A-01D-1429-08	8961235	149216300	31698960	22	17394											
PHACTR1	221692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	13283726	13283726	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttcagtgactacgtggagGtggctgacgctcaggactat	8	10	14	9	2	2	2	2	2	0	0	2	4	2	4	0	4	1	3	0	4	2	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		C	13283726	G	C	13283726	3	2	345	1	0	0	0	0	1	0	0	0	11809	1261	44	4	1624	4	PHACTR1	6	13283726	Missense_Mutation	SNP	G	TCGA-BP-5192-01A-01D-1429-08		13283726	157831341	23	17395											
HLA-DRA	3122	broad.mit.edu;hgsc.bcm.edu	37	chr6	32410977	32410978	+	Frame_Shift_Del	DEL	CT	CT	-																															cccagtacctccagaggtaaCtgtgctcacaaacagccctg																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	32410978	CT	-	32410977	7	5	345	1	0	1	0	1	0	0	0	0	7207	565	20	0	354	0	HLA-DRA	6	32410977	Frame_Shift_Del	DEL	CT	TCGA-BP-5192-01A-01D-1429-08	19127251	32410977	138704090	24	17396											
MRPL14	64928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44081767	44081767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtgccccacaatgagcGcctttttcttctgtcccttg	5	14	8	14	1	2	1	0	1	2	0	3	1	3	1	4	0	3	1	4	0	1	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	44081767	G	A	44081767	3	1	345	1	0	0	0	0	1	0	0	0	9779	1087	38	1	190	1	MRPL14	6	44081767	Missense_Mutation	SNP	G	TCGA-BP-5192-01A-01D-1429-08	11670790	44081767	127033300	25	17397											
CSMD1	64478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	3566004	3566004	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgacttcaactcaatcGcctttttcactggaagaaac	11	13	5	12	1	4	2	3	1	1	1	5	3	4	3	1	1	2	0	1	1	4	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	3566004	G	A	3566004	3	1	345	1	0	0	0	0	1	0	0	0	3944	1087	38	1	9822	1	CSMD1	8	3566004	Missense_Mutation	SNP	G	TCGA-BP-5192-01A-01D-1429-08		3566004	142798018	26	17398											
WHSC1L1	54904	hgsc.bcm.edu;ucsc.edu	37	chr8	38139060	38139060	+	Frame_Shift_Del	DEL	T	T	-																															attcgcaatctgcattcttcTtcatcaattaattcaccgac																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	38139060	T	-	38139060	7	5	345	1	0	1	0	1	0	0	0	0	17362	1606	56	0	790	0	WHSC1L1	8	38139060	Frame_Shift_Del	DEL	T	TCGA-BP-5192-01A-01D-1429-08	34573056	38139060	108224962	27	17399											
KCNB2	9312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	73480522	73480522	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgtgggacttgctggagAaacctaactcatcagtggct	11	10	11	9	0	2	1	2	0	0	1	2	3	2	2	1	3	4	2	1	3	3	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	73480522	A	G	73480522	3	3	345	1	0	0	0	0	1	0	0	0	8013	247	9	3	555	3	KCNB2	8	73480522	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08	35341462	73480522	72883500	28	17400											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113347652	113347652	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagactgattccaaagcGgtattgccactgaactgacc	11	10	9	11	1	0	4	0	3	0	1	1	4	1	4	3	1	3	2	3	1	4	4	rs113449703	alternate_allele	TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	113347652	G	T	113347652	2	4	345	1	0	0	0	0	0	0	0	1	3946	1103	39	4		4	CSMD3	8	113347652	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08	39867130	113347652	33016370	29	17401											
LRRC24	441381	broad.mit.edu;hgsc.bcm.edu	37	chr8	145748563	145748563	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccggaggcttggcaggCaacccgcaggtcctcaccca	8	5	13	15	2	1	0	1	0	0	0	2	1	2	1	4	5	2	5	4	5	2	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	145748563	C	G	145748563	3	3	345	1	0	0	0	0	1	0	0	0	8979	710	25	4	707	4	LRRC24	8	145748563	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	32400911	145748563	615459	30	17402											
NPR2	4882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35808676	35808678	+	In_Frame_Del	DEL	TAC	TAC	-																															aggctacgcataggggtccaTactggtaaggctgactctca																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	TAC	TAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	35808678	TAC	-	35808676	7	5	345	1	0	1	0	1	0	0	0	0	10595	1403	49	0	2957	0	NPR2	9	35808676	In_Frame_Del	DEL	TAC	TCGA-BP-5192-01A-01D-1429-08		35808676	105404755	31	17403											
BICD2	23299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95491475	95491475	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcccggctctctccgTcagcagccaccttcttgtgg	3	12	8	18	2	4	0	1	0	3	0	8	0	6	0	5	2	2	2	5	2	0	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	95491475	T	A	95491475	3	1	345	1	0	0	0	0	1	0	0	0	1429	1667	58	5	2317	5	BICD2	9	95491475	Missense_Mutation	SNP	T	TCGA-BP-5192-01A-01D-1429-08	59682799	95491475	45721956	32	17404											
STXBP1	6812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130413898	130413898	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagagattatgcatgatgtGataaagaaggtcaagaagaa	18	10	11	2	0	1	6	1	2	0	4	1	7	1	6	0	1	1	1	0	1	8	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	130413898	G	T	130413898	2	4	345	1	0	0	0	0	0	0	0	1	15353	1277	45	4		4	STXBP1	9	130413898	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08	34922423	130413898	10799533	33	17405											
CAMSAP1	157922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138713812	138713812	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgccgacagcgcctccaTcttcttcttctgggcctcga	4	12	8	17	3	4	0	0	0	4	0	6	2	5	0	5	1	2	0	5	1	0	4	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	138713812	T	G	138713812	3	3	345	1	0	0	0	0	1	0	0	0	2611	1435	50	5	2141	5	CAMSAP1	9	138713812	Missense_Mutation	SNP	T	TCGA-BP-5192-01A-01D-1429-08	8299914	138713812	2499619	34	17406											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61830794	61830794	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttgcagattgacttcaAtcatgtcaacctctttttct	9	17	4	11	0	6	2	3	1	3	1	6	2	6	2	1	0	2	1	1	0	2	5	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	61830794	A	G	61830794	3	3	345	1	0	0	0	0	1	0	0	0	622	101	4	3	3629	3	ANK3	10	61830794	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		61830794	73703953	35	17407											
COL17A1	1308	hgsc.bcm.edu;ucsc.edu	37	chr10	105815678	105815683	+	In_Frame_Del	DEL	CCATGC	CCATGC	-																															gcggtccttttctattctatCcatgctgtccccatagggca																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	CCATGC	CCATGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	105815683	CCATGC	-	105815678	7	5	345	1	0	1	0	1	0	0	0	0	3674	855	30	0	3100	0	COL17A1	10	105815678	In_Frame_Del	DEL	CCATGC	TCGA-BP-5192-01A-01D-1429-08	43984884	105815678	29719069	36	17408											
TECTB	6975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	114046095	114046095	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagtggccactgttcacgtGaagaacgggagcatgggcac	11	6	15	9	2	1	3	1	1	0	2	1	4	1	4	1	3	2	3	1	3	2	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	114046095	G	A	114046095	2	1	345	1	0	0	0	0	0	0	0	1	15747	1277	45	2		2	TECTB	10	114046095	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08	8230417	114046095	21488652	37	17409											
GPR26	2849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	125426346	125426346	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaccttcccagccgccgcGctcgccctgtcctggctcgg	2	8	10	21	5	1	0	1	0	0	0	5	0	3	0	6	2	1	2	6	2	0	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	125426346	G	A	125426346	2	1	345	1	0	0	0	0	0	0	0	1	6684	1074	38	1		1	GPR26	10	125426346	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08	11380251	125426346	10108401	38	17410											
PTPRJ	5795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	48152101	48152101	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgatgcagaatcatttcAgatgcatatcacacaggagg	14	9	9	9	0	3	3	3	1	0	2	3	4	3	4	1	2	2	2	1	2	2	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	48152101	A	G	48152101	3	3	345	1	0	0	0	0	1	0	0	0	12806	188	7	3	1478	3	PTPRJ	11	48152101	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		48152101	86854415	39	17411											
DDB1	1642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61070127	61070127	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctcacccagattctgcatTaccagagagccgtggcaaaa	12	8	9	12	1	2	2	1	0	2	2	3	3	2	2	3	1	3	2	3	1	3	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		C	61070127	T	C	61070127	2	2	345	1	0	0	0	0	0	0	0	1	4323	1741	61	3		3	DDB1	11	61070127	Silent	SNP	T	TCGA-BP-5192-01A-01D-1429-08	12918026	61070127	73936389	40	17412											
RACGAP1	29127	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50384068	50384068	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcacttgagcattggagAagcaaaaaagttgccttgtc	13	11	9	8	0	1	2	1	1	0	1	2	3	1	2	1	1	3	3	1	1	4	5	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	50384068	A	G	50384068	3	3	345	1	0	0	0	0	1	0	0	0	12979	246	9	3	20	3	RACGAP1	12	50384068	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		50384068	83467827	41	17413											
TENC1	23371	hgsc.bcm.edu;ucsc.edu	37	chr12	53453522	53453531	+	Frame_Shift_Del	DEL	GCCTACAGCA	GCCTACAGCA	-																															tgcgaggagaagctggcgctGcctacagcagccttgtatgg																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	GCCTACAGCA	GCCTACAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	53453531	GCCTACAGCA	-	53453522	7	5	345	1	0	1	0	1	0	0	0	0	15757	1306	46	0	2276	0	TENC1	12	53453522	Frame_Shift_Del	DEL	GCCTACAGCA	TCGA-BP-5192-01A-01D-1429-08	3069454	53453522	80398373	42	17414											
KLC1	3831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	104123884	104123884	+	Frame_Shift_Del	DEL	T	T	-																															cacgtttctgtctgctcaggTtatgatggctttgtcaaatc																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	104123884	T	-	104123884	7	5	345	1	0	1	0	1	0	0	0	0	8333	1739	60	0	269	0	KLC1	14	104123884	Frame_Shift_Del	DEL	T	TCGA-BP-5192-01A-01D-1429-08		104123884	3225656	43	17415											
DISP2	85455	broad.mit.edu	37	chr15	40660395	40660395	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtctgctcttccagcgcctGctgccctgcggcgtcatcaa	4	10	10	17	4	4	0	2	0	2	0	5	0	5	0	3	1	5	2	3	1	1	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	40660395	A	A	40660395	2	1	345	1	0	0	0	0	0	0	0	1	4540	1306	46	2		2	DISP2	15	40660395	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08		40660395	61870997	44	17416											
ZNF280D	54816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56993407	56993407	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctttagtccccttgaatAtgagctggggttaactctgt	8	16	9	8	0	2	2	0	2	2	0	3	2	3	2	2	2	2	2	2	2	4	6	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	56993407	A	G	56993407	3	3	345	1	0	0	0	0	1	0	0	0	17816	449	16	3	2902	3	ZNF280D	15	56993407	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08	16333012	56993407	45537985	45	17417											
MSLNL	401827	broad.mit.edu;hgsc.bcm.edu	37	chr16	823128	823128	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccacagcccagccgtgcaCctgtgcgagcttggccttga	6	7	11	17	2	0	1	0	1	0	0	0	2	0	1	6	1	5	2	6	1	0	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	823128	C	T	823128	5	4	345	1	0	0	0	0	0	0	1	0	9882	521	18	2	1049	2	MSLNL	16	823128	Splice_Site	SNP	C	TCGA-BP-5192-01A-01D-1429-08		823128	89531625	46	17418											
LRRC50	0	broad.mit.edu;hgsc.bcm.edu	37	chr16	84211446	84211446	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagcaccgaaagcatcatAgttttccccagttatatgta	12	11	6	12	1	1	0	1	0	0	0	2	1	2	0	4	0	2	5	4	0	5	6	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	84211446	A	G	84211446	3	3	345	1	0	0	0	0	1	0	0	0	9009	433	15	3	2223	3	LRRC50	16	84211446	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08	83388318	84211446	6143307	47	17419											
ASB16	92591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42249555	42249555	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggtcgcgctgccttgcAtgaggcctgtgcccgagccc	3	7	16	15	4	0	1	0	1	0	0	1	2	0	1	4	3	4	2	4	3	0	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	42249555	A	G	42249555	3	3	345	1	0	0	0	0	1	0	0	0	1020	217	8	3	449	3	ASB16	17	42249555	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		42249555	38945655	48	17420											
C17orf71	0	hgsc.bcm.edu;ucsc.edu	37	chr17	57292183	57292194	+	In_Frame_Del	DEL	ACCATGTCCGGT	ACCATGTCCGGT	-																															caggttcagccaggcccaccAccatgtccggtattctaccc																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	ACCATGTCCGGT	ACCATGTCCGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	57292194	ACCATGTCCGGT	-	57292183	7	5	345	1	0	1	0	1	0	0	0	0	1878	146	6	0	2810	0	C17orf71	17	57292183	In_Frame_Del	DEL	ACCATGTCCGGT	TCGA-BP-5192-01A-01D-1429-08	15042628	57292183	23903027	49	17421											
MYOM1	8736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	3089566	3089566	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccattcttgccgctggaaTtcagcttctttctggagctt	6	16	8	11	1	4	0	1	0	3	0	5	2	5	2	2	2	3	3	2	2	1	6	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		C	3089566	T	C	3089566	2	2	345	1	0	0	0	0	0	0	0	1	10091	1490	52	3		3	MYOM1	18	3089566	Silent	SNP	T	TCGA-BP-5192-01A-01D-1429-08		3089566	74987682	50	17422											
HMHA1	23526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1073241	1073241	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaagtacccgctgctgaAcaccgtggagacgctcaccg	9	6	10	16	4	1	2	1	1	0	1	2	3	2	2	4	1	3	4	4	1	3	1	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	1073241	A	G	1073241	3	3	345	1	0	0	0	0	1	0	0	0	7240	43	2	3	525	3	HMHA1	19	1073241	Missense_Mutation	SNP	A	TCGA-BP-5192-01A-01D-1429-08		1073241	58055742	51	17423											
TMPRSS9	360200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2418067	2418067	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaaaacctgtagtgtgctCtacaacttctccctcacaga	12	10	6	13	0	3	2	1	0	2	2	4	2	3	2	2	0	4	2	2	0	5	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	2418067	C	T	2418067	2	4	345	1	0	0	0	0	0	0	0	1	16252	900	32	2		2	TMPRSS9	19	2418067	Silent	SNP	C	TCGA-BP-5192-01A-01D-1429-08	1344826	2418067	56710916	52	17424											
GNAS	2778	broad.mit.edu	37	chr20	57429540	57429540	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgatcctgactccggggcaaCcccagaagatcccgactccg	9	5	10	17	4	0	3	0	1	0	2	4	5	4	3	6	2	1	1	6	2	2	0	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	C	C	C	C	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	57429540	G	G	57429540	3	3	345	1	0	0	0	0	1	0	0	0	6510	507	18	4	1964	4	GNAS	20	57429540	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08		57429540	5595980	53	17425											
LZTR1	8216	hgsc.bcm.edu	37	chr22	21348927	21348927	+	Frame_Shift_Del	DEL	T	T	-																															tgtgccgcctggagcagctgTgccgccagtacatcgaggcc																								novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		-	21348927	T	-	21348927	7	5	345	1	0	1	0	1	0	0	0	0	9137	1696	59	0	1754	0	LZTR1	22	21348927	Frame_Shift_Del	DEL	T	TCGA-BP-5192-01A-01D-1429-08		21348927	29955639	54	17426											
SHROOM4	57477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50341293	50341293	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttggcctctgaatcgatGctgttcagagcattctccac	7	13	10	11	1	3	2	1	1	2	1	5	3	3	2	2	2	2	4	2	2	1	3	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		A	50341293	G	A	50341293	2	1	345	1	0	0	0	0	0	0	0	1	14298	1310	46	2		2	SHROOM4	23	50341293	Silent	SNP	G	TCGA-BP-5192-01A-01D-1429-08		50341293	104929267	55	17427											
MAGT1	84061	broad.mit.edu;hgsc.bcm.edu	37	chrX	77096799	77096799	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttcacataaaagcaccattCctaaggtaactccaccatct	14	10	3	14	0	2	0	1	0	1	0	4	0	4	0	4	1	2	2	4	1	4	5	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		G	77096799	C	G	77096799	3	3	345	1	0	0	0	0	1	0	0	0	9196	855	30	4	174	4	MAGT1	23	77096799	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	26755506	77096799	78173761	56	17428											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu	37	chrX	107849993	107849993	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaaccaggatttgcattaCctgggccacctgggccacca	9	8	11	13	0	0	1	0	1	0	0	0	2	0	2	6	3	3	1	6	3	2	2	novel		TCGA-BP-5192-01A-01D-1429-08	TCGA-BP-5192-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4db23b76-46dd-4ed9-a168-fee43b2fc7d7	1112896b-009d-48ae-a579-55290043345a		T	107849993	C	T	107849993	3	4	345	1	0	0	0	0	1	0	0	0	3694	507	18	2	2380	2	COL4A5	23	107849993	Missense_Mutation	SNP	C	TCGA-BP-5192-01A-01D-1429-08	30753194	107849993	47420567	57	17429											
HEATR5B	54497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	37255866	37255866	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttacaaagcattagccaatGagaaagtttttctactgcca	14	13	6	8	0	1	1	0	1	1	1	1	2	1	1	2	0	5	2	2	0	6	6	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	37255866	G	A	37255866	3	1	346	1	0	0	0	0	1	0	0	0	7032	1290	45	2	2712	2	HEATR5B	2	37255866	Missense_Mutation	SNP	G	TCGA-BP-5194-01A-02D-1429-08		37255866	205943507	1	17430											
AFF3	3899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	100199360	100199360	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccattaggtcggctggaaGaagttaagtcctcgctggtg	8	11	14	8	2	0	1	0	0	0	1	3	2	1	2	2	4	1	3	2	4	4	2	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	100199360	G	T	100199360	3	4	346	1	0	0	0	0	1	0	0	0	358	942	33	4	1023	4	AFF3	2	100199360	Missense_Mutation	SNP	G	TCGA-BP-5194-01A-02D-1429-08	62943494	100199360	143000013	2	17431											
CCDC148	130940	broad.mit.edu;ucsc.edu	37	chr2	159312934	159312934	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgcaaactcacctggagaAgcagaagctgcacacatgtc	13	6	11	11	0	1	2	1	0	0	2	2	3	1	2	1	2	5	4	1	2	3	0	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	159312934	T	T	159312934	2	4	346	1	0	0	0	0	0	0	0	1	2782	59	3	5		5	CCDC148	2	159312934	Silent	SNP	A	TCGA-BP-5194-01A-02D-1429-08	59113574	159312934	83886439	3	17432											
IL17RE	132014	broad.mit.edu	37	chr3	9957050	9957050	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgggcggcgggcgcgaCgtgatcgtggacctgtggga	4	6	21	10	7	0	1	0	1	0	0	1	4	0	3	1	5	0	1	1	5	0	0	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	9957050	T	T	9957050	2	4	346	1	0	0	0	0	0	0	0	1	7643	535	19	1		1	IL17RE	3	9957050	Silent	SNP	C	TCGA-BP-5194-01A-02D-1429-08		9957050	188065380	4	17433											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191642	10191643	+	Frame_Shift_Del	DEL	GA	-	-																															cattgcacatcaacggatggGagattgaagatttctgttga																								novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		-	10191643	-	-	10191642	7	5	346	1	0	1	0	1	0	0	0	0	17161	1174	41	0	645	0	VHL	3	10191642	Frame_Shift_Del	DEL	GA	TCGA-BP-5194-01A-02D-1429-08	234592	10191642	187830788	5	17434											
C3orf70	285382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184801263	184801263	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcgagactgagatctgAatggtgtttgtgggttcccg	7	12	16	6	2	1	4	0	3	1	2	2	6	2	4	1	2	1	2	1	2	1	2	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		C	184801263	A	C	184801263	3	2	346	1	0	0	0	0	1	0	0	0	2242	242	9	5	471	5	C3orf70	3	184801263	Missense_Mutation	SNP	A	TCGA-BP-5194-01A-02D-1429-08	174609621	184801263	13221167	6	17435											
BRPF3	27154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36198303	36198303	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccagcatccgcaagtcaGtgcaggtggcctatgaccgt	10	7	12	12	2	1	2	1	1	0	1	2	2	2	2	4	2	2	3	4	2	2	1	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	36198303	G	T	36198303	3	4	346	1	0	0	0	0	1	0	0	0	1521	1029	36	4	3581	4	BRPF3	6	36198303	Missense_Mutation	SNP	G	TCGA-BP-5194-01A-02D-1429-08		36198303	134916764	7	17436											
C8orf44	56260	broad.mit.edu	37	chr8	67590120	67590120	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcagatcacctgaggtCaggagttcgaaaccagcctg	11	6	13	11	1	2	2	2	1	0	1	3	4	2	3	3	3	2	3	3	3	1	1	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	67590120	A	A	67590120	2	1	346	1	0	0	0	0	0	0	0	1	2429	813	29	4		4	C8orf44	8	67590120	Silent	SNP	C	TCGA-BP-5194-01A-02D-1429-08		67590120	78773902	8	17437											
WEE1	7465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	9610146	9610146	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtcagccttactatataCtgagctactcctttcccacc	8	14	4	15	0	2	1	1	1	1	0	4	1	4	1	4	0	5	1	4	0	5	6	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	9610146	C	T	9610146	2	4	346	1	0	0	0	0	0	0	0	1	17343	576	20	2		2	WEE1	11	9610146	Silent	SNP	C	TCGA-BP-5194-01A-02D-1429-08		9610146	125396370	9	17438											
MAP3K11	4296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65375920	65375920	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgggctgcagcagcaaaaCtagagaagaggggccagatt	15	5	14	7	0	0	3	0	0	0	3	0	4	0	3	1	3	4	4	1	3	5	2	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	65375920	C	A	65375920	5	1	346	1	0	0	0	0	0	0	1	0	9245	579	20	4	1840	4	MAP3K11	11	65375920	Splice_Site	SNP	C	TCGA-BP-5194-01A-02D-1429-08	55765774	65375920	69630596	10	17439											
KRT2	3849	broad.mit.edu;ucsc.edu	37	chr12	53045802	53045802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccaccatggcggctcaagCaggagaagctggaagttgat	12	6	13	10	1	1	2	1	1	0	1	1	4	1	3	2	4	2	4	2	4	3	1	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	53045802	T	T	53045802	3	4	346	1	0	0	0	0	1	0	0	0	8457	710	25	2	1830	2	KRT2	12	53045802	Missense_Mutation	SNP	C	TCGA-BP-5194-01A-02D-1429-08		53045802	80806093	11	17440											
RNF10	9921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121004766	121004766	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttctcctctcagcagaaGtccaggttcccatgcaggta	9	11	8	13	0	2	1	1	0	2	1	6	1	4	1	3	2	2	4	3	2	2	3	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		C	121004766	G	C	121004766	3	2	346	1	0	0	0	0	1	0	0	0	13424	1029	36	4	2074	4	RNF10	12	121004766	Missense_Mutation	SNP	G	TCGA-BP-5194-01A-02D-1429-08	67958964	121004766	12847129	12	17441											
RGS6	9628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	72925078	72925078	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgatggcaccttttatcGtttccaggtaagcctgctgg	7	13	12	9	1	0	1	0	1	0	0	2	2	1	2	3	4	2	4	3	4	2	4	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	72925078	G	A	72925078	3	1	346	1	0	0	0	0	1	0	0	0	13311	1145	40	1	349	1	RGS6	14	72925078	Missense_Mutation	SNP	G	TCGA-BP-5194-01A-02D-1429-08		72925078	34424462	13	17442											
CCDC88C	440193	broad.mit.edu;hgsc.bcm.edu	37	chr14	91755525	91755525	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggggtgtcggggttctcGgcctgtgatctgagcggctg	2	10	20	9	4	2	2	0	2	2	0	4	2	2	2	1	6	1	2	1	6	0	1	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	91755525	G	A	91755525	2	1	346	1	0	0	0	0	0	0	0	1	2865	1103	39	1		1	CCDC88C	14	91755525	Silent	SNP	G	TCGA-BP-5194-01A-02D-1429-08	18830447	91755525	15594015	14	17443											
SLC28A2	9153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45559673	45559673	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagaggcacctctgctcatCcgtccctaccttggggacat	8	9	9	15	1	2	1	1	0	1	1	4	2	4	2	4	3	2	2	4	3	1	2	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	45559673	C	A	45559673	2	1	346	1	0	0	0	0	0	0	0	1	14534	845	30	4		4	SLC28A2	15	45559673	Silent	SNP	C	TCGA-BP-5194-01A-02D-1429-08		45559673	56971719	15	17444											
SRL	6345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4247843	4247843	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttccagcccaaggaggtaGtttatcatggtagatttacc	10	14	9	8	0	1	1	1	0	0	1	2	2	2	2	3	3	2	3	3	3	5	8	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	4247843	G	A	4247843	2	1	346	1	0	0	0	0	0	0	0	1	15151	1020	36	2		2	SRL	16	4247843	Silent	SNP	G	TCGA-BP-5194-01A-02D-1429-08		4247843	86106910	16	17445											
GGA2	23062	hgsc.bcm.edu;ucsc.edu	37	chr16	23481417	23481417	+	Frame_Shift_Del	DEL	C	C	-																															cctctgggtgcccaggggctCccgtctgggagaagtggagc																								novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		-	23481417	C	-	23481417	7	5	346	1	0	1	0	1	0	0	0	0	6353	855	30	0	333	0	GGA2	16	23481417	Frame_Shift_Del	DEL	C	TCGA-BP-5194-01A-02D-1429-08	19233574	23481417	66873336	17	17446											
VPS35	55737	broad.mit.edu;hgsc.bcm.edu	37	chr16	46717480	46717480	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtatggcttcatccaagagCttttcctgctcatcctgagg	7	14	9	11	0	2	2	2	1	0	1	5	2	5	2	3	2	2	4	3	2	2	4	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		G	46717480	C	G	46717480	3	3	346	1	0	0	0	0	1	0	0	0	17202	796	28	4	2412	4	VPS35	16	46717480	Missense_Mutation	SNP	C	TCGA-BP-5194-01A-02D-1429-08	23236063	46717480	43637273	18	17447											
POLR2C	5432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57503112	57503112	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttctgccccgagtgctcGgtggagttcaccctcgatgt	5	11	13	12	3	2	0	1	0	1	0	4	4	2	1	3	2	2	3	3	2	0	2	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	57503112	G	A	57503112	2	1	346	1	0	0	0	0	0	0	0	1	12216	1103	39	1		1	POLR2C	16	57503112	Silent	SNP	G	TCGA-BP-5194-01A-02D-1429-08	10785632	57503112	32851641	19	17448											
TMEM132E	124842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	32953491	32953491	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctcgcacgtgcccgcctCgcagcccgtggtccaggtgc	3	6	13	19	6	0	0	0	0	0	0	3	0	1	0	5	2	3	3	5	2	0	0	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	32953491	C	T	32953491	3	4	346	1	0	0	0	0	1	0	0	0	16047	893	31	1	419	1	TMEM132E	17	32953491	Missense_Mutation	SNP	C	TCGA-BP-5194-01A-02D-1429-08		32953491	48241719	20	17449											
HOXB1	3211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	46607033	46607033	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaccttcctctcgctcgCgcttcttctgcttcattcgt	2	15	6	18	5	4	0	1	0	3	0	8	1	5	0	3	0	1	3	3	0	0	5	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	46607033	C	T	46607033	3	4	346	1	0	0	0	0	1	0	0	0	7299	768	27	1	127	1	HOXB1	17	46607033	Missense_Mutation	SNP	C	TCGA-BP-5194-01A-02D-1429-08	13653542	46607033	34588177	21	17450											
TBCD	6904	broad.mit.edu	37	chr17	80863900	80863900	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcagaagttgcttacgcCttgtacaaacttgcagccca	10	10	9	12	2	0	1	0	0	0	1	0	1	0	1	2	0	7	5	2	0	4	5	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	80863900	A	A	80863900	2	1	346	1	0	0	0	0	0	0	0	1	15632	668	24	4		4	TBCD	17	80863900	Silent	SNP	C	TCGA-BP-5194-01A-02D-1429-08	34256867	80863900	331310	22	17451											
VN1R2	317701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53762110	53762110	+	Missense_Mutation	SNP	G	G	A																															acattttgacaattattttgGatgcaaatttcttttgtatg																								novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	53762110	G	A	53762110	3	1	346	1	0	0	0	0	1	0	0	0	17178	1174	41	2	484	2	VN1R2	19	53762110	Missense_Mutation	SNP	G	TCGA-BP-5194-01A-02D-1429-08		53762110	5366873	23	17452	240	2									
VN1R2	317701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53762116	53762116	+	Missense_Mutation	SNP	A	A	T																															tgacaattattttggatgcaAatttcttttgtatgcacaca																								novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		T	53762116	A	T	53762116	3	4	346	1	0	0	0	0	1	0	0	0	17178	14	1	5	490	5	VN1R2	19	53762116	Missense_Mutation	SNP	A	TCGA-BP-5194-01A-02D-1429-08	6	53762116	5366867	24	17453	240	2									
LBP	3929	hgsc.bcm.edu	37	chr20	36982823	36982823	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgacgtggaggtggacAtgtcgggagacttggggtag	7	9	19	6	3	0	2	0	1	0	1	2	5	0	4	0	6	0	2	0	6	1	2	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		G	36982823	A	G	36982823	3	3	346	1	0	0	0	0	1	0	0	0	8651	217	8	3	522	3	LBP	20	36982823	Missense_Mutation	SNP	A	TCGA-BP-5194-01A-02D-1429-08		36982823	26042697	25	17454											
CCDC22	28952	broad.mit.edu;hgsc.bcm.edu	37	chrX	49105114	49105114	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaatcttctcgacggctGgcagagatccaagaactgca	11	8	11	11	2	2	2	0	0	2	2	4	5	3	3	1	3	2	3	1	3	3	1	rs138555929	byfrequency	TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	49105114	G	A	49105114	2	1	346	1	0	0	0	0	0	0	0	1	2797	1335	47	2		2	CCDC22	23	49105114	Silent	SNP	G	TCGA-BP-5194-01A-02D-1429-08		49105114	106165446	26	17455											
CXorf66	347487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	139040297	139040297	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagataaagacaaaaaccatGatgataataccaactaaaat	23	7	4	7	0	0	4	0	2	0	2	0	4	0	4	2	0	3	0	2	0	9	4	novel		TCGA-BP-5194-01A-02D-1429-08	TCGA-BP-5194-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b52c97e-fdd2-4ae2-b036-297feeb1c7e2	cc2ef7bc-8810-4162-b19a-65a940beac26		A	139040297	G	A	139040297	2	1	346	1	0	0	0	0	0	0	0	1	4118	1280	45	2		2	CXorf66	23	139040297	Silent	SNP	G	TCGA-BP-5194-01A-02D-1429-08	89935183	139040297	16230263	27	17456											
ANGPTL7	10218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11254587	11254587	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatgaactcaacagctatCgcctcttcctggggaactac	11	9	8	13	1	2	1	1	1	1	0	4	2	3	2	2	2	5	2	2	2	6	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	11254587	C	A	11254587	3	1	347	1	0	0	0	0	1	0	0	0	619	884	31	4	756	4	ANGPTL7	1	11254587	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08		11254587	237996034	1	17457											
PAFAH2	5051	broad.mit.edu;hgsc.bcm.edu	37	chr1	26288568	26288568	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccattgattatagtcttctTtcaggtctgaaaaggaaaaa	14	14	7	6	0	4	2	1	2	3	0	5	3	5	3	1	2	0	0	1	2	6	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	26288568	T	G	26288568	3	3	347	1	0	0	0	0	1	0	0	0	11387	1841	64	5	91	5	PAFAH2	1	26288568	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	15033981	26288568	222962053	2	17458											
WASF2	10163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27739130	27739130	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaaggtgaagaagcagAgtctgactgtggtggtggcg	11	7	19	4	1	1	5	0	2	1	3	1	6	1	5	0	5	1	1	0	5	3	0	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	27739130	A	T	27739130	3	4	347	1	0	0	0	0	1	0	0	0	17252	304	11	5	748	5	WASF2	1	27739130	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08	1450562	27739130	221511491	3	17459											
CHIA	27159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111861178	111861178	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagctcatcgttggattcCctacctatggacacaacttc	11	11	7	12	1	1	1	1	0	0	1	4	3	2	3	2	2	3	2	2	2	4	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	111861178	C	A	111861178	3	1	347	1	0	0	0	0	1	0	0	0	3342	623	22	4	823	4	CHIA	1	111861178	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	84122048	111861178	137389443	4	17460											
ASH1L	55870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155313396	155313396	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggacctcagcacgtactTttcattcttccaaagcttct	10	13	5	13	1	4	0	2	0	2	0	5	1	5	1	2	1	3	3	2	1	2	6	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	155313396	T	C	155313396	3	2	347	1	0	0	0	0	1	0	0	0	1041	1855	64	3	799	3	ASH1L	1	155313396	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	43452218	155313396	93937225	5	17461											
ITSN2	50618	broad.mit.edu;hgsc.bcm.edu	37	chr2	24494732	24494732	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttgtgttttttcttcCtggagtcgcttttgtttttc	1	26	7	7	1	2	0	0	0	2	0	5	1	3	1	1	1	0	3	1	1	0	11	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	24494732	C	G	24494732	3	3	347	1	0	0	0	0	1	0	0	0	7927	680	24	4	3072	4	ITSN2	2	24494732	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08		24494732	218704641	6	17462											
CALM2	805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	47389525	47389525	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcagggaagtcaattgtgCcattacctgaaatggtttag	12	13	10	6	0	2	1	2	1	0	0	2	2	2	2	2	2	2	1	2	2	5	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	47389525	C	T	47389525	3	4	347	1	0	0	0	0	1	0	0	0	2585	739	26	2	276	2	CALM2	2	47389525	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	22894793	47389525	195809848	7	17463											
GYPC	2995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	127453643	127453643	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacggagtttgctgagagTgcagatgcagccctgcaggg	8	7	17	9	1	0	2	0	1	0	2	0	4	0	3	1	3	5	6	1	3	0	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	127453643	T	G	127453643	3	3	347	1	0	0	0	0	1	0	0	0	6910	1693	59	5	326	5	GYPC	2	127453643	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	80064118	127453643	115745730	8	17464											
KCNH7	90134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	163695012	163695012	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tattttgtggtgccacatgcCccctgcgcacaggcatgttg	6	12	11	12	1	0	0	0	0	0	0	0	0	0	0	3	2	3	3	3	2	1	4	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	163695012	C	G	163695012	3	3	347	1	0	0	0	0	1	0	0	0	8037	623	22	4	3703	4	KCNH7	2	163695012	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	36241369	163695012	79504361	9	17465											
SESTD1	91404	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179979860	179979860	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctctcttcagatgctattgTaaattgtttccatactctgt	8	19	5	9	0	4	1	1	0	3	1	6	1	5	1	1	0	2	3	1	0	4	7	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	179979860	T	C	179979860	3	2	347	1	0	0	0	0	1	0	0	0	14129	1638	57	3	331	3	SESTD1	2	179979860	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	16284848	179979860	63219513	10	17466											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10183863	10183863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggccgccgcatccacaGctaccgaggtacgggcccgg	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	10183863	G	A	10183863	3	1	347	1	0	0	0	0	1	0	0	0	17161	971	34	2	334	2	VHL	3	10183863	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08		10183863	187838567	11	17467											
AMBN	258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71469169	71469169	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtacgtgccttttggagcaAatcaattggtaagtccatat	11	14	9	7	1	1	0	1	0	0	0	2	1	2	1	2	2	3	3	2	2	5	6	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	71469169	A	C	71469169	3	2	347	1	0	0	0	0	1	0	0	0	563	14	1	5	787	5	AMBN	4	71469169	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08		71469169	119685107	12	17468											
GPBP1	65056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	56558502	56558502	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttggaccgtggaagaacAgcactttcaaacccacaact	14	8	8	11	1	1	1	1	0	0	1	1	3	1	3	2	2	4	2	2	2	4	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	56558502	A	G	56558502	3	3	347	1	0	0	0	0	1	0	0	0	6595	188	7	3	1408	3	GPBP1	5	56558502	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08		56558502	124356758	13	17469											
C5orf44	80006	broad.mit.edu;hgsc.bcm.edu	37	chr5	64946709	64946709	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaaattcttcaaatttcaGgtattgaatatgacaatggt	16	14	7	4	0	3	3	2	2	1	1	3	3	3	3	0	2	0	1	0	2	7	6	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	64946709	G	C	64946709	3	2	347	1	0	0	0	0	1	0	0	0	2303	1014	35	4	523	4	C5orf44	5	64946709	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	8388207	64946709	115968551	14	17470											
SNRNP48	154007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7594021	7594021	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcacatgcctaaatcatctTtggcaaagcacatggcatct	13	11	6	11	0	4	0	2	0	2	0	4	0	4	0	1	2	2	3	1	2	3	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	7594021	T	A	7594021	3	1	347	1	0	0	0	0	1	0	0	0	14859	1838	64	5	217	5	SNRNP48	6	7594021	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08		7594021	163521046	15	17471											
FHL5	9457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	97052642	97052642	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggatctttgttacaaagAccggcactggcatgaaggat	14	9	11	7	1	1	2	0	1	1	1	1	4	1	4	1	4	1	3	1	4	4	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	97052642	A	T	97052642	3	4	347	1	0	0	0	0	1	0	0	0	5881	275	10	5	182	5	FHL5	6	97052642	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08	89458621	97052642	74062425	16	17472											
ZNF804B	219578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	88963886	88963886	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaattgatccaagaagaTtatcaatatccgaaaccaaa	21	8	4	8	1	1	3	1	1	0	2	3	4	3	3	3	0	1	0	3	0	9	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	88963886	T	G	88963886	3	3	347	1	0	0	0	0	1	0	0	0	18170	1490	52	5	1604	5	ZNF804B	7	88963886	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08		88963886	70174777	17	17473											
MTERF	7978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91503200	91503200	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcttcttcagtacatccaAgagaaaacagcttctctttg	11	13	5	12	0	4	1	1	0	3	1	6	2	5	1	2	0	3	2	2	0	4	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	91503200	A	C	91503200	3	2	347	1	0	0	0	0	1	0	0	0	9918	72	3	5	295	5	MTERF	7	91503200	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08	2539314	91503200	67635463	18	17474											
WRN	7486	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	30977877	30977877	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaggagattggtagagctgGtcgtgatggacttcaaagtt	10	12	14	5	1	2	3	2	1	0	2	3	5	2	4	0	4	1	3	0	4	2	4	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	30977877	G	A	30977877	3	1	347	1	0	0	0	0	1	0	0	0	17401	1261	44	2	2645	2	WRN	8	30977877	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08		30977877	115386145	19	17475											
MTSS1	9788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125568525	125568525	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctctgagcctcctcagctGctgcaggtgggccgctggcg	3	9	15	14	2	2	1	1	1	1	0	4	1	3	1	3	3	4	4	3	3	0	0	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	125568525	G	A	125568525	3	1	347	1	0	0	0	0	1	0	0	0	9962	1319	46	2	927	2	MTSS1	8	125568525	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	94590648	125568525	20795497	20	17476											
GTF3C5	9328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	135926204	135926204	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccccccatctcaggtgagAatctgattggcctgagcaga	10	9	10	12	0	2	4	1	3	2	2	4	5	3	4	4	2	1	1	4	2	1	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	135926204	A	G	135926204	3	3	347	1	0	0	0	0	1	0	0	0	6876	246	9	3	621	3	GTF3C5	9	135926204	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08		135926204	5287227	21	17477											
PITRM1	10531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	3209166	3209166	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctctggccaggtgtaaAtacctggctcctgtgtcatc	6	14	9	12	0	3	0	1	0	2	0	6	0	4	0	3	3	1	2	3	3	3	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	3209166	A	C	3209166	4	2	347	1	0	0	0	0	0	1	0	0	11953	108	4	5	2985	5	PITRM1	10	3209166	Nonsense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08		3209166	132325581	22	17478											
ANKRD30A	91074	broad.mit.edu;hgsc.bcm.edu	37	chr10	37418819	37418819	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagtcctctcactctcgtAggactgctctacactgggcc	9	10	8	14	1	3	0	1	0	3	0	6	1	4	1	2	2	2	2	2	2	4	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	37418819	A	G	37418819	5	3	347	1	0	0	0	0	0	0	1	0	658	434	15	3	58	3	ANKRD30A	10	37418819	Splice_Site	SNP	A	TCGA-BP-5195-01A-02D-1429-08	34209653	37418819	98115928	23	17479											
ATRNL1	26033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	117024695	117024695	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaatggaaaatactaccAaaaccaaatcttcatagaga	20	8	6	7	0	2	2	1	1	1	1	2	5	2	3	2	1	3	0	2	1	9	4	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	117024695	A	G	117024695	2	3	347	1	0	0	0	0	0	0	0	1	1207	117	5	3		3	ATRNL1	10	117024695	Silent	SNP	A	TCGA-BP-5195-01A-02D-1429-08	79605876	117024695	18510052	24	17480											
PNLIP	5406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118318744	118318744	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatcctgggaaaacaaatGatgtgggccagaaattttat	15	11	10	5	0	0	2	0	1	0	1	1	4	1	3	2	2	1	0	2	2	6	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	118318744	G	T	118318744	3	4	347	1	0	0	0	0	1	0	0	0	12149	1290	45	4	1043	4	PNLIP	10	118318744	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	1294049	118318744	17216003	25	17481											
KRTAP5-1	387264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1605898	1605898	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccggagccacaacccccCttggatcccccacaagaacc	11	3	7	20	1	0	1	0	0	0	1	1	3	1	3	8	2	4	0	8	2	3	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	1605898	C	T	1605898	2	4	347	1	0	0	0	0	0	0	0	1	8558	680	24	2		2	KRTAP5-1	11	1605898	Silent	SNP	C	TCGA-BP-5195-01A-02D-1429-08		1605898	133400618	26	17482											
OR52E4	390081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5906001	5906001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttagttcttgtaacccCatttgtgtttctcattctgc	8	19	5	9	0	3	0	1	0	3	0	4	0	3	0	2	0	2	3	2	0	3	8	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	5906001	C	T	5906001	3	4	347	1	0	0	0	0	1	0	0	0	11116	594	21	2	481	2	OR52E4	11	5906001	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	4300103	5906001	129100515	27	17483											
SOX6	55553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	16133398	16133398	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaatccctgttgggcagcAgcagctgctgccagagtccg	8	7	14	12	1	0	1	0	0	0	1	2	2	2	2	3	2	5	6	3	2	1	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	16133398	A	G	16133398	2	3	347	1	0	0	0	0	0	0	0	1	14957	175	7	3		3	SOX6	11	16133398	Silent	SNP	A	TCGA-BP-5195-01A-02D-1429-08	10227397	16133398	118873118	28	17484											
DGKZ	8525	broad.mit.edu;hgsc.bcm.edu	37	chr11	46389268	46389268	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggggacttctgctacgttGgggagcagtactgtgtagcc	6	10	15	10	2	1	0	0	0	1	0	1	2	1	2	2	4	5	5	2	4	3	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	46389268	G	A	46389268	3	1	347	1	0	0	0	0	1	0	0	0	4474	1348	47	2	1358	2	DGKZ	11	46389268	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	30255870	46389268	88617248	29	17485											
OR4A15	81328	broad.mit.edu;hgsc.bcm.edu	37	chr11	55135733	55135733	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccatttcctttcagggttGtatggctcaactttttatgg	7	17	9	8	0	2	0	2	0	0	0	3	1	3	0	2	3	1	3	2	3	3	7	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	55135733	G	C	55135733	3	2	347	1	0	0	0	0	1	0	0	0	11040	1377	48	4	376	4	OR4A15	11	55135733	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	8746465	55135733	79870783	30	17486											
FAT3	120114	broad.mit.edu;ucsc.edu	37	chr11	92532099	92532099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtcaccatcatggttaaaGaagccatggacagcggcctc	11	8	11	11	1	2	1	2	0	0	1	3	2	2	2	3	4	2	1	3	4	3	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	92532099	A	A	92532099	3	1	347	1	0	0	0	0	1	0	0	0	5691	943	33	2	5954	2	FAT3	11	92532099	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	37396366	92532099	42474417	31	17487											
KBTBD3	143879	hgsc.bcm.edu;ucsc.edu	37	chr11	105924485	105924486	+	Frame_Shift_Del	DEL	TA	TA	-																															tttaatgttatagcaaaatgTatattgattttctccatttt																								novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		-	105924486	TA	-	105924485	7	5	347	1	0	1	0	1	0	0	0	0	7994	1638	57	0	911	0	KBTBD3	11	105924485	Frame_Shift_Del	DEL	TA	TCGA-BP-5195-01A-02D-1429-08	13392386	105924485	29082031	32	17488											
HSPA8	3312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	122929405	122929405	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccacagcagagacattgAgtataccattggcatcaatg	13	10	9	9	0	1	2	1	1	0	1	2	3	2	2	2	1	2	3	2	1	3	4	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	122929405	A	G	122929405	3	3	347	1	0	0	0	0	1	0	0	0	7416	304	11	3	495	3	HSPA8	11	122929405	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08	17004920	122929405	12077111	33	17489											
ABCC9	10060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	22069954	22069954	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgatgcagaaacgcaggtTtgatatgtccaagccagact	12	10	11	8	1	0	4	0	2	0	2	1	4	1	4	2	1	3	3	2	1	3	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	22069954	T	C	22069954	3	2	347	1	0	0	0	0	1	0	0	0	59	1841	64	3	4441	3	ABCC9	12	22069954	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08		22069954	111781941	34	17490											
RASSF9	9182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	86199447	86199447	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagcatctgctttaaccAaaacaaattgcatattgggc	16	10	7	8	0	1	0	0	0	1	0	1	1	1	0	1	1	5	3	1	1	7	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	86199447	A	C	86199447	3	2	347	1	0	0	0	0	1	0	0	0	13095	131	5	5	970	5	RASSF9	12	86199447	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08	64129493	86199447	47652448	35	17491											
SBNO1	55206	hgsc.bcm.edu;ucsc.edu	37	chr12	123794374	123794377	+	Frame_Shift_Del	DEL	TATT	TATT	-																															cacctccatgcctaaaattcTatttaagaattttcctatgt																								novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	TATT	TATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		-	123794377	TATT	-	123794374	7	5	347	1	0	1	0	1	0	0	0	0	13864	1530	53	0	884	0	SBNO1	12	123794374	Frame_Shift_Del	DEL	TATT	TCGA-BP-5195-01A-02D-1429-08	37594927	123794374	10057521	36	17492											
TPTE2	93492	broad.mit.edu	37	chr13	20077377	20077377	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactcacctttcattcatacGtgcctctgggttcactcctg	7	14	6	14	1	5	0	4	0	1	0	6	0	6	0	3	1	3	1	3	1	2	4	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	20077377	A	A	20077377	1	1	347	1	0	0	0	0	0	0	0	0	16430	1160	40	1		1	TPTE2	13	20077377	Translation_Start_Site	SNP	G	TCGA-BP-5195-01A-02D-1429-08		20077377	95092501	37	17493											
ZMYM2	7750	broad.mit.edu;ucsc.edu	37	chr13	20601355	20601355	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctaggtttgggaattaTttgccatttttgtaagcgaa	9	18	9	5	1	0	0	0	0	0	0	1	2	1	1	2	2	2	2	2	2	5	8	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	20601355	G	G	20601355	3	3	347	1	0	0	0	0	1	0	0	0	17699	1493	52	5	1774	5	ZMYM2	13	20601355	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	523978	20601355	94568523	38	17494											
FAM123A	0	broad.mit.edu;hgsc.bcm.edu	37	chr13	25745612	25745612	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccggcgtttcggcggcaCagtcacaatgcaagtccatg	8	7	13	13	5	1	0	1	0	0	0	3	0	2	0	2	4	1	3	2	4	2	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	25745612	C	T	25745612	3	4	347	1	0	0	0	0	1	0	0	0	5422	478	17	2	1873	2	FAM123A	13	25745612	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	5144257	25745612	89424266	39	17495											
ATP8A2	51761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	26152975	26152975	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgtgatttttgagagacTttcaaaagactcaaaatata	17	14	6	4	0	2	4	2	2	0	2	2	5	2	4	0	0	0	0	0	0	7	6	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	26152975	T	C	26152975	3	2	347	1	0	0	0	0	1	0	0	0	1193	1609	56	3	1887	3	ATP8A2	13	26152975	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	407363	26152975	89016903	40	17496											
ABCC4	10257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95838971	95838971	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctttttcagagcacaaGcctttatgactttttcatat	10	17	4	10	0	3	2	3	1	0	1	3	2	3	2	2	0	2	1	2	0	3	7	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	95838971	G	A	95838971	3	1	347	1	0	0	0	0	1	0	0	0	55	971	34	2	2581	2	ABCC4	13	95838971	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08	69685996	95838971	19330907	41	17497											
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24878974	24878974	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtttccaaagcacctgcAgcttccaaagcacctgcagc	12	7	7	15	0	0	0	0	0	0	0	2	0	2	0	4	0	6	6	4	0	2	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	24878974	A	T	24878974	2	4	347	1	0	0	0	0	0	0	0	1	10796	175	7	5		5	NYNRIN	14	24878974	Silent	SNP	A	TCGA-BP-5195-01A-02D-1429-08		24878974	82470566	42	17498											
SERPINA9	327657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94936172	94936172	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactccataaaggtaagaTgccattttggaacaaaatat	17	11	7	6	0	0	1	0	0	0	1	1	2	1	2	2	2	3	2	2	2	8	6	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	94936172	T	C	94936172	2	2	347	1	0	0	0	0	0	0	0	1	14097	1451	51	3		3	SERPINA9	14	94936172	Silent	SNP	T	TCGA-BP-5195-01A-02D-1429-08	70057198	94936172	12413368	43	17499											
GANC	2595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42632072	42632072	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccatattggtattctctGttctaccatgcacacgtggc	7	14	8	12	1	2	0	0	0	2	0	3	0	2	0	2	2	3	3	2	2	3	6	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	42632072	G	A	42632072	2	1	347	1	0	0	0	0	0	0	0	1	6234	1364	48	2		2	GANC	15	42632072	Silent	SNP	G	TCGA-BP-5195-01A-02D-1429-08		42632072	59899320	44	17500											
PRSS21	10942	broad.mit.edu;ucsc.edu	37	chr16	2871075	2871075	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttggagacatggtttgtGctggcaatgcccaaggcggg	7	11	15	8	1	1	1	0	0	1	1	1	2	1	1	1	5	2	3	1	5	2	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	2871075	T	T	2871075	3	4	347	1	0	0	0	0	1	0	0	0	12620	1319	46	4	688	4	PRSS21	16	2871075	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08		2871075	87483678	45	17501											
KIAA0430	9665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15719413	15719413	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catttgaactctttgtttcaCagagttctctattttttgga	8	20	6	7	0	3	2	1	1	2	1	4	3	3	3	0	1	1	2	0	1	2	8	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	15719413	C	A	15719413	3	1	347	1	0	0	0	0	1	0	0	0	8177	478	17	4	3542	4	KIAA0430	16	15719413	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	12848338	15719413	74635340	46	17502											
ITGAL	3683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30495241	30495241	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggccactgacagtggcaaCatcgatgcggccaaagacat	13	5	12	11	2	0	2	0	1	0	1	1	4	0	2	2	3	2	1	2	3	2	0	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	30495241	C	G	30495241	3	3	347	1	0	0	0	0	1	0	0	0	7886	477	17	4	846	4	ITGAL	16	30495241	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08	14775828	30495241	59859512	47	17503											
CDH8	1006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	61851421	61851421	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatcagggtcacgagcagtCacttgcccaatcacggagtt	11	9	10	11	2	4	0	4	0	0	0	4	2	4	1	1	2	2	2	1	2	2	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	61851421	C	A	61851421	2	1	347	1	0	0	0	0	0	0	0	1	3116	813	29	4		4	CDH8	16	61851421	Silent	SNP	C	TCGA-BP-5195-01A-02D-1429-08	31356180	61851421	28503332	48	17504											
GOSR1	9527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	28849291	28849291	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcgttttcctgctgtaaaCagcctgatccagaggatcaa	11	11	9	10	1	1	2	1	1	0	1	4	4	3	3	3	1	3	3	3	1	3	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	28849291	C	T	28849291	2	4	347	1	0	0	0	0	0	0	0	1	6577	477	17	2		2	GOSR1	17	28849291	Silent	SNP	C	TCGA-BP-5195-01A-02D-1429-08		28849291	52345919	49	17505											
TAF15	8148	hgsc.bcm.edu	37	chr17	34171624	34171650	+	In_Frame_Del	DEL	AGAAGTGGGGGCGGCTATGGTGGAGAC	AGAAGTGGGGGCGGCTATGGTGGAGAC	-																															gtggtggctacagcggagatAgaagtgggggcggctatggt																								novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	AGAAGTGGGGGCGGCTATGGTGGAGAC	AGAAGTGGGGGCGGCTATGGTGGAGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		-	34171650	AGAAGTGGGGGCGGCTATGGTGGAGAC	-	34171624	7	5	347	1	0	1	0	1	0	0	0	0	15517	412	15	0	1379	0	TAF15	17	34171624	In_Frame_Del	DEL	AGAAGTGGGGGCGGCTATGGTGGAGAC	TCGA-BP-5195-01A-02D-1429-08	5322333	34171624	47023586	50	17506											
AOC2	314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40997546	40997546	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgaggtctcggaactcTccaggtcctcttccccctct	4	12	7	18	1	4	1	0	1	4	0	9	2	7	2	5	3	1	0	5	3	1	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	40997546	T	C	40997546	2	2	347	1	0	0	0	0	0	0	0	1	727	1538	54	3		3	AOC2	17	40997546	Silent	SNP	T	TCGA-BP-5195-01A-02D-1429-08	6825922	40997546	40197664	51	17507											
MEP1B	4225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29775406	29775406	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcattggagaaaagtatAgatggcctcataccattcca	14	10	7	10	0	2	2	2	0	0	2	3	3	3	2	4	2	1	1	4	2	5	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	29775406	A	G	29775406	3	3	347	1	0	0	0	0	1	0	0	0	9476	412	15	3	226	3	MEP1B	18	29775406	Missense_Mutation	SNP	A	TCGA-BP-5195-01A-02D-1429-08		29775406	48301842	52	17508											
BCL2	596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	60985489	60985489	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagttcaccccgtccctgaaGagctcctccaccaccgtggc	7	7	8	19	2	1	2	1	1	0	1	4	2	4	2	7	1	1	2	7	1	1	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	60985489	G	A	60985489	2	1	347	1	0	0	0	0	0	0	0	1	1365	929	33	2		2	BCL2	18	60985489	Silent	SNP	G	TCGA-BP-5195-01A-02D-1429-08	31210083	60985489	17091759	53	17509											
KLHL26	55295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18778755	18778755	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cctggcctcgctgcgagagtCggtggatgccttcaccttcc	4	10	12	15	3	1	1	1	0	0	1	4	3	2	2	5	3	2	1	5	3	0	2	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	18778755	C	G	18778755	3	3	347	1	0	0	0	0	1	0	0	0	8381	893	31	4	558	4	KLHL26	19	18778755	Missense_Mutation	SNP	C	TCGA-BP-5195-01A-02D-1429-08		18778755	40350228	54	17510											
PSG3	5671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43243171	43243171	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaacgtccttccccttggaAactttggttggctcggcttc	6	13	10	12	2	0	1	0	0	0	1	4	2	2	2	3	4	2	3	3	4	2	5	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		T	43243171	A	T	43243171	2	4	347	1	0	0	0	0	0	0	0	1	12658	1	1	5		5	PSG3	19	43243171	Silent	SNP	A	TCGA-BP-5195-01A-02D-1429-08	24464416	43243171	15885812	55	17511											
RSPH6A	81492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46317992	46317992	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctggtagaggttgaacTggcccaaggggttgactggg	7	10	17	7	0	1	3	0	2	1	1	1	3	1	3	1	6	1	3	1	6	3	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		G	46317992	T	G	46317992	3	3	347	1	0	0	0	0	1	0	0	0	13709	1580	55	5	1734	5	RSPH6A	19	46317992	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	3074821	46317992	12810991	56	17512											
ZNF83	55769	broad.mit.edu;hgsc.bcm.edu	37	chr19	53116221	53116221	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttctccagtataaattaTtgtatgtcttacaaggcttt	10	20	5	6	0	2	0	0	0	2	0	3	0	2	0	1	1	1	3	1	1	7	9	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	53116221	T	A	53116221	1	1	347	0	1	0	0	0	0	0	0	0	18182	1508	52	5		5	ZNF83	19	53116221	RNA	SNP	T	TCGA-BP-5195-01A-02D-1429-08	6798229	53116221	6012762	57	17513											
LRRC3	81543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	45876771	45876771	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatctcccacctcccggacGgggccttccagcacctgcac	7	6	9	19	2	1	1	0	0	1	1	4	2	3	2	6	3	2	2	6	3	0	1	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	45876771	G	A	45876771	3	1	347	1	0	0	0	0	1	0	0	0	8984	1116	39	1	246	1	LRRC3	21	45876771	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08		45876771	2253124	58	17514											
MN1	4330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	28192870	28192870	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggcagcgctgtgctctGccatcagcgagtccaggtca	8	7	12	14	2	3	0	2	0	1	0	4	1	4	0	3	2	4	3	3	2	0	0	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		A	28192870	G	A	28192870	3	1	347	1	0	0	0	0	1	0	0	0	9673	1319	46	2	308	2	MN1	22	28192870	Missense_Mutation	SNP	G	TCGA-BP-5195-01A-02D-1429-08		28192870	23111696	59	17515											
MOV10L1	54456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50538014	50538014	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaccacctacttctctcTggagagtgtgtgcgaaggta	9	11	11	10	1	3	2	1	0	2	2	4	4	3	2	2	2	2	1	2	2	3	3	novel		TCGA-BP-5195-01A-02D-1429-08	TCGA-BP-5195-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c2ab2f01-3744-434a-b5b6-0f22599c9a17	0c1904c4-02ca-4be4-8983-4dd9f3b71eaa		C	50538014	T	C	50538014	3	2	347	1	0	0	0	0	1	0	0	0	9719	1580	55	3	476	3	MOV10L1	22	50538014	Missense_Mutation	SNP	T	TCGA-BP-5195-01A-02D-1429-08	22345144	50538014	766552	60	17516											
PRAMEF2	65122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12919829	12919829	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagctggtcaattatctaaCgccaattaaatatctcagaa	16	12	5	8	1	3	1	2	0	2	1	4	1	3	1	1	1	2	1	1	1	9	5	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	12919829	C	T	12919829	3	4	348	1	0	0	0	0	1	0	0	0	12437	536	19	1	575	1	PRAMEF2	1	12919829	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08		12919829	236330792	1	17517											
AIM1L	55057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26664087	26664087	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggggctctggctgtcctCtggctgctgaaggttgtaga	4	12	17	8	0	2	2	0	1	2	1	3	2	3	2	1	5	1	6	1	5	2	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	26664087	C	A	26664087	4	1	348	1	0	0	0	0	0	1	0	0	431	922	32	4	1447	4	AIM1L	1	26664087	Nonsense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08	13744258	26664087	222586534	2	17518											
CGN	57530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151496775	151496775	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagacccaggtgatggagCtgcagaacaagctgaaacat	14	6	13	8	0	0	4	0	2	0	2	0	6	0	5	1	3	5	3	1	3	3	0	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	151496775	C	T	151496775	2	4	348	1	0	0	0	0	0	0	0	1	3303	796	28	2		2	CGN	1	151496775	Silent	SNP	C	TCGA-BP-5196-01A-01D-1429-08	124832688	151496775	97753846	3	17519											
RUSC1	23623	hgsc.bcm.edu;ucsc.edu	37	chr1	155292322	155292330	+	In_Frame_Del	DEL	ACACTGGTT	ACACTGGTT	-																															gaaaaccactgaaaacaataAcactggttggaaaaacaacg																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	ACACTGGTT	ACACTGGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		-	155292330	ACACTGGTT	-	155292322	7	5	348	1	0	1	0	1	0	0	0	0	13752	43	2	0	760	0	RUSC1	1	155292322	In_Frame_Del	DEL	ACACTGGTT	TCGA-BP-5196-01A-01D-1429-08	3795547	155292322	93958299	4	17520											
CAMSAP1L1	0	hgsc.bcm.edu;ucsc.edu	37	chr1	200801906	200801912	+	Frame_Shift_Del	DEL	AAGAATA	AAGAATA	-																															gctgattcaagaattttgccAagaatacttgaaccagtgtt																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	AAGAATA	AAGAATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		-	200801912	AAGAATA	-	200801906	7	5	348	1	0	1	0	1	0	0	0	0	2612	130	5	0	882	0	CAMSAP1L1	1	200801906	Frame_Shift_Del	DEL	AAGAATA	TCGA-BP-5196-01A-01D-1429-08	45509584	200801906	48448715	5	17521											
SYT2	127833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202566077	202566077	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagtccagcacggtgacCactacctggactttctgcaa	10	10	8	13	1	2	1	1	1	1	0	3	2	3	2	3	2	3	2	3	2	3	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	202566077	C	T	202566077	2	4	348	1	0	0	0	0	0	0	0	1	15473	581	21	2		2	SYT2	1	202566077	Silent	SNP	C	TCGA-BP-5196-01A-01D-1429-08	1764171	202566077	46684544	6	17522											
FBXO28	23219	hgsc.bcm.edu;ucsc.edu	37	chr1	224345385	224345385	+	Frame_Shift_Del	DEL	A	A	-																															gaggagtctcctcggaaacgAaaaaaggccacggaagccat																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		-	224345385	A	-	224345385	7	5	348	1	0	1	0	1	0	0	0	0	5738	233	9	0	1062	0	FBXO28	1	224345385	Frame_Shift_Del	DEL	A	TCGA-BP-5196-01A-01D-1429-08	21779308	224345385	24905236	7	17523											
PTCD3	55037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86361451	86361451	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatactttccgcagtgaccTgagagaagagatcctgatgc	11	10	10	10	1	1	5	1	3	0	2	3	7	3	5	3	0	2	1	3	0	2	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	86361451	T	A	86361451	3	1	348	1	0	0	0	0	1	0	0	0	12731	1580	55	5	1658	5	PTCD3	2	86361451	Missense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08		86361451	156837922	8	17524											
ZEB2	9839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	145157442	145157442	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccatccctacacctaagtGctgcattggactctgagcag	9	11	8	13	0	1	1	0	1	1	0	3	2	3	2	3	1	4	3	3	1	2	4	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	145157442	G	A	145157442	3	1	348	1	0	0	0	0	1	0	0	0	17623	1319	46	2	2344	2	ZEB2	2	145157442	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08	58795991	145157442	98041931	9	17525											
MYO1B	4430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	192214900	192214900	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggcagggcaaatatatgGatattgaatttgactttaaa	14	15	9	3	0	0	2	0	2	0	0	0	3	0	3	0	3	0	2	0	3	7	8	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	192214900	G	T	192214900	3	4	348	1	0	0	0	0	1	0	0	0	10069	1174	41	4	533	4	MYO1B	2	192214900	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08	47057458	192214900	50984473	10	17526											
CCDC150	284992	hgsc.bcm.edu;ucsc.edu	37	chr2	197594682	197594683	+	Frame_Shift_Ins	INS	-	-	T																															gtctttgtatccttccagtcINStttgagtatccagagatttg																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	197594683	-	T	197594682	7	5	348	1	0	1	1	0	0	0	0	0	2785	927	32	0	2920	0	CCDC150	2	197594682	Frame_Shift_Ins	INS	-	TCGA-BP-5196-01A-01D-1429-08	5379782	197594682	45604691	11	17527											
CLK1	1195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201721535	201721535	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgcgttcatcacgtttCtgaaaatcataaatgatggt	13	13	9	6	2	4	2	3	2	1	0	4	2	4	2	0	2	1	2	0	2	5	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	201721535	C	A	201721535	5	1	348	1	0	0	0	0	0	0	1	0	3536	927	32	4	547	4	CLK1	2	201721535	Splice_Site	SNP	C	TCGA-BP-5196-01A-01D-1429-08	4126853	201721535	41477838	12	17528											
SH3BP4	23677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	235951396	235951396	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctcaagtttggtaagttGctcaagactgtggtgcggca	9	11	13	8	1	2	1	2	0	0	1	2	1	2	1	1	3	3	5	1	3	3	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	235951396	G	T	235951396	3	4	348	1	0	0	0	0	1	0	0	0	14248	1310	46	4	1989	4	SH3BP4	2	235951396	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08	34229861	235951396	7247977	13	17529											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188309	10188309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctatttttgccaataTcacactgccaggtactgacg	11	11	7	12	1	1	1	1	1	0	0	1	1	1	1	3	1	4	1	3	1	4	5	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	10188309	C	C	10188309	3	2	348	1	0	0	0	0	1	0	0	0	17161	1435	50	3	458	3	VHL	3	10188309	Missense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08		10188309	187834121	14	17530											
TRAT1	50852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	108572578	108572578	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacaaggatggagatgagCaactacatgcaatagatgcc	16	6	11	8	0	0	4	0	1	0	3	0	6	0	5	1	2	5	2	1	2	5	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	108572578	C	A	108572578	3	1	348	1	0	0	0	0	1	0	0	0	16465	711	25	4	437	4	TRAT1	3	108572578	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08	98384269	108572578	89449852	15	17531											
GRID2	2895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	94316836	94316836	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaataacatgcgtggagtgGttctacgtgtagtaactgtt	11	13	12	5	2	1	1	0	0	1	1	1	2	1	2	0	2	4	4	0	2	5	6	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	94316836	G	C	94316836	3	2	348	1	0	0	0	0	1	0	0	0	6772	1261	44	4	1358	4	GRID2	4	94316836	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08		94316836	96837440	16	17532											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32052785	32052785	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggaatctccttggaggctCattcggccatccgtcatctc	6	12	10	13	2	4	0	2	0	2	0	8	2	5	2	3	4	0	1	3	4	1	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	32052785	C	T	32052785	2	4	348	1	0	0	0	0	0	0	0	1	11701	813	29	2		2	PDZD2	5	32052785	Silent	SNP	C	TCGA-BP-5196-01A-01D-1429-08		32052785	148862475	17	17533											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127609608	127609608	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactgcctggagtgttttgAcagattccctttgctccaca	9	13	8	11	0	0	2	0	1	0	1	2	3	2	3	3	1	3	2	3	1	1	4	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	127609608	A	T	127609608	4	4	348	1	0	0	0	0	0	1	0	0	5703	273	10	5	994	5	FBN2	5	127609608	Nonsense_Mutation	SNP	A	TCGA-BP-5196-01A-01D-1429-08	95556823	127609608	53305652	18	17534											
RAPGEF6	51735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	130897689	130897689	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaatcatttctgaaggCtctaatacaagacaatcaca	17	9	4	11	0	4	2	2	1	2	1	4	2	4	2	1	1	1	1	1	1	6	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	130897689	C	T	130897689	2	4	348	1	0	0	0	0	0	0	0	1	13050	796	28	2		2	RAPGEF6	5	130897689	Silent	SNP	C	TCGA-BP-5196-01A-01D-1429-08	3288081	130897689	50017571	19	17535											
SLC34A1	6569	hgsc.bcm.edu;ucsc.edu	37	chr5	176813524	176813526	+	In_Frame_Del	DEL	CAG	CAG	-																															accgtgctggtgcagagctcCagcacctccacatccatcat																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		-	176813526	CAG	-	176813524	7	5	348	1	0	1	0	1	0	0	0	0	14569	581	21	0	503	0	SLC34A1	5	176813524	In_Frame_Del	DEL	CAG	TCGA-BP-5196-01A-01D-1429-08	45915835	176813524	4101736	20	17536											
WRNIP1	56897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	2784577	2784577	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtctggcagacccgtctgcGttaacacaagcggttgctgc	7	9	13	12	3	2	1	0	0	2	1	2	1	2	1	1	3	5	4	1	3	2	2	rs150885902		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	2784577	G	A	2784577	2	1	348	1	0	0	0	0	0	0	0	1	17402	1132	40	1		1	WRNIP1	6	2784577	Silent	SNP	G	TCGA-BP-5196-01A-01D-1429-08		2784577	168330490	21	17537											
TMEM30A	55754	broad.mit.edu;hgsc.bcm.edu	37	chr6	75968691	75968691	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtttaagccagttcacagGctttgttgtaccttaaaagg	10	14	10	7	0	1	0	1	0	0	0	1	0	1	0	2	3	2	5	2	3	4	7	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	75968691	G	C	75968691	3	2	348	1	0	0	0	0	1	0	0	0	16152	1203	42	4	396	4	TMEM30A	6	75968691	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08	73184114	75968691	95146376	22	17538											
PHIP	55023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	79708068	79708068	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcatgctgtccagtgggctGatctcctggtttgcttgctg	4	15	12	10	0	2	1	1	1	1	0	4	1	3	1	2	2	3	5	2	2	0	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	79708068	G	A	79708068	2	1	348	1	0	0	0	0	0	0	0	1	11842	1280	45	2		2	PHIP	6	79708068	Silent	SNP	G	TCGA-BP-5196-01A-01D-1429-08	3739377	79708068	91406999	23	17539											
TWISTNB	221830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	19737956	19737956	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactaaagaaaattactttTcccttttctttttggtgagc	11	17	5	8	0	1	2	0	1	1	1	2	2	2	2	1	1	2	0	1	1	5	8	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	19737956	T	G	19737956	3	3	348	1	0	0	0	0	1	0	0	0	16783	1792	62	5	20	5	TWISTNB	7	19737956	Missense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08		19737956	139400707	24	17540											
ZNF395	55893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28206650	28206650	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacatctcacctggcaccActctgggcccggggtggaga	7	6	14	14	2	2	1	1	0	2	1	3	3	2	2	3	6	0	1	3	6	0	0	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	28206650	A	G	28206650	2	3	348	1	0	0	0	0	0	0	0	1	17880	156	6	3		3	ZNF395	8	28206650	Silent	SNP	A	TCGA-BP-5196-01A-01D-1429-08		28206650	118157372	25	17541											
RRS1	23212	hgsc.bcm.edu;ucsc.edu	37	chr8	67342008	67342009	+	Frame_Shift_Ins	INS	-	-	A																															accctaccggacaccagagtINSaaggaggagctgggccgcgc																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	67342009	-	A	67342008	7	5	348	1	0	1	1	0	0	0	0	0	13694	1635	57	0	644	0	RRS1	8	67342008	Frame_Shift_Ins	INS	-	TCGA-BP-5196-01A-01D-1429-08	39135358	67342008	79022014	26	17542											
ZFHX4	79776	broad.mit.edu	37	chr8	77776069	77776069	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaagacaaaagtactgcTacagaaagcacaaaagaaga	23	3	9	6	0	0	4	0	0	0	4	0	5	0	5	0	1	4	3	0	1	10	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	77776069	C	C	77776069	2	2	348	1	0	0	0	0	0	0	0	1	17634	1509	53	3		3	ZFHX4	8	77776069	Silent	SNP	T	TCGA-BP-5196-01A-01D-1429-08	10434061	77776069	68587953	27	17543											
HEY1	23462	broad.mit.edu;hgsc.bcm.edu	37	chr8	80678002	80678002	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaagggcgtgcgcgtcaaaGtaacctaagcaaaagaacaa	17	4	11	9	3	1	1	1	0	0	1	1	1	1	1	1	1	4	3	1	1	8	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	80678002	G	A	80678002	2	1	348	1	0	0	0	0	0	0	0	1	7078	1024	36	2		2	HEY1	8	80678002	Silent	SNP	G	TCGA-BP-5196-01A-01D-1429-08	2901933	80678002	65686020	28	17544											
SGPL1	8879	broad.mit.edu;hgsc.bcm.edu	37	chr10	72617449	72617449	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgagctccttgtgaaggTgagtgtccagttcttgaggg	7	12	14	8	0	1	4	0	4	1	0	3	4	3	4	2	2	1	2	2	2	1	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	72617449	T	C	72617449	5	2	348	1	0	0	0	0	0	0	1	0	14220	1710	59	3	506	3	SGPL1	10	72617449	Splice_Site	SNP	T	TCGA-BP-5196-01A-01D-1429-08		72617449	62917298	29	17545											
MMS19	64210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99223688	99223688	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaataccagcaactctcAgggtcctgctgacatttttc	10	12	8	11	0	1	1	1	1	1	0	4	2	2	2	2	2	4	2	2	2	3	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	99223688	A	G	99223688	2	3	348	1	0	0	0	0	0	0	0	1	9672	175	7	3		3	MMS19	10	99223688	Silent	SNP	A	TCGA-BP-5196-01A-01D-1429-08	26606239	99223688	36311059	30	17546											
PI4K2A	55361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99400914	99400914	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggctccagcggaagctacTtcgtcaaggaccctcagggg	9	6	14	12	2	2	0	2	0	0	0	4	2	3	2	2	5	3	2	2	5	3	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	99400914	T	G	99400914	3	3	348	1	0	0	0	0	1	0	0	0	11871	1609	56	5	417	5	PI4K2A	10	99400914	Missense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08	177226	99400914	36133833	31	17547											
C10orf81	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115534737	115534737	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtggaagcacagaccaCaaatgaccaaaaggggtcgg	15	4	13	9	2	0	2	0	1	0	1	1	4	0	3	2	4	1	1	2	4	4	0	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	115534737	C	A	115534737	3	1	348	1	0	0	0	0	1	0	0	0	1619	478	17	4	966	4	C10orf81	10	115534737	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08	16133823	115534737	20000010	32	17548											
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129913557	129913557	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacccagattcacagattctCttctaccagtagtatacagg	12	12	6	11	0	3	2	1	0	2	2	4	2	3	2	2	1	3	2	2	1	5	8	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	129913557	C	G	129913557	3	3	348	1	0	0	0	0	1	0	0	0	9598	913	32	4	8691	4	MKI67	10	129913557	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08	14378820	129913557	5621190	33	17549											
IRF7	3665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	614301	614301	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagctctgttgcactgcctgGagcaggaggtcccccttgtc	5	10	12	14	0	1	0	0	0	1	0	3	2	2	2	3	3	4	4	3	3	0	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	614301	G	A	614301	2	1	348	1	0	0	0	0	0	0	0	1	7835	1161	41	2		2	IRF7	11	614301	Silent	SNP	G	TCGA-BP-5196-01A-01D-1429-08		614301	134392215	34	17550											
OR4C16	219428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55339950	55339950	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttcatcctcatcctcaCggctgttgaccgctatgtgg	6	13	9	13	2	4	1	3	1	1	0	6	2	6	1	3	2	0	3	3	2	1	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	55339950	C	T	55339950	3	4	348	1	0	0	0	0	1	0	0	0	11049	536	19	1	349	1	OR4C16	11	55339950	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08	54725649	55339950	79666566	35	17551											
SYTL2	54843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	85409119	85409119	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagttgtaggaagcttttTacctacaatagaaaaagaag	16	11	8	6	0	0	2	0	0	0	2	1	3	1	3	2	1	3	3	2	1	9	7	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	85409119	T	A	85409119	4	1	348	1	0	0	0	0	0	1	0	0	15482	1763	61	5	460	5	SYTL2	11	85409119	Nonsense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08	30069169	85409119	49597397	36	17552											
B3GAT1	27087	broad.mit.edu	37	chr11	134253723	134253723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggatgcgtgggtcgcgggCgtctccgcgcagcttgtagt	3	9	18	11	7	1	0	0	0	1	0	3	1	1	1	1	3	2	3	1	3	1	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	134253723	T	T	134253723	3	4	348	1	0	0	0	0	1	0	0	0	1253	768	27	1	544	1	B3GAT1	11	134253723	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08	48844604	134253723	752793	37	17553											
C12orf40	283461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	40114940	40114940	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgccatacagtgtgatCtaatttcaaaatgtacatgt	13	15	7	6	0	2	1	1	1	1	0	2	1	2	1	1	0	3	2	1	0	5	5	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	40114940	C	A	40114940	3	1	348	1	0	0	0	0	1	0	0	0	1686	912	32	4	1896	4	C12orf40	12	40114940	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08		40114940	93736955	38	17554											
LRRIQ1	84125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	85438507	85438507	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctctaggctgtagttatGgagcagtttctaataatcat	10	17	8	6	0	3	0	1	0	2	0	4	1	3	1	0	2	1	5	0	2	5	7	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	85438507	G	A	85438507	3	1	348	1	0	0	0	0	1	0	0	0	9029	1349	47	2	266	2	LRRIQ1	12	85438507	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08	45323567	85438507	48413388	39	17555											
POC1B	282809	hgsc.bcm.edu;ucsc.edu	37	chr12	89865497	89865498	+	Frame_Shift_Ins	INS	-	-	T																															tagggttaaagtccacaaaaINStttgcaaatctaggaggaaa																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	89865498	-	T	89865497	7	5	348	1	0	1	1	0	0	0	0	0	12176	98	4	0	894	0	POC1B	12	89865497	Frame_Shift_Ins	INS	-	TCGA-BP-5196-01A-01D-1429-08	4426990	89865497	43986398	40	17556											
IFT81	28981	hgsc.bcm.edu;ucsc.edu	37	chr12	110628765	110628766	+	Frame_Shift_Del	DEL	AC	AC	-																															gggtatatctggatatagttAcacccaagaagagctagaaa																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		-	110628766	AC	-	110628765	7	5	348	1	0	1	0	1	0	0	0	0	7565	391	14	0	1537	0	IFT81	12	110628765	Frame_Shift_Del	DEL	AC	TCGA-BP-5196-01A-01D-1429-08	20763268	110628765	23223130	41	17557											
PGAM5	192111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133295376	133295376	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctgttgtccgctggggatTttgtgcttctggggtcctga	2	15	15	9	2	1	1	0	1	1	0	3	2	3	2	2	4	1	4	2	4	0	4	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	133295376	T	G	133295376	3	3	348	1	0	0	0	0	1	0	0	0	11776	1841	64	5	770	5	PGAM5	12	133295376	Missense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08	22666611	133295376	556519	42	17558											
FAM123A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25744209	25744209	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcgtcgctgttggggaCgccttcctgctgctccttct	1	13	11	16	3	1	0	0	0	1	0	5	1	3	1	4	2	2	4	4	2	0	3	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	25744209	C	T	25744209	3	4	348	1	0	0	0	0	1	0	0	0	5422	536	19	1	470	1	FAM123A	13	25744209	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08		25744209	89425669	43	17559											
KBTBD6	89890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41706394	41706394	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcggccagcacattgcggTtgcaggggaacaggcgaccc	8	4	15	14	4	0	0	0	0	0	0	0	2	0	1	3	5	4	3	3	5	1	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	41706394	T	C	41706394	3	2	348	1	0	0	0	0	1	0	0	0	7997	1725	60	3	1774	3	KBTBD6	13	41706394	Missense_Mutation	SNP	T	TCGA-BP-5196-01A-01D-1429-08	15962185	41706394	73463484	44	17560											
OLFM4	10562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	53624774	53624774	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagggaaagagggcaaactAgacattgtaatgcataagat	18	7	11	5	0	0	3	0	0	0	3	0	4	0	4	0	2	2	3	0	2	5	4	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	53624774	A	G	53624774	2	3	348	1	0	0	0	0	0	0	0	1	10855	407	15	3		3	OLFM4	13	53624774	Silent	SNP	A	TCGA-BP-5196-01A-01D-1429-08	11918380	53624774	61545104	45	17561											
CATSPERB	79820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	92054360	92054360	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgaaggattatacactgCagcaccaagaattggttcta	14	10	8	9	0	1	2	0	1	1	1	1	3	1	3	2	2	3	3	2	2	6	5	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	92054360	C	A	92054360	3	1	348	1	0	0	0	0	1	0	0	0	2691	710	25	4	343	4	CATSPERB	14	92054360	Missense_Mutation	SNP	C	TCGA-BP-5196-01A-01D-1429-08		92054360	15295180	46	17562											
SCAPER	49855	broad.mit.edu;hgsc.bcm.edu	37	chr15	76994175	76994175	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggtgttttctccctttaAcatggctaaaaagatatacc	11	14	7	9	0	1	1	0	0	1	1	2	1	1	1	2	2	2	3	2	2	6	7	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	76994175	A	G	76994175	3	3	348	1	0	0	0	0	1	0	0	0	13880	43	2	3	1822	3	SCAPER	15	76994175	Missense_Mutation	SNP	A	TCGA-BP-5196-01A-01D-1429-08		76994175	25537217	47	17563											
DOK4	55715	broad.mit.edu;hgsc.bcm.edu	37	chr16	57509863	57509863	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacaccagccagcacctccGgtagatctgtggagcgagat	11	6	12	12	2	1	2	0	0	1	2	2	5	2	3	4	2	4	2	4	2	2	1	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	57509863	G	C	57509863	3	2	348	1	0	0	0	0	1	0	0	0	4699	1115	39	4	935	4	DOK4	16	57509863	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08		57509863	32844890	48	17564											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11738174	11738174	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctggcaaaggctgagccaGcactcacagcagcgcaggca	12	3	12	14	1	1	1	1	1	0	0	1	1	1	1	2	3	4	6	2	3	1	0	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		C	11738174	G	C	11738174	3	2	348	1	0	0	0	0	1	0	0	0	4608	971	34	4	9660	4	DNAH9	17	11738174	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08		11738174	69457036	49	17565											
RIOK3	8780	broad.mit.edu;hgsc.bcm.edu	37	chr18	21056977	21056977	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctcttcacagttgatgcGgcagttatatcatgaatgta	10	14	8	9	1	3	2	2	2	1	0	4	2	4	2	1	1	1	4	1	1	4	5	rs111330062	bycluster;byfrequency	TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	21056977	G	A	21056977	3	1	348	1	0	0	0	0	1	0	0	0	13381	1116	39	1	1219	1	RIOK3	18	21056977	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08		21056977	57020271	50	17566											
ATCAY	85300	broad.mit.edu;hgsc.bcm.edu	37	chr19	3907733	3907733	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgccacctgcttctagaCgacacccccgtggccaccgc	6	6	8	21	4	1	1	0	0	1	1	2	2	2	1	7	1	1	1	7	1	1	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	3907733	C	T	3907733	2	4	348	1	0	0	0	0	0	0	0	1	1077	550	19	1		1	ATCAY	19	3907733	Silent	SNP	C	TCGA-BP-5196-01A-01D-1429-08		3907733	55221250	51	17567											
ZNF155	7711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44501334	44501334	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctatgttactaagtttaAtcttgacttgcaccagaggg	10	13	11	7	0	1	2	0	1	1	1	1	2	1	2	1	2	2	4	1	2	4	7	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		G	44501334	A	G	44501334	3	3	348	1	0	0	0	0	1	0	0	0	17735	101	4	3	1339	3	ZNF155	19	44501334	Missense_Mutation	SNP	A	TCGA-BP-5196-01A-01D-1429-08	40593601	44501334	14627649	52	17568											
ZNF814	730051	broad.mit.edu	37	chr19	58385927	58385927	+	Frame_Shift_Del	DEL	G	-	-																															aagctaacatatttgctaaaGgatttcccacattctccaca																								novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		-	58385927	-	-	58385927	7	5	348	1	0	1	0	1	0	0	0	0	18175	987	35	0	1740	0	ZNF814	19	58385927	Frame_Shift_Del	DEL	G	TCGA-BP-5196-01A-01D-1429-08	13884593	58385927	743056	53	17569											
PRPF6	24148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62642793	62642793	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagatggtggagaagatcatCgaccgagccatcacctcgct	11	7	11	12	3	2	3	2	0	0	3	4	6	2	3	3	2	1	1	3	2	1	0	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		T	62642793	C	T	62642793	2	4	348	1	0	0	0	0	0	0	0	1	12576	874	31	1		1	PRPF6	20	62642793	Silent	SNP	C	TCGA-BP-5196-01A-01D-1429-08		62642793	382727	54	17570											
MCART6	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	103349894	103349894	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctggagcctctgctcgcGtcctgtgctgaagctccttc	3	13	10	15	2	1	1	0	1	1	0	6	2	4	2	4	1	4	3	4	1	1	2	novel		TCGA-BP-5196-01A-01D-1429-08	TCGA-BP-5196-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	201bf07d-0be9-442f-ad66-15ea8c7e812d	73a10535-7e80-40b3-933a-7b8e95794681		A	103349894	G	A	103349894	3	1	348	1	0	0	0	0	1	0	0	0	9371	1145	40	1	880	1	MCART6	23	103349894	Missense_Mutation	SNP	G	TCGA-BP-5196-01A-01D-1429-08		103349894	51920666	55	17571											
CNR2	1269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24201824	24201824	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccacaccatggaaaacaTggaaattcacaaagctgcat	18	7	6	10	0	1	0	1	0	0	0	2	2	2	2	2	2	3	2	2	2	5	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	24201824	T	A	24201824	3	1	349	1	0	0	0	0	1	0	0	0	3632	1464	51	5	802	5	CNR2	1	24201824	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08		24201824	225048797	1	17572											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39908131	39908131	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtcagttccagcatgcCttagaggaactaatgagttg	10	12	11	8	0	1	2	1	1	0	1	2	3	2	3	2	2	3	3	2	2	3	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	39908131	C	A	39908131	2	1	349	1	0	0	0	0	0	0	0	1	9144	668	24	4		4	MACF1	1	39908131	Silent	SNP	C	TCGA-BP-5198-01A-01D-1429-08	15706307	39908131	209342490	2	17573											
HSPA6	3310	hgsc.bcm.edu	37	chr1	161495527	161495527	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttcttcaacggcaaggAgctgaacaagagcatcaacc	14	6	10	11	1	3	2	2	1	1	1	3	4	3	4	1	3	5	3	1	3	5	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	161495527	A	T	161495527	3	4	349	1	0	0	0	0	1	0	0	0	7415	304	11	5	1081	5	HSPA6	1	161495527	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	121587396	161495527	87755094	3	17574											
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu	37	chr1	183195848	183195848	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtactgggtacattgAcaatgtgaccctgatttcag	10	12	11	8	0	1	3	1	3	0	0	1	3	1	3	1	2	3	3	1	2	3	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	183195848	A	C	183195848	3	2	349	1	0	0	0	0	1	0	0	0	8615	275	10	5	1116	5	LAMC2	1	183195848	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	21700321	183195848	66054773	4	17575											
WDR64	128025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	241886621	241886621	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgataaggtcatccggttGtggcaccccaatatcagcac	11	9	10	11	1	2	1	2	1	0	0	3	2	3	1	3	3	1	3	3	3	3	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	241886621	G	T	241886621	3	4	349	1	0	0	0	0	1	0	0	0	17314	1368	48	4	1081	4	WDR64	1	241886621	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	58690773	241886621	7364000	5	17576											
LRPPRC	10128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44145201	44145201	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcaggcaatcaatatatcTttctggaaatcaggttctgt	11	13	9	8	1	5	0	2	0	3	0	5	1	5	1	0	4	0	3	0	4	5	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	44145201	T	A	44145201	3	1	349	1	0	0	0	0	1	0	0	0	8965	1606	56	5	1113	5	LRPPRC	2	44145201	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08		44145201	199054172	6	17577											
NPHP1	4867	broad.mit.edu;hgsc.bcm.edu	37	chr2	110926096	110926096	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagctatccaccaaccatcaGgttttttttcaattacaagg	12	14	5	10	0	2	0	2	0	0	0	3	0	3	0	3	2	3	2	3	2	6	7	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	110926096	G	T	110926096	3	4	349	1	0	0	0	0	1	0	0	0	10579	1000	35	4	1704	4	NPHP1	2	110926096	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	66780895	110926096	132273277	7	17578											
ARHGAP15	55843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	143913197	143913197	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagtaaatccatgatcctCaccgatgtcgggaaggtcac	13	8	9	11	2	2	1	2	1	0	0	5	3	4	2	3	2	0	1	3	2	4	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	143913197	C	T	143913197	2	4	349	1	0	0	0	0	0	0	0	1	866	813	29	2		2	ARHGAP15	2	143913197	Silent	SNP	C	TCGA-BP-5198-01A-01D-1429-08	32987101	143913197	99286176	8	17579											
KCNJ3	3760	broad.mit.edu	37	chr2	155555946	155555946	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggtgggcaacctgcgcaAcagccacatggtctccgcgc	7	5	13	16	4	1	0	0	0	1	0	2	0	1	0	4	3	4	2	4	3	2	0	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	155555946	C	C	155555946	3	2	349	1	0	0	0	0	1	0	0	0	8052	43	2	5	661	5	KCNJ3	2	155555946	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	11642749	155555946	87643427	9	17580											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	168099752	168099752	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtggtgatgtgaaatataCcacatggatgtttgaaaccc	12	12	11	6	0	0	3	0	3	0	0	0	4	0	4	2	3	2	1	2	3	4	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	168099752	C	A	168099752	3	1	349	1	0	0	0	0	1	0	0	0	17429	507	18	4	1880	4	XIRP2	2	168099752	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	12543806	168099752	75099621	10	17581											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179634604	179634604	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgggacacctcacactCaaaagaggcagttttggtct	12	9	11	9	0	3	1	2	0	1	1	3	3	3	2	1	3	0	2	1	3	3	2	rs143767300	alternate_allele	TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	179634604	C	A	179634604	4	1	349	1	0	0	0	0	0	1	0	0	16734	835	29	4	102588	4	TTN	2	179634604	Nonsense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	11534852	179634604	63564769	11	17582											
BMPR2	659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	203407042	203407042	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaatccacaggggaatccGtaccagagtaccagatggct	14	6	10	11	1	0	2	0	0	0	2	2	3	2	3	4	3	2	3	4	3	4	2	rs146957466	alternate_allele	TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	203407042	G	T	203407042	3	4	349	1	0	0	0	0	1	0	0	0	1471	1145	40	4	1323	4	BMPR2	2	203407042	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	23772438	203407042	39792331	12	17583											
GRM7	2917	broad.mit.edu;ucsc.edu	37	chr3	6903262	6903262	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgcacgccaagggtcccAgcggagtgccctgcggcgac	6	4	15	16	5	0	0	0	0	0	0	1	2	1	1	4	3	4	1	4	3	1	0	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	6903262	C	C	6903262	3	2	349	1	0	0	0	0	1	0	0	0	6802	188	7	5	189	5	GRM7	3	6903262	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08		6903262	191119168	13	17584											
MTMR14	64419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9724925	9724925	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctttccttagttaacagtGatggtgagtctgtctcctcc	6	16	9	10	0	2	2	0	2	2	0	5	2	4	2	3	1	2	2	3	1	2	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	9724925	G	A	9724925	3	1	349	1	0	0	0	0	1	0	0	0	9942	1290	45	2	999	2	MTMR14	3	9724925	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	2821663	9724925	188297505	14	17585											
VHL	7428	hgsc.bcm.edu	37	chr3	10191489	10191492	+	Frame_Shift_Del	DEL	GATG	GATG	-																															agtgtatactctgaaagagcGatgcctccaggttgtccgga																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	GATG	GATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		-	10191492	GATG	-	10191489	7	5	349	1	0	1	0	1	0	0	0	0	17161	1058	37	0	492	0	VHL	3	10191489	Frame_Shift_Del	DEL	GATG	TCGA-BP-5198-01A-01D-1429-08	466564	10191489	187830941	15	17586											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47084168	47084175	+	Frame_Shift_Del	DEL	TTATTTGT	TTATTTGT	-																															ggggcggcagatccaagagaTtatttgtcacaaccatttca																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	TTATTTGT	TTATTTGT	TTATTTGT	-	TTATTTGT	TTATTTGT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		-	47084175	TTATTTGT	-	47084168	7	5	349	1	0	1	0	1	0	0	0	0	14133	1493	52	0	593	0	SETD2	3	47084168	Frame_Shift_Del	DEL	TTATTTGT	TCGA-BP-5198-01A-01D-1429-08	36892679	47084168	150938262	16	17587											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52623121	52623122	+	Frame_Shift_Del	DEL	AT	AT	-																															acagtctttcaatacagacgAtatgtggttgtaggttggcc																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	AT	AT	AT	-	AT	AT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		-	52623122	AT	-	52623121	7	5	349	1	0	1	0	1	0	0	0	0	11491	333	12	0	2022	0	PBRM1	3	52623121	Frame_Shift_Del	DEL	AT	TCGA-BP-5198-01A-01D-1429-08	5538953	52623121	145399309	17	17588											
PVRL3	25945	broad.mit.edu	37	chr3	110837556	110837556	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctttaattgatggaggaAatgaaacagtagcagccatt	15	12	9	5	0	1	2	0	2	1	0	1	4	1	4	1	2	3	2	1	2	4	6	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	110837556	T	T	110837556	3	4	349	1	0	0	0	0	1	0	0	0	12843	14	1	5	566	5	PVRL3	3	110837556	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	58214435	110837556	87184874	18	17589											
PLOD2	5352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	145788846	145788846	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgaaagtcttctcccaCgttattaagtgcaatgttta	11	15	6	9	1	2	1	0	1	2	0	3	1	2	1	2	0	2	3	2	0	6	6	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	145788846	C	T	145788846	3	4	349	1	0	0	0	0	1	0	0	0	12102	536	19	1	180	1	PLOD2	3	145788846	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	34951290	145788846	52233584	19	17590											
MYO10	4651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	16701663	16701663	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacactcgtcgatctcgtcGaaattgagggactcgaggaa	12	8	11	10	5	1	1	0	1	1	0	6	6	1	3	0	2	0	0	0	2	2	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	16701663	G	A	16701663	2	1	349	1	0	0	0	0	0	0	0	1	10062	1049	37	1		1	MYO10	5	16701663	Silent	SNP	G	TCGA-BP-5198-01A-01D-1429-08		16701663	164213597	20	17591											
WDR36	134430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	110434508	110434508	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgttgatactgatggcaTtcttattatttggcacatat	9	18	7	7	0	2	2	0	2	2	0	2	2	2	2	0	2	1	3	0	2	4	7	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	110434508	T	G	110434508	3	3	349	1	0	0	0	0	1	0	0	0	17289	1493	52	5	562	5	WDR36	5	110434508	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	93732845	110434508	70480752	21	17592											
PCDHA12	56137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140256882	140256882	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctataacgcttggctgtccTacgagttgcaaccggcggcg	7	9	13	12	5	0	0	0	0	0	0	1	1	1	0	2	3	4	5	2	3	4	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	140256882	T	C	140256882	3	2	349	1	0	0	0	0	1	0	0	0	11522	1522	53	3	1827	3	PCDHA12	5	140256882	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	29822374	140256882	40658378	22	17593											
DIAPH1	1729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140954549	140954549	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attacctctcctgtgagctgGgacacctctgcttccaggtc	6	12	9	14	0	2	1	0	1	2	0	5	2	3	2	4	2	3	2	4	2	1	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	140954549	G	T	140954549	2	4	349	1	0	0	0	0	0	0	0	1	4518	1219	43	4		4	DIAPH1	5	140954549	Silent	SNP	G	TCGA-BP-5198-01A-01D-1429-08	697667	140954549	39960711	23	17594											
ADAM19	8728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156923994	156923994	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacagggggtaccatccAtctggtagaagttggtaggg	9	9	14	9	0	2	1	1	0	1	1	3	1	3	1	3	5	1	4	3	5	4	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	156923994	A	T	156923994	3	4	349	1	0	0	0	0	1	0	0	0	240	217	8	5	1294	5	ADAM19	5	156923994	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	15969445	156923994	23991266	24	17595											
MGAT4B	11282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179225513	179225513	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacacccaccgaacttacGtcgaagggcagcacctccac	12	4	7	18	3	0	0	0	0	0	0	2	2	1	0	5	1	3	2	5	1	3	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	179225513	G	A	179225513	2	1	349	1	0	0	0	0	0	0	0	1	9546	1159	40	1		1	MGAT4B	5	179225513	Silent	SNP	G	TCGA-BP-5198-01A-01D-1429-08	22301519	179225513	1689747	25	17596											
FANCE	2178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35423912	35423912	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagaggctgccagtcctgagGggaagagggtccccaaaaga	13	4	15	9	0	0	4	0	1	0	3	2	5	2	5	4	4	1	1	4	4	4	0	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	35423912	G	A	35423912	3	1	349	1	0	0	0	0	1	0	0	0	5666	1232	43	2	643	2	FANCE	6	35423912	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08		35423912	135691155	26	17597											
CD109	135228	broad.mit.edu;ucsc.edu	37	chr6	74516670	74516670	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcttaaaggacatcagAaatccaacggtgaattttgg	13	11	10	7	1	1	2	1	1	0	1	2	3	2	3	1	4	1	1	1	4	5	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	74516670	C	C	74516670	3	2	349	1	0	0	0	0	1	0	0	0	2963	247	9	5	3162	5	CD109	6	74516670	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	39092758	74516670	96598397	27	17598											
HIBADH	11112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	27570888	27570888	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atccatcactccaggtacagGattataagtgtcacttgacc	12	11	7	11	0	2	1	2	1	0	0	4	2	4	2	3	2	1	1	3	2	3	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	27570888	G	T	27570888	3	4	349	1	0	0	0	0	1	0	0	0	7099	1174	41	4	243	4	HIBADH	7	27570888	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08		27570888	131567775	28	17599											
POM121	9883	broad.mit.edu;hgsc.bcm.edu	37	chr7	72398925	72398925	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttgatttgtcgcaggcGccatgatagcagtggcagtg	7	14	13	7	2	0	2	0	2	0	0	1	2	0	2	1	2	1	3	1	2	1	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	72398925	G	A	72398925	3	1	349	1	0	0	0	0	1	0	0	0	12239	1087	38	1	240	1	POM121	7	72398925	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	44828037	72398925	86739738	29	17600											
EMID2	136227	broad.mit.edu	37	chr7	101006350	101006350	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgccctgggcgtgttgcTgcctctgcgggtcggcgctg	0	11	16	14	4	1	0	0	0	1	0	3	0	2	0	3	3	4	3	3	3	0	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	101006350	G	G	101006350	3	3	349	1	0	0	0	0	1	0	0	0	5092	1580	55	5	39	5	EMID2	7	101006350	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	28607425	101006350	58132313	30	17601											
KIAA1147	57189	broad.mit.edu	37	chr7	141364002	141364002	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcctcttcacaagggttgTagtcttcttctacttcctgg	5	16	9	11	0	5	0	1	0	4	0	7	0	7	0	2	3	1	2	2	3	3	7	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	141364002	C	C	141364002	3	2	349	1	0	0	0	0	1	0	0	0	8210	1638	57	3	233	3	KIAA1147	7	141364002	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	40357652	141364002	17774661	31	17602											
MTMR9	66036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11142463	11142463	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgctgcaccggcctttctaCccggctgtcgagggcaccct	4	9	12	16	3	1	0	0	0	1	0	2	1	1	0	4	3	3	4	4	3	1	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	11142463	C	T	11142463	2	4	349	1	0	0	0	0	0	0	0	1	9950	518	18	2		2	MTMR9	8	11142463	Silent	SNP	C	TCGA-BP-5198-01A-01D-1429-08		11142463	135221559	32	17603											
LRP12	29967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	105507335	105507335	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaaacaggaaaatcttcAactggtggaattaaaccctg	17	8	8	8	0	2	0	1	0	1	0	2	3	2	2	1	3	4	0	1	3	8	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	105507335	A	T	105507335	2	4	349	1	0	0	0	0	0	0	0	1	8954	117	5	5		5	LRP12	8	105507335	Silent	SNP	A	TCGA-BP-5198-01A-01D-1429-08	94364872	105507335	40856687	33	17604											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113323219	113323219	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacttcaccttgacaggcagGgactggcgcatcccatgcat	9	9	10	13	1	1	1	1	1	0	0	2	2	2	2	2	3	2	3	2	3	1	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	113323219	G	A	113323219	3	1	349	1	0	0	0	0	1	0	0	0	3946	1232	43	2	3338	2	CSMD3	8	113323219	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	7815884	113323219	33040803	34	17605											
TAF2	6873	hgsc.bcm.edu;ucsc.edu	37	chr8	120744220	120744221	+	Frame_Shift_Ins	INS	-	-	A																															ctggcagggctggagaaagtINSgaaaggctccttgtcctttt																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	120744221	-	A	120744220	7	5	349	1	0	1	1	0	0	0	0	0	15523	1696	59	0	59	0	TAF2	8	120744220	Frame_Shift_Ins	INS	-	TCGA-BP-5198-01A-01D-1429-08	7421001	120744220	25619802	35	17606											
CORO2A	7464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	100899899	100899899	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atctcaaaatcatcaaaaggGttccacttgacatccaaaac	17	9	4	11	0	3	1	3	1	1	0	6	1	5	1	2	1	1	1	2	1	6	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	100899899	G	C	100899899	3	2	349	1	0	0	0	0	1	0	0	0	3756	1252	44	4	1344	4	CORO2A	9	100899899	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08		100899899	40313532	36	17607											
PIP5KL1	138429	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130687392	130687392	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggaggctcacctggccGtgcggaagatgaggctgctg	6	8	18	9	2	1	2	1	1	0	1	1	4	1	4	2	5	2	3	2	5	1	0	rs149767177	byfrequency;alternate_allele	TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	130687392	G	C	130687392	3	2	349	1	0	0	0	0	1	0	0	0	11942	1145	40	4	281	4	PIP5KL1	9	130687392	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	29787493	130687392	10526039	37	17608											
CDH23	64072	broad.mit.edu	37	chr10	73499530	73499530	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggatcactacatcctccagGtggggcctggcctcccttgg	5	10	12	14	0	1	0	1	0	0	0	4	1	4	1	5	6	1	0	5	6	1	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	73499530	T	T	73499530	5	4	349	1	0	0	0	0	0	0	1	0	3108	1275	44	4	4972	4	CDH23	10	73499530	Splice_Site	SNP	G	TCGA-BP-5198-01A-01D-1429-08		73499530	62035217	38	17609											
DPYSL4	10570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	134012456	134012456	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggggcggccgacgccatCgctcaggccaagcgcagagg	9	2	17	13	5	1	1	1	0	0	1	2	2	1	1	3	5	1	2	3	5	2	0	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	134012456	C	A	134012456	2	1	349	1	0	0	0	0	0	0	0	1	4749	874	31	4		4	DPYSL4	10	134012456	Silent	SNP	C	TCGA-BP-5198-01A-01D-1429-08	60512926	134012456	1522291	39	17610											
C11orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33565157	33565157	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgtatatgattccttaaCaataggagacatgaaaaagc	17	10	9	5	0	0	3	0	2	0	1	1	5	1	4	1	2	2	1	1	2	7	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	33565157	C	A	33565157	3	1	349	1	0	0	0	0	1	0	0	0	1640	478	17	4	1159	4	C11orf41	11	33565157	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08		33565157	101441359	40	17611											
RSF1	51773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77412360	77412360	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgaggctagtttctcAcagtggtcaatgatattaga	10	16	9	6	0	3	3	2	2	2	1	4	3	3	3	0	2	0	2	0	2	4	6	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	77412360	A	T	77412360	4	4	349	1	0	0	0	0	0	1	0	0	13701	157	6	5	2455	5	RSF1	11	77412360	Nonsense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	43847203	77412360	57594156	41	17612											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92531032	92531032	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgtttaagatcgaacCggtcctaggcatcatcacca	13	9	8	11	2	2	1	2	0	0	1	4	3	3	1	3	2	2	2	3	2	4	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	92531032	C	T	92531032	3	4	349	1	0	0	0	0	1	0	0	0	5691	652	23	1	4887	1	FAT3	11	92531032	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	15118672	92531032	42475484	42	17613											
PKP2	5318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32976979	32976979	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatttatctcttgaattacCttgtcatctggctggtaatc	9	18	6	8	0	3	1	1	1	2	0	5	1	3	1	1	2	1	2	1	2	5	7	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	32976979	C	G	32976979	3	3	349	1	0	0	0	0	1	0	0	0	11985	695	24	4	867	4	PKP2	12	32976979	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08		32976979	100874916	43	17614											
FKBP11	51303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49315838	49315838	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gactttgggtctattggcctTtctgtataggtgatacccaa	8	15	10	8	0	2	1	0	1	2	0	2	2	2	1	2	3	1	1	2	3	5	7	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	49315838	T	A	49315838	4	1	349	1	0	0	0	0	0	1	0	0	5903	1850	64	5	74	5	FKBP11	12	49315838	Nonsense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	16338859	49315838	84536057	44	17615											
LRIG3	121227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	59268041	59268041	+	Frame_Shift_Del	DEL	A	A	-																															tgaaggatgagaacatgggtAgcactcctttttctttatgt																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		-	59268041	A	-	59268041	7	5	349	1	0	1	0	1	0	0	0	0	8946	420	15	0	456	0	LRIG3	12	59268041	Frame_Shift_Del	DEL	A	TCGA-BP-5198-01A-01D-1429-08	9952203	59268041	74583854	45	17616											
YEATS4	8089	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	69764550	69764550	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatgctggggaaaaagaCagtggtttcagagttctatg	12	11	13	5	0	2	2	1	0	1	2	2	3	2	3	0	3	2	4	0	3	4	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	69764550	C	G	69764550	3	3	349	1	0	0	0	0	1	0	0	0	17472	478	17	4	416	4	YEATS4	12	69764550	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	10496509	69764550	64087345	46	17617											
CCDC41	51134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	94772632	94772632	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgtattctttgggcattttCcacctgagcctcagaattct	7	16	7	11	0	3	2	1	1	2	1	4	2	4	2	3	1	1	2	3	1	2	6	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	94772632	C	T	94772632	3	4	349	1	0	0	0	0	1	0	0	0	2813	864	30	2	1413	2	CCDC41	12	94772632	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	25008082	94772632	39079263	47	17618											
P2RX2	22953	hgsc.bcm.edu;ucsc.edu	37	chr12	133198066	133198067	+	Frame_Shift_Ins	INS	-	-	A																															cccattctccccaggccgggINSaagttcagcctgattcccac																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	133198067	-	A	133198066	7	5	349	1	0	1	1	0	0	0	0	0	11340	1161	41	0	1040	0	P2RX2	12	133198066	Frame_Shift_Ins	INS	-	TCGA-BP-5198-01A-01D-1429-08	38425434	133198066	653829	48	17619											
ATP12A	479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25284712	25284712	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacccggaggaattccatcTtccagcagggtctcttcagg	10	9	10	12	1	3	0	1	0	2	0	6	2	5	2	3	4	2	1	3	4	2	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	25284712	T	A	25284712	3	1	349	1	0	0	0	0	1	0	0	0	1122	1609	56	5	2974	5	ATP12A	13	25284712	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08		25284712	89885166	49	17620											
OR4Q3	441669	broad.mit.edu;hgsc.bcm.edu	37	chr14	20216035	20216035	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggttggttcttgcctgctGgtgtgggggttttatccact	2	18	14	7	0	1	0	0	0	1	0	2	0	2	0	2	5	2	4	2	5	1	6	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	20216035	G	T	20216035	3	4	349	1	0	0	0	0	1	0	0	0	11081	1357	47	4	451	4	OR4Q3	14	20216035	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08		20216035	87133505	50	17621											
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71462626	71462626	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgctgtaggcggtagcagTttgcacgatgaacttggtat	8	13	13	7	2	1	1	0	1	1	0	1	2	1	1	0	3	4	7	0	3	4	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	71462626	T	C	71462626	2	2	349	1	0	0	0	0	0	0	0	1	11591	1722	60	3		3	PCNX	14	71462626	Silent	SNP	T	TCGA-BP-5198-01A-01D-1429-08	51246591	71462626	35886914	51	17622											
SLC24A4	123041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	92958092	92958092	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggtgtaccgtggggcctgCagaccatggttgttaattat	7	14	13	7	1	0	1	0	0	0	1	0	1	0	1	3	4	2	4	3	4	3	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	92958092	C	T	92958092	4	4	349	1	0	0	0	0	0	1	0	0	14470	711	25	2	1628	2	SLC24A4	14	92958092	Nonsense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	21495466	92958092	14391448	52	17623											
RPAP1	26015	hgsc.bcm.edu;ucsc.edu	37	chr15	41819689	41819689	+	Frame_Shift_Del	DEL	C	C	-																															ttcagggcttttcctttttgCttttcctgctgggcattctt																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		-	41819689	C	-	41819689	7	5	349	1	0	1	0	1	0	0	0	0	13543	797	28	0	2694	0	RPAP1	15	41819689	Frame_Shift_Del	DEL	C	TCGA-BP-5198-01A-01D-1429-08		41819689	60711703	53	17624											
FBN1	2200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48782117	48782117	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctcggacacagctcctCgtactcaggagtatttctca	8	12	7	14	2	3	0	2	0	2	0	8	2	5	2	2	2	2	3	2	2	2	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	48782117	C	A	48782117	4	1	349	1	0	0	0	0	0	1	0	0	5702	893	31	4	5770	4	FBN1	15	48782117	Nonsense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	6962428	48782117	53749275	54	17625											
HERC1	8925	hgsc.bcm.edu;ucsc.edu	37	chr15	63955309	63955310	+	Frame_Shift_Ins	INS	-	-	TT																															tttccaattcctcatctaaaINSttaaagtcatacaacgcccc																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		TT	63955310	-	TT	63955309	7	5	349	1	0	1	1	0	0	0	0	0	7057	98	4	0	5950	0	HERC1	15	63955309	Frame_Shift_Ins	INS	-	TCGA-BP-5198-01A-01D-1429-08	15173192	63955309	38576083	55	17626											
ZSCAN2	54993	broad.mit.edu	37	chr15	85147434	85147434	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctggctgagaccagaggtAcacaccaaggagcagatgtt	12	6	13	10	1	0	3	0	1	0	3	0	5	0	4	2	3	2	5	2	3	2	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	85147434	T	T	85147434	2	4	349	1	0	0	0	0	0	0	0	1	18230	378	14	5		5	ZSCAN2	15	85147434	Silent	SNP	A	TCGA-BP-5198-01A-01D-1429-08	21192125	85147434	17383958	56	17627											
GTF3C1	2975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27523128	27523128	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgtccactggaggcacTgtcttggagatgacctcctc	9	10	10	12	0	1	2	0	1	1	1	4	4	3	3	3	3	0	1	3	3	1	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	27523128	T	C	27523128	2	2	349	1	0	0	0	0	0	0	0	1	6872	1567	55	3		3	GTF3C1	16	27523128	Silent	SNP	T	TCGA-BP-5198-01A-01D-1429-08		27523128	62831625	57	17628											
ZNF267	10308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31927436	31927436	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcagatgttattcagcaTcggagaattcatactggcca	12	12	9	8	1	3	2	3	0	0	2	4	3	3	2	1	2	2	3	1	2	3	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	31927436	T	G	31927436	3	3	349	1	0	0	0	0	1	0	0	0	17805	1432	50	5	1880	5	ZNF267	16	31927436	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	4404308	31927436	58427317	58	17629											
DUS2L	54920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68109279	68109279	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcctttggccttggtgcCttctatgaggagaccacaca	8	10	12	11	0	1	2	0	1	1	1	1	4	1	2	4	4	1	0	4	4	1	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	68109279	C	A	68109279	2	1	349	1	0	0	0	0	0	0	0	1	4806	668	24	4		4	DUS2L	16	68109279	Silent	SNP	C	TCGA-BP-5198-01A-01D-1429-08	36181843	68109279	22245474	59	17630											
ANKRD11	29123	hgsc.bcm.edu;ucsc.edu	37	chr16	89350692	89350692	+	Frame_Shift_Del	DEL	G	G	-																															gtctcagtttttcttctttcGgagacttttccttcagcgat																								novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		-	89350692	G	-	89350692	7	5	349	1	0	1	0	1	0	0	0	0	639	1116	39	0	5753	0	ANKRD11	16	89350692	Frame_Shift_Del	DEL	G	TCGA-BP-5198-01A-01D-1429-08	21241413	89350692	1004061	60	17631											
USP22	23326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	20911265	20911265	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtagctatggcaaccgctgCacttgatcttggcgctgctg	6	11	13	11	2	1	1	0	1	1	0	1	1	1	1	1	3	4	7	1	3	3	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	20911265	C	T	20911265	3	4	349	1	0	0	0	0	1	0	0	0	17053	710	25	2	449	2	USP22	17	20911265	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08		20911265	60283945	61	17632											
TMEM132E	124842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	32954049	32954049	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactcctcctcgccctccaGccccagcgtggagcacttca	7	7	7	20	2	1	0	1	0	0	0	5	1	4	1	6	1	4	1	6	1	1	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	32954049	G	A	32954049	3	1	349	1	0	0	0	0	1	0	0	0	16047	971	34	2	711	2	TMEM132E	17	32954049	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	12042784	32954049	48241161	62	17633											
WIPF2	147179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38420931	38420931	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctaataccaccagcagtaCgggcatgaagcacagctcct	12	6	9	14	1	0	1	0	1	0	0	1	1	1	1	4	1	5	5	4	1	4	3	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	38420931	C	T	38420931	3	4	349	1	0	0	0	0	1	0	0	0	17367	536	19	1	517	1	WIPF2	17	38420931	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	5466882	38420931	42774279	63	17634											
SLC4A1	6521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42333125	42333125	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccatgagcacaagggagagGagggctgtgttgggcagggg	9	5	21	6	0	0	2	0	1	0	1	0	4	0	3	1	6	1	4	1	6	1	1	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	42333125	G	A	42333125	2	1	349	1	0	0	0	0	0	0	0	1	14652	1161	41	2		2	SLC4A1	17	42333125	Silent	SNP	G	TCGA-BP-5198-01A-01D-1429-08	3912194	42333125	38862085	64	17635											
POLG2	11232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62479086	62479086	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatccaaagcaaccttaaTaggggctaaacaagggtgaa	17	7	9	8	0	0	1	0	1	0	0	1	1	1	1	2	3	4	2	2	3	9	4	rs146731596		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	62479086	T	C	62479086	3	2	349	1	0	0	0	0	1	0	0	0	12201	1406	49	3	328	3	POLG2	17	62479086	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	20145961	62479086	18716124	65	17636											
NOL11	25926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	65718733	65718733	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtattcagacatcctgttTtaatttttattactgaaaaa	14	18	4	5	0	1	2	1	1	0	1	2	2	2	2	1	0	1	2	1	0	7	9	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	65718733	T	G	65718733	3	3	349	1	0	0	0	0	1	0	0	0	10521	1838	64	5	517	5	NOL11	17	65718733	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	3239647	65718733	15476477	66	17637											
DOT1L	84444	broad.mit.edu;ucsc.edu	37	chr19	2229790	2229790	+	Nonstop_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcccttctgcaggtaactAggatttctacctcaaccgcg	8	11	9	13	2	3	0	1	0	2	0	3	1	3	1	3	2	5	2	3	2	4	5	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	2229790	C	C	2229790	4	2	349	1	0	0	0	0	0	0	0	0	4709	433	15	5	4723	5	DOT1L	19	2229790	Nonstop_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08		2229790	56899193	67	17638											
CPAMD8	27151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17003921	17003921	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatgtggttgtaggattAtctcaaggtgcaggtgtttg	7	15	14	5	0	1	0	1	0	1	0	2	1	1	1	0	4	2	5	0	4	3	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	17003921	A	C	17003921	3	2	349	1	0	0	0	0	1	0	0	0	3795	462	16	5	5	5	CPAMD8	19	17003921	Missense_Mutation	SNP	A	TCGA-BP-5198-01A-01D-1429-08	14774131	17003921	42125062	68	17639											
RTN2	6253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45997672	45997672	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaagtcggagtcgtaggTccagttctgatacggtagag	10	9	15	7	3	1	2	0	1	1	1	4	4	2	3	1	3	2	4	1	3	4	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	45997672	T	C	45997672	3	2	349	1	0	0	0	0	1	0	0	0	13728	1667	58	3	1103	3	RTN2	19	45997672	Missense_Mutation	SNP	T	TCGA-BP-5198-01A-01D-1429-08	28993751	45997672	13131311	69	17640											
ZNF841	284371	broad.mit.edu	37	chr19	52570738	52570738	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtagatttttccggatttCcctgaagtaaaaattttcag	11	16	7	7	1	1	2	1	1	0	1	3	3	3	3	2	1	0	2	2	1	5	7	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		A	52570738	A	A	52570738	4	1	349	1	0	0	0	0	0	1	0	0	18188	864	30	4	2381	4	ZNF841	19	52570738	Nonsense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	6573066	52570738	6558245	70	17641											
ZNF616	90317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52618234	52618234	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctgagggaaaacaacCgcccaaaggctttgccacat	12	8	10	11	1	0	1	0	1	0	0	0	2	0	2	3	2	4	3	3	2	4	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	52618234	C	T	52618234	3	4	349	1	0	0	0	0	1	0	0	0	18040	652	23	1	166	1	ZNF616	19	52618234	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	47496	52618234	6510749	71	17642											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57325778	57325778	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatgtttagtgaggactgtGctatgaataaaggacttacc	12	14	10	5	0	0	2	0	2	0	0	0	4	0	4	1	2	2	2	1	2	7	6	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	57325778	G	C	57325778	3	2	349	1	0	0	0	0	1	0	0	0	11720	1310	46	4	738	4	PEG3	19	57325778	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08	4707544	57325778	1803205	72	17643											
ZNFX1	57169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47887879	47887879	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgatgaccacctcagaaGggtctttctgcagaagactt	10	11	11	9	0	3	5	1	2	2	3	3	5	3	5	2	1	1	1	2	1	2	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		C	47887879	G	C	47887879	3	2	349	1	0	0	0	0	1	0	0	0	18204	1000	35	4	5334	4	ZNFX1	20	47887879	Missense_Mutation	SNP	G	TCGA-BP-5198-01A-01D-1429-08		47887879	15137641	73	17644											
C20orf106	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	55101052	55101052	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcagtaacctcaggcttCgaaagtcagagatgcctgca	11	8	12	10	1	2	1	2	0	0	1	3	3	2	1	2	2	3	4	2	2	2	2	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	55101052	C	T	55101052	4	4	349	1	0	0	0	0	0	1	0	0	2076	876	31	1	448	1	C20orf106	20	55101052	Nonsense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	7213173	55101052	7924468	74	17645											
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21075676	21075676	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagctgggatttagacgctgCccacagaatatactcccgca	12	8	9	12	2	0	2	0	0	0	2	1	3	1	3	2	1	3	3	2	1	5	4	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		T	21075676	C	T	21075676	3	4	349	1	0	0	0	0	1	0	0	0	11873	739	26	2	1334	2	PI4KA	22	21075676	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08		21075676	30228890	75	17646											
TMPRSS6	164656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37462221	37462221	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggccccagctgaccagccCcgccaggaaccagcggccac	9	1	11	20	2	0	1	0	1	0	0	0	2	0	2	8	3	4	1	8	3	1	0	novel		TCGA-BP-5198-01A-01D-1429-08	TCGA-BP-5198-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ac66d658-97d4-416b-8028-0077a1c8a01d	7c55a5d6-c39b-465f-9ff9-bdb754beea82		G	37462221	C	G	37462221	3	3	349	1	0	0	0	0	1	0	0	0	16250	623	22	4	104	4	TMPRSS6	22	37462221	Missense_Mutation	SNP	C	TCGA-BP-5198-01A-01D-1429-08	16386545	37462221	13842345	76	17647											
CLCN6	1185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11876723	11876723	+	Missense_Mutation	SNP	G	G	A																															tggtggtgtttgccattggaGtctgcactggcctggtgagg																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	11876723	G	A	11876723	3	1	350	1	0	0	0	0	1	0	0	0	3467	1029	36	2	279	2	CLCN6	1	11876723	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08		11876723	237373898	1	17648	241	2									
CLCN6	1185	broad.mit.edu;hgsc.bcm.edu	37	chr1	11876724	11876724	+	Missense_Mutation	SNP	T	T	C																															ggtggtgtttgccattggagTctgcactggcctggtgagga																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	11876724	T	C	11876724	3	2	350	1	0	0	0	0	1	0	0	0	3467	1667	58	3	280	3	CLCN6	1	11876724	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	1	11876724	237373897	2	17649	241	2									
ARID1A	8289	hgsc.bcm.edu	37	chr1	27106455	27106455	+	Silent	SNP	A	A	C																															ctgctgcaccacaagcacccAgaacggaagcaggcaccact																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	27106455	A	C	27106455	2	2	350	1	0	0	0	0	0	0	0	1	913	175	7	5		5	ARID1A	1	27106455	Silent	SNP	A	TCGA-BP-5199-01A-01D-1429-08	15229731	27106455	222144166	3	17650	242	2									
ARID1A	8289	hgsc.bcm.edu;ucsc.edu	37	chr1	27106460	27106460	+	Frame_Shift_Del	DEL	G	G	-																															gcaccacaagcacccagaacGgaagcaggcaccactaactt																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	27106460	G	-	27106460	7	5	350	1	0	1	0	1	0	0	0	0	913	1116	39	0	6149	0	ARID1A	1	27106460	Frame_Shift_Del	DEL	G	TCGA-BP-5199-01A-01D-1429-08	5	27106460	222144161	4	17651	242	2									
MAP3K6	9064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27690800	27690800	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaccagcccatcagccaggCcccgcagaaggcctgcatca	10	4	10	17	1	2	1	2	0	0	1	2	1	2	1	6	2	4	3	6	2	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	27690800	C	A	27690800	3	1	350	1	0	0	0	0	1	0	0	0	9254	739	26	4	3380	4	MAP3K6	1	27690800	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	584340	27690800	221559821	5	17652											
DNAJB4	11080	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78481811	78481811	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaattattggatatgggctGccatttccaaaaaatcctga	14	12	8	7	0	0	2	0	1	0	1	2	3	2	3	3	2	1	1	3	2	6	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	78481811	G	A	78481811	2	1	350	1	0	0	0	0	0	0	0	1	4622	1306	46	2		2	DNAJB4	1	78481811	Silent	SNP	G	TCGA-BP-5199-01A-01D-1429-08	50791011	78481811	170768810	6	17653											
ZNF687	57592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151263418	151263418	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctttgcctcccctggctcCctgagccgacaccgtttcat	4	12	8	17	2	1	1	1	1	0	0	3	2	3	1	6	1	3	3	6	1	0	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	151263418	C	A	151263418	2	1	350	1	0	0	0	0	0	0	0	1	18091	610	22	4		4	ZNF687	1	151263418	Silent	SNP	C	TCGA-BP-5199-01A-01D-1429-08	72781607	151263418	97987203	7	17654											
KLHL20	27252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	173703125	173703125	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgagctatgtttacaggAgaattggcagagagccgtca	11	10	12	8	2	1	2	1	0	0	2	2	5	2	2	2	2	3	3	2	2	3	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	173703125	A	T	173703125	2	4	350	1	0	0	0	0	0	0	0	1	8375	291	11	5		5	KLHL20	1	173703125	Silent	SNP	A	TCGA-BP-5199-01A-01D-1429-08	22439707	173703125	75547496	8	17655											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186113746	186113746	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccagacagagaacaagggGctgctccgaccctgtgcccc	9	5	12	15	1	0	2	0	0	0	2	1	4	1	2	5	2	4	2	5	2	2	0	rs149329415	alternate_allele	TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	186113746	G	T	186113746	3	4	350	1	0	0	0	0	1	0	0	0	7220	1203	42	4	14539	4	HMCN1	1	186113746	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	12410621	186113746	63136875	9	17656											
ASPM	259266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197091068	197091068	+	Missense_Mutation	SNP	T	T	C																															atggcgtttgagatctgtttTtagtttatattttctccatg																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	197091068	T	C	197091068	3	2	350	1	0	0	0	0	1	0	0	0	1056	1850	64	3	6638	3	ASPM	1	197091068	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	10977322	197091068	52159553	10	17657	243	2									
ASPM	259266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197091070	197091070	+	Missense_Mutation	SNP	A	A	G																															ggcgtttgagatctgtttttAgtttatattttctccatgtt																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	197091070	A	G	197091070	3	3	350	1	0	0	0	0	1	0	0	0	1056	420	15	3	6640	3	ASPM	1	197091070	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08	2	197091070	52159551	11	17658	243	2									
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201029896	201029896	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtatgggtttttgggaaTgtagcacctcagtgggcggg	6	12	17	6	1	1	0	1	0	0	0	1	1	1	1	1	5	1	4	1	5	3	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	201029896	T	G	201029896	3	3	350	1	0	0	0	0	1	0	0	0	2547	1464	51	5	2393	5	CACNA1S	1	201029896	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	3938826	201029896	48220725	12	17659											
PQLC3	130814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11312070	11312070	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctatgtactttcatcaGcgcggccagtaagtttgcac	10	12	9	10	2	3	0	2	0	1	0	3	1	3	0	1	1	3	4	1	1	4	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	11312070	G	A	11312070	3	1	350	1	0	0	0	0	1	0	0	0	12422	971	34	2	392	2	PQLC3	2	11312070	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08		11312070	231887303	13	17660											
ZNF513	130557	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27601531	27601531	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggtagggcttctcgccaGtgtgggtgcgggtatgtcgt	4	11	18	8	4	1	0	0	0	1	0	3	0	1	0	1	4	2	3	1	4	2	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	27601531	G	A	27601531	3	1	350	1	0	0	0	0	1	0	0	0	17957	1029	36	2	1031	2	ZNF513	2	27601531	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	16289461	27601531	215597842	14	17661											
VWA3B	200403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	98914472	98914472	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcacgcctgtggggggcgCcatgccctgcccgctgctcc	3	7	13	18	3	1	0	1	0	0	0	2	0	2	0	5	3	3	2	5	3	0	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	98914472	C	A	98914472	3	1	350	1	0	0	0	0	1	0	0	0	17240	739	26	4	3350	4	VWA3B	2	98914472	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	71312941	98914472	144284901	15	17662											
MGAT5	4249	broad.mit.edu;hgsc.bcm.edu	37	chr2	135076310	135076310	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttttatttacctcagtgaGgtgagtagctttctgtggct	6	19	10	6	0	2	2	1	2	1	0	2	2	2	2	1	2	2	3	1	2	3	7	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	135076310	G	C	135076310	3	2	350	1	0	0	0	0	1	0	0	0	9548	1014	35	4	587	4	MGAT5	2	135076310	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	36161838	135076310	108123063	16	17663											
VHL	7428	hgsc.bcm.edu	37	chr3	10183840	10183844	+	Frame_Shift_Del	DEL	TGGCA	TGGCA	-																															ccctacccaacgctgccgccTggcacgggccgccgcatcca																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	TGGCA	TGGCA	TGGCA	-	TGGCA	TGGCA	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	10183844	TGGCA	-	10183840	7	5	350	1	0	1	0	1	0	0	0	0	17161	1567	55	0	311	0	VHL	3	10183840	Frame_Shift_Del	DEL	TGGCA	TCGA-BP-5199-01A-01D-1429-08		10183840	187838590	17	17664											
C4orf21	55345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	113510905	113510905	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgagaaaatgaagatcAtcaggtaaagttcttgcttt	15	13	9	4	0	3	3	2	2	1	2	3	4	3	3	0	1	1	4	0	1	6	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	113510905	A	G	113510905	2	3	350	1	0	0	0	0	0	0	0	1	2254	214	8	3		3	C4orf21	4	113510905	Silent	SNP	A	TCGA-BP-5199-01A-01D-1429-08		113510905	77643371	18	17665											
C4orf21	55345	hgsc.bcm.edu;ucsc.edu	37	chr4	113540563	113540564	+	Frame_Shift_Ins	INS	-	-	A																															attgacaggtgagcaaaaatINSaattttcttcacacagcact																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	113540564	-	A	113540563	7	5	350	1	0	1	1	0	0	0	0	0	2254	1406	49	0	5771	0	C4orf21	4	113540563	Frame_Shift_Ins	INS	-	TCGA-BP-5199-01A-01D-1429-08	29658	113540563	77613713	19	17666											
TRIP13	9319	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	916051	916051	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctcagcggccgggtcctgaGaaaactcccctttctggctc	6	9	10	16	2	2	1	1	1	1	1	5	2	4	1	5	3	2	1	5	3	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	916051	G	C	916051	3	2	350	1	0	0	0	0	1	0	0	0	16556	942	33	4	1216	4	TRIP13	5	916051	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08		916051	179999209	20	17667											
RASA1	5921	hgsc.bcm.edu;ucsc.edu	37	chr5	86627234	86627238	+	Frame_Shift_Del	DEL	TTATC	TTATC	-																															caggcagggaagtctggcagTtatcttataagagagagtga																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	TTATC	TTATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	86627238	TTATC	-	86627234	7	5	350	1	0	1	0	1	0	0	0	0	13062	1722	60	0	627	0	RASA1	5	86627234	Frame_Shift_Del	DEL	TTATC	TCGA-BP-5199-01A-01D-1429-08	85711183	86627234	94288026	21	17668											
PCDHA9	9752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140229361	140229361	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgagctggtggttaccgcGcgggacgggggctcgccttc	4	8	17	12	6	0	0	0	0	0	0	2	2	0	1	2	5	3	3	2	5	2	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	140229361	G	A	140229361	2	1	350	1	0	0	0	0	0	0	0	1	11531	1074	38	1		1	PCDHA9	5	140229361	Silent	SNP	G	TCGA-BP-5199-01A-01D-1429-08	53602127	140229361	40685899	22	17669											
FAT2	2196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150905349	150905349	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatctgaagctgataccAttcctgagccctcctgctta	8	12	8	13	0	1	3	0	3	1	0	3	4	3	4	4	1	4	2	4	1	3	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	150905349	A	G	150905349	3	3	350	1	0	0	0	0	1	0	0	0	5690	217	8	3	2591	3	FAT2	5	150905349	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08	10675988	150905349	30009911	23	17670											
MAK	4117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	10802230	10802230	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtttttaagtttataggAacacactggggaaaacggaa	16	10	11	4	1	0	1	0	0	0	1	0	4	0	4	0	4	2	2	0	4	7	6	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	10802230	A	T	10802230	2	4	350	1	0	0	0	0	0	0	0	1	9197	233	9	5		5	MAK	6	10802230	Silent	SNP	A	TCGA-BP-5199-01A-01D-1429-08		10802230	160312837	24	17671											
ZNF318	24149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43305844	43305844	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctcccaggtctctggcctCttcttgttttcatcccaaac	5	15	5	16	0	5	0	1	0	4	0	8	0	6	0	3	2	1	1	3	2	1	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	43305844	C	T	43305844	2	4	350	1	0	0	0	0	0	0	0	1	17835	912	32	2		2	ZNF318	6	43305844	Silent	SNP	C	TCGA-BP-5199-01A-01D-1429-08	32503614	43305844	127809223	25	17672											
SDK1	221935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	4014046	4014046	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgactccatcgagcacGtctaggatcgtggtggagaa	9	8	13	11	3	1	2	0	1	1	1	4	5	2	3	2	3	1	1	2	3	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	4014046	G	A	4014046	2	1	350	1	0	0	0	0	0	0	0	1	13970	1132	40	1		1	SDK1	7	4014046	Silent	SNP	G	TCGA-BP-5199-01A-01D-1429-08		4014046	155124617	26	17673											
TNRC18	84629	broad.mit.edu	37	chr7	5352561	5352563	+	In_Frame_Del	DEL	GAG	-	-																															aggaggatgaggacgaggaaGaggaggaggaggaagaggag																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	5352563	-	-	5352561	7	5	350	1	0	1	0	1	0	0	0	0	16338	942	33	0	961	0	TNRC18	7	5352561	In_Frame_Del	DEL	GAG	TCGA-BP-5199-01A-01D-1429-08	1338515	5352561	153786102	27	17674											
WBSCR17	64409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	70886059	70886059	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcagccccccaaaagactgGtgggacgccggagacccttc	10	5	11	15	2	1	2	1	0	0	2	2	4	1	3	5	3	1	0	5	3	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	70886059	G	T	70886059	3	4	350	1	0	0	0	0	1	0	0	0	17263	1270	44	4	948	4	WBSCR17	7	70886059	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	65533498	70886059	88252604	28	17675											
ZNF3	7551	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99669413	99669413	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgaaggccttcccacactCattacattcatagggctttt	9	13	7	12	0	2	1	2	1	0	0	3	1	3	1	2	2	1	2	2	2	3	6	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	99669413	C	T	99669413	3	4	350	1	0	0	0	0	1	0	0	0	17828	835	29	2	779	2	ZNF3	7	99669413	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	28783354	99669413	59469250	29	17676											
TBXAS1	6916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	139529248	139529248	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatggtgacggtggcccTgtcagtggctctcttggccc	3	10	13	15	1	2	1	1	1	1	0	3	1	2	1	4	5	0	1	4	5	0	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	139529248	T	C	139529248	3	2	350	1	0	0	0	0	1	0	0	0	15663	1580	55	3	64	3	TBXAS1	7	139529248	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	39859835	139529248	19609415	30	17677											
GIMAP6	474344	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150325294	150325294	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccgtgaaccggcccagtTgtgtcaccaggagcacggcg	8	6	13	14	4	1	1	1	1	0	0	2	2	2	2	4	3	2	2	4	3	1	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	150325294	T	C	150325294	3	2	350	1	0	0	0	0	1	0	0	0	6383	1812	63	3	490	3	GIMAP6	7	150325294	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	10796046	150325294	8813369	31	17678											
SHH	6469	broad.mit.edu;hgsc.bcm.edu	37	chr7	155596300	155596300	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcagccggccctggtcgTccgccgccagcacgcggtcc	5	4	14	18	6	0	1	0	0	0	1	3	1	2	1	6	3	3	2	6	3	0	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	155596300	T	C	155596300	3	2	350	1	0	0	0	0	1	0	0	0	14281	1667	58	3	709	3	SHH	7	155596300	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	5271006	155596300	3542363	32	17679											
RPL30	6156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	99054891	99054891	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggatcaatgatagccaGtgtgcacactctgtagtatt	11	12	9	9	0	2	1	1	1	1	0	2	2	2	2	2	1	2	3	2	1	4	4	rs9879	alternate_allele	TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	99054891	G	C	99054891	3	2	350	1	0	0	0	0	1	0	0	0	13582	1020	36	4	75	4	RPL30	8	99054891	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08		99054891	47309131	33	17680											
TMEM2	23670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	74305109	74305109	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggaacgctgcacggatcCacaacaaggaggaggacgcc	14	3	13	11	3	0	0	0	0	0	0	1	5	1	5	2	5	3	2	2	5	4	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	74305109	C	T	74305109	2	4	350	1	0	0	0	0	0	0	0	1	16120	581	21	2		2	TMEM2	9	74305109	Silent	SNP	C	TCGA-BP-5199-01A-01D-1429-08		74305109	66908322	34	17681											
SLC34A3	142680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140126522	140126522	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcaattctacctccacAgggacctccagttctgctcc	8	11	6	16	0	3	0	1	0	2	0	6	1	6	1	5	1	3	3	5	1	3	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	140126522	A	T	140126522	5	4	350	1	0	0	0	0	0	0	1	0	14571	202	7	5	90	5	SLC34A3	9	140126522	Splice_Site	SNP	A	TCGA-BP-5199-01A-01D-1429-08	65821413	140126522	1086909	35	17682											
FBXO18	84893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5937075	5937075	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataatgggctacattgcgcaGggcccctgggccatctccac	8	8	11	14	1	1	0	0	0	1	0	2	0	1	0	4	3	2	2	4	3	2	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	5937075	G	T	5937075	3	4	350	1	0	0	0	0	1	0	0	0	5731	1000	35	4	90	4	FBXO18	10	5937075	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08		5937075	129597672	36	17683											
ZEB1	6935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	31810616	31810616	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaggacagttgtgttacaGactcagaaccagttgtaaat	16	10	9	6	0	1	2	1	0	0	2	1	3	1	3	1	1	2	4	1	1	6	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	31810616	G	A	31810616	3	1	350	1	0	0	0	0	1	0	0	0	17622	942	33	2	2393	2	ZEB1	10	31810616	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	25873541	31810616	103724131	37	17684											
CBARA1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	74326491	74326491	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgggctgtgatcctccatGgtaccatcgagaacccacag	10	8	11	12	1	0	2	0	1	0	1	3	4	2	2	4	2	2	2	4	2	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	74326491	G	T	74326491	3	4	350	1	0	0	0	0	1	0	0	0	2696	1348	47	4	1419	4	CBARA1	10	74326491	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	42515875	74326491	61208256	38	17685											
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89720677	89720677	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtttcacttttgggtaaaTacattcttcataccaggacc	11	15	6	9	0	3	0	2	0	1	0	3	1	3	1	2	2	2	2	2	2	4	8	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	89720677	T	G	89720677	3	3	350	1	0	0	0	0	1	0	0	0	12740	1403	49	5	858	5	PTEN	10	89720677	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	15394186	89720677	45814070	39	17686											
PTEN	5728	broad.mit.edu	37	chr10	89720741	89720741	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaatggaagtctatgtgatCaagaaatcgatagcatttgc	16	11	9	5	1	2	2	1	1	1	1	3	4	2	3	0	1	2	1	0	1	7	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	89720741	T	T	89720741	4	4	350	1	0	0	0	0	0	1	0	0	12740	827	29	2	922	2	PTEN	10	89720741	Nonsense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	64	89720741	45814006	40	17687											
GBF1	8729	broad.mit.edu;ucsc.edu	37	chr10	104121490	104121490	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagatgtacatcaaaaagCttatggagatcatcactgtg	14	10	9	8	0	3	2	3	0	0	2	3	3	3	2	1	1	2	2	1	1	4	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	104121490	G	G	104121490	3	3	350	1	0	0	0	0	1	0	0	0	6271	797	28	4	1554	4	GBF1	10	104121490	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	14400749	104121490	31413257	41	17688											
SHOC2	8036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	112764372	112764372	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttttacagagtcttttAtcaagtcttgtgaaactgaa	11	19	6	5	0	3	3	1	2	2	1	3	3	3	3	0	0	2	0	0	0	5	7	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	112764372	A	G	112764372	2	3	350	1	0	0	0	0	0	0	0	1	14289	446	16	3		3	SHOC2	10	112764372	Silent	SNP	A	TCGA-BP-5199-01A-01D-1429-08	8642882	112764372	22770375	42	17689											
ZFP91	80829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	58377371	58377371	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtttccattgctgcatctAgacctagccggggctggcgt	7	11	12	11	2	1	1	0	0	1	1	2	1	2	1	3	3	3	4	3	3	3	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	58377371	A	G	58377371	3	3	350	1	0	0	0	0	1	0	0	0	17654	412	15	3	449	3	ZFP91	11	58377371	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08		58377371	76629145	43	17690											
SLC22A12	116085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64368297	64368297	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggtgtccatggcccctgGctgcccttgctggtgtatgg	2	12	15	12	0	0	0	0	0	0	0	1	0	1	0	4	5	2	3	4	5	1	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	64368297	G	T	64368297	3	4	350	1	0	0	0	0	1	0	0	0	14445	1212	42	4	1519	4	SLC22A12	11	64368297	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	5990926	64368297	70638219	44	17691											
PPP2R1B	5519	hgsc.bcm.edu;ucsc.edu	37	chr11	111624250	111624251	+	Frame_Shift_Del	DEL	TT	TT	-																															aatagtagacaatcccataaTtacagaagctagagccgatt																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	111624251	TT	-	111624250	7	5	350	1	0	1	0	1	0	0	0	0	12385	1493	52	0	975	0	PPP2R1B	11	111624250	Frame_Shift_Del	DEL	TT	TCGA-BP-5199-01A-01D-1429-08	47255953	111624250	23382266	45	17692											
FOXRED1	55572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	126142904	126142904	+	Missense_Mutation	SNP	G	G	T																															gctctcagtaggtgggatttGtcagcagttctcattgcctg																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	126142904	G	T	126142904	3	4	350	1	0	0	0	0	1	0	0	0	6033	1377	48	4	357	4	FOXRED1	11	126142904	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	14518654	126142904	8863612	46	17693	244	2									
FOXRED1	55572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	126142905	126142905	+	Nonsense_Mutation	SNP	T	T	A																															ctctcagtaggtgggatttgTcagcagttctcattgcctga																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	126142905	T	A	126142905	4	1	350	1	0	0	0	0	0	1	0	0	6033	1673	58	5	358	5	FOXRED1	11	126142905	Nonsense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	1	126142905	8863611	47	17694	244	2									
WNK1	65125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	993869	993869	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttgtctcactctgcatcatCccttagtctacaacaggcct	8	13	5	15	0	4	0	2	0	3	0	6	0	5	0	2	1	3	1	2	1	3	3	rs143361850	alternate_allele	TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	993869	C	G	993869	3	3	350	1	0	0	0	0	1	0	0	0	17376	855	30	4	5475	4	WNK1	12	993869	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08		993869	132858026	48	17695											
ACVRL1	94	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52312803	52312803	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagaccacccttctatgaTgtggtgcccaatgaccccag	10	10	8	13	0	1	3	0	2	1	1	1	3	1	3	5	1	1	0	5	1	4	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	52312803	T	C	52312803	2	2	350	1	0	0	0	0	0	0	0	1	225	1461	51	3		3	ACVRL1	12	52312803	Silent	SNP	T	TCGA-BP-5199-01A-01D-1429-08	51318934	52312803	81539092	49	17696											
KRT75	9119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52827998	52827998	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagagacagagctgaagcGggagcggccagctgccgggg	10	2	18	11	3	0	3	0	1	0	2	0	5	0	4	2	4	5	2	2	4	1	0	rs148964521		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	52827998	G	A	52827998	3	1	350	1	0	0	0	0	1	0	0	0	8488	1116	39	1	1600	1	KRT75	12	52827998	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	515195	52827998	81023897	50	17697											
COQ10A	93058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56663289	56663289	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaccacttagagactattTggcgattcagccctggtatt	10	13	8	10	1	2	1	2	0	0	1	2	3	2	1	2	2	2	1	2	2	4	6	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	56663289	T	C	56663289	3	2	350	1	0	0	0	0	1	0	0	0	3743	1812	63	3	576	3	COQ10A	12	56663289	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	3835291	56663289	77188606	51	17698											
STAB2	55576	broad.mit.edu;hgsc.bcm.edu	37	chr12	104126850	104126850	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcactctcttctggcccaccGaccaagccctccatgcccta	7	9	5	20	1	3	0	1	0	2	0	5	1	4	0	6	1	2	0	6	1	2	2	rs147807697	by1000genomes;alternate_allele	TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	104126850	G	A	104126850	3	1	350	1	0	0	0	0	1	0	0	0	15239	1058	37	1	5552	1	STAB2	12	104126850	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	47463561	104126850	29725045	52	17699											
SKA3	221150	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	21742170	21742170	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagtcccattgtgtaatcttCatttaaacacatagtatatt	14	16	4	7	0	2	0	1	0	1	0	3	0	3	0	1	0	1	2	1	0	7	9	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	21742170	C	T	21742170	3	4	350	1	0	0	0	0	1	0	0	0	14356	835	29	2	609	2	SKA3	13	21742170	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08		21742170	93427708	53	17700											
GPR12	2835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	27333002	27333002	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctctgggcgagactggaCgggatgcagccgcagcaaat	9	6	15	11	3	1	1	0	0	1	1	2	4	1	3	1	3	3	4	1	3	1	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	27333002	C	T	27333002	2	4	350	1	0	0	0	0	0	0	0	1	6635	523	19	1		1	GPR12	13	27333002	Silent	SNP	C	TCGA-BP-5199-01A-01D-1429-08	5590832	27333002	87836876	54	17701											
GOLGA5	9950	hgsc.bcm.edu;ucsc.edu	37	chr14	93299661	93299665	+	Frame_Shift_Del	DEL	GATTA	GATTA	-																															agtagtagtaatgggtcttcGattaatatgtctggaattga																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	GATTA	GATTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	93299665	GATTA	-	93299661	7	5	350	1	0	1	0	1	0	0	0	0	6556	1045	37	0	1948	0	GOLGA5	14	93299661	Frame_Shift_Del	DEL	GATTA	TCGA-BP-5199-01A-01D-1429-08		93299661	14049879	55	17702											
EIF2AK4	440275	broad.mit.edu;hgsc.bcm.edu	37	chr15	40268968	40268968	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggccagtgcccgtttcccCgccaccggcccgggctccag	3	6	12	20	5	0	0	0	0	0	0	3	0	2	0	8	3	1	2	8	3	0	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	40268968	C	A	40268968	2	1	350	1	0	0	0	0	0	0	0	1	4999	639	23	4		4	EIF2AK4	15	40268968	Silent	SNP	C	TCGA-BP-5199-01A-01D-1429-08		40268968	62262424	56	17703											
SQRDL	58472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45962137	45962137	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgcagatctcctaccgAtatcttattattgctctcgg	7	16	8	10	2	3	1	0	0	3	1	5	2	3	1	2	1	3	3	2	1	4	6	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	45962137	A	G	45962137	2	3	350	1	0	0	0	0	0	0	0	1	15130	320	12	3		3	SQRDL	15	45962137	Silent	SNP	A	TCGA-BP-5199-01A-01D-1429-08	5693169	45962137	56569255	57	17704											
ADAM10	102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	58904077	58904077	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggtcagatgctgggcagAgagctgtgaagccattacat	11	9	14	7	0	1	3	1	1	0	2	1	4	1	3	1	2	4	3	1	2	3	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	58904077	A	G	58904077	3	3	350	1	0	0	0	0	1	0	0	0	234	304	11	3	641	3	ADAM10	15	58904077	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08	12941940	58904077	43627315	58	17705											
ZNF609	23060	hgsc.bcm.edu;ucsc.edu	37	chr15	64967277	64967280	+	Frame_Shift_Del	DEL	GAAA	GAAA	-																															aggaatcttcaaaggaacttGaaagtcctctgacccctggg																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	GAAA	GAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	64967280	GAAA	-	64967277	7	5	350	1	0	1	0	1	0	0	0	0	18034	1291	45	0	2238	0	ZNF609	15	64967277	Frame_Shift_Del	DEL	GAAA	TCGA-BP-5199-01A-01D-1429-08	6063200	64967277	37564115	59	17706											
ALPK3	57538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	85405941	85405941	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgctggggggacaagcTctttgggcgactggtaagcg	6	9	18	8	2	1	0	0	0	1	0	1	2	1	1	0	6	3	4	0	6	2	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	85405941	T	C	85405941	3	2	350	1	0	0	0	0	1	0	0	0	546	1551	54	3	4849	3	ALPK3	15	85405941	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	20438664	85405941	17125451	60	17707											
SRRM2	23524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2809634	2809634	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcaacttctgctgactctGcttcctcctccgatacttcc	5	15	5	16	1	3	1	1	1	2	0	7	2	7	1	4	0	4	3	4	0	2	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	2809634	G	T	2809634	3	4	350	1	0	0	0	0	1	0	0	0	15170	1319	46	4	835	4	SRRM2	16	2809634	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08		2809634	87545119	61	17708											
UBN1	29855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4920562	4920562	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagctcaaggaagccattGgcagggcgatgccagagcag	13	4	15	9	1	1	2	1	0	0	2	1	4	1	3	2	3	4	3	2	3	3	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	4920562	G	T	4920562	3	4	350	1	0	0	0	0	1	0	0	0	16891	1348	47	4	1391	4	UBN1	16	4920562	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	2110928	4920562	85434191	62	17709											
PYCARD	29108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31213020	31213020	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaactgaagagcttccgcatCttgcttgggttggtgggctc	7	12	13	9	1	1	2	0	1	1	1	3	2	2	2	1	3	3	5	1	3	2	4	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	31213020	C	G	31213020	3	3	350	1	0	0	0	0	1	0	0	0	12856	912	32	4	117	4	PYCARD	16	31213020	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	26292458	31213020	59141733	63	17710											
FTO	79068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53878083	53878083	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggccctgaagaggaaagTgaggatgactctcatctcga	12	7	13	9	1	2	4	1	3	2	1	4	7	2	6	1	3	0	1	1	3	2	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	53878083	T	G	53878083	3	3	350	1	0	0	0	0	1	0	0	0	6086	1693	59	5	782	5	FTO	16	53878083	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	22665063	53878083	36476670	64	17711											
PLEKHG4	25894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67318935	67318935	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctgcacctgcccaccctcCcctgaggaaggcctacagct	7	6	9	19	1	0	1	0	1	0	0	1	2	1	2	6	2	4	3	6	2	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	67318935	C	T	67318935	3	4	350	1	0	0	0	0	1	0	0	0	12071	623	22	2	2058	2	PLEKHG4	16	67318935	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	13440852	67318935	23035818	65	17712											
LCAT	3931	hgsc.bcm.edu;ucsc.edu	37	chr16	67974104	67974117	+	Frame_Shift_Del	DEL	GCCCACGCCGTAAA	GCCCACGCCGTAAA	-																															taggtgcggggcgtgggcagGcccacgccgtaaagacagta																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	GCCCACGCCGTAAA	GCCCACGCCGTAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	67974117	GCCCACGCCGTAAA	-	67974104	7	5	350	1	0	1	0	1	0	0	0	0	8658	1190	42	0	300	0	LCAT	16	67974104	Frame_Shift_Del	DEL	GCCCACGCCGTAAA	TCGA-BP-5199-01A-01D-1429-08	655169	67974104	22380649	66	17713											
ZNF276	92822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89789584	89789584	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggggcagaggagggagcGtgtctgggtgagtcctcccc	7	6	18	10	1	1	2	0	1	1	1	3	4	3	4	3	5	1	1	3	5	0	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	89789584	G	A	89789584	2	1	350	1	0	0	0	0	0	0	0	1	17810	1132	40	1		1	ZNF276	16	89789584	Silent	SNP	G	TCGA-BP-5199-01A-01D-1429-08	21815480	89789584	565169	67	17714											
RILP	83547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1549792	1549792	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcgtggagggcagaacAgggcggatcaggagctggag	9	6	20	6	2	1	1	1	0	0	1	2	5	1	5	0	6	2	3	0	6	1	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	1549792	A	T	1549792	3	4	350	1	0	0	0	0	1	0	0	0	13362	188	7	5	59	5	RILP	17	1549792	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08		1549792	79645418	68	17715											
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10369589	10369589	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcgttgaaagggtgctcaCgtagatcatccaggctgcgt	9	10	13	9	3	2	2	2	1	0	1	3	2	3	2	1	2	3	4	1	2	3	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	10369589	C	T	10369589	5	4	350	1	0	0	0	0	0	0	1	0	10037	550	19	1	5618	1	MYH4	17	10369589	Splice_Site	SNP	C	TCGA-BP-5199-01A-01D-1429-08	8819797	10369589	70825621	69	17716											
HAP1	9001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39884564	39884564	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacctccgacagctcagcCatctgttggctggcctccgc	6	8	10	17	2	2	0	1	0	1	0	4	1	4	0	5	2	3	4	5	2	0	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	39884564	C	A	39884564	3	1	350	1	0	0	0	0	1	0	0	0	6953	594	21	4	790	4	HAP1	17	39884564	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	29514975	39884564	41310646	70	17717											
TOM1L1	10040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	53027421	53027421	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcgatgacaaaaagtgAtctccagccacctaattact	16	8	6	11	1	1	2	0	2	1	0	2	3	1	2	3	0	3	0	3	0	5	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	53027421	A	G	53027421	3	3	350	1	0	0	0	0	1	0	0	0	16351	333	12	3	1358	3	TOM1L1	17	53027421	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08	13142857	53027421	28167789	71	17718											
PSMC5	5705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61908394	61908394	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagctcggcctccacacAggggcaagaatggtgaggga	11	4	14	12	1	0	2	0	1	0	1	2	3	1	3	3	5	1	2	3	5	2	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	61908394	A	G	61908394	5	3	350	1	0	0	0	0	0	0	1	0	12692	202	7	3	708	3	PSMC5	17	61908394	Splice_Site	SNP	A	TCGA-BP-5199-01A-01D-1429-08	8880973	61908394	19286816	72	17719											
SLC39A6	25800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33706569	33706569	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttttaccagaagcagcAtgattatggtgagagtgatg	12	14	11	4	0	0	4	0	3	0	2	0	5	0	4	1	1	3	2	1	1	4	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	33706569	A	C	33706569	3	2	350	1	0	0	0	0	1	0	0	0	14624	214	8	5	1913	5	SLC39A6	18	33706569	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08		33706569	44370679	73	17720											
ZNF653	115950	broad.mit.edu;hgsc.bcm.edu	37	chr19	11597661	11597661	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctcgagcaggccgtcagCatccatcacccgcgaccgct	8	6	9	18	5	3	0	2	0	1	0	5	2	4	0	4	1	2	3	4	1	0	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	11597661	C	A	11597661	3	1	350	1	0	0	0	0	1	0	0	0	18065	710	25	4	485	4	ZNF653	19	11597661	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08		11597661	47531322	74	17721											
SSBP4	170463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18543023	18543023	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcctgcctgccatgaacAtgtaagaccctgggggatcc	9	7	12	13	0	0	2	0	1	0	1	1	3	1	3	5	3	3	1	5	3	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		G	18543023	A	G	18543023	3	3	350	1	0	0	0	0	1	0	0	0	15183	231	8	3	741	3	SSBP4	19	18543023	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08	6945362	18543023	40585960	75	17722											
ZNF780A	284323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40582092	40582092	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttctggagatactttcTcaggtccatattttaactcc	9	17	5	10	0	2	1	1	0	2	1	5	2	4	1	2	2	2	0	2	2	3	7	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		C	40582092	T	C	40582092	3	2	350	1	0	0	0	0	1	0	0	0	18151	1551	54	3	1799	3	ZNF780A	19	40582092	Missense_Mutation	SNP	T	TCGA-BP-5199-01A-01D-1429-08	22039069	40582092	18546891	76	17723											
PSG1	5669	broad.mit.edu	37	chr19	43348720	43348720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtaaaggttttgtcctgaaCggtaataggtgaatgaaggg	13	11	14	3	1	0	3	0	3	0	0	1	3	1	3	1	4	1	3	1	4	7	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	43348720	T	T	43348720	3	4	350	1	0	0	0	0	1	0	0	0	12655	551	19	1		1	PSG1	19	43348720	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	2766628	43348720	15780263	77	17724											
GLTSCR1	29998	broad.mit.edu;hgsc.bcm.edu	37	chr19	48198183	48198183	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccggaatcatcctccagaaCaaggctgggggggcccctgc	8	6	13	14	1	1	1	1	0	0	1	4	2	4	2	5	5	2	1	5	5	3	0	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	48198183	C	A	48198183	3	1	350	1	0	0	0	0	1	0	0	0	6474	477	17	4	2948	4	GLTSCR1	19	48198183	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08	4849463	48198183	10930800	78	17725											
PRR12	57479	hgsc.bcm.edu	37	chr19	50099021	50099021	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagcccccagctactcaGggggccccccacagcccccc	8	2	9	22	0	1	0	1	0	0	0	1	0	1	0	8	2	4	2	8	2	2	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	50099021	G	A	50099021	3	1	350	1	0	0	0	0	1	0	0	0	12586	1000	35	2	1443	2	PRR12	19	50099021	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	1900838	50099021	9029962	79	17726											
CLEC11A	6320	broad.mit.edu;hgsc.bcm.edu	37	chr19	51228703	51228703	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccagcggcgtctctactaCgtctgcgagttccccttcta	5	12	9	15	4	3	0	0	0	3	0	5	1	4	0	3	1	5	1	3	1	3	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	51228703	C	T	51228703	2	4	350	1	0	0	0	0	0	0	0	1	3496	547	19	1		1	CLEC11A	19	51228703	Silent	SNP	C	TCGA-BP-5199-01A-01D-1429-08	1129682	51228703	7900280	80	17727											
CYB5R3	1727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	43024287	43024287	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgggtgtccttgaagtaaaCctgcaagacacccccgcagc	11	7	10	13	1	0	2	0	1	0	1	1	2	1	2	4	1	3	3	4	1	4	2	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	43024287	C	A	43024287	3	1	350	1	0	0	0	0	1	0	0	0	4128	521	18	4	591	4	CYB5R3	22	43024287	Missense_Mutation	SNP	C	TCGA-BP-5199-01A-01D-1429-08		43024287	8280279	81	17728											
MSL3	10943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	11781972	11781973	+	Frame_Shift_Ins	INS	-	-	ATCC																															tctcccgttggttttactctINSatccatatgaacaagctcag																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		ATCC	11781973	-	ATCC	11781972	7	5	350	1	0	1	1	0	0	0	0	0	9879	1522	53	0	853	0	MSL3	23	11781972	Frame_Shift_Ins	INS	-	TCGA-BP-5199-01A-01D-1429-08		11781972	143488588	82	17729											
SMS	6611	broad.mit.edu;hgsc.bcm.edu	37	chrX	22002497	22002497	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgattatgtgattaatGatttgacagctgttccaatc	12	17	7	5	0	0	4	0	4	0	0	2	4	1	4	1	0	1	2	1	0	4	5	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	22002497	G	T	22002497	3	4	350	1	0	0	0	0	1	0	0	0	14815	1290	45	4	856	4	SMS	23	22002497	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	10220525	22002497	133268063	83	17730											
KLHL4	56062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	86890699	86890699	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggagttgccacatacaatGgattcttatatgttgtaggg	10	14	12	5	0	1	0	0	0	1	0	1	2	1	2	1	3	2	3	1	3	5	7	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	86890699	G	A	86890699	3	1	350	1	0	0	0	0	1	0	0	0	8391	1349	47	2	1883	2	KLHL4	23	86890699	Missense_Mutation	SNP	G	TCGA-BP-5199-01A-01D-1429-08	64888202	86890699	68379861	84	17731											
TCEAL4	79921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	102841696	102841696	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacgagagaaagccagaAgtaacttgtactctggaaga	17	6	11	7	1	1	4	0	0	1	4	1	7	1	5	1	1	3	2	1	1	6	3	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		T	102841696	A	T	102841696	3	4	350	1	0	0	0	0	1	0	0	0	15672	69	3	5	95	5	TCEAL4	23	102841696	Missense_Mutation	SNP	A	TCGA-BP-5199-01A-01D-1429-08	15950997	102841696	52428864	85	17732											
COL4A6	1288	broad.mit.edu;hgsc.bcm.edu	37	chrX	107681171	107681171	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtcgtgagaagagactcaCcgctgctgccagttcctcgg	7	8	14	12	3	1	2	1	1	0	2	4	4	2	2	3	2	2	3	3	2	1	1	novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		A	107681171	C	A	107681171	5	1	350	1	0	0	0	0	0	0	1	0	3695	521	18	4	5184	4	COL4A6	23	107681171	Splice_Site	SNP	C	TCGA-BP-5199-01A-01D-1429-08	4839475	107681171	47589389	86	17733											
ZNF280C	55609	hgsc.bcm.edu;ucsc.edu	37	chrX	129354384	129354384	+	Frame_Shift_Del	DEL	T	T	-																															taaatgtacgatgctgcgccTtatgttcagctttctccttg																								novel		TCGA-BP-5199-01A-01D-1429-08	TCGA-BP-5199-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	135f3b77-1474-40d8-87a1-15939136e8cd	59dfbb69-0053-4341-9383-650705585dae		-	129354384	T	-	129354384	7	5	350	1	0	1	0	1	0	0	0	0	17815	1609	56	0	775	0	ZNF280C	23	129354384	Frame_Shift_Del	DEL	T	TCGA-BP-5199-01A-01D-1429-08	21673213	129354384	25916176	87	17734											
MEGF6	1953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	3519075	3519075	+	Frame_Shift_Del	DEL	T	T	-																															cctgccacccacagccggccTtccacaccggcaccgtgtgg																								novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		-	3519075	T	-	3519075	7	5	351	1	0	1	0	1	0	0	0	0	9462	1609	56	0	4548	0	MEGF6	1	3519075	Frame_Shift_Del	DEL	T	TCGA-BP-5200-01A-01D-1429-08		3519075	245731546	1	17735											
PRKACB	5567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	84610143	84610143	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggttatttcatagacaCtctaaaggtactgcacatga	13	11	8	9	1	2	2	1	1	1	1	2	2	2	2	1	2	3	3	1	2	5	5	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	84610143	C	A	84610143	3	1	351	1	0	0	0	0	1	0	0	0	12500	564	20	4	151	4	PRKACB	1	84610143	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	81091068	84610143	164640478	2	17736											
CENPF	1063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214813680	214813680	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatacaacgagagagtaagaAcgctggagatggacagagaa	19	4	13	5	2	0	4	0	0	0	4	0	9	0	5	0	2	3	2	0	2	6	2	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	214813680	A	C	214813680	3	2	351	1	0	0	0	0	1	0	0	0	3231	43	2	5	2041	5	CENPF	1	214813680	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08	130203537	214813680	34436941	3	17737											
OR2B11	127623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247614532	247614532	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaggtagaagagggagacGatcatcaggtgggaggaaca	14	5	18	4	1	2	3	2	0	0	3	2	7	2	5	0	6	1	2	0	6	4	2	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	247614532	G	A	247614532	2	1	351	1	0	0	0	0	0	0	0	1	10988	1048	37	1		1	OR2B11	1	247614532	Silent	SNP	G	TCGA-BP-5200-01A-01D-1429-08	32800852	247614532	1636089	4	17738											
HADHA	3030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	26435464	26435464	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcacagagataaccggcaTcactcccttgctcaattcca	12	10	5	14	1	3	1	3	0	0	1	5	2	5	1	3	1	2	2	3	1	2	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	26435464	T	C	26435464	3	2	351	1	0	0	0	0	1	0	0	0	6943	1435	50	3	1385	3	HADHA	2	26435464	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08		26435464	216763909	5	17739											
MAP4K3	8491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	39564108	39564108	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgtgaagataatataatcCctggagtttcaaaaaacaga	18	10	7	6	0	1	3	1	1	0	2	2	4	2	4	1	1	1	1	1	1	7	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	39564108	C	T	39564108	3	4	351	1	0	0	0	0	1	0	0	0	9261	637	22	2	2433	2	MAP4K3	2	39564108	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	13128644	39564108	203635265	6	17740											
WDR92	116143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	68371743	68371743	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccagtcacaatttcaGgtgctccttctccaattcct	7	13	7	14	0	3	0	2	0	1	0	6	0	5	0	4	2	2	2	4	2	2	3	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	68371743	G	T	68371743	3	4	351	1	0	0	0	0	1	0	0	0	17338	1000	35	4	708	4	WDR92	2	68371743	Missense_Mutation	SNP	G	TCGA-BP-5200-01A-01D-1429-08	28807635	68371743	174827630	7	17741											
DDX18	8886	broad.mit.edu;hgsc.bcm.edu	37	chr2	118578782	118578782	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctctatgtaatcttgtcaAtgaaaacactctgaaggcaa	14	13	6	8	0	4	2	1	2	3	0	5	2	4	2	0	1	1	2	0	1	7	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	118578782	A	G	118578782	3	3	351	1	0	0	0	0	1	0	0	0	4345	101	4	3	574	3	DDX18	2	118578782	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08	50207039	118578782	124620591	8	17742											
RQCD1	9125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219457120	219457120	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctcccatgttgccatgAtcttggtgagttctttcatc	5	18	8	10	0	4	2	1	2	3	0	6	2	4	2	2	1	1	3	2	1	0	5	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	219457120	A	C	219457120	3	2	351	1	0	0	0	0	1	0	0	0	13672	333	12	5	656	5	RQCD1	2	219457120	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08	100878338	219457120	23742253	9	17743											
SLC19A3	80704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228564091	228564091	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggcggcggtgaccatccCatagaagaactctacaacct	11	7	9	14	3	1	3	0	1	1	2	3	3	2	3	3	3	3	0	3	3	5	2	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	228564091	C	A	228564091	3	1	351	1	0	0	0	0	1	0	0	0	14432	594	21	4	1166	4	SLC19A3	2	228564091	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	9106971	228564091	14635282	10	17744											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643743	52643743	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatagagtcaatatcttggTacttgttggccatcatgtga	10	14	9	8	0	3	2	2	1	1	1	3	2	3	2	2	2	1	2	2	2	4	6	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	52643743	T	C	52643743	3	2	351	1	0	0	0	0	1	0	0	0	11491	1638	57	3	2807	3	PBRM1	3	52643743	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08		52643743	145378687	11	17745											
SEPT11	55752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77932908	77932908	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctataagccgatagtagaatAtattgatgcccagttcgagg	13	11	10	7	2	0	2	0	1	0	1	1	4	0	2	2	1	2	2	2	1	7	8	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	77932908	A	G	77932908	3	3	351	1	0	0	0	0	1	0	0	0	14063	449	16	3	373	3	SEPT11	4	77932908	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08		77932908	113221368	12	17746											
FNIP2	57600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159754698	159754698	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttgcaagacagctttgaGtacatcaaccaagatcctaa	15	9	7	10	0	1	3	1	1	0	2	2	3	2	3	2	0	5	4	2	0	5	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	159754698	G	T	159754698	3	4	351	1	0	0	0	0	1	0	0	0	5976	1020	36	4	595	4	FNIP2	4	159754698	Missense_Mutation	SNP	G	TCGA-BP-5200-01A-01D-1429-08	81821790	159754698	31399578	13	17747											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33683193	33683193	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaatgcttgggttatggAacaacccagtgacctagggt	10	10	12	9	0	0	1	0	1	0	0	0	2	0	2	3	3	4	2	3	3	5	3	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	33683193	A	T	33683193	3	4	351	1	0	0	0	0	1	0	0	0	257	246	9	5	4019	5	ADAMTS12	5	33683193	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08		33683193	147232067	14	17748											
ZFYVE16	9765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79769670	79769670	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgatgagaagattgtaaaaTgtaccgaggtaactaagaaa	18	8	10	5	2	0	3	0	1	0	3	0	6	0	3	2	1	2	3	2	1	7	5	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	79769670	T	A	79769670	3	1	351	1	0	0	0	0	1	0	0	0	17663	1464	51	5	4343	5	ZFYVE16	5	79769670	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08	46086477	79769670	101145590	15	17749											
TMCO6	55374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140024201	140024201	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagaaaagggtcctgcttActgccagcggctgtggccag	8	8	14	11	1	0	1	0	0	0	1	1	1	1	1	3	3	5	3	3	3	3	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	140024201	A	G	140024201	3	3	351	1	0	0	0	0	1	0	0	0	15999	391	14	3	1286	3	TMCO6	5	140024201	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08	60254531	140024201	40891059	16	17750											
RGL2	5863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33259932	33259932	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttgatcctgggaaaggAgccccctcctccctcactcg	6	8	10	17	1	1	1	1	1	0	0	5	3	4	3	6	3	1	0	6	3	1	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	33259932	A	G	33259932	3	3	351	1	0	0	0	0	1	0	0	0	13279	304	11	3	56	3	RGL2	6	33259932	Missense_Mutation	SNP	A	TCGA-BP-5200-01A-01D-1429-08		33259932	137855135	17	17751											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56468870	56468870	+	Intron	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttcttccatcatctcaGatgtagaacatgctttttga	9	17	6	9	0	3	3	2	1	2	2	5	3	4	3	1	0	2	3	1	0	2	6	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	56468870	G	T	56468870	1	4	351	0	1	0	0	0	0	0	0	0	4783	957	33	4		4	DST	6	56468870	Intron	SNP	G	TCGA-BP-5200-01A-01D-1429-08	23208938	56468870	114646197	18	17752											
MCHR2	84539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	100390871	100390871	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaaaagcacaactctcaaCaccgtctttaaatttgatga	16	11	4	10	1	3	2	2	2	2	0	4	2	3	2	1	0	3	1	1	0	6	3	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	100390871	C	A	100390871	3	1	351	1	0	0	0	0	1	0	0	0	9383	478	17	4	493	4	MCHR2	6	100390871	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	43922001	100390871	70724196	19	17753											
ALDOB	229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104187208	104187208	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccagtgcactggcctgcaGggcccgtccataagagaaac	11	5	12	13	1	0	1	0	0	0	1	1	2	1	1	4	2	4	2	4	2	2	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	104187208	G	A	104187208	2	1	351	1	0	0	0	0	0	0	0	1	508	991	35	2		2	ALDOB	9	104187208	Silent	SNP	G	TCGA-BP-5200-01A-01D-1429-08		104187208	37026223	20	17754											
ODF2	4957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131245102	131245102	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctctcccagcgcctgcTgttactgctgcaagacaagg	7	11	10	13	1	1	1	0	0	1	1	3	1	2	1	2	1	5	5	2	1	3	2	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	131245102	T	C	131245102	3	2	351	1	0	0	0	0	1	0	0	0	10827	1580	55	3	1012	3	ODF2	9	131245102	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08	27057894	131245102	9968329	21	17755											
STAM	8027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	17750824	17750824	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctggttgcagggaacgCgcagatgagccacctccaga	10	6	12	13	2	0	3	0	1	0	2	1	4	1	4	4	2	4	3	4	2	2	2	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	17750824	C	T	17750824	3	4	351	1	0	0	0	0	1	0	0	0	15249	768	27	1	1309	1	STAM	10	17750824	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08		17750824	117783923	22	17756											
LDB3	11155	broad.mit.edu	37	chr10	88466360	88466360	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgcttctgcccagccAcctgctgctgcctctcccag	3	9	8	21	1	2	0	0	0	2	0	3	0	2	0	6	0	6	3	6	0	0	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	88466360	C	C	88466360	2	2	351	1	0	0	0	0	0	0	0	1	8697	146	6	5		5	LDB3	10	88466360	Silent	SNP	A	TCGA-BP-5200-01A-01D-1429-08	70715536	88466360	47068387	23	17757											
PNLIP	5406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118305651	118305651	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgctgggagcagtagcagGtaagaaaacaaataaatgtt	16	8	12	5	0	0	1	0	0	0	1	0	2	0	2	0	2	4	7	0	2	7	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	118305651	G	C	118305651	5	2	351	1	0	0	0	0	0	0	1	0	12149	1275	44	4	49	4	PNLIP	10	118305651	Splice_Site	SNP	G	TCGA-BP-5200-01A-01D-1429-08	29839291	118305651	17229096	24	17758											
PC	5091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66619326	66619326	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccccccgcagcagcatctgGaaagggatgttggggatgag	9	6	16	10	1	1	1	0	1	1	0	1	4	1	4	3	4	2	4	3	4	1	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	66619326	G	A	66619326	2	1	351	1	0	0	0	0	0	0	0	1	11497	1165	41	2		2	PC	11	66619326	Silent	SNP	G	TCGA-BP-5200-01A-01D-1429-08		66619326	68387190	25	17759											
MAML2	84441	broad.mit.edu	37	chr11	96074938	96074938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagacagcgatccgagccCggaggcgctccacgatagca	10	3	14	14	5	0	1	0	0	0	1	2	5	2	2	3	3	3	3	3	3	1	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	96074938	T	T	96074938	3	4	351	1	0	0	0	0	1	0	0	0	9206	652	23	1	3368	1	MAML2	11	96074938	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	29455612	96074938	38931578	26	17760											
NCAM1	4684	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	113133587	113133587	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaccttgggaggcaattcTgcatcctacacctttgtctc	8	12	8	13	0	2	0	0	0	2	0	4	1	3	1	3	2	3	3	3	2	3	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	113133587	T	C	113133587	3	2	351	1	0	0	0	0	1	0	0	0	10202	1567	55	3	2335	3	NCAM1	11	113133587	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08	17058649	113133587	21872929	27	17761											
TPTE2	93492	broad.mit.edu;hgsc.bcm.edu	37	chr13	20024477	20024477	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgcttaggatcataagcTctttcacctaaaataaataa	17	12	5	7	0	3	0	2	0	1	0	3	1	3	1	1	1	2	2	1	1	8	6	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	20024477	T	G	20024477	3	3	351	1	0	0	0	0	1	0	0	0	16430	1548	54	5	794	5	TPTE2	13	20024477	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08		20024477	95145401	28	17762											
OR4E2	26686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	22133740	22133740	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atacagcttgtctttgctctCtggttggggggtactgttca	5	16	12	8	0	3	0	1	0	2	0	4	0	3	0	0	4	4	5	0	4	2	6	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	22133740	C	T	22133740	2	4	351	1	0	0	0	0	0	0	0	1	11060	900	32	2		2	OR4E2	14	22133740	Silent	SNP	C	TCGA-BP-5200-01A-01D-1429-08		22133740	85215800	29	17763											
C14orf104	0	broad.mit.edu;hgsc.bcm.edu	37	chr14	50100543	50100543	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcggtgaccccgcgtgcCtgctcaagtcctgctccccc	3	7	11	20	4	1	1	1	1	0	0	3	1	3	1	7	2	3	2	7	2	1	0	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	50100543	C	T	50100543	3	4	351	1	0	0	0	0	1	0	0	0	1736	681	24	2	1200	2	C14orf104	14	50100543	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	27966803	50100543	57248997	30	17764											
AMN	81693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	103395248	103395248	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccgcctagtgcctcctTccgcgtggggctcggccctg	1	11	12	17	4	0	0	0	0	0	0	4	0	3	0	6	3	1	1	6	3	1	3	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	103395248	T	C	103395248	3	2	351	1	0	0	0	0	1	0	0	0	580	1783	62	3	467	3	AMN	14	103395248	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08	53294705	103395248	3954292	31	17765											
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu	37	chr14	105414503	105414503	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cgtcttggggcctttcaggtCcagcttggggcccttgacat	4	12	13	12	1	2	1	1	1	1	0	3	1	3	1	3	5	1	1	3	5	0	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	105414503	C	G	105414503	3	3	351	1	0	0	0	0	1	0	0	0	415	855	30	4	10106	4	AHNAK2	14	105414503	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	2019255	105414503	1935037	32	17766											
SEMA6D	80031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48054430	48054430	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgccacagtggctgactTcttggccagcgatgccgtta	6	12	11	12	2	2	1	0	1	2	0	2	2	2	1	3	2	3	2	3	2	1	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	48054430	T	G	48054430	3	3	351	1	0	0	0	0	1	0	0	0	14044	1783	62	5	598	5	SEMA6D	15	48054430	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08		48054430	54476962	33	17767											
CDK10	8558	hgsc.bcm.edu	37	chr16	89753117	89753117	+	RNA	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaggcggggccagcgctcgGcatggcggagccagatctgg	7	4	19	11	4	1	2	0	0	1	2	2	3	1	3	2	7	2	2	2	7	0	0	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		C	89753117	G	C	89753117	1	2	351	0	1	0	0	0	0	0	0	0	3125	1218	42	4		4	CDK10	16	89753117	RNA	SNP	G	TCGA-BP-5200-01A-01D-1429-08		89753117	601636	34	17768											
CAMTA2	23125	broad.mit.edu;hgsc.bcm.edu	37	chr17	4876239	4876239	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgcctgtcggttccaacgGaaaaggagcacagcagcttc	11	7	12	11	2	0	0	0	0	0	0	3	2	1	2	2	3	5	4	2	3	3	2	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	4876239	G	T	4876239	3	4	351	1	0	0	0	0	1	0	0	0	2614	1165	41	4	1366	4	CAMTA2	17	4876239	Missense_Mutation	SNP	G	TCGA-BP-5200-01A-01D-1429-08		4876239	76318971	35	17769											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11572453	11572453	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagagctagttttctatcCgtctctggagtctggagtga	7	13	11	10	1	3	2	0	1	3	1	5	4	4	4	2	2	1	2	2	2	2	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	11572453	C	G	11572453	3	3	351	1	0	0	0	0	1	0	0	0	4608	652	23	4	2866	4	DNAH9	17	11572453	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	6696214	11572453	69622757	36	17770											
FBXW10	10517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18682177	18682177	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctagagtccagtccaccataCcccagcccatgattatccgc	10	8	6	17	1	0	2	0	1	0	1	3	2	3	2	7	0	2	0	7	0	3	3	rs150642944		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	18682177	C	A	18682177	3	1	351	1	0	0	0	0	1	0	0	0	5763	507	18	4	2776	4	FBXW10	17	18682177	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	7109724	18682177	62513033	37	17771											
PPP1R9B	84687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48212737	48212737	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cagtgtttgcaagtttccttCcagttctgagatctggaaaa	10	14	9	8	0	2	1	0	1	2	1	4	3	4	2	2	1	1	4	2	1	3	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	48212737	C	G	48212737	3	3	351	1	0	0	0	0	1	0	0	0	12381	864	30	4	44	4	PPP1R9B	17	48212737	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	29530560	48212737	32982473	38	17772											
VEZF1	7716	broad.mit.edu;hgsc.bcm.edu	37	chr17	56060482	56060482	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttttctttggccgggaCaccaacttgatccctgtgtg	5	13	13	10	1	1	1	0	1	1	0	2	2	2	2	3	4	1	1	3	4	1	4	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		T	56060482	C	T	56060482	2	4	351	1	0	0	0	0	0	0	0	1	17154	465	17	2		2	VEZF1	17	56060482	Silent	SNP	C	TCGA-BP-5200-01A-01D-1429-08	7847745	56060482	25134728	39	17773											
ABCA10	10349	broad.mit.edu	37	chr17	67189255	67189255	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccaagaatcaccagcCaagatgtcagcctcatccat	15	6	7	13	0	3	3	3	0	0	3	4	3	4	3	5	0	3	0	5	0	4	0	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	67189255	G	G	67189255	3	3	351	1	0	0	0	0	1	0	0	0	29	593	21	4	2955	4	ABCA10	17	67189255	Missense_Mutation	SNP	C	TCGA-BP-5200-01A-01D-1429-08	11128773	67189255	14005955	40	17774											
TMIGD2	126259	hgsc.bcm.edu	37	chr19	4294602	4294603	+	Frame_Shift_Ins	INS	-	-	G																															cctttgctggcagctgcggcINSggccccagaaccaggcaccc																								novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	4294603	-	G	4294602	7	5	351	1	0	1	1	0	0	0	0	0	16230	768	27	0	332	0	TMIGD2	19	4294602	Frame_Shift_Ins	INS	-	TCGA-BP-5200-01A-01D-1429-08		4294602	54834381	41	17775											
FCGBP	8857	broad.mit.edu	37	chr19	40398046	40398046	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtaggtggccactgcaggAcagaggcctccaggatggcc	9	5	15	12	1	0	1	0	0	0	1	1	3	1	3	4	6	1	2	4	6	1	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		G	40398046	G	G	40398046	2	3	351	1	0	0	0	0	0	0	0	1	5778	273	10	3		3	FCGBP	19	40398046	Silent	SNP	A	TCGA-BP-5200-01A-01D-1429-08	36103444	40398046	18730937	42	17776											
LYPD4	147719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42341277	42341277	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcaggatcttgcctggaGgatgctgcaccaacaatctg	11	8	11	11	0	2	0	0	0	2	0	2	3	2	3	2	3	5	3	2	3	3	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	42341277	G	A	42341277	2	1	351	1	0	0	0	0	0	0	0	1	9112	987	35	2		2	LYPD4	19	42341277	Silent	SNP	G	TCGA-BP-5200-01A-01D-1429-08	1943231	42341277	16787706	43	17777											
GAGE10	643832	hgsc.bcm.edu	37	chrX	49173751	49173751	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgccaaatccagaggaggtGaaaaggcctgaagaaggtag	15	5	14	7	0	0	4	0	2	0	2	1	5	1	5	3	4	1	1	3	4	6	1	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	49173751	G	A	49173751	2	1	351	1	0	0	0	0	0	0	0	1	6187	1277	45	2		2	GAGE10	23	49173751	Silent	SNP	G	TCGA-BP-5200-01A-01D-1429-08		49173751	106096809	44	17778											
NXF5	55998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101092585	101092585	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcactgagggagtccacgtTtcgtggacattttgtgtgct	6	14	13	8	2	0	1	0	1	0	0	2	3	1	3	1	2	2	3	1	2	0	3	novel		TCGA-BP-5200-01A-01D-1429-08	TCGA-BP-5200-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	73d194ce-21db-4b63-9636-d5f4bcbe56de	b801e629-c6f9-454c-a3e5-7fd57f8b1b0b		A	101092585	T	A	101092585	3	1	351	1	0	0	0	0	1	0	0	0	10786	1841	64	5	144	5	NXF5	23	101092585	Missense_Mutation	SNP	T	TCGA-BP-5200-01A-01D-1429-08	51918834	101092585	54177975	45	17779											
VHL	7428	hgsc.bcm.edu	37	chr3	10183710	10183710	+	Frame_Shift_Del	DEL	G	G	-																															gatggaggccgggcggccgcGgcccgtgctgcgctcggtga																								novel		TCGA-BP-5200-01A-01D-2101-10	TCGA-BP-5200-11A-01W-1477-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	55851e7b-55d8-4016-a3d5-0c6722b3ed48	4061e057-8271-443a-b827-8fc29da8fbf3		-	10183710	G	-	10183710	7	5	352	1	0	1	0	1	0	0	0	0	17161	1116	39	0	181	0	VHL	3	10183710	Frame_Shift_Del	DEL	G	TCGA-BP-5200-01A-01D-2101-10		10183710	187838720	1	17780											
MTF1	4520	broad.mit.edu;ucsc.edu	37	chr1	38323150	38323150	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgtccgtcgtcatcttCatcctccaaagtgccagggt	7	11	9	14	2	3	0	2	0	1	0	7	0	6	0	4	1	1	1	4	1	1	1	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	38323150	A	A	38323150	4	1	353	1	0	0	0	0	0	1	0	0	9922	835	29	4	2120	4	MTF1	1	38323150	Nonsense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08		38323150	210927471	1	17781											
TXNIP	10628	broad.mit.edu;ucsc.edu	37	chr1	145438912	145438912	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatagtggaggtgtgtgAagttactcgtgtcaaagccg	9	11	16	5	2	1	2	1	2	0	0	2	3	1	3	1	3	2	1	1	3	4	2	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	145438912	G	G	145438912	3	3	353	1	0	0	0	0	1	0	0	0	16802	246	9	3	112	3	TXNIP	1	145438912	Missense_Mutation	SNP	A	TCGA-BP-5201-01A-01D-1429-08	107115762	145438912	103811709	2	17782											
GON4L	54856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155732098	155732098	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtccttgctggcccgagcCcgacttccccgcttgttgcg	2	11	12	16	4	0	0	0	0	0	0	2	2	2	0	5	1	3	3	5	1	0	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	155732098	C	A	155732098	2	1	353	1	0	0	0	0	0	0	0	1	6572	610	22	4		4	GON4L	1	155732098	Silent	SNP	C	TCGA-BP-5201-01A-01D-1429-08	10293186	155732098	93518523	3	17783											
ALMS1	7840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73680768	73680768	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcagagagcaaagtcagtAtggcattagaagaaactctt	17	8	10	6	0	2	3	1	0	1	3	2	4	2	3	0	1	3	4	0	1	6	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		C	73680768	A	C	73680768	3	2	353	1	0	0	0	0	1	0	0	0	535	449	16	5	7141	5	ALMS1	2	73680768	Missense_Mutation	SNP	A	TCGA-BP-5201-01A-01D-1429-08		73680768	169518605	4	17784											
BOC	91653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	112998188	112998188	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgggaatggtgggttcccaAtccagtccttccgtgtggag	6	11	15	9	1	0	0	0	0	0	0	4	2	4	2	4	4	0	1	4	4	2	2	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		C	112998188	A	C	112998188	3	2	353	1	0	0	0	0	1	0	0	0	1481	101	4	5	1944	5	BOC	3	112998188	Missense_Mutation	SNP	A	TCGA-BP-5201-01A-01D-1429-08		112998188	85024242	5	17785											
TCTEX1D2	255758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196022891	196022891	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttacattcatgaaaacatCatgagtatagttgtcagtgt	14	14	7	6	0	3	2	3	2	0	0	3	2	3	2	0	0	2	2	0	0	5	5	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	196022891	C	T	196022891	3	4	353	1	0	0	0	0	1	0	0	0	15719	826	29	2	69	2	TCTEX1D2	3	196022891	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08	83024703	196022891	1999539	6	17786											
BMPR1B	658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	96035969	96035969	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggctcagattttcagtGtcgggtaaggtagataactt	12	12	12	5	1	2	3	2	0	0	3	3	3	2	3	0	3	1	3	0	3	4	6	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	96035969	G	T	96035969	3	4	353	1	0	0	0	0	1	0	0	0	1470	1377	48	4	248	4	BMPR1B	4	96035969	Missense_Mutation	SNP	G	TCGA-BP-5201-01A-01D-1429-08		96035969	95118307	7	17787											
LNPEP	4012	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	96315099	96315099	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggccttcggaacagtgcaActggttacaggcagagccca	11	6	12	12	1	0	1	0	0	0	1	1	2	0	2	2	4	5	3	2	4	3	2	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	96315099	A	G	96315099	3	3	353	1	0	0	0	0	1	0	0	0	8864	43	2	3	283	3	LNPEP	5	96315099	Missense_Mutation	SNP	A	TCGA-BP-5201-01A-01D-1429-08		96315099	84600161	8	17788											
C6orf162	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	88046871	88046871	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctgtgaatccagagcTcttcattaaacctgtaagaa	12	12	8	9	1	2	3	1	1	1	2	4	3	3	3	2	0	3	3	2	0	5	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		C	88046871	T	C	88046871	3	2	353	1	0	0	0	0	1	0	0	0	2340	1551	54	3	124	3	C6orf162	6	88046871	Missense_Mutation	SNP	T	TCGA-BP-5201-01A-01D-1429-08		88046871	83068196	9	17789											
TNRC18	84629	broad.mit.edu	37	chr7	5364768	5364768	+	Frame_Shift_Del	DEL	T	-	-																															tttggccttggctttgctccTtttggcagcggtcagggagc																								novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		-	5364768	-	-	5364768	7	5	353	1	0	1	0	1	0	0	0	0	16338	1608	56	0	2691	0	TNRC18	7	5364768	Frame_Shift_Del	DEL	T	TCGA-BP-5201-01A-01D-1429-08		5364768	153773895	10	17790											
RSPH10B2	728194	broad.mit.edu	37	chr7	6006558	6006558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatcttcgttctgctgaaCgttttggcggtcttttttgg	3	18	12	8	3	3	1	0	1	3	0	4	1	3	1	0	4	2	4	0	4	1	7	rs150311566		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	6006558	T	T	6006558	3	4	353	1	0	0	0	0	1	0	0	0	13706	536	19	1	2498	1	RSPH10B2	7	6006558	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08	641790	6006558	153132105	11	17791											
SAMD9L	219285	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92763473	92763473	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggaaatactgtggtttgtTagttcatcttccatcttcat	8	18	8	7	0	4	0	2	0	2	0	5	1	5	1	1	2	1	3	1	2	3	6	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		C	92763473	T	C	92763473	2	2	353	1	0	0	0	0	0	0	0	1	13829	1741	61	3		3	SAMD9L	7	92763473	Silent	SNP	T	TCGA-BP-5201-01A-01D-1429-08	86756915	92763473	66375190	12	17792											
PRSS55	203074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10396087	10396087	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctgtggagagaagaacacCccagggatatacacctcgtt	13	7	11	10	1	0	2	0	0	0	2	1	5	0	4	3	2	3	2	3	2	4	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	10396087	C	G	10396087	2	3	353	1	0	0	0	0	0	0	0	1	12636	610	22	4		4	PRSS55	8	10396087	Silent	SNP	C	TCGA-BP-5201-01A-01D-1429-08		10396087	135967935	13	17793											
SNTG1	54212	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	51415372	51415372	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgctggagaagaagtgaCtctaacagtgtcatttttaa	14	12	10	5	0	2	3	1	1	1	2	2	5	2	3	0	1	2	1	0	1	5	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	51415372	C	T	51415372	3	4	353	1	0	0	0	0	1	0	0	0	14876	565	20	2	424	2	SNTG1	8	51415372	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08	41019285	51415372	94948650	14	17794											
RGS22	26166	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	101014479	101014479	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgggtccaaagaaatatTttttattaaggtatttgttt	11	20	8	2	0	0	1	0	0	0	1	1	1	1	1	1	2	0	3	1	2	6	9	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	101014479	T	G	101014479	3	3	353	1	0	0	0	0	1	0	0	0	13307	1841	64	5	1093	5	RGS22	8	101014479	Missense_Mutation	SNP	T	TCGA-BP-5201-01A-01D-1429-08	49599107	101014479	45349543	15	17795											
PHF20L1	51105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	133850030	133850030	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcattccagagcagtacaTctgctatatctgccgggacc	10	9	10	12	1	2	1	0	0	2	1	3	3	3	2	3	1	5	4	3	1	3	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		C	133850030	T	C	133850030	3	2	353	1	0	0	0	0	1	0	0	0	11832	1435	50	3	2323	3	PHF20L1	8	133850030	Missense_Mutation	SNP	T	TCGA-BP-5201-01A-01D-1429-08	32835551	133850030	12513992	16	17796											
NOL6	65083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	33467191	33467191	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcctcccagaccacagcttCccgaatggctccgtcctgga	7	8	9	17	2	0	1	0	0	0	1	4	3	4	2	6	2	2	2	6	2	1	1	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	33467191	C	A	33467191	4	1	353	1	0	0	0	0	0	1	0	0	10525	864	30	4	1697	4	NOL6	9	33467191	Nonsense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08		33467191	107746240	17	17797											
TUBB2C	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140137408	140137408	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgcttcccaggccagctCaatgctgacctgcggaagct	7	8	11	15	2	1	1	1	1	0	0	2	2	2	2	3	2	5	4	3	2	2	1	rs151064868		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	140137408	C	A	140137408	2	1	353	1	0	0	0	0	0	0	0	1	16755	813	29	4		4	TUBB2C	9	140137408	Silent	SNP	C	TCGA-BP-5201-01A-01D-1429-08	106670217	140137408	1076023	18	17798											
IDE	3416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	94239093	94239093	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgctagctctgctgcatAtgcatactcgttgagtgagt	7	13	11	10	1	1	2	0	2	1	0	2	2	1	2	1	0	6	6	1	0	3	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	94239093	A	G	94239093	3	3	353	1	0	0	0	0	1	0	0	0	7493	449	16	3	1278	3	IDE	10	94239093	Missense_Mutation	SNP	A	TCGA-BP-5201-01A-01D-1429-08		94239093	41295654	19	17799											
ARCN1	372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118454666	118454666	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtatctggaggcagcacagCtgccatgatcacagagacca	13	6	11	11	0	2	2	1	1	1	1	2	4	2	3	2	2	3	4	2	2	1	1	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	118454666	C	T	118454666	3	4	353	1	0	0	0	0	1	0	0	0	842	797	28	2	604	2	ARCN1	11	118454666	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08		118454666	16551850	20	17800											
TMPO	7112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	98927778	98927778	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcagcatcagcattgcaGattgcaactcacactgcctt	10	10	8	13	0	2	1	2	0	0	1	2	1	2	1	1	0	7	6	1	0	1	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	98927778	G	T	98927778	3	4	353	1	0	0	0	0	1	0	0	0	16236	933	33	4	1757	4	TMPO	12	98927778	Missense_Mutation	SNP	G	TCGA-BP-5201-01A-01D-1429-08		98927778	34924117	21	17801											
HCFC2	29915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104476292	104476293	+	Frame_Shift_Ins	INS	-	-	T																															ctcaggatgtacatttttggINStggatgggtcccacataagg																								novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	104476293	-	T	104476292	7	5	353	1	0	1	1	0	0	0	0	0	6993	1261	44	0	804	0	HCFC2	12	104476292	Frame_Shift_Ins	INS	-	TCGA-BP-5201-01A-01D-1429-08	5548514	104476292	29375603	22	17802											
CYP1A2	1544	hgsc.bcm.edu	37	chr15	75044488	75044489	+	Frame_Shift_Ins	INS	-	-	G																															tgtgattggcagggagcggcINSggccccggctctctgacaga																								novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	75044489	-	G	75044488	7	5	353	1	0	1	1	0	0	0	0	0	4150	759	27	0	1080	0	CYP1A2	15	75044488	Frame_Shift_Ins	INS	-	TCGA-BP-5201-01A-01D-1429-08		75044488	27486904	23	17803											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139570	3139570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggctgcgctggtggcggGccagatcctgggtctggccg	2	9	19	11	3	1	1	0	0	1	1	2	1	2	1	3	6	1	2	3	6	0	0	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	3139570	A	A	3139570	3	1	353	1	0	0	0	0	1	0	0	0	18226	1203	42	2	481	2	ZSCAN10	16	3139570	Missense_Mutation	SNP	G	TCGA-BP-5201-01A-01D-1429-08		3139570	87215183	24	17804											
CDT1	81620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88872184	88872184	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccgtgtacccggcctccTaccgcttccgccaggagcgc	7	6	10	18	5	0	0	0	0	0	0	2	1	2	1	7	2	4	2	7	2	3	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	88872184	T	G	88872184	3	3	353	1	0	0	0	0	1	0	0	0	3180	1522	53	5	757	5	CDT1	16	88872184	Missense_Mutation	SNP	T	TCGA-BP-5201-01A-01D-1429-08	85732614	88872184	1482569	25	17805											
PHF12	57649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27251182	27251182	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctttccaggatccgggCatgggcaatggcctttagtt	6	13	11	11	1	1	0	0	0	1	0	4	1	3	1	4	4	0	3	4	4	2	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	27251182	C	T	27251182	3	4	353	1	0	0	0	0	1	0	0	0	11823	710	25	2	2628	2	PHF12	17	27251182	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08		27251182	53944028	26	17806											
KRT31	3881	broad.mit.edu;hgsc.bcm.edu	37	chr17	39553695	39553695	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggatgttgcaggcccCgggcagggtgcagctgtggc	4	6	21	10	2	0	0	0	0	0	0	0	1	0	1	2	7	3	5	2	7	0	1	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	39553695	C	T	39553695	3	4	353	1	0	0	0	0	1	0	0	0	8467	652	23	1	1181	1	KRT31	17	39553695	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08	12302513	39553695	41641515	27	17807											
VAT1	10493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41169909	41169909	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggttgtagcccttggcagTatctgacccacccagagggt	8	9	13	11	0	1	2	0	1	1	1	1	3	1	2	3	3	1	4	3	3	2	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	41169909	T	A	41169909	3	1	353	1	0	0	0	0	1	0	0	0	17128	1638	57	5	388	5	VAT1	17	41169909	Missense_Mutation	SNP	T	TCGA-BP-5201-01A-01D-1429-08	1616214	41169909	40025301	28	17808											
LRRC37A2	474170	broad.mit.edu	37	chr17	44625842	44625842	+	Frame_Shift_Del	DEL	G	-	-																															agcagctagacaccaatgacGagagtgattttatcagtaca																								novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		-	44625842	-	-	44625842	7	5	353	1	0	1	0	1	0	0	0	0	8992	1059	37	0	3371	0	LRRC37A2	17	44625842	Frame_Shift_Del	DEL	G	TCGA-BP-5201-01A-01D-1429-08	3455933	44625842	36569368	29	17809											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	6980564	6980564	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgattcattggtttgcCtggtaatttcaacagcattc	10	15	9	7	0	2	2	2	1	0	1	3	2	2	2	1	2	3	3	1	2	2	6	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	6980564	C	T	6980564	3	4	353	1	0	0	0	0	1	0	0	0	8605	681	24	2	3352	2	LAMA1	18	6980564	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08		6980564	71096684	30	17810											
ELP2	55250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	33734957	33734957	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaagagaaaagaccaaTcacaggtaaaatgtcttatt	18	9	8	6	0	2	2	1	0	1	2	2	4	2	3	1	2	0	1	1	2	7	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		G	33734957	T	G	33734957	3	3	353	1	0	0	0	0	1	0	0	0	5080	1435	50	5	1316	5	ELP2	18	33734957	Missense_Mutation	SNP	T	TCGA-BP-5201-01A-01D-1429-08	26754393	33734957	44342291	31	17811											
LONP1	9361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5699087	5699087	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgcccccgacgctgaagcGgaagtactctcggttcaggg	8	7	13	13	4	2	1	1	1	1	0	3	3	2	2	2	3	3	3	2	3	3	2	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		C	5699087	G	C	5699087	3	2	353	1	0	0	0	0	1	0	0	0	8892	1116	39	4	1279	4	LONP1	19	5699087	Missense_Mutation	SNP	G	TCGA-BP-5201-01A-01D-1429-08		5699087	53429896	32	17812											
ADAMTS10	81794	broad.mit.edu	37	chr19	8651052	8651052	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgcgctgccttttgggcaGcttgctgtgggcactgcagt	3	11	16	11	2	0	0	0	0	0	0	0	0	0	0	1	3	4	6	1	3	0	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	8651052	T	T	8651052	3	4	353	1	0	0	0	0	1	0	0	0	256	962	34	4	717	4	ADAMTS10	19	8651052	Missense_Mutation	SNP	G	TCGA-BP-5201-01A-01D-1429-08	2951965	8651052	50477931	33	17813											
NDUFA13	51079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19637065	19637065	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgaagtggaaccgtgagCgcaggtagggcccctggtgg	9	7	17	8	2	0	2	0	2	0	0	0	3	0	3	3	5	2	2	3	5	4	2	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	19637065	C	T	19637065	3	4	353	1	0	0	0	0	1	0	0	0	10263	768	27	1	175	1	NDUFA13	19	19637065	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08	10986013	19637065	39491918	34	17814											
ADAM33	80332	broad.mit.edu;hgsc.bcm.edu	37	chr20	3653456	3653456	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgggagtccggggtccgggGcattggagaggcaagcgccg	6	4	20	11	5	0	1	0	0	0	1	2	3	2	2	4	7	1	2	4	7	1	1	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	3653456	G	A	3653456	3	1	353	1	0	0	0	0	1	0	0	0	250	1203	42	2	1262	2	ADAM33	20	3653456	Missense_Mutation	SNP	G	TCGA-BP-5201-01A-01D-1429-08		3653456	59372064	35	17815											
RALGAPB	57148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	37150191	37150191	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acggaaagggtcacaaatgtCcacagacaccatggtttcca	14	7	9	11	1	1	1	1	0	0	1	3	2	3	2	3	3	0	1	3	3	2	1	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		T	37150191	C	T	37150191	3	4	353	1	0	0	0	0	1	0	0	0	13017	855	30	2	1503	2	RALGAPB	20	37150191	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08	33496735	37150191	25875329	36	17816											
ITSN1	6453	broad.mit.edu	37	chr21	35153771	35153771	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttccttcccaggaatctCagcaaatgcttggaagactt	10	12	7	12	0	1	1	1	0	1	1	5	3	4	3	3	2	2	2	3	2	3	4	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	35153771	A	A	35153771	3	1	353	1	0	0	0	0	1	0	0	0	7926	827	29	4	1657	4	ITSN1	21	35153771	Missense_Mutation	SNP	C	TCGA-BP-5201-01A-01D-1429-08		35153771	12976124	37	17817											
KDM6A	7403	broad.mit.edu;hgsc.bcm.edu	37	chrX	44928976	44928976	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctagcaattcagtaacacaGggggctgctctcaatcacct	11	9	8	13	0	3	0	3	0	1	0	4	0	3	0	2	2	3	4	2	2	4	3	novel		TCGA-BP-5201-01A-01D-1429-08	TCGA-BP-5201-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	243c77a9-1591-45ac-b048-a5687a77c764	5308d75f-580e-4f35-bd1f-3340a8bd9a8d		A	44928976	G	A	44928976	2	1	353	1	0	0	0	0	0	0	0	1	8137	991	35	2		2	KDM6A	23	44928976	Silent	SNP	G	TCGA-BP-5201-01A-01D-1429-08		44928976	110341584	38	17818											
ACTRT2	140625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	2938986	2938986	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagggagtacaagctgcccGacgggaacatcatcagcctc	11	6	12	12	2	2	1	2	1	0	0	3	4	2	3	2	2	5	2	2	2	3	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	2938986	G	A	2938986	3	1	354	1	0	0	0	0	1	0	0	0	219	1058	37	1	738	1	ACTRT2	1	2938986	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08		2938986	246311635	1	17819											
FBXO2	26232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11709907	11709907	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccctcagcctgcaggtcAatgacctgtgctttgcgaca	8	10	10	13	1	2	1	2	1	0	0	2	2	2	1	3	1	5	2	3	1	2	2	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		C	11709907	A	C	11709907	3	2	354	1	0	0	0	0	1	0	0	0	5732	126	5	5	356	5	FBXO2	1	11709907	Missense_Mutation	SNP	A	TCGA-BP-5202-01A-02D-1429-08	8770921	11709907	237540714	2	17820											
CATSPER4	378807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26517881	26517881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgctgctggtgatcaatgCcatcaccatcgctctccgta	7	11	8	15	2	3	1	2	1	1	0	5	1	3	1	4	1	3	4	4	1	2	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	26517881	C	T	26517881	3	4	354	1	0	0	0	0	1	0	0	0	2690	739	26	2	323	2	CATSPER4	1	26517881	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08	14807974	26517881	222732740	3	17821											
HRNR	388697	broad.mit.edu;hgsc.bcm.edu	37	chr1	152185823	152185823	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagatccagccccatgtCggccatagccagaagactga	11	5	11	14	1	0	4	0	1	0	3	2	4	1	4	6	2	2	0	6	2	2	1	rs41266120	byfrequency;by1000genomes;alternate_allele	TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	152185823	C	A	152185823	3	1	354	1	0	0	0	0	1	0	0	0	7359	884	31	4	274	4	HRNR	1	152185823	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08	125667942	152185823	97064798	4	17822											
NIT1	4817	hgsc.bcm.edu;ucsc.edu	37	chr1	161089670	161089683	+	Frame_Shift_Del	DEL	GCCTATGTGTGAAA	GCCTATGTGTGAAA	-																															gtagagattccagggcagggGcctatgtgtgaaagcaactc																								novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	GCCTATGTGTGAAA	GCCTATGTGTGAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		-	161089683	GCCTATGTGTGAAA	-	161089670	7	5	354	1	0	1	0	1	0	0	0	0	10433	1190	42	0	594	0	NIT1	1	161089670	Frame_Shift_Del	DEL	GCCTATGTGTGAAA	TCGA-BP-5202-01A-02D-1429-08	8903847	161089670	88160951	5	17823											
BTG2	7832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203276485	203276485	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccactggccgcctcctgTgggctcctcacctgcaagaa	6	7	10	18	1	1	1	1	0	0	1	3	1	3	1	7	2	1	2	7	2	2	0	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	203276485	T	A	203276485	4	1	354	1	0	0	0	0	0	1	0	0	1554	1702	59	5	402	5	BTG2	1	203276485	Nonsense_Mutation	SNP	T	TCGA-BP-5202-01A-02D-1429-08	42186815	203276485	45974136	6	17824											
OPTC	26254	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	203465247	203465247	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagatgcccagggaaggCgattcctttgaagttctgcc	9	9	13	10	1	1	2	0	1	1	1	2	5	2	3	3	2	3	2	3	2	2	3	rs139083417	byfrequency	TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	203465247	C	T	203465247	2	4	354	1	0	0	0	0	0	0	0	1	10888	755	27	1		1	OPTC	1	203465247	Silent	SNP	C	TCGA-BP-5202-01A-02D-1429-08	188762	203465247	45785374	7	17825											
RCOR3	55758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	211486237	211486237	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaatggtgatgcttctacTttaggggaggagacaaaaag	13	11	12	5	0	2	2	0	1	2	1	2	4	2	3	0	4	2	1	0	4	5	5	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	211486237	T	A	211486237	2	1	354	1	0	0	0	0	0	0	0	1	13186	1596	56	5		5	RCOR3	1	211486237	Silent	SNP	T	TCGA-BP-5202-01A-02D-1429-08	8020990	211486237	37764384	8	17826											
EPM2AIP1	9852	hgsc.bcm.edu	37	chr3	37032775	37032775	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcatttctttctctcacAaggtcatcccaaccgggctc	8	13	6	14	1	5	0	3	0	2	0	8	1	6	0	2	2	1	1	2	2	2	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	37032775	A	T	37032775	2	4	354	1	0	0	0	0	0	0	0	1	5184	117	5	5		5	EPM2AIP1	3	37032775	Silent	SNP	A	TCGA-BP-5202-01A-02D-1429-08		37032775	160989655	9	17827											
COL6A6	131873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130283940	130283940	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggattcttggaagaaaGtgtatctgcccttgacataa	14	12	9	6	0	2	2	0	1	2	1	2	4	2	4	1	2	1	1	1	2	6	6	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	130283940	G	T	130283940	3	4	354	1	0	0	0	0	1	0	0	0	3703	1029	36	4	774	4	COL6A6	3	130283940	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08	93251165	130283940	67738490	10	17828											
C4orf23	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8469669	8469669	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttggaaaatccagaacatAcccttcctccagagaagctt	13	9	7	12	1	0	2	0	0	0	2	3	4	3	3	4	1	3	2	4	1	5	4	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	8469669	A	G	8469669	3	3	354	1	0	0	0	0	1	0	0	0	2256	391	14	3	1557	3	C4orf23	4	8469669	Missense_Mutation	SNP	A	TCGA-BP-5202-01A-02D-1429-08		8469669	182684607	11	17829											
GABRG1	2565	hgsc.bcm.edu	37	chr4	46043264	46043264	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatccaggatggagaccaGgagtcatctgagcacaataa	14	7	12	8	0	2	2	1	1	1	1	3	6	3	5	2	4	1	1	2	4	2	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	46043264	G	T	46043264	3	4	354	1	0	0	0	0	1	0	0	0	6171	1000	35	4	262	4	GABRG1	4	46043264	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08	37573595	46043264	145111012	12	17830											
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu	37	chr4	79296891	79296891	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagtgtttccttttttaatAgcctgccctcaggggtgctt	5	18	9	9	0	1	0	1	0	0	0	2	0	2	0	3	2	3	2	3	2	3	7	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	79296891	A	T	79296891	5	4	354	1	0	0	0	0	0	0	1	0	6042	434	15	5	3252	5	FRAS1	4	79296891	Splice_Site	SNP	A	TCGA-BP-5202-01A-02D-1429-08	33253627	79296891	111857385	13	17831											
NPNT	255743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106848559	106848561	+	In_Frame_Del	DEL	GTT	GTT	-																															caagtgcaagtgtcatcctgGttatgctggaaaaacctgta																								novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	GTT	GTT	GTT	-	GTT	GTT	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		-	106848561	GTT	-	106848559	7	5	354	1	0	1	0	1	0	0	0	0	10590	1261	44	0	304	0	NPNT	4	106848559	In_Frame_Del	DEL	GTT	TCGA-BP-5202-01A-02D-1429-08	27551668	106848559	84305717	14	17832											
SPZ1	84654	broad.mit.edu	37	chr5	79616434	79616434	+	Missense_Mutation	SNP	G	A	A																															tgcctgttagtttagccccaGagaaagaagacaatgaaaag																								novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	79616434	A	A	79616434	3	1	354	1	0	0	0	0	1	0	0	0	15128	943	33	2	402	2	SPZ1	5	79616434	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08		79616434	101298826	15	17833	245	2									
SPZ1	84654	broad.mit.edu;hgsc.bcm.edu	37	chr5	79616440	79616440	+	Missense_Mutation	SNP	G	G	C																															ttagtttagccccagagaaaGaagacaatgaaaagaaacag																								novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		C	79616440	G	C	79616440	3	2	354	1	0	0	0	0	1	0	0	0	15128	943	33	4	408	4	SPZ1	5	79616440	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08	6	79616440	101298820	16	17834	245	2									
DNAJC30	84277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	73097664	73097664	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcctcgctcctaggcccagGctgggtgcagaattttgtgg	5	11	14	11	1	0	1	0	0	0	1	3	1	2	1	3	4	1	3	3	4	2	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	73097664	G	A	73097664	2	1	354	1	0	0	0	0	0	0	0	1	4648	1194	42	2		2	DNAJC30	7	73097664	Silent	SNP	G	TCGA-BP-5202-01A-02D-1429-08		73097664	86040999	17	17835											
LAMB1	3912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107564469	107564469	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacggacttctccttccagtCttgctaattcttgagcttta	8	16	6	11	1	3	1	0	1	3	0	5	2	4	2	2	1	3	2	2	1	3	8	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	107564469	C	G	107564469	3	3	354	1	0	0	0	0	1	0	0	0	8610	913	32	4	76	4	LAMB1	7	107564469	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08	34466805	107564469	51574194	18	17836											
RP1L1	94137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10470413	10470413	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacttgggccctggctgccCgcctcggccaaagacttccc	6	8	10	17	2	0	1	0	0	0	1	2	1	1	1	5	3	2	1	5	3	2	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	10470413	C	T	10470413	3	4	354	1	0	0	0	0	1	0	0	0	13535	652	23	1	6011	1	RP1L1	8	10470413	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		10470413	135893609	19	17837											
CSPP1	79848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	68107615	68107615	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtgtcccttgcctcctgtAgatgatgagagttcactggt	7	13	11	10	1	1	3	1	2	0	2	3	4	3	3	3	1	1	2	3	1	1	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	68107615	A	G	68107615	5	3	354	1	0	0	0	0	0	0	1	0	3962	434	15	3	3680	3	CSPP1	8	68107615	Splice_Site	SNP	A	TCGA-BP-5202-01A-02D-1429-08	57637202	68107615	78256407	20	17838											
OR13C5	138799	broad.mit.edu;hgsc.bcm.edu	37	chr9	107361334	107361334	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcagatagccacatagcggtCaaaggccatcacgcccagaa	14	4	10	13	2	2	2	2	0	0	2	2	2	2	2	3	2	2	1	3	2	4	2	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	107361334	C	G	107361334	3	3	354	1	0	0	0	0	1	0	0	0	10937	826	29	4	597	4	OR13C5	9	107361334	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		107361334	33852097	21	17839											
ASTN2	23245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	119976970	119976970	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccaacgtcgctgggcgtAcagcgccacggtgaacacca	9	5	12	15	5	0	1	0	1	0	0	1	1	0	1	3	2	5	2	3	2	3	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	119976970	A	G	119976970	3	3	354	1	0	0	0	0	1	0	0	0	1065	391	14	3	3496	3	ASTN2	9	119976970	Missense_Mutation	SNP	A	TCGA-BP-5202-01A-02D-1429-08	12615636	119976970	21236461	22	17840											
FGFR2	2263	broad.mit.edu	37	chr10	123353298	123353298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggttgccatggtgaccaCgaccaggcagatgaaacgac	13	5	12	11	2	0	3	0	2	0	1	0	5	0	3	3	3	2	2	3	3	2	1	rs143978938	by1000genomes	TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	123353298	T	T	123353298	3	4	354	1	0	0	0	0	1	0	0	0	5866	536	19	1	2755	1	FGFR2	10	123353298	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		123353298	12181449	23	17841											
CCDC87	55231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66359599	66359599	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaaaggcgagggggaagcCctgctggtgggggccacagg	9	3	20	9	1	0	1	0	0	0	1	0	3	0	2	2	7	2	1	2	7	2	0	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	66359599	C	A	66359599	3	1	354	1	0	0	0	0	1	0	0	0	2862	622	22	4	1665	4	CCDC87	11	66359599	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		66359599	68646917	24	17842											
BIN2	51411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51696509	51696509	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcatgaccgtcccactcGctgctgtagatctcctgcag	6	11	8	16	2	2	2	1	1	1	1	6	2	4	2	4	0	2	4	4	0	1	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	51696509	G	A	51696509	2	1	354	1	0	0	0	0	0	0	0	1	1433	1078	38	1		1	BIN2	12	51696509	Silent	SNP	G	TCGA-BP-5202-01A-02D-1429-08		51696509	82155386	25	17843											
MARS	4141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57908819	57908819	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgagccctggaagcggAttaaaggcagtgaggctgac	12	7	15	7	1	0	4	0	4	0	0	0	6	0	6	1	4	2	2	1	4	4	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	57908819	A	G	57908819	3	3	354	1	0	0	0	0	1	0	0	0	9316	333	12	3	2248	3	MARS	12	57908819	Missense_Mutation	SNP	A	TCGA-BP-5202-01A-02D-1429-08	6212310	57908819	75943076	26	17844											
CAND1	55832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	67698394	67698394	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataattgcaggttcccaacAttgttaaagctcttcacaaa	14	12	6	9	0	2	0	1	0	1	0	3	1	3	0	1	1	3	4	1	1	5	6	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	67698394	A	G	67698394	3	3	354	1	0	0	0	0	1	0	0	0	2615	217	8	3	1337	3	CAND1	12	67698394	Missense_Mutation	SNP	A	TCGA-BP-5202-01A-02D-1429-08	9789575	67698394	66153501	27	17845											
CIT	11113	hgsc.bcm.edu;ucsc.edu	37	chr12	120173115	120173115	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttggttgttgagttcagcGttgtcctcggtcagctggtt	3	18	13	7	2	2	1	2	1	0	0	4	1	3	1	1	3	2	6	1	3	0	7	rs79892909	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	120173115	G	T	120173115	3	4	354	1	0	0	0	0	1	0	0	0	3438	1136	40	4	3299	4	CIT	12	120173115	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08	52474721	120173115	13678780	28	17846											
PLEKHG3	26030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	65208079	65208079	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttgtcagcagcttctctcGgcggagcagcgtggcacagg	7	9	14	11	3	2	0	1	0	1	0	4	1	2	1	0	4	4	4	0	4	0	2	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	65208079	G	A	65208079	3	1	354	1	0	0	0	0	1	0	0	0	12070	1116	39	1	1726	1	PLEKHG3	14	65208079	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08		65208079	42141461	29	17847											
CYP19A1	1588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51520122	51520122	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttcattatgtggaacataCttgaggacctgaaaagacag	14	10	10	7	0	1	3	1	2	0	1	1	5	1	5	1	2	2	1	1	2	5	4	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	51520122	C	G	51520122	3	3	354	1	0	0	0	0	1	0	0	0	4148	565	20	4	1234	4	CYP19A1	15	51520122	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		51520122	51011270	30	17848											
IGF1R	3480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	99482525	99482525	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctcaacgccaataagttCgtccacagagaccttgctgc	11	9	7	14	2	1	1	1	0	0	1	3	2	2	1	4	0	4	2	4	0	4	4	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	99482525	C	T	99482525	2	4	354	1	0	0	0	0	0	0	0	1	7571	883	31	1		1	IGF1R	15	99482525	Silent	SNP	C	TCGA-BP-5202-01A-02D-1429-08	47962403	99482525	3048867	31	17849											
SRL	6345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4245640	4245640	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttgtggggaacctcaatgCcaatcagcttctctaggaaa	11	11	10	9	0	3	0	2	0	1	0	4	2	3	2	2	3	3	2	2	3	5	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	4245640	C	T	4245640	3	4	354	1	0	0	0	0	1	0	0	0	15151	739	26	2	905	2	SRL	16	4245640	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		4245640	86109113	32	17850											
ZNF276	92822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89793740	89793740	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctcggatgatcgggtaaaaGacgagttcagtgacctttct	10	11	11	9	3	2	3	1	2	1	1	4	5	2	4	2	2	0	2	2	2	2	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		C	89793740	G	C	89793740	3	2	354	1	0	0	0	0	1	0	0	0	17810	942	33	4	1078	4	ZNF276	16	89793740	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08	85548100	89793740	561013	33	17851											
ACAP1	9744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7246741	7246741	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcgccgggatttctggcggGgggctgagagcctggaggct	4	8	19	10	3	1	1	0	1	1	1	2	4	1	3	2	7	1	2	2	7	0	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	7246741	G	A	7246741	3	1	354	1	0	0	0	0	1	0	0	0	118	1232	43	2	410	2	ACAP1	17	7246741	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08		7246741	73948469	34	17852											
ACACA	31	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35600351	35600351	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catactgagccatttccttcTtgatagacttctccacattg	9	15	5	12	0	2	3	0	2	2	1	4	3	3	3	3	0	2	0	3	0	2	7	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		C	35600351	T	C	35600351	3	2	354	1	0	0	0	0	1	0	0	0	106	1609	56	3	4424	3	ACACA	17	35600351	Missense_Mutation	SNP	T	TCGA-BP-5202-01A-02D-1429-08	28353610	35600351	45594859	35	17853											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9069219	9069219	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcctctttcagttcaGgagtcagaggggatgttgag	7	13	14	7	0	4	2	3	1	1	1	5	4	5	4	1	3	1	3	1	3	0	3	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	9069219	G	A	9069219	3	1	354	1	0	0	0	0	1	0	0	0	9973	1000	35	2	25624	2	MUC16	19	9069219	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08		9069219	50059764	36	17854											
KRI1	65095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10668296	10668296	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gaagcgacagggcaggtcgtCgatgatgtcctcgtagtcca	9	8	14	10	4	0	1	0	1	0	0	5	4	2	1	2	2	1	2	2	2	2	1	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		G	10668296	C	G	10668296	3	3	354	1	0	0	0	0	1	0	0	0	8444	884	31	4	578	4	KRI1	19	10668296	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08	1599077	10668296	48460687	37	17855											
USP16	10600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	30415852	30415852	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacataaaagagagaagtGatattccttctggaacaagt	16	11	9	5	0	1	3	0	1	1	2	2	5	2	4	1	1	2	1	1	1	7	5	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	30415852	G	T	30415852	3	4	354	1	0	0	0	0	1	0	0	0	17046	1290	45	4	1334	4	USP16	21	30415852	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08		30415852	17714043	38	17856											
FOXRED2	80020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	36900193	36900193	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaggcagcggattaccCggtcatagggcacgcgcatg	9	5	14	13	4	1	0	1	0	0	0	1	1	1	1	2	4	3	3	2	4	2	2	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		T	36900193	C	T	36900193	3	4	354	1	0	0	0	0	1	0	0	0	6034	652	23	1	1077	1	FOXRED2	22	36900193	Missense_Mutation	SNP	C	TCGA-BP-5202-01A-02D-1429-08		36900193	14404373	39	17857											
HDAC10	83933	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50685358	50685358	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacatccagggtggctgctGcagcagaggctggagtggct	7	7	16	11	0	0	1	0	0	0	1	1	2	1	2	2	5	3	6	2	5	0	0	novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		A	50685358	G	A	50685358	3	1	354	1	0	0	0	0	1	0	0	0	7005	1319	46	2	573	2	HDAC10	22	50685358	Missense_Mutation	SNP	G	TCGA-BP-5202-01A-02D-1429-08	13785165	50685358	619208	40	17858											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53253992	53253992	+	Frame_Shift_Del	DEL	G	G	-																															ttttcgcgatgtagccaagaGggtctcggaactcggcccag																								novel		TCGA-BP-5202-01A-02D-1429-08	TCGA-BP-5202-11A-01D-1429-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	accc7214-d441-4a72-a2eb-9f2811c38a3e	222d710e-2151-4a97-aede-2e7c58707b5b		-	53253992	G	-	53253992	7	5	354	1	0	1	0	1	0	0	0	0	8135	1000	35	0	4804	0	KDM5C	23	53253992	Frame_Shift_Del	DEL	G	TCGA-BP-5202-01A-02D-1429-08		53253992	102016568	41	17859											
STIL	6491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	47717395	47717395	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaatatggagaaggctgaAtgggtcacaattattttggt	13	14	11	3	0	1	2	1	1	0	1	1	3	1	2	0	4	0	1	0	4	6	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	47717395	A	T	47717395	3	4	355	1	0	0	0	0	1	0	0	0	15283	101	4	5	590	5	STIL	1	47717395	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10		47717395	201533226	1	17860											
PTGER3	5733	hgsc.bcm.edu;ucsc.edu	37	chr1	71328117	71328117	+	RNA	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagaaatattgtgctgaaAaagtcctgctttcacactgt	14	13	7	7	0	1	2	1	1	0	1	2	2	2	2	1	0	2	2	1	0	6	4	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	71328117	A	T	71328117	1	4	355	0	1	0	0	0	0	0	0	0	12746	29	1	5		5	PTGER3	1	71328117	RNA	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	23610722	71328117	177922504	2	17861											
ADORA3	140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	112042773	112042773	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctcaccattaaagtagatGatgcagttgatgatagataa	16	11	8	6	0	1	5	1	3	0	2	1	5	1	5	2	0	1	3	2	0	5	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	112042773	G	A	112042773	2	1	355	1	0	0	0	0	0	0	0	1	329	1280	45	2		2	ADORA3	1	112042773	Silent	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	40714656	112042773	137207848	3	17862											
FLG	2312	broad.mit.edu;hgsc.bcm.edu	37	chr1	152277657	152277657	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccacgatggtttctggaAgcagacccagaccacctctc	10	8	9	14	1	2	2	0	0	2	2	4	5	3	3	4	2	1	2	4	2	1	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	152277657	A	G	152277657	2	3	355	1	0	0	0	0	0	0	0	1	5922	59	3	3		3	FLG	1	152277657	Silent	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	40234884	152277657	96972964	4	17863											
LMNA	4000	broad.mit.edu;hgsc.bcm.edu	37	chr1	156105094	156105094	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctgcccagctcagccagctCcagaagcaggtgatacccca	10	6	9	16	0	2	2	1	1	1	1	3	2	3	2	5	1	6	3	5	1	2	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	156105094	C	G	156105094	2	3	355	1	0	0	0	0	0	0	0	1	8848	842	30	4		4	LMNA	1	156105094	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	3827437	156105094	93145527	5	17864											
FCRL2	79368	broad.mit.edu;ucsc.edu	37	chr1	157739752	157739752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgtcttcactccacaCggcagaaatctggagctccg	8	9	9	15	2	3	1	1	0	2	1	5	2	5	2	3	2	1	2	3	2	1	1	rs138011295		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	157739752	T	T	157739752	3	4	355	1	0	0	0	0	1	0	0	0	5795	536	19	1	1063	1	FCRL2	1	157739752	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	1634658	157739752	91510869	6	17865											
TGFB2	7042	broad.mit.edu;hgsc.bcm.edu	37	chr1	218609363	218609363	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgatcagaaaactataaagtCcactaggaaaaaaaacagtg	21	7	7	6	0	1	2	1	1	0	1	2	3	2	3	1	1	2	0	1	1	10	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	218609363	C	T	218609363	3	4	355	1	0	0	0	0	1	0	0	0	15817	855	30	2	912	2	TGFB2	1	218609363	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	60869611	218609363	30641258	7	17866											
OBSCN	84033	broad.mit.edu;hgsc.bcm.edu	37	chr1	228528242	228528242	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgttggcaggggacccCtctcagcccccgccaccacc	5	5	10	21	1	1	0	1	0	1	0	2	1	1	1	8	3	1	2	8	3	0	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	228528242	C	T	228528242	2	4	355	1	0	0	0	0	0	0	0	1	10812	668	24	2		2	OBSCN	1	228528242	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	9918879	228528242	20722379	8	17867											
C2orf71	388939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29295855	29295855	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcttcgtcctgtgctcGtggctgaacctttgccatag	4	14	10	13	2	0	1	0	1	0	0	3	1	1	1	4	1	4	3	4	1	2	4	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	29295855	G	A	29295855	4	1	355	1	0	0	0	0	0	1	0	0	2191	1153	40	1	2601	1	C2orf71	2	29295855	Nonsense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		29295855	213903518	9	17868											
ACTR2	10097	broad.mit.edu;hgsc.bcm.edu	37	chr2	65488448	65488448	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagaagctttatttcagcCtcacttgatcaatgttgaag	12	13	7	9	0	3	3	3	2	0	1	3	3	3	3	2	0	2	2	2	0	4	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	65488448	C	T	65488448	3	4	355	1	0	0	0	0	1	0	0	0	211	681	24	2	848	2	ACTR2	2	65488448	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	36192593	65488448	177710925	10	17869											
PNO1	56902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	68401898	68401898	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaggtttatggcaatatTcgagctgtggctagcagatc	10	12	11	8	1	0	1	0	0	0	1	3	2	1	1	1	3	2	5	1	3	5	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	68401898	T	G	68401898	3	3	355	1	0	0	0	0	1	0	0	0	12161	1771	62	5	749	5	PNO1	2	68401898	Missense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	2913450	68401898	174797475	11	17870											
DYSF	8291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71896302	71896302	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctggatgacctgagcctCacgggggagaagatgagcga	11	6	15	9	2	1	5	1	3	0	2	2	8	2	6	3	3	2	0	3	3	1	0	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	71896302	C	A	71896302	2	1	355	1	0	0	0	0	0	0	0	1	4859	813	29	4		4	DYSF	2	71896302	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	3494404	71896302	171303071	12	17871											
NAT8	9027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73868466	73868467	+	Frame_Shift_Ins	INS	-	-	T																															actcaggtaggatttggtaaINStgtcagacatgtctgtgcac																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	73868467	-	T	73868466	7	5	355	1	0	1	1	0	0	0	0	0	10179	101	4	0	397	0	NAT8	2	73868466	Frame_Shift_Ins	INS	-	TCGA-CJ-4634-01A-02D-1386-10	1972164	73868466	169330907	13	17872											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141806678	141806678	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctaaagcacgagggtttaCcagattttctatggggatca	11	12	11	7	1	3	1	1	0	2	1	3	3	3	2	1	3	2	2	1	3	4	6	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	141806678	C	T	141806678	3	4	355	1	0	0	0	0	1	0	0	0	8955	507	18	2	12457	2	LRP1B	2	141806678	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	67938212	141806678	101392695	14	17873											
NIF3L1	60491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201761932	201761932	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcccttggggtggggagaaCcttaggtaaatatagctcct	10	10	13	8	0	0	1	0	0	0	1	1	2	1	1	3	5	3	2	3	5	6	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	201761932	C	A	201761932	3	1	355	1	0	0	0	0	1	0	0	0	10416	507	18	4	874	4	NIF3L1	2	201761932	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	59955254	201761932	41437441	15	17874											
USP37	57695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219423354	219423354	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacttcgaattctgataggaCcatgtatcttcagaggagac	12	12	9	8	1	3	3	1	1	2	2	4	6	3	4	1	2	1	1	1	2	4	6	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	219423354	C	A	219423354	3	1	355	1	0	0	0	0	1	0	0	0	17067	507	18	4	3008	4	USP37	2	219423354	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	17661422	219423354	23776019	16	17875											
SETD5	55209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9486834	9486834	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcctaccacctcctccAagcctacccaccattggagc	9	7	4	21	0	0	0	0	0	0	0	3	1	3	1	9	1	4	0	9	1	3	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	9486834	A	C	9486834	2	2	355	1	0	0	0	0	0	0	0	1	14136	117	5	5		5	SETD5	3	9486834	Silent	SNP	A	TCGA-CJ-4634-01A-02D-1386-10		9486834	188535596	17	17876											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10188296	10188297	+	Frame_Shift_Ins	INS	-	-	TTTT																															caatgttgacggacagcctaINStttttgccaatatcacactg																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		TTTT	10188297	-	TTTT	10188296	7	5	355	1	0	1	1	0	0	0	0	0	17161	449	16	0	445	0	VHL	3	10188296	Frame_Shift_Ins	INS	-	TCGA-CJ-4634-01A-02D-1386-10	701462	10188296	187834134	18	17877											
CELSR3	1951	broad.mit.edu	37	chr3	48682639	48682639	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggcgactgcagtgcacaCcagctgagggcaggggggcg	8	4	19	10	2	0	1	0	1	0	0	0	3	0	1	1	5	3	4	1	5	0	0	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	48682639	G	G	48682639	3	3	355	1	0	0	0	0	1	0	0	0	3223	507	18	4	2181	4	CELSR3	3	48682639	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	38494343	48682639	149339791	19	17878											
MON1A	84315	broad.mit.edu	37	chr3	49948281	49948281	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaccgccactagcaccAgcgggctccggcgcacgaat	9	3	12	17	5	0	0	0	0	0	0	1	2	1	0	5	2	3	3	5	2	2	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	49948281	T	T	49948281	3	4	355	1	0	0	0	0	1	0	0	0	9698	188	7	5	1029	5	MON1A	3	49948281	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	1265642	49948281	148074149	20	17879											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52651513	52651513	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgagcttcaagaacaacaTtgaataagattttcattcgc	14	12	6	9	2	2	3	2	1	0	2	4	4	2	3	0	0	3	1	0	0	5	6	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	52651513	T	A	52651513	3	1	355	1	0	0	0	0	1	0	0	0	11491	1493	52	5	3385	5	PBRM1	3	52651513	Missense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	2703232	52651513	145370917	21	17880											
ITIH4	3700	broad.mit.edu;hgsc.bcm.edu	37	chr3	52858241	52858241	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcggtgagcaggatgatgAgtgagacactcccttcgggc	9	8	14	10	2	0	4	0	4	0	1	3	6	1	5	1	3	1	1	1	3	0	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	52858241	A	T	52858241	3	4	355	1	0	0	0	0	1	0	0	0	7906	304	11	5	1720	5	ITIH4	3	52858241	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	206728	52858241	145164189	22	17881											
MAGI1	9223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	65415803	65415805	+	In_Frame_Del	DEL	ACA	ACA	-																															cacaggtgtcattcacacttAcaatcacatcccctgtagaa																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	ACA	ACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		-	65415805	ACA	-	65415803	7	5	355	1	0	1	0	1	0	0	0	0	9190	391	14	0	3111	0	MAGI1	3	65415803	In_Frame_Del	DEL	ACA	TCGA-CJ-4634-01A-02D-1386-10	12557562	65415803	132606627	23	17882											
YEATS2	55689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	183490251	183490251	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggagttgccaaagcaattgtGagtggaggtggaggaaccat	12	8	16	5	0	0	1	0	1	0	0	0	5	0	5	2	5	3	2	2	5	3	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	183490251	G	C	183490251	2	2	355	1	0	0	0	0	0	0	0	1	17471	1277	45	4		4	YEATS2	3	183490251	Silent	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	118074448	183490251	14532179	24	17883											
TMEM129	92305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1719303	1719303	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agggaggcaaatgtctccagGaacaggtcgcccaggctctg	10	6	14	11	1	2	0	0	0	2	0	4	2	2	2	2	5	1	2	2	5	2	0	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	1719303	G	C	1719303	3	2	355	1	0	0	0	0	1	0	0	0	16041	1165	41	4	316	4	TMEM129	4	1719303	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		1719303	189434973	25	17884											
CCNG2	901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	78085544	78085544	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttggatcgtttcaaggCgcacagcccagaacctccac	9	9	10	13	2	1	1	1	0	0	1	3	2	2	2	3	3	2	3	3	3	2	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	78085544	C	T	78085544	3	4	355	1	0	0	0	0	1	0	0	0	2924	768	27	1	845	1	CCNG2	4	78085544	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	76366241	78085544	113068732	26	17885											
TRAM1L1	133022	broad.mit.edu;ucsc.edu	37	chr4	118005673	118005673	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaattttagctgccaacaCatttacatttccagtaaggg	13	12	7	9	0	0	0	0	0	0	0	1	0	1	0	2	1	5	3	2	1	5	6	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	118005673	A	A	118005673	3	1	355	1	0	0	0	0	1	0	0	0	16451	478	17	4	236	4	TRAM1L1	4	118005673	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	39920129	118005673	73148603	27	17886											
ZNF827	152485	broad.mit.edu	37	chr4	146824030	146824030	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgagggaaccagcctcCagcagccgcctcaaattgct	10	8	10	13	1	1	1	1	1	0	0	2	2	2	2	5	1	5	3	5	1	2	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	146824030	T	T	146824030	2	4	355	1	0	0	0	0	0	0	0	1	18179	581	21	2		2	ZNF827	4	146824030	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	28818357	146824030	44330246	28	17887											
IQGAP2	10788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	75886273	75886273	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaatgaagcagttgaaaaAggaatagcagagcaaaccgt	19	7	10	5	1	0	3	0	2	0	1	0	4	0	4	1	1	4	4	1	1	7	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	75886273	A	G	75886273	2	3	355	1	0	0	0	0	0	0	0	1	7815	69	3	3		3	IQGAP2	5	75886273	Silent	SNP	A	TCGA-CJ-4634-01A-02D-1386-10		75886273	105028987	29	17888											
CCNH	902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	86695281	86695281	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagaacagcaacttcttCagatctgggtggttcatact	10	14	8	9	0	5	2	3	0	2	2	5	2	5	2	0	2	4	2	0	2	3	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	86695281	C	A	86695281	4	1	355	1	0	0	0	0	0	1	0	0	2925	835	29	4	181	4	CCNH	5	86695281	Nonsense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	10809008	86695281	94219979	30	17889											
SLC27A6	28965	broad.mit.edu;ucsc.edu	37	chr5	128321007	128321007	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaagtctacttgtctttaCatttttacctctggaacaac	10	16	4	11	0	4	0	1	0	3	0	4	1	4	1	1	1	5	0	1	1	6	7	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	128321007	T	T	128321007	2	4	355	1	0	0	0	0	0	0	0	1	14532	489	17	2		2	SLC27A6	5	128321007	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	41625726	128321007	52594253	31	17890											
SLC23A1	9963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138713670	138713670	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctggaggcacctgtatTgatggcgccagggttggact	8	9	15	9	1	0	1	0	1	0	0	0	3	0	3	2	5	1	4	2	5	1	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	138713670	T	G	138713670	3	3	355	1	0	0	0	0	1	0	0	0	14464	1812	63	5	361	5	SLC23A1	5	138713670	Missense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	10392663	138713670	42201590	32	17891											
PCDHB6	56130	broad.mit.edu;hgsc.bcm.edu	37	chr5	140531176	140531176	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccgacgtcaatgacaacgtCcccgccttcacccaaacctc	10	7	5	19	4	2	1	2	1	0	0	5	2	4	1	6	0	2	0	6	0	3	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	140531176	C	T	140531176	2	4	355	1	0	0	0	0	0	0	0	1	11546	842	30	2		2	PCDHB6	5	140531176	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	1817506	140531176	40384084	33	17892											
KIF4B	285643	hgsc.bcm.edu;ucsc.edu	37	chr5	154395061	154395061	+	Frame_Shift_Del	DEL	A	A	-																															ggaagatgactcagaacgacAaccaactacagcccattcag																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		-	154395061	A	-	154395061	7	5	355	1	0	1	0	1	0	0	0	0	8304	130	5	0	1644	0	KIF4B	5	154395061	Frame_Shift_Del	DEL	A	TCGA-CJ-4634-01A-02D-1386-10	13863885	154395061	26520199	34	17893											
RIPK1	8737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	3081329	3081329	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctgaaaatatccttgtTgataatgacttccacattaa	15	13	5	8	0	0	3	0	3	0	0	2	3	2	3	3	0	1	1	3	0	6	6	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	3081329	T	C	3081329	2	2	355	1	0	0	0	0	0	0	0	1	13382	1799	63	3		3	RIPK1	6	3081329	Silent	SNP	T	TCGA-CJ-4634-01A-02D-1386-10		3081329	168033738	35	17894											
ERVFRDE1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	11104942	11104942	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaccagaagtttcgagtaCtgcatgagcttgggcgtccc	9	9	13	10	2	0	2	0	1	0	1	2	4	1	3	2	2	4	4	2	2	3	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	11104942	C	T	11104942	3	4	355	1	0	0	0	0	1	0	0	0	5246	565	20	2	1018	2	ERVFRDE1	6	11104942	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	8023613	11104942	160010125	36	17895											
PGBD1	84547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28269985	28269985	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcctgtaacccaggtgCttctctagaccccttggatt	8	11	9	13	0	1	2	0	0	1	2	2	3	1	3	4	2	3	2	4	2	2	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	28269985	C	T	28269985	3	4	355	1	0	0	0	0	1	0	0	0	11780	797	28	2	2376	2	PGBD1	6	28269985	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	17165043	28269985	142845082	37	17896											
SLC22A7	10864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43267765	43267765	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcgatggcttctgctagCtgtcaccctgccttgtgccc	3	12	11	15	1	2	0	1	0	1	0	2	1	2	0	3	2	4	3	3	2	1	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	43267765	C	T	43267765	3	4	355	1	0	0	0	0	1	0	0	0	14461	797	28	2	802	2	SLC22A7	6	43267765	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	14997780	43267765	127847302	38	17897											
LRRC1	55227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	53787556	53787556	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaaacaaaaacgaggtcAatcatgccattgaccgagtg	16	7	8	10	2	3	1	3	1	0	0	3	3	3	1	2	1	3	0	2	1	4	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	53787556	A	C	53787556	3	2	355	1	0	0	0	0	1	0	0	0	8966	130	5	5	1594	5	LRRC1	6	53787556	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	10519791	53787556	117327511	39	17898											
WTAP	9589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160176079	160176079	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaactgaatgacttcatcatCcagcttgatgaagaagtaga	15	10	9	7	0	2	6	2	4	0	2	3	7	3	6	1	0	2	2	1	0	5	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	160176079	C	A	160176079	2	1	355	1	0	0	0	0	0	0	0	1	17408	845	30	4		4	WTAP	6	160176079	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	106388523	160176079	10938988	40	17899											
TRA2A	29896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23547080	23547080	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcctggtgttggtgtgtgCgctctcttggttatagaata	6	16	13	6	1	1	1	0	0	1	1	2	1	1	1	1	3	2	3	1	3	4	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	23547080	C	T	23547080	2	4	355	1	0	0	0	0	0	0	0	1	16432	755	27	1		1	TRA2A	7	23547080	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10		23547080	135591583	41	17900											
NPC1L1	29881	broad.mit.edu;ucsc.edu	37	chr7	44561397	44561397	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcagccagtcaatgaagTcatccacccaggaggaggca	12	5	13	11	0	3	1	3	1	0	0	4	3	4	3	3	4	1	1	3	4	2	0	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	44561397	G	G	44561397	3	3	355	1	0	0	0	0	1	0	0	0	10571	1667	58	5	1248	5	NPC1L1	7	44561397	Missense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	21014317	44561397	114577266	42	17901											
TEX15	56154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	30702516	30702516	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcactatctgtcactgcagCggctgataactgaggaatac	11	10	9	11	1	3	2	2	2	1	0	3	3	3	3	0	2	4	2	0	2	4	3	rs148542296		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	30702516	C	T	30702516	3	4	355	1	0	0	0	0	1	0	0	0	15778	768	27	1	4367	1	TEX15	8	30702516	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10		30702516	115661506	43	17902											
XKR4	114786	broad.mit.edu	37	chr8	56015738	56015738	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgccgcggccaacagcggCagcaacagcagcggggctac	10	2	14	15	5	0	0	0	0	0	0	1	0	0	0	2	4	7	4	2	4	3	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	56015738	T	T	56015738	2	4	355	1	0	0	0	0	0	0	0	1	17432	697	25	2		2	XKR4	8	56015738	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	25313222	56015738	90348284	44	17903											
PABPC1	26986	hgsc.bcm.edu	37	chr8	101719004	101719004	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggctgcagctgcaggacGtggacccattgtctgtgttg	6	10	15	10	2	1	0	0	0	1	0	1	2	1	2	1	3	4	5	1	3	0	2	rs62513924	bycluster;by1000genomes	TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	101719004	G	A	101719004	3	1	355	1	0	0	0	0	1	0	0	0	11363	1145	40	1	449	1	PABPC1	8	101719004	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	45703266	101719004	44645018	45	17904											
KLF9	687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	73028059	73028059	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagggggtctggatgggtCggtacttgttcaggtccaac	6	10	17	8	2	2	0	1	0	1	0	4	2	3	2	1	7	2	2	1	7	2	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	73028059	C	A	73028059	3	1	355	1	0	0	0	0	1	0	0	0	8353	884	31	4	521	4	KLF9	9	73028059	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10		73028059	68185372	46	17905											
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101817583	101817583	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggttcaaaggtgaaaaaggaGaaaaaggagacattaatggc	19	6	13	3	0	1	3	1	1	0	2	1	5	1	3	0	5	0	1	0	5	6	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	101817583	G	A	101817583	3	1	355	1	0	0	0	0	1	0	0	0	3672	943	33	2	3255	2	COL15A1	9	101817583	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	28789524	101817583	39395848	47	17906											
NUP214	8021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	134072982	134072982	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccaaccaagacgtcaggCgtgccctcagggtttaattt	10	9	10	12	2	2	1	2	0	0	1	2	1	2	1	3	2	3	1	3	2	3	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	134072982	C	G	134072982	2	3	355	1	0	0	0	0	0	0	0	1	10762	755	27	4		4	NUP214	9	134072982	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	32255399	134072982	7140449	48	17907											
LCN1	3933	hgsc.bcm.edu	37	chr9	138414015	138414016	+	Frame_Shift_Del	DEL	CA	CA	-																															ggcaacctggaagccaaggtCaccatgctgtgagtgtctgc																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		-	138414016	CA	-	138414015	7	5	355	1	0	1	0	1	0	0	0	0	8680	813	29	0	219	0	LCN1	9	138414015	Frame_Shift_Del	DEL	CA	TCGA-CJ-4634-01A-02D-1386-10	4341033	138414015	2799416	49	17908											
CAMSAP1	157922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	138713412	138713412	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatggcctgctgcagcgtaCtgatggtttcgttaagcttc	6	13	13	9	2	0	1	0	1	0	0	2	2	0	2	1	3	5	6	1	3	2	4	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	138713412	C	T	138713412	3	4	355	1	0	0	0	0	1	0	0	0	2611	565	20	2	1741	2	CAMSAP1	9	138713412	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	299397	138713412	2500019	50	17909											
CUBN	8029	broad.mit.edu;ucsc.edu	37	chr10	17151672	17151672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgaggcatctgggtggcAgcctccattactgactgagc	8	9	13	11	0	1	3	0	3	1	0	2	3	2	3	2	3	3	3	2	3	1	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	17151672	G	G	17151672	3	3	355	1	0	0	0	0	1	0	0	0	4051	188	7	3	10025	3	CUBN	10	17151672	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10		17151672	118383075	51	17910											
COL13A1	1305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	71692318	71692318	+	Silent	SNP	A	A	T																															ggtgttttgtgcccacagggAgagaaaggagaagccgggga																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	71692318	A	T	71692318	2	4	355	1	0	0	0	0	0	0	0	1	3670	291	11	5		5	COL13A1	10	71692318	Silent	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	54540646	71692318	63842429	52	17911	246	2									
COL13A1	1305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	71692319	71692319	+	Nonsense_Mutation	SNP	G	G	T																															gtgttttgtgcccacagggaGagaaaggagaagccggggag																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	71692319	G	T	71692319	4	4	355	1	0	0	0	0	0	1	0	0	3670	943	33	4	1772	4	COL13A1	10	71692319	Nonsense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	1	71692319	63842428	53	17912	246	2									
KRTAP5-3	387266	hgsc.bcm.edu	37	chr11	1629359	1629359	+	Frame_Shift_Del	DEL	C	C	-																															cacagcagctggagccacagCcccccttggagcctccacag																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		-	1629359	C	-	1629359	7	5	355	1	0	1	0	1	0	0	0	0	8562	739	26	0	463	0	KRTAP5-3	11	1629359	Frame_Shift_Del	DEL	C	TCGA-CJ-4634-01A-02D-1386-10		1629359	133377157	54	17913											
CD6	923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60785278	60785278	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaactgccaaccctggaCactgcattacagacccgcca	11	6	6	18	1	0	1	0	0	0	1	1	2	1	2	5	1	5	1	5	1	3	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	60785278	C	A	60785278	3	1	355	1	0	0	0	0	1	0	0	0	3028	478	17	4	1672	4	CD6	11	60785278	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	59155919	60785278	74221238	55	17914											
PZP	5858	hgsc.bcm.edu;ucsc.edu	37	chr12	9305470	9305471	+	Frame_Shift_Ins	INS	-	-	GTTT																															gggctttgtgtccatcgcaaINSgtttggggcacagtctgcac																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		GTTT	9305471	-	GTTT	9305470	7	5	355	1	0	1	1	0	0	0	0	0	12871	59	3	0	401	0	PZP	12	9305470	Frame_Shift_Ins	INS	-	TCGA-CJ-4634-01A-02D-1386-10		9305470	124546425	56	17915											
DDX11	1663	broad.mit.edu	37	chr12	31256928	31256928	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaggacccaggcacaggCgttagctcccgtaggagaaa	11	5	13	12	2	0	1	0	0	0	1	1	3	1	2	3	4	2	4	3	4	3	2	rs4275703	alternate_allele	TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	31256928	G	G	31256928	2	3	355	1	0	0	0	0	0	0	0	1	4343	755	27	4		4	DDX11	12	31256928	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	21951458	31256928	102594967	57	17916											
KRT85	3891	broad.mit.edu;hgsc.bcm.edu	37	chr12	52760791	52760791	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtcgatgaaggccgcgaaCctgctgttgagggacttgat	8	11	14	8	3	0	3	0	3	0	0	1	6	0	4	2	2	2	2	2	2	2	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	52760791	C	G	52760791	3	3	355	1	0	0	0	0	1	0	0	0	8499	506	18	4	1160	4	KRT85	12	52760791	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	21503863	52760791	81091104	58	17917											
AMHR2	269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53818668	53818668	+	Frame_Shift_Del	DEL	T	T	-																															gggactcctggctcccagggTccccaggctgccccaggtag																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		-	53818668	T	-	53818668	7	5	355	1	0	1	0	1	0	0	0	0	573	1654	58	0	418	0	AMHR2	12	53818668	Frame_Shift_Del	DEL	T	TCGA-CJ-4634-01A-02D-1386-10	1057877	53818668	80033227	59	17918											
CMKLR1	1240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108686307	108686307	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtggttctgggaccagaCagggaggagcacagagatgc	10	5	18	8	1	1	2	0	0	1	2	1	6	1	5	1	5	2	2	1	5	0	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	108686307	C	T	108686307	3	4	355	1	0	0	0	0	1	0	0	0	3579	478	17	2	692	2	CMKLR1	12	108686307	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	54867639	108686307	25165588	60	17919											
ACADS	35	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121176678	121176678	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccggctgctgacctggcGcgctgccatgctgaaggata	6	8	14	13	3	0	2	0	2	0	0	0	3	0	3	3	3	4	4	3	3	2	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	121176678	G	A	121176678	3	1	355	1	0	0	0	0	1	0	0	0	114	1087	38	1	1019	1	ACADS	12	121176678	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	12490371	121176678	12675217	61	17920											
BCL7A	605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122481799	122481799	+	Frame_Shift_Del	DEL	C	C	-																															ccaccccctacagacgataaCagcaaccagagctccatcgc																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		-	122481799	C	-	122481799	7	5	355	1	0	1	0	1	0	0	0	0	1378	477	17	0	293	0	BCL7A	12	122481799	Frame_Shift_Del	DEL	C	TCGA-CJ-4634-01A-02D-1386-10	1305121	122481799	11370096	62	17921											
DCLK1	9201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	36521538	36521538	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtaacggaacttctcCggtccacatgcaataaaaat	13	10	7	11	2	1	0	0	0	1	0	4	1	3	1	3	3	3	2	3	3	6	3	rs146364649	bycluster;by1000genomes	TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	36521538	C	T	36521538	2	4	355	1	0	0	0	0	0	0	0	1	4291	639	23	1		1	DCLK1	13	36521538	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10		36521538	78648340	63	17922											
DGKH	160851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42740809	42740809	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaatggaggtcctcatttaGggtaactgattattgataaa	13	14	10	4	0	1	3	1	3	0	0	2	4	2	4	1	3	1	1	1	3	6	6	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	42740809	G	A	42740809	3	1	355	1	0	0	0	0	1	0	0	0	4470	1014	35	2	1151	2	DGKH	13	42740809	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	6219271	42740809	72429069	64	17923											
MED4	29079	broad.mit.edu;hgsc.bcm.edu	37	chr13	48669206	48669206	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttctcaccactcgaagaCgcagccattttccccagagt	9	10	6	16	2	1	2	1	0	1	2	5	3	3	2	5	0	1	1	5	0	1	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	48669206	C	G	48669206	2	3	355	1	0	0	0	0	0	0	0	1	9450	523	19	4		4	MED4	13	48669206	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	5928397	48669206	66500672	65	17924											
SIX4	51804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	61190108	61190108	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgacttctccttgaaacAatacaccgtctcctcgccgt	8	10	7	16	5	2	1	0	1	2	0	5	2	2	1	4	0	2	0	4	0	3	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	61190108	A	T	61190108	3	4	355	1	0	0	0	0	1	0	0	0	14351	130	5	5	1672	5	SIX4	14	61190108	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10		61190108	46159432	66	17925											
HIF1A	3091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	62200986	62200986	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccacagtgcattgtatgTgtgaattacgttgtgaggta	11	13	11	6	1	0	2	0	2	0	0	0	2	0	2	1	1	3	4	1	1	5	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	62200986	T	A	62200986	4	1	355	1	0	0	0	0	0	1	0	0	7103	1702	59	5	1041	5	HIF1A	14	62200986	Nonsense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	1010878	62200986	45148554	67	17926											
DCAF5	8816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	69520975	69520975	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtcctgggacagttgcCagacccgctgttgagagtgg	6	9	16	10	1	0	2	0	1	0	2	1	4	1	3	3	3	1	3	3	3	0	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	69520975	C	T	69520975	3	4	355	1	0	0	0	0	1	0	0	0	4273	594	21	2	404	2	DCAF5	14	69520975	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	7319989	69520975	37828565	68	17927											
DYNC1H1	1778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102510612	102510612	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgcttttcctcccccaggGcaggcagaacatctcaccgg	7	8	9	17	1	1	1	1	0	1	1	4	1	3	1	5	3	2	3	5	3	1	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	102510612	G	A	102510612	3	1	355	1	0	0	0	0	1	0	0	0	4841	1217	42	2	12968	2	DYNC1H1	14	102510612	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	32989637	102510612	4838928	69	17928											
TDRD9	122402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	104441754	104441754	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtcggctaccatcagctGtaaagagtttgcagactact	11	11	10	9	1	1	2	1	0	0	2	2	3	1	2	1	1	4	5	1	1	4	4	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	104441754	G	C	104441754	3	2	355	1	0	0	0	0	1	0	0	0	15735	1377	48	4	901	4	TDRD9	14	104441754	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	1931142	104441754	2907786	70	17929											
LPCAT4	254531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34651395	34651395	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtggggttgcctggggatGaggcatttggtgtctgggag	5	11	20	5	0	1	1	0	1	1	0	1	3	1	3	1	7	1	2	1	7	0	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	34651395	G	A	34651395	3	1	355	1	0	0	0	0	1	0	0	0	8913	1294	45	2	70	2	LPCAT4	15	34651395	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		34651395	67879997	71	17930											
VPS18	57617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41188258	41188258	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcagctgtgcatgagcctgGgcaaggatacactgctccgg	9	8	13	11	1	1	1	1	1	0	0	2	2	2	2	2	3	5	4	2	3	2	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	41188258	G	C	41188258	3	2	355	1	0	0	0	0	1	0	0	0	17193	1232	43	4	220	4	VPS18	15	41188258	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	6536863	41188258	61343134	72	17931											
PRKCB	5579	broad.mit.edu;ucsc.edu	37	chr16	24185869	24185869	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaaattgccatcggtctGttcttcttacagagtaaggg	10	12	11	8	1	3	2	0	0	3	2	4	2	3	2	1	2	2	3	1	2	3	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	24185869	C	C	24185869	2	2	355	1	0	0	0	0	0	0	0	1	12510	1364	48	4		4	PRKCB	16	24185869	Silent	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		24185869	66168884	73	17932											
TNRC6A	27327	hgsc.bcm.edu	37	chr16	24805924	24805925	+	In_Frame_Ins	INS	-	-	CCA																															gccattgcctggaaatcgccINSccactggctgggaagaggaa																								novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		CCA	24805925	-	CCA	24805924	7	5	355	1	0	1	1	0	0	0	0	0	16339	623	22	0	3442	0	TNRC6A	16	24805924	In_Frame_Ins	INS	-	TCGA-CJ-4634-01A-02D-1386-10	620055	24805924	65548829	74	17933											
KCTD19	146212	broad.mit.edu;ucsc.edu	37	chr16	67324887	67324887	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcttggggctgatgtgcagGgtctgccaggagagcccaca	7	8	16	10	0	1	2	0	1	1	1	1	3	1	2	2	4	4	3	2	4	0	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	67324887	C	C	67324887	2	2	355	1	0	0	0	0	0	0	0	1	8106	1219	43	4		4	KCTD19	16	67324887	Silent	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	42518963	67324887	23029866	75	17934											
CCDC42	146849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8647475	8647475	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccagatggatggggactcCgacgccccctcaacattggg	9	6	13	13	2	1	1	1	0	0	1	2	4	2	3	4	4	2	0	4	4	1	1	rs149123321		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	8647475	C	T	8647475	2	4	355	1	0	0	0	0	0	0	0	1	2814	639	23	1		1	CCDC42	17	8647475	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10		8647475	72547735	76	17935											
GGNBP2	79893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34943427	34943427	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctttgctgtggtatcagAtccagaagcttggaagctgt	9	13	11	8	0	1	2	1	0	0	2	3	3	3	3	2	2	3	4	2	2	3	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	34943427	A	C	34943427	3	2	355	1	0	0	0	0	1	0	0	0	6359	347	12	5	1688	5	GGNBP2	17	34943427	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	26295952	34943427	46251783	77	17936											
PLEKHM1	9842	broad.mit.edu;hgsc.bcm.edu	37	chr17	43552739	43552739	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatggaatccagagattccTtccgctgtagttctgcacca	11	11	8	11	1	1	1	0	0	1	1	4	3	4	2	4	1	1	4	4	1	3	4	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	43552739	T	C	43552739	3	2	355	1	0	0	0	0	1	0	0	0	12080	1609	56	3	2556	3	PLEKHM1	17	43552739	Missense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	8609312	43552739	37642471	78	17937											
ABCA8	10351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66924117	66924117	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcaagtgtcaaatgccaAcatgaaatttgttgctacaa	15	10	9	7	0	1	1	1	1	0	0	1	2	1	1	1	1	4	3	1	1	6	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	66924117	A	G	66924117	2	3	355	1	0	0	0	0	0	0	0	1	38	40	2	3		3	ABCA8	17	66924117	Silent	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	23371378	66924117	14271093	79	17938											
L3MBTL4	91133	broad.mit.edu;hgsc.bcm.edu	37	chr18	6215828	6215828	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaaaaattttctggattgGgataacctgaaaatatatat	17	13	8	3	0	1	1	0	1	1	0	1	4	1	4	1	3	1	0	1	3	8	7	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	6215828	G	C	6215828	3	2	355	1	0	0	0	0	1	0	0	0	8594	1232	43	4	1120	4	L3MBTL4	18	6215828	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		6215828	71861420	80	17939											
ZNF521	25925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	22806642	22806642	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgcaagacttgaaaataAttgtttgttgcagtaaatac	16	13	7	5	0	0	2	0	1	0	1	0	2	0	2	0	0	4	5	0	0	8	7	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	22806642	A	C	22806642	3	2	355	1	0	0	0	0	1	0	0	0	17964	98	4	5	2715	5	ZNF521	18	22806642	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	16590814	22806642	55270606	81	17940											
ZNF532	55205	broad.mit.edu	37	chr18	56601783	56601783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtggggccatctgcaggtCggtgcacttccagacccacg	6	8	14	13	2	1	1	0	0	1	1	3	1	2	1	3	4	2	2	3	4	0	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	56601783	T	T	56601783	3	4	355	1	0	0	0	0	1	0	0	0	17971	893	31	1	2471	1	ZNF532	18	56601783	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	33795141	56601783	21475465	82	17941											
JSRP1	126306	broad.mit.edu;hgsc.bcm.edu	37	chr19	2252973	2252973	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagggctcgggcacacgtgCttggagtgctgcctccccag	5	7	14	15	2	0	0	0	0	0	0	2	1	1	1	4	3	3	4	4	3	0	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	2252973	C	A	2252973	3	1	355	1	0	0	0	0	1	0	0	0	7966	797	28	4	537	4	JSRP1	19	2252973	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10		2252973	56876010	83	17942											
CELF5	60680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3293438	3293438	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagacccgggacacccCtactgaccgcgcccacagcc	10	2	8	21	3	0	2	0	1	0	1	0	3	0	3	7	1	2	0	7	1	2	1	rs142809979	alternate_allele	TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	3293438	C	A	3293438	2	1	355	1	0	0	0	0	0	0	0	1	3219	668	24	4		4	CELF5	19	3293438	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	1040465	3293438	55835545	84	17943											
HKR1	284459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37853658	37853658	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctgatcacacatcagAggacacactcaggggagaaa	17	4	9	11	0	3	3	3	1	0	2	3	5	3	4	1	3	1	0	1	3	2	0	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		G	37853658	A	G	37853658	3	3	355	1	0	0	0	0	1	0	0	0	7194	295	11	3	975	3	HKR1	19	37853658	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	34560220	37853658	21275325	85	17944											
MAMSTR	284358	broad.mit.edu	37	chr19	49216785	49216785	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaaggagccagggaagtcCaggggaatagggggcagggg	11	3	21	6	1	0	0	0	0	0	0	2	4	1	3	2	8	1	1	2	8	4	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	49216785	T	T	49216785	2	4	355	1	0	0	0	0	0	0	0	1	9209	581	21	2		2	MAMSTR	19	49216785	Silent	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	11363127	49216785	9912198	86	17945											
FPR3	2359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52327023	52327023	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggaaaccaacttctccattCctctgaatgaaactgaggag	13	10	8	10	0	2	3	0	3	2	0	4	5	3	5	3	2	3	0	3	2	4	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	52327023	C	T	52327023	3	4	355	1	0	0	0	0	1	0	0	0	6040	855	30	2	24	2	FPR3	19	52327023	Missense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	3110238	52327023	6801960	87	17946											
ZNF274	10782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58695360	58695360	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcttccgacggcctggTcctgtgtgagtagaggcttc	5	10	14	12	2	0	2	0	1	0	1	3	3	2	2	4	4	0	3	4	4	1	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	58695360	T	A	58695360	3	1	355	1	0	0	0	0	1	0	0	0	17808	1667	58	5	30	5	ZNF274	19	58695360	Missense_Mutation	SNP	T	TCGA-CJ-4634-01A-02D-1386-10	6368337	58695360	433623	88	17947											
TMC2	117532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2616597	2616597	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatttactacctgaactcaGtttccaaaagcctttcccga	11	12	4	14	1	1	1	1	1	0	0	3	2	3	1	5	0	4	1	5	0	5	5	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	2616597	G	T	2616597	3	4	355	1	0	0	0	0	1	0	0	0	15984	1029	36	4	2402	4	TMC2	20	2616597	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		2616597	60408923	89	17948											
SIGLEC1	6614	broad.mit.edu	37	chr20	3679976	3679976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgctgccgggaccctcGtgaagcagggctccattcag	7	7	14	13	2	1	1	1	1	0	0	3	2	2	2	3	3	3	4	3	3	1	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	3679976	A	A	3679976	2	1	355	1	0	0	0	0	0	0	0	1	14307	1136	40	1		1	SIGLEC1	20	3679976	Silent	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	1063379	3679976	59345544	90	17949											
DSCR6	53820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38390298	38390298	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtctactgagtctgcttccGaagctgaagagccagaggaa	12	8	12	9	1	2	4	0	2	2	2	3	6	3	5	2	1	4	2	2	1	4	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		A	38390298	G	A	38390298	3	1	355	1	0	0	0	0	1	0	0	0	4773	1059	37	1	378	1	DSCR6	21	38390298	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		38390298	9739597	91	17950											
DIP2A	23181	broad.mit.edu;ucsc.edu	37	chr21	47980645	47980645	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccttccagggcacagctgGcccggaccccacaaccgtct	7	6	9	19	2	1	0	0	0	1	0	3	1	3	1	6	3	2	2	6	3	1	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	47980645	T	T	47980645	3	4	355	1	0	0	0	0	1	0	0	0	4527	1203	42	4	4223	4	DIP2A	21	47980645	Missense_Mutation	SNP	G	TCGA-CJ-4634-01A-02D-1386-10	9590347	47980645	149250	92	17951											
BCOR	54880	hgsc.bcm.edu;ucsc.edu	37	chrX	39921479	39921479	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgcttccggcggcataggGcgagactgggtggtctcctg	4	9	17	11	4	1	1	0	0	1	1	3	2	2	1	2	5	1	2	2	5	1	2	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	39921479	G	C	39921479	2	2	355	1	0	0	0	0	0	0	0	1	1386	1190	42	4		4	BCOR	23	39921479	Silent	SNP	G	TCGA-CJ-4634-01A-02D-1386-10		39921479	115349081	93	17952											
NRK	203447	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	105132300	105132300	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccataggatgaggaagaggAtctcaggactgaactcaacc	14	7	11	9	0	2	3	2	2	1	1	4	7	3	7	2	4	2	0	2	4	4	1	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		C	105132300	A	C	105132300	3	2	355	1	0	0	0	0	1	0	0	0	10655	333	12	5	284	5	NRK	23	105132300	Missense_Mutation	SNP	A	TCGA-CJ-4634-01A-02D-1386-10	65210821	105132300	50138260	94	17953											
FMR1NB	158521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	147088242	147088242	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgcaatctgagggaaaatCaggtggcaaagccttgtaat	13	10	11	7	0	2	1	1	1	1	0	2	2	2	2	1	3	2	3	1	3	5	3	novel		TCGA-CJ-4634-01A-02D-1386-10	TCGA-CJ-4634-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	59f18fac-c6f8-4cbf-9259-8c22d6ba0c58	2edd8e13-514b-40ec-ace4-86e733c0f94e		T	147088242	C	T	147088242	4	4	355	1	0	0	0	0	0	1	0	0	5961	827	29	2	428	2	FMR1NB	23	147088242	Nonsense_Mutation	SNP	C	TCGA-CJ-4634-01A-02D-1386-10	41955942	147088242	8182318	95	17954											
PPIH	10465	hgsc.bcm.edu;ucsc.edu	37	chr1	43124123	43124123	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccgggtcggagccatggcGgtggcaaattcaagtcctgt	7	10	14	10	3	1	0	1	0	0	0	4	1	3	1	3	5	1	1	3	5	2	2	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	43124123	G	A	43124123	2	1	356	1	0	0	0	0	0	0	0	1	12327	1103	39	1		1	PPIH	1	43124123	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		43124123	206126498	1	17955											
RAB3B	5865	hgsc.bcm.edu;ucsc.edu	37	chr1	52385647	52385647	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggtgtccgagagacgCgtgttcttggaggagcccag	6	8	19	8	3	1	1	0	0	1	1	2	5	2	3	2	5	1	1	2	5	0	2	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	52385647	C	T	52385647	2	4	356	1	0	0	0	0	0	0	0	1	12934	755	27	1		1	RAB3B	1	52385647	Silent	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	9261524	52385647	196864974	2	17956											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144906421	144906421	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaaaaagttttgaaagacCtttatgagatcttctttaat	14	18	5	4	0	2	3	0	2	2	2	2	4	2	3	1	0	0	1	1	0	6	9	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	144906421	C	G	144906421	3	3	356	1	0	0	0	0	1	0	0	0	11643	695	24	4	4722	4	PDE4DIP	1	144906421	Missense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	92520774	144906421	104344200	3	17957											
TARS2	80222	hgsc.bcm.edu;ucsc.edu	37	chr1	150460370	150460370	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccacgctggttggcagagCggcttggcctttttgaggag	5	11	15	10	2	0	2	0	1	0	1	1	3	1	3	2	5	1	4	2	5	0	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	150460370	C	G	150460370	3	3	356	1	0	0	0	0	1	0	0	0	15559	759	27	4	109	4	TARS2	1	150460370	Missense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	5553949	150460370	98790251	4	17958											
ANXA4	307	hgsc.bcm.edu;ucsc.edu	37	chr2	70008703	70008703	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgacctagagtcatggcCatggtaagttgtgaaatacc	11	12	10	8	0	2	3	1	2	1	1	2	3	2	3	3	2	1	2	3	2	4	5	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	70008703	C	A	70008703	2	1	356	1	0	0	0	0	0	0	0	1	720	581	21	4		4	ANXA4	2	70008703	Silent	SNP	C	TCGA-CJ-4635-01A-02D-1373-10		70008703	173190670	5	17959											
SLC9A4	389015	hgsc.bcm.edu;ucsc.edu	37	chr2	103148953	103148953	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaacacaagccaagaaGagtacttgggtggagtaagg	18	5	13	5	0	0	3	0	0	0	3	0	4	0	4	1	3	3	2	1	3	7	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	103148953	G	T	103148953	4	4	356	1	0	0	0	0	0	1	0	0	14718	943	33	4	2249	4	SLC9A4	2	103148953	Nonsense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	33140250	103148953	140050420	6	17960											
DNAJC10	54431	hgsc.bcm.edu	37	chr2	183622508	183622508	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgttcaaagataccctgaGataagattttttcccccaaa	15	11	5	10	1	1	3	1	1	0	3	2	4	2	3	3	0	2	1	3	0	5	6	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	183622508	G	A	183622508	2	1	356	1	0	0	0	0	0	0	0	1	4629	933	33	2		2	DNAJC10	2	183622508	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	80473555	183622508	59576865	7	17961											
ALAS1	211	hgsc.bcm.edu	37	chr3	52239907	52239907	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtactagaaatatttctGgaactagtaaattccatgtg	13	14	9	5	0	1	1	0	0	1	1	2	2	2	2	1	2	2	2	1	2	8	7	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	52239907	G	C	52239907	3	2	356	1	0	0	0	0	1	0	0	0	484	1349	47	4	871	4	ALAS1	3	52239907	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		52239907	145782523	8	17962											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52713700	52713700	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacactgctggaaggggAggtagctcttcttctcttgg	6	12	14	9	0	3	1	0	1	3	0	4	3	3	3	0	5	2	4	0	5	2	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	52713700	A	T	52713700	3	4	356	1	0	0	0	0	1	0	0	0	11491	304	11	5	4992	5	PBRM1	3	52713700	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	473793	52713700	145308730	9	17963											
ZNF732	654254	hgsc.bcm.edu;ucsc.edu	37	chr4	265943	265943	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtttagcaaagtttgaggAtgtggtaaagatgttgccac	12	13	12	4	0	0	2	0	1	0	1	0	3	0	3	1	2	2	5	1	2	4	5	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	265943	A	G	265943	3	3	356	1	0	0	0	0	1	0	0	0	18122	333	12	3	1058	3	ZNF732	4	265943	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10		265943	190888333	10	17964											
PDS5A	23244	hgsc.bcm.edu;ucsc.edu	37	chr4	39929780	39929780	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatccataaaggttttcactAccatctgtaaaaatgtacaa	16	13	4	8	0	2	0	1	0	1	0	3	0	3	0	2	1	2	3	2	1	9	7	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	39929780	A	G	39929780	3	3	356	1	0	0	0	0	1	0	0	0	11691	391	14	3	4027	3	PDS5A	4	39929780	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	39663837	39929780	151224496	11	17965											
HERC3	8916	hgsc.bcm.edu;ucsc.edu	37	chr4	89583638	89583638	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcacattataccagtttAataaatgatgaaaccatagc	18	10	5	8	0	0	2	0	2	0	0	0	2	0	2	2	0	4	2	2	0	8	6	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	89583638	A	C	89583638	3	2	356	1	0	0	0	0	1	0	0	0	7059	359	13	5	1237	5	HERC3	4	89583638	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	49653858	89583638	101570638	12	17966											
ANK2	287	hgsc.bcm.edu	37	chr4	114170963	114170963	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcacgaagtgggcatgAccaagtggtggaacttctgt	9	10	14	8	1	1	1	0	1	1	0	1	3	1	2	1	3	3	3	1	3	3	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	114170963	A	G	114170963	3	3	356	1	0	0	0	0	1	0	0	0	621	275	10	3	998	3	ANK2	4	114170963	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	24587325	114170963	76983313	13	17967											
ANKRD55	79722	hgsc.bcm.edu	37	chr5	55455707	55455707	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcgactgttgcaacaGgaccgtgaggagcctgtaag	10	9	14	8	2	0	1	0	1	0	0	1	5	0	3	2	2	3	4	2	2	2	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	55455707	G	T	55455707	3	4	356	1	0	0	0	0	1	0	0	0	681	991	35	4	1436	4	ANKRD55	5	55455707	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		55455707	125459553	14	17968											
AP3B1	8546	hgsc.bcm.edu	37	chr5	77406143	77406143	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaagaatctgaagttttaGatttttcattttccttctcc	9	20	5	7	0	3	4	1	2	2	2	5	4	4	4	2	0	0	1	2	0	4	8	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	77406143	G	A	77406143	3	1	356	1	0	0	0	0	1	0	0	0	744	942	33	2	1031	2	AP3B1	5	77406143	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	21950436	77406143	103509117	15	17969											
IRF1	3659	hgsc.bcm.edu	37	chr5	131821389	131821389	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaggtaatttcccttcCtcatcctcatctgttgtagc	6	16	5	14	0	4	0	3	0	1	0	8	0	8	0	4	1	1	3	4	1	2	5	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	131821389	C	T	131821389	2	4	356	1	0	0	0	0	0	0	0	1	7827	680	24	2		2	IRF1	5	131821389	Silent	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	54415246	131821389	49093871	16	17970											
MYLK4	340156	hgsc.bcm.edu;ucsc.edu	37	chr6	2678597	2678597	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacccaggaaaggcgacaaAccgctaagtctggaggacac	14	4	11	12	2	2	0	1	0	1	0	2	4	2	3	2	4	1	1	2	4	3	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	2678597	A	G	2678597	2	3	356	1	0	0	0	0	0	0	0	1	10059	30	2	3		3	MYLK4	6	2678597	Silent	SNP	A	TCGA-CJ-4635-01A-02D-1373-10		2678597	168436470	17	17971											
MDN1	23195	hgsc.bcm.edu;ucsc.edu	37	chr6	90362818	90362818	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgggctttgtctgttctggGgtcttggtcttcctctgttt	1	20	12	8	0	5	0	0	0	5	0	6	0	6	0	1	4	0	3	1	4	0	5	rs149487165	bycluster;by1000genomes;alternate_allele	TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	90362818	G	A	90362818	3	1	356	1	0	0	0	0	1	0	0	0	9415	1232	43	2	1108	2	MDN1	6	90362818	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	87684221	90362818	80752249	18	17972											
HBS1L	10767	hgsc.bcm.edu	37	chr6	135300385	135300385	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgccgcccagtcgacaGgttcatcatgcagagtgatt	8	10	11	12	2	2	2	2	1	0	1	3	3	2	2	2	1	3	3	2	1	0	2	rs145782441	alternate_allele	TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	135300385	G	C	135300385	3	2	356	1	0	0	0	0	1	0	0	0	6987	1000	35	4	455	4	HBS1L	6	135300385	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	44937567	135300385	35814682	19	17973											
RGS17	26575	hgsc.bcm.edu;ucsc.edu	37	chr6	153345485	153345485	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctgctccttctttaagTcttcacaagcaagccagaaa	11	13	6	11	0	4	1	1	0	3	1	5	1	5	1	2	0	3	3	2	0	4	5	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	153345485	T	C	153345485	3	2	356	1	0	0	0	0	1	0	0	0	13301	1667	58	3	284	3	RGS17	6	153345485	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10	18045100	153345485	17769582	20	17974											
KIAA1324L	222223	hgsc.bcm.edu;ucsc.edu	37	chr7	86548618	86548618	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggatatgatctccagccaCctcccaacctagaagtaata	13	9	6	13	0	1	2	0	1	1	1	3	3	2	3	5	1	2	1	5	1	6	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	86548618	C	G	86548618	3	3	356	1	0	0	0	0	1	0	0	0	8224	507	18	4	1729	4	KIAA1324L	7	86548618	Missense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10		86548618	72590045	21	17975											
CNTLN	54875	hgsc.bcm.edu;ucsc.edu	37	chr9	17394889	17394889	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccgagatggccaccatgAaagtgagatctggacgatat	14	8	11	8	2	1	3	0	2	1	2	2	7	2	4	3	2	0	0	3	2	3	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	17394889	A	G	17394889	3	3	356	1	0	0	0	0	1	0	0	0	3639	247	9	3	2525	3	CNTLN	9	17394889	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10		17394889	123818542	22	17976											
COL15A1	1306	hgsc.bcm.edu;ucsc.edu	37	chr9	101759361	101759361	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacagcagccccaaacAaggcaagtccggatgcacat	14	3	9	15	1	0	0	0	0	0	0	1	1	1	1	4	2	5	4	4	2	3	0	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	101759361	A	T	101759361	3	4	356	1	0	0	0	0	1	0	0	0	3672	130	5	5	972	5	COL15A1	9	101759361	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	84364472	101759361	39454070	23	17977											
ARID5B	84159	hgsc.bcm.edu;ucsc.edu	37	chr10	63845486	63845486	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctaccatatgaaagatttAttaaaggagaagaagataag	19	10	8	4	0	0	5	0	1	0	4	1	6	1	5	2	1	1	0	2	1	9	6	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	63845486	A	C	63845486	3	2	356	1	0	0	0	0	1	0	0	0	922	449	16	5	1259	5	ARID5B	10	63845486	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10		63845486	71689261	24	17978											
MYPN	84665	hgsc.bcm.edu;ucsc.edu	37	chr10	69925513	69925513	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaagattctgggtgctTcacatgtactgcaagcaaca	12	10	10	9	0	2	2	1	0	1	2	2	2	2	2	0	1	6	5	0	1	4	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	69925513	T	C	69925513	3	2	356	1	0	0	0	0	1	0	0	0	10098	1783	62	3	1568	3	MYPN	10	69925513	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10	6080027	69925513	65609234	25	17979											
ARHGAP19	84986	hgsc.bcm.edu;ucsc.edu	37	chr10	99019161	99019161	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcccgtcaacactcacatTttttggccacaggacatggg	9	11	8	13	1	2	0	2	0	0	0	3	1	3	1	2	3	1	0	2	3	1	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	99019161	T	G	99019161	3	3	356	1	0	0	0	0	1	0	0	0	869	1841	64	5	678	5	ARHGAP19	10	99019161	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10	29093648	99019161	36515586	26	17980											
FAM111B	374393	hgsc.bcm.edu;ucsc.edu	37	chr11	58877131	58877131	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactgaagaaaacaagtcAtttagcgctatggaagatga	18	8	10	5	1	1	5	1	2	0	3	1	6	1	6	0	1	2	1	0	1	8	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	58877131	A	C	58877131	2	2	356	1	0	0	0	0	0	0	0	1	5400	204	8	5		5	FAM111B	11	58877131	Silent	SNP	A	TCGA-CJ-4635-01A-02D-1373-10		58877131	76129385	27	17981											
BIRC2	329	hgsc.bcm.edu;ucsc.edu	37	chr11	102248743	102248743	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtcactggaagaacaattGaggaggttgcaagaagaacg	15	7	13	6	1	1	4	1	1	0	3	1	6	1	6	0	3	3	2	0	3	6	2	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	102248743	G	A	102248743	2	1	356	1	0	0	0	0	0	0	0	1	1435	1281	45	2		2	BIRC2	11	102248743	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	43371612	102248743	32757773	28	17982											
GLI1	2735	hgsc.bcm.edu	37	chr12	57865037	57865037	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcaatgcccaccccagTgaggggcccccacatccaca	9	5	8	19	0	1	1	1	1	0	0	2	1	2	1	7	2	2	0	7	2	1	0	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	57865037	T	G	57865037	3	3	356	1	0	0	0	0	1	0	0	0	6437	1693	59	5	2556	5	GLI1	12	57865037	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10		57865037	75986858	29	17983											
GLI1	2735	hgsc.bcm.edu	37	chr12	57865608	57865608	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcctgccttgtaccctcctCccgaaggacaggtatgtaac	8	10	9	14	1	0	0	0	0	0	0	3	2	3	1	5	2	3	3	5	2	4	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	57865608	C	T	57865608	3	4	356	1	0	0	0	0	1	0	0	0	6437	855	30	2	3127	2	GLI1	12	57865608	Missense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	571	57865608	75986287	30	17984											
PTPRR	5801	hgsc.bcm.edu	37	chr12	71092114	71092114	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttctttgggatccacaaAgttcattggtatttcctgca	10	16	7	8	0	2	0	1	0	1	0	4	1	4	1	2	2	1	3	2	2	3	6	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	71092114	A	C	71092114	3	2	356	1	0	0	0	0	1	0	0	0	12812	72	3	5	791	5	PTPRR	12	71092114	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	13226506	71092114	62759781	31	17985											
NAA25	80018	hgsc.bcm.edu	37	chr12	112516503	112516503	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattctctcagcaaggggcaGaaacattgtttttgagaggt	11	12	11	7	0	2	2	1	1	1	2	3	3	2	2	0	3	2	3	0	3	2	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	112516503	G	A	112516503	2	1	356	1	0	0	0	0	0	0	0	1	10121	933	33	2		2	NAA25	12	112516503	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	41424389	112516503	21335392	32	17986											
FBXO21	23014	hgsc.bcm.edu;ucsc.edu	37	chr12	117627030	117627030	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccacatcaacagatccttAcgtgctctgaaaagaacctc	14	8	6	13	1	2	3	1	1	1	2	4	3	3	3	3	0	5	1	3	0	5	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	117627030	A	G	117627030	5	3	356	1	0	0	0	0	0	0	1	0	5733	405	14	3	1553	3	FBXO21	12	117627030	Splice_Site	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	5110527	117627030	16224865	33	17987											
FRY	10129	hgsc.bcm.edu;ucsc.edu	37	chr13	32798431	32798431	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagagaccaagcagccgCagcccttaccgatgccttgt	10	8	9	14	2	0	1	0	0	0	1	0	3	0	1	5	0	6	2	5	0	3	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	32798431	C	T	32798431	4	4	356	1	0	0	0	0	0	1	0	0	6063	711	25	2	4971	2	FRY	13	32798431	Nonsense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10		32798431	82371447	34	17988											
DCT	1638	hgsc.bcm.edu;ucsc.edu	37	chr13	95117927	95117927	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggagaatcttgagttccGactaatcagagtcggatcgt	10	11	12	8	3	2	3	1	1	1	2	5	6	3	4	1	2	0	2	1	2	2	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	95117927	G	A	95117927	3	1	356	1	0	0	0	0	1	0	0	0	4304	1057	37	1	863	1	DCT	13	95117927	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	62319496	95117927	20051951	35	17989											
ACTR10	55860	hgsc.bcm.edu;ucsc.edu	37	chr14	58701185	58701185	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atacctgattggtgttctctCaataacccacctttggaaat	11	14	6	10	0	2	1	1	1	1	0	3	2	2	2	3	2	2	1	3	2	4	5	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	58701185	C	T	58701185	2	4	356	1	0	0	0	0	0	0	0	1	208	813	29	2		2	ACTR10	14	58701185	Silent	SNP	C	TCGA-CJ-4635-01A-02D-1373-10		58701185	48648355	36	17990											
DUOX2	50506	hgsc.bcm.edu	37	chr15	45387206	45387206	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcacagacaccaggtcctgGtggtcgttctcctccacctc	6	10	9	16	1	1	1	0	0	1	1	6	1	3	1	5	3	1	2	5	3	0	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	45387206	G	A	45387206	2	1	356	1	0	0	0	0	0	0	0	1	4801	1252	44	2		2	DUOX2	15	45387206	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		45387206	57144186	37	17991											
ACAN	176	hgsc.bcm.edu	37	chr15	89398671	89398671	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggctctgcctctggagttgGggatctcagtggacttcctt	4	13	14	10	0	3	0	1	0	3	0	5	3	4	3	2	5	1	2	2	5	0	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	89398671	G	A	89398671	3	1	356	1	0	0	0	0	1	0	0	0	117	1232	43	2	2897	2	ACAN	15	89398671	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	44011465	89398671	13132721	38	17992											
SRRM2	23524	hgsc.bcm.edu	37	chr16	2816400	2816400	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccagtgactcgcagaagGtccagatccaggactccacc	11	5	9	16	1	0	3	0	1	0	2	4	4	3	4	6	2	0	1	6	2	1	0	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	2816400	G	A	2816400	2	1	356	1	0	0	0	0	0	0	0	1	15170	1252	44	2		2	SRRM2	16	2816400	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		2816400	87538353	39	17993											
MT1X	4501	hgsc.bcm.edu	37	chr16	56717913	56717913	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtgccaagtgtgcccaGggctgcatctgcaaagggac	8	7	15	11	0	1	0	0	0	1	0	1	1	1	1	2	3	4	4	2	3	2	0	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	56717913	G	T	56717913	3	4	356	1	0	0	0	0	1	0	0	0	9904	991	35	4	148	4	MT1X	16	56717913	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	53901513	56717913	33636840	40	17994											
ABCA5	23461	hgsc.bcm.edu	37	chr17	67266771	67266771	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgaaagaatggggtacTccagatctggatggtttcag	11	12	12	6	0	2	3	1	1	1	2	3	4	3	4	1	4	2	2	1	4	4	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	67266771	T	C	67266771	3	2	356	1	0	0	0	0	1	0	0	0	35	1551	54	3	1987	3	ABCA5	17	67266771	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10		67266771	13928439	41	17995											
KCNJ16	3773	hgsc.bcm.edu;ucsc.edu	37	chr17	68128601	68128601	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaggggcctttttgttcTccctagagacccaaaccacc	9	10	7	15	0	2	1	1	0	1	1	3	2	2	1	5	2	1	1	5	2	2	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	68128601	T	C	68128601	3	2	356	1	0	0	0	0	1	0	0	0	8050	1551	54	3	375	3	KCNJ16	17	68128601	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10	861830	68128601	13066609	42	17996											
UNK	85451	hgsc.bcm.edu	37	chr17	73818637	73818637	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcacttcccccgctttcctAtcagggccaggggctgccga	5	8	12	16	2	1	0	1	0	0	0	3	1	3	0	5	4	1	3	5	4	1	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	73818637	A	T	73818637	2	4	356	1	0	0	0	0	0	0	0	1	16999	436	16	5		5	UNK	17	73818637	Silent	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	5690036	73818637	7376573	43	17997											
FN3KRP	79672	hgsc.bcm.edu;ucsc.edu	37	chr17	80680693	80680693	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgcaagggagaggaggtggGcaggaggaacggccctttgt	9	7	19	6	1	0	1	0	0	0	1	0	5	0	4	1	7	2	2	1	7	2	2	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	80680693	G	A	80680693	2	1	356	1	0	0	0	0	0	0	0	1	5964	1190	42	2		2	FN3KRP	17	80680693	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	6862056	80680693	514517	44	17998											
KIAA1012	0	hgsc.bcm.edu	37	chr18	29437670	29437670	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctggttgacttcctgtGccaatgccaaagtctacaga	10	11	8	12	0	2	2	0	1	2	1	3	2	3	2	4	1	3	1	4	1	3	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	29437670	G	A	29437670	2	1	356	1	0	0	0	0	0	0	0	1	8204	1306	46	2		2	KIAA1012	18	29437670	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		29437670	48639578	45	17999											
THEG	51298	hgsc.bcm.edu	37	chr19	362217	362217	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcttagaggccaggcctggGttgatcacacttttctggtg	6	13	13	9	0	3	2	1	1	2	1	3	2	3	2	2	4	0	1	2	4	1	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	362217	G	C	362217	3	2	356	1	0	0	0	0	1	0	0	0	15856	1261	44	4	20	4	THEG	19	362217	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		362217	58766766	46	18000											
C19orf53	28974	hgsc.bcm.edu	37	chr19	13885310	13885310	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggcgcaggggcagcgcAagtttcaggcgcacaaaccc	10	4	13	14	3	1	0	1	0	0	0	1	0	1	0	2	4	2	5	2	4	2	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	13885310	A	G	13885310	3	3	356	1	0	0	0	0	1	0	0	0	1935	131	5	3	21	3	C19orf53	19	13885310	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	13523093	13885310	45243673	47	18001											
ARHGAP33	115703	hgsc.bcm.edu	37	chr19	36273301	36273301	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgacagtgagaggatccCggagctgtctggccctgcat	7	10	14	10	1	1	2	0	2	1	1	2	5	2	4	2	3	2	3	2	3	0	1	rs150993015	alternate_allele	TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	36273301	C	A	36273301	3	1	356	1	0	0	0	0	1	0	0	0	882	652	23	4	1162	4	ARHGAP33	19	36273301	Missense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	22387991	36273301	22855682	48	18002											
DHX34	9704	hgsc.bcm.edu	37	chr19	47861187	47861187	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaagctggacccgcggcCtttcctgagggtgctggagt	7	8	16	10	2	0	2	0	1	0	1	1	5	1	4	3	4	2	2	3	4	1	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	47861187	C	T	47861187	3	4	356	1	0	0	0	0	1	0	0	0	4507	681	24	2	1092	2	DHX34	19	47861187	Missense_Mutation	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	11587886	47861187	11267796	49	18003											
OVOL2	58495	hgsc.bcm.edu;ucsc.edu	37	chr20	18005499	18005499	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccgctgcttataggcataCtgctgctgcaccccatggat	7	10	10	14	2	0	0	0	0	0	0	0	1	0	1	3	2	5	6	3	2	3	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		T	18005499	C	T	18005499	2	4	356	1	0	0	0	0	0	0	0	1	11327	564	20	2		2	OVOL2	20	18005499	Silent	SNP	C	TCGA-CJ-4635-01A-02D-1373-10		18005499	45020021	50	18004											
C20orf152	0	hgsc.bcm.edu;ucsc.edu	37	chr20	34611538	34611538	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagggtcttcaccaggcCttccttccagagggtgaatg	7	9	12	13	1	2	2	1	1	1	1	4	3	4	2	5	3	0	0	5	3	1	3	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	34611538	C	A	34611538	2	1	356	1	0	0	0	0	0	0	0	1	2092	668	24	4		4	C20orf152	20	34611538	Silent	SNP	C	TCGA-CJ-4635-01A-02D-1373-10	16606039	34611538	28413982	51	18005											
PCIF1	63935	hgsc.bcm.edu	37	chr20	44571762	44571762	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccacgggagtctttcAaccgctggatgctggagcgc	7	8	13	13	3	2	0	1	0	1	0	3	3	3	3	3	3	4	2	3	3	1	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	44571762	A	G	44571762	3	3	356	1	0	0	0	0	1	0	0	0	11580	130	5	3	722	3	PCIF1	20	44571762	Missense_Mutation	SNP	A	TCGA-CJ-4635-01A-02D-1373-10	9960224	44571762	18453758	52	18006											
BMP7	655	hgsc.bcm.edu	37	chr20	55758892	55758892	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtggacctccgtggcctTgaagaaagccaccatgaagg	12	6	13	10	1	0	3	0	2	0	1	1	5	1	4	5	3	1	0	5	3	4	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	55758892	T	G	55758892	3	3	356	1	0	0	0	0	1	0	0	0	1465	1821	63	5	467	5	BMP7	20	55758892	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10	11187130	55758892	7266628	53	18007											
DIDO1	11083	hgsc.bcm.edu;ucsc.edu	37	chr20	61537212	61537212	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagaacgggaggggtccaGgaggccaacccctaggtgat	12	4	16	9	1	0	2	0	1	0	1	1	5	1	4	4	6	2	0	4	6	4	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	61537212	G	A	61537212	2	1	356	1	0	0	0	0	0	0	0	1	4522	991	35	2		2	DIDO1	20	61537212	Silent	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	5778320	61537212	1488308	54	18008											
BRWD1	54014	hgsc.bcm.edu	37	chr21	40649200	40649200	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggctttcaagttctgcgaTtttttcgggtgcttcaaaac	7	16	10	8	2	3	0	2	0	1	0	4	1	3	0	0	2	3	3	0	2	3	6	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		G	40649200	T	G	40649200	3	3	356	1	0	0	0	0	1	0	0	0	1525	1493	52	5	6248	5	BRWD1	21	40649200	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10		40649200	7480695	55	18009											
PRODH	5625	hgsc.bcm.edu	37	chr22	18904467	18904467	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaccttggccttggcgtTgtgcttcagctcctccaaca	6	12	8	15	1	2	0	2	0	0	0	4	0	4	0	4	2	3	3	4	2	1	4	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	18904467	T	C	18904467	3	2	356	1	0	0	0	0	1	0	0	0	12550	1812	63	3	352	3	PRODH	22	18904467	Missense_Mutation	SNP	T	TCGA-CJ-4635-01A-02D-1373-10		18904467	32400099	56	18010											
SGSM1	129049	hgsc.bcm.edu	37	chr22	25282669	25282669	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggccactaccagttcGggatgacggaaacagaaagg	12	6	13	10	2	0	2	0	1	0	1	2	4	1	4	3	4	2	1	3	4	3	2	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		C	25282669	G	C	25282669	3	2	356	1	0	0	0	0	1	0	0	0	14224	1116	39	4	1975	4	SGSM1	22	25282669	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	6378202	25282669	26021897	57	18011											
MAGEB2	4113	hgsc.bcm.edu	37	chrX	30236765	30236765	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggcccgagatgagacccGgggtctcaatgttcctcagg	9	7	13	12	2	2	2	2	1	1	2	4	4	3	2	3	4	0	1	3	4	2	1	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	30236765	G	A	30236765	3	1	356	1	0	0	0	0	1	0	0	0	9176	1116	39	1	70	1	MAGEB2	23	30236765	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10		30236765	125033795	58	18012											
DRP2	1821	hgsc.bcm.edu	37	chrX	100509876	100509876	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccgatgtggccacacGccgacacacactcccgaatt	9	7	7	18	4	0	0	0	0	0	0	2	3	2	0	5	1	0	0	5	1	1	2	novel		TCGA-CJ-4635-01A-02D-1373-10	TCGA-CJ-4635-11B-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2504b5cf-c2ff-4d30-8b3f-27e43f862e17	d095c7c8-99bf-4b02-ba05-ace6938b7fa6		A	100509876	G	A	100509876	3	1	356	1	0	0	0	0	1	0	0	0	4764	1087	38	1	2209	1	DRP2	23	100509876	Missense_Mutation	SNP	G	TCGA-CJ-4635-01A-02D-1373-10	70273111	100509876	54760684	59	18013											
CNKSR1	10256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26513674	26513674	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccaggatgagaaggctgagGgcctcatcaatgtctccaac	11	7	11	12	0	3	2	2	2	1	1	4	4	3	3	3	3	1	1	3	3	3	0	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	26513674	G	A	26513674	3	1	357	1	0	0	0	0	1	0	0	0	3606	1232	43	2	1382	2	CNKSR1	1	26513674	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		26513674	222736947	1	18014											
SLC44A5	204962	broad.mit.edu;ucsc.edu	37	chr1	75681492	75681492	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcattttccaaacaccagaAgcagcatctcaggcagcatt	13	9	7	12	0	1	1	1	0	1	1	3	1	2	1	2	1	5	5	2	1	2	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		G	75681492	G	G	75681492	3	3	357	1	0	0	0	0	1	0	0	0	14641	72	3	3	619	3	SLC44A5	1	75681492	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	49167818	75681492	173569129	2	18015											
DENND2D	79961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111741341	111741341	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgctcctcctcctcctgCtgaccccgaagcaggttctc	5	9	8	19	2	1	1	0	1	1	0	6	2	5	1	7	1	3	4	7	1	1	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	111741341	C	A	111741341	3	1	357	1	0	0	0	0	1	0	0	0	4431	796	28	4	1188	4	DENND2D	1	111741341	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	36059849	111741341	137509280	3	18016											
WDR77	79084	broad.mit.edu;hgsc.bcm.edu	37	chr1	111989749	111989749	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtaccacctgctgagcaAggtcccaaaccttgatgcta	11	9	8	13	0	1	2	1	2	0	0	2	2	2	2	4	1	5	4	4	1	4	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	111989749	A	C	111989749	3	2	357	1	0	0	0	0	1	0	0	0	17326	72	3	5	595	5	WDR77	1	111989749	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	248408	111989749	137260872	4	18017											
KIFAP3	22920	hgsc.bcm.edu;ucsc.edu	37	chr1	170003574	170003574	+	Frame_Shift_Del	DEL	A	A	-																															tgtctttttaactcatgatcAataatattcatacacagagc																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		-	170003574	A	-	170003574	7	5	357	1	0	1	0	1	0	0	0	0	8311	126	5	0	1753	0	KIFAP3	1	170003574	Frame_Shift_Del	DEL	A	TCGA-CJ-4636-01A-02D-1386-10	58013825	170003574	79247047	5	18018											
CFHR2	3080	hgsc.bcm.edu;ucsc.edu	37	chr1	196918739	196918739	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttttggactcgcataacGtgcgcagaagaaggatggtc	10	10	12	9	3	0	2	0	0	0	2	3	4	1	4	1	3	2	2	1	3	3	3	rs61746417	bycluster;byfrequency;by1000genomes	TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	196918739	G	A	196918739	2	1	357	1	0	0	0	0	0	0	0	1	3285	1132	40	1		1	CFHR2	1	196918739	Silent	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	26915165	196918739	52331882	6	18019											
IL19	29949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207014376	207014376	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcagtgtcactgcaggCaggaagccaccaatgccacc	12	4	12	13	0	1	1	1	0	0	1	1	2	1	2	4	3	3	3	4	3	2	0	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	207014376	C	T	207014376	4	4	357	1	0	0	0	0	0	1	0	0	7649	711	25	2	523	2	IL19	1	207014376	Nonsense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	10095637	207014376	42236245	7	18020											
CAPN9	10753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	230910375	230910375	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctggatgatggggaattCtggtaccgtgcttgttcctg	5	14	14	8	1	2	1	0	1	2	0	3	3	3	3	2	4	2	4	2	4	2	4	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	230910375	C	A	230910375	3	1	357	1	0	0	0	0	1	0	0	0	2632	912	32	4	981	4	CAPN9	1	230910375	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	23895999	230910375	18340246	8	18021											
DTNB	1838	broad.mit.edu;ucsc.edu	37	chr2	25754451	25754451	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actaattgcatggctcagctTctttgcaggagatttctgtg	8	15	10	8	0	3	1	1	0	2	1	3	2	3	1	0	2	3	4	0	2	1	5	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	25754451	A	A	25754451	4	1	357	1	0	0	0	0	0	1	0	0	4789	1792	62	5	1039	5	DTNB	2	25754451	Nonsense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10		25754451	217444922	9	18022											
GPN1	11321	hgsc.bcm.edu;ucsc.edu	37	chr2	27861049	27861049	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagcttatgtgcttttacTaataacttctcaatgtttgg	11	17	7	6	0	1	1	1	0	1	1	2	1	1	1	0	1	4	3	0	1	6	7	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	27861049	T	A	27861049	1	1	357	0	1	0	0	0	0	0	0	0	6617	1537	53	5		5	GPN1	2	27861049	RNA	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	2106598	27861049	215338324	10	18023											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191513	10191513	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccaggttgtccggagccTagtcaagcctgagaattaca	10	9	10	12	1	1	1	1	1	0	1	3	3	3	2	5	2	3	1	5	2	4	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	10191513	T	C	10191513	3	2	357	1	0	0	0	0	1	0	0	0	17161	1522	53	3	516	3	VHL	3	10191513	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10		10191513	187830917	11	18024											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443568	52443568	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtgtacagccactcAcccctgacatttgctctgaa	8	10	8	15	0	2	2	1	2	1	0	2	2	2	2	4	1	3	2	4	1	2	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		G	52443568	A	G	52443568	5	3	357	1	0	0	0	0	0	0	1	0	1311	173	6	3	2125	3	BAP1	3	52443568	Splice_Site	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	42252055	52443568	145578862	12	18025											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506760	195506760	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggcgtgacgtgtggaTgctgaggaagtgtcggtgac	6	9	21	5	3	0	3	0	3	0	0	1	5	0	5	0	6	1	1	0	6	1	0	rs62282473	by1000genomes	TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	195506760	T	A	195506760	2	1	357	1	0	0	0	0	0	0	0	1	9978	1451	51	5		5	MUC4	3	195506760	Silent	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	143063192	195506760	2515670	13	18026											
CWH43	80157	broad.mit.edu;hgsc.bcm.edu	37	chr4	49019269	49019269	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttttctgtttagttcTgtggctgcttgttggtgtgg	1	23	12	5	0	3	0	0	0	3	0	3	0	3	0	0	3	1	5	0	3	1	9	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	49019269	T	C	49019269	3	2	357	1	0	0	0	0	1	0	0	0	4073	1580	55	3	1224	3	CWH43	4	49019269	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10		49019269	142135007	14	18027											
NPFFR2	10886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	73013282	73013282	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatggtttcttcaacgagaAtttccgccgtggtttccaag	8	15	9	9	3	2	1	1	0	1	1	4	2	4	1	3	2	1	2	3	2	4	5	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	73013282	A	T	73013282	3	4	357	1	0	0	0	0	1	0	0	0	10578	101	4	5	1342	5	NPFFR2	4	73013282	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	23994013	73013282	118140994	15	18028											
MAML3	55534	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	140640547	140640547	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcctttgatgatggagTccacaaggtctgcaccgtcc	7	9	11	14	2	1	2	0	2	1	0	3	3	3	3	5	2	1	1	5	2	1	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	140640547	T	C	140640547	3	2	357	1	0	0	0	0	1	0	0	0	9207	1667	58	3	73	3	MAML3	4	140640547	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	67627265	140640547	50513729	16	18029											
ADAMTS6	11174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	64510620	64510620	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgcctagtgggcatcttaCctccagcacaagtagctgag	9	9	11	12	0	1	1	0	1	1	0	2	1	2	1	3	1	4	5	3	1	4	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	64510620	C	T	64510620	5	4	357	1	0	0	0	0	0	0	1	0	270	521	18	2	801	2	ADAMTS6	5	64510620	Splice_Site	SNP	C	TCGA-CJ-4636-01A-02D-1386-10		64510620	116404640	17	18030											
MAST4	375449	broad.mit.edu;ucsc.edu	37	chr5	66462005	66462005	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaccctgtctccaaagcAccccaaaccatccactgtga	13	6	5	17	0	1	1	0	1	1	0	3	1	2	1	6	0	3	2	6	0	3	0	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	66462005	T	T	66462005	3	4	357	1	0	0	0	0	1	0	0	0	9327	159	6	5	7242	5	MAST4	5	66462005	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	1951385	66462005	114453255	18	18031											
BDP1	55814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70808132	70808132	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaaaagaaattctgaaaAagaagtatcaagtcacttca	22	8	6	5	0	4	4	3	1	1	3	4	4	4	4	0	0	0	1	0	0	9	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		G	70808132	A	G	70808132	3	3	357	1	0	0	0	0	1	0	0	0	1395	14	1	3	4194	3	BDP1	5	70808132	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	4346127	70808132	110107128	19	18032											
GRM6	2916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178416292	178416292	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atttgcgggtggaatcgtctGactgggtacctgagctggtc	6	12	15	8	2	1	2	0	2	1	0	3	3	1	3	1	4	3	2	1	4	2	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	178416292	G	C	178416292	4	2	357	1	0	0	0	0	0	1	0	0	6801	1294	45	4	1530	4	GRM6	5	178416292	Nonsense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	107608160	178416292	2498968	20	18033											
ITPR3	3710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33657132	33657132	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcgtggcgctcatcctgcGctccatctactatctgggca	6	11	9	15	3	3	0	1	0	2	0	6	0	5	0	2	2	2	3	2	2	2	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	33657132	G	A	33657132	3	1	357	1	0	0	0	0	1	0	0	0	7922	1087	38	1	7010	1	ITPR3	6	33657132	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		33657132	137457935	21	18034											
COL21A1	81578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56035909	56035909	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagctgccactggaattcGtgttggacagacagattcta	11	10	11	9	2	1	2	0	0	1	2	2	5	1	4	1	2	2	2	1	2	2	4	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	56035909	G	A	56035909	4	1	357	1	0	0	0	0	0	1	0	0	3680	1153	40	1	2323	1	COL21A1	6	56035909	Nonsense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	22378777	56035909	115079158	22	18035											
PNLDC1	154197	broad.mit.edu	37	chr6	160240368	160240368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggaggcactccccaaacGtcaactgcctgctccagtaa	11	7	8	15	1	1	0	1	0	0	0	3	1	3	1	4	2	4	3	4	2	3	1	rs138386704		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	160240368	A	A	160240368	3	1	357	1	0	0	0	0	1	0	0	0	12148	1145	40	1	1549	1	PNLDC1	6	160240368	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	104204459	160240368	10874699	23	18036											
PAPOLB	56903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	4899654	4899654	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcaggctgagagacagcGtgaggaatactttcgtttaa	12	10	13	6	2	0	3	0	2	0	1	1	5	0	4	0	3	2	3	0	3	3	4	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	4899654	G	A	4899654	2	1	357	1	0	0	0	0	0	0	0	1	11430	1136	40	1		1	PAPOLB	7	4899654	Silent	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		4899654	154239009	24	18037											
FBXL13	222235	broad.mit.edu;hgsc.bcm.edu	37	chr7	102665656	102665656	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctatttttccattttttcaAttgaagttcatgttttaata	10	22	3	6	0	2	1	2	1	0	0	3	1	3	1	2	0	0	2	2	0	5	11	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		G	102665656	A	G	102665656	2	3	357	1	0	0	0	0	0	0	0	1	5709	98	4	3		3	FBXL13	7	102665656	Silent	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	97766002	102665656	56473007	25	18038											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106815071	106815071	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaatgtgagaaaaatgggAatttgaagcagccttccccc	15	9	9	8	0	0	2	0	2	0	1	1	4	1	3	3	1	2	1	3	1	6	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	106815071	A	C	106815071	3	2	357	1	0	0	0	0	1	0	0	0	17657	246	9	5	2791	5	ZFPM2	8	106815071	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10		106815071	39548951	26	18039											
ST3GAL1	6482	broad.mit.edu;ucsc.edu	37	chr8	134478309	134478309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtgtcattcaagttatTgggcttcttctcccgctgga	6	15	11	9	1	4	0	2	0	2	0	5	2	4	1	1	3	0	3	1	3	2	5	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	134478309	C	C	134478309	3	2	357	1	0	0	0	0	1	0	0	0	15215	1812	63	3	711	3	ST3GAL1	8	134478309	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	27663238	134478309	11885713	27	18040											
EPPK1	83481	broad.mit.edu	37	chr8	144942850	144942850	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctggctgacacctgcttccgGagccctctgaaggtggcctg	5	9	13	14	1	1	2	0	2	1	0	2	3	2	3	4	4	2	2	4	4	1	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	144942850	A	A	144942850	2	1	357	1	0	0	0	0	0	0	0	1	5190	1161	41	2		2	EPPK1	8	144942850	Silent	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	10464541	144942850	1421172	28	18041											
OGN	4969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95165563	95165563	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcctcataatcttggctaaAtatggattcttcaaaattat	14	16	4	7	0	4	0	2	0	2	0	5	1	5	1	1	2	0	1	1	2	7	7	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	95165563	A	C	95165563	3	2	357	1	0	0	0	0	1	0	0	0	10846	101	4	5	793	5	OGN	9	95165563	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10		95165563	46047868	29	18042											
MBL2	4153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	54527937	54527937	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccagatgggaggtggagCaggggacgtcattccactgg	8	6	18	9	2	1	1	1	0	0	1	2	4	2	4	2	7	1	1	2	7	0	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	54527937	C	T	54527937	3	4	357	1	0	0	0	0	1	0	0	0	9350	710	25	2	43	2	MBL2	10	54527937	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10		54527937	81006810	30	18043											
OR8D4	338662	broad.mit.edu;ucsc.edu	37	chr11	123777914	123777914	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtctctgatgtccatgtAtctcaaacctgcttctagca	8	14	8	11	0	3	1	1	1	3	0	6	1	4	1	2	1	3	3	2	1	3	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	123777914	T	T	123777914	3	4	357	1	0	0	0	0	1	0	0	0	11233	449	16	5	778	5	OR8D4	11	123777914	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10		123777914	11228602	31	18044											
C12orf39	80763	broad.mit.edu;ucsc.edu	37	chr12	21679901	21679901	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actccagctgcgctccgcagGtaatcaaatgcaaaataaaa	16	7	7	11	2	1	0	1	0	0	0	3	0	3	0	2	1	3	5	2	1	6	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	21679901	T	T	21679901	5	4	357	1	0	0	0	0	0	0	1	0	1684	1275	44	4	94	4	C12orf39	12	21679901	Splice_Site	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		21679901	112171994	32	18045											
PDE1B	5153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54971106	54971106	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaccagaatgggaatctGgattagccctggggctggcc	10	7	13	11	0	1	1	0	0	1	1	1	3	1	3	3	5	2	1	3	5	4	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	54971106	G	A	54971106	2	1	357	1	0	0	0	0	0	0	0	1	11634	1335	47	2		2	PDE1B	12	54971106	Silent	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	33291205	54971106	78880789	33	18046											
LRRC10	376132	broad.mit.edu;hgsc.bcm.edu	37	chr12	70003903	70003903	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggcgtctcctctgcccatCtccccacacggcgcacacct	5	8	7	21	3	3	0	0	0	3	0	5	0	3	0	5	2	1	1	5	2	0	0	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	70003903	C	T	70003903	3	4	357	1	0	0	0	0	1	0	0	0	8967	913	32	2	121	2	LRRC10	12	70003903	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	15032797	70003903	63847992	34	18047											
SART3	9733	hgsc.bcm.edu;ucsc.edu	37	chr12	108941708	108941708	+	Frame_Shift_Del	DEL	C	C	-																															aaagaggtcatacacgtgctCtctgtccaggccatcctggg																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		-	108941708	C	-	108941708	7	5	357	1	0	1	0	1	0	0	0	0	13849	922	32	0	2460	0	SART3	12	108941708	Frame_Shift_Del	DEL	C	TCGA-CJ-4636-01A-02D-1386-10	38937805	108941708	24910187	35	18048											
CCDC62	84660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123307924	123307924	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttttctagaagtcagaggtCccagaagagtcagctcaaaa	14	9	10	8	0	4	4	3	0	1	4	5	4	5	4	1	1	1	2	1	1	5	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	123307924	C	A	123307924	2	1	357	1	0	0	0	0	0	0	0	1	2833	842	30	4		4	CCDC62	12	123307924	Silent	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	14366216	123307924	10543971	36	18049											
PARP4	143	hgsc.bcm.edu;ucsc.edu	37	chr13	25034117	25034117	+	Frame_Shift_Del	DEL	T	T	-																															tatgcgtacaaacctgaaggTtttcattcaaagccttgtcc																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		-	25034117	T	-	25034117	7	5	357	1	0	1	0	1	0	0	0	0	11463	1725	60	0	2951	0	PARP4	13	25034117	Frame_Shift_Del	DEL	T	TCGA-CJ-4636-01A-02D-1386-10		25034117	90135761	37	18050											
HNRNPC	3183	broad.mit.edu;hgsc.bcm.edu	37	chr14	21699200	21699200	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcacacctgcttttcctcgGttcacttttggctctgcagc	4	16	7	14	1	3	0	2	0	1	0	5	0	4	0	2	2	3	4	2	2	0	6	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	21699200	G	T	21699200	3	4	357	1	0	0	0	0	1	0	0	0	7262	1252	44	4	671	4	HNRNPC	14	21699200	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		21699200	85650340	38	18051											
METTL3	56339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21966492	21966492	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagtaggtggatcccatcCagttggtttccaagggtgat	8	13	12	8	0	1	1	0	1	1	0	4	2	4	2	3	4	0	3	3	4	3	4	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	21966492	C	T	21966492	2	4	357	1	0	0	0	0	0	0	0	1	9501	581	21	2		2	METTL3	14	21966492	Silent	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	267292	21966492	85383048	39	18052			1	25		4	4	1156	C		1.770271e-09
METTL3	56339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21967449	21967449	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaggcctgggaagcacataCctcagctacgatcacatcac	12	6	10	13	1	3	0	3	0	0	0	3	3	3	2	2	3	4	2	2	3	3	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		G	21967449	C	G	21967449	5	3	357	1	0	0	0	0	0	0	1	0	9501	521	18	4	235	4	METTL3	14	21967449	Splice_Site	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	957	21967449	85382091	40	18053			1	25		4	4	1156	C		1.770271e-09
METTL3	56339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21967512	21967512	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggatttcctttgacacCaacctgctcaccacagataa	11	11	7	12	0	1	2	1	1	0	1	2	3	2	3	4	2	2	1	4	2	2	4	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	21967512	C	T	21967512	3	4	357	1	0	0	0	0	1	0	0	0	9501	594	21	2	298	2	METTL3	14	21967512	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	63	21967512	85382028	41	18054			1	25		4	4	1156	C		1.770271e-09
METTL3	56339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21967647	21967647	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctgctcaccaagcagtgttCcttcccatggttcaaccagt	8	11	8	14	0	2	0	2	0	0	0	4	0	4	0	4	1	3	5	4	1	2	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	21967647	C	T	21967647	3	4	357	1	0	0	0	0	1	0	0	0	9501	864	30	2	317	2	METTL3	14	21967647	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	135	21967647	85381893	42	18055			1	25		4	4	1156	C		1.770271e-09
PAK6	56924	hgsc.bcm.edu;ucsc.edu	37	chr15	40564552	40564552	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacttcggataccagcagccCccagaagtccctccgcacag	10	5	8	18	2	0	1	0	0	0	1	3	2	2	2	5	1	3	2	5	1	2	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	40564552	C	T	40564552	3	4	357	1	0	0	0	0	1	0	0	0	11404	623	22	2	996	2	PAK6	15	40564552	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10		40564552	61966840	43	18056											
RTF1	23168	broad.mit.edu	37	chr15	41769654	41769654	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcatccctcttaccccacAgttacatcaaccagcggaac	12	8	4	17	1	3	0	2	0	1	0	4	1	4	1	4	1	5	1	4	1	4	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	41769654	T	T	41769654	5	4	357	1	0	0	0	0	0	0	1	0	13723	202	7	5	1735	5	RTF1	15	41769654	Splice_Site	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	1205102	41769654	60761738	44	18057											
SECISBP2L	9728	broad.mit.edu	37	chr15	49301547	49301547	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacttgctggagagagtgaAgtatcactgggcatgcttag	10	11	14	6	0	1	3	1	2	0	1	1	5	1	4	0	2	2	4	0	2	3	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	49301547	C	C	49301547	2	2	357	1	0	0	0	0	0	0	0	1	14009	59	3	5		5	SECISBP2L	15	49301547	Silent	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	7531893	49301547	53229845	45	18058											
CCNF	899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2503516	2503516	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccacgccttcctcagctctCcctcggggcggagaaccaaa	8	7	9	17	3	2	1	1	0	1	1	6	2	4	1	5	3	2	1	5	3	2	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	2503516	C	T	2503516	3	4	357	1	0	0	0	0	1	0	0	0	2922	855	30	2	1751	2	CCNF	16	2503516	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10		2503516	87851237	46	18059											
ADCY9	115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4043480	4043480	+	Missense_Mutation	SNP	G	G	T																															cggcgccggcttcagatttgGgagcaaatgtgattccgcac																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	4043480	G	T	4043480	3	4	357	1	0	0	0	0	1	0	0	0	301	1232	43	4	2177	4	ADCY9	16	4043480	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	1539964	4043480	86311273	47	18060	247	2									
ADCY9	115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4043482	4043482	+	Silent	SNP	A	A	T																															gcgccggcttcagatttgggAgcaaatgtgattccgcacga																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	4043482	A	T	4043482	2	4	357	1	0	0	0	0	0	0	0	1	301	291	11	5		5	ADCY9	16	4043482	Silent	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	2	4043482	86311271	48	18061	247	2									
CA7	766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66887326	66887326	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctcggaggacgatgagagGatccacatggtgaacaactt	13	7	12	9	2	0	2	0	2	0	1	2	7	1	5	2	4	2	0	2	4	2	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	66887326	G	T	66887326	3	4	357	1	0	0	0	0	1	0	0	0	2522	1165	41	4	746	4	CA7	16	66887326	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	62843844	66887326	23467427	49	18062											
AP1G1	164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71789925	71789925	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaattaaatcttactttTctgcagcaagaaagattcca	17	13	4	7	0	2	2	0	0	2	2	3	2	3	2	1	0	3	2	1	0	8	6	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	71789925	T	C	71789925	3	2	357	1	0	0	0	0	1	0	0	0	732	1783	62	3	1290	3	AP1G1	16	71789925	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	4902599	71789925	18564828	50	18063											
SLC13A2	9058	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26820678	26820678	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccgagcacaggctgctggGccccatgacctttgcagaaa	10	6	12	13	1	0	2	0	1	0	1	0	4	0	2	4	2	3	4	4	2	1	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	26820678	G	T	26820678	3	4	357	1	0	0	0	0	1	0	0	0	14394	1203	42	4	1141	4	SLC13A2	17	26820678	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		26820678	54374532	51	18064											
SUZ12	23512	hgsc.bcm.edu	37	chr17	30310080	30310080	+	Frame_Shift_Del	DEL	T	T	-																															ggaaatggaagaatgtccaaTaagcaagaaaagagcaacat																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		-	30310080	T	-	30310080	7	5	357	1	0	1	0	1	0	0	0	0	15415	1406	49	0	1014	0	SUZ12	17	30310080	Frame_Shift_Del	DEL	T	TCGA-CJ-4636-01A-02D-1386-10	3489402	30310080	50885130	52	18065											
KRTAP1-1	81851	hgsc.bcm.edu	37	chr17	39197609	39197609	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggtcccactggtggagCagctgggaaatccacagaag	11	5	14	11	1	0	1	0	0	0	1	2	3	2	3	2	4	2	3	2	4	2	0	rs138200823	by1000genomes	TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	39197609	C	A	39197609	3	1	357	1	0	0	0	0	1	0	0	0	8502	710	25	4	496	4	KRTAP1-1	17	39197609	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10	8887529	39197609	41997601	53	18066											
TMC8	147138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76134202	76134202	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggtcacctggatgggccTcttctactgccccctgctgc	4	10	11	16	1	3	0	1	0	2	0	3	2	3	1	4	3	4	1	4	3	1	2	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	76134202	T	A	76134202	3	1	357	1	0	0	0	0	1	0	0	0	15990	1551	54	5	1508	5	TMC8	17	76134202	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	36936593	76134202	5061008	54	18067											
RPTOR	57521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78935234	78935234	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacacagcctgggtggtgAaggcctccctgcagaagcgt	9	6	14	12	1	0	2	0	1	0	1	1	2	1	2	3	3	4	2	3	3	2	0	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	78935234	A	C	78935234	3	2	357	1	0	0	0	0	1	0	0	0	13667	247	9	5	3768	5	RPTOR	17	78935234	Missense_Mutation	SNP	A	TCGA-CJ-4636-01A-02D-1386-10	2801032	78935234	2259976	55	18068											
SYT4	6860	broad.mit.edu	37	chr18	40853880	40853880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgggcttccttgatattgaCcacaaatgcttttctctcga	9	14	7	11	2	1	2	0	2	1	0	4	3	2	2	2	1	1	2	2	1	2	6	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	40853880	T	T	40853880	3	4	357	1	0	0	0	0	1	0	0	0	15475	507	18	2	775	2	SYT4	18	40853880	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02D-1386-10		40853880	37223368	56	18069											
NEDD4L	23327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55992365	55992365	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatgtcaaccacaacaaccgGaccactcagtggcacagacc	14	5	7	15	1	2	1	2	0	0	1	2	2	2	2	4	2	3	1	4	2	4	1	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		A	55992365	G	A	55992365	2	1	357	1	0	0	0	0	0	0	0	1	10311	1161	41	2		2	NEDD4L	18	55992365	Silent	SNP	G	TCGA-CJ-4636-01A-02D-1386-10	15138485	55992365	22084883	57	18070											
TRIB3	57761	broad.mit.edu	37	chr20	377225	377225	+	Frame_Shift_Del	DEL	C	-	-																															acaggacccgatgcccttagCcccaacccgatcccatctct																								novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		-	377225	-	-	377225	7	5	357	1	0	1	0	1	0	0	0	0	16483	739	26	0	978	0	TRIB3	20	377225	Frame_Shift_Del	DEL	C	TCGA-CJ-4636-01A-02D-1386-10		377225	62648295	58	18071											
MKKS	8195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	10393658	10393658	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgacatgctctgtttcctTtctggtgagcatacaggcag	8	13	10	10	0	2	2	0	2	2	0	3	2	3	2	1	2	3	4	1	2	1	3	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		C	10393658	T	C	10393658	3	2	357	1	0	0	0	0	1	0	0	0	9600	1850	64	3	1223	3	MKKS	20	10393658	Missense_Mutation	SNP	T	TCGA-CJ-4636-01A-02D-1386-10	10016433	10393658	52631862	59	18072											
KIAA1210	57481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118219357	118219357	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggtcctacctcatatttagGctccttagtctcagcatcgg	8	13	8	12	1	2	0	2	0	1	0	6	0	4	0	3	3	2	2	3	3	4	5	novel		TCGA-CJ-4636-01A-02D-1386-10	TCGA-CJ-4636-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0e5bd693-fb80-426a-bde3-16f33938ea45	769417fc-b475-4126-854a-409b97cdcb2f		T	118219357	G	T	118219357	3	4	357	1	0	0	0	0	1	0	0	0	8214	1203	42	4	304	4	KIAA1210	23	118219357	Missense_Mutation	SNP	G	TCGA-CJ-4636-01A-02D-1386-10		118219357	37051203	60	18073											
VHL	7428	hgsc.bcm.edu	37	chr3	10183665	10183665	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccggaagagtccggccCggaggaactgggcgccgagg	7	2	19	13	6	0	1	0	0	0	1	1	5	1	4	4	7	1	0	4	7	2	0	novel		TCGA-CJ-4636-01A-02W-1382-10	TCGA-CJ-4636-11A-01W-1244-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	c437a272-1a90-4b2d-bf5b-e3602527c210	5b191139-f06e-4add-a934-f6116591658f		T	10183665	C	T	10183665	3	4	358	1	0	0	0	0	1	0	0	0	17161	652	23	1	136	1	VHL	3	10183665	Missense_Mutation	SNP	C	TCGA-CJ-4636-01A-02W-1382-10		10183665	187838765	1	18074											
SPOCD1	90853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32266115	32266115	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggtgagggtgagctgAcctccatcaagtcctctaga	9	8	14	10	0	2	4	1	3	1	1	4	4	4	4	3	3	1	2	3	3	2	1	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	32266115	A	T	32266115	3	4	359	1	0	0	0	0	1	0	0	0	15079	275	10	5	2173	5	SPOCD1	1	32266115	Missense_Mutation	SNP	A	TCGA-CJ-4637-01A-02D-1386-10		32266115	216984506	1	18075											
ST3GAL3	6487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44386570	44386570	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgcacccctgcactactaTgagaccgttcgcatggcagc	10	7	9	15	3	0	1	0	1	0	1	1	2	0	1	3	1	4	5	3	1	3	3	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	44386570	T	A	44386570	4	1	359	1	0	0	0	0	0	1	0	0	15217	1471	51	5	1257	5	ST3GAL3	1	44386570	Nonsense_Mutation	SNP	T	TCGA-CJ-4637-01A-02D-1386-10	12120455	44386570	204864051	2	18076											
CELF3	11189	broad.mit.edu;hgsc.bcm.edu	37	chr1	151681728	151681728	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctggcccccggagcacaGtgcactcgtcgatggtcccg	6	7	12	16	4	1	0	0	0	1	0	4	2	2	1	3	3	2	2	3	3	0	0	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	151681728	G	A	151681728	3	1	359	1	0	0	0	0	1	0	0	0	3217	1029	36	2	1059	2	CELF3	1	151681728	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10	107295158	151681728	97568893	3	18077											
RRM2	6241	hgsc.bcm.edu	37	chr2	10262859	10262859	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaggctgctggagtgagggGtcgcccgtgcaccctgtccc	6	7	15	13	2	0	1	0	1	0	0	2	2	1	2	3	4	2	3	3	4	1	0	rs72542787	bycluster;byfrequency;by1000genomes	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	10262859	G	A	10262859	2	1	359	1	0	0	0	0	0	0	0	1	13684	1248	44	2		2	RRM2	2	10262859	Silent	SNP	G	TCGA-CJ-4637-01A-02D-1386-10		10262859	232936514	4	18078											
MFSD9	84804	hgsc.bcm.edu	37	chr2	103353153	103353153	+	Frame_Shift_Del	DEL	G	G	-																															aggaagcggcgggctccgacGgcaccggagtcggcagcctc																								novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		-	103353153	G	-	103353153	7	5	359	1	0	1	0	1	0	0	0	0	9539	1103	39	0	1331	0	MFSD9	2	103353153	Frame_Shift_Del	DEL	G	TCGA-CJ-4637-01A-02D-1386-10	93090294	103353153	139846220	5	18079											
CXCR2	3579	broad.mit.edu;ucsc.edu	37	chr2	218999551	218999551	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttaacatggagagtgaCagctttgaagatttctggaa	13	13	11	4	0	1	4	0	2	1	2	1	7	1	5	0	2	2	1	0	2	3	4	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	218999551	T	T	218999551	2	4	359	1	0	0	0	0	0	0	0	1	4091	477	17	2		2	CXCR2	2	218999551	Silent	SNP	C	TCGA-CJ-4637-01A-02D-1386-10	115646398	218999551	24199822	6	18080											
C2orf83	56918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228497787	228497787	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggattaattccaaacgtcagGgcatagtcttccatgctcag	11	11	9	10	1	3	0	2	0	1	0	5	1	5	1	2	2	2	2	2	2	3	4	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	228497787	G	A	228497787	2	1	359	1	0	0	0	0	0	0	0	1	2198	1219	43	2		2	C2orf83	2	228497787	Silent	SNP	G	TCGA-CJ-4637-01A-02D-1386-10	9498236	228497787	14701586	7	18081											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188204	10188204	+	Frame_Shift_Del	DEL	T	T	-																															gcttgtcccgataggtcaccTttggctcttcagagatgcag																								novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		-	10188204	T	-	10188204	7	5	359	1	0	1	0	1	0	0	0	0	17161	1609	56	0	353	0	VHL	3	10188204	Frame_Shift_Del	DEL	T	TCGA-CJ-4637-01A-02D-1386-10		10188204	187834226	8	18082											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52442512	52442512	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggcaaagaacatgttaTtcacaatatcatcatcaatc	15	11	7	8	0	4	1	4	0	0	1	5	1	4	1	0	2	1	2	0	2	6	3	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		C	52442512	T	C	52442512	3	2	359	1	0	0	0	0	1	0	0	0	1311	1493	52	3	2012	3	BAP1	3	52442512	Missense_Mutation	SNP	T	TCGA-CJ-4637-01A-02D-1386-10	42254308	52442512	145579918	9	18083											
WDR52	55779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113127995	113127995	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaagctgctcttccttaTcaggattgaaagtaacctta	12	14	7	8	0	2	1	1	1	1	0	3	2	3	2	2	1	3	4	2	1	6	7	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		G	113127995	T	G	113127995	3	3	359	1	0	0	0	0	1	0	0	0	17303	1435	50	5	4847	5	WDR52	3	113127995	Missense_Mutation	SNP	T	TCGA-CJ-4637-01A-02D-1386-10	60685483	113127995	84894435	10	18084											
ADCY5	111	broad.mit.edu	37	chr3	123049743	123049743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggacacttacgagatggCctcgatcatgtccatgccca	9	9	11	12	2	1	1	1	0	0	1	3	4	2	2	3	3	2	0	3	3	1	1	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	123049743	T	T	123049743	3	4	359	1	0	0	0	0	1	0	0	0	297	739	26	2	2214	2	ADCY5	3	123049743	Missense_Mutation	SNP	C	TCGA-CJ-4637-01A-02D-1386-10	9921748	123049743	74972687	11	18085											
MUC4	4585	hgsc.bcm.edu	37	chr3	195510073	195510073	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtggtgtgacctgtggatGctgaggaagggctggtgaca	7	9	20	5	0	0	3	0	3	0	0	0	5	0	5	1	6	1	2	1	6	1	0	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	195510073	G	A	195510073	3	1	359	1	0	0	0	0	1	0	0	0	9978	1319	46	2		2	MUC4	3	195510073	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10	72460330	195510073	2512357	12	18086											
ITGA1	3672	broad.mit.edu;ucsc.edu	37	chr5	52145320	52145320	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaatgaagaaggaaaatgGtaagccagtgggttttgttg	15	10	14	2	0	0	2	0	1	0	1	0	4	0	3	1	3	1	3	1	3	7	4	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	52145320	T	T	52145320	5	4	359	1	0	0	0	0	0	0	1	0	7872	1275	44	4	189	4	ITGA1	5	52145320	Splice_Site	SNP	G	TCGA-CJ-4637-01A-02D-1386-10		52145320	128769940	13	18087											
ENC1	8507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	73931537	73931537	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttccttactctttctctgCttggtgatgagttcctccat	5	19	6	11	0	2	2	0	2	2	0	6	2	5	2	3	1	2	2	3	1	1	5	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		G	73931537	C	G	73931537	3	3	359	1	0	0	0	0	1	0	0	0	5113	796	28	4	999	4	ENC1	5	73931537	Missense_Mutation	SNP	C	TCGA-CJ-4637-01A-02D-1386-10	21786217	73931537	106983723	14	18088											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725547	140725547	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggccgtccaggaccaCggccagccccctctctccgc	4	6	12	19	3	1	0	0	0	1	0	4	1	3	1	7	4	1	0	7	4	0	0	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	140725547	T	T	140725547	2	4	359	1	0	0	0	0	0	0	0	1	11555	535	19	1		1	PCDHGA3	5	140725547	Silent	SNP	C	TCGA-CJ-4637-01A-02D-1386-10	66794010	140725547	40189713	15	18089											
CLK4	57396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178050273	178050273	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaccaatcagattctttaaActggtgatgtggtttacaat	12	16	7	6	0	2	2	1	1	1	1	2	2	2	2	1	2	3	1	1	2	6	6	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		G	178050273	A	G	178050273	3	3	359	1	0	0	0	0	1	0	0	0	3539	43	2	3	1348	3	CLK4	5	178050273	Missense_Mutation	SNP	A	TCGA-CJ-4637-01A-02D-1386-10	37324726	178050273	2864987	16	18090											
C6orf70	55780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	170179296	170179296	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatcagactactgtccccTgtgctcagcctgatactgtt	8	13	8	12	0	2	2	2	1	0	1	3	2	3	2	3	0	4	3	3	0	3	4	rs79095717	alternate_allele	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	170179296	T	A	170179296	2	1	359	1	0	0	0	0	0	0	0	1	2370	1567	55	5		5	C6orf70	6	170179296	Silent	SNP	T	TCGA-CJ-4637-01A-02D-1386-10		170179296	935771	17	18091											
STK31	56164	broad.mit.edu	37	chr7	23750185	23750185	+	Intron	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatgatctccatgaagaCgcggtcacgcagcctccaca	11	7	9	14	3	2	4	1	3	1	1	4	4	3	4	3	1	1	1	3	1	2	0	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	23750185	A	A	23750185	1	1	359	0	1	0	0	0	0	0	0	0	15297	551	19	4		4	STK31	7	23750185	Intron	SNP	C	TCGA-CJ-4637-01A-02D-1386-10		23750185	135388478	18	18092											
EPPK1	83481	hgsc.bcm.edu	37	chr8	144940506	144940506	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggtgtagccggtgacggCgcgctcggccgacagcagct	5	6	17	13	7	0	1	0	1	0	0	2	2	0	1	2	4	3	4	2	4	1	1	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	144940506	C	T	144940506	3	4	359	1	0	0	0	0	1	0	0	0	5190	768	27	1	350	1	EPPK1	8	144940506	Missense_Mutation	SNP	C	TCGA-CJ-4637-01A-02D-1386-10		144940506	1423516	19	18093											
VCP	7415	broad.mit.edu;ucsc.edu	37	chr9	35068351	35068351	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctgttgataggtcatcaCcttttgaactagaaggagga	11	12	12	6	0	2	3	2	2	0	1	2	5	2	5	1	4	1	2	1	4	4	5	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	35068351	A	A	35068351	3	1	359	1	0	0	0	0	1	0	0	0	17139	507	18	4	2458	4	VCP	9	35068351	Missense_Mutation	SNP	C	TCGA-CJ-4637-01A-02D-1386-10		35068351	106145080	20	18094											
KLF9	687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	73027946	73027946	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaggatcctgtctctcctCcgggctgtgggaaggactcg	5	9	14	13	2	1	0	0	0	1	0	6	3	4	3	4	4	0	1	4	4	1	0	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	73027946	C	A	73027946	4	1	359	1	0	0	0	0	0	1	0	0	8353	864	30	4	408	4	KLF9	9	73027946	Nonsense_Mutation	SNP	C	TCGA-CJ-4637-01A-02D-1386-10	37959595	73027946	68185485	21	18095											
PRUNE2	158471	broad.mit.edu	37	chr9	79469063	79469063	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtagaaatgagagaaTccaagtcacacgatttaggc	16	8	11	6	1	1	4	1	2	0	2	2	6	2	4	1	2	0	1	1	2	6	3	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		C	79469063	C	C	79469063	3	2	359	1	0	0	0	0	1	0	0	0	12643	1435	50	3	9240	3	PRUNE2	9	79469063	Missense_Mutation	SNP	T	TCGA-CJ-4637-01A-02D-1386-10	6441117	79469063	61744368	22	18096											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55700700	55700700	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagaaattacaccaaccatgGtccctttggtggcaagttca	12	10	8	11	0	1	1	1	0	0	1	2	1	2	1	3	3	2	2	3	3	4	3	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	55700700	G	A	55700700	3	1	359	1	0	0	0	0	1	0	0	0	11511	1261	44	2	4368	2	PCDH15	10	55700700	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10		55700700	79834047	23	18097											
GRID1	2894	broad.mit.edu;ucsc.edu	37	chr10	87628903	87628903	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccttccaagggcactaTggaccagatccaggatctcc	10	9	8	14	0	2	1	1	0	1	1	6	3	5	3	5	3	0	1	5	3	2	2	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		G	87628903	G	G	87628903	3	3	359	1	0	0	0	0	1	0	0	0	6771	1464	51	5	2258	5	GRID1	10	87628903	Missense_Mutation	SNP	T	TCGA-CJ-4637-01A-02D-1386-10	31928203	87628903	47905844	24	18098											
RASGRP2	10235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64503123	64503123	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtggtggggtgcaactcGtggggctggttggctatgga	4	10	22	5	1	0	0	0	0	0	0	1	1	0	1	0	10	2	4	0	10	2	2	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	64503123	G	A	64503123	3	1	359	1	0	0	0	0	1	0	0	0	13077	1145	40	1	666	1	RASGRP2	11	64503123	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10		64503123	70503393	25	18099											
LTBR	4055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6495606	6495606	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccactgcccccagagatGtcaggtgagggaccagggct	9	5	15	12	0	1	2	1	1	0	1	1	5	1	3	4	3	2	1	4	3	0	0	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	6495606	G	T	6495606	3	4	359	1	0	0	0	0	1	0	0	0	9077	1377	48	4	685	4	LTBR	12	6495606	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10		6495606	127356289	26	18100											
ARHGAP9	64333	broad.mit.edu;hgsc.bcm.edu	37	chr12	57871324	57871324	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaagcagcgtccagagttgGggtccaggtgctgctcccag	8	7	15	11	1	0	2	0	0	0	2	3	2	3	2	3	3	4	4	3	3	1	1	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		T	57871324	G	T	57871324	3	4	359	1	0	0	0	0	1	0	0	0	889	1232	43	4	1581	4	ARHGAP9	12	57871324	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10	51375718	57871324	75980571	27	18101											
IGDCC4	57722	hgsc.bcm.edu	37	chr15	65681661	65681662	+	Frame_Shift_Ins	INS	-	-	C																															tccaccacagagccgaaaggINScccatccatgtccacgccgt																								novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		C	65681662	-	C	65681661	7	5	359	1	0	1	1	0	0	0	0	0	7569	1203	42	0	1283	0	IGDCC4	15	65681661	Frame_Shift_Ins	INS	-	TCGA-CJ-4637-01A-02D-1386-10		65681661	36849731	28	18102											
C16orf88	400506	broad.mit.edu;ucsc.edu	37	chr16	19718398	19718398	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagccgccttcttgccgAgggccatgttgggccttgca	4	11	13	13	2	2	0	1	0	1	0	2	1	2	0	5	2	3	2	5	2	0	4	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		G	19718398	G	G	19718398	3	3	359	1	0	0	0	0	1	0	0	0	1841	304	11	3	169	3	C16orf88	16	19718398	Missense_Mutation	SNP	A	TCGA-CJ-4637-01A-02D-1386-10		19718398	70636355	29	18103											
C17orf57	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	45452174	45452174	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgaaattcatgactcaaagtCtaaaccacaaagcttgaaga	18	9	6	8	0	3	4	2	3	1	1	3	4	3	4	1	0	2	1	1	0	6	3	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		G	45452174	C	G	45452174	3	3	359	1	0	0	0	0	1	0	0	0	1865	913	32	4	1248	4	C17orf57	17	45452174	Missense_Mutation	SNP	C	TCGA-CJ-4637-01A-02D-1386-10		45452174	35743036	30	18104											
TEX14	56155	broad.mit.edu	37	chr17	56651592	56651592	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgactcctttgatgtctcTtcttgttcatcttcagtact	5	19	7	10	0	5	2	2	2	3	0	7	2	6	2	1	1	1	2	1	1	1	6	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		C	56651592	C	C	56651592	2	2	359	1	0	0	0	0	0	0	0	1	15777	1606	56	3		3	TEX14	17	56651592	Silent	SNP	T	TCGA-CJ-4637-01A-02D-1386-10	11199418	56651592	24543618	31	18105											
ELK1	2002	broad.mit.edu	37	chrX	47498682	47498682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagcaccctgcgacctcaGggtaggacacaaacttgtag	11	7	12	11	1	1	0	1	0	0	0	1	3	1	2	2	3	3	3	2	3	3	3	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118		A	47498682	A	A	47498682	3	1	359	1	0	0	0	0	1	0	0	0	5059	1000	35	2	1036	2	ELK1	23	47498682	Missense_Mutation	SNP	G	TCGA-CJ-4637-01A-02D-1386-10		47498682	107771878	32	18106											
RLF	6018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40704122	40704122	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgtcatcctaaaaaggatGaatgtagttctgaaacagat	16	11	8	6	0	2	3	1	2	1	1	3	4	3	4	1	1	1	2	1	1	6	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	40704122	G	A	40704122	3	1	360	1	0	0	0	0	1	0	0	0	13391	1291	45	2	3778	2	RLF	1	40704122	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		40704122	208546499	1	18107											
MUTYH	4595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45796978	45796978	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatatacttgatatgtcAgcttgatgtgagagaaggtg	11	12	12	6	0	1	4	1	3	0	1	1	5	1	4	1	1	2	1	1	1	4	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	45796978	A	G	45796978	3	3	360	1	0	0	0	0	1	0	0	0	9993	188	7	3	309	3	MUTYH	1	45796978	Missense_Mutation	SNP	A	TCGA-CJ-4638-01A-02D-1386-10	5092856	45796978	203453643	2	18108											
CLCA1	1179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86957042	86957042	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatggagctgtctctcaGcgctccatccaggttggagt	8	10	13	10	1	2	0	1	0	1	0	5	3	4	3	2	4	2	3	2	4	1	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	86957042	G	A	86957042	2	1	360	1	0	0	0	0	0	0	0	1	3457	962	34	2		2	CLCA1	1	86957042	Silent	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	41160064	86957042	162293579	3	18109											
ATP1A1	476	broad.mit.edu	37	chr1	116941357	116941357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtgtccaagcaagctgctGacatgattcttctggatgac	10	12	10	9	0	2	3	0	3	2	0	3	4	3	4	1	1	3	3	1	1	2	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	116941357	A	A	116941357	3	1	360	1	0	0	0	0	1	0	0	0	1128	1290	45	2	2317	2	ATP1A1	1	116941357	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	29984315	116941357	132309264	4	18110											
QSOX1	5768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	180165532	180165532	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacttcctcaaggcccactTctccccaagcaacatcatcc	11	8	3	19	0	3	0	2	0	1	0	6	0	5	0	5	1	3	1	5	1	4	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	180165532	T	G	180165532	3	3	360	1	0	0	0	0	1	0	0	0	12885	1783	62	5	1650	5	QSOX1	1	180165532	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10	63224175	180165532	69085089	5	18111											
APOB	338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	21242762	21242762	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgttttggtggtagagacCaaatgtaatgtgttgctggt	8	15	13	5	1	0	1	0	0	0	1	1	2	1	1	2	3	1	5	2	3	3	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	21242762	C	A	21242762	3	1	360	1	0	0	0	0	1	0	0	0	785	593	21	4	10903	4	APOB	2	21242762	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10		21242762	221956611	6	18112											
HK2	3099	broad.mit.edu;ucsc.edu	37	chr2	75107668	75107668	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcaagatgctgcccacCtacgtgtgtgctaccccgga	7	8	10	16	3	1	1	1	0	0	1	1	2	1	2	5	1	5	2	5	1	3	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	75107668	T	T	75107668	2	4	360	1	0	0	0	0	0	0	0	1	7191	668	24	2		2	HK2	2	75107668	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	53864906	75107668	168091705	7	18113											
DPP4	1803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	162894910	162894910	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggttcaattttaacataaAtgtcattgttccaaacatat	14	17	4	6	0	2	0	2	0	0	0	3	0	3	0	1	1	2	2	1	1	6	8	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	162894910	A	C	162894910	3	2	360	1	0	0	0	0	1	0	0	0	4729	101	4	5	1861	5	DPP4	2	162894910	Missense_Mutation	SNP	A	TCGA-CJ-4638-01A-02D-1386-10	87787242	162894910	80304463	8	18114											
SETD5	55209	hgsc.bcm.edu	37	chr3	9517686	9517686	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtttccaattcacagcacTacccacaccgtgggagtggg	9	8	11	13	2	1	0	1	0	0	0	2	1	2	1	3	3	2	2	3	3	2	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	9517686	T	C	9517686	3	2	360	1	0	0	0	0	1	0	0	0	14136	1522	53	3	4322	3	SETD5	3	9517686	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10		9517686	188504744	9	18115											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188218	10188218	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacctttggctcttcagaGatgcagggacacacgatggg	9	9	13	10	1	3	1	2	0	1	1	3	4	3	2	1	3	1	2	1	3	0	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	10188218	G	T	10188218	3	4	360	1	0	0	0	0	1	0	0	0	17161	942	33	4	367	4	VHL	3	10188218	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	670532	10188218	187834212	10	18116											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443574	52443574	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtacagccactcacccctGacatttgctctgaaggtcgt	8	11	9	13	1	2	2	1	2	1	0	3	2	2	2	3	1	3	2	3	1	2	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	52443574	G	A	52443574	4	1	360	1	0	0	0	0	0	1	0	0	1311	1299	45	2	2131	2	BAP1	3	52443574	Nonsense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	42255356	52443574	145578856	11	18117											
HTR1F	3355	hgsc.bcm.edu;ucsc.edu	37	chr3	88040822	88040823	+	Frame_Shift_Ins	INS	-	-	T																															tttgtaatatgttggcttccINStttttttgtaaaagaattag																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	88040823	-	T	88040822	7	5	360	1	0	1	1	0	0	0	0	0	7440	681	24	0	925	0	HTR1F	3	88040822	Frame_Shift_Ins	INS	-	TCGA-CJ-4638-01A-02D-1386-10	35597248	88040822	109981608	12	18118											
CD86	942	broad.mit.edu;ucsc.edu	37	chr3	121825286	121825286	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgatgttacgagcaatatGaccatcttctgtattctgga	10	14	8	9	1	3	2	0	2	3	0	3	4	3	3	2	1	2	3	2	1	4	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	121825286	C	C	121825286	3	2	360	1	0	0	0	0	1	0	0	0	3043	1290	45	4	656	4	CD86	3	121825286	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	33784464	121825286	76197144	13	18119											
ANKRD17	26057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	73956463	73956463	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagactgatgtaaaggatcTgaatttggcaaatatgagga	15	11	11	4	0	2	4	1	3	1	1	2	6	2	6	0	3	0	2	0	3	5	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	73956463	T	A	73956463	2	1	360	1	0	0	0	0	0	0	0	1	646	1567	55	5		5	ANKRD17	4	73956463	Silent	SNP	T	TCGA-CJ-4638-01A-02D-1386-10		73956463	117197813	14	18120											
ANK2	287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	114290829	114290829	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggggaggctctcccatcatAcaagaacccgaagagccctc	11	5	10	15	2	2	2	1	0	1	2	4	4	2	3	3	3	3	1	3	3	4	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	114290829	A	T	114290829	2	4	360	1	0	0	0	0	0	0	0	1	621	381	14	5		5	ANK2	4	114290829	Silent	SNP	A	TCGA-CJ-4638-01A-02D-1386-10	40334366	114290829	76863447	15	18121											
NEIL3	55247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	178283613	178283613	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaggaataaaaattatTcctggatgctaatatctgta	14	12	9	6	0	1	0	0	0	1	0	2	2	2	2	2	3	1	2	2	3	8	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	178283613	T	A	178283613	2	1	360	1	0	0	0	0	0	0	0	1	10320	1771	62	5		5	NEIL3	4	178283613	Silent	SNP	T	TCGA-CJ-4638-01A-02D-1386-10	63992784	178283613	12870663	16	18122											
SORBS2	8470	broad.mit.edu;hgsc.bcm.edu	37	chr4	186508841	186508841	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aatttggttcttcttgaggtCcctgaaaatagaagcgagtc	11	13	10	7	1	2	3	0	2	2	1	4	4	3	3	1	2	1	1	1	2	5	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	186508841	C	T	186508841	2	4	360	1	0	0	0	0	0	0	0	1	14930	869	30	2		2	SORBS2	4	186508841	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	8225228	186508841	4645435	17	18123											
SEMA5A	9037	hgsc.bcm.edu;ucsc.edu	37	chr5	9122825	9122825	+	Frame_Shift_Del	DEL	G	G	-																															actgccagccaccacactgcGgggccgggctgtcgcaggag																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		-	9122825	G	-	9122825	7	5	360	1	0	1	0	1	0	0	0	0	14039	1116	39	0	1540	0	SEMA5A	5	9122825	Frame_Shift_Del	DEL	G	TCGA-CJ-4638-01A-02D-1386-10		9122825	171792435	18	18124											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89989763	89989763	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttccgacattgatgtagTggctctggcaatggaggaag	10	11	13	7	1	1	1	0	1	1	0	2	4	2	3	1	4	1	3	1	4	4	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	89989763	T	A	89989763	3	1	360	1	0	0	0	0	1	0	0	0	6721	1696	59	5	7320	5	GPR98	5	89989763	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10	80866938	89989763	90925497	19	18125											
BTNL9	153579	broad.mit.edu;hgsc.bcm.edu	37	chr5	180475150	180475150	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttggtcaaggacgacatCgcctatggcagcgtggtcct	9	9	13	10	3	1	0	1	0	0	0	3	2	2	1	2	4	1	2	2	4	3	2	rs112433732	bycluster	TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	180475150	C	T	180475150	2	4	360	1	0	0	0	0	0	0	0	1	1568	874	31	1		1	BTNL9	5	180475150	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	90485387	180475150	440110	20	18126											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152647465	152647465	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttgggcaccagagtcccGgctcatcctctggctcctga	6	9	10	16	1	2	2	1	1	1	1	5	2	5	2	4	3	0	3	4	3	0	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	152647465	G	A	152647465	3	1	360	1	0	0	0	0	1	0	0	0	15444	1115	39	1	11479	1	SYNE1	6	152647465	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		152647465	18467602	21	18127											
SCRN1	9805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	29963599	29963599	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaacttaatctccgtgtCaacacagtcatagaaaaggt	17	9	7	8	1	3	2	2	0	1	2	4	2	3	2	1	1	2	0	1	1	7	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	29963599	C	A	29963599	3	1	360	1	0	0	0	0	1	0	0	0	13940	826	29	4	29	4	SCRN1	7	29963599	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10		29963599	129175064	22	18128											
RELN	5649	hgsc.bcm.edu;ucsc.edu	37	chr7	103243784	103243793	+	Frame_Shift_Del	DEL	GACACCACAC	GACACCACAC	-																															agagatgatccagaagagatGacaccacacccttgttctgg																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	GACACCACAC	GACACCACAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		-	103243793	GACACCACAC	-	103243784	7	5	360	1	0	1	0	1	0	0	0	0	13222	1277	45	0	7250	0	RELN	7	103243784	Frame_Shift_Del	DEL	GACACCACAC	TCGA-CJ-4638-01A-02D-1386-10	73280185	103243784	55894879	23	18129											
AASS	10157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121766489	121766489	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctatgatccaccatttTctcataatcaataaggcgaa	13	13	4	11	1	3	1	2	1	2	0	6	2	5	1	3	1	0	0	3	1	5	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	121766489	T	A	121766489	4	1	360	1	0	0	0	0	0	1	0	0	24	1792	62	5	2452	5	AASS	7	121766489	Nonsense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10	18522705	121766489	37372174	24	18130											
EPHB6	2051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	142563846	142563846	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtgcaaggagtgtgaaGgccgccaggaacctgccagc	9	6	15	11	2	0	1	0	1	0	0	1	3	0	3	4	3	4	1	4	3	3	0	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	142563846	G	T	142563846	3	4	360	1	0	0	0	0	1	0	0	0	5178	1000	35	4	1252	4	EPHB6	7	142563846	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	20797357	142563846	16574817	25	18131											
XKR6	286046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	10782282	10782282	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcatagcccagtagaagcGtcgctggtgttccttccgcc	7	10	10	14	3	1	1	1	0	0	1	4	1	3	1	4	1	2	3	4	1	3	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	10782282	G	A	10782282	3	1	360	1	0	0	0	0	1	0	0	0	17434	1145	40	1	1110	1	XKR6	8	10782282	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		10782282	135581740	26	18132											
MATN2	4147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	99028778	99028778	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattctcagaattggactcTtgtgctctgggggaccacgg	7	12	13	9	1	3	2	1	1	3	1	4	4	3	4	1	4	1	1	1	4	1	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	99028778	T	C	99028778	2	2	360	1	0	0	0	0	0	0	0	1	9334	1596	56	3		3	MATN2	8	99028778	Silent	SNP	T	TCGA-CJ-4638-01A-02D-1386-10	88246496	99028778	47335244	27	18133											
COL14A1	7373	hgsc.bcm.edu;ucsc.edu	37	chr8	121259910	121259910	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggtataaccggttgcgCattacgtgggaccccccatc	9	9	11	12	3	0	0	0	0	0	0	1	2	0	1	4	3	3	3	4	3	4	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	121259910	C	T	121259910	2	4	360	1	0	0	0	0	0	0	0	1	3671	697	25	2		2	COL14A1	8	121259910	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	22231132	121259910	25104112	28	18134											
COL22A1	169044	hgsc.bcm.edu	37	chr8	139824126	139824127	+	In_Frame_Ins	INS	-	-	GGTGGA																															tgggaggccgctggggtgggINSggtggaggtggaggctctgt																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		GGTGGA	139824127	-	GGTGGA	139824126	7	5	360	1	0	1	1	0	0	0	0	0	3681	1219	43	0	3743	0	COL22A1	8	139824126	In_Frame_Ins	INS	-	TCGA-CJ-4638-01A-02D-1386-10	18564216	139824126	6539896	29	18135											
KCNV2	169522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2729659	2729659	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaacttcatgcagagaGccagaaagaagatagctgag	16	6	13	6	0	1	6	1	2	0	4	1	7	1	6	1	1	4	2	1	1	4	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	2729659	G	A	2729659	3	1	360	1	0	0	0	0	1	0	0	0	8095	971	34	2	1576	2	KCNV2	9	2729659	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		2729659	138483772	30	18136											
IL33	90865	broad.mit.edu;ucsc.edu	37	chr9	6251225	6251225	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcctttggtatatcaggggtCcagaaatatactagagcact	12	11	10	8	0	1	2	1	0	0	2	2	2	2	2	2	3	2	2	2	3	6	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	6251225	G	G	6251225	2	3	360	1	0	0	0	0	0	0	0	1	7693	842	30	4		4	IL33	9	6251225	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	3521566	6251225	134962206	31	18137											
MSMP	692094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35753713	35753713	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcaatggaaacagtccttGcggagccaagactcacccag	12	6	11	12	1	1	1	1	0	0	1	2	3	2	3	3	2	4	1	3	2	3	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	35753713	G	A	35753713	3	1	360	1	0	0	0	0	1	0	0	0	9884	1306	46	2	244	2	MSMP	9	35753713	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	29502488	35753713	105459718	32	18138											
SPTAN1	6709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131371420	131371420	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcgacgtctgaaagccCagatgattgagaaaaggtca	13	7	14	7	2	2	4	1	3	1	2	2	6	2	4	1	3	1	0	1	3	3	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	131371420	C	T	131371420	4	4	360	1	0	0	0	0	0	1	0	0	15118	595	21	2	4753	2	SPTAN1	9	131371420	Nonsense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	95617707	131371420	9842011	33	18139											
SEC24C	9632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75520019	75520019	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggagggccctcagtgaGccagcccaaccatgtgtctt	7	11	11	12	0	2	1	1	1	1	0	2	2	2	2	4	2	3	0	4	2	1	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	75520019	G	A	75520019	3	1	360	1	0	0	0	0	1	0	0	0	13998	971	34	2	739	2	SEC24C	10	75520019	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		75520019	60014728	34	18140											
PTPMT1	114971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47593082	47593082	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaagatccggtcatacatCcacatcaggcctggccagct	10	7	9	15	1	2	1	2	0	0	1	4	1	4	1	5	3	2	1	5	3	2	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	47593082	C	A	47593082	3	1	360	1	0	0	0	0	1	0	0	0	12780	855	30	4	626	4	PTPMT1	11	47593082	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10		47593082	87413434	35	18141											
OR4C12	283093	broad.mit.edu;hgsc.bcm.edu	37	chr11	50003858	50003858	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atcaaagaaaggtgggtcagGaagaagtacatgggggagct	15	6	16	4	0	2	2	2	0	0	2	2	4	2	4	0	5	2	2	0	5	5	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	50003858	G	A	50003858	2	1	360	1	0	0	0	0	0	0	0	1	11046	1165	41	2		2	OR4C12	11	50003858	Silent	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	2410776	50003858	85002658	36	18142											
CACNA1C	775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2778099	2778099	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcttctcttcgcctgcagCgcctggtctccatgaacatg	5	13	9	14	2	2	1	0	1	2	0	5	1	2	1	3	1	4	2	3	1	1	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	2778099	C	T	2778099	3	4	360	1	0	0	0	0	1	0	0	0	2540	782	27	1	5100	1	CACNA1C	12	2778099	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10		2778099	131073796	37	18143											
ANO2	57101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	5672713	5672713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatccagtccacgaggaCgctcaggaacatcacgaggt	13	6	10	12	3	3	0	3	0	0	0	5	4	5	2	2	3	1	1	2	3	2	0	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	5672713	C	T	5672713	3	4	360	1	0	0	0	0	1	0	0	0	697	536	19	1	251	1	ANO2	12	5672713	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	2894614	5672713	128179182	38	18144											
ETV6	2120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	11905414	11905414	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatatacacctccagagAgcccagtgccgagttacgct	10	10	8	13	2	1	1	1	0	0	1	2	3	2	1	4	0	4	2	4	0	3	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	11905414	A	T	11905414	3	4	360	1	0	0	0	0	1	0	0	0	5283	304	11	5	70	5	ETV6	12	11905414	Missense_Mutation	SNP	A	TCGA-CJ-4638-01A-02D-1386-10	6232701	11905414	121946481	39	18145											
KLHDC5	57542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27933951	27933951	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagatgactgagcgttggTtcccgctggccaacaacctt	9	9	12	11	2	0	3	0	2	0	1	1	4	1	3	3	3	3	3	3	3	2	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	27933951	T	C	27933951	3	2	360	1	0	0	0	0	1	0	0	0	8359	1725	60	3	690	3	KLHDC5	12	27933951	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10	16028537	27933951	105917944	40	18146											
ABCD2	225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	39980001	39980001	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggacattgtgtaggataCgttccagatcttggtctgta	9	14	12	6	1	2	1	0	0	2	1	3	4	3	3	1	3	1	3	1	3	3	6	rs151149571	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	39980001	C	G	39980001	3	3	360	1	0	0	0	0	1	0	0	0	61	536	19	4	493	4	ABCD2	12	39980001	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	12046050	39980001	93871894	41	18147											
KL	9365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33634984	33634984	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttactccaggaaatgcacGttacacattttcgcttctcc	9	14	5	13	2	1	0	0	0	1	0	4	1	2	1	2	1	3	3	2	1	3	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	33634984	G	A	33634984	3	1	360	1	0	0	0	0	1	0	0	0	8331	1145	40	1	1782	1	KL	13	33634984	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		33634984	81534894	42	18148											
HECTD1	25831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31613394	31613394	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaattgtgttttcatcctTcaaaagtacaattaggtttt	12	18	6	5	0	2	1	2	1	0	0	3	1	3	1	1	1	1	3	1	1	6	8	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	31613394	T	G	31613394	3	3	360	1	0	0	0	0	1	0	0	0	7039	1792	62	5	5239	5	HECTD1	14	31613394	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10		31613394	75736146	43	18149											
KIAA0586	9786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58949396	58949396	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctgttgctacaggtgtttCtggggatgcttcaacaaatg	8	14	11	8	0	2	0	1	0	1	0	3	1	3	1	1	3	4	4	1	3	3	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	58949396	C	T	58949396	3	4	360	1	0	0	0	0	1	0	0	0	8186	913	32	2	2960	2	KIAA0586	14	58949396	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	27336002	58949396	48400144	44	18150											
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75279329	75279329	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttcaactgctggaatcctAggagaacgaaggacttatcc	12	10	10	9	1	1	1	1	0	0	1	3	5	3	3	2	3	3	2	2	3	6	3	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	75279329	A	G	75279329	5	3	360	1	0	0	0	0	0	0	1	0	17485	434	15	3	5388	3	YLPM1	14	75279329	Splice_Site	SNP	A	TCGA-CJ-4638-01A-02D-1386-10	16329933	75279329	32070211	45	18151											
MOAP1	64112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	93650048	93650050	+	In_Frame_Del	DEL	TTC	TTC	-																															tgaaacatccagcgtccaaaTtcttcttctcctggttctgg																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		-	93650050	TTC	-	93650048	7	5	360	1	0	1	0	1	0	0	0	0	9680	1490	52	0	519	0	MOAP1	14	93650048	In_Frame_Del	DEL	TTC	TCGA-CJ-4638-01A-02D-1386-10	18370719	93650048	13699492	46	18152											
TMEM87A	25963	broad.mit.edu;ucsc.edu	37	chr15	42529668	42529668	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatattctgaaattccgcaTagaagacagctttctcaagc	13	11	8	9	1	2	3	1	1	2	2	4	4	3	4	1	1	2	2	1	1	5	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	42529668	A	A	42529668	3	1	360	1	0	0	0	0	1	0	0	0	16209	1406	49	5	885	5	TMEM87A	15	42529668	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10		42529668	60001724	47	18153											
NKD1	85407	broad.mit.edu;ucsc.edu	37	chr16	50664121	50664121	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccagcttgctgcacaccAtctatgaggtggtggactcc	8	10	10	13	0	2	1	1	1	1	0	3	2	3	2	3	3	3	3	3	3	1	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	50664121	G	G	50664121	3	3	360	1	0	0	0	0	1	0	0	0	10441	217	8	3	513	3	NKD1	16	50664121	Missense_Mutation	SNP	A	TCGA-CJ-4638-01A-02D-1386-10		50664121	39690632	48	18154											
CNOT1	23019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58571103	58571106	+	Frame_Shift_Del	DEL	TACT	TACT	-																															gcttcatagttggatcgcacTacttccatcagctggggcaa																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	TACT	TACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		-	58571106	TACT	-	58571103	7	5	360	1	0	1	0	1	0	0	0	0	3617	1509	53	0	1738	0	CNOT1	16	58571103	Frame_Shift_Del	DEL	TACT	TCGA-CJ-4638-01A-02D-1386-10	7906982	58571103	31783650	49	18155											
PER1	5187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8047092	8047092	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggtgaggggtgtgagacaTagcagggcgcttcagcccga	8	6	18	9	3	1	2	1	2	0	1	1	4	1	2	1	4	2	2	1	4	1	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	8047092	T	C	8047092	3	2	360	1	0	0	0	0	1	0	0	0	11729	1406	49	3	1328	3	PER1	17	8047092	Missense_Mutation	SNP	T	TCGA-CJ-4638-01A-02D-1386-10		8047092	73148118	50	18156											
SLFN11	91607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	33690266	33690266	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattaggtcagcaggatcCgagtttgggtcagcaggatc	12	9	13	7	1	2	0	2	0	0	0	4	3	3	2	1	4	2	3	1	4	3	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	33690266	C	T	33690266	2	4	360	1	0	0	0	0	0	0	0	1	14735	639	23	1		1	SLFN11	17	33690266	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	25643174	33690266	47504944	51	18157											
BCAS3	54828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	58786584	58786584	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaattctaatgcagatacAtcaagaaatctggaatttca	16	13	5	7	0	4	2	2	0	2	2	4	3	4	3	0	1	2	1	0	1	6	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	58786584	A	T	58786584	2	4	360	1	0	0	0	0	0	0	0	1	1352	204	8	5		5	BCAS3	17	58786584	Silent	SNP	A	TCGA-CJ-4638-01A-02D-1386-10	25096318	58786584	22408626	52	18158											
JMJD6	23210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74720100	74720100	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcccagagggtcgatgtGaatcccagttccggagcgtg	7	9	15	10	3	0	2	0	1	0	1	4	4	3	3	3	3	1	2	3	3	1	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	74720100	G	T	74720100	3	4	360	1	0	0	0	0	1	0	0	0	7953	1290	45	4	709	4	JMJD6	17	74720100	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	15933516	74720100	6475110	53	18159											
PSMA8	143471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	23714010	23714010	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgaatatgcccaggaagcGgtgaagaaaggatccaccgc	13	6	13	9	2	0	3	0	2	0	1	1	5	1	5	3	3	2	1	3	3	5	2	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	23714010	G	A	23714010	2	1	360	1	0	0	0	0	0	0	0	1	12675	1103	39	1		1	PSMA8	18	23714010	Silent	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		23714010	54363238	54	18160											
FAM59A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29867878	29867878	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgttcgccctcttgcatctGaagttccaggggacttcggg	5	12	13	11	2	2	1	0	1	2	0	5	2	3	2	2	3	1	3	2	3	1	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	29867878	G	C	29867878	3	2	360	1	0	0	0	0	1	0	0	0	5592	1299	45	4	1957	4	FAM59A	18	29867878	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	6153868	29867878	48209370	55	18161											
DENND1C	79958	broad.mit.edu;ucsc.edu	37	chr19	6467951	6467951	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggtctgcagaagctgttgagGactgggatggagacgtgact	9	9	17	6	1	1	4	0	2	1	2	1	7	1	6	0	4	2	3	0	4	1	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	6467951	C	C	6467951	3	2	360	1	0	0	0	0	1	0	0	0	4428	1174	41	4	439	4	DENND1C	19	6467951	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		6467951	52661032	56	18162											
ZNF844	284391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12186656	12186656	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagttattcaacttcccttCaaatacatgaaagaactcac	15	13	3	10	0	3	2	3	1	0	1	4	2	4	2	1	0	3	1	1	0	7	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	12186656	C	A	12186656	3	1	360	1	0	0	0	0	1	0	0	0	18189	827	29	4	735	4	ZNF844	19	12186656	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	5718705	12186656	46942327	57	18163											
HOOK2	29911	broad.mit.edu	37	chr19	12883813	12883813	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttacagttactcacatcctGggagtactctactaggctcc	9	13	7	12	0	2	0	1	0	1	0	4	1	4	1	2	2	4	3	2	2	5	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	12883813	C	C	12883813	3	2	360	1	0	0	0	0	1	0	0	0	7283	1357	47	4	1989	4	HOOK2	19	12883813	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	697157	12883813	46245170	58	18164											
OR10H5	284433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15904911	15904911	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcatcctcgttggcttctCtgccttcccccacctccagc	4	13	5	19	1	2	0	1	0	1	0	7	0	5	0	6	1	2	2	6	1	0	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		G	15904911	C	G	15904911	3	3	360	1	0	0	0	0	1	0	0	0	10909	913	32	4	55	4	OR10H5	19	15904911	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	3021098	15904911	43224072	59	18165											
ZNF611	81856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53209500	53209500	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcatgcaaggtattgctcgtGattaaagagcttgccacata	12	11	10	8	1	0	2	0	1	0	1	1	2	0	2	1	1	4	5	1	1	5	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	53209500	G	A	53209500	3	1	360	1	0	0	0	0	1	0	0	0	18036	1290	45	2	1313	2	ZNF611	19	53209500	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	37304589	53209500	5919483	60	18166											
PEG3	5178	broad.mit.edu;ucsc.edu	37	chr19	57330017	57330017	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgtcctggattgtgttGtgaggtttcctgtcctcagc	4	17	12	8	0	1	1	1	1	0	0	4	2	4	2	3	2	1	3	3	2	0	4	rs80150589	bycluster;byfrequency;by1000genomes	TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	57330017	T	T	57330017	3	4	360	1	0	0	0	0	1	0	0	0	11720	1368	48	4	4058	4	PEG3	19	57330017	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	4120517	57330017	1798966	61	18167											
PREX1	57580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47309286	47309286	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagatgtagagggagccgttGatggatttggtcctcttggt	8	13	15	5	1	1	3	0	1	1	2	2	5	2	5	2	4	1	2	2	4	2	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	47309286	G	C	47309286	3	2	360	1	0	0	0	0	1	0	0	0	12478	1280	45	4	4151	4	PREX1	20	47309286	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		47309286	15716234	62	18168											
BMP7	655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	55803435	55803435	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagatcaaaccggaactctCgatggtggtagcgtgggtgg	11	8	15	7	3	2	1	1	0	1	1	3	3	2	2	1	5	3	1	1	5	4	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	55803435	C	A	55803435	3	1	360	1	0	0	0	0	1	0	0	0	1465	884	31	4	858	4	BMP7	20	55803435	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	8494149	55803435	7222085	63	18169											
MCM3AP	8888	broad.mit.edu;hgsc.bcm.edu	37	chr21	47692488	47692488	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aattcaccttaggatgtctcCcttgttgagactgagcagaa	11	12	9	9	0	2	3	1	2	1	2	3	5	2	4	2	1	1	2	2	1	3	4	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	47692488	C	T	47692488	3	4	360	1	0	0	0	0	1	0	0	0	9388	632	22	2	3574	2	MCM3AP	21	47692488	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10		47692488	437407	64	18170											
CECR2	27443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	17978494	17978494	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attgggtgaagacaattctgGggcactatattggtatttct	10	15	11	5	0	2	2	0	1	2	1	2	2	2	2	0	4	0	2	0	4	5	7	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	17978494	G	T	17978494	3	4	360	1	0	0	0	0	1	0	0	0	3206	1232	43	4	344	4	CECR2	22	17978494	Missense_Mutation	SNP	G	TCGA-CJ-4638-01A-02D-1386-10		17978494	33326072	65	18171											
SLC7A4	6545	broad.mit.edu	37	chr22	21385373	21385373	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacgaaagcatagaagcaGgaggcagtgccggccatgac	13	3	13	12	2	0	2	0	1	0	1	0	4	0	3	3	3	3	3	3	3	3	1	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	21385373	C	C	21385373	2	2	360	1	0	0	0	0	0	0	0	1	14701	987	35	4		4	SLC7A4	22	21385373	Silent	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	3406879	21385373	29919193	66	18172											
NF2	4771	broad.mit.edu;hgsc.bcm.edu	37	chr22	30050715	30050715	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggaattgcttccaaaaaggGtaagagattaaattcccttt	15	12	8	6	0	0	1	0	0	0	1	2	3	2	2	2	2	1	2	2	2	6	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		C	30050715	G	C	30050715	5	2	360	1	0	0	0	0	0	0	1	0	10357	1275	44	4	535	4	NF2	22	30050715	Splice_Site	SNP	G	TCGA-CJ-4638-01A-02D-1386-10	8665342	30050715	21253851	67	18173											
FAM47A	158724	hgsc.bcm.edu	37	chrX	34149658	34149693	+	In_Frame_Del	DEL	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	-																															atgggaggccccgggcggatAtgggacactccagtctctgg																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		-	34149693	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	-	34149658	7	5	360	1	0	1	0	1	0	0	0	0	5569	446	16	0	1641	0	FAM47A	23	34149658	In_Frame_Del	DEL	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	TCGA-CJ-4638-01A-02D-1386-10		34149658	121120902	68	18174											
USP51	158880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	55514571	55514571	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaatggtgctgctttgtttCtgcatgtttgtgaatatgtt	7	20	10	4	0	1	1	0	1	1	0	1	1	1	1	0	1	3	6	0	1	4	6	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	55514571	C	T	55514571	3	4	360	1	0	0	0	0	1	0	0	0	17082	922	32	2	1337	2	USP51	23	55514571	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	21364913	55514571	99755989	69	18175											
ATP7A	538	hgsc.bcm.edu	37	chrX	77284798	77284799	+	Frame_Shift_Ins	INS	-	-	A																															gataatacgatttgctttccINSaagcctctatcacagttctg																								novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		A	77284799	-	A	77284798	7	5	360	1	0	1	1	0	0	0	0	0	1190	595	21	0	3022	0	ATP7A	23	77284798	Frame_Shift_Ins	INS	-	TCGA-CJ-4638-01A-02D-1386-10	21770227	77284798	77985762	70	18176											
COL4A5	1287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107924995	107924995	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgttttgtctcataggtcctCctggattacctggtccttca	5	17	8	11	0	2	0	2	0	1	0	6	1	5	1	4	3	1	1	4	3	2	5	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	107924995	C	T	107924995	3	4	360	1	0	0	0	0	1	0	0	0	3694	855	30	2	4264	2	COL4A5	23	107924995	Missense_Mutation	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	30640197	107924995	47345565	71	18177											
ZCCHC16	340595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	111698754	111698754	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgagaaggccagctgcctctCaccccagccaaacgagcccg	10	3	10	18	3	1	1	1	0	1	1	2	3	1	1	6	1	5	1	6	1	2	0	novel		TCGA-CJ-4638-01A-02D-1386-10	TCGA-CJ-4638-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	cbc187b0-fafe-4b1f-9af0-6714942414ab	e87fd364-fa8b-43c5-a572-8b136f8f2086		T	111698754	C	T	111698754	2	4	360	1	0	0	0	0	0	0	0	1	17583	813	29	2		2	ZCCHC16	23	111698754	Silent	SNP	C	TCGA-CJ-4638-01A-02D-1386-10	3773759	111698754	43571806	72	18178											
TPRG1L	127262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	3545158	3545158	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatgaccaggggcaaaatAggcttttagccgctgcgttc	9	10	11	11	2	0	1	0	1	0	0	2	1	1	1	3	3	2	4	3	3	4	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	3545158	A	G	3545158	3	3	361	1	0	0	0	0	1	0	0	0	16418	410	15	3	828	3	TPRG1L	1	3545158	Missense_Mutation	SNP	A	TCGA-CJ-4639-01A-02D-1386-10		3545158	245705463	1	18179											
PTCHD2	57540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11594487	11594487	+	Missense_Mutation	SNP	G	G	A																															gacctactcggactacctgcGctgggagagcttcctccagc																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	11594487	G	A	11594487	3	1	361	1	0	0	0	0	1	0	0	0	12735	1087	38	1	3491	1	PTCHD2	1	11594487	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	8049329	11594487	237656134	2	18180	248	2									
PTCHD2	57540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11594488	11594488	+	Silent	SNP	C	C	T																															acctactcggactacctgcgCtgggagagcttcctccagca																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	11594488	C	T	11594488	2	4	361	1	0	0	0	0	0	0	0	1	12735	784	28	2		2	PTCHD2	1	11594488	Silent	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	1	11594488	237656133	3	18181	248	2									
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19445444	19445444	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccttctgtgaatacTccttcaactgaaacagaatt	13	11	5	12	0	2	3	1	2	1	1	3	3	3	3	3	0	4	0	3	0	5	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	19445444	T	G	19445444	3	3	361	1	0	0	0	0	1	0	0	0	16903	1551	54	5	5232	5	UBR4	1	19445444	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	7850956	19445444	229805177	4	18182											
SMG5	23381	hgsc.bcm.edu	37	chr1	156252471	156252473	+	Frame_Shift_Del	DEL	TGG	TGG	-																															tgtgggggggccttggctcaTggtgcccgggtccgggggca																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	TGG	TGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		-	156252473	TGG	-	156252471	7	5	361	1	0	1	0	1	0	0	0	0	14798	1464	51	0	3137	0	SMG5	1	156252471	Frame_Shift_Del	DEL	TGG	TCGA-CJ-4639-01A-02D-1386-10	136807027	156252471	92998150	5	18183											
POU2F1	5451	broad.mit.edu;ucsc.edu	37	chr1	167365546	167365546	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatgttgggctcgctatgggGaaactatatggaaatgactt	11	12	13	5	1	0	1	0	1	0	0	1	4	0	3	0	4	1	3	0	4	5	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	167365546	A	A	167365546	2	1	361	1	0	0	0	0	0	0	0	1	12271	1161	41	2		2	POU2F1	1	167365546	Silent	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	11113075	167365546	81885075	6	18184											
RGS2	5997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	192780679	192780679	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagtcagaattctaccagGacttgtgtaaaaagccacaa	15	9	9	8	0	2	1	1	0	1	1	2	3	2	3	2	2	2	1	2	2	6	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	192780679	G	T	192780679	3	4	361	1	0	0	0	0	1	0	0	0	13304	1174	41	4	607	4	RGS2	1	192780679	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	25415133	192780679	56469942	7	18185											
NUCKS1	64710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205696856	205696856	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaattctttccagatcGcctcttatttttagcttctc	6	19	5	11	1	3	2	0	1	3	1	6	2	4	2	2	0	1	1	2	0	3	7	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	205696856	G	C	205696856	3	2	361	1	0	0	0	0	1	0	0	0	10720	1095	38	4	606	4	NUCKS1	1	205696856	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	12916177	205696856	43553765	8	18186											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	216019306	216019306	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctggcaagatttttagaGagtcgtttgaggtagcagaa	12	12	12	5	1	1	4	0	1	1	3	2	5	1	4	0	2	1	4	0	2	4	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	216019306	G	A	216019306	3	1	361	1	0	0	0	0	1	0	0	0	17035	942	33	2	6805	2	USH2A	1	216019306	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	10322450	216019306	33231315	9	18187											
C2orf86	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63401948	63401948	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatttagcatatcccctctGtccaagggtcccaggagttc	8	12	8	13	0	2	0	1	0	1	0	6	1	5	1	4	2	1	2	4	2	3	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	63401948	G	C	63401948	3	2	361	1	0	0	0	0	1	0	0	0	2201	1368	48	4	321	4	C2orf86	2	63401948	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10		63401948	179797425	10	18188											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141128833	141128833	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggcacatatatattcaCgtgatgagcaagtaggagaa	15	9	10	7	1	1	3	1	2	0	1	1	4	1	3	0	2	1	3	0	2	6	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	141128833	C	T	141128833	3	4	361	1	0	0	0	0	1	0	0	0	8955	536	19	1	3097	1	LRP1B	2	141128833	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	77726885	141128833	102070540	11	18189											
COL3A1	1281	hgsc.bcm.edu;ucsc.edu	37	chr2	189856440	189856440	+	Frame_Shift_Del	DEL	G	G	-																															gaggacggccaggacttcctGgggctgcagtgagtatagct																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		-	189856440	G	-	189856440	7	5	361	1	0	1	0	1	0	0	0	0	3688	1348	47	0	993	0	COL3A1	2	189856440	Frame_Shift_Del	DEL	G	TCGA-CJ-4639-01A-02D-1386-10	48727607	189856440	53342933	12	18190											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196750888	196750888	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcaaagagtaagtttctcGatcatttctctcctttagtt	11	16	6	8	1	3	1	1	0	2	1	6	2	4	1	1	0	1	4	1	0	4	6	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	196750888	G	A	196750888	4	1	361	1	0	0	0	0	0	1	0	0	4606	1066	37	1	6687	1	DNAH7	2	196750888	Nonsense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	6894448	196750888	46448485	13	18191											
MCM2	4171	broad.mit.edu;hgsc.bcm.edu	37	chr3	127337930	127337930	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacaccaccccagcaacaagGaggaggaggggctggccaat	13	2	14	12	0	0	0	0	0	0	0	0	4	0	3	4	6	2	2	4	6	3	0	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	127337930	G	T	127337930	4	4	361	1	0	0	0	0	0	1	0	0	9386	1175	41	4	2124	4	MCM2	3	127337930	Nonsense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10		127337930	70684500	14	18192											
TRIM42	287015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	140401925	140401925	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctttccacaatggccaCgacaccattagcctcatcga	10	11	5	15	2	2	0	1	0	1	0	5	2	3	0	4	1	1	0	4	1	2	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	140401925	C	T	140401925	2	4	361	1	0	0	0	0	0	0	0	1	16516	535	19	1		1	TRIM42	3	140401925	Silent	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	13063995	140401925	57620505	15	18193											
OTOL1	131149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	161221335	161221335	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccccggtcggctttcagcGctggtttgtcaaagccattt	5	13	11	12	3	2	0	2	0	0	0	3	0	2	0	3	3	3	3	3	3	1	3	rs182735973	by1000genomes;alternate_allele	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	161221335	G	C	161221335	3	2	361	1	0	0	0	0	1	0	0	0	11304	1087	38	4	1053	4	OTOL1	3	161221335	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	20819410	161221335	36801095	16	18194											
MUC4	4585	broad.mit.edu	37	chr3	195509498	195509498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggcgtgacctgtggatgCtgaggaagtgtcggtgtcag	6	10	19	6	2	1	2	1	2	0	0	2	4	1	4	1	5	1	1	1	5	1	0	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	195509498	T	T	195509498	3	4	361	1	0	0	0	0	1	0	0	0	9978	797	28	2		2	MUC4	3	195509498	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	34288163	195509498	2512932	17	18195											
MUC4	4585	hgsc.bcm.edu	37	chr3	195515414	195515414	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggatactgaggaagggcTggtgacaggaagaggggtgg	10	7	21	3	0	0	3	0	2	0	1	0	6	0	6	0	8	1	1	0	8	3	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	195515414	T	C	195515414	3	2	361	1	0	0	0	0	1	0	0	0	9978	1580	55	3		3	MUC4	3	195515414	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	5916	195515414	2507016	18	18196											
LAP3	51056	hgsc.bcm.edu	37	chr4	17579091	17579091	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggccgagccgacaagatGttcttgctgcctcttccggc	6	9	13	13	3	2	1	0	0	2	1	3	3	3	1	4	3	3	2	4	3	1	3	rs139709924	alternate_allele	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	17579091	G	A	17579091	3	1	361	1	0	0	0	0	1	0	0	0	8623	1377	48	2	5	2	LAP3	4	17579091	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10		17579091	173575185	19	18197											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87662970	87662970	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagaaaatatctttttctGtatgtccatttaacctcttt	11	18	3	9	0	3	1	0	0	3	1	4	1	4	1	3	0	1	1	3	0	6	7	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	87662970	G	T	87662970	5	4	361	1	0	0	0	0	0	0	1	0	12784	1391	48	4	2546	4	PTPN13	4	87662970	Splice_Site	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	70083879	87662970	103491306	20	18198											
PDLIM5	10611	hgsc.bcm.edu;ucsc.edu	37	chr4	95503859	95503859	+	RNA	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttttgtgtgtgttattcTtccctcagtaaccctggcac	5	19	7	10	0	2	0	1	0	1	0	3	0	3	0	2	1	1	3	2	1	2	7	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	95503859	T	G	95503859	1	3	361	0	1	0	0	0	0	0	0	0	11683	1624	56	5		5	PDLIM5	4	95503859	RNA	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	7840889	95503859	95650417	21	18199											
KIAA1109	84162	hgsc.bcm.edu;ucsc.edu	37	chr4	123265686	123265686	+	Frame_Shift_Del	DEL	A	A	-																															ctgtaagcaagtctgcaagcAaaatggatactacgttaata																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		-	123265686	A	-	123265686	7	5	361	1	0	1	0	1	0	0	0	0	8208	131	5	0	12989	0	KIAA1109	4	123265686	Frame_Shift_Del	DEL	A	TCGA-CJ-4639-01A-02D-1386-10	27761827	123265686	67888590	22	18200											
HHIP	64399	broad.mit.edu;hgsc.bcm.edu	37	chr4	145655993	145655993	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acggctactgcacccccacgGgaaagtgctgctgcagtcca	9	6	11	15	2	0	0	0	0	0	0	1	1	1	1	3	2	5	5	3	2	2	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	145655993	G	A	145655993	3	1	361	1	0	0	0	0	1	0	0	0	7092	1233	43	2	1907	2	HHIP	4	145655993	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	22390307	145655993	45498283	23	18201											
TMEM144	55314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159138498	159138499	+	Frame_Shift_Ins	INS	-	-	A																															ttgctgttgtcccaattatcINSaaaaccattggtttaggcct																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	159138499	-	A	159138498	7	5	361	1	0	1	1	0	0	0	0	0	16057	816	29	0	268	0	TMEM144	4	159138498	Frame_Shift_Ins	INS	-	TCGA-CJ-4639-01A-02D-1386-10	13482505	159138498	32015778	24	18202											
SNX18	112574	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	53815390	53815390	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctaacttcccggacatcatCcacgttcagaaaggtaaagc	13	8	8	12	2	2	1	2	0	0	1	4	2	4	2	2	2	2	3	2	2	4	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	53815390	C	T	53815390	2	4	361	1	0	0	0	0	0	0	0	1	14891	845	30	2		2	SNX18	5	53815390	Silent	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		53815390	127099870	25	18203											
CENPH	64946	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	68505612	68505612	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgcagcttgagaagaatGttgacatgatgtaataagaa	15	12	10	4	0	1	5	0	3	1	3	1	6	1	5	0	0	2	4	0	0	5	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	68505612	G	T	68505612	3	4	361	1	0	0	0	0	1	0	0	0	3232	1377	48	4	764	4	CENPH	5	68505612	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	14690222	68505612	112409648	26	18204											
MAP1B	4131	hgsc.bcm.edu;ucsc.edu	37	chr5	71489932	71489932	+	Frame_Shift_Del	DEL	A	A	-																															gacatcttggaacctcccacAtcgggtggatttctgaagct																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		-	71489932	A	-	71489932	7	5	361	1	0	1	0	1	0	0	0	0	9228	204	8	0	768	0	MAP1B	5	71489932	Frame_Shift_Del	DEL	A	TCGA-CJ-4639-01A-02D-1386-10	2984320	71489932	109425328	27	18205											
SPOCK1	6695	broad.mit.edu;hgsc.bcm.edu	37	chr5	136448175	136448175	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccatggctgactgtgcCacgggacagggcttgcactt	8	8	13	12	1	0	2	0	1	0	1	0	3	0	3	2	3	2	3	2	3	0	2	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	136448175	C	A	136448175	2	1	361	1	0	0	0	0	0	0	0	1	15080	581	21	4		4	SPOCK1	5	136448175	Silent	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	64958243	136448175	44467085	28	18206											
SLC17A2	10246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25913557	25913557	+	Nonsense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgtcctcagaggcgggtAagggtcctctctttggccca	6	12	12	11	1	2	1	1	0	1	1	5	1	4	1	3	4	0	1	3	4	2	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	25913557	A	C	25913557	4	2	361	1	0	0	0	0	0	1	0	0	14419	372	13	5	37	5	SLC17A2	6	25913557	Nonsense_Mutation	SNP	A	TCGA-CJ-4639-01A-02D-1386-10		25913557	145201510	29	18207											
MUC17	140453	broad.mit.edu;hgsc.bcm.edu	37	chr7	100696341	100696341	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagaagagtctggtgtacgGcctcgtgggggcaggggtcg	6	7	19	9	3	1	2	0	0	1	2	3	2	1	2	2	6	1	2	2	6	2	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	100696341	G	A	100696341	3	1	361	1	0	0	0	0	1	0	0	0	9974	1203	42	2	13216	2	MUC17	7	100696341	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10		100696341	58442322	30	18208											
MFHAS1	9258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	8748320	8748320	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccctaggagcagcttaTgcagcagcaaagagggatcc	11	7	13	10	0	0	1	0	0	0	1	2	3	2	3	2	3	5	5	2	3	3	2	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	8748320	T	C	8748320	3	2	361	1	0	0	0	0	1	0	0	0	9521	1464	51	3	921	3	MFHAS1	8	8748320	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10		8748320	137615702	31	18209											
RBM12B	389677	broad.mit.edu;hgsc.bcm.edu	37	chr8	94746348	94746348	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgctctgggggtggccgcCtgaagtgctctgggggtggc	4	9	19	9	1	2	1	0	1	2	0	2	1	2	1	2	6	2	2	2	6	2	0	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	94746348	C	A	94746348	3	1	361	1	0	0	0	0	1	0	0	0	13116	681	24	4	718	4	RBM12B	8	94746348	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	85998028	94746348	51617674	32	18210											
PFKFB3	5209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6257233	6257233	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgaagcagtacagctcCtacaacttcttccgccccga	9	9	8	15	2	1	1	0	1	1	0	3	2	3	1	4	0	5	4	4	0	4	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	6257233	C	T	6257233	2	4	361	1	0	0	0	0	0	0	0	1	11762	668	24	2		2	PFKFB3	10	6257233	Silent	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		6257233	129277514	33	18211											
STAM	8027	hgsc.bcm.edu;ucsc.edu	37	chr10	17737083	17737085	+	In_Frame_Del	DEL	TCA	TCA	-																															tcaaggaacaaaggcagcagTcaaccaccctttccactttg																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		-	17737085	TCA	-	17737083	7	5	361	1	0	1	0	1	0	0	0	0	15249	1667	58	0	597	0	STAM	10	17737083	In_Frame_Del	DEL	TCA	TCGA-CJ-4639-01A-02D-1386-10	11479850	17737083	117797664	34	18212											
SEMA4G	57715	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102740600	102740600	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acagcctctatgtgggggctCctagcggagtcatccagcta	8	9	12	12	1	2	0	1	0	1	0	4	1	4	1	3	3	3	2	3	3	3	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	102740600	C	T	102740600	3	4	361	1	0	0	0	0	1	0	0	0	14038	855	30	2	1535	2	SEMA4G	10	102740600	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	85003517	102740600	32794147	35	18213											
ARFIP2	23647	broad.mit.edu;hgsc.bcm.edu	37	chr11	6499971	6499971	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctgggtgaggcacctgAagctctggggacttctggct	5	11	16	9	0	3	2	0	2	3	0	3	3	3	3	1	6	1	3	1	6	1	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	6499971	A	T	6499971	2	4	361	1	0	0	0	0	0	0	0	1	855	233	9	5		5	ARFIP2	11	6499971	Silent	SNP	A	TCGA-CJ-4639-01A-02D-1386-10		6499971	128506545	36	18214											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108106450	108106450	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatatcatggatacagtgAaagattcatctaatggtgct	14	14	8	5	0	3	2	2	1	1	1	3	3	3	3	0	2	2	1	0	2	5	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	108106450	A	T	108106450	4	4	361	1	0	0	0	0	0	1	0	0	1109	247	9	5	399	5	ATM	11	108106450	Nonsense_Mutation	SNP	A	TCGA-CJ-4639-01A-02D-1386-10	101606479	108106450	26900066	37	18215											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108216609	108216609	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagaagcgattggcttataCgcgcagtgtagctacttctt	9	13	11	8	3	1	1	0	1	1	1	1	3	1	1	0	1	4	4	0	1	5	7	rs141534716	alternate_allele	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	108216609	C	G	108216609	3	3	361	1	0	0	0	0	1	0	0	0	1109	536	19	4	8784	4	ATM	11	108216609	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	110159	108216609	26789907	38	18216											
TMPRSS13	84000	broad.mit.edu;ucsc.edu	37	chr11	117774795	117774795	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagattgacctgcacctccCggaggaagggggatgtcttg	8	9	15	9	1	1	2	0	2	1	1	2	6	2	5	3	4	1	1	3	4	1	2	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	117774795	G	G	117774795	3	3	361	1	0	0	0	0	1	0	0	0	16244	652	23	4	312	4	TMPRSS13	11	117774795	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	9558186	117774795	17231721	39	18217											
VDR	7421	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48272814	48272814	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaaagccagtggctcggtctCcacacaccccacagatccgg	10	5	10	16	2	1	1	0	0	1	1	4	2	2	1	5	3	1	1	5	3	1	0	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	48272814	C	G	48272814	3	3	361	1	0	0	0	0	1	0	0	0	17148	855	30	4	1232	4	VDR	12	48272814	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		48272814	85579081	40	18218											
FIGNL2	401720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52216199	52216199	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttctggtgtccagtgcatcTtcaacagagctgcgggcaag	8	10	13	10	1	3	1	1	0	2	1	4	1	4	1	1	2	4	4	1	2	2	2	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	52216199	T	G	52216199	2	3	361	1	0	0	0	0	0	0	0	1	5893	1624	56	5		5	FIGNL2	12	52216199	Silent	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	3943385	52216199	81635696	41	18219											
MMP17	4326	broad.mit.edu;hgsc.bcm.edu	37	chr12	132329961	132329961	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtggacgccgtgtacgagCgcaccagcgaccacaagatc	10	4	13	14	6	0	1	0	0	0	1	1	4	0	2	3	1	3	2	3	1	2	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	132329961	C	T	132329961	3	4	361	1	0	0	0	0	1	0	0	0	9656	768	27	1	1201	1	MMP17	12	132329961	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	80113762	132329961	1521934	42	18220											
ZFP106	64397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42744055	42744055	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgcaggctgactgtaacTctctctgtcttggtaaggaa	9	12	10	10	0	3	1	0	1	3	0	4	2	3	2	1	3	2	4	1	3	3	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	42744055	T	A	42744055	3	1	361	1	0	0	0	0	1	0	0	0	17636	1551	54	5	5377	5	ZFP106	15	42744055	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10		42744055	59787337	43	18221											
ADCY9	115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4033433	4033433	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtcttcacgggggagttCtttatgacctgtgtggagca	8	12	13	8	2	3	1	1	1	2	0	3	3	3	3	1	3	2	2	1	3	2	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	4033433	C	A	4033433	3	1	361	1	0	0	0	0	1	0	0	0	301	912	32	4	1762	4	ADCY9	16	4033433	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		4033433	86321320	44	18222											
STX4	6810	hgsc.bcm.edu;ucsc.edu	37	chr16	31049919	31049919	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttgaacgcagtattcGtgagctgcacgacatattca	11	10	10	10	3	1	2	1	2	0	0	2	3	1	2	0	0	4	6	0	0	3	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	31049919	G	A	31049919	3	1	361	1	0	0	0	0	1	0	0	0	15348	1145	40	1	683	1	STX4	16	31049919	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	27016486	31049919	59304834	45	18223											
RBL2	5934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53487478	53487478	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggaagcaaaggggataaAggaacatttctggaaaccct	15	9	11	6	0	1	0	0	0	1	0	1	4	1	4	1	5	3	1	1	5	6	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	53487478	A	C	53487478	3	2	361	1	0	0	0	0	1	0	0	0	13112	72	3	5	903	5	RBL2	16	53487478	Missense_Mutation	SNP	A	TCGA-CJ-4639-01A-02D-1386-10	22437559	53487478	36867275	46	18224											
GOT2	2806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58749998	58749998	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggttggaatacatgggAcggatcaagatcttcaactg	12	9	14	6	1	3	1	2	0	1	1	3	5	3	5	0	5	2	1	0	5	4	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	58749998	A	C	58749998	2	2	361	1	0	0	0	0	0	0	0	1	6581	262	10	5		5	GOT2	16	58749998	Silent	SNP	A	TCGA-CJ-4639-01A-02D-1386-10	5262520	58749998	31604755	47	18225											
MFSD6L	162387	broad.mit.edu;hgsc.bcm.edu	37	chr17	8702333	8702333	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctgcctcaggtaaaGggtcaggaacggggtcacgc	9	5	15	12	2	3	0	3	0	0	0	3	1	3	1	2	5	3	2	2	5	3	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	8702333	G	A	8702333	3	1	361	1	0	0	0	0	1	0	0	0	9536	1000	35	2	1658	2	MFSD6L	17	8702333	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10		8702333	72492877	48	18226											
ATAD5	79915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29196281	29196281	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagatttctcgggtggcaTagactttaaaggcagttcag	10	13	11	7	1	3	2	2	0	1	2	4	2	3	2	0	3	0	3	0	3	3	6	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	29196281	T	C	29196281	3	2	361	1	0	0	0	0	1	0	0	0	1076	1406	49	3	3379	3	ATAD5	17	29196281	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	20493948	29196281	51998929	49	18227											
KIAA1267	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	44248335	44248335	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatgcctgttcactgcacCtcaagttggctatgccacta	10	11	7	13	0	2	0	2	0	0	0	2	0	2	0	3	1	3	4	3	1	4	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	44248335	C	G	44248335	3	3	361	1	0	0	0	0	1	0	0	0	8219	681	24	4	2198	4	KIAA1267	17	44248335	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	15052054	44248335	36946875	50	18228											
AKAP1	8165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	55184285	55184285	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtggaagatgccacctGtgtcacctgcatgtcagaca	9	9	11	12	0	2	2	2	0	0	2	2	3	2	3	4	2	2	1	4	2	1	0	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	55184285	G	A	55184285	3	1	361	1	0	0	0	0	1	0	0	0	445	1377	48	2	1462	2	AKAP1	17	55184285	Missense_Mutation	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	10935950	55184285	26010925	51	18229											
POLG2	11232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62492539	62492539	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcataccgtgaagaaggttcTcccgtagtttcccagaagtt	10	11	10	10	2	1	3	0	1	1	2	3	3	2	3	3	1	1	5	3	1	5	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	62492539	T	A	62492539	3	1	361	1	0	0	0	0	1	0	0	0	12201	1551	54	5	941	5	POLG2	17	62492539	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	7308254	62492539	18702671	52	18230											
ZACN	353174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74076506	74076506	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacgctctcagcaacacggGtgctgacagggcaggggctg	8	6	15	12	2	1	1	1	1	1	0	2	1	1	1	0	4	4	5	0	4	2	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	74076506	G	A	74076506	5	1	361	1	0	0	0	0	0	0	1	0	17509	1275	44	2	563	2	ZACN	17	74076506	Splice_Site	SNP	G	TCGA-CJ-4639-01A-02D-1386-10	11583967	74076506	7118704	53	18231											
NFATC1	4772	broad.mit.edu;hgsc.bcm.edu	37	chr18	77170523	77170523	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgggcatcatcccgccggCggatcacccctcggggtacg	6	5	13	17	6	2	0	2	0	0	0	4	1	3	1	5	5	1	2	5	5	1	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		T	77170523	C	T	77170523	3	4	361	1	0	0	0	0	1	0	0	0	10361	768	27	1	346	1	NFATC1	18	77170523	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		77170523	906725	54	18232											
APLP1	333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36362632	36362632	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggacccccgacccatCtgggacagcagttgggtgag	8	6	14	13	1	1	1	0	1	1	0	2	4	2	3	4	3	1	2	4	3	0	1	rs142658251		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	36362632	C	A	36362632	3	1	361	1	0	0	0	0	1	0	0	0	778	913	32	4	674	4	APLP1	19	36362632	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		36362632	22766351	55	18233											
GSK3A	2931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42736808	42736808	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagagcagagcgcgatggcCtctggcggcgttcgagattt	7	9	15	10	5	1	3	0	0	1	3	2	5	1	3	1	3	2	2	1	3	1	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	42736808	C	A	42736808	3	1	361	1	0	0	0	0	1	0	0	0	6823	680	24	4	338	4	GSK3A	19	42736808	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	6374176	42736808	16392175	56	18234											
KLC3	147700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45854226	45854226	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagaatgaagagagccaTgtcactcaacacactgaacg	15	7	9	10	1	2	4	2	2	0	2	2	5	2	4	1	0	4	1	1	0	4	1	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	45854226	T	G	45854226	3	3	361	1	0	0	0	0	1	0	0	0	8335	1464	51	5	1436	5	KLC3	19	45854226	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	3117418	45854226	13274757	57	18235											
NLRP4	147945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56369989	56369989	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagggtatgtggacagaCacatttgagttttgtgaaga	12	11	14	4	0	0	5	0	2	0	3	0	6	0	6	0	2	0	3	0	2	2	4	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	56369989	C	A	56369989	3	1	361	1	0	0	0	0	1	0	0	0	10479	477	17	4	1236	4	NLRP4	19	56369989	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	10515763	56369989	2758994	58	18236											
TAF4	6874	hgsc.bcm.edu;ucsc.edu	37	chr20	60574076	60574077	+	Frame_Shift_Ins	INS	-	-	C																															gatctcccgctcctgctcatINSccttcctctgcttttcgatt																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	60574077	-	C	60574076	7	5	361	1	0	1	1	0	0	0	0	0	15525	1435	50	0	397	0	TAF4	20	60574076	Frame_Shift_Ins	INS	-	TCGA-CJ-4639-01A-02D-1386-10		60574076	2451444	59	18237											
SLC2A11	66035	hgsc.bcm.edu;ucsc.edu	37	chr22	24226035	24226036	+	Frame_Shift_Ins	INS	-	-	C																															atgacctgctgggggagcatINScttcactgtggccctgtgcc																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		C	24226036	-	C	24226035	7	5	361	1	0	1	1	0	0	0	0	0	14542	1435	50	0	1175	0	SLC2A11	22	24226035	Frame_Shift_Ins	INS	-	TCGA-CJ-4639-01A-02D-1386-10		24226035	27078531	60	18238											
TBL1X	6907	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	9677737	9677737	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacaataaagagatctacaCcatcaagtggagccccactg	15	7	7	12	0	3	1	2	0	1	1	3	3	3	2	3	1	2	0	3	1	5	2	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	9677737	C	A	9677737	3	1	361	1	0	0	0	0	1	0	0	0	15638	507	18	4	1422	4	TBL1X	23	9677737	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10		9677737	145592823	61	18239											
XK	7504	broad.mit.edu;hgsc.bcm.edu	37	chrX	37586901	37586901	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccccaggtctcctcatgaCcatatccctgttgtccattg	6	13	6	16	0	2	1	1	1	1	0	6	1	5	1	6	1	0	1	6	1	1	3	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	37586901	C	A	37586901	3	1	361	1	0	0	0	0	1	0	0	0	17430	507	18	4	531	4	XK	23	37586901	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	27909164	37586901	117683659	62	18240											
IL13RA1	3597	hgsc.bcm.edu;ucsc.edu	37	chrX	117900881	117900882	+	Frame_Shift_Ins	INS	-	-	AA																															gaataagagtcaaaacaaatINSaagttatgctatgaggatga																								novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		AA	117900882	-	AA	117900881	7	5	361	1	0	1	1	0	0	0	0	0	7629	1403	49	0	981	0	IL13RA1	23	117900881	Frame_Shift_Ins	INS	-	TCGA-CJ-4639-01A-02D-1386-10	80313980	117900881	37369679	63	18241											
ACTRT1	139741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	127185839	127185839	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagcttttctcgaatttccCtaggattcaaagagggctcg	9	13	9	10	2	2	1	1	0	1	1	5	3	3	2	1	2	1	2	1	2	4	6	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		A	127185839	C	A	127185839	3	1	361	1	0	0	0	0	1	0	0	0	218	681	24	4	787	4	ACTRT1	23	127185839	Missense_Mutation	SNP	C	TCGA-CJ-4639-01A-02D-1386-10	9284958	127185839	28084721	64	18242											
AIFM1	9131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129290574	129290574	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgccatcgctggaacaagTtgcctaagaaacataattta	15	10	7	9	1	0	1	0	0	0	1	1	2	0	2	2	1	4	2	2	1	6	5	novel		TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9df6d1b1-5a09-4082-8ec0-61b12b3c8801	bb11b4d9-1656-4dd8-9916-c2a717201dc2		G	129290574	T	G	129290574	3	3	361	1	0	0	0	0	1	0	0	0	426	1725	60	5	1938	5	AIFM1	23	129290574	Missense_Mutation	SNP	T	TCGA-CJ-4639-01A-02D-1386-10	2104735	129290574	25979986	65	18243											
TMEM222	84065	broad.mit.edu;hgsc.bcm.edu	37	chr1	27648817	27648817	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcaaggctccggcggcgtCgccatggatgtggaacggag	8	7	16	10	5	1	0	1	0	0	0	3	3	2	3	2	6	1	1	2	6	3	1	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	27648817	C	T	27648817	2	4	362	1	0	0	0	0	0	0	0	1	16144	871	31	1		1	TMEM222	1	27648817	Silent	SNP	C	TCGA-CJ-4640-01A-02D-1386-10		27648817	221601804	1	18244											
LASS2	0	broad.mit.edu;hgsc.bcm.edu	37	chr1	150939613	150939613	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccagctcggatgtaattGgcaaaccaggaaaagctgat	13	8	11	9	1	0	1	0	1	0	0	2	3	1	3	2	3	3	4	2	3	4	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	150939613	G	T	150939613	2	4	362	1	0	0	0	0	0	0	0	1	8639	1335	47	4		4	LASS2	1	150939613	Silent	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	123290796	150939613	98311008	2	18245											
GPR52	9293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	174418158	174418158	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtccttcttaacaacCtggcttgcaataagtaatag	12	13	6	10	0	2	0	0	0	2	0	3	0	3	0	2	1	3	3	2	1	6	6	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	174418158	C	A	174418158	2	1	362	1	0	0	0	0	0	0	0	1	6698	668	24	4		4	GPR52	1	174418158	Silent	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	23478545	174418158	74832463	3	18246											
B3GALNT2	148789	broad.mit.edu;ucsc.edu	37	chr1	235618936	235618936	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctattaaatacagcttcgagGtctatgtaacagtcatcatc	13	13	6	9	1	3	0	2	0	1	0	5	1	3	0	0	1	3	2	0	1	6	6	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	235618936	T	T	235618936	3	4	362	1	0	0	0	0	1	0	0	0	1246	1252	44	4	432	4	B3GALNT2	1	235618936	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	61200778	235618936	13631685	4	18247											
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235918888	235918889	+	Frame_Shift_Ins	INS	-	-	T																															ctagcaaggaaaatccacgaINSttcttcagaaatttatcttt																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	235918889	-	T	235918888	7	5	362	1	0	1	1	0	0	0	0	0	9128	330	12	0	4402	0	LYST	1	235918888	Frame_Shift_Ins	INS	-	TCGA-CJ-4640-01A-02D-1386-10	299952	235918888	13331733	5	18248											
CCDC75	253635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	37321281	37321281	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcttgaagaggagactgaAgaagatgaagaagaaaaaga	21	4	14	2	0	0	10	0	3	0	7	0	11	0	10	0	2	0	1	0	2	7	1	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	37321281	A	G	37321281	2	3	362	1	0	0	0	0	0	0	0	1	2849	69	3	3		3	CCDC75	2	37321281	Silent	SNP	A	TCGA-CJ-4640-01A-02D-1386-10		37321281	205878092	6	18249											
DNAH6	1768	broad.mit.edu;ucsc.edu	37	chr2	84945368	84945368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacccaggttggaagaacaaAgaattaagctcatcgtgagg	16	7	11	7	1	1	3	1	1	0	2	2	4	1	4	1	3	3	2	1	3	6	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	84945368	G	G	84945368	3	3	362	1	0	0	0	0	1	0	0	0	4605	64	3	3	9882	3	DNAH6	2	84945368	Missense_Mutation	SNP	A	TCGA-CJ-4640-01A-02D-1386-10	47624087	84945368	158254005	7	18250											
DPP10	57628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	116594279	116594279	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctacataatgttcatggCttgaaagaagaaaatatatt	16	13	8	4	0	1	3	1	1	0	2	1	3	1	3	0	1	2	3	0	1	8	7	rs138029087	alternate_allele	TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	116594279	C	A	116594279	2	1	362	1	0	0	0	0	0	0	0	1	4727	784	28	4		4	DPP10	2	116594279	Silent	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	31648911	116594279	126605094	8	18251											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170027130	170027130	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccatcgcgagggaatgcActgctgattgacacatcgaa	12	8	11	10	3	0	2	0	2	0	0	3	6	1	3	1	1	2	2	1	1	2	1	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	170027130	A	G	170027130	3	3	362	1	0	0	0	0	1	0	0	0	8956	159	6	3	2740	3	LRP2	2	170027130	Missense_Mutation	SNP	A	TCGA-CJ-4640-01A-02D-1386-10	53432851	170027130	73172243	9	18252											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196737119	196737119	+	Missense_Mutation	SNP	G	G	T																															taggcaagagattcttcattGcttctttatacagagtcatt																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	196737119	G	T	196737119	3	4	362	1	0	0	0	0	1	0	0	0	4606	1319	46	4	5690	4	DNAH7	2	196737119	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	26709989	196737119	46462254	10	18253	249	2									
DNAH7	56171	broad.mit.edu;ucsc.edu	37	chr2	196737120	196737120	+	Missense_Mutation	SNP	C	T	T																															aggcaagagattcttcattgCttctttatacagagtcattg																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	196737120	T	T	196737120	3	4	362	1	0	0	0	0	1	0	0	0	4606	797	28	2	5691	2	DNAH7	2	196737120	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	1	196737120	46462253	11	18254	249	2									
NIF3L1	60491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201768224	201768224	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttttggtaggtgagatGtcccatcatgatactttgga	8	15	10	8	0	1	2	1	2	0	1	2	4	2	3	2	3	1	1	2	3	2	5	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	201768224	G	T	201768224	3	4	362	1	0	0	0	0	1	0	0	0	10416	1377	48	4	979	4	NIF3L1	2	201768224	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	5031104	201768224	41431149	12	18255											
TMPPE	643853	broad.mit.edu	37	chr3	33135687	33135687	+	Frame_Shift_Del	DEL	T	-	-																															cagctgcctgaagatggccaTtttctctgctcctagtaggc																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		-	33135687	-	-	33135687	7	5	362	1	0	1	0	1	0	0	0	0	16237	1493	52	0	1364	0	TMPPE	3	33135687	Frame_Shift_Del	DEL	T	TCGA-CJ-4640-01A-02D-1386-10		33135687	164886743	13	18256											
CBLB	868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	105389115	105389115	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatagtcctgtgatgttCtgttagttttgacattttca	8	19	8	6	0	3	2	2	2	1	0	4	3	4	2	1	0	0	3	1	0	2	7	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	105389115	C	A	105389115	3	1	362	1	0	0	0	0	1	0	0	0	2701	913	32	4	305	4	CBLB	3	105389115	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	72253428	105389115	92633315	14	18257											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508298	195508298	+	Missense_Mutation	SNP	C	C	A																															ggtggcctgacctgtggatgCcgaggaaatgtcggtgacag																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	195508298	C	A	195508298	3	1	362	1	0	0	0	0	1	0	0	0	9978	739	26	4		4	MUC4	3	195508298	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	90119183	195508298	2514132	15	18258	250	2									
MUC4	4585	hgsc.bcm.edu	37	chr3	195508299	195508299	+	Silent	SNP	C	C	T																															gtggcctgacctgtggatgcCgaggaaatgtcggtgacagg																								rs2453135	bycluster	TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	195508299	C	T	195508299	2	4	362	1	0	0	0	0	0	0	0	1	9978	639	23	1		1	MUC4	3	195508299	Silent	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	1	195508299	2514131	16	18259	250	2									
ANK2	287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	114286249	114286249	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaatggatattgttcatcTcatggagaccaacacagaac	14	9	8	10	1	2	2	2	0	1	2	3	5	2	3	2	2	2	1	2	2	4	3	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	114286249	T	A	114286249	3	1	362	1	0	0	0	0	1	0	0	0	621	1551	54	5	11170	5	ANK2	4	114286249	Missense_Mutation	SNP	T	TCGA-CJ-4640-01A-02D-1386-10		114286249	76868027	17	18260											
IQGAP2	10788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	75896708	75896708	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctttactaaaccaggcCttggaaagcaacgatcttgt	11	12	9	9	1	1	0	0	0	1	0	1	2	1	1	2	2	5	3	2	2	5	6	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	75896708	C	G	75896708	2	3	362	1	0	0	0	0	0	0	0	1	7815	668	24	4		4	IQGAP2	5	75896708	Silent	SNP	C	TCGA-CJ-4640-01A-02D-1386-10		75896708	105018552	18	18261											
LRFN2	57497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	40400231	40400231	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggggcagcttctgcagccGattggaggtgagatccaggc	8	7	17	9	1	1	1	0	1	1	1	2	4	2	2	2	5	3	3	2	5	0	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	40400231	G	A	40400231	3	1	362	1	0	0	0	0	1	0	0	0	8938	1057	37	1	1755	1	LRFN2	6	40400231	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		40400231	130714836	19	18262											
SRRT	51593	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100483954	100483954	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcatcacccagcacaagcaGattgtgcgcaacgacatcaa	14	5	9	13	2	2	1	2	0	0	1	2	2	2	1	1	1	4	4	1	1	3	1	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	100483954	G	C	100483954	3	2	362	1	0	0	0	0	1	0	0	0	15173	933	33	4	1591	4	SRRT	7	100483954	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		100483954	58654709	20	18263											
ADAM28	10863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	24170950	24170950	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actttattgaacctttaagcCccatacatcgggatggacag	12	11	8	10	1	0	1	0	1	0	0	1	3	0	3	3	2	3	0	3	2	4	6	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	24170950	C	T	24170950	3	4	362	1	0	0	0	0	1	0	0	0	246	623	22	2	455	2	ADAM28	8	24170950	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10		24170950	122193072	21	18264											
TTC18	118491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75095189	75095189	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcctcttcttcttaccTgaccactgcagaaggatcaa	9	13	5	14	0	4	2	1	1	3	1	6	3	6	3	4	1	2	1	4	1	3	4	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	75095189	T	C	75095189	3	2	362	1	0	0	0	0	1	0	0	0	16684	1594	55	3	2563	3	TTC18	10	75095189	Missense_Mutation	SNP	T	TCGA-CJ-4640-01A-02D-1386-10		75095189	60439558	22	18265											
RRP12	23223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99125881	99125881	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacctttggcaccttcctcTtcctccatcttgttgccgtc	3	15	5	18	1	2	0	0	0	2	0	6	0	5	0	7	1	1	2	7	1	0	5	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	99125881	T	C	99125881	2	2	362	1	0	0	0	0	0	0	0	1	13688	1606	56	3		3	RRP12	10	99125881	Silent	SNP	T	TCGA-CJ-4640-01A-02D-1386-10	24030692	99125881	36408866	23	18266											
CRTAC1	55118	broad.mit.edu;ucsc.edu	37	chr10	99664546	99664546	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagccagggcgacacctcgCccatgctggtgggggtcgtc	5	7	15	14	3	1	0	1	0	0	0	4	1	1	0	3	4	2	1	3	4	0	0	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	99664546	T	T	99664546	2	4	362	1	0	0	0	0	0	0	0	1	3896	726	26	2		2	CRTAC1	10	99664546	Silent	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	538665	99664546	35870201	24	18267											
CNNM2	54805	broad.mit.edu	37	chr10	104678907	104678909	+	In_Frame_Del	DEL	CCG	-	-																															gctcgggggtggccgggctcCcgccgcccccgtgggccgag																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		-	104678909	-	-	104678907	7	5	362	1	0	1	0	1	0	0	0	0	3613	623	22	0	672	0	CNNM2	10	104678907	In_Frame_Del	DEL	CCG	TCGA-CJ-4640-01A-02D-1386-10	5014361	104678907	30855840	25	18268											
NAP1L4	4676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	2992733	2992733	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attccgattccgcatctgttGgttcaacatcgccggtgata	8	13	9	11	4	2	1	1	1	1	0	5	2	4	1	3	2	1	3	3	2	2	5	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	2992733	G	A	2992733	3	1	362	1	0	0	0	0	1	0	0	0	10159	1348	47	2	820	2	NAP1L4	11	2992733	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		2992733	132013783	26	18269											
DNHD1	144132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6566997	6566997	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaactcaagtatcacttgGgttcacctcacataatcccc	11	10	5	15	0	4	0	4	0	0	0	5	0	5	0	4	1	1	2	4	1	4	4	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	6566997	G	C	6566997	3	2	362	1	0	0	0	0	1	0	0	0	4668	1232	43	4	4911	4	DNHD1	11	6566997	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	3574264	6566997	128439519	27	18270											
LRP4	4038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46894661	46894661	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agactcccacctgcgggtatCatagtccagggtaaggccat	10	8	11	12	1	1	1	1	0	0	1	3	1	3	1	4	3	1	2	4	3	3	3	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	46894661	C	G	46894661	3	3	362	1	0	0	0	0	1	0	0	0	8959	826	29	4	1180	4	LRP4	11	46894661	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	40327664	46894661	88111855	28	18271											
NPAS4	266743	broad.mit.edu	37	chr11	66192144	66192144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggccctagcccagctcCggggccccctctctgtggat	3	10	11	17	1	2	0	0	0	2	0	4	1	3	1	5	4	2	1	5	4	1	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	66192144	T	T	66192144	3	4	362	1	0	0	0	0	1	0	0	0	10565	643	23	1	1809	1	NPAS4	11	66192144	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	19297483	66192144	68814372	29	18272											
NOP2	4839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6672820	6672820	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcagcacaaatggttcCtcatccacattgatctgcag	10	9	11	11	0	2	1	1	1	1	0	4	1	4	1	2	3	2	4	2	3	1	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	6672820	C	A	6672820	3	1	362	1	0	0	0	0	1	0	0	0	10538	680	24	4	1830	4	NOP2	12	6672820	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10		6672820	127179075	30	18273											
GNPTAB	79158	hgsc.bcm.edu;ucsc.edu	37	chr12	102151009	102151009	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctagggttttttcttatgtCatccaactggccaaccacat	9	14	6	12	0	2	0	1	0	1	0	3	0	3	0	4	2	2	1	4	2	4	5	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	102151009	C	T	102151009	3	4	362	1	0	0	0	0	1	0	0	0	6545	826	29	2	371	2	GNPTAB	12	102151009	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	95478189	102151009	31700886	31	18274											
ZCCHC8	55596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122967187	122967187	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgagaaaaatttaccattgGgcaatctttcatttggtgtt	12	16	8	5	0	2	1	1	1	1	1	2	2	2	1	1	2	1	2	1	2	4	6	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	122967187	G	A	122967187	3	1	362	1	0	0	0	0	1	0	0	0	17593	1232	43	2	1424	2	ZCCHC8	12	122967187	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	20816178	122967187	10884708	32	18275											
C13orf15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	42042974	42042974	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttgacaaaactttagcaAgtaagtacatgtctgatatt	15	14	6	6	0	2	2	0	2	2	0	2	2	2	2	0	0	3	3	0	0	7	7	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	42042974	A	G	42042974	3	3	362	1	0	0	0	0	1	0	0	0	1718	86	3	3	420	3	C13orf15	13	42042974	Missense_Mutation	SNP	A	TCGA-CJ-4640-01A-02D-1386-10		42042974	73126904	33	18276											
PELI2	57161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	56757030	56757030	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgacggccacatggatggGctcactactaatggcgtcct	8	8	11	14	3	1	0	1	0	0	0	2	2	2	1	3	4	1	1	3	4	2	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	56757030	G	T	56757030	2	4	362	1	0	0	0	0	0	0	0	1	11722	1190	42	4		4	PELI2	14	56757030	Silent	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		56757030	50592510	34	18277											
DAAM1	23002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	59834241	59834241	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaatttcttcaagctgtgtCagaagccaaacaagaaaacg	16	9	7	9	1	4	2	3	0	1	2	4	2	4	2	1	0	4	1	1	0	7	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	59834241	C	T	59834241	3	4	362	1	0	0	0	0	1	0	0	0	4215	838	29	2	3045	2	DAAM1	14	59834241	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	3077211	59834241	47515299	35	18278											
PAPLN	89932	broad.mit.edu	37	chr14	73721593	73721593	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgtgggcctcagtgctccaaGagctgcagctcgggcactcg	6	7	14	14	3	1	1	1	0	0	1	4	1	2	1	2	2	4	5	2	2	1	0	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	73721593	C	C	73721593	3	2	362	1	0	0	0	0	1	0	0	0	11428	933	33	4	1459	4	PAPLN	14	73721593	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	13887352	73721593	33627947	36	18279											
SNX33	257364	broad.mit.edu;ucsc.edu	37	chr15	75942381	75942381	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggagactcatcctctGgatggaccacatgaccagcc	11	6	11	13	1	2	2	1	1	1	1	3	6	3	4	4	3	2	0	4	3	1	0	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	75942381	T	T	75942381	3	4	362	1	0	0	0	0	1	0	0	0	14905	1357	47	4	940	4	SNX33	15	75942381	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		75942381	26589011	37	18280											
UMOD	7369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20355352	20355352	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctggccacacctgaccAttggctgtagggcggtcttc	5	11	11	14	1	2	1	0	1	2	0	4	1	2	1	3	4	0	2	3	4	1	3	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		G	20355352	A	G	20355352	3	3	362	1	0	0	0	0	1	0	0	0	16978	217	8	3	621	3	UMOD	16	20355352	Missense_Mutation	SNP	A	TCGA-CJ-4640-01A-02D-1386-10		20355352	69999401	38	18281											
RNF40	9810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30776560	30776560	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtgctggagatggagaCaacagtggaggacttgcagt	12	7	16	6	0	0	2	0	0	0	2	0	6	0	4	0	5	3	2	0	5	2	1	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	30776560	C	T	30776560	3	4	362	1	0	0	0	0	1	0	0	0	13495	478	17	2	852	2	RNF40	16	30776560	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	10421208	30776560	59578193	39	18282											
SHMT1	6470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18243556	18243556	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatattccaggtttcgggaGtagcagctggttcctgagac	8	11	13	9	1	0	1	0	1	0	1	3	3	2	2	2	3	2	6	2	3	2	5	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	18243556	G	T	18243556	4	4	362	1	0	0	0	0	0	1	0	0	14287	1024	36	4	860	4	SHMT1	17	18243556	Nonsense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		18243556	62951654	40	18283											
RPL19	6143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37357533	37357533	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcaagaagaaggtctggttaGaccccaatgagaccaatgaa	16	6	11	8	0	1	5	0	2	1	4	1	6	1	5	3	2	0	2	3	2	7	1	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	37357533	G	C	37357533	3	2	362	1	0	0	0	0	1	0	0	0	13568	942	33	4	79	4	RPL19	17	37357533	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	19113977	37357533	43837677	41	18284											
TRIM25	7706	broad.mit.edu;ucsc.edu	37	chr17	54981679	54981679	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atctcctccttcaaggtctgGatctcactcttcttcttgag	6	16	6	13	0	7	1	2	1	6	0	10	2	8	2	2	2	0	0	2	2	1	4	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		C	54981679	C	C	54981679	3	2	362	1	0	0	0	0	1	0	0	0	16498	1164	41	4	1056	4	TRIM25	17	54981679	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	17624146	54981679	26213531	42	18285											
DSC2	1824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	28651750	28651750	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctatctctcactgttataGgtactacatatgagccaaat	12	14	6	9	0	3	1	1	1	2	0	4	1	3	1	1	1	3	2	1	1	7	6	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	28651750	G	A	28651750	3	1	362	1	0	0	0	0	1	0	0	0	4766	1000	35	2	815	2	DSC2	18	28651750	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		28651750	49425498	43	18286											
DSG1	1828	broad.mit.edu;ucsc.edu	37	chr18	28908167	28908167	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagattcactcagattgtGctgcaaaccagcaagttaca	13	10	8	10	0	2	2	2	0	0	2	2	2	2	2	1	0	6	5	1	0	3	3	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	28908167	T	T	28908167	3	4	362	1	0	0	0	0	1	0	0	0	4776	1319	46	4	246	4	DSG1	18	28908167	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	256417	28908167	49169081	44	18287											
CALR	811	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	13051666	13051666	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccagtatctatgcctatGataactttggcgtgctgggc	8	13	10	10	1	1	1	0	1	1	0	2	1	2	1	2	2	3	2	2	2	4	5	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	13051666	G	T	13051666	3	4	362	1	0	0	0	0	1	0	0	0	2592	1290	45	4	951	4	CALR	19	13051666	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		13051666	46077317	45	18288											
JAK3	3718	broad.mit.edu;ucsc.edu	37	chr19	17954627	17954627	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgctggcatcctccacGgagaagatgtggctcggggg	6	8	18	9	2	0	2	0	0	0	2	3	3	2	2	2	6	1	3	2	6	1	0	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	17954627	T	T	17954627	2	4	362	1	0	0	0	0	0	0	0	1	7939	1103	39	4		4	JAK3	19	17954627	Silent	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	4902961	17954627	41174356	46	18289											
ZNF714	148206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	21299645	21299645	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttttaccagagacctttggCcagagcaagacataaaagat	15	9	8	9	0	0	4	0	0	0	4	0	5	0	4	3	1	2	1	3	1	4	4	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	21299645	C	A	21299645	3	1	362	1	0	0	0	0	1	0	0	0	18117	739	26	4	185	4	ZNF714	19	21299645	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	3345018	21299645	37829338	47	18290											
IL28A	0	broad.mit.edu	37	chr19	39759493	39759493	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttaagagggccaaagatGccttagtgagtctccccctg	9	10	10	12	0	1	3	0	1	1	2	2	3	1	3	5	1	1	0	5	1	3	3	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	39759493	T	T	39759493	3	4	362	1	0	0	0	0	1	0	0	0	7682	1319	46	4	193	4	IL28A	19	39759493	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	18459848	39759493	19369490	48	18291											
NAPSA	9476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50862276	50862276	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccacctacctggatgaCgtaatcatgggccgtgaggt	9	9	13	10	2	1	2	1	2	0	0	1	3	1	3	4	4	1	1	4	4	2	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	50862276	C	T	50862276	3	4	362	1	0	0	0	0	1	0	0	0	10166	536	19	1	243	1	NAPSA	19	50862276	Missense_Mutation	SNP	C	TCGA-CJ-4640-01A-02D-1386-10	11102783	50862276	8266707	49	18292											
SIGLEC8	27181	broad.mit.edu;ucsc.edu	37	chr19	51961425	51961425	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactggagcgtcttggtatgGtctgtctcctgcccggaacc	5	11	12	13	2	3	0	0	0	3	0	4	2	3	2	3	4	3	1	3	4	2	2	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	51961425	T	T	51961425	3	4	362	1	0	0	0	0	1	0	0	0	14316	1261	44	4	1310	4	SIGLEC8	19	51961425	Missense_Mutation	SNP	G	TCGA-CJ-4640-01A-02D-1386-10	1099149	51961425	7167558	50	18293											
ZNF132	7691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58945135	58945135	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgaactctccagtgttcaAtgagagtggagctgtgagca	10	11	13	7	0	2	3	1	3	1	1	3	5	2	4	1	1	3	3	1	1	2	1	rs185952330	by1000genomes;alternate_allele	TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		T	58945135	A	T	58945135	3	4	362	1	0	0	0	0	1	0	0	0	17721	101	4	5	448	5	ZNF132	19	58945135	Missense_Mutation	SNP	A	TCGA-CJ-4640-01A-02D-1386-10	6983710	58945135	183848	51	18294											
DIDO1	11083	hgsc.bcm.edu	37	chr20	61513427	61513438	+	In_Frame_Del	DEL	GCTGCTGTTGTG	GCTGCTGTTGTG	-																															aagctgccgtggaggctgccGctgctgttgtggctgctgtg																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	GCTGCTGTTGTG	GCTGCTGTTGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		-	61513438	GCTGCTGTTGTG	-	61513427	7	5	362	1	0	1	0	1	0	0	0	0	4522	1087	38	0	2845	0	DIDO1	20	61513427	In_Frame_Del	DEL	GCTGCTGTTGTG	TCGA-CJ-4640-01A-02D-1386-10		61513427	1512093	52	18295											
ENTHD1	150350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40231926	40231926	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaggcaaatgaacatcttgGcaatgctcttgtttcaatcc	11	13	8	9	0	3	1	1	1	2	0	4	1	4	1	1	2	2	5	1	2	5	4	novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		A	40231926	G	A	40231926	2	1	362	1	0	0	0	0	0	0	0	1	5137	1195	42	2		2	ENTHD1	22	40231926	Silent	SNP	G	TCGA-CJ-4640-01A-02D-1386-10		40231926	11072640	53	18296											
KLHL34	257240	broad.mit.edu	37	chrX	21674384	21674384	+	Frame_Shift_Del	DEL	T	-	-																															cggtgcccatgggtgccttcTtgctccaaacctgctcctca																								novel		TCGA-CJ-4640-01A-02D-1386-10	TCGA-CJ-4640-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e406036a-eecb-474e-8c76-0fa8b64225be	60836f30-bbab-459c-8b8d-a12902fbcf4e		-	21674384	-	-	21674384	7	5	362	1	0	1	0	1	0	0	0	0	8387	1609	56	0	415	0	KLHL34	23	21674384	Frame_Shift_Del	DEL	T	TCGA-CJ-4640-01A-02D-1386-10		21674384	133596176	54	18297											
TMCO2	127391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40713786	40713786	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcacctcagcaaacaagtTtgggactattagataatctt	13	12	8	8	0	2	1	1	0	1	1	2	2	2	2	1	1	3	3	1	1	5	5	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	40713786	T	A	40713786	3	1	363	1	0	0	0	0	1	0	0	0	15995	1838	64	5	123	5	TMCO2	1	40713786	Missense_Mutation	SNP	T	TCGA-CJ-4641-01A-02D-1386-10		40713786	208536835	1	18298											
MAST2	23139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46497886	46497886	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccgttggccagccccatgtCcccacattctcagtcgtcca	6	9	7	19	2	1	0	1	0	1	0	5	0	3	0	7	1	1	1	7	1	0	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	46497886	C	T	46497886	3	4	363	1	0	0	0	0	1	0	0	0	9325	855	30	2	3322	2	MAST2	1	46497886	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	5784100	46497886	202752735	2	18299											
FLG	2312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152279668	152279668	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactgtcctggctaaaactgGatccccagttcctgcttgtc	7	12	8	14	0	0	0	0	0	0	0	4	1	3	1	4	2	2	3	4	2	2	3	rs182787187	by1000genomes;alternate_allele	TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	152279668	G	T	152279668	3	4	363	1	0	0	0	0	1	0	0	0	5922	1174	41	4	4495	4	FLG	1	152279668	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	105781782	152279668	96970953	3	18300											
SPTA1	6708	broad.mit.edu;ucsc.edu	37	chr1	158609798	158609798	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctgttccagttgctcCtaacccaaggagagtgagga	10	10	11	10	0	1	2	1	1	0	1	3	4	3	3	3	2	3	4	3	2	2	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	158609798	G	G	158609798	5	3	363	1	0	0	0	0	0	0	1	0	15117	695	24	4	2598	4	SPTA1	1	158609798	Splice_Site	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	6330130	158609798	90640823	4	18301											
PIGR	5284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207110826	207110826	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatcatccccagcctggCagagatactgcccagcatcg	10	7	10	14	1	1	1	1	0	0	1	3	3	2	2	4	2	4	2	4	2	2	1	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	207110826	C	A	207110826	3	1	363	1	0	0	0	0	1	0	0	0	11897	710	25	4	1667	4	PIGR	1	207110826	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	48501028	207110826	42139795	5	18302											
CR1	1378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207758216	207758216	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgtgaactttctgttcGtgctggtcagtatccacttc	5	16	9	11	2	2	1	1	1	1	0	6	1	3	1	1	1	2	4	1	1	2	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	207758216	G	A	207758216	3	1	363	1	0	0	0	0	1	0	0	0	3840	1145	40	1	5655	1	CR1	1	207758216	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	647390	207758216	41492405	6	18303											
PLB1	151056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	28752601	28752601	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctctgcacagagacttGtggattcaggctcaagaact	10	10	9	12	0	3	2	2	0	1	2	4	4	4	3	1	2	2	2	1	2	2	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	28752601	G	A	28752601	2	1	363	1	0	0	0	0	0	0	0	1	12024	1368	48	2		2	PLB1	2	28752601	Silent	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		28752601	214446772	7	18304											
XPO1	7514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61749804	61749804	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatcacattttccaaaatTtgtagtccatagtactgaaa	14	16	4	7	0	1	1	1	1	0	0	3	1	3	1	2	0	1	2	2	0	7	8	rs76607520	alternate_allele	TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	61749804	T	A	61749804	3	1	363	1	0	0	0	0	1	0	0	0	17444	1838	64	5	3060	5	XPO1	2	61749804	Missense_Mutation	SNP	T	TCGA-CJ-4641-01A-02D-1386-10	32997203	61749804	181449569	8	18305											
DPP10	57628	hgsc.bcm.edu;ucsc.edu	37	chr2	116101463	116101463	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaagactttgtgcttcaCgatccagaggctcggtggat	10	10	13	8	2	1	2	1	0	0	2	3	5	2	4	1	4	1	2	1	4	1	2	rs143448690	alternate_allele	TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	116101463	C	G	116101463	3	3	363	1	0	0	0	0	1	0	0	0	4727	535	19	4	427	4	DPP10	2	116101463	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	54351659	116101463	127097910	9	18306											
DNAH7	56171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	196620981	196620981	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgctgctaaccacttctTcaagatctgtagacatgact	13	12	6	10	0	3	3	1	1	2	2	3	3	3	3	1	0	3	3	1	0	4	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	196620981	T	G	196620981	3	3	363	1	0	0	0	0	1	0	0	0	4606	1783	62	5	628	5	DNAH7	2	196620981	Missense_Mutation	SNP	T	TCGA-CJ-4641-01A-02D-1386-10	80519518	196620981	46578392	10	18307											
TMEM111	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10005828	10005828	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggccatgagctcttcttcGacatcatctagtgcccactg	7	13	8	13	1	4	1	1	1	3	0	5	2	4	1	2	1	2	1	2	1	1	4	rs113658691	by1000genomes	TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	10005828	G	A	10005828	2	1	363	1	0	0	0	0	0	0	0	1	16027	1045	37	1		1	TMEM111	3	10005828	Silent	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		10005828	188016602	11	18308											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52441304	52441304	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcactaaggccattctGcttctcagggaggtggcgtg	7	10	13	11	1	2	0	1	0	2	0	3	1	2	1	1	4	2	2	1	4	1	3	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	52441304	G	A	52441304	4	1	363	1	0	0	0	0	0	1	0	0	1311	1328	46	2	1767	2	BAP1	3	52441304	Nonsense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	42435476	52441304	145581126	12	18309											
MUC4	4585	broad.mit.edu	37	chr3	195507051	195507051	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctgacctgtggatgcTgaggaagtgtcggtgacagg	7	9	18	7	1	0	3	0	3	0	0	1	5	0	5	2	5	1	1	2	5	1	0	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	195507051	C	C	195507051	2	2	363	1	0	0	0	0	0	0	0	1	9978	1567	55	3		3	MUC4	3	195507051	Silent	SNP	T	TCGA-CJ-4641-01A-02D-1386-10	143065747	195507051	2515379	13	18310											
FAT1	2195	broad.mit.edu	37	chr4	187521052	187521052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacattacggagcccacCtccagcaggtgacggattgc	10	6	12	13	2	0	1	0	1	0	0	1	3	1	3	3	4	5	2	3	4	2	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	187521052	T	T	187521052	3	4	363	1	0	0	0	0	1	0	0	0	5689	695	24	2	1687	2	FAT1	4	187521052	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10		187521052	3633224	14	18311											
PCDHA8	56140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140221437	140221437	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcttagctctcatgattaCttcatgctagatgtgaattc	10	15	8	8	0	2	3	2	2	1	1	4	3	2	3	0	1	3	3	0	1	4	5	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	140221437	C	T	140221437	2	4	363	1	0	0	0	0	0	0	0	1	11530	576	20	2		2	PCDHA8	5	140221437	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10		140221437	40693823	15	18312											
PCDHGA7	56108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140764005	140764005	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ataaactctgacactggagtCctgtacgcgctgcaatcctt	10	11	8	12	2	1	1	0	1	1	0	3	2	3	2	2	1	3	3	2	1	4	3	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	140764005	C	T	140764005	2	4	363	1	0	0	0	0	0	0	0	1	11559	842	30	2		2	PCDHGA7	5	140764005	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	542568	140764005	40151255	16	18313											
C5orf4	10826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154200918	154200918	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagggccaaggaaaaccaCatggtgatggaggacaagtg	15	5	15	6	0	0	2	0	2	0	0	0	5	0	5	2	5	1	0	2	5	4	0	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	154200918	C	T	154200918	3	4	363	1	0	0	0	0	1	0	0	0	2298	478	17	2	262	2	C5orf4	5	154200918	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	13436913	154200918	26714342	17	18314											
OR5V1	81696	broad.mit.edu	37	chr6	29323659	29323659	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actctgatcctacaaagaaaAcaaatgcaaaaagttgaacc	20	7	5	9	0	1	3	0	2	1	1	2	3	2	3	2	0	4	2	2	0	8	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	29323659	G	G	29323659	3	3	363	1	0	0	0	0	1	0	0	0	11184	43	2	3	654	3	OR5V1	6	29323659	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10		29323659	141791408	18	18315											
KCNQ5	56479	broad.mit.edu;ucsc.edu	37	chr6	73904280	73904280	+	Missense_Mutation	SNP	C	A	A																															tggcttcattccagatcccaCcttttgaatgtgaacagaca																								novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	73904280	A	A	73904280	3	1	363	1	0	0	0	0	1	0	0	0	8086	507	18	4	2057	4	KCNQ5	6	73904280	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	44580621	73904280	97210787	19	18316	251	2									
KCNQ5	56479	broad.mit.edu	37	chr6	73904281	73904281	+	Missense_Mutation	SNP	C	T	T																															ggcttcattccagatcccacCttttgaatgtgaacagacat																								novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	73904281	T	T	73904281	3	4	363	1	0	0	0	0	1	0	0	0	8086	681	24	2	2058	2	KCNQ5	6	73904281	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	1	73904281	97210786	20	18317	251	2									
NFE2L3	9603	broad.mit.edu;hgsc.bcm.edu	37	chr7	26225394	26225394	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaaacccaaaagggaaaGagaaagtgagaagaaactga	23	2	12	4	0	0	4	0	2	0	3	0	8	0	6	1	2	2	0	1	2	8	0	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	26225394	G	T	26225394	3	4	363	1	0	0	0	0	1	0	0	0	10369	933	33	4	2090	4	NFE2L3	7	26225394	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		26225394	132913269	21	18318											
ZNF735	730291	broad.mit.edu;hgsc.bcm.edu	37	chr7	63680408	63680408	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagagaaaccctacacaTgtgaagaatgtggcaaagcc	15	6	11	9	0	0	3	0	1	0	2	0	5	0	4	2	2	3	1	2	2	5	1	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	63680408	T	A	63680408	3	1	363	1	0	0	0	0	1	0	0	0	18123	1464	51	5	993	5	ZNF735	7	63680408	Missense_Mutation	SNP	T	TCGA-CJ-4641-01A-02D-1386-10	37455014	63680408	95458255	22	18319											
CALD1	800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134618353	134618353	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggaagcagaagaaagagAaagaattaaagccgagcaag	20	4	13	4	1	0	4	0	0	0	4	0	7	0	5	1	1	3	3	1	1	8	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	134618353	A	T	134618353	3	4	363	1	0	0	0	0	1	0	0	0	2581	246	9	5	900	5	CALD1	7	134618353	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10	70937945	134618353	24520310	23	18320											
HOOK3	84376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	42821725	42821725	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccactttggcagatgaagctCagtctctgaaagatgagatc	12	10	10	9	0	2	5	1	3	1	3	4	6	2	5	1	1	1	2	1	1	2	1	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	42821725	C	T	42821725	4	4	363	1	0	0	0	0	0	1	0	0	7284	827	29	2	927	2	HOOK3	8	42821725	Nonsense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10		42821725	103542297	24	18321											
MCM4	4173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48889311	48889311	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatgatttcctgacagtGactgggaagaccgtgcgctt	9	11	13	8	2	0	5	0	4	0	1	1	7	1	6	2	1	1	1	2	1	1	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	48889311	G	T	48889311	2	4	363	1	0	0	0	0	0	0	0	1	9389	1277	45	4		4	MCM4	8	48889311	Silent	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	6067586	48889311	97474711	25	18322											
ABRA	137735	broad.mit.edu;hgsc.bcm.edu	37	chr8	107773724	107773724	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggctttgcagttgagtttCtctgtaaatctgtttaccct	6	18	9	8	0	2	1	0	1	2	0	3	1	2	1	1	1	2	6	1	1	3	6	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	107773724	C	T	107773724	2	4	363	1	0	0	0	0	0	0	0	1	100	912	32	2		2	ABRA	8	107773724	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	58884413	107773724	38590298	26	18323											
ZNF623	9831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144732657	144732657	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgttcattcaggagaaaaGcccttcaaatgtgcgcagtg	11	9	11	10	3	3	1	3	0	0	1	3	2	3	1	1	1	2	2	1	1	3	3	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	144732657	G	T	144732657	3	4	363	1	0	0	0	0	1	0	0	0	18046	962	34	4	617	4	ZNF623	8	144732657	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	36958933	144732657	1631365	27	18324											
MAPK15	225689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144800451	144800451	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagagaacgacagggacattTacctggtgtttgagtttatg	11	12	12	6	1	0	2	0	1	0	1	0	5	0	3	1	2	2	2	1	2	3	5	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	144800451	T	A	144800451	3	1	363	1	0	0	0	0	1	0	0	0	9277	1754	61	5	279	5	MAPK15	8	144800451	Missense_Mutation	SNP	T	TCGA-CJ-4641-01A-02D-1386-10	67794	144800451	1563571	28	18325											
ALDH18A1	5832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97366699	97366699	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgattcccacttcagcTcctgtgaaaaagcatgaata	13	11	7	10	0	1	3	1	3	0	0	3	3	3	3	2	0	3	3	2	0	5	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	97366699	T	G	97366699	2	3	363	1	0	0	0	0	0	0	0	1	489	1565	54	5		5	ALDH18A1	10	97366699	Silent	SNP	T	TCGA-CJ-4641-01A-02D-1386-10		97366699	38168048	29	18326											
DUSP5	1847	broad.mit.edu;hgsc.bcm.edu	37	chr10	112269965	112269965	+	Missense_Mutation	SNP	G	G	T																															ttcatgggccagctcctgcaGtacgaatctgagatcctgcc																								novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	112269965	G	T	112269965	3	4	363	1	0	0	0	0	1	0	0	0	4828	1020	36	4	950	4	DUSP5	10	112269965	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	14903266	112269965	23264782	30	18327	252	2									
DUSP5	1847	broad.mit.edu;hgsc.bcm.edu	37	chr10	112269966	112269966	+	Missense_Mutation	SNP	T	T	C																															tcatgggccagctcctgcagTacgaatctgagatcctgccc																								novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	112269966	T	C	112269966	3	2	363	1	0	0	0	0	1	0	0	0	4828	1638	57	3	951	3	DUSP5	10	112269966	Missense_Mutation	SNP	T	TCGA-CJ-4641-01A-02D-1386-10	1	112269966	23264781	31	18328	252	2									
OR52A4	390053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5142378	5142378	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caactacaatataagtgactAgctgtcgagtgaatactata	16	11	7	7	1	0	2	0	2	0	0	1	3	0	2	0	0	4	1	0	0	10	7	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	5142378	A	G	5142378	3	3	363	1	0	0	0	0	1	0	0	0	11109	420	15	3	487	3	OR52A4	11	5142378	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10		5142378	129864138	32	18329											
ARFGAP2	84364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47193866	47193866	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctggcttcttcttgccaAtgatggagcttttcagttct	5	17	9	10	0	4	1	1	1	3	0	4	2	4	2	1	2	3	4	1	2	1	6	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		G	47193866	A	G	47193866	3	3	363	1	0	0	0	0	1	0	0	0	850	101	4	3	963	3	ARFGAP2	11	47193866	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10	42051488	47193866	87812650	33	18330											
EHBP1L1	254102	broad.mit.edu;ucsc.edu	37	chr11	65348529	65348529	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctcctaccattcccagAtccctctcgagagctgaaga	9	9	6	17	1	2	4	0	1	2	3	6	5	4	4	5	0	2	1	5	0	2	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	65348529	C	C	65348529	3	2	363	1	0	0	0	0	1	0	0	0	4976	347	12	5	661	5	EHBP1L1	11	65348529	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10	18154663	65348529	69657987	34	18331											
POU2AF1	5450	broad.mit.edu;ucsc.edu	37	chr11	111228240	111228240	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccccaccaccgtgtagctgGggcacacgggctgcacatac	8	5	12	16	2	0	0	0	0	0	0	0	0	0	0	4	3	3	5	4	3	2	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	111228240	C	C	111228240	3	2	363	1	0	0	0	0	1	0	0	0	12270	1232	43	4	392	4	POU2AF1	11	111228240	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	45879711	111228240	23778276	35	18332											
TAS2R31	259290	broad.mit.edu;hgsc.bcm.edu	37	chr12	11183307	11183307	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatcctttaccatggagctGcatcttcttgagatgtttac	9	15	8	9	0	2	2	0	1	2	2	3	4	3	3	2	1	4	3	2	1	2	6	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	11183307	G	T	11183307	3	4	363	1	0	0	0	0	1	0	0	0	15573	1328	46	4	305	4	TAS2R31	12	11183307	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		11183307	122668588	36	18333											
PHLDA1	22822	broad.mit.edu	37	chr12	76424953	76424955	+	In_Frame_Del	DEL	TGG	-	-																															gctgttgctgctgctgctgcTggtgttgcagctgcttgggc																								novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	TGG	TGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		-	76424955	-	-	76424953	7	5	363	1	0	1	0	1	0	0	0	0	11848	1580	55	0	640	0	PHLDA1	12	76424953	In_Frame_Del	DEL	TGG	TCGA-CJ-4641-01A-02D-1386-10	65241646	76424953	57426942	37	18334											
HIP1R	9026	broad.mit.edu	37	chr12	123343703	123343703	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggcacatgcaggccagcCtggtgcggacacccctgcag	7	5	14	15	2	0	0	0	0	0	0	0	1	0	1	4	4	5	3	4	4	0	0	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	123343703	T	T	123343703	2	4	363	1	0	0	0	0	0	0	0	1	7115	680	24	2		2	HIP1R	12	123343703	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	46918750	123343703	10508192	38	18335											
GJA3	2700	broad.mit.edu	37	chr13	20717063	20717063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcctgcggtggctccttgGggctggggctctctctcttc	0	14	14	13	1	2	0	0	0	2	0	7	0	4	0	2	6	1	3	2	6	0	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	20717063	A	A	20717063	3	1	363	1	0	0	0	0	1	0	0	0	6402	1232	43	2	946	2	GJA3	13	20717063	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		20717063	94452815	39	18336											
PABPC3	5042	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25670501	25670501	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcggctcctccaactacgcGtatgtgaacttccagcatac	10	9	8	14	3	0	1	0	1	0	0	3	1	3	1	3	1	6	3	3	1	5	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	25670501	G	A	25670501	2	1	363	1	0	0	0	0	0	0	0	1	11365	1132	40	1		1	PABPC3	13	25670501	Silent	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	4953438	25670501	89499377	40	18337											
OLFM4	10562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	53603018	53603018	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcccttctgttcttccttgGccaagctgcaggggatttgg	5	13	12	11	0	2	0	0	0	2	0	3	1	3	1	3	4	3	3	3	4	1	5	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	53603018	G	T	53603018	3	4	363	1	0	0	0	0	1	0	0	0	10855	1203	42	4	49	4	OLFM4	13	53603018	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	27932517	53603018	61566860	41	18338											
NFATC4	4776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24845237	24845237	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aagagggtttcccggccagtCcaggtctacttttatgtctc	7	13	10	11	1	2	1	0	0	2	1	5	1	4	1	3	3	1	1	3	3	3	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	24845237	C	T	24845237	2	4	363	1	0	0	0	0	0	0	0	1	10365	842	30	2		2	NFATC4	14	24845237	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10		24845237	82504303	42	18339											
ADSSL1	122622	broad.mit.edu;hgsc.bcm.edu	37	chr14	105196283	105196283	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggcaaggaggtgggcagagGcccacgaacctggccctgac	10	3	16	12	1	0	2	0	1	0	1	0	4	0	3	3	6	1	2	3	6	2	0	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	105196283	G	T	105196283	3	4	363	1	0	0	0	0	1	0	0	0	348	1194	42	4	252	4	ADSSL1	14	105196283	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	80351046	105196283	2153257	43	18340											
FBN1	2200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48748913	48748913	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaaccatgttgatacaCactccattttcacagacccc	11	10	4	16	0	1	2	1	1	0	1	2	2	2	2	5	0	3	1	5	0	2	4	rs140649	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	48748913	C	A	48748913	2	1	363	1	0	0	0	0	0	0	0	1	5702	465	17	4		4	FBN1	15	48748913	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10		48748913	53782479	44	18341											
CSPG4	1464	hgsc.bcm.edu	37	chr15	75982085	75982085	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccaggctgtgcccccctCggccaccaccagtgggctga	7	5	12	17	1	0	1	0	1	0	0	1	1	0	1	7	3	2	2	7	3	1	0	rs79463888		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	75982085	C	T	75982085	3	4	363	1	0	0	0	0	1	0	0	0	3960	893	31	1	5679	1	CSPG4	15	75982085	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	27233172	75982085	26549307	45	18342											
KIAA0174	0	broad.mit.edu;hgsc.bcm.edu	37	chr16	71956438	71956438	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggattcacagatgatgtgaAgaaaggaggccctggaagag	14	7	15	5	0	1	5	1	2	0	3	1	8	1	8	1	4	0	0	1	4	3	1	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	71956438	A	C	71956438	3	2	363	1	0	0	0	0	1	0	0	0	8158	72	3	5	636	5	KIAA0174	16	71956438	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10		71956438	18398315	46	18343											
AXIN2	8313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	63554465	63554465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagttcggaacaggtaagCaccgtcttgatcgcccaata	13	8	10	10	3	1	1	0	1	1	0	3	3	1	2	2	2	2	3	2	2	5	4	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	63554465	C	T	63554465	3	4	363	1	0	0	0	0	1	0	0	0	1237	710	25	2	2297	2	AXIN2	17	63554465	Missense_Mutation	SNP	C	TCGA-CJ-4641-01A-02D-1386-10		63554465	17640745	47	18344											
NARF	26502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80436689	80436689	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccaggctgggtccgataCgccgagcgggtgctgggtcg	4	7	17	13	5	0	0	0	0	0	0	3	2	2	0	4	4	3	2	4	4	1	1	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	80436689	C	T	80436689	2	4	363	1	0	0	0	0	0	0	0	1	10167	547	19	1		1	NARF	17	80436689	Silent	SNP	C	TCGA-CJ-4641-01A-02D-1386-10	16882224	80436689	758521	48	18345											
CCDC11	220136	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47792751	47792751	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttaacctcccgctgtacGgtgccaaaccgctggctgta	7	9	9	16	3	0	0	0	0	0	0	1	0	1	0	5	2	4	5	5	2	4	3	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	47792751	G	A	47792751	2	1	363	1	0	0	0	0	0	0	0	1	2746	1103	39	1		1	CCDC11	18	47792751	Silent	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		47792751	30284497	49	18346											
RBCK1	10616	broad.mit.edu;hgsc.bcm.edu	37	chr20	402784	402784	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccctagggagtgcctgcagGgcaccatccgcaacagccag	9	4	12	16	1	0	0	0	0	0	0	1	1	1	1	6	2	4	3	6	2	2	1	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		A	402784	G	A	402784	3	1	363	1	0	0	0	0	1	0	0	0	13109	1232	43	2	980	2	RBCK1	20	402784	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10		402784	62622736	50	18347											
SPAG4	6676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34207221	34207221	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actacgcacggccgcccacgGttatcctggaggtgagtctg	7	8	13	13	4	1	1	0	1	1	0	2	2	2	2	3	4	1	2	3	4	2	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		T	34207221	G	T	34207221	3	4	363	1	0	0	0	0	1	0	0	0	14982	1261	44	4	932	4	SPAG4	20	34207221	Missense_Mutation	SNP	G	TCGA-CJ-4641-01A-02D-1386-10	33804437	34207221	28818299	51	18348											
ACRC	93953	broad.mit.edu;ucsc.edu	37	chrX	70824426	70824426	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcagacaaagaccaaaaaTatagtggagccaccaaggaa	20	3	10	8	0	0	2	0	0	0	2	0	4	0	4	3	3	1	1	3	3	7	2	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	70824426	C	C	70824426	2	2	363	1	0	0	0	0	0	0	0	1	171	1403	49	3		3	ACRC	23	70824426	Silent	SNP	T	TCGA-CJ-4641-01A-02D-1386-10		70824426	84446134	52	18349											
MAMLD1	10046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	149638089	149638089	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgggggctaccctaatAaaattaagaggccttgcctt	11	11	10	9	0	0	2	0	1	0	1	0	2	0	2	3	3	2	1	3	3	5	6	novel		TCGA-CJ-4641-01A-02D-1386-10	TCGA-CJ-4641-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c00265ac-c6cc-4349-ac30-e2e44582015a	18faa42a-cc27-47be-84d6-9ae798ac5172		C	149638089	A	C	149638089	3	2	363	1	0	0	0	0	1	0	0	0	9208	363	13	5	254	5	MAMLD1	23	149638089	Missense_Mutation	SNP	A	TCGA-CJ-4641-01A-02D-1386-10	78813663	149638089	5632471	53	18350											
ZMYM4	9202	broad.mit.edu;ucsc.edu	37	chr1	35853066	35853066	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgcagggcaaaatgttTcagttctgtggcaagaattg	10	14	11	6	0	3	1	1	0	2	1	3	1	3	1	0	2	1	5	0	2	4	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	35853066	C	C	35853066	2	2	364	1	0	0	0	0	0	0	0	1	17701	1780	62	3		3	ZMYM4	1	35853066	Silent	SNP	T	TCGA-CJ-4643-01A-02D-1386-10		35853066	213397555	1	18351											
ZNF643	0	broad.mit.edu	37	chr1	40922615	40922616	+	Splice_Site	DEL	AG	-	-																															aggaacgtatttgatgttctAggaactgttaaccttcaagg																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	40922616	-	-	40922615	8	5	364	1	0	1	0	1	0	0	1	0	18058	434	15	0	222	0	ZNF643	1	40922615	Splice_Site	DEL	AG	TCGA-CJ-4643-01A-02D-1386-10	5069549	40922615	208328006	2	18352											
SLC6A17	388662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110709686	110709686	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggctggtgaggcaggCggcaagcagaaggcggtgga	10	5	20	6	2	0	2	0	1	0	1	0	3	0	3	0	8	1	4	0	8	3	0	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	110709686	C	T	110709686	2	4	364	1	0	0	0	0	0	0	0	1	14682	755	27	1		1	SLC6A17	1	110709686	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	69787071	110709686	138540935	3	18353											
NBPF10	100132406	broad.mit.edu	37	chr1	145301802	145301802	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagaagcttgcagagcagctCaagcaagctgaggagctcag	13	5	14	9	0	2	3	2	1	0	2	2	5	2	4	0	1	7	7	0	1	3	1	rs6690575	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	145301802	G	G	145301802	2	3	364	1	0	0	0	0	0	0	0	1	10193	813	29	4		4	NBPF10	1	145301802	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	34592116	145301802	103948819	4	18354											
BCAN	63827	broad.mit.edu;hgsc.bcm.edu	37	chr1	156622274	156622274	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcactctcccaggcgccagCaagggcagtcctgcagcctg	7	6	12	16	1	2	0	1	0	1	0	4	0	3	0	4	2	3	3	4	2	1	0	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	156622274	C	G	156622274	3	3	364	1	0	0	0	0	1	0	0	0	1345	710	25	4	1558	4	BCAN	1	156622274	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	11320472	156622274	92628347	5	18355											
RPS6KC1	26750	broad.mit.edu;ucsc.edu	37	chr1	213415458	213415458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagtgctagaaggagacaAggaaatacatcagatttttg	15	12	10	4	0	1	3	1	0	0	3	1	5	1	4	0	2	2	1	0	2	6	6	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	213415458	G	G	213415458	3	3	364	1	0	0	0	0	1	0	0	0	13660	72	3	3	2681	3	RPS6KC1	1	213415458	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	56793184	213415458	35835163	6	18356											
ACTN2	88	broad.mit.edu;ucsc.edu	37	chr1	236911030	236911030	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagaaaatttgtgaccagtgGgaccgactgggaacgcttac	12	8	12	9	2	0	2	0	1	0	1	0	5	0	4	2	2	2	1	2	2	4	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	236911030	T	T	236911030	3	4	364	1	0	0	0	0	1	0	0	0	205	1241	43	4	1520	4	ACTN2	1	236911030	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	23495572	236911030	12339591	7	18357											
RHOQ	23433	broad.mit.edu	37	chr2	46803262	46803262	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaggcctttatcttacccaAtgaccgatgtcttccttata	9	15	6	11	1	2	2	0	2	2	0	3	3	3	2	4	1	1	0	4	1	5	6	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	46803262	G	G	46803262	3	3	364	1	0	0	0	0	1	0	0	0	13344	101	4	3	248	3	RHOQ	2	46803262	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10		46803262	196396111	8	18358											
OTX1	5013	broad.mit.edu;hgsc.bcm.edu	37	chr2	63283088	63283088	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcagctacggccaaggCtaccctacgccctcctcttc	6	7	10	18	3	1	0	0	0	1	0	3	0	2	0	4	4	4	3	4	4	4	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	63283088	C	A	63283088	2	1	364	1	0	0	0	0	0	0	0	1	11320	784	28	4		4	OTX1	2	63283088	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	16479826	63283088	179916285	9	18359											
CCDC74A	90557	broad.mit.edu;hgsc.bcm.edu	37	chr2	132285695	132285695	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacccgcagaaacggaaccTggacctggagaaaagcctgc	13	3	12	13	3	0	2	0	0	0	2	0	6	0	4	4	3	4	1	4	3	4	0	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	132285695	T	G	132285695	3	3	364	1	0	0	0	0	1	0	0	0	2847	1580	55	5	154	5	CCDC74A	2	132285695	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	69002607	132285695	110913678	10	18360											
IRS1	3667	broad.mit.edu	37	chr2	227660037	227660037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggaagcagagctgtggcGtttcacatcctcgctgctgc	9	9	12	11	2	1	1	1	0	0	1	3	2	2	2	1	2	4	5	1	2	2	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	227660037	A	A	227660037	3	1	364	1	0	0	0	0	1	0	0	0	7840	1145	40	1	314	1	IRS1	2	227660037	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	95374342	227660037	15539336	11	18361											
PER2	8864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	239186456	239186456	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagttttcgttggtctcaTgtccactggagccactgctc	6	13	10	12	1	1	0	1	0	1	0	5	1	2	1	2	2	3	4	2	2	0	3	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	239186456	T	C	239186456	3	2	364	1	0	0	0	0	1	0	0	0	11730	1464	51	3	3733	3	PER2	2	239186456	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	11526419	239186456	4012917	12	18362											
PRR21	643905	hgsc.bcm.edu	37	chr2	240982219	240982219	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgggtgaagagccgtggAtgaagggccgtgggtgaaga	11	6	19	5	2	0	5	0	3	0	2	0	6	0	6	2	4	1	0	2	4	3	0	rs74006013	bycluster	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	240982219	A	G	240982219	3	3	364	1	0	0	0	0	1	0	0	0	12594	333	12	3	991	3	PRR21	2	240982219	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	1795763	240982219	2217154	13	18363											
RUVBL1	8607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	127816145	127816145	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcagccatcctacctGatgacacagttgcctcggtt	8	9	11	13	1	0	2	0	2	0	0	2	2	1	2	4	3	3	4	4	3	1	3	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	127816145	G	T	127816145	2	4	364	1	0	0	0	0	0	0	0	1	13754	1280	45	4		4	RUVBL1	3	127816145	Silent	SNP	G	TCGA-CJ-4643-01A-02D-1386-10		127816145	70206285	14	18364											
ESYT3	83850	hgsc.bcm.edu;ucsc.edu	37	chr3	138170931	138170942	+	Frame_Shift_Del	DEL	GGTAAGGCCGCT	GGTAAGGCCGCT	-																															cgggtcgagtgggccaacaaGgtaaggccgctggcagggcc																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	GGTAAGGCCGCT	GGTAAGGCCGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	138170942	GGTAAGGCCGCT	-	138170931	7	5	364	1	0	1	0	1	0	0	0	0	5266	1014	35	0	375	0	ESYT3	3	138170931	Frame_Shift_Del	DEL	GGTAAGGCCGCT	TCGA-CJ-4643-01A-02D-1386-10	10354786	138170931	59851499	15	18365											
PLCH1	23007	broad.mit.edu;ucsc.edu	37	chr3	155199834	155199834	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagggtcaaatcaggggaAgaggcagggctgcagctctt	10	7	15	9	0	3	1	2	0	1	1	4	2	4	2	1	5	2	4	1	5	2	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	155199834	G	G	155199834	2	3	364	1	0	0	0	0	0	0	0	1	12037	59	3	3		3	PLCH1	3	155199834	Silent	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	17028903	155199834	42822596	16	18366											
KLHL6	89857	broad.mit.edu;hgsc.bcm.edu	37	chr3	183217550	183217550	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcatccttcgtgcagccGccaatgatcatgaacacctc	9	10	7	15	3	2	2	2	2	0	0	5	2	3	2	4	0	3	2	4	0	2	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	183217550	G	T	183217550	2	4	364	1	0	0	0	0	0	0	0	1	8393	1074	38	4		4	KLHL6	3	183217550	Silent	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	28017716	183217550	14804880	17	18367											
N4BP2	55728	broad.mit.edu	37	chr4	40121716	40121716	+	Frame_Shift_Del	DEL	G	-	-																															tgcagatttaaacaaaagaaGaaaagaaataagtgatatga																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	40121716	-	-	40121716	7	5	364	1	0	1	0	1	0	0	0	0	10110	942	33	0	2011	0	N4BP2	4	40121716	Frame_Shift_Del	DEL	G	TCGA-CJ-4643-01A-02D-1386-10		40121716	151032560	18	18368											
HLA-C	3107	hgsc.bcm.edu	37	chr6	31237802	31237802	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaaggacagctaggacaAccaggacagccaggccagca	14	2	11	14	0	0	0	0	0	0	0	1	3	1	3	4	4	4	2	4	4	3	1	rs17413387	bycluster	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	31237802	A	G	31237802	3	3	364	1	0	0	0	0	1	0	0	0	7197	43	2	3	160	3	HLA-C	6	31237802	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10		31237802	139877265	19	18369											
ASCC3	10973	broad.mit.edu	37	chr6	100966004	100966005	+	Frame_Shift_Del	DEL	CA	-	-																															agccagccctggtttgcagcCacgtccagcattgcctgaac																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	100966005	-	-	100966004	7	5	364	1	0	1	0	1	0	0	0	0	1033	581	21	0	838	0	ASCC3	6	100966004	Frame_Shift_Del	DEL	CA	TCGA-CJ-4643-01A-02D-1386-10	69728202	100966004	70149063	20	18370											
AVL9	23080	broad.mit.edu	37	chr7	32615623	32615623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgttacagcatggaagaatActcacaactacagggtgtgg	13	10	11	7	0	1	1	1	0	0	1	1	2	1	2	0	3	5	2	0	3	6	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	32615623	G	G	32615623	3	3	364	1	0	0	0	0	1	0	0	0	1228	391	14	3	1677	3	AVL9	7	32615623	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10		32615623	126523040	21	18371											
PTCD1	26024	broad.mit.edu;hgsc.bcm.edu	37	chr7	99022964	99022964	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttccggaggctctggaggCccaagtgcctgagaaggttc	7	8	15	11	1	1	1	0	1	1	1	3	4	2	3	3	5	1	3	3	5	2	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	99022964	C	T	99022964	2	4	364	1	0	0	0	0	0	0	0	1	12729	726	26	2		2	PTCD1	7	99022964	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	66407341	99022964	60115699	22	18372											
MUC17	140453	hgsc.bcm.edu	37	chr7	100684091	100684092	+	Frame_Shift_Ins	INS	-	-	C																															ttcaacaactcctgttgacaINSccagcacacctgtgaccact																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	100684092	-	C	100684091	7	5	364	1	0	1	1	0	0	0	0	0	9974	159	6	0	9404	0	MUC17	7	100684091	Frame_Shift_Ins	INS	-	TCGA-CJ-4643-01A-02D-1386-10	1661127	100684091	58454572	23	18373											
ARMC10	83787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	102716238	102716238	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggtgccctggaagaaGggacgtcagagggtcagttg	9	8	17	7	1	2	2	2	0	0	2	2	4	2	4	1	4	2	2	1	4	2	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	102716238	G	T	102716238	3	4	364	1	0	0	0	0	1	0	0	0	950	1000	35	4	160	4	ARMC10	7	102716238	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	2032147	102716238	56422425	24	18374											
KCND2	3751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	119915314	119915314	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtggaaacagtgccgtgcGgatcaagcccaggtcacatt	10	8	13	10	2	2	0	2	0	0	0	2	2	2	2	2	4	4	0	2	4	2	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	119915314	G	A	119915314	3	1	364	1	0	0	0	0	1	0	0	0	8019	1117	39	1	630	1	KCND2	7	119915314	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	17199076	119915314	39223349	25	18375											
RBM33	155435	broad.mit.edu	37	chr7	155473566	155473567	+	Frame_Shift_Del	DEL	AG	-	-																															ctttacactgatgaagtgttAgacatcgagatcaatgaacc																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	155473567	-	-	155473566	7	5	364	1	0	1	0	1	0	0	0	0	13132	417	15	0	549	0	RBM33	7	155473566	Frame_Shift_Del	DEL	AG	TCGA-CJ-4643-01A-02D-1386-10	35558252	155473566	3665097	26	18376											
C9orf11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	27296984	27296984	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatgctctctcaccttcaaTagtaggcttcaaagtgctac	12	12	6	11	0	4	0	3	0	1	0	5	0	4	0	1	1	3	4	1	1	6	5	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	27296984	T	C	27296984	3	2	364	1	0	0	0	0	1	0	0	0	2448	1406	49	3	846	3	C9orf11	9	27296984	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10		27296984	113916447	27	18377											
AQP7	364	hgsc.bcm.edu	37	chr9	33385784	33385784	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcctatcaccagcgcCtctgttcctggcagtgctgg	6	10	12	13	1	2	0	1	0	1	0	3	1	3	1	4	3	3	3	4	3	1	2	rs114937176		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	33385784	C	G	33385784	3	3	364	1	0	0	0	0	1	0	0	0	831	680	24	4	430	4	AQP7	9	33385784	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	6088800	33385784	107827647	28	18378											
KIAA0368	23392	broad.mit.edu	37	chr9	114145539	114145539	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcattcctttgtccagaAggcaaggcagaagggcagcg	11	8	12	10	1	2	2	2	0	0	2	4	2	4	2	2	3	1	3	2	3	3	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	114145539	G	G	114145539	3	3	364	1	0	0	0	0	1	0	0	0	8171	72	3	3	1828	3	KIAA0368	9	114145539	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	80759755	114145539	27067892	29	18379											
SETX	23064	hgsc.bcm.edu;ucsc.edu	37	chr9	135210042	135210042	+	Frame_Shift_Del	DEL	T	T	-																															gtatcgattgcataaaatcaTtttgtttgtctgagcccaac																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	135210042	T	-	135210042	7	5	364	1	0	1	0	1	0	0	0	0	14143	1493	52	0	7322	0	SETX	9	135210042	Frame_Shift_Del	DEL	T	TCGA-CJ-4643-01A-02D-1386-10	21064503	135210042	6003389	30	18380											
MUC2	4583	hgsc.bcm.edu	37	chr11	1093135	1093135	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcacacagaccccaaccAcgacacccatcaccaccacc	13	1	4	23	2	1	1	1	0	0	1	1	2	1	1	8	1	1	1	8	1	1	0	rs56080332		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	1093135	A	C	1093135	3	2	364	1	0	0	0	0	1	0	0	0	9975	159	6	5	5072	5	MUC2	11	1093135	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10		1093135	133913381	31	18381											
KRTAP5-4	387267	hgsc.bcm.edu	37	chr11	1642703	1642703	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcagcagggattgcagcaActggactggcagcaggatga	12	5	16	8	0	0	1	0	1	0	0	0	5	0	4	0	4	6	6	0	4	1	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	1642703	A	G	1642703	2	3	364	1	0	0	0	0	0	0	0	1	8563	40	2	3		3	KRTAP5-4	11	1642703	Silent	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	549568	1642703	133363813	32	18382											
HPS5	11234	broad.mit.edu;ucsc.edu	37	chr11	18327003	18327003	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttggggaaagacaaagactGggaggatccagctgtatgat	13	9	14	5	0	0	3	0	1	0	2	1	6	1	6	1	4	1	2	1	4	3	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	18327003	A	A	18327003	4	1	364	1	0	0	0	0	0	1	0	0	7342	1357	47	2	2591	2	HPS5	11	18327003	Nonsense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	16684300	18327003	116679513	33	18383											
LUZP2	338645	broad.mit.edu	37	chr11	25100121	25100121	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgcaaatgcctccttgcTctgaatgtgaggtgaaaaaa	14	11	9	7	0	1	3	0	3	1	0	2	3	2	3	2	1	3	2	2	1	6	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	25100121	G	G	25100121	3	3	364	1	0	0	0	0	1	0	0	0	9087	1551	54	5	1004	5	LUZP2	11	25100121	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	6773118	25100121	109906395	34	18384											
TTC12	54970	broad.mit.edu;ucsc.edu	37	chr11	113205696	113205696	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttttatgcagtgtgatgaAaaatgcacaaaagcatattt	15	14	7	5	0	1	2	0	2	1	0	1	2	1	2	0	0	3	3	0	0	6	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	113205696	C	C	113205696	3	2	364	1	0	0	0	0	1	0	0	0	16678	11	1	5	539	5	TTC12	11	113205696	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	88105575	113205696	21800820	35	18385											
EPS8	2059	broad.mit.edu	37	chr12	15803929	15803929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaataaactgttcttttGgccactctgctctgcaggag	8	13	11	9	0	3	0	0	0	3	0	3	2	3	2	1	3	3	3	1	3	3	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	15803929	A	A	15803929	3	1	364	1	0	0	0	0	1	0	0	0	5194	1348	47	2	1238	2	EPS8	12	15803929	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10		15803929	118047966	36	18386											
ATF1	466	broad.mit.edu	37	chr12	51213515	51213515	+	Frame_Shift_Del	DEL	G	-	-																															atcaaaataaaactctaataGaagagttaaaaactttgaag																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	51213515	-	-	51213515	7	5	364	1	0	1	0	1	0	0	0	0	1079	943	33	0	791	0	ATF1	12	51213515	Frame_Shift_Del	DEL	G	TCGA-CJ-4643-01A-02D-1386-10	35409586	51213515	82638380	37	18387											
XPOT	11260	broad.mit.edu	37	chr12	64812710	64812710	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaataaagccgcccaagtcTtcgccttgctttttgttaca	10	13	7	11	2	1	0	0	0	1	0	2	1	1	0	3	0	3	2	3	0	5	6	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	64812710	C	C	64812710	3	2	364	1	0	0	0	0	1	0	0	0	17449	1609	56	3	343	3	XPOT	12	64812710	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	13599195	64812710	69039185	38	18388											
RPH3A	22895	hgsc.bcm.edu	37	chr12	113314465	113314465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtggctccgagcgaccCtgggaccactgccccacccc	7	4	12	18	2	0	1	0	0	0	1	1	4	1	2	7	3	2	1	7	3	0	0	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	113314465	C	T	113314465	3	4	364	1	0	0	0	0	1	0	0	0	13553	681	24	2	1007	2	RPH3A	12	113314465	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	48501755	113314465	20537430	39	18389											
TBC1D4	9882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	75936707	75936707	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctctttcatggccgcttTagataattgccttatgctgc	7	16	7	11	1	2	1	1	0	1	1	3	1	3	1	3	1	3	2	3	1	3	6	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	75936707	T	A	75936707	4	1	364	1	0	0	0	0	0	1	0	0	15621	1763	61	5	3441	5	TBC1D4	13	75936707	Nonsense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10		75936707	39233171	40	18390											
TMCO3	55002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	114149939	114149939	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctgggtgctgtttcccGtccttccctgggcggtgcag	1	14	13	13	2	2	0	0	0	2	0	5	0	5	0	3	3	2	3	3	3	0	3	rs139520979	by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	114149939	G	A	114149939	3	1	364	1	0	0	0	0	1	0	0	0	15996	1145	40	1	45	1	TMCO3	13	114149939	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	38213232	114149939	1019939	41	18391											
C14orf4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77491962	77491962	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggcactgaacgaaatgcGtatcctccaaacgttcgtgg	12	8	11	10	4	0	1	0	1	0	0	3	2	2	1	2	2	3	3	2	2	5	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	77491962	G	A	77491962	3	1	364	1	0	0	0	0	1	0	0	0	1773	1145	40	1	220	1	C14orf4	14	77491962	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10		77491962	29857578	42	18392											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105412138	105412138	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaggccagctccctcgAgaacgtggccctctgggagc	6	8	13	14	2	1	2	0	1	1	1	3	4	2	3	3	3	3	1	3	3	1	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	105412138	A	G	105412138	3	3	364	1	0	0	0	0	1	0	0	0	415	304	11	3	7741	3	AHNAK2	14	105412138	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	27920176	105412138	1937402	43	18393											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105419047	105419047	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccactttgggcaggtgcActttggggccggctccctcg	3	11	13	14	2	1	0	0	0	1	0	4	0	2	0	3	5	1	3	3	5	0	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	105419047	A	C	105419047	3	2	364	1	0	0	0	0	1	0	0	0	415	159	6	5	14650	5	AHNAK2	14	105419047	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	6909	105419047	1930493	44	18394											
CYFIP1	23191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	22928512	22928512	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatttcatgtacttccaggTaaaatggcaaataatctggg	14	12	9	6	0	2	0	1	0	1	0	3	1	3	0	1	3	1	3	1	3	6	5	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	22928512	T	C	22928512	5	2	364	1	0	0	0	0	0	0	1	0	4137	1652	57	3	403	3	CYFIP1	15	22928512	Splice_Site	SNP	T	TCGA-CJ-4643-01A-02D-1386-10		22928512	79602880	45	18395											
PLA2G4B	100137049	broad.mit.edu;hgsc.bcm.edu	37	chr15	42132809	42132809	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggtcaagaacagcagtaGccctgtctggaaccagagct	12	6	11	12	1	2	2	1	0	1	2	2	3	2	3	2	2	5	3	2	2	4	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	42132809	G	C	42132809	3	2	364	1	0	0	0	0	1	0	0	0	12002	971	34	4	180	4	PLA2G4B	15	42132809	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	19204297	42132809	60398583	46	18396											
ITGA11	22801	broad.mit.edu;hgsc.bcm.edu	37	chr15	68595444	68595444	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccaggctccctcctgcGcctggcacttctaaagaagc	9	7	9	16	1	1	2	0	0	1	2	3	2	3	2	4	2	2	2	4	2	3	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	68595444	G	C	68595444	3	2	364	1	0	0	0	0	1	0	0	0	7874	1087	38	4	50	4	ITGA11	15	68595444	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	26462635	68595444	33935948	47	18397											
ZNF434	0	broad.mit.edu;ucsc.edu	37	chr16	3432991	3432991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcaccagtgtgggtttttCggtgggcactgaagtgggag	6	13	16	6	1	1	1	1	1	0	0	2	2	1	2	1	4	0	2	1	4	1	3	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	3432991	T	T	3432991	3	4	364	1	0	0	0	0	1	0	0	0	17907	884	31	1	142	1	ZNF434	16	3432991	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10		3432991	86921762	48	18398											
MYLK3	91807	broad.mit.edu;hgsc.bcm.edu	37	chr16	46766320	46766320	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctcgtgccaggctcggccCcagccctttgctcctcctct	2	11	9	19	2	2	0	0	0	2	0	6	0	4	0	6	2	3	2	6	2	0	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	46766320	C	G	46766320	3	3	364	1	0	0	0	0	1	0	0	0	10058	623	22	4	1237	4	MYLK3	16	46766320	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	43333329	46766320	43588433	49	18399											
DNAH9	1770	hgsc.bcm.edu;ucsc.edu	37	chr17	11795233	11795233	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggctctttgagtgtgataAgctgacctaccttgcccagc	7	11	11	12	1	1	3	0	3	1	0	1	3	1	3	3	1	4	2	3	1	2	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	11795233	A	T	11795233	3	4	364	1	0	0	0	0	1	0	0	0	4608	72	3	5	11482	5	DNAH9	17	11795233	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10		11795233	69399977	50	18400											
UBB	7314	hgsc.bcm.edu	37	chr17	16285560	16285560	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggataaagaaggcatcccTcccgaccagcagaggctcat	13	5	10	13	1	1	2	1	0	0	2	3	4	3	3	3	3	1	3	3	3	3	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	16285560	T	C	16285560	2	2	364	1	0	0	0	0	0	0	0	1	16840	1538	54	3		3	UBB	17	16285560	Silent	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	4490327	16285560	64909650	51	18401											
UNC119	9094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26875651	26875651	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcaaagaggacagtgcctGagtccatgtcccgaatctta	11	11	9	10	1	2	2	1	1	1	1	4	4	4	3	3	1	1	0	3	1	3	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	26875651	G	A	26875651	3	1	364	1	0	0	0	0	1	0	0	0	16981	1294	45	2	498	2	UNC119	17	26875651	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	10590091	26875651	54319559	52	18402											
GPR179	440435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36482951	36482951	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgctgcttttgagaagtgTtcttccgtccctccaggtcc	4	14	10	13	1	1	1	0	1	1	1	5	2	5	1	4	1	2	4	4	1	1	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	36482951	T	G	36482951	3	3	364	1	0	0	0	0	1	0	0	0	6674	1722	60	5	606	5	GPR179	17	36482951	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	9607300	36482951	44712259	53	18403											
ERBB2	2064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37873629	37873629	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccctcccttctgcgtggcCcgctgccccagcggtgtgaa	4	8	12	17	3	1	1	0	1	1	0	2	2	2	1	5	2	3	1	5	2	1	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	37873629	C	T	37873629	2	4	364	1	0	0	0	0	0	0	0	1	5206	610	22	2		2	ERBB2	17	37873629	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	1390678	37873629	43321581	54	18404											
KRTAP9-2	83899	hgsc.bcm.edu	37	chr17	39383027	39383027	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaccctgctgccagcccGcctgctgtgtgtccagctgc	4	8	11	18	1	0	0	0	0	0	0	1	0	1	0	5	0	6	4	5	0	0	0	rs71371478		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	39383027	G	T	39383027	3	4	364	1	0	0	0	0	1	0	0	0	8573	1087	38	4	123	4	KRTAP9-2	17	39383027	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	1509398	39383027	41812183	55	18405											
BRCA1	672	broad.mit.edu;ucsc.edu	37	chr17	41234582	41234582	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttatcaggttatgttgcatgGtatccctctgcttcaaaaac	10	15	7	9	0	3	0	2	0	1	0	4	0	4	0	1	2	3	5	1	2	5	5	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	41234582	C	C	41234582	3	2	364	1	0	0	0	0	1	0	0	0	1498	1261	44	4	1513	4	BRCA1	17	41234582	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	1851555	41234582	39960628	56	18406											
LRRC46	90506	broad.mit.edu;hgsc.bcm.edu	37	chr17	45914323	45914323	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgaggccgtctcctcacCccaggcctcctctcccacca	5	7	6	23	1	3	1	1	1	2	0	6	1	4	1	9	2	0	0	9	2	0	0	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	45914323	C	T	45914323	3	4	364	1	0	0	0	0	1	0	0	0	9003	623	22	2	833	2	LRRC46	17	45914323	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	4679741	45914323	35280887	57	18407											
GH2	2689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61958132	61958132	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atccctggtgccaccctcacCcacatcagcgtttggatgcc	7	9	8	17	1	2	0	2	0	0	0	3	1	3	1	5	2	3	1	5	2	0	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	61958132	C	G	61958132	3	3	364	1	0	0	0	0	1	0	0	0	6368	637	22	4	542	4	GH2	17	61958132	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	16043809	61958132	19237078	58	18408											
BAHCC1	57597	hgsc.bcm.edu	37	chr17	79424537	79424537	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggggccagtgtggccgtgCtggggccctcaccctcctct	2	8	14	17	2	2	0	1	0	1	0	3	0	3	0	6	5	1	1	6	5	0	0	rs34224936	bycluster;byfrequency;by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	79424537	C	T	79424537	2	4	364	1	0	0	0	0	0	0	0	1	1296	796	28	2		2	BAHCC1	17	79424537	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	17466405	79424537	1770673	59	18409											
CDH7	1005	broad.mit.edu;ucsc.edu	37	chr18	63430106	63430106	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaaagtggagttctgcCattttctgcagctaatagct	9	13	11	8	0	2	0	0	0	2	0	2	1	2	1	1	2	4	5	1	2	3	5	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	63430106	G	G	63430106	3	3	364	1	0	0	0	0	1	0	0	0	3115	594	21	4	30	4	CDH7	18	63430106	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10		63430106	14647142	60	18410											
TICAM1	148022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4817211	4817211	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatcacaaagttatagaaTttctgttccgatgatgattc	13	14	8	6	1	2	3	1	2	1	1	4	5	3	4	1	1	0	2	1	1	4	5	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	4817211	T	A	4817211	3	1	364	1	0	0	0	0	1	0	0	0	15891	1490	52	5	963	5	TICAM1	19	4817211	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10		4817211	54311772	61	18411											
PTPRS	5802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5214437	5214437	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtatctagcaacgtgacctGgatgaagccgtaggtctccg	9	9	13	10	3	2	2	0	2	2	0	3	3	2	3	3	3	3	3	3	3	5	3	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	5214437	G	A	5214437	4	1	364	1	0	0	0	0	0	1	0	0	12813	1357	47	2	1333	2	PTPRS	19	5214437	Nonsense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	397226	5214437	53914546	62	18412											
ZNF493	284443	broad.mit.edu	37	chr19	21607481	21607482	+	Frame_Shift_Del	DEL	AA	-	-																															gtatattctcaacccttactAaacataagataattcatact																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	21607482	-	-	21607481	7	5	364	1	0	1	0	1	0	0	0	0	17943	363	13	0	2097	0	ZNF493	19	21607481	Frame_Shift_Del	DEL	AA	TCGA-CJ-4643-01A-02D-1386-10	16393044	21607481	37521502	63	18413											
RASGRP4	115727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38904046	38904046	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcaccaggctcttgggAcaacgcggctcccgggcata	7	7	13	14	3	2	0	1	0	2	0	4	1	3	1	2	5	1	3	2	5	2	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	38904046	A	T	38904046	4	4	364	1	0	0	0	0	0	1	0	0	13079	273	10	5	754	5	RASGRP4	19	38904046	Nonsense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	17296565	38904046	20224937	64	18414											
ARHGEF1	9138	broad.mit.edu;hgsc.bcm.edu	37	chr19	42408211	42408211	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacatcaccaagaagaaaTtggtccacgagggcccactg	13	6	11	11	1	1	2	1	0	0	2	2	4	2	3	3	3	0	0	3	3	3	1	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	42408211	T	G	42408211	3	3	364	1	0	0	0	0	1	0	0	0	893	1490	52	5	2069	5	ARHGEF1	19	42408211	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	3504165	42408211	16720772	65	18415											
ZNF610	162963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52857566	52857566	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaggagagagcccttgattCtgcaaagtcaagttaaaata	17	9	9	6	0	2	2	1	1	1	1	2	4	2	3	1	1	2	2	1	1	6	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	52857566	C	T	52857566	2	4	364	1	0	0	0	0	0	0	0	1	18035	912	32	2		2	ZNF610	19	52857566	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	10449355	52857566	6271417	66	18416											
LILRA6	79168	hgsc.bcm.edu	37	chr19	54745508	54745508	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacacccggggggtgtttGtataatagtaatagcatgtg	11	11	12	7	1	0	0	0	0	0	0	0	0	0	0	2	3	1	4	2	3	5	6	rs61734497	byfrequency	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	54745508	G	A	54745508	3	1	364	1	0	0	0	0	1	0	0	0	8789	1377	48	2	863	2	LILRA6	19	54745508	Missense_Mutation	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	1887942	54745508	4383475	67	18417											
LAIR1	3903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54872809	54872809	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagatggagggtctgggCagatcttctaggagggaagc	9	7	18	7	1	3	2	0	0	3	2	3	6	3	5	1	5	1	1	1	5	2	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	54872809	C	T	54872809	2	4	364	1	0	0	0	0	0	0	0	1	8602	697	25	2		2	LAIR1	19	54872809	Silent	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	127301	54872809	4256174	68	18418											
NLRP5	126206	broad.mit.edu;ucsc.edu	37	chr19	56515289	56515289	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaagaagaaatcttcagaAtcgaccacatgctctattcc	15	10	5	11	1	3	3	1	0	2	3	5	4	4	3	2	0	1	1	2	0	6	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	56515289	G	G	56515289	2	3	364	1	0	0	0	0	0	0	0	1	10480	98	4	3		3	NLRP5	19	56515289	Silent	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	1642480	56515289	2613694	69	18419											
PLK1S1	55857	broad.mit.edu	37	chr20	21143767	21143767	+	Frame_Shift_Del	DEL	A	-	-																															cctaagctctcctgattcagAaaaggaatcctccactaacg																								novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		-	21143767	-	-	21143767	7	5	364	1	0	1	0	1	0	0	0	0	12095	246	9	0	1341	0	PLK1S1	20	21143767	Frame_Shift_Del	DEL	A	TCGA-CJ-4643-01A-02D-1386-10		21143767	41881753	70	18420											
ZSWIM3	140831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44506358	44506358	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaggaagggcctgcttgcGtgtaacacctacatggacag	10	9	13	9	1	0	0	0	0	0	0	0	2	0	2	2	3	4	3	2	3	4	4	rs149497744		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	44506358	G	A	44506358	2	1	364	1	0	0	0	0	0	0	0	1	18241	1132	40	1		1	ZSWIM3	20	44506358	Silent	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	23362591	44506358	18519162	71	18421											
VCX2	51480	hgsc.bcm.edu	37	chrX	8138165	8138165	+	Missense_Mutation	SNP	C	C	G																															ctgactcagtggttcttccaCctcgctctcctgactcaggg																								rs1058237	bycluster;byfrequency;by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	8138165	C	G	8138165	3	3	364	1	0	0	0	0	1	0	0	0	17142	507	18	4	95	4	VCX2	23	8138165	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10		8138165	147132395	72	18422	253	3	1	26		4	2	18	N	T_C_A	4.17348e-05
VCX2	51480	hgsc.bcm.edu	37	chrX	8138170	8138170	+	Missense_Mutation	SNP	C	C	G																															tcagtggttcttccacctcgCtctcctgactcagggggtcg																								rs75657421	byfrequency;by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	8138170	C	G	8138170	3	3	364	1	0	0	0	0	1	0	0	0	17142	797	28	4	100	4	VCX2	23	8138170	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	5	8138170	147132390	73	18423	253	3	1	26		4	2	18	N	T_C_A	4.17348e-05
VCX2	51480	hgsc.bcm.edu	37	chrX	8138171	8138171	+	Missense_Mutation	SNP	T	T	C																															cagtggttcttccacctcgcTctcctgactcagggggtcgt																								rs78723459	by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		C	8138171	T	C	8138171	3	2	364	1	0	0	0	0	1	0	0	0	17142	1551	54	3	101	3	VCX2	23	8138171	Missense_Mutation	SNP	T	TCGA-CJ-4643-01A-02D-1386-10	1	8138171	147132389	74	18424	253	3	1	26		4	2	18	N	T_C_A	4.17348e-05
VCX2	51480	hgsc.bcm.edu	37	chrX	8138182	8138182	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcgctctcctgactcAgggggtcgtgctgggtcccc	3	9	12	17	2	2	1	1	1	1	0	6	1	3	1	5	3	1	2	5	3	0	0	rs41305169	by1000genomes	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		G	8138182	A	G	8138182	3	3	364	1	0	0	0	0	1	0	0	0	17142	188	7	3	112	3	VCX2	23	8138182	Missense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	11	8138182	147132378	75	18425			1	26		4	2	18	N	T_C_A	4.17348e-05
WNK3	65267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54319687	54319687	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatcgtttgatttgaggaAtaggctacactgggctgact	9	12	11	9	1	0	3	0	3	0	0	1	4	0	4	1	3	1	3	1	3	3	4	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		T	54319687	A	T	54319687	4	4	364	1	0	0	0	0	0	1	0	0	17378	108	4	5	3699	5	WNK3	23	54319687	Nonsense_Mutation	SNP	A	TCGA-CJ-4643-01A-02D-1386-10	46181505	54319687	100950873	76	18426											
USP51	158880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	55513642	55513642	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagctgtttagtagactcCtggtagctttggcaactatt	8	15	11	7	0	0	2	0	1	0	1	1	2	1	2	1	2	3	6	1	2	5	7	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	55513642	C	A	55513642	3	1	364	1	0	0	0	0	1	0	0	0	17082	680	24	4	408	4	USP51	23	55513642	Missense_Mutation	SNP	C	TCGA-CJ-4643-01A-02D-1386-10	1193955	55513642	99756918	77	18427											
CNGA2	1260	broad.mit.edu;ucsc.edu	37	chrX	150912325	150912325	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtccacttgtccacactcaaGaaagtgcgcatcttccatga	11	10	7	13	1	2	2	1	1	1	1	5	2	5	2	3	0	1	1	3	0	2	2	novel		TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e00e420-94fd-4115-9cd9-cef24f6df0eb	0e427f57-9cae-40dc-9a75-6387da9af195		A	150912325	A	A	150912325	2	1	364	1	0	0	0	0	0	0	0	1	3597	933	33	2		2	CNGA2	23	150912325	Silent	SNP	G	TCGA-CJ-4643-01A-02D-1386-10	95398683	150912325	4358235	78	18428											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11188078	11188078	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccatcatggcctgctggaCcagggtgttgctgtgctcac	6	10	12	13	0	2	0	2	0	0	0	2	1	2	1	3	3	3	4	3	3	0	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	11188078	C	G	11188078	3	3	365	1	0	0	0	0	1	0	0	0	9954	507	18	4	1697	4	MTOR	1	11188078	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		11188078	238062543	1	18429			1	27		2	2	23	C		5.756256e-05
MTOR	2475	broad.mit.edu	37	chr1	11188100	11188100	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgttgctgtgctcacaCatgttcttcagaatcttgtt	7	16	10	8	0	4	1	2	0	2	1	4	1	4	1	0	1	2	5	0	1	1	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	11188100	G	G	11188100	3	3	365	1	0	0	0	0	1	0	0	0	9954	478	17	4	1719	4	MTOR	1	11188100	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	22	11188100	238062521	2	18430			1	27		2	2	23	C		5.756256e-05
HNRNPCL1	343069	hgsc.bcm.edu	37	chr1	12907781	12907781	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaaactgtacattccaTcataataatcccgttgaaag	14	11	7	9	1	1	1	1	1	0	0	3	2	3	2	2	1	2	2	2	1	5	5	rs28441396	byfrequency	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	12907781	T	C	12907781	3	2	365	1	0	0	0	0	1	0	0	0	7263	1435	50	3	521	3	HNRNPCL1	1	12907781	Missense_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	1719681	12907781	236342840	3	18431											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19407977	19407977	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgaaatagtagggcccGtccacttcaaaggcactctc	11	9	9	12	1	2	1	1	1	1	0	4	1	3	1	2	2	0	2	2	2	4	3	rs138176260	bycluster;by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	19407977	G	A	19407977	2	1	365	1	0	0	0	0	0	0	0	1	16903	1136	40	1		1	UBR4	1	19407977	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	6500196	19407977	229842644	4	18432											
CELA3A	10136	hgsc.bcm.edu	37	chr1	22332241	22332241	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatccccatcaactctgAggagctgtttgtgcatccac	8	11	10	12	0	2	2	1	2	1	0	4	3	4	3	3	2	3	3	3	2	1	1	rs75527968		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	22332241	A	G	22332241	3	3	365	1	0	0	0	0	1	0	0	0	3213	304	11	3	328	3	CELA3A	1	22332241	Missense_Mutation	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	2924264	22332241	226918380	5	18433											
SRRM1	10250	broad.mit.edu;hgsc.bcm.edu	37	chr1	24993365	24993365	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggcgacggtctccttctcCcgcccctcctcctcgacggc	4	8	9	20	5	2	0	0	0	2	0	7	2	4	0	6	3	0	0	6	3	1	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	24993365	C	T	24993365	3	4	365	1	0	0	0	0	1	0	0	0	15169	623	22	2	1738	2	SRRM1	1	24993365	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	2661124	24993365	224257256	6	18434											
KDM4A	9682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44159696	44159696	+	Frame_Shift_Del	DEL	C	C	-																															tttcatgtgctgtggcaattCtggaagcaaggtttgtcaac																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		-	44159696	C	-	44159696	7	5	365	1	0	1	0	1	0	0	0	0	8128	912	32	0	2469	0	KDM4A	1	44159696	Frame_Shift_Del	DEL	C	TCGA-CJ-4644-01A-02D-1386-10	19166331	44159696	205090925	7	18435											
NBPF9	400818	broad.mit.edu	37	chr1	144815968	144815968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgacaatgaagatgttcaaGttgaggtggctgagaaagtg	14	10	14	3	0	1	5	1	4	0	2	1	6	1	5	0	2	0	3	0	2	4	2	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	144815968	A	A	144815968	3	1	365	1	0	0	0	0	1	0	0	0	10199	1029	36	2	1371	2	NBPF9	1	144815968	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	100656272	144815968	104434653	8	18436											
FLG2	388698	broad.mit.edu;hgsc.bcm.edu	37	chr1	152330075	152330075	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatcttctgtcatgatctcGatccagcatatgcatgatga	11	13	7	10	1	4	3	1	3	3	0	6	4	5	3	1	0	2	2	1	0	2	2	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	152330075	G	A	152330075	4	1	365	1	0	0	0	0	0	1	0	0	5923	1066	37	1	6992	1	FLG2	1	152330075	Nonsense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	7514107	152330075	96920546	9	18437											
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu	37	chr1	201036117	201036117	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaaggctccgtaggtcGtcatctggggagaaagaggc	10	6	17	8	2	2	2	1	0	1	2	4	4	3	3	1	6	0	3	1	6	3	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	201036117	G	A	201036117	3	1	365	1	0	0	0	0	1	0	0	0	2547	1145	40	1	3166	1	CACNA1S	1	201036117	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	48706042	201036117	48214504	10	18438											
HHIPL2	79802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222705449	222705449	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcctgcaaagccataaGtcgactagacaaaaaataaa	19	8	5	9	1	1	1	0	0	1	1	3	2	2	1	2	0	2	1	2	0	8	4	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	222705449	G	T	222705449	3	4	365	1	0	0	0	0	1	0	0	0	7094	1029	36	4	608	4	HHIPL2	1	222705449	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	21669332	222705449	26545172	11	18439											
ZP4	57829	broad.mit.edu;ucsc.edu	37	chr1	238045723	238045723	+	Nonstop_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggaatacactctggtttTattgacacatttggtctggg	8	15	11	7	0	2	1	0	1	2	0	2	2	2	2	0	4	1	1	0	4	3	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	238045723	A	A	238045723	4	1	365	1	0	0	0	0	0	0	0	0	18217	1761	61	5	4	5	ZP4	1	238045723	Nonstop_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	15340274	238045723	11204898	12	18440											
PUM2	23369	broad.mit.edu;ucsc.edu	37	chr2	20451396	20451396	+	Missense_Mutation	SNP	T	A	A																															aggtcctaggtccgggctatTcttcaaataatacttttcca																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	20451396	A	A	20451396	3	1	365	1	0	0	0	0	1	0	0	0	12828	1783	62	5	53	5	PUM2	2	20451396	Missense_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10		20451396	222747977	13	18441	254	2									
PUM2	23369	broad.mit.edu;ucsc.edu	37	chr2	20451397	20451397	+	Silent	SNP	C	T	T																															ggtcctaggtccgggctattCttcaaataatacttttccaa																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	20451397	T	T	20451397	2	4	365	1	0	0	0	0	0	0	0	1	12828	912	32	2		2	PUM2	2	20451397	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	1	20451397	222747976	14	18442	254	2									
MPHOSPH10	10199	broad.mit.edu;hgsc.bcm.edu	37	chr2	71360677	71360677	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgattctgatgaagatgaaGggggactgtttggaagtaaa	13	12	14	2	0	1	5	0	4	1	1	1	7	1	7	0	3	0	2	0	3	5	4	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	71360677	G	T	71360677	3	4	365	1	0	0	0	0	1	0	0	0	9725	1000	35	4	745	4	MPHOSPH10	2	71360677	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	50909280	71360677	171838696	15	18443											
LIMS1	3987	broad.mit.edu	37	chr2	109293101	109293101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaaaccctttcttggaCatcgccattatgagaggaaa	13	10	10	8	1	1	2	0	2	1	2	2	6	1	4	2	2	1	0	2	2	3	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	109293101	T	T	109293101	3	4	365	1	0	0	0	0	1	0	0	0	8803	478	17	2	707	2	LIMS1	2	109293101	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	37932424	109293101	133906272	16	18444											
HOXD3	3232	broad.mit.edu;ucsc.edu	37	chr2	177033940	177033940	+	Missense_Mutation	SNP	G	C	C																															aggactgtttggaggctatgGctacagcaaaactacggaca																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	177033940	C	C	177033940	3	2	365	1	0	0	0	0	1	0	0	0	7323	1203	42	4	100	4	HOXD3	2	177033940	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	67740839	177033940	66165433	17	18445	255	2									
HOXD3	3232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	177033941	177033941	+	Silent	SNP	C	C	T																															ggactgtttggaggctatggCtacagcaaaactacggacac																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	177033941	C	T	177033941	2	4	365	1	0	0	0	0	0	0	0	1	7323	784	28	2		2	HOXD3	2	177033941	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	1	177033941	66165432	18	18446	255	2									
TTN	7273	broad.mit.edu	37	chr2	179437576	179437576	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggtcagcatccagttcaAtttctggaggcagcattctg	9	11	11	10	0	4	0	2	0	2	0	5	1	5	1	1	3	2	5	1	3	1	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	179437576	G	G	179437576	3	3	365	1	0	0	0	0	1	0	0	0	16734	101	4	3	34844	3	TTN	2	179437576	Missense_Mutation	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	2403635	179437576	63761797	19	18447											
TTN	7273	broad.mit.edu;hgsc.bcm.edu	37	chr2	179449638	179449638	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgtgccatgacagggagCaagcatcagcgtctatatca	12	8	12	9	1	3	1	2	1	1	0	3	3	3	3	1	2	4	2	1	2	3	2	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	179449638	C	T	179449638	3	4	365	1	0	0	0	0	1	0	0	0	16734	710	25	2	43461	2	TTN	2	179449638	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	12062	179449638	63749735	20	18448											
OBSL1	23363	broad.mit.edu;hgsc.bcm.edu	37	chr2	220428159	220428159	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagggctgggtggcgggCagcaccaggcggcgatgggg	5	5	22	9	3	1	1	0	1	1	0	1	2	1	1	1	8	1	3	1	8	0	0	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	220428159	C	A	220428159	2	1	365	1	0	0	0	0	0	0	0	1	10813	697	25	4		4	OBSL1	2	220428159	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	40978521	220428159	22771214	21	18449											
RBM44	375316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238733023	238733023	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcagggacacagggaaatCaagtagaacaagacacatgg	17	5	11	8	0	2	2	2	0	1	2	3	4	2	4	0	3	1	1	0	3	5	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	238733023	C	T	238733023	4	4	365	1	0	0	0	0	0	1	0	0	13140	827	29	2	2447	2	RBM44	2	238733023	Nonsense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	18304864	238733023	4466350	22	18450											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191485	10191485	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagtgtatactctgaaaGagcgatgcctccaggttgtc	9	12	10	10	1	1	2	0	1	1	1	4	3	3	2	3	1	3	2	3	1	3	4	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	10191485	G	T	10191485	4	4	365	1	0	0	0	0	0	1	0	0	17161	943	33	4	488	4	VHL	3	10191485	Nonsense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10		10191485	187830945	23	18451											
EOMES	8320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	27760303	27760303	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggtctttgagggctcatTcaagtcctccacgccatcct	6	12	9	14	1	3	1	2	1	1	0	6	1	6	1	4	2	0	1	4	2	1	2	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	27760303	T	G	27760303	3	3	365	1	0	0	0	0	1	0	0	0	5147	1783	62	5	832	5	EOMES	3	27760303	Missense_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	17568818	27760303	170262127	24	18452											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52702662	52702662	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cataatagtctggttgatttCtgttataatttaaatttttt	11	22	5	3	0	2	1	0	1	2	0	2	1	2	1	0	1	0	2	0	1	6	11	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	52702662	C	T	52702662	5	4	365	1	0	0	0	0	0	0	1	0	11491	927	32	2	4776	2	PBRM1	3	52702662	Splice_Site	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	24942359	52702662	145319768	25	18453											
PDZRN3	23024	broad.mit.edu;hgsc.bcm.edu	37	chr3	73432856	73432856	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcggtggtcatgccgctgCgctcttcccggatcttcagg	3	11	13	14	5	4	0	2	0	2	0	6	1	5	1	2	4	2	2	2	4	0	2	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	73432856	C	A	73432856	3	1	365	1	0	0	0	0	1	0	0	0	11709	768	27	4	343	4	PDZRN3	3	73432856	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	20730194	73432856	124589574	26	18454											
ISY1	57461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128848936	128848936	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctgggtcctaataccccagGagccttctggcttcttcact	6	12	9	14	0	3	0	1	0	2	0	4	1	4	1	4	3	2	2	4	3	2	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	128848936	G	A	128848936	2	1	365	1	0	0	0	0	0	0	0	1	7866	1161	41	2		2	ISY1	3	128848936	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	55416080	128848936	69173494	27	18455											
C3orf72	401089	hgsc.bcm.edu;ucsc.edu	37	chr3	138668458	138668467	+	Frame_Shift_Del	DEL	GGCATTCGAA	GGCATTCGAA	-																															gtgccttcacatggctgtccGgcattcgaaggctcagaaaa																								rs141282655	by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	GGCATTCGAA	GGCATTCGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		-	138668467	GGCATTCGAA	-	138668458	7	5	365	1	0	1	0	1	0	0	0	0	2244	1116	39	0	203	0	C3orf72	3	138668458	Frame_Shift_Del	DEL	GGCATTCGAA	TCGA-CJ-4644-01A-02D-1386-10	9819522	138668458	59353972	28	18456											
TMEM41A	90407	hgsc.bcm.edu	37	chr3	185212513	185212513	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggaaaagtctcaaaaacaAtaagaaaaaaaacaagctgt	23	5	8	5	0	1	1	1	0	1	1	2	2	1	2	0	2	3	1	0	2	11	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	185212513	A	G	185212513	2	3	365	1	0	0	0	0	0	0	0	1	16163	98	4	3		3	TMEM41A	3	185212513	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	46544055	185212513	12809917	29	18457											
MUC4	4585	hgsc.bcm.edu	37	chr3	195513445	195513445	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtggatgctgaggaagtgCtggtgacaggaagaggggtg	9	7	21	4	1	0	3	0	2	0	1	0	6	0	6	0	7	2	2	0	7	2	0	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	195513445	C	T	195513445	3	4	365	1	0	0	0	0	1	0	0	0	9978	797	28	2		2	MUC4	3	195513445	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	10300932	195513445	2508985	30	18458			2	28		5	3	1582	N	T_G_C_A	8.527498e-06
MUC4	4585	broad.mit.edu;hgsc.bcm.edu	37	chr3	195513539	195513539	+	Missense_Mutation	SNP	C	C	G																															acctgtggataatgaggaagCattggtgacaggaagagggg																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	195513539	C	G	195513539	3	3	365	1	0	0	0	0	1	0	0	0	9978	710	25	4		4	MUC4	3	195513539	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	94	195513539	2508891	31	18459	256	3	2	28		5	3	1582	N	T_G_C_A	8.527498e-06
MUC4	4585	broad.mit.edu;hgsc.bcm.edu	37	chr3	195513540	195513540	+	Silent	SNP	A	A	G																															cctgtggataatgaggaagcAttggtgacaggaagaggggt																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	195513540	A	G	195513540	2	3	365	1	0	0	0	0	0	0	0	1	9978	214	8	3		3	MUC4	3	195513540	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	1	195513540	2508890	32	18460	256	3	2	28		5	3	1582	N	T_G_C_A	8.527498e-06
MUC4	4585	broad.mit.edu;hgsc.bcm.edu	37	chr3	195513541	195513541	+	Missense_Mutation	SNP	T	T	C																															ctgtggataatgaggaagcaTtggtgacaggaagaggggtg																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	195513541	T	C	195513541	3	2	365	1	0	0	0	0	1	0	0	0	9978	1493	52	3		3	MUC4	3	195513541	Missense_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	1	195513541	2508889	33	18461	256	3	2	28		5	3	1582	N	T_G_C_A	8.527498e-06
MUC4	4585	broad.mit.edu;hgsc.bcm.edu	37	chr3	195515026	195515026	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgtggatactgaggaaGtgtcggtgacaggaagagag	12	7	17	5	1	0	3	0	2	0	1	1	8	0	6	1	4	1	0	1	4	3	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	195515026	G	C	195515026	3	2	365	1	0	0	0	0	1	0	0	0	9978	1029	36	4		4	MUC4	3	195515026	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	1485	195515026	2507404	34	18462			2	28		5	3	1582	N	T_G_C_A	8.527498e-06
PCDHA6	56142	broad.mit.edu;hgsc.bcm.edu	37	chr5	140209499	140209499	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctacaacgcgtggctttCgtatgagctgcagcccccgg	7	8	13	13	4	0	1	0	1	0	0	1	1	0	1	2	3	5	5	2	3	3	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	140209499	C	T	140209499	3	4	365	1	0	0	0	0	1	0	0	0	11528	893	31	1	1825	1	PCDHA6	5	140209499	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		140209499	40705761	35	18463											
ZNF354A	6940	hgsc.bcm.edu;ucsc.edu	37	chr5	178139394	178139394	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttcccacactcgttacaTttatagggtctttctccagt	7	17	6	11	1	2	0	0	0	2	0	5	0	3	0	2	1	1	2	2	1	3	7	rs191516498	by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	178139394	T	C	178139394	2	2	365	1	0	0	0	0	0	0	0	1	17863	1490	52	3		3	ZNF354A	5	178139394	Silent	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	37929895	178139394	2775866	36	18464											
SLC35B3	51000	broad.mit.edu;hgsc.bcm.edu	37	chr6	8422813	8422813	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtttgataaccccatagtaCccacagttagaaaagctatt	14	12	6	9	0	0	2	0	1	0	1	0	2	0	2	3	0	3	4	3	0	7	7	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	8422813	C	T	8422813	3	4	365	1	0	0	0	0	1	0	0	0	14579	507	18	2	769	2	SLC35B3	6	8422813	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		8422813	162692254	37	18465											
TCP11	6954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35086049	35086049	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctgagccgacgctatcaAacagactccacttttgtttc	9	12	7	13	2	2	2	1	1	1	1	4	3	3	2	2	0	2	3	2	0	2	4	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	35086049	A	G	35086049	2	3	365	1	0	0	0	0	0	0	0	1	15712	1	1	3		3	TCP11	6	35086049	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	26663236	35086049	136029018	38	18466											
KLHL31	401265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	53516418	53516418	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatactgactggcacagaaGataccgaactggcccgggat	13	6	12	10	2	0	4	0	1	0	3	0	6	0	5	2	3	3	1	2	3	4	2	rs12204882	alternate_allele	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	53516418	G	T	53516418	3	4	365	1	0	0	0	0	1	0	0	0	8385	942	33	4	25	4	KLHL31	6	53516418	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	18430369	53516418	117598649	39	18467											
PILRB	29990	hgsc.bcm.edu	37	chr7	99956439	99956439	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctgggagttagccatagTtcccaacgtgagaatatcct	10	10	9	12	1	0	1	0	1	0	1	2	3	2	2	5	1	2	2	5	1	5	4	rs35986051	byfrequency;by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	99956439	T	C	99956439	3	2	365	1	0	0	0	0	1	0	0	0	11926	1725	60	3	197	3	PILRB	7	99956439	Missense_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10		99956439	59182224	40	18468											
SLC26A4	5172	broad.mit.edu;hgsc.bcm.edu	37	chr7	107329537	107329537	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgtgagcttgttctcGgagatgctggctgcatcatt	6	13	11	11	1	2	2	1	1	1	1	3	3	2	2	2	2	3	5	2	2	0	3	rs140778437		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	107329537	G	A	107329537	2	1	365	1	0	0	0	0	0	0	0	1	14521	1103	39	1		1	SLC26A4	7	107329537	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	7373098	107329537	51809126	41	18469											
CDCA2	157313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	25364809	25364809	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttaaagatttgtctgatgCcattgagcaaacctttcaga	12	14	8	7	0	2	4	1	2	1	2	2	4	2	4	2	0	3	2	2	0	3	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	25364809	C	T	25364809	3	4	365	1	0	0	0	0	1	0	0	0	3086	739	26	2	2681	2	CDCA2	8	25364809	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		25364809	120999213	42	18470											
NKAIN3	286183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	63902748	63902748	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgtgatctgcaagtatGcaaacatctttttatccaga	12	15	6	8	0	3	2	1	1	2	1	4	2	4	2	1	0	3	3	1	0	4	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	63902748	G	T	63902748	3	4	365	1	0	0	0	0	1	0	0	0	10437	1319	46	4	576	4	NKAIN3	8	63902748	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	38537939	63902748	82461274	43	18471											
PABPC1	26986	hgsc.bcm.edu	37	chr8	101718965	101718965	+	Missense_Mutation	SNP	G	G	A																															tttatactgtggaacggtgcGgacagcaggagtagctgcag																								rs62513921	bycluster	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	101718965	G	A	101718965	3	1	365	1	0	0	0	0	1	0	0	0	11363	1116	39	1	410	1	PABPC1	8	101718965	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	37816217	101718965	44645057	44	18472	257	2									
PABPC1	26986	hgsc.bcm.edu	37	chr8	101718968	101718968	+	Missense_Mutation	SNP	C	C	T																															atactgtggaacggtgcggaCagcaggagtagctgcagcgg																								rs62513922	bycluster	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	101718968	C	T	101718968	3	4	365	1	0	0	0	0	1	0	0	0	11363	478	17	2	413	2	PABPC1	8	101718968	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	3	101718968	44645054	45	18473	257	2									
PRSS3	5646	hgsc.bcm.edu	37	chr9	33798079	33798079	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaacactctgagctttggTggtgagtgggaccctttgtc	6	12	14	9	0	1	2	0	2	1	0	2	3	1	3	1	4	2	2	1	4	1	2	rs144845866	byfrequency	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	33798079	T	C	33798079	2	2	365	1	0	0	0	0	0	0	0	1	12624	1710	59	3		3	PRSS3	9	33798079	Silent	SNP	T	TCGA-CJ-4644-01A-02D-1386-10		33798079	107415352	46	18474											
PRUNE2	158471	hgsc.bcm.edu;ucsc.edu	37	chr9	79323220	79323220	+	Frame_Shift_Del	DEL	T	T	-																															ggcttccttctcactttcacTttgtccatcgccatgacctt																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		-	79323220	T	-	79323220	7	5	365	1	0	1	0	1	0	0	0	0	12643	1609	56	0	5344	0	PRUNE2	9	79323220	Frame_Shift_Del	DEL	T	TCGA-CJ-4644-01A-02D-1386-10	45525141	79323220	61890211	47	18475											
MED27	9442	broad.mit.edu	37	chr9	134735980	134735980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcggaaatccctccatgtcGggggaaggccgtcctgcaga	8	8	13	12	3	0	1	0	0	0	1	5	3	3	3	4	4	1	1	4	4	2	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	134735980	A	A	134735980	3	1	365	1	0	0	0	0	1	0	0	0	9445	1116	39	1	58	1	MED27	9	134735980	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	55412760	134735980	6477451	48	18476											
PTCHD3	374308	broad.mit.edu;hgsc.bcm.edu	37	chr10	27702370	27702370	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttgttcacctgccaggcGtacaggatcgggttgggggg	5	11	17	8	2	1	0	1	0	0	0	2	1	1	1	2	6	2	4	2	6	1	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	27702370	G	A	27702370	2	1	365	1	0	0	0	0	0	0	0	1	12736	1140	40	1		1	PTCHD3	10	27702370	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10		27702370	107832377	49	18477											
MUC2	4583	broad.mit.edu;hgsc.bcm.edu	37	chr11	1093272	1093272	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accggcacacagaccccaacAtcgacacccatcaccaccac	14	2	4	21	2	1	1	1	0	0	1	2	2	1	1	6	1	1	1	6	1	1	0	rs56230143		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	1093272	A	C	1093272	2	2	365	1	0	0	0	0	0	0	0	1	9975	204	8	5		5	MUC2	11	1093272	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10		1093272	133913244	50	18478											
MUC2	4583	hgsc.bcm.edu	37	chr11	1093569	1093569	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacacccatcaccaccacAactacggtgaccgcaacccc	12	4	6	19	2	1	2	1	2	0	0	1	2	1	2	6	1	3	1	6	1	3	1	rs72842460	bycluster;byfrequency;by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	1093569	A	C	1093569	2	2	365	1	0	0	0	0	0	0	0	1	9975	117	5	5		5	MUC2	11	1093569	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	297	1093569	133912947	51	18479											
INSC	387755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	15222420	15222420	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccggcaggacagtttccgGtgcttgtacccccaggcgct	5	9	13	14	3	0	0	0	0	0	0	1	1	1	1	4	4	3	5	4	4	1	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	15222420	G	C	15222420	2	2	365	1	0	0	0	0	0	0	0	1	7764	1248	44	4		4	INSC	11	15222420	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	14128851	15222420	119784096	52	18480											
ARL2	402	broad.mit.edu;hgsc.bcm.edu	37	chr11	64786159	64786159	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacagcgcagaccgccagcGcatgcaggactgccagcggg	9	2	16	14	4	0	1	0	0	0	1	0	3	0	3	3	3	5	3	3	3	0	0	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	64786159	G	A	64786159	3	1	365	1	0	0	0	0	1	0	0	0	933	1087	38	1	303	1	ARL2	11	64786159	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	49563739	64786159	70220357	53	18481											
FAM86C	0	hgsc.bcm.edu	37	chr11	71504464	71504464	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcctttggatgagctgtaCgaggtgctggtggagaccct	7	10	16	8	1	0	2	0	1	0	1	0	6	0	3	2	4	4	3	2	4	1	2	rs139287982	by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	71504464	C	T	71504464	2	4	365	1	0	0	0	0	0	0	0	1	5646	547	19	1		1	FAM86C	11	71504464	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	6718305	71504464	63502052	54	18482											
DIXDC1	85458	hgsc.bcm.edu;ucsc.edu	37	chr11	111835364	111835365	+	Frame_Shift_Ins	INS	-	-	C																															gacctgcgacaagatctccgINSggatggggtgatcctggcat																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	111835365	-	C	111835364	7	5	365	1	0	1	1	0	0	0	0	0	4541	1116	39	0	158	0	DIXDC1	11	111835364	Frame_Shift_Ins	INS	-	TCGA-CJ-4644-01A-02D-1386-10	40330900	111835364	23171152	55	18483	258	2									
DIXDC1	85458	hgsc.bcm.edu	37	chr11	111835369	111835369	+	Frame_Shift_Del	DEL	G	G	-																															tgcgacaagatctccgggatGgggtgatcctggcatatctc																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		-	111835369	G	-	111835369	7	5	365	1	0	1	0	1	0	0	0	0	4541	1348	47	0	163	0	DIXDC1	11	111835369	Frame_Shift_Del	DEL	G	TCGA-CJ-4644-01A-02D-1386-10	5	111835369	23171147	56	18484	258	2									
PYROXD1	79912	broad.mit.edu;hgsc.bcm.edu	37	chr12	21621622	21621622	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacctaatcttaaaccaaatGaatctttcatcatatggaga	17	12	4	8	0	4	2	2	1	2	1	4	3	4	2	2	1	2	0	2	1	7	4	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	21621622	G	C	21621622	3	2	365	1	0	0	0	0	1	0	0	0	12868	1290	45	4	1483	4	PYROXD1	12	21621622	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10		21621622	112230273	57	18485											
IPO8	10526	hgsc.bcm.edu	37	chr12	30790090	30790090	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caattccaaaaggatactcaGtcctattatacacatcttcc	14	12	3	12	0	2	0	1	0	1	0	5	1	5	1	3	1	2	0	3	1	7	6	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	30790090	G	T	30790090	3	4	365	1	0	0	0	0	1	0	0	0	7798	1020	36	4	608	4	IPO8	12	30790090	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	9168468	30790090	103061805	58	18486											
GXYLT1	283464	hgsc.bcm.edu	37	chr12	42512967	42512967	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaggctgtattttcagActgtacctaataggaaagaa	15	11	8	7	0	2	2	2	0	0	2	2	3	2	3	1	2	2	3	1	2	7	6	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	42512967	A	T	42512967	3	4	365	1	0	0	0	0	1	0	0	0	6903	272	10	5	1025	5	GXYLT1	12	42512967	Missense_Mutation	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	11722877	42512967	91338928	59	18487											
FRY	10129	broad.mit.edu;hgsc.bcm.edu	37	chr13	32776165	32776165	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatttatgaaatctccatGcagctcatgcaggcacgtat	12	11	9	9	1	2	2	1	1	1	1	3	3	2	2	1	1	3	5	1	1	3	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	32776165	G	T	32776165	3	4	365	1	0	0	0	0	1	0	0	0	6063	1319	46	4	3952	4	FRY	13	32776165	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10		32776165	82393713	60	18488											
COG3	83548	broad.mit.edu;hgsc.bcm.edu	37	chr13	46054427	46054427	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagctcctaaaagaacaggTaatttggagtaagagagagg	17	7	12	5	0	0	3	0	0	0	3	1	5	1	4	1	3	2	3	1	3	5	4	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	46054427	T	C	46054427	5	2	365	1	0	0	0	0	0	0	1	0	3659	1652	57	3	565	3	COG3	13	46054427	Splice_Site	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	13278262	46054427	69115451	61	18489											
SLC7A8	23428	broad.mit.edu	37	chr14	23635685	23635685	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacgatgagagcaaggccCacagaaccagcattctccag	14	4	10	13	1	1	3	0	1	1	3	2	5	1	3	3	1	3	2	3	1	2	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	23635685	A	A	23635685	2	1	365	1	0	0	0	0	0	0	0	1	14706	581	21	4		4	SLC7A8	14	23635685	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		23635685	83713855	62	18490											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64408465	64408465	+	Frame_Shift_Del	DEL	A	A	-																															cacagacattaaaaaggggcAtgtcctcctggatctgctag																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		-	64408465	A	-	64408465	7	5	365	1	0	1	0	1	0	0	0	0	15445	217	8	0	204	0	SYNE2	14	64408465	Frame_Shift_Del	DEL	A	TCGA-CJ-4644-01A-02D-1386-10	40772780	64408465	42941075	63	18491											
ATG2B	55102	broad.mit.edu;hgsc.bcm.edu	37	chr14	96789012	96789012	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcattctcctcttcttcTtcagctgcaattctctccaa	7	16	2	16	0	7	0	2	0	5	0	10	0	8	0	3	0	2	2	3	0	2	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	96789012	T	G	96789012	3	3	365	1	0	0	0	0	1	0	0	0	1094	1606	56	5	3739	5	ATG2B	14	96789012	Missense_Mutation	SNP	T	TCGA-CJ-4644-01A-02D-1386-10	32380547	96789012	10560528	64	18492											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105416367	105416367	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcggccagggacaggtcAccctccagccgcacactgtc	7	7	11	16	2	1	0	1	0	0	0	4	1	2	1	4	3	1	1	4	3	0	1	rs34605366	bycluster;byfrequency;by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	105416367	A	C	105416367	2	2	365	1	0	0	0	0	0	0	0	1	415	146	6	5		5	AHNAK2	14	105416367	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	8627355	105416367	1933173	65	18493											
AHNAK2	113146	hgsc.bcm.edu	37	chr14	105416839	105416839	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtctttggcagtcaccGccttgtcggccagggacagg	5	10	14	12	2	2	0	1	0	1	0	3	1	2	1	3	4	1	2	3	4	0	2	rs145693791	by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	105416839	G	T	105416839	3	4	365	1	0	0	0	0	1	0	0	0	415	1087	38	4	12442	4	AHNAK2	14	105416839	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	472	105416839	1932701	66	18494											
JMJD7	100137047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42128715	42128715	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagctaactgaagagggcaCctttaaggtggtggatgaag	12	8	14	7	0	0	3	0	2	0	1	0	4	0	4	2	4	2	2	2	4	4	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	42128715	C	T	42128715	3	4	365	1	0	0	0	0	1	0	0	0	7954	507	18	2	690	2	JMJD7	15	42128715	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		42128715	60402677	67	18495											
OR4F15	390649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	102358604	102358604	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcaatcattgatatggCattttgctcaattacagccc	10	14	5	12	0	3	1	3	1	1	0	4	1	3	1	2	1	3	2	2	1	4	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	102358604	C	T	102358604	3	4	365	1	0	0	0	0	1	0	0	0	11061	710	25	2	217	2	OR4F15	15	102358604	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	60229889	102358604	172788	68	18496											
MMP25	64386	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3100414	3100414	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctcatcgactttgcccgCgccttccaccaggacagcta	8	9	7	17	3	1	0	1	0	0	0	4	2	3	1	5	1	2	1	5	1	1	3	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	3100414	C	T	3100414	2	4	365	1	0	0	0	0	0	0	0	1	9662	755	27	1		1	MMP25	16	3100414	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		3100414	87254339	69	18497											
ATP2A1	487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28913241	28913241	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgagattggcattgccAtgggatctggcactgccgtg	7	10	15	9	1	1	1	0	1	1	1	1	3	1	2	2	4	2	3	2	4	0	2	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	28913241	A	T	28913241	3	4	365	1	0	0	0	0	1	0	0	0	1136	217	8	5	2220	5	ATP2A1	16	28913241	Missense_Mutation	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	25812827	28913241	61441512	70	18498											
COG4	25839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	70548368	70548368	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatccatgcagaacttcagGtccaagatgtcatcagctct	11	10	7	13	0	4	2	3	0	1	2	6	2	6	2	3	1	3	2	3	1	2	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	70548368	G	C	70548368	3	2	365	1	0	0	0	0	1	0	0	0	3660	1252	44	4	2019	4	COG4	16	70548368	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	41635127	70548368	19806385	71	18499											
SLC7A5	8140	hgsc.bcm.edu	37	chr16	87885388	87885388	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagggccaggagcttggcGgcggcaaaggcatcctggac	8	4	17	12	2	0	0	0	0	0	0	1	2	1	2	3	7	1	3	3	7	1	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	87885388	G	A	87885388	2	1	365	1	0	0	0	0	0	0	0	1	14702	1103	39	1		1	SLC7A5	16	87885388	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	17337020	87885388	2469365	72	18500											
KRTAP4-8	728224	hgsc.bcm.edu	37	chr17	39254247	39254247	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgcagcaggtggtctgAcagcagctggggcagcagca	8	6	16	11	0	1	1	0	1	1	0	2	1	2	1	1	4	6	7	1	4	0	0	rs137943557	by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	39254247	A	T	39254247	4	4	365	1	0	0	0	0	0	1	0	0	8556	273	10	5	471	5	KRTAP4-8	17	39254247	Nonsense_Mutation	SNP	A	TCGA-CJ-4644-01A-02D-1386-10		39254247	41940963	73	18501											
FMNL1	752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	43323619	43323619	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagatggacctcatctctGagctgaaacggaggcagcag	12	6	12	11	1	2	3	1	2	1	1	3	5	2	5	1	3	3	3	1	3	1	0	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	43323619	G	T	43323619	4	4	365	1	0	0	0	0	0	1	0	0	5951	1291	45	4	3231	4	FMNL1	17	43323619	Nonsense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	4069372	43323619	37871591	74	18502											
NEDD4L	23327	broad.mit.edu;hgsc.bcm.edu	37	chr18	56033230	56033230	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcttttgtcttttgtgtaGgctgatatccccaataggtt	6	20	8	7	0	2	1	0	1	2	0	3	1	3	1	2	2	0	3	2	2	4	9	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	56033230	G	A	56033230	5	1	365	1	0	0	0	0	0	0	1	0	10311	1014	35	2	1943	2	NEDD4L	18	56033230	Splice_Site	SNP	G	TCGA-CJ-4644-01A-02D-1386-10		56033230	22044018	75	18503											
PLIN4	729359	hgsc.bcm.edu;ucsc.edu	37	chr19	4511491	4511491	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagacagtgtccttggtAccggtcagcacggtcttggc	6	10	13	12	2	2	1	1	0	1	1	3	1	3	1	2	4	3	3	2	4	1	3	rs10423324	bycluster;byfrequency	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	4511491	A	G	4511491	2	3	365	1	0	0	0	0	0	0	0	1	12092	378	14	3		3	PLIN4	19	4511491	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10		4511491	54617492	76	18504											
PLIN4	729359	hgsc.bcm.edu	37	chr19	4512945	4512945	+	Missense_Mutation	SNP	C	C	T																															tttggccacattcatggcacCagtcaccccactacagacgg																								rs75031432	bycluster;byfrequency	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	4512945	C	T	4512945	3	4	365	1	0	0	0	0	1	0	0	0	12092	594	21	2	3104	2	PLIN4	19	4512945	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	1454	4512945	54616038	77	18505	259	2									
PLIN4	729359	hgsc.bcm.edu	37	chr19	4512946	4512946	+	Silent	SNP	A	A	G																															ttggccacattcatggcaccAgtcaccccactacagacggt																								rs79662071	byfrequency	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	4512946	A	G	4512946	2	3	365	1	0	0	0	0	0	0	0	1	12092	175	7	3		3	PLIN4	19	4512946	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	1	4512946	54616037	78	18506	259	2									
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9089241	9089241	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccactagtaaatagAtgagtggaaggagtagatga	14	11	11	5	0	2	4	0	2	2	2	3	6	2	6	1	2	0	2	1	2	6	5	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		C	9089241	A	C	9089241	3	2	365	1	0	0	0	0	1	0	0	0	9973	330	12	5	41285	5	MUC16	19	9089241	Missense_Mutation	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	4576295	9089241	50039742	79	18507											
LPHN1	22859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14268697	14268697	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcaccagccagcttacgatCtcacggtgagccatgagcac	11	6	10	14	2	1	2	1	2	1	0	2	3	1	2	3	1	6	3	3	1	1	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	14268697	C	G	14268697	3	3	365	1	0	0	0	0	1	0	0	0	8915	912	32	4	1921	4	LPHN1	19	14268697	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	5179456	14268697	44860286	80	18508											
SBSN	374897	hgsc.bcm.edu	37	chr19	36018434	36018434	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcatttccggcctgcccCgcagcatggtgggccccctg	3	8	12	18	2	1	0	1	0	0	0	2	0	2	0	7	3	2	2	7	3	0	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	36018434	C	T	36018434	2	4	365	1	0	0	0	0	0	0	0	1	13866	639	23	1		1	SBSN	19	36018434	Silent	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	21749737	36018434	23110549	81	18509											
FCGBP	8857	broad.mit.edu	37	chr19	40363154	40363154	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaaggggctggggatggaCatgaggaggtgggcatcgcc	8	5	21	7	2	0	1	0	1	0	0	1	5	0	5	1	9	0	2	1	9	1	0	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	40363154	A	A	40363154	3	1	365	1	0	0	0	0	1	0	0	0	5778	478	17	4	1321	4	FCGBP	19	40363154	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10	4344720	40363154	18765829	82	18510											
GNAS	2778	hgsc.bcm.edu	37	chr20	57428889	57428889	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttgctccaggaggcccagGtgctgcaggggtccccggag	5	6	16	14	1	0	0	0	0	0	0	2	2	2	2	5	6	3	3	5	6	0	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	57428889	G	A	57428889	3	1	365	1	0	0	0	0	1	0	0	0	6510	1261	44	2	1313	2	GNAS	20	57428889	Missense_Mutation	SNP	G	TCGA-CJ-4644-01A-02D-1386-10		57428889	5596631	83	18511											
ADRM1	11047	hgsc.bcm.edu;ucsc.edu	37	chr20	60883769	60883770	+	In_Frame_Ins	INS	-	-	GACACGAAG																															agcccgagcagaaagagggcINSgacacgaaggacaagaagga																								novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		GACACGAAG	60883770	-	GACACGAAG	60883769	7	5	365	1	0	1	1	0	0	0	0	0	345	755	27	0	1210	0	ADRM1	20	60883769	In_Frame_Ins	INS	-	TCGA-CJ-4644-01A-02D-1386-10	3454880	60883769	2141751	84	18512											
VCX2	51480	hgsc.bcm.edu	37	chrX	8138170	8138170	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtggttcttccacctcgCtctcctgactcagggggtcg	4	12	11	14	2	4	1	2	1	2	0	8	1	5	1	3	3	0	2	3	3	0	2	rs75657421	byfrequency;by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	8138170	C	G	8138170	3	3	365	1	0	0	0	0	1	0	0	0	17142	797	28	4	100	4	VCX2	23	8138170	Missense_Mutation	SNP	C	TCGA-CJ-4644-01A-02D-1386-10		8138170	147132390	85	18513											
TCEAL3	85012	hgsc.bcm.edu	37	chrX	102864334	102864334	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaaagcaaaaagaaaaacGgacagggggacggacgattc	18	2	14	7	4	0	1	0	0	0	1	1	6	0	5	0	5	2	1	0	5	5	1	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		A	102864334	G	A	102864334	2	1	365	1	0	0	0	0	0	0	0	1	15671	1103	39	1		1	TCEAL3	23	102864334	Silent	SNP	G	TCGA-CJ-4644-01A-02D-1386-10	94726164	102864334	52406226	86	18514											
ALG13	79868	hgsc.bcm.edu	37	chrX	110987996	110987996	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccaccaccaccaccAcctcctcctcctcctcctcc	7	6	0	28	0	0	0	0	0	0	0	6	0	6	0	14	0	0	0	14	0	0	0	novel		TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		T	110987996	A	T	110987996	2	4	365	1	0	0	0	0	0	0	0	1	515	146	6	5		5	ALG13	23	110987996	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	8123662	110987996	44282564	87	18515											
CXorf40B	541578	hgsc.bcm.edu	37	chrX	149102006	149102006	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgctggctgctcagcagAggacgccagcgcgtctccac	6	7	12	16	4	2	1	1	0	1	1	4	2	3	2	3	2	3	4	3	2	0	1	rs626113	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-CJ-4644-01A-02D-1386-10	TCGA-CJ-4644-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2f2888fb-ae20-4347-87dc-f0eeeeb9b0d5	2c245ee8-d654-497e-b55f-6ecaf733379d		G	149102006	A	G	149102006	2	3	365	1	0	0	0	0	0	0	0	1	4109	291	11	3		3	CXorf40B	23	149102006	Silent	SNP	A	TCGA-CJ-4644-01A-02D-1386-10	38114010	149102006	6168554	88	18516											
TRIT1	54802	hgsc.bcm.edu;ucsc.edu	37	chr1	40323055	40323055	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctctgctcttgggcagaaAccttgttggtgatgatgtct	6	16	11	8	0	3	3	0	2	3	1	4	3	3	3	1	2	2	3	1	2	1	4	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		C	40323055	A	C	40323055	3	2	366	1	0	0	0	0	1	0	0	0	16559	43	2	5	1234	5	TRIT1	1	40323055	Missense_Mutation	SNP	A	TCGA-CJ-4868-01A-01D-1373-10		40323055	208927566	1	18517											
LASS2	0	hgsc.bcm.edu;ucsc.edu	37	chr1	150938648	150938648	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattcttacgatggttgttAttgaggatggggtggccatt	7	16	13	5	1	2	1	1	1	1	0	2	3	2	2	1	5	1	2	1	5	2	6	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		G	150938648	A	G	150938648	2	3	366	1	0	0	0	0	0	0	0	1	8639	446	16	3		3	LASS2	1	150938648	Silent	SNP	A	TCGA-CJ-4868-01A-01D-1373-10	110615593	150938648	98311973	2	18518											
TNR	7143	hgsc.bcm.edu	37	chr1	175355248	175355248	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacctcgtatcgggagccaGgccgcagggcctgcactgag	8	5	14	14	3	0	1	0	1	0	0	2	2	0	2	4	3	2	3	4	3	1	1	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	175355248	G	T	175355248	3	4	366	1	0	0	0	0	1	0	0	0	16337	1000	35	4	2443	4	TNR	1	175355248	Missense_Mutation	SNP	G	TCGA-CJ-4868-01A-01D-1373-10	24416600	175355248	73895373	3	18519											
STAMBP	10617	hgsc.bcm.edu	37	chr2	74074605	74074605	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacaacagaagcagcagcAattggaacaggaacagttcc	17	4	10	10	0	0	1	0	0	0	1	1	3	1	3	1	2	7	5	1	2	5	2	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	74074605	A	T	74074605	3	4	366	1	0	0	0	0	1	0	0	0	15251	130	5	5	481	5	STAMBP	2	74074605	Missense_Mutation	SNP	A	TCGA-CJ-4868-01A-01D-1373-10		74074605	169124768	4	18520											
KIAA1310	0	hgsc.bcm.edu	37	chr2	97278028	97278028	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattacttacatgacaggcCaccaaagctcctgtgttcca	13	10	6	12	0	0	1	0	1	0	0	2	1	2	1	4	1	3	2	4	1	4	3	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	97278028	C	T	97278028	2	4	366	1	0	0	0	0	0	0	0	1	8222	581	21	2		2	KIAA1310	2	97278028	Silent	SNP	C	TCGA-CJ-4868-01A-01D-1373-10	23203423	97278028	145921345	5	18521											
TGFBRAP1	9392	hgsc.bcm.edu	37	chr2	105924721	105924721	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagcagctcccgctccAcagcagagacaagcgtaaag	13	4	9	15	2	1	1	1	0	0	1	3	2	3	1	3	0	4	5	3	0	3	1	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		G	105924721	A	G	105924721	3	3	366	1	0	0	0	0	1	0	0	0	15823	159	6	3	2588	3	TGFBRAP1	2	105924721	Missense_Mutation	SNP	A	TCGA-CJ-4868-01A-01D-1373-10	8646693	105924721	137274652	6	18522											
COL4A3	1285	hgsc.bcm.edu;ucsc.edu	37	chr2	228163409	228163409	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaattcaggtgcgcctggtCcccctggacctccagggagt	6	9	13	13	1	1	1	1	1	0	0	3	3	3	3	5	4	1	0	5	4	1	1	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		A	228163409	C	A	228163409	3	1	366	1	0	0	0	0	1	0	0	0	3691	855	30	4	3933	4	COL4A3	2	228163409	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10	122238688	228163409	15035964	7	18523											
DLEC1	9940	hgsc.bcm.edu	37	chr3	38139264	38139264	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcatcatcaacgtctcagcCcttcagtttggtctgctccg	6	13	7	15	2	6	0	5	0	2	0	8	0	7	0	2	1	3	2	2	1	1	2	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		A	38139264	C	A	38139264	2	1	366	1	0	0	0	0	0	0	0	1	4552	610	22	4		4	DLEC1	3	38139264	Silent	SNP	C	TCGA-CJ-4868-01A-01D-1373-10		38139264	159883166	8	18524											
LAMB2	3913	hgsc.bcm.edu	37	chr3	49159423	49159423	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtcagccactgcccccCggatggcaccctgggcaata	7	7	12	15	1	1	0	1	0	0	0	1	1	1	1	5	3	2	2	5	3	2	1	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	49159423	C	T	49159423	3	4	366	1	0	0	0	0	1	0	0	0	8611	652	23	1	535	1	LAMB2	3	49159423	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10	11020159	49159423	148863007	9	18525											
DRD3	1814	hgsc.bcm.edu	37	chr3	113890723	113890723	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaagacgatggccaggatGagcgcgcagtaggagagggc	11	3	18	9	4	0	3	0	1	0	2	0	7	0	4	2	4	1	2	2	4	2	1	rs149122773	alternate_allele	TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	113890723	G	T	113890723	2	4	366	1	0	0	0	0	0	0	0	1	4758	1277	45	4		4	DRD3	3	113890723	Silent	SNP	G	TCGA-CJ-4868-01A-01D-1373-10	64731300	113890723	84131707	10	18526											
SERPINI2	5276	hgsc.bcm.edu;ucsc.edu	37	chr3	167167125	167167125	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgatgttgcagcttcacTaccatcttcatttatctcaa	10	16	5	10	0	4	1	3	1	2	0	5	1	4	1	1	0	3	4	1	0	3	7	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		C	167167125	T	C	167167125	3	2	366	1	0	0	0	0	1	0	0	0	14121	1522	53	3	199	3	SERPINI2	3	167167125	Missense_Mutation	SNP	T	TCGA-CJ-4868-01A-01D-1373-10	53276402	167167125	30855305	11	18527											
DAPP1	27071	hgsc.bcm.edu	37	chr4	100738085	100738085	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcgaatgggcagagcagaActtctagaagggaagatgag	14	5	16	6	2	1	5	0	1	1	4	1	7	1	6	0	2	2	2	0	2	5	2	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		G	100738085	A	G	100738085	2	3	366	1	0	0	0	0	0	0	0	1	4239	40	2	3		3	DAPP1	4	100738085	Silent	SNP	A	TCGA-CJ-4868-01A-01D-1373-10		100738085	90416191	12	18528											
DNAH5	1767	hgsc.bcm.edu;ucsc.edu	37	chr5	13883135	13883135	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgacgatgttgggaaTggccagagtgacgcttgccc	8	8	15	10	2	0	3	0	2	0	1	0	5	0	4	3	3	1	2	3	3	1	2	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		A	13883135	T	A	13883135	3	1	366	1	0	0	0	0	1	0	0	0	4604	1464	51	5	11062	5	DNAH5	5	13883135	Missense_Mutation	SNP	T	TCGA-CJ-4868-01A-01D-1373-10		13883135	167032125	13	18529											
PRSS16	10279	hgsc.bcm.edu	37	chr6	27216900	27216900	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcccgcagccttggcccCagcctggggcgccctggtga	4	6	13	18	2	0	1	0	1	0	0	1	1	1	1	7	4	2	1	7	4	0	1	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	27216900	C	T	27216900	3	4	366	1	0	0	0	0	1	0	0	0	12618	594	21	2	373	2	PRSS16	6	27216900	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10		27216900	143898167	14	18530											
IRAK1BP1	134728	hgsc.bcm.edu;ucsc.edu	37	chr6	79607672	79607672	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctccaggttctgttgagaatCttcggtaagtttaagcacat	10	14	9	8	1	2	1	0	1	2	1	4	2	3	1	1	2	1	5	1	2	3	6	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		G	79607672	C	G	79607672	3	3	366	1	0	0	0	0	1	0	0	0	7822	913	32	4	518	4	IRAK1BP1	6	79607672	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10	52390772	79607672	91507395	15	18531											
EGFR	1956	hgsc.bcm.edu	37	chr7	55259454	55259454	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcttggtgcaccgcgacCtggcagccaggaacgtactg	7	7	14	13	4	0	0	0	0	0	0	1	2	0	1	3	3	4	4	3	3	2	2	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		A	55259454	C	A	55259454	3	1	366	1	0	0	0	0	1	0	0	0	4967	680	24	4	2858	4	EGFR	7	55259454	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10		55259454	103879209	16	18532											
UNC5D	137970	hgsc.bcm.edu;ucsc.edu	37	chr8	35647991	35647991	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctgtgcccttgaagaGattgggaggacacacacgaa	11	7	13	10	1	0	2	0	1	0	1	0	6	0	4	2	3	1	0	2	3	2	2	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	35647991	G	T	35647991	3	4	366	1	0	0	0	0	1	0	0	0	16994	933	33	4	2838	4	UNC5D	8	35647991	Missense_Mutation	SNP	G	TCGA-CJ-4868-01A-01D-1373-10		35647991	110716031	17	18533											
CUBN	8029	hgsc.bcm.edu	37	chr10	17169882	17169882	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaggcagaccaattgcActcccttttaactctataat	11	15	5	10	0	1	2	0	1	1	1	2	2	2	2	2	1	2	2	2	1	4	7	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		G	17169882	A	G	17169882	2	3	366	1	0	0	0	0	0	0	0	1	4051	156	6	3		3	CUBN	10	17169882	Silent	SNP	A	TCGA-CJ-4868-01A-01D-1373-10		17169882	118364865	18	18534											
CD151	977	hgsc.bcm.edu	37	chr11	837500	837500	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactcacaggactggcgagAcagtgagtggatccgctcac	11	6	12	12	2	2	2	2	1	0	1	3	5	3	4	1	3	1	1	1	3	1	0	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		G	837500	A	G	837500	3	3	366	1	0	0	0	0	1	0	0	0	2965	275	10	3	515	3	CD151	11	837500	Missense_Mutation	SNP	A	TCGA-CJ-4868-01A-01D-1373-10		837500	134169016	19	18535											
GUCY1A2	2977	hgsc.bcm.edu;ucsc.edu	37	chr11	106558323	106558323	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgatgttgtaggaaacCttttttattctcgacgaaga	10	14	10	7	3	1	1	0	0	1	1	2	5	1	2	2	1	2	2	2	1	4	6	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		A	106558323	C	A	106558323	3	1	366	1	0	0	0	0	1	0	0	0	6893	680	24	4	51	4	GUCY1A2	11	106558323	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10	105720823	106558323	28448193	20	18536											
SPATA8	145946	hgsc.bcm.edu	37	chr15	97328235	97328235	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtttacagagaacagctGttctcacggaaggatccaaa	13	11	9	8	1	1	1	1	0	1	1	3	4	2	3	1	2	3	3	1	2	4	4	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		T	97328235	G	T	97328235	3	4	366	1	0	0	0	0	1	0	0	0	15016	1377	48	4	216	4	SPATA8	15	97328235	Missense_Mutation	SNP	G	TCGA-CJ-4868-01A-01D-1373-10		97328235	5203157	21	18537											
C20orf70	0	hgsc.bcm.edu;ucsc.edu	37	chr20	31761897	31761897	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacacaggttgaaaatcagCaactccctcatcctggatgt	12	10	7	12	0	3	1	3	1	0	0	5	2	5	2	2	2	2	2	2	2	3	1	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		A	31761897	C	A	31761897	3	1	366	1	0	0	0	0	1	0	0	0	2116	709	25	4	325	4	C20orf70	20	31761897	Missense_Mutation	SNP	C	TCGA-CJ-4868-01A-01D-1373-10		31761897	31263623	22	18538											
MANBAL	63905	hgsc.bcm.edu	37	chr20	35929689	35929692	+	Frame_Shift_Del	DEL	CACC	CACC	-																															ggcctctgacctagacttctCacctccggaggtgcccgagc																								novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	CACC	CACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		-	35929692	CACC	-	35929689	7	5	366	1	0	1	0	1	0	0	0	0	9220	838	29	0	25	0	MANBAL	20	35929689	Frame_Shift_Del	DEL	CACC	TCGA-CJ-4868-01A-01D-1373-10	4167792	35929689	27095831	23	18539											
CXorf23	256643	hgsc.bcm.edu	37	chrX	19971168	19971168	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaaagacatatctattcTcctaaaataataaaggcata	18	10	5	8	0	2	1	0	0	2	1	3	1	2	1	2	2	0	1	2	2	9	7	novel		TCGA-CJ-4868-01A-01D-1373-10	TCGA-CJ-4868-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3e85207c-5e77-480a-969e-9c891ed5b429	22ab8db8-133d-471f-b436-055c6bfd3b19		C	19971168	T	C	19971168	3	2	366	1	0	0	0	0	1	0	0	0	4103	1565	54	3	505	3	CXorf23	23	19971168	Missense_Mutation	SNP	T	TCGA-CJ-4868-01A-01D-1373-10		19971168	135299392	24	18540											
ASAP3	55616	hgsc.bcm.edu	37	chr1	23756377	23756377	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaaaagttgcacagaacttGctgggagactcccagtcctt	11	9	10	11	0	0	2	0	0	0	2	2	3	2	2	2	1	3	4	2	1	3	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	23756377	G	C	23756377	3	2	367	1	0	0	0	0	1	0	0	0	1012	1319	46	4	31	4	ASAP3	1	23756377	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10		23756377	225494244	1	18541											
ZNF687	57592	hgsc.bcm.edu;ucsc.edu	37	chr1	151261955	151261955	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccagcgtgtcagtgtctTtaagtgcccgtcttgtcctc	4	13	10	14	2	3	0	1	0	2	0	5	0	4	0	4	0	2	0	4	0	1	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	151261955	T	G	151261955	3	3	367	1	0	0	0	0	1	0	0	0	18091	1841	64	5	2587	5	ZNF687	1	151261955	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	127505578	151261955	97988666	2	18542											
DDX1	1653	hgsc.bcm.edu	37	chr2	15746321	15746321	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggaatttaagtttccAccaaaagatggctttgttgc	13	12	10	6	0	0	2	0	0	0	2	1	4	1	3	2	2	1	3	2	2	5	5	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	15746321	A	C	15746321	2	2	367	1	0	0	0	0	0	0	0	1	4341	146	6	5		5	DDX1	2	15746321	Silent	SNP	A	TCGA-CJ-4870-01A-01D-1373-10		15746321	227453052	3	18543											
FAM179A	165186	hgsc.bcm.edu;ucsc.edu	37	chr2	29256422	29256422	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagaacgggctgcccatcAaggaggggtatggctgctcc	8	7	16	10	1	1	1	1	1	0	1	2	3	2	2	2	5	3	4	2	5	3	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	29256422	A	G	29256422	3	3	367	1	0	0	0	0	1	0	0	0	5505	131	5	3	2276	3	FAM179A	2	29256422	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	13510101	29256422	213942951	4	18544											
LBH	81606	hgsc.bcm.edu	37	chr2	30480413	30480413	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggggagctccggtggcccCctgaggagttcctggtccag	4	7	17	13	2	0	1	0	1	0	0	3	3	3	3	5	6	1	2	5	6	0	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	30480413	C	T	30480413	3	4	367	1	0	0	0	0	1	0	0	0	8650	623	22	2	254	2	LBH	2	30480413	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	1223991	30480413	212718960	5	18545											
PPM1B	5495	hgsc.bcm.edu;ucsc.edu	37	chr2	44429133	44429133	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctaggcttgaggtatcTgatgacctggaaaatgtgtg	12	12	12	5	0	2	3	0	3	2	0	2	4	2	4	1	3	0	2	1	3	5	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	44429133	T	A	44429133	2	1	367	1	0	0	0	0	0	0	0	1	12338	1567	55	5		5	PPM1B	2	44429133	Silent	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	13948720	44429133	198770240	6	18546											
MAP2	4133	hgsc.bcm.edu	37	chr2	210559405	210559405	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggaaatcagtcccatcagaGactgtggttgaggatagtcg	12	9	13	7	1	2	2	2	1	0	1	4	5	3	4	1	3	0	1	1	3	2	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	210559405	G	C	210559405	3	2	367	1	0	0	0	0	1	0	0	0	9235	933	33	4	2525	4	MAP2	2	210559405	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10	166130272	210559405	32639968	7	18547											
SPEG	10290	hgsc.bcm.edu	37	chr2	220342464	220342464	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatgaggaccatcgaggaAggagactcagcgacttttat	13	8	13	7	2	1	2	1	1	0	1	2	8	1	5	1	4	1	0	1	4	2	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	220342464	A	G	220342464	3	3	367	1	0	0	0	0	1	0	0	0	15037	63	3	3	4877	3	SPEG	2	220342464	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	9783059	220342464	22856909	8	18548											
OSBPL10	114884	hgsc.bcm.edu	37	chr3	31712424	31712424	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggaccgggcgtaggcaCtaggcagggtgaatacgtac	11	6	16	8	3	0	1	0	1	0	0	0	3	0	2	1	5	2	4	1	5	6	4	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	31712424	C	A	31712424	3	1	367	1	0	0	0	0	1	0	0	0	11275	565	20	4	532	4	OSBPL10	3	31712424	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10		31712424	166310006	9	18549											
IGSF10	285313	hgsc.bcm.edu;ucsc.edu	37	chr3	151160902	151160902	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccttttctgggatgcagCttctatcctggggctggtca	5	14	12	10	0	3	0	1	0	2	0	5	1	5	1	2	4	2	3	2	4	1	4	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	151160902	C	T	151160902	3	4	367	1	0	0	0	0	1	0	0	0	7597	797	28	2	2094	2	IGSF10	3	151160902	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	119448478	151160902	46861528	10	18550											
GPR98	84059	hgsc.bcm.edu;ucsc.edu	37	chr5	90000251	90000252	+	Frame_Shift_Ins	INS	-	-	T																															gcatttgttggatgacaacaINSttcctgaggagaaagaagta																								novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	90000252	-	T	90000251	7	5	367	1	0	1	1	0	0	0	0	0	6721	217	8	0	8474	0	GPR98	5	90000251	Frame_Shift_Ins	INS	-	TCGA-CJ-4870-01A-01D-1373-10		90000251	90915009	11	18551											
ARAP3	64411	hgsc.bcm.edu	37	chr5	141046056	141046056	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcctgggcccggcgctGagcacaggaagaggtggtca	7	4	20	10	2	1	2	1	1	0	1	1	3	1	3	2	7	1	2	2	7	1	0	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	141046056	G	T	141046056	4	4	367	1	0	0	0	0	0	1	0	0	840	1294	45	4	2195	4	ARAP3	5	141046056	Nonsense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10	51045805	141046056	39869204	12	18552											
GEMIN5	25929	hgsc.bcm.edu;ucsc.edu	37	chr5	154271054	154271054	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtctagttctgaaggccTgtttggctctggctgagaag	8	12	13	8	0	3	2	0	2	3	1	3	3	3	2	1	3	0	4	1	3	4	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	154271054	T	A	154271054	3	1	367	1	0	0	0	0	1	0	0	0	6331	1579	55	5	529	5	GEMIN5	5	154271054	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	13224998	154271054	26644206	13	18553											
POR	5447	hgsc.bcm.edu	37	chr7	75614139	75614139	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtgccctacgtcctacCgcacggccctcacctactac	6	8	6	21	4	1	0	1	0	0	0	3	0	3	0	6	1	5	1	6	1	4	4	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	75614139	C	T	75614139	3	4	367	1	0	0	0	0	1	0	0	0	12257	652	23	1	1149	1	POR	7	75614139	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10		75614139	83524524	14	18554											
FOXP2	93986	hgsc.bcm.edu	37	chr7	114284748	114284748	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgctacagctcgtcacAtgaggagactggggcctctc	7	11	11	12	1	2	2	1	1	1	1	4	3	2	2	1	3	3	2	1	3	1	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	114284748	A	T	114284748	3	4	367	1	0	0	0	0	1	0	0	0	6027	217	8	5	1158	5	FOXP2	7	114284748	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	38670609	114284748	44853915	15	18555											
VPS13B	157680	hgsc.bcm.edu	37	chr8	100133693	100133693	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaggtcttttctcttgctGtttatatctctatcaacttt	7	21	5	8	0	4	0	1	0	3	0	6	0	4	0	0	1	2	3	0	1	5	9	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	100133693	G	T	100133693	3	4	367	1	0	0	0	0	1	0	0	0	17189	1377	48	4	1252	4	VPS13B	8	100133693	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10		100133693	46230329	16	18556											
ANGPT1	284	hgsc.bcm.edu;ucsc.edu	37	chr8	108334182	108334182	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtccatcagctccagttgCtgcttctgaaggacactgtt	7	13	10	11	0	2	1	1	1	1	0	4	2	4	2	2	1	3	5	2	1	1	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	108334182	C	A	108334182	3	1	367	1	0	0	0	0	1	0	0	0	610	796	28	4	770	4	ANGPT1	8	108334182	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	8200489	108334182	38029840	17	18557											
MPDZ	8777	hgsc.bcm.edu	37	chr9	13192294	13192294	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagtaaagttatgccatttaCctgtgaaaaaagatacattg	17	12	7	5	0	0	2	0	1	0	1	0	2	0	2	2	0	3	2	2	0	9	6	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	13192294	C	G	13192294	3	3	367	1	0	0	0	0	1	0	0	0	9722	521	18	4	4449	4	MPDZ	9	13192294	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10		13192294	128021137	18	18558											
TAF1L	138474	hgsc.bcm.edu;ucsc.edu	37	chr9	32634567	32634567	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgattgggaaaatttggaCtccacaggaaccatcatcgt	12	11	10	8	1	1	1	1	1	0	0	3	4	2	4	2	3	1	1	2	3	3	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	32634567	C	A	32634567	3	1	367	1	0	0	0	0	1	0	0	0	15522	564	20	4	4473	4	TAF1L	9	32634567	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	19442273	32634567	108578864	19	18559											
FRMPD1	22844	hgsc.bcm.edu	37	chr9	37740099	37740099	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatccagggcctgcagtgActcagaggagtcctctgagg	9	8	14	10	0	2	4	1	3	1	1	4	5	4	5	3	3	1	1	3	3	1	0	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	37740099	A	G	37740099	3	3	367	1	0	0	0	0	1	0	0	0	6057	275	10	3	1628	3	FRMPD1	9	37740099	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	5105532	37740099	103473332	20	18560											
DDX31	64794	hgsc.bcm.edu;ucsc.edu	37	chr9	135538026	135538026	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaagtttcgttcctccgTttcgctgggggagcctcact	6	13	11	11	3	1	1	1	1	0	0	5	2	3	2	3	2	1	4	3	2	2	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	135538026	T	C	135538026	2	2	367	1	0	0	0	0	0	0	0	1	4356	1722	60	3		3	DDX31	9	135538026	Silent	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	97797927	135538026	5675405	21	18561											
PTCHD3	374308	hgsc.bcm.edu;ucsc.edu	37	chr10	27688016	27688016	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctaaaagagctcataatcCctgtatataaggccaggatg	15	9	8	9	0	1	1	1	0	0	1	2	2	2	2	3	2	1	2	3	2	6	5	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	27688016	C	T	27688016	3	4	367	1	0	0	0	0	1	0	0	0	12736	623	22	2	796	2	PTCHD3	10	27688016	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10		27688016	107846731	22	18562											
DYDC1	143241	hgsc.bcm.edu;ucsc.edu	37	chr10	82112316	82112316	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttctgcaagaccttgagtTaaacaggccccaaggtgctt	11	10	9	11	0	1	2	0	1	1	1	1	2	1	2	3	2	3	3	3	2	4	4	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	82112316	T	G	82112316	3	3	367	1	0	0	0	0	1	0	0	0	4838	1751	61	5	515	5	DYDC1	10	82112316	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	54424300	82112316	53422431	23	18563											
AFAP1L2	84632	hgsc.bcm.edu	37	chr10	116057098	116057098	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagctccaggtccacgcGcctgctctcctcgccccggc	3	7	11	20	4	1	1	0	1	1	0	5	1	3	1	6	2	2	3	6	2	0	0	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	116057098	G	A	116057098	3	1	367	1	0	0	0	0	1	0	0	0	355	1087	38	1	280	1	AFAP1L2	10	116057098	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10	33944782	116057098	19477649	24	18564											
MUC2	4583	hgsc.bcm.edu	37	chr11	1082315	1082315	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccgagcactggtgctccctCctgaagaagacagagacccc	10	5	11	15	1	0	4	0	1	0	3	2	6	2	4	5	1	2	2	5	1	2	0	rs58179195	byfrequency;by1000genomes	TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	1082315	C	T	1082315	2	4	367	1	0	0	0	0	0	0	0	1	9975	842	30	2		2	MUC2	11	1082315	Silent	SNP	C	TCGA-CJ-4870-01A-01D-1373-10		1082315	133924201	25	18565											
CNGA4	1262	hgsc.bcm.edu;ucsc.edu	37	chr11	6262905	6262905	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccaagagatgtacatcAtccgagagggtcaactggcc	11	8	12	10	1	2	2	2	0	0	2	3	4	3	2	3	3	2	1	3	3	3	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	6262905	A	C	6262905	3	2	367	1	0	0	0	0	1	0	0	0	3599	217	8	5	1180	5	CNGA4	11	6262905	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	5180590	6262905	128743611	26	18566											
ZNF214	7761	hgsc.bcm.edu;ucsc.edu	37	chr11	7022631	7022631	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacgatcttgctgtgtgaGgtctttggaatctgtccctt	6	15	12	8	1	3	1	0	1	3	0	4	4	4	3	1	3	2	1	1	3	2	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	7022631	G	C	7022631	3	2	367	1	0	0	0	0	1	0	0	0	17769	1000	35	4	1541	4	ZNF214	11	7022631	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10	759726	7022631	127983885	27	18567											
C11orf49	79096	hgsc.bcm.edu	37	chr11	47185748	47185748	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaggccctggagagagTgtcctcagcttcggtaccga	8	7	15	11	2	1	1	1	0	0	1	3	5	2	3	3	4	2	3	3	4	1	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	47185748	T	A	47185748	3	1	367	1	0	0	0	0	1	0	0	0	1645	1696	59	5	1161	5	C11orf49	11	47185748	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	40163117	47185748	87820768	28	18568											
NUP160	23279	hgsc.bcm.edu;ucsc.edu	37	chr11	47861527	47861527	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagatattccaggtactgCtggaattaactgatagttgc	12	12	11	6	0	0	2	0	1	0	1	1	4	1	3	1	3	4	3	1	3	5	6	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	47861527	C	G	47861527	3	3	367	1	0	0	0	0	1	0	0	0	10757	797	28	4	3826	4	NUP160	11	47861527	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	675779	47861527	87144989	29	18569											
RIN1	9610	hgsc.bcm.edu	37	chr11	66100043	66100043	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgtgggccagggccccagGgggcaggcggtggtagccct	4	5	19	13	1	0	0	0	0	0	0	0	0	0	0	5	7	1	2	5	7	1	1	rs2282532	bycluster;byfrequency;by1000genomes	TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	66100043	G	A	66100043	3	1	367	1	0	0	0	0	1	0	0	0	13373	1232	43	2	299	2	RIN1	11	66100043	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10	18238516	66100043	68906473	30	18570											
MAML2	84441	hgsc.bcm.edu	37	chr11	95825797	95825797	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggtgatggtccagcagaAgagggcaaggctgaccagtt	10	7	15	9	0	0	4	0	2	0	2	1	4	1	4	3	4	1	4	3	4	2	1	rs7931870	bycluster;byfrequency;by1000genomes	TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	95825797	A	G	95825797	2	3	367	1	0	0	0	0	0	0	0	1	9206	59	3	3		3	MAML2	11	95825797	Silent	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	29725754	95825797	39180719	31	18571											
TULP3	7289	hgsc.bcm.edu;ucsc.edu	37	chr12	3047337	3047337	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatggaaaatctggttgagCtgcacaacaaggcccccgtc	11	8	10	12	1	1	1	0	1	1	0	2	2	1	2	2	3	3	3	2	3	5	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	3047337	C	A	3047337	3	1	367	1	0	0	0	0	1	0	0	0	16774	796	28	4	1119	4	TULP3	12	3047337	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10		3047337	130804558	32	18572											
ABCC9	10060	hgsc.bcm.edu;ucsc.edu	37	chr12	22065833	22065833	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgttatttgtcccattctgGgtttcattcacacgctgaac	7	16	8	10	1	3	1	2	1	1	0	4	1	4	1	1	1	1	3	1	1	2	5	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	22065833	G	T	22065833	2	4	367	1	0	0	0	0	0	0	0	1	59	1219	43	4		4	ABCC9	12	22065833	Silent	SNP	G	TCGA-CJ-4870-01A-01D-1373-10	19018496	22065833	111786062	33	18573											
ANAPC7	51434	hgsc.bcm.edu	37	chr12	110825591	110825591	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccagtgtgcacaaaagcAtacgctttgatccacacaga	14	8	7	12	1	1	2	1	1	0	1	2	2	2	2	2	0	3	3	2	0	3	2	rs61754907	bycluster;byfrequency;by1000genomes	TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	110825591	A	G	110825591	2	3	367	1	0	0	0	0	0	0	0	1	606	224	8	3		3	ANAPC7	12	110825591	Silent	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	88759758	110825591	23026304	34	18574											
ZDHHC22	283576	hgsc.bcm.edu	37	chr14	77605834	77605834	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggcatggagtcttcctggccGaggccccctggcaggccccc	4	6	14	17	1	1	0	0	0	1	0	2	2	2	1	6	6	0	2	6	6	0	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	77605834	G	C	77605834	3	2	367	1	0	0	0	0	1	0	0	0	17612	1059	37	4	551	4	ZDHHC22	14	77605834	Missense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10		77605834	29743706	35	18575											
PPP4R4	57718	hgsc.bcm.edu;ucsc.edu	37	chr14	94697034	94697034	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatatacccactcattcctCcaagtcattctcctgcatct	9	13	3	16	0	4	0	2	0	2	0	7	0	6	0	4	0	2	2	4	0	3	4	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	94697034	C	A	94697034	2	1	367	1	0	0	0	0	0	0	0	1	12407	842	30	4		4	PPP4R4	14	94697034	Silent	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	17091200	94697034	12652506	36	18576											
SERPINA6	866	hgsc.bcm.edu;ucsc.edu	37	chr14	94780531	94780531	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagccaagacctctgacTcatagtagtgcttgatgtct	10	13	8	10	0	4	3	2	2	2	1	4	3	4	3	2	0	2	2	2	0	4	4	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	94780531	T	A	94780531	3	1	367	1	0	0	0	0	1	0	0	0	14095	1551	54	5	778	5	SERPINA6	14	94780531	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	83497	94780531	12569009	37	18577											
ZNF500	26048	hgsc.bcm.edu	37	chr16	4812665	4812665	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatcgagcctcttcctccagGgacagatcctctggctgagc	8	9	10	14	1	2	2	0	1	2	1	6	4	5	3	4	2	2	1	4	2	1	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	4812665	G	A	4812665	2	1	367	1	0	0	0	0	0	0	0	1	17947	1219	43	2		2	ZNF500	16	4812665	Silent	SNP	G	TCGA-CJ-4870-01A-01D-1373-10		4812665	85542088	38	18578											
CENPT	80152	hgsc.bcm.edu	37	chr16	67863680	67863680	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttacctgccctgccagAggcatcctcatcccctgaag	7	9	7	18	0	2	2	1	1	1	1	4	2	4	2	7	1	3	1	7	1	2	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		G	67863680	A	G	67863680	3	3	367	1	0	0	0	0	1	0	0	0	3242	304	11	3	531	3	CENPT	16	67863680	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10	63051015	67863680	22491073	39	18579											
C17orf74	201243	hgsc.bcm.edu	37	chr17	7330114	7330114	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggttcccaatcccgactgtgGggcaatgtggaggctgagca	8	8	15	10	1	0	1	0	1	0	0	2	3	2	2	2	5	1	4	2	5	2	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	7330114	G	A	7330114	4	1	367	1	0	0	0	0	0	1	0	0	1879	1241	43	2	814	2	C17orf74	17	7330114	Nonsense_Mutation	SNP	G	TCGA-CJ-4870-01A-01D-1373-10		7330114	73865096	40	18580											
PLEKHH3	79990	hgsc.bcm.edu	37	chr17	40825443	40825443	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgagcagtagctgggTgggggtctccaggggtgcct	4	9	18	10	0	1	1	0	1	1	0	3	1	2	1	3	5	3	3	3	5	1	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	40825443	T	C	40825443	3	2	367	1	0	0	0	0	1	0	0	0	12078	1696	59	3	1795	3	PLEKHH3	17	40825443	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	33495329	40825443	40369767	41	18581											
ANKRD27	84079	hgsc.bcm.edu;ucsc.edu	37	chr19	33133044	33133044	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcttttggcacgaggtaTgttaaagctgtaaaataatt	12	15	8	6	1	1	0	0	0	1	0	2	1	1	0	0	2	1	5	0	2	6	7	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	33133044	T	C	33133044	3	2	367	1	0	0	0	0	1	0	0	0	655	1464	51	3	2442	3	ANKRD27	19	33133044	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10		33133044	25995939	42	18582											
C20orf132	0	hgsc.bcm.edu	37	chr20	35776260	35776260	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctgtgggtccccacagAgcagtgccatcagagccact	8	9	10	14	0	1	2	1	0	0	2	3	2	3	2	5	1	3	1	5	1	0	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	35776260	A	T	35776260	3	4	367	1	0	0	0	0	1	0	0	0	2086	304	11	5	2073	5	C20orf132	20	35776260	Missense_Mutation	SNP	A	TCGA-CJ-4870-01A-01D-1373-10		35776260	27249260	43	18583											
MAGEB2	4113	hgsc.bcm.edu	37	chrX	30236766	30236766	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggcccgagatgagacccgGggtctcaatgttcctcaggt	9	8	13	11	2	2	2	2	1	1	2	4	4	3	2	3	4	0	1	3	4	2	1	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	30236766	G	A	30236766	2	1	367	1	0	0	0	0	0	0	0	1	9176	1219	43	2		2	MAGEB2	23	30236766	Silent	SNP	G	TCGA-CJ-4870-01A-01D-1373-10		30236766	125033794	44	18584											
TRO	7216	hgsc.bcm.edu	37	chrX	54957281	54957281	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtggaccaagcactggtgTtggcttctgcagtggaccaa	8	9	14	10	1	1	0	0	0	1	0	1	2	1	2	2	5	2	4	2	5	2	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		C	54957281	T	C	54957281	3	2	367	1	0	0	0	0	1	0	0	0	16573	1725	60	3	4166	3	TRO	23	54957281	Missense_Mutation	SNP	T	TCGA-CJ-4870-01A-01D-1373-10	24720515	54957281	100313279	45	18585											
P2RY10	27334	hgsc.bcm.edu;ucsc.edu	37	chrX	78216453	78216453	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggccagagactggaagCgtaggtacgatgtgggcatc	10	7	16	8	2	1	1	1	0	0	1	2	4	1	2	1	4	2	3	1	4	3	2	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		T	78216453	C	T	78216453	3	4	367	1	0	0	0	0	1	0	0	0	11347	768	27	1	438	1	P2RY10	23	78216453	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	23259172	78216453	77054107	46	18586											
CCDC160	347475	hgsc.bcm.edu;ucsc.edu	37	chrX	133378953	133378953	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacgactgcagatagcagCaagggaatggaagaaattta	18	6	11	6	1	0	2	0	0	0	2	0	5	0	4	0	2	4	3	0	2	7	3	novel		TCGA-CJ-4870-01A-01D-1373-10	TCGA-CJ-4870-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	72fffb6f-a58b-4f05-87fe-ccd28b4babff	80217c32-1ac8-4909-843d-2e351684dc95		A	133378953	C	A	133378953	3	1	367	1	0	0	0	0	1	0	0	0	2792	709	25	4	125	4	CCDC160	23	133378953	Missense_Mutation	SNP	C	TCGA-CJ-4870-01A-01D-1373-10	55162500	133378953	21891607	47	18587											
CAPZB	832	hgsc.bcm.edu	37	chr1	19683945	19683945	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccacgtggatggaatcccAgcagcctttgatcttctttg	8	13	9	11	1	2	1	0	1	2	0	3	3	3	3	3	2	3	1	3	2	2	4	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	19683945	A	C	19683945	3	2	368	1	0	0	0	0	1	0	0	0	2643	188	7	5	396	5	CAPZB	1	19683945	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10		19683945	229566676	1	18588											
CSMD2	114784	hgsc.bcm.edu	37	chr1	34312501	34312501	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccttggtattgggcactGaatccgcgctgccggtggtt	5	12	13	11	3	0	1	0	1	0	0	1	1	1	1	3	4	2	4	3	4	3	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	34312501	G	T	34312501	3	4	368	1	0	0	0	0	1	0	0	0	3945	1281	45	4	9822	4	CSMD2	1	34312501	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10	14628556	34312501	214938120	2	18589											
ZSWIM5	57643	hgsc.bcm.edu;ucsc.edu	37	chr1	45484291	45484291	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactctccatagtggcgaggGctgatgtgtgttaggcgtga	8	11	15	7	2	1	2	0	2	1	0	2	3	1	2	1	3	1	2	1	3	3	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	45484291	G	A	45484291	2	1	368	1	0	0	0	0	0	0	0	1	18243	1194	42	2		2	ZSWIM5	1	45484291	Silent	SNP	G	TCGA-CJ-4871-01A-01D-1373-10	11171790	45484291	203766330	3	18590											
ATP1A1	476	hgsc.bcm.edu;ucsc.edu	37	chr1	116936278	116936278	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaggagcagcccctggaTgaggagctgaaagacgcctt	11	5	15	10	1	0	3	0	2	0	1	0	6	0	6	3	4	3	3	3	4	2	1	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	116936278	T	C	116936278	2	2	368	1	0	0	0	0	0	0	0	1	1128	1461	51	3		3	ATP1A1	1	116936278	Silent	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	71451987	116936278	132314343	4	18591											
CRB1	23418	hgsc.bcm.edu;ucsc.edu	37	chr1	197396821	197396821	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtagtaaaatttgttcttaAtgatggaaatgtccacttga	14	15	8	4	0	1	2	0	2	1	0	2	3	2	3	1	1	0	3	1	1	5	6	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	197396821	A	T	197396821	3	4	368	1	0	0	0	0	1	0	0	0	3848	101	4	5	2392	5	CRB1	1	197396821	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10	80460543	197396821	51853800	5	18592											
HEATR1	55127	hgsc.bcm.edu;ucsc.edu	37	chr1	236714231	236714231	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctggagtggctctcccaGgacagtttccagttgctgaa	7	11	12	11	0	2	1	0	1	2	0	4	3	3	3	2	3	1	5	2	3	1	2	rs145439234	alternate_allele	TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	236714231	G	C	236714231	3	2	368	1	0	0	0	0	1	0	0	0	7027	991	35	4	32	4	HEATR1	1	236714231	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10	39317410	236714231	12536390	6	18593											
STK11IP	114790	hgsc.bcm.edu	37	chr2	220467482	220467482	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaatcaagtccaggactGtcagggattcctgatggtga	11	9	11	10	0	2	2	2	2	0	0	4	4	4	4	3	3	0	0	3	3	2	1	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	220467482	G	T	220467482	3	4	368	1	0	0	0	0	1	0	0	0	15289	1377	48	4	661	4	STK11IP	2	220467482	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10		220467482	22731891	7	18594											
DOCK10	55619	hgsc.bcm.edu	37	chr2	225684201	225684201	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatgctgatgtaattgtTgaccatcttaaacacatacc	14	12	6	9	0	1	2	0	2	1	0	1	3	1	2	2	0	4	3	2	0	5	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	225684201	T	A	225684201	3	1	368	1	0	0	0	0	1	0	0	0	4685	1812	63	5	3443	5	DOCK10	2	225684201	Missense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	5216719	225684201	17515172	8	18595											
SH3BP4	23677	hgsc.bcm.edu	37	chr2	235950909	235950909	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccatttttgggcatgactGtgccccaaagacgctcctgg	8	10	11	12	1	0	2	0	1	0	1	1	3	1	2	4	2	1	2	4	2	1	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	235950909	G	T	235950909	3	4	368	1	0	0	0	0	1	0	0	0	14248	1377	48	4	1502	4	SH3BP4	2	235950909	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10	10266708	235950909	7248464	9	18596											
COL7A1	1294	hgsc.bcm.edu	37	chr3	48623284	48623284	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctctccaggttcccccttCtggccctggggaaagacatg	7	10	10	14	0	2	1	0	0	2	1	5	2	4	2	4	4	0	1	4	4	1	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	48623284	C	T	48623284	2	4	368	1	0	0	0	0	0	0	0	1	3704	912	32	2		2	COL7A1	3	48623284	Silent	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		48623284	149399146	10	18597											
NPRL2	10641	hgsc.bcm.edu	37	chr3	50387111	50387111	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacctctagtgtggtcagAtagccagccagctttttaac	10	11	9	11	0	2	2	1	0	1	2	2	2	2	2	3	1	4	1	3	1	3	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	50387111	A	G	50387111	2	3	368	1	0	0	0	0	0	0	0	1	10597	340	12	3		3	NPRL2	3	50387111	Silent	SNP	A	TCGA-CJ-4871-01A-01D-1373-10	1763827	50387111	147635319	11	18598											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52643504	52643504	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagaatcgctgtagcatcTtccctcatcatcctgatgac	11	12	6	12	1	3	3	2	2	1	1	6	3	5	3	2	0	1	3	2	0	4	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	52643504	T	A	52643504	4	1	368	1	0	0	0	0	0	1	0	0	11491	1617	56	5	2568	5	PBRM1	3	52643504	Nonsense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	2256393	52643504	145378926	12	18599											
FRYL	285527	hgsc.bcm.edu;ucsc.edu	37	chr4	48542918	48542918	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttgtgcttagattgagttgtCcagtgcttttcctgttagct	5	19	10	7	0	0	2	0	1	0	1	2	2	2	2	2	0	3	5	2	0	2	7	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	48542918	C	G	48542918	3	3	368	1	0	0	0	0	1	0	0	0	6064	855	30	4	3370	4	FRYL	4	48542918	Missense_Mutation	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		48542918	142611358	13	18600											
PDZD2	23037	hgsc.bcm.edu;ucsc.edu	37	chr5	32061215	32061215	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggacccgttcgccttgTcatcggccggcaccctaatc	6	9	9	17	4	1	0	1	0	0	0	5	1	2	1	5	3	0	2	5	3	1	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	32061215	T	C	32061215	3	2	368	1	0	0	0	0	1	0	0	0	11701	1667	58	3	2476	3	PDZD2	5	32061215	Missense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10		32061215	148854045	14	18601											
C5orf23	0	hgsc.bcm.edu;ucsc.edu	37	chr5	32789785	32789785	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtgccttctttgccccaAatgcatcactttccttttag	7	16	5	13	0	2	0	1	0	1	0	3	0	3	0	4	0	3	1	4	0	2	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	32789785	A	G	32789785	3	3	368	1	0	0	0	0	1	0	0	0	2286	14	1	3	280	3	C5orf23	5	32789785	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10	728570	32789785	148125475	15	18602											
HSPA4	3308	hgsc.bcm.edu	37	chr5	132424179	132424179	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaagagaagatcagcaaaTttttcggtaaagaacttagt	18	11	8	4	1	1	3	1	0	0	3	2	4	1	3	0	1	2	2	0	1	8	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	132424179	T	A	132424179	3	1	368	1	0	0	0	0	1	0	0	0	7412	1493	52	5	1103	5	HSPA4	5	132424179	Missense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	99634394	132424179	48491081	16	18603											
KCTD16	57528	hgsc.bcm.edu	37	chr5	143586839	143586839	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagatgccaagtttcggAgagttccccggattttggtt	8	12	13	8	2	0	2	0	0	0	2	2	4	1	3	3	4	1	4	3	4	1	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	143586839	A	G	143586839	3	3	368	1	0	0	0	0	1	0	0	0	8103	296	11	3	564	3	KCTD16	5	143586839	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10	11162660	143586839	37328421	17	18604											
SEMA3A	10371	hgsc.bcm.edu	37	chr7	83764187	83764187	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacatacagcctactccgttCctcatccaaaaggaaggtat	14	9	6	12	1	1	0	1	0	0	0	4	1	4	1	4	2	4	2	4	2	7	4	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	83764187	C	T	83764187	3	4	368	1	0	0	0	0	1	0	0	0	14026	864	30	2	2186	2	SEMA3A	7	83764187	Missense_Mutation	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		83764187	75374476	18	18605											
SNAI2	6591	hgsc.bcm.edu;ucsc.edu	37	chr8	49833764	49833764	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgtatgtgtgtccagttCgctgtagtttggctttttgg	4	18	12	7	1	0	0	0	0	0	0	2	0	1	0	2	2	0	6	2	2	2	6	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	49833764	C	T	49833764	3	4	368	1	0	0	0	0	1	0	0	0	14829	893	31	1	757	1	SNAI2	8	49833764	Missense_Mutation	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		49833764	96530258	19	18606											
ZNF483	158399	hgsc.bcm.edu;ucsc.edu	37	chr9	114304001	114304001	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgatcatggcttgatggaAgaatcccagcaatattgtgg	12	11	12	6	0	1	3	1	2	0	1	2	5	2	4	1	3	1	2	1	3	4	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	114304001	A	G	114304001	2	3	368	1	0	0	0	0	0	0	0	1	17935	69	3	3		3	ZNF483	9	114304001	Silent	SNP	A	TCGA-CJ-4871-01A-01D-1373-10		114304001	26909430	20	18607											
GPR158	57512	hgsc.bcm.edu;ucsc.edu	37	chr10	25701402	25701402	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccactttcgcaaagcaaaGgtaaacccaggaaccctggt	14	7	8	12	1	0	0	0	0	0	0	1	1	0	1	3	3	4	3	3	3	6	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	25701402	G	T	25701402	3	4	368	1	0	0	0	0	1	0	0	0	6663	1014	35	4	1349	4	GPR158	10	25701402	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10		25701402	109833345	21	18608											
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89690806	89690806	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacttttcttttagttgTgctgaaagacattatgacac	12	17	6	6	0	1	3	0	2	1	1	1	3	1	3	0	0	2	2	0	0	5	7	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	89690806	T	A	89690806	4	1	368	1	0	0	0	0	0	1	0	0	12740	1702	59	5	227	5	PTEN	10	89690806	Nonsense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	63989404	89690806	45843941	22	18609											
USP15	9958	hgsc.bcm.edu;ucsc.edu	37	chr12	62777931	62777931	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtagatatatttcatggcCttttcaaatcaactttagtt	12	18	5	6	0	3	1	3	0	0	1	3	1	3	1	1	1	1	2	1	1	7	10	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	62777931	C	A	62777931	3	1	368	1	0	0	0	0	1	0	0	0	17045	681	24	4	1272	4	USP15	12	62777931	Missense_Mutation	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		62777931	71073964	23	18610											
PTPN11	5781	hgsc.bcm.edu;ucsc.edu	37	chr12	112892409	112892409	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggagaacggtttgattcTttgacagatcttgtggaaca	11	12	13	5	1	2	4	0	2	2	2	2	7	2	6	0	4	2	1	0	4	2	4	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	112892409	T	C	112892409	2	2	368	1	0	0	0	0	0	0	0	1	12782	1596	56	3		3	PTPN11	12	112892409	Silent	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	50114478	112892409	20959486	24	18611											
C12orf43	64897	hgsc.bcm.edu;ucsc.edu	37	chr12	121444125	121444125	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaagtataaccactcaccAtcatcctccaaagcgacttt	14	11	3	13	1	2	0	2	0	0	0	4	1	4	0	4	0	2	1	4	0	4	4	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	121444125	A	G	121444125	2	3	368	1	0	0	0	0	0	0	0	1	1689	231	8	3		3	C12orf43	12	121444125	Silent	SNP	A	TCGA-CJ-4871-01A-01D-1373-10	8551716	121444125	12407770	25	18612											
ZMYM2	7750	hgsc.bcm.edu;ucsc.edu	37	chr13	20656244	20656244	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgaataaaatactgcgaaGctggcaaccaagcatacttc	16	9	7	9	1	0	1	0	1	0	0	1	2	0	1	1	1	6	3	1	1	8	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	20656244	G	A	20656244	3	1	368	1	0	0	0	0	1	0	0	0	17699	971	34	2	3620	2	ZMYM2	13	20656244	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10		20656244	94513634	26	18613											
CATSPERB	79820	hgsc.bcm.edu;ucsc.edu	37	chr14	92126245	92126245	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagctgatgtataaaaactAtgaaaagtcttctttatgat	16	15	6	4	0	2	3	0	3	2	0	2	3	2	3	0	0	2	2	0	0	9	7	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	92126245	A	T	92126245	3	4	368	1	0	0	0	0	1	0	0	0	2691	446	16	5	2034	5	CATSPERB	14	92126245	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10		92126245	15223295	27	18614											
MTMR15	0	hgsc.bcm.edu;ucsc.edu	37	chr15	31206244	31206244	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaatggagtttcctagttaCaccatcaatcggaaaaccca	14	9	7	11	2	1	0	1	0	0	0	3	3	2	2	3	2	2	2	3	2	6	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	31206244	C	T	31206244	2	4	368	1	0	0	0	0	0	0	0	1	9943	489	17	2		2	MTMR15	15	31206244	Silent	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		31206244	71325148	28	18615											
FANCI	55215	hgsc.bcm.edu	37	chr15	89837146	89837146	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgaaaaagcgggtaaaGccaaaactaaaatggccaac	20	6	8	7	1	0	1	0	1	0	0	0	1	0	1	2	2	4	1	2	2	10	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	89837146	G	C	89837146	3	2	368	1	0	0	0	0	1	0	0	0	5669	971	34	4	2460	4	FANCI	15	89837146	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10	58630902	89837146	12694246	29	18616											
CHD2	1106	hgsc.bcm.edu	37	chr15	93492306	93492306	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctagctcattcctggtgcaAgtaggtagaaaaatatgagt	13	11	11	6	0	1	2	1	1	0	1	2	2	2	2	1	2	2	5	1	2	7	5	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	93492306	A	C	93492306	3	2	368	1	0	0	0	0	1	0	0	0	3325	86	3	5	1548	5	CHD2	15	93492306	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10	3655160	93492306	9039086	30	18617											
PGPEP1L	145814	hgsc.bcm.edu	37	chr15	99511807	99511808	+	Frame_Shift_Ins	INS	-	-	T																															catttcctggatgatgactcINStcaaggctcttcccagcagg																								novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	99511808	-	T	99511807	7	5	368	1	0	1	1	0	0	0	0	0	11804	913	32	0	103	0	PGPEP1L	15	99511807	Frame_Shift_Ins	INS	-	TCGA-CJ-4871-01A-01D-1373-10	6019501	99511807	3019585	31	18618											
CDH3	1001	hgsc.bcm.edu	37	chr16	68721570	68721570	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggacctgtctccccacAcctcccctttccaggcccag	8	7	6	20	0	1	0	0	0	1	0	4	1	3	1	8	2	0	0	8	2	1	1	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	68721570	A	C	68721570	3	2	368	1	0	0	0	0	1	0	0	0	3111	159	6	5	1772	5	CDH3	16	68721570	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10		68721570	21633183	32	18619											
B4GALNT2	124872	hgsc.bcm.edu;ucsc.edu	37	chr17	47241500	47241500	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctaccaagactttcctccgcCcccacaagctcatgatcatg	10	9	5	17	1	2	2	2	1	0	1	4	2	4	2	5	0	2	1	5	0	3	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	47241500	C	A	47241500	3	1	368	1	0	0	0	0	1	0	0	0	1267	623	22	4	1045	4	B4GALNT2	17	47241500	Missense_Mutation	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		47241500	33953710	33	18620											
ABCA10	10349	hgsc.bcm.edu;ucsc.edu	37	chr17	67212477	67212477	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatgaagatgaagcaaaTgtatgtcaatccccaggaga	17	8	9	7	0	1	4	1	2	0	2	2	5	2	4	2	1	1	2	2	1	6	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	67212477	T	C	67212477	3	2	368	1	0	0	0	0	1	0	0	0	29	1464	51	3	4210	3	ABCA10	17	67212477	Missense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	19970977	67212477	13982733	34	18621											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9067458	9067458	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgatggggtcctgggaggtgCtggttcccttcagcccatga	5	10	15	11	1	1	1	1	1	0	0	3	3	3	2	3	5	2	2	3	5	0	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	9067458	C	T	9067458	3	4	368	1	0	0	0	0	1	0	0	0	9973	797	28	2	23863	2	MUC16	19	9067458	Missense_Mutation	SNP	C	TCGA-CJ-4871-01A-01D-1373-10		9067458	50061525	35	18622											
PDE4C	5143	hgsc.bcm.edu	37	chr19	18322690	18322691	+	Frame_Shift_Ins	INS	-	-	A																															gcggtccgtccactggcggtINSacaggggcagcggcttggtg																								novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	18322691	-	A	18322690	7	5	368	1	0	1	1	0	0	0	0	0	11641	1638	57	0	476	0	PDE4C	19	18322690	Frame_Shift_Ins	INS	-	TCGA-CJ-4871-01A-01D-1373-10	9255232	18322690	40806293	36	18623											
PRX	57716	hgsc.bcm.edu	37	chr19	40902612	40902612	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agtttcatctctgacactttCggcagctgtacctctggaag	8	13	9	11	1	3	1	1	1	2	0	5	2	3	2	1	2	2	4	1	2	2	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	40902612	C	G	40902612	2	3	368	1	0	0	0	0	0	0	0	1	12644	871	31	4		4	PRX	19	40902612	Silent	SNP	C	TCGA-CJ-4871-01A-01D-1373-10	22579922	40902612	18226371	37	18624											
KLK3	354	hgsc.bcm.edu;ucsc.edu	37	chr19	51363270	51363270	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtaatggtgtgcttcaaGgtatcacgtcatggggcagt	8	13	13	7	1	4	0	3	0	1	0	4	0	4	0	0	4	1	4	0	4	3	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		C	51363270	G	C	51363270	3	2	368	1	0	0	0	0	1	0	0	0	8405	1000	35	4	786	4	KLK3	19	51363270	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10	10460658	51363270	7765713	38	18625											
RPN2	6185	hgsc.bcm.edu;ucsc.edu	37	chr20	35842247	35842247	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagttgaaggtgacaaccgGtatattgcaaataccgtaga	15	9	11	6	2	0	3	0	2	0	1	0	4	0	3	2	2	3	4	2	2	8	6	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		A	35842247	G	A	35842247	2	1	368	1	0	0	0	0	0	0	0	1	13610	1248	44	2		2	RPN2	20	35842247	Silent	SNP	G	TCGA-CJ-4871-01A-01D-1373-10		35842247	27183273	39	18626											
ACTR5	79913	hgsc.bcm.edu	37	chr20	37394094	37394094	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggaagatgtggaaagcaTgaatgattttgatcccttgt	11	15	11	4	0	0	4	0	3	0	1	1	6	1	6	1	2	1	1	1	2	3	4	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	37394094	T	G	37394094	3	3	368	1	0	0	0	0	1	0	0	0	215	1464	51	5	1248	5	ACTR5	20	37394094	Missense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	1551847	37394094	25631426	40	18627											
R3HDML	140902	hgsc.bcm.edu;ucsc.edu	37	chr20	42969922	42969922	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttcacagctgatgagataCgtgggccagaacctctccat	10	9	9	13	1	2	3	1	2	1	2	3	4	2	3	4	1	3	1	4	1	2	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	42969922	C	T	42969922	2	4	368	1	0	0	0	0	0	0	0	1	12891	547	19	1		1	R3HDML	20	42969922	Silent	SNP	C	TCGA-CJ-4871-01A-01D-1373-10	5575828	42969922	20055598	41	18628											
C20orf106	0	hgsc.bcm.edu;ucsc.edu	37	chr20	55100907	55100914	+	Frame_Shift_Del	DEL	AAAGAAAA	AAAGAAAA	-																															ggccaacttcactctccattAaagaaaaaaagaaatgcttc																								novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	AAAGAAAA	AAAGAAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		-	55100914	AAAGAAAA	-	55100907	7	5	368	1	0	1	0	1	0	0	0	0	2076	359	13	0	303	0	C20orf106	20	55100907	Frame_Shift_Del	DEL	AAAGAAAA	TCGA-CJ-4871-01A-01D-1373-10	12130985	55100907	7924613	42	18629											
SON	6651	hgsc.bcm.edu;ucsc.edu	37	chr21	34922635	34922635	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttgccggagctgcctaaGaccacagcgttggagctgca	9	7	14	11	2	0	1	0	0	0	1	0	4	0	3	3	2	6	5	3	2	1	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	34922635	G	T	34922635	3	4	368	1	0	0	0	0	1	0	0	0	14928	933	33	4	1108	4	SON	21	34922635	Missense_Mutation	SNP	G	TCGA-CJ-4871-01A-01D-1373-10		34922635	13207260	43	18630											
PICK1	9463	hgsc.bcm.edu;ucsc.edu	37	chr22	38467740	38467740	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttttatgagctgtcgcAgactcaccggggtaatggca	8	10	13	10	2	1	2	1	1	0	1	2	2	1	2	2	4	1	4	2	4	2	3	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		T	38467740	A	T	38467740	3	4	368	1	0	0	0	0	1	0	0	0	11881	188	7	5	571	5	PICK1	22	38467740	Missense_Mutation	SNP	A	TCGA-CJ-4871-01A-01D-1373-10		38467740	12836826	44	18631											
PNPLA3	80339	hgsc.bcm.edu;ucsc.edu	37	chr22	44322980	44322980	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcaaaataggcatctctcTtaccagagtgtctgatgggg	10	10	12	9	1	3	2	0	1	3	1	4	2	3	2	1	4	1	2	1	4	4	2	novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		G	44322980	T	G	44322980	3	3	368	1	0	0	0	0	1	0	0	0	12166	1609	56	5	359	5	PNPLA3	22	44322980	Missense_Mutation	SNP	T	TCGA-CJ-4871-01A-01D-1373-10	5855240	44322980	6981586	45	18632											
KDM5C	8242	ucsc.edu	37	chrX	53250081	53250082	+	Frame_Shift_Del	DEL	AA	AA	-																															aagttgtccacttccacagcAaagggtggctgccagtcctg																								novel		TCGA-CJ-4871-01A-01D-1373-10	TCGA-CJ-4871-11A-01D-1373-10	AA	AA	AA	-	AA	AA	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	2fa24cc6-b7f4-4e68-987d-5338af3c9b35	249b12b1-3996-487f-8785-f4e3d64db9ba		-	53250082	AA	-	53250081	7	5	368	1	0	1	0	1	0	0	0	0	8135	127	5	0	4712	0	KDM5C	23	53250081	Frame_Shift_Del	DEL	AA	TCGA-CJ-4871-01A-01D-1373-10		53250081	102020479	46	18633											
ARTN	9048	hgsc.bcm.edu	37	chr1	44401722	44401722	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccccaagcccacctgggTgccctctttctccctgaggc	4	9	8	20	0	2	1	0	1	2	0	4	1	3	1	7	2	2	0	7	2	1	1	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	44401722	T	A	44401722	2	1	369	1	0	0	0	0	0	0	0	1	1001	1683	59	5		5	ARTN	1	44401722	Silent	SNP	T	TCGA-CJ-4872-01A-01D-1373-10		44401722	204848899	1	18634											
COL11A1	1301	hgsc.bcm.edu;ucsc.edu	37	chr1	103428247	103428247	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagcaccaggaagaccttGctcaccaggagggccaggag	11	4	14	12	0	1	1	1	0	0	1	1	4	1	4	4	4	3	3	4	4	1	1	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	103428247	G	A	103428247	4	1	369	1	0	0	0	0	0	1	0	0	3667	1328	46	2	2550	2	COL11A1	1	103428247	Nonsense_Mutation	SNP	G	TCGA-CJ-4872-01A-01D-1373-10	59026525	103428247	145822374	2	18635											
CRNN	49860	hgsc.bcm.edu	37	chr1	152384629	152384629	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagctcccctcgggtgagCgctgtgcagttgccctccgt	3	11	12	15	3	1	1	1	1	0	0	4	1	3	1	4	1	4	4	4	1	0	2	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	152384629	C	T	152384629	2	4	369	1	0	0	0	0	0	0	0	1	3892	755	27	1		1	CRNN	1	152384629	Silent	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	48956382	152384629	96865992	3	18636											
PARP1	142	hgsc.bcm.edu;ucsc.edu	37	chr1	226555205	226555205	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcagttttgagcttctcAtagttgacatcgatgggatc	9	15	10	7	1	2	2	2	2	1	0	5	4	2	3	0	1	1	3	0	1	1	5	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	226555205	A	T	226555205	4	4	369	1	0	0	0	0	0	1	0	0	11454	224	8	5	690	5	PARP1	1	226555205	Nonsense_Mutation	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	74170576	226555205	22695416	4	18637											
RAD51AP2	729475	hgsc.bcm.edu;ucsc.edu	37	chr2	17698114	17698114	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatactattatcttttttAtttcctgaaatacttttatg	13	21	2	5	0	1	1	0	1	1	0	2	1	2	1	1	0	2	0	1	0	9	10	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	17698114	A	G	17698114	2	3	369	1	0	0	0	0	0	0	0	1	12989	446	16	3		3	RAD51AP2	2	17698114	Silent	SNP	A	TCGA-CJ-4872-01A-01D-1373-10		17698114	225501259	5	18638											
APOB	338	hgsc.bcm.edu	37	chr2	21225280	21225280	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacatatgggatataatcActgaagattgtgttgatctc	15	13	8	5	0	2	3	1	2	1	1	3	4	2	4	0	1	1	1	0	1	6	5	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	21225280	A	G	21225280	2	3	369	1	0	0	0	0	0	0	0	1	785	156	6	3		3	APOB	2	21225280	Silent	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	3527166	21225280	221974093	6	18639											
UBXN2A	165324	hgsc.bcm.edu;ucsc.edu	37	chr2	24222556	24222556	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacagagtaagccatatcaAagacttcattgaaaaatacc	18	10	5	8	0	2	3	2	1	0	2	2	3	2	3	2	0	3	1	2	0	7	6	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	24222556	A	G	24222556	3	3	369	1	0	0	0	0	1	0	0	0	16913	14	1	3	621	3	UBXN2A	2	24222556	Missense_Mutation	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	2997276	24222556	218976817	7	18640											
C2orf39	0	hgsc.bcm.edu	37	chr2	26671607	26671607	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaccagagtcctacctggAtttgccgaagcaaatttctg	11	10	10	10	1	1	1	0	0	1	1	2	4	2	3	4	2	4	1	4	2	4	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	26671607	A	C	26671607	3	2	369	1	0	0	0	0	1	0	0	0	2164	333	12	5	1487	5	C2orf39	2	26671607	Missense_Mutation	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	2449051	26671607	216527766	8	18641											
SRBD1	55133	hgsc.bcm.edu;ucsc.edu	37	chr2	45800364	45800364	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgatgatggtgaatgttTcttatgttgcaggaaaaatg	12	14	11	4	0	1	3	0	3	1	0	1	4	1	4	1	2	1	3	1	2	4	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	45800364	T	C	45800364	2	2	369	1	0	0	0	0	0	0	0	1	15134	1780	62	3		3	SRBD1	2	45800364	Silent	SNP	T	TCGA-CJ-4872-01A-01D-1373-10	19128757	45800364	197399009	9	18642											
SETD2	29072	ucsc.edu	37	chr3	47164928	47164928	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagatctgctccgccgtcGctctctttctgatctacatc	5	14	8	14	3	4	2	0	2	4	1	8	3	5	2	2	0	2	2	2	0	1	2	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	47164928	G	A	47164928	4	1	369	1	0	0	0	0	0	1	0	0	14133	1095	38	1	6572	1	SETD2	3	47164928	Nonsense_Mutation	SNP	G	TCGA-CJ-4872-01A-01D-1373-10		47164928	150857502	10	18643											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52661288	52661288	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctataagaagagtatataCctttttcttttggcactacc	12	15	6	8	0	1	2	0	0	1	2	1	2	1	2	2	1	3	3	2	1	7	10	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	52661288	C	A	52661288	5	1	369	1	0	0	0	0	0	0	1	0	11491	521	18	4	3430	4	PBRM1	3	52661288	Splice_Site	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	5496360	52661288	145361142	11	18644											
LRIG1	26018	hgsc.bcm.edu;ucsc.edu	37	chr3	66463415	66463415	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaggccctctatcagcCgaatcctgttccgattgagg	8	10	12	11	2	2	2	1	2	1	0	4	4	4	2	4	3	1	1	4	3	2	3	rs142754753		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	66463415	C	T	66463415	3	4	369	1	0	0	0	0	1	0	0	0	8944	652	23	1	2666	1	LRIG1	3	66463415	Missense_Mutation	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	13802127	66463415	131559015	12	18645											
GBE1	2632	hgsc.bcm.edu;ucsc.edu	37	chr3	81635323	81635323	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaattggagagcacagagCtggcattcctgatacatcct	12	9	11	9	0	0	3	0	1	0	2	2	5	2	4	2	3	3	3	2	3	2	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	81635323	C	A	81635323	3	1	369	1	0	0	0	0	1	0	0	0	6270	797	28	4	881	4	GBE1	3	81635323	Missense_Mutation	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	15171908	81635323	116387107	13	18646											
PFN2	5217	hgsc.bcm.edu;ucsc.edu	37	chr3	149684027	149684027	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcctccgtggacacctTcctttcccatgactataacc	7	12	7	15	1	0	1	0	1	0	0	3	2	3	2	6	1	2	0	6	1	2	4	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	149684027	T	G	149684027	3	3	369	1	0	0	0	0	1	0	0	0	11768	1783	62	5	76	5	PFN2	3	149684027	Missense_Mutation	SNP	T	TCGA-CJ-4872-01A-01D-1373-10	68048704	149684027	48338403	14	18647											
PIK3CA	5290	hgsc.bcm.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacgagatcctctctctGaaatcactgagcaggagaaa	14	8	8	11	1	3	4	1	2	2	2	5	6	4	4	1	1	2	1	1	1	3	1	rs121913273		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	178936082	G	A	178936082	3	1	369	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1658	2	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-CJ-4872-01A-01D-1373-10	29252055	178936082	19086348	15	18648											
HEATR7B2	0	hgsc.bcm.edu;ucsc.edu	37	chr5	41000336	41000336	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actcaccagtttcacacagaAttgcctgtagaaatccctgg	12	10	7	12	0	2	2	2	0	0	2	3	2	3	2	3	1	1	2	3	1	3	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	41000336	A	T	41000336	3	4	369	1	0	0	0	0	1	0	0	0	7035	101	4	5	305	5	HEATR7B2	5	41000336	Missense_Mutation	SNP	A	TCGA-CJ-4872-01A-01D-1373-10		41000336	139914924	16	18649											
TNRC18	84629	hgsc.bcm.edu	37	chr7	5401349	5401349	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatggggttcctcgcgccTgtcccttaaaaagaatcaca	10	11	8	12	2	2	1	1	0	1	1	5	1	4	1	3	2	0	1	3	2	5	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	5401349	T	C	5401349	3	2	369	1	0	0	0	0	1	0	0	0	16338	1579	55	3	4437	3	TNRC18	7	5401349	Missense_Mutation	SNP	T	TCGA-CJ-4872-01A-01D-1373-10		5401349	153737314	17	18650											
HECW1	23072	hgsc.bcm.edu;ucsc.edu	37	chr7	43531769	43531769	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaacatcaacatgagtcAttgccactgggtatgtatca	13	10	8	10	0	3	1	3	1	0	0	3	1	3	1	2	1	4	2	2	1	4	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	43531769	A	G	43531769	2	3	369	1	0	0	0	0	0	0	0	1	7042	204	8	3		3	HECW1	7	43531769	Silent	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	38130420	43531769	115606894	18	18651											
LANCL2	55915	hgsc.bcm.edu	37	chr7	55466150	55466150	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctgcagttgtaccgggtCacatgtgaccaaacctacct	10	10	8	13	1	1	1	1	1	0	0	1	1	1	1	5	1	5	3	5	1	4	4	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	55466150	C	T	55466150	2	4	369	1	0	0	0	0	0	0	0	1	8621	813	29	2		2	LANCL2	7	55466150	Silent	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	11934381	55466150	103672513	19	18652											
USP54	159195	hgsc.bcm.edu;ucsc.edu	37	chr10	75294440	75294440	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcagaagagaagtgactGaccacagactcatggtggga	15	6	13	7	0	2	5	2	2	0	3	2	8	2	6	1	2	0	0	1	2	3	0	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	75294440	G	T	75294440	2	4	369	1	0	0	0	0	0	0	0	1	17084	1277	45	4		4	USP54	10	75294440	Silent	SNP	G	TCGA-CJ-4872-01A-01D-1373-10		75294440	60240307	20	18653											
PLEKHA7	144100	hgsc.bcm.edu	37	chr11	16838758	16838758	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtttcggggaggtggCgaggagccccccgaggggtg	5	5	22	9	3	0	0	0	0	0	0	1	4	0	2	3	9	1	2	3	9	0	1	rs35497498	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	16838758	C	G	16838758	2	3	369	1	0	0	0	0	0	0	0	1	12061	755	27	4		4	PLEKHA7	11	16838758	Silent	SNP	C	TCGA-CJ-4872-01A-01D-1373-10		16838758	118167758	21	18654											
CDK2AP2	10263	hgsc.bcm.edu	37	chr11	67274954	67274954	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgggagccctgggcgccGggtggcttcatcgcctatgt	3	10	15	13	3	2	0	1	0	1	0	3	1	2	1	3	4	1	1	3	4	1	2	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	67274954	G	C	67274954	2	2	369	1	0	0	0	0	0	0	0	1	3139	1103	39	4		4	CDK2AP2	11	67274954	Silent	SNP	G	TCGA-CJ-4872-01A-01D-1373-10	50436196	67274954	67731562	22	18655											
MRPS35	60488	hgsc.bcm.edu;ucsc.edu	37	chr12	27877103	27877103	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcggaaccccagagcacGagtagtagtcttaagagtaa	13	9	11	8	2	1	2	0	0	1	2	2	4	1	3	2	1	2	5	2	1	5	5	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	27877103	G	T	27877103	3	4	369	1	0	0	0	0	1	0	0	0	9844	1058	37	4	524	4	MRPS35	12	27877103	Missense_Mutation	SNP	G	TCGA-CJ-4872-01A-01D-1373-10		27877103	105974792	23	18656											
KRT2	3849	hgsc.bcm.edu	37	chr12	53042852	53042852	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtccaccttggactgcAactccacctttatcatgtag	9	11	8	13	0	1	0	1	0	0	0	3	1	3	1	4	2	2	3	4	2	3	4	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	53042852	A	C	53042852	3	2	369	1	0	0	0	0	1	0	0	0	8457	131	5	5	1047	5	KRT2	12	53042852	Missense_Mutation	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	25165749	53042852	80809043	24	18657											
ITPKA	3706	hgsc.bcm.edu	37	chr15	41794987	41794987	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaccccaccctctgcagaGgcggtatctgaaccgcctgc	7	6	9	19	2	2	2	0	1	2	1	2	2	2	2	6	2	3	2	6	2	2	1	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	41794987	G	C	41794987	3	2	369	1	0	0	0	0	1	0	0	0	7917	1014	35	4	1134	4	ITPKA	15	41794987	Missense_Mutation	SNP	G	TCGA-CJ-4872-01A-01D-1373-10		41794987	60736405	25	18658											
TLN2	83660	hgsc.bcm.edu	37	chr15	63040617	63040617	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctccgggccagaaagagTgcgataatgccctgcgggag	11	5	15	10	3	0	2	0	0	0	2	1	4	1	3	3	2	4	1	3	2	3	1	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	63040617	T	C	63040617	3	2	369	1	0	0	0	0	1	0	0	0	15947	1696	59	3	4211	3	TLN2	15	63040617	Missense_Mutation	SNP	T	TCGA-CJ-4872-01A-01D-1373-10	21245630	63040617	39490775	26	18659											
LRRC49	54839	hgsc.bcm.edu;ucsc.edu	37	chr15	71211393	71211393	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctattttctttaacagattaCcaaaattgaaaatattaatc	17	16	2	6	0	1	2	0	1	1	1	2	2	1	2	1	0	2	0	1	0	9	9	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	71211393	C	G	71211393	3	3	369	1	0	0	0	0	1	0	0	0	9006	507	18	4	598	4	LRRC49	15	71211393	Missense_Mutation	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	8170776	71211393	31319999	27	18660											
PGPEP1L	145814	hgsc.bcm.edu	37	chr15	99511807	99511808	+	Frame_Shift_Ins	INS	-	-	T																															catttcctggatgatgactcINStcaaggctcttcccagcagg																								novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	99511808	-	T	99511807	7	5	369	1	0	1	1	0	0	0	0	0	11804	913	32	0	103	0	PGPEP1L	15	99511807	Frame_Shift_Ins	INS	-	TCGA-CJ-4872-01A-01D-1373-10	28300414	99511807	3019585	28	18661											
ZNF48	197407	hgsc.bcm.edu;ucsc.edu	37	chr16	30408855	30408855	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagcctcgggacagaggccCccggctcctgggtgaaccac	7	5	13	16	2	1	2	1	1	0	1	3	3	2	3	5	4	2	1	5	4	1	0	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	30408855	C	A	30408855	3	1	369	1	0	0	0	0	1	0	0	0	17933	623	22	4	290	4	ZNF48	16	30408855	Missense_Mutation	SNP	C	TCGA-CJ-4872-01A-01D-1373-10		30408855	59945898	29	18662											
GRB7	2886	hgsc.bcm.edu	37	chr17	37899216	37899216	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagcaggtgccacagcTcgccacgtgtgtgaaatgct	8	8	14	11	2	0	1	0	1	0	0	1	1	0	1	2	2	4	4	2	2	1	0	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	37899216	T	A	37899216	2	1	369	1	0	0	0	0	0	0	0	1	6759	1538	54	5		5	GRB7	17	37899216	Silent	SNP	T	TCGA-CJ-4872-01A-01D-1373-10		37899216	43295994	30	18663											
KCNH6	81033	hgsc.bcm.edu;ucsc.edu	37	chr17	61622984	61622984	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagaccccaagctatggAgacttggatgactgtagtcc	10	9	10	12	0	0	3	0	1	0	2	2	5	2	4	4	2	1	2	4	2	3	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		C	61622984	A	C	61622984	2	2	369	1	0	0	0	0	0	0	0	1	8036	291	11	5		5	KCNH6	17	61622984	Silent	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	23723768	61622984	19572226	31	18664											
LASS4	0	hgsc.bcm.edu	37	chr19	8316056	8316056	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagaccgggatggccgtgtCtacccccacccccaggactt	8	6	11	16	2	1	1	0	0	1	1	1	4	1	3	6	3	1	0	6	3	2	2	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		T	8316056	C	T	8316056	2	4	369	1	0	0	0	0	0	0	0	1	8641	900	32	2		2	LASS4	19	8316056	Silent	SNP	C	TCGA-CJ-4872-01A-01D-1373-10		8316056	50812927	32	18665											
MTP18	0	hgsc.bcm.edu	37	chr22	30824553	30824553	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctggcctgtgcatcggcCtcctgcttcatgtcaacctc	5	12	8	16	1	2	0	2	0	0	0	5	0	3	0	5	2	4	2	5	2	2	2	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	30824553	C	A	30824553	2	1	369	1	0	0	0	0	0	0	0	1	9955	668	24	4		4	MTP18	22	30824553	Silent	SNP	C	TCGA-CJ-4872-01A-01D-1373-10		30824553	20480013	33	18666											
BRD1	23774	hgsc.bcm.edu	37	chr22	50187881	50187881	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcgagcatgtccagcagCtctctcagctgctcctccag	7	9	10	15	1	2	0	1	0	1	0	7	1	5	0	3	1	5	5	3	1	0	0	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	50187881	C	G	50187881	3	3	369	1	0	0	0	0	1	0	0	0	1501	796	28	4	1044	4	BRD1	22	50187881	Missense_Mutation	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	19363328	50187881	1116685	34	18667											
CA5B	11238	hgsc.bcm.edu	37	chrX	15768226	15768226	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaaagttccagattccgaGattcatgccagcgaggccct	11	8	11	11	2	1	3	1	0	0	3	3	6	3	3	4	1	2	1	4	1	1	3	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	15768226	G	A	15768226	3	1	369	1	0	0	0	0	1	0	0	0	2520	942	33	2	82	2	CA5B	23	15768226	Missense_Mutation	SNP	G	TCGA-CJ-4872-01A-01D-1373-10		15768226	139502334	35	18668											
CDKL5	6792	hgsc.bcm.edu;ucsc.edu	37	chrX	18616730	18616730	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaagcagcacattgtctaAtaggtaaatattccctttta	14	13	7	7	0	1	0	0	0	1	0	2	1	2	1	1	2	2	3	1	2	7	8	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		G	18616730	A	G	18616730	3	3	369	1	0	0	0	0	1	0	0	0	3157	101	4	3	1012	3	CDKL5	23	18616730	Missense_Mutation	SNP	A	TCGA-CJ-4872-01A-01D-1373-10	2848504	18616730	136653830	36	18669											
EFHC2	80258	hgsc.bcm.edu;ucsc.edu	37	chrX	44091880	44091880	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagacttcttgtccaggCttcttaacgcgacttctttt	8	17	6	10	2	3	1	0	0	3	1	4	2	4	1	1	1	1	1	1	1	3	8	novel		TCGA-CJ-4872-01A-01D-1373-10	TCGA-CJ-4872-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	50b5e8ef-90f7-46e3-93b1-7836a42aa091	679d58f1-8637-4b80-a6b5-7149ace6df75		A	44091880	C	A	44091880	3	1	369	1	0	0	0	0	1	0	0	0	4947	796	28	4	806	4	EFHC2	23	44091880	Missense_Mutation	SNP	C	TCGA-CJ-4872-01A-01D-1373-10	25475150	44091880	111178680	37	18670											
VHL	7428	hgsc.bcm.edu	37	chr3	10183863	10183863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggccgccgcatccacaGctaccgaggtacgggcccgg	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-CJ-4872-01A-01W-1369-10	TCGA-CJ-4872-11A-01W-1369-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	9a38067c-7a4e-48d5-801e-06f5372fbc70	670ff7c5-0b0c-4af7-ba25-6cc8d5b5562b		A	10183863	G	A	10183863	3	1	370	1	0	0	0	0	1	0	0	0	17161	971	34	2	334	2	VHL	3	10183863	Missense_Mutation	SNP	G	TCGA-CJ-4872-01A-01W-1369-10		10183863	187838567	1	18671											
ZMYM1	79830	hgsc.bcm.edu;ucsc.edu	37	chr1	35576005	35576005	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcttttctgctctattaaTtgtttctctgcatacagtaa	9	18	6	8	0	3	0	0	0	3	0	4	1	3	0	0	0	4	5	0	0	4	8	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	35576005	T	C	35576005	2	2	371	1	0	0	0	0	0	0	0	1	17698	1490	52	3		3	ZMYM1	1	35576005	Silent	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		35576005	213674616	1	18672											
EIF2C3	192669	hgsc.bcm.edu	37	chr1	36474310	36474310	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgaaggttgaagtgacTcattgtggaacaatgagacg	12	11	14	4	1	1	4	1	4	0	1	1	6	1	5	0	3	1	2	0	3	4	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	36474310	T	A	36474310	2	1	371	1	0	0	0	0	0	0	0	1	5007	1538	54	5		5	EIF2C3	1	36474310	Silent	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	898305	36474310	212776311	2	18673											
PTPRF	5792	hgsc.bcm.edu;ucsc.edu	37	chr1	44057602	44057602	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aactggtgtactgggcggcaGaggacgaagaccaacaggtg	12	5	16	8	2	0	2	0	0	0	2	0	4	0	3	1	5	3	2	1	5	4	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	44057602	G	C	44057602	3	2	371	1	0	0	0	0	1	0	0	0	12803	943	33	4	1681	4	PTPRF	1	44057602	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	7583292	44057602	205193019	3	18674											
SCP2	6342	hgsc.bcm.edu;ucsc.edu	37	chr1	53480709	53480709	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagatgggttttccggaagCcgccaggtgagtgacattca	10	9	13	9	2	1	3	1	2	0	1	2	4	2	4	3	3	1	1	3	3	2	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	53480709	C	A	53480709	3	1	371	1	0	0	0	0	1	0	0	0	13936	739	26	4	1299	4	SCP2	1	53480709	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	9423107	53480709	195769912	4	18675											
URB2	9816	hgsc.bcm.edu;ucsc.edu	37	chr1	229773001	229773001	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtccctggtcaagagtGacttccctatccagctggag	8	11	10	12	0	1	2	1	1	0	1	4	3	4	3	3	2	2	1	3	2	3	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	229773001	G	T	229773001	3	4	371	1	0	0	0	0	1	0	0	0	17024	1290	45	4	2651	4	URB2	1	229773001	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	176292292	229773001	19477620	5	18676											
LYST	1130	hgsc.bcm.edu;ucsc.edu	37	chr1	235904825	235904825	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagcgtgggctggcgacAaaatatgcactagtagtctc	10	9	13	9	2	1	0	0	0	1	0	2	1	1	0	0	2	3	4	0	2	5	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	235904825	A	C	235904825	3	2	371	1	0	0	0	0	1	0	0	0	9128	131	5	5	3242	5	LYST	1	235904825	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	6131824	235904825	13345796	6	18677											
OR2C3	81472	hgsc.bcm.edu	37	chr1	247695344	247695344	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcgtggagcccaccatgCtggtggtcagaccccccagc	7	6	13	15	1	1	2	1	1	0	1	1	3	1	3	5	3	4	1	5	3	0	0	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	247695344	C	T	247695344	3	4	371	1	0	0	0	0	1	0	0	0	10993	797	28	2	496	2	OR2C3	1	247695344	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	11790519	247695344	1555277	7	18678											
EML4	27436	hgsc.bcm.edu;ucsc.edu	37	chr2	42510110	42510110	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccatacagactgtgtgaaAtggttggtatcatttaacat	12	13	10	6	0	1	2	1	1	0	1	1	2	1	2	1	3	2	2	1	3	4	5	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	42510110	A	G	42510110	2	3	371	1	0	0	0	0	0	0	0	1	5099	98	4	3		3	EML4	2	42510110	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		42510110	200689263	8	18679											
MSH6	2956	hgsc.bcm.edu;ucsc.edu	37	chr2	48027971	48027971	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagagaaaatgaacagaGcctcctggaatacctagaga	18	6	9	8	0	0	4	0	1	0	3	1	7	1	5	3	1	3	0	3	1	7	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	48027971	G	T	48027971	3	4	371	1	0	0	0	0	1	0	0	0	9874	971	34	4	2863	4	MSH6	2	48027971	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	5517861	48027971	195171402	9	18680											
SLC40A1	30061	hgsc.bcm.edu;ucsc.edu	37	chr2	190428477	190428477	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattgactctccttgaatgAaccttgatcggatatcttca	11	15	6	9	1	3	4	1	4	2	0	5	5	3	5	2	1	1	0	2	1	4	6	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	190428477	A	T	190428477	3	4	371	1	0	0	0	0	1	0	0	0	14630	246	9	5	488	5	SLC40A1	2	190428477	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	142400506	190428477	52770896	10	18681											
IKZF2	22807	hgsc.bcm.edu;ucsc.edu	37	chr2	213872774	213872774	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaagttcatatcaaagtgAatatctgggtagctgaatcg	13	13	10	5	1	3	2	2	2	1	0	4	2	3	2	0	1	1	4	0	1	7	5	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	213872774	A	G	213872774	2	3	371	1	0	0	0	0	0	0	0	1	7615	242	9	3		3	IKZF2	2	213872774	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	23444297	213872774	29326599	11	18682											
STK11IP	114790	hgsc.bcm.edu	37	chr2	220466384	220466384	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtccatgttgctggtcctGgccccacagggcccatcaag	6	9	12	14	0	1	0	1	0	0	0	3	0	3	0	5	4	1	2	5	4	1	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	220466384	G	T	220466384	3	4	371	1	0	0	0	0	1	0	0	0	15289	1348	47	4	336	4	STK11IP	2	220466384	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	6593610	220466384	22732989	12	18683											
SEPT2	4735	hgsc.bcm.edu	37	chr2	242276812	242276812	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcagttttaagacaattatCtcctatattgatgagcaatt	13	16	5	7	0	2	3	1	2	1	1	3	3	2	3	1	0	1	2	1	0	6	7	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	242276812	C	G	242276812	3	3	371	1	0	0	0	0	1	0	0	0	14066	903	32	4	375	4	SEPT2	2	242276812	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	21810428	242276812	922561	13	18684											
HYAL1	3373	hgsc.bcm.edu;ucsc.edu	37	chr3	50338003	50338003	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccatctgtgcctgatcttCaagtgagagggcaccccgca	9	8	11	13	1	3	2	1	2	2	1	3	3	3	2	4	1	2	2	4	1	1	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	50338003	C	T	50338003	3	4	371	1	0	0	0	0	1	0	0	0	7463	835	29	2	92	2	HYAL1	3	50338003	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10		50338003	147684427	14	18685											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52442023	52442023	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatgcgactcagggtgggtCccaggtccacgctgctgcag	6	8	14	13	2	2	0	2	0	0	0	4	1	4	0	2	3	3	3	2	3	0	0	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	52442023	C	A	52442023	3	1	371	1	0	0	0	0	1	0	0	0	1311	855	30	4	1915	4	BAP1	3	52442023	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	2104020	52442023	145580407	15	18686											
PIK3CA	5290	hgsc.bcm.edu;ucsc.edu	37	chr3	178948101	178948101	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccatttgttttgacacAggatttcttaatagtgatta	10	18	8	5	0	1	2	0	2	1	0	1	3	1	3	1	1	1	1	1	1	3	7	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	178948101	A	G	178948101	3	3	371	1	0	0	0	0	1	0	0	0	11913	188	7	3	2947	3	PIK3CA	3	178948101	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	126506078	178948101	19074329	16	18687											
FAM13A	10144	hgsc.bcm.edu;ucsc.edu	37	chr4	89702427	89702427	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatttttgtgtaccttttcGacttcctgagtattcaaaat	9	19	6	7	1	1	1	1	1	0	0	3	2	2	1	2	0	1	3	2	0	5	9	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	89702427	G	T	89702427	2	4	371	1	0	0	0	0	0	0	0	1	5452	1045	37	4		4	FAM13A	4	89702427	Silent	SNP	G	TCGA-CJ-4873-01A-01D-1373-10		89702427	101451849	17	18688											
CEP72	55722	hgsc.bcm.edu;ucsc.edu	37	chr5	624633	624633	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaggcttcccgactgcatTttgcatcagaggactcactc	9	10	10	12	1	2	1	2	0	0	1	4	4	3	3	1	3	2	3	1	3	1	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	624633	T	A	624633	3	1	371	1	0	0	0	0	1	0	0	0	3260	1841	64	5	465	5	CEP72	5	624633	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		624633	180290627	18	18689											
TRIP13	9319	hgsc.bcm.edu;ucsc.edu	37	chr5	916029	916029	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctttacacaggaagagcgagGgcctcagcggccgggtcctg	8	6	15	12	3	1	1	1	0	0	1	2	3	2	2	3	4	3	0	3	4	2	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	916029	G	A	916029	3	1	371	1	0	0	0	0	1	0	0	0	16556	1232	43	2	1194	2	TRIP13	5	916029	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	291396	916029	179999231	19	18690											
PDZD2	23037	hgsc.bcm.edu;ucsc.edu	37	chr5	32089022	32089022	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaccgagaaggaacaacCtctaatgcctgccagaagtc	16	5	8	12	1	1	2	0	0	1	2	2	4	1	3	4	1	5	0	4	1	7	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	32089022	C	A	32089022	3	1	371	1	0	0	0	0	1	0	0	0	11701	681	24	4	5542	4	PDZD2	5	32089022	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	31172993	32089022	148826238	20	18691											
SPEF2	79925	hgsc.bcm.edu;ucsc.edu	37	chr5	35800103	35800103	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tatttgctgactatgagaagGatccaccccagcttgactac	11	11	8	11	0	0	3	0	3	0	1	1	5	1	4	3	1	3	2	3	1	4	5	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	35800103	G	C	35800103	3	2	371	1	0	0	0	0	1	0	0	0	15036	1174	41	4	5019	4	SPEF2	5	35800103	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	3711081	35800103	145115157	21	18692											
DAB2	1601	hgsc.bcm.edu	37	chr5	39382723	39382723	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagaagacaattcaccttAgcagtccttctgcctcttcc	9	12	7	13	0	3	2	1	0	2	2	5	3	5	2	4	1	2	1	4	1	3	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	39382723	A	C	39382723	2	2	371	1	0	0	0	0	0	0	0	1	4218	407	15	5		5	DAB2	5	39382723	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	3582620	39382723	141532537	22	18693											
CDKL3	51265	hgsc.bcm.edu;ucsc.edu	37	chr5	133643866	133643866	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatttgaactgagatttgCagccatcaaattactgttag	13	13	9	6	0	1	3	1	2	0	2	1	5	1	3	1	0	4	2	1	0	4	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	133643866	C	A	133643866	3	1	371	1	0	0	0	0	1	0	0	0	3155	710	25	4	475	4	CDKL3	5	133643866	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	94261143	133643866	47271394	23	18694											
HARS	3035	hgsc.bcm.edu;ucsc.edu	37	chr5	140057269	140057269	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtctactgaggagcagaTggtacggaacttgctgtcag	9	11	13	8	1	2	2	1	1	1	1	2	4	2	4	0	3	5	3	0	3	3	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	140057269	T	C	140057269	3	2	371	1	0	0	0	0	1	0	0	0	6959	1464	51	3	857	3	HARS	5	140057269	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	6413403	140057269	40857991	24	18695											
MAML1	9794	hgsc.bcm.edu	37	chr5	179195993	179195993	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgtaatgaagcagcatcAgttgcttttggaccaacaga	12	10	10	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	6	1	1	3	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	179195993	A	G	179195993	3	3	371	1	0	0	0	0	1	0	0	0	9205	188	7	3	1884	3	MAML1	5	179195993	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	39138724	179195993	1719267	25	18696											
MGAT4B	11282	hgsc.bcm.edu	37	chr5	179228972	179228972	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacgtccacaacgtcgcctGcaggtggtaggcaagccgtc	10	6	12	13	4	0	0	0	0	0	0	3	0	1	0	3	3	4	3	3	3	4	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	179228972	G	T	179228972	3	4	371	1	0	0	0	0	1	0	0	0	9546	1319	46	4	1607	4	MGAT4B	5	179228972	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	32979	179228972	1686288	26	18697											
BAI3	577	hgsc.bcm.edu;ucsc.edu	37	chr6	69685178	69685178	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggagtggccttctgggaAcagccgagctttgcaagatg	9	9	14	9	1	1	1	0	0	1	1	1	4	1	3	2	3	4	2	2	3	2	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	69685178	A	G	69685178	2	3	371	1	0	0	0	0	0	0	0	1	1300	40	2	3		3	BAI3	6	69685178	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		69685178	101429889	27	18698											
C6orf97	0	hgsc.bcm.edu	37	chr6	151857578	151857578	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgaatgtgctcagtcTgaggtaagataatgcatttc	13	14	9	5	0	2	3	1	2	1	1	3	3	2	3	0	1	2	3	0	1	4	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	151857578	T	C	151857578	2	2	371	1	0	0	0	0	0	0	0	1	2374	1567	55	3		3	C6orf97	6	151857578	Silent	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	82172400	151857578	19257489	28	18699											
HECW1	23072	hgsc.bcm.edu	37	chr7	43484310	43484310	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaggagggagatgtgtcTaccctggagcagggagaggg	10	5	21	5	0	1	2	0	0	1	2	1	8	1	5	1	6	2	1	1	6	1	1	rs73098706	bycluster;by1000genomes	TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	43484310	T	C	43484310	2	2	371	1	0	0	0	0	0	0	0	1	7042	1509	53	3		3	HECW1	7	43484310	Silent	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		43484310	115654353	29	18700											
ABCB4	5244	hgsc.bcm.edu;ucsc.edu	37	chr7	87049340	87049340	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcattgctttaaaagccaTtgaccgcagtcttctggtga	10	13	9	9	1	2	2	0	2	2	0	2	2	2	2	2	1	3	3	2	1	3	6	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	87049340	T	C	87049340	3	2	371	1	0	0	0	0	1	0	0	0	43	1493	52	3	1532	3	ABCB4	7	87049340	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	43565030	87049340	72089323	30	18701											
MBLAC1	255374	hgsc.bcm.edu;ucsc.edu	37	chr7	99725646	99725646	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcaggcactgagtgaagacCccgcagcccaggagcggagc	10	2	16	13	2	0	3	0	2	0	1	0	5	0	5	3	4	3	3	3	4	1	0	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	99725646	C	A	99725646	3	1	371	1	0	0	0	0	1	0	0	0	9351	623	22	4	630	4	MBLAC1	7	99725646	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	12676306	99725646	59413017	31	18702											
AKR1B15	441282	hgsc.bcm.edu	37	chr7	134261183	134261183	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaaaaaaaccacagcccagGtaccatatttttatttttct	15	13	3	10	0	1	0	0	0	1	0	1	0	1	0	3	1	3	1	3	1	6	7	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	134261183	G	A	134261183	5	1	371	1	0	0	0	0	0	0	1	0	468	1275	44	2	852	2	AKR1B15	7	134261183	Splice_Site	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	34535537	134261183	24877480	32	18703											
ZNF862	643641	hgsc.bcm.edu;ucsc.edu	37	chr7	149559020	149559020	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcggatagggagaggaCagtcctgacggggattgagt	10	6	18	7	2	0	3	0	2	0	1	1	7	1	6	2	6	0	0	2	6	1	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	149559020	C	T	149559020	3	4	371	1	0	0	0	0	1	0	0	0	18194	478	17	2	2797	2	ZNF862	7	149559020	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	15297837	149559020	9579643	33	18704											
GBA2	57704	hgsc.bcm.edu;ucsc.edu	37	chr9	35738047	35738047	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcacctcagtgtctcctTctcctaggccacaggccttc	5	12	6	18	0	4	0	2	0	3	0	8	0	4	0	5	2	0	0	5	2	1	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	35738047	T	C	35738047	3	2	371	1	0	0	0	0	1	0	0	0	6267	1783	62	3	495	3	GBA2	9	35738047	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		35738047	105475384	34	18705											
ABCA1	19	hgsc.bcm.edu;ucsc.edu	37	chr9	107573139	107573139	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttccaggctggggtactTgccaaagggtggcacgatca	10	8	14	9	1	1	0	1	0	0	0	2	1	2	0	2	5	2	4	2	5	3	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	107573139	T	C	107573139	3	2	371	1	0	0	0	0	1	0	0	0	28	1821	63	3	2756	3	ABCA1	9	107573139	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	71835092	107573139	33640292	35	18706											
TBC1D12	23232	hgsc.bcm.edu;ucsc.edu	37	chr10	96291048	96291048	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatggggaagaatttttatTtaggactggattaggaatcc	13	13	12	3	0	0	2	0	0	0	2	1	6	1	6	1	5	0	0	1	5	6	6	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	96291048	T	A	96291048	3	1	371	1	0	0	0	0	1	0	0	0	15600	1841	64	5	2136	5	TBC1D12	10	96291048	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		96291048	39243699	36	18707											
OR51B4	79339	hgsc.bcm.edu;ucsc.edu	37	chr11	5322937	5322937	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctagcagcaggacaccCaggactgtgggcattgtagt	9	9	14	9	0	1	0	0	0	1	0	1	2	1	2	1	4	2	4	1	4	2	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	5322937	C	T	5322937	2	4	371	1	0	0	0	0	0	0	0	1	11090	581	21	2		2	OR51B4	11	5322937	Silent	SNP	C	TCGA-CJ-4873-01A-01D-1373-10		5322937	129683579	37	18708											
SLC22A11	55867	hgsc.bcm.edu;ucsc.edu	37	chr11	64326672	64326672	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccatcttcatgtccgggatCctggtgggctcctttatctg	4	15	10	12	1	3	0	1	0	2	0	7	1	7	1	4	3	0	1	4	3	1	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	64326672	C	T	64326672	2	4	371	1	0	0	0	0	0	0	0	1	14444	845	30	2		2	SLC22A11	11	64326672	Silent	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	59003735	64326672	70679844	38	18709											
TMPRSS5	80975	hgsc.bcm.edu;ucsc.edu	37	chr11	113568092	113568103	+	In_Frame_Del	DEL	CTCACTTGCGCT	CTCACTTGCGCT	-																															ggagccagcgtggctgatccCtcacttgcgcttccagcaag																								novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	CTCACTTGCGCT	CTCACTTGCGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		-	113568103	CTCACTTGCGCT	-	113568092	7	5	371	1	0	1	0	1	0	0	0	0	16249	681	24	0	1032	0	TMPRSS5	11	113568092	In_Frame_Del	DEL	CTCACTTGCGCT	TCGA-CJ-4873-01A-01D-1373-10	49241420	113568092	21438424	39	18710											
VWF	7450	hgsc.bcm.edu;ucsc.edu	37	chr12	6180476	6180476	+	Silent	SNP	A	A	G																															cgcctacctggacattcttcAttgctgcagatccactggct																								novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	6180476	A	G	6180476	2	3	371	1	0	0	0	0	0	0	0	1	17245	214	8	3		3	VWF	12	6180476	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		6180476	127671419	40	18711	260	2									
VWF	7450	hgsc.bcm.edu;ucsc.edu	37	chr12	6180485	6180485	+	Silent	SNP	G	G	T																															ggacattcttcattgctgcaGatccactggctgtttcggca																								novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	6180485	G	T	6180485	2	4	371	1	0	0	0	0	0	0	0	1	17245	932	33	4		4	VWF	12	6180485	Silent	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	9	6180485	127671410	41	18712	260	2									
CD4	920	hgsc.bcm.edu	37	chr12	6909481	6909481	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttccacttagcgctcctcCcagcagccactcagggaaag	9	9	8	15	1	1	0	1	0	0	0	4	1	4	1	4	1	3	2	4	1	2	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	6909481	C	T	6909481	3	4	371	1	0	0	0	0	1	0	0	0	3014	623	22	2	64	2	CD4	12	6909481	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	728996	6909481	126942414	42	18713											
SPATS2	65244	hgsc.bcm.edu;ucsc.edu	37	chr12	49884479	49884479	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacaggtagtgccagtgaaGtactcaaagaatggacagta	15	9	11	6	0	1	2	1	1	0	1	1	3	1	3	1	2	3	3	1	2	7	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	49884479	G	A	49884479	3	1	371	1	0	0	0	0	1	0	0	0	15020	1029	36	2	243	2	SPATS2	12	49884479	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	42974998	49884479	83967416	43	18714											
SMARCD1	6602	hgsc.bcm.edu;ucsc.edu	37	chr12	50481179	50481179	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgaattttcatttctaacActttcaatccggctaagtca	11	15	5	10	2	4	0	3	0	1	0	5	1	5	0	1	1	2	1	1	1	4	6	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	50481179	A	T	50481179	3	4	371	1	0	0	0	0	1	0	0	0	14779	159	6	5	583	5	SMARCD1	12	50481179	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	596700	50481179	83370716	44	18715											
KIAA0748	0	hgsc.bcm.edu;ucsc.edu	37	chr12	55356811	55356811	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggggcatgtgtacagacAcatcttggagatggctttcc	8	11	13	9	1	1	2	0	0	1	2	3	3	2	2	1	4	1	3	1	4	1	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	55356811	A	G	55356811	3	3	371	1	0	0	0	0	1	0	0	0	8190	159	6	3	702	3	KIAA0748	12	55356811	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	4875632	55356811	78495084	45	18716											
SLC17A8	246213	hgsc.bcm.edu	37	chr12	100796248	100796248	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagagggggccaacgtggtTagtctaagtgtaagtataaa	13	9	15	4	1	1	1	0	0	1	1	1	2	1	1	1	4	1	3	1	4	7	5	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	100796248	T	C	100796248	2	2	371	1	0	0	0	0	0	0	0	1	14425	1741	61	3		3	SLC17A8	12	100796248	Silent	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	45439437	100796248	33055647	46	18717											
PAH	5053	hgsc.bcm.edu;ucsc.edu	37	chr12	103246688	103246688	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaagaaatcccgagaggaAagcaggccagccacaggtcg	14	2	12	13	2	0	2	0	0	0	2	2	4	1	3	4	3	2	1	4	3	3	0	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	103246688	A	G	103246688	2	3	371	1	0	0	0	0	0	0	0	1	11394	1	1	3		3	PAH	12	103246688	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	2450440	103246688	30605207	47	18718											
SRRM4	84530	hgsc.bcm.edu;ucsc.edu	37	chr12	119591354	119591354	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccccaggtcctactccCgctctcccagctattcctcc	4	11	4	22	1	2	0	0	0	2	0	8	0	6	0	7	1	2	2	7	1	2	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	119591354	C	T	119591354	3	4	371	1	0	0	0	0	1	0	0	0	15172	652	23	1	1333	1	SRRM4	12	119591354	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	16344666	119591354	14260541	48	18719											
PDS5B	23047	hgsc.bcm.edu	37	chr13	33306263	33306263	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcctgttttacatcacAaatctaaaaaaggacccccc	13	11	4	13	0	2	0	1	0	1	0	3	1	3	1	4	1	2	2	4	1	5	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	33306263	A	T	33306263	4	4	371	1	0	0	0	0	0	1	0	0	11692	131	5	5	2223	5	PDS5B	13	33306263	Nonsense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		33306263	81863615	49	18720											
PCID2	55795	hgsc.bcm.edu;ucsc.edu	37	chr13	113854775	113854775	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaacatgaggatgtttaAaagacaccaactctgcacaa	16	9	7	9	0	1	2	0	1	1	1	1	3	1	3	1	1	4	3	1	1	5	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	113854775	A	C	113854775	3	2	371	1	0	0	0	0	1	0	0	0	11579	14	1	5	1159	5	PCID2	13	113854775	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	80548512	113854775	1315103	50	18721											
FOXN3	1112	hgsc.bcm.edu;ucsc.edu	37	chr14	89656758	89656758	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatctcagggggagtattcaAaagcatcatggcactggcag	12	9	12	8	0	3	0	3	0	1	0	4	1	3	1	0	4	1	4	0	4	4	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	89656758	A	G	89656758	2	3	371	1	0	0	0	0	0	0	0	1	6021	11	1	3		3	FOXN3	14	89656758	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		89656758	17692782	51	18722											
BTBD7	55727	hgsc.bcm.edu;ucsc.edu	37	chr14	93761134	93761134	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggcatgatcggcagaccTattagatttccgacgcttaa	10	12	9	10	3	0	3	0	1	0	2	2	4	1	3	2	2	0	3	2	2	3	5	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	93761134	T	C	93761134	3	2	371	1	0	0	0	0	1	0	0	0	1546	1521	53	3	3277	3	BTBD7	14	93761134	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	4104376	93761134	13588406	52	18723											
HSP90AA1	3320	hgsc.bcm.edu;ucsc.edu	37	chr14	102550300	102550300	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagagggagatcctccgagtCtaccacccctctaatgaagt	11	9	9	12	1	2	3	0	1	2	2	4	5	4	3	5	1	1	0	5	1	4	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	102550300	C	T	102550300	3	4	371	1	0	0	0	0	1	0	0	0	7401	913	32	2	1050	2	HSP90AA1	14	102550300	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	8789166	102550300	4799240	53	18724											
CAPN3	825	hgsc.bcm.edu;ucsc.edu	37	chr15	42686505	42686505	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcggctgcggaatccgtggGgccaggtggagtggaacggt	6	7	20	8	4	0	0	0	0	0	0	1	3	1	3	2	8	3	1	2	8	2	0	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	42686505	G	A	42686505	3	1	371	1	0	0	0	0	1	0	0	0	2628	1232	43	2	1163	2	CAPN3	15	42686505	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10		42686505	59844887	54	18725											
ZFP106	64397	hgsc.bcm.edu;ucsc.edu	37	chr15	42749284	42749284	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctttgtgcaactggccAgaaatgtgctttgcatatgc	9	15	9	8	0	1	1	0	0	1	1	1	1	1	1	1	1	5	3	1	1	4	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	42749284	A	G	42749284	2	3	371	1	0	0	0	0	0	0	0	1	17636	175	7	3		3	ZFP106	15	42749284	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	62779	42749284	59782108	55	18726											
HERC1	8925	hgsc.bcm.edu;ucsc.edu	37	chr15	64005044	64005044	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcgatttgatcagtctaTaatttgggcttgtgtggact	7	17	10	7	1	2	1	1	1	1	0	4	3	3	2	1	2	0	1	1	2	2	5	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	64005044	T	C	64005044	3	2	371	1	0	0	0	0	1	0	0	0	7057	1406	49	3	10291	3	HERC1	15	64005044	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	21255760	64005044	38526348	56	18727											
ADAMTS7	11173	hgsc.bcm.edu	37	chr15	79090348	79090348	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgctgtgccagcctctccggGgcctgacgcttgtacaccac	5	8	11	17	3	1	1	0	1	1	0	2	1	1	1	5	2	3	3	5	2	1	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	79090348	G	A	79090348	2	1	371	1	0	0	0	0	0	0	0	1	271	1219	43	2		2	ADAMTS7	15	79090348	Silent	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	15085304	79090348	23441044	57	18728											
C16orf63	0	hgsc.bcm.edu;ucsc.edu	37	chr16	15977977	15977977	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtcggggttcacggtcAtcatctagggcattgaaaac	10	10	13	8	2	4	1	3	1	1	0	5	2	4	1	0	5	1	2	0	5	3	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	15977977	A	G	15977977	2	3	371	1	0	0	0	0	0	0	0	1	1826	214	8	3		3	C16orf63	16	15977977	Silent	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		15977977	74376776	58	18729											
DPEP3	64180	hgsc.bcm.edu;ucsc.edu	37	chr16	68012420	68012420	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagctgaggtcacaagcTcgagttcagagtaggaggca	11	8	13	9	1	3	2	3	1	0	1	4	4	3	3	0	3	2	5	0	3	2	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	68012420	T	G	68012420	3	3	371	1	0	0	0	0	1	0	0	0	4715	1551	54	5	974	5	DPEP3	16	68012420	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	52034443	68012420	22342333	59	18730											
ANKRD11	29123	hgsc.bcm.edu;ucsc.edu	37	chr16	89350352	89350352	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagagtcgctcttcatgtcCctgtagtctgtcactggcga	7	12	10	12	2	4	1	2	0	2	1	6	2	5	1	1	1	0	2	1	1	1	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	89350352	C	A	89350352	3	1	371	1	0	0	0	0	1	0	0	0	639	622	22	4	5413	4	ANKRD11	16	89350352	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	21337932	89350352	1004401	60	18731											
SERPINB13	5275	hgsc.bcm.edu	37	chr18	61264230	61264230	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagaaattggtagagtGgactagtccagggcatatgg	11	10	14	6	0	0	2	0	1	0	2	2	4	2	3	2	4	0	2	2	4	4	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	61264230	G	A	61264230	4	1	371	1	0	0	0	0	0	1	0	0	14102	1357	47	2	835	2	SERPINB13	18	61264230	Nonsense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10		61264230	16813018	61	18732											
DPP9	91039	hgsc.bcm.edu;ucsc.edu	37	chr19	4719879	4719879	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccttctccaacttccggTgttctccttgtccaggcgca	5	13	7	16	2	3	0	1	0	2	0	7	0	5	0	5	2	1	2	5	2	1	4	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	4719879	T	C	4719879	3	2	371	1	0	0	0	0	1	0	0	0	4733	1696	59	3	2718	3	DPP9	19	4719879	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		4719879	54409104	62	18733											
PDE4A	5141	hgsc.bcm.edu;ucsc.edu	37	chr19	10565503	10565503	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgttgactcctttaccttAgttcaaaaggatgttgaacc	10	15	7	9	0	1	2	1	2	0	0	2	3	2	3	3	1	2	3	3	1	5	7	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		C	10565503	A	C	10565503	5	2	371	1	0	0	0	0	0	0	1	0	11639	434	15	5	1265	5	PDE4A	19	10565503	Splice_Site	SNP	A	TCGA-CJ-4873-01A-01D-1373-10	5845624	10565503	48563480	63	18734											
KIAA0355	9710	hgsc.bcm.edu	37	chr19	34819026	34819026	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcgtctcctttaatgaGtcggccgccgacaatctgaa	10	9	11	11	4	2	2	0	2	2	0	4	3	2	2	3	2	0	0	3	2	4	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	34819026	G	T	34819026	3	4	371	1	0	0	0	0	1	0	0	0	8170	1020	36	4	1092	4	KIAA0355	19	34819026	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	24253523	34819026	24309957	64	18735											
NCCRP1	342897	hgsc.bcm.edu;ucsc.edu	37	chr19	39688861	39688861	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaatttccgtggctggtaCattagaactgaaaagctcca	12	10	10	9	1	0	2	0	1	0	1	2	2	2	2	2	3	3	4	2	3	6	3	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	39688861	C	T	39688861	2	4	371	1	0	0	0	0	0	0	0	1	10213	489	17	2		2	NCCRP1	19	39688861	Silent	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	4869835	39688861	19440122	65	18736											
ZSCAN5B	342933	hgsc.bcm.edu;ucsc.edu	37	chr19	56701571	56701571	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtgtgacctcctgtggatGcttagctgggaaaaatactt	9	13	12	7	0	0	1	0	1	0	0	1	3	1	3	2	2	3	2	2	2	4	3	rs189564920	by1000genomes	TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	56701571	G	T	56701571	3	4	371	1	0	0	0	0	1	0	0	0	18238	1310	46	4	378	4	ZSCAN5B	19	56701571	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	17012710	56701571	2427412	66	18737											
SSTR4	6754	hgsc.bcm.edu	37	chr20	23016318	23016318	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggggctggtgggcaacgcCctggtcatcttcgtgatcct	4	11	15	11	2	2	1	1	1	1	0	4	1	3	1	2	5	1	2	2	5	1	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	23016318	C	A	23016318	2	1	371	1	0	0	0	0	0	0	0	1	15201	610	22	4		4	SSTR4	20	23016318	Silent	SNP	C	TCGA-CJ-4873-01A-01D-1373-10		23016318	40009202	67	18738											
C20orf132	0	hgsc.bcm.edu	37	chr20	35776241	35776241	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcctcctcagccaccttTtcctgtgggtccccacagag	6	9	9	17	0	1	1	1	0	0	1	4	1	4	1	7	1	2	1	7	1	0	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	35776241	T	G	35776241	3	3	371	1	0	0	0	0	1	0	0	0	2086	1838	64	5	2054	5	C20orf132	20	35776241	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10	12759923	35776241	27249279	68	18739											
TOP1	7150	hgsc.bcm.edu;ucsc.edu	37	chr20	39728844	39728844	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatgggcatgctgaagaGacgaatcatgcccgaggata	14	6	13	8	2	1	3	1	1	0	2	1	7	1	4	1	2	2	2	1	2	4	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	39728844	G	T	39728844	3	4	371	1	0	0	0	0	1	0	0	0	16362	942	33	4	1170	4	TOP1	20	39728844	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	3952603	39728844	23296676	69	18740											
UBE2V1	7335	hgsc.bcm.edu	37	chr20	48732051	48732051	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaattttctaggttcaagtCttccttcatcactcagtttg	9	17	6	9	0	6	0	4	0	2	0	7	1	7	0	1	1	0	2	1	1	3	7	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		G	48732051	C	G	48732051	3	3	371	1	0	0	0	0	1	0	0	0	16874	913	32	4	492	4	UBE2V1	20	48732051	Missense_Mutation	SNP	C	TCGA-CJ-4873-01A-01D-1373-10	9003207	48732051	14293469	70	18741											
PCNT	5116	hgsc.bcm.edu	37	chr21	47832830	47832830	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatgtcagtgctcaccgTctgccagaggcagctgcagt	7	9	13	12	2	3	2	2	1	1	1	3	2	3	2	2	1	4	4	2	1	0	0	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	47832830	T	A	47832830	3	1	371	1	0	0	0	0	1	0	0	0	11590	1667	58	5	6188	5	PCNT	21	47832830	Missense_Mutation	SNP	T	TCGA-CJ-4873-01A-01D-1373-10		47832830	297065	71	18742											
GJB1	2705	hgsc.bcm.edu	37	chrX	70444041	70444041	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctaccctggctatgccAtggtgcggctggtcaagtgc	5	11	13	12	1	2	0	1	0	1	0	2	0	2	0	2	4	5	3	2	4	3	2	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		T	70444041	A	T	70444041	3	4	371	1	0	0	0	0	1	0	0	0	6407	217	8	5	486	5	GJB1	23	70444041	Missense_Mutation	SNP	A	TCGA-CJ-4873-01A-01D-1373-10		70444041	84826519	72	18743											
ZDHHC9	51114	hgsc.bcm.edu	37	chrX	128948750	128948750	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caacacaattccccacccagGggcagtgatggtcgaagcgc	11	5	11	14	2	0	1	0	1	0	0	2	2	1	1	3	3	2	1	3	3	3	1	novel		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	128948750	G	A	128948750	3	1	371	1	0	0	0	0	1	0	0	0	17621	1232	43	2	609	2	ZDHHC9	23	128948750	Missense_Mutation	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	58504709	128948750	26321810	73	18744											
USP26	83844	hgsc.bcm.edu;ucsc.edu	37	chrX	132161106	132161106	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaaaaactcatgagcatcGttctgtgcattgccatggaa	12	11	9	9	1	2	1	1	1	1	0	3	2	2	2	1	1	4	4	1	1	4	3	rs139383150		TCGA-CJ-4873-01A-01D-1373-10	TCGA-CJ-4873-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7eed9b90-c88f-4855-830e-cbb3e01cf6d5	8f41e14f-10c0-49cf-a781-75d049bb1752		A	132161106	G	A	132161106	2	1	371	1	0	0	0	0	0	0	0	1	17056	1136	40	1		1	USP26	23	132161106	Silent	SNP	G	TCGA-CJ-4873-01A-01D-1373-10	3212356	132161106	23109454	74	18745											
HP1BP3	50809	hgsc.bcm.edu	37	chr1	21100040	21100040	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctagctggctggcagaaagGgtagcccaggaaggaattgt	11	7	16	7	0	0	1	0	0	0	1	0	3	0	3	1	5	2	5	1	5	5	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	21100040	G	T	21100040	2	4	372	1	0	0	0	0	0	0	0	1	7328	1219	43	4		4	HP1BP3	1	21100040	Silent	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		21100040	228150581	1	18746											
FCRL5	83416	hgsc.bcm.edu	37	chr1	157494179	157494179	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagaggttgaaggaggccCctcctccagagggggctgag	9	5	18	9	0	0	4	0	2	0	2	2	7	2	5	4	5	0	2	4	5	1	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	157494179	C	T	157494179	3	4	372	1	0	0	0	0	1	0	0	0	5798	623	22	2	836	2	FCRL5	1	157494179	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	136394139	157494179	91756442	2	18747											
TMEM63A	9725	hgsc.bcm.edu	37	chr1	226037701	226037701	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcggcaaagtggatcccCttctccagcttggctgggag	8	8	13	12	1	1	0	0	0	1	0	3	2	2	2	3	4	2	3	3	4	1	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	226037701	C	T	226037701	2	4	372	1	0	0	0	0	0	0	0	1	16189	680	24	2		2	TMEM63A	1	226037701	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	68543522	226037701	23212920	3	18748											
C2orf16	84226	hgsc.bcm.edu;ucsc.edu	37	chr2	27799674	27799674	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcgtaaaacatgtgaaaTtatcttcagtgtctctgcag	14	12	8	7	1	3	1	1	1	2	0	4	1	3	1	0	0	3	2	0	0	5	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	27799674	T	G	27799674	3	3	372	1	0	0	0	0	1	0	0	0	2157	1490	52	5	237	5	C2orf16	2	27799674	Missense_Mutation	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		27799674	215399699	4	18749											
VIT	5212	hgsc.bcm.edu	37	chr2	37035867	37035867	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatttccgacacggacacgCgcatcggggccgtgcagtac	9	6	13	13	6	0	1	0	0	0	1	2	3	1	2	2	3	2	3	2	3	1	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	37035867	C	T	37035867	3	4	372	1	0	0	0	0	1	0	0	0	17170	768	27	1	1821	1	VIT	2	37035867	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	9236193	37035867	206163506	5	18750											
SMEK2	57223	hgsc.bcm.edu	37	chr2	55804449	55804449	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagtatgaattcatacttAccgggacaaattgtgttgtt	13	15	8	5	1	1	1	1	1	0	0	1	2	1	2	1	1	2	3	1	1	7	8	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	55804449	A	T	55804449	5	4	372	1	0	0	0	0	0	0	1	0	14796	405	14	5	969	5	SMEK2	2	55804449	Splice_Site	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	18768582	55804449	187394924	6	18751											
SCN1A	6323	hgsc.bcm.edu;ucsc.edu	37	chr2	166847875	166847875	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtcagatcagttttttcTgtaatagagttttcatttat	10	20	7	4	0	4	2	3	0	1	2	4	2	4	2	0	1	0	3	0	1	3	9	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	166847875	T	C	166847875	2	2	372	1	0	0	0	0	0	0	0	1	13916	1567	55	3		3	SCN1A	2	166847875	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	111043426	166847875	76351498	7	18752											
TMEM169	92691	hgsc.bcm.edu;ucsc.edu	37	chr2	216965089	216965089	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctctcgtggtcctgggaaGcatggtggcaagctgcccgg	6	8	16	11	2	1	0	0	0	1	0	3	1	2	1	2	5	4	4	2	5	2	0	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	216965089	G	A	216965089	3	1	372	1	0	0	0	0	1	0	0	0	16083	971	34	2	724	2	TMEM169	2	216965089	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	50117214	216965089	26234284	8	18753											
DNAJB8	165721	hgsc.bcm.edu	37	chr3	128181552	128181552	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggacgacatcaccgacttGaaccccgagctgccagaact	11	6	10	14	3	1	2	1	1	0	1	1	6	1	3	4	1	4	1	4	1	2	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	128181552	G	A	128181552	2	1	372	1	0	0	0	0	0	0	0	1	4626	1281	45	2		2	DNAJB8	3	128181552	Silent	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		128181552	69840878	9	18754											
ZBTB38	253461	hgsc.bcm.edu	37	chr3	141162128	141162128	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcaagaaagaagtccacaaCcagctgctgttctcactcgt	13	9	7	12	1	2	2	2	0	1	2	5	2	3	2	2	0	3	3	2	0	4	1	rs62282002	bycluster;by1000genomes	TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	141162128	C	G	141162128	3	3	372	1	0	0	0	0	1	0	0	0	17538	507	18	4	900	4	ZBTB38	3	141162128	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	12980576	141162128	56860302	10	18755											
ALG3	10195	hgsc.bcm.edu	37	chr3	183963025	183963025	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccagcgctgggccagcAggaggttgatactgaggaag	10	5	16	10	1	0	2	0	2	0	0	0	4	0	4	3	4	4	3	3	4	2	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	183963025	A	T	183963025	3	4	372	1	0	0	0	0	1	0	0	0	520	188	7	5	774	5	ALG3	3	183963025	Missense_Mutation	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	42800897	183963025	14059405	11	18756											
CYP2U1	113612	hgsc.bcm.edu	37	chr4	108868571	108868571	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaagagtcattggcgccaAccgagctccttccctcacag	10	8	9	14	2	2	2	2	1	0	1	4	3	4	2	4	1	2	1	4	1	2	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	108868571	A	G	108868571	3	3	372	1	0	0	0	0	1	0	0	0	4175	43	2	3	1176	3	CYP2U1	4	108868571	Missense_Mutation	SNP	A	TCGA-CJ-4874-01A-01D-1373-10		108868571	82285705	12	18757											
NDFIP1	80762	hgsc.bcm.edu;ucsc.edu	37	chr5	141520137	141520137	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttattttttagttttccaccTatttccctggatattttgat	7	23	4	7	0	0	1	0	1	0	0	2	2	2	2	3	1	0	1	3	1	4	11	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	141520137	T	G	141520137	3	3	372	1	0	0	0	0	1	0	0	0	10245	1522	53	5	527	5	NDFIP1	5	141520137	Missense_Mutation	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		141520137	39395123	13	18758											
RMND5B	64777	hgsc.bcm.edu	37	chr5	177574747	177574747	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattgagattgaactaggCatgaagtgctggtaccactc	12	10	11	8	0	0	4	0	3	0	2	1	5	0	4	1	2	3	3	1	2	4	4	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	177574747	C	T	177574747	2	4	372	1	0	0	0	0	0	0	0	1	13400	697	25	2		2	RMND5B	5	177574747	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	36054610	177574747	3340513	14	18759											
PGC	5225	hgsc.bcm.edu;ucsc.edu	37	chr6	41711090	41711090	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcccattggtggagtaGgtggacgactcgctggggtt	5	11	17	8	2	1	0	0	0	1	0	2	3	1	2	1	6	1	3	1	6	1	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	41711090	G	T	41711090	2	4	372	1	0	0	0	0	0	0	0	1	11785	987	35	4		4	PGC	6	41711090	Silent	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		41711090	129403977	15	18760											
GPR115	221393	hgsc.bcm.edu;ucsc.edu	37	chr6	47684543	47684543	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgttcaattttgccacaggGttttttcatcctgctgtttg	5	19	8	9	0	2	0	2	0	0	0	3	0	3	0	2	1	2	4	2	1	1	7	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	47684543	G	A	47684543	3	1	372	1	0	0	0	0	1	0	0	0	6632	1275	44	2	1956	2	GPR115	6	47684543	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	5973453	47684543	123430524	16	18761											
SERAC1	84947	hgsc.bcm.edu	37	chr6	158565392	158565392	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagatcactctcttcgcttCgtgccaaaccaataagagtt	12	11	7	11	2	2	2	1	0	1	2	5	3	2	2	2	0	2	2	2	0	4	4	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	158565392	C	T	158565392	3	4	372	1	0	0	0	0	1	0	0	0	14076	884	31	1	1460	1	SERAC1	6	158565392	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	110880849	158565392	12549675	17	18762											
ESYT2	57488	hgsc.bcm.edu;ucsc.edu	37	chr7	158590762	158590762	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaaaggccacatgtgtttTacagtctggaaaggaaaaag	16	9	11	5	0	1	1	0	1	1	0	1	3	1	3	1	3	1	1	1	3	5	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	158590762	T	G	158590762	2	3	372	1	0	0	0	0	0	0	0	1	5265	1741	61	5		5	ESYT2	7	158590762	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		158590762	547901	18	18763											
CSMD1	64478	hgsc.bcm.edu	37	chr8	3265496	3265496	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcgaactatatgcccacTgctggccagctgggaaggca	11	6	12	12	1	0	0	0	0	0	0	0	2	0	1	2	3	5	3	2	3	5	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	3265496	T	G	3265496	3	3	372	1	0	0	0	0	1	0	0	0	3944	1580	55	5	8926	5	CSMD1	8	3265496	Missense_Mutation	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		3265496	143098526	19	18764											
KIAA2026	158358	hgsc.bcm.edu	37	chr9	5968932	5968932	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcatacacaaagtcacaAagacccttaagtagccacac	16	8	5	12	0	2	1	2	0	0	1	2	1	2	1	2	0	2	2	2	0	5	4	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	5968932	A	G	5968932	2	3	372	1	0	0	0	0	0	0	0	1	8270	1	1	3		3	KIAA2026	9	5968932	Silent	SNP	A	TCGA-CJ-4874-01A-01D-1373-10		5968932	135244499	20	18765											
FREM1	158326	hgsc.bcm.edu;ucsc.edu	37	chr9	14859188	14859188	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacatcatacgggactcTgggaaaaaactgtgtggctg	14	8	12	7	1	2	1	1	0	1	1	2	3	2	3	0	3	2	1	0	3	5	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	14859188	T	G	14859188	2	3	372	1	0	0	0	0	0	0	0	1	6044	1567	55	5		5	FREM1	9	14859188	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	8890256	14859188	126354243	21	18766											
C9orf93	0	hgsc.bcm.edu;ucsc.edu	37	chr9	15971713	15971713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgaaagctgaacttgataCtacttacactttcttaaagg	14	14	6	7	0	1	3	0	3	1	0	1	3	1	3	0	1	5	1	0	1	7	7	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	15971713	C	T	15971713	3	4	372	1	0	0	0	0	1	0	0	0	2506	565	20	2	3958	2	C9orf93	9	15971713	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	1112525	15971713	125241718	22	18767											
IFT74	80173	hgsc.bcm.edu	37	chr9	26984278	26984278	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaataagtgaacttacaaCtgaagttaataaacttcaga	20	11	5	5	0	1	3	1	2	0	1	1	3	1	3	0	0	4	1	0	0	10	6	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	26984278	C	A	26984278	3	1	372	1	0	0	0	0	1	0	0	0	7563	565	20	4	343	4	IFT74	9	26984278	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	11012565	26984278	114229153	23	18768											
RC3H2	54542	hgsc.bcm.edu	37	chr9	125621286	125621286	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcatatggcatggaagcagGtgggagggaggactctggaa	11	6	19	5	0	1	0	0	0	1	0	1	5	1	5	0	8	1	3	0	8	3	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	125621286	G	T	125621286	3	4	372	1	0	0	0	0	1	0	0	0	13169	1261	44	4	1748	4	RC3H2	9	125621286	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	98637008	125621286	15592145	24	18769											
C10orf140	0	hgsc.bcm.edu;ucsc.edu	37	chr10	21804074	21804074	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtggaagaggtattgcaGaaccgcccagctgccatttc	10	9	12	10	1	0	2	0	0	0	2	1	3	0	3	3	3	4	3	3	3	4	4	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	21804074	G	T	21804074	3	4	372	1	0	0	0	0	1	0	0	0	1595	942	33	4	52	4	C10orf140	10	21804074	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		21804074	113730673	25	18770											
EBF3	253738	hgsc.bcm.edu	37	chr10	131671770	131671770	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtctaggcggcgggcccGcctcccgtgtttggaattgt	3	10	16	12	5	1	0	0	0	1	0	2	1	2	1	3	5	0	1	3	5	2	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	131671770	G	C	131671770	3	2	372	1	0	0	0	0	1	0	0	0	4882	1086	38	4	964	4	EBF3	10	131671770	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	109867696	131671770	3862977	26	18771											
HRAS	3265	hgsc.bcm.edu;ucsc.edu	37	chr11	533545	533545	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccacagtgcgtgcagccaGgtcacacttgttccccacca	8	9	8	16	1	1	0	1	0	0	0	3	0	3	0	5	1	3	2	5	1	0	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	533545	G	C	533545	3	2	372	1	0	0	0	0	1	0	0	0	7348	991	35	4	286	4	HRAS	11	533545	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		533545	134472971	27	18772											
EPS8L2	64787	hgsc.bcm.edu;ucsc.edu	37	chr11	710455	710455	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattccaactccaacgtcaTcatgcacgagacctcgcagt	11	9	7	14	3	2	1	2	0	0	1	5	2	4	1	3	0	3	3	3	0	3	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	710455	T	C	710455	3	2	372	1	0	0	0	0	1	0	0	0	5196	1435	50	3	144	3	EPS8L2	11	710455	Missense_Mutation	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	176910	710455	134296061	28	18773											
ACCS	84680	hgsc.bcm.edu;ucsc.edu	37	chr11	44104723	44104723	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctttcacccaaacagactgGatcaaccaggtgtacctgcc	11	9	7	14	0	3	1	2	0	1	1	3	2	3	2	4	2	4	1	4	2	3	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	44104723	G	A	44104723	4	1	372	1	0	0	0	0	0	1	0	0	133	1183	41	2	1162	2	ACCS	11	44104723	Nonsense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	43394268	44104723	90901793	29	18774											
PIK3C2G	5288	hgsc.bcm.edu	37	chr12	18446881	18446881	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaaattctgcatttttgCacaaatgaccagctactccc	12	11	6	12	0	1	2	0	1	1	1	2	2	2	2	2	0	4	4	2	0	3	4	rs7301521	bycluster;byfrequency;by1000genomes	TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	18446881	C	T	18446881	2	4	372	1	0	0	0	0	0	0	0	1	11911	718	25	2		2	PIK3C2G	12	18446881	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10		18446881	115405014	30	18775											
KRT79	338785	hgsc.bcm.edu	37	chr12	53218102	53218103	+	Frame_Shift_Del	DEL	CA	CA	-																															cggttgttgtccatggacagCaccacattggtgttagacac																								novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		-	53218103	CA	-	53218102	7	5	372	1	0	1	0	1	0	0	0	0	8492	697	25	0	727	0	KRT79	12	53218102	Frame_Shift_Del	DEL	CA	TCGA-CJ-4874-01A-01D-1373-10	34771221	53218102	80633793	31	18776											
PCDH20	64881	hgsc.bcm.edu	37	chr13	61987429	61987429	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaattaggtagggggtgCgctccccattctcattctcc	7	12	10	12	1	2	1	1	1	2	0	5	1	3	1	3	3	1	2	3	3	3	4	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	61987429	C	G	61987429	3	3	372	1	0	0	0	0	1	0	0	0	11515	768	27	4	2056	4	PCDH20	13	61987429	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10		61987429	53182449	32	18777											
RIPK3	11035	hgsc.bcm.edu	37	chr14	24808388	24808388	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggactgcagcagccccgacaAggagccgttctccatgaatt	10	7	11	13	2	1	1	0	1	1	0	2	4	1	3	4	2	4	3	4	2	2	2	rs3181247	bycluster;byfrequency;by1000genomes	TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	24808388	A	G	24808388	2	3	372	1	0	0	0	0	0	0	0	1	13384	69	3	3		3	RIPK3	14	24808388	Silent	SNP	A	TCGA-CJ-4874-01A-01D-1373-10		24808388	82541152	33	18778											
KLHDC2	23588	hgsc.bcm.edu;ucsc.edu	37	chr14	50249623	50249623	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccttccaaaacacttactTcacagtgttaatcagaggtt	12	13	6	10	0	2	1	2	0	0	1	3	1	3	1	2	1	3	2	2	1	4	5	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	50249623	T	G	50249623	2	3	372	1	0	0	0	0	0	0	0	1	8356	1770	62	5		5	KLHDC2	14	50249623	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	25441235	50249623	57099917	34	18779											
C14orf174	0	hgsc.bcm.edu	37	chr14	77844692	77844692	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctgagcggactaaaccaGactttccagaccacaagcca	14	6	7	14	1	0	3	0	1	0	2	1	4	1	4	5	1	4	0	5	1	4	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	77844692	G	A	77844692	3	1	372	1	0	0	0	0	1	0	0	0	1759	942	33	2	933	2	C14orf174	14	77844692	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	27595069	77844692	29504848	35	18780											
ACAN	176	hgsc.bcm.edu	37	chr15	89398669	89398669	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggctctgcctctggagtTggggatctcagtggacttcc	5	11	15	10	0	3	0	1	0	3	0	5	4	4	3	2	5	1	2	2	5	0	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	89398669	T	A	89398669	2	1	372	1	0	0	0	0	0	0	0	1	117	1799	63	5		5	ACAN	15	89398669	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		89398669	13132723	36	18781											
CACNA1H	8912	hgsc.bcm.edu;ucsc.edu	37	chr16	1248701	1248701	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcttcgtcttcttcattTtcggcatcgttggcgtccag	3	17	9	12	4	4	0	1	0	3	0	8	0	5	0	1	2	0	3	1	2	0	7	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	1248701	T	C	1248701	3	2	372	1	0	0	0	0	1	0	0	0	2545	1841	64	3	748	3	CACNA1H	16	1248701	Missense_Mutation	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		1248701	89106052	37	18782											
ABCA3	21	hgsc.bcm.edu	37	chr16	2376045	2376045	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaagtgccctgcgcactgtCtcagtgacggtcttggcagc	7	9	12	13	2	2	1	1	1	2	0	3	1	2	1	1	2	3	2	1	2	1	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	2376045	C	G	2376045	3	3	372	1	0	0	0	0	1	0	0	0	33	912	32	4	4945	4	ABCA3	16	2376045	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	1127344	2376045	87978708	38	18783											
XYLT1	64131	hgsc.bcm.edu;ucsc.edu	37	chr16	17221643	17221643	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagattggtagcatgatgCttgatcagaaagccctggaa	12	9	12	8	0	1	4	1	2	0	2	1	5	1	5	2	2	3	3	2	2	3	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	17221643	C	T	17221643	2	4	372	1	0	0	0	0	0	0	0	1	17462	796	28	2		2	XYLT1	16	17221643	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	14845598	17221643	73133110	39	18784											
GTF3C1	2975	hgsc.bcm.edu;ucsc.edu	37	chr16	27504602	27504602	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagcgggtcgttcagaaattCctccaggttgtccacctgaa	9	10	10	12	2	1	2	1	1	0	1	5	2	4	2	4	2	1	2	4	2	2	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	27504602	C	T	27504602	3	4	372	1	0	0	0	0	1	0	0	0	6872	864	30	2	3619	2	GTF3C1	16	27504602	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	10282959	27504602	62850151	40	18785											
PLCG2	5336	hgsc.bcm.edu	37	chr16	81934322	81934322	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgctgttgacgaagccCacggaggccagtgctgacca	9	6	13	13	2	0	2	0	2	0	0	0	5	0	3	4	2	3	3	4	2	1	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	81934322	C	G	81934322	2	3	372	1	0	0	0	0	0	0	0	1	12036	581	21	4		4	PLCG2	16	81934322	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	54429720	81934322	8420431	41	18786											
CNTNAP1	8506	hgsc.bcm.edu	37	chr17	40844515	40844515	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccctgcatcacactgtccAgcatcccgggatgtggtctt	7	11	9	14	1	2	0	1	0	1	0	4	1	4	1	3	2	3	2	3	2	1	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	40844515	A	T	40844515	5	4	372	1	0	0	0	0	0	0	1	0	3646	202	7	5	2595	5	CNTNAP1	17	40844515	Splice_Site	SNP	A	TCGA-CJ-4874-01A-01D-1373-10		40844515	40350695	42	18787											
MED13	9969	hgsc.bcm.edu	37	chr17	60140649	60140649	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catattttttccacttaattCctgtcaagtcagcctgaagg	10	15	6	10	0	2	1	2	1	0	0	4	1	4	1	3	1	1	0	3	1	4	6	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	60140649	C	T	60140649	3	4	372	1	0	0	0	0	1	0	0	0	9430	855	30	2	6560	2	MED13	17	60140649	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	19296134	60140649	21054561	43	18788											
TSHZ1	10194	hgsc.bcm.edu;ucsc.edu	37	chr18	72998919	72998919	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggagaagatcaaggaggaGagtgaggacagcttggagaa	15	4	18	4	1	1	5	1	1	0	4	1	10	1	7	0	5	1	1	0	5	3	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	72998919	G	T	72998919	3	4	372	1	0	0	0	0	1	0	0	0	16622	933	33	4	1424	4	TSHZ1	18	72998919	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		72998919	5078329	44	18789											
GNA15	2769	hgsc.bcm.edu	37	chr19	3162989	3162989	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggactcggtgctcgcccGctacctggacgagatcaacc	7	6	13	15	5	1	1	1	0	0	1	3	4	1	3	3	3	3	2	3	3	2	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	3162989	G	T	3162989	3	4	372	1	0	0	0	0	1	0	0	0	6503	1087	38	4	1123	4	GNA15	19	3162989	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		3162989	55965994	45	18790											
TRIP10	9322	hgsc.bcm.edu;ucsc.edu	37	chr19	6744588	6744588	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaagacatggatgaacgCagggccacccgcctgggtgc	9	5	13	14	2	0	2	0	1	0	1	1	3	1	3	4	3	2	1	4	3	2	0	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	6744588	C	T	6744588	2	4	372	1	0	0	0	0	0	0	0	1	16553	697	25	2		2	TRIP10	19	6744588	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	3581599	6744588	52384395	46	18791											
ZNF442	79973	hgsc.bcm.edu	37	chr19	12460568	12460568	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatgcaaggaactgagagAactcagtgccttcccacatt	12	10	8	11	0	2	2	1	1	1	1	3	4	3	3	2	1	4	1	2	1	4	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	12460568	A	G	12460568	3	3	372	1	0	0	0	0	1	0	0	0	17914	246	9	3	56	3	ZNF442	19	12460568	Missense_Mutation	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	5715980	12460568	46668415	47	18792											
ZNF791	163049	hgsc.bcm.edu;ucsc.edu	37	chr19	12739410	12739410	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatactggagagaaaccctAtaagtgtaaagaatgtggga	16	8	12	5	0	0	2	0	0	0	2	0	5	0	4	1	2	2	2	1	2	7	4	rs148416734		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	12739410	A	G	12739410	3	3	372	1	0	0	0	0	1	0	0	0	18162	449	16	3	1081	3	ZNF791	19	12739410	Missense_Mutation	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	278842	12739410	46389573	48	18793											
PRODH2	58510	hgsc.bcm.edu	37	chr19	36290976	36290976	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcatcctggcagcagccgCcgccacagttcttggctgag	6	7	13	15	3	1	1	0	1	1	0	2	1	2	1	4	3	2	5	4	3	0	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	36290976	C	T	36290976	2	4	372	1	0	0	0	0	0	0	0	1	12551	726	26	2		2	PRODH2	19	36290976	Silent	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	23551566	36290976	22838007	49	18794											
CD79A	973	hgsc.bcm.edu	37	chr19	42384963	42384963	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacgactgctccatgtaTgaggacatctcccggggcct	7	9	12	13	2	1	1	0	1	1	0	3	4	2	3	3	4	1	2	3	4	1	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	42384963	T	C	42384963	2	2	372	1	0	0	0	0	0	0	0	1	3036	1471	51	3		3	CD79A	19	42384963	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	6093987	42384963	16744020	50	18795											
ZFP112	7771	hgsc.bcm.edu	37	chr19	44832764	44832764	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcatttgtatggcttctGtccagtgtggactctctgat	6	17	10	8	0	2	1	0	1	2	0	4	2	3	2	1	2	1	3	1	2	1	4	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		C	44832764	G	C	44832764	3	2	372	1	0	0	0	0	1	0	0	0	17637	1386	48	4	1181	4	ZFP112	19	44832764	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	2447801	44832764	14296219	51	18796											
LILRB4	11006	hgsc.bcm.edu	37	chr19	55176302	55176302	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccgtctcaacagctggTgagtctcagaggcctctgtc	7	10	12	12	1	3	2	2	1	3	1	7	2	4	2	2	3	2	1	2	3	1	0	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	55176302	T	A	55176302	5	1	372	1	0	0	0	0	0	0	1	0	8793	1710	59	5	726	5	LILRB4	19	55176302	Splice_Site	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	10343538	55176302	3952681	52	18797											
ZNF530	348327	hgsc.bcm.edu	37	chr19	58118342	58118342	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcattcgacaccagacAgttcacactggagaaaggcc	13	6	9	13	1	2	2	2	0	0	2	3	5	2	2	3	2	0	1	3	2	1	2	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	58118342	A	T	58118342	2	4	372	1	0	0	0	0	0	0	0	1	17970	175	7	5		5	ZNF530	19	58118342	Silent	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	2942040	58118342	1010641	53	18798											
CENPB	1059	hgsc.bcm.edu	37	chr20	3765902	3765902	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcttcttcctcctccTcctcctcttcctctccctca	1	16	0	24	0	5	0	1	0	4	0	13	0	12	0	9	0	0	0	9	0	0	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	3765902	T	A	3765902	3	1	372	1	0	0	0	0	1	0	0	0	3227	1551	54	5	574	5	CENPB	20	3765902	Missense_Mutation	SNP	T	TCGA-CJ-4874-01A-01D-1373-10		3765902	59259618	54	18799											
TSHZ2	128553	hgsc.bcm.edu	37	chr20	51870958	51870958	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaaaatggtcaccccggctAagaaacgcgtttttgatgtc	11	10	10	10	4	1	2	1	1	0	1	2	3	1	2	2	2	1	2	2	2	4	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	51870958	A	T	51870958	4	4	372	1	0	0	0	0	0	1	0	0	16623	363	13	5	967	5	TSHZ2	20	51870958	Nonsense_Mutation	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	48105056	51870958	11154562	55	18800											
MAGEB2	4113	hgsc.bcm.edu	37	chrX	30236765	30236765	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggcccgagatgagacccGgggtctcaatgttcctcagg	9	7	13	12	2	2	2	2	1	1	2	4	4	3	2	3	4	0	1	3	4	2	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	30236765	G	T	30236765	3	4	372	1	0	0	0	0	1	0	0	0	9176	1116	39	4	70	4	MAGEB2	23	30236765	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10		30236765	125033795	56	18801											
TMEM47	83604	hgsc.bcm.edu	37	chrX	34657472	34657472	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaatgatggcagcgccgcCcaggagtaaagccagagtag	13	4	15	9	2	0	3	0	1	0	2	0	5	0	4	3	2	2	3	3	2	4	2	rs112608415		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	34657472	C	T	34657472	3	4	372	1	0	0	0	0	1	0	0	0	16170	623	22	2	294	2	TMEM47	23	34657472	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	4420707	34657472	120613088	57	18802											
FAM47C	442444	hgsc.bcm.edu	37	chrX	37027645	37027645	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacctcccaagactcgcgtaCctcctctccgcccagagacc	9	6	6	20	3	1	2	0	0	1	2	5	3	3	2	7	0	2	1	7	0	3	1	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	37027645	C	T	37027645	3	4	372	1	0	0	0	0	1	0	0	0	5571	507	18	2	1164	2	FAM47C	23	37027645	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	2370173	37027645	118242915	58	18803											
TRO	7216	hgsc.bcm.edu	37	chrX	54957276	54957276	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagcggtggaccaagcacTggtgttggcttctgcagtgg	6	11	15	9	1	2	0	1	0	1	0	2	1	2	1	1	5	3	4	1	5	1	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		A	54957276	T	A	54957276	2	1	372	1	0	0	0	0	0	0	0	1	16573	1567	55	5		5	TRO	23	54957276	Silent	SNP	T	TCGA-CJ-4874-01A-01D-1373-10	17929631	54957276	100313284	59	18804											
OGT	8473	hgsc.bcm.edu;ucsc.edu	37	chrX	70756092	70756092	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatcgagaatatcaggcAggagattttgaggcagctga	13	8	13	7	1	1	4	1	2	0	2	2	6	1	4	0	3	1	4	0	3	2	3	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		G	70756092	A	G	70756092	2	3	372	1	0	0	0	0	0	0	0	1	10847	175	7	3		3	OGT	23	70756092	Silent	SNP	A	TCGA-CJ-4874-01A-01D-1373-10	15798816	70756092	84514468	60	18805											
PHKA1	5255	hgsc.bcm.edu;ucsc.edu	37	chrX	71802268	71802268	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgttcttgaaggaacaagtCattggcaatatgcactattt	12	14	8	7	0	2	1	1	1	1	0	2	2	2	2	0	2	2	3	0	2	6	6	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	71802268	C	T	71802268	3	4	372	1	0	0	0	0	1	0	0	0	11843	826	29	2	201	2	PHKA1	23	71802268	Missense_Mutation	SNP	C	TCGA-CJ-4874-01A-01D-1373-10	1046176	71802268	83468292	61	18806											
TAF7L	54457	hgsc.bcm.edu;ucsc.edu	37	chrX	100547952	100547952	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaatttggggttcttgttGgctagttacttccgatgttg	7	17	12	5	1	1	1	0	0	1	1	2	2	2	1	1	3	1	5	1	3	4	8	novel		TCGA-CJ-4874-01A-01D-1373-10	TCGA-CJ-4874-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	a625b4ef-cab6-4e63-b48f-dc6b69faaf5d	9bcf5c2a-6391-4368-9726-ff1cf3cee868		T	100547952	G	T	100547952	3	4	372	1	0	0	0	0	1	0	0	0	15532	1357	47	4	1358	4	TAF7L	23	100547952	Missense_Mutation	SNP	G	TCGA-CJ-4874-01A-01D-1373-10	28745684	100547952	54722608	62	18807											
CLCN6	1185	hgsc.bcm.edu;ucsc.edu	37	chr1	11896157	11896157	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacagagaaccgcggtaacGagaaggagttcatgaagggc	14	5	14	8	3	2	3	2	1	0	2	2	6	2	4	1	3	2	2	1	3	4	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	11896157	G	A	11896157	3	1	373	1	0	0	0	0	1	0	0	0	3467	1059	37	1	2007	1	CLCN6	1	11896157	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10		11896157	237354464	1	18808											
PTPRF	5792	hgsc.bcm.edu	37	chr1	44086831	44086831	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcctggagcgcatgcgctaCgagggcgtggtcgacatgtt	6	9	16	10	5	0	0	0	0	0	0	2	3	1	1	1	3	3	3	1	3	1	2	rs1143702	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	44086831	C	T	44086831	2	4	373	1	0	0	0	0	0	0	0	1	12803	547	19	1		1	PTPRF	1	44086831	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	32190674	44086831	205163790	2	18809											
PTCH2	8643	hgsc.bcm.edu	37	chr1	45292921	45292921	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccatcctcagagccattgCggtacgagtggcgggtgatg	7	8	14	12	3	1	2	1	1	0	1	2	3	2	2	4	3	3	1	4	3	1	2	rs112613379	alternate_allele	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	45292921	C	A	45292921	3	1	373	1	0	0	0	0	1	0	0	0	12733	768	27	4	1227	4	PTCH2	1	45292921	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	1206090	45292921	203957700	3	18810											
ZFYVE9	9372	hgsc.bcm.edu	37	chr1	52703736	52703736	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaacaaatggatccatTgaatagaccgaaaacagagg	20	5	10	6	1	0	4	0	1	0	3	1	7	1	5	2	2	2	0	2	2	6	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	52703736	T	A	52703736	4	1	373	1	0	0	0	0	0	1	0	0	17670	1821	63	5	653	5	ZFYVE9	1	52703736	Nonsense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	7410815	52703736	196546885	4	18811											
LHX8	431707	hgsc.bcm.edu;ucsc.edu	37	chr1	75608988	75608988	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagagtacattatgactGcatgctggataatttaaaaa	15	12	8	6	0	0	2	0	1	0	1	0	3	0	3	0	1	4	4	0	1	6	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	75608988	G	A	75608988	3	1	373	1	0	0	0	0	1	0	0	0	8776	1319	46	2	593	2	LHX8	1	75608988	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	22905252	75608988	173641633	5	18812											
ATP1A1	476	hgsc.bcm.edu	37	chr1	116943758	116943758	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcatttcagacctatGagcagaggaaaatcgtggag	12	10	11	8	1	2	3	1	1	1	2	3	5	2	5	1	2	2	2	1	2	3	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	116943758	G	T	116943758	4	4	373	1	0	0	0	0	0	1	0	0	1128	1291	45	4	2819	4	ATP1A1	1	116943758	Nonsense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	41334770	116943758	132306863	6	18813											
FDPS	2224	hgsc.bcm.edu;ucsc.edu	37	chr1	155289628	155289628	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccccagtgtgaccggcaAaattggcactgacatccagg	11	6	12	12	1	0	2	0	2	0	0	1	3	1	3	4	4	0	2	4	4	2	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	155289628	A	C	155289628	3	2	373	1	0	0	0	0	1	0	0	0	5803	14	1	5	1002	5	FDPS	1	155289628	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	38345870	155289628	93960993	7	18814											
SSR2	6746	hgsc.bcm.edu	37	chr1	155979424	155979424	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaagggtcatgaccccAaaggctgcccagtccagctg	10	5	14	12	0	1	1	1	1	0	0	2	3	2	2	4	3	2	2	4	3	2	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	155979424	A	G	155979424	2	3	373	1	0	0	0	0	0	0	0	1	15192	127	5	3		3	SSR2	1	155979424	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	689796	155979424	93271197	8	18815											
DUSP27	92235	hgsc.bcm.edu;ucsc.edu	37	chr1	167097707	167097707	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaagaagggaggtttgcAtctggacggcggtcccagta	11	7	16	7	2	1	2	0	0	1	2	2	5	2	4	1	5	1	3	1	5	3	2	rs138064659	by1000genomes;alternate_allele	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	167097707	A	T	167097707	2	4	373	1	0	0	0	0	0	0	0	1	4824	204	8	5		5	DUSP27	1	167097707	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	11118283	167097707	82152914	9	18816											
FAM20B	9917	hgsc.bcm.edu;ucsc.edu	37	chr1	179013267	179013267	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgccatggccaccaagaaAatcattaaagctgatgtggg	14	8	10	9	0	1	2	1	1	0	1	1	2	1	2	3	2	2	1	3	2	5	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	179013267	A	T	179013267	3	4	373	1	0	0	0	0	1	0	0	0	5538	11	1	5	287	5	FAM20B	1	179013267	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	11915560	179013267	70237354	10	18817											
PPP1R15B	84919	hgsc.bcm.edu;ucsc.edu	37	chr1	204379755	204379755	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggggatgacaatggtccTctctcaggcagctgctctct	6	11	12	12	0	3	1	1	1	2	0	6	2	4	2	1	4	2	4	1	4	1	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	204379755	T	C	204379755	3	2	373	1	0	0	0	0	1	0	0	0	12366	1551	54	3	1364	3	PPP1R15B	1	204379755	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	25366488	204379755	44870866	11	18818											
CNST	163882	hgsc.bcm.edu;ucsc.edu	37	chr1	246810937	246810938	+	Frame_Shift_Ins	INS	-	-	A																															ccacagaccaacttgagaacINSaatgaattaaatgagctgca																								novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	246810938	-	A	246810937	7	5	373	1	0	1	1	0	0	0	0	0	3634	477	17	0	1464	0	CNST	1	246810937	Frame_Shift_Ins	INS	-	TCGA-CJ-4875-01A-01D-1373-10	42431182	246810937	2439684	12	18819											
C2orf16	84226	hgsc.bcm.edu;ucsc.edu	37	chr2	27801317	27801317	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagccctagaatcaggaatTgaagcaataaattgtgtgga	15	10	11	5	0	1	2	1	1	0	1	1	4	1	4	1	2	2	2	1	2	8	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	27801317	T	G	27801317	3	3	373	1	0	0	0	0	1	0	0	0	2157	1800	63	5	1880	5	C2orf16	2	27801317	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10		27801317	215398056	13	18820											
SOS1	6654	hgsc.bcm.edu	37	chr2	39285899	39285899	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctgattgggcatcagctAttgcccatttatcaattgga	10	14	9	8	0	2	1	2	1	0	0	2	2	2	2	1	2	3	3	1	2	4	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	39285899	A	T	39285899	3	4	373	1	0	0	0	0	1	0	0	0	14938	449	16	5	3825	5	SOS1	2	39285899	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	11484582	39285899	203913474	14	18821											
FAM136A	84908	hgsc.bcm.edu	37	chr2	70529055	70529055	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttcggccccagccccgctAcctgcatcttccggatgttc	4	10	10	17	3	1	0	0	0	1	0	4	1	2	1	6	3	3	4	6	3	1	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	70529055	A	T	70529055	5	4	373	1	0	0	0	0	0	0	1	0	5450	405	14	5	339	5	FAM136A	2	70529055	Splice_Site	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	31243156	70529055	172670318	15	18822											
TTC21B	79809	hgsc.bcm.edu;ucsc.edu	37	chr2	166788344	166788344	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatccaatgtatttcccAagttttccagcttggtggaa	9	14	9	9	0	0	0	0	0	0	0	3	1	3	1	3	3	1	4	3	3	4	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	166788344	A	C	166788344	3	2	373	1	0	0	0	0	1	0	0	0	16687	131	5	5	3220	5	TTC21B	2	166788344	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	96259289	166788344	76411029	16	18823											
LRP2	4036	hgsc.bcm.edu;ucsc.edu	37	chr2	170115607	170115607	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtgcgtctcgttttatcaGctagcctcatgacactgata	8	14	8	11	2	3	2	2	2	1	0	4	2	3	2	1	0	3	2	1	0	3	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	170115607	G	T	170115607	3	4	373	1	0	0	0	0	1	0	0	0	8956	971	34	4	11778	4	LRP2	2	170115607	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	3327263	170115607	73083766	17	18824											
ITGAV	3685	hgsc.bcm.edu;ucsc.edu	37	chr2	187521116	187521116	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcagtgtgaggaattgatAgcgtatctgcgggtaagagc	11	10	15	5	2	1	3	0	2	1	1	1	4	1	4	0	2	4	3	0	2	4	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	187521116	A	T	187521116	2	4	373	1	0	0	0	0	0	0	0	1	7888	410	15	5		5	ITGAV	2	187521116	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	17405509	187521116	55678257	18	18825											
GIGYF2	26058	hgsc.bcm.edu;ucsc.edu	37	chr2	233680350	233680350	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttgttgtcttacagtttGggaaggtggtagtgtatggg	6	17	15	3	0	1	0	0	0	1	0	1	1	1	1	0	4	1	4	0	4	4	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	233680350	G	A	233680350	4	1	373	1	0	0	0	0	0	1	0	0	6378	1357	47	2	2247	2	GIGYF2	2	233680350	Nonsense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	46159234	233680350	9519023	19	18826											
ESPNL	339768	hgsc.bcm.edu	37	chr2	239033943	239033943	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgacgcccccaccaccaccGttccccccacctccactgtt	7	7	4	23	2	0	1	0	1	0	0	2	1	2	1	10	0	0	2	10	0	0	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	239033943	G	A	239033943	2	1	373	1	0	0	0	0	0	0	0	1	5255	1132	40	1		1	ESPNL	2	239033943	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	5353593	239033943	4165430	20	18827											
VHL	7428	hgsc.bcm.edu	37	chr3	10188235	10188236	+	Frame_Shift_Ins	INS	-	-	G																															gagatgcagggacacacgatINSgggcttctggttaaccaaac																								novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	10188236	-	G	10188235	7	5	373	1	0	1	1	0	0	0	0	0	17161	1461	51	0	384	0	VHL	3	10188235	Frame_Shift_Ins	INS	-	TCGA-CJ-4875-01A-01D-1373-10		10188235	187834195	21	18828											
PBRM1	55193	hgsc.bcm.edu	37	chr3	52598178	52598179	+	Frame_Shift_Ins	INS	-	-	A																															tagcggctctcacaaagcagINSaatgtcattttctggtattt																								novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	-	-	-	A	-	-	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	52598179	-	A	52598178	7	5	373	1	0	1	1	0	0	0	0	0	11491	933	33	0	1169	0	PBRM1	3	52598178	Frame_Shift_Ins	INS	-	TCGA-CJ-4875-01A-01D-1373-10	42409943	52598178	145424252	22	18829											
ZNF80	7634	hgsc.bcm.edu	37	chr3	113955638	113955638	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccctgtgtgaatcctcatgGgtcgaacgaagtcgaccttt	8	11	10	12	3	1	1	1	1	0	0	4	4	2	1	4	1	1	0	4	1	3	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	113955638	G	A	113955638	3	1	373	1	0	0	0	0	1	0	0	0	18167	1232	43	2	541	2	ZNF80	3	113955638	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	61357460	113955638	84066792	23	18830											
MED12L	116931	hgsc.bcm.edu;ucsc.edu	37	chr3	150903129	150903129	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtcattaggttgcgcccaacGatgaagctgtggtgacgctg	8	10	14	9	3	1	2	1	2	0	0	1	3	1	2	1	2	3	3	1	2	3	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	150903129	G	C	150903129	3	2	373	1	0	0	0	0	1	0	0	0	9429	1058	37	4	1549	4	MED12L	3	150903129	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	36947491	150903129	47119301	24	18831											
MCF2L2	23101	hgsc.bcm.edu	37	chr3	182923678	182923678	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacctttgatattatttTgttgttccatcaataattta	11	20	3	7	0	1	1	1	1	0	0	2	1	2	1	3	0	1	2	3	0	6	11	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	182923678	T	C	182923678	3	2	373	1	0	0	0	0	1	0	0	0	9380	1812	63	3	498	3	MCF2L2	3	182923678	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	32020549	182923678	15098752	25	18832											
SRP72	6731	hgsc.bcm.edu;ucsc.edu	37	chr4	57366826	57366826	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaggatcagattggaaaaggGacccagggagcaactgcagg	15	4	15	7	0	1	1	1	0	0	1	1	5	1	5	1	5	3	2	1	5	4	1	rs143643243	byfrequency;alternate_allele	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	57366826	G	C	57366826	2	2	373	1	0	0	0	0	0	0	0	1	15158	1161	41	4		4	SRP72	4	57366826	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10		57366826	133787450	26	18833											
G3BP2	9908	hgsc.bcm.edu;ucsc.edu	37	chr4	76579235	76579235	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaccactaggaggcaggtTtttactggtcactgaagccc	10	10	11	10	0	1	1	1	1	0	0	1	2	1	2	2	4	3	3	2	4	4	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	76579235	T	C	76579235	3	2	373	1	0	0	0	0	1	0	0	0	6142	1841	64	3	711	3	G3BP2	4	76579235	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	19212409	76579235	114575041	27	18834											
ADH1A	124	hgsc.bcm.edu	37	chr4	100205662	100205662	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggctactgcattttcaTccaccactgtgtactgtgag	7	16	8	10	0	1	1	1	1	0	0	2	1	2	1	2	1	3	3	2	1	2	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	100205662	T	A	100205662	3	1	373	1	0	0	0	0	1	0	0	0	307	1435	50	5	686	5	ADH1A	4	100205662	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	23626427	100205662	90948614	28	18835											
PPA2	27068	hgsc.bcm.edu;ucsc.edu	37	chr4	106370542	106370542	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccaccgaggtatttctaCaatcatattaaacagattct	13	14	5	9	1	3	1	1	0	2	1	4	2	4	1	2	1	2	1	2	1	6	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	106370542	C	T	106370542	3	4	373	1	0	0	0	0	1	0	0	0	12287	478	17	2	754	2	PPA2	4	106370542	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	6164880	106370542	84783734	29	18836											
ANKRD50	57182	hgsc.bcm.edu;ucsc.edu	37	chr4	125590305	125590305	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgggactgaaaccctaccaAgaaaaacctggttgctctga	13	8	10	10	0	1	3	0	2	1	1	1	4	1	4	3	2	4	2	3	2	5	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	125590305	A	T	125590305	3	4	373	1	0	0	0	0	1	0	0	0	677	72	3	5	166	5	ANKRD50	4	125590305	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	19219763	125590305	65563971	30	18837											
WDR17	116966	hgsc.bcm.edu	37	chr4	177094493	177094493	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagctatattcgtactgAaaaattactcttgcatacgt	13	14	6	8	2	1	2	0	2	1	0	2	2	1	2	0	0	5	3	0	0	7	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	177094493	A	T	177094493	3	4	373	1	0	0	0	0	1	0	0	0	17276	246	9	5	3539	5	WDR17	4	177094493	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	51504188	177094493	14059783	31	18838											
COL4A3BP	10087	hgsc.bcm.edu	37	chr5	74685443	74685443	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctccttcttctacaaccaActgccaattggcatctccgc	8	13	4	16	1	4	0	0	0	4	0	6	0	4	0	4	1	4	1	4	1	4	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	74685443	A	C	74685443	3	2	373	1	0	0	0	0	1	0	0	0	3692	40	2	5	640	5	COL4A3BP	5	74685443	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10		74685443	106229817	32	18839											
CMYA5	202333	hgsc.bcm.edu	37	chr5	79030663	79030663	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctattggagaaagcaaaCacagagctttcctggccttc	11	11	9	10	0	0	2	0	0	0	2	2	3	1	2	2	2	4	3	2	2	3	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	79030663	C	G	79030663	3	3	373	1	0	0	0	0	1	0	0	0	3590	477	17	4	6081	4	CMYA5	5	79030663	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	4345220	79030663	101884597	33	18840											
GPR98	84059	hgsc.bcm.edu;ucsc.edu	37	chr5	89923473	89923473	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacagggagatgctgtgcTaataagcccttctgttgtac	9	13	10	9	0	1	1	0	0	1	1	1	2	1	1	1	1	5	4	1	1	4	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	89923473	T	G	89923473	3	3	373	1	0	0	0	0	1	0	0	0	6721	1522	53	5	1144	5	GPR98	5	89923473	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	10892810	89923473	90991787	34	18841											
SNCAIP	9627	hgsc.bcm.edu	37	chr5	121758633	121758633	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagcccacaggaatcgcTgatgtgtacagtaagttccg	13	8	10	10	2	0	1	0	1	0	0	2	2	1	2	2	1	2	4	2	1	5	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	121758633	T	C	121758633	2	2	373	1	0	0	0	0	0	0	0	1	14843	1567	55	3		3	SNCAIP	5	121758633	Silent	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	31835160	121758633	59156627	35	18842											
ZNF187	0	hgsc.bcm.edu	37	chr6	28239931	28239932	+	Frame_Shift_Ins	INS	-	-	T																															tccgggagctctgtcaacagINStgctacagcccgagacccat																								novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	28239932	-	T	28239931	7	5	373	1	0	1	1	0	0	0	0	0	17752	1020	36	0	236	0	ZNF187	6	28239931	Frame_Shift_Ins	INS	-	TCGA-CJ-4875-01A-01D-1373-10		28239931	142875136	36	18843											
RPL7L1	285855	hgsc.bcm.edu	37	chr6	42853798	42853798	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccatccctctgacagacaAtacagtgattgaggagcacc	13	7	9	12	0	1	4	0	3	1	1	2	6	2	5	3	1	2	1	3	1	2	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	42853798	A	G	42853798	3	3	373	1	0	0	0	0	1	0	0	0	13603	101	4	3	527	3	RPL7L1	6	42853798	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	14613867	42853798	128261269	37	18844											
POLR1C	9533	hgsc.bcm.edu	37	chr6	43488991	43488991	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaaagtactgatggggAagtgccggcgcttcttggat	9	10	13	9	2	2	1	1	1	1	0	2	3	2	3	2	4	2	2	2	4	3	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	43488991	A	C	43488991	3	2	373	1	0	0	0	0	1	0	0	0	12211	247	9	5	1028	5	POLR1C	6	43488991	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	635193	43488991	127626076	38	18845											
COL19A1	1310	hgsc.bcm.edu	37	chr6	70639451	70639451	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcagtggcacaaacttggCattagtatacaatcccaggt	12	10	9	10	1	1	0	1	0	0	0	2	0	2	0	1	3	2	3	1	3	5	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	70639451	C	A	70639451	2	1	373	1	0	0	0	0	0	0	0	1	3676	697	25	4		4	COL19A1	6	70639451	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	27150460	70639451	100475616	39	18846											
MDN1	23195	hgsc.bcm.edu;ucsc.edu	37	chr6	90499925	90499925	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gactttgagaagctgaggagGctttgttctacctgtcactg	8	13	12	8	0	2	2	1	2	1	1	2	5	2	3	1	2	2	3	1	2	2	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	90499925	G	T	90499925	3	4	373	1	0	0	0	0	1	0	0	0	9415	1203	42	4	16127	4	MDN1	6	90499925	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	19860474	90499925	80615142	40	18847											
C6orf204	0	hgsc.bcm.edu	37	chr6	118801654	118801654	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggattccatcttcaaggcAtctttctactttttgttgca	7	17	7	10	1	4	0	1	0	3	0	5	1	5	1	1	2	2	3	1	2	2	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	118801654	A	G	118801654	3	3	373	1	0	0	0	0	1	0	0	0	2353	217	8	3	669	3	C6orf204	6	118801654	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	28301729	118801654	52313413	41	18848											
AKAP12	9590	hgsc.bcm.edu	37	chr6	151626918	151626918	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagctgtccaccatcaatGgcgtagctgagcaagatgag	11	8	12	10	1	2	3	2	2	0	1	3	3	3	3	2	1	3	4	2	1	3	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	151626918	G	A	151626918	3	1	373	1	0	0	0	0	1	0	0	0	448	1348	47	2	205	2	AKAP12	6	151626918	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	32825264	151626918	19488149	42	18849											
RBM16	0	hgsc.bcm.edu	37	chr6	155145481	155145481	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccacctccttttttaagAgcaagttttaacccttcaca	10	14	3	14	0	1	1	1	0	0	1	3	1	3	1	5	0	2	2	5	0	3	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	155145481	A	G	155145481	2	3	373	1	0	0	0	0	0	0	0	1	13120	301	11	3		3	RBM16	6	155145481	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	3518563	155145481	15969586	43	18850											
MIOS	54468	hgsc.bcm.edu;ucsc.edu	37	chr7	7612146	7612146	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atattttatgggcaccacacCatgttgatagatttgttgtg	10	16	9	6	0	0	2	0	1	0	1	0	2	0	2	2	1	0	3	2	1	3	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	7612146	C	G	7612146	3	3	373	1	0	0	0	0	1	0	0	0	9589	594	21	4	42	4	MIOS	7	7612146	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10		7612146	151526517	44	18851											
NPC1L1	29881	hgsc.bcm.edu	37	chr7	44579792	44579792	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaataggatcaggtgatcAcctgtgatcttgcgggccgg	8	11	14	8	2	3	2	2	2	1	0	3	3	3	3	2	4	1	1	2	4	2	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	44579792	A	C	44579792	2	2	373	1	0	0	0	0	0	0	0	1	10571	146	6	5		5	NPC1L1	7	44579792	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	36967646	44579792	114558871	45	18852											
SRPK2	6733	hgsc.bcm.edu	37	chr7	104783695	104783695	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaattcttctatctccTgcaggcgcttctccaataac	8	13	5	15	1	4	0	0	0	4	0	7	0	5	0	3	1	2	3	3	1	4	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	104783695	T	C	104783695	3	2	373	1	0	0	0	0	1	0	0	0	15161	1580	55	3	1231	3	SRPK2	7	104783695	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	60203903	104783695	54354968	46	18853											
OPN1SW	611	hgsc.bcm.edu;ucsc.edu	37	chr7	128415817	128415817	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagatatttttgaacagatAaaactcttcctccgacattt	14	14	5	8	1	1	3	0	1	1	2	3	5	3	3	2	0	2	0	2	0	4	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	128415817	A	G	128415817	3	3	373	1	0	0	0	0	1	0	0	0	10880	362	13	3	1038	3	OPN1SW	7	128415817	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	23632122	128415817	30722846	47	18854											
VPS13B	157680	hgsc.bcm.edu;ucsc.edu	37	chr8	100514007	100514007	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggaggaaccagtggacgTgttagtttatggatgcagtg	10	12	15	4	1	0	0	0	0	0	0	0	4	0	4	1	4	2	3	1	4	3	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	100514007	T	G	100514007	2	3	373	1	0	0	0	0	0	0	0	1	17189	1683	59	5		5	VPS13B	8	100514007	Silent	SNP	T	TCGA-CJ-4875-01A-01D-1373-10		100514007	45850015	48	18855											
TMEM74	157753	hgsc.bcm.edu;ucsc.edu	37	chr8	109796776	109796776	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcaggatcccagtgaccaaGaacaagatggcgctgatgaa	15	5	12	9	1	0	5	0	3	0	2	1	6	1	6	2	2	2	2	2	2	4	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	109796776	G	A	109796776	2	1	373	1	0	0	0	0	0	0	0	1	16201	933	33	2		2	TMEM74	8	109796776	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	9282769	109796776	36567246	49	18856											
SMU1	55234	hgsc.bcm.edu	37	chr9	33073680	33073680	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccaatggccactgttaaTgtcagccacaaaactctcaa	14	9	5	13	0	2	0	2	0	1	0	4	0	3	0	3	1	2	1	3	1	5	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	33073680	T	C	33073680	3	2	373	1	0	0	0	0	1	0	0	0	14819	1464	51	3	1434	3	SMU1	9	33073680	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10		33073680	108139751	50	18857											
C9orf91	203197	hgsc.bcm.edu	37	chr9	117396073	117396073	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaacacggacctgaggcTggcagctgccaatggagccc	10	4	12	15	1	0	1	0	1	0	0	0	3	0	3	4	4	4	3	4	4	2	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	117396073	T	A	117396073	3	1	373	1	0	0	0	0	1	0	0	0	2505	1580	55	5	518	5	C9orf91	9	117396073	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	84322393	117396073	23817358	51	18858											
ENTPD8	377841	hgsc.bcm.edu	37	chr9	140330189	140330189	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accagtttccagggcctctgGcaaaactcccagatggtggc	9	8	11	13	0	1	1	0	0	1	1	3	1	3	1	4	4	1	2	4	4	2	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	140330189	G	A	140330189	2	1	373	1	0	0	0	0	0	0	0	1	5145	1195	42	2		2	ENTPD8	9	140330189	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	22934116	140330189	883242	52	18859											
PRKCQ	5588	hgsc.bcm.edu;ucsc.edu	37	chr10	6525533	6525533	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattttatccacctcatccaAcggagactcccaggaaatgc	12	9	6	14	1	1	1	1	0	0	1	4	3	4	2	4	2	2	0	4	2	3	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	6525533	A	C	6525533	3	2	373	1	0	0	0	0	1	0	0	0	12517	40	2	5	1104	5	PRKCQ	10	6525533	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10		6525533	129009214	53	18860											
A1CF	29974	hgsc.bcm.edu;ucsc.edu	37	chr10	52569667	52569667	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccatacctgggaaagcagtAgcagcagcagcagcagtagc	13	4	12	12	0	0	0	0	0	0	0	0	1	0	1	2	1	8	8	2	1	4	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	52569667	A	T	52569667	2	4	373	1	0	0	0	0	0	0	0	1	2	407	15	5		5	A1CF	10	52569667	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	46044134	52569667	82965080	54	18861											
HK1	3098	hgsc.bcm.edu;ucsc.edu	37	chr10	71139760	71139760	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggctgccacactgggcGccatcttgaaccgcctgcgt	5	9	13	14	3	1	1	0	1	1	0	1	1	1	1	4	3	3	1	4	3	1	1	rs140290094	byfrequency	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	71139760	G	A	71139760	3	1	373	1	0	0	0	0	1	0	0	0	7190	1087	38	1	1386	1	HK1	10	71139760	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	18570093	71139760	64394987	55	18862											
HK1	3098	hgsc.bcm.edu;ucsc.edu	37	chr10	71144134	71144134	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggaggaaccaatttccGtgtgctgctggtgaaaatcc	9	12	11	9	1	1	1	0	1	1	0	3	3	3	3	3	3	3	2	3	3	4	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	71144134	G	A	71144134	3	1	373	1	0	0	0	0	1	0	0	0	7190	1145	40	1	1836	1	HK1	10	71144134	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	4374	71144134	64390613	56	18863											
DLG5	9231	hgsc.bcm.edu;ucsc.edu	37	chr10	79556277	79556277	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaccacgtccagcaaaGgccccagaatcaggacaggc	12	4	9	16	1	2	1	2	0	0	1	3	2	3	2	5	3	1	1	5	3	2	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	79556277	G	T	79556277	3	4	373	1	0	0	0	0	1	0	0	0	4558	1000	35	4	539	4	DLG5	10	79556277	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	8412143	79556277	55978470	57	18864											
ABLIM1	3983	hgsc.bcm.edu;ucsc.edu	37	chr10	116227940	116227940	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaaagaaatggtacttacTtctgctgatggagtaggaga	15	11	11	4	0	1	3	0	1	1	2	1	5	1	4	0	3	3	3	0	3	7	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	116227940	T	G	116227940	3	3	373	1	0	0	0	0	1	0	0	0	94	1623	56	5	1073	5	ABLIM1	10	116227940	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	36671663	116227940	19306807	58	18865											
ZNF195	7748	hgsc.bcm.edu;ucsc.edu	37	chr11	3380733	3380733	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgataactgcttaaagAtgttgccacattcttcacac	11	13	7	10	0	3	2	1	1	2	1	3	2	3	2	1	1	3	2	1	1	3	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	3380733	A	G	3380733	3	3	373	1	0	0	0	0	1	0	0	0	17757	333	12	3	388	3	ZNF195	11	3380733	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10		3380733	131625783	59	18866											
ILK	3611	hgsc.bcm.edu;ucsc.edu	37	chr11	6631379	6631379	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaagccctatctctccagCtctgcagaagaagcctgaag	12	7	9	13	0	2	3	0	1	2	2	4	4	3	3	3	0	4	2	3	0	5	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	6631379	C	A	6631379	3	1	373	1	0	0	0	0	1	0	0	0	7713	811	28	4	1121	4	ILK	11	6631379	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	3250646	6631379	128375137	60	18867											
MS4A15	219995	hgsc.bcm.edu	37	chr11	60531258	60531258	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgtcatcccgccaaacAacgccagtggcctctgccca	8	9	8	16	2	2	0	1	0	1	0	3	0	3	0	5	1	3	1	5	1	2	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	60531258	A	C	60531258	3	2	373	1	0	0	0	0	1	0	0	0	9859	130	5	5	54	5	MS4A15	11	60531258	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	53899879	60531258	74475258	61	18868											
SPTBN2	6712	hgsc.bcm.edu	37	chr11	66466957	66466957	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctggcggccagcctcCaggagcccgtggatccgttc	6	6	13	16	3	0	0	0	0	0	0	3	2	2	2	6	4	3	2	6	4	0	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	66466957	C	T	66466957	2	4	373	1	0	0	0	0	0	0	0	1	15121	581	21	2		2	SPTBN2	11	66466957	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	5935699	66466957	68539559	62	18869											
SPTBN2	6712	hgsc.bcm.edu;ucsc.edu	37	chr11	66483325	66483325	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctctcccgagagcacctcGaggagcctcagcaggttgcg	8	7	12	14	3	2	1	1	0	1	1	5	4	3	2	3	2	4	3	3	2	0	1	rs34117933	bycluster;byfrequency;by1000genomes	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	66483325	G	A	66483325	2	1	373	1	0	0	0	0	0	0	0	1	15121	1045	37	1		1	SPTBN2	11	66483325	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	16368	66483325	68523191	63	18870											
FGF19	9965	hgsc.bcm.edu	37	chr11	69514321	69514321	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatctcctcctcgaaagcAcagtcttcctccgagtactg	8	10	8	15	3	2	0	0	0	2	0	7	3	5	1	4	1	2	2	4	1	2	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	69514321	A	T	69514321	4	4	373	1	0	0	0	0	0	1	0	0	5847	157	6	5	294	5	FGF19	11	69514321	Nonsense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	3030996	69514321	65492195	64	18871											
GRAMD1B	57476	hgsc.bcm.edu	37	chr11	123477481	123477481	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatccccactgagctcagTgactcttccgacacacacga	11	7	7	16	2	2	2	1	2	1	0	4	5	4	2	3	0	1	1	3	0	0	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	123477481	T	A	123477481	3	1	373	1	0	0	0	0	1	0	0	0	6748	1693	59	5	1097	5	GRAMD1B	11	123477481	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	53963160	123477481	11529035	65	18872											
OR8B8	26493	hgsc.bcm.edu	37	chr11	124310505	124310505	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccatcatgcacgctgtGtgggccatggccccagcaaa	10	6	10	15	1	1	0	1	0	0	0	1	0	1	0	4	2	2	3	4	2	1	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	124310505	G	A	124310505	2	1	373	1	0	0	0	0	0	0	0	1	11230	1368	48	2		2	OR8B8	11	124310505	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	833024	124310505	10696011	66	18873											
DDX25	29118	hgsc.bcm.edu;ucsc.edu	37	chr11	125791252	125791252	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagatgagctgccctcgctCatgaaaatccaggaccactt	11	9	9	12	1	1	3	1	2	0	1	3	4	2	4	3	1	2	3	3	1	3	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	125791252	C	A	125791252	2	1	373	1	0	0	0	0	0	0	0	1	4352	813	29	4		4	DDX25	11	125791252	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	1480747	125791252	9215264	67	18874											
GLB1L3	112937	hgsc.bcm.edu	37	chr11	134147736	134147736	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctccatccactatttcCgggtgcccagggagtactgg	6	9	14	12	1	0	0	0	0	0	0	3	1	3	1	4	5	2	2	4	5	2	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	134147736	C	A	134147736	2	1	373	1	0	0	0	0	0	0	0	1	6430	643	23	4		4	GLB1L3	11	134147736	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	8356484	134147736	858780	68	18875											
TSPAN9	10867	hgsc.bcm.edu;ucsc.edu	37	chr12	3388212	3388212	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgatcttactcatcctcTtctttgtctacatggacaag	9	15	6	11	0	5	1	1	1	4	0	6	2	6	2	1	1	3	1	1	1	3	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	3388212	T	A	3388212	3	1	373	1	0	0	0	0	1	0	0	0	16653	1609	56	5	320	5	TSPAN9	12	3388212	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10		3388212	130463683	69	18876											
SCN8A	6334	hgsc.bcm.edu	37	chr12	52162982	52162982	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgtggagaagtacatcAttgatgaggaccacatgtcc	12	8	12	9	1	1	3	1	2	0	1	2	5	2	4	2	2	2	2	2	2	2	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	52162982	A	G	52162982	3	3	373	1	0	0	0	0	1	0	0	0	13926	217	8	3	3297	3	SCN8A	12	52162982	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	48774770	52162982	81688913	70	18877											
ITGA5	3678	hgsc.bcm.edu	37	chr12	54792404	54792404	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctctttttggggcagctGccgaggcaggattcggtagg	6	10	16	9	3	1	0	0	0	1	0	2	2	1	1	1	6	2	5	1	6	1	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	54792404	G	A	54792404	4	1	373	1	0	0	0	0	0	1	0	0	7879	1328	46	2	241	2	ITGA5	12	54792404	Nonsense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	2629422	54792404	79059491	71	18878											
SYCP3	50511	hgsc.bcm.edu;ucsc.edu	37	chr12	102125403	102125403	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctctggctctgaacaatTctagattgttgaagaatctt	12	15	7	7	0	4	4	0	2	4	2	5	4	4	4	0	1	1	2	0	1	6	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	102125403	T	C	102125403	2	2	373	1	0	0	0	0	0	0	0	1	15433	1780	62	3		3	SYCP3	12	102125403	Silent	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	47332999	102125403	31726492	72	18879											
KIAA0564	0	hgsc.bcm.edu;ucsc.edu	37	chr13	42461384	42461384	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgaaatcgagaacgaagaggGgggtctaatggattcccaga	14	7	14	6	2	1	4	0	1	1	3	3	7	2	5	1	4	1	0	1	4	4	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	42461384	G	T	42461384	2	4	373	1	0	0	0	0	0	0	0	1	8185	1219	43	4		4	KIAA0564	13	42461384	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10		42461384	72708494	73	18880											
ENOX1	55068	hgsc.bcm.edu;ucsc.edu	37	chr13	43934148	43934148	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtaatcctccgacaaacacgGtcttacacccaggaggtcgt	11	8	9	13	3	1	0	0	0	1	0	4	2	3	1	3	3	2	1	3	3	3	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	43934148	G	T	43934148	3	4	373	1	0	0	0	0	1	0	0	0	5126	1261	44	4	1547	4	ENOX1	13	43934148	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	1472764	43934148	71235730	74	18881											
CLN5	1203	hgsc.bcm.edu;ucsc.edu	37	chr13	77574785	77574785	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagagttcaagaacatagAaaccaactatacaagaatat	21	7	6	7	0	1	4	1	0	0	4	1	4	1	4	1	0	5	2	1	0	10	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	77574785	A	C	77574785	3	2	373	1	0	0	0	0	1	0	0	0	3544	246	9	5	919	5	CLN5	13	77574785	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	33640637	77574785	37595093	75	18882											
C14orf115	0	hgsc.bcm.edu	37	chr14	74825562	74825562	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tactacatgtggaagcgagcCctctatgacggcctgaccct	9	9	10	13	2	1	2	0	2	1	0	1	4	1	3	3	2	4	0	3	2	4	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	74825562	C	G	74825562	2	3	373	1	0	0	0	0	0	0	0	1	1740	610	22	4		4	C14orf115	14	74825562	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10		74825562	32523978	76	18883											
MGA	23269	hgsc.bcm.edu;ucsc.edu	37	chr15	41988561	41988561	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttccaagcagcccatcAggtgttgctaaagctaaaat	12	10	9	10	0	1	0	1	0	0	0	2	0	2	0	2	2	4	5	2	2	5	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	41988561	A	G	41988561	2	3	373	1	0	0	0	0	0	0	0	1	9540	175	7	3		3	MGA	15	41988561	Silent	SNP	A	TCGA-CJ-4875-01A-01D-1373-10		41988561	60542831	77	18884											
GANC	2595	hgsc.bcm.edu;ucsc.edu	37	chr15	42585003	42585003	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggagacctgaagtgccatAtcacagcaaacccattcaag	16	6	8	11	0	2	2	2	1	0	1	2	3	2	2	3	1	3	1	3	1	5	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	42585003	A	C	42585003	3	2	373	1	0	0	0	0	1	0	0	0	6234	449	16	5	418	5	GANC	15	42585003	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	596442	42585003	59946389	78	18885											
VPS13C	54832	hgsc.bcm.edu;ucsc.edu	37	chr15	62173973	62173973	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taaagcaatagattttggagGggcaacaggatgaaatacaa	18	8	11	4	0	0	2	0	1	0	1	0	4	0	4	0	4	3	2	0	4	8	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	62173973	G	C	62173973	3	2	373	1	0	0	0	0	1	0	0	0	17190	1232	43	4	1674	4	VPS13C	15	62173973	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	19588970	62173973	40357419	79	18886											
MGRN1	23295	hgsc.bcm.edu	37	chr16	4721421	4721421	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagctacctcctgcaggaGatctatggcattgagaacaa	12	9	10	10	0	2	2	1	1	1	2	3	4	3	2	2	2	4	3	2	2	4	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	4721421	G	T	4721421	3	4	373	1	0	0	0	0	1	0	0	0	9559	933	33	4	793	4	MGRN1	16	4721421	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10		4721421	85633332	80	18887											
C16orf70	80262	hgsc.bcm.edu	37	chr16	67179492	67179492	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggacaacatccaggagcTcctgggccaccctgtggaga	9	6	14	12	0	0	1	0	0	0	1	2	4	2	3	4	4	2	1	4	4	1	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	67179492	T	G	67179492	3	3	373	1	0	0	0	0	1	0	0	0	1829	1551	54	5	1124	5	C16orf70	16	67179492	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	62458071	67179492	23175261	81	18888											
CDH15	1013	hgsc.bcm.edu	37	chr16	89246670	89246670	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagggacccggcgtggaTgaggagccccggggcgtctt	6	6	17	12	4	1	1	0	1	1	0	2	4	2	4	4	6	1	0	4	6	0	1	rs59865771	bycluster;byfrequency;by1000genomes	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	89246670	T	C	89246670	2	2	373	1	0	0	0	0	0	0	0	1	3100	1461	51	3		3	CDH15	16	89246670	Silent	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	22067178	89246670	1108083	82	18889											
KPNB1	3837	hgsc.bcm.edu	37	chr17	45745724	45745724	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcagcagtgatggcttttgGttgtatcttggaaggaccag	8	13	14	6	0	1	1	0	1	1	0	1	3	1	3	1	4	2	5	1	4	2	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	45745724	G	T	45745724	3	4	373	1	0	0	0	0	1	0	0	0	8435	1261	44	4	1210	4	KPNB1	17	45745724	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10		45745724	35449486	83	18890											
UBE2O	63893	hgsc.bcm.edu;ucsc.edu	37	chr17	74398736	74398736	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcttcaagtcgtagaccttCcccagccagcagtcataggc	9	10	8	14	1	3	1	2	0	1	1	5	1	4	1	4	1	2	2	4	1	3	5	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	74398736	C	T	74398736	2	4	373	1	0	0	0	0	0	0	0	1	16867	842	30	2		2	UBE2O	17	74398736	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	28653012	74398736	6796474	84	18891											
KCTD1	284252	hgsc.bcm.edu	37	chr18	24127779	24127779	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgcggcagtacgggggcTcattgaggtagcggttgagg	6	8	20	7	4	1	2	1	2	0	0	1	2	1	2	0	6	3	5	0	6	2	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	24127779	T	A	24127779	3	1	373	1	0	0	0	0	1	0	0	0	8096	1551	54	5	1895	5	KCTD1	18	24127779	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10		24127779	53949469	85	18892											
TMEM146	0	hgsc.bcm.edu	37	chr19	5727334	5727334	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattaaacatccttgcgagaAaaatatagcactatatctag	17	11	6	7	1	1	1	0	0	1	1	2	3	2	1	1	0	3	1	1	0	9	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	5727334	A	T	5727334	3	4	373	1	0	0	0	0	1	0	0	0	16059	14	1	5	192	5	TMEM146	19	5727334	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10		5727334	53401649	86	18893											
ZNF699	374879	hgsc.bcm.edu;ucsc.edu	37	chr19	9407410	9407410	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcccacattccttgcactGatagggtttgcttccagtat	7	15	7	12	0	0	1	0	1	0	0	3	1	3	1	3	1	2	4	3	1	2	7	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	9407410	G	A	9407410	4	1	373	1	0	0	0	0	0	1	0	0	18100	1299	45	2	1262	2	ZNF699	19	9407410	Nonsense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	3680076	9407410	49721573	87	18894											
ZNF763	284390	hgsc.bcm.edu;ucsc.edu	37	chr19	12089194	12089194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtcaacaacctaagaaagCcttcagatatcacccctcct	13	9	5	14	0	3	2	3	0	0	2	4	2	4	2	5	0	3	0	5	0	5	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	12089194	C	T	12089194	3	4	373	1	0	0	0	0	1	0	0	0	18136	739	26	2	478	2	ZNF763	19	12089194	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	2681784	12089194	47039789	88	18895											
JAK3	3718	hgsc.bcm.edu	37	chr19	17945716	17945716	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccactaaacacttcccagAccgtggcgccgaagccccac	10	4	8	19	4	0	1	0	0	0	1	1	2	1	1	6	1	2	0	6	1	3	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	17945716	A	G	17945716	3	3	373	1	0	0	0	0	1	0	0	0	7939	275	10	3	1266	3	JAK3	19	17945716	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	5856522	17945716	41183267	89	18896											
DMKN	93099	hgsc.bcm.edu;ucsc.edu	37	chr19	36002673	36002673	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccactcaccccagagtTgctggagcctccacctgagc	7	8	8	18	0	2	2	1	1	1	1	4	3	3	3	6	1	3	2	6	1	0	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	36002673	T	A	36002673	3	1	373	1	0	0	0	0	1	0	0	0	4582	1812	63	5	1072	5	DMKN	19	36002673	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	18056957	36002673	23126310	90	18897											
APLP1	333	hgsc.bcm.edu	37	chr19	36370071	36370071	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcgtcctctccatgctgctCctgcgcaggaagaagcccta	8	9	9	15	2	1	1	0	0	1	1	5	2	3	2	4	1	4	3	4	1	3	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	36370071	C	A	36370071	2	1	373	1	0	0	0	0	0	0	0	1	778	842	30	4		4	APLP1	19	36370071	Silent	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	367398	36370071	22758912	91	18898											
RASGRP4	115727	hgsc.bcm.edu;ucsc.edu	37	chr19	38904103	38904103	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgtcttccgtgtagaagagGtccagggagagctggagcag	9	8	16	8	2	1	3	0	0	1	3	4	5	3	4	2	3	2	3	2	3	2	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	38904103	G	T	38904103	3	4	373	1	0	0	0	0	1	0	0	0	13079	1252	44	4	811	4	RASGRP4	19	38904103	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	2534032	38904103	20224880	92	18899											
RINL	126432	hgsc.bcm.edu	37	chr19	39361237	39361237	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtccttcttggggagccCaggacccctgcttccaaaga	7	9	10	15	1	1	1	0	0	1	1	4	3	3	3	5	3	2	1	5	3	1	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	39361237	C	A	39361237	3	1	373	1	0	0	0	0	1	0	0	0	13377	594	21	4	723	4	RINL	19	39361237	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	457134	39361237	19767746	93	18900											
CEACAM4	1089	hgsc.bcm.edu;ucsc.edu	37	chr19	42132312	42132312	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactggacagtggtgggcggGtgccagaaggttaaaagtga	12	7	17	5	1	0	2	0	1	0	1	0	3	0	3	1	5	2	1	1	5	4	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	42132312	G	A	42132312	2	1	373	1	0	0	0	0	0	0	0	1	3194	1252	44	2		2	CEACAM4	19	42132312	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	2771075	42132312	16996671	94	18901											
LYPD4	147719	hgsc.bcm.edu	37	chr19	42341417	42341417	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaaggtggtattgagaaAccctgtaaggaagagaggga	15	6	17	3	0	0	2	0	1	0	2	0	8	0	5	1	5	1	2	1	5	5	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	42341417	A	G	42341417	3	3	373	1	0	0	0	0	1	0	0	0	9112	43	2	3	203	3	LYPD4	19	42341417	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	209105	42341417	16787566	95	18902											
SLC6A16	28968	hgsc.bcm.edu;ucsc.edu	37	chr19	49793633	49793633	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcccacggtgggtatggtCgaagcacctcttttgactgt	6	12	13	10	2	1	1	0	1	1	0	2	2	1	1	2	3	2	2	2	3	2	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	49793633	C	T	49793633	3	4	373	1	0	0	0	0	1	0	0	0	14681	884	31	1	256	1	SLC6A16	19	49793633	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	7452216	49793633	9335350	96	18903											
TGM3	7053	hgsc.bcm.edu	37	chr20	2291724	2291724	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggaagatgccggcatcatCtttgtgggaagcacaaaccg	12	7	12	10	2	2	1	1	0	1	1	2	3	2	3	2	3	3	2	2	3	3	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	2291724	C	G	2291724	3	3	373	1	0	0	0	0	1	0	0	0	15830	903	32	4	503	4	TGM3	20	2291724	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10		2291724	60733796	97	18904											
TMC2	117532	hgsc.bcm.edu;ucsc.edu	37	chr20	2577832	2577832	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaaggaagcacaggcgaagGggagagtgacaacttcacat	15	4	13	9	1	1	2	1	1	0	1	1	5	1	3	1	4	2	1	1	4	4	1	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	2577832	G	A	2577832	3	1	373	1	0	0	0	0	1	0	0	0	15984	1232	43	2	1150	2	TMC2	20	2577832	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	286108	2577832	60447688	98	18905											
PHF20	51230	hgsc.bcm.edu;ucsc.edu	37	chr20	34458954	34458954	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcctccaggctgtccactAatgggacccatgagatccta	9	10	9	13	0	0	1	0	1	0	1	4	3	4	2	5	2	0	2	5	2	2	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		G	34458954	A	G	34458954	3	3	373	1	0	0	0	0	1	0	0	0	11831	362	13	3	1026	3	PHF20	20	34458954	Missense_Mutation	SNP	A	TCGA-CJ-4875-01A-01D-1373-10	31881122	34458954	28566566	99	18906											
IFT52	51098	hgsc.bcm.edu;ucsc.edu	37	chr20	42242573	42242573	+	Missense_Mutation	SNP	G	G	C																															tctgtctacaggttctgtctGcttcccacttaacagaccca																								novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	42242573	G	C	42242573	3	2	373	1	0	0	0	0	1	0	0	0	7561	1319	46	4	591	4	IFT52	20	42242573	Missense_Mutation	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	7783619	42242573	20782947	100	18907	261	2									
IFT52	51098	hgsc.bcm.edu;ucsc.edu	37	chr20	42242577	42242577	+	Missense_Mutation	SNP	C	C	A																															tctacaggttctgtctgcttCccacttaacagacccatttt																								novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	42242577	C	A	42242577	3	1	373	1	0	0	0	0	1	0	0	0	7561	854	30	4	595	4	IFT52	20	42242577	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	4	42242577	20782943	101	18908	261	2									
MYBL2	4605	hgsc.bcm.edu	37	chr20	42340166	42340166	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggaggacttgaaggaggtGctgcgttctgaggctggcat	8	9	18	6	1	1	2	0	2	1	0	1	6	1	5	0	6	2	4	0	6	1	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	42340166	G	T	42340166	2	4	373	1	0	0	0	0	0	0	0	1	10010	1306	46	4		4	MYBL2	20	42340166	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	97589	42340166	20685354	102	18909											
TSHZ2	128553	hgsc.bcm.edu	37	chr20	51872581	51872581	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctacaagcccagtttgccTcgagcctcttccagacatca	9	11	6	15	1	3	1	1	0	2	1	5	2	4	1	4	0	4	1	4	0	2	4	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		C	51872581	T	C	51872581	3	2	373	1	0	0	0	0	1	0	0	0	16623	1551	54	3	2590	3	TSHZ2	20	51872581	Missense_Mutation	SNP	T	TCGA-CJ-4875-01A-01D-1373-10	9532415	51872581	11152939	103	18910											
CABIN1	23523	hgsc.bcm.edu;ucsc.edu	37	chr22	24567705	24567705	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgggggacacccccaccactCcaaagcaccccaaagacagc	13	1	8	19	1	0	1	0	0	0	1	1	2	1	2	6	2	2	1	6	2	2	0	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	24567705	C	A	24567705	3	1	373	1	0	0	0	0	1	0	0	0	2528	855	30	4	5912	4	CABIN1	22	24567705	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10		24567705	26736861	104	18911											
ELFN2	114794	hgsc.bcm.edu	37	chr22	37769178	37769178	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcagatcctcgtccttGgcgaactggaccttcttgcg	6	12	10	13	3	2	1	1	0	1	1	5	3	4	2	3	2	3	1	3	2	1	3	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	37769178	G	T	37769178	2	4	373	1	0	0	0	0	0	0	0	1	5058	1335	47	4		4	ELFN2	22	37769178	Silent	SNP	G	TCGA-CJ-4875-01A-01D-1373-10	13201473	37769178	13535388	105	18912											
ACE2	59272	hgsc.bcm.edu	37	chrX	15585872	15585872	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagaatcatctgatttttTacttttaaaaagtactgcct	15	16	4	6	0	2	2	1	1	1	1	2	2	2	2	1	0	3	1	1	0	8	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	15585872	T	A	15585872	2	1	373	1	0	0	0	0	0	0	0	1	137	1741	61	5		5	ACE2	23	15585872	Silent	SNP	T	TCGA-CJ-4875-01A-01D-1373-10		15585872	139684688	106	18913											
USP9X	8239	hgsc.bcm.edu	37	chrX	41025293	41025293	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgatattaataaggaCttctttgaaagtaatgtgct	13	15	8	5	0	1	2	0	2	1	0	2	4	2	3	1	1	1	2	1	1	5	6	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	41025293	C	A	41025293	3	1	373	1	0	0	0	0	1	0	0	0	17089	564	20	4	2212	4	USP9X	23	41025293	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	25439421	41025293	114245267	107	18914											
FHL1	2273	hgsc.bcm.edu	37	chrX	135290019	135290019	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacctgtagtaactgcaagCaagtcatcgggactggaagc	12	8	11	10	1	2	0	2	0	0	0	3	2	2	2	1	2	4	4	1	2	5	2	novel		TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		T	135290019	C	T	135290019	4	4	373	1	0	0	0	0	0	1	0	0	5878	711	25	2	527	2	FHL1	23	135290019	Nonsense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	94264726	135290019	19980541	108	18915											
GPR112	139378	hgsc.bcm.edu	37	chrX	135431960	135431960	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcccctcatgttatgacttCctctacagtagaggtgtcaa	9	13	8	11	0	3	2	2	1	1	1	4	2	4	2	3	1	2	2	3	1	4	4	rs145052934	alternate_allele	TCGA-CJ-4875-01A-01D-1373-10	TCGA-CJ-4875-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	03121d77-7273-499f-8405-6bf3a76d30bf	97a9f656-3230-4832-91d5-6827503e146d		A	135431960	C	A	135431960	3	1	373	1	0	0	0	0	1	0	0	0	6629	855	30	4	6105	4	GPR112	23	135431960	Missense_Mutation	SNP	C	TCGA-CJ-4875-01A-01D-1373-10	141941	135431960	19838600	109	18916											
KIF2C	11004	hgsc.bcm.edu	37	chr1	45205617	45205617	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccgaatggccatggacTcgtcgcttcaggcccgcctg	5	9	11	16	4	2	0	1	0	1	0	5	2	2	1	4	3	0	1	4	3	1	1	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	45205617	T	G	45205617	3	3	374	1	0	0	0	0	1	0	0	0	8299	1551	54	5	15	5	KIF2C	1	45205617	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10		45205617	204045004	1	18917											
NSUN4	387338	hgsc.bcm.edu	37	chr1	46806550	46806550	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctgaagcgtgtggacCtcgcgacggtcccgcggaga	7	6	16	12	6	0	2	0	1	0	1	2	5	1	3	2	3	3	2	2	3	1	0	rs41293277	bycluster;byfrequency;by1000genomes	TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	46806550	C	T	46806550	3	4	374	1	0	0	0	0	1	0	0	0	10680	681	24	2	54	2	NSUN4	1	46806550	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	1600933	46806550	202444071	2	18918											
BRDT	676	hgsc.bcm.edu;ucsc.edu	37	chr1	92442700	92442700	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattcacagaaaaatcagTggcactgccacctataaaag	18	7	6	10	0	2	1	2	0	0	1	2	1	2	1	2	1	2	1	2	1	6	3	rs192529642	by1000genomes	TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	92442700	T	C	92442700	3	2	374	1	0	0	0	0	1	0	0	0	1508	1696	59	3	737	3	BRDT	1	92442700	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	45636150	92442700	156807921	3	18919											
FRRS1	391059	hgsc.bcm.edu;ucsc.edu	37	chr1	100214290	100214290	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactaatgtgcaacagaagtAtgcaggtaccaagagtaaat	18	8	9	6	0	0	2	0	0	0	2	0	2	0	2	1	1	5	5	1	1	9	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	100214290	A	C	100214290	3	2	374	1	0	0	0	0	1	0	0	0	6060	449	16	5	1905	5	FRRS1	1	100214290	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10	7771590	100214290	149036331	4	18920											
IPO9	55705	hgsc.bcm.edu	37	chr1	201827588	201827588	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctataggctgtggccacagAtttccagaatgaaagtgcag	12	10	11	8	0	1	3	0	1	1	2	2	3	2	3	2	2	1	2	2	2	4	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	201827588	A	G	201827588	3	3	374	1	0	0	0	0	1	0	0	0	7799	333	12	3	1281	3	IPO9	1	201827588	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10	101613298	201827588	47423033	5	18921											
BRE	9577	hgsc.bcm.edu	37	chr2	28117424	28117424	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttacaagtcaagttaaaAtgtccccagaagtggccttg	13	11	9	8	0	1	1	1	0	0	1	2	2	2	1	3	1	1	1	3	1	6	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	28117424	A	G	28117424	3	3	374	1	0	0	0	0	1	0	0	0	1509	101	4	3	3	3	BRE	2	28117424	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10		28117424	215081949	6	18922											
CUL3	8452	hgsc.bcm.edu;ucsc.edu	37	chr2	225379414	225379414	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaatacacccataacgtaCaacttgatctcgaaaaataa	18	9	3	11	2	1	1	0	1	1	0	2	2	1	1	2	0	4	1	2	0	8	6	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	225379414	C	T	225379414	3	4	374	1	0	0	0	0	1	0	0	0	4056	478	17	2	1904	2	CUL3	2	225379414	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	197261990	225379414	17819959	7	18923											
C2orf85	0	hgsc.bcm.edu	37	chr2	242815059	242815059	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggtggcctggtcaccgCgggtcacgacgcccctctgg	5	6	16	14	4	3	0	2	0	1	0	3	2	3	1	4	6	0	0	4	6	1	0	rs28368764	byfrequency;by1000genomes	TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	242815059	C	T	242815059	3	4	374	1	0	0	0	0	1	0	0	0	2200	768	27	1	1358	1	C2orf85	2	242815059	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	17435645	242815059	384314	8	18924											
ITPR1	3708	hgsc.bcm.edu;ucsc.edu	37	chr3	4730230	4730230	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttggctcatgaatttttgCagaatttctgcgcaggcaac	9	13	11	8	1	2	2	1	1	1	1	2	2	2	2	0	3	3	5	0	3	3	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	4730230	C	T	4730230	4	4	374	1	0	0	0	0	0	1	0	0	7920	711	25	2	3868	2	ITPR1	3	4730230	Nonsense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10		4730230	193292200	9	18925											
SMARCC1	6599	hgsc.bcm.edu;ucsc.edu	37	chr3	47712153	47712153	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattaatctgcttacctccaGgagtagaagggtctcctgtt	9	13	9	10	0	2	1	0	0	2	1	4	2	3	2	3	2	2	3	3	2	4	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	47712153	G	C	47712153	3	2	374	1	0	0	0	0	1	0	0	0	14777	991	35	4	1463	4	SMARCC1	3	47712153	Missense_Mutation	SNP	G	TCGA-CJ-4876-01A-01D-1373-10	42981923	47712153	150310277	10	18926											
APPL1	26060	hgsc.bcm.edu	37	chr3	57291024	57291024	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaatcagctctggaagctGtcactccttccccatctttc	8	13	5	15	0	5	0	3	0	2	0	8	1	7	1	3	1	2	2	3	1	2	2	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	57291024	G	C	57291024	3	2	374	1	0	0	0	0	1	0	0	0	817	1377	48	4	1246	4	APPL1	3	57291024	Missense_Mutation	SNP	G	TCGA-CJ-4876-01A-01D-1373-10	9578871	57291024	140731406	11	18927											
AFF1	4299	hgsc.bcm.edu;ucsc.edu	37	chr4	88053496	88053496	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcaataaagtattctcgtActcttaataaacacttcgag	15	13	5	8	2	2	0	0	0	2	0	4	1	2	0	0	0	3	3	0	0	9	8	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	88053496	A	G	88053496	3	3	374	1	0	0	0	0	1	0	0	0	356	391	14	3	3338	3	AFF1	4	88053496	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10		88053496	103100780	12	18928											
RAI14	26064	hgsc.bcm.edu;ucsc.edu	37	chr5	34824236	34824236	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccttgcaagcaaggaagtGgaagtagcaaagctggagaa	16	5	13	7	0	0	1	0	0	0	1	0	4	0	3	1	3	4	5	1	3	7	2	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	34824236	G	C	34824236	2	2	374	1	0	0	0	0	0	0	0	1	13010	1335	47	4		4	RAI14	5	34824236	Silent	SNP	G	TCGA-CJ-4876-01A-01D-1373-10		34824236	146091024	13	18929											
LMNB1	4001	hgsc.bcm.edu;ucsc.edu	37	chr5	126154654	126154654	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaagaattagaggactTgcttgctaaagaaaaagaca	18	9	9	5	0	1	4	1	0	0	4	1	6	1	5	0	1	2	2	0	1	7	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	126154654	T	C	126154654	3	2	374	1	0	0	0	0	1	0	0	0	8849	1821	63	3	1002	3	LMNB1	5	126154654	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	91330418	126154654	54760606	14	18930											
IL9	3578	hgsc.bcm.edu	37	chr5	135228122	135228122	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatcttttctttctggaaAatttccagaagactcttcag	10	16	5	10	0	6	2	2	0	4	2	7	3	7	3	1	1	0	0	1	1	3	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	135228122	A	G	135228122	2	3	374	1	0	0	0	0	0	0	0	1	7707	10	1	3		3	IL9	5	135228122	Silent	SNP	A	TCGA-CJ-4876-01A-01D-1373-10	9073468	135228122	45687138	15	18931											
RUNX2	860	hgsc.bcm.edu	37	chr6	45514873	45514873	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggggggagaccggtctcCttccagaatgcttccgccat	6	8	13	14	3	1	2	0	0	1	2	4	3	3	2	6	4	1	1	6	4	1	2	rs144852234	alternate_allele	TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	45514873	C	A	45514873	3	1	374	1	0	0	0	0	1	0	0	0	13750	681	24	4	1443	4	RUNX2	6	45514873	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10		45514873	125600194	16	18932											
GOPC	57120	hgsc.bcm.edu;ucsc.edu	37	chr6	117900162	117900162	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagctgatcatgtacttcTttctccaaaacaactttctc	13	14	3	11	0	4	1	1	1	3	0	6	1	4	1	1	0	4	2	1	0	6	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	117900162	T	A	117900162	3	1	374	1	0	0	0	0	1	0	0	0	6573	1606	56	5	1069	5	GOPC	6	117900162	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	72385289	117900162	53214905	17	18933											
DNAH11	8701	hgsc.bcm.edu	37	chr7	21742417	21742417	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaaaatagacccgaagaTcaggtactgcaatgctaata	18	8	8	7	1	1	2	1	0	0	2	1	4	1	2	1	1	3	3	1	1	9	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	21742417	T	G	21742417	3	3	374	1	0	0	0	0	1	0	0	0	4599	1432	50	5	6438	5	DNAH11	7	21742417	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10		21742417	137396246	18	18934											
TECPR1	25851	hgsc.bcm.edu	37	chr7	97870246	97870246	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagatccaggaggctccaCgatggaccaggaacttccta	11	8	10	12	1	1	1	1	0	0	1	4	5	4	4	4	4	1	1	4	4	2	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	97870246	C	A	97870246	3	1	374	1	0	0	0	0	1	0	0	0	15742	536	19	4	2723	4	TECPR1	7	97870246	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	76127829	97870246	61268417	19	18935											
EPHA1	2041	hgsc.bcm.edu;ucsc.edu	37	chr7	143090819	143090819	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggggttggcaagcagttgctCcagatgtgcctgaagcttct	7	11	14	9	0	1	2	0	1	1	1	2	2	2	2	2	3	4	6	2	3	2	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	143090819	C	G	143090819	3	3	374	1	0	0	0	0	1	0	0	0	5165	864	30	4	301	4	EPHA1	7	143090819	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	45220573	143090819	16047844	20	18936											
GAPVD1	26130	hgsc.bcm.edu;ucsc.edu	37	chr9	128069788	128069788	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctggaaggattgagcagaActgtggtttatataacctac	12	13	10	6	0	1	2	0	1	1	1	1	4	1	4	1	3	4	2	1	3	6	7	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	128069788	A	G	128069788	3	3	374	1	0	0	0	0	1	0	0	0	6239	43	2	3	1227	3	GAPVD1	9	128069788	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10		128069788	13143643	21	18937											
KIF20B	9585	hgsc.bcm.edu	37	chr10	91469727	91469727	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggaattctttcagggttGcattatgcaaccagtaaaag	14	11	10	6	0	2	0	1	0	1	0	2	2	2	1	1	2	3	4	1	2	6	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	91469727	G	C	91469727	3	2	374	1	0	0	0	0	1	0	0	0	8287	1319	46	4	409	4	KIF20B	10	91469727	Missense_Mutation	SNP	G	TCGA-CJ-4876-01A-01D-1373-10		91469727	44065020	22	18938											
CCDC87	55231	hgsc.bcm.edu	37	chr11	66359725	66359725	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcttcaaccgagggatGgacttcaattccttcactgg	8	13	8	12	1	4	0	3	0	1	0	6	3	6	2	3	3	1	0	3	3	2	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	66359725	G	A	66359725	2	1	374	1	0	0	0	0	0	0	0	1	2862	1335	47	2		2	CCDC87	11	66359725	Silent	SNP	G	TCGA-CJ-4876-01A-01D-1373-10		66359725	68646791	23	18939											
LRRK2	120892	hgsc.bcm.edu;ucsc.edu	37	chr12	40714842	40714844	+	In_Frame_Del	DEL	TGA	TGA	-																															ccttttgcctttagtttgtcTgaccacaggcctgtgataga																								novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		-	40714844	TGA	-	40714842	7	5	374	1	0	1	0	1	0	0	0	0	9033	1567	55	0	5160	0	LRRK2	12	40714842	In_Frame_Del	DEL	TGA	TCGA-CJ-4876-01A-01D-1373-10		40714842	93137053	24	18940											
SOHLH2	54937	hgsc.bcm.edu;ucsc.edu	37	chr13	36748941	36748941	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagaactgaagccgcatcaTtctttctcccttttacatac	11	13	4	13	1	3	2	1	1	2	1	4	2	3	2	2	0	4	1	2	0	5	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	36748941	T	C	36748941	3	2	374	1	0	0	0	0	1	0	0	0	14926	1493	52	3	590	3	SOHLH2	13	36748941	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10		36748941	78420937	25	18941											
HEATR5A	25938	hgsc.bcm.edu;ucsc.edu	37	chr14	31819067	31819067	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgggctaatctagcccatGactctgcagctgcacatctc	8	11	8	14	0	3	1	0	1	3	0	4	1	3	1	1	1	4	4	1	1	2	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	31819067	G	A	31819067	3	1	374	1	0	0	0	0	1	0	0	0	7031	1294	45	2	3580	2	HEATR5A	14	31819067	Missense_Mutation	SNP	G	TCGA-CJ-4876-01A-01D-1373-10		31819067	75530473	26	18942											
TRAF3	7187	hgsc.bcm.edu	37	chr14	103357741	103357741	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gctgaaggagtggagcaactCgctcgaaaagaaggtgggct	12	6	16	7	2	0	2	0	1	0	1	2	5	0	4	0	4	2	4	0	4	5	0	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	103357741	C	G	103357741	3	3	374	1	0	0	0	0	1	0	0	0	16438	893	31	4	832	4	TRAF3	14	103357741	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	71538674	103357741	3991799	27	18943											
AKAP13	11214	hgsc.bcm.edu;ucsc.edu	37	chr15	86198698	86198698	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accggatccagttcatccacCgatgacacggcttcactgga	10	8	9	14	3	2	1	2	1	0	0	4	4	4	3	4	3	0	2	4	3	0	2	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	86198698	C	T	86198698	2	4	374	1	0	0	0	0	0	0	0	1	449	639	23	1		1	AKAP13	15	86198698	Silent	SNP	C	TCGA-CJ-4876-01A-01D-1373-10		86198698	16332694	28	18944											
TMEM186	25880	hgsc.bcm.edu	37	chr16	8889990	8889990	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgccatgggacagtatGtgtcctgccgccagccccag	7	8	11	15	1	1	0	0	0	1	0	2	1	2	1	6	1	3	1	6	1	1	1	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	8889990	G	T	8889990	3	4	374	1	0	0	0	0	1	0	0	0	16107	1377	48	4	184	4	TMEM186	16	8889990	Missense_Mutation	SNP	G	TCGA-CJ-4876-01A-01D-1373-10		8889990	81464763	29	18945											
ZDHHC1	29800	hgsc.bcm.edu	37	chr16	67428940	67428940	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtctcagacgttcgcactTtatacacgcgcctcttcctc	7	12	7	15	4	2	1	1	0	2	1	6	1	3	1	2	1	1	2	2	1	2	5	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	67428940	T	A	67428940	4	1	374	1	0	0	0	0	0	1	0	0	17599	1850	64	5	270	5	ZDHHC1	16	67428940	Nonsense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	58538950	67428940	22925813	30	18946											
COG4	25839	hgsc.bcm.edu;ucsc.edu	37	chr16	70546246	70546246	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggcagatcaccttcctTggtggcaatggcaaacttct	8	11	11	11	0	2	1	1	0	1	1	3	1	3	1	2	5	1	3	2	5	2	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	70546246	T	A	70546246	4	1	374	1	0	0	0	0	0	1	0	0	3660	1821	63	5	1795	5	COG4	16	70546246	Nonsense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	3117306	70546246	19808507	31	18947											
PIK3R5	23533	hgsc.bcm.edu	37	chr17	8791992	8791992	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagcagatggcgcgagAgggccggccccgaggcctgg	8	3	18	12	4	1	2	1	0	0	2	1	4	1	2	4	5	1	1	4	5	1	0	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	8791992	A	C	8791992	3	2	374	1	0	0	0	0	1	0	0	0	11922	304	11	5	1570	5	PIK3R5	17	8791992	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10		8791992	72403218	32	18948											
MKS1	54903	hgsc.bcm.edu;ucsc.edu	37	chr17	56283700	56283700	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagacggtccaacacaCtccgcatccttttctgaagg	9	10	7	15	2	1	2	0	1	1	1	5	2	5	2	4	2	1	1	4	2	2	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	56283700	C	G	56283700	3	3	374	1	0	0	0	0	1	0	0	0	9609	565	20	4	155	4	MKS1	17	56283700	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	47491708	56283700	24911510	33	18949											
PRKCA	5578	hgsc.bcm.edu	37	chr17	64800059	64800059	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcttaacaccacctgaTcagctggttattgctaacat	10	12	6	13	1	2	1	1	1	1	0	2	1	2	1	3	1	4	3	3	1	3	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	64800059	T	C	64800059	2	2	374	1	0	0	0	0	0	0	0	1	12509	1432	50	3		3	PRKCA	17	64800059	Silent	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	8516359	64800059	16395151	34	18950											
ST6GALNAC2	10610	hgsc.bcm.edu;ucsc.edu	37	chr17	74562266	74562266	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggacagatcgtggtttgCataaaatatcaatggcttca	13	11	10	7	1	2	1	2	0	0	1	3	2	2	2	0	3	1	3	0	3	4	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	74562266	C	T	74562266	3	4	374	1	0	0	0	0	1	0	0	0	15225	710	25	2	83	2	ST6GALNAC2	17	74562266	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10	9762207	74562266	6632944	35	18951											
B4GALT6	9331	hgsc.bcm.edu;ucsc.edu	37	chr18	29218625	29218625	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgttcaatgacataaaaCgcaaattccagccgctgctt	13	10	6	12	2	1	1	1	1	0	0	2	1	2	1	3	0	3	4	3	0	4	4	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	29218625	C	T	29218625	2	4	374	1	0	0	0	0	0	0	0	1	1275	523	19	1		1	B4GALT6	18	29218625	Silent	SNP	C	TCGA-CJ-4876-01A-01D-1373-10		29218625	48858623	36	18952											
KDM4B	23030	hgsc.bcm.edu	37	chr19	5077475	5077475	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtacgggatccccttCagccgggtgcgtacgggtgg	8	7	16	10	4	1	1	1	0	0	1	2	2	2	2	3	4	4	2	3	4	4	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		A	5077475	C	A	5077475	3	1	374	1	0	0	0	0	1	0	0	0	8129	825	29	4	796	4	KDM4B	19	5077475	Missense_Mutation	SNP	C	TCGA-CJ-4876-01A-01D-1373-10		5077475	54051508	37	18953											
TBCB	1155	hgsc.bcm.edu;ucsc.edu	37	chr19	36611673	36611673	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgtcccgggtggagaagtAcacgatctcacaagaagcct	11	7	12	11	3	1	2	1	0	1	2	3	4	2	2	2	2	2	1	2	2	4	1	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		T	36611673	A	T	36611673	3	4	374	1	0	0	0	0	1	0	0	0	15629	391	14	5	330	5	TBCB	19	36611673	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10	31534198	36611673	22517310	38	18954											
PRX	57716	hgsc.bcm.edu	37	chr19	40902439	40902439	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacggccatctcgggcaccTtcgggagttgcacttcaggg	6	8	14	13	3	2	0	1	0	1	0	4	1	2	1	2	4	1	4	2	4	0	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	40902439	T	C	40902439	3	2	374	1	0	0	0	0	1	0	0	0	12644	1609	56	3	2569	3	PRX	19	40902439	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10	4290766	40902439	18226544	39	18955											
KLK13	26085	hgsc.bcm.edu	37	chr19	51561875	51561875	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggtagacttgacgacActcctcatctgagcgaagtt	9	11	10	11	2	2	3	1	2	1	1	4	5	4	3	2	1	1	2	2	1	2	3	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	51561875	A	G	51561875	3	3	374	1	0	0	0	0	1	0	0	0	8401	159	6	3	276	3	KLK13	19	51561875	Missense_Mutation	SNP	A	TCGA-CJ-4876-01A-01D-1373-10	10659436	51561875	7567108	40	18956											
LAIR2	3904	hgsc.bcm.edu	37	chr19	55020248	55020248	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcccctgtttacagaaaGctctggaggcccggactccc	7	8	10	16	1	1	1	0	0	1	1	2	3	2	3	5	3	3	2	5	3	2	2	rs12949	by1000genomes	TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	55020248	G	C	55020248	3	2	374	1	0	0	0	0	1	0	0	0	8603	971	34	4	382	4	LAIR2	19	55020248	Missense_Mutation	SNP	G	TCGA-CJ-4876-01A-01D-1373-10	3458373	55020248	4108735	41	18957											
KIF16B	55614	hgsc.bcm.edu	37	chr20	16359582	16359582	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatgcccagggtggagTgcctctgcagcgcagaatgt	7	9	13	12	1	2	1	0	0	2	1	3	2	2	2	3	2	4	2	3	2	1	0	rs34336583	bycluster;byfrequency;by1000genomes	TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		C	16359582	T	C	16359582	3	2	374	1	0	0	0	0	1	0	0	0	8278	1696	59	3	920	3	KIF16B	20	16359582	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10		16359582	46665938	42	18958											
CCDC120	90060	hgsc.bcm.edu	37	chrX	48919830	48919830	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtcaaaggtcagctgaTcagctctcctaccttcaatg	11	10	9	11	0	5	1	4	1	1	0	6	2	5	2	2	2	3	2	2	2	4	2	novel		TCGA-CJ-4876-01A-01D-1373-10	TCGA-CJ-4876-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	852c4bf6-3ec9-4070-8e5f-78d12686ccac	dc4d5943-3138-4ed1-a452-21dbd520c16c		G	48919830	T	G	48919830	3	3	374	1	0	0	0	0	1	0	0	0	2756	1435	50	5	25	5	CCDC120	23	48919830	Missense_Mutation	SNP	T	TCGA-CJ-4876-01A-01D-1373-10		48919830	106350730	43	18959											
LDLRAD1	388633	hgsc.bcm.edu;ucsc.edu	37	chr1	54477874	54477874	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcgaacgccatcacagacCccactggctggaatgcagct	10	6	11	14	2	1	1	1	0	0	1	1	3	1	2	3	2	4	3	3	2	2	0	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	54477874	C	T	54477874	2	4	375	1	0	0	0	0	0	0	0	1	8705	610	22	2		2	LDLRAD1	1	54477874	Silent	SNP	C	TCGA-CJ-4878-01A-01D-1373-10		54477874	194772747	1	18960											
HFM1	164045	hgsc.bcm.edu;ucsc.edu	37	chr1	91840948	91840948	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacagtcataataaatttaGcatctttcacaagaacagaa	18	10	4	9	0	3	2	2	0	1	2	3	2	3	2	1	0	2	1	1	0	7	5	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	91840948	G	C	91840948	3	2	375	1	0	0	0	0	1	0	0	0	7083	971	34	4	2763	4	HFM1	1	91840948	Missense_Mutation	SNP	G	TCGA-CJ-4878-01A-01D-1373-10	37363074	91840948	157409673	2	18961											
C1orf59	0	hgsc.bcm.edu;ucsc.edu	37	chr1	109191427	109191427	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctctgtgaagactggtcCaaagcatgggacaggggcct	11	7	13	10	0	1	2	0	1	1	1	2	3	2	3	3	4	2	1	3	4	3	0	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	109191427	C	G	109191427	3	3	375	1	0	0	0	0	1	0	0	0	2051	603	21	4	242	4	C1orf59	1	109191427	Missense_Mutation	SNP	C	TCGA-CJ-4878-01A-01D-1373-10	17350479	109191427	140059194	3	18962											
APOB	338	hgsc.bcm.edu;ucsc.edu	37	chr2	21224731	21224731	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttttgaatggacaggtcAatcaatcttttggattcagc	11	15	9	6	0	4	1	3	1	1	0	4	3	4	3	0	3	1	1	0	3	4	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	21224731	A	G	21224731	2	3	375	1	0	0	0	0	0	0	0	1	785	126	5	3		3	APOB	2	21224731	Silent	SNP	A	TCGA-CJ-4878-01A-01D-1373-10		21224731	221974642	4	18963											
ZDBF2	57683	hgsc.bcm.edu	37	chr2	207170013	207170013	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattttcgtatcagaaacAtaaagaatcaaataggaaat	19	12	5	5	1	3	2	3	0	0	2	4	3	3	3	0	1	1	1	0	1	8	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	207170013	A	G	207170013	3	3	375	1	0	0	0	0	1	0	0	0	17598	217	8	3	771	3	ZDBF2	2	207170013	Missense_Mutation	SNP	A	TCGA-CJ-4878-01A-01D-1373-10	185945282	207170013	36029360	5	18964											
RHBDD1	84236	hgsc.bcm.edu;ucsc.edu	37	chr2	227771560	227771560	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttggactaatgtacacTcaagggcctctgaagaaaat	13	11	9	8	0	2	2	1	1	1	1	2	3	2	3	1	2	1	2	1	2	6	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	227771560	T	C	227771560	2	2	375	1	0	0	0	0	0	0	0	1	13318	1538	54	3		3	RHBDD1	2	227771560	Silent	SNP	T	TCGA-CJ-4878-01A-01D-1373-10	20601547	227771560	15427813	6	18965											
ACTR8	93973	hgsc.bcm.edu;ucsc.edu	37	chr3	53916098	53916098	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcccttctcctttccgtTctccgtatcacccttctcag	3	14	5	19	3	4	0	2	0	3	0	8	0	5	0	6	0	0	2	6	0	1	5	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	53916098	T	C	53916098	3	2	375	1	0	0	0	0	1	0	0	0	217	1783	62	3	1895	3	ACTR8	3	53916098	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		53916098	144106332	7	18966											
DAPP1	27071	hgsc.bcm.edu;ucsc.edu	37	chr4	100756843	100756843	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctctcaaatggatgtgaCggcagctaccttctgaggga	9	10	11	11	1	2	2	1	2	2	0	4	4	3	4	2	3	2	2	2	3	2	2	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	100756843	C	T	100756843	2	4	375	1	0	0	0	0	0	0	0	1	4239	535	19	1		1	DAPP1	4	100756843	Silent	SNP	C	TCGA-CJ-4878-01A-01D-1373-10		100756843	90397433	8	18967											
TAS2R1	50834	hgsc.bcm.edu;ucsc.edu	37	chr5	9629743	9629743	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaatcatagatacatatagCagagaccccaggatcatcca	17	7	6	11	0	2	2	2	0	0	2	3	4	3	3	3	1	2	1	3	1	5	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	9629743	C	G	9629743	2	3	375	1	0	0	0	0	0	0	0	1	15564	697	25	4		4	TAS2R1	5	9629743	Silent	SNP	C	TCGA-CJ-4878-01A-01D-1373-10		9629743	171285517	9	18968											
BTN1A1	696	hgsc.bcm.edu;ucsc.edu	37	chr6	26509059	26509059	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcctctccggacccctcTcccattggcagggcccccac	5	7	7	22	1	2	0	0	0	2	0	5	1	3	1	7	3	0	1	7	3	0	1	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	26509059	T	A	26509059	3	1	375	1	0	0	0	0	1	0	0	0	1559	1551	54	5	1264	5	BTN1A1	6	26509059	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		26509059	144606008	10	18969											
MAP3K5	4217	hgsc.bcm.edu;ucsc.edu	37	chr6	136879991	136879991	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatagtagagaacatccaaTagtgtataatcttcagccaa	17	10	6	8	0	2	1	1	0	1	1	3	2	3	1	2	0	2	2	2	0	8	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	136879991	T	C	136879991	2	2	375	1	0	0	0	0	0	0	0	1	9253	1393	49	3		3	MAP3K5	6	136879991	Silent	SNP	T	TCGA-CJ-4878-01A-01D-1373-10	110370932	136879991	34235076	11	18970											
ADAP1	11033	hgsc.bcm.edu	37	chr7	975057	975057	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggcggacggacttcaccTtgctgacctgggggatattc	7	9	13	12	2	1	1	1	1	0	0	2	4	1	4	3	5	1	1	3	5	1	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	975057	T	A	975057	3	1	375	1	0	0	0	0	1	0	0	0	279	1609	56	5	997	5	ADAP1	7	975057	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		975057	158163606	12	18971											
ABCA13	154664	hgsc.bcm.edu	37	chr7	48452147	48452147	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatcagctgcacctgacGggctatgggatctcagacac	9	8	11	13	1	2	2	2	1	1	1	3	3	2	3	1	2	3	4	1	2	1	1	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	48452147	G	A	48452147	2	1	375	1	0	0	0	0	0	0	0	1	31	1103	39	1		1	ABCA13	7	48452147	Silent	SNP	G	TCGA-CJ-4878-01A-01D-1373-10	47477090	48452147	110686516	13	18972											
PCLO	27445	hgsc.bcm.edu;ucsc.edu	37	chr7	82585659	82585659	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtttatactcatcactgCttgatgagccaacactagtt	10	14	6	11	0	2	2	2	2	0	0	2	2	2	2	2	0	4	3	2	0	4	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	82585659	C	T	82585659	3	4	375	1	0	0	0	0	1	0	0	0	11583	797	28	2	10919	2	PCLO	7	82585659	Missense_Mutation	SNP	C	TCGA-CJ-4878-01A-01D-1373-10	34133512	82585659	76553004	14	18973											
ASNS	440	hgsc.bcm.edu;ucsc.edu	37	chr7	97487606	97487606	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctttctagcagccagtAaatcggggctgtcttccatg	8	13	9	11	1	2	0	0	0	2	0	4	0	3	0	3	2	3	3	3	2	4	5	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	97487606	A	G	97487606	3	3	375	1	0	0	0	0	1	0	0	0	1048	372	13	3	826	3	ASNS	7	97487606	Missense_Mutation	SNP	A	TCGA-CJ-4878-01A-01D-1373-10	14901947	97487606	61651057	15	18974											
ADAM2	2515	hgsc.bcm.edu;ucsc.edu	37	chr8	39666986	39666986	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaaaatcttgctgtggCtgaaaaaatccacaaatttt	14	14	6	7	0	1	1	0	1	1	0	2	1	2	1	1	1	2	3	1	1	6	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	39666986	C	T	39666986	5	4	375	1	0	0	0	0	0	0	1	0	241	811	28	2	1750	2	ADAM2	8	39666986	Splice_Site	SNP	C	TCGA-CJ-4878-01A-01D-1373-10		39666986	106697036	16	18975											
GLDC	2731	hgsc.bcm.edu	37	chr9	6536219	6536219	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccacaggccaggacaTggtaggggcgtgaaatcctg	9	6	14	12	1	0	1	0	1	0	0	1	2	1	2	4	5	1	1	4	5	2	1	rs141152043	byfrequency	TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	6536219	T	C	6536219	3	2	375	1	0	0	0	0	1	0	0	0	6433	1464	51	3	391	3	GLDC	9	6536219	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		6536219	134677212	17	18976											
FRMPD2	143162	hgsc.bcm.edu;ucsc.edu	37	chr10	49450292	49450292	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacacttctttctcatgaAcccgacaagcttccagaacc	12	9	5	15	1	2	3	1	1	2	2	4	4	3	3	3	0	3	1	3	0	3	3	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	49450292	A	G	49450292	3	3	375	1	0	0	0	0	1	0	0	0	6058	43	2	3	3550	3	FRMPD2	10	49450292	Missense_Mutation	SNP	A	TCGA-CJ-4878-01A-01D-1373-10		49450292	86084455	18	18977											
AS3MT	57412	hgsc.bcm.edu;ucsc.edu	37	chr10	104632879	104632879	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggctgaaaagtatcttgActatcacatggaaaaatatg	16	11	9	5	0	2	2	1	2	1	0	2	3	2	3	0	2	0	2	0	2	7	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	104632879	A	C	104632879	3	2	375	1	0	0	0	0	1	0	0	0	1005	275	10	5	365	5	AS3MT	10	104632879	Missense_Mutation	SNP	A	TCGA-CJ-4878-01A-01D-1373-10	55182587	104632879	30901868	19	18978											
TRIM3	10612	hgsc.bcm.edu	37	chr11	6477381	6477381	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttgtaaattggtgaatTcacctttctcccttccacga	9	14	5	13	1	2	1	1	1	1	0	4	2	3	1	4	1	0	1	4	1	3	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	6477381	T	C	6477381	3	2	375	1	0	0	0	0	1	0	0	0	16503	1783	62	3	804	3	TRIM3	11	6477381	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		6477381	128529135	20	18979											
OR10A6	390093	hgsc.bcm.edu;ucsc.edu	37	chr11	7949711	7949711	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcattaaggccacaaaaggGaaaactagatacccatgatg	17	8	8	8	0	1	2	1	1	0	1	1	3	1	3	2	2	2	0	2	2	7	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	7949711	G	A	7949711	3	1	375	1	0	0	0	0	1	0	0	0	10894	1174	41	2	448	2	OR10A6	11	7949711	Missense_Mutation	SNP	G	TCGA-CJ-4878-01A-01D-1373-10	1472330	7949711	127056805	21	18980											
IGSF22	283284	hgsc.bcm.edu;ucsc.edu	37	chr11	18738274	18738274	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcttgcccaaccactcaCggtcaacagtgagctgggcc	8	7	11	15	1	3	1	2	1	1	0	3	1	3	1	3	3	4	2	3	3	2	1	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	18738274	C	T	18738274	5	4	375	1	0	0	0	0	0	0	1	0	7600	550	19	1	2789	1	IGSF22	11	18738274	Splice_Site	SNP	C	TCGA-CJ-4878-01A-01D-1373-10	10788563	18738274	116268242	22	18981											
DCDC1	341019	hgsc.bcm.edu;ucsc.edu	37	chr11	31327796	31327796	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccaaggtgatggttggtaCagtaactctggcaaagactg	12	10	12	7	0	1	2	0	1	1	1	1	2	1	2	1	4	3	4	1	4	5	4	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	31327796	C	T	31327796	3	4	375	1	0	0	0	0	1	0	0	0	4284	478	17	2	510	2	DCDC1	11	31327796	Missense_Mutation	SNP	C	TCGA-CJ-4878-01A-01D-1373-10	12589522	31327796	103678720	23	18982											
SLC16A7	9194	hgsc.bcm.edu;ucsc.edu	37	chr12	60169209	60169209	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagtgccgtcggacttgTcacaattgtggagtgtggcc	6	12	13	10	2	1	0	1	0	0	0	3	2	2	2	3	3	1	0	3	3	1	3	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	60169209	T	G	60169209	3	3	375	1	0	0	0	0	1	0	0	0	14415	1667	58	5	1143	5	SLC16A7	12	60169209	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		60169209	73682686	24	18983											
CCNA1	8900	hgsc.bcm.edu;ucsc.edu	37	chr13	37007258	37007258	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgaggtcccgatgcttGtcagatactcaccagagccc	8	7	11	15	2	2	2	2	0	0	2	3	4	3	2	4	2	3	1	4	2	1	2	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	37007258	G	A	37007258	3	1	375	1	0	0	0	0	1	0	0	0	2909	1377	48	2	203	2	CCNA1	13	37007258	Missense_Mutation	SNP	G	TCGA-CJ-4878-01A-01D-1373-10		37007258	78162620	25	18984											
LRFN5	145581	hgsc.bcm.edu;ucsc.edu	37	chr14	42356392	42356392	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgattgataacattcctaaGgggaccttctcccatttgca	11	13	7	10	0	1	2	0	2	1	0	3	3	2	3	3	2	2	1	3	2	2	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		T	42356392	G	T	42356392	3	4	375	1	0	0	0	0	1	0	0	0	8941	991	35	4	566	4	LRFN5	14	42356392	Missense_Mutation	SNP	G	TCGA-CJ-4878-01A-01D-1373-10		42356392	64993148	26	18985											
KIF23	9493	hgsc.bcm.edu;ucsc.edu	37	chr15	69714040	69714040	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccacccagaaggaactcTttgatgttgtggctaatccc	11	10	8	12	0	1	2	0	1	1	1	2	3	2	3	3	2	1	2	3	2	3	3	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		C	69714040	T	C	69714040	3	2	375	1	0	0	0	0	1	0	0	0	8291	1609	56	3	279	3	KIF23	15	69714040	Missense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		69714040	32817352	27	18986											
DECR2	26063	hgsc.bcm.edu	37	chr16	460352	460352	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgtctcgtgtgctctaTgagaagttcttccgggtggg	6	14	14	7	2	3	1	0	1	3	1	5	2	4	1	1	2	1	2	1	2	3	3	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	460352	T	G	460352	4	3	375	1	0	0	0	0	0	1	0	0	4383	1471	51	5	465	5	DECR2	16	460352	Nonsense_Mutation	SNP	T	TCGA-CJ-4878-01A-01D-1373-10		460352	89894401	28	18987											
RBBP6	5930	hgsc.bcm.edu;ucsc.edu	37	chr16	24573318	24573318	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatgattccagtgacatcTtcatcaactcacccagctcc	10	12	4	15	0	4	2	3	2	1	0	6	2	6	2	3	0	2	1	3	0	2	3	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	24573318	T	G	24573318	2	3	375	1	0	0	0	0	0	0	0	1	13105	1596	56	5		5	RBBP6	16	24573318	Silent	SNP	T	TCGA-CJ-4878-01A-01D-1373-10	24112966	24573318	65781435	29	18988											
USP36	57602	hgsc.bcm.edu	37	chr17	76810621	76810621	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgtatgttgaggaattccGgatagcctacatcctgtttg	9	13	11	8	2	0	1	0	1	0	0	2	4	2	3	3	2	2	3	3	2	4	6	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	76810621	G	A	76810621	3	1	375	1	0	0	0	0	1	0	0	0	17066	1116	39	1	2374	1	USP36	17	76810621	Missense_Mutation	SNP	G	TCGA-CJ-4878-01A-01D-1373-10		76810621	4384589	30	18989											
TXN2	25828	hgsc.bcm.edu;ucsc.edu	37	chr22	36872895	36872895	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gccccaggatcttgcagggtCcacaccacctcaaaaggcga	11	5	10	15	1	2	0	1	0	1	0	3	2	3	1	5	3	1	1	5	3	2	1	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		G	36872895	C	G	36872895	3	3	375	1	0	0	0	0	1	0	0	0	16790	855	30	4	236	4	TXN2	22	36872895	Missense_Mutation	SNP	C	TCGA-CJ-4878-01A-01D-1373-10		36872895	14431671	31	18990											
PARVG	64098	hgsc.bcm.edu;ucsc.edu	37	chr22	44592248	44592248	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgtgaactttgtcaacCagaagctggaccgcctgggc	9	8	11	13	2	1	2	1	1	0	1	2	3	1	3	4	2	3	1	4	2	3	1	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	44592248	C	A	44592248	3	1	375	1	0	0	0	0	1	0	0	0	11470	595	21	4	698	4	PARVG	22	44592248	Missense_Mutation	SNP	C	TCGA-CJ-4878-01A-01D-1373-10	7719353	44592248	6712318	32	18991											
FGD1	2245	hgsc.bcm.edu;ucsc.edu	37	chrX	54491907	54491907	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggcatccttgctgtccgggGagccatggggcagctttaac	6	9	15	11	1	0	0	0	0	0	0	2	1	2	1	3	5	4	4	3	5	1	3	novel		TCGA-CJ-4878-01A-01D-1373-10	TCGA-CJ-4878-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	19049209-7ee5-4198-8a2c-036bce104f89	b62cf3a9-0b6e-42a4-9e72-5751abb2c017		A	54491907	G	A	54491907	3	1	375	1	0	0	0	0	1	0	0	0	5832	1174	41	2	1316	2	FGD1	23	54491907	Missense_Mutation	SNP	G	TCGA-CJ-4878-01A-01D-1373-10		54491907	100778653	33	18992											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21806704	21806704	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacaacaccttggcttggctCttgacttggacagtgagtac	10	11	10	10	0	1	2	0	2	1	0	1	3	1	3	1	3	3	3	1	3	3	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	21806704	C	G	21806704	3	3	376	1	0	0	0	0	1	0	0	0	10197	913	32	4	1407	4	NBPF3	1	21806704	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		21806704	227443917	1	18993											
ELAVL4	1996	hgsc.bcm.edu	37	chr1	50666792	50666792	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagcctcaacgggtaccGcctgggagacagagtgttgc	8	6	14	13	3	1	2	1	0	0	2	1	3	1	2	4	2	4	2	4	2	2	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	50666792	G	T	50666792	3	4	376	1	0	0	0	0	1	0	0	0	5052	1087	38	4	1210	4	ELAVL4	1	50666792	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	28860088	50666792	198583829	2	18994											
PTGFR	5737	hgsc.bcm.edu	37	chr1	78958515	78958515	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacggaaaaccggctttcCgtatttttttcagtaatctt	10	15	7	9	3	2	1	1	0	1	1	3	2	3	2	2	2	1	3	2	2	4	7	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	78958515	C	A	78958515	2	1	376	1	0	0	0	0	0	0	0	1	12751	639	23	4		4	PTGFR	1	78958515	Silent	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	28291723	78958515	170292106	3	18995											
FLAD1	80308	hgsc.bcm.edu	37	chr1	154960802	154960802	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacaggcctttggagatgaGctgaagccacaccccaagtt	11	7	11	12	0	0	3	0	2	0	1	0	4	0	3	4	2	2	3	4	2	2	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	154960802	G	A	154960802	2	1	376	1	0	0	0	0	0	0	0	1	5920	962	34	2		2	FLAD1	1	154960802	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	76002287	154960802	94289819	4	18996											
BCAN	63827	hgsc.bcm.edu	37	chr1	156622354	156622354	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcctccaagggtccatggaCcacctactgagactctgccc	8	7	10	16	0	1	1	0	1	1	1	3	3	3	2	6	3	2	0	6	3	2	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	156622354	C	G	156622354	3	3	376	1	0	0	0	0	1	0	0	0	1345	507	18	4	1638	4	BCAN	1	156622354	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	1661552	156622354	92628267	5	18997											
NUF2	83540	hgsc.bcm.edu;ucsc.edu	37	chr1	163297295	163297295	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagcctgaagtcttgcacatGatctacatgagagccttaca	12	11	8	10	0	2	3	0	3	2	1	2	4	2	3	2	0	5	1	2	0	4	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	163297295	G	A	163297295	3	1	376	1	0	0	0	0	1	0	0	0	10747	1290	45	2	147	2	NUF2	1	163297295	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	6674941	163297295	85953326	6	18998											
MIA3	375056	hgsc.bcm.edu;ucsc.edu	37	chr1	222826679	222826679	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	attagcaaatggagaagtggGaggtaagatcagcctcaagg	15	7	14	5	0	2	2	2	0	0	2	2	4	2	3	1	4	2	2	1	4	5	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	222826679	G	C	222826679	3	2	376	1	0	0	0	0	1	0	0	0	9565	1174	41	4	4377	4	MIA3	1	222826679	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	59529384	222826679	26423942	7	18999											
C1orf55	0	hgsc.bcm.edu;ucsc.edu	37	chr1	226180618	226180618	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgattgacatcgcgtagTctccttccactgagatcccg	8	12	8	13	3	2	3	1	3	1	1	6	4	4	3	3	0	0	1	3	0	1	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	226180618	T	C	226180618	2	2	376	1	0	0	0	0	0	0	0	1	2047	1664	58	3		3	C1orf55	1	226180618	Silent	SNP	T	TCGA-CJ-4881-01A-01D-1373-10	3353939	226180618	23070003	8	19000											
GALNT2	2590	hgsc.bcm.edu;ucsc.edu	37	chr1	230410256	230410256	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgccttactgtggtggaccgGgcaccgggctctcttataaa	7	11	12	11	2	1	0	0	0	1	0	2	1	1	1	3	4	2	2	3	4	4	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	230410256	G	C	230410256	2	2	376	1	0	0	0	0	0	0	0	1	6213	1219	43	4		4	GALNT2	1	230410256	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	4229638	230410256	18840365	9	19001											
ITGA6	3655	hgsc.bcm.edu;ucsc.edu	37	chr2	173356019	173356019	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggacagcaaggcgtctcTtattttgcgctcgaggttat	7	13	12	9	3	1	0	0	0	1	0	3	2	1	1	0	3	2	4	0	3	3	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	173356019	T	C	173356019	3	2	376	1	0	0	0	0	1	0	0	0	7880	1609	56	3	2935	3	ITGA6	2	173356019	Missense_Mutation	SNP	T	TCGA-CJ-4881-01A-01D-1373-10		173356019	69843354	10	19002											
NEK10	152110	hgsc.bcm.edu	37	chr3	27350480	27350480	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattagtatctcgggcaccaAgtaaatttactaatgtctga	13	13	7	8	1	2	1	0	1	2	0	3	1	2	1	1	1	1	3	1	1	7	6	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	27350480	A	T	27350480	3	4	376	1	0	0	0	0	1	0	0	0	10322	72	3	5	1545	5	NEK10	3	27350480	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10		27350480	170671950	11	19003											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52442600	52442600	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcgatccatttgaacaGgaagataaatccatatacag	15	11	6	9	1	1	2	0	1	1	1	4	4	3	3	2	1	2	0	2	1	6	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	52442600	G	C	52442600	3	2	376	1	0	0	0	0	1	0	0	0	1311	991	35	4	2100	4	BAP1	3	52442600	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	25092120	52442600	145579830	12	19004											
RPN1	6184	hgsc.bcm.edu	37	chr3	128356662	128356662	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactataggcaggcacatCtctgaaaggcccataatcca	13	8	8	12	0	1	2	0	2	1	0	3	2	2	2	2	3	0	2	2	3	4	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	128356662	C	A	128356662	3	1	376	1	0	0	0	0	1	0	0	0	13609	913	32	4	1242	4	RPN1	3	128356662	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	75914062	128356662	69665768	13	19005											
MYNN	55892	hgsc.bcm.edu	37	chr3	169504386	169504386	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctgtcacggatactcagtctCctacatcagatacattgttg	10	13	7	11	1	4	1	3	0	1	1	5	2	4	2	1	1	3	1	1	1	3	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	169504386	C	G	169504386	3	3	376	1	0	0	0	0	1	0	0	0	10061	855	30	4	1779	4	MYNN	3	169504386	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	41147724	169504386	28518044	14	19006											
PPEF2	5470	hgsc.bcm.edu	37	chr4	76797629	76797629	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcccgtccagggaaccgctGcaggggatgctggaggacct	7	5	16	13	3	0	0	0	0	0	0	1	4	1	4	4	5	3	3	4	5	1	0	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	76797629	G	A	76797629	2	1	376	1	0	0	0	0	0	0	0	1	12308	1311	46	2		2	PPEF2	4	76797629	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10		76797629	114356647	15	19007											
SLU7	10569	hgsc.bcm.edu;ucsc.edu	37	chr5	159833540	159833540	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcccgctcctgtccttTgatgactgtcccatgtcttg	6	13	8	14	1	1	2	0	2	1	0	4	2	4	2	4	0	2	1	4	0	1	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	159833540	T	G	159833540	3	3	376	1	0	0	0	0	1	0	0	0	14757	1821	63	5	558	5	SLU7	5	159833540	Missense_Mutation	SNP	T	TCGA-CJ-4881-01A-01D-1373-10		159833540	21081720	16	19008											
TNFRSF21	27242	hgsc.bcm.edu;ucsc.edu	37	chr6	47251933	47251933	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtcccctcttggggcccttGatgggcgtgctggacttctc	2	13	13	13	1	2	1	0	1	2	0	4	2	3	2	3	4	1	1	3	4	0	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	47251933	G	A	47251933	2	1	376	1	0	0	0	0	0	0	0	1	16294	1280	45	2		2	TNFRSF21	6	47251933	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10		47251933	123863134	17	19009											
PRKDC	5591	hgsc.bcm.edu	37	chr8	48711870	48711870	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggcccacagctccaggAgggaggctgggcctcctcct	6	6	14	15	0	0	0	0	0	0	0	3	2	3	2	5	5	2	3	5	5	0	0	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	48711870	A	T	48711870	3	4	376	1	0	0	0	0	1	0	0	0	12523	304	11	5	2248	5	PRKDC	8	48711870	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10		48711870	97652152	18	19010											
ABRA	137735	hgsc.bcm.edu	37	chr8	107773283	107773283	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttcacttgagtagcgtaatCacaacatggtcatctcggcc	10	11	9	11	2	4	1	3	1	1	0	5	1	4	1	1	2	2	3	1	2	3	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	107773283	C	G	107773283	2	3	376	1	0	0	0	0	0	0	0	1	100	813	29	4		4	ABRA	8	107773283	Silent	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	59061413	107773283	38590739	19	19011											
FAM83A	84985	hgsc.bcm.edu	37	chr8	124195554	124195554	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcagagacctcgtccgccGctgcatcacccggactagcc	8	6	9	18	4	2	1	2	0	0	1	4	3	3	2	5	1	2	2	5	1	1	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	124195554	G	A	124195554	3	1	376	1	0	0	0	0	1	0	0	0	5633	1087	38	1	460	1	FAM83A	8	124195554	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	16422271	124195554	22168468	20	19012											
DENND4C	55667	hgsc.bcm.edu	37	chr9	19331996	19331996	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaataaaaacagctcataaAttggcgaagagatgttatac	19	9	8	5	1	1	1	1	0	0	1	1	4	1	1	0	1	3	2	0	1	9	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	19331996	A	T	19331996	3	4	376	1	0	0	0	0	1	0	0	0	4435	98	4	5	1616	5	DENND4C	9	19331996	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10		19331996	121881435	21	19013											
FAM75A3	0	hgsc.bcm.edu	37	chr9	40704227	40704227	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgatgcagcttcaggaCgaatcaccagggacaagtca	13	7	11	10	1	4	1	3	1	1	0	4	5	4	3	1	2	2	2	1	2	2	1	rs67937937	bycluster	TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	40704227	T	T	40704227	2	4	376	1	0	0	0	0	0	0	0	1	5621	535	19	1		1	FAM75A3	9	40704227	Silent	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	21372231	40704227	100509204	22	19014											
PDE6C	5146	hgsc.bcm.edu;ucsc.edu	37	chr10	95372619	95372619	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagccaggtgccagtccagtCcagcatgtccttctctgagc	7	9	10	15	0	1	1	0	1	1	0	5	1	4	1	5	1	4	1	5	1	0	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	95372619	C	A	95372619	3	1	376	1	0	0	0	0	1	0	0	0	11647	855	30	4	139	4	PDE6C	10	95372619	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		95372619	40162128	23	19015											
ADAMTS20	80070	hgsc.bcm.edu;ucsc.edu	37	chr12	43825222	43825222	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtacttgaattacagaaGccatcactcaagtgatctac	13	12	7	9	0	3	3	2	2	1	1	3	3	3	3	1	1	4	1	1	1	6	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	43825222	G	A	43825222	2	1	376	1	0	0	0	0	0	0	0	1	266	958	34	2		2	ADAMTS20	12	43825222	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10		43825222	90026673	24	19016											
KRT6C	286887	hgsc.bcm.edu	37	chr12	52863663	52863663	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcagcaatggcagcctgCaggctggcacactaggaggg	10	5	15	11	0	1	0	1	0	0	0	1	1	1	1	1	5	3	6	1	5	2	1	rs11540291		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	52863663	C	T	52863663	2	4	376	1	0	0	0	0	0	0	0	1	8482	697	25	2		2	KRT6C	12	52863663	Silent	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	9038441	52863663	80988232	25	19017											
ERBB3	2065	hgsc.bcm.edu;ucsc.edu	37	chr12	56478808	56478808	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagtgacaggctatgtcctCgtggccatgaatgaattctc	10	11	11	9	1	1	3	0	3	1	0	4	4	2	3	2	2	0	1	2	2	4	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	56478808	C	T	56478808	2	4	376	1	0	0	0	0	0	0	0	1	5208	871	31	1		1	ERBB3	12	56478808	Silent	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	3615145	56478808	77373087	26	19018											
PTPRB	5787	hgsc.bcm.edu	37	chr12	70960250	70960250	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggcttccttgctaaagAggcctccactgacagttagg	8	11	11	11	0	1	2	0	1	1	1	3	2	3	2	3	3	1	3	3	3	3	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	70960250	A	G	70960250	3	3	376	1	0	0	0	0	1	0	0	0	12798	304	11	3	2858	3	PTPRB	12	70960250	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10	14481442	70960250	62891645	27	19019											
DTX1	1840	hgsc.bcm.edu	37	chr12	113531890	113531890	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatacatgcagaaggtgaaaAacccacctgatgaggtgagg	15	6	13	7	0	0	5	0	4	0	1	0	6	0	5	2	3	3	1	2	3	4	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	113531890	A	C	113531890	3	2	376	1	0	0	0	0	1	0	0	0	4793	14	1	5	1231	5	DTX1	12	113531890	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10	42571640	113531890	20320005	28	19020											
CAMKK2	10645	hgsc.bcm.edu;ucsc.edu	37	chr12	121698132	121698132	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccttacccatgtacagAtggtcctcattggggtcatc	7	13	9	12	0	2	1	2	0	0	1	5	1	4	1	3	3	2	2	3	3	2	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	121698132	A	T	121698132	3	4	376	1	0	0	0	0	1	0	0	0	2607	330	12	5	1034	5	CAMKK2	12	121698132	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10	8166242	121698132	12153763	29	19021											
SCARB1	949	hgsc.bcm.edu;ucsc.edu	37	chr12	125279747	125279747	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtccccactcacccaatgCctgcgacagatttcatgtag	10	9	7	15	1	2	1	2	0	0	1	3	2	3	1	4	0	2	1	4	0	2	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	125279747	C	A	125279747	3	1	376	1	0	0	0	0	1	0	0	0	13883	739	26	4	473	4	SCARB1	12	125279747	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	3581615	125279747	8572148	30	19022											
CARKD	55739	hgsc.bcm.edu	37	chr13	111287086	111287086	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggaaggctgtgctcactcCcaaccacgtggagttcagca	9	7	11	14	2	2	0	2	0	0	0	3	2	3	2	3	3	3	4	3	3	2	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	111287086	C	A	111287086	3	1	376	1	0	0	0	0	1	0	0	0	2654	623	22	4	640	4	CARKD	13	111287086	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		111287086	3882792	31	19023											
AP1G2	8906	hgsc.bcm.edu	37	chr14	24035342	24035342	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagagttcagggaccttccGgatcatgtgcactgcagtca	9	9	13	10	1	3	1	3	0	0	1	4	4	4	3	2	3	2	3	2	3	0	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	24035342	G	A	24035342	3	1	376	1	0	0	0	0	1	0	0	0	733	1115	39	1	1930	1	AP1G2	14	24035342	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10		24035342	83314198	32	19024											
SENP8	123228	hgsc.bcm.edu;ucsc.edu	37	chr15	72432093	72432093	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtactttgccaacagtcaGtttcatgactgctctgatca	10	13	8	10	0	4	2	3	2	1	0	4	3	4	2	1	0	4	3	1	0	2	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	72432093	G	C	72432093	3	2	376	1	0	0	0	0	1	0	0	0	14054	1020	36	4	131	4	SENP8	15	72432093	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10		72432093	30099299	33	19025											
KIAA0430	9665	hgsc.bcm.edu;ucsc.edu	37	chr16	15690639	15690639	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccgggctttccacggggtCcttgctgagcagtgactcgg	4	9	16	12	3	0	2	0	2	0	0	3	2	2	2	3	5	2	3	3	5	0	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	15690639	C	A	15690639	3	1	376	1	0	0	0	0	1	0	0	0	8177	855	30	4	92	4	KIAA0430	16	15690639	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		15690639	74664114	34	19026											
RBBP6	5930	hgsc.bcm.edu;ucsc.edu	37	chr16	24581248	24581248	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaatcatcatcttcctctcaGaaggatgaaaaaatcactgg	16	10	6	9	0	5	2	4	1	2	1	7	3	6	3	1	2	0	0	1	2	5	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	24581248	G	C	24581248	3	2	376	1	0	0	0	0	1	0	0	0	13105	933	33	4	3357	4	RBBP6	16	24581248	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	8890609	24581248	65773505	35	19027											
BCAR1	9564	hgsc.bcm.edu	37	chr16	75276448	75276448	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcatgccccatcccggCagaaggtggcacctggtaaa	10	7	12	12	1	1	1	1	0	0	1	2	2	2	1	4	4	1	3	4	4	3	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	75276448	C	A	75276448	3	1	376	1	0	0	0	0	1	0	0	0	1348	710	25	4	2144	4	BCAR1	16	75276448	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	50695200	75276448	15078305	36	19028											
CDK12	51755	hgsc.bcm.edu	37	chr17	37618612	37618612	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactagaccgaagggagaaCgacgaacgtcgtggatcaga	16	4	13	8	5	1	3	1	0	0	3	2	8	1	4	1	2	3	0	1	2	5	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	37618612	C	A	37618612	3	1	376	1	0	0	0	0	1	0	0	0	3128	535	19	4	290	4	CDK12	17	37618612	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		37618612	43576598	37	19029											
CDK5RAP3	80279	hgsc.bcm.edu;ucsc.edu	37	chr17	46051372	46051372	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccacgaagaatatttttgGccgatactcttcacagcgga	11	11	8	11	3	2	1	1	0	1	1	3	4	3	2	2	2	2	0	2	2	4	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	46051372	G	T	46051372	3	4	376	1	0	0	0	0	1	0	0	0	3147	1203	42	4	274	4	CDK5RAP3	17	46051372	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	8432760	46051372	35143838	38	19030											
BPTF	2186	hgsc.bcm.edu;ucsc.edu	37	chr17	65942187	65942187	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagtcacaggttgtggctCagatacaggctcagcaaagt	11	9	11	10	0	3	1	3	0	0	1	4	1	4	1	1	3	2	4	1	3	2	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	65942187	C	T	65942187	4	4	376	1	0	0	0	0	0	1	0	0	1495	827	29	2	7831	2	BPTF	17	65942187	Nonsense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10	19890815	65942187	15253023	39	19031											
KIAA1632	0	hgsc.bcm.edu;ucsc.edu	37	chr18	43523194	43523194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaaaggtttctaaccccaCagccagaagttccactagtg	13	10	7	11	0	1	1	0	0	1	1	2	1	2	1	4	1	2	2	4	1	5	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	43523194	C	T	43523194	3	4	376	1	0	0	0	0	1	0	0	0	8249	478	17	2	6007	2	KIAA1632	18	43523194	Missense_Mutation	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		43523194	34554054	40	19032											
OR7D2	162998	hgsc.bcm.edu;ucsc.edu	37	chr19	9296955	9296955	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttctctgatgatgcatctAatcttctgtaaagattttga	11	18	6	6	0	4	4	0	3	4	1	5	4	4	4	0	0	1	2	0	0	3	6	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		G	9296955	A	G	9296955	2	3	376	1	0	0	0	0	0	0	0	1	11219	349	13	3		3	OR7D2	19	9296955	Silent	SNP	A	TCGA-CJ-4881-01A-01D-1373-10		9296955	49832028	41	19033											
PKN1	5585	hgsc.bcm.edu;ucsc.edu	37	chr19	14580588	14580588	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattccgcctgcgtggtgctGggcctacagtttcttcacga	5	13	11	12	3	2	0	1	0	1	0	3	1	3	0	3	2	3	2	3	2	2	5	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	14580588	G	A	14580588	2	1	376	1	0	0	0	0	0	0	0	1	11979	1335	47	2		2	PKN1	19	14580588	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	5283633	14580588	44548395	42	19034											
AKAP8L	26993	hgsc.bcm.edu;ucsc.edu	37	chr19	15511799	15511799	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgagcagtccgtgcgggtgGctttgctatctggctcatca	5	11	13	12	3	3	0	2	0	1	0	4	1	4	0	2	3	3	4	2	3	1	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	15511799	G	A	15511799	3	1	376	1	0	0	0	0	1	0	0	0	458	1203	42	2	1104	2	AKAP8L	19	15511799	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	931211	15511799	43617184	43	19035											
FAM129C	199786	hgsc.bcm.edu;ucsc.edu	37	chr19	17664214	17664214	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtcatctgctaactggAtattggcagcttctctgctg	9	13	9	10	0	3	0	1	0	2	0	4	1	3	1	0	2	4	4	0	2	3	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	17664214	A	T	17664214	3	4	376	1	0	0	0	0	1	0	0	0	5438	333	12	5	2115	5	FAM129C	19	17664214	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10	2152415	17664214	41464769	44	19036											
OSCAR	126014	hgsc.bcm.edu	37	chr19	54600307	54600307	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acacatcccggaagagaaggGgagcgatctctccaggcttg	11	6	13	11	2	1	1	0	0	1	1	4	5	3	3	2	4	1	1	2	4	2	1	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	54600307	G	A	54600307	3	1	376	1	0	0	0	0	1	0	0	0	11285	1232	43	2	782	2	OSCAR	19	54600307	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	36936093	54600307	4528676	45	19037											
COL6A2	1292	hgsc.bcm.edu	37	chr21	47532722	47532722	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcttttctgcagaaacAcgaagcctacggagaggtga	11	10	11	9	2	3	3	0	1	3	2	3	5	3	3	1	2	4	1	1	2	3	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		T	47532722	A	T	47532722	3	4	376	1	0	0	0	0	1	0	0	0	3700	159	6	5	729	5	COL6A2	21	47532722	Missense_Mutation	SNP	A	TCGA-CJ-4881-01A-01D-1373-10		47532722	597173	46	19038											
ZMAT5	55954	hgsc.bcm.edu	37	chr22	30134342	30134342	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctacttggggctgagctcagCcgcttggctctcttctccag	4	12	11	14	1	3	1	1	1	2	0	5	1	3	1	2	3	3	4	2	3	1	4	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	30134342	C	A	30134342	2	1	376	1	0	0	0	0	0	0	0	1	17694	726	26	4		4	ZMAT5	22	30134342	Silent	SNP	C	TCGA-CJ-4881-01A-01D-1373-10		30134342	21170224	47	19039											
ELFN2	114794	hgsc.bcm.edu	37	chr22	37769914	37769914	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggccgagtccagcttgagaGcatcgatgcagttgttaatg	10	10	13	8	2	0	1	0	1	0	1	2	4	1	1	2	1	3	5	2	1	1	3	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	37769914	G	A	37769914	3	1	376	1	0	0	0	0	1	0	0	0	5058	971	34	2	805	2	ELFN2	22	37769914	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	7635572	37769914	13534652	48	19040											
USP9X	8239	hgsc.bcm.edu;ucsc.edu	37	chrX	41077774	41077774	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtgcgtttgcaaaacttaTagtctttattgcacattttt	9	18	8	6	1	1	0	0	0	1	0	1	0	1	0	0	1	4	3	0	1	5	8	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		C	41077774	T	C	41077774	3	2	376	1	0	0	0	0	1	0	0	0	17089	1406	49	3	6501	3	USP9X	23	41077774	Missense_Mutation	SNP	T	TCGA-CJ-4881-01A-01D-1373-10		41077774	114192786	49	19041											
AKAP4	8852	hgsc.bcm.edu;ucsc.edu	37	chrX	49963344	49963344	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttgctgtccttctgggttGtagagatctaccttgcacac	6	15	9	11	0	3	1	0	0	3	1	4	2	4	1	2	1	3	4	2	1	2	6	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	49963344	G	A	49963344	2	1	376	1	0	0	0	0	0	0	0	1	453	1372	48	2		2	AKAP4	23	49963344	Silent	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	8885570	49963344	105307216	50	19042											
FAAH2	158584	hgsc.bcm.edu	37	chrX	57358084	57358084	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgatgccattgccaaaacaGatgccactgtggtggcatta	11	10	11	9	0	0	2	0	1	0	1	0	2	0	2	3	2	4	1	3	2	3	2	novel		TCGA-CJ-4881-01A-01D-1373-10	TCGA-CJ-4881-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	ae20e2d0-5d39-4a94-a9ff-dee71503cbfe	290dd57c-0f01-431d-8b72-5f25f1a00ca7		A	57358084	G	A	57358084	3	1	376	1	0	0	0	0	1	0	0	0	5354	942	33	2	480	2	FAAH2	23	57358084	Missense_Mutation	SNP	G	TCGA-CJ-4881-01A-01D-1373-10	7394740	57358084	97912476	51	19043											
MFSD2A	84879	broad.mit.edu;hgsc.bcm.edu	37	chr1	40434358	40434358	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggcctgctgctcttcaaAatgtaccccattgatgagga	9	11	10	11	0	2	2	1	2	1	0	2	3	2	3	3	2	3	3	3	2	3	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	40434358	A	G	40434358	2	3	377	1	0	0	0	0	0	0	0	1	9530	11	1	3		3	MFSD2A	1	40434358	Silent	SNP	A	TCGA-CJ-4882-01A-02D-1429-08		40434358	208816263	1	19044											
POMGNT1	55624	broad.mit.edu	37	chr1	46658993	46658993	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacctgagacacgcgggcaTtcttgatgctgatgggagta	9	10	14	8	2	1	3	0	3	1	1	1	5	1	4	1	2	2	4	1	2	2	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	46658993	G	G	46658993	3	3	377	1	0	0	0	0	1	0	0	0	12243	1493	52	5	932	5	POMGNT1	1	46658993	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	6224635	46658993	202591628	2	19045											
SYCP1	6847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	115489894	115489894	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactatccaatctcaaagctGaacttttgtctgttaagaag	14	13	6	8	0	2	2	1	1	2	1	4	2	3	2	1	0	3	2	1	0	7	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	115489894	G	T	115489894	4	4	377	1	0	0	0	0	0	1	0	0	15430	1291	45	4	2377	4	SYCP1	1	115489894	Nonsense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	68830901	115489894	133760727	3	19046											
NES	10763	broad.mit.edu	37	chr1	156646329	156646329	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggccctccaacctctgtTccaacgctgccctgcgctcc	5	8	8	20	3	1	0	0	0	1	0	4	0	4	0	6	1	5	3	6	1	2	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	156646329	A	A	156646329	3	1	377	1	0	0	0	0	1	0	0	0	10337	1783	62	5	4153	5	NES	1	156646329	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	41156435	156646329	92604292	4	19047											
DCAF8	50717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160209814	160209814	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcctctagggcccgctcAtcatctgatgagtcctggtc	6	11	10	14	1	4	2	2	2	2	0	7	2	6	2	3	2	0	1	3	2	1	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	160209814	A	G	160209814	2	3	377	1	0	0	0	0	0	0	0	1	4276	214	8	3		3	DCAF8	1	160209814	Silent	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	3563485	160209814	89040807	5	19048											
DYRK3	8444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	206822277	206822277	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaaccaatggtagtataccCctatgcagtgtattgccaaa	14	10	8	9	0	0	0	0	0	0	0	0	1	0	0	4	1	4	4	4	1	8	6	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	206822277	C	T	206822277	2	4	377	1	0	0	0	0	0	0	0	1	4857	610	22	2		2	DYRK3	1	206822277	Silent	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	46612463	206822277	42428344	6	19049											
IL19	29949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	206972280	206972280	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tccgcacagatctgcgtgttCcttaccactcacacatgtgc	8	11	7	15	2	2	1	1	0	1	1	4	1	4	1	3	0	3	2	3	0	1	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	206972280	C	G	206972280	3	3	377	1	0	0	0	0	1	0	0	0	7649	855	30	4	43	4	IL19	1	206972280	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	150003	206972280	42278341	7	19050											
PIGR	5284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	207108891	207108891	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgccgttggtcagacaccAgtagaagccggcgtcccggc	8	6	13	14	5	1	2	1	0	0	2	3	2	2	2	4	3	1	2	4	3	2	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	207108891	A	G	207108891	3	3	377	1	0	0	0	0	1	0	0	0	11897	188	7	3	1004	3	PIGR	1	207108891	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	136611	207108891	42141730	8	19051											
SLC35F3	148641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234454501	234454501	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctttctcctacaggtttTgttcaagctcctcctgggca	5	15	8	13	0	2	0	1	0	1	0	5	0	4	0	3	2	3	5	3	2	2	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	234454501	T	A	234454501	4	1	377	1	0	0	0	0	0	1	0	0	14592	1821	63	5	981	5	SLC35F3	1	234454501	Nonsense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	27345610	234454501	14796120	9	19052											
APOB	338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	21247881	21247881	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctggaggtcatggagactgGcaaaaccaagctcctctccc	10	7	11	13	0	2	1	1	0	1	1	4	3	3	2	3	4	2	3	3	4	3	0	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	21247881	G	A	21247881	3	1	377	1	0	0	0	0	1	0	0	0	785	1203	42	2	11387	2	APOB	2	21247881	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08		21247881	221951492	10	19053											
SLC5A6	8884	broad.mit.edu;hgsc.bcm.edu	37	chr2	27429797	27429797	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcacagttttattgaatCgaagctccaggtactgggta	10	12	10	9	2	0	1	0	1	0	0	3	2	1	1	1	2	2	5	1	2	5	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	27429797	C	A	27429797	3	1	377	1	0	0	0	0	1	0	0	0	14671	884	31	4	1556	4	SLC5A6	2	27429797	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	6181916	27429797	215769576	11	19054											
PTPN4	5775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	120718482	120718482	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagatgacttgggaacaaGgctcctctatggttgtaatg	10	11	13	7	0	1	2	0	1	1	1	2	3	2	3	1	4	1	4	1	4	4	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	120718482	G	A	120718482	3	1	377	1	0	0	0	0	1	0	0	0	12792	1000	35	2	2319	2	PTPN4	2	120718482	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	93288685	120718482	122480891	12	19055											
LRP2	4036	broad.mit.edu	37	chr2	170136059	170136059	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggtttcaacagaaacaTtgagaacctcttggatattt	12	13	9	7	0	2	2	1	1	1	2	2	4	2	3	1	3	3	1	1	3	4	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	170136059	C	C	170136059	3	2	377	1	0	0	0	0	1	0	0	0	8956	1493	52	3	12851	3	LRP2	2	170136059	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	49417577	170136059	73063314	13	19056											
HAT1	8520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	172821890	172821890	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggcaaaattagacaaaTcattccacctggattttgca	14	11	8	8	0	1	2	1	1	0	1	2	3	2	3	2	2	1	2	2	2	4	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	172821890	T	G	172821890	3	3	377	1	0	0	0	0	1	0	0	0	6964	1435	50	5	359	5	HAT1	2	172821890	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	2685831	172821890	70377483	14	19057											
TTN	7273	broad.mit.edu;hgsc.bcm.edu	37	chr2	179424711	179424711	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacatattcagctcctgtTgttagtccgcttattgtata	11	16	6	8	1	1	0	1	0	0	0	3	0	3	0	2	0	2	5	2	0	7	8	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	179424711	T	A	179424711	2	1	377	1	0	0	0	0	0	0	0	1	16734	1799	63	5		5	TTN	2	179424711	Silent	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	6602821	179424711	63774662	15	19058											
TTN	7273	broad.mit.edu	37	chr2	179480458	179480458	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaaactttaaataagtactCttttccttgaacaagatcag	16	13	4	8	0	2	2	1	1	1	1	3	2	3	2	1	0	3	1	1	0	7	7	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	179480458	G	G	179480458	3	3	377	1	0	0	0	0	1	0	0	0	16734	922	32	4	59743	4	TTN	2	179480458	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	55747	179480458	63718915	16	19059											
SLC19A3	80704	broad.mit.edu;ucsc.edu	37	chr2	228560780	228560780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactttcacataacccactgCaaaggcagccacagcccctg	12	6	7	16	0	1	0	1	0	0	0	1	1	1	0	4	1	4	2	4	1	2	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	228560780	A	A	228560780	3	1	377	1	0	0	0	0	1	0	0	0	14432	710	25	4	505	4	SLC19A3	2	228560780	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	49080322	228560780	14638593	17	19060											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443600	52443600	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctgaaggtcgtagatcTcctccacttgcacccccttg	6	12	8	15	1	2	2	0	1	2	1	5	2	3	2	4	1	2	3	4	1	2	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	52443600	T	G	52443600	3	3	377	1	0	0	0	0	1	0	0	0	1311	1551	54	5	2157	5	BAP1	3	52443600	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08		52443600	145578830	18	19061											
A4GNT	51146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	137843364	137843364	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtaaaatctttgggggtgTaagaaggatatgttcagaca	13	11	14	3	0	2	2	1	0	1	2	2	3	2	3	0	4	0	3	0	4	5	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	137843364	T	C	137843364	2	2	377	1	0	0	0	0	0	0	0	1	7	1635	57	3		3	A4GNT	3	137843364	Silent	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	85399764	137843364	60179066	19	19062											
SIAH2	6478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	150460186	150460186	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaactgctggtggccttcGtacttctcttgtttctccag	7	15	8	11	1	2	0	0	0	2	0	5	0	2	0	2	2	3	3	2	2	3	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	150460186	G	C	150460186	4	2	377	1	0	0	0	0	0	1	0	0	14302	1140	40	4	261	4	SIAH2	3	150460186	Nonsense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	12616822	150460186	47562244	20	19063											
ZNF518B	85460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	10447285	10447285	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccagcttggcaacagctTtgactggccgtttcgcacct	6	11	10	14	2	0	1	0	1	0	0	2	1	1	1	3	2	3	6	3	2	1	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	10447285	T	C	10447285	3	2	377	1	0	0	0	0	1	0	0	0	17962	1841	64	3	2560	3	ZNF518B	4	10447285	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08		10447285	180706991	21	19064											
PCDH7	5099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	31144244	31144244	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccactttcatgcctgttGatgaacgaggaagccaggaa	11	10	11	9	1	1	2	1	2	0	0	2	5	2	4	3	2	3	1	3	2	3	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	31144244	G	T	31144244	3	4	377	1	0	0	0	0	1	0	0	0	11516	1290	45	4	3636	4	PCDH7	4	31144244	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	20696959	31144244	160010032	22	19065											
HADH	3033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	108935617	108935617	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttgtggagaagaccctgAgcaccatagcgaccagcacg	13	6	11	11	2	0	3	0	1	0	2	0	5	0	3	3	1	3	2	3	1	3	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	108935617	A	G	108935617	3	3	377	1	0	0	0	0	1	0	0	0	6942	304	11	3	302	3	HADH	4	108935617	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	77791373	108935617	82218659	23	19066											
NRG2	9542	broad.mit.edu;hgsc.bcm.edu	37	chr5	139244754	139244754	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtccccggtgtatcccacagGacacctaccaaaagaaagaa	15	5	8	13	1	0	2	0	0	0	2	2	3	2	3	5	2	1	1	5	2	6	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	139244754	G	A	139244754	3	1	377	1	0	0	0	0	1	0	0	0	10648	1174	41	2	1469	2	NRG2	5	139244754	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08		139244754	41670506	24	19067											
RFX6	222546	broad.mit.edu;hgsc.bcm.edu	37	chr6	117248535	117248535	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacttcttcagtggcagctGtgcggggtctccatataact	8	12	11	10	1	3	1	1	0	2	1	4	1	3	1	1	3	3	2	1	3	2	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	117248535	G	T	117248535	3	4	377	1	0	0	0	0	1	0	0	0	13269	1377	48	4	2297	4	RFX6	6	117248535	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08		117248535	53866532	25	19068											
ZPBP	11055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	50070788	50070788	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcacatgaaaggtcaagAagcagtttgcttaaaatctg	15	12	8	6	0	3	2	2	1	1	1	3	2	3	2	0	1	2	3	0	1	5	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	50070788	A	T	50070788	2	4	377	1	0	0	0	0	0	0	0	1	18218	233	9	5		5	ZPBP	7	50070788	Silent	SNP	A	TCGA-CJ-4882-01A-02D-1429-08		50070788	109067875	26	19069											
TMEM130	222865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	98457932	98457932	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtagggaagtgttctGggtgacaacaaggtccccca	10	7	14	10	0	1	1	0	1	1	0	2	2	2	2	3	4	1	2	3	4	4	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	98457932	G	A	98457932	4	1	377	1	0	0	0	0	0	1	0	0	16042	1357	47	2	910	2	TMEM130	7	98457932	Nonsense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	48387144	98457932	60680731	27	19070											
ZNF425	155054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148802500	148802500	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgatgctgacttttttatTtagaatctctgtttctcgga	7	20	8	6	1	2	3	0	2	2	1	4	4	2	4	0	1	1	2	0	1	3	6	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	148802500	T	G	148802500	3	3	377	1	0	0	0	0	1	0	0	0	17898	1841	64	5	1799	5	ZNF425	7	148802500	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	50344568	148802500	10336163	28	19071											
CCDC25	55246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	27605739	27605739	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaccgctcgactttggTcttttctaatcggttcagga	7	14	11	9	3	3	0	1	0	2	0	5	3	3	2	1	4	1	2	1	4	2	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	27605739	T	G	27605739	3	3	377	1	0	0	0	0	1	0	0	0	2800	1667	58	5	232	5	CCDC25	8	27605739	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08		27605739	118758283	29	19072											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106815671	106815671	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaccagtgggaaatatTgccggctatgtgatatccag	11	10	10	10	1	0	1	0	1	0	0	2	2	2	2	4	2	2	1	4	2	5	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	106815671	T	C	106815671	3	2	377	1	0	0	0	0	1	0	0	0	17657	1812	63	3	3391	3	ZFPM2	8	106815671	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	79209932	106815671	39548351	30	19073											
FOXD4	2298	hgsc.bcm.edu	37	chr9	116848	116849	+	Frame_Shift_Ins	INS	-	-	A																															aactgggcgtgggcgatactINSaaaaaaactggtgaggtccc																								novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	116849	-	A	116848	7	5	377	1	0	1	1	0	0	0	0	0	5999	1519	53	0	51	0	FOXD4	9	116848	Frame_Shift_Ins	INS	-	TCGA-CJ-4882-01A-02D-1429-08		116848	141096583	31	19074											
NMT2	9397	broad.mit.edu;hgsc.bcm.edu	37	chr10	15161511	15161511	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaacctgaagtctttgtaAccttgttggaggggaaacaa	13	11	10	7	0	2	1	1	1	1	0	2	3	2	3	2	3	3	2	2	3	5	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	15161511	A	T	15161511	3	4	377	1	0	0	0	0	1	0	0	0	10504	57	2	5	511	5	NMT2	10	15161511	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08		15161511	120373236	32	19075											
ST8SIA6	338596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	17432566	17432566	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagactcaatgccatatTgcagatttttgcatttctcc	12	14	6	9	0	2	3	1	0	1	3	3	3	2	3	2	0	3	2	2	0	3	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	17432566	T	A	17432566	3	1	377	1	0	0	0	0	1	0	0	0	15237	1812	63	5	966	5	ST8SIA6	10	17432566	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	2271055	17432566	118102181	33	19076											
IFIT2	3433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91065757	91065757	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggagagcagcctacggcAactaaaatgccatttcacct	12	9	8	12	1	1	1	1	0	0	1	1	2	1	1	3	2	5	2	3	2	4	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	91065757	A	C	91065757	3	2	377	1	0	0	0	0	1	0	0	0	7523	130	5	5	50	5	IFIT2	10	91065757	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	73633191	91065757	44468990	34	19077											
WDR11	55717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	122661797	122661797	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaactgttgcttgatccaGaattcactctcttgcagagg	11	12	9	9	0	2	4	1	1	1	3	4	4	3	4	1	1	3	3	1	1	2	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	122661797	G	T	122661797	4	4	377	1	0	0	0	0	0	1	0	0	17272	943	33	4	2802	4	WDR11	10	122661797	Nonsense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	31596040	122661797	12872950	35	19078											
LRP4	4038	broad.mit.edu;hgsc.bcm.edu	37	chr11	46880582	46880582	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcatgtttccagcccgtGtctggcagagagcctcgtct	5	12	11	13	3	3	1	1	0	2	1	5	2	4	1	3	1	2	3	3	1	0	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	46880582	G	A	46880582	2	1	377	1	0	0	0	0	0	0	0	1	8959	1368	48	2		2	LRP4	11	46880582	Silent	SNP	G	TCGA-CJ-4882-01A-02D-1429-08		46880582	88125934	36	19079											
OR4A16	81327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55111083	55111083	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttgaacatcatgaatcGactggtttgcatccttctgt	9	16	7	9	1	2	2	1	2	1	0	4	3	3	2	1	1	2	2	1	1	3	4	rs143065334	byfrequency;alternate_allele	TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	55111083	G	T	55111083	3	4	377	1	0	0	0	0	1	0	0	0	11041	1058	37	4	409	4	OR4A16	11	55111083	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	8230501	55111083	79895433	37	19080											
SLC22A6	9356	broad.mit.edu	37	chr11	62751897	62751897	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttctgtgccattgagaaagGgcagtccccactgcggggag	8	8	14	11	1	1	1	0	1	1	1	2	3	2	2	3	3	2	1	3	3	1	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	62751897	T	T	62751897	3	4	377	1	0	0	0	0	1	0	0	0	14460	1232	43	4	1465	4	SLC22A6	11	62751897	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	7640814	62751897	72254619	38	19081											
OTUB1	55611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63764641	63764641	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggctgctcacctcgggCtacctgcagcgcgagagcaa	7	6	13	15	4	1	1	1	0	0	1	2	2	1	1	2	2	6	5	2	2	2	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	63764641	C	A	63764641	2	1	377	1	0	0	0	0	0	0	0	1	11311	784	28	4		4	OTUB1	11	63764641	Silent	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	1012744	63764641	71241875	39	19082											
ADRBK1	156	broad.mit.edu	37	chr11	67034245	67034246	+	Frame_Shift_Del	DEL	CG	-	-																															aagagcaaggccacgccggcCgcgcgcgccagcaagaagat																								novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		-	67034246	-	-	67034245	7	5	377	1	0	1	0	1	0	0	0	0	343	639	23	0	77	0	ADRBK1	11	67034245	Frame_Shift_Del	DEL	CG	TCGA-CJ-4882-01A-02D-1429-08	3269604	67034245	67972271	40	19083											
KDM4DL	0	broad.mit.edu	37	chr11	94759338	94759338	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacctgcactttggggagcCcaaaacttggtacgtggtgc	8	10	12	11	1	0	0	0	0	0	0	0	1	0	1	2	4	6	2	2	4	4	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	94759338	A	A	94759338	3	1	377	1	0	0	0	0	1	0	0	0	8132	623	22	4	619	4	KDM4DL	11	94759338	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	27725093	94759338	40247178	41	19084											
MMP1	4312	broad.mit.edu;hgsc.bcm.edu	37	chr11	102668828	102668828	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggaaagctgtgcatactgGcctttgtcttctttctcagt	7	15	10	9	0	3	0	1	0	3	0	4	2	3	1	1	2	3	2	1	2	2	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	102668828	G	A	102668828	5	1	377	1	0	0	0	0	0	0	1	0	9648	1217	42	2		2	MMP1	11	102668828	Splice_Site	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	7909490	102668828	32337688	42	19085											
TAS2R50	259296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	11139225	11139225	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagaagtaattcttaattCtacactataaaaagctggat	18	13	5	5	0	2	1	0	0	2	1	2	2	2	2	0	1	2	2	0	1	9	8	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	11139225	C	A	11139225	4	1	377	1	0	0	0	0	0	1	0	0	15583	922	32	4	668	4	TAS2R50	12	11139225	Nonsense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08		11139225	122712670	43	19086											
PPFIBP1	8496	broad.mit.edu	37	chr12	27799072	27799072	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaatgataaagaatccctCgttcttcaggcaagtgattt	14	12	8	7	1	2	3	1	2	1	1	4	4	3	3	1	1	0	2	1	1	6	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	27799072	T	T	27799072	2	4	377	1	0	0	0	0	0	0	0	1	12313	871	31	1		1	PPFIBP1	12	27799072	Silent	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	16659847	27799072	106052823	44	19087											
EP400	57634	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	132497632	132497632	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcctcaccgccttcacaCgagtgcgctggaagtgcctg	6	7	14	14	3	2	0	2	0	0	0	2	2	2	1	4	3	2	1	4	3	1	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	132497632	C	T	132497632	4	4	377	1	0	0	0	0	0	1	0	0	5149	528	19	1	3579	1	EP400	12	132497632	Nonsense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	104698560	132497632	1354263	45	19088											
GPR180	160897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95257668	95257668	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgctcttctgtgtgtcAgaatcaacaacatagcagta	13	11	7	10	0	4	1	2	0	2	1	4	1	4	1	1	0	4	3	1	0	5	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	95257668	A	G	95257668	3	3	377	1	0	0	0	0	1	0	0	0	6676	180	7	3	175	3	GPR180	13	95257668	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08		95257668	19912210	46	19089											
RBM23	55147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23378782	23378782	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctaggataatcctttttaActtctttcctttgttgctca	7	20	5	9	0	2	0	1	0	1	0	4	1	4	1	2	1	3	3	2	1	3	9	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	23378782	A	G	23378782	3	3	377	1	0	0	0	0	1	0	0	0	13125	43	2	3	1278	3	RBM23	14	23378782	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08		23378782	83970758	47	19090											
RYR3	6263	broad.mit.edu;ucsc.edu	37	chr15	34072416	34072416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttctttgtttccaggcaaCgccctgcccttggagaatgt	7	13	9	12	1	1	1	0	0	1	1	2	2	2	1	3	2	2	2	3	2	2	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	34072416	T	T	34072416	3	4	377	1	0	0	0	0	1	0	0	0	13772	536	19	1	9400	1	RYR3	15	34072416	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08		34072416	68458976	48	19091											
CGNL1	84952	broad.mit.edu	37	chr15	57732654	57732654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctaagcagattctctacaAttacctcaaagaagggttag	15	10	8	8	0	2	2	1	0	1	2	3	2	2	2	1	1	4	3	1	1	7	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	57732654	G	G	57732654	3	3	377	1	0	0	0	0	1	0	0	0	3304	101	4	3	1688	3	CGNL1	15	57732654	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	23660238	57732654	44798738	49	19092											
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3988990	3988990	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagagatggttccgtcGggtctgtcgattaggaaaga	10	10	16	5	3	1	3	0	1	1	2	4	6	2	4	1	4	0	1	1	4	3	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	3988990	G	C	3988990	3	2	377	1	0	0	0	0	1	0	0	0	18254	1124	39	4	6425	4	ZZEF1	17	3988990	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08		3988990	77206220	50	19093											
MYH13	8735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10247205	10247205	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccaccacagtctcgttcagGgggtccttgtttttgtccag	5	13	10	13	1	2	0	1	0	1	0	5	0	4	0	4	2	0	2	4	2	0	4	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	10247205	G	T	10247205	2	4	377	1	0	0	0	0	0	0	0	1	10032	1219	43	4		4	MYH13	17	10247205	Silent	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	6258215	10247205	70948005	51	19094											
PGAP3	93210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37829071	37829071	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcttcagtccagcttgaaCttgtcctctgattccttcag	6	15	8	12	0	4	2	2	2	2	0	7	2	7	2	3	1	2	1	3	1	1	5	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	37829071	C	T	37829071	2	4	377	1	0	0	0	0	0	0	0	1	11779	564	20	2		2	PGAP3	17	37829071	Silent	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	27581866	37829071	43366139	52	19095											
WNK4	65266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40947998	40947998	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagcagcgaggagtcagaAagcagtggggaagatgagga	14	5	18	4	1	1	4	1	2	0	2	1	8	1	7	0	4	3	2	0	4	2	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	40947998	A	T	40947998	3	4	377	1	0	0	0	0	1	0	0	0	17379	11	1	5	3440	5	WNK4	17	40947998	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	3118927	40947998	40247212	53	19096											
MYST2	0	broad.mit.edu	37	chr17	47899078	47899078	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagacattatattatgatGtggagcccttcctgttctat	11	15	7	8	0	1	2	0	1	1	1	2	3	2	3	2	1	1	1	2	1	5	6	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	47899078	C	C	47899078	3	2	377	1	0	0	0	0	1	0	0	0	10103	1377	48	4	1354	4	MYST2	17	47899078	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	6951080	47899078	33296132	54	19097											
BRIP1	83990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	59853839	59853839	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaagtgctcccacttcatCttggaactcaaatgtttcag	12	12	6	11	0	4	0	3	0	1	0	5	1	5	1	1	1	2	2	1	1	4	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	59853839	C	A	59853839	3	1	377	1	0	0	0	0	1	0	0	0	1514	913	32	4	1757	4	BRIP1	17	59853839	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	11954761	59853839	21341371	55	19098											
DCAF7	10238	broad.mit.edu	37	chr17	61628100	61628100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgccctggacagtctacgCgatgaactggagtgtgcggc	8	7	15	11	4	1	1	0	1	1	0	1	4	1	3	1	3	4	0	1	3	2	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	61628100	T	T	61628100	3	4	377	1	0	0	0	0	1	0	0	0	4275	768	27	1	64	1	DCAF7	17	61628100	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	1774261	61628100	19567110	56	19099											
SOCS3	9021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76354730	76354730	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggctgggcagacggctgCtcgggcacctcggaggaggg	6	5	20	10	3	0	1	0	0	0	1	2	3	0	3	1	7	1	5	1	7	0	0	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	76354730	C	T	76354730	2	4	377	1	0	0	0	0	0	0	0	1	14917	796	28	2		2	SOCS3	17	76354730	Silent	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	14726630	76354730	4840480	57	19100											
FOXK2	3607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80477948	80477948	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcggccgcaactcgtcgCagggctcggtggacgtgagc	6	6	15	14	6	0	1	0	1	0	0	4	2	0	2	2	4	2	3	2	4	1	0	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	80477948	C	A	80477948	3	1	377	1	0	0	0	0	1	0	0	0	6015	711	25	4	186	4	FOXK2	17	80477948	Missense_Mutation	SNP	C	TCGA-CJ-4882-01A-02D-1429-08	4123218	80477948	717262	58	19101											
PCSK4	54760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1482902	1482902	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccccgccctcacccgtgttGaaatagtagcccttgttctc	6	11	8	16	2	2	1	1	1	1	0	3	1	2	1	5	0	1	3	5	0	3	5	rs143738061	byfrequency;alternate_allele	TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	1482902	G	A	1482902	2	1	377	1	0	0	0	0	0	0	0	1	11602	1281	45	2		2	PCSK4	19	1482902	Silent	SNP	G	TCGA-CJ-4882-01A-02D-1429-08		1482902	57646081	59	19102											
OR7G2	390882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9213720	9213720	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttaaacaaatgtccaaaaagGagagattggagaggaagaag	20	6	12	3	0	0	3	0	0	0	3	1	7	1	5	1	3	1	0	1	3	7	2	rs187723452	by1000genomes;alternate_allele	TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	9213720	G	C	9213720	3	2	377	1	0	0	0	0	1	0	0	0	11223	1174	41	4	776	4	OR7G2	19	9213720	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	7730818	9213720	49915263	60	19103											
DAND5	199699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	13080675	13080675	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaggccttcttgggcctgcaGaaagccaggcagctggggat	9	7	15	10	0	1	1	0	0	1	1	1	2	1	2	3	5	3	3	3	5	2	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	13080675	G	C	13080675	3	2	377	1	0	0	0	0	1	0	0	0	4230	933	33	4	203	4	DAND5	19	13080675	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	3866955	13080675	46048308	61	19104											
UPF1	5976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18974988	18974988	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccttcgcagggagcccgcTtcatgaccacagccatgtat	10	8	9	14	2	1	1	1	1	0	0	2	2	1	2	4	1	3	3	4	1	2	3	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		C	18974988	T	C	18974988	3	2	377	1	0	0	0	0	1	0	0	0	17002	1609	56	3	2863	3	UPF1	19	18974988	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	5894313	18974988	40153995	62	19105											
PEPD	5184	broad.mit.edu	37	chr19	33882246	33882246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgtcaatgcccaggaagtgGccaagcccgtgaggcataaa	13	5	12	11	2	1	1	1	1	0	0	1	2	1	2	3	3	2	1	3	3	5	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	33882246	A	A	33882246	2	1	377	1	0	0	0	0	0	0	0	1	11728	1190	42	2		2	PEPD	19	33882246	Silent	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	14907258	33882246	25246737	63	19106											
GEMIN7	79760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45593483	45593483	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcccccttgaggccagaGgttcctgaaatccaggagtg	10	7	13	11	0	0	4	0	2	0	2	2	5	2	5	5	3	1	1	5	3	1	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		T	45593483	G	T	45593483	3	4	377	1	0	0	0	0	1	0	0	0	6333	991	35	4	113	4	GEMIN7	19	45593483	Missense_Mutation	SNP	G	TCGA-CJ-4882-01A-02D-1429-08	11711237	45593483	13535500	64	19107											
DGCR6L	85359	broad.mit.edu	37	chr22	20307319	20307319	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggacaggcgctgctggaaAgagctgcgggtaggggggcg	8	5	21	7	3	0	1	0	0	0	1	0	3	0	3	0	7	3	4	0	7	3	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	20307319	G	G	20307319	2	3	377	1	0	0	0	0	0	0	0	1	4463	59	3	3		3	DGCR6L	22	20307319	Silent	SNP	A	TCGA-CJ-4882-01A-02D-1429-08		20307319	30997247	65	19108											
HPS4	89781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	26860453	26860453	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaatgacctgaggccatTtccacttcctgagcctctgg	9	10	9	13	0	1	3	0	3	1	0	3	3	3	3	5	2	1	1	5	2	2	2	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	26860453	T	G	26860453	3	3	377	1	0	0	0	0	1	0	0	0	7341	1838	64	5	999	5	HPS4	22	26860453	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08	6553134	26860453	24444113	66	19109											
SUN2	25777	broad.mit.edu;hgsc.bcm.edu	37	chr22	39146323	39146323	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctggtccacatccgagtAgcctgcggggaacgaggaca	9	6	14	12	3	0	0	0	0	0	0	2	4	2	2	3	4	4	2	3	4	2	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		G	39146323	A	G	39146323	3	3	377	1	0	0	0	0	1	0	0	0	15391	420	15	3	1782	3	SUN2	22	39146323	Missense_Mutation	SNP	A	TCGA-CJ-4882-01A-02D-1429-08	12285870	39146323	12158243	67	19110											
LHFPL1	340596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	111914248	111914248	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcttacctccaacaaacTgcgctgctcccatgcaacgt	10	9	6	16	2	1	0	0	0	1	0	3	0	3	0	3	0	7	3	3	0	4	1	novel		TCGA-CJ-4882-01A-02D-1429-08	TCGA-CJ-4882-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1b7b8e8-cc87-4a52-900a-1f3ef7d449d7	d6c446c7-0ee8-434c-944f-e75d557ec181		A	111914248	T	A	111914248	3	1	377	1	0	0	0	0	1	0	0	0	8764	1580	55	5	303	5	LHFPL1	23	111914248	Missense_Mutation	SNP	T	TCGA-CJ-4882-01A-02D-1429-08		111914248	43356312	68	19111											
PLOD1	5351	hgsc.bcm.edu	37	chr1	12010478	12010478	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttccggcaggccaggagcCaggtggtcttctctgctgag	6	9	15	11	1	2	1	0	1	2	0	4	2	3	2	3	5	2	3	3	5	0	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	12010478	C	T	12010478	4	4	378	1	0	0	0	0	0	1	0	0	12101	595	21	2	381	2	PLOD1	1	12010478	Nonsense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		12010478	237240143	1	19112											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21808126	21808126	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaggtagtagagcctgaGgacttgcaggactcactgga	10	7	15	9	1	1	2	1	1	0	1	1	6	1	6	2	5	2	3	2	5	2	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	21808126	G	A	21808126	2	1	378	1	0	0	0	0	0	0	0	1	10197	991	35	2		2	NBPF3	1	21808126	Silent	SNP	G	TCGA-CJ-4884-01A-01D-1373-10	9797648	21808126	227442495	2	19113											
COL11A1	1301	hgsc.bcm.edu	37	chr1	103548427	103548427	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactctgtaagcagtatctgAgcctttagaattctttctgt	10	16	7	8	0	4	2	0	1	4	1	4	2	4	2	1	0	3	3	1	0	5	6	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	103548427	A	C	103548427	3	2	378	1	0	0	0	0	1	0	0	0	3667	304	11	5	5633	5	COL11A1	1	103548427	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	81740301	103548427	145702194	3	19114											
PAPPA2	60676	hgsc.bcm.edu;ucsc.edu	37	chr1	176740168	176740168	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccctgaagtctactgcaagTtggagtgtgatgctccccct	7	12	10	12	0	1	2	0	2	1	0	3	3	3	3	3	1	3	3	3	1	3	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	176740168	T	C	176740168	2	2	378	1	0	0	0	0	0	0	0	1	11433	1722	60	3		3	PAPPA2	1	176740168	Silent	SNP	T	TCGA-CJ-4884-01A-01D-1373-10	73191741	176740168	72510453	4	19115											
ABL2	27	hgsc.bcm.edu;ucsc.edu	37	chr1	179100500	179100500	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaaaatcataaagtgcaaCgaagagattagggtcactct	17	9	8	7	1	3	1	2	0	1	1	3	3	3	1	0	1	3	1	0	1	8	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	179100500	C	A	179100500	3	1	378	1	0	0	0	0	1	0	0	0	93	536	19	4	3296	4	ABL2	1	179100500	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	2360332	179100500	70150121	5	19116											
HMCN1	83872	ucsc.edu	37	chr1	186106949	186106949	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatagtggatggtagctggtCggaatggagtctttgggaag	9	12	17	3	1	1	0	0	0	1	0	2	4	1	4	0	6	1	2	0	6	5	4	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	186106949	C	T	186106949	3	4	378	1	0	0	0	0	1	0	0	0	7220	893	31	1	14123	1	HMCN1	1	186106949	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	7006449	186106949	63143672	6	19117											
PARP1	142	hgsc.bcm.edu	37	chr1	226566974	226566974	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgcgcagagtgttccagTcctgtcccagaggaaaagca	12	7	11	11	1	0	2	0	0	0	2	3	3	3	3	3	1	2	3	3	1	2	1	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	226566974	T	A	226566974	2	1	378	1	0	0	0	0	0	0	0	1	11454	1681	58	5		5	PARP1	1	226566974	Silent	SNP	T	TCGA-CJ-4884-01A-01D-1373-10	40460025	226566974	22683647	7	19118											
ZP4	57829	hgsc.bcm.edu;ucsc.edu	37	chr1	238053425	238053425	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggaccttttcttatcCaggtgccacagtcggagtca	7	12	10	12	1	2	0	1	0	1	0	4	2	3	2	4	3	2	0	4	3	1	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	238053425	C	G	238053425	3	3	378	1	0	0	0	0	1	0	0	0	18217	595	21	4	1439	4	ZP4	1	238053425	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	11486451	238053425	11197196	8	19119											
CNGA3	1261	hgsc.bcm.edu	37	chr2	99013536	99013536	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagtggagcagctggggTcctccctggacaccctgcag	9	6	14	12	0	0	1	0	0	0	1	2	3	2	3	3	4	3	3	3	4	1	0	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	99013536	T	A	99013536	3	1	378	1	0	0	0	0	1	0	0	0	3598	1667	58	5	1929	5	CNGA3	2	99013536	Missense_Mutation	SNP	T	TCGA-CJ-4884-01A-01D-1373-10		99013536	144185837	9	19120											
TTN	7273	hgsc.bcm.edu	37	chr2	179648841	179648841	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaagcgctcttcacggaCggtggtgccagtgatgctca	8	10	12	11	3	4	1	3	1	1	0	4	2	4	2	1	3	3	2	1	3	1	2	rs141961878	alternate_allele	TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	179648841	C	A	179648841	3	1	378	1	0	0	0	0	1	0	0	0	16734	536	19	4	108645	4	TTN	2	179648841	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	80635305	179648841	63550532	10	19121											
BSN	8927	hgsc.bcm.edu;ucsc.edu	37	chr3	49694177	49694177	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgcaagaggagctagagcgGgaacgtgtggagctgcagag	11	5	18	7	2	0	3	0	0	0	3	0	6	0	6	0	3	6	4	0	3	3	1	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	49694177	G	A	49694177	2	1	378	1	0	0	0	0	0	0	0	1	1530	1219	43	2		2	BSN	3	49694177	Silent	SNP	G	TCGA-CJ-4884-01A-01D-1373-10		49694177	148328253	11	19122											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52620646	52620646	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttttggcagaataccgtGattcacagacaaaaacatcc	14	10	8	9	1	1	3	1	1	0	2	2	3	2	3	2	2	2	2	2	2	4	4	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	52620646	G	T	52620646	4	4	378	1	0	0	0	0	0	1	0	0	11491	1294	45	4	1762	4	PBRM1	3	52620646	Nonsense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10	2926469	52620646	145401784	12	19123											
ATP13A4	84239	hgsc.bcm.edu;ucsc.edu	37	chr3	193151706	193151706	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atttgaaaggctgtttgtctCctgaaaataaaaagaaagca	17	11	8	5	0	1	3	0	2	1	1	2	3	1	3	1	1	1	3	1	1	7	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	193151706	C	T	193151706	3	4	378	1	0	0	0	0	1	0	0	0	1126	869	30	2	844	2	ATP13A4	3	193151706	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	140531060	193151706	4870724	13	19124											
ZNF732	654254	hgsc.bcm.edu	37	chr4	265967	265967	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtaaagatgttgccacattCttcacatgtgaagggtttct	10	14	10	7	0	3	2	1	1	2	1	3	2	3	2	1	2	1	3	1	2	3	5	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	265967	C	G	265967	3	3	378	1	0	0	0	0	1	0	0	0	18122	922	32	4	1082	4	ZNF732	4	265967	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		265967	190888309	14	19125											
AFP	174	hgsc.bcm.edu;ucsc.edu	37	chr4	74316336	74316336	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaatgcttctttcaggtttCtcgttgcttacacaaagaaa	13	14	6	8	1	3	1	1	0	2	1	4	1	3	1	0	1	3	4	0	1	5	5	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	74316336	C	G	74316336	3	3	378	1	0	0	0	0	1	0	0	0	363	913	32	4	1336	4	AFP	4	74316336	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	74050369	74316336	116837940	15	19126											
RICTOR	253260	hgsc.bcm.edu;ucsc.edu	37	chr5	38958913	38958913	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatacccttaaatgtttTgttgcatagagtctgcaggc	12	14	8	7	0	1	1	0	0	1	1	1	1	1	1	1	1	3	4	1	1	6	7	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	38958913	T	A	38958913	2	1	378	1	0	0	0	0	0	0	0	1	13360	1799	63	5		5	RICTOR	5	38958913	Silent	SNP	T	TCGA-CJ-4884-01A-01D-1373-10		38958913	141956347	16	19127											
SLC39A7	7922	hgsc.bcm.edu;ucsc.edu	37	chr6	33171434	33171434	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtggtgcaggtcctggctgGgtcctgccatttactgcagg	4	11	16	10	0	0	0	0	0	0	0	2	0	2	0	3	6	4	3	3	6	1	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	33171434	G	T	33171434	3	4	378	1	0	0	0	0	1	0	0	0	14625	1241	43	4	1280	4	SLC39A7	6	33171434	Missense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10		33171434	137943633	17	19128											
DNAH8	1769	hgsc.bcm.edu;ucsc.edu	37	chr6	38862582	38862582	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaagctgaggagtgcgctTcaatccctactctcctgtcc	9	11	8	13	1	2	1	1	1	1	0	5	2	4	2	3	1	3	2	3	1	4	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	38862582	T	A	38862582	3	1	378	1	0	0	0	0	1	0	0	0	4607	1783	62	5	8256	5	DNAH8	6	38862582	Missense_Mutation	SNP	T	TCGA-CJ-4884-01A-01D-1373-10	5691148	38862582	132252485	18	19129											
POLR1C	9533	hgsc.bcm.edu	37	chr6	43488991	43488991	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaaagtactgatggggAagtgccggcgcttcttggat	9	10	13	9	2	2	1	1	1	1	0	2	3	2	3	2	4	2	2	2	4	3	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	43488991	A	C	43488991	3	2	378	1	0	0	0	0	1	0	0	0	12211	247	9	5	1028	5	POLR1C	6	43488991	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	4626409	43488991	127626076	19	19130											
DST	667	hgsc.bcm.edu;ucsc.edu	37	chr6	56433296	56433296	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctattgcctttgcaGgggtggtcacagcacttatt	6	14	11	10	0	1	0	1	0	0	0	1	0	1	0	1	3	5	4	1	3	2	5	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	56433296	G	C	56433296	3	2	378	1	0	0	0	0	1	0	0	0	4783	1000	35	4	9604	4	DST	6	56433296	Missense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10	12944305	56433296	114681771	20	19131											
GUSB	2990	hgsc.bcm.edu	37	chr7	65432870	65432870	+	Missense_Mutation	SNP	A	A	C																															ccaagagtagtagctgttcaAacagatcacatccacatacg																								novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	65432870	A	C	65432870	3	2	378	1	0	0	0	0	1	0	0	0	6902	11	1	5	466	5	GUSB	7	65432870	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10		65432870	93705793	21	19132	262	2									
GUSB	2990	hgsc.bcm.edu	37	chr7	65432873	65432873	+	Missense_Mutation	SNP	A	A	G																															agagtagtagctgttcaaacAgatcacatccacatacggag																								novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	65432873	A	G	65432873	3	3	378	1	0	0	0	0	1	0	0	0	6902	188	7	3	469	3	GUSB	7	65432873	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	3	65432873	93705790	22	19133	262	2									
SHC3	53358	hgsc.bcm.edu	37	chr9	91653009	91653009	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgctcttcctgaccaggaAgtctccgtctttctccagca	6	12	9	14	1	4	1	0	1	4	0	7	2	5	2	4	2	2	2	4	2	1	2	rs181529544	by1000genomes	TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	91653009	A	G	91653009	3	3	378	1	0	0	0	0	1	0	0	0	14274	72	3	3	237	3	SHC3	9	91653009	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10		91653009	49560422	23	19134											
SCAI	286205	hgsc.bcm.edu;ucsc.edu	37	chr9	127789090	127789090	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaacatagcagatacataCctgtcctctttattgacttg	14	13	5	9	0	1	2	0	1	1	1	2	2	2	2	2	0	4	1	2	0	6	7	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	127789090	C	G	127789090	5	3	378	1	0	0	0	0	0	0	1	0	13871	521	18	4	1359	4	SCAI	9	127789090	Splice_Site	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	36136081	127789090	13424341	24	19135											
GBF1	8729	hgsc.bcm.edu	37	chr10	104136037	104136037	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctaccataggggcccagTcagatagtgagctcccatcc	9	8	10	14	0	1	2	1	1	0	1	3	2	3	2	5	2	3	1	5	2	3	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	104136037	T	C	104136037	3	2	378	1	0	0	0	0	1	0	0	0	6271	1667	58	3	4010	3	GBF1	10	104136037	Missense_Mutation	SNP	T	TCGA-CJ-4884-01A-01D-1373-10		104136037	31398710	25	19136											
SEC23IP	11196	hgsc.bcm.edu;ucsc.edu	37	chr10	121658082	121658082	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggacagtcaccattaacaActgcagcaacctcagttgga	13	9	8	11	0	2	0	2	0	0	0	2	2	2	2	2	2	5	3	2	2	3	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	121658082	A	G	121658082	3	3	378	1	0	0	0	0	1	0	0	0	13995	43	2	3	313	3	SEC23IP	10	121658082	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	17522045	121658082	13876665	26	19137											
OR51B4	79339	hgsc.bcm.edu	37	chr11	5322392	5322392	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacatgaggtgcatgtttcCcaaacctgtgaatgaatgac	12	10	9	10	0	0	4	0	4	0	0	1	4	1	4	3	1	2	2	3	1	3	1	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	5322392	C	A	5322392	3	1	378	1	0	0	0	0	1	0	0	0	11090	623	22	4	150	4	OR51B4	11	5322392	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		5322392	129684124	27	19138											
CCKBR	887	hgsc.bcm.edu	37	chr11	6292261	6292261	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgttcaccagaacgggCgttgccggcctgagactggc	6	7	16	12	3	1	2	1	1	0	2	1	3	1	2	3	4	2	3	3	4	1	2	rs144317623	alternate_allele	TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	6292261	C	G	6292261	3	3	378	1	0	0	0	0	1	0	0	0	2881	768	27	4	850	4	CCKBR	11	6292261	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	969869	6292261	128714255	28	19139											
C12orf63	374467	hgsc.bcm.edu;ucsc.edu	37	chr12	97137566	97137566	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcaatcacggctaaccCtggcaagaagcctagttttg	10	10	8	13	1	2	1	2	0	0	1	3	1	3	1	3	2	2	3	3	2	5	4	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	97137566	C	T	97137566	2	4	378	1	0	0	0	0	0	0	0	1	1706	680	24	2		2	C12orf63	12	97137566	Silent	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		97137566	36714329	29	19140											
C13orf39	0	hgsc.bcm.edu	37	chr13	103346806	103346806	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggggagctgagtccttcccCccggcgcccaggctgctgcg	3	6	15	17	4	0	1	0	1	0	0	2	2	2	2	5	4	3	3	5	4	0	1	rs2390760	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	103346806	C	G	103346806	3	3	378	1	0	0	0	0	1	0	0	0	1732	623	22	4	767	4	C13orf39	13	103346806	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		103346806	11823072	30	19141											
ZFYVE26	23503	hgsc.bcm.edu	37	chr14	68251807	68251807	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaactttgaaggagaacTgcagcaagggtgctgcagta	13	8	12	8	0	1	2	1	1	0	1	1	3	1	2	0	2	6	5	0	2	5	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	68251807	T	C	68251807	2	2	378	1	0	0	0	0	0	0	0	1	17667	1567	55	3		3	ZFYVE26	14	68251807	Silent	SNP	T	TCGA-CJ-4884-01A-01D-1373-10		68251807	39097733	31	19142											
GOLGA5	9950	hgsc.bcm.edu	37	chr14	93282749	93282749	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgggccagatacatcagCtcagatccgaattacaggta	13	9	10	9	1	2	3	2	1	0	2	3	4	3	3	2	2	3	2	2	2	4	3	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	93282749	C	A	93282749	3	1	378	1	0	0	0	0	1	0	0	0	6556	797	28	4	1496	4	GOLGA5	14	93282749	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	25030942	93282749	14066791	32	19143											
SERPINA11	256394	hgsc.bcm.edu;ucsc.edu	37	chr14	94909003	94909003	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagctctgggtggtgacctcCcaaaggagcaagaggaaagg	13	5	15	8	0	1	2	0	1	1	1	2	4	2	4	2	5	2	2	2	5	4	0	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	94909003	C	T	94909003	4	4	378	1	0	0	0	0	0	1	0	0	14090	624	22	2	63	2	SERPINA11	14	94909003	Nonsense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	1626254	94909003	12440537	33	19144											
CILP	8483	hgsc.bcm.edu	37	chr15	65490723	65490723	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctgggcagctgtggctGtggaaatattccggggatcc	7	10	15	9	1	1	0	0	0	1	0	3	2	3	2	2	5	1	3	2	5	2	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	65490723	G	T	65490723	3	4	378	1	0	0	0	0	1	0	0	0	3429	1377	48	4	1657	4	CILP	15	65490723	Missense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10		65490723	37040669	34	19145											
MRPL46	26589	hgsc.bcm.edu	37	chr15	89002955	89002955	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttattcccagcctgggaAaagtctccagttaatagcag	11	10	8	12	0	1	0	0	0	1	0	3	1	2	1	4	1	2	2	4	1	5	4	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	89002955	A	G	89002955	2	3	378	1	0	0	0	0	0	0	0	1	9810	11	1	3		3	MRPL46	15	89002955	Silent	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	23512232	89002955	13528437	35	19146											
NLRP1	22861	hgsc.bcm.edu	37	chr17	5456844	5456844	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggagaagagaatctgcCaataggcatctgtgactggg	12	7	15	7	1	2	3	0	1	2	2	2	6	2	4	1	4	1	1	1	4	4	1	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	5456844	C	G	5456844	3	3	378	1	0	0	0	0	1	0	0	0	10471	595	21	4	2158	4	NLRP1	17	5456844	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		5456844	75738366	36	19147											
CNTROB	116840	hgsc.bcm.edu	37	chr17	7850944	7850944	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatagggcagaaaggccAttccctgaggaagatcctgg	12	7	13	9	0	1	3	1	1	0	2	3	5	3	4	3	4	0	1	3	4	3	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	7850944	A	C	7850944	2	2	378	1	0	0	0	0	0	0	0	1	3651	204	8	5		5	CNTROB	17	7850944	Silent	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	2394100	7850944	73344266	37	19148											
ZNF624	57547	hgsc.bcm.edu;ucsc.edu	37	chr17	16527328	16527328	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttctttgatgttgaatgAgcaatgatctataatgaaag	14	14	10	3	0	2	5	0	5	2	0	2	6	2	5	0	0	1	3	0	0	5	5	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	16527328	A	T	16527328	3	4	378	1	0	0	0	0	1	0	0	0	18047	304	11	5	1729	5	ZNF624	17	16527328	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	8676384	16527328	64667882	38	19149											
COG1	9382	hgsc.bcm.edu;ucsc.edu	37	chr17	71193163	71193163	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcctcgccaagccctcacaGacttcctgctggccagaaag	9	7	8	17	1	1	2	1	0	0	2	4	2	3	2	5	1	2	1	5	1	2	1	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	71193163	G	C	71193163	3	2	378	1	0	0	0	0	1	0	0	0	3657	942	33	4	695	4	COG1	17	71193163	Missense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10	54665835	71193163	10002047	39	19150											
MC2R	4158	hgsc.bcm.edu	37	chr18	13884683	13884683	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccctgagctctgggctccGgaaggcatatatgaaggggt	8	9	15	9	1	1	2	0	2	1	0	3	3	3	3	2	5	1	3	2	5	4	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	13884683	G	C	13884683	3	2	378	1	0	0	0	0	1	0	0	0	9364	1115	39	4	62	4	MC2R	18	13884683	Missense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10		13884683	64192565	40	19151											
TIMM44	10469	hgsc.bcm.edu	37	chr19	7997586	7997586	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaaaggccgggtccacccGgaggatctccgtgagcacct	8	6	13	14	3	2	1	1	1	1	0	4	3	3	3	5	4	1	1	5	4	1	0	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	7997586	G	T	7997586	2	4	378	1	0	0	0	0	0	0	0	1	15911	1115	39	4		4	TIMM44	19	7997586	Silent	SNP	G	TCGA-CJ-4884-01A-01D-1373-10		7997586	51131397	41	19152											
DLGAP4	22839	hgsc.bcm.edu	37	chr20	35060891	35060891	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcacatgctcaaaaccacCaagaacaacactactgagct	16	5	7	13	0	1	2	1	1	0	1	1	2	1	2	2	1	6	3	2	1	6	1	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	35060891	C	T	35060891	2	4	378	1	0	0	0	0	0	0	0	1	4562	581	21	2		2	DLGAP4	20	35060891	Silent	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		35060891	27964629	42	19153											
GHRH	2691	hgsc.bcm.edu;ucsc.edu	37	chr20	35882647	35882647	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cagggccaccaggatgctctCcaattccatttgcttttgtt	7	14	8	12	0	1	0	0	0	1	0	3	1	2	1	4	2	2	3	4	2	1	5	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	35882647	C	G	35882647	3	3	378	1	0	0	0	0	1	0	0	0	6372	864	30	4	60	4	GHRH	20	35882647	Missense_Mutation	SNP	C	TCGA-CJ-4884-01A-01D-1373-10	821756	35882647	27142873	43	19154											
SLC19A1	6573	hgsc.bcm.edu	37	chr21	46935726	46935726	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgcagggggaaggggttGtcactgggctcaggaattca	9	8	18	6	0	3	0	3	0	0	0	3	3	3	2	0	6	1	3	0	6	2	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		T	46935726	G	T	46935726	3	4	378	1	0	0	0	0	1	0	0	0	14430	1377	48	4	157	4	SLC19A1	21	46935726	Missense_Mutation	SNP	G	TCGA-CJ-4884-01A-01D-1373-10		46935726	1194169	44	19155											
GAGE10	643832	hgsc.bcm.edu	37	chrX	49173718	49173718	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggagatggtcctgatggCcaggagatgggcctgccaaa	9	8	16	8	0	0	3	0	1	0	2	1	5	1	3	4	5	1	0	4	5	1	0	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		G	49173718	C	G	49173718	2	3	378	1	0	0	0	0	0	0	0	1	6187	726	26	4		4	GAGE10	23	49173718	Silent	SNP	C	TCGA-CJ-4884-01A-01D-1373-10		49173718	106096842	45	19156											
AFF2	2334	hgsc.bcm.edu	37	chrX	148055112	148055112	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagtccccatacaccatgTactctgagactgtggagctc	11	9	8	13	0	1	1	0	1	1	1	3	3	2	2	3	1	3	2	3	1	3	2	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		A	148055112	T	A	148055112	3	1	378	1	0	0	0	0	1	0	0	0	357	1638	57	5	3496	5	AFF2	23	148055112	Missense_Mutation	SNP	T	TCGA-CJ-4884-01A-01D-1373-10	98881394	148055112	7215448	46	19157											
GABRA3	2556	hgsc.bcm.edu;ucsc.edu	37	chrX	151376587	151376587	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctttccgagagtccaagAataaaccacttcagctgttg	11	12	8	10	1	2	2	1	0	1	2	4	3	4	2	3	0	2	3	3	0	4	5	novel		TCGA-CJ-4884-01A-01D-1373-10	TCGA-CJ-4884-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	e6979ef0-43c4-4ae4-a5b3-f252105bdd6a	952be043-cb07-48b4-9c67-123679584a74		C	151376587	A	C	151376587	3	2	378	1	0	0	0	0	1	0	0	0	6162	246	9	5	830	5	GABRA3	23	151376587	Missense_Mutation	SNP	A	TCGA-CJ-4884-01A-01D-1373-10	3321475	151376587	3893973	47	19158											
VHL	7428	hgsc.bcm.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-CJ-4884-01A-01W-1369-10	TCGA-CJ-4884-11A-01W-1369-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	64701b1f-b461-4def-9cab-f77ab43950e6	df5f0ae2-fd74-482a-b48e-40d0a838f438		A	10183725	C	A	10183725	4	1	379	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-CJ-4884-01A-01W-1369-10		10183725	187838705	1	19159											
CATSPER4	378807	hgsc.bcm.edu	37	chr1	26527919	26527919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaacaggcgctcgtcgaCgagcgggtcgttggagacta	8	8	16	9	6	0	2	0	1	0	1	3	5	0	2	0	3	2	3	0	3	2	3	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	26527919	T	T	26527919	3	4	380	1	0	0	0	0	1	0	0	0	2690	536	19	1	1308	1	CATSPER4	1	26527919	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10		26527919	222722702	1	19160											
NSUN4	387338	hgsc.bcm.edu;ucsc.edu	37	chr1	46827433	46827433	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cacattttgtttcttctcatCctgtcaggttggggagctgg	5	16	11	9	0	3	0	2	0	2	0	5	1	4	1	1	4	1	3	1	4	0	5	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	46827433	C	G	46827433	3	3	380	1	0	0	0	0	1	0	0	0	10680	855	30	4	1092	4	NSUN4	1	46827433	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	20299514	46827433	202423188	2	19161											
SCP2	6342	hgsc.bcm.edu;ucsc.edu	37	chr1	53453708	53453708	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttctataggacaaggTgcaacgctggttgatagagg	10	13	12	6	1	2	2	0	1	2	1	2	3	2	3	0	4	2	3	0	4	5	7	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	53453708	T	G	53453708	2	3	380	1	0	0	0	0	0	0	0	1	13936	1683	59	5		5	SCP2	1	53453708	Silent	SNP	T	TCGA-CJ-4885-01A-01D-1373-10	6626275	53453708	195796913	3	19162											
FGGY	55277	hgsc.bcm.edu	37	chr1	60139711	60139711	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtggccttgtcctgcgcagGcatgcctgtggtcctgtcgc	2	12	14	13	2	0	0	0	0	0	0	3	0	2	0	4	3	2	2	4	3	0	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		C	60139711	G	C	60139711	3	2	380	1	0	0	0	0	1	0	0	0	5871	1217	42	4	1544	4	FGGY	1	60139711	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	6686003	60139711	189110910	4	19163											
OLFM3	118427	hgsc.bcm.edu;ucsc.edu	37	chr1	102290660	102290660	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcgtagtcataggcacCaatttcctcctgaataccag	10	12	6	13	1	1	1	1	1	0	0	5	1	4	1	5	1	1	2	5	1	5	5	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	102290660	C	G	102290660	3	3	380	1	0	0	0	0	1	0	0	0	10854	594	21	4	874	4	OLFM3	1	102290660	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	42150949	102290660	146959961	5	19164											
EPB41L5	57669	hgsc.bcm.edu;ucsc.edu	37	chr2	120776734	120776734	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaaggaacgactccgagAagcacaacgcgccgccacac	15	1	11	14	5	0	2	0	0	0	2	1	6	1	3	3	1	3	1	3	1	4	0	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	120776734	A	G	120776734	3	3	380	1	0	0	0	0	1	0	0	0	5157	246	9	3	76	3	EPB41L5	2	120776734	Missense_Mutation	SNP	A	TCGA-CJ-4885-01A-01D-1373-10		120776734	122422639	6	19165											
ABCA12	26154	hgsc.bcm.edu;ucsc.edu	37	chr2	215831608	215831608	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtattttgacatgttaactcGcagaaggaaattattcaggc	13	13	9	6	1	1	2	1	1	0	1	2	3	1	3	0	2	1	3	0	2	5	6	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	215831608	G	A	215831608	4	1	380	1	0	0	0	0	0	1	0	0	30	1095	38	1	1999	1	ABCA12	2	215831608	Nonsense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	95054874	215831608	27367765	7	19166											
MST1R	4486	hgsc.bcm.edu;ucsc.edu	37	chr3	49927956	49927956	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctataggtctgcaggcTctccagcgccatccacttca	10	10	7	14	1	4	0	1	0	3	0	6	0	5	0	3	2	2	2	3	2	3	3	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		C	49927956	T	C	49927956	3	2	380	1	0	0	0	0	1	0	0	0	9891	1551	54	3	442	3	MST1R	3	49927956	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		49927956	148094474	8	19167											
MFSD10	10227	hgsc.bcm.edu;ucsc.edu	37	chr4	2935293	2935293	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agggcacagagccagccataCctccgaacaggacactgttg	12	5	11	13	1	0	1	0	0	0	1	1	3	1	2	4	2	4	2	4	2	2	2	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	2935293	C	A	2935293	5	1	380	1	0	0	0	0	0	0	1	0	9528	521	18	4	1142	4	MFSD10	4	2935293	Splice_Site	SNP	C	TCGA-CJ-4885-01A-01D-1373-10		2935293	188218983	9	19168											
NIPBL	25836	hgsc.bcm.edu;ucsc.edu	37	chr5	36955611	36955611	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccatctcctttacctgcTacaactacaaagagccttct	10	13	3	15	0	2	1	0	0	2	1	4	1	3	1	4	0	6	1	4	0	5	6	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	36955611	T	A	36955611	2	1	380	1	0	0	0	0	0	0	0	1	10428	1509	53	5		5	NIPBL	5	36955611	Silent	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		36955611	143959649	10	19169											
ARSI	340075	hgsc.bcm.edu;ucsc.edu	37	chr5	149677805	149677805	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggccacatagaggaagagggGacgctgagggctgtggctgg	9	5	20	7	1	0	3	0	1	0	2	0	5	0	5	1	7	0	3	1	7	2	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	149677805	G	A	149677805	3	1	380	1	0	0	0	0	1	0	0	0	994	1174	41	2	1031	2	ARSI	5	149677805	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	112722194	149677805	31237455	11	19170											
LARP1	23367	hgsc.bcm.edu;ucsc.edu	37	chr5	154185452	154185452	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgtagctccagcccctCagaagggacgcctacagttg	8	10	10	13	1	2	1	1	0	1	1	3	2	3	2	4	1	3	3	4	1	3	4	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	154185452	C	A	154185452	4	1	380	1	0	0	0	0	0	1	0	0	8628	838	29	4	2385	4	LARP1	5	154185452	Nonsense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	4507647	154185452	26729808	12	19171											
SLC22A16	85413	hgsc.bcm.edu;ucsc.edu	37	chr6	110757118	110757118	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggccaaatgctgccccgatgGcaaattttccaaccatagct	11	9	8	13	1	0	0	0	0	0	0	1	1	1	0	5	2	4	3	5	2	4	3	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	110757118	G	A	110757118	3	1	380	1	0	0	0	0	1	0	0	0	14449	1203	42	2	387	2	SLC22A16	6	110757118	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10		110757118	60357949	13	19172											
MLXIPL	51085	hgsc.bcm.edu	37	chr7	73008676	73008676	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcggagggtgtgcacacTtgccgtggacaccatcccgt	6	8	14	13	3	0	0	0	0	0	0	1	2	1	2	3	4	2	1	3	4	0	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	73008676	T	G	73008676	3	3	380	1	0	0	0	0	1	0	0	0	9637	1609	56	5	198	5	MLXIPL	7	73008676	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		73008676	86129987	14	19173											
MCPH1	79648	hgsc.bcm.edu;ucsc.edu	37	chr8	6296490	6296502	+	Frame_Shift_Del	DEL	TCTCTTATTTGAA	TCTCTTATTTGAA	-																															tcagatgatgatgtacctatTctcttatttgaatctaatgg																								novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	TCTCTTATTTGAA	TCTCTTATTTGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		-	6296502	TCTCTTATTTGAA	-	6296490	7	5	380	1	0	1	0	1	0	0	0	0	9398	1771	62	0	475	0	MCPH1	8	6296490	Frame_Shift_Del	DEL	TCTCTTATTTGAA	TCGA-CJ-4885-01A-01D-1373-10		6296490	140067532	15	19174											
ZBTB10	65986	hgsc.bcm.edu	37	chr8	81399912	81399913	+	Frame_Shift_Del	DEL	AG	AG	-																															ggaagcgtggaccttcccccAgtggggcatgatgagctttc																								novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		-	81399913	AG	-	81399912	7	5	380	1	0	1	0	1	0	0	0	0	17522	175	7	0	869	0	ZBTB10	8	81399912	Frame_Shift_Del	DEL	AG	TCGA-CJ-4885-01A-01D-1373-10	75103422	81399912	64964110	16	19175											
NTRK2	4915	hgsc.bcm.edu;ucsc.edu	37	chr9	87635222	87635222	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctggagcctgggggtcgtGttgtgggagattttcaccta	5	13	16	7	1	2	1	1	0	1	1	3	3	2	2	2	4	1	1	2	4	1	4	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	87635222	G	T	87635222	2	4	380	1	0	0	0	0	0	0	0	1	10707	1364	48	4		4	NTRK2	9	87635222	Silent	SNP	G	TCGA-CJ-4885-01A-01D-1373-10		87635222	53578209	17	19176											
ZNF462	58499	hgsc.bcm.edu	37	chr9	109688141	109688141	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagacagacagccaccccTcttccagcaacactgtgaag	13	6	8	14	0	1	3	0	2	1	2	2	4	2	3	4	0	3	1	4	0	2	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	109688141	T	A	109688141	3	1	380	1	0	0	0	0	1	0	0	0	17925	1551	54	5	1954	5	ZNF462	9	109688141	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10	22052919	109688141	31525290	18	19177											
CEP110	0	hgsc.bcm.edu	37	chr9	123935751	123935751	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgaatgagggacctttTgaagaaaaactgaacttttc	15	11	8	7	0	0	5	0	4	0	1	1	6	0	6	2	1	2	0	2	1	5	4	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	123935751	T	G	123935751	3	3	380	1	0	0	0	0	1	0	0	0	3245	1809	63	5	6802	5	CEP110	9	123935751	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10	14247610	123935751	17277680	19	19178											
DNAJC12	56521	hgsc.bcm.edu;ucsc.edu	37	chr10	69583118	69583118	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggtgacattccagagcTctgactttaaattctgccag	9	13	9	10	0	3	3	0	2	3	1	4	3	4	3	2	1	2	1	2	1	2	4	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	69583118	T	A	69583118	3	1	380	1	0	0	0	0	1	0	0	0	4631	1548	54	5	528	5	DNAJC12	10	69583118	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		69583118	65951629	20	19179											
OR8K5	219453	hgsc.bcm.edu;ucsc.edu	37	chr11	55926954	55926954	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttaagcatggggattacTaaagtgtaaaacacagaagc	16	8	12	5	0	0	1	0	0	0	1	0	2	0	2	0	3	4	3	0	3	7	4	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	55926954	T	A	55926954	3	1	380	1	0	0	0	0	1	0	0	0	11245	1519	53	5	86	5	OR8K5	11	55926954	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		55926954	79079562	21	19180											
OR10V1	390201	hgsc.bcm.edu	37	chr11	59481181	59481181	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgatctgaacaatgacTgcaattgtagcatttccacc	12	13	7	9	0	1	4	0	4	1	0	2	4	2	4	2	0	3	3	2	0	4	4	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	59481181	T	G	59481181	2	3	380	1	0	0	0	0	0	0	0	1	10920	1567	55	5		5	OR10V1	11	59481181	Silent	SNP	T	TCGA-CJ-4885-01A-01D-1373-10	3554227	59481181	75525335	22	19181											
ZBTB16	7704	hgsc.bcm.edu	37	chr11	114112972	114112972	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcacatggaggtccacGcgggcgtgcgcagctacatc	9	5	14	13	4	0	0	0	0	0	0	2	1	1	1	1	3	5	4	1	3	1	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	114112972	G	A	114112972	3	1	380	1	0	0	0	0	1	0	0	0	17525	1087	38	1	1551	1	ZBTB16	11	114112972	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	54631791	114112972	20893544	23	19182											
RAB5B	5869	hgsc.bcm.edu	37	chr12	56385916	56385918	+	In_Frame_Del	DEL	GGA	GGA	-																															agagtgaaccccagaatctgGgaggtgcagcaggccgaagc																								novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		-	56385918	GGA	-	56385916	7	5	380	1	0	1	0	1	0	0	0	0	12951	1233	43	0	586	0	RAB5B	12	56385916	In_Frame_Del	DEL	GGA	TCGA-CJ-4885-01A-01D-1373-10		56385916	77465979	24	19183											
FOXN4	121643	hgsc.bcm.edu;ucsc.edu	37	chr12	109724492	109724492	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcatgaagctgtagatCtcgctcacaggcaggctgcc	8	10	10	13	1	3	2	2	1	1	1	5	2	4	2	2	2	2	5	2	2	2	2	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	109724492	C	A	109724492	3	1	380	1	0	0	0	0	1	0	0	0	6022	912	32	4	915	4	FOXN4	12	109724492	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	53338576	109724492	24127403	25	19184											
FLT1	2321	hgsc.bcm.edu;ucsc.edu	37	chr13	28903788	28903788	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcccagcaggttaaccaCgttcagatggtggccaatgt	9	9	12	11	1	1	1	1	0	0	1	2	1	2	1	3	4	2	4	3	4	2	2	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	28903788	C	T	28903788	3	4	380	1	0	0	0	0	1	0	0	0	5941	536	19	1	1393	1	FLT1	13	28903788	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10		28903788	86266090	26	19185											
KLF5	688	hgsc.bcm.edu	37	chr13	73636044	73636044	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacacctcagcttcctccaGttcctataattccagagcat	10	12	5	14	0	1	2	1	1	0	1	5	2	5	2	5	0	2	3	5	0	2	5	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	73636044	G	A	73636044	3	1	380	1	0	0	0	0	1	0	0	0	8349	1029	36	2	313	2	KLF5	13	73636044	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	44732256	73636044	41533834	27	19186											
CATSPER2	117155	hgsc.bcm.edu	37	chr15	43940130	43940130	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaccaagtaactccctgaTagtgtgccgcggcacagctt	9	9	10	13	2	0	2	0	2	0	0	1	2	1	2	3	1	3	3	3	1	3	3	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	43940130	T	A	43940130	3	1	380	1	0	0	0	0	1	0	0	0	2688	1406	49	5	1549	5	CATSPER2	15	43940130	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		43940130	58591262	28	19187											
DPP8	54878	hgsc.bcm.edu;ucsc.edu	37	chr15	65804777	65804777	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctgactccaggaataccGctcaacataaaaaggctcca	16	6	7	12	1	1	1	1	1	0	0	3	2	3	2	3	2	3	3	3	2	7	2	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	65804777	G	A	65804777	3	1	380	1	0	0	0	0	1	0	0	0	4732	1086	38	1	2609	1	DPP8	15	65804777	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	21864647	65804777	36726615	29	19188											
ANPEP	290	hgsc.bcm.edu;ucsc.edu	37	chr15	90344775	90344775	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccgggaagcccatctgcaGggtccagcggttcatgatgt	8	8	14	11	2	2	1	1	1	1	0	3	3	3	2	3	3	3	2	3	3	1	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	90344775	G	T	90344775	3	4	380	1	0	0	0	0	1	0	0	0	710	991	35	4	1314	4	ANPEP	15	90344775	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10	24539998	90344775	12186617	30	19189											
ZZEF1	23140	hgsc.bcm.edu;ucsc.edu	37	chr17	4020303	4020303	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgatccagagactccttCaggacggaagaccgcatggt	11	7	12	11	2	1	3	1	1	0	2	3	6	3	5	3	3	1	2	3	3	1	1	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		A	4020303	C	A	4020303	2	1	380	1	0	0	0	0	0	0	0	1	18254	813	29	4		4	ZZEF1	17	4020303	Silent	SNP	C	TCGA-CJ-4885-01A-01D-1373-10		4020303	77174907	31	19190											
C17orf75	64149	hgsc.bcm.edu;ucsc.edu	37	chr17	30658932	30658932	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaacatgtaacatttaaaCaaagcataatgattcatttc	18	12	5	6	0	1	1	1	1	0	0	2	2	1	2	0	1	4	2	0	1	6	6	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	30658932	C	G	30658932	3	3	380	1	0	0	0	0	1	0	0	0	1880	477	17	4	153	4	C17orf75	17	30658932	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	26638629	30658932	50536278	32	19191											
NBR1	4077	hgsc.bcm.edu;ucsc.edu	37	chr17	41345367	41345367	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcttactgttcttttcagctCaagttcatgtggggaaacct	8	16	8	9	0	5	0	3	0	2	0	5	1	5	1	1	2	3	3	1	2	3	5	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	41345367	C	G	41345367	2	3	380	1	0	0	0	0	0	0	0	1	10200	813	29	4		4	NBR1	17	41345367	Silent	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	10686435	41345367	39849843	33	19192											
ASXL3	80816	hgsc.bcm.edu;ucsc.edu	37	chr18	31326427	31326427	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactttgccgacagcagcaaTgcagatgaattggaactgaa	15	8	10	8	1	0	3	0	2	0	1	0	5	0	4	1	1	6	3	1	1	5	2	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	31326427	T	G	31326427	3	3	380	1	0	0	0	0	1	0	0	0	1068	1461	51	5	6661	5	ASXL3	18	31326427	Missense_Mutation	SNP	T	TCGA-CJ-4885-01A-01D-1373-10		31326427	46750821	34	19193											
MUM1	84939	hgsc.bcm.edu;ucsc.edu	37	chr19	1364542	1364542	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtaggaatgctagtctgGcataaacataaaaaataccc	18	8	8	7	0	1	0	0	0	1	0	1	2	1	1	1	2	3	3	1	2	10	5	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		C	1364542	G	C	1364542	3	2	380	1	0	0	0	0	1	0	0	0	9985	1212	42	4	1273	4	MUM1	19	1364542	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10		1364542	57764441	35	19194											
PLCB4	5332	hgsc.bcm.edu	37	chr20	9459569	9459569	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtttctgatgttataggCgaaggagatgcagcagatgg	11	11	14	5	1	1	3	0	1	1	2	1	5	1	3	0	3	2	4	0	3	3	3	rs145676690	bycluster;byfrequency;by1000genomes	TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	9459569	C	T	9459569	3	4	380	1	0	0	0	0	1	0	0	0	12030	782	27	1	3680	1	PLCB4	20	9459569	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10		9459569	53565951	36	19195											
PITPNB	23760	hgsc.bcm.edu;ucsc.edu	37	chr22	28290544	28290544	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcattgagtaatacttactGctggttcaacttgacttcta	10	16	7	8	0	3	2	2	2	1	0	3	2	3	2	0	1	4	3	0	1	5	8	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	28290544	G	T	28290544	3	4	380	1	0	0	0	0	1	0	0	0	11948	1333	46	4	380	4	PITPNB	22	28290544	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01D-1373-10		28290544	23014022	37	19196											
FAM120C	54954	hgsc.bcm.edu;ucsc.edu	37	chrX	54142988	54142988	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagcttaccggagtacacAacacatgagcagcagatggg	13	6	13	9	1	0	2	0	1	0	1	0	3	0	3	1	3	6	5	1	3	4	3	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		T	54142988	A	T	54142988	3	4	380	1	0	0	0	0	1	0	0	0	5418	130	5	5	1016	5	FAM120C	23	54142988	Missense_Mutation	SNP	A	TCGA-CJ-4885-01A-01D-1373-10		54142988	101127572	38	19197											
TAF1	6872	hgsc.bcm.edu;ucsc.edu	37	chrX	70678095	70678095	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttttgtgccacagcctcCtgatttgtatgataccaaca	10	14	7	10	0	0	2	0	2	0	0	1	2	1	2	4	0	4	2	4	0	3	5	novel		TCGA-CJ-4885-01A-01D-1373-10	TCGA-CJ-4885-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	9a6d5856-8521-4ed9-929a-a5de385b2d24	f9c20338-b6c5-4d02-99fd-60c4afd07add		G	70678095	C	G	70678095	3	3	380	1	0	0	0	0	1	0	0	0	15512	681	24	4	5141	4	TAF1	23	70678095	Missense_Mutation	SNP	C	TCGA-CJ-4885-01A-01D-1373-10	16535107	70678095	84592465	39	19198											
VHL	7428	hgsc.bcm.edu	37	chr3	10183770	10183770	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatcttctgcaatcgcaGtccgcgcgtcgtgctgcccg	4	10	12	15	6	3	0	1	0	2	0	6	0	4	0	2	1	3	3	2	1	1	1	rs5030805		TCGA-CJ-4885-01A-01W-1369-10	TCGA-CJ-4885-11A-01W-1369-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	ffde052b-5af0-4230-8637-930f54069756	6b355345-b783-4720-be0f-715c24dd99b4		T	10183770	G	T	10183770	3	4	381	1	0	0	0	0	1	0	0	0	17161	1029	36	4	241	4	VHL	3	10183770	Missense_Mutation	SNP	G	TCGA-CJ-4885-01A-01W-1369-10		10183770	187838660	1	19199											
PLEKHA6	22874	hgsc.bcm.edu;ucsc.edu	37	chr1	204218082	204218082	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctggtgggtccccatcaagGcactttccaggctctcctga	6	10	10	15	0	2	1	1	1	1	0	5	1	4	1	5	4	0	2	5	4	1	1	rs148948923	alternate_allele	TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		T	204218082	G	T	204218082	3	4	382	1	0	0	0	0	1	0	0	0	12060	1203	42	4	1499	4	PLEKHA6	1	204218082	Missense_Mutation	SNP	G	TCGA-CJ-4886-01A-01D-1373-10		204218082	45032539	1	19200											
SRBD1	55133	hgsc.bcm.edu;ucsc.edu	37	chr2	45774690	45774690	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcaaaagtgtctttattttCtccgcctctcggaagccttg	8	14	8	11	2	3	0	0	0	3	0	5	1	3	1	3	1	2	1	3	1	4	5	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		G	45774690	C	G	45774690	3	3	382	1	0	0	0	0	1	0	0	0	15134	912	32	4	1286	4	SRBD1	2	45774690	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		45774690	197424683	2	19201											
FER1L5	90342	hgsc.bcm.edu;ucsc.edu	37	chr2	97335947	97335947	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtcctatcaagactccaCgataaaggatctctcccatg	13	9	6	13	1	2	1	1	0	1	1	6	3	5	2	3	1	0	0	3	1	5	2	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	97335947	C	A	97335947	3	1	382	1	0	0	0	0	1	0	0	0	5814	536	19	4	1505	4	FER1L5	2	97335947	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10	51561257	97335947	145863426	3	19202											
CXCR7	57007	hgsc.bcm.edu	37	chr2	237489859	237489859	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggagaagcacagcagcCggaagatcatcttctcctac	13	6	9	13	1	3	2	1	0	2	2	4	4	3	3	3	2	4	2	3	2	3	2	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		T	237489859	C	T	237489859	3	4	382	1	0	0	0	0	1	0	0	0	4096	643	23	1	753	1	CXCR7	2	237489859	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10	140153912	237489859	5709514	4	19203											
PIK3CA	5290	hgsc.bcm.edu;ucsc.edu	37	chr3	178952077	178952077	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcatgaaacaaatgaaTgatgcacatcatggtggctg	14	12	9	6	0	2	3	2	3	0	0	2	3	2	3	0	2	2	2	0	2	4	2	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	178952077	T	A	178952077	3	1	382	1	0	0	0	0	1	0	0	0	11913	1461	51	5	3210	5	PIK3CA	3	178952077	Missense_Mutation	SNP	T	TCGA-CJ-4886-01A-01D-1373-10		178952077	19070353	5	19204											
CCM2	83605	hgsc.bcm.edu	37	chr7	45113122	45113122	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaagaccatcagtgagagCgagctgagcgccagcgccac	12	3	13	13	3	1	3	1	2	0	2	1	5	1	3	3	0	5	2	3	0	1	0	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	45113122	C	A	45113122	3	1	382	1	0	0	0	0	1	0	0	0	2908	767	27	4	994	4	CCM2	7	45113122	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		45113122	114025541	6	19205											
TMEM71	137835	hgsc.bcm.edu	37	chr8	133740199	133740199	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcttccctgactcccagTcatcagtcagagaagaacag	12	9	7	13	0	5	3	4	1	1	2	7	4	7	3	2	0	1	0	2	0	2	1	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		G	133740199	T	G	133740199	3	3	382	1	0	0	0	0	1	0	0	0	16199	1667	58	5	386	5	TMEM71	8	133740199	Missense_Mutation	SNP	T	TCGA-CJ-4886-01A-01D-1373-10		133740199	12623823	7	19206											
SCRIB	23513	hgsc.bcm.edu	37	chr8	144877654	144877654	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctccaggctgttccggTggccgatgcctgccgcaaag	5	9	13	14	3	1	0	0	0	1	0	3	1	2	0	5	3	3	4	5	3	1	1	rs148494356	bycluster;byfrequency;by1000genomes	TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		G	144877654	T	G	144877654	3	3	382	1	0	0	0	0	1	0	0	0	13939	1696	59	5	1369	5	SCRIB	8	144877654	Missense_Mutation	SNP	T	TCGA-CJ-4886-01A-01D-1373-10	11137455	144877654	1486368	8	19207											
UBAP2	55833	hgsc.bcm.edu	37	chr9	33989092	33989092	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaattttcttttgcaaaattCtttttcttacaccctacagt	10	19	3	9	0	3	0	0	0	3	0	3	1	3	0	1	0	3	1	1	0	5	9	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		T	33989092	C	T	33989092	2	4	382	1	0	0	0	0	0	0	0	1	16836	912	32	2		2	UBAP2	9	33989092	Silent	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		33989092	107224339	9	19208											
ZNF462	58499	hgsc.bcm.edu	37	chr9	109687894	109687894	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagccacagccaccacaGctgcagccaccacatcaggt	12	3	8	18	0	1	0	1	0	0	0	1	0	1	0	5	1	6	3	5	1	0	0	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		C	109687894	G	C	109687894	3	2	382	1	0	0	0	0	1	0	0	0	17925	962	34	4	1707	4	ZNF462	9	109687894	Missense_Mutation	SNP	G	TCGA-CJ-4886-01A-01D-1373-10	75698802	109687894	31525537	10	19209											
CDK5RAP2	55755	hgsc.bcm.edu	37	chr9	123169477	123169477	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctccatcaggaggctGtgcaggtccctgaaaggatc	9	9	13	10	0	2	1	1	1	1	0	5	4	3	4	2	5	1	2	2	5	1	0	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		C	123169477	G	C	123169477	3	2	382	1	0	0	0	0	1	0	0	0	3146	1368	48	4	933	4	CDK5RAP2	9	123169477	Missense_Mutation	SNP	G	TCGA-CJ-4886-01A-01D-1373-10	13481583	123169477	18043954	11	19210											
ALDH18A1	5832	hgsc.bcm.edu;ucsc.edu	37	chr10	97371065	97371065	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgccatacttgtggatgtgGtcaatggcatcctgaacgtt	8	13	11	9	1	1	1	1	1	0	0	2	2	2	2	2	3	3	2	2	3	3	3	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	97371065	G	A	97371065	2	1	382	1	0	0	0	0	0	0	0	1	489	1252	44	2		2	ALDH18A1	10	97371065	Silent	SNP	G	TCGA-CJ-4886-01A-01D-1373-10		97371065	38163682	12	19211											
STYK1	55359	hgsc.bcm.edu;ucsc.edu	37	chr12	10783683	10783683	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacactcttgggcttagaagGgtccccagtgttcatattgg	9	12	11	9	0	2	1	1	0	1	1	3	1	3	1	2	3	1	2	2	3	4	5	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		C	10783683	G	C	10783683	3	2	382	1	0	0	0	0	1	0	0	0	15360	1232	43	4	884	4	STYK1	12	10783683	Missense_Mutation	SNP	G	TCGA-CJ-4886-01A-01D-1373-10		10783683	123068212	13	19212											
EPB42	2038	hgsc.bcm.edu	37	chr15	43498732	43498732	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaggtacagaggactggCagtctcgagactgggaggac	11	5	17	8	1	1	2	0	0	1	2	2	7	1	5	0	5	2	3	0	5	1	1	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	43498732	C	A	43498732	3	1	382	1	0	0	0	0	1	0	0	0	5158	710	25	4	677	4	EPB42	15	43498732	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		43498732	59032660	14	19213											
PPIP5K1	9677	hgsc.bcm.edu	37	chr15	43827396	43827396	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggctgatgtcagggacctCctgacatggctggctgacct	6	10	13	12	0	1	3	1	3	0	0	2	4	2	4	3	4	0	3	3	4	0	0	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		T	43827396	C	T	43827396	3	4	382	1	0	0	0	0	1	0	0	0	12334	864	30	2	527	2	PPIP5K1	15	43827396	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10	328664	43827396	58703996	15	19214											
SALL1	6299	hgsc.bcm.edu;ucsc.edu	37	chr16	51172834	51172834	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactggtgggggtgtccttaCtgtcctgaggagaaacatgc	8	10	15	8	0	0	2	0	1	0	1	2	4	2	2	2	4	3	0	2	4	2	1	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	51172834	C	A	51172834	3	1	382	1	0	0	0	0	1	0	0	0	13812	565	20	4	683	4	SALL1	16	51172834	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		51172834	39181919	16	19215											
SLC7A5	8140	hgsc.bcm.edu;ucsc.edu	37	chr16	87871508	87871508	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtggatcatggagaggatGgagggcaggtggccttcccg	7	7	20	7	1	1	1	1	0	0	1	2	5	2	4	2	8	0	1	2	8	0	1	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	87871508	G	A	87871508	2	1	382	1	0	0	0	0	0	0	0	1	14702	1335	47	2		2	SLC7A5	16	87871508	Silent	SNP	G	TCGA-CJ-4886-01A-01D-1373-10	36698674	87871508	2483245	17	19216											
CHD3	1107	hgsc.bcm.edu	37	chr17	7802423	7802423	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctgaactggctacgctTctcctgggcccagggcactg	6	8	14	13	1	1	1	0	1	1	0	2	1	1	1	2	4	2	4	2	4	2	2	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	7802423	T	A	7802423	3	1	382	1	0	0	0	0	1	0	0	0	3326	1783	62	5	2581	5	CHD3	17	7802423	Missense_Mutation	SNP	T	TCGA-CJ-4886-01A-01D-1373-10		7802423	73392787	18	19217											
MED13	9969	hgsc.bcm.edu	37	chr17	60088124	60088124	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgatattgaggtgggaaaGactgggacaaactgtctatc	12	10	12	7	0	1	3	0	2	1	1	2	5	1	5	1	3	1	0	1	3	4	3	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	60088124	G	A	60088124	3	1	382	1	0	0	0	0	1	0	0	0	9430	942	33	2	4858	2	MED13	17	60088124	Missense_Mutation	SNP	G	TCGA-CJ-4886-01A-01D-1373-10	52285701	60088124	21107086	19	19218											
ZMAT5	55954	hgsc.bcm.edu	37	chr22	30134342	30134342	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctacttggggctgagctcagCcgcttggctctcttctccag	4	12	11	14	1	3	1	1	1	2	0	5	1	3	1	2	3	3	4	2	3	1	4	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		A	30134342	C	A	30134342	2	1	382	1	0	0	0	0	0	0	0	1	17694	726	26	4		4	ZMAT5	22	30134342	Silent	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		30134342	21170224	20	19219											
RGAG1	57529	hgsc.bcm.edu;ucsc.edu	37	chrX	109696889	109696889	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccgtgtctggaaggatggCcacagcgccaattagagcct	10	8	12	11	2	1	1	0	0	1	1	1	3	1	3	4	3	3	0	4	3	4	2	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		G	109696889	C	G	109696889	3	3	382	1	0	0	0	0	1	0	0	0	13276	739	26	4	3046	4	RGAG1	23	109696889	Missense_Mutation	SNP	C	TCGA-CJ-4886-01A-01D-1373-10		109696889	45573671	21	19220											
ATP2B3	492	hgsc.bcm.edu	37	chrX	152811579	152811579	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggccatggagagtagccAgaccaaaggtaacgggcgcc	11	4	16	10	2	0	2	0	0	0	2	0	3	0	2	4	5	2	2	4	5	3	2	novel		TCGA-CJ-4886-01A-01D-1373-10	TCGA-CJ-4886-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2c5bf34f-adf9-4e4e-9711-70af1341d542	93f0b87e-fd9d-420f-85e8-5f6bc21b8b17		G	152811579	A	G	152811579	3	3	382	1	0	0	0	0	1	0	0	0	1141	188	7	3	972	3	ATP2B3	23	152811579	Missense_Mutation	SNP	A	TCGA-CJ-4886-01A-01D-1373-10	43114690	152811579	2458981	22	19221											
PRKCZ	5590	hgsc.bcm.edu;ucsc.edu	37	chr1	2077494	2077494	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccttcccaagagcctcCagtagacgacaagaacgagg	13	5	10	13	2	0	3	0	0	0	3	2	5	2	3	4	1	3	1	4	1	4	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	2077494	C	T	2077494	3	4	383	1	0	0	0	0	1	0	0	0	12519	594	21	2	607	2	PRKCZ	1	2077494	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10		2077494	247173127	1	19222											
MTOR	2475	hgsc.bcm.edu;ucsc.edu	37	chr1	11182158	11182158	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcccgagttggtcgataAagggatgacagcgtatctct	10	9	14	8	3	1	1	0	1	1	0	3	5	1	2	1	3	1	2	1	3	3	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	11182158	A	C	11182158	3	2	383	1	0	0	0	0	1	0	0	0	9954	11	1	5	1005	5	MTOR	1	11182158	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	9104664	11182158	238068463	2	19223											
PTGFRN	5738	hgsc.bcm.edu	37	chr1	117484595	117484595	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgccaacgacgccgtggAgctccacataaagaacgtcc	12	5	10	14	4	0	1	0	0	0	1	2	4	2	2	4	1	4	1	4	1	4	1	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	117484595	A	G	117484595	3	3	383	1	0	0	0	0	1	0	0	0	12752	304	11	3	314	3	PTGFRN	1	117484595	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	106302437	117484595	131766026	3	19224											
NPR1	4881	hgsc.bcm.edu;ucsc.edu	37	chr1	153658648	153658648	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaaacgcattgagctgaCacgaaaagtcctgtttgaac	13	9	9	10	3	0	3	0	3	0	0	1	4	1	3	2	0	3	4	2	0	5	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	153658648	C	A	153658648	3	1	383	1	0	0	0	0	1	0	0	0	10594	478	17	4	1768	4	NPR1	1	153658648	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	36174053	153658648	95591973	4	19225											
TNR	7143	hgsc.bcm.edu;ucsc.edu	37	chr1	175293500	175293500	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcgcttacctgactgtGcctggactccccgtacttcc	6	11	8	16	2	0	1	0	1	0	0	3	2	2	2	5	1	4	3	5	1	2	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	175293500	G	T	175293500	3	4	383	1	0	0	0	0	1	0	0	0	16337	1319	46	4	135	4	TNR	1	175293500	Missense_Mutation	SNP	G	TCGA-CJ-4887-01A-01D-1373-10	21634852	175293500	73957121	5	19226											
CACNA1E	777	hgsc.bcm.edu	37	chr1	181453105	181453105	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttcatcttcggagaagaTaacattgtcaggaaatatgc	13	12	9	7	1	3	2	2	0	1	2	4	4	3	3	0	2	2	1	0	2	4	5	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	181453105	T	C	181453105	2	2	383	1	0	0	0	0	0	0	0	1	2542	1403	49	3		3	CACNA1E	1	181453105	Silent	SNP	T	TCGA-CJ-4887-01A-01D-1373-10	6159605	181453105	67797516	6	19227											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52620674	52620674	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaaaaacatcctcatctcGgaagttttctgggcataact	13	11	7	10	1	3	0	1	0	2	0	5	2	4	1	1	2	2	2	1	2	4	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	52620674	G	A	52620674	4	1	383	1	0	0	0	0	0	1	0	0	11491	1124	39	1	1790	1	PBRM1	3	52620674	Nonsense_Mutation	SNP	G	TCGA-CJ-4887-01A-01D-1373-10		52620674	145401756	7	19228											
APPL1	26060	hgsc.bcm.edu	37	chr3	57280133	57280133	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagtaacagaagatgtgtaCacatccagaaagaaacaaca	21	5	8	7	0	0	4	0	0	0	4	1	5	1	4	1	0	4	2	1	0	7	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	57280133	C	A	57280133	4	1	383	1	0	0	0	0	0	1	0	0	817	489	17	4	534	4	APPL1	3	57280133	Nonsense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	4659459	57280133	140742297	8	19229											
DNAH12	201625	hgsc.bcm.edu;ucsc.edu	37	chr3	57405106	57405106	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttactttgcataggtaAtactcaaatccattagaaac	14	14	4	9	0	1	1	1	0	0	1	3	1	3	1	2	1	4	2	2	1	7	7	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	57405106	A	G	57405106	3	3	383	1	0	0	0	0	1	0	0	0	4600	101	4	3	3725	3	DNAH12	3	57405106	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	124973	57405106	140617324	9	19230											
ARHGAP31	57514	hgsc.bcm.edu	37	chr3	119133103	119133103	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaagtaggaggcccaggcaAtctgtctcctccactcccac	9	7	10	15	0	2	0	0	0	2	0	5	2	4	2	4	4	0	2	4	4	3	1	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	119133103	A	C	119133103	3	2	383	1	0	0	0	0	1	0	0	0	880	101	4	5	2373	5	ARHGAP31	3	119133103	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	61727997	119133103	78889327	10	19231											
PLOD2	5352	hgsc.bcm.edu;ucsc.edu	37	chr3	145804638	145804638	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctactatttttatagtttTgatttcatgcttagctttat	8	23	4	6	0	1	1	1	1	0	0	2	1	2	1	1	0	3	3	1	0	6	12	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	145804638	T	C	145804638	3	2	383	1	0	0	0	0	1	0	0	0	12102	1821	63	3	1257	3	PLOD2	3	145804638	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10	26671535	145804638	52217792	11	19232											
CC2D2A	57545	hgsc.bcm.edu;ucsc.edu	37	chr4	15538634	15538634	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaagagcacacggaggagTacgcacagaagatggaagaa	18	3	14	6	2	0	5	0	0	0	5	0	8	0	8	0	3	2	3	0	3	6	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	15538634	T	C	15538634	3	2	383	1	0	0	0	0	1	0	0	0	2728	1638	57	3	1956	3	CC2D2A	4	15538634	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10		15538634	175615642	12	19233											
CLRN2	645104	hgsc.bcm.edu;ucsc.edu	37	chr4	17524535	17524535	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcaggccttcatgtgatgaTtctgctgctcctcttcctgg	4	14	10	13	1	3	2	1	2	2	0	5	2	5	2	3	2	2	3	3	2	0	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	17524535	T	C	17524535	3	2	383	1	0	0	0	0	1	0	0	0	3558	1493	52	3	308	3	CLRN2	4	17524535	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10	1985901	17524535	173629741	13	19234											
LIMCH1	22998	hgsc.bcm.edu	37	chr4	41664844	41664844	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactccattgcagaaccacAgcattttacaacaactgtga	15	10	5	11	0	0	2	0	1	0	1	1	2	1	2	2	0	7	2	2	0	5	4	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	41664844	A	C	41664844	3	2	383	1	0	0	0	0	1	0	0	0	8797	188	7	5	2065	5	LIMCH1	4	41664844	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	24140309	41664844	149489432	14	19235											
THAP9	79725	hgsc.bcm.edu	37	chr4	83838547	83838547	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacatattgatggagacgaCatgaaatgtacatttcagca	16	11	8	6	1	1	3	1	2	0	1	1	5	1	3	0	1	3	2	0	1	4	5	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	83838547	C	G	83838547	3	3	383	1	0	0	0	0	1	0	0	0	15850	477	17	4	1200	4	THAP9	4	83838547	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	42173703	83838547	107315729	15	19236											
CDH18	1016	hgsc.bcm.edu	37	chr5	19544098	19544098	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatctgtcgtcttcaacatTgtagttgatgaagtatctag	12	15	8	6	1	4	2	1	2	3	0	5	2	4	2	0	0	1	3	0	0	6	6	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	19544098	T	G	19544098	3	3	383	1	0	0	0	0	1	0	0	0	3103	1812	63	5	1122	5	CDH18	5	19544098	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10		19544098	161371162	16	19237											
PARP8	79668	hgsc.bcm.edu;ucsc.edu	37	chr5	50093052	50093052	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacatgtgtttcaaaaTggccctatgcttagggtaag	11	11	11	8	0	1	0	1	0	0	0	1	1	1	0	2	2	2	3	2	2	5	4	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	50093052	T	G	50093052	3	3	383	1	0	0	0	0	1	0	0	0	11465	1461	51	5	1614	5	PARP8	5	50093052	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10	30548954	50093052	130822208	17	19238											
CHSY3	337876	hgsc.bcm.edu	37	chr5	129520699	129520699	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacaatgaaaagaaagtaCacattctcgttcctctcatc	14	10	6	11	1	2	2	1	1	2	1	6	2	3	2	1	1	1	3	1	1	5	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	129520699	C	A	129520699	3	1	383	1	0	0	0	0	1	0	0	0	3413	478	17	4	1874	4	CHSY3	5	129520699	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	79427647	129520699	51394561	18	19239											
DIAPH1	1729	hgsc.bcm.edu;ucsc.edu	37	chr5	140905613	140905613	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcactcctcacctgcattcAtgtctatgagttgctctctc	6	16	5	14	0	5	1	3	1	2	0	8	1	6	1	2	0	2	3	2	0	1	4	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	140905613	A	G	140905613	3	3	383	1	0	0	0	0	1	0	0	0	4518	217	8	3	264	3	DIAPH1	5	140905613	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	11384914	140905613	40009647	19	19240											
HK3	3101	hgsc.bcm.edu	37	chr5	176308431	176308431	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagagctgggcagccctctgGgacacagcctggcacacctc	8	5	12	16	0	1	1	0	0	1	1	2	2	1	2	3	3	3	3	3	3	0	0	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	176308431	G	T	176308431	2	4	383	1	0	0	0	0	0	0	0	1	7192	1219	43	4		4	HK3	5	176308431	Silent	SNP	G	TCGA-CJ-4887-01A-01D-1373-10	35402818	176308431	4606829	20	19241											
DST	667	hgsc.bcm.edu;ucsc.edu	37	chr6	56495059	56495059	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacctttaaagtacttattAgattctcaatattattcttg	13	19	3	6	0	2	1	1	0	2	1	3	1	2	1	1	0	2	1	1	0	9	11	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	56495059	A	T	56495059	3	4	383	1	0	0	0	0	1	0	0	0	4783	420	15	5	17773	5	DST	6	56495059	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10		56495059	114620008	21	19242											
MRPL18	29074	hgsc.bcm.edu;ucsc.edu	37	chr6	160218373	160218373	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttgtggagcatcagaaTggcaaggttgtggtttcggc	8	11	15	7	1	1	1	1	0	0	1	2	2	1	2	0	5	1	5	0	5	2	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	160218373	T	C	160218373	2	2	383	1	0	0	0	0	0	0	0	1	9783	1461	51	3		3	MRPL18	6	160218373	Silent	SNP	T	TCGA-CJ-4887-01A-01D-1373-10	103723314	160218373	10896694	22	19243											
ASL	435	hgsc.bcm.edu	37	chr7	65554635	65554635	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttgaagtgtcagacactAtgagtgccgtgctccaggtg	8	12	13	8	1	1	3	1	2	0	1	2	3	2	3	2	1	2	2	2	1	2	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	65554635	A	G	65554635	3	3	383	1	0	0	0	0	1	0	0	0	1044	449	16	3	1065	3	ASL	7	65554635	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10		65554635	93584028	23	19244											
ATXN7L1	222255	hgsc.bcm.edu	37	chr7	105254438	105254438	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgctactagaactcgagttCttacgcttttttccttctga	7	18	6	10	2	2	2	0	1	2	1	4	3	3	2	1	0	4	3	1	0	4	9	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	105254438	C	T	105254438	2	4	383	1	0	0	0	0	0	0	0	1	1216	912	32	2		2	ATXN7L1	7	105254438	Silent	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	39699803	105254438	53884225	24	19245											
C8orf86	389649	hgsc.bcm.edu	37	chr8	38386152	38386152	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcccttccccaggggtcTcattccctccctgacctgag	5	10	9	17	0	1	2	1	2	1	0	6	3	5	2	6	2	0	0	6	2	0	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	38386152	T	C	38386152	3	2	383	1	0	0	0	0	1	0	0	0	2442	1559	54	3	679	3	C8orf86	8	38386152	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10		38386152	107977870	25	19246											
PLAG1	5324	hgsc.bcm.edu	37	chr8	57079842	57079842	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttcaaaagtttgcaaacAtaccttacaggtgaggtcac	13	11	8	9	0	2	1	2	1	0	0	2	1	2	1	1	2	4	3	1	2	5	4	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	57079842	A	T	57079842	3	4	383	1	0	0	0	0	1	0	0	0	12018	217	8	5	1043	5	PLAG1	8	57079842	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	18693690	57079842	89284180	26	19247											
PPFIA1	8500	hgsc.bcm.edu;ucsc.edu	37	chr11	70200406	70200406	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcacttctctcacccctcaGttgccaccttccagagaaga	9	10	6	16	0	3	2	2	0	1	2	5	3	4	2	5	0	2	2	5	0	1	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	70200406	G	T	70200406	5	4	383	1	0	0	0	0	0	0	1	0	12309	1043	36	4	2225	4	PPFIA1	11	70200406	Splice_Site	SNP	G	TCGA-CJ-4887-01A-01D-1373-10		70200406	64806110	27	19248											
TULP3	7289	hgsc.bcm.edu	37	chr12	3029963	3029963	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggcaaaggaaaaagcGccttgagccatttatggtgc	14	7	13	7	1	0	2	0	1	0	1	0	4	0	3	2	3	3	1	2	3	5	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	3029963	G	C	3029963	3	2	383	1	0	0	0	0	1	0	0	0	16774	1087	38	4	138	4	TULP3	12	3029963	Missense_Mutation	SNP	G	TCGA-CJ-4887-01A-01D-1373-10		3029963	130821932	28	19249											
POLR3B	55703	hgsc.bcm.edu	37	chr12	106895189	106895189	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaatgcatgcccgggccCggggcccacgagccgtcctt	8	6	12	15	4	0	0	0	0	0	0	1	1	1	0	5	3	3	1	5	3	2	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	106895189	C	G	106895189	3	3	383	1	0	0	0	0	1	0	0	0	12229	643	23	4	3175	4	POLR3B	12	106895189	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	103865226	106895189	26956706	29	19250											
C13orf18	0	hgsc.bcm.edu;ucsc.edu	37	chr13	46918949	46918949	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaaattcacaaataaaGccctttccttgacacagctg	14	10	6	11	0	1	1	1	1	0	0	2	1	2	1	2	1	2	2	2	1	5	4	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	46918949	G	A	46918949	2	1	383	1	0	0	0	0	0	0	0	1	1720	958	34	2		2	C13orf18	13	46918949	Silent	SNP	G	TCGA-CJ-4887-01A-01D-1373-10		46918949	68250929	30	19251											
RPAP1	26015	hgsc.bcm.edu;ucsc.edu	37	chr15	41810335	41810335	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagagctgaaggagggccaGgttgtcttcaggaggcactg	9	8	17	7	0	2	2	1	1	1	1	2	4	2	4	1	5	1	4	1	5	2	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	41810335	G	C	41810335	3	2	383	1	0	0	0	0	1	0	0	0	13543	991	35	4	352	4	RPAP1	15	41810335	Missense_Mutation	SNP	G	TCGA-CJ-4887-01A-01D-1373-10		41810335	60721057	31	19252											
TAF15	8148	hgsc.bcm.edu	37	chr17	34171885	34171885	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatggaggagacagaagcCgggggggctatggaggagac	11	4	20	6	1	0	3	0	0	0	3	0	7	0	5	1	7	1	2	1	7	3	2	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	34171885	C	A	34171885	2	1	383	1	0	0	0	0	0	0	0	1	15517	643	23	4		4	TAF15	17	34171885	Silent	SNP	C	TCGA-CJ-4887-01A-01D-1373-10		34171885	47023325	32	19253											
CDH19	28513	hgsc.bcm.edu;ucsc.edu	37	chr18	64172226	64172226	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggtctggagggaatcaaaAggaggggcacacggatcagt	13	6	16	6	1	3	0	2	0	1	0	3	4	3	4	0	7	0	1	0	7	4	1	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	64172226	A	G	64172226	2	3	383	1	0	0	0	0	0	0	0	1	3104	59	3	3		3	CDH19	18	64172226	Silent	SNP	A	TCGA-CJ-4887-01A-01D-1373-10		64172226	13905022	33	19254											
C3	718	hgsc.bcm.edu;ucsc.edu	37	chr19	6702221	6702221	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattcatgagcttcgtagagAttctggatggagaagaggtt	11	13	13	4	1	2	4	1	1	1	3	3	7	2	5	0	3	1	3	0	3	3	6	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	6702221	A	T	6702221	3	4	383	1	0	0	0	0	1	0	0	0	2204	333	12	5	2726	5	C3	19	6702221	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10		6702221	52426762	34	19255											
PRODH2	58510	hgsc.bcm.edu	37	chr19	36303154	36303154	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accgcagcatagcaccgaggTtcccctcataccacgcctca	10	6	7	18	3	2	0	2	0	0	0	3	1	3	0	6	1	3	4	6	1	2	3	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		C	36303154	T	C	36303154	3	2	383	1	0	0	0	0	1	0	0	0	12551	1725	60	3	1022	3	PRODH2	19	36303154	Missense_Mutation	SNP	T	TCGA-CJ-4887-01A-01D-1373-10	29600933	36303154	22825829	35	19256											
ITPKC	80271	hgsc.bcm.edu	37	chr19	41223765	41223765	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatattgaaggtccctggaCagagccatatactgatggct	11	10	12	8	0	0	3	0	2	0	1	1	5	1	5	2	4	2	1	2	4	4	4	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	41223765	C	A	41223765	3	1	383	1	0	0	0	0	1	0	0	0	7919	478	17	4	727	4	ITPKC	19	41223765	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10	4920611	41223765	17905218	36	19257											
ETFB	2109	hgsc.bcm.edu	37	chr19	51850290	51850290	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacttgtccccctccagcGtcacctgggaggcgaatgtg	7	9	11	14	2	2	0	2	0	0	0	4	2	4	1	4	2	2	0	4	2	2	1	rs1130426	bycluster;byfrequency;by1000genomes	TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	51850290	G	A	51850290	3	1	383	1	0	0	0	0	1	0	0	0	5270	1145	40	1	314	1	ETFB	19	51850290	Missense_Mutation	SNP	G	TCGA-CJ-4887-01A-01D-1373-10	10626525	51850290	7278693	37	19258											
COMMD7	149951	hgsc.bcm.edu;ucsc.edu	37	chr20	31291229	31291229	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgactcgctccatctcgtgCaggaagctgtagaactgagg	9	9	12	11	2	1	3	0	2	1	1	4	4	2	4	1	2	3	4	1	2	3	1	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		A	31291229	C	A	31291229	2	1	383	1	0	0	0	0	0	0	0	1	3721	697	25	4		4	COMMD7	20	31291229	Silent	SNP	C	TCGA-CJ-4887-01A-01D-1373-10		31291229	31734291	38	19259											
KIAA2022	340533	hgsc.bcm.edu;ucsc.edu	37	chrX	73962408	73962408	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttctttatgattactagCgtgcctctgatcattacata	10	17	5	9	1	4	2	1	2	3	0	4	2	4	2	1	0	4	0	1	0	5	7	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		T	73962408	C	T	73962408	3	4	383	1	0	0	0	0	1	0	0	0	8269	768	27	1	2574	1	KIAA2022	23	73962408	Missense_Mutation	SNP	C	TCGA-CJ-4887-01A-01D-1373-10		73962408	81308152	39	19260											
CXorf48	54967	hgsc.bcm.edu	37	chrX	134292203	134292203	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggctcagtggaatattcaActtctaacaagtcaccctta	12	12	6	11	0	4	0	3	0	1	0	4	1	4	1	1	2	2	1	1	2	6	5	novel		TCGA-CJ-4887-01A-01D-1373-10	TCGA-CJ-4887-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	612c63e4-c8ab-41a5-ba46-d35277407b12	0a088b77-d040-40f2-8471-74d732939d26		G	134292203	A	G	134292203	3	3	383	1	0	0	0	0	1	0	0	0	4111	43	2	3	352	3	CXorf48	23	134292203	Missense_Mutation	SNP	A	TCGA-CJ-4887-01A-01D-1373-10	60329795	134292203	20978357	40	19261											
C1orf86	199990	hgsc.bcm.edu	37	chr1	2121164	2121164	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcaccacgtcacgtctTctgtgctttcggccaagcac	6	10	9	16	4	4	0	2	0	2	0	5	0	4	0	2	1	2	3	2	1	1	2	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		G	2121164	T	G	2121164	3	3	384	1	0	0	0	0	1	0	0	0	2063	1783	62	5	259	5	C1orf86	1	2121164	Missense_Mutation	SNP	T	TCGA-CJ-4888-01A-01D-1373-10		2121164	247129457	1	19262											
SULT1C2	6819	hgsc.bcm.edu	37	chr2	108910186	108910186	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtggaggggaccctcctGcagcctgcaactgtggacaa	9	6	15	11	0	0	0	0	0	0	0	1	4	1	3	3	5	4	2	3	5	2	0	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		T	108910186	G	T	108910186	2	4	384	1	0	0	0	0	0	0	0	1	15376	1306	46	4		4	SULT1C2	2	108910186	Silent	SNP	G	TCGA-CJ-4888-01A-01D-1373-10		108910186	134289187	2	19263											
OSGEPL1	64172	hgsc.bcm.edu	37	chr2	190618708	190618708	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatagcccgatgtgttctTttcacaagatgacatgccat	12	12	8	9	1	2	3	1	1	1	2	2	4	2	3	2	0	2	1	2	0	3	4	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		G	190618708	T	G	190618708	3	3	384	1	0	0	0	0	1	0	0	0	11288	1838	64	5	363	5	OSGEPL1	2	190618708	Missense_Mutation	SNP	T	TCGA-CJ-4888-01A-01D-1373-10	81708522	190618708	52580665	3	19264											
ADAM23	8745	hgsc.bcm.edu	37	chr2	207424812	207424812	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaataccggcagcgcattaAgcagcatgctgatgctgtgc	12	8	11	10	2	0	1	0	1	0	0	0	1	0	1	1	1	7	6	1	1	4	2	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		T	207424812	A	T	207424812	3	4	384	1	0	0	0	0	1	0	0	0	245	72	3	5	1181	5	ADAM23	2	207424812	Missense_Mutation	SNP	A	TCGA-CJ-4888-01A-01D-1373-10	16806104	207424812	35774561	4	19265											
PBRM1	55193	ucsc.edu	37	chr3	52613194	52613194	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggttcaccattggacatttCcacagggacatcttcttttt	8	16	7	10	0	3	0	1	0	2	0	4	2	4	2	2	3	0	1	2	3	0	6	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		A	52613194	C	A	52613194	4	1	384	1	0	0	0	0	0	1	0	0	11491	864	30	4	1531	4	PBRM1	3	52613194	Nonsense_Mutation	SNP	C	TCGA-CJ-4888-01A-01D-1373-10		52613194	145409236	5	19266											
TACC3	10460	hgsc.bcm.edu	37	chr4	1738986	1738986	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcatgcacggtgcaaatgaGactccctcaggacgtccgcg	10	6	12	13	4	1	1	1	1	0	1	3	3	3	2	2	2	3	3	2	2	1	0	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		A	1738986	G	A	1738986	2	1	384	1	0	0	0	0	0	0	0	1	15502	933	33	2		2	TACC3	4	1738986	Silent	SNP	G	TCGA-CJ-4888-01A-01D-1373-10		1738986	189415290	6	19267											
GPR78	27201	hgsc.bcm.edu	37	chr4	8582799	8582799	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactggtgctgctttgttgCgcctacagcgctgagctccg	4	11	13	13	3	0	1	0	1	0	0	1	1	1	1	2	1	6	6	2	1	1	3	rs138084089	byfrequency	TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		T	8582799	C	T	8582799	2	4	384	1	0	0	0	0	0	0	0	1	6710	776	27	1		1	GPR78	4	8582799	Silent	SNP	C	TCGA-CJ-4888-01A-01D-1373-10	6843813	8582799	182571477	7	19268											
TRYX3	0	hgsc.bcm.edu	37	chr7	141952104	141952104	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattttggcatagatgccAacatcggctctcaaaacaca	16	9	6	10	1	1	1	1	0	1	1	3	1	1	1	1	2	3	2	1	2	6	3	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		T	141952104	A	T	141952104	2	4	384	1	0	0	0	0	0	0	0	1	16603	117	5	5		5	TRYX3	7	141952104	Silent	SNP	A	TCGA-CJ-4888-01A-01D-1373-10		141952104	17186559	8	19269											
NOTCH1	4851	hgsc.bcm.edu	37	chr9	139391324	139391324	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattcagggcccctccgctGctggagcccaggacggtgct	7	7	13	14	2	1	0	1	0	0	0	2	2	2	2	4	4	3	3	4	4	1	1	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		C	139391324	G	C	139391324	3	2	384	1	0	0	0	0	1	0	0	0	10547	1310	46	4	804	4	NOTCH1	9	139391324	Missense_Mutation	SNP	G	TCGA-CJ-4888-01A-01D-1373-10		139391324	1822107	9	19270											
SLC22A18	5002	hgsc.bcm.edu	37	chr11	2946407	2946407	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaaacctatgccccagAggaaggacaaagtccggtga	14	4	14	9	1	0	2	0	1	0	1	1	6	1	6	4	5	2	0	4	5	4	1	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		G	2946407	A	G	2946407	3	3	384	1	0	0	0	0	1	0	0	0	14451	295	11	3	1293	3	SLC22A18	11	2946407	Missense_Mutation	SNP	A	TCGA-CJ-4888-01A-01D-1373-10		2946407	132060109	10	19271											
F2	2147	hgsc.bcm.edu	37	chr11	46751085	46751085	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggactccacccggatccGcatcactgacaacatgttct	11	8	7	15	2	2	1	1	1	1	0	4	3	4	3	3	2	1	2	3	2	2	1	rs143064939	bycluster;byfrequency;by1000genomes	TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		T	46751085	G	T	46751085	3	4	384	1	0	0	0	0	1	0	0	0	5342	1087	38	4	1674	4	F2	11	46751085	Missense_Mutation	SNP	G	TCGA-CJ-4888-01A-01D-1373-10	43804678	46751085	88255431	11	19272											
TMEM132B	114795	hgsc.bcm.edu	37	chr12	126137053	126137053	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctggatgaccgagtcAccatcgcggagctgggagtg	7	9	15	10	3	1	1	1	1	0	0	3	5	2	4	3	3	1	1	3	3	0	1	rs61940805		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		G	126137053	A	G	126137053	3	3	384	1	0	0	0	0	1	0	0	0	16045	159	6	3	1996	3	TMEM132B	12	126137053	Missense_Mutation	SNP	A	TCGA-CJ-4888-01A-01D-1373-10		126137053	7714842	12	19273											
APLP1	333	hgsc.bcm.edu	37	chr19	36370070	36370070	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtcctctccatgctgcTcctgcgcaggaagaagccct	7	9	9	16	2	1	1	0	0	1	1	5	2	3	2	4	1	4	3	4	1	2	0	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		G	36370070	T	G	36370070	3	3	384	1	0	0	0	0	1	0	0	0	778	1551	54	5	1870	5	APLP1	19	36370070	Missense_Mutation	SNP	T	TCGA-CJ-4888-01A-01D-1373-10		36370070	22758913	13	19274											
ODZ1	0	hgsc.bcm.edu	37	chrX	123554562	123554562	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttggttcctgctgatGgtacgaattcgaacatttcc	7	14	11	9	2	0	1	0	1	0	0	3	3	2	1	2	3	3	4	2	3	3	5	novel		TCGA-CJ-4888-01A-01D-1373-10	TCGA-CJ-4888-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2775365d-ec36-4bf9-91bc-1f2d37115097	375eb186-4071-4975-aaf7-8543b63f4829		A	123554562	G	A	123554562	2	1	384	1	0	0	0	0	0	0	0	1	10834	1335	47	2		2	ODZ1	23	123554562	Silent	SNP	G	TCGA-CJ-4888-01A-01D-1373-10		123554562	31715998	14	19275											
PEAR1	375033	hgsc.bcm.edu	37	chr1	156878751	156878751	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctgacacctacggtgTcaactgttctgcacgctgct	6	12	8	15	2	2	1	1	1	1	0	4	1	4	1	3	1	4	4	3	1	2	2	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		A	156878751	T	A	156878751	3	1	385	1	0	0	0	0	1	0	0	0	11712	1667	58	5	1372	5	PEAR1	1	156878751	Missense_Mutation	SNP	T	TCGA-CJ-4889-01A-01D-1373-10		156878751	92371870	1	19276											
C2orf78	388960	hgsc.bcm.edu	37	chr2	74042659	74042659	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttgaaaatgggattgagTctagcagtgatttggcagac	12	13	12	4	0	1	4	0	3	1	1	1	5	1	5	0	2	1	2	0	2	4	5	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		C	74042659	T	C	74042659	3	2	385	1	0	0	0	0	1	0	0	0	2195	1667	58	3	1319	3	C2orf78	2	74042659	Missense_Mutation	SNP	T	TCGA-CJ-4889-01A-01D-1373-10		74042659	169156714	2	19277											
ZC3H15	55854	hgsc.bcm.edu	37	chr2	187367291	187367291	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagcacggtgaggcggaaAagaaaaaaccaaaaactcaa	22	2	10	7	2	1	3	1	1	0	2	1	4	1	4	1	3	3	1	1	3	9	0	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		T	187367291	A	T	187367291	4	4	385	1	0	0	0	0	0	1	0	0	17566	15	1	5	529	5	ZC3H15	2	187367291	Nonsense_Mutation	SNP	A	TCGA-CJ-4889-01A-01D-1373-10	113324632	187367291	55832082	3	19278											
ADH1A	124	hgsc.bcm.edu	37	chr4	100205662	100205662	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggctactgcattttcaTccaccactgtgtactgtgag	7	16	8	10	0	1	1	1	1	0	0	2	1	2	1	2	1	3	3	2	1	2	6	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		A	100205662	T	A	100205662	3	1	385	1	0	0	0	0	1	0	0	0	307	1435	50	5	686	5	ADH1A	4	100205662	Missense_Mutation	SNP	T	TCGA-CJ-4889-01A-01D-1373-10		100205662	90948614	4	19279											
TMEM161B	153396	hgsc.bcm.edu	37	chr5	87516401	87516401	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcaaaagacaaaacaagtAggcaccagactaagctgata	19	6	8	8	0	0	3	0	1	0	2	0	3	0	3	1	1	3	4	1	1	8	4	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		G	87516401	A	G	87516401	3	3	385	1	0	0	0	0	1	0	0	0	16076	420	15	3	1070	3	TMEM161B	5	87516401	Missense_Mutation	SNP	A	TCGA-CJ-4889-01A-01D-1373-10		87516401	93398859	5	19280											
TAF6	6878	hgsc.bcm.edu	37	chr7	99705041	99705041	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggagaaggatgggaggtgGggcctcctttgccctcccct	5	9	15	12	0	0	1	0	0	0	1	2	4	2	3	5	6	1	0	5	6	1	1	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		A	99705041	G	A	99705041	3	1	385	1	0	0	0	0	1	0	0	0	15529	1232	43	2	175	2	TAF6	7	99705041	Missense_Mutation	SNP	G	TCGA-CJ-4889-01A-01D-1373-10		99705041	59433622	6	19281											
TCEB1	6921	ucsc.edu	37	chr8	74858968	74858968	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttagtgtagcgaaccttgTacgtaaaatacatgcatact	13	13	8	7	2	0	0	0	0	0	0	0	1	0	0	1	0	6	5	1	0	8	7	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	T	T	T	G	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		G	74858968	T	G	74858968	3	3	385	1	0	0	0	0	1	0	0	0	15678	1638	57	5	106	5	TCEB1	8	74858968	Missense_Mutation	SNP	T	TCGA-CJ-4889-01A-01D-1373-10		74858968	71505054	7	19282											
ZC3H3	23144	hgsc.bcm.edu	37	chr8	144522389	144522389	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggaagcgggaggggatgaGgaggaggaggaggaggagga	14	1	25	1	1	0	1	0	1	0	0	0	11	0	11	0	11	1	0	0	11	2	0	rs137878905		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		A	144522389	G	A	144522389	2	1	385	1	0	0	0	0	0	0	0	1	17568	987	35	2		2	ZC3H3	8	144522389	Silent	SNP	G	TCGA-CJ-4889-01A-01D-1373-10	69663421	144522389	1841633	8	19283											
TNC	3371	hgsc.bcm.edu;ucsc.edu	37	chr9	117848578	117848578	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccattcacacagcggcCgtgctggtgacagtcattag	9	9	11	12	2	2	1	2	1	0	0	2	1	2	1	2	2	3	1	2	2	1	2	rs149285218	by1000genomes	TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		T	117848578	C	T	117848578	3	4	385	1	0	0	0	0	1	0	0	0	16269	652	23	1	5277	1	TNC	9	117848578	Missense_Mutation	SNP	C	TCGA-CJ-4889-01A-01D-1373-10		117848578	23364853	9	19284											
SLC25A25	114789	hgsc.bcm.edu	37	chr9	130863618	130863618	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cgcgcaggagatcatgcagtCcctgcgggacttgggagtca	8	7	15	11	3	2	1	2	0	0	1	3	4	3	3	1	3	2	2	1	3	0	1	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		G	130863618	C	G	130863618	3	3	385	1	0	0	0	0	1	0	0	0	14490	855	30	4	815	4	SLC25A25	9	130863618	Missense_Mutation	SNP	C	TCGA-CJ-4889-01A-01D-1373-10	13015040	130863618	10349813	10	19285											
ABL1	25	hgsc.bcm.edu	37	chr9	133738356	133738356	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaagctgggcgggggccaGtacggggaggtgtacgaggg	8	4	21	8	3	0	0	0	0	0	0	0	2	0	1	1	7	3	3	1	7	3	2	rs121913458	alternate_allele	TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		A	133738356	G	A	133738356	2	1	385	1	0	0	0	0	0	0	0	1	92	1020	36	2		2	ABL1	9	133738356	Silent	SNP	G	TCGA-CJ-4889-01A-01D-1373-10	2874738	133738356	7475075	11	19286											
RRP12	23223	hgsc.bcm.edu	37	chr10	99132829	99132830	+	Frame_Shift_Ins	INS	-	-	GC																															tcagtgatggtgaggtaagtINStctgatggtttccagcacag																								novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		GC	99132830	-	GC	99132829	7	5	385	1	0	1	1	0	0	0	0	0	13688	1725	60	0	1806	0	RRP12	10	99132829	Frame_Shift_Ins	INS	-	TCGA-CJ-4889-01A-01D-1373-10		99132829	36401918	12	19287											
KIAA1377	57562	hgsc.bcm.edu	37	chr11	101833645	101833645	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagaaattccaaagaccAttaaaaaactgaggtggttt	16	10	9	6	0	0	3	0	1	0	2	1	3	1	3	2	2	2	2	2	2	5	3	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		C	101833645	A	C	101833645	3	2	385	1	0	0	0	0	1	0	0	0	8227	217	8	5	1901	5	KIAA1377	11	101833645	Missense_Mutation	SNP	A	TCGA-CJ-4889-01A-01D-1373-10		101833645	33172871	13	19288											
FAM18A	0	hgsc.bcm.edu	37	chr16	10867214	10867214	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggtgctaaaaaaaaacaCaatccatatcatggggcaga	19	7	8	7	0	1	1	1	0	0	1	2	1	2	1	1	3	2	2	1	3	8	3	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		A	10867214	C	A	10867214	3	1	385	1	0	0	0	0	1	0	0	0	5518	478	17	4	244	4	FAM18A	16	10867214	Missense_Mutation	SNP	C	TCGA-CJ-4889-01A-01D-1373-10		10867214	79487539	14	19289											
MYH11	4629	hgsc.bcm.edu	37	chr16	15808800	15808800	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtgcgttcacctcgcggcCcatggcctcgttgctctccg	3	10	12	16	5	2	0	1	0	1	0	5	1	2	0	4	2	2	3	4	2	0	2	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		G	15808800	C	G	15808800	3	3	385	1	0	0	0	0	1	0	0	0	10031	623	22	4	209	4	MYH11	16	15808800	Missense_Mutation	SNP	C	TCGA-CJ-4889-01A-01D-1373-10	4941586	15808800	74545953	15	19290											
OR3A1	4994	hgsc.bcm.edu	37	chr17	3195803	3195803	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaagacaactggctgcagcCctggcgcctccagcaagccc	10	4	10	17	1	0	1	0	0	0	1	1	1	1	1	4	2	5	3	4	2	3	0	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		G	3195803	C	G	3195803	3	3	385	1	0	0	0	0	1	0	0	0	11037	623	22	4	877	4	OR3A1	17	3195803	Missense_Mutation	SNP	C	TCGA-CJ-4889-01A-01D-1373-10		3195803	77999407	16	19291											
KDM6B	23135	hgsc.bcm.edu	37	chr17	7753240	7753240	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgccccgggaaaaacTcaacccccctacacccagca	13	3	7	18	1	1	0	1	0	0	0	1	2	1	1	6	1	6	2	6	1	5	1	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		C	7753240	T	C	7753240	3	2	385	1	0	0	0	0	1	0	0	0	8138	1551	54	3	3576	3	KDM6B	17	7753240	Missense_Mutation	SNP	T	TCGA-CJ-4889-01A-01D-1373-10	4557437	7753240	73441970	17	19292											
CEBPA	1050	hgsc.bcm.edu	37	chr19	33792412	33792412	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctccacgttgcgctgcttGgccttgtcgcggctcttgcg	1	13	13	14	5	2	0	0	0	2	0	4	0	2	0	2	2	3	4	2	2	0	4	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		T	33792412	G	T	33792412	2	4	385	1	0	0	0	0	0	0	0	1	3199	1335	47	4		4	CEBPA	19	33792412	Silent	SNP	G	TCGA-CJ-4889-01A-01D-1373-10		33792412	25336571	18	19293											
TRAPPC10	7109	hgsc.bcm.edu	37	chr21	45523389	45523390	+	Frame_Shift_Ins	INS	-	-	T																															ccccagccaagatgaccacgINStcctggaagtcagtgtaaca																								novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		T	45523390	-	T	45523389	7	5	385	1	0	1	1	0	0	0	0	0	16456	1145	40	0	3847	0	TRAPPC10	21	45523389	Frame_Shift_Ins	INS	-	TCGA-CJ-4889-01A-01D-1373-10		45523389	2606506	19	19294											
RGAG1	57529	hgsc.bcm.edu;ucsc.edu	37	chrX	109696417	109696417	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccacagcctctggagggAtgtccatgccactgatgaga	10	8	12	11	0	1	2	0	2	1	1	3	6	3	4	4	2	2	0	4	2	0	0	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		G	109696417	A	G	109696417	3	3	385	1	0	0	0	0	1	0	0	0	13276	333	12	3	2574	3	RGAG1	23	109696417	Missense_Mutation	SNP	A	TCGA-CJ-4889-01A-01D-1373-10		109696417	45574143	20	19295											
AVPR2	554	hgsc.bcm.edu	37	chrX	153170604	153170604	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccagccccaccatgcTcatggcgtccaccacttccg	6	7	7	21	2	1	0	1	0	0	0	3	0	3	0	8	1	3	1	8	1	0	1	novel		TCGA-CJ-4889-01A-01D-1373-10	TCGA-CJ-4889-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	8d73b9b9-5bc3-4c68-9805-6f5895530ce9	038d964b-b66a-4e6f-8017-9d632d0cdb60		C	153170604	T	C	153170604	3	2	385	1	0	0	0	0	1	0	0	0	1233	1551	54	3	7	3	AVPR2	23	153170604	Missense_Mutation	SNP	T	TCGA-CJ-4889-01A-01D-1373-10	43474187	153170604	2099956	21	19296											
NBPF7	343505	hgsc.bcm.edu	37	chr1	120384017	120384017	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaccttacctgggctgAgcttgtggacaaggtgccgt	6	10	14	11	1	0	1	0	1	0	0	0	2	0	2	4	4	3	2	4	4	2	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		T	120384017	A	T	120384017	3	4	386	1	0	0	0	0	1	0	0	0	10198	304	11	5	743	5	NBPF7	1	120384017	Missense_Mutation	SNP	A	TCGA-CJ-4890-01A-01D-1373-10		120384017	128866604	1	19297											
C1orf101	257044	hgsc.bcm.edu;ucsc.edu	37	chr1	244780931	244780931	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtaaccatatattttggcCcatgggccattctggaatgt	9	14	10	8	0	1	0	0	0	1	0	1	1	1	1	3	4	1	1	3	4	4	6	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		T	244780931	C	T	244780931	3	4	386	1	0	0	0	0	1	0	0	0	1976	623	22	2	2669	2	C1orf101	1	244780931	Missense_Mutation	SNP	C	TCGA-CJ-4890-01A-01D-1373-10	124396914	244780931	4469690	2	19298											
ATG4B	23192	hgsc.bcm.edu	37	chr2	242610738	242610738	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaacagctgtctctgctTggaggtgccctgcccatgtt	6	12	10	13	0	1	0	0	0	1	0	2	1	1	1	2	2	5	3	2	2	1	3	rs11538896	bycluster;by1000genomes	TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		C	242610738	T	C	242610738	2	2	386	1	0	0	0	0	0	0	0	1	1097	1799	63	3		3	ATG4B	2	242610738	Silent	SNP	T	TCGA-CJ-4890-01A-01D-1373-10		242610738	588635	3	19299											
ISY1	57461	hgsc.bcm.edu;ucsc.edu	37	chr3	128864701	128864701	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattcaggtcacgaattcgaAattcacctaaaccagctaga	15	9	6	11	2	3	1	3	0	0	1	4	3	3	1	2	1	2	1	2	1	5	5	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		T	128864701	A	T	128864701	3	4	386	1	0	0	0	0	1	0	0	0	7866	14	1	5	678	5	ISY1	3	128864701	Missense_Mutation	SNP	A	TCGA-CJ-4890-01A-01D-1373-10		128864701	69157729	4	19300											
BMP3	651	hgsc.bcm.edu	37	chr4	81967319	81967319	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatgccaatgatgccgcCatttctgagccagaaagtgt	11	11	10	9	1	1	3	0	2	1	1	1	3	1	3	4	0	3	1	4	0	4	3	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		T	81967319	C	T	81967319	2	4	386	1	0	0	0	0	0	0	0	1	1461	581	21	2		2	BMP3	4	81967319	Silent	SNP	C	TCGA-CJ-4890-01A-01D-1373-10		81967319	109186957	5	19301											
HHIP	64399	hgsc.bcm.edu	37	chr4	145580833	145580833	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tattcaggaggttgtgagtgGgctgcggcagcccgttggtg	5	11	18	7	2	1	1	1	1	0	0	1	2	1	2	1	5	2	4	1	5	1	4	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		T	145580833	G	T	145580833	3	4	386	1	0	0	0	0	1	0	0	0	7092	1232	43	4	688	4	HHIP	4	145580833	Missense_Mutation	SNP	G	TCGA-CJ-4890-01A-01D-1373-10	63613514	145580833	45573443	6	19302											
THOC3	84321	hgsc.bcm.edu	37	chr5	175388335	175388335	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggctgaccaaagcatcTgcacttcctgtggcaaagta	12	8	10	11	0	1	2	0	1	1	1	2	2	2	2	2	2	2	5	2	2	3	2	rs11552883	bycluster;byfrequency	TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		C	175388335	T	C	175388335	2	2	386	1	0	0	0	0	0	0	0	1	15865	1567	55	3		3	THOC3	5	175388335	Silent	SNP	T	TCGA-CJ-4890-01A-01D-1373-10		175388335	5526925	7	19303											
COL9A1	1297	hgsc.bcm.edu	37	chr6	70942325	70942325	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagcaccagggggcccctTaatgcccggaaggccacgaa	12	3	13	13	2	0	1	0	0	0	1	0	3	0	2	5	4	2	1	5	4	4	1	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		A	70942325	T	A	70942325	4	1	386	1	0	0	0	0	0	1	0	0	3707	1763	61	5	313	5	COL9A1	6	70942325	Nonsense_Mutation	SNP	T	TCGA-CJ-4890-01A-01D-1373-10		70942325	100172742	8	19304											
COL5A1	1289	hgsc.bcm.edu	37	chr9	137660274	137660274	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtcccttggggaaaccaGgccttccaggaatgcccggt	8	7	14	12	1	0	0	0	0	0	0	2	2	2	2	5	6	2	0	5	6	2	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		A	137660274	G	A	137660274	3	1	386	1	0	0	0	0	1	0	0	0	3696	1000	35	2	2349	2	COL5A1	9	137660274	Missense_Mutation	SNP	G	TCGA-CJ-4890-01A-01D-1373-10		137660274	3553157	9	19305											
QSER1	79832	hgsc.bcm.edu	37	chr11	32956639	32956639	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagtcaaaacaggatttAttgcttctttcttagatttt	12	17	6	6	0	3	2	1	0	2	2	3	3	3	3	0	1	2	1	0	1	5	8	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		C	32956639	A	C	32956639	3	2	386	1	0	0	0	0	1	0	0	0	12884	449	16	5	3454	5	QSER1	11	32956639	Missense_Mutation	SNP	A	TCGA-CJ-4890-01A-01D-1373-10		32956639	102049877	10	19306											
DSCAML1	57453	hgsc.bcm.edu	37	chr11	117387317	117387317	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctcaaacaccacctggcGgtggttgtctggcagcagca	9	9	11	12	1	2	0	1	0	2	0	3	0	2	0	2	4	3	4	2	4	1	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		T	117387317	G	T	117387317	3	4	386	1	0	0	0	0	1	0	0	0	4769	1116	39	4	4617	4	DSCAML1	11	117387317	Missense_Mutation	SNP	G	TCGA-CJ-4890-01A-01D-1373-10	84430678	117387317	17619199	11	19307											
FOXN3	1112	hgsc.bcm.edu	37	chr14	89878773	89878773	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagtccactggagacactAattcctgagctttctggctt	8	13	8	12	0	2	2	1	1	1	1	4	3	4	2	2	2	1	2	2	2	1	4	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		C	89878773	A	C	89878773	3	2	386	1	0	0	0	0	1	0	0	0	6021	358	13	5	1448	5	FOXN3	14	89878773	Missense_Mutation	SNP	A	TCGA-CJ-4890-01A-01D-1373-10		89878773	17470767	12	19308											
CLMN	79789	hgsc.bcm.edu;ucsc.edu	37	chr14	95657993	95657993	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacatcatatccggctgctGgacaagctgtgtcagggagt	10	10	12	9	1	2	0	2	0	0	0	3	2	3	2	1	3	3	3	1	3	3	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		A	95657993	G	A	95657993	4	1	386	1	0	0	0	0	0	1	0	0	3542	1357	47	2	95	2	CLMN	14	95657993	Nonsense_Mutation	SNP	G	TCGA-CJ-4890-01A-01D-1373-10	5779220	95657993	11691547	13	19309											
ZNF521	25925	hgsc.bcm.edu	37	chr18	22806401	22806401	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgagaacatcggatgtgtTcctgaagagtgttgaggtcg	10	11	14	6	2	0	4	0	3	0	2	3	6	1	5	1	2	1	2	1	2	2	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		C	22806401	T	C	22806401	3	2	386	1	0	0	0	0	1	0	0	0	17964	1783	62	3	2474	3	ZNF521	18	22806401	Missense_Mutation	SNP	T	TCGA-CJ-4890-01A-01D-1373-10		22806401	55270847	14	19310											
TCF3	6929	hgsc.bcm.edu	37	chr19	1650219	1650219	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctccttgtctgtgcccAcaggcgccatcctctgcggc	4	10	11	16	2	2	1	0	1	2	0	4	1	4	1	4	2	3	1	4	2	0	1	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		G	1650219	A	G	1650219	3	3	386	1	0	0	0	0	1	0	0	0	15693	159	6	3	2238	3	TCF3	19	1650219	Missense_Mutation	SNP	A	TCGA-CJ-4890-01A-01D-1373-10		1650219	57478764	15	19311											
MARCH2	51257	hgsc.bcm.edu	37	chr19	8486884	8486884	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctccaccgtcatccgtGccttggacacaccgaggtga	7	9	9	16	3	2	1	1	1	1	0	5	3	4	2	6	2	1	0	6	2	0	1	rs1133893	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		A	8486884	G	A	8486884	3	1	386	1	0	0	0	0	1	0	0	0	9301	1319	46	2	162	2	MARCH2	19	8486884	Missense_Mutation	SNP	G	TCGA-CJ-4890-01A-01D-1373-10	6836665	8486884	50642099	16	19312											
NKG7	4818	hgsc.bcm.edu	37	chr19	51875304	51875304	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgctcgctggtgtacaccGccatggccaccaccatggag	8	6	11	16	3	0	0	0	0	0	0	1	1	0	1	6	3	1	3	6	3	1	1	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		A	51875304	G	A	51875304	3	1	386	1	0	0	0	0	1	0	0	0	10443	1087	38	1	176	1	NKG7	19	51875304	Missense_Mutation	SNP	G	TCGA-CJ-4890-01A-01D-1373-10	43388420	51875304	7253679	17	19313											
EDN3	1908	hgsc.bcm.edu	37	chr20	57896170	57896170	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagctctcacatcggcCacacttgcgctgcgcttgtg	5	11	10	15	3	2	0	1	0	2	0	4	0	2	0	1	1	4	4	1	1	0	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		G	57896170	C	G	57896170	3	3	386	1	0	0	0	0	1	0	0	0	4918	594	21	4	474	4	EDN3	20	57896170	Missense_Mutation	SNP	C	TCGA-CJ-4890-01A-01D-1373-10		57896170	5129350	18	19314											
EGFL6	25975	hgsc.bcm.edu	37	chrX	13618146	13618146	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccaacacagatgtgtgaaTacacacggaagctacaagtg	15	7	10	9	1	0	2	0	1	0	1	0	3	0	3	1	1	5	1	1	1	6	2	novel		TCGA-CJ-4890-01A-01D-1373-10	TCGA-CJ-4890-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	2e4289bf-7d28-419b-9f31-9633a203bfd4	090c84e4-4034-4a08-81ea-d6650fe28373		C	13618146	T	C	13618146	2	2	386	1	0	0	0	0	0	0	0	1	4963	1403	49	3		3	EGFL6	23	13618146	Silent	SNP	T	TCGA-CJ-4890-01A-01D-1373-10		13618146	141652414	19	19315											
EIF2C1	26523	hgsc.bcm.edu	37	chr1	36358772	36358772	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcaagtggctagccatTgtgagctggcgaatgctgca	9	10	12	10	1	1	1	1	1	0	0	2	2	2	1	2	2	4	4	2	2	3	2	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		C	36358772	T	C	36358772	2	2	387	1	0	0	0	0	0	0	0	1	5005	1800	63	3		3	EIF2C1	1	36358772	Silent	SNP	T	TCGA-CJ-4891-01A-01D-1373-10		36358772	212891849	1	19316											
C1orf173	127254	hgsc.bcm.edu	37	chr1	75037489	75037489	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcttctgtctccagagtgCactctttgtcctcttcctcc	3	16	6	16	1	4	1	0	0	4	1	9	1	7	1	4	0	1	2	4	0	0	3	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		A	75037489	C	A	75037489	3	1	387	1	0	0	0	0	1	0	0	0	2014	710	25	4	691	4	C1orf173	1	75037489	Missense_Mutation	SNP	C	TCGA-CJ-4891-01A-01D-1373-10	38678717	75037489	174213132	2	19317											
TNR	7143	hgsc.bcm.edu	37	chr1	175334171	175334171	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatggagcccacaatgggCtcagaggtcactgtgccatg	9	8	14	10	0	2	2	2	1	0	1	2	3	2	3	2	3	2	1	2	3	1	0	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		T	175334171	C	T	175334171	2	4	387	1	0	0	0	0	0	0	0	1	16337	796	28	2		2	TNR	1	175334171	Silent	SNP	C	TCGA-CJ-4891-01A-01D-1373-10	100296682	175334171	73916450	3	19318											
SETD2	29072	hgsc.bcm.edu;ucsc.edu	37	chr3	47142969	47142969	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatctctggaactgatagTcaaacgttaactctgagcct	12	12	7	10	1	3	2	1	2	2	0	4	3	3	3	1	1	4	1	1	1	5	3	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		A	47142969	T	A	47142969	3	1	387	1	0	0	0	0	1	0	0	0	14133	1667	58	5	2756	5	SETD2	3	47142969	Missense_Mutation	SNP	T	TCGA-CJ-4891-01A-01D-1373-10		47142969	150879461	4	19319											
MFSD10	10227	hgsc.bcm.edu	37	chr4	2934201	2934201	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctccgagcatagggccCagggtgaagcccagtgagaa	11	4	16	10	1	0	2	0	2	0	1	1	5	1	2	3	3	2	2	3	3	3	1	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		G	2934201	C	G	2934201	2	3	387	1	0	0	0	0	0	0	0	1	9528	581	21	4		4	MFSD10	4	2934201	Silent	SNP	C	TCGA-CJ-4891-01A-01D-1373-10		2934201	188220075	5	19320											
SLC26A8	116369	hgsc.bcm.edu	37	chr6	35922962	35922962	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actaacccccgtgaatccacGtagtgtaccatggagaaatc	13	8	8	12	2	0	2	0	1	0	1	2	3	1	2	4	1	2	2	4	1	5	3	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		A	35922962	G	A	35922962	2	1	387	1	0	0	0	0	0	0	0	1	14525	1140	40	1		1	SLC26A8	6	35922962	Silent	SNP	G	TCGA-CJ-4891-01A-01D-1373-10		35922962	135192105	6	19321											
PIK3CG	5294	hgsc.bcm.edu	37	chr7	106526717	106526717	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttctggaaagaagacaagcCcacacttccagaaatttcag	15	8	7	11	0	2	3	1	0	1	3	3	4	3	4	2	1	1	0	2	1	4	3	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		A	106526717	C	A	106526717	3	1	387	1	0	0	0	0	1	0	0	0	11916	623	22	4	3044	4	PIK3CG	7	106526717	Missense_Mutation	SNP	C	TCGA-CJ-4891-01A-01D-1373-10		106526717	52611946	7	19322											
TET1	80312	hgsc.bcm.edu	37	chr10	70450816	70450816	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccactgtacgatgccttcgGgaagactcagtggtgccaat	9	9	11	12	2	1	1	1	0	0	1	2	3	1	2	3	2	3	1	3	2	3	2	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		T	70450816	G	T	70450816	4	4	387	1	0	0	0	0	0	1	0	0	15768	1233	43	4	5698	4	TET1	10	70450816	Nonsense_Mutation	SNP	G	TCGA-CJ-4891-01A-01D-1373-10		70450816	65083931	8	19323											
TAF1C	9013	hgsc.bcm.edu	37	chr16	84213194	84213194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggtgggtgaaggtgggtgCtgtccacacaggaggagcca	8	6	19	8	1	0	1	0	1	0	0	1	3	1	3	2	6	2	1	2	6	1	0	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		T	84213194	C	T	84213194	3	4	387	1	0	0	0	0	1	0	0	0	15520	797	28	2	650	2	TAF1C	16	84213194	Missense_Mutation	SNP	C	TCGA-CJ-4891-01A-01D-1373-10		84213194	6141559	9	19324											
MFSD6L	162387	hgsc.bcm.edu	37	chr17	8701341	8701341	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggcgaggagaatgaggtgGgggtcaccccccacaatgga	11	4	17	9	1	1	2	1	1	0	1	1	6	1	3	3	6	0	0	3	6	2	0	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		A	8701341	G	A	8701341	2	1	387	1	0	0	0	0	0	0	0	1	9536	1219	43	2		2	MFSD6L	17	8701341	Silent	SNP	G	TCGA-CJ-4891-01A-01D-1373-10		8701341	72493869	10	19325											
PTPRT	11122	hgsc.bcm.edu	37	chr20	40714466	40714466	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccatagcacccggaggTcttctcaggccagtactgca	8	7	12	14	1	2	0	1	0	2	0	3	1	2	1	3	4	3	3	3	4	2	3	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		C	40714466	T	C	40714466	3	2	387	1	0	0	0	0	1	0	0	0	12814	1667	58	3	467	3	PTPRT	20	40714466	Missense_Mutation	SNP	T	TCGA-CJ-4891-01A-01D-1373-10		40714466	22311054	11	19326											
CHEK2	11200	hgsc.bcm.edu;ucsc.edu	37	chr22	29091808	29091808	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggtgggggttccacataaGgttctcatgagagaggtctc	9	11	14	7	0	2	2	1	1	2	1	5	3	3	2	1	5	0	2	1	5	2	4	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		A	29091808	G	A	29091808	2	1	387	1	0	0	0	0	0	0	0	1	3335	987	35	2		2	CHEK2	22	29091808	Silent	SNP	G	TCGA-CJ-4891-01A-01D-1373-10		29091808	22212758	12	19327											
MTMR8	55613	hgsc.bcm.edu	37	chrX	63548772	63548772	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacacagaatgtgttttcTcatagactctgttagaaaag	13	12	8	8	0	2	3	1	0	2	3	3	3	2	3	1	0	0	2	1	0	5	4	novel		TCGA-CJ-4891-01A-01D-1373-10	TCGA-CJ-4891-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	4176dd2a-f3b8-44bd-866f-cd5835080b2b	84b5374a-2e42-43e0-bed9-5d9a000398e2		C	63548772	T	C	63548772	3	2	387	1	0	0	0	0	1	0	0	0	9949	1551	54	3	765	3	MTMR8	23	63548772	Missense_Mutation	SNP	T	TCGA-CJ-4891-01A-01D-1373-10		63548772	91721788	13	19328											
ARID1A	8289	hgsc.bcm.edu	37	chr1	27099056	27099056	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagttccatggcagaaggaGgagacttaaagccaccaact	14	6	11	10	0	0	2	0	0	0	2	1	4	1	3	3	3	2	3	3	3	4	2	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	27099056	G	A	27099056	3	1	388	1	0	0	0	0	1	0	0	0	913	1001	35	2	3522	2	ARID1A	1	27099056	Missense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		27099056	222151565	1	19329											
SSX2IP	117178	hgsc.bcm.edu;ucsc.edu	37	chr1	85124037	85124037	+	Missense_Mutation	SNP	T	T	A																															ttctacatgacttttcaaaaTtctccactgttttctgatgc																								novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	85124037	T	A	85124037	3	1	388	1	0	0	0	0	1	0	0	0	15205	1493	52	5	826	5	SSX2IP	1	85124037	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	58024981	85124037	164126584	2	19330	263	2									
SSX2IP	117178	hgsc.bcm.edu	37	chr1	85124045	85124045	+	Missense_Mutation	SNP	T	T	A																															gacttttcaaaattctccacTgttttctgatgctgtttgta																								novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	85124045	T	A	85124045	3	1	388	1	0	0	0	0	1	0	0	0	15205	1580	55	5	834	5	SSX2IP	1	85124045	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	8	85124045	164126576	3	19331	263	2									
PSRC1	84722	hgsc.bcm.edu	37	chr1	109824319	109824319	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctatcattactccggagTcgaggcgtcaggctgcttgg	6	12	12	11	3	2	0	2	0	0	0	5	2	4	1	2	4	2	2	2	4	2	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	109824319	T	G	109824319	2	3	388	1	0	0	0	0	0	0	0	1	12721	1654	58	5		5	PSRC1	1	109824319	Silent	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	24700274	109824319	139426302	4	19332											
C1orf103	0	hgsc.bcm.edu;ucsc.edu	37	chr1	111494207	111494207	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattggccatggaagcaagCtgggtattggaaagtgattt	12	11	14	4	0	0	2	0	1	0	1	0	4	0	4	1	4	2	3	1	4	4	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	111494207	C	G	111494207	3	3	388	1	0	0	0	0	1	0	0	0	1977	796	28	4	1022	4	C1orf103	1	111494207	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	1669888	111494207	137756414	5	19333											
C1orf101	257044	hgsc.bcm.edu;ucsc.edu	37	chr1	244735876	244735876	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacaaaagacaaatgcccAtacatggcatttcataacaa	20	7	4	10	0	1	1	1	0	0	1	1	1	1	1	1	1	4	1	1	1	7	3	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	244735876	A	G	244735876	2	3	388	1	0	0	0	0	0	0	0	1	1976	204	8	3		3	C1orf101	1	244735876	Silent	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	133241669	244735876	4514745	6	19334											
PUM2	23369	hgsc.bcm.edu	37	chr2	20490431	20490431	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggcatgccagtagcaaGaccctgaccaaaagccaatg	14	5	9	13	0	0	2	0	1	0	1	0	2	0	2	5	1	3	3	5	1	5	1	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	20490431	G	T	20490431	3	4	388	1	0	0	0	0	1	0	0	0	12828	942	33	4	1969	4	PUM2	2	20490431	Missense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		20490431	222708942	7	19335											
SLC4A1AP	22950	hgsc.bcm.edu	37	chr2	27887264	27887264	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccacgcagtgctgcagcaCagggcgtccggccctgacgg	7	5	14	15	4	0	1	0	1	0	0	1	1	1	1	3	3	4	4	3	3	1	1	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	27887264	C	T	27887264	2	4	388	1	0	0	0	0	0	0	0	1	14655	477	17	2		2	SLC4A1AP	2	27887264	Silent	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	7396833	27887264	215312109	8	19336											
IGFBP2	3485	hgsc.bcm.edu	37	chr2	217525490	217525491	+	Frame_Shift_Ins	INS	-	-	G																															ctggaggagcccaagaagctINSgcgaccaccccctgccaggg																								novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	217525491	-	G	217525490	7	5	388	1	0	1	1	0	0	0	0	0	7579	1580	55	0	659	0	IGFBP2	2	217525490	Frame_Shift_Ins	INS	-	TCGA-CJ-4892-01A-01D-1373-10	189638226	217525490	25673883	9	19337											
DOCK3	1795	hgsc.bcm.edu;ucsc.edu	37	chr3	51395479	51395479	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataagaagctaattgatcagTtccagatgatgcgggccagt	13	10	11	7	1	1	4	1	2	0	2	2	4	2	4	2	1	2	2	2	1	3	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		C	51395479	T	C	51395479	3	2	388	1	0	0	0	0	1	0	0	0	4688	1725	60	3	5037	3	DOCK3	3	51395479	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10		51395479	146626951	10	19338											
GOLGB1	2804	hgsc.bcm.edu;ucsc.edu	37	chr3	121413851	121413851	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgctgtaggtagttattaAtttcatcatgtgagctgaaa	11	16	9	5	0	3	2	2	2	1	0	3	2	3	2	0	1	2	5	0	1	5	5	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	121413851	A	G	121413851	3	3	388	1	0	0	0	0	1	0	0	0	6565	101	4	3	4315	3	GOLGB1	3	121413851	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	70018372	121413851	76608579	11	19339											
STAG1	10274	hgsc.bcm.edu;ucsc.edu	37	chr3	136076625	136076625	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtacttcaagaaaagccAgattaggaggtggatactct	14	11	10	6	0	2	2	1	0	1	2	2	4	2	4	1	3	3	1	1	3	7	5	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	136076625	A	T	136076625	3	4	388	1	0	0	0	0	1	0	0	0	15243	188	7	5	802	5	STAG1	3	136076625	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	14662774	136076625	61945805	12	19340											
DHX36	170506	hgsc.bcm.edu	37	chr3	154033897	154033897	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcttcgcttgaacagaaTtcagtaactgtacaatttgt	12	15	6	8	1	2	2	1	1	1	1	3	2	2	2	0	0	3	3	0	0	5	7	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	154033897	T	A	154033897	3	1	388	1	0	0	0	0	1	0	0	0	4509	1493	52	5	2823	5	DHX36	3	154033897	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	17957272	154033897	43988533	13	19341											
ANKRD56	0	hgsc.bcm.edu	37	chr4	77817972	77817972	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctctgaattaggctccgtgGagccgggttccaagggcagc	7	8	15	11	2	1	1	0	1	1	0	3	2	3	2	3	4	2	4	3	4	3	2	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	77817972	G	T	77817972	3	4	388	1	0	0	0	0	1	0	0	0	682	1174	41	4	1354	4	ANKRD56	4	77817972	Missense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		77817972	113336304	14	19342											
RASGEF1B	153020	hgsc.bcm.edu;ucsc.edu	37	chr4	82369285	82369285	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gttgcagacagtaatgatatCcctttgtatagactgtggct	10	14	10	7	0	0	3	0	1	0	2	1	3	1	3	1	1	1	5	1	1	4	6	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	82369285	C	G	82369285	3	3	388	1	0	0	0	0	1	0	0	0	13072	855	30	4	869	4	RASGEF1B	4	82369285	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	4551313	82369285	108784991	15	19343											
ZFR	51663	hgsc.bcm.edu	37	chr5	32400303	32400303	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgttgactgcagcttatTaccacctagaaaagtatcaa	13	12	6	10	0	1	2	1	1	0	1	2	2	2	2	3	0	3	4	3	0	7	5	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	32400303	T	A	32400303	3	1	388	1	0	0	0	0	1	0	0	0	17658	1754	61	5	1750	5	ZFR	5	32400303	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10		32400303	148514957	16	19344											
ZNF608	57507	hgsc.bcm.edu	37	chr5	124080148	124080148	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacaggagcctgcccccgCggtggcggcagaggtgctgg	5	4	17	15	3	0	1	0	0	0	1	0	2	0	2	4	6	3	2	4	6	0	0	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	124080148	C	G	124080148	3	3	388	1	0	0	0	0	1	0	0	0	18033	768	27	4	4039	4	ZNF608	5	124080148	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	91679845	124080148	56835112	17	19345											
RAD50	10111	hgsc.bcm.edu;ucsc.edu	37	chr5	131940610	131940610	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaacttcagatatccacTaatttgcaacgtcgtcagca	14	10	7	10	2	2	2	2	0	0	2	4	3	3	2	1	0	4	2	1	0	4	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		C	131940610	T	C	131940610	2	2	388	1	0	0	0	0	0	0	0	1	12986	1509	53	3		3	RAD50	5	131940610	Silent	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	7860462	131940610	48974650	18	19346											
ADAMTS2	9509	hgsc.bcm.edu	37	chr5	178634637	178634637	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgcagcatgcctgcgtgcCctccgcctcgagctgttggc	3	9	12	17	4	0	0	0	0	0	0	3	1	2	0	5	1	5	4	5	1	0	1	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	178634637	C	G	178634637	3	3	388	1	0	0	0	0	1	0	0	0	265	622	22	4	3018	4	ADAMTS2	5	178634637	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	46694027	178634637	2280623	19	19347											
HLA-DRB5	3127	hgsc.bcm.edu	37	chr6	32489822	32489822	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccagctccgtcaccgccCggtactcccccacgtcgctg	4	6	9	22	5	1	0	1	0	0	0	4	0	3	0	7	1	2	3	7	1	1	1	rs115417906	bycluster;byfrequency;by1000genomes	TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	32489822	C	T	32489822	3	4	388	1	0	0	0	0	1	0	0	0	7209	652	23	1	590	1	HLA-DRB5	6	32489822	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10		32489822	138625245	20	19348											
MUC17	140453	hgsc.bcm.edu;ucsc.edu	37	chr7	100696682	100696682	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggacagtggaccagctcctgGgaccttccaaaacattggct	10	8	11	12	0	0	0	0	0	0	0	2	3	2	3	4	4	2	2	4	4	2	2	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	100696682	G	T	100696682	3	4	388	1	0	0	0	0	1	0	0	0	9974	1232	43	4	13370	4	MUC17	7	100696682	Missense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		100696682	58441981	21	19349											
MMP16	4325	hgsc.bcm.edu	37	chr8	89081733	89081734	+	Frame_Shift_Ins	INS	-	-	T																															caaccatcttggattatagaINStagagtgtctcccttcactg																								novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	89081734	-	T	89081733	7	5	388	1	0	1	1	0	0	0	0	0	9655	333	12	0	751	0	MMP16	8	89081733	Frame_Shift_Ins	INS	-	TCGA-CJ-4892-01A-01D-1373-10		89081733	57282289	22	19350											
FAM91A1	157769	hgsc.bcm.edu;ucsc.edu	37	chr8	124820573	124820573	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagagtcatttgaaatggtCattgaggaagcaactataga	16	10	10	5	0	2	4	2	2	0	2	2	5	2	5	0	2	2	1	0	2	5	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	124820573	C	T	124820573	2	4	388	1	0	0	0	0	0	0	0	1	5651	813	29	2		2	FAM91A1	8	124820573	Silent	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	35738840	124820573	21543449	23	19351											
FLJ43860	0	hgsc.bcm.edu	37	chr8	142500315	142500315	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcgccaccacccgccacGagtgcctgcagatggccacc	7	4	11	19	3	0	1	0	0	0	1	0	2	0	1	7	1	3	2	7	1	0	0	rs180740682	by1000genomes	TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	142500315	G	A	142500315	3	1	388	1	0	0	0	0	1	0	0	0	5930	1059	37	1	3461	1	FLJ43860	8	142500315	Missense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10	17679742	142500315	3863707	24	19352											
PRSS3	5646	hgsc.bcm.edu	37	chr9	33797833	33797833	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccctgcccatcagccgcatCcaggtgagactgggagagca	9	5	13	14	1	1	2	1	1	0	2	2	4	2	2	4	2	3	2	4	2	0	0	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	33797833	C	T	33797833	2	4	388	1	0	0	0	0	0	0	0	1	12624	845	30	2		2	PRSS3	9	33797833	Silent	SNP	C	TCGA-CJ-4892-01A-01D-1373-10		33797833	107415598	25	19353											
FAM78A	286336	hgsc.bcm.edu	37	chr9	134136486	134136486	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgttggtggccaccagcCaggtggtgaagctctggtcc	6	9	16	10	0	1	1	0	1	1	0	2	1	2	1	4	6	2	2	4	6	1	1	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	134136486	C	A	134136486	3	1	388	1	0	0	0	0	1	0	0	0	5626	595	21	4	280	4	FAM78A	9	134136486	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	100338653	134136486	7076945	26	19354											
C11orf54	28970	hgsc.bcm.edu;ucsc.edu	37	chr11	93483575	93483575	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtagttgattgccctgAtttgactaaggaacccttta	9	15	8	9	0	1	3	0	3	1	0	1	4	1	4	2	1	2	2	2	1	4	7	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	93483575	A	G	93483575	3	3	388	1	0	0	0	0	1	0	0	0	1649	333	12	3	125	3	C11orf54	11	93483575	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10		93483575	41522941	27	19355											
DNAJC14	85406	hgsc.bcm.edu;ucsc.edu	37	chr12	56217260	56217260	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaccttgaaggcctcctcAgcccggggatgatgattttt	10	11	10	10	1	1	3	1	3	0	0	2	4	2	4	4	3	2	0	4	3	3	3	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		C	56217260	A	C	56217260	2	2	388	1	0	0	0	0	0	0	0	1	4633	175	7	5		5	DNAJC14	12	56217260	Silent	SNP	A	TCGA-CJ-4892-01A-01D-1373-10		56217260	77634635	28	19356											
SRRM4	84530	hgsc.bcm.edu	37	chr12	119583248	119583248	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcccgctcaccacctcGcgaggacgttcccaggagta	8	5	11	17	4	1	0	1	0	0	0	3	3	2	2	5	2	1	3	5	2	1	2	rs78239403	by1000genomes	TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	119583248	G	A	119583248	2	1	388	1	0	0	0	0	0	0	0	1	15172	1074	38	1		1	SRRM4	12	119583248	Silent	SNP	G	TCGA-CJ-4892-01A-01D-1373-10	63365988	119583248	14268647	29	19357											
POSTN	10631	hgsc.bcm.edu;ucsc.edu	37	chr13	38143504	38143504	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaccttcaatgaatttGgtgaccttggtgacctctga	9	13	8	11	0	3	4	2	4	1	0	3	4	3	4	4	2	0	0	4	2	2	3	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	38143504	G	T	38143504	2	4	388	1	0	0	0	0	0	0	0	1	12259	1335	47	4		4	POSTN	13	38143504	Silent	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		38143504	77026374	30	19358											
ARHGEF7	8874	hgsc.bcm.edu;ucsc.edu	37	chr13	111944499	111944500	+	Frame_Shift_Ins	INS	-	-	T																															acctgatgcataatcacgtcINSttggctgatgatgaccaacc																								novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	111944500	-	T	111944499	7	5	388	1	0	1	1	0	0	0	0	0	911	900	32	0	2310	0	ARHGEF7	13	111944499	Frame_Shift_Ins	INS	-	TCGA-CJ-4892-01A-01D-1373-10	73800995	111944499	3225379	31	19359											
CCDC64B	146439	hgsc.bcm.edu	37	chr16	3079294	3079294	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccacctcatcttgcagcTtggccacttccacctccttc	5	11	5	20	0	2	0	1	0	1	0	5	0	4	0	7	1	2	2	7	1	0	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	3079294	T	A	3079294	3	1	388	1	0	0	0	0	1	0	0	0	2836	1609	56	5	448	5	CCDC64B	16	3079294	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10		3079294	87275459	32	19360											
RBBP6	5930	hgsc.bcm.edu;ucsc.edu	37	chr16	24581249	24581249	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatcatcttcctctcagAaggatgaaaaaatcactgga	16	10	6	9	0	5	2	4	1	2	1	7	4	6	4	1	2	0	0	1	2	5	1	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	24581249	A	T	24581249	4	4	388	1	0	0	0	0	0	1	0	0	13105	247	9	5	3358	5	RBBP6	16	24581249	Nonsense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	21501955	24581249	65773504	33	19361											
CD300LB	124599	hgsc.bcm.edu	37	chr17	72522083	72522083	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtttcaatgaggatcttGcatgtatcccagcgcacccc	8	11	9	13	1	2	1	1	1	1	0	3	2	3	2	3	2	2	4	3	2	2	3	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	72522083	G	T	72522083	4	4	388	1	0	0	0	0	0	1	0	0	2999	1311	46	4	443	4	CD300LB	17	72522083	Nonsense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		72522083	8673127	34	19362											
ATP8B1	5205	hgsc.bcm.edu;ucsc.edu	37	chr18	55321263	55321263	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggagcacgggcaggctggtGtacagcacgttgtagagggt	9	7	18	7	2	0	1	0	0	0	1	0	2	0	2	0	5	3	7	0	5	2	3	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	55321263	G	T	55321263	4	4	388	1	0	0	0	0	0	1	0	0	1194	1372	48	4	799	4	ATP8B1	18	55321263	Nonsense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		55321263	22755985	35	19363											
ALPK2	115701	hgsc.bcm.edu	37	chr18	56184174	56184174	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagttcctttggatgagcTcatcattatttctggtccca	7	17	8	9	0	3	1	2	1	1	0	5	2	5	2	2	2	1	3	2	2	2	5	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		C	56184174	T	C	56184174	3	2	388	1	0	0	0	0	1	0	0	0	545	1551	54	3	626	3	ALPK2	18	56184174	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	862911	56184174	21893074	36	19364											
MED16	10025	hgsc.bcm.edu	37	chr19	871987	871987	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgtcctgggtatccgaGgtggccgtatacacgggcag	7	9	15	10	3	0	0	0	0	0	0	2	1	2	0	3	4	2	4	3	4	3	3	rs78047294	bycluster;byfrequency;by1000genomes	TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	871987	G	A	871987	2	1	388	1	0	0	0	0	0	0	0	1	9434	987	35	2		2	MED16	19	871987	Silent	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		871987	58256996	37	19365											
ARMC6	93436	hgsc.bcm.edu	37	chr19	19165108	19165108	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactgcaatgaccaccagaTgagggaccagagcggcgttc	11	5	13	12	3	0	4	0	2	0	2	1	6	0	5	3	2	2	2	3	2	1	1	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	19165108	T	A	19165108	3	1	388	1	0	0	0	0	1	0	0	0	955	1464	51	5	940	5	ARMC6	19	19165108	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	18293121	19165108	39963875	38	19366											
APLP1	333	hgsc.bcm.edu	37	chr19	36370102	36370102	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccctacggggctatcAgccatggcgtggtggaggtg	8	7	17	9	2	1	1	1	0	0	1	1	2	1	2	2	6	3	1	2	6	3	2	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	36370102	A	G	36370102	3	3	388	1	0	0	0	0	1	0	0	0	778	188	7	3	1902	3	APLP1	19	36370102	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	17204994	36370102	22758881	39	19367											
CLIP3	25999	hgsc.bcm.edu	37	chr19	36517553	36517553	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaaataggccgcgtagTgaagcgcgttcatgttggtc	10	10	12	9	4	2	1	2	1	0	0	3	1	2	1	1	2	1	3	1	2	5	4	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		C	36517553	T	C	36517553	3	2	388	1	0	0	0	0	1	0	0	0	3534	1696	59	3	1186	3	CLIP3	19	36517553	Missense_Mutation	SNP	T	TCGA-CJ-4892-01A-01D-1373-10	147451	36517553	22611430	40	19368											
KIF16B	55614	hgsc.bcm.edu;ucsc.edu	37	chr20	16478322	16478322	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggggagtctaagagggcaAtctacaatataaaccataaa	17	8	10	6	0	2	1	0	0	2	1	2	2	2	2	1	3	2	1	1	3	9	5	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		G	16478322	A	G	16478322	3	3	388	1	0	0	0	0	1	0	0	0	8278	115	4	3	2839	3	KIF16B	20	16478322	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10		16478322	46547198	41	19369											
EDN3	1908	hgsc.bcm.edu;ucsc.edu	37	chr20	57897485	57897485	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggaaggtgagaggtgccAacagaggcctgtgtcaaagg	13	5	17	6	0	1	2	1	1	0	2	1	4	1	3	2	5	2	0	2	5	4	0	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	57897485	A	T	57897485	3	4	388	1	0	0	0	0	1	0	0	0	4918	130	5	5	615	5	EDN3	20	57897485	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	41419163	57897485	5128035	42	19370											
HDAC6	10013	hgsc.bcm.edu	37	chrX	48681739	48681739	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttgggggagccacgctggGccagactacctcagaggagg	8	6	17	10	1	1	2	1	0	0	2	1	4	1	4	3	5	2	2	3	5	1	2	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		A	48681739	G	A	48681739	3	1	388	1	0	0	0	0	1	0	0	0	7011	1203	42	2	3024	2	HDAC6	23	48681739	Missense_Mutation	SNP	G	TCGA-CJ-4892-01A-01D-1373-10		48681739	106588821	43	19371											
ITIH5L	0	hgsc.bcm.edu	37	chrX	54815020	54815020	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcttgcaatgtcgggcagtAggtgattcggacacaggtct	8	11	14	8	2	2	1	0	1	2	0	4	2	2	2	0	4	1	3	0	4	2	3	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		C	54815020	A	C	54815020	3	2	388	1	0	0	0	0	1	0	0	0	7908	420	15	5	3298	5	ITIH5L	23	54815020	Missense_Mutation	SNP	A	TCGA-CJ-4892-01A-01D-1373-10	6133281	54815020	100455540	44	19372											
BCORL1	63035	hgsc.bcm.edu;ucsc.edu	37	chrX	129155093	129155093	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacaaagccggagtcccagtCtccaggaaaacgagccgaca	14	3	11	13	3	1	0	0	0	1	0	3	5	2	2	4	2	3	0	4	2	3	0	novel		TCGA-CJ-4892-01A-01D-1373-10	TCGA-CJ-4892-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	5af7ce7b-91b7-460a-a534-d68898337883	1fb9033c-b267-4d24-bf41-5c368e519a6a		T	129155093	C	T	129155093	3	4	388	1	0	0	0	0	1	0	0	0	1387	913	32	2	3589	2	BCORL1	23	129155093	Missense_Mutation	SNP	C	TCGA-CJ-4892-01A-01D-1373-10	74340073	129155093	26115467	45	19373											
VHL	7428	hgsc.bcm.edu	37	chr3	10183709	10183712	+	Frame_Shift_Del	DEL	CGGC	CGGC	-																															agatggaggccgggcggccgCggcccgtgctgcgctcggtg																								novel		TCGA-CJ-4892-01A-01W-1369-10	TCGA-CJ-4892-11A-01W-1370-10	CGGC	CGGC	CGGC	-	CGGC	CGGC	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	9b45e056-72cd-45f2-a3ef-71b57328c6c2	a69da0a6-4ec9-4e28-8a32-f366688bf9d3		-	10183712	CGGC	-	10183709	7	5	389	1	0	1	0	1	0	0	0	0	17161	759	27	0	180	0	VHL	3	10183709	Frame_Shift_Del	DEL	CGGC	TCGA-CJ-4892-01A-01W-1369-10		10183709	187838721	1	19374											
ALPL	249	hgsc.bcm.edu	37	chr1	21887655	21887655	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agctccaccacaaccctgggGaggagaccaggctggagatg	11	4	14	12	0	0	2	0	0	0	2	1	5	1	3	4	5	2	2	4	5	1	0	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	21887655	G	A	21887655	3	1	390	1	0	0	0	0	1	0	0	0	547	1175	41	2	257	2	ALPL	1	21887655	Missense_Mutation	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		21887655	227362966	1	19375											
BAI2	576	hgsc.bcm.edu	37	chr1	32193184	32193184	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttgggacaagctggggCgctccccagggctgggctta	6	8	17	10	1	0	0	0	0	0	0	1	2	1	1	2	5	1	5	2	5	2	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	32193184	C	G	32193184	3	3	390	1	0	0	0	0	1	0	0	0	1299	768	27	4	166	4	BAI2	1	32193184	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	10305529	32193184	217057437	2	19376											
NBPF14	25832	hgsc.bcm.edu	37	chr1	148021592	148021592	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attacctgggagacactggtCctttttcttcctcttcctca	6	16	6	13	0	3	1	1	0	2	1	6	2	6	1	4	2	1	0	4	2	1	5	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	148021592	C	T	148021592	3	4	390	1	0	0	0	0	1	0	0	0	10194	855	30	2	2235	2	NBPF14	1	148021592	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	115828408	148021592	101229029	3	19377											
RAB10	10890	hgsc.bcm.edu;ucsc.edu	37	chr2	26332677	26332677	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttcacaccatcacaaccTcctactacagaggcgcaatg	13	8	6	14	1	2	1	2	0	0	1	3	2	3	1	3	1	3	1	3	1	4	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	26332677	T	A	26332677	3	1	390	1	0	0	0	0	1	0	0	0	12892	1551	54	5	239	5	RAB10	2	26332677	Missense_Mutation	SNP	T	TCGA-CJ-4893-01A-01D-1373-10		26332677	216866696	4	19378											
BIRC6	57448	hgsc.bcm.edu	37	chr2	32692693	32692693	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctctttgtcaattgacatTtggacattaggagaagaggt	11	13	11	6	0	2	3	1	1	1	2	2	5	2	4	1	3	0	0	1	3	3	4	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	32692693	T	G	32692693	3	3	390	1	0	0	0	0	1	0	0	0	1438	1829	64	5	5563	5	BIRC6	2	32692693	Missense_Mutation	SNP	T	TCGA-CJ-4893-01A-01D-1373-10	6360016	32692693	210506680	5	19379											
RARB	5915	hgsc.bcm.edu;ucsc.edu	37	chr3	25470335	25470335	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctcaaagcatgcttcaGtggattgacccaaaccgaat	13	9	8	11	1	2	1	2	1	1	0	3	3	2	2	2	1	4	3	2	1	3	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	25470335	G	A	25470335	3	1	390	1	0	0	0	0	1	0	0	0	13055	1029	36	2	115	2	RARB	3	25470335	Missense_Mutation	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		25470335	172552095	6	19380											
ATR	545	hgsc.bcm.edu;ucsc.edu	37	chr3	142241591	142241591	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatggcataggcagctgaAtcttgagctcggctattatc	10	12	11	8	1	1	3	0	3	1	0	3	3	1	3	0	3	2	5	0	3	5	4	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	142241591	A	T	142241591	3	4	390	1	0	0	0	0	1	0	0	0	1204	98	4	5	3789	5	ATR	3	142241591	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10	116771256	142241591	55780839	7	19381											
MME	4311	hgsc.bcm.edu	37	chr3	154898167	154898167	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggattattgggactttgcaGaactctgcagagttttcaga	11	13	11	6	0	2	3	1	0	1	3	2	5	2	5	0	2	3	3	0	2	2	5	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	154898167	G	A	154898167	2	1	390	1	0	0	0	0	0	0	0	1	9645	933	33	2		2	MME	3	154898167	Silent	SNP	G	TCGA-CJ-4893-01A-01D-1373-10	12656576	154898167	43124263	8	19382											
JAKMIP1	152789	hgsc.bcm.edu	37	chr4	6086641	6086641	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgtatcactgaattcagttCagcaatttttagttgaaatc	12	15	6	8	1	3	2	3	2	0	0	4	2	3	2	1	0	1	4	1	0	5	7	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	6086641	C	T	6086641	3	4	390	1	0	0	0	0	1	0	0	0	7940	835	29	2	1752	2	JAKMIP1	4	6086641	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10		6086641	185067635	9	19383											
LIN54	132660	hgsc.bcm.edu;ucsc.edu	37	chr4	83849392	83849392	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcttgtctgcctgctctgCctgggcaaggaggcaattac	6	12	11	12	0	3	0	0	0	3	0	3	1	3	1	2	3	4	3	2	3	3	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	83849392	C	G	83849392	3	3	390	1	0	0	0	0	1	0	0	0	8809	739	26	4	140	4	LIN54	4	83849392	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	77762751	83849392	107304884	10	19384											
DCHS2	54798	hgsc.bcm.edu	37	chr4	155156936	155156936	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactatgagcgattattttCatttccaaggtgtcttcttt	8	18	8	7	1	3	1	1	1	2	0	4	3	4	2	1	2	1	0	1	2	3	7	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	155156936	C	A	155156936	3	1	390	1	0	0	0	0	1	0	0	0	4288	826	29	4	1251	4	DCHS2	4	155156936	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	71307544	155156936	35997340	11	19385											
SLC9A3	6550	hgsc.bcm.edu;ucsc.edu	37	chr5	485324	485324	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacctcccagcgccacgaaaGattcaaacacattgtacaga	15	6	6	14	2	1	2	1	0	0	2	2	3	2	2	3	0	3	1	3	0	3	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		C	485324	G	C	485324	3	2	390	1	0	0	0	0	1	0	0	0	14715	942	33	4	1862	4	SLC9A3	5	485324	Missense_Mutation	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		485324	180429936	12	19386											
DEPDC1B	55789	hgsc.bcm.edu	37	chr5	59895075	59895075	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatatccatatcagctcCtgggtattttatctgaggca	10	14	9	8	0	2	2	1	2	1	0	4	2	4	2	2	2	1	3	2	2	4	5	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	59895075	C	A	59895075	4	1	390	1	0	0	0	0	0	1	0	0	4440	690	24	4	342	4	DEPDC1B	5	59895075	Nonsense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	59409751	59895075	121020185	13	19387											
MSH3	4437	hgsc.bcm.edu;ucsc.edu	37	chr5	80074600	80074600	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaattacagacatctgaatCagctccgggagcagctagtc	14	8	9	10	1	2	2	1	1	1	1	4	3	3	3	1	1	4	3	1	1	5	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	80074600	C	T	80074600	4	4	390	1	0	0	0	0	0	1	0	0	9871	827	29	2	2446	2	MSH3	5	80074600	Nonsense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	20179525	80074600	100840660	14	19388											
EIF4E1B	253314	hgsc.bcm.edu;ucsc.edu	37	chr5	176070710	176070710	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgcacctggtcaccaagGtggacactgtggaggacttc	9	8	12	12	0	1	0	1	0	0	0	2	3	1	3	3	5	1	1	3	5	1	1	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	176070710	G	A	176070710	3	1	390	1	0	0	0	0	1	0	0	0	5029	1261	44	2	281	2	EIF4E1B	5	176070710	Missense_Mutation	SNP	G	TCGA-CJ-4893-01A-01D-1373-10	95996110	176070710	4844550	15	19389											
UIMC1	51720	hgsc.bcm.edu	37	chr5	176382976	176382976	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaccaggacaaacagtgatTtcttctgcagaactctctgg	11	12	8	10	0	3	2	0	1	3	1	4	3	3	3	1	2	4	1	1	2	3	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		C	176382976	T	C	176382976	2	2	390	1	0	0	0	0	0	0	0	1	16970	1838	64	3		3	UIMC1	5	176382976	Silent	SNP	T	TCGA-CJ-4893-01A-01D-1373-10	312266	176382976	4532284	16	19390											
PAPOLB	56903	hgsc.bcm.edu	37	chr7	4901302	4901302	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaccccgaagggcctgAgggtttctattagcctctgg	8	9	13	11	2	2	2	0	1	2	1	2	4	2	2	4	3	1	1	4	3	4	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	4901302	A	G	4901302	3	3	390	1	0	0	0	0	1	0	0	0	11430	304	11	3	1777	3	PAPOLB	7	4901302	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10		4901302	154237361	17	19391											
ZCWPW1	55063	hgsc.bcm.edu	37	chr7	100004924	100004924	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagattctatcatgcctggcCacctggagaagatagttggg	10	10	12	9	0	2	3	1	0	1	3	2	4	2	3	3	3	1	1	3	3	3	4	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	100004924	C	A	100004924	3	1	390	1	0	0	0	0	1	0	0	0	17596	595	21	4	986	4	ZCWPW1	7	100004924	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	95103622	100004924	59133739	18	19392											
AGK	55750	hgsc.bcm.edu	37	chr7	141341644	141341644	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgagcccggaggtctggaAagatgtgcagctgtccacca	9	7	15	10	1	1	2	0	1	1	1	2	4	2	4	3	4	3	2	3	4	1	0	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	141341644	A	G	141341644	3	3	390	1	0	0	0	0	1	0	0	0	383	14	1	3	957	3	AGK	7	141341644	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10	41336720	141341644	17797019	19	19393											
NRG1	3084	hgsc.bcm.edu;ucsc.edu	37	chr8	32505779	32505779	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaatcgtatttttgccttTtctttcttgccgtccactgc	6	18	6	11	2	2	1	0	0	2	1	4	1	3	1	3	0	3	1	3	0	3	7	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	32505779	T	A	32505779	3	1	390	1	0	0	0	0	1	0	0	0	10647	1838	64	5	1818	5	NRG1	8	32505779	Missense_Mutation	SNP	T	TCGA-CJ-4893-01A-01D-1373-10		32505779	113858243	20	19394											
VPS13A	23230	hgsc.bcm.edu;ucsc.edu	37	chr9	79910543	79910543	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggctgctactggtgtaaAagaactcgcacaaaggagtt	14	9	11	7	1	0	1	0	0	0	1	1	2	0	2	0	3	3	5	0	3	6	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		C	79910543	A	C	79910543	3	2	390	1	0	0	0	0	1	0	0	0	17188	14	1	5	3723	5	VPS13A	9	79910543	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10		79910543	61302888	21	19395											
OR13A1	79290	hgsc.bcm.edu	37	chr10	45799761	45799761	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacccggtattctgggtgcTccgaaaagccctgcaggatg	9	8	12	12	2	1	0	0	0	1	0	2	2	2	1	3	3	3	3	3	3	3	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		C	45799761	T	C	45799761	3	2	390	1	0	0	0	0	1	0	0	0	10933	1551	54	3	880	3	OR13A1	10	45799761	Missense_Mutation	SNP	T	TCGA-CJ-4893-01A-01D-1373-10		45799761	89734986	22	19396											
LRRC27	80313	hgsc.bcm.edu	37	chr10	134161545	134161545	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagcccaggactggagtTgtctggagaccacgcgtcta	8	7	13	13	3	2	1	0	0	2	1	2	5	2	3	3	3	1	1	3	3	1	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	134161545	T	G	134161545	3	3	390	1	0	0	0	0	1	0	0	0	8981	1821	63	5	629	5	LRRC27	10	134161545	Missense_Mutation	SNP	T	TCGA-CJ-4893-01A-01D-1373-10	88361784	134161545	1373202	23	19397											
PLEKHA7	144100	hgsc.bcm.edu;ucsc.edu	37	chr11	16816509	16816509	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttctctttatttgcactCaggcctgcagtgacatcttc	8	15	7	11	0	3	1	1	1	2	0	5	1	3	1	1	1	2	3	1	1	2	5	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	16816509	C	T	16816509	2	4	390	1	0	0	0	0	0	0	0	1	12061	813	29	2		2	PLEKHA7	11	16816509	Silent	SNP	C	TCGA-CJ-4893-01A-01D-1373-10		16816509	118190007	24	19398											
ARHGEF17	9828	hgsc.bcm.edu	37	chr11	73021006	73021007	+	Frame_Shift_Del	DEL	CA	CA	-																															cgtgccaaaggacctggaggCacctctagggcattgaggga																								novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		-	73021007	CA	-	73021006	7	5	390	1	0	1	0	1	0	0	0	0	900	697	25	0	1325	0	ARHGEF17	11	73021006	Frame_Shift_Del	DEL	CA	TCGA-CJ-4893-01A-01D-1373-10	56204497	73021006	61985510	25	19399											
FZD4	8322	hgsc.bcm.edu	37	chr11	86662332	86662332	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatccacatgcctgaagtgAtgcccaccaacaaagacata	17	6	6	12	0	0	3	0	2	0	1	1	3	1	3	4	0	3	0	4	0	5	1	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	86662332	A	G	86662332	3	3	390	1	0	0	0	0	1	0	0	0	6132	333	12	3	151	3	FZD4	11	86662332	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10	13641326	86662332	48344184	26	19400											
GRIN2B	2904	hgsc.bcm.edu	37	chr12	13716545	13716545	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggcagaagttgcccccggaCcggtcctcccactccacgtt	6	7	10	18	4	0	1	0	0	0	1	3	2	3	2	6	3	1	3	6	3	1	2	rs149089581	alternate_allele	TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	13716545	C	G	13716545	2	3	390	1	0	0	0	0	0	0	0	1	6780	494	18	4		4	GRIN2B	12	13716545	Silent	SNP	C	TCGA-CJ-4893-01A-01D-1373-10		13716545	120135350	27	19401											
DCT	1638	hgsc.bcm.edu	37	chr13	95121259	95121259	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagttgggaccggtccaGccaaacttgcagtctccaca	9	8	10	14	2	1	0	0	0	1	0	4	1	2	1	4	2	3	3	4	2	1	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	95121259	G	A	95121259	2	1	390	1	0	0	0	0	0	0	0	1	4304	958	34	2		2	DCT	13	95121259	Silent	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		95121259	20048619	28	19402											
C13orf27	0	hgsc.bcm.edu	37	chr13	103418816	103418816	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaatctgtgtatttatttCtttgaaaacatcatttgtcg	12	18	5	6	1	3	1	1	1	2	0	4	1	3	1	0	0	1	1	0	0	6	6	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	103418816	C	A	103418816	4	1	390	1	0	0	0	0	0	1	0	0	1723	922	32	4	68	4	C13orf27	13	103418816	Nonsense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	8297557	103418816	11751062	29	19403											
ITGAM	3684	hgsc.bcm.edu;ucsc.edu	37	chr16	31336054	31336054	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccattgtctgctttcgggaAcctccggccagtgctggcgg	4	10	14	13	3	1	0	0	0	1	0	3	1	2	1	4	4	3	2	4	4	1	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	31336054	A	G	31336054	3	3	390	1	0	0	0	0	1	0	0	0	7887	43	2	3	2313	3	ITGAM	16	31336054	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10		31336054	59018699	30	19404											
HOXB1	3211	hgsc.bcm.edu	37	chr17	46608181	46608181	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgagcttgggggaaaggagGttggggcgctgtgggcgctg	5	7	22	7	3	0	0	0	0	0	0	0	3	0	2	1	7	1	4	1	7	1	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		C	46608181	G	C	46608181	3	2	390	1	0	0	0	0	1	0	0	0	7299	1261	44	4	827	4	HOXB1	17	46608181	Missense_Mutation	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		46608181	34587029	31	19405											
GGA3	23163	hgsc.bcm.edu	37	chr17	73235514	73235514	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agggagagctcaggccccttCggggggctgccctgggactg	5	6	18	12	1	1	1	1	0	0	1	2	3	1	2	3	6	2	2	3	6	0	1	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	73235514	C	G	73235514	2	3	390	1	0	0	0	0	0	0	0	1	6354	871	31	4		4	GGA3	17	73235514	Silent	SNP	C	TCGA-CJ-4893-01A-01D-1373-10	26627333	73235514	7959696	32	19406											
SLC26A11	284129	hgsc.bcm.edu	37	chr17	78221983	78221983	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcttctgggaggtgcAgtacggcatcctggccgggg	4	9	18	10	2	1	0	0	0	1	0	2	1	2	1	2	6	3	5	2	6	1	2	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		G	78221983	A	G	78221983	3	3	390	1	0	0	0	0	1	0	0	0	14518	188	7	3	1395	3	SLC26A11	17	78221983	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10	4986469	78221983	2973227	33	19407											
SEH1L	81929	hgsc.bcm.edu	37	chr18	12963339	12963339	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgagatctcatgtaagctaAgctgtagttgtatttcttgg	10	16	10	5	0	2	1	1	1	2	1	3	2	2	1	0	1	2	6	0	1	4	7	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		C	12963339	A	C	12963339	3	2	390	1	0	0	0	0	1	0	0	0	14011	72	3	5	504	5	SEH1L	18	12963339	Missense_Mutation	SNP	A	TCGA-CJ-4893-01A-01D-1373-10		12963339	65113909	34	19408											
RALGAPB	57148	hgsc.bcm.edu;ucsc.edu	37	chr20	37150282	37150282	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaggcttgtgggacactGtgtaggattttttgtagcaa	8	14	14	5	0	0	1	0	1	0	0	0	3	0	3	0	3	1	5	0	3	3	6	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		A	37150282	G	A	37150282	2	1	390	1	0	0	0	0	0	0	0	1	13017	1364	48	2		2	RALGAPB	20	37150282	Silent	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		37150282	25875238	35	19409											
RUNX1	861	hgsc.bcm.edu	37	chr21	36259170	36259170	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcagggtcttgttgcaGcgccagtgcgtaggcagcac	7	8	16	10	2	1	0	0	0	1	0	1	0	1	0	1	3	4	6	1	3	1	3	novel		TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	36259170	G	T	36259170	2	4	390	1	0	0	0	0	0	0	0	1	13748	958	34	4		4	RUNX1	21	36259170	Silent	SNP	G	TCGA-CJ-4893-01A-01D-1373-10		36259170	11870725	36	19410											
CACNA1I	8911	hgsc.bcm.edu;ucsc.edu	37	chr22	40078528	40078528	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggacccacctgagcccatgCgtgtgggagacctgggcgaa	8	6	15	12	2	0	2	0	1	0	1	0	5	0	3	4	3	2	0	4	3	1	0	rs185177048	by1000genomes	TCGA-CJ-4893-01A-01D-1373-10	TCGA-CJ-4893-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	9403d19b-9af5-478e-8ff2-1b2a9008fd13	41bb10ac-c625-417e-b123-16925beb07b3		T	40078528	C	T	40078528	3	4	390	1	0	0	0	0	1	0	0	0	2546	768	27	1	5830	1	CACNA1I	22	40078528	Missense_Mutation	SNP	C	TCGA-CJ-4893-01A-01D-1373-10		40078528	11226038	37	19411											
HNRNPR	10236	hgsc.bcm.edu;ucsc.edu	37	chr1	23640079	23640079	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgtcttcaaaatgaacAaatgcataatctttcaactt	14	14	3	10	0	5	1	2	1	3	0	5	1	5	1	1	0	3	1	1	0	6	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	23640079	A	T	23640079	3	4	391	1	0	0	0	0	1	0	0	0	7272	127	5	5	779	5	HNRNPR	1	23640079	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		23640079	225610542	1	19412											
C1orf85	112770	hgsc.bcm.edu	37	chr1	156264685	156264685	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtgttggtggccaccatTaccactgccagaggccccag	7	7	14	13	0	0	1	0	0	0	1	0	1	0	1	6	5	2	1	6	5	1	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	156264685	T	G	156264685	2	3	391	1	0	0	0	0	0	0	0	1	2062	1741	61	5		5	C1orf85	1	156264685	Silent	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	132624606	156264685	92985936	2	19413											
SEC16B	89866	hgsc.bcm.edu	37	chr1	177927420	177927420	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgatgaggttggccacAgggggctgccgcttgtactt	6	11	16	8	1	0	2	0	2	0	0	0	2	0	2	2	5	2	5	2	5	1	5	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	177927420	A	C	177927420	2	2	391	1	0	0	0	0	0	0	0	1	13989	175	7	5		5	SEC16B	1	177927420	Silent	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	21662735	177927420	71323201	3	19414											
OR6F1	343169	hgsc.bcm.edu	37	chr1	247875706	247875706	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacagcggtcataagccaTggctgccaggaggaagtact	13	6	13	9	1	1	1	1	0	0	1	1	3	1	3	2	4	4	2	2	4	4	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	247875706	T	A	247875706	3	1	391	1	0	0	0	0	1	0	0	0	11201	1464	51	5	578	5	OR6F1	1	247875706	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	69948286	247875706	1374915	4	19415											
TPO	7173	hgsc.bcm.edu	37	chr2	1488398	1488398	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggattacatccccaggAtcctgggacccgaggccttc	8	8	12	13	1	0	1	0	1	0	0	3	5	2	4	5	4	1	0	5	4	1	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	1488398	A	T	1488398	3	4	391	1	0	0	0	0	1	0	0	0	16409	333	12	5	1399	5	TPO	2	1488398	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		1488398	241710975	5	19416											
PRKCE	5581	hgsc.bcm.edu;ucsc.edu	37	chr2	46211702	46211702	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcaggtgggctcccagCggttcagcgtcaacatgccc	6	7	12	16	2	2	0	2	0	0	0	3	0	3	0	3	3	5	3	3	3	1	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	46211702	C	A	46211702	2	1	391	1	0	0	0	0	0	0	0	1	12513	759	27	4		4	PRKCE	2	46211702	Silent	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	44723304	46211702	196987671	6	19417											
MPHOSPH10	10199	hgsc.bcm.edu;ucsc.edu	37	chr2	71360308	71360308	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggatggttcagagatagagGctgatgacaaggaggaccta	14	7	15	5	0	1	4	1	2	0	2	1	8	1	7	1	5	0	2	1	5	3	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	71360308	G	T	71360308	3	4	391	1	0	0	0	0	1	0	0	0	9725	1203	42	4	376	4	MPHOSPH10	2	71360308	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	25148606	71360308	171839065	7	19418											
RNF149	284996	hgsc.bcm.edu;ucsc.edu	37	chr2	101898370	101898370	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttaaagctgggatcacaCtgtggctcagattcagcagg	10	10	11	10	0	3	1	3	0	0	1	3	2	3	2	1	3	2	3	1	3	2	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	101898370	C	T	101898370	2	4	391	1	0	0	0	0	0	0	0	1	13452	564	20	2		2	RNF149	2	101898370	Silent	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	30538062	101898370	141301003	8	19419											
IL1R1	3554	hgsc.bcm.edu;ucsc.edu	37	chr2	102792950	102792950	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtataatgctcttgttcagGatggaattaaagttgtcctg	10	16	10	5	0	2	0	1	0	1	0	3	2	3	2	1	2	1	4	1	2	5	6	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	102792950	G	A	102792950	3	1	391	1	0	0	0	0	1	0	0	0	7658	1174	41	2	1479	2	IL1R1	2	102792950	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	894580	102792950	140406423	9	19420											
ACOXL	55289	hgsc.bcm.edu;ucsc.edu	37	chr2	111753532	111753532	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgttgaaagcagtgaaatTtcgtgaaagggttcttcagc	11	13	11	6	1	3	3	1	3	2	0	4	3	3	3	0	1	2	3	0	1	3	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	111753532	T	A	111753532	3	1	391	1	0	0	0	0	1	0	0	0	161	1841	64	5	1282	5	ACOXL	2	111753532	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	8960582	111753532	131445841	10	19421											
NR4A2	4929	hgsc.bcm.edu	37	chr2	157185033	157185033	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacacgtattttgcattttTttgcactgtgcgctgcaaaa	10	15	7	9	2	0	0	0	0	0	0	0	0	0	0	0	0	4	5	0	0	3	6	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	157185033	T	G	157185033	3	3	391	1	0	0	0	0	1	0	0	0	10633	1850	64	5	939	5	NR4A2	2	157185033	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	45431501	157185033	86014340	11	19422											
SESTD1	91404	hgsc.bcm.edu	37	chr2	179997085	179997085	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtagggcctgggaggccctAatggagtctccaatgcccca	8	8	13	12	0	1	0	0	0	1	0	2	2	1	2	5	4	1	1	5	4	3	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	179997085	A	C	179997085	3	2	391	1	0	0	0	0	1	0	0	0	14129	358	13	5	1208	5	SESTD1	2	179997085	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	22812052	179997085	63202288	12	19423											
PDE1A	5136	hgsc.bcm.edu;ucsc.edu	37	chr2	183050723	183050723	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcaagggagtagtctgggGaataggacccatcactcatg	11	8	13	9	0	3	0	2	0	1	0	3	3	3	3	1	4	1	2	1	4	4	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	183050723	G	T	183050723	3	4	391	1	0	0	0	0	1	0	0	0	11633	1174	41	4	233	4	PDE1A	2	183050723	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	3053638	183050723	60148650	13	19424											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191507	10191507	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgatgcctccaggttgtccGgagcctagtcaagcctgaga	8	8	13	12	2	1	1	1	1	0	1	3	4	3	2	5	2	3	1	5	2	2	2	rs5030821	bycluster	TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	10191507	G	A	10191507	3	1	391	1	0	0	0	0	1	0	0	0	17161	1116	39	1	510	1	VHL	3	10191507	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10		10191507	187830923	14	19425											
RABL3	285282	hgsc.bcm.edu	37	chr3	120428688	120428688	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggcactgcccacagaGcctccaacatcccataattc	10	8	6	17	0	0	1	0	0	0	1	3	1	2	1	4	1	4	2	4	1	2	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	120428688	G	A	120428688	2	1	391	1	0	0	0	0	0	0	0	1	12974	958	34	2		2	RABL3	3	120428688	Silent	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	110237181	120428688	77593742	15	19426											
HPS3	84343	hgsc.bcm.edu;ucsc.edu	37	chr3	148858222	148858222	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactggagtcaggccctaaaAatggagagagagttcaccac	15	6	11	9	0	2	2	2	0	0	2	2	5	2	3	2	3	1	1	2	3	4	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	148858222	A	T	148858222	3	4	391	1	0	0	0	0	1	0	0	0	7340	14	1	5	655	5	HPS3	3	148858222	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	28429534	148858222	49164208	16	19427											
TET2	54790	hgsc.bcm.edu	37	chr4	106190890	106190890	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacttgcacaacatgcagAatggcagcacattggtaagt	14	8	11	8	0	0	2	0	0	0	2	0	3	0	2	0	2	4	5	0	2	3	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	106190890	A	C	106190890	3	2	391	1	0	0	0	0	1	0	0	0	15769	246	9	5	4283	5	TET2	4	106190890	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		106190890	84963386	17	19428											
PDGFC	56034	hgsc.bcm.edu	37	chr4	157892006	157892006	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attccgcctgagtcccctgtCtctggccggccagggcagat	5	9	12	15	2	1	2	0	1	1	1	4	2	3	2	6	3	0	1	6	3	0	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	157892006	C	T	157892006	3	4	391	1	0	0	0	0	1	0	0	0	11659	913	32	2	1011	2	PDGFC	4	157892006	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	51701116	157892006	33262270	18	19429											
ERBB2IP	55914	hgsc.bcm.edu;ucsc.edu	37	chr5	65350608	65350608	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctattaatgaaataccagaGagaactatgtcagttagtga	16	12	8	5	0	2	4	1	2	1	2	2	5	2	4	1	0	2	1	1	0	7	5	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	65350608	G	C	65350608	3	2	391	1	0	0	0	0	1	0	0	0	5207	933	33	4	3536	4	ERBB2IP	5	65350608	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10		65350608	115564652	19	19430											
CENPH	64946	hgsc.bcm.edu;ucsc.edu	37	chr5	68504122	68504122	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaactcagagaggataaAgatcatacgacaaaacctac	20	5	8	8	1	2	2	2	0	0	2	2	6	2	4	1	2	4	0	1	2	8	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	68504122	A	G	68504122	3	3	391	1	0	0	0	0	1	0	0	0	3232	72	3	3	617	3	CENPH	5	68504122	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	3153514	68504122	112411138	20	19431											
FOXD1	2297	hgsc.bcm.edu	37	chr5	72743761	72743761	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagcgtcagccgcttctTggggctctgcaggatggcca	5	9	14	13	2	4	0	2	0	2	0	4	1	4	1	2	4	3	4	2	4	0	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	72743761	T	A	72743761	4	1	391	1	0	0	0	0	0	1	0	0	5996	1821	63	5	972	5	FOXD1	5	72743761	Nonsense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	4239639	72743761	108171499	21	19432											
GLRA1	2741	hgsc.bcm.edu	37	chr5	151208500	151208500	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accttgtgatgtctccgcttCctcctgaatcggagcagctc	6	12	9	14	2	1	2	0	2	1	0	6	3	3	3	4	1	2	3	4	1	1	2	rs75463357	bycluster;byfrequency;by1000genomes	TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	151208500	C	T	151208500	2	4	391	1	0	0	0	0	0	0	0	1	6454	854	30	2		2	GLRA1	5	151208500	Silent	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	78464739	151208500	29706760	22	19433											
FAM135A	57579	hgsc.bcm.edu	37	chr6	71185160	71185160	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgattctctaatttgcAgtaaaacatttcaaattttg	13	18	4	6	0	3	1	2	1	1	0	4	1	3	1	0	0	2	2	0	0	4	8	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	71185160	A	G	71185160	3	3	391	1	0	0	0	0	1	0	0	0	5448	202	7	3	215	3	FAM135A	6	71185160	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		71185160	99929907	23	19434											
KIAA1919	91749	hgsc.bcm.edu;ucsc.edu	37	chr6	111587971	111587971	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctactggtattttatttccTgtgctatataaattagccac	10	17	6	8	0	0	0	0	0	0	0	1	0	1	0	2	1	3	3	2	1	8	9	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	111587971	T	A	111587971	2	1	391	1	0	0	0	0	0	0	0	1	8262	1567	55	5		5	KIAA1919	6	111587971	Silent	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	40402811	111587971	59527096	24	19435											
PTPRK	5796	hgsc.bcm.edu;ucsc.edu	37	chr6	128643199	128643199	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attacctgatattcattgggCcaaaaggtgctcactgctag	11	12	9	9	0	2	1	2	1	0	0	2	1	2	1	2	2	3	2	2	2	5	5	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	128643199	C	T	128643199	4	4	391	1	0	0	0	0	0	1	0	0	12807	740	26	2	3976	2	PTPRK	6	128643199	Nonsense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	17055228	128643199	42471868	25	19436											
CARD11	84433	hgsc.bcm.edu	37	chr7	2949758	2949758	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttggacttgatcaagtcTcttgtgcagccgatcccagc	8	12	10	11	1	2	1	1	1	1	0	4	3	3	2	2	1	3	2	2	1	1	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	2949758	T	A	2949758	3	1	391	1	0	0	0	0	1	0	0	0	2645	1548	54	5	286	5	CARD11	7	2949758	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10		2949758	156188905	26	19437											
SDK1	221935	hgsc.bcm.edu;ucsc.edu	37	chr7	4218135	4218135	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatttaaagaagtaccggcGctatgaagtaataatgaccg	16	9	10	6	3	0	4	0	2	0	2	0	4	0	4	2	1	1	3	2	1	8	6	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	4218135	G	A	4218135	3	1	391	1	0	0	0	0	1	0	0	0	13970	1087	38	1	5153	1	SDK1	7	4218135	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	1268377	4218135	154920528	27	19438											
ZNF680	340252	hgsc.bcm.edu;ucsc.edu	37	chr7	63982483	63982483	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaccagttaagaacttTgccacattcctcacatttgt	12	13	6	10	0	1	2	1	1	0	2	2	3	2	2	3	0	3	1	3	0	3	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	63982483	T	C	63982483	3	2	391	1	0	0	0	0	1	0	0	0	18086	1821	63	3	947	3	ZNF680	7	63982483	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	59764348	63982483	95156180	28	19439											
SLC26A4	5172	hgsc.bcm.edu;ucsc.edu	37	chr7	107335133	107335133	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgtgtgacattcctcGtctgtggagacagaataaga	11	10	12	8	1	1	4	0	1	1	3	3	5	2	4	1	1	1	2	1	1	2	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	107335133	G	A	107335133	3	1	391	1	0	0	0	0	1	0	0	0	14521	1145	40	1	1451	1	SLC26A4	7	107335133	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	43352650	107335133	51803530	29	19440											
CBLL1	79872	hgsc.bcm.edu	37	chr7	107393904	107393904	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgactgtaaagggggtgAgctgtttgcaaatcagcgaa	12	10	14	5	1	1	2	1	2	0	0	1	3	1	2	0	2	3	5	0	2	5	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	107393904	A	G	107393904	3	3	391	1	0	0	0	0	1	0	0	0	2703	304	11	3	240	3	CBLL1	7	107393904	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	58771	107393904	51744759	30	19441											
ZNF596	169270	hgsc.bcm.edu;ucsc.edu	37	chr8	195379	195380	+	Frame_Shift_Ins	INS	-	-	A																															atttgattatgcctttatccINSaaaactctgcccttagacca																								novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	195380	-	A	195379	7	5	391	1	0	1	1	0	0	0	0	0	18025	595	21	0	550	0	ZNF596	8	195379	Frame_Shift_Ins	INS	-	TCGA-CJ-4894-01A-01D-1373-10		195379	146168643	31	19442											
SGCZ	137868	hgsc.bcm.edu	37	chr8	13959919	13959919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgcagatggagctccttcCtgcaggtggccttgaagtct	7	12	12	10	0	1	2	0	1	1	1	3	3	3	3	3	3	3	3	3	3	1	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	13959919	C	T	13959919	3	4	391	1	0	0	0	0	1	0	0	0	14206	681	24	2	236	2	SGCZ	8	13959919	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	13764540	13959919	132404103	32	19443											
PKHD1L1	93035	hgsc.bcm.edu;ucsc.edu	37	chr8	110456096	110456096	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaactaataacaattattGgacatggctttagtaatctc	15	14	6	6	0	1	1	0	1	1	0	2	2	1	2	0	2	2	2	0	2	7	7	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	110456096	G	T	110456096	4	4	391	1	0	0	0	0	0	1	0	0	11972	1349	47	4	4902	4	PKHD1L1	8	110456096	Nonsense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	96496177	110456096	35907926	33	19444											
FNBP1	23048	hgsc.bcm.edu;ucsc.edu	37	chr9	132757177	132757177	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttctttcacaaacttgaTatatttctcaagaatatcaa	14	16	2	9	0	4	2	3	1	2	1	5	2	4	2	1	0	1	0	1	0	7	7	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	132757177	T	C	132757177	3	2	391	1	0	0	0	0	1	0	0	0	5965	1406	49	3	1832	3	FNBP1	9	132757177	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10		132757177	8456254	34	19445											
BTAF1	9044	hgsc.bcm.edu;ucsc.edu	37	chr10	93699745	93699745	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgcaaattgggataccCggattgcagcaggacaagct	12	7	14	8	1	0	0	0	0	0	0	0	4	0	4	1	4	5	4	1	4	3	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	93699745	C	T	93699745	3	4	391	1	0	0	0	0	1	0	0	0	1536	643	23	1	185	1	BTAF1	10	93699745	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10		93699745	41835002	35	19446											
MRVI1	10335	hgsc.bcm.edu	37	chr11	10673639	10673639	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctcgggaatgtggggcAtggcagcctcctgctgggag	5	8	17	11	2	0	0	0	0	0	0	3	2	2	2	3	5	2	3	3	5	1	0	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	10673639	A	T	10673639	3	4	391	1	0	0	0	0	1	0	0	0	9853	217	8	5	2660	5	MRVI1	11	10673639	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		10673639	124332877	36	19447											
COPB1	1315	hgsc.bcm.edu;ucsc.edu	37	chr11	14487933	14487933	+	Missense_Mutation	SNP	C	C	T																															gttgacatgaacgtaagcttCtgcatatacaggatctgaga																								novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	14487933	C	T	14487933	3	4	391	1	0	0	0	0	1	0	0	0	3728	922	32	2	700	2	COPB1	11	14487933	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	3814294	14487933	120518583	37	19448	264	2									
COPB1	1315	hgsc.bcm.edu;ucsc.edu	37	chr11	14487935	14487935	+	Missense_Mutation	SNP	G	G	T																															tgacatgaacgtaagcttctGcatatacaggatctgagaaa																								novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	14487935	G	T	14487935	3	4	391	1	0	0	0	0	1	0	0	0	3728	1319	46	4	702	4	COPB1	11	14487935	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	2	14487935	120518581	38	19449	264	2									
PLEKHB1	58473	hgsc.bcm.edu	37	chr11	73362890	73362890	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgactgtgaacctacgggAaggcggccgcctgcacctct	7	7	13	14	3	1	2	0	2	1	0	1	3	1	3	4	3	3	2	4	3	3	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	73362890	A	C	73362890	3	2	391	1	0	0	0	0	1	0	0	0	12064	246	9	5	319	5	PLEKHB1	11	73362890	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	58874955	73362890	61643626	39	19450											
SYTL2	54843	hgsc.bcm.edu;ucsc.edu	37	chr11	85438961	85438961	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgacggtctctagaactGccacctggcacctgagatgg	8	9	12	12	1	1	3	0	2	1	2	2	4	1	3	3	3	3	2	3	3	2	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	85438961	G	T	85438961	2	4	391	1	0	0	0	0	0	0	0	1	15482	1306	46	4		4	SYTL2	11	85438961	Silent	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	12076071	85438961	49567555	40	19451											
TAF1D	79101	hgsc.bcm.edu	37	chr11	93470348	93470348	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttcaatgattctttcaGgtggtgttcatacttcagtt	7	19	8	7	0	5	1	4	1	1	0	5	1	5	1	0	2	2	3	0	2	2	8	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	93470348	G	C	93470348	3	2	391	1	0	0	0	0	1	0	0	0	15521	991	35	4	331	4	TAF1D	11	93470348	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	8031387	93470348	41536168	41	19452											
MLF2	8079	hgsc.bcm.edu;ucsc.edu	37	chr12	6859057	6859057	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgctcctcctggtccccCgtgcgatggtttcgggagcg	2	10	14	15	5	0	0	0	0	0	0	4	2	3	1	5	3	3	2	5	3	0	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	6859057	C	T	6859057	2	4	391	1	0	0	0	0	0	0	0	1	9616	639	23	1		1	MLF2	12	6859057	Silent	SNP	C	TCGA-CJ-4894-01A-01D-1373-10		6859057	126992838	42	19453											
TM7SF3	51768	hgsc.bcm.edu;ucsc.edu	37	chr12	27152583	27152583	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtccactggcagtgccTgtttccgaggaattggaaag	10	9	12	10	1	0	0	0	0	0	0	2	3	2	2	4	3	1	2	4	3	2	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	27152583	T	A	27152583	2	1	391	1	0	0	0	0	0	0	0	1	15974	1567	55	5		5	TM7SF3	12	27152583	Silent	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	20293526	27152583	106699312	43	19454											
HOXC10	3226	hgsc.bcm.edu;ucsc.edu	37	chr12	54383107	54383107	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcgccgcctggagattagCaagaccattaaccttacaga	13	7	10	11	2	0	3	0	0	0	3	0	5	0	3	4	1	4	1	4	1	4	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	54383107	C	T	54383107	2	4	391	1	0	0	0	0	0	0	0	1	7309	709	25	2		2	HOXC10	12	54383107	Silent	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	27230524	54383107	79468788	44	19455											
GLS2	27165	hgsc.bcm.edu	37	chr12	56865905	56865905	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttaacccttcagtacctTcagctgcagcaacatgcaga	11	10	6	14	0	2	1	2	0	0	1	3	1	3	1	3	0	7	5	3	0	3	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	56865905	T	G	56865905	3	3	391	1	0	0	0	0	1	0	0	0	6464	1783	62	5	234	5	GLS2	12	56865905	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	2482798	56865905	76985990	45	19456											
CLLU1OS	574016	hgsc.bcm.edu	37	chr12	92816354	92816354	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcagtggggccccaagTgcagggccataggaagtaca	11	4	15	11	0	0	0	0	0	0	0	0	1	0	1	4	5	2	3	4	5	4	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	92816354	T	G	92816354	2	3	391	1	0	0	0	0	0	0	0	1	3541	1683	59	5		5	CLLU1OS	12	92816354	Silent	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	35950449	92816354	41035541	46	19457											
APPL2	55198	hgsc.bcm.edu;ucsc.edu	37	chr12	105583814	105583814	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctgtagcaggaagcacaAtatcgaattgaatcggcgtt	13	11	10	7	3	1	1	0	1	1	0	3	3	1	2	0	2	2	4	0	2	6	5	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	105583814	A	C	105583814	3	2	391	1	0	0	0	0	1	0	0	0	818	101	4	5	661	5	APPL2	12	105583814	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	12767460	105583814	28268081	47	19458											
RDH11	51109	hgsc.bcm.edu;ucsc.edu	37	chr14	68145133	68145133	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagagacccatgccacatGacagtcactggaaggtaaag	14	5	12	10	0	1	2	1	1	0	1	1	4	1	3	2	3	1	2	2	3	3	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	68145133	G	T	68145133	3	4	391	1	0	0	0	0	1	0	0	0	13192	1290	45	4	98	4	RDH11	14	68145133	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10		68145133	39204407	48	19459											
RAGE	0	hgsc.bcm.edu;ucsc.edu	37	chr14	102698939	102698939	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctctcatcgggatcataggCcaccattgcgtgcaggaggg	8	9	13	11	2	3	0	2	0	1	0	5	2	3	2	2	4	2	1	2	4	1	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	102698939	C	G	102698939	3	3	391	1	0	0	0	0	1	0	0	0	13008	739	26	4	476	4	RAGE	14	102698939	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	34553806	102698939	4650601	49	19460											
BRD7	29117	hgsc.bcm.edu;ucsc.edu	37	chr16	50373909	50373909	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctaagaattttcattcctGagtgcaacagcttctttgca	10	14	8	9	0	2	2	1	1	1	1	3	2	3	2	1	1	4	4	1	1	3	6	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	50373909	G	A	50373909	3	1	391	1	0	0	0	0	1	0	0	0	1505	1294	45	2	1326	2	BRD7	16	50373909	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10		50373909	39980844	50	19461											
KLHL36	79786	hgsc.bcm.edu;ucsc.edu	37	chr16	84690712	84690712	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacattgggctcaaggccgTggtggacttcctgtacggcg	6	10	14	11	3	1	0	1	0	0	0	2	1	2	1	2	5	2	2	2	5	3	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	84690712	T	A	84690712	3	1	391	1	0	0	0	0	1	0	0	0	8389	1696	59	5	305	5	KLHL36	16	84690712	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	34316803	84690712	5664041	51	19462											
SMG6	23293	hgsc.bcm.edu;ucsc.edu	37	chr17	2195864	2195864	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accgtatacactgccagcaaAgccaactggttataggggcg	12	7	11	11	2	0	0	0	0	0	0	0	0	0	0	3	3	5	3	3	3	6	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	2195864	A	T	2195864	2	4	391	1	0	0	0	0	0	0	0	1	14799	59	3	5		5	SMG6	17	2195864	Silent	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		2195864	78999346	52	19463											
NEURL4	84461	hgsc.bcm.edu	37	chr17	7229846	7229846	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatggagcctgaccacttatCaacaagcttgtcgatacgga	13	9	9	10	2	1	1	1	1	0	0	2	4	1	3	2	2	4	1	2	2	5	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	7229846	C	G	7229846	3	3	391	1	0	0	0	0	1	0	0	0	10347	826	29	4	3674	4	NEURL4	17	7229846	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	5033982	7229846	73965364	53	19464											
MYO15A	51168	hgsc.bcm.edu	37	chr17	18022777	18022777	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcactcgggctcccgcaaGtcgctgtacgggcttgaggg	6	8	14	13	4	1	1	1	1	0	0	4	1	2	1	1	3	1	5	1	3	2	2	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	18022777	G	A	18022777	2	1	391	1	0	0	0	0	0	0	0	1	10063	1020	36	2		2	MYO15A	17	18022777	Silent	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	10792931	18022777	63172433	54	19465											
DNAJC7	7266	hgsc.bcm.edu;ucsc.edu	37	chr17	40148372	40148372	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatgatccagttctagggctCtctggaagctgcgacatgct	8	12	11	10	1	2	1	0	1	2	0	4	3	3	2	1	2	3	4	1	2	3	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	40148372	C	T	40148372	3	4	391	1	0	0	0	0	1	0	0	0	4654	913	32	2	1166	2	DNAJC7	17	40148372	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	22125595	40148372	41046838	55	19466											
GOSR2	9570	hgsc.bcm.edu;ucsc.edu	37	chr17	45006907	45006907	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtccacgagatccagtcTtgcatgggacgcctggagac	9	7	13	12	2	1	2	0	0	1	2	3	5	3	3	3	3	1	1	3	3	0	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	45006907	T	C	45006907	2	2	391	1	0	0	0	0	0	0	0	1	6578	1596	56	3		3	GOSR2	17	45006907	Silent	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	4858535	45006907	36188303	56	19467											
KIF2B	84643	hgsc.bcm.edu	37	chr17	51900836	51900836	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgatgaagcagaaaaagtctCcctgcctctgggaaatccag	13	8	10	10	0	2	3	0	2	2	1	4	4	3	4	3	1	2	1	3	1	4	0	rs59657238	bycluster;byfrequency;by1000genomes	TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	51900836	C	T	51900836	3	4	391	1	0	0	0	0	1	0	0	0	8298	855	30	2	444	2	KIF2B	17	51900836	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	6893929	51900836	29294374	57	19468											
TEX14	56155	hgsc.bcm.edu	37	chr17	56638928	56638928	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccacgctctcctcaggTggctgcagccatctttccag	6	10	9	16	1	3	0	1	0	2	0	6	0	5	0	4	2	3	4	4	2	0	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	56638928	T	A	56638928	2	1	391	1	0	0	0	0	0	0	0	1	15777	1683	59	5		5	TEX14	17	56638928	Silent	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	4738092	56638928	24556282	58	19469											
NAT9	26151	hgsc.bcm.edu;ucsc.edu	37	chr17	72769044	72769044	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaacaaacctgcaatcaTgacctcgatctcccccaagg	13	7	7	14	1	2	2	1	2	1	0	4	3	2	2	4	1	3	1	4	1	4	0	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	72769044	T	C	72769044	3	2	391	1	0	0	0	0	1	0	0	0	10182	1464	51	3	314	3	NAT9	17	72769044	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10	16130116	72769044	8426166	59	19470											
TAF4B	6875	hgsc.bcm.edu;ucsc.edu	37	chr18	23969945	23969945	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaacgggagatgaagtattCtcgagctctatacctggccc	10	9	12	10	2	2	2	0	1	2	1	3	5	2	3	2	3	3	2	2	3	5	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	23969945	C	T	23969945	3	4	391	1	0	0	0	0	1	0	0	0	15526	913	32	2	2616	2	TAF4B	18	23969945	Missense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10		23969945	54107303	60	19471											
ALPK2	115701	hgsc.bcm.edu;ucsc.edu	37	chr18	56246200	56246200	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctgcctgggttgaaataGcacattctcttgcatcagca	9	12	9	11	0	3	1	1	1	2	0	4	1	3	1	1	1	4	5	1	1	2	4	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	56246200	G	A	56246200	3	1	391	1	0	0	0	0	1	0	0	0	545	971	34	2	4744	2	ALPK2	18	56246200	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	32276255	56246200	21831048	61	19472											
DPY19L3	147991	hgsc.bcm.edu	37	chr19	32949399	32949399	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattgtagcattcgttgttGcctttcataatctcaggtat	8	18	8	7	1	2	1	2	1	1	0	4	1	2	1	1	1	2	5	1	1	3	8	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	32949399	G	C	32949399	3	2	391	1	0	0	0	0	1	0	0	0	4742	1319	46	4	1348	4	DPY19L3	19	32949399	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10		32949399	26179584	62	19473											
C19orf54	284325	hgsc.bcm.edu	37	chr19	41250530	41250530	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccgtatgagtctctccagggGgacgccactggggggcgaca	7	6	16	12	3	1	1	0	1	1	0	3	3	2	2	3	5	0	1	3	5	1	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	41250530	G	A	41250530	3	1	391	1	0	0	0	0	1	0	0	0	1936	1232	43	2	620	2	C19orf54	19	41250530	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	8301131	41250530	17878453	63	19474											
CD177	57126	hgsc.bcm.edu	37	chr19	43857873	43857873	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacagacgggtcatgagcGcggtattactgctggccctc	7	8	13	13	3	1	2	1	1	0	1	2	2	1	2	2	3	3	2	2	3	2	2	rs45441892	bycluster;byfrequency;by1000genomes	TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	43857873	G	C	43857873	3	2	391	1	0	0	0	0	1	0	0	0	2971	1087	38	4	9	4	CD177	19	43857873	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10	2607343	43857873	15271110	64	19475											
ACSS1	84532	hgsc.bcm.edu	37	chr20	25003643	25003643	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatgcccttgggcattccgGtgctccctgaggtgtacagc	5	10	13	13	2	0	1	0	1	0	0	2	2	2	1	3	3	4	3	3	3	1	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		A	25003643	G	A	25003643	3	1	391	1	0	0	0	0	1	0	0	0	188	1261	44	2	1216	2	ACSS1	20	25003643	Missense_Mutation	SNP	G	TCGA-CJ-4894-01A-01D-1373-10		25003643	38021877	65	19476											
CHD6	84181	hgsc.bcm.edu;ucsc.edu	37	chr20	40116335	40116335	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttcagatctccaaattcCtccaagaaagcggtctctga	11	12	7	11	1	3	3	1	1	2	2	7	3	5	3	3	1	1	1	3	1	3	3	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	40116335	C	T	40116335	2	4	391	1	0	0	0	0	0	0	0	1	3329	680	24	2		2	CHD6	20	40116335	Silent	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	15112692	40116335	22909185	66	19477											
FITM2	128486	hgsc.bcm.edu;ucsc.edu	37	chr20	42935614	42935614	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagatgtcaaagccatgcCaaaagcccccttcctggtgg	10	8	10	13	0	1	1	1	1	0	1	2	2	2	1	5	2	3	0	5	2	3	1	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		T	42935614	C	T	42935614	4	4	391	1	0	0	0	0	0	1	0	0	5899	595	21	2	352	2	FITM2	20	42935614	Nonsense_Mutation	SNP	C	TCGA-CJ-4894-01A-01D-1373-10	2819279	42935614	20089906	67	19478											
ZNF831	128611	hgsc.bcm.edu	37	chr20	57782032	57782032	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacaccaacctgggtgcgAagaagaagccgccaccctcc	11	3	10	17	3	0	2	0	0	0	2	1	3	1	2	6	1	3	1	6	1	4	0	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		G	57782032	A	G	57782032	2	3	391	1	0	0	0	0	0	0	0	1	18184	233	9	3		3	ZNF831	20	57782032	Silent	SNP	A	TCGA-CJ-4894-01A-01D-1373-10	14846418	57782032	5243488	68	19479											
LIMK2	3985	hgsc.bcm.edu	37	chr22	31658681	31658681	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcggctggaggcccggcTcgctcctcacatgcagaatg	6	7	14	14	3	1	1	1	0	0	1	3	2	2	2	2	4	2	5	2	4	1	0	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	31658681	T	C	31658681	3	2	391	1	0	0	0	0	1	0	0	0	8802	1551	54	3	841	3	LIMK2	22	31658681	Missense_Mutation	SNP	T	TCGA-CJ-4894-01A-01D-1373-10		31658681	19645885	69	19480											
TRPC5	7224	hgsc.bcm.edu	37	chrX	111090368	111090368	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcattgttctgtttctcAcatcggatccccttgcagtt	7	15	8	11	1	2	0	1	0	2	0	5	1	3	1	2	2	1	5	2	2	1	5	novel		TCGA-CJ-4894-01A-01D-1373-10	TCGA-CJ-4894-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	096cee87-c528-4b13-8e6f-7e4a1dae1260	f5e4b1f9-d5e5-4b42-8d8e-831c05287971		C	111090368	A	C	111090368	3	2	391	1	0	0	0	0	1	0	0	0	16581	157	6	5	1271	5	TRPC5	23	111090368	Missense_Mutation	SNP	A	TCGA-CJ-4894-01A-01D-1373-10		111090368	44180192	70	19481											
C1orf86	199990	hgsc.bcm.edu	37	chr1	2121164	2121164	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcaccacgtcacgtctTctgtgctttcggccaagcac	6	10	9	16	4	4	0	2	0	2	0	5	0	4	0	2	1	2	3	2	1	1	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	2121164	T	G	2121164	3	3	392	1	0	0	0	0	1	0	0	0	2063	1783	62	5	259	5	C1orf86	1	2121164	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10		2121164	247129457	1	19482											
ATP13A2	23400	hgsc.bcm.edu	37	chr1	17313021	17313021	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagcagcagcttgaagccGgtgtcagtgatgttcctcag	9	9	13	10	1	2	2	2	2	0	0	3	2	3	2	2	1	5	5	2	1	1	2	rs115985012	bycluster;byfrequency;by1000genomes	TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	17313021	G	A	17313021	2	1	392	1	0	0	0	0	0	0	0	1	1124	1103	39	1		1	ATP13A2	1	17313021	Silent	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	15191857	17313021	231937600	2	19483											
CATSPER4	378807	hgsc.bcm.edu	37	chr1	26527919	26527919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgaacaggcgctcgtcgaCgagcgggtcgttggagacta	8	8	16	9	6	0	2	0	1	0	1	3	5	0	2	0	3	2	3	0	3	2	3	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	26527919	C	T	26527919	3	4	392	1	0	0	0	0	1	0	0	0	2690	536	19	1	1308	1	CATSPER4	1	26527919	Missense_Mutation	SNP	C	TCGA-CJ-4895-01A-01D-1373-10	9214898	26527919	222722702	3	19484											
ZMYM6	9204	hgsc.bcm.edu	37	chr1	35454280	35454280	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttttgttcaaaaaaatcTactggtttgttttctaattc	11	20	5	5	0	3	0	1	0	2	0	4	1	3	0	0	1	1	3	0	1	5	9	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		C	35454280	T	C	35454280	2	2	392	1	0	0	0	0	0	0	0	1	17703	1509	53	3		3	ZMYM6	1	35454280	Silent	SNP	T	TCGA-CJ-4895-01A-01D-1373-10	8926361	35454280	213796341	4	19485											
ZFYVE9	9372	hgsc.bcm.edu	37	chr1	52704839	52704839	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtggtgcaagacccaagcaaCcttctaatcttaaacttcaa	14	10	6	11	0	3	1	1	0	2	1	3	1	3	1	2	1	4	2	2	1	7	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	52704839	C	T	52704839	3	4	392	1	0	0	0	0	1	0	0	0	17670	507	18	2	1756	2	ZFYVE9	1	52704839	Missense_Mutation	SNP	C	TCGA-CJ-4895-01A-01D-1373-10	17250559	52704839	196545782	5	19486											
C1orf85	112770	hgsc.bcm.edu	37	chr1	156264685	156264685	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtgttggtggccaccatTaccactgccagaggccccag	7	7	14	13	0	0	1	0	0	0	1	0	1	0	1	6	5	2	1	6	5	1	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	156264685	T	G	156264685	2	3	392	1	0	0	0	0	0	0	0	1	2062	1741	61	5		5	C1orf85	1	156264685	Silent	SNP	T	TCGA-CJ-4895-01A-01D-1373-10	103559846	156264685	92985936	6	19487											
DEGS1	8560	hgsc.bcm.edu	37	chr1	224377848	224377848	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgttggcagcatctttaCttggcctgggtttgcaccca	7	13	10	11	0	1	0	0	0	1	0	1	0	1	0	2	3	3	5	2	3	1	5	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	224377848	C	T	224377848	3	4	392	1	0	0	0	0	1	0	0	0	4422	565	20	2	658	2	DEGS1	1	224377848	Missense_Mutation	SNP	C	TCGA-CJ-4895-01A-01D-1373-10	68113163	224377848	24872773	7	19488											
KCNK1	3775	hgsc.bcm.edu	37	chr1	233802464	233802464	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgcatcaccgtgcacgTcacccgcaggccggtcctct	6	6	10	19	5	3	0	2	0	1	0	4	0	4	0	5	2	2	3	5	2	0	0	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	233802464	T	G	233802464	3	3	392	1	0	0	0	0	1	0	0	0	8058	1667	58	5	485	5	KCNK1	1	233802464	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10	9424616	233802464	15448157	8	19489											
ATAD2B	54454	hgsc.bcm.edu	37	chr2	24108653	24108653	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctgatcgacgattctGtcggatgttaatgttgtcca	7	16	9	9	3	2	1	0	1	2	0	6	4	3	2	2	1	0	2	2	1	1	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	24108653	G	A	24108653	4	1	392	1	0	0	0	0	0	1	0	0	1072	1386	48	2	3853	2	ATAD2B	2	24108653	Nonsense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10		24108653	219090720	9	19490											
LYPD1	116372	hgsc.bcm.edu;ucsc.edu	37	chr2	133403819	133403819	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggcgatgagacaggcCgctgatgatgcacaggactt	11	6	15	9	2	0	4	0	3	0	2	0	7	0	5	1	3	1	3	1	3	0	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	133403819	C	T	133403819	2	4	392	1	0	0	0	0	0	0	0	1	9109	639	23	1		1	LYPD1	2	133403819	Silent	SNP	C	TCGA-CJ-4895-01A-01D-1373-10	109295166	133403819	109795554	10	19491											
LCT	3938	hgsc.bcm.edu;ucsc.edu	37	chr2	136566910	136566910	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccaagccattgatcaGcctgttgtaataatcaaccc	12	10	6	13	0	2	1	2	1	0	0	2	1	2	1	5	0	4	2	5	0	4	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	136566910	G	A	136566910	2	1	392	1	0	0	0	0	0	0	0	1	8693	962	34	2		2	LCT	2	136566910	Silent	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	3163091	136566910	106632463	11	19492											
PKP4	8502	hgsc.bcm.edu;ucsc.edu	37	chr2	159481890	159481890	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcaattcggacagcagcaGtatgacatttatgagaggat	14	9	12	6	1	0	2	0	2	0	1	1	6	0	4	0	2	3	4	0	2	3	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	159481890	G	T	159481890	3	4	392	1	0	0	0	0	1	0	0	0	11987	1020	36	4	1126	4	PKP4	2	159481890	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	22914980	159481890	83717483	12	19493											
PASK	23178	hgsc.bcm.edu	37	chr2	242082263	242082263	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcattaccagagagcgctGtcctgctctggcagagtctg	7	10	13	11	1	3	2	1	0	2	2	4	3	4	2	2	2	3	3	2	2	1	1	rs144572631		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	242082263	G	A	242082263	3	1	392	1	0	0	0	0	1	0	0	0	11472	1377	48	2	3854	2	PASK	2	242082263	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	82600373	242082263	1117110	13	19494											
PSMD2	5708	hgsc.bcm.edu	37	chr3	184022099	184022099	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcttttgcaggctaggcTtggcttatgctggctcaaat	7	14	12	8	0	1	0	1	0	0	0	1	0	1	0	0	5	2	7	0	5	3	5	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	184022099	T	G	184022099	3	3	392	1	0	0	0	0	1	0	0	0	12700	1606	56	5	1505	5	PSMD2	3	184022099	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10		184022099	14000331	14	19495											
CLCN2	1181	hgsc.bcm.edu	37	chr3	184064478	184064479	+	Frame_Shift_Del	DEL	CT	CT	-																															ggcccccagagtgcatgcacCtcagtggtctccgtgtcact																								novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		-	184064479	CT	-	184064478	7	5	392	1	0	1	0	1	0	0	0	0	3463	680	24	0	87	0	CLCN2	3	184064478	Frame_Shift_Del	DEL	CT	TCGA-CJ-4895-01A-01D-1373-10	42379	184064478	13957952	15	19496											
BCL6	604	hgsc.bcm.edu;ucsc.edu	37	chr3	187443369	187443369	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggttttcaggttggctGgccggttgaactgggcccca	4	12	16	9	1	1	1	1	1	0	0	1	1	1	1	3	6	1	4	3	6	1	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	187443369	G	T	187443369	3	4	392	1	0	0	0	0	1	0	0	0	1376	1348	47	4	375	4	BCL6	3	187443369	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	3378891	187443369	10579061	16	19497											
NRN1	51299	hgsc.bcm.edu	37	chr6	6002641	6002641	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcgggtagttggccaTgctgtcgcccagcttgagca	5	9	14	13	2	0	1	0	1	0	0	1	1	0	1	3	2	4	5	3	2	1	3	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		C	6002641	T	C	6002641	3	2	392	1	0	0	0	0	1	0	0	0	10658	1464	51	3	291	3	NRN1	6	6002641	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10		6002641	165112426	17	19498											
ATXN1	6310	hgsc.bcm.edu	37	chr6	16328275	16328275	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagacctgggagcgctgggCggggagtagtccagccctgt	7	6	17	11	2	0	1	0	0	0	1	1	3	1	3	3	4	2	2	3	4	1	1	rs146853248	byfrequency;alternate_allele	TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	16328275	C	T	16328275	2	4	392	1	0	0	0	0	0	0	0	1	1209	755	27	1		1	ATXN1	6	16328275	Silent	SNP	C	TCGA-CJ-4895-01A-01D-1373-10	10325634	16328275	154786792	18	19499											
SYNE1	23345	hgsc.bcm.edu	37	chr6	152461141	152461141	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagtgctgagttccagacGctggagctgttccaactcct	7	11	11	12	1	1	2	1	1	0	1	4	3	4	3	3	1	3	5	3	1	1	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	152461141	G	T	152461141	3	4	392	1	0	0	0	0	1	0	0	0	15444	1087	38	4	1019	4	SYNE1	6	152461141	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	136132866	152461141	18653926	19	19500											
RHEB	6009	hgsc.bcm.edu;ucsc.edu	37	chr7	151188050	151188050	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttctatggttggatcgtAggagtccacaaattggcctt	8	15	11	7	1	1	0	0	0	1	0	3	2	2	2	2	4	0	3	2	4	3	7	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	151188050	A	T	151188050	3	4	392	1	0	0	0	0	1	0	0	0	13330	420	15	5	479	5	RHEB	7	151188050	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10		151188050	7950613	20	19501											
PRKAG2	51422	hgsc.bcm.edu	37	chr7	151478258	151478258	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttctggagcgggagaaaAacctgatgcccccgggcgag	9	8	14	10	3	1	2	0	1	1	1	1	5	1	3	3	3	3	0	3	3	2	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	151478258	A	G	151478258	3	3	392	1	0	0	0	0	1	0	0	0	12503	14	1	3	1319	3	PRKAG2	7	151478258	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10	290208	151478258	7660405	21	19502											
MTUS1	57509	hgsc.bcm.edu;ucsc.edu	37	chr8	17612773	17612773	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagcagtatggaaggactGactctttccgatggcatgat	10	11	11	9	1	1	2	0	2	1	0	3	5	3	4	2	3	1	3	2	3	2	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	17612773	G	A	17612773	4	1	392	1	0	0	0	0	0	1	0	0	9965	1299	45	2	3643	2	MTUS1	8	17612773	Nonsense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10		17612773	128751249	22	19503											
PSD3	23362	hgsc.bcm.edu	37	chr8	18725300	18725300	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaccatctgcagacacActcaggatatcctgatgtcc	11	9	7	14	0	2	2	1	1	1	1	4	3	4	3	4	1	2	1	4	1	1	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	18725300	A	T	18725300	3	4	392	1	0	0	0	0	1	0	0	0	12650	156	6	5	1713	5	PSD3	8	18725300	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10	1112527	18725300	127638722	23	19504											
GTF2E2	2961	hgsc.bcm.edu	37	chr8	30436496	30436496	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagccaagtgttcgttaTgagtcttaaagcgtcgcttt	8	14	9	10	3	1	1	0	1	1	0	4	1	2	1	2	0	2	3	2	0	4	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		C	30436496	T	C	30436496	3	2	392	1	0	0	0	0	1	0	0	0	6857	1464	51	3	61	3	GTF2E2	8	30436496	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10	11711196	30436496	115927526	24	19505											
TMEM64	169200	hgsc.bcm.edu	37	chr8	91657421	91657421	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggccgcttcctccctccActacgcgaataaccgcgctc	7	8	7	19	5	1	0	1	0	0	0	5	1	4	0	5	1	2	2	5	1	3	3	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	91657421	A	G	91657421	3	3	392	1	0	0	0	0	1	0	0	0	16192	159	6	3	441	3	TMEM64	8	91657421	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10	61220925	91657421	54706601	25	19506											
GRIN1	2902	hgsc.bcm.edu	37	chr9	140057373	140057373	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atatctacttccggcgccagGtggagctgagcaccatgtac	9	9	11	12	2	1	1	0	1	1	0	2	2	2	2	3	3	4	3	3	3	3	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	140057373	G	A	140057373	3	1	392	1	0	0	0	0	1	0	0	0	6778	1261	44	2	2214	2	GRIN1	9	140057373	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10		140057373	1156058	26	19507											
FBXO18	84893	hgsc.bcm.edu;ucsc.edu	37	chr10	5963284	5963284	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggatgtttgcaagagaGtcaggaaaaagactttggtt	12	13	12	4	0	2	2	1	0	1	2	2	5	2	4	0	3	1	3	0	3	3	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	5963284	G	A	5963284	3	1	392	1	0	0	0	0	1	0	0	0	5731	1029	36	2	2380	2	FBXO18	10	5963284	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10		5963284	129571463	27	19508											
FAM188A	80013	hgsc.bcm.edu	37	chr10	15902225	15902225	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcgtccagcggcagaaaAtggtgtccgagagaccgggg	9	6	16	10	4	0	2	0	0	0	2	2	4	2	2	3	4	2	1	3	4	2	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	15902225	A	G	15902225	3	3	392	1	0	0	0	0	1	0	0	0	5514	101	4	3	1323	3	FAM188A	10	15902225	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10	9938941	15902225	119632522	28	19509											
ZNF33A	7581	hgsc.bcm.edu	37	chr10	38343536	38343539	+	Frame_Shift_Del	DEL	TATT	TATT	-																															tggttatcagtaagataaacTatttaggaaaaaagtctgat																								novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	TATT	TATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		-	38343539	TATT	-	38343536	7	5	392	1	0	1	0	1	0	0	0	0	17853	1522	53	0	498	0	ZNF33A	10	38343536	Frame_Shift_Del	DEL	TATT	TCGA-CJ-4895-01A-01D-1373-10	22441311	38343536	97191211	29	19510											
USP54	159195	hgsc.bcm.edu;ucsc.edu	37	chr10	75258858	75258858	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgggggaggctctggtaGttcaaagtccttcctgtgta	7	12	14	8	1	2	0	1	0	1	0	4	2	4	1	2	4	0	4	2	4	3	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	75258858	G	T	75258858	3	4	392	1	0	0	0	0	1	0	0	0	17084	1020	36	4	474	4	USP54	10	75258858	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	36915322	75258858	60275889	30	19511											
CARS	833	hgsc.bcm.edu	37	chr11	3028150	3028150	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaagctcgggcaggatgTtgtcccgcagggcatcgctg	6	7	14	14	3	0	0	0	0	0	0	3	1	1	1	3	3	1	6	3	3	1	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	3028150	T	G	3028150	3	3	392	1	0	0	0	0	1	0	0	0	2657	1725	60	5	415	5	CARS	11	3028150	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10		3028150	131978366	31	19512											
KDM2A	22992	hgsc.bcm.edu	37	chr11	67017709	67017709	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttccccccggggtatggtGactcggtcatcccctggggc	3	10	14	14	2	1	1	1	1	0	0	4	1	3	1	5	6	0	2	5	6	1	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	67017709	G	A	67017709	2	1	392	1	0	0	0	0	0	0	0	1	8124	1277	45	2		2	KDM2A	11	67017709	Silent	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	63989559	67017709	67988807	32	19513											
ADAMTS8	11095	hgsc.bcm.edu	37	chr11	130278689	130278689	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgaacactttgaactcgcTcctcccccgggctcggcaga	7	8	9	17	4	0	2	0	1	0	1	5	3	2	2	3	2	2	3	3	2	2	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		C	130278689	T	C	130278689	3	2	392	1	0	0	0	0	1	0	0	0	272	1551	54	3	784	3	ADAMTS8	11	130278689	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10	63260980	130278689	4727827	33	19514											
GYS2	2998	hgsc.bcm.edu;ucsc.edu	37	chr12	21713365	21713365	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcagggtttccacgttgAaattatttgtcttggcaggc	7	16	10	8	1	2	1	1	1	1	0	3	1	3	1	1	3	0	3	1	3	2	6	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	21713365	A	T	21713365	3	4	392	1	0	0	0	0	1	0	0	0	6913	246	9	5	1023	5	GYS2	12	21713365	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10		21713365	112138530	34	19515											
LRRK2	120892	hgsc.bcm.edu;ucsc.edu	37	chr12	40692241	40692241	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atataaccagctgtcttttgTacctgagaacctcactgatg	11	13	7	10	0	2	2	1	2	1	1	2	3	2	2	3	0	4	2	3	0	4	5	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		C	40692241	T	C	40692241	3	2	392	1	0	0	0	0	1	0	0	0	9033	1638	57	3	3387	3	LRRK2	12	40692241	Missense_Mutation	SNP	T	TCGA-CJ-4895-01A-01D-1373-10	18978876	40692241	93159654	35	19516											
FAM179B	23116	hgsc.bcm.edu;ucsc.edu	37	chr14	45433129	45433129	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccctgctgacctatcCtagtgaggattttgacttgc	6	14	9	12	0	0	3	0	3	0	0	2	4	2	4	3	1	3	2	3	1	2	5	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	45433129	C	A	45433129	3	1	392	1	0	0	0	0	1	0	0	0	5506	681	24	4	1507	4	FAM179B	14	45433129	Missense_Mutation	SNP	C	TCGA-CJ-4895-01A-01D-1373-10		45433129	61916411	36	19517											
C18orf19	0	hgsc.bcm.edu	37	chr18	13681611	13681611	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaaaacttacttcaaggCtgcataataaaatgttccaa	18	10	5	8	0	1	0	1	0	0	0	2	0	2	0	1	1	4	4	1	1	8	5	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	13681611	C	A	13681611	3	1	392	1	0	0	0	0	1	0	0	0	1896	797	28	4	364	4	C18orf19	18	13681611	Missense_Mutation	SNP	C	TCGA-CJ-4895-01A-01D-1373-10		13681611	64395637	37	19518											
FZR1	51343	hgsc.bcm.edu	37	chr19	3531748	3531748	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcacacacaagggcttcGtgcagatctgggacgcagcc	9	6	14	12	2	1	1	0	0	1	1	2	2	1	2	1	3	2	4	1	3	1	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	3531748	G	A	3531748	3	1	392	1	0	0	0	0	1	0	0	0	6138	1145	40	1	787	1	FZR1	19	3531748	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10		3531748	55597235	38	19519											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9061085	9061085	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgacctgttttgggggtGatggtcatttctgctgatcc	6	15	13	7	0	2	3	1	3	1	0	3	4	3	3	2	3	1	2	2	3	1	3	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	9061085	G	T	9061085	2	4	392	1	0	0	0	0	0	0	0	1	9973	1280	45	4		4	MUC16	19	9061085	Silent	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	5529337	9061085	50067898	39	19520											
ZNF699	374879	hgsc.bcm.edu;ucsc.edu	37	chr19	9406534	9406534	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatgtactgtaaggtgggAggaactaataaaggctttcc	13	11	12	5	0	0	0	0	0	0	0	1	3	1	2	1	4	2	3	1	4	7	6	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		T	9406534	A	T	9406534	3	4	392	1	0	0	0	0	1	0	0	0	18100	304	11	5	386	5	ZNF699	19	9406534	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10	345449	9406534	49722449	40	19521											
RAD23A	5886	hgsc.bcm.edu;ucsc.edu	37	chr19	13058667	13058667	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccactccctctaggtgaaGgtgctaaaggagaagataga	14	8	11	8	0	1	4	0	1	1	3	2	5	2	4	2	3	2	1	2	3	7	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	13058667	G	A	13058667	2	1	392	1	0	0	0	0	0	0	0	1	12984	991	35	2		2	RAD23A	19	13058667	Silent	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	3652133	13058667	46070316	41	19522											
CACNA1A	773	hgsc.bcm.edu;ucsc.edu	37	chr19	13325357	13325357	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtctagcgtcttctgggacaGattgggccaaatcgccatca	9	10	11	11	2	4	1	1	0	3	1	5	2	4	2	2	2	1	0	2	2	2	3	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	13325357	G	A	13325357	2	1	392	1	0	0	0	0	0	0	0	1	2538	933	33	2		2	CACNA1A	19	13325357	Silent	SNP	G	TCGA-CJ-4895-01A-01D-1373-10	266690	13325357	45803626	42	19523											
LILRA5	353514	hgsc.bcm.edu;ucsc.edu	37	chr19	54822747	54822747	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggatatgcctgcgagAgccatagcatctgagcatcc	10	8	11	12	1	1	2	0	1	1	1	2	4	2	3	3	1	6	3	3	1	2	2	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		C	54822747	A	C	54822747	3	2	392	1	0	0	0	0	1	0	0	0	8788	304	11	5	348	5	LILRA5	19	54822747	Missense_Mutation	SNP	A	TCGA-CJ-4895-01A-01D-1373-10	41497390	54822747	4306236	43	19524											
SLC12A5	57468	hgsc.bcm.edu	37	chr20	44686173	44686173	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggagtttctcgaggtcCtcacagagcacctggaccgg	9	8	12	12	2	2	1	1	0	1	1	4	4	3	3	3	4	1	2	3	4	0	1	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		G	44686173	C	G	44686173	3	3	392	1	0	0	0	0	1	0	0	0	14388	681	24	4	3507	4	SLC12A5	20	44686173	Missense_Mutation	SNP	C	TCGA-CJ-4895-01A-01D-1373-10		44686173	18339347	44	19525											
ODZ1	0	hgsc.bcm.edu;ucsc.edu	37	chrX	123517592	123517592	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caactgtttccatatgtgatGattaggcgttgtccatctgc	8	15	9	9	1	1	2	0	2	1	0	3	2	3	2	2	1	2	2	2	1	3	4	novel		TCGA-CJ-4895-01A-01D-1373-10	TCGA-CJ-4895-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	3325f31d-a241-4fbe-9790-fef11ded224e	fbafc349-c909-49da-ba80-e7d1d7c7e2b6		A	123517592	G	A	123517592	3	1	392	1	0	0	0	0	1	0	0	0	10834	1290	45	2	1021	2	ODZ1	23	123517592	Missense_Mutation	SNP	G	TCGA-CJ-4895-01A-01D-1373-10		123517592	31752968	45	19526											
DPH2	1802	broad.mit.edu	37	chr1	44436377	44436377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgggtgacacagcctacgGcaggtgtgaacttggcctta	8	10	13	10	1	1	2	0	2	1	0	1	2	1	2	2	4	3	1	2	4	3	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	44436377	A	A	44436377	3	1	393	1	0	0	0	0	1	0	0	0	4720	1203	42	2	263	2	DPH2	1	44436377	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08		44436377	204814244	1	19527											
KDM5B	10765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202743819	202743819	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttccctgtaactcccagtaCtttgcaatctggtccaagaa	10	12	6	13	0	1	1	0	0	1	1	4	1	4	1	3	1	3	3	3	1	5	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	202743819	C	G	202743819	3	3	393	1	0	0	0	0	1	0	0	0	8134	564	20	4	4407	4	KDM5B	1	202743819	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	158307442	202743819	46506802	2	19528											
PUM2	23369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20511383	20511383	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaagccttgcctttttgAtctcctttctcaggtccatc	6	15	8	12	0	2	2	1	1	2	1	6	3	3	2	4	2	2	0	4	2	1	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	20511383	A	T	20511383	3	4	393	1	0	0	0	0	1	0	0	0	12828	330	12	5	2872	5	PUM2	2	20511383	Missense_Mutation	SNP	A	TCGA-CJ-4897-01A-03D-1429-08		20511383	222687990	3	19529											
PREPL	9581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44556213	44556213	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcaagtcctcagagtcAgttttgtggaaaacagtcat	11	13	9	8	0	4	1	3	0	1	1	5	2	5	2	1	1	2	2	1	1	3	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	44556213	A	C	44556213	2	2	393	1	0	0	0	0	0	0	0	1	12477	175	7	5		5	PREPL	2	44556213	Silent	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	24044830	44556213	198643160	4	19530											
ITPRIPL1	150771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	96992895	96992895	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccttttacaaacactatGtccaaaatgccatccgtgac	13	11	4	13	1	0	1	0	1	0	0	3	1	3	1	4	0	3	0	4	0	5	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	96992895	G	T	96992895	3	4	393	1	0	0	0	0	1	0	0	0	7924	1377	48	4	566	4	ITPRIPL1	2	96992895	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	52436682	96992895	146206478	5	19531											
ALPP	250	broad.mit.edu;hgsc.bcm.edu	37	chr2	233246013	233246013	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctacacggtcctcctataCggaaacggtccaggctatgt	9	9	10	13	3	0	0	0	0	0	0	3	1	3	1	4	4	3	1	4	4	5	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	233246013	C	T	233246013	2	4	393	1	0	0	0	0	0	0	0	1	548	547	19	1		1	ALPP	2	233246013	Silent	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	136253118	233246013	9953360	6	19532											
POLQ	10721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121207746	121207746	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccaggttggtgtccttTgctcctagtttggcattttc	3	17	11	10	0	0	0	0	0	0	0	3	0	2	0	3	3	2	5	3	3	1	6	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	121207746	T	A	121207746	2	1	393	1	0	0	0	0	0	0	0	1	12208	1799	63	5		5	POLQ	3	121207746	Silent	SNP	T	TCGA-CJ-4897-01A-03D-1429-08		121207746	76814684	7	19533											
DNAJB8	165721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128181497	128181497	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcccgttctccacgatgcGcttggtggtgaccttgtggc	3	12	13	13	3	1	1	0	1	1	0	2	2	1	1	3	3	2	2	3	3	0	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	128181497	G	A	128181497	3	1	393	1	0	0	0	0	1	0	0	0	4626	1087	38	1	110	1	DNAJB8	3	128181497	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	6973751	128181497	69840933	8	19534											
LIAS	11019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39472863	39472863	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttcctacagcacttcgTgaggcagatgtagactgctt	8	14	9	10	1	1	3	0	1	1	2	3	3	2	3	1	1	3	4	1	1	2	6	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	39472863	T	C	39472863	2	2	393	1	0	0	0	0	0	0	0	1	8778	1683	59	3		3	LIAS	4	39472863	Silent	SNP	T	TCGA-CJ-4897-01A-03D-1429-08		39472863	151681413	9	19535											
ANK2	287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	114267059	114267059	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctttcttgttcaaggtaCgcgatacgactcaggaacct	9	13	9	10	3	4	0	2	0	2	0	4	3	4	1	1	2	3	2	1	2	4	5	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	114267059	C	T	114267059	3	4	393	1	0	0	0	0	1	0	0	0	621	536	19	1	4455	1	ANK2	4	114267059	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	74794196	114267059	76887217	10	19536											
SLC36A1	206358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150867782	150867782	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagccaagcaatgctccCatcttcatcaattccacctg	11	10	4	16	0	3	0	2	0	1	0	6	0	6	0	5	0	3	2	5	0	3	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	150867782	C	T	150867782	2	4	393	1	0	0	0	0	0	0	0	1	14595	581	21	2		2	SLC36A1	5	150867782	Silent	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		150867782	30047478	11	19537											
FAT2	2196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150948075	150948075	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcttcaggtcattctggtCcaggatgtggaccaccacac	9	9	11	12	0	3	0	2	0	1	0	4	2	4	2	3	5	0	1	3	5	0	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	150948075	C	A	150948075	3	1	393	1	0	0	0	0	1	0	0	0	5690	855	30	4	12723	4	FAT2	5	150948075	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	80293	150948075	29967185	12	19538											
VPS52	6293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33231657	33231657	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaattctccacctccacCtgaaaaggcagagaggaaga	17	5	8	11	0	1	3	0	1	1	2	3	5	2	4	4	2	0	1	4	2	5	1	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	33231657	C	T	33231657	5	4	393	1	0	0	0	0	0	0	1	0	17213	695	24	2	571	2	VPS52	6	33231657	Splice_Site	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		33231657	137883410	13	19539											
APOBEC2	10930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41021140	41021140	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggctgcctcccagaatggGgaggatctggagaacctgga	10	6	16	9	0	1	2	0	0	1	2	2	7	2	5	3	6	2	1	3	6	2	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	41021140	G	A	41021140	2	1	393	1	0	0	0	0	0	0	0	1	788	1219	43	2		2	APOBEC2	6	41021140	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	7789483	41021140	130093927	14	19540											
GPR116	221395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46849806	46849806	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaccctgtcacagtcacGcccttgaagcctggtaaaat	11	10	8	12	1	2	2	2	2	0	0	2	2	2	2	3	1	2	1	3	1	4	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	46849806	G	A	46849806	2	1	393	1	0	0	0	0	0	0	0	1	6633	1074	38	1		1	GPR116	6	46849806	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	5828666	46849806	124265261	15	19541											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu	37	chr6	152599304	152599304	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttctcagctttccagccaGctgctcggcctcgtccttgg	3	12	9	17	2	1	0	1	0	1	0	6	0	3	0	5	2	4	3	5	2	0	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	152599304	G	A	152599304	2	1	393	1	0	0	0	0	0	0	0	1	15444	962	34	2		2	SYNE1	6	152599304	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	105749498	152599304	18515763	16	19542											
ICA1	3382	broad.mit.edu;ucsc.edu	37	chr7	8178473	8178473	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacacataaatcttaccacCttcctcagatttcatgtcta	14	13	2	12	0	4	1	2	0	2	1	5	1	5	1	3	0	2	0	3	0	5	5	rs143861719	byfrequency	TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	8178473	G	G	8178473	3	3	393	1	0	0	0	0	1	0	0	0	7477	681	24	4	406	4	ICA1	7	8178473	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		8178473	150960190	17	19543											
ABCB5	340273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	20768032	20768032	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagggtttcgatttggaGcctatttaattcaagctgga	9	13	12	7	2	1	0	1	0	0	0	2	3	1	2	1	4	2	3	1	4	3	6	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	20768032	G	A	20768032	3	1	393	1	0	0	0	0	1	0	0	0	44	971	34	2	2948	2	ABCB5	7	20768032	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	12589559	20768032	138370631	18	19544											
KBTBD2	25948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	32909021	32909021	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgtcccatccgttgaaAaaagataagttggtggtttc	10	14	9	8	1	1	2	0	1	1	1	4	2	3	2	2	2	0	3	2	2	4	5	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	32909021	A	G	32909021	3	3	393	1	0	0	0	0	1	0	0	0	7993	14	1	3	67	3	KBTBD2	7	32909021	Missense_Mutation	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	12140989	32909021	126229642	19	19545											
MLL5	55904	hgsc.bcm.edu;ucsc.edu	37	chr7	104748211	104748211	+	Frame_Shift_Del	DEL	G	G	-																															gaggaggcttccgaataagtGagtcaaagtgcctgatgcag																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	104748211	G	-	104748211	7	5	393	1	0	1	0	1	0	0	0	0	9624	1291	45	0	3385	0	MLL5	7	104748211	Frame_Shift_Del	DEL	G	TCGA-CJ-4897-01A-03D-1429-08	71839190	104748211	54390452	20	19546											
MLL5	55904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	104752966	104752966	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttacatcaggaccaaatcAagcacttcctggcaccacaa	14	8	6	13	0	2	0	2	0	0	0	3	1	3	1	3	2	2	3	3	2	4	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	104752966	A	G	104752966	3	3	393	1	0	0	0	0	1	0	0	0	9624	130	5	3	4861	3	MLL5	7	104752966	Missense_Mutation	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	4755	104752966	54385697	21	19547											
NOS3	4846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150693640	150693640	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtactacagctccattaagaGgtgacagcttcccggacgcc	10	8	10	13	2	0	2	0	1	0	1	2	3	2	3	3	2	4	3	3	2	3	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	150693640	G	T	150693640	3	4	393	1	0	0	0	0	1	0	0	0	10544	1014	35	4	429	4	NOS3	7	150693640	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	45940674	150693640	8445023	22	19548											
FREM1	158326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	14823201	14823201	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaggattgtaatgttaaagCagatcccatgcaaagtaccg	14	9	11	7	1	0	1	0	0	0	1	1	3	1	3	2	2	3	5	2	2	5	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	14823201	C	G	14823201	3	3	393	1	0	0	0	0	1	0	0	0	6044	710	25	4	4395	4	FREM1	9	14823201	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		14823201	126390230	23	19549											
HEMGN	55363	broad.mit.edu;ucsc.edu	37	chr9	100693156	100693156	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatttcttggtacattttaGgagagaggtcttcaggttca	10	16	10	5	0	4	1	2	0	2	1	4	3	4	2	0	4	1	2	0	4	3	8	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	100693156	T	T	100693156	3	4	393	1	0	0	0	0	1	0	0	0	7050	1000	35	4	941	4	HEMGN	9	100693156	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	85869955	100693156	40520275	24	19550											
FRMPD2	143162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	49392912	49392912	+	Frame_Shift_Del	DEL	T	T	-																															ggcctgaatactctccctcaTtaatgacaaaccctgtaatc																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	49392912	T	-	49392912	7	5	393	1	0	1	0	1	0	0	0	0	6058	1493	52	0	1601	0	FRMPD2	10	49392912	Frame_Shift_Del	DEL	T	TCGA-CJ-4897-01A-03D-1429-08		49392912	86141835	25	19551											
JMJD1C	221037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	64957276	64957276	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatgttgcttcacatgcatCacacatctcccggactcctc	9	11	5	16	1	3	0	2	0	1	0	6	1	4	1	2	1	2	3	2	1	1	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	64957276	C	T	64957276	3	4	393	1	0	0	0	0	1	0	0	0	7950	826	29	2	2139	2	JMJD1C	10	64957276	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	15564364	64957276	70577471	26	19552											
FAM190B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	86132205	86132205	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcagtaaaactgatgaatGgatagatataagtgtctctg	14	13	9	5	0	2	3	1	2	1	1	3	4	2	4	0	1	1	1	0	1	6	5	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	86132205	G	A	86132205	4	1	393	1	0	0	0	0	0	1	0	0	5522	1357	47	2	1399	2	FAM190B	10	86132205	Nonsense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	21174929	86132205	49402542	27	19553											
CRTAC1	55118	broad.mit.edu	37	chr10	99655168	99655168	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagccagttgttgttgaaGccctgcagagagggtgagag	9	8	16	8	1	0	3	0	2	0	2	0	5	0	3	2	1	3	5	2	1	1	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	99655168	A	A	99655168	2	1	393	1	0	0	0	0	0	0	0	1	3896	958	34	2		2	CRTAC1	10	99655168	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	13522963	99655168	35879579	28	19554											
HPS1	3257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	100177390	100177390	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggcctgctgcaccagcagGtcagtggggatgacagacag	9	5	15	12	1	1	2	1	1	0	1	1	3	1	3	3	4	3	3	3	4	0	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	100177390	G	A	100177390	2	1	393	1	0	0	0	0	0	0	0	1	7339	1252	44	2		2	HPS1	10	100177390	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	522222	100177390	35357357	29	19555											
GAL3ST3	89792	broad.mit.edu;hgsc.bcm.edu	37	chr11	65810470	65810470	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcgagctggcggcgcgcgcGttgagcttggcgtagagcac	5	6	18	12	8	0	2	0	1	0	1	0	3	0	2	0	3	3	5	0	3	1	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	65810470	G	A	65810470	2	1	393	1	0	0	0	0	0	0	0	1	6199	1136	40	1		1	GAL3ST3	11	65810470	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08		65810470	69196046	30	19556											
PACS1	55690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65983684	65983684	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggcagaaataaagatctactCcctgtccagccaacccattg	13	8	7	13	0	1	2	0	0	1	2	3	2	3	2	4	1	3	1	4	1	5	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	65983684	C	G	65983684	3	3	393	1	0	0	0	0	1	0	0	0	11372	855	30	4	773	4	PACS1	11	65983684	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	173214	65983684	69022832	31	19557											
SPTBN2	6712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66472813	66472813	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccacctcccagaggaaaCgccagagccgccgtgattcc	10	4	9	18	3	0	3	0	1	0	2	2	4	2	4	7	1	2	0	7	1	1	1	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	66472813	C	T	66472813	3	4	393	1	0	0	0	0	1	0	0	0	15121	536	19	1	5334	1	SPTBN2	11	66472813	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	489129	66472813	68533703	32	19558											
COPS7A	50813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6837091	6837091	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttttcctcattctcgcaGctggctgagagtgactttgc	5	15	9	12	1	2	2	1	2	1	1	4	3	3	2	2	1	2	3	2	1	0	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	6837091	G	C	6837091	5	2	393	1	0	0	0	0	0	0	1	0	3738	985	34	4	168	4	COPS7A	12	6837091	Splice_Site	SNP	G	TCGA-CJ-4897-01A-03D-1429-08		6837091	127014804	33	19559											
ALG10B	144245	broad.mit.edu;hgsc.bcm.edu	37	chr12	38714340	38714340	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctttaaaaacttgagtatGcttttctgtttgacttggcc	8	18	7	8	0	1	2	0	2	1	0	2	2	2	2	2	1	2	3	2	1	4	8	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	38714340	G	T	38714340	3	4	393	1	0	0	0	0	1	0	0	0	512	1319	46	4	757	4	ALG10B	12	38714340	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	31877249	38714340	95137555	34	19560											
CEP290	80184	broad.mit.edu	37	chr12	88483261	88483261	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgacttttcatcagactGtgcctgatattaaaaaaaat	15	12	7	7	1	2	2	2	1	0	1	2	4	2	2	1	0	2	0	1	0	5	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	88483261	C	C	88483261	3	2	393	1	0	0	0	0	1	0	0	0	3253	1386	48	4	3958	4	CEP290	12	88483261	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	49768921	88483261	45368634	35	19561											
NBEA	26960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	35747666	35747668	+	In_Frame_Del	DEL	TCT	TCT	-																															agagagacaggggaaataaaTcttcccatggaagcagtaaa																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	35747668	TCT	-	35747666	7	5	393	1	0	1	0	1	0	0	0	0	10187	1435	50	0	4595	0	NBEA	13	35747666	In_Frame_Del	DEL	TCT	TCGA-CJ-4897-01A-03D-1429-08		35747666	79422212	36	19562											
KIAA1704	55425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	45578485	45578485	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttataaaagcagtagttcagAttcatcagacagcgatgaag	16	10	9	6	1	3	3	3	1	0	2	3	4	3	3	0	0	2	3	0	0	5	5	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	45578485	A	C	45578485	3	2	393	1	0	0	0	0	1	0	0	0	8252	333	12	5	140	5	KIAA1704	13	45578485	Missense_Mutation	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	9830819	45578485	69591393	37	19563											
INTS6	26512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	51948840	51948840	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatgcaaccttcgtggctGatcaggatcaagttctctta	9	14	9	9	1	3	1	2	1	1	0	5	2	3	2	1	2	2	4	1	2	4	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	51948840	G	A	51948840	4	1	393	1	0	0	0	0	0	1	0	0	7782	1299	45	2	861	2	INTS6	13	51948840	Nonsense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	6370355	51948840	63221038	38	19564											
WDR89	112840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64066630	64066630	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaacatttaacaatgtgcaGattagcaaattgttcctcaa	15	12	7	7	0	1	1	1	0	0	1	2	2	2	2	1	1	4	3	1	1	6	5	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	64066630	G	A	64066630	2	1	393	1	0	0	0	0	0	0	0	1	17335	933	33	2		2	WDR89	14	64066630	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08		64066630	43282910	39	19565											
SETD3	84193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	99932086	99932086	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatttcctttggtgacacAgttgctgtagcaccagtgcc	9	12	10	10	0	0	2	0	1	0	1	1	2	1	2	3	1	3	4	3	1	2	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	99932086	A	G	99932086	2	3	393	1	0	0	0	0	0	0	0	1	14134	175	7	3		3	SETD3	14	99932086	Silent	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	35865456	99932086	7417454	40	19566											
AQR	9716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35176806	35176806	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttcataagatcttccttTaaaaatgggttgaggagcat	12	15	8	6	0	3	2	1	1	2	1	4	3	4	3	1	2	1	2	1	2	4	7	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	35176806	T	C	35176806	3	2	393	1	0	0	0	0	1	0	0	0	835	1763	61	3	1550	3	AQR	15	35176806	Missense_Mutation	SNP	T	TCGA-CJ-4897-01A-03D-1429-08		35176806	67354586	41	19567											
TTBK2	146057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43109262	43109262	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgcgttgattgatgcataacGaactgtccctcgaaaacctg	11	11	9	10	3	0	2	0	2	0	0	2	4	1	2	2	0	5	2	2	0	4	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	43109262	G	C	43109262	3	2	393	1	0	0	0	0	1	0	0	0	16676	1058	37	4	3199	4	TTBK2	15	43109262	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	7932456	43109262	59422130	42	19568											
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49320719	49320719	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgctgtgtttgggactGcagtaaccactatcactgtc	7	15	10	9	0	1	0	1	0	0	0	2	1	1	1	1	1	3	5	1	1	2	5	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	49320719	G	T	49320719	4	4	393	1	0	0	0	0	0	1	0	0	14009	1311	46	4	2397	4	SECISBP2L	15	49320719	Nonsense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	6211457	49320719	53210673	43	19569											
NEDD4	4734	broad.mit.edu;ucsc.edu	37	chr15	56140568	56140568	+	Splice_Site	DEL	A	-	-																															gcacactggcagagagacttActggtccagttattgctaca																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	56140568	-	-	56140568	8	5	393	1	0	1	0	1	0	0	1	0	10310	405	14	0	1210	0	NEDD4	15	56140568	Splice_Site	DEL	A	TCGA-CJ-4897-01A-03D-1429-08	6819849	56140568	46390824	44	19570											
HERC1	8925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63948032	63948032	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcctgtgttacaacaaaGtttggggaggtcacaagctt	11	10	13	7	0	1	0	1	0	0	0	1	1	1	1	1	4	3	3	1	4	4	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	63948032	G	A	63948032	2	1	393	1	0	0	0	0	0	0	0	1	7057	1020	36	2		2	HERC1	15	63948032	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	7807464	63948032	38583360	45	19571											
SMAD3	4088	hgsc.bcm.edu;ucsc.edu	37	chr15	67477111	67477111	+	Frame_Shift_Del	DEL	G	G	-																															ggaggggaggtcttcgcagaGtgcctcagtgacagcgctat																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	67477111	G	-	67477111	7	5	393	1	0	1	0	1	0	0	0	0	14761	1020	36	0	1022	0	SMAD3	15	67477111	Frame_Shift_Del	DEL	G	TCGA-CJ-4897-01A-03D-1429-08	3529079	67477111	35054281	46	19572											
NOX5	79400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	69328249	69328249	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttcatctgctccagttcCtgcatccgcaggagtggcca	7	11	10	13	1	2	0	1	0	1	0	5	1	5	1	4	2	2	5	4	2	0	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	69328249	C	T	69328249	2	4	393	1	0	0	0	0	0	0	0	1	10559	668	24	2		2	NOX5	15	69328249	Silent	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	1851138	69328249	33203143	47	19573											
ZKSCAN2	342357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	25266607	25266607	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcttccaggttcctccCgagacaccgccctgggttgg	5	8	14	14	2	0	1	0	0	0	1	3	3	3	2	5	5	0	3	5	5	0	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	25266607	C	A	25266607	3	1	393	1	0	0	0	0	1	0	0	0	17686	652	23	4	2421	4	ZKSCAN2	16	25266607	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		25266607	65088146	48	19574											
ZDHHC1	29800	broad.mit.edu;ucsc.edu	37	chr16	67429119	67429119	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccggggaggcagggcgaGagtgtctggggaagagggtg	8	5	23	5	2	1	2	0	0	1	2	2	6	2	4	1	7	0	1	1	7	1	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	67429119	T	T	67429119	3	4	393	1	0	0	0	0	1	0	0	0	17599	942	33	4	449	4	ZDHHC1	16	67429119	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	42162512	67429119	22925634	49	19575											
ZFHX3	463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	72830806	72830806	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggaaggctcagaaccAccccctggtgccaactcttt	10	8	9	14	0	2	1	1	0	1	1	2	2	2	2	4	3	4	2	4	3	3	1	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	72830806	A	T	72830806	2	4	393	1	0	0	0	0	0	0	0	1	17633	146	6	5		5	ZFHX3	16	72830806	Silent	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	5401687	72830806	17523947	50	19576											
C17orf74	201243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7330515	7330515	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgtcctctgactacctctgCctccctcacggtgttggacg	4	11	10	16	3	3	1	1	1	2	0	5	2	5	2	4	2	2	1	4	2	1	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	7330515	C	T	7330515	3	4	393	1	0	0	0	0	1	0	0	0	1879	739	26	2	1215	2	C17orf74	17	7330515	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		7330515	73864695	51	19577											
C17orf68	0	hgsc.bcm.edu;ucsc.edu	37	chr17	8141944	8141944	+	Frame_Shift_Del	DEL	G	G	-																															ttgaggtcctgtactgagacGaagctgtagagtgaagggaa																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	8141944	G	-	8141944	7	5	393	1	0	1	0	1	0	0	0	0	1876	1049	37	0	3536	0	C17orf68	17	8141944	Frame_Shift_Del	DEL	G	TCGA-CJ-4897-01A-03D-1429-08	811429	8141944	73053266	52	19578											
KRT24	192666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38859817	38859817	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagctgctggctcctcctcgGaagccctgggccgagctgcc	4	7	13	17	2	0	0	0	0	0	0	3	2	2	1	5	3	5	4	5	3	1	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	38859817	G	A	38859817	2	1	393	1	0	0	0	0	0	0	0	1	8461	1165	41	2		2	KRT24	17	38859817	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	30717873	38859817	42335393	53	19579											
DIRAS1	148252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2717570	2717570	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaggatgaaggcgtggcCcttggagatggacaggcgct	9	6	16	10	2	0	2	0	1	0	1	0	5	0	4	2	6	0	1	2	6	1	1	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	2717570	C	A	2717570	3	1	393	1	0	0	0	0	1	0	0	0	4530	623	22	4	365	4	DIRAS1	19	2717570	Missense_Mutation	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		2717570	56411413	54	19580											
PRAM1	84106	broad.mit.edu;ucsc.edu	37	chr19	8564274	8564274	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggctgcaggggcttccttgGaaacggagtggcccccagct	7	7	15	12	1	0	0	0	0	0	0	1	2	1	2	3	6	3	4	3	6	1	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	8564274	C	C	8564274	3	2	393	1	0	0	0	0	1	0	0	0	12425	1174	41	4	1627	4	PRAM1	19	8564274	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	5846704	8564274	50564709	55	19581											
PLEKHG2	64857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39913384	39913384	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cactatagccgtccacccatGacattcccaagttccccgga	10	8	6	17	2	0	1	0	1	0	0	3	2	3	2	6	1	1	1	6	1	3	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	39913384	G	A	39913384	3	1	393	1	0	0	0	0	1	0	0	0	12069	1290	45	2	1756	2	PLEKHG2	19	39913384	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	31349110	39913384	19215599	56	19582											
PPP5C	5536	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46890487	46890487	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgcatcaacggcaaaGtgctggtgaggacggcgcga	10	5	15	11	4	1	1	1	1	0	0	1	3	1	2	1	4	3	3	1	4	2	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	46890487	G	C	46890487	3	2	393	1	0	0	0	0	1	0	0	0	12408	1029	36	4	1072	4	PPP5C	19	46890487	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	6977103	46890487	12238496	57	19583											
NTN5	126147	broad.mit.edu;hgsc.bcm.edu	37	chr19	49173943	49173943	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgccacagcagcctccaggGaccccctgaggcccaggcag	8	3	13	17	0	0	1	0	1	0	0	1	2	1	2	6	3	3	2	6	3	0	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	49173943	G	A	49173943	3	1	393	1	0	0	0	0	1	0	0	0	10703	1174	41	2	1192	2	NTN5	19	49173943	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	2283456	49173943	9955040	58	19584											
ZNF583	147949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56934784	56934784	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaaacgttcagccagagtGcaaacttggcgcaacataag	15	6	11	9	2	1	1	1	0	0	1	1	2	1	2	1	2	5	3	1	2	5	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	56934784	G	A	56934784	3	1	393	1	0	0	0	0	1	0	0	0	18014	1319	46	2	771	2	ZNF583	19	56934784	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	7760841	56934784	2194199	59	19585											
SIRPB2	284759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	1460670	1460670	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcatggggccctcgggctgTagcacctgccagtcattcct	6	9	12	14	1	1	0	1	0	0	0	3	0	2	0	4	3	3	4	4	3	1	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	1460670	T	C	1460670	2	2	393	1	0	0	0	0	0	0	0	1	14336	1625	57	3		3	SIRPB2	20	1460670	Silent	SNP	T	TCGA-CJ-4897-01A-03D-1429-08		1460670	61564850	60	19586											
TOX2	84969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	42574588	42574588	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaggctgtcgcgggcgcGttctctcgctgcctgggctt	3	10	15	13	5	1	1	0	0	1	1	4	1	1	1	1	3	1	4	1	3	0	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	42574588	G	A	42574588	2	1	393	1	0	0	0	0	0	0	0	1	16377	1132	40	1		1	TOX2	20	42574588	Silent	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	41113918	42574588	20450932	61	19587											
ZNF831	128611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	57769082	57769082	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccccaggtgaggcggacaGcatcctggaggaccccagct	8	5	13	15	1	0	1	0	1	0	0	2	4	2	4	5	5	2	2	5	5	0	0	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		A	57769082	G	A	57769082	3	1	393	1	0	0	0	0	1	0	0	0	18184	971	34	2	3010	2	ZNF831	20	57769082	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	15194494	57769082	5256438	62	19588											
KRTAP13-4	284827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	31802847	31802847	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacgacttgctctggatctcTaggctttcggtccagcagct	6	12	11	12	2	2	0	0	0	2	0	5	3	3	1	1	3	3	4	1	3	1	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	31802847	T	G	31802847	3	3	393	1	0	0	0	0	1	0	0	0	8525	1522	53	5	256	5	KRTAP13-4	21	31802847	Missense_Mutation	SNP	T	TCGA-CJ-4897-01A-03D-1429-08		31802847	16327048	63	19589											
TRIOBP	11078	hgsc.bcm.edu;ucsc.edu	37	chr22	38134696	38134696	+	Frame_Shift_Del	DEL	C	C	-																															gaaccaagcagaggccaagaCcccctgactgaccagaagca																								novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		-	38134696	C	-	38134696	7	5	393	1	0	1	0	1	0	0	0	0	16552	506	18	0	5184	0	TRIOBP	22	38134696	Frame_Shift_Del	DEL	C	TCGA-CJ-4897-01A-03D-1429-08		38134696	13169870	64	19590											
RAI2	10742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	17819213	17819213	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttcccatcttaatgacCgtgtggcggctgagctggaa	8	11	11	11	2	2	2	1	2	1	0	3	3	3	3	2	3	1	2	2	3	2	2	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	17819213	C	T	17819213	2	4	393	1	0	0	0	0	0	0	0	1	13011	639	23	1		1	RAI2	23	17819213	Silent	SNP	C	TCGA-CJ-4897-01A-03D-1429-08		17819213	137451347	65	19591											
GSPT2	23708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	51487802	51487802	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacagtaaattggagcatCgagagatatgaagaatgtaa	17	8	10	6	1	0	3	0	1	0	2	1	6	0	4	1	1	1	3	1	1	6	4	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	51487802	C	T	51487802	2	4	393	1	0	0	0	0	0	0	0	1	6827	874	31	1		1	GSPT2	23	51487802	Silent	SNP	C	TCGA-CJ-4897-01A-03D-1429-08	33668589	51487802	103782758	66	19592											
HUWE1	10075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53675215	53675215	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagttgctcatcattacaAactttgagtttgtctattaa	13	16	6	6	0	3	2	2	1	1	1	3	2	3	2	0	0	3	3	0	0	5	6	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	53675215	A	C	53675215	2	2	393	1	0	0	0	0	0	0	0	1	7461	1	1	5		5	HUWE1	23	53675215	Silent	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	2187413	53675215	101595345	67	19593											
GUCY2F	2986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	108708503	108708503	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcccggagctttgggttGttccttaggacccggtaggg	4	12	15	10	2	0	0	0	0	0	0	2	2	2	2	3	5	1	5	3	5	2	6	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		T	108708503	G	T	108708503	3	4	393	1	0	0	0	0	1	0	0	0	6898	1368	48	4	2494	4	GUCY2F	23	108708503	Missense_Mutation	SNP	G	TCGA-CJ-4897-01A-03D-1429-08	55033288	108708503	46562057	68	19594											
XIAP	331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123020288	123020288	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaacaaatcttccaagaaAtccatccatggcagattatg	15	11	5	10	0	2	2	1	0	1	2	5	2	5	2	3	1	1	1	3	1	5	3	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		G	123020288	A	G	123020288	3	3	393	1	0	0	0	0	1	0	0	0	17427	101	4	3	778	3	XIAP	23	123020288	Missense_Mutation	SNP	A	TCGA-CJ-4897-01A-03D-1429-08	14311785	123020288	32250272	69	19595											
RBMX	27316	hgsc.bcm.edu	37	chrX	135961597	135961597	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaaccatgtttttttttTtttgggccggtgagtctgtt	4	21	9	7	1	2	1	1	1	1	0	2	1	2	1	2	2	1	2	2	2	1	8	novel		TCGA-CJ-4897-01A-03D-1429-08	TCGA-CJ-4897-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c1331eec-e2df-4924-918b-7e5134e933c2	d294e13c-9c97-4dcb-a1ac-4b345a27c4de		C	135961597	T	C	135961597	1	2	393	0	1	0	0	0	0	0	0	0	13153	1856	64	3		3	RBMX	23	135961597	RNA	SNP	T	TCGA-CJ-4897-01A-03D-1429-08	12941309	135961597	19308963	70	19596											
PRAMEF1	65121	broad.mit.edu;hgsc.bcm.edu	37	chr1	12854406	12854406	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaatagtattcaagagctGgaaattcgcaacatgtcctg	13	11	9	8	1	1	2	1	1	0	1	3	3	2	3	1	1	2	3	1	1	6	4	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	12854406	G	A	12854406	2	1	394	1	0	0	0	0	0	0	0	1	12427	1335	47	2		2	PRAMEF1	1	12854406	Silent	SNP	G	TCGA-CJ-4899-01A-01D-1462-08		12854406	236396215	1	19597											
POGK	57645	broad.mit.edu;hgsc.bcm.edu	37	chr1	166816822	166816822	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagctccaaggaggcacCtctgcaggtactacaagtaa	12	7	11	11	0	1	0	0	0	1	0	2	1	2	1	2	4	4	6	2	4	5	3	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		G	166816822	C	G	166816822	2	3	394	1	0	0	0	0	0	0	0	1	12185	668	24	4		4	POGK	1	166816822	Silent	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	153962416	166816822	82433799	2	19598											
WNT3A	89780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	228246774	228246774	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggtggtcgcaacccGacttccgcgccatcggtgac	6	8	12	15	5	0	1	0	1	0	0	3	2	1	1	3	3	2	2	3	3	1	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	228246774	G	T	228246774	3	4	394	1	0	0	0	0	1	0	0	0	17388	1058	37	4	681	4	WNT3A	1	228246774	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08	61429952	228246774	21003847	3	19599											
PSME4	23198	broad.mit.edu	37	chr2	54176396	54176396	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgatcttctttgctaaaTtttctcccataaagtcgaat	12	16	4	9	1	3	1	0	1	3	0	5	2	3	1	1	0	1	1	1	0	5	6	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	54176396	A	A	54176396	3	1	394	1	0	0	0	0	1	0	0	0	12711	1490	52	5	5444	5	PSME4	2	54176396	Missense_Mutation	SNP	T	TCGA-CJ-4899-01A-01D-1462-08		54176396	189022977	4	19600											
MAT2A	4144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	85768975	85768975	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgtttggctatgccacTgatgaaactgaggagtgtat	11	14	11	5	0	0	3	0	3	0	0	0	4	0	4	1	2	2	3	1	2	4	4	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		C	85768975	T	C	85768975	2	2	394	1	0	0	0	0	0	0	0	1	9330	1567	55	3		3	MAT2A	2	85768975	Silent	SNP	T	TCGA-CJ-4899-01A-01D-1462-08	31592579	85768975	157430398	5	19601											
FBLN7	129804	broad.mit.edu	37	chr2	112896287	112896287	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctcctgatcctcgcctgcCccgagccgcgggcttcccag	3	8	11	19	4	0	1	0	1	0	0	4	2	3	1	7	1	3	2	7	1	0	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	112896287	A	A	112896287	3	1	394	1	0	0	0	0	1	0	0	0	5701	623	22	4	57	4	FBLN7	2	112896287	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	27127312	112896287	130303086	6	19602											
COL3A1	1281	hgsc.bcm.edu;ucsc.edu	37	chr2	189875056	189875056	+	Frame_Shift_Del	DEL	G	G	-																															ctagtgctgagaagaaacacGtttggtttggagagtccatg																								novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		-	189875056	G	-	189875056	7	5	394	1	0	1	0	1	0	0	0	0	3688	1145	40	0	4170	0	COL3A1	2	189875056	Frame_Shift_Del	DEL	G	TCGA-CJ-4899-01A-01D-1462-08	76978769	189875056	53324317	7	19603											
COL7A1	1294	broad.mit.edu	37	chr3	48609479	48609479	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcacggccagcttcaccCtgcacagaatggcaggtgag	9	6	12	14	1	1	2	1	1	0	1	1	2	1	2	3	3	3	4	3	3	1	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	48609479	T	T	48609479	5	4	394	1	0	0	0	0	0	0	1	0	3704	695	24	2	1923	2	COL7A1	3	48609479	Splice_Site	SNP	C	TCGA-CJ-4899-01A-01D-1462-08		48609479	149412951	8	19604											
CEP135	9662	broad.mit.edu;hgsc.bcm.edu	37	chr4	56825852	56825852	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaagtgcttttcaggattCaagaacttcaacaggaagtc	14	12	8	7	0	3	1	3	0	0	1	4	3	3	3	0	2	3	1	0	2	6	5	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	56825852	C	T	56825852	4	4	394	1	0	0	0	0	0	1	0	0	3247	827	29	2	637	2	CEP135	4	56825852	Nonsense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08		56825852	134328424	9	19605											
DTWD2	285605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118280326	118280326	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgggagaaatggacacaaAcacactttctgaggccggct	12	7	12	10	1	1	2	0	1	1	1	1	4	1	3	1	4	1	2	1	4	2	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		G	118280326	A	G	118280326	2	3	394	1	0	0	0	0	0	0	0	1	4792	41	2	3		3	DTWD2	5	118280326	Silent	SNP	A	TCGA-CJ-4899-01A-01D-1462-08		118280326	62634934	10	19606											
TCOF1	6949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149743741	149743741	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcaagctaagaaaacccGtgtgtcagaccccatcagca	14	6	8	13	1	2	2	2	0	0	2	2	2	2	2	3	0	4	3	3	0	4	1	rs145365677	alternate_allele	TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	149743741	G	T	149743741	3	4	394	1	0	0	0	0	1	0	0	0	15707	1145	40	4	240	4	TCOF1	5	149743741	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08	31463415	149743741	31171519	11	19607											
IGF2R	3482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160465623	160465623	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacattcaactctcttatTcagatggtgatgattgtggt	11	15	9	6	0	3	3	2	2	1	1	4	4	3	3	0	2	2	0	0	2	3	4	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		G	160465623	T	G	160465623	3	3	394	1	0	0	0	0	1	0	0	0	7576	1783	62	5	1749	5	IGF2R	6	160465623	Missense_Mutation	SNP	T	TCGA-CJ-4899-01A-01D-1462-08		160465623	10649444	12	19608											
UBN2	254048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138958746	138958746	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaaataaaagccagtcTgctgaagattatcttaagtc	16	10	7	8	0	2	2	0	1	2	1	3	3	2	2	2	0	3	1	2	0	7	3	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	138958746	T	A	138958746	2	1	394	1	0	0	0	0	0	0	0	1	16892	1567	55	5		5	UBN2	7	138958746	Silent	SNP	T	TCGA-CJ-4899-01A-01D-1462-08		138958746	20179917	13	19609											
CSMD1	64478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	2818703	2818703	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtattccaaagtgtggcGtaccagggtctgggcaggtg	7	11	15	8	1	2	0	0	0	2	0	3	0	3	0	2	4	1	3	2	4	3	3	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	2818703	G	T	2818703	3	4	394	1	0	0	0	0	1	0	0	0	3944	1145	40	4	1068	4	CSMD1	8	2818703	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08		2818703	143545319	14	19610											
C10orf18	0	broad.mit.edu;ucsc.edu	37	chr10	5789077	5789077	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcaggatgccacacatcAggtgactctttagaactaag	12	10	9	10	1	3	2	2	1	1	1	4	3	3	3	1	2	2	0	1	2	3	3	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		C	5789077	C	C	5789077	2	2	394	1	0	0	0	0	0	0	0	1	1596	175	7	5		5	C10orf18	10	5789077	Silent	SNP	A	TCGA-CJ-4899-01A-01D-1462-08		5789077	129745670	15	19611											
BBOX1	8424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	27147298	27147298	+	Missense_Mutation	SNP	G	G	T																															aaagagttcagcctttttatGctgctctgaaggagtttgtt																								novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	27147298	G	T	27147298	3	4	394	1	0	0	0	0	1	0	0	0	1334	1319	46	4	956	4	BBOX1	11	27147298	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08		27147298	107859218	16	19612	265	2									
BBOX1	8424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	27147299	27147299	+	Missense_Mutation	SNP	C	C	A																															aagagttcagcctttttatgCtgctctgaaggagtttgttg																								novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	27147299	C	A	27147299	3	1	394	1	0	0	0	0	1	0	0	0	1334	797	28	4	957	4	BBOX1	11	27147299	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	1	27147299	107859217	17	19613	265	2									
TSGA10IP	254187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65714961	65714961	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctgcaaagcctgggtgCtgaggaggccgagaggggtc	8	5	18	10	1	0	2	0	1	0	1	1	4	0	3	3	5	4	3	3	5	1	0	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	65714961	C	T	65714961	3	4	394	1	0	0	0	0	1	0	0	0	16617	797	28	2	675	2	TSGA10IP	11	65714961	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	38567662	65714961	69291555	18	19614											
UBE4A	9354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118263549	118263549	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacactgatgtgtgaccctGtggtgctgccatcttccaga	7	11	11	12	0	1	3	0	2	1	1	2	3	2	3	3	1	2	2	3	1	0	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		C	118263549	G	C	118263549	3	2	394	1	0	0	0	0	1	0	0	0	16881	1377	48	4	3104	4	UBE4A	11	118263549	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08	52548588	118263549	16742967	19	19615											
LTBP2	4053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74972836	74972836	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcacaggaaggagccctcCacgttctcacagagcgcggc	10	4	13	14	3	1	1	1	0	1	1	3	3	2	3	2	4	2	2	2	4	1	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	74972836	C	T	74972836	2	4	394	1	0	0	0	0	0	0	0	1	9074	581	21	2		2	LTBP2	14	74972836	Silent	SNP	C	TCGA-CJ-4899-01A-01D-1462-08		74972836	32376704	20	19616											
USP50	373509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50835798	50835798	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattaactctacttaccttTtttagagcttcatgaagttc	10	18	4	9	0	3	2	2	1	1	1	4	2	3	2	1	0	4	2	1	0	5	8	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	50835798	T	A	50835798	3	1	394	1	0	0	0	0	1	0	0	0	17081	1838	64	5	583	5	USP50	15	50835798	Missense_Mutation	SNP	T	TCGA-CJ-4899-01A-01D-1462-08		50835798	51695594	21	19617											
TRPM7	54822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50891464	50891464	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaagtaatacaagagccatAatcactacaatgtagaacat	19	9	5	8	0	1	2	1	0	0	2	1	2	1	2	1	0	4	2	1	0	9	6	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		C	50891464	A	C	50891464	3	2	394	1	0	0	0	0	1	0	0	0	16590	358	13	5	2651	5	TRPM7	15	50891464	Missense_Mutation	SNP	A	TCGA-CJ-4899-01A-01D-1462-08	55666	50891464	51639928	22	19618											
RNF40	9810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30777596	30777596	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtgcggaccaatgagcGcctcaaggtgggctgctgta	7	8	16	10	2	1	1	1	1	0	0	1	2	1	2	2	4	3	4	2	4	3	1	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	30777596	G	T	30777596	3	4	394	1	0	0	0	0	1	0	0	0	13495	1087	38	4	1136	4	RNF40	16	30777596	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08		30777596	59577157	23	19619											
SLC47A1	55244	broad.mit.edu;ucsc.edu	37	chr17	19470436	19470436	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggtgttctgagggggAgtggaaatcagaaggttgga	9	10	20	2	0	2	2	1	1	1	1	2	5	2	5	0	7	0	2	0	7	2	2	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		G	19470436	G	G	19470436	3	3	394	1	0	0	0	0	1	0	0	0	14649	304	11	3	1258	3	SLC47A1	17	19470436	Missense_Mutation	SNP	A	TCGA-CJ-4899-01A-01D-1462-08		19470436	61724774	24	19620											
SPAG5	10615	hgsc.bcm.edu;ucsc.edu	37	chr17	26919284	26919284	+	Frame_Shift_Del	DEL	T	T	-																															ccaagaatcctaccaacatcTtctactgctgggcctggagc																								novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		-	26919284	T	-	26919284	7	5	394	1	0	1	0	1	0	0	0	0	14983	1606	56	0	2691	0	SPAG5	17	26919284	Frame_Shift_Del	DEL	T	TCGA-CJ-4899-01A-01D-1462-08	7448848	26919284	54275926	25	19621											
OR4D1	26689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56232813	56232813	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccagggctgcatggcccAgatcttcttcttccaccttt	6	13	7	15	0	3	1	0	0	3	1	4	1	4	1	4	2	2	2	4	2	1	5	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		G	56232813	A	G	56232813	3	3	394	1	0	0	0	0	1	0	0	0	11053	188	7	3	301	3	OR4D1	17	56232813	Missense_Mutation	SNP	A	TCGA-CJ-4899-01A-01D-1462-08	29313529	56232813	24962397	26	19622											
JMJD6	23210	broad.mit.edu;hgsc.bcm.edu	37	chr17	74721938	74721938	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccctttccacgttatcCtgagggaattaaaaaagacc	12	11	7	11	1	1	2	0	1	1	1	3	3	3	3	4	1	1	1	4	1	5	3	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	74721938	C	T	74721938	5	4	394	1	0	0	0	0	0	0	1	0	7953	695	24	2	1143	2	JMJD6	17	74721938	Splice_Site	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	18489125	74721938	6473272	27	19623											
ESCO1	114799	hgsc.bcm.edu;ucsc.edu	37	chr18	19154328	19154329	+	Frame_Shift_Ins	INS	-	-	T																															tactctgagtactgctacacINStgctcttttttagttggtgg																								novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	19154329	-	T	19154328	7	5	394	1	0	1	1	0	0	0	0	0	5248	564	20	0	2081	0	ESCO1	18	19154328	Frame_Shift_Ins	INS	-	TCGA-CJ-4899-01A-01D-1462-08		19154328	58922920	28	19624											
CDH2	1000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	25583110	25583110	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggatcgtcagcatcaattgCtgttacggtcatcacatatg	10	12	10	9	2	4	0	4	0	0	0	5	1	4	1	0	2	3	3	0	2	3	3	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	25583110	C	T	25583110	3	4	394	1	0	0	0	0	1	0	0	0	3105	797	28	2	1889	2	CDH2	18	25583110	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	6428782	25583110	52494138	29	19625											
PAF1	54623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39880362	39880362	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtcaggaggtcatgtttGtgctgtttctccaaggaagt	8	14	12	7	0	4	0	3	0	1	0	5	2	4	2	1	3	1	3	1	3	2	2	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		C	39880362	G	C	39880362	3	2	394	1	0	0	0	0	1	0	0	0	11383	1368	48	4	1429	4	PAF1	19	39880362	Missense_Mutation	SNP	G	TCGA-CJ-4899-01A-01D-1462-08		39880362	19248621	30	19626											
AKT1S1	84335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50374936	50374936	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgggggcactgagcaggtGggggggccggcgggggtctc	3	5	24	9	2	1	1	0	1	1	0	2	1	1	1	1	9	1	3	1	9	0	0	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	50374936	G	A	50374936	2	1	394	1	0	0	0	0	0	0	0	1	479	1335	47	2		2	AKT1S1	19	50374936	Silent	SNP	G	TCGA-CJ-4899-01A-01D-1462-08	10494574	50374936	8754047	31	19627											
C20orf186	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31690805	31690805	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaacctcagaacctcaaaCgtgggcaactttgatgtaag	13	9	8	11	1	3	2	3	1	0	1	3	2	3	2	2	1	4	2	2	1	5	2	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		A	31690805	C	A	31690805	3	1	394	1	0	0	0	0	1	0	0	0	2098	535	19	4	1715	4	C20orf186	20	31690805	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08		31690805	31334715	32	19628											
CHD6	84181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	40033900	40033900	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctggaaaccccaccagcCcggtgagggggatgcctggc	8	4	15	14	1	0	1	0	1	0	0	0	3	0	3	5	5	4	1	5	5	1	0	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	40033900	C	T	40033900	3	4	394	1	0	0	0	0	1	0	0	0	3329	623	22	2	670	2	CHD6	20	40033900	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08	8343095	40033900	22991620	33	19629											
NHP2L1	4809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	42071041	42071041	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgatgacaggcctggagaCcccacaggctctccccaggg	8	4	14	15	1	1	2	0	1	1	1	2	4	1	2	5	5	0	1	5	5	0	0	novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		T	42071041	C	T	42071041	3	4	394	1	0	0	0	0	1	0	0	0	10410	507	18	2	107	2	NHP2L1	22	42071041	Missense_Mutation	SNP	C	TCGA-CJ-4899-01A-01D-1462-08		42071041	9233525	34	19630											
IDS	3423	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	148577954	148577954	+	Frame_Shift_Del	DEL	T	T	-																															ttcccgttgcctgatgtccaTccaggggttgtaggccacag																								novel		TCGA-CJ-4899-01A-01D-1462-08	TCGA-CJ-4899-11A-01D-1462-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	943ca428-39f6-4ad2-8ca5-220628a6b5bb	2fa78925-1a3a-488c-944f-9ecab35bcd5b		-	148577954	T	-	148577954	7	5	394	1	0	1	0	1	0	0	0	0	7503	1435	50	0	896	0	IDS	23	148577954	Frame_Shift_Del	DEL	T	TCGA-CJ-4899-01A-01D-1462-08		148577954	6692606	35	19631											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16203144	16203144	+	Frame_Shift_Del	DEL	C	C	-																															tcctccagtagtgattcaatCagcagcagcagtagtaccag																								novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		-	16203144	C	-	16203144	7	5	395	1	0	1	0	1	0	0	0	0	15039	816	29	0	862	0	SPEN	1	16203144	Frame_Shift_Del	DEL	C	TCGA-CJ-4901-01A-01D-1429-08		16203144	233047477	1	19632											
EPHB2	2048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	23191471	23191471	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaggccgagaggacctcGtctacaacatcatctgcaag	11	6	11	13	3	3	1	1	0	2	1	4	4	3	3	3	3	3	1	3	3	3	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	23191471	G	A	23191471	3	1	395	1	0	0	0	0	1	0	0	0	5175	1145	40	1	1087	1	EPHB2	1	23191471	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	6988327	23191471	226059150	2	19633											
WDR63	126820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85564293	85564293	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcttcaatagaaaatggAcataagaaagtaattacaga	19	10	7	5	0	2	3	1	0	1	3	3	4	2	4	0	1	1	1	0	1	8	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	85564293	A	G	85564293	2	3	395	1	0	0	0	0	0	0	0	1	17313	262	10	3		3	WDR63	1	85564293	Silent	SNP	A	TCGA-CJ-4901-01A-01D-1429-08	62372822	85564293	163686328	3	19634											
OPTC	26254	broad.mit.edu;hgsc.bcm.edu	37	chr1	203472874	203472874	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcccttccactcctcccagGtaagaaccctccaaggacca	11	6	6	18	0	0	1	0	0	0	1	4	2	4	2	7	2	2	1	7	2	3	2	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		C	203472874	G	C	203472874	5	2	395	1	0	0	0	0	0	0	1	0	10888	1275	44	4		4	OPTC	1	203472874	Splice_Site	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	117908581	203472874	45777747	4	19635											
NRXN1	9378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	50779973	50779973	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtacggaaatcaaatgatAtggagccagttttctttgca	12	14	9	6	1	2	1	1	1	1	0	2	3	2	3	1	2	3	3	1	2	4	6	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	50779973	A	T	50779973	3	4	395	1	0	0	0	0	1	0	0	0	10665	449	16	5	3335	5	NRXN1	2	50779973	Missense_Mutation	SNP	A	TCGA-CJ-4901-01A-01D-1429-08		50779973	192419400	5	19636											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179436709	179436709	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tattgaacaggagtttgaagGctggtggaatgacaagatct	13	11	13	4	0	1	4	0	3	1	1	1	6	1	6	0	4	1	2	0	4	5	3	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	179436709	G	A	179436709	3	1	395	1	0	0	0	0	1	0	0	0	16734	1203	42	2	33977	2	TTN	2	179436709	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	128656736	179436709	63762664	6	19637											
CADM2	253559	broad.mit.edu;hgsc.bcm.edu	37	chr3	85961624	85961624	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgatggagtggcggtcAtctgcagagtagatcacgaa	11	9	15	6	2	3	4	2	2	1	2	3	6	3	5	0	3	1	2	0	3	2	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	85961624	A	T	85961624	3	4	395	1	0	0	0	0	1	0	0	0	2567	217	8	5	693	5	CADM2	3	85961624	Missense_Mutation	SNP	A	TCGA-CJ-4901-01A-01D-1429-08		85961624	112060806	7	19638											
ATP6V1A	523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113499964	113499964	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagtgggccacagcgaattGgttggagagattattcgatt	11	11	14	5	2	0	2	0	0	0	2	1	6	0	3	1	3	1	1	1	3	2	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	113499964	G	T	113499964	3	4	395	1	0	0	0	0	1	0	0	0	1177	1339	47	4	156	4	ATP6V1A	3	113499964	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	27538340	113499964	84522466	8	19639											
TRPC1	7220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142509938	142509938	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatctcgtaatcaactcAgttttgtcatgaattctctt	12	16	5	8	1	5	2	3	1	2	1	7	2	5	2	0	0	1	2	0	0	5	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	142509938	A	T	142509938	3	4	395	1	0	0	0	0	1	0	0	0	16577	188	7	5	1299	5	TRPC1	3	142509938	Missense_Mutation	SNP	A	TCGA-CJ-4901-01A-01D-1429-08	29009974	142509938	55512492	9	19640											
SERPINI2	5276	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167184993	167184993	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcttgaaggtagagggCattggcaagattaaatgtaa	13	12	11	5	0	1	3	0	1	1	2	2	3	2	3	1	3	0	4	1	3	6	6	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	167184993	C	A	167184993	3	1	395	1	0	0	0	0	1	0	0	0	14121	710	25	4	917	4	SERPINI2	3	167184993	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	24675055	167184993	30837437	10	19641											
PSMD2	5708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184019697	184019697	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacgcagagaaggtccagcGggagcctctgctcactctgg	8	7	14	12	2	3	2	1	1	2	1	4	4	4	3	2	3	3	2	2	3	1	0	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	184019697	G	A	184019697	3	1	395	1	0	0	0	0	1	0	0	0	12700	1116	39	1	560	1	PSMD2	3	184019697	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	16834704	184019697	14002733	11	19642											
C4orf40	401137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71024217	71024217	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggattctaacttctcctgGattcccctatgtctatcaca	8	15	5	13	0	4	0	1	0	3	0	6	2	5	2	3	2	1	0	3	2	3	6	rs149016682	by1000genomes;alternate_allele	TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	71024217	G	T	71024217	3	4	395	1	0	0	0	0	1	0	0	0	2269	1174	41	4	258	4	C4orf40	4	71024217	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08		71024217	120130059	12	19643											
C4orf36	132989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87808950	87808950	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctcaaaccggctggcCtttccctcaggagaagctga	8	10	10	13	1	3	2	2	1	2	1	5	3	4	2	3	3	2	2	3	3	2	2	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	87808950	C	G	87808950	3	3	395	1	0	0	0	0	1	0	0	0	2266	681	24	4	40	4	C4orf36	4	87808950	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	16784733	87808950	103345326	13	19644											
ADH1B	125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	100232771	100232771	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggtacccctacgatgaCgcttgtgccacatgcctcat	9	9	10	13	2	1	1	1	1	0	0	1	3	1	2	4	2	4	2	4	2	2	3	rs140683864		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	100232771	C	T	100232771	3	4	395	1	0	0	0	0	1	0	0	0	308	536	19	1	268	1	ADH1B	4	100232771	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	12423821	100232771	90921505	14	19645											
C4orf21	55345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	113540750	113540750	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcagaatggagaaaaaaTagtagggccagttttcttag	14	10	12	5	0	1	2	0	0	1	2	1	3	1	2	1	2	1	4	1	2	7	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		C	113540750	T	C	113540750	3	2	395	1	0	0	0	0	1	0	0	0	2254	1406	49	3	5958	3	C4orf21	4	113540750	Missense_Mutation	SNP	T	TCGA-CJ-4901-01A-01D-1429-08	13307979	113540750	77613526	15	19646											
RAPGEF2	9693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	160275160	160275160	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtccccatgcctgcccAcatagctgtggcatcaagta	8	9	9	15	0	1	0	1	0	0	0	2	0	2	0	5	1	3	3	5	1	3	2	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	160275160	A	T	160275160	3	4	395	1	0	0	0	0	1	0	0	0	13046	159	6	5	4216	5	RAPGEF2	4	160275160	Missense_Mutation	SNP	A	TCGA-CJ-4901-01A-01D-1429-08	46734410	160275160	30879116	16	19647											
ESM1	11082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	54277917	54277917	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgtccccctgtcacagatgCctgactggcagttgcaggtc	6	9	11	15	1	1	2	1	1	0	1	3	2	2	2	4	2	2	3	4	2	0	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	54277917	C	T	54277917	3	4	395	1	0	0	0	0	1	0	0	0	5252	739	26	2	203	2	ESM1	5	54277917	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		54277917	126637343	17	19648											
PCDHB16	57717	broad.mit.edu	37	chr5	140564017	140564017	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcgaggtgcgcaccgccaGgctgctgagcgagcgcgacg	6	4	18	13	7	0	1	0	1	0	0	0	4	0	1	2	3	4	3	2	3	0	0	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	140564017	T	T	140564017	3	4	395	1	0	0	0	0	1	0	0	0	11541	1000	35	4	1885	4	PCDHB16	5	140564017	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	86286100	140564017	40351243	18	19649											
DOCK4	9732	broad.mit.edu;hgsc.bcm.edu	37	chr7	111517174	111517174	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttgattattattcccaagGaaaatgcccttggaaaaggg	13	11	10	7	0	0	1	0	1	0	0	1	3	1	3	2	3	1	1	2	3	7	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	111517174	G	T	111517174	3	4	395	1	0	0	0	0	1	0	0	0	4689	1165	41	4	4388	4	DOCK4	7	111517174	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08		111517174	47621489	19	19650											
ZNF800	168850	broad.mit.edu;hgsc.bcm.edu	37	chr7	127014965	127014965	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgaaatatattgaaatactGcattttgattagtttctatg	13	18	6	4	1	1	2	0	2	1	0	2	3	1	2	0	0	2	2	0	0	7	9	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	127014965	G	T	127014965	3	4	395	1	0	0	0	0	1	0	0	0	18168	1319	46	4	1577	4	ZNF800	7	127014965	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	15497791	127014965	32123698	20	19651											
CTSB	1508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	11710851	11710851	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcctacctgccacgtggtaTtccgtttgttgacatagttg	7	14	10	10	2	0	1	0	1	0	0	1	1	1	1	4	1	3	4	4	1	3	7	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	11710851	T	G	11710851	3	3	395	1	0	0	0	0	1	0	0	0	4030	1493	52	5	942	5	CTSB	8	11710851	Missense_Mutation	SNP	T	TCGA-CJ-4901-01A-01D-1429-08		11710851	134653171	21	19652											
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	113301593	113301593	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtccaattttccaagtggtaCctgaacaatgaggttgtgat	11	13	10	7	0	0	3	0	3	0	0	2	3	2	3	3	2	2	2	3	2	5	4	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	113301593	C	A	113301593	5	1	395	1	0	0	0	0	0	0	1	0	3946	521	18	4	2034	4	CSMD3	8	113301593	Splice_Site	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	101590742	113301593	33062429	22	19653											
FAM83A	84985	broad.mit.edu;hgsc.bcm.edu	37	chr8	124204198	124204198	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagtccagatctctgaCagtcacctcaaggtaggggc	12	7	11	11	0	3	2	2	1	1	1	5	3	4	2	2	3	0	1	2	3	3	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	124204198	C	A	124204198	3	1	395	1	0	0	0	0	1	0	0	0	5633	477	17	4	642	4	FAM83A	8	124204198	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	10902605	124204198	22159824	23	19654											
TLN1	7094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35698342	35698342	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagtcgtttcattgcctccGagtcctggtcagccttgacc	6	12	10	13	2	2	1	2	1	0	0	5	3	4	1	5	1	2	1	5	1	1	3	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	35698342	G	A	35698342	3	1	395	1	0	0	0	0	1	0	0	0	15946	1059	37	1	288	1	TLN1	9	35698342	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08		35698342	105515089	24	19655											
HNRNPK	3190	broad.mit.edu;hgsc.bcm.edu	37	chr9	86586212	86586212	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcataagccatctgccaTtctgatgggctccatgtatc	8	13	9	11	0	3	1	1	1	2	0	5	1	4	1	3	2	2	3	3	2	2	4	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	86586212	T	A	86586212	3	1	395	1	0	0	0	0	1	0	0	0	7269	1490	52	5	381	5	HNRNPK	9	86586212	Missense_Mutation	SNP	T	TCGA-CJ-4901-01A-01D-1429-08	50887870	86586212	54627219	25	19656											
C9orf5	0	hgsc.bcm.edu;ucsc.edu	37	chr9	111800395	111800395	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagggaagcatcaaacaccCctctggaatgcccaaagata	15	6	9	11	0	2	2	1	1	1	1	2	4	2	4	3	2	3	1	3	2	5	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	111800395	C	A	111800395	3	1	395	1	0	0	0	0	1	0	0	0	2486	623	22	4	529	4	C9orf5	9	111800395	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	25214183	111800395	29413036	26	19657											
COL27A1	85301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116999978	116999978	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggatccattgggtttcccGggccccctggacccgaggta	7	8	13	13	2	0	0	0	0	0	0	2	3	2	2	5	5	0	2	5	5	2	3	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	116999978	G	A	116999978	3	1	395	1	0	0	0	0	1	0	0	0	3685	1116	39	1	2784	1	COL27A1	9	116999978	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	5199583	116999978	24213453	27	19658											
ECHDC3	79746	hgsc.bcm.edu;ucsc.edu	37	chr10	11805257	11805257	+	Frame_Shift_Del	DEL	T	T	-																															gctctttactggtgagcccaTttctgcccaggaggccctgc																								novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		-	11805257	T	-	11805257	7	5	395	1	0	1	0	1	0	0	0	0	4895	1493	52	0	644	0	ECHDC3	10	11805257	Frame_Shift_Del	DEL	T	TCGA-CJ-4901-01A-01D-1429-08		11805257	123729490	28	19659											
MYO3A	53904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26417412	26417412	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagcagctgtgcattaacaTtgcaaatgaacaaattcagt	15	10	8	8	1	1	1	1	1	0	0	1	2	1	1	0	0	6	4	0	0	4	3	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		C	26417412	T	C	26417412	3	2	395	1	0	0	0	0	1	0	0	0	10076	1493	52	3	2277	3	MYO3A	10	26417412	Missense_Mutation	SNP	T	TCGA-CJ-4901-01A-01D-1429-08	14612155	26417412	109117335	29	19660											
GDF10	2662	broad.mit.edu	37	chr10	48429220	48429220	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcagaatccagctgggcGgagaggagcagctcgccatc	9	6	13	13	2	1	2	1	0	0	2	5	4	3	3	3	3	3	3	3	3	1	0	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	48429220	A	A	48429220	2	1	395	1	0	0	0	0	0	0	0	1	6311	1103	39	1		1	GDF10	10	48429220	Silent	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	22011808	48429220	87105527	30	19661											
CRTAC1	55118	hgsc.bcm.edu;ucsc.edu	37	chr10	99771036	99771037	+	Frame_Shift_Del	DEL	GA	GA	-																															acatgggttcagcccgctggGacccctcagtgatgggcaga																								novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		-	99771037	GA	-	99771036	7	5	395	1	0	1	0	1	0	0	0	0	3896	1174	41	0	1958	0	CRTAC1	10	99771036	Frame_Shift_Del	DEL	GA	TCGA-CJ-4901-01A-01D-1429-08	51341816	99771036	35763711	31	19662											
OR51B4	79339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5323105	5323105	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	acaaagaaggacatagagatCcggtagtgaactgcctctga	15	7	11	8	1	1	4	0	2	1	2	2	6	2	5	2	2	2	1	2	2	5	2	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	5323105	C	G	5323105	2	3	395	1	0	0	0	0	0	0	0	1	11090	842	30	4		4	OR51B4	11	5323105	Silent	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		5323105	129683411	32	19663											
CTR9	9646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	10785191	10785191	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaattttcattctttaggAagattatgaccaagcttttc	11	19	5	6	0	2	2	1	1	1	1	3	3	2	3	1	1	1	1	1	1	5	10	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	10785191	A	G	10785191	3	3	395	1	0	0	0	0	1	0	0	0	4024	260	9	3	993	3	CTR9	11	10785191	Missense_Mutation	SNP	A	TCGA-CJ-4901-01A-01D-1429-08	5462086	10785191	124221325	33	19664											
NPAS4	266743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66189623	66189623	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccccacggggcttctcTcagctcaagagcttgaggac	7	7	13	14	2	3	2	2	1	1	1	4	3	3	3	2	4	2	3	2	4	1	2	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	66189623	T	A	66189623	3	1	395	1	0	0	0	0	1	0	0	0	10565	1551	54	5	214	5	NPAS4	11	66189623	Missense_Mutation	SNP	T	TCGA-CJ-4901-01A-01D-1429-08	55404432	66189623	68816893	34	19665											
P2RY2	5029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	72945224	72945224	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggcagcagacctgggccCctggaatgacaccatcaatg	11	6	12	12	0	1	2	1	1	0	1	1	4	1	3	4	3	1	2	4	3	2	0	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	72945224	C	A	72945224	3	1	395	1	0	0	0	0	1	0	0	0	11352	623	22	4	22	4	P2RY2	11	72945224	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	6755601	72945224	62061292	35	19666											
ETNK1	55500	hgsc.bcm.edu	37	chr12	22778110	22778110	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccggcatgctctgcggcCgcccgcggtccagctccgac	3	5	13	20	6	1	0	0	0	1	0	3	1	3	0	6	3	3	3	6	3	0	0	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	22778110	C	A	22778110	3	1	395	1	0	0	0	0	1	0	0	0	5273	652	23	4	15	4	ETNK1	12	22778110	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		22778110	111073785	36	19667											
TSPAN19	144448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	85421761	85421761	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtagaagatcccattccaatCaaaatttgagaaataggtac	17	10	7	7	0	1	3	1	1	0	3	3	4	3	3	2	1	1	2	2	1	8	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	85421761	C	G	85421761	3	3	395	1	0	0	0	0	1	0	0	0	16642	825	29	4	590	4	TSPAN19	12	85421761	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	62643651	85421761	48430134	37	19668											
ANKS1B	56899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100206021	100206021	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcagccaggtgaataGgaaaataccctttgttgtct	11	11	10	9	0	1	1	0	1	1	0	2	2	2	2	3	3	2	2	3	3	5	4	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		C	100206021	G	C	100206021	3	2	395	1	0	0	0	0	1	0	0	0	689	1000	35	4	3846	4	ANKS1B	12	100206021	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	14784260	100206021	33645874	38	19669											
ABCC4	10257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	95862961	95862961	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctgatcaaacttgttCacatcattggacagcagatt	12	13	6	10	0	3	2	3	1	0	1	3	3	3	3	1	1	3	2	1	1	2	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	95862961	C	A	95862961	2	1	395	1	0	0	0	0	0	0	0	1	55	813	29	4		4	ABCC4	13	95862961	Silent	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		95862961	19306917	39	19670											
OR4K14	122740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	20483200	20483200	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagtgcaggcagggatcAgaaattacagtgaccaaaat	16	6	13	6	0	1	2	1	1	0	1	1	5	1	4	1	3	2	2	1	3	4	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	20483200	A	T	20483200	2	4	395	1	0	0	0	0	0	0	0	1	11069	175	7	5		5	OR4K14	14	20483200	Silent	SNP	A	TCGA-CJ-4901-01A-01D-1429-08		20483200	86866340	40	19671											
ACOT2	10965	hgsc.bcm.edu;ucsc.edu	37	chr14	74036108	74036108	+	Frame_Shift_Del	DEL	A	A	-																															acagctgaggcaggttggtcAgatcattagggttcctgctc																								novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		-	74036108	A	-	74036108	7	5	395	1	0	1	0	1	0	0	0	0	152	188	7	0	166	0	ACOT2	14	74036108	Frame_Shift_Del	DEL	A	TCGA-CJ-4901-01A-01D-1429-08	53552908	74036108	33313432	41	19672											
RGS11	8786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	321411	321411	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcacgcctcaaggcagaCggaggacttcactcgggtcc	9	6	11	15	3	3	1	3	0	0	1	5	3	4	3	2	4	0	1	2	4	1	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	321411	C	T	321411	3	4	395	1	0	0	0	0	1	0	0	0	13296	536	19	1	695	1	RGS11	16	321411	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		321411	90033342	42	19673											
SYT17	51760	hgsc.bcm.edu;ucsc.edu	37	chr16	19195340	19195340	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggcccagaggaggaccctGctcctgaccgtggtggattt	7	8	15	11	1	0	2	0	1	0	1	1	6	1	5	4	5	1	1	4	5	0	1	rs75241864	bycluster;byfrequency;by1000genomes	TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	19195340	G	A	19195340	2	1	395	1	0	0	0	0	0	0	0	1	15472	1306	46	2		2	SYT17	16	19195340	Silent	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	18873929	19195340	71159413	43	19674											
CAMKK1	84254	broad.mit.edu;hgsc.bcm.edu	37	chr17	3786739	3786739	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atacgtggaaagccatactgCttcagtaacttctttttgga	11	14	8	8	1	2	0	1	0	1	0	2	2	2	2	1	2	5	2	1	2	4	7	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	3786739	C	A	3786739	3	1	395	1	0	0	0	0	1	0	0	0	2606	796	28	4	1189	4	CAMKK1	17	3786739	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		3786739	77408471	44	19675											
ZNF594	84622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5086795	5086795	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgtgatgtataataagatCtgtgctttgactgaaagcct	11	15	9	6	0	2	4	0	3	2	1	2	4	2	4	1	0	2	2	1	0	4	4	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	5086795	C	G	5086795	3	3	395	1	0	0	0	0	1	0	0	0	18023	913	32	4	1670	4	ZNF594	17	5086795	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	1300056	5086795	76108415	45	19676											
SPATA20	64847	broad.mit.edu;hgsc.bcm.edu	37	chr17	48629019	48629019	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggacctgctacaccggccCtggggggactgtggagcaca	7	5	16	13	2	0	0	0	0	0	0	0	3	0	3	3	6	3	2	3	6	1	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	48629019	C	T	48629019	3	4	395	1	0	0	0	0	1	0	0	0	15007	681	24	2	1774	2	SPATA20	17	48629019	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	43542224	48629019	32566191	46	19677											
ANKFN1	162282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	54403670	54403670	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgaatgaaagcactggaCaattaccaacaacttgttcc	15	11	6	9	0	0	2	0	2	0	0	1	3	1	3	2	1	4	2	2	1	7	5	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	54403670	C	A	54403670	3	1	395	1	0	0	0	0	1	0	0	0	625	479	17	4	161	4	ANKFN1	17	54403670	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08	5774651	54403670	26791540	47	19678											
EPB41L3	23136	broad.mit.edu;hgsc.bcm.edu	37	chr18	5410602	5410602	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtcggctgcggtgtccGtgcgctcactgtcagtctgt	2	11	13	15	5	3	0	2	0	1	0	5	0	4	0	3	2	2	2	3	2	0	0	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	5410602	G	A	5410602	3	1	395	1	0	0	0	0	1	0	0	0	5154	1145	40	1	1215	1	EPB41L3	18	5410602	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08		5410602	72666646	48	19679											
IMPA2	3613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	11999109	11999109	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaaaaacatcagctgcAgatcttgtgacagaaacaga	18	7	7	9	0	3	4	2	1	1	3	3	4	3	4	0	0	5	2	0	0	4	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	11999109	A	T	11999109	2	4	395	1	0	0	0	0	0	0	0	1	7723	175	7	5		5	IMPA2	18	11999109	Silent	SNP	A	TCGA-CJ-4901-01A-01D-1429-08	6588507	11999109	66078139	49	19680											
CTAGE1	64693	broad.mit.edu;hgsc.bcm.edu	37	chr18	19996969	19996969	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaagtaagcaccatcttccGattcactgttcatttctaat	11	15	4	11	1	4	0	2	0	2	0	5	1	5	0	2	0	1	3	2	0	3	7	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	19996969	G	A	19996969	3	1	395	1	0	0	0	0	1	0	0	0	3992	1059	37	1	1435	1	CTAGE1	18	19996969	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	7997860	19996969	58080279	50	19681											
FARSA	2193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	13041068	13041068	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cagcttcctcttcctcagctCgctcctctccttctccccca	3	13	3	22	1	4	0	1	0	3	0	10	0	7	0	6	0	2	3	6	0	0	3	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	13041068	C	G	13041068	3	3	395	1	0	0	0	0	1	0	0	0	5679	893	31	4	1094	4	FARSA	19	13041068	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		13041068	46087915	51	19682											
ZNF99	7652	hgsc.bcm.edu	37	chr19	22939560	22939560	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcataagggttgaggaatTgttaaaagctttgccacatt	12	15	9	5	0	1	1	1	1	0	0	1	2	1	2	1	2	2	3	1	2	4	7	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		G	22939560	T	G	22939560	3	3	395	1	0	0	0	0	1	0	0	0	18203	1812	63	5	505	5	ZNF99	19	22939560	Missense_Mutation	SNP	T	TCGA-CJ-4901-01A-01D-1429-08	9898492	22939560	36189423	52	19683											
PRR12	57479	broad.mit.edu;hgsc.bcm.edu	37	chr19	50099582	50099582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcggacggcttggtgggcGaggacggggcagcagatgcc	6	4	22	9	4	0	1	0	0	0	1	0	4	0	3	1	8	2	3	1	8	0	1	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	50099582	G	A	50099582	3	1	395	1	0	0	0	0	1	0	0	0	12586	1059	37	1	2004	1	PRR12	19	50099582	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	27160022	50099582	9029401	53	19684											
NF2	4771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30067836	30067836	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagcggcagcgcctcgctCgagagaagcagatgagggag	10	4	18	9	4	0	3	0	1	0	2	2	7	0	5	1	3	3	3	1	3	1	0	rs74315499	bycluster	TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	30067836	C	T	30067836	4	4	395	1	0	0	0	0	0	1	0	0	10357	876	31	1	1063	1	NF2	22	30067836	Nonsense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		30067836	21236730	54	19685											
TRIOBP	11078	broad.mit.edu;hgsc.bcm.edu	37	chr22	38097437	38097437	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacatacttacccagaaccGctgtcaaaactgcttccacc	13	8	4	16	1	1	1	1	0	0	1	2	1	2	1	4	0	6	2	4	0	6	3	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		T	38097437	G	T	38097437	3	4	395	1	0	0	0	0	1	0	0	0	16552	1087	38	4	67	4	TRIOBP	22	38097437	Missense_Mutation	SNP	G	TCGA-CJ-4901-01A-01D-1429-08	8029601	38097437	13207129	55	19686											
GEMIN8	54960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	14038611	14038611	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgccagtatcttgcatataCcggatgagaataccaaggcc	12	10	9	10	1	1	1	0	1	1	1	1	3	1	2	4	2	4	2	4	2	6	6	novel		TCGA-CJ-4901-01A-01D-1429-08	TCGA-CJ-4901-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a8a8f3ff-0514-4bca-be75-16ad58eb9e72	4f61a793-26fd-43ec-92cf-91ba74757d00		A	14038611	C	A	14038611	3	1	395	1	0	0	0	0	1	0	0	0	6334	507	18	4	678	4	GEMIN8	23	14038611	Missense_Mutation	SNP	C	TCGA-CJ-4901-01A-01D-1429-08		14038611	141231949	56	19687											
AGRN	375790	hgsc.bcm.edu;ucsc.edu	37	chr1	979247	979251	+	Frame_Shift_Del	DEL	GCAGG	GCAGG	-																															cttttggggctgtgtgctccGcagggcagtgtgtgtgtccc																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	GCAGG	GCAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		-	979251	GCAGG	-	979247	7	5	396	1	0	1	0	1	0	0	0	0	397	1087	38	0	1881	0	AGRN	1	979247	Frame_Shift_Del	DEL	GCAGG	TCGA-CJ-4902-01A-01D-1429-08		979247	248271374	1	19688											
RPS6KA1	6195	broad.mit.edu;hgsc.bcm.edu	37	chr1	26887302	26887302	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctactctgagtgcaagcGctgtgtccacaaggccacca	9	8	9	15	1	1	1	0	1	1	0	3	1	3	1	4	1	3	2	4	1	3	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	26887302	G	A	26887302	3	1	396	1	0	0	0	0	1	0	0	0	13652	1087	38	1	1498	1	RPS6KA1	1	26887302	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	25908055	26887302	222363319	2	19689											
LRRC7	57554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70504369	70504369	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaatccactgccgcccGgaatcttctaaaggtgttat	10	12	7	12	2	3	0	1	0	3	0	5	1	4	1	3	2	1	1	3	2	5	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	70504369	G	A	70504369	2	1	396	1	0	0	0	0	0	0	0	1	9020	1103	39	1		1	LRRC7	1	70504369	Silent	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	43617067	70504369	178746252	3	19690											
GJA8	2703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	147380712	147380712	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcatcctgttcatgttGtctgtggcctctgtgtccct	3	18	8	12	0	5	0	2	0	3	0	7	0	7	0	3	1	0	2	3	1	0	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	147380712	G	T	147380712	3	4	396	1	0	0	0	0	1	0	0	0	6405	1368	48	4	632	4	GJA8	1	147380712	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	76876343	147380712	101869909	4	19691											
ATP1A4	480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160144415	160144415	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggtgaacgactcccctgCgctgaagaaggctgacattg	9	7	14	11	3	0	4	0	3	0	1	1	5	1	4	2	3	2	2	2	3	3	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	160144415	C	T	160144415	3	4	396	1	0	0	0	0	1	0	0	0	1131	768	27	1	2247	1	ATP1A4	1	160144415	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	12763703	160144415	89106206	5	19692											
DHX9	1660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	182841497	182841497	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttttggtagtactgcGtgatgttgttcaggcttatc	5	18	10	8	1	1	1	1	1	0	0	3	1	2	1	1	2	2	5	1	2	3	8	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	182841497	G	A	182841497	3	1	396	1	0	0	0	0	1	0	0	0	4516	1145	40	1	1637	1	DHX9	1	182841497	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	22697082	182841497	66409124	6	19693											
FAM5C	339479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	190068181	190068181	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggacacgtgcacgagtgcGtctcttctgaaaagctgcct	8	10	11	12	4	2	1	0	1	2	0	4	3	2	2	1	1	4	2	1	1	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	190068181	G	A	190068181	3	1	396	1	0	0	0	0	1	0	0	0	5594	1145	40	1	1036	1	FAM5C	1	190068181	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	7226684	190068181	59182440	7	19694											
APOB	338	hgsc.bcm.edu;ucsc.edu	37	chr2	21229016	21229016	+	Frame_Shift_Del	DEL	C	C	-																															ctccgttggtgaaaaagaggCcctctagctgtaagtggttt																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		-	21229016	C	-	21229016	7	5	396	1	0	1	0	1	0	0	0	0	785	739	26	0	2983	0	APOB	2	21229016	Frame_Shift_Del	DEL	C	TCGA-CJ-4902-01A-01D-1429-08		21229016	221970357	8	19695											
TP53I3	9540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24307098	24307098	+	Missense_Mutation	SNP	C	C	A																															ttcagggcgctggccgccacCttcaggaggacttcaccctc																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	24307098	C	A	24307098	3	1	396	1	0	0	0	0	1	0	0	0	16386	680	24	4	919	4	TP53I3	2	24307098	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	3078082	24307098	218892275	9	19696	266	3									
TP53I3	9540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24307099	24307099	+	Missense_Mutation	SNP	T	T	C																															tcagggcgctggccgccaccTtcaggaggacttcaccctcc																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	24307099	T	C	24307099	3	2	396	1	0	0	0	0	1	0	0	0	16386	1609	56	3	920	3	TP53I3	2	24307099	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	1	24307099	218892274	10	19697	266	3									
TP53I3	9540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	24307100	24307100	+	Nonsense_Mutation	SNP	T	T	A																															cagggcgctggccgccacctTcaggaggacttcaccctccc																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	24307100	T	A	24307100	4	1	396	1	0	0	0	0	0	1	0	0	16386	1792	62	5	921	5	TP53I3	2	24307100	Nonsense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	1	24307100	218892273	11	19698	266	3									
KHK	3795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27322321	27322321	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcctgggctgaggagggCgccgacgccctgggccctga	4	6	18	13	3	0	2	0	2	0	0	0	4	0	3	4	4	1	1	4	4	0	0	rs142428157	byfrequency	TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	27322321	C	T	27322321	2	4	396	1	0	0	0	0	0	0	0	1	8149	755	27	1		1	KHK	2	27322321	Silent	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	3015221	27322321	215877052	12	19699											
VPS54	51542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	64161068	64161068	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgcagcattcttctgttgtGaaatctcttccaattctcta	8	18	5	10	0	4	1	0	1	4	0	7	1	5	1	1	0	2	3	1	0	3	7	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	64161068	G	A	64161068	3	1	396	1	0	0	0	0	1	0	0	0	17215	1294	45	2	1503	2	VPS54	2	64161068	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	36838747	64161068	179038305	13	19700											
MEIS1	4211	broad.mit.edu	37	chr2	66667009	66667009	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcttagcactgatttttGagaaatgtgaattagctact	11	16	7	7	0	1	3	0	3	1	1	2	4	1	3	0	0	3	2	0	0	5	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	66667009	T	T	66667009	4	4	396	1	0	0	0	0	0	1	0	0	9467	1291	45	4	284	4	MEIS1	2	66667009	Nonsense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	2505941	66667009	176532364	14	19701											
FOXD4L1	200350	broad.mit.edu	37	chr2	114257620	114257620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgcccttacgctctgctgCacccgcatcctcctcgctac	5	9	7	20	4	1	0	0	0	1	0	4	1	3	0	4	0	4	5	4	0	2	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	114257620	T	T	114257620	3	4	396	1	0	0	0	0	1	0	0	0	6000	710	25	2	789	2	FOXD4L1	2	114257620	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	47590611	114257620	128941753	15	19702											
KCNJ3	3760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	155555522	155555522	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacgctggtggacctcAagtggcgctggaacctcttc	7	9	11	14	2	3	0	2	0	1	0	4	2	3	2	3	4	1	2	3	4	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	155555522	A	C	155555522	3	2	396	1	0	0	0	0	1	0	0	0	8052	131	5	5	237	5	KCNJ3	2	155555522	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	41297902	155555522	87643851	16	19703											
TTC30B	150737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178415573	178415573	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactgtattctttccaacaTgcattctttcttcttccagg	7	18	5	11	0	4	1	0	1	4	0	6	1	6	1	2	1	2	2	2	1	2	7	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	178415573	T	C	178415573	3	2	396	1	0	0	0	0	1	0	0	0	16698	1464	51	3	82	3	TTC30B	2	178415573	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	22860051	178415573	64783800	17	19704											
ARHGAP31	57514	broad.mit.edu;ucsc.edu	37	chr3	119132967	119132967	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagagcacacagggggctTccacagcagccagcagagag	13	3	13	12	0	1	2	1	0	0	2	2	3	2	2	2	2	4	4	2	2	0	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	119132967	A	A	119132967	3	1	396	1	0	0	0	0	1	0	0	0	880	1783	62	5	2237	5	ARHGAP31	3	119132967	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08		119132967	78889463	18	19705											
CCDC48	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128758645	128758645	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagacagccctcggcaccagCctctgcagcagctgcgctca	8	5	11	17	2	2	1	1	0	1	1	3	2	2	1	3	1	6	5	3	1	0	0	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	128758645	C	T	128758645	3	4	396	1	0	0	0	0	1	0	0	0	2819	739	26	2	1781	2	CCDC48	3	128758645	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	9625678	128758645	69263785	19	19706											
ZBTB38	253461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141161785	141161785	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttttccccgctggacttGagggcaagtttcaaaaaggt	10	12	11	8	1	1	1	1	1	0	0	2	2	2	2	2	3	0	4	2	3	3	4	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	141161785	G	T	141161785	3	4	396	1	0	0	0	0	1	0	0	0	17538	1281	45	4	557	4	ZBTB38	3	141161785	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	12403140	141161785	56860645	20	19707											
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79458343	79458343	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaacacctaaaacacagaTtcctgctgttggtatgctaa	15	10	6	10	0	0	1	0	0	0	1	1	1	1	1	2	1	4	4	2	1	5	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	79458343	T	G	79458343	3	3	396	1	0	0	0	0	1	0	0	0	6042	1493	52	5	11648	5	FRAS1	4	79458343	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08		79458343	111695933	21	19708											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127685089	127685089	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggccttcagggcactcgCaatgaaaagatcccttactg	12	9	9	11	1	1	2	1	1	0	1	3	2	2	2	2	2	1	2	2	2	5	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	127685089	C	T	127685089	3	4	396	1	0	0	0	0	1	0	0	0	5703	710	25	2	5971	2	FBN2	5	127685089	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08		127685089	53230171	22	19709											
KIF20A	10112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137522869	137522869	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatgtattgctgagcagTatcatactgtgttgaaactc	11	13	9	8	0	1	2	1	2	0	0	2	2	1	2	0	0	5	6	0	0	4	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	137522869	T	C	137522869	3	2	396	1	0	0	0	0	1	0	0	0	8286	1638	57	3	2510	3	KIF20A	5	137522869	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	9837780	137522869	43392391	23	19710											
TXNDC5	81567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7904955	7904955	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgctggcagtgtccacAcctggaacaaggcaagagta	12	5	12	12	1	0	1	0	0	0	1	1	2	1	2	3	3	2	4	3	3	4	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	7904955	A	G	7904955	3	3	396	1	0	0	0	0	1	0	0	0	16798	173	6	3	1069	3	TXNDC5	6	7904955	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08		7904955	163210112	24	19711											
GCM1	8521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	52993017	52993017	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttgggtcatctcaaaggaCacaggttcagaagcatatca	14	10	9	8	0	4	1	4	0	1	1	5	2	4	2	0	3	1	2	0	3	3	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	52993017	C	T	52993017	3	4	396	1	0	0	0	0	1	0	0	0	6297	478	17	2	16	2	GCM1	6	52993017	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	45088062	52993017	118122050	25	19712											
GRM1	2911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146720058	146720058	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggtcaaatcctccagtcGggagctctgctacatcatcc	9	10	9	13	1	3	0	2	0	1	0	7	1	6	1	3	2	3	2	3	2	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	146720058	G	A	146720058	3	1	396	1	0	0	0	0	1	0	0	0	6796	1116	39	1	1909	1	GRM1	6	146720058	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	93727041	146720058	24395009	26	19713											
GUSB	2990	broad.mit.edu;ucsc.edu	37	chr7	65439618	65439618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagtggctggtacggaaaGcgttggcaccaagccagcga	10	6	16	9	3	0	0	0	0	0	0	0	2	0	1	2	5	4	5	2	5	4	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	65439618	A	A	65439618	3	1	396	1	0	0	0	0	1	0	0	0	6902	971	34	2	840	2	GUSB	7	65439618	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08		65439618	93699045	27	19714											
HGSNAT	138050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	43002122	43002122	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagacatgcagagctgaaGatggatcaggctttgctact	14	9	11	7	0	1	4	1	1	0	3	1	5	1	5	0	2	4	4	0	2	4	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	43002122	G	T	43002122	3	4	396	1	0	0	0	0	1	0	0	0	7088	933	33	4	156	4	HGSNAT	8	43002122	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08		43002122	103361900	28	19715											
TRPM6	140803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	77416960	77416960	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagaacatagccatcttCtgccttttcatcagcacagc	12	10	6	13	0	4	2	2	0	2	2	4	2	4	2	2	0	5	1	2	0	3	4	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	77416960	C	A	77416960	3	1	396	1	0	0	0	0	1	0	0	0	16589	912	32	4	4301	4	TRPM6	9	77416960	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08		77416960	63796471	29	19716											
PKN3	29941	broad.mit.edu	37	chr9	131469089	131469089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagcagcctggaggccagtgGgtccccggagccaggtgagg	7	4	18	12	1	0	1	0	1	0	0	1	3	1	3	5	6	3	1	5	6	0	0	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	131469089	A	A	131469089	3	1	396	1	0	0	0	0	1	0	0	0	11981	1232	43	2	523	2	PKN3	9	131469089	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	54052129	131469089	9744342	30	19717											
POLR3A	11128	hgsc.bcm.edu;ucsc.edu	37	chr10	79764626	79764626	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgacatcaccgatccCaattgagaaaccacggttag	13	8	10	10	2	1	2	1	2	0	1	2	4	2	2	3	2	1	1	3	2	3	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	79764626	C	A	79764626	3	1	396	1	0	0	0	0	1	0	0	0	12228	594	21	4	2141	4	POLR3A	10	79764626	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08		79764626	55770121	31	19718											
FAM190B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	86130886	86130886	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaatctgtaagaagtacAttgcagccaatgccaaatgg	17	8	8	8	0	1	1	0	0	1	1	1	1	1	1	2	1	4	3	2	1	7	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	86130886	A	T	86130886	2	4	396	1	0	0	0	0	0	0	0	1	5522	204	8	5		5	FAM190B	10	86130886	Silent	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	6366260	86130886	49403861	32	19719											
GRID1	2894	broad.mit.edu;hgsc.bcm.edu	37	chr10	87407096	87407096	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggaagtactcatatacagCagaatcccggacagtgccat	13	8	9	11	2	1	1	1	0	0	1	3	3	2	3	2	2	4	2	2	2	5	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	87407096	C	T	87407096	3	4	396	1	0	0	0	0	1	0	0	0	6771	710	25	2	989	2	GRID1	10	87407096	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	1276210	87407096	48127651	33	19720											
KCNK18	338567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118957020	118957020	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggaggtctcggggcacccCcaggccaggagatgctgccc	7	5	15	14	1	1	1	0	0	1	1	2	3	1	2	4	6	2	2	4	6	0	0	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	118957020	C	T	118957020	2	4	396	1	0	0	0	0	0	0	0	1	8065	610	22	2		2	KCNK18	10	118957020	Silent	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	31549924	118957020	16577727	34	19721											
MUC5B	727897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1264193	1264193	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgcttaccgccacggccaCcacaactggggccaccggct	8	5	11	17	3	0	0	0	0	0	0	0	0	0	0	6	4	3	2	6	4	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	1264193	C	G	1264193	3	3	396	1	0	0	0	0	1	0	0	0	9979	507	18	4	6214	4	MUC5B	11	1264193	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08		1264193	133742323	35	19722											
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu	37	chr11	62295513	62295513	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgactttggggcctttcaAgtgtaagtccacatcaggca	9	13	10	9	0	2	1	2	1	0	0	3	1	3	1	2	3	0	2	2	3	2	4	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	62295513	A	T	62295513	3	4	396	1	0	0	0	0	1	0	0	0	414	69	3	5	11416	5	AHNAK	11	62295513	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	61031320	62295513	72711003	36	19723											
USP35	57558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77919916	77919916	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctagcggcctgccatttCcccagagaacttcctctccg	6	10	8	17	2	1	1	0	0	1	1	5	2	4	1	7	1	3	0	7	1	2	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	77919916	C	A	77919916	3	1	396	1	0	0	0	0	1	0	0	0	17065	855	30	4	1529	4	USP35	11	77919916	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	15624403	77919916	57086600	37	19724											
AMICA1	120425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118074350	118074350	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactccacagacatcctgaGtttgtggtagtaacgaaata	13	11	9	8	1	0	2	0	1	0	1	2	3	2	2	2	1	2	4	2	1	5	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	118074350	G	T	118074350	3	4	396	1	0	0	0	0	1	0	0	0	574	1029	36	4	639	4	AMICA1	11	118074350	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	40154434	118074350	16932166	38	19725											
HMBS	3145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118963206	118963206	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagactctgcttcgctgcatCgctgaaagggccttcctgag	7	10	12	12	2	1	3	0	2	1	1	4	4	2	3	2	1	2	4	2	1	1	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	118963206	C	A	118963206	2	1	396	1	0	0	0	0	0	0	0	1	7219	874	31	4		4	HMBS	11	118963206	Silent	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	888856	118963206	16043310	39	19726											
VWF	7450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6204730	6204730	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgagttggcaaagtcatAagggtccgaggtcaaggtcc	11	8	13	9	1	2	1	2	1	0	0	4	2	4	1	3	4	0	2	3	4	3	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	6204730	A	T	6204730	3	4	396	1	0	0	0	0	1	0	0	0	17245	362	13	5	8076	5	VWF	12	6204730	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08		6204730	127647165	40	19727											
A2M	2	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9230391	9230391	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagggcttgggtaatgtgtGcttcatcgatgaagatgtag	9	13	15	4	1	1	3	1	2	0	1	2	4	1	3	0	2	1	4	0	2	3	4	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	9230391	G	A	9230391	3	1	396	1	0	0	0	0	1	0	0	0	4	1319	46	2	1286	2	A2M	12	9230391	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	3025661	9230391	124621504	41	19728			1	29		2	2	15	G		3.029989e-05
A2M	2	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9230405	9230405	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtgtgcttcatcgatgaaGatgtaggctcgagcttgggc	8	12	14	7	2	1	2	1	1	0	1	3	4	1	2	0	2	2	4	0	2	2	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	9230405	G	A	9230405	2	1	396	1	0	0	0	0	0	0	0	1	4	932	33	2		2	A2M	12	9230405	Silent	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	14	9230405	124621490	42	19729			1	29		2	2	15	G		3.029989e-05
P2RX2	22953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133196058	133196058	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagaaaagctaccaggaGagcgagacgggccccgagag	13	2	16	10	3	0	4	0	0	0	4	0	7	0	4	3	2	4	2	3	2	3	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	133196058	G	T	133196058	4	4	396	1	0	0	0	0	0	1	0	0	11340	943	33	4	213	4	P2RX2	12	133196058	Nonsense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	123965653	133196058	655837	43	19730											
STYX	6815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	53213187	53213187	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccatattcatctgctaTgaaaagcaaggtatgaactt	14	11	8	8	0	2	2	1	2	1	0	2	2	2	2	1	2	3	3	1	2	7	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	53213187	T	A	53213187	3	1	396	1	0	0	0	0	1	0	0	0	15361	1464	51	5	144	5	STYX	14	53213187	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08		53213187	54136353	44	19731											
RTL1	388015	broad.mit.edu;ucsc.edu	37	chr14	101347402	101347402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggccacactgacggtaacGttgcaggtcgtcttgcaggg	8	8	14	11	3	1	1	0	1	1	0	2	1	1	1	1	4	3	4	1	4	1	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	101347402	A	A	101347402	3	1	396	1	0	0	0	0	1	0	0	0	13726	1145	40	1	356	1	RTL1	14	101347402	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	48134215	101347402	6002138	45	19732											
TUBGCP5	114791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	22846911	22846911	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgtatgttccagatgacagGgttttggttactgagactca	9	15	11	6	0	1	3	1	2	0	2	2	4	2	3	1	2	1	4	1	2	2	6	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	22846911	G	C	22846911	3	2	396	1	0	0	0	0	1	0	0	0	16768	1223	43	4	816	4	TUBGCP5	15	22846911	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08		22846911	79684481	46	19733											
MTMR10	54893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	31266655	31266655	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgcttcctcttgtggtcGtttactaaaaaagaaaaaaa	14	14	6	7	1	2	1	0	0	2	1	4	1	3	1	1	1	2	2	1	1	7	6	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	31266655	G	T	31266655	3	4	396	1	0	0	0	0	1	0	0	0	9939	1136	40	4	2045	4	MTMR10	15	31266655	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	8419744	31266655	71264737	47	19734											
RYR3	6263	broad.mit.edu;ucsc.edu	37	chr15	34118467	34118467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccagtcattgttcgggaaCgtggtaagtttcagtttctg	8	15	11	7	2	3	0	2	0	1	0	4	1	3	1	1	2	2	4	1	2	3	6	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	34118467	T	T	34118467	3	4	396	1	0	0	0	0	1	0	0	0	13772	536	19	1	11491	1	RYR3	15	34118467	Missense_Mutation	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	2851812	34118467	68412925	48	19735											
AP4E1	23431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51293254	51293254	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaagtgacgactttgggAaactctggttatccttcgca	9	13	9	10	2	2	1	1	1	2	0	5	3	3	2	1	2	1	2	1	2	3	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	51293254	A	G	51293254	3	3	396	1	0	0	0	0	1	0	0	0	752	247	9	3	3205	3	AP4E1	15	51293254	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	17174787	51293254	51238138	49	19736											
AKAP13	11214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	86123644	86123644	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaggcagtaatatcagAcagtactttctctctggcaa	13	10	8	10	0	3	2	1	0	2	2	4	2	3	2	1	2	1	4	1	2	4	4	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	86123644	A	G	86123644	3	3	396	1	0	0	0	0	1	0	0	0	449	275	10	3	2367	3	AKAP13	15	86123644	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	34830390	86123644	16407748	50	19737											
ANPEP	290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90349608	90349608	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcggtaacgattccacgcTttactttggtccaaggtggt	8	12	12	9	3	0	0	0	0	0	0	2	1	2	0	2	5	2	2	2	5	3	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	90349608	T	C	90349608	2	2	396	1	0	0	0	0	0	0	0	1	710	1606	56	3		3	ANPEP	15	90349608	Silent	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	4225964	90349608	12181784	51	19738											
PRSS21	10942	broad.mit.edu	37	chr16	2867459	2867459	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggcggcgccgttatcaggTagggcgcccaggacgcgcga	7	4	18	12	7	1	0	1	0	0	0	1	3	1	1	2	5	0	2	2	5	2	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	2867459	G	G	2867459	5	3	396	1	0	0	0	0	0	0	1	0	12620	1652	57	5	99	5	PRSS21	16	2867459	Splice_Site	SNP	T	TCGA-CJ-4902-01A-01D-1429-08		2867459	87487294	52	19739											
MYH11	4629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15841458	15841458	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagccacgacacatcgcctGgaaggccatgatgacatcgg	11	6	12	12	3	0	2	0	2	0	0	2	4	0	3	3	3	1	1	3	3	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	15841458	G	C	15841458	3	2	396	1	0	0	0	0	1	0	0	0	10031	1357	47	4	3665	4	MYH11	16	15841458	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	12973999	15841458	74513295	53	19740											
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu	37	chr16	31089296	31089296	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaggcagccccgcacacaGatcaggaccatgtgtgcaaa	13	4	11	13	1	1	2	1	0	0	2	1	3	1	3	3	2	2	3	3	2	1	0	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	31089296	G	A	31089296	3	1	396	1	0	0	0	0	1	0	0	0	18061	942	33	2	1653	2	ZNF646	16	31089296	Missense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	15247838	31089296	59265457	54	19741											
ABCC11	85320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	48244895	48244895	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgatcttgtgcaactctggGcccaggctgttcccttcttc	4	15	9	13	0	3	1	0	1	3	0	5	1	4	1	2	2	2	3	2	2	1	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	48244895	G	A	48244895	2	1	396	1	0	0	0	0	0	0	0	1	51	1190	42	2		2	ABCC11	16	48244895	Silent	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	17155599	48244895	42109858	55	19742											
KIAA0182	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	85696693	85696693	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcaaactggacacgtcCtctgaggtactgggctctcc	7	9	9	16	1	3	1	1	1	2	0	5	2	4	2	4	3	2	2	4	3	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	85696693	C	T	85696693	2	4	396	1	0	0	0	0	0	0	0	1	8159	668	24	2		2	KIAA0182	16	85696693	Silent	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	37451798	85696693	4658060	56	19743											
NUP88	4927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5322725	5322725	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgccgctggggccccgaagGcgaacgactaagaaggagct	10	3	15	13	5	0	1	0	0	0	1	0	5	0	2	4	4	2	2	4	4	4	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	5322725	G	T	5322725	4	4	396	1	0	0	0	0	0	1	0	0	10771	1190	42	4	2047	4	NUP88	17	5322725	Nonsense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08		5322725	75872485	57	19744											
KRT19	3880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39680198	39680198	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctggatatgcgccagctGggctccaaagcgcgcctccg	6	6	13	16	5	0	0	0	0	0	0	2	1	2	1	5	2	3	2	5	2	2	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	39680198	G	A	39680198	4	1	396	1	0	0	0	0	0	1	0	0	8456	1357	47	2	206	2	KRT19	17	39680198	Nonsense_Mutation	SNP	G	TCGA-CJ-4902-01A-01D-1429-08	34357473	39680198	41515012	58	19745											
FADS6	283985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72888762	72888762	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtggcacacacccaagAtggtgatgccggatgcaaag	12	7	13	9	1	0	2	0	1	0	1	0	3	0	3	2	3	2	3	2	3	3	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	72888762	A	T	72888762	3	4	396	1	0	0	0	0	1	0	0	0	5368	333	12	5	827	5	FADS6	17	72888762	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	33208564	72888762	8306448	59	19746											
SLC38A10	124565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79257257	79257257	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaccccaagtcgccgatCacgacgtagaaggcgatgca	11	6	12	12	5	1	1	1	0	0	1	2	5	1	2	3	2	1	2	3	2	3	2	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	79257257	C	A	79257257	2	1	396	1	0	0	0	0	0	0	0	1	14604	813	29	4		4	SLC38A10	17	79257257	Silent	SNP	C	TCGA-CJ-4902-01A-01D-1429-08	6368495	79257257	1937953	60	19747											
ALPK2	115701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56205106	56205106	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcaacagagacagccacAggctccctgaagtcagcacg	14	3	11	13	1	1	2	1	1	0	1	2	4	2	2	2	1	4	3	2	1	3	0	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	56205106	A	T	56205106	2	4	396	1	0	0	0	0	0	0	0	1	545	175	7	5		5	ALPK2	18	56205106	Silent	SNP	A	TCGA-CJ-4902-01A-01D-1429-08		56205106	21872142	61	19748											
CAPN12	147968	hgsc.bcm.edu;ucsc.edu	37	chr19	39229287	39229288	+	Frame_Shift_Del	DEL	CT	CT	-																															tgcggtactcaccccgatcaCtctgggcaggggatgggatg																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		-	39229288	CT	-	39229287	7	5	396	1	0	1	0	1	0	0	0	0	2625	579	20	0	1492	0	CAPN12	19	39229287	Frame_Shift_Del	DEL	CT	TCGA-CJ-4902-01A-01D-1429-08		39229287	19899696	62	19749											
FAM113A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	2819279	2819279	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagtgatacgttccccgAggggcatcgccatgttccac	7	8	10	16	3	0	1	0	1	0	0	3	2	2	1	6	2	1	3	6	2	1	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	2819279	A	G	2819279	3	3	396	1	0	0	0	0	1	0	0	0	5401	304	11	3	823	3	FAM113A	20	2819279	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08		2819279	60206241	63	19750											
MACROD2	140733	ucsc.edu	37	chr20	15948281	15948281	+	Intron	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatcatcccgatggtaggTtgtgaaatcctttattagat	12	14	9	6	1	1	3	1	1	0	2	3	4	3	3	2	2	0	2	2	2	5	5	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		C	15948281	T	C	15948281	1	2	396	0	1	0	0	0	0	0	0	0	9146	1740	60	3		3	MACROD2	20	15948281	Intron	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	13129002	15948281	47077239	64	19751											
ZNFX1	57169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47887117	47887117	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgataatcctggtgtcaaagTagattcggatgtcatcaaac	13	12	9	7	1	3	2	3	1	0	1	5	3	4	3	1	2	1	1	1	2	4	3	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		A	47887117	T	A	47887117	3	1	396	1	0	0	0	0	1	0	0	0	18204	1638	57	5	4572	5	ZNFX1	20	47887117	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	31938836	47887117	15138403	65	19752											
PCK1	5105	broad.mit.edu;ucsc.edu	37	chr20	56138156	56138156	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctgaccgcagagagaTcatctcctttggcagtgggt	7	10	12	12	1	2	3	1	1	1	2	3	4	2	3	4	2	1	2	4	2	0	1	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		G	56138156	G	G	56138156	3	3	396	1	0	0	0	0	1	0	0	0	11581	1435	50	5	697	5	PCK1	20	56138156	Missense_Mutation	SNP	T	TCGA-CJ-4902-01A-01D-1429-08	8251039	56138156	6887364	66	19753											
KDELR3	11015	hgsc.bcm.edu;ucsc.edu	37	chr22	38877232	38877235	+	Frame_Shift_Del	DEL	TCTA	TCTA	-																															ctcagatcctctggactttcTctatctatctggaatcagtg																								novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	TCTA	TCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		-	38877235	TCTA	-	38877232	7	5	396	1	0	1	0	1	0	0	0	0	8121	1551	54	0	381	0	KDELR3	22	38877232	Frame_Shift_Del	DEL	TCTA	TCGA-CJ-4902-01A-01D-1429-08		38877232	12427334	67	19754											
ARSD	414	hgsc.bcm.edu	37	chrX	2835999	2836007	+	In_Frame_Del	DEL	CCACGCCGG	CCACGCCGG	-																															agagatgaaaaacaggcagcCcacgccggccatgccggtga																								rs113556864		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	CCACGCCGG	CCACGCCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		-	2836007	CCACGCCGG	-	2835999	7	5	396	1	0	1	0	1	0	0	0	0	989	623	22	0	1249	0	ARSD	23	2835999	In_Frame_Del	DEL	CCACGCCGG	TCGA-CJ-4902-01A-01D-1429-08		2835999	152434561	68	19755											
ZDHHC9	51114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	128975882	128975882	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctgggagtttctcccAtttccgtgtcaccttctttc	3	16	7	15	1	3	0	1	0	2	0	6	1	4	1	5	1	1	1	5	1	0	4	novel		TCGA-CJ-4902-01A-01D-1429-08	TCGA-CJ-4902-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3ef9ea62-85c4-4261-af23-ecb86f192cdf	fc22c32f-f803-4803-b98d-bc1a2e693144		T	128975882	A	T	128975882	3	4	396	1	0	0	0	0	1	0	0	0	17621	217	8	5	1090	5	ZDHHC9	23	128975882	Missense_Mutation	SNP	A	TCGA-CJ-4902-01A-01D-1429-08	126139883	128975882	26294678	69	19756											
AK2	204	hgsc.bcm.edu;ucsc.edu	37	chr1	33476404	33476404	+	RNA	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcggggtgatgagcagtgTtgcagtctcgcctggccttc	4	10	15	12	3	1	2	0	2	1	0	3	2	1	2	3	3	2	3	3	3	0	2	rs76230073	bycluster	TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	33476404	T	G	33476404	1	3	397	0	1	0	0	0	0	0	0	0	440	1740	60	5		5	AK2	1	33476404	RNA	SNP	T	TCGA-CJ-4903-01A-01D-1429-08		33476404	215774217	1	19757											
HIVEP3	59269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	42049239	42049239	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcagcgtaggacttggcGttggtgtttggggggctgac	5	12	17	7	2	1	1	1	1	1	0	2	2	1	2	0	6	1	4	0	6	1	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	42049239	G	A	42049239	2	1	397	1	0	0	0	0	0	0	0	1	7188	1136	40	1		1	HIVEP3	1	42049239	Silent	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	8572835	42049239	207201382	2	19758											
F11R	50848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160969694	160969694	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcacagcatttgaagtCatgggtgtcccatacccatt	10	11	9	11	1	1	1	1	1	0	0	2	1	2	1	2	1	3	2	2	1	2	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	160969694	C	A	160969694	3	1	397	1	0	0	0	0	1	0	0	0	5338	826	29	4	253	4	F11R	1	160969694	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	118920455	160969694	88280927	3	19759											
URB2	9816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	229773890	229773890	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgatcagtcttttcaggCagccttgcagtttttgactc	8	15	8	10	0	3	2	2	2	1	0	4	2	3	2	1	1	2	3	1	1	0	5	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	229773890	C	T	229773890	3	4	397	1	0	0	0	0	1	0	0	0	17024	710	25	2	3540	2	URB2	1	229773890	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	68804196	229773890	19476731	4	19760											
PCNXL2	80003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	233150461	233150461	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagctctcctccccagggtGcacagggcgaaggacagagt	10	5	14	12	1	1	2	0	0	1	2	3	4	2	3	3	3	2	2	3	3	1	0	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	233150461	G	T	233150461	4	4	397	1	0	0	0	0	0	1	0	0	11592	1311	46	4	1539	4	PCNXL2	1	233150461	Nonsense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	3376571	233150461	16100160	5	19761											
RAPGEF4	11069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	173894949	173894949	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtcatgggactaagtaaCgttgctgtgagccgcttggc	8	11	13	9	3	1	1	1	1	0	0	2	2	1	2	1	2	3	4	1	2	2	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	173894949	C	T	173894949	2	4	397	1	0	0	0	0	0	0	0	1	13048	535	19	1		1	RAPGEF4	2	173894949	Silent	SNP	C	TCGA-CJ-4903-01A-01D-1429-08		173894949	69304424	6	19762											
RBM45	129831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178990777	178990777	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggtatgccaagtatgcCgatagaataagtgctaatga	13	10	13	5	1	0	2	0	1	0	1	0	3	0	2	2	2	3	3	2	2	7	5	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	178990777	C	G	178990777	2	3	397	1	0	0	0	0	0	0	0	1	13141	639	23	4		4	RBM45	2	178990777	Silent	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	5095828	178990777	64208596	7	19763											
RAPH1	65059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	204305222	204305222	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgggctttgcttttacTgcaggaggggactgtggagc	6	12	15	8	0	0	0	0	0	0	0	0	3	0	3	0	5	4	3	0	5	1	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	204305222	T	A	204305222	2	1	397	1	0	0	0	0	0	0	0	1	13052	1567	55	5		5	RAPH1	2	204305222	Silent	SNP	T	TCGA-CJ-4903-01A-01D-1429-08	25314445	204305222	38894151	8	19764											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188309	10188309	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctatttttgccaataTcacactgccaggtactgacg	11	11	7	12	1	1	1	1	1	0	0	1	1	1	1	3	1	4	1	3	1	4	5	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		C	10188309	C	C	10188309	3	2	397	1	0	0	0	0	1	0	0	0	17161	1435	50	3	458	3	VHL	3	10188309	Missense_Mutation	SNP	T	TCGA-CJ-4903-01A-01D-1429-08		10188309	187834121	9	19765											
WDR48	57599	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	39108073	39108073	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgacacgacagtaaaagtAtggaatgcacacaagggatt	16	8	10	7	1	1	1	0	1	1	0	1	4	1	3	0	2	1	3	0	2	5	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	39108073	A	T	39108073	2	4	397	1	0	0	0	0	0	0	0	1	17300	436	16	5		5	WDR48	3	39108073	Silent	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	28919764	39108073	158914357	10	19766											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643360	52643360	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgctcgttccaatacttCaaacatatgctcttgaaata	12	15	4	10	1	3	1	1	1	2	0	5	1	4	1	1	0	4	3	1	0	6	7	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	52643360	C	A	52643360	4	1	397	1	0	0	0	0	0	1	0	0	11491	835	29	4	2424	4	PBRM1	3	52643360	Nonsense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	13535287	52643360	145379070	11	19767											
LAMP3	27074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182871518	182871518	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccccatctctgcttttatAcagagtctgcttccgtttag	7	16	6	12	1	2	1	0	0	2	1	5	1	4	1	3	0	3	3	3	0	3	6	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	182871518	A	G	182871518	2	3	397	1	0	0	0	0	0	0	0	1	8619	389	14	3		3	LAMP3	3	182871518	Silent	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	130228158	182871518	15150912	12	19768											
D4S234E	0	broad.mit.edu;hgsc.bcm.edu	37	chr4	4411393	4411393	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtatgaccgcgcctgccccGatgggttcgtcctcaaggta	7	9	12	13	4	1	1	1	1	0	0	3	2	2	1	5	2	1	3	5	2	3	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	4411393	G	A	4411393	3	1	397	1	0	0	0	0	1	0	0	0	4214	1058	37	1	350	1	D4S234E	4	4411393	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08		4411393	186742883	13	19769											
SMARCA5	8467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	144465930	144465930	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaccacctaaacgagaaaGaaaagccaactatgccgttg	17	6	8	10	2	0	3	0	1	0	2	0	4	0	3	4	0	5	1	4	0	8	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	144465930	G	A	144465930	3	1	397	1	0	0	0	0	1	0	0	0	14773	942	33	2	2279	2	SMARCA5	4	144465930	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	140054537	144465930	46688346	14	19770											
TLR2	7097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	154625344	154625344	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaatagttttcattctatgCctgaaacttgtcagtggcca	11	14	8	8	0	3	2	2	1	1	1	3	2	3	2	2	1	2	1	2	1	4	6	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	154625344	C	A	154625344	3	1	397	1	0	0	0	0	1	0	0	0	15950	739	26	4	1287	4	TLR2	4	154625344	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	10159414	154625344	36528932	15	19771											
SLC6A19	340024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	1217053	1217053	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgacatcaacgccttccTctcagaggtaggtccattcc	8	10	8	15	2	2	1	2	0	1	1	6	2	5	1	4	2	2	1	4	2	2	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		C	1217053	T	C	1217053	3	2	397	1	0	0	0	0	1	0	0	0	14684	1551	54	3	1196	3	SLC6A19	5	1217053	Missense_Mutation	SNP	T	TCGA-CJ-4903-01A-01D-1429-08		1217053	179698207	16	19772											
CDH18	1016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	19612594	19612594	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcggttaaggtgatgttgaCtgttgtagatcctgaaagcc	10	13	12	6	1	0	4	0	3	0	1	2	4	1	4	2	2	1	4	2	2	3	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	19612594	C	T	19612594	3	4	397	1	0	0	0	0	1	0	0	0	3103	565	20	2	1644	2	CDH18	5	19612594	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	18395541	19612594	161302666	17	19773											
MAP1B	4131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	71495395	71495395	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctacactgcagaaaagaaGtccccctcagaagcccgtca	13	6	8	14	1	2	3	2	0	0	3	3	3	3	3	3	0	4	2	3	0	5	1	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	71495395	G	A	71495395	2	1	397	1	0	0	0	0	0	0	0	1	9228	1020	36	2		2	MAP1B	5	71495395	Silent	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	51882801	71495395	109419865	18	19774											
PCSK1	5122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	95728885	95728885	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagttttcataagggatGttgagctttgcacttgggga	10	14	13	4	0	1	2	1	1	0	1	1	4	1	4	0	3	2	4	0	3	3	7	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		C	95728885	G	C	95728885	3	2	397	1	0	0	0	0	1	0	0	0	11600	1368	48	4	183	4	PCSK1	5	95728885	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	24233490	95728885	85186375	19	19775											
DST	667	broad.mit.edu;hgsc.bcm.edu	37	chr6	56472759	56472759	+	Intron	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctcatccaagtctccatCgtacagcaaaagcctttgcc	11	9	6	15	1	2	0	1	0	1	0	5	0	3	0	5	0	5	2	5	0	4	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	56472759	C	T	56472759	1	4	397	0	1	0	0	0	0	0	0	0	4783	899	31	1		1	DST	6	56472759	Intron	SNP	C	TCGA-CJ-4903-01A-01D-1429-08		56472759	114642308	20	19776											
KLHL32	114792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	97562309	97562309	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccccaagaagaacaaatgGacttttgttcagtcctttga	12	12	8	9	0	1	3	1	1	0	2	2	4	2	4	3	1	2	1	3	1	4	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	97562309	G	T	97562309	3	4	397	1	0	0	0	0	1	0	0	0	8386	1183	41	4	1300	4	KLHL32	6	97562309	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	41089550	97562309	73552758	21	19777											
SAMD9	54809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92733297	92733297	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catatttatcccttttgacaAaaggtgaagaataactttca	15	14	5	7	0	1	3	1	2	0	1	2	3	2	3	1	1	1	0	1	1	7	7	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	92733297	A	G	92733297	3	3	397	1	0	0	0	0	1	0	0	0	13828	14	1	3	2659	3	SAMD9	7	92733297	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08		92733297	66405366	22	19778											
PLXNA4	91584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	132192713	132192713	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caaagttgccactgctaaaaCcatagacatagtagatatca	17	9	6	9	0	1	2	1	0	0	2	1	2	1	2	2	0	3	3	2	0	7	6	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	132192713	C	T	132192713	3	4	397	1	0	0	0	0	1	0	0	0	12122	507	18	2	5382	2	PLXNA4	7	132192713	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	39459416	132192713	26945950	23	19779											
KEL	3792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	142649604	142649604	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctctcctcaccatgggtgGttgctctgtcagttcccgca	4	13	9	15	1	4	0	2	0	2	0	7	0	6	0	4	2	1	4	4	2	0	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	142649604	G	A	142649604	3	1	397	1	0	0	0	0	1	0	0	0	8142	1261	44	2	1043	2	KEL	7	142649604	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	10456891	142649604	16489059	24	19780											
KCNH2	3757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150675001	150675001	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcccctccgcaccggcaTcctgagcccatgggcgggcc	4	5	14	18	3	0	1	0	1	0	0	2	1	2	1	7	4	1	2	7	4	0	0	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	150675001	T	A	150675001	3	1	397	1	0	0	0	0	1	0	0	0	8032	1435	50	5	3919	5	KCNH2	7	150675001	Missense_Mutation	SNP	T	TCGA-CJ-4903-01A-01D-1429-08	8025397	150675001	8463662	25	19781											
CYC1	1537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145151520	145151520	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gactacgtcttctccctgctCacgggctactgcgagccacc	6	9	9	17	3	3	0	1	0	2	0	4	2	3	0	3	1	5	2	3	1	2	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	145151520	C	T	145151520	2	4	397	1	0	0	0	0	0	0	0	1	4135	813	29	2		2	CYC1	8	145151520	Silent	SNP	C	TCGA-CJ-4903-01A-01D-1429-08		145151520	1212502	26	19782											
PPP2R4	5524	broad.mit.edu;ucsc.edu	37	chr9	131909727	131909727	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcctgctgcccatccatcCtgtcacgtcgggctaggagg	6	8	13	14	2	1	0	1	0	0	0	4	2	3	1	4	3	3	2	4	3	1	1	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	131909727	A	A	131909727	3	1	397	1	0	0	0	0	1	0	0	0	12393	681	24	4	1103	4	PPP2R4	9	131909727	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08		131909727	9303704	27	19783											
ABI1	10006	broad.mit.edu	37	chr10	27054165	27054165	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctggtccaatagtgggtgGcgaaggtgtaggcacagcaa	11	7	15	8	1	0	0	0	0	0	0	1	1	1	0	2	5	1	3	2	5	5	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	27054165	T	T	27054165	3	4	397	1	0	0	0	0	1	0	0	0	88	1203	42	4	748	4	ABI1	10	27054165	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08		27054165	108480582	28	19784											
NRG3	10718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	84744979	84744979	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggctattcatccacaaGggccagttctgtgcccatca	8	10	11	12	0	3	0	2	0	1	0	4	0	4	0	3	3	1	2	3	3	2	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	84744979	G	A	84744979	3	1	397	1	0	0	0	0	1	0	0	0	10649	1000	35	2	1987	2	NRG3	10	84744979	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	57690814	84744979	50789768	29	19785											
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129906582	129906582	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctggtttgggcgtaagCatggctttccctgctgatgg	4	13	14	10	1	0	1	0	1	0	0	1	1	1	1	2	4	3	6	2	4	1	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	129906582	C	A	129906582	3	1	397	1	0	0	0	0	1	0	0	0	9598	710	25	4	6260	4	MKI67	10	129906582	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	45161603	129906582	5628165	30	19786											
FAM160A2	84067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6233079	6233079	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaggagtaactcccccaagGatggcctccggctcttcact	8	8	10	15	1	2	0	1	0	1	0	4	2	4	2	4	4	1	3	4	4	2	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	6233079	G	A	6233079	3	1	397	1	0	0	0	0	1	0	0	0	5469	1174	41	2	346	2	FAM160A2	11	6233079	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08		6233079	128773437	31	19787											
NAV2	89797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19735259	19735259	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgccggccatcctggtCgcctccaaaatgaagtcggg	10	7	12	12	3	0	2	0	1	0	1	4	2	2	2	5	3	1	0	5	3	4	0	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	19735259	C	A	19735259	2	1	397	1	0	0	0	0	0	0	0	1	10184	871	31	4		4	NAV2	11	19735259	Silent	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	13502180	19735259	115271257	32	19788											
AMBRA1	55626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46563577	46563577	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagttccagatctgctggActgggtgtaaattctttccc	8	13	9	11	0	2	1	0	0	2	1	4	2	4	2	2	2	1	3	2	2	2	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	46563577	A	G	46563577	3	3	397	1	0	0	0	0	1	0	0	0	565	275	10	3	1954	3	AMBRA1	11	46563577	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	26828318	46563577	88442939	33	19789											
FAT3	120114	hgsc.bcm.edu;ucsc.edu	37	chr11	92257814	92257814	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcaggggtcatcactgccGcagacattcttgatcgggag	8	10	12	11	2	4	2	3	1	2	1	6	3	4	3	1	3	1	1	1	3	0	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	92257814	G	A	92257814	3	1	397	1	0	0	0	0	1	0	0	0	5691	1087	38	1	3313	1	FAT3	11	92257814	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	45694237	92257814	42748702	34	19790											
C1QTNF9	338872	broad.mit.edu;hgsc.bcm.edu	37	chr13	24893010	24893010	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggacgagtggagagaaggGagaacgaggttagtagttcc	12	7	18	4	2	0	2	0	0	0	2	1	8	1	4	1	4	1	3	1	4	4	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	24893010	G	T	24893010	3	4	397	1	0	0	0	0	1	0	0	0	1970	1174	41	4	227	4	C1QTNF9	13	24893010	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08		24893010	90276868	35	19791											
PDS5B	23047	hgsc.bcm.edu;ucsc.edu	37	chr13	33232396	33232396	+	Frame_Shift_Del	DEL	A	A	-																															gatatatttatgtttataacAagacagttgaaggggctaga																								novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		-	33232396	A	-	33232396	7	5	397	1	0	1	0	1	0	0	0	0	11692	117	5	0	343	0	PDS5B	13	33232396	Frame_Shift_Del	DEL	A	TCGA-CJ-4903-01A-01D-1429-08	8339386	33232396	81937482	36	19792											
CTSG	1511	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	25043508	25043508	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatctgccttcgggggtcGtaggaaccgaagatgcggag	10	7	15	9	4	1	1	0	0	1	1	3	4	1	3	2	4	3	1	2	4	4	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	25043508	G	A	25043508	2	1	397	1	0	0	0	0	0	0	0	1	4035	1140	40	1		1	CTSG	14	25043508	Silent	SNP	G	TCGA-CJ-4903-01A-01D-1429-08		25043508	82306032	37	19793											
AKAP6	9472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	33293956	33293956	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctaaaccttcatgaaaaaCgacatagaaatatgcatagg	18	10	6	7	1	2	2	1	1	1	1	2	3	2	2	1	1	3	1	1	1	8	6	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	33293956	C	T	33293956	4	4	397	1	0	0	0	0	0	1	0	0	455	528	19	1	6983	1	AKAP6	14	33293956	Nonsense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	8250448	33293956	74055584	38	19794											
NRXN3	9369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	79434650	79434650	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccagacctcatcaatgatGctcttcatcggagcggacag	10	9	10	12	2	4	2	3	1	1	1	5	4	4	4	2	2	3	1	2	2	1	1	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		C	79434650	G	C	79434650	3	2	397	1	0	0	0	0	1	0	0	0	10667	1319	46	4	2018	4	NRXN3	14	79434650	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	46140694	79434650	27914890	39	19795											
CYP46A1	10858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	100191787	100191787	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggacccgctgactttcaaCcccgatcgcttcggccctgg	6	8	11	16	4	1	1	1	1	0	0	3	4	1	2	4	3	1	2	4	3	1	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	100191787	C	A	100191787	3	1	397	1	0	0	0	0	1	0	0	0	4182	506	18	4	1286	4	CYP46A1	14	100191787	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	20757137	100191787	7157753	40	19796											
VPS13C	54832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	62257054	62257055	+	Frame_Shift_Del	DEL	AG	AG	-																															caacagatttaaagatgaaaAggccacctaaaaatgtttta																								novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		-	62257055	AG	-	62257054	7	5	397	1	0	1	0	1	0	0	0	0	17190	72	3	0	8451	0	VPS13C	15	62257054	Frame_Shift_Del	DEL	AG	TCGA-CJ-4903-01A-01D-1429-08		62257054	40274338	41	19797											
EDC3	80153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	74925269	74925269	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagttgatgaccaggtccAcagggctagtgggcagatct	9	8	15	9	0	1	3	0	2	1	1	2	3	2	3	2	4	0	4	2	4	1	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	74925269	A	T	74925269	3	4	397	1	0	0	0	0	1	0	0	0	4907	159	6	5	319	5	EDC3	15	74925269	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	12668215	74925269	27606123	42	19798											
BNC1	646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83933213	83933213	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaccctgctccaacatatAttgttcgggcaatgacccta	11	11	7	12	1	0	2	0	2	0	0	2	2	1	2	3	1	2	3	3	1	5	5	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	83933213	A	G	83933213	3	3	397	1	0	0	0	0	1	0	0	0	1474	449	16	3	2202	3	BNC1	15	83933213	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	9007944	83933213	18598179	43	19799											
OR1G1	8390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3030489	3030489	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggccacgtagcagtcataGgccatgaccgccaagaggaa	13	5	12	11	2	1	2	1	1	0	1	1	3	1	3	4	3	1	2	4	3	4	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		A	3030489	G	A	3030489	2	1	397	1	0	0	0	0	0	0	0	1	10957	987	35	2		2	OR1G1	17	3030489	Silent	SNP	G	TCGA-CJ-4903-01A-01D-1429-08		3030489	78164721	44	19800											
P2RX1	5023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3819428	3819428	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggatcagtcggaagataAcgcccaccttcttattacgc	10	10	9	12	3	2	1	1	0	1	1	3	3	2	3	2	2	2	1	2	2	4	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	3819428	A	G	3819428	3	3	397	1	0	0	0	0	1	0	0	0	11339	43	2	3	1155	3	P2RX1	17	3819428	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	788939	3819428	77375782	45	19801											
MFSD6L	162387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8702126	8702126	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccattacaagggaagtgcaCccgatttttgtctaccggtg	9	12	10	10	2	1	0	0	0	1	0	2	2	2	1	3	2	3	1	3	2	4	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	8702126	C	T	8702126	3	4	397	1	0	0	0	0	1	0	0	0	9536	507	18	2	1451	2	MFSD6L	17	8702126	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	4882698	8702126	72493084	46	19802											
PLEKHH3	79990	broad.mit.edu	37	chr17	40820279	40820279	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagggcctctcgggggaggGgttggccaagtaggcattca	7	7	18	9	1	2	0	1	0	1	0	3	1	2	1	2	7	0	4	2	7	2	3	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	40820279	T	T	40820279	3	4	397	1	0	0	0	0	1	0	0	0	12078	1232	43	4	137	4	PLEKHH3	17	40820279	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	32118153	40820279	40374931	47	19803											
VPS25	84313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40925522	40925522	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttcgagtggccgtggcAgtatcgcttcccacccttct	5	12	11	13	3	1	0	0	0	1	0	4	2	2	0	3	2	0	4	3	2	1	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		G	40925522	A	G	40925522	3	3	397	1	0	0	0	0	1	0	0	0	17195	188	7	3	31	3	VPS25	17	40925522	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08	105243	40925522	40269688	48	19804											
OR4D1	26689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56233390	56233390	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctacaccctgagaaaccaGgacatgaaagcagccatgag	16	5	9	11	0	1	3	0	3	1	1	1	5	1	4	3	1	4	1	3	1	3	1	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	56233390	G	T	56233390	3	4	397	1	0	0	0	0	1	0	0	0	11053	991	35	4	878	4	OR4D1	17	56233390	Missense_Mutation	SNP	G	TCGA-CJ-4903-01A-01D-1429-08	15307868	56233390	24961820	49	19805											
POLG2	11232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62481972	62481972	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaaggaaccacattttttCgtccatctcggcccttcaca	10	11	5	15	2	2	0	1	0	1	0	5	1	3	1	3	2	1	0	3	2	2	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	62481972	C	T	62481972	3	4	397	1	0	0	0	0	1	0	0	0	12201	884	31	1	490	1	POLG2	17	62481972	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	6248582	62481972	18713238	50	19806											
MKNK2	2872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2043146	2043146	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcatcttctcaaacaccAggtagaagcggtcctcctcc	9	8	7	17	2	2	1	1	0	2	1	6	1	5	1	5	2	2	2	5	2	3	2	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	2043146	A	T	2043146	3	4	397	1	0	0	0	0	1	0	0	0	9605	188	7	5	1054	5	MKNK2	19	2043146	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08		2043146	57085837	51	19807											
ARFGEF2	10564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47591319	47591319	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaggagctcagcctgaggaAgaaaggcctggagtgcctcg	10	7	15	9	1	1	2	1	1	0	1	2	5	1	5	3	4	3	1	3	4	3	1	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		C	47591319	A	C	47591319	3	2	397	1	0	0	0	0	1	0	0	0	853	72	3	5	1732	5	ARFGEF2	20	47591319	Missense_Mutation	SNP	A	TCGA-CJ-4903-01A-01D-1429-08		47591319	15434201	52	19808											
TRAPPC2	6399	broad.mit.edu;hgsc.bcm.edu	37	chrX	13738010	13738010	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggattctgccttcccagCtggcaaaaactccatttcaa	10	13	6	12	0	2	0	1	0	1	0	4	1	4	1	3	2	3	2	3	2	3	4	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	13738010	C	T	13738010	3	4	397	1	0	0	0	0	1	0	0	0	16457	797	28	2	365	2	TRAPPC2	23	13738010	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08		13738010	141532550	53	19809											
ATRX	546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	76855280	76855280	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcatccatactgtcttcatCaaaataaccctagagaaaaa	17	11	3	10	0	4	1	3	0	1	1	5	2	5	1	2	0	2	0	2	0	7	5	novel		TCGA-CJ-4903-01A-01D-1429-08	TCGA-CJ-4903-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3b685193-f1fa-4c1b-949b-bcdb2d1b934c	224a12b0-8203-45e5-a23e-3c913d687bd7		T	76855280	C	T	76855280	3	4	397	1	0	0	0	0	1	0	0	0	1208	826	29	2	1819	2	ATRX	23	76855280	Missense_Mutation	SNP	C	TCGA-CJ-4903-01A-01D-1429-08	63117270	76855280	78415280	54	19810											
NBPF3	84224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21795329	21795329	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaacagcagttcagaaacctCaaacagaaatgtcttgtaac	18	8	6	9	0	3	2	2	0	1	2	3	2	3	2	1	0	5	3	1	0	5	3	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	21795329	C	G	21795329	2	3	398	1	0	0	0	0	0	0	0	1	10197	813	29	4		4	NBPF3	1	21795329	Silent	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		21795329	227455292	1	19811											
ZBTB40	9923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22816881	22816881	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagagaagcctcaagtagAaatcctttcatctgaaggtg	14	9	9	9	0	3	3	2	1	1	2	4	4	4	3	3	1	1	1	3	1	5	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		C	22816881	A	C	22816881	3	2	398	1	0	0	0	0	1	0	0	0	17541	246	9	5	442	5	ZBTB40	1	22816881	Missense_Mutation	SNP	A	TCGA-CJ-4904-01A-02D-1429-08	1021552	22816881	226433740	2	19812											
CCDC76	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100606486	100606486	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgagtttggagcgggaaagGgaaaattatctcattgggtt	11	13	14	3	1	1	1	1	1	1	0	2	4	1	4	0	4	1	2	0	4	4	5	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	100606486	G	A	100606486	3	1	398	1	0	0	0	0	1	0	0	0	2850	1233	43	2	606	2	CCDC76	1	100606486	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08	77789605	100606486	148644135	3	19813											
F5	2153	broad.mit.edu;hgsc.bcm.edu	37	chr1	169510307	169510307	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtttgtttgactgagttctgGagagaggtttgtctggctga	6	16	15	4	0	2	4	0	3	2	1	2	6	2	5	0	3	0	5	0	3	0	4	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		C	169510307	G	C	169510307	3	2	398	1	0	0	0	0	1	0	0	0	5348	1174	41	4	2705	4	F5	1	169510307	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08	68903821	169510307	79740314	4	19814											
PTCD3	55037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	86359530	86359530	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattcattggacctgatcaAcatcgtaatttctattagta	14	15	5	7	1	3	1	2	1	1	0	4	2	3	2	1	1	1	2	1	1	6	7	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	86359530	A	G	86359530	2	3	398	1	0	0	0	0	0	0	0	1	12731	40	2	3		3	PTCD3	2	86359530	Silent	SNP	A	TCGA-CJ-4904-01A-02D-1429-08		86359530	156839843	5	19815											
BARD1	580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215657073	215657073	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcttactacaaagttgaatCatgctgtccagttgtctatt	11	15	7	8	0	2	1	1	1	1	0	3	1	3	1	1	0	4	4	1	0	5	6	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	215657073	C	G	215657073	3	3	398	1	0	0	0	0	1	0	0	0	1312	826	29	4	2057	4	BARD1	2	215657073	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08	129297543	215657073	27542300	6	19816											
SNCA	6622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	90743427	90743427	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcctttttgacaaagccAgtggctgctgcaatgctccc	7	12	10	12	0	0	1	0	1	0	0	2	1	2	1	3	2	4	4	3	2	2	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	90743427	A	G	90743427	2	3	398	1	0	0	0	0	0	0	0	1	14842	175	7	3		3	SNCA	4	90743427	Silent	SNP	A	TCGA-CJ-4904-01A-02D-1429-08		90743427	100410849	7	19817											
ADH4	127	hgsc.bcm.edu;ucsc.edu	37	chr4	100047771	100047771	+	Frame_Shift_Del	DEL	T	T	-																															ccttggttcattaggtcaaaTgcctcactgattttgtcaaa																								novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		-	100047771	T	-	100047771	7	5	398	1	0	1	0	1	0	0	0	0	310	1451	51	0	58	0	ADH4	4	100047771	Frame_Shift_Del	DEL	T	TCGA-CJ-4904-01A-02D-1429-08	9304344	100047771	91106505	8	19818											
GAB1	2549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	144336751	144336751	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattattgatttaaatttatGtcaacaagtagatgctggat	14	17	7	3	0	1	2	1	1	0	1	1	3	1	3	0	1	2	2	0	1	8	8	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	144336751	G	T	144336751	3	4	398	1	0	0	0	0	1	0	0	0	6148	1377	48	4	200	4	GAB1	4	144336751	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08	44288980	144336751	46817525	9	19819											
GPM6A	2823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	176622807	176622807	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgacagttccagaaagcGcttcatgaccgcagccacag	11	8	10	12	2	1	3	1	2	0	1	2	3	2	3	3	0	2	4	3	0	1	3	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	176622807	G	A	176622807	3	1	398	1	0	0	0	0	1	0	0	0	6615	1087	38	1	711	1	GPM6A	4	176622807	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08	32286056	176622807	14531469	10	19820											
NNT	23530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43619222	43619222	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaagttcctccagctaagGtaggtacaacttttaatgtt	13	13	8	7	0	0	0	0	0	0	0	2	1	2	0	2	2	3	5	2	2	7	7	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	43619222	G	A	43619222	5	1	398	1	0	0	0	0	0	0	1	0	10510	1275	44	2	702	2	NNT	5	43619222	Splice_Site	SNP	G	TCGA-CJ-4904-01A-02D-1429-08		43619222	137296038	11	19821											
NRG2	9542	broad.mit.edu	37	chr5	139422020	139422020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccgttggtatcgagggggGcaaaggccgtcttaaagact	9	9	15	8	3	1	1	0	0	1	1	2	2	1	1	2	5	1	3	2	5	4	3	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	139422020	A	A	139422020	3	1	398	1	0	0	0	0	1	0	0	0	10648	1203	42	2	2048	2	NRG2	5	139422020	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08	95802798	139422020	41493240	12	19822											
FOXQ1	94234	hgsc.bcm.edu;ucsc.edu	37	chr6	1313357	1313357	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgactcggcgggcgggcgcTtgacgctggcggagatcaac	6	5	18	12	7	1	2	1	1	0	1	2	4	1	2	0	5	1	2	0	5	1	1	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		C	1313357	T	C	1313357	2	2	398	1	0	0	0	0	0	0	0	1	6030	1606	56	3		3	FOXQ1	6	1313357	Silent	SNP	T	TCGA-CJ-4904-01A-02D-1429-08		1313357	169801710	13	19823											
OR2B3	442184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	29054943	29054943	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgatattaacaggaccacaAaaaggggcatttgtagccaa	17	8	9	7	0	0	1	0	1	0	0	0	2	0	2	2	3	2	2	2	3	6	4	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	29054943	A	G	29054943	3	3	398	1	0	0	0	0	1	0	0	0	10990	14	1	3	862	3	OR2B3	6	29054943	Missense_Mutation	SNP	A	TCGA-CJ-4904-01A-02D-1429-08	27741586	29054943	142060124	14	19824											
MOSPD3	64598	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100211278	100211278	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agccagatccagcgcctcgcCcagggcctcctgctgggaca	7	5	12	17	2	0	1	0	0	0	1	3	2	2	2	6	2	3	1	6	2	0	0	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	100211278	C	A	100211278	3	1	398	1	0	0	0	0	1	0	0	0	9717	623	22	4	470	4	MOSPD3	7	100211278	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		100211278	58927385	15	19825											
JHDM1D	80853	hgsc.bcm.edu;ucsc.edu	37	chr7	139798703	139798703	+	Frame_Shift_Del	DEL	C	C	-																															cagtggtttttgagattcttCatgttccactccctctactc																								novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		-	139798703	C	-	139798703	7	5	398	1	0	1	0	1	0	0	0	0	7948	835	29	0	959	0	JHDM1D	7	139798703	Frame_Shift_Del	DEL	C	TCGA-CJ-4904-01A-02D-1429-08	39587425	139798703	19339960	16	19826											
TG	7038	broad.mit.edu;hgsc.bcm.edu	37	chr8	134034366	134034366	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtggtcactgccagctaccGagtgggtgtcttcggcttcc	4	11	13	13	3	2	0	1	0	1	0	4	1	3	0	3	3	3	2	3	3	1	3	rs121912650		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	134034366	G	A	134034366	3	1	398	1	0	0	0	0	1	0	0	0	15812	1058	37	1	7165	1	TG	8	134034366	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08		134034366	12329656	17	19827											
PLEKHA7	144100	hgsc.bcm.edu	37	chr11	16876457	16876457	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcttgtgcagccagcccctCaccaccacgggaacattggg	8	7	11	15	1	1	0	1	0	0	0	1	1	1	1	5	2	5	2	5	2	1	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	16876457	C	T	16876457	2	4	398	1	0	0	0	0	0	0	0	1	12061	813	29	2		2	PLEKHA7	11	16876457	Silent	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		16876457	118130059	18	19828											
PPP1R14B	26472	broad.mit.edu	37	chr11	64013926	64013926	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgagctgctccaggatccActcctctaggttgaggcgct	6	10	12	13	2	1	2	0	2	1	0	4	3	4	3	3	3	2	4	3	3	1	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	64013926	G	G	64013926	3	3	398	1	0	0	0	0	1	0	0	0	12362	159	6	3	239	3	PPP1R14B	11	64013926	Missense_Mutation	SNP	A	TCGA-CJ-4904-01A-02D-1429-08	47137469	64013926	70992590	19	19829											
CWC15	51503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94704596	94704596	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctctctctctttcttccaActctctcctgaagtcacggt	6	15	5	15	1	5	1	1	1	4	0	10	1	7	1	2	1	2	1	2	1	2	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		C	94704596	A	C	94704596	3	2	398	1	0	0	0	0	1	0	0	0	4067	40	2	5	521	5	CWC15	11	94704596	Missense_Mutation	SNP	A	TCGA-CJ-4904-01A-02D-1429-08	30690670	94704596	40301920	20	19830											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108170468	108170468	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagctgcttgggagaagTgggtcctatagatttctcta	9	13	13	6	0	1	2	0	0	1	2	3	4	2	3	1	3	2	2	1	3	5	5	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	108170468	T	G	108170468	3	3	398	1	0	0	0	0	1	0	0	0	1109	1696	59	5	5163	5	ATM	11	108170468	Missense_Mutation	SNP	T	TCGA-CJ-4904-01A-02D-1429-08	13465872	108170468	26836048	21	19831											
KRT73	319101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53012201	53012201	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcctccactgagccctttGccccctgctcggtaggagga	7	8	11	15	1	0	1	0	1	0	0	2	3	1	3	5	3	4	2	5	3	2	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	53012201	G	T	53012201	2	4	398	1	0	0	0	0	0	0	0	1	8486	1306	46	4		4	KRT73	12	53012201	Silent	SNP	G	TCGA-CJ-4904-01A-02D-1429-08		53012201	80839694	22	19832											
GDF11	10220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56142619	56142619	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gattgagctgcactcacgctCaggccattggcagagcatcg	9	8	12	12	2	2	2	2	1	0	1	3	3	2	2	1	2	3	5	1	2	0	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	56142619	C	G	56142619	4	3	398	1	0	0	0	0	0	1	0	0	6312	838	29	4	701	4	GDF11	12	56142619	Nonsense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08	3130418	56142619	77709276	23	19833											
FSCB	84075	broad.mit.edu;hgsc.bcm.edu	37	chr14	44973940	44973940	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agacacattctctaccagagCctcatcttcaggggtttgtt	9	13	8	11	0	4	2	2	0	2	2	5	2	4	2	2	2	2	2	2	2	1	5	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	44973940	C	G	44973940	3	3	398	1	0	0	0	0	1	0	0	0	6066	739	26	4	230	4	FSCB	14	44973940	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		44973940	62375600	24	19834											
TGM5	9333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43552495	43552495	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggccaggtctggcagcggtCctaggagggaagtagagctg	9	6	18	8	1	1	1	0	0	1	1	2	3	2	3	2	6	2	3	2	6	3	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	43552495	C	T	43552495	3	4	398	1	0	0	0	0	1	0	0	0	15832	869	30	2	2015	2	TGM5	15	43552495	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		43552495	58978897	25	19835											
PLEKHO2	80301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65157582	65157582	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttatcagagaaactgaaagCctccatgggtgagatgcagg	13	8	12	8	0	1	3	1	2	0	2	2	5	2	3	2	2	3	1	2	2	3	1	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	65157582	C	T	65157582	3	4	398	1	0	0	0	0	1	0	0	0	12085	739	26	2	990	2	PLEKHO2	15	65157582	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08	21605087	65157582	37373810	26	19836											
ITGA11	22801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	68642956	68642956	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttagcatgcattgcttaccTtccaggctgaagattctgtc	8	14	8	11	0	1	2	0	1	1	1	3	2	2	2	2	1	4	4	2	1	3	5	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	68642956	T	A	68642956	3	1	398	1	0	0	0	0	1	0	0	0	7874	1623	56	5	2595	5	ITGA11	15	68642956	Missense_Mutation	SNP	T	TCGA-CJ-4904-01A-02D-1429-08	3485374	68642956	33888436	27	19837											
ADAMTS18	170692	broad.mit.edu;hgsc.bcm.edu	37	chr16	77387747	77387747	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttatactgtcctgcttgCttgggctcatccactagaca	8	15	7	11	0	1	1	1	0	0	1	3	1	3	1	2	1	3	3	2	1	4	7	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	77387747	C	T	77387747	2	4	398	1	0	0	0	0	0	0	0	1	263	796	28	2		2	ADAMTS18	16	77387747	Silent	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		77387747	12967006	28	19838											
RAI1	10743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	17699836	17699836	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacattcaaggtctccagcAgcccccagaaggagggcagg	11	4	12	14	0	2	1	1	0	1	1	3	2	2	2	4	4	2	2	4	4	2	1	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	17699836	A	G	17699836	3	3	398	1	0	0	0	0	1	0	0	0	13009	188	7	3	3576	3	RAI1	17	17699836	Missense_Mutation	SNP	A	TCGA-CJ-4904-01A-02D-1429-08		17699836	63495374	29	19839											
SLFN12L	100506736	broad.mit.edu;ucsc.edu	37	chr17	33802445	33802445	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taattgcttaagtccttcatGttgtgagaacagatttctgc	10	16	8	7	0	2	2	1	1	1	2	3	3	3	2	1	0	3	2	1	0	3	6	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	33802445	T	T	33802445	3	4	398	1	0	0	0	0	1	0	0	0	14737	1377	48	4	506	4	SLFN12L	17	33802445	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08	16102609	33802445	47392765	30	19840											
TADA2A	6871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	35836946	35836946	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggagcctatttagaataCaaatctgctctattgaacga	13	12	7	9	1	2	2	0	1	2	1	2	4	2	3	2	1	4	1	2	1	7	6	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	35836946	C	A	35836946	4	1	398	1	0	0	0	0	0	1	0	0	15509	489	17	4	1344	4	TADA2A	17	35836946	Nonsense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08	2034501	35836946	45358264	31	19841											
DYM	54808	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	46906085	46906085	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttctagaaaggaagacCttaattagtgcaccaagatt	14	12	9	6	0	1	3	0	0	1	3	1	4	1	4	2	2	1	2	2	2	6	6	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	46906085	C	G	46906085	3	3	398	1	0	0	0	0	1	0	0	0	4840	680	24	4	1828	4	DYM	18	46906085	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		46906085	31171163	32	19842											
ZNF407	55628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72345031	72345031	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaaagcatctcaggaagaaCctctgaagtccagggtaagc	15	6	11	9	0	2	2	1	1	2	1	4	4	3	3	2	2	3	2	2	2	6	1	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	72345031	C	A	72345031	3	1	398	1	0	0	0	0	1	0	0	0	17886	507	18	4	2058	4	ZNF407	18	72345031	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08	25438946	72345031	5732217	33	19843											
ZNF236	7776	hgsc.bcm.edu;ucsc.edu	37	chr18	74624247	74624247	+	Frame_Shift_Del	DEL	G	G	-																															caagaggaactggacctgcaGgcacaaggttcccagtttct																								novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		-	74624247	G	-	74624247	7	5	398	1	0	1	0	1	0	0	0	0	17788	991	35	0	2913	0	ZNF236	18	74624247	Frame_Shift_Del	DEL	G	TCGA-CJ-4904-01A-02D-1429-08	2279216	74624247	3453001	34	19844											
NLRP8	126205	broad.mit.edu;hgsc.bcm.edu	37	chr19	56459316	56459316	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccattcccttttcatcCtcctccactcacagttctca	7	13	1	20	0	3	0	3	0	1	0	8	0	7	0	6	0	0	1	6	0	0	4	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	56459316	C	T	56459316	2	4	398	1	0	0	0	0	0	0	0	1	10483	668	24	2		2	NLRP8	19	56459316	Silent	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		56459316	2669667	35	19845											
TRIM28	10155	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	59057138	59057138	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtctggcagtgctgcaCtagctgtgaggataatgccc	7	12	12	10	0	1	1	0	1	1	0	1	2	1	2	1	2	4	4	1	2	2	3	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	59057138	C	G	59057138	3	3	398	1	0	0	0	0	1	0	0	0	16501	565	20	4	471	4	TRIM28	19	59057138	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08	2597822	59057138	71845	36	19846											
TFAP2C	7022	hgsc.bcm.edu;ucsc.edu	37	chr20	55208541	55208541	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcagctctacgtctaaatAcaaagtgacagtggctgaag	13	9	9	10	1	3	2	1	2	2	0	3	2	3	2	1	1	3	2	1	1	6	3	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		G	55208541	A	G	55208541	3	3	398	1	0	0	0	0	1	0	0	0	15788	391	14	3	733	3	TFAP2C	20	55208541	Missense_Mutation	SNP	A	TCGA-CJ-4904-01A-02D-1429-08		55208541	7816979	37	19847											
DSCAM	1826	hgsc.bcm.edu;ucsc.edu	37	chr21	41414412	41414412	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaggggtgctggaggtcaGactgtccgtgtactcatttg	7	11	16	7	1	2	1	2	0	0	1	3	3	3	3	1	5	2	2	1	5	2	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	41414412	G	A	41414412	2	1	398	1	0	0	0	0	0	0	0	1	4768	933	33	2		2	DSCAM	21	41414412	Silent	SNP	G	TCGA-CJ-4904-01A-02D-1429-08		41414412	6715483	38	19848											
ELFN2	114794	broad.mit.edu	37	chr22	37770332	37770332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcgcaggcagtagtacaCggctcccagcacgataacca	11	6	10	14	3	0	0	0	0	0	0	1	1	1	0	2	2	4	6	2	2	3	4	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		T	37770332	T	T	37770332	3	4	398	1	0	0	0	0	1	0	0	0	5058	536	19	1	1223	1	ELFN2	22	37770332	Missense_Mutation	SNP	C	TCGA-CJ-4904-01A-02D-1429-08		37770332	13534234	39	19849											
CACNA1F	778	broad.mit.edu;hgsc.bcm.edu	37	chrX	49066823	49066823	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggcgttgaatgtcaccGtcccatctgagttgaggggc	6	11	15	9	2	2	3	1	3	1	0	3	3	3	3	2	3	0	2	2	3	1	2	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	49066823	G	A	49066823	3	1	398	1	0	0	0	0	1	0	0	0	2543	1145	40	1	1414	1	CACNA1F	23	49066823	Missense_Mutation	SNP	G	TCGA-CJ-4904-01A-02D-1429-08		49066823	106203737	40	19850											
GUCY2F	2986	broad.mit.edu	37	chrX	108631719	108631719	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttaactggttattaccTgagtgaaggccaattcgaat	12	14	8	7	1	0	2	0	2	0	0	1	3	0	2	2	2	3	1	2	2	7	6	novel		TCGA-CJ-4904-01A-02D-1429-08	TCGA-CJ-4904-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	9bedcded-0c33-4199-bdce-18681595c2d8	b246a266-4944-4bc7-849f-5936ecbfb8cd		A	108631719	A	A	108631719	2	1	398	1	0	0	0	0	0	0	0	1	6898	1594	55	5		5	GUCY2F	23	108631719	Silent	SNP	T	TCGA-CJ-4904-01A-02D-1429-08	59564896	108631719	46638841	41	19851											
CPSF3L	54973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1249171	1249171	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgatgtgcttgaactcaaAcatgttcctctgcacgaaag	11	12	8	10	1	2	2	1	2	1	0	3	3	3	2	1	0	4	3	1	0	3	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	1249171	A	C	1249171	3	2	399	1	0	0	0	0	1	0	0	0	3827	43	2	5	940	5	CPSF3L	1	1249171	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08		1249171	248001450	1	19852											
MIIP	60672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12081816	12081816	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggaactggcacagctgcgGctgctcaatctggagctcct	8	8	13	12	1	2	0	1	0	1	0	3	3	3	2	1	4	5	5	1	4	2	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	12081816	G	T	12081816	2	4	399	1	0	0	0	0	0	0	0	1	9585	1190	42	4		4	MIIP	1	12081816	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	10832645	12081816	237168805	2	19853											
UBXN10	127733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	20517187	20517187	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaagtccgccaagggaCggacaagaccgagtctgcag	11	3	14	13	3	1	1	0	0	1	1	2	4	2	3	4	3	1	1	4	3	3	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	20517187	C	T	20517187	3	4	399	1	0	0	0	0	1	0	0	0	16911	527	19	1	135	1	UBXN10	1	20517187	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	8435371	20517187	228733434	3	19854											
ATP1B1	481	broad.mit.edu	37	chr1	169100955	169100955	+	RNA	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataggttagaatgtaaattAaagtgtagcaatagcaacaa	20	10	8	3	0	0	1	0	0	0	1	0	1	0	1	0	1	3	5	0	1	13	6	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	169100955	T	T	169100955	1	4	399	0	1	0	0	0	0	0	0	0	1132	377	13	5		5	ATP1B1	1	169100955	RNA	SNP	A	TCGA-CJ-4905-01A-02D-1429-08	148583768	169100955	80149666	4	19855											
CFH	3075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196642242	196642242	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcttggaaatgtaataatgGtatgcaggaagggagaatgg	14	10	14	3	0	1	1	0	0	1	1	1	4	1	3	0	5	1	3	0	5	6	4	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	196642242	G	A	196642242	3	1	399	1	0	0	0	0	1	0	0	0	3283	1261	44	2	199	2	CFH	1	196642242	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	27541287	196642242	52608379	5	19856											
SDCCAG8	10806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	243581274	243581274	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattgttatttctagaaaaTgaacagtatttgttgctgac	12	18	7	4	0	1	3	0	2	1	1	1	3	1	3	0	0	2	4	0	0	7	8	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	243581274	T	A	243581274	3	1	399	1	0	0	0	0	1	0	0	0	13961	1461	51	5	1807	5	SDCCAG8	1	243581274	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	46939032	243581274	5669347	6	19857											
PXDN	7837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1653137	1653137	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgggtgtgacggtctcCgtcccgatcagggtggtgga	4	10	17	10	5	2	1	1	1	1	0	6	3	3	2	2	5	0	0	2	5	0	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	1653137	C	T	1653137	2	4	399	1	0	0	0	0	0	0	0	1	12849	639	23	1		1	PXDN	2	1653137	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08		1653137	241546236	7	19858											
NEB	4703	broad.mit.edu;hgsc.bcm.edu	37	chr2	152397301	152397301	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctctctttggtggcaagTtcaacatacagatactgaat	11	13	9	8	0	3	2	1	1	2	1	4	2	3	2	0	3	3	2	0	3	5	4	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	152397301	T	C	152397301	2	2	399	1	0	0	0	0	0	0	0	1	10302	1722	60	3		3	NEB	2	152397301	Silent	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	150744164	152397301	90802072	8	19859											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170011038	170011038	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctcatcttgaagatacTctgagaacctctcagatgag	12	12	7	10	0	4	5	2	3	3	3	6	6	5	5	2	0	2	0	2	0	3	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	170011038	T	G	170011038	3	3	399	1	0	0	0	0	1	0	0	0	8956	1551	54	5	1796	5	LRP2	2	170011038	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	17613737	170011038	73188335	9	19860											
TTN	7273	broad.mit.edu;ucsc.edu	37	chr2	179479674	179479674	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcataccatttgccttcCtcaagacctgtcacttccat	9	13	5	14	0	2	1	2	0	0	1	4	1	4	1	5	1	2	1	5	1	3	5	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	179479674	T	T	179479674	2	4	399	1	0	0	0	0	0	0	0	1	16734	680	24	2		2	TTN	2	179479674	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	9468636	179479674	63719699	10	19861											
SSFA2	6744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	182757372	182757372	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacgagaagatcgcgatatGgctcaaggactgccggtgag	12	6	14	9	4	1	3	1	1	0	2	2	6	1	4	1	3	2	1	1	3	4	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	182757372	G	A	182757372	4	1	399	1	0	0	0	0	0	1	0	0	15184	1357	47	2	248	2	SSFA2	2	182757372	Nonsense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	3277698	182757372	60442001	11	19862											
RPE	6120	hgsc.bcm.edu	37	chr2	210874384	210874384	+	Frame_Shift_Del	DEL	T	T	-																															ttttgtttgtcttgtaggcaTtttgttcccaacatcacctt																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	210874384	T	-	210874384	7	5	399	1	0	1	0	1	0	0	0	0	13546	1490	52	0	132	0	RPE	2	210874384	Frame_Shift_Del	DEL	T	TCGA-CJ-4905-01A-02D-1429-08	28117012	210874384	32324989	12	19863											
CDCP1	64866	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	45134910	45134910	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcccgggcagaaggagcCgaagtacaggtcctggctgg	8	5	16	12	2	0	1	0	0	0	1	2	3	2	2	4	5	2	3	4	5	3	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	45134910	C	G	45134910	3	3	399	1	0	0	0	0	1	0	0	0	3093	652	23	4	1040	4	CDCP1	3	45134910	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08		45134910	152887520	13	19864											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52713608	52713614	+	Frame_Shift_Del	DEL	ATTGGAA	ATTGGAA	-																															acaggatctacagttggaagAttggaaagtctcctcctttt																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	ATTGGAA	ATTGGAA	ATTGGAA	-	ATTGGAA	ATTGGAA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	52713614	ATTGGAA	-	52713608	7	5	399	1	0	1	0	1	0	0	0	0	11491	330	12	0	4900	0	PBRM1	3	52713608	Frame_Shift_Del	DEL	ATTGGAA	TCGA-CJ-4905-01A-02D-1429-08	7578698	52713608	145308822	14	19865											
BOC	91653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	112969403	112969403	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccctgttcttcctccagaCgaggtccctcaggtcaccgt	6	11	8	16	2	3	1	2	0	1	1	7	2	7	1	5	2	0	1	5	2	0	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	112969403	C	T	112969403	2	4	399	1	0	0	0	0	0	0	0	1	1481	550	19	1		1	BOC	3	112969403	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	60255795	112969403	85053027	15	19866											
FAM162A	26355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122123119	122123119	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataggcacttacaacagaGtgcctttacacaaacctacg	14	9	6	12	1	1	1	1	0	0	1	1	1	1	1	2	1	6	1	2	1	6	5	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	122123119	G	A	122123119	3	1	399	1	0	0	0	0	1	0	0	0	5474	1029	36	2	182	2	FAM162A	3	122123119	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	9153716	122123119	75899311	16	19867											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130300584	130300584	+	Frame_Shift_Del	DEL	G	G	-																															aggtcagtgtggcttttcaaGtgaccaatgccatggaaaaa																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	130300584	G	-	130300584	7	5	399	1	0	1	0	1	0	0	0	0	3703	1029	36	0	3757	0	COL6A6	3	130300584	Frame_Shift_Del	DEL	G	TCGA-CJ-4905-01A-02D-1429-08	8177465	130300584	67721846	17	19868											
YTHDC1	91746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	69188621	69188621	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagctgggttccacattCaagttcaatttcctagaata	14	12	6	9	0	2	1	2	0	0	1	4	1	4	1	2	1	1	3	2	1	6	6	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	69188621	C	A	69188621	4	1	399	1	0	0	0	0	0	1	0	0	17495	835	29	4	764	4	YTHDC1	4	69188621	Nonsense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08		69188621	121965655	18	19869											
ABCE1	6059	broad.mit.edu;hgsc.bcm.edu	37	chr4	146041212	146041212	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatgtgtatgtataaatatCcaggaatgaagaaaaaaatg	20	10	9	2	0	0	3	0	1	0	2	1	4	1	4	1	1	0	2	1	1	10	4	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	146041212	C	A	146041212	3	1	399	1	0	0	0	0	1	0	0	0	64	855	30	4	1089	4	ABCE1	4	146041212	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	76852591	146041212	45113064	19	19870											
POLR3G	10622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	89781415	89781415	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaaggaagaggacgtgctGcttatacctttaatattgag	14	12	10	5	1	0	2	0	1	0	1	0	4	0	4	1	2	3	2	1	2	7	7	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	89781415	G	A	89781415	3	1	399	1	0	0	0	0	1	0	0	0	12234	1319	46	2	33	2	POLR3G	5	89781415	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08		89781415	91133845	20	19871											
ANKHD1	54882	hgsc.bcm.edu;ucsc.edu	37	chr5	139864742	139864743	+	Frame_Shift_Del	DEL	AT	AT	-																															ggctacagccaataatgatcAtacagtagtgtcgctggcat																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	139864743	AT	-	139864742	7	5	399	1	0	1	0	1	0	0	0	0	628	217	8	0	2059	0	ANKHD1	5	139864742	Frame_Shift_Del	DEL	AT	TCGA-CJ-4905-01A-02D-1429-08	50083327	139864742	41050518	21	19872											
SLC36A1	206358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150853235	150853235	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgctttctgtctttcagaGgatcccagaccccagccacc	7	12	7	15	0	3	2	1	0	2	2	4	3	4	3	5	1	2	1	5	1	0	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	150853235	G	C	150853235	3	2	399	1	0	0	0	0	1	0	0	0	14595	1014	35	4	751	4	SLC36A1	5	150853235	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	10988493	150853235	30062025	22	19873											
DTNBP1	84062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	15615585	15615585	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacataagtcttccagaTgcagcaggttgttctctacc	9	11	8	13	0	2	1	0	0	2	1	4	1	3	1	3	1	3	4	3	1	2	5	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	15615585	T	G	15615585	3	3	399	1	0	0	0	0	1	0	0	0	4790	1464	51	5	775	5	DTNBP1	6	15615585	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08		15615585	155499482	23	19874											
TULP1	7287	broad.mit.edu;hgsc.bcm.edu	37	chr6	35479476	35479476	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggtttcccgggggtcgcGcttcttggcctcggggtccc	3	10	15	13	4	1	0	0	0	1	0	5	0	3	0	3	6	0	2	3	6	1	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	35479476	G	T	35479476	3	4	399	1	0	0	0	0	1	0	0	0	16772	1087	38	4	1378	4	TULP1	6	35479476	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	19863891	35479476	135635591	24	19875											
PHIP	55023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	79650693	79650693	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgcagggactaggagaTctgcatctaatttttgtgtc	9	14	10	8	0	2	1	0	0	2	1	3	3	2	2	0	2	2	2	0	2	2	5	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	79650693	T	G	79650693	3	3	399	1	0	0	0	0	1	0	0	0	11842	1435	50	5	286	5	PHIP	6	79650693	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	44171217	79650693	91464374	25	19876											
SPAM1	6677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123595133	123595133	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaaccctcagtataatgcGaagtatggtaagttgaattg	13	11	12	5	1	1	1	1	1	0	0	1	3	1	2	1	2	2	4	1	2	7	6	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	123595133	G	A	123595133	3	1	399	1	0	0	0	0	1	0	0	0	14988	1058	37	1	1043	1	SPAM1	7	123595133	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08		123595133	35543530	26	19877											
SLC7A13	157724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87229763	87229763	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtattcctatcattaataatAtagaccataatgaacccgtg	15	13	5	8	1	1	2	1	1	0	1	2	2	2	2	3	0	1	1	3	0	8	8	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	87229763	A	G	87229763	3	3	399	1	0	0	0	0	1	0	0	0	14697	449	16	3	305	3	SLC7A13	8	87229763	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08		87229763	59134259	27	19878											
RANBP6	26953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	6014375	6014375	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaagaaaaagcaaaacGgagttaactgtttcatctag	16	10	8	7	1	2	2	1	1	1	1	3	3	3	3	1	1	3	3	1	1	7	3	rs146563217	alternate_allele	TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	6014375	G	A	6014375	2	1	399	1	0	0	0	0	0	0	0	1	13033	1103	39	1		1	RANBP6	9	6014375	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08		6014375	135199056	28	19879											
C10orf18	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5790452	5790452	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaataccagcaggcagaAtggccagtttgcttaagaat	15	8	11	7	0	0	2	0	0	0	2	0	3	0	3	2	3	3	4	2	3	5	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	5790452	A	C	5790452	3	2	399	1	0	0	0	0	1	0	0	0	1596	101	4	5	5114	5	C10orf18	10	5790452	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08		5790452	129744295	29	19880											
ANK3	288	hgsc.bcm.edu;ucsc.edu	37	chr10	61865763	61865764	+	Frame_Shift_Del	DEL	TT	TT	-																															tcacttcgaagaacaatgagTtctctctcttttcctctcat																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	61865764	TT	-	61865763	7	5	399	1	0	1	0	1	0	0	0	0	622	1722	60	0	10282	0	ANK3	10	61865763	Frame_Shift_Del	DEL	TT	TCGA-CJ-4905-01A-02D-1429-08	56075311	61865763	73668984	30	19881											
ABLIM1	3983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	116307474	116307474	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaagcaccccaagtgccaCtgcttatccagcgccagcag	11	7	8	15	1	0	0	0	0	0	0	1	0	1	0	5	0	5	3	5	0	4	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	116307474	C	T	116307474	2	4	399	1	0	0	0	0	0	0	0	1	94	564	20	2		2	ABLIM1	10	116307474	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	54441711	116307474	19227273	31	19882											
OR4C15	81309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55321820	55321820	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaagcactcaataattttgCacttggatgtaccaacttgt	13	13	7	8	0	1	1	1	0	0	1	1	2	1	2	1	1	4	3	1	1	5	6	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	55321820	C	A	55321820	3	1	399	1	0	0	0	0	1	0	0	0	11048	710	25	4	40	4	OR4C15	11	55321820	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08		55321820	79684696	32	19883											
PITPNM1	9600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67266179	67266179	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacggcctcgaaggcggAgctcagcgtctgcacatccg	7	6	15	13	5	2	1	1	1	1	0	4	3	3	2	2	4	3	2	2	4	1	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	67266179	A	G	67266179	3	3	399	1	0	0	0	0	1	0	0	0	11950	304	11	3	2422	3	PITPNM1	11	67266179	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08	11944359	67266179	67740337	33	19884											
NARS2	79731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	78154737	78154737	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcctctaagaaatggtatCgttcttctctgaggcctcct	7	14	8	12	1	3	2	0	1	3	1	7	2	5	2	3	2	0	3	3	2	3	4	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	78154737	C	A	78154737	3	1	399	1	0	0	0	0	1	0	0	0	10171	884	31	4	213	4	NARS2	11	78154737	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	10888558	78154737	56851779	34	19885											
EXPH5	23086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108389044	108389044	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcatgactgctggctttggGacaaatgtactgtcaactag	10	12	10	9	0	2	1	2	1	0	0	2	2	2	2	0	2	3	3	0	2	4	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	108389044	G	T	108389044	2	4	399	1	0	0	0	0	0	0	0	1	5322	1161	41	4		4	EXPH5	11	108389044	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	30234307	108389044	26617472	35	19886											
APOA5	116519	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	116661335	116661335	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctcctgcacgtggcGcccgatgccgctcaccaggc	5	6	13	17	4	1	0	1	0	0	0	2	1	2	0	4	2	4	4	4	2	0	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	116661335	G	A	116661335	3	1	399	1	0	0	0	0	1	0	0	0	784	1087	38	1	494	1	APOA5	11	116661335	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	8272291	116661335	18345181	36	19887											
GPR84	53831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54757575	54757575	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccagctaactgcaacatAacgatagcccagcacagact	14	5	6	16	1	0	1	0	0	0	1	0	2	0	1	3	0	7	3	3	0	4	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	54757575	A	G	54757575	3	3	399	1	0	0	0	0	1	0	0	0	6714	362	13	3	1133	3	GPR84	12	54757575	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08		54757575	79094320	37	19888											
FAM19A2	338811	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	62147529	62147529	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgttccactattgaagcTataagagagaaaaaaaattg	17	12	7	5	0	1	3	0	1	1	2	2	4	2	3	1	0	1	2	1	0	8	7	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	62147529	T	A	62147529	5	1	399	1	0	0	0	0	0	0	1	0	5532	1536	53	5	145	5	FAM19A2	12	62147529	Splice_Site	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	7389954	62147529	71704366	38	19889											
C12orf51	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112688106	112688106	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattctctgtcttcctctatGgtcagaggcagtggagaggg	8	12	13	8	0	4	2	1	0	3	2	6	3	5	2	1	4	0	1	1	4	2	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	112688106	G	C	112688106	2	2	399	1	0	0	0	0	0	0	0	1	1696	1335	47	4		4	C12orf51	12	112688106	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	50540577	112688106	21163789	39	19890											
FLT3	2322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	28597599	28597599	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagccttttttggtttTcatattcaatttcatctgta	7	21	4	9	0	4	0	3	0	1	0	5	0	5	0	2	1	1	2	2	1	3	10	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	28597599	T	C	28597599	3	2	399	1	0	0	0	0	1	0	0	0	5942	1783	62	3	699	3	FLT3	13	28597599	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08		28597599	86572279	40	19891											
PCDH20	64881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	61987113	61987113	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgactccagtgttttcatcCaggtgaaataaatccttaga	13	13	7	8	0	1	3	1	2	0	1	4	3	4	3	3	1	0	1	3	1	4	4	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	61987113	C	A	61987113	2	1	399	1	0	0	0	0	0	0	0	1	11515	581	21	4		4	PCDH20	13	61987113	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	33389514	61987113	53182765	41	19892											
KIAA0317	9870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75136411	75136411	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaccagctccatctcacTcatgtcattgttgaggataa	13	11	7	10	0	3	2	3	1	1	1	5	3	4	3	2	1	1	2	2	1	2	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	75136411	T	G	75136411	3	3	399	1	0	0	0	0	1	0	0	0	8167	1551	54	5	640	5	KIAA0317	14	75136411	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08		75136411	32213129	42	19893											
CORO1A	11151	broad.mit.edu	37	chr16	30199863	30199863	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggacaccgggcgcaggaGggcagcaccagaggccagtg	9	2	17	13	2	0	1	0	0	0	1	0	3	0	3	4	5	1	3	4	5	0	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	30199863	C	C	30199863	3	2	399	1	0	0	0	0	1	0	0	0	3753	1000	35	4	1281	4	CORO1A	16	30199863	Missense_Mutation	SNP	G	TCGA-CJ-4905-01A-02D-1429-08		30199863	60154890	43	19894											
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30740445	30740445	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagccccatcggccctcgTtctcctggccccagccaccc	4	6	8	23	2	1	0	0	0	1	0	4	0	1	0	9	2	2	1	9	2	0	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	30740445	T	C	30740445	2	2	399	1	0	0	0	0	0	0	0	1	15136	1712	60	3		3	SRCAP	16	30740445	Silent	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	540582	30740445	59614308	44	19895											
ZCCHC14	23174	hgsc.bcm.edu;ucsc.edu	37	chr16	87446254	87446254	+	Frame_Shift_Del	DEL	G	G	-																															tccatcatggcgctgccaaaGctcttgtccactttcatgct																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	87446254	G	-	87446254	7	5	399	1	0	1	0	1	0	0	0	0	17582	962	34	0	1195	0	ZCCHC14	16	87446254	Frame_Shift_Del	DEL	G	TCGA-CJ-4905-01A-02D-1429-08	56705809	87446254	2908499	45	19896											
CNP	1267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40120540	40120540	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtggagcccaagacggCgtggcggctggactgtgccc	5	6	18	12	3	0	1	0	0	0	1	0	3	0	3	2	6	2	2	2	6	1	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	40120540	C	T	40120540	3	4	399	1	0	0	0	0	1	0	0	0	3626	768	27	1	464	1	CNP	17	40120540	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08		40120540	41074670	46	19897											
HSD17B1	3292	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40706578	40706578	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctttcgcgaggcggcgcAgaaccctgaggaggtggcgg	7	6	18	10	5	1	2	0	1	1	1	2	4	1	3	1	6	1	1	1	6	1	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		G	40706578	A	G	40706578	3	3	399	1	0	0	0	0	1	0	0	0	7378	188	7	3	713	3	HSD17B1	17	40706578	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08	586038	40706578	40488632	47	19898											
COL1A1	1277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48267076	48267076	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgactcggccagcagcaccAgggaaaccagtagcaccctg	11	3	11	16	2	0	0	0	0	0	0	1	2	0	1	5	2	4	4	5	2	2	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	48267076	A	T	48267076	2	4	399	1	0	0	0	0	0	0	0	1	3677	175	7	5		5	COL1A1	17	48267076	Silent	SNP	A	TCGA-CJ-4905-01A-02D-1429-08	7560498	48267076	32928134	48	19899											
ZNF396	252884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	32948335	32948335	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatctgcctcctgaaagtgAcctggggcacttcagcctag	8	11	10	12	0	2	2	1	2	1	0	3	2	3	2	4	2	2	1	4	2	3	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	32948335	A	C	32948335	3	2	399	1	0	0	0	0	1	0	0	0	17881	275	10	5	23	5	ZNF396	18	32948335	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08		32948335	45128913	49	19900											
SIRT6	51548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4180866	4180866	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagaccagcctcgccagtTcccacaccttccgctccagc	7	6	7	21	2	0	1	0	0	0	1	4	1	3	1	8	0	2	2	8	0	0	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	4180866	T	A	4180866	3	1	399	1	0	0	0	0	1	0	0	0	14344	1783	62	5	988	5	SIRT6	19	4180866	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08		4180866	54948117	50	19901											
ZNF358	140467	broad.mit.edu;hgsc.bcm.edu	37	chr19	7584511	7584511	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatctcctctggcctcaCtgccaccccccaggtcttgg	4	9	7	21	0	4	0	1	0	3	0	5	0	4	0	8	3	1	0	8	3	0	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	7584511	C	T	7584511	3	4	399	1	0	0	0	0	1	0	0	0	17866	565	20	2	385	2	ZNF358	19	7584511	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	3403645	7584511	51544472	51	19902											
ZNF627	199692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11725352	11725352	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgtttcaggattcagtggCctttgaggatgtggctgtga	7	14	15	5	0	2	2	2	2	0	0	2	5	2	4	1	4	0	2	1	4	0	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	11725352	C	T	11725352	3	4	399	1	0	0	0	0	1	0	0	0	18050	739	26	2	20	2	ZNF627	19	11725352	Missense_Mutation	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	4140841	11725352	47403631	52	19903											
ZNF527	84503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37879644	37879644	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaattcaaccagagtacGtaccttagtaaagatatagg	17	9	9	6	1	1	3	1	0	0	3	1	4	1	3	2	1	3	3	2	1	10	7	rs73930983	bycluster	TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	37879644	G	A	37879644	2	1	399	1	0	0	0	0	0	0	0	1	17967	1132	40	1		1	ZNF527	19	37879644	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	26154292	37879644	21249339	53	19904											
POLD1	5424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50905132	50905132	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgaggggttctctgtctgCtgccacatccacggcttcgc	5	11	12	13	2	2	1	0	1	2	0	5	2	3	1	2	3	2	3	2	3	0	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	50905132	C	T	50905132	2	4	399	1	0	0	0	0	0	0	0	1	12190	805	28	2		2	POLD1	19	50905132	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	13025488	50905132	8223851	54	19905											
EPB41L1	2036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34778270	34778270	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccaagagactgtggaaggtCtgcatcgagcatcatacatt	12	9	11	9	1	2	1	1	0	1	1	3	4	2	2	1	2	3	2	1	2	3	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	34778270	C	T	34778270	2	4	399	1	0	0	0	0	0	0	0	1	5152	900	32	2		2	EPB41L1	20	34778270	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08		34778270	28247250	55	19906											
RBPJL	11317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	43938268	43938268	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtgcctgcagcaacagTgtgaacagactgtgcggatc	10	7	14	10	1	0	2	0	1	0	1	1	3	0	3	1	2	6	3	1	2	2	0	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	43938268	T	C	43938268	3	2	399	1	0	0	0	0	1	0	0	0	13164	1696	59	3	203	3	RBPJL	20	43938268	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08	9159998	43938268	19087252	56	19907											
PIGT	51604	broad.mit.edu;hgsc.bcm.edu	37	chr20	44049024	44049024	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacggagccctgccccctGgcttcagagagccgagtcta	7	7	11	16	2	3	1	2	0	1	1	3	4	3	2	4	2	3	1	4	2	1	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		C	44049024	G	C	44049024	2	2	399	1	0	0	0	0	0	0	0	1	11899	1335	47	4		4	PIGT	20	44049024	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	110756	44049024	18976496	57	19908											
C21orf58	54058	hgsc.bcm.edu	37	chr21	47722405	47722405	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggctaagcctacctgcagGgctgggggcagggccttgag	6	6	19	10	0	0	1	0	1	0	0	0	1	0	1	3	6	3	4	3	6	2	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	47722405	G	A	47722405	2	1	399	1	0	0	0	0	0	0	0	1	2129	1219	43	2		2	C21orf58	21	47722405	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08		47722405	407490	58	19909											
BPIL2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32853321	32853321	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagaggatgagacatagAgattccacaggaggaaacat	16	7	12	6	0	1	3	0	2	1	3	2	9	2	6	1	3	1	0	1	3	2	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	32853321	A	T	32853321	3	4	399	1	0	0	0	0	1	0	0	0	1492	304	11	5	1530	5	BPIL2	22	32853321	Missense_Mutation	SNP	A	TCGA-CJ-4905-01A-02D-1429-08		32853321	18451245	59	19910											
MTMR8	55613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	63568632	63568632	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcatctacacagcgagTgtaaaatccagagagaggct	14	8	9	10	1	3	2	2	0	1	2	4	4	4	2	1	1	2	2	1	1	3	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	63568632	T	A	63568632	3	1	399	1	0	0	0	0	1	0	0	0	9949	1696	59	5	1510	5	MTMR8	23	63568632	Missense_Mutation	SNP	T	TCGA-CJ-4905-01A-02D-1429-08		63568632	91701928	60	19911											
RGAG4	340526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	71351148	71351148	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaagaagggcagttctccCccgggaatgacttcgatctc	10	8	10	13	2	2	2	0	1	2	1	5	4	2	3	2	2	0	2	2	2	3	2	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		A	71351148	C	A	71351148	2	1	399	1	0	0	0	0	0	0	0	1	13277	610	22	4		4	RGAG4	23	71351148	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	7782516	71351148	83919412	61	19912											
ARMCX3	51566	hgsc.bcm.edu;ucsc.edu	37	chrX	100880719	100880719	+	Frame_Shift_Del	DEL	T	T	-																															tccatttctgacttttttcgTttattttcagcgggaaatga																								novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		-	100880719	T	-	100880719	7	5	399	1	0	1	0	1	0	0	0	0	961	1712	60	0	752	0	ARMCX3	23	100880719	Frame_Shift_Del	DEL	T	TCGA-CJ-4905-01A-02D-1429-08	29529571	100880719	54389841	62	19913											
GUCY2F	2986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	108691325	108691325	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaagtggggattgataaaCgttacatcctccaaagtcag	14	9	9	9	1	1	1	1	1	0	0	3	2	3	2	3	2	2	1	3	2	5	3	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	108691325	C	T	108691325	2	4	399	1	0	0	0	0	0	0	0	1	6898	523	19	1		1	GUCY2F	23	108691325	Silent	SNP	C	TCGA-CJ-4905-01A-02D-1429-08	7810606	108691325	46579235	63	19914											
RAB33A	9363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129306270	129306270	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttcagggagaagaccgtGgaaatcgagggcgagaagat	14	5	16	6	3	1	4	1	0	0	4	2	9	1	5	1	3	0	0	1	3	3	1	novel		TCGA-CJ-4905-01A-02D-1429-08	TCGA-CJ-4905-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	22eb9dc5-8d5e-4158-8edc-12ff62a612be	11fa27c3-4ea9-403e-8ae0-a1f64f314b18		T	129306270	G	T	129306270	2	4	399	1	0	0	0	0	0	0	0	1	12924	1335	47	4		4	RAB33A	23	129306270	Silent	SNP	G	TCGA-CJ-4905-01A-02D-1429-08	20614945	129306270	25964290	64	19915											
TAS1R3	83756	broad.mit.edu;hgsc.bcm.edu	37	chr1	1267928	1267928	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagttcccccagtacgtgaaGacgcacctggccctggccac	8	6	11	16	2	0	2	0	1	0	1	1	3	1	2	5	2	1	3	5	2	2	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	1267928	G	A	1267928	2	1	400	1	0	0	0	0	0	0	0	1	15563	933	33	2		2	TAS1R3	1	1267928	Silent	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		1267928	247982693	1	19916											
MTOR	2475	broad.mit.edu	37	chr1	11217230	11217230	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccccaaggcctcgaggCagcgcatgcggcccagcatc	8	5	11	17	3	0	0	0	0	0	0	3	1	1	0	4	3	3	3	4	3	1	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	11217230	A	A	11217230	3	1	400	1	0	0	0	0	1	0	0	0	9954	710	25	4	3317	4	MTOR	1	11217230	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	9949302	11217230	238033391	2	19917											
PLEKHM2	23207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16058448	16058448	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccacgccttccaggtcAttctctccgaccggccctgc	4	8	9	20	3	2	0	1	0	1	0	5	1	4	0	7	3	1	0	7	3	0	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	16058448	A	C	16058448	3	2	400	1	0	0	0	0	1	0	0	0	12081	217	8	5	2596	5	PLEKHM2	1	16058448	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	4841218	16058448	233192173	3	19918											
EPHA8	2046	broad.mit.edu	37	chr1	22902868	22902868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcaagtttaccctgcgCgactgcaacagcatgcctgg	10	8	11	12	2	1	1	1	0	0	1	1	3	1	1	2	1	6	3	2	1	3	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	22902868	T	T	22902868	2	4	400	1	0	0	0	0	0	0	0	1	5173	755	27	1		1	EPHA8	1	22902868	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	6844420	22902868	226347753	4	19919											
EXTL1	2134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26357724	26357724	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctactttttccacaagcccCcaggacttccccttctacta	8	13	3	17	0	2	0	0	0	2	0	4	1	4	1	5	1	3	0	5	1	4	7	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	26357724	C	T	26357724	2	4	400	1	0	0	0	0	0	0	0	1	5325	610	22	2		2	EXTL1	1	26357724	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	3454856	26357724	222892897	5	19920											
PLEKHH2	130271	hgsc.bcm.edu;ucsc.edu	37	chr2	43939458	43939458	+	Frame_Shift_Del	DEL	A	A	-																															acagaatgttcttcgagtacAagctgccaacccactttccc																								novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		-	43939458	A	-	43939458	7	5	400	1	0	1	0	1	0	0	0	0	12077	130	5	0	2450	0	PLEKHH2	2	43939458	Frame_Shift_Del	DEL	A	TCGA-CJ-4907-01A-01D-1429-08		43939458	199259915	6	19921											
GCC2	9648	broad.mit.edu;hgsc.bcm.edu	37	chr2	109113518	109113518	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatcacttaaacggcctgCttcgggaaacagaagcaacc	14	6	9	12	2	1	2	1	0	0	2	2	3	1	3	2	2	5	2	2	2	5	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	109113518	C	G	109113518	3	3	400	1	0	0	0	0	1	0	0	0	6286	797	28	4	4817	4	GCC2	2	109113518	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	65174060	109113518	134085855	7	19922											
THSD7B	80731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	138033572	138033572	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgggcagcagtgaagccTgtggaaaggggttacaaaca	14	6	14	7	1	0	1	0	1	0	0	0	2	0	2	1	4	5	3	1	4	5	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	138033572	T	A	138033572	3	1	400	1	0	0	0	0	1	0	0	0	15879	1580	55	5	2425	5	THSD7B	2	138033572	Missense_Mutation	SNP	T	TCGA-CJ-4907-01A-01D-1429-08	28920054	138033572	105165801	8	19923											
TTN	7273	broad.mit.edu;hgsc.bcm.edu	37	chr2	179558720	179558720	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaaataaccatcttctttGtatgcacagctggtacttta	11	15	6	9	0	2	1	0	1	2	0	2	1	2	1	1	1	4	4	1	1	5	7	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	179558720	G	T	179558720	3	4	400	1	0	0	0	0	1	0	0	0	16734	1377	48	4	73067	4	TTN	2	179558720	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	41525148	179558720	63640653	9	19924											
STT3B	201595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	31658488	31658488	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccgattaacaaaacaagaGttccagacccttttcttttt	13	13	5	10	1	1	2	0	0	1	2	2	4	2	2	3	0	2	1	3	0	4	6	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	31658488	G	C	31658488	3	2	400	1	0	0	0	0	1	0	0	0	15335	1020	36	4	1070	4	STT3B	3	31658488	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		31658488	166363942	10	19925											
KIAA2018	205717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113374665	113374665	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatttccatgagacacaGatggatgtggcaacgctggc	10	8	12	11	2	0	2	0	1	0	2	1	4	1	3	2	3	1	2	2	3	1	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	113374665	G	T	113374665	3	4	400	1	0	0	0	0	1	0	0	0	8268	942	33	4	877	4	KIAA2018	3	113374665	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	81716177	113374665	84647765	11	19926											
IGSF11	152404	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	118621704	118621704	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggattgttgctccagtatCgactgttgtaggcattggaa	8	15	12	6	1	0	0	0	0	0	0	2	3	1	2	1	3	1	6	1	3	3	7	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	118621704	C	T	118621704	3	4	400	1	0	0	0	0	1	0	0	0	7598	884	31	1	340	1	IGSF11	3	118621704	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	5247039	118621704	79400726	12	19927											
DRD5	1816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	9784913	9784913	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaacgccgttaccccCggcaaccgggaggtggacaa	10	4	12	15	4	0	0	0	0	0	0	0	2	0	2	5	4	4	2	5	4	4	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	9784913	C	T	9784913	2	4	400	1	0	0	0	0	0	0	0	1	4760	639	23	1		1	DRD5	4	9784913	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		9784913	181369363	13	19928											
CENPC1	1060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68380078	68380078	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttactgtttcacctatcaaAgcataacttgtatccagtac	12	15	4	10	0	2	0	2	0	0	0	3	0	3	0	2	0	4	4	2	0	6	8	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	68380078	A	G	68380078	2	3	400	1	0	0	0	0	0	0	0	1	3229	59	3	3		3	CENPC1	4	68380078	Silent	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	58595165	68380078	122774198	14	19929											
ADH1B	125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	100239948	100239948	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaatatttcaccttaatGcgaacttcataagccttagg	15	12	6	8	1	2	0	2	0	0	0	2	2	2	0	2	1	3	0	2	1	7	6	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	100239948	G	C	100239948	2	2	400	1	0	0	0	0	0	0	0	1	308	1306	46	4		4	ADH1B	4	100239948	Silent	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	31859870	100239948	90914328	15	19930											
NPNT	255743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106819134	106819134	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgctgctggggctgggctCgccagtcttggggacagtgt	4	10	17	10	1	1	0	0	0	1	0	2	1	1	1	1	5	2	4	1	5	0	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	106819134	C	T	106819134	3	4	400	1	0	0	0	0	1	0	0	0	10590	884	31	1	154	1	NPNT	4	106819134	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	6579186	106819134	84335142	16	19931											
COL25A1	84570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	109783657	109783657	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggttatctggttactgacCtttgacccctttgggcctct	5	16	9	11	0	2	2	0	2	2	0	2	2	2	2	4	3	1	2	4	3	2	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	109783657	C	T	109783657	2	4	400	1	0	0	0	0	0	0	0	1	3684	695	24	2		2	COL25A1	4	109783657	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	2964523	109783657	81370619	17	19932											
ZCCHC9	84240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	80600797	80600797	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttaaatgaagatgtgaatgGattcatggaatacctaagac	16	11	9	5	0	1	4	1	2	0	2	1	6	1	6	1	2	1	0	1	2	7	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	80600797	G	T	80600797	3	4	400	1	0	0	0	0	1	0	0	0	17594	1174	41	4	223	4	ZCCHC9	5	80600797	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		80600797	100314463	18	19933											
DMXL1	1657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118484562	118484562	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaatctgccacgtcaaagAatggaaaaattgatcttgca	16	9	9	7	1	3	3	1	1	2	2	3	5	3	4	1	1	2	1	1	1	5	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	118484562	A	G	118484562	3	3	400	1	0	0	0	0	1	0	0	0	4594	246	9	3	3110	3	DMXL1	5	118484562	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	37883765	118484562	62430698	19	19934											
BRD8	10902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137502346	137502346	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggctcactggcaacagtAgtgaaggaagcaagaggtgt	13	6	16	6	0	1	2	1	1	0	1	1	4	1	4	0	5	2	4	0	5	5	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	137502346	A	T	137502346	2	4	400	1	0	0	0	0	0	0	0	1	1506	407	15	5		5	BRD8	5	137502346	Silent	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	19017784	137502346	43412914	20	19935											
FAT2	2196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150925180	150925180	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tggacatagacacagaattgGaaagagggcatgctctcata	15	8	11	7	0	1	3	1	0	1	3	2	5	1	5	0	3	1	2	0	3	4	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	150925180	G	C	150925180	3	2	400	1	0	0	0	0	1	0	0	0	5690	1165	41	4	7601	4	FAT2	5	150925180	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	13422834	150925180	29990080	21	19936											
STK10	6793	broad.mit.edu;hgsc.bcm.edu	37	chr5	171481605	171481605	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagctcgctcatgttgctctCacactgcgccagcatgtccc	6	10	8	17	2	2	0	2	0	1	0	5	0	3	0	2	0	4	5	2	0	0	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	171481605	C	G	171481605	3	3	400	1	0	0	0	0	1	0	0	0	15287	835	29	4	298	4	STK10	5	171481605	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	20556425	171481605	9433655	22	19937											
DTNBP1	84062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	15627643	15627643	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggagctgctcttgcagctCcacgaggcttgtctttttct	4	15	10	12	1	3	0	0	0	3	0	4	2	4	1	1	2	4	5	1	2	0	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	15627643	C	A	15627643	4	1	400	1	0	0	0	0	0	1	0	0	4790	864	30	4	894	4	DTNBP1	6	15627643	Nonsense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		15627643	155487424	23	19938											
ATF6B	1388	broad.mit.edu	37	chr6	32095464	32095464	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataccgggacatcctgctccGggcaacggaagagctgcgtc	9	6	13	13	4	0	1	0	0	0	1	3	3	2	3	3	3	5	3	3	3	3	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	32095464	C	C	32095464	3	2	400	1	0	0	0	0	1	0	0	0	1085	1116	39	4	2024	4	ATF6B	6	32095464	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	16467821	32095464	139019603	24	19939											
CNKSR3	154043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	154743778	154743778	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaccagatttttcagctgCcatcccaccttcaaagaaag	12	11	5	13	0	3	2	3	0	0	2	4	2	4	2	4	0	2	1	4	0	2	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	154743778	C	T	154743778	4	4	400	1	0	0	0	0	0	1	0	0	3608	740	26	2	880	2	CNKSR3	6	154743778	Nonsense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	122648314	154743778	16371289	25	19940											
MAP3K4	4216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161513128	161513128	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttgcccggaagtggatGaattatgtcctgactaaatg	11	12	11	7	1	0	2	0	2	0	0	1	4	1	4	2	2	2	1	2	2	5	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	161513128	G	T	161513128	3	4	400	1	0	0	0	0	1	0	0	0	9252	1290	45	4	3272	4	MAP3K4	6	161513128	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	6769350	161513128	9601939	26	19941											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48556330	48556330	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacttttcagatatgcaacTcttccatggatgtacctgat	10	16	6	9	0	2	2	1	1	1	1	3	3	3	3	2	1	4	2	2	1	4	6	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	48556330	T	A	48556330	2	1	400	1	0	0	0	0	0	0	0	1	31	1538	54	5		5	ABCA13	7	48556330	Silent	SNP	T	TCGA-CJ-4907-01A-01D-1429-08		48556330	110582333	27	19942											
LRGUK	136332	hgsc.bcm.edu;ucsc.edu	37	chr7	133848194	133848198	+	Frame_Shift_Del	DEL	GCCCT	GCCCT	-																															caggtttggaggatctgaaaGccctgcagaacctggatctg																								novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	GCCCT	GCCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		-	133848198	GCCCT	-	133848194	7	5	400	1	0	1	0	1	0	0	0	0	8943	971	34	0	867	0	LRGUK	7	133848194	Frame_Shift_Del	DEL	GCCCT	TCGA-CJ-4907-01A-01D-1429-08	85291864	133848194	25290469	28	19943											
CNOT4	4850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135080392	135080392	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctattgttatatacctgatgTgaagaggctctgtggttctg	8	16	11	6	0	2	3	0	2	2	1	2	3	2	3	1	2	1	3	1	2	5	6	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	135080392	T	C	135080392	3	2	400	1	0	0	0	0	1	0	0	0	3621	1696	59	3	922	3	CNOT4	7	135080392	Missense_Mutation	SNP	T	TCGA-CJ-4907-01A-01D-1429-08	1232198	135080392	24058271	29	19944											
UBE3C	9690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	157049683	157049683	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcactgatgaagaaaagcGcaaactgctgaagtttgtaa	15	10	10	6	1	1	4	1	3	0	1	1	4	1	4	0	0	3	5	0	0	6	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	157049683	G	A	157049683	3	1	400	1	0	0	0	0	1	0	0	0	16880	1087	38	1	3112	1	UBE3C	7	157049683	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	21969291	157049683	2088980	30	19945											
PTPRN2	5799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	157985057	157985057	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgccgtatgggtcctggCgagcacgtctgaggctgggg	4	8	18	11	4	1	1	0	1	1	0	2	2	2	1	2	5	2	3	2	5	1	1	rs137877535	bycluster;by1000genomes	TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	157985057	C	T	157985057	3	4	400	1	0	0	0	0	1	0	0	0	12810	768	27	1	2612	1	PTPRN2	7	157985057	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	935374	157985057	1153606	31	19946											
CSMD1	64478	broad.mit.edu	37	chr8	3216686	3216686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacctacccacacaccttgGcagaggtgcactccacacac	11	5	6	19	0	0	1	0	0	0	1	1	1	1	1	5	2	2	2	5	2	1	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	3216686	A	A	3216686	3	1	400	1	0	0	0	0	1	0	0	0	3944	1203	42	2	7602	2	CSMD1	8	3216686	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		3216686	143147336	32	19947											
PSKH2	85481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87060713	87060713	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaagcgcagacagtggcGattctactatccttaagttt	13	11	8	9	2	1	1	0	0	1	1	2	2	2	1	1	1	2	2	1	1	5	5	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	87060713	G	T	87060713	4	4	400	1	0	0	0	0	0	1	0	0	12667	1059	37	4	23	4	PSKH2	8	87060713	Nonsense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	83844027	87060713	59303309	33	19948											
PABPC1	26986	broad.mit.edu;hgsc.bcm.edu	37	chr8	101719135	101719135	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacacgctgtgttgacatgActcgtggaacctgtgaagaa	12	9	11	9	2	0	4	0	3	0	1	1	5	0	5	1	1	2	2	1	1	4	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	101719135	A	T	101719135	3	4	400	1	0	0	0	0	1	0	0	0	11363	275	10	5	503	5	PABPC1	8	101719135	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	14658422	101719135	44644887	34	19949											
MTSS1	9788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125565825	125565825	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttggcttggaacatccgtCggtaggactggctgatgtcg	6	11	15	9	3	0	1	0	1	0	0	3	3	1	3	1	5	1	4	1	5	2	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	125565825	C	T	125565825	3	4	400	1	0	0	0	0	1	0	0	0	9962	884	31	1	595	1	MTSS1	8	125565825	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	23846690	125565825	20798197	35	19950											
FAM135B	51059	hgsc.bcm.edu	37	chr8	139165459	139165459	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gataaacactcaagttatgcCctacaaaaaaaaaagaaaga	23	6	5	7	0	1	2	1	0	0	2	1	3	1	2	1	0	3	1	1	0	11	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	139165459	C	A	139165459	3	1	400	1	0	0	0	0	1	0	0	0	5449	637	22	4	2993	4	FAM135B	8	139165459	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	13599634	139165459	7198563	36	19951											
LAMC3	10319	broad.mit.edu;hgsc.bcm.edu	37	chr9	133911651	133911651	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccggcacagactgtgagcGctgcctgcccttcttccagg	6	8	11	16	2	1	2	0	1	1	1	2	2	2	2	4	2	3	2	4	2	0	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	133911651	G	A	133911651	3	1	400	1	0	0	0	0	1	0	0	0	8616	1087	38	1	922	1	LAMC3	9	133911651	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		133911651	7301780	37	19952											
NEURL	9148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105330649	105330649	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actctatcgggggccccttcCccgtcacttctcaccgatgc	5	10	8	18	3	3	0	2	0	2	0	6	1	4	0	5	2	1	0	5	2	1	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	105330649	C	A	105330649	3	1	400	1	0	0	0	0	1	0	0	0	10345	623	22	4	112	4	NEURL	10	105330649	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		105330649	30204098	38	19953											
OSBPL5	114879	broad.mit.edu	37	chr11	3109495	3109495	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacacgcagagcaggaaccaGgatcgggggctctgcaggag	12	3	16	10	2	1	1	0	0	1	1	2	4	1	4	1	5	4	4	1	5	2	0	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	3109495	A	A	3109495	2	1	400	1	0	0	0	0	0	0	0	1	11280	987	35	2		2	OSBPL5	11	3109495	Silent	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		3109495	131897021	39	19954											
PPFIBP2	8495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	7663540	7663540	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatgcagaatccgaagaaCtcagtcaggaaatttctaca	15	9	7	10	1	3	2	2	0	1	2	5	4	5	3	2	1	3	1	2	1	5	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	7663540	C	T	7663540	3	4	400	1	0	0	0	0	1	0	0	0	12314	565	20	2	1591	2	PPFIBP2	11	7663540	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	4554045	7663540	127342976	40	19955											
CTNND1	1500	broad.mit.edu;ucsc.edu	37	chr11	57573944	57573944	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggaagatgagtggttcTccagaggtgagtggagtctt	9	11	15	6	0	2	4	0	2	2	2	3	6	2	6	1	4	0	1	1	4	1	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	57573944	C	C	57573944	3	2	400	1	0	0	0	0	1	0	0	0	4019	1551	54	3	1922	3	CTNND1	11	57573944	Missense_Mutation	SNP	T	TCGA-CJ-4907-01A-01D-1429-08	49910404	57573944	77432572	41	19956											
JRKL	8690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	96124831	96124831	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatgaagagaaattatcgtGcaggtcttctccagaacaac	14	9	9	9	2	2	3	0	1	2	2	4	5	2	3	1	1	3	1	1	1	5	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	96124831	G	T	96124831	3	4	400	1	0	0	0	0	1	0	0	0	7965	1319	46	4	1020	4	JRKL	11	96124831	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	38550887	96124831	38881685	42	19957											
CNTN5	53942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	99942549	99942549	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagccatttacgctagtgCtgagctgaagattctaggta	10	12	12	7	1	1	3	0	2	1	1	1	4	1	4	1	2	4	4	1	2	5	6	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	99942549	C	A	99942549	3	1	400	1	0	0	0	0	1	0	0	0	3644	797	28	4	1450	4	CNTN5	11	99942549	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	3817718	99942549	35063967	43	19958											
PAH	5053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	103240687	103240687	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttactgtggcgagcttttCaatgtattcatcaggtgcac	9	14	9	9	1	3	0	3	0	0	0	3	1	3	0	0	2	3	3	0	2	3	5	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	103240687	C	A	103240687	4	1	400	1	0	0	0	0	0	1	0	0	11394	835	29	4	423	4	PAH	12	103240687	Nonsense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		103240687	30611208	44	19959											
OAS1	4938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113346530	113346530	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaagtttgaggtccaggctCcacgctggggcaacccccgt	7	8	13	13	2	0	2	0	2	0	0	2	2	2	2	4	4	1	4	4	4	2	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	113346530	C	A	113346530	3	1	400	1	0	0	0	0	1	0	0	0	10799	855	30	4	376	4	OAS1	12	113346530	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	10105843	113346530	20505365	45	19960											
MTUS2	23281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	29599346	29599346	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagacccttgacaatgagGaactgaggaggcattctttg	13	9	11	8	0	1	4	0	3	1	1	1	6	1	6	1	3	1	1	1	3	3	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	29599346	G	T	29599346	4	4	400	1	0	0	0	0	0	1	0	0	9966	1175	41	4	543	4	MTUS2	13	29599346	Nonsense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		29599346	85570532	46	19961											
CCNA1	8900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	37014312	37014312	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcgtcaggactgagaacCtggctaaggtgtgtatgccg	8	10	15	8	2	1	1	1	1	0	1	1	3	1	2	2	3	3	2	2	3	3	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	37014312	C	T	37014312	2	4	400	1	0	0	0	0	0	0	0	1	2909	680	24	2		2	CCNA1	13	37014312	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	7414966	37014312	78155566	47	19962											
STRN3	29966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31376115	31376115	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagtgcaaatacatggcAatttttcttgtggattccat	11	16	8	6	0	1	0	0	0	1	0	2	1	2	1	1	2	2	3	1	2	4	6	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	31376115	A	T	31376115	4	4	400	1	0	0	0	0	0	1	0	0	15331	131	5	5	557	5	STRN3	14	31376115	Nonsense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08		31376115	75973425	48	19963											
FLRT2	23768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	86089519	86089519	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggcgcggtgatatttgTgctggtggtcttgctcagcg	3	12	18	8	4	2	1	1	1	1	0	2	1	2	1	0	5	3	2	0	5	1	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	86089519	T	C	86089519	3	2	400	1	0	0	0	0	1	0	0	0	5939	1696	59	3	1663	3	FLRT2	14	86089519	Missense_Mutation	SNP	T	TCGA-CJ-4907-01A-01D-1429-08	54713404	86089519	21260021	49	19964											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34137144	34137144	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacgaggaagaggaagaaGcgatggtattctttgtcctt	12	11	13	5	2	1	3	0	1	1	2	2	7	2	5	1	3	1	1	1	3	4	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	34137144	G	A	34137144	3	1	400	1	0	0	0	0	1	0	0	0	13772	971	34	2	13748	2	RYR3	15	34137144	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		34137144	68394248	50	19965											
AQR	9716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35149171	35149171	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggctggagtttcttgaCggcagctggtgtctgttgga	7	12	16	6	1	2	1	0	1	2	0	2	4	2	3	0	5	1	5	0	5	1	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	35149171	C	T	35149171	3	4	400	1	0	0	0	0	1	0	0	0	835	536	19	1	181	1	AQR	15	35149171	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	1012027	35149171	67382221	51	19966											
LOXL1	4016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	74239485	74239485	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaggtggccgagggccAcaaggccagtttctgcctgg	9	6	15	11	1	1	1	0	0	1	1	1	2	1	1	4	5	1	1	4	5	3	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	74239485	A	G	74239485	3	3	400	1	0	0	0	0	1	0	0	0	8899	159	6	3	1441	3	LOXL1	15	74239485	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	39090314	74239485	28291907	52	19967											
A2BP1	0	broad.mit.edu	37	chr16	7703894	7703894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgaggccgcggtcgcaccGtgtacaacaccttcagggcc	7	6	13	15	5	1	0	1	0	0	0	2	1	1	0	4	3	3	2	4	3	2	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	7703894	A	A	7703894	3	1	400	1	0	0	0	0	1	0	0	0	3	1145	40	1	960	1	A2BP1	16	7703894	Missense_Mutation	SNP	G	TCGA-CJ-4907-01A-01D-1429-08		7703894	82650859	53	19968											
ZC3H18	124245	broad.mit.edu;hgsc.bcm.edu	37	chr16	88697620	88697620	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggaaggccagcacgctGtctcggcgggaggagctgct	7	6	17	11	3	2	0	1	0	1	0	3	3	2	3	1	5	3	4	1	5	1	0	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	88697620	G	A	88697620	2	1	400	1	0	0	0	0	0	0	0	1	17567	1364	48	2		2	ZC3H18	16	88697620	Silent	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	80993726	88697620	1657133	54	19969											
MYST2	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	47895315	47895315	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcacggctgggacgtctctAtatgtgtgaattctgtttaa	8	15	11	7	2	2	1	0	1	2	0	3	2	2	2	0	2	1	3	0	2	4	5	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	47895315	A	G	47895315	3	3	400	1	0	0	0	0	1	0	0	0	10103	449	16	3	1131	3	MYST2	17	47895315	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08		47895315	33299895	55	19970											
PIK3C3	5289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	39567803	39567803	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctcatcgacaaggacacAtggtgaaagtagattggctg	14	8	12	7	1	1	2	1	1	0	1	2	4	1	3	0	3	1	3	0	3	4	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	39567803	A	T	39567803	3	4	400	1	0	0	0	0	1	0	0	0	11912	217	8	5	577	5	PIK3C3	18	39567803	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08		39567803	38509445	56	19971											
S1PR4	8698	broad.mit.edu	37	chr19	3179921	3179921	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcgggagcccctgtccagCatctccagcgtgcggagcat	7	7	13	14	3	1	0	0	0	1	0	3	2	2	2	4	2	6	2	4	2	0	0	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	3179921	A	A	3179921	3	1	400	1	0	0	0	0	1	0	0	0	13798	709	25	4	1133	4	S1PR4	19	3179921	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		3179921	55949062	57	19972											
PIP5K1C	23396	broad.mit.edu;hgsc.bcm.edu	37	chr19	3651895	3651895	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatggccgtggagtagagCgccttctggcccacaggccg	6	7	14	14	3	1	1	0	0	1	1	2	2	2	2	5	4	1	1	5	4	1	2	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	3651895	C	A	3651895	2	1	400	1	0	0	0	0	0	0	0	1	11941	755	27	4		4	PIP5K1C	19	3651895	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	471974	3651895	55477088	58	19973											
PTPRS	5802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	5219380	5219380	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaccacggccagcacaggCccgatcacccagataagccc	13	2	9	17	2	1	2	1	0	0	2	1	3	1	2	5	2	2	1	5	2	2	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		G	5219380	C	G	5219380	2	3	400	1	0	0	0	0	0	0	0	1	12813	726	26	4		4	PTPRS	19	5219380	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	1567485	5219380	53909603	59	19974											
RPL18	6141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49119434	49119434	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatgcggctgcgggccCggctggtcacgcgcagtgca	5	6	18	12	5	1	1	1	1	0	0	1	2	1	2	1	5	3	4	1	5	0	0	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	49119434	C	T	49119434	3	4	400	1	0	0	0	0	1	0	0	0	13566	652	23	1	255	1	RPL18	19	49119434	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08	43900054	49119434	10009549	60	19975											
PREX1	57580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47258752	47258752	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttggtctcttcgaaagcCcggctcatgactggcccctt	5	12	10	14	2	2	1	1	1	1	0	4	2	2	1	3	3	2	2	3	3	1	3	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	47258752	C	A	47258752	2	1	400	1	0	0	0	0	0	0	0	1	12478	610	22	4		4	PREX1	20	47258752	Silent	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		47258752	15766768	61	19976											
CTCFL	140690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	56089655	56089655	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaaaccactcacgtaggtcGcttttccgtgcaatgatggt	9	12	9	11	3	1	1	1	1	0	0	3	1	2	1	2	2	2	3	2	2	4	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		A	56089655	G	A	56089655	2	1	400	1	0	0	0	0	0	0	0	1	4001	1078	38	1		1	CTCFL	20	56089655	Silent	SNP	G	TCGA-CJ-4907-01A-01D-1429-08	8830903	56089655	6935865	62	19977											
APOBEC3D	140564	hgsc.bcm.edu	37	chr22	39421110	39421112	+	In_Frame_Del	DEL	CTT	CTT	-																															gagaaccacgcagaaatgtgCttcttatcttggttctgtgg																								novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		-	39421112	CTT	-	39421110	7	5	400	1	0	1	0	1	0	0	0	0	792	805	28	0	256	0	APOBEC3D	22	39421110	In_Frame_Del	DEL	CTT	TCGA-CJ-4907-01A-01D-1429-08		39421110	11883456	63	19978											
SULT4A1	25830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	44237743	44237743	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgctcgtcgatgttcAtcaagccgatctcatcgggg	7	10	13	11	4	3	0	3	0	1	0	7	3	3	1	1	3	3	3	1	3	1	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	44237743	A	C	44237743	3	2	400	1	0	0	0	0	1	0	0	0	15382	217	8	5	639	5	SULT4A1	22	44237743	Missense_Mutation	SNP	A	TCGA-CJ-4907-01A-01D-1429-08	4816633	44237743	7066823	64	19979											
ACR	49	broad.mit.edu;hgsc.bcm.edu	37	chr22	51178394	51178394	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggccggctggggatataTagaagagaaaggtgagtatg	12	8	18	3	1	0	3	0	1	0	2	0	5	0	4	1	6	0	2	1	6	6	4	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	51178394	T	C	51178394	3	2	400	1	0	0	0	0	1	0	0	0	169	1406	49	3	564	3	ACR	22	51178394	Missense_Mutation	SNP	T	TCGA-CJ-4907-01A-01D-1429-08	6940651	51178394	126172	65	19980											
GNL3L	54552	broad.mit.edu;hgsc.bcm.edu	37	chrX	54585053	54585053	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggccaggctctggcatctgCcctgaaaaataagaagaaga	14	6	12	9	0	2	4	0	1	2	3	2	4	2	4	2	3	1	2	2	3	5	1	novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		T	54585053	C	T	54585053	3	4	400	1	0	0	0	0	1	0	0	0	6538	739	26	2	1685	2	GNL3L	23	54585053	Missense_Mutation	SNP	C	TCGA-CJ-4907-01A-01D-1429-08		54585053	100685507	66	19981											
NAP1L3	4675	hgsc.bcm.edu	37	chrX	92928035	92928036	+	Frame_Shift_Ins	INS	-	-	C																															gaaatttgttcccaacggggINScccgccgcgcccttctggaa																								novel		TCGA-CJ-4907-01A-01D-1429-08	TCGA-CJ-4907-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7c69fcb9-4b94-478a-bcb3-6ebd162d9482	37409a95-7e2f-42ee-ad41-b3f5b32c7236		C	92928036	-	C	92928035	7	5	400	1	0	1	1	0	0	0	0	0	10158	1203	42	0	1255	0	NAP1L3	23	92928035	Frame_Shift_Ins	INS	-	TCGA-CJ-4907-01A-01D-1429-08	38342982	92928035	62342525	67	19982											
ZMYM6	9204	broad.mit.edu;hgsc.bcm.edu	37	chr1	35457966	35457966	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgggaagatggaaatttcAtagcatcttcctgtgtactt	11	15	9	6	0	2	1	1	0	1	1	3	3	3	3	1	2	2	2	1	2	4	6	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	35457966	A	T	35457966	3	4	401	1	0	0	0	0	1	0	0	0	17703	217	8	5	1970	5	ZMYM6	1	35457966	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08		35457966	213792655	1	19983											
C1orf103	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111494480	111494480	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttggatcgcgtcccactAggatcgatggtactcaatgg	8	13	11	9	3	1	0	1	0	0	0	4	3	2	2	1	4	1	1	1	4	3	4	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	111494480	A	T	111494480	2	4	401	1	0	0	0	0	0	0	0	1	1977	407	15	5		5	C1orf103	1	111494480	Silent	SNP	A	TCGA-CJ-4908-01A-01D-1429-08	76036514	111494480	137756141	2	19984											
IGFN1	91156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201190737	201190737	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcccgtgccatgtgggcaCcgtgccagtcaccacctaca	7	7	10	17	2	1	0	1	0	0	0	2	0	2	0	6	1	3	2	6	1	1	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	201190737	C	A	201190737	3	1	401	1	0	0	0	0	1	0	0	0	7590	507	18	4	10134	4	IGFN1	1	201190737	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08	89696257	201190737	48059884	3	19985											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188297	10188297	+	Frame_Shift_Del	DEL	T	T	-																															caatgttgacggacagcctaTttttgccaatatcacactgc																								novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		-	10188297	T	-	10188297	7	5	401	1	0	1	0	1	0	0	0	0	17161	1493	52	0	446	0	VHL	3	10188297	Frame_Shift_Del	DEL	T	TCGA-CJ-4908-01A-01D-1429-08		10188297	187834133	4	19986											
TSEN2	80746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	12544895	12544895	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaggaatgaagaggctcAagtgcatgacaagcttaact	17	7	11	6	0	1	3	1	2	0	1	1	5	1	4	0	2	3	3	0	2	7	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	12544895	A	C	12544895	3	2	401	1	0	0	0	0	1	0	0	0	16611	130	5	5	457	5	TSEN2	3	12544895	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08	2356598	12544895	185477535	5	19987											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52661377	52661377	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctcctggcaagctcttTcttctttgcctaaaacagag	8	14	7	12	0	4	1	0	0	4	1	6	1	5	1	2	1	3	2	2	1	3	4	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	52661377	T	A	52661377	4	1	401	1	0	0	0	0	0	1	0	0	11491	1792	62	5	3519	5	PBRM1	3	52661377	Nonsense_Mutation	SNP	T	TCGA-CJ-4908-01A-01D-1429-08	40116482	52661377	145361053	6	19988											
ARHGEF3	50650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	56779390	56779390	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggattctaaacatcgctgtAggaaatcctggactcggtga	11	10	12	8	2	1	1	0	1	1	0	4	4	2	4	1	4	1	2	1	4	4	3	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		G	56779390	A	G	56779390	3	3	401	1	0	0	0	0	1	0	0	0	904	420	15	3	883	3	ARHGEF3	3	56779390	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08	4118013	56779390	141243040	7	19989											
FGFR3	2261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1807850	1807850	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaagatcgcagacttcGggctggcccgggacgtgcac	8	7	15	11	4	0	4	0	2	0	2	2	5	0	5	1	3	1	3	1	3	1	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	1807850	G	T	1807850	3	4	401	1	0	0	0	0	1	0	0	0	5867	1116	39	4	2114	4	FGFR3	4	1807850	Missense_Mutation	SNP	G	TCGA-CJ-4908-01A-01D-1429-08		1807850	189346426	8	19990											
ACTBL2	345651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	56778275	56778275	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtagaatgtgtggtacCagatcttttccatatcgtcc	9	15	8	9	1	1	2	0	0	1	2	4	2	3	2	3	1	1	2	3	1	4	6	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	56778275	C	A	56778275	3	1	401	1	0	0	0	0	1	0	0	0	194	595	21	4	874	4	ACTBL2	5	56778275	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08		56778275	124136985	9	19991											
ZSCAN16	80345	hgsc.bcm.edu;ucsc.edu	37	chr6	28097728	28097729	+	Frame_Shift_Del	DEL	AT	AT	-																															accgcaaataaactctactaAtatagcagtaatatcaaaag																								novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		-	28097729	AT	-	28097728	7	5	401	1	0	1	0	1	0	0	0	0	18228	108	4	0	1057	0	ZSCAN16	6	28097728	Frame_Shift_Del	DEL	AT	TCGA-CJ-4908-01A-01D-1429-08		28097728	143017339	10	19992											
RDBP	7936	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31922556	31922556	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaggagtgggcaccactgCgttcttcatagccccagtca	8	9	11	13	1	3	1	2	1	1	0	3	2	3	2	3	2	2	2	3	2	1	3	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		G	31922556	C	G	31922556	3	3	401	1	0	0	0	0	1	0	0	0	13190	768	27	4	644	4	RDBP	6	31922556	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08	3824828	31922556	139192511	11	19993											
SLC35A1	10559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	88210968	88210968	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacagtgggtttcagttttTatgctgtgtgctggagttac	6	18	12	5	0	1	0	1	0	0	0	1	1	1	1	0	2	4	5	0	2	3	6	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	88210968	T	C	88210968	2	2	401	1	0	0	0	0	0	0	0	1	14572	1751	61	3		3	SLC35A1	6	88210968	Silent	SNP	T	TCGA-CJ-4908-01A-01D-1429-08	56288412	88210968	82904099	12	19994											
NUP205	23165	hgsc.bcm.edu;ucsc.edu	37	chr7	135292022	135292022	+	Frame_Shift_Del	DEL	T	T	-																															aggttgccctcggacatgccTtcacgccattctaaacatct																								novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		-	135292022	T	-	135292022	7	5	401	1	0	1	0	1	0	0	0	0	10759	1609	56	0	3184	0	NUP205	7	135292022	Frame_Shift_Del	DEL	T	TCGA-CJ-4908-01A-01D-1429-08		135292022	23846641	13	19995											
VPS28	51160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145649316	145649316	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgcagcctgggagtgcAgcacagggcatgtgggggct	6	7	19	9	0	1	0	0	0	1	0	1	1	1	1	1	5	4	5	1	5	0	0	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	145649316	A	C	145649316	3	2	401	1	0	0	0	0	1	0	0	0	17198	188	7	5	131	5	VPS28	8	145649316	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08		145649316	714706	14	19996											
SEMA4D	10507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	92008488	92008488	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggactcaccaaccatgacgGatgtgtagctgtgtgctggg	9	9	14	9	1	1	1	1	1	0	0	1	3	1	3	2	3	3	3	2	3	2	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	92008488	G	A	92008488	3	1	401	1	0	0	0	0	1	0	0	0	14036	1174	41	2	2701	2	SEMA4D	9	92008488	Missense_Mutation	SNP	G	TCGA-CJ-4908-01A-01D-1429-08		92008488	49204943	15	19997											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu	37	chr10	16882524	16882524	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagttgcattgtatgttccAccacaaggcactggagaggg	11	9	12	9	0	0	1	0	0	0	1	1	2	1	1	2	3	1	5	2	3	3	4	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		G	16882524	A	G	16882524	2	3	401	1	0	0	0	0	0	0	0	1	4051	146	6	3		3	CUBN	10	16882524	Silent	SNP	A	TCGA-CJ-4908-01A-01D-1429-08		16882524	118652223	16	19998											
C10orf79	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105942200	105942200	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatgattctccttgtccatgGcgctgctcagggaaattaat	10	13	9	9	1	2	1	1	1	1	0	4	2	3	2	2	2	1	2	2	2	3	3	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	105942200	G	T	105942200	3	4	401	1	0	0	0	0	1	0	0	0	1618	1203	42	4	2872	4	C10orf79	10	105942200	Missense_Mutation	SNP	G	TCGA-CJ-4908-01A-01D-1429-08	89059676	105942200	29592547	17	19999											
CNGA4	1262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6262833	6262833	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggagctggtgctgaagCtgcagccccagacctactca	9	7	13	12	0	1	2	1	1	0	1	1	4	1	4	3	3	6	4	3	3	2	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	6262833	C	A	6262833	3	1	401	1	0	0	0	0	1	0	0	0	3599	796	28	4	1108	4	CNGA4	11	6262833	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08		6262833	128743683	18	20000											
MRVI1	10335	broad.mit.edu	37	chr11	10647673	10647673	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcactttctgcagccgggggCcaggttcttcagggccactg	5	9	14	13	1	3	0	1	0	2	0	3	0	3	0	3	4	2	3	3	4	0	3	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	10647673	A	A	10647673	3	1	401	1	0	0	0	0	1	0	0	0	9853	739	26	4	1582	4	MRVI1	11	10647673	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08	4384840	10647673	124358843	19	20001											
ADRBK1	156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67050628	67050628	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgactccttctccccTgaactacgctccctgctgga	5	10	7	19	2	1	1	0	1	1	0	4	3	3	2	5	1	4	2	5	1	2	2	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	67050628	T	C	67050628	2	2	401	1	0	0	0	0	0	0	0	1	343	1567	55	3		3	ADRBK1	11	67050628	Silent	SNP	T	TCGA-CJ-4908-01A-01D-1429-08	56402955	67050628	67955888	20	20002											
DDX10	1662	broad.mit.edu;hgsc.bcm.edu	37	chr11	108810996	108810996	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccaagaagaagcaggggaTgaagaagaggagcaacagtg	18	3	15	5	0	0	5	0	1	0	4	0	7	0	7	1	3	4	2	1	3	7	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	108810996	T	C	108810996	3	2	401	1	0	0	0	0	1	0	0	0	4342	1464	51	3	2544	3	DDX10	11	108810996	Missense_Mutation	SNP	T	TCGA-CJ-4908-01A-01D-1429-08	41760368	108810996	26195520	21	20003											
C12orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49047945	49047945	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcacccatctccagccAtctgcatctggccctgttaa	8	11	6	16	0	4	0	0	0	4	0	5	0	4	0	4	1	3	3	4	1	1	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	49047945	A	C	49047945	3	2	401	1	0	0	0	0	1	0	0	0	1687	217	8	5	121	5	C12orf41	12	49047945	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08		49047945	84803950	22	20004											
ABCA3	21	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2328063	2328063	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtgcacagggcctcacactCctccatgctgtggagagggc	7	7	14	13	0	1	1	1	0	0	1	3	2	3	1	3	4	2	2	3	4	0	0	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	2328063	C	T	2328063	3	4	401	1	0	0	0	0	1	0	0	0	33	864	30	2	400	2	ABCA3	16	2328063	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08		2328063	88026690	23	20005											
SUPT6H	6830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27023953	27023953	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccatggaccagggtgaTgtgattatccgaccaagcag	12	7	13	9	1	0	3	0	2	0	1	1	6	1	4	4	2	1	1	4	2	2	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	27023953	T	C	27023953	2	2	401	1	0	0	0	0	0	0	0	1	15399	1461	51	3		3	SUPT6H	17	27023953	Silent	SNP	T	TCGA-CJ-4908-01A-01D-1429-08		27023953	54171257	24	20006											
ACACA	31	broad.mit.edu;hgsc.bcm.edu	37	chr17	35581913	35581913	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atatatatatatatatatacCtgcaggttctcaatgcaaaa	17	14	4	6	0	1	0	1	0	1	0	2	0	1	0	1	1	3	3	1	1	12	10	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	35581913	C	T	35581913	2	4	401	1	0	0	0	0	0	0	0	1	106	695	24	2		2	ACACA	17	35581913	Silent	SNP	C	TCGA-CJ-4908-01A-01D-1429-08	8557960	35581913	45613297	25	20007											
KIAA1267	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	44248412	44248412	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcagaaagttgctaagTccctctgaagtggtggtctc	8	14	10	9	0	3	2	1	1	2	1	5	2	4	2	1	2	1	2	1	2	3	4	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		C	44248412	T	C	44248412	2	2	401	1	0	0	0	0	0	0	0	1	8219	1654	58	3		3	KIAA1267	17	44248412	Silent	SNP	T	TCGA-CJ-4908-01A-01D-1429-08	8666499	44248412	36946798	26	20008											
SCRN2	90507	broad.mit.edu;ucsc.edu	37	chr17	45918176	45918176	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggagacaaagcagtcgcAggaacatggggagtcagggc	13	3	16	9	2	1	1	1	0	0	1	2	4	1	3	0	5	2	2	0	5	2	0	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	45918176	T	T	45918176	3	4	401	1	0	0	0	0	1	0	0	0	13941	188	7	5	1289	5	SCRN2	17	45918176	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08	1669764	45918176	35277034	27	20009											
MXRA7	439921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74673741	74673741	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccaaacgtctccttgttgtCtttcatgagcttgaagatgg	8	14	10	9	1	3	3	1	2	2	1	4	3	3	3	2	1	2	2	2	1	2	4	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		G	74673741	C	G	74673741	3	3	401	1	0	0	0	0	1	0	0	0	10004	913	32	4	74	4	MXRA7	17	74673741	Missense_Mutation	SNP	C	TCGA-CJ-4908-01A-01D-1429-08	28755565	74673741	6521469	28	20010											
MLLT1	4298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6270745	6270745	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttgggcgcgatgccccAgctctaacctcacctggacg	7	7	12	15	3	2	0	1	0	1	0	2	2	2	1	4	2	3	3	4	2	1	2	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	6270745	A	T	6270745	3	4	401	1	0	0	0	0	1	0	0	0	9625	188	7	5	1685	5	MLLT1	19	6270745	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08		6270745	52858238	29	20011											
ACSS2	55902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33500951	33500951	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacataccatcagcttctgGtccaagtgtgtcagttcagc	9	12	8	12	0	5	0	4	0	1	0	6	0	6	0	2	1	3	2	2	1	2	3	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	33500951	G	T	33500951	3	4	401	1	0	0	0	0	1	0	0	0	189	1261	44	4	437	4	ACSS2	20	33500951	Missense_Mutation	SNP	G	TCGA-CJ-4908-01A-01D-1429-08		33500951	29524569	30	20012											
COL18A1	80781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	46912469	46912469	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatccgtcctgagcgtgccGggacctgaggtatgtgcctg	5	9	16	11	3	0	2	0	2	0	0	2	4	2	4	5	3	3	1	5	3	1	1	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		A	46912469	G	A	46912469	2	1	401	1	0	0	0	0	0	0	0	1	3675	1103	39	1		1	COL18A1	21	46912469	Silent	SNP	G	TCGA-CJ-4908-01A-01D-1429-08		46912469	1217426	31	20013											
VSIG1	340547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	107319363	107319363	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagcctggtaggtgccgccAtcatcatctctgttgtgtgc	5	13	12	11	1	3	0	2	0	1	0	4	0	3	0	3	2	3	3	3	2	2	3	novel		TCGA-CJ-4908-01A-01D-1429-08	TCGA-CJ-4908-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dbc5420c-5c60-4d1e-8554-9d2f6e55c502	19effa42-4c58-4a24-9cd0-264cf686c9dc		T	107319363	A	T	107319363	3	4	401	1	0	0	0	0	1	0	0	0	17221	217	8	5	879	5	VSIG1	23	107319363	Missense_Mutation	SNP	A	TCGA-CJ-4908-01A-01D-1429-08		107319363	47951197	32	20014											
KLHL21	9903	broad.mit.edu;hgsc.bcm.edu	37	chr1	6655551	6655551	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctgaaaatttacctgattCatggacgggatcttgtccca	10	12	9	10	1	2	2	1	2	1	0	3	4	3	4	3	2	1	0	3	2	3	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	6655551	C	T	6655551	3	4	402	1	0	0	0	0	1	0	0	0	8376	826	29	2	307	2	KLHL21	1	6655551	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08		6655551	242595070	1	20015											
CLSTN1	22883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	9809930	9809930	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacggtcagcttatattgatGttctttcccgtagtttaatt	8	18	8	7	2	2	1	1	1	1	0	3	2	3	1	1	1	1	4	1	1	4	9	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	9809930	G	T	9809930	3	4	402	1	0	0	0	0	1	0	0	0	3561	1377	48	4	2310	4	CLSTN1	1	9809930	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	3154379	9809930	239440691	2	20016											
ARID1A	8289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27107213	27107213	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcattggtttcacaagtcaTttgtgatgtactgtttttga	8	19	8	6	0	3	2	3	2	0	0	3	2	3	2	0	1	1	3	0	1	2	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	27107213	T	C	27107213	3	2	402	1	0	0	0	0	1	0	0	0	913	1493	52	3	6902	3	ARID1A	1	27107213	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	17297283	27107213	222143408	3	20017											
SLC9A1	6548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	27440753	27440753	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agctctccgggacgatgcttGagatagtggggatcacatgg	9	9	15	8	2	2	1	1	1	1	1	3	5	2	3	1	4	2	2	1	4	1	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	27440753	G	C	27440753	4	2	402	1	0	0	0	0	0	1	0	0	14711	1294	45	4	2114	4	SLC9A1	1	27440753	Nonsense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	333540	27440753	221809868	4	20018											
CSMD2	114784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	34052715	34052715	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcttcattctctgtgaCgacttcggcgttggggagga	7	13	13	8	3	3	1	1	1	2	0	5	5	3	3	0	4	0	1	0	4	1	5	rs143826784		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	34052715	C	T	34052715	3	4	402	1	0	0	0	0	1	0	0	0	3945	536	19	1	3643	1	CSMD2	1	34052715	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	6611962	34052715	215197906	5	20019											
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35580008	35580008	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccaaatttgaatttgtCttttgtttgaaattcctgta	9	21	6	5	0	1	2	0	2	1	0	3	2	3	2	2	0	0	3	2	0	4	8	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	35580008	C	A	35580008	2	1	402	1	0	0	0	0	0	0	0	1	17698	900	32	4		4	ZMYM1	1	35580008	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	1527293	35580008	213670613	6	20020											
BCAR3	8412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94048304	94048304	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggagacgagggaacctTgaggaacggcaccttgcagg	12	4	17	8	2	0	3	0	1	0	2	0	7	0	5	2	5	3	2	2	5	2	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	94048304	T	C	94048304	3	2	402	1	0	0	0	0	1	0	0	0	1349	1821	63	3	1261	3	BCAR3	1	94048304	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	58468296	94048304	155202317	7	20021											
BCAR3	8412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94048425	94048425	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgaaccactgctgggctcagGgcaggctcgcttcccgtcct	5	8	12	16	3	1	0	1	0	0	0	4	1	3	0	3	3	2	5	3	3	1	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	94048425	G	T	94048425	2	4	402	1	0	0	0	0	0	0	0	1	1349	1219	43	4		4	BCAR3	1	94048425	Silent	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	121	94048425	155202196	8	20022											
NOTCH2	4853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120468210	120468210	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccgtgtagagttcacagCggctacccgagaatggtggg	8	8	16	9	3	1	2	1	0	0	2	1	3	1	2	2	3	3	3	2	3	3	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	120468210	C	T	120468210	2	4	402	1	0	0	0	0	0	0	0	1	10548	768	27	1		1	NOTCH2	1	120468210	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	26419785	120468210	128782411	9	20023											
RC3H1	149041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	173934019	173934019	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactactgctcagatgatctAtttttcctggtttcagacta	9	16	6	10	0	3	3	2	1	1	2	4	3	4	3	1	1	2	2	1	1	3	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	173934019	A	G	173934019	3	3	402	1	0	0	0	0	1	0	0	0	13168	449	16	3	1871	3	RC3H1	1	173934019	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	53465809	173934019	75316602	10	20024											
RNASEL	6041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	182544563	182544563	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacccactggccccaccAgctccatcacactgaggctt	9	6	7	19	0	1	1	1	1	0	0	2	1	2	1	6	2	2	2	6	2	1	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	182544563	A	G	182544563	2	3	402	1	0	0	0	0	0	0	0	1	13418	175	7	3		3	RNASEL	1	182544563	Silent	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	8610544	182544563	66706058	11	20025											
EMILIN1	11117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27307380	27307380	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcaaggacgggcaagaGggccccatcgggccaccagg	10	1	16	14	2	0	1	0	0	0	1	1	2	0	2	5	6	0	2	5	6	2	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	27307380	G	C	27307380	3	2	402	1	0	0	0	0	1	0	0	0	5093	991	35	4	2556	4	EMILIN1	2	27307380	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		27307380	215891993	12	20026											
KCNH7	90134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	163236424	163236424	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccccgtaggtgaggtcgcTttcggtttcagagatacccc	6	12	11	12	3	1	2	1	1	0	1	4	3	2	2	4	3	1	3	4	3	2	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	163236424	T	G	163236424	3	3	402	1	0	0	0	0	1	0	0	0	8037	1609	56	5	532	5	KCNH7	2	163236424	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	135929044	163236424	79962949	13	20027											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179427281	179427281	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggggtggttcagacaCtttaacgggttctgttgttt	6	15	15	5	1	2	1	1	0	1	1	2	2	2	2	0	5	1	4	0	5	1	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	179427281	C	G	179427281	3	3	402	1	0	0	0	0	1	0	0	0	16734	565	20	4	24549	4	TTN	2	179427281	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	16190857	179427281	63772092	14	20028											
RNPEPL1	57140	broad.mit.edu	37	chr2	241514017	241514017	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgggagaggacagcccggtCagcaaactgcaggtcaagct	11	5	14	11	1	2	1	2	0	0	1	2	3	2	2	1	4	5	3	1	4	2	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	241514017	T	T	241514017	2	4	402	1	0	0	0	0	0	0	0	1	13512	813	29	2		2	RNPEPL1	2	241514017	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	62086736	241514017	1685356	15	20029											
CAMK1	8536	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9809372	9809383	+	In_Frame_Del	DEL	TCGTAGATGTCT	TCGTAGATGTCT	-																															tgcccagaacatctcggaagTcgtagatgtctctaatgtcc																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	TCGTAGATGTCT	TCGTAGATGTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	9809383	TCGTAGATGTCT	-	9809372	7	5	402	1	0	1	0	1	0	0	0	0	2596	1667	58	0	1094	0	CAMK1	3	9809372	In_Frame_Del	DEL	TCGTAGATGTCT	TCGA-CJ-4912-01A-01D-1429-08		9809372	188213058	16	20030											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188204	10188204	+	Frame_Shift_Del	DEL	T	T	-																															gcttgtcccgataggtcaccTttggctcttcagagatgcag																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	10188204	T	-	10188204	7	5	402	1	0	1	0	1	0	0	0	0	17161	1609	56	0	353	0	VHL	3	10188204	Frame_Shift_Del	DEL	T	TCGA-CJ-4912-01A-01D-1429-08	378832	10188204	187834226	17	20031											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52621512	52621515	+	Frame_Shift_Del	DEL	ACAA	ACAA	-																															tcggtaaaaccaacagccatAcaaccatttttcacctcaaa																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	ACAA	ACAA	ACAA	-	ACAA	ACAA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	52621515	ACAA	-	52621512	7	5	402	1	0	1	0	1	0	0	0	0	11491	391	14	0	1968	0	PBRM1	3	52621512	Frame_Shift_Del	DEL	ACAA	TCGA-CJ-4912-01A-01D-1429-08	42433308	52621512	145400918	18	20032											
FAM19A4	151647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	68802104	68802104	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaccgctcttctatgcGgttcttattgcagcacctgt	5	16	9	11	2	3	1	0	1	3	0	3	1	3	1	2	1	3	4	2	1	2	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	68802104	G	A	68802104	3	1	402	1	0	0	0	0	1	0	0	0	5534	1116	39	1	238	1	FAM19A4	3	68802104	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	16180592	68802104	129220326	19	20033											
TNIK	23043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170893117	170893117	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catggggtgcatgtcacagaGagctgcaagagaccaaaaca	15	5	12	9	0	1	2	1	0	0	2	1	4	1	2	1	2	4	3	1	2	3	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	170893117	G	A	170893117	3	1	402	1	0	0	0	0	1	0	0	0	16312	942	33	2	3485	2	TNIK	3	170893117	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	102091013	170893117	27129313	20	20034											
LRRC33	375387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196387275	196387275	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccttcgagctggagaCgctggacctgtctcacaacc	7	8	12	14	2	1	1	1	0	1	1	3	4	1	2	3	3	3	3	3	3	1	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	196387275	C	T	196387275	3	4	402	1	0	0	0	0	1	0	0	0	8988	536	19	1	767	1	LRRC33	3	196387275	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	25494158	196387275	1635155	21	20035											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85664902	85664902	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatcacgctatccaaaatGtaagtttgaaattctttttg	12	16	5	8	1	2	1	1	1	1	0	4	1	4	1	2	0	0	3	2	0	5	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	85664902	G	A	85664902	2	1	402	1	0	0	0	0	0	0	0	1	17269	1372	48	2		2	WDFY3	4	85664902	Silent	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		85664902	105489374	22	20036											
BANK1	55024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	102751087	102751087	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttatatcgcttggagaatTtctcttttcggcatttggag	7	18	10	6	2	1	1	0	0	1	1	4	3	1	2	0	3	0	3	0	3	3	7	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	102751087	T	A	102751087	3	1	402	1	0	0	0	0	1	0	0	0	1309	1841	64	5	199	5	BANK1	4	102751087	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	17086185	102751087	88403189	23	20037											
BDH2	56898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	104000886	104000886	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagcctccatcaatgatGacagggttaccagttacata	12	10	7	12	0	1	2	1	2	0	0	3	2	3	2	4	1	3	2	4	1	4	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	104000886	G	T	104000886	2	4	402	1	0	0	0	0	0	0	0	1	1391	1277	45	4		4	BDH2	4	104000886	Silent	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	1249799	104000886	87153390	24	20038											
MYO10	4651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	16711272	16711272	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttcggaccgcatacccaGctttgcggattctcacagtc	7	11	9	14	3	2	0	1	0	2	0	5	2	2	2	2	2	3	2	2	2	1	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	16711272	G	C	16711272	3	2	402	1	0	0	0	0	1	0	0	0	10062	971	34	4	4252	4	MYO10	5	16711272	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		16711272	164203988	25	20039											
HEATR7B2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41065513	41065513	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaagttactttgtactTcatacatcacagagttgaaa	13	14	6	8	0	2	3	2	2	0	1	3	3	3	3	1	0	3	3	1	0	5	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	41065513	T	G	41065513	3	3	402	1	0	0	0	0	1	0	0	0	7035	1783	62	5	4632	5	HEATR7B2	5	41065513	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	24354241	41065513	139849747	26	20040											
IPO11	51194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	61779118	61779118	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagccatccaaaaattttgAaggtaattcctttattggca	14	14	6	7	0	0	1	0	1	0	0	2	1	2	1	3	2	1	2	3	2	6	8	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	61779118	A	C	61779118	3	2	402	1	0	0	0	0	1	0	0	0	7793	246	9	5	1177	5	IPO11	5	61779118	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	20713605	61779118	119136142	27	20041											
MCCC2	64087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70945080	70945080	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgtggcagagcatataGgtaggtgtcatgattttctc	9	14	13	5	0	2	2	1	1	1	1	3	3	2	2	0	3	1	3	0	3	3	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	70945080	G	A	70945080	3	1	402	1	0	0	0	0	1	0	0	0	9375	1014	35	2	1427	2	MCCC2	5	70945080	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	9165962	70945080	109970180	28	20042											
RAD50	10111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131930637	131930637	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggaagagcagttgtccAgttacgaagacaagctgttt	14	9	12	6	1	0	2	0	0	0	2	1	5	1	3	1	1	3	5	1	1	5	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	131930637	A	G	131930637	3	3	402	1	0	0	0	0	1	0	0	0	12986	188	7	3	1916	3	RAD50	5	131930637	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	60985557	131930637	48984623	29	20043											
ADRB2	154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	148207220	148207220	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaagccctcaagacgttaGgcatcatcatgggcactttc	12	9	8	12	1	3	1	3	0	0	1	4	1	3	1	1	2	1	3	1	2	3	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	148207220	G	C	148207220	3	2	402	1	0	0	0	0	1	0	0	0	341	1000	35	4	828	4	ADRB2	5	148207220	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	16276583	148207220	32708040	30	20044											
NSD1	64324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176562309	176562309	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaagattctccatcttgtTacattccactgcggagacta	11	12	7	11	1	2	2	0	0	2	2	4	4	3	2	2	1	2	1	2	1	3	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	176562309	T	C	176562309	3	2	402	1	0	0	0	0	1	0	0	0	10669	1754	61	3	207	3	NSD1	5	176562309	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	28355089	176562309	4352951	31	20045											
RMND5B	64777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	177574549	177574549	+	Frame_Shift_Del	DEL	T	T	-																															tgcagctttgcctctggctgTgtggcgctgcctgtgttgat																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	177574549	T	-	177574549	7	5	402	1	0	1	0	1	0	0	0	0	13400	1702	59	0	902	0	RMND5B	5	177574549	Frame_Shift_Del	DEL	T	TCGA-CJ-4912-01A-01D-1429-08	1012240	177574549	3340711	32	20046											
SYCP2L	221711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	10907856	10907856	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgaacttgtccataaatGgtttgatgatgaagtcattg	12	14	11	4	0	1	4	1	4	0	0	2	5	2	5	1	2	1	1	1	2	4	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	10907856	G	C	10907856	3	2	402	1	0	0	0	0	1	0	0	0	15432	1357	47	4	796	4	SYCP2L	6	10907856	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		10907856	160207211	33	20047											
FAM83B	222584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54805594	54805594	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccattgcagtcagaggcaCcaaaaatgcacaccttgcag	13	7	8	13	0	1	1	1	0	0	1	2	1	2	1	3	1	3	4	3	1	2	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	54805594	C	T	54805594	3	4	402	1	0	0	0	0	1	0	0	0	5634	507	18	2	1839	2	FAM83B	6	54805594	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	43897738	54805594	116309473	34	20048											
ZNF292	23036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	87969169	87969169	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaaattaagaagaatcAattgaaatttgctcccttta	15	15	5	6	0	2	4	1	2	1	2	3	4	3	4	1	0	1	1	1	0	7	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	87969169	A	C	87969169	3	2	402	1	0	0	0	0	1	0	0	0	17825	130	5	5	5852	5	ZNF292	6	87969169	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	33163575	87969169	83145898	35	20049											
AKAP7	9465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	131540937	131540937	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttattatcactgtgaatcttCcattgtgattggtgagtgtc	8	18	9	6	0	2	3	1	3	1	0	4	3	3	3	1	1	0	0	1	1	3	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	131540937	C	A	131540937	3	1	402	1	0	0	0	0	1	0	0	0	456	855	30	4	795	4	AKAP7	6	131540937	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	43571768	131540937	39574130	36	20050											
FAM54A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	136562720	136562720	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggtcatttttcacagtttCtttctgtcttacagcaggtg	7	17	8	9	0	5	0	2	0	3	0	5	0	5	0	0	2	2	2	0	2	1	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	136562720	C	G	136562720	3	3	402	1	0	0	0	0	1	0	0	0	5582	922	32	4	797	4	FAM54A	6	136562720	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	5021783	136562720	34552347	37	20051											
IGF2R	3482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160471666	160471666	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accacgaggatccatctcgtCtgctccaggggcaggctggt	7	8	13	13	2	2	0	0	0	2	0	5	2	4	1	3	5	1	3	3	5	0	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	160471666	C	T	160471666	2	4	402	1	0	0	0	0	0	0	0	1	7576	900	32	2		2	IGF2R	6	160471666	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	23908946	160471666	10643401	38	20052											
ZNF713	349075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	56007482	56007482	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagagaaaccttacgaatGtggtttctgtggcaaagcct	11	10	12	8	2	1	1	0	0	1	1	1	4	1	2	2	3	3	2	2	3	4	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	56007482	G	A	56007482	3	1	402	1	0	0	0	0	1	0	0	0	18116	1377	48	2	1090	2	ZNF713	7	56007482	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		56007482	103131181	39	20053											
GTF2I	2969	hgsc.bcm.edu	37	chr7	74149837	74149840	+	Frame_Shift_Del	DEL	AAGA	AAGA	-																															tatgccagaatcactaaattAagaaagatggtggatcagct																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	AAGA	AAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	74149840	AAGA	-	74149837	7	5	402	1	0	1	0	1	0	0	0	0	6867	359	13	0	1460	0	GTF2I	7	74149837	Frame_Shift_Del	DEL	AAGA	TCGA-CJ-4912-01A-01D-1429-08	18142355	74149837	84988826	40	20054											
COL1A2	1278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94050324	94050324	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttgtttgcatttagggtCcaaatggtccccccggtcct	5	16	9	11	1	0	0	0	0	0	0	3	0	3	0	5	3	1	2	5	3	2	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	94050324	C	A	94050324	3	1	402	1	0	0	0	0	1	0	0	0	3678	855	30	4	2449	4	COL1A2	7	94050324	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	19900487	94050324	65088339	41	20055											
LMTK2	22853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	97766647	97766647	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaggcgccacctgctgcaGaagtttcctcatcttttgtg	6	12	12	11	1	2	1	1	0	1	1	3	2	3	2	3	2	2	3	3	2	1	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	97766647	G	A	97766647	3	1	402	1	0	0	0	0	1	0	0	0	8859	943	33	2	130	2	LMTK2	7	97766647	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	3716323	97766647	61372016	42	20056											
RBM28	55131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127961369	127961369	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtagcactcagcagcagctTtctgagctgtttgtcatcta	9	13	9	10	0	4	1	2	1	2	0	4	1	4	1	0	0	5	7	0	0	2	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	127961369	T	A	127961369	4	1	402	1	0	0	0	0	0	1	0	0	13130	1850	64	5	790	5	RBM28	7	127961369	Nonsense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	30194722	127961369	31177294	43	20057											
SVOPL	136306	broad.mit.edu;hgsc.bcm.edu	37	chr7	138333763	138333763	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtgcttccccaccttgaaGgccacgatgaggatgatgcc	10	8	11	12	1	0	3	0	3	0	0	1	5	1	4	5	2	2	1	5	2	2	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	138333763	G	T	138333763	2	4	402	1	0	0	0	0	0	0	0	1	15423	987	35	4		4	SVOPL	7	138333763	Silent	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	10372394	138333763	20804900	44	20058											
UBN2	254048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138944050	138944050	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgatattgagatgaagaAgcggaagcggaaagaggaag	18	5	16	2	2	0	6	0	3	0	4	0	10	0	9	0	3	2	0	0	3	6	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	138944050	A	G	138944050	3	3	402	1	0	0	0	0	1	0	0	0	16892	72	3	3	857	3	UBN2	7	138944050	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	610287	138944050	20194613	45	20059											
CUL1	8454	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148454216	148454216	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgaatgtgacgaaggaCgaaaaggaatatatgaaatc	17	7	12	5	3	0	3	0	3	0	0	1	7	0	5	1	2	0	0	1	2	8	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	148454216	C	T	148454216	4	4	402	1	0	0	0	0	0	1	0	0	4054	528	19	1	467	1	CUL1	7	148454216	Nonsense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	9510166	148454216	10684447	46	20060											
MYBL1	4603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67484765	67484765	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagcagcaagcgcattCttaaaaggagtaggagttct	12	10	11	8	1	2	1	0	1	2	0	3	3	3	3	1	2	3	5	1	2	4	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	67484765	C	A	67484765	3	1	402	1	0	0	0	0	1	0	0	0	10009	912	32	4	598	4	MYBL1	8	67484765	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08		67484765	78879257	47	20061											
ARFGEF1	10565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	68111271	68111271	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacagcacgaagttcaggAatcaagtcaaattgcataat	18	8	8	7	1	3	1	3	0	0	1	3	3	3	2	0	1	3	3	0	1	6	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	68111271	A	G	68111271	2	3	402	1	0	0	0	0	0	0	0	1	852	242	9	3		3	ARFGEF1	8	68111271	Silent	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	626506	68111271	78252751	48	20062											
KANK1	23189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	732501	732501	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaggatgaagacacTcggggaatggcagaagggca	14	3	19	5	1	0	3	0	1	0	2	1	8	0	7	0	7	0	2	0	7	3	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	732501	T	C	732501	2	2	402	1	0	0	0	0	0	0	0	1	7976	1538	54	3		3	KANK1	9	732501	Silent	SNP	T	TCGA-CJ-4912-01A-01D-1429-08		732501	140480930	49	20063											
RABGAP1	23637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125782628	125782628	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccgaagcagttgtcatccTtagtaagaaacggtgtccct	11	10	10	10	2	1	1	1	0	0	1	3	3	3	1	3	1	2	3	3	1	4	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	125782628	T	C	125782628	2	2	402	1	0	0	0	0	0	0	0	1	12966	1606	56	3		3	RABGAP1	9	125782628	Silent	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	125050127	125782628	15430803	50	20064											
C9orf163	158055	broad.mit.edu	37	chr9	139379131	139379131	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatatccgtgccacgccaGcagggccgcaggcggtgcag	7	5	16	13	4	0	1	0	1	0	0	1	1	1	1	4	3	3	3	4	3	1	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	139379131	A	A	139379131	2	1	402	1	0	0	0	0	0	0	0	1	2467	962	34	2		2	C9orf163	9	139379131	Silent	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	13596503	139379131	1834300	51	20065											
PRTFDC1	56952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	25145923	25145923	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcccagttccgacaacaTcctttgcaaaaaggacagat	13	9	6	13	1	0	1	0	0	0	1	4	3	4	2	4	1	2	2	4	1	3	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	25145923	T	G	25145923	3	3	402	1	0	0	0	0	1	0	0	0	12639	1449	50	5	268	5	PRTFDC1	10	25145923	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08		25145923	110388824	52	20066											
GBF1	8729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104126846	104126846	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctttgctttttcagaattGtaatggctccccatttgcca	8	17	6	10	0	2	1	1	0	1	1	3	1	3	1	3	1	2	3	3	1	2	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	104126846	G	C	104126846	3	2	402	1	0	0	0	0	1	0	0	0	6271	1377	48	4	2509	4	GBF1	10	104126846	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	78980923	104126846	31407901	53	20067											
SEC23IP	11196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	121657969	121657969	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgttggtgaggaggacaGcttccttggtcagacttcta	9	12	13	7	0	2	3	1	1	1	2	3	5	3	5	1	4	1	2	1	4	1	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	121657969	G	C	121657969	3	2	402	1	0	0	0	0	1	0	0	0	13995	971	34	4	200	4	SEC23IP	10	121657969	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	17531123	121657969	13876778	54	20068											
GPR123	84435	broad.mit.edu;hgsc.bcm.edu	37	chr10	134942620	134942620	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccctactttagccggcacCcagcagaggagcccgagtac	9	5	11	16	3	0	1	0	0	0	1	0	3	0	2	4	2	5	3	4	2	3	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	134942620	C	G	134942620	3	3	402	1	0	0	0	0	1	0	0	0	6637	623	22	4	1310	4	GPR123	10	134942620	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	13284651	134942620	592127	55	20069											
ZNF215	7762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6953811	6953811	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcaatcctgcctgaagAagtcaggacttgggtgaatt	10	10	12	9	0	1	3	1	2	0	1	2	4	2	4	3	3	1	1	3	3	4	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	6953811	A	C	6953811	3	2	402	1	0	0	0	0	1	0	0	0	17770	246	9	5	310	5	ZNF215	11	6953811	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08		6953811	128052705	56	20070											
SLC5A12	159963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	26718743	26718743	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaggcacaagccacaaaAagtcctggcagtcctggcat	13	6	10	12	0	0	1	0	1	0	0	2	1	2	1	3	3	1	3	3	3	4	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	26718743	A	G	26718743	2	3	402	1	0	0	0	0	0	0	0	1	14666	1	1	3		3	SLC5A12	11	26718743	Silent	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	19764932	26718743	108287773	57	20071											
NUP160	23279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47827752	47827752	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtaatcatttcaggccaAttcaatccagtttggctcag	11	12	8	10	0	4	0	4	0	0	0	5	0	5	0	2	2	0	4	2	2	3	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	47827752	A	C	47827752	3	2	402	1	0	0	0	0	1	0	0	0	10757	98	4	5	1819	5	NUP160	11	47827752	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	21109009	47827752	87178764	58	20072											
ZDHHC5	25921	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57457522	57457522	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaatttgatcatcactgccCctgggtgaataactgtattg	10	13	10	8	0	2	2	2	2	0	0	2	3	2	3	2	2	2	1	2	2	4	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	57457522	C	T	57457522	3	4	402	1	0	0	0	0	1	0	0	0	17617	623	22	2	418	2	ZDHHC5	11	57457522	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	9629770	57457522	77548994	59	20073											
SHANK2	22941	broad.mit.edu;hgsc.bcm.edu	37	chr11	70338536	70338536	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttctcagcagcgcgggaGggcttggaggccgggactat	7	8	17	9	3	1	0	1	0	1	0	2	3	1	3	1	5	2	3	1	5	1	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	70338536	G	T	70338536	3	4	402	1	0	0	0	0	1	0	0	0	14267	987	35	4	3226	4	SHANK2	11	70338536	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	12881014	70338536	64667980	60	20074											
MPZL2	10205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118133279	118133279	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaaggatggaggcatcgtAccgctcaggattcccatccc	10	7	12	12	2	1	1	1	0	0	1	4	5	3	4	3	4	1	3	3	4	2	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	118133279	A	G	118133279	3	3	402	1	0	0	0	0	1	0	0	0	9750	391	14	3	349	3	MPZL2	11	118133279	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	47794743	118133279	16873237	61	20075											
MLL	4297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118370617	118370617	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgaagataagctctttccTattggatatcagtaagtagc	12	14	9	6	0	2	2	1	1	1	1	3	3	3	3	1	1	2	3	1	1	6	7	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	118370617	T	A	118370617	2	1	402	1	0	0	0	0	0	0	0	1	9620	1509	53	5		5	MLL	11	118370617	Silent	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	237338	118370617	16635899	62	20076											
WNK1	65125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	936351	936351	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacaacatctttatcaccgGccctactggctcagtcaaga	11	10	7	13	1	4	2	3	1	1	1	4	2	4	2	2	2	2	1	2	2	4	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	936351	G	C	936351	3	2	402	1	0	0	0	0	1	0	0	0	17376	1203	42	4	1086	4	WNK1	12	936351	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		936351	132915544	63	20077											
FOXM1	2305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2983386	2983386	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtcagtgctgtgatgaTgctgtgaatattagcattgt	9	14	13	5	0	1	3	1	3	0	0	1	3	1	3	0	1	3	4	0	1	3	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	2983386	T	A	2983386	3	1	402	1	0	0	0	0	1	0	0	0	6018	1464	51	5	2182	5	FOXM1	12	2983386	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	2047035	2983386	130868509	64	20078											
DUSP16	80824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	12629998	12629998	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatagacttggtctccgcaAgtgggcagctggctgcagct	8	9	14	10	1	1	1	0	0	1	1	2	2	1	1	1	3	3	6	1	3	3	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	12629998	A	T	12629998	2	4	402	1	0	0	0	0	0	0	0	1	4816	59	3	5		5	DUSP16	12	12629998	Silent	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	9646612	12629998	121221897	65	20079											
TRPC4	7223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	38266299	38266299	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaatggcttcctgatgaaCagtccaagtgggcttttggg	10	12	12	7	0	0	2	0	2	0	0	2	2	2	2	2	3	1	2	2	3	4	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	38266299	C	T	38266299	2	4	402	1	0	0	0	0	0	0	0	1	16579	465	17	2		2	TRPC4	13	38266299	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08		38266299	76903579	66	20080											
C13orf1	0	broad.mit.edu;hgsc.bcm.edu	37	chr13	50489191	50489191	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatacaagttttaaaaacAaatacattcagaagatttgc	20	11	5	5	0	1	2	1	0	0	2	1	3	1	2	0	0	4	1	0	0	9	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	50489191	A	G	50489191	1	3	402	0	1	0	0	0	0	0	0	0	1717	145	5	3		3	C13orf1	13	50489191	RNA	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	12222892	50489191	64680687	67	20081											
RBM26	64062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	79940847	79940847	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacaggtgggggtgtaagAattggtggaggtggggggag	8	9	22	2	0	1	1	1	0	0	1	1	3	1	3	0	9	0	1	0	9	2	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	79940847	A	C	79940847	3	2	402	1	0	0	0	0	1	0	0	0	13128	242	9	5	1946	5	RBM26	13	79940847	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	29451656	79940847	35229031	68	20082											
ACOT1	641371	hgsc.bcm.edu	37	chr14	74009978	74009978	+	Frame_Shift_Del	DEL	C	C	-																															tatgcagacattgtggatgtCctgaacagccctttggaagg																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	74009978	C	-	74009978	7	5	402	1	0	1	0	1	0	0	0	0	148	842	30	0	895	0	ACOT1	14	74009978	Frame_Shift_Del	DEL	C	TCGA-CJ-4912-01A-01D-1429-08		74009978	33339562	69	20083											
ACOT2	10965	hgsc.bcm.edu	37	chr14	74041836	74041836	+	Frame_Shift_Del	DEL	C	C	-																															tatgcagacattgtggatgtCctgaacagccctttggaagg																								novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		-	74041836	C	-	74041836	7	5	402	1	0	1	0	1	0	0	0	0	152	842	30	0	1081	0	ACOT2	14	74041836	Frame_Shift_Del	DEL	C	TCGA-CJ-4912-01A-01D-1429-08	31858	74041836	33307704	70	20084											
WDR93	56964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90276288	90276288	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatgtttctgccaaagcaTtcacttcctaaaatatttct	11	15	6	9	0	3	0	1	0	2	0	4	1	4	1	2	1	2	2	2	1	4	6	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	90276288	T	A	90276288	3	1	402	1	0	0	0	0	1	0	0	0	17339	1493	52	5	1428	5	WDR93	15	90276288	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08		90276288	12255104	71	20085											
TBC1D24	57465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2549923	2549923	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaccggagaatgctttGtgtttagggtgagtggggcc	6	12	18	5	1	0	2	0	1	0	1	0	4	0	3	2	5	1	2	2	5	2	4	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	2549923	G	A	2549923	3	1	402	1	0	0	0	0	1	0	0	0	15613	1377	48	2	1290	2	TBC1D24	16	2549923	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		2549923	87804830	72	20086											
TMEM208	29100	broad.mit.edu	37	chr16	67261756	67261756	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccaagggcaaagtgggCacgagagggaagaagcagat	15	2	16	8	1	0	3	0	0	0	3	0	5	0	4	1	3	2	3	1	3	4	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	67261756	T	T	67261756	2	4	402	1	0	0	0	0	0	0	0	1	16132	697	25	2		2	TMEM208	16	67261756	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	64711833	67261756	23092997	73	20087											
CNTNAP4	85445	broad.mit.edu;hgsc.bcm.edu	37	chr16	76495979	76495979	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcctgagcagatttattCgggtggcacctattattttg	7	14	13	7	1	0	2	0	1	0	1	1	2	0	2	2	4	1	2	2	4	3	7	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	76495979	C	T	76495979	3	4	402	1	0	0	0	0	1	0	0	0	3649	893	31	1	1507	1	CNTNAP4	16	76495979	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	9234223	76495979	13858774	74	20088											
ACTG1	71	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79478982	79478982	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggggcctcggtcagcaGcactgggtgctcctccgggg	4	6	18	13	2	1	0	1	0	0	0	4	0	3	0	3	7	3	3	3	7	0	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	79478982	G	C	79478982	2	2	402	1	0	0	0	0	0	0	0	1	196	962	34	4		4	ACTG1	17	79478982	Silent	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		79478982	1716228	75	20089											
DSG4	147409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	28972163	28972163	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttaagttcggaactgataCgattacaagcaattgatctt	13	14	8	6	2	1	2	0	2	1	0	2	4	1	3	0	1	4	3	0	1	6	7	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	28972163	C	T	28972163	4	4	402	1	0	0	0	0	0	1	0	0	4779	528	19	1	895	1	DSG4	18	28972163	Nonsense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08		28972163	49105085	76	20090											
SLC14A2	8170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	43212331	43212331	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtctgccattgcctcaGgactccatgggtacaacggg	8	8	12	13	1	2	0	1	0	1	0	3	1	3	1	4	4	4	1	4	4	2	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	43212331	G	T	43212331	4	4	402	1	0	0	0	0	0	1	0	0	14399	1001	35	4	552	4	SLC14A2	18	43212331	Nonsense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08	14240168	43212331	34864917	77	20091											
ZNF560	147741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9578075	9578075	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccacatttgtaacacttAaagggcttctcaccagtgtg	10	13	7	11	0	1	0	1	0	1	0	3	0	2	0	2	1	1	2	2	1	3	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	9578075	A	C	9578075	3	2	402	1	0	0	0	0	1	0	0	0	17990	359	13	5	828	5	ZNF560	19	9578075	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08		9578075	49550908	78	20092											
EMR3	84658	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14755050	14755050	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctgccctgtgctcttcCagtagacacagaagaccttt	8	11	8	14	0	1	3	0	0	1	3	2	3	2	3	4	0	3	2	4	0	2	3	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	14755050	C	T	14755050	4	4	402	1	0	0	0	0	0	1	0	0	5106	595	21	2	1070	2	EMR3	19	14755050	Nonsense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	5176975	14755050	44373933	79	20093											
ZNF429	353088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	21719682	21719682	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaacccttactacccataAgagaattcattctggagaga	14	10	6	11	0	3	2	2	0	1	2	3	5	3	3	2	1	3	0	2	1	5	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	21719682	A	C	21719682	3	2	402	1	0	0	0	0	1	0	0	0	17901	72	3	5	841	5	ZNF429	19	21719682	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	6964632	21719682	37409301	80	20094											
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	31767620	31767620	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggggaggacgtcaccatttTttctgacggtgacttggttt	6	14	14	7	2	2	2	1	2	1	0	2	4	2	4	1	5	0	1	1	5	0	5	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	31767620	T	C	31767620	3	2	402	1	0	0	0	0	1	0	0	0	16624	1850	64	3	170	3	TSHZ3	19	31767620	Missense_Mutation	SNP	T	TCGA-CJ-4912-01A-01D-1429-08	10047938	31767620	27361363	81	20095											
TMEM149	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36230813	36230813	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggatcgctatcaccgcCaaggtcaggagcaggaccag	12	4	14	11	2	2	0	2	0	0	0	3	4	2	4	3	5	1	2	3	5	2	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	36230813	C	T	36230813	2	4	402	1	0	0	0	0	0	0	0	1	16061	593	21	2		2	TMEM149	19	36230813	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	4463193	36230813	22898170	82	20096											
GGN	199720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38876071	38876071	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctctcaccaggcagagaCgttgcgtggcaggcggcgat	7	6	14	14	4	1	1	1	0	1	1	2	3	1	1	3	4	1	3	3	4	0	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		T	38876071	C	T	38876071	3	4	402	1	0	0	0	0	1	0	0	0	6358	536	19	1	135	1	GGN	19	38876071	Missense_Mutation	SNP	C	TCGA-CJ-4912-01A-01D-1429-08	2645258	38876071	20252912	83	20097											
PLAGL2	5326	broad.mit.edu;hgsc.bcm.edu	37	chr20	30784502	30784502	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaagaaagcccagtaggtggGagaagtccacattagcagcg	14	5	14	8	1	0	2	0	0	0	2	1	4	1	2	2	2	3	2	2	2	5	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		A	30784502	G	A	30784502	3	1	402	1	0	0	0	0	1	0	0	0	12020	1174	41	2	250	2	PLAGL2	20	30784502	Missense_Mutation	SNP	G	TCGA-CJ-4912-01A-01D-1429-08		30784502	32241018	84	20098											
CCDC157	550631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30766638	30766638	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcagagccagaacctgccCtcgtccttaggccagttcca	8	9	9	15	1	1	2	1	0	0	2	4	2	3	2	6	1	3	1	6	1	2	2	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	30766638	C	G	30766638	2	3	402	1	0	0	0	0	0	0	0	1	2789	668	24	4		4	CCDC157	22	30766638	Silent	SNP	C	TCGA-CJ-4912-01A-01D-1429-08		30766638	20537928	85	20099											
TNRC6B	23112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40662303	40662303	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagcctctacagagtggaAagaccccaagaacacaggag	15	4	10	12	0	2	3	1	0	1	3	2	5	2	5	3	2	3	0	3	2	4	1	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		C	40662303	A	C	40662303	3	2	402	1	0	0	0	0	1	0	0	0	16340	14	1	5	2208	5	TNRC6B	22	40662303	Missense_Mutation	SNP	A	TCGA-CJ-4912-01A-01D-1429-08	9895665	40662303	10642263	86	20100											
MAOA	4128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	43571993	43571993	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggctcaacatgctgacaaAtgggacaaaatgaccatgaa	17	6	10	8	0	1	3	1	3	0	0	1	5	1	4	1	2	2	2	1	2	5	0	novel		TCGA-CJ-4912-01A-01D-1429-08	TCGA-CJ-4912-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	894ade93-8feb-4f93-a31a-d9e16eb81743	fa597cce-bae4-49b7-8d02-d00582f821f0		G	43571993	A	G	43571993	2	3	402	1	0	0	0	0	0	0	0	1	9225	98	4	3		3	MAOA	23	43571993	Silent	SNP	A	TCGA-CJ-4912-01A-01D-1429-08		43571993	111698567	87	20101											
RPL22	6146	hgsc.bcm.edu	37	chr1	6246851	6246852	+	Frame_Shift_Ins	INS	-	-	T																															agattattcttcttcaaataINSttttttggtgagatatttca																								novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	6246852	-	T	6246851	7	5	403	1	0	1	1	0	0	0	0	0	13570	449	16	0	122	0	RPL22	1	6246851	Frame_Shift_Ins	INS	-	TCGA-CJ-4913-01A-01D-1429-08		6246851	243003770	1	20102											
PGD	5226	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10477169	10477169	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcattcctggaggacattCggaaggtgggacacagtccc	11	8	12	10	1	1	0	1	0	0	0	4	4	3	4	2	5	0	0	2	5	2	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	10477169	C	A	10477169	2	1	403	1	0	0	0	0	0	0	0	1	11787	875	31	4		4	PGD	1	10477169	Silent	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	4230318	10477169	238773452	2	20103											
CELA3B	23436	broad.mit.edu	37	chr1	22310726	22310726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaggaggccctgctgccgGtggtggactatgaacactgc	7	8	15	11	1	0	1	0	1	0	0	0	3	0	3	2	5	5	2	2	5	2	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	22310726	A	A	22310726	3	1	403	1	0	0	0	0	1	0	0	0	3214	1261	44	2	566	2	CELA3B	1	22310726	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	11833557	22310726	226939895	3	20104											
SLC44A5	204962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	75708659	75708659	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaaagttgcatttccacaTaggttaaaaatttttctggg	14	14	7	6	0	1	0	0	0	1	0	2	0	2	0	1	2	1	3	1	2	6	6	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	75708659	T	C	75708659	3	2	403	1	0	0	0	0	1	0	0	0	14641	1406	49	3	1955	3	SLC44A5	1	75708659	Missense_Mutation	SNP	T	TCGA-CJ-4913-01A-01D-1429-08	53397933	75708659	173541962	4	20105											
TAF5L	27097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	229730773	229730773	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtccgcgaggaacctcgtGctgtacactggtccgcagtg	6	9	13	13	4	0	0	0	0	0	0	3	2	2	1	3	2	3	3	3	2	2	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	229730773	G	C	229730773	3	2	403	1	0	0	0	0	1	0	0	0	15528	1310	46	4	732	4	TAF5L	1	229730773	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	154022114	229730773	19519848	5	20106											
LPIN1	23175	broad.mit.edu;hgsc.bcm.edu	37	chr2	11911528	11911528	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctatgcacctggccacctccCccatcctgtcagaaggagct	8	8	8	17	0	1	1	1	0	0	1	3	2	3	2	6	2	2	2	6	2	2	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	11911528	C	T	11911528	3	4	403	1	0	0	0	0	1	0	0	0	8918	623	22	2	329	2	LPIN1	2	11911528	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		11911528	231287845	6	20107											
MRPS5	64969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	95780928	95780928	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagggatgggtgtctctggTtcccagtgatgacaaatggc	8	11	15	7	0	1	2	0	2	1	0	3	3	2	3	1	4	0	2	1	4	2	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	95780928	T	C	95780928	3	2	403	1	0	0	0	0	1	0	0	0	9846	1725	60	3	1172	3	MRPS5	2	95780928	Missense_Mutation	SNP	T	TCGA-CJ-4913-01A-01D-1429-08	83869400	95780928	147418445	7	20108											
RNPEPL1	57140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241516160	241516160	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcctggaccggctcctGgatgggtccccgctgccgca	3	9	12	17	3	1	0	0	0	1	0	4	2	4	2	6	4	1	3	6	4	0	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	241516160	G	A	241516160	2	1	403	1	0	0	0	0	0	0	0	1	13512	1335	47	2		2	RNPEPL1	2	241516160	Silent	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	145735232	241516160	1683213	8	20109											
COL7A1	1294	broad.mit.edu	37	chr3	48612153	48612153	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccattgctgcccggctccCcctgtggggatgagatgtca	6	9	12	14	1	1	1	1	1	0	1	2	3	2	2	4	3	2	2	4	3	0	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	48612153	A	A	48612153	3	1	403	1	0	0	0	0	1	0	0	0	3704	637	22	4	2652	4	COL7A1	3	48612153	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		48612153	149410277	9	20110											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52621446	52621446	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtcactcttaaaaacttCtttttctagaaattttcgtg	12	18	4	7	1	4	1	1	0	3	1	5	1	4	1	0	0	1	0	0	0	6	8	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	52621446	C	A	52621446	4	1	403	1	0	0	0	0	0	1	0	0	11491	922	32	4	1902	4	PBRM1	3	52621446	Nonsense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	4009293	52621446	145400984	10	20111											
TFDP2	7029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141692908	141692908	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccagattctgacattcCtgagcagaattggtaggcag	11	10	10	10	0	1	4	0	2	1	2	3	4	3	4	3	2	1	3	3	2	2	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		G	141692908	C	G	141692908	3	3	403	1	0	0	0	0	1	0	0	0	15797	680	24	4	719	4	TFDP2	3	141692908	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	89071462	141692908	56329522	11	20112											
D4S234E	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	4389419	4389419	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgctgctggaggatggCttcgacaccattcccctgat	7	9	11	14	2	0	1	0	1	0	0	2	4	1	3	4	3	2	3	4	3	0	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		G	4389419	C	G	4389419	2	3	403	1	0	0	0	0	0	0	0	1	4214	784	28	4		4	D4S234E	4	4389419	Silent	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		4389419	186764857	12	20113											
FBXO38	81545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	147778625	147778625	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggaagctaaaggaagcagtGaccctatatctgcgagttgt	12	9	12	8	2	1	1	0	1	1	0	1	4	1	3	1	2	3	3	1	2	6	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	147778625	G	A	147778625	2	1	403	1	0	0	0	0	0	0	0	1	5746	1277	45	2		2	FBXO38	5	147778625	Silent	SNP	G	TCGA-CJ-4913-01A-01D-1429-08		147778625	33136635	13	20114											
OR5V1	81696	broad.mit.edu;hgsc.bcm.edu	37	chr6	29323588	29323588	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aataactgaataccttaaagGattgcagattgcaatgtaac	17	11	7	6	0	0	2	0	1	0	1	0	3	0	3	1	1	5	3	1	1	8	6	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	29323588	G	A	29323588	3	1	403	1	0	0	0	0	1	0	0	0	11184	1174	41	2	583	2	OR5V1	6	29323588	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08		29323588	141791479	14	20115											
DAXX	1616	broad.mit.edu;ucsc.edu	37	chr6	33289504	33289504	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctaaagctcacctcttcgaAcagcttctcattctccagct	9	12	5	15	1	4	0	2	0	3	0	7	1	4	0	2	0	4	4	2	0	3	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	33289504	T	T	33289504	3	4	403	1	0	0	0	0	1	0	0	0	4243	43	2	5	2051	5	DAXX	6	33289504	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08	3965916	33289504	137825563	15	20116											
BACH2	60468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90647879	90647879	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccaatttgcggatttcaCattctaaattctgaatacag	13	14	5	9	1	4	1	2	1	2	0	4	2	4	2	1	1	2	0	1	1	5	6	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	90647879	C	T	90647879	3	4	403	1	0	0	0	0	1	0	0	0	1284	478	17	2	506	2	BACH2	6	90647879	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	57358375	90647879	80467188	16	20117											
LOC402644	402644	broad.mit.edu	37	chr7	28319099	28319099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtagatggacttgccacCagtgccattatggtgcgtga	8	10	12	11	2	0	2	0	1	0	1	0	3	0	3	4	2	3	1	4	2	2	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	28319099	T	T	28319099	3	4	403	1	0	0	0	0	1	0	0	0	8878	594	21	2	260	2	LOC402644	7	28319099	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		28319099	130819564	17	20118											
ZAN	7455	broad.mit.edu	37	chr7	100395076	100395076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagagtgcatttacagaacGaggaggaagaggtgagtcct	14	7	15	5	1	0	4	0	1	0	3	1	8	1	6	1	3	3	1	1	3	3	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	100395076	A	A	100395076	2	1	403	1	0	0	0	0	0	0	0	1	17512	1045	37	1		1	ZAN	7	100395076	Silent	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	72075977	100395076	58743587	18	20119											
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121651006	121651006	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcttccgaagattcaactTcatcaggttcagaagaatca	14	11	7	9	1	5	3	5	0	0	3	6	4	6	3	1	1	2	2	1	1	4	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	121651006	T	A	121651006	3	1	403	1	0	0	0	0	1	0	0	0	12816	1783	62	5	1952	5	PTPRZ1	7	121651006	Missense_Mutation	SNP	T	TCGA-CJ-4913-01A-01D-1429-08	21255930	121651006	37487657	19	20120			1	30		2	2	18	N	T_A	3.185039e-05
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121651023	121651023	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcatcaggttcagaagaAtcactaaaggatccttctat	14	12	6	9	0	5	2	4	0	1	2	6	3	6	3	1	2	0	1	1	2	5	5	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	121651023	A	T	121651023	3	4	403	1	0	0	0	0	1	0	0	0	12816	98	4	5	1969	5	PTPRZ1	7	121651023	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08	17	121651023	37487640	20	20121			1	30		2	2	18	N	T_A	3.185039e-05
CASP2	835	broad.mit.edu;ucsc.edu	37	chr7	143000899	143000899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagactgatcgtggggttgaCcaacaagatggaaagaacca	15	6	13	7	1	0	5	0	2	0	3	1	7	0	6	2	3	2	1	2	3	4	1	rs145619760	alternate_allele	TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	143000899	A	A	143000899	3	1	403	1	0	0	0	0	1	0	0	0	2671	506	18	4	1024	4	CASP2	7	143000899	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	21349876	143000899	16137764	21	20122											
AGPAT5	55326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	6612685	6612685	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgcatgaacgtttcgaaAtcaaagataagtgagtaaca	16	9	10	6	2	1	3	1	2	0	1	2	4	1	3	0	1	3	4	0	1	5	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		G	6612685	A	G	6612685	3	3	403	1	0	0	0	0	1	0	0	0	390	101	4	3	885	3	AGPAT5	8	6612685	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08		6612685	139751337	22	20123											
ZNF395	55893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28209116	28209116	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggatgttctgggccggAggactgggctttgtgcagag	6	9	18	8	1	1	1	0	0	1	1	1	4	1	4	2	5	1	3	2	5	0	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	28209116	A	T	28209116	3	4	403	1	0	0	0	0	1	0	0	0	17880	304	11	5	428	5	ZNF395	8	28209116	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08	21596431	28209116	118154906	23	20124											
RANBP6	26953	hgsc.bcm.edu;ucsc.edu	37	chr9	6014830	6014830	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtatcttctaaataaggacCcaagtacttaggtacggtat	14	12	8	7	1	2	0	0	0	2	0	2	1	2	1	1	3	2	4	1	3	9	8	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	6014830	C	T	6014830	3	4	403	1	0	0	0	0	1	0	0	0	13033	623	22	2	2543	2	RANBP6	9	6014830	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		6014830	135198601	24	20125											
SEC16A	9919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139369367	139369367	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattactttgggcaacacTgctaggcagagacaagctaa	16	8	9	8	0	0	1	0	0	0	1	0	2	0	1	0	2	4	4	0	2	7	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	139369367	T	A	139369367	3	1	403	1	0	0	0	0	1	0	0	0	13988	1580	55	5	4492	5	SEC16A	9	139369367	Missense_Mutation	SNP	T	TCGA-CJ-4913-01A-01D-1429-08	133354537	139369367	1844064	25	20126											
PLAU	5328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75675037	75675037	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctatccggagcagctgaaAatgactgttgtgaagctgat	11	11	11	8	1	1	4	0	4	1	0	2	5	2	5	1	1	3	4	1	1	4	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	75675037	A	T	75675037	3	4	403	1	0	0	0	0	1	0	0	0	12022	11	1	5	1071	5	PLAU	10	75675037	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08		75675037	59859710	26	20127											
C10orf91	170393	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	134261287	134261287	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacatgggttctcagcttcCtgttcacagagaaacctcag	11	10	8	12	0	3	1	3	0	1	1	5	2	4	1	2	1	2	3	2	1	1	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	134261287	C	T	134261287	2	4	403	1	0	0	0	0	0	0	0	1	1624	680	24	2		2	C10orf91	10	134261287	Silent	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	58586250	134261287	1273460	27	20128											
LSP1	4046	broad.mit.edu;ucsc.edu	37	chr11	1908746	1908746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagtttgtggccaccgggCatgggaagtatgagaaggtg	11	9	16	5	1	0	1	0	1	0	1	0	3	0	2	2	4	0	3	2	4	4	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	1908746	T	T	1908746	3	4	403	1	0	0	0	0	1	0	0	0	9063	710	25	2	1011	2	LSP1	11	1908746	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		1908746	133097770	28	20129											
OR10AG1	282770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55735328	55735328	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccataagagacaacaatCaacagaaatggcaccgtgat	17	7	8	9	1	1	3	1	1	0	2	1	4	1	3	2	1	3	1	2	1	5	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	55735328	C	A	55735328	3	1	403	1	0	0	0	0	1	0	0	0	10897	825	29	4	296	4	OR10AG1	11	55735328	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	53826582	55735328	79271188	29	20130											
AEBP2	121536	broad.mit.edu	37	chr12	19593226	19593226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggaggcggaagcagcgCgacctccgggggccggcggg	5	2	23	11	6	0	0	0	0	0	0	1	3	1	2	3	8	2	1	3	8	1	0	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	19593226	A	A	19593226	3	1	403	1	0	0	0	0	1	0	0	0	350	768	27	4	595	4	AEBP2	12	19593226	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		19593226	114258669	30	20131											
SLCO1B1	10599	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21331930	21331930	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgttttctaaaatgtacGtggatattggatatgtagat	11	17	9	4	1	2	1	0	0	2	1	2	3	2	3	0	2	1	3	0	2	6	8	rs147421160		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	21331930	G	A	21331930	3	1	403	1	0	0	0	0	1	0	0	0	14725	1145	40	1	725	1	SLCO1B1	12	21331930	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	1738704	21331930	112519965	31	20132											
BAZ2A	11176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57007904	57007904	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaagggacagagccattgTagccacacatcttcagttct	12	9	9	11	0	3	2	1	0	2	2	3	3	3	3	2	1	2	2	2	1	2	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	57007904	T	C	57007904	3	2	403	1	0	0	0	0	1	0	0	0	1331	1638	57	3	5066	3	BAZ2A	12	57007904	Missense_Mutation	SNP	T	TCGA-CJ-4913-01A-01D-1429-08	35675974	57007904	76843991	32	20133											
AVPR1A	552	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	63543859	63543859	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacccttgctctggcgcGacgccgtcttcccgcggacg	3	8	12	18	7	2	0	0	0	2	0	3	2	3	1	3	2	2	2	3	2	0	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	63543859	G	T	63543859	4	4	403	1	0	0	0	0	0	1	0	0	1231	1059	37	4	506	4	AVPR1A	12	63543859	Nonsense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	6535955	63543859	70308036	33	20134											
COQ5	84274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120966769	120966769	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccttctcctcttccgacAcagtctcaaacccaaagtgc	9	9	4	19	1	3	0	1	0	3	0	6	1	4	0	5	0	2	0	5	0	2	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	120966769	A	T	120966769	3	4	403	1	0	0	0	0	1	0	0	0	3748	159	6	5	835	5	COQ5	12	120966769	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08	57422910	120966769	12885126	34	20135											
FAM123A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25744223	25744223	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggacgccttcctgctgcTccttctccgggtgcttgggc	1	12	14	14	2	1	0	0	0	1	0	4	1	3	1	4	4	3	3	4	4	0	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	25744223	T	C	25744223	3	2	403	1	0	0	0	0	1	0	0	0	5422	1551	54	3	484	3	FAM123A	13	25744223	Missense_Mutation	SNP	T	TCGA-CJ-4913-01A-01D-1429-08		25744223	89425655	35	20136											
FOXO1	2308	broad.mit.edu	37	chr13	41134652	41134652	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatgggtgagagtctccCactaatagtactagcatttg	12	12	9	8	0	1	1	0	1	1	1	2	2	1	1	1	1	2	2	1	1	5	6	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		G	41134652	G	G	41134652	3	3	403	1	0	0	0	0	1	0	0	0	6023	594	21	4	995	4	FOXO1	13	41134652	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	15390429	41134652	74035226	36	20137											
MAX	4149	broad.mit.edu	37	chr14	65569055	65569055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatgtcatcgttatcgctCatttcctacggcccagggag	7	12	10	12	4	2	0	2	0	0	0	6	2	3	1	2	2	1	2	2	2	2	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	65569055	A	A	65569055	3	1	403	1	0	0	0	0	1	0	0	0	9339	826	29	4	839	4	MAX	14	65569055	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		65569055	41780485	37	20138											
KIAA1409	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94088412	94088412	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagatctgatagatctatcCtcagattcaacctcggggcc	10	12	8	11	1	4	4	2	1	2	3	6	4	5	4	3	2	1	0	3	2	4	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	94088412	C	A	94088412	2	1	403	1	0	0	0	0	0	0	0	1	8230	668	24	4		4	KIAA1409	14	94088412	Silent	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	28519357	94088412	13261128	38	20139											
SERPINA12	145264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94964360	94964360	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgaggtcctgggtcttCtgggtcagctcgtggatgat	5	14	15	7	1	3	2	1	2	2	0	5	3	4	3	1	4	1	2	1	4	0	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	94964360	C	A	94964360	3	1	403	1	0	0	0	0	1	0	0	0	14091	912	32	4	885	4	SERPINA12	14	94964360	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	875948	94964360	12385180	39	20140											
UBR1	197131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43281101	43281101	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggtggcactttcaatcCaattctataaattgttgtgg	11	15	8	7	0	3	0	2	0	1	0	4	0	4	0	1	3	0	2	1	3	5	6	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	43281101	C	A	43281101	4	1	403	1	0	0	0	0	0	1	0	0	16900	603	21	4	1388	4	UBR1	15	43281101	Nonsense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		43281101	59250291	40	20141											
FBN1	2200	hgsc.bcm.edu;ucsc.edu	37	chr15	48936936	48936936	+	Frame_Shift_Del	DEL	G	G	-																															taaaagcacggtaaatcccaGggcgatctccagcagacgcc																								novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		-	48936936	G	-	48936936	7	5	403	1	0	1	0	1	0	0	0	0	5702	991	35	0	8844	0	FBN1	15	48936936	Frame_Shift_Del	DEL	G	TCGA-CJ-4913-01A-01D-1429-08	5655835	48936936	53594456	41	20142											
MYO5C	55930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52539694	52539694	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaaatgcttgctgtttggCttgatgacttgctttgcaga	7	15	12	7	1	0	3	0	2	0	1	0	4	0	4	0	2	4	6	0	2	1	5	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		G	52539694	C	G	52539694	3	3	403	1	0	0	0	0	1	0	0	0	10080	796	28	4	3494	4	MYO5C	15	52539694	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	3602758	52539694	49991698	42	20143											
KLHL25	64410	broad.mit.edu;hgsc.bcm.edu	37	chr15	86311567	86311567	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccatgatgaagatctggCtgcccaggacggcagcggct	8	7	13	13	2	1	3	0	2	1	1	2	4	2	4	2	4	2	3	2	4	1	0	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	86311567	C	A	86311567	3	1	403	1	0	0	0	0	1	0	0	0	8380	797	28	4	298	4	KLHL25	15	86311567	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	33771873	86311567	16219825	43	20144											
SPNS1	83985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28993800	28993800	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggtctgtgccactggcctCctgggctctgcacccttcct	2	12	10	17	0	2	0	0	0	2	0	4	0	4	0	5	3	2	2	5	3	0	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	28993800	C	T	28993800	2	4	403	1	0	0	0	0	0	0	0	1	15075	842	30	2		2	SPNS1	16	28993800	Silent	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		28993800	61360953	44	20145											
RNF40	9810	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30774777	30774777	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccttctccgatgccatgaGagccagggggagctgtcttc	6	9	13	13	1	2	1	0	1	2	1	4	4	2	2	4	2	3	1	4	2	0	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	30774777	G	T	30774777	3	4	403	1	0	0	0	0	1	0	0	0	13495	933	33	4	349	4	RNF40	16	30774777	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	1780977	30774777	59579976	45	20146											
PKD1L2	114780	broad.mit.edu	37	chr16	81183400	81183400	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaggacaccctctggaCgcgggtgaagctgctgcgag	8	5	16	12	3	1	1	0	1	1	0	1	4	1	3	1	3	4	4	1	3	1	0	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	81183400	A	A	81183400	3	1	403	1	0	0	0	0	1	0	0	0	11965	536	19	4	2794	4	PKD1L2	16	81183400	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	50408623	81183400	9171353	46	20147											
CD300E	342510	broad.mit.edu;hgsc.bcm.edu	37	chr17	72613272	72613272	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttacctggggaaacatacaCcctaaccaggtccgagggat	12	7	10	12	1	0	0	0	0	0	0	1	3	1	2	4	4	4	0	4	4	4	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	72613272	C	T	72613272	3	4	403	1	0	0	0	0	1	0	0	0	2998	507	18	2	256	2	CD300E	17	72613272	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08		72613272	8581938	47	20148											
BAIAP2	10458	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79027521	79027521	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacttcatcgccatggggaaGaattacgagaaggcactggc	13	7	12	9	2	1	2	1	0	0	2	2	4	1	3	1	4	2	1	1	4	5	2	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	79027521	G	A	79027521	2	1	403	1	0	0	0	0	0	0	0	1	1301	933	33	2		2	BAIAP2	17	79027521	Silent	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	6414249	79027521	2167689	48	20149											
ROCK1	6093	hgsc.bcm.edu;ucsc.edu	37	chr18	18629104	18629105	+	Frame_Shift_Ins	INS	-	-	A																															tgatgtccctttcttcccagINSaaaaaagcagaatcagatct																								rs35810558		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	18629105	-	A	18629104	7	5	403	1	0	1	1	0	0	0	0	0	13519	933	33	0	3821	0	ROCK1	18	18629104	Frame_Shift_Ins	INS	-	TCGA-CJ-4913-01A-01D-1429-08		18629104	59448144	49	20150											
PHLPP1	23239	broad.mit.edu	37	chr18	60646514	60646514	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcagtttatcatacccccGgagctggaagaggaggtcaa	12	8	12	9	1	3	1	3	0	0	1	3	5	3	4	2	4	2	2	2	4	4	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	60646514	A	A	60646514	2	1	403	1	0	0	0	0	0	0	0	1	11854	1103	39	1		1	PHLPP1	18	60646514	Silent	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	42017410	60646514	17430734	50	20151											
ABCA7	10347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1054031	1054031	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgggcagcacctatgcAcaggcattgctggcctagac	8	7	13	13	1	0	1	0	0	0	1	0	1	0	1	2	3	4	6	2	3	2	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	1054031	A	T	1054031	3	4	403	1	0	0	0	0	1	0	0	0	37	159	6	5	3597	5	ABCA7	19	1054031	Missense_Mutation	SNP	A	TCGA-CJ-4913-01A-01D-1429-08		1054031	58074952	51	20152											
TMIGD2	126259	broad.mit.edu	37	chr19	4294619	4294619	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcggccccagaaccaggcAccccacacgatcgcagccac	10	1	10	20	4	0	1	0	0	0	1	1	2	0	1	6	3	2	2	6	3	1	0	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	4294619	C	C	4294619	2	2	403	1	0	0	0	0	0	0	0	1	16230	146	6	5		5	TMIGD2	19	4294619	Silent	SNP	A	TCGA-CJ-4913-01A-01D-1429-08	3240588	4294619	54834364	52	20153											
ZNF100	163227	hgsc.bcm.edu;ucsc.edu	37	chr19	21910711	21910712	+	Frame_Shift_Ins	INS	-	-	T																															tcatgtccatattttccataINSttttttcagaatcgcttctt																								novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	21910712	-	T	21910711	7	5	403	1	0	1	1	0	0	0	0	0	17712	449	16	0	1229	0	ZNF100	19	21910711	Frame_Shift_Ins	INS	-	TCGA-CJ-4913-01A-01D-1429-08	17616092	21910711	37218272	53	20154											
POLD1	5424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50918766	50918766	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgcaaccgcatcgatatctCccagctggtcatcaccaagg	10	8	9	14	2	3	0	2	0	1	0	5	1	3	0	3	2	3	3	3	2	3	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	50918766	C	A	50918766	3	1	403	1	0	0	0	0	1	0	0	0	12190	855	30	4	2714	4	POLD1	19	50918766	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	29008055	50918766	8210217	54	20155											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57325907	57325907	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcattcttatgaacagtTacgtgatctgcaagttctgc	9	14	9	9	1	4	2	1	2	3	0	4	2	4	2	0	1	4	4	0	1	4	4	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		G	57325907	T	G	57325907	2	3	403	1	0	0	0	0	0	0	0	1	11720	1741	61	5		5	PEG3	19	57325907	Silent	SNP	T	TCGA-CJ-4913-01A-01D-1429-08	6407141	57325907	1803076	55	20156											
FOXR2	139628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	55650703	55650703	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatggcaaatcaacaaccaaGagaagtcctggcaaaggccc	16	5	9	11	0	1	1	1	0	0	1	2	2	2	1	3	3	2	2	3	3	7	1	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		C	55650703	G	C	55650703	3	2	403	1	0	0	0	0	1	0	0	0	6032	943	33	4	561	4	FOXR2	23	55650703	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08		55650703	99619857	56	20157											
ZDHHC9	51114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	128962964	128962964	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagactcacctatctcCatttctatgaaagctgcttc	10	14	6	11	0	3	2	1	1	2	1	5	3	3	3	2	1	2	2	2	1	4	5	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		T	128962964	C	T	128962964	3	4	403	1	0	0	0	0	1	0	0	0	17621	594	21	2	805	2	ZDHHC9	23	128962964	Missense_Mutation	SNP	C	TCGA-CJ-4913-01A-01D-1429-08	73312261	128962964	26307596	57	20158											
TFDP3	51270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132352095	132352095	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggatgtttgatgctgctgGtctctgaggcataccaatta	9	13	12	7	0	1	2	0	2	1	0	2	3	1	3	1	3	3	4	1	3	3	3	novel		TCGA-CJ-4913-01A-01D-1429-08	TCGA-CJ-4913-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0635f266-c4be-45ea-8347-455ef7ad5648	78e819a5-4d61-478c-8e72-cc6d596f487f		A	132352095	G	A	132352095	3	1	403	1	0	0	0	0	1	0	0	0	15798	1261	44	2	1028	2	TFDP3	23	132352095	Missense_Mutation	SNP	G	TCGA-CJ-4913-01A-01D-1429-08	3389131	132352095	22918465	58	20159											
MIA3	375056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222794531	222794531	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggtgaggctcttgaagAtttcacaggcccggattgtc	7	10	13	11	3	2	3	1	2	1	1	3	4	2	4	2	4	0	1	2	4	1	3	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	222794531	A	C	222794531	3	2	404	1	0	0	0	0	1	0	0	0	9565	333	12	5	170	5	MIA3	1	222794531	Missense_Mutation	SNP	A	TCGA-CJ-4916-01A-01D-1429-08		222794531	26456090	1	20160											
OR2L8	391190	broad.mit.edu;hgsc.bcm.edu	37	chr1	248112971	248112971	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgatctccaacagaggacaAggttctggctgtcttctaca	10	10	10	11	1	4	1	0	0	4	1	5	3	4	2	1	3	2	2	1	3	3	3	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	248112971	A	T	248112971	3	4	404	1	0	0	0	0	1	0	0	0	11009	72	3	5	814	5	OR2L8	1	248112971	Missense_Mutation	SNP	A	TCGA-CJ-4916-01A-01D-1429-08	25318440	248112971	1137650	2	20161											
FBXO11	80204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	48066061	48066061	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagctgctctacaaagaTcctgttccagcaagtaagag	14	8	8	11	0	1	2	0	0	1	2	3	2	3	2	2	0	4	5	2	0	5	3	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	48066061	T	C	48066061	3	2	404	1	0	0	0	0	1	0	0	0	5727	1435	50	3	2429	3	FBXO11	2	48066061	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08		48066061	195133312	3	20162											
CCDC93	54520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	118766138	118766138	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccttgtcaaagggtgataAgcctttaattcttgccctga	10	14	8	9	0	2	2	1	2	1	0	2	2	2	2	3	1	3	0	3	1	4	7	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	118766138	A	G	118766138	2	3	404	1	0	0	0	0	0	0	0	1	2872	69	3	3		3	CCDC93	2	118766138	Silent	SNP	A	TCGA-CJ-4916-01A-01D-1429-08	70700077	118766138	124433235	4	20163											
FMNL2	114793	hgsc.bcm.edu	37	chr2	153493057	153493059	+	In_Frame_Del	DEL	AAT	AAT	-																															tgaaggagttcatcctcaacAatgaggggaagctgaagaag																								novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		-	153493059	AAT	-	153493057	7	5	404	1	0	1	0	1	0	0	0	0	5952	130	5	0	2883	0	FMNL2	2	153493057	In_Frame_Del	DEL	AAT	TCGA-CJ-4916-01A-01D-1429-08	34726919	153493057	89706316	5	20164											
ITGAV	3685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	187500900	187500900	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aataaccaattagcaactcgGactgcacaagctatttttga	15	11	6	9	1	0	1	0	1	0	0	1	2	0	2	1	1	5	3	1	1	7	5	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	187500900	G	A	187500900	2	1	404	1	0	0	0	0	0	0	0	1	7888	1161	41	2		2	ITGAV	2	187500900	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	34007843	187500900	55698473	6	20165											
XRCC5	7520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	217005911	217005911	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcggcttctctgtttaagagGcacagttgaatgctgttgat	8	15	11	7	1	1	3	0	2	1	1	3	3	1	3	0	2	1	6	0	2	2	5	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	217005911	G	A	217005911	3	1	404	1	0	0	0	0	1	0	0	0	17455	1203	42	2	1395	2	XRCC5	2	217005911	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	29505011	217005911	26193462	7	20166											
STK36	27148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219561786	219561786	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaaggctagcctaatcaggGatatgtccagttcagaaatg	13	9	12	7	0	2	1	2	0	0	1	3	3	3	3	2	3	1	2	2	3	5	4	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	219561786	G	T	219561786	3	4	404	1	0	0	0	0	1	0	0	0	15303	1174	41	4	2697	4	STK36	2	219561786	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	2555875	219561786	23637587	8	20167											
VHL	7428	hgsc.bcm.edu	37	chr3	10183748	10183748	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactcgcgcgagccctccCaggtcatcttctgcaatcgc	7	9	9	16	4	3	1	1	1	2	0	6	2	4	1	2	1	3	1	2	1	2	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq;PacBio			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	10183748	C	T	10183748	4	4	404	1	0	0	0	0	0	1	0	0	17161	595	21	2	219	2	VHL	3	10183748	Nonsense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		10183748	187838682	9	20168											
SCN10A	6336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38802744	38802744	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtcattcttgacacatttAtttttgaggttgcccttgaa	9	18	7	7	0	2	3	1	3	1	0	2	3	2	3	1	1	1	1	1	1	2	8	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	38802744	A	G	38802744	2	3	404	1	0	0	0	0	0	0	0	1	13914	446	16	3		3	SCN10A	3	38802744	Silent	SNP	A	TCGA-CJ-4916-01A-01D-1429-08	28618996	38802744	159219686	10	20169											
GPR128	84873	broad.mit.edu;hgsc.bcm.edu	37	chr3	100354672	100354672	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaaatgcttcacctgaggTaaaactcacagagctttaaa	16	9	7	9	0	2	3	2	1	0	2	2	3	2	3	1	1	3	3	1	1	5	4	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	100354672	T	A	100354672	5	1	404	1	0	0	0	0	0	0	1	0	6641	1652	57	5	617	5	GPR128	3	100354672	Splice_Site	SNP	T	TCGA-CJ-4916-01A-01D-1429-08	61551928	100354672	97667758	11	20170											
AHSG	197	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186335070	186335070	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgccgcgaaagctgccctGgccgccttcaacgctcagaa	9	5	10	17	5	2	1	2	0	0	1	2	2	2	1	4	1	3	2	4	1	3	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	186335070	G	T	186335070	2	4	404	1	0	0	0	0	0	0	0	1	420	1335	47	4		4	AHSG	3	186335070	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	85980398	186335070	11687360	12	20171											
PHF17	79960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	129789065	129789065	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagattaaacggtctgtgTgcaaagtccaggaacagata	17	8	10	6	1	1	2	0	0	1	2	2	3	2	3	1	2	3	1	1	2	7	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	129789065	T	A	129789065	3	1	404	1	0	0	0	0	1	0	0	0	11828	1696	59	5	1619	5	PHF17	4	129789065	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08		129789065	61365211	13	20172											
ACTBL2	345651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	56777710	56777710	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagttgaaggttgtctcatgGatcccactggactcaatgcc	9	11	11	10	0	2	1	2	1	1	0	4	4	3	3	2	3	1	2	2	3	2	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	56777710	G	A	56777710	2	1	404	1	0	0	0	0	0	0	0	1	194	1164	41	2		2	ACTBL2	5	56777710	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08		56777710	124137550	14	20173											
CCND3	896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41904303	41904303	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccagcactcaccacttcAgtgccagtgatccctgccag	9	8	7	17	0	2	1	2	1	0	0	3	1	3	1	5	0	4	1	5	0	1	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	41904303	A	G	41904303	2	3	404	1	0	0	0	0	0	0	0	1	2918	175	7	3		3	CCND3	6	41904303	Silent	SNP	A	TCGA-CJ-4916-01A-01D-1429-08		41904303	129210764	15	20174											
MET	4233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116339927	116339927	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aattttatttacttcttgacGgtccaaagggaaactctaga	13	14	7	7	1	2	2	0	1	2	1	3	3	3	3	1	2	2	0	1	2	6	7	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	116339927	G	T	116339927	2	4	404	1	0	0	0	0	0	0	0	1	9485	1103	39	4		4	MET	7	116339927	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08		116339927	42798736	16	20175											
FAM91A1	157769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	124817571	124817571	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatttgatgaaacagaacTacaaggaggtaccttttgaa	15	11	8	7	0	0	4	0	3	0	1	1	5	1	5	2	2	4	1	2	2	6	5	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	124817571	T	A	124817571	3	1	404	1	0	0	0	0	1	0	0	0	5651	1522	53	5	1948	5	FAM91A1	8	124817571	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08		124817571	21546451	17	20176											
VLDLR	7436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2646492	2646492	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctagatggaaccaagaggaAgttcctgtttaactctgact	12	11	9	9	0	1	3	0	1	1	2	2	5	2	5	3	2	2	2	3	2	5	4	rs148487944	alternate_allele	TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	2646492	A	C	2646492	3	2	404	1	0	0	0	0	1	0	0	0	17173	72	3	5	1685	5	VLDLR	9	2646492	Missense_Mutation	SNP	A	TCGA-CJ-4916-01A-01D-1429-08		2646492	138566939	18	20177											
SMC5	23137	broad.mit.edu;hgsc.bcm.edu	37	chr9	72933592	72933592	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagagaagacacttagaaGaacagctaaaggttggttaa	18	7	11	5	0	0	4	0	0	0	4	0	5	0	4	0	2	3	4	0	2	7	4	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	72933592	G	A	72933592	3	1	404	1	0	0	0	0	1	0	0	0	14788	943	33	2	2023	2	SMC5	9	72933592	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	70287100	72933592	68279839	19	20178											
ZWINT	11130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	58120095	58120095	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttggctggcagttctgcctCctcctgcaggcctacaggtt	4	12	11	14	0	1	0	0	0	1	0	3	0	3	0	4	4	3	5	4	4	1	4	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	58120095	C	G	58120095	3	3	404	1	0	0	0	0	1	0	0	0	18248	864	30	4	770	4	ZWINT	10	58120095	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		58120095	77414652	20	20179											
BTAF1	9044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93784657	93784657	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atctcctcaaacctcacttgCcctctgtcacttatttgaga	9	14	4	14	0	5	1	3	1	2	1	6	2	5	1	3	0	2	0	3	0	2	3	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	93784657	C	T	93784657	3	4	404	1	0	0	0	0	1	0	0	0	1536	739	26	2	5146	2	BTAF1	10	93784657	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08	35664562	93784657	41750090	21	20180											
SLIT1	6585	broad.mit.edu;hgsc.bcm.edu	37	chr10	98945307	98945307	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cgtggcagtccaccgtggttCcggtgcaggtgcagagggcg	5	7	18	11	4	0	1	0	0	0	1	2	1	2	1	3	5	2	4	3	5	0	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	98945307	C	G	98945307	3	3	404	1	0	0	0	0	1	0	0	0	14741	855	30	4	4627	4	SLIT1	10	98945307	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08	5160650	98945307	36589440	22	20181											
DCHS1	8642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6661620	6661620	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttagggcaaagtggccctCtccaccttccagggacacat	9	8	10	14	0	1	0	0	0	1	0	3	1	2	1	4	3	0	2	4	3	2	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	6661620	C	T	6661620	3	4	404	1	0	0	0	0	1	0	0	0	4287	922	32	2	8751	2	DCHS1	11	6661620	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		6661620	128344896	23	20182											
TNKS1BP1	85456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57087711	57087711	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatcgcgagctgccatcgtgGttaaaggtgaggcgggaacc	9	8	15	9	4	0	1	0	1	0	0	2	3	0	2	2	4	3	2	2	4	4	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	57087711	G	A	57087711	2	1	404	1	0	0	0	0	0	0	0	1	16319	1252	44	2		2	TNKS1BP1	11	57087711	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	50426091	57087711	77918805	24	20183											
FBXL14	144699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	1702196	1702196	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcgatcagctccaggcccTtgtccgtgatgcgcacacac	8	7	10	16	3	1	1	1	1	0	0	3	2	3	1	3	1	3	2	3	1	0	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	1702196	T	C	1702196	3	2	404	1	0	0	0	0	1	0	0	0	5710	1609	56	3	227	3	FBXL14	12	1702196	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08		1702196	132149699	25	20184											
OR10AD1	121275	hgsc.bcm.edu	37	chr12	48596875	48596876	+	Frame_Shift_Ins	INS	-	-	A																															agcagacatccaggagagacINSagatggccgaggaagaagta																								rs144247841	bycluster;by1000genomes	TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	48596876	-	A	48596875	7	5	404	1	0	1	1	0	0	0	0	0	10896	465	17	0	756	0	OR10AD1	12	48596875	Frame_Shift_Ins	INS	-	TCGA-CJ-4916-01A-01D-1429-08	46894679	48596875	85255020	26	20185											
ACACB	32	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109702175	109702175	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacccggccggatgctggAgaagggcgtcatatctgtga	9	7	14	11	3	2	2	1	1	1	1	2	4	2	3	2	4	1	1	2	4	2	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	109702175	A	G	109702175	3	3	404	1	0	0	0	0	1	0	0	0	107	304	11	3	7120	3	ACACB	12	109702175	Missense_Mutation	SNP	A	TCGA-CJ-4916-01A-01D-1429-08	61105300	109702175	24149720	27	20186											
PITPNM2	57605	broad.mit.edu;hgsc.bcm.edu	37	chr12	123471023	123471023	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggtgggccggcccacgAtgtagatctgcatgggggac	6	9	16	10	2	2	1	0	0	2	1	2	3	2	2	2	5	1	2	2	5	1	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	123471023	A	G	123471023	3	3	404	1	0	0	0	0	1	0	0	0	11951	333	12	3	371	3	PITPNM2	12	123471023	Missense_Mutation	SNP	A	TCGA-CJ-4916-01A-01D-1429-08	13768848	123471023	10380872	28	20187											
DNAH10	196385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124270368	124270368	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgccctgcggatggtgTggatcatctcccgacactac	7	10	12	12	2	2	1	1	1	1	0	3	4	2	3	2	3	3	0	2	3	1	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	124270368	T	A	124270368	3	1	404	1	0	0	0	0	1	0	0	0	4598	1696	59	5	1157	5	DNAH10	12	124270368	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08	799345	124270368	9581527	29	20188											
FAM179B	23116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45433179	45433179	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctttgatcttgccccagctCttgtagatagcaaacgcagg	9	11	9	12	1	2	2	0	1	2	1	2	2	2	2	3	1	4	4	3	1	3	5	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	45433179	C	G	45433179	3	3	404	1	0	0	0	0	1	0	0	0	5506	913	32	4	1557	4	FAM179B	14	45433179	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		45433179	61916361	30	20189											
PELI2	57161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	56757051	56757051	+	Silent	SNP	G	G	T																															ctcactactaatggcgtcctGgtgatgcatccacgaggggg																								novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	56757051	G	T	56757051	2	4	404	1	0	0	0	0	0	0	0	1	11722	1335	47	4		4	PELI2	14	56757051	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	11323872	56757051	50592489	31	20190	267	2									
PELI2	57161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	56757052	56757052	+	Missense_Mutation	SNP	G	G	T																															tcactactaatggcgtcctgGtgatgcatccacgagggggc																								novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	56757052	G	T	56757052	3	4	404	1	0	0	0	0	1	0	0	0	11722	1261	44	4	592	4	PELI2	14	56757052	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	1	56757052	50592488	32	20191	267	2									
POMT2	29954	hgsc.bcm.edu;ucsc.edu	37	chr14	77767444	77767445	+	Frame_Shift_Ins	INS	-	-	G																															gtgctcaccaatgaaagactINSgaggtctccgaacaggtacc																								novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	77767445	-	G	77767444	7	5	404	1	0	1	1	0	0	0	0	0	12246	1580	55	0	1511	0	POMT2	14	77767444	Frame_Shift_Ins	INS	-	TCGA-CJ-4916-01A-01D-1429-08	21010392	77767444	29582096	33	20192											
SPATA5L1	79029	broad.mit.edu	37	chr15	45695510	45695510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccgggaactggccagcCgcggacccagcctcctcttc	5	5	12	19	4	1	0	0	0	1	0	3	2	2	2	6	3	3	0	6	3	1	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	45695510	T	T	45695510	3	4	404	1	0	0	0	0	1	0	0	0	15013	652	23	1	885	1	SPATA5L1	15	45695510	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		45695510	56835882	34	20193											
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49670844	49670844	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcattgctgtgcttcaccGccaggtgcacctggatggac	6	11	11	13	1	2	0	2	0	1	0	3	2	2	2	3	3	3	3	3	3	0	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	49670844	G	A	49670844	3	1	404	1	0	0	0	0	1	0	0	0	17897	1087	38	1	1655	1	ZNF423	16	49670844	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08		49670844	40683909	35	20194											
TAF1C	9013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84216939	84216939	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaagaggaaccggctgaTctggggagaagaggaggcca	13	4	16	8	1	1	4	0	1	1	3	2	7	2	6	3	6	1	1	3	6	3	0	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	84216939	T	C	84216939	3	2	404	1	0	0	0	0	1	0	0	0	15520	1449	50	3	2330	3	TAF1C	16	84216939	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08	34546095	84216939	6137814	36	20195											
CCL3	6348	hgsc.bcm.edu;ucsc.edu	37	chr17	34417377	34417377	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccatggtgcagaggaggaCagcaagggcagcagtggaga	13	3	18	7	0	0	2	0	0	0	2	0	5	0	4	1	5	4	4	1	5	1	0	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	34417377	C	A	34417377	3	1	404	1	0	0	0	0	1	0	0	0	2901	478	17	4	262	4	CCL3	17	34417377	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		34417377	46777833	37	20196											
C17orf47	284083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56620818	56620818	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtttctgattcttctacagGgacccttctctgggctgtct	4	17	9	11	0	5	1	0	1	5	0	6	2	5	2	1	2	1	2	1	2	1	5	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	56620818	G	T	56620818	3	4	404	1	0	0	0	0	1	0	0	0	1858	1232	43	4	990	4	C17orf47	17	56620818	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	22203441	56620818	24574392	38	20197											
TTYH2	94015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72233486	72233486	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctagagcagcacctggcccgGctcagtgagatctttgctgc	7	9	12	13	1	2	2	1	1	1	2	2	3	2	2	2	2	4	4	2	2	1	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	72233486	G	T	72233486	2	4	404	1	0	0	0	0	0	0	0	1	16739	1190	42	4		4	TTYH2	17	72233486	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	15612668	72233486	8961724	39	20198											
DTNA	1837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	32459638	32459638	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatccatgcccgaaaacctgGgtacattcacagtggagcta	13	8	9	11	1	1	0	1	0	0	0	2	2	2	1	3	2	4	2	3	2	5	3	rs150410546	alternate_allele	TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	32459638	G	T	32459638	3	4	404	1	0	0	0	0	1	0	0	0	4788	1232	43	4	2200	4	DTNA	18	32459638	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08		32459638	45617610	40	20199											
SERPINB10	5273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61600419	61600419	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatactactgccagaagaCattaatgggctggaacaggt	13	10	10	8	0	0	2	0	0	0	2	0	3	0	3	1	3	4	1	1	3	6	4	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		T	61600419	C	T	61600419	2	4	404	1	0	0	0	0	0	0	0	1	14099	477	17	2		2	SERPINB10	18	61600419	Silent	SNP	C	TCGA-CJ-4916-01A-01D-1429-08	29140781	61600419	16476829	41	20200											
GAPDHS	26330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36029250	36029250	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgcgcgcctgcatggAgaagggtgttaaggtggtgg	6	9	19	7	2	0	1	0	0	0	1	1	2	1	1	2	6	2	2	2	6	2	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	36029250	A	G	36029250	3	3	404	1	0	0	0	0	1	0	0	0	6237	304	11	3	297	3	GAPDHS	19	36029250	Missense_Mutation	SNP	A	TCGA-CJ-4916-01A-01D-1429-08		36029250	23099733	42	20201											
AXL	558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41727096	41727096	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggacagtaccagtgtttGgtgtttctgggacatcagac	9	11	13	8	1	2	1	1	0	1	1	2	3	2	3	1	3	1	3	1	3	1	3	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	41727096	G	C	41727096	3	2	404	1	0	0	0	0	1	0	0	0	1238	1339	47	4	364	4	AXL	19	41727096	Missense_Mutation	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	5697846	41727096	17401887	43	20202											
PPP1R13L	10848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45901534	45901534	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttacactggaagttcaTgtccagaaagtcccgcgcgc	10	8	10	13	3	1	1	1	0	0	1	3	2	3	2	2	1	2	2	2	1	3	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	45901534	T	C	45901534	3	2	404	1	0	0	0	0	1	0	0	0	12360	1464	51	3	2491	3	PPP1R13L	19	45901534	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08	4174438	45901534	13227449	44	20203											
NTF4	4909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49564851	49564851	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagcgggtttcaaagaagTactggcggaggggactgccg	9	7	17	8	3	1	1	1	0	0	1	1	3	1	3	1	5	4	3	1	5	3	2	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		C	49564851	T	C	49564851	3	2	404	1	0	0	0	0	1	0	0	0	10697	1638	57	3	232	3	NTF4	19	49564851	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08	3663317	49564851	9564132	45	20204											
KAL1	3730	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	8504907	8504907	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttctgccttggagtgaCtttttggccgtattggttgg	4	16	13	8	1	1	1	0	1	1	0	1	2	1	2	2	4	2	3	2	4	1	7	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	8504907	C	A	8504907	3	1	404	1	0	0	0	0	1	0	0	0	7974	565	20	4	532	4	KAL1	23	8504907	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08		8504907	146765653	46	20205											
CENPI	2491	broad.mit.edu;hgsc.bcm.edu	37	chrX	100381784	100381784	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtatctttgcctgtaaggaaGaaggtaagggattaaggaga	14	10	14	3	0	1	2	0	0	1	2	1	5	1	4	1	4	1	3	1	4	6	5	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	100381784	G	A	100381784	2	1	404	1	0	0	0	0	0	0	0	1	3233	933	33	2		2	CENPI	23	100381784	Silent	SNP	G	TCGA-CJ-4916-01A-01D-1429-08	91876877	100381784	54888776	47	20206											
TCEAL2	140597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101382231	101382231	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagccaaaagaaaaaccaaCaaggggctggctcagtacct	18	4	9	10	0	1	1	1	0	0	1	1	1	1	1	3	3	4	3	3	3	8	1	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		A	101382231	C	A	101382231	3	1	404	1	0	0	0	0	1	0	0	0	15670	477	17	4	431	4	TCEAL2	23	101382231	Missense_Mutation	SNP	C	TCGA-CJ-4916-01A-01D-1429-08	1000447	101382231	53888329	48	20207											
STAG2	10735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123179154	123179154	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatatgatggatacagtcatTtcacttcttacaggattgtc	11	16	7	7	0	3	1	2	1	1	0	4	3	3	3	0	2	2	0	0	2	4	7	novel		TCGA-CJ-4916-01A-01D-1429-08	TCGA-CJ-4916-11A-01D-1429-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	81b0e02c-069c-4c4b-b56f-79c2ebec9927	c417619d-5a8f-4c6d-9df7-056f08fef794		G	123179154	T	G	123179154	3	3	404	1	0	0	0	0	1	0	0	0	15244	1829	64	5	625	5	STAG2	23	123179154	Missense_Mutation	SNP	T	TCGA-CJ-4916-01A-01D-1429-08	21796923	123179154	32091406	49	20208											
TNFRSF9	3604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	7998781	7998781	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatatctttgaactcatacCtttacactgcctgcatatgt	12	15	4	10	0	2	1	1	1	1	0	2	1	2	1	2	0	5	1	2	0	6	6	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	7998781	C	A	7998781	3	1	405	1	0	0	0	0	1	0	0	0	16299	695	24	4	583	4	TNFRSF9	1	7998781	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		7998781	241251840	1	20209											
ARHGEF10L	55160	broad.mit.edu;hgsc.bcm.edu	37	chr1	17990994	17990994	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcctgactgtggggccCgggcctgtccgcaccctgtt	2	10	15	14	2	0	1	0	1	0	0	1	1	1	1	5	3	1	2	5	3	0	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	17990994	C	A	17990994	2	1	405	1	0	0	0	0	0	0	0	1	895	639	23	4		4	ARHGEF10L	1	17990994	Silent	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	9992213	17990994	231259627	2	20210											
PTPRU	10076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	29638000	29638000	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggtctatgacttctggCgtatggtgtggcaggagcac	8	11	15	7	1	2	2	0	1	2	1	2	3	2	3	0	5	1	3	0	5	2	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	29638000	C	G	29638000	3	3	405	1	0	0	0	0	1	0	0	0	12815	768	27	4	3024	4	PTPRU	1	29638000	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	11647006	29638000	219612621	3	20211											
LRRIQ3	127255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	74507303	74507303	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctacaactcttactttttCtttatggtattcctgcttct	6	20	5	10	0	3	0	0	0	3	0	4	0	4	0	1	2	4	3	1	2	5	9	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	74507303	C	T	74507303	3	4	405	1	0	0	0	0	1	0	0	0	9030	922	32	2	570	2	LRRIQ3	1	74507303	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	44869303	74507303	174743318	4	20212											
BCAR3	8412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94057948	94057948	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgatgtgcctctccttggaGaactgcaacacagagtcaac	12	9	9	11	0	2	3	1	1	1	2	3	4	2	3	2	1	5	1	2	1	3	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	94057948	G	A	94057948	2	1	405	1	0	0	0	0	0	0	0	1	1349	933	33	2		2	BCAR3	1	94057948	Silent	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	19550645	94057948	155192673	5	20213											
NUP210L	91181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154029322	154029322	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggagttgatgtgtattttCttcccatcttgtccttggca	6	17	10	8	0	2	1	0	1	2	0	4	3	4	2	2	2	0	3	2	2	1	7	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	154029322	C	T	154029322	3	4	405	1	0	0	0	0	1	0	0	0	10761	913	32	2	2529	2	NUP210L	1	154029322	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	59971374	154029322	95221299	6	20214											
RABGAP1L	9910	hgsc.bcm.edu;ucsc.edu	37	chr1	174781011	174781011	+	Frame_Shift_Del	DEL	T	T	-																															caggctgattttgaaggtgcTttaaagttctttagagttca																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		-	174781011	T	-	174781011	7	5	405	1	0	1	0	1	0	0	0	0	12967	1596	56	0	2323	0	RABGAP1L	1	174781011	Frame_Shift_Del	DEL	T	TCGA-CJ-4918-01A-01D-1429-08	20751689	174781011	74469610	7	20215											
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186327744	186327744	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaagtacagatgattgcttGttggctttatcagtgtcctc	8	16	9	8	0	2	2	2	1	0	1	4	2	3	2	1	1	2	4	1	1	3	6	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	186327744	G	A	186327744	2	1	405	1	0	0	0	0	0	0	0	1	16415	1368	48	2		2	TPR	1	186327744	Silent	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	11546733	186327744	62922877	8	20216											
NUAK2	81788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205272654	205272654	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtctgtcagggaaaagCagctgtcccccaaaggatcc	11	6	12	12	0	2	0	1	0	1	0	4	2	4	2	3	3	2	3	3	3	3	0	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	205272654	C	T	205272654	3	4	405	1	0	0	0	0	1	0	0	0	10713	710	25	2	79	2	NUAK2	1	205272654	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	18944910	205272654	43977967	9	20217											
TRAF5	7188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	211545865	211545865	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagaacattatggagaccTtcaaacctgaccccaatagc	17	7	6	11	0	1	3	1	1	0	2	1	4	1	3	4	1	3	0	4	1	7	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	211545865	T	A	211545865	3	1	405	1	0	0	0	0	1	0	0	0	16443	1609	56	5	1533	5	TRAF5	1	211545865	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	6273211	211545865	37704756	10	20218											
FMN2	56776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	240370231	240370231	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggacacagaggtggccagtGgtcatcaagggcttgagaat	11	8	15	7	0	2	2	2	1	0	2	2	4	2	3	1	5	0	1	1	5	2	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	240370231	G	T	240370231	3	4	405	1	0	0	0	0	1	0	0	0	5950	1348	47	4	2137	4	FMN2	1	240370231	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	28824366	240370231	8880390	11	20219											
ITSN2	50618	hgsc.bcm.edu;ucsc.edu	37	chr2	24435589	24435589	+	Frame_Shift_Del	DEL	C	C	-																															ggaagctggagaggggcattCctttacaccgcgggtcagat																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		-	24435589	C	-	24435589	7	5	405	1	0	1	0	1	0	0	0	0	7927	855	30	0	1106	0	ITSN2	2	24435589	Frame_Shift_Del	DEL	C	TCGA-CJ-4918-01A-01D-1429-08		24435589	218763784	12	20220											
EML4	27436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	42472705	42472705	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctgtcagctcttgagtCacgagttcagcaacaagaag	11	9	10	11	2	4	2	3	1	1	1	5	3	4	2	1	0	3	3	1	0	3	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	42472705	C	A	42472705	4	1	405	1	0	0	0	0	0	1	0	0	5099	838	29	4	92	4	EML4	2	42472705	Nonsense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	18037116	42472705	200726668	13	20221											
C2orf86	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	63631341	63631341	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaataatttactgaattgcAgagtctccctgggtaagcgg	12	11	10	8	1	1	2	0	1	1	1	2	2	1	2	1	2	3	2	1	2	5	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	63631341	A	T	63631341	3	4	405	1	0	0	0	0	1	0	0	0	2201	188	7	5	999	5	C2orf86	2	63631341	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	21158636	63631341	179568032	14	20222											
CYP26B1	56603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	72371136	72371136	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttgcgcttgttgcggtgGatgtcgccaatggaattgga	7	12	14	8	3	0	0	0	0	0	0	1	3	0	3	2	4	2	2	2	4	2	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	72371136	G	T	72371136	2	4	405	1	0	0	0	0	0	0	0	1	4156	1164	41	4		4	CYP26B1	2	72371136	Silent	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	8739795	72371136	170828237	15	20223											
ALMS1	7840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73746997	73746997	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacagaaagtccagaaaagaCcctattttcatctgagattt	16	11	6	8	0	2	4	1	1	1	4	3	5	3	4	2	0	1	0	2	0	5	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	73746997	C	A	73746997	3	1	405	1	0	0	0	0	1	0	0	0	535	507	18	4	9674	4	ALMS1	2	73746997	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	1375861	73746997	169452376	16	20224											
MRPL30	51263	broad.mit.edu;hgsc.bcm.edu	37	chr2	99812127	99812127	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggagttagtagtgcagTggcatctgaaacctgtggag	9	10	16	6	0	1	1	0	1	1	0	1	3	1	3	1	4	2	4	1	4	3	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	99812127	T	G	99812127	3	3	405	1	0	0	0	0	1	0	0	0	9794	1696	59	5	463	5	MRPL30	2	99812127	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	26065130	99812127	143387246	17	20225											
AFF3	3899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	100625302	100625302	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcactgaagagagagtaaCtagaattaaacgtgccatca	16	8	9	8	1	2	4	2	1	0	3	2	5	2	4	1	0	3	2	1	0	6	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	100625302	C	G	100625302	3	3	405	1	0	0	0	0	1	0	0	0	358	565	20	4	3618	4	AFF3	2	100625302	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	813175	100625302	142574071	18	20226											
SGOL2	151246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	201437495	201437495	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaataggtaagaagcctaGactaaatgtatgtcaaaagt	20	9	8	4	0	1	2	1	0	0	2	1	2	1	2	1	1	1	2	1	1	11	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	201437495	G	T	201437495	3	4	405	1	0	0	0	0	1	0	0	0	14219	942	33	4	2448	4	SGOL2	2	201437495	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	100812193	201437495	41761878	19	20227											
ECEL1	9427	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	233349705	233349705	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcacgttggccagctgctGctccacttgcaggatctctt	5	12	10	14	1	2	0	1	0	1	0	4	1	3	1	2	2	4	6	2	2	0	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	233349705	G	C	233349705	3	2	405	1	0	0	0	0	1	0	0	0	4891	1328	46	4	1435	4	ECEL1	2	233349705	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	31912210	233349705	9849668	20	20228											
VHL	7428	hgsc.bcm.edu	37	chr3	10183863	10183863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggccgccgcatccacaGctaccgaggtacgggcccgg	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	10183863	G	A	10183863	3	1	405	1	0	0	0	0	1	0	0	0	17161	971	34	2	334	2	VHL	3	10183863	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08		10183863	187838567	21	20229											
KALRN	8997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	124215189	124215189	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggatattgacagccaggggGatgggagcagccaaccagac	13	4	15	9	0	0	2	0	1	0	1	0	5	0	5	3	4	4	1	3	4	2	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	124215189	G	A	124215189	3	1	405	1	0	0	0	0	1	0	0	0	7975	1174	41	2	4988	2	KALRN	3	124215189	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	114031326	124215189	73807241	22	20230											
WDR1	9948	broad.mit.edu;ucsc.edu	37	chr4	10089380	10089380	+	Frame_Shift_Del	DEL	A	-	-																															tgtttctgtccagatagttgAtgtacccggacagggagaca																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		-	10089380	-	-	10089380	7	5	405	1	0	1	0	1	0	0	0	0	17271	333	12	0	950	0	WDR1	4	10089380	Frame_Shift_Del	DEL	A	TCGA-CJ-4918-01A-01D-1429-08		10089380	181064896	23	20231											
SLC30A9	10463	broad.mit.edu;hgsc.bcm.edu	37	chr4	42072678	42072678	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacaagtacaacggctcaCtgaactcctggagaatgacc	15	6	9	11	1	1	4	1	2	0	2	2	5	2	4	2	2	4	2	2	2	6	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	42072678	C	G	42072678	3	3	405	1	0	0	0	0	1	0	0	0	14564	565	20	4	1446	4	SLC30A9	4	42072678	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	31983298	42072678	149081598	24	20232											
ANXA3	306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79518556	79518556	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggcattttgaagacttaCtgttggccataggtaagact	10	13	11	7	0	0	3	0	1	0	2	0	3	0	3	1	3	1	3	1	3	4	6	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	79518556	C	A	79518556	3	1	405	1	0	0	0	0	1	0	0	0	719	564	20	4	752	4	ANXA3	4	79518556	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	37445878	79518556	111635720	25	20233											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85654653	85654653	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtcatctccagcatccacTtgtcgaggtgggagccgatg	7	10	12	12	2	2	0	1	0	1	0	5	3	3	1	3	2	2	1	3	2	0	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	85654653	T	A	85654653	3	1	405	1	0	0	0	0	1	0	0	0	17269	1609	56	5	3577	5	WDFY3	4	85654653	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	6136097	85654653	105499623	26	20234											
MTTP	4547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	100521758	100521758	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcacctctgctcagacCtcagactcattagaagccat	10	10	7	14	0	5	3	4	0	1	3	5	3	5	3	3	0	2	2	3	0	2	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	100521758	C	T	100521758	2	4	405	1	0	0	0	0	0	0	0	1	9964	668	24	2		2	MTTP	4	100521758	Silent	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	14867105	100521758	90632518	27	20235											
RAPGEF2	9693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	160273880	160273880	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtggataatttttcagaTtctggtcacagtgaaatttc	11	16	8	6	0	3	2	2	1	1	1	4	3	3	3	0	2	0	0	0	2	2	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	160273880	T	A	160273880	3	1	405	1	0	0	0	0	1	0	0	0	13046	1490	52	5	3508	5	RAPGEF2	4	160273880	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	59752122	160273880	30880396	28	20236											
RNASEN	0	broad.mit.edu	37	chr5	31423045	31423045	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcgatcagtatttggctCttgtagctacaggaaaatag	11	14	10	6	1	2	0	1	0	1	0	3	2	2	1	0	2	2	4	0	2	6	7	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	31423045	A	A	31423045	4	1	405	1	0	0	0	0	0	1	0	0	13419	922	32	4	888	4	RNASEN	5	31423045	Nonsense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		31423045	149492215	29	20237											
KCNN2	3781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	113698884	113698884	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcggctcagcgactacGcgctcatcttcggcatgttc	7	9	11	14	5	3	0	2	0	1	0	5	1	3	0	0	2	3	5	0	2	2	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	113698884	G	T	113698884	3	4	405	1	0	0	0	0	1	0	0	0	8079	1087	38	4	414	4	KCNN2	5	113698884	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	82275839	113698884	67216376	30	20238											
SLC12A2	6558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127497486	127497486	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agagaaggtgcacagtatttGatgcaggtaactttgttaat	13	13	11	4	0	0	2	0	1	0	1	0	3	0	2	0	2	3	5	0	2	4	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	127497486	G	C	127497486	3	2	405	1	0	0	0	0	1	0	0	0	14385	1281	45	4	2676	4	SLC12A2	5	127497486	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	13798602	127497486	53417774	31	20239											
GRIA1	2890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	152873521	152873521	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccagcagtcacaggaacAtgctgcttttagatttgctt	12	12	8	9	0	1	1	1	0	0	1	1	2	1	2	1	1	6	4	1	1	3	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	152873521	A	G	152873521	3	3	405	1	0	0	0	0	1	0	0	0	6767	217	8	3	122	3	GRIA1	5	152873521	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	25376035	152873521	28041739	32	20240											
C6orf145	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	3723939	3723939	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggtcgtccccgtcctccaGctctgagggaaactcactgc	6	9	11	15	2	2	1	1	1	1	0	6	2	5	2	4	2	3	1	4	2	1	0	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	3723939	G	A	3723939	2	1	405	1	0	0	0	0	0	0	0	1	2334	962	34	2		2	C6orf145	6	3723939	Silent	SNP	G	TCGA-CJ-4918-01A-01D-1429-08		3723939	167391128	33	20241											
SLC17A4	10050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	25779371	25779371	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctcatctttggccgagcAgatgtgcaggactgggctaa	9	10	12	10	1	2	1	1	0	1	1	2	3	2	2	2	3	3	3	2	3	2	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	25779371	A	T	25779371	2	4	405	1	0	0	0	0	0	0	0	1	14421	175	7	5		5	SLC17A4	6	25779371	Silent	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	22055432	25779371	145335696	34	20242											
CCHCR1	54535	hgsc.bcm.edu	37	chr6	31113524	31113525	+	Frame_Shift_Ins	INS	-	-	G																															ctgagtcggttgttgaggctINSgggaagctgggcggcagccc																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	31113525	-	G	31113524	7	5	405	1	0	1	1	0	0	0	0	0	2877	1580	55	0	1005	0	CCHCR1	6	31113524	Frame_Shift_Ins	INS	-	TCGA-CJ-4918-01A-01D-1429-08	5334153	31113524	140001543	35	20243											
BAT3	0	broad.mit.edu	37	chr6	31611899	31611899	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctccaggatgggaaggcCgagcctgtggaggagtgggc	7	5	19	10	1	0	0	0	0	0	0	1	5	1	4	4	6	1	0	4	6	1	0	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	31611899	A	A	31611899	3	1	405	1	0	0	0	0	1	0	0	0	1322	652	23	4	1916	4	BAT3	6	31611899	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	498375	31611899	139503168	36	20244											
UHRF1BP1	54887	hgsc.bcm.edu;ucsc.edu	37	chr6	34825920	34825921	+	Frame_Shift_Del	DEL	AG	AG	-																															ggtgagctttccactggaaaAgagagagcgggcagagttgc																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		-	34825921	AG	-	34825920	7	5	405	1	0	1	0	1	0	0	0	0	16967	72	3	0	1841	0	UHRF1BP1	6	34825920	Frame_Shift_Del	DEL	AG	TCGA-CJ-4918-01A-01D-1429-08	3214021	34825920	136289147	37	20245											
DNAH8	1769	broad.mit.edu	37	chr6	38889260	38889260	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagtacaggcaaaatttgAtgcagcaatgaatgagaaaa	20	8	9	4	0	0	3	0	3	0	1	0	4	0	3	0	1	3	4	0	1	9	3	rs147713611	alternate_allele	TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	38889260	T	T	38889260	3	4	405	1	0	0	0	0	1	0	0	0	4607	333	12	5	10255	5	DNAH8	6	38889260	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	4063340	38889260	132225807	38	20246											
STK31	56164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23775341	23775341	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaactgacatctgtgaggAaaaaaaattggatcctggtc	15	9	10	7	0	1	3	0	2	1	1	3	5	2	5	1	3	1	0	1	3	5	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	23775341	A	T	23775341	3	4	405	1	0	0	0	0	1	0	0	0	15297	246	9	5	694	5	STK31	7	23775341	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08		23775341	135363322	39	20247											
OGDH	4967	broad.mit.edu;ucsc.edu	37	chr7	44733560	44733560	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtacgtgtgcaaagtggcggCcgagtggaggagcaccttcc	8	7	16	10	3	0	0	0	0	0	0	1	3	1	2	3	4	3	3	3	4	2	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	44733560	A	A	44733560	3	1	405	1	0	0	0	0	1	0	0	0	10839	739	26	4	1683	4	OGDH	7	44733560	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	20958219	44733560	114405103	40	20248											
HUS1	3364	hgsc.bcm.edu;ucsc.edu	37	chr7	48008881	48008881	+	Frame_Shift_Del	DEL	A	A	-																															ctaattcagtttctattttcAaattcaattctccatctagg																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		-	48008881	A	-	48008881	7	5	405	1	0	1	0	1	0	0	0	0	7459	131	5	0	279	0	HUS1	7	48008881	Frame_Shift_Del	DEL	A	TCGA-CJ-4918-01A-01D-1429-08	3275321	48008881	111129782	41	20249											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu	37	chr7	82474757	82474757	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaccttctggagttctgCtgccaactgcttaggatcaa	10	12	9	10	0	3	1	1	1	2	0	3	3	3	3	2	2	5	3	2	2	4	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	82474757	C	T	82474757	3	4	405	1	0	0	0	0	1	0	0	0	11583	797	28	2	1621	2	PCLO	7	82474757	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	34465876	82474757	76663906	42	20250											
EPHB4	2050	broad.mit.edu;hgsc.bcm.edu	37	chr7	100417900	100417900	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcctgacaggggcttgAaggtgccctgggcacaggct	6	9	14	12	0	1	2	0	2	1	0	2	2	1	2	2	5	1	3	2	5	1	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	100417900	A	C	100417900	3	2	405	1	0	0	0	0	1	0	0	0	5177	246	9	5	2188	5	EPHB4	7	100417900	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	17943143	100417900	58720763	43	20251											
ZNF800	168850	ucsc.edu	37	chr7	127031545	127031545	+	Intron	SNP	G	G	T																															gcaactgcggacgaagagggGtctacctggttcacagcatc																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	127031545	G	T	127031545	1	4	405	0	1	0	0	0	0	0	0	0	18168	1276	44	4		4	ZNF800	7	127031545	Intron	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	26613645	127031545	32107118	44	20252	268	2									
ZNF800	168850	ucsc.edu	37	chr7	127031546	127031546	+	Intron	SNP	T	T	A																															caactgcggacgaagaggggTctacctggttcacagcatcc																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	127031546	T	A	127031546	1	1	405	0	1	0	0	0	0	0	0	0	18168	1682	58	5		5	ZNF800	7	127031546	Intron	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	1	127031546	32107117	45	20253	268	2									
PLEC	5339	broad.mit.edu;hgsc.bcm.edu	37	chr8	144996079	144996079	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccggctctgcctctgccGcggggccatcaagtgcatcc	4	8	12	17	3	3	0	1	0	2	0	5	0	5	0	5	3	3	3	5	3	1	0	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	144996079	G	C	144996079	3	2	405	1	0	0	0	0	1	0	0	0	12052	1087	38	4	5737	4	PLEC	8	144996079	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08		144996079	1367943	46	20254											
JAK2	3717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5022145	5022145	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggaaatctgaggcagAttatctgacctttccatctg	9	13	9	10	0	3	3	0	2	3	1	4	4	4	4	3	2	0	1	3	2	2	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	5022145	A	C	5022145	3	2	405	1	0	0	0	0	1	0	0	0	7938	333	12	5	160	5	JAK2	9	5022145	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08		5022145	136191286	47	20255											
SLC24A2	25769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	19550217	19550217	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgacttgcttgcgggttTcagaaggccaggcaaggctg	8	9	15	9	2	1	2	1	1	0	1	1	2	1	2	1	4	2	4	1	4	2	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	19550217	T	A	19550217	3	1	405	1	0	0	0	0	1	0	0	0	14468	1783	62	5	604	5	SLC24A2	9	19550217	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	14528072	19550217	121663214	48	20256											
C9orf3	84909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	97823038	97823038	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagaagactctgagcccCcgaactctgcaaagcctcca	12	5	9	15	1	2	3	0	1	2	2	3	5	3	3	4	0	5	2	4	0	3	0	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	97823038	C	T	97823038	2	4	405	1	0	0	0	0	0	0	0	1	2477	610	22	2		2	C9orf3	9	97823038	Silent	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	78272821	97823038	43390393	49	20257											
COL15A1	1306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101829277	101829277	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctaccgagcattcttatcTtcccatttgcaagatctgtc	9	14	5	13	1	3	1	0	0	3	1	5	2	4	1	3	0	3	2	3	0	3	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	101829277	T	G	101829277	2	3	405	1	0	0	0	0	0	0	0	1	3672	1596	56	5		5	COL15A1	9	101829277	Silent	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	4006239	101829277	39384154	50	20258											
CDK5RAP2	55755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123222946	123222946	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctccttgctagccagaagCtacatggagcatggaatggt	10	10	11	10	0	0	1	0	0	0	1	2	3	2	3	3	3	5	3	3	3	4	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	123222946	C	T	123222946	5	4	405	1	0	0	0	0	0	0	1	0	3146	811	28	2	3655	2	CDK5RAP2	9	123222946	Splice_Site	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	21393669	123222946	17990485	51	20259											
EHMT1	79813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140695437	140695437	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatcaacatccgagacaacGtaagttcgtcacaccctccc	13	7	5	16	3	2	1	2	0	0	1	5	2	4	1	3	0	2	2	3	0	3	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	140695437	G	A	140695437	5	1	405	1	0	0	0	0	0	0	1	0	4983	1159	40	1	2832	1	EHMT1	9	140695437	Splice_Site	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	17472491	140695437	517994	52	20260											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61868693	61868693	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttatgtctctttaccaaaCggcaggtgattcgagtgggg	8	13	13	7	2	1	1	0	1	1	0	3	2	1	1	1	4	2	2	1	4	3	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	61868693	C	G	61868693	3	3	405	1	0	0	0	0	1	0	0	0	622	536	19	4	10446	4	ANK3	10	61868693	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		61868693	73666054	53	20261											
WAPAL	23063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	88230845	88230845	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggcatggcacatttagtAgccaagctaataacactaca	14	9	8	10	0	0	0	0	0	0	0	0	0	0	0	1	2	4	4	1	2	6	6	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	88230845	A	T	88230845	2	4	405	1	0	0	0	0	0	0	0	1	17247	407	15	5		5	WAPAL	10	88230845	Silent	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	26362152	88230845	47303902	54	20262											
C11orf9	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61545943	61545943	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgggaaaaccatagagaaCttcctggtggtgaacaaggt	15	8	12	6	0	0	2	0	1	0	1	1	4	1	3	2	4	3	0	2	4	7	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	61545943	C	T	61545943	2	4	405	1	0	0	0	0	0	0	0	1	1671	564	20	2		2	C11orf9	11	61545943	Silent	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		61545943	73460573	55	20263											
GRM5	2915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	88300984	88300984	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagcccaggcagatgccagCaaggataatgtagcagagtt	13	7	13	8	0	0	2	0	0	0	2	0	3	0	3	2	2	4	6	2	2	4	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	88300984	C	A	88300984	3	1	405	1	0	0	0	0	1	0	0	0	6800	710	25	4	1783	4	GRM5	11	88300984	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	26755041	88300984	46705532	56	20264											
BCO2	83875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	112064374	112064374	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggatccatgcaagaatgtTtttgaacgtttcatgtccag	10	13	9	9	2	1	2	1	1	0	1	3	3	3	3	3	1	2	3	3	1	3	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	112064374	T	C	112064374	2	2	405	1	0	0	0	0	0	0	0	1	1385	1828	64	3		3	BCO2	11	112064374	Silent	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	23763390	112064374	22942142	57	20265											
RDH5	5959	broad.mit.edu;ucsc.edu	37	chr12	56115023	56115023	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagtgctgtggttgctcAgggaccggcagagcctgccc	5	7	17	12	1	1	1	1	0	0	1	1	2	1	2	3	4	4	5	3	4	0	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	56115023	G	G	56115023	3	3	405	1	0	0	0	0	1	0	0	0	13197	179	7	3	57	3	RDH5	12	56115023	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08		56115023	77736872	58	20266											
B4GALNT1	2583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58020623	58020623	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatcctgggtaacggtaccgGgcgtaagtctctgctccggc	6	9	14	12	4	1	0	0	0	1	0	4	1	3	0	3	4	3	4	3	4	3	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	58020623	G	A	58020623	2	1	405	1	0	0	0	0	0	0	0	1	1266	1219	43	2		2	B4GALNT1	12	58020623	Silent	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	1905600	58020623	75831272	59	20267											
SLC24A6	80024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113742186	113742186	+	Silent	SNP	G	G	A																															cccagccccacacccacgagGatgtctgcagcccagctcag																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	113742186	G	A	113742186	2	1	405	1	0	0	0	0	0	0	0	1	14472	1164	41	2		2	SLC24A6	12	113742186	Silent	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	55721563	113742186	20109709	60	20268	269	2									
SLC24A6	80024	hgsc.bcm.edu;ucsc.edu	37	chr12	113742187	113742187	+	Missense_Mutation	SNP	A	A	T																															ccagccccacacccacgaggAtgtctgcagcccagctcagg																								novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	113742187	A	T	113742187	3	4	405	1	0	0	0	0	1	0	0	0	14472	333	12	5	266	5	SLC24A6	12	113742187	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	1	113742187	20109708	61	20269	269	2									
SLC24A6	80024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113758188	113758188	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagagcatgaggaaggtcagGaacacagccaccatgtagaa	17	4	12	8	0	1	3	1	1	0	2	1	5	1	5	2	3	3	2	2	3	5	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	113758188	G	T	113758188	3	4	405	1	0	0	0	0	1	0	0	0	14472	1165	41	4	1152	4	SLC24A6	12	113758188	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	16001	113758188	20093707	62	20270											
POLE	5426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133233985	133233985	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctggatggcgcttcccaGccgctcaatgtagtagtccc	6	11	10	14	2	2	0	1	0	1	0	4	1	4	1	3	2	1	4	3	2	3	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	133233985	G	T	133233985	3	4	405	1	0	0	0	0	1	0	0	0	12196	962	34	4	3539	4	POLE	12	133233985	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	19475797	133233985	617910	63	20271											
GJB6	10804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20797015	20797015	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccacgttaagcagcatgCaaatcacagacgcagaaatc	15	6	8	12	2	1	2	1	0	0	2	2	2	1	2	1	0	4	5	1	0	3	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	20797015	C	A	20797015	3	1	405	1	0	0	0	0	1	0	0	0	6412	710	25	4	184	4	GJB6	13	20797015	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		20797015	94372863	64	20272											
C13orf31	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	44462991	44462991	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acattgttgttgtacttggaCcttcagtaggaccttgctgt	7	16	10	8	0	1	0	1	0	0	0	1	2	1	2	2	2	2	5	2	2	2	8	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	44462991	C	A	44462991	3	1	405	1	0	0	0	0	1	0	0	0	1726	507	18	4	1020	4	C13orf31	13	44462991	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	23665976	44462991	70706887	65	20273											
ZC3H13	23091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	46577388	46577388	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atttttctttgtattttttcCccagagcgatatcttctggt	6	21	6	8	1	3	1	0	0	3	1	4	2	4	1	2	1	1	1	2	1	2	9	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	46577388	C	T	46577388	3	4	405	1	0	0	0	0	1	0	0	0	17564	623	22	2	3904	2	ZC3H13	13	46577388	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	2114397	46577388	68592490	66	20274											
CTAGE5	4253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	39782629	39782629	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agatcagccatgccactgaaGagctggagacctataggtat	13	8	11	9	0	1	4	1	1	0	3	1	5	1	4	3	2	3	2	3	2	4	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	39782629	G	A	39782629	3	1	405	1	0	0	0	0	1	0	0	0	3994	943	33	2	1364	2	CTAGE5	14	39782629	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08		39782629	67566911	67	20275											
HIF1A	3091	broad.mit.edu;hgsc.bcm.edu	37	chr14	62211422	62211422	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttagaatttttttcttttcaGaactacagttcctgaggaag	11	17	7	6	0	2	3	1	1	1	2	3	4	3	4	1	1	2	1	1	1	5	8	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	62211422	G	C	62211422	5	2	405	1	0	0	0	0	0	0	1	0	7103	956	33	4	2143	4	HIF1A	14	62211422	Splice_Site	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	22428793	62211422	45138118	68	20276											
COPS2	9318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49429387	49429387	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgtaaaattttttgaagcTttccatattcctctcgttct	8	18	6	9	2	2	1	0	1	2	0	5	1	4	1	2	1	1	3	2	1	4	8	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	49429387	T	C	49429387	3	2	405	1	0	0	0	0	1	0	0	0	3733	1609	56	3	863	3	COPS2	15	49429387	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08		49429387	53102005	69	20277											
CSK	1445	broad.mit.edu;hgsc.bcm.edu	37	chr15	75091783	75091783	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtaccatgccagcaagcTcagcatcgacgaggaggtgt	11	7	12	11	2	1	0	1	0	0	0	2	3	1	1	2	2	5	4	2	2	2	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	75091783	T	A	75091783	3	1	405	1	0	0	0	0	1	0	0	0	3943	1551	54	5	427	5	CSK	15	75091783	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	25662396	75091783	27439609	70	20278											
RBL2	5934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53495738	53495738	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcatttccagccagacGaggatttcagtaattgtgct	10	12	9	10	1	2	1	2	0	0	1	3	3	3	2	2	1	3	3	2	1	1	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	53495738	G	T	53495738	4	4	405	1	0	0	0	0	0	1	0	0	13112	1059	37	4	1470	4	RBL2	16	53495738	Nonsense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08		53495738	36859015	71	20279											
SLC38A8	146167	broad.mit.edu	37	chr16	84063144	84063144	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagacactgaacacagaggtCcaggaggcagggctgtaaac	15	4	13	9	0	0	3	0	1	0	2	1	4	1	4	1	4	2	3	1	4	4	1	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	84063144	A	A	84063144	3	1	405	1	0	0	0	0	1	0	0	0	14612	856	30	4	686	4	SLC38A8	16	84063144	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	30567406	84063144	6291609	72	20280											
AIPL1	23746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6331788	6331788	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccttgccctgggccatctgCctcaggctccgggataggat	5	10	12	14	1	2	0	1	0	1	0	4	2	4	2	5	4	2	1	5	4	1	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	6331788	C	T	6331788	2	4	405	1	0	0	0	0	0	0	0	1	436	738	26	2		2	AIPL1	17	6331788	Silent	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		6331788	74863422	73	20281											
NBR1	4077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41349125	41349125	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacagaagtccttgcagagTgagtgtccttgcatttcccc	9	11	10	11	0	0	4	0	1	0	3	3	4	3	4	4	0	2	2	4	0	1	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	41349125	T	C	41349125	5	2	405	1	0	0	0	0	0	0	1	0	10200	1710	59	3	2086	3	NBR1	17	41349125	Splice_Site	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	35017337	41349125	39846085	74	20282											
CLTC	1213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57758814	57758814	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgccattttccggaaatTtgatgtcaatacttcagcag	11	15	7	8	1	2	1	2	1	0	0	3	2	3	2	2	1	3	1	2	1	3	6	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	57758814	T	C	57758814	3	2	405	1	0	0	0	0	1	0	0	0	3566	1841	64	3	3302	3	CLTC	17	57758814	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08	16409689	57758814	23436396	75	20283											
ATP8B1	5205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55361849	55361849	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcatcaagtaatcaatttTagttcttttaaatctggttt	11	20	5	5	0	5	0	3	0	2	0	5	0	5	0	0	1	0	4	0	1	6	8	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	55361849	T	C	55361849	3	2	405	1	0	0	0	0	1	0	0	0	1194	1763	61	3	2833	3	ATP8B1	18	55361849	Missense_Mutation	SNP	T	TCGA-CJ-4918-01A-01D-1429-08		55361849	22715399	76	20284											
ZBTB7A	51341	broad.mit.edu;hgsc.bcm.edu	37	chr19	4048233	4048233	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccgcatgtgcaccttcagCttgtcctgcctgtggacggg	4	12	12	13	2	1	0	1	0	0	0	3	1	3	1	4	2	3	3	4	2	0	3	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	4048233	C	A	4048233	3	1	405	1	0	0	0	0	1	0	0	0	17552	796	28	4	486	4	ZBTB7A	19	4048233	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		4048233	55080750	77	20285											
PDE4C	5143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18331077	18331077	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actcggacacctggttcccgGagcggctggtttcggacagg	6	8	15	12	4	0	0	0	0	0	0	3	3	1	3	2	7	1	3	2	7	0	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	18331077	G	A	18331077	3	1	405	1	0	0	0	0	1	0	0	0	11641	1174	41	2	1413	2	PDE4C	19	18331077	Missense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08	14282844	18331077	40797906	78	20286											
SIPA1L3	23094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38572298	38572298	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctccctgggccacacacAggggactacgctcccttggg	6	7	12	16	1	0	0	0	0	0	0	3	1	3	1	4	4	1	1	4	4	1	2	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	38572298	A	G	38572298	2	3	405	1	0	0	0	0	0	0	0	1	14333	175	7	3		3	SIPA1L3	19	38572298	Silent	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	20241221	38572298	20556685	79	20287											
ZNF211	10520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58153167	58153167	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaagtcatttaagcaaagctCcagcttcagttcacatcgga	13	10	8	10	1	3	0	3	0	0	0	5	2	4	1	1	1	3	4	1	1	3	4	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		G	58153167	C	G	58153167	3	3	405	1	0	0	0	0	1	0	0	0	17766	855	30	4	1366	4	ZNF211	19	58153167	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08	19580869	58153167	975816	80	20288											
ZSCAN1	284312	hgsc.bcm.edu	37	chr19	58551902	58551902	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccaaggtcccagaaagAaccatcgcaggtgagcccgg	12	4	13	12	2	0	3	0	1	0	2	3	4	2	3	4	3	2	1	4	3	3	0	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		C	58551902	A	C	58551902	3	2	405	1	0	0	0	0	1	0	0	0	18225	246	9	5	461	5	ZSCAN1	19	58551902	Missense_Mutation	SNP	A	TCGA-CJ-4918-01A-01D-1429-08	398735	58551902	577081	81	20289											
JAG1	182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	10627597	10627597	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtcttactttcatggcaGtatgttcccgtgaagccttt	7	15	10	9	1	2	1	1	1	1	0	3	2	3	2	2	2	2	3	2	2	3	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		T	10627597	G	T	10627597	4	4	405	1	0	0	0	0	0	1	0	0	7934	1024	36	4	1833	4	JAG1	20	10627597	Nonsense_Mutation	SNP	G	TCGA-CJ-4918-01A-01D-1429-08		10627597	52397923	82	20290											
TMPRSS15	5651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	19701513	19701513	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaatcagcttcttcacCatctcttatttcaactacat	12	14	3	12	0	5	0	3	0	2	0	6	1	5	1	1	1	3	1	1	1	5	5	novel		TCGA-CJ-4918-01A-01D-1429-08	TCGA-CJ-4918-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c5d4600-0271-4c03-ab44-239ac19d8b4d	80f9282a-cc37-4eb9-9b12-afac245fc8bd		A	19701513	C	A	19701513	3	1	405	1	0	0	0	0	1	0	0	0	16245	594	21	4	1350	4	TMPRSS15	21	19701513	Missense_Mutation	SNP	C	TCGA-CJ-4918-01A-01D-1429-08		19701513	28428382	83	20291											
DEM1	0	hgsc.bcm.edu;ucsc.edu	37	chr1	40980774	40980783	+	Frame_Shift_Del	DEL	TACAGCCAAG	TACAGCCAAG	-																															gtgattgatgagctgcactaTacagccaagggggaactgga																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	TACAGCCAAG	TACAGCCAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	40980783	TACAGCCAAG	-	40980774	7	5	406	1	0	1	0	1	0	0	0	0	4425	1413	49	0	560	0	DEM1	1	40980774	Frame_Shift_Del	DEL	TACAGCCAAG	TCGA-CJ-4920-01A-01D-1429-08		40980774	208269847	1	20292											
DOCK7	85440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62973695	62973695	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtagccaggtttccatCaatcagtgcttcgtgttcaa	8	15	8	10	1	4	0	3	0	1	0	6	0	5	0	2	1	2	4	2	1	3	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	62973695	C	A	62973695	3	1	406	1	0	0	0	0	1	0	0	0	4692	826	29	4	2072	4	DOCK7	1	62973695	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	21992921	62973695	186276926	2	20293											
ST6GALNAC3	256435	hgsc.bcm.edu;ucsc.edu	37	chr1	77094481	77094482	+	Frame_Shift_Ins	INS	-	-	A																															tttacacatccaaactggacINSattgtcttgataatggtttt																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	77094482	-	A	77094481	7	5	406	1	0	1	1	0	0	0	0	0	15226	478	17	0	940	0	ST6GALNAC3	1	77094481	Frame_Shift_Ins	INS	-	TCGA-CJ-4920-01A-01D-1429-08	14120786	77094481	172156140	3	20294											
SLC16A4	9122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110906399	110906399	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttctttcaggtcagacTgtttttccatctttcggcca	5	19	6	11	1	5	1	2	0	3	1	7	1	6	1	2	2	0	1	2	2	0	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	110906399	T	C	110906399	3	2	406	1	0	0	0	0	1	0	0	0	14412	1580	55	3	14	3	SLC16A4	1	110906399	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	33811918	110906399	138344222	4	20295											
CASQ2	845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	116243998	116243998	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagtcctccagctcctcaGcagttggaagatcgtcatca	9	10	8	14	1	3	1	3	0	0	1	8	2	7	2	4	1	2	3	4	1	1	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	116243998	G	C	116243998	3	2	406	1	0	0	0	0	1	0	0	0	2681	971	34	4	139	4	CASQ2	1	116243998	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	5337599	116243998	133006623	5	20296											
NOTCH2	4853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120462002	120462002	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcggcccatgttgtcctggGcattggcatctgcacctgca	6	10	12	13	1	1	0	0	0	1	0	2	0	2	0	3	3	3	5	3	3	0	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	120462002	G	T	120462002	3	4	406	1	0	0	0	0	1	0	0	0	10548	1203	42	4	1717	4	NOTCH2	1	120462002	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	4218004	120462002	128788619	6	20297											
ADAR	103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154574246	154574246	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggccatgtctaaaaactcaAgaggatcttccaaggcagat	14	8	9	10	1	3	2	1	0	2	2	4	3	4	3	2	3	1	1	2	3	5	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	154574246	A	G	154574246	3	3	406	1	0	0	0	0	1	0	0	0	281	72	3	3	2864	3	ADAR	1	154574246	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	34112244	154574246	94676375	7	20298											
SEMA4A	64218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156127886	156127886	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggccagccagtgacagaaAaaagagtgaatgtgccttta	14	8	12	7	0	0	4	0	2	0	2	0	4	0	4	3	1	2	0	3	1	5	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	156127886	A	G	156127886	3	3	406	1	0	0	0	0	1	0	0	0	14033	14	1	3	336	3	SEMA4A	1	156127886	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	1553640	156127886	93122735	8	20299											
ETV3	2117	broad.mit.edu;hgsc.bcm.edu	37	chr1	157105442	157105442	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggatgaagtgccacagctgGatctgccgggagcctgggga	9	6	17	9	1	1	1	0	1	1	0	1	5	1	5	3	5	4	1	3	5	1	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	157105442	G	A	157105442	2	1	406	1	0	0	0	0	0	0	0	1	5279	1164	41	2		2	ETV3	1	157105442	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	977556	157105442	92145179	9	20300											
ATP1A4	480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160151511	160151511	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgtggagttcacatgccAaacggccttttttgtcacca	9	13	9	10	1	2	0	2	0	0	0	2	1	2	1	3	2	2	2	3	2	1	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	160151511	A	T	160151511	3	4	406	1	0	0	0	0	1	0	0	0	1131	130	5	5	2848	5	ATP1A4	1	160151511	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	3046069	160151511	89099110	10	20301											
FAM5B	57795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	177249817	177249817	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccgagtccctggaaaactTtcttgggctggagacagact	9	9	13	10	1	1	2	0	0	1	2	2	5	2	3	2	4	1	1	2	4	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	177249817	T	C	177249817	3	2	406	1	0	0	0	0	1	0	0	0	5593	1841	64	3	1531	3	FAM5B	1	177249817	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	17098306	177249817	72000804	11	20302											
C1orf14	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	182908433	182908433	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatattgctctgatactcAatgagctcgacacgtttgtt	10	16	7	8	2	2	2	1	2	1	0	3	3	2	2	0	0	3	4	0	0	4	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	182908433	A	C	182908433	3	2	406	1	0	0	0	0	1	0	0	0	2000	126	5	5	1031	5	C1orf14	1	182908433	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	5658616	182908433	66342188	12	20303											
GPATCH2	55105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	217665062	217665062	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaatttttcttgtgtcctcTttcagctcgattatctctca	7	19	4	11	1	5	0	2	0	3	0	8	1	6	0	1	0	1	1	1	0	2	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	217665062	T	C	217665062	3	2	406	1	0	0	0	0	1	0	0	0	6591	1617	56	3	361	3	GPATCH2	1	217665062	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	34756629	217665062	31585559	13	20304											
EPHX1	2052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	226027665	226027665	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgctgtaccccgtcaaGgagaaggtattctacagcct	10	9	11	11	1	2	1	1	0	1	1	2	3	2	1	3	2	5	4	3	2	5	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	226027665	G	A	226027665	2	1	406	1	0	0	0	0	0	0	0	1	5179	991	35	2		2	EPHX1	1	226027665	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	8362603	226027665	23222956	14	20305											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu	37	chr1	237586481	237586481	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtctcatggaagacaaaaAccttctactcatggacaaag	16	8	8	9	0	3	1	2	0	2	1	4	4	3	3	1	2	2	0	1	2	5	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	237586481	A	T	237586481	3	4	406	1	0	0	0	0	1	0	0	0	13771	43	2	5	984	5	RYR2	1	237586481	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	11558816	237586481	11664140	15	20306											
AHCTF1	25909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247061603	247061603	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaggaatgagttcattGagtgatggacctgatttctt	10	14	10	7	0	3	4	2	4	1	0	3	6	3	6	2	2	0	1	2	2	1	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	247061603	G	T	247061603	2	4	406	1	0	0	0	0	0	0	0	1	408	1277	45	4		4	AHCTF1	1	247061603	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	9475122	247061603	2189018	16	20307											
EIF2AK2	5610	broad.mit.edu;ucsc.edu	37	chr2	37366825	37366825	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgcaagtttagcggccaaTtgttttgcttcctgtttagt	7	18	9	7	1	0	0	0	0	0	0	1	0	1	0	2	1	3	5	2	1	5	9	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	37366825	G	G	37366825	3	3	406	1	0	0	0	0	1	0	0	0	4997	1490	52	5	1238	5	EIF2AK2	2	37366825	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08		37366825	205832548	17	20308											
ELMOD3	84173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	85598666	85598666	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcccttcatggaaaccactgGgaggacctgggctttcaggg	8	8	14	11	0	2	0	2	0	0	0	2	3	2	3	3	5	1	1	3	5	1	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	85598666	G	T	85598666	3	4	406	1	0	0	0	0	1	0	0	0	5070	1241	43	4	614	4	ELMOD3	2	85598666	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	48231841	85598666	157600707	18	20309											
ARID5A	10865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97217964	97217964	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgccctccgccacagaCtttgcccggcctcatctgcc	6	8	8	19	2	2	1	1	0	1	1	3	1	3	1	6	1	3	0	6	1	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	97217964	C	A	97217964	3	1	406	1	0	0	0	0	1	0	0	0	921	565	20	4	1725	4	ARID5A	2	97217964	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	11619298	97217964	145981409	19	20310											
ST6GAL2	84620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	107460175	107460175	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccccgcatgaaaggaacCggctgggtgggcgcggggca	8	3	19	11	4	0	1	0	1	0	0	0	2	0	2	3	7	1	3	3	7	2	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	107460175	C	T	107460175	3	4	406	1	0	0	0	0	1	0	0	0	15223	652	23	1	1437	1	ST6GAL2	2	107460175	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	10242211	107460175	135739198	20	20311											
PTPN18	26469	hgsc.bcm.edu;ucsc.edu	37	chr2	131128292	131128292	+	Frame_Shift_Del	DEL	C	C	-																															ccccagatgatcccacctgaCttcagtctctttgatgtggt																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	131128292	C	-	131128292	7	5	406	1	0	1	0	1	0	0	0	0	12786	564	20	0	809	0	PTPN18	2	131128292	Frame_Shift_Del	DEL	C	TCGA-CJ-4920-01A-01D-1429-08	23668117	131128292	112071081	21	20312											
FAM123C	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	131521736	131521736	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggccgcatggcctccAaggcaagacatgggcagtgg	8	4	14	15	2	0	1	0	0	0	1	1	1	1	1	5	5	0	3	5	5	2	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	131521736	A	T	131521736	2	4	406	1	0	0	0	0	0	0	0	1	5424	117	5	5		5	FAM123C	2	131521736	Silent	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	393444	131521736	111677637	22	20313											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170103247	170103247	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagttgctcatcactgttaTcatgacaatcatcgactcca	12	13	5	11	1	4	1	4	1	0	0	6	2	5	1	1	0	1	3	1	0	3	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	170103247	T	A	170103247	3	1	406	1	0	0	0	0	1	0	0	0	8956	1435	50	5	11045	5	LRP2	2	170103247	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	38581511	170103247	73096126	23	20314											
ZAK	51776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	174131419	174131419	+	Frame_Shift_Del	DEL	C	C	-																															aaaagccccacaggccatctCccgccaaaaccaataaagag																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	174131419	C	-	174131419	7	5	406	1	0	1	0	1	0	0	0	0	17511	855	30	0	2803	0	ZAK	2	174131419	Frame_Shift_Del	DEL	C	TCGA-CJ-4920-01A-01D-1429-08	4028172	174131419	69067954	24	20315											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179490104	179490104	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagtaagtgtatgaacttttCcttctgaacgtgggaccacc	10	12	10	9	1	1	2	0	2	1	0	2	4	2	3	3	1	2	2	3	1	4	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	179490104	C	T	179490104	3	4	406	1	0	0	0	0	1	0	0	0	16734	855	30	2	63737	2	TTN	2	179490104	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	5358685	179490104	63709269	25	20316											
MARS2	92935	hgsc.bcm.edu	37	chr2	198570416	198570416	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactggtaccgacgagcacgGgctgaagattcagcaggcag	11	5	14	11	3	1	2	1	1	0	1	1	4	1	2	1	3	3	5	1	3	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	198570416	G	C	198570416	3	2	406	1	0	0	0	0	1	0	0	0	9317	1232	43	4	289	4	MARS2	2	198570416	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	19080312	198570416	44628957	26	20317											
CRYGB	1419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	209007637	209007637	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattctgtaagcgccagagtGctggagtggcagacagaaaa	13	7	13	8	1	1	3	0	0	1	3	1	4	1	4	1	2	2	3	1	2	3	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	209007637	G	T	209007637	3	4	406	1	0	0	0	0	1	0	0	0	3915	1333	46	4	278	4	CRYGB	2	209007637	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	10437221	209007637	34191736	27	20318											
HJURP	55355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234754423	234754423	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatccacttgggtcaagtatTtccttcttaattcatttttc	8	20	4	9	0	3	0	2	0	1	0	6	0	5	0	2	1	0	1	2	1	4	9	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	234754423	T	A	234754423	3	1	406	1	0	0	0	0	1	0	0	0	7189	1841	64	5	1816	5	HJURP	2	234754423	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	25746786	234754423	8444950	28	20319											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238280464	238280464	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagtttctgctccaggCtgggcagctcccggaaggtg	6	9	14	12	1	2	0	1	0	1	0	4	1	4	1	2	4	3	6	2	4	1	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	238280464	C	A	238280464	3	1	406	1	0	0	0	0	1	0	0	0	3701	797	28	4	5528	4	COL6A3	2	238280464	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	3526041	238280464	4918909	29	20320											
OGG1	4968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9792055	9792055	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtgggcctccatcccgtgcCctcgctctgagctgcgcctg	2	10	12	17	3	1	1	0	1	1	0	4	1	3	1	5	1	3	2	5	1	0	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	9792055	C	A	9792055	3	1	406	1	0	0	0	0	1	0	0	0	10845	623	22	4	87	4	OGG1	3	9792055	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		9792055	188230375	30	20321											
VHL	7428	broad.mit.edu	37	chr3	10183725	10183725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826	alternate_allele	TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	10183725	T	T	10183725	3	4	406	1	0	0	0	0	1	0	0	0	17161	893	31	1	196	1	VHL	3	10183725	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	391670	10183725	187838705	31	20322											
SCN11A	11280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38962724	38962724	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcacagagcgtagcaaGgcccccacgatgaccttcag	10	8	9	14	2	3	2	2	1	1	1	3	3	3	2	3	1	2	2	3	1	2	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	38962724	G	T	38962724	2	4	406	1	0	0	0	0	0	0	0	1	13915	987	35	4		4	SCN11A	3	38962724	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	28778999	38962724	159059706	32	20323											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52651349	52651353	+	Frame_Shift_Del	DEL	CACCA	CACCA	-																															gtcttctatcattccctcttCaccagcatatttgtcattgc																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	CACCA	CACCA	CACCA	-	CACCA	CACCA	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	52651353	CACCA	-	52651349	7	5	406	1	0	1	0	1	0	0	0	0	11491	835	29	0	3221	0	PBRM1	3	52651349	Frame_Shift_Del	DEL	CACCA	TCGA-CJ-4920-01A-01D-1429-08	13688625	52651349	145371081	33	20324											
FAM19A4	151647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	68788346	68788346	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatttctgaatcacaatGgaagctggaaaacaaaggcc	16	7	8	10	0	2	1	1	1	1	0	2	3	2	3	2	3	2	1	2	3	6	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	68788346	G	C	68788346	2	2	406	1	0	0	0	0	0	0	0	1	5534	1335	47	4		4	FAM19A4	3	68788346	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	16136997	68788346	129234084	34	20325											
DPPA2	151871	hgsc.bcm.edu;ucsc.edu	37	chr3	109031497	109031503	+	Frame_Shift_Del	DEL	AAATCAC	AAATCAC	-																															tttaactggcaccagtgtcaAaatcacactttcctcatcat																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	AAATCAC	AAATCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	109031503	AAATCAC	-	109031497	7	5	406	1	0	1	0	1	0	0	0	0	4734	11	1	0	844	0	DPPA2	3	109031497	Frame_Shift_Del	DEL	AAATCAC	TCGA-CJ-4920-01A-01D-1429-08	40243151	109031497	88990933	35	20326											
POLQ	10721	broad.mit.edu	37	chr3	121263752	121263752	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactgtaggcttgcattcTccttttaggaaaaagaaaaa	15	11	9	6	0	1	1	0	0	1	1	2	3	1	3	1	3	2	3	1	3	7	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	121263752	C	C	121263752	2	2	406	1	0	0	0	0	0	0	0	1	12208	1565	54	3		3	POLQ	3	121263752	Silent	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	12232255	121263752	76758678	36	20327											
UROC1	131669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	126216954	126216954	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcgtctgtgaccgccaggtCctgggggtcccccgatgtgc	3	10	14	14	3	1	1	0	1	1	0	4	2	3	1	5	3	1	0	5	3	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	126216954	C	T	126216954	3	4	406	1	0	0	0	0	1	0	0	0	17027	855	30	2	680	2	UROC1	3	126216954	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	4953202	126216954	71805476	37	20328											
MFN1	55669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	179096586	179096586	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtgctcctaggattatCagagcctatctttcaggtat	10	13	10	8	0	3	1	2	0	1	1	4	2	4	2	2	3	2	2	2	3	5	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	179096586	C	A	179096586	4	1	406	1	0	0	0	0	0	1	0	0	9523	838	29	4	1696	4	MFN1	3	179096586	Nonsense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	52879632	179096586	18925844	38	20329											
MCCC1	56922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182759359	182759359	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttctttcactttaccttgCcgtactccagtttcaatcct	6	19	3	13	1	3	0	2	0	1	0	5	0	5	0	4	0	3	2	4	0	3	8	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	182759359	C	G	182759359	2	3	406	1	0	0	0	0	0	0	0	1	9374	726	26	4		4	MCCC1	3	182759359	Silent	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	3662773	182759359	15263071	39	20330											
EIF4G1	1981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184049812	184049812	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatacctgtgtgacgagcAgaaggagctacaggcgctct	12	7	13	9	2	1	2	0	1	1	1	1	5	1	3	1	2	4	3	1	2	4	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	184049812	A	G	184049812	3	3	406	1	0	0	0	0	1	0	0	0	5036	188	7	3	4674	3	EIF4G1	3	184049812	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	1290453	184049812	13972618	40	20331											
OSTalpha	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	195954575	195954575	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttggtctctggatccctcGttccctggtgctggtggaaa	4	14	12	11	1	1	0	0	0	1	0	5	2	3	2	2	5	1	2	2	5	1	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	195954575	G	A	195954575	3	1	406	1	0	0	0	0	1	0	0	0	11300	1145	40	1	343	1	OSTalpha	3	195954575	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	11904763	195954575	2067855	41	20332											
MFSD7	84179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	677418	677418	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggcaaagggcacgcaggCcagagagaacaggcacaggc	14	0	16	11	1	0	2	0	0	0	2	0	3	0	2	1	5	1	4	1	5	2	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	677418	C	T	677418	3	4	406	1	0	0	0	0	1	0	0	0	9537	739	26	2	722	2	MFSD7	4	677418	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		677418	190476858	42	20333											
ATP10D	57205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47559972	47559972	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgatgcaggcctcctgAatggcaaggcagagtccctc	9	7	13	12	1	0	3	0	2	0	1	3	3	2	3	3	4	1	3	3	4	2	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	47559972	A	T	47559972	3	4	406	1	0	0	0	0	1	0	0	0	1118	246	9	5	2158	5	ATP10D	4	47559972	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	46882554	47559972	143594304	43	20334											
FRYL	285527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48566087	48566087	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagggttcagctccagtaaCaacgtaactgcttcacagcc	11	9	8	13	1	3	0	3	0	0	0	4	0	4	0	2	1	6	5	2	1	3	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	48566087	C	G	48566087	3	3	406	1	0	0	0	0	1	0	0	0	6064	477	17	4	5703	4	FRYL	4	48566087	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	1006115	48566087	142588189	44	20335											
TECRL	253017	broad.mit.edu;hgsc.bcm.edu	37	chr4	65274893	65274893	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaatatttcaatctcaaaGtgagtcgtttttgaatgttt	12	18	6	5	1	3	2	3	2	1	0	5	2	3	2	0	0	0	2	0	0	5	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	65274893	G	A	65274893	2	1	406	1	0	0	0	0	0	0	0	1	15745	1020	36	2		2	TECRL	4	65274893	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	16708806	65274893	125879383	45	20336											
THAP9	79725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83838940	83838940	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatctttaatagtaggaaCtgttatggaaagggacttaa	15	12	10	4	0	1	0	0	0	1	0	1	4	1	3	0	3	1	2	0	3	7	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	83838940	C	G	83838940	3	3	406	1	0	0	0	0	1	0	0	0	15850	564	20	4	1593	4	THAP9	4	83838940	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	18564047	83838940	107315336	46	20337											
ANKRD50	57182	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	125631599	125631599	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacccactccctacagtaaAactgcttcccttgcagtaaa	14	9	4	14	0	0	0	0	0	0	0	2	0	2	0	3	0	5	4	3	0	6	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	125631599	A	C	125631599	3	2	406	1	0	0	0	0	1	0	0	0	677	14	1	5	4233	5	ANKRD50	4	125631599	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	41792659	125631599	65522677	47	20338											
NR3C2	4306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	149356735	149356735	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttgattcttgctttatTggtactgagaatgaagaatc	10	17	10	4	0	1	4	0	3	1	2	2	5	1	4	0	2	2	3	0	2	5	8	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	149356735	T	G	149356735	2	3	406	1	0	0	0	0	0	0	0	1	10631	1799	63	5		5	NR3C2	4	149356735	Silent	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	23725136	149356735	41797541	48	20339											
CDH6	1004	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	31299715	31299715	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactgactgatgtcaacgAcaaccctccccgattccccc	10	7	5	19	2	1	2	1	2	0	0	3	4	3	2	5	0	2	0	5	0	2	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	31299715	A	T	31299715	3	4	406	1	0	0	0	0	1	0	0	0	3114	275	10	5	802	5	CDH6	5	31299715	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08		31299715	149615545	49	20340											
MAP3K1	4214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	56160679	56160679	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcgggccagactgtactTactgcagcagatagggccta	10	8	13	10	1	0	2	0	0	0	2	0	3	0	2	2	2	5	3	2	2	4	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	56160679	T	G	56160679	4	3	406	1	0	0	0	0	0	1	0	0	9243	1764	61	5	967	5	MAP3K1	5	56160679	Nonsense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	24860964	56160679	124754581	50	20341											
CDX1	1044	broad.mit.edu;hgsc.bcm.edu	37	chr5	149563073	149563073	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaccggcgggcaaaggagCgcaaagtgaacaagaagaaa	20	1	13	7	3	0	3	0	1	0	2	0	4	0	4	1	3	3	2	1	3	8	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	149563073	C	G	149563073	3	3	406	1	0	0	0	0	1	0	0	0	3182	768	27	4	638	4	CDX1	5	149563073	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	93402394	149563073	31352187	51	20342											
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu	37	chr5	178771139	178771139	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gggcaccgccaggatgcgctCcgctccgtgccccaggggcc	4	4	15	18	4	0	0	0	0	0	0	2	1	2	1	7	4	2	3	7	4	0	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	178771139	C	G	178771139	3	3	406	1	0	0	0	0	1	0	0	0	265	864	30	4	3631	4	ADAMTS2	5	178771139	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	29208066	178771139	2144121	52	20343											
CANX	821	broad.mit.edu;hgsc.bcm.edu	37	chr5	179149818	179149818	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctagggaatctggaaacCcaggaaaataccaaatccag	16	8	8	9	0	2	0	0	0	2	0	3	3	3	3	3	3	2	0	3	3	7	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	179149818	C	A	179149818	3	1	406	1	0	0	0	0	1	0	0	0	2618	623	22	4	1234	4	CANX	5	179149818	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	378679	179149818	1765442	53	20344											
HIVEP1	3096	hgsc.bcm.edu;ucsc.edu	37	chr6	12161803	12161803	+	Frame_Shift_Del	DEL	C	C	-																															aatcagtcctgtcagccacaCcctcagtcacagctagcccg																								rs34103769		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	12161803	C	-	12161803	7	5	406	1	0	1	0	1	0	0	0	0	7186	507	18	0	6645	0	HIVEP1	6	12161803	Frame_Shift_Del	DEL	C	TCGA-CJ-4920-01A-01D-1429-08		12161803	158953264	54	20345											
BAT1	0	broad.mit.edu;hgsc.bcm.edu	37	chr6	31507024	31507024	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggacatccattcccagaAtggcctgagggatgcactca	12	7	10	12	0	1	2	1	1	0	1	3	4	3	4	3	3	1	1	3	3	1	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	31507024	A	G	31507024	3	3	406	1	0	0	0	0	1	0	0	0	1318	101	4	3	1083	3	BAT1	6	31507024	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	19345221	31507024	139608043	55	20346											
PTK7	5754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43107181	43107181	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccccagccacagcaGtgcatggagtttgacaagga	12	5	10	14	0	0	1	0	1	0	0	0	3	0	3	5	2	3	3	5	2	1	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	43107181	G	T	43107181	3	4	406	1	0	0	0	0	1	0	0	0	12767	1020	36	4	1574	4	PTK7	6	43107181	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	11600157	43107181	128007886	56	20347											
ENPP3	5169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	131995388	131995388	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcactttcttcaaaggaAcaaaataatccagcctggtg	13	13	6	9	0	3	0	2	0	1	0	4	1	4	1	2	2	2	0	2	2	5	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	131995388	A	G	131995388	2	3	406	1	0	0	0	0	0	0	0	1	5131	40	2	3		3	ENPP3	6	131995388	Silent	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	88888207	131995388	39119679	57	20348											
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121650685	121650685	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgactgaactgccacctCacactgtggaaggtacttca	10	10	9	12	0	2	2	2	2	0	0	2	3	2	3	2	2	3	1	2	2	3	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	121650685	C	G	121650685	3	3	406	1	0	0	0	0	1	0	0	0	12816	826	29	4	1631	4	PTPRZ1	7	121650685	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		121650685	37487978	58	20349											
NCAPG2	54892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	158447311	158447311	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcatgattccaagactccGctgtaagagttgcatctgaa	11	12	9	9	1	1	4	0	2	1	2	3	4	3	4	2	0	2	5	2	0	3	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	158447311	G	T	158447311	2	4	406	1	0	0	0	0	0	0	0	1	10208	1086	38	4		4	NCAPG2	7	158447311	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	36796626	158447311	691352	59	20350											
MSR1	4481	broad.mit.edu	37	chr8	16026114	16026114	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctggactgaggaaaacaaGgtacttagctgcagaagaat	15	7	11	8	0	0	3	0	1	0	2	0	5	0	5	1	3	4	3	1	3	7	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	16026114	T	T	16026114	2	4	406	1	0	0	0	0	0	0	0	1	9886	987	35	4		4	MSR1	8	16026114	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08		16026114	130337908	60	20351											
ARFGEF1	10565	hgsc.bcm.edu;ucsc.edu	37	chr8	68137214	68137214	+	Frame_Shift_Del	DEL	A	A	-																															tgggaaccatcctctcacccAcaccctgtcttcaggtgcta																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	68137214	A	-	68137214	7	5	406	1	0	1	0	1	0	0	0	0	852	159	6	0	1461	0	ARFGEF1	8	68137214	Frame_Shift_Del	DEL	A	TCGA-CJ-4920-01A-01D-1429-08	52111100	68137214	78226808	61	20352											
SULF1	23213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	70514054	70514054	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcgtggtccaagtgtagaaCcaggatcaatgtacgtattt	11	13	10	7	2	1	1	1	0	0	1	3	2	2	2	2	2	2	3	2	2	6	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	70514054	C	G	70514054	3	3	406	1	0	0	0	0	1	0	0	0	15371	507	18	4	1073	4	SULF1	8	70514054	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	2376840	70514054	75849968	62	20353											
INTS8	55656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95861709	95861709	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtatgttcaagatcagtaaAtttagaaaaagcttcagagt	16	12	9	4	0	3	3	3	0	0	3	3	3	3	3	0	1	1	4	0	1	7	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	95861709	A	C	95861709	3	2	406	1	0	0	0	0	1	0	0	0	7784	101	4	5	1322	5	INTS8	8	95861709	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	25347655	95861709	50502313	63	20354											
EFR3A	23167	broad.mit.edu;hgsc.bcm.edu	37	chr8	132956999	132956999	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttattgtttttaggatggccTtgtgaaaactgatatggaga	11	16	11	3	0	0	3	0	2	0	1	0	5	0	4	1	3	1	1	1	3	5	7	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	132956999	T	G	132956999	3	3	406	1	0	0	0	0	1	0	0	0	4958	1609	56	5	105	5	EFR3A	8	132956999	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	37095290	132956999	13407023	64	20355											
ALDH1B1	219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	38395753	38395753	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagtgtcagcatgctgcGcttcctggcaccccggctgc	5	8	12	16	2	1	1	1	0	0	1	2	1	2	1	4	2	4	5	4	2	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	38395753	G	T	38395753	3	4	406	1	0	0	0	0	1	0	0	0	493	1087	38	4	10	4	ALDH1B1	9	38395753	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08		38395753	102817678	65	20356											
TRPM6	140803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	77435329	77435329	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgatctcctctttcaccTgaggtcgcagcatcctggaa	9	11	9	12	1	3	3	1	2	2	1	6	4	4	4	3	2	1	2	3	2	1	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	77435329	T	G	77435329	3	3	406	1	0	0	0	0	1	0	0	0	16589	1580	55	5	5167	5	TRPM6	9	77435329	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	39039576	77435329	63778102	66	20357											
KIF27	55582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86518027	86518027	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaactgtaacatgctgtggtCcttcttccagacttgcagtg	8	13	10	10	0	1	1	0	0	1	1	3	2	3	1	2	1	4	3	2	1	2	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	86518027	C	A	86518027	3	1	406	1	0	0	0	0	1	0	0	0	8296	855	30	4	2859	4	KIF27	9	86518027	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	9082698	86518027	54695404	67	20358											
C9orf5	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	111855820	111855820	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgatagagatggccaagTttgccagagtagaagctgcc	11	9	13	8	0	0	4	0	1	0	3	0	5	0	4	3	1	3	3	3	1	4	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	111855820	T	G	111855820	3	3	406	1	0	0	0	0	1	0	0	0	2486	1725	60	5	1848	5	C9orf5	9	111855820	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	25337793	111855820	29357611	68	20359											
EPB41L4B	54566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	111979310	111979310	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgctgatgctgatgctGgtgctggtggtgatgccttc	3	14	16	8	0	0	3	0	3	0	0	1	3	0	3	1	4	5	4	1	4	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	111979310	G	C	111979310	3	2	406	1	0	0	0	0	1	0	0	0	5156	1357	47	4	1221	4	EPB41L4B	9	111979310	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	123490	111979310	29234121	69	20360											
PTPN3	5774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	112172526	112172526	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccttgtcacagtagtactGgctggcgtcctcggtggagc	6	10	13	12	2	1	0	1	0	0	0	3	1	2	1	2	4	2	3	2	4	2	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	112172526	G	A	112172526	4	1	406	1	0	0	0	0	0	1	0	0	12791	1357	47	2	1306	2	PTPN3	9	112172526	Nonsense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	193216	112172526	29040905	70	20361											
PAPPA	5069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	118982390	118982390	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggttcccacctatagAtggccatttctttgaaaggt	9	13	11	8	0	1	2	0	1	1	1	2	3	2	3	3	4	0	1	3	4	3	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	118982390	A	T	118982390	3	4	406	1	0	0	0	0	1	0	0	0	11432	333	12	5	2111	5	PAPPA	9	118982390	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	6809864	118982390	22231041	71	20362											
ZER1	10444	broad.mit.edu	37	chr9	131514950	131514950	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatggaggctggggccccAcctggtctgccccgcttcct	3	8	13	17	1	1	0	0	0	1	0	2	1	2	1	7	5	1	2	7	5	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	131514950	C	C	131514950	5	2	406	1	0	0	0	0	0	0	1	0	17624	173	6	5	1423	5	ZER1	9	131514950	Splice_Site	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	12532560	131514950	9698481	72	20363											
PRDM12	59335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133542139	133542139	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcaccggccgcgtgatcgCcccggagcacgtggacatct	6	7	12	16	6	2	1	1	1	1	0	3	3	2	3	4	3	1	1	4	3	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	133542139	C	T	133542139	3	4	406	1	0	0	0	0	1	0	0	0	12455	739	26	2	374	2	PRDM12	9	133542139	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	2027189	133542139	7671292	73	20364											
ABL1	25	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	133750263	133750263	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctttcttagagatcttgCtgcccgaaactgcctggtag	7	14	9	11	1	2	1	0	0	2	1	3	3	3	1	3	1	4	2	3	1	3	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	133750263	C	T	133750263	3	4	406	1	0	0	0	0	1	0	0	0	92	797	28	2	1260	2	ABL1	9	133750263	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	208124	133750263	7463168	74	20365											
YME1L1	10730	broad.mit.edu	37	chr10	27437893	27437893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgctggttttgagaaactGacactccactgagagaaaca	14	9	10	8	0	0	4	0	3	0	2	1	7	1	4	1	1	3	2	1	1	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	27437893	A	A	27437893	3	1	406	1	0	0	0	0	1	0	0	0	17486	1294	45	2	2287	2	YME1L1	10	27437893	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08		27437893	108096854	75	20366											
KIAA0913	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75556685	75556685	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccctgcaaccactgaccTcaggctctgcagggcctgct	6	7	12	16	0	2	1	1	1	1	0	2	1	2	1	4	3	4	4	4	3	1	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	75556685	T	C	75556685	3	2	406	1	0	0	0	0	1	0	0	0	8200	1551	54	3	3249	3	KIAA0913	10	75556685	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	48118792	75556685	59978062	76	20367											
FAM190B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	86130950	86130950	+	Frame_Shift_Del	DEL	A	A	-																															cttccaagaatagtaatgtcAaaagttacatcaaaaataat																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	86130950	A	-	86130950	7	5	406	1	0	1	0	1	0	0	0	0	5522	131	5	0	144	0	FAM190B	10	86130950	Frame_Shift_Del	DEL	A	TCGA-CJ-4920-01A-01D-1429-08	10574265	86130950	49403797	77	20368											
CYP2C19	1557	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96580386	96580386	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctgctgaagcacccagAggtcacaggtatgatcacag	11	8	10	12	0	3	3	2	2	1	1	4	3	3	3	2	2	2	3	2	2	2	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	96580386	A	C	96580386	3	2	406	1	0	0	0	0	1	0	0	0	4166	304	11	5	975	5	CYP2C19	10	96580386	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	10449436	96580386	38954361	78	20369											
FAM178A	55719	hgsc.bcm.edu;ucsc.edu	37	chr10	102676845	102676845	+	Frame_Shift_Del	DEL	A	A	-																															aagaaagcccactgggagctAaattccagttgtcactagct																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	102676845	A	-	102676845	7	5	406	1	0	1	0	1	0	0	0	0	5503	363	13	0	713	0	FAM178A	10	102676845	Frame_Shift_Del	DEL	A	TCGA-CJ-4920-01A-01D-1429-08	6096459	102676845	32857902	79	20370	270	2									
FAM178A	55719	hgsc.bcm.edu	37	chr10	102676847	102676847	+	Missense_Mutation	SNP	A	A	T																															gaaagcccactgggagctaaAttccagttgtcactagcttc																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	102676847	A	T	102676847	3	4	406	1	0	0	0	0	1	0	0	0	5503	98	4	5	715	5	FAM178A	10	102676847	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	2	102676847	32857900	80	20371	270	2									
KRTAP5-4	387267	broad.mit.edu	37	chr11	1643006	1643006	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacagccccccttggaGcccccacaggagccacagcc	9	2	10	20	0	0	0	0	0	0	0	0	3	0	2	8	2	5	0	8	2	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	1643006	C	C	1643006	2	2	406	1	0	0	0	0	0	0	0	1	8563	958	34	4		4	KRTAP5-4	11	1643006	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08		1643006	133363510	81	20372											
OR52L1	338751	broad.mit.edu;hgsc.bcm.edu	37	chr11	6007950	6007950	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catagattggtgcaaggatgGgtccatccagatgatgaaga	13	9	13	6	0	0	5	0	2	0	3	2	6	2	6	2	3	1	1	2	3	3	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	6007950	G	A	6007950	3	1	406	1	0	0	0	0	1	0	0	0	11125	1232	43	2	782	2	OR52L1	11	6007950	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	4364944	6007950	128998566	82	20373											
QSER1	79832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32955024	32955024	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agatattctcagagtgtaatCagaagtaattcccgtcttga	13	13	8	7	1	3	4	2	1	2	3	5	4	4	4	1	0	0	2	1	0	4	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	32955024	C	T	32955024	2	4	406	1	0	0	0	0	0	0	0	1	12884	816	29	2		2	QSER1	11	32955024	Silent	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	26947074	32955024	102051492	83	20374											
C11orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	33565649	33565649	+	Frame_Shift_Del	DEL	C	C	-																															agcacatcctcttttgctaaCctcaccaggaccaacttcta																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	33565649	C	-	33565649	7	5	406	1	0	1	0	1	0	0	0	0	1640	507	18	0	1651	0	C11orf41	11	33565649	Frame_Shift_Del	DEL	C	TCGA-CJ-4920-01A-01D-1429-08	610625	33565649	101440867	84	20375											
DYNC2H1	79659	broad.mit.edu	37	chr11	103093809	103093809	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaactgaacaggcaggatTagaatcgtaagtgaaatata	18	8	11	4	1	0	3	0	2	0	1	1	5	0	5	0	3	2	2	0	3	8	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	103093809	G	G	103093809	4	3	406	1	0	0	0	0	0	1	0	0	4846	1764	61	5	9581	5	DYNC2H1	11	103093809	Nonsense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	69528160	103093809	31912707	85	20376											
TTC12	54970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	113230094	113230094	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcccaaggccaggtgtGaggaggatgtggacctgttc	7	11	15	8	0	0	1	0	1	0	0	2	4	1	4	3	5	0	2	3	5	1	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	113230094	G	T	113230094	4	4	406	1	0	0	0	0	0	1	0	0	16678	1291	45	4	1518	4	TTC12	11	113230094	Nonsense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	10136285	113230094	21776422	86	20377											
ANKK1	255239	broad.mit.edu;hgsc.bcm.edu	37	chr11	113270032	113270032	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacggcactgcgcgcctgctCctggaccacggggcctgtgt	4	7	15	15	4	0	0	0	0	0	0	1	2	1	1	4	4	2	2	4	4	0	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	113270032	C	T	113270032	2	4	406	1	0	0	0	0	0	0	0	1	631	842	30	2		2	ANKK1	11	113270032	Silent	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	39938	113270032	21736484	87	20378											
WNK1	65125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	862733	862733	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagcgaaccgaccaTgtctggcggcgccgcagaga	8	6	12	15	5	2	1	0	0	2	1	4	4	3	1	4	2	2	1	4	2	1	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	862733	T	A	862733	3	1	406	1	0	0	0	0	1	0	0	0	17376	1464	51	5	4	5	WNK1	12	862733	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08		862733	132989162	88	20379											
APOBEC1	339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7802168	7802168	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaagccacagaaggatgtAtcagccctgtagctaaaagg	14	7	10	10	0	1	1	1	0	0	1	2	2	2	2	3	2	3	3	3	2	6	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	7802168	A	G	7802168	3	3	406	1	0	0	0	0	1	0	0	0	787	449	16	3	28	3	APOBEC1	12	7802168	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	6939435	7802168	126049727	89	20380											
A2M	2	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9225307	9225307	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtattccccaggcagctctGgcaatgagacctgctgcagt	8	10	11	12	0	1	1	0	1	1	1	2	2	2	1	3	2	3	6	3	2	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	9225307	G	T	9225307	3	4	406	1	0	0	0	0	1	0	0	0	4	1348	47	4	535	4	A2M	12	9225307	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	1423139	9225307	124626588	90	20381											
NACA	4666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57114669	57114669	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccatgggagtcacacaGtggtaaggaacagtactgac	13	6	14	8	0	1	1	1	1	0	0	1	4	1	3	1	4	2	2	1	4	3	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	57114669	G	C	57114669	3	2	406	1	0	0	0	0	1	0	0	0	10133	1020	36	4	5619	4	NACA	12	57114669	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	47889362	57114669	76737226	91	20382											
SART3	9733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108929135	108929136	+	Frame_Shift_Ins	INS	-	-	T																															ccaccccgagatcagttaccINStttccaggttgtaatactct																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	108929136	-	T	108929135	7	5	406	1	0	1	1	0	0	0	0	0	13849	695	24	0	1367	0	SART3	12	108929135	Frame_Shift_Ins	INS	-	TCGA-CJ-4920-01A-01D-1429-08	51814466	108929135	24922760	92	20383											
COQ5	84274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120954469	120954469	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agacccgcccaaggaatcttCttcattctggtactctttgg	8	13	8	12	1	5	1	1	0	4	1	5	2	5	2	2	3	1	1	2	3	3	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	120954469	C	T	120954469	3	4	406	1	0	0	0	0	1	0	0	0	3748	922	32	2	528	2	COQ5	12	120954469	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	12025334	120954469	12897426	93	20384											
GPR133	283383	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	131616270	131616270	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccatggtttcttgtgcagGtcaacattggcatcctcatc	7	14	8	12	0	3	0	2	0	1	0	6	0	5	0	2	3	2	3	2	3	1	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	131616270	G	T	131616270	3	4	406	1	0	0	0	0	1	0	0	0	6643	1275	44	4	2258	4	GPR133	12	131616270	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	10661801	131616270	2235625	94	20385											
HSPH1	10808	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	31729705	31729705	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcgtaactcaagttttcCttctccttttgaatgaaggg	11	15	7	8	1	2	2	1	2	1	0	5	2	3	2	2	1	1	2	2	1	5	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	31729705	C	G	31729705	3	3	406	1	0	0	0	0	1	0	0	0	7431	680	24	4	2388	4	HSPH1	13	31729705	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		31729705	83440173	95	20386											
N4BP2L2	10443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	33110320	33110320	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgatagttcaaactgggaAgagggggaccatagggcact	14	7	14	6	0	1	2	1	1	0	1	1	4	1	4	1	4	1	2	1	4	5	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	33110320	A	G	33110320	3	3	406	1	0	0	0	0	1	0	0	0	10112	72	3	3	2787	3	N4BP2L2	13	33110320	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	1380615	33110320	82059558	96	20387											
NALCN	259232	hgsc.bcm.edu;ucsc.edu	37	chr13	101797201	101797201	+	Frame_Shift_Del	DEL	A	A	-																															tttcaaagattcgcaggcgtAaagggagcttttctttggtg																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	101797201	A	-	101797201	7	5	406	1	0	1	0	1	0	0	0	0	10148	372	13	0	3446	0	NALCN	13	101797201	Frame_Shift_Del	DEL	A	TCGA-CJ-4920-01A-01D-1429-08	68686881	101797201	13372677	97	20388											
SNW1	22938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	78184796	78184796	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctataaatactctgggccatAtctttaccacctctccaggc	10	12	5	14	0	3	0	0	0	3	0	4	0	3	0	4	2	2	0	4	2	6	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	78184796	A	G	78184796	2	3	406	1	0	0	0	0	0	0	0	1	14881	446	16	3		3	SNW1	14	78184796	Silent	SNP	A	TCGA-CJ-4920-01A-01D-1429-08		78184796	29164744	98	20389											
EML5	161436	broad.mit.edu;hgsc.bcm.edu	37	chr14	89202708	89202708	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtttataatttgcttacCtgaccgaacgatcatcactt	11	16	5	9	2	2	1	2	1	0	0	2	3	2	1	2	0	3	2	2	0	5	7	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	89202708	C	G	89202708	3	3	406	1	0	0	0	0	1	0	0	0	5100	695	24	4	5032	4	EML5	14	89202708	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	11017912	89202708	18146832	99	20390											
KIAA1409	0	broad.mit.edu;hgsc.bcm.edu	37	chr14	94129061	94129061	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttaccgagctttcactaagGtaagcaagcttccatatgtg	11	12	9	9	1	1	0	1	0	0	0	2	1	2	0	2	1	4	5	2	1	5	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	94129061	G	A	94129061	5	1	406	1	0	0	0	0	0	0	1	0	8230	1275	44	2	6373	2	KIAA1409	14	94129061	Splice_Site	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	4926353	94129061	13220479	100	20391											
BCL11B	64919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	99640573	99640573	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgtgtttctccagggtgCtgtagacgctgaagggcatc	7	12	13	9	1	2	2	1	1	1	1	4	2	2	2	1	2	1	5	1	2	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	99640573	C	T	99640573	3	4	406	1	0	0	0	0	1	0	0	0	1364	797	28	2	88	2	BCL11B	14	99640573	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	5511512	99640573	7708967	101	20392											
HSP90AA1	3320	broad.mit.edu;hgsc.bcm.edu	37	chr14	102552583	102552583	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atttgaaatgagctctctcaGaaagatctctttgttcgagt	11	15	8	7	1	3	4	1	2	2	2	6	5	3	4	0	0	1	2	0	0	2	3	rs11547522	alternate_allele	TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	102552583	G	C	102552583	3	2	406	1	0	0	0	0	1	0	0	0	7401	933	33	4	2105	4	HSP90AA1	14	102552583	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	2912010	102552583	4796957	102	20393											
MKRN3	7681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	23811293	23811293	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctattcgcacgaccttTctggtcggaagatggccact	7	11	11	12	4	1	1	0	0	1	1	4	3	1	2	2	3	0	2	2	3	2	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	23811293	T	A	23811293	3	1	406	1	0	0	0	0	1	0	0	0	9608	1783	62	5	366	5	MKRN3	15	23811293	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08		23811293	78720099	103	20394											
RAD51	5888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41022091	41022091	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactaatcaggtggtagctcAagtggatggagcagcgatgt	11	9	14	7	1	2	0	2	0	0	0	2	3	2	2	0	4	3	3	0	4	3	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	41022091	A	T	41022091	3	4	406	1	0	0	0	0	1	0	0	0	12987	130	5	5	970	5	RAD51	15	41022091	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	17210798	41022091	61509301	104	20395											
CYP19A1	1588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	51514629	51514629	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaacacgtccacatagcccGattcattggtcacctcctcc	9	10	5	17	2	3	0	3	0	0	0	6	1	6	0	5	1	2	0	5	1	2	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	51514629	G	A	51514629	3	1	406	1	0	0	0	0	1	0	0	0	4148	1059	37	1	990	1	CYP19A1	15	51514629	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	10492538	51514629	51016763	105	20396											
WDR72	256764	hgsc.bcm.edu;ucsc.edu	37	chr15	53907894	53907895	+	Frame_Shift_Ins	INS	-	-	TTCAT																															aacatcagtgagaaattatcINSttcattcaaagaaattccca																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		TTCAT	53907895	-	TTCAT	53907894	7	5	406	1	0	1	1	0	0	0	0	0	17321	913	32	0	823	0	WDR72	15	53907894	Frame_Shift_Ins	INS	-	TCGA-CJ-4920-01A-01D-1429-08	2393265	53907894	48623498	106	20397											
PRTG	283659	hgsc.bcm.edu;ucsc.edu	37	chr15	55971529	55971529	+	Frame_Shift_Del	DEL	T	T	-																															tcgaatgtatcttccttccaTttttcaaccatgacatcttg																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	55971529	T	-	55971529	7	5	406	1	0	1	0	1	0	0	0	0	12640	1493	52	0	2420	0	PRTG	15	55971529	Frame_Shift_Del	DEL	T	TCGA-CJ-4920-01A-01D-1429-08	2063635	55971529	46559863	107	20398											
CSPG4	1464	hgsc.bcm.edu	37	chr15	75982360	75982360	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatgcagcccagcagggagGcattggtggcctctggtgtc	6	8	15	12	0	1	0	0	0	1	0	2	1	1	1	3	5	3	3	3	5	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	75982360	G	A	75982360	3	1	406	1	0	0	0	0	1	0	0	0	3960	1203	42	2	5954	2	CSPG4	15	75982360	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	20010831	75982360	26549032	108	20399											
C15orf40	123207	hgsc.bcm.edu	37	chr15	83677271	83677271	+	Frame_Shift_Del	DEL	A	A	-																															acagagcaagattttgtctcAaaaaaaaaaaaaagagagcg																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	83677271	A	-	83677271	7	5	406	1	0	1	0	1	0	0	0	0	1794	131	5	0	546	0	C15orf40	15	83677271	Frame_Shift_Del	DEL	A	TCGA-CJ-4920-01A-01D-1429-08	7694911	83677271	18854121	109	20400											
PDIA2	64714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	336870	336870	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaccagggacctggagacTttctccaagttcctggacaa	11	8	10	12	0	1	1	0	0	1	1	3	4	2	3	4	3	1	2	4	3	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	336870	T	A	336870	2	1	406	1	0	0	0	0	0	0	0	1	11668	1596	56	5		5	PDIA2	16	336870	Silent	SNP	T	TCGA-CJ-4920-01A-01D-1429-08		336870	90017883	110	20401											
AXIN1	8312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	396564	396564	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtctgccgggacacgatGccattgttatcaagaatgta	10	12	11	8	2	2	1	1	0	1	1	2	3	2	2	2	2	2	2	2	2	4	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	396564	G	A	396564	2	1	406	1	0	0	0	0	0	0	0	1	1236	1306	46	2		2	AXIN1	16	396564	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	59694	396564	89958189	111	20402											
GSPT1	2935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	11971401	11971401	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctacggtatcagtctctaCatcatcggaaagtattccaa	12	11	8	10	2	3	0	2	0	1	0	6	1	4	1	1	3	2	3	1	3	6	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	11971401	C	T	11971401	3	4	406	1	0	0	0	0	1	0	0	0	6826	478	17	2	464	2	GSPT1	16	11971401	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	11574837	11971401	78383352	112	20403											
BCKDK	10295	hgsc.bcm.edu;ucsc.edu	37	chr16	31123280	31123280	+	Frame_Shift_Del	DEL	C	C	-																															gctgaggccagcacacaggaCccccggatcagccccctctt																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	31123280	C	-	31123280	7	5	406	1	0	1	0	1	0	0	0	0	1361	506	18	0	1064	0	BCKDK	16	31123280	Frame_Shift_Del	DEL	C	TCGA-CJ-4920-01A-01D-1429-08	19151879	31123280	59231473	113	20404											
OGFOD1	55239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	56485531	56485531	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccttgggaagagatgaatGggaagcggccagcggagccc	10	5	17	9	2	0	2	0	1	0	1	0	6	0	5	3	4	4	0	3	4	3	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	56485531	G	C	56485531	3	2	406	1	0	0	0	0	1	0	0	0	10841	1348	47	4	9	4	OGFOD1	16	56485531	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	25362251	56485531	33869222	114	20405											
DUS2L	54920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68071947	68071947	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgattttgaatagcctctcTctgtgttaccataataagct	11	16	6	8	0	2	2	0	2	2	0	3	2	2	2	2	0	3	2	2	0	5	6	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	68071947	T	A	68071947	2	1	406	1	0	0	0	0	0	0	0	1	4806	1538	54	5		5	DUS2L	16	68071947	Silent	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	11586416	68071947	22282806	115	20406											
RPH3AL	9501	broad.mit.edu;hgsc.bcm.edu	37	chr17	169255	169255	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacgagctgcccaggaagcCcagcacctccccgcagagca	10	2	11	18	3	0	1	0	0	0	1	1	4	1	2	5	1	5	4	5	1	1	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	169255	C	T	169255	3	4	406	1	0	0	0	0	1	0	0	0	13554	623	22	2	664	2	RPH3AL	17	169255	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		169255	81025955	116	20407											
CAMTA2	23125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4872277	4872277	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttggtgagaaaggagcctCtggtgaaagaaacaaaagat	16	8	12	5	0	2	4	0	2	2	3	2	6	2	5	1	3	2	0	1	3	5	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	4872277	C	T	4872277	5	4	406	1	0	0	0	0	0	0	1	0	2614	927	32	2	196	2	CAMTA2	17	4872277	Splice_Site	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	4703022	4872277	76322933	117	20408											
PMP22	5376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15142905	15142905	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatcgacaggatcatggTggcctggacagactgcagcc	10	7	14	10	1	1	2	1	1	0	1	2	6	1	4	2	4	2	1	2	4	0	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	15142905	T	C	15142905	3	2	406	1	0	0	0	0	1	0	0	0	12139	1696	59	3	288	3	PMP22	17	15142905	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	10270628	15142905	66052305	118	20409											
TANC2	26115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61498351	61498351	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caattgggggaatcgtagggGatggaaggccggtgcagcat	10	7	18	6	2	0	0	0	0	0	0	1	3	0	3	1	7	2	3	1	7	4	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	61498351	G	A	61498351	3	1	406	1	0	0	0	0	1	0	0	0	15544	1174	41	2	5106	2	TANC2	17	61498351	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	46355446	61498351	19696859	119	20410											
FTSJ3	117246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61898808	61898808	+	Frame_Shift_Del	DEL	A	A	-																															ggcagcttctgtccccgaagAagcctctgttcccttagggg																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	61898808	A	-	61898808	7	5	406	1	0	1	0	1	0	0	0	0	6089	246	9	0	775	0	FTSJ3	17	61898808	Frame_Shift_Del	DEL	A	TCGA-CJ-4920-01A-01D-1429-08	400457	61898808	19296402	120	20411											
GNA13	10672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	63010386	63010386	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgtacatcactgtagcaTaagctgcttgaggttgtcat	9	16	9	7	0	2	1	2	1	0	0	2	1	2	1	0	1	4	6	0	1	3	7	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	63010386	T	G	63010386	3	3	406	1	0	0	0	0	1	0	0	0	6501	1406	49	5	14	5	GNA13	17	63010386	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	1111578	63010386	18184824	121	20412											
RECQL5	9400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73657711	73657711	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaagccttggcgttcacAcccctgcagctgagctctat	7	11	10	13	1	2	1	1	1	1	0	2	1	2	1	3	2	4	5	3	2	2	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	73657711	A	T	73657711	2	4	406	1	0	0	0	0	0	0	0	1	13205	146	6	5		5	RECQL5	17	73657711	Silent	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	10647325	73657711	7537499	122	20413											
AZI1	22994	broad.mit.edu	37	chr17	79169644	79169644	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagcctcaccagctcgtgCtgcgcctgtgcctgggccac	6	7	11	17	2	1	0	1	0	0	0	2	0	1	0	5	1	5	2	5	1	1	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	79169644	A	A	79169644	3	1	406	1	0	0	0	0	1	0	0	0	1240	796	28	4	1279	4	AZI1	17	79169644	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	5511933	79169644	2025566	123	20414											
EMILIN2	84034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	2890714	2890714	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcttcgactcacaaggAcggttcttgacctccagtct	8	12	9	12	2	4	1	1	1	3	0	6	3	5	2	2	3	0	2	2	3	1	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	2890714	A	G	2890714	3	3	406	1	0	0	0	0	1	0	0	0	5094	275	10	3	603	3	EMILIN2	18	2890714	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08		2890714	75186534	124	20415											
MYO9B	4650	hgsc.bcm.edu	37	chr19	17311226	17311226	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagccaccaccatgaagaagGgcctggaaggttggtagcct	12	6	13	10	0	0	2	0	1	0	1	0	3	0	3	5	4	2	2	5	4	5	2	rs117099942	byfrequency;by1000genomes	TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	17311226	G	A	17311226	3	1	406	1	0	0	0	0	1	0	0	0	10085	1232	43	2	4457	2	MYO9B	19	17311226	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08		17311226	41817757	125	20416											
ATP13A1	57130	broad.mit.edu;hgsc.bcm.edu	37	chr19	19767887	19767887	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcgaggcctcgaacgcCaccagcatggatagcgtaaa	13	4	11	13	4	0	0	0	0	0	0	1	3	0	1	4	2	4	2	4	2	4	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	19767887	C	A	19767887	2	1	406	1	0	0	0	0	0	0	0	1	1123	581	21	4		4	ATP13A1	19	19767887	Silent	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	2456661	19767887	39361096	126	20417											
CEBPG	1054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	33870405	33870405	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgaaaagcaagcagaaagCacaagacacactgcagagag	19	3	11	8	0	0	4	0	1	0	3	0	5	0	4	0	0	4	5	0	0	5	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	33870405	C	T	33870405	3	4	406	1	0	0	0	0	1	0	0	0	3203	710	25	2	262	2	CEBPG	19	33870405	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	14102518	33870405	25258578	127	20418											
GRAMD1A	57655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	35501012	35501012	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagattactcctgcgccctGcagcgtgagatcctgctcca	7	10	9	15	2	1	2	1	1	0	2	4	3	4	2	4	0	5	2	4	0	1	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	35501012	G	T	35501012	2	4	406	1	0	0	0	0	0	0	0	1	6747	1306	46	4		4	GRAMD1A	19	35501012	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	1630607	35501012	23627971	128	20419											
NPHS1	4868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36340513	36340513	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgctgggctagacgcctcAcagaccagcaactgcctatt	10	8	10	13	1	1	2	1	0	0	2	1	2	1	2	3	1	4	3	3	1	3	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	36340513	A	C	36340513	3	2	406	1	0	0	0	0	1	0	0	0	10582	157	6	5	3170	5	NPHS1	19	36340513	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	839501	36340513	22788470	129	20420											
SULT2A1	6822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	48385434	48385434	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaaaataaccagacaccaAaacatctctgggatttctca	18	8	5	10	0	2	1	1	0	2	1	4	3	2	2	2	1	2	0	2	1	6	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	48385434	A	G	48385434	2	3	406	1	0	0	0	0	0	0	0	1	15380	11	1	3		3	SULT2A1	19	48385434	Silent	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	12044921	48385434	10743549	130	20421											
MYH14	79784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50753042	50753042	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccttcctcgactttggcCtcgacctgcagccctgcatc	5	10	9	17	2	0	0	0	0	0	0	4	3	1	1	5	2	3	2	5	2	0	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	50753042	C	G	50753042	3	3	406	1	0	0	0	0	1	0	0	0	10033	681	24	4	1668	4	MYH14	19	50753042	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	2367608	50753042	8375941	131	20422											
NLRP4	147945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56369055	56369055	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaggatacacaaagacctAtcaagctcacgcaaagcaga	17	5	7	12	1	3	2	3	0	0	2	3	3	3	3	1	1	3	3	1	1	5	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	56369055	A	G	56369055	3	3	406	1	0	0	0	0	1	0	0	0	10479	449	16	3	302	3	NLRP4	19	56369055	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	5616013	56369055	2759928	132	20423											
RIMS4	140730	broad.mit.edu;hgsc.bcm.edu	37	chr20	43386410	43386410	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcagaccgatctccacatCccctggaagaggcaccaaga	12	5	9	15	1	1	3	0	0	1	3	3	5	2	4	5	2	1	2	5	2	2	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	43386410	C	T	43386410	3	4	406	1	0	0	0	0	1	0	0	0	13372	855	30	2	469	2	RIMS4	20	43386410	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		43386410	19639110	133	20424											
TMPRSS15	5651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	19698767	19698767	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctggaatccccaagtgatAgccagtagtaaagtttgctt	12	11	9	9	0	0	1	0	1	0	0	1	2	1	2	4	1	2	4	4	1	6	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	19698767	A	T	19698767	3	4	406	1	0	0	0	0	1	0	0	0	16245	420	15	5	1196	5	TMPRSS15	21	19698767	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08		19698767	28431128	134	20425											
CCT8	10694	broad.mit.edu;hgsc.bcm.edu	37	chr21	30442596	30442596	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatatgctgtacgagtggtTtgggcaagctccttgcaagc	8	11	12	10	1	0	0	0	0	0	0	1	1	1	0	2	2	5	6	2	2	4	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	30442596	T	A	30442596	3	1	406	1	0	0	0	0	1	0	0	0	2960	1838	64	5	1579	5	CCT8	21	30442596	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	10743829	30442596	17687299	135	20426											
DOPEY2	9980	hgsc.bcm.edu;ucsc.edu	37	chr21	37617853	37617854	+	Frame_Shift_Del	DEL	TC	TC	-																															gacgcaggcttctgagtcgtTctccagcgacgaggaggcgg																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	37617854	TC	-	37617853	7	5	406	1	0	1	0	1	0	0	0	0	4708	1783	62	0	3645	0	DOPEY2	21	37617853	Frame_Shift_Del	DEL	TC	TCGA-CJ-4920-01A-01D-1429-08	7175257	37617853	10512042	136	20427											
CCDC116	164592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21989453	21989453	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagccctatgcttccccccgCcccacagtctccagccccaa	7	6	5	23	1	1	0	0	0	1	0	3	0	2	0	9	0	3	1	9	0	2	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	21989453	C	T	21989453	2	4	406	1	0	0	0	0	0	0	0	1	2753	726	26	2		2	CCDC116	22	21989453	Silent	SNP	C	TCGA-CJ-4920-01A-01D-1429-08		21989453	29315113	137	20428											
SBF1	6305	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50903133	50903133	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctctcaccgggcctctgtAccttgtgcatcgccacggct	4	11	10	16	3	2	0	1	0	2	0	4	0	2	0	4	2	3	4	4	2	1	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		G	50903133	A	G	50903133	3	3	406	1	0	0	0	0	1	0	0	0	13860	391	14	3	4327	3	SBF1	22	50903133	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	28913680	50903133	401433	138	20429											
CDKL5	6792	broad.mit.edu;ucsc.edu	37	chrX	18622812	18622812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcactgtctgcacctcacGaatctttttcttatggactg	8	16	6	11	1	5	0	2	0	3	0	5	2	5	1	1	1	1	1	1	1	2	4	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	18622812	A	A	18622812	3	1	406	1	0	0	0	0	1	0	0	0	3157	1059	37	1	1810	1	CDKL5	23	18622812	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08		18622812	136647748	139	20430											
TFE3	7030	broad.mit.edu	37	chrX	48900725	48900725	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgctggcctctacgccatCccgagctggttcggccgcat	4	8	12	17	6	1	0	0	0	1	0	3	1	2	0	4	3	2	4	4	3	1	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	48900725	A	A	48900725	3	1	406	1	0	0	0	0	1	0	0	0	15799	855	30	4	1739	4	TFE3	23	48900725	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	30277913	48900725	106369835	140	20431											
SMC1A	8243	hgsc.bcm.edu;ucsc.edu	37	chrX	53430820	53430820	+	Frame_Shift_Del	DEL	T	T	-																															agctcactctccagcttggaTttttcctacaggcaatgggt																								novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		-	53430820	T	-	53430820	7	5	406	1	0	1	0	1	0	0	0	0	14783	1490	52	0	1547	0	SMC1A	23	53430820	Frame_Shift_Del	DEL	T	TCGA-CJ-4920-01A-01D-1429-08	4530095	53430820	101839740	141	20432											
MAGEE1	57692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	75650469	75650469	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaggaggcccttttttgagGaagctgctgcagaggtacca	9	11	13	8	0	0	2	0	1	0	1	0	4	0	4	2	4	4	4	2	4	3	5	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	75650469	G	T	75650469	4	4	406	1	0	0	0	0	0	1	0	0	9185	1175	41	4	2148	4	MAGEE1	23	75650469	Nonsense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	22219649	75650469	79620091	142	20433											
PCDH11X	27328	broad.mit.edu;hgsc.bcm.edu	37	chrX	91873325	91873325	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaactgcactcaagaatgtCtcatctatggccattctgat	12	12	6	11	0	4	2	2	1	3	1	5	2	4	2	1	1	2	1	1	1	4	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	91873325	C	A	91873325	3	1	406	1	0	0	0	0	1	0	0	0	11508	913	32	4	3578	4	PCDH11X	23	91873325	Missense_Mutation	SNP	C	TCGA-CJ-4920-01A-01D-1429-08	16222856	91873325	63397235	143	20434											
ARMCX6	54470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	100871360	100871360	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgagggcctgtcctcaGtgccacctggggccccaggt	4	7	13	17	0	1	1	1	1	0	0	2	1	2	1	8	4	1	0	8	4	0	0	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	100871360	G	T	100871360	3	4	406	1	0	0	0	0	1	0	0	0	963	1029	36	4	655	4	ARMCX6	23	100871360	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	8998035	100871360	54399200	144	20435											
ARMCX5	64860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101857826	101857826	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactggaccctggttgagAccttgattgaaactcctctg	10	11	10	10	0	1	3	0	3	1	1	2	6	2	4	3	2	2	1	3	2	2	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	101857826	A	T	101857826	3	4	406	1	0	0	0	0	1	0	0	0	962	275	10	5	759	5	ARMCX5	23	101857826	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	986466	101857826	53412734	145	20436											
ALG13	79868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	110964871	110964871	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgcccttcccctataaggTgctcaaagccctggatccag	9	9	9	14	0	1	0	1	0	0	0	3	2	3	1	5	2	3	1	5	2	3	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	110964871	T	A	110964871	3	1	406	1	0	0	0	0	1	0	0	0	515	1696	59	5	1555	5	ALG13	23	110964871	Missense_Mutation	SNP	T	TCGA-CJ-4920-01A-01D-1429-08	9107045	110964871	44305689	146	20437											
HTR2C	3358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	113965887	113965887	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caataggtggcaacatccttGtgatcatggcagtaagcatg	12	10	11	8	0	1	1	1	1	0	0	2	1	2	1	1	3	2	4	1	3	4	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		C	113965887	G	C	113965887	3	2	406	1	0	0	0	0	1	0	0	0	7443	1377	48	4	226	4	HTR2C	23	113965887	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	3001016	113965887	41304673	147	20438											
LONRF3	79836	broad.mit.edu;hgsc.bcm.edu	37	chrX	118108850	118108850	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcggcccaagtagacatggGcccccacccaaaggtggctg	10	4	13	14	1	0	1	0	0	0	1	0	1	0	1	4	4	1	2	4	4	3	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	118108850	G	T	118108850	3	4	406	1	0	0	0	0	1	0	0	0	8896	1203	42	4	109	4	LONRF3	23	118108850	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	4142963	118108850	37161710	148	20439											
TFDP3	51270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132351883	132351883	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacttggcgaccagctcGcccaccacttcctggcagga	8	7	10	16	2	0	1	0	1	0	0	2	3	1	2	4	3	2	2	4	3	1	2	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		A	132351883	G	A	132351883	2	1	406	1	0	0	0	0	0	0	0	1	15798	1074	38	1		1	TFDP3	23	132351883	Silent	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	14243033	132351883	22918677	149	20440											
GABRE	2564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151123262	151123262	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagtagttatccaggcggtAgacatggatgcagaggcggc	10	7	16	8	3	0	2	0	0	0	2	1	4	1	3	1	5	1	4	1	5	3	3	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	151123262	A	T	151123262	3	4	406	1	0	0	0	0	1	0	0	0	6170	420	15	5	92	5	GABRE	23	151123262	Missense_Mutation	SNP	A	TCGA-CJ-4920-01A-01D-1429-08	18771379	151123262	4147298	150	20441											
IRAK1	3654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153278674	153278674	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtcactctccacgggctGgttggggcctctctgcagct	3	11	12	15	2	3	0	1	0	2	0	6	0	3	0	2	4	2	4	2	4	0	1	novel		TCGA-CJ-4920-01A-01D-1429-08	TCGA-CJ-4920-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	12bf3338-f541-45a9-9fb7-e84931ba5ed8	3879491a-93eb-40d1-83ba-d90b98dabffe		T	153278674	G	T	153278674	3	4	406	1	0	0	0	0	1	0	0	0	7821	1357	47	4	400	4	IRAK1	23	153278674	Missense_Mutation	SNP	G	TCGA-CJ-4920-01A-01D-1429-08	2155412	153278674	1991886	151	20442											
DNAJC16	23341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	15893684	15893684	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtctgaggccaggccacatGaatgtggtcctcatcctgtc	7	10	11	13	1	2	2	1	2	1	0	5	2	4	2	4	3	0	0	4	3	1	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	15893684	G	A	15893684	3	1	407	1	0	0	0	0	1	0	0	0	4635	1290	45	2	1919	2	DNAJC16	1	15893684	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08		15893684	233356937	1	20443											
MFSD2A	84879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40430907	40430907	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttctccacgcccctggcCgtcattgcctacttcctcat	5	13	5	18	2	4	0	2	0	2	0	6	0	5	0	6	1	2	0	6	1	1	4	rs115805986	bycluster;by1000genomes	TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	40430907	C	T	40430907	2	4	407	1	0	0	0	0	0	0	0	1	9530	639	23	1		1	MFSD2A	1	40430907	Silent	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	24537223	40430907	208819714	2	20444											
SELENBP1	8991	broad.mit.edu;ucsc.edu	37	chr1	151339307	151339307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccagaagtcatagcccaaCggtgcagcacccccaggtct	11	6	9	15	1	2	1	1	0	1	1	2	1	2	1	4	2	5	2	4	2	4	2	rs146898667	by1000genomes	TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	151339307	T	T	151339307	2	4	407	1	0	0	0	0	0	0	0	1	14016	523	19	1		1	SELENBP1	1	151339307	Silent	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	110908400	151339307	97911314	3	20445											
KHK	3795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27320391	27320391	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccggaacgcatcggagcaGgtgaagatgctgcagcggat	10	5	17	9	4	0	2	0	1	0	1	1	5	0	5	1	5	5	4	1	5	2	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	27320391	G	T	27320391	3	4	407	1	0	0	0	0	1	0	0	0	8149	991	35	4	595	4	KHK	2	27320391	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08		27320391	215878982	4	20446											
NRXN1	9378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	50724674	50724674	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagccaaatctggcattaagCtcacagtaatctatgtcgcc	13	10	7	11	1	3	0	1	0	2	0	4	0	3	0	2	1	2	3	2	1	5	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	50724674	C	G	50724674	3	3	407	1	0	0	0	0	1	0	0	0	10665	796	28	4	2150	4	NRXN1	2	50724674	Missense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	23404283	50724674	192474699	5	20447											
GPR45	11250	broad.mit.edu	37	chr2	105859013	105859013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgcgcgtgcacaaccagtCggacagcctggacctgcggc	7	5	14	15	5	0	0	0	0	0	0	1	2	0	2	3	3	5	1	3	3	1	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	105859013	T	T	105859013	3	4	407	1	0	0	0	0	1	0	0	0	6696	893	31	1	700	1	GPR45	2	105859013	Missense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	55134339	105859013	137340360	6	20448											
COBLL1	22837	broad.mit.edu;hgsc.bcm.edu	37	chr2	165551129	165551129	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaaggggttgtggaacagAgtgaggcattttacttaagg	13	10	14	4	0	0	2	0	1	0	1	0	3	0	3	0	5	3	2	0	5	5	4	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	165551129	A	C	165551129	3	2	407	1	0	0	0	0	1	0	0	0	3654	304	11	5	625	5	COBLL1	2	165551129	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08	59692116	165551129	77648244	7	20449											
STK17B	9262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197002269	197002269	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatcctctgggatattctCtttgtcttctctatcaccac	6	17	5	13	0	5	0	1	0	4	0	8	1	6	1	2	1	0	1	2	1	3	6	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	197002269	C	A	197002269	4	1	407	1	0	0	0	0	0	1	0	0	15292	922	32	4	101	4	STK17B	2	197002269	Nonsense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	31451140	197002269	46197104	8	20450											
IRS1	3667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	227662246	227662246	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggaagagacaatccgaGgtggagccatggccactggt	10	6	16	9	2	0	1	0	0	0	1	1	5	1	3	3	5	1	0	3	5	2	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	227662246	G	C	227662246	2	2	407	1	0	0	0	0	0	0	0	1	7840	987	35	4		4	IRS1	2	227662246	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	30659977	227662246	15537127	9	20451											
BAP1	8314	broad.mit.edu	37	chr3	52437168	52437168	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaccttgggtgagtattTctccccactcaagggctcgc	6	11	10	14	1	3	1	2	1	1	0	5	1	3	1	3	2	0	3	3	2	2	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	52437168	A	A	52437168	4	1	407	1	0	0	0	0	0	1	0	0	1311	1792	62	5	329	5	BAP1	3	52437168	Nonsense_Mutation	SNP	T	TCGA-CJ-4923-01A-01D-1429-08		52437168	145585262	10	20452											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52582140	52582140	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgtcccggagcatcaaatctCgaaggcgccagagggcatct	10	7	12	12	3	3	1	1	0	2	1	5	3	4	2	2	3	1	2	2	3	2	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	52582140	C	G	52582140	3	3	407	1	0	0	0	0	1	0	0	0	11491	884	31	4	64	4	PBRM1	3	52582140	Missense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	144972	52582140	145440290	11	20453											
KALRN	8997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	123987876	123987876	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccctgtggaggagctggAccgggaggggcagcggctgc	5	4	21	11	2	0	0	0	0	0	0	0	4	0	4	3	8	3	3	3	8	0	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	123987876	A	G	123987876	3	3	407	1	0	0	0	0	1	0	0	0	7975	275	10	3	755	3	KALRN	3	123987876	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08	71405736	123987876	74034554	12	20454											
PYDC2	152138	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	191179038	191179038	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgagcaagttcaagtctctGatcagaacaatctccctggg	11	11	9	10	0	4	3	2	2	2	1	6	3	4	3	1	1	2	2	1	1	4	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	191179038	G	A	191179038	2	1	407	1	0	0	0	0	0	0	0	1	12861	1277	45	2		2	PYDC2	3	191179038	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	67191162	191179038	6843392	13	20455											
DCHS2	54798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	155155839	155155839	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaattgggagtcatgcctTctggcagagaaccaagatgg	14	8	12	7	0	2	2	1	0	1	2	2	4	2	3	2	3	2	1	2	3	4	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	155155839	T	C	155155839	3	2	407	1	0	0	0	0	1	0	0	0	4288	1783	62	3	154	3	DCHS2	4	155155839	Missense_Mutation	SNP	T	TCGA-CJ-4923-01A-01D-1429-08		155155839	35998437	14	20456											
ZFR	51663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32404076	32404076	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtacaagacacatcgcAgagctcacaacgtagctgat	13	8	8	12	2	1	3	1	1	0	2	3	3	2	3	1	0	4	5	1	0	4	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	32404076	A	T	32404076	3	4	407	1	0	0	0	0	1	0	0	0	17658	188	7	5	2121	5	ZFR	5	32404076	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08		32404076	148511184	15	20457											
PCDH1	5097	broad.mit.edu;ucsc.edu	37	chr5	141233715	141233715	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaaggtggccgagtccttGcaggaatcatggctactgtg	8	10	13	10	1	1	0	1	0	0	0	3	2	3	1	3	4	2	2	3	4	3	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	141233715	A	A	141233715	2	1	407	1	0	0	0	0	0	0	0	1	11506	1311	46	2		2	PCDH1	5	141233715	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	108829639	141233715	39681545	16	20458											
E2F3	1871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	20481597	20481597	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggatttatgatatcacCaacgttctggaaggcatcca	14	10	9	8	1	2	2	1	1	1	1	3	4	3	4	2	3	1	2	2	3	5	4	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	20481597	C	A	20481597	2	1	407	1	0	0	0	0	0	0	0	1	4868	581	21	4		4	E2F3	6	20481597	Silent	SNP	C	TCGA-CJ-4923-01A-01D-1429-08		20481597	150633470	17	20459											
ZNF184	7738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27420046	27420046	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgatgctgagtgaggtttGagtgctggctgaaggctttc	6	15	15	5	0	0	5	0	5	0	0	1	5	0	5	0	3	2	5	0	3	1	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	27420046	G	C	27420046	4	2	407	1	0	0	0	0	0	1	0	0	17750	1294	45	4	967	4	ZNF184	6	27420046	Nonsense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	6938449	27420046	143695021	18	20460											
SYNJ2	8871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	158497795	158497795	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctgtggtggaggaagaaAcatccctttgataaaacagg	13	9	13	6	0	0	2	0	1	0	1	1	4	1	4	1	4	3	1	1	4	4	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	158497795	A	G	158497795	2	3	407	1	0	0	0	0	0	0	0	1	15452	40	2	3		3	SYNJ2	6	158497795	Silent	SNP	A	TCGA-CJ-4923-01A-01D-1429-08	131077749	158497795	12617272	19	20461											
RUNDC3B	154661	broad.mit.edu;hgsc.bcm.edu	37	chr7	87436831	87436831	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacacaataaacagtggtAtgagtaagtgtaatactttt	18	12	7	4	0	0	1	0	1	0	0	0	1	0	1	0	1	3	3	0	1	9	7	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	87436831	A	G	87436831	3	3	407	1	0	0	0	0	1	0	0	0	13747	449	16	3	1189	3	RUNDC3B	7	87436831	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08		87436831	71701832	20	20462											
CHRM2	1129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	136700123	136700123	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgtaggggtgagaactGtggaggatggggagtgctac	9	10	18	4	0	1	1	1	1	0	1	1	5	1	4	0	6	3	2	0	6	3	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	136700123	G	A	136700123	3	1	407	1	0	0	0	0	1	0	0	0	3377	1377	48	2	513	2	CHRM2	7	136700123	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	49263292	136700123	22438540	21	20463											
LUC7L2	51631	broad.mit.edu;ucsc.edu	37	chr7	139086943	139086943	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaacagaagtggccaagAaaagattagcagaaactcaa	20	5	10	6	0	1	5	1	0	0	5	1	5	1	5	1	1	3	2	1	1	9	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	139086943	T	T	139086943	4	4	407	1	0	0	0	0	0	1	0	0	9083	247	9	5	330	5	LUC7L2	7	139086943	Nonsense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08	2386820	139086943	20051720	22	20464											
VPS13B	157680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	100148945	100148945	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttggggctttttatatggAttacctgtatacaatggaga	10	16	11	4	0	0	1	0	0	0	1	0	3	0	2	1	4	2	3	1	4	6	8	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	100148945	A	C	100148945	3	2	407	1	0	0	0	0	1	0	0	0	17189	333	12	5	1700	5	VPS13B	8	100148945	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08		100148945	46215077	23	20465											
TG	7038	hgsc.bcm.edu;ucsc.edu	37	chr8	133925416	133925416	+	Frame_Shift_Del	DEL	C	C	-																															atccgcttcctccaaggggaCcactttggcacctctcccag																								novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		-	133925416	C	-	133925416	7	5	407	1	0	1	0	1	0	0	0	0	15812	506	18	0	4362	0	TG	8	133925416	Frame_Shift_Del	DEL	C	TCGA-CJ-4923-01A-01D-1429-08	33776471	133925416	12438606	24	20466											
OR4B1	119765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	48238947	48238947	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaccttcatggagggggttAttgtgttggccaacagtgga	9	11	14	7	0	1	0	1	0	0	0	1	2	1	2	2	5	1	2	2	5	2	4	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	48238947	A	G	48238947	3	3	407	1	0	0	0	0	1	0	0	0	11044	449	16	3	588	3	OR4B1	11	48238947	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08		48238947	86767569	25	20467											
LTBP3	4054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65308037	65308037	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggctgcgtgttcacgcacTtgccctccttgcaaatctcc	6	11	8	16	2	2	0	1	0	1	0	4	0	3	0	3	1	3	4	3	1	1	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	65308037	T	C	65308037	3	2	407	1	0	0	0	0	1	0	0	0	9075	1609	56	3	913	3	LTBP3	11	65308037	Missense_Mutation	SNP	T	TCGA-CJ-4923-01A-01D-1429-08	17069090	65308037	69698479	26	20468											
GPR152	390212	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67219407	67219407	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagagtagacgtcccacagGaaggccaggtagagcagctg	12	4	14	11	1	0	3	0	0	0	3	1	4	1	4	3	3	2	4	3	3	3	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	67219407	G	A	67219407	2	1	407	1	0	0	0	0	0	0	0	1	6658	1165	41	2		2	GPR152	11	67219407	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	1911370	67219407	67787109	27	20469											
NDUFS8	4728	broad.mit.edu;ucsc.edu	37	chr11	67799656	67799656	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctatgctgctgcgggcccTggcccaggctgcacgtgcag	4	7	15	15	2	0	0	0	0	0	0	0	0	0	0	3	3	5	5	3	3	1	1	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	67799656	A	A	67799656	3	1	407	1	0	0	0	0	1	0	0	0	10298	1580	55	5	40	5	NDUFS8	11	67799656	Missense_Mutation	SNP	T	TCGA-CJ-4923-01A-01D-1429-08	580249	67799656	67206860	28	20470											
BIRC3	330	broad.mit.edu	37	chr11	102206699	102206699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttttcttttttataaagatGatttattattaatccggaag	12	20	6	3	1	1	2	0	1	1	1	2	3	2	3	1	1	0	1	1	1	7	10	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	102206699	A	A	102206699	3	1	407	1	0	0	0	0	1	0	0	0	1436	1290	45	2	1349	2	BIRC3	11	102206699	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	34407043	102206699	32799817	29	20471											
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103349892	103349892	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	acacaagtgctgaaagggatCgtgtggttaccaatattgat	13	11	11	6	1	0	2	0	2	0	0	1	3	0	3	1	2	2	2	1	2	5	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	103349892	C	G	103349892	3	3	407	1	0	0	0	0	1	0	0	0	4846	884	31	4	13214	4	DYNC2H1	11	103349892	Missense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	1143193	103349892	31656624	30	20472											
IGSF9B	22997	broad.mit.edu	37	chr11	133807380	133807380	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcactgtcaggctgccGtcactcacctgggagcccaa	8	8	11	14	1	4	0	4	0	0	0	4	2	4	1	3	2	2	1	3	2	1	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	133807380	A	A	133807380	2	1	407	1	0	0	0	0	0	0	0	1	7606	1136	40	1		1	IGSF9B	11	133807380	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	30457488	133807380	1199136	31	20473											
ACTR6	64431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100601498	100601498	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catactttaacttcacttcaAttcaagaatcaatgaatgaa	17	13	3	8	0	4	3	4	2	0	1	4	3	4	3	0	0	2	0	0	0	8	6	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		G	100601498	A	G	100601498	3	3	407	1	0	0	0	0	1	0	0	0	216	101	4	3	327	3	ACTR6	12	100601498	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08		100601498	33250397	32	20474											
CRY1	1407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	107393578	107393578	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatttgttgctgctgtataGaaaaattcacgccataacag	13	14	7	7	1	1	1	1	0	0	1	1	1	1	1	1	0	3	4	1	0	6	7	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	107393578	G	A	107393578	2	1	407	1	0	0	0	0	0	0	0	1	3903	933	33	2		2	CRY1	12	107393578	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	6792080	107393578	26458317	33	20475											
EIF2AK4	440275	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40308848	40308848	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaggttgttggactgtTgaagaaactcggcatcaagt	12	10	14	5	1	1	3	1	1	0	2	2	5	1	5	0	4	1	4	0	4	3	3	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	40308848	T	C	40308848	3	2	407	1	0	0	0	0	1	0	0	0	4999	1821	63	3	4015	3	EIF2AK4	15	40308848	Missense_Mutation	SNP	T	TCGA-CJ-4923-01A-01D-1429-08		40308848	62222544	34	20476											
IGDCC3	9543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65624284	65624284	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaccacacacatacctgttGttattcttgagcctgacgtg	10	12	7	12	1	1	2	0	2	1	0	1	2	1	2	3	0	2	2	3	0	2	5	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	65624284	G	A	65624284	2	1	407	1	0	0	0	0	0	0	0	1	7568	1368	48	2		2	IGDCC3	15	65624284	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	25315436	65624284	36907108	35	20477											
IL16	3603	broad.mit.edu;ucsc.edu	37	chr15	81591913	81591913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagcctgaatgaagaagaagGgacacagggccacccagatg	15	3	13	10	0	0	5	0	2	0	3	0	6	0	6	3	2	1	0	3	2	4	0	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	81591913	A	A	81591913	3	1	407	1	0	0	0	0	1	0	0	0	7633	1232	43	2	2296	2	IL16	15	81591913	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	15967629	81591913	20939479	36	20478											
BLM	641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91292871	91292871	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtatgcactacccaaaacAcaccaactgtaaagaaatcc	17	8	4	12	0	0	1	0	0	0	1	1	1	1	1	3	0	4	3	3	0	8	4	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	91292871	A	C	91292871	3	2	407	1	0	0	0	0	1	0	0	0	1445	159	6	5	379	5	BLM	15	91292871	Missense_Mutation	SNP	A	TCGA-CJ-4923-01A-01D-1429-08	9700958	91292871	11238521	37	20479											
COG8	84342	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69368915	69368915	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggcactctcattcacagTgtgctcacccatggcagggg	8	9	12	12	0	3	0	3	0	1	0	4	1	3	0	1	4	1	3	1	4	0	1	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	69368915	T	C	69368915	3	2	407	1	0	0	0	0	1	0	0	0	3664	1696	59	3	928	3	COG8	16	69368915	Missense_Mutation	SNP	T	TCGA-CJ-4923-01A-01D-1429-08		69368915	20985838	38	20480											
PRPF8	10594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1579248	1579248	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggctctctgtgtgaggaGgtgacgcttgatgcgggaca	8	9	17	7	2	1	3	0	3	1	0	2	6	1	5	0	4	1	2	0	4	1	1	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	1579248	G	A	1579248	3	1	407	1	0	0	0	0	1	0	0	0	12577	1000	35	2	4458	2	PRPF8	17	1579248	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08		1579248	79615962	39	20481											
EVI2B	2124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29632303	29632303	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgttggctattggtgttgGttgtttggtgttgtaggcaa	4	18	17	2	0	0	0	0	0	0	0	0	0	0	0	0	6	0	8	0	6	3	8	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	29632303	G	T	29632303	3	4	407	1	0	0	0	0	1	0	0	0	5288	1261	44	4	1025	4	EVI2B	17	29632303	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	28053055	29632303	51562907	40	20482											
ABCA8	10351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66883567	66883567	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgaagaccaagaagtacagGgaaacatccaccagcgcctg	16	3	10	12	2	0	2	0	0	0	2	1	4	1	3	4	1	3	1	4	1	5	1	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	66883567	G	C	66883567	2	2	407	1	0	0	0	0	0	0	0	1	38	1219	43	4		4	ABCA8	17	66883567	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	37251264	66883567	14311643	41	20483											
PNPLA6	10908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7615512	7615512	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcgagtacggccgcggcGacctcatcggcgtggtgagc	5	6	18	12	7	1	1	1	1	0	0	2	3	1	1	2	5	2	1	2	5	1	1	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	7615512	G	A	7615512	3	1	407	1	0	0	0	0	1	0	0	0	12169	1058	37	1	2149	1	PNPLA6	19	7615512	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08		7615512	51513471	42	20484											
ZSWIM4	65249	broad.mit.edu;hgsc.bcm.edu	37	chr19	13910687	13910687	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgggtgccctttacccgcGggctgcacctgctccagagc	4	7	12	18	3	0	1	0	0	0	1	1	1	1	1	5	2	5	3	5	2	1	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	13910687	G	A	13910687	3	1	407	1	0	0	0	0	1	0	0	0	18242	1116	39	1	313	1	ZSWIM4	19	13910687	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	6295175	13910687	45218296	43	20485											
CPAMD8	27151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17039855	17039855	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggctctcccatcttgctgGtggagatccatgacctggtg	5	11	13	12	1	2	2	0	1	2	1	4	3	3	2	3	4	1	2	3	4	0	1	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	17039855	G	T	17039855	3	4	407	1	0	0	0	0	1	0	0	0	3795	1261	44	4	2692	4	CPAMD8	19	17039855	Missense_Mutation	SNP	G	TCGA-CJ-4923-01A-01D-1429-08	3129168	17039855	42089128	44	20486											
GFRA4	64096	broad.mit.edu	37	chr20	3641432	3641432	+	Frame_Shift_Del	DEL	G	-	-																															cgcgtaggcgcgcaggcagcGggcgccctggtccagcaggc																								novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		-	3641432	-	-	3641432	7	5	407	1	0	1	0	1	0	0	0	0	6350	1116	39	0	364	0	GFRA4	20	3641432	Frame_Shift_Del	DEL	G	TCGA-CJ-4923-01A-01D-1429-08		3641432	59384088	45	20487											
MACROD2	140733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	15412069	15412069	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatttccctgcatctcaaCaggcatttatggtaagtgat	10	13	9	9	0	1	1	1	1	1	0	3	1	2	1	1	3	2	4	1	3	3	4	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	15412069	C	A	15412069	3	1	407	1	0	0	0	0	1	0	0	0	9146	478	17	4	586	4	MACROD2	20	15412069	Missense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08	11770637	15412069	47613451	46	20488											
LPIN3	64900	broad.mit.edu;ucsc.edu	37	chr20	39984632	39984632	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccactccaccctccacTcctacctacaagaagtccct	9	8	2	22	0	0	1	0	0	0	1	5	1	5	1	8	0	2	0	8	0	4	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		C	39984632	C	C	39984632	2	2	407	1	0	0	0	0	0	0	0	1	8920	1538	54	3		3	LPIN3	20	39984632	Silent	SNP	T	TCGA-CJ-4923-01A-01D-1429-08	24572563	39984632	23040888	47	20489											
TOP3B	8940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	22317229	22317229	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaccgtggcgatgaagtgtCtggtgatgtactcatagagc	9	11	14	7	2	2	4	1	3	1	1	2	5	2	4	1	2	2	1	1	2	3	2	novel		TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		T	22317229	C	T	22317229	3	4	407	1	0	0	0	0	1	0	0	0	16367	913	32	2	1375	2	TOP3B	22	22317229	Missense_Mutation	SNP	C	TCGA-CJ-4923-01A-01D-1429-08		22317229	28987337	48	20490											
ARSD	414	hgsc.bcm.edu	37	chrX	2835964	2835964	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccagcgtcgcacaaacccGaaggaggagtaccaagagat	14	5	11	11	3	0	1	0	0	0	1	2	5	1	3	3	2	3	2	3	2	4	2	rs73632972	bycluster;byfrequency;by1000genomes	TCGA-CJ-4923-01A-01D-1429-08	TCGA-CJ-4923-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	19171a1a-6483-4bf3-b0b4-8cd441303c55	f394a92b-22c4-43d1-991b-b32a270d1cba		A	2835964	G	A	2835964	2	1	407	1	0	0	0	0	0	0	0	1	989	1049	37	1		1	ARSD	23	2835964	Silent	SNP	G	TCGA-CJ-4923-01A-01D-1429-08		2835964	152434596	49	20491											
POMGNT1	55624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	46662429	46662429	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatccactgccacatataCtttgctgcgacttgaataca	11	11	6	13	1	0	1	0	1	0	0	1	2	1	1	3	0	5	1	3	0	4	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	46662429	C	A	46662429	3	1	408	1	0	0	0	0	1	0	0	0	12243	565	20	4	1730	4	POMGNT1	1	46662429	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10		46662429	202588192	1	20492											
ALDH9A1	223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	165652237	165652237	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccatggatgcagccaaGcccgcataatactccaggca	12	5	9	15	1	0	0	0	0	0	0	1	1	1	1	5	2	5	3	5	2	3	2	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	165652237	G	T	165652237	2	4	408	1	0	0	0	0	0	0	0	1	506	958	34	4		4	ALDH9A1	1	165652237	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	118989808	165652237	83598384	2	20493											
NMNAT2	23057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183230359	183230359	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtatttgcggagtattgagGagtgattcatgattcggtct	8	16	13	4	2	2	3	1	3	1	0	3	5	2	5	0	3	1	2	0	3	2	6	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	183230359	G	T	183230359	3	4	408	1	0	0	0	0	1	0	0	0	10499	1174	41	4	204	4	NMNAT2	1	183230359	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	17578122	183230359	66020262	3	20494											
ZNF678	339500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227842449	227842449	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtttttaattggtggtcAcaactaactaaccataagaa	17	12	6	6	0	1	1	1	0	0	1	1	1	1	1	1	2	3	1	1	2	7	7	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	227842449	A	T	227842449	2	4	408	1	0	0	0	0	0	0	0	1	18084	146	6	5		5	ZNF678	1	227842449	Silent	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	44612090	227842449	21408172	4	20495											
CAD	790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27465207	27465207	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggaggccagtgatcaatgCtggggatggggtcggagagc	8	6	19	8	2	1	2	1	1	0	1	2	5	1	4	2	7	2	1	2	7	1	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	27465207	C	G	27465207	3	3	408	1	0	0	0	0	1	0	0	0	2565	797	28	4	6292	4	CAD	2	27465207	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10		27465207	215734166	5	20496											
GALM	130589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	38956797	38956797	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaatggttttgaccacaAtttctgtctgaagggatcta	10	15	8	8	0	4	2	1	2	4	0	5	3	4	3	1	2	0	1	1	2	4	4	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	38956797	A	T	38956797	3	4	408	1	0	0	0	0	1	0	0	0	6205	101	4	5	752	5	GALM	2	38956797	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	11491590	38956797	204242576	6	20497											
ACCN4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220402025	220402025	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcctcacgttgctggagatCctcgactacatctatgaggc	9	11	9	12	2	2	2	1	1	1	1	5	4	4	2	2	2	2	2	2	2	2	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	220402025	C	A	220402025	2	1	408	1	0	0	0	0	0	0	0	1	131	845	30	4		4	ACCN4	2	220402025	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	181445228	220402025	22797348	7	20498											
C2orf57	165100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	232457795	232457795	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagctctgtcgcatccactGactggcaggatatagatcag	10	9	11	11	1	2	2	1	1	1	1	4	3	3	3	1	2	1	4	1	2	2	2	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	232457795	G	A	232457795	3	1	408	1	0	0	0	0	1	0	0	0	2178	1290	45	2	135	2	C2orf57	2	232457795	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	12055770	232457795	10741578	8	20499											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238233432	238233432	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcttaggttcccatcacActgatgactccgggtttggc	7	11	10	13	2	1	2	1	2	0	0	3	2	3	2	2	3	0	3	2	3	1	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	238233432	A	T	238233432	3	4	408	1	0	0	0	0	1	0	0	0	3701	156	6	5	18	5	COL6A3	2	238233432	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	5775637	238233432	4965941	9	20500											
PER2	8864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	239180147	239180147	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagggacacggccaccgcaAacatatcctgaaaaggaaga	16	3	10	12	2	0	2	0	1	0	1	1	4	1	4	4	3	1	1	4	3	5	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	239180147	A	G	239180147	3	3	408	1	0	0	0	0	1	0	0	0	11730	14	1	3	3261	3	PER2	2	239180147	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	946715	239180147	4019226	10	20501											
THAP4	51078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	242545863	242545863	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatccaggacagtggctcCaccactgggttcatcttggg	8	9	12	12	0	2	0	1	0	1	0	4	1	4	1	3	4	1	3	3	4	0	2	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	242545863	C	A	242545863	2	1	408	1	0	0	0	0	0	0	0	1	15845	581	21	4		4	THAP4	2	242545863	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	3365716	242545863	653510	11	20502											
NKTR	4820	hgsc.bcm.edu;ucsc.edu	37	chr3	42678973	42678974	+	Frame_Shift_Ins	INS	-	-	A																															agcaaccatggcacaaaatgINSaaaatgtagtagtacaacca																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	42678974	-	A	42678973	7	5	408	1	0	1	1	0	0	0	0	0	10448	1291	45	0	1823	0	NKTR	3	42678973	Frame_Shift_Ins	INS	-	TCGA-CJ-5671-01A-11D-1534-10		42678973	155343457	12	20503											
SETD2	29072	broad.mit.edu;ucsc.edu	37	chr3	47144868	47144868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaatttggttcacagctgtGattcatgaaacgagagcaat	14	11	9	7	1	2	3	2	2	0	1	2	4	2	3	0	1	3	3	0	1	3	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	47144868	A	A	47144868	3	1	408	1	0	0	0	0	1	0	0	0	14133	1290	45	2	2869	2	SETD2	3	47144868	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	4465895	47144868	150877562	13	20504											
MYNN	55892	hgsc.bcm.edu;ucsc.edu	37	chr3	169496863	169496863	+	Frame_Shift_Del	DEL	G	G	-																															ctttcaactccccgaaaacaGggcagaataaaacagtgcaa																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		-	169496863	G	-	169496863	7	5	408	1	0	1	0	1	0	0	0	0	10061	1000	35	0	580	0	MYNN	3	169496863	Frame_Shift_Del	DEL	G	TCGA-CJ-5671-01A-11D-1534-10	122351995	169496863	28525567	14	20505											
VCAN	1462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	82836753	82836753	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctctgctgatgttctggCtagctacactcaggcaacac	8	10	11	12	0	3	1	1	1	2	0	3	1	3	1	0	3	4	6	0	3	3	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	82836753	C	T	82836753	3	4	408	1	0	0	0	0	1	0	0	0	17137	797	28	2	7957	2	VCAN	5	82836753	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10		82836753	98078507	15	20506											
FBN2	2201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	127637113	127637113	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggtaagttcataaccttCgttacatagacacttgaaag	13	12	9	7	1	1	2	1	1	0	1	2	2	1	2	1	2	2	3	1	2	5	7	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	127637113	C	T	127637113	3	4	408	1	0	0	0	0	1	0	0	0	5703	893	31	1	2807	1	FBN2	5	127637113	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	44800360	127637113	53278147	16	20507											
FSTL4	23105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132939626	132939626	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcccagcgcagccggcaGggaggctccgagcagtgtga	8	4	15	14	3	0	1	0	1	0	0	2	3	2	2	4	3	3	4	4	3	0	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	132939626	G	A	132939626	2	1	408	1	0	0	0	0	0	0	0	1	6079	991	35	2		2	FSTL4	5	132939626	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	5302513	132939626	47975634	17	20508											
DNAH8	1769	broad.mit.edu	37	chr6	38758105	38758105	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggactcacagtgttaacatGgtcgtctttaacactggaaa	13	11	9	8	1	2	0	1	0	1	0	3	2	2	2	0	3	2	1	0	3	3	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	38758105	A	A	38758105	4	1	408	1	0	0	0	0	0	1	0	0	4607	1357	47	2	2116	2	DNAH8	6	38758105	Nonsense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		38758105	132356962	18	20509											
TJAP1	93643	broad.mit.edu;ucsc.edu	37	chr6	43469319	43469319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcctccgccaccagaCgcactgaggccctggaacgt	7	5	12	17	3	0	2	0	1	0	1	1	3	1	3	6	3	1	1	6	3	1	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	43469319	A	A	43469319	3	1	408	1	0	0	0	0	1	0	0	0	15927	536	19	4	194	4	TJAP1	6	43469319	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	4711214	43469319	127645748	19	20510											
CASP8AP2	9994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90572531	90572531	+	Missense_Mutation	SNP	T	T	G																															agacaaagaagaaagaaaagTtgatcaaaaacctaaatcag																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	90572531	T	G	90572531	3	3	408	1	0	0	0	0	1	0	0	0	2678	1725	60	5	1125	5	CASP8AP2	6	90572531	Missense_Mutation	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	47103212	90572531	80542536	20	20511	271	2									
CASP8AP2	9994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90572532	90572532	+	Silent	SNP	T	T	C																															gacaaagaagaaagaaaagtTgatcaaaaacctaaatcagt																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	90572532	T	C	90572532	2	2	408	1	0	0	0	0	0	0	0	1	2678	1799	63	3		3	CASP8AP2	6	90572532	Silent	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	1	90572532	80542535	21	20512	271	2									
RTN4IP1	84816	broad.mit.edu;ucsc.edu	37	chr6	107067108	107067108	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattcttgtcattcaggcCaccaactttgtttatagcag	10	14	7	10	0	3	0	2	0	1	0	3	0	3	0	2	1	2	3	2	1	4	7	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	107067108	A	A	107067108	3	1	408	1	0	0	0	0	1	0	0	0	13731	594	21	4	625	4	RTN4IP1	6	107067108	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	16494576	107067108	64047959	22	20513											
KIF25	3834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	168443302	168443302	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcatcagccgcagccttgcGgccctggcaggcgtcctggg	4	7	15	15	3	1	0	1	0	0	0	2	0	2	0	4	4	4	3	4	4	0	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	168443302	G	A	168443302	2	1	408	1	0	0	0	0	0	0	0	1	8293	1103	39	1		1	KIF25	6	168443302	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	61376194	168443302	2671765	23	20514											
NUPL2	11097	hgsc.bcm.edu	37	chr7	23221811	23221811	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacggcagcaaccgcAgcagcagccttcaggtgact	11	4	14	12	2	1	1	1	1	0	0	1	3	1	3	2	4	5	5	2	4	1	1	rs145987368	byfrequency	TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	23221811	A	G	23221811	3	3	408	1	0	0	0	0	1	0	0	0	10775	188	7	3	109	3	NUPL2	7	23221811	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10		23221811	135916852	24	20515											
PVRIG	79037	broad.mit.edu	37	chr7	99818579	99818579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggcctcccaggctgctcTtcacgtcccttatgccacta	6	10	7	18	1	2	0	1	0	1	0	4	0	4	0	5	2	2	2	5	2	2	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	99818579	C	C	99818579	3	2	408	1	0	0	0	0	1	0	0	0	12840	1609	56	3	704	3	PVRIG	7	99818579	Missense_Mutation	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	76596768	99818579	59320084	25	20516											
FIS1	51024	broad.mit.edu	37	chr7	100883107	100883107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggatttggacttggacaCagcaagtccgatgagtccgg	10	9	13	9	2	1	1	1	1	0	0	3	5	3	4	2	4	1	1	2	4	1	2	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	100883107	T	T	100883107	3	4	408	1	0	0	0	0	1	0	0	0	5897	478	17	2	23	2	FIS1	7	100883107	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	1064528	100883107	58255556	26	20517											
ARHGEF35	445328	broad.mit.edu	37	chr7	143884368	143884368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcctcctgcccgctgactGggacccctttctcctttata	4	13	7	17	2	1	1	0	1	1	0	4	2	2	2	6	1	1	1	6	1	2	4	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	143884368	A	A	143884368	3	1	408	1	0	0	0	0	1	0	0	0	905	1348	47	2	349	2	ARHGEF35	7	143884368	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	43001261	143884368	15254295	27	20518											
PXDNL	137902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	52361653	52361653	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcaccacttgatccttGggggttactgtaaattgtgg	8	13	11	9	0	0	1	0	1	0	0	2	1	2	1	3	3	2	3	3	3	3	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	52361653	G	C	52361653	2	2	408	1	0	0	0	0	0	0	0	1	12850	1335	47	4		4	PXDNL	8	52361653	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		52361653	94002369	28	20519											
ZNF707	286075	broad.mit.edu;ucsc.edu	37	chr8	144776493	144776493	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccggaccaaggagaacctCagccaccaccagagggtcca	12	4	10	15	1	1	2	1	0	0	2	3	4	3	3	7	3	2	0	7	3	2	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	144776493	T	T	144776493	2	4	408	1	0	0	0	0	0	0	0	1	18110	813	29	2		2	ZNF707	8	144776493	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	92414840	144776493	1587529	29	20520											
SVIL	6840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	29752498	29752498	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgggcggaaccagtgatcTtgttctcgatgggccaccag	7	9	14	11	3	2	1	0	1	2	0	3	3	2	2	3	3	2	1	3	3	1	2	rs150671744	byfrequency;alternate_allele	TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	29752498	T	C	29752498	3	2	408	1	0	0	0	0	1	0	0	0	15420	1609	56	3	460	3	SVIL	10	29752498	Missense_Mutation	SNP	T	TCGA-CJ-5671-01A-11D-1534-10		29752498	105782249	30	20521											
PBLD	64081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70056040	70056040	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttattttgtgaaacagcAcagctgcagaagccagggtg	12	10	11	8	0	0	2	0	1	0	1	0	2	0	2	1	1	6	3	1	1	4	4	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	70056040	A	C	70056040	3	2	408	1	0	0	0	0	1	0	0	0	11489	159	6	5	717	5	PBLD	10	70056040	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	40303542	70056040	65478707	31	20522											
ARHGAP19	84986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99006064	99006064	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggatcccaaatagtgcaAtctcgcacactcccgaatgt	11	10	7	13	2	2	0	0	0	2	0	5	2	4	1	2	1	1	2	2	1	4	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	99006064	A	T	99006064	3	4	408	1	0	0	0	0	1	0	0	0	869	98	4	5	550	5	ARHGAP19	10	99006064	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	28950024	99006064	36528683	32	20523											
DOCK1	1793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129160369	129160369	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccagaaatggtgggcccaAtattagaaatgacattaatt	15	12	8	6	0	0	3	0	1	0	2	1	3	1	3	2	2	0	0	2	2	6	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	129160369	A	T	129160369	3	4	408	1	0	0	0	0	1	0	0	0	4684	101	4	5	3392	5	DOCK1	10	129160369	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	30154305	129160369	6374378	33	20524											
CTR9	9646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	10789686	10789686	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaatgatgcaaagaaTctgtatgctgccaatggcat	14	10	9	8	0	2	3	1	1	1	2	2	3	2	3	1	1	3	4	1	1	5	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	10789686	T	G	10789686	3	3	408	1	0	0	0	0	1	0	0	0	4024	1432	50	5	1996	5	CTR9	11	10789686	Missense_Mutation	SNP	T	TCGA-CJ-5671-01A-11D-1534-10		10789686	124216830	34	20525											
OR8U8	504189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56143438	56143438	+	Missense_Mutation	SNP	G	G	C																															ttcatgatatcagaatccttGctactggcttccatggccta																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	56143438	G	C	56143438	3	2	408	1	0	0	0	0	1	0	0	0	11247	1310	46	4		4	OR8U8	11	56143438	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	45353752	56143438	78863078	35	20526	272	2									
OR8U8	504189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56143439	56143439	+	Silent	SNP	C	C	T																															tcatgatatcagaatccttgCtactggcttccatggcctat																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	56143439	C	T	56143439	2	4	408	1	0	0	0	0	0	0	0	1	11247	796	28	2		2	OR8U8	11	56143439	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	1	56143439	78863077	36	20527	272	2									
PC	5091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66616396	66616396	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatctccaggatgaggtcgtCaccttccagtgtcatgtcct	7	12	10	12	1	3	1	2	1	1	0	7	3	5	2	4	2	0	0	4	2	0	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	66616396	C	T	66616396	3	4	408	1	0	0	0	0	1	0	0	0	11497	826	29	2	29	2	PC	11	66616396	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	10472957	66616396	68390120	37	20528											
ALG8	79053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77817939	77817939	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcacaaagagttagacaTcggagaaagcctctgggccc	14	5	12	10	1	1	3	0	0	1	3	2	4	1	3	2	3	1	2	2	3	4	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	77817939	T	C	77817939	2	2	408	1	0	0	0	0	0	0	0	1	523	1422	50	3		3	ALG8	11	77817939	Silent	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	11201543	77817939	57188577	38	20529											
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103091360	103091360	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcttttagcctttagtCaatgaagctaaactagcagt	11	16	6	8	0	2	1	1	1	1	0	3	1	2	1	1	0	4	2	1	0	7	7	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	103091360	C	A	103091360	2	1	408	1	0	0	0	0	0	0	0	1	4846	813	29	4		4	DYNC2H1	11	103091360	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	25273421	103091360	31915156	39	20530											
RAD52	5893	hgsc.bcm.edu;ucsc.edu	37	chr12	1034639	1034639	+	Frame_Shift_Del	DEL	A	A	-																															gcgtggaagcttatttagtgAtctcaggtagtctttgtcca																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		-	1034639	A	-	1034639	7	5	408	1	0	1	0	1	0	0	0	0	12993	333	12	0	760	0	RAD52	12	1034639	Frame_Shift_Del	DEL	A	TCGA-CJ-5671-01A-11D-1534-10		1034639	132817256	40	20531											
ITFG2	55846	hgsc.bcm.edu;ucsc.edu	37	chr12	2929366	2929366	+	Frame_Shift_Del	DEL	T	T	-																															gacagggcagctggtgtcccTcaagaaatggatgctggagg																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		-	2929366	T	-	2929366	7	5	408	1	0	1	0	1	0	0	0	0	7870	1551	54	0	539	0	ITFG2	12	2929366	Frame_Shift_Del	DEL	T	TCGA-CJ-5671-01A-11D-1534-10	1894727	2929366	130922529	41	20532											
PTPN6	5777	broad.mit.edu	37	chr12	7069507	7069507	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtccctctgcccacagTcgcagaagggccaggagtcg	8	6	12	15	2	1	1	0	0	1	1	4	2	2	2	3	2	1	1	3	2	1	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	7069507	C	C	7069507	3	2	408	1	0	0	0	0	1	0	0	0	12794	1681	58	3	1654	3	PTPN6	12	7069507	Missense_Mutation	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	4140141	7069507	126782388	42	20533											
LRIG3	121227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	59276667	59276667	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacacacaaagccatcTgggctaacagcaaaaatgct	16	6	6	13	0	2	0	1	0	1	0	2	0	2	0	2	1	4	3	2	1	4	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	59276667	T	C	59276667	2	2	408	1	0	0	0	0	0	0	0	1	8946	1567	55	3		3	LRIG3	12	59276667	Silent	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	52207160	59276667	74575228	43	20534											
E2F7	144455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	77444477	77444477	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttttctgttttctgcttggCctttgcttttcaaattcgtc	3	22	6	10	1	3	0	1	0	2	0	5	0	3	0	1	1	2	3	1	1	1	9	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	77444477	C	T	77444477	2	4	408	1	0	0	0	0	0	0	0	1	4872	738	26	2		2	E2F7	12	77444477	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	18167810	77444477	56407418	44	20535											
SELPLG	6404	hgsc.bcm.edu	37	chr12	109017651	109017680	+	Frame_Shift_Del	DEL	GAGTGGTCTGTGCCTCCGTGGGCACTGGTT	GAGTGGTCTGTGCCTCCGTGGGCACTGGTT	-																															tgcctctgtggctgccagtgGagtggtctgtgcctccgtgg																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	GAGTGGTCTGTGCCTCCGTGGGCACTGGTT	GAGTGGTCTGTGCCTCCGTGGGCACTGGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		-	109017680	GAGTGGTCTGTGCCTCCGTGGGCACTGGTT	-	109017651	7	5	408	1	0	1	0	1	0	0	0	0	14022	1174	41	0	809	0	SELPLG	12	109017651	Frame_Shift_Del	DEL	GAGTGGTCTGTGCCTCCGTGGGCACTGGTT	TCGA-CJ-5671-01A-11D-1534-10	31573174	109017651	24834244	45	20536											
GIT2	9815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110421492	110421492	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctgttctcacgctcgaaTggagttgctgaaaaacgcag	10	10	10	11	3	1	1	1	1	1	0	4	3	2	2	1	1	2	5	1	1	3	2	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	110421492	T	A	110421492	3	1	408	1	0	0	0	0	1	0	0	0	6397	1464	51	5	1968	5	GIT2	12	110421492	Missense_Mutation	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	1403841	110421492	23430403	46	20537											
FRY	10129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32721987	32721987	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atctttcagccgacttataaCcatcatcacaacacttttcc	12	13	2	14	1	4	0	3	0	1	0	5	1	5	0	3	0	3	0	3	0	3	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	32721987	C	A	32721987	3	1	408	1	0	0	0	0	1	0	0	0	6063	507	18	4	1345	4	FRY	13	32721987	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10		32721987	82447891	47	20538											
ESD	2098	broad.mit.edu;hgsc.bcm.edu	37	chr13	47345584	47345584	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttagcatgatgtctgatGtggtcagtaataaaggttgc	11	15	11	4	0	2	2	1	2	1	0	2	2	2	2	0	2	2	3	0	2	5	6	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	47345584	G	A	47345584	2	1	408	1	0	0	0	0	0	0	0	1	5250	1368	48	2		2	ESD	13	47345584	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	14623597	47345584	67824294	48	20539											
SDCCAG1	0	broad.mit.edu;ucsc.edu	37	chr14	50298067	50298067	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttctatcttggaataaaAttcatccaccgccttattaa	12	14	4	11	1	3	0	1	0	2	0	4	1	4	1	4	1	0	0	4	1	6	7	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	50298067	C	C	50298067	3	2	408	1	0	0	0	0	1	0	0	0	13959	101	4	5	2427	5	SDCCAG1	14	50298067	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10		50298067	57051473	49	20540											
SOS2	6655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	50597307	50597307	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtgtatttggagaggtTggtgctgacactgttgattc	7	15	15	4	0	0	3	0	2	0	1	1	5	0	3	0	4	1	4	0	4	1	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	50597307	T	A	50597307	2	1	408	1	0	0	0	0	0	0	0	1	14939	1799	63	5		5	SOS2	14	50597307	Silent	SNP	T	TCGA-CJ-5671-01A-11D-1534-10	299240	50597307	56752233	50	20541											
TXNDC16	57544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	52922174	52922174	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagacttgcagcatatttGgttgacctatggagaaaggc	12	10	13	6	0	0	3	0	1	0	2	0	5	0	4	1	4	2	3	1	4	4	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		C	52922174	G	C	52922174	2	2	408	1	0	0	0	0	0	0	0	1	16794	1335	47	4		4	TXNDC16	14	52922174	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	2324867	52922174	54427366	51	20542											
TMEM63C	57156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77723017	77723017	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgcgagggagctagactCggcccagttccaggaagggc	8	7	15	11	2	0	1	0	0	0	1	2	4	1	3	2	4	2	2	2	4	2	3	rs185516701	by1000genomes	TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	77723017	C	T	77723017	3	4	408	1	0	0	0	0	1	0	0	0	16191	893	31	1	2455	1	TMEM63C	14	77723017	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	24800843	77723017	29626523	52	20543											
ZNF770	54989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	35275034	35275034	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggtggatttttaagtgaGttgactgtcgaaaagattta	11	16	12	2	1	0	3	0	2	0	1	1	5	0	4	0	2	0	2	0	2	4	7	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	35275034	G	A	35275034	3	1	408	1	0	0	0	0	1	0	0	0	18142	1029	36	2	1477	2	ZNF770	15	35275034	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		35275034	67256358	53	20544											
PRTG	283659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	55965850	55965850	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggacttcgacttgtcaaaCtaatttcaggaggtctcagg	10	12	11	8	1	3	0	3	0	1	0	5	3	3	2	0	4	1	0	0	4	2	4	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	55965850	C	T	55965850	3	4	408	1	0	0	0	0	1	0	0	0	12640	565	20	2	1925	2	PRTG	15	55965850	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	20690816	55965850	46565542	54	20545											
IGF1R	3480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	99192822	99192822	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaaggaatgaagtctggCtccggaggagggtccccgac	12	6	14	9	2	1	1	0	1	1	0	3	5	3	4	3	5	0	1	3	5	4	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	99192822	C	T	99192822	2	4	408	1	0	0	0	0	0	0	0	1	7571	784	28	2		2	IGF1R	15	99192822	Silent	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	43226972	99192822	3338570	55	20546											
KCNG4	93107	broad.mit.edu	37	chr16	84270394	84270394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacacaggctgacggctgtgGtggccacgaagaggatggag	10	5	17	9	2	0	2	0	1	0	1	0	5	0	4	1	6	0	2	1	6	1	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	84270394	T	T	84270394	3	4	408	1	0	0	0	0	1	0	0	0	8030	1261	44	4	867	4	KCNG4	16	84270394	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		84270394	6084359	56	20547											
CLEC10A	10462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6981408	6981408	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagagcagagacgctgcAggagggactggagaggaagt	12	3	18	8	1	0	3	0	0	0	3	0	8	0	6	1	4	2	3	1	4	1	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	6981408	A	G	6981408	3	3	408	1	0	0	0	0	1	0	0	0	3495	188	7	3	895	3	CLEC10A	17	6981408	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10		6981408	74213802	57	20548											
MAP3K14	9020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	43347888	43347888	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctgtgagaggggcgcAggagggtgggatctccctca	6	7	19	9	1	2	1	1	1	1	1	3	4	2	3	1	6	0	2	1	6	0	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	43347888	A	T	43347888	2	4	408	1	0	0	0	0	0	0	0	1	9248	188	7	5		5	MAP3K14	17	43347888	Silent	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	36366480	43347888	37847322	58	20549											
CUEDC1	404093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	55948719	55948719	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttagatttctgggattcgtAtttcaatcgatctggaaaag	11	16	9	5	2	3	1	1	0	2	1	5	4	3	3	0	2	0	1	0	2	5	6	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	55948719	A	G	55948719	3	3	408	1	0	0	0	0	1	0	0	0	4052	449	16	3	384	3	CUEDC1	17	55948719	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	12600831	55948719	25246491	59	20550											
CTDP1	9150	hgsc.bcm.edu	37	chr18	77475187	77475188	+	In_Frame_Ins	INS	-	-	GGA																															gagtccctggaccagagcatINSggaggaggaggaggaggagg																								rs35893234	bycluster;by1000genomes	TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		GGA	77475188	-	GGA	77475187	7	5	408	1	0	1	1	0	0	0	0	0	4002	1464	51	0	1757	0	CTDP1	18	77475187	In_Frame_Ins	INS	-	TCGA-CJ-5671-01A-11D-1534-10		77475187	602061	60	20551											
ZNF570	148268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	37967302	37967302	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggaaaagcaccctggatGgtgaagagagagctgacaaa	17	4	13	7	0	0	4	0	2	0	2	0	7	0	6	1	3	2	2	1	3	5	0	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	37967302	G	A	37967302	3	1	408	1	0	0	0	0	1	0	0	0	18001	1348	47	2	232	2	ZNF570	19	37967302	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		37967302	21161681	61	20552											
GRIK5	2901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42563630	42563630	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatcctcactgacagcgtCtccttggagatgaggaagcc	11	8	10	12	1	2	3	1	2	1	1	4	5	3	4	3	2	3	0	3	2	2	1	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	42563630	C	A	42563630	3	1	408	1	0	0	0	0	1	0	0	0	6777	912	32	4	2444	4	GRIK5	19	42563630	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10	4596328	42563630	16565353	62	20553											
ZNF175	7728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52090388	52090388	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccataaacagtcactcaaGcaacatcaaattcatactca	17	8	4	12	0	5	0	5	0	0	0	5	0	5	0	1	1	4	1	1	1	6	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	52090388	G	T	52090388	3	4	408	1	0	0	0	0	1	0	0	0	17744	962	34	4	818	4	ZNF175	19	52090388	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	9526758	52090388	7038595	63	20554											
ITCH	83737	broad.mit.edu;ucsc.edu	37	chr20	33026360	33026360	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgggaataattctccatcActctcaaatggtggttttaa	12	14	8	7	0	3	0	2	0	2	0	5	1	3	1	1	3	0	1	1	3	4	4	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	33026360	G	G	33026360	2	3	408	1	0	0	0	0	0	0	0	1	7868	146	6	3		3	ITCH	20	33026360	Silent	SNP	A	TCGA-CJ-5671-01A-11D-1534-10		33026360	29999160	64	20555											
KRTAP19-2	337969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	31859596	31859596	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggccacaaccatatctGcatccttcatagccgcagcc	9	9	7	16	1	2	0	1	0	1	0	3	0	3	0	5	1	4	2	5	1	3	3	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	31859596	G	T	31859596	4	4	408	1	0	0	0	0	0	1	0	0	8529	1311	46	4	88	4	KRTAP19-2	21	31859596	Nonsense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		31859596	16270299	65	20556											
DSCR3	10311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38610801	38610801	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgatacgtctcatacagaActttgttacccttcaagtgc	11	13	6	11	1	2	2	2	1	1	1	3	2	2	2	1	0	5	1	1	0	5	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		G	38610801	A	G	38610801	3	3	408	1	0	0	0	0	1	0	0	0	4771	43	2	3	606	3	DSCR3	21	38610801	Missense_Mutation	SNP	A	TCGA-CJ-5671-01A-11D-1534-10	6751205	38610801	9519094	66	20557											
LARGE	9215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	33780246	33780246	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtcagcctccacatctgctCccatttcatcttccgcagct	6	12	6	17	1	4	0	2	0	2	0	7	0	7	0	4	1	3	3	4	1	0	2	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	33780246	C	T	33780246	3	4	408	1	0	0	0	0	1	0	0	0	8627	864	30	2	1365	2	LARGE	22	33780246	Missense_Mutation	SNP	C	TCGA-CJ-5671-01A-11D-1534-10		33780246	17524320	67	20558											
MLC1	23209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50518347	50518347	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaagctcgtgtgaactcacGtttattgctgatgggttcag	8	13	12	8	3	2	2	2	2	0	0	3	3	2	2	0	1	3	4	0	1	3	4	rs121908343	alternate_allele	TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	50518347	G	A	50518347	2	1	408	1	0	0	0	0	0	0	0	1	9612	1159	40	1		1	MLC1	22	50518347	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	16738101	50518347	786219	68	20559											
VCX3B	425054	hgsc.bcm.edu	37	chrX	8434347	8434376	+	In_Frame_Del	DEL	GAACCACTGAGTCAGGAGAGCGAGATGGAA	GAACCACTGAGTCAGGAGAGCGAGATGGAA	-																															gtcaggagagccaggtggagGaaccactgagtcaggagagc																								novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	GAACCACTGAGTCAGGAGAGCGAGATGGAA	GAACCACTGAGTCAGGAGAGCGAGATGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		-	8434376	GAACCACTGAGTCAGGAGAGCGAGATGGAA	-	8434347	7	5	408	1	0	1	0	1	0	0	0	0	17144	1175	41	0	584	0	VCX3B	23	8434347	In_Frame_Del	DEL	GAACCACTGAGTCAGGAGAGCGAGATGGAA	TCGA-CJ-5671-01A-11D-1534-10		8434347	146836213	69	20560											
KLHL4	56062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	86921522	86921522	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcatgtgttgtagtggtGaagctaccctaaagctatct	9	13	12	7	0	1	1	0	1	1	0	1	1	1	1	1	2	4	5	1	2	6	5	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		T	86921522	G	T	86921522	2	4	408	1	0	0	0	0	0	0	0	1	8391	1277	45	4		4	KLHL4	23	86921522	Silent	SNP	G	TCGA-CJ-5671-01A-11D-1534-10	78487175	86921522	68349038	70	20561											
ZFY	7544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrY	2829189	2829189	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttttgtttctaatattGtggattctgacataactgtg	9	19	8	5	0	2	1	0	1	2	0	2	2	2	2	0	1	1	2	0	1	3	8	novel		TCGA-CJ-5671-01A-11D-1534-10	TCGA-CJ-5671-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5b1084bb-3fb2-4f3f-9ca7-7108b0f77994	474c3c87-dc39-4106-850a-8d802a30eb14		A	2829189	G	A	2829189	3	1	408	1	0	0	0	0	1	0	0	0	17661	1377	48	2	142	2	ZFY	24	2829189	Missense_Mutation	SNP	G	TCGA-CJ-5671-01A-11D-1534-10		2829189	56544377	71	20562											
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35579833	35579833	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcaaaacaaaacatgcaAgaaacatatatcacaatcat	23	7	3	8	0	3	1	3	0	0	1	3	1	3	1	0	0	4	1	0	0	10	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	35579833	A	C	35579833	3	2	409	1	0	0	0	0	1	0	0	0	17698	72	3	5	2436	5	ZMYM1	1	35579833	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		35579833	213670788	1	20563											
LRRC7	57554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70518807	70518807	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgggaggcgggatgtaccTccggacaccattactaagaa	11	8	12	10	2	0	1	0	0	0	1	1	4	1	4	3	4	2	1	3	4	4	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	70518807	T	C	70518807	2	2	409	1	0	0	0	0	0	0	0	1	9020	1538	54	3		3	LRRC7	1	70518807	Silent	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	34938974	70518807	178731814	2	20564											
FNDC7	163479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109280146	109280146	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggaagtacacttggaatgGgtaagtcatttttctcatgg	10	14	11	6	0	2	0	2	0	1	0	3	2	2	2	0	4	1	2	0	4	4	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	109280146	G	A	109280146	3	1	409	1	0	0	0	0	1	0	0	0	5973	1246	43	2	2212	2	FNDC7	1	109280146	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	38761339	109280146	139970475	3	20565											
GDAP2	54834	broad.mit.edu;ucsc.edu	37	chr1	118426150	118426150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtttcttcaggaagtcggAgtccaggtgattgtattcgc	8	13	13	7	2	2	1	1	1	1	0	5	4	3	3	1	3	0	2	1	3	2	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	118426150	G	G	118426150	3	3	409	1	0	0	0	0	1	0	0	0	6309	304	11	3	347	3	GDAP2	1	118426150	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	9146004	118426150	130824471	4	20566											
VSIG8	391123	hgsc.bcm.edu;ucsc.edu	37	chr1	159828569	159828572	+	Frame_Shift_Del	DEL	CTCG	CTCG	-																															tctgagttgacctgcatccaCtcgatgtccagcccattggg																								novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	CTCG	CTCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		-	159828572	CTCG	-	159828569	7	5	409	1	0	1	0	1	0	0	0	0	17225	564	20	0	1085	0	VSIG8	1	159828569	Frame_Shift_Del	DEL	CTCG	TCGA-CJ-5672-01A-11D-1534-10	41402419	159828569	89422052	5	20567											
CFH	3075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196684863	196684863	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactggttccatagtgtgtGgttacaatggttggtctgat	7	15	12	7	0	1	1	0	1	1	0	2	1	2	1	2	4	1	3	2	4	3	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	196684863	G	A	196684863	3	1	409	1	0	0	0	0	1	0	0	0	3283	1348	47	2	1720	2	CFH	1	196684863	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	36856294	196684863	52565758	6	20568											
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235969775	235969775	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaacatcttggttaacagtCttccgtctctttggataagc	9	15	8	9	1	3	1	0	1	3	0	5	2	4	2	1	2	3	1	1	2	3	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	235969775	C	T	235969775	2	4	409	1	0	0	0	0	0	0	0	1	9128	912	32	2		2	LYST	1	235969775	Silent	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	39284912	235969775	13280846	7	20569											
GTF3C2	2976	broad.mit.edu;ucsc.edu	37	chr2	27565792	27565792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggccgatctaggtcttttGacaacttcagcagcagcagc	9	10	10	12	1	3	1	1	1	2	0	3	2	3	1	1	2	5	3	1	2	2	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	27565792	A	A	27565792	3	1	409	1	0	0	0	0	1	0	0	0	6873	1294	45	2	2333	2	GTF3C2	2	27565792	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		27565792	215633581	8	20570											
RAB1A	5861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	65316108	65316108	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctactactttctttgtggTcagatcacatttgttcccta	7	18	6	10	0	4	1	2	0	2	1	5	1	5	1	1	1	2	1	1	1	3	7	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	65316108	T	C	65316108	3	2	409	1	0	0	0	0	1	0	0	0	12907	1667	58	3	240	3	RAB1A	2	65316108	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	37750316	65316108	177883265	9	20571											
GKN2	200504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	69177365	69177365	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcctgaacattgccacCattgttgcttgggctgatga	7	14	10	10	0	1	3	0	3	1	0	2	3	1	3	3	1	3	3	3	1	1	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	69177365	C	A	69177365	3	1	409	1	0	0	0	0	1	0	0	0	6425	594	21	4	473	4	GKN2	2	69177365	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	3861257	69177365	174022008	10	20572											
RAB11FIP5	26056	broad.mit.edu	37	chr2	73315745	73315745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccattgacacagagcgaaGagcgggaggcagcatccagg	12	4	14	11	2	0	3	0	1	0	2	2	5	2	4	2	3	3	2	2	3	1	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	73315745	A	A	73315745	3	1	409	1	0	0	0	0	1	0	0	0	12899	942	33	2	972	2	RAB11FIP5	2	73315745	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	4138380	73315745	169883628	11	20573											
NAT8	9027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	73868603	73868603	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagagaccaggagtagggcGaggggccccccaagtaagag	12	2	16	11	1	0	2	0	0	0	2	0	5	0	3	5	4	0	2	5	4	3	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	73868603	G	A	73868603	2	1	409	1	0	0	0	0	0	0	0	1	10179	1045	37	1		1	NAT8	2	73868603	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	552858	73868603	169330770	12	20574											
CNNM4	26504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97427956	97427956	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatggaaagcggctatactcGcatcccggtgttcgaagacg	11	8	12	10	5	0	1	0	0	0	1	3	3	1	2	1	3	2	3	1	3	5	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	97427956	G	A	97427956	3	1	409	1	0	0	0	0	1	0	0	0	3615	1087	38	1	1222	1	CNNM4	2	97427956	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	23559353	97427956	145771417	13	20575											
ERMN	57471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158182140	158182140	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctgggtaaatgtagcCggaacatctgtcatgatgtg	10	11	12	8	1	3	1	2	1	1	0	3	2	3	2	2	2	3	2	2	2	4	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	158182140	C	T	158182140	2	4	409	1	0	0	0	0	0	0	0	1	5235	639	23	1		1	ERMN	2	158182140	Silent	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	60754184	158182140	85017233	14	20576											
TANC1	85461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160080760	160080760	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggtgctgtacctggtggaGaagggagccgtgatcgagca	9	7	17	8	2	0	2	0	1	0	1	1	5	0	3	2	4	4	3	2	4	2	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	160080760	G	A	160080760	2	1	409	1	0	0	0	0	0	0	0	1	15543	933	33	2		2	TANC1	2	160080760	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	1898620	160080760	83118613	15	20577											
HECW2	57520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197184391	197184391	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcctgacgtcctctgggaGgtgaggtccttgaagacgta	9	10	13	9	2	1	4	0	3	1	1	4	5	4	5	3	3	0	1	3	3	3	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	197184391	G	A	197184391	3	1	409	1	0	0	0	0	1	0	0	0	7043	1000	35	2	3579	2	HECW2	2	197184391	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	37103631	197184391	46014982	16	20578											
SF3B1	23451	broad.mit.edu;ucsc.edu	37	chr2	198257832	198257832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttcaacaagtgattcagcGaatcttcacaaccaaatcca	16	9	5	11	1	4	1	3	1	1	0	5	2	5	1	2	0	3	1	2	0	5	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	198257832	A	A	198257832	3	1	409	1	0	0	0	0	1	0	0	0	14151	1059	37	1	302	1	SF3B1	2	198257832	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	1073441	198257832	44941541	17	20579											
SATB2	23314	broad.mit.edu;ucsc.edu	37	chr2	200245089	200245089	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacctgaagatactgacctGggagagagggcattctttgg	10	9	13	9	0	1	4	0	2	1	2	1	6	1	5	3	3	1	1	3	3	2	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	200245089	A	A	200245089	4	1	409	1	0	0	0	0	0	1	0	0	13856	1357	47	2	1634	2	SATB2	2	200245089	Nonsense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	1987257	200245089	42954284	18	20580											
NRP2	8828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	206580920	206580920	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccatccccacccaggtaTgactttatcgagattcggga	9	10	10	12	2	0	2	0	1	0	1	3	4	1	3	4	2	1	1	4	2	2	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	206580920	T	C	206580920	2	2	409	1	0	0	0	0	0	0	0	1	10661	1471	51	3		3	NRP2	2	206580920	Silent	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	6335831	206580920	36618453	19	20581											
STK36	27148	broad.mit.edu	37	chr2	219557312	219557312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttctccacaggagcccCgcaagtgagccagccactgc	8	7	10	16	1	1	1	0	1	1	0	2	2	1	2	5	1	4	2	5	1	1	2	rs145717046		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	219557312	T	T	219557312	3	4	409	1	0	0	0	0	1	0	0	0	15303	652	23	1	1980	1	STK36	2	219557312	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	12976392	219557312	23642061	20	20582											
CCDC108	255101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219888914	219888914	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggctgaaggtcagcagCttgcagtctttgttgaccag	8	10	13	10	0	2	2	1	2	1	0	2	2	2	2	2	2	3	5	2	2	1	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	219888914	C	A	219888914	3	1	409	1	0	0	0	0	1	0	0	0	2743	796	28	4	3443	4	CCDC108	2	219888914	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	331602	219888914	23310459	21	20583											
ZFAND2B	130617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220072990	220072990	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctacagacttgctgccatCtccagagcacaagctgtggc	9	8	9	15	0	1	2	0	0	1	2	2	2	1	2	3	1	5	3	3	1	2	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	220072990	C	A	220072990	2	1	409	1	0	0	0	0	0	0	0	1	17627	903	32	4		4	ZFAND2B	2	220072990	Silent	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	184076	220072990	23126383	22	20584											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10191648	10191648	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcaacggatgggagattGaagatttctgttgaaactta	14	12	10	5	1	2	4	1	2	1	2	2	6	2	5	0	2	2	1	0	2	4	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	10191648	G	T	10191648	3	4	409	1	0	0	0	0	1	0	0	0	17161	1285	45	4	651	4	VHL	3	10191648	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		10191648	187830782	23	20585											
RARB	5915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	25636158	25636158	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcacagatctccgtagcaTcagtgctaaaggtatgtctt	12	12	8	9	1	4	1	2	0	2	1	5	1	4	1	1	1	2	4	1	1	5	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	25636158	T	C	25636158	3	2	409	1	0	0	0	0	1	0	0	0	13055	1435	50	3	1165	3	RARB	3	25636158	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	15444510	25636158	172386272	24	20586											
PDHB	5162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	58416621	58416621	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tataacctggtcaatggcttGcatggagaaattgaaggtca	13	11	11	6	0	2	2	2	1	0	1	2	3	2	2	1	4	2	2	1	4	5	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	58416621	G	A	58416621	4	1	409	1	0	0	0	0	0	1	0	0	11666	1328	46	2	747	2	PDHB	3	58416621	Nonsense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	32780463	58416621	139605809	25	20587											
COX17	10063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	119393997	119393997	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaagaagcttaccatttCatattttaaatcctagggct	14	13	6	8	0	1	1	1	0	0	1	2	1	2	1	2	1	3	3	2	1	8	6	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	119393997	C	A	119393997	3	1	409	1	0	0	0	0	1	0	0	0	3766	837	29	4	4	4	COX17	3	119393997	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	60977376	119393997	78628433	26	20588											
COL6A5	256076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130174477	130174477	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcaattatgaaaaagatCaaaaatctgcagaaattgca	20	10	6	5	0	3	4	2	2	1	2	3	4	3	4	0	0	2	2	0	0	7	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	130174477	C	A	130174477	3	1	409	1	0	0	0	0	1	0	0	0	3702	827	29	4	6899	4	COL6A5	3	130174477	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	10780480	130174477	67847953	27	20589											
KCNAB1	7881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	156175241	156175241	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctttctctccccttgcaGgttgctgaacggctgatgac	6	12	10	13	1	1	3	0	3	1	0	3	4	2	3	3	2	3	4	3	2	1	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	156175241	G	T	156175241	5	4	409	1	0	0	0	0	0	0	1	0	8009	1014	35	4	842	4	KCNAB1	3	156175241	Splice_Site	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	26000764	156175241	41847189	28	20590											
MECOM	2122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	168833688	168833688	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctttatagaatcattcaCagctcctgacaccgcagtct	11	11	6	13	1	3	2	2	1	1	1	4	2	4	2	3	0	2	2	3	0	3	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	168833688	C	A	168833688	3	1	409	1	0	0	0	0	1	0	0	0	9422	478	17	4	1787	4	MECOM	3	168833688	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	12658447	168833688	29188742	29	20591											
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79308552	79308552	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctatgtgctgagaaatgaAgttctccacattagcagagg	12	10	10	9	0	1	3	0	2	1	2	2	4	1	3	2	1	2	3	2	1	4	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	79308552	A	T	79308552	3	4	409	1	0	0	0	0	1	0	0	0	6042	69	3	5	3786	5	FRAS1	4	79308552	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		79308552	111845724	30	20592											
BBS12	166379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	123664977	123664977	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaatgaatatagtaaactaAatagtagaatttttaattca	19	15	5	2	0	1	3	1	2	0	1	1	3	1	3	0	0	1	2	0	0	12	10	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	123664977	A	C	123664977	3	2	409	1	0	0	0	0	1	0	0	0	1337	14	1	5	1932	5	BBS12	4	123664977	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	44356425	123664977	67489299	31	20593											
SORBS2	8470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	186548090	186548090	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctagtcctgctcgcaCtttgatctcccaagccccgt	5	11	9	16	2	1	1	0	1	1	0	4	1	2	1	4	1	2	3	4	1	2	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	186548090	C	T	186548090	3	4	409	1	0	0	0	0	1	0	0	0	14930	565	20	2	2524	2	SORBS2	4	186548090	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	62883113	186548090	4606186	32	20594											
CTNNA1	1495	broad.mit.edu;ucsc.edu	37	chr5	138261073	138261073	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatggcatccgggacatcAggaaagcagtgctgatgata	13	8	13	7	1	1	3	1	3	0	0	2	5	2	5	1	3	2	3	1	3	2	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	138261073	C	C	138261073	2	2	409	1	0	0	0	0	0	0	0	1	4012	179	7	5		5	CTNNA1	5	138261073	Silent	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		138261073	42654187	33	20595											
PCDHB3	56132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140481311	140481311	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccctattcctgagaacTcgggagagactgtactggct	10	9	11	11	1	0	2	0	1	0	2	2	5	1	3	2	2	3	2	2	2	3	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	140481311	T	G	140481311	3	3	409	1	0	0	0	0	1	0	0	0	11543	1551	54	5	1080	5	PCDHB3	5	140481311	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	2220238	140481311	40433949	34	20596											
SLC36A2	153201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150701632	150701632	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagaccatgacgaggcgAatggacagatccagaggcag	14	3	15	9	2	0	4	0	1	0	3	1	7	1	5	2	4	0	2	2	4	1	0	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	150701632	A	G	150701632	2	3	409	1	0	0	0	0	0	0	0	1	14596	242	9	3		3	SLC36A2	5	150701632	Silent	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	10220321	150701632	30213628	35	20597											
ZNF354B	117608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178309752	178309752	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagtcaactcaaactcAggattcatttcaggagcaga	16	8	8	9	0	5	1	5	0	0	1	5	4	5	3	0	2	3	1	0	2	3	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	178309752	A	T	178309752	3	4	409	1	0	0	0	0	1	0	0	0	17864	188	7	5	313	5	ZNF354B	5	178309752	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	27608120	178309752	2605508	36	20598											
TXNDC5	81567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7883469	7883469	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgactttcttccctcctcGgaaaagcaataacgtggggt	10	11	9	11	2	1	1	0	1	1	0	4	2	3	2	2	3	2	1	2	3	4	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	7883469	G	A	7883469	4	1	409	1	0	0	0	0	0	1	0	0	16798	1124	39	1	95	1	TXNDC5	6	7883469	Nonsense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		7883469	163231598	37	20599											
VARS	7407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31752061	31752061	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctcgatccgagttgttGccaccaccacctcctcgtcg	5	12	8	16	4	1	0	0	0	1	0	6	2	3	0	6	0	1	2	6	0	0	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	31752061	G	A	31752061	3	1	409	1	0	0	0	0	1	0	0	0	17122	1319	46	2	2265	2	VARS	6	31752061	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	23868592	31752061	139363006	38	20600											
HS3ST5	222537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	114383925	114383925	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaagctcccaactctggCgactagatacaggagactcc	12	7	8	14	1	1	2	0	0	1	2	4	4	4	2	3	2	3	1	3	2	4	2	rs144143119	byfrequency	TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	114383925	C	T	114383925	3	4	409	1	0	0	0	0	1	0	0	0	7368	768	27	1	963	1	HS3ST5	6	114383925	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	82631864	114383925	56731142	39	20601											
EYA4	2070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	133844277	133844277	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctatagtttaggaggtgCtttccccattgagaatattt	10	16	8	7	0	1	1	0	1	1	1	2	3	2	2	2	2	1	2	2	2	5	8	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	133844277	C	T	133844277	3	4	409	1	0	0	0	0	1	0	0	0	5331	797	28	2	1766	2	EYA4	6	133844277	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	19460352	133844277	37270790	40	20602											
MAP3K5	4217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	136923035	136923035	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctctcttgtcaggatctGgttcaaaacatttcagtatg	10	14	9	8	0	5	0	3	0	2	0	6	1	5	1	0	3	1	3	0	3	3	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	136923035	G	C	136923035	3	2	409	1	0	0	0	0	1	0	0	0	9253	1348	47	4	1406	4	MAP3K5	6	136923035	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	3078758	136923035	34192032	41	20603											
SP4	6671	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	21469813	21469813	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattagtgagctcagcagatActggccagtatgcaagcaca	13	8	10	10	0	1	2	1	1	0	1	1	2	1	2	1	1	5	5	1	1	4	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	21469813	A	G	21469813	3	3	409	1	0	0	0	0	1	0	0	0	14968	391	14	3	1040	3	SP4	7	21469813	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		21469813	137668850	42	20604											
OGDH	4967	broad.mit.edu;ucsc.edu	37	chr7	44664056	44664056	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggacatttcaacagattcgGtgctattctgcacctgttgc	9	13	9	10	1	2	1	1	0	1	1	3	2	2	2	1	2	4	3	1	2	2	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	44664056	T	T	44664056	2	4	409	1	0	0	0	0	0	0	0	1	10839	1248	44	4		4	OGDH	7	44664056	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	23194243	44664056	114474607	43	20605											
CFTR	1080	broad.mit.edu;hgsc.bcm.edu	37	chr7	117180383	117180383	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggtatgactctcttggaGcaataaacaaaatacaggta	16	10	8	7	0	1	1	0	1	1	0	2	2	1	2	0	3	3	3	0	3	8	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	117180383	G	A	117180383	3	1	409	1	0	0	0	0	1	0	0	0	3294	971	34	2	1129	2	CFTR	7	117180383	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	72516327	117180383	41958280	44	20606											
KIAA1429	25962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95531232	95531232	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccaaggcttctttggaatAgtactccattagagtaataa	13	12	7	9	0	1	1	0	0	1	1	2	2	2	2	3	2	1	3	3	2	7	7	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	95531232	A	G	95531232	3	3	409	1	0	0	0	0	1	0	0	0	8231	420	15	3	3062	3	KIAA1429	8	95531232	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		95531232	50832790	45	20607											
KIAA1429	25962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95538745	95538745	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttaggaagagatgaagtcTtctctgctaaatggtcacca	12	11	11	7	0	3	2	1	1	2	1	4	4	3	3	1	3	1	2	1	3	5	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	95538745	T	G	95538745	3	3	409	1	0	0	0	0	1	0	0	0	8231	1609	56	5	3833	5	KIAA1429	8	95538745	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	7513	95538745	50825277	46	20608											
DMRTA1	63951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	22451073	22451073	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctccagaacaaaaagaGagtaaatgtgagtcatgcca	16	9	8	8	0	3	3	1	1	2	2	4	4	3	3	2	0	2	1	2	0	5	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	22451073	G	T	22451073	3	4	409	1	0	0	0	0	1	0	0	0	4588	933	33	4	684	4	DMRTA1	9	22451073	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		22451073	118762358	47	20609											
SEMA4D	10507	broad.mit.edu	37	chr9	91994191	91994191	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttgggtggatgccaccaAcactttggtggcaatcctac	8	10	10	13	0	0	0	0	0	0	0	1	1	1	1	4	4	3	1	4	4	3	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	91994191	G	G	91994191	2	3	409	1	0	0	0	0	0	0	0	1	14036	40	2	3		3	SEMA4D	9	91994191	Silent	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	69543118	91994191	49219240	48	20610											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113312161	113312161	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccggcgagctaaagcctcaAattcttcaaaactgtgtagc	12	9	8	12	2	3	0	2	0	1	0	3	1	3	0	2	1	4	2	2	1	6	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	113312161	A	G	113312161	3	3	409	1	0	0	0	0	1	0	0	0	15419	14	1	3	10148	3	SVEP1	9	113312161	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	21317970	113312161	27901270	49	20611											
GSN	2934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	124072995	124072995	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catcaggattcaagcacgtgGtacccaacgaggtggtggtg	10	8	14	9	2	2	0	2	0	0	0	2	2	2	1	1	5	3	2	1	5	3	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	124072995	G	A	124072995	3	1	409	1	0	0	0	0	1	0	0	0	6825	1261	44	2	580	2	GSN	9	124072995	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	10760834	124072995	17140436	50	20612											
ITIH5	80760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7682816	7682816	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatacaccttgtctccaataAgcctgaaatacaagagacag	16	8	7	10	0	1	2	0	1	1	1	2	4	1	2	3	0	3	0	3	0	6	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	7682816	A	C	7682816	3	2	409	1	0	0	0	0	1	0	0	0	7907	72	3	5	2707	5	ITIH5	10	7682816	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		7682816	127851931	51	20613											
KCNA4	3739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	30034211	30034211	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagctctccgcactcacCattgcaacctccatggtggt	7	10	8	16	1	2	1	1	1	1	0	4	1	3	1	5	2	3	3	5	2	1	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	30034211	C	A	30034211	3	1	409	1	0	0	0	0	1	0	0	0	8005	594	21	4	1950	4	KCNA4	11	30034211	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10		30034211	104972305	52	20614											
OR4C3	256144	broad.mit.edu;hgsc.bcm.edu	37	chr11	48346714	48346714	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgctcattgtggtcactatCacctccagccccacgctggc	7	10	8	16	1	3	0	3	0	0	0	4	0	4	0	4	2	2	2	4	2	1	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	48346714	C	G	48346714	3	3	409	1	0	0	0	0	1	0	0	0	11050	816	29	4	224	4	OR4C3	11	48346714	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	18312503	48346714	86659802	53	20615											
OR8J3	81168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55904652	55904652	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataatgctaacagaggtgcAatatcacagtaaaaatgatt	18	10	8	5	0	1	2	1	1	0	1	1	3	1	2	0	1	3	3	0	1	7	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	55904652	A	C	55904652	3	2	409	1	0	0	0	0	1	0	0	0	11242	126	5	5	406	5	OR8J3	11	55904652	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	7557938	55904652	79101864	54	20616											
BSCL2	26580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62472858	62472858	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagaggaagacagacacccAgagcaaaaggaggatggtgc	17	3	14	7	0	0	4	0	0	0	4	0	7	0	7	1	4	2	1	1	4	4	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	62472858	A	T	62472858	3	4	409	1	0	0	0	0	1	0	0	0	1527	188	7	5	1109	5	BSCL2	11	62472858	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	6568206	62472858	72533658	55	20617											
SPTBN2	6712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66483388	66483388	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtcccccacccggcacgtGacccgggccaggtgcgagtt	6	5	14	16	4	0	1	0	1	0	0	1	2	1	1	5	4	1	2	5	4	0	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	66483388	G	A	66483388	2	1	409	1	0	0	0	0	0	0	0	1	15121	1277	45	2		2	SPTBN2	11	66483388	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	4010530	66483388	68523128	56	20618											
RNF121	55298	broad.mit.edu;ucsc.edu	37	chr11	71707272	71707272	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacgtcatgtatgggcaaCtgctggactggcttcgatac	8	11	11	11	2	2	0	2	0	0	0	3	2	2	1	0	3	3	4	0	3	3	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	71707272	A	A	71707272	3	1	409	1	0	0	0	0	1	0	0	0	13433	564	20	4	929	4	RNF121	11	71707272	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	5223884	71707272	63299244	57	20619											
VPS11	55823	broad.mit.edu;ucsc.edu	37	chr11	118938631	118938631	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggccgctcccggggccacaCctgcttctggatccgctgct	3	8	13	17	3	1	0	0	0	1	0	3	1	3	1	5	4	2	4	5	4	0	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	118938631	G	G	118938631	3	3	409	1	0	0	0	0	1	0	0	0	17187	507	18	4	99	4	VPS11	11	118938631	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	47231359	118938631	16067885	58	20620											
OR10S1	219873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123847986	123847986	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggttgacagatagccAgatagcggtcataggccatg	11	7	15	8	1	1	3	1	1	0	2	1	3	1	3	2	4	2	2	2	4	3	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	123847986	A	T	123847986	3	4	409	1	0	0	0	0	1	0	0	0	10918	188	7	5	586	5	OR10S1	11	123847986	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	4909355	123847986	11158530	59	20621											
KLRC2	3822	broad.mit.edu;hgsc.bcm.edu	37	chr12	10584769	10584770	+	Frame_Shift_Ins	INS	-	-	AA																															ctgctgttacgaaacacaccINSaatccatgaggaaggtaaaa																								novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		AA	10584770	-	AA	10584769	7	5	409	1	0	1	1	0	0	0	0	0	8416	594	21	0	183	0	KLRC2	12	10584769	Frame_Shift_Ins	INS	-	TCGA-CJ-5672-01A-11D-1534-10		10584769	123267126	60	20622											
TM7SF3	51768	broad.mit.edu;ucsc.edu	37	chr12	27156169	27156169	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataattctttgcacttacCggagaaaaggaaacagttgt	16	11	8	6	1	1	1	0	0	1	1	1	3	1	2	1	2	3	2	1	2	6	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	27156169	T	T	27156169	2	4	409	1	0	0	0	0	0	0	0	1	15974	666	23	1		1	TM7SF3	12	27156169	Silent	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	16571400	27156169	106695726	61	20623											
C12orf10	60314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53700059	53700059	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaccaacacagctggctGccagcccgggccttggtgga	7	8	12	14	1	1	0	0	0	1	0	1	1	1	1	4	4	5	2	4	4	2	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	53700059	G	A	53700059	2	1	409	1	0	0	0	0	0	0	0	1	1674	1306	46	2		2	C12orf10	12	53700059	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	26543890	53700059	80151836	62	20624											
SCYL2	55681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100732421	100732421	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgttccttccatgggcaTtggtatgatgttttctacac	6	18	8	9	0	2	1	0	1	2	0	4	1	4	1	2	2	1	4	2	2	2	8	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	100732421	T	C	100732421	3	2	409	1	0	0	0	0	1	0	0	0	13950	1493	52	3	2327	3	SCYL2	12	100732421	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	47032362	100732421	33119474	63	20625											
MED13L	23389	broad.mit.edu;ucsc.edu	37	chr12	116429263	116429263	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtttgcggttcataatcgCactaaacccacaggtacagc	13	9	8	11	2	1	0	1	0	0	0	2	0	1	0	1	2	4	4	1	2	5	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	116429263	A	A	116429263	3	1	409	1	0	0	0	0	1	0	0	0	9431	710	25	4	3196	4	MED13L	12	116429263	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	15696842	116429263	17422632	64	20626											
FLT1	2321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	28913320	28913320	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttacccagtttaagtctctCccgggcaaactcccacttgc	8	11	6	16	1	1	0	0	0	1	0	4	0	3	0	3	1	3	2	3	1	3	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	28913320	C	A	28913320	4	1	409	1	0	0	0	0	0	1	0	0	5941	864	30	4	1599	4	FLT1	13	28913320	Nonsense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10		28913320	86256558	65	20627											
YLPM1	56252	hgsc.bcm.edu;ucsc.edu	37	chr14	75287773	75287773	+	Frame_Shift_Del	DEL	A	A	-																															ggtataggtagagatggaagAttttgatgcaaatatcgaag																								novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		-	75287773	A	-	75287773	7	5	409	1	0	1	0	1	0	0	0	0	17485	333	12	0	6110	0	YLPM1	14	75287773	Frame_Shift_Del	DEL	A	TCGA-CJ-5672-01A-11D-1534-10		75287773	32061767	66	20628											
DENND4A	10260	broad.mit.edu;ucsc.edu	37	chr15	66023980	66023980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatgaggttttacttgcCttagtggaagaggtgaagac	13	11	13	4	0	0	5	0	2	0	3	0	6	0	6	1	3	2	1	1	3	5	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	66023980	T	T	66023980	3	4	409	1	0	0	0	0	1	0	0	0	4433	695	24	2	4654	2	DENND4A	15	66023980	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10		66023980	36507412	67	20629											
IL16	3603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81552201	81552201	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctaaagcctgccaccaaaGggcacgcagcaactcaacca	14	4	7	16	1	1	0	1	0	0	0	2	0	2	0	5	1	5	3	5	1	5	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	81552201	G	T	81552201	3	4	409	1	0	0	0	0	1	0	0	0	7633	1000	35	4	407	4	IL16	15	81552201	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	15528221	81552201	20979191	68	20630											
C16orf62	57020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	19613023	19613023	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcatcttttccatgtgtgtGgatagccgcagcgtcttacc	6	13	10	12	3	2	0	0	0	2	0	3	1	3	1	3	1	3	2	3	1	2	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	19613023	G	T	19613023	2	4	409	1	0	0	0	0	0	0	0	1	1825	1335	47	4		4	C16orf62	16	19613023	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		19613023	70741730	69	20631											
GPT2	84706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	46958369	46958369	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaagacctgtttaaccaagtCccaggaattcactgcaaccc	13	8	7	13	0	1	1	1	0	0	1	2	3	2	2	4	1	3	2	4	1	5	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	46958369	C	T	46958369	2	4	409	1	0	0	0	0	0	0	0	1	6738	842	30	2		2	GPT2	16	46958369	Silent	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	27345346	46958369	43396384	70	20632											
ADAMTS18	170692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	77353974	77353974	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgggcgccagctggaatgagGaccaccggataatattctaa	12	7	12	10	3	1	1	0	1	1	0	1	4	1	4	3	4	1	1	3	4	4	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	77353974	G	A	77353974	2	1	409	1	0	0	0	0	0	0	0	1	263	1161	41	2		2	ADAMTS18	16	77353974	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	30395605	77353974	13000779	71	20633											
TMEM102	284114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7340067	7340067	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgtcggaggctcgggaaGcgtggcccacattatgttcc	7	8	14	12	4	0	0	0	0	0	0	3	2	1	2	3	4	2	2	3	4	2	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	7340067	G	A	7340067	3	1	409	1	0	0	0	0	1	0	0	0	16016	971	34	2	775	2	TMEM102	17	7340067	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		7340067	73855143	72	20634											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu	37	chr17	7722587	7722587	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgctcaatgatatgggcTgcatcgaccccatgtaccag	9	10	10	12	2	1	1	1	1	0	0	3	2	1	1	3	1	3	4	3	1	3	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	7722587	T	A	7722587	3	1	409	1	0	0	0	0	1	0	0	0	4602	1580	55	5	11158	5	DNAH2	17	7722587	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	382520	7722587	73472623	73	20635											
RNF43	54894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56435542	56435542	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgggcaccaccgagtccaagGaacgaggccgagaggtcaca	12	3	14	12	3	1	1	1	0	0	1	2	5	2	2	4	4	1	1	4	4	2	0	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	56435542	G	A	56435542	3	1	409	1	0	0	0	0	1	0	0	0	13497	1174	41	2	764	2	RNF43	17	56435542	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	48712955	56435542	24759668	74	20636											
ZNF57	126295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2917051	2917051	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccatatgaatgcaccaaGtgcaggacagtcttcacgca	15	7	8	11	1	2	1	1	1	1	0	2	2	2	2	2	1	3	3	2	1	4	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	2917051	G	C	2917051	3	2	409	1	0	0	0	0	1	0	0	0	18000	1020	36	4	446	4	ZNF57	19	2917051	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		2917051	56211932	75	20637											
ACER1	125981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6309756	6309756	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgtgcagggcaatgctgTtgagggcgtaggcgttgacc	8	9	17	7	2	0	2	0	2	0	0	0	3	0	2	1	3	2	6	1	3	3	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	6309756	T	A	6309756	3	1	409	1	0	0	0	0	1	0	0	0	138	1725	60	5	366	5	ACER1	19	6309756	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	3392705	6309756	52819227	76	20638											
MCOLN1	57192	hgsc.bcm.edu;ucsc.edu	37	chr19	7589957	7589957	+	Frame_Shift_Del	DEL	T	T	-																															ttcgccgtcgtctcaaatacTttttcatgagtccctgcgac																								novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		-	7589957	T	-	7589957	7	5	409	1	0	1	0	1	0	0	0	0	9395	1609	56	0	148	0	MCOLN1	19	7589957	Frame_Shift_Del	DEL	T	TCGA-CJ-5672-01A-11D-1534-10	1280201	7589957	51539026	77	20639											
COL5A3	50509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10084433	10084433	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgccttccctcactcaccTtctcacccacggcgcctggc	4	9	6	22	2	3	0	3	0	1	0	5	0	4	0	6	2	1	0	6	2	0	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	10084433	T	A	10084433	3	1	409	1	0	0	0	0	1	0	0	0	3698	1623	56	5	1702	5	COL5A3	19	10084433	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	2494476	10084433	49044550	78	20640											
SIN3B	23309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16977286	16977286	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagtcccttgaccaccaGgctgtgaacttcaagcagaa	12	8	8	13	0	2	3	2	2	0	1	3	3	3	3	3	1	2	2	3	1	4	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	16977286	G	T	16977286	3	4	409	1	0	0	0	0	1	0	0	0	14328	991	35	4	1871	4	SIN3B	19	16977286	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	6892853	16977286	42151697	79	20641											
ZNF780B	163131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40540306	40540306	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgttcagtaagttgctactGatgtctgaaggctgtcccac	9	13	10	9	0	2	2	1	2	1	0	3	2	3	2	1	1	2	5	1	1	3	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	40540306	G	A	40540306	2	1	409	1	0	0	0	0	0	0	0	1	18152	1280	45	2		2	ZNF780B	19	40540306	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	23563020	40540306	18588677	80	20642											
BCL2L12	83596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50169188	50169188	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgtgcacccagcgttccGccctttctacgctgggccgg	4	8	13	16	5	1	0	0	0	1	0	2	1	2	0	4	2	4	3	4	2	1	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	50169188	G	T	50169188	2	4	409	1	0	0	0	0	0	0	0	1	1370	1074	38	4		4	BCL2L12	19	50169188	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	9628882	50169188	8959795	81	20643											
U2AF2	11338	hgsc.bcm.edu;ucsc.edu	37	chr19	56185308	56185310	+	In_Frame_Del	DEL	GGA	GGA	-																															ctttccccacagatctttgtGgagttcacctctgtgtttga																								novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		-	56185310	GGA	-	56185308	7	5	409	1	0	1	0	1	0	0	0	0	16822	1335	47	0	1348	0	U2AF2	19	56185308	In_Frame_Del	DEL	GGA	TCGA-CJ-5672-01A-11D-1534-10	6016120	56185308	2943675	82	20644											
NLRP13	126204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56443398	56443398	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcacacagtgaggtcaGattcattgtctggaagatgc	10	13	10	8	0	4	3	3	1	2	2	5	4	4	4	0	2	1	0	0	2	1	3	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	56443398	G	T	56443398	3	4	409	1	0	0	0	0	1	0	0	0	10475	933	33	4	2893	4	NLRP13	19	56443398	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	258090	56443398	2685585	83	20645											
ESF1	51575	broad.mit.edu;ucsc.edu	37	chr20	13750637	13750637	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctacatccttaggctcAtcatcaaaagtaatatcatc	14	11	6	10	0	4	0	4	0	0	0	6	1	5	0	1	2	1	3	1	2	6	4	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	13750637	G	G	13750637	2	3	409	1	0	0	0	0	0	0	0	1	5251	214	8	3		3	ESF1	20	13750637	Silent	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		13750637	49274883	84	20646											
CDK5RAP1	51654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31958402	31958402	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcctccgtctcaccacaaAagccagcaatgaaatcgctg	12	8	6	15	2	1	1	1	1	1	0	5	1	3	1	4	0	2	2	4	0	4	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	31958402	A	T	31958402	3	4	409	1	0	0	0	0	1	0	0	0	3145	14	1	5	484	5	CDK5RAP1	20	31958402	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	18207765	31958402	31067118	85	20647											
PHF20	51230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34459576	34459576	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttttcttctaggtcaGttgaagtctgctttggaagc	6	19	9	7	0	5	1	1	1	4	0	5	2	5	2	0	2	2	2	0	2	3	7	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	34459576	G	T	34459576	3	4	409	1	0	0	0	0	1	0	0	0	11831	1020	36	4	1137	4	PHF20	20	34459576	Missense_Mutation	SNP	G	TCGA-CJ-5672-01A-11D-1534-10	2501174	34459576	28565944	86	20648											
PCNT	5116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	47850087	47850087	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacctctgtgagagcaggcaGaagagcgaacagctgtcccg	11	5	14	11	2	1	3	0	1	1	3	2	6	2	3	2	1	4	3	2	1	2	0	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	47850087	G	A	47850087	2	1	409	1	0	0	0	0	0	0	0	1	11590	933	33	2		2	PCNT	21	47850087	Silent	SNP	G	TCGA-CJ-5672-01A-11D-1534-10		47850087	279808	87	20649											
APOO	79135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	23874429	23874429	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcctcaccttttgaaagTtctccttccacaaatcttct	8	16	3	14	0	4	1	1	1	3	0	7	1	6	1	4	0	1	2	4	0	2	5	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	23874429	T	A	23874429	3	1	409	1	0	0	0	0	1	0	0	0	813	1725	60	5	53	5	APOO	23	23874429	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10		23874429	131396131	88	20650											
TAF1	6872	broad.mit.edu;hgsc.bcm.edu	37	chrX	70603945	70603945	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggacccttaatgatgcAggttggcatggcaaccaaga	14	8	11	8	0	0	2	0	1	0	1	0	3	0	3	2	4	2	4	2	4	4	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		G	70603945	A	G	70603945	3	3	409	1	0	0	0	0	1	0	0	0	15512	188	7	3	2191	3	TAF1	23	70603945	Missense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10	46729516	70603945	84666615	89	20651											
RNF128	79589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	105970595	105970595	+	Frame_Shift_Del	DEL	C	C	-																															catctttaacttccccgggaCccgcaatgaggtcatcccca																								novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		-	105970595	C	-	105970595	7	5	409	1	0	1	0	1	0	0	0	0	13438	507	18	0	864	0	RNF128	23	105970595	Frame_Shift_Del	DEL	C	TCGA-CJ-5672-01A-11D-1534-10	35366650	105970595	49299965	90	20652											
MAGEA11	4110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	148797543	148797543	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggcccaagaagaagacCtgggcctggtgggtgcacag	10	6	15	10	0	1	3	1	0	0	3	1	3	1	3	3	4	1	1	3	4	3	1	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		A	148797543	C	A	148797543	3	1	409	1	0	0	0	0	1	0	0	0	9165	680	24	4	424	4	MAGEA11	23	148797543	Missense_Mutation	SNP	C	TCGA-CJ-5672-01A-11D-1534-10	42826948	148797543	6473017	91	20653											
HAUS7	55559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	152721103	152721103	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcgcccagctcgtcgtcgTagacttggagaaaagccaag	11	7	11	12	4	0	2	0	0	0	2	4	3	0	2	2	1	2	2	2	1	4	2	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		C	152721103	T	C	152721103	3	2	409	1	0	0	0	0	1	0	0	0	6971	1638	57	3	261	3	HAUS7	23	152721103	Missense_Mutation	SNP	T	TCGA-CJ-5672-01A-11D-1534-10	3923560	152721103	2549457	92	20654											
USP9Y	8287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrY	14850172	14850172	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatgtagaaaagctagagAaaattcttcgttttgtgatt	15	15	8	3	1	1	3	0	1	1	2	2	4	1	3	0	0	1	3	0	0	8	8	novel		TCGA-CJ-5672-01A-11D-1534-10	TCGA-CJ-5672-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	61497c42-78f2-43d4-b2ab-2b1e655271a8	495879a9-ed52-43a8-99ea-37ca7008c323		T	14850172	A	T	14850172	4	4	409	1	0	0	0	0	0	1	0	0	17090	247	9	5	1280	5	USP9Y	24	14850172	Nonsense_Mutation	SNP	A	TCGA-CJ-5672-01A-11D-1534-10		14850172	44523394	93	20655											
FBXO42	54455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16577186	16577186	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatctctttgctcgtacaaaGtacaaggcgtttgtttttgg	8	17	9	7	2	1	0	0	0	1	0	3	0	1	0	0	2	3	5	0	2	5	7	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	16577186	G	C	16577186	4	2	410	1	0	0	0	0	0	1	0	0	5751	1024	36	4	24	4	FBXO42	1	16577186	Nonsense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		16577186	232673435	1	20656											
SDC3	9672	hgsc.bcm.edu;ucsc.edu	37	chr1	31347255	31347255	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcccgggcgggcacccttggGcagtgtcccaggtggagatg	5	6	18	12	2	0	1	0	0	0	1	1	2	1	1	3	5	0	2	3	5	0	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	31347255	G	A	31347255	3	1	410	1	0	0	0	0	1	0	0	0	13955	1203	42	2	285	2	SDC3	1	31347255	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	14770069	31347255	217903366	2	20657											
CSMD2	114784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	34238249	34238249	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccaccagctcaaaggcGggctggcactcaaacttgag	10	7	11	13	1	2	1	2	1	0	0	3	1	3	1	2	3	2	3	2	3	2	1	rs142181378		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	34238249	G	A	34238249	2	1	410	1	0	0	0	0	0	0	0	1	3945	1103	39	1		1	CSMD2	1	34238249	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	2890994	34238249	215012372	3	20658											
PCSK9	255738	broad.mit.edu;hgsc.bcm.edu	37	chr1	55529175	55529175	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgtcagcactacaggcaGcaccagcgaaggggccgtga	11	3	15	12	3	1	1	1	1	0	0	1	3	1	2	2	4	4	3	2	4	2	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	55529175	G	A	55529175	3	1	410	1	0	0	0	0	1	0	0	0	11606	971	34	2	2043	2	PCSK9	1	55529175	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	21290926	55529175	193721446	4	20659											
CREB3L4	148327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153946103	153946103	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttcctcccagattcttcTtttttccctggctctcatca	4	18	4	15	0	4	1	2	0	3	1	8	1	7	1	3	1	1	2	3	1	0	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	153946103	T	A	153946103	3	1	410	1	0	0	0	0	1	0	0	0	3859	1609	56	5	935	5	CREB3L4	1	153946103	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	98416928	153946103	95304518	5	20660											
OLFML2B	25903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161953786	161953786	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgctcaggacaatgacCtcctggctgaagccctcatc	9	9	9	14	0	2	2	2	2	0	0	4	3	3	3	3	2	3	3	3	2	2	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	161953786	C	G	161953786	3	3	410	1	0	0	0	0	1	0	0	0	10858	680	24	4	324	4	OLFML2B	1	161953786	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	8007683	161953786	87296835	6	20661											
GPR37L1	9283	broad.mit.edu;hgsc.bcm.edu	37	chr1	202097558	202097558	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctgtgaggagtgcggCggggcttcggaggcctctgc	3	9	19	10	3	1	1	0	1	1	0	2	3	1	3	1	6	4	3	1	6	0	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	202097558	C	T	202097558	2	4	410	1	0	0	0	0	0	0	0	1	6692	755	27	1		1	GPR37L1	1	202097558	Silent	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	40143772	202097558	47153063	7	20662											
WDR35	57539	broad.mit.edu;ucsc.edu	37	chr2	20138115	20138115	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcggctatctcgcagagaCcgaatctcaaagttaattag	12	10	9	10	3	2	1	1	0	2	1	5	3	2	1	1	1	0	4	1	1	5	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	20138115	G	G	20138115	2	3	410	1	0	0	0	0	0	0	0	1	17288	494	18	4		4	WDR35	2	20138115	Silent	SNP	C	TCGA-CJ-5675-01A-11D-1534-10		20138115	223061258	8	20663											
SCN3A	6328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	165948825	165948825	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctatagtgaagtagtaGtgtctgagggagacgagctt	11	10	14	6	1	1	3	0	2	1	1	1	5	1	3	1	1	2	3	1	1	5	5	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	165948825	G	C	165948825	3	2	410	1	0	0	0	0	1	0	0	0	13920	1020	36	4	1264	4	SCN3A	2	165948825	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	145810710	165948825	77250548	9	20664											
SCN9A	6335	hgsc.bcm.edu;ucsc.edu	37	chr2	167137006	167137006	+	Frame_Shift_Del	DEL	T	T	-																															ttacaataaaatagatacacTttttgaattttatccaatat																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	167137006	T	-	167137006	7	5	410	1	0	1	0	1	0	0	0	0	13927	1609	56	0	3818	0	SCN9A	2	167137006	Frame_Shift_Del	DEL	T	TCGA-CJ-5675-01A-11D-1534-10	1188181	167137006	76062367	10	20665											
ARL8B	55207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	5215726	5215726	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagtgcttggaaacaagagaGatcttcctaatgccttggat	12	12	10	7	0	1	2	0	0	1	2	2	5	2	4	2	2	3	1	2	2	4	5	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	5215726	G	C	5215726	3	2	410	1	0	0	0	0	1	0	0	0	947	942	33	4	415	4	ARL8B	3	5215726	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		5215726	192806704	11	20666											
NKTR	4820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42680080	42680080	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catcaacttctgactctgagGggtcctgttccaattcggaa	9	12	9	11	1	3	2	1	2	2	0	6	3	5	3	2	3	1	1	2	3	3	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	42680080	G	T	42680080	3	4	410	1	0	0	0	0	1	0	0	0	10448	1232	43	4	2930	4	NKTR	3	42680080	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	37464354	42680080	155342350	12	20667											
PARP9	83666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122247559	122247559	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggtttttgaggttcttGgtgaagtatatgccagctcc	7	14	12	8	0	1	2	0	2	1	0	2	2	2	2	3	3	2	4	3	3	3	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	122247559	G	C	122247559	2	2	410	1	0	0	0	0	0	0	0	1	11466	1335	47	4		4	PARP9	3	122247559	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	79567479	122247559	75774871	13	20668											
PLXNA1	5361	broad.mit.edu	37	chr3	126733641	126733641	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgggactgctcaccacactaCcgcgccctgtcacccaagcg	8	5	9	19	4	2	0	2	0	0	0	2	1	2	1	4	1	3	1	4	1	2	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	126733641	A	A	126733641	4	1	410	1	0	0	0	0	0	1	0	0	12119	518	18	4	2894	4	PLXNA1	3	126733641	Nonsense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	4486082	126733641	71288789	14	20669											
NPHP3	27031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132409424	132409424	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggcaatcatgcagctTctgtttacttccctgctgct	9	13	8	11	0	2	1	1	0	1	1	3	1	3	1	1	1	5	6	1	1	4	4	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	132409424	T	G	132409424	3	3	410	1	0	0	0	0	1	0	0	0	10580	1792	62	5	1387	5	NPHP3	3	132409424	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	5675783	132409424	65613006	15	20670											
PRR23A	729627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	138724479	138724479	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtcgaagaaggggcctggaGagtgtccctctgaactgggg	8	7	18	8	1	1	3	0	1	1	2	3	5	2	3	2	6	1	0	2	6	3	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	138724479	G	A	138724479	3	1	410	1	0	0	0	0	1	0	0	0	12596	942	33	2	172	2	PRR23A	3	138724479	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	6315055	138724479	59297951	16	20671											
MUC4	4585	hgsc.bcm.edu	37	chr3	195507215	195507262	+	In_Frame_Del	DEL	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-																															tgaggaagtgctggtgacagGaagaggggtgacgtgacctg																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	195507262	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-	195507215	7	5	410	1	0	1	0	1	0	0	0	0	9978	1174	41	0		0	MUC4	3	195507215	In_Frame_Del	DEL	GAAGAGGGGTGACGTGACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	TCGA-CJ-5675-01A-11D-1534-10	56782736	195507215	2515215	17	20672											
MUC4	4585	hgsc.bcm.edu	37	chr3	195509031	195509078	+	In_Frame_Del	DEL	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	-																															gtggatgctgaggaagtgctGgtgacaggaagagcggtggc																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	195509078	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	-	195509031	7	5	410	1	0	1	0	1	0	0	0	0	9978	1335	47	0		0	MUC4	3	195509031	In_Frame_Del	DEL	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	TCGA-CJ-5675-01A-11D-1534-10	1816	195509031	2513399	18	20673											
ZBTB49	166793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	4303969	4303969	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgtaatagtacattgtctCtacaaagcaccctgacccca	12	11	5	13	0	1	1	0	1	1	0	2	1	1	1	3	0	3	3	3	0	5	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	4303969	C	T	4303969	2	4	410	1	0	0	0	0	0	0	0	1	17549	912	32	2		2	ZBTB49	4	4303969	Silent	SNP	C	TCGA-CJ-5675-01A-11D-1534-10		4303969	186850307	19	20674											
TSPAN5	10098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99397581	99397581	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactggtttttgcctggcatCatagccacactgagtgttga	8	14	10	9	0	1	2	1	2	0	0	1	2	1	2	2	2	3	3	2	2	2	5	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	99397581	C	T	99397581	3	4	410	1	0	0	0	0	1	0	0	0	16649	826	29	2	211	2	TSPAN5	4	99397581	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	95093612	99397581	91756695	20	20675											
LEF1	51176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	109004590	109004590	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatcaggagctggaggaTgtctggacatgcctgttaaa	11	10	14	6	0	2	0	1	0	1	0	2	5	2	5	1	5	2	2	1	5	3	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	109004590	T	G	109004590	3	3	410	1	0	0	0	0	1	0	0	0	8714	1464	51	5	751	5	LEF1	4	109004590	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	9607009	109004590	82149686	21	20676											
MYO10	4651	broad.mit.edu	37	chr5	16674991	16674991	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacttgagatacttgagAatccctcgactcggcaggaa	12	9	11	9	2	0	2	0	2	0	2	3	7	1	4	1	3	2	1	1	3	4	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	16674991	G	G	16674991	2	3	410	1	0	0	0	0	0	0	0	1	10062	242	9	3		3	MYO10	5	16674991	Silent	SNP	A	TCGA-CJ-5675-01A-11D-1534-10		16674991	164240269	22	20677											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33881335	33881335	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccatcatcttaacatgggaGaggttcccatatctcttctc	9	13	7	12	0	4	1	1	0	3	1	7	2	5	1	2	2	1	1	2	2	2	4	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	33881335	G	C	33881335	2	2	410	1	0	0	0	0	0	0	0	1	257	929	33	4		4	ADAMTS12	5	33881335	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	17206344	33881335	147033925	23	20678											
C5orf28	64417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43446548	43446548	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacatccagggaagaaagcAccatgagtctttgagcttga	14	9	10	8	0	1	4	0	3	1	1	2	5	2	5	2	1	3	2	2	1	3	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	43446548	A	T	43446548	3	4	410	1	0	0	0	0	1	0	0	0	2289	159	6	5	227	5	C5orf28	5	43446548	Missense_Mutation	SNP	A	TCGA-CJ-5675-01A-11D-1534-10	9565213	43446548	137468712	24	20679											
DHX29	54505	hgsc.bcm.edu;ucsc.edu	37	chr5	54569200	54569201	+	Frame_Shift_Ins	INS	-	-	TA																															agaatgcagagctatcacttINStatatctgaaagttaaaatc																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		TA	54569201	-	TA	54569200	7	5	410	1	0	1	1	0	0	0	0	0	4503	1841	64	0	1457	0	DHX29	5	54569200	Frame_Shift_Ins	INS	-	TCGA-CJ-5675-01A-11D-1534-10	11122652	54569200	126346060	25	20680											
MAST4	375449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66460450	66460450	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctcctgtccggacctcagGcctccaagacagaactgcct	8	8	8	17	1	2	2	1	0	1	2	5	3	4	3	6	2	2	0	6	2	2	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	66460450	G	A	66460450	3	1	410	1	0	0	0	0	1	0	0	0	9327	1203	42	2	5687	2	MAST4	5	66460450	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	11891250	66460450	114454810	26	20681											
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu	37	chr5	178548695	178548695	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ccggatgggcgagtcggggtCcgggcgggacagccactgaa	7	4	19	11	5	0	1	0	1	0	0	2	4	1	3	3	6	1	0	3	6	1	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	178548695	C	G	178548695	3	3	410	1	0	0	0	0	1	0	0	0	265	855	30	4	498	4	ADAMTS2	5	178548695	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	112088245	178548695	2366565	27	20682											
MDGA1	266727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	37606075	37606075	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtagcccgggcctcgaacCccctcaaaaataatctgggg	11	6	11	13	2	2	0	1	0	1	0	3	1	2	0	4	4	2	1	4	4	5	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	37606075	C	T	37606075	2	4	410	1	0	0	0	0	0	0	0	1	9406	610	22	2		2	MDGA1	6	37606075	Silent	SNP	C	TCGA-CJ-5675-01A-11D-1534-10		37606075	133508992	28	20683											
FAM83B	222584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54806400	54806400	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtccagttgaaagcaagttCttggaaagggcaggagatgc	12	8	15	6	0	1	2	0	1	1	1	2	4	2	3	1	4	2	4	1	4	3	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	54806400	C	G	54806400	3	3	410	1	0	0	0	0	1	0	0	0	5634	912	32	4	2645	4	FAM83B	6	54806400	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	17200325	54806400	116308667	29	20684											
ALDH8A1	64577	hgsc.bcm.edu;ucsc.edu	37	chr6	135254009	135254009	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcttgccccccagctccaGggagagctttttgcagtggg	6	11	12	12	0	1	1	0	0	1	1	2	2	2	1	4	2	4	3	4	2	0	4	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	135254009	G	T	135254009	3	4	410	1	0	0	0	0	1	0	0	0	505	991	35	4	721	4	ALDH8A1	6	135254009	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	80447609	135254009	35861058	30	20685											
KCTD7	154881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	66103318	66103318	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtacaaagaggcccagtaCtatgccatcgggcccctcct	9	8	10	14	1	0	1	0	0	0	1	2	1	1	1	5	2	3	2	5	2	4	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	66103318	C	G	66103318	4	3	410	1	0	0	0	0	0	1	0	0	8114	576	20	4	403	4	KCTD7	7	66103318	Nonsense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10		66103318	93035345	31	20686											
PPP1R9A	55607	hgsc.bcm.edu;ucsc.edu	37	chr7	94919499	94919499	+	Frame_Shift_Del	DEL	A	A	-																															aggctcggaaggcccaagagAaaatggaaaaacaaagagaa																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	94919499	A	-	94919499	7	5	410	1	0	1	0	1	0	0	0	0	12380	247	9	0	4111	0	PPP1R9A	7	94919499	Frame_Shift_Del	DEL	A	TCGA-CJ-5675-01A-11D-1534-10	28816181	94919499	64219164	32	20687											
MOSPD3	64598	broad.mit.edu;hgsc.bcm.edu	37	chr7	100211260	100211260	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccttgagcttcagggacagCcagatccagcgcctcgccca	8	6	10	17	2	1	2	1	1	0	1	3	3	2	3	5	1	3	1	5	1	0	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	100211260	C	T	100211260	3	4	410	1	0	0	0	0	1	0	0	0	9717	739	26	2	452	2	MOSPD3	7	100211260	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	5291761	100211260	58927403	33	20688											
ATP6V0A4	50617	broad.mit.edu;ucsc.edu	37	chr7	138417832	138417832	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgatgttgagagttcttctGaagtatctgggggtggaaga	10	13	15	3	0	3	4	0	3	3	2	3	6	3	5	0	3	0	3	0	3	3	4	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	138417832	A	A	138417832	2	1	410	1	0	0	0	0	0	0	0	1	1170	1281	45	2		2	ATP6V0A4	7	138417832	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	38206572	138417832	20720831	34	20689											
NCOA2	10499	hgsc.bcm.edu;ucsc.edu	37	chr8	71068322	71068322	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagtttgggggttatttctgGtaaaccaatatctttagtat	11	17	9	4	0	2	0	0	0	2	0	2	0	2	0	1	3	1	4	1	3	8	8	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	71068322	G	T	71068322	3	4	410	1	0	0	0	0	1	0	0	0	10229	1261	44	4	2168	4	NCOA2	8	71068322	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		71068322	75295700	35	20690											
ADCY8	114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	131916170	131916170	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtcctcaggctgcttaaTtaagtaagtttcgatattat	11	16	7	7	1	1	0	1	0	0	0	3	1	2	0	1	1	1	4	1	1	5	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	131916170	T	G	131916170	3	3	410	1	0	0	0	0	1	0	0	0	300	1493	52	5	2044	5	ADCY8	8	131916170	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	60847848	131916170	14447852	36	20691											
KCNQ3	3786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	133141908	133141908	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgtgggcctctccacataCgttgttgctgaggaaggagg	8	9	14	10	2	1	1	0	1	1	0	2	3	1	3	3	4	2	3	3	4	2	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	133141908	C	T	133141908	2	4	410	1	0	0	0	0	0	0	0	1	8084	523	19	1		1	KCNQ3	8	133141908	Silent	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	1225738	133141908	13222114	37	20692											
PLEC	5339	broad.mit.edu	37	chr8	144995868	144995868	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtaaacactcagcttctcAttggtggccttcagcaacag	10	10	9	12	1	3	0	3	0	1	0	4	0	3	0	1	2	4	3	1	2	3	4	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	144995868	G	G	144995868	2	3	410	1	0	0	0	0	0	0	0	1	12052	214	8	3		3	PLEC	8	144995868	Silent	SNP	A	TCGA-CJ-5675-01A-11D-1534-10	11853960	144995868	1368154	38	20693											
SARDH	1757	broad.mit.edu	37	chr9	136577831	136577831	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agccaccacccagcatcattCctggcaggaagagaagcgca	13	4	10	14	1	1	1	1	0	0	1	2	3	2	2	4	2	3	3	4	2	2	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	136577831	G	G	136577831	3	3	410	1	0	0	0	0	1	0	0	0	13843	869	30	4	1566	4	SARDH	9	136577831	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10		136577831	4635600	39	20694											
NDST2	8509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75567375	75567375	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgggaagccgggcccgacGaagaactggtcctggcactg	9	5	16	11	3	0	1	0	0	0	1	1	4	1	2	3	4	2	1	3	4	3	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	75567375	G	A	75567375	3	1	410	1	0	0	0	0	1	0	0	0	10256	1058	37	1	1931	1	NDST2	10	75567375	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		75567375	59967372	40	20695											
RNLS	55328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	90122392	90122392	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccagcccaagggacatcaAtcttcgtaccagcttcataa	12	8	7	14	1	3	0	2	0	1	0	4	1	3	1	3	1	3	2	3	1	4	4	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	90122392	A	G	90122392	3	3	410	1	0	0	0	0	1	0	0	0	13507	101	4	3	499	3	RNLS	10	90122392	Missense_Mutation	SNP	A	TCGA-CJ-5675-01A-11D-1534-10	14555017	90122392	45412355	41	20696											
MADD	8567	hgsc.bcm.edu;ucsc.edu	37	chr11	47299728	47299730	+	In_Frame_Del	DEL	CCA	CCA	-																															ttccacagctgctgttggctCcaaccccgtacatcattggg																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	CCA	CCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	47299730	CCA	-	47299728	7	5	410	1	0	1	0	1	0	0	0	0	9152	855	30	0	1126	0	MADD	11	47299728	In_Frame_Del	DEL	CCA	TCGA-CJ-5675-01A-11D-1534-10		47299728	87706788	42	20697											
CARNS1	57571	broad.mit.edu	37	chr11	67191044	67191044	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcacagccctgctctgcCaggagctaggtctgccctgc	5	9	11	16	0	3	0	1	0	2	0	3	1	3	1	3	2	7	3	3	2	1	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	67191044	A	A	67191044	3	1	410	1	0	0	0	0	1	0	0	0	2656	595	21	4	1859	4	CARNS1	11	67191044	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	19891316	67191044	67815472	43	20698											
CCDC81	60494	broad.mit.edu;ucsc.edu	37	chr11	86097136	86097136	+	Silent	SNP	G	T	T																															gtatcagaatttgtgagacgGcagttaaccctgcacaaggt																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	86097136	T	T	86097136	2	4	410	1	0	0	0	0	0	0	0	1	2855	1190	42	4		4	CCDC81	11	86097136	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	18906092	86097136	48909380	44	20699	273	2									
CCDC81	60494	broad.mit.edu;ucsc.edu	37	chr11	86097137	86097137	+	Nonsense_Mutation	SNP	C	T	T																															tatcagaatttgtgagacggCagttaaccctgcacaaggta																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	86097137	T	T	86097137	4	4	410	1	0	0	0	0	0	1	0	0	2855	711	25	2	130	2	CCDC81	11	86097137	Nonsense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	1	86097137	48909379	45	20700	273	2									
KBTBD6	89890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41706026	41706026	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagtctcctcccgaattgAacccatgtggctgagttgct	8	12	10	11	1	1	3	0	2	1	1	3	4	2	3	3	1	2	3	3	1	3	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	41706026	A	C	41706026	3	2	410	1	0	0	0	0	1	0	0	0	7997	246	9	5	1406	5	KBTBD6	13	41706026	Missense_Mutation	SNP	A	TCGA-CJ-5675-01A-11D-1534-10		41706026	73463852	46	20701											
DIS3	22894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	73336063	73336063	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcataaggaaaaaatacctTctaatgggtgaagtaaaatg	18	11	8	4	0	2	1	1	1	1	0	2	2	2	2	1	2	1	1	1	2	9	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	73336063	T	G	73336063	3	3	410	1	0	0	0	0	1	0	0	0	4535	1780	62	5	556	5	DIS3	13	73336063	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	31630037	73336063	41833815	47	20702											
TJP1	7082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	30064288	30064288	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttgcatttttcccactTttccttagttgctgaacagc	7	19	5	10	0	0	1	0	1	0	0	2	1	2	1	2	0	4	3	2	0	2	8	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	30064288	T	G	30064288	3	3	410	1	0	0	0	0	1	0	0	0	15928	1838	64	5	5055	5	TJP1	15	30064288	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10		30064288	72467104	48	20703											
SRRM2	23524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2809006	2809006	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcagagagcagctctcCtcgacgggagagaaagaaaa	15	4	13	9	2	2	3	1	0	1	3	4	7	2	4	1	2	2	2	1	2	3	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	2809006	C	T	2809006	3	4	410	1	0	0	0	0	1	0	0	0	15170	681	24	2	632	2	SRRM2	16	2809006	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10		2809006	87545747	49	20704											
CDH11	1009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	64981780	64981780	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcgctggccggagcccaGgtctaggcatgtactgatac	7	8	15	11	2	1	1	0	1	1	0	1	2	1	2	2	5	3	3	2	5	3	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	64981780	G	A	64981780	3	1	410	1	0	0	0	0	1	0	0	0	3097	1000	35	2	277	2	CDH11	16	64981780	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	62172774	64981780	25372973	50	20705											
ZFHX3	463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	72993014	72993014	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggtgttgaaagtttttgTtttttggttccagaaaactt	10	18	10	3	0	0	2	0	1	0	1	1	2	1	2	1	2	1	4	1	2	4	8	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	72993014	T	A	72993014	3	1	410	1	0	0	0	0	1	0	0	0	17633	1725	60	5	10116	5	ZFHX3	16	72993014	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	8011234	72993014	17361739	51	20706											
NT5M	56953	broad.mit.edu	37	chr17	17250185	17250185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaccagcacctgcagcTgcagcccccccgccgcaggc	8	2	9	22	2	0	0	0	0	0	0	0	0	0	0	7	1	6	5	7	1	1	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	17250185	C	C	17250185	3	2	410	1	0	0	0	0	1	0	0	0	10694	1580	55	3	629	3	NT5M	17	17250185	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10		17250185	63945025	52	20707											
TLCD1	116238	broad.mit.edu;hgsc.bcm.edu	37	chr17	27052361	27052361	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tattcccaagaggctcgcgtCtgtccgctagccacgatgtc	7	10	10	14	4	1	1	0	0	1	1	5	2	3	1	3	1	1	2	3	1	3	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		G	27052361	C	G	27052361	3	3	410	1	0	0	0	0	1	0	0	0	15936	912	32	4	430	4	TLCD1	17	27052361	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	9802176	27052361	54142849	53	20708											
LHX1	3975	hgsc.bcm.edu;ucsc.edu	37	chr17	35295520	35295520	+	Frame_Shift_Del	DEL	G	G	-																															tcactgtgccggctgcaaaaGgcccatcctggaccgctttc																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	35295520	G	-	35295520	7	5	410	1	0	1	0	1	0	0	0	0	8770	1000	35	0	28	0	LHX1	17	35295520	Frame_Shift_Del	DEL	G	TCGA-CJ-5675-01A-11D-1534-10	8243159	35295520	45899690	54	20709											
NMT1	4836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	43173564	43173564	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcttatttctttacagctAaaagaactgtacaccctcct	11	14	4	12	0	1	1	0	0	1	1	2	1	2	1	2	0	5	3	2	0	6	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	43173564	A	C	43173564	2	2	410	1	0	0	0	0	0	0	0	1	10503	349	13	5		5	NMT1	17	43173564	Silent	SNP	A	TCGA-CJ-5675-01A-11D-1534-10	7878044	43173564	38021646	55	20710											
FBF1	85302	hgsc.bcm.edu;ucsc.edu	37	chr17	73927360	73927360	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgctgaagacatcatcacCcaggagggacctgcaaaggg	12	5	14	10	0	2	2	2	1	0	1	2	4	2	4	2	4	2	2	2	4	2	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	73927360	C	A	73927360	3	1	410	1	0	0	0	0	1	0	0	0	5695	623	22	4	3365	4	FBF1	17	73927360	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	30753796	73927360	7267850	56	20711											
CABLES1	91768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	20814600	20814600	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggacggaggaagacaaTcaactggtgcagtgagtttg	12	9	15	5	1	1	2	1	1	0	1	1	5	1	5	0	4	2	3	0	4	3	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	20814600	T	C	20814600	3	2	410	1	0	0	0	0	1	0	0	0	2529	1435	50	3	1189	3	CABLES1	18	20814600	Missense_Mutation	SNP	T	TCGA-CJ-5675-01A-11D-1534-10		20814600	57262648	57	20712											
ZNF407	55628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72346773	72346773	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaagccctgtgctcgtTgtgacaagaataaccagaga	13	8	11	9	1	0	4	0	2	0	2	1	5	0	4	2	0	3	3	2	0	4	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	72346773	T	C	72346773	2	2	410	1	0	0	0	0	0	0	0	1	17886	1799	63	3		3	ZNF407	18	72346773	Silent	SNP	T	TCGA-CJ-5675-01A-11D-1534-10	51532173	72346773	5730475	58	20713											
ZNF763	284390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12089265	12089265	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaaaccctatgcttgtaaaGaatgtggaaaaacctttatt	16	12	7	6	0	0	2	0	0	0	2	0	3	0	3	2	1	3	2	2	1	8	6	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	12089265	G	A	12089265	3	1	410	1	0	0	0	0	1	0	0	0	18136	943	33	2	549	2	ZNF763	19	12089265	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		12089265	47039718	59	20714											
CC2D1A	54862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14034594	14034594	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccccacgcccaccgcccGctttgagcaaaggaccttca	8	7	7	19	3	2	1	1	1	1	0	3	2	2	2	6	1	1	2	6	1	1	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	14034594	G	A	14034594	3	1	410	1	0	0	0	0	1	0	0	0	2726	1087	38	1	1976	1	CC2D1A	19	14034594	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	1945329	14034594	45094389	60	20715											
FCGBP	8857	broad.mit.edu;hgsc.bcm.edu	37	chr19	40376809	40376809	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtggcaggaggacagtggCcctgtggggctggagaggag	7	7	21	6	0	0	1	0	0	0	1	0	5	0	4	1	8	0	2	1	8	0	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	40376809	C	T	40376809	2	4	410	1	0	0	0	0	0	0	0	1	5778	726	26	2		2	FCGBP	19	40376809	Silent	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	26342215	40376809	18752174	61	20716											
LILRA6	79168	broad.mit.edu	37	chr19	54744735	54744735	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgttcagggggtcgctGggggccgaccactcggagga	7	6	19	9	3	1	0	1	0	0	0	3	4	1	3	2	7	0	2	2	7	0	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	54744735	A	A	54744735	2	1	410	1	0	0	0	0	0	0	0	1	8789	1335	47	2		2	LILRA6	19	54744735	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	14367926	54744735	4384248	62	20717											
ZNF814	730051	broad.mit.edu;hgsc.bcm.edu	37	chr19	58386268	58386268	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgactcccctgacacatGcaacttacacctctttgcaa	12	10	5	14	0	1	3	0	2	1	1	2	3	2	3	3	0	4	2	3	0	3	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	58386268	G	T	58386268	3	4	410	1	0	0	0	0	1	0	0	0	18175	1319	46	4	2081	4	ZNF814	19	58386268	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	3641533	58386268	742715	63	20718											
ANGPT4	51378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	896633	896633	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacttccccaggtgcagtggGttggccagtgattctctctg	6	12	12	11	0	2	1	0	1	2	0	4	1	3	1	3	3	2	2	3	3	1	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	896633	G	A	896633	2	1	410	1	0	0	0	0	0	0	0	1	612	1252	44	2		2	ANGPT4	20	896633	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		896633	62128887	64	20719											
C20orf194	25943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3278767	3278767	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatgaactgggaggtgaGgaagcaatgagcttttgaag	14	8	16	3	0	0	4	0	4	0	0	0	7	0	7	0	4	3	2	0	4	5	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		C	3278767	G	C	3278767	3	2	410	1	0	0	0	0	1	0	0	0	2099	1000	35	4	1759	4	C20orf194	20	3278767	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	2382134	3278767	59746753	65	20720											
GGTLC1	92086	broad.mit.edu;hgsc.bcm.edu	37	chr20	23966339	23966339	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccactgtcgtgacgttggGcagaagctggttgtgcagcc	6	10	14	11	2	0	2	0	1	0	1	2	2	1	2	2	2	3	5	2	2	1	2	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	23966339	G	A	23966339	3	1	410	1	0	0	0	0	1	0	0	0	6365	1203	42	2	189	2	GGTLC1	20	23966339	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	20687572	23966339	39059181	66	20721											
SNX21	90203	broad.mit.edu	37	chr20	44463023	44463037	+	In_Frame_Del	DEL	GACGAGGACGACGAG	-	-																															gcttcaccagcgccgaggacGacgaggacgacgaggacgag																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	GACGAGGACGACGAG	GACGAGGACGACGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	44463037	-	-	44463023	7	5	410	1	0	1	0	1	0	0	0	0	14895	1058	37	0	211	0	SNX21	20	44463023	In_Frame_Del	DEL	GACGAGGACGACGAG	TCGA-CJ-5675-01A-11D-1534-10	20496684	44463023	18562497	67	20722											
NCOA5	57727	broad.mit.edu;hgsc.bcm.edu	37	chr20	44692013	44692013	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcaccaggcagagagtcgGtgctgctcctcatcagccgc	7	7	12	15	2	3	1	3	0	0	1	5	2	4	1	3	2	3	4	3	2	0	0	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	44692013	G	A	44692013	3	1	410	1	0	0	0	0	1	0	0	0	10232	1261	44	2	611	2	NCOA5	20	44692013	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	228990	44692013	18333507	68	20723											
ADAMTS5	11096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	28337626	28337626	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcccgagtaaacaggataGctgcatcgtagtgctcctca	10	9	9	13	2	1	0	1	0	0	0	4	2	3	1	3	1	4	5	3	1	4	3	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	28337626	G	A	28337626	3	1	410	1	0	0	0	0	1	0	0	0	269	971	34	2	1739	2	ADAMTS5	21	28337626	Missense_Mutation	SNP	G	TCGA-CJ-5675-01A-11D-1534-10		28337626	19792269	69	20724											
PPP2R3B	28227	hgsc.bcm.edu;ucsc.edu	37	chrX	322172	322172	+	Frame_Shift_Del	DEL	C	C	-																															gcccatgtcatccatggtggCcctctcgtgggggaaccggg																								novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		-	322172	C	-	322172	7	5	410	1	0	1	0	1	0	0	0	0	12391	739	26	0	1297	0	PPP2R3B	23	322172	Frame_Shift_Del	DEL	C	TCGA-CJ-5675-01A-11D-1534-10		322172	154948388	70	20725											
RAI2	10742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	17819773	17819773	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccacgggcagttgcaCggggccctgggtggtcatga	7	6	16	12	2	1	1	1	1	0	0	1	1	1	1	2	5	2	4	2	5	0	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		T	17819773	C	T	17819773	3	4	410	1	0	0	0	0	1	0	0	0	13011	536	19	1	1238	1	RAI2	23	17819773	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11D-1534-10	17497601	17819773	137450787	71	20726											
ITIH5L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	54785277	54785277	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcctgacggacattggagagGatcacactgggggtcgtcac	9	7	15	10	2	2	2	2	1	0	1	3	5	2	4	1	5	0	0	1	5	0	1	novel		TCGA-CJ-5675-01A-11D-1534-10	TCGA-CJ-5675-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	78b7e188-9252-48b6-9e10-04eb8690b879	bfa15fdf-d1f5-4e0c-986f-c888e0cf77da		A	54785277	G	A	54785277	2	1	410	1	0	0	0	0	0	0	0	1	7908	1164	41	2		2	ITIH5L	23	54785277	Silent	SNP	G	TCGA-CJ-5675-01A-11D-1534-10	36965504	54785277	100485283	72	20727											
VHL	7428	hgsc.bcm.edu	37	chr3	10183864	10183864	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgggccgccgcatccacagCtaccgaggtacgggcccggc	7	3	14	17	6	0	0	0	0	0	0	1	1	1	0	5	4	3	3	5	4	2	2	novel		TCGA-CJ-5675-01A-11W-1584-10	TCGA-CJ-5675-11A-01W-1585-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	6b33ad1e-6eed-4a96-b8e3-360f12c58ea7	c5a65315-0c2c-46a1-b8b9-ea114ce12fec		A	10183864	C	A	10183864	3	1	411	1	0	0	0	0	1	0	0	0	17161	796	28	4	335	4	VHL	3	10183864	Missense_Mutation	SNP	C	TCGA-CJ-5675-01A-11W-1584-10		10183864	187838566	1	20728											
CLCN6	1185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11894362	11894362	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagcggctttcttgggcggGgtggtccgcatgaccatcag	5	9	16	11	3	2	1	1	1	1	0	3	1	3	1	2	5	1	3	2	5	0	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	11894362	G	T	11894362	2	4	412	1	0	0	0	0	0	0	0	1	3467	1219	43	4		4	CLCN6	1	11894362	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		11894362	237356259	1	20729											
C1orf94	84970	broad.mit.edu;ucsc.edu	37	chr1	34677961	34677961	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacccccgagaccctcccCtaatggcaggagatggaccg	10	4	10	17	2	0	2	0	0	0	2	1	5	1	3	7	3	1	1	7	3	2	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	34677961	G	G	34677961	3	3	412	1	0	0	0	0	1	0	0	0	2071	680	24	4	1697	4	C1orf94	1	34677961	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	22783599	34677961	214572660	2	20730											
FAF1	11124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	50956260	50956260	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaaaattatgccccacCtcacgttcctcttcttgttc	7	17	3	14	1	4	0	1	0	3	0	6	0	5	0	4	0	1	2	4	0	3	7	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	50956260	C	T	50956260	2	4	412	1	0	0	0	0	0	0	0	1	5369	695	24	2		2	FAF1	1	50956260	Silent	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	16278299	50956260	198294361	3	20731											
SLC44A3	126969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	95360437	95360437	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaggacaagcactcattaAggaatgaggagggaacagaa	18	4	13	6	0	1	2	1	1	0	1	1	6	1	6	0	4	3	2	0	4	5	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	95360437	A	G	95360437	3	3	412	1	0	0	0	0	1	0	0	0	14639	63	3	3	1979	3	SLC44A3	1	95360437	Missense_Mutation	SNP	A	TCGA-CJ-5676-01A-11D-1534-10	44404177	95360437	153890184	4	20732											
AMY2B	280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	104116348	104116348	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggtcagagattgtcgtctgGttggtcttcttgatcttgca	6	16	12	7	1	5	2	1	1	4	1	6	3	5	2	0	3	1	2	0	3	0	5	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	104116348	G	A	104116348	3	1	412	1	0	0	0	0	1	0	0	0	595	1261	44	2	546	2	AMY2B	1	104116348	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	8755911	104116348	145134273	5	20733											
SLC16A1	6566	hgsc.bcm.edu;ucsc.edu	37	chr1	113460278	113460279	+	Frame_Shift_Ins	INS	-	-	T																															gggttaagtccaggaactgaINSttaattgtttggaagactga																								novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	113460279	-	T	113460278	7	5	412	1	0	1	1	0	0	0	0	0	14404	330	12	0	760	0	SLC16A1	1	113460278	Frame_Shift_Ins	INS	-	TCGA-CJ-5676-01A-11D-1534-10	9343930	113460278	135790343	6	20734											
HMGCS2	3158	broad.mit.edu;ucsc.edu	37	chr1	120307055	120307055	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagggagttgatgtccTcttggactgagcagaagccc	9	8	14	10	0	1	3	0	2	1	1	2	5	2	5	2	3	2	3	2	3	1	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	120307055	A	A	120307055	3	1	412	1	0	0	0	0	1	0	0	0	7233	1551	54	5	1259	5	HMGCS2	1	120307055	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	6846777	120307055	128943566	7	20735											
FCGR3B	2215	broad.mit.edu;hgsc.bcm.edu	37	chr1	161599827	161599827	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctttgggagatcttcTgaggagccaagataatgtgg	11	10	13	7	0	2	3	0	1	2	2	2	5	2	4	2	3	2	0	2	3	2	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	161599827	T	G	161599827	5	3	412	1	0	0	0	0	0	0	1	0	5785	1594	55	5	653	5	FCGR3B	1	161599827	Splice_Site	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	41292772	161599827	87650794	8	20736											
RCSD1	92241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	167663406	167663406	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcctggactcaaggctaTggtgtcgccatttcacagcc	8	10	11	12	1	2	0	2	0	0	0	4	2	3	1	3	3	1	1	3	3	2	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	167663406	T	A	167663406	3	1	412	1	0	0	0	0	1	0	0	0	13187	1464	51	5	359	5	RCSD1	1	167663406	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	6063579	167663406	81587215	9	20737											
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186310211	186310211	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctaagagcttcttctcTgcctgcaacataccgctttt	7	16	5	13	1	4	1	0	0	4	1	5	1	4	1	2	0	5	3	2	0	3	7	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	186310211	T	G	186310211	2	3	412	1	0	0	0	0	0	0	0	1	16415	1567	55	5		5	TPR	1	186310211	Silent	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	18646805	186310211	62940410	10	20738											
GREB1	9687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11706655	11706655	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtctccatttccaacgaGcccatggatgtccctgcggg	6	11	10	14	2	1	0	0	0	1	0	4	2	3	1	4	2	3	0	4	2	1	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	11706655	G	A	11706655	2	1	412	1	0	0	0	0	0	0	0	1	6760	962	34	2		2	GREB1	2	11706655	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		11706655	231492718	11	20739											
SDC1	6382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20403727	20403727	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtctcatggtggccaggCtgcatgtccctgtgggggtg	4	10	18	9	0	1	0	1	0	1	0	3	1	2	0	2	6	1	2	2	6	0	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	20403727	C	T	20403727	2	4	412	1	0	0	0	0	0	0	0	1	13953	796	28	2		2	SDC1	2	20403727	Silent	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	8697072	20403727	222795646	12	20740											
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128928844	128928844	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaatccaaactttctgaCatgcctttaaaaaggtaaaa	16	11	5	9	0	1	1	0	1	1	0	2	1	2	1	3	1	3	1	3	1	7	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	128928844	C	A	128928844	3	1	412	1	0	0	0	0	1	0	0	0	16940	477	17	4	3200	4	UGGT1	2	128928844	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	108525117	128928844	114270529	13	20741											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191488	10191488	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgtatactctgaaagagCgatgcctccaggttgtccgg	9	10	12	10	2	1	2	0	1	1	1	3	3	3	2	3	2	3	2	3	2	3	3	rs5030818	bycluster	TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	10191488	C	T	10191488	4	4	412	1	0	0	0	0	0	1	0	0	17161	760	27	1	491	1	VHL	3	10191488	Nonsense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		10191488	187830942	14	20742											
ULK4	54986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	41504634	41504634	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagcatgctgtgcaaaatatCaagcagggaaaagagcagtg	16	6	12	7	0	1	1	1	0	0	1	1	2	1	2	0	1	5	5	0	1	6	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	41504634	C	G	41504634	3	3	412	1	0	0	0	0	1	0	0	0	16977	826	29	4	510	4	ULK4	3	41504634	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	31313146	41504634	156517796	15	20743											
SETD2	29072	broad.mit.edu;ucsc.edu	37	chr3	47127736	47127736	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccgtcacctagctctgccatCcagatccacaacaaagacag	13	6	6	16	1	2	2	1	0	1	2	4	2	4	2	5	0	3	1	5	0	3	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	47127736	T	T	47127736	4	4	412	1	0	0	0	0	0	1	0	0	14133	856	30	2	2392	2	SETD2	3	47127736	Nonsense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	5623102	47127736	150894694	16	20744											
CCDC72	0	hgsc.bcm.edu	37	chr3	48485282	48485282	+	Frame_Shift_Del	DEL	A	A	-																															gtggaattaagaaatctggcAaaaagtaagctgttccttgt																								novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		-	48485282	A	-	48485282	7	5	412	1	0	1	0	1	0	0	0	0	2845	131	5	0	201	0	CCDC72	3	48485282	Frame_Shift_Del	DEL	A	TCGA-CJ-5676-01A-11D-1534-10	1357546	48485282	149537148	17	20745											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52597493	52597493	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaaggtgatggctccttctGaggaacaattggttttctga	10	13	11	7	0	2	3	0	3	2	0	3	4	3	4	1	4	1	2	1	4	3	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	52597493	A	A	52597493	4	1	412	1	0	0	0	0	0	1	0	0	11491	1299	45	2	1036	2	PBRM1	3	52597493	Nonsense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	4112211	52597493	145424937	18	20746											
TNIK	23043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170802027	170802027	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcgctatgaggccgaatgTtggttgggtttacatttacc	7	15	12	7	2	0	1	0	1	0	0	1	2	0	1	2	3	2	4	2	3	4	7	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	170802027	T	A	170802027	3	1	412	1	0	0	0	0	1	0	0	0	16312	1725	60	5	1028	5	TNIK	3	170802027	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	118204534	170802027	27220403	19	20747											
LPHN3	23284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	62800598	62800598	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacctccttcagccacaagCtttgaatgcatggagagacc	12	8	8	13	0	1	2	1	1	0	1	2	4	2	3	4	1	4	2	4	1	3	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	62800598	C	A	62800598	3	1	412	1	0	0	0	0	1	0	0	0	8917	797	28	4	1991	4	LPHN3	4	62800598	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		62800598	128353678	20	20748											
WDFY3	23001	hgsc.bcm.edu;ucsc.edu	37	chr4	85611661	85611662	+	Frame_Shift_Ins	INS	-	-	T																															tctatgttctctcttacctgINStttgagggtgacggtcttgg																								novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	85611662	-	T	85611661	7	5	412	1	0	1	1	0	0	0	0	0	17269	1386	48	0	1251	0	WDFY3	4	85611661	Frame_Shift_Ins	INS	-	TCGA-CJ-5676-01A-11D-1534-10	22811063	85611661	105542615	21	20749											
CLGN	1047	broad.mit.edu;hgsc.bcm.edu	37	chr4	141321553	141321553	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtctgtaaagaacttttTaaggtctacatctggaggtt	10	15	9	7	0	3	1	0	0	3	1	3	2	3	2	1	3	2	2	1	3	5	6	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	141321553	T	C	141321553	3	2	412	1	0	0	0	0	1	0	0	0	3524	1763	61	3	1216	3	CLGN	4	141321553	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	55709892	141321553	49832723	22	20750											
MYO10	4651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	16818168	16818168	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taagttatacatgatggagcCgccatggagctctgtcaagg	11	10	12	8	1	2	1	1	1	1	0	2	3	2	3	2	3	3	2	2	3	4	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	16818168	C	T	16818168	3	4	412	1	0	0	0	0	1	0	0	0	10062	652	23	1	6103	1	MYO10	5	16818168	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		16818168	164097092	23	20751											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33588814	33588814	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgtgggcgggagagcctGctcgtcagagaccatggtct	6	9	16	10	2	3	2	1	0	2	2	4	4	3	2	2	3	2	1	2	3	0	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	33588814	G	T	33588814	3	4	412	1	0	0	0	0	1	0	0	0	257	1328	46	4	2057	4	ADAMTS12	5	33588814	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	16770646	33588814	147326446	24	20752											
F2RL2	2151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	75914170	75914170	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagatggatctggtcctgAagaaaagcatccacagggtc	13	8	11	9	0	1	3	0	1	1	2	4	4	3	4	2	3	2	1	2	3	4	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	75914170	A	C	75914170	3	2	412	1	0	0	0	0	1	0	0	0	5345	246	9	5	766	5	F2RL2	5	75914170	Missense_Mutation	SNP	A	TCGA-CJ-5676-01A-11D-1534-10	42325356	75914170	105001090	25	20753											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	90074272	90074272	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatgacattcccgaggaaaAaagcttctatgagtttcagc	13	10	9	9	2	2	2	1	2	1	0	3	5	3	3	1	1	2	2	1	1	4	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	90074272	A	C	90074272	3	2	412	1	0	0	0	0	1	0	0	0	6721	14	1	5	12945	5	GPR98	5	90074272	Missense_Mutation	SNP	A	TCGA-CJ-5676-01A-11D-1534-10	14160102	90074272	90840988	26	20754											
SRP19	6728	broad.mit.edu	37	chr5	112228273	112228273	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcccagtgacccggtggAaaatggcgatttgtggttta	8	12	13	8	2	1	1	0	1	1	0	1	3	1	2	2	4	1	1	2	4	3	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	112228273	G	G	112228273	3	3	412	1	0	0	0	0	1	0	0	0	15155	261	9	3		3	SRP19	5	112228273	Missense_Mutation	SNP	A	TCGA-CJ-5676-01A-11D-1534-10	22154001	112228273	68686987	27	20755											
DMXL1	1657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118502399	118502399	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctttaaagaatgcttttTctttgctaggcaaacaaaga	14	13	7	7	0	1	2	0	0	1	2	1	2	1	2	0	1	4	4	0	1	6	6	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	118502399	T	G	118502399	3	3	412	1	0	0	0	0	1	0	0	0	4594	1783	62	5	5145	5	DMXL1	5	118502399	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	6274126	118502399	62412861	28	20756											
PAIP2	51247	broad.mit.edu;ucsc.edu	37	chr5	138699475	138699475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacaaccaacatcagccaTgaaagatccaagtcgcagca	17	4	7	13	2	1	2	1	1	0	1	3	3	2	2	3	0	4	2	3	0	4	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	138699475	C	C	138699475	3	2	412	1	0	0	0	0	1	0	0	0	11397	1464	51	3	4	3	PAIP2	5	138699475	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	20197076	138699475	42215785	29	20757											
ZNF300	91975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150276423	150276423	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaccatcaccttgacagacTtttaaaatggagcacaatga	15	10	7	9	0	1	4	1	3	0	1	1	5	1	5	2	1	1	1	2	1	3	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	150276423	T	C	150276423	2	2	412	1	0	0	0	0	0	0	0	1	17830	1606	56	3		3	ZNF300	5	150276423	Silent	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	11576948	150276423	30638837	30	20758			1	31		2	2	31	T		6.589624e-05
ZNF300	91975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150276453	150276453	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcacaatgaaccatccctTgtgactcctttcagtatctt	10	13	6	12	0	2	2	1	2	1	0	4	3	4	2	3	0	2	2	3	0	3	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	150276453	T	C	150276453	2	2	412	1	0	0	0	0	0	0	0	1	17830	1799	63	3		3	ZNF300	5	150276453	Silent	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	30	150276453	30638807	31	20759			1	31		2	2	31	T		6.589624e-05
GEMIN5	25929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154270986	154270986	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggcatgcttttctgaaaaGagctccttaaaagtactcag	12	12	8	9	0	2	2	1	1	1	1	3	2	3	2	1	1	3	4	1	1	5	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	154270986	G	A	154270986	2	1	412	1	0	0	0	0	0	0	0	1	6331	929	33	2		2	GEMIN5	5	154270986	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	3994533	154270986	26644274	32	20760											
ZNF165	7718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28054028	28054028	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacttaatgtcaagttaCagccagtggagaccaaggcc	13	7	10	11	0	1	1	1	0	0	1	1	2	1	1	3	2	3	2	3	2	4	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	28054028	C	G	28054028	3	3	412	1	0	0	0	0	1	0	0	0	17739	479	17	4	496	4	ZNF165	6	28054028	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		28054028	143061039	33	20761											
ABCF1	23	broad.mit.edu	37	chr6	30551602	30551602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggcaagaccacactccTcaagcacattgccaaccgag	14	4	8	15	1	1	1	1	0	0	1	2	2	2	1	4	1	3	2	4	1	4	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	30551602	C	C	30551602	3	2	412	1	0	0	0	0	1	0	0	0	65	1551	54	3	1083	3	ABCF1	6	30551602	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	2497574	30551602	140563465	34	20762											
XPO5	57510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43528033	43528033	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcatctgagttgaagagCgtagaaactaaagagaaaaa	20	7	10	4	1	2	5	1	2	1	3	2	6	2	5	0	0	2	2	0	0	8	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	43528033	C	T	43528033	3	4	412	1	0	0	0	0	1	0	0	0	17446	768	27	1	2599	1	XPO5	6	43528033	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	12976431	43528033	127587034	35	20763											
GPR116	221395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46826546	46826546	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacaccacagcttccacaaCtagacaggctgccaagctca	13	5	6	17	0	1	1	1	0	0	1	2	1	2	1	4	1	4	3	4	1	3	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	46826546	C	T	46826546	3	4	412	1	0	0	0	0	1	0	0	0	6633	565	20	2	966	2	GPR116	6	46826546	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	3298513	46826546	124288521	36	20764											
PKHD1	5314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	51612746	51612746	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgatgtcaagttggctGagtgcggcttcactttgtcc	5	15	12	9	1	2	2	2	2	0	0	3	2	3	2	1	2	1	4	1	2	1	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	51612746	G	T	51612746	4	4	412	1	0	0	0	0	0	1	0	0	11971	1294	45	4	2635	4	PKHD1	6	51612746	Nonsense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	4786200	51612746	119502321	37	20765											
UTRN	7402	broad.mit.edu;ucsc.edu	37	chr6	144811221	144811221	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttagaaaatccaagcagaGatctcagcccatgagctaac	15	9	7	10	0	1	3	1	1	1	2	3	4	2	3	2	0	4	2	2	0	5	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	144811221	A	A	144811221	2	1	412	1	0	0	0	0	0	0	0	1	17102	933	33	2		2	UTRN	6	144811221	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	93198475	144811221	26303846	38	20766											
CDK14	5218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	90356089	90356089	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcctccactggcaaagAgtcacctaaagttaggcggc	11	7	10	13	1	1	1	1	0	0	1	3	2	3	1	4	3	0	2	4	3	4	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	90356089	A	T	90356089	3	4	412	1	0	0	0	0	1	0	0	0	3130	304	11	5	284	5	CDK14	7	90356089	Missense_Mutation	SNP	A	TCGA-CJ-5676-01A-11D-1534-10		90356089	68782574	39	20767											
JAK2	3717	broad.mit.edu;hgsc.bcm.edu	37	chr9	5126444	5126444	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagatggatgcccagatGaggtaacaatttttttttaa	13	13	9	6	0	0	3	0	1	0	2	0	5	0	4	2	2	2	1	2	2	3	6	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	5126444	G	T	5126444	4	4	412	1	0	0	0	0	0	1	0	0	7938	1291	45	4	3375	4	JAK2	9	5126444	Nonsense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		5126444	136086987	40	20768											
C9orf128	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35826098	35826098	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagaggggtcctttgaagGggggtgcttctctgcatcca	7	10	15	9	0	1	2	0	1	1	1	4	2	3	2	2	5	3	3	2	5	1	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	35826098	G	C	35826098	3	2	412	1	0	0	0	0	1	0	0	0	2455	1232	43	4	1171	4	C9orf128	9	35826098	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	30699654	35826098	105387333	41	20769											
C9orf114	51490	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131587284	131587284	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctggttcagtcgcacAgtcacccgaagcccgggctc	6	8	12	15	3	2	0	2	0	0	0	4	1	2	0	2	2	3	5	2	2	1	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	131587284	A	T	131587284	2	4	412	1	0	0	0	0	0	0	0	1	2449	175	7	5		5	C9orf114	9	131587284	Silent	SNP	A	TCGA-CJ-5676-01A-11D-1534-10	95761186	131587284	9626147	42	20770											
OGDHL	55753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	50960187	50960187	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtgctcacctccaggcGccgaatgatctcccgcagag	7	7	11	16	3	2	2	1	1	1	1	4	3	3	2	5	1	1	2	5	1	1	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	50960187	G	A	50960187	3	1	412	1	0	0	0	0	1	0	0	0	10840	1087	38	1	2522	1	OGDHL	10	50960187	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		50960187	84574560	43	20771											
TRIM34	53840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5655129	5655129	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagagaaaacttcctggaaGgcaagaggagattctgaagg	16	6	14	5	0	1	4	0	1	1	3	2	8	2	5	1	4	1	1	1	4	6	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	5655129	G	C	5655129	3	2	412	1	0	0	0	0	1	0	0	0	16507	1014	35	4	525	4	TRIM34	11	5655129	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		5655129	129351387	44	20772											
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu	37	chr11	62290074	62290074	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccaggcatgctgatctTgggcatttttatcttaggca	9	13	11	8	0	2	1	0	1	2	0	2	2	2	1	1	3	2	4	1	3	3	5	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	62290074	T	A	62290074	4	1	412	1	0	0	0	0	0	1	0	0	414	1821	63	5	5977	5	AHNAK	11	62290074	Nonsense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	56634945	62290074	72716442	45	20773											
YAP1	10413	broad.mit.edu	37	chr11	101984953	101984953	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctccagcttctctgcagTtgggagctgtttctcctggg	3	14	11	13	0	3	0	0	0	3	0	6	1	3	1	3	2	3	5	3	2	0	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		C	101984953	C	C	101984953	2	2	412	1	0	0	0	0	0	0	0	1	17465	1722	60	3		3	YAP1	11	101984953	Silent	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	39694879	101984953	33021563	46	20774											
EXPH5	23086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108382795	108382795	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttagctcagaagcatccaTgcctgaggtcaatggctttt	9	13	10	9	0	2	2	2	1	0	1	3	2	3	2	2	2	3	4	2	2	3	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	108382795	T	A	108382795	3	1	412	1	0	0	0	0	1	0	0	0	5322	1464	51	5	2534	5	EXPH5	11	108382795	Missense_Mutation	SNP	T	TCGA-CJ-5676-01A-11D-1534-10	6397842	108382795	26623721	47	20775											
C12orf53	0	broad.mit.edu	37	chr12	6806817	6806817	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacacatgacgtggggcCgaggggcctcccctggcaca	8	4	14	15	3	0	1	0	1	0	0	1	2	1	1	4	5	0	2	4	5	0	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	6806817	T	T	6806817	2	4	412	1	0	0	0	0	0	0	0	1	1698	639	23	1		1	C12orf53	12	6806817	Silent	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		6806817	127045078	48	20776											
PTPN6	5777	hgsc.bcm.edu;ucsc.edu	37	chr12	7064112	7064112	+	Frame_Shift_Del	DEL	C	C	-																															agtgaccagcccaaggctggCccaggctccccgctcagggt																								novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		-	7064112	C	-	7064112	7	5	412	1	0	1	0	1	0	0	0	0	12794	726	26	0	503	0	PTPN6	12	7064112	Frame_Shift_Del	DEL	C	TCGA-CJ-5676-01A-11D-1534-10	257295	7064112	126787783	49	20777											
GLI1	2735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57861144	57861144	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccggaagtcatactcacGcctcgaaaacctgaagacgc	12	6	10	13	4	2	2	2	1	0	1	3	4	2	3	3	1	3	0	3	1	5	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	57861144	G	T	57861144	3	4	412	1	0	0	0	0	1	0	0	0	6437	1087	38	4	971	4	GLI1	12	57861144	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	50797032	57861144	75990751	50	20778											
NAV3	89795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	78401106	78401106	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcttctccttctggttcCtgtaccatgacagtggcaca	8	12	8	13	0	2	1	0	1	2	0	4	1	3	1	3	2	2	4	3	2	2	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	78401106	C	T	78401106	2	4	412	1	0	0	0	0	0	0	0	1	10185	668	24	2		2	NAV3	12	78401106	Silent	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	20539962	78401106	55450789	51	20779											
PIWIL1	9271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130839159	130839159	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaaggcggggccctgggggGacactgccagggcctgccat	7	4	18	12	1	0	1	0	0	0	1	0	2	0	2	4	7	2	0	4	7	1	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	130839159	G	T	130839159	2	4	412	1	0	0	0	0	0	0	0	1	11957	1161	41	4		4	PIWIL1	12	130839159	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	52438053	130839159	3012736	52	20780											
TPP2	7174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103275383	103275383	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctgctctccattgtgacCagtggaggtatcccatttca	9	12	8	12	0	2	1	1	1	1	0	4	2	3	2	4	2	2	2	4	2	2	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	103275383	C	T	103275383	2	4	412	1	0	0	0	0	0	0	0	1	16411	581	21	2		2	TPP2	13	103275383	Silent	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		103275383	11894495	53	20781											
RTN1	6252	broad.mit.edu	37	chr14	60194207	60194207	+	Frame_Shift_Del	DEL	G	-	-																															gctgctggcctcgtggtccaGggggctggggatggttggcg																								novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		-	60194207	-	-	60194207	7	5	412	1	0	1	0	1	0	0	0	0	13727	991	35	0	1228	0	RTN1	14	60194207	Frame_Shift_Del	DEL	G	TCGA-CJ-5676-01A-11D-1534-10		60194207	47155333	54	20782											
INO80	54617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41279359	41279359	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtttcaaggtatctggtttGaagttcccacctgaaatcac	10	13	9	9	0	3	2	2	2	1	0	4	2	4	2	2	3	0	4	2	3	4	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	41279359	G	A	41279359	2	1	412	1	0	0	0	0	0	0	0	1	7746	1281	45	2		2	INO80	15	41279359	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		41279359	61252033	55	20783											
DAPK2	23604	broad.mit.edu;hgsc.bcm.edu	37	chr15	64200798	64200798	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtcactctcacagttcCtctggagaaaaaaaagagaa	16	8	8	9	0	3	2	2	0	2	2	5	4	4	2	1	1	0	1	1	1	5	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	64200798	C	A	64200798	3	1	412	1	0	0	0	0	1	0	0	0	4236	695	24	4	82	4	DAPK2	15	64200798	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	22921439	64200798	38330594	56	20784											
ADAD2	161931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84229248	84229248	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcaccctcaagccccgcGtcttcctgcacctctacatc	7	10	4	20	2	4	0	2	0	2	0	6	0	5	0	5	0	3	1	5	0	2	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	84229248	G	T	84229248	3	4	412	1	0	0	0	0	1	0	0	0	232	1145	40	4	1269	4	ADAD2	16	84229248	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		84229248	6125505	57	20785											
RARA	5914	hgsc.bcm.edu	37	chr17	38510748	38510748	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctcagcgccatctgcctCatctgcggaggtgggcaggg	5	8	15	13	2	4	0	2	0	2	0	4	1	4	1	2	4	4	2	2	4	0	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	38510748	C	T	38510748	2	4	412	1	0	0	0	0	0	0	0	1	13054	813	29	2		2	RARA	17	38510748	Silent	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		38510748	42684462	58	20786											
TBX4	9496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	59557596	59557596	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaacggggcacactcacagCtcgcggagccgcaggacctg	10	3	14	14	4	1	1	1	0	0	1	2	3	1	3	2	4	3	3	2	4	1	0	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	59557596	C	A	59557596	3	1	412	1	0	0	0	0	1	0	0	0	15659	797	28	4	963	4	TBX4	17	59557596	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	21046848	59557596	21637614	59	20787											
TEX2	55852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62228234	62228234	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagtttcttctctatccaGtctgtcacatgaactaaagt	10	15	5	11	0	4	1	1	1	3	0	7	1	6	1	2	0	1	1	2	0	4	4	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	62228234	G	A	62228234	2	1	412	1	0	0	0	0	0	0	0	1	15780	1020	36	2		2	TEX2	17	62228234	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	2670638	62228234	18966976	60	20788											
ST6GALNAC2	10610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74563616	74563616	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctccaaaatgtgtgttaatCaactttgatttcaagaacct	13	15	5	8	0	3	2	2	1	1	1	4	2	3	2	2	0	2	1	2	0	6	3	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	74563616	C	G	74563616	3	3	412	1	0	0	0	0	1	0	0	0	15225	825	29	4	256	4	ST6GALNAC2	17	74563616	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	12335382	74563616	6631594	61	20789											
DEFB129	140881	broad.mit.edu;ucsc.edu	37	chr20	207960	207960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcctatctttgccagcCtcatgctacagtaccaggtg	7	15	7	12	0	2	0	1	0	1	0	3	0	3	0	4	1	5	2	4	1	3	6	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	207960	T	T	207960	3	4	412	1	0	0	0	0	1	0	0	0	4415	681	24	2	33	2	DEFB129	20	207960	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		207960	62817560	62	20790											
TH1L	51497	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	57561823	57561823	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccctaggtattttcaggcagGagggtctccagagaatgtta	10	11	12	8	0	2	1	1	0	1	1	3	3	2	2	2	4	0	3	2	4	4	5	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	57561823	G	A	57561823	3	1	412	1	0	0	0	0	1	0	0	0	15838	1174	41	2	228	2	TH1L	20	57561823	Missense_Mutation	SNP	G	TCGA-CJ-5676-01A-11D-1534-10	57353863	57561823	5463697	63	20791											
POFUT2	23275	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	46689908	46689908	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtggactcccaggtagggGccccctagcgcggagcccag	7	4	16	14	2	0	0	0	0	0	0	1	2	1	2	4	6	2	1	4	6	2	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	46689908	G	A	46689908	2	1	412	1	0	0	0	0	0	0	0	1	12184	1190	42	2		2	POFUT2	21	46689908	Silent	SNP	G	TCGA-CJ-5676-01A-11D-1534-10		46689908	1439987	64	20792											
UPB1	51733	broad.mit.edu;hgsc.bcm.edu	37	chr22	24906778	24906778	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaatttgctgagtcagcAgaggatgggcccaccaccag	12	6	12	11	0	1	3	1	1	0	2	1	4	1	4	3	2	2	2	3	2	1	1	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		G	24906778	A	G	24906778	2	3	412	1	0	0	0	0	0	0	0	1	17001	175	7	3		3	UPB1	22	24906778	Silent	SNP	A	TCGA-CJ-5676-01A-11D-1534-10		24906778	26397788	65	20793											
POLR2F	5435	broad.mit.edu	37	chr22	38349736	38349736	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgcgagtcgtagtgtcgCtgtttgcgggtctccgcgcg	2	10	16	13	9	1	0	0	0	1	0	4	1	1	0	2	1	1	3	2	1	1	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		A	38349736	A	A	38349736	1	1	412	1	0	0	0	0	0	0	0	0	12219	812	28	4		4	POLR2F	22	38349736	Translation_Start_Site	SNP	C	TCGA-CJ-5676-01A-11D-1534-10	13442958	38349736	12954830	66	20794											
KIF4A	24137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	69622483	69622483	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagacagaccaaaacaaCgctgggagaatattgccacc	16	5	10	10	1	0	4	0	1	0	3	0	5	0	4	3	1	3	1	3	1	6	2	novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		T	69622483	C	T	69622483	3	4	412	1	0	0	0	0	1	0	0	0	8303	536	19	1	2643	1	KIF4A	23	69622483	Missense_Mutation	SNP	C	TCGA-CJ-5676-01A-11D-1534-10		69622483	85648077	67	20795											
APOOL	139322	hgsc.bcm.edu;ucsc.edu	37	chrX	84342599	84342602	+	Frame_Shift_Del	DEL	CAAC	CAAC	-																															ttttaatactttatcaggtgCaacccagtttatgcctgacc																								novel		TCGA-CJ-5676-01A-11D-1534-10	TCGA-CJ-5676-11A-01D-1534-10	CAAC	CAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2e8aa293-650b-4661-b130-8b70f0949b86	ae90c0a2-1155-4615-a6f4-effe4dd84861		-	84342602	CAAC	-	84342599	7	5	412	1	0	1	0	1	0	0	0	0	814	710	25	0	756	0	APOOL	23	84342599	Frame_Shift_Del	DEL	CAAC	TCGA-CJ-5676-01A-11D-1534-10	14720116	84342599	70927961	68	20796											
C1orf159	54991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1021312	1021312	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggagcgcttgaggtagaAgaacccagctacggagagga	13	5	15	8	2	0	4	0	1	0	3	0	7	0	6	1	4	4	3	1	4	4	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	1021312	A	C	1021312	3	2	413	1	0	0	0	0	1	0	0	0	2008	72	3	5	221	5	C1orf159	1	1021312	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10		1021312	248229309	1	20797											
CROCC	9696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17264218	17264218	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacaaggacctcactgagAagcttgaggccctggtgagc	11	7	12	11	0	2	3	2	3	0	1	2	5	2	4	2	3	3	1	2	3	3	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	17264218	A	G	17264218	3	3	413	1	0	0	0	0	1	0	0	0	3893	247	9	3	1314	3	CROCC	1	17264218	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	16242906	17264218	231986403	2	20798											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19447690	19447690	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtgacccttaccatctttCtccttttctttttcttcttt	3	22	4	12	0	5	1	0	1	5	0	6	1	5	1	3	1	1	0	3	1	1	8	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	19447690	C	T	19447690	2	4	413	1	0	0	0	0	0	0	0	1	16903	912	32	2		2	UBR4	1	19447690	Silent	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	2183472	19447690	229802931	3	20799											
RPL11	6135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24022342	24022342	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcgcaggacaggctgcAttggggccaaacacagaatc	14	4	13	10	1	0	2	0	0	0	2	1	3	0	3	1	4	3	3	1	4	3	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	24022342	A	T	24022342	3	4	413	1	0	0	0	0	1	0	0	0	13559	217	8	5	469	5	RPL11	1	24022342	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	4574652	24022342	225228279	4	20800											
TRIM62	55223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33612891	33612891	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacttctcgcggaaggtgtAgagccaggacatgtcatcag	11	8	13	9	2	3	1	2	0	1	1	4	4	3	3	1	3	2	1	1	3	3	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	33612891	A	G	33612891	3	3	413	1	0	0	0	0	1	0	0	0	16536	420	15	3	116	3	TRIM62	1	33612891	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	9590549	33612891	215637730	5	20801											
MCOLN3	55283	hgsc.bcm.edu;ucsc.edu	37	chr1	85486913	85486913	+	Frame_Shift_Del	DEL	T	T	-																															tggcaaacatatcatctccaTttatcagagagaaaaggcac																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	85486913	T	-	85486913	7	5	413	1	0	1	0	1	0	0	0	0	9397	1493	52	0	302	0	MCOLN3	1	85486913	Frame_Shift_Del	DEL	T	TCGA-CJ-5677-01A-11D-1534-10	51874022	85486913	163763708	6	20802											
KCNA2	3737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111146166	111146166	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccggtggtagaagtagttGaaattggacacaatgacagg	13	9	13	6	1	0	3	0	2	0	1	1	4	1	4	1	4	0	3	1	4	5	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	111146166	G	C	111146166	3	2	413	1	0	0	0	0	1	0	0	0	8003	1281	45	4	264	4	KCNA2	1	111146166	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	25659253	111146166	138104455	7	20803											
ATP8B2	57198	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154313463	154313463	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggccaggtggagtacatcTtctccgacaagacgggcacc	9	7	13	12	2	2	1	0	0	2	1	3	3	2	2	3	4	1	2	3	4	2	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	154313463	T	G	154313463	3	3	413	1	0	0	0	0	1	0	0	0	1195	1609	56	5	1447	5	ATP8B2	1	154313463	Missense_Mutation	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	43167297	154313463	94937158	8	20804											
PBXIP1	57326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154918597	154918597	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacccttggcctgccctccTtccaccttcctgctggctcc	2	11	6	22	0	0	0	0	0	0	0	4	0	4	0	9	2	2	2	9	2	0	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	154918597	T	G	154918597	3	3	413	1	0	0	0	0	1	0	0	0	11496	1609	56	5	650	5	PBXIP1	1	154918597	Missense_Mutation	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	605134	154918597	94332024	9	20805											
HHIPL2	79802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	222717069	222717069	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccatggggtggtcaacaCgatgttcttgaggtccagga	9	10	14	8	1	2	1	1	1	1	0	4	4	4	2	2	5	1	1	2	5	1	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	222717069	C	T	222717069	3	4	413	1	0	0	0	0	1	0	0	0	7094	536	19	1	1422	1	HHIPL2	1	222717069	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	67798472	222717069	26533552	10	20806											
CHRM3	1131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	240070801	240070801	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctttgtttccaaacatcaGctcctcctggatacacagcc	9	11	6	15	0	1	0	1	0	0	0	4	1	4	1	5	1	4	2	5	1	2	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	240070801	G	C	240070801	3	2	413	1	0	0	0	0	1	0	0	0	3378	971	34	4	52	4	CHRM3	1	240070801	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	17353732	240070801	9179820	11	20807											
CEP170	9859	broad.mit.edu	37	chr1	243328076	243328076	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagtttggaatgtacatgCtcatcagctgaggtaagtgg	10	12	12	7	0	2	1	2	1	0	0	3	2	3	2	1	3	3	5	1	3	3	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	243328076	G	G	243328076	3	3	413	1	0	0	0	0	1	0	0	0	3250	796	28	4	1630	4	CEP170	1	243328076	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	3257275	243328076	5922545	12	20808											
OR2L8	391190	broad.mit.edu;hgsc.bcm.edu	37	chr1	248112511	248112511	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactacttttggcatctatgGcctatgatcgttacattgct	8	16	7	10	1	1	1	0	1	1	0	2	1	1	1	1	2	3	3	1	2	4	7	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	248112511	G	A	248112511	3	1	413	1	0	0	0	0	1	0	0	0	11009	1203	42	2	354	2	OR2L8	1	248112511	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	4784435	248112511	1138110	13	20809											
OR2L13	284521	broad.mit.edu;hgsc.bcm.edu	37	chr1	248263038	248263038	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacctccatggcctacgacCgttatttggccatctgccac	7	11	8	15	2	1	1	0	1	1	0	2	2	2	1	6	2	2	1	6	2	2	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	248263038	C	T	248263038	3	4	413	1	0	0	0	0	1	0	0	0	11006	652	23	1	363	1	OR2L13	1	248263038	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	150527	248263038	987583	14	20810											
LTBP1	4052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	33534505	33534505	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaattggtttttagatatCaatgaatgcttggaggacaa	14	15	9	3	0	1	2	1	1	0	1	1	4	1	4	0	3	1	2	0	3	7	7	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	33534505	C	T	33534505	2	4	413	1	0	0	0	0	0	0	0	1	9073	816	29	2		2	LTBP1	2	33534505	Silent	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		33534505	209664868	15	20811											
AFF3	3899	hgsc.bcm.edu;ucsc.edu	37	chr2	100210705	100210705	+	Frame_Shift_Del	DEL	T	T	-																															gcttgtggggattaactttgTttagccatttatccagctgc																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	100210705	T	-	100210705	7	5	413	1	0	1	0	1	0	0	0	0	358	1725	60	0	2306	0	AFF3	2	100210705	Frame_Shift_Del	DEL	T	TCGA-CJ-5677-01A-11D-1534-10	66676200	100210705	142988668	16	20812											
WDR33	55339	hgsc.bcm.edu;ucsc.edu	37	chr2	128480195	128480195	+	Frame_Shift_Del	DEL	A	A	-																															tgagcaggaatgggttttgcAtaaggaactttcttctgagg																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	128480195	A	-	128480195	7	5	413	1	0	1	0	1	0	0	0	0	17286	224	8	0	2558	0	WDR33	2	128480195	Frame_Shift_Del	DEL	A	TCGA-CJ-5677-01A-11D-1534-10	28269490	128480195	114719178	17	20813											
ALS2CR8	79800	broad.mit.edu;ucsc.edu	37	chr2	203818776	203818776	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttaccaactgtaagagTggatactctagcagacaata	17	9	7	8	0	1	2	0	0	1	2	1	3	1	3	1	1	5	2	1	1	8	5	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	203818776	G	G	203818776	3	3	413	1	0	0	0	0	1	0	0	0	555	1696	59	5	490	5	ALS2CR8	2	203818776	Missense_Mutation	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	75338581	203818776	39380597	18	20814											
ZFAND2B	130617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220073018	220073018	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaagctgtggcttctacaAgcactgtccccagcccaagt	10	8	8	15	0	1	0	0	0	1	0	2	0	2	0	3	1	4	3	3	1	4	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	220073018	A	G	220073018	3	3	413	1	0	0	0	0	1	0	0	0	17627	72	3	3	493	3	ZFAND2B	2	220073018	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	16254242	220073018	23126355	19	20815											
HJURP	55355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234749785	234749785	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctaaatattccagaactAtttccctgaacgtgaaggtc	12	14	6	9	1	1	3	0	2	1	1	4	3	3	3	2	1	2	0	2	1	7	6	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	234749785	A	G	234749785	2	3	413	1	0	0	0	0	0	0	0	1	7189	446	16	3		3	HJURP	2	234749785	Silent	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	14676767	234749785	8449588	20	20816											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191479	10191479	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcccttccagtgtatactCtgaaagagcgatgcctccag	9	11	9	12	1	1	2	0	1	1	1	3	3	3	2	4	0	4	1	4	0	3	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	10191479	C	G	10191479	3	3	413	1	0	0	0	0	1	0	0	0	17161	912	32	4	482	4	VHL	3	10191479	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		10191479	187830951	21	20817											
COL7A1	1294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48626394	48626394	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctggaagcattgaggatCtgcagcctcgacacacgacc	10	7	11	13	3	1	1	0	1	1	0	3	5	1	3	2	2	3	3	2	2	1	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	48626394	C	A	48626394	3	1	413	1	0	0	0	0	1	0	0	0	3704	912	32	4	6889	4	COL7A1	3	48626394	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	38434915	48626394	149396036	22	20818											
KIAA1524	57650	broad.mit.edu;ucsc.edu	37	chr3	108281998	108281998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcaggaaaatctggcagtgGagcagcctccaataatattc	14	8	10	9	0	1	0	0	0	1	0	3	2	2	2	2	3	3	3	2	3	5	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	108281998	A	A	108281998	3	1	413	1	0	0	0	0	1	0	0	0	8239	1174	41	2	1144	2	KIAA1524	3	108281998	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	59655604	108281998	89740432	23	20819											
CDV3	55573	broad.mit.edu;ucsc.edu	37	chr3	133302927	133302927	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggaggtggtggtggaggTatggaaaaatcttcaggtcc	9	10	18	4	0	2	0	1	0	1	0	3	3	3	3	1	9	0	1	1	9	3	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	133302927	C	C	133302927	2	2	413	1	0	0	0	0	0	0	0	1	3181	1625	57	3		3	CDV3	3	133302927	Silent	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	25020929	133302927	64719503	24	20820											
RFC1	5981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39301920	39301920	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtatgtaattttcctggaCgaagaggggtgctattgaat	10	14	13	4	1	0	2	0	1	0	1	1	4	1	3	1	3	1	3	1	3	5	6	rs140065280		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	39301920	C	T	39301920	3	4	413	1	0	0	0	0	1	0	0	0	13246	536	19	1	817	1	RFC1	4	39301920	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		39301920	151852356	25	20821											
PRMT10	90826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	148578942	148578942	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaaaatggacaagacctaCctgcaaggtcctgtacgggg	15	6	11	9	1	0	1	0	0	0	1	1	2	1	2	3	4	3	2	3	4	7	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	148578942	C	T	148578942	5	4	413	1	0	0	0	0	0	0	1	0	12538	521	18	2	1226	2	PRMT10	4	148578942	Splice_Site	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	109277022	148578942	42575334	26	20822											
TKTL2	84076	hgsc.bcm.edu;ucsc.edu	37	chr4	164393620	164393620	+	Frame_Shift_Del	DEL	C	C	-																															tccatcttctccagtggataCcccacagtgggaaccaataa																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	164393620	C	-	164393620	7	5	413	1	0	1	0	1	0	0	0	0	15935	507	18	0	617	0	TKTL2	4	164393620	Frame_Shift_Del	DEL	C	TCGA-CJ-5677-01A-11D-1534-10	15814678	164393620	26760656	27	20823											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32089797	32089797	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaggcaacataatggccagCgatcgcctcgaaagaacaaa	16	4	11	10	3	0	1	0	0	0	1	2	4	0	2	2	3	3	1	2	3	5	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	32089797	C	T	32089797	2	4	413	1	0	0	0	0	0	0	0	1	11701	767	27	1		1	PDZD2	5	32089797	Silent	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		32089797	148825463	28	20824											
PAPD4	167153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	78936786	78936786	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaattcagctgttatttcCacgtatgtttccctattttg	9	18	6	8	1	1	1	1	0	0	1	3	1	3	1	2	0	1	4	2	0	4	8	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	78936786	C	T	78936786	3	4	413	1	0	0	0	0	1	0	0	0	11424	594	21	2	592	2	PAPD4	5	78936786	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	46846989	78936786	101978474	29	20825											
ZNF608	57507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	123983986	123983986	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgcttccagtttaggCatctcagcagccaaactgcc	8	11	7	15	0	2	0	1	0	2	0	4	0	3	0	4	1	5	4	4	1	2	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	123983986	C	T	123983986	3	4	413	1	0	0	0	0	1	0	0	0	18033	710	25	2	2471	2	ZNF608	5	123983986	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	45047200	123983986	56931274	30	20826											
PHAX	51808	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	125939331	125939331	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatgtgcaccagtatcaCattatcgagctgttgaaagt	11	12	9	9	1	1	1	1	1	0	0	2	2	1	1	1	0	3	5	1	0	3	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	125939331	C	T	125939331	3	4	413	1	0	0	0	0	1	0	0	0	11813	478	17	2	172	2	PHAX	5	125939331	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	1955345	125939331	54975929	31	20827											
RGL2	5863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33260019	33260019	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagaggaccttcgccgctGccgcaggaggaaatcgtgtg	9	7	15	10	4	0	1	0	0	0	1	2	4	0	4	3	3	1	3	3	3	2	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	33260019	G	T	33260019	3	4	413	1	0	0	0	0	1	0	0	0	13279	1328	46	4	143	4	RGL2	6	33260019	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10		33260019	137855048	32	20828											
ZNF318	24149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43304999	43304999	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttcaattacctgctccCttggaggggaccttgacact	7	13	9	12	0	2	1	1	1	1	0	3	3	3	3	3	3	2	1	3	3	2	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	43304999	C	T	43304999	3	4	413	1	0	0	0	0	1	0	0	0	17835	681	24	2	106	2	ZNF318	6	43304999	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	10044980	43304999	127810068	33	20829											
CLIC5	53405	hgsc.bcm.edu;ucsc.edu	37	chr6	45882075	45882076	+	Frame_Shift_Del	DEL	TC	TC	-																															cccacaagtgttggcgtcaaTctcctctggtagaggggtgt																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	45882076	TC	-	45882075	7	5	413	1	0	1	0	1	0	0	0	0	3529	1435	50	0	285	0	CLIC5	6	45882075	Frame_Shift_Del	DEL	TC	TCGA-CJ-5677-01A-11D-1534-10	2577076	45882075	125232992	34	20830											
DEFB114	245928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	49928062	49928062	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaatttttcttggtaaGgaacatatgtctatttgctt	11	17	7	6	0	2	0	0	0	2	0	2	1	2	1	0	2	3	3	0	2	5	8	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	49928062	G	T	49928062	2	4	413	1	0	0	0	0	0	0	0	1	4403	987	35	4		4	DEFB114	6	49928062	Silent	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	4045987	49928062	121187005	35	20831											
DST	667	hgsc.bcm.edu;ucsc.edu	37	chr6	56484970	56484971	+	Frame_Shift_Del	DEL	AG	AG	-																															catctgctttatcagcttcaAgagttcttcctcattgtctc																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	AG	AG	AG	-	AG	AG	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	56484971	AG	-	56484970	7	5	413	1	0	1	0	1	0	0	0	0	4783	69	3	0	16541	0	DST	6	56484970	Frame_Shift_Del	DEL	AG	TCGA-CJ-5677-01A-11D-1534-10	6556908	56484970	114630097	36	20832											
FAM135A	57579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	71234370	71234370	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggctacaaatgtttgaaaaGtacagcatcaaatgatctca	17	10	7	7	0	2	2	2	2	1	0	3	2	2	2	0	1	3	4	0	1	6	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	71234370	G	C	71234370	3	2	413	1	0	0	0	0	1	0	0	0	5448	1029	36	4	1711	4	FAM135A	6	71234370	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	14749400	71234370	99880697	37	20833											
MAN1A1	4121	hgsc.bcm.edu;ucsc.edu	37	chr6	119522461	119522461	+	Frame_Shift_Del	DEL	A	A	-																															gggattcagatagttaggatAaaggccttgtggtttttcca																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	119522461	A	-	119522461	7	5	413	1	0	1	0	1	0	0	0	0	9210	362	13	0	817	0	MAN1A1	6	119522461	Frame_Shift_Del	DEL	A	TCGA-CJ-5677-01A-11D-1534-10	48288091	119522461	51592606	38	20834											
THEMIS	387357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	128134336	128134336	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taggtaagagtctgtaatgtCctcctccaactgcagtcctg	9	12	9	11	0	1	1	0	0	1	1	5	1	5	1	4	1	2	3	4	1	4	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	128134336	C	T	128134336	3	4	413	1	0	0	0	0	1	0	0	0	15859	855	30	2	608	2	THEMIS	6	128134336	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	8611875	128134336	42980731	39	20835											
FIGNL1	63979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	50513982	50513982	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacaaactttccaagtatcCctcgggatctactagctcct	11	11	6	13	1	1	0	0	0	1	0	5	2	4	1	3	1	4	2	3	1	6	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	50513982	C	T	50513982	3	4	413	1	0	0	0	0	1	0	0	0	5892	623	22	2	1024	2	FIGNL1	7	50513982	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		50513982	108624681	40	20836											
ZNF479	90827	broad.mit.edu	37	chr7	57188569	57188569	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccatatttgttacatttgaAatgtttatttccagtatatc	11	19	5	6	0	0	1	0	1	0	0	2	1	1	1	2	0	1	3	2	0	6	9	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	57188569	T	T	57188569	3	4	413	1	0	0	0	0	1	0	0	0	17932	14	1	5	1025	5	ZNF479	7	57188569	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	6674587	57188569	101950094	41	20837											
ZNF92	168374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	64864567	64864567	+	Frame_Shift_Del	DEL	T	T	-																															aatcctacaaatgtgaaaaaTgtggcaatgcttttaaccag																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	64864567	T	-	64864567	7	5	413	1	0	1	0	1	0	0	0	0	18200	1464	51	0	1554	0	ZNF92	7	64864567	Frame_Shift_Del	DEL	T	TCGA-CJ-5677-01A-11D-1534-10	7675998	64864567	94274096	42	20838											
WBSCR17	64409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	71142217	71142217	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcgcaacaacaaggcaaaaGacgtctgcttggaccagggg	13	6	12	10	2	1	1	0	0	1	1	2	2	1	2	1	4	3	3	1	4	5	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	71142217	G	C	71142217	3	2	413	1	0	0	0	0	1	0	0	0	17263	942	33	4	1460	4	WBSCR17	7	71142217	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	6277650	71142217	87996446	43	20839											
ANKIB1	54467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91924303	91924303	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacaaaacatgggaaataCaaccaccaaattccgtaaag	22	5	5	9	1	0	0	0	0	0	0	1	1	1	1	3	1	4	1	3	1	10	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	91924303	C	A	91924303	3	1	413	1	0	0	0	0	1	0	0	0	630	478	17	4	13	4	ANKIB1	7	91924303	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	20782086	91924303	67214360	44	20840											
CFTR	1080	broad.mit.edu;hgsc.bcm.edu	37	chr7	117251654	117251654	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggagtccaattttcacTcatcttgttacaagcttaaa	12	13	7	9	0	3	0	2	0	1	0	4	1	4	1	1	2	2	3	1	2	5	5	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	117251654	T	G	117251654	2	3	413	1	0	0	0	0	0	0	0	1	3294	1538	54	5		5	CFTR	7	117251654	Silent	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	25327351	117251654	41887009	45	20841											
RHEB	6009	hgsc.bcm.edu;ucsc.edu	37	chr7	151168454	151168454	+	Intron	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagtgactaaatcatcttaGatttgactttataaaagcta	15	15	5	6	0	3	3	2	2	1	1	3	3	3	3	0	0	1	1	0	0	7	7	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	151168454	G	C	151168454	1	2	413	0	1	0	0	0	0	0	0	0	13330	957	33	4		4	RHEB	7	151168454	Intron	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	33916800	151168454	7970209	46	20842											
FAM160B2	64760	broad.mit.edu;hgsc.bcm.edu	37	chr8	21956566	21956566	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatcacagaggcacacaCggtgagcaggggcgggcgga	10	3	16	12	3	2	2	2	1	0	1	2	3	2	3	1	6	1	2	1	6	0	0	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	21956566	C	G	21956566	3	3	413	1	0	0	0	0	1	0	0	0	5471	550	19	4	902	4	FAM160B2	8	21956566	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		21956566	124407456	47	20843											
TEX15	56154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	30706524	30706524	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaacactgtctttggcatCactgggcataagtgaaatgt	12	13	9	7	0	2	1	1	1	1	0	2	1	2	1	0	2	1	2	0	2	3	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	30706524	C	A	30706524	3	1	413	1	0	0	0	0	1	0	0	0	15778	826	29	4	8375	4	TEX15	8	30706524	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	8749958	30706524	115657498	48	20844											
TLE1	7088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	84205823	84205823	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccagggcgtagcaggCgggggccgaggacgtcagct	7	4	20	10	4	1	0	1	0	0	0	1	3	1	1	2	6	2	3	2	6	1	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	84205823	C	T	84205823	3	4	413	1	0	0	0	0	1	0	0	0	15937	768	27	1	606	1	TLE1	9	84205823	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		84205823	57007608	49	20845											
DNM1	1759	broad.mit.edu	37	chr9	131012518	131012518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgcgcatgtaccacgCactgaaggaggcgctcagca	10	6	13	12	3	1	1	1	1	0	0	1	3	1	2	1	2	4	6	1	2	2	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	131012518	T	T	131012518	3	4	413	1	0	0	0	0	1	0	0	0	4670	710	25	2	2274	2	DNM1	9	131012518	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	46806695	131012518	10200913	50	20846											
NRG3	10718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	84745303	84745303	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccacagccaaatcagaacGagaggcgcaatttgtcttaa	14	8	8	11	2	2	2	1	0	1	2	3	3	3	2	2	1	2	1	2	1	4	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	84745303	G	A	84745303	3	1	413	1	0	0	0	0	1	0	0	0	10649	1058	37	1	2311	1	NRG3	10	84745303	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10		84745303	50789444	51	20847											
FAM178A	55719	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102684302	102684302	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaagaatgttctgggcattCtacagaatccaccaaacaca	16	9	6	10	0	2	2	0	0	2	2	3	2	3	2	2	1	2	2	2	1	6	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	102684302	C	G	102684302	3	3	413	1	0	0	0	0	1	0	0	0	5503	913	32	4	1562	4	FAM178A	10	102684302	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	17938999	102684302	32850445	52	20848											
SPTY2D1	144108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18636132	18636132	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcagctctgtagccagaTaggggaggcttcattccatt	8	11	13	9	0	2	1	1	0	1	1	3	2	3	2	2	4	2	4	2	4	2	5	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	18636132	T	G	18636132	2	3	413	1	0	0	0	0	0	0	0	1	15127	1393	49	5		5	SPTY2D1	11	18636132	Silent	SNP	T	TCGA-CJ-5677-01A-11D-1534-10		18636132	116370384	53	20849											
PTPN5	84867	broad.mit.edu;ucsc.edu	37	chr11	18764949	18764949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccagatgtggccataacCgctgaaccagagcaccccac	12	5	9	15	1	0	4	0	2	0	2	0	4	0	4	6	1	3	2	6	1	2	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	18764949	T	T	18764949	3	4	413	1	0	0	0	0	1	0	0	0	12793	652	23	1	1422	1	PTPN5	11	18764949	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	128817	18764949	116241567	54	20850											
C11orf46	0	hgsc.bcm.edu	37	chr11	30352756	30352756	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacacaagaaattagccaaAaaaaatttgcatgtaattga	21	10	5	5	0	0	2	0	1	0	1	0	2	0	2	1	0	3	2	1	0	9	5	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	30352756	A	C	30352756	3	2	413	1	0	0	0	0	1	0	0	0	1643	11	1	5	263	5	C11orf46	11	30352756	Missense_Mutation	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	11587807	30352756	104653760	55	20851											
FAM55D	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	114442140	114442140	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgttcctatccaaatcCacagcaagctggtgttgcaa	11	12	8	10	0	0	1	0	1	0	0	3	1	3	1	3	1	3	5	3	1	4	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	114442140	C	A	114442140	2	1	413	1	0	0	0	0	0	0	0	1	5587	581	21	4		4	FAM55D	11	114442140	Silent	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	84089384	114442140	20564376	56	20852											
SPA17	53340	hgsc.bcm.edu;ucsc.edu	37	chr11	124564181	124564203	+	Frame_Shift_Del	DEL	TTTCTCCTTTCGATGAAGGACTC	TTTCTCCTTTCGATGAAGGACTC	-																															atttaaagagtctcttacttTttctcctttcgatgaaggac																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	TTTCTCCTTTCGATGAAGGACTC	TTTCTCCTTTCGATGAAGGACTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	124564203	TTTCTCCTTTCGATGAAGGACTC	-	124564181	7	5	413	1	0	1	0	1	0	0	0	0	14973	1856	64	0		0	SPA17	11	124564181	Frame_Shift_Del	DEL	TTTCTCCTTTCGATGAAGGACTC	TCGA-CJ-5677-01A-11D-1534-10	10122041	124564181	10442335	57	20853											
NELL2	4753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	44915937	44915937	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcacagtcacagaccatcCgtcgacacataacgaatcca	14	7	5	15	3	2	1	2	0	1	1	6	3	4	1	3	0	1	0	3	0	2	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	44915937	C	T	44915937	3	4	413	1	0	0	0	0	1	0	0	0	10334	652	23	1	441	1	NELL2	12	44915937	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		44915937	88935958	58	20854											
SUOX	6821	broad.mit.edu;ucsc.edu	37	chr12	56397616	56397616	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcacaaccagtcccatgTgcgtgagttactggctcagt	8	12	10	11	1	2	1	2	1	0	0	3	1	3	1	2	1	3	3	2	1	2	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	56397616	C	C	56397616	3	2	413	1	0	0	0	0	1	0	0	0	15394	1696	59	3	453	3	SUOX	12	56397616	Missense_Mutation	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	11481679	56397616	77454279	59	20855											
INTS6	26512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	51943326	51943326	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggccgttccagtaaactgGctggagaagatgctgaaaat	12	10	12	7	1	0	3	0	1	0	2	1	4	1	3	2	3	2	4	2	3	5	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	51943326	G	T	51943326	3	4	413	1	0	0	0	0	1	0	0	0	7782	1203	42	4	450	4	INTS6	13	51943326	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10		51943326	63226552	60	20856											
HEATR5A	25938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	31817065	31817065	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctatgtagggaccccaaGgccaatgagtgtcctgttct	9	11	10	11	0	1	1	0	1	1	0	2	2	2	2	5	2	1	2	5	2	5	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	31817065	G	A	31817065	2	1	413	1	0	0	0	0	0	0	0	1	7031	987	35	2		2	HEATR5A	14	31817065	Silent	SNP	G	TCGA-CJ-5677-01A-11D-1534-10		31817065	75532475	61	20857											
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7577097	7577097	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcctctgtgcgccggtCtctcccaggacaggcacaaa	7	9	9	16	2	3	0	0	0	3	0	6	1	5	1	3	3	1	1	3	3	1	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	7577097	C	A	7577097	3	1	413	1	0	0	0	0	1	0	0	0	16380	913	32	4	445	4	TP53	17	7577097	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		7577097	73618113	62	20858											
TP53	7157	broad.mit.edu	37	chr17	7577565	7577565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccgcccatgcaggaactgTtacacatgtagttgtagtgg	9	11	12	9	1	0	0	0	0	0	0	0	1	0	1	2	2	4	5	2	2	4	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	7577565	C	C	7577565	3	2	413	1	0	0	0	0	1	0	0	0	16380	1725	60	3	574	3	TP53	17	7577565	Missense_Mutation	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	468	7577565	73617645	63	20859											
NCOR1	9611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15952284	15952284	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagacgtgactcctctcTggggattttccaggcctact	8	11	11	11	1	1	2	0	1	1	1	4	5	3	3	3	3	1	0	3	3	2	3	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	15952284	T	G	15952284	2	3	413	1	0	0	0	0	0	0	0	1	10235	1567	55	5		5	NCOR1	17	15952284	Silent	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	8374719	15952284	65242926	64	20860											
WFIKKN2	124857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48918195	48918195	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcacgtggactgggcatgcCcctgccccaacgtgaccgtg	6	8	12	15	3	1	1	1	1	0	0	1	2	1	2	5	2	3	1	5	2	1	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	48918195	C	G	48918195	3	3	413	1	0	0	0	0	1	0	0	0	17358	623	22	4	1552	4	WFIKKN2	17	48918195	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	32965911	48918195	32277015	65	20861											
C17orf56	0	broad.mit.edu	37	chr17	79204474	79204474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggcgatggcacacagcGccctctgcgggtgaagggag	8	4	19	10	3	1	1	0	1	1	0	1	4	1	3	1	5	2	1	1	5	1	0	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	79204474	A	A	79204474	3	1	413	1	0	0	0	0	1	0	0	0	1864	1087	38	1	686	1	C17orf56	17	79204474	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	30286279	79204474	1990736	66	20862											
TBCD	6904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80765530	80765530	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggacacggtcgtgcggtgGtctgcagccaaggggtaggt	8	7	18	8	3	1	0	0	0	1	0	2	1	1	1	1	7	3	2	1	7	3	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	80765530	G	A	80765530	4	1	413	1	0	0	0	0	0	1	0	0	15632	1270	44	2	1176	2	TBCD	17	80765530	Nonsense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	1561056	80765530	429680	67	20863											
MATK	4145	broad.mit.edu	37	chr19	3783901	3783901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgcggtagtggatgacgtCgcggccaaagctcacgcaca	10	5	13	13	6	1	1	1	1	0	0	2	2	1	2	1	3	1	3	1	3	2	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	3783901	T	T	3783901	3	4	413	1	0	0	0	0	1	0	0	0	9332	884	31	1	1066	1	MATK	19	3783901	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10		3783901	55345082	68	20864											
PIAS4	51588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4013124	4013124	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggagcctgccccacagccGcaccggcccctggaccccct	5	4	10	22	3	0	0	0	0	0	0	1	2	0	2	9	3	3	1	9	3	0	0	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	4013124	G	A	4013124	2	1	413	1	0	0	0	0	0	0	0	1	11878	1074	38	1		1	PIAS4	19	4013124	Silent	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	229223	4013124	55115859	69	20865											
ARHGEF18	23370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7509264	7509264	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgctcggctcaaggagcGccgccaggagtccctggagg	6	5	15	15	4	1	0	1	0	0	0	4	3	2	3	4	5	1	2	4	5	1	0	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	7509264	G	A	7509264	3	1	413	1	0	0	0	0	1	0	0	0	901	1087	38	1	985	1	ARHGEF18	19	7509264	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	3496140	7509264	51619719	70	20866											
COPE	11316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19021795	19021795	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcacctccgactctcgtggGcgaggtagtcagcaaacatg	9	8	11	13	3	3	0	2	0	1	0	5	2	4	0	2	2	2	2	2	2	2	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	19021795	G	A	19021795	3	1	413	1	0	0	0	0	1	0	0	0	3730	1203	42	2	683	2	COPE	19	19021795	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	11512531	19021795	40107188	71	20867											
C19orf47	126526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40829950	40829950	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtctgccttggtctcggcgCcgaggcggtcaaacacagac	7	8	13	13	4	3	1	1	0	2	1	4	2	3	1	2	4	2	0	2	4	1	1	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	40829950	C	T	40829950	3	4	413	1	0	0	0	0	1	0	0	0	1930	739	26	2	539	2	C19orf47	19	40829950	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	21808155	40829950	18299033	72	20868											
SIGLEC6	946	broad.mit.edu	37	chr19	52035065	52035069	+	Splice_Site	DEL	AGAGA	-	-																															agacggaaactttgagacccAgagacctgcccaaagaagag																								novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	AGAGA	AGAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		-	52035069	-	-	52035065	8	5	413	1	0	1	0	1	0	0	1	0	14314	203	7	0		0	SIGLEC6	19	52035065	Splice_Site	DEL	AGAGA	TCGA-CJ-5677-01A-11D-1534-10	11205115	52035065	7093918	73	20869											
ZNF28	7576	broad.mit.edu	37	chr19	53321205	53321205	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataccatctcacctgaggaaGagccatccctgactcctttg	10	10	7	14	0	1	3	1	2	1	1	4	4	3	4	5	1	2	0	5	1	2	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	53321205	C	C	53321205	3	2	413	1	0	0	0	0	1	0	0	0	17812	957	33	4		4	ZNF28	19	53321205	Missense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	1286140	53321205	5807778	74	20870											
NLRP12	91662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54313326	54313326	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccccgccctccccctcGtccaggatatagtacatagc	7	8	7	19	2	0	0	0	0	0	0	3	1	2	1	7	1	3	1	7	1	4	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	54313326	G	A	54313326	2	1	413	1	0	0	0	0	0	0	0	1	10474	1136	40	1		1	NLRP12	19	54313326	Silent	SNP	G	TCGA-CJ-5677-01A-11D-1534-10	992121	54313326	4815657	75	20871											
JPH2	57158	broad.mit.edu	37	chr20	42788569	42788569	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatgtaggtctcggtggtGgtggcgtcgatatcggcctc	4	11	15	11	4	1	0	0	0	1	0	5	1	1	0	2	6	0	1	2	6	2	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	42788569	A	A	42788569	2	1	413	1	0	0	0	0	0	0	0	1	7961	1335	47	2		2	JPH2	20	42788569	Silent	SNP	G	TCGA-CJ-5677-01A-11D-1534-10		42788569	20236951	76	20872											
C22orf31	25770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	29456415	29456415	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctacctctctgatgccTcctgcaggcctcctatgccc	4	12	7	18	1	2	1	0	1	2	0	6	1	4	1	6	1	4	1	6	1	2	2	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	29456415	T	C	29456415	2	2	413	1	0	0	0	0	0	0	0	1	2143	1538	54	3		3	C22orf31	22	29456415	Silent	SNP	T	TCGA-CJ-5677-01A-11D-1534-10		29456415	21848151	77	20873											
SCML1	6322	broad.mit.edu	37	chrX	17763603	17763603	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatacctacttacgatGaagatgacaacactattctt	16	11	5	9	1	1	4	0	2	1	2	1	5	1	4	1	0	4	0	1	0	8	6	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	17763603	T	T	17763603	4	4	413	1	0	0	0	0	0	1	0	0	13911	1291	45	4	67	4	SCML1	23	17763603	Nonsense_Mutation	SNP	G	TCGA-CJ-5677-01A-11D-1534-10		17763603	137506957	78	20874											
PHF16	9767	broad.mit.edu;ucsc.edu	37	chrX	46887397	46887397	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgagacagaggaagggctAggcatagagtatgatgaaga	16	7	15	3	0	0	6	0	3	0	4	0	8	0	7	0	3	0	3	0	3	5	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		C	46887397	C	C	46887397	2	2	413	1	0	0	0	0	0	0	0	1	11827	407	15	5		5	PHF16	23	46887397	Silent	SNP	A	TCGA-CJ-5677-01A-11D-1534-10	29123794	46887397	108383163	79	20875											
AKAP4	8852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	49957227	49957227	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccccatcgttgctatactTagccatgataaggcagagct	10	11	9	11	1	0	2	0	1	0	1	1	2	0	2	3	1	5	4	3	1	4	5	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		A	49957227	T	A	49957227	4	1	413	1	0	0	0	0	0	1	0	0	453	1763	61	5	435	5	AKAP4	23	49957227	Nonsense_Mutation	SNP	T	TCGA-CJ-5677-01A-11D-1534-10	3069830	49957227	105313333	80	20876											
SHROOM4	57477	hgsc.bcm.edu	37	chrX	50350758	50350758	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcctcctcctgttgcttCtgctgctgctgttgctgctt	0	18	8	15	0	1	0	0	0	1	0	5	0	5	0	4	0	6	8	4	0	0	4	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		T	50350758	C	T	50350758	2	4	413	1	0	0	0	0	0	0	0	1	14298	912	32	2		2	SHROOM4	23	50350758	Silent	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	393531	50350758	104919802	81	20877											
USP51	158880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	55514285	55514285	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccaagattgattagccctCtcaggcctacagtatagact	11	11	7	12	0	1	3	1	1	1	2	3	3	2	3	3	1	2	1	3	1	5	5	novel		TCGA-CJ-5677-01A-11D-1534-10	TCGA-CJ-5677-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	70fe0b18-52d1-40f7-b2a3-c808b3009610	d637e1a3-936e-4e97-b95e-bced6aec8594		G	55514285	C	G	55514285	3	3	413	1	0	0	0	0	1	0	0	0	17082	913	32	4	1051	4	USP51	23	55514285	Missense_Mutation	SNP	C	TCGA-CJ-5677-01A-11D-1534-10	5163527	55514285	99756275	82	20878											
PHACTR4	65979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28764918	28764918	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacaagctgatgtctccaGaccggtaaatccagatgcag	12	7	12	10	1	1	3	0	1	1	2	3	4	2	4	3	2	2	3	3	2	3	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	28764918	G	T	28764918	3	4	414	1	0	0	0	0	1	0	0	0	11812	942	33	4	45	4	PHACTR4	1	28764918	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10		28764918	220485703	1	20879											
GBP7	388646	hgsc.bcm.edu;ucsc.edu	37	chr1	89615167	89615168	+	Frame_Shift_Del	DEL	CT	CT	-																															acggctgctgagttctcacaCtgggccagaactgccattgc																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	89615168	CT	-	89615167	7	5	414	1	0	1	0	1	0	0	0	0	6279	564	20	0	976	0	GBP7	1	89615167	Frame_Shift_Del	DEL	CT	TCGA-CJ-5678-01A-11D-1534-10	60850249	89615167	159635454	2	20880											
DDX20	11218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	112309100	112309100	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataatcagctgaaagactCtgaatctacgcctgtggatg	12	11	10	8	1	3	4	1	3	2	1	3	5	3	5	1	1	2	1	1	1	4	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	112309100	C	A	112309100	3	1	414	1	0	0	0	0	1	0	0	0	4348	913	32	4	2096	4	DDX20	1	112309100	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	22693933	112309100	136941521	3	20881											
MUC1	4582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155160211	155160211	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaccgctgacgtctgaGatcgtcaggttatatcgaga	9	10	11	11	4	3	3	2	2	1	2	5	5	3	3	2	1	0	2	2	1	2	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	155160211	G	T	155160211	2	4	414	1	0	0	0	0	0	0	0	1	9970	932	33	4		4	MUC1	1	155160211	Silent	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	42851111	155160211	94090410	4	20882											
LRRC52	440699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	165513950	165513950	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaacaaccctcacctgttAtcgcttcacaagttcacctt	10	11	4	16	1	3	0	3	0	0	0	4	0	3	0	4	0	2	3	4	0	4	4	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	165513950	A	T	165513950	3	4	414	1	0	0	0	0	1	0	0	0	9010	446	16	5	419	5	LRRC52	1	165513950	Missense_Mutation	SNP	A	TCGA-CJ-5678-01A-11D-1534-10	10353739	165513950	83736671	5	20883											
DUSP27	92235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	167097025	167097025	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgtgggtgatggggAtgaggacactgacagtgcca	9	9	18	5	0	0	4	0	4	0	0	0	6	0	6	1	5	1	0	1	5	0	0	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	167097025	A	T	167097025	3	4	414	1	0	0	0	0	1	0	0	0	4824	333	12	5	2675	5	DUSP27	1	167097025	Missense_Mutation	SNP	A	TCGA-CJ-5678-01A-11D-1534-10	1583075	167097025	82153596	6	20884											
GREB1	9687	broad.mit.edu;ucsc.edu	37	chr2	11738892	11738892	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctagacacggaggcaCagacaaaatttaaggctttt	15	9	10	7	1	0	3	0	1	0	2	0	4	0	4	0	3	1	3	0	3	5	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	11738892	A	A	11738892	3	1	414	1	0	0	0	0	1	0	0	0	6760	479	17	4	2401	4	GREB1	2	11738892	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10		11738892	231460481	7	20885											
FAM82A1	0	hgsc.bcm.edu	37	chr2	38179040	38179040	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatttcctctcccgatcaaCaaaatggaattgccaatgat	14	12	5	10	1	2	1	1	1	1	0	4	3	3	2	3	1	2	0	3	1	6	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	38179040	C	T	38179040	4	4	414	1	0	0	0	0	0	1	0	0	5630	479	17	2	1144	2	FAM82A1	2	38179040	Nonsense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	26440148	38179040	205020333	8	20886											
CCDC148	130940	broad.mit.edu;ucsc.edu	37	chr2	159196824	159196824	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaagtgtgatgctgtctgTattttagatctgctctcagc	8	15	10	8	0	3	2	1	1	3	1	4	2	3	2	0	0	3	4	0	0	3	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	159196824	C	C	159196824	3	2	414	1	0	0	0	0	1	0	0	0	2782	1638	57	3	1451	3	CCDC148	2	159196824	Missense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	121017784	159196824	84002549	9	20887											
CASP10	843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202082403	202082403	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaacagatgccccagcCtgctttcacactaaggaaaa	17	6	7	11	0	1	2	1	0	0	2	1	3	1	3	3	1	4	1	3	1	5	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	202082403	C	A	202082403	3	1	414	1	0	0	0	0	1	0	0	0	2669	681	24	4	1542	4	CASP10	2	202082403	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	42885579	202082403	41116970	10	20888											
INO80D	54891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	206870035	206870035	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacgcccattcaatagctccCctaggtctgtgttcacctct	7	13	6	15	1	4	0	2	0	2	0	5	0	5	0	4	1	2	2	4	1	4	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	206870035	C	G	206870035	3	3	414	1	0	0	0	0	1	0	0	0	7749	623	22	4	946	4	INO80D	2	206870035	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	4787632	206870035	36329338	11	20889											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47164730	47164730	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgccttgagtatgtcttctTatactcttcttctgagtcag	7	17	7	10	1	6	2	1	2	5	0	6	2	6	2	1	0	1	1	1	0	3	7	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	47164730	T	A	47164730	4	1	414	1	0	0	0	0	0	1	0	0	14133	1763	61	5	6374	5	SETD2	3	47164730	Nonsense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10		47164730	150857700	12	20890											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52620517	52620518	+	Frame_Shift_Ins	INS	-	-	C																															ctcatcatcacctttatctgINScatttgcaaatacagaggcc																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	-	-	-	C	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	52620518	-	C	52620517	7	5	414	1	0	1	1	0	0	0	0	0	11491	1319	46	0	1633	0	PBRM1	3	52620517	Frame_Shift_Ins	INS	-	TCGA-CJ-5678-01A-11D-1534-10	5455787	52620517	145401913	13	20891											
NR1I2	8856	broad.mit.edu	37	chr3	119528962	119528962	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttccggaagggcgcctgCgagatcacccggaagacccg	8	4	13	16	5	1	2	1	0	0	2	2	5	2	4	5	3	1	0	5	3	2	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	119528962	A	A	119528962	4	1	414	1	0	0	0	0	0	1	0	0	10620	776	27	4	379	4	NR1I2	3	119528962	Nonsense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	66908445	119528962	78493468	14	20892											
UBA5	79876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132387762	132387762	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagttcaagcagcagaacAtactctgaggtaaatggaat	17	9	9	6	0	2	2	1	1	1	1	2	3	2	3	0	2	4	4	0	2	8	4	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	132387762	A	G	132387762	3	3	414	1	0	0	0	0	1	0	0	0	16829	217	8	3	412	3	UBA5	3	132387762	Missense_Mutation	SNP	A	TCGA-CJ-5678-01A-11D-1534-10	12858800	132387762	65634668	15	20893											
CORIN	10699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47788855	47788855	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggttataaattgtatttGtaagaataacatcggaccct	13	15	7	6	1	1	1	0	0	1	1	2	2	1	2	1	2	1	3	1	2	7	7	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	47788855	G	T	47788855	3	4	414	1	0	0	0	0	1	0	0	0	3752	1377	48	4	2912	4	CORIN	4	47788855	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10		47788855	143365421	16	20894											
C4orf33	132321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	130023911	130023911	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagccccacttggagaacCaggaaaacctttcaatgaac	14	7	7	13	0	1	2	1	1	0	1	2	4	2	3	5	2	4	0	5	2	5	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	130023911	C	G	130023911	3	3	414	1	0	0	0	0	1	0	0	0	2263	594	21	4	148	4	C4orf33	4	130023911	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	82235056	130023911	61130365	17	20895											
NSUN2	54888	hgsc.bcm.edu;ucsc.edu	37	chr5	6620322	6620322	+	Frame_Shift_Del	DEL	C	C	-																															ggaggcatcatggttgaccaCcatgatgcaggggctgctca																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	6620322	C	-	6620322	7	5	414	1	0	1	0	1	0	0	0	0	10678	507	18	0	1643	0	NSUN2	5	6620322	Frame_Shift_Del	DEL	C	TCGA-CJ-5678-01A-11D-1534-10		6620322	174294938	18	20896											
CARD6	84674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	40843790	40843790	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagcctttcattggaggagGaacaggagaaaagtatagaa	16	7	12	6	0	1	2	1	0	0	2	1	6	1	5	2	4	2	1	2	4	6	4	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	40843790	G	A	40843790	3	1	414	1	0	0	0	0	1	0	0	0	2650	1175	41	2	826	2	CARD6	5	40843790	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	34223468	40843790	140071470	19	20897											
YTHDC2	64848	hgsc.bcm.edu	37	chr5	112899158	112899165	+	Frame_Shift_Del	DEL	TAATTGTA	TAATTGTA	-																															tcctgaacctccaccagcttTaattgtaagaaatgctgtac																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	TAATTGTA	TAATTGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	112899165	TAATTGTA	-	112899158	7	5	414	1	0	1	0	1	0	0	0	0	17496	1764	61	0	2485	0	YTHDC2	5	112899158	Frame_Shift_Del	DEL	TAATTGTA	TCGA-CJ-5678-01A-11D-1534-10	72055368	112899158	68016102	20	20898											
ABLIM3	22885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	148629402	148629402	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtcgcactacctggctgAcagtggtaagttctacctgc	7	11	11	12	2	1	1	0	1	1	0	3	1	1	1	2	3	3	4	2	3	3	4	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	148629402	A	C	148629402	3	2	414	1	0	0	0	0	1	0	0	0	96	275	10	5	1794	5	ABLIM3	5	148629402	Missense_Mutation	SNP	A	TCGA-CJ-5678-01A-11D-1534-10	35730244	148629402	32285858	21	20899											
RASGEF1C	255426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179538533	179538533	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaagggacactccacttgTttccaggtgatgaactcccc	9	10	9	13	1	0	2	0	2	0	0	4	4	3	3	4	2	1	1	4	2	2	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	179538533	T	C	179538533	2	2	414	1	0	0	0	0	0	0	0	1	13073	1722	60	3		3	RASGEF1C	5	179538533	Silent	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	30909131	179538533	1376727	22	20900											
DSP	1832	broad.mit.edu;hgsc.bcm.edu	37	chr6	7583787	7583787	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctatcactggttttgatGatccattttcaggcaagaca	12	13	8	8	0	2	3	2	2	0	1	3	3	3	3	1	2	1	3	1	2	3	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	7583787	G	T	7583787	3	4	414	1	0	0	0	0	1	0	0	0	4781	1290	45	4	6386	4	DSP	6	7583787	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10		7583787	163531280	23	20901											
ZKSCAN3	80317	broad.mit.edu;hgsc.bcm.edu	37	chr6	28333631	28333631	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaacccacactggggagAagccctatgagtgtgatgac	13	6	13	9	0	0	5	0	3	0	2	0	7	0	5	2	2	2	0	2	2	3	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	28333631	A	G	28333631	3	3	414	1	0	0	0	0	1	0	0	0	17687	247	9	3	1204	3	ZKSCAN3	6	28333631	Missense_Mutation	SNP	A	TCGA-CJ-5678-01A-11D-1534-10	20749844	28333631	142781436	24	20902											
PRICKLE4	29964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	41752690	41752690	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggagcgctactgcctggcCcttggggaggaggagcgggc	6	5	19	11	2	0	0	0	0	0	0	0	4	0	4	2	7	4	1	2	7	1	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	41752690	C	T	41752690	2	4	414	1	0	0	0	0	0	0	0	1	12491	610	22	2		2	PRICKLE4	6	41752690	Silent	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	13419059	41752690	129362377	25	20903											
ZNF451	26036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	57013144	57013144	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaggaaaactgtggtttcGctgcagtttatgttcggcaa	11	13	11	6	2	0	0	0	0	0	0	2	1	0	1	0	3	2	6	0	3	6	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	57013144	G	A	57013144	3	1	414	1	0	0	0	0	1	0	0	0	17921	1087	38	1	2299	1	ZNF451	6	57013144	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	15260454	57013144	114101923	26	20904											
C6orf58	352999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	127902329	127902329	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacctctttaccttagtaTttgcagtcaccttttagtaa	9	18	5	9	0	2	1	1	1	1	0	2	1	2	1	3	0	2	3	3	0	5	9	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	127902329	T	G	127902329	4	3	414	1	0	0	0	0	0	1	0	0	2367	1500	52	5	590	5	C6orf58	6	127902329	Nonsense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	70889185	127902329	43212738	27	20905											
GRM1	2911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146720336	146720336	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttagtgtgcaactaaccctgGtggtaaccctgatcatcatg	10	12	9	10	0	2	1	2	1	0	0	2	1	2	1	2	2	4	2	2	2	4	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	146720336	G	T	146720336	3	4	414	1	0	0	0	0	1	0	0	0	6796	1261	44	4	2187	4	GRM1	6	146720336	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	18818007	146720336	24394731	28	20906											
ESR1	2099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152382174	152382174	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggagatcttcgacatgctGctggctacatcatctcggtt	7	13	11	10	2	3	1	1	0	2	1	5	3	3	1	0	3	3	4	0	3	1	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	152382174	G	T	152382174	2	4	414	1	0	0	0	0	0	0	0	1	5256	1306	46	4		4	ESR1	6	152382174	Silent	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	5661838	152382174	18732893	29	20907											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152473119	152473120	+	Frame_Shift_Del	DEL	AC	AC	-																															gtctgcgcaagatggaggtgAcacgcttttgcaggttgtcc																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	152473120	AC	-	152473119	7	5	414	1	0	1	0	1	0	0	0	0	15444	275	10	0	2231	0	SYNE1	6	152473119	Frame_Shift_Del	DEL	AC	TCGA-CJ-5678-01A-11D-1534-10	90945	152473119	18641948	30	20908											
TNRC18	84629	broad.mit.edu	37	chr7	5352533	5352533	+	Frame_Shift_Del	DEL	G	-	-																															gaagaagaggaggaagaggaGgaggaggaggaggatgagga																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	5352533	-	-	5352533	7	5	414	1	0	1	0	1	0	0	0	0	16338	987	35	0	933	0	TNRC18	7	5352533	Frame_Shift_Del	DEL	G	TCGA-CJ-5678-01A-11D-1534-10		5352533	153786130	31	20909											
MLL3	58508	broad.mit.edu	37	chr7	151962258	151962258	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgatctaagaggtctcccGggctgtcgcacactgcacag	9	8	11	13	2	2	2	0	1	2	1	4	2	2	2	1	2	1	3	1	2	1	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	151962258	C	C	151962258	3	2	414	1	0	0	0	0	1	0	0	0	9622	1116	39	4	13894	4	MLL3	7	151962258	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	146609725	151962258	7176405	32	20910											
PPP2CB	5516	broad.mit.edu;ucsc.edu	37	chr8	30651536	30651536	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagccagcaccacgtggtGaaataccccatccaccacga	12	6	8	15	2	0	1	0	1	0	0	1	2	1	1	6	1	3	2	6	1	3	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	30651536	T	T	30651536	4	4	414	1	0	0	0	0	0	1	0	0	12383	1294	45	4	306	4	PPP2CB	8	30651536	Nonsense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10		30651536	115712486	33	20911											
UBR5	51366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	103297526	103297526	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaatccataatactgaccAtccagttccaagtgggaata	15	10	7	9	0	0	2	0	1	0	1	3	3	3	3	4	1	1	1	4	1	7	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	103297526	A	G	103297526	3	3	414	1	0	0	0	0	1	0	0	0	16904	217	8	3	2954	3	UBR5	8	103297526	Missense_Mutation	SNP	A	TCGA-CJ-5678-01A-11D-1534-10	72645990	103297526	43066496	34	20912											
TRPM3	80036	hgsc.bcm.edu;ucsc.edu	37	chr9	73150983	73150984	+	Frame_Shift_Del	DEL	TC	TC	-																															ttgcttctctggaagggattTcgcaggcttgctgtgttccg																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	73150984	TC	-	73150983	7	5	414	1	0	1	0	1	0	0	0	0	16586	1770	62	0	117	0	TRPM3	9	73150983	Frame_Shift_Del	DEL	TC	TCGA-CJ-5678-01A-11D-1534-10		73150983	68062448	35	20913											
ITIH5	80760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7683956	7683956	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcaatgtcctggtcttcaGaagctctgttcagcattctg	8	14	8	11	0	6	1	3	0	3	1	7	1	7	1	1	1	2	3	1	1	2	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	7683956	G	A	7683956	3	1	414	1	0	0	0	0	1	0	0	0	7907	942	33	2	2780	2	ITIH5	10	7683956	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10		7683956	127850791	36	20914											
PPP2R2D	55844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	133748061	133748061	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcagcgtgaacaagaggTcagtaattttcagtccacaa	13	12	8	8	1	3	2	3	1	0	1	4	2	4	2	1	1	2	1	1	1	4	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	133748061	T	G	133748061	5	3	414	1	0	0	0	0	0	0	1	0	12389	1681	58	5	104	5	PPP2R2D	10	133748061	Splice_Site	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	126064105	133748061	1786686	37	20915											
PDDC1	347862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	771046	771046	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggacagtggagctggcAttctggcctgtgaccaggtg	6	8	17	10	1	1	1	0	1	1	0	1	3	1	3	3	5	1	2	3	5	0	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	771046	A	G	771046	2	3	414	1	0	0	0	0	0	0	0	1	11629	214	8	3		3	PDDC1	11	771046	Silent	SNP	A	TCGA-CJ-5678-01A-11D-1534-10		771046	134235470	38	20916											
OR4C12	283093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	50003264	50003264	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcagagtggtcactgaGcgcagatacacaaatataca	15	7	11	8	1	1	3	1	1	0	2	1	3	1	3	0	2	3	2	0	2	4	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	50003264	G	T	50003264	2	4	414	1	0	0	0	0	0	0	0	1	11046	958	34	4		4	OR4C12	11	50003264	Silent	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	49232218	50003264	85003252	39	20917											
GLB1L3	112937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	134188593	134188593	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tattggaatattgggcctcaGaaaacactgtaccttcctgg	11	12	9	9	0	1	1	1	0	0	1	2	2	2	2	3	3	2	1	3	3	6	6	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	134188593	G	A	134188593	2	1	414	1	0	0	0	0	0	0	0	1	6430	933	33	2		2	GLB1L3	11	134188593	Silent	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	84185329	134188593	817923	40	20918											
DNAJC14	85406	hgsc.bcm.edu;ucsc.edu	37	chr12	56221492	56221492	+	Frame_Shift_Del	DEL	T	T	-																															agaaaacgagtaaacagtccTactccacagtaaaacccctg																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	56221492	T	-	56221492	7	5	414	1	0	1	0	1	0	0	0	0	4633	1509	53	0	1181	0	DNAJC14	12	56221492	Frame_Shift_Del	DEL	T	TCGA-CJ-5678-01A-11D-1534-10		56221492	77630403	41	20919											
FMN1	342184	hgsc.bcm.edu;ucsc.edu	37	chr15	33261665	33261668	+	Frame_Shift_Del	DEL	AGTT	AGTT	-																															cccggatatgaaatgcccgaAgttcaaactgtgcctatagg																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	AGTT	AGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	33261668	AGTT	-	33261665	7	5	414	1	0	1	0	1	0	0	0	0	5949	72	3	0	2078	0	FMN1	15	33261665	Frame_Shift_Del	DEL	AGTT	TCGA-CJ-5678-01A-11D-1534-10		33261665	69269727	42	20920											
ZFP106	64397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42742412	42742412	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtctagcaataagccaggGtgtggactggctgcagatgt	11	9	14	7	0	1	1	0	0	1	1	1	2	1	2	1	3	3	3	1	3	4	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	42742412	G	A	42742412	2	1	414	1	0	0	0	0	0	0	0	1	17636	1252	44	2		2	ZFP106	15	42742412	Silent	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	9480747	42742412	59788980	43	20921											
UNKL	64718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1417749	1417749	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgggccagctcagctccgtTtggacttgcactcgaagagg	7	8	13	13	3	1	1	1	0	0	1	3	3	2	2	3	3	3	4	3	3	1	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	1417749	T	C	1417749	3	2	414	1	0	0	0	0	1	0	0	0	17000	1841	64	3	517	3	UNKL	16	1417749	Missense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10		1417749	88937004	44	20922											
C16orf93	90835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30768957	30768957	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgggtcttgatgtaggctCggaggacgtggatgtggcct	5	12	17	7	2	1	1	0	1	1	0	2	4	1	4	1	6	0	2	1	6	1	3	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	30768957	C	T	30768957	3	4	414	1	0	0	0	0	1	0	0	0	1846	884	31	1	163	1	C16orf93	16	30768957	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10	29351208	30768957	59585796	45	20923											
TRIM16	10626	broad.mit.edu	37	chr17	15498178	15498178	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtcaaagaacaggcatttCacagctccctcgtggccact	10	9	9	13	1	2	1	2	0	0	1	4	1	3	1	2	3	2	2	2	3	2	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	15498178	T	T	15498178	2	4	414	1	0	0	0	0	0	0	0	1	16490	813	29	2		2	TRIM16	17	15498178	Silent	SNP	C	TCGA-CJ-5678-01A-11D-1534-10		15498178	65697032	46	20924											
MED1	5469	hgsc.bcm.edu;ucsc.edu	37	chr17	37580984	37580984	+	Frame_Shift_Del	DEL	T	T	-																															gatgcattcatgcccaaagaTcgagaaactggggataggaa																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		-	37580984	T	-	37580984	7	5	414	1	0	1	0	1	0	0	0	0	9425	1422	50	0	4026	0	MED1	17	37580984	Frame_Shift_Del	DEL	T	TCGA-CJ-5678-01A-11D-1534-10	22082806	37580984	43614226	47	20925											
SPPL2B	56928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2353056	2353056	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cagcgaagaaccagccacatCcccctggcctgctgagcagt	10	5	10	16	1	0	2	0	1	0	1	1	3	1	2	5	1	5	2	5	1	2	0	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		G	2353056	C	G	2353056	3	3	414	1	0	0	0	0	1	0	0	0	15090	855	30	4	1706	4	SPPL2B	19	2353056	Missense_Mutation	SNP	C	TCGA-CJ-5678-01A-11D-1534-10		2353056	56775927	48	20926											
CD209	30835	broad.mit.edu;hgsc.bcm.edu	37	chr19	7809904	7809904	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggagtcgtgccagttccGctgggagttagacatgaagt	9	10	15	7	2	0	2	0	1	0	1	2	5	1	4	2	2	1	3	2	2	2	2	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		T	7809904	G	T	7809904	2	4	414	1	0	0	0	0	0	0	0	1	2984	1086	38	4		4	CD209	19	7809904	Silent	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	5456848	7809904	51319079	49	20927											
ZNF83	55769	broad.mit.edu;hgsc.bcm.edu	37	chr19	53117760	53117760	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtagatgtgactgcgggtTtaatccaagctgatttttaa	10	15	11	5	1	0	3	0	2	0	1	1	3	1	3	1	2	2	3	1	2	4	6	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	53117760	T	A	53117760	3	1	414	1	0	0	0	0	1	0	0	0	18182	1841	64	5	1496	5	ZNF83	19	53117760	Missense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	45307856	53117760	6011223	50	20928											
NLRP2	55655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55489152	55489152	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaacgaccacctctagacGtggacgaaatgctggagcgc	13	5	12	11	4	1	2	0	0	1	2	1	6	1	4	2	2	3	1	2	2	4	1	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	55489152	G	A	55489152	3	1	414	1	0	0	0	0	1	0	0	0	10477	1145	40	1	368	1	NLRP2	19	55489152	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10	2371392	55489152	3639831	51	20929											
ZHX3	23051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39831542	39831542	+	Missense_Mutation	SNP	G	G	C																															cattctcctcagccttcttgGtctcctcagcattcactttt																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	39831542	G	C	39831542	3	2	414	1	0	0	0	0	1	0	0	0	17676	1261	44	4	863	4	ZHX3	20	39831542	Missense_Mutation	SNP	G	TCGA-CJ-5678-01A-11D-1534-10		39831542	23193978	52	20930	274	2									
ZHX3	23051	broad.mit.edu;ucsc.edu	37	chr20	39831543	39831543	+	Missense_Mutation	SNP	T	C	C																															attctcctcagccttcttggTctcctcagcattcacttttt																								novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	39831543	C	C	39831543	3	2	414	1	0	0	0	0	1	0	0	0	17676	1667	58	3	864	3	ZHX3	20	39831543	Missense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	1	39831543	23193977	53	20931	274	2									
TP53TG5	27296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44004124	44004124	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcttggacttgagttccTtctcggagcacccgatctcc	6	14	8	13	2	3	1	0	1	3	0	6	4	4	3	3	2	1	2	3	2	0	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		C	44004124	T	C	44004124	3	2	414	1	0	0	0	0	1	0	0	0	16390	1609	56	3	557	3	TP53TG5	20	44004124	Missense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10	4172581	44004124	19021396	54	20932											
DDX3Y	8653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrY	15024911	15024911	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacacggggattaacttTgagaaatatgatgatatacc	16	10	10	5	1	0	3	0	3	0	1	0	6	0	5	1	3	3	0	1	3	6	5	novel		TCGA-CJ-5678-01A-11D-1534-10	TCGA-CJ-5678-11A-01D-1534-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d49759a2-d2a9-48ba-9447-e42c9d3d64c7	1e675a0b-3ea8-47a9-a732-87a7c6fe0dd2		A	15024911	T	A	15024911	3	1	414	1	0	0	0	0	1	0	0	0	4359	1809	63	5	496	5	DDX3Y	24	15024911	Missense_Mutation	SNP	T	TCGA-CJ-5678-01A-11D-1534-10		15024911	44348655	55	20933											
KCNAB2	8514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	6157369	6157369	+	Frame_Shift_Del	DEL	G	G	-																															ggagtcagctccgtgctcctGggggcctccaatgcggacca																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	6157369	G	-	6157369	7	5	415	1	0	1	0	1	0	0	0	0	8010	1335	47	0	1020	0	KCNAB2	1	6157369	Frame_Shift_Del	DEL	G	TCGA-CJ-5679-01A-11D-1534-10		6157369	243093252	1	20934											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11184573	11184573	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaggtttttccgaagaGatgttgggtcattggccaga	9	12	13	7	1	1	3	1	1	0	2	2	5	2	3	3	3	0	2	3	3	1	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	11184573	G	T	11184573	3	4	415	1	0	0	0	0	1	0	0	0	9954	942	33	4	1053	4	MTOR	1	11184573	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	5027204	11184573	238066048	2	20935											
KAZ	0	broad.mit.edu;hgsc.bcm.edu	37	chr1	15428039	15428039	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggctatgtctcctccccagCctgtccaaagctgccgagct	6	10	9	16	1	1	0	0	0	1	0	4	1	3	0	6	1	4	3	6	1	2	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	15428039	C	T	15428039	2	4	415	1	0	0	0	0	0	0	0	1	7988	753	26	2		2	KAZ	1	15428039	Silent	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	4243466	15428039	233822582	3	20936											
TCEA3	6920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	23743879	23743879	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctccttttgggggtccaggGgagtctgaaaacaaaagggt	10	10	14	7	0	2	1	0	1	2	0	4	2	3	2	2	5	1	0	2	5	4	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	23743879	G	A	23743879	2	1	415	1	0	0	0	0	0	0	0	1	15668	1219	43	2		2	TCEA3	1	23743879	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	8315840	23743879	225506742	4	20937											
NASP	4678	hgsc.bcm.edu	37	chr1	46073373	46073373	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaggaggtcaggagaagcagGgagaggtaattgtgagcata	15	6	17	3	0	1	3	1	1	0	2	1	6	1	4	0	5	2	3	0	5	4	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	46073373	G	A	46073373	3	1	415	1	0	0	0	0	1	0	0	0	10172	1233	43	2	889	2	NASP	1	46073373	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	22329494	46073373	203177248	5	20938											
WDR78	79819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67301400	67301400	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacggctaaaaggttaggtgCtccaattgaaaaatccacag	16	8	9	8	1	0	1	0	1	0	0	2	1	2	1	2	3	2	3	2	3	7	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	67301400	C	T	67301400	3	4	415	1	0	0	0	0	1	0	0	0	17327	797	28	2	932	2	WDR78	1	67301400	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	21228027	67301400	181949221	6	20939											
LPHN2	23266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	82456186	82456186	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactataatgacagcgtgcAagttgtggactgtggactaa	12	11	12	6	1	0	2	0	2	0	0	0	4	0	4	0	2	2	2	0	2	4	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	82456186	A	C	82456186	3	2	415	1	0	0	0	0	1	0	0	0	8916	130	5	5	3643	5	LPHN2	1	82456186	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	15154786	82456186	166794435	7	20940											
FMO5	2330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	146672930	146672930	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtcaaagctatagcctgtGgcaaagataacagcatcaat	17	8	8	8	0	2	1	2	0	0	1	2	1	2	1	1	1	4	3	1	1	7	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	146672930	G	A	146672930	2	1	415	1	0	0	0	0	0	0	0	1	5958	1335	47	2		2	FMO5	1	146672930	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	64216744	146672930	102577691	8	20941											
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186303510	186303510	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagctgttggggtagtaGtgggatttgtaacagttgca	8	14	15	4	0	0	0	0	0	0	0	0	1	0	1	0	3	3	8	0	3	4	7	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	186303510	G	C	186303510	3	2	415	1	0	0	0	0	1	0	0	0	16415	1029	36	4	2026	4	TPR	1	186303510	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	39630580	186303510	62947111	9	20942											
FMN2	56776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	240492737	240492737	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcatttgctcaattcgtcGcaaactggaattactacaga	14	11	7	9	2	1	1	1	0	0	1	3	2	1	2	0	1	5	3	0	1	6	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	240492737	G	A	240492737	3	1	415	1	0	0	0	0	1	0	0	0	5950	1087	38	1	4444	1	FMN2	1	240492737	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	54189227	240492737	8757884	10	20943											
TSSC1	7260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	3217939	3217939	+	Missense_Mutation	SNP	T	T	C																															ccacagcctggctcgagcttTcctgtaaatcccacagcagg																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	3217939	T	C	3217939	3	2	415	1	0	0	0	0	1	0	0	0	16665	1783	62	3	686	3	TSSC1	2	3217939	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10		3217939	239981434	11	20944	275	2									
TSSC1	7260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	3217940	3217940	+	Nonsense_Mutation	SNP	C	C	A																															cacagcctggctcgagctttCctgtaaatcccacagcagga																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	3217940	C	A	3217940	4	1	415	1	0	0	0	0	0	1	0	0	16665	864	30	4	687	4	TSSC1	2	3217940	Nonsense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	1	3217940	239981433	12	20945	275	2									
DNAH6	1768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84880607	84880607	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aactatgctagtaaggcatgGtgttatgttagtcgggccaa	11	12	12	6	1	0	0	0	0	0	0	1	0	0	0	1	3	2	5	1	3	7	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	84880607	G	A	84880607	3	1	415	1	0	0	0	0	1	0	0	0	4605	1261	44	2	5373	2	DNAH6	2	84880607	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	81662667	84880607	158318766	13	20946											
DPP10	57628	broad.mit.edu;hgsc.bcm.edu	37	chr2	116510751	116510751	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgtttccaaactagaGaatactatatcactatggtt	14	16	5	6	0	1	1	1	0	0	1	2	2	2	1	1	1	2	2	1	1	8	9	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	116510751	G	T	116510751	4	4	415	1	0	0	0	0	0	1	0	0	4727	956	33	4	1165	4	DPP10	2	116510751	Nonsense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	31630144	116510751	126688622	14	20947											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	168103812	168103812	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcatcaggttgctgtccaGaggaacaaaaatagtcttct	13	12	8	8	0	4	1	2	0	2	1	5	2	5	2	1	2	2	2	1	2	4	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	168103812	G	C	168103812	3	2	415	1	0	0	0	0	1	0	0	0	17429	933	33	4	5940	4	XIRP2	2	168103812	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	51593061	168103812	75095561	15	20948											
ALS2CR12	130540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202172343	202172343	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattttttggtcatcttttTttctgtggaagtgacaggaa	9	18	10	4	0	3	1	1	1	2	0	3	4	3	3	0	3	0	0	0	3	3	6	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	202172343	T	C	202172343	3	2	415	1	0	0	0	0	1	0	0	0	553	1850	64	3	579	3	ALS2CR12	2	202172343	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	34068531	202172343	41027030	16	20949											
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	212426720	212426720	+	Missense_Mutation	SNP	T	T	A																															caacaggcagccatggggcaTaagttgagtaaccagctgga																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	212426720	T	A	212426720	3	1	415	1	0	0	0	0	1	0	0	0	5209	1406	49	5	1567	5	ERBB4	2	212426720	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	10254377	212426720	30772653	17	20950	276	2									
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	212426721	212426721	+	Silent	SNP	A	A	T																															aacaggcagccatggggcatAagttgagtaaccagctggat																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	212426721	A	T	212426721	2	4	415	1	0	0	0	0	0	0	0	1	5209	349	13	5		5	ERBB4	2	212426721	Silent	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	1	212426721	30772652	18	20951	276	2									
WDR69	164781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228754578	228754578	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtatttcagcactgaTgtcagtgcgttagtagaaga	10	13	13	5	1	2	3	2	1	0	2	2	3	2	3	0	1	2	4	0	1	4	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	228754578	T	A	228754578	3	1	415	1	0	0	0	0	1	0	0	0	17318	1461	51	5	130	5	WDR69	2	228754578	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	16327857	228754578	14444795	19	20952											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52584643	52584643	+	Frame_Shift_Del	DEL	A	A	-																															cctgctgccctggaggccccAaaactcccacctgaaagagc																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	52584643	A	-	52584643	7	5	415	1	0	1	0	1	0	0	0	0	11491	131	5	0	386	0	PBRM1	3	52584643	Frame_Shift_Del	DEL	A	TCGA-CJ-5679-01A-11D-1534-10		52584643	145437787	20	20953											
ATXN7	6314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	63981575	63981575	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtaacagcactaactgtCaaaatgccagtagcagtacc	14	8	8	11	0	1	0	1	0	0	0	1	0	1	0	2	1	6	5	2	1	6	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	63981575	C	A	63981575	3	1	415	1	0	0	0	0	1	0	0	0	1215	827	29	4	2183	4	ATXN7	3	63981575	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	11396932	63981575	134040855	21	20954											
RAB43	339122	broad.mit.edu;hgsc.bcm.edu	37	chr3	128813995	128813995	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaaccgctcctggccggcCgtgtcccagatctgcagcta	6	7	12	16	4	1	1	0	0	1	1	3	2	3	2	5	3	3	3	5	3	2	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	128813995	C	A	128813995	2	1	415	1	0	0	0	0	0	0	0	1	12947	639	23	4		4	RAB43	3	128813995	Silent	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	64832420	128813995	69208435	22	20955											
GPR160	26996	broad.mit.edu;hgsc.bcm.edu	37	chr3	169802072	169802072	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcaaattatttcctttacTtatggctttttgcattatcc	9	20	3	9	0	1	0	1	0	0	0	3	0	3	0	2	1	2	2	2	1	5	8	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	169802072	T	C	169802072	2	2	415	1	0	0	0	0	0	0	0	1	6664	1596	56	3		3	GPR160	3	169802072	Silent	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	40988077	169802072	28220358	23	20956											
DCUN1D1	54165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182683307	182683336	+	Frame_Shift_Del	DEL	TCACAAGCAAGCACTCACCTTTGTATCTAT	TCACAAGCAAGCACTCACCTTTGTATCTAT	-																															ggtccaaaatttacttaaagTcacaagcaagcactcacctt																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	TCACAAGCAAGCACTCACCTTTGTATCTAT	TCACAAGCAAGCACTCACCTTTGTATCTAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	182683336	TCACAAGCAAGCACTCACCTTTGTATCTAT	-	182683307	7	5	415	1	0	1	0	1	0	0	0	0	4313	1682	58	0		0	DCUN1D1	3	182683307	Frame_Shift_Del	DEL	TCACAAGCAAGCACTCACCTTTGTATCTAT	TCGA-CJ-5679-01A-11D-1534-10	12881235	182683307	15339123	24	20957											
SENP5	205564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196650309	196650309	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atttgtttaaaaagagtcttCtgttgattcctattcacctg	10	18	6	7	0	3	2	1	1	2	1	4	2	4	2	2	0	0	2	2	0	4	8	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	196650309	C	G	196650309	3	3	415	1	0	0	0	0	1	0	0	0	14051	912	32	4	1931	4	SENP5	3	196650309	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	13967002	196650309	1372121	25	20958											
EGF	1950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	110862256	110862256	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctattgggtggatttagaAagacaacttttgcaaagagt	14	13	10	4	0	1	3	0	0	1	3	1	4	1	4	0	2	2	1	0	2	5	6	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	110862256	A	T	110862256	3	4	415	1	0	0	0	0	1	0	0	0	4962	11	1	5	288	5	EGF	4	110862256	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10		110862256	80292020	26	20959											
MAB21L2	10586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	151504561	151504561	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggctatctctcagcgcgtaAgatccgctcgcgtttccaga	7	10	11	13	5	2	2	1	0	1	2	6	2	4	2	2	1	1	4	2	1	2	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	151504561	A	T	151504561	3	4	415	1	0	0	0	0	1	0	0	0	9142	72	3	5	382	5	MAB21L2	4	151504561	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	40642305	151504561	39649715	27	20960											
FBXO4	26272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41927219	41927219	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtaagagatccaattctGtggagatactttttgttgag	11	15	10	5	0	1	3	0	1	1	2	2	5	2	3	1	1	1	2	1	1	3	6	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	41927219	G	A	41927219	2	1	415	1	0	0	0	0	0	0	0	1	5748	1364	48	2		2	FBXO4	5	41927219	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		41927219	138988041	28	20961											
SEPP1	6414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	42807034	42807035	+	Frame_Shift_Del	DEL	AA	AA	-																															agtcatctttgcttccatttAaaagagtccagacatctgtt																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	42807035	AA	-	42807034	7	5	415	1	0	1	0	1	0	0	0	0	14059	372	13	0	777	0	SEPP1	5	42807034	Frame_Shift_Del	DEL	AA	TCGA-CJ-5679-01A-11D-1534-10	879815	42807034	138108226	29	20962											
MAST4	375449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	66459741	66459741	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagagaagaaagtctatccGaaggctgtggaaaggtcaag	16	6	14	5	1	2	3	1	0	1	3	3	6	3	4	1	3	0	1	1	3	6	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	66459741	G	A	66459741	2	1	415	1	0	0	0	0	0	0	0	1	9327	1045	37	1		1	MAST4	5	66459741	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	23652707	66459741	114455519	30	20963											
SLC30A5	64924	broad.mit.edu	37	chr5	68414420	68414420	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtcagtggctagattgAttgatcctccagaattagac	11	12	11	7	0	1	5	1	2	0	3	3	6	3	6	2	2	0	1	2	2	3	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	68414420	G	G	68414420	3	3	415	1	0	0	0	0	1	0	0	0	14560	333	12	3	1668	3	SLC30A5	5	68414420	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	1954679	68414420	112500840	31	20964											
HSPA9	3313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137895767	137895767	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgccaaaaagatcctgtAcagtctgctgaacctgaaca	13	9	7	12	0	2	3	0	2	2	1	3	3	3	3	3	0	5	2	3	0	5	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	137895767	A	G	137895767	3	3	415	1	0	0	0	0	1	0	0	0	7417	391	14	3	871	3	HSPA9	5	137895767	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	69481347	137895767	43019493	32	20965											
KCTD20	222658	broad.mit.edu;ucsc.edu	37	chr6	36442785	36442785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcttgtagatggcacacGttttgttgtgaatccacaga	9	14	10	8	1	1	3	0	1	1	2	2	3	2	3	1	1	0	5	1	1	2	6	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	36442785	A	A	36442785	3	1	415	1	0	0	0	0	1	0	0	0	8108	1145	40	1	386	1	KCTD20	6	36442785	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		36442785	134672282	33	20966											
FAM83B	222584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54806759	54806759	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccaatgagaacaagtttcGaggatttatgcaaaagtttg	15	11	9	6	1	0	1	0	1	0	1	1	4	0	2	1	1	2	3	1	1	6	4	rs146473058		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	54806759	G	A	54806759	3	1	415	1	0	0	0	0	1	0	0	0	5634	1058	37	1	3004	1	FAM83B	6	54806759	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	18363974	54806759	116308308	34	20967											
FRK	2444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	116288847	116288847	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcccattggtccacggtTttatacgacaaatcaaatgg	12	12	7	10	2	2	0	1	0	1	0	4	1	3	0	2	3	1	1	2	3	4	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	116288847	T	A	116288847	3	1	415	1	0	0	0	0	1	0	0	0	6048	1838	64	5	871	5	FRK	6	116288847	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	61482088	116288847	54826220	35	20968											
C7orf50	84310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	1037413	1037413	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcccctccaggtaggccaGcagggtggagaagtgctcat	9	6	14	12	0	1	1	1	0	0	1	2	2	2	1	4	4	3	3	4	4	2	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	1037413	G	T	1037413	3	4	415	1	0	0	0	0	1	0	0	0	2399	962	34	4	155	4	C7orf50	7	1037413	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		1037413	158101250	36	20969											
IQCE	23288	broad.mit.edu;hgsc.bcm.edu	37	chr7	2629606	2629606	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagatcacacccgccagcCtgccttgcatccagctctgc	7	8	8	18	1	3	1	2	0	1	1	4	1	4	1	5	0	5	2	5	0	0	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	2629606	C	G	2629606	2	3	415	1	0	0	0	0	0	0	0	1	7806	668	24	4		4	IQCE	7	2629606	Silent	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	1592193	2629606	156509057	37	20970											
ISPD	729920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	16445697	16445697	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagacttaccccgtgttcctTagcagctgtgacaactttaa	11	12	7	11	1	0	2	0	1	0	1	1	2	1	2	3	0	4	3	3	0	5	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	16445697	T	C	16445697	3	2	415	1	0	0	0	0	1	0	0	0	7864	1763	61	3	868	3	ISPD	7	16445697	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	13816091	16445697	142692966	38	20971											
ASB4	51666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	95157534	95157534	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaaggtcacctccgtgcgCcctgctgcccagcctgagat	6	8	11	16	2	1	2	1	2	0	1	2	3	2	2	5	1	4	1	5	1	1	0	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	95157534	C	T	95157534	2	4	415	1	0	0	0	0	0	0	0	1	1025	726	26	2		2	ASB4	7	95157534	Silent	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	78711837	95157534	63981129	39	20972											
PILRA	29992	broad.mit.edu;ucsc.edu	37	chr7	99987688	99987688	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgtgctcggaatcatgaTtttgggactgatctgcctcc	7	13	10	11	1	2	2	1	2	1	0	4	4	3	4	2	2	2	1	2	2	1	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	99987688	G	G	99987688	3	3	415	1	0	0	0	0	1	0	0	0	11925	1493	52	5	642	5	PILRA	7	99987688	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	4830154	99987688	59150975	40	20973											
OR2A12	346525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	143792898	143792898	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccagtctggggagggccGcagaaaggccttctctacct	8	8	13	12	1	2	1	0	0	2	1	4	3	3	2	4	4	1	1	4	4	2	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	143792898	G	T	143792898	3	4	415	1	0	0	0	0	1	0	0	0	10975	1087	38	4	700	4	OR2A12	7	143792898	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	43805210	143792898	15345765	41	20974											
SSPO	23145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	149480310	149480310	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagttccaggtggccggcaAgggaagatgcccctctgagg	9	6	15	11	1	1	2	0	1	1	1	2	3	2	3	4	5	1	2	4	5	3	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	149480310	A	C	149480310	2	2	415	1	0	0	0	0	0	0	0	1	15190	72	3	5		5	SSPO	7	149480310	Silent	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	5687412	149480310	9658353	42	20975											
DOCK5	80005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	25189787	25189787	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgacctgttaggcttgttaAattggcgttccaactcccag	8	14	9	10	1	0	1	0	1	0	0	2	1	2	1	3	2	1	4	3	2	4	6	rs185726789	by1000genomes;alternate_allele	TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	25189787	A	T	25189787	3	4	415	1	0	0	0	0	1	0	0	0	4690	14	1	5	1998	5	DOCK5	8	25189787	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10		25189787	121174235	43	20976											
MTDH	92140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	98703400	98703400	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagttggagtgaccgttcAatattttctggcattggtaa	10	14	12	5	1	2	1	1	1	1	0	2	3	2	3	1	4	0	4	1	4	3	7	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	98703400	A	C	98703400	2	2	415	1	0	0	0	0	0	0	0	1	9917	117	5	5		5	MTDH	8	98703400	Silent	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	73513613	98703400	47660622	44	20977											
MURC	347273	broad.mit.edu;hgsc.bcm.edu	37	chr9	103348313	103348313	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagaattagaactagaatAgtgaccccggagaggagaga	18	5	12	6	1	0	6	0	1	0	5	0	9	0	7	2	2	2	0	2	2	7	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	103348313	A	C	103348313	2	2	415	1	0	0	0	0	0	0	0	1	9987	410	15	5		5	MURC	9	103348313	Silent	SNP	A	TCGA-CJ-5679-01A-11D-1534-10		103348313	37865118	45	20978											
COL27A1	85301	hgsc.bcm.edu;ucsc.edu	37	chr9	117053135	117053135	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggccccatgggccctgctGggaagagaggaaatccaggt	9	6	15	11	0	0	1	0	0	0	1	1	4	1	3	4	5	1	1	4	5	2	0	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	117053135	G	T	117053135	3	4	415	1	0	0	0	0	1	0	0	0	3685	1348	47	4	4604	4	COL27A1	9	117053135	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	13704822	117053135	24160296	46	20979											
FAM129B	64855	broad.mit.edu;hgsc.bcm.edu	37	chr9	130287413	130287413	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcctgcactgttgatgacGgctcgtggtgggacctgccg	5	10	15	11	3	0	2	0	2	0	0	1	3	0	3	3	3	3	3	3	3	1	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	130287413	G	A	130287413	2	1	415	1	0	0	0	0	0	0	0	1	5437	1103	39	1		1	FAM129B	9	130287413	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	13234278	130287413	10926018	47	20980											
ERCC6	2074	broad.mit.edu;hgsc.bcm.edu	37	chr10	50732744	50732744	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtaccaaaaggtgtcatCtggccagtgcggatgagctc	9	9	14	9	1	2	1	1	1	1	0	3	2	2	2	2	4	3	2	2	4	3	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	50732744	C	A	50732744	3	1	415	1	0	0	0	0	1	0	0	0	5217	912	32	4	3817	4	ERCC6	10	50732744	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10		50732744	84802003	48	20981											
C10orf53	282966	broad.mit.edu	37	chr10	50887761	50887761	+	Frame_Shift_Del	DEL	G	-	-																															gcgatgcccaagaacgcagtGgtcatcctgcgctatgggcc																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	50887761	-	-	50887761	7	5	415	1	0	1	0	1	0	0	0	0	1606	1335	47	0	20	0	C10orf53	10	50887761	Frame_Shift_Del	DEL	G	TCGA-CJ-5679-01A-11D-1534-10	155017	50887761	84646986	49	20982											
CTNNA3	29119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	68940123	68940123	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagagcctggcgaatggcGttgcattctgcgataatccg	9	10	13	9	4	1	2	0	1	1	1	2	4	2	2	2	2	3	2	2	2	3	3	rs146754105		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	68940123	G	A	68940123	2	1	415	1	0	0	0	0	0	0	0	1	4014	1136	40	1		1	CTNNA3	10	68940123	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	18052362	68940123	66594624	50	20983											
WDR11	55717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	122624668	122624668	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttaatccttgaccttgagGtgaatcagacggtgggtgtg	8	14	13	6	1	1	4	1	3	0	1	2	4	2	4	2	3	0	0	2	3	2	4	rs145467317	alternate_allele	TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	122624668	G	C	122624668	3	2	415	1	0	0	0	0	1	0	0	0	17272	1261	44	4	845	4	WDR11	10	122624668	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	53684545	122624668	12910079	51	20984											
TRIM22	10346	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5727831	5727831	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttttccccaggatgtgaTtgacgtcatgaaaaggtata	12	13	9	7	1	2	3	1	3	1	0	3	4	3	4	2	2	0	1	2	2	4	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	5727831	T	C	5727831	3	2	415	1	0	0	0	0	1	0	0	0	16495	1493	52	3	772	3	TRIM22	11	5727831	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10		5727831	129278685	52	20985											
C11orf42	160298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6231300	6231300	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccttcgcccactgcactcGggaatactcaccaaatggcc	9	8	8	16	2	1	0	1	0	0	0	3	1	1	1	4	2	3	1	4	2	3	2	rs148934108		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	6231300	G	A	6231300	3	1	415	1	0	0	0	0	1	0	0	0	1641	1116	39	1	299	1	C11orf42	11	6231300	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	503469	6231300	128775216	53	20986			1	32		3	3	445	N	G_C	9.253368e-07
C11orf42	160298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6231320	6231320	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaatactcaccaaatggcCgagcagagagagcctatgaa	15	5	12	9	1	1	3	1	1	0	2	1	6	1	4	3	2	3	1	3	2	5	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	6231320	C	T	6231320	4	4	415	1	0	0	0	0	0	1	0	0	1641	644	23	1	319	1	C11orf42	11	6231320	Nonsense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	20	6231320	128775196	54	20987			1	32		3	3	445	N	G_C	9.253368e-07
C11orf42	160298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6231744	6231744	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagcacctgctgatacaaCtgaagctgctgatgtgcccc	10	9	9	13	0	1	3	1	3	0	0	1	3	1	3	3	0	7	4	3	0	3	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	6231744	C	T	6231744	3	4	415	1	0	0	0	0	1	0	0	0	1641	565	20	2	743	2	C11orf42	11	6231744	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	424	6231744	128774772	55	20988			1	32		3	3	445	N	G_C	9.253368e-07
SBF2	81846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	9868520	9868520	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctgaaaagatgctgatgTgatctgcagtccttcttgca	10	13	9	9	0	2	4	0	3	2	1	3	4	3	4	2	0	4	3	2	0	3	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	9868520	T	G	9868520	3	3	415	1	0	0	0	0	1	0	0	0	13861	1696	59	5	2704	5	SBF2	11	9868520	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	3636776	9868520	125137996	56	20989											
MICALCL	84953	broad.mit.edu;hgsc.bcm.edu	37	chr11	12316279	12316279	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaggaaggtgctgcctgAagatagtgcgcaggccctgg	10	6	16	9	1	0	3	0	1	0	2	0	4	0	4	2	4	3	2	2	4	4	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	12316279	A	C	12316279	3	2	415	1	0	0	0	0	1	0	0	0	9572	246	9	5	1307	5	MICALCL	11	12316279	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	2447759	12316279	122690237	57	20990											
TNKS1BP1	85456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57076422	57076422	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccagtcagtctgccccaCgccactctctctggcctggc	5	9	9	18	1	4	1	1	1	3	0	5	1	4	1	5	2	1	0	5	2	0	0	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	57076422	C	T	57076422	3	4	415	1	0	0	0	0	1	0	0	0	16319	536	19	1	1450	1	TNKS1BP1	11	57076422	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	44760143	57076422	77930094	58	20991											
SLC37A2	219855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124955896	124955896	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatcttggcctggaaggtgtCcctgagcagaggcagcgggt	7	8	17	9	1	1	2	0	1	1	1	2	4	2	3	2	5	2	2	2	5	1	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	124955896	C	T	124955896	3	4	415	1	0	0	0	0	1	0	0	0	14600	855	30	2	1538	2	SLC37A2	11	124955896	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	67879474	124955896	10050620	59	20992											
C1S	716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7177889	7177889	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctatgggctctacacacgGgtaaagaactatgttgactg	12	10	10	9	1	1	2	0	1	1	1	1	2	1	2	1	2	2	3	1	2	6	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	7177889	G	T	7177889	2	4	415	1	0	0	0	0	0	0	0	1	1974	1219	43	4		4	C1S	12	7177889	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		7177889	126674006	60	20993											
C1R	715	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7242701	7242701	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagaacatgatggtcccAttctcctcgttggagaagtc	9	13	10	9	1	1	3	0	1	1	2	5	4	2	3	2	2	1	2	2	2	3	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	7242701	A	T	7242701	3	4	415	1	0	0	0	0	1	0	0	0	1972	214	8	5	1457	5	C1R	12	7242701	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	64812	7242701	126609194	61	20994											
ATP2B1	490	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	90003742	90003742	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccaacatctgctttctttAgtgctgggccatcatttgta	8	16	7	10	0	3	0	1	0	2	0	4	0	4	0	2	1	3	3	2	1	3	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	90003742	A	T	90003742	3	4	415	1	0	0	0	0	1	0	0	0	1139	420	15	5	1434	5	ATP2B1	12	90003742	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	82761041	90003742	43848153	62	20995											
CHPT1	56994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	102120124	102120124	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtgctttgtgcctgcaaaTttcaagacaccttcatctaa	11	14	6	10	0	3	1	2	0	1	1	3	1	3	1	2	0	3	2	2	0	4	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	102120124	T	A	102120124	3	1	415	1	0	0	0	0	1	0	0	0	3370	1493	52	5	1148	5	CHPT1	12	102120124	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10	12116382	102120124	31731771	63	20996											
SRRM4	84530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	119552153	119552153	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaaaagaagaaatccactCggaagaagagaaggaggtaa	22	3	12	4	1	0	5	0	0	0	5	2	8	1	7	1	3	0	1	1	3	8	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	119552153	C	T	119552153	3	4	415	1	0	0	0	0	1	0	0	0	15172	875	31	1	359	1	SRRM4	12	119552153	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	17432029	119552153	14299742	64	20997											
SBNO1	55206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123812074	123812074	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctcagttgtcgagcaatgtAcattcctctaagcttcatat	10	14	7	10	1	3	0	2	0	1	0	5	1	4	0	1	0	3	5	1	0	4	6	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		G	123812074	A	G	123812074	3	3	415	1	0	0	0	0	1	0	0	0	13864	391	14	3	2670	3	SBNO1	12	123812074	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	4259921	123812074	10039821	65	20998											
DHX37	57647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	125435351	125435351	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtcgtcgaggagaggggtCtgcagagaatggagagtgat	10	7	20	4	2	1	4	0	1	1	3	3	8	1	4	0	5	1	1	0	5	1	0	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	125435351	C	T	125435351	5	4	415	1	0	0	0	0	0	0	1	0	4510	927	32	2	629	2	DHX37	12	125435351	Splice_Site	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	1623277	125435351	8416544	66	20999											
SPRY2	10253	broad.mit.edu	37	chr13	80911818	80911818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaagggctgcgacccgttgCcactctgagctctggcctcc	5	8	12	16	2	2	1	0	1	2	0	3	2	3	1	4	2	3	4	4	2	1	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	80911818	T	T	80911818	3	4	415	1	0	0	0	0	1	0	0	0	15107	739	26	2	928	2	SPRY2	13	80911818	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10		80911818	34258060	67	21000											
ATP6V1D	51382	hgsc.bcm.edu;ucsc.edu	37	chr14	67819728	67819728	+	Frame_Shift_Del	DEL	T	T	-																															ttcgacctgtctgtgctcccTttaaacgagccttcatgatg																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	67819728	T	-	67819728	7	5	415	1	0	1	0	1	0	0	0	0	1182	1609	56	0	704	0	ATP6V1D	14	67819728	Frame_Shift_Del	DEL	T	TCGA-CJ-5679-01A-11D-1534-10		67819728	39529812	68	21001											
SNW1	22938	hgsc.bcm.edu;ucsc.edu	37	chr14	78184785	78184797	+	Frame_Shift_Del	DEL	CTCTGGGCCATAT	CTCTGGGCCATAT	-																															ttttactgggcctataaataCtctgggccatatctttacca																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	CTCTGGGCCATAT	CTCTGGGCCATAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	78184797	CTCTGGGCCATAT	-	78184785	7	5	415	1	0	1	0	1	0	0	0	0	14881	565	20	0	281	0	SNW1	14	78184785	Frame_Shift_Del	DEL	CTCTGGGCCATAT	TCGA-CJ-5679-01A-11D-1534-10	10365057	78184785	29164755	69	21002											
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49301479	49301479	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggactgcctattccagaaCtagcaggagagccttgtgac	10	10	11	10	0	0	3	0	1	0	2	1	5	1	4	3	2	4	1	3	2	3	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	49301479	C	A	49301479	3	1	415	1	0	0	0	0	1	0	0	0	14009	565	20	4	1364	4	SECISBP2L	15	49301479	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10		49301479	53229913	70	21003											
HEXA	3073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72640389	72640389	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctccttccttcctcacGtctggatgtagaaggactcc	7	11	7	16	1	2	1	1	0	1	1	6	3	6	3	5	2	0	1	5	2	2	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	72640389	G	A	72640389	3	1	415	1	0	0	0	0	1	0	0	0	7073	1159	40	1	540	1	HEXA	15	72640389	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	23338910	72640389	29891003	71	21004											
MKL2	57496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	14334311	14334311	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcagaagcagcactacaActaccagaccatcctgcctg	13	6	7	15	0	1	2	1	0	0	2	2	2	2	2	4	0	7	3	4	0	4	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	14334311	A	T	14334311	3	4	415	1	0	0	0	0	1	0	0	0	9602	43	2	5	1079	5	MKL2	16	14334311	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10		14334311	76020442	72	21005											
PDILT	204474	hgsc.bcm.edu;ucsc.edu	37	chr16	20384428	20384428	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcattaataagcttttggCggttcacaatttttcccttg	8	18	7	8	1	2	0	2	0	0	0	3	0	3	0	1	2	1	2	1	2	3	8	rs141043720	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	20384428	C	T	20384428	3	4	415	1	0	0	0	0	1	0	0	0	11674	768	27	1	1084	1	PDILT	16	20384428	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	6050117	20384428	69970325	73	21006											
ZP2	7783	hgsc.bcm.edu	37	chr16	21208874	21208875	+	Frame_Shift_Ins	INS	-	-	C																															tgccaccacacctgcaaaggINScagccacagcagccacagct																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	21208875	-	C	21208874	7	5	415	1	0	1	1	0	0	0	0	0	18215	1203	42	0	76	0	ZP2	16	21208874	Frame_Shift_Ins	INS	-	TCGA-CJ-5679-01A-11D-1534-10	824446	21208874	69145879	74	21007											
SLC5A11	115584	broad.mit.edu;hgsc.bcm.edu	37	chr16	24921753	24921753	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccagcagcagcagcagcGtccagttcgagatggttcaa	11	6	13	11	2	1	1	1	0	0	1	3	2	2	1	2	2	5	6	2	2	1	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	24921753	G	A	24921753	3	1	415	1	0	0	0	0	1	0	0	0	14665	1145	40	1	1831	1	SLC5A11	16	24921753	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	3712879	24921753	65433000	75	21008											
SULT1A1	6817	broad.mit.edu	37	chr16	28620121	28620121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaaagtacttgatgagcGggacccccttcacgtactcc	9	9	9	14	2	1	2	1	2	0	0	2	3	2	3	3	1	4	3	3	1	3	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	28620121	A	A	28620121	3	1	415	1	0	0	0	0	1	0	0	0	15373	1116	39	1	859	1	SULT1A1	16	28620121	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	3698368	28620121	61734632	76	21009											
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu	37	chr16	30734026	30734026	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttcgacccccagcaccacCcctgcccctactggcctcag	6	7	6	22	1	2	0	1	0	1	0	3	1	2	0	8	1	3	1	8	1	1	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	30734026	C	T	30734026	2	4	415	1	0	0	0	0	0	0	0	1	15136	610	22	2		2	SRCAP	16	30734026	Silent	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	2113905	30734026	59620727	77	21010											
CNGB1	1258	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57991272	57991272	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcacatatcccaggggAgtcaggctcctgcatggaga	11	7	11	12	0	2	1	2	0	0	1	4	3	4	2	2	4	1	2	2	4	1	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	57991272	A	T	57991272	3	4	415	1	0	0	0	0	1	0	0	0	3600	304	11	5	3026	5	CNGB1	16	57991272	Missense_Mutation	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	27257246	57991272	32363481	78	21011											
KIF1C	10749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4923903	4923903	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccgccctctgagccagtcGactggaactttgcccagaag	9	7	11	14	2	1	2	0	1	1	1	2	5	1	3	4	1	3	0	4	1	2	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	4923903	G	A	4923903	3	1	415	1	0	0	0	0	1	0	0	0	8285	1058	37	1	1937	1	KIF1C	17	4923903	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		4923903	76271307	79	21012											
GAS7	8522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	9873005	9873005	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccttacctgggaatcacCggtggattttcggacactca	9	10	9	13	2	2	0	2	0	0	0	3	3	2	3	4	4	1	0	4	4	2	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	9873005	C	T	9873005	3	4	415	1	0	0	0	0	1	0	0	0	6250	652	23	1	1065	1	GAS7	17	9873005	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	4949102	9873005	71322205	80	21013											
CCDC144A	9720	broad.mit.edu	37	chr17	16596346	16596346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagacacctgaaagtcttcCtcaaaataacaatccaggta	17	8	5	11	0	2	2	1	1	1	1	4	2	4	2	3	1	1	1	3	1	6	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	16596346	T	T	16596346	3	4	415	1	0	0	0	0	1	0	0	0	2777	681	24	2	404	2	CCDC144A	17	16596346	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	6723341	16596346	64598864	81	21014											
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27417116	27417116	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggctctggagggcttgtaGctagaggtgggggacaggaa	8	8	19	6	0	1	1	0	0	1	1	1	4	1	4	0	7	1	4	0	7	3	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	27417116	G	C	27417116	3	2	415	1	0	0	0	0	1	0	0	0	10065	985	34	4	799	4	MYO18A	17	27417116	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	10820770	27417116	53778094	82	21015											
DNAH17	8632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76450661	76450661	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggccaccgctcggtgttgcCcaggatggtggcattctcgg	4	9	15	13	4	1	0	0	0	1	0	3	1	1	1	3	6	1	3	3	6	0	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	76450661	C	T	76450661	3	4	415	1	0	0	0	0	1	0	0	0	4601	623	22	2	3163	2	DNAH17	17	76450661	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	49033545	76450661	4744549	83	21016											
SHD	56961	broad.mit.edu;hgsc.bcm.edu	37	chr19	4280225	4280225	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggagagccgcttggagccGgaccccgcgggccctgggga	5	3	19	14	5	0	1	0	0	0	1	0	5	0	4	5	6	2	1	5	6	0	1	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	4280225	G	A	4280225	2	1	415	1	0	0	0	0	0	0	0	1	14277	1103	39	1		1	SHD	19	4280225	Silent	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		4280225	54848758	84	21017											
DPP9	91039	broad.mit.edu;ucsc.edu	37	chr19	4719861	4719861	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctccgaggccaacctcAccttctccaacttccggtgt	6	9	9	17	2	2	0	1	0	1	0	5	1	4	0	7	3	2	0	7	3	2	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	4719861	T	T	4719861	5	4	415	1	0	0	0	0	0	0	1	0	4733	173	6	5	2700	5	DPP9	19	4719861	Splice_Site	SNP	A	TCGA-CJ-5679-01A-11D-1534-10	439636	4719861	54409122	85	21018											
C19orf39	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11486488	11486489	+	Frame_Shift_Del	DEL	TC	TC	-																															gcactgctccagcggtatttTcctgcccagtgctggctgca																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	11486489	TC	-	11486488	7	5	415	1	0	1	0	1	0	0	0	0	1922	1780	62	0	492	0	C19orf39	19	11486488	Frame_Shift_Del	DEL	TC	TCGA-CJ-5679-01A-11D-1534-10	6766627	11486488	47642495	86	21019											
ZNF226	7769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44680985	44680985	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attatcaagttcatctagtgGtccacacaggagagaaaccc	14	9	8	10	0	3	1	2	0	1	1	4	3	4	2	2	2	1	1	2	2	4	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		C	44680985	G	C	44680985	3	2	415	1	0	0	0	0	1	0	0	0	17779	1261	44	4	1638	4	ZNF226	19	44680985	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	33194497	44680985	14447998	87	21020											
ZNF610	162963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52869427	52869427	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttacaaatgtagtgaatgtGacaaggtgtttaatcgcaat	14	13	9	5	1	0	2	0	2	0	0	1	2	0	2	0	1	1	3	0	1	7	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	52869427	G	A	52869427	3	1	415	1	0	0	0	0	1	0	0	0	18035	1290	45	2	810	2	ZNF610	19	52869427	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	8188442	52869427	6259556	88	21021											
NRIP1	8204	hgsc.bcm.edu	37	chr21	16338707	16338707	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgggtctttgctttttgTaaggtccattgagtggttag	5	18	14	4	0	1	1	0	1	1	0	2	1	2	1	1	4	1	3	1	4	2	6	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	16338707	T	A	16338707	3	1	415	1	0	0	0	0	1	0	0	0	10652	1638	57	5	1673	5	NRIP1	21	16338707	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11D-1534-10		16338707	31791188	89	21022											
USP25	29761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	17205757	17205757	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgaggaagacaaccaacGatttgaaaaagaactagaag	19	7	10	5	1	0	5	0	2	0	3	0	7	0	6	1	1	3	1	1	1	8	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	17205757	G	A	17205757	3	1	415	1	0	0	0	0	1	0	0	0	17055	1058	37	1	2150	1	USP25	21	17205757	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	867050	17205757	30924138	90	21023											
MTMR3	8897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30418102	30418102	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttttctctgaagccagctggGagcaggtggataaacaggac	11	9	13	8	0	1	1	0	1	1	0	2	4	1	4	1	4	4	2	1	4	3	3	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	30418102	G	A	30418102	3	1	415	1	0	0	0	0	1	0	0	0	9945	1175	41	2	3372	2	MTMR3	22	30418102	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10		30418102	20886464	91	21024											
EIF3L	51386	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38270461	38270461	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggtcgggcttctccGcctgcactccctgttaggag	4	10	12	15	2	1	0	0	0	1	0	4	1	2	1	4	3	2	3	4	3	1	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	38270461	G	A	38270461	3	1	415	1	0	0	0	0	1	0	0	0	5022	1087	38	1	870	1	EIF3L	22	38270461	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	7852359	38270461	13034105	92	21025											
SREBF2	6721	broad.mit.edu	37	chr22	42276853	42276853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagcctgcagaagctacGcctggtgcgctggctgctca	7	8	12	14	2	1	1	1	0	0	1	1	1	1	1	2	2	7	5	2	2	3	2	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	42276853	A	A	42276853	3	1	415	1	0	0	0	0	1	0	0	0	15143	1087	38	1	1933	1	SREBF2	22	42276853	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	4006392	42276853	9027713	93	21026											
SYTL5	94122	broad.mit.edu;hgsc.bcm.edu	37	chrX	37935825	37935825	+	Frame_Shift_Del	DEL	T	T	-																															tatatataatttcagatttcTtcttagcaagttcagatcgg																								novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		-	37935825	T	-	37935825	7	5	415	1	0	1	0	1	0	0	0	0	15485	1609	56	0	578	0	SYTL5	23	37935825	Frame_Shift_Del	DEL	T	TCGA-CJ-5679-01A-11D-1534-10		37935825	117334735	94	21027											
TSPYL2	64061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53115408	53115408	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actatgagaaagttattgaaGactttgacaaggatcaggct	15	11	10	5	0	1	4	1	3	0	2	1	6	1	5	0	2	0	2	0	2	5	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	53115408	G	T	53115408	3	4	415	1	0	0	0	0	1	0	0	0	16659	942	33	4	1856	4	TSPYL2	23	53115408	Missense_Mutation	SNP	G	TCGA-CJ-5679-01A-11D-1534-10	15179583	53115408	102155152	95	21028											
XPNPEP2	7512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	128886138	128886138	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacccaggttgtttgcaaaCaagagtcgctttagctccga	10	10	9	12	2	0	1	0	0	0	1	2	2	1	1	3	1	3	5	3	1	3	4	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		A	128886138	C	A	128886138	3	1	415	1	0	0	0	0	1	0	0	0	17442	477	17	4	872	4	XPNPEP2	23	128886138	Missense_Mutation	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	75770730	128886138	26384422	96	21029											
CD40LG	959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135730560	135730560	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcttcatagaaggttggaCaaggtaagatgaaccacaag	16	9	10	6	0	2	3	1	1	1	2	2	4	2	4	1	3	1	2	1	3	7	5	novel		TCGA-CJ-5679-01A-11D-1534-10	TCGA-CJ-5679-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84120a7c-4be0-4025-a95a-f78bfb58d28f	4c1ae2ec-1dbf-4c5a-88f2-9995df35736e		T	135730560	C	T	135730560	2	4	415	1	0	0	0	0	0	0	0	1	3016	477	17	2		2	CD40LG	23	135730560	Silent	SNP	C	TCGA-CJ-5679-01A-11D-1534-10	6844422	135730560	19540000	97	21030											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-CJ-5679-01A-11W-1584-10	TCGA-CJ-5679-11A-01W-1585-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	de904324-2c23-4a2c-b5bf-56e2e6f616ef	20ed414c-6f1f-4d6a-a731-e28d3d45efc3		C	10183797	T	C	10183797	3	2	416	1	0	0	0	0	1	0	0	0	17161	1551	54	3	268	3	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-CJ-5679-01A-11W-1584-10		10183797	187838633	1	21031											
FAM54B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26152903	26152903	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagacatatgcccgggtcagGtagttgaggcagtagctggt	9	9	16	7	1	1	2	1	1	0	1	1	3	1	2	1	4	2	5	1	4	3	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	26152903	G	T	26152903	5	4	417	1	0	0	0	0	0	0	1	0	5583	1275	44	4	250	4	FAM54B	1	26152903	Splice_Site	SNP	G	TCGA-CJ-5680-01A-11D-1534-10		26152903	223097718	1	21032											
MCOLN3	55283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	85511028	85511028	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgcagctactcacaactaCctcaggatctgccatctcta	10	10	6	15	0	4	0	2	0	2	0	5	1	4	1	2	1	6	3	2	1	4	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	85511028	C	A	85511028	3	1	417	1	0	0	0	0	1	0	0	0	9397	507	18	4	1693	4	MCOLN3	1	85511028	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	59358125	85511028	163739593	2	21033											
RFX5	5993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151315361	151315361	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcaggaacagttggtaaGatcatgttaatgatgggcac	15	9	12	5	0	1	2	1	1	0	1	1	3	1	3	0	3	2	5	0	3	4	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	151315361	G	T	151315361	2	4	417	1	0	0	0	0	0	0	0	1	13268	932	33	4		4	RFX5	1	151315361	Silent	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	65804333	151315361	97935260	3	21034											
SHC1	6464	broad.mit.edu	37	chr1	154938670	154938670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggaggtggcatctgtttgCggacttctggatctccccca	5	12	13	11	1	3	0	0	0	3	0	4	3	3	3	2	5	1	2	2	5	0	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	154938670	T	T	154938670	3	4	417	1	0	0	0	0	1	0	0	0	14272	768	27	1	550	1	SHC1	1	154938670	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	3623309	154938670	94311951	4	21035											
KIRREL	55243	broad.mit.edu	37	chr1	158059420	158059420	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgctctatgtgaacggTgagtgagtggcctgagaggc	7	9	17	8	2	1	4	0	4	1	1	1	5	1	4	2	3	2	1	2	3	2	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	158059420	G	G	158059420	5	3	417	1	0	0	0	0	0	0	1	0	8324	1710	59	5	1207	5	KIRREL	1	158059420	Splice_Site	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	3120750	158059420	91191201	5	21036											
PAPPA2	60676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	176640128	176640128	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catacatgagtgtgaaggagCtgaaggaggccctgcagctg	11	7	15	8	0	0	3	0	3	0	0	0	5	0	5	1	3	4	3	1	3	3	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	176640128	C	A	176640128	3	1	417	1	0	0	0	0	1	0	0	0	11433	796	28	4	2024	4	PAPPA2	1	176640128	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	18580708	176640128	72610493	6	21037											
SPATA17	128153	hgsc.bcm.edu;ucsc.edu	37	chr1	218036142	218036142	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactgtattaccatcattTgagctcttctcaaagtatgg	11	14	7	9	0	3	2	2	1	2	1	4	2	3	2	1	1	2	3	1	1	4	5	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	218036142	T	G	218036142	3	3	417	1	0	0	0	0	1	0	0	0	15003	1809	63	5	1070	5	SPATA17	1	218036142	Missense_Mutation	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	41396014	218036142	31214479	7	21038											
RYR2	6262	hgsc.bcm.edu;ucsc.edu	37	chr1	237538046	237538046	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctgtccacctcccggtcTtcaactgataagctggcttt	6	13	8	14	1	2	1	1	1	1	0	4	1	4	1	4	2	3	2	4	2	2	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		C	237538046	T	C	237538046	2	2	417	1	0	0	0	0	0	0	0	1	13771	1596	56	3		3	RYR2	1	237538046	Silent	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	19501904	237538046	11712575	8	21039											
ABCG8	64241	broad.mit.edu;hgsc.bcm.edu	37	chr2	44079623	44079623	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagctcctgtggaaccCaggtgagggcctggggggca	6	6	19	10	0	0	1	0	1	0	0	1	2	1	2	3	7	3	3	3	7	1	0	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	44079623	C	T	44079623	3	4	417	1	0	0	0	0	1	0	0	0	72	594	21	2	710	2	ABCG8	2	44079623	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10		44079623	199119750	9	21040											
ITPRIPL1	150771	broad.mit.edu;ucsc.edu	37	chr2	96993737	96993737	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaacagctctcatgcacctCttgctacggctgcccctcac	9	9	6	17	1	3	0	2	0	2	0	4	0	3	0	3	1	6	4	3	1	3	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	96993737	G	G	96993737	2	3	417	1	0	0	0	0	0	0	0	1	7924	900	32	4		4	ITPRIPL1	2	96993737	Silent	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	52914114	96993737	146205636	10	21041											
CCNT2	905	hgsc.bcm.edu;ucsc.edu	37	chr2	135712132	135712132	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctgatgccaatcacgagTacagtacaagcagccagcat	13	7	9	12	1	1	1	1	1	0	0	2	2	2	1	3	0	6	4	3	0	4	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		C	135712132	T	C	135712132	3	2	417	1	0	0	0	0	1	0	0	0	2935	1638	57	3	2141	3	CCNT2	2	135712132	Missense_Mutation	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	38718395	135712132	107487241	11	21042											
SLC39A10	57181	hgsc.bcm.edu;ucsc.edu	37	chr2	196548615	196548615	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggttcctgaagatgaggcaAatataggggcatcaggtaag	13	9	14	5	0	1	3	1	2	0	1	2	3	2	3	1	5	0	4	1	5	5	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	196548615	A	G	196548615	3	3	417	1	0	0	0	0	1	0	0	0	14615	14	1	3	1207	3	SLC39A10	2	196548615	Missense_Mutation	SNP	A	TCGA-CJ-5680-01A-11D-1534-10	60836483	196548615	46650758	12	21043											
CPS1	1373	hgsc.bcm.edu;ucsc.edu	37	chr2	211521332	211521332	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgctgcccacacaaacCatcagccaaggggccattga	12	6	9	14	0	1	2	1	2	0	0	1	2	1	2	4	2	4	1	4	2	2	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	211521332	C	A	211521332	2	1	417	1	0	0	0	0	0	0	0	1	3823	581	21	4		4	CPS1	2	211521332	Silent	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	14972717	211521332	31678041	13	21044											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191543	10191546	+	Frame_Shift_Del	DEL	ACAT	ACAT	-																															tgagaattacaggagactggAcatcgtcaggtcgctctacg																								novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	ACAT	ACAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		-	10191546	ACAT	-	10191543	7	5	417	1	0	1	0	1	0	0	0	0	17161	275	10	0	546	0	VHL	3	10191543	Frame_Shift_Del	DEL	ACAT	TCGA-CJ-5680-01A-11D-1534-10		10191543	187830887	14	21045											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52442523	52442523	+	Frame_Shift_Del	DEL	A	A	-																															aacatgttattcacaatatcAtcatcaatcacggacgtatc																								novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	A	-	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		-	52442523	A	-	52442523	7	5	417	1	0	1	0	1	0	0	0	0	1311	214	8	0	2023	0	BAP1	3	52442523	Frame_Shift_Del	DEL	A	TCGA-CJ-5680-01A-11D-1534-10	42250980	52442523	145579907	15	21046											
CEP97	79598	hgsc.bcm.edu;ucsc.edu	37	chr3	101476949	101476949	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaggatgataaccacaGtcttacattttttcctgagt	11	15	7	8	0	1	3	0	3	1	0	2	4	2	4	2	1	2	0	2	1	3	6	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	101476949	G	A	101476949	3	1	417	1	0	0	0	0	1	0	0	0	3263	1029	36	2	1533	2	CEP97	3	101476949	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	49034426	101476949	96545481	16	21047											
MME	4311	hgsc.bcm.edu;ucsc.edu	37	chr3	154858058	154858058	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcccagatccaaaataacTtttcactagagatcaatggg	14	10	8	9	0	2	2	2	0	0	2	3	3	3	2	2	2	1	0	2	2	5	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		C	154858058	T	C	154858058	3	2	417	1	0	0	0	0	1	0	0	0	9645	1609	56	3	968	3	MME	3	154858058	Missense_Mutation	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	53381109	154858058	43164372	17	21048											
CWC27	10283	hgsc.bcm.edu;ucsc.edu	37	chr5	64314067	64314067	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcagatacatttgaaatCtatgatcctcggaatccagt	13	12	7	9	1	2	3	1	2	1	1	5	5	4	4	2	1	1	0	2	1	4	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	64314067	C	A	64314067	2	1	417	1	0	0	0	0	0	0	0	1	4070	903	32	4		4	CWC27	5	64314067	Silent	SNP	C	TCGA-CJ-5680-01A-11D-1534-10		64314067	116601193	18	21049											
CSF1R	1436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149449521	149449521	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtttggttgtgctctaaggtCtcaacagtcagcaggctctg	7	13	12	9	0	4	0	2	0	3	0	5	0	4	0	0	3	3	5	0	3	2	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	149449521	C	G	149449521	3	3	417	1	0	0	0	0	1	0	0	0	3932	912	32	4	1545	4	CSF1R	5	149449521	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	85135454	149449521	31465739	19	21050											
RANBP17	64901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	170380686	170380686	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagatgagcatgatgctatGgatggagaattatcctgtcg	12	11	12	6	1	0	4	0	2	0	2	2	6	1	5	1	2	2	2	1	2	3	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	170380686	G	T	170380686	3	4	417	1	0	0	0	0	1	0	0	0	13029	1348	47	4	1604	4	RANBP17	5	170380686	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	20931165	170380686	10534574	20	21051											
NPY	4852	broad.mit.edu;ucsc.edu	37	chr7	24324865	24324865	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgtgcctgcagatgctAggtaacaagcgactggggct	8	10	13	10	1	1	1	0	0	1	1	1	2	1	1	1	3	5	4	1	3	3	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	24324865	G	G	24324865	2	3	417	1	0	0	0	0	0	0	0	1	10607	407	15	3		3	NPY	7	24324865	Silent	SNP	A	TCGA-CJ-5680-01A-11D-1534-10		24324865	134813798	21	21052											
C7orf10	79783	hgsc.bcm.edu	37	chr7	40535918	40535918	+	Frame_Shift_Del	DEL	T	T	-																															gaccagcaagtggttatatcTttttgaaggcagtggagtcc																								novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		-	40535918	T	-	40535918	7	5	417	1	0	1	0	1	0	0	0	0	2376	1609	56	0	978	0	C7orf10	7	40535918	Frame_Shift_Del	DEL	T	TCGA-CJ-5680-01A-11D-1534-10	16211053	40535918	118602745	22	21053											
GIMAP2	26157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150389838	150389838	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaagacctcaatggtggctCcctgatggattacatgcacg	10	9	12	10	1	1	2	1	1	0	1	2	4	2	4	2	4	2	2	2	4	3	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	150389838	C	A	150389838	3	1	417	1	0	0	0	0	1	0	0	0	6380	855	30	4	470	4	GIMAP2	7	150389838	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	109853920	150389838	8748825	23	21054											
MTSS1	9788	broad.mit.edu;ucsc.edu	37	chr8	125568483	125568483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcatcaccctggtggcaGccgatacagtcatgctccgt	9	8	11	13	2	2	1	2	0	0	1	3	2	3	1	3	2	4	3	3	2	1	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	125568483	A	A	125568483	3	1	417	1	0	0	0	0	1	0	0	0	9962	971	34	2	885	2	MTSS1	8	125568483	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10		125568483	20795539	24	21055											
CBWD3	445571	broad.mit.edu	37	chr9	70871861	70871861	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggcttctatgttttgggTtgatgctgaattagggagtg	7	16	15	3	0	1	2	0	2	1	0	1	3	1	3	0	3	1	4	0	3	3	6	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	70871861	G	G	70871861	3	3	417	1	0	0	0	0	1	0	0	0	2714	1725	60	5	1721	5	CBWD3	9	70871861	Missense_Mutation	SNP	T	TCGA-CJ-5680-01A-11D-1534-10		70871861	70341570	25	21056											
WDR5	11091	hgsc.bcm.edu;ucsc.edu	37	chr9	137006663	137006663	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttattaaaatttggggcgcGtatgatgggaaatttgagaa	13	13	12	3	2	0	2	0	2	0	1	0	4	0	3	0	3	0	1	0	3	6	5	rs142853576	bycluster;by1000genomes	TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	137006663	G	A	137006663	2	1	417	1	0	0	0	0	0	0	0	1	17302	1132	40	1		1	WDR5	9	137006663	Silent	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	66134802	137006663	4206768	26	21057											
SUPV3L1	6832	broad.mit.edu;ucsc.edu	37	chr10	70954975	70954975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaattgatgaaattcaaatGattagagatccagccagagg	16	10	10	5	0	1	5	1	3	0	2	2	6	2	5	2	1	1	1	2	1	4	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	70954975	A	A	70954975	3	1	417	1	0	0	0	0	1	0	0	0	15401	1290	45	2	911	2	SUPV3L1	10	70954975	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10		70954975	64579772	27	21058											
KIF20B	9585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91497461	91497461	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcagaaaagtaaaaatCaagaacaggaggaaaagatc	22	5	10	4	0	1	3	1	0	0	3	2	5	1	5	0	2	2	2	0	2	9	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	91497461	C	A	91497461	3	1	417	1	0	0	0	0	1	0	0	0	8287	827	29	4	2817	4	KIF20B	10	91497461	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	20542486	91497461	44037286	28	21059											
PAX6	5080	broad.mit.edu;hgsc.bcm.edu	37	chr11	31816305	31816305	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaactgatggagttggtattCtctccccctccttcctgttg	5	15	9	12	0	1	1	0	1	1	0	5	3	4	2	4	2	1	3	4	2	2	5	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	31816305	C	T	31816305	2	4	417	1	0	0	0	0	0	0	0	1	11483	912	32	2		2	PAX6	11	31816305	Silent	SNP	C	TCGA-CJ-5680-01A-11D-1534-10		31816305	103190211	29	21060											
OR4C6	219432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55433031	55433031	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctgtaagcccctgcactAcacgatcatcatgagtccac	11	9	6	15	1	3	1	2	1	1	0	4	2	4	1	3	0	3	2	3	0	2	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	55433031	A	G	55433031	3	3	417	1	0	0	0	0	1	0	0	0	11052	391	14	3	391	3	OR4C6	11	55433031	Missense_Mutation	SNP	A	TCGA-CJ-5680-01A-11D-1534-10	23616726	55433031	79573485	30	21061											
MPEG1	219972	hgsc.bcm.edu;ucsc.edu	37	chr11	58978851	58978851	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagtagccggctgggcaTgactgtgcatttgtcatggg	8	10	16	7	1	1	1	1	1	0	0	1	2	1	2	1	4	2	4	1	4	2	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	58978851	T	A	58978851	2	1	417	1	0	0	0	0	0	0	0	1	9723	1451	51	5		5	MPEG1	11	58978851	Silent	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	3545820	58978851	76027665	31	21062											
ODZ4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	78516425	78516425	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtggcctgaacactggtcTaagcatgtggccctgggggt	6	9	15	11	1	1	1	0	1	1	0	1	1	1	1	3	5	2	1	3	5	2	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	78516425	T	G	78516425	3	3	417	1	0	0	0	0	1	0	0	0	10837	1519	53	5	6298	5	ODZ4	11	78516425	Missense_Mutation	SNP	T	TCGA-CJ-5680-01A-11D-1534-10	19537574	78516425	56490091	32	21063											
ERGIC2	51290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	29509405	29509405	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagactgtgatgaatcaTcttctctgttaaaataagat	13	15	8	5	0	3	4	1	2	2	2	4	5	3	4	0	1	0	1	0	1	4	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	29509405	T	G	29509405	3	3	417	1	0	0	0	0	1	0	0	0	5224	1435	50	5	679	5	ERGIC2	12	29509405	Missense_Mutation	SNP	T	TCGA-CJ-5680-01A-11D-1534-10		29509405	104342490	33	21064											
C12orf35	0	broad.mit.edu;ucsc.edu	37	chr12	32138193	32138193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagtctgtagacacgaaagCgagttcatctaaatttagta	15	12	8	6	2	3	1	1	0	2	1	3	3	3	1	0	0	1	3	0	0	7	7	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	32138193	T	T	32138193	3	4	417	1	0	0	0	0	1	0	0	0	1682	768	27	1	4306	1	C12orf35	12	32138193	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	2628788	32138193	101713702	34	21065											
PAN2	9924	broad.mit.edu;ucsc.edu	37	chr12	56720186	56720186	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatctctgcatccacgggtgGtgctcgcctacaatccagca	9	9	9	14	2	1	0	0	0	1	0	5	0	3	0	3	2	4	3	3	2	3	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		C	56720186	C	C	56720186	3	2	417	1	0	0	0	0	1	0	0	0	11414	1261	44	4	2414	4	PAN2	12	56720186	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	24581993	56720186	77131709	35	21066											
LEMD3	23592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	65564430	65564430	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtgatcaagtggactccAgccccgttcctagataccgt	8	10	11	12	2	1	2	1	1	0	1	3	3	3	3	5	2	2	1	5	2	3	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	65564430	A	T	65564430	3	4	417	1	0	0	0	0	1	0	0	0	8721	188	7	5	1056	5	LEMD3	12	65564430	Missense_Mutation	SNP	A	TCGA-CJ-5680-01A-11D-1534-10	8844244	65564430	68287465	36	21067											
RIMBP2	23504	broad.mit.edu;ucsc.edu	37	chr12	130926444	130926444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccttcttctccctttgctCcagcgggagctgccacggca	4	11	9	17	2	2	0	0	0	2	0	5	1	4	1	4	2	4	3	4	2	0	3	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	130926444	T	T	130926444	3	4	417	1	0	0	0	0	1	0	0	0	13365	864	30	2	1804	2	RIMBP2	12	130926444	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	65362014	130926444	2925451	37	21068											
ATP11A	23250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	113481084	113481084	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtgtccatgtacgtcaCggtcgagatgcagaagttcc	8	10	11	12	3	1	2	1	0	0	2	4	3	3	2	3	1	2	3	3	1	2	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	113481084	C	A	113481084	3	1	417	1	0	0	0	0	1	0	0	0	1119	536	19	4	1146	4	ATP11A	13	113481084	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10		113481084	1688794	38	21069											
ARID4A	5926	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58830901	58830901	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacagactcttgttcatcTgatagtgaaacagaagatgc	13	12	8	8	0	3	5	1	2	2	3	3	5	3	5	0	0	3	1	0	0	4	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	58830901	T	A	58830901	2	1	417	1	0	0	0	0	0	0	0	1	919	1567	55	5		5	ARID4A	14	58830901	Silent	SNP	T	TCGA-CJ-5680-01A-11D-1534-10		58830901	48518639	39	21070											
HERC2	8924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	28473477	28473477	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcatcaccaggaggaagCgggcttgcgggatggtcccc	8	6	16	11	2	1	1	1	1	0	0	2	4	2	4	3	5	3	2	3	5	1	1	rs149550128	alternate_allele	TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	28473477	C	A	28473477	3	1	417	1	0	0	0	0	1	0	0	0	7058	768	27	4	9389	4	HERC2	15	28473477	Missense_Mutation	SNP	C	TCGA-CJ-5680-01A-11D-1534-10		28473477	74057915	40	21071											
CDAN1	146059	broad.mit.edu	37	chr15	43026473	43026473	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcggccttgcagagctGgtgagaagcacagcagccgc	10	4	16	11	2	0	2	0	1	0	2	0	4	0	2	2	3	5	4	2	3	2	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	43026473	T	T	43026473	3	4	417	1	0	0	0	0	1	0	0	0	3054	1348	47	4	2563	4	CDAN1	15	43026473	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	14552996	43026473	59504919	41	21072											
MVP	9961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	29858602	29858602	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggagctggaggtgagcaagGctcagcagctggctgaggtg	8	7	19	7	0	1	2	1	2	0	0	1	4	1	4	0	6	4	6	0	6	1	0	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	29858602	G	A	29858602	3	1	417	1	0	0	0	0	1	0	0	0	9996	1203	42	2	2400	2	MVP	16	29858602	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10		29858602	60496151	42	21073											
KIAA0802	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	8793068	8793068	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggtcagctcgtgcaggcgGccagactgcatcaagaggag	10	5	16	10	2	2	2	2	0	0	2	3	3	2	3	1	4	3	3	1	4	1	0	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		C	8793068	G	C	8793068	3	2	417	1	0	0	0	0	1	0	0	0	8194	1203	42	4	1982	4	KIAA0802	18	8793068	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10		8793068	69284180	43	21074											
TYK2	7297	broad.mit.edu	37	chr19	10473019	10473019	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcagccctgcaaggcagcCccaagttcccgaacgctggg	10	4	12	15	2	0	0	0	0	0	0	1	1	1	0	4	2	5	5	4	2	4	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	10473019	A	A	10473019	2	1	417	1	0	0	0	0	0	0	0	1	16809	610	22	4		4	TYK2	19	10473019	Silent	SNP	C	TCGA-CJ-5680-01A-11D-1534-10		10473019	48655964	44	21075											
DMKN	93099	hgsc.bcm.edu;ucsc.edu	37	chr19	36003991	36003991	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccccctgccaggagccGcggacagcatctgctccgtg	6	5	13	17	3	1	0	0	0	1	0	2	2	2	2	5	3	4	3	5	3	0	0	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	36003991	G	A	36003991	2	1	417	1	0	0	0	0	0	0	0	1	4582	1074	38	1		1	DMKN	19	36003991	Silent	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	25530972	36003991	23124992	45	21076											
BCAM	4059	broad.mit.edu	37	chr19	45317871	45317871	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctcccaggatgagcaggAggaagtgctgaatgtgaatc	11	8	14	8	1	1	3	0	3	1	0	3	6	1	6	1	3	2	2	1	3	3	0	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		G	45317871	G	G	45317871	3	3	417	1	0	0	0	0	1	0	0	0	1344	304	11	3	962	3	BCAM	19	45317871	Missense_Mutation	SNP	A	TCGA-CJ-5680-01A-11D-1534-10	9313880	45317871	13811112	46	21077											
MED25	81857	broad.mit.edu;hgsc.bcm.edu	37	chr19	50338353	50338353	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatcccctacgaccagagCggcttcgtcaacggcatccg	8	7	9	17	5	2	1	2	0	0	1	5	2	4	1	4	2	3	2	4	2	2	2	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	50338353	C	T	50338353	2	4	417	1	0	0	0	0	0	0	0	1	9443	767	27	1		1	MED25	19	50338353	Silent	SNP	C	TCGA-CJ-5680-01A-11D-1534-10	5020482	50338353	8790630	47	21078											
ZNF677	342926	hgsc.bcm.edu;ucsc.edu	37	chr19	53740495	53740495	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatttgaacgttcagtaaaGgctttgccacattcagtaca	13	12	8	8	1	2	2	2	1	0	1	2	2	2	2	1	1	3	4	1	1	4	6	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	53740495	G	A	53740495	2	1	417	1	0	0	0	0	0	0	0	1	18083	987	35	2		2	ZNF677	19	53740495	Silent	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	3402142	53740495	5388488	48	21079											
CLTCL1	8218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	19175075	19175075	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccaggccaccaaccttgtAgagatgatccttcttgcaga	10	9	9	13	0	1	3	0	1	1	2	2	4	2	3	5	1	2	2	5	1	2	4	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	19175075	A	T	19175075	3	4	417	1	0	0	0	0	1	0	0	0	3567	420	15	5	338	5	CLTCL1	22	19175075	Missense_Mutation	SNP	A	TCGA-CJ-5680-01A-11D-1534-10		19175075	32129491	49	21080											
GGT5	2687	broad.mit.edu;ucsc.edu	37	chr22	24627459	24627459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccagggcatccaccacctcgGgctggaacttggccaggtcc	7	6	12	16	1	0	0	0	0	0	0	3	1	2	1	6	5	1	2	6	5	1	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	24627459	A	A	24627459	3	1	417	1	0	0	0	0	1	0	0	0	6362	1232	43	2	997	2	GGT5	22	24627459	Missense_Mutation	SNP	G	TCGA-CJ-5680-01A-11D-1534-10	5452384	24627459	26677107	50	21081											
MOSPD2	158747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	14891810	14891810	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccatcgtgtctcccatccaGaatcacgcccagaataaagc	12	7	6	16	2	2	2	1	0	1	2	5	2	3	2	4	0	1	0	4	0	4	1	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		A	14891810	G	A	14891810	5	1	417	1	0	0	0	0	0	0	1	0	9716	956	33	2	15	2	MOSPD2	23	14891810	Splice_Site	SNP	G	TCGA-CJ-5680-01A-11D-1534-10		14891810	140378750	51	21082											
MAGEB3	4114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	30254277	30254277	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacatctgtagatgtttcttAcaaaaagtcatacaagggag	15	12	8	6	0	3	1	1	0	2	1	3	2	3	2	0	1	3	2	0	1	7	5	novel		TCGA-CJ-5680-01A-11D-1534-10	TCGA-CJ-5680-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c718814-9d25-49a6-a430-2019071ec0ab	ef7a85b0-807b-4c98-9c63-856a0079d1fd		T	30254277	A	T	30254277	3	4	417	1	0	0	0	0	1	0	0	0	9177	391	14	5	238	5	MAGEB3	23	30254277	Missense_Mutation	SNP	A	TCGA-CJ-5680-01A-11D-1534-10	15362467	30254277	125016283	52	21083											
NBPF10	100132406	broad.mit.edu	37	chr1	146398399	146398399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattgaatgagcatctccagGccctcctcactccggatgag	9	9	9	14	1	2	3	1	3	1	0	5	4	4	4	4	2	1	1	4	2	1	1	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	146398399	A	A	146398399	3	1	418	1	0	0	0	0	1	0	0	0	10193	1218	42	2		2	NBPF10	1	146398399	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10		146398399	102852222	1	21084											
PGLYRP3	114771	broad.mit.edu;ucsc.edu	37	chr1	153275057	153275057	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctctctggcttcccaagCagatcgtttgatgatgttgg	6	15	11	9	1	2	3	0	2	2	1	5	3	3	3	1	2	1	4	1	2	1	3	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	153275057	A	A	153275057	3	1	418	1	0	0	0	0	1	0	0	0	11795	710	25	4	481	4	PGLYRP3	1	153275057	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	6876658	153275057	95975564	2	21085											
GLI2	2736	hgsc.bcm.edu;ucsc.edu	37	chr2	121685023	121685026	+	Frame_Shift_Del	DEL	TCTG	TCTG	-																															ggtaccattacgagcctcatTctgtccacggtgtgcacggg																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	TCTG	TCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		-	121685026	TCTG	-	121685023	7	5	418	1	0	1	0	1	0	0	0	0	6438	1783	62	0	241	0	GLI2	2	121685023	Frame_Shift_Del	DEL	TCTG	TCGA-CJ-5681-01A-11D-1534-10		121685023	121514350	3	21086											
CRYGA	1418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	209025594	209025594	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcacccccccagtcgtggtaCcttctgtagtccccaggcct	5	9	9	18	1	1	0	0	0	1	0	3	0	2	0	7	2	1	3	7	2	2	3	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	209025594	C	G	209025594	3	3	418	1	0	0	0	0	1	0	0	0	3914	506	18	4	69	4	CRYGA	2	209025594	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	87340571	209025594	34173779	4	21087											
NPRL2	10641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50386816	50386816	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttgcagaggctggccataCcaatgggcagagtgcaccgg	9	6	14	12	1	0	2	0	0	0	2	0	2	0	2	4	4	3	4	4	4	2	2	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	50386816	C	G	50386816	5	3	418	1	0	0	0	0	0	0	1	0	10597	521	18	4	725	4	NPRL2	3	50386816	Splice_Site	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		50386816	147635614	5	21088											
MUC4	4585	broad.mit.edu	37	chr3	195506555	195506555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaggaagagaggtggCgtgacctgtggatactgagg	10	7	19	5	1	0	4	0	3	0	1	0	7	0	6	1	6	1	0	1	6	2	1	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	195506555	T	T	195506555	3	4	418	1	0	0	0	0	1	0	0	0	9978	768	27	1		1	MUC4	3	195506555	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	145119739	195506555	2515875	6	21089			1	33		3	3	2840	N	T_GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC_C	4.296229e-06
MUC4	4585	hgsc.bcm.edu	37	chr3	195509031	195509078	+	In_Frame_Del	DEL	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	-																															gtggatgctgaggaagtgctGgtgacaggaagagcggtggc																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		-	195509078	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	-	195509031	7	5	418	1	0	1	0	1	0	0	0	0	9978	1335	47	0		0	MUC4	3	195509031	In_Frame_Del	DEL	GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC	TCGA-CJ-5681-01A-11D-1534-10	2476	195509031	2513399	7	21090			1	33		3	3	2840	N	T_GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC_C	4.296229e-06
MUC4	4585	broad.mit.edu	37	chr3	195509394	195509394	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaggggtggcgtgaccTgtggatattgaggaagtgtc	9	10	18	4	1	0	4	0	3	0	1	1	6	0	6	1	5	0	0	1	5	3	2	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	195509394	G	G	195509394	2	3	418	1	0	0	0	0	0	0	0	1	9978	1567	55	5		5	MUC4	3	195509394	Silent	SNP	T	TCGA-CJ-5681-01A-11D-1534-10	363	195509394	2513036	8	21091			1	33		3	3	2840	N	T_GGTGACAGGAAGAGCGGTGGCCTGACCTGTGGATGCTGAGGAAGTGTC_C	4.296229e-06
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56481876	56481876	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggctttcgtcagaaacttgTtaagagttttctgaacttct	9	17	8	7	1	3	3	1	1	2	2	4	3	3	3	0	1	2	3	0	1	3	6	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		C	56481876	T	C	56481876	3	2	418	1	0	0	0	0	1	0	0	0	4783	1725	60	3	14010	3	DST	6	56481876	Missense_Mutation	SNP	T	TCGA-CJ-5681-01A-11D-1534-10		56481876	114633191	9	21092											
SOBP	55084	broad.mit.edu;ucsc.edu	37	chr6	107811866	107811866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcccgaaaataaacggAgcaggaagccggctcaccca	14	3	10	14	3	1	0	1	0	0	0	2	4	2	2	4	3	3	2	4	3	5	1	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	107811866	G	G	107811866	3	3	418	1	0	0	0	0	1	0	0	0	14914	304	11	3	48	3	SOBP	6	107811866	Missense_Mutation	SNP	A	TCGA-CJ-5681-01A-11D-1534-10	51329990	107811866	63303201	10	21093											
SEMA3A	10371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	83640554	83640554	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcactgagcaaatcagAcgagctttgaggaatgttgt	11	10	12	8	1	1	3	1	2	0	1	1	5	1	4	1	2	2	4	1	2	2	2	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	83640554	A	G	83640554	2	3	418	1	0	0	0	0	0	0	0	1	14026	262	10	3		3	SEMA3A	7	83640554	Silent	SNP	A	TCGA-CJ-5681-01A-11D-1534-10		83640554	75498109	11	21094											
PLOD3	8985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100860059	100860059	+	Missense_Mutation	SNP	G	G	T																															tgtggccacagtgatcaccaGcagcttctctgttaccagag																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	100860059	G	T	100860059	3	4	418	1	0	0	0	0	1	0	0	0	12103	962	34	4	2170	4	PLOD3	7	100860059	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10	17219505	100860059	58278604	12	21095	277	2									
PLOD3	8985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100860060	100860060	+	Silent	SNP	C	C	A																															gtggccacagtgatcaccagCagcttctctgttaccagagg																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	100860060	C	A	100860060	2	1	418	1	0	0	0	0	0	0	0	1	12103	697	25	4		4	PLOD3	7	100860060	Silent	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	1	100860060	58278603	13	21096	277	2									
FAM71F2	346653	broad.mit.edu;ucsc.edu	37	chr7	128323136	128323136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccttgagccacagcctctggGaacaagaggactggaatgag	12	6	13	10	0	1	3	0	2	1	1	1	6	1	6	3	3	3	0	3	3	3	1	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	128323136	A	A	128323136	3	1	418	1	0	0	0	0	1	0	0	0	5613	1175	41	2	871	2	FAM71F2	7	128323136	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10	27463076	128323136	30815527	14	21097											
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	61754584	61754584	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaggagtgaatgtttcaGggtggagaagaatctgcttg	11	11	15	4	0	2	3	1	1	1	2	2	5	2	4	0	3	2	3	0	3	4	2	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	61754584	G	A	61754584	3	1	418	1	0	0	0	0	1	0	0	0	3330	1000	35	2	4901	2	CHD7	8	61754584	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10		61754584	84609438	15	21098											
KIF27	55582	broad.mit.edu;hgsc.bcm.edu	37	chr9	86474157	86474157	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccttttctttctggaggaCttcaacttgttctgaaatct	8	18	6	9	0	5	1	1	1	4	0	6	3	6	3	1	2	1	1	1	2	2	6	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	86474157	C	A	86474157	3	1	418	1	0	0	0	0	1	0	0	0	8296	565	20	4	1161	4	KIF27	9	86474157	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		86474157	54739274	16	21099											
SLC16A9	220963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61432539	61432539	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttccttacctacaacaatgCcataggaaaaaaacagaaag	19	7	6	9	0	0	1	0	0	0	1	1	2	1	2	3	1	5	1	3	1	9	4	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	61432539	C	G	61432539	3	3	418	1	0	0	0	0	1	0	0	0	14417	739	26	4	1216	4	SLC16A9	10	61432539	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		61432539	74102208	17	21100											
OR5W2	390148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55681849	55681849	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcagtagaatagcagagAtcacagaaagacagatgact	17	7	11	6	0	1	6	1	1	0	5	1	7	1	6	0	0	2	4	0	0	4	3	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	55681849	A	T	55681849	3	4	418	1	0	0	0	0	1	0	0	0	11185	330	12	5	724	5	OR5W2	11	55681849	Missense_Mutation	SNP	A	TCGA-CJ-5681-01A-11D-1534-10		55681849	79324667	18	21101											
IGFBP6	3489	broad.mit.edu	37	chr12	53491636	53491638	+	In_Frame_Del	DEL	GGA	-	-																															ggttgtccagggggctgcgtGgaggaggaggatggggggtc																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		-	53491638	-	-	53491636	7	5	418	1	0	1	0	1	0	0	0	0	7583	1335	47	0	137	0	IGFBP6	12	53491636	In_Frame_Del	DEL	GGA	TCGA-CJ-5681-01A-11D-1534-10		53491636	80360259	19	21102											
MSI1	4440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	120791103	120791103	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatactgagcaggacttaccGgggaactggtaggtgtagcc	10	8	15	8	1	0	1	0	1	0	0	0	4	0	3	2	5	5	3	2	5	5	4	rs140182426		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	120791103	G	A	120791103	2	1	418	1	0	0	0	0	0	0	0	1	9875	1130	39	1		1	MSI1	12	120791103	Silent	SNP	G	TCGA-CJ-5681-01A-11D-1534-10	67299467	120791103	13060792	20	21103											
NIPA2	81614	hgsc.bcm.edu	37	chr15	23006304	23006304	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggttaagctttcttcatTattattaagaacttcataca	14	16	4	7	0	3	1	2	0	1	1	3	1	3	1	0	1	3	2	0	1	6	8	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		C	23006304	T	C	23006304	3	2	418	1	0	0	0	0	1	0	0	0	10423	1754	61	3	86	3	NIPA2	15	23006304	Missense_Mutation	SNP	T	TCGA-CJ-5681-01A-11D-1534-10		23006304	79525088	21	21104											
ZFHX3	463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	72831125	72831125	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagtgtcagtgccccaCtggtcactggcaagctcacc	8	8	10	15	0	4	0	4	0	0	0	4	0	4	0	3	2	2	2	3	2	1	0	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	72831125	C	A	72831125	3	1	418	1	0	0	0	0	1	0	0	0	17633	565	20	4	5663	4	ZFHX3	16	72831125	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		72831125	17523628	22	21105											
ZFHX3	463	hgsc.bcm.edu	37	chr16	72992581	72992581	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagtcctttgcaaccctcGtcttcctcctcctcttcttc	5	15	4	17	1	3	1	0	0	3	1	9	1	7	1	5	0	2	1	5	0	2	4	rs143031716	alternate_allele	TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	72992581	G	T	72992581	3	4	418	1	0	0	0	0	1	0	0	0	17633	1136	40	4	9683	4	ZFHX3	16	72992581	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10	161456	72992581	17362172	23	21106											
ZCCHC14	23174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	87493617	87493621	+	Frame_Shift_Del	DEL	TGCTG	TGCTG	-																															cccgtgcgtgcactcaccttTgctgtgttttcctaagggcc																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	TGCTG	TGCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		-	87493621	TGCTG	-	87493617	7	5	418	1	0	1	0	1	0	0	0	0	17582	1821	63	0	2617	0	ZCCHC14	16	87493617	Frame_Shift_Del	DEL	TGCTG	TCGA-CJ-5681-01A-11D-1534-10	14501036	87493617	2861136	24	21107											
SCPEP1	59342	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	55058513	55058513	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacggtccgcaaggatgcCtacatgttctggtggctcta	7	11	13	10	2	2	1	0	1	2	0	3	2	3	2	2	4	2	3	2	4	3	3	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	55058513	C	G	55058513	2	3	418	1	0	0	0	0	0	0	0	1	13937	668	24	4		4	SCPEP1	17	55058513	Silent	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		55058513	26136697	25	21108											
NPC1	4864	broad.mit.edu;ucsc.edu	37	chr18	21141440	21141440	+	Missense_Mutation	SNP	G	T	T																															tcccacacaggagtcccaggGccttgtcattacttgagggg																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	21141440	T	T	21141440	3	4	418	1	0	0	0	0	1	0	0	0	10570	1203	42	4	3405	4	NPC1	18	21141440	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10		21141440	56935808	26	21109	278	2									
NPC1	4864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	21141441	21141441	+	Missense_Mutation	SNP	C	C	T																															cccacacaggagtcccagggCcttgtcattacttgaggggg																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	21141441	C	T	21141441	3	4	418	1	0	0	0	0	1	0	0	0	10570	739	26	2	3406	2	NPC1	18	21141441	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	1	21141441	56935807	27	21110	278	2									
CCDC124	115098	broad.mit.edu	37	chr19	18054506	18054506	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaccagcgggccgtgccCttcaatgcccccaagtgagc	9	6	11	15	2	1	2	1	2	0	0	1	2	1	2	5	1	5	0	5	1	3	1	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	18054506	T	T	18054506	2	4	418	1	0	0	0	0	0	0	0	1	2760	668	24	2		2	CCDC124	19	18054506	Silent	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		18054506	41074477	28	21111											
LILRB1	10859	broad.mit.edu;hgsc.bcm.edu	37	chr19	55143551	55143551	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcccagccccatgcccGtgggtcgtcccgcgccatct	5	7	10	19	4	1	0	0	0	1	0	4	1	3	0	6	1	3	0	6	1	1	0	rs112916853	byfrequency	TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		A	55143551	G	A	55143551	3	1	418	1	0	0	0	0	1	0	0	0	8790	1145	40	1	538	1	LILRB1	19	55143551	Missense_Mutation	SNP	G	TCGA-CJ-5681-01A-11D-1534-10	37089045	55143551	3985432	29	21112											
RBM39	9584	broad.mit.edu;ucsc.edu	37	chr20	34319917	34319917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgacttcttgagcggctcCgtcgcctctctttgcttcta	3	15	8	15	4	3	1	0	1	3	0	7	2	4	1	2	1	2	2	2	1	1	5	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	34319917	T	T	34319917	3	4	418	1	0	0	0	0	1	0	0	0	13135	652	23	1	1406	1	RBM39	20	34319917	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10		34319917	28705603	30	21113											
NEFH	4744	hgsc.bcm.edu	37	chr22	29885580	29885581	+	In_Frame_Ins	INS	-	-	AGGCCAAGTCCCCTGAGA																															ggaagcaaagtcccctgagaINSaggccaagtccccagagaag																								novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		AGGCCAAGTCCCCTGAGA	29885581	-	AGGCCAAGTCCCCTGAGA	29885580	7	5	418	1	0	1	1	0	0	0	0	0	10314	247	9	0	1965	0	NEFH	22	29885580	In_Frame_Ins	INS	-	TCGA-CJ-5681-01A-11D-1534-10		29885580	21418986	31	21114											
RGAG1	57529	hgsc.bcm.edu	37	chrX	109696032	109696032	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcacccaagatcctggAgggatgtccatgtcgcccat	10	8	11	12	1	0	2	0	1	0	1	3	4	2	4	4	2	1	1	4	2	1	0	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		G	109696032	A	G	109696032	2	3	418	1	0	0	0	0	0	0	0	1	13276	291	11	3		3	RGAG1	23	109696032	Silent	SNP	A	TCGA-CJ-5681-01A-11D-1534-10		109696032	45574528	32	21115											
AFF2	2334	broad.mit.edu;ucsc.edu	37	chrX	148037884	148037884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcagcaacaacaacttatCcatcagtaatgaagagccaa	17	7	7	10	0	1	2	1	1	0	1	2	2	2	2	2	1	5	3	2	1	7	2	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	148037884	T	T	148037884	3	4	418	1	0	0	0	0	1	0	0	0	357	855	30	2	2406	2	AFF2	23	148037884	Missense_Mutation	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	38341852	148037884	7232676	33	21116											
ZNF185	7739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	152086678	152086678	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctggctacaagatgacCactgaggattacaagaagct	13	9	9	10	0	1	4	0	2	1	2	2	5	2	5	2	2	3	2	2	2	5	2	novel		TCGA-CJ-5681-01A-11D-1534-10	TCGA-CJ-5681-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9ae0744a-9bc1-4cd7-b7cf-c6569ed9e4aa	18405e90-5663-4bf6-a93e-eb84613a8d4c		T	152086678	C	T	152086678	2	4	418	1	0	0	0	0	0	0	0	1	17751	581	21	2		2	ZNF185	23	152086678	Silent	SNP	C	TCGA-CJ-5681-01A-11D-1534-10	4048794	152086678	3183882	34	21117											
PTCHD2	57540	broad.mit.edu;hgsc.bcm.edu	37	chr1	11579864	11579864	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgggcagccgcggccatctCatcgtgcagctgcaggagct	7	6	14	14	4	1	0	1	0	1	0	3	1	1	1	2	3	5	5	2	3	0	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	11579864	C	T	11579864	2	4	419	1	0	0	0	0	0	0	0	1	12735	813	29	2		2	PTCHD2	1	11579864	Silent	SNP	C	TCGA-CJ-5682-01A-11D-1534-10		11579864	237670757	1	21118											
ZBTB40	9923	broad.mit.edu;ucsc.edu	37	chr1	22843894	22843894	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacaagccctatgtctgcAgagactgtggcaagggcttc	9	8	14	10	0	1	1	0	0	1	1	2	3	1	2	1	3	2	3	1	3	3	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	22843894	G	G	22843894	3	3	419	1	0	0	0	0	1	0	0	0	17541	180	7	3	2816	3	ZBTB40	1	22843894	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	11264030	22843894	226406727	2	21119											
CDC14A	8556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100964518	100964518	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccggctagccagttctctAgggaacttgaatgctgcaac	9	10	10	12	1	1	1	0	1	1	0	3	2	2	2	2	2	5	4	2	2	5	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	100964518	A	G	100964518	2	3	419	1	0	0	0	0	0	0	0	1	3056	407	15	3		3	CDC14A	1	100964518	Silent	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	78120624	100964518	148286103	3	21120											
ATP1A1	476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	116939249	116939249	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcacaggagaccatccaatCacagctaaagctattgccaa	15	7	7	12	0	2	1	2	0	0	1	3	2	3	1	3	1	3	2	3	1	5	3	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	116939249	C	G	116939249	3	3	419	1	0	0	0	0	1	0	0	0	1128	816	29	4	1936	4	ATP1A1	1	116939249	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	15974731	116939249	132311372	4	21121											
NBPF9	400818	broad.mit.edu	37	chr1	144220850	144220850	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggactcactggatagatgTtattcgactccttcaggtta	10	13	9	9	1	2	1	2	0	0	1	4	4	3	3	1	3	0	2	1	3	3	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	144220850	G	G	144220850	3	3	419	1	0	0	0	0	1	0	0	0	10199	1740	60	5		5	NBPF9	1	144220850	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	27281601	144220850	105029771	5	21122											
THEM5	284486	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151824751	151824751	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tacctgaggaaactgccagtCcagatgggagcttgagtccc	10	8	12	11	0	0	3	0	2	0	1	2	5	2	5	4	2	4	1	4	2	2	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	151824751	C	A	151824751	3	1	419	1	0	0	0	0	1	0	0	0	15858	855	30	4	455	4	THEM5	1	151824751	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	7603901	151824751	97425870	6	21123											
NOS1AP	9722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	162324998	162324999	+	Frame_Shift_Ins	INS	-	-	GG																															cgccagctcactggagccgaINSgagggcctccacggccactg																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		GG	162324999	-	GG	162324998	7	5	419	1	0	1	1	0	0	0	0	0	10542	304	11	0	643	0	NOS1AP	1	162324998	Frame_Shift_Ins	INS	-	TCGA-CJ-5682-01A-11D-1534-10	10500247	162324998	86925623	7	21124											
RYR2	6262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	237664189	237664189	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctttccagtcgttagtttCtctgcaggaataaagttagt	9	17	8	7	1	2	0	0	0	2	0	5	1	3	1	1	1	1	4	1	1	5	6	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	237664189	C	G	237664189	3	3	419	1	0	0	0	0	1	0	0	0	13771	912	32	4	2464	4	RYR2	1	237664189	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	75339191	237664189	11586432	8	21125											
ALK	238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29455209	29455209	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttagccctagaaccgaggAgttattctccagtctctctg	8	13	9	11	1	3	1	0	0	3	1	5	3	3	2	3	1	2	2	3	1	4	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	29455209	A	G	29455209	3	3	419	1	0	0	0	0	1	0	0	0	525	304	11	3	2329	3	ALK	2	29455209	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10		29455209	213744164	9	21126											
EPB41L5	57669	hgsc.bcm.edu;ucsc.edu	37	chr2	120847955	120847966	+	In_Frame_Del	DEL	ACTGGATCATCC	ACTGGATCATCC	-																															gaacatacatttgtctttagActggatcatccaaaagcatg																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	ACTGGATCATCC	ACTGGATCATCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	120847966	ACTGGATCATCC	-	120847955	7	5	419	1	0	1	0	1	0	0	0	0	5157	272	10	0	948	0	EPB41L5	2	120847955	In_Frame_Del	DEL	ACTGGATCATCC	TCGA-CJ-5682-01A-11D-1534-10	91392746	120847955	122351418	10	21127											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179631234	179631234	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccactacatatttgtgtcGttcttgaacttggaaattga	10	17	7	7	1	1	2	0	2	1	0	3	3	2	3	1	1	2	1	1	1	4	8	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	179631234	G	A	179631234	4	1	419	1	0	0	0	0	0	1	0	0	16734	1153	40	1	101699	1	TTN	2	179631234	Nonsense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	58783279	179631234	63568139	11	21128											
DNPEP	23549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220239735	220239735	+	Missense_Mutation	SNP	C	C	A																															acagggggtgtcattccggaCcatgagatcctagggagagc																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	220239735	C	A	220239735	3	1	419	1	0	0	0	0	1	0	0	0	4679	507	18	4	216	4	DNPEP	2	220239735	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	40608501	220239735	22959638	12	21129	279	2									
DNPEP	23549	broad.mit.edu;ucsc.edu	37	chr2	220239736	220239736	+	Missense_Mutation	SNP	C	A	A																															cagggggtgtcattccggacCatgagatcctagggagagca																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	220239736	A	A	220239736	3	1	419	1	0	0	0	0	1	0	0	0	4679	594	21	4	217	4	DNPEP	2	220239736	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	1	220239736	22959637	13	21130	279	2									
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47098903	47098903	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacctcttgctcaaacAacttccggcgttcctctgta	8	11	7	15	2	3	0	1	0	2	0	5	1	5	0	4	1	4	3	4	1	3	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	47098903	A	T	47098903	4	4	419	1	0	0	0	0	0	1	0	0	14133	131	5	5	1351	5	SETD2	3	47098903	Nonsense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10		47098903	150923527	14	21131											
TREX1	11277	broad.mit.edu;hgsc.bcm.edu	37	chr3	48508682	48508682	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctcagcatctgtcagTggagaccacaggccctgctg	7	8	11	15	0	3	1	2	0	1	1	3	2	3	1	3	2	3	3	3	2	0	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	48508682	T	C	48508682	3	2	419	1	0	0	0	0	1	0	0	0	16475	1696	59	3	795	3	TREX1	3	48508682	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	1409779	48508682	149513748	15	21132											
DNAH1	25981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52402795	52402795	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgttcatccgggcgggggCcatcacctccgacaccaaca	8	6	10	17	4	2	0	2	0	0	0	5	1	4	0	5	3	1	1	5	3	1	1	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	52402795	C	A	52402795	3	1	419	1	0	0	0	0	1	0	0	0	4597	739	26	4	5946	4	DNAH1	3	52402795	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	3894113	52402795	145619635	16	21133											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52598080	52598080	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttacctgaagtagtaaatTtcatcatctaccactttagc	12	15	4	10	0	3	1	2	1	1	0	3	1	3	1	2	0	3	2	2	0	7	8	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	52598080	G	G	52598080	3	3	419	1	0	0	0	0	1	0	0	0	11491	1838	64	5	1071	5	PBRM1	3	52598080	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	195285	52598080	145424350	17	21134											
ROPN1B	152015	hgsc.bcm.edu;ucsc.edu	37	chr3	125690967	125690967	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaaggagtttgccaaaGccgccattcgggcgcagccg	8	7	14	12	4	0	1	0	1	0	0	1	2	0	2	4	2	4	3	4	2	2	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	125690967	G	T	125690967	3	4	419	1	0	0	0	0	1	0	0	0	13526	971	34	4	72	4	ROPN1B	3	125690967	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	73092887	125690967	72331463	18	21135											
MCCC1	56922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	182740269	182740269	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttactagcaactccattaAcagaacatttcaggtaagtg	14	12	6	9	0	1	1	1	0	0	1	2	1	2	1	1	1	5	2	1	1	6	6	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	182740269	A	G	182740269	3	3	419	1	0	0	0	0	1	0	0	0	9374	43	2	3	388	3	MCCC1	3	182740269	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	57049302	182740269	15282161	19	21136											
YTHDC1	91746	broad.mit.edu;ucsc.edu	37	chr4	69203460	69203460	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatctttgatattcctcatTtttatactctgtggctgact	8	19	6	8	0	3	3	1	2	2	1	4	3	4	3	1	1	1	1	1	1	3	7	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	69203460	G	G	69203460	3	3	419	1	0	0	0	0	1	0	0	0	17495	1841	64	5	1954	5	YTHDC1	4	69203460	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		69203460	121950816	20	21137											
FSTL5	56884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	162307412	162307412	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagttacaccgtccaccatGacctgtggggaaactgctcc	9	9	9	14	1	1	1	1	1	0	0	3	2	3	2	5	2	3	2	5	2	2	1	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	162307412	G	A	162307412	2	1	419	1	0	0	0	0	0	0	0	1	6080	1277	45	2		2	FSTL5	4	162307412	Silent	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	93103952	162307412	28846864	21	21138											
MAP3K1	4214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	56152549	56152549	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctggaagcacgaatggtTggaaaggagaaataggcgag	15	5	16	5	2	0	1	0	0	0	1	0	6	0	3	1	5	2	2	1	5	5	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	56152549	T	A	56152549	4	1	419	1	0	0	0	0	0	1	0	0	9243	1821	63	5	611	5	MAP3K1	5	56152549	Nonsense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		56152549	124762711	22	21139											
FBN2	2201	hgsc.bcm.edu;ucsc.edu	37	chr5	127686561	127686561	+	Frame_Shift_Del	DEL	T	T	-																															ctcccaataaggctcctaccTagttcacaccgctcacaggg																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	127686561	T	-	127686561	7	5	419	1	0	1	0	1	0	0	0	0	5703	1536	53	0	6107	0	FBN2	5	127686561	Frame_Shift_Del	DEL	T	TCGA-CJ-5682-01A-11D-1534-10	71534012	127686561	53228699	23	21140											
TCERG1	10915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145843272	145843272	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcctcattcagtacctcagCcaacaacagcaatacctgct	12	10	4	15	0	3	0	3	0	0	0	4	0	4	0	4	0	7	3	4	0	5	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	145843272	C	T	145843272	3	4	419	1	0	0	0	0	1	0	0	0	15684	739	26	2	1069	2	TCERG1	5	145843272	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	18156711	145843272	35071988	24	21141											
PANK3	79646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	167993043	167993044	+	Frame_Shift_Del	DEL	TG	TG	-																															cccagtcactcgtttatagtTgtctttggaatggactgcta																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	167993044	TG	-	167993043	7	5	419	1	0	1	0	1	0	0	0	0	11418	1812	63	0	522	0	PANK3	5	167993043	Frame_Shift_Del	DEL	TG	TCGA-CJ-5682-01A-11D-1534-10	22149771	167993043	12922217	25	21142											
ABT1	29777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	26598223	26598223	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccaaggactacaccgaggGatgggtggagttccgtgaca	11	6	14	10	2	0	1	0	1	0	0	1	5	1	4	3	4	1	1	3	4	2	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	26598223	G	T	26598223	3	4	419	1	0	0	0	0	1	0	0	0	101	1174	41	4	329	4	ABT1	6	26598223	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10		26598223	144516844	26	21143											
HLA-E	3133	broad.mit.edu	37	chr6	30459116	30459116	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcagctgtggtggtgccTtctggagaggagcagagata	8	9	18	6	0	1	2	0	0	1	2	1	5	1	3	1	5	3	3	1	5	1	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	30459116	A	A	30459116	2	1	419	1	0	0	0	0	0	0	0	1	7210	1596	56	5		5	HLA-E	6	30459116	Silent	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	3860893	30459116	140655951	27	21144											
PM20D2	135293	broad.mit.edu;ucsc.edu	37	chr6	89871594	89871594	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgaatcatactgaacagTacactgaagctgctggtaag	13	10	9	9	0	1	3	1	3	0	0	1	3	1	3	1	1	5	4	1	1	6	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	89871594	A	A	89871594	3	1	419	1	0	0	0	0	1	0	0	0	12129	1638	57	5	1163	5	PM20D2	6	89871594	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	59412478	89871594	81243473	28	21145											
RPF2	84154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	111346663	111346663	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtacaacttatggaaggattCatatgcagaagcaagaccta	16	9	9	7	0	1	2	1	0	0	2	1	4	1	4	1	2	4	3	1	2	8	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	111346663	C	T	111346663	3	4	419	1	0	0	0	0	1	0	0	0	13549	826	29	2	837	2	RPF2	6	111346663	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	21475069	111346663	59768404	29	21146											
PDE10A	10846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	165844947	165844947	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactgaagcccaggcaagaTttgctgttgcaacctaaaaa	14	9	8	10	0	0	2	0	1	0	1	0	2	0	2	2	1	5	4	2	1	7	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	165844947	T	C	165844947	3	2	419	1	0	0	0	0	1	0	0	0	11630	1493	52	3	1722	3	PDE10A	6	165844947	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	54498284	165844947	5270120	30	21147											
SDK1	221935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	4152925	4152925	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtttttcctttagatttCgaatgaagcaagtgaacatt	11	16	9	5	1	0	3	0	2	0	1	2	4	1	3	1	1	2	2	1	1	5	6	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	4152925	C	T	4152925	4	4	419	1	0	0	0	0	0	1	0	0	13970	876	31	1	3533	1	SDK1	7	4152925	Nonsense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10		4152925	154985738	31	21148											
STK31	56164	broad.mit.edu	37	chr7	23827688	23827688	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcacttcatcagaacaaTgtatttgctttaaaccgtga	13	13	7	8	1	3	2	3	1	0	1	3	3	3	3	1	1	3	2	1	1	5	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	23827688	C	C	23827688	2	2	419	1	0	0	0	0	0	0	0	1	15297	1461	51	3		3	STK31	7	23827688	Silent	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	19674763	23827688	135310975	32	21149											
TECPR1	25851	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	97851019	97851019	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgccccgcggacacctgCttcagcctctgtctcggtgg	3	10	12	16	3	4	0	1	0	3	0	5	1	4	1	4	3	3	1	4	3	0	1	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	97851019	C	G	97851019	3	3	419	1	0	0	0	0	1	0	0	0	15742	796	28	4	402	4	TECPR1	7	97851019	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	74023331	97851019	61287644	33	21150											
GPR85	54329	broad.mit.edu	37	chr7	112724772	112724772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcatggctatagttcGccatagatggatggaggata	11	10	13	7	1	0	1	0	0	0	1	1	4	0	4	1	4	2	4	1	4	4	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	112724772	A	A	112724772	3	1	419	1	0	0	0	0	1	0	0	0	6715	1087	38	1	1111	1	GPR85	7	112724772	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	14873753	112724772	46413891	34	21151											
CCDC136	64753	broad.mit.edu;ucsc.edu	37	chr7	128457873	128457873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaggcctggtggtcatctCggctttgctctggtgctggt	2	15	15	9	1	3	0	1	0	2	0	4	0	3	0	1	6	2	4	1	6	1	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	128457873	T	T	128457873	3	4	419	1	0	0	0	0	1	0	0	0	2770	893	31	1	3491	1	CCDC136	7	128457873	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	15733101	128457873	30680790	35	21152											
UBE2H	7328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129479130	129479130	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggatctatggggttaggaTaggccaataactgaggcagg	12	8	16	5	0	1	1	0	1	1	0	1	4	1	3	1	7	1	2	1	7	5	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	129479130	T	A	129479130	3	1	419	1	0	0	0	0	1	0	0	0	16857	1406	49	5	215	5	UBE2H	7	129479130	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	1021257	129479130	29659533	36	21153											
DENND3	22898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	142186848	142186848	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgggaagaagctggcCgatgaccacaaggtgggaga	11	5	18	7	1	0	3	0	1	0	2	0	6	0	4	2	5	1	2	2	5	3	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	142186848	C	A	142186848	2	1	419	1	0	0	0	0	0	0	0	1	4432	639	23	4		4	DENND3	8	142186848	Silent	SNP	C	TCGA-CJ-5682-01A-11D-1534-10		142186848	4177174	37	21154											
TESK1	7016	broad.mit.edu;hgsc.bcm.edu	37	chr9	35608911	35608911	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcccaggccagatccccgGctttcccgaagccggtcaga	7	7	10	17	3	1	2	1	0	0	2	4	3	4	2	6	3	1	1	6	3	1	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	35608911	G	C	35608911	2	2	419	1	0	0	0	0	0	0	0	1	15766	1190	42	4		4	TESK1	9	35608911	Silent	SNP	G	TCGA-CJ-5682-01A-11D-1534-10		35608911	105604520	38	21155											
SHC3	53358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	91680466	91680466	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcgattaacagggtccttAgccacatatgcaacatagtc	12	10	8	11	1	0	0	0	0	0	0	2	1	1	0	2	1	5	1	2	1	5	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	91680466	A	C	91680466	2	2	419	1	0	0	0	0	0	0	0	1	14274	407	15	5		5	SHC3	9	91680466	Silent	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	56071555	91680466	49532965	39	21156											
RGS3	5998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	116246492	116246492	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagactgcagagacccggcTttccacgagcacttcttctt	8	10	8	15	2	2	2	0	0	2	2	3	4	3	2	3	1	2	3	3	1	0	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	116246492	T	C	116246492	2	2	419	1	0	0	0	0	0	0	0	1	13308	1596	56	3		3	RGS3	9	116246492	Silent	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	24566026	116246492	24966939	40	21157											
SUV39H2	79723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	14941580	14941580	+	Missense_Mutation	SNP	G	G	A																															aaagacgaggacagttctatGacaacaagggaatcacgtat																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	14941580	G	A	14941580	3	1	419	1	0	0	0	0	1	0	0	0	15412	1290	45	2	718	2	SUV39H2	10	14941580	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10		14941580	120593167	41	21158	280	2									
SUV39H2	79723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	14941582	14941582	+	Missense_Mutation	SNP	C	C	A																															agacgaggacagttctatgaCaacaagggaatcacgtatct																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	14941582	C	A	14941582	3	1	419	1	0	0	0	0	1	0	0	0	15412	477	17	4	720	4	SUV39H2	10	14941582	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	2	14941582	120593165	42	21159	280	2									
C10orf118	55088	hgsc.bcm.edu;ucsc.edu	37	chr10	115917317	115917320	+	Frame_Shift_Del	DEL	TTAA	TTAA	-																															tttttgtcttttttacctgtTtaattgtgttcatatgctgc																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	TTAA	TTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	115917320	TTAA	-	115917317	7	5	419	1	0	1	0	1	0	0	0	0	1587	1841	64	0	1997	0	C10orf118	10	115917317	Frame_Shift_Del	DEL	TTAA	TCGA-CJ-5682-01A-11D-1534-10	100975735	115917317	19617430	43	21160											
ZDHHC13	54503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19187855	19187855	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcttttttcttgaggttttgGcaaccatcactattacatat	9	19	5	8	0	3	1	1	1	2	0	3	1	3	1	1	2	2	2	1	2	4	9	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	19187855	G	T	19187855	3	4	419	1	0	0	0	0	1	0	0	0	17602	1203	42	4	1451	4	ZDHHC13	11	19187855	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10		19187855	115818661	44	21161											
OR5F1	338674	broad.mit.edu;hgsc.bcm.edu	37	chr11	55761854	55761854	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctgataataaatctGccagcatctttggggtgatg	9	15	9	8	0	4	2	0	2	4	0	5	2	4	2	1	2	2	1	1	2	3	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	55761854	G	C	55761854	3	2	419	1	0	0	0	0	1	0	0	0	11158	1319	46	4	699	4	OR5F1	11	55761854	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	36573999	55761854	79244662	45	21162											
KRTAP5-11	440051	hgsc.bcm.edu	37	chr11	71293803	71293805	+	In_Frame_Del	DEL	GCC	GCC	-																															ctggagccacagcccccacaGccagagccacagcccccact																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	GCC	GCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	71293805	GCC	-	71293803	7	5	419	1	0	1	0	1	0	0	0	0	8560	958	34	0	393	0	KRTAP5-11	11	71293803	In_Frame_Del	DEL	GCC	TCGA-CJ-5682-01A-11D-1534-10	15531949	71293803	63712713	46	21163											
ST14	6768	hgsc.bcm.edu;ucsc.edu	37	chr11	130069949	130069949	+	Frame_Shift_Del	DEL	G	G	-																															agcctgcatgctctgggccaGggccacatctgcggtgcttc																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	130069949	G	-	130069949	7	5	419	1	0	1	0	1	0	0	0	0	15212	991	35	0	1973	0	ST14	11	130069949	Frame_Shift_Del	DEL	G	TCGA-CJ-5682-01A-11D-1534-10	58776146	130069949	4936567	47	21164											
CD163L1	283316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7520737	7520737	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccacgtgagaaatagaaTaaacagaaccaggagaagga	20	3	11	7	1	0	4	0	1	0	4	0	7	0	5	2	2	2	1	2	2	7	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	7520737	T	G	7520737	3	3	419	1	0	0	0	0	1	0	0	0	2968	1406	49	5	244	5	CD163L1	12	7520737	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		7520737	126331158	48	21165											
LRRK2	120892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	40745464	40745464	+	Missense_Mutation	SNP	C	C	G																															gcaggaatgcaagcatttggCtgggctgtgggcacaccgac																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	40745464	C	G	40745464	3	3	419	1	0	0	0	0	1	0	0	0	9033	796	28	4	6679	4	LRRK2	12	40745464	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	33224727	40745464	93106431	49	21166	281	2									
LRRK2	120892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	40745465	40745465	+	Missense_Mutation	SNP	T	T	A																															caggaatgcaagcatttggcTgggctgtgggcacaccgaca																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	40745465	T	A	40745465	3	1	419	1	0	0	0	0	1	0	0	0	9033	1580	55	5	6680	5	LRRK2	12	40745465	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	1	40745465	93106430	50	21167	281	2									
FMNL3	91010	broad.mit.edu;hgsc.bcm.edu	37	chr12	50045173	50045173	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggatactcacctgacaggCccactgtcaacaccacagag	12	5	10	14	0	2	2	2	1	0	1	2	3	2	3	3	3	2	0	3	3	2	1	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	50045173	C	T	50045173	3	4	419	1	0	0	0	0	1	0	0	0	5953	739	26	2	1467	2	FMNL3	12	50045173	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	9299708	50045173	83806722	51	21168											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu	37	chr12	57588207	57588207	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagccctgcgagcggacCtcactctgctacgcacccag	7	7	9	18	3	2	0	1	0	1	0	3	2	3	1	4	1	5	2	4	1	1	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	57588207	C	A	57588207	2	1	419	1	0	0	0	0	0	0	0	1	8951	668	24	4		4	LRP1	12	57588207	Silent	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	7543034	57588207	76263688	52	21169											
LRCH1	23143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	47279205	47279205	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttttcctactctttagatTaagcacagatattacagaga	13	16	5	7	0	1	3	0	0	1	3	2	4	2	3	1	0	3	1	1	0	5	9	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	47279205	T	C	47279205	3	2	419	1	0	0	0	0	1	0	0	0	8932	1764	61	3	1449	3	LRCH1	13	47279205	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		47279205	67890673	53	21170											
RNASE12	493901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21058840	21058840	+	Frame_Shift_Del	DEL	C	C	-																															ttcatcattcacctcattttCccagaacagaagcaccaaga																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	21058840	C	-	21058840	7	5	419	1	0	1	0	1	0	0	0	0	13404	864	30	0	404	0	RNASE12	14	21058840	Frame_Shift_Del	DEL	C	TCGA-CJ-5682-01A-11D-1534-10		21058840	86290700	54	21171											
SNRPN	6638	broad.mit.edu;hgsc.bcm.edu	37	chr15	25222145	25222145	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctggattggcaggccCtgtccgaggagttgggggac	5	8	17	11	1	0	0	0	0	0	0	1	4	1	3	3	6	1	3	3	6	0	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	25222145	C	G	25222145	3	3	419	1	0	0	0	0	1	0	0	0	14872	681	24	4	403	4	SNRPN	15	25222145	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10		25222145	77309247	55	21172											
HERC2	8924	broad.mit.edu;hgsc.bcm.edu	37	chr15	28499508	28499508	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaagctgttgtatgagctGaaccagaggcaaacactgtt	14	9	11	7	0	0	4	0	2	0	2	0	4	0	4	1	1	4	6	1	1	5	3	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	28499508	G	C	28499508	3	2	419	1	0	0	0	0	1	0	0	0	7058	1299	45	4	11772	4	HERC2	15	28499508	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	3277363	28499508	74031884	56	21173											
TCF12	6938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	57565458	57565458	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtctagaacagcaagtcaGaggtaagtaggttcagccga	14	8	12	7	1	3	2	2	0	1	2	3	3	3	2	1	2	3	4	1	2	6	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	57565458	G	T	57565458	3	4	419	1	0	0	0	0	1	0	0	0	15686	942	33	4	2119	4	TCF12	15	57565458	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	29065950	57565458	44965934	57	21174											
NFATC3	4775	broad.mit.edu;ucsc.edu	37	chr16	68224816	68224816	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggacagagaagtttgatTtgctccatcccacaaacata	14	10	7	10	0	1	2	1	1	0	1	3	4	3	3	2	1	2	2	2	1	3	3	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	68224816	A	A	68224816	2	1	419	1	0	0	0	0	0	0	0	1	10364	1829	64	5		5	NFATC3	16	68224816	Silent	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		68224816	22129937	58	21175											
DHRS7C	201140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	9674867	9674867	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaccacggcgaaaaagaActccgggaagaaggtgcgga	14	2	15	10	4	0	2	0	0	0	2	1	5	1	4	3	5	2	0	3	5	5	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	9674867	A	G	9674867	3	3	419	1	0	0	0	0	1	0	0	0	4497	43	2	3	65	3	DHRS7C	17	9674867	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10		9674867	71520343	59	21176											
SLFN12L	100506736	broad.mit.edu;hgsc.bcm.edu	37	chr17	33802320	33802320	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcctgggaaatcagaagAgcatcacagaggactttgtg	12	10	12	7	0	2	3	2	0	0	3	3	5	3	5	1	2	1	1	1	2	2	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	33802320	A	G	33802320	2	3	419	1	0	0	0	0	0	0	0	1	14737	291	11	3		3	SLFN12L	17	33802320	Silent	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	24127453	33802320	47392890	60	21177											
C17orf66	256957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34182344	34182344	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtgcctcatatacagagAgaaccttgtttttcagcttg	10	14	9	8	0	2	2	2	0	0	2	2	3	2	2	2	1	4	2	2	1	4	7	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	34182344	A	T	34182344	3	4	419	1	0	0	0	0	1	0	0	0	1874	304	11	5	280	5	C17orf66	17	34182344	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	380024	34182344	47012866	61	21178											
CCDC45	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	62506316	62506316	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagttattcctaggagtcaAgaagatgatgcacacaatgt	15	11	9	6	0	1	3	1	1	0	2	2	4	2	4	1	1	1	2	1	1	6	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	62506316	A	C	62506316	3	2	419	1	0	0	0	0	1	0	0	0	2816	69	3	5	184	5	CCDC45	17	62506316	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	28323972	62506316	18688894	62	21179											
UNC13D	201294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73832900	73832900	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgttctgccttgagccgAccctggatccactggtactc	6	11	9	15	1	1	1	0	1	1	0	3	3	2	2	5	2	3	2	5	2	1	3	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	73832900	A	T	73832900	2	4	419	1	0	0	0	0	0	0	0	1	16986	262	10	5		5	UNC13D	17	73832900	Silent	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	11326584	73832900	7362310	63	21180											
MYO5B	4645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47500800	47500800	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatgtgctccacaatccaGccgaacaactgggcatagat	12	9	9	11	1	0	2	0	1	0	1	2	3	2	2	3	1	4	2	3	1	4	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	47500800	G	T	47500800	2	4	419	1	0	0	0	0	0	0	0	1	10079	958	34	4		4	MYO5B	18	47500800	Silent	SNP	G	TCGA-CJ-5682-01A-11D-1534-10		47500800	30576448	64	21181											
GTF2F1	2962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6381619	6381619	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctctcaggctcttcttGggagctactgtaagacgggg	6	12	13	10	1	3	1	1	0	3	1	4	2	3	2	0	4	3	4	0	4	2	5	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		C	6381619	G	C	6381619	3	2	419	1	0	0	0	0	1	0	0	0	6858	1357	47	4	733	4	GTF2F1	19	6381619	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10		6381619	52747364	65	21182											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9087338	9087338	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcatgagaaggtgtggAcataggtggaaaaatagcaa	17	8	13	3	0	1	1	1	1	0	1	1	4	1	3	0	4	1	2	0	4	7	3	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	9087338	A	G	9087338	3	3	419	1	0	0	0	0	1	0	0	0	9973	275	10	3	39382	3	MUC16	19	9087338	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	2705719	9087338	50041645	66	21183											
DNMT1	1786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10250366	10250366	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccacctgcagcacgccgaAggtgcactgatagcccatgc	9	5	11	16	2	0	1	0	1	0	0	0	2	0	1	4	1	5	3	4	1	2	1	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	10250366	A	G	10250366	3	3	419	1	0	0	0	0	1	0	0	0	4675	72	3	3	996	3	DNMT1	19	10250366	Missense_Mutation	SNP	A	TCGA-CJ-5682-01A-11D-1534-10	1163028	10250366	48878617	67	21184											
NFIX	4784	broad.mit.edu;hgsc.bcm.edu	37	chr19	13136046	13136046	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctgctggccaagctgcGcaaggacatccggcccgagt	7	5	14	15	4	0	0	0	0	0	0	1	2	1	1	4	4	3	4	4	4	2	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	13136046	G	T	13136046	3	4	419	1	0	0	0	0	1	0	0	0	10374	1087	38	4	245	4	NFIX	19	13136046	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	2885680	13136046	45992937	68	21185											
NOTCH3	4854	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15276831	15276831	+	Frame_Shift_Del	DEL	C	C	-																															agctgatgtgtcatctgcctCatcctcttcagttggcattg																								novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		-	15276831	C	-	15276831	7	5	419	1	0	1	0	1	0	0	0	0	10550	835	29	0	1547	0	NOTCH3	19	15276831	Frame_Shift_Del	DEL	C	TCGA-CJ-5682-01A-11D-1534-10	2140785	15276831	43852152	69	21186											
LYPD5	284348	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44301842	44301842	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagcactggtgaagggctgGgtcatggatttcctgttgca	8	11	15	7	0	1	1	1	1	0	0	2	3	2	2	1	4	2	4	1	4	2	2	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	44301842	G	T	44301842	2	4	419	1	0	0	0	0	0	0	0	1	9113	1219	43	4		4	LYPD5	19	44301842	Silent	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	29025011	44301842	14827141	70	21187											
CEACAM20	125931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45026873	45026873	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaaggtcatgctggagccctCcatcacctcaaccacctccc	9	7	7	18	0	3	0	3	0	0	0	5	2	5	1	6	2	3	1	6	2	2	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	45026873	C	T	45026873	3	4	419	1	0	0	0	0	1	0	0	0	3191	864	30	2	1286	2	CEACAM20	19	45026873	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	725031	45026873	14102110	71	21188											
ZNF616	90317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52619876	52619876	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatacatacgttttttcccTaatgtgtggagaaactaaac	14	13	6	8	1	0	1	0	0	0	1	1	2	1	1	1	1	4	1	1	1	6	7	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	52619876	T	G	52619876	2	3	419	1	0	0	0	0	0	0	0	1	18040	1521	53	5		5	ZNF616	19	52619876	Silent	SNP	T	TCGA-CJ-5682-01A-11D-1534-10	7593003	52619876	6509107	72	21189											
CPXM1	56265	broad.mit.edu;ucsc.edu	37	chr20	2777900	2777900	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctccctggagccaggtcTggggcagcaggcgaatgaag	8	5	16	12	2	1	1	0	1	1	0	2	3	2	2	3	5	2	2	3	5	2	0	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	2777900	G	G	2777900	3	3	419	1	0	0	0	0	1	0	0	0	3837	1580	55	5	1470	5	CPXM1	20	2777900	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		2777900	60247620	73	21190											
BRWD1	54014	broad.mit.edu;hgsc.bcm.edu	37	chr21	40568620	40568620	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgatctcttcctttttacTtccttctctgctgtttcctg	2	21	5	13	1	2	0	0	0	2	0	7	1	5	0	3	0	3	2	3	0	1	7	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	40568620	T	G	40568620	3	3	419	1	0	0	0	0	1	0	0	0	1525	1606	56	5	834	5	BRWD1	21	40568620	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		40568620	7561275	74	21191											
MYO18B	84700	broad.mit.edu;ucsc.edu	37	chr22	26272193	26272193	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgcatccagaagaatgTggctgtgttcctcgcagtca	10	10	11	10	1	1	2	1	0	0	2	4	2	3	2	2	1	1	4	2	1	2	1	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	26272193	G	G	26272193	3	3	419	1	0	0	0	0	1	0	0	0	10066	1696	59	5	4208	5	MYO18B	22	26272193	Missense_Mutation	SNP	T	TCGA-CJ-5682-01A-11D-1534-10		26272193	25032373	75	21192											
PES1	23481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30973095	30973095	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctcatcgtgggctttccGcttctccgccagcttgttgg	2	13	11	15	4	2	0	1	0	1	0	5	0	3	0	4	2	1	4	4	2	0	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		A	30973095	G	A	30973095	3	1	419	1	0	0	0	0	1	0	0	0	11733	1086	38	1	65	1	PES1	22	30973095	Missense_Mutation	SNP	G	TCGA-CJ-5682-01A-11D-1534-10	4700902	30973095	20331471	76	21193											
RFPL2	10739	broad.mit.edu;hgsc.bcm.edu	37	chr22	32587136	32587136	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttctctgcagactcccaggtCccattctgtgcttgttccca	5	14	7	15	0	2	1	0	0	2	1	6	1	5	1	3	1	2	3	3	1	0	4	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		G	32587136	C	G	32587136	3	3	419	1	0	0	0	0	1	0	0	0	13256	855	30	4	380	4	RFPL2	22	32587136	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10	1614041	32587136	18717430	77	21194											
FAM3A	60343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153735234	153735234	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcttactgttcttcaCgtgctgtggggaggggagca	5	12	16	8	1	2	0	1	0	1	0	2	2	2	2	0	4	4	5	0	4	1	3	novel		TCGA-CJ-5682-01A-11D-1534-10	TCGA-CJ-5682-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	deceb0ba-600f-491a-a207-2e0205ff89d2	377fbab4-2520-4501-98bf-b1193022b81f		T	153735234	C	T	153735234	3	4	419	1	0	0	0	0	1	0	0	0	5556	536	19	1	95	1	FAM3A	23	153735234	Missense_Mutation	SNP	C	TCGA-CJ-5682-01A-11D-1534-10		153735234	1535326	78	21195											
FAM73A	374986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78249000	78249000	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcagcgctaagagtgttTgatcttcctctgacttggta	9	13	10	9	1	2	3	0	2	2	1	3	3	3	3	1	1	2	4	1	1	2	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	78249000	T	C	78249000	2	2	420	1	0	0	0	0	0	0	0	1	5617	1809	63	3		3	FAM73A	1	78249000	Silent	SNP	T	TCGA-CJ-5683-01A-11D-1534-10		78249000	171001621	1	21196											
HIAT1	64645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100503796	100503796	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggatggtaaaatgacccAggggaagaagaagaaacggg	17	3	16	5	2	0	4	0	1	0	3	0	7	0	6	1	5	1	1	1	5	6	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	100503796	A	T	100503796	3	4	420	1	0	0	0	0	1	0	0	0	7097	188	7	5	10	5	HIAT1	1	100503796	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	22254796	100503796	148746825	2	21197											
GPSM2	29899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109466798	109466798	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgactaatgacaacaaagagGctgatgaagatttctttgac	15	11	9	6	0	1	7	0	5	1	2	1	7	1	7	0	1	1	1	0	1	4	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	109466798	G	A	109466798	3	1	420	1	0	0	0	0	1	0	0	0	6735	1203	42	2	1827	2	GPSM2	1	109466798	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	8963002	109466798	139783823	3	21198											
MAGI3	260425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	114193677	114193677	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctgggagcagctgagaaAgatggtcggctccgcgcagc	8	5	15	13	3	0	2	0	1	0	2	2	4	1	3	3	3	3	4	3	3	1	0	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	114193677	A	T	114193677	3	4	420	1	0	0	0	0	1	0	0	0	9192	69	3	5	2343	5	MAGI3	1	114193677	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	4726879	114193677	135056944	4	21199											
WDR3	10885	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	118483544	118483544	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggatggtgcctttgagaCggatgaagcccctgaggatg	10	8	16	7	1	0	4	0	3	0	2	0	8	0	7	3	4	2	0	3	4	1	1	rs142439174	bycluster;byfrequency;by1000genomes	TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	118483544	C	T	118483544	3	4	420	1	0	0	0	0	1	0	0	0	17284	536	19	1	792	1	WDR3	1	118483544	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	4289867	118483544	130767077	5	21200											
RPTN	126638	broad.mit.edu;ucsc.edu	37	chr1	152127611	152127611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgttggtgatgttggCtatcctcttcaggctcccat	4	17	11	9	0	2	1	1	1	1	0	4	1	4	1	2	3	0	5	2	3	1	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	152127611	T	T	152127611	3	4	420	1	0	0	0	0	1	0	0	0	13666	797	28	2	394	2	RPTN	1	152127611	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	33644067	152127611	97123010	6	21201											
FDPS	2224	broad.mit.edu;hgsc.bcm.edu	37	chr1	155279736	155279736	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgcccgctgctggtgccaAgcgtggacagaggaacctcg	8	6	15	12	3	0	1	0	0	0	1	1	3	0	3	3	3	5	2	3	3	2	0	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	155279736	A	G	155279736	2	3	420	1	0	0	0	0	0	0	0	1	5803	69	3	3		3	FDPS	1	155279736	Silent	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	3152125	155279736	93970885	7	21202											
RNASEL	6041	broad.mit.edu;ucsc.edu	37	chr1	182551376	182551376	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccttctttaccacatagagGaccagccgtccaaggtcctg	9	9	8	15	1	1	1	0	0	1	1	3	2	3	2	6	2	2	0	6	2	3	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	182551376	A	A	182551376	2	1	420	1	0	0	0	0	0	0	0	1	13418	1161	41	2		2	RNASEL	1	182551376	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	27271640	182551376	66699245	8	21203											
NFASC	23114	broad.mit.edu;hgsc.bcm.edu	37	chr1	204955082	204955082	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgaagaacctgtgggtGtctcagaagagacagcaagc	12	8	13	8	0	1	4	1	1	1	3	2	5	1	4	1	1	4	2	1	1	4	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	204955082	G	A	204955082	2	1	420	1	0	0	0	0	0	0	0	1	10359	1364	48	2		2	NFASC	1	204955082	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	22403706	204955082	44295539	9	21204											
C1orf55	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	226180697	226180697	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagtgctcggagcatagatCcaaaacctgagcagatgtat	14	8	10	9	1	0	3	0	1	0	2	2	4	1	4	2	1	4	4	2	1	5	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	226180697	C	A	226180697	3	1	420	1	0	0	0	0	1	0	0	0	2047	855	30	4	1130	4	C1orf55	1	226180697	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	21225615	226180697	23069924	10	21205											
OBSCN	84033	broad.mit.edu;hgsc.bcm.edu	37	chr1	228403481	228403481	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcctgcacggggcgcagctGaagttcgtggccaacggcat	8	6	15	12	4	0	1	0	1	0	0	1	1	0	1	2	4	4	5	2	4	2	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	228403481	G	C	228403481	2	2	420	1	0	0	0	0	0	0	0	1	10812	1277	45	4		4	OBSCN	1	228403481	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	2222784	228403481	20847140	11	21206											
CNST	163882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	246797267	246797267	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctagaacgattgtatCatgagcaattgctcgcaaat	13	12	8	8	2	2	2	2	1	0	1	3	3	2	2	0	0	4	5	0	0	5	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	246797267	C	A	246797267	3	1	420	1	0	0	0	0	1	0	0	0	3634	826	29	4	672	4	CNST	1	246797267	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	18393786	246797267	2453354	12	21207											
TNFAIP6	7130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152220485	152220485	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccggtgtgtaccacagagaAgcacggtctggcaaatacaa	13	6	12	10	2	1	1	0	0	1	1	1	2	1	1	2	3	3	3	2	3	5	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	152220485	A	C	152220485	3	2	420	1	0	0	0	0	1	0	0	0	16274	69	3	5	129	5	TNFAIP6	2	152220485	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10		152220485	90978888	13	21208											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170026249	170026249	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgcatccaaacagtcagcGgatccatcgcatttcagttc	11	9	8	13	3	2	0	2	0	0	0	6	2	4	1	2	1	2	3	2	1	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	170026249	G	A	170026249	2	1	420	1	0	0	0	0	0	0	0	1	8956	1103	39	1		1	LRP2	2	170026249	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	17805764	170026249	73173124	14	21209											
TMEM198	130612	broad.mit.edu	37	chr2	220412692	220412692	+	Frame_Shift_Del	DEL	C	-	-																															gactccgggctgctcctgtgCccccactctgctggcgaagc																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	220412692	-	-	220412692	7	5	420	1	0	1	0	1	0	0	0	0	16118	739	26	0	637	0	TMEM198	2	220412692	Frame_Shift_Del	DEL	C	TCGA-CJ-5683-01A-11D-1534-10	50386443	220412692	22786681	15	21210											
UGT1A4	54657	broad.mit.edu	37	chr2	234628268	234628268	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtgatggactaccccaggCcgatcatgcccaacatggtc	9	9	10	13	1	1	1	1	1	0	0	2	3	1	2	4	3	3	0	4	3	2	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	234628268	A	A	234628268	3	1	420	1	0	0	0	0	1	0	0	0	16946	739	26	4	804	4	UGT1A4	2	234628268	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	14215576	234628268	8571105	16	21211											
BOC	91653	broad.mit.edu;hgsc.bcm.edu	37	chr3	112998705	112998705	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcgagtccgggctctgaaCatgctgggggagagcgagcc	7	8	16	10	3	1	2	0	1	1	1	3	5	2	2	2	3	4	2	2	3	1	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	112998705	C	A	112998705	3	1	420	1	0	0	0	0	1	0	0	0	1481	477	17	4	2097	4	BOC	3	112998705	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10		112998705	85023725	17	21212											
MUC13	56667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	124635228	124635228	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaattttctcagtcacagtCttctcattgtcacttgtggt	7	19	6	9	0	5	0	4	0	3	0	7	0	5	0	0	1	0	0	0	1	1	6	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	124635228	C	T	124635228	2	4	420	1	0	0	0	0	0	0	0	1	9971	912	32	2		2	MUC13	3	124635228	Silent	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	11636523	124635228	73387202	18	21213											
MUC4	4585	hgsc.bcm.edu	37	chr3	195514998	195515045	+	In_Frame_Del	DEL	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	-																															gcatcagtgacatgaagaggGgtggtgtgacctgtggatac																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	195515045	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	-	195514998	7	5	420	1	0	1	0	1	0	0	0	0	9978	1219	43	0		0	MUC4	3	195514998	In_Frame_Del	DEL	GGTGGTGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGA	TCGA-CJ-5683-01A-11D-1534-10	70879770	195514998	2507432	19	21214											
PAPSS1	9061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	108574727	108574727	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccatcattccaataaactCgatccaagacttgaagatct	15	10	5	11	1	2	3	1	1	1	2	5	5	4	3	3	0	1	0	3	0	5	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	108574727	C	T	108574727	3	4	420	1	0	0	0	0	1	0	0	0	11434	884	31	1	733	1	PAPSS1	4	108574727	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10		108574727	82579549	20	21215											
GLRA3	8001	broad.mit.edu;ucsc.edu	37	chr4	175649781	175649781	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggtctaaagagtcgtcAggatattcactgtacgcgag	11	10	12	8	4	3	1	2	0	1	1	5	4	3	2	0	2	1	1	0	2	4	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	175649781	G	G	175649781	2	3	420	1	0	0	0	0	0	0	0	1	6456	175	7	3		3	GLRA3	4	175649781	Silent	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	67075054	175649781	15504495	21	21216											
SLC35A4	113829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139946853	139946853	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccatgtacggtgcccaTgccccattgctggcactgtg	6	10	11	14	1	0	0	0	0	0	0	0	0	0	0	4	2	5	3	4	2	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	139946853	T	C	139946853	2	2	420	1	0	0	0	0	0	0	0	1	14575	1461	51	3		3	SLC35A4	5	139946853	Silent	SNP	T	TCGA-CJ-5683-01A-11D-1534-10		139946853	40968407	22	21217											
PCDHB14	56122	broad.mit.edu;hgsc.bcm.edu	37	chr5	140605198	140605198	+	Frame_Shift_Del	DEL	G	G	-																															ttcctcttctcggtgctcctGttcgtggcggtgcggctgtg																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	140605198	G	-	140605198	7	5	420	1	0	1	0	1	0	0	0	0	11539	1364	48	0	2123	0	PCDHB14	5	140605198	Frame_Shift_Del	DEL	G	TCGA-CJ-5683-01A-11D-1534-10	658345	140605198	40310062	23	21218											
TCP11	6954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	35086231	35086231	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtctaatagagaccgctGcacaccaagaaccaaacagc	17	4	8	12	1	1	2	0	0	1	2	1	3	1	2	3	1	4	2	3	1	6	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	35086231	G	A	35086231	4	1	420	1	0	0	0	0	0	1	0	0	15712	1328	46	2	188	2	TCP11	6	35086231	Nonsense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10		35086231	136028836	24	21219											
HTR1E	3354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	87725912	87725912	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctctagcaccagggaacGgaaggcagcacgcatcctgg	11	5	13	12	2	1	0	0	0	1	0	3	3	2	2	2	4	3	4	2	4	3	1	rs61735411		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	87725912	G	A	87725912	3	1	420	1	0	0	0	0	1	0	0	0	7439	1116	39	1	862	1	HTR1E	6	87725912	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	52639681	87725912	83389155	25	21220											
FBXO30	84085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146126842	146126842	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaagatgatcttggtcttTcaagttttgatcctctaagc	11	16	7	7	0	4	3	1	2	3	1	5	3	5	3	1	1	1	1	1	1	4	6	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	146126842	T	C	146126842	3	2	420	1	0	0	0	0	1	0	0	0	5740	1792	62	3	1545	3	FBXO30	6	146126842	Missense_Mutation	SNP	T	TCGA-CJ-5683-01A-11D-1534-10	58400930	146126842	24988225	26	21221											
SDK1	221935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	4218194	4218194	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcccagccagcgcgcccGtggaggtctttgtcggcgag	6	6	16	13	5	1	1	0	0	1	1	2	3	1	2	3	3	3	0	3	3	0	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	4218194	G	A	4218194	3	1	420	1	0	0	0	0	1	0	0	0	13970	1145	40	1	5212	1	SDK1	7	4218194	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10		4218194	154920469	27	21222											
RBAK	57786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	5105059	5105059	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaatgtaatgaatgtgggAaagtcttttctcagaagtca	14	13	10	4	0	3	3	2	2	2	1	4	4	3	4	0	1	0	1	0	1	5	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	5105059	A	G	5105059	3	3	420	1	0	0	0	0	1	0	0	0	13102	247	9	3	1986	3	RBAK	7	5105059	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	886865	5105059	154033604	28	21223											
TNRC18	84629	broad.mit.edu	37	chr7	5352305	5352305	+	Frame_Shift_Del	DEL	G	-	-																															ttggccccggcctgagccttGggctgcagaggctgtgtggg																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	5352305	-	-	5352305	7	5	420	1	0	1	0	1	0	0	0	0	16338	1335	47	0	705	0	TNRC18	7	5352305	Frame_Shift_Del	DEL	G	TCGA-CJ-5683-01A-11D-1534-10	247246	5352305	153786358	29	21224											
CCDC126	90693	broad.mit.edu;ucsc.edu	37	chr7	23650959	23650959	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttacaatctcaagaaaaAatatgtcccagaaattgagt	17	13	5	6	0	1	3	1	1	1	2	3	3	2	3	1	0	1	0	1	0	8	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	23650959	C	C	23650959	3	2	420	1	0	0	0	0	1	0	0	0	2762	14	1	5	27	5	CCDC126	7	23650959	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	18298654	23650959	135487704	30	21225											
AKAP9	10142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91709305	91709305	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaggttgttgaaatgcatActagtttgattttagaaaaa	14	14	9	4	0	0	3	0	2	0	1	0	3	0	3	1	1	2	4	1	1	6	7	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	91709305	A	T	91709305	3	4	420	1	0	0	0	0	1	0	0	0	459	391	14	5	7980	5	AKAP9	7	91709305	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	68058346	91709305	67429358	31	21226											
AZGP1	563	broad.mit.edu	37	chr7	99573623	99573623	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcagcagcagagacagcagGacaggcaccattcttaccat	14	5	10	12	0	1	1	0	0	1	1	1	3	1	2	2	2	5	5	2	2	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	99573623	T	T	99573623	2	4	420	1	0	0	0	0	0	0	0	1	1239	1161	41	4		4	AZGP1	7	99573623	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	7864318	99573623	59565040	32	21227											
EMID2	136227	hgsc.bcm.edu	37	chr7	101063320	101063320	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagaatggctcggagaCggtggtccagcgcgtgtacc	7	7	17	10	4	0	2	0	0	0	2	2	3	1	2	2	5	3	3	2	5	2	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	101063320	C	T	101063320	3	4	420	1	0	0	0	0	1	0	0	0	5092	536	19	1	227	1	EMID2	7	101063320	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	1489697	101063320	58075343	33	21228											
MLL3	58508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151877902	151877902	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgggagacaccagagaacTgctggccttgggagtgcatt	9	9	15	8	0	0	2	0	0	0	2	0	5	0	3	2	3	3	3	2	3	1	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	151877902	T	C	151877902	3	2	420	1	0	0	0	0	1	0	0	0	9622	1580	55	3	7788	3	MLL3	7	151877902	Missense_Mutation	SNP	T	TCGA-CJ-5683-01A-11D-1534-10	50814582	151877902	7260761	34	21229											
NOM1	64434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156759742	156759742	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctaatttggttcatctggtgGcccacttgttgaagacaaaa	11	13	9	8	0	2	2	1	1	1	1	2	2	2	2	1	3	0	2	1	3	4	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	156759742	G	A	156759742	3	1	420	1	0	0	0	0	1	0	0	0	10530	1203	42	2	2288	2	NOM1	7	156759742	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	4881840	156759742	2378921	35	21230											
MTMR7	9108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17157530	17157530	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgaacttttcagattGtcttgggttagaatcagagc	10	14	11	6	0	4	4	2	1	2	3	4	5	4	5	0	2	2	1	0	2	3	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	17157530	G	A	17157530	2	1	420	1	0	0	0	0	0	0	0	1	9948	1368	48	2		2	MTMR7	8	17157530	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10		17157530	129206492	36	21231											
DENND4C	55667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	19305459	19305459	+	Frame_Shift_Del	DEL	A	A	-																															agttggagttgactcaaggtAttttgatcttcatgacccac																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	19305459	A	-	19305459	7	5	420	1	0	1	0	1	0	0	0	0	4435	449	16	0	735	0	DENND4C	9	19305459	Frame_Shift_Del	DEL	A	TCGA-CJ-5683-01A-11D-1534-10		19305459	121907972	37	21232											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55779999	55779999	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaggtggcattgttccatAaatatcaaaggcctctacca	13	10	7	11	0	2	0	1	0	1	0	3	0	3	0	4	3	1	2	4	3	5	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	55779999	A	T	55779999	3	4	420	1	0	0	0	0	1	0	0	0	11511	362	13	5	4838	5	PCDH15	10	55779999	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10		55779999	79754748	38	21233											
TPH1	7166	broad.mit.edu;ucsc.edu	37	chr11	18045491	18045491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagactcttagctgtccatCttgtttacatagaccaaact	13	13	5	10	0	2	2	0	0	2	2	3	2	3	2	2	0	3	2	2	0	5	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	18045491	A	A	18045491	3	1	420	1	0	0	0	0	1	0	0	0	16400	913	32	4	376	4	TPH1	11	18045491	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10		18045491	116961025	39	21234											
FBXO3	26273	broad.mit.edu;ucsc.edu	37	chr11	33790514	33790514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacatcagagtaagtatCtatgaagagagatttccaac	15	11	7	8	0	2	4	1	1	1	3	4	5	4	4	2	0	2	2	2	0	6	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	33790514	A	A	33790514	3	1	420	1	0	0	0	0	1	0	0	0	5739	913	32	4	1219	4	FBXO3	11	33790514	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	15745023	33790514	101216002	40	21235											
SYT12	91683	hgsc.bcm.edu	37	chr11	66816101	66816101	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagcagcagcgacggccGtggggacaacgtgggccatg	9	4	18	10	4	0	1	0	1	0	1	0	4	0	2	2	4	4	2	2	4	1	0	rs141165304	byfrequency	TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	66816101	G	A	66816101	3	1	420	1	0	0	0	0	1	0	0	0	15467	1145	40	1	1165	1	SYT12	11	66816101	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	33025587	66816101	68190415	41	21236											
LRP5	4041	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68183829	68183829	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgttcagccagaaatCtgccatcagtcggatgatcc	9	11	9	12	1	3	2	2	1	1	1	5	3	4	3	3	1	3	2	3	1	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	68183829	C	A	68183829	3	1	420	1	0	0	0	0	1	0	0	0	8960	913	32	4	2911	4	LRP5	11	68183829	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	1367728	68183829	66822687	42	21237											
CLPB	81570	broad.mit.edu;ucsc.edu	37	chr11	72012879	72012879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcatgatggtgagcaCatctggatgggccttgtcta	8	11	13	9	0	2	2	0	2	2	0	2	3	2	3	1	3	3	3	1	3	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	72012879	T	T	72012879	3	4	420	1	0	0	0	0	1	0	0	0	3551	478	17	2	760	2	CLPB	11	72012879	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	3829050	72012879	62993637	43	21238											
MOGAT2	80168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	75438650	75438650	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgctgaccttgtggttccgGgcccccttcttcagagatta	6	13	10	12	1	2	2	1	1	1	1	3	3	3	2	4	2	1	2	4	2	1	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	75438650	G	T	75438650	2	4	420	1	0	0	0	0	0	0	0	1	9695	1219	43	4		4	MOGAT2	11	75438650	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	3425771	75438650	59567866	44	21239											
DPAGT1	1798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118968667	118968667	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatagtagcatggtcttgCtgaagtgtcccaagatgccc	11	10	11	9	0	1	3	0	1	1	2	2	3	2	3	2	1	3	3	2	1	5	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	118968667	C	T	118968667	3	4	420	1	0	0	0	0	1	0	0	0	4710	797	28	2	427	2	DPAGT1	11	118968667	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	43530017	118968667	16037849	45	21240											
USP2	9099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119243611	119243611	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaggtagtcgaccaggtAttcagggcagctggctgtct	7	10	13	11	1	2	0	1	0	1	0	4	1	3	0	2	4	1	5	2	4	2	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	119243611	A	G	119243611	3	3	420	1	0	0	0	0	1	0	0	0	17050	449	16	3	1436	3	USP2	11	119243611	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	274944	119243611	15762905	46	21241											
KRT82	3888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52795073	52795075	+	Frame_Shift_Del	DEL	CTT	CTT	-																															tctctgagcttcctccttacCttcttcaaggcaacaaactc																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	52795075	CTT	-	52795073	7	5	420	1	0	1	0	1	0	0	0	0	8496	695	24	0	888	0	KRT82	12	52795073	Frame_Shift_Del	DEL	CTT	TCGA-CJ-5683-01A-11D-1534-10		52795073	81056822	47	21242											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57548478	57548478	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccagaccatcatccagggCatcctggtgagggagctact	9	7	12	13	1	1	2	1	1	0	1	3	3	3	3	4	3	2	2	4	3	1	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	57548478	C	T	57548478	2	4	420	1	0	0	0	0	0	0	0	1	8951	697	25	2		2	LRP1	12	57548478	Silent	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	4753405	57548478	76303417	48	21243											
EEA1	8411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	93171332	93171332	+	Frame_Shift_Del	DEL	T	T	-																															gactgacctgaagtgattggTtttctctgcccagctcctgc																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	93171332	T	-	93171332	7	5	420	1	0	1	0	1	0	0	0	0	4921	1725	60	0	246	0	EEA1	12	93171332	Frame_Shift_Del	DEL	T	TCGA-CJ-5683-01A-11D-1534-10	35622854	93171332	40680563	49	21244											
TMEM132B	114795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	125834194	125834194	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagccaggacaccccctatTatcaatgccagctatggccc	10	7	8	16	1	1	0	1	0	0	0	1	2	1	1	5	2	3	1	5	2	4	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	125834194	T	C	125834194	2	2	420	1	0	0	0	0	0	0	0	1	16045	1742	61	3		3	TMEM132B	12	125834194	Silent	SNP	T	TCGA-CJ-5683-01A-11D-1534-10	32662862	125834194	8017701	50	21245											
NAA16	79612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	41932483	41932483	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaacactactctgggttcaGtatttcctggcacagcactt	10	12	7	12	0	2	0	1	0	1	0	3	0	3	0	1	2	3	4	1	2	3	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	41932483	G	C	41932483	3	2	420	1	0	0	0	0	1	0	0	0	10119	1020	36	4	1173	4	NAA16	13	41932483	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10		41932483	73237395	51	21246											
RASA3	22821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	114782719	114782719	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccgtgctcacctcctcGatggcgggcttcagggtgac	4	8	14	15	3	2	1	2	1	0	0	4	2	3	1	4	4	1	2	4	4	0	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	114782719	G	T	114782719	2	4	420	1	0	0	0	0	0	0	0	1	13064	1048	37	4		4	RASA3	13	114782719	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	72850236	114782719	387159	52	21247											
METT11D1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21461323	21461323	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacaaactttgatggactTtggctcaggtactggttctg	8	13	11	9	0	2	1	1	1	1	0	2	2	2	2	1	4	2	3	1	4	2	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	21461323	T	G	21461323	3	3	420	1	0	0	0	0	1	0	0	0	9491	1841	64	5	597	5	METT11D1	14	21461323	Missense_Mutation	SNP	T	TCGA-CJ-5683-01A-11D-1534-10		21461323	85888217	53	21248											
MAX	4149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	65569042	65569042	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctctccacctcgatgtCatcgttatcgctcatttcct	5	15	6	15	4	3	0	2	0	1	0	9	1	4	0	3	0	0	3	3	0	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	65569042	C	A	65569042	3	1	420	1	0	0	0	0	1	0	0	0	9339	826	29	4	826	4	MAX	14	65569042	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	44107719	65569042	41780498	54	21249											
TDP1	55775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	90437547	90437547	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatcctgcttgtgcatggtGataagcgagaggctaaggct	10	10	13	8	1	0	2	0	1	0	1	1	3	1	2	1	3	3	4	1	3	3	3	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	90437547	G	A	90437547	3	1	420	1	0	0	0	0	1	0	0	0	15727	1290	45	2	702	2	TDP1	14	90437547	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	24868505	90437547	16911993	55	21250											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	33842489	33842489	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggcaaagtcagacaccaagtCcacagctttctctttccggg	10	9	9	13	1	2	1	1	0	1	1	5	1	4	1	3	2	1	2	3	2	2	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	33842489	C	G	33842489	3	3	420	1	0	0	0	0	1	0	0	0	13772	855	30	4	982	4	RYR3	15	33842489	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10		33842489	68688903	56	21251											
MYO5A	4644	broad.mit.edu;ucsc.edu	37	chr15	52720650	52720650	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggactctgagattatggagCacagcaggctcatgaagata	13	8	12	8	1	2	3	1	2	1	2	2	6	2	5	0	3	2	3	0	3	3	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	52720650	G	G	52720650	2	3	420	1	0	0	0	0	0	0	0	1	10078	697	25	4		4	MYO5A	15	52720650	Silent	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	18878161	52720650	49810742	57	21252											
PIGQ	9091	hgsc.bcm.edu	37	chr16	632283	632283	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcctccggcacgaggccGgcaggcccctccgcctcctg	3	6	13	19	4	0	0	0	0	0	0	4	1	4	0	8	4	0	2	8	4	0	0	rs7187227	bycluster;byfrequency;by1000genomes	TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	632283	G	A	632283	3	1	420	1	0	0	0	0	1	0	0	0	11896	1116	39	1	1601	1	PIGQ	16	632283	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10		632283	89722470	58	21253											
ABAT	18	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	8844355	8844355	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttgatgtggacggcaaccGaatgctggatctttattccc	8	12	12	9	2	1	1	0	1	1	0	2	4	2	3	2	4	2	3	2	4	3	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	8844355	G	A	8844355	3	1	420	1	0	0	0	0	1	0	0	0	27	1058	37	1	289	1	ABAT	16	8844355	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	8212072	8844355	81510398	59	21254											
ACSM2B	348158	broad.mit.edu;hgsc.bcm.edu	37	chr16	20548590	20548590	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagacgcctcactgcgcaCgggcttttccggacatcttc	6	10	9	16	4	2	1	1	0	1	1	4	2	3	2	3	2	1	2	3	2	1	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	20548590	C	T	20548590	3	4	420	1	0	0	0	0	1	0	0	0	184	536	19	1	13	1	ACSM2B	16	20548590	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	11704235	20548590	69806163	60	21255											
SNX20	124460	broad.mit.edu	37	chr16	50709790	50709790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtactgctgaagctccCgcgtggtcatgctggagttg	6	10	14	11	2	1	1	1	1	0	0	2	2	2	2	2	2	4	5	2	2	2	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	50709790	T	T	50709790	3	4	420	1	0	0	0	0	1	0	0	0	14894	652	23	1	928	1	SNX20	16	50709790	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	30161200	50709790	39644963	61	21256											
HYDIN	54768	broad.mit.edu	37	chr16	70889122	70889122	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagttgtcctggaaggaaaAatcgaacccctgctcctcct	10	9	10	12	1	0	0	0	0	0	0	4	4	3	3	5	3	2	2	5	3	4	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	70889122	T	T	70889122	3	4	420	1	0	0	0	0	1	0	0	0	7467	14	1	5	3069	5	HYDIN	16	70889122	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10	20179332	70889122	19465631	62	21257											
SLC47A2	146802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	19610039	19610039	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggacagccagggagaagaAggggccccagtcctgcaggc	10	2	18	11	0	0	2	0	0	0	2	1	4	1	3	4	6	2	1	4	6	2	0	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	19610039	A	G	19610039	3	3	420	1	0	0	0	0	1	0	0	0	14650	72	3	3	973	3	SLC47A2	17	19610039	Missense_Mutation	SNP	A	TCGA-CJ-5683-01A-11D-1534-10		19610039	61585171	63	21258											
KRT13	3860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39659227	39659227	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcatcccggcggttccTctctgccatggcctcgtact	4	11	9	17	3	2	0	1	0	1	0	6	0	4	0	4	3	3	3	4	3	1	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	39659227	T	C	39659227	3	2	420	1	0	0	0	0	1	0	0	0	8450	1550	54	3	537	3	KRT13	17	39659227	Missense_Mutation	SNP	T	TCGA-CJ-5683-01A-11D-1534-10	20049188	39659227	41535983	64	21259											
PDK2	5164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48183306	48183306	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgacgtggtgcccaccatGgcacaaggcgtgcttgagta	10	7	13	11	3	0	1	0	1	0	0	0	2	0	1	2	3	3	3	2	3	3	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	48183306	G	T	48183306	3	4	420	1	0	0	0	0	1	0	0	0	11676	1348	47	4	404	4	PDK2	17	48183306	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	8524079	48183306	33011904	65	21260											
SPAG9	9043	broad.mit.edu	37	chr17	49197990	49197990	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggagccgccgggctcctcctGatacaccacaccgtcctcca	7	6	9	19	3	0	1	0	1	0	0	4	2	4	2	8	2	2	1	8	2	1	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	49197990	C	C	49197990	3	2	420	1	0	0	0	0	1	0	0	0	14987	1299	45	4	4057	4	SPAG9	17	49197990	Missense_Mutation	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	1014684	49197990	31997220	66	21261											
CDK3	1018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73999331	73999331	+	Missense_Mutation	SNP	T	T	A																															gattgaccagctctttcgtaTctttcgtatgctggggacac																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	73999331	T	A	73999331	3	1	420	1	0	0	0	0	1	0	0	0	3140	1435	50	5	666	5	CDK3	17	73999331	Missense_Mutation	SNP	T	TCGA-CJ-5683-01A-11D-1534-10	24801341	73999331	7195879	67	21262	282	2									
CDK3	1018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73999332	73999332	+	Missense_Mutation	SNP	C	C	G																															attgaccagctctttcgtatCtttcgtatgctggggacacc																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		G	73999332	C	G	73999332	3	3	420	1	0	0	0	0	1	0	0	0	3140	903	32	4	667	4	CDK3	17	73999332	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10	1	73999332	7195878	68	21263	282	2									
BAHCC1	57597	broad.mit.edu;hgsc.bcm.edu	37	chr17	79426336	79426336	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaggatctactcactggaGcagctgctgcaggaagcggt	10	7	14	10	1	2	1	1	0	1	1	2	4	2	4	0	4	6	4	0	4	2	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	79426336	G	A	79426336	2	1	420	1	0	0	0	0	0	0	0	1	1296	962	34	2		2	BAHCC1	17	79426336	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	5427004	79426336	1768874	69	21264											
DCC	1630	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	50683750	50683750	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagctccagtgtcctccCttcggctcccagagatgtgg	6	9	10	16	1	0	1	0	0	0	1	5	2	4	1	5	2	1	2	5	2	1	1	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	50683750	C	A	50683750	3	1	420	1	0	0	0	0	1	0	0	0	4282	681	24	4	1316	4	DCC	18	50683750	Missense_Mutation	SNP	C	TCGA-CJ-5683-01A-11D-1534-10		50683750	27393498	70	21265											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1508023	1508023	+	Frame_Shift_Del	DEL	A	-	-																															cacgaaacacgcgctgcacgAaaaggcacgagtcgttggcg																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	1508023	-	-	1508023	7	5	420	1	0	1	0	1	0	0	0	0	278	246	9	0	864	0	ADAMTSL5	19	1508023	Frame_Shift_Del	DEL	A	TCGA-CJ-5683-01A-11D-1534-10		1508023	57620960	71	21266											
FBN3	84467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8162185	8162185	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggcaccttcacaagccaGcaggatgctgttgtagttga	9	10	13	9	0	1	1	1	1	0	0	1	2	1	2	2	3	3	6	2	3	2	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	8162185	G	A	8162185	2	1	420	1	0	0	0	0	0	0	0	1	5704	962	34	2		2	FBN3	19	8162185	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	6654162	8162185	50966798	72	21267											
CACNA1A	773	hgsc.bcm.edu;ucsc.edu	37	chr19	13366037	13366038	+	Frame_Shift_Del	DEL	GC	GC	-																															ctgcggcatgtgtcgggtcaGcggcttggcgctgatggcga																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		-	13366038	GC	-	13366037	7	5	420	1	0	1	0	1	0	0	0	0	2538	962	34	0	3071	0	CACNA1A	19	13366037	Frame_Shift_Del	DEL	GC	TCGA-CJ-5683-01A-11D-1534-10	5203852	13366037	45762946	73	21268											
C19orf12	83636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	30193856	30193856	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactgtccacttgtcatccaGgcacctaacagccccccgac	10	7	6	18	1	1	0	1	0	0	0	3	1	3	0	6	1	3	1	6	1	2	2	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		T	30193856	G	T	30193856	2	4	420	1	0	0	0	0	0	0	0	1	1909	987	35	4		4	C19orf12	19	30193856	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	16827819	30193856	28935127	74	21269											
PPP2R1A	5518	hgsc.bcm.edu;ucsc.edu	37	chr19	52723429	52723429	+	RNA	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcttaccttggaacccttgGtttctcctgtagggagtgga	6	13	12	10	1	1	0	0	0	1	0	2	3	1	3	3	4	2	3	3	4	3	5	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	52723429	G	A	52723429	1	1	420	0	1	0	0	0	0	0	0	0	12384	1276	44	2		2	PPP2R1A	19	52723429	RNA	SNP	G	TCGA-CJ-5683-01A-11D-1534-10	22529573	52723429	6405554	75	21270											
SLC23A2	9962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	4839999	4839999	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aacatagcagttgtgagaagGacgttcaacacttgatcgat	14	10	10	7	2	1	2	1	2	0	1	2	5	1	3	0	1	3	3	0	1	4	4	novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	4839999	G	A	4839999	2	1	420	1	0	0	0	0	0	0	0	1	14465	1161	41	2		2	SLC23A2	20	4839999	Silent	SNP	G	TCGA-CJ-5683-01A-11D-1534-10		4839999	58185521	76	21271											
SFRS15	0	hgsc.bcm.edu	37	chr21	33058544	33058544	+	Intron	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaagaaaaaaaaaaaaaAggaaagaaagaaagaaatca	33	1	6	1	0	1	4	1	0	0	4	1	5	1	5	0	1	0	0	0	1	14	0	rs80021168	alternate_allele	TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		C	33058544	A	C	33058544	1	2	420	0	1	0	0	0	0	0	0	0	14173	87	3	5		5	SFRS15	21	33058544	Intron	SNP	A	TCGA-CJ-5683-01A-11D-1534-10		33058544	15071351	77	21272											
NEFH	4744	hgsc.bcm.edu	37	chr22	29885572	29885573	+	In_Frame_Ins	INS	-	-	CCCTGAGAAGGCCAAGTC																															acgaaggaggaagcaaagtcINSccctgagaaggccaagtccc																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		CCCTGAGAAGGCCAAGTC	29885573	-	CCCTGAGAAGGCCAAGTC	29885572	7	5	420	1	0	1	1	0	0	0	0	0	10314	855	30	0	1957	0	NEFH	22	29885572	In_Frame_Ins	INS	-	TCGA-CJ-5683-01A-11D-1534-10		29885572	21418994	78	21273											
ATP7A	538	hgsc.bcm.edu	37	chrX	77284798	77284799	+	Frame_Shift_Ins	INS	-	-	A																															gataatacgatttgctttccINSaagcctctatcacagttctg																								novel		TCGA-CJ-5683-01A-11D-1534-10	TCGA-CJ-5683-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b85e29c5-0206-4d65-aa46-179a55c0ceae	fdd52cce-70b6-4f2d-873b-dbfe5323841d		A	77284799	-	A	77284798	7	5	420	1	0	1	1	0	0	0	0	0	1190	595	21	0	3022	0	ATP7A	23	77284798	Frame_Shift_Ins	INS	-	TCGA-CJ-5683-01A-11D-1534-10		77284798	77985762	79	21274											
ESPN	83715	broad.mit.edu;hgsc.bcm.edu	37	chr1	6504722	6504722	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccagccactccagcatcaAgggccagcaccctccatgtg	9	6	8	18	0	1	0	1	0	0	0	4	0	4	0	6	1	3	2	6	1	1	0	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		G	6504722	A	G	6504722	3	3	421	1	0	0	0	0	1	0	0	0	5254	72	3	3	1194	3	ESPN	1	6504722	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10		6504722	242745899	1	21275											
LOC440563	440563	broad.mit.edu	37	chr1	13183480	13183480	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaatgggaggaggaggAggtacacgtgctgggaaact	13	5	18	5	1	0	1	0	0	0	1	0	6	0	6	0	6	4	3	0	6	3	1	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		G	13183480	G	G	13183480	2	3	421	1	0	0	0	0	0	0	0	1	8879	291	11	3		3	LOC440563	1	13183480	Silent	SNP	A	TCGA-CJ-5684-01A-11D-1534-10	6678758	13183480	236067141	2	21276											
ZMYM6	9204	broad.mit.edu	37	chr1	35453715	35453715	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgcttttaaaccagaatAcctgccagtcatgcttgcag	10	14	7	10	0	1	1	1	0	0	1	1	1	1	1	3	0	6	3	3	0	4	6	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		C	35453715	C	C	35453715	3	2	421	1	0	0	0	0	1	0	0	0	17703	391	14	5	1013	5	ZMYM6	1	35453715	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10	22270235	35453715	213796906	3	21277											
TXNIP	10628	broad.mit.edu;hgsc.bcm.edu	37	chr1	145438828	145438828	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcaagaagatcaagtCttttgaggtggtctttaacg	11	14	11	5	1	4	3	2	1	2	2	4	4	4	3	0	2	1	1	0	2	4	5	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	145438828	C	A	145438828	3	1	421	1	0	0	0	0	1	0	0	0	16802	913	32	4	28	4	TXNIP	1	145438828	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	109985113	145438828	103811793	4	21278											
TCHH	7062	broad.mit.edu;ucsc.edu	37	chr1	152084846	152084846	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccctcctcagctcttgccGctccagcttccgtagctgct	3	12	7	19	2	2	0	1	0	1	0	6	0	6	0	5	0	5	6	5	0	1	3	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	152084846	T	T	152084846	2	4	421	1	0	0	0	0	0	0	0	1	15699	1086	38	4		4	TCHH	1	152084846	Silent	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	6646018	152084846	97165775	5	21279											
DYRK3	8444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	206822222	206822222	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taagctgcctccagttgttgGaatagccaataagcttaaag	13	11	9	8	0	0	0	0	0	0	0	1	1	1	1	3	1	4	4	3	1	7	6	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	206822222	G	T	206822222	3	4	421	1	0	0	0	0	1	0	0	0	4857	1174	41	4	1710	4	DYRK3	1	206822222	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	54737376	206822222	42428399	6	21280											
THSD7B	80731	broad.mit.edu;ucsc.edu	37	chr2	138421031	138421031	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggattactgcatgaaagtaCcaggctcagaggataaaaaa	17	8	10	6	0	1	2	1	1	0	1	1	4	1	4	1	3	3	3	1	3	6	3	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	138421031	A	A	138421031	3	1	421	1	0	0	0	0	1	0	0	0	15879	507	18	4	4547	4	THSD7B	2	138421031	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		138421031	104778342	7	21281											
ZSWIM2	151112	hgsc.bcm.edu	37	chr2	187692936	187692937	+	In_Frame_Ins	INS	-	-	GGG																															cctctcttattttagtggcaINSggagtcttctttaggttgtg																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		GGG	187692937	-	GGG	187692936	7	5	421	1	0	1	1	0	0	0	0	0	18240	175	7	0	228	0	ZSWIM2	2	187692936	In_Frame_Ins	INS	-	TCGA-CJ-5684-01A-11D-1534-10	49271905	187692936	55506437	8	21282											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188205	10188205	+	Silent	SNP	T	T	C																															cttgtcccgataggtcacctTtggctcttcagagatgcagg																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		C	10188205	T	C	10188205	2	2	421	1	0	0	0	0	0	0	0	1	17161	1828	64	3		3	VHL	3	10188205	Silent	SNP	T	TCGA-CJ-5684-01A-11D-1534-10		10188205	187834225	9	21283	283	2									
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188208	10188208	+	Missense_Mutation	SNP	G	G	C																															gtcccgataggtcacctttgGctcttcagagatgcagggac																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		C	10188208	G	C	10188208	3	2	421	1	0	0	0	0	1	0	0	0	17161	1212	42	4	357	4	VHL	3	10188208	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	3	10188208	187834222	10	21284	283	2									
CYP8B1	1582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42916230	42916230	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagggtatagtcttcatgaAccaacctgaggagggtgggt	10	10	14	7	0	3	2	2	2	1	0	3	3	3	3	2	4	2	1	2	4	4	3	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		G	42916230	A	G	42916230	3	3	421	1	0	0	0	0	1	0	0	0	4198	43	2	3	430	3	CYP8B1	3	42916230	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10	32728022	42916230	155106200	11	21285											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47158115	47158115	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtattctaatttacttaccaTtcaatcatgagaagacgatt	14	15	5	7	1	3	2	2	1	1	2	3	4	3	2	1	0	2	1	1	0	6	8	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	47158115	T	A	47158115	3	1	421	1	0	0	0	0	1	0	0	0	14133	1490	52	5	3182	5	SETD2	3	47158115	Missense_Mutation	SNP	T	TCGA-CJ-5684-01A-11D-1534-10	4241885	47158115	150864315	12	21286											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52610695	52610695	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatatgcagctccatctcGaacccatactttttcaattc	13	13	3	12	1	2	0	1	0	1	0	5	1	3	0	2	0	4	2	2	0	6	5	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	52610695	G	A	52610695	4	1	421	1	0	0	0	0	0	1	0	0	11491	1066	37	1	1383	1	PBRM1	3	52610695	Nonsense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	5452580	52610695	145411735	13	21287											
IMPG2	50939	broad.mit.edu;ucsc.edu	37	chr3	101038458	101038458	+	Missense_Mutation	SNP	C	A	A																															aaaatacttcacatgatttgCcacagcctctgcaacacttt																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	101038458	A	A	101038458	3	1	421	1	0	0	0	0	1	0	0	0	7729	739	26	4	3493	4	IMPG2	3	101038458	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	48427763	101038458	96983972	14	21288	284	2									
IMPG2	50939	broad.mit.edu	37	chr3	101038459	101038459	+	Silent	SNP	C	A	A																															aaatacttcacatgatttgcCacagcctctgcaacactttc																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	101038459	A	A	101038459	2	1	421	1	0	0	0	0	0	0	0	1	7729	581	21	4		4	IMPG2	3	101038459	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	1	101038459	96983971	15	21289	284	2									
CENPE	1062	broad.mit.edu;ucsc.edu	37	chr4	104097155	104097155	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggattccattctatctCacttaatgtatcaagagtgt	10	16	7	8	0	3	1	2	0	2	1	5	2	4	2	1	1	1	2	1	1	4	5	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	104097155	A	A	104097155	4	1	421	1	0	0	0	0	0	1	0	0	3230	835	29	4	6804	4	CENPE	4	104097155	Nonsense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		104097155	87057121	16	21290											
SLC12A2	6558	broad.mit.edu;ucsc.edu	37	chr5	127488499	127488499	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accacgtgaaaaactttaggTaagtgataaagaaggaaaca	20	7	9	5	1	0	3	0	2	0	1	0	4	0	4	1	2	2	1	1	2	8	4	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		G	127488499	G	G	127488499	5	3	421	1	0	0	0	0	0	0	1	0	14385	1652	57	5	2423	5	SLC12A2	5	127488499	Splice_Site	SNP	T	TCGA-CJ-5684-01A-11D-1534-10		127488499	53426761	17	21291											
GRM4	2914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33996013	33996013	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacgacggctttgaggctgCgcttgcgcttgggcacgttc	5	11	14	11	5	0	1	0	1	0	0	1	2	0	1	0	3	3	6	0	3	1	5	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	33996013	C	T	33996013	3	4	421	1	0	0	0	0	1	0	0	0	6799	768	27	1	173	1	GRM4	6	33996013	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		33996013	137119054	18	21292											
FBXL4	26235	hgsc.bcm.edu;ucsc.edu	37	chr6	99365322	99365322	+	Frame_Shift_Del	DEL	A	A	-																															gcactgctaaactttttgttAagactgtccattccacaacc																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		-	99365322	A	-	99365322	7	5	421	1	0	1	0	1	0	0	0	0	5721	349	13	0	1103	0	FBXL4	6	99365322	Frame_Shift_Del	DEL	A	TCGA-CJ-5684-01A-11D-1534-10	65369309	99365322	71749745	19	21293	285	2									
FBXL4	26235	hgsc.bcm.edu;ucsc.edu	37	chr6	99365325	99365326	+	Frame_Shift_Del	DEL	AC	AC	-																															ctgctaaactttttgttaagActgtccattccacaaccatc																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		-	99365326	AC	-	99365325	7	5	421	1	0	1	0	1	0	0	0	0	5721	272	10	0	1106	0	FBXL4	6	99365325	Frame_Shift_Del	DEL	AC	TCGA-CJ-5684-01A-11D-1534-10	3	99365325	71749742	20	21294	285	2									
MAP3K4	4216	hgsc.bcm.edu	37	chr6	161519378	161519378	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctgctgctgctgctgCtgctgttgctgccagtcggc	1	13	14	13	1	0	0	0	0	0	0	1	0	0	0	1	1	10	10	1	1	0	1	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	161519378	C	T	161519378	3	4	421	1	0	0	0	0	1	0	0	0	9252	797	28	2	3659	2	MAP3K4	6	161519378	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	62154053	161519378	9595689	21	21295											
TYW1	55253	broad.mit.edu;hgsc.bcm.edu	37	chr7	66532334	66532334	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaattgagagccatcgCtgcatggaaaccaccccgag	12	7	11	11	2	0	1	0	1	0	1	1	5	0	3	4	2	3	2	4	2	3	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	66532334	C	T	66532334	2	4	421	1	0	0	0	0	0	0	0	1	16817	784	28	2		2	TYW1	7	66532334	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		66532334	92606329	22	21296											
SDR16C5	195814	broad.mit.edu;ucsc.edu	37	chr8	57214061	57214061	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcttcttcttttggtcaAcaaagccatccattgcatga	11	13	7	10	0	3	2	1	1	2	1	4	2	4	2	2	1	4	2	2	1	2	5	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		G	57214061	G	G	57214061	3	3	421	1	0	0	0	0	1	0	0	0	13973	43	2	3	25	3	SDR16C5	8	57214061	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10		57214061	89149961	23	21297											
KIAA1429	25962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95530150	95530150	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgcgtaattataagctactGacttcttagatttggaatca	13	15	7	6	1	2	2	1	1	1	1	2	3	2	3	0	1	3	2	0	1	6	7	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	95530150	G	A	95530150	3	1	421	1	0	0	0	0	1	0	0	0	8231	1294	45	2	3018	2	KIAA1429	8	95530150	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	38316089	95530150	50833872	24	21298											
TEK	7010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	27109633	27109633	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctgtggagtcagcttgctCctttctggtaaggtttggct	4	16	12	9	0	3	0	1	0	2	0	4	1	4	1	1	4	2	5	1	4	1	4	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	27109633	C	T	27109633	2	4	421	1	0	0	0	0	0	0	0	1	15750	842	30	2		2	TEK	9	27109633	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		27109633	114103798	25	21299											
USP20	10868	hgsc.bcm.edu;ucsc.edu	37	chr9	132636882	132636883	+	Frame_Shift_Ins	INS	-	-	T																															cattcacctaaagcgctttcINSggcacgaggtgatgtactca																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	132636883	-	T	132636882	7	5	421	1	0	1	1	0	0	0	0	0	17051	875	31	0	1830	0	USP20	9	132636882	Frame_Shift_Ins	INS	-	TCGA-CJ-5684-01A-11D-1534-10	105527249	132636882	8576549	26	21300	286	2									
USP20	10868	hgsc.bcm.edu	37	chr9	132636883	132636883	+	Missense_Mutation	SNP	G	G	T																															cattcacctaaagcgctttcGgcacgaggtgatgtactcat																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	132636883	G	T	132636883	3	4	421	1	0	0	0	0	1	0	0	0	17051	1116	39	4	1831	4	USP20	9	132636883	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	1	132636883	8576548	27	21301	286	2									
LAMC3	10319	broad.mit.edu	37	chr9	133901946	133901947	+	Frame_Shift_Del	DEL	CT	-	-																															ctggagggccggcccagcgcCtacaacttcgaggagagccc																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		-	133901947	-	-	133901946	7	5	421	1	0	1	0	1	0	0	0	0	8616	668	24	0	654	0	LAMC3	9	133901946	Frame_Shift_Del	DEL	CT	TCGA-CJ-5684-01A-11D-1534-10	1265063	133901946	7311485	28	21302											
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55755498	55755498	+	Missense_Mutation	SNP	T	T	C																															ccctttgtatattcgtttacTaaagacaggaggataatcat																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		C	55755498	T	C	55755498	3	2	421	1	0	0	0	0	1	0	0	0	11511	1522	53	3	4759	3	PCDH15	10	55755498	Missense_Mutation	SNP	T	TCGA-CJ-5684-01A-11D-1534-10		55755498	79779249	29	21303	287	2									
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	55755499	55755499	+	Missense_Mutation	SNP	A	A	T																															cctttgtatattcgtttactAaagacaggaggataatcatt																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	55755499	A	T	55755499	3	4	421	1	0	0	0	0	1	0	0	0	11511	359	13	5	4760	5	PCDH15	10	55755499	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10	1	55755499	79779248	30	21304	287	2									
MMS19	64210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99229886	99229886	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggagaaaaatcactcacCagagtctgtagagaatccaa	18	6	8	9	0	3	3	2	0	1	3	4	5	4	3	2	1	0	1	2	1	6	1	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	99229886	C	T	99229886	2	4	421	1	0	0	0	0	0	0	0	1	9672	608	21	2		2	MMS19	10	99229886	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	43474387	99229886	36304861	31	21305											
KCNC1	3746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17793557	17793557	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaaggcagccaaggacGtgctgggcttcctgcgcgtc	6	7	13	15	3	0	0	0	0	0	0	3	1	2	1	4	3	3	3	4	3	2	1	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	17793557	G	A	17793557	3	1	421	1	0	0	0	0	1	0	0	0	8014	1145	40	1	922	1	KCNC1	11	17793557	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10		17793557	117212959	32	21306											
TMEM86A	144110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18722527	18722527	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgttcttcaaggccacctgCgtgtattttgtgctctggct	4	15	10	12	2	3	0	1	0	2	0	3	0	3	0	3	2	2	4	3	2	2	5	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	18722527	C	T	18722527	2	4	421	1	0	0	0	0	0	0	0	1	16207	776	27	1		1	TMEM86A	11	18722527	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	928970	18722527	116283989	33	21307											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57088165	57088165	+	Frame_Shift_Del	DEL	G	-	-																															cccggggtttgggcttgacaGggggtttggcccgagtgtca																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		-	57088165	-	-	57088165	7	5	421	1	0	1	0	1	0	0	0	0	16319	1000	35	0	5109	0	TNKS1BP1	11	57088165	Frame_Shift_Del	DEL	G	TCGA-CJ-5684-01A-11D-1534-10	38365638	57088165	77918351	34	21308											
C11orf63	79864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	122817268	122817268	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagattcatggctcacccAgataatggagcagcatcagc	12	8	9	12	0	3	2	3	0	0	2	4	3	4	3	2	2	3	3	2	2	1	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	122817268	A	T	122817268	3	4	421	1	0	0	0	0	1	0	0	0	1654	188	7	5	1779	5	C11orf63	11	122817268	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10	65729103	122817268	12189248	35	21309											
AKAP3	10566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	4747326	4747326	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcaactttgcatactcCattttggctttgtaaccagt	10	15	6	10	0	1	0	1	0	0	0	2	1	2	0	2	1	4	3	2	1	3	6	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	4747326	C	A	4747326	4	1	421	1	0	0	0	0	0	1	0	0	452	603	21	4	2536	4	AKAP3	12	4747326	Nonsense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		4747326	129104569	36	21310											
VWF	7450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6091108	6091108	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaagggtgggcaaacggtgCggggggcaggagggtgggga	8	3	25	5	3	0	0	0	0	0	0	0	3	0	2	0	10	2	2	0	10	2	0	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	6091108	C	T	6091108	2	4	421	1	0	0	0	0	0	0	0	1	17245	755	27	1		1	VWF	12	6091108	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	1343782	6091108	127760787	37	21311											
E2F7	144455	broad.mit.edu;ucsc.edu	37	chr12	77424037	77424037	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatattctgggtcaacagaGaggacagggaaaggagcaac	16	5	13	7	0	2	1	1	0	1	1	2	5	2	4	0	4	3	1	0	4	5	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	77424037	T	T	77424037	2	4	421	1	0	0	0	0	0	0	0	1	4872	929	33	4		4	E2F7	12	77424037	Silent	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	71332929	77424037	56427858	38	21312											
TESC	54997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117477015	117477015	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcgatcccctgccagaTctggaagggacggagcagcg	10	6	14	11	3	1	1	0	0	1	1	3	5	2	4	3	3	3	1	3	3	2	0	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	117477015	T	A	117477015	3	1	421	1	0	0	0	0	1	0	0	0	15765	1449	50	5	80	5	TESC	12	117477015	Missense_Mutation	SNP	T	TCGA-CJ-5684-01A-11D-1534-10	40052978	117477015	16374880	39	21313											
LATS2	26524	hgsc.bcm.edu;ucsc.edu	37	chr13	21557772	21557773	+	Frame_Shift_Ins	INS	-	-	T																															tcttcatggcgtacagggcgINStgagtgtccaccttacaagc																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	21557773	-	T	21557772	7	5	421	1	0	1	1	0	0	0	0	0	8647	1136	40	0	1209	0	LATS2	13	21557772	Frame_Shift_Ins	INS	-	TCGA-CJ-5684-01A-11D-1534-10		21557772	93612106	40	21314											
PABPC3	5042	hgsc.bcm.edu	37	chr13	25671786	25671786	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaacacatcaacacagacaGtgggtccacgtcctgcagct	12	7	8	14	1	1	1	1	0	0	1	3	1	3	1	2	1	4	2	2	1	2	1	rs113301206	bycluster;byfrequency	TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	25671786	G	A	25671786	3	1	421	1	0	0	0	0	1	0	0	0	11365	1029	36	2	1452	2	PABPC3	13	25671786	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10	4114014	25671786	89498092	41	21315											
MYCBP2	23077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	77785318	77785318	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctccaaattacatcatAtacaggatcaagacacacac	17	9	3	12	0	2	1	2	0	0	1	3	2	3	2	2	1	3	0	2	1	6	4	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		G	77785318	A	G	77785318	3	3	421	1	0	0	0	0	1	0	0	0	10018	449	16	3	10880	3	MYCBP2	13	77785318	Missense_Mutation	SNP	A	TCGA-CJ-5684-01A-11D-1534-10	52113532	77785318	37384560	42	21316											
COCH	1690	hgsc.bcm.edu	37	chr14	31358882	31358883	+	Frame_Shift_Ins	INS	-	-	T																															gatgacctgaaagatatggcINSttctaaaccgaaggagtctc																								novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	31358883	-	T	31358882	7	5	421	1	0	1	1	0	0	0	0	0	3656	797	28	0	1580	0	COCH	14	31358882	Frame_Shift_Ins	INS	-	TCGA-CJ-5684-01A-11D-1534-10		31358882	75990658	43	21317											
SERPINA4	5267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	95029883	95029883	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccctttctcatggccagCtgcacgttgagcatgatggt	6	12	12	11	1	1	2	1	2	1	0	2	2	1	2	2	3	3	4	2	3	0	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	95029883	C	T	95029883	2	4	421	1	0	0	0	0	0	0	0	1	14093	796	28	2		2	SERPINA4	14	95029883	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	63671001	95029883	12319657	44	21318											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7667223	7667223	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttgtgctgctggactgttCgcacctcaagttctccctgg	4	14	11	12	1	2	0	1	0	1	0	4	1	2	1	2	2	2	6	2	2	1	3	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	7667223	C	T	7667223	3	4	421	1	0	0	0	0	1	0	0	0	4602	893	31	1	3123	1	DNAH2	17	7667223	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		7667223	73527987	45	21319											
PIP4K2B	8396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36935738	36935738	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtcaggcggtacatgccCaggaactgtggcaaaagcgt	11	6	14	10	3	1	0	1	0	0	0	1	1	1	1	1	5	4	2	1	5	4	1	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	36935738	C	A	36935738	2	1	421	1	0	0	0	0	0	0	0	1	11937	581	21	4		4	PIP4K2B	17	36935738	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	29268515	36935738	44259472	46	21320											
WBP2	23558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73851365	73851365	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgccgccctccgagtgattcTtgttgagcgccatagtctct	5	12	10	14	4	2	2	0	2	2	0	4	3	3	2	4	0	1	1	4	0	1	4	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	73851365	T	A	73851365	3	1	421	1	0	0	0	0	1	0	0	0	17258	1609	56	5	803	5	WBP2	17	73851365	Missense_Mutation	SNP	T	TCGA-CJ-5684-01A-11D-1534-10	36915627	73851365	7343845	47	21321											
ASXL3	80816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	31320355	31320355	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacatatcatctagcagccCacctgagaaagaacagcctc	15	6	7	13	0	2	2	1	1	1	2	3	4	2	2	3	0	5	1	3	0	5	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	31320355	C	A	31320355	3	1	421	1	0	0	0	0	1	0	0	0	1068	594	21	4	3029	4	ASXL3	18	31320355	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		31320355	46756893	48	21322											
ELAC1	55520	broad.mit.edu;ucsc.edu	37	chr18	48510776	48510776	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaacaaggaagaactatCctgttagactcagaagaaaa	19	6	10	6	0	1	4	1	0	0	4	2	7	2	6	1	2	2	1	1	2	9	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	48510776	A	A	48510776	2	1	421	1	0	0	0	0	0	0	0	1	5046	845	30	4		4	ELAC1	18	48510776	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	17190421	48510776	29566472	49	21323											
CCDC155	147872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49912528	49912528	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgggcttggagatcgaGgccattcgacaggtgggcct	6	9	16	10	3	0	1	0	0	0	1	3	4	0	1	2	5	0	2	2	5	0	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		C	49912528	G	C	49912528	3	2	421	1	0	0	0	0	1	0	0	0	2788	991	35	4	1184	4	CCDC155	19	49912528	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10		49912528	9216455	50	21324											
PEX26	55670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	18566476	18566476	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacactcaggctctgaggaGgcccagaagccaaacctgga	13	4	12	12	0	2	2	1	1	1	1	2	5	2	4	3	4	3	1	3	4	3	0	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		C	18566476	G	C	18566476	3	2	421	1	0	0	0	0	1	0	0	0	11746	991	35	4	655	4	PEX26	22	18566476	Missense_Mutation	SNP	G	TCGA-CJ-5684-01A-11D-1534-10		18566476	32738090	51	21325											
SCUBE1	80274	broad.mit.edu;hgsc.bcm.edu	37	chr22	43614319	43614319	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctgcccctccagcgcCttggctggcctctgggctac	2	8	11	20	1	1	0	0	0	1	0	2	0	2	0	7	3	3	2	7	3	1	2	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		T	43614319	C	T	43614319	2	4	421	1	0	0	0	0	0	0	0	1	13946	680	24	2		2	SCUBE1	22	43614319	Silent	SNP	C	TCGA-CJ-5684-01A-11D-1534-10	25047843	43614319	7690247	52	21326											
IL9R	3581	broad.mit.edu	37	chrX	155233148	155233148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttcacctgcctcaccaaCaacattctcaggatcgattg	11	10	5	15	1	3	0	3	0	1	0	5	2	3	1	4	1	3	0	4	1	2	3	novel		TCGA-CJ-5684-01A-11D-1534-10	TCGA-CJ-5684-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	24ee4b71-c2e0-44c3-aaeb-3c488cd26ce7	81ad0b3a-02ce-44e3-b84d-fd03c7792bcb		A	155233148	A	A	155233148	3	1	421	1	0	0	0	0	1	0	0	0	7708	477	17	4	187	4	IL9R	23	155233148	Missense_Mutation	SNP	C	TCGA-CJ-5684-01A-11D-1534-10		155233148	37412	53	21327											
VPS13D	55187	broad.mit.edu;ucsc.edu	37	chr1	12321995	12321995	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccactgcagatgcctcGtgtatgaacacgtatacaaa	13	8	8	12	2	0	2	0	1	0	1	1	3	0	2	3	0	4	3	3	0	5	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	12321995	T	T	12321995	2	4	422	1	0	0	0	0	0	0	0	1	17191	1132	40	4		4	VPS13D	1	12321995	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08		12321995	236928626	1	21328											
HECTD3	79654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45473182	45473182	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtataggcgtggcatgaagCtgggcttgctgctctcagag	7	11	15	8	1	1	2	1	1	1	1	2	2	1	2	0	3	3	6	0	3	3	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	45473182	C	A	45473182	3	1	422	1	0	0	0	0	1	0	0	0	7041	797	28	4	1227	4	HECTD3	1	45473182	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	33151187	45473182	203777439	2	21329											
CENPF	1063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214818891	214818891	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaacacaagagcttgagtCtcatcaaagtgagtgtctcc	14	9	9	9	0	3	3	2	2	2	1	5	4	3	3	1	0	2	1	1	0	4	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	214818891	C	G	214818891	3	3	422	1	0	0	0	0	1	0	0	0	3231	913	32	4	6024	4	CENPF	1	214818891	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	169345709	214818891	34431730	3	21330											
ASAP2	8853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	9531296	9531296	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccagctgtccatccacCgctgccccctcttcgcgtga	4	9	8	20	4	1	1	0	1	1	0	5	1	4	1	7	0	2	2	7	0	0	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	9531296	C	T	9531296	3	4	422	1	0	0	0	0	1	0	0	0	1011	652	23	1	2579	1	ASAP2	2	9531296	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08		9531296	233668077	4	21331											
EMILIN1	11117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27306232	27306232	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actaggccgccttcgggatgGtgtggagcgctgctcctgcc	4	9	15	13	3	0	0	0	0	0	0	2	2	1	2	4	4	3	2	4	4	1	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	27306232	G	C	27306232	3	2	422	1	0	0	0	0	1	0	0	0	5093	1261	44	4	1807	4	EMILIN1	2	27306232	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	17774936	27306232	215893141	5	21332											
GPR45	11250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	105859391	105859391	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccgaaggagaatccagcCaagcacagtctacgtgtgca	13	6	11	11	2	1	1	0	0	1	1	3	4	3	1	3	1	4	2	3	1	4	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	105859391	C	A	105859391	3	1	422	1	0	0	0	0	1	0	0	0	6696	594	21	4	1078	4	GPR45	2	105859391	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	78553159	105859391	137339982	6	21333											
RGPD4	285190	broad.mit.edu	37	chr2	108489172	108489172	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgccactgggtctttgtttgGatttagttttaatgcatctt	6	20	9	6	0	2	0	0	0	2	0	2	1	2	1	1	2	2	3	1	2	2	7	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	108489172	C	C	108489172	3	2	422	1	0	0	0	0	1	0	0	0	13290	1174	41	4	4790	4	RGPD4	2	108489172	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	2629781	108489172	134710201	7	21334											
OSBPL6	114880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179203777	179203777	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactcctgcaaaatttggaaAtacttcagagaactcagtcg	15	10	7	9	1	2	1	2	0	0	1	4	3	3	2	1	1	4	1	1	1	6	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	179203777	A	G	179203777	3	3	422	1	0	0	0	0	1	0	0	0	11281	101	4	3	923	3	OSBPL6	2	179203777	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08	70714605	179203777	63995596	8	21335											
CDK15	65061	broad.mit.edu;hgsc.bcm.edu	37	chr2	202700487	202700487	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcctctgagctggacatatgGtaagagtggtgccgagaaaa	12	9	13	7	1	1	3	0	1	1	2	2	5	2	4	2	3	2	2	2	3	4	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	202700487	G	T	202700487	5	4	422	1	0	0	0	0	0	0	1	0	3131	1275	44	4	725	4	CDK15	2	202700487	Splice_Site	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	23496710	202700487	40498886	9	21336											
SPHKAP	80309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	228882779	228882779	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccgtgtctgctaattcttCcgcaaagtctgtaatgcagt	9	13	9	10	2	3	0	0	0	3	0	4	1	4	0	2	0	2	4	2	0	3	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	228882779	C	A	228882779	4	1	422	1	0	0	0	0	0	1	0	0	15049	864	30	4	2335	4	SPHKAP	2	228882779	Nonsense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	26182292	228882779	14316594	10	21337											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191520	10191520	+	Frame_Shift_Del	DEL	G	G	-																															gttgtccggagcctagtcaaGcctgagaattacaggagact																								novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		-	10191520	G	-	10191520	7	5	422	1	0	1	0	1	0	0	0	0	17161	962	34	0	523	0	VHL	3	10191520	Frame_Shift_Del	DEL	G	TCGA-CJ-5686-01A-11D-1669-08		10191520	187830910	11	21338											
ATG7	10533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	11354777	11354777	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatttatacttttttttctaGgatctaaagaagtaccactt	12	19	4	6	0	2	1	0	0	2	1	2	2	2	2	1	1	2	1	1	1	8	12	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	11354777	G	T	11354777	5	4	422	1	0	0	0	0	0	0	1	0	1101	1014	35	4	429	4	ATG7	3	11354777	Splice_Site	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	1163257	11354777	186667653	12	21339											
C3orf58	205428	broad.mit.edu	37	chr3	143691275	143691275	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtgctgcactcgccgtCgctgctcgcctcttggcagc	3	10	13	15	4	1	0	0	0	1	0	4	1	1	0	2	2	4	5	2	2	0	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	143691275	A	A	143691275	4	1	422	1	0	0	0	0	0	1	0	0	2236	893	31	4	103	4	C3orf58	3	143691275	Nonsense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	132336498	143691275	54331155	13	21340											
IGSF10	285313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151154637	151154637	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctctctttacttgccgttGagagaagggagtggtcaggc	7	12	13	9	1	2	2	1	1	1	1	4	4	3	3	2	3	2	1	2	3	2	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	151154637	G	A	151154637	3	1	422	1	0	0	0	0	1	0	0	0	7597	1294	45	2	163	2	IGSF10	3	151154637	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	7463362	151154637	46867793	14	21341											
KIAA1530	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1348531	1348531	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctccccagagggcctgAaggtgcaggagaacgaggac	10	5	15	11	1	1	3	0	1	1	2	2	6	1	4	3	4	2	2	3	4	2	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	1348531	A	C	1348531	3	2	422	1	0	0	0	0	1	0	0	0	8241	247	9	5	961	5	KIAA1530	4	1348531	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08		1348531	189805745	15	21342											
GRSF1	2926	broad.mit.edu	37	chr4	71690078	71690078	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaggaacagttcaatataCctatgatctgaggataatga	15	12	8	6	0	3	3	2	3	1	0	3	5	3	5	1	2	2	1	1	2	6	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	71690078	G	G	71690078	3	3	422	1	0	0	0	0	1	0	0	0	6809	506	18	4	45	4	GRSF1	4	71690078	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	70341547	71690078	119464198	16	21343											
THBS4	7060	hgsc.bcm.edu	37	chr5	79351734	79351734	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttgcagcgaggggccggctCcctagagctctacctggact	6	9	13	13	2	1	1	0	0	1	1	2	3	2	2	3	4	4	3	3	4	2	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	79351734	C	T	79351734	3	4	422	1	0	0	0	0	1	0	0	0	15855	855	30	2	429	2	THBS4	5	79351734	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08		79351734	101563526	17	21344											
WNT8A	7478	hgsc.bcm.edu	37	chr5	137426309	137426309	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctgcagctggctgaattCcgggagatgggagactacct	8	9	15	9	1	0	3	0	1	0	2	1	5	1	3	2	4	3	4	2	4	2	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	137426309	C	A	137426309	3	1	422	1	0	0	0	0	1	0	0	0	17395	854	30	4	625	4	WNT8A	5	137426309	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	58074575	137426309	43488951	18	21345											
DBN1	1627	broad.mit.edu;hgsc.bcm.edu	37	chr5	176894482	176894482	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgccaaacacacactaacCacgggctctgcgttctcatc	10	8	8	15	2	2	0	1	0	2	0	4	0	2	0	2	2	4	2	2	2	2	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	176894482	C	G	176894482	2	3	422	1	0	0	0	0	0	0	0	1	4252	608	21	4		4	DBN1	5	176894482	Silent	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	39468173	176894482	4020778	19	21346											
TAP2	6891	broad.mit.edu;hgsc.bcm.edu	37	chr6	32805899	32805899	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtcccctccagccataGtcctggcagcccttgaggaa	8	7	11	15	0	0	1	0	1	0	0	3	2	3	2	6	3	2	1	6	3	2	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	32805899	G	A	32805899	2	1	422	1	0	0	0	0	0	0	0	1	15550	1020	36	2		2	TAP2	6	32805899	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08		32805899	138309168	20	21347											
DNAH8	1769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	38952015	38952015	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacggttcggtacatgatcGgagaagtacaatatggaggc	13	9	13	6	3	0	2	0	1	0	1	2	4	0	3	0	5	3	3	0	5	6	5	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	38952015	G	A	38952015	3	1	422	1	0	0	0	0	1	0	0	0	4607	1117	39	1	12664	1	DNAH8	6	38952015	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	6146116	38952015	132163052	21	21348											
ZNF318	24149	hgsc.bcm.edu;ucsc.edu	37	chr6	43307260	43307261	+	Frame_Shift_Ins	INS	-	-	C																															ctgggttcaaaatgttaggaINScccacgaagccagggctgag																								novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	43307261	-	C	43307260	7	5	422	1	0	1	1	0	0	0	0	0	17835	262	10	0	2367	0	ZNF318	6	43307260	Frame_Shift_Ins	INS	-	TCGA-CJ-5686-01A-11D-1669-08	4355245	43307260	127807807	22	21349											
TDRD6	221400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46657639	46657639	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcttcctcagtttaggCagctaccaatattggctgtg	7	14	10	10	0	1	0	1	0	0	0	2	0	2	0	2	2	4	6	2	2	4	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	46657639	C	G	46657639	3	3	422	1	0	0	0	0	1	0	0	0	15733	711	25	4	1776	4	TDRD6	6	46657639	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	3350379	46657639	124457428	23	21350											
RAB23	51715	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	57075110	57075110	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatatcgctgaatcatactTgattttccaactgctccatt	11	15	4	11	1	1	2	1	2	0	0	4	2	3	2	2	0	3	2	2	0	5	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	57075110	T	A	57075110	2	1	422	1	0	0	0	0	0	0	0	1	12912	1799	63	5		5	RAB23	6	57075110	Silent	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	10417471	57075110	114039957	24	21351											
EEF1A1	1915	broad.mit.edu	37	chr6	74228230	74228230	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcttcatggtgcatttcGacagattttacttccgttgt	9	16	8	8	2	1	1	1	0	0	1	3	2	2	1	1	1	3	3	1	1	2	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	74228230	T	T	74228230	2	4	422	1	0	0	0	0	0	0	0	1	4923	1045	37	4		4	EEF1A1	6	74228230	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	17153120	74228230	96886837	25	21352											
SLC35A1	10559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	88210341	88210341	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgctgttcagaacaacAtggctttcctagctcttagc	9	14	8	10	0	2	1	1	0	1	1	3	1	3	1	1	1	5	5	1	1	5	5	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	88210341	A	G	88210341	3	3	422	1	0	0	0	0	1	0	0	0	14572	217	8	3	320	3	SLC35A1	6	88210341	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08	13982111	88210341	82904726	26	21353											
TSPYL1	7259	hgsc.bcm.edu;ucsc.edu	37	chr6	116600703	116600703	+	Frame_Shift_Del	DEL	C	C	-																															ggaggctggccctcttcctgCccggctttgatcgccacatg																								novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		-	116600703	C	-	116600703	7	5	422	1	0	1	0	1	0	0	0	0	16658	726	26	0	1026	0	TSPYL1	6	116600703	Frame_Shift_Del	DEL	C	TCGA-CJ-5686-01A-11D-1669-08	28390362	116600703	54514364	27	21354											
ANKMY2	57037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	16655424	16655424	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcagcgggcctgccaacTttgggggcagttttggctct	4	12	15	10	1	1	0	0	0	1	0	1	0	1	0	2	4	4	4	2	4	1	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	16655424	T	C	16655424	3	2	422	1	0	0	0	0	1	0	0	0	635	1609	56	3	873	3	ANKMY2	7	16655424	Missense_Mutation	SNP	T	TCGA-CJ-5686-01A-11D-1669-08		16655424	142483239	28	21355											
HERPUD2	64224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	35673462	35673462	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatccataagacgctcCtttcaagcaaaacaagaaag	17	7	5	12	1	2	2	2	0	0	2	4	2	4	2	3	0	2	2	3	0	6	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	35673462	C	T	35673462	5	4	422	1	0	0	0	0	0	0	1	0	7064	695	24	2	165	2	HERPUD2	7	35673462	Splice_Site	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	19018038	35673462	123465201	29	21356											
INHBA	3624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	41729694	41729694	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttttcctcatctgctcctgCcccaccttcacctccgccct	3	13	3	22	1	3	0	2	0	1	0	6	0	6	0	8	0	2	1	8	0	0	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	41729694	C	A	41729694	3	1	422	1	0	0	0	0	1	0	0	0	7741	739	26	4	449	4	INHBA	7	41729694	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	6056232	41729694	117408969	30	21357											
PILRB	29990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99956460	99956460	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaacgtgagaatatcctGgagacggggccacttccacg	10	7	11	13	3	0	2	0	1	0	2	3	4	3	2	4	3	1	0	4	3	3	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	99956460	G	A	99956460	4	1	422	1	0	0	0	0	0	1	0	0	11926	1357	47	2	218	2	PILRB	7	99956460	Nonsense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	58226766	99956460	59182203	31	21358											
RHEB	6009	broad.mit.edu;hgsc.bcm.edu	37	chr7	151181869	151181869	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgatattcttgtccatttActgtgatcaactttgtaaaa	12	17	6	6	0	2	2	1	2	1	0	3	3	3	2	1	0	2	1	1	0	5	7	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	151181869	A	T	151181869	3	4	422	1	0	0	0	0	1	0	0	0	13330	391	14	5	432	5	RHEB	7	151181869	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08	51225409	151181869	7956794	32	21359											
BMP1	649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22034151	22034151	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctatattgtgttcacctAtcgaccttgcgggtgagcag	8	12	11	10	2	1	1	1	1	0	0	2	2	1	1	2	1	3	3	2	1	3	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	22034151	A	G	22034151	3	3	422	1	0	0	0	0	1	0	0	0	1456	449	16	3	553	3	BMP1	8	22034151	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08		22034151	124329871	33	21360											
EXTL3	2137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28574199	28574199	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccagtttgtctttggcaGctacctggatcccttggtca	6	14	10	11	0	2	1	1	1	1	0	3	2	3	2	3	3	2	3	3	3	1	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	28574199	G	A	28574199	3	1	422	1	0	0	0	0	1	0	0	0	5327	971	34	2	625	2	EXTL3	8	28574199	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	6540048	28574199	117789823	34	21361											
TMEM68	137695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	56652730	56652730	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcactcataatgtttccTggtattctttggtgcttatc	9	17	7	8	0	2	0	1	0	1	0	4	0	3	0	1	2	2	4	1	2	4	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	56652730	T	C	56652730	2	2	422	1	0	0	0	0	0	0	0	1	16196	1567	55	3		3	TMEM68	8	56652730	Silent	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	28078531	56652730	89711292	35	21362											
C8orf34	116328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	69621309	69621309	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agatgaaaaaatcccagattCattcggtaagttttaagtcc	15	12	7	7	1	1	3	1	1	0	2	4	3	3	3	2	1	0	2	2	1	5	5	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	69621309	C	G	69621309	4	3	422	1	0	0	0	0	0	1	0	0	2422	838	29	4	1019	4	C8orf34	8	69621309	Nonsense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	12968579	69621309	76742713	36	21363											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106810965	106810965	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgcagaggatatattcccTtgcaagtcctgtggcatctg	8	12	10	11	0	1	1	0	0	1	1	3	2	3	2	3	2	2	3	3	2	3	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	106810965	T	C	106810965	2	2	422	1	0	0	0	0	0	0	0	1	17657	1596	56	3		3	ZFPM2	8	106810965	Silent	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	37189656	106810965	39553057	37	21364											
C9orf84	158401	broad.mit.edu;hgsc.bcm.edu	37	chr9	114484858	114484858	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcaaaatgcttggcaCtggctatctgcaaaaataaa	16	8	10	7	0	1	0	0	0	1	0	1	1	1	1	0	4	2	5	0	4	7	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	114484858	C	A	114484858	3	1	422	1	0	0	0	0	1	0	0	0	2500	564	20	4	2620	4	C9orf84	9	114484858	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08		114484858	26728573	38	21365											
SLC25A25	114789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130865982	130865982	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgatgtgggtgagaatcTaacggtcccggatgagttca	9	12	13	7	2	2	3	1	3	1	1	3	5	3	4	1	3	1	1	1	3	2	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	130865982	T	A	130865982	3	1	422	1	0	0	0	0	1	0	0	0	14490	1522	53	5	1015	5	SLC25A25	9	130865982	Missense_Mutation	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	16381124	130865982	10347449	39	21366											
DDX31	64794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	135470291	135470291	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgtcccgctgtacacCtttttgggtttttctccatt	3	19	7	12	1	1	0	0	0	1	0	3	0	2	0	3	1	2	4	3	1	1	7	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	135470291	C	G	135470291	3	3	422	1	0	0	0	0	1	0	0	0	4356	681	24	4	41	4	DDX31	9	135470291	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	4604309	135470291	5743140	40	21367											
SSNA1	8636	broad.mit.edu;hgsc.bcm.edu	37	chr9	140083619	140083619	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaggtgaggcagctgacaGagaagctggcccgcgtcaac	11	5	15	10	2	1	4	1	3	0	1	1	5	1	4	1	3	3	3	1	3	2	0	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	140083619	G	A	140083619	3	1	422	1	0	0	0	0	1	0	0	0	15188	943	33	2	160	2	SSNA1	9	140083619	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	4613328	140083619	1129812	41	21368											
CSRP3	8048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19213960	19213960	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtagacggtcttttcacaGgctccacattttgcgcctcc	6	13	9	13	2	2	1	1	0	1	1	4	1	4	1	3	3	1	2	3	3	1	5	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	19213960	G	A	19213960	2	1	422	1	0	0	0	0	0	0	0	1	3969	987	35	2		2	CSRP3	11	19213960	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08		19213960	115792556	42	21369			1	34		2	2	14	G		2.89755e-05
CSRP3	8048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	19213973	19213973	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcacaggctccacattttGcgcctccgccccagtttggc	5	12	8	16	2	1	0	1	0	0	0	3	0	3	0	5	2	1	2	5	2	0	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	19213973	G	T	19213973	3	4	422	1	0	0	0	0	1	0	0	0	3969	1319	46	4	581	4	CSRP3	11	19213973	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	13	19213973	115792543	43	21370			1	34		2	2	14	G		2.89755e-05
DAK	26007	hgsc.bcm.edu;ucsc.edu	37	chr11	61105442	61105442	+	Frame_Shift_Del	DEL	T	T	-																															aagctggtgaactcggtggcTggctgtgctgatgacgctct																								novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		-	61105442	T	-	61105442	7	5	422	1	0	1	0	1	0	0	0	0	4228	1567	55	0	39	0	DAK	11	61105442	Frame_Shift_Del	DEL	T	TCGA-CJ-5686-01A-11D-1669-08	41891469	61105442	73901074	44	21371											
LRRN4CL	221091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62455461	62455461	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggcagggatgtcggcccCctcgaggccctctcctccag	6	6	13	16	2	1	0	0	0	1	0	5	3	2	1	5	4	0	1	5	4	1	0	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	62455461	C	G	62455461	3	3	422	1	0	0	0	0	1	0	0	0	9038	623	22	4	200	4	LRRN4CL	11	62455461	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	1350019	62455461	72551055	45	21372											
CCDC82	79780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	96098194	96098194	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcatggtcctggtgttatAcaactctcctgataaatgca	10	14	8	9	0	1	1	0	1	1	0	3	1	2	1	2	2	4	3	2	2	5	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	96098194	A	G	96098194	3	3	422	1	0	0	0	0	1	0	0	0	2856	391	14	3	316	3	CCDC82	11	96098194	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08	33642733	96098194	38908322	46	21373											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108199913	108199913	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagcaagctctcctgaaaAgagccaaagaggaagtaggt	17	5	11	8	0	1	3	0	1	1	2	2	4	1	4	2	2	3	3	2	2	7	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	108199913	A	T	108199913	4	4	422	1	0	0	0	0	0	1	0	0	1109	64	3	5	7445	5	ATM	11	108199913	Nonsense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08	12101719	108199913	26806603	47	21374											
RAPGEF3	10411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48143587	48143587	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taccacgaagtgcccttgtcCccctggctgaacactgacag	9	8	9	15	1	0	2	0	2	0	0	1	3	1	2	4	1	3	1	4	1	3	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	48143587	C	T	48143587	2	4	422	1	0	0	0	0	0	0	0	1	13047	610	22	2		2	RAPGEF3	12	48143587	Silent	SNP	C	TCGA-CJ-5686-01A-11D-1669-08		48143587	85708308	48	21375											
AAAS	8086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53702266	53702266	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtctcagacagatctgcCacaatcgttgctgactttgc	8	13	9	11	1	2	3	1	1	2	2	4	3	2	3	1	0	3	3	1	0	1	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	53702266	C	A	53702266	2	1	422	1	0	0	0	0	0	0	0	1	8	581	21	4		4	AAAS	12	53702266	Silent	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	5558679	53702266	80149629	49	21376											
FZD10	11211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130648324	130648324	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tactccgtgggctacctcatCcgcctcttcgccggcgccga	4	9	10	18	6	2	0	1	0	1	0	5	1	4	0	6	2	2	1	6	2	2	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	130648324	C	T	130648324	2	4	422	1	0	0	0	0	0	0	0	1	6129	845	30	2		2	FZD10	12	130648324	Silent	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	76946058	130648324	3203571	50	21377											
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	23904812	23904812	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctcgttgcttcttgattCcatgaagtatagaatctctg	8	16	9	8	1	2	3	0	2	2	1	5	3	3	3	1	1	1	4	1	1	4	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	23904812	C	A	23904812	3	1	422	1	0	0	0	0	1	0	0	0	13806	856	30	4	540	4	SACS	13	23904812	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08		23904812	91265066	51	21378											
FGF14	2259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103053874	103053874	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaagacactgcagcataTgcgttcctttgctgaaaatg	13	10	8	10	1	0	2	0	1	0	1	1	2	1	2	1	0	4	4	1	0	4	3	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	103053874	T	A	103053874	3	1	422	1	0	0	0	0	1	0	0	0	5843	1464	51	5	820	5	FGF14	13	103053874	Missense_Mutation	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	79149062	103053874	12116004	52	21379											
FERMT2	10979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	53385908	53385908	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattcactttcaccttcacAtacttcatgttgggaagctg	11	14	6	10	0	4	0	4	0	0	0	4	1	4	1	1	1	2	2	1	1	3	6	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	53385908	A	G	53385908	2	3	422	1	0	0	0	0	0	0	0	1	5818	224	8	3		3	FERMT2	14	53385908	Silent	SNP	A	TCGA-CJ-5686-01A-11D-1669-08		53385908	53963632	53	21380											
TBPL2	387332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55895569	55895569	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaaaccttccagcctgatGggaaatctcacatcacagct	13	8	6	14	0	2	1	2	1	1	0	4	2	3	2	4	1	3	1	4	1	2	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	55895569	G	A	55895569	2	1	422	1	0	0	0	0	0	0	0	1	15645	1335	47	2		2	TBPL2	14	55895569	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	2509661	55895569	51453971	54	21381											
PCSK6	5046	broad.mit.edu;ucsc.edu	37	chr15	101971643	101971643	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacattcatttccgaccggCagcgactgttcttgtcgcca	7	11	10	13	4	2	0	1	0	1	0	4	3	3	1	3	2	1	2	3	2	0	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	101971643	A	A	101971643	3	1	422	1	0	0	0	0	1	0	0	0	11604	710	25	4	2925	4	PCSK6	15	101971643	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08		101971643	559749	55	21382											
SPG7	6687	hgsc.bcm.edu;ucsc.edu	37	chr16	89616909	89616910	+	Frame_Shift_Ins	INS	-	-	A																															gcattctttcagggactgccINSaaaaagagcaagatcctgtc																								novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	89616910	-	A	89616909	7	5	422	1	0	1	1	0	0	0	0	0	15045	581	21	0	1871	0	SPG7	16	89616909	Frame_Shift_Ins	INS	-	TCGA-CJ-5686-01A-11D-1669-08		89616909	737844	56	21383											
PITPNM3	83394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6386893	6386893	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacaggggacgaacttgatGaggatgtggcccagggcagc	10	5	18	8	1	0	2	0	2	0	0	0	6	0	5	1	6	2	1	1	6	1	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	6386893	G	A	6386893	2	1	422	1	0	0	0	0	0	0	0	1	11952	1277	45	2		2	PITPNM3	17	6386893	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08		6386893	74808317	57	21384											
CDK3	1018	broad.mit.edu;hgsc.bcm.edu	37	chr17	73998205	73998205	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccaccccaggctcagagctCcccctgcacctcatcaaggt	8	7	7	19	0	3	1	3	0	0	1	5	1	5	1	6	2	2	3	6	2	1	0	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	73998205	C	A	73998205	2	1	422	1	0	0	0	0	0	0	0	1	3140	842	30	4		4	CDK3	17	73998205	Silent	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	67611312	73998205	7197005	58	21385											
ALPK2	115701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	56205356	56205356	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaagtttgagaaggaaattGttgtggtcccagtgaatggg	11	12	14	4	0	0	2	0	2	0	1	1	4	1	3	1	3	0	2	1	3	4	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	56205356	G	A	56205356	3	1	422	1	0	0	0	0	1	0	0	0	545	1377	48	2	4485	2	ALPK2	18	56205356	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08		56205356	21871892	59	21386											
FBXW9	84261	broad.mit.edu;hgsc.bcm.edu	37	chr19	12807200	12807200	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaaaccctggacgcggcccGaggctccgaagcgctcgggg	7	3	16	15	7	0	0	0	0	0	0	2	4	1	1	3	5	2	2	3	5	2	0	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		A	12807200	G	A	12807200	3	1	422	1	0	0	0	0	1	0	0	0	5771	1057	37	1	1220	1	FBXW9	19	12807200	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08		12807200	46321783	60	21387											
HAUS8	93323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17169444	17169444	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgggcctttttctgtagcTtctccttctccttacacatt	4	18	6	13	1	3	0	0	0	3	0	5	0	3	0	3	1	2	2	3	1	2	7	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	17169444	T	G	17169444	3	3	422	1	0	0	0	0	1	0	0	0	6972	1609	56	5	688	5	HAUS8	19	17169444	Missense_Mutation	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	4362244	17169444	41959539	61	21388											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39008078	39008078	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcatggcagacattgggggGctggccgagtcaggtgcccg	6	7	17	11	2	2	1	2	0	0	1	2	2	2	1	2	6	1	2	2	6	0	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	39008078	G	T	39008078	2	4	422	1	0	0	0	0	0	0	0	1	13770	1190	42	4		4	RYR1	19	39008078	Silent	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	21838634	39008078	20120905	62	21389											
EGLN2	112398	hgsc.bcm.edu;ucsc.edu	37	chr19	41306619	41306619	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtcccctgctcccctccTaccactgtccaggagtgcct	4	10	7	20	0	0	0	0	0	0	0	4	1	4	1	9	1	3	1	9	1	1	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	41306619	T	C	41306619	3	2	422	1	0	0	0	0	1	0	0	0	4969	1522	53	3	144	3	EGLN2	19	41306619	Missense_Mutation	SNP	T	TCGA-CJ-5686-01A-11D-1669-08	2298541	41306619	17822364	63	21390											
ZNF808	388558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53058493	53058493	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcaataccttccgtcactGgtcatcccttgtataccatc	8	13	6	14	1	2	0	2	0	0	0	5	0	4	0	4	2	2	2	4	2	4	5	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	53058493	G	T	53058493	3	4	422	1	0	0	0	0	1	0	0	0	18172	1357	47	4	2334	4	ZNF808	19	53058493	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	11751874	53058493	6070490	64	21391											
CDC45	8318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	19467681	19467681	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgctcttccccgatagAgggtccttctcttcgtggcc	3	13	11	14	2	3	1	0	0	3	1	7	2	5	1	4	3	1	1	4	3	1	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	19467681	A	T	19467681	3	4	422	1	0	0	0	0	1	0	0	0	3081	318	11	5	58	5	CDC45	22	19467681	Missense_Mutation	SNP	A	TCGA-CJ-5686-01A-11D-1669-08		19467681	31836885	65	21392											
GTSE1	51512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	46708174	46708174	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggaagccacttgggccaggGcaagcgggcgatccctgttc	7	6	15	13	3	0	0	0	0	0	0	2	2	1	1	3	4	2	2	3	4	2	2	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		T	46708174	G	T	46708174	3	4	422	1	0	0	0	0	1	0	0	0	6885	1203	42	4	913	4	GTSE1	22	46708174	Missense_Mutation	SNP	G	TCGA-CJ-5686-01A-11D-1669-08	27240493	46708174	4596392	66	21393											
TAF1	6872	broad.mit.edu;hgsc.bcm.edu	37	chrX	70602417	70602417	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaggaagaggccacctcTaactccccctccaaggagag	13	4	11	13	0	1	3	0	0	1	3	3	6	3	4	5	3	1	0	5	3	4	1	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		C	70602417	T	C	70602417	2	2	422	1	0	0	0	0	0	0	0	1	15512	1509	53	3		3	TAF1	23	70602417	Silent	SNP	T	TCGA-CJ-5686-01A-11D-1669-08		70602417	84668143	67	21394											
BRWD3	254065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	79991541	79991541	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacagattgttccatcagcaCcagtagaagtgaggtatctg	13	10	10	8	0	2	3	1	1	1	2	3	3	3	3	2	1	2	4	2	1	4	4	novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		G	79991541	C	G	79991541	3	3	422	1	0	0	0	0	1	0	0	0	1526	507	18	4	4680	4	BRWD3	23	79991541	Missense_Mutation	SNP	C	TCGA-CJ-5686-01A-11D-1669-08	9389124	79991541	75279019	68	21395											
IRS4	8471	hgsc.bcm.edu;ucsc.edu	37	chrX	107976255	107976258	+	Frame_Shift_Del	DEL	CTGT	CTGT	-																															gggaaaggtctctctcgaggCtgtctgttggaaaagcagag																								novel		TCGA-CJ-5686-01A-11D-1669-08	TCGA-CJ-5686-11A-01D-1669-08	CTGT	CTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	695e2a72-6b97-4fa1-9f57-d7c6e10438ee	643a505e-ab7b-4885-a5ba-ed890cf80da8		-	107976258	CTGT	-	107976255	7	5	422	1	0	1	0	1	0	0	0	0	7842	797	28	0	457	0	IRS4	23	107976255	Frame_Shift_Del	DEL	CTGT	TCGA-CJ-5686-01A-11D-1669-08	27984714	107976255	47294305	69	21396											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11210198	11210198	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttacctaaaccccatgcagCtgcagcagccatccgggcca	10	7	8	16	1	0	0	0	0	0	0	1	0	1	0	6	1	7	4	6	1	3	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	11210198	C	T	11210198	3	4	423	1	0	0	0	0	1	0	0	0	9954	797	28	2	3206	2	MTOR	1	11210198	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08		11210198	238040423	1	21397											
PHACTR4	65979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28800469	28800469	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggagccccatataccCtctaggctgcctccactccc	6	10	8	17	0	1	0	0	0	1	0	3	1	3	1	6	3	3	1	6	3	3	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	28800469	C	A	28800469	2	1	423	1	0	0	0	0	0	0	0	1	11812	668	24	4		4	PHACTR4	1	28800469	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	17590271	28800469	220450152	2	21398											
PPIE	10450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40209514	40209514	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtttggtcagatgatgactGgttgaagaagttttctggga	10	14	14	3	0	2	5	1	3	1	2	2	6	2	6	0	3	0	3	0	3	2	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	40209514	G	T	40209514	3	4	423	1	0	0	0	0	1	0	0	0	12324	1357	47	4	324	4	PPIE	1	40209514	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	11409045	40209514	209041107	3	21399											
PCSK9	255738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55509579	55509579	+	Missense_Mutation	SNP	T	T	A																															aggagacccacctctcgcagTcagagcgcactgcccgccgc																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	55509579	T	A	55509579	3	1	423	1	0	0	0	0	1	0	0	0	11606	1667	58	5	277	5	PCSK9	1	55509579	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	15300065	55509579	193741042	4	21400	288	2									
PCSK9	255738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55509580	55509580	+	Missense_Mutation	SNP	C	C	T																															ggagacccacctctcgcagtCagagcgcactgcccgccgcc																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	55509580	C	T	55509580	3	4	423	1	0	0	0	0	1	0	0	0	11606	838	29	2	278	2	PCSK9	1	55509580	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	1	55509580	193741041	5	21401	288	2									
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62237112	62237112	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgattaagggatcaaagAttaaaggaaaatgatcaaat	21	9	8	3	0	2	3	2	2	0	1	2	5	2	5	0	2	0	0	0	2	7	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	62237112	A	G	62237112	2	3	423	1	0	0	0	0	0	0	0	1	7731	330	12	3		3	INADL	1	62237112	Silent	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	6727532	62237112	187013509	6	21402											
IL23R	149233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67705899	67705899	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggacttttattgggaatgatCgtctttgctgttatgttgtc	6	19	11	5	1	1	1	0	1	1	0	3	3	1	3	0	2	1	3	0	2	3	6	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	67705899	C	G	67705899	3	3	423	1	0	0	0	0	1	0	0	0	7676	874	31	4	1113	4	IL23R	1	67705899	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	5468787	67705899	181544722	7	21403											
SH3GLB1	51100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	87200796	87200796	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgaatgactttgtagAagcccagatgacttactatg	11	13	9	8	0	1	5	0	3	1	2	1	5	1	5	1	0	2	1	1	0	5	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	87200796	A	T	87200796	3	4	423	1	0	0	0	0	1	0	0	0	14255	246	9	5	721	5	SH3GLB1	1	87200796	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	19494897	87200796	162049825	8	21404											
PKN2	5586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89236095	89236095	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaagacaaaaatagaaGtcatacgaatgcagattctt	19	8	7	7	1	2	3	1	0	1	3	2	4	2	3	0	0	3	2	0	0	7	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	89236095	G	T	89236095	3	4	423	1	0	0	0	0	1	0	0	0	11980	1029	36	4	579	4	PKN2	1	89236095	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	2035299	89236095	160014526	9	21405											
CD101	9398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	117568204	117568204	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagaagtggccatccgctgCagcctggagagtgtaggcag	10	6	16	9	1	0	2	0	0	0	2	1	4	1	2	3	3	2	4	3	3	2	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	117568204	C	T	117568204	2	4	423	1	0	0	0	0	0	0	0	1	2962	718	25	2		2	CD101	1	117568204	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	28332109	117568204	131682417	10	21406											
S100A7A	338324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153391770	153391770	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggagcggcgccctgttcTgggggaagccagtgatccag	7	7	16	11	2	1	1	0	1	1	0	2	3	2	3	3	4	2	1	3	4	1	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	153391770	T	C	153391770	2	2	423	1	0	0	0	0	0	0	0	1	13786	1567	55	3		3	S100A7A	1	153391770	Silent	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	35823566	153391770	95858851	11	21407											
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183177097	183177097	+	Missense_Mutation	SNP	T	T	A																															tggtaatggattccgctgccTcaactgcaatgacaacactg																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	183177097	T	A	183177097	3	1	423	1	0	0	0	0	1	0	0	0	8615	1551	54	5	167	5	LAMC2	1	183177097	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	29785327	183177097	66073524	12	21408	289	2									
LAMC2	3918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	183177098	183177098	+	Silent	SNP	C	C	A																															ggtaatggattccgctgcctCaactgcaatgacaacactga																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	183177098	C	A	183177098	2	1	423	1	0	0	0	0	0	0	0	1	8615	813	29	4		4	LAMC2	1	183177098	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	1	183177098	66073523	13	21409	289	2									
LMOD1	25802	broad.mit.edu	37	chr1	201869657	201869657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccactgcagccctgacccGgcccttgtcaatgccccgga	7	7	9	18	2	1	1	1	1	0	0	2	2	2	2	6	2	3	1	6	2	1	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	201869657	A	A	201869657	3	1	423	1	0	0	0	0	1	0	0	0	8856	1115	39	1	1326	1	LMOD1	1	201869657	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	18692559	201869657	47380964	14	21410											
CNTN2	6900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205035032	205035032	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggaggccacagtcctggTccgaggtgaggggtttccca	8	7	15	11	1	0	1	0	1	0	0	3	3	3	2	4	6	0	1	4	6	1	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	205035032	T	A	205035032	3	1	423	1	0	0	0	0	1	0	0	0	3641	1667	58	5	1861	5	CNTN2	1	205035032	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	3165375	205035032	44215589	15	21411											
KLF11	8462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	10186515	10186515	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgcagccacacctgaacTaccaaaagacttccattctt	13	9	6	13	0	1	2	0	1	1	1	2	3	2	3	4	1	4	1	4	1	4	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	10186515	T	C	10186515	3	2	423	1	0	0	0	0	1	0	0	0	8339	1522	53	3	287	3	KLF11	2	10186515	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08		10186515	233012858	16	21412											
KHK	3795	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27317803	27317803	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accattgtgctccatgacacGtaaggcccccgggcctcgcc	7	7	10	17	3	0	1	0	1	0	0	2	1	1	1	6	2	1	2	6	2	1	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	27317803	G	A	27317803	5	1	423	1	0	0	0	0	0	0	1	0	8149	1159	40	1	494	1	KHK	2	27317803	Splice_Site	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	17131288	27317803	215881570	17	21413											
ABCG8	64241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44073354	44073354	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagttcaagatgccctggAcatctcccagctgccagaat	10	9	8	14	0	3	2	2	0	1	2	4	3	3	3	3	1	3	2	3	1	2	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	44073354	A	G	44073354	3	3	423	1	0	0	0	0	1	0	0	0	72	275	10	3	236	3	ABCG8	2	44073354	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	16755551	44073354	199126019	18	21414											
NBEAL1	65065	broad.mit.edu;ucsc.edu	37	chr2	204045216	204045217	+	Frame_Shift_Del	DEL	GT	-	-																															gaattcttctatttcccagaGtttttggaaaatcaaaatcg																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		-	204045217	-	-	204045216	7	5	423	1	0	1	0	1	0	0	0	0	10188	1020	36	0	6651	0	NBEAL1	2	204045216	Frame_Shift_Del	DEL	GT	TCGA-CJ-6027-01A-11D-1669-08	159971862	204045216	39154157	19	21415											
SMARCAL1	50485	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	217342998	217342998	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaatttttcagaaatgacAgaatccactgattacctcta	15	12	4	10	0	2	4	1	2	1	2	3	4	3	4	3	0	1	0	3	0	5	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	217342998	A	G	217342998	2	3	423	1	0	0	0	0	0	0	0	1	14775	175	7	3		3	SMARCAL1	2	217342998	Silent	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	13297782	217342998	25856375	20	21416											
VHL	7428	broad.mit.edu;hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	10183797	T	C	10183797	3	2	423	1	0	0	0	0	1	0	0	0	17161	1551	54	3	268	3	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08		10183797	187838633	21	21417											
GATA2	2624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128200752	128200753	+	Frame_Shift_Ins	INS	-	-	T																															tggtggttgtcgtctgacaaINStttgcacaacaggtgccggc																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	128200753	-	T	128200752	7	5	423	1	0	1	1	0	0	0	0	0	6254	98	4	0	397	0	GATA2	3	128200752	Frame_Shift_Ins	INS	-	TCGA-CJ-6027-01A-11D-1669-08	118016955	128200752	69821678	22	21418											
APBB2	323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	41015685	41015685	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcgctcggtgccaggttctgGatccggtgcagtgcacagtc	5	10	14	12	3	1	0	0	0	1	0	5	1	2	1	2	4	3	4	2	4	0	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	41015685	G	A	41015685	2	1	423	1	0	0	0	0	0	0	0	1	761	1164	41	2		2	APBB2	4	41015685	Silent	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		41015685	150138591	23	21419											
GABRB1	2560	hgsc.bcm.edu;ucsc.edu	37	chr4	47408773	47408774	+	Frame_Shift_Del	DEL	AA	AA	-																															tgccaaagatcccttatgtcAaagcgattgatatttatctg																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		-	47408774	AA	-	47408773	7	5	423	1	0	1	0	1	0	0	0	0	6166	131	5	0	940	0	GABRB1	4	47408773	Frame_Shift_Del	DEL	AA	TCGA-CJ-6027-01A-11D-1669-08	6393088	47408773	143745503	24	21420											
SCARB2	950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77084506	77084506	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttaatcatagacttcagtcGactcgccgtctctttatcaa	10	14	6	11	3	4	1	3	0	1	1	7	2	4	1	1	0	0	1	1	0	4	5	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	77084506	G	A	77084506	4	1	423	1	0	0	0	0	0	1	0	0	13884	1066	37	1	174	1	SCARB2	4	77084506	Nonsense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	29675733	77084506	114069770	25	21421											
GPRIN3	285513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	90170546	90170546	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaacatccagattctctaGttagaggtttacaggacctc	11	12	8	10	0	1	3	0	1	1	2	4	4	2	4	2	2	2	2	2	2	4	5	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	90170546	G	T	90170546	3	4	423	1	0	0	0	0	1	0	0	0	6731	1029	36	4	1618	4	GPRIN3	4	90170546	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	13086040	90170546	100983730	26	21422											
HHIP	64399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	145635414	145635414	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagaattcaagccattcagTaatggtcctttggttggtgg	9	15	11	6	0	2	1	2	0	0	1	3	1	3	1	2	4	1	2	2	4	4	6	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	145635414	T	C	145635414	2	2	423	1	0	0	0	0	0	0	0	1	7092	1635	57	3		3	HHIP	4	145635414	Silent	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	55464868	145635414	45518862	27	21423											
FNIP2	57600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159790324	159790324	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtttgtatgtgaaggctgcgGaaggacctgtgctggagcct	7	11	16	7	1	0	1	0	1	0	0	0	4	0	4	2	4	3	4	2	4	3	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	159790324	G	A	159790324	3	1	423	1	0	0	0	0	1	0	0	0	5976	1175	41	2	2586	2	FNIP2	4	159790324	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	14154910	159790324	31363952	28	21424											
C4orf41	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	184618916	184618916	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaccctgggccctcactAttgtttccagtgagctccag	6	11	8	16	0	2	1	2	1	0	0	4	1	4	1	5	1	1	2	5	1	1	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	184618916	A	G	184618916	3	3	423	1	0	0	0	0	1	0	0	0	2270	449	16	3	2873	3	C4orf41	4	184618916	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	24828592	184618916	6535360	29	21425											
ZFR	51663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32390443	32390443	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cagaaggcctaatgggcctgGaggaccatgaggataacctc	12	6	13	10	0	0	2	0	1	0	1	1	5	0	5	4	5	1	0	4	5	3	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	32390443	G	C	32390443	3	2	423	1	0	0	0	0	1	0	0	0	17658	1174	41	4	1180	4	ZFR	5	32390443	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		32390443	148524817	30	21426											
RASGRF2	5924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	80508333	80508333	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcacctcggccttaaacaGaagtgccatctacaggctga	12	8	9	12	1	2	2	1	1	1	1	3	3	2	2	3	2	3	1	3	2	4	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	80508333	G	A	80508333	3	1	423	1	0	0	0	0	1	0	0	0	13075	942	33	2	3395	2	RASGRF2	5	80508333	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	48117890	80508333	100406927	31	21427											
PPIP5K2	23262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	102502993	102502993	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagagtttgacttctcaaatCagacatcgaatggaagatcc	14	10	8	9	1	2	4	2	1	1	3	5	6	3	5	1	1	0	1	1	1	3	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	102502993	C	G	102502993	3	3	423	1	0	0	0	0	1	0	0	0	12335	816	29	4	2097	4	PPIP5K2	5	102502993	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	21994660	102502993	78412267	32	21428											
SLC22A4	6583	broad.mit.edu	37	chr5	131630693	131630693	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgtctacctgtccaccgtCgtgaccgaggtgggtgccag	6	8	14	13	4	1	1	0	1	1	0	3	3	2	1	5	2	2	0	5	2	1	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	131630693	T	T	131630693	2	4	423	1	0	0	0	0	0	0	0	1	14458	871	31	1		1	SLC22A4	5	131630693	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	29127700	131630693	49284567	33	21429											
CDC23	8697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137542357	137542357	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagggtataggcatccAtatcctgggcatcttcctaa	9	11	10	11	0	1	0	0	0	1	0	4	0	4	0	4	4	0	3	4	4	4	5	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	137542357	A	G	137542357	3	3	423	1	0	0	0	0	1	0	0	0	3061	217	8	3	1598	3	CDC23	5	137542357	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	5911664	137542357	43372903	34	21430											
PCDHGB1	56104	broad.mit.edu;ucsc.edu	37	chr5	140732064	140732064	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgaggggactttgccctAttcctacaatctatgtattg	9	13	9	10	1	1	0	0	0	1	0	2	2	2	1	2	2	3	1	2	2	5	7	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	140732064	C	C	140732064	3	2	423	1	0	0	0	0	1	0	0	0	11562	449	16	5	2239	5	PCDHGB1	5	140732064	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	3189707	140732064	40183196	35	21431											
NEDD9	4739	broad.mit.edu;ucsc.edu	37	chr6	11213548	11213548	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcccactggttcccccaAtgcttctctgcactgatggt	5	11	11	14	0	1	1	0	1	1	0	3	1	2	1	3	4	2	3	3	4	1	2	rs111447705		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	11213548	G	G	11213548	3	3	423	1	0	0	0	0	1	0	0	0	10313	101	4	3	2173	3	NEDD9	6	11213548	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08		11213548	159901519	36	21432											
BRPF3	27154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36177669	36177669	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatcctgcacacatcttcGcagaaccagtcaacttgagt	12	9	8	12	1	2	2	1	1	1	1	4	3	3	3	2	1	3	2	2	1	2	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	36177669	G	A	36177669	3	1	423	1	0	0	0	0	1	0	0	0	1521	1087	38	1	1857	1	BRPF3	6	36177669	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	24964121	36177669	134937398	37	21433											
AVL9	23080	hgsc.bcm.edu;ucsc.edu	37	chr7	32584314	32584314	+	Frame_Shift_Del	DEL	T	T	-																															tgtatctcttagatactgtgTtttttcacttgccacccaga																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		-	32584314	T	-	32584314	7	5	423	1	0	1	0	1	0	0	0	0	1228	1725	60	0	233	0	AVL9	7	32584314	Frame_Shift_Del	DEL	T	TCGA-CJ-6027-01A-11D-1669-08		32584314	126554349	38	21434											
DPY19L1	23333	broad.mit.edu;ucsc.edu	37	chr7	35057549	35057549	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagaggtgagaaaaatgaCggtcattttcaaagaggtgt	14	11	13	3	1	2	4	2	3	0	3	2	6	2	4	0	3	0	0	0	3	3	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	35057549	G	G	35057549	3	3	423	1	0	0	0	0	1	0	0	0	4740	536	19	4	1970	4	DPY19L1	7	35057549	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	2473235	35057549	124081114	39	21435											
PKD1L1	168507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	47873983	47873983	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttccccaggaattaggaCctgattcaaaaaaataaaaa	18	9	5	9	0	1	1	1	1	0	0	3	3	3	3	4	2	0	0	4	2	8	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	47873983	C	A	47873983	3	1	423	1	0	0	0	0	1	0	0	0	11964	521	18	4	2493	4	PKD1L1	7	47873983	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	12816434	47873983	111264680	40	21436											
PAX4	5078	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127252031	127252031	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gattcctggggcaacccttgGtacagtcagcccctgggaag	8	8	13	12	0	1	0	1	0	0	0	2	2	2	1	4	4	3	2	4	4	3	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	127252031	G	T	127252031	3	4	423	1	0	0	0	0	1	0	0	0	11481	1261	44	4	328	4	PAX4	7	127252031	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	79378048	127252031	31886632	41	21437											
PLEC	5339	broad.mit.edu;hgsc.bcm.edu	37	chr8	144999885	144999885	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtccaccgccgcctcctcCcgccgcaccacctcctcctg	3	6	7	25	5	0	0	0	0	0	0	5	0	5	0	11	0	0	1	11	0	0	0	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	144999885	C	G	144999885	2	3	423	1	0	0	0	0	0	0	0	1	12052	610	22	4		4	PLEC	8	144999885	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08		144999885	1364137	42	21438											
IARS	3376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95021264	95021264	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgctctcaccacaggggAgttaatcagatataatctgg	11	12	9	9	0	4	1	2	0	3	1	5	2	4	2	1	3	1	2	1	3	3	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	95021264	A	T	95021264	3	4	423	1	0	0	0	0	1	0	0	0	7473	304	11	5	1964	5	IARS	9	95021264	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08		95021264	46192167	43	21439											
NR4A3	8013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	102590586	102590586	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcccttgatcaaagtggagGaggggcgggcgcccagctac	8	5	17	11	2	1	1	1	1	0	0	1	3	1	3	2	6	2	1	2	6	2	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	102590586	G	T	102590586	4	4	423	1	0	0	0	0	0	1	0	0	10634	1175	41	4	301	4	NR4A3	9	102590586	Nonsense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	7569322	102590586	38622845	44	21440											
NEBL	10529	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	21124510	21124510	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagtgccagcttgcattcCtttccctttaattattgact	7	17	6	11	0	1	1	1	1	0	0	3	1	3	1	3	0	3	2	3	0	2	7	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	21124510	C	A	21124510	4	1	423	1	0	0	0	0	0	1	0	0	10303	690	24	4	1723	4	NEBL	10	21124510	Nonsense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08		21124510	114410237	45	21441											
OPN4	94233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	88418429	88418429	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctggcctggagtctgccaCccttcttcggctggagtaag	5	10	12	14	1	2	0	0	0	2	0	3	2	2	2	4	4	1	2	4	4	1	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	88418429	C	A	88418429	3	1	423	1	0	0	0	0	1	0	0	0	10882	507	18	4	664	4	OPN4	10	88418429	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	67293919	88418429	47116318	46	21442											
TECTB	6975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	114053509	114053509	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tccaaagaatgccaagttctCcatcaagaaagaagctccct	15	8	6	12	0	2	3	1	0	1	3	5	3	4	3	4	0	2	2	4	0	6	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	114053509	C	G	114053509	3	3	423	1	0	0	0	0	1	0	0	0	15747	855	30	4	515	4	TECTB	10	114053509	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	25635080	114053509	21481238	47	21443											
B3GAT3	26229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62384532	62384532	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgggtccctggtggtGgtgggtccttctccccaccc	1	12	12	16	0	1	0	0	0	1	0	5	0	4	0	6	5	0	0	6	5	0	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	62384532	G	A	62384532	3	1	423	1	0	0	0	0	1	0	0	0	1255	1348	47	2	474	2	B3GAT3	11	62384532	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		62384532	72621984	48	21444											
TSGA10IP	254187	broad.mit.edu	37	chr11	65715209	65715209	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcaacaacctccgaaggCgacaatggaggaagacaagg	15	4	12	10	2	1	1	1	0	0	1	2	5	2	3	2	4	2	1	2	4	6	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	65715209	T	T	65715209	4	4	423	1	0	0	0	0	0	1	0	0	16617	760	27	1	923	1	TSGA10IP	11	65715209	Nonsense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	3330677	65715209	69291307	49	21445											
YIF1A	10897	hgsc.bcm.edu;ucsc.edu	37	chr11	66052992	66052996	+	Frame_Shift_Del	DEL	CACCT	CACCT	-																															gtgcttgcacacaggcccagCacctccggggagaacctgcg																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	CACCT	CACCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		-	66052996	CACCT	-	66052992	7	5	423	1	0	1	0	1	0	0	0	0	17474	697	25	0	392	0	YIF1A	11	66052992	Frame_Shift_Del	DEL	CACCT	TCGA-CJ-6027-01A-11D-1669-08	337783	66052992	68953524	50	21446											
C2CD3	26005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73753116	73753116	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgagagaagtcagaatGgaggtttgggaggacaaagg	14	6	16	5	0	1	3	1	1	0	2	1	7	1	6	1	5	0	1	1	5	3	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	73753116	G	T	73753116	2	4	423	1	0	0	0	0	0	0	0	1	2154	1335	47	4		4	C2CD3	11	73753116	Silent	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	7700124	73753116	61253400	51	21447											
ODZ4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	78369131	78369131	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccatctcgctctgtctcAtgaagtggatgttgttggcg	5	13	13	10	2	3	1	1	1	3	0	5	2	3	2	1	3	0	3	1	3	1	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	78369131	A	G	78369131	3	3	423	1	0	0	0	0	1	0	0	0	10837	217	8	3	31	3	ODZ4	11	78369131	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	4616015	78369131	56637385	52	21448											
RBM7	10179	broad.mit.edu;hgsc.bcm.edu	37	chr11	114272549	114272549	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacttaatggaatcaaacttTatggaaggcctatcaaaatt	16	13	6	6	0	2	0	2	0	0	0	2	2	2	2	1	3	2	0	1	3	9	6	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		C	114272549	T	C	114272549	3	2	423	1	0	0	0	0	1	0	0	0	13147	1754	61	3	232	3	RBM7	11	114272549	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	35903418	114272549	20733967	53	21449											
LACRT	90070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55026040	55026040	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttactcagggggtttagttCctgcctgcttgaggtgacct	5	14	12	10	0	1	2	1	2	0	0	2	2	2	2	3	3	3	3	3	3	2	5	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	55026040	C	A	55026040	4	1	423	1	0	0	0	0	0	1	0	0	8596	864	30	4	190	4	LACRT	12	55026040	Nonsense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08		55026040	78825855	54	21450											
ATP5B	506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57036241	57036241	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catctatgtaatttttcttaCctgtacagaggtgatagatc	11	16	7	7	0	2	3	0	1	2	2	3	3	2	3	1	1	2	2	1	1	5	7	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	57036241	C	A	57036241	5	1	423	1	0	0	0	0	0	0	1	0	1148	521	18	4	530	4	ATP5B	12	57036241	Splice_Site	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	2010201	57036241	76815654	55	21451											
INTS6	26512	broad.mit.edu;hgsc.bcm.edu	37	chr13	51969612	51969612	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaaaggagaattaagaggtAaatgaagctgaaagtagggg	18	6	15	2	0	0	4	0	2	0	2	0	5	0	4	0	4	1	4	0	4	8	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	51969612	A	G	51969612	3	3	423	1	0	0	0	0	1	0	0	0	7782	372	13	3	2282	3	INTS6	13	51969612	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08		51969612	63200266	56	21452											
BAZ1A	11177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	35264070	35264070	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaggtagtctagttttCactggtgttggttctggaag	7	15	14	5	0	4	0	2	0	2	0	4	2	4	2	0	5	0	4	0	5	3	6	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	35264070	C	A	35264070	2	1	423	1	0	0	0	0	0	0	0	1	1329	813	29	4		4	BAZ1A	14	35264070	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08		35264070	72085470	57	21453											
KIAA0586	9786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58932590	58932590	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataagaacacagactgacttCtatgcaacaaaacctaagaa	20	7	5	9	0	1	4	0	1	1	3	1	4	1	4	1	0	4	1	1	0	8	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	58932590	C	G	58932590	3	3	423	1	0	0	0	0	1	0	0	0	8186	912	32	4	1923	4	KIAA0586	14	58932590	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	23668520	58932590	48416950	58	21454											
BDKRB2	624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	96703508	96703508	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggactccgtgcccaccacgGcctctttcaggtgagtcaaa	9	8	10	14	2	3	1	2	1	1	0	4	2	4	2	4	3	1	0	4	3	1	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	96703508	G	T	96703508	3	4	423	1	0	0	0	0	1	0	0	0	1393	1203	42	4	66	4	BDKRB2	14	96703508	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	37770918	96703508	10646032	59	21455											
PAPOLA	10914	broad.mit.edu;ucsc.edu	37	chr14	97022676	97022676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcagcaacaaaaatacctActcctatagtaggagtcaag	17	8	7	9	0	1	0	1	0	0	0	2	1	2	1	2	1	5	3	2	1	9	5	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	97022676	G	G	97022676	3	3	423	1	0	0	0	0	1	0	0	0	11429	391	14	3	2004	3	PAPOLA	14	97022676	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	319168	97022676	10326864	60	21456											
PLA2G4D	283748	broad.mit.edu;ucsc.edu	37	chr15	42379578	42379578	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgagcgtcttggtcttaaActtcattccaggtgcggtcg	6	13	13	9	3	3	1	1	1	2	0	5	1	4	1	1	4	3	0	1	4	2	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	42379578	G	G	42379578	3	3	423	1	0	0	0	0	1	0	0	0	12004	43	2	3	2353	3	PLA2G4D	15	42379578	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08		42379578	60151814	61	21457											
DET1	55070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89070834	89070834	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggaacagcttaccggcGctggatctgccttgcaaaat	9	10	12	10	2	1	0	0	0	1	0	1	2	1	2	2	4	5	3	2	4	4	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	89070834	G	A	89070834	3	1	423	1	0	0	0	0	1	0	0	0	4450	1087	38	1	397	1	DET1	15	89070834	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	46691256	89070834	13460558	62	21458											
MMP2	4313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	55519326	55519326	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgatgagctatggaccttGggagaaggccaaggtgagaa	13	6	16	6	1	0	3	0	2	0	2	0	8	0	4	2	4	1	1	2	4	4	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	55519326	G	A	55519326	2	1	423	1	0	0	0	0	0	0	0	1	9658	1339	47	2		2	MMP2	16	55519326	Silent	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		55519326	34835427	63	21459											
ZPBP2	124626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38031594	38031594	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaccagcaatgcattttGtggaccacagtttgcaagta	11	12	8	10	0	1	0	0	0	1	0	1	1	1	1	2	1	4	5	2	1	4	5	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	38031594	G	A	38031594	3	1	423	1	0	0	0	0	1	0	0	0	18219	1377	48	2	822	2	ZPBP2	17	38031594	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		38031594	43163616	64	21460											
GAA	2548	broad.mit.edu;hgsc.bcm.edu	37	chr17	78090845	78090845	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgctcatcaccccagtgctCcaggccgggaaggccgaagt	8	6	12	15	2	2	0	2	0	0	0	3	2	3	1	5	3	2	2	5	3	2	0	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	78090845	C	T	78090845	2	4	423	1	0	0	0	0	0	0	0	1	6147	842	30	2		2	GAA	17	78090845	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	40059251	78090845	3104365	65	21461											
ATP8B3	148229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1811645	1811645	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcctgagtcacgtctgAgtcacccgtgtccccaggtc	5	10	10	16	2	3	2	2	2	1	0	6	2	5	2	5	1	0	0	5	1	0	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	1811645	A	T	1811645	3	4	423	1	0	0	0	0	1	0	0	0	1196	304	11	5	3971	5	ATP8B3	19	1811645	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08		1811645	57317338	66	21462											
ACSBG2	81616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6182803	6182803	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggaggtaaaacctactgtCttcattggagtgcctcaaat	13	11	9	8	0	3	0	2	0	1	0	3	2	3	2	2	3	3	1	2	3	5	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	6182803	C	T	6182803	2	4	423	1	0	0	0	0	0	0	0	1	174	900	32	2		2	ACSBG2	19	6182803	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	4371158	6182803	52946180	67	21463											
ACTL9	284382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8807932	8807932	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacggagaaattcctggtggGctgggcagccaccaccacgt	9	7	13	12	2	0	1	0	0	0	1	1	2	1	1	4	4	2	2	4	4	2	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	8807932	G	A	8807932	3	1	423	1	0	0	0	0	1	0	0	0	203	1203	42	2	134	2	ACTL9	19	8807932	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	2625129	8807932	50321051	68	21464											
MUC16	94025	hgsc.bcm.edu;ucsc.edu	37	chr19	9075200	9075200	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagattctgtcatggcaggAaagttagacagcctggtgat	11	10	12	8	0	2	3	1	1	1	2	2	4	2	4	2	3	1	2	2	3	2	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	9075200	A	T	9075200	3	4	423	1	0	0	0	0	1	0	0	0	9973	243	9	5	31605	5	MUC16	19	9075200	Missense_Mutation	SNP	A	TCGA-CJ-6027-01A-11D-1669-08	267268	9075200	50053783	69	21465											
OR7G3	390883	hgsc.bcm.edu	37	chr19	9236698	9236699	+	Frame_Shift_Ins	INS	-	-	ATGGT																															gctgagacatcaatggaaagINSatggtatcctagatattagt																								rs111867493	bycluster;by1000genomes	TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		ATGGT	9236699	-	ATGGT	9236698	7	5	423	1	0	1	1	0	0	0	0	0	11224	942	33	0	12	0	OR7G3	19	9236698	Frame_Shift_Ins	INS	-	TCGA-CJ-6027-01A-11D-1669-08	161498	9236698	49892285	70	21466											
SPTBN4	57731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41066216	41066216	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctgcatgtcagctccaCagccgacgccctgcgcttcc	5	7	9	20	4	1	0	1	0	0	0	3	1	3	0	6	0	4	3	6	0	0	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		G	41066216	C	G	41066216	3	3	423	1	0	0	0	0	1	0	0	0	15122	478	17	4	5924	4	SPTBN4	19	41066216	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	31829518	41066216	18062767	71	21467											
RABAC1	10567	broad.mit.edu;ucsc.edu	37	chr19	42462491	42462491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatagagaatgtaacaggcgCcgaaaaagacagccagagcc	17	3	12	9	2	0	3	0	0	0	3	0	6	0	3	3	1	3	1	3	1	5	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	42462491	T	T	42462491	3	4	423	1	0	0	0	0	1	0	0	0	12962	739	26	2	255	2	RABAC1	19	42462491	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	1396275	42462491	16666492	72	21468											
ZNF45	7596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44418082	44418082	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggccttaccacacctctcGcatttatagggtttctctcc	8	13	6	14	1	2	0	0	0	2	0	5	0	3	0	4	2	1	2	4	2	4	5	rs142171881	bycluster;byfrequency;by1000genomes	TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	44418082	G	A	44418082	2	1	423	1	0	0	0	0	0	0	0	1	17920	1079	38	1		1	ZNF45	19	44418082	Silent	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	1955591	44418082	14710901	73	21469											
ZSCAN1	284312	broad.mit.edu;hgsc.bcm.edu	37	chr19	58549265	58549265	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaccccaaccccgagtGagcaggacgcagaccctggg	10	2	12	17	2	0	3	0	1	0	2	0	5	0	4	6	2	2	2	6	2	1	0	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	58549265	G	T	58549265	4	4	423	1	0	0	0	0	0	1	0	0	18225	1291	45	4	63	4	ZSCAN1	19	58549265	Nonsense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	14131183	58549265	579718	74	21470											
PROCR	10544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33763988	33763988	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagttcctctgaccatccgcTgcttcctgggctgtgagctg	4	12	11	14	1	1	2	0	2	1	0	4	2	4	2	4	1	2	5	4	1	0	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	33763988	T	A	33763988	3	1	423	1	0	0	0	0	1	0	0	0	12549	1580	55	5	350	5	PROCR	20	33763988	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08		33763988	29261532	75	21471											
FAM83C	128876	hgsc.bcm.edu;ucsc.edu	37	chr20	33875097	33875099	+	In_Frame_Del	DEL	CTT	CTT	-																															cttggagatgccttcttctcCttctcctccactgtctccag																								novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		-	33875099	CTT	-	33875097	7	5	423	1	0	1	0	1	0	0	0	0	5635	680	24	0	762	0	FAM83C	20	33875097	In_Frame_Del	DEL	CTT	TCGA-CJ-6027-01A-11D-1669-08	111109	33875097	29150423	76	21472											
C20orf24	55969	broad.mit.edu;ucsc.edu	37	chr20	35238021	35238021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagattctgcctgatcaatgCaggagtcctgtacctctact	9	12	8	12	0	3	2	1	1	2	1	4	3	4	3	3	1	4	2	3	1	3	3	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	35238021	T	T	35238021	3	4	423	1	0	0	0	0	1	0	0	0	2105	710	25	2	246	2	C20orf24	20	35238021	Missense_Mutation	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	1362924	35238021	27787499	77	21473											
C20orf165	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44515557	44515557	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccagctgcctcacatGcgggaatttgtggcagtttc	6	12	11	12	1	2	0	1	0	1	0	4	1	2	1	2	2	3	4	2	2	1	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	44515557	G	A	44515557	3	1	423	1	0	0	0	0	1	0	0	0	2094	1319	46	2	404	2	C20orf165	20	44515557	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	9277536	44515557	18509963	78	21474											
MORC3	23515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37736413	37736413	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatgctgaactgttgtttcGgccaactgctctttcaactc	8	15	7	11	1	2	1	1	1	1	0	4	1	2	1	1	1	5	4	1	1	4	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	37736413	G	A	37736413	3	1	423	1	0	0	0	0	1	0	0	0	9703	1116	39	1	1529	1	MORC3	21	37736413	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		37736413	10393482	79	21475											
NYX	60506	broad.mit.edu	37	chrX	41333572	41333572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctacctggaccgcaacaGcatcgccttcgtggaggagg	8	7	13	13	3	1	0	0	0	1	0	3	3	1	3	3	4	3	3	3	4	2	2	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	41333572	A	A	41333572	3	1	423	1	0	0	0	0	1	0	0	0	10797	971	34	2	872	2	NYX	23	41333572	Missense_Mutation	SNP	G	TCGA-CJ-6027-01A-11D-1669-08		41333572	113936988	80	21476											
HDAC6	10013	hgsc.bcm.edu;ucsc.edu	37	chrX	48674608	48674608	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgtctggaggagctgggCcttgccgggcgctgcctcac	3	8	16	14	3	2	0	1	0	1	0	2	2	2	2	4	4	4	2	4	4	0	1	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		T	48674608	C	T	48674608	2	4	423	1	0	0	0	0	0	0	0	1	7011	726	26	2		2	HDAC6	23	48674608	Silent	SNP	C	TCGA-CJ-6027-01A-11D-1669-08	7341036	48674608	106595952	81	21477											
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	chrX	76952169	76952169	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcatcatctgattctacaTactttgttacaattgaaggt	11	18	5	7	0	4	2	2	2	2	0	4	2	4	2	0	1	3	1	0	1	5	7	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	76952169	T	A	76952169	3	1	423	1	0	0	0	0	1	0	0	0	1208	1406	49	5	7336	5	ATRX	23	76952169	Missense_Mutation	SNP	T	TCGA-CJ-6027-01A-11D-1669-08	28277561	76952169	78318391	82	21478											
AIFM1	9131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129289191	129289191	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtacactaggttgctGccatctttcccagaagcacc	12	9	8	12	0	1	2	0	0	1	2	2	2	2	2	3	1	4	4	3	1	5	4	novel		TCGA-CJ-6027-01A-11D-1669-08	TCGA-CJ-6027-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b0483455-4cde-408f-b831-17223c03241a	8a6d1d13-52dd-44de-9bba-95cbb12056a0		A	129289191	G	A	129289191	2	1	423	1	0	0	0	0	0	0	0	1	426	1306	46	2		2	AIFM1	23	129289191	Silent	SNP	G	TCGA-CJ-6027-01A-11D-1669-08	52337022	129289191	25981369	83	21479											
CHIA	27159	broad.mit.edu;hgsc.bcm.edu	37	chr1	111857933	111857933	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgagaaccgccagacttTcatcacctcagtcatcaaat	12	10	5	14	1	5	2	5	1	0	2	6	3	6	2	4	0	1	0	4	0	2	1	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	111857933	T	C	111857933	3	2	424	1	0	0	0	0	1	0	0	0	3342	1783	62	3	374	3	CHIA	1	111857933	Missense_Mutation	SNP	T	TCGA-CJ-6028-01A-11D-1669-08		111857933	137392688	1	21480											
ST7L	54879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113124710	113124710	+	Missense_Mutation	SNP	G	G	A																															gatgttcaacatggtaagagGaggaaattctttcatcaact																								novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	113124710	G	A	113124710	3	1	424	1	0	0	0	0	1	0	0	0	15231	1174	41	2	821	2	ST7L	1	113124710	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	1266777	113124710	136125911	2	21481	290	2									
ST7L	54879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113124711	113124711	+	Silent	SNP	A	A	T																															atgttcaacatggtaagaggAggaaattctttcatcaactg																								novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	113124711	A	T	113124711	2	4	424	1	0	0	0	0	0	0	0	1	15231	291	11	5		5	ST7L	1	113124711	Silent	SNP	A	TCGA-CJ-6028-01A-11D-1669-08	1	113124711	136125910	3	21482	290	2									
DCLRE1B	64858	broad.mit.edu;hgsc.bcm.edu	37	chr1	114454408	114454408	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctttgcggatcaagaaGcagttgttcccagatctcta	10	12	8	11	1	2	2	1	0	1	2	5	3	4	3	2	1	2	3	2	1	3	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	114454408	G	C	114454408	3	2	424	1	0	0	0	0	1	0	0	0	4295	962	34	4	1208	4	DCLRE1B	1	114454408	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	1329697	114454408	134796213	4	21483											
FCRL1	115350	broad.mit.edu	37	chr1	157789883	157789883	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcatcaaaaaaagaatgcaCctcagagtcgagcagcagca	17	5	8	11	1	3	2	3	0	0	2	4	3	3	2	1	0	4	4	1	0	4	0	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	157789883	T	T	157789883	1	4	424	1	0	0	0	0	0	0	0	0	5794	522	18	2		2	FCRL1	1	157789883	Translation_Start_Site	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	43335475	157789883	91460738	5	21484											
CD1C	911	hgsc.bcm.edu;ucsc.edu	37	chr1	158262061	158262061	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaatcatcagtatgaaggCgtcacagaaacagtgtataa	16	9	8	8	1	4	2	4	1	0	1	4	2	4	2	0	1	1	2	0	1	6	3	rs142044323	bycluster;byfrequency;by1000genomes	TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	158262061	C	T	158262061	2	4	424	1	0	0	0	0	0	0	0	1	2976	755	27	1		1	CD1C	1	158262061	Silent	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	472178	158262061	90988560	6	21485											
OR10K2	391107	broad.mit.edu;hgsc.bcm.edu	37	chr1	158390417	158390417	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcaggtcaaccagcatCttgggtacaatgatgaaggt	13	8	12	8	0	2	2	1	2	1	0	2	3	2	2	1	3	4	3	1	3	4	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	158390417	C	A	158390417	3	1	424	1	0	0	0	0	1	0	0	0	10914	912	32	4	700	4	OR10K2	1	158390417	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	128356	158390417	90860204	7	21486											
FAM5C	339479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	190068174	190068174	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcattcggacacgtgcaCgagtgcgtctcttctgaaaa	9	11	11	10	4	3	1	1	1	2	0	5	3	3	2	0	2	2	1	0	2	2	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	190068174	C	T	190068174	2	4	424	1	0	0	0	0	0	0	0	1	5594	523	19	1		1	FAM5C	1	190068174	Silent	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	31677757	190068174	59182447	8	21487											
IARS2	55699	broad.mit.edu	37	chr1	220318982	220318982	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcttaaagggaaattcctCatcaacttagaaggtaagaa	17	9	9	6	0	2	2	2	0	0	2	3	4	3	3	1	2	2	2	1	2	8	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	220318982	T	T	220318982	2	4	424	1	0	0	0	0	0	0	0	1	7474	813	29	2		2	IARS2	1	220318982	Silent	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	30250808	220318982	28931639	9	21488											
PRSS38	339501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	228004909	228004909	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctgttctcacccccacaGggacaagaatatcaaaatct	13	9	5	14	0	4	1	2	0	3	1	5	2	4	2	3	1	0	1	3	1	5	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	228004909	G	T	228004909	5	4	424	1	0	0	0	0	0	0	1	0	12629	1014	35	4	321	4	PRSS38	1	228004909	Splice_Site	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	7685927	228004909	21245712	10	21489											
LYST	1130	hgsc.bcm.edu;ucsc.edu	37	chr1	235950642	235950643	+	Frame_Shift_Ins	INS	-	-	T																															acctgtgctagtaaaacagcINStttcatgtcatcatttgaat																								novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	235950643	-	T	235950642	7	5	424	1	0	1	1	0	0	0	0	0	9128	797	28	0	6845	0	LYST	1	235950642	Frame_Shift_Ins	INS	-	TCGA-CJ-6028-01A-11D-1669-08	7945733	235950642	13299979	11	21490											
CTNNA2	1496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	80782891	80782891	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgtggacactctggaccgGactgcaggggccatcagggg	8	6	17	10	1	2	0	1	0	1	0	2	4	2	3	2	7	1	1	2	7	0	0	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	80782891	G	T	80782891	2	4	424	1	0	0	0	0	0	0	0	1	4013	1161	41	4		4	CTNNA2	2	80782891	Silent	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		80782891	162416482	12	21491											
DNAH6	1768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84780110	84780110	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtttctcacagaactaatGttgacagtccagtcactgct	11	13	7	10	0	2	2	2	1	1	1	4	2	3	2	1	0	2	3	1	0	2	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	84780110	G	C	84780110	3	2	424	1	0	0	0	0	1	0	0	0	4605	1377	48	4	1588	4	DNAH6	2	84780110	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	3997219	84780110	158419263	13	21492											
PROC	5624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128185973	128185973	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggagaagtgggagctggaCctggacatcaaggaggtctt	10	8	17	6	0	2	1	1	0	1	1	2	6	2	5	1	6	1	1	1	6	2	1	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	128185973	C	A	128185973	3	1	424	1	0	0	0	0	1	0	0	0	12547	506	18	4	867	4	PROC	2	128185973	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	43405863	128185973	115013400	14	21493											
SPEG	10290	broad.mit.edu	37	chr2	220338227	220338227	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcgctctcctcctcccaggCccaaccctggaggaggcccc	5	6	10	20	1	1	0	0	0	1	0	4	2	3	2	7	4	2	1	7	4	1	0	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	220338227	A	A	220338227	2	1	424	1	0	0	0	0	0	0	0	1	15037	753	26	4		4	SPEG	2	220338227	Silent	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	92152254	220338227	22861146	15	21494											
PLXNA1	5361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	126708047	126708047	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccccacactgtccagccGtcggctcatggccaacgagg	7	7	10	17	3	1	0	1	0	0	0	4	1	3	0	5	3	2	1	5	3	1	1	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	126708047	G	A	126708047	3	1	424	1	0	0	0	0	1	0	0	0	12119	1145	40	1	613	1	PLXNA1	3	126708047	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		126708047	71314383	16	21495											
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	134071474	134071474	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagacggtgcccaactcaaGgaccccttacttagacctca	11	8	7	15	1	3	2	3	0	0	2	3	3	3	3	4	2	3	0	4	2	4	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	134071474	G	A	134071474	3	1	424	1	0	0	0	0	1	0	0	0	11507	1000	35	2	181	2	PCDH10	4	134071474	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		134071474	57082802	17	21496											
KIF2A	3796	broad.mit.edu	37	chr5	61649100	61649100	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctcatcttttcttttcAgcacgtagaaaatctaattg	12	15	5	9	1	5	1	2	0	3	1	5	1	5	1	0	0	2	3	0	0	4	7	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	61649100	G	G	61649100	5	3	424	1	0	0	0	0	0	0	1	0	8297	202	7	3	478	3	KIF2A	5	61649100	Splice_Site	SNP	A	TCGA-CJ-6028-01A-11D-1669-08		61649100	119266160	18	21497											
PCDHGC4	56098	broad.mit.edu;hgsc.bcm.edu	37	chr5	140865503	140865503	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggattagtgtgttggagagcGcaccagcgggcatggtgctc	7	9	17	8	2	0	1	0	0	0	1	1	3	0	2	1	4	3	4	1	4	1	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	140865503	G	T	140865503	3	4	424	1	0	0	0	0	1	0	0	0	11570	1087	38	4	765	4	PCDHGC4	5	140865503	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	79216403	140865503	40049757	19	21498											
HTR4	3360	hgsc.bcm.edu	37	chr5	147889404	147889404	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggaggaggctcctgcccGttgtaacatctggatctgat	7	11	12	11	2	2	1	0	1	2	0	4	4	3	4	2	4	2	3	2	4	1	2	rs140360260	bycluster;byfrequency;by1000genomes	TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	147889404	G	A	147889404	3	1	424	1	0	0	0	0	1	0	0	0	7449	1144	40	1	779	1	HTR4	5	147889404	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	7023901	147889404	33025856	20	21499											
SLIT3	6586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	168093623	168093623	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgggcaccttggaggCtgtggcacatgatgcataac	10	9	13	9	0	0	2	0	2	0	0	0	3	0	3	1	4	2	4	1	4	1	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	168093623	C	G	168093623	3	3	424	1	0	0	0	0	1	0	0	0	14743	797	28	4	167	4	SLIT3	5	168093623	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	20204219	168093623	12821637	21	21500											
GFPT2	9945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179745870	179745870	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggccgagcgcttgaccCggtgaatggagagtttccca	8	8	13	12	3	0	3	0	2	0	1	1	5	1	3	3	3	1	2	3	3	1	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	179745870	C	T	179745870	3	4	424	1	0	0	0	0	1	0	0	0	6346	652	23	1	1207	1	GFPT2	5	179745870	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	11652247	179745870	1169390	22	21501											
PI16	221476	broad.mit.edu;ucsc.edu	37	chr6	36922579	36922579	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgcttctgctgccgctaCtgctactgctggtggccacc	4	12	11	14	1	1	1	0	1	1	0	1	1	1	1	3	2	7	5	3	2	2	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	36922579	T	T	36922579	2	4	424	1	0	0	0	0	0	0	0	1	11869	564	20	2		2	PI16	6	36922579	Silent	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		36922579	134192488	23	21502											
SLC35A1	10559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	88218885	88218885	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagtaatgctgtttggatTacagataagtatgtcttagt	11	17	9	4	0	2	1	1	0	1	1	2	2	2	2	0	1	2	4	0	1	5	7	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	88218885	T	C	88218885	3	2	424	1	0	0	0	0	1	0	0	0	14572	1764	61	3	904	3	SLC35A1	6	88218885	Missense_Mutation	SNP	T	TCGA-CJ-6028-01A-11D-1669-08	51296306	88218885	82896182	24	21503											
MANEA	79694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	96053676	96053676	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agacgaagactggcaatgctCttcctatgttttatgtctat	10	15	8	8	1	2	2	0	0	2	2	3	3	3	2	1	1	1	3	1	1	5	5	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	96053676	C	G	96053676	3	3	424	1	0	0	0	0	1	0	0	0	9221	913	32	4	798	4	MANEA	6	96053676	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	7834791	96053676	75061391	25	21504											
PPIL4	85313	broad.mit.edu;hgsc.bcm.edu	37	chr6	149855873	149855873	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattaataaatcaggagggtCatcaaatggatcatctaaaa	18	10	8	5	0	5	0	4	0	1	0	5	3	5	2	0	3	0	0	0	3	6	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	149855873	C	T	149855873	3	4	424	1	0	0	0	0	1	0	0	0	12331	826	29	2	1008	2	PPIL4	6	149855873	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	53802197	149855873	21259194	26	21505											
SOD2	6648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	160113748	160113748	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgttcaggttgttcacgtaGgccgcgtggtgcttgctgtg	4	13	15	9	4	2	0	2	0	0	0	2	0	2	0	1	3	2	6	1	3	1	5	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	160113748	G	T	160113748	2	4	424	1	0	0	0	0	0	0	0	1	14923	987	35	4		4	SOD2	6	160113748	Silent	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	10257875	160113748	11001319	27	21506											
STK31	56164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23826468	23826468	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcttagtctgatcctatGgcttatctgatggtcccata	7	16	8	10	0	3	2	0	2	3	0	5	2	5	2	2	2	0	2	2	2	4	5	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	23826468	G	A	23826468	3	1	424	1	0	0	0	0	1	0	0	0	15297	1348	47	2	2490	2	STK31	7	23826468	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		23826468	135312195	28	21507											
ZMIZ2	83637	broad.mit.edu;hgsc.bcm.edu	37	chr7	44796728	44796728	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccgcgggggctaccctggGgcccccggcttcaccaccgg	4	4	15	18	4	1	0	1	0	0	0	1	0	1	0	6	6	2	2	6	6	1	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	44796728	G	A	44796728	2	1	424	1	0	0	0	0	0	0	0	1	17696	1219	43	2		2	ZMIZ2	7	44796728	Silent	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	20970260	44796728	114341935	29	21508											
MTERFD1	51001	broad.mit.edu	37	chr8	97258647	97258647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccatctgtgcaacatctGctttactgaaattttttgaa	11	16	6	8	0	2	3	0	3	2	0	2	3	2	3	1	0	4	2	1	0	4	5	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	97258647	A	A	97258647	3	1	424	1	0	0	0	0	1	0	0	0	9919	1319	46	2	556	2	MTERFD1	8	97258647	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		97258647	49105375	30	21509											
ZC3H3	23144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144550433	144550433	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccatccgttttcttgcaGgtgccccggacaaacctgca	7	10	9	15	2	1	0	0	0	1	0	3	1	3	1	5	2	4	3	5	2	1	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	144550433	G	C	144550433	2	2	424	1	0	0	0	0	0	0	0	1	17568	987	35	4		4	ZC3H3	8	144550433	Silent	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	47291786	144550433	1813589	31	21510											
NRBP2	340371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144920929	144920929	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtgtccccattggtctGgatttccagtacagccatct	6	12	10	13	1	2	0	0	0	2	0	4	1	4	1	5	3	2	1	5	3	1	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	144920929	G	A	144920929	4	1	424	1	0	0	0	0	0	1	0	0	10643	1357	47	2	778	2	NRBP2	8	144920929	Nonsense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	370496	144920929	1443093	32	21511											
IFNA16	3449	broad.mit.edu	37	chr9	21217253	21217253	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcccagagaacagatggAtttgtagctgagcaccagca	14	6	11	10	0	0	3	0	1	0	2	0	5	0	4	2	1	5	4	2	1	2	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	21217253	C	C	21217253	3	2	424	1	0	0	0	0	1	0	0	0	7535	333	12	5	521	5	IFNA16	9	21217253	Missense_Mutation	SNP	A	TCGA-CJ-6028-01A-11D-1669-08		21217253	119996178	33	21512											
FRMPD1	22844	broad.mit.edu;ucsc.edu	37	chr9	37733482	37733482	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggcaggaaagactggggAatagagaactttatatctcc	14	9	11	7	0	1	2	0	0	1	2	2	5	1	4	1	4	1	1	1	4	6	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	37733482	G	G	37733482	2	3	424	1	0	0	0	0	0	0	0	1	6057	233	9	3		3	FRMPD1	9	37733482	Silent	SNP	A	TCGA-CJ-6028-01A-11D-1669-08	16516229	37733482	103479949	34	21513											
GDA	9615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	74863196	74863196	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tttttctttcaggagatgatCgaaatattgaagaggtttat	12	17	9	3	1	2	4	1	2	1	2	3	6	2	4	0	2	0	1	0	2	4	7	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	74863196	C	G	74863196	3	3	424	1	0	0	0	0	1	0	0	0	6306	876	31	4	1357	4	GDA	9	74863196	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	37129714	74863196	66350235	35	21514											
DIP2C	22982	broad.mit.edu;hgsc.bcm.edu	37	chr10	332271	332271	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggttggcaattataatcCgaacccctggaagtatctat	11	12	9	9	1	1	0	0	0	1	0	2	2	2	1	3	3	1	3	3	3	7	5	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	332271	C	T	332271	3	4	424	1	0	0	0	0	1	0	0	0	4529	652	23	1	625	1	DIP2C	10	332271	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		332271	135202476	36	21515											
CRTAC1	55118	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99640010	99640010	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggccccactcacccacGcaggctgtgccatcctcgtt	5	8	10	18	2	1	0	1	0	0	0	3	0	2	0	5	3	1	3	5	3	0	1	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	99640010	G	A	99640010	2	1	424	1	0	0	0	0	0	0	0	1	3896	1079	38	1		1	CRTAC1	10	99640010	Silent	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	99307739	99640010	35894737	37	21516											
KIF18A	81930	hgsc.bcm.edu;ucsc.edu	37	chr11	28058129	28058129	+	Frame_Shift_Del	DEL	T	T	-																															gactttagagtatgctgtccTttcaagggagatggcattag																								novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		-	28058129	T	-	28058129	7	5	424	1	0	1	0	1	0	0	0	0	8280	1606	56	0	681	0	KIF18A	11	28058129	Frame_Shift_Del	DEL	T	TCGA-CJ-6028-01A-11D-1669-08		28058129	106948387	38	21517											
QSER1	79832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32953488	32953488	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaagtcatcatgaccctttGctacaaatcaagacttccca	13	12	4	12	0	3	2	3	1	0	1	4	2	4	2	2	0	2	1	2	0	4	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		C	32953488	G	C	32953488	3	2	424	1	0	0	0	0	1	0	0	0	12884	1310	46	4	303	4	QSER1	11	32953488	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	4895359	32953488	102053028	39	21518											
OR5L1	219437	broad.mit.edu;hgsc.bcm.edu	37	chr11	55579228	55579228	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaagccatctccttcctaGggtgcatggtgcaattctac	10	11	8	12	0	2	0	0	0	2	0	4	0	3	0	3	2	4	2	3	2	4	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	55579228	G	A	55579228	3	1	424	1	0	0	0	0	1	0	0	0	11170	1000	35	2	288	2	OR5L1	11	55579228	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	22625740	55579228	79427288	40	21519											
OR5W2	390148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55681565	55681565	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagacccacagaagcataggCggaaggccagtgtcatatgt	13	7	12	9	1	1	2	1	0	0	2	1	3	1	3	2	3	1	1	2	3	5	3	rs148084259		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	55681565	C	T	55681565	3	4	424	1	0	0	0	0	1	0	0	0	11185	768	27	1	440	1	OR5W2	11	55681565	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	102337	55681565	79324951	41	21520											
OR10G7	390265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123908892	123908892	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcagcgtggtgtagaaaaCggccacaaccccatgcaagg	13	5	12	11	2	1	1	1	0	0	1	1	1	1	1	3	3	4	2	3	3	5	1	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	123908892	C	T	123908892	3	4	424	1	0	0	0	0	1	0	0	0	10902	536	19	1	122	1	OR10G7	11	123908892	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	68227327	123908892	11097624	42	21521											
ADAMTS20	80070	broad.mit.edu	37	chr12	43822466	43822466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatcccctgcttgccactctCcacaaggggtaaaacagtcc	11	8	7	15	0	1	0	0	0	1	0	4	0	3	0	5	2	3	2	5	2	4	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	43822466	A	A	43822466	3	1	424	1	0	0	0	0	1	0	0	0	266	855	30	4	2165	4	ADAMTS20	12	43822466	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		43822466	90029429	43	21522											
ATP11A	23250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	113485756	113485756	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggagttcaaggagtgctGcatcgaaggccatgtctacg	10	9	13	9	2	2	0	1	0	1	0	3	3	2	2	1	3	3	3	1	3	3	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	113485756	G	A	113485756	3	1	424	1	0	0	0	0	1	0	0	0	1119	1319	46	2	1339	2	ATP11A	13	113485756	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		113485756	1684122	44	21523											
MMP14	4323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23310798	23310798	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccatcgctgccatgcaGaagttttacggcttgcaagt	8	10	12	11	3	0	1	0	0	0	1	1	1	0	1	2	2	4	5	2	2	3	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	23310798	G	T	23310798	3	4	424	1	0	0	0	0	1	0	0	0	9653	933	33	4	213	4	MMP14	14	23310798	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		23310798	84038742	45	21524											
CAPN3	825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42652148	42652148	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattcagccatcatcagcCgcaattttcctattatcgga	10	14	5	12	2	4	0	3	0	1	0	6	1	5	1	3	1	2	1	3	1	4	6	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	42652148	C	T	42652148	3	4	424	1	0	0	0	0	1	0	0	0	2628	652	23	1	199	1	CAPN3	15	42652148	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		42652148	59879244	46	21525											
TEKT5	146279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10788652	10788652	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggatcactggcgcctgtaCagctggcagtgaggtcaagc	8	8	14	11	1	2	1	2	1	0	0	2	2	2	2	1	4	3	3	1	4	2	1	rs61731533	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	10788652	C	A	10788652	3	1	424	1	0	0	0	0	1	0	0	0	15755	478	17	4	1406	4	TEKT5	16	10788652	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		10788652	79566101	47	21526											
PDXDC1	23042	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	15129348	15129348	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catatatgtctacaaagcacAaggtgcaggagtcacgctgc	13	8	10	10	1	2	0	1	0	1	0	2	1	2	1	0	2	4	3	0	2	5	3	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	15129348	A	G	15129348	3	3	424	1	0	0	0	0	1	0	0	0	11696	130	5	3	2131	3	PDXDC1	16	15129348	Missense_Mutation	SNP	A	TCGA-CJ-6028-01A-11D-1669-08	4340696	15129348	75225405	48	21527											
ACD	65057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	67692130	67692130	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggggtcagggtggcagggGctgagcagatggctggtgag	6	7	23	5	0	1	3	1	2	0	1	1	3	1	3	0	8	1	4	0	8	0	0	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	67692130	G	A	67692130	3	1	424	1	0	0	0	0	1	0	0	0	135	1203	42	2	423	2	ACD	16	67692130	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08	52562782	67692130	22662623	49	21528											
NFE2L1	4779	broad.mit.edu;ucsc.edu	37	chr17	46128663	46128663	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacaacctgaggaatacCttggatggctatggtatcca	11	11	9	10	0	0	1	0	1	0	0	2	3	2	3	4	4	2	2	4	4	5	5	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	46128663	A	A	46128663	2	1	424	1	0	0	0	0	0	0	0	1	10367	668	24	4		4	NFE2L1	17	46128663	Silent	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		46128663	35066547	50	21529											
MAP3K10	4294	broad.mit.edu	37	chr19	40720964	40720964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctgagttcccaggccGccccaccaccctgacctttg	5	7	8	21	1	0	2	0	2	0	0	1	2	1	2	9	1	0	1	9	1	0	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	40720964	T	T	40720964	3	4	424	1	0	0	0	0	1	0	0	0	9244	1087	38	4	2668	4	MAP3K10	19	40720964	Missense_Mutation	SNP	G	TCGA-CJ-6028-01A-11D-1669-08		40720964	18408019	51	21530											
PLAUR	5329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44160640	44160640	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggctcaccttcttcacCttcctggatccagtgggtca	5	13	10	13	0	4	0	3	0	1	0	6	1	6	1	4	4	0	1	4	4	0	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	44160640	C	T	44160640	3	4	424	1	0	0	0	0	1	0	0	0	12023	681	24	2	656	2	PLAUR	19	44160640	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	3439676	44160640	14968343	52	21531											
EPN1	29924	broad.mit.edu	37	chr19	56204133	56204133	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccctggggagggtcacCtgccaagcccagcaccaatg	10	5	12	14	0	1	1	1	0	0	1	2	2	2	2	5	3	3	1	5	3	2	0	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		G	56204133	G	G	56204133	3	3	424	1	0	0	0	0	1	0	0	0	5185	681	24	4	1515	4	EPN1	19	56204133	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	12043493	56204133	2924850	53	21532											
PTPRT	11122	hgsc.bcm.edu;ucsc.edu	37	chr20	40727124	40727137	+	Frame_Shift_Del	DEL	CCAGAAGTCTGCCA	CCAGAAGTCTGCCA	-																															ttgtaatcgaacaccagcctCcagaagtctgccacggtgtt																								novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	CCAGAAGTCTGCCA	CCAGAAGTCTGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		-	40727137	CCAGAAGTCTGCCA	-	40727124	7	5	424	1	0	1	0	1	0	0	0	0	12814	856	30	0	562	0	PTPRT	20	40727124	Frame_Shift_Del	DEL	CCAGAAGTCTGCCA	TCGA-CJ-6028-01A-11D-1669-08		40727124	22298396	54	21533											
HMOX1	3162	broad.mit.edu	37	chr22	35785885	35785885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagttgcaggagctgctgaCccatgacaccaaggaccaga	12	5	13	11	0	0	3	0	2	0	1	0	6	0	6	3	3	3	4	3	3	1	1	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	35785885	A	A	35785885	3	1	424	1	0	0	0	0	1	0	0	0	7243	507	18	4	679	4	HMOX1	22	35785885	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		35785885	15518681	55	21534											
DCAF8L1	139425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	27997690	27997690	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatcttggccctcctcctCggatgtatctgaggtgctgg	4	13	12	12	2	2	1	0	1	2	0	6	3	4	2	3	4	1	2	3	4	1	2	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		T	27997690	C	T	27997690	3	4	424	1	0	0	0	0	1	0	0	0	4277	893	31	1	44	1	DCAF8L1	23	27997690	Missense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08		27997690	127272870	56	21535											
BRS3	680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135570317	135570317	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctaatcagactttaatttCaatcacaaatgacacagaat	18	11	3	9	0	3	3	3	1	0	2	3	3	3	3	1	0	0	0	1	0	5	4	novel		TCGA-CJ-6028-01A-11D-1669-08	TCGA-CJ-6028-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d165717a-cc3d-4533-8194-0029c186f1bb	ade34839-33d1-4347-ad43-a32da7584331		A	135570317	C	A	135570317	4	1	424	1	0	0	0	0	0	1	0	0	1522	838	29	4	46	4	BRS3	23	135570317	Nonsense_Mutation	SNP	C	TCGA-CJ-6028-01A-11D-1669-08	107572627	135570317	19700243	57	21536											
C1orf159	54991	broad.mit.edu	37	chr1	1019876	1019876	+	Frame_Shift_Del	DEL	C	-	-																															cttacggcttcgccaggctgCagggccggagctgtggggga																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	1019876	-	-	1019876	7	5	425	1	0	1	0	1	0	0	0	0	2008	697	25	0	152	0	C1orf159	1	1019876	Frame_Shift_Del	DEL	C	TCGA-CJ-6030-01A-11D-1669-08		1019876	248230745	1	21537											
CHD5	26038	broad.mit.edu;hgsc.bcm.edu	37	chr1	6212526	6212526	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgaagcggaacttgagcccGgccgtctttttccctttgcc	5	11	10	15	4	1	1	0	1	1	0	2	3	2	2	5	2	4	0	5	2	2	4	rs140463225	byfrequency	TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	6212526	G	A	6212526	2	1	425	1	0	0	0	0	0	0	0	1	3328	1103	39	1		1	CHD5	1	6212526	Silent	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	5192650	6212526	243038095	2	21538											
ZYG11B	79699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53237222	53237222	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcaaacatctgaatcatcttGatatctcagatgataaacag	16	12	5	8	0	5	4	3	3	3	1	6	4	5	4	0	0	2	0	0	0	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	53237222	G	C	53237222	3	2	425	1	0	0	0	0	1	0	0	0	18252	1290	45	4	737	4	ZYG11B	1	53237222	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	47024696	53237222	196013399	3	21539											
ABCA4	24	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94476403	94476403	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagcagggtcaggaggaaGtacaccaccccttccaccac	12	4	9	16	0	1	0	1	0	0	0	2	2	2	2	6	3	2	2	6	3	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	94476403	G	T	94476403	4	4	425	1	0	0	0	0	0	1	0	0	34	1024	36	4	1198	4	ABCA4	1	94476403	Nonsense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	41239181	94476403	154774218	4	21540											
ABCA4	24	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94564377	94564377	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagagcttgaagaagtccacGttggcatacagagtgtcttc	12	10	11	8	1	1	4	0	1	1	3	3	4	2	4	1	1	2	3	1	1	4	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	94564377	G	T	94564377	3	4	425	1	0	0	0	0	1	0	0	0	34	1136	40	4	6260	4	ABCA4	1	94564377	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	87974	94564377	154686244	5	21541											
COL11A1	1301	broad.mit.edu;hgsc.bcm.edu	37	chr1	103405991	103405991	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggggacctttttctccCtgtattgaatatccaaagat	9	15	7	10	0	1	2	0	1	1	1	3	3	2	3	4	2	0	1	4	2	4	6	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	103405991	C	A	103405991	5	1	425	1	0	0	0	0	0	0	1	0	3667	695	24	4	2244	4	COL11A1	1	103405991	Splice_Site	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	8841614	103405991	145844630	6	21542											
CD53	963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111437650	111437650	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactcagacaatagcaccaaGgcagcgtgggactccatcca	13	5	9	14	1	1	1	1	0	0	1	3	2	3	2	3	2	2	2	3	2	3	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	111437650	G	C	111437650	3	2	425	1	0	0	0	0	1	0	0	0	3023	991	35	4	410	4	CD53	1	111437650	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	8031659	111437650	137812971	7	21543											
C1orf103	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	111494385	111494385	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcaatttgtgatggcagaAcatctgtcccctttttagcc	8	14	9	10	0	2	2	1	1	1	1	3	2	3	2	3	2	2	1	3	2	3	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	111494385	A	G	111494385	3	3	425	1	0	0	0	0	1	0	0	0	1977	43	2	3	1200	3	C1orf103	1	111494385	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	56735	111494385	137756236	8	21544											
MAGI3	260425	hgsc.bcm.edu;ucsc.edu	37	chr1	114193718	114193718	+	Frame_Shift_Del	DEL	A	A	-																															tgatgaactaatgtgcattgAtggaattcctgttaaaggga																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	114193718	A	-	114193718	7	5	425	1	0	1	0	1	0	0	0	0	9192	333	12	0	2384	0	MAGI3	1	114193718	Frame_Shift_Del	DEL	A	TCGA-CJ-6030-01A-11D-1669-08	2699333	114193718	135056903	9	21545											
JTB	10899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153949705	153949705	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggccctgggggaggccAggcctcccggcacccgcaag	5	3	17	16	3	0	0	0	0	0	0	1	1	1	1	5	7	0	2	5	7	1	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	153949705	A	T	153949705	2	4	425	1	0	0	0	0	0	0	0	1	7967	175	7	5		5	JTB	1	153949705	Silent	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	39755987	153949705	95300916	10	21546											
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158582749	158582749	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccagtgagacatagcccTtcctgtgggagaaatggatc	10	9	11	11	0	0	2	0	1	0	2	3	5	2	3	4	2	1	0	4	2	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	158582749	T	C	158582749	3	2	425	1	0	0	0	0	1	0	0	0	15117	1609	56	3	275	3	SPTA1	1	158582749	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	4633044	158582749	90667872	11	21547											
BRP44	0	broad.mit.edu;ucsc.edu	37	chr1	167893736	167893736	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaaactcaagacttaccCatttcataattggagcccag	15	10	6	10	0	2	1	2	0	0	1	2	2	2	2	2	1	3	1	2	1	6	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	167893736	T	T	167893736	4	4	425	1	0	0	0	0	0	1	0	0	1518	608	21	2	250	2	BRP44	1	167893736	Nonsense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	9310987	167893736	81356885	12	21548											
TIPRL	261726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	168153162	168153162	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagccgatgaattacatatgCcatctctccctgaaatgatg	12	12	7	10	1	1	3	0	3	1	0	3	4	2	3	3	0	3	0	3	0	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	168153162	C	T	168153162	3	4	425	1	0	0	0	0	1	0	0	0	15925	739	26	2	133	2	TIPRL	1	168153162	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	259426	168153162	81097459	13	21549											
SEC16B	89866	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	177906454	177906454	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatgggtctcaggaactgAgtaaaaaggcctcggtgtcc	11	9	13	8	1	1	2	1	1	1	1	4	3	2	3	2	4	1	1	2	4	5	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	177906454	A	G	177906454	3	3	425	1	0	0	0	0	1	0	0	0	13989	304	11	3	816	3	SEC16B	1	177906454	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	9753292	177906454	71344167	14	21550											
HMCN1	83872	hgsc.bcm.edu;ucsc.edu	37	chr1	186023105	186023105	+	Frame_Shift_Del	DEL	T	T	-																															actgcaaagaaagaatacaaTctgcaagtttacagtaagtt																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	186023105	T	-	186023105	7	5	425	1	0	1	0	1	0	0	0	0	7220	1432	50	0	7023	0	HMCN1	1	186023105	Frame_Shift_Del	DEL	T	TCGA-CJ-6030-01A-11D-1669-08	8116651	186023105	63227516	15	21551											
TRAF5	7188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	211542827	211542827	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaagagcctagaacagaaaGaaagtaaaatccagcagcta	21	4	8	8	0	0	4	0	0	0	4	1	4	1	4	2	0	4	3	2	0	8	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	211542827	G	A	211542827	3	1	425	1	0	0	0	0	1	0	0	0	16443	943	33	2	853	2	TRAF5	1	211542827	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	25519722	211542827	37707794	16	21552											
RAB3GAP2	25782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220445640	220445640	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcccgggcggcctggaGgtcctggaagtagcagaact	9	6	16	10	2	0	1	0	0	0	1	2	4	2	3	3	5	2	2	3	5	4	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	220445640	G	T	220445640	3	4	425	1	0	0	0	0	1	0	0	0	12938	1000	35	4	4281	4	RAB3GAP2	1	220445640	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	8902813	220445640	28804981	17	21553											
KIAA1383	54627	hgsc.bcm.edu;ucsc.edu	37	chr1	232943660	232943660	+	Frame_Shift_Del	DEL	T	T	-																															tagtatgcacaattctgaaaTtacaaagagagctcaagaca																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	232943660	T	-	232943660	7	5	425	1	0	1	0	1	0	0	0	0	8228	1493	52	0	2893	0	KIAA1383	1	232943660	Frame_Shift_Del	DEL	T	TCGA-CJ-6030-01A-11D-1669-08	12498020	232943660	16306961	18	21554											
CHML	1122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	241797696	241797696	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagactgatctgtaatgagtActgccctagagatctgctta	11	13	9	8	0	2	4	0	2	2	2	2	5	2	4	1	0	3	3	1	0	5	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	241797696	A	T	241797696	3	4	425	1	0	0	0	0	1	0	0	0	3351	391	14	5	601	5	CHML	1	241797696	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	8854036	241797696	7452925	19	21555											
OR1C1	26188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247921449	247921449	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagatagtcttggtgccaGtcaagatattcactaccatt	13	12	8	8	0	3	2	2	0	1	2	3	3	3	2	2	1	2	0	2	1	5	6	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	247921449	G	C	247921449	3	2	425	1	0	0	0	0	1	0	0	0	10952	1029	36	4	686	4	OR1C1	1	247921449	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	6123753	247921449	1329172	20	21556											
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128867214	128867214	+	Missense_Mutation	SNP	G	G	A																															gtcttatgtgacagatagcaGctgatgaacctccaccagaa																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	128867214	G	A	128867214	3	1	425	1	0	0	0	0	1	0	0	0	16940	971	34	2	433	2	UGGT1	2	128867214	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08		128867214	114332159	21	21557	291	2									
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128867224	128867224	+	Missense_Mutation	SNP	C	C	A																															acagatagcagctgatgaacCtccaccagaaggatgtaatt																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	128867224	C	A	128867224	3	1	425	1	0	0	0	0	1	0	0	0	16940	681	24	4	443	4	UGGT1	2	128867224	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	10	128867224	114332149	22	21558	291	2									
GALNT13	114805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	155099221	155099221	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgttacagattttctcaaGttgacattagagaattacgt	13	15	7	6	1	1	3	1	1	1	2	2	4	1	3	0	0	2	2	0	0	5	6	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	155099221	G	T	155099221	3	4	425	1	0	0	0	0	1	0	0	0	6211	1020	36	4	503	4	GALNT13	2	155099221	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	26231997	155099221	88100152	23	21559											
COBLL1	22837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	165557144	165557144	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcagtgtatttattatatCagtagatacaaaaggaatat	16	16	6	3	0	2	1	2	0	0	1	2	2	2	2	0	1	1	2	0	1	10	9	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	165557144	C	T	165557144	3	4	425	1	0	0	0	0	1	0	0	0	3654	826	29	2	2055	2	COBLL1	2	165557144	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	10457923	165557144	77642229	24	21560											
HSPD1	3329	hgsc.bcm.edu	37	chr2	198363397	198363397	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaaataaaaatactggtAcctttggccccattgtaacg	16	11	6	8	1	0	0	0	0	0	0	0	0	0	0	3	2	3	2	3	2	9	7	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	198363397	A	C	198363397	5	2	425	1	0	0	0	0	0	0	1	0	7428	405	14	5	1589	5	HSPD1	2	198363397	Splice_Site	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	32806253	198363397	44835976	25	21561											
STK11IP	114790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220465991	220465991	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctggctgtagcaccctgagCctgctgactcccacactgca	7	9	9	16	0	1	2	0	2	1	0	2	2	2	2	3	1	4	5	3	1	1	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	220465991	C	T	220465991	2	4	425	1	0	0	0	0	0	0	0	1	15289	738	26	2		2	STK11IP	2	220465991	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	22102594	220465991	22733382	26	21562											
TRIP12	9320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	230642131	230642131	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgtcaaacaaatcgtgtGatgtcagtgaagtttcttgc	11	13	10	7	2	3	2	2	2	1	0	4	3	3	2	0	0	2	1	0	0	3	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	230642131	G	T	230642131	4	4	425	1	0	0	0	0	0	1	0	0	16555	1294	45	4	798	4	TRIP12	2	230642131	Nonsense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	10176140	230642131	12557242	27	21563											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188215	10188215	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtcacctttggctcttcAgagatgcagggacacacgat	10	10	11	10	1	3	1	2	0	1	1	3	4	3	2	1	3	1	2	1	3	1	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	10188215	G	G	10188215	3	3	425	1	0	0	0	0	1	0	0	0	17161	180	7	3	364	3	VHL	3	10188215	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08		10188215	187834215	28	21564											
XCR1	2829	broad.mit.edu;hgsc.bcm.edu	37	chr3	46063001	46063001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagccatggtcaccagcaCccggcagcggagggtgggga	9	3	16	13	2	1	0	1	0	0	0	1	2	1	2	3	6	3	2	3	6	0	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	46063001	C	T	46063001	3	4	425	1	0	0	0	0	1	0	0	0	17424	507	18	2	566	2	XCR1	3	46063001	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	35874786	46063001	151959429	29	21565											
C3orf45	132228	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50324295	50324295	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggctgtctacctgagcggTatggacgcatagggtgctag	7	10	15	9	2	1	1	0	1	1	0	1	2	1	2	1	4	3	4	1	4	4	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	50324295	T	A	50324295	5	1	425	1	0	0	0	0	0	0	1	0	2231	1652	57	5	373	5	C3orf45	3	50324295	Splice_Site	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	4261294	50324295	147698135	30	21566											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52696252	52696253	+	Frame_Shift_Ins	INS	-	-	C																															tcttgttcgaaggtacaaatINScccagagtttgcaagcggct																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	-	-	-	C	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	52696253	-	C	52696252	7	5	425	1	0	1	1	0	0	0	0	0	11491	1435	50	0	4583	0	PBRM1	3	52696252	Frame_Shift_Ins	INS	-	TCGA-CJ-6030-01A-11D-1669-08	2371957	52696252	145326178	31	21567											
C3orf37	56941	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128998744	128998744	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagtgcttctgtctcgaCtgcactttgagaaggtaacc	8	11	10	12	1	2	1	0	1	2	1	3	3	2	1	2	1	3	3	2	1	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	128998744	C	T	128998744	2	4	425	1	0	0	0	0	0	0	0	1	2227	564	20	2		2	C3orf37	3	128998744	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	76302492	128998744	69023686	32	21568											
COL6A6	131873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130285927	130285927	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaaggatagcatcttggAgcctgcaaacagactgagag	13	7	12	9	0	1	2	0	1	1	2	2	5	2	4	2	2	4	2	2	2	3	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	130285927	A	G	130285927	3	3	425	1	0	0	0	0	1	0	0	0	3703	304	11	3	1678	3	COL6A6	3	130285927	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	1287183	130285927	67736503	33	21569											
DNAJC13	23317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132193851	132193851	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactgaaagatactcttgaAtctgaaatgagagcatttaa	17	11	8	5	0	2	5	0	4	2	2	2	7	2	5	0	0	3	1	0	0	6	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	132193851	A	G	132193851	2	3	425	1	0	0	0	0	0	0	0	1	4632	98	4	3		3	DNAJC13	3	132193851	Silent	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	1907924	132193851	65828579	34	21570											
TM4SF19	116211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196051159	196051159	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctactatgcaggtctttGaatgggtaaccatatttcca	11	14	7	9	0	1	1	0	1	1	0	2	1	2	1	3	2	4	2	3	2	6	7	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	196051159	G	A	196051159	2	1	425	1	0	0	0	0	0	0	0	1	15967	1281	45	2		2	TM4SF19	3	196051159	Silent	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	63857308	196051159	1971271	35	21571											
PDCL2	132954	broad.mit.edu;hgsc.bcm.edu	37	chr4	56435977	56435977	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaatttctcttaattcTccaaatttttgttttttctt	9	22	2	8	0	3	1	0	0	3	1	5	1	3	1	2	0	0	1	2	0	3	9	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	56435977	T	C	56435977	2	2	425	1	0	0	0	0	0	0	0	1	11627	1538	54	3		3	PDCL2	4	56435977	Silent	SNP	T	TCGA-CJ-6030-01A-11D-1669-08		56435977	134718299	36	21572											
TECRL	253017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	65274994	65274994	+	Missense_Mutation	SNP	G	G	C																															atttctcatatcatccttcaGtatgaaccgtgtagctcttt																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	65274994	G	C	65274994	3	2	425	1	0	0	0	0	1	0	0	0	15745	1020	36	4	1063	4	TECRL	4	65274994	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	8839017	65274994	125879282	37	21573	292	2									
TECRL	253017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	65274995	65274995	+	Silent	SNP	T	T	A																															tttctcatatcatccttcagTatgaaccgtgtagctctttg																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	65274995	T	A	65274995	2	1	425	1	0	0	0	0	0	0	0	1	15745	1628	57	5		5	TECRL	4	65274995	Silent	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	1	65274995	125879281	38	21574	292	2									
SULT1E1	6783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	70707775	70707775	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcataatgtttatcaaaTttttcattcagggctactgt	10	18	6	7	0	4	0	4	0	0	0	4	0	4	0	0	1	2	3	0	1	4	7	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	70707775	T	C	70707775	2	2	425	1	0	0	0	0	0	0	0	1	15379	1490	52	3		3	SULT1E1	4	70707775	Silent	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	5432780	70707775	120446501	39	21575											
SHROOM3	57619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77661527	77661527	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggaccggtgcctcggcttCtttcaacagcacagacccaa	10	7	10	14	2	2	1	1	0	1	1	3	3	2	2	3	3	3	2	3	3	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	77661527	C	G	77661527	3	3	425	1	0	0	0	0	1	0	0	0	14297	913	32	4	2219	4	SHROOM3	4	77661527	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	6953752	77661527	113492749	40	21576											
C4orf37	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	98761954	98761954	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcactttttctaggcaccGaggagttgcactaagaaaag	13	10	10	8	1	2	1	1	0	1	1	2	3	2	2	1	2	1	3	1	2	4	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	98761954	G	A	98761954	3	1	425	1	0	0	0	0	1	0	0	0	2267	1057	37	1	217	1	C4orf37	4	98761954	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	21100427	98761954	92392322	41	21577											
SKP2	6502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	36177323	36177323	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaatgactgctttcaggaAtttttccagctcaactacct	12	13	6	10	0	2	2	2	1	0	1	3	3	3	3	2	1	4	2	2	1	5	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	36177323	A	T	36177323	3	4	425	1	0	0	0	0	1	0	0	0	14364	98	4	5	1024	5	SKP2	5	36177323	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08		36177323	144737937	42	21578											
ISL1	3670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	50685530	50685530	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggccccacgtccacaagCagccggagaagaccacccgc	10	2	11	18	4	0	2	0	0	0	2	1	3	1	2	6	2	3	1	6	2	2	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	50685530	C	T	50685530	4	4	425	1	0	0	0	0	0	1	0	0	7856	711	25	2	543	2	ISL1	5	50685530	Nonsense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	14508207	50685530	130229730	43	21579											
BDP1	55814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70785431	70785431	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggaagaagcaagatggaGctaatgaactgggagtaaac	17	5	15	4	0	0	3	0	1	0	2	0	7	0	7	0	4	4	3	0	4	7	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	70785431	G	A	70785431	3	1	425	1	0	0	0	0	1	0	0	0	1395	971	34	2	1452	2	BDP1	5	70785431	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	20099901	70785431	110129829	44	21580											
POLK	51426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	74865216	74865216	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgaaatttgagcaataccAtagtgcacattgacatggat	14	10	9	8	1	0	2	0	2	0	0	0	4	0	3	2	1	3	2	2	1	4	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	74865216	A	G	74865216	3	3	425	1	0	0	0	0	1	0	0	0	12204	217	8	3	317	3	POLK	5	74865216	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	4079785	74865216	106050044	45	21581											
GPR98	84059	hgsc.bcm.edu;ucsc.edu	37	chr5	89969937	89969938	+	Frame_Shift_Ins	INS	-	-	T																															gtatttccgtgtgacattggINStttctgcaattcctggagat																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	89969938	-	T	89969937	7	5	425	1	0	1	1	0	0	0	0	0	6721	1261	44	0	5086	0	GPR98	5	89969937	Frame_Shift_Ins	INS	-	TCGA-CJ-6030-01A-11D-1669-08	15104721	89969937	90945323	46	21582											
PPIP5K2	23262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	102513641	102513641	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggttgtgaagaagacaaaaAtttgccatctggctatggat	14	11	11	5	0	1	3	0	1	1	2	1	4	1	4	1	3	1	2	1	3	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	102513641	A	C	102513641	3	2	425	1	0	0	0	0	1	0	0	0	12335	101	4	5	2800	5	PPIP5K2	5	102513641	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	12543704	102513641	78401619	47	21583											
LMNB1	4001	broad.mit.edu;ucsc.edu	37	chr5	126158526	126158526	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaattggagacacatcagtCagttataaatatacctcaag	18	10	6	7	0	3	1	3	0	0	1	3	2	3	1	1	1	1	1	1	1	8	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	126158526	T	T	126158526	2	4	425	1	0	0	0	0	0	0	0	1	8849	813	29	2		2	LMNB1	5	126158526	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	23644885	126158526	54756734	48	21584											
NSD1	64324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176720945	176720945	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcgagaagggatgcttttCatttccaaactggatgggcg	10	11	12	8	2	1	1	1	0	0	1	3	4	2	3	1	3	2	1	1	3	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	176720945	C	T	176720945	2	4	425	1	0	0	0	0	0	0	0	1	10669	825	29	2		2	NSD1	5	176720945	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	50562419	176720945	4194315	49	21585											
RREB1	6239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7248780	7248780	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtcagacctgcgagcgaaCcttcaccttgaagcacagcc	11	7	9	14	2	2	2	2	1	0	1	2	4	2	2	4	0	5	1	4	0	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	7248780	C	G	7248780	3	3	425	1	0	0	0	0	1	0	0	0	13681	507	18	4	4846	4	RREB1	6	7248780	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		7248780	163866287	50	21586											
BTN1A1	696	hgsc.bcm.edu;ucsc.edu	37	chr6	26501821	26501822	+	Frame_Shift_Ins	INS	-	-	T																															gctcgtttttcggcagctccINSctttgacgtgattggacccc																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	26501822	-	T	26501821	7	5	425	1	0	1	1	0	0	0	0	0	1559	623	22	0	89	0	BTN1A1	6	26501821	Frame_Shift_Ins	INS	-	TCGA-CJ-6030-01A-11D-1669-08	19253041	26501821	144613246	51	21587											
TUBB	203068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30688293	30688293	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattttaaccatgagggaaAtcgtgcacatccaggctggt	13	10	10	8	1	0	1	0	1	0	0	2	2	1	2	2	3	2	2	2	3	3	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	30688293	A	C	30688293	3	2	425	1	0	0	0	0	1	0	0	0	16751	101	4	5	12	5	TUBB	6	30688293	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	4186472	30688293	140426774	52	21588											
C6orf47	57827	broad.mit.edu;hgsc.bcm.edu	37	chr6	31627604	31627604	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggcactatcccagtcacTtcctgaattctccgaggagc	8	10	10	13	1	2	1	1	1	1	0	5	3	4	2	3	3	1	1	3	3	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	31627604	T	A	31627604	3	1	425	1	0	0	0	0	1	0	0	0	2364	1609	56	5	767	5	C6orf47	6	31627604	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	939311	31627604	139487463	53	21589											
NOTCH4	4855	hgsc.bcm.edu	37	chr6	32187443	32187443	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcagggctgggagaggCactcattgtgatcagcctca	8	8	16	9	0	3	2	3	1	0	1	3	3	3	2	1	5	1	3	1	5	0	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	32187443	C	A	32187443	3	1	425	1	0	0	0	0	1	0	0	0	10551	710	25	4	4667	4	NOTCH4	6	32187443	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	559839	32187443	138927624	54	21590											
PSMB8	5696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	32808790	32808790	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactgacatctgtactttcTactttcacccaaccatcttc	9	15	2	15	0	5	1	2	1	3	0	6	1	5	1	2	0	3	1	2	0	3	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	32808790	T	A	32808790	2	1	425	1	0	0	0	0	0	0	0	1	12685	1509	53	5		5	PSMB8	6	32808790	Silent	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	621347	32808790	138306277	55	21591											
RXRB	6257	broad.mit.edu;hgsc.bcm.edu	37	chr6	33163416	33163416	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaagacctgtggcaaggAggatgccatctcgaacatca	12	7	12	10	2	2	2	1	1	1	1	3	5	2	4	2	3	2	1	2	3	3	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	33163416	A	G	33163416	3	3	425	1	0	0	0	0	1	0	0	0	13766	304	11	3	430	3	RXRB	6	33163416	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	354626	33163416	137951651	56	21592											
KIAA0240	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	42796273	42796273	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaaggtgtaagcaaccagCttggagaagggcccagtgat	13	7	13	8	0	1	2	1	1	0	1	1	3	1	2	2	3	3	3	2	3	4	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	42796273	C	T	42796273	3	4	425	1	0	0	0	0	1	0	0	0	8164	797	28	2	216	2	KIAA0240	6	42796273	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	9632857	42796273	128318794	57	21593											
TINAG	27283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	54214608	54214608	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctgatgggcgaggaaaaCggcatgccacgaagccatgt	11	6	15	9	3	1	1	0	1	1	0	1	4	1	2	2	4	3	1	2	4	3	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	54214608	C	T	54214608	3	4	425	1	0	0	0	0	1	0	0	0	15920	527	19	1	1020	1	TINAG	6	54214608	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	11418335	54214608	116900459	58	21594											
EYS	346007	broad.mit.edu;hgsc.bcm.edu	37	chr6	66112428	66112428	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattattcctcaaaggaaatGactcacatgatgtttgaatg	14	13	7	7	0	2	3	2	3	0	0	3	4	3	4	1	1	0	1	1	1	4	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	66112428	G	A	66112428	3	1	425	1	0	0	0	0	1	0	0	0	5332	1294	45	2	8417	2	EYS	6	66112428	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	11897820	66112428	105002639	59	21595											
HTR1E	3354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	87725418	87725418	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attgccctggacaggtactgGgccatcaccaatgctattga	10	10	10	11	0	1	1	1	1	0	0	1	2	1	2	3	3	3	2	3	3	3	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	87725418	G	T	87725418	3	4	425	1	0	0	0	0	1	0	0	0	7439	1241	43	4	368	4	HTR1E	6	87725418	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	21612990	87725418	83389649	60	21596											
VGLL2	245806	hgsc.bcm.edu;ucsc.edu	37	chr6	117589513	117589514	+	Frame_Shift_Ins	INS	-	-	G																															ggcagagtacatcaactcccINSgctgcgtcctcttcacttat																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	117589514	-	G	117589513	7	5	425	1	0	1	1	0	0	0	0	0	17158	652	23	0	256	0	VGLL2	6	117589513	Frame_Shift_Ins	INS	-	TCGA-CJ-6030-01A-11D-1669-08	29864095	117589513	53525554	61	21597											
IFNGR1	3459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	137528120	137528120	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatagttctttacctctacGgtaaaaacagggacctgtgg	11	11	9	10	1	2	0	0	0	2	0	2	1	2	1	3	3	3	2	3	3	6	6	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	137528120	G	A	137528120	2	1	425	1	0	0	0	0	0	0	0	1	7549	1103	39	1		1	IFNGR1	6	137528120	Silent	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	19938607	137528120	33586947	62	21598											
HIP1	3092	broad.mit.edu;hgsc.bcm.edu	37	chr7	75168737	75168737	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgcaattcattttctagCtctagcaccctaacctgtaa	10	15	4	12	0	4	0	1	0	3	0	4	0	4	0	2	0	4	4	2	0	5	8	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	75168737	C	A	75168737	3	1	425	1	0	0	0	0	1	0	0	0	7114	796	28	4	154	4	HIP1	7	75168737	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		75168737	83969926	63	21599											
FZD1	8321	broad.mit.edu;hgsc.bcm.edu	37	chr7	90895797	90895797	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaagctggagaagctcatGgtgcgcattggcgtcttcag	9	9	15	8	2	3	2	2	0	1	2	3	4	3	2	0	3	3	3	0	3	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	90895797	G	T	90895797	3	4	425	1	0	0	0	0	1	0	0	0	6128	1348	47	4	1604	4	FZD1	7	90895797	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	15727060	90895797	68242866	64	21600											
MNX1	3110	broad.mit.edu	37	chr7	156798268	156798268	+	Frame_Shift_Del	DEL	G	-	-																															ggcggcgagtcgtcctccgaGgagcagtcggaggaggcggc																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	156798268	-	-	156798268	7	5	425	1	0	1	0	1	0	0	0	0	9679	987	35	0	57	0	MNX1	7	156798268	Frame_Shift_Del	DEL	G	TCGA-CJ-6030-01A-11D-1669-08	65902471	156798268	2340395	65	21601											
PPP2R2A	5520	broad.mit.edu;ucsc.edu	37	chr8	26217736	26217736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagggacaaaagaccagaagGgtataacttgaaagaggagg	19	4	14	4	0	0	4	0	1	0	3	0	6	0	6	1	4	1	1	1	4	7	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	26217736	T	T	26217736	3	4	425	1	0	0	0	0	1	0	0	0	12386	1232	43	4	457	4	PPP2R2A	8	26217736	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08		26217736	120146286	66	21602											
ELAVL2	1993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	23705049	23705049	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatctctgatagaagctgaActtgggcgagcataggaaac	13	8	12	8	1	1	3	0	2	1	1	2	5	1	4	0	2	4	3	0	2	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	23705049	A	G	23705049	2	3	425	1	0	0	0	0	0	0	0	1	5050	40	2	3		3	ELAVL2	9	23705049	Silent	SNP	A	TCGA-CJ-6030-01A-11D-1669-08		23705049	117508382	67	21603											
ACO1	48	broad.mit.edu	37	chr9	32427337	32427337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggatgctggcctgaacGtgatgccttacatcaaaact	10	11	10	10	1	1	2	1	2	0	0	1	3	1	3	2	2	5	1	2	2	4	1	rs189305274	by1000genomes	TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	32427337	A	A	32427337	3	1	425	1	0	0	0	0	1	0	0	0	146	1145	40	1	1429	1	ACO1	9	32427337	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	8722288	32427337	108786094	68	21604											
RUSC2	9853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35547730	35547730	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacttgtcacctgtgacctAtcttcccaatcatccccaag	11	11	4	15	0	3	1	2	1	1	0	5	1	5	1	5	0	1	0	5	0	4	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	35547730	A	T	35547730	2	4	425	1	0	0	0	0	0	0	0	1	13753	436	16	5		5	RUSC2	9	35547730	Silent	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	3120393	35547730	105665701	69	21605											
C9orf84	158401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114454520	114454520	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctgattgtatgaagtcAcaggtggtaaaaaacttgag	13	12	12	4	0	2	3	1	3	1	0	2	3	2	3	0	3	1	2	0	3	5	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	114454520	A	T	114454520	3	4	425	1	0	0	0	0	1	0	0	0	2500	159	6	5	797	5	C9orf84	9	114454520	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	78906790	114454520	26758911	70	21606											
ASS1	445	broad.mit.edu;hgsc.bcm.edu	37	chr9	133333803	133333803	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaggtgttcattgaggatGtcagcagggagtttgtggag	8	12	17	4	1	2	1	2	1	0	0	2	4	2	4	0	4	1	4	0	4	1	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	133333803	G	T	133333803	3	4	425	1	0	0	0	0	1	0	0	0	1061	1377	48	4	200	4	ASS1	9	133333803	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	18879283	133333803	7879628	71	21607											
ADAMTS13	11093	hgsc.bcm.edu;ucsc.edu	37	chr9	136290647	136290647	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcatctgcccttgcacAgggggcagaactgcttcggg	6	10	12	13	1	3	1	1	0	2	1	5	1	3	1	1	3	4	3	1	3	1	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	136290647	A	G	136290647	5	3	425	1	0	0	0	0	0	0	1	0	258	202	7	3	343	3	ADAMTS13	9	136290647	Splice_Site	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	2956844	136290647	4922784	72	21608											
DNA2	1763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70227941	70227941	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tactactggctatgctggtgCcagaaatcagcatgtctgga	10	11	11	9	0	2	1	1	0	1	1	2	2	2	2	1	3	5	3	1	3	4	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	70227941	C	T	70227941	3	4	425	1	0	0	0	0	1	0	0	0	4596	739	26	2	2878	2	DNA2	10	70227941	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		70227941	65306806	73	21609											
ENTPD1	953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97607250	97607250	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgctttcatcctggataTaagaaggtagtgaacgtaag	13	11	10	7	1	1	2	1	1	0	1	2	3	2	3	2	2	2	3	2	2	6	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	97607250	T	C	97607250	2	2	425	1	0	0	0	0	0	0	0	1	5138	1413	49	3		3	ENTPD1	10	97607250	Silent	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	27379309	97607250	37927497	74	21610											
TACC2	10579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123846868	123846868	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagatggtcccggggactTtgctcacacaggggttccag	9	8	14	10	1	1	2	1	0	0	2	3	3	3	3	2	5	1	2	2	5	1	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	123846868	T	C	123846868	3	2	425	1	0	0	0	0	1	0	0	0	15501	1841	64	3	4863	3	TACC2	10	123846868	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	26239618	123846868	11687879	75	21611											
FAM196A	642938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	128974169	128974169	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcttgtgcacccgccccGcgccacatggccgggcctcc	3	7	12	19	4	1	0	0	0	1	0	2	0	2	0	7	3	1	1	7	3	0	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	128974169	G	A	128974169	3	1	425	1	0	0	0	0	1	0	0	0	5528	1087	38	1	960	1	FAM196A	10	128974169	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	5127301	128974169	6560578	76	21612											
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	129913433	129913433	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagagagattttctggcttAgtggcagagtcagctgcatc	10	11	13	7	0	2	3	1	0	1	3	3	5	2	3	0	2	2	4	0	2	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	129913433	A	C	129913433	2	2	425	1	0	0	0	0	0	0	0	1	9598	407	15	5		5	MKI67	10	129913433	Silent	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	939264	129913433	5621314	77	21613											
JAKMIP3	282973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	133930691	133930691	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagacaaagctgcacgaggaGaagatgaaggagctacaggc	17	3	14	7	1	0	4	0	1	0	3	0	7	0	5	0	3	4	3	0	3	5	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	133930691	G	C	133930691	3	2	425	1	0	0	0	0	1	0	0	0	7942	933	33	4	252	4	JAKMIP3	10	133930691	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	4017258	133930691	1604056	78	21614											
NUP160	23279	broad.mit.edu;hgsc.bcm.edu	37	chr11	47828687	47828687	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgataagtgttggagattaGactccctgtgagaaaagggg	12	10	14	5	0	0	4	0	2	0	3	1	6	1	4	1	3	0	1	1	3	4	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	47828687	G	A	47828687	3	1	425	1	0	0	0	0	1	0	0	0	10757	942	33	2	2001	2	NUP160	11	47828687	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08		47828687	87177829	79	21615											
BBS1	582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	66287216	66287216	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccttcaccattttagcCaaggtcagcgtcaggtctgg	8	10	12	11	1	4	0	3	0	1	0	4	1	4	0	3	4	2	0	3	4	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	66287216	C	G	66287216	2	3	425	1	0	0	0	0	0	0	0	1	1335	581	21	4		4	BBS1	11	66287216	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	18458529	66287216	68719300	80	21616											
RIMKLB	57494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	8904578	8904578	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacgaaaattttgctaaaatGattgatgaggctgaagttct	14	13	9	5	1	1	4	0	4	1	0	1	5	1	4	0	1	1	3	0	1	5	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	8904578	G	A	8904578	3	1	425	1	0	0	0	0	1	0	0	0	13368	1290	45	2	442	2	RIMKLB	12	8904578	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08		8904578	124947317	81	21617											
TSPAN11	441631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	31136075	31136075	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcagtgggcatcggggtggCctgcctgcaggtgagttgca	5	8	19	9	1	0	1	0	1	0	0	1	1	0	1	2	6	3	5	2	6	0	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	31136075	C	A	31136075	3	1	425	1	0	0	0	0	1	0	0	0	16634	739	26	4	714	4	TSPAN11	12	31136075	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	22231497	31136075	102715820	82	21618											
LRP1	4035	hgsc.bcm.edu;ucsc.edu	37	chr12	57560827	57560833	+	Frame_Shift_Del	DEL	GTGGTAA	GTGGTAA	-																															ctctgatgagtctgcttcgtGtggtaagagggatgggcaga																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	GTGGTAA	GTGGTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	57560833	GTGGTAA	-	57560827	7	5	425	1	0	1	0	1	0	0	0	0	8951	1377	48	0	2982	0	LRP1	12	57560827	Frame_Shift_Del	DEL	GTGGTAA	TCGA-CJ-6030-01A-11D-1669-08	26424752	57560827	76291068	83	21619											
SRGAP1	57522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	64377845	64377845	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagctgaaattgagacggaAtattcccggaatctagagaa	17	8	10	6	2	1	3	0	2	1	2	2	7	2	5	1	2	1	1	1	2	7	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	64377845	A	C	64377845	3	2	425	1	0	0	0	0	1	0	0	0	15146	98	4	5	192	5	SRGAP1	12	64377845	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	6817018	64377845	69474050	84	21620											
XPOT	11260	broad.mit.edu;hgsc.bcm.edu	37	chr12	64828368	64828368	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaattgcacagaaaacatGttttatcatcctctcaaagt	14	13	4	10	0	2	1	2	0	1	1	5	1	4	1	2	0	2	2	2	0	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	64828368	G	T	64828368	3	4	425	1	0	0	0	0	1	0	0	0	17449	1377	48	4	2608	4	XPOT	12	64828368	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	450523	64828368	69023527	85	21621											
FAM123A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25743823	25743823	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttgctgactctgcggacCagcactttggaaaccgggat	8	9	13	11	3	1	1	0	1	1	0	1	4	1	4	2	4	4	3	2	4	1	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	25743823	C	T	25743823	2	4	425	1	0	0	0	0	0	0	0	1	5422	581	21	2		2	FAM123A	13	25743823	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		25743823	89426055	86	21622											
KLHL1	57626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	70281831	70281831	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtccatcatagccaccaaCagcatataatctgtcaccaa	14	9	4	14	0	3	0	2	0	1	0	4	0	4	0	4	0	3	1	4	0	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	70281831	C	T	70281831	3	4	425	1	0	0	0	0	1	0	0	0	8365	478	17	2	141	2	KLHL1	13	70281831	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	44538008	70281831	44888047	87	21623											
DIS3	22894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	73335571	73335571	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactgtcccttctaaaccaTactttggaattaataccaca	14	12	4	11	0	1	1	0	0	1	1	2	2	2	2	3	1	3	0	3	1	6	6	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	73335571	T	C	73335571	3	2	425	1	0	0	0	0	1	0	0	0	4535	1406	49	3	288	3	DIS3	13	73335571	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	3053740	73335571	41834307	88	21624											
SLITRK6	84189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	86370298	86370298	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgtgattgatatgaagttGtttcaggaggccaaggccat	11	13	12	5	0	1	3	1	3	0	0	1	4	1	4	2	3	0	2	2	3	3	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	86370298	G	T	86370298	3	4	425	1	0	0	0	0	1	0	0	0	14749	1386	48	4	2183	4	SLITRK6	13	86370298	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	13034727	86370298	28799580	89	21625											
TUBGCP3	10426	hgsc.bcm.edu;ucsc.edu	37	chr13	113176789	113176789	+	Frame_Shift_Del	DEL	A	A	-																															gcagcatcaatcttcccctgAaatgcattttccaagtctgt																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	113176789	A	-	113176789	7	5	425	1	0	1	0	1	0	0	0	0	16766	243	9	0	1169	0	TUBGCP3	13	113176789	Frame_Shift_Del	DEL	A	TCGA-CJ-6030-01A-11D-1669-08	26806491	113176789	1993089	90	21626											
RPGRIP1	57096	hgsc.bcm.edu;ucsc.edu	37	chr14	21796727	21796727	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggcaaaagaataggtgttCaaggaaagaatagaatggag	19	7	13	2	0	1	3	1	0	0	3	1	5	1	5	0	4	0	2	0	4	9	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	21796727	C	T	21796727	4	4	425	1	0	0	0	0	0	1	0	0	13551	827	29	2	3110	2	RPGRIP1	14	21796727	Nonsense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		21796727	85552813	91	21627											
SPTBN5	51332	broad.mit.edu	37	chr15	42175214	42175214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccctgacaagagccacCaggctctgttggagctgggc	7	6	15	13	1	1	2	0	1	1	1	1	3	1	3	3	4	2	3	3	4	1	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	42175214	T	T	42175214	2	4	425	1	0	0	0	0	0	0	0	1	15123	581	21	2		2	SPTBN5	15	42175214	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		42175214	60356178	92	21628											
VPS39	23339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42480038	42480038	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacatccgtaacacctccTcaccggtctctgtgtgctgg	7	10	8	16	2	2	0	1	0	1	0	5	0	4	0	4	2	2	2	4	2	1	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	42480038	T	A	42480038	3	1	425	1	0	0	0	0	1	0	0	0	17208	1551	54	5	2348	5	VPS39	15	42480038	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	304824	42480038	60051354	93	21629											
CAPN3	825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	42695072	42695072	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagcaaaacctacatcaaCatgcgggaggtgtcccagcg	13	5	12	11	2	1	0	1	0	0	0	2	2	2	2	2	3	6	1	2	3	4	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	42695072	C	T	42695072	2	4	425	1	0	0	0	0	0	0	0	1	2628	477	17	2		2	CAPN3	15	42695072	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	215034	42695072	59836320	94	21630											
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49301485	49301485	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctattccagaactagcaGgagagccttgtgacacaggt	11	9	11	10	0	0	3	0	1	0	2	1	4	1	3	3	2	4	1	3	2	3	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	49301485	G	C	49301485	3	2	425	1	0	0	0	0	1	0	0	0	14009	1000	35	4	1370	4	SECISBP2L	15	49301485	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	6606413	49301485	53229907	95	21631											
C15orf33	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49868999	49868999	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcatccaaatgtctgggtAgctgagtaagttcatttgct	10	13	10	8	0	2	1	1	1	1	0	3	1	3	1	1	1	3	6	1	1	3	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	49868999	A	T	49868999	3	4	425	1	0	0	0	0	1	0	0	0	1791	420	15	5	1081	5	C15orf33	15	49868999	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	567514	49868999	52662393	96	21632											
HEXA	3073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72645420	72645420	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggttaccagagtgtccaGgatgctagagagtggcaggt	9	9	15	8	0	0	2	0	0	0	2	1	4	1	3	3	4	2	3	3	4	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	72645420	G	T	72645420	3	4	425	1	0	0	0	0	1	0	0	0	7073	991	35	4	1070	4	HEXA	15	72645420	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	22776421	72645420	29885972	97	21633											
SYNM	23336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	99672128	99672128	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgtccagagaagtcaTcttcctaggccctgcccctg	7	10	8	16	0	2	1	1	0	1	1	5	2	5	1	6	1	1	0	6	1	2	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	99672128	T	C	99672128	3	2	425	1	0	0	0	0	1	0	0	0	15454	1435	50	3	3576	3	SYNM	15	99672128	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08	27026708	99672128	2859264	98	21634											
ZNF764	92595	broad.mit.edu;ucsc.edu	37	chr16	30569111	30569111	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgggcagccggaccccAcagttcggcctcctcctcca	6	7	9	19	2	0	0	0	0	0	0	5	1	4	1	8	3	1	2	8	3	0	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	30569111	C	C	30569111	3	2	425	1	0	0	0	0	1	0	0	0	18137	159	6	5	981	5	ZNF764	16	30569111	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08		30569111	59785642	99	21635											
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	30749422	30749422	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccccaacctccagcccAgagaagccacaggaactcgt	14	3	8	16	1	0	2	0	0	0	2	2	4	1	3	6	1	4	0	6	1	4	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	30749422	A	T	30749422	2	4	425	1	0	0	0	0	0	0	0	1	15136	175	7	5		5	SRCAP	16	30749422	Silent	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	180311	30749422	59605331	100	21636											
IKZF3	22806	broad.mit.edu;hgsc.bcm.edu	37	chr17	37922736	37922736	+	Silent	SNP	G	G	T																															tagttgacatcaaagcagtgGcgcttctcacctggaacaag																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	37922736	G	T	37922736	2	4	425	1	0	0	0	0	0	0	0	1	7616	1190	42	4		4	IKZF3	17	37922736	Silent	SNP	G	TCGA-CJ-6030-01A-11D-1669-08		37922736	43272474	101	21637	293	2									
IKZF3	22806	broad.mit.edu;hgsc.bcm.edu	37	chr17	37922737	37922737	+	Missense_Mutation	SNP	C	C	G																															agttgacatcaaagcagtggCgcttctcacctggaacaagt																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	37922737	C	G	37922737	3	3	425	1	0	0	0	0	1	0	0	0	7616	768	27	4	697	4	IKZF3	17	37922737	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	1	37922737	43272473	102	21638	293	2									
NFE2L1	4779	broad.mit.edu;ucsc.edu	37	chr17	46135813	46135813	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcagccaggacttcttaCtcttcagccccgaggtggaa	8	9	11	13	1	3	0	1	0	2	0	3	3	3	2	3	3	4	2	3	3	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	46135813	G	G	46135813	3	3	425	1	0	0	0	0	1	0	0	0	10367	565	20	4	1147	4	NFE2L1	17	46135813	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	8213076	46135813	35059397	103	21639											
MED13	9969	hgsc.bcm.edu;ucsc.edu	37	chr17	60059957	60059957	+	Frame_Shift_Del	DEL	T	T	-																															caagaaataatcctgaattgTttccaaattttctgttcatg																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	60059957	T	-	60059957	7	5	425	1	0	1	0	1	0	0	0	0	9430	1725	60	0	3177	0	MED13	17	60059957	Frame_Shift_Del	DEL	T	TCGA-CJ-6030-01A-11D-1669-08	13924144	60059957	21135253	104	21640											
NPTX1	4884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78445540	78445540	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacagtacctgctcctGgcccagcaccagcacgccct	8	5	8	20	1	0	0	0	0	0	0	1	0	1	0	6	1	5	5	6	1	1	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	78445540	G	T	78445540	3	4	425	1	0	0	0	0	1	0	0	0	10602	1357	47	4	237	4	NPTX1	17	78445540	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	18385583	78445540	2749670	105	21641											
NARF	26502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	80443460	80443460	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggctttcgaaacatccaGaacatgatcctgaagcttaa	14	11	7	9	1	0	3	0	2	0	1	3	4	2	3	2	1	3	2	2	1	5	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	80443460	G	T	80443460	3	4	425	1	0	0	0	0	1	0	0	0	10167	933	33	4	1239	4	NARF	17	80443460	Missense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	1997920	80443460	751750	106	21642											
ABCA7	10347	broad.mit.edu	37	chr19	1056479	1056479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgaacctcaccaaggagCagctgtctgagggtgcactg	9	8	12	12	0	2	2	1	2	1	0	2	3	2	3	3	2	4	3	3	2	2	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	1056479	A	A	1056479	3	1	425	1	0	0	0	0	1	0	0	0	37	711	25	4	4693	4	ABCA7	19	1056479	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		1056479	58072504	107	21643											
CELF5	60680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3281241	3281241	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagttcgccgacacggacaaGgagcggacgctccggcgcat	10	4	14	13	7	0	0	0	0	0	0	2	4	1	3	2	4	1	3	2	4	2	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	3281241	G	A	3281241	2	1	425	1	0	0	0	0	0	0	0	1	3219	991	35	2		2	CELF5	19	3281241	Silent	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	2224762	3281241	55847742	108	21644											
FBN3	84467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8194141	8194141	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacctgtgcagtccttgcctGaggcacctgcctcataaccc	7	9	8	17	0	1	1	1	1	0	0	2	1	2	1	6	1	4	2	6	1	1	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	8194141	G	C	8194141	4	2	425	1	0	0	0	0	0	1	0	0	5704	1294	45	4	6468	4	FBN3	19	8194141	Nonsense_Mutation	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	4912900	8194141	50934842	109	21645											
DMKN	93099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36003325	36003325	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccccttcctcttacccCttcattctggttgctggctc	3	14	6	18	0	3	0	1	0	2	0	5	0	4	0	6	2	3	3	6	2	1	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	36003325	C	T	36003325	3	4	425	1	0	0	0	0	1	0	0	0	4582	681	24	2	1121	2	DMKN	19	36003325	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	27809184	36003325	23125658	110	21646											
YIF1B	90522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38798068	38798068	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccgagcccagctcacCatgaacacaaagatggctac	13	4	8	16	1	1	2	1	1	0	1	1	3	1	2	4	1	5	2	4	1	3	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	38798068	C	A	38798068	3	1	425	1	0	0	0	0	1	0	0	0	17475	608	21	4	244	4	YIF1B	19	38798068	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	2794743	38798068	20330915	111	21647											
CYP2F1	1572	broad.mit.edu	37	chr19	41627951	41627951	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtgcctgagagacctcatCgcccacagcgtccacgacca	11	5	9	16	3	1	2	1	1	0	1	3	4	2	2	5	0	2	0	5	0	1	0	rs139489388		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	41627951	T	T	41627951	2	4	425	1	0	0	0	0	0	0	0	1	4171	874	31	1		1	CYP2F1	19	41627951	Silent	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	2829883	41627951	17501032	112	21648											
LYPD3	27076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	43967403	43967403	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggcccacacagctgtagCactccacgccgttgggcggg	7	6	13	15	3	1	0	1	0	0	0	2	0	2	0	3	3	2	4	3	3	1	2	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	43967403	C	T	43967403	3	4	425	1	0	0	0	0	1	0	0	0	9111	710	25	2	629	2	LYPD3	19	43967403	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	2339452	43967403	15161580	113	21649											
ZNF404	342908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44376785	44376785	+	Frame_Shift_Del	DEL	T	T	-																															tgactaaaggccttaccacaTtctttgcatttctgtggttt																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	44376785	T	-	44376785	7	5	425	1	0	1	0	1	0	0	0	0	17885	1490	52	0	81	0	ZNF404	19	44376785	Frame_Shift_Del	DEL	T	TCGA-CJ-6030-01A-11D-1669-08	409382	44376785	14752198	114	21650											
PANK2	80025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3897581	3897581	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccccatcacagctttggaAacatgatgagcaaggagaag	14	7	10	10	0	1	3	1	2	0	1	2	5	2	4	2	2	3	2	2	2	3	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	3897581	A	C	3897581	3	2	425	1	0	0	0	0	1	0	0	0	11417	14	1	5	1438	5	PANK2	20	3897581	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08		3897581	59127939	115	21651											
RBM39	9584	hgsc.bcm.edu;ucsc.edu	37	chr20	34309720	34309720	+	Frame_Shift_Del	DEL	G	G	-																															cagttatgttgaagtgtaatGagcccacataaagcctcata																								novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		-	34309720	G	-	34309720	7	5	425	1	0	1	0	1	0	0	0	0	13135	1294	45	0	861	0	RBM39	20	34309720	Frame_Shift_Del	DEL	G	TCGA-CJ-6030-01A-11D-1669-08	30412139	34309720	28715800	116	21652											
CTCFL	140690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	56090853	56090853	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aacactgaaaggggcgctccCcagtgtgggatcggacatgg	10	6	15	10	2	0	1	0	1	0	0	2	3	1	3	2	5	1	1	2	5	2	0	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	56090853	C	T	56090853	3	4	425	1	0	0	0	0	1	0	0	0	4001	623	22	2	918	2	CTCFL	20	56090853	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08	21781133	56090853	6934667	117	21653											
MORC3	23515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37721695	37721695	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacaagatttcgactatacTaatgagtacaggtatgttac	16	12	7	6	1	0	2	0	1	0	1	1	3	0	2	0	1	4	3	0	1	8	7	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	37721695	T	C	37721695	2	2	425	1	0	0	0	0	0	0	0	1	9703	1509	53	3		3	MORC3	21	37721695	Silent	SNP	T	TCGA-CJ-6030-01A-11D-1669-08		37721695	10408200	118	21654											
SMARCB1	6598	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24143192	24143192	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcccaacagctcccaccacTtagatgccgtgccatgctcc	8	8	7	18	1	0	1	0	0	0	1	2	1	2	1	6	0	6	2	6	0	2	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		A	24143192	T	A	24143192	3	1	425	1	0	0	0	0	1	0	0	0	14776	1606	56	5	438	5	SMARCB1	22	24143192	Missense_Mutation	SNP	T	TCGA-CJ-6030-01A-11D-1669-08		24143192	27161374	119	21655											
SEC14L3	266629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30856107	30856107	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgtggacaaagctataGgtgttgtcgaagcgtaggac	10	10	15	6	3	0	0	0	0	0	0	1	3	0	2	0	4	2	3	0	4	5	5	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	30856107	G	T	30856107	2	4	425	1	0	0	0	0	0	0	0	1	13985	987	35	4		4	SEC14L3	22	30856107	Silent	SNP	G	TCGA-CJ-6030-01A-11D-1669-08	6712915	30856107	20448459	120	21656											
MCM5	4174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	35815920	35815920	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaggctgcagagaaactgAagaaccgctacatcatcatg	15	6	10	10	1	2	4	2	1	0	3	2	5	2	4	1	1	4	3	1	1	4	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		C	35815920	A	C	35815920	3	2	425	1	0	0	0	0	1	0	0	0	9390	247	9	5	1797	5	MCM5	22	35815920	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	4959813	35815920	15488646	121	21657											
EP300	2033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41572994	41572994	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcactgccatcctgccagaAgatgaagcgggttgtgcagc	9	8	12	12	1	1	3	1	1	0	2	2	3	2	3	3	1	5	2	3	1	2	1	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		G	41572994	A	G	41572994	3	3	425	1	0	0	0	0	1	0	0	0	5148	72	3	3	5401	3	EP300	22	41572994	Missense_Mutation	SNP	A	TCGA-CJ-6030-01A-11D-1669-08	5757074	41572994	9731572	122	21658											
NAA10	8260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153196257	153196257	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgcttcatggcataggCgtcctccccatctgcatagt	6	11	9	15	2	2	0	1	0	1	0	5	0	5	0	4	2	1	3	4	2	2	3	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	153196257	C	T	153196257	3	4	425	1	0	0	0	0	1	0	0	0	10116	768	27	1	285	1	NAA10	23	153196257	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		153196257	2074303	123	21659											
KDM5D	8284	broad.mit.edu;ucsc.edu	37	chrY	21903350	21903350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgatccttgcagatggcttCatagccaccttcctcaatca	10	11	6	14	1	3	1	3	0	0	1	5	2	5	1	4	1	2	2	4	1	2	4	novel		TCGA-CJ-6030-01A-11D-1669-08	TCGA-CJ-6030-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c904299c-09a8-4a4c-9378-2fee0ac4cd33	ac520dbf-14be-4783-a879-412bed97580c		T	21903350	T	T	21903350	3	4	425	1	0	0	0	0	1	0	0	0	8136	835	29	2	4432	2	KDM5D	24	21903350	Missense_Mutation	SNP	C	TCGA-CJ-6030-01A-11D-1669-08		21903350	37470216	124	21660											
CHD5	26038	broad.mit.edu;ucsc.edu	37	chr1	6208965	6208965	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggatctcgggcagcggcggGttgaggcaatgcaggtggta	7	7	20	7	3	1	1	0	1	1	0	2	2	1	2	0	7	2	5	0	7	2	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	6208965	T	T	6208965	3	4	426	1	0	0	0	0	1	0	0	0	3328	1252	44	4	4664	4	CHD5	1	6208965	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08		6208965	243041656	1	21661											
FBXO42	54455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16583146	16583146	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatttcatcaaagaatctcTctggctggtgtaggggataa	11	13	11	6	0	4	1	2	0	2	1	5	2	4	2	0	4	0	3	0	4	5	4	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	16583146	T	G	16583146	3	3	426	1	0	0	0	0	1	0	0	0	5751	1551	54	5	1566	5	FBXO42	1	16583146	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	10374181	16583146	232667475	2	21662											
PRPF38B	55119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109238748	109238748	+	Missense_Mutation	SNP	G	G	T																															accctgaagttaactcgaaaGcaagtgatgggtcttataac																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	109238748	G	T	109238748	3	4	426	1	0	0	0	0	1	0	0	0	12570	962	34	4	439	4	PRPF38B	1	109238748	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	92655602	109238748	140011873	3	21663	294	2									
PRPF38B	55119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109238749	109238749	+	Nonsense_Mutation	SNP	C	C	T																															ccctgaagttaactcgaaagCaagtgatgggtcttataaca																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	109238749	C	T	109238749	4	4	426	1	0	0	0	0	0	1	0	0	12570	711	25	2	440	2	PRPF38B	1	109238749	Nonsense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	1	109238749	140011872	4	21664	294	2									
FAM40A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110582061	110582061	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagaggtgcagtcctggAtgcgctacaacatctttctc	9	10	11	11	1	2	1	0	0	2	1	4	2	3	2	1	3	4	3	1	3	2	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	110582061	A	T	110582061	3	4	426	1	0	0	0	0	1	0	0	0	5560	333	12	5	523	5	FAM40A	1	110582061	Missense_Mutation	SNP	A	TCGA-CJ-6031-01A-11D-1669-08	1343312	110582061	138668560	5	21665											
CHRNB2	1141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154543879	154543879	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagtgaggtggccagcCtggacgacttcacacctagt	10	8	13	10	1	1	3	1	2	0	1	1	5	1	4	3	3	1	0	3	3	2	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	154543879	C	A	154543879	3	1	426	1	0	0	0	0	1	0	0	0	3391	680	24	4	598	4	CHRNB2	1	154543879	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	43961818	154543879	94706742	6	21666											
C1orf112	55732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169822055	169822055	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagggtcctgctccagcctGgctttcaatggaaatggagg	10	9	13	9	0	1	0	1	0	0	0	3	2	3	2	3	5	2	2	3	5	3	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	169822055	G	A	169822055	4	1	426	1	0	0	0	0	0	1	0	0	1985	1357	47	2	2575	2	C1orf112	1	169822055	Nonsense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	15278176	169822055	79428566	7	21667											
NR5A2	2494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200014591	200014591	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggattttttaagcgaacagtCcaaaataataaaaggtacac	18	10	7	6	1	0	0	0	0	0	0	1	2	1	1	1	2	3	1	1	2	8	6	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	200014591	C	A	200014591	2	1	426	1	0	0	0	0	0	0	0	1	10636	842	30	4		4	NR5A2	1	200014591	Silent	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	30192536	200014591	49236030	8	21668											
TLK1	9874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	171902831	171902831	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctagaagtttcctttgcCtttcaatatcttccctttgc	6	18	6	11	0	2	1	1	0	1	1	4	1	4	1	3	1	2	2	3	1	4	7	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	171902831	C	T	171902831	3	4	426	1	0	0	0	0	1	0	0	0	15942	681	24	2	1322	2	TLK1	2	171902831	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		171902831	71296542	9	21669											
NRP2	8828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	206640998	206640998	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgccagggaccgagccCacagtggacacggtgcccat	8	5	12	16	2	0	0	0	0	0	0	1	3	1	2	5	3	3	0	5	3	0	0	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	206640998	C	T	206640998	2	4	426	1	0	0	0	0	0	0	0	1	10661	581	21	2		2	NRP2	2	206640998	Silent	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	34738167	206640998	36558375	10	21670											
INPP5D	3635	broad.mit.edu	37	chr2	234113207	234113207	+	Frame_Shift_Del	DEL	G	-	-																															cagcagaccccgcccaccccGacgccgcggccgccgctgcc																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		-	234113207	-	-	234113207	7	5	426	1	0	1	0	1	0	0	0	0	7756	1045	37	0	3021	0	INPP5D	2	234113207	Frame_Shift_Del	DEL	G	TCGA-CJ-6031-01A-11D-1669-08	27472209	234113207	9086166	11	21671											
HDAC4	9759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	240111615	240111615	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgatgaggatctgcctctGgatctgctgcttctgcttga	6	13	12	10	1	4	2	0	2	4	0	4	5	4	4	1	2	5	3	1	2	0	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	240111615	G	C	240111615	3	2	426	1	0	0	0	0	1	0	0	0	7009	1357	47	4	3097	4	HDAC4	2	240111615	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	5998408	240111615	3087758	12	21672											
VHL	7428	hgsc.bcm.edu	37	chr3	10183859	10183859	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcacgggccgccgcatcCacagctaccgaggtacgggc	7	4	14	16	5	0	0	0	0	0	0	1	1	1	0	4	4	3	4	4	4	2	2	rs17855706		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM	.	.	Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	10183859	C	T	10183859	3	4	426	1	0	0	0	0	1	0	0	0	17161	594	21	2	330	2	VHL	3	10183859	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		10183859	187838571	13	21673											
ATG7	10533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	11389435	11389435	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcctctctatgagtttGaagattgcctagggggtggt	7	12	15	7	0	1	3	0	2	1	1	2	3	1	3	2	4	2	2	2	4	3	4	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	11389435	G	T	11389435	4	4	426	1	0	0	0	0	0	1	0	0	1101	1291	45	4	1252	4	ATG7	3	11389435	Nonsense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	1205576	11389435	186632995	14	21674											
KCNH8	131096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	19436689	19436689	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcccaacacagtactatcGtcctgactctgctcatgtcc	9	12	5	15	1	2	1	1	1	1	0	6	1	5	1	3	0	3	2	3	0	3	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	19436689	G	A	19436689	3	1	426	1	0	0	0	0	1	0	0	0	8038	1145	40	1	1089	1	KCNH8	3	19436689	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	8047254	19436689	178585741	15	21675											
POLQ	10721	broad.mit.edu;ucsc.edu	37	chr3	121208173	121208173	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaatagtgcttgtctgtTcatgagattgctttcgcagg	7	16	12	6	1	2	1	1	1	1	1	3	2	2	1	0	2	2	5	0	2	2	6	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	121208173	G	G	121208173	3	3	426	1	0	0	0	0	1	0	0	0	12208	1783	62	5	4227	5	POLQ	3	121208173	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	101771484	121208173	76814257	16	21676											
RASA2	5922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141278763	141278763	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtggaacaatggaaacctAgtccaagatgttttcctagg	12	12	10	7	0	0	1	0	0	0	1	2	3	2	3	3	3	2	1	3	3	6	5	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	141278763	A	G	141278763	2	3	426	1	0	0	0	0	0	0	0	1	13063	407	15	3		3	RASA2	3	141278763	Silent	SNP	A	TCGA-CJ-6031-01A-11D-1669-08	20070590	141278763	56743667	17	21677											
CRYGS	1427	broad.mit.edu;ucsc.edu	37	chr3	186262113	186262113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttggttccagttttagaCatttttggtgcatagactgg	8	16	10	7	0	0	2	0	0	0	2	1	2	1	2	2	3	1	3	2	3	2	7	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	186262113	T	T	186262113	3	4	426	1	0	0	0	0	1	0	0	0	3919	478	17	2	545	2	CRYGS	3	186262113	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	44983350	186262113	11760317	18	21678											
TACC3	10460	hgsc.bcm.edu	37	chr4	1729795	1729795	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actccgcacggagccgaggaAgaatgcaaagcggagactcc	13	3	13	12	4	0	2	0	0	0	2	2	6	2	4	3	3	3	2	3	3	3	0	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	1729795	A	G	1729795	2	3	426	1	0	0	0	0	0	0	0	1	15502	69	3	3		3	TACC3	4	1729795	Silent	SNP	A	TCGA-CJ-6031-01A-11D-1669-08		1729795	189424481	19	21679											
AGXT2L1	64850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	109667938	109667938	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtagatgatgtgctgagcTtcagctgtggcaggggtcct	6	13	15	7	0	1	3	1	2	0	1	2	3	2	3	1	3	3	5	1	3	1	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	109667938	T	C	109667938	2	2	426	1	0	0	0	0	0	0	0	1	406	1606	56	3		3	AGXT2L1	4	109667938	Silent	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	107938143	109667938	81486338	20	21680											
PCDH18	54510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	138450943	138450943	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagatctgatgggcagagtgCcatttatggtaggcaccaat	11	10	13	7	0	1	3	0	1	1	2	1	4	1	3	2	3	1	3	2	3	3	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	138450943	C	T	138450943	3	4	426	1	0	0	0	0	1	0	0	0	11513	739	26	2	1123	2	PCDH18	4	138450943	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	28783005	138450943	52703333	21	21681											
RXFP1	59350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	159549854	159549854	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgcacctctccagaaactgGatgaattgtaagtatgactg	12	12	9	8	0	1	3	0	2	1	1	2	4	1	4	2	1	2	3	2	1	4	4	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	159549854	G	A	159549854	3	1	426	1	0	0	0	0	1	0	0	0	13761	1174	41	2	934	2	RXFP1	4	159549854	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	21098911	159549854	31604422	22	21682											
PCDHB13	56123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140594887	140594887	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcctcctgaaatccgcgGaaaacttttacaccctacta	11	11	4	15	2	0	1	0	1	0	0	3	2	3	2	5	1	3	0	5	1	6	5	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	140594887	G	T	140594887	4	4	426	1	0	0	0	0	0	1	0	0	11538	1175	41	4	1194	4	PCDHB13	5	140594887	Nonsense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08		140594887	40320373	23	21683											
NSD1	64324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176631295	176631295	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaggatataggcataaggTaggaaacgaaaaaggctttt	19	8	11	3	1	0	0	0	0	0	0	0	3	0	2	0	5	1	3	0	5	9	6	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	176631295	T	C	176631295	5	2	426	1	0	0	0	0	0	0	1	0	10669	1652	57	3	1248	3	NSD1	5	176631295	Splice_Site	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	36036408	176631295	4283965	24	21684											
RAB24	53917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176729440	176729440	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaagtccacacgtcgacGcctccggtcttcttccagca	7	9	10	15	4	2	0	0	0	2	0	6	2	5	1	4	2	1	1	4	2	1	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	176729440	G	A	176729440	3	1	426	1	0	0	0	0	1	0	0	0	12913	1087	38	1	236	1	RAB24	5	176729440	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	98145	176729440	4185820	25	21685											
IBTK	25998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	82950105	82950105	+	Silent	SNP	A	A	T																															tgactggagagaaaggccttAatctggttttcgctcccctt																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	82950105	A	T	82950105	2	4	426	1	0	0	0	0	0	0	0	1	7476	358	13	5		5	IBTK	6	82950105	Silent	SNP	A	TCGA-CJ-6031-01A-11D-1669-08		82950105	88164962	26	21686	295	2									
IBTK	25998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	82950107	82950107	+	Missense_Mutation	SNP	T	T	C																															actggagagaaaggccttaaTctggttttcgctcccctttg																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	82950107	T	C	82950107	3	2	426	1	0	0	0	0	1	0	0	0	7476	1435	50	3	4076	3	IBTK	6	82950107	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	2	82950107	88164960	27	21687	295	2									
NOX3	50508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	155743887	155743887	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaccatatagatttcagaaGagcagcgaagggagtgactc	14	8	12	7	1	1	4	1	1	0	3	2	6	1	5	1	1	3	2	1	1	5	4	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	155743887	G	A	155743887	3	1	426	1	0	0	0	0	1	0	0	0	10557	942	33	2	473	2	NOX3	6	155743887	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	72793780	155743887	15371180	28	21688											
MCM7	4176	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99693535	99693535	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaggcagggttggcggcaGccaggatggagcagcgggca	8	4	20	9	3	0	0	0	0	0	0	0	2	0	2	1	7	3	6	1	7	1	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	99693535	G	T	99693535	3	4	426	1	0	0	0	0	1	0	0	0	9392	971	34	4	722	4	MCM7	7	99693535	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08		99693535	59445128	29	21689											
HYAL4	23553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123517205	123517205	+	Missense_Mutation	SNP	T	T	C																															aagttatcgaagcattcagtTgtgagataattgagtttaaa																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	123517205	T	C	123517205	3	2	426	1	0	0	0	0	1	0	0	0	7466	1821	63	3	1452	3	HYAL4	7	123517205	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	23823670	123517205	35621458	30	21690	296	2									
HYAL4	23553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123517206	123517206	+	Missense_Mutation	SNP	G	G	T																															agttatcgaagcattcagttGtgagataattgagtttaaag																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	123517206	G	T	123517206	3	4	426	1	0	0	0	0	1	0	0	0	7466	1368	48	4	1453	4	HYAL4	7	123517206	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	1	123517206	35621457	31	21691	296	2									
FZD3	7976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28385020	28385020	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagtctgctacatgatggTatccttaattttcttcattg	8	18	7	8	0	3	1	1	1	2	0	4	1	4	1	1	1	3	3	1	1	3	7	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	28385020	T	C	28385020	3	2	426	1	0	0	0	0	1	0	0	0	6131	1638	57	3	753	3	FZD3	8	28385020	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08		28385020	117979002	32	21692											
FGFR1	2260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38282176	38282176	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggccactgttttgttggCgggcaaccctgcttgcagga	6	10	14	11	1	0	0	0	0	0	0	0	1	0	1	2	4	3	5	2	4	1	4	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	38282176	C	A	38282176	3	1	426	1	0	0	0	0	1	0	0	0	5863	768	27	4	1969	4	FGFR1	8	38282176	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	9897156	38282176	108081846	33	21693											
FER1L6	654463	broad.mit.edu;hgsc.bcm.edu	37	chr8	125035809	125035809	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagatgggcaaacactgCggcaagatcaaaactcactt	14	6	11	10	1	2	2	2	0	0	2	2	2	2	2	0	3	3	3	0	3	4	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	125035809	C	T	125035809	2	4	426	1	0	0	0	0	0	0	0	1	5815	776	27	1		1	FER1L6	8	125035809	Silent	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	86753633	125035809	21328213	34	21694											
PPP1R16A	84988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	145724303	145724303	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggcacggtttgcagtgctGcattgatgatttccgagaga	8	12	14	7	2	0	3	0	2	0	1	1	5	1	3	1	2	3	5	1	2	0	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	145724303	G	A	145724303	3	1	426	1	0	0	0	0	1	0	0	0	12367	1319	46	2	345	2	PPP1R16A	8	145724303	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	20688494	145724303	639719	35	21695											
MLANA	2315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5897599	5897599	+	Silent	SNP	A	A	G																															acagtgatcctgggagtcttActgctcatcggctgttggta																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	5897599	A	G	5897599	2	3	426	1	0	0	0	0	0	0	0	1	9611	388	14	3		3	MLANA	9	5897599	Silent	SNP	A	TCGA-CJ-6031-01A-11D-1669-08		5897599	135315832	36	21696	297	2									
MLANA	2315	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5897600	5897600	+	Missense_Mutation	SNP	C	C	A																															cagtgatcctgggagtcttaCtgctcatcggctgttggtat																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	5897600	C	A	5897600	3	1	426	1	0	0	0	0	1	0	0	0	9611	564	20	4	127	4	MLANA	9	5897600	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	1	5897600	135315831	37	21697	297	2									
KIAA1797	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	20874780	20874780	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgctatctcaaactgttgtCactcactccccctttggttt	6	17	5	13	0	3	0	3	0	1	0	5	0	4	0	2	1	2	3	2	1	2	5	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	20874780	C	T	20874780	3	4	426	1	0	0	0	0	1	0	0	0	8258	838	29	2	2361	2	KIAA1797	9	20874780	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	14977180	20874780	120338651	38	21698											
ANUBL1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	46121526	46121526	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccccacgtgtgctctgtAatctatttctgcttgtgctc	4	16	8	13	1	3	0	0	0	3	0	4	0	3	0	2	0	4	4	2	0	2	4	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	46121526	A	G	46121526	3	3	426	1	0	0	0	0	1	0	0	0	713	372	13	3	454	3	ANUBL1	10	46121526	Missense_Mutation	SNP	A	TCGA-CJ-6031-01A-11D-1669-08		46121526	89413221	39	21699											
NEURL	9148	broad.mit.edu	37	chr10	105344764	105344764	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgacctgcctttcagccCtgaggccctggtggaccgca	5	7	13	16	2	1	1	1	1	0	0	1	3	1	2	6	4	2	1	6	4	0	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	105344764	A	A	105344764	3	1	426	1	0	0	0	0	1	0	0	0	10345	681	24	4	1135	4	NEURL	10	105344764	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	59223238	105344764	30189983	40	21700											
C10orf79	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105953637	105953637	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttacacgacgtgctgcaCggacgattccgagagaaagg	12	6	13	10	5	0	1	0	0	0	1	1	7	1	2	1	2	3	2	1	2	2	2	rs145913363	by1000genomes	TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	105953637	C	T	105953637	3	4	426	1	0	0	0	0	1	0	0	0	1618	536	19	1	3680	1	C10orf79	10	105953637	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	608873	105953637	29581110	41	21701											
FGFR2	2263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123298145	123298145	+	Missense_Mutation	SNP	A	A	G																															cgtgtgattgatggacccgtAttcattctccactacacagg																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	123298145	A	G	123298145	3	3	426	1	0	0	0	0	1	0	0	0	5866	449	16	3	2064	3	FGFR2	10	123298145	Missense_Mutation	SNP	A	TCGA-CJ-6031-01A-11D-1669-08	17344508	123298145	12236602	42	21702	298	2									
FGFR2	2263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123298147	123298147	+	Missense_Mutation	SNP	T	T	G																															tgtgattgatggacccgtatTcattctccactacacaggta																								novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	123298147	T	G	123298147	3	3	426	1	0	0	0	0	1	0	0	0	5866	1783	62	5	2066	5	FGFR2	10	123298147	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	2	123298147	12236600	43	21703	298	2									
RNH1	6050	broad.mit.edu	37	chr11	498772	498772	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgactcaccacagggtcCtgagcctggagctggggtgg	8	7	16	10	0	1	3	1	2	0	1	2	4	2	4	3	5	2	1	3	5	0	0	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	498772	A	A	498772	3	1	426	1	0	0	0	0	1	0	0	0	13506	681	24	4	629	4	RNH1	11	498772	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		498772	134507744	44	21704											
PLCB3	5331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64028903	64028903	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgaggtgaatgccactgAggagatgtccacgcttgtca	10	8	13	10	2	1	3	1	2	0	1	2	5	2	3	2	2	2	1	2	2	1	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	64028903	A	T	64028903	3	4	426	1	0	0	0	0	1	0	0	0	12029	304	11	5	1821	5	PLCB3	11	64028903	Missense_Mutation	SNP	A	TCGA-CJ-6031-01A-11D-1669-08	63530131	64028903	70977613	45	21705											
SIK3	23387	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	116746997	116746997	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttctttgtccagtcccAtgtcctccatggccaagagg	6	13	9	13	0	2	1	0	0	2	1	6	1	6	1	5	2	0	1	5	2	1	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	116746997	A	G	116746997	3	3	426	1	0	0	0	0	1	0	0	0	14321	217	8	3	2962	3	SIK3	11	116746997	Missense_Mutation	SNP	A	TCGA-CJ-6031-01A-11D-1669-08	52718094	116746997	18259519	46	21706											
PZP	5858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9344841	9344841	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatctgacgatgactccCttagccatgatctgaaatga	12	10	8	11	1	2	6	0	5	2	1	3	7	3	6	3	0	1	0	3	0	2	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	9344841	C	T	9344841	2	4	426	1	0	0	0	0	0	0	0	1	12871	680	24	2		2	PZP	12	9344841	Silent	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		9344841	124507054	47	21707											
PIK3C2G	5288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	18435099	18435099	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatttctctttgtaaaTcaaccccattcttctagcca	12	14	3	12	0	4	1	1	0	3	1	5	1	4	1	3	0	2	1	3	0	6	6	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	18435099	T	G	18435099	3	3	426	1	0	0	0	0	1	0	0	0	11911	1432	50	5	86	5	PIK3C2G	12	18435099	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08	9090258	18435099	115416796	48	21708											
FAM179B	23116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45432114	45432114	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttctctcggacgttctcCggggtcagggggaggcaggc	6	8	16	11	3	3	0	1	0	2	0	6	2	3	2	1	7	1	2	1	7	1	2	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	45432114	C	T	45432114	3	4	426	1	0	0	0	0	1	0	0	0	5506	643	23	1	492	1	FAM179B	14	45432114	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		45432114	61917426	49	21709											
LTBP2	4053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74967715	74967715	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacagcaggcccgttcaagtCatcacactcattcacatcta	12	9	5	15	1	6	0	5	0	1	0	6	0	6	0	1	1	1	2	1	1	2	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	74967715	C	T	74967715	3	4	426	1	0	0	0	0	1	0	0	0	9074	826	29	2	131	2	LTBP2	14	74967715	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	29535601	74967715	32381825	50	21710											
MLH3	27030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75513898	75513898	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagttaaggatgtggcttgCtggttgacaactactatctg	9	14	12	6	0	1	2	0	2	1	0	1	3	1	3	0	3	3	4	0	3	4	5	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	75513898	C	A	75513898	3	1	426	1	0	0	0	0	1	0	0	0	9618	797	28	4	1948	4	MLH3	14	75513898	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	546183	75513898	31835642	51	21711											
LCMT2	9836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43621613	43621613	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaagacagaggcgtggcCatatctcttcaggtttggga	11	9	13	8	1	2	3	1	0	1	3	3	4	2	4	1	4	0	1	1	4	3	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	43621613	C	A	43621613	3	1	426	1	0	0	0	0	1	0	0	0	8679	594	21	4	989	4	LCMT2	15	43621613	Missense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		43621613	58909779	52	21712											
ZNF710	374655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90616473	90616473	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgattgtacactcgccCgtgaagccattcaaatgcaa	13	9	7	12	2	1	2	1	2	0	0	2	2	1	2	2	0	3	2	2	0	4	3	rs146964408	byfrequency;alternate_allele	TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		G	90616473	C	G	90616473	2	3	426	1	0	0	0	0	0	0	0	1	18114	639	23	4		4	ZNF710	15	90616473	Silent	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	46994860	90616473	11914919	53	21713											
MAPK3	5595	broad.mit.edu;ucsc.edu	37	chr16	30133218	30133218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacattctcatggcggaagcGcagcaggatctggatctccc	9	8	12	12	2	3	0	1	0	3	0	5	4	3	3	1	4	2	2	1	4	1	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	30133218	A	A	30133218	3	1	426	1	0	0	0	0	1	0	0	0	9279	1087	38	1	944	1	MAPK3	16	30133218	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08		30133218	60221535	54	21714											
CA7	766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66887326	66887326	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acctcggaggacgatgagagGatccacatggtgaacaactt	13	7	12	9	2	0	2	0	2	0	1	2	7	1	5	2	4	2	0	2	4	2	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	66887326	G	A	66887326	2	1	426	1	0	0	0	0	0	0	0	1	2522	1165	41	2		2	CA7	16	66887326	Silent	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	36754108	66887326	23467427	55	21715											
KIAA0182	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	85701801	85701801	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttgacacgtccgtccaCtacaacattcctgagctgca	11	9	8	13	2	0	2	0	2	0	0	3	2	3	2	3	1	4	3	3	1	3	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		T	85701801	C	T	85701801	2	4	426	1	0	0	0	0	0	0	0	1	8159	564	20	2		2	KIAA0182	16	85701801	Silent	SNP	C	TCGA-CJ-6031-01A-11D-1669-08	18814475	85701801	4652952	56	21716											
SUPT5H	6829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39955501	39955501	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctacatctacgtggaggccTacaagcagacccacgtgaag	12	6	11	12	2	1	2	0	1	1	1	1	3	1	3	2	2	4	2	2	2	5	3	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	39955501	T	A	39955501	3	1	426	1	0	0	0	0	1	0	0	0	15398	1522	53	5	726	5	SUPT5H	19	39955501	Missense_Mutation	SNP	T	TCGA-CJ-6031-01A-11D-1669-08		39955501	19173482	57	21717											
KIF3B	9371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30897808	30897808	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgaactgtacgatgagacGttccgaccacttgttgactc	9	13	9	10	3	0	3	0	3	0	1	2	6	1	3	2	0	2	3	2	0	2	5	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	30897808	G	C	30897808	2	2	426	1	0	0	0	0	0	0	0	1	8301	1132	40	4		4	KIF3B	20	30897808	Silent	SNP	G	TCGA-CJ-6031-01A-11D-1669-08		30897808	32127712	58	21718											
TMPRSS3	64699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	43803192	43803192	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggggcgtgatgacagaGcccccgcacaggtggtagcc	9	4	15	13	2	0	3	0	2	0	1	0	3	0	3	3	4	2	2	3	4	1	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	43803192	G	A	43803192	2	1	426	1	0	0	0	0	0	0	0	1	16247	958	34	2		2	TMPRSS3	21	43803192	Silent	SNP	G	TCGA-CJ-6031-01A-11D-1669-08		43803192	4326703	59	21719											
ELFN2	114794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37769171	37769171	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgtcatgcagatcctCgtccttggcgaactggacct	9	10	11	11	2	1	1	1	0	0	1	4	4	3	3	3	3	2	1	3	3	2	1	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	37769171	C	A	37769171	4	1	426	1	0	0	0	0	0	1	0	0	5058	893	31	4	62	4	ELFN2	22	37769171	Nonsense_Mutation	SNP	C	TCGA-CJ-6031-01A-11D-1669-08		37769171	13535395	60	21720											
FRMPD4	9758	hgsc.bcm.edu;ucsc.edu	37	chrX	12736252	12736253	+	Frame_Shift_Ins	INS	-	-	A																															cactgaaggtgggatggctgINSaaaaaagtggattagaagca																								rs35659462		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		A	12736253	-	A	12736252	7	5	426	1	0	1	1	0	0	0	0	0	6059	1291	45	0	3369	0	FRMPD4	23	12736252	Frame_Shift_Ins	INS	-	TCGA-CJ-6031-01A-11D-1669-08		12736252	142534308	61	21721											
MAGEB3	4114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	30254882	30254882	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtggggtccaagagcccatGctgaaaccagcaagatgaag	13	6	13	9	0	0	4	0	2	0	2	1	4	1	4	3	2	4	2	3	2	4	0	novel		TCGA-CJ-6031-01A-11D-1669-08	TCGA-CJ-6031-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a47debc7-700e-4c64-a9b3-1113609a1ddf	7ab7544e-efbe-4520-a5ad-1bb251253877		C	30254882	G	C	30254882	3	2	426	1	0	0	0	0	1	0	0	0	9177	1319	46	4	843	4	MAGEB3	23	30254882	Missense_Mutation	SNP	G	TCGA-CJ-6031-01A-11D-1669-08	17518630	30254882	125015678	62	21722											
CPSF3L	54973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1250912	1250912	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgaccgtgtagaccacAgactctgagcccactttaat	11	9	7	14	1	1	4	0	2	1	2	1	4	1	4	4	0	1	1	4	0	2	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	1250912	A	C	1250912	2	2	427	1	0	0	0	0	0	0	0	1	3827	175	7	5		5	CPSF3L	1	1250912	Silent	SNP	A	TCGA-CJ-6032-01A-11D-1669-08		1250912	247999709	1	21723											
HMGN2	3151	hgsc.bcm.edu;ucsc.edu	37	chr1	26799998	26799998	+	Frame_Shift_Del	DEL	A	A	-																															aaggggatgctaagggagatAaagcaaaggtgaaggacgaa																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		-	26799998	A	-	26799998	7	5	427	1	0	1	0	1	0	0	0	0	7235	363	13	0	46	0	HMGN2	1	26799998	Frame_Shift_Del	DEL	A	TCGA-CJ-6032-01A-11D-1669-08	25549086	26799998	222450623	2	21724											
ARID1A	8289	broad.mit.edu;hgsc.bcm.edu	37	chr1	27094308	27094308	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcttctactacaaccaatGagaagatcaccaagttgtat	14	12	6	9	0	3	2	1	1	2	2	3	3	3	2	2	0	3	3	2	0	7	6	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	27094308	G	T	27094308	4	4	427	1	0	0	0	0	0	1	0	0	913	1291	45	4	3058	4	ARID1A	1	27094308	Nonsense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	294310	27094308	222156313	3	21725											
MATN1	4146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	31188992	31188992	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagggggaactcctggCgcacagagcttgagtactgc	9	6	14	12	1	0	2	0	1	0	1	1	4	1	3	2	3	4	3	2	3	2	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	31188992	C	T	31188992	3	4	427	1	0	0	0	0	1	0	0	0	9333	768	27	1	535	1	MATN1	1	31188992	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	4094684	31188992	218061629	4	21726											
PHC2	1912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33820614	33820614	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcagtgggacactggagtGgcagggcgggtgtaaccggg	7	6	21	7	2	0	0	0	0	0	0	0	2	0	2	1	7	1	3	1	7	1	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	33820614	G	T	33820614	3	4	427	1	0	0	0	0	1	0	0	0	11817	1348	47	4	1391	4	PHC2	1	33820614	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	2631622	33820614	215430007	5	21727											
KIAA0319L	79932	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35909816	35909816	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtctgccttttgcttccGcagctcactcttgagcatcg	7	13	8	13	2	3	1	1	1	2	0	5	1	4	1	2	0	4	4	2	0	1	4	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	35909816	G	A	35909816	3	1	427	1	0	0	0	0	1	0	0	0	8169	1086	38	1	567	1	KIAA0319L	1	35909816	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	2089202	35909816	213340805	6	21728											
SMAP2	64744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40872508	40872508	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatccagggtaaagtcagtTaacctcgaccagtggactca	13	9	9	10	1	2	0	2	0	0	0	4	2	3	1	3	2	1	2	3	2	4	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	40872508	T	A	40872508	2	1	427	1	0	0	0	0	0	0	0	1	14769	1741	61	5		5	SMAP2	1	40872508	Silent	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	4962692	40872508	208378113	7	21729											
IGSF3	3321	broad.mit.edu;hgsc.bcm.edu	37	chr1	117156509	117156509	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgccctggtcagaaggcTgcaggtggaagatggtgagg	9	8	17	7	1	1	3	1	1	0	2	2	4	1	4	1	6	1	2	1	6	2	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	117156509	T	C	117156509	3	2	427	1	0	0	0	0	1	0	0	0	7601	1580	55	3	2970	3	IGSF3	1	117156509	Missense_Mutation	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	76284001	117156509	132094112	8	21730											
ITGA10	8515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	145530386	145530386	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgtttattgacccagaaCagatacaggtaagagaaggc	16	8	10	7	0	0	4	0	1	0	3	0	5	0	4	1	2	3	2	1	2	6	5	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	145530386	C	T	145530386	4	4	427	1	0	0	0	0	0	1	0	0	7873	479	17	2	623	2	ITGA10	1	145530386	Nonsense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	28373877	145530386	103720235	9	21731											
APOB	338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	21229236	21229236	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcccgagaaagaaccgaacCcttgacatctcctttggtag	11	10	8	12	2	1	3	0	1	1	2	3	5	2	3	4	1	2	1	4	1	4	4	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	21229236	C	A	21229236	3	1	427	1	0	0	0	0	1	0	0	0	785	623	22	4	3203	4	APOB	2	21229236	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		21229236	221970137	10	21732											
SLC4A1AP	22950	broad.mit.edu;hgsc.bcm.edu	37	chr2	27908052	27908052	+	Frame_Shift_Del	DEL	G	G	-																															actggaggatggaagcctcaGtaggccacagccagagatag																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		-	27908052	G	-	27908052	7	5	427	1	0	1	0	1	0	0	0	0	14655	1029	36	0	2062	0	SLC4A1AP	2	27908052	Frame_Shift_Del	DEL	G	TCGA-CJ-6032-01A-11D-1669-08	6678816	27908052	215291321	11	21733	299	2									
SLC4A1AP	22950	hgsc.bcm.edu	37	chr2	27908054	27908054	+	Missense_Mutation	SNP	A	A	T																															tggaggatggaagcctcagtAggccacagccagagatagag																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	27908054	A	T	27908054	3	4	427	1	0	0	0	0	1	0	0	0	14655	411	15	5	2064	5	SLC4A1AP	2	27908054	Missense_Mutation	SNP	A	TCGA-CJ-6032-01A-11D-1669-08	2	27908054	215291319	12	21734	299	2									
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188308	10188308	+	Missense_Mutation	SNP	A	A	T																															gacagcctatttttgccaatAtcacactgccaggtactgac																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	10188308	A	T	10188308	3	4	427	1	0	0	0	0	1	0	0	0	17161	449	16	5	457	5	VHL	3	10188308	Missense_Mutation	SNP	A	TCGA-CJ-6032-01A-11D-1669-08		10188308	187834122	13	21735	300	2									
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188309	10188309	+	Missense_Mutation	SNP	T	A	A																															acagcctatttttgccaataTcacactgccaggtactgacg																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	10188309	A	A	10188309	3	1	427	1	0	0	0	0	1	0	0	0	17161	1435	50	5	458	5	VHL	3	10188309	Missense_Mutation	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	1	10188309	187834121	14	21736	300	2									
ECE2	9718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184001749	184001749	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctaccacaagatgagcatTtcggagctgcaggtggggca	11	8	13	9	1	1	2	0	1	1	1	2	3	1	3	1	4	4	4	1	4	2	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	184001749	T	A	184001749	2	1	427	1	0	0	0	0	0	0	0	1	4890	1829	64	5		5	ECE2	3	184001749	Silent	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	173813440	184001749	14020681	15	21737											
TBCCD1	55171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186276258	186276258	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagactgagatttgtttCtgggactgggccactcttcg	7	12	13	9	1	2	2	0	1	2	2	3	5	2	3	1	3	0	1	1	3	0	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	186276258	C	A	186276258	3	1	427	1	0	0	0	0	1	0	0	0	15631	913	32	4	1253	4	TBCCD1	3	186276258	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	2274509	186276258	11746172	16	21738											
FAM13A	10144	hgsc.bcm.edu	37	chr4	89772247	89772248	+	Frame_Shift_Ins	INS	-	-	T																															gcttttctataacttagccgINScaagctgagctgaggaatgc																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	89772248	-	T	89772247	7	5	427	1	0	1	1	0	0	0	0	0	5452	1086	38	0	2245	0	FAM13A	4	89772247	Frame_Shift_Ins	INS	-	TCGA-CJ-6032-01A-11D-1669-08		89772247	101382029	17	21739											
MTTP	4547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	100515934	100515934	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagcaggcccaagattgaTgtctggaaagcaggctgcag	12	6	14	9	1	1	2	0	1	1	1	1	4	1	3	1	3	3	4	1	3	3	1	rs146513720		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	100515934	T	C	100515934	3	2	427	1	0	0	0	0	1	0	0	0	9964	1464	51	3	829	3	MTTP	4	100515934	Missense_Mutation	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	10743687	100515934	90638342	18	21740											
HTR1A	3350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	63256620	63256620	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggggtaggaccagcctcGctgggcagaggcaagtgctc	9	5	16	11	1	0	1	0	0	0	1	2	2	0	2	2	5	2	5	2	5	3	1	rs140681943	alternate_allele	TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	63256620	G	T	63256620	3	4	427	1	0	0	0	0	1	0	0	0	7436	1078	38	4	344	4	HTR1A	5	63256620	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08		63256620	117658640	19	21741											
ODZ2	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	167645829	167645829	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtcgggacagcagtggcAtgccccgtcacctgctcatg	6	8	12	15	3	2	0	2	0	0	0	4	1	3	1	4	2	3	3	4	2	0	0	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	167645829	A	T	167645829	3	4	427	1	0	0	0	0	1	0	0	0	10835	217	8	5	4996	5	ODZ2	5	167645829	Missense_Mutation	SNP	A	TCGA-CJ-6032-01A-11D-1669-08	104389209	167645829	13269431	20	21742											
LTA	4049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31541279	31541279	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcttctcctcccagtacCccttccatgtgcctctcctc	4	13	4	20	0	3	0	0	0	3	0	8	0	5	0	7	0	3	2	7	0	1	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	31541279	C	G	31541279	3	3	427	1	0	0	0	0	1	0	0	0	9068	623	22	4	437	4	LTA	6	31541279	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		31541279	139573788	21	21743											
RXRB	6257	broad.mit.edu;hgsc.bcm.edu	37	chr6	33163381	33163381	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctactcctgctgaatgggCtgagttgcggtgcacgtgaa	7	11	13	10	2	0	3	0	3	0	0	2	3	2	3	2	2	4	4	2	2	3	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	33163381	C	T	33163381	3	4	427	1	0	0	0	0	1	0	0	0	13766	797	28	2	395	2	RXRB	6	33163381	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	1622102	33163381	137951686	22	21744											
KCNK17	89822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	39267378	39267378	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagagctgtggtggcagcagGaacataccctccctggcgtc	8	8	13	12	1	0	1	0	0	0	1	2	2	1	2	2	4	4	3	2	4	3	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	39267378	G	A	39267378	3	1	427	1	0	0	0	0	1	0	0	0	8064	1174	41	2	178	2	KCNK17	6	39267378	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	6103997	39267378	131847689	23	21745											
CUL9	23113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43173114	43173114	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcacctggaacccattatGgtcctttctggtctggaact	7	12	10	12	1	2	0	0	0	2	0	3	2	3	2	3	5	2	1	3	5	3	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	43173114	G	A	43173114	3	1	427	1	0	0	0	0	1	0	0	0	4061	1348	47	2	4836	2	CUL9	6	43173114	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	3905736	43173114	127941953	24	21746											
MLLT4	4301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	168344080	168344080	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacacctgtggatttgcctAggatggacgtctagctgcag	9	10	12	10	1	1	0	0	0	1	0	1	3	1	3	2	3	3	2	2	3	2	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	168344080	A	G	168344080	5	3	427	1	0	0	0	0	0	0	1	0	9629	434	15	3	3237	3	MLLT4	6	168344080	Splice_Site	SNP	A	TCGA-CJ-6032-01A-11D-1669-08	125170966	168344080	2770987	25	21747											
MAGI2	9863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	77885771	77885771	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcttcaggatcaaagggCaaagggtagccacgacacaa	14	5	13	9	1	3	0	2	0	1	0	3	2	3	1	1	4	1	2	1	4	4	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	77885771	C	A	77885771	3	1	427	1	0	0	0	0	1	0	0	0	9191	709	25	4	2883	4	MAGI2	7	77885771	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		77885771	81252892	26	21748											
EPPK1	83481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144943012	144943012	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tattcggagagcagcaggtcCcagagtgacacgctacaccc	11	6	11	13	2	0	3	0	1	0	2	2	4	1	3	2	2	3	3	2	2	2	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	144943012	C	T	144943012	4	4	427	1	0	0	0	0	0	1	0	0	5190	624	22	2	2856	2	EPPK1	8	144943012	Nonsense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		144943012	1421010	27	21749											
NDUFB6	4712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	32571039	32571039	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaagatactctttttgtaTaccccatggacctgggggga	11	11	10	9	0	1	1	0	0	1	1	1	3	1	3	3	4	2	1	3	4	4	5	rs146518353	by1000genomes	TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	32571039	T	C	32571039	2	2	427	1	0	0	0	0	0	0	0	1	10285	1393	49	3		3	NDUFB6	9	32571039	Silent	SNP	T	TCGA-CJ-6032-01A-11D-1669-08		32571039	108642392	28	21750											
OR1L1	26737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125424692	125424692	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gaagattccttcagctgctgGaaagcgtaaagcattttcta	12	12	9	8	1	2	1	1	0	1	1	3	3	3	2	1	1	4	4	1	1	5	6	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	125424692	G	C	125424692	3	2	427	1	0	0	0	0	1	0	0	0	10963	1174	41	4	700	4	OR1L1	9	125424692	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	92853653	125424692	15788739	29	21751											
QSER1	79832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	32953804	32953804	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagtcaattcaggcacaaCtgactggttcacagcactcc	11	8	7	15	0	3	1	3	1	0	0	4	1	4	1	2	2	2	3	2	2	2	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	32953804	C	T	32953804	2	4	427	1	0	0	0	0	0	0	0	1	12884	564	20	2		2	QSER1	11	32953804	Silent	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		32953804	102052712	30	21752											
MS4A6A	64231	broad.mit.edu;hgsc.bcm.edu	37	chr11	59949129	59949129	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgggttcgggtttctcTgcttgggagaagttgatgac	5	15	16	5	1	1	3	0	2	1	1	3	4	1	3	0	4	1	4	0	4	1	5	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	59949129	T	C	59949129	2	2	427	1	0	0	0	0	0	0	0	1	9864	1567	55	3		3	MS4A6A	11	59949129	Silent	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	26995325	59949129	75057387	31	21753											
TYR	7299	hgsc.bcm.edu;ucsc.edu	37	chr11	89017963	89017964	+	Frame_Shift_Ins	INS	-	-	G																															ttttgagcagtggctccgaaINSggcaccgtcctcttcaagaa																								novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	89017964	-	G	89017963	7	5	427	1	0	1	1	0	0	0	0	0	16812	63	3	0	1221	0	TYR	11	89017963	Frame_Shift_Ins	INS	-	TCGA-CJ-6032-01A-11D-1669-08	29068834	89017963	45988553	32	21754											
PVRL1	5818	broad.mit.edu	37	chr11	119510667	119510667	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgaggaacacggccacGgtgcccgccaggagcctggc	9	3	16	13	3	0	1	0	1	0	0	0	4	0	4	4	6	3	0	4	6	1	0	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	119510667	T	T	119510667	2	4	427	1	0	0	0	0	0	0	0	1	12841	1103	39	4		4	PVRL1	11	119510667	Silent	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	30492704	119510667	15495849	33	21755											
ABCC9	10060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	21991035	21991035	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcccgaatggtggtgagTccttctgctgtttctgagaa	8	12	13	8	1	2	2	0	2	2	1	3	4	3	2	2	3	1	2	2	3	3	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	21991035	T	A	21991035	2	1	427	1	0	0	0	0	0	0	0	1	59	1654	58	5		5	ABCC9	12	21991035	Silent	SNP	T	TCGA-CJ-6032-01A-11D-1669-08		21991035	111860860	34	21756											
FGD4	121512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32786521	32786521	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgactacaaagctcaactTgaatatgatggtggtaaatt	14	12	8	7	1	1	2	1	2	0	0	2	3	2	2	1	2	3	2	1	2	7	5	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	32786521	T	G	32786521	2	3	427	1	0	0	0	0	0	0	0	1	5835	1799	63	5		5	FGD4	12	32786521	Silent	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	10795486	32786521	101065374	35	21757											
C12orf40	283461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	40041619	40041619	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatggactcatatagtaTgcttcaccctcagttcagca	11	11	8	11	0	4	0	4	0	0	0	4	1	4	1	1	2	2	5	1	2	3	5	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	40041619	T	A	40041619	3	1	427	1	0	0	0	0	1	0	0	0	1686	1464	51	5	432	5	C12orf40	12	40041619	Missense_Mutation	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	7255098	40041619	93810276	36	21758											
CNTN1	1272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	41422971	41422971	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatacgttgtggaggttcGcgcgcacagtgatggaggag	10	8	17	6	4	0	2	0	1	0	1	1	5	0	5	0	4	1	3	0	4	2	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	41422971	G	A	41422971	3	1	427	1	0	0	0	0	1	0	0	0	3640	1087	38	1	3016	1	CNTN1	12	41422971	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	1381352	41422971	92428924	37	21759											
TRPC4	7223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	38357212	38357212	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaaagcttaagagtagttCgatgagctccaagttctcat	13	13	8	7	1	1	2	1	1	1	1	4	3	2	2	1	0	2	5	1	0	5	5	rs140628205		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	38357212	C	T	38357212	3	4	427	1	0	0	0	0	1	0	0	0	16579	893	31	1	2729	1	TRPC4	13	38357212	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		38357212	76812666	38	21760											
AKAP6	9472	broad.mit.edu	37	chr14	33243070	33243070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgtccagtggcaaacaCgtctacaaaagaagatggga	16	5	11	9	2	1	2	0	0	1	2	2	3	2	3	2	2	3	1	2	2	6	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	33243070	T	T	33243070	3	4	427	1	0	0	0	0	1	0	0	0	455	536	19	1	3601	1	AKAP6	14	33243070	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		33243070	74106470	39	21761											
PSMA6	5687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	35761756	35761756	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagggtcggctctaccaagTaggtgagtgaaccaggttcg	9	8	15	9	3	1	2	0	2	1	0	3	3	1	2	2	4	2	3	2	4	4	3	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	35761756	T	C	35761756	3	2	427	1	0	0	0	0	1	0	0	0	12673	1638	57	3	76	3	PSMA6	14	35761756	Missense_Mutation	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	2518686	35761756	71587784	40	21762											
FAM96A	84191	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	64380992	64380992	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacacaactttccgagacCacttccagttcttctaaagt	11	12	4	14	1	2	1	0	0	2	1	5	2	5	1	4	0	1	1	4	0	3	5	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		A	64380992	C	A	64380992	2	1	427	1	0	0	0	0	0	0	0	1	5654	581	21	4		4	FAM96A	15	64380992	Silent	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		64380992	38150400	41	21763											
ABHD2	11057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89731484	89731484	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggaagacacggacttgagCcggctctacacagcaacatc	12	6	10	13	2	1	2	0	1	1	1	2	4	1	4	1	3	4	2	1	3	3	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	89731484	C	G	89731484	3	3	427	1	0	0	0	0	1	0	0	0	82	738	26	4	898	4	ABHD2	15	89731484	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	25350492	89731484	12799908	42	21764											
CACNA1H	8912	broad.mit.edu;hgsc.bcm.edu	37	chr16	1260841	1260841	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctgcagagcagctggAacctgctggatgggctgctg	7	8	14	12	0	0	1	0	0	0	1	0	3	0	3	3	3	7	6	3	3	2	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	1260841	A	T	1260841	3	4	427	1	0	0	0	0	1	0	0	0	2545	246	9	5	4171	5	CACNA1H	16	1260841	Missense_Mutation	SNP	A	TCGA-CJ-6032-01A-11D-1669-08		1260841	89093912	43	21765											
TUSC5	286753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	1198811	1198811	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagcatgcaacagggcaaCgtggacggcgcccggaggct	10	3	16	12	4	0	0	0	0	0	0	0	2	0	2	1	5	5	5	1	5	2	0	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	1198811	C	T	1198811	2	4	427	1	0	0	0	0	0	0	0	1	16778	535	19	1		1	TUSC5	17	1198811	Silent	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		1198811	79996399	44	21766											
ALKBH5	54890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18111566	18111566	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagatggacaaggaagagaaCcggcgctcggtgctgctgcc	10	5	16	10	3	0	2	0	0	0	2	1	6	0	4	2	4	4	3	2	4	3	0	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	18111566	C	T	18111566	2	4	427	1	0	0	0	0	0	0	0	1	530	506	18	2		2	ALKBH5	17	18111566	Silent	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	16912755	18111566	63083644	45	21767											
POLDIP2	26073	hgsc.bcm.edu	37	chr17	26684392	26684392	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggccgccgcacagagcggcTttgccaccgggccccagtca	6	4	13	18	5	1	1	1	0	0	1	1	1	1	1	6	3	2	2	6	3	0	1	rs55887815		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	26684392	T	C	26684392	3	2	427	1	0	0	0	0	1	0	0	0	12194	1609	56	3	1067	3	POLDIP2	17	26684392	Missense_Mutation	SNP	T	TCGA-CJ-6032-01A-11D-1669-08	8572826	26684392	54510818	46	21768											
KRTAP1-3	81850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39191063	39191063	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacagaagctggtctggCagcaggtcatggtgttggga	9	9	15	8	0	2	1	1	0	1	1	3	2	3	2	1	5	2	4	1	5	1	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	39191063	C	G	39191063	3	3	427	1	0	0	0	0	1	0	0	0	8503	710	25	4	496	4	KRTAP1-3	17	39191063	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08	12506671	39191063	42004147	47	21769											
LIPE	3991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42907058	42907058	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagcgacatctcgggggtgtCcgacgacgtctcggagtttc	6	9	14	12	6	2	0	0	0	2	0	6	4	3	1	1	3	1	1	1	3	0	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	42907058	C	T	42907058	3	4	427	1	0	0	0	0	1	0	0	0	8821	855	30	2	570	2	LIPE	19	42907058	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		42907058	16221925	48	21770											
ZNF528	84436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52918551	52918551	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcagtttcaccgcttgAaaaaatttcttccagtgtca	10	15	5	11	1	4	1	3	1	1	0	6	1	6	1	3	0	0	2	3	0	3	5	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	52918551	A	G	52918551	3	3	427	1	0	0	0	0	1	0	0	0	17968	246	9	3	460	3	ZNF528	19	52918551	Missense_Mutation	SNP	A	TCGA-CJ-6032-01A-11D-1669-08	10011493	52918551	6210432	49	21771											
NAPB	63908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	23377799	23377799	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgcatgtggagcttggCtgcctgacaaaatgcgtttc	9	11	12	9	1	0	1	0	1	0	0	1	2	0	2	1	2	5	5	1	2	3	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		G	23377799	C	G	23377799	3	3	427	1	0	0	0	0	1	0	0	0	10162	797	28	4	727	4	NAPB	20	23377799	Missense_Mutation	SNP	C	TCGA-CJ-6032-01A-11D-1669-08		23377799	39647721	50	21772											
KLHL34	257240	broad.mit.edu;hgsc.bcm.edu	37	chrX	21674907	21674907	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgaaggccaccacgttctGggtgagctcccactcctcct	7	9	9	16	2	1	1	0	1	1	0	5	2	4	1	5	2	1	2	5	2	1	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	21674907	G	T	21674907	3	4	427	1	0	0	0	0	1	0	0	0	8387	1357	47	4	938	4	KLHL34	23	21674907	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08		21674907	133595653	51	21773											
CYSLTR1	10800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	77528390	77528390	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcaaagcaacaattggatGcagccagagacaaggttatg	15	7	12	7	0	1	1	1	0	0	1	1	3	1	2	1	3	4	3	1	3	5	2	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		T	77528390	G	T	77528390	3	4	427	1	0	0	0	0	1	0	0	0	4201	1319	46	4	163	4	CYSLTR1	23	77528390	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	55853483	77528390	77742170	52	21774											
TKTL1	8277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	153524232	153524232	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggcggatgctgaggcgaGggctgagttcccggaggagg	8	6	20	7	3	0	2	0	2	0	0	1	6	1	5	1	7	1	3	1	7	1	1	novel		TCGA-CJ-6032-01A-11D-1669-08	TCGA-CJ-6032-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	8c9823f0-69af-474d-adb7-5ec8ef4e5af7	d060b91c-6151-496a-bd87-d88c1fae20ea		C	153524232	G	C	153524232	3	2	427	1	0	0	0	0	1	0	0	0	15934	1000	35	4	22	4	TKTL1	23	153524232	Missense_Mutation	SNP	G	TCGA-CJ-6032-01A-11D-1669-08	75995842	153524232	1746328	53	21775											
MXRA8	54587	broad.mit.edu	37	chr1	1289294	1289294	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgccctctccttcaggaTgttgtttttgtaatctgtgg	4	17	9	11	1	3	0	1	0	2	0	5	1	4	1	3	2	0	3	3	2	1	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	1289294	A	A	1289294	3	1	428	1	0	0	0	0	1	0	0	0	10005	1464	51	5	99	5	MXRA8	1	1289294	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08		1289294	247961327	1	21776											
NPPB	4879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11918768	11918768	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgctctcacctgtaacccGgacgtttccaagtccgaggc	7	9	9	16	4	1	0	1	0	1	0	5	2	4	1	5	2	1	3	5	2	2	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	11918768	G	A	11918768	2	1	428	1	0	0	0	0	0	0	0	1	10592	1103	39	1		1	NPPB	1	11918768	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	10629474	11918768	237331853	2	21777											
AKR7L	246181	hgsc.bcm.edu	37	chr1	19597275	19597275	+	Frame_Shift_Del	DEL	C	C	-																															tggtggcaggcacgcagtgtCtcttccaccggggcgctgtg																								rs140586925		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		-	19597275	C	-	19597275	7	5	428	1	0	1	0	1	0	0	0	0	477	912	32	0	650	0	AKR7L	1	19597275	Frame_Shift_Del	DEL	C	TCGA-CJ-6033-01A-11D-1669-08	7678507	19597275	229653346	3	21778											
MED18	54797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28661233	28661233	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgggcttccgcatggacCatgagtttgttgctaaggga	10	11	13	7	1	0	1	0	1	0	0	1	3	1	3	2	3	1	5	2	3	2	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	28661233	C	G	28661233	3	3	428	1	0	0	0	0	1	0	0	0	9436	594	21	4	385	4	MED18	1	28661233	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	9063958	28661233	220589388	4	21779											
YTHDF2	51441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	29069170	29069170	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttctttcccagtgggattGacttctcagcatggggaaat	9	14	10	8	0	2	1	1	1	2	0	4	3	3	3	1	3	1	1	1	3	1	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	29069170	G	A	29069170	3	1	428	1	0	0	0	0	1	0	0	0	17498	1290	45	2	402	2	YTHDF2	1	29069170	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	407937	29069170	220181451	5	21780											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39715714	39715714	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatcaatgatctttatgAagatctgcgggatggccata	12	11	10	8	1	3	3	1	2	2	1	3	4	3	4	1	2	1	1	1	2	4	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	39715714	A	G	39715714	3	3	428	1	0	0	0	0	1	0	0	0	9144	246	9	3	321	3	MACF1	1	39715714	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	10646544	39715714	209534907	6	21781											
MSH4	4438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	76269428	76269428	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaatttaggttcatactttgGaaacaaaagagcttatgcag	16	12	8	5	0	1	1	1	0	0	1	1	2	1	2	0	2	4	3	0	2	7	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	76269428	G	T	76269428	3	4	428	1	0	0	0	0	1	0	0	0	9872	1174	41	4	263	4	MSH4	1	76269428	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	36553714	76269428	172981193	7	21782											
COL24A1	255631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	86289366	86289366	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaataatgctttcaaaacatActgggggtccttgttgtcca	12	13	8	8	0	1	0	1	0	0	0	3	0	3	0	2	2	3	2	2	2	5	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	86289366	A	G	86289366	5	3	428	1	0	0	0	0	0	0	1	0	3683	405	14	3	1475	3	COL24A1	1	86289366	Splice_Site	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	10019938	86289366	162961255	8	21783											
ACP6	51205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	147124277	147124277	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttgggcagtatgtacaAggatgtgtccacagctctct	8	13	10	10	0	1	0	0	0	1	0	4	1	3	1	2	2	2	4	2	2	3	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	147124277	A	G	147124277	2	3	428	1	0	0	0	0	0	0	0	1	165	69	3	3		3	ACP6	1	147124277	Silent	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	60834911	147124277	102126344	9	21784											
CENPF	1063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	214818566	214818566	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgtgaagatattggagatAatgtggccaaggtgaatgac	14	9	13	5	1	0	5	0	3	0	2	0	6	0	5	1	3	0	0	1	3	5	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	214818566	A	T	214818566	3	4	428	1	0	0	0	0	1	0	0	0	3231	362	13	5	5699	5	CENPF	1	214818566	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	67694289	214818566	34432055	10	21785											
AGT	183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	230839961	230839961	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccccaccctgatgcggtcaTtgctcaatttttgcaggttc	6	13	8	14	1	2	1	2	1	0	0	3	1	2	1	3	2	3	3	3	2	1	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	230839961	T	C	230839961	3	2	428	1	0	0	0	0	1	0	0	0	399	1493	52	3	218	3	AGT	1	230839961	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	16021395	230839961	18410660	11	21786											
STRN	6801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	37088370	37088370	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacactgctcaccattgctgCtcattaccacacaaagcact	13	9	4	15	0	2	0	2	0	0	0	2	0	2	0	2	0	6	4	2	0	3	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	37088370	C	T	37088370	3	4	428	1	0	0	0	0	1	0	0	0	15330	797	28	2	792	2	STRN	2	37088370	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		37088370	206111003	12	21787											
GALNT13	114805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	155295210	155295210	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaaatgccaccatatgagagGaaatcagttatgggaatatg	17	9	10	5	0	1	1	1	1	0	1	1	4	1	3	2	2	1	1	2	2	7	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	155295210	G	C	155295210	3	2	428	1	0	0	0	0	1	0	0	0	6211	1174	41	4	1540	4	GALNT13	2	155295210	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	118206840	155295210	87904163	13	21788											
XIRP2	129446	hgsc.bcm.edu;ucsc.edu	37	chr2	168101553	168101553	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctataagttctagttcagaGgaagttttgaaaaagatcaa	16	13	8	4	0	4	3	2	1	2	2	4	4	4	4	0	1	0	3	0	1	7	7	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	168101553	G	C	168101553	3	2	428	1	0	0	0	0	1	0	0	0	17429	991	35	4	3681	4	XIRP2	2	168101553	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	12806343	168101553	75097820	14	21789											
USP40	55230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234429716	234429716	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaacgtggagccagtcaAtctcattcatactagtgacc	11	13	7	10	1	3	1	3	1	1	0	4	2	3	2	2	1	3	0	2	1	4	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	234429716	A	C	234429716	3	2	428	1	0	0	0	0	1	0	0	0	17071	101	4	5	1528	5	USP40	2	234429716	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	66328163	234429716	8769657	15	21790											
SH3BP4	23677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	235950115	235950115	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagagccgccggtcaggcgGgacaaccccttcttcagaag	9	5	13	14	3	3	2	2	0	1	2	3	3	3	3	4	3	2	1	4	3	2	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	235950115	G	A	235950115	2	1	428	1	0	0	0	0	0	0	0	1	14248	1219	43	2		2	SH3BP4	2	235950115	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	1520399	235950115	7249258	16	21791											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188290	10188290	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctctcaatgttgacggaCagcctatttttgccaatatc	10	14	6	11	1	2	1	1	1	1	0	4	2	2	2	2	1	2	1	2	1	4	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	10188290	T	T	10188290	4	4	428	1	0	0	0	0	0	1	0	0	17161	479	17	2	439	2	VHL	3	10188290	Nonsense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		10188290	187834140	17	21792											
TRANK1	9881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	36899166	36899166	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcactgacttgaatgaacCctgggacttgagctgagatg	10	10	13	8	0	0	5	0	5	0	1	0	7	0	6	1	2	2	2	1	2	2	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	36899166	C	T	36899166	3	4	428	1	0	0	0	0	1	0	0	0	16453	623	22	2	6910	2	TRANK1	3	36899166	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	26710876	36899166	161123264	18	21793											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu	37	chr3	52610715	52610715	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaacccatactttttcaattCttggggaggaaaatatataa	15	13	7	6	0	2	0	1	0	1	0	2	3	2	2	1	3	2	0	1	3	8	8	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	52610715	C	G	52610715	5	3	428	1	0	0	0	0	0	0	1	0	11491	927	32	4	1403	4	PBRM1	3	52610715	Splice_Site	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	15711549	52610715	145411715	19	21794											
MYLK	4638	broad.mit.edu	37	chr3	123376191	123376191	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacagcactgcccccatcaTatgaggagccataccaggac	12	6	9	14	0	1	1	1	1	0	0	1	3	1	3	4	2	5	2	4	2	3	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	123376191	A	A	123376191	3	1	428	1	0	0	0	0	1	0	0	0	10056	1406	49	5	1718	5	MYLK	3	123376191	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	70765476	123376191	74646239	20	21795											
PLXND1	23129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	129276046	129276046	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaatctccttggcgtagagGagcttgttggttggcgaatc	7	12	15	7	2	1	1	0	0	1	1	3	4	1	3	1	5	1	4	1	5	3	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	129276046	G	T	129276046	2	4	428	1	0	0	0	0	0	0	0	1	12127	1161	41	4		4	PLXND1	3	129276046	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	5899855	129276046	68746384	21	21796											
PLOD2	5352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	145799589	145799589	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtatccatcaggactcaAtgctccccagaaattggacc	13	9	7	12	0	2	1	2	0	0	1	4	3	4	3	4	2	1	2	4	2	4	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	145799589	A	T	145799589	3	4	428	1	0	0	0	0	1	0	0	0	12102	98	4	5	1018	5	PLOD2	3	145799589	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	16523543	145799589	52222841	22	21797											
VEPH1	79674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	157031465	157031465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcaaagctgtgagcacccCctgcctgggtcttctcccac	6	11	8	16	0	3	1	1	1	2	0	4	1	3	1	4	1	3	2	4	1	1	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	157031465	C	T	157031465	3	4	428	1	0	0	0	0	1	0	0	0	17153	623	22	2	562	2	VEPH1	3	157031465	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	11231876	157031465	40990965	23	21798											
FNDC3B	64778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	172060897	172060897	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagcacaaagaagtccacTtagagtggggtgagtgaact	15	7	12	7	0	0	4	0	2	0	2	1	4	1	4	1	2	2	1	1	2	5	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	172060897	T	G	172060897	3	3	428	1	0	0	0	0	1	0	0	0	5970	1606	56	5	2134	5	FNDC3B	3	172060897	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	15029432	172060897	25961533	24	21799											
PIK3CA	5290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003	bycluster	TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	178936091	G	A	178936091	3	1	428	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	6875194	178936091	19086339	25	21800											
GPR78	27201	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8588871	8588871	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaaggcggtggccgacccGttcacgtactctctgctccg	6	8	12	15	5	2	0	1	0	1	0	4	1	3	0	3	3	3	4	3	3	2	2	rs148589120		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	8588871	G	A	8588871	2	1	428	1	0	0	0	0	0	0	0	1	6710	1132	40	1		1	GPR78	4	8588871	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		8588871	182565405	26	21801											
RBM46	166863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	155719349	155719349	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttatccaagtgcaactgatAagaccaaaaatcgtggtttt	14	13	7	7	1	0	2	0	1	0	1	2	2	1	2	2	1	2	2	2	1	6	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	155719349	A	G	155719349	3	3	428	1	0	0	0	0	1	0	0	0	13142	363	13	3	544	3	RBM46	4	155719349	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	147130478	155719349	35434927	27	21802											
FAT1	2195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	187538911	187538911	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcttcagaatcagcatcCgtggtacttaagatggcaat	12	12	8	9	1	3	2	2	0	1	2	5	2	4	2	1	2	2	3	1	2	4	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	187538911	C	A	187538911	2	1	428	1	0	0	0	0	0	0	0	1	5689	639	23	4		4	FAT1	4	187538911	Silent	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	31819562	187538911	3615365	28	21803											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu	37	chr5	32000300	32000300	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taatcaatggtcatttactgGtcgggctctcccacgaggaa	10	11	10	10	2	3	0	2	0	1	0	5	2	3	1	1	4	1	1	1	4	4	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	32000300	G	A	32000300	3	1	428	1	0	0	0	0	1	0	0	0	11701	1261	44	2	1191	2	PDZD2	5	32000300	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		32000300	148914960	29	21804											
NNT	23530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43615986	43615986	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaatccaacattaggtgttCatgaagctgaccttttaaag	13	14	7	7	0	1	2	1	2	0	0	2	2	2	2	2	1	2	2	2	1	6	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	43615986	C	T	43615986	3	4	428	1	0	0	0	0	1	0	0	0	10510	826	29	2	428	2	NNT	5	43615986	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	11615686	43615986	137299274	30	21805											
ISL1	3670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	50685733	50685733	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcgaagcatcatgatgaaGcaactccagcagcagcagcc	15	4	10	12	1	1	2	1	2	0	0	2	3	2	2	2	0	8	5	2	0	4	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	50685733	G	A	50685733	2	1	428	1	0	0	0	0	0	0	0	1	7856	962	34	2		2	ISL1	5	50685733	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	7069747	50685733	130229527	31	21806											
CHSY3	337876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	129520719	129520719	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cacattctcgttcctctcatCggaaggtatgacattttctt	8	16	6	11	2	3	1	1	1	3	0	7	2	4	2	1	2	0	2	1	2	2	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	129520719	C	G	129520719	3	3	428	1	0	0	0	0	1	0	0	0	3413	874	31	4	1894	4	CHSY3	5	129520719	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	78834986	129520719	51394541	32	21807											
NDST1	3340	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	149932854	149932854	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtataagatgggccagacacTtcccacttggctacgagagg	11	8	12	10	1	0	3	0	0	0	3	1	4	1	3	2	3	1	2	2	3	3	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	149932854	T	C	149932854	3	2	428	1	0	0	0	0	1	0	0	0	10255	1609	56	3	2663	3	NDST1	5	149932854	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	20412135	149932854	30982406	33	21808											
BNIP1	662	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	172578593	172578593	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctctatcaaagggcatttAtttggactgcttccacattt	9	17	6	9	0	2	0	1	0	1	0	4	1	3	1	1	2	1	2	1	2	3	7	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	172578593	A	T	172578593	3	4	428	1	0	0	0	0	1	0	0	0	1476	449	16	5	212	5	BNIP1	5	172578593	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	22645739	172578593	8336667	34	21809											
SOX4	6659	broad.mit.edu;hgsc.bcm.edu	37	chr6	21595027	21595027	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcccgacatgcacaacgccGagatctccaagcggctgggc	9	4	12	16	5	1	1	0	0	1	1	2	3	1	1	3	2	3	2	3	2	2	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	21595027	G	A	21595027	3	1	428	1	0	0	0	0	1	0	0	0	14955	1059	37	1	264	1	SOX4	6	21595027	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		21595027	149520040	35	21810											
NEU1	4758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31828358	31828358	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgctccagcgtcccatggCcacacacgatgaggcggccc	7	4	11	19	4	0	1	0	1	0	0	2	2	2	1	5	3	1	1	5	3	0	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	31828358	C	T	31828358	3	4	428	1	0	0	0	0	1	0	0	0	10341	739	26	2	603	2	NEU1	6	31828358	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	10233331	31828358	139286709	36	21811											
CREB5	9586	broad.mit.edu	37	chr7	28610069	28610069	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcggctgcccaaccatgaCaccaacgttgtgattcagca	10	8	9	14	2	1	2	1	2	0	0	2	2	1	2	3	1	4	4	3	1	2	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	28610069	T	T	28610069	2	4	428	1	0	0	0	0	0	0	0	1	3860	477	17	2		2	CREB5	7	28610069	Silent	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		28610069	130528594	37	21812											
SAMD9	54809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92734661	92734661	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggtatcattggtgactttGatgccaacaattttcccatg	9	16	8	8	0	1	2	1	2	0	0	2	2	2	2	2	2	2	1	2	2	3	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	92734661	G	A	92734661	2	1	428	1	0	0	0	0	0	0	0	1	13828	1280	45	2		2	SAMD9	7	92734661	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	64124592	92734661	66404002	38	21813											
POP7	10248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100304462	100304462	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcacacagcatggcagaAaaccgagagccccgcggtgc	12	2	14	13	3	0	2	0	0	0	2	0	3	0	2	3	3	4	3	3	3	2	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	100304462	A	C	100304462	3	2	428	1	0	0	0	0	1	0	0	0	12254	11	1	5	11	5	POP7	7	100304462	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	7569801	100304462	58834201	39	21814											
DLD	1738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	107556003	107556003	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacagcagttgaatttttagGtcatgtaggtggagttggaa	11	13	14	3	0	1	1	1	1	0	0	1	4	1	3	0	4	1	4	0	4	4	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	107556003	G	C	107556003	3	2	428	1	0	0	0	0	1	0	0	0	4551	1261	44	4	771	4	DLD	7	107556003	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	7251541	107556003	51582660	40	21815											
WDR91	29062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134889161	134889161	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgactgggagagggaggcAttcctttggctgcacaccat	8	9	15	9	0	0	2	0	1	0	1	1	4	1	3	2	5	1	3	2	5	0	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	134889161	A	G	134889161	2	3	428	1	0	0	0	0	0	0	0	1	17337	214	8	3		3	WDR91	7	134889161	Silent	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	27333158	134889161	24249502	41	21816											
VCPIP1	80124	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67546928	67546928	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccagttaaaggaaaagaTtcaggcaaaccagtctgaag	17	6	9	9	0	2	2	1	1	1	1	2	3	2	3	3	2	1	2	3	2	6	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	67546928	T	C	67546928	2	2	428	1	0	0	0	0	0	0	0	1	17140	1490	52	3		3	VCPIP1	8	67546928	Silent	SNP	T	TCGA-CJ-6033-01A-11D-1669-08		67546928	78817094	42	21817											
OSGIN2	734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	90937536	90937536	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagggtgttacctaggccatAagtcaagccagccaatcaca	14	7	9	11	0	2	0	2	0	0	0	2	0	2	0	4	2	3	1	4	2	6	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	90937536	A	G	90937536	3	3	428	1	0	0	0	0	1	0	0	0	11290	363	13	3	1448	3	OSGIN2	8	90937536	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	23390608	90937536	55426486	43	21818											
PTK2	5747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141712777	141712777	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgccagccatggctgtGattccatgtgaaccagggta	9	10	12	10	0	0	2	0	2	0	0	1	2	1	2	4	2	4	3	4	2	2	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	141712777	G	T	141712777	2	4	428	1	0	0	0	0	0	0	0	1	12764	1280	45	4		4	PTK2	8	141712777	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	50775241	141712777	4651245	44	21819											
EPPK1	83481	broad.mit.edu;hgsc.bcm.edu	37	chr8	144941623	144941623	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaacccggtggcggcctgCgcctccagcagccaagtcgc	7	4	14	16	4	0	0	0	0	0	0	2	1	1	1	5	4	4	1	5	4	2	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	144941623	C	A	144941623	2	1	428	1	0	0	0	0	0	0	0	1	5190	755	27	4		4	EPPK1	8	144941623	Silent	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	3228846	144941623	1422399	45	21820											
KIAA1432	57589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	5763502	5763502	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgtggagagaacctctcaGatctacctccaccacattct	10	11	7	13	0	3	2	1	0	3	2	5	4	4	3	4	1	2	1	4	1	2	3	rs149258225		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	5763502	G	A	5763502	2	1	428	1	0	0	0	0	0	0	0	1	8233	933	33	2		2	KIAA1432	9	5763502	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		5763502	135449929	46	21821											
IFNA14	3448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	21239700	21239700	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatcatctcatggaggaCagagatggcttgagctttct	9	12	11	9	0	3	2	2	1	2	1	4	5	3	4	0	3	2	3	0	3	0	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	21239700	C	A	21239700	3	1	428	1	0	0	0	0	1	0	0	0	7534	478	17	4	338	4	IFNA14	9	21239700	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	15476198	21239700	119973731	47	21822											
GALT	2592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34649524	34649524	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatggttggctacgaaaTgcttgctcaggctcagaggg	9	11	13	8	1	3	1	3	0	0	1	3	2	3	1	0	4	3	5	0	4	2	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	34649524	T	C	34649524	3	2	428	1	0	0	0	0	1	0	0	0	6230	1464	51	3	1060	3	GALT	9	34649524	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	13409824	34649524	106563907	48	21823											
DNAJC25	548645	broad.mit.edu;hgsc.bcm.edu	37	chr9	114411754	114411754	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcagctggtggaatagcTacaataaggcaatcagctac	13	11	9	8	0	2	0	2	0	0	0	2	1	2	1	0	3	5	4	0	3	7	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	114411754	T	C	114411754	3	2	428	1	0	0	0	0	1	0	0	0	4643	1522	53	3	521	3	DNAJC25	9	114411754	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	79762230	114411754	26801677	49	21824											
ZNF883	169834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	115759684	115759684	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtttcacacaagaatgaaTttttagatgttcagtaaggt	13	14	10	4	0	2	3	2	1	0	2	2	3	2	3	0	2	0	3	0	2	5	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	115759684	T	G	115759684	3	3	428	1	0	0	0	0	1	0	0	0	18197	1493	52	5	285	5	ZNF883	9	115759684	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	1347930	115759684	25453747	50	21825											
FRMPD2	143162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	49459680	49459680	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatttcctcctcagacagaGcttcacccctgacctgtagg	9	10	8	14	0	2	4	2	1	0	3	4	4	4	4	5	1	1	2	5	1	1	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	49459680	G	C	49459680	3	2	428	1	0	0	0	0	1	0	0	0	6058	971	34	4	3961	4	FRMPD2	10	49459680	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		49459680	86075067	51	21826											
IFIT2	3433	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	91066668	91066668	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactggaactaataggacacGctgtggctcatctgaagaaa	14	9	10	8	1	2	2	1	1	1	1	2	4	2	4	0	3	2	2	0	3	6	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	91066668	G	T	91066668	3	4	428	1	0	0	0	0	1	0	0	0	7523	1087	38	4	961	4	IFIT2	10	91066668	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	41606988	91066668	44468079	52	21827											
KDM2A	22992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67017906	67017906	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcgtacctcactgtcaCgctacagaggcccaccaaag	11	6	10	14	2	2	1	2	0	0	1	3	2	2	2	3	2	2	2	3	2	3	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	67017906	C	T	67017906	3	4	428	1	0	0	0	0	1	0	0	0	8124	536	19	1	2467	1	KDM2A	11	67017906	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		67017906	67988610	53	21828											
MRE11A	4361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94169018	94169018	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgatctgtctttgaagtGgtaggaaaaatgtcttcttc	9	17	9	6	0	4	2	0	2	4	0	5	3	4	3	0	2	0	1	0	2	4	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	94169018	G	A	94169018	2	1	428	1	0	0	0	0	0	0	0	1	9759	1335	47	2		2	MRE11A	11	94169018	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	27151112	94169018	40837498	54	21829											
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117647629	117647629	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacctttgatcctccacccGgacggtgtagggttccctga	6	11	11	13	2	0	3	0	3	0	0	3	4	3	4	5	3	0	2	5	3	1	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	117647629	G	T	117647629	2	4	428	1	0	0	0	0	0	0	0	1	4769	1115	39	4		4	DSCAML1	11	117647629	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	23478611	117647629	17358887	55	21830											
ACSS3	79611	broad.mit.edu;ucsc.edu	37	chr12	81647354	81647354	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggccctgtggctgcttttCgaaatgcagtgtttgtcaaa	7	15	11	8	1	1	0	1	0	0	0	2	1	1	0	1	2	2	4	1	2	2	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	81647354	T	T	81647354	4	4	428	1	0	0	0	0	0	1	0	0	190	876	31	1	1958	1	ACSS3	12	81647354	Nonsense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		81647354	52204541	56	21831											
ISCU	23479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108960983	108960983	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtggaggaagccttgacTatcaaaaacacagatatcgc	15	7	10	9	1	1	2	1	1	0	1	2	4	1	4	1	3	2	0	1	3	5	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	108960983	T	C	108960983	2	2	428	1	0	0	0	0	0	0	0	1	7852	1509	53	3		3	ISCU	12	108960983	Silent	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	27313629	108960983	24890912	57	21832											
HIF1A	3091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	62187224	62187224	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacataatgtgagttcgcatCttgataaggcctctgtgatg	10	13	10	8	1	2	3	0	3	2	0	3	3	2	3	1	1	0	2	1	1	2	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	62187224	C	A	62187224	3	1	428	1	0	0	0	0	1	0	0	0	7103	913	32	4	166	4	HIF1A	14	62187224	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		62187224	45162316	58	21833											
SLC8A3	6547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	70633462	70633462	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaggggacgatgactgtacCccgggcacctgatgtccgca	10	6	13	12	3	0	2	0	2	0	0	1	4	1	3	4	3	1	3	4	3	2	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	70633462	C	T	70633462	3	4	428	1	0	0	0	0	1	0	0	0	14710	623	22	2	1244	2	SLC8A3	14	70633462	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	8446238	70633462	36716078	59	21834											
NGB	58157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77733013	77733013	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagagactcacccactgTctgcagaggcaaggggcacc	11	4	13	13	0	2	2	1	0	1	2	2	4	2	2	2	3	2	4	2	3	1	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	77733013	T	A	77733013	3	1	428	1	0	0	0	0	1	0	0	0	10392	1681	58	5	137	5	NGB	14	77733013	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	7099551	77733013	29616527	60	21835											
SLC12A6	9990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34547536	34547536	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagataaaagcagaggccaAcagccccaccaaactctggg	16	3	9	13	0	1	2	0	0	1	2	1	2	1	2	4	2	4	1	4	2	5	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	34547536	A	G	34547536	3	3	428	1	0	0	0	0	1	0	0	0	14389	43	2	3	2725	3	SLC12A6	15	34547536	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08		34547536	67983856	61	21836											
DUOXA2	405753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45408398	45408398	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccttcagcgcagcgcgCgttacagcccgtgtccgtct	7	8	11	15	6	2	0	1	0	1	0	3	0	3	0	3	0	5	2	3	0	2	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	45408398	C	T	45408398	2	4	428	1	0	0	0	0	0	0	0	1	4803	755	27	1		1	DUOXA2	15	45408398	Silent	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	10860862	45408398	57122994	62	21837											
RLBP1	6017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89760467	89760467	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggccaccgccagctcctccCccgaggccgcctgcgcctgc	3	4	11	23	5	0	0	0	0	0	0	2	1	2	0	9	2	3	1	9	2	0	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	89760467	C	T	89760467	3	4	428	1	0	0	0	0	1	0	0	0	13390	623	22	2	743	2	RLBP1	15	89760467	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	44352069	89760467	12770925	63	21838											
ATP2C2	9914	hgsc.bcm.edu	37	chr16	84497252	84497252	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactggattggcctcatccGtcttcattttgtcagagctc	7	15	8	11	1	4	1	3	0	1	1	6	2	5	2	2	2	2	1	2	2	1	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	84497252	G	A	84497252	3	1	428	1	0	0	0	0	1	0	0	0	1144	1145	40	1	2861	1	ATP2C2	16	84497252	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		84497252	5857501	64	21839											
LLGL1	3996	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18135884	18135884	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagatgcacttcttgacCggccaggtgagcctctgctt	8	10	10	13	1	2	3	0	2	2	1	2	3	2	3	3	2	3	2	3	2	0	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	18135884	C	T	18135884	2	4	428	1	0	0	0	0	0	0	0	1	8833	639	23	1		1	LLGL1	17	18135884	Silent	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		18135884	63059326	65	21840											
SMCR8	140775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18220787	18220787	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttccaggcaagcatcAgtcctccagaactgggtgag	9	8	11	13	1	1	2	1	1	0	1	5	2	5	2	4	2	2	3	4	2	2	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	18220787	A	C	18220787	3	2	428	1	0	0	0	0	1	0	0	0	14794	188	7	5	1686	5	SMCR8	17	18220787	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	84903	18220787	62974423	66	21841											
ACE	1636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61559982	61559982	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccattggggacgtgctggCgctctcggtctccactcctg	3	10	14	14	3	2	0	0	0	2	0	5	1	3	1	3	5	1	2	3	5	0	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	61559982	C	T	61559982	3	4	428	1	0	0	0	0	1	0	0	0	136	768	27	1	1304	1	ACE	17	61559982	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	43339195	61559982	19635228	67	21842											
ARSG	22901	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66303656	66303656	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggctggctttttctaaagGttttgttggcgggagtgagt	5	16	16	4	1	1	1	0	1	1	0	1	2	1	2	0	5	0	4	0	5	2	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	66303656	G	C	66303656	3	2	428	1	0	0	0	0	1	0	0	0	992	1261	44	4	24	4	ARSG	17	66303656	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	4743674	66303656	14891554	68	21843											
SS18	6760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	23619298	23619298	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatctgtctctgacccatcaTatgattgccttggttaactt	9	16	6	10	0	3	2	1	2	2	0	4	2	3	2	2	1	2	1	2	1	3	5	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		C	23619298	T	C	23619298	3	2	428	1	0	0	0	0	1	0	0	0	15176	1406	49	3	550	3	SS18	18	23619298	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08		23619298	54457950	69	21844											
SLC14A2	8170	hgsc.bcm.edu;ucsc.edu	37	chr18	43246949	43246949	+	Frame_Shift_Del	DEL	T	T	-																															gataaaagtggaaacaaacaTttccaagacatcctggattc																								novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		-	43246949	T	-	43246949	7	5	428	1	0	1	0	1	0	0	0	0	14399	1493	52	0	1653	0	SLC14A2	18	43246949	Frame_Shift_Del	DEL	T	TCGA-CJ-6033-01A-11D-1669-08	19627651	43246949	34830299	70	21845	301	2									
SLC14A2	8170	hgsc.bcm.edu	37	chr18	43246952	43246952	+	Missense_Mutation	SNP	C	C	A																															aaaagtggaaacaaacatttCcaagacatcctggattcgga																								novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	43246952	C	A	43246952	3	1	428	1	0	0	0	0	1	0	0	0	14399	855	30	4	1656	4	SLC14A2	18	43246952	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	3	43246952	34830296	71	21846	301	2									
DCC	1630	broad.mit.edu;ucsc.edu	37	chr18	50994332	50994332	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctggctgcacgccgagccCcccgggccaagctcatgatt	6	6	12	17	4	1	1	1	1	0	0	1	2	1	1	5	2	3	4	5	2	1	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	50994332	A	A	50994332	3	1	428	1	0	0	0	0	1	0	0	0	4282	623	22	4	3786	4	DCC	18	50994332	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	7747380	50994332	27082916	72	21847											
ZNF793	390927	broad.mit.edu	37	chr19	38027920	38027920	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgaatataataagtttggGaaaatatcacttctgagcac	15	13	8	5	0	2	2	1	2	1	0	2	3	2	3	0	1	1	2	0	1	7	6	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	38027920	A	A	38027920	2	1	428	1	0	0	0	0	0	0	0	1	18164	1161	41	2		2	ZNF793	19	38027920	Silent	SNP	G	TCGA-CJ-6033-01A-11D-1669-08		38027920	21101063	73	21848											
CEACAM3	1084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42301589	42301589	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatccatgccgctcagtGtcgcagaggggaaggaggtg	9	8	16	8	2	1	2	1	1	0	1	3	4	2	4	2	4	1	2	2	4	2	1	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	42301589	G	A	42301589	3	1	428	1	0	0	0	0	1	0	0	0	3193	1377	48	2	139	2	CEACAM3	19	42301589	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	4273669	42301589	16827394	74	21849											
LILRB4	11006	broad.mit.edu	37	chr19	55176277	55176277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggatcccaggccctcacCcacaaggtccgtctcaacag	10	5	10	16	1	2	0	2	0	1	0	5	2	4	2	4	4	1	0	4	4	2	0	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	55176277	T	T	55176277	3	4	428	1	0	0	0	0	1	0	0	0	8793	623	22	2	701	2	LILRB4	19	55176277	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	12874688	55176277	3952706	75	21850											
MYLK2	85366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	30418677	30418677	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggtgaagatcattgactTtggcctggcacggaggtacc	8	12	13	8	1	1	3	1	2	0	1	1	4	1	4	2	5	1	2	2	5	2	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	30418677	T	G	30418677	3	3	428	1	0	0	0	0	1	0	0	0	10057	1841	64	5	1310	5	MYLK2	20	30418677	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08		30418677	32606843	76	21851											
APOL5	80831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	36123236	36123236	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatcccgtgtggttaaacCagaaggtaggaaggcagcga	13	6	15	7	2	0	1	0	0	0	1	1	4	1	3	2	5	2	3	2	5	5	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	36123236	C	G	36123236	3	3	428	1	0	0	0	0	1	0	0	0	809	594	21	4	1131	4	APOL5	22	36123236	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		36123236	15181330	77	21852											
DUSP21	63904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	44703517	44703517	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactccttctgtccagcaatCgcatcaccgccattgtcaat	10	11	5	15	2	3	0	2	0	1	0	6	0	5	0	4	0	2	2	4	0	3	2	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	44703517	C	T	44703517	3	4	428	1	0	0	0	0	1	0	0	0	4820	884	31	1	141	1	DUSP21	23	44703517	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08		44703517	110567043	78	21853											
SPIN3	169981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	57020876	57020876	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtacatatataatacaggatCtttctcataggtaatgtaaa	16	14	6	5	0	2	0	1	0	2	0	3	1	2	1	0	2	2	3	0	2	9	9	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		G	57020876	C	G	57020876	3	3	428	1	0	0	0	0	1	0	0	0	15056	913	32	4	275	4	SPIN3	23	57020876	Missense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	12317359	57020876	98249684	79	21854											
KIAA2022	340533	broad.mit.edu;ucsc.edu	37	chrX	73961521	73961521	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagagtcatcagatgggagTtgggtatcttgcatggagtc	10	12	14	5	0	3	2	2	0	1	2	4	4	3	4	0	3	1	3	0	3	2	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	73961521	A	A	73961521	3	1	428	1	0	0	0	0	1	0	0	0	8269	1722	60	5	1687	5	KIAA2022	23	73961521	Missense_Mutation	SNP	T	TCGA-CJ-6033-01A-11D-1669-08	16940645	73961521	81309039	80	21855											
TMEM31	203562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	102968576	102968576	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacacagccatccagatgtCgattgccttcacgtaggaca	12	8	8	13	2	1	1	1	0	0	1	3	3	2	2	3	1	2	1	3	1	1	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	102968576	C	T	102968576	4	4	428	1	0	0	0	0	0	1	0	0	16154	885	31	1	163	1	TMEM31	23	102968576	Nonsense_Mutation	SNP	C	TCGA-CJ-6033-01A-11D-1669-08	29007055	102968576	52301984	81	21856											
DOCK11	139818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	117700143	117700143	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacggtagaaacagcacAaggtcagaattttaaagtga	17	7	12	5	1	1	4	1	1	0	3	1	5	1	4	0	3	2	2	0	3	6	3	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	117700143	A	T	117700143	3	4	428	1	0	0	0	0	1	0	0	0	4686	130	5	5	899	5	DOCK11	23	117700143	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	14731567	117700143	37570417	82	21857											
DOCK11	139818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	117819736	117819736	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtggtacatcaagtgaccGaggttatggttccccaagat	11	11	11	8	1	1	2	1	1	0	1	2	3	2	2	3	3	1	3	3	3	5	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		A	117819736	G	A	117819736	3	1	428	1	0	0	0	0	1	0	0	0	4686	1058	37	1	6398	1	DOCK11	23	117819736	Missense_Mutation	SNP	G	TCGA-CJ-6033-01A-11D-1669-08	119593	117819736	37450824	83	21858											
MMGT1	93380	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135047254	135047254	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgcatcttggtttgaagAatttgctgtatccgaaggcc	10	13	10	8	1	1	2	0	1	1	1	2	3	2	2	2	2	2	4	2	2	5	4	novel		TCGA-CJ-6033-01A-11D-1669-08	TCGA-CJ-6033-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ce9042-f63c-4a93-a82d-f21977bd9bcb	6ddcf971-b6b2-4ea9-a14e-22451f4b519e		T	135047254	A	T	135047254	3	4	428	1	0	0	0	0	1	0	0	0	9647	246	9	5	74	5	MMGT1	23	135047254	Missense_Mutation	SNP	A	TCGA-CJ-6033-01A-11D-1669-08	17227518	135047254	20223306	84	21859											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11169375	11169375	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatctcgaaccctgttaatAatctggatagctttcttatt	10	18	5	8	1	3	0	0	0	3	0	4	2	3	1	1	1	2	2	1	1	6	7	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	11169375	A	C	11169375	3	2	429	1	0	0	0	0	1	0	0	0	9954	358	13	5	161	5	MTOR	1	11169375	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08		11169375	238081246	1	21860											
SYNC	81493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	33149611	33149611	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcttcacaaagatcacCttgagactgtgtctccattc	9	14	5	13	0	4	2	2	1	2	2	7	3	4	2	2	0	0	0	2	0	1	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	33149611	C	T	33149611	3	4	429	1	0	0	0	0	1	0	0	0	15442	695	24	2	80	2	SYNC	1	33149611	Missense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	21980236	33149611	216101010	2	21861											
RIMKLA	284716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	42880337	42880337	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaccaggcatgcaacttaGatgtgggtgggatcattgca	10	11	13	7	0	1	2	1	1	0	1	1	3	1	3	1	3	3	3	1	3	2	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	42880337	G	A	42880337	3	1	429	1	0	0	0	0	1	0	0	0	13367	942	33	2	886	2	RIMKLA	1	42880337	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	9730726	42880337	206370284	3	21862											
USP33	23032	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	78195568	78195568	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgagaatacccccgaaatgTtggatttacagttttaattc	12	14	7	8	1	0	1	0	1	0	1	1	4	0	2	2	1	2	2	2	1	5	7	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	78195568	T	C	78195568	3	2	429	1	0	0	0	0	1	0	0	0	17063	1725	60	3	2117	3	USP33	1	78195568	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	35315231	78195568	171055053	4	21863											
ST7L	54879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	113098583	113098583	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataggcaattgcttcactatCaccccgtttcagaatgtgtt	10	14	7	10	1	3	1	3	0	0	1	3	1	3	1	2	1	1	4	2	1	4	6	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	113098583	C	T	113098583	3	4	429	1	0	0	0	0	1	0	0	0	15231	826	29	2	479	2	ST7L	1	113098583	Missense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	34903015	113098583	136152038	5	21864											
TRIM33	51592	hgsc.bcm.edu;ucsc.edu	37	chr1	114948266	114948267	+	Frame_Shift_Ins	INS	-	-	T																															ctgtttgcagctttcattcaINStatctgcaggttcaattttc																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	114948267	-	T	114948266	7	5	429	1	0	1	1	0	0	0	0	0	16506	217	8	0	873	0	TRIM33	1	114948266	Frame_Shift_Ins	INS	-	TCGA-CW-5580-01A-01D-1669-08	1849683	114948266	134302355	6	21865											
TTC24	164118	broad.mit.edu;hgsc.bcm.edu	37	chr1	156553240	156553240	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaagcactggcccagtgtCaggtgagaccccgcacaccg	10	4	13	14	2	1	1	1	1	0	1	1	3	1	2	4	3	1	2	4	3	1	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	156553240	C	T	156553240	4	4	429	1	0	0	0	0	0	1	0	0	16691	827	29	2	1164	2	TTC24	1	156553240	Nonsense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	41604974	156553240	92697381	7	21866											
COPA	1314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160310032	160310032	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagtcccataactggatgacCccattatgtaaactagtcag	13	11	7	10	0	1	1	1	1	0	0	2	2	2	2	3	1	2	1	3	1	6	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	160310032	C	A	160310032	2	1	429	1	0	0	0	0	0	0	0	1	3727	610	22	4		4	COPA	1	160310032	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	3756792	160310032	88940589	8	21867											
CPSF3	51692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	9580730	9580730	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catatgtaaatgccatgaatGacaaaatccgcaaacagatc	18	8	6	9	1	0	3	0	2	0	1	2	3	1	3	2	0	2	2	2	0	7	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	9580730	G	A	9580730	3	1	429	1	0	0	0	0	1	0	0	0	3826	1290	45	2	901	2	CPSF3	2	9580730	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08		9580730	233618643	9	21868											
IFT172	26160	hgsc.bcm.edu;ucsc.edu	37	chr2	27702943	27702946	+	Frame_Shift_Del	DEL	ATAA	ATAA	-																															ggccaaggcagtgatggtgtAtaaattggtaatctccttgg																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	ATAA	ATAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	27702946	ATAA	-	27702943	7	5	429	1	0	1	0	1	0	0	0	0	7557	449	16	0	4550	0	IFT172	2	27702943	Frame_Shift_Del	DEL	ATAA	TCGA-CW-5580-01A-01D-1669-08	18122213	27702943	215496430	10	21869											
SUPT7L	9913	broad.mit.edu;hgsc.bcm.edu	37	chr2	27876614	27876614	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaagcatttacctctgcaCctagaaacagaggaaagatg	16	7	10	8	0	1	4	0	0	1	4	1	6	1	5	2	1	4	2	2	1	5	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	27876614	C	G	27876614	3	3	429	1	0	0	0	0	1	0	0	0	15400	521	18	4	265	4	SUPT7L	2	27876614	Missense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	173671	27876614	215322759	11	21870											
XDH	7498	broad.mit.edu;ucsc.edu	37	chr2	31598321	31598321	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaagctgagggtgagggtGcaccggaagtccaccatgcc	11	5	15	10	1	0	3	0	2	0	1	1	4	1	4	4	3	3	2	4	3	3	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	31598321	A	A	31598321	2	1	429	1	0	0	0	0	0	0	0	1	17425	1311	46	2		2	XDH	2	31598321	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	3721707	31598321	211601052	12	21871											
ETAA1	54465	hgsc.bcm.edu;ucsc.edu	37	chr2	67637078	67637096	+	Frame_Shift_Del	DEL	GAAATTCAGAGAAAAAGAC	GAAATTCAGAGAAAAAGAC	-																															atagaaagtgttctcctgaaGaaattcagagaaaaagacaa																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	GAAATTCAGAGAAAAAGAC	GAAATTCAGAGAAAAAGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	67637096	GAAATTCAGAGAAAAAGAC	-	67637078	7	5	429	1	0	1	0	1	0	0	0	0	5267	943	33	0	2711	0	ETAA1	2	67637078	Frame_Shift_Del	DEL	GAAATTCAGAGAAAAAGAC	TCGA-CW-5580-01A-01D-1669-08	36038757	67637078	175562295	13	21872											
CLASP1	23332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	122168512	122168512	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcattcacagaaccaGgtattcttcctggctggcca	9	11	9	12	0	3	1	2	0	1	1	4	1	4	1	3	4	1	3	3	4	2	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	122168512	G	A	122168512	3	1	429	1	0	0	0	0	1	0	0	0	3454	1000	35	2	2354	2	CLASP1	2	122168512	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	54531434	122168512	121030861	14	21873											
SCN3A	6328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	165952091	165952091	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagagtgaagaatgacccaAagatgataaagatgacaaag	20	6	10	5	0	1	8	1	4	0	4	1	8	1	8	1	0	0	0	1	0	6	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	165952091	A	G	165952091	3	3	429	1	0	0	0	0	1	0	0	0	13920	14	1	3	1657	3	SCN3A	2	165952091	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	43783579	165952091	77247282	15	21874											
RBM45	129831	hgsc.bcm.edu	37	chr2	178977303	178977304	+	Frame_Shift_Ins	INS	-	-	G																															ctggcagctctgcgagcggcINSgggggcttccgcccgggcgt																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	178977304	-	G	178977303	7	5	429	1	0	1	1	0	0	0	0	0	13141	755	27	0	32	0	RBM45	2	178977303	Frame_Shift_Ins	INS	-	TCGA-CW-5580-01A-01D-1669-08	13025212	178977303	64222070	16	21875											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179416718	179416718	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttggctgactccgtatctGttttctgctctcactctaaa	6	16	8	11	1	4	1	1	1	4	0	6	1	5	1	1	2	1	5	1	2	3	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	179416718	G	T	179416718	3	4	429	1	0	0	0	0	1	0	0	0	16734	1368	48	4	17182	4	TTN	2	179416718	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	439415	179416718	63782655	17	21876											
GPR1	2825	hgsc.bcm.edu;ucsc.edu	37	chr2	207041953	207041953	+	Frame_Shift_Del	DEL	T	T	-																															ttcaaattcttcaaataatgTttcctccaaatcttccatga																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	207041953	T	-	207041953	7	5	429	1	0	1	0	1	0	0	0	0	6621	1725	60	0	1052	0	GPR1	2	207041953	Frame_Shift_Del	DEL	T	TCGA-CW-5580-01A-01D-1669-08	27625235	207041953	36157420	18	21877											
SCG2	7857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	224462769	224462769	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttagggtagccactcttgGagagcatcctattttggaac	9	14	10	8	0	1	1	0	0	1	1	2	3	2	2	2	3	3	2	2	3	4	7	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	224462769	G	T	224462769	3	4	429	1	0	0	0	0	1	0	0	0	13893	1174	41	4	625	4	SCG2	2	224462769	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	17420816	224462769	18736604	19	21878											
ANKMY1	51281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241496637	241496637	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agacagcgtagttcttcaggGaccccggctcctcggcagca	8	7	12	14	3	2	1	1	0	1	1	4	2	3	2	3	3	2	5	3	3	1	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	241496637	G	A	241496637	3	1	429	1	0	0	0	0	1	0	0	0	634	1174	41	2	3044	2	ANKMY1	2	241496637	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	17033868	241496637	1702736	20	21879											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188245	10188245	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggacacacgatgggcttctgGttaaccaaactgaattattt	12	12	9	8	1	1	1	0	1	1	0	1	3	1	2	1	3	2	2	1	3	4	4	rs104893830	bycluster;alternate_allele	TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	10188245	G	T	10188245	3	4	429	1	0	0	0	0	1	0	0	0	17161	1261	44	4	394	4	VHL	3	10188245	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08		10188245	187834185	21	21880											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47162024	47162024	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcttatttcaggtgcttGcactgaccccttgtctttct	4	17	8	12	0	3	1	1	1	2	0	3	1	3	1	2	1	3	4	2	1	1	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	47162024	G	A	47162024	4	1	429	1	0	0	0	0	0	1	0	0	14133	1328	46	2	3668	2	SETD2	3	47162024	Nonsense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	36973779	47162024	150860406	22	21881											
BAP1	8314	broad.mit.edu	37	chr3	52443747	52443747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgaaatcttccacgagcAgggtgaagaggcctgggtgg	10	7	15	9	2	1	2	0	1	1	1	2	4	2	2	3	4	2	1	3	4	3	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	52443747	G	G	52443747	3	3	429	1	0	0	0	0	1	0	0	0	1311	188	7	3	2203	3	BAP1	3	52443747	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	5281723	52443747	145578683	23	21882											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52588748	52588748	+	Frame_Shift_Del	DEL	G	G	-																															tgaagttcttacccggtggtGggatgcccgggaggccaggc																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	52588748	G	-	52588748	7	5	429	1	0	1	0	1	0	0	0	0	11491	1348	47	0	484	0	PBRM1	3	52588748	Frame_Shift_Del	DEL	G	TCGA-CW-5580-01A-01D-1669-08	145001	52588748	145433682	24	21883											
GATA2	2624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	128204803	128204803	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccgtcagtgacacctggTacttgacgccgtccttgtcc	5	12	9	15	3	2	2	1	2	1	0	5	2	4	2	5	1	1	1	5	1	1	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	128204803	T	A	128204803	3	1	429	1	0	0	0	0	1	0	0	0	6254	1638	57	5	820	5	GATA2	3	128204803	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	75616055	128204803	69817627	25	21884											
PLXND1	23129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	129286540	129286540	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcagggtccccgcccactaCctttgcggatttcctctcgg	4	11	10	16	3	1	0	0	0	1	0	4	1	3	1	5	3	3	1	5	3	1	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	129286540	C	T	129286540	5	4	429	1	0	0	0	0	0	0	1	0	12127	521	18	2	1867	2	PLXND1	3	129286540	Splice_Site	SNP	C	TCGA-CW-5580-01A-01D-1669-08	1081737	129286540	68735890	26	21885											
GPR149	344758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	154146980	154146980	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgatcttctggaggctGtctggctccccacacctctg	4	10	11	16	1	4	0	0	0	4	0	5	2	5	1	4	4	0	2	4	4	0	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	154146980	G	T	154146980	3	4	429	1	0	0	0	0	1	0	0	0	6654	1377	48	4	1786	4	GPR149	3	154146980	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	24860440	154146980	43875450	27	21886											
SLC7A14	57709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170198277	170198277	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accatcagaacaaccagaagGatggcccaccagctctgctc	13	5	8	15	0	2	2	1	0	1	2	3	3	2	3	4	2	4	2	4	2	3	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	170198277	G	A	170198277	2	1	429	1	0	0	0	0	0	0	0	1	14698	1164	41	2		2	SLC7A14	3	170198277	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	16051297	170198277	27824153	28	21887											
CLCN2	1181	broad.mit.edu;ucsc.edu	37	chr3	184070571	184070571	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccacagaagaggctccggAgggcgatgcctgccgactct	8	6	14	13	3	1	2	0	0	1	2	2	5	2	3	4	3	3	1	4	3	1	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	184070571	G	G	184070571	3	3	429	1	0	0	0	0	1	0	0	0	3463	304	11	3	549	3	CLCN2	3	184070571	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	13872294	184070571	13951859	29	21888											
MUC4	4585	broad.mit.edu;hgsc.bcm.edu	37	chr3	195538680	195538680	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggaccctcctccagcgtgcCcccttcatggctgcggcaaa	6	7	11	17	2	1	0	1	0	0	0	3	1	3	1	5	3	3	2	5	3	1	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	195538680	C	T	195538680	2	4	429	1	0	0	0	0	0	0	0	1	9978	610	22	2		2	MUC4	3	195538680	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	11468109	195538680	2483750	30	21889											
LRCH3	84859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	197557694	197557694	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcccttgattcaggcttcaAtagtgtggacagtggtgata	10	12	12	7	0	2	2	2	2	0	0	2	3	2	3	1	3	1	1	1	3	3	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	197557694	A	G	197557694	3	3	429	1	0	0	0	0	1	0	0	0	8934	101	4	3	967	3	LRCH3	3	197557694	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	2019014	197557694	464736	31	21890											
CNGA1	1259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	47944154	47944154	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatcaataaccacaactTctttcttctccctagcggca	11	11	6	13	1	4	0	1	0	3	0	5	1	4	1	2	2	3	1	2	2	4	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	47944154	T	A	47944154	3	1	429	1	0	0	0	0	1	0	0	0	3596	1783	62	5	1623	5	CNGA1	4	47944154	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08		47944154	143210122	32	21891											
DMXL1	1657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118560454	118560454	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgacttctcatccaacTcttccttactgtaagttgaa	12	14	5	10	0	2	3	1	2	2	1	5	3	4	3	2	0	2	2	2	0	5	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	118560454	T	C	118560454	2	2	429	1	0	0	0	0	0	0	0	1	4594	1538	54	3		3	DMXL1	5	118560454	Silent	SNP	T	TCGA-CW-5580-01A-01D-1669-08		118560454	62354806	33	21892											
GRIA1	2890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	153149881	153149881	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaccatgaatgagtacAttgagcagcggaaaccctgt	13	8	10	10	1	0	3	0	3	0	0	1	4	1	4	3	1	4	2	3	1	3	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	153149881	A	T	153149881	3	4	429	1	0	0	0	0	1	0	0	0	6767	217	8	5	2226	5	GRIA1	5	153149881	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	34589427	153149881	27765379	34	21893											
RARS	5917	broad.mit.edu	37	chr5	167927655	167927655	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcgagcatatcagtgtgtAgttctgctccagggtaaaaa	13	10	11	7	1	2	0	1	0	1	0	3	1	3	0	1	1	3	5	1	1	6	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	167927655	T	T	167927655	2	4	429	1	0	0	0	0	0	0	0	1	13060	407	15	5		5	RARS	5	167927655	Silent	SNP	A	TCGA-CW-5580-01A-01D-1669-08	14777774	167927655	12987605	35	21894											
ZNF354B	117608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178293302	178293302	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgggatgagtggagaaagCtggctccttctcagagaaac	11	8	13	9	0	1	3	1	1	1	2	3	6	2	4	2	3	2	2	2	3	2	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	178293302	C	T	178293302	2	4	429	1	0	0	0	0	0	0	0	1	17864	796	28	2		2	ZNF354B	5	178293302	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	10365647	178293302	2621958	36	21895											
SLC35B3	51000	broad.mit.edu;hgsc.bcm.edu	37	chr6	8422803	8422803	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccaaggaagtgtttgataaCcccatagtacccacagttag	13	9	8	11	0	0	1	0	1	0	0	0	2	0	2	4	1	2	3	4	1	6	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	8422803	C	G	8422803	2	3	429	1	0	0	0	0	0	0	0	1	14579	494	18	4		4	SLC35B3	6	8422803	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08		8422803	162692264	37	21896											
CUL7	9820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43020004	43020004	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcactccagcgaatctgatAatcaggactactcaacatgt	13	10	7	11	1	3	1	2	1	1	0	4	3	4	2	1	1	4	1	1	1	4	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	43020004	A	C	43020004	3	2	429	1	0	0	0	0	1	0	0	0	4060	362	13	5	4769	5	CUL7	6	43020004	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	34597201	43020004	128095063	38	21897											
GRIK2	2898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	102503283	102503283	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgcatatgatgaaggagaAatggtggaggggcaatggtt	13	9	16	3	0	0	3	0	2	0	1	0	5	0	4	0	6	1	3	0	6	4	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	102503283	A	G	102503283	3	3	429	1	0	0	0	0	1	0	0	0	6774	14	1	3	2448	3	GRIK2	6	102503283	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	59483279	102503283	68611784	39	21898											
EIF3B	8662	broad.mit.edu;ucsc.edu	37	chr7	2404084	2404084	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcaaagaggcattgctctAtgggggggagagaaattcaa	14	8	13	6	0	3	2	2	0	1	2	3	4	3	3	0	4	1	2	0	4	4	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	2404084	G	G	2404084	2	3	429	1	0	0	0	0	0	0	0	1	5013	436	16	3		3	EIF3B	7	2404084	Silent	SNP	A	TCGA-CW-5580-01A-01D-1669-08		2404084	156734579	40	21899											
ZNF107	51427	broad.mit.edu;hgsc.bcm.edu	37	chr7	64167976	64167976	+	Frame_Shift_Del	DEL	A	A	-																															caacccttactagacataagAaaattcatactggagagaaa																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	64167976	A	-	64167976	7	5	429	1	0	1	0	1	0	0	0	0	17714	247	9	0	1300	0	ZNF107	7	64167976	Frame_Shift_Del	DEL	A	TCGA-CW-5580-01A-01D-1669-08	61763892	64167976	94970687	41	21900											
WBSCR17	64409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	71177037	71177037	+	Missense_Mutation	SNP	G	G	A																															gaacaagggcacgggacgctGcctggaggtggagaaccggg																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	71177037	G	A	71177037	3	1	429	1	0	0	0	0	1	0	0	0	17263	1319	46	2	1745	2	WBSCR17	7	71177037	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	7009061	71177037	87961626	42	21901	302	2									
WBSCR17	64409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	71177038	71177038	+	Silent	SNP	C	C	T																															aacaagggcacgggacgctgCctggaggtggagaaccgggg																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	71177038	C	T	71177038	2	4	429	1	0	0	0	0	0	0	0	1	17263	747	26	2		2	WBSCR17	7	71177038	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	1	71177038	87961625	43	21902	302	2									
NOS3	4846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150697631	150697631	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacccggaccacctcgtccCtgtggaaagacaaggcagca	12	5	10	14	2	0	1	0	0	0	1	2	3	1	3	4	3	2	2	4	3	3	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	150697631	C	T	150697631	2	4	429	1	0	0	0	0	0	0	0	1	10544	680	24	2		2	NOS3	7	150697631	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	79520593	150697631	8441032	44	21903											
GALNTL5	168391	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151684336	151684336	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagagaggggctgattcgaGcaaggctgattggagcttct	10	9	16	6	1	1	4	0	2	1	2	2	7	1	5	0	4	2	4	0	4	1	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	151684336	G	A	151684336	3	1	429	1	0	0	0	0	1	0	0	0	6224	971	34	2	642	2	GALNTL5	7	151684336	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	986705	151684336	7454327	45	21904											
VPS37A	137492	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17125809	17125809	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaaaaaccagtgatcagTgtttatccaccaatacgaca	16	8	7	10	1	1	1	1	1	0	0	2	3	2	2	3	1	2	1	3	1	5	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	17125809	T	G	17125809	3	3	429	1	0	0	0	0	1	0	0	0	17204	1693	59	5	253	5	VPS37A	8	17125809	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08		17125809	129238213	46	21905											
PTAR1	375743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	72338543	72338543	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagatagttcatcaagaaGaatcttttaagaagaaaaaa	22	9	7	3	0	3	6	2	0	1	6	3	6	3	6	0	0	0	1	0	0	10	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	72338543	G	A	72338543	3	1	429	1	0	0	0	0	1	0	0	0	12726	942	33	2	574	2	PTAR1	9	72338543	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08		72338543	68874888	47	21906											
GRIN3A	116443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104341505	104341505	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtggagccagtattgcagCttggatttgtttttgattcg	6	17	13	5	1	0	1	0	1	0	0	1	3	0	3	1	2	3	4	1	2	1	7	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	104341505	C	T	104341505	2	4	429	1	0	0	0	0	0	0	0	1	6783	796	28	2		2	GRIN3A	9	104341505	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	32002962	104341505	36871926	48	21907											
CEP110	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123900914	123900914	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttctcagaagaaaaggAgcaagagaacagtgagctcc	16	5	11	9	0	1	4	1	1	1	3	3	6	2	5	2	1	3	3	2	1	5	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	123900914	A	T	123900914	3	4	429	1	0	0	0	0	1	0	0	0	3245	304	11	5	2348	5	CEP110	9	123900914	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	19559409	123900914	17312517	49	21908											
A1CF	29974	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	52566613	52566613	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagctgggctgcagacacgGgtgcagttgcattagggaca	9	8	16	8	1	0	2	0	1	0	1	0	3	0	3	0	3	4	6	0	3	1	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	52566613	G	A	52566613	3	1	429	1	0	0	0	0	1	0	0	0	2	1232	43	2	127	2	A1CF	10	52566613	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08		52566613	82968134	50	21909											
ECHS1	1892	broad.mit.edu;hgsc.bcm.edu	37	chr10	135184121	135184121	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccacggccgggtcctcctCgaaggtcttcagggcctggt	4	8	13	16	3	2	0	1	0	1	0	5	1	4	0	6	5	0	0	6	5	1	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	135184121	C	T	135184121	3	4	429	1	0	0	0	0	1	0	0	0	4896	893	31	1	671	1	ECHS1	10	135184121	Missense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	82617508	135184121	350626	51	21910											
MUC5B	727897	hgsc.bcm.edu	37	chr11	1271392	1271392	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacagagctgaccacaacaGccactacgactgcgtccact	12	6	7	16	2	1	2	1	1	0	1	2	3	2	2	3	0	5	1	3	0	2	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	1271392	G	A	1271392	3	1	429	1	0	0	0	0	1	0	0	0	9979	971	34	2	13413	2	MUC5B	11	1271392	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08		1271392	133735124	52	21911											
EHD1	10938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64645859	64645859	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcttctgcgcgtacagctgCcgcagcccctcagccaccgt	6	7	10	18	4	2	0	1	0	1	0	2	0	2	0	5	0	7	4	5	0	1	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	64645859	C	T	64645859	2	4	429	1	0	0	0	0	0	0	0	1	4977	726	26	2		2	EHD1	11	64645859	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	63374467	64645859	70360657	53	21912											
PDZD3	79849	broad.mit.edu;hgsc.bcm.edu	37	chr11	119059909	119059909	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggattccccctggggctGcagaggtgaggaagaagaaa	11	6	15	9	0	0	4	0	1	0	3	1	6	1	6	3	5	1	2	3	5	3	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	119059909	G	C	119059909	3	2	429	1	0	0	0	0	1	0	0	0	11702	1319	46	4	1521	4	PDZD3	11	119059909	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	54414050	119059909	15946607	54	21913											
PPFIBP1	8496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27824429	27824429	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaactgtaagcatggaaacTtctgaaaaatcaaagttgac	17	9	8	7	0	2	2	1	2	1	0	2	3	2	3	0	1	3	4	0	1	6	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	27824429	T	C	27824429	2	2	429	1	0	0	0	0	0	0	0	1	12313	1596	56	3		3	PPFIBP1	12	27824429	Silent	SNP	T	TCGA-CW-5580-01A-01D-1669-08		27824429	106027466	55	21914											
DENND5B	160518	hgsc.bcm.edu;ucsc.edu	37	chr12	31540603	31540603	+	Frame_Shift_Del	DEL	A	A	-																															aagtcctgaatggtctgcagAattcggataagggagttgac																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	31540603	A	-	31540603	7	5	429	1	0	1	0	1	0	0	0	0	4437	242	9	0	69	0	DENND5B	12	31540603	Frame_Shift_Del	DEL	A	TCGA-CW-5580-01A-01D-1669-08	3716174	31540603	102311292	56	21915											
CCDC53	51019	hgsc.bcm.edu;ucsc.edu	37	chr12	102433684	102433684	+	Frame_Shift_Del	DEL	C	C	-																															atatctggcatatcttggatCcttggctacagttaagatat																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	102433684	C	-	102433684	7	5	429	1	0	1	0	1	0	0	0	0	2823	855	30	0	130	0	CCDC53	12	102433684	Frame_Shift_Del	DEL	C	TCGA-CW-5580-01A-01D-1669-08	70893081	102433684	31418211	57	21916											
STAB2	55576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104071251	104071251	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaatgcatcaaaactggCacgggcacccacacctgcgt	12	5	10	14	2	1	1	1	0	0	1	1	1	1	1	2	2	3	4	2	2	3	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	104071251	C	T	104071251	2	4	429	1	0	0	0	0	0	0	0	1	15239	697	25	2		2	STAB2	12	104071251	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	1637567	104071251	29780644	58	21917											
DHX37	57647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	125438720	125438720	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacccgggcccgcttgcTcttcagcctggtgagctcct	3	9	12	17	2	2	1	1	1	1	0	3	1	3	1	5	3	3	3	5	3	0	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	125438720	T	C	125438720	3	2	429	1	0	0	0	0	1	0	0	0	4510	1551	54	3	1018	3	DHX37	12	125438720	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	21367469	125438720	8413175	59	21918											
NOC4L	79050	broad.mit.edu;ucsc.edu	37	chr12	132636049	132636049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctccccgcctacctggTggccgccttcgccaagcggc	4	6	10	21	4	0	0	0	0	0	0	2	0	1	0	9	3	2	0	9	3	2	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	132636049	C	C	132636049	3	2	429	1	0	0	0	0	1	0	0	0	10515	1696	59	3	1140	3	NOC4L	12	132636049	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	7197329	132636049	1215846	60	21919											
NUPL1	9818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25899186	25899186	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccacctggacttcaacaTgaatatgcagctcctgctga	12	9	7	13	0	1	2	1	2	0	0	2	3	2	3	3	1	4	3	3	1	3	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	25899186	T	G	25899186	3	3	429	1	0	0	0	0	1	0	0	0	10774	1461	51	5	1049	5	NUPL1	13	25899186	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08		25899186	89270692	61	21920											
ERCC5	2073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	103528030	103528030	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagttcatctttaatgaatgTacaaaggagaacagctgcga	16	10	9	6	1	2	2	1	1	1	1	2	4	2	2	0	1	4	3	0	1	6	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	103528030	T	C	103528030	3	2	429	1	0	0	0	0	1	0	0	0	5216	1638	57	3	3396	3	ERCC5	13	103528030	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	77628844	103528030	11641848	62	21921											
ACIN1	22985	broad.mit.edu	37	chr14	23549554	23549554	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttcagtcagtcgaggaggGgaaggagacttcgatttttc	9	12	13	7	2	3	1	2	0	1	1	6	6	3	3	0	4	0	0	0	4	1	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	23549554	T	T	23549554	2	4	429	1	0	0	0	0	0	0	0	1	142	1219	43	4		4	ACIN1	14	23549554	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08		23549554	83799986	63	21922											
C14orf135	0	broad.mit.edu;ucsc.edu	37	chr14	60600702	60600703	+	Frame_Shift_Del	DEL	GA	-	-																															ttaaagggaatttacactggGagagtgcttagccttcaaga																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	60600703	-	-	60600702	7	5	429	1	0	1	0	1	0	0	0	0	1745	1161	41	0	2614	0	C14orf135	14	60600702	Frame_Shift_Del	DEL	GA	TCGA-CW-5580-01A-01D-1669-08	37051148	60600702	46748838	64	21923											
SPTB	6710	broad.mit.edu	37	chr14	65241143	65241143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggcctgcagacagcaggcCctgggcccggctggccagct	5	5	16	15	1	0	1	0	0	0	1	0	1	0	1	4	5	3	4	4	5	0	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	65241143	T	T	65241143	3	4	429	1	0	0	0	0	1	0	0	0	15119	623	22	2	2162	2	SPTB	14	65241143	Missense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	4640441	65241143	42108397	65	21924											
RDH11	51109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68151823	68151823	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaggagtcttgatgaaaaAggagaaaagccaccacatcc	16	6	10	9	0	1	4	0	3	1	1	2	6	2	5	3	2	1	0	3	2	4	1	rs182091562	by1000genomes	TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	68151823	A	G	68151823	3	3	429	1	0	0	0	0	1	0	0	0	13192	72	3	3	201	3	RDH11	14	68151823	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	2910680	68151823	39197717	66	21925											
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75248501	75248501	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccttctctctcttctgcAgggccaccaccagttctccc	4	12	5	20	0	4	0	0	0	4	0	8	0	5	0	6	1	1	2	6	1	0	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	75248501	A	T	75248501	2	4	429	1	0	0	0	0	0	0	0	1	17485	175	7	5		5	YLPM1	14	75248501	Silent	SNP	A	TCGA-CW-5580-01A-01D-1669-08	7096678	75248501	32101039	67	21926											
TRIP11	9321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	92499570	92499570	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatgaatggcttcaattTcctttgtcctagaatcaggt	9	16	8	8	0	2	2	2	1	0	1	4	2	4	2	2	2	1	2	2	2	4	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	92499570	T	G	92499570	3	3	429	1	0	0	0	0	1	0	0	0	16554	1783	62	5	5852	5	TRIP11	14	92499570	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	17251069	92499570	14849970	68	21927											
ATP10A	57194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	25959134	25959134	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgagcaagctccgaggcCcagttgtccgcctggctgct	5	9	12	15	2	0	1	0	1	0	0	3	2	3	1	5	2	3	5	5	2	1	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	25959134	C	T	25959134	4	4	429	1	0	0	0	0	0	1	0	0	1116	624	22	2	2516	2	ATP10A	15	25959134	Nonsense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08		25959134	76572258	69	21928											
LCMT2	9836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43621597	43621597	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataacgtctgggctcaagAagacagaggcgtggccatat	13	7	13	8	2	2	3	1	0	1	3	2	4	2	3	1	3	1	1	1	3	5	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	43621597	A	G	43621597	3	3	429	1	0	0	0	0	1	0	0	0	8679	246	9	3	973	3	LCMT2	15	43621597	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	17662463	43621597	58909795	70	21929											
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49293222	49293222	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttggtagatgcgttcctgGaaactgacaagctcttggag	9	13	12	7	1	1	2	0	1	1	1	2	4	2	4	1	3	3	3	1	3	3	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	49293222	G	T	49293222	3	4	429	1	0	0	0	0	1	0	0	0	14009	1165	41	4	1221	4	SECISBP2L	15	49293222	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	5671625	49293222	53238170	71	21930											
MAN2A2	4122	broad.mit.edu;ucsc.edu	37	chr15	91449980	91449980	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgcccaggtgcaaccccCcgctctggctgggcagtgga	5	6	13	17	1	1	0	0	0	1	0	1	1	1	1	5	4	3	4	5	4	1	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	91449980	A	A	91449980	2	1	429	1	0	0	0	0	0	0	0	1	9215	610	22	4		4	MAN2A2	15	91449980	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	42156758	91449980	11081412	72	21931											
IFT140	9742	broad.mit.edu	37	chr16	1570643	1570643	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgtacttcttggtggccAggtggtagctgccctggcgc	3	11	16	11	2	1	0	0	0	1	0	1	0	1	0	2	5	3	3	2	5	2	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	1570643	T	T	1570643	3	4	429	1	0	0	0	0	1	0	0	0	7556	188	7	5	788	5	IFT140	16	1570643	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08		1570643	88784110	73	21932											
ATF7IP2	80063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10524764	10524764	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtattctctcagaattgcaTaaaaccagtagaagaaattg	17	11	7	6	0	2	3	1	0	1	3	3	3	2	3	1	0	2	3	1	0	7	6	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	10524764	T	G	10524764	3	3	429	1	0	0	0	0	1	0	0	0	1088	1406	49	5	289	5	ATF7IP2	16	10524764	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	8954121	10524764	79829989	74	21933											
C16orf78	123970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49407979	49407979	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggctggagcggaggcagggGaagaagaaacaagctcccga	13	3	17	8	2	0	2	0	0	0	2	1	6	1	5	1	6	3	3	1	6	4	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	49407979	G	A	49407979	2	1	429	1	0	0	0	0	0	0	0	1	1835	1161	41	2		2	C16orf78	16	49407979	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	38883215	49407979	40946774	75	21934											
OR3A1	4994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3195481	3195481	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgcgggtgctgtaggtgagGggccggcagatggccaggaa	8	6	20	7	2	0	2	0	1	0	1	0	3	0	3	2	7	2	3	2	7	2	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	3195481	G	A	3195481	2	1	429	1	0	0	0	0	0	0	0	1	11037	1219	43	2		2	OR3A1	17	3195481	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08		3195481	77999729	76	21935											
OR1E1	8387	hgsc.bcm.edu	37	chr17	3301113	3301113	+	Frame_Shift_Del	DEL	C	C	-																															ccctcccatgataaatatcaCccattcattaactcgagtgt																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	3301113	C	-	3301113	7	5	429	1	0	1	0	1	0	0	0	0	10954	507	18	0	356	0	OR1E1	17	3301113	Frame_Shift_Del	DEL	C	TCGA-CW-5580-01A-01D-1669-08	105632	3301113	77894097	77	21936											
GSG2	83903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3629541	3629541	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgccatgaagcaaattaAgagaaaaatccaggagttcc	16	8	8	9	0	0	2	0	1	0	1	3	4	3	3	4	1	2	2	4	1	5	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	3629541	A	G	3629541	3	3	429	1	0	0	0	0	1	0	0	0	6822	72	3	3	2314	3	GSG2	17	3629541	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08	328428	3629541	77565669	78	21937											
ACADVL	37	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7125374	7125374	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgtggaaaatactatacCctcaatggaagcaagctttg	13	10	8	10	0	1	0	1	0	0	0	1	2	1	2	2	2	4	2	2	2	8	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	7125374	C	T	7125374	2	4	429	1	0	0	0	0	0	0	0	1	116	610	22	2		2	ACADVL	17	7125374	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	3495833	7125374	74069836	79	21938											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11701032	11701032	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacttttgacccagactcTggtggaggccttggagaacc	9	9	13	10	0	1	3	0	1	1	2	1	6	1	5	3	5	2	0	3	5	2	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	11701032	T	C	11701032	3	2	429	1	0	0	0	0	1	0	0	0	4608	1580	55	3	8512	3	DNAH9	17	11701032	Missense_Mutation	SNP	T	TCGA-CW-5580-01A-01D-1669-08	4575658	11701032	69494178	80	21939											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	11835416	11835416	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatgcggtggtggcagaaaGacgaaaatttgggccccagg	11	6	15	9	2	0	2	0	0	0	2	0	3	0	2	3	5	1	1	3	5	3	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	11835416	G	A	11835416	3	1	429	1	0	0	0	0	1	0	0	0	4608	942	33	2	12445	2	DNAH9	17	11835416	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	134384	11835416	69359794	81	21940											
HNF1B	6928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36091725	36091725	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatgcctcctccttcctgcgGtttgcaaaccagttgtagac	8	12	8	13	1	0	1	0	0	0	1	3	1	3	1	5	1	4	4	5	1	3	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	36091725	G	C	36091725	3	2	429	1	0	0	0	0	1	0	0	0	7252	1252	44	4	791	4	HNF1B	17	36091725	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	24256309	36091725	45103485	82	21941											
CA4	762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	58234007	58234007	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcaaaggtggacaaaaaaCtgggacgcttcttcttctct	12	10	10	9	1	3	0	0	0	3	0	4	2	3	2	0	4	1	2	0	4	4	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	58234007	C	T	58234007	2	4	429	1	0	0	0	0	0	0	0	1	2518	564	20	2		2	CA4	17	58234007	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	22142282	58234007	22961203	83	21942											
ITGB4	3691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73736440	73736440	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaccgcctttccttagtGccctacgggctgtccttgcg	3	12	9	17	3	0	0	0	0	0	0	3	0	3	0	6	1	3	1	6	1	2	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	73736440	G	A	73736440	2	1	429	1	0	0	0	0	0	0	0	1	7897	1333	46	2		2	ITGB4	17	73736440	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	15502433	73736440	7458770	84	21943											
EPB41L3	23136	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	5406847	5406847	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgcacgggggaggtggAaagcctcttctcccattcat	8	9	12	12	2	3	0	1	0	2	0	5	2	3	2	2	4	1	1	2	4	1	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	5406847	A	T	5406847	3	4	429	1	0	0	0	0	1	0	0	0	5154	246	9	5	1013	5	EPB41L3	18	5406847	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08		5406847	72670401	85	21944											
KIAA1632	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	43492338	43492338	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agggggtgatcagaaggtgtGaccagagcctggtgggccca	9	6	18	8	0	1	4	1	2	0	2	1	4	1	4	3	5	1	0	3	5	1	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	43492338	G	A	43492338	2	1	429	1	0	0	0	0	0	0	0	1	8249	1277	45	2		2	KIAA1632	18	43492338	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	38085491	43492338	34584910	86	21945											
OR7A5	26659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14938974	14938974	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacaggaacagcccaaagAggaagggttgcagtccaggt	13	5	15	8	0	0	1	0	0	0	1	1	4	1	4	2	5	3	2	2	5	3	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	14938974	A	G	14938974	3	3	429	1	0	0	0	0	1	0	0	0	11216	304	11	3	883	3	OR7A5	19	14938974	Missense_Mutation	SNP	A	TCGA-CW-5580-01A-01D-1669-08		14938974	44190009	87	21946											
CCDC155	147872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49897747	49897747	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccagtgtacctccgggagCggcctgaggaggcaaggctg	7	5	16	13	2	0	1	0	1	0	0	1	3	1	3	5	5	2	3	5	5	2	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	49897747	C	T	49897747	3	4	429	1	0	0	0	0	1	0	0	0	2788	759	27	1	64	1	CCDC155	19	49897747	Missense_Mutation	SNP	C	TCGA-CW-5580-01A-01D-1669-08	34958773	49897747	9231236	88	21947											
LILRB5	10990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54760026	54760026	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgggacccacagggaacaGggcctgggatggccctttgg	8	5	16	12	1	0	0	0	0	0	0	0	3	0	3	3	6	1	0	3	6	1	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	54760026	G	A	54760026	2	1	429	1	0	0	0	0	0	0	0	1	8794	991	35	2		2	LILRB5	19	54760026	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	4862279	54760026	4368957	89	21948											
NLRP7	199713	broad.mit.edu	37	chr19	55451068	55451068	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccttctccatctgcagcttCagagtcgtgcacacaatcca	9	10	6	16	1	3	1	1	0	2	1	6	1	4	1	3	0	3	3	3	0	1	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	55451068	T	T	55451068	2	4	429	1	0	0	0	0	0	0	0	1	10482	813	29	2		2	NLRP7	19	55451068	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	691042	55451068	3677915	90	21949											
ZNF419	79744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58005254	58005254	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccaaagctcaaccctcatGcaacatcgaaaagttcacat	16	7	5	13	1	3	0	3	0	0	0	4	1	3	0	2	0	5	3	2	0	5	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	58005254	G	A	58005254	3	1	429	1	0	0	0	0	1	0	0	0	17895	1319	46	2	1350	2	ZNF419	19	58005254	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	2554186	58005254	1123729	91	21950											
C20orf4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34828159	34828159	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagctggaccagttcctgggGccttacccatatgccaccct	7	9	10	15	0	0	0	0	0	0	0	1	2	1	1	6	3	3	2	6	3	2	3	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	34828159	G	C	34828159	2	2	429	1	0	0	0	0	0	0	0	1	2111	1190	42	4		4	C20orf4	20	34828159	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08		34828159	28197361	92	21951											
RPN2	6185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	35842239	35842239	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtcgaagttgaaggtGacaaccggtatattgcaaat	12	12	10	7	2	0	2	0	2	0	0	2	3	1	2	2	2	2	3	2	2	6	5	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	35842239	G	T	35842239	3	4	429	1	0	0	0	0	1	0	0	0	13610	1290	45	4	1097	4	RPN2	20	35842239	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	1014080	35842239	27183281	93	21952											
MC3R	4159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	54824370	54824370	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctaccacagcatcatgacCgtgaggaaggccctcacctt	10	7	9	15	2	2	2	2	2	0	0	2	3	2	3	4	2	2	2	4	2	2	2	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	54824370	C	A	54824370	2	1	429	1	0	0	0	0	0	0	0	1	9365	639	23	4		4	MC3R	20	54824370	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	18982131	54824370	8201150	94	21953											
CYP2D6	1565	hgsc.bcm.edu	37	chr22	42524795	42524795	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctccgcacctcgcgcagAaagcccgactcctccttcag	7	7	8	19	5	1	1	1	0	0	1	6	2	4	1	5	0	1	3	5	0	1	1	rs28371713	bycluster;byfrequency	TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		G	42524795	A	G	42524795	2	3	429	1	0	0	0	0	0	0	0	1	4169	243	9	3		3	CYP2D6	22	42524795	Silent	SNP	A	TCGA-CW-5580-01A-01D-1669-08		42524795	8779771	95	21954											
WWC3	55841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	10085338	10085338	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagccagcttctacgcttCgacctcattcccttcgactc	6	11	7	17	3	2	0	1	0	1	0	6	2	3	0	3	1	3	3	3	1	1	5	rs148094144		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	10085338	C	T	10085338	2	4	429	1	0	0	0	0	0	0	0	1	17412	883	31	1		1	WWC3	23	10085338	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08		10085338	145185222	96	21955											
HCCS	3052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	11139773	11139773	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacgattggatcataaaccGttgcgggacagaagttagat	13	9	12	7	3	1	2	1	0	0	2	1	5	1	4	1	2	2	3	1	2	4	4	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	11139773	G	A	11139773	3	1	429	1	0	0	0	0	1	0	0	0	6990	1145	40	1	672	1	HCCS	23	11139773	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	1054435	11139773	144130787	97	21956											
MAP3K15	389840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	19389075	19389075	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccacaaagggggcgctcAcctgggatgagaatggtgac	11	6	15	9	1	1	3	1	3	0	1	1	5	1	4	2	4	0	1	2	4	2	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		C	19389075	A	C	19389075	5	2	429	1	0	0	0	0	0	0	1	0	9249	173	6	5	563	5	MAP3K15	23	19389075	Splice_Site	SNP	A	TCGA-CW-5580-01A-01D-1669-08	8249302	19389075	135881485	98	21957											
DDX53	168400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	23019821	23019821	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttcccaaggaatattgaCgtatatgtacacagagtagg	14	11	10	6	1	0	2	0	1	0	1	1	4	1	3	1	2	1	3	1	2	7	7	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	23019821	C	T	23019821	2	4	429	1	0	0	0	0	0	0	0	1	4371	535	19	1		1	DDX53	23	23019821	Silent	SNP	C	TCGA-CW-5580-01A-01D-1669-08	3630746	23019821	132250739	99	21958											
FAM123B	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	63412535	63412535	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagcagggcacctgagggGctgagctcacgtgctcatga	10	6	14	11	1	2	3	2	3	0	0	2	3	2	3	1	3	3	5	1	3	1	0	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	63412535	G	A	63412535	3	1	429	1	0	0	0	0	1	0	0	0	5423	1203	42	2	2779	2	FAM123B	23	63412535	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	40392714	63412535	91858025	100	21959											
NKRF	55922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118723545	118723545	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgtgtggctctcggagcGggcgtagtttctgatgatct	5	14	14	8	3	4	2	0	2	4	0	5	3	4	3	0	3	1	3	0	3	1	2	rs140452307	byfrequency;alternate_allele	TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		T	118723545	G	T	118723545	3	4	429	1	0	0	0	0	1	0	0	0	10447	1116	39	4	233	4	NKRF	23	118723545	Missense_Mutation	SNP	G	TCGA-CW-5580-01A-01D-1669-08	55311010	118723545	36547015	101	21960											
ODZ1	0	hgsc.bcm.edu;ucsc.edu	37	chrX	123556363	123556363	+	Frame_Shift_Del	DEL	G	G	-																															cctggcacctggcagtgaatGgggcgtcctgcgatgatccg																								novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		-	123556363	G	-	123556363	7	5	429	1	0	1	0	1	0	0	0	0	10834	1335	47	0	4004	0	ODZ1	23	123556363	Frame_Shift_Del	DEL	G	TCGA-CW-5580-01A-01D-1669-08	4832818	123556363	31714197	102	21961											
DCAF12L1	139170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	125686496	125686496	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagcagcggcccctcaccGtccgctgccgccaagccctg	6	5	11	19	4	1	0	1	0	0	0	2	0	2	0	7	1	4	3	7	1	2	1	novel		TCGA-CW-5580-01A-01D-1669-08	TCGA-CW-5580-11A-02D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	6e4ed3ae-aa80-453a-95be-0af96a7bc4e3	54af26e6-d457-44ae-b574-4e74df45fd7c		A	125686496	G	A	125686496	2	1	429	1	0	0	0	0	0	0	0	1	4264	1136	40	1		1	DCAF12L1	23	125686496	Silent	SNP	G	TCGA-CW-5580-01A-01D-1669-08	2130133	125686496	29584064	103	21962											
CSMD2	114784	broad.mit.edu;ucsc.edu	37	chr1	34189862	34189862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggggtagaagtcagggaacCctggcgacaagatggtccca	11	6	15	9	1	1	2	1	0	0	2	2	4	2	3	2	5	1	1	2	5	4	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	34189862	A	A	34189862	3	1	430	1	0	0	0	0	1	0	0	0	3945	623	22	4	7851	4	CSMD2	1	34189862	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10		34189862	215060759	1	21963											
THBS3	7059	broad.mit.edu;hgsc.bcm.edu	37	chr1	155172612	155172612	+	Missense_Mutation	SNP	G	G	T																															acctccctcacctcattgatGtcactgcagtgggtgccgtt																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	155172612	G	T	155172612	3	4	430	1	0	0	0	0	1	0	0	0	15854	1368	48	4	1986	4	THBS3	1	155172612	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	120982750	155172612	94078009	2	21964	303	2									
THBS3	7059	broad.mit.edu;hgsc.bcm.edu	37	chr1	155172613	155172613	+	Missense_Mutation	SNP	T	T	A																															cctccctcacctcattgatgTcactgcagtgggtgccgttg																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	155172613	T	A	155172613	3	1	430	1	0	0	0	0	1	0	0	0	15854	1667	58	5	1987	5	THBS3	1	155172613	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10	1	155172613	94078008	3	21965	303	2									
ZBTB41	360023	hgsc.bcm.edu;ucsc.edu	37	chr1	197159958	197159959	+	Frame_Shift_Del	DEL	AA	AA	-																															tcttgtgcattttcaggatgAaatctatcagaggaaaagaa																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	197159959	AA	-	197159958	7	5	430	1	0	1	0	1	0	0	0	0	17542	243	9	0	1429	0	ZBTB41	1	197159958	Frame_Shift_Del	DEL	AA	TCGA-CW-5581-01A-02D-1534-10	41987345	197159958	52090663	4	21966											
TNNI1	7135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201384351	201384351	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctcaccttcagcaagAgtttgcgggaggcagtgatc	9	8	12	12	1	2	2	2	1	0	1	3	3	2	3	3	2	3	3	3	2	1	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	201384351	A	G	201384351	3	3	430	1	0	0	0	0	1	0	0	0	16325	304	11	3	536	3	TNNI1	1	201384351	Missense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10	4224393	201384351	47866270	5	21967											
JMJD4	65094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227921679	227921679	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatcccagaactcattcagCcagtcggacgagaagtacac	13	6	9	13	2	2	2	2	0	0	2	4	4	3	3	2	1	3	2	2	1	3	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	227921679	C	T	227921679	4	4	430	1	0	0	0	0	0	1	0	0	7951	740	26	2	786	2	JMJD4	1	227921679	Nonsense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	26537328	227921679	21328942	6	21968											
LPIN1	23175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11919652	11919652	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttttccttaagtccttccGgttcccgaccttcaacacct	6	15	5	15	2	1	0	1	0	0	0	5	1	5	0	6	1	1	2	6	1	2	6	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	11919652	G	A	11919652	3	1	430	1	0	0	0	0	1	0	0	0	8918	1116	39	1	748	1	LPIN1	2	11919652	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10		11919652	231279721	7	21969											
TRMT61B	55006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29073074	29073074	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctggagtactcagttaagTtgtggtttgaccttcctcaa	9	15	9	8	0	3	1	2	1	1	0	4	2	4	2	2	2	1	4	2	2	3	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	29073074	T	C	29073074	2	2	430	1	0	0	0	0	0	0	0	1	16569	1722	60	3		3	TRMT61B	2	29073074	Silent	SNP	T	TCGA-CW-5581-01A-02D-1534-10	17153422	29073074	214126299	8	21970											
LTBP1	4052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	33622348	33622348	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	acggccaagatgacctgtgtCggtaagaatgacgtgtgttt	10	11	13	7	3	0	4	0	2	0	2	1	4	0	4	2	2	0	2	2	2	3	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	33622348	C	G	33622348	2	3	430	1	0	0	0	0	0	0	0	1	9073	898	31	4		4	LTBP1	2	33622348	Silent	SNP	C	TCGA-CW-5581-01A-02D-1534-10	4549274	33622348	209577025	9	21971											
USP34	9736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61450407	61450407	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgttaatgctgccatGtcagtctgtgataatgtcaa	9	14	8	10	0	3	1	2	1	1	0	4	1	4	1	3	0	2	2	3	0	3	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	61450407	G	T	61450407	3	4	430	1	0	0	0	0	1	0	0	0	17064	1368	48	4	3092	4	USP34	2	61450407	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	27828059	61450407	181748966	10	21972											
RGPD1	400966	broad.mit.edu	37	chr2	88125182	88125182	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagatccactcacctttcCaggcgacggggcggagccct	7	7	12	15	4	1	1	1	0	0	1	4	4	3	2	4	4	1	0	4	4	0	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	88125182	G	G	88125182	3	3	430	1	0	0	0	0	1	0	0	0	13287	603	21	4		4	RGPD1	2	88125182	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	26674775	88125182	155074191	11	21973											
LYG1	129530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	99901199	99901199	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaacctcctctggatttCtttgattctagtagtcagaa	10	15	8	8	0	4	2	1	1	3	1	5	4	5	4	2	2	1	1	2	2	4	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	99901199	C	A	99901199	4	1	430	1	0	0	0	0	0	1	0	0	9104	922	32	4	174	4	LYG1	2	99901199	Nonsense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	11776017	99901199	143298174	12	21974											
EPHA6	285220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	97198177	97198177	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccaagatgaagtcagaagaGaagagaagaaaccacttaca	20	4	10	7	0	1	6	1	1	0	5	1	8	1	6	2	0	2	0	2	0	7	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	97198177	G	C	97198177	3	2	430	1	0	0	0	0	1	0	0	0	5171	933	33	4	2145	4	EPHA6	3	97198177	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10		97198177	100824253	13	21975											
CBLB	868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	105400639	105400639	+	Frame_Shift_Del	DEL	A	A	-																															gaccatgtgttccattcagcAtacagtgaccattatcacaa																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	105400639	A	-	105400639	7	5	430	1	0	1	0	1	0	0	0	0	2701	217	8	0	743	0	CBLB	3	105400639	Frame_Shift_Del	DEL	A	TCGA-CW-5581-01A-02D-1534-10	8202462	105400639	92621791	14	21976											
ATP6V1A	523	hgsc.bcm.edu;ucsc.edu	37	chr3	113528254	113528254	+	Frame_Shift_Del	DEL	T	T	-																															ttgaagacatgcagaatgcaTtccgtagccttgaagattag																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	113528254	T	-	113528254	7	5	430	1	0	1	0	1	0	0	0	0	1177	1493	52	0	1888	0	ATP6V1A	3	113528254	Frame_Shift_Del	DEL	T	TCGA-CW-5581-01A-02D-1534-10	8127615	113528254	84494176	15	21977											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506102	195506102	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggatgcagaggaagtgtCggtgacaggaagaggcgtgg	10	7	20	4	2	0	3	0	1	0	2	1	6	0	6	0	6	1	1	0	6	2	0	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	195506102	C	T	195506102	3	4	430	1	0	0	0	0	1	0	0	0	9978	884	31	1		1	MUC4	3	195506102	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	81977848	195506102	2516328	16	21978			1	35		3	3	6820	N	T_GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC_C	9.539003e-05
MUC4	4585	hgsc.bcm.edu	37	chr3	195510060	195510107	+	In_Frame_Del	DEL	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	-																															gtgacaggaagaggggtggtGtgacctgtggatgctgagga																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	195510107	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	-	195510060	7	5	430	1	0	1	0	1	0	0	0	0	9978	1368	48	0		0	MUC4	3	195510060	In_Frame_Del	DEL	GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC	TCGA-CW-5581-01A-02D-1534-10	3958	195510060	2512370	17	21979			1	35		3	3	6820	N	T_GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC_C	9.539003e-05
MUC4	4585	broad.mit.edu;hgsc.bcm.edu	37	chr3	195512921	195512921	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgctgaggaagggatggTgacaggaagagaggtggtgt	12	7	20	2	0	0	4	0	2	0	2	0	8	0	7	0	6	1	1	0	6	2	0	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	195512921	T	C	195512921	3	2	430	1	0	0	0	0	1	0	0	0	9978	1696	59	3		3	MUC4	3	195512921	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10	2861	195512921	2509509	18	21980			1	35		3	3	6820	N	T_GTGACCTGTGGATGCTGAGGAAGGGCTGGTGACATGAAGAGGGGTGGC_C	9.539003e-05
CCDC127	133957	hgsc.bcm.edu;ucsc.edu	37	chr5	205842	205847	+	In_Frame_Del	DEL	TTCTTT	TTCTTT	-																															cccgttcctgttccagaagcTtcttttcttctaccaacttg																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	TTCTTT	TTCTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	205847	TTCTTT	-	205842	7	5	430	1	0	1	0	1	0	0	0	0	2763	1609	56	0	433	0	CCDC127	5	205842	In_Frame_Del	DEL	TTCTTT	TCGA-CW-5581-01A-02D-1534-10		205842	180709418	19	21981											
YTHDC2	64848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112902905	112902905	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcctaatttagtccacgtgGacagagagaatctagtgttg	12	12	10	7	1	1	2	0	0	1	2	3	4	3	3	2	1	0	1	2	1	4	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	112902905	G	T	112902905	3	4	430	1	0	0	0	0	1	0	0	0	17496	1174	41	4	3045	4	YTHDC2	5	112902905	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	112697063	112902905	68012355	20	21982											
RAPGEF6	51735	broad.mit.edu;ucsc.edu	37	chr5	130825242	130825242	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacaacaaaactcaccaaAaatgttggtcttcacagtaa	17	11	4	9	0	3	0	2	0	1	0	3	0	3	0	1	1	3	2	1	1	7	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	130825242	C	C	130825242	3	2	430	1	0	0	0	0	1	0	0	0	13050	14	1	5	3510	5	RAPGEF6	5	130825242	Missense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10	17922337	130825242	50090018	21	21983											
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141242928	141242928	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctgtaccacctggtgctTcttggaggctgagggtgact	5	12	14	10	0	1	2	0	2	1	0	2	3	2	3	3	4	2	3	3	4	1	3	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	141242928	T	A	141242928	4	1	430	1	0	0	0	0	0	1	0	0	11506	1792	62	5	841	5	PCDH1	5	141242928	Nonsense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10	10417686	141242928	39672332	22	21984											
NHP2	55651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	177576774	177576774	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcgtaagcctcctggtaCtcctcatggggcttgaccat	7	12	9	13	1	2	1	2	1	0	0	5	1	4	1	4	3	2	3	4	3	2	3	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	177576774	C	G	177576774	3	3	430	1	0	0	0	0	1	0	0	0	10409	564	20	4	63	4	NHP2	5	177576774	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	36333846	177576774	3338486	23	21985											
ERVFRDE1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	11105212	11105212	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatattagtaaagatgggtCcgaaaatgggaggtttctgg	12	12	14	3	1	1	2	0	1	1	1	2	4	2	3	1	4	0	2	1	4	6	4	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	11105212	C	A	11105212	3	1	430	1	0	0	0	0	1	0	0	0	5246	855	30	4	1288	4	ERVFRDE1	6	11105212	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10		11105212	160009855	24	21986											
MYLIP	29116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	16146960	16146960	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgccaacgcacaccagtcTtctcaatctgactgtaatct	10	12	5	14	1	5	1	1	1	5	0	6	1	5	1	2	0	2	2	2	0	3	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	16146960	T	C	16146960	3	2	430	1	0	0	0	0	1	0	0	0	10055	1609	56	3	1342	3	MYLIP	6	16146960	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10	5041748	16146960	154968107	25	21987											
KIAA0319	9856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24596226	24596226	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcagggagttttggggCaggggttgaagccgactcat	7	11	15	8	1	3	1	2	1	1	0	4	3	3	2	1	5	1	3	1	5	1	3	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	24596226	C	T	24596226	3	4	430	1	0	0	0	0	1	0	0	0	8168	710	25	2	2618	2	KIAA0319	6	24596226	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	8449266	24596226	146518841	26	21988											
ASCC3	10973	hgsc.bcm.edu;ucsc.edu	37	chr6	101049749	101049749	+	Frame_Shift_Del	DEL	T	T	-																															tataatccaatgcatcttgcTtagatgtaattgtaccacca																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	101049749	T	-	101049749	7	5	430	1	0	1	0	1	0	0	0	0	1033	1609	56	0	1404	0	ASCC3	6	101049749	Frame_Shift_Del	DEL	T	TCGA-CW-5581-01A-02D-1534-10	76453523	101049749	70065318	27	21989											
HIVEP2	3097	broad.mit.edu;ucsc.edu	37	chr6	143081503	143081503	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaactcgaatacttggcaaAgtaaccaaatagctgatcaa	17	9	7	8	1	1	1	1	1	0	0	2	2	1	1	1	1	4	4	1	1	8	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	143081503	G	G	143081503	2	3	430	1	0	0	0	0	0	0	0	1	7187	59	3	3		3	HIVEP2	6	143081503	Silent	SNP	A	TCGA-CW-5581-01A-02D-1534-10	42031754	143081503	28033564	28	21990											
MGAM	8972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	141752123	141752123	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcacagatattgatcttctCctgggagaagcatacacagt	13	11	8	9	0	3	3	1	1	2	2	4	4	3	3	1	1	2	1	1	1	3	4	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	141752123	C	A	141752123	2	1	430	1	0	0	0	0	0	0	0	1	9541	842	30	4		4	MGAM	7	141752123	Silent	SNP	C	TCGA-CW-5581-01A-02D-1534-10		141752123	17386540	29	21991											
RTKN2	219790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	63958010	63958010	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctttttccctttttcaTcatgtaatggctcacttgca	6	19	5	11	0	4	0	3	0	1	0	6	0	5	0	1	1	1	3	1	1	1	6	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	63958010	T	G	63958010	3	3	430	1	0	0	0	0	1	0	0	0	13725	1435	50	5	346	5	RTKN2	10	63958010	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10		63958010	71576737	30	21992											
JMJD1C	221037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	64968907	64968907	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gccgatgaggctctgcactgGaaggtctgacaggaatgtga	10	8	15	8	1	2	3	0	3	2	0	2	6	2	5	1	4	1	2	1	4	2	0	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	64968907	G	C	64968907	3	2	430	1	0	0	0	0	1	0	0	0	7950	1174	41	4	4911	4	JMJD1C	10	64968907	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	1010897	64968907	70565840	31	21993											
UNC5B	219699	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	73050863	73050863	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaactttaagacggcaaggCccagtaagaacccgaggatg	14	6	11	10	2	1	2	1	0	0	2	1	4	1	3	2	3	2	2	2	3	5	3	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	73050863	C	T	73050863	3	4	430	1	0	0	0	0	1	0	0	0	16991	739	26	2	1325	2	UNC5B	10	73050863	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	8081956	73050863	62483884	32	21994											
FAS	355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	90762874	90762874	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattggaattgaggaagaCtgttactacagttgagactc	12	11	13	5	0	0	3	0	2	0	2	1	7	0	6	0	3	2	2	0	3	4	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	90762874	C	T	90762874	3	4	430	1	0	0	0	0	1	0	0	0	5681	565	20	2	125	2	FAS	10	90762874	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	17712011	90762874	44771873	33	21995											
PPRC1	23082	broad.mit.edu	37	chr10	103907139	103907139	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctcccccccacacaagAggtggcgaaggtgagctttg	8	7	11	15	1	1	2	0	1	1	1	2	3	1	2	4	3	1	1	4	3	2	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	103907139	C	C	103907139	2	2	430	1	0	0	0	0	0	0	0	1	12412	295	11	5		5	PPRC1	10	103907139	Silent	SNP	A	TCGA-CW-5581-01A-02D-1534-10	13144265	103907139	31627608	34	21996											
CYP17A1	1586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104596868	104596868	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccttcttaataagcaccTccttggccagctggtggtgg	6	12	11	12	0	1	0	0	0	1	0	2	0	2	0	4	4	3	2	4	4	2	4	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	104596868	T	A	104596868	3	1	430	1	0	0	0	0	1	0	0	0	4147	1551	54	5	1307	5	CYP17A1	10	104596868	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10	689729	104596868	30937879	35	21997											
MUC5B	727897	hgsc.bcm.edu	37	chr11	1272671	1272671	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcacagagccgagcactaTagccaccgtgatggtgccca	10	6	10	15	2	1	2	1	1	0	1	1	3	1	2	5	1	4	1	5	1	2	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	1272671	T	C	1272671	3	2	430	1	0	0	0	0	1	0	0	0	9979	1406	49	3	14692	3	MUC5B	11	1272671	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10		1272671	133733845	36	21998											
CD82	3732	broad.mit.edu	37	chr11	44639740	44639740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcggctgggtcagcttctAcaactggacagacaacgctg	9	8	12	12	2	2	1	1	0	1	1	2	2	2	2	0	3	5	3	0	3	3	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	44639740	G	G	44639740	3	3	430	1	0	0	0	0	1	0	0	0	3040	391	14	3	489	3	CD82	11	44639740	Missense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10	43367069	44639740	90366776	37	21999											
OR5L1	219437	broad.mit.edu;hgsc.bcm.edu	37	chr11	55579578	55579578	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgagagtgttaccatcatGatcatcctcacctcctacct	11	12	5	13	0	3	2	3	2	0	1	5	3	5	2	5	0	2	1	5	0	3	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	55579578	G	T	55579578	3	4	430	1	0	0	0	0	1	0	0	0	11170	1290	45	4	638	4	OR5L1	11	55579578	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	10939838	55579578	79426938	38	22000											
OR5AR1	219493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56432011	56432011	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacacggttatcatccccAtgttaaatcccttgatctac	10	14	4	13	1	3	1	1	1	2	0	5	1	5	1	3	1	2	2	3	1	5	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	56432011	A	T	56432011	3	4	430	1	0	0	0	0	1	0	0	0	11145	217	8	5	852	5	OR5AR1	11	56432011	Missense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10	852433	56432011	78574505	39	22001											
TAS2R13	50838	hgsc.bcm.edu;ucsc.edu	37	chr12	11061401	11061401	+	Frame_Shift_Del	DEL	T	T	-																															caaagtcactcatactgaaaTtccaagttgtgtttctttca																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	11061401	T	-	11061401	7	5	430	1	0	1	0	1	0	0	0	0	15566	1493	52	0	418	0	TAS2R13	12	11061401	Frame_Shift_Del	DEL	T	TCGA-CW-5581-01A-02D-1534-10		11061401	122790494	40	22002											
KCNH3	23416	hgsc.bcm.edu;ucsc.edu	37	chr12	49935453	49935453	+	Frame_Shift_Del	DEL	G	G	-																															ctggatgtgatacccataaaGaatgagaaaggggaggtggc																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	49935453	G	-	49935453	7	5	430	1	0	1	0	1	0	0	0	0	8033	933	33	0	361	0	KCNH3	12	49935453	Frame_Shift_Del	DEL	G	TCGA-CW-5581-01A-02D-1534-10	38874052	49935453	83916442	41	22003											
DENR	8562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123238330	123238330	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaagttagatgccgattacCcacttcgagtcctttattgt	9	14	7	11	2	0	1	0	0	0	1	2	3	1	1	4	0	2	1	4	0	4	6	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	123238330	C	G	123238330	3	3	430	1	0	0	0	0	1	0	0	0	4438	623	22	4	84	4	DENR	12	123238330	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	73302877	123238330	10613565	42	22004											
SLITRK6	84189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	86369560	86369560	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagctttctaggattttgcgGaggaggtctcagatctgata	9	13	13	6	1	3	2	1	1	3	1	4	6	3	5	0	4	2	1	0	4	2	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	86369560	G	T	86369560	3	4	430	1	0	0	0	0	1	0	0	0	14749	1174	41	4	1445	4	SLITRK6	13	86369560	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10		86369560	28800318	43	22005											
DHRS4	10901	broad.mit.edu	37	chr14	24424420	24424420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggagcggctggtggccaCggtgagctgcagggaaatgg	7	5	20	9	3	0	1	0	1	0	0	0	3	0	3	2	7	3	3	2	7	1	0	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	24424420	T	T	24424420	3	4	430	1	0	0	0	0	1	0	0	0	4492	550	19	1	311	1	DHRS4	14	24424420	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10		24424420	82925120	44	22006											
LRFN5	145581	broad.mit.edu	37	chr14	42356893	42356893	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaaggatacaggtgctttTacctgcattgcttccaatcc	10	13	8	10	0	0	0	0	0	0	0	2	1	2	1	3	2	5	4	3	2	5	6	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	42356893	A	A	42356893	3	1	430	1	0	0	0	0	1	0	0	0	8941	1751	61	5	1067	5	LRFN5	14	42356893	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10	17932473	42356893	64992647	45	22007											
FLRT2	23768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	86089421	86089421	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgcctcctatctgaacaaCggcagcaacacagcgtccag	12	6	8	15	2	1	1	0	1	1	0	3	1	3	1	3	1	6	2	3	1	4	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	86089421	C	T	86089421	2	4	430	1	0	0	0	0	0	0	0	1	5939	535	19	1		1	FLRT2	14	86089421	Silent	SNP	C	TCGA-CW-5581-01A-02D-1534-10	43732528	86089421	21260119	46	22008											
AQR	9716	broad.mit.edu;ucsc.edu	37	chr15	35236588	35236588	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgccgccttcaagatgtgTttaaaaaagaatgggaagtg	15	10	11	5	1	1	2	1	0	0	2	1	3	1	3	2	1	1	1	2	1	7	3	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	35236588	G	G	35236588	3	3	430	1	0	0	0	0	1	0	0	0	835	1722	60	5	4205	5	AQR	15	35236588	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10		35236588	67294804	47	22009											
CAPN3	825	hgsc.bcm.edu;ucsc.edu	37	chr15	42701963	42701963	+	RNA	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtactcctgaaccatgacCctcctctcccttcctcctca	6	12	3	20	0	2	2	1	2	1	0	7	2	6	2	7	0	2	1	7	0	2	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	42701963	C	G	42701963	1	3	430	0	1	0	0	0	0	0	0	0	2628	638	22	4		4	CAPN3	15	42701963	RNA	SNP	C	TCGA-CW-5581-01A-02D-1534-10	7465375	42701963	59829429	48	22010											
CEP152	22995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49089548	49089548	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaattacattggttgcttGgttattaaattcctgcttct	8	21	6	6	0	1	0	0	0	1	0	2	0	2	0	1	2	3	4	1	2	5	10	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	49089548	G	T	49089548	3	4	430	1	0	0	0	0	1	0	0	0	3248	1357	47	4	4562	4	CEP152	15	49089548	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	6387585	49089548	53441844	49	22011											
SLC5A11	115584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24920266	24920266	+	Missense_Mutation	SNP	T	T	A																															taggctggtcctggactttaTttacgtgcagcctcgatgcg																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	24920266	T	A	24920266	3	1	430	1	0	0	0	0	1	0	0	0	14665	1493	52	5	1549	5	SLC5A11	16	24920266	Missense_Mutation	SNP	T	TCGA-CW-5581-01A-02D-1534-10		24920266	65434487	50	22012	304	2									
SLC5A11	115584	broad.mit.edu;ucsc.edu	37	chr16	24920271	24920271	+	Missense_Mutation	SNP	G	C	C																															tggtcctggactttatttacGtgcagcctcgatgcgaccag																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	24920271	C	C	24920271	3	2	430	1	0	0	0	0	1	0	0	0	14665	1145	40	4	1554	4	SLC5A11	16	24920271	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	5	24920271	65434482	51	22013	304	2									
PLCG2	5336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	81954855	81954855	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatgtatgtggatcccaGtgaaatcaatccgtccatgg	12	10	10	9	1	1	2	1	1	0	1	4	3	4	3	3	2	0	1	3	2	4	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	81954855	G	A	81954855	3	1	430	1	0	0	0	0	1	0	0	0	12036	1029	36	2	2366	2	PLCG2	16	81954855	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	57034584	81954855	8399898	52	22014											
SOCS7	30837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	36523827	36523827	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaagctgaaagggaaaccAgatggttctttcctggtacg	12	10	12	7	1	1	3	0	2	1	1	2	4	2	4	2	3	3	3	2	3	4	3	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	36523827	A	G	36523827	2	3	430	1	0	0	0	0	0	0	0	1	14921	175	7	3		3	SOCS7	17	36523827	Silent	SNP	A	TCGA-CW-5581-01A-02D-1534-10		36523827	44671383	53	22015											
IGFBP4	3487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38610249	38610249	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcttcacagagccgcaccCacgaggacctctacatcatc	10	6	7	18	3	3	1	2	0	1	1	4	3	3	2	4	1	2	2	4	1	1	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	38610249	C	T	38610249	3	4	430	1	0	0	0	0	1	0	0	0	7581	594	21	2	587	2	IGFBP4	17	38610249	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	2086422	38610249	42584961	54	22016											
MPP2	4355	broad.mit.edu	37	chr17	41960604	41960604	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctggaggatgtgggccagCtcggcggctgtgctgctctg	3	10	17	11	2	1	0	0	0	1	0	3	2	2	2	2	5	3	4	2	5	0	0	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		G	41960604	G	G	41960604	3	3	430	1	0	0	0	0	1	0	0	0	9734	796	28	4	1428	4	MPP2	17	41960604	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	3350355	41960604	39234606	55	22017											
STH	246744	broad.mit.edu	37	chr17	44076968	44076968	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccagaactgtccctcccAccctgcagctgccctgcctc	5	7	9	20	0	0	1	0	0	0	1	3	1	2	1	6	1	5	2	6	1	1	0	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	44076968	C	C	44076968	3	2	430	1	0	0	0	0	1	0	0	0	15282	159	6	5	325	5	STH	17	44076968	Missense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10	2116364	44076968	37118242	56	22018											
C17orf47	284083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56620394	56620394	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtaggtccttgggacAtgtaagtaatttctgggggt	7	14	16	4	0	1	0	0	0	1	0	2	1	2	1	1	5	0	3	1	5	3	5	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	56620394	A	T	56620394	3	4	430	1	0	0	0	0	1	0	0	0	1858	217	8	5	566	5	C17orf47	17	56620394	Missense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10	12543426	56620394	24574816	57	22019											
CDH2	1000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	25532271	25532271	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccttcatagtcaaacactAacagggagtcatatggtgga	13	10	10	8	0	3	0	3	0	0	0	3	2	3	2	1	3	3	0	1	3	4	4	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	25532271	A	T	25532271	4	4	430	1	0	0	0	0	0	1	0	0	3105	372	13	5	157	5	CDH2	18	25532271	Nonsense_Mutation	SNP	A	TCGA-CW-5581-01A-02D-1534-10		25532271	52544977	58	22020											
ZNF555	148254	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2853267	2853267	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctatgaatgcaaccagtgcGggaaagcattcagtcacccc	12	7	9	13	1	2	1	2	1	0	0	2	2	2	2	4	1	4	2	4	1	4	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		A	2853267	G	A	2853267	3	1	430	1	0	0	0	0	1	0	0	0	17985	1116	39	1	1218	1	ZNF555	19	2853267	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10		2853267	56275716	59	22021											
ZNF709	163051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	12574850	12574850	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcatgtattcgaaaggaaCgggaacacttgaaggcttta	13	12	10	6	2	1	1	1	1	0	0	2	4	1	3	0	3	2	2	0	3	6	6	rs183982301	by1000genomes;alternate_allele	TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	12574850	C	T	12574850	3	4	430	1	0	0	0	0	1	0	0	0	18112	536	19	1	43	1	ZNF709	19	12574850	Missense_Mutation	SNP	C	TCGA-CW-5581-01A-02D-1534-10	9721583	12574850	46554133	60	22022											
C21orf56	0	broad.mit.edu;hgsc.bcm.edu	37	chr21	47588274	47588274	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtgggcaggctgctctcCgagaaacacaccttcttagg	8	8	12	13	2	2	1	0	0	2	1	3	2	2	1	3	4	2	3	3	4	2	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	47588274	C	T	47588274	2	4	430	1	0	0	0	0	0	0	0	1	2127	639	23	1		1	C21orf56	21	47588274	Silent	SNP	C	TCGA-CW-5581-01A-02D-1534-10		47588274	541621	61	22023											
MAP3K15	389840	broad.mit.edu;hgsc.bcm.edu	37	chrX	19398325	19398325	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atggtgcagcccagggaccaGatatcggctggggcaccata	10	6	14	11	1	0	1	0	0	0	1	1	2	0	2	3	5	2	3	3	5	2	2	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		C	19398325	G	C	19398325	3	2	430	1	0	0	0	0	1	0	0	0	9249	932	33	4	1483	4	MAP3K15	23	19398325	Missense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10		19398325	135872235	62	22024											
KDM5C	8242	ucsc.edu	37	chrX	53222684	53222694	+	Frame_Shift_Del	DEL	TGTGGTTCTCA	TGTGGTTCTCA	-																															ctgcagcagctgccatatgcTgtggttctcatccagggtca																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	TGTGGTTCTCA	TGTGGTTCTCA	TGTGGTTCTCA	-	TGTGGTTCTCA	TGTGGTTCTCA	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	53222694	TGTGGTTCTCA	-	53222684	7	5	430	1	0	1	0	1	0	0	0	0	8135	1580	55	0	536	0	KDM5C	23	53222684	Frame_Shift_Del	DEL	TGTGGTTCTCA	TCGA-CW-5581-01A-02D-1534-10	33824359	53222684	102047876	63	22025											
ARMCX5	64860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101857839	101857841	+	In_Frame_Del	DEL	CTC	CTC	-																															ggttgagaccttgattgaaaCtcctctggggattcgacctt																								novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		-	101857841	CTC	-	101857839	7	5	430	1	0	1	0	1	0	0	0	0	962	565	20	0	772	0	ARMCX5	23	101857839	In_Frame_Del	DEL	CTC	TCGA-CW-5581-01A-02D-1534-10	48635155	101857839	53412721	64	22026											
CAPN6	827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	110494226	110494226	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatcatcatccacagtccaGcatcccaacaccgattccag	12	7	6	16	1	2	0	2	0	0	0	6	2	6	1	5	1	2	1	5	1	1	1	novel		TCGA-CW-5581-01A-02D-1534-10	TCGA-CW-5581-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9dd4c01f-e870-4108-95d7-dc7cc03999ef	9e10c397-7f80-4c05-a536-1bb1fce0a198		T	110494226	G	T	110494226	4	4	430	1	0	0	0	0	0	1	0	0	2630	963	34	4	872	4	CAPN6	23	110494226	Nonsense_Mutation	SNP	G	TCGA-CW-5581-01A-02D-1534-10	8636387	110494226	44776334	65	22027											
VHL	7428	hgsc.bcm.edu	37	chr3	10183734	10183734	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctgcgctcggtgaactCgcgcgagccctcccaggtca	5	7	13	16	6	1	1	1	1	0	0	4	2	2	1	2	2	4	2	2	2	1	0	novel		TCGA-CW-5581-01A-02W-1584-10	TCGA-CW-5581-11A-01W-1585-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq	.	.	PacBio RS	f75c2b3b-b7d6-4364-9abc-65a050b69668	adde7384-5684-4442-b53e-77b0aa93be0d		A	10183734	C	A	10183734	4	1	431	1	0	0	0	0	0	1	0	0	17161	893	31	4	205	4	VHL	3	10183734	Nonsense_Mutation	SNP	C	TCGA-CW-5581-01A-02W-1584-10		10183734	187838696	1	22028											
EPHA10	284656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38186483	38186483	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgtccagggccccatggCtcatgtactcggtgacaatc	8	8	11	14	2	1	1	1	1	0	0	4	1	2	1	4	3	2	2	4	3	2	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	38186483	C	T	38186483	3	4	432	1	0	0	0	0	1	0	0	0	5166	797	28	2	870	2	EPHA10	1	38186483	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10		38186483	211064138	1	22029											
IGSF3	3321	hgsc.bcm.edu	37	chr1	117142613	117142613	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggtcctctccgccagtCgcgtccaggtgttgttgtag	4	12	14	11	3	1	0	0	0	1	0	5	1	3	1	4	3	0	3	4	3	1	3	rs76151115	bycluster;byfrequency	TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	117142613	C	T	117142613	3	4	432	1	0	0	0	0	1	0	0	0	7601	884	31	1	1625	1	IGSF3	1	117142613	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10	78956130	117142613	132108008	2	22030											
CTSS	1520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150724283	150724283	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttgtagggataggaagcgtCtgagtcgatgcccttgttat	8	14	13	6	2	1	1	0	1	1	0	2	4	1	3	1	2	2	2	1	2	4	5	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		G	150724283	C	G	150724283	3	3	432	1	0	0	0	0	1	0	0	0	4041	913	32	4	410	4	CTSS	1	150724283	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10	33581670	150724283	98526338	3	22031											
IFI16	3428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158988366	158988366	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatcatcaacagagcaaaGgaaactctgaagattgatat	20	8	7	6	0	3	4	2	2	1	2	3	5	3	5	0	1	3	1	0	1	7	2	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	158988366	G	A	158988366	2	1	432	1	0	0	0	0	0	0	0	1	7511	991	35	2		2	IFI16	1	158988366	Silent	SNP	G	TCGA-CW-5583-01A-02D-1534-10	8264083	158988366	90262255	4	22032											
SELL	6402	hgsc.bcm.edu;ucsc.edu	37	chr1	169665718	169665718	+	RNA	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatagaaaatagagaaaaGgcattagcaaaaattagaca	25	6	7	3	0	0	3	0	0	0	3	0	4	0	3	0	1	1	2	0	1	12	4	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	169665718	G	A	169665718	1	1	432	0	1	0	0	0	0	0	0	0	14018	1015	35	2		2	SELL	1	169665718	RNA	SNP	G	TCGA-CW-5583-01A-02D-1534-10	10677352	169665718	79584903	5	22033											
PTGS2	5743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186643675	186643675	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcagtgttgatgatttgaAaacccacttctccaccaaaa	14	10	7	10	0	1	3	0	3	1	0	2	3	1	3	3	1	1	2	3	1	4	3	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		C	186643675	A	C	186643675	3	2	432	1	0	0	0	0	1	0	0	0	12758	14	1	5	193	5	PTGS2	1	186643675	Missense_Mutation	SNP	A	TCGA-CW-5583-01A-02D-1534-10	16977957	186643675	62606946	6	22034											
TP53BP2	7159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223983853	223983853	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggctccacatgtaaataTggattctggatttctactgg	9	14	10	8	1	2	0	0	0	2	0	4	2	3	2	1	4	1	2	1	4	4	5	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	223983853	T	A	223983853	2	1	432	1	0	0	0	0	0	0	0	1	16383	1451	51	5		5	TP53BP2	1	223983853	Silent	SNP	T	TCGA-CW-5583-01A-02D-1534-10	37340178	223983853	25266768	7	22035											
BMPR2	659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	203420922	203420922	+	Missense_Mutation	SNP	A	A	T																															agtgacacatagggcccaagAaatgttgcagaatcagttta																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	203420922	A	T	203420922	3	4	432	1	0	0	0	0	1	0	0	0	1471	246	9	5	2580	5	BMPR2	2	203420922	Missense_Mutation	SNP	A	TCGA-CW-5583-01A-02D-1534-10		203420922	39778451	8	22036	305	2									
BMPR2	659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	203420924	203420924	+	Missense_Mutation	SNP	A	A	T																															tgacacatagggcccaagaaAtgttgcagaatcagtttatt																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	203420924	A	T	203420924	3	4	432	1	0	0	0	0	1	0	0	0	1471	101	4	5	2582	5	BMPR2	2	203420924	Missense_Mutation	SNP	A	TCGA-CW-5583-01A-02D-1534-10	2	203420924	39778449	9	22037	305	2									
PTPRN	5798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220159737	220159737	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcgtggaggccggtgtgcCctctgccggccagctgagga	4	6	17	14	4	1	1	0	1	1	0	1	3	1	3	5	5	3	1	5	5	0	0	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	220159737	C	T	220159737	3	4	432	1	0	0	0	0	1	0	0	0	12809	623	22	2	324	2	PTPRN	2	220159737	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10	16738813	220159737	23039636	10	22038											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191569	10191569	+	Frame_Shift_Del	DEL	C	C	-																															tcaggtcgctctacgaagatCtggaagaccacccaaatgtg																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	10191569	C	-	10191569	7	5	432	1	0	1	0	1	0	0	0	0	17161	912	32	0	572	0	VHL	3	10191569	Frame_Shift_Del	DEL	C	TCGA-CW-5583-01A-02D-1534-10		10191569	187830861	11	22039											
C4orf39	0	hgsc.bcm.edu;ucsc.edu	37	chr4	165878425	165878426	+	Frame_Shift_Del	DEL	TC	TC	-																															ctgggagaagcgaatcgtttTctccgcgtgccctgtcagcc																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	165878426	TC	-	165878425	7	5	432	1	0	1	0	1	0	0	0	0	2268	1783	62	0	253	0	C4orf39	4	165878425	Frame_Shift_Del	DEL	TC	TCGA-CW-5583-01A-02D-1534-10		165878425	25275851	12	22040											
ISL1	3670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	50685635	50685635	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggccagatgcgctcatgaagGagcaactggtagagatgacg	12	6	15	8	2	1	4	1	2	0	2	1	6	1	5	1	3	3	3	1	3	3	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		C	50685635	G	C	50685635	3	2	432	1	0	0	0	0	1	0	0	0	7856	1175	41	4	648	4	ISL1	5	50685635	Missense_Mutation	SNP	G	TCGA-CW-5583-01A-02D-1534-10		50685635	130229625	13	22041											
RGMB	285704	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	98115300	98115300	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggtgactgccaacagccAgcccaatgtcgaatccagaa	14	6	9	12	1	0	2	0	1	0	1	2	3	1	2	4	1	4	0	4	1	5	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	98115300	A	T	98115300	2	4	432	1	0	0	0	0	0	0	0	1	13283	175	7	5		5	RGMB	5	98115300	Silent	SNP	A	TCGA-CW-5583-01A-02D-1534-10	47429665	98115300	82799960	14	22042											
ATF6B	1388	hgsc.bcm.edu	37	chr6	32088654	32088655	+	Frame_Shift_Ins	INS	-	-	G																															caggtttgggctgcagtggcINSggcttccgggtgggcagggc																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		G	32088655	-	G	32088654	7	5	432	1	0	1	1	0	0	0	0	0	1085	755	27	0	1429	0	ATF6B	6	32088654	Frame_Shift_Ins	INS	-	TCGA-CW-5583-01A-02D-1534-10		32088654	139026413	15	22043											
EGFL8	80864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	32134517	32134517	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcgggaggtgaggcgggaGgttcagcagacccatgcagt	8	6	19	8	2	1	2	1	1	0	1	1	4	1	4	1	6	2	3	1	6	0	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	32134517	G	A	32134517	2	1	432	1	0	0	0	0	0	0	0	1	4965	991	35	2		2	EGFL8	6	32134517	Silent	SNP	G	TCGA-CW-5583-01A-02D-1534-10	45863	32134517	138980550	16	22044											
MRPL14	64928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44084332	44084332	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgaaggggccccagagcCcagtaaagaaagccatggga	14	3	15	9	0	0	3	0	1	0	2	0	4	0	4	4	4	2	1	4	4	4	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	44084332	C	T	44084332	3	4	432	1	0	0	0	0	1	0	0	0	9779	623	22	2	428	2	MRPL14	6	44084332	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10	11949815	44084332	127030735	17	22045											
LRP11	84918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	150174142	150174142	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacaacatgcgttaccttCatgtccactgacgggtcccc	8	10	9	14	2	1	2	1	2	0	0	3	2	3	2	4	1	3	1	4	1	2	2	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	150174142	C	A	150174142	3	1	432	1	0	0	0	0	1	0	0	0	8953	826	29	4	758	4	LRP11	6	150174142	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10	106089810	150174142	20940925	18	22046											
PON3	5446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94993300	94993300	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcatctcaaaaaatgaCaggagggagttggtaaaata	19	8	10	4	0	2	2	2	1	1	1	3	4	2	4	0	3	0	2	0	3	7	3	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	94993300	C	A	94993300	2	1	432	1	0	0	0	0	0	0	0	1	12250	465	17	4		4	PON3	7	94993300	Silent	SNP	C	TCGA-CW-5583-01A-02D-1534-10		94993300	64145363	19	22047											
UBE3C	9690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156974262	156974262	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagcaagcttccatcaagtAttgaatattctgatttatct	13	15	5	8	0	3	2	1	2	2	0	4	2	4	2	1	0	2	3	1	0	6	7	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		G	156974262	A	G	156974262	3	3	432	1	0	0	0	0	1	0	0	0	16880	449	16	3	693	3	UBE3C	7	156974262	Missense_Mutation	SNP	A	TCGA-CW-5583-01A-02D-1534-10	61980962	156974262	2164401	20	22048											
KIAA1598	57698	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	118719667	118719667	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgttgccaaagcttcagCactttctcgacaagtcttct	8	15	6	12	1	4	0	1	0	3	0	5	1	4	0	1	0	3	3	1	0	2	5	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	118719667	C	T	118719667	3	4	432	1	0	0	0	0	1	0	0	0	8246	710	25	2	1704	2	KIAA1598	10	118719667	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10		118719667	16815080	21	22049											
USP15	9958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	62790158	62790158	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgctgtttccaaccactatgGagggatgggaggaggacact	10	9	14	8	0	0	0	0	0	0	0	1	5	1	5	2	5	2	2	2	5	2	2	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		C	62790158	G	C	62790158	3	2	432	1	0	0	0	0	1	0	0	0	17045	1174	41	4	2641	4	USP15	12	62790158	Missense_Mutation	SNP	G	TCGA-CW-5583-01A-02D-1534-10		62790158	71061737	22	22050											
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105418731	105418731	+	Frame_Shift_Del	DEL	G	G	-																															ggtgcagacacatccaccaaGgccttgatggacttccctgg																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	105418731	G	-	105418731	7	5	432	1	0	1	0	1	0	0	0	0	415	987	35	0	14334	0	AHNAK2	14	105418731	Frame_Shift_Del	DEL	G	TCGA-CW-5583-01A-02D-1534-10		105418731	1930809	23	22051											
LRRK1	79705	broad.mit.edu;hgsc.bcm.edu	37	chr15	101606305	101606305	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acatacgcccggtgctgcctCcgacaggtctgagcatgacc	8	7	11	15	3	1	2	0	2	1	0	2	3	2	2	4	2	4	2	4	2	1	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	101606305	C	T	101606305	3	4	432	1	0	0	0	0	1	0	0	0	9032	855	30	2	5785	2	LRRK1	15	101606305	Missense_Mutation	SNP	C	TCGA-CW-5583-01A-02D-1534-10		101606305	925087	24	22052											
TRAP1	10131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3726076	3726076	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaactccttgcagtcggAtttcaggtggatgatgattt	10	13	12	6	1	1	2	1	2	0	0	3	5	2	5	1	4	2	1	1	4	2	3	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		G	3726076	A	G	3726076	3	3	432	1	0	0	0	0	1	0	0	0	16454	333	12	3	1387	3	TRAP1	16	3726076	Missense_Mutation	SNP	A	TCGA-CW-5583-01A-02D-1534-10		3726076	86628677	25	22053											
TMCO7	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68953056	68953056	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatcaggcagagagcacCgtggaatcacagacgctgag	12	4	13	12	2	2	3	2	1	0	2	2	5	2	4	2	2	1	3	2	2	1	0	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	68953056	C	A	68953056	2	1	432	1	0	0	0	0	0	0	0	1	16000	639	23	4		4	TMCO7	16	68953056	Silent	SNP	C	TCGA-CW-5583-01A-02D-1534-10	65226980	68953056	21401697	26	22054											
MYH3	4621	hgsc.bcm.edu;ucsc.edu	37	chr17	10537344	10537344	+	Frame_Shift_Del	DEL	C	C	-																															aatagcttacgctctaagttCttattttcccgtttcacagt																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	10537344	C	-	10537344	7	5	432	1	0	1	0	1	0	0	0	0	10036	912	32	0	1350	0	MYH3	17	10537344	Frame_Shift_Del	DEL	C	TCGA-CW-5583-01A-02D-1534-10		10537344	70657866	27	22055	306	2									
MYH3	4621	hgsc.bcm.edu;ucsc.edu	37	chr17	10537346	10537347	+	Frame_Shift_Del	DEL	TA	TA	-																															tagcttacgctctaagttctTattttcccgtttcacagttt																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	10537347	TA	-	10537346	7	5	432	1	0	1	0	1	0	0	0	0	10036	1763	61	0	1352	0	MYH3	17	10537346	Frame_Shift_Del	DEL	TA	TCGA-CW-5583-01A-02D-1534-10	2	10537346	70657864	28	22056	306	2									
OSBPL1A	114876	hgsc.bcm.edu;ucsc.edu	37	chr18	21898718	21898721	+	Frame_Shift_Del	DEL	ACCA	ACCA	-																															tcattactctgtaccttattAccaacaagaatgtgtttcat																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	ACCA	ACCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	21898721	ACCA	-	21898718	7	5	432	1	0	1	0	1	0	0	0	0	11277	378	14	0	2255	0	OSBPL1A	18	21898718	Frame_Shift_Del	DEL	ACCA	TCGA-CW-5583-01A-02D-1534-10		21898718	56178530	29	22057											
ZNF653	115950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11598181	11598181	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taccctcgggctctgtctggGtgtaggctgccacaccctcc	4	10	11	16	1	2	0	0	0	2	0	4	0	3	0	4	3	2	3	4	3	2	2	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		A	11598181	G	A	11598181	3	1	432	1	0	0	0	0	1	0	0	0	18065	1261	44	2	774	2	ZNF653	19	11598181	Missense_Mutation	SNP	G	TCGA-CW-5583-01A-02D-1534-10		11598181	47530802	30	22058											
NOTCH3	4854	broad.mit.edu;hgsc.bcm.edu	37	chr19	15290202	15290202	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcctgggggacaggagcagaGatagcgggccacgaggtcaa	11	4	17	9	2	1	1	1	0	0	1	2	5	2	3	2	5	2	1	2	5	2	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		C	15290202	G	C	15290202	3	2	432	1	0	0	0	0	1	0	0	0	10550	942	33	4	3584	4	NOTCH3	19	15290202	Missense_Mutation	SNP	G	TCGA-CW-5583-01A-02D-1534-10	3692021	15290202	43838781	31	22059											
GIPR	2696	broad.mit.edu	37	chr19	46185190	46185190	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggagttggaaagttactgCtagggggcgggatccccgtg	7	8	18	8	3	0	0	0	0	0	0	1	3	1	3	2	5	2	3	2	5	3	3	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		T	46185190	T	T	46185190	2	4	432	1	0	0	0	0	0	0	0	1	6395	805	28	2		2	GIPR	19	46185190	Silent	SNP	C	TCGA-CW-5583-01A-02D-1534-10	30894988	46185190	12943793	32	22060											
MOCS3	27304	broad.mit.edu	37	chr20	49575435	49575435	+	Frame_Shift_Del	DEL	A	-	-																															tgaagttgcccaacgtgaggAggaattgaattcgctgaagc																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	49575435	-	-	49575435	7	5	432	1	0	1	0	1	0	0	0	0	9692	304	11	0	58	0	MOCS3	20	49575435	Frame_Shift_Del	DEL	A	TCGA-CW-5583-01A-02D-1534-10		49575435	13450085	33	22061											
MORC2	22880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	31328363	31328363	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccagaggaaaagatattaGctcatctgaattcatagcac	16	9	7	9	0	3	3	2	1	1	2	3	4	3	4	1	1	2	2	1	1	6	4	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		C	31328363	G	C	31328363	3	2	432	1	0	0	0	0	1	0	0	0	9702	962	34	4	286	4	MORC2	22	31328363	Missense_Mutation	SNP	G	TCGA-CW-5583-01A-02D-1534-10		31328363	19976203	34	22062											
VCX	26609	hgsc.bcm.edu	37	chrX	7811830	7811859	+	In_Frame_Del	DEL	GAACCACTGAGTCAGGAGAGCGAGGTGGAA	GAACCACTGAGTCAGGAGAGCGAGGTGGAA	-																															gtcaggagagccaggtggagGaaccactgagtcaggagagc																								novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	GAACCACTGAGTCAGGAGAGCGAGGTGGAA	GAACCACTGAGTCAGGAGAGCGAGGTGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		-	7811859	GAACCACTGAGTCAGGAGAGCGAGGTGGAA	-	7811830	7	5	432	1	0	1	0	1	0	0	0	0	17141	1175	41	0	400	0	VCX	23	7811830	In_Frame_Del	DEL	GAACCACTGAGTCAGGAGAGCGAGGTGGAA	TCGA-CW-5583-01A-02D-1534-10		7811830	147458730	35	22063											
TFDP3	51270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	132351243	132351243	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagaaagccacgtgccatTagacctggaacctgccgtcg	10	6	12	13	3	0	2	0	0	0	2	1	3	0	3	5	2	4	1	5	2	3	1	novel		TCGA-CW-5583-01A-02D-1534-10	TCGA-CW-5583-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2cb6b578-8543-4a12-8331-1721ddc47303	1e656287-a1d9-4273-bbd2-c4909d29366d		G	132351243	T	G	132351243	3	3	432	1	0	0	0	0	1	0	0	0	15798	1754	61	5	176	5	TFDP3	23	132351243	Missense_Mutation	SNP	T	TCGA-CW-5583-01A-02D-1534-10	124539413	132351243	22919317	36	22064											
UBXN11	91544	broad.mit.edu;ucsc.edu	37	chr1	26609138	26609138	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggccctgccctgcacccAcctggcctgcgctagcagag	5	6	11	19	1	0	1	0	0	0	1	0	1	0	1	6	2	4	3	6	2	1	1	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	26609138	C	C	26609138	5	2	433	1	0	0	0	0	0	0	1	0	16912	173	6	5	276	5	UBXN11	1	26609138	Splice_Site	SNP	A	TCGA-CW-5585-01A-01D-1534-10		26609138	222641483	1	22065											
WARS2	10352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	119575670	119575670	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaatttcacgcttaattGgggcaaacttctcaatcaca	12	14	5	10	1	4	0	4	0	1	0	5	0	4	0	0	2	1	2	0	2	4	5	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	119575670	G	C	119575670	3	2	433	1	0	0	0	0	1	0	0	0	17249	1348	47	4	139	4	WARS2	1	119575670	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	92966532	119575670	129674951	2	22066											
THBS3	7059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155169611	155169612	+	Frame_Shift_Del	DEL	CA	CA	-																															ttacctgtcttcattagtatCacagacatcccccaccaggt																								novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		-	155169612	CA	-	155169611	7	5	433	1	0	1	0	1	0	0	0	0	15854	826	29	0	1038	0	THBS3	1	155169611	Frame_Shift_Del	DEL	CA	TCGA-CW-5585-01A-01D-1534-10	35593941	155169611	94081010	3	22067											
USP34	9736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61575328	61575328	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgccttgggagtcccccagGcaaatgcctgcttgactctc	7	10	10	14	0	1	1	0	1	1	0	3	2	2	2	4	2	3	2	4	2	1	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	61575328	G	A	61575328	2	1	433	1	0	0	0	0	0	0	0	1	17064	1195	42	2		2	USP34	2	61575328	Silent	SNP	G	TCGA-CW-5585-01A-01D-1534-10		61575328	181624045	4	22068											
AFF3	3899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	100623119	100623119	+	Frame_Shift_Del	DEL	T	T	-																															cctgcttggggatgctgaacTtggagagcttggccttggct																								novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		-	100623119	T	-	100623119	7	5	433	1	0	1	0	1	0	0	0	0	358	1609	56	0	2908	0	AFF3	2	100623119	Frame_Shift_Del	DEL	T	TCGA-CW-5585-01A-01D-1534-10	39047791	100623119	142576254	5	22069											
RBM43	375287	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	152107578	152107581	+	Frame_Shift_Del	DEL	TCTC	TCTC	-																															tgcccttttgatcattctttTctctctattttcctttcctt																								novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	TCTC	TCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		-	152107581	TCTC	-	152107578	7	5	433	1	0	1	0	1	0	0	0	0	13139	1792	62	0	161	0	RBM43	2	152107578	Frame_Shift_Del	DEL	TCTC	TCGA-CW-5585-01A-01D-1534-10	51484459	152107578	91091795	6	22070											
SCN3A	6328	broad.mit.edu;ucsc.edu	37	chr2	165946947	165946947	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgaaattacgctgaatgaTagcggcagacacctcctctt	11	11	8	11	2	2	4	0	3	2	1	3	4	3	4	2	1	2	2	2	1	4	3	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	165946947	C	C	165946947	3	2	433	1	0	0	0	0	1	0	0	0	13920	1406	49	3	290	3	SCN3A	2	165946947	Missense_Mutation	SNP	T	TCGA-CW-5585-01A-01D-1534-10	13839369	165946947	77252426	7	22071											
OSBPL6	114880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179255817	179255817	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtgaattattggaattcTaacatgaatgaagtccaggg	14	11	11	5	0	1	3	0	3	1	0	2	4	2	4	1	3	1	0	1	3	6	4	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		G	179255817	T	G	179255817	2	3	433	1	0	0	0	0	0	0	0	1	11281	1509	53	5		5	OSBPL6	2	179255817	Silent	SNP	T	TCGA-CW-5585-01A-01D-1534-10	13308870	179255817	63943556	8	22072											
ABCA12	26154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215839587	215839587	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgtgctcgggtgataatTactgcaatatgaaaggacag	12	11	11	7	2	0	2	0	2	0	0	2	3	1	3	1	2	3	2	1	2	5	4	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	215839587	T	A	215839587	3	1	433	1	0	0	0	0	1	0	0	0	30	1768	61	5	2480	5	ABCA12	2	215839587	Missense_Mutation	SNP	T	TCGA-CW-5585-01A-01D-1534-10	36583770	215839587	27359786	9	22073											
APPL1	26060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	57291081	57291081	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctgcggccagcagcagggTaagttaccacactgagttat	10	8	12	11	1	0	1	0	1	0	0	0	1	0	1	3	2	4	5	3	2	3	3	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	57291081	T	A	57291081	5	1	433	1	0	0	0	0	0	0	1	0	817	1652	57	5	1303	5	APPL1	3	57291081	Splice_Site	SNP	T	TCGA-CW-5585-01A-01D-1534-10		57291081	140731349	10	22074											
UBA5	79876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	132389115	132389115	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaaactttcaacatttcAtggatagaataaggtaaaat	18	12	7	4	0	2	1	2	0	0	1	2	3	2	3	0	3	2	1	0	3	8	5	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		G	132389115	A	G	132389115	3	3	433	1	0	0	0	0	1	0	0	0	16829	217	8	3	499	3	UBA5	3	132389115	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10	75098034	132389115	65633315	11	22075											
CPB1	1360	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	148559631	148559631	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggcaaagctggacaaaatAagcctgccattttcatggac	13	10	9	9	0	1	0	1	0	0	0	1	2	1	2	2	3	3	2	2	3	4	4	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	148559631	A	T	148559631	4	4	433	1	0	0	0	0	0	1	0	0	3796	363	13	5	518	5	CPB1	3	148559631	Nonsense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10	16170516	148559631	49462799	12	22076											
KLHL24	54800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	183390233	183390233	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactgttacgatccagttgaAgattactggatgcacgtaca	12	12	9	8	2	0	2	0	1	0	1	1	4	1	3	1	1	5	4	1	1	5	5	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	183390233	A	C	183390233	3	2	433	1	0	0	0	0	1	0	0	0	8379	69	3	5	1581	5	KLHL24	3	183390233	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10	34830602	183390233	14632197	13	22077											
MUC4	4585	broad.mit.edu	37	chr3	195509322	195509322	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgctgaggaagtgtcggtGacaggaagcggggtggcgtg	8	7	21	5	3	0	2	0	2	0	0	1	5	0	4	0	6	2	1	0	6	2	0	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	195509322	A	A	195509322	2	1	433	1	0	0	0	0	0	0	0	1	9978	1277	45	2		2	MUC4	3	195509322	Silent	SNP	G	TCGA-CW-5585-01A-01D-1534-10	12119089	195509322	2513108	14	22078											
PDGFRA	5156	broad.mit.edu	37	chr4	55156677	55156677	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attcctctgcctgacattgaCcctgtccctgaggaggagga	8	10	11	12	0	1	3	0	3	1	0	3	6	3	6	4	3	1	0	4	3	0	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	55156677	A	A	55156677	3	1	433	1	0	0	0	0	1	0	0	0	11661	506	18	4	3160	4	PDGFRA	4	55156677	Missense_Mutation	SNP	C	TCGA-CW-5585-01A-01D-1534-10		55156677	135997599	15	22079											
POLR2B	5431	broad.mit.edu;ucsc.edu	37	chr4	57887152	57887152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgttcagctgtagaccgcgGcttcttcaggttagtatttt	6	16	10	9	3	3	1	2	0	1	1	4	1	3	1	1	2	1	6	1	2	3	8	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	57887152	A	A	57887152	3	1	433	1	0	0	0	0	1	0	0	0	12215	1203	42	2	2477	2	POLR2B	4	57887152	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	2730475	57887152	133267124	16	22080											
DDIT4L	115265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	101108875	101108875	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttccaatcagtgagtaaaGttttttcttaacaagtcgaa	13	15	7	6	1	2	1	1	1	1	0	4	2	3	1	1	0	1	3	1	0	6	6	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	101108875	G	C	101108875	3	2	433	1	0	0	0	0	1	0	0	0	4332	1029	36	4	44	4	DDIT4L	4	101108875	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	43221723	101108875	90045401	17	22081											
VCAN	1462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	82834255	82834255	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaccactgagcacagcagTatccatcaacctggggttca	12	7	9	13	0	2	2	2	1	0	1	3	2	3	2	3	2	3	4	3	2	2	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	82834255	T	C	82834255	2	2	433	1	0	0	0	0	0	0	0	1	17137	1635	57	3		3	VCAN	5	82834255	Silent	SNP	T	TCGA-CW-5585-01A-01D-1534-10		82834255	98081005	18	22082											
PRPS1L1	221823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	18066846	18066846	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgaatcaaagcaaagtccAcattcaactggtctgcaatg	15	10	7	9	0	3	1	2	1	1	0	4	1	4	1	1	1	3	2	1	1	6	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		G	18066846	A	G	18066846	3	3	433	1	0	0	0	0	1	0	0	0	12581	159	6	3	400	3	PRPS1L1	7	18066846	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10		18066846	141071817	19	22083											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48312610	48312610	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaaattattcaacaagtgAggagtcttcatttgtttttc	11	17	7	6	1	3	1	2	1	1	0	4	2	3	2	0	1	1	2	0	1	5	7	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		G	48312610	A	G	48312610	3	3	433	1	0	0	0	0	1	0	0	0	31	304	11	3	3242	3	ABCA13	7	48312610	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10	30245764	48312610	110826053	20	22084											
PRUNE2	158471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79318764	79318764	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggaagcttgctaactgagTtccctgcagccctgtttctt	6	14	10	11	0	1	1	0	1	1	0	2	2	2	2	2	1	5	5	2	1	2	5	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	79318764	T	C	79318764	3	2	433	1	0	0	0	0	1	0	0	0	12643	1725	60	3	1545	3	PRUNE2	9	79318764	Missense_Mutation	SNP	T	TCGA-CW-5585-01A-01D-1534-10		79318764	61894667	21	22085											
SVEP1	79987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	113169878	113169878	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtttgatgaatgtgtagcagGagactcctttgtattttccc	8	16	10	7	0	0	3	0	2	0	1	2	4	2	3	2	1	1	4	2	1	3	6	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	113169878	G	C	113169878	3	2	433	1	0	0	0	0	1	0	0	0	15419	1174	41	4	2757	4	SVEP1	9	113169878	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	33851114	113169878	28043553	22	22086											
KIAA0368	23392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114132845	114132845	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctttgctacattccttcAgaacagcttgaagaatttca	11	15	5	10	0	3	3	2	1	1	2	5	3	4	3	1	0	4	2	1	0	4	6	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	114132845	A	T	114132845	3	4	433	1	0	0	0	0	1	0	0	0	8171	188	7	5	699	5	KIAA0368	9	114132845	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10	962967	114132845	27080586	23	22087											
ODF2	4957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131256871	131256871	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggaggcgaagctggctgAgtgccaagaccaactgcagg	11	4	15	11	2	0	2	0	1	0	1	0	4	0	3	2	4	4	3	2	4	3	0	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		G	131256871	A	G	131256871	3	3	433	1	0	0	0	0	1	0	0	0	10827	304	11	3	1952	3	ODF2	9	131256871	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10	17124026	131256871	9956560	24	22088											
PDSS1	23590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26994248	26994248	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccagacagtaaaacacaCagtggtgaaaaatacaccga	19	4	7	11	1	0	2	0	1	0	1	0	3	0	2	3	1	2	1	3	1	5	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	26994248	C	A	26994248	3	1	433	1	0	0	0	0	1	0	0	0	11693	477	17	4	275	4	PDSS1	10	26994248	Missense_Mutation	SNP	C	TCGA-CW-5585-01A-01D-1534-10		26994248	108540499	25	22089											
DCHS1	8642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	6652328	6652328	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcgaggagggctgccttGgtcatgagcactcagtgtca	8	10	13	10	1	3	1	3	1	0	0	4	3	3	2	1	3	2	2	1	3	0	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	6652328	G	T	6652328	3	4	433	1	0	0	0	0	1	0	0	0	4287	1357	47	4	6062	4	DCHS1	11	6652328	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10		6652328	128354188	26	22090											
FADS2	9415	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61624985	61624985	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcatcatgaccatgatcGtccataagaactgggtggtg	12	10	11	8	1	2	4	2	2	0	2	4	4	3	4	2	2	1	0	2	2	2	1	rs140356378		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	61624985	G	A	61624985	3	1	433	1	0	0	0	0	1	0	0	0	5366	1145	40	1	891	1	FADS2	11	61624985	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	54972657	61624985	73381531	27	22091											
OMP	4975	broad.mit.edu	37	chr11	76814080	76814080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcagcagcggctacagttCgagcgctggaatgtcgtgct	8	8	14	11	4	0	0	0	0	0	0	2	2	0	1	0	2	6	6	0	2	2	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	76814080	T	T	76814080	2	4	433	1	0	0	0	0	0	0	0	1	10867	883	31	1		1	OMP	11	76814080	Silent	SNP	C	TCGA-CW-5585-01A-01D-1534-10	15189095	76814080	58192436	28	22092											
TPI1	7167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6978057	6978057	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctccccctactgcctatAtcgacttcgcccggcagaag	7	9	9	16	3	0	1	0	0	0	1	3	2	1	1	4	1	3	2	4	1	4	4	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		G	6978057	A	G	6978057	3	3	433	1	0	0	0	0	1	0	0	0	16402	449	16	3	262	3	TPI1	12	6978057	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10		6978057	126873838	29	22093											
NXPH4	11247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57619419	57619419	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcctggctctgtgccaaGcccttcaaagtcatctgtat	7	11	9	14	1	4	0	2	0	2	0	4	0	4	0	4	1	2	2	4	1	3	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	57619419	G	A	57619419	2	1	433	1	0	0	0	0	0	0	0	1	10793	962	34	2		2	NXPH4	12	57619419	Silent	SNP	G	TCGA-CW-5585-01A-01D-1534-10	50641362	57619419	76232476	30	22094											
CEP290	80184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	88514013	88514013	+	Frame_Shift_Del	DEL	T	T	-																															ttttaatttggtttttacaaTtctttatttcaacgacagca																								novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		-	88514013	T	-	88514013	7	5	433	1	0	1	0	1	0	0	0	0	3253	1493	52	0	6199	0	CEP290	12	88514013	Frame_Shift_Del	DEL	T	TCGA-CW-5585-01A-01D-1534-10	30894594	88514013	45337882	31	22095											
COL4A2	1284	broad.mit.edu	37	chr13	111125466	111125466	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgggcttaaaggcctTcccggagacagaggcccccc	8	5	12	16	1	0	2	0	0	0	2	1	3	1	2	6	4	1	1	6	4	2	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	111125466	A	A	111125466	2	1	433	1	0	0	0	0	0	0	0	1	3690	1770	62	5		5	COL4A2	13	111125466	Silent	SNP	T	TCGA-CW-5585-01A-01D-1534-10		111125466	4044412	32	22096											
ARHGEF7	8874	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	111953859	111953859	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgtatatgcattaaaggatGaagttcaagaattaagacag	17	10	9	5	1	1	3	1	1	0	2	1	4	1	4	1	1	1	3	1	1	8	5	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	111953859	G	A	111953859	3	1	433	1	0	0	0	0	1	0	0	0	911	1291	45	2	2633	2	ARHGEF7	13	111953859	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	828393	111953859	3216019	33	22097											
SOCS4	122809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55510990	55510991	+	Frame_Shift_Ins	INS	-	-	T																															tggcatcgatgcccttccaaINSttccttcttctatgaaatta																								novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	55510991	-	T	55510990	7	5	433	1	0	1	1	0	0	0	0	0	14918	101	4	0	1233	0	SOCS4	14	55510990	Frame_Shift_Ins	INS	-	TCGA-CW-5585-01A-01D-1534-10		55510990	51838550	34	22098											
SLC28A2	9153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45559654	45559654	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttctccgtgtttgtagaCagaggcacctctgctcatcc	6	14	9	12	1	3	2	1	0	2	2	5	2	4	2	3	1	1	5	3	1	1	4	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	45559654	C	T	45559654	3	4	433	1	0	0	0	0	1	0	0	0	14534	492	17	2	982	2	SLC28A2	15	45559654	Missense_Mutation	SNP	C	TCGA-CW-5585-01A-01D-1534-10		45559654	56971738	35	22099											
TRPM7	54822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50891477	50891477	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagccataatcactacaatgTagaacatattggccacctgt	14	10	7	10	0	1	1	1	0	0	1	1	2	1	1	3	1	3	1	3	1	6	5	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	50891477	T	C	50891477	3	2	433	1	0	0	0	0	1	0	0	0	16590	1638	57	3	2664	3	TRPM7	15	50891477	Missense_Mutation	SNP	T	TCGA-CW-5585-01A-01D-1534-10	5331823	50891477	51639915	36	22100											
FAM63B	54629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59146745	59146745	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaatagtgaacgtaaacGgaaggaaccacgagaaaaag	19	4	13	5	3	0	2	0	1	0	1	0	6	0	5	1	3	3	1	1	3	9	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	59146745	G	A	59146745	3	1	433	1	0	0	0	0	1	0	0	0	5597	1116	39	1	1836	1	FAM63B	15	59146745	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	8255268	59146745	43384647	37	22101											
BRD7	29117	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50357601	50357601	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcacgtggccaaaaacTcatggatgctgcaagagaca	13	7	11	10	1	1	1	1	0	0	1	1	3	1	2	1	3	3	3	1	3	3	1	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	50357601	T	C	50357601	3	2	433	1	0	0	0	0	1	0	0	0	1505	1551	54	3	642	3	BRD7	16	50357601	Missense_Mutation	SNP	T	TCGA-CW-5585-01A-01D-1534-10		50357601	39997152	38	22102											
TAF1C	9013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	84215642	84215642	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aattggggattgtcacctggGgtcagaacgacctcttggaa	10	10	13	8	1	3	1	2	0	1	1	3	4	3	3	2	5	1	0	2	5	3	3	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	84215642	G	T	84215642	2	4	433	1	0	0	0	0	0	0	0	1	15520	1219	43	4		4	TAF1C	16	84215642	Silent	SNP	G	TCGA-CW-5585-01A-01D-1534-10	33858041	84215642	6139111	39	22103											
GEMIN4	50628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	649388	649388	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggggtttcacgggactcAtcaggcagttcaggagctct	7	11	13	10	1	5	0	4	0	1	0	5	2	5	2	0	5	1	4	0	5	0	3	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	649388	A	T	649388	3	4	433	1	0	0	0	0	1	0	0	0	6330	217	8	5	1285	5	GEMIN4	17	649388	Missense_Mutation	SNP	A	TCGA-CW-5585-01A-01D-1534-10		649388	80545822	40	22104											
FBN3	84467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8196481	8196481	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagggctccccaaaaccGtggtccggattggcacagca	9	6	13	13	2	0	0	0	0	0	0	2	1	2	1	4	5	2	4	4	5	2	1	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	8196481	G	A	8196481	2	1	433	1	0	0	0	0	0	0	0	1	5704	1136	40	1		1	FBN3	19	8196481	Silent	SNP	G	TCGA-CW-5585-01A-01D-1534-10		8196481	50932502	41	22105											
LASS4	0	hgsc.bcm.edu;ucsc.edu	37	chr19	8322788	8322790	+	In_Frame_Del	DEL	AGT	AGT	-																															taagatggtcaactacatgcAgtatcagcaagtgtgcgacg																								novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	AGT	AGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		-	8322790	AGT	-	8322788	7	5	433	1	0	1	0	1	0	0	0	0	8641	188	7	0	797	0	LASS4	19	8322788	In_Frame_Del	DEL	AGT	TCGA-CW-5585-01A-01D-1534-10	126307	8322788	50806195	42	22106											
RTN2	6253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45997582	45997582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcgatcgggatggggacGgagtaccggcctggggtgtc	5	7	19	10	5	0	0	0	0	0	0	3	4	0	3	2	7	1	1	2	7	1	1	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	45997582	G	A	45997582	3	1	433	1	0	0	0	0	1	0	0	0	13728	1116	39	1	1013	1	RTN2	19	45997582	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	37674794	45997582	13131401	43	22107											
SLC27A5	10998	broad.mit.edu;hgsc.bcm.edu	37	chr19	59011001	59011001	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacagctctcgggggccgcGgtagcccacgaagggttgct	6	6	16	13	5	1	0	0	0	1	0	2	2	1	0	2	4	3	4	2	4	2	2	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	59011001	G	A	59011001	3	1	433	1	0	0	0	0	1	0	0	0	14531	1116	39	1	563	1	SLC27A5	19	59011001	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10	13013419	59011001	117982	44	22108											
SLC12A5	57468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44663593	44663593	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctcccttctcaggtgatgGcaaccccaaggaaagcagtc	10	8	9	14	0	2	1	1	1	2	0	5	2	2	2	3	3	2	2	3	3	3	1	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	44663593	G	A	44663593	3	1	433	1	0	0	0	0	1	0	0	0	14388	1203	42	2	190	2	SLC12A5	20	44663593	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10		44663593	18361927	45	22109											
ZNF512B	57473	broad.mit.edu	37	chr20	62595905	62595905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgcagccttcagtgccTccatgccccctgacggcctg	4	8	11	18	1	1	1	1	1	0	0	2	1	2	1	7	2	4	1	7	2	0	1	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		C	62595905	C	C	62595905	3	2	433	1	0	0	0	0	1	0	0	0	17956	1551	54	3	1527	3	ZNF512B	20	62595905	Missense_Mutation	SNP	T	TCGA-CW-5585-01A-01D-1534-10	17932312	62595905	429615	46	22110											
UMODL1	89766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	43533907	43533907	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaaagcatgtgggaaaGaaggtgccagagctcatctg	12	7	14	8	0	2	2	1	0	1	2	2	3	2	3	2	3	3	2	2	3	3	0	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		T	43533907	G	T	43533907	4	4	433	1	0	0	0	0	0	1	0	0	16979	943	33	4	2759	4	UMODL1	21	43533907	Nonsense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10		43533907	4595988	47	22111											
MAGEE2	139599	broad.mit.edu;hgsc.bcm.edu	37	chrX	75003527	75003527	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggattagagtaggacagtgGcctgcattccagatagcgct	10	10	13	8	1	0	2	0	0	0	2	1	4	1	4	2	3	2	3	2	3	3	4	novel		TCGA-CW-5585-01A-01D-1534-10	TCGA-CW-5585-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bd6d9aa8-d0ef-4810-a43c-eacdd846c44e	f3f5f3ab-e4d6-418a-aca2-feff7f19abd2		A	75003527	G	A	75003527	3	1	433	1	0	0	0	0	1	0	0	0	9186	1203	42	2	215	2	MAGEE2	23	75003527	Missense_Mutation	SNP	G	TCGA-CW-5585-01A-01D-1534-10		75003527	80267033	48	22112											
EIF4G3	8672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21167484	21167484	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacaaaaacatgtagtaggCcctgggcattcagctcttcc	11	10	8	12	0	3	0	2	0	1	0	4	0	4	0	2	2	2	4	2	2	4	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	21167484	C	A	21167484	3	1	434	1	0	0	0	0	1	0	0	0	5038	739	26	4	1031	4	EIF4G3	1	21167484	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10		21167484	228083137	1	22113											
RIMS3	9783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	41092246	41092246	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgggacaggcgcctggtGagggatccgagtgtggagtc	7	7	19	8	2	0	1	0	1	0	0	2	6	1	4	2	5	0	0	2	5	0	0	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	41092246	G	T	41092246	2	4	434	1	0	0	0	0	0	0	0	1	13371	1277	45	4		4	RIMS3	1	41092246	Silent	SNP	G	TCGA-CW-5588-01A-01D-1534-10	19924762	41092246	208158375	2	22114											
CYP4B1	1580	hgsc.bcm.edu;ucsc.edu	37	chr1	47282767	47282767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccatgtgcatcaaggagaGcttccgcctctacccacctg	9	8	9	15	1	2	1	1	0	1	1	3	3	3	1	5	1	3	2	5	1	2	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	47282767	G	A	47282767	3	1	434	1	0	0	0	0	1	0	0	0	4185	971	34	2	1155	2	CYP4B1	1	47282767	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	6190521	47282767	201967854	3	22115											
ADAR	103	broad.mit.edu;hgsc.bcm.edu	37	chr1	154569310	154569310	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggaggtccggactggtcGaccaacttgaattcagcagc	10	8	13	10	2	1	2	1	2	0	0	3	5	2	4	2	4	3	1	2	4	2	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	154569310	G	A	154569310	2	1	434	1	0	0	0	0	0	0	0	1	281	1045	37	1		1	ADAR	1	154569310	Silent	SNP	G	TCGA-CW-5588-01A-01D-1534-10	107286543	154569310	94681311	4	22116											
FLAD1	80308	broad.mit.edu;ucsc.edu	37	chr1	154956241	154956241	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcttgtcaaggatctggtTagagaagactagggtcttcc	9	12	12	8	1	3	2	1	0	2	2	5	4	4	3	1	3	0	2	1	3	4	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	154956241	A	A	154956241	4	1	434	1	0	0	0	0	0	1	0	0	5920	1764	61	5	73	5	FLAD1	1	154956241	Nonsense_Mutation	SNP	T	TCGA-CW-5588-01A-01D-1534-10	386931	154956241	94294380	5	22117											
GPR37L1	9283	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202092521	202092521	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgctggtggtgtttgcggtgGgcattgtgggcaacctgtcg	3	12	18	8	3	0	0	0	0	0	0	1	0	0	0	1	5	2	4	1	5	1	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	202092521	G	T	202092521	3	4	434	1	0	0	0	0	1	0	0	0	6692	1232	43	4	432	4	GPR37L1	1	202092521	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	47136280	202092521	47158100	6	22118											
OR2T12	127064	broad.mit.edu;hgsc.bcm.edu	37	chr1	248458390	248458390	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgcaccgcaatatgggAagctcagggtagcaacagcc	11	6	13	11	2	1	0	1	0	0	0	1	1	1	1	2	2	5	5	2	2	5	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	248458390	A	G	248458390	3	3	434	1	0	0	0	0	1	0	0	0	11019	246	9	3	474	3	OR2T12	1	248458390	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	46365869	248458390	792231	7	22119											
OR2T4	127074	hgsc.bcm.edu	37	chr1	248525328	248525329	+	Frame_Shift_Ins	INS	-	-	TA																															gaatttttccttctagccacINScatggcctatgaccgctacg																								rs61248663	bycluster;by1000genomes	TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		TA	248525329	-	TA	248525328	7	5	434	1	0	1	1	0	0	0	0	0	11027	507	18	0	448	0	OR2T4	1	248525328	Frame_Shift_Ins	INS	-	TCGA-CW-5588-01A-01D-1534-10	66938	248525328	725293	8	22120											
ASXL2	55252	hgsc.bcm.edu;ucsc.edu	37	chr2	26068366	26068368	+	In_Frame_Del	DEL	CTT	CTT	-																															tcacctgatttcttttagtcCttctctctggataacttgaa																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		-	26068368	CTT	-	26068366	7	5	434	1	0	1	0	1	0	0	0	0	1067	690	24	0	4227	0	ASXL2	2	26068366	In_Frame_Del	DEL	CTT	TCGA-CW-5588-01A-01D-1534-10		26068366	217131007	9	22121											
ANKRD36	375248	broad.mit.edu;hgsc.bcm.edu	37	chr2	97849372	97849372	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgccacaagaataatgggTggtgggaaatctggaacagg	14	8	14	5	0	1	1	0	0	1	1	1	3	1	3	1	5	2	0	1	5	5	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	97849372	T	C	97849372	2	2	434	1	0	0	0	0	0	0	0	1	665	1683	59	3		3	ANKRD36	2	97849372	Silent	SNP	T	TCGA-CW-5588-01A-01D-1534-10	71781006	97849372	145350001	10	22122											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	168103910	168103910	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcagtcaaactatggggaAatcttgccatggcaatttag	12	12	9	8	0	3	0	2	0	2	0	4	1	3	1	1	3	2	1	1	3	5	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	168103910	A	T	168103910	3	4	434	1	0	0	0	0	1	0	0	0	17429	14	1	5	6038	5	XIRP2	2	168103910	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	70254538	168103910	75095463	11	22123											
HOXD3	3232	broad.mit.edu	37	chr2	177033982	177033982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacggctacagcaccccccAccagccctacccaccccctg	8	5	5	23	1	0	0	0	0	0	0	0	0	0	0	8	1	5	2	8	1	3	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	177033982	C	C	177033982	3	2	434	1	0	0	0	0	1	0	0	0	7323	159	6	5	142	5	HOXD3	2	177033982	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	8930072	177033982	66165391	12	22124											
HECW2	57520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197194348	197194348	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcaggtttcctgaagcAcctccctccatgccttctgc	7	11	8	15	0	1	1	0	1	1	0	4	2	4	1	5	1	4	3	5	1	2	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	197194348	A	T	197194348	2	4	434	1	0	0	0	0	0	0	0	1	7043	146	6	5		5	HECW2	2	197194348	Silent	SNP	A	TCGA-CW-5588-01A-01D-1534-10	20160366	197194348	46005025	13	22125											
ALPPL2	251	hgsc.bcm.edu	37	chr2	233273011	233273011	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggccgaaagtacatgtttcCcatggggaccccagaccctg	10	7	11	13	1	0	1	0	0	0	1	1	3	1	2	5	3	1	2	5	3	2	2	rs75920311	bycluster;byfrequency	TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	233273011	C	G	233273011	3	3	434	1	0	0	0	0	1	0	0	0	549	623	22	4	705	4	ALPPL2	2	233273011	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	36078663	233273011	9926362	14	22126											
PRR21	643905	hgsc.bcm.edu	37	chr2	240982052	240982052	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgggtgaagaggcatggaCgaagggccgtgggtgaagag	10	5	21	5	3	0	4	0	2	0	2	0	6	0	5	1	5	0	1	1	5	3	0	rs77588089	bycluster	TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	240982052	C	G	240982052	2	3	434	1	0	0	0	0	0	0	0	1	12594	523	19	4		4	PRR21	2	240982052	Silent	SNP	C	TCGA-CW-5588-01A-01D-1534-10	7709041	240982052	2217321	15	22127											
ITPR1	3708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	4669521	4669521	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaaagccgctaagcctgggGccaacagcaccacagacgca	13	2	12	14	2	0	1	0	0	0	1	0	2	0	2	4	3	4	3	4	3	3	1	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	4669521	G	A	4669521	3	1	434	1	0	0	0	0	1	0	0	0	7920	1203	42	2	248	2	ITPR1	3	4669521	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10		4669521	193352909	16	22128											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191492	10191492	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatactctgaaagagcgatGcctccaggttgtccggagcc	9	9	12	11	2	1	2	0	1	1	1	3	4	3	3	4	2	4	2	4	2	3	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	10191492	G	A	10191492	3	1	434	1	0	0	0	0	1	0	0	0	17161	1319	46	2	495	2	VHL	3	10191492	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	5521971	10191492	187830938	17	22129											
CEP70	80321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	138216885	138216885	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttacctaagatttcaaGtagatcattagtaaatgcct	14	14	6	7	0	3	2	2	0	1	2	3	3	3	2	2	0	2	2	2	0	7	6	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	138216885	G	A	138216885	3	1	434	1	0	0	0	0	1	0	0	0	3259	1029	36	2	81	2	CEP70	3	138216885	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	128025393	138216885	59805545	18	22130											
MUC4	4585	broad.mit.edu	37	chr3	195506099	195506099	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtggatgcagaggaagTgtcggtgacaggaagaggcg	11	6	18	6	2	0	3	0	1	0	2	1	6	0	6	1	5	1	1	1	5	2	0	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	195506099	C	C	195506099	3	2	434	1	0	0	0	0	1	0	0	0	9978	1696	59	3		3	MUC4	3	195506099	Missense_Mutation	SNP	T	TCGA-CW-5588-01A-01D-1534-10	57289214	195506099	2516331	19	22131											
MUC4	4585	hgsc.bcm.edu	37	chr3	195512302	195512302	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaaaggctggtgacaGgaagaggggtgtcctgacct	10	7	17	7	0	0	4	0	3	0	1	1	6	1	6	2	6	0	1	2	6	2	0	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	195512302	G	A	195512302	3	1	434	1	0	0	0	0	1	0	0	0	9978	1000	35	2		2	MUC4	3	195512302	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	6203	195512302	2510128	20	22132											
FAM193A	8603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2733519	2733519	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggttctgcttggattctgCtagacagacccgacaaagac	11	9	10	11	1	2	3	0	0	2	3	2	5	2	4	1	2	2	3	1	2	2	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	2733519	C	T	2733519	3	4	434	1	0	0	0	0	1	0	0	0	5524	797	28	2	3665	2	FAM193A	4	2733519	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10		2733519	188420757	21	22133											
C4orf21	55345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	113468532	113468532	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggaggtagctgtttgggaTccccaacaagaatcagcttt	11	11	11	8	0	1	1	1	0	0	1	2	3	2	3	2	3	3	4	2	3	5	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	113468532	T	A	113468532	3	1	434	1	0	0	0	0	1	0	0	0	2254	1435	50	5	827	5	C4orf21	4	113468532	Missense_Mutation	SNP	T	TCGA-CW-5588-01A-01D-1534-10	110735013	113468532	77685744	22	22134											
CCRN4L	25819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	139966122	139966122	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgacattgaaaaccaacCaggtggccattgcacagacc	14	6	8	13	0	0	3	0	2	0	1	0	3	0	3	5	2	3	1	5	2	3	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	139966122	C	G	139966122	3	3	434	1	0	0	0	0	1	0	0	0	2951	595	21	4	800	4	CCRN4L	4	139966122	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	26497590	139966122	51188154	23	22135											
GALNT7	51809	hgsc.bcm.edu;ucsc.edu	37	chr4	174090012	174090013	+	Frame_Shift_Ins	INS	-	-	AA																															ctgaagattgggttcatcttINSacgcagtttgctggtggtgg																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		AA	174090013	-	AA	174090012	7	5	434	1	0	1	1	0	0	0	0	0	6218	1764	61	0	28	0	GALNT7	4	174090012	Frame_Shift_Ins	INS	-	TCGA-CW-5588-01A-01D-1534-10	34123890	174090012	17064264	24	22136											
DHX29	54505	broad.mit.edu;hgsc.bcm.edu	37	chr5	54579538	54579538	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaataaaaagatcacgtggTttattggtttccattttatt	12	17	7	5	1	1	1	1	0	0	1	2	1	2	1	1	2	0	3	1	2	6	8	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	54579538	T	C	54579538	2	2	434	1	0	0	0	0	0	0	0	1	4503	1722	60	3		3	DHX29	5	54579538	Silent	SNP	T	TCGA-CW-5588-01A-01D-1534-10		54579538	126335722	25	22137											
BHMT	635	broad.mit.edu;hgsc.bcm.edu	37	chr5	78423703	78423703	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accacatcagggcaattgcaGaggagctggccccagaaagg	13	4	13	11	0	1	2	1	0	0	2	1	3	1	3	3	4	2	3	3	4	2	1	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	78423703	G	A	78423703	3	1	434	1	0	0	0	0	1	0	0	0	1425	943	33	2	960	2	BHMT	5	78423703	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	23844165	78423703	102491557	26	22138											
FAM193B	54540	broad.mit.edu;hgsc.bcm.edu	37	chr5	176951610	176951610	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaggacacaggctcaggCagctcctgcttgcaactggg	8	7	13	13	0	1	1	1	1	0	0	2	2	2	2	2	4	4	5	2	4	1	1	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	176951610	C	T	176951610	2	4	434	1	0	0	0	0	0	0	0	1	5525	697	25	2		2	FAM193B	5	176951610	Silent	SNP	C	TCGA-CW-5588-01A-01D-1534-10	98527907	176951610	3963650	27	22139											
RIOK1	83732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7395314	7395314	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagacctccgacagcagttCagccaaaatgtctactccag	13	7	7	14	1	2	1	1	0	1	1	4	2	4	1	4	0	3	2	4	0	3	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	7395314	C	T	7395314	3	4	434	1	0	0	0	0	1	0	0	0	13379	838	29	2	315	2	RIOK1	6	7395314	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10		7395314	163719753	28	22140											
SCGN	10590	broad.mit.edu;hgsc.bcm.edu	37	chr6	25670266	25670266	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcaccacaaaaaggccAtttctgaggctaaactggaa	14	10	7	10	0	3	1	1	1	2	0	3	2	3	2	2	3	1	1	2	3	5	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	25670266	A	C	25670266	3	2	434	1	0	0	0	0	1	0	0	0	13905	217	8	5	455	5	SCGN	6	25670266	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	18274952	25670266	145444801	29	22141											
HIST1H2BM	8342	hgsc.bcm.edu;ucsc.edu	37	chr6	27782975	27782975	+	Frame_Shift_Del	DEL	G	G	-																															tgctgaagcaggtccaccccGacaccggcatctcttccaag																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		-	27782975	G	-	27782975	7	5	434	1	0	1	0	1	0	0	0	0	7152	1058	37	0	156	0	HIST1H2BM	6	27782975	Frame_Shift_Del	DEL	G	TCGA-CW-5588-01A-01D-1534-10	2112709	27782975	143332092	30	22142											
ZNF193	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28195519	28195519	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgtaaagagatggtgcctCtagcagagcagacaccactg	12	8	11	10	0	2	3	0	0	2	3	2	4	2	3	2	1	3	3	2	1	3	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	28195519	C	G	28195519	3	3	434	1	0	0	0	0	1	0	0	0	17756	912	32	4	478	4	ZNF193	6	28195519	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	412544	28195519	142919548	31	22143											
MAS1L	116511	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	29454618	29454618	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagtgtggttgctccatTgggtcgatgccagctgcctt	5	13	14	9	1	0	1	0	0	0	1	2	2	1	1	3	2	4	4	3	2	1	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	29454618	T	A	29454618	2	1	434	1	0	0	0	0	0	0	0	1	9321	1799	63	5		5	MAS1L	6	29454618	Silent	SNP	T	TCGA-CW-5588-01A-01D-1534-10	1259099	29454618	141660449	32	22144											
GLP1R	2740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	39025301	39025301	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgctggccagatggggagCcaggctcgttcgtgaatgtc	6	9	15	11	2	0	2	0	1	0	1	3	3	0	3	3	4	2	3	3	4	1	1	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	39025301	C	T	39025301	3	4	434	1	0	0	0	0	1	0	0	0	6452	739	26	2	239	2	GLP1R	6	39025301	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	9570683	39025301	132089766	33	22145											
USP49	25862	broad.mit.edu	37	chr6	41773626	41773626	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcccggaccacatgactcGgaagagggtgtgcagttcac	9	8	12	12	2	1	2	1	1	0	1	3	4	2	4	2	3	1	2	2	3	1	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	41773626	A	A	41773626	4	1	434	1	0	0	0	0	0	1	0	0	17079	1124	39	1	842	1	USP49	6	41773626	Nonsense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	2748325	41773626	129341441	34	22146											
PRIM2	5558	broad.mit.edu	37	chr6	57512794	57512796	+	Splice_Site	DEL	ATT	-	-																															gtgttgcactctgttgtgtaAttgtgacacaattacagctg																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	ATT	ATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		-	57512796	-	-	57512794	8	5	434	1	0	1	0	1	0	0	1	0	12493	116	4	0		0	PRIM2	6	57512794	Splice_Site	DEL	ATT	TCGA-CW-5588-01A-01D-1534-10	15739168	57512794	113602273	35	22147											
FSCN1	6624	broad.mit.edu	37	chr7	5643128	5643128	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcccgccatcccccaggAatgccagctgctactttgac	7	9	8	17	1	0	1	0	1	0	0	2	2	2	2	5	1	4	2	5	1	2	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	5643128	T	T	5643128	3	4	434	1	0	0	0	0	1	0	0	0	6067	260	9	5	1001	5	FSCN1	7	5643128	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10		5643128	153495535	36	22148											
LONRF1	91694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	12586770	12586770	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaatctgtatcttggctcaAatacatggagagggcaaggc	12	10	11	8	0	4	1	2	0	2	1	4	2	4	1	0	4	1	3	0	4	5	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	12586770	A	C	12586770	3	2	434	1	0	0	0	0	1	0	0	0	8894	14	1	5	577	5	LONRF1	8	12586770	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10		12586770	133777252	37	22149											
AQP7	364	hgsc.bcm.edu	37	chr9	33386469	33386469	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgccccagcacatagacCggaaacttcctccagggcac	12	5	8	16	1	0	1	0	0	0	1	2	2	2	2	5	2	4	2	5	2	3	2	rs78695486		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	33386469	C	T	33386469	2	4	434	1	0	0	0	0	0	0	0	1	831	639	23	1		1	AQP7	9	33386469	Silent	SNP	C	TCGA-CW-5588-01A-01D-1534-10		33386469	107826962	38	22150											
SETX	23064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	135173490	135173490	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctcagatgttgtagtcaGtaaatcttttgtacagaagt	11	16	8	6	0	4	2	2	0	2	2	5	2	4	2	0	0	1	4	0	0	5	6	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	135173490	G	A	135173490	2	1	434	1	0	0	0	0	0	0	0	1	14143	1020	36	2		2	SETX	9	135173490	Silent	SNP	G	TCGA-CW-5588-01A-01D-1534-10	101787021	135173490	6039941	39	22151											
SLC39A12	221074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	18276482	18276482	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagcgctggtccttttcCatagctgtgaggagaactac	9	10	12	10	1	0	2	0	1	0	1	2	4	2	3	2	3	4	2	2	3	3	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	18276482	C	A	18276482	3	1	434	1	0	0	0	0	1	0	0	0	14617	594	21	4	1193	4	SLC39A12	10	18276482	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10		18276482	117258265	40	22152											
ITGB1	3688	hgsc.bcm.edu	37	chr10	33217098	33217098	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttacattctccaaatcGtctttcattgagtaagacag	11	16	5	9	1	3	2	1	1	2	1	5	2	3	2	1	0	1	1	1	0	3	7	rs35057436	bycluster;byfrequency;by1000genomes	TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	33217098	G	A	33217098	2	1	434	1	0	0	0	0	0	0	0	1	7890	1136	40	1		1	ITGB1	10	33217098	Silent	SNP	G	TCGA-CW-5588-01A-01D-1534-10	14940616	33217098	102317649	41	22153											
PDZD8	118987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	119044693	119044693	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgggactatgacttaaTgattgtgcctcatctttgaa	9	16	9	7	1	2	3	1	3	1	0	2	4	2	4	1	1	1	1	1	1	3	5	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	119044693	T	C	119044693	2	2	434	1	0	0	0	0	0	0	0	1	11705	1451	51	3		3	PDZD8	10	119044693	Silent	SNP	T	TCGA-CW-5588-01A-01D-1534-10	85827595	119044693	16490054	42	22154											
FAM45A	404636	broad.mit.edu;hgsc.bcm.edu	37	chr10	120871395	120871395	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgtcctgaccgccaaagAttttaacccagagaagtatg	13	11	8	9	1	0	3	0	1	0	2	1	4	1	3	4	0	1	1	4	0	5	5	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	120871395	A	C	120871395	3	2	434	1	0	0	0	0	1	0	0	0	5564	333	12	5	297	5	FAM45A	10	120871395	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	1826702	120871395	14663352	43	22155											
QSER1	79832	broad.mit.edu	37	chr11	33005748	33005748	+	Frame_Shift_Del	DEL	C	-	-																															aagcgtctcagttagcagcaCcagaagatcagagcagcaga																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		-	33005748	-	-	33005748	7	5	434	1	0	1	0	1	0	0	0	0	12884	522	18	0		0	QSER1	11	33005748	Frame_Shift_Del	DEL	C	TCGA-CW-5588-01A-01D-1534-10		33005748	102000768	44	22156											
OR4A5	81318	hgsc.bcm.edu;ucsc.edu	37	chr11	51411740	51411740	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaagttttaagggagcttAggatgactccataggagatt	12	13	12	4	0	0	2	0	1	0	1	1	5	1	4	1	3	1	3	1	3	4	6	rs35083184	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	51411740	A	G	51411740	3	3	434	1	0	0	0	0	1	0	0	0	11043	420	15	3	295	3	OR4A5	11	51411740	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	18405992	51411740	83594776	45	22157											
PRDM10	56980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	129794821	129794821	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacaagttgggcaggtgaAgtagccatcattgatatgaa	13	11	11	6	0	1	3	1	3	0	0	1	3	1	3	1	2	2	3	1	2	6	5	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	129794821	A	G	129794821	3	3	434	1	0	0	0	0	1	0	0	0	12453	72	3	3	1676	3	PRDM10	11	129794821	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	78383081	129794821	5211695	46	22158											
TMTC1	83857	broad.mit.edu;hgsc.bcm.edu	37	chr12	29709847	29709847	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggatggagctggagaGccctctgatagtacatcttt	8	12	13	8	0	2	2	0	1	2	1	2	5	2	4	1	3	3	3	1	3	2	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	29709847	G	T	29709847	3	4	434	1	0	0	0	0	1	0	0	0	16259	971	34	4	1065	4	TMTC1	12	29709847	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10		29709847	104142048	47	22159											
C12orf40	283461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	40076779	40076779	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattagaaacatttttacAgttccagagttgacttttag	12	16	7	6	0	0	3	0	1	0	2	1	3	1	3	1	0	3	3	1	0	4	8	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	40076779	A	T	40076779	2	4	434	1	0	0	0	0	0	0	0	1	1686	175	7	5		5	C12orf40	12	40076779	Silent	SNP	A	TCGA-CW-5588-01A-01D-1534-10	10366932	40076779	93775116	48	22160											
TMTC2	160335	broad.mit.edu;hgsc.bcm.edu	37	chr12	83290207	83290207	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggctttgtaattgcagagcGagtattatatattcctagta	11	15	9	6	2	0	1	0	0	0	1	1	2	1	1	1	1	2	5	1	1	7	10	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	83290207	G	A	83290207	3	1	434	1	0	0	0	0	1	0	0	0	16260	1058	37	1	1275	1	TMTC2	12	83290207	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	43213428	83290207	50561688	49	22161											
STAB2	55576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104062492	104062492	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggctgtgcccggtactgCaatgccactgtgaaggtgag	8	8	15	10	2	0	2	0	2	0	0	0	2	0	2	2	3	5	3	2	3	3	1	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	104062492	C	A	104062492	4	1	434	1	0	0	0	0	0	1	0	0	15239	718	25	4	2235	4	STAB2	12	104062492	Nonsense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	20772285	104062492	29789403	50	22162											
ZMYM2	7750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20657807	20657807	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttaagataaaattactActggaaaaagaaaacatgaa	21	12	5	3	0	0	3	0	1	0	2	0	4	0	4	0	1	3	0	0	1	10	6	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	20657807	A	G	20657807	3	3	434	1	0	0	0	0	1	0	0	0	17699	391	14	3	3918	3	ZMYM2	13	20657807	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10		20657807	94512071	51	22163											
MYO16	23026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	109535457	109535457	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgtgttcctcgctgccTcctcacctcttctcctgtgt	3	15	7	16	1	3	0	1	0	2	0	7	0	5	0	5	0	2	3	5	0	1	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	109535457	T	C	109535457	2	2	434	1	0	0	0	0	0	0	0	1	10064	1538	54	3		3	MYO16	13	109535457	Silent	SNP	T	TCGA-CW-5588-01A-01D-1534-10	88877650	109535457	5634421	52	22164											
OR5AU1	390445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21624096	21624096	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggttgaacacctggggCtctgactgggtttaattctg	8	13	13	7	0	2	3	0	3	2	0	2	3	2	3	1	4	1	3	1	4	2	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	21624096	C	T	21624096	3	4	434	1	0	0	0	0	1	0	0	0	11147	797	28	2	1002	2	OR5AU1	14	21624096	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10		21624096	85725444	53	22165											
DDHD1	80821	hgsc.bcm.edu	37	chr14	53558606	53558608	+	In_Frame_Del	DEL	CTT	CTT	-																															tggcttgtcttctaatgtggCttcttctacataacctctat																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		-	53558608	CTT	-	53558606	7	5	434	1	0	1	0	1	0	0	0	0	4326	797	28	0	1556	0	DDHD1	14	53558606	In_Frame_Del	DEL	CTT	TCGA-CW-5588-01A-01D-1534-10	31934510	53558606	53790934	54	22166											
C14orf39	317761	broad.mit.edu;hgsc.bcm.edu	37	chr14	60932762	60932762	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgactgcttcgcagaactttCttcttttatatctagattat	9	19	5	8	1	3	3	0	1	3	2	4	3	3	3	0	0	2	2	0	0	5	8	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	60932762	C	T	60932762	3	4	434	1	0	0	0	0	1	0	0	0	1772	922	32	2	888	2	C14orf39	14	60932762	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	7374156	60932762	46416778	55	22167											
ZFYVE26	23503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68249593	68249593	+	Missense_Mutation	SNP	A	A	T																															gagctgaagggcccgggaccAatctctggccaccaaggatt																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	68249593	A	T	68249593	3	4	434	1	0	0	0	0	1	0	0	0	17667	130	5	5	3431	5	ZFYVE26	14	68249593	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	7316831	68249593	39099947	56	22168	307	2									
ZFYVE26	23503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68249594	68249594	+	Missense_Mutation	SNP	A	A	T																															agctgaagggcccgggaccaAtctctggccaccaaggattc																								novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	68249594	A	T	68249594	3	4	434	1	0	0	0	0	1	0	0	0	17667	98	4	5	3432	5	ZFYVE26	14	68249594	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10	1	68249594	39099946	57	22169	307	2									
TTBK2	146057	broad.mit.edu;hgsc.bcm.edu	37	chr15	43102877	43102877	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagaaagatgctgaattctgGagggagatgtttcaacatga	14	11	12	4	0	2	5	1	2	1	3	2	7	2	6	0	2	2	2	0	2	4	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	43102877	G	A	43102877	3	1	434	1	0	0	0	0	1	0	0	0	16676	1174	41	2	3005	2	TTBK2	15	43102877	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10		43102877	59428515	58	22170											
BLM	641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91292947	91292947	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaccagattctttaagtaCcatcaatgattgggatgata	13	14	7	7	0	3	3	2	2	1	1	3	4	3	4	2	1	1	1	2	1	4	7	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	91292947	C	T	91292947	3	4	434	1	0	0	0	0	1	0	0	0	1445	507	18	2	455	2	BLM	15	91292947	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	48190070	91292947	11238445	59	22171											
TRIM16	10626	broad.mit.edu	37	chr17	15554772	15554772	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcctccgtctccctgccaAgcttctccgaggagcccacg	5	9	9	18	3	2	0	0	0	2	0	6	2	4	1	6	1	3	2	6	1	1	2	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	15554772	G	G	15554772	3	3	434	1	0	0	0	0	1	0	0	0	16490	72	3	3	1566	3	TRIM16	17	15554772	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10		15554772	65640438	60	22172											
YES1	7525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	743325	743325	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcaaagattctcgagggAtttcccaagcatcttttgct	9	13	9	10	2	2	1	0	0	2	1	5	3	3	2	1	1	2	3	1	1	2	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	743325	A	C	743325	3	2	434	1	0	0	0	0	1	0	0	0	17473	333	12	5	840	5	YES1	18	743325	Missense_Mutation	SNP	A	TCGA-CW-5588-01A-01D-1534-10		743325	77333923	61	22173											
CD97	976	broad.mit.edu;hgsc.bcm.edu	37	chr19	14507236	14507236	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcagctatacctgccaGtgcctgcctggcttcaagtt	6	12	10	13	0	1	0	1	0	0	0	1	0	1	0	4	2	5	4	4	2	3	5	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	14507236	G	C	14507236	3	2	434	1	0	0	0	0	1	0	0	0	3049	1020	36	4	447	4	CD97	19	14507236	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10		14507236	44621747	62	22174											
MED26	9441	broad.mit.edu;ucsc.edu	37	chr19	16687395	16687395	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttttaaccggacaggctTgacgcccgcctcagccacct	7	9	8	17	3	2	1	1	1	1	0	2	2	2	2	5	2	2	1	5	2	1	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		G	16687395	G	G	16687395	3	3	434	1	0	0	0	0	1	0	0	0	9444	1821	63	5	560	5	MED26	19	16687395	Missense_Mutation	SNP	T	TCGA-CW-5588-01A-01D-1534-10	2180159	16687395	42441588	63	22175											
ZNF665	79788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53668352	53668352	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattttgtgtgaagaccttaCcgcagtcattacatttgtaa	12	15	7	7	1	1	2	1	1	0	1	1	2	1	2	2	0	2	2	2	0	5	6	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	53668352	C	T	53668352	3	4	434	1	0	0	0	0	1	0	0	0	18072	507	18	2	649	2	ZNF665	19	53668352	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10	36980957	53668352	5460631	64	22176											
NOP56	10528	broad.mit.edu;hgsc.bcm.edu	37	chr20	2637491	2637491	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactgtccttctatgagactGgagagataccacgaaagaat	14	9	10	8	1	1	3	0	1	1	3	2	8	2	4	2	1	1	0	2	1	4	3	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		A	2637491	G	A	2637491	3	1	434	1	0	0	0	0	1	0	0	0	10539	1349	47	2	1269	2	NOP56	20	2637491	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10		2637491	60388029	65	22177											
DDX17	10521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38889717	38889717	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttagttttaaacttaccaTtaagtacccaatctctttct	11	17	3	10	0	2	0	0	0	2	0	3	0	2	0	2	0	3	3	2	0	7	7	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	38889717	T	C	38889717	3	2	434	1	0	0	0	0	1	0	0	0	4344	1493	52	3	826	3	DDX17	22	38889717	Missense_Mutation	SNP	T	TCGA-CW-5588-01A-01D-1534-10		38889717	12414849	66	22178											
ARHGAP36	158763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	130218268	130218268	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctgcagctttcaaaaatttCctttccaattggccaacgac	11	12	5	13	1	1	0	1	0	0	0	3	1	3	0	4	1	3	2	4	1	4	4	novel		TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		T	130218268	C	T	130218268	3	4	434	1	0	0	0	0	1	0	0	0	883	855	30	2	649	2	ARHGAP36	23	130218268	Missense_Mutation	SNP	C	TCGA-CW-5588-01A-01D-1534-10		130218268	25052292	67	22179											
MAGEC1	9947	hgsc.bcm.edu;ucsc.edu	37	chrX	140993716	140993716	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcctcctccactttaGtgagtattttccagagttcc	6	14	6	15	1	0	2	0	1	0	1	5	2	5	2	7	0	0	2	7	0	2	6	rs78700965	bycluster;byfrequency	TCGA-CW-5588-01A-01D-1534-10	TCGA-CW-5588-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	574bd631-8862-468f-90e9-065aad6d1419	ab8b8c6d-9b42-4c32-b691-9cfd29859bf8		C	140993716	G	C	140993716	3	2	434	1	0	0	0	0	1	0	0	0	9180	1029	36	4	532	4	MAGEC1	23	140993716	Missense_Mutation	SNP	G	TCGA-CW-5588-01A-01D-1534-10	10775448	140993716	14276844	68	22180											
PRAMEF12	390999	hgsc.bcm.edu	37	chr1	12837358	12837358	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagaccctggacttagaGgactgtgggatcgtggattc	8	10	14	9	1	0	2	0	0	0	2	2	6	0	6	1	4	1	1	1	4	1	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	12837358	G	A	12837358	2	1	435	1	0	0	0	0	0	0	0	1	12430	991	35	2		2	PRAMEF12	1	12837358	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10		12837358	236413263	1	22181											
KAZ	0	broad.mit.edu;hgsc.bcm.edu	37	chr1	15370643	15370643	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggatgaaggagctggaggcCgagctggccatggtgagaac	10	5	18	8	2	0	2	0	2	0	1	0	7	0	5	2	6	3	2	2	6	2	0	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	15370643	C	T	15370643	2	4	435	1	0	0	0	0	0	0	0	1	7988	639	23	1		1	KAZ	1	15370643	Silent	SNP	C	TCGA-CW-5589-01A-01D-1534-10	2533285	15370643	233879978	2	22182											
CDC14A	8556	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100961574	100961574	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtcagatgatacaaaaGgacatccaagagcagtgtcc	15	6	11	9	0	1	3	1	1	0	2	3	4	3	4	2	2	2	2	2	2	4	1	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	100961574	G	C	100961574	3	2	435	1	0	0	0	0	1	0	0	0	3056	1001	35	4	1332	4	CDC14A	1	100961574	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	85590931	100961574	148289047	3	22183											
NBPF9	400818	broad.mit.edu	37	chr1	144813824	144813824	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagaagcttgcagagcagctGaagcaagctgaggagctcag	13	5	15	8	0	1	4	1	2	0	2	1	6	1	5	0	1	7	7	0	1	3	1	rs77446849	byfrequency	TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	144813824	C	C	144813824	2	2	435	1	0	0	0	0	0	0	0	1	10199	1277	45	4		4	NBPF9	1	144813824	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10	43852250	144813824	104436797	4	22184											
NBPF9	400818	broad.mit.edu	37	chr1	144828610	144828610	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactggatggatgttattcTactccgtcaatgtactttga	9	16	8	8	1	3	1	2	1	1	0	4	3	4	3	1	2	2	2	1	2	4	5	rs76444116		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	144828610	G	G	144828610	2	3	435	1	0	0	0	0	0	0	0	1	10199	1509	53	5		5	NBPF9	1	144828610	Silent	SNP	T	TCGA-CW-5589-01A-01D-1534-10	14786	144828610	104422011	5	22185											
SEMA4A	64218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	156146590	156146590	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgccttagtgctttcAggagccctcatcatcctcgt	5	15	7	14	1	4	0	3	0	1	0	6	1	5	1	3	1	3	1	3	1	1	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	156146590	A	G	156146590	2	3	435	1	0	0	0	0	0	0	0	1	14033	175	7	3		3	SEMA4A	1	156146590	Silent	SNP	A	TCGA-CW-5589-01A-01D-1534-10	11317980	156146590	93104031	6	22186											
F5	2153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169529926	169529926	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcactgatactccatTcataggtgtattctcggcct	7	15	7	12	1	3	1	2	1	1	0	6	1	5	1	3	2	1	1	3	2	3	5	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	169529926	T	A	169529926	3	1	435	1	0	0	0	0	1	0	0	0	5348	1783	62	5	6310	5	F5	1	169529926	Missense_Mutation	SNP	T	TCGA-CW-5589-01A-01D-1534-10	13383336	169529926	79720695	7	22187											
ALK	238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	29462601	29462601	+	Frame_Shift_Del	DEL	T	T	-																															ggatgtacagcatgtcatccTtctccaggttgaagatgccc																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		-	29462601	T	-	29462601	7	5	435	1	0	1	0	1	0	0	0	0	525	1609	56	0	2630	0	ALK	2	29462601	Frame_Shift_Del	DEL	T	TCGA-CW-5589-01A-01D-1534-10		29462601	213736772	8	22188											
APLF	200558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	68740264	68740264	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaatgaaacaccaaaatccCccgtgattaatttacctcat	15	11	4	11	1	1	3	1	3	0	0	2	3	2	3	4	0	2	0	4	0	6	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	68740264	C	A	68740264	3	1	435	1	0	0	0	0	1	0	0	0	776	623	22	4	408	4	APLF	2	68740264	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10	39277663	68740264	174459109	9	22189											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109379866	109379866	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgggaattctatcgcccagGggtgatgattactttaatta	11	13	10	7	2	1	2	0	2	1	0	2	3	1	3	1	3	1	0	1	3	5	6	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	109379866	G	C	109379866	3	2	435	1	0	0	0	0	1	0	0	0	13030	1223	43	4	2949	4	RANBP2	2	109379866	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	40639602	109379866	133819507	10	22190											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu	37	chr3	52663052	52663052	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgattcttcagttttgttCtgtgaaagacaaagaaattg	12	16	8	5	0	3	4	1	2	2	2	3	4	3	4	0	0	0	2	0	0	3	7	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	52663052	C	A	52663052	5	1	435	1	0	0	0	0	0	0	1	0	11491	927	32	4	3675	4	PBRM1	3	52663052	Splice_Site	SNP	C	TCGA-CW-5589-01A-01D-1534-10		52663052	145359378	11	22191											
STAG1	10274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	136062787	136062787	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgagttgtggtgctggcagGgggccaggagtctgaatcat	7	10	18	6	0	2	2	1	2	1	0	2	3	2	3	1	5	1	3	1	5	1	1	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	136062787	G	T	136062787	2	4	435	1	0	0	0	0	0	0	0	1	15243	1219	43	4		4	STAG1	3	136062787	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10	83399735	136062787	61959643	12	22192											
ATR	545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142281209	142281209	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactgcagtaaatggcacaaAgctgcttttagcaaatcaga	15	10	8	8	0	1	1	1	0	0	1	1	1	1	1	0	1	5	6	0	1	6	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	142281209	A	T	142281209	2	4	435	1	0	0	0	0	0	0	0	1	1204	59	3	5		5	ATR	3	142281209	Silent	SNP	A	TCGA-CW-5589-01A-01D-1534-10	6218422	142281209	55741221	13	22193											
NIPBL	25836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	37020560	37020560	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgtctaatttctttccaGttttctcgtaaattctatat	8	21	4	8	1	5	0	0	0	5	0	7	0	6	0	1	0	0	2	1	0	5	9	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	37020560	G	T	37020560	5	4	435	1	0	0	0	0	0	0	1	0	10428	1043	36	4	5108	4	NIPBL	5	37020560	Splice_Site	SNP	G	TCGA-CW-5589-01A-01D-1534-10		37020560	143894700	14	22194											
BDP1	55814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	70835434	70835434	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taactttacttacaatgggaGatctagtattgcagtcagag	13	13	9	6	0	2	2	1	0	1	2	2	3	2	2	0	1	4	2	0	1	6	7	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	70835434	G	A	70835434	3	1	435	1	0	0	0	0	1	0	0	0	1395	942	33	2	6090	2	BDP1	5	70835434	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	33814874	70835434	110079826	15	22195											
CMYA5	202333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79031276	79031276	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcccaccaattttaatgtaGctgagaaaccagctgatcat	13	12	6	10	0	1	2	1	2	0	1	2	3	2	2	3	0	3	3	3	0	4	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	79031276	G	C	79031276	3	2	435	1	0	0	0	0	1	0	0	0	3590	971	34	4	6694	4	CMYA5	5	79031276	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	8195842	79031276	101883984	16	22196											
DPCR1	135656	hgsc.bcm.edu	37	chr6	30918748	30918748	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaatgagaagaccacacAattcccagcagagcctacag	16	4	8	13	0	0	3	0	1	0	3	1	4	1	3	4	0	4	1	4	0	4	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	30918748	A	C	30918748	3	2	435	1	0	0	0	0	1	0	0	0	4712	130	5	5	2513	5	DPCR1	6	30918748	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10		30918748	140196319	17	22197											
CRIP3	401262	hgsc.bcm.edu;ucsc.edu	37	chr6	43273854	43273855	+	Frame_Shift_Ins	INS	-	-	C																															ggacgtggcagtaggggactINSccatcatgctgagacacaga																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	43273855	-	C	43273854	7	5	435	1	0	1	1	0	0	0	0	0	3876	1538	54	0	118	0	CRIP3	6	43273854	Frame_Shift_Ins	INS	-	TCGA-CW-5589-01A-01D-1534-10	12355106	43273854	127841213	18	22198											
POLH	5429	hgsc.bcm.edu;ucsc.edu	37	chr6	43581424	43581425	+	In_Frame_Ins	INS	-	-	TGT																															ctctcacaatgcttttcctcINStgtgctacaaaattttctgc																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		TGT	43581425	-	TGT	43581424	7	5	435	1	0	1	1	0	0	0	0	0	12202	900	32	0	1310	0	POLH	6	43581424	In_Frame_Ins	INS	-	TCGA-CW-5589-01A-01D-1534-10	307570	43581424	127533643	19	22199											
PRIM2	5558	broad.mit.edu	37	chr6	57512787	57512788	+	Splice_Site	INS	-	CACCAAGGC	CACCAAGGC																															gaaaaagtgttgcactctgtINStgtgtaattgtgacacaatt																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		CACCAAGGC	57512788	CACCAAGGC	CACCAAGGC	57512787	8	5	435	1	0	1	1	0	0	0	1	0	12493	1739	60	0		0	PRIM2	6	57512787	Splice_Site	INS	-	TCGA-CW-5589-01A-01D-1534-10	13931363	57512787	113602280	20	22200											
FIG4	9896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	110083350	110083350	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagaaagtgtggtgaagaAaacaggtttctttgtaaacc	14	11	11	5	0	1	3	0	1	1	2	1	3	1	3	1	2	3	3	1	2	6	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	110083350	A	C	110083350	3	2	435	1	0	0	0	0	1	0	0	0	5888	14	1	5	1374	5	FIG4	6	110083350	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10	52570563	110083350	61031717	21	22201											
BLVRA	644	hgsc.bcm.edu;ucsc.edu	37	chr7	43827571	43827572	+	Frame_Shift_Del	DEL	GC	GC	-																															tccgtgcggatgagggacttGcggaatccacacccttcctc																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		-	43827572	GC	-	43827571	7	5	435	1	0	1	0	1	0	0	0	0	1451	1310	46	0	87	0	BLVRA	7	43827571	Frame_Shift_Del	DEL	GC	TCGA-CW-5589-01A-01D-1534-10		43827571	115311092	22	22202											
MLL5	55904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	104753209	104753209	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccctgggtcgcatattcAttctcaaactgctggacacc	9	10	7	15	1	2	0	2	0	1	0	4	1	2	1	3	2	2	2	3	2	2	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	104753209	A	G	104753209	3	3	435	1	0	0	0	0	1	0	0	0	9624	217	8	3	5104	3	MLL5	7	104753209	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10	60925638	104753209	54385454	23	22203											
POTEA	340441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	43152262	43152262	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtctttgacagcaaaaagagGacagctctgataaaggtatg	15	9	11	6	0	2	3	0	2	2	1	2	4	2	4	0	2	2	3	0	2	5	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	43152262	G	A	43152262	2	1	435	1	0	0	0	0	0	0	0	1	12261	1165	41	2		2	POTEA	8	43152262	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10		43152262	103211760	24	22204											
ST18	9705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	53085059	53085059	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaccatgagctcttgataaCaagagtatctgtcttccttc	10	14	7	10	0	3	4	0	3	3	1	5	4	4	4	2	0	2	2	2	0	3	5	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	53085059	C	A	53085059	3	1	435	1	0	0	0	0	1	0	0	0	15213	478	17	4	2849	4	ST18	8	53085059	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10	9932797	53085059	93278963	25	22205											
SLC39A4	55630	broad.mit.edu	37	chr8	145642062	145642062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcctcttgatccagagCgccctggccagaggtgagca	9	6	13	13	1	1	5	0	2	1	3	2	5	2	5	4	2	3	1	4	2	0	1	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	145642062	T	T	145642062	3	4	435	1	0	0	0	0	1	0	0	0	14622	768	27	1	1996	1	SLC39A4	8	145642062	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10	92557003	145642062	721960	26	22206											
ARHGAP39	80728	broad.mit.edu;hgsc.bcm.edu	37	chr8	145759519	145759519	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcgcacccgtaccttcttGgccccggtcagggctgcctt	4	9	12	16	3	2	0	1	0	1	0	2	0	2	0	5	4	2	3	5	4	1	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	145759519	G	A	145759519	2	1	435	1	0	0	0	0	0	0	0	1	884	1335	47	2		2	ARHGAP39	8	145759519	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10	117457	145759519	604503	27	22207											
SYK	6850	broad.mit.edu;ucsc.edu	37	chr9	93606288	93606288	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggggggcatgagtgaTgggctttatttgctgcgcca	6	11	16	8	1	0	2	0	2	0	0	1	2	1	2	2	4	2	3	2	4	1	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	93606288	C	C	93606288	2	2	435	1	0	0	0	0	0	0	0	1	15437	1461	51	3		3	SYK	9	93606288	Silent	SNP	T	TCGA-CW-5589-01A-01D-1534-10		93606288	47607143	28	22208											
SH3GLB2	56904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131772971	131772971	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccacttcatcattccagAgctgtggagacggcagcagg	9	9	12	11	1	2	2	2	0	0	2	4	3	4	2	2	3	2	3	2	3	0	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	131772971	A	C	131772971	3	2	435	1	0	0	0	0	1	0	0	0	14256	318	11	5	581	5	SH3GLB2	9	131772971	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10	38166683	131772971	9440460	29	22209											
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	17110704	17110704	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtacacagatgttataaaTgaaggtatgtctgtaccgca	13	13	9	6	1	1	2	0	1	1	1	1	2	1	2	1	1	2	5	1	1	7	6	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	17110704	T	G	17110704	2	3	435	1	0	0	0	0	0	0	0	1	4051	1451	51	5		5	CUBN	10	17110704	Silent	SNP	T	TCGA-CW-5589-01A-01D-1534-10		17110704	118424043	30	22210											
DCLRE1A	9937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	115609321	115609321	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaattgtagctttaccaaCtggcacaccctctaatgcct	12	12	5	12	0	1	0	0	0	1	0	1	0	1	0	3	1	4	3	3	1	6	6	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	115609321	C	T	115609321	3	4	435	1	0	0	0	0	1	0	0	0	4294	565	20	2	1611	2	DCLRE1A	10	115609321	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10	98498617	115609321	19925426	31	22211											
EBF3	253738	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	131638545	131638545	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttggcgctggtgcaggaagGaggaggagaggcttggggcc	7	6	22	6	1	0	1	0	0	0	1	0	5	0	4	1	9	1	4	1	9	1	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	131638545	G	A	131638545	3	1	435	1	0	0	0	0	1	0	0	0	4882	1174	41	2	75	2	EBF3	10	131638545	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	16029224	131638545	3896202	32	22212											
PHRF1	57661	broad.mit.edu	37	chr11	608822	608822	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagacctcggggaagggaGtgctcccccaccagcagcct	8	5	12	16	1	0	1	0	0	0	1	3	3	2	3	6	3	3	2	6	3	1	0	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	608822	A	A	608822	2	1	435	1	0	0	0	0	0	0	0	1	11861	1020	36	2		2	PHRF1	11	608822	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10		608822	134397694	33	22213											
DEAF1	10522	broad.mit.edu;hgsc.bcm.edu	37	chr11	687971	687971	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcaccgtacgggcagctCactgtcgtacacagaagggt	9	6	13	13	4	1	1	1	0	0	1	2	1	1	1	2	3	3	5	2	3	3	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	687971	C	A	687971	4	1	435	1	0	0	0	0	0	1	0	0	4380	835	29	4	1129	4	DEAF1	11	687971	Nonsense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10	79149	687971	134318545	34	22214											
OR5AR1	219493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	56431747	56431747	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcagacacctacatcagtGagatcttgctcttcagtctg	9	12	8	12	0	6	2	3	1	3	2	6	3	6	2	1	0	2	2	1	0	1	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	56431747	G	T	56431747	4	4	435	1	0	0	0	0	0	1	0	0	11145	1291	45	4	588	4	OR5AR1	11	56431747	Nonsense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	55743776	56431747	78574769	35	22215											
SSH3	54961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	67072383	67072383	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggggaccagacagacttcGggcaaggatcccagagtccc	11	4	13	13	2	0	3	0	0	0	3	3	5	2	5	3	4	0	1	3	4	1	1	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	67072383	G	A	67072383	3	1	435	1	0	0	0	0	1	0	0	0	15187	1116	39	1	254	1	SSH3	11	67072383	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	10640636	67072383	67934133	36	22216											
PRB1	5542	broad.mit.edu;hgsc.bcm.edu	37	chr12	11506647	11506647	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctggaggtgggggaccTtgaggtctgttgcctccttg	3	14	15	9	0	1	1	0	1	1	0	3	3	3	3	4	5	1	1	4	5	0	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	11506647	T	C	11506647	2	2	435	1	0	0	0	0	0	0	0	1	12444	1606	56	3		3	PRB1	12	11506647	Silent	SNP	T	TCGA-CW-5589-01A-01D-1534-10		11506647	122345248	37	22217											
TMTC2	160335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	83525988	83525988	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttctttctcttgttgcaGtatccggctgctttgatgaa	5	18	8	10	1	2	2	0	2	2	0	5	2	4	2	2	1	2	5	2	1	2	6	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	83525988	G	C	83525988	5	2	435	1	0	0	0	0	0	0	1	0	16260	1043	36	4	2377	4	TMTC2	12	83525988	Splice_Site	SNP	G	TCGA-CW-5589-01A-01D-1534-10	72019341	83525988	50325907	38	22218											
DTX1	1840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	113531851	113531851	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtgtccctgcaggtaagaatCccgaggatgtggttcgaaga	10	9	14	8	2	0	2	0	0	0	2	3	5	2	3	2	3	1	3	2	3	3	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	113531851	C	G	113531851	3	3	435	1	0	0	0	0	1	0	0	0	4793	855	30	4	1192	4	DTX1	12	113531851	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10	30005863	113531851	20320044	39	22219											
HIP1R	9026	broad.mit.edu	37	chr12	123345228	123345228	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcccttgacccgcagggAggcagctgacaaggtggtgc	7	6	16	12	1	0	2	0	2	0	0	0	3	0	3	2	5	2	3	2	5	1	1	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	123345228	G	G	123345228	3	3	435	1	0	0	0	0	1	0	0	0	7115	304	11	3	2773	3	HIP1R	12	123345228	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10	9813377	123345228	10506667	40	22220											
LATS2	26524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	21562131	21562131	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaaggcgtatggcgagtaGctcttgatgcgtgactctct	8	13	12	8	3	2	2	0	2	2	0	3	3	2	2	0	2	2	3	0	2	4	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	21562131	G	C	21562131	3	2	435	1	0	0	0	0	1	0	0	0	8647	962	34	4	1498	4	LATS2	13	21562131	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10		21562131	93607747	41	22221											
NEK5	341676	broad.mit.edu;hgsc.bcm.edu	37	chr13	52661584	52661584	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tggctcggcagaagatggacGaagaccctatttattgaatg	12	10	12	7	2	0	4	0	1	0	3	1	6	0	5	1	3	0	2	1	3	5	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	52661584	G	C	52661584	3	2	435	1	0	0	0	0	1	0	0	0	10327	1058	37	4	876	4	NEK5	13	52661584	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	31099453	52661584	62508294	42	22222											
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71524405	71524405	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttatagagataggcaatggtCtggtcacttttcagctgcgg	9	13	12	7	1	3	1	2	0	1	1	3	2	3	1	0	4	2	2	0	4	4	5	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	71524405	C	G	71524405	3	3	435	1	0	0	0	0	1	0	0	0	11591	912	32	4	4918	4	PCNX	14	71524405	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10		71524405	35825135	43	22223											
DPF3	8110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	73141008	73141008	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccactcttcttgttcaTgttggagccccccaagcaga	7	10	8	16	1	3	1	1	0	2	1	3	2	3	2	5	1	2	3	5	1	1	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	73141008	T	C	73141008	3	2	435	1	0	0	0	0	1	0	0	0	4718	1464	51	3	270	3	DPF3	14	73141008	Missense_Mutation	SNP	T	TCGA-CW-5589-01A-01D-1534-10	1616603	73141008	34208532	44	22224											
GTF2A1	2957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	81682787	81682787	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcagtacttgttcatcCactccatcatccagaaagat	12	12	4	13	0	3	2	3	0	0	2	7	2	7	2	4	0	1	2	4	0	2	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	81682787	C	T	81682787	2	4	435	1	0	0	0	0	0	0	0	1	6852	581	21	2		2	GTF2A1	14	81682787	Silent	SNP	C	TCGA-CW-5589-01A-01D-1534-10	8541779	81682787	25666753	45	22225											
UBE3A	7337	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	25616769	25616769	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttttcatcttcatctttGtcttcatcttttgcttgaag	5	22	4	10	0	7	1	3	1	4	0	8	1	8	1	1	0	1	1	1	0	1	8	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	25616769	G	C	25616769	3	2	435	1	0	0	0	0	1	0	0	0	16878	1368	48	4	2098	4	UBE3A	15	25616769	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10		25616769	76914623	46	22226											
RAB8B	51762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63547744	63547744	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcacaaatgaaaaatcCtttgacaatattaaaaattg	20	11	4	6	0	1	2	1	2	0	0	2	3	2	2	1	0	0	0	1	0	8	4	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	63547744	C	G	63547744	2	3	435	1	0	0	0	0	0	0	0	1	12959	668	24	4		4	RAB8B	15	63547744	Silent	SNP	C	TCGA-CW-5589-01A-01D-1534-10	37930975	63547744	38983648	47	22227											
DENND4A	10260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	66044741	66044741	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgttattgagattcttgtcGactttgcagaacgtgtgtgg	7	16	12	6	2	1	2	0	1	1	2	2	4	1	2	0	1	2	2	0	1	2	5	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	66044741	G	A	66044741	2	1	435	1	0	0	0	0	0	0	0	1	4433	1045	37	1		1	DENND4A	15	66044741	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10	2496997	66044741	36486651	48	22228											
NLGN2	57555	broad.mit.edu;hgsc.bcm.edu	37	chr17	7319145	7319145	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaatgcgccgcaaaaccctGctggcgctctttactgacca	10	8	9	14	3	1	1	0	1	1	0	1	2	1	1	3	1	4	3	3	1	4	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	7319145	G	C	7319145	2	2	435	1	0	0	0	0	0	0	0	1	10462	1306	46	4		4	NLGN2	17	7319145	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10		7319145	73876065	49	22229											
SPAG5	10615	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26905536	26905536	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtaaggtgggtcacctccTctctaaggctctgggaatga	8	10	14	9	0	3	1	1	1	2	0	5	2	4	2	2	5	0	2	2	5	3	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	26905536	T	A	26905536	3	1	435	1	0	0	0	0	1	0	0	0	14983	1551	54	5	388	5	SPAG5	17	26905536	Missense_Mutation	SNP	T	TCGA-CW-5589-01A-01D-1534-10	19586391	26905536	54289674	50	22230											
SGK494	124923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26939689	26939689	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccccaagctgtgtacaaagGgatggttgatctgtcgctag	9	10	12	10	1	1	1	0	1	1	0	2	2	1	2	2	2	2	4	2	2	4	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	26939689	G	T	26939689	3	4	435	1	0	0	0	0	1	0	0	0	14215	1232	43	4	770	4	SGK494	17	26939689	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	34153	26939689	54255521	51	22231											
SUZ12	23512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30321020	30321020	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatagcagatttatcttcaActatgttgtgagtaattttt	11	18	6	6	0	2	2	1	1	1	1	2	2	2	2	1	0	2	3	1	0	5	9	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	30321020	A	C	30321020	3	2	435	1	0	0	0	0	1	0	0	0	15415	43	2	5	1476	5	SUZ12	17	30321020	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10	3381331	30321020	50874190	52	22232											
RARA	5914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38508596	38508596	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccagaacaacagctcagAacaacgtgtctctctggaca	13	6	7	15	1	3	2	1	0	2	2	4	3	3	3	2	1	5	1	2	1	4	0	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		G	38508596	A	G	38508596	3	3	435	1	0	0	0	0	1	0	0	0	13054	246	9	3	829	3	RARA	17	38508596	Missense_Mutation	SNP	A	TCGA-CW-5589-01A-01D-1534-10	8187576	38508596	42686614	53	22233											
NUP85	79902	broad.mit.edu;ucsc.edu	37	chr17	73205917	73205918	+	Splice_Site	INS	-	A	A																															ttttttctgtttggtttcagINSaaaaatcagagatggtgcca																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	73205918	A	A	73205917	8	5	435	1	0	1	1	0	0	0	1	0	10770	956	33	0	137	0	NUP85	17	73205917	Splice_Site	INS	-	TCGA-CW-5589-01A-01D-1534-10	34697321	73205917	7989293	54	22234											
ZNF20	7568	broad.mit.edu	37	chr19	12258560	12258560	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcttctgggaaggatccaGcaaagcccactcctcctggg	9	9	10	13	0	2	0	0	0	2	0	5	2	5	2	4	3	2	1	4	3	2	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	12258560	T	T	12258560	1	4	435	1	0	0	0	0	0	0	0	0	17760	986	34	4		4	ZNF20	19	12258560	Translation_Start_Site	SNP	G	TCGA-CW-5589-01A-01D-1534-10		12258560	46870423	55	22235											
RAB3A	5864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18309636	18309636	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcacctgggcattgtcccatGagtaggtcttgatctgggtg	6	12	14	9	0	2	2	0	2	2	0	3	2	3	2	2	3	0	3	2	3	1	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	18309636	G	C	18309636	4	2	435	1	0	0	0	0	0	1	0	0	12933	1294	45	4	299	4	RAB3A	19	18309636	Nonsense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	6051076	18309636	40819347	56	22236											
TM6SF2	53345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	19380554	19380554	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcgaaggaacccagccagtaGagtccaaaattccggtatct	13	7	10	11	2	1	1	0	0	1	1	3	3	3	2	4	2	2	2	4	2	6	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	19380554	G	C	19380554	2	2	435	1	0	0	0	0	0	0	0	1	15972	929	33	4		4	TM6SF2	19	19380554	Silent	SNP	G	TCGA-CW-5589-01A-01D-1534-10	1070918	19380554	39748429	57	22237											
ZNF546	339327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40519782	40519782	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgctaatccaaaaacaaaTatctcatcctctacatccaa	18	10	1	12	0	2	0	1	0	2	0	6	0	5	0	3	0	3	1	3	0	8	3	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	40519782	T	C	40519782	3	2	435	1	0	0	0	0	1	0	0	0	17977	1406	49	3	623	3	ZNF546	19	40519782	Missense_Mutation	SNP	T	TCGA-CW-5589-01A-01D-1534-10	21139228	40519782	18609201	58	22238											
PSG9	5678	hgsc.bcm.edu;ucsc.edu	37	chr19	43772159	43772159	+	Frame_Shift_Del	DEL	T	T	-																															tagaggtccgtcatttccccTttgtaccagaagtagccagg																								novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		-	43772159	T	-	43772159	7	5	435	1	0	1	0	1	0	0	0	0	12664	1606	56	0	1093	0	PSG9	19	43772159	Frame_Shift_Del	DEL	T	TCGA-CW-5589-01A-01D-1534-10	3252377	43772159	15356824	59	22239											
NLRP9	338321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56243618	56243618	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acattgacttaaactttcaaGgcattgggttatttcctgct	10	16	7	8	0	1	1	1	1	0	0	2	1	2	1	1	2	2	3	1	2	4	6	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	56243618	G	A	56243618	3	1	435	1	0	0	0	0	1	0	0	0	10484	1000	35	2	1428	2	NLRP9	19	56243618	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	12471459	56243618	2885365	60	22240											
ZHX3	23051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39831405	39831405	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggggctgactttgcgctctgCcaagatatggctgctgggca	6	10	15	10	1	1	2	0	1	1	1	1	2	1	2	1	4	3	5	1	4	2	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		T	39831405	C	T	39831405	3	4	435	1	0	0	0	0	1	0	0	0	17676	739	26	2	726	2	ZHX3	20	39831405	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10		39831405	23194115	61	22241											
C20orf85	128602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	56728656	56728656	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaactggccccagaactgggGgtttttaacaaccccttttg	9	11	10	11	0	0	1	0	0	0	1	0	2	0	1	4	3	4	1	4	3	4	5	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	56728656	G	A	56728656	3	1	435	1	0	0	0	0	1	0	0	0	2120	1232	43	2	131	2	C20orf85	20	56728656	Missense_Mutation	SNP	G	TCGA-CW-5589-01A-01D-1534-10	16897251	56728656	6296864	62	22242											
BRWD1	54014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	40568354	40568354	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtcattatcatccacaCttaacctagggcgtttgctt	9	13	6	13	1	2	0	2	0	0	0	3	0	3	0	3	1	2	2	3	1	3	5	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	40568354	C	A	40568354	3	1	435	1	0	0	0	0	1	0	0	0	1525	565	20	4	568	4	BRWD1	21	40568354	Missense_Mutation	SNP	C	TCGA-CW-5589-01A-01D-1534-10		40568354	7561541	63	22243											
CYB5R3	1727	broad.mit.edu;hgsc.bcm.edu	37	chr22	43024289	43024289	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtccttgaagtaaaccTgcaagacacccccgcagccc	10	6	10	15	1	0	2	0	1	0	1	1	2	1	2	5	1	3	3	5	1	4	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	43024289	T	A	43024289	5	1	435	1	0	0	0	0	0	0	1	0	4128	1594	55	5	593	5	CYB5R3	22	43024289	Splice_Site	SNP	T	TCGA-CW-5589-01A-01D-1534-10		43024289	8280277	64	22244											
POU3F4	5456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	82763423	82763423	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgcagcaggggagtcctTtccgcaaccctcagaaactt	10	8	10	13	1	1	1	1	0	0	1	3	2	3	2	3	2	4	4	3	2	2	2	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		C	82763423	T	C	82763423	3	2	435	1	0	0	0	0	1	0	0	0	12277	1841	64	3	93	3	POU3F4	23	82763423	Missense_Mutation	SNP	T	TCGA-CW-5589-01A-01D-1534-10		82763423	72507137	65	22245											
ARMCX3	51566	broad.mit.edu;hgsc.bcm.edu	37	chrX	100880895	100880895	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttaaacttctggtcatatTtgagaacataaatgataatt	15	16	5	5	0	3	2	1	2	2	1	3	3	3	2	0	1	2	0	0	1	7	7	novel		TCGA-CW-5589-01A-01D-1534-10	TCGA-CW-5589-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1b353345-c75f-45fa-a2e3-86782b868abc	f3decfca-d5a9-49b9-8a45-98a8f305dd77		A	100880895	T	A	100880895	3	1	435	1	0	0	0	0	1	0	0	0	961	1841	64	5	928	5	ARMCX3	23	100880895	Missense_Mutation	SNP	T	TCGA-CW-5589-01A-01D-1534-10	18117472	100880895	54389665	66	22246											
USP24	23358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55638068	55638068	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accattgtaagcacacccagGagaccagtgggaattggatc	13	7	11	10	0	0	1	0	0	0	1	1	4	0	3	3	3	1	2	3	3	2	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	55638068	G	A	55638068	2	1	436	1	0	0	0	0	0	0	0	1	17054	1161	41	2		2	USP24	1	55638068	Silent	SNP	G	TCGA-CW-5591-01A-01D-1534-10		55638068	193612553	1	22247											
USP24	23358	broad.mit.edu;hgsc.bcm.edu	37	chr1	55642117	55642117	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcagactcggaaagacCttagtaaaatgcatgaaata	17	9	7	8	1	2	3	2	1	0	2	3	4	2	4	1	1	1	2	1	1	6	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	55642117	C	A	55642117	5	1	436	1	0	0	0	0	0	0	1	0	17054	695	24	4	7636	4	USP24	1	55642117	Splice_Site	SNP	C	TCGA-CW-5591-01A-01D-1534-10	4049	55642117	193608504	2	22248											
TNNI1	7135	broad.mit.edu	37	chr1	201398087	201398087	+	RNA	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaggcagttgagacttcaAcagcaagtttccaggatgcc	11	9	11	10	0	1	2	1	2	0	1	2	4	2	3	2	2	3	4	2	2	2	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	201398087	T	T	201398087	1	4	436	0	1	0	0	0	0	0	0	0	16325	58	2	5		5	TNNI1	1	201398087	RNA	SNP	A	TCGA-CW-5591-01A-01D-1534-10	145755970	201398087	47852534	3	22249											
TARBP1	6894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234541769	234541769	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttcttaagagcaactaaaGcatacagtcgaacactaaaa	18	9	6	8	1	1	1	0	0	1	1	2	2	1	1	0	0	5	3	0	0	8	5	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	234541769	G	A	234541769	3	1	436	1	0	0	0	0	1	0	0	0	15554	971	34	2	1024	2	TARBP1	1	234541769	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10	33143682	234541769	14708852	4	22250											
ZSWIM2	151112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	187693068	187693068	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattcttatgaacaataggAggaagcagtgtttgagatgg	14	12	12	3	0	1	2	0	2	1	1	1	5	1	4	0	3	2	2	0	3	6	5	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	187693068	A	C	187693068	2	2	436	1	0	0	0	0	0	0	0	1	18240	291	11	5		5	ZSWIM2	2	187693068	Silent	SNP	A	TCGA-CW-5591-01A-01D-1534-10		187693068	55506305	5	22251											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191590	10191590	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaagaccacccaaatgtgCagaaagacctggagcggctg	13	5	13	10	1	0	3	0	0	0	3	0	5	0	5	3	3	2	2	3	3	3	0	rs5030825		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	10191590	C	T	10191590	4	4	436	1	0	0	0	0	0	1	0	0	17161	711	25	2	593	2	VHL	3	10191590	Nonsense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		10191590	187830840	6	22252											
NKTR	4820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	42679500	42679500	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgggaaaaaaaatagcgtTtcacataaaaagcatagcag	20	7	9	5	1	1	0	1	0	0	0	1	1	1	1	0	1	3	3	0	1	9	4	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	42679500	T	G	42679500	2	3	436	1	0	0	0	0	0	0	0	1	10448	1828	64	5		5	NKTR	3	42679500	Silent	SNP	T	TCGA-CW-5591-01A-01D-1534-10	32487910	42679500	155342930	7	22253											
ZNF445	353274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	44489465	44489465	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattcaattcaagaaatttCttcttagcatgggtttctcg	10	17	7	7	1	5	2	2	1	3	1	6	2	5	2	0	1	1	2	0	1	4	6	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	44489465	C	A	44489465	3	1	436	1	0	0	0	0	1	0	0	0	17917	912	32	4	1401	4	ZNF445	3	44489465	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10	1809965	44489465	153532965	8	22254											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47143043	47143043	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcagttgtccgttcacagtCcactgagatgatgtttgaaa	10	13	9	9	1	2	3	2	3	0	1	4	4	4	3	2	0	0	3	2	0	1	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	47143043	C	A	47143043	3	1	436	1	0	0	0	0	1	0	0	0	14133	856	30	4	2830	4	SETD2	3	47143043	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10	2653578	47143043	150879387	9	22255											
RAP2B	5912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	152880567	152880567	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcgtgacgggctccttcAtcgagaagtacgacccgacc	9	8	11	13	5	1	2	1	1	0	1	4	5	2	2	3	1	1	3	3	1	2	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	152880567	A	G	152880567	3	3	436	1	0	0	0	0	1	0	0	0	13043	217	8	3	87	3	RAP2B	3	152880567	Missense_Mutation	SNP	A	TCGA-CW-5591-01A-01D-1534-10	105737524	152880567	45141863	10	22256											
RNF4	6047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	2498774	2498774	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaattctagacaagctcAgaagcgaactcgggaagcaa	18	6	9	8	2	2	2	1	0	1	2	3	4	2	3	0	1	4	2	0	1	9	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	2498774	A	C	2498774	3	2	436	1	0	0	0	0	1	0	0	0	13494	188	7	5	56	5	RNF4	4	2498774	Missense_Mutation	SNP	A	TCGA-CW-5591-01A-01D-1534-10		2498774	188655502	11	22257											
MMRN1	22915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	90874205	90874205	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcattttttgcatctcataCgtatggaatgactatacctg	10	15	8	8	1	1	1	1	1	1	0	2	2	1	2	1	2	3	3	1	2	5	7	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	90874205	C	T	90874205	3	4	436	1	0	0	0	0	1	0	0	0	9670	536	19	1	3353	1	MMRN1	4	90874205	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10	88375431	90874205	100280071	12	22258											
PRSS48	345062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	152212274	152212274	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttcttccttagggtgAttctggagggcctctgtcgt	4	17	11	9	1	4	1	1	1	3	0	6	2	5	2	2	3	0	0	2	3	1	5	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	152212274	A	G	152212274	3	3	436	1	0	0	0	0	1	0	0	0	12632	333	12	3	674	3	PRSS48	4	152212274	Missense_Mutation	SNP	A	TCGA-CW-5591-01A-01D-1534-10	61338069	152212274	38942002	13	22259											
RAPGEF2	9693	broad.mit.edu	37	chr4	160275198	160275198	+	Frame_Shift_Del	DEL	G	-	-																															gtactacaaaggggctcattGgtaagttttaaaattggggg																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		-	160275198	-	-	160275198	7	5	436	1	0	1	0	1	0	0	0	0	13046	1362	47	0	4254	0	RAPGEF2	4	160275198	Frame_Shift_Del	DEL	G	TCGA-CW-5591-01A-01D-1534-10	8062924	160275198	30879078	14	22260											
LRRC14B	389257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	194972	194972	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcagcctgtacccctcgaCcttcttcaggctgctcagcc	5	10	9	17	1	4	0	3	0	1	0	5	1	4	0	5	2	4	3	5	2	1	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	194972	C	G	194972	3	3	436	1	0	0	0	0	1	0	0	0	8969	507	18	4	1055	4	LRRC14B	5	194972	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		194972	180720288	15	22261											
HSPA4	3308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132424155	132424155	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgctacacgaatccctGcggtaaaagagaagatcagc	13	7	12	9	2	1	2	1	0	0	2	2	4	2	2	1	2	4	2	1	2	5	2	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	132424155	G	T	132424155	3	4	436	1	0	0	0	0	1	0	0	0	7412	1319	46	4	1079	4	HSPA4	5	132424155	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10	132229183	132424155	48491105	16	22262											
ABCC10	89845	broad.mit.edu	37	chr6	43417778	43417778	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccactccctgttccagcaGctgctgcagagcagccagca	8	6	9	18	0	0	1	0	0	0	1	2	1	2	1	5	0	7	7	5	0	0	1	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	43417778	C	C	43417778	3	2	436	1	0	0	0	0	1	0	0	0	50	962	34	4	4422	4	ABCC10	6	43417778	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10		43417778	127697289	17	22263											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56357868	56357868	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactccattgccaagttgAgagcctcttccagtttagtc	9	12	9	11	0	1	1	0	1	1	1	4	3	3	2	4	1	3	2	4	1	3	5	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	56357868	A	T	56357868	3	4	436	1	0	0	0	0	1	0	0	0	4783	304	11	5	3050	5	DST	6	56357868	Missense_Mutation	SNP	A	TCGA-CW-5591-01A-01D-1534-10	12940090	56357868	114757199	18	22264											
CACNA2D1	781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	81635088	81635088	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttcatcttactgtaaaaCgtggtgtcagtcttttaata	12	17	6	6	1	4	0	2	0	2	0	4	0	4	0	0	1	2	1	0	1	6	6	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	81635088	C	A	81635088	3	1	436	1	0	0	0	0	1	0	0	0	2548	536	19	4	1859	4	CACNA2D1	7	81635088	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		81635088	77503575	19	22265											
KIAA0020	9933	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2823805	2823805	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccaccttttcaacataagtCttcattgttttcacaatcac	11	15	3	12	0	5	0	4	0	1	0	5	0	5	0	2	0	1	1	2	0	3	7	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	2823805	C	G	2823805	3	3	436	1	0	0	0	0	1	0	0	0	8152	912	32	4	810	4	KIAA0020	9	2823805	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		2823805	138389626	20	22266											
ZNF169	169841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	97055309	97055309	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctggagcaaggcgacgaaCcttggagagaggagaacgaa	15	3	16	7	3	0	2	0	0	0	2	0	9	0	4	1	4	4	2	1	4	4	1	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	97055309	C	G	97055309	3	3	436	1	0	0	0	0	1	0	0	0	17741	507	18	4	224	4	ZNF169	9	97055309	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10	94231504	97055309	44158122	21	22267											
TCF7L2	6934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	114901063	114901063	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacttaccagccgacgtaGaccccaaaacaggtaggctg	13	5	9	14	2	0	1	0	0	0	1	0	2	0	1	4	2	3	3	4	2	5	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	114901063	G	T	114901063	3	4	436	1	0	0	0	0	1	0	0	0	15697	942	33	4	840	4	TCF7L2	10	114901063	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10		114901063	20633684	22	22268											
B3GAT1	27087	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	134252621	134252621	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caccttggtgcagttggctgCcttgggctccaggtcgttga	4	12	14	11	1	0	1	0	1	0	0	2	1	1	1	3	4	2	5	3	4	0	4	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	134252621	C	T	134252621	3	4	436	1	0	0	0	0	1	0	0	0	1253	739	26	2	111	2	B3GAT1	11	134252621	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		134252621	753895	23	22269											
LTBR	4055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6493822	6493822	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatactatgagccccagcaCcgcatctgctgctcccgctg	8	8	9	16	2	1	1	0	1	1	0	2	2	2	1	4	0	5	5	4	0	3	2	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	6493822	C	G	6493822	3	3	436	1	0	0	0	0	1	0	0	0	9077	506	18	4	171	4	LTBR	12	6493822	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		6493822	127358073	24	22270											
KRT3	3850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53188042	53188042	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggttgtttgtgcctgagatgGaacttgtgccctgctgctgg	4	14	15	8	0	0	1	0	1	0	1	0	3	0	2	2	3	5	4	2	3	1	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	53188042	G	A	53188042	3	1	436	1	0	0	0	0	1	0	0	0	8466	1174	41	2	1199	2	KRT3	12	53188042	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10	46694220	53188042	80663853	25	22271											
GPN3	51184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	110897606	110897606	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaataccaatcctccgttGggaccgaatcgcagagaatc	14	7	8	12	3	0	1	0	0	0	1	4	4	2	2	4	1	1	2	4	1	6	2	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	110897606	G	T	110897606	2	4	436	1	0	0	0	0	0	0	0	1	6619	1335	47	4		4	GPN3	12	110897606	Silent	SNP	G	TCGA-CW-5591-01A-01D-1534-10	57709564	110897606	22954289	26	22272											
NOS1	4842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	117723925	117723925	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgcagcttggaccacTggatcctgcccacacagcgc	8	7	9	17	1	0	0	0	0	0	0	1	2	1	2	4	2	5	2	4	2	1	2	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	117723925	T	A	117723925	3	1	436	1	0	0	0	0	1	0	0	0	10541	1580	55	5	3126	5	NOS1	12	117723925	Missense_Mutation	SNP	T	TCGA-CW-5591-01A-01D-1534-10	6826319	117723925	16127970	27	22273											
KIAA0317	9870	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75136696	75136696	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttgggccaggaaagagcggGtgaagcgagctcggaccaac	11	5	16	9	3	0	2	0	1	0	1	1	5	0	4	2	4	4	1	2	4	3	1	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	75136696	G	A	75136696	3	1	436	1	0	0	0	0	1	0	0	0	8167	1261	44	2	757	2	KIAA0317	14	75136696	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10		75136696	32212844	28	22274											
DIO2	1734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	80669184	80669184	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacgttcaaaggctacccCgtaagctatgttggcgttat	10	11	9	11	3	1	0	1	0	0	0	1	0	1	0	2	2	2	6	2	2	5	6	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	80669184	C	A	80669184	3	1	436	1	0	0	0	0	1	0	0	0	4525	652	23	4	155	4	DIO2	14	80669184	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10	5532488	80669184	26680356	29	22275											
FLRT2	23768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	86088605	86088605	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcccaccctcctcccgatctCccaggtacgcatctgatcag	7	9	6	19	2	3	1	1	1	2	0	7	2	6	1	5	1	1	2	5	1	1	1	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	86088605	C	T	86088605	2	4	436	1	0	0	0	0	0	0	0	1	5939	842	30	2		2	FLRT2	14	86088605	Silent	SNP	C	TCGA-CW-5591-01A-01D-1534-10	5419421	86088605	21260935	30	22276											
SENP8	123228	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72432091	72432091	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgagtactttgccaacagtCagtttcatgactgctctgat	9	15	8	9	0	3	3	2	3	1	0	3	3	3	3	1	0	4	3	1	0	2	4	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	72432091	C	T	72432091	4	4	436	1	0	0	0	0	0	1	0	0	14054	827	29	2	129	2	SENP8	15	72432091	Nonsense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		72432091	30099301	31	22277											
TBC1D24	57465	broad.mit.edu;hgsc.bcm.edu	37	chr16	2546380	2546380	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcgtgtacagcgacatCgtgggcaagatcgtgggcaa	10	6	15	10	4	0	1	0	0	0	1	2	2	0	1	1	2	3	3	1	2	3	1	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	2546380	C	A	2546380	2	1	436	1	0	0	0	0	0	0	0	1	15613	874	31	4		4	TBC1D24	16	2546380	Silent	SNP	C	TCGA-CW-5591-01A-01D-1534-10		2546380	87808373	32	22278											
GPR97	222487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57713136	57713136	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcggcgtgttgaacaatcgCctggtgggtttgagtgtggg	6	11	18	6	3	0	2	0	2	0	0	1	2	0	2	1	4	2	2	1	4	2	2	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	57713136	C	A	57713136	2	1	436	1	0	0	0	0	0	0	0	1	6720	726	26	4		4	GPR97	16	57713136	Silent	SNP	C	TCGA-CW-5591-01A-01D-1534-10	55166756	57713136	32641617	33	22279											
NFATC3	4775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68156583	68156583	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctcaggaccctcatcaaGgcccacatccccctgtggga	9	6	9	17	0	3	0	3	0	0	0	4	2	4	2	5	3	1	0	5	3	1	0	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	68156583	G	C	68156583	3	2	436	1	0	0	0	0	1	0	0	0	10364	1000	35	4	803	4	NFATC3	16	68156583	Missense_Mutation	SNP	G	TCGA-CW-5591-01A-01D-1534-10	10443447	68156583	22198170	34	22280											
NLRP1	22861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5463037	5463038	+	Frame_Shift_Ins	INS	-	-	C																															tgcagtatgactatgcgaggINSttcttgggtatccaggcctg																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	5463038	-	C	5463037	7	5	436	1	0	1	1	0	0	0	0	0	10471	1261	44	0	3573	0	NLRP1	17	5463037	Frame_Shift_Ins	INS	-	TCGA-CW-5591-01A-01D-1534-10		5463037	75732173	35	22281	308	2									
NLRP1	22861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5463038	5463039	+	Frame_Shift_Ins	INS	-	-	C																															gcagtatgactatgcgaggtINStcttgggtatccaggcctgg																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	5463039	-	C	5463038	7	5	436	1	0	1	1	0	0	0	0	0	10471	1722	60	0	3574	0	NLRP1	17	5463038	Frame_Shift_Ins	INS	-	TCGA-CW-5591-01A-01D-1534-10	1	5463038	75732172	36	22282	308	2									
IMPA2	3613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	11999101	11999101	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtgtctcaacaaaaacaTcagctgcagatcttgtgaca	15	9	7	10	1	3	2	2	1	2	1	4	2	3	2	0	0	5	2	0	0	4	1	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	11999101	T	G	11999101	3	3	436	1	0	0	0	0	1	0	0	0	7723	1435	50	5	151	5	IMPA2	18	11999101	Missense_Mutation	SNP	T	TCGA-CW-5591-01A-01D-1534-10		11999101	66078147	37	22283											
MLLT1	4298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6218035	6218035	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggagctggagttggaCgggcttgactgggcagactt	7	9	18	7	1	0	2	0	1	0	1	0	6	0	5	0	5	2	5	0	5	0	3	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		T	6218035	C	T	6218035	2	4	436	1	0	0	0	0	0	0	0	1	9625	523	19	1		1	MLLT1	19	6218035	Silent	SNP	C	TCGA-CW-5591-01A-01D-1534-10		6218035	52910948	38	22284											
ZNF98	148198	broad.mit.edu;hgsc.bcm.edu	37	chr19	22574443	22574443	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcttatgtctgttaagaaTagaggagttgttaaaggctt	12	15	10	4	0	2	2	0	0	2	2	2	3	2	3	0	2	0	4	0	2	6	6	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		C	22574443	T	C	22574443	3	2	436	1	0	0	0	0	1	0	0	0	18202	1406	49	3	128	3	ZNF98	19	22574443	Missense_Mutation	SNP	T	TCGA-CW-5591-01A-01D-1534-10	16356408	22574443	36554540	39	22285											
ZNF765	91661	broad.mit.edu	37	chr19	53911474	53911474	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgcaatgacagtggcaaAgcctataattgtagctcact	14	10	8	9	0	1	1	1	1	0	0	1	1	1	1	1	1	3	4	1	1	6	4	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	53911474	G	G	53911474	2	3	436	1	0	0	0	0	0	0	0	1	18138	69	3	3		3	ZNF765	19	53911474	Silent	SNP	A	TCGA-CW-5591-01A-01D-1534-10	31337031	53911474	5217509	40	22286											
CENPB	1059	hgsc.bcm.edu	37	chr20	3765529	3765529	+	Missense_Mutation	SNP	C	C	A																															acaggcacctcatcaccatcCtcctcatcatcatcgtcgtc																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	3765529	C	A	3765529	3	1	436	1	0	0	0	0	1	0	0	0	3227	680	24	4	201	4	CENPB	20	3765529	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10		3765529	59259991	41	22287	309	2									
CENPB	1059	hgsc.bcm.edu	37	chr20	3765532	3765532	+	Missense_Mutation	SNP	C	C	A																															ggcacctcatcaccatcctcCtcatcatcatcgtcgtcttc																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		A	3765532	C	A	3765532	3	1	436	1	0	0	0	0	1	0	0	0	3227	680	24	4	204	4	CENPB	20	3765532	Missense_Mutation	SNP	C	TCGA-CW-5591-01A-01D-1534-10	3	3765532	59259988	42	22288	309	2									
SON	6651	hgsc.bcm.edu	37	chr21	34925612	34925635	+	In_Frame_Del	DEL	GTCCTGGAGTCTTCGGCTGTGACC	GTCCTGGAGTCTTCGGCTGTGACC	-																															cagagtcttcagctatggctGtcctggagtcttcggctgtg																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	GTCCTGGAGTCTTCGGCTGTGACC	GTCCTGGAGTCTTCGGCTGTGACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		-	34925635	GTCCTGGAGTCTTCGGCTGTGACC	-	34925612	7	5	436	1	0	1	0	1	0	0	0	0	14928	1377	48	0	4085	0	SON	21	34925612	In_Frame_Del	DEL	GTCCTGGAGTCTTCGGCTGTGACC	TCGA-CW-5591-01A-01D-1534-10		34925612	13204283	43	22289											
UPB1	51733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24921682	24921682	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgttttgctttcagatgAcgggcaggtatgagatgtac	8	14	13	6	1	1	3	1	2	0	2	1	4	1	3	0	2	2	5	0	2	2	5	novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		G	24921682	A	G	24921682	3	3	436	1	0	0	0	0	1	0	0	0	17001	275	10	3	1113	3	UPB1	22	24921682	Missense_Mutation	SNP	A	TCGA-CW-5591-01A-01D-1534-10		24921682	26382884	44	22290											
FRMD7	90167	hgsc.bcm.edu	37	chrX	131261862	131261862	+	Frame_Shift_Del	DEL	A	A	-																															catccaaaaactgcacttttAaatgtagcattctcagcgag																								novel		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	02ac80cd-caa3-4dbc-9b57-4a324cec0ad4	62481cc6-a290-4771-a728-4a69a49f1cfc		-	131261862	A	-	131261862	7	5	436	1	0	1	0	1	0	0	0	0	6055	372	13	0	2181	0	FRMD7	23	131261862	Frame_Shift_Del	DEL	A	TCGA-CW-5591-01A-01D-1534-10		131261862	24008698	45	22291											
PLA2G2F	64600	broad.mit.edu	37	chr1	20470069	20470069	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggccgtggccagcccaaGgatgaggtggactggtaggt	7	6	20	8	1	0	1	0	1	0	0	0	3	0	3	3	8	1	1	3	8	2	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	20470069	A	A	20470069	2	1	437	1	0	0	0	0	0	0	0	1	11999	991	35	2		2	PLA2G2F	1	20470069	Silent	SNP	G	TCGA-CW-6087-01A-11D-1669-08		20470069	228780552	1	22292											
EIF4G3	8672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21268372	21268372	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actatttccacaatgctctcCgtggctgataatttttcgct	8	16	6	11	2	1	1	0	1	1	0	4	1	2	1	2	1	1	3	2	1	3	5	rs150884106	byfrequency;alternate_allele	TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	21268372	C	T	21268372	2	4	437	1	0	0	0	0	0	0	0	1	5038	639	23	1		1	EIF4G3	1	21268372	Silent	SNP	C	TCGA-CW-6087-01A-11D-1669-08	798303	21268372	227982249	2	22293											
IL28RA	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24484205	24484205	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcctcatcctcctcctcTtcgtcctctgcaaggtcctt	3	15	4	19	1	3	0	1	0	2	0	11	0	10	0	7	1	1	1	7	1	1	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	24484205	T	C	24484205	2	2	437	1	0	0	0	0	0	0	0	1	7684	1606	56	3		3	IL28RA	1	24484205	Silent	SNP	T	TCGA-CW-6087-01A-11D-1669-08	3215833	24484205	224766416	3	22294											
EXTL1	2134	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26355761	26355761	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgaggctgcctcgcgctTcctccaagccctgcaggtac	5	8	10	18	3	0	0	0	0	0	0	4	1	3	0	5	2	4	4	5	2	2	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	26355761	T	A	26355761	3	1	437	1	0	0	0	0	1	0	0	0	5325	1783	62	5	863	5	EXTL1	1	26355761	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	1871556	26355761	222894860	4	22295											
FOXJ3	22887	broad.mit.edu;hgsc.bcm.edu	37	chr1	42730816	42730816	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatccttagatcgaggcacTttaaggaaacatttgttcaa	13	13	7	8	1	2	1	2	0	0	1	4	3	3	2	1	2	1	2	1	2	4	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	42730816	T	A	42730816	3	1	437	1	0	0	0	0	1	0	0	0	6013	1606	56	5	1494	5	FOXJ3	1	42730816	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	16375055	42730816	206519805	5	22296											
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62341007	62341007	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgacgacctggaaaatctTaattcattagcaaaaactag	16	12	6	7	1	2	1	1	1	1	0	2	3	2	2	1	1	2	1	1	1	7	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	62341007	T	A	62341007	2	1	437	1	0	0	0	0	0	0	0	1	7731	1741	61	5		5	INADL	1	62341007	Silent	SNP	T	TCGA-CW-6087-01A-11D-1669-08	19610191	62341007	186909614	6	22297											
CLCA4	22802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	87025997	87025997	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatacattcacttcacccCtgaccttctacttggaaaaa	13	11	4	13	1	3	1	2	1	1	0	3	3	3	2	3	1	2	0	3	1	5	6	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	87025997	C	T	87025997	3	4	437	1	0	0	0	0	1	0	0	0	3459	681	24	2	414	2	CLCA4	1	87025997	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08	24684990	87025997	162224624	7	22298											
VWA3B	200403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	98828414	98828414	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaagctccacaaacaccCtgagtgccctgaaaactgct	12	8	8	13	0	0	2	0	2	0	0	1	3	1	3	3	1	5	2	3	1	4	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	98828414	C	G	98828414	3	3	437	1	0	0	0	0	1	0	0	0	17240	680	24	4	1805	4	VWA3B	2	98828414	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		98828414	144370959	8	22299											
LRP1B	53353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	141122269	141122269	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcagagttgtctccacagtCgtcctctccatcacacaccc	9	10	5	17	1	4	1	2	0	2	1	8	1	5	1	4	0	0	1	4	0	0	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	141122269	C	T	141122269	3	4	437	1	0	0	0	0	1	0	0	0	8955	884	31	1	2787	1	LRP1B	2	141122269	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08	42293855	141122269	102077104	9	22300											
SCN10A	6336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38783881	38783881	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgcacaaggtgatggtGagctctgcaaagggatccgt	11	8	14	8	2	1	2	0	2	1	0	2	4	2	3	1	3	3	3	1	3	2	0	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	38783881	G	T	38783881	2	4	437	1	0	0	0	0	0	0	0	1	13914	1277	45	4		4	SCN10A	3	38783881	Silent	SNP	G	TCGA-CW-6087-01A-11D-1669-08		38783881	159238549	10	22301											
ACOX2	8309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	58490979	58490979	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatctccaactttgtaaaAgtggtcttatatattcctca	11	16	6	8	0	3	0	1	0	2	0	5	1	4	1	2	2	1	1	2	2	6	6	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	58490979	A	G	58490979	3	3	437	1	0	0	0	0	1	0	0	0	159	72	3	3	31	3	ACOX2	3	58490979	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08	19707098	58490979	139531451	11	22302											
RFC4	5984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186508173	186508173	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggcagcaaatactccaTcaattttctcagctggtatt	12	12	7	10	0	2	0	2	0	1	0	4	1	3	0	1	2	3	4	1	2	4	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	186508173	T	C	186508173	3	2	437	1	0	0	0	0	1	0	0	0	13249	1435	50	3	279	3	RFC4	3	186508173	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	128017194	186508173	11514257	12	22303											
TNK2	10188	broad.mit.edu	37	chr3	195594610	195594610	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcagggaccagcccgCgggccaggggcctggatcac	8	3	17	13	2	1	0	1	0	0	0	1	3	1	3	4	6	2	1	4	6	0	0	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	195594610	T	T	195594610	2	4	437	1	0	0	0	0	0	0	0	1	16317	755	27	1		1	TNK2	3	195594610	Silent	SNP	C	TCGA-CW-6087-01A-11D-1669-08	9086437	195594610	2427820	13	22304											
UGT2B10	7365	broad.mit.edu;hgsc.bcm.edu	37	chr4	69692199	69692199	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgactgtacaagtggataccCcagaatgaccttctaggtaa	13	9	9	10	1	1	2	0	1	1	1	1	4	1	3	3	2	2	2	3	2	6	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	69692199	C	T	69692199	2	4	437	1	0	0	0	0	0	0	0	1	16955	610	22	2		2	UGT2B10	4	69692199	Silent	SNP	C	TCGA-CW-6087-01A-11D-1669-08		69692199	121462077	14	22305											
HMGCS1	3157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43295906	43295906	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatctctattctggtcatTaaggaagtcattcagcaaca	12	15	6	8	0	5	0	3	0	2	0	6	1	5	1	0	2	2	1	0	2	5	6	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	43295906	T	A	43295906	3	1	437	1	0	0	0	0	1	0	0	0	7232	1754	61	5	733	5	HMGCS1	5	43295906	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08		43295906	137619354	15	22306											
FTMT	94033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	121187839	121187839	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcccgggaccctaccgggCccgccgccggcccctctcgg	2	4	12	23	6	1	0	0	0	1	0	3	1	2	1	9	4	1	0	9	4	1	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	121187839	C	T	121187839	3	4	437	1	0	0	0	0	1	0	0	0	6085	739	26	2	183	2	FTMT	5	121187839	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08	77891933	121187839	59727421	16	22307											
ZNF608	57507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	124079840	124079840	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcttccttctttacCaacatagagtttcccatgag	8	15	4	14	0	2	2	0	1	2	1	6	2	6	2	5	0	2	1	5	0	3	6	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	124079840	C	T	124079840	2	4	437	1	0	0	0	0	0	0	0	1	18033	593	21	2		2	ZNF608	5	124079840	Silent	SNP	C	TCGA-CW-6087-01A-11D-1669-08	2892001	124079840	56835420	17	22308											
SRA1	10011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139930679	139930679	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agccattctcttctttacagGtattgacaactttcctccag	9	15	5	12	0	2	1	0	1	2	0	5	1	4	1	3	1	3	1	3	1	3	7	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	139930679	G	T	139930679	3	4	437	1	0	0	0	0	1	0	0	0	15133	1261	44	4	252	4	SRA1	5	139930679	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	15850839	139930679	40984581	18	22309											
PCDHB9	56127	broad.mit.edu	37	chr5	140568303	140568303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagccccgccctgcacatcgGcagtgtcagcgccacagaca	9	4	10	18	3	1	1	1	0	0	1	2	1	1	1	4	1	3	2	4	1	0	0	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	140568303	A	A	140568303	3	1	437	1	0	0	0	0	1	0	0	0	11549	1203	42	2	1413	2	PCDHB9	5	140568303	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	637624	140568303	40346957	19	22310											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56501389	56501389	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttctcctttatgtgctgcTccacacactggcagagctgt	6	14	9	12	0	1	1	0	0	1	1	3	1	2	1	2	1	3	5	2	1	1	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	56501389	T	A	56501389	3	1	437	1	0	0	0	0	1	0	0	0	4783	1551	54	5	19044	5	DST	6	56501389	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08		56501389	114613678	20	22311											
CASP8AP2	9994	broad.mit.edu	37	chr6	90573113	90573113	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgagttttatgaaaaaatTgaacttaactctttctcctg	13	17	5	6	0	2	3	0	3	2	0	3	3	2	3	1	0	2	1	1	0	6	6	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	90573113	A	A	90573113	4	1	437	1	0	0	0	0	0	1	0	0	2678	1821	63	5	1707	5	CASP8AP2	6	90573113	Nonsense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	34071724	90573113	80541954	21	22312											
POM121L12	285877	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	53103958	53103958	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgacgggccgttgtggttCgaggtctcagacagcaaggg	7	9	16	9	4	1	1	1	0	1	1	4	3	1	1	1	4	1	3	1	4	1	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	53103958	C	T	53103958	2	4	437	1	0	0	0	0	0	0	0	1	12241	883	31	1		1	POM121L12	7	53103958	Silent	SNP	C	TCGA-CW-6087-01A-11D-1669-08		53103958	106034705	22	22313											
CUX1	1523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	101925178	101925178	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgcaccatcggcttctTctacacactgttcctgcact	6	11	8	16	3	2	0	0	0	2	0	4	0	3	0	2	2	2	4	2	2	1	4	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	101925178	T	G	101925178	3	3	437	1	0	0	0	0	1	0	0	0	4064	1783	62	5	5320	5	CUX1	7	101925178	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	48821220	101925178	57213485	23	22314											
MET	4233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116415115	116415115	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcagtgcagcatgtagTgattgggcccagtagcctga	9	8	14	10	0	0	2	0	2	0	0	0	2	0	2	3	2	3	5	3	2	2	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	116415115	T	A	116415115	3	1	437	1	0	0	0	0	1	0	0	0	9485	1696	59	5	3317	5	MET	7	116415115	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	14489937	116415115	42723548	24	22315											
GALNT11	63917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	151807716	151807716	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tctggggaggagaaaatttgGaaatatcatttcgggtaatt	13	13	12	3	1	2	1	1	0	1	1	3	4	2	3	0	5	0	1	0	5	5	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	151807716	G	C	151807716	3	2	437	1	0	0	0	0	1	0	0	0	6209	1175	41	4	1088	4	GALNT11	7	151807716	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	35392601	151807716	7330947	25	22316											
MSR1	4481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	16032735	16032735	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgagaactgcaaacaCgaggaggtaaagggcaatca	17	4	14	6	1	1	1	1	1	0	1	1	5	1	3	0	4	3	3	0	4	5	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	16032735	C	G	16032735	3	3	437	1	0	0	0	0	1	0	0	0	9886	536	19	4	1257	4	MSR1	8	16032735	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		16032735	130331287	26	22317											
PHYHIP	9796	broad.mit.edu;hgsc.bcm.edu	37	chr8	22084409	22084409	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctccagccggacaccaggtActccccatcgctctgcttca	7	8	8	18	2	2	0	1	0	1	0	5	1	4	1	5	2	3	4	5	2	1	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	22084409	A	G	22084409	3	3	437	1	0	0	0	0	1	0	0	0	11866	391	14	3	709	3	PHYHIP	8	22084409	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08	6051674	22084409	124279613	27	22318											
SGK3	23678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67748020	67748020	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttgcaaaacggaaacTggatggaaaattttatgctg	13	13	9	6	1	2	0	0	0	2	0	2	3	2	3	0	3	4	2	0	3	6	4	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	67748020	T	C	67748020	3	2	437	1	0	0	0	0	1	0	0	0	14214	1580	55	3	578	3	SGK3	8	67748020	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	45663611	67748020	78616002	28	22319											
PABPC1	26986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	101724674	101724674	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatcaagatttttcacataAagattaacaccctaaaaaga	19	11	3	8	0	3	3	3	0	0	3	3	3	3	3	1	0	1	0	1	0	7	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	101724674	A	G	101724674	2	3	437	1	0	0	0	0	0	0	0	1	11363	1	1	3		3	PABPC1	8	101724674	Silent	SNP	A	TCGA-CW-6087-01A-11D-1669-08	33976654	101724674	44639348	29	22320											
ADCY8	114	broad.mit.edu;hgsc.bcm.edu	37	chr8	131880119	131880119	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaagcaaactttgtattGccgtgataaatagaagaacg	17	9	10	5	2	0	3	0	1	0	2	0	4	0	4	1	1	4	2	1	1	9	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	131880119	G	T	131880119	3	4	437	1	0	0	0	0	1	0	0	0	300	1319	46	4	1612	4	ADCY8	8	131880119	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	30155445	131880119	14483903	30	22321											
PRKACG	5568	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	71628711	71628711	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgacgaggaacggaaagtCgatcgcctgcaggatgcgct	10	7	14	10	5	0	1	0	1	0	0	2	6	0	4	1	3	3	2	1	3	2	1	rs138606760		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	71628711	C	T	71628711	3	4	437	1	0	0	0	0	1	0	0	0	12501	884	31	1	761	1	PRKACG	9	71628711	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		71628711	69584720	31	22322											
AGTPBP1	23287	broad.mit.edu;hgsc.bcm.edu	37	chr9	88193989	88193989	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaaatgctggggcgataTggctcagtatcttaggcaat	11	11	12	7	1	2	0	1	0	1	0	2	1	2	0	0	4	2	5	0	4	6	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	88193989	T	C	88193989	3	2	437	1	0	0	0	0	1	0	0	0	400	1464	51	3	504	3	AGTPBP1	9	88193989	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	16565278	88193989	53019442	32	22323											
CRAT	1384	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131864768	131864768	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttggggcccggcactcGgcaggaggacaagatctgat	8	7	15	11	2	1	2	0	1	1	1	2	4	1	4	1	6	1	3	1	6	1	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	131864768	G	A	131864768	4	1	437	1	0	0	0	0	0	1	0	0	3847	1124	39	1	1379	1	CRAT	9	131864768	Nonsense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	43670779	131864768	9348663	33	22324											
ANKRD30A	91074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	37508065	37508065	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattaagattttaaaagaaaAgaatgctgaacttcagatga	19	11	7	4	0	1	6	1	2	0	4	1	6	1	6	0	0	2	1	0	0	7	4	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	37508065	A	T	37508065	3	4	437	1	0	0	0	0	1	0	0	0	658	72	3	5	3391	5	ANKRD30A	10	37508065	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08		37508065	98026682	34	22325											
POLL	27343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	103345853	103345853	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatctgcttctcaaagagtTctgcccgggctcgtccaatg	8	11	9	13	2	3	1	1	0	3	1	6	1	4	1	2	1	2	3	2	1	3	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	103345853	T	A	103345853	3	1	437	1	0	0	0	0	1	0	0	0	12205	1783	62	5	1579	5	POLL	10	103345853	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	65837788	103345853	32188894	35	22326											
ESRRA	2101	broad.mit.edu;hgsc.bcm.edu	37	chr11	64082235	64082235	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccagtgaatgcactggtGtctcatctgctggtggttga	6	12	13	10	0	2	2	1	2	2	0	3	2	2	2	2	3	2	3	2	3	1	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	64082235	G	A	64082235	2	1	437	1	0	0	0	0	0	0	0	1	5260	1364	48	2		2	ESRRA	11	64082235	Silent	SNP	G	TCGA-CW-6087-01A-11D-1669-08		64082235	70924281	36	22327											
CPT1A	1374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	68575043	68575043	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggtgacgatgagggccacCcacaggccggtgccaaacag	11	4	14	12	2	0	2	0	2	0	0	0	3	0	2	4	4	2	0	4	4	1	0	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	68575043	C	T	68575043	4	4	437	1	0	0	0	0	0	1	0	0	3831	624	22	2	2080	2	CPT1A	11	68575043	Nonsense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08	4492808	68575043	66431473	37	22328											
NARS2	79731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	78176959	78176959	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcattatccctcatgtagAaaggcttgagtgttaatgga	11	14	9	7	0	2	2	2	1	0	1	3	3	3	3	1	2	0	3	1	2	4	5	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	78176959	A	C	78176959	3	2	437	1	0	0	0	0	1	0	0	0	10171	246	9	5	322	5	NARS2	11	78176959	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08	9601916	78176959	56829557	38	22329											
FARP1	10160	broad.mit.edu	37	chr13	99083408	99083408	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagactttgagctgcagaagGtgtgttacctaccgctcaac	10	10	11	10	1	1	3	1	1	0	2	1	4	1	3	2	1	5	4	2	1	4	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	99083408	T	T	99083408	3	4	437	1	0	0	0	0	1	0	0	0	5676	1261	44	4	2306	4	FARP1	13	99083408	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08		99083408	16086470	39	22330											
SAV1	60485	broad.mit.edu	37	chr14	51131954	51131954	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagatcatggttgtattCataatatctgtagtcttcat	12	16	8	5	0	5	1	3	0	2	1	5	3	5	1	0	1	0	3	0	1	5	7	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	51131954	A	A	51131954	4	1	437	1	0	0	0	0	0	1	0	0	13858	835	29	4	689	4	SAV1	14	51131954	Nonsense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		51131954	56217586	40	22331											
AHSA1	10598	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77929008	77929008	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgagccttgccaaagaTgagcctgacacaaatctcgt	12	9	10	10	1	1	4	0	3	1	1	2	4	1	4	3	0	3	0	3	0	2	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	77929008	T	C	77929008	2	2	437	1	0	0	0	0	0	0	0	1	418	1461	51	3		3	AHSA1	14	77929008	Silent	SNP	T	TCGA-CW-6087-01A-11D-1669-08	26797054	77929008	29420532	41	22332											
MESP1	55897	broad.mit.edu;hgsc.bcm.edu	37	chr15	90293454	90293454	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagccagcacgtcgcccggaAggagctgtagggagagacgg	10	3	18	10	4	0	1	0	0	0	1	1	6	0	4	2	4	3	3	2	4	2	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	90293454	A	T	90293454	3	4	437	1	0	0	0	0	1	0	0	0	9482	72	3	5	82	5	MESP1	15	90293454	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08		90293454	12237938	42	22333											
ZNF624	57547	hgsc.bcm.edu;ucsc.edu	37	chr17	16527779	16527779	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgataaatcttcagaaatagCctttgttcgtgtagccttct	10	16	7	8	1	3	2	1	1	2	1	4	2	3	2	2	0	2	2	2	0	5	7	rs142158380	bycluster;byfrequency;by1000genomes	TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	16527779	C	G	16527779	3	3	437	1	0	0	0	0	1	0	0	0	18047	739	26	4	2180	4	ZNF624	17	16527779	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		16527779	64667431	43	22334											
TOB1	10140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48940954	48940954	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgaggctgggtcacttAtgggcataaaaacctgggcc	10	9	13	9	0	1	2	1	2	0	0	1	2	1	2	2	4	1	2	2	4	4	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	48940954	A	G	48940954	3	3	437	1	0	0	0	0	1	0	0	0	16346	449	16	3	616	3	TOB1	17	48940954	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08	32413175	48940954	32254256	44	22335											
MGAT5B	146664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74936814	74936814	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatctctgtacccttgccagGtgttctcccagcatccctac	7	12	6	16	0	2	0	0	0	2	0	5	0	3	0	4	1	4	3	4	1	3	4	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	74936814	G	A	74936814	3	1	437	1	0	0	0	0	1	0	0	0	9549	1275	44	2	1881	2	MGAT5B	17	74936814	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	25995860	74936814	6258396	45	22336											
WDR7	23335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	54424323	54424323	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaaccccactgcaccgtAtcgtttggcctcttgtcaag	8	11	8	14	2	2	1	1	1	1	0	3	1	2	1	4	1	2	3	4	1	3	3	rs145083205		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	54424323	A	G	54424323	2	3	437	1	0	0	0	0	0	0	0	1	17319	436	16	3		3	WDR7	18	54424323	Silent	SNP	A	TCGA-CW-6087-01A-11D-1669-08		54424323	23652925	46	22337											
TSHZ1	10194	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	72998494	72998494	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgcagaggtggccctgagtGagtcagccaaggatcagaaa	12	5	14	10	1	2	4	2	2	0	2	2	5	2	5	3	3	1	1	3	3	2	0	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	72998494	G	A	72998494	3	1	437	1	0	0	0	0	1	0	0	0	16622	1291	45	2	999	2	TSHZ1	18	72998494	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	18574171	72998494	5078754	47	22338											
TCF3	6929	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1612391	1612391	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgcgcctctcccggtccCtcaggtctttctcctccagg	3	11	8	19	2	4	0	1	0	3	0	8	0	6	0	6	3	1	0	6	3	0	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	1612391	C	A	1612391	3	1	437	1	0	0	0	0	1	0	0	0	15693	681	24	4	335	4	TCF3	19	1612391	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		1612391	57516592	48	22339											
UPF1	5976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18960913	18960913	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcaccttgtgagggcaaAatgcaaagaggtgaccctgc	14	7	11	9	0	1	3	1	2	0	1	1	3	1	3	2	2	2	2	2	2	4	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	18960913	A	G	18960913	3	3	437	1	0	0	0	0	1	0	0	0	17002	14	1	3	505	3	UPF1	19	18960913	Missense_Mutation	SNP	A	TCGA-CW-6087-01A-11D-1669-08	17348522	18960913	40168070	49	22340											
SIPA1L3	23094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38591731	38591731	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggcatcctctattgcaagGccggccagagctccgaggag	8	7	14	12	2	1	1	0	0	1	1	3	3	3	2	4	4	2	3	4	4	2	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	38591731	G	A	38591731	3	1	437	1	0	0	0	0	1	0	0	0	14333	1203	42	2	1908	2	SIPA1L3	19	38591731	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	19630818	38591731	20537252	50	22341											
ZNF285	26974	hgsc.bcm.edu	37	chr19	44891043	44891043	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacacattgcatttgtatGgtttctcccctgtgtggact	7	15	8	11	0	1	0	0	0	1	0	2	1	1	1	2	2	1	3	2	2	1	4	rs77661661		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	44891043	G	T	44891043	3	4	437	1	0	0	0	0	1	0	0	0	17821	1348	47	4	412	4	ZNF285	19	44891043	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	6299312	44891043	14237940	51	22342											
PCSK2	5126	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	17434533	17434533	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggactgccctgtacgaCgagagctgctcttccacctt	7	9	11	14	2	1	1	0	0	1	1	2	4	2	2	3	2	4	4	3	2	1	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	17434533	C	T	17434533	2	4	437	1	0	0	0	0	0	0	0	1	11601	535	19	1		1	PCSK2	20	17434533	Silent	SNP	C	TCGA-CW-6087-01A-11D-1669-08		17434533	45590987	52	22343											
SGK2	10110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	42199332	42199332	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgctgaggtggccagcGccattggctacctgcactcc	6	8	12	15	2	0	1	0	1	0	0	1	1	1	1	4	3	4	4	4	3	1	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	42199332	G	C	42199332	3	2	437	1	0	0	0	0	1	0	0	0	14211	1087	38	4	638	4	SGK2	20	42199332	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	24764799	42199332	20826188	53	22344											
PLTP	5360	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44538612	44538612	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcagctgtctccggaagcGcagccccaaggaggcattgg	9	5	15	12	2	1	0	0	0	1	0	2	3	1	2	3	4	4	4	3	4	2	1	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	44538612	G	T	44538612	3	4	437	1	0	0	0	0	1	0	0	0	12114	1087	38	4	1235	4	PLTP	20	44538612	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	2339280	44538612	18486908	54	22345											
PREX1	57580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47292733	47292733	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaggaggccctcacctGagccagcagccagtccacca	9	4	10	18	0	1	2	1	2	0	0	2	3	2	3	7	2	3	1	7	2	0	0	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		T	47292733	G	T	47292733	3	4	437	1	0	0	0	0	1	0	0	0	12478	1299	45	4	3424	4	PREX1	20	47292733	Missense_Mutation	SNP	G	TCGA-CW-6087-01A-11D-1669-08	2754121	47292733	15732787	55	22346											
KCNJ15	3772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	39671492	39671492	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggtgagcccatttcaaaTcataccccctgcatcatgaa	11	9	6	15	1	3	2	3	2	0	0	3	2	3	2	4	1	3	1	4	1	3	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		G	39671492	T	G	39671492	3	3	437	1	0	0	0	0	1	0	0	0	8049	1432	50	5	311	5	KCNJ15	21	39671492	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08		39671492	8458403	56	22347											
GAL3ST1	9514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30951966	30951966	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggccgtcttgtgcgtCttcaagaacacgatgttgcg	6	12	12	11	4	3	1	1	0	2	1	3	2	3	1	1	1	4	2	1	1	2	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	30951966	C	A	30951966	3	1	437	1	0	0	0	0	1	0	0	0	6197	912	32	4	1029	4	GAL3ST1	22	30951966	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08		30951966	20352600	57	22348											
PCDH19	57526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	99662750	99662750	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagagctcgcgcgtgcggtcGttgacgtagccatagaagga	10	7	15	9	6	0	3	0	1	0	2	2	4	0	4	1	2	3	3	1	2	4	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	99662750	G	A	99662750	2	1	437	1	0	0	0	0	0	0	0	1	11514	1136	40	1		1	PCDH19	23	99662750	Silent	SNP	G	TCGA-CW-6087-01A-11D-1669-08		99662750	55607810	58	22349											
HAUS7	55559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	152719888	152719888	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgccaccccagcagaTctgctcgccttgctgcttct	4	11	9	17	1	2	1	0	0	2	1	3	1	2	1	4	0	6	6	4	0	0	2	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		C	152719888	T	C	152719888	3	2	437	1	0	0	0	0	1	0	0	0	6971	1435	50	3	75	3	HAUS7	23	152719888	Missense_Mutation	SNP	T	TCGA-CW-6087-01A-11D-1669-08	53057138	152719888	2550672	59	22350											
PNCK	139728	broad.mit.edu	37	chrX	152936765	152936765	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaggagatgacgcccagggCccacacatctacggccttcc	9	6	11	15	2	1	2	0	1	1	1	2	3	2	2	4	3	1	1	4	3	2	3	novel		TCGA-CW-6087-01A-11D-1669-08	TCGA-CW-6087-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	65c23a97-1763-47d5-8648-df24cf0226f3	8085a4ca-eaa6-417b-84d8-d5fa912dcdc3		A	152936765	A	A	152936765	3	1	437	1	0	0	0	0	1	0	0	0	12145	739	26	4	462	4	PNCK	23	152936765	Missense_Mutation	SNP	C	TCGA-CW-6087-01A-11D-1669-08	216877	152936765	2333795	60	22351											
RCC2	55920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17748729	17748729	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggaacagcgtctgtctgGttgccaaggcccagctgccc	6	8	13	14	1	2	0	0	0	2	0	2	1	2	1	3	3	5	2	3	3	2	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	17748729	G	A	17748729	2	1	438	1	0	0	0	0	0	0	0	1	13176	1252	44	2		2	RCC2	1	17748729	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08		17748729	231501892	1	22352											
PTPRU	10076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	29585159	29585159	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgggcacagcccgggcacCctgggcgtctacgtgcgcgt	5	5	16	15	6	1	0	0	0	1	0	1	1	1	0	2	3	3	2	2	3	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	29585159	C	T	29585159	2	4	438	1	0	0	0	0	0	0	0	1	12815	610	22	2		2	PTPRU	1	29585159	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	11836430	29585159	219665462	2	22353											
GJB3	2707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35250435	35250435	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagcgttcgggcgcatctgGctgtccgtggtgttcgtctt	3	13	14	11	5	2	0	0	0	2	0	5	0	3	0	1	3	1	4	1	3	0	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	35250435	G	A	35250435	4	1	438	1	0	0	0	0	0	1	0	0	6409	1212	42	2	74	2	GJB3	1	35250435	Nonsense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	5665276	35250435	214000186	3	22354											
EIF2C4	192670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36319144	36319144	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagcaacggccgggatcctCaggccttggctaaggctgtg	8	7	15	11	2	1	1	1	0	0	1	2	2	2	2	3	5	2	3	3	5	2	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	36319144	C	T	36319144	4	4	438	1	0	0	0	0	0	1	0	0	5008	827	29	2	2594	2	EIF2C4	1	36319144	Nonsense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	1068709	36319144	212931477	4	22355											
CYP4A11	1579	broad.mit.edu	37	chr1	47401310	47401310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcctggccaaggagctcttCccatttgtcctgtggtggga	6	12	12	11	0	1	0	0	0	1	0	4	2	4	2	4	4	1	1	4	4	1	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	47401310	T	T	47401310	3	4	438	1	0	0	0	0	1	0	0	0	4183	864	30	2	1071	2	CYP4A11	1	47401310	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	11082166	47401310	201849311	5	22356											
CLCA4	22802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	87031612	87031612	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaaaaacaccatacccaTggtgacaccacctcctccac	13	9	3	16	0	0	1	0	1	0	0	2	1	2	1	6	1	2	0	6	1	4	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	87031612	T	C	87031612	3	2	438	1	0	0	0	0	1	0	0	0	3459	1464	51	3	885	3	CLCA4	1	87031612	Missense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08	39630302	87031612	162219009	6	22357											
LMO4	8543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	87805280	87805280	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgattcctgcgagtgaactcGtcatgagggcgcaaggcaat	10	8	13	10	4	1	2	1	2	0	0	3	4	2	2	1	2	2	2	1	2	3	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	87805280	G	A	87805280	3	1	438	1	0	0	0	0	1	0	0	0	8854	1145	40	1	304	1	LMO4	1	87805280	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	773668	87805280	161445341	7	22358											
OAZ3	51686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151740639	151740639	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacctctgcccattggcacGgccttctctgtgaccgtcga	6	10	10	15	3	2	2	0	1	2	1	4	3	2	2	4	2	1	1	4	2	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	151740639	G	T	151740639	3	4	438	1	0	0	0	0	1	0	0	0	10806	1116	39	4	456	4	OAZ3	1	151740639	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	63935359	151740639	97509982	8	22359											
LCE1B	353132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152785104	152785104	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctctgggggaagctgtgGctccagctctgggggttgct	4	10	17	10	0	2	0	0	0	2	0	3	1	3	1	1	5	4	6	1	5	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	152785104	G	C	152785104	3	2	438	1	0	0	0	0	1	0	0	0	8660	1203	42	4	184	4	LCE1B	1	152785104	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1044465	152785104	96465517	9	22360											
OR10T2	128360	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158368416	158368416	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggattaagtaagggagtaaCcactgtgtaggtcactgcca	13	9	12	7	0	1	0	1	0	0	0	1	2	1	2	2	3	2	3	2	3	4	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	158368416	C	G	158368416	3	3	438	1	0	0	0	0	1	0	0	0	10919	507	18	4	105	4	OR10T2	1	158368416	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	5583312	158368416	90882205	10	22361											
F13B	2165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197024881	197024881	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatgaccattttccttgttCgcaacgagatatttttgatc	9	16	8	8	2	0	3	0	2	0	1	3	5	1	4	2	1	1	2	2	1	2	7	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	197024881	C	T	197024881	3	4	438	1	0	0	0	0	1	0	0	0	5341	893	31	1	687	1	F13B	1	197024881	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	38656465	197024881	52225740	11	22362											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	215990344	215990344	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagaaaagacttaccttagCttcagaagaatagcaaatgt	17	11	7	6	0	1	4	1	0	0	4	1	4	1	4	1	0	3	2	1	0	9	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	215990344	C	T	215990344	3	4	438	1	0	0	0	0	1	0	0	0	17035	797	28	2	6143	2	USH2A	1	215990344	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	18965463	215990344	33260277	12	22363											
RSAD2	91543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	7023569	7023569	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggggagaatacctgggcaaGttggtgaggttctgcaaagt	10	9	16	6	1	1	2	0	1	1	1	1	3	1	2	1	5	2	4	1	5	4	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	7023569	G	A	7023569	2	1	438	1	0	0	0	0	0	0	0	1	13697	1020	36	2		2	RSAD2	2	7023569	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08		7023569	236175804	13	22364											
PLB1	151056	hgsc.bcm.edu;ucsc.edu	37	chr2	28752187	28752187	+	Frame_Shift_Del	DEL	T	T	-																															accagttctctctttagtccTttcagacatcatcagatatt																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	28752187	T	-	28752187	7	5	438	1	0	1	0	1	0	0	0	0	12024	1609	56	0	355	0	PLB1	2	28752187	Frame_Shift_Del	DEL	T	TCGA-CW-6090-01A-11D-1669-08	21728618	28752187	214447186	14	22365											
NAGK	55577	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71299849	71299849	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctccgagagtggctgcggcgGctggggccatatgatgggtg	5	8	19	9	3	0	2	0	1	0	1	1	3	1	2	2	6	1	2	2	6	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	71299849	G	C	71299849	3	2	438	1	0	0	0	0	1	0	0	0	10142	1203	42	4	590	4	NAGK	2	71299849	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	42547662	71299849	171899524	15	22366											
C2orf29	55571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	101883240	101883240	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaaccctttagtcgctatAgaaatgttgctgaaattaat	15	13	6	7	1	0	2	0	1	0	1	1	2	0	2	1	0	3	3	1	0	8	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	101883240	A	G	101883240	3	3	438	1	0	0	0	0	1	0	0	0	2161	410	15	3	1155	3	C2orf29	2	101883240	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	30583391	101883240	141316133	16	22367											
NPHP1	4867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	110922222	110922222	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttcgcatcagaactattaGgtagcaaaacgagacatgat	16	10	8	7	2	1	3	1	1	0	2	2	4	1	3	0	1	3	3	0	1	6	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	110922222	G	T	110922222	3	4	438	1	0	0	0	0	1	0	0	0	10579	991	35	4	1439	4	NPHP1	2	110922222	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	9038982	110922222	132277151	17	22368											
ACVR1	90	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	158595006	158595006	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgttgatccacacagacTaccttcctcatatcttcaaa	11	14	3	13	0	3	2	2	1	1	1	5	2	5	2	3	0	1	1	3	0	3	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	158595006	T	C	158595006	2	2	438	1	0	0	0	0	0	0	0	1	220	1509	53	3		3	ACVR1	2	158595006	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	47672784	158595006	84604367	18	22369											
SETD5	55209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	9495474	9495474	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgactcaaacatcatctgtaCcccaagagactagaactcag	15	8	6	12	0	4	3	3	1	1	2	4	4	4	3	2	0	3	1	2	0	5	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	9495474	C	A	9495474	3	1	438	1	0	0	0	0	1	0	0	0	14136	507	18	4	2456	4	SETD5	3	9495474	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08		9495474	188526956	19	22370											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191540	10191541	+	Frame_Shift_Ins	INS	-	-	G																															cctgagaattacaggagactINSggacatcgtcaggtcgctct																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	10191541	-	G	10191540	7	5	438	1	0	1	1	0	0	0	0	0	17161	1580	55	0	543	0	VHL	3	10191540	Frame_Shift_Ins	INS	-	TCGA-CW-6090-01A-11D-1669-08	696066	10191540	187830890	20	22371											
ZMYND10	51364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	50380356	50380356	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggaggaccctacctccttcCcgccggctccagggactatg	6	7	12	16	2	0	0	0	0	0	0	3	3	3	3	6	4	1	1	6	4	2	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	50380356	C	T	50380356	2	4	438	1	0	0	0	0	0	0	0	1	17704	610	22	2		2	ZMYND10	3	50380356	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	40188816	50380356	147642074	21	22372											
POPDC2	64091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	119367299	119367299	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccagcatctgcagcagtggGacccaggacatggtagaggc	10	6	14	11	0	1	1	0	0	1	1	2	3	2	3	2	4	3	4	2	4	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	119367299	G	A	119367299	3	1	438	1	0	0	0	0	1	0	0	0	12255	1174	41	2	285	2	POPDC2	3	119367299	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	68986943	119367299	78655131	22	22373											
CP	1356	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	148928072	148928072	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttccccaggactttgttcTtcagtggcaagcaacatgta	9	12	8	12	0	2	0	1	0	1	0	3	1	3	1	3	2	2	4	3	2	3	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	148928072	T	C	148928072	2	2	438	1	0	0	0	0	0	0	0	1	3787	1606	56	3		3	CP	3	148928072	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	29560773	148928072	49094358	23	22374											
QDPR	5860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	17506031	17506031	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcattgcccccggcccatCctccagcaacgcaaagaatt	10	7	8	16	2	0	1	0	0	0	1	2	1	2	1	5	2	3	3	5	2	3	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	17506031	C	T	17506031	3	4	438	1	0	0	0	0	1	0	0	0	12874	855	30	2	488	2	QDPR	4	17506031	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08		17506031	173648245	24	22375											
SEL1L3	23231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	25834685	25834685	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgatgaatttagtttttaCagcaaggtcttcccctttga	10	17	7	7	0	1	3	0	3	1	0	2	3	2	3	2	1	2	2	2	1	5	8	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	25834685	C	T	25834685	3	4	438	1	0	0	0	0	1	0	0	0	14014	478	17	2	2448	2	SEL1L3	4	25834685	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	8328654	25834685	165319591	25	22376											
RASGEF1B	153020	hgsc.bcm.edu	37	chr4	82366985	82366985	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttttcttccgttcactgTagcaactctttagagaaaac	10	15	7	9	1	3	1	1	0	2	1	4	2	4	1	1	0	3	4	1	0	5	7	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	82366985	T	C	82366985	3	2	438	1	0	0	0	0	1	0	0	0	13072	1638	57	3	716	3	RASGEF1B	4	82366985	Missense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08	56532300	82366985	108787291	26	22377											
LARP1B	55132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	129012653	129012653	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagcattgcttaaagagtaTattaagcgtcaaatgtaagt	16	12	9	4	1	1	1	1	0	0	1	1	2	1	1	0	0	3	4	0	0	8	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	129012653	T	C	129012653	2	2	438	1	0	0	0	0	0	0	0	1	8629	1413	49	3		3	LARP1B	4	129012653	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	46645668	129012653	62141623	27	22378											
KIAA0922	23240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	154504367	154504367	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcagtaaatatgtatatAttacattcaggaaacagcct	16	12	6	7	0	2	0	2	0	0	0	2	1	2	1	1	1	4	3	1	1	8	7	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	154504367	A	G	154504367	3	3	438	1	0	0	0	0	1	0	0	0	8201	439	16	3	956	3	KIAA0922	4	154504367	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	25491714	154504367	36649909	28	22379											
ANXA10	11199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	169100409	169100409	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgggcaagatatggtaGatgccattaatgaatgttat	12	15	10	4	0	1	3	0	1	1	2	1	3	1	3	1	2	1	3	1	2	6	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	169100409	G	T	169100409	3	4	438	1	0	0	0	0	1	0	0	0	715	942	33	4	704	4	ANXA10	4	169100409	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	14596042	169100409	22053867	29	22380											
SLC6A3	6531	hgsc.bcm.edu;ucsc.edu	37	chr5	1443043	1443044	+	Frame_Shift_Ins	INS	-	-	CACA																															taccgccaccatttttgtagINScacaggtaggggaaccgcca																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		CACA	1443044	-	CACA	1443043	7	5	438	1	0	1	1	0	0	0	0	0	14687	963	34	0	1648	0	SLC6A3	5	1443043	Frame_Shift_Ins	INS	-	TCGA-CW-6090-01A-11D-1669-08		1443043	179472217	30	22381											
MAP1B	4131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	71494891	71494891	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacctcagatgtgggtggCtattactatgagaagataga	12	10	13	6	1	1	4	1	1	0	4	1	6	1	5	1	3	1	1	1	3	5	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	71494891	C	A	71494891	2	1	438	1	0	0	0	0	0	0	0	1	9228	784	28	4		4	MAP1B	5	71494891	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	70051848	71494891	109420369	31	22382											
MCC	4163	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112437520	112437520	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcctctttgctgcacagCatggcagtcaggctctcatt	6	14	8	13	0	4	0	2	0	3	0	6	0	5	0	1	2	3	5	1	2	0	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	112437520	C	T	112437520	3	4	438	1	0	0	0	0	1	0	0	0	9373	710	25	2	1793	2	MCC	5	112437520	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	40942629	112437520	68477740	32	22383											
PPP2R2B	5521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145969638	145969638	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtcgacactgatctcgtCttttctccgcttgcccccca	5	13	6	17	3	3	1	0	1	3	0	6	2	3	1	4	0	1	1	4	0	0	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	145969638	C	A	145969638	3	1	438	1	0	0	0	0	1	0	0	0	12387	913	32	4	131	4	PPP2R2B	5	145969638	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	33532118	145969638	34945622	33	22384											
ABLIM3	22885	broad.mit.edu;hgsc.bcm.edu	37	chr5	148590289	148590289	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgtgaacttcttcttgcagGgatggtgttccatactgtga	8	15	11	7	0	2	2	0	2	2	0	3	3	3	3	1	2	3	2	1	2	2	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	148590289	G	T	148590289	3	4	438	1	0	0	0	0	1	0	0	0	96	1246	43	4	598	4	ABLIM3	5	148590289	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	2620651	148590289	32324971	34	22385											
BTNL3	10917	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	180424374	180424374	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcaaatgcagatgggtacAgcctgtatgatgtggagatc	12	9	14	6	0	0	3	0	1	0	2	1	5	0	3	1	2	4	4	1	2	3	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	180424374	A	C	180424374	3	2	438	1	0	0	0	0	1	0	0	0	1566	188	7	5	569	5	BTNL3	5	180424374	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	31834085	180424374	490886	35	22386											
RREB1	6239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	7229380	7229380	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggtcaagaaaagccgcagGccacgcccctgcctggtgac	10	4	13	14	2	1	2	1	1	0	1	1	2	1	2	5	3	2	1	5	3	3	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	7229380	G	A	7229380	3	1	438	1	0	0	0	0	1	0	0	0	13681	1203	42	2	1074	2	RREB1	6	7229380	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08		7229380	163885687	36	22387											
GCNT2	2651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	10586869	10586869	+	Frame_Shift_Del	DEL	C	C	-																															atttaaagggaaaaatatcaCcccaggggtgctgcctcctg																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	10586869	C	-	10586869	7	5	438	1	0	1	0	1	0	0	0	0	6301	507	18	0	2501	0	GCNT2	6	10586869	Frame_Shift_Del	DEL	C	TCGA-CW-6090-01A-11D-1669-08	3357489	10586869	160528198	37	22388											
SOX4	6659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	21594792	21594792	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagcaaaccaacaatgccgaGaacacggaagcgctgctggc	14	3	11	13	3	0	1	0	0	0	1	0	3	0	2	2	2	7	3	2	2	5	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	21594792	G	C	21594792	3	2	438	1	0	0	0	0	1	0	0	0	14955	933	33	4	29	4	SOX4	6	21594792	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	11007923	21594792	149520275	38	22389											
TDRD6	221400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46660119	46660119	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggggttgtgcattcattgCtccttgcagggatttgaggt	5	14	14	8	1	1	1	1	1	0	0	2	2	2	2	2	4	3	4	2	4	0	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	46660119	C	T	46660119	2	4	438	1	0	0	0	0	0	0	0	1	15733	805	28	2		2	TDRD6	6	46660119	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	25065327	46660119	124454948	39	22390											
GPR116	221395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46830726	46830726	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagtgatggtcccgccaaTgggactctcagggctgctgg	7	9	15	10	1	1	1	1	1	1	0	3	2	2	2	2	4	1	3	2	4	2	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	46830726	T	G	46830726	3	3	438	1	0	0	0	0	1	0	0	0	6633	1464	51	5	1970	5	GPR116	6	46830726	Missense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08	170607	46830726	124284341	40	22391											
PRDM1	639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	106553602	106553602	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacggcgggaacagccGccacggcagaacatgtggtg	9	4	14	14	4	0	1	0	0	0	1	1	2	1	2	3	4	3	1	3	4	2	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	106553602	G	A	106553602	3	1	438	1	0	0	0	0	1	0	0	0	12452	1087	38	1	1598	1	PRDM1	6	106553602	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	59722876	106553602	64561465	41	22392											
TNRC18	84629	broad.mit.edu;ucsc.edu	37	chr7	5391571	5391571	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttcagagtccggggggcCgccaggcccctcttggtcag	4	8	16	13	2	3	1	2	0	1	1	4	1	4	1	5	6	0	1	5	6	0	2	rs186010377	by1000genomes	TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	5391571	T	T	5391571	2	4	438	1	0	0	0	0	0	0	0	1	16338	639	23	1		1	TNRC18	7	5391571	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08		5391571	153747092	42	22393											
SP8	221833	broad.mit.edu	37	chr7	20824858	20824858	+	Frame_Shift_Del	DEL	A	-	-																															ccatgcccacccgcgggtagAtgccctgcagcccgtccaca																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	20824858	-	-	20824858	7	5	438	1	0	1	0	1	0	0	0	0	14972	333	12	0	952	0	SP8	7	20824858	Frame_Shift_Del	DEL	A	TCGA-CW-6090-01A-11D-1669-08	15433287	20824858	138313805	43	22394											
BBS9	27241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	33376135	33376135	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagatccttctctgttcCaagctccaaacgttcaatct	10	12	6	13	1	3	1	1	0	2	1	7	2	6	2	3	1	2	3	3	1	3	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	33376135	C	G	33376135	3	3	438	1	0	0	0	0	1	0	0	0	1342	595	21	4	1133	4	BBS9	7	33376135	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	12551277	33376135	125762528	44	22395											
AKR1B1	231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134134487	134134487	+	Frame_Shift_Del	DEL	A	A	-																															cttaccgcccacgtgtccagAatgttggtgtcactgggaac																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	134134487	A	-	134134487	7	5	438	1	0	1	0	1	0	0	0	0	466	242	9	0	564	0	AKR1B1	7	134134487	Frame_Shift_Del	DEL	A	TCGA-CW-6090-01A-11D-1669-08	100758352	134134487	25004176	45	22396											
FGFR1	2260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	38272389	38272389	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtcctctgtcaccaggaCattcctggctgccaggtctc	6	12	9	14	0	3	0	1	0	2	0	6	1	5	1	4	3	1	1	4	3	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	38272389	C	G	38272389	3	3	438	1	0	0	0	0	1	0	0	0	5863	478	17	4	603	4	FGFR1	8	38272389	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08		38272389	108091633	46	22397											
RP1	6101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	55542521	55542521	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttaaagaaatttcaaccaGatttgaaggaaaggttttgt	16	14	8	3	0	1	3	1	1	0	2	1	4	1	4	1	2	1	1	1	2	6	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	55542521	G	A	55542521	3	1	438	1	0	0	0	0	1	0	0	0	13534	942	33	2	6089	2	RP1	8	55542521	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	17270132	55542521	90821501	47	22398											
CNGB3	54714	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87591035	87591035	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggtgggaagaggagggcaAgatcttttcttggaggggtt	8	11	18	4	1	2	2	0	0	2	2	3	5	2	5	0	7	0	2	0	7	2	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	87591035	A	T	87591035	3	4	438	1	0	0	0	0	1	0	0	0	3601	72	3	5	452	5	CNGB3	8	87591035	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	32048514	87591035	58772987	48	22399											
GPT	2875	hgsc.bcm.edu	37	chr8	145732305	145732306	+	Frame_Shift_Ins	INS	-	-	C																															ctttcaggatgaccattctgINSccccccttggagaaactgcg																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	145732306	-	C	145732305	7	5	438	1	0	1	1	0	0	0	0	0	6737	1306	46	0	1455	0	GPT	8	145732305	Frame_Shift_Ins	INS	-	TCGA-CW-6090-01A-11D-1669-08	58141270	145732305	631717	49	22400											
VLDLR	7436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	2652826	2652826	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctacttgatgtggcggaaTtggcaacacaagaacatgaa	14	8	12	7	1	0	3	0	2	0	1	0	4	0	4	0	4	3	2	0	4	6	3	rs140801553	by1000genomes;alternate_allele	TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	2652826	T	A	2652826	3	1	438	1	0	0	0	0	1	0	0	0	17173	1490	52	5	2533	5	VLDLR	9	2652826	Missense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08		2652826	138560605	50	22401											
DNAJC25-GNG10	552891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	114429212	114429212	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagcctagatcctgtgctTtactctgaagactcgtgagt	8	12	12	9	1	1	4	0	2	1	2	3	5	2	5	2	1	3	1	2	1	3	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	114429212	T	C	114429212	2	2	438	1	0	0	0	0	0	0	0	1	4644	1838	64	3		3	DNAJC25-GNG10	9	114429212	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	111776386	114429212	26784219	51	22402											
SCAI	286205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	127733961	127733961	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagggtacctattgaacgtGaatgagtcagtagctgggca	11	9	15	6	1	1	3	1	3	0	0	1	4	1	4	1	3	3	4	1	3	5	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	127733961	G	A	127733961	3	1	438	1	0	0	0	0	1	0	0	0	13871	1294	45	2	270	2	SCAI	9	127733961	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	13304749	127733961	13479470	52	22403											
SPTAN1	6709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131331096	131331096	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagctgaagtgcaggccAactcaggagccattgttaag	12	9	12	8	0	1	2	1	2	0	0	1	3	1	3	2	2	4	3	2	2	4	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	131331096	A	T	131331096	3	4	438	1	0	0	0	0	1	0	0	0	15118	130	5	5	289	5	SPTAN1	9	131331096	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	3597135	131331096	9882335	53	22404											
NTNG2	84628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	135102354	135102354	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaagaatttccgcaccCggtcctggcgggccggctcc	7	6	13	15	4	0	2	0	0	0	2	3	2	3	2	5	4	0	3	5	4	3	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	135102354	C	A	135102354	2	1	438	1	0	0	0	0	0	0	0	1	10705	643	23	4		4	NTNG2	9	135102354	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	3771258	135102354	6111077	54	22405											
KIAA1462	57608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	30316647	30316647	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaagagttgtttactgttGcaagggcccgtgggctcccc	7	10	12	12	1	0	1	0	0	0	1	1	1	1	1	4	2	2	5	4	2	3	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	30316647	G	C	30316647	3	2	438	1	0	0	0	0	1	0	0	0	8234	1311	46	4	1657	4	KIAA1462	10	30316647	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08		30316647	105218100	55	22406											
C10orf137	26098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	127442319	127442319	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctagtctcaatcgagaAgaagtgatgaaactcctcag	13	10	8	10	1	3	4	2	2	2	2	7	5	4	4	2	0	1	0	2	0	5	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	127442319	A	C	127442319	3	2	438	1	0	0	0	0	1	0	0	0	1594	69	3	5	3438	5	C10orf137	10	127442319	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	97125672	127442319	8092428	56	22407											
C11orf17	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	8940960	8940960	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgtgggctcaaatgactTaaccaagaagactcatgtgg	13	9	10	9	0	2	3	2	1	0	2	2	3	2	3	1	2	1	1	1	2	4	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	8940960	T	G	8940960	4	3	438	1	0	0	0	0	0	1	0	0	1632	1764	61	5	584	5	C11orf17	11	8940960	Nonsense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08		8940960	126065556	57	22408											
SLC17A6	57084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22397594	22397594	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactagaggggtagcaatctCattcttggtacttgcagtgg	9	13	12	7	0	2	1	1	0	2	1	3	1	2	1	0	4	4	4	0	4	5	7	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	22397594	C	A	22397594	4	1	438	1	0	0	0	0	0	1	0	0	14423	838	29	4	1279	4	SLC17A6	11	22397594	Nonsense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	13456634	22397594	112608922	58	22409											
MAPK8IP1	9479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	45925699	45925699	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgaggtcaccaaggagccCgagcacatggcaggtagtgt	11	6	14	10	2	1	0	1	0	0	0	2	3	1	1	2	4	2	3	2	4	2	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	45925699	C	T	45925699	2	4	438	1	0	0	0	0	0	0	0	1	9284	639	23	1		1	MAPK8IP1	11	45925699	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	23528105	45925699	89080817	59	22410											
TMX2	51075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57505890	57505890	+	Frame_Shift_Del	DEL	T	T	-																															tatatcaagtacttcaatgaTaaaaccattgatgtgagtgc																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	57505890	T	-	57505890	7	5	438	1	0	1	0	1	0	0	0	0	16266	1403	49	0	443	0	TMX2	11	57505890	Frame_Shift_Del	DEL	T	TCGA-CW-6090-01A-11D-1669-08	11580191	57505890	77500626	60	22411											
MS4A14	84689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60183976	60183976	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaagccaaaggccagaaatCctcaaagaggcattccttag	15	6	9	11	0	1	2	1	0	0	2	3	2	3	2	4	2	1	2	4	2	5	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	60183976	C	A	60183976	3	1	438	1	0	0	0	0	1	0	0	0	9858	855	30	4	1553	4	MS4A14	11	60183976	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	2678086	60183976	74822540	61	22412											
C11orf9	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61539075	61539075	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacaggagcctgggaccGtgacagccctgcctctgcac	9	6	11	15	1	2	1	1	1	1	0	2	3	2	3	4	2	5	1	4	2	1	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	61539075	G	A	61539075	3	1	438	1	0	0	0	0	1	0	0	0	1671	1145	40	1	889	1	C11orf9	11	61539075	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1355099	61539075	73467441	62	22413											
CLPB	81570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	72005414	72005414	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttgacgagttggatgagCtccgagtggcagaaggggag	9	9	18	5	2	0	3	0	2	0	1	1	7	1	5	1	4	1	4	1	4	1	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	72005414	C	T	72005414	2	4	438	1	0	0	0	0	0	0	0	1	3551	796	28	2		2	CLPB	11	72005414	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	10466339	72005414	63001102	63	22414											
MTNR1B	4544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92702959	92702959	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtgcgcccgggctggtCgggggctggcagcgcgcggc	2	4	22	13	6	0	0	0	0	0	0	1	0	0	0	1	7	2	4	1	7	0	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	92702959	C	A	92702959	4	1	438	1	0	0	0	0	0	1	0	0	9952	893	31	4	70	4	MTNR1B	11	92702959	Nonsense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	20697545	92702959	42303557	64	22415											
PHB2	11331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7079388	7079388	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctcggccaggatagtGtcctgctgcactccaccgat	7	8	11	15	2	0	0	0	0	0	0	3	2	2	1	5	3	2	2	5	3	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	7079388	G	A	7079388	2	1	438	1	0	0	0	0	0	0	0	1	11815	1368	48	2		2	PHB2	12	7079388	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08		7079388	126772507	65	22416											
M6PR	4074	hgsc.bcm.edu	37	chr12	9098995	9098996	+	In_Frame_Ins	INS	-	-	AAC																															tccagcagctgtagaaagggINSaacatcctttgggagagagt																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		AAC	9098996	-	AAC	9098995	7	5	438	1	0	1	1	0	0	0	0	0	9140	1165	41	0	851	0	M6PR	12	9098995	In_Frame_Ins	INS	-	TCGA-CW-6090-01A-11D-1669-08	2019607	9098995	124752900	66	22417											
ARHGDIB	397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	15103538	15103538	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcatcatctttgtccatttCctgcagctctttcagggact	6	16	6	13	0	5	0	3	0	2	0	7	1	7	1	2	1	2	2	2	1	0	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	15103538	C	T	15103538	3	4	438	1	0	0	0	0	1	0	0	0	891	864	30	2	516	2	ARHGDIB	12	15103538	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	6004543	15103538	118748357	67	22418											
SLC38A2	54407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	46760917	46760917	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttccaactaatccaaaTgccttatatcccaattgttc	12	14	3	12	0	0	0	0	0	0	0	4	0	3	0	4	0	3	2	4	0	6	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	46760917	T	C	46760917	2	2	438	1	0	0	0	0	0	0	0	1	14606	1451	51	3		3	SLC38A2	12	46760917	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	31657379	46760917	87090978	68	22419											
PIP4K2C	79837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57995122	57995122	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctcatgcagccaaaactgtCaagcatggggtgagagttcg	11	8	13	9	1	2	1	2	1	0	1	3	2	2	1	1	2	4	4	1	2	3	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	57995122	C	G	57995122	2	3	438	1	0	0	0	0	0	0	0	1	11938	813	29	4		4	PIP4K2C	12	57995122	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	11234205	57995122	75856773	69	22420											
THAP2	83591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	72068028	72068028	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaatgggttcgcctggtTaggcgcaaaaattttgtgcc	11	11	12	7	2	0	1	0	0	0	1	1	1	0	1	2	3	1	3	2	3	5	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	72068028	T	G	72068028	2	3	438	1	0	0	0	0	0	0	0	1	15843	1741	61	5		5	THAP2	12	72068028	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	14072906	72068028	61783867	70	22421											
TMTC3	160418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	88588684	88588684	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgaagagccactagatgCtaatgggtatttcaatttgg	14	12	10	5	0	1	3	1	1	0	2	1	3	1	3	1	2	2	2	1	2	6	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	88588684	C	G	88588684	3	3	438	1	0	0	0	0	1	0	0	0	16261	797	28	4	2053	4	TMTC3	12	88588684	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	16520656	88588684	45263211	71	22422											
EID3	493861	hgsc.bcm.edu;ucsc.edu	37	chr12	104698324	104698325	+	Frame_Shift_Ins	INS	-	-	T																															atggcaacatgcctacaaagINSttgcagaagttggacctgag																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	104698325	-	T	104698324	7	5	438	1	0	1	1	0	0	0	0	0	4989	1020	36	0	614	0	EID3	12	104698324	Frame_Shift_Ins	INS	-	TCGA-CW-6090-01A-11D-1669-08	16109640	104698324	29153571	72	22423											
PITPNM2	57605	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123497230	123497232	+	In_Frame_Del	DEL	ATA	ATA	-																															ttttctccagcatcagttttAtaaaaggtttcaatgtcgat																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	ATA	ATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	123497232	ATA	-	123497230	7	5	438	1	0	1	0	1	0	0	0	0	11951	456	16	0	3792	0	PITPNM2	12	123497230	In_Frame_Del	DEL	ATA	TCGA-CW-6090-01A-11D-1669-08	18798906	123497230	10354665	73	22424											
NCOR2	9612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	124839984	124839984	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggctaccactcacttgggaGatggcacctatttgcctctc	7	11	10	13	0	2	1	1	0	1	1	3	2	2	1	3	3	2	2	3	3	2	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	124839984	G	A	124839984	2	1	438	1	0	0	0	0	0	0	0	1	10236	932	33	2		2	NCOR2	12	124839984	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1342754	124839984	9011911	74	22425											
SLITRK5	26050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	88329649	88329649	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtctgtgttaattctcaGcctcctgctggttttcatca	5	18	7	11	0	4	0	3	0	2	0	6	0	5	0	2	1	2	3	2	1	1	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	88329649	G	A	88329649	3	1	438	1	0	0	0	0	1	0	0	0	14748	971	34	2	2008	2	SLITRK5	13	88329649	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08		88329649	26840229	75	22426											
MYO16	23026	broad.mit.edu;ucsc.edu	37	chr13	109779862	109779862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctatgaggctgtgagcGcctgcctctccgcggccagg	4	9	13	15	3	1	2	0	2	1	0	3	2	2	2	5	3	2	1	5	3	1	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	109779862	A	A	109779862	3	1	438	1	0	0	0	0	1	0	0	0	10064	1087	38	1	4067	1	MYO16	13	109779862	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	21450213	109779862	5390016	76	22427											
GPHN	10243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	67147886	67147886	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggataaatctcaaagatctCgtacaagatccttctttgtg	12	13	8	8	1	3	2	1	0	3	2	6	3	4	3	1	1	1	1	1	1	5	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	67147886	C	T	67147886	2	4	438	1	0	0	0	0	0	0	0	1	6610	871	31	1		1	GPHN	14	67147886	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08		67147886	40201654	77	22428											
PTGR2	145482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74327307	74327307	+	Frame_Shift_Del	DEL	A	A	-																															tctatttaccagataatattAatgaaggacaagtacaagtt																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	74327307	A	-	74327307	7	5	438	1	0	1	0	1	0	0	0	0	12756	362	13	0	109	0	PTGR2	14	74327307	Frame_Shift_Del	DEL	A	TCGA-CW-6090-01A-11D-1669-08	7179421	74327307	33022233	78	22429											
SNRPN	6638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	25220568	25220568	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagatgtatcctgcaaGatggccgaatcttcattggc	11	11	11	8	1	2	2	1	1	1	2	3	5	3	2	2	2	1	2	2	2	4	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	25220568	G	T	25220568	3	4	438	1	0	0	0	0	1	0	0	0	14872	942	33	4	73	4	SNRPN	15	25220568	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08		25220568	77310824	79	22430											
COPS2	9318	broad.mit.edu	37	chr15	49423011	49423011	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatgtcattattctgatagGcactaatagaaaaacaaagt	17	12	7	5	0	2	3	1	2	1	1	2	3	2	3	0	1	1	1	0	1	7	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	49423011	T	T	49423011	3	4	438	1	0	0	0	0	1	0	0	0	3733	1203	42	4	397	4	COPS2	15	49423011	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	24202443	49423011	53108381	80	22431											
MYO5C	55930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52571772	52571772	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtggagcaccgcgggctCgtgaagatagctgagagccg	8	7	17	9	4	0	3	0	2	0	2	1	5	0	4	2	2	3	4	2	2	2	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	52571772	C	A	52571772	4	1	438	1	0	0	0	0	0	1	0	0	10080	893	31	4	5146	4	MYO5C	15	52571772	Nonsense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	3148761	52571772	49959620	81	22432											
CILP	8483	broad.mit.edu;hgsc.bcm.edu	37	chr15	65499201	65499201	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgaggcaccagaaaccctCacggggactaccatggacca	12	5	11	13	1	1	2	1	1	0	1	1	4	1	4	4	4	2	2	4	4	2	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	65499201	C	T	65499201	3	4	438	1	0	0	0	0	1	0	0	0	3429	835	29	2	3235	2	CILP	15	65499201	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	12927429	65499201	37032191	82	22433											
FAM108C1	58489	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81046666	81046666	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagctttatgcacaatacctAgaaagactaaaacagttcat	17	10	6	8	0	1	2	1	0	0	2	1	3	1	2	1	0	4	3	1	0	7	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	81046666	A	G	81046666	2	3	438	1	0	0	0	0	0	0	0	1	5393	407	15	3		3	FAM108C1	15	81046666	Silent	SNP	A	TCGA-CW-6090-01A-11D-1669-08	15547465	81046666	21484726	83	22434											
DET1	55070	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89056233	89056233	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acaacatactcagcattagtCctctgcacagaaatagcgaa	16	8	6	11	1	2	1	1	0	1	1	3	2	3	1	1	0	5	2	1	0	6	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	89056233	C	T	89056233	2	4	438	1	0	0	0	0	0	0	0	1	4450	854	30	2		2	DET1	15	89056233	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	8009567	89056233	13475159	84	22435											
RHCG	51458	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90022631	90022631	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgccaaggagcagtaGgtgttgatggcggctcggtg	7	8	18	8	2	0	1	0	1	0	0	1	2	0	2	1	6	2	5	1	6	2	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	90022631	G	A	90022631	2	1	438	1	0	0	0	0	0	0	0	1	13328	987	35	2		2	RHCG	15	90022631	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	966398	90022631	12508761	85	22436											
SPSB3	90864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1827748	1827748	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcctgtgacggcctcacCtatacacttcctgttcttga	8	13	7	13	1	2	2	1	2	1	0	4	2	4	2	4	1	1	1	4	1	3	5	rs147512809	alternate_allele	TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	1827748	C	G	1827748	3	3	438	1	0	0	0	0	1	0	0	0	15115	695	24	4	354	4	SPSB3	16	1827748	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08		1827748	88527005	86	22437											
CIITA	4261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10997656	10997656	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tccacggcctcccaacatctCcagaccggccaggctccacc	8	5	7	21	2	1	1	0	0	1	1	5	1	4	1	8	3	1	1	8	3	1	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	10997656	C	G	10997656	3	3	438	1	0	0	0	0	1	0	0	0	3428	855	30	4	875	4	CIITA	16	10997656	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	9169908	10997656	79357097	87	22438											
CIRH1A	84916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69199288	69199288	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaacagtatacagattggagCcggactgtccagaagcaggg	14	6	13	8	1	0	2	0	0	0	2	1	4	1	4	2	3	4	2	2	3	4	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	69199288	C	T	69199288	2	4	438	1	0	0	0	0	0	0	0	1	3434	738	26	2		2	CIRH1A	16	69199288	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	58201632	69199288	21155465	88	22439											
GCSH	2653	broad.mit.edu;hgsc.bcm.edu	37	chr16	81118200	81118200	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaaagcaccaaactcatCtaagtggaaaaaaaattaaa	21	8	4	8	0	2	0	1	0	1	0	3	1	3	1	2	1	2	1	2	1	9	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	81118200	C	A	81118200	5	1	438	1	0	0	0	0	0	0	1	0	6305	927	32	4	237	4	GCSH	16	81118200	Splice_Site	SNP	C	TCGA-CW-6090-01A-11D-1669-08	11918912	81118200	9236553	89	22440											
ZC3H18	124245	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	88694152	88694152	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccccgtgtcctcagccagctCtcggtccccggccccagccc	3	6	9	23	3	2	0	1	0	1	0	5	0	4	0	9	2	3	1	9	2	0	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	88694152	C	T	88694152	3	4	438	1	0	0	0	0	1	0	0	0	17567	913	32	2	2281	2	ZC3H18	16	88694152	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	7575952	88694152	1660601	90	22441											
ZNF276	92822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89804478	89804478	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgagctggactttgcctgtGaccagtgtggccggcggttt	4	12	15	10	2	0	2	0	2	0	0	0	3	0	3	3	4	2	2	3	4	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	89804478	G	C	89804478	3	2	438	1	0	0	0	0	1	0	0	0	17810	1290	45	4	1711	4	ZNF276	16	89804478	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1110326	89804478	550275	91	22442											
PRPF8	10594	hgsc.bcm.edu;ucsc.edu	37	chr17	1559850	1559855	+	In_Frame_Del	DEL	GTAAGT	GTAAGT	-																															gacaatattggggaagtccaGtaagtgcacctaagacaaga																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	GTAAGT	GTAAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	1559855	GTAAGT	-	1559850	7	5	438	1	0	1	0	1	0	0	0	0	12577	1020	36	0	1410	0	PRPF8	17	1559850	In_Frame_Del	DEL	GTAAGT	TCGA-CW-6090-01A-11D-1669-08		1559850	79635360	92	22443											
PAFAH1B1	5048	hgsc.bcm.edu	37	chr17	2577360	2577360	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatattgacagctactgTgtgaagacattcacaggaca	14	12	8	7	0	1	3	1	2	0	1	1	4	1	4	0	1	2	1	0	1	4	6	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	2577360	T	C	2577360	2	2	438	1	0	0	0	0	0	0	0	1	11384	1702	59	3		3	PAFAH1B1	17	2577360	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	1017510	2577360	78617850	93	22444											
ITGAE	3682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3657179	3657179	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggagcccccgcgatgtaGgagaggctgcaggtcttgtg	6	8	17	10	3	1	1	0	0	1	1	1	4	1	2	2	4	2	3	2	4	1	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	3657179	G	C	3657179	2	2	438	1	0	0	0	0	0	0	0	1	7885	987	35	4		4	ITGAE	17	3657179	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1079819	3657179	77538031	94	22445											
KIAA0100	9703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26965110	26965110	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagaggctggttatagctAccctagagaagaagcagacg	13	6	12	10	1	0	4	0	0	0	4	0	5	0	4	2	2	3	4	2	2	6	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	26965110	A	G	26965110	2	3	438	1	0	0	0	0	0	0	0	1	8154	378	14	3		3	KIAA0100	17	26965110	Silent	SNP	A	TCGA-CW-6090-01A-11D-1669-08	23307931	26965110	54230100	95	22446											
SRCIN1	80725	broad.mit.edu	37	chr17	36717995	36717996	+	Frame_Shift_Ins	INS	-	A	A																															gtgacgaaggcggcaggcggINSaagccgtagccgtcgccgta																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	36717996	A	A	36717995	7	5	438	1	0	1	1	0	0	0	0	0	15137	1165	41	0	2199	0	SRCIN1	17	36717995	Frame_Shift_Ins	INS	-	TCGA-CW-6090-01A-11D-1669-08	9752885	36717995	44477215	96	22447											
ST6GALNAC1	55808	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	74625522	74625522	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgggtgacagtgtgtTcaccatggttttctcttttt	4	18	9	10	0	3	1	1	1	2	0	4	1	3	1	2	2	0	2	2	2	0	5	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	74625522	T	C	74625522	3	2	438	1	0	0	0	0	1	0	0	0	15224	1783	62	3	1431	3	ST6GALNAC1	17	74625522	Missense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08	37907527	74625522	6569688	97	22448											
SLC26A11	284129	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78215586	78215586	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttagcatctcagaataattaCcgcatcgatgccaaccagga	14	9	7	11	2	1	1	1	0	1	1	3	3	1	2	3	1	4	2	3	1	5	3	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	78215586	C	T	78215586	2	4	438	1	0	0	0	0	0	0	0	1	14518	518	18	2		2	SLC26A11	17	78215586	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	3590064	78215586	2979624	98	22449											
COLEC12	81035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	346953	346953	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtcatccacagaccgctgCagattcgtgatgaggttcct	8	11	11	11	2	1	4	1	2	0	2	4	4	3	4	3	1	1	3	3	1	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	346953	C	A	346953	2	1	438	1	0	0	0	0	0	0	0	1	3712	697	25	4		4	COLEC12	18	346953	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08		346953	77730295	99	22450											
HRH4	59340	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	22056745	22056745	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaacatactggggtcttgaAgattgttactctgatggtgg	9	14	12	6	0	3	3	1	2	2	1	3	3	3	3	0	4	3	1	0	4	4	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	22056745	A	G	22056745	3	3	438	1	0	0	0	0	1	0	0	0	7358	72	3	3	402	3	HRH4	18	22056745	Missense_Mutation	SNP	A	TCGA-CW-6090-01A-11D-1669-08	21709792	22056745	56020503	100	22451											
FAM59A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	29867421	29867421	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagtcggtggaaggactggGtgagctcatcgcgggcgtag	8	7	19	7	4	1	2	1	1	0	1	3	4	1	4	0	5	1	2	0	5	2	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	29867421	G	A	29867421	3	1	438	1	0	0	0	0	1	0	0	0	5592	1261	44	2	1500	2	FAM59A	18	29867421	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	7810676	29867421	48209827	101	22452											
ZNF397	84307	hgsc.bcm.edu	37	chr18	32822821	32822821	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accctgttggaggatttagaGagggagtttgatgacccagg	10	10	15	6	0	0	3	0	2	0	1	0	7	0	6	2	4	0	2	2	4	1	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	32822821	G	A	32822821	2	1	438	1	0	0	0	0	0	0	0	1	17882	933	33	2		2	ZNF397	18	32822821	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	2955400	32822821	45254427	102	22453											
SHC2	25759	broad.mit.edu;hgsc.bcm.edu	37	chr19	422337	422337	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgcagctgttcctccgtggGggccacaggggcccggcggg	4	5	18	14	4	0	0	0	0	0	0	2	0	2	0	4	6	1	3	4	6	0	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	422337	G	T	422337	3	4	438	1	0	0	0	0	1	0	0	0	14273	1232	43	4	327	4	SHC2	19	422337	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08		422337	58706646	103	22454											
DOT1L	84444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2211150	2211150	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctacctccgagcgtgcaGcggcactcccccaacccgct	7	5	9	20	4	0	0	0	0	0	0	2	1	2	0	5	1	6	4	5	1	2	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	2211150	G	A	2211150	2	1	438	1	0	0	0	0	0	0	0	1	4709	962	34	2		2	DOT1L	19	2211150	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1788813	2211150	56917833	104	22455											
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8976796	8976796	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagcccttgcccatatcTggtgaatactggagattgga	9	11	12	9	0	1	3	0	2	1	1	1	5	1	4	2	3	3	1	2	3	3	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	8976796	T	C	8976796	2	2	438	1	0	0	0	0	0	0	0	1	9973	1567	55	3		3	MUC16	19	8976796	Silent	SNP	T	TCGA-CW-6090-01A-11D-1669-08	6765646	8976796	50152187	105	22456											
PDE4A	5141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10574570	10574570	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcatggccgagttcttccaGcagggtgaccgagagcgcga	9	7	14	11	4	2	2	1	1	1	1	3	5	3	2	3	2	2	2	3	2	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	10574570	G	C	10574570	3	2	438	1	0	0	0	0	1	0	0	0	11639	962	34	4	2356	4	PDE4A	19	10574570	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1597774	10574570	48554413	106	22457											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39038896	39038896	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggtgaacggcatgatcGcccggcagatggtggacatg	9	7	16	9	4	0	3	0	2	0	1	1	4	0	4	1	5	1	2	1	5	1	0	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	39038896	G	A	39038896	3	1	438	1	0	0	0	0	1	0	0	0	13770	1087	38	1	12472	1	RYR1	19	39038896	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	28464326	39038896	20090087	107	22458											
ZNF546	339327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40520538	40520538	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagcctttcgtcttcaaaCggaacttactcggcatcata	13	11	6	11	3	3	0	2	0	1	0	5	1	3	1	1	2	4	1	1	2	6	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	40520538	C	T	40520538	3	4	438	1	0	0	0	0	1	0	0	0	17977	536	19	1	1379	1	ZNF546	19	40520538	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	1481642	40520538	18608445	108	22459											
EML2	24139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46119737	46119737	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accgagcacttgcccaggcgGctgaccttgcggccgccctg	5	6	13	17	4	0	1	0	1	0	0	0	2	0	1	5	3	3	2	5	3	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	46119737	G	A	46119737	2	1	438	1	0	0	0	0	0	0	0	1	5097	1194	42	2		2	EML2	19	46119737	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	5599199	46119737	13009246	109	22460											
RUVBL2	10856	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49510383	49510383	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgacgcaggccttccggcGgtccatcggcgttcgcatca	5	8	13	15	6	1	1	1	1	0	0	5	1	3	1	3	4	0	4	3	4	0	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	49510383	G	C	49510383	3	2	438	1	0	0	0	0	1	0	0	0	13755	1116	39	4	392	4	RUVBL2	19	49510383	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08	3390646	49510383	9618600	110	22461											
SHANK1	50944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51215207	51215207	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctgaatcaggagcacctgGtggatttcctgccagccgtt	7	10	12	12	1	1	1	1	1	0	0	2	3	2	3	5	3	3	2	5	3	1	2	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	51215207	G	A	51215207	2	1	438	1	0	0	0	0	0	0	0	1	14266	1252	44	2		2	SHANK1	19	51215207	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	1704824	51215207	7913776	111	22462											
C20orf11	0	hgsc.bcm.edu;ucsc.edu	37	chr20	61576211	61576214	+	Frame_Shift_Del	DEL	AAAT	AAAT	-																															agctggaccagaagaaagtaAaatatcccaaaatgacagac																								novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	AAAT	AAAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		-	61576214	AAAT	-	61576211	7	5	438	1	0	1	0	1	0	0	0	0	2079	15	1	0	648	0	C20orf11	20	61576211	Frame_Shift_Del	DEL	AAAT	TCGA-CW-6090-01A-11D-1669-08		61576211	1449309	112	22463											
SYNJ1	8867	broad.mit.edu;hgsc.bcm.edu	37	chr21	34053921	34053921	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcaccaactgaggctttTcagctaaaccaagagcttcc	12	9	8	12	0	2	2	2	1	0	1	3	3	3	2	3	1	4	3	3	1	4	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	34053921	T	G	34053921	3	3	438	1	0	0	0	0	1	0	0	0	15451	1783	62	5	3605	5	SYNJ1	21	34053921	Missense_Mutation	SNP	T	TCGA-CW-6090-01A-11D-1669-08		34053921	14075974	113	22464											
SYNGR1	9145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	39777742	39777742	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagcggtaccagattggCgccgactcggccctcttctc	5	10	10	16	4	2	1	0	0	2	1	5	2	3	1	4	3	2	1	4	3	1	4	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		G	39777742	C	G	39777742	2	3	438	1	0	0	0	0	0	0	0	1	15447	755	27	4		4	SYNGR1	22	39777742	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08		39777742	11526824	114	22465											
CELSR1	9620	broad.mit.edu;hgsc.bcm.edu	37	chr22	46792566	46792566	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtagccctgcggggagcCgggggagcgcacgcaggccc	6	2	18	15	5	0	0	0	0	0	0	0	2	0	2	3	5	4	3	3	5	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	46792566	C	T	46792566	3	4	438	1	0	0	0	0	1	0	0	0	3221	652	23	1	3357	1	CELSR1	22	46792566	Missense_Mutation	SNP	C	TCGA-CW-6090-01A-11D-1669-08	7014824	46792566	4512000	115	22466											
MAGED2	10916	broad.mit.edu;hgsc.bcm.edu	37	chrX	54841822	54841822	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgggcattgggctcggctcgGagaatgctgccgggccctgc	4	8	17	12	3	0	1	0	0	0	1	2	2	0	1	2	5	3	4	2	5	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		C	54841822	G	C	54841822	3	2	438	1	0	0	0	0	1	0	0	0	9184	1175	41	4	1570	4	MAGED2	23	54841822	Missense_Mutation	SNP	G	TCGA-CW-6090-01A-11D-1669-08		54841822	100428738	116	22467											
MAGEE1	57692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	75648791	75648791	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccgtgccgcccaccgcCtctgaggtaccgagcacctc	6	6	9	20	4	1	1	0	1	1	0	3	2	2	1	8	1	3	2	8	1	1	1	novel		TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		T	75648791	C	T	75648791	2	4	438	1	0	0	0	0	0	0	0	1	9185	668	24	2		2	MAGEE1	23	75648791	Silent	SNP	C	TCGA-CW-6090-01A-11D-1669-08	20806969	75648791	79621769	117	22468											
L1CAM	3897	hgsc.bcm.edu	37	chrX	153130543	153130543	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctggggcggcgcacgcacGggggtggtaggagagcacgt	6	5	21	9	5	0	1	0	0	0	1	0	2	0	1	0	7	2	5	0	7	1	1	rs35902890	bycluster;byfrequency;alternate_allele	TCGA-CW-6090-01A-11D-1669-08	TCGA-CW-6090-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3b2e654a-4c13-4dab-9e18-1445a43af3e6	fffaa9d0-d063-4b59-9328-323215bf3e88		A	153130543	G	A	153130543	2	1	438	1	0	0	0	0	0	0	0	1	8588	1130	39	1		1	L1CAM	23	153130543	Silent	SNP	G	TCGA-CW-6090-01A-11D-1669-08	77481752	153130543	2140017	118	22469											
AGRN	375790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	985343	985343	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccctgccatggggcggcgcCctgccgtgtgctgcccgagg	2	6	16	17	4	0	0	0	0	0	0	0	1	0	0	6	4	4	1	6	4	0	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	985343	C	A	985343	3	1	439	1	0	0	0	0	1	0	0	0	397	623	22	4	4911	4	AGRN	1	985343	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		985343	248265278	1	22470											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39909151	39909151	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgaaattgaagatttcCtcttggaacttactagaatg	14	13	8	6	0	1	4	0	2	1	2	2	5	2	5	1	1	2	0	1	1	6	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	39909151	C	G	39909151	3	3	439	1	0	0	0	0	1	0	0	0	9144	681	24	4	19608	4	MACF1	1	39909151	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	38923808	39909151	209341470	2	22471											
CCDC17	149483	broad.mit.edu;ucsc.edu	37	chr1	46087629	46087629	+	Frame_Shift_Del	DEL	G	-	-																															atctctcctccccttcggttGtaggctggcatcccccagga																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	46087629	-	-	46087629	7	5	439	1	0	1	0	1	0	0	0	0	2793	1386	48	0	886	0	CCDC17	1	46087629	Frame_Shift_Del	DEL	G	TCGA-CW-6093-01A-11D-1669-08	6178478	46087629	203162992	3	22472											
NRD1	4898	broad.mit.edu;ucsc.edu	37	chr1	52287168	52287169	+	Splice_Site	INS	-	C	C																															gtatgaaaataaatatcttaINScttgtttggtatctgagaga																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	52287169	C	C	52287168	8	5	439	1	0	1	1	0	0	0	1	0	10645	405	14	0	2332	0	NRD1	1	52287168	Splice_Site	INS	-	TCGA-CW-6093-01A-11D-1669-08	6199539	52287168	196963453	4	22473											
PPAP2B	8613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	57044640	57044640	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttgagcgccgggctgccgCcgttcttgctctccgggacg	2	10	15	14	6	2	1	0	1	2	0	3	2	2	2	4	2	3	4	4	2	0	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	57044640	C	G	57044640	3	3	439	1	0	0	0	0	1	0	0	0	12291	739	26	4	909	4	PPAP2B	1	57044640	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	4757472	57044640	192205981	5	22474											
EVI5	7813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	93163497	93163497	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttcacgaagtctataatCttgcattaatttaacaaata	17	14	4	6	1	3	0	1	0	2	0	3	1	3	0	0	0	2	2	0	0	8	8	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	93163497	C	T	93163497	3	4	439	1	0	0	0	0	1	0	0	0	5289	913	32	2	1667	2	EVI5	1	93163497	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	36118857	93163497	156087124	6	22475											
CELSR2	1952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109805009	109805009	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggagtggccttgcgcttcgGatctgtcctgggcaactact	6	11	13	11	2	1	0	0	0	1	0	3	2	2	2	2	4	3	2	2	4	2	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	109805009	G	A	109805009	3	1	439	1	0	0	0	0	1	0	0	0	3222	1174	41	2	4509	2	CELSR2	1	109805009	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	16641512	109805009	139445612	7	22476											
KIRREL	55243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158057581	158057581	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtccattgagccacagaCggtgcaggagggtgagcgtg	8	7	16	10	2	0	3	0	2	0	1	1	4	1	4	3	3	3	1	3	3	0	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	158057581	C	G	158057581	3	3	439	1	0	0	0	0	1	0	0	0	8324	536	19	4	720	4	KIRREL	1	158057581	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	48252572	158057581	91193040	8	22477											
CD1D	912	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158152008	158152008	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcaaccaggacaagtggaCgagggaaacagtgcagtggc	13	4	15	9	1	1	0	1	0	0	0	1	4	1	3	1	4	3	2	1	4	3	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	158152008	C	A	158152008	3	1	439	1	0	0	0	0	1	0	0	0	2977	536	19	4	525	4	CD1D	1	158152008	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	94427	158152008	91098613	9	22478											
CASQ1	844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160167357	160167357	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acactctgtctgtctcttctAgatcaaccctgaggaaactg	10	12	7	12	0	5	2	1	1	4	1	6	3	5	3	1	1	2	0	1	1	3	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	160167357	A	G	160167357	5	3	439	1	0	0	0	0	0	0	1	0	2680	434	15	3	807	3	CASQ1	1	160167357	Splice_Site	SNP	A	TCGA-CW-6093-01A-11D-1669-08	2015349	160167357	89083264	10	22479											
KIF14	9928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200587653	200587653	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctactggcagaaataacatAagttctatttatgtctctga	13	15	6	7	0	3	2	0	1	3	1	4	2	3	2	0	1	2	2	0	1	6	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	200587653	A	T	200587653	3	4	439	1	0	0	0	0	1	0	0	0	8276	362	13	5	4863	5	KIF14	1	200587653	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	40420296	200587653	48662968	11	22480											
TP53BP2	7159	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223983955	223983955	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccatggccgctatggtggtCctctgatataaaagcttctg	8	13	10	10	1	2	1	0	1	2	0	4	1	4	1	3	3	1	2	3	3	4	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	223983955	C	T	223983955	2	4	439	1	0	0	0	0	0	0	0	1	16383	854	30	2		2	TP53BP2	1	223983955	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	23396302	223983955	25266666	12	22481											
CHRM3	1131	broad.mit.edu;hgsc.bcm.edu	37	chr1	240071728	240071728	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaacccagctccgagcAgatggaccaagaccacagca	14	3	10	14	1	0	2	0	0	0	2	1	5	1	4	4	2	4	3	4	2	2	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	240071728	A	G	240071728	3	3	439	1	0	0	0	0	1	0	0	0	3378	188	7	3	979	3	CHRM3	1	240071728	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	16087773	240071728	9178893	13	22482											
BRE	9577	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	28467670	28467670	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgtggaatatgatgcagAaggctttacaaaactcactc	13	11	9	8	1	1	2	1	1	0	1	3	3	1	3	0	2	3	2	0	2	6	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	28467670	A	C	28467670	3	2	439	1	0	0	0	0	1	0	0	0	1509	246	9	5	909	5	BRE	2	28467670	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08		28467670	214731703	14	22483											
LTBP1	4052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	33413692	33413692	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgaaacatcctcctgAagcttccgtccagatacatc	11	10	6	14	1	0	3	0	2	0	1	5	3	4	3	5	0	3	1	5	0	3	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	33413692	A	C	33413692	3	2	439	1	0	0	0	0	1	0	0	0	9073	246	9	5	1556	5	LTBP1	2	33413692	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	4946022	33413692	209785681	15	22484											
SMEK2	57223	hgsc.bcm.edu;ucsc.edu	37	chr2	55813839	55813840	+	Frame_Shift_Ins	INS	-	-	A																															ttgaggttgtaatgtctgagINSaaaatgcacaaaactccttg																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	55813840	-	A	55813839	7	5	439	1	0	1	1	0	0	0	0	0	14796	942	33	0	1566	0	SMEK2	2	55813839	Frame_Shift_Ins	INS	-	TCGA-CW-6093-01A-11D-1669-08	22400147	55813839	187385534	16	22485											
REG3G	130120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	79255386	79255386	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaaagttaccctatgtctGcaagttcaaggactagggca	12	10	10	9	0	2	0	1	0	1	0	2	1	2	1	1	2	3	5	1	2	6	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	79255386	G	T	79255386	3	4	439	1	0	0	0	0	1	0	0	0	13215	1319	46	4	530	4	REG3G	2	79255386	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	23441547	79255386	163943987	17	22486											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109357073	109357073	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgaagatgggtcagcataGtagtaatgttcaatggcgag	12	12	13	4	1	2	2	2	1	0	1	2	3	2	2	0	2	1	4	0	2	5	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	109357073	G	A	109357073	3	1	439	1	0	0	0	0	1	0	0	0	13030	1029	36	2	937	2	RANBP2	2	109357073	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	30101687	109357073	133842300	18	22487											
LIMS2	55679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128414990	128414990	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctcacctcatagaagagcCcctcggggaagggccggaag	10	5	13	13	2	2	2	2	0	0	2	4	4	3	4	5	4	1	0	5	4	4	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	128414990	C	G	128414990	3	3	439	1	0	0	0	0	1	0	0	0	8804	623	22	4	903	4	LIMS2	2	128414990	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	19057917	128414990	114784383	19	22488											
FAM123C	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	131520963	131520963	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttggccccagcccagatGatgacctgtgcgtgtctgag	6	10	12	13	1	2	4	0	3	2	1	2	4	2	4	4	1	2	0	4	1	0	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	131520963	G	A	131520963	3	1	439	1	0	0	0	0	1	0	0	0	5424	1290	45	2	1320	2	FAM123C	2	131520963	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	3105973	131520963	111678410	20	22489											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	168104885	168104885	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaaatgggtttcttccctCactgtccacagagaagataa	15	10	7	9	0	2	2	1	0	1	2	4	3	4	2	2	1	0	1	2	1	5	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	168104885	C	T	168104885	3	4	439	1	0	0	0	0	1	0	0	0	17429	838	29	2	7013	2	XIRP2	2	168104885	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	36583922	168104885	75094488	21	22490											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179425394	179425394	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggcttgtttcacgtttttCtacgatgtaatagtcgatat	8	18	9	6	3	2	0	1	0	1	0	3	2	2	0	0	1	1	4	0	1	4	8	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	179425394	C	G	179425394	3	3	439	1	0	0	0	0	1	0	0	0	16734	922	32	4	22662	4	TTN	2	179425394	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	11320509	179425394	63773979	22	22491											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179426804	179426804	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttccttaatagatagtgAtgttacagtctttgaagaag	13	14	9	5	0	1	4	0	2	1	2	2	4	2	4	1	0	2	2	1	0	6	6	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	179426804	A	T	179426804	3	4	439	1	0	0	0	0	1	0	0	0	16734	333	12	5	24072	5	TTN	2	179426804	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	1410	179426804	63772569	23	22492											
HECW2	57520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	197184155	197184155	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctaaacatgatcaggcCtccctcctcctccaaggaag	10	8	7	16	0	1	1	1	1	0	0	5	2	5	2	6	2	2	1	6	2	4	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	197184155	C	T	197184155	3	4	439	1	0	0	0	0	1	0	0	0	7043	681	24	2	3343	2	HECW2	2	197184155	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	17757351	197184155	46015218	24	22493											
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	212252692	212252692	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacatgggggtgtaggcaGgaggagggctgtgtccaatt	8	9	18	6	0	0	1	0	1	0	0	1	3	1	3	1	6	0	3	1	6	2	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	212252692	G	T	212252692	3	4	439	1	0	0	0	0	1	0	0	0	5209	1000	35	4	777	4	ERBB4	2	212252692	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	15068537	212252692	30946681	25	22494											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188224	10188224	+	Frame_Shift_Del	DEL	G	G	-																															tttggctcttcagagatgcaGggacacacgatgggcttctg																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	10188224	G	-	10188224	7	5	439	1	0	1	0	1	0	0	0	0	17161	1000	35	0	373	0	VHL	3	10188224	Frame_Shift_Del	DEL	G	TCGA-CW-6093-01A-11D-1669-08		10188224	187834206	26	22495											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52682459	52682459	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atacttttgtagcttccattCtacaataaacaacaaaatat	17	14	2	8	0	1	0	0	0	1	0	2	0	2	0	1	0	5	2	1	0	10	9	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	52682459	C	T	52682459	5	4	439	1	0	0	0	0	0	0	1	0	11491	927	32	2	4282	2	PBRM1	3	52682459	Splice_Site	SNP	C	TCGA-CW-6093-01A-11D-1669-08	42494235	52682459	145339971	27	22496											
ROBO2	6092	broad.mit.edu	37	chr3	77147239	77147239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtcatcgtctctaagggcGagcccacgactctgaactgc	9	9	10	13	3	3	1	1	1	2	0	5	3	3	1	1	1	3	0	1	1	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	77147239	A	A	77147239	3	1	439	1	0	0	0	0	1	0	0	0	13516	1059	37	1	144	1	ROBO2	3	77147239	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	24464780	77147239	120875191	28	22497											
SENP7	57337	hgsc.bcm.edu;ucsc.edu	37	chr3	101090968	101090968	+	Frame_Shift_Del	DEL	C	C	-																															ctgtcttacttcgttgtgagCccctgcaaaagagaactgta																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	101090968	C	-	101090968	7	5	439	1	0	1	0	1	0	0	0	0	14053	739	26	0	2544	0	SENP7	3	101090968	Frame_Shift_Del	DEL	C	TCGA-CW-6093-01A-11D-1669-08	23943729	101090968	96931462	29	22498											
CD200	4345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	112059811	112059811	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttgggtcatggcagcagtGgtgctgtgcacagcacaagg	8	9	16	8	0	1	0	1	0	0	0	1	0	1	0	0	4	4	6	0	4	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	112059811	G	C	112059811	2	2	439	1	0	0	0	0	0	0	0	1	2980	1335	47	4		4	CD200	3	112059811	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	10968843	112059811	85962619	30	22499											
H1FX	8971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	129034182	129034182	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcccccggcggccgccgtCttcttggccttgccgccttt	0	12	11	18	5	2	0	0	0	2	0	2	0	2	0	7	3	2	0	7	3	0	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	129034182	C	G	129034182	3	3	439	1	0	0	0	0	1	0	0	0	6923	912	32	4	81	4	H1FX	3	129034182	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	16974371	129034182	68988248	31	22500											
XRN1	54464	broad.mit.edu	37	chr3	142031463	142031463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaggtataaactgattgtGcacaccccctggtattcccc	10	10	8	13	0	0	2	0	1	0	1	1	2	1	2	4	2	2	3	4	2	4	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	142031463	A	A	142031463	3	1	439	1	0	0	0	0	1	0	0	0	17458	1319	46	2	333	2	XRN1	3	142031463	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	12997281	142031463	55990967	32	22501											
PLS1	5357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	142430381	142430381	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttacctgtcctagatttAatagatgccattgcaccaaa	13	13	6	9	0	0	2	0	0	0	2	1	2	1	2	4	0	3	2	4	0	5	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	142430381	A	T	142430381	3	4	439	1	0	0	0	0	1	0	0	0	12107	359	13	5	1722	5	PLS1	3	142430381	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	398918	142430381	55592049	33	22502											
C3orf57	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	161064028	161064028	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaaacatagatcgctcccaGggctctaaaacagcacagca	15	7	7	12	1	1	1	0	0	1	1	3	1	2	1	1	1	4	4	1	1	5	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	161064028	G	T	161064028	2	4	439	1	0	0	0	0	0	0	0	1	2235	987	35	4		4	C3orf57	3	161064028	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	18633647	161064028	36958402	34	22503											
CLCN2	1181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	184079226	184079226	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtctgctcgtactgcagCgcccgtggctccatcccttc	4	10	11	16	3	1	0	0	0	1	0	5	0	3	0	3	2	4	4	3	2	1	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	184079226	C	G	184079226	2	3	439	1	0	0	0	0	0	0	0	1	3463	755	27	4		4	CLCN2	3	184079226	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	23015198	184079226	13943204	35	22504											
ZNF131	7690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43161423	43161423	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaaaaaaggaagattgcAgaaacttcaaatgttatcac	19	8	7	7	0	2	2	2	0	0	2	2	3	2	3	1	1	2	2	1	1	7	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	43161423	A	G	43161423	2	3	439	1	0	0	0	0	0	0	0	1	17720	175	7	3		3	ZNF131	5	43161423	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08		43161423	137753837	36	22505											
SNX18	112574	broad.mit.edu;hgsc.bcm.edu	37	chr5	53839239	53839239	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaagttggaagaagctCttcacaaatatgatagtgtt	14	11	9	7	0	2	3	1	1	1	2	2	4	2	4	1	1	1	3	1	1	6	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	53839239	C	A	53839239	3	1	439	1	0	0	0	0	1	0	0	0	14891	913	32	4	2124	4	SNX18	5	53839239	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	10677816	53839239	127076021	37	22506											
CDC25C	995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137621758	137621758	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgcctttaaggatatataGctctgggtagtacaatgcag	11	11	11	8	1	1	0	0	0	1	0	1	1	1	1	2	2	3	4	2	2	7	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	137621758	G	A	137621758	2	1	439	1	0	0	0	0	0	0	0	1	3064	962	34	2		2	CDC25C	5	137621758	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	83782519	137621758	43293502	38	22507											
WDR55	54853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140049085	140049085	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgagctgtggtggtggAtgactaccgtcggcgcaaaa	8	8	16	9	4	0	1	0	1	0	0	1	3	0	2	1	4	3	3	1	4	3	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	140049085	A	C	140049085	3	2	439	1	0	0	0	0	1	0	0	0	17306	333	12	5	1024	5	WDR55	5	140049085	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	2427327	140049085	40866175	39	22508											
BRD2	6046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	32942463	32942463	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcaatacctacacaaggTagtgatgaaggctctgtgga	12	9	12	8	0	1	2	0	2	1	0	1	3	1	3	1	3	3	4	1	3	6	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	32942463	T	C	32942463	3	2	439	1	0	0	0	0	1	0	0	0	1502	1638	57	3	260	3	BRD2	6	32942463	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08		32942463	138172604	40	22509											
MAPK13	5603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36103575	36103575	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggatctgcagaagatcatGgggatggagttcagtgagga	12	8	16	5	1	3	3	2	1	1	2	3	7	3	7	0	5	1	2	0	5	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	36103575	G	T	36103575	3	4	439	1	0	0	0	0	1	0	0	0	9275	1348	47	4	368	4	MAPK13	6	36103575	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	3161112	36103575	135011492	41	22510											
CUL7	9820	broad.mit.edu	37	chr6	43013037	43013037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcctgtgcccgaaccatgTagaagaggcgtgtgtgacga	10	7	15	9	3	0	3	0	1	0	2	0	5	0	3	3	2	2	1	3	2	3	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	43013037	C	C	43013037	3	2	439	1	0	0	0	0	1	0	0	0	4060	1638	57	3	2178	3	CUL7	6	43013037	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	6909462	43013037	128102030	42	22511											
TAB2	23118	hgsc.bcm.edu;ucsc.edu	37	chr6	149699871	149699872	+	Frame_Shift_Ins	INS	-	-	T																															tacctcatctcaacagccaaINSatcagcaaggccaccagacc																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	149699872	-	T	149699871	7	5	439	1	0	1	1	0	0	0	0	0	15495	14	1	0	826	0	TAB2	6	149699871	Frame_Shift_Ins	INS	-	TCGA-CW-6093-01A-11D-1669-08	106686834	149699871	21415196	43	22512											
MAP3K4	4216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161470927	161470927	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcagatggggttaagaaaGttaattttaagacttcacaa	17	11	9	4	0	1	3	1	0	0	3	1	3	1	3	0	2	1	3	0	2	6	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	161470927	G	T	161470927	3	4	439	1	0	0	0	0	1	0	0	0	9252	1020	36	4	1633	4	MAP3K4	6	161470927	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	11771056	161470927	9644140	44	22513											
MAP3K4	4216	broad.mit.edu;hgsc.bcm.edu	37	chr6	161507426	161507426	+	Silent	SNP	G	G	A																															ggcaggaggtctgttatagaGatcagtcgagccctgaagga																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	161507426	G	A	161507426	2	1	439	1	0	0	0	0	0	0	0	1	9252	933	33	2		2	MAP3K4	6	161507426	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	36499	161507426	9607641	45	22514	310	2									
MAP3K4	4216	broad.mit.edu;hgsc.bcm.edu	37	chr6	161507427	161507427	+	Missense_Mutation	SNP	A	A	T																															gcaggaggtctgttatagagAtcagtcgagccctgaaggag																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	161507427	A	T	161507427	3	4	439	1	0	0	0	0	1	0	0	0	9252	333	12	5	2419	5	MAP3K4	6	161507427	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	1	161507427	9607640	46	22515	310	2									
SDK1	221935	broad.mit.edu;ucsc.edu	37	chr7	4198097	4198097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagactgaggcccttcacctCctacaagctgcgcctgaaag	10	7	9	15	1	1	3	1	2	0	1	2	3	2	3	4	1	3	1	4	1	3	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	4198097	A	A	4198097	3	1	439	1	0	0	0	0	1	0	0	0	13970	855	30	4	4765	4	SDK1	7	4198097	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		4198097	154940566	47	22516											
PODXL	5420	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	131191353	131191353	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcactgtgaatagtgatttCtttgacgaccacggtctgac	9	13	9	10	2	3	4	1	4	2	0	3	5	3	4	1	1	0	0	1	1	2	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	131191353	C	G	131191353	3	3	439	1	0	0	0	0	1	0	0	0	12180	922	32	4	458	4	PODXL	7	131191353	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	126993256	131191353	27947310	48	22517											
DENND2A	27147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	140301525	140301525	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctcaggggtgggctcccTgccttccaggtccgaggggt	5	8	16	12	1	1	0	1	0	0	0	4	1	4	0	4	6	2	2	4	6	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	140301525	T	C	140301525	3	2	439	1	0	0	0	0	1	0	0	0	4429	1579	55	3	2428	3	DENND2A	7	140301525	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	9110172	140301525	18837138	49	22518											
ZYX	7791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	143079761	143079761	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggatgacatgaccaagaatGatcctttcaaagcccgggta	13	9	10	9	1	1	4	1	3	0	1	2	5	2	5	3	2	1	1	3	2	4	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	143079761	G	A	143079761	3	1	439	1	0	0	0	0	1	0	0	0	18253	1290	45	2	494	2	ZYX	7	143079761	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	2778236	143079761	16058902	50	22519											
GIMAP8	155038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150174244	150174244	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtgcgaccgggaactctatCctggggagcctcgtcttcac	7	9	12	13	3	3	0	1	0	2	0	5	3	4	2	3	3	3	0	3	3	2	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	150174244	C	T	150174244	2	4	439	1	0	0	0	0	0	0	0	1	6385	845	30	2		2	GIMAP8	7	150174244	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	7094483	150174244	8964419	51	22520											
NOM1	64434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156752790	156752790	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgaggaaagatgatgcTttatcacttaaggaattgat	14	14	9	4	0	2	4	2	3	0	1	2	6	2	6	0	2	1	1	0	2	4	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	156752790	T	G	156752790	2	3	439	1	0	0	0	0	0	0	0	1	10530	1596	56	5		5	NOM1	7	156752790	Silent	SNP	T	TCGA-CW-6093-01A-11D-1669-08	6578546	156752790	2385873	52	22521											
PLEKHA2	59339	broad.mit.edu	37	chr8	38827144	38827144	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccacctggagacacttCagaggactccttgttcacgc	8	10	9	14	1	2	2	2	0	0	2	4	4	4	3	3	2	0	2	3	2	0	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	38827144	A	A	38827144	4	1	439	1	0	0	0	0	0	1	0	0	12056	838	29	4	1163	4	PLEKHA2	8	38827144	Nonsense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		38827144	107536878	53	22522											
SNAI2	6591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	49832751	49832751	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttggactgtagtctttccTcttcatcactaatggggctt	6	16	9	10	0	4	0	2	0	2	0	5	1	5	1	1	3	0	3	1	3	2	6	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	49832751	T	A	49832751	3	1	439	1	0	0	0	0	1	0	0	0	14829	1551	54	5	485	5	SNAI2	8	49832751	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	11005607	49832751	96531271	54	22523											
NAPRT1	93100	hgsc.bcm.edu;ucsc.edu	37	chr8	144657613	144657613	+	Frame_Shift_Del	DEL	A	A	-																															cgtcagagcccaggagccggAaagcagccttgctcccaggc																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	144657613	A	-	144657613	7	5	439	1	0	1	0	1	0	0	0	0	10165	246	9	0	361	0	NAPRT1	8	144657613	Frame_Shift_Del	DEL	A	TCGA-CW-6093-01A-11D-1669-08	94824862	144657613	1706409	55	22524											
FAM166B	730112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35562911	35562911	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcggctcctccagctgcccCtccggctctggcacctggtc	2	9	11	19	2	1	0	0	0	1	0	6	0	4	0	6	4	2	4	6	4	0	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	35562911	C	A	35562911	3	1	439	1	0	0	0	0	1	0	0	0	5482	680	24	4	209	4	FAM166B	9	35562911	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		35562911	105650520	56	22525											
POLR1E	64425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	37500907	37500907	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactttacttgcttgacctaCaacaatggcaggtcaggggg	10	10	11	10	0	1	1	1	1	0	0	1	1	1	1	1	4	4	2	1	4	4	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	37500907	C	T	37500907	2	4	439	1	0	0	0	0	0	0	0	1	12213	489	17	2		2	POLR1E	9	37500907	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	1937996	37500907	103712524	57	22526											
SLC44A1	23446	hgsc.bcm.edu;ucsc.edu	37	chr9	108127774	108127774	+	Frame_Shift_Del	DEL	A	A	-																															ttttaaatagggataaaaggAatttgccatttacacctatt																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	108127774	A	-	108127774	7	5	439	1	0	1	0	1	0	0	0	0	14637	246	9	0	1306	0	SLC44A1	9	108127774	Frame_Shift_Del	DEL	A	TCGA-CW-6093-01A-11D-1669-08	70626867	108127774	33085657	58	22527											
DENND1A	57706	broad.mit.edu	37	chr9	126144388	126144388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctgagcgggtccaggaGggcgagcagggcgtcactgc	6	6	19	10	3	1	1	1	1	0	0	2	3	2	2	1	4	4	2	1	4	0	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	126144388	A	A	126144388	3	1	439	1	0	0	0	0	1	0	0	0	4426	1000	35	2	680	2	DENND1A	9	126144388	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	18016614	126144388	15069043	59	22528											
EXD3	54932	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140249170	140249170	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctccacaaaccgcttgtgGcacaggtgccgcagggccgc	8	5	12	16	3	0	0	0	0	0	0	1	0	1	0	5	3	2	3	5	3	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	140249170	G	T	140249170	4	4	439	1	0	0	0	0	0	1	0	0	5299	1195	42	4	1873	4	EXD3	9	140249170	Nonsense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	14104782	140249170	964261	60	22529											
KIAA1217	56243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	24669919	24669919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggggatgctccaacccCtttttccagaggcagccgga	8	8	13	12	1	0	2	0	1	0	1	2	4	2	4	5	4	3	2	5	4	1	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	24669919	C	T	24669919	3	4	439	1	0	0	0	0	1	0	0	0	8216	681	24	2	486	2	KIAA1217	10	24669919	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		24669919	110864828	61	22530											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	62039296	62039296	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caataataactccagctaacCtgattgcaaatgttgatgtc	14	12	6	9	0	0	2	0	2	0	0	2	2	1	2	2	0	4	3	2	0	5	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	62039296	C	G	62039296	3	3	439	1	0	0	0	0	1	0	0	0	622	695	24	4	13418	4	ANK3	10	62039296	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	37369377	62039296	73495451	62	22531											
AP3M1	26985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75884279	75884279	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttcccacatcccatgttaGtaccttaaaaagacaaaaaa	17	11	3	10	0	0	1	0	0	0	1	2	1	2	1	3	0	1	2	3	0	8	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	75884279	G	A	75884279	2	1	439	1	0	0	0	0	0	0	0	1	747	1020	36	2		2	AP3M1	10	75884279	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	13844983	75884279	59650468	63	22532											
ZFYVE27	118813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	99509236	99509236	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccctgtcatccaggttctAtggggctcttctgggcacag	5	13	11	12	0	4	0	1	0	3	0	6	0	6	0	2	4	0	3	2	4	1	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	99509236	A	G	99509236	3	3	439	1	0	0	0	0	1	0	0	0	17668	449	16	3	575	3	ZFYVE27	10	99509236	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	23624957	99509236	36025511	64	22533											
SORCS3	22986	broad.mit.edu;ucsc.edu	37	chr10	107016626	107016626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagctcagccatgcttatGctattatcagtggtatttgt	9	15	9	8	0	2	0	2	0	0	0	2	0	2	0	1	1	5	5	1	1	4	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	107016626	A	A	107016626	3	1	439	1	0	0	0	0	1	0	0	0	14934	1319	46	2	3485	2	SORCS3	10	107016626	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	7507390	107016626	28518121	65	22534											
PIK3C2A	5286	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	17118795	17118795	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgtggcaatgcttcccaAacttgattcaataagcctac	11	13	6	11	0	1	1	1	1	0	0	2	1	2	1	2	1	4	2	2	1	5	6	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	17118795	A	G	17118795	2	3	439	1	0	0	0	0	0	0	0	1	11909	11	1	3		3	PIK3C2A	11	17118795	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08		17118795	117887721	66	22535											
HPS5	11234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18314494	18314494	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggaacctgtcttcttctGgaggtggactagttacctct	6	14	10	11	0	4	0	0	0	4	0	4	3	4	3	3	4	2	1	3	4	3	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	18314494	G	T	18314494	3	4	439	1	0	0	0	0	1	0	0	0	7342	1348	47	4	1611	4	HPS5	11	18314494	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	1195699	18314494	116692022	67	22536											
AMBRA1	55626	hgsc.bcm.edu;ucsc.edu	37	chr11	46439573	46439574	+	Frame_Shift_Del	DEL	AG	AG	-																															acatgtctccgctggtcggcAggcatgggataaaggacgtt																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	46439574	AG	-	46439573	7	5	439	1	0	1	0	1	0	0	0	0	565	175	7	0	906	0	AMBRA1	11	46439573	Frame_Shift_Del	DEL	AG	TCGA-CW-6093-01A-11D-1669-08	28125079	46439573	88566943	68	22537											
SPRYD5	0	broad.mit.edu	37	chr11	55653105	55653105	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaaacctcaacactgaCatttgtttgaagaacatggc	15	9	8	9	0	1	4	1	2	0	2	1	5	1	4	1	1	3	1	1	1	4	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	55653105	A	A	55653105	3	1	439	1	0	0	0	0	1	0	0	0	15112	477	17	4	203	4	SPRYD5	11	55653105	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	9213532	55653105	79353411	69	22538											
SPRYD5	0	broad.mit.edu;hgsc.bcm.edu	37	chr11	55658689	55658689	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcatgaatgttggatgtGaccctcaagatgatcccgat	12	10	11	8	1	1	4	1	3	0	1	2	7	2	5	2	1	1	2	2	1	3	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	55658689	G	T	55658689	3	4	439	1	0	0	0	0	1	0	0	0	15112	1290	45	4	962	4	SPRYD5	11	55658689	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	5584	55658689	79347827	70	22539											
CYBASC3	220002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61120499	61120499	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgcccgaaatgacggatGcgatggacagagagaggatg	14	6	15	6	3	0	3	0	1	0	2	0	9	0	6	1	3	2	0	1	3	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	61120499	G	A	61120499	3	1	439	1	0	0	0	0	1	0	0	0	4132	1319	46	2	234	2	CYBASC3	11	61120499	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	5461810	61120499	73886017	71	22540											
FERMT3	83706	hgsc.bcm.edu;ucsc.edu	37	chr11	63990606	63990607	+	Frame_Shift_Del	DEL	AG	AG	-																															ggccgtgggcgacgtggtcaAgacctggcgtttcagcaaca																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	63990607	AG	-	63990606	7	5	439	1	0	1	0	1	0	0	0	0	5819	72	3	0	1819	0	FERMT3	11	63990606	Frame_Shift_Del	DEL	AG	TCGA-CW-6093-01A-11D-1669-08	2870107	63990606	71015910	72	22541											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92543049	92543049	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctgttggaccgggagaggatCcccgtgtacagcctgatggc	7	8	15	11	2	0	2	0	1	0	1	1	5	1	4	4	4	2	2	4	4	1	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	92543049	C	G	92543049	3	3	439	1	0	0	0	0	1	0	0	0	5691	845	30	4	9334	4	FAT3	11	92543049	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	28552443	92543049	42463467	73	22542											
MRE11A	4361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	94219122	94219122	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgactgactgatcactGagaatttcaaactggacagg	14	10	10	7	0	2	4	2	4	0	1	2	6	2	5	0	2	1	1	0	2	3	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	94219122	G	T	94219122	2	4	439	1	0	0	0	0	0	0	0	1	9759	1277	45	4		4	MRE11A	11	94219122	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	1676073	94219122	40787394	74	22543											
MMP10	4319	hgsc.bcm.edu;ucsc.edu	37	chr11	102650395	102650395	+	Frame_Shift_Del	DEL	T	T	-																															gaacttctgcattccttggaTttttttaacaatgagattac																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	102650395	T	-	102650395	7	5	439	1	0	1	0	1	0	0	0	0	9649	1493	52	0	1279	0	MMP10	11	102650395	Frame_Shift_Del	DEL	T	TCGA-CW-6093-01A-11D-1669-08	8431273	102650395	32356121	75	22544											
TECTA	7007	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	120980198	120980198	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgttttatggaggcagcagCaccacacctgtaataattca	13	10	8	10	1	1	0	1	0	0	0	1	1	1	1	2	2	2	5	2	2	3	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	120980198	C	T	120980198	2	4	439	1	0	0	0	0	0	0	0	1	15746	709	25	2		2	TECTA	11	120980198	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	18329803	120980198	14026318	76	22545											
ZNF202	7753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	123598248	123598248	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctcttggatatctgggacCcaaggctcttcctctctaac	7	12	9	13	0	4	0	0	0	4	0	6	2	5	2	2	4	1	2	2	4	3	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	123598248	C	T	123598248	4	4	439	1	0	0	0	0	0	1	0	0	17762	624	22	2	1066	2	ZNF202	11	123598248	Nonsense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	2618050	123598248	11408268	77	22546											
OR8G5	219865	broad.mit.edu;hgsc.bcm.edu	37	chr11	124135620	124135620	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacctgcagccatcatctGtcagctccatggaccagggg	8	9	11	13	0	3	0	2	0	1	0	4	1	4	1	4	3	4	3	4	3	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	124135620	G	A	124135620	3	1	439	1	0	0	0	0	1	0	0	0	11236	1377	48	2	900	2	OR8G5	11	124135620	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	537372	124135620	10870896	78	22547											
MANSC1	54682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	12483626	12483626	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagctatttcttgatcagAggaaaattgtgaactctgag	13	13	10	5	0	3	5	1	4	2	1	3	6	3	6	0	1	2	1	0	1	4	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	12483626	A	C	12483626	3	2	439	1	0	0	0	0	1	0	0	0	9224	304	11	5	668	5	MANSC1	12	12483626	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08		12483626	121368269	79	22548											
FMNL3	91010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	50050231	50050231	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgatttcgtgacctcCtcgcaccaaacacacagctg	12	8	8	13	2	0	2	0	2	0	0	3	3	1	3	3	1	2	2	3	1	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	50050231	C	T	50050231	3	4	439	1	0	0	0	0	1	0	0	0	5953	690	24	2	2314	2	FMNL3	12	50050231	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	37566605	50050231	83801664	80	22549											
OR6C2	341416	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55846275	55846275	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacaataccattacctacaAtgcttgtgccagtcaaatat	14	11	6	10	0	1	0	1	0	0	0	1	1	1	1	3	1	5	1	3	1	7	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	55846275	A	G	55846275	3	3	439	1	0	0	0	0	1	0	0	0	11191	101	4	3	280	3	OR6C2	12	55846275	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	5796044	55846275	78005620	81	22550											
C12orf56	115749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	64671569	64671569	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taattaaaattaccaagagaTtaaatagtgctcccctggaa	17	11	6	7	0	0	1	0	0	0	1	1	3	1	2	3	1	2	1	3	1	9	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	64671569	T	C	64671569	3	2	439	1	0	0	0	0	1	0	0	0	1700	1493	52	3	563	3	C12orf56	12	64671569	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	8825294	64671569	69180326	82	22551											
RASSF3	283349	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	65085342	65085342	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacttagttttgttcttcgtGaacatgaaattggagaggta	11	15	10	5	1	1	3	0	2	1	1	2	4	1	3	0	2	1	3	0	2	4	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	65085342	G	C	65085342	3	2	439	1	0	0	0	0	1	0	0	0	13089	1291	45	4	564	4	RASSF3	12	65085342	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	413773	65085342	68766553	83	22552											
C12orf26	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	82796821	82796821	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctccaaatactttgcgaatAtttacctccaactctgaaat	13	13	4	11	1	1	1	0	1	1	0	3	2	3	1	3	0	4	1	3	0	7	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	82796821	A	G	82796821	3	3	439	1	0	0	0	0	1	0	0	0	1679	439	16	3	1209	3	C12orf26	12	82796821	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	17711479	82796821	51055074	84	22553											
ATXN2	6311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	111893890	111893890	+	Missense_Mutation	SNP	A	A	C																															gccggctgaacgtgagaaggAtggatcgtaaagacagtctg																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	111893890	A	C	111893890	3	2	439	1	0	0	0	0	1	0	0	0	1211	330	12	5	266	5	ATXN2	12	111893890	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	29097069	111893890	21958005	85	22554	311	2									
ATXN2	6311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	111893891	111893891	+	Missense_Mutation	SNP	T	T	A																															ccggctgaacgtgagaaggaTggatcgtaaagacagtctgt																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	111893891	T	A	111893891	3	1	439	1	0	0	0	0	1	0	0	0	1211	1464	51	5	267	5	ATXN2	12	111893891	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	1	111893891	21958004	86	22555	311	2									
C12orf43	64897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121442228	121442228	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtggatggctgactcctGtaggatgtcggacgccgaca	7	9	15	10	3	0	1	0	1	0	0	2	5	1	4	2	4	0	3	2	4	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	121442228	G	C	121442228	3	2	439	1	0	0	0	0	1	0	0	0	1689	1386	48	4	275	4	C12orf43	12	121442228	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	9548337	121442228	12409667	87	22556											
IL31	386653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122656992	122656992	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgggctccagaggtcaaTgattttagtgcgaggtccat	8	13	13	7	1	1	2	1	1	0	1	3	3	3	2	2	3	1	2	2	3	2	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	122656992	T	C	122656992	2	2	439	1	0	0	0	0	0	0	0	1	7690	1451	51	3		3	IL31	12	122656992	Silent	SNP	T	TCGA-CW-6093-01A-11D-1669-08	1214764	122656992	11194903	88	22557											
KIAA1704	55425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	45589098	45589098	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttaaaaggaaacagacagCagtgaagatgaggatattat	18	10	10	3	0	0	4	0	2	0	2	0	6	0	6	0	2	2	1	0	2	6	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	45589098	C	A	45589098	3	1	439	1	0	0	0	0	1	0	0	0	8252	709	25	4	438	4	KIAA1704	13	45589098	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		45589098	69580780	89	22558											
JUB	0	hgsc.bcm.edu;ucsc.edu	37	chr14	23444054	23444054	+	Frame_Shift_Del	DEL	G	G	-																															ccagacatactgacctcagaGgggaggatgggttggccaca																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	23444054	G	-	23444054	7	5	439	1	0	1	0	1	0	0	0	0	7968	987	35	0	212	0	JUB	14	23444054	Frame_Shift_Del	DEL	G	TCGA-CW-6093-01A-11D-1669-08		23444054	83905486	90	22559											
C14orf93	60686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23458974	23458974	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagctccttatcagtgtaaTtgtggggactggtcaccagc	8	13	11	9	0	2	0	2	0	0	0	3	1	3	1	2	3	2	2	2	3	3	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	23458974	T	A	23458974	3	1	439	1	0	0	0	0	1	0	0	0	1782	1493	52	5	567	5	C14orf93	14	23458974	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	14920	23458974	83890566	91	22560											
ARHGAP5	394	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	32619205	32619205	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagatcctttaattccAtattctcttcatccagaact	10	15	3	13	0	2	2	1	0	1	2	6	2	5	2	4	0	2	0	4	0	3	6	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	32619205	A	G	32619205	2	3	439	1	0	0	0	0	0	0	0	1	886	204	8	3		3	ARHGAP5	14	32619205	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08	9160231	32619205	74730335	92	22561											
DLGAP5	9787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55655785	55655785	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctatttcgttcgtatTccttatgtctattttctttc	5	23	5	8	2	3	0	0	0	3	0	7	0	4	0	1	0	0	2	1	0	4	10	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	55655785	T	C	55655785	3	2	439	1	0	0	0	0	1	0	0	0	4563	1783	62	3	2594	3	DLGAP5	14	55655785	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	23036580	55655785	51693755	93	22562											
PSMA3	5684	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	58714515	58714515	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgacggaagagtttttcaAgttgaatatgctatgaaggc	12	12	11	6	1	1	4	1	3	0	1	1	5	1	5	1	2	1	3	1	2	6	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	58714515	A	G	58714515	2	3	439	1	0	0	0	0	0	0	0	1	12670	69	3	3		3	PSMA3	14	58714515	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08	3058730	58714515	48635025	94	22563											
NEDD4	4734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56208025	56208025	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtatgtctcttacttctccGggggtacaaattgttttaga	8	16	9	8	2	2	1	0	0	2	1	4	1	2	1	1	2	2	3	1	2	5	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	56208025	G	A	56208025	2	1	439	1	0	0	0	0	0	0	0	1	10310	1103	39	1		1	NEDD4	15	56208025	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08		56208025	46323367	95	22564											
ADAMTS7	11173	broad.mit.edu	37	chr15	79090324	79090324	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttggagcactggaatcAccccgctgtgccagcctctc	6	9	11	15	1	2	0	1	0	1	0	3	2	2	2	4	2	4	3	4	2	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	79090324	C	C	79090324	2	2	439	1	0	0	0	0	0	0	0	1	271	146	6	5		5	ADAMTS7	15	79090324	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08	22882299	79090324	23441068	96	22565											
AGBL1	123624	broad.mit.edu;ucsc.edu	37	chr15	87066159	87066159	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacctgagcagcattggcCgaagtcccgtggtgagtcac	9	7	12	13	2	1	2	1	2	0	0	2	3	2	2	4	2	2	2	4	2	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	87066159	A	A	87066159	2	1	439	1	0	0	0	0	0	0	0	1	375	644	23	4		4	AGBL1	15	87066159	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	7975835	87066159	15465233	97	22566											
POLG	5428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	89869918	89869918	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcttctgcaagcaggcgCgggccatgacatcttgttga	8	10	12	11	2	3	2	1	2	2	0	3	2	3	2	1	2	3	4	1	2	1	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	89869918	C	T	89869918	3	4	439	1	0	0	0	0	1	0	0	0	12200	768	27	1	2142	1	POLG	15	89869918	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	2803759	89869918	12661474	98	22567											
ZNF710	374655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90616318	90616318	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagggcgtgaaggagttcAagtgcgaggtgtgtggccgg	8	7	19	7	3	1	1	1	1	0	0	1	3	1	2	1	5	1	1	1	5	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	90616318	A	C	90616318	3	2	439	1	0	0	0	0	1	0	0	0	18114	131	5	5	1480	5	ZNF710	15	90616318	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	746400	90616318	11915074	99	22568											
EME2	197342	broad.mit.edu	37	chr16	1825568	1825568	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagcttgcctcctccccAggccctggtactcctgcagc	5	9	8	19	0	1	0	1	0	0	0	4	0	4	0	6	2	5	3	6	2	1	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	1825568	C	C	1825568	5	2	439	1	0	0	0	0	0	0	1	0	5089	202	7	5	837	5	EME2	16	1825568	Splice_Site	SNP	A	TCGA-CW-6093-01A-11D-1669-08		1825568	88529185	100	22569											
APOB48R	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28508786	28508786	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcatgcaggtgggcaagaAtttggtctggagggctcagc	9	8	17	7	0	2	1	1	0	1	1	2	3	2	2	0	5	3	4	0	5	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	28508786	A	G	28508786	2	3	439	1	0	0	0	0	0	0	0	1	786	98	4	3		3	APOB48R	16	28508786	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08	26683218	28508786	61845967	101	22570											
C16orf70	80262	broad.mit.edu;ucsc.edu	37	chr16	67166430	67166430	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgcaacccatcctggaggTaagccaagtccatctgattc	10	8	10	13	1	1	1	0	1	1	0	4	2	3	2	4	3	2	2	4	3	3	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	67166430	G	G	67166430	5	3	439	1	0	0	0	0	0	0	1	0	1829	1652	57	5	375	5	C16orf70	16	67166430	Splice_Site	SNP	T	TCGA-CW-6093-01A-11D-1669-08	38657644	67166430	23188323	102	22571											
NFAT5	10725	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69681465	69681465	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcttaccacggacaacaAaggcaactcaaaagcgggaa	17	4	9	11	2	2	0	2	0	0	0	2	2	2	2	1	3	5	2	1	3	7	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	69681465	A	T	69681465	3	4	439	1	0	0	0	0	1	0	0	0	10360	14	1	5	802	5	NFAT5	16	69681465	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	2515035	69681465	20673288	103	22572											
ZFHX3	463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	72991477	72991477	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtagagctcggcctcggcGggtgagggcaggctgccgag	5	6	20	10	4	0	2	0	1	0	1	2	3	0	2	2	6	2	4	2	6	1	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	72991477	G	A	72991477	2	1	439	1	0	0	0	0	0	0	0	1	17633	1103	39	1		1	ZFHX3	16	72991477	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	3310012	72991477	17363276	104	22573											
ANKRD11	29123	broad.mit.edu	37	chr16	89345631	89345631	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgatctgcaggtatTcgaagtaggggttggccctg	6	13	13	9	1	2	1	0	1	2	0	4	2	3	1	2	4	1	4	2	4	3	5	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	89345631	G	G	89345631	3	3	439	1	0	0	0	0	1	0	0	0	639	1783	62	5	692	5	ANKRD11	16	89345631	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	16354154	89345631	1009122	105	22574											
NEURL4	84461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7224466	7224466	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctcgccctcgtcatcctcctCgccctcactgccggtgtctg	2	11	8	20	4	3	0	2	0	1	0	8	0	5	0	5	1	1	0	5	1	0	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	7224466	C	G	7224466	3	3	439	1	0	0	0	0	1	0	0	0	10347	893	31	4	1403	4	NEURL4	17	7224466	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		7224466	73970744	106	22575											
MYH4	4622	hgsc.bcm.edu;ucsc.edu	37	chr17	10356638	10356638	+	Frame_Shift_Del	DEL	T	T	-																															ctgccatctcttctgtgaggTttttcacctttagattagaa																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	10356638	T	-	10356638	7	5	439	1	0	1	0	1	0	0	0	0	10037	1725	60	0	2945	0	MYH4	17	10356638	Frame_Shift_Del	DEL	T	TCGA-CW-6093-01A-11D-1669-08	3132172	10356638	70838572	107	22576											
PPM1E	22843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57057344	57057344	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcccgcaggagatgctgAacataagccatatatctgtg	11	10	10	10	1	1	2	0	1	1	1	2	3	2	2	2	1	3	3	2	1	4	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	57057344	A	C	57057344	3	2	439	1	0	0	0	0	1	0	0	0	12340	246	9	5	1246	5	PPM1E	17	57057344	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	46700706	57057344	24137866	108	22577											
APOH	350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	64222147	64222147	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccatgaaagttcttaccCagtgttacaagaaaaactga	15	11	7	8	0	1	3	0	2	1	1	2	3	2	3	2	0	3	3	2	0	6	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	64222147	C	T	64222147	3	4	439	1	0	0	0	0	1	0	0	0	804	608	21	2	724	2	APOH	17	64222147	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	7164803	64222147	16973063	109	22578											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7036007	7036007	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaatgatgacgtcagcatgCgacatgaggttactgtctac	11	12	10	8	2	2	3	1	3	1	0	2	4	2	3	0	1	4	2	0	1	3	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	7036007	C	T	7036007	2	4	439	1	0	0	0	0	0	0	0	1	8605	755	27	1		1	LAMA1	18	7036007	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08		7036007	71041241	110	22579											
FAM38B	0	broad.mit.edu;hgsc.bcm.edu	37	chr18	10697808	10697808	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcttttccatataaagttcCcttttgcctttttgcttaat	8	20	4	9	0	0	0	0	0	0	0	2	0	2	0	3	0	3	3	3	0	4	10	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	10697808	C	T	10697808	2	4	439	1	0	0	0	0	0	0	0	1	5555	622	22	2		2	FAM38B	18	10697808	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	3661801	10697808	67379440	111	22580											
THEG	51298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	375847	375847	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcgttcggggtctgtgaCccgccggctctcgtacacag	4	9	14	14	5	2	1	0	1	2	0	4	1	2	1	2	4	1	3	2	4	1	2	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	375847	C	T	375847	3	4	439	1	0	0	0	0	1	0	0	0	15856	507	18	2	1047	2	THEG	19	375847	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08		375847	58753136	112	22581											
FZR1	51343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3523035	3523035	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttcgccagatcgtcatccaGaatgagaacacgatgccacg	12	7	9	13	4	1	3	1	1	0	3	4	5	2	3	3	0	2	0	3	0	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	3523035	G	C	3523035	3	2	439	1	0	0	0	0	1	0	0	0	6138	933	33	4	50	4	FZR1	19	3523035	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	3147188	3523035	55605948	113	22582											
ACTL9	284382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8807902	8807902	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggaggccaggatggagcCcccgatccatacggagaaat	12	4	14	11	2	0	1	0	0	0	1	1	6	1	4	4	5	2	0	4	5	2	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	8807902	C	T	8807902	3	4	439	1	0	0	0	0	1	0	0	0	203	623	22	2	104	2	ACTL9	19	8807902	Missense_Mutation	SNP	C	TCGA-CW-6093-01A-11D-1669-08	5284867	8807902	50321081	114	22583											
MAST3	23031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18255405	18255405	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagacccagcccctgagaAgtccagagcctcctccagcg	11	4	10	16	1	0	3	0	1	0	3	3	5	3	3	7	0	3	0	7	0	2	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	18255405	A	G	18255405	3	3	439	1	0	0	0	0	1	0	0	0	9326	72	3	3	2713	3	MAST3	19	18255405	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	9447503	18255405	40873578	115	22584											
ZFP14	57677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36831956	36831956	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttccacattccttacAttcatagggtttttcacccg	7	15	6	13	1	2	0	2	0	0	0	4	0	4	0	4	2	1	1	4	2	2	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		G	36831956	A	G	36831956	3	3	439	1	0	0	0	0	1	0	0	0	17638	217	8	3	833	3	ZFP14	19	36831956	Missense_Mutation	SNP	A	TCGA-CW-6093-01A-11D-1669-08	18576551	36831956	22297027	116	22585											
SLC17A7	57030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49934326	49934326	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaccatgcccgacagtgtGcccacgccgttggagatgcc	8	6	11	16	3	0	1	0	0	0	1	0	3	0	1	5	1	3	1	5	1	0	1	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	49934326	G	A	49934326	2	1	439	1	0	0	0	0	0	0	0	1	14424	1306	46	2		2	SLC17A7	19	49934326	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08	13102370	49934326	9194657	117	22586											
PLCG1	5335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	39796506	39796506	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttccaggagcctgactacggGgccctgtatgagggacgcaa	9	7	14	11	2	0	2	0	2	0	0	1	4	1	4	3	4	2	2	3	4	3	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	39796506	G	T	39796506	2	4	439	1	0	0	0	0	0	0	0	1	12035	1219	43	4		4	PLCG1	20	39796506	Silent	SNP	G	TCGA-CW-6093-01A-11D-1669-08		39796506	23229014	118	22587											
SULF2	55959	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	46365503	46365503	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcggctctcgtgctgtGcctgccaggagggcgaggag	5	7	19	10	3	1	0	0	0	1	0	2	3	1	2	2	5	4	2	2	5	0	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	46365503	G	T	46365503	3	4	439	1	0	0	0	0	1	0	0	0	15372	1319	46	4	2329	4	SULF2	20	46365503	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	6568997	46365503	16660017	119	22588											
MYO18B	84700	broad.mit.edu;hgsc.bcm.edu	37	chr22	26164741	26164741	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaagcagagaaggagggAgcagagcccacaaacacggt	16	1	16	8	1	0	2	0	0	0	2	0	6	0	5	1	4	4	2	1	4	3	0	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	26164741	A	T	26164741	2	4	439	1	0	0	0	0	0	0	0	1	10066	291	11	5		5	MYO18B	22	26164741	Silent	SNP	A	TCGA-CW-6093-01A-11D-1669-08		26164741	25139825	120	22589											
GTSE1	51512	hgsc.bcm.edu;ucsc.edu	37	chr22	46725272	46725272	+	Frame_Shift_Del	DEL	C	C	-																															caggctcttcttgtagatatCaaactggaaccactcgcggt																								novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		-	46725272	C	-	46725272	7	5	439	1	0	1	0	1	0	0	0	0	6885	816	29	0	1982	0	GTSE1	22	46725272	Frame_Shift_Del	DEL	C	TCGA-CW-6093-01A-11D-1669-08	20560531	46725272	4579294	121	22590											
CXorf22	170063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	35974189	35974189	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttgtttcatgggtgaacGttcagaaattcagtgcatca	11	13	9	8	1	4	2	4	1	0	1	4	2	4	2	1	1	2	3	1	1	2	4	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		A	35974189	G	A	35974189	3	1	439	1	0	0	0	0	1	0	0	0	4102	1145	40	1	1316	1	CXorf22	23	35974189	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08		35974189	119296371	122	22591											
CLCN5	1184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	49851500	49851500	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acactcatactgaaaattgtCattactatattcacctttgg	13	15	4	9	0	3	1	3	1	0	0	3	1	3	1	1	1	2	0	1	1	6	7	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		T	49851500	C	T	49851500	2	4	439	1	0	0	0	0	0	0	0	1	3466	813	29	2		2	CLCN5	23	49851500	Silent	SNP	C	TCGA-CW-6093-01A-11D-1669-08	13877311	49851500	105419060	123	22592											
NUDT10	170685	broad.mit.edu;hgsc.bcm.edu	37	chrX	51075924	51075924	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggacgaggtcctgttagTgagtagcagccggtacccgg	8	7	16	10	4	0	1	0	1	0	0	1	4	1	2	3	4	3	4	3	4	3	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	51075924	T	C	51075924	3	2	439	1	0	0	0	0	1	0	0	0	10726	1696	59	3	109	3	NUDT10	23	51075924	Missense_Mutation	SNP	T	TCGA-CW-6093-01A-11D-1669-08	1224424	51075924	104194636	124	22593											
MAGEC1	9947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	140994794	140994794	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctccagattgttccaaGtcttcctgagtgggaggact	7	13	10	11	0	2	2	0	1	2	1	6	4	5	4	4	2	0	1	4	2	1	3	novel		TCGA-CW-6093-01A-11D-1669-08	TCGA-CW-6093-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	9b1beb37-1ed7-43c0-a532-56df7941111f	e75e7a34-73fd-425d-9dcd-db99f862d123		C	140994794	G	C	140994794	3	2	439	1	0	0	0	0	1	0	0	0	9180	1029	36	4	1610	4	MAGEC1	23	140994794	Missense_Mutation	SNP	G	TCGA-CW-6093-01A-11D-1669-08	89918870	140994794	14275766	125	22594											
THAP3	90326	broad.mit.edu;ucsc.edu	37	chr1	6694078	6694079	+	Splice_Site	DEL	AG	-	-																															ttggggtctatttatttctcAggcaatgttgtttaatgtag																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	6694079	-	-	6694078	8	5	440	1	0	1	0	1	0	0	1	0	15844	202	7	0	476	0	THAP3	1	6694078	Splice_Site	DEL	AG	TCGA-CZ-4853-01A-01D-1429-08		6694078	242556543	1	22595											
EIF4G3	8672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	21186921	21186921	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagttgctggaccttcctTtgctcttcttgttcttctat	4	20	7	10	0	4	1	0	1	4	0	5	2	5	2	2	1	2	4	2	1	1	8	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	21186921	T	A	21186921	3	1	440	1	0	0	0	0	1	0	0	0	5038	1838	64	5	1780	5	EIF4G3	1	21186921	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	14492843	21186921	228063700	2	22596											
MYCL1	4610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40363241	40363241	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccctcagcgccaagaatcGcgaacgcaggtcattccgcc	9	6	10	16	5	2	1	2	0	0	1	5	2	4	1	4	1	2	1	4	1	3	1	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	40363241	G	A	40363241	4	1	440	1	0	0	0	0	0	1	0	0	10020	1095	38	1	200	1	MYCL1	1	40363241	Nonsense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	19176320	40363241	208887380	3	22597											
CACHD1	57685	hgsc.bcm.edu;ucsc.edu	37	chr1	65098290	65098290	+	Frame_Shift_Del	DEL	A	A	-																															ttctccctccagacccatctAcgtctctacagtccggccgc																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	65098290	A	-	65098290	7	5	440	1	0	1	0	1	0	0	0	0	2537	391	14	0	522	0	CACHD1	1	65098290	Frame_Shift_Del	DEL	A	TCGA-CZ-4853-01A-01D-1429-08	24735049	65098290	184152331	4	22598											
CELSR2	1952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	109793167	109793167	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggcacaggcccccgggCtcagggcaggggaaaggtca	9	3	17	12	1	2	0	2	0	0	0	2	1	2	1	2	7	1	4	2	7	1	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	109793167	C	T	109793167	3	4	440	1	0	0	0	0	1	0	0	0	3222	797	28	2	468	2	CELSR2	1	109793167	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	44694877	109793167	139457454	5	22599											
MTMR11	10903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	149901785	149901785	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagagccacacagaactgggGggtccaggaaccatgaagct	14	4	13	10	0	0	3	0	1	0	2	1	4	1	4	3	4	4	1	3	4	4	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	149901785	G	C	149901785	2	2	440	1	0	0	0	0	0	0	0	1	9940	1219	43	4		4	MTMR11	1	149901785	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	40108618	149901785	99348836	6	22600											
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158646048	158646048	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcatctgaaggatgggaaAgtgtcagcttctctgcttta	9	13	12	7	0	3	1	1	1	2	0	4	3	3	3	0	2	3	3	0	2	3	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	158646048	A	C	158646048	3	2	440	1	0	0	0	0	1	0	0	0	15117	72	3	5	6444	5	SPTA1	1	158646048	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	8744263	158646048	90604573	7	22601											
IPO9	55705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	201843415	201843415	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacattcctttgctggtcaaGatcctaaagctgatcatcaa	13	12	6	10	0	3	2	3	1	0	1	5	2	5	2	2	1	3	2	2	1	5	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	201843415	G	A	201843415	2	1	440	1	0	0	0	0	0	0	0	1	7799	933	33	2		2	IPO9	1	201843415	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	43197367	201843415	47407206	8	22602											
CR1	1378	hgsc.bcm.edu;ucsc.edu	37	chr1	207753683	207753683	+	Frame_Shift_Del	DEL	G	G	-																															tgttctacagctgtgagcctGgctatgacctcagaggggct																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	207753683	G	-	207753683	7	5	440	1	0	1	0	1	0	0	0	0	3840	1348	47	0	5153	0	CR1	1	207753683	Frame_Shift_Del	DEL	G	TCGA-CZ-4853-01A-01D-1429-08	5910268	207753683	41496938	9	22603											
RAD51AP2	729475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	17697415	17697415	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatcttggctgtgcatattTacttcataaaaattttcatt	13	18	4	6	0	3	0	2	0	1	0	3	0	3	0	0	1	2	2	0	1	6	9	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	17697415	T	A	17697415	2	1	440	1	0	0	0	0	0	0	0	1	12989	1741	61	5		5	RAD51AP2	2	17697415	Silent	SNP	T	TCGA-CZ-4853-01A-01D-1429-08		17697415	225501958	10	22604											
EMILIN1	11117	broad.mit.edu;hgsc.bcm.edu	37	chr2	27305278	27305278	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcagggccccagccccagCctcagcccctccgggcccca	6	2	10	23	1	1	0	1	0	0	0	2	0	2	0	10	2	4	1	10	2	0	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	27305278	C	A	27305278	3	1	440	1	0	0	0	0	1	0	0	0	5093	739	26	4	853	4	EMILIN1	2	27305278	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	9607863	27305278	215894095	11	22605											
DCTN1	1639	broad.mit.edu;hgsc.bcm.edu	37	chr2	74598753	74598753	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgccagcggagtctgagccgGggtgctgggctcactgctgc	4	8	17	12	2	2	1	1	1	1	0	2	2	2	2	2	4	6	3	2	4	0	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	74598753	G	T	74598753	3	4	440	1	0	0	0	0	1	0	0	0	4306	1232	43	4	3380	4	DCTN1	2	74598753	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	47293475	74598753	168600620	12	22606											
CKAP2L	150468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	113514506	113514506	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactgctgctttgtagtttTcaattgctctatattaagtg	9	19	7	6	0	2	0	1	0	1	0	2	0	2	0	0	0	4	5	0	0	6	9	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	113514506	T	C	113514506	3	2	440	1	0	0	0	0	1	0	0	0	3443	1792	62	3	1819	3	CKAP2L	2	113514506	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	38915753	113514506	129684867	13	22607											
GLI2	2736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	121748151	121748151	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgaaactccttgaccctgcCctccatccccgcaggcatca	8	7	6	20	2	1	1	1	1	0	0	4	2	4	1	7	1	2	2	7	1	1	1	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	121748151	C	G	121748151	3	3	440	1	0	0	0	0	1	0	0	0	6438	623	22	4	4711	4	GLI2	2	121748151	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	8233645	121748151	121451222	14	22608											
LRP2	4036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170081963	170081963	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcactctgtgaatttcacCctggaaagaaagacaagggg	13	9	10	9	0	3	3	2	1	1	2	3	4	3	4	1	3	0	0	1	3	4	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	170081963	C	A	170081963	3	1	440	1	0	0	0	0	1	0	0	0	8956	637	22	4	8760	4	LRP2	2	170081963	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	48333812	170081963	73117410	15	22609											
C2orf77	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	170505718	170505718	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgaatatgggcatcttgaaCctcttgatgttctttatcag	9	16	8	8	0	4	3	1	3	3	0	4	3	4	3	1	1	1	2	1	1	4	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	170505718	C	A	170505718	3	1	440	1	0	0	0	0	1	0	0	0	2194	507	18	4	375	4	C2orf77	2	170505718	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	423755	170505718	72693655	16	22610											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179591818	179591818	+	Frame_Shift_Del	DEL	T	T	-																															acaagaacaagatgtctaccTtttactataaccttggtact																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	179591818	T	-	179591818	7	5	440	1	0	1	0	1	0	0	0	0	16734	1623	56	0	84431	0	TTN	2	179591818	Frame_Shift_Del	DEL	T	TCGA-CZ-4853-01A-01D-1429-08	9086100	179591818	63607555	17	22611	312	2									
TTN	7273	hgsc.bcm.edu	37	chr2	179591821	179591821	+	Silent	SNP	T	T	C																															agaacaagatgtctacctttTactataaccttggtactgca																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	179591821	T	C	179591821	2	2	440	1	0	0	0	0	0	0	0	1	16734	1741	61	3		3	TTN	2	179591821	Silent	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	3	179591821	63607552	18	22612	312	2									
DNAH7	56171	broad.mit.edu	37	chr2	196720578	196720578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtttatttaattcaagtGtgtcttgaagcctggccagc	8	17	9	7	0	2	1	1	1	1	0	2	1	2	1	2	1	2	1	2	1	4	7	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	196720578	A	A	196720578	3	1	440	1	0	0	0	0	1	0	0	0	4606	1377	48	2	3606	2	DNAH7	2	196720578	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	17128757	196720578	46478795	19	22613											
ALS2	57679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	202598155	202598155	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agctcttggtttttatttagGaaatcactagaggcagagga	12	13	11	5	0	2	2	1	0	1	2	2	4	2	4	0	4	1	3	0	4	4	7	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	202598155	G	A	202598155	2	1	440	1	0	0	0	0	0	0	0	1	550	1165	41	2		2	ALS2	2	202598155	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	5877577	202598155	40601218	20	22614											
FZD5	7855	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	208632143	208632143	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	catgagcttctccagcttgtCcgtcttggtgccgccctgct	3	13	10	15	2	2	1	0	1	2	0	4	1	3	1	4	1	4	3	4	1	0	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	208632143	C	G	208632143	3	3	440	1	0	0	0	0	1	0	0	0	6133	855	30	4	440	4	FZD5	2	208632143	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	6033988	208632143	34567230	21	22615											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10183776	10183776	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctgcaatcgcagtccgcGcgtcgtgctgcccgtatggc	4	10	12	15	6	1	0	0	0	1	0	4	0	2	0	2	1	3	4	2	1	2	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454;Illumina Miseq			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	10183776	G	C	10183776	3	2	440	1	0	0	0	0	1	0	0	0	17161	1087	38	4	247	4	VHL	3	10183776	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		10183776	187838654	22	22616											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52649438	52649438	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctttccttttctccttgAgtaacttctccaggatatgt	6	18	6	11	0	3	1	0	1	3	0	6	2	4	2	3	1	1	2	3	1	2	7	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	52649438	A	T	52649438	3	4	440	1	0	0	0	0	1	0	0	0	11491	304	11	5	3111	5	PBRM1	3	52649438	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	42465662	52649438	145372992	23	22617											
EAF2	55840	hgsc.bcm.edu;ucsc.edu	37	chr3	121554180	121554181	+	Frame_Shift_Del	DEL	TC	TC	-																															ctagaccgtcgcgagcgggtTctcaagttaggggagagttt																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	121554181	TC	-	121554180	7	5	440	1	0	1	0	1	0	0	0	0	4876	1770	62	0	50	0	EAF2	3	121554180	Frame_Shift_Del	DEL	TC	TCGA-CZ-4853-01A-01D-1429-08	68904742	121554180	76468250	24	22618	313	2									
EAF2	55840	hgsc.bcm.edu	37	chr3	121554183	121554183	+	Silent	SNP	C	C	T																															gaccgtcgcgagcgggttctCaagttaggggagagtttcga																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	121554183	C	T	121554183	2	4	440	1	0	0	0	0	0	0	0	1	4876	813	29	2		2	EAF2	3	121554183	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	3	121554183	76468247	25	22619	313	2									
KPNA4	3840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	160227602	160227602	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttacttgatctttccttcCactaattgttaagttactta	10	19	3	9	0	1	1	0	1	1	0	3	1	3	1	2	0	2	2	2	0	5	9	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	160227602	C	A	160227602	4	1	440	1	0	0	0	0	0	1	0	0	8432	603	21	4	386	4	KPNA4	3	160227602	Nonsense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	38673419	160227602	37794828	26	22620											
PROL1	58503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	71275489	71275489	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaataaacatcaccacCgcagatacaacaatcaccac	18	4	2	17	1	2	1	2	0	0	1	2	1	2	1	5	0	3	1	5	0	6	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	71275489	C	T	71275489	2	4	440	1	0	0	0	0	0	0	0	1	12556	639	23	1		1	PROL1	4	71275489	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08		71275489	119878787	27	22621											
CXCL10	3627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	76943924	76943924	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggattaacaggttgattActaatgctgatgcaggtaca	12	13	10	6	0	0	2	0	2	0	0	0	3	0	3	0	3	5	4	0	3	4	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	76943924	A	G	76943924	2	3	440	1	0	0	0	0	0	0	0	1	4078	388	14	3		3	CXCL10	4	76943924	Silent	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	5668435	76943924	114210352	28	22622											
BMP2K	55589	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	79808404	79808404	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataaccatcctccagaagaTccttttggttctgttccttt	8	16	5	12	0	1	2	0	0	1	2	5	2	5	2	5	1	1	2	5	1	2	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	79808404	T	C	79808404	2	2	440	1	0	0	0	0	0	0	0	1	1460	1432	50	3		3	BMP2K	4	79808404	Silent	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	2864480	79808404	111345872	29	22623											
EGF	1950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	110897230	110897230	+	Frame_Shift_Del	DEL	T	T	-																															aagttcttccctccaaggccTtggccgtctggttatagcca																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	110897230	T	-	110897230	7	5	440	1	0	1	0	1	0	0	0	0	4962	1609	56	0	1942	0	EGF	4	110897230	Frame_Shift_Del	DEL	T	TCGA-CZ-4853-01A-01D-1429-08	31088826	110897230	80257046	30	22624											
METTL14	57721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	119626961	119626961	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatctatttggaagagatAgtacaattcgaccaggtagg	13	12	10	6	1	2	1	1	0	1	1	3	4	2	2	1	3	1	2	1	3	6	7	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	119626961	A	T	119626961	3	4	440	1	0	0	0	0	1	0	0	0	9498	420	15	5	1089	5	METTL14	4	119626961	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	8729731	119626961	71527315	31	22625											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33576548	33576548	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttagtggaggtgcaagtgGcatttctgtactttccactg	7	15	12	7	0	1	0	0	0	1	0	2	1	2	1	1	3	2	4	1	3	3	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	33576548	G	A	33576548	3	1	440	1	0	0	0	0	1	0	0	0	257	1203	42	2	1225	2	ADAMTS12	5	33576548	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		33576548	147338712	32	22626											
DDX46	9879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134131704	134131704	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaagaagaaaagaaattCttgaagttacttgagcttct	16	13	8	4	0	2	6	0	3	2	3	2	6	2	6	0	0	2	2	0	0	7	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	134131704	C	A	134131704	3	1	440	1	0	0	0	0	1	0	0	0	4364	912	32	4	1876	4	DDX46	5	134131704	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	100555156	134131704	46783556	33	22627											
PCDHB8	56128	broad.mit.edu;hgsc.bcm.edu	37	chr5	140559547	140559547	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagaggctggtggtgctGgtcaaggacaatggcgagcc	10	6	17	8	1	1	1	1	0	0	1	1	3	1	2	1	6	3	3	1	6	3	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	140559547	G	A	140559547	2	1	440	1	0	0	0	0	0	0	0	1	11548	1335	47	2		2	PCDHB8	5	140559547	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	6427843	140559547	40355713	34	22628											
TTC1	7265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	159437682	159437682	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaagctgctcagggatgaTgaggcccatctccaggagga	11	7	14	9	0	2	2	1	2	1	0	3	5	2	5	2	4	2	3	2	4	1	1	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	159437682	T	C	159437682	2	2	440	1	0	0	0	0	0	0	0	1	16677	1461	51	3		3	TTC1	5	159437682	Silent	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	18878135	159437682	21477578	35	22629											
DOCK2	1794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	169174444	169174444	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtttgaagaatccatgaGacggctctttgaatccatca	12	11	10	8	1	2	4	1	3	1	2	4	6	4	5	2	2	0	2	2	2	3	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	169174444	G	T	169174444	3	4	440	1	0	0	0	0	1	0	0	0	4687	942	33	4	2402	4	DOCK2	5	169174444	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	9736762	169174444	11740816	36	22630											
TSPAN17	26262	broad.mit.edu;hgsc.bcm.edu	37	chr5	176084597	176084597	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtccacggcggggcctcaGcagaactctctgactggggc	6	7	14	14	2	2	2	1	1	1	1	4	2	3	2	2	5	2	1	2	5	1	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	176084597	G	A	176084597	2	1	440	1	0	0	0	0	0	0	0	1	16640	962	34	2		2	TSPAN17	5	176084597	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	6910153	176084597	4830663	37	22631											
KIF13A	63971	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	17794626	17794626	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgtactctacgggaatgacCctgaagagggtggggaggag	10	8	17	6	1	1	3	0	2	1	1	1	6	1	6	1	5	2	1	1	5	4	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	17794626	C	A	17794626	3	1	440	1	0	0	0	0	1	0	0	0	8274	637	22	4	2426	4	KIF13A	6	17794626	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08		17794626	153320441	38	22632											
SEMA3C	10512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	80433459	80433459	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggaatgaatctgtttcGtgctcctgttattgtcagtc	7	17	9	8	1	3	1	2	1	1	0	6	2	4	2	1	1	1	3	1	1	3	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	80433459	G	A	80433459	3	1	440	1	0	0	0	0	1	0	0	0	14028	1145	40	1	1535	1	SEMA3C	7	80433459	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		80433459	78705204	39	22633											
ABP1	26	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	150558149	150558149	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccattcaacttcttccCagaggacccctccctggcat	7	9	7	18	1	2	1	1	0	1	1	4	2	4	2	6	3	1	1	6	3	1	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	150558149	C	G	150558149	3	3	440	1	0	0	0	0	1	0	0	0	98	594	21	4	2122	4	ABP1	7	150558149	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	70124690	150558149	8580514	40	22634											
HR	55806	broad.mit.edu;hgsc.bcm.edu	37	chr8	21986313	21986313	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggccaccactatgctcaGgcatcagggggccacagcga	10	5	13	13	1	2	0	2	0	0	0	2	2	2	0	3	4	2	2	3	4	1	1	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	21986313	G	T	21986313	3	4	440	1	0	0	0	0	1	0	0	0	7347	1000	35	4	3270	4	HR	8	21986313	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		21986313	124377709	41	22635											
MYST3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	41792289	41792289	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgcctttgggccatcccTttttctttttcaaaggtgtg	4	19	8	10	0	3	0	1	0	2	0	4	0	4	0	3	2	1	0	3	2	1	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	41792289	T	G	41792289	3	3	440	1	0	0	0	0	1	0	0	0	10104	1609	56	5	2569	5	MYST3	8	41792289	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	19805976	41792289	104571733	42	22636											
PTDSS1	9791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	97342498	97342498	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatgcagaacactatggtCaccgagaaaaggtatggaag	15	7	13	6	1	1	2	1	0	0	2	1	4	1	3	1	4	2	3	1	4	7	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	97342498	C	A	97342498	3	1	440	1	0	0	0	0	1	0	0	0	12738	826	29	4	1273	4	PTDSS1	8	97342498	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	55550209	97342498	49021524	43	22637											
MTBP	27085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	121500410	121500410	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgtttagttccagatgttGaagtgaaaggagagtgttct	10	16	12	3	0	1	4	0	2	1	2	2	5	2	4	1	1	0	4	1	1	3	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	121500410	G	A	121500410	3	1	440	1	0	0	0	0	1	0	0	0	9912	1291	45	2	1223	2	MTBP	8	121500410	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	24157912	121500410	24863612	44	22638											
WDR67	93594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	124138304	124138304	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccttcatagtcaattggTgtcaacactggtttgaatat	10	17	7	7	0	3	1	3	1	0	0	4	1	4	1	1	2	1	1	1	2	5	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	124138304	T	A	124138304	3	1	440	1	0	0	0	0	1	0	0	0	17317	1696	59	5	1625	5	WDR67	8	124138304	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	2637894	124138304	22225718	45	22639											
SLC45A4	57210	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	142228421	142228421	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacggcgttggcgcgccggtAgcggtagcagtgggacccaa	7	5	17	12	6	0	0	0	0	0	0	0	1	0	1	2	5	2	4	2	5	3	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	142228421	A	G	142228421	3	3	440	1	0	0	0	0	1	0	0	0	14645	420	15	3	1251	3	SLC45A4	8	142228421	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	18090117	142228421	4135601	46	22640											
RGP1	9827	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35752830	35752830	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagccccaccctggcctcaTatgctgccccaggccccagc	6	6	8	21	0	1	0	1	0	0	0	1	0	1	0	8	2	4	1	8	2	2	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	35752830	T	A	35752830	3	1	440	1	0	0	0	0	1	0	0	0	13286	1406	49	5	1293	5	RGP1	9	35752830	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08		35752830	105460601	47	22641											
WNK2	65268	broad.mit.edu	37	chr9	96070760	96070760	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtggacgagcaagacggTgggggccgcgcagctgaagc	9	3	19	10	5	0	2	0	1	0	1	0	5	0	3	1	4	3	3	1	4	2	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	96070760	C	C	96070760	3	2	440	1	0	0	0	0	1	0	0	0	17377	1696	59	3	6516	3	WNK2	9	96070760	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	60317930	96070760	45142671	48	22642											
ANAPC2	29882	broad.mit.edu;hgsc.bcm.edu	37	chr9	140075307	140075307	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgagcggtactcattgatgaAgaggtccttgctgccgtaga	9	10	13	9	3	1	4	1	2	0	2	2	5	2	4	2	2	4	3	2	2	3	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	140075307	A	T	140075307	3	4	440	1	0	0	0	0	1	0	0	0	603	72	3	5	949	5	ANAPC2	9	140075307	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	44004547	140075307	1138124	49	22643											
IL2RA	3559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6067797	6067797	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacagaagggacacttacCagagcttgtgcattgacatt	12	10	10	9	0	1	3	1	1	0	2	1	4	1	4	1	1	3	2	1	1	2	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	6067797	C	G	6067797	3	3	440	1	0	0	0	0	1	0	0	0	7686	608	21	4	590	4	IL2RA	10	6067797	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08		6067797	129466950	50	22644											
ARHGAP21	57584	broad.mit.edu;hgsc.bcm.edu	37	chr10	24910118	24910118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaccaggttgtgtcagtaCtggtgtactggtttgctgtt	5	16	12	8	0	1	0	1	0	0	0	1	0	1	0	2	3	4	6	2	3	3	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	24910118	C	T	24910118	3	4	440	1	0	0	0	0	1	0	0	0	871	565	20	2	5242	2	ARHGAP21	10	24910118	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	18842321	24910118	110624629	51	22645											
KIAA1462	57608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	30315665	30315665	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcatcagtggacaccctggGgacatctgccggtgctgggc	6	7	16	12	1	2	0	1	0	1	0	2	2	2	2	2	6	2	2	2	6	0	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	30315665	G	A	30315665	3	1	440	1	0	0	0	0	1	0	0	0	8234	1232	43	2	675	2	KIAA1462	10	30315665	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	5405547	30315665	105219082	52	22646											
CCAR1	55749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	70507264	70507264	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagatttcagcagcttCtattacaccactattgcaga	12	11	7	11	0	2	2	1	0	1	2	2	2	2	2	1	1	4	4	1	1	3	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	70507264	C	A	70507264	3	1	440	1	0	0	0	0	1	0	0	0	2730	913	32	4	793	4	CCAR1	10	70507264	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	40191599	70507264	65027483	53	22647											
MOB2	81532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1492592	1492592	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctcatgacgaagtcaacGtactgtggggccgtgcactt	9	9	13	10	3	2	1	2	1	0	0	2	3	2	1	1	2	4	3	1	2	3	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	1492592	G	T	1492592	4	4	440	1	0	0	0	0	0	1	0	0	9681	1140	40	4	391	4	MOB2	11	1492592	Nonsense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		1492592	133513924	54	22648											
SLC5A12	159963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	26694953	26694953	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacatcagctcacctgcTctgtcccactgtcatgctga	9	11	6	15	0	5	1	4	1	1	0	6	1	6	1	2	0	4	3	2	0	1	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	26694953	T	A	26694953	3	1	440	1	0	0	0	0	1	0	0	0	14666	1551	54	5	161	5	SLC5A12	11	26694953	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	25202361	26694953	108311563	55	22649											
BEST1	7439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61725623	61725623	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcctcctcccaggtggtGactgtggcggtgtacagctt	4	12	12	13	1	0	1	0	1	0	0	4	1	4	1	4	4	2	2	4	4	1	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	61725623	G	A	61725623	2	1	440	1	0	0	0	0	0	0	0	1	1404	1277	45	2		2	BEST1	11	61725623	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	35030670	61725623	73280893	56	22650											
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	92534186	92534186	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggtaattttaaccagctGaaaaatacagtgctttcgtt	14	13	8	6	1	0	1	0	1	0	0	1	1	0	1	1	1	4	4	1	1	6	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	92534186	G	T	92534186	2	4	440	1	0	0	0	0	0	0	0	1	5691	1277	45	4		4	FAT3	11	92534186	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	30808563	92534186	42472330	57	22651											
ST14	6768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130064609	130064609	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccactacccacccaacAttgactgcacatggaacatt	13	7	6	15	0	0	1	0	1	0	0	0	2	0	2	3	2	4	1	3	2	3	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	130064609	A	T	130064609	3	4	440	1	0	0	0	0	1	0	0	0	15212	217	8	5	1124	5	ST14	11	130064609	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	37530423	130064609	4941907	58	22652											
IQSEC3	440073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	280284	280284	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcattcaaagccaaaaGggaagccgcgctcagggaga	13	6	12	10	2	2	1	2	0	0	1	2	3	2	2	2	2	3	2	2	2	4	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	280284	G	A	280284	3	1	440	1	0	0	0	0	1	0	0	0	7819	1000	35	2	3121	2	IQSEC3	12	280284	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		280284	133571611	59	22653											
BICD1	636	broad.mit.edu;ucsc.edu	37	chr12	32491840	32491840	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatcatttcttctgaagggCcccccttccatgagtgaatt	9	13	8	11	0	3	3	1	3	2	0	4	4	4	3	4	1	0	0	4	1	3	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	32491840	A	A	32491840	2	1	440	1	0	0	0	0	0	0	0	1	1428	726	26	4		4	BICD1	12	32491840	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	32211556	32491840	101360055	60	22654											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57591375	57591375	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgactaccgagagcagatGatctactggacagatgtgac	12	10	11	8	1	1	6	0	3	1	3	1	8	1	7	1	1	3	1	1	1	2	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	57591375	G	A	57591375	3	1	440	1	0	0	0	0	1	0	0	0	8951	1290	45	2	9440	2	LRP1	12	57591375	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	25099535	57591375	76260520	61	22655											
MYF6	4618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	81101549	81101549	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatttcttctacttggatggGgaaaatgttactctgcagcc	9	15	9	8	0	3	0	0	0	3	0	3	2	3	2	1	3	4	2	1	3	5	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	81101549	G	T	81101549	2	4	440	1	0	0	0	0	0	0	0	1	10028	1219	43	4		4	MYF6	12	81101549	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	23510174	81101549	52750346	62	22656											
MYF6	4618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	81101620	81101620	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagggagtgatggtacctTgtccccctgccaggaccaaa	9	8	11	13	0	0	1	0	1	0	0	2	3	2	3	6	3	2	1	6	3	2	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	81101620	T	A	81101620	4	1	440	1	0	0	0	0	0	1	0	0	10028	1821	63	5	124	5	MYF6	12	81101620	Nonsense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	71	81101620	52750275	63	22657											
GNPTAB	79158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	102179968	102179968	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attggcaccttaatgcagtgTgttagcaaacactctaactg	12	12	8	9	0	1	0	0	0	1	0	1	0	1	0	1	1	4	4	1	1	4	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	102179968	T	C	102179968	2	2	440	1	0	0	0	0	0	0	0	1	6545	1683	59	3		3	GNPTAB	12	102179968	Silent	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	21078348	102179968	31671927	64	22658											
RIC8B	55188	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	107209026	107209026	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagacagactgtgccattGaggccctcaaagctctcttc	10	9	10	12	0	2	3	1	1	1	2	4	4	2	3	2	2	2	1	2	2	1	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	107209026	G	T	107209026	4	4	440	1	0	0	0	0	0	1	0	0	13358	1291	45	4	695	4	RIC8B	12	107209026	Nonsense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	5029058	107209026	26642869	65	22659											
PRDM4	11108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108145796	108145797	+	Frame_Shift_Ins	INS	-	-	C																															tgggatgaagactttgggcaINSccatgtgtgttcacagagcg																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	108145797	-	C	108145796	7	5	440	1	0	1	1	0	0	0	0	0	12461	146	6	0	1915	0	PRDM4	12	108145796	Frame_Shift_Ins	INS	-	TCGA-CZ-4853-01A-01D-1429-08	936770	108145796	25706099	66	22660											
HVCN1	84329	hgsc.bcm.edu;ucsc.edu	37	chr12	111089051	111089052	+	Frame_Shift_Ins	INS	-	-	T																															ccgggccacccgccacagccINSggagcagaatcagcaggccc																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	111089052	-	T	111089051	7	5	440	1	0	1	1	0	0	0	0	0	7462	652	23	0	219	0	HVCN1	12	111089051	Frame_Shift_Ins	INS	-	TCGA-CZ-4853-01A-01D-1429-08	2943255	111089051	22762844	67	22661	314	2									
HVCN1	84329	hgsc.bcm.edu	37	chr12	111089052	111089052	+	Silent	SNP	G	G	T																															ccgggccacccgccacagccGgagcagaatcagcaggccca																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	111089052	G	T	111089052	2	4	440	1	0	0	0	0	0	0	0	1	7462	1115	39	4		4	HVCN1	12	111089052	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	1	111089052	22762843	68	22662	314	2									
CCDC62	84660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123282648	123282648	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatttatgtaaaacaacAgagtgatctgcagtttctta	15	13	7	6	0	2	3	0	1	2	2	2	3	2	3	0	0	3	3	0	0	5	5	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	123282648	A	C	123282648	3	2	440	1	0	0	0	0	1	0	0	0	2833	188	7	5	908	5	CCDC62	12	123282648	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	12193596	123282648	10569247	69	22663											
FZD10	11211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130648663	130648663	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggcagcatggacgtcaaCgcgctcaccggcttcgtgct	6	8	14	13	5	2	0	2	0	0	0	3	1	2	1	1	3	3	5	1	3	1	1	rs145130520	alternate_allele	TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	130648663	C	A	130648663	3	1	440	1	0	0	0	0	1	0	0	0	6129	535	19	4	1178	4	FZD10	12	130648663	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	7366015	130648663	3203232	70	22664											
PABPC3	5042	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	25670549	25670549	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggagcatgctctggacacCatgaattttgatgttataaa	12	12	10	7	1	1	2	0	2	1	0	1	4	1	4	1	2	2	3	1	2	4	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	25670549	C	G	25670549	2	3	440	1	0	0	0	0	0	0	0	1	11365	581	21	4		4	PABPC3	13	25670549	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08		25670549	89499329	71	22665											
GPC5	2262	broad.mit.edu	37	chr13	92051340	92051340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgggctttcgctgcctcCtccttctggccctggttggg	0	13	13	15	2	1	0	0	0	1	0	4	0	3	0	5	4	1	3	5	4	0	3	rs183780526	by1000genomes	TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	92051340	T	T	92051340	3	4	440	1	0	0	0	0	1	0	0	0	6601	681	24	2	42	2	GPC5	13	92051340	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	66380791	92051340	23118538	72	22666											
TMTC4	84899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	101277820	101277820	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgtagtaacagtctgggTatttccttctgtgtttaatt	7	19	10	5	0	2	0	0	0	2	0	3	0	3	0	1	2	1	5	1	2	4	9	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	101277820	T	C	101277820	3	2	440	1	0	0	0	0	1	0	0	0	16262	1638	57	3	497	3	TMTC4	13	101277820	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	9226480	101277820	13892058	73	22667											
PRKD1	5587	broad.mit.edu;hgsc.bcm.edu	37	chr14	30132919	30132919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccataccagaaggggctcatCaggggcacttgtagagagtt	11	8	13	9	0	2	2	2	0	0	2	2	3	2	2	2	4	1	4	2	4	3	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	30132919	C	T	30132919	3	4	440	1	0	0	0	0	1	0	0	0	12520	826	29	2	2116	2	PRKD1	14	30132919	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08		30132919	77216621	74	22668											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64457262	64457262	+	Frame_Shift_Del	DEL	T	T	-																															aactgggcttcaggcaaagaTtcaagaagctaaagagaaag																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	64457262	T	-	64457262	7	5	440	1	0	1	0	1	0	0	0	0	15445	1493	52	0	2521	0	SYNE2	14	64457262	Frame_Shift_Del	DEL	T	TCGA-CZ-4853-01A-01D-1429-08	34324343	64457262	42892278	75	22669											
PLD4	122618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	105396381	105396381	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgcactccaaattctgggTtgtggatggacggcacatat	9	13	11	8	1	1	0	0	0	1	0	2	2	2	2	1	4	1	3	1	4	2	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	105396381	T	C	105396381	3	2	440	1	0	0	0	0	1	0	0	0	12048	1725	60	3	674	3	PLD4	14	105396381	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	40939119	105396381	1953159	76	22670											
RPUSD2	27079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40865743	40865743	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctggagaaggagtacgtGtgccgggtggaaggggagtt	9	8	20	4	2	0	1	0	0	0	1	0	5	0	4	1	6	3	3	1	6	4	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	40865743	G	T	40865743	2	4	440	1	0	0	0	0	0	0	0	1	13669	1364	48	4		4	RPUSD2	15	40865743	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		40865743	61665649	77	22671											
PIGB	9488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	55621962	55621962	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggttcacatggtattgctGtaccagaacccttacaaaca	12	11	7	11	0	1	1	1	0	0	1	1	1	1	1	2	2	5	4	2	2	5	5	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	55621962	G	A	55621962	3	1	440	1	0	0	0	0	1	0	0	0	11885	1377	48	2	581	2	PIGB	15	55621962	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	14756219	55621962	46909430	78	22672											
DYX1C1	161582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	55722880	55722880	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagtcattaagattttagTtctgttccttgaattacatt	12	19	5	5	0	2	2	1	1	1	1	3	2	3	2	1	0	1	2	1	0	6	9	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	55722880	T	A	55722880	3	1	440	1	0	0	0	0	1	0	0	0	4862	1722	60	5	118	5	DYX1C1	15	55722880	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	100918	55722880	46808512	79	22673											
FOXB1	27023	broad.mit.edu;hgsc.bcm.edu	37	chr15	60297463	60297463	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacatgttcgagaacggcAgcttcctgcggcgccgcaag	8	6	15	12	5	0	1	0	0	0	1	2	3	1	2	2	3	3	4	2	3	2	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	60297463	A	T	60297463	3	4	440	1	0	0	0	0	1	0	0	0	5992	188	7	5	303	5	FOXB1	15	60297463	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	4574583	60297463	42233929	80	22674											
VPS13C	54832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	62352506	62352506	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcttcagctgggacttgTtcaggttctccacatagtcc	7	12	9	13	0	3	0	2	0	1	0	5	1	4	1	3	2	2	4	3	2	1	5	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	62352506	T	C	62352506	3	2	440	1	0	0	0	0	1	0	0	0	17190	1725	60	3	11561	3	VPS13C	15	62352506	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	2055043	62352506	40178886	81	22675											
KIAA1199	57214	broad.mit.edu	37	chr15	81166242	81166242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgggagctgctgggaggcagGacttcctcttcaaggccatg	7	9	15	10	0	2	0	1	0	1	0	3	3	3	3	2	5	2	3	2	5	1	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	81166242	A	A	81166242	3	1	440	1	0	0	0	0	1	0	0	0	8213	1174	41	2	24	2	KIAA1199	15	81166242	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	18813736	81166242	21365150	82	22676											
C15orf26	161502	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81440807	81440807	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcgtcctccatgttggAtctgcccaaaccacccacag	8	9	7	17	1	1	0	0	0	1	0	4	1	3	1	6	1	3	1	6	1	1	1	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	81440807	A	T	81440807	3	4	440	1	0	0	0	0	1	0	0	0	1787	333	12	5	865	5	C15orf26	15	81440807	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	274565	81440807	21090585	83	22677											
BLM	641	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91295052	91295052	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaagaatttggaagaagctGaattacattcaactgagaaa	19	9	9	4	0	1	5	1	2	0	4	1	7	1	6	0	1	3	1	0	1	8	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	91295052	G	A	91295052	3	1	440	1	0	0	0	0	1	0	0	0	1445	1291	45	2	845	2	BLM	15	91295052	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	9854245	91295052	11236340	84	22678											
PCSK6	5046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	101938736	101938737	+	Frame_Shift_Del	DEL	TT	TT	-																															tgggtctgatgcccagcgacTttgcctcgaccacatctgtg																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	101938737	TT	-	101938736	7	5	440	1	0	1	0	1	0	0	0	0	11604	1609	56	0	2583	0	PCSK6	15	101938736	Frame_Shift_Del	DEL	TT	TCGA-CZ-4853-01A-01D-1429-08	10643684	101938736	592656	85	22679											
SOX8	30812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1034895	1034895	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggacgccttcgacgtccacGagttcgaccagtacctgccc	7	8	10	16	5	0	0	0	0	0	0	3	4	1	1	5	1	2	2	5	1	1	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	1034895	G	A	1034895	3	1	440	1	0	0	0	0	1	0	0	0	14959	1059	37	1	860	1	SOX8	16	1034895	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08		1034895	89319858	86	22680											
CCNF	899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2481270	2481270	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggctttctgtagaggacatCctggccgtccgagctgtaag	7	11	13	10	2	1	1	0	0	1	1	3	3	3	2	3	3	1	4	3	3	2	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	2481270	C	T	2481270	2	4	440	1	0	0	0	0	0	0	0	1	2922	845	30	2		2	CCNF	16	2481270	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	1446375	2481270	87873483	87	22681											
TNRC6A	27327	broad.mit.edu;ucsc.edu	37	chr16	24816069	24816069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaaaacatgcagtttatgtCcagtcaaagcatgaagcttc	14	10	7	10	0	1	1	1	1	0	0	3	1	2	1	2	0	4	4	2	0	5	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	24816069	T	T	24816069	3	4	440	1	0	0	0	0	1	0	0	0	16339	855	30	2	3931	2	TNRC6A	16	24816069	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	22334799	24816069	65538684	88	22682											
MVP	9961	broad.mit.edu;ucsc.edu	37	chr16	29858549	29858549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagagggtccagaaggtccGagagctggaactggtctatg	10	7	15	9	1	1	3	0	0	1	3	3	5	3	4	3	4	2	1	3	4	3	1	rs3815823	bycluster;byfrequency	TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	29858549	A	A	29858549	3	1	440	1	0	0	0	0	1	0	0	0	9996	1058	37	1	2347	1	MVP	16	29858549	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	5042480	29858549	60496204	89	22683											
ZFP90	146198	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68598080	68598080	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagactttagtcacattacaGactttactgaccatcagagg	14	11	7	9	0	2	4	2	1	0	3	2	4	2	4	1	1	2	0	1	1	4	5	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	68598080	G	A	68598080	3	1	440	1	0	0	0	0	1	0	0	0	17653	942	33	2	1404	2	ZFP90	16	68598080	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	38739531	68598080	21756673	90	22684											
HIC1	3090	broad.mit.edu;ucsc.edu	37	chr17	1961130	1961130	+	Frame_Shift_Del	DEL	G	-	-																															gactacaagagcagcagcgaGgagaccggtagcagcgagga																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	1961130	-	-	1961130	7	5	440	1	0	1	0	1	0	0	0	0	7101	991	35	0	1209	0	HIC1	17	1961130	Frame_Shift_Del	DEL	G	TCGA-CZ-4853-01A-01D-1429-08		1961130	79234080	91	22685											
SPAG7	9552	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4863167	4863167	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagggctcaccaccacAggcccctgctgggctgcctc	5	6	12	18	0	1	0	1	0	0	0	2	0	1	0	5	4	2	4	5	4	0	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	4863167	A	T	4863167	2	4	440	1	0	0	0	0	0	0	0	1	14985	175	7	5		5	SPAG7	17	4863167	Silent	SNP	A	TCGA-CZ-4853-01A-01D-1429-08	2902037	4863167	76332043	92	22686											
PIK3R6	146850	broad.mit.edu	37	chr17	8738616	8738616	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcctgtgcagagcgcctgCgtgacaggcctcccccagag	6	7	12	16	2	0	3	0	1	0	2	2	3	2	3	5	1	3	1	5	1	0	1	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	8738616	A	A	8738616	3	1	440	1	0	0	0	0	1	0	0	0	11923	768	27	4	1696	4	PIK3R6	17	8738616	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	3875449	8738616	72456594	93	22687											
CPD	1362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	28750570	28750570	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatatgcatggaaatgaagtGgttggaagagaactgctgtt	14	11	13	3	0	0	2	0	1	0	1	0	5	0	4	0	3	3	4	0	3	6	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	28750570	G	C	28750570	2	2	440	1	0	0	0	0	0	0	0	1	3798	1335	47	4		4	CPD	17	28750570	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	20011954	28750570	52444640	94	22688											
NF1	4763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29664584	29664584	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaacagtcacagaagcttTgttggagatcatggaggtat	13	10	13	5	0	2	2	2	0	0	2	2	5	2	4	0	4	2	3	0	4	3	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	29664584	T	C	29664584	3	2	440	1	0	0	0	0	1	0	0	0	10356	1821	63	3	6857	3	NF1	17	29664584	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	914014	29664584	51530626	95	22689											
KRTAP4-9	100132386	broad.mit.edu	37	chr17	39261882	39261882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggaccacctgctaccGccccagctgttgtgtgtcca	6	10	10	15	1	0	0	0	0	0	0	1	1	1	1	6	1	4	4	6	1	1	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	39261882	A	A	39261882	3	1	440	1	0	0	0	0	1	0	0	0	8557	1087	38	1	244	1	KRTAP4-9	17	39261882	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	9597298	39261882	41933328	96	22690											
BRCA1	672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41243622	41243622	+	Missense_Mutation	SNP	T	T	A																															aaggatcctgggtgtttgtaTttgcagtcaagtcttccaat																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	41243622	T	A	41243622	3	1	440	1	0	0	0	0	1	0	0	0	1498	1493	52	5	1791	5	BRCA1	17	41243622	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	1981740	41243622	39951588	97	22691	315	2									
BRCA1	672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41243623	41243623	+	Missense_Mutation	SNP	T	T	G																															aggatcctgggtgtttgtatTtgcagtcaagtcttccaatt																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	41243623	T	G	41243623	3	3	440	1	0	0	0	0	1	0	0	0	1498	1841	64	5	1792	5	BRCA1	17	41243623	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	1	41243623	39951587	98	22692	315	2									
SEPT4	5414	hgsc.bcm.edu;ucsc.edu	37	chr17	56604046	56604064	+	Frame_Shift_Del	DEL	AGAGGAATCATAGGGATCA	AGAGGAATCATAGGGATCA	-																															agggctggaggctctacctcAgaggaatcatagggatcaag																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	AGAGGAATCATAGGGATCA	AGAGGAATCATAGGGATCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	56604064	AGAGGAATCATAGGGATCA	-	56604046	7	5	440	1	0	1	0	1	0	0	0	0	14068	175	7	0	1211	0	SEPT4	17	56604046	Frame_Shift_Del	DEL	AGAGGAATCATAGGGATCA	TCGA-CZ-4853-01A-01D-1429-08	15360423	56604046	24591164	99	22693											
GNA13	10672	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	63049764	63049764	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcccgggtatcaaacgacatCatcttatctccatgttgttg	9	13	8	11	2	4	0	2	0	2	0	5	1	4	0	2	1	1	3	2	1	3	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	63049764	C	G	63049764	3	3	440	1	0	0	0	0	1	0	0	0	6501	826	29	4	779	4	GNA13	17	63049764	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	6445718	63049764	18145446	100	22694											
SETBP1	26040	broad.mit.edu	37	chr18	42281379	42281379	+	Missense_Mutation	SNP	C	G	G																															gtcagacttcctgccggtctCctcagccaagcccccagctg																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	42281379	G	G	42281379	3	3	440	1	0	0	0	0	1	0	0	0	14131	855	30	4	70	4	SETBP1	18	42281379	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08		42281379	35795869	101	22695	316	2									
SETBP1	26040	broad.mit.edu	37	chr18	42281380	42281380	+	Silent	SNP	C	G	G																															tcagacttcctgccggtctcCtcagccaagcccccagctgc																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	42281380	G	G	42281380	2	3	440	1	0	0	0	0	0	0	0	1	14131	668	24	4		4	SETBP1	18	42281380	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	1	42281380	35795868	102	22696	316	2									
C19orf44	84167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	16620643	16620643	+	Frame_Shift_Del	DEL	C	C	-																															aggagtctcttgacagaacaCtggacgctttgtctgaatcc																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	16620643	C	-	16620643	7	5	440	1	0	1	0	1	0	0	0	0	1927	564	20	0	1497	0	C19orf44	19	16620643	Frame_Shift_Del	DEL	C	TCGA-CZ-4853-01A-01D-1429-08		16620643	42508340	103	22697											
SYCN	342898	broad.mit.edu;hgsc.bcm.edu	37	chr19	39694580	39694580	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcgcgggtaggtgccGgcagagaacttgtgcgtctt	6	9	16	10	4	1	1	0	0	1	1	2	2	2	1	2	4	3	2	2	4	2	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	39694580	G	T	39694580	2	4	440	1	0	0	0	0	0	0	0	1	15429	1103	39	4		4	SYCN	19	39694580	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	23073937	39694580	19434403	104	22698											
MACROD2	140733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	16021897	16021897	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagtgaaggctccagtgAcctagaaaatactccaggtc	15	7	10	9	0	0	3	0	2	0	1	3	4	2	3	3	2	1	1	3	2	7	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	16021897	A	T	16021897	3	4	440	1	0	0	0	0	1	0	0	0	9146	275	10	5	1267	5	MACROD2	20	16021897	Missense_Mutation	SNP	A	TCGA-CZ-4853-01A-01D-1429-08		16021897	47003623	105	22699											
NKX2-2	4821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	21492858	21492858	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgtagcggtggttctggaaCcagatcttgacctgcgtggg	6	12	15	8	2	2	2	0	1	2	1	2	3	2	3	2	4	3	2	2	4	2	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		G	21492858	C	G	21492858	3	3	440	1	0	0	0	0	1	0	0	0	10450	508	18	4	300	4	NKX2-2	20	21492858	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	5470961	21492858	41532662	106	22700											
MYH7B	57644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33585398	33585398	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagtgagctgcgcatggaGgtggacgacctggctgccaa	10	6	16	9	2	0	2	0	1	0	1	0	5	0	4	2	4	3	3	2	4	2	0	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	33585398	G	C	33585398	3	2	440	1	0	0	0	0	1	0	0	0	10040	991	35	4	3946	4	MYH7B	20	33585398	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	12092540	33585398	29440122	107	22701											
PIGT	51604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44050027	44050027	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atatttctttacacagaggcCcccccagtgcccttcctgca	8	11	6	16	0	1	1	0	0	1	1	2	1	2	1	5	1	3	1	5	1	2	5	rs141166012	alternate_allele	TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	44050027	C	T	44050027	2	4	440	1	0	0	0	0	0	0	0	1	11899	610	22	2		2	PIGT	20	44050027	Silent	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	10464629	44050027	18975493	108	22702											
PCIF1	63935	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44575022	44575022	+	Frame_Shift_Del	DEL	G	G	-																															acggctactttggctcccgcGggtgagggccaagggctgcc																								novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		-	44575022	G	-	44575022	7	5	440	1	0	1	0	1	0	0	0	0	11580	1130	39	0	1658	0	PCIF1	20	44575022	Frame_Shift_Del	DEL	G	TCGA-CZ-4853-01A-01D-1429-08	524995	44575022	18450498	109	22703											
MKL1	57591	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40831553	40831553	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaaatgcggctggactttTcaaagctgttgagagaagaa	14	10	12	5	1	1	4	1	2	0	2	1	6	1	5	0	2	2	3	0	2	4	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	40831553	T	C	40831553	3	2	440	1	0	0	0	0	1	0	0	0	9601	1792	62	3	2826	3	MKL1	22	40831553	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08		40831553	10473013	110	22704											
C22orf9	0	broad.mit.edu;hgsc.bcm.edu	37	chr22	45601754	45601754	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctggcagcttcttggagtCccgccggtacacctccacct	5	9	10	17	2	1	0	0	0	1	0	3	1	3	1	6	3	2	3	6	3	1	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	45601754	C	A	45601754	3	1	440	1	0	0	0	0	1	0	0	0	2151	855	30	4	990	4	C22orf9	22	45601754	Missense_Mutation	SNP	C	TCGA-CZ-4853-01A-01D-1429-08	4770201	45601754	5702812	111	22705											
TLR8	51311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	12938126	12938126	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatcttgaattcaactatTtagtgggagaaatagcctct	12	14	9	6	0	3	2	1	1	2	1	3	4	3	3	1	2	2	0	1	2	6	6	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	12938126	T	A	12938126	3	1	440	1	0	0	0	0	1	0	0	0	15956	1838	64	5	973	5	TLR8	23	12938126	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08		12938126	142332434	112	22706											
SSX5	6758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48053635	48053635	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacccgtttattacgcatGaaaggtgggagggtggcctt	8	10	15	8	3	0	1	0	1	0	0	0	3	0	2	2	4	1	2	2	4	3	4	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		T	48053635	G	T	48053635	3	4	440	1	0	0	0	0	1	0	0	0	15209	1281	45	4	372	4	SSX5	23	48053635	Missense_Mutation	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	35115509	48053635	107216925	113	22707											
SHROOM4	57477	broad.mit.edu;hgsc.bcm.edu	37	chrX	50556986	50556986	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccccttgcagctgcacaggGacgtactggaaggacccagg	9	5	13	14	1	0	0	0	0	0	0	0	3	0	3	3	4	4	4	3	4	2	2	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		A	50556986	G	A	50556986	2	1	440	1	0	0	0	0	0	0	0	1	14298	1161	41	2		2	SHROOM4	23	50556986	Silent	SNP	G	TCGA-CZ-4853-01A-01D-1429-08	2503351	50556986	104713574	114	22708											
KIAA2022	340533	broad.mit.edu;hgsc.bcm.edu	37	chrX	73962314	73962314	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtcagggcctgtgatgTcatttaaatgtgatccattt	9	15	10	7	0	2	3	2	3	0	0	3	3	3	3	2	1	0	0	2	1	2	3	novel		TCGA-CZ-4853-01A-01D-1429-08	TCGA-CZ-4853-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	bdef62d1-a036-43b4-811b-bf4beab7eca8	32e7b838-5d52-4880-8d59-f19e54cd177f		C	73962314	T	C	73962314	3	2	440	1	0	0	0	0	1	0	0	0	8269	1667	58	3	2480	3	KIAA2022	23	73962314	Missense_Mutation	SNP	T	TCGA-CZ-4853-01A-01D-1429-08	23405328	73962314	81308246	115	22709											
PADI6	353238	hgsc.bcm.edu	37	chr1	17699723	17699723	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagcccttccgtggatgcgGataaggtaagcctcagggga	9	7	14	11	2	1	0	1	0	0	0	2	3	2	3	4	5	3	1	4	5	2	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	17699723	G	A	17699723	3	1	441	1	0	0	0	0	1	0	0	0	11381	1174	41	2	295	2	PADI6	1	17699723	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10		17699723	231550898	1	22710											
NBPF3	84224	hgsc.bcm.edu	37	chr1	21808099	21808099	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttttccaggctcagcagAgagctgccggaggtagtaga	10	9	13	9	1	1	2	1	0	0	2	2	4	2	3	2	3	4	5	2	3	3	5	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	21808099	A	G	21808099	2	3	441	1	0	0	0	0	0	0	0	1	10197	301	11	3		3	NBPF3	1	21808099	Silent	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	4108376	21808099	227442522	2	22711			1	36		2	2	30	A		7.96241e-05
NBPF3	84224	hgsc.bcm.edu	37	chr1	21808128	21808128	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtagtagagcctgaggActtgcaggactcactggata	11	8	15	7	0	1	2	1	1	0	1	1	6	1	6	1	5	2	3	1	5	3	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	21808128	A	T	21808128	3	4	441	1	0	0	0	0	1	0	0	0	10197	275	10	5	1518	5	NBPF3	1	21808128	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	29	21808128	227442493	3	22712			1	36		2	2	30	A		7.96241e-05
C1QA	712	hgsc.bcm.edu	37	chr1	22965443	22965443	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggccccctcggagcccGtggcatcccgggaattaaag	8	5	13	15	4	0	0	0	0	0	0	2	2	1	2	4	4	2	1	4	4	3	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	22965443	G	A	22965443	3	1	441	1	0	0	0	0	1	0	0	0	1954	1145	40	1	287	1	C1QA	1	22965443	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	1157315	22965443	226285178	4	22713											
IL22RA1	58985	hgsc.bcm.edu;ucsc.edu	37	chr1	24460780	24460780	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttccagggttagccggtggCcatcgcctgcacggattggc	5	9	14	13	3	0	0	0	0	0	0	2	1	1	1	4	5	2	2	4	5	1	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	24460780	C	A	24460780	3	1	441	1	0	0	0	0	1	0	0	0	7673	739	26	4	1288	4	IL22RA1	1	24460780	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	1495337	24460780	224789841	5	22714											
KIAA0907	22889	hgsc.bcm.edu	37	chr1	155887391	155887391	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagtgggggctggggctgggGctggggctgggggccagcag	3	5	26	7	0	0	0	0	0	0	0	0	1	0	0	1	10	1	5	1	10	0	0	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	155887391	G	C	155887391	3	2	441	1	0	0	0	0	1	0	0	0	8199	1203	42	4	521	4	KIAA0907	1	155887391	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	131426611	155887391	93363230	6	22715											
ITLN1	55600	hgsc.bcm.edu;ucsc.edu	37	chr1	160853223	160853223	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttcatcactcaccaaatGcactaggacattcgtctttg	10	14	6	11	1	4	0	3	0	1	0	5	1	4	1	1	1	1	2	1	1	2	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	160853223	G	T	160853223	3	4	441	1	0	0	0	0	1	0	0	0	7910	1319	46	4	813	4	ITLN1	1	160853223	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	4965832	160853223	88397398	7	22716											
GALNT2	2590	hgsc.bcm.edu;ucsc.edu	37	chr1	230338993	230338993	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaccaggtggagagtgatAagcttcgaatggacagagcc	13	7	13	8	1	1	3	1	1	0	2	2	6	1	4	2	3	3	1	2	3	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	230338993	A	T	230338993	4	4	441	1	0	0	0	0	0	1	0	0	6213	363	13	5	341	5	GALNT2	1	230338993	Nonsense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	69485770	230338993	18911628	8	22717											
SIPA1L2	57568	hgsc.bcm.edu	37	chr1	232581296	232581296	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgccatcgggcagcttcCggtcgaaggaggtgcttcga	6	9	15	11	5	0	0	0	0	0	0	5	3	1	1	2	4	3	3	2	4	1	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	232581296	C	T	232581296	3	4	441	1	0	0	0	0	1	0	0	0	14332	652	23	1	1888	1	SIPA1L2	1	232581296	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	2242303	232581296	16669325	9	22718											
CCDC74B	91409	hgsc.bcm.edu	37	chr2	130897218	130897218	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcggggtctgcttcagTgcgggcaggatggcacgctc	4	11	15	11	3	3	0	1	0	2	0	5	1	3	1	0	5	2	4	0	5	0	3	rs13006246	bycluster;byfrequency;by1000genomes	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	130897218	T	C	130897218	2	2	441	1	0	0	0	0	0	0	0	1	2848	1683	59	3		3	CCDC74B	2	130897218	Silent	SNP	T	TCGA-CZ-4854-01A-01D-1373-10		130897218	112302155	10	22719											
LRP2	4036	hgsc.bcm.edu;ucsc.edu	37	chr2	170029718	170029718	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aattctgtgaagttgtcacaGagatgggcagagctcactga	12	10	12	7	0	3	4	2	2	1	2	3	5	3	4	0	1	1	3	0	1	2	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	170029718	G	A	170029718	2	1	441	1	0	0	0	0	0	0	0	1	8956	929	33	2		2	LRP2	2	170029718	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	39132500	170029718	73169655	11	22720											
ORC2L	0	hgsc.bcm.edu	37	chr2	201814292	201814292	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catacctaatttagccatctTttcagagtgttttctattct	9	19	4	9	0	4	1	1	0	3	1	4	1	4	1	2	0	2	1	2	0	4	10	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	201814292	T	C	201814292	3	2	441	1	0	0	0	0	1	0	0	0	11262	1850	64	3	1476	3	ORC2L	2	201814292	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	31784574	201814292	41385081	12	22721											
NUP210	23225	hgsc.bcm.edu;ucsc.edu	37	chr3	13415333	13415333	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taactgtggcaaccaggtggCttgacgaagaccagctgaag	12	7	13	9	1	0	3	0	2	0	1	0	4	0	3	2	3	3	3	2	3	4	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	13415333	C	T	13415333	3	4	441	1	0	0	0	0	1	0	0	0	10760	797	28	2	4307	2	NUP210	3	13415333	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		13415333	184607097	13	22722											
CCDC36	339834	hgsc.bcm.edu;ucsc.edu	37	chr3	49293580	49293580	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccagagacaaggagagtTtatagaaatgaagtccaacc	16	7	9	9	0	0	4	0	1	0	3	2	6	2	4	4	1	1	1	4	1	6	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	49293580	T	C	49293580	3	2	441	1	0	0	0	0	1	0	0	0	2808	1841	64	3	676	3	CCDC36	3	49293580	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	35878247	49293580	148728850	14	22723											
PBRM1	55193	ucsc.edu	37	chr3	52620685	52620685	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcatctcggaagttttctGggcataacttaaagtattcc	10	14	7	10	1	3	0	1	0	2	0	5	1	4	1	2	2	1	3	2	2	5	6	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	52620685	G	A	52620685	3	1	441	1	0	0	0	0	1	0	0	0	11491	1348	47	2	1801	2	PBRM1	3	52620685	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	3327105	52620685	145401745	15	22724											
MUC13	56667	hgsc.bcm.edu;ucsc.edu	37	chr3	124632487	124632487	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaaccattgaggcagtcatCcgcagtctggttacagccat	11	10	9	11	1	2	1	1	1	1	0	3	1	3	1	3	2	3	3	3	2	3	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	124632487	C	A	124632487	3	1	441	1	0	0	0	0	1	0	0	0	9971	855	30	4	552	4	MUC13	3	124632487	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	72011802	124632487	73389943	16	22725											
SLC9A9	285195	hgsc.bcm.edu	37	chr3	142985575	142985575	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattgacccaaagtttgcTcaagcttgagttcatagcct	10	12	10	9	0	2	2	2	2	0	0	2	3	2	3	2	1	3	4	2	1	3	5	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	142985575	T	C	142985575	3	2	441	1	0	0	0	0	1	0	0	0	14723	1551	54	3	34	3	SLC9A9	3	142985575	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	18353088	142985575	55036855	17	22726											
DHX36	170506	hgsc.bcm.edu;ucsc.edu	37	chr3	154018902	154018902	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggatctgtgttcttttTgttctggaacatacctaaaa	10	16	8	7	0	3	0	0	0	3	0	3	2	3	2	1	2	2	2	1	2	4	6	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	154018902	T	C	154018902	3	2	441	1	0	0	0	0	1	0	0	0	4509	1812	63	3	1858	3	DHX36	3	154018902	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	11033327	154018902	44003528	18	22727											
IGF2BP2	10644	hgsc.bcm.edu;ucsc.edu	37	chr3	185376129	185376129	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactgagggggcacttacAgagtgatgatgcgggaacgg	11	7	17	6	2	0	5	0	4	0	1	0	6	0	6	0	4	4	1	0	4	3	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	185376129	A	C	185376129	2	2	441	1	0	0	0	0	0	0	0	1	7574	202	7	5		5	IGF2BP2	3	185376129	Silent	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	31357227	185376129	12646301	19	22728											
PPARGC1A	10891	hgsc.bcm.edu;ucsc.edu	37	chr4	23815962	23815962	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaatagtcatggtcacCaaacagccgcagactgggcc	11	6	11	13	1	2	1	2	0	0	1	2	1	2	1	3	3	2	2	3	3	3	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	23815962	C	T	23815962	3	4	441	1	0	0	0	0	1	0	0	0	12300	594	21	2	1276	2	PPARGC1A	4	23815962	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		23815962	167338314	20	22729											
SLC4A4	8671	hgsc.bcm.edu	37	chr4	72400063	72400063	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgattttcatggaccaacaAattacagctgtgattgtaaa	14	13	7	7	0	1	2	1	2	0	0	1	3	1	3	1	1	3	2	1	1	5	5	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	72400063	A	C	72400063	3	2	441	1	0	0	0	0	1	0	0	0	14658	11	1	5	2587	5	SLC4A4	4	72400063	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	48584101	72400063	118754213	21	22730											
MTRR	4552	hgsc.bcm.edu;ucsc.edu	37	chr5	7875376	7875376	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttgggttctctaggtctcGgtgattcagaatacacctac	9	14	9	9	1	3	2	1	1	2	1	5	2	3	2	1	3	2	1	1	3	4	6	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	7875376	G	T	7875376	3	4	441	1	0	0	0	0	1	0	0	0	9961	1116	39	4	384	4	MTRR	5	7875376	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10		7875376	173039884	22	22731											
MAP3K1	4214	hgsc.bcm.edu	37	chr5	56178606	56178606	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctttagcaattgccatGgcaatgtcagcgtctcagga	11	10	11	9	1	2	0	2	0	1	0	3	2	2	1	1	2	4	3	1	2	4	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	56178606	G	C	56178606	3	2	441	1	0	0	0	0	1	0	0	0	9243	1348	47	4	3633	4	MAP3K1	5	56178606	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	48303230	56178606	124736654	23	22732											
DPYSL3	1809	hgsc.bcm.edu;ucsc.edu	37	chr5	146780285	146780285	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagatgacagacatccgCtcctccacaccattggtgcc	9	8	7	17	1	0	3	0	1	0	2	4	3	4	3	6	1	1	1	6	1	0	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	146780285	C	A	146780285	3	1	441	1	0	0	0	0	1	0	0	0	4748	796	28	4	652	4	DPYSL3	5	146780285	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	90601679	146780285	34134975	24	22733											
F12	2161	hgsc.bcm.edu	37	chr5	176832137	176832137	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgctcagttctataccaTatctcattcttgtggaaaaa	11	15	6	9	0	4	0	2	0	3	0	5	1	4	1	1	1	2	3	1	1	5	7	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	176832137	T	C	176832137	3	2	441	1	0	0	0	0	1	0	0	0	5339	1396	49	3	1436	3	F12	5	176832137	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	30051852	176832137	4083123	25	22734											
ERVFRDE1	0	hgsc.bcm.edu	37	chr6	11105465	11105465	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggagcagttgctgagcttTttccaataacgggaaatcag	11	12	11	7	1	1	1	1	1	0	0	2	3	2	3	1	2	4	4	1	2	3	5	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	11105465	T	C	11105465	3	2	441	1	0	0	0	0	1	0	0	0	5246	1850	64	3	1541	3	ERVFRDE1	6	11105465	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10		11105465	160009602	26	22735											
MDC1	9656	hgsc.bcm.edu;ucsc.edu	37	chr6	30672175	30672175	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgtcctgcacctagtggcCcgagatgtgggctcaggggt	5	11	15	10	1	1	1	1	0	0	1	2	2	2	1	3	4	1	2	3	4	1	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	30672175	C	G	30672175	2	3	441	1	0	0	0	0	0	0	0	1	9403	610	22	4		4	MDC1	6	30672175	Silent	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	19566710	30672175	140442892	27	22736											
ITPR3	3710	hgsc.bcm.edu;ucsc.edu	37	chr6	33635679	33635679	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccgcaagctcctggaaaaGcacatcaccaagaccgaggt	15	4	9	13	2	1	1	1	0	0	1	2	3	2	2	4	2	3	3	4	2	5	0	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	33635679	G	T	33635679	3	4	441	1	0	0	0	0	1	0	0	0	7922	962	34	4	1886	4	ITPR3	6	33635679	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	2963504	33635679	137479388	28	22737											
RNF217	154214	hgsc.bcm.edu	37	chr6	125366368	125366368	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcatgcaggtacaacttggCcaagtagaaatcaaatgccc	15	8	8	10	0	2	1	2	0	0	1	2	1	2	1	2	2	4	3	2	2	6	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	125366368	C	G	125366368	2	3	441	1	0	0	0	0	0	0	0	1	13483	726	26	4		4	RNF217	6	125366368	Silent	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	91730689	125366368	45748699	29	22738											
AHR	196	hgsc.bcm.edu;ucsc.edu	37	chr7	17378783	17378783	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactctgctaccacatccaCtctaagcaaggactctctca	12	9	5	15	0	4	1	1	0	3	1	6	2	5	2	2	1	3	2	2	1	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	17378783	C	T	17378783	3	4	441	1	0	0	0	0	1	0	0	0	416	565	20	2	1372	2	AHR	7	17378783	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		17378783	141759880	30	22739											
POU6F2	11281	hgsc.bcm.edu;ucsc.edu	37	chr7	39472854	39472854	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcaacacccagggcatcaCgctgtcacccatcaagcccg	11	5	8	17	2	4	0	4	0	0	0	4	1	4	0	3	1	2	2	3	1	2	0	rs146637189	alternate_allele	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	39472854	C	T	39472854	3	4	441	1	0	0	0	0	1	0	0	0	12285	536	19	1	1231	1	POU6F2	7	39472854	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	22094071	39472854	119665809	31	22740											
BLK	640	hgsc.bcm.edu;ucsc.edu	37	chr8	11415475	11415475	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttctcttttcttaggatgCctgctggatttcctgaagac	7	16	8	10	0	2	2	0	1	2	1	4	4	3	4	2	2	2	1	2	2	2	5	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	11415475	C	T	11415475	2	4	441	1	0	0	0	0	0	0	0	1	1444	747	26	2		2	BLK	8	11415475	Silent	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		11415475	134948547	32	22741											
ARFGEF1	10565	hgsc.bcm.edu;ucsc.edu	37	chr8	68128844	68128844	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaatggcttttcacttacaGgagatggaggtgggggggca	9	9	16	7	0	1	1	1	0	0	1	1	3	1	2	1	7	1	2	1	7	2	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	68128844	G	C	68128844	3	2	441	1	0	0	0	0	1	0	0	0	852	1000	35	4	910	4	ARFGEF1	8	68128844	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	56713369	68128844	78235178	33	22742											
TMEM70	54968	hgsc.bcm.edu	37	chr8	74893388	74893388	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctctttttttcccatttAggtgtgaaatgtttctctta	6	22	5	8	0	3	1	0	1	3	0	6	1	4	1	1	1	0	1	1	1	3	7	rs183973249	by1000genomes	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	74893388	A	G	74893388	5	3	441	1	0	0	0	0	0	0	1	0	16198	434	15	3	333	3	TMEM70	8	74893388	Splice_Site	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	6764544	74893388	71470634	34	22743											
NAPRT1	93100	hgsc.bcm.edu	37	chr8	144658711	144658711	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctctcccagggccaGggcgactgctaggaagttgg	7	6	15	13	1	1	0	0	0	1	0	2	2	1	1	3	4	2	3	3	4	2	2	rs872935	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	144658711	G	A	144658711	2	1	441	1	0	0	0	0	0	0	0	1	10165	991	35	2		2	NAPRT1	8	144658711	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	69765323	144658711	1705311	35	22744											
RECQL4	9401	hgsc.bcm.edu;ucsc.edu	37	chr8	145740784	145740784	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggcacctcaggtacaGgttgtggtgaaggaaccagt	9	8	16	8	0	1	1	1	1	0	0	1	2	1	2	2	6	2	4	2	6	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	145740784	G	T	145740784	3	4	441	1	0	0	0	0	1	0	0	0	13204	1000	35	4	2371	4	RECQL4	8	145740784	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	1082073	145740784	623238	36	22745											
FKBP15	23307	hgsc.bcm.edu;ucsc.edu	37	chr9	115931605	115931605	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggggaccggtggagctagtGacatcatctttcttgagctg	7	12	14	8	1	3	2	1	2	2	0	3	4	3	4	1	4	2	2	1	4	1	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	115931605	G	A	115931605	2	1	441	1	0	0	0	0	0	0	0	1	5905	1277	45	2		2	FKBP15	9	115931605	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10		115931605	25281826	37	22746											
OR5B3	441608	hgsc.bcm.edu;ucsc.edu	37	chr11	58170027	58170027	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctcagactatagaccaGagggttcagcatggggatga	11	9	13	8	0	2	4	2	1	0	3	3	5	3	5	2	3	1	3	2	3	2	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	58170027	G	T	58170027	3	4	441	1	0	0	0	0	1	0	0	0	11152	933	33	4	90	4	OR5B3	11	58170027	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10		58170027	76836489	38	22747											
SLC22A20	440044	hgsc.bcm.edu;ucsc.edu	37	chr11	64985140	64985140	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaccttctctggcatcaTcctcaactccgtctccctgg	6	12	6	17	1	4	1	2	1	2	0	8	1	6	1	4	2	1	1	4	2	1	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	64985140	T	A	64985140	3	1	441	1	0	0	0	0	1	0	0	0	14453	1435	50	5	630	5	SLC22A20	11	64985140	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	6815113	64985140	70021376	39	22748											
KRTAP5-10	387273	hgsc.bcm.edu	37	chr11	71276827	71276827	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgttcctgctccagctgtgGctcctgtgggggctccaagg	3	11	14	13	0	0	0	0	0	0	0	4	0	4	0	4	4	2	5	4	4	1	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	71276827	G	T	71276827	3	4	441	1	0	0	0	0	1	0	0	0	8559	1203	42	4	196	4	KRTAP5-10	11	71276827	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	6291687	71276827	63729689	40	22749											
ARHGEF17	9828	hgsc.bcm.edu	37	chr11	73068089	73068089	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggcgatcggtggcaagaAggaccggtctctcttcctgt	8	9	14	10	3	2	1	0	0	2	1	5	4	3	2	2	5	0	1	2	5	3	1	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	73068089	A	T	73068089	3	4	441	1	0	0	0	0	1	0	0	0	900	72	3	5	3941	5	ARHGEF17	11	73068089	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	1791262	73068089	61938427	41	22750											
GDPD5	81544	hgsc.bcm.edu	37	chr11	75188686	75188686	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtggtatcatcatgggagCgctggtagcgcttccaacgg	7	10	15	9	3	2	0	2	0	0	0	3	1	3	1	1	4	3	4	1	4	3	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	75188686	C	T	75188686	3	4	441	1	0	0	0	0	1	0	0	0	6327	768	27	1	1782	1	GDPD5	11	75188686	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	2120597	75188686	59817830	42	22751											
EXPH5	23086	hgsc.bcm.edu	37	chr11	108385374	108385374	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgcttgtcctaggagaaAaggttttaaaaccttcccta	11	14	8	8	0	0	1	0	0	0	1	2	2	2	1	3	2	2	2	3	2	6	7	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	108385374	A	G	108385374	3	3	441	1	0	0	0	0	1	0	0	0	5322	14	1	3	5113	3	EXPH5	11	108385374	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	33196688	108385374	26621142	43	22752											
TRIM29	23650	hgsc.bcm.edu	37	chr11	119996570	119996570	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggggtggggggagagAgtaattgctcatcaatgcac	10	7	18	6	0	2	1	2	0	0	1	2	3	2	2	0	6	2	4	0	6	2	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	119996570	A	G	119996570	3	3	441	1	0	0	0	0	1	0	0	0	16502	304	11	3	628	3	TRIM29	11	119996570	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	11611196	119996570	15009946	44	22753											
HSPA8	3312	hgsc.bcm.edu	37	chr11	122928453	122928453	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggttggcttaatcaacctCttcaatggtgggccctgagg	7	13	12	9	0	3	1	2	1	1	0	3	1	3	1	2	5	1	2	2	5	3	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	122928453	C	T	122928453	3	4	441	1	0	0	0	0	1	0	0	0	7416	922	32	2	14	2	HSPA8	11	122928453	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	2931883	122928453	12078063	45	22754											
GRAMD1B	57476	hgsc.bcm.edu;ucsc.edu	37	chr11	123489493	123489493	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcactgcctggcagggtcTaaggctccaagaaaggtaat	11	8	11	11	0	2	1	1	0	1	1	3	1	3	1	3	4	1	3	3	4	4	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	123489493	T	A	123489493	3	1	441	1	0	0	0	0	1	0	0	0	6748	1522	53	5	2064	5	GRAMD1B	11	123489493	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	561040	123489493	11517023	46	22755											
SLC48A1	55652	hgsc.bcm.edu;ucsc.edu	37	chr12	48172917	48172917	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcgtgggcgtcctcttCtcggccgtctccatcgctgc	1	14	10	16	5	4	0	0	0	4	0	9	0	5	0	3	2	1	1	3	2	0	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	48172917	C	A	48172917	3	1	441	1	0	0	0	0	1	0	0	0	14651	912	32	4	249	4	SLC48A1	12	48172917	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		48172917	85678978	47	22756											
CNPY2	10330	hgsc.bcm.edu;ucsc.edu	37	chr12	56705186	56705186	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaggtgggcctctgagcGggcataaggcacctagaaat	10	8	15	8	1	1	3	0	2	1	1	1	3	1	3	2	4	1	2	2	4	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	56705186	G	A	56705186	3	1	441	1	0	0	0	0	1	0	0	0	3628	1116	39	1	343	1	CNPY2	12	56705186	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	8532269	56705186	77146709	48	22757											
DPY19L2	283417	hgsc.bcm.edu	37	chr12	64062052	64062052	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagtttcccgccgcctaggGccgacttttccatctcctcc	4	11	8	18	3	1	0	0	0	1	0	5	1	4	0	7	1	0	2	7	1	1	4	rs10878074	bycluster;byfrequency;by1000genomes	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	64062052	G	A	64062052	3	1	441	1	0	0	0	0	1	0	0	0	4741	1203	42	2	2242	2	DPY19L2	12	64062052	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	7356866	64062052	69789843	49	22758											
OAS2	4939	hgsc.bcm.edu;ucsc.edu	37	chr12	113448226	113448226	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctaggatccatcctattgtCaatgagatgttctcatccag	10	13	8	10	0	2	1	2	1	1	1	6	3	5	2	3	1	0	2	3	1	3	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	113448226	C	T	113448226	2	4	441	1	0	0	0	0	0	0	0	1	10800	813	29	2		2	OAS2	12	113448226	Silent	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	49386174	113448226	20403669	50	22759											
MPHOSPH8	54737	hgsc.bcm.edu	37	chr13	20220763	20220763	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctaaaagacaagtccaaaCcagacctggagagctccttg	15	6	9	11	0	0	3	0	0	0	3	2	4	2	3	4	1	3	2	4	1	4	2	rs72653464	byfrequency	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	20220763	C	A	20220763	3	1	441	1	0	0	0	0	1	0	0	0	9727	507	18	4	560	4	MPHOSPH8	13	20220763	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		20220763	94949115	51	22760											
PABPC3	5042	hgsc.bcm.edu;ucsc.edu	37	chr13	25670873	25670873	+	Silent	SNP	A	A	G																															tttaagtctcgtaaagaacgAgaagctgaacttggagctag																								rs77142265		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	25670873	A	G	25670873	2	3	441	1	0	0	0	0	0	0	0	1	11365	291	11	3		3	PABPC3	13	25670873	Silent	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	5450110	25670873	89499005	52	22761	317	2									
PABPC3	5042	hgsc.bcm.edu	37	chr13	25670877	25670877	+	Missense_Mutation	SNP	G	G	A																															agtctcgtaaagaacgagaaGctgaacttggagctagggca																								rs112107735		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	25670877	G	A	25670877	3	1	441	1	0	0	0	0	1	0	0	0	11365	971	34	2	543	2	PABPC3	13	25670877	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	4	25670877	89499001	53	22762	317	2									
THSD1	55901	hgsc.bcm.edu	37	chr13	52952681	52952681	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccatccgagaagctcccgCgctgctcgctcagctcgcag	6	6	10	19	5	1	1	1	0	0	1	5	2	3	1	4	0	3	6	4	0	1	0	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	52952681	C	A	52952681	3	1	441	1	0	0	0	0	1	0	0	0	15876	768	27	4	1138	4	THSD1	13	52952681	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	27281804	52952681	62217197	54	22763											
STON2	85439	hgsc.bcm.edu	37	chr14	81744471	81744471	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagttgcactgccaaagTgatcagggtcatcaatttgg	11	11	12	7	0	3	2	3	1	0	1	3	2	3	2	1	2	2	3	1	2	3	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	81744471	T	C	81744471	3	2	441	1	0	0	0	0	1	0	0	0	15319	1696	59	3	1539	3	STON2	14	81744471	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10		81744471	25605069	55	22764											
CHGA	1113	hgsc.bcm.edu	37	chr14	93397681	93397681	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagtggtgaagccacagacGgagccaggccccaggccctc	11	3	13	14	1	0	2	0	1	0	1	1	3	0	3	5	4	2	0	5	4	2	0	rs150244309	bycluster;by1000genomes	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	93397681	G	A	93397681	3	1	441	1	0	0	0	0	1	0	0	0	3338	1117	39	1	464	1	CHGA	14	93397681	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	11653210	93397681	13951859	56	22765											
CYFIP1	23191	hgsc.bcm.edu	37	chr15	22926030	22926030	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttgttactggcatcgcaAgatacattgaacaagccacc	13	10	7	11	1	0	2	0	1	0	1	1	2	0	2	2	1	4	3	2	1	5	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	22926030	A	G	22926030	3	3	441	1	0	0	0	0	1	0	0	0	4137	64	3	3	178	3	CYFIP1	15	22926030	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10		22926030	79605362	57	22766											
ISLR	3671	hgsc.bcm.edu	37	chr15	74467763	74467763	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ttcgactgcacctgcggcatCgtgtggctcaagacatgggc	7	9	13	12	3	1	1	1	0	0	1	3	2	1	1	1	3	2	3	1	3	1	1	rs138253214	alternate_allele	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	74467763	C	G	74467763	3	3	441	1	0	0	0	0	1	0	0	0	7858	874	31	4	566	4	ISLR	15	74467763	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	51541733	74467763	28063629	58	22767											
ACAN	176	hgsc.bcm.edu	37	chr15	89398733	89398733	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctctggagtaggagacCtcagtgggcttccttctgga	6	11	13	11	0	3	1	1	0	2	1	4	4	4	3	3	4	1	2	3	4	1	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	89398733	C	A	89398733	3	1	441	1	0	0	0	0	1	0	0	0	117	681	24	4	2959	4	ACAN	15	89398733	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	14930970	89398733	13132659	59	22768											
C16orf78	123970	hgsc.bcm.edu	37	chr16	49412406	49412406	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaagagattcaggaaggAcgccgcctcctaccgaagcc	13	4	12	12	3	1	1	1	0	0	1	2	6	2	4	5	3	2	0	5	3	4	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	49412406	A	G	49412406	3	3	441	1	0	0	0	0	1	0	0	0	1835	275	10	3	306	3	C16orf78	16	49412406	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10		49412406	40942347	60	22769											
CDH11	1009	hgsc.bcm.edu;ucsc.edu	37	chr16	65022084	65022084	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctttatcaccccctcCtgtgtttcatagtccgttgt	5	17	6	13	1	3	0	3	0	0	0	5	0	5	0	4	0	1	3	4	0	2	6	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	65022084	C	A	65022084	3	1	441	1	0	0	0	0	1	0	0	0	3097	680	24	4	1443	4	CDH11	16	65022084	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	15609678	65022084	25332669	61	22770											
TMCO7	0	hgsc.bcm.edu	37	chr16	68877598	68877598	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttggaggcattgaagctGctgctgagcccgggaggtga	8	10	16	7	1	0	3	0	3	0	0	0	5	0	5	1	4	4	4	1	4	1	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	68877598	G	T	68877598	2	4	441	1	0	0	0	0	0	0	0	1	16000	1306	46	4		4	TMCO7	16	68877598	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	3855514	68877598	21477155	62	22771											
KIAA1609	57707	hgsc.bcm.edu	37	chr16	84529460	84529460	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccctgtcaggtcgaccctCcgcatgccatcatacagcct	7	10	7	17	2	2	0	2	0	0	0	5	1	4	0	5	1	3	1	5	1	1	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	84529460	C	A	84529460	2	1	441	1	0	0	0	0	0	0	0	1	8247	842	30	4		4	KIAA1609	16	84529460	Silent	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	15651862	84529460	5825293	63	22772											
ANKFY1	51479	hgsc.bcm.edu	37	chr17	4083152	4083152	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cattggcgcctggttgtctgGgactgttcacgtcacagcca	6	11	12	12	2	3	0	2	0	1	0	3	1	3	1	2	3	1	2	2	3	0	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	4083152	G	T	4083152	3	4	441	1	0	0	0	0	1	0	0	0	626	1232	43	4	1284	4	ANKFY1	17	4083152	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10		4083152	77112058	64	22773											
ADORA2B	136	hgsc.bcm.edu	37	chr17	15878585	15878585	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattatctccaggtatcttCtctgccaagcagatgtcaag	12	12	7	10	0	4	1	1	0	3	1	6	1	4	1	2	1	2	2	2	1	5	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	15878585	C	A	15878585	3	1	441	1	0	0	0	0	1	0	0	0	328	913	32	4	934	4	ADORA2B	17	15878585	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	11795433	15878585	65316625	65	22774											
TNFAIP1	7126	hgsc.bcm.edu;ucsc.edu	37	chr17	26669383	26669383	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattggtgacgagatctgctGctggtccttttatggccagg	6	13	13	9	1	1	2	0	1	1	1	2	3	2	2	2	4	2	2	2	4	1	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	26669383	G	A	26669383	3	1	441	1	0	0	0	0	1	0	0	0	16271	1319	46	2	647	2	TNFAIP1	17	26669383	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	10790798	26669383	54525827	66	22775											
SUPT6H	6830	hgsc.bcm.edu;ucsc.edu	37	chr17	27011637	27011637	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctctacaattggttgagaGtggcaccctaccgaccagat	11	9	10	11	1	1	2	0	1	1	2	1	4	1	2	3	2	3	3	3	2	3	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	27011637	G	A	27011637	3	1	441	1	0	0	0	0	1	0	0	0	15399	1029	36	2	2329	2	SUPT6H	17	27011637	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	342254	27011637	54183573	67	22776											
CDH19	28513	hgsc.bcm.edu;ucsc.edu	37	chr18	64172144	64172144	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcatagctttcatcctgatCagagactgctgattctaagg	11	13	8	9	0	4	3	3	2	1	1	5	4	5	3	1	1	2	2	1	1	2	4	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	64172144	C	G	64172144	3	3	441	1	0	0	0	0	1	0	0	0	3104	826	29	4	98	4	CDH19	18	64172144	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		64172144	13905104	68	22777											
CNN2	1265	hgsc.bcm.edu	37	chr19	1036169	1036169	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcggggtggacattggcgTcaagtactcggagaagcagg	10	6	18	7	3	1	1	1	0	0	1	2	4	1	2	0	6	3	2	0	6	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	1036169	T	A	1036169	3	1	441	1	0	0	0	0	1	0	0	0	3610	1667	58	5	449	5	CNN2	19	1036169	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10		1036169	58092814	69	22778											
BTBD2	55643	hgsc.bcm.edu	37	chr19	1986502	1986502	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagcctaggtgtagaagatGacctcggggatctggccgtc	8	8	15	10	2	1	3	0	1	1	2	3	4	1	4	3	4	1	2	3	4	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	1986502	G	A	1986502	2	1	441	1	0	0	0	0	0	0	0	1	1543	1277	45	2		2	BTBD2	19	1986502	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	950333	1986502	57142481	70	22779											
JUNB	3726	hgsc.bcm.edu	37	chr19	12903618	12903618	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcttggggtcaagggaCacgccttctgaacgtcccct	6	10	12	13	2	2	1	1	1	1	0	3	2	3	2	3	3	3	2	3	3	2	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	12903618	C	G	12903618	3	3	441	1	0	0	0	0	1	0	0	0	7970	478	17	4	1035	4	JUNB	19	12903618	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	10917116	12903618	46225365	71	22780											
CCDC123	0	hgsc.bcm.edu	37	chr19	33444682	33444682	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatggcaaagaagatcttcTtcccatctcactctgccaat	11	11	7	12	0	4	2	1	0	4	2	6	3	5	3	2	2	1	1	2	2	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	33444682	T	A	33444682	4	1	441	1	0	0	0	0	0	1	0	0	2759	1617	56	5	2084	5	CCDC123	19	33444682	Nonsense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	20541064	33444682	25684301	72	22781											
CHST8	64377	hgsc.bcm.edu	37	chr19	34180263	34180263	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcttcatcagcctgcaGgaccctacggagctcgcccc	6	8	8	19	2	3	0	2	0	1	0	5	2	4	2	5	2	4	2	5	2	1	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	34180263	G	A	34180263	2	1	441	1	0	0	0	0	0	0	0	1	3410	991	35	2		2	CHST8	19	34180263	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	735581	34180263	24948720	73	22782											
ZNF30	90075	hgsc.bcm.edu	37	chr19	35435241	35435241	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggagagaaaccctatgaGtgtaaggaatgtggcaaggc	14	7	14	6	0	0	2	0	1	0	1	0	5	0	4	1	4	1	2	1	4	5	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	35435241	G	A	35435241	2	1	441	1	0	0	0	0	0	0	0	1	17829	1020	36	2		2	ZNF30	19	35435241	Silent	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	1254978	35435241	23693742	74	22783											
CD177	57126	hgsc.bcm.edu	37	chr19	43860255	43860255	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgactgagaactgcgataTgaaaggtgagtcctgcccct	11	10	11	9	1	0	4	0	4	0	1	1	6	1	4	3	1	3	0	3	1	4	2	rs12981771	bycluster	TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	43860255	T	G	43860255	3	3	441	1	0	0	0	0	1	0	0	0	2971	1464	51	5	632	5	CD177	19	43860255	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	8425014	43860255	15268728	75	22784											
SIGLEC8	27181	hgsc.bcm.edu;ucsc.edu	37	chr19	51955677	51955677	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttgtgattcctcaaacAggcctgagtctctgcagttt	7	13	12	9	0	2	2	1	2	1	0	4	2	3	2	2	3	2	3	2	3	1	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		C	51955677	A	C	51955677	3	2	441	1	0	0	0	0	1	0	0	0	14316	188	7	5	47	5	SIGLEC8	19	51955677	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	8095422	51955677	7173306	76	22785											
ZNF83	55769	hgsc.bcm.edu	37	chr19	53117118	53117118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgccacatttgttacattCgtaaggtttttctccagtat	8	18	6	9	1	1	0	0	0	1	0	3	0	1	0	2	1	2	4	2	1	3	8	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	53117118	C	T	53117118	3	4	441	1	0	0	0	0	1	0	0	0	18182	893	31	1	854	1	ZNF83	19	53117118	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	1161441	53117118	6011865	77	22786											
PABPC1L	80336	hgsc.bcm.edu;ucsc.edu	37	chr20	43559156	43559156	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtgtgtttttcctcccCagaagaggcgacaaaggccg	8	11	11	11	2	0	2	0	0	0	2	2	3	2	2	4	2	0	1	4	2	2	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	43559156	C	G	43559156	3	3	441	1	0	0	0	0	1	0	0	0	11364	594	21	4	1058	4	PABPC1L	20	43559156	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		43559156	19466364	78	22787											
ZBP1	81030	hgsc.bcm.edu	37	chr20	56195329	56195329	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtactgtaccttctctgcccGggtcagcaggagcctgggcc	5	9	13	14	1	2	0	1	0	1	0	3	1	2	1	4	3	5	3	4	3	2	3	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	56195329	G	T	56195329	3	4	441	1	0	0	0	0	1	0	0	0	17520	1116	39	4	1375	4	ZBP1	20	56195329	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	12636173	56195329	6830191	79	22788											
KIF4A	24137	hgsc.bcm.edu	37	chrX	69561758	69561758	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagctggtcagacagccCagatgttggagaggatcatt	11	8	14	8	0	2	3	2	0	0	3	2	5	2	4	1	4	2	3	1	4	0	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	69561758	C	A	69561758	3	1	441	1	0	0	0	0	1	0	0	0	8303	595	21	4	1281	4	KIF4A	23	69561758	Missense_Mutation	SNP	C	TCGA-CZ-4854-01A-01D-1373-10		69561758	85708802	80	22789											
TMEM31	203562	hgsc.bcm.edu	37	chrX	102968789	102968789	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagatcggactgcccatcAtactccacctcttcgcactc	11	9	5	16	2	2	1	1	0	1	1	6	2	3	2	3	1	2	1	3	1	3	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	102968789	A	T	102968789	3	4	441	1	0	0	0	0	1	0	0	0	16154	217	8	5	376	5	TMEM31	23	102968789	Missense_Mutation	SNP	A	TCGA-CZ-4854-01A-01D-1373-10	33407031	102968789	52301771	81	22790											
SLC25A5	292	hgsc.bcm.edu	37	chrX	118603864	118603864	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctactttgcagggaatctgGcatcgggtggtgccgcaggg	6	10	16	9	2	2	0	0	0	2	0	3	1	2	1	1	5	3	3	1	5	2	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	118603864	G	A	118603864	3	1	441	1	0	0	0	0	1	0	0	0	14514	1203	42	2	358	2	SLC25A5	23	118603864	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	15635075	118603864	36666696	82	22791											
SLC25A5	292	hgsc.bcm.edu	37	chrX	118604409	118604409	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactgtcactgctgttgcCgggttgacttcctatccatt	6	14	9	12	1	1	2	1	1	0	1	3	2	3	2	3	1	2	3	3	1	1	5	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	118604409	C	T	118604409	2	4	441	1	0	0	0	0	0	0	0	1	14514	639	23	1		1	SLC25A5	23	118604409	Silent	SNP	C	TCGA-CZ-4854-01A-01D-1373-10	545	118604409	36666151	83	22792											
CT47B1	643311	hgsc.bcm.edu	37	chrX	120008791	120008791	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgaggtcggttcctctgcgGccggttcctctgtggcctcc	1	12	13	15	3	2	1	0	1	2	0	6	1	5	1	5	5	1	2	5	5	0	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		T	120008791	G	T	120008791	3	4	441	1	0	0	0	0	1	0	0	0	3989	1203	42	4	173	4	CT47B1	23	120008791	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	1404382	120008791	35261769	84	22793											
CT47B1	643311	hgsc.bcm.edu;ucsc.edu	37	chrX	120009118	120009118	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggatgtggtcgttgtgaTagaggcggcggagaagggag	8	9	20	4	3	1	3	0	1	1	2	2	6	1	5	0	6	0	1	0	6	2	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		G	120009118	T	G	120009118	3	3	441	1	0	0	0	0	1	0	0	0	3989	1406	49	5	500	5	CT47B1	23	120009118	Missense_Mutation	SNP	T	TCGA-CZ-4854-01A-01D-1373-10	327	120009118	35261442	85	22794											
PLXNA3	55558	hgsc.bcm.edu	37	chrX	153692792	153692792	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctccaaggagacaggcGtgaggtttgccggtgctgac	7	10	14	10	2	1	3	0	2	1	1	3	4	2	3	2	4	2	2	2	4	1	2	novel		TCGA-CZ-4854-01A-01D-1373-10	TCGA-CZ-4854-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	7016e136-5c55-4ac9-b262-51529391aa79	09f66e4a-abaf-4331-ad1e-ed63263bb35e		A	153692792	G	A	153692792	3	1	441	1	0	0	0	0	1	0	0	0	12121	1145	40	1	1906	1	PLXNA3	23	153692792	Missense_Mutation	SNP	G	TCGA-CZ-4854-01A-01D-1373-10	33683674	153692792	1577768	86	22795											
KLHL17	339451	hgsc.bcm.edu;ucsc.edu	37	chr1	897301	897301	+	Silent	SNP	G	G	T																															ctcgacccctccaactgcctGggtatccggggctttgccga																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	897301	G	T	897301	2	4	442	1	0	0	0	0	0	0	0	1	8372	1335	47	4		4	KLHL17	1	897301	Silent	SNP	G	TCGA-CZ-4856-01A-02D-1429-08		897301	248353320	1	22796	318	2									
KLHL17	339451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	897302	897302	+	Missense_Mutation	SNP	G	G	T																															tcgacccctccaactgcctgGgtatccggggctttgccgat																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	897302	G	T	897302	3	4	442	1	0	0	0	0	1	0	0	0	8372	1232	43	4	600	4	KLHL17	1	897302	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	1	897302	248353319	2	22797	318	2									
CSMD2	114784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	34033301	34033301	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtacaccacactgccccGgtagctgtagttctccccat	7	11	8	15	1	1	0	0	0	1	0	2	0	1	0	5	2	3	5	5	2	3	5	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	34033301	G	A	34033301	3	1	442	1	0	0	0	0	1	0	0	0	3945	1115	39	1	2324	1	CSMD2	1	34033301	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	33135999	34033301	215217320	3	22798											
ZMYM4	9202	broad.mit.edu;hgsc.bcm.edu	37	chr1	35870746	35870746	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtaaatgcttggaagaactgGgttcagtggaaaaatgccaa	15	9	12	5	0	1	1	1	0	0	1	1	3	1	3	1	3	3	3	1	3	7	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	35870746	G	A	35870746	4	1	442	1	0	0	0	0	0	1	0	0	17701	1241	43	2	3745	2	ZMYM4	1	35870746	Nonsense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	1837445	35870746	213379875	4	22799											
EIF2C3	192669	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36509078	36509078	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcaatatcccagctggaAcaacagttgatacagacatt	14	9	9	9	0	0	2	0	1	0	1	1	3	1	3	1	2	4	3	1	2	5	4	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	36509078	A	G	36509078	3	3	442	1	0	0	0	0	1	0	0	0	5007	43	2	3	2269	3	EIF2C3	1	36509078	Missense_Mutation	SNP	A	TCGA-CZ-4856-01A-02D-1429-08	638332	36509078	212741543	5	22800											
KPRP	448834	hgsc.bcm.edu;ucsc.edu	37	chr1	152732937	152732937	+	Frame_Shift_Del	DEL	C	C	-																															ctaagaccctctgaaggtttCcctaactactgcaccccacc																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		-	152732937	C	-	152732937	7	5	442	1	0	1	0	1	0	0	0	0	8436	854	30	0	875	0	KPRP	1	152732937	Frame_Shift_Del	DEL	C	TCGA-CZ-4856-01A-02D-1429-08	116223859	152732937	96517684	6	22801											
CD1D	912	hgsc.bcm.edu;ucsc.edu	37	chr1	158151283	158151284	+	Frame_Shift_Ins	INS	-	-	G																															cctccgctgcctccagatctINScgtccttcgccaatagcagc																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	158151284	-	G	158151283	7	5	442	1	0	1	1	0	0	0	0	0	2977	1551	54	0	106	0	CD1D	1	158151283	Frame_Shift_Ins	INS	-	TCGA-CZ-4856-01A-02D-1429-08	5418346	158151283	91099338	7	22802											
PLA2G4A	5321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186839572	186839572	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattttatttccaggtggaGcaccagtattcccacaagtt	10	14	7	10	0	1	0	1	0	0	0	3	1	3	1	3	2	1	3	3	2	3	6	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	186839572	G	A	186839572	2	1	442	1	0	0	0	0	0	0	0	1	12001	962	34	2		2	PLA2G4A	1	186839572	Silent	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	28688289	186839572	62411049	8	22803											
NID1	4811	broad.mit.edu	37	chr1	236192916	236192916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagccgaacggaatctGcggcacgcggccctccagct	8	4	15	14	5	1	0	0	0	1	0	2	4	2	3	3	5	4	2	3	5	2	0	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	236192916	T	T	236192916	3	4	442	1	0	0	0	0	1	0	0	0	10414	1328	46	4	2127	4	NID1	1	236192916	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	49353344	236192916	13057705	9	22804											
MARCH7	64844	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160585646	160585646	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtttaaatgatacctatcActcaagagactcttcattta	14	15	4	8	0	4	2	3	1	1	1	4	3	4	2	1	0	1	1	1	0	7	8	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	160585646	A	G	160585646	3	3	442	1	0	0	0	0	1	0	0	0	9306	159	6	3	115	3	MARCH7	2	160585646	Missense_Mutation	SNP	A	TCGA-CZ-4856-01A-02D-1429-08		160585646	82613727	10	22805											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10188322	10188322	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaatatcacactgccaggTactgacgttttactttttaa	11	14	6	10	1	1	1	1	1	0	0	1	1	1	1	2	1	3	2	2	1	5	7	rs5030815	bycluster	TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		C	10188322	C	C	10188322	5	2	442	1	0	0	0	0	0	0	1	0	17161	1652	57	3	471	3	VHL	3	10188322	Splice_Site	SNP	T	TCGA-CZ-4856-01A-02D-1429-08		10188322	187834108	11	22806											
FGD5	152273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	14964587	14964587	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcgcggaacaagtaccCgctgaagtacctgaaggaca	12	7	11	11	3	0	2	0	2	0	0	1	4	0	4	2	2	3	4	2	2	6	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	14964587	C	T	14964587	3	4	442	1	0	0	0	0	1	0	0	0	5836	652	23	1	3904	1	FGD5	3	14964587	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	4776265	14964587	183057843	12	22807											
EPHA6	285220	broad.mit.edu	37	chr3	96706398	96706398	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaatctgttttatatggaAtcagatgagtcccacggaat	12	15	8	6	1	2	2	1	1	1	1	3	4	3	4	1	2	0	1	1	2	5	5	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	96706398	G	G	96706398	2	3	442	1	0	0	0	0	0	0	0	1	5171	98	4	3		3	EPHA6	3	96706398	Silent	SNP	A	TCGA-CZ-4856-01A-02D-1429-08	81741811	96706398	101316032	13	22808											
CLSTN2	64084	broad.mit.edu	37	chr3	140122558	140122558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggagagggccggctccGtgccaagagccccattgact	9	6	13	13	2	1	3	1	1	0	2	2	4	2	3	5	3	2	1	5	3	1	1	rs145666342		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	140122558	A	A	140122558	3	1	442	1	0	0	0	0	1	0	0	0	3562	1145	40	1	330	1	CLSTN2	3	140122558	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	43416160	140122558	57899872	14	22809											
FNDC3B	64778	broad.mit.edu	37	chr3	172096213	172096213	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcacaaccaaaagtgtcccCcccaccatcaaaggtgtgta	14	6	7	14	0	1	0	1	0	0	0	2	0	2	0	5	1	2	2	5	1	5	1	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	172096213	T	T	172096213	2	4	442	1	0	0	0	0	0	0	0	1	5970	610	22	2		2	FNDC3B	3	172096213	Silent	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	31973655	172096213	25926217	15	22810											
ACAP2	23527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	195009916	195009916	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctttcccttcttcatcaGtggcatgttgattggcacct	5	16	9	11	0	4	1	2	1	2	0	5	1	5	1	2	3	0	3	2	3	0	5	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	195009916	G	A	195009916	3	1	442	1	0	0	0	0	1	0	0	0	119	1029	36	2	240	2	ACAP2	3	195009916	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	22913703	195009916	3012514	16	22811											
PDE6B	5158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	654278	654278	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggagctgccagggcccaCcacatttgacatctacgaat	11	7	11	12	1	1	1	0	1	1	0	1	4	1	3	3	3	3	1	3	3	2	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	654278	C	G	654278	3	3	442	1	0	0	0	0	1	0	0	0	11646	507	18	4	1536	4	PDE6B	4	654278	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		654278	190499998	17	22812											
PRKG2	5593	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	82126123	82126123	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctctgtcaccttgttccGcagagcatcagtggtgaggt	7	11	12	11	1	3	2	2	1	1	1	4	2	4	2	2	2	2	4	2	2	0	2	rs187350442	by1000genomes	TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	82126123	G	A	82126123	3	1	442	1	0	0	0	0	1	0	0	0	12525	1086	38	1	2281	1	PRKG2	4	82126123	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	81471845	82126123	109028153	18	22813											
F11	2160	broad.mit.edu;hgsc.bcm.edu	37	chr4	187201213	187201213	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtggattgcccagtacacGcattaaaaagagcaaagctc	15	7	10	9	1	0	1	0	0	0	1	1	3	0	2	1	1	4	4	1	1	5	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	187201213	G	A	187201213	3	1	442	1	0	0	0	0	1	0	0	0	5337	1087	38	1	829	1	F11	4	187201213	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	105075090	187201213	3953063	19	22814											
FSTL4	23105	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	132736492	132736492	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccaggaggcaagcagcaCggtggagcttacagtggttt	9	9	14	9	1	0	0	0	0	0	0	1	2	1	2	1	5	4	5	1	5	2	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	132736492	C	T	132736492	3	4	442	1	0	0	0	0	1	0	0	0	6079	536	19	1	2233	1	FSTL4	5	132736492	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		132736492	48178768	20	22815											
PCDHGB3	56102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140750994	140750994	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagatgaaaatgacaatgccCcggagataaccctggcttct	13	8	9	11	1	1	4	0	2	1	2	1	5	1	4	3	2	2	1	3	2	4	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	140750994	C	T	140750994	3	4	442	1	0	0	0	0	1	0	0	0	11564	623	22	2	1035	2	PCDHGB3	5	140750994	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	8014502	140750994	40164266	21	22816											
ANXA6	309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150519791	150519791	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtcatggatggagcccCggtacttggcaccctgtgga	8	8	15	10	1	1	0	1	0	0	0	1	4	1	4	3	6	2	2	3	6	2	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	150519791	C	T	150519791	3	4	442	1	0	0	0	0	1	0	0	0	722	652	23	1	2085	1	ANXA6	5	150519791	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	9768797	150519791	30395469	22	22817											
HIVEP1	3096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	12120167	12120167	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacttcggaatcccttaaaGgtgtgaaacgcaaaaagatc	16	8	9	8	2	0	2	0	1	0	1	3	4	1	3	1	2	2	1	1	2	7	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	12120167	G	A	12120167	3	1	442	1	0	0	0	0	1	0	0	0	7186	1000	35	2	149	2	HIVEP1	6	12120167	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08		12120167	158994900	23	22818											
BRPF3	27154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	36185716	36185716	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaccaacggctttggaaaAcacaccgaaagcgggtctga	14	6	11	10	3	1	2	0	2	1	0	1	4	1	3	2	3	3	1	2	3	4	1	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	36185716	A	G	36185716	2	3	442	1	0	0	0	0	0	0	0	1	1521	40	2	3		3	BRPF3	6	36185716	Silent	SNP	A	TCGA-CZ-4856-01A-02D-1429-08	24065549	36185716	134929351	24	22819											
BMP5	653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	55620404	55620404	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattggagctgtcatcaaagTacagaacagagatggcattt	14	10	10	7	0	2	2	2	0	0	2	2	4	2	3	0	2	3	3	0	2	3	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	55620404	T	A	55620404	3	1	442	1	0	0	0	0	1	0	0	0	1463	1638	57	5	76	5	BMP5	6	55620404	Missense_Mutation	SNP	T	TCGA-CZ-4856-01A-02D-1429-08	19434688	55620404	115494663	25	22820											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56357198	56357198	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtccagctctattatctGctcacgatgagaatttactt	9	17	6	9	1	3	1	1	1	2	1	4	3	4	1	1	0	3	2	1	0	4	6	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	56357198	G	A	56357198	4	1	442	1	0	0	0	0	0	1	0	0	4783	1328	46	2	2876	2	DST	6	56357198	Nonsense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	736794	56357198	114757869	26	22821											
SLC17A5	26503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	74354149	74354149	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtttgattatgatgaactTttatgggagcagaatgctct	10	15	10	6	1	1	4	0	3	1	1	1	5	1	5	1	1	3	3	1	1	4	4	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	74354149	T	G	74354149	3	3	442	1	0	0	0	0	1	0	0	0	14422	1841	64	5	1255	5	SLC17A5	6	74354149	Missense_Mutation	SNP	T	TCGA-CZ-4856-01A-02D-1429-08	17996951	74354149	96760918	27	22822											
IRAK1BP1	134728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	79607842	79607842	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctcaagaagtctgtaacCttgttggccaaaccttagga	13	10	9	9	0	2	1	1	0	1	1	2	2	2	2	3	2	3	3	3	2	6	4	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	79607842	C	A	79607842	3	1	442	1	0	0	0	0	1	0	0	0	7822	681	24	4	588	4	IRAK1BP1	6	79607842	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	5253693	79607842	91507225	28	22823											
PODXL	5420	broad.mit.edu;hgsc.bcm.edu	37	chr7	131194125	131194125	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccctgctggagttaccCagttactctcatgagccaca	9	9	7	16	0	1	1	1	1	1	0	2	2	1	2	5	1	4	3	5	1	2	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	131194125	C	T	131194125	4	4	442	1	0	0	0	0	0	1	0	0	12180	608	21	2	678	2	PODXL	7	131194125	Nonsense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		131194125	27944538	29	22824											
EIF2C2	27161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141559213	141559213	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggagcgcccacacctacCgtacacgggcgtcttgccgg	6	5	14	16	6	1	0	0	0	1	0	1	1	1	1	4	3	4	1	4	3	2	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	141559213	C	T	141559213	3	4	442	1	0	0	0	0	1	0	0	0	5006	666	23	1	1023	1	EIF2C2	8	141559213	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		141559213	4804809	30	22825											
LY6E	4061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144103076	144103076	+	Missense_Mutation	SNP	G	G	C																															tgttggtgtggcttccatggGcatcagctgctgccagagct																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		C	144103076	G	C	144103076	3	2	442	1	0	0	0	0	1	0	0	0	9091	1203	42	4	276	4	LY6E	8	144103076	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	2543863	144103076	2260946	31	22826	319	2									
LY6E	4061	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	144103077	144103077	+	Silent	SNP	C	C	T																															gttggtgtggcttccatgggCatcagctgctgccagagctt																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	144103077	C	T	144103077	2	4	442	1	0	0	0	0	0	0	0	1	9091	697	25	2		2	LY6E	8	144103077	Silent	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	1	144103077	2260945	32	22827	319	2									
C9orf131	138724	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	35044086	35044086	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagtctctagtaatgggccCccagggagtcctgtctgaat	8	10	13	10	0	2	1	0	1	2	0	4	3	3	3	3	3	0	1	3	3	3	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	35044086	C	T	35044086	3	4	442	1	0	0	0	0	1	0	0	0	2457	623	22	2	1482	2	C9orf131	9	35044086	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		35044086	106169345	33	22828											
CCDC109A	0	hgsc.bcm.edu;ucsc.edu	37	chr10	74645575	74645578	+	Frame_Shift_Del	DEL	GATT	GATT	-																															tccgacaaattggtgaaaaaGattgatctgcaaaaagcctc																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	GATT	GATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		-	74645578	GATT	-	74645575	7	5	442	1	0	1	0	1	0	0	0	0	2744	942	33	0	1081	0	CCDC109A	10	74645575	Frame_Shift_Del	DEL	GATT	TCGA-CZ-4856-01A-02D-1429-08		74645575	60889172	34	22829											
PPP1R3C	5507	hgsc.bcm.edu;ucsc.edu	37	chr10	93389894	93389894	+	Frame_Shift_Del	DEL	G	G	-																															ctataattctgaccatcattGttgtcccaaaagacttgccc																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		-	93389894	G	-	93389894	7	5	442	1	0	1	0	1	0	0	0	0	12375	1368	48	0	213	0	PPP1R3C	10	93389894	Frame_Shift_Del	DEL	G	TCGA-CZ-4856-01A-02D-1429-08	18744319	93389894	42144853	35	22830											
OR5P2	120065	broad.mit.edu;hgsc.bcm.edu	37	chr11	7818120	7818120	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgaataaagcagtggacTgcaaattgccacaaagcggt	14	8	12	7	1	0	1	0	1	0	0	0	2	0	2	1	3	4	3	1	3	5	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	7818120	T	A	7818120	3	1	442	1	0	0	0	0	1	0	0	0	11178	1580	55	5	602	5	OR5P2	11	7818120	Missense_Mutation	SNP	T	TCGA-CZ-4856-01A-02D-1429-08		7818120	127188396	36	22831											
C11orf46	0	broad.mit.edu;hgsc.bcm.edu	37	chr11	30358133	30358133	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagtgataccagcaaagAgtaaggtctatgatagccag	16	7	11	7	0	1	3	0	2	1	1	1	4	1	3	2	1	3	2	2	1	6	4	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	30358133	A	T	30358133	3	4	442	1	0	0	0	0	1	0	0	0	1643	304	11	5	584	5	C11orf46	11	30358133	Missense_Mutation	SNP	A	TCGA-CZ-4856-01A-02D-1429-08	22540013	30358133	104648383	37	22832											
GPRC5A	9052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	13061472	13061472	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggagcacagggcccacaCgcttcttcctctttgggatc	7	9	11	14	2	2	0	0	0	2	0	4	2	3	2	2	3	1	2	2	3	0	3	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	13061472	C	G	13061472	3	3	442	1	0	0	0	0	1	0	0	0	6724	536	19	4	291	4	GPRC5A	12	13061472	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		13061472	120790423	38	22833											
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu	37	chr12	13717155	13717155	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaagggtgggttgtcaCagtcgtagagcccatcgatg	8	10	16	7	2	1	2	1	1	0	1	3	3	1	2	1	3	1	2	1	3	2	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		G	13717155	C	G	13717155	3	3	442	1	0	0	0	0	1	0	0	0	6780	478	17	4	1441	4	GRIN2B	12	13717155	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	655683	13717155	120134740	39	22834											
CEP290	80184	hgsc.bcm.edu;ucsc.edu	37	chr12	88471086	88471086	+	Frame_Shift_Del	DEL	A	A	-																															actttcctttggagttcttcAattagactttgtttattatc																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		-	88471086	A	-	88471086	7	5	442	1	0	1	0	1	0	0	0	0	3253	126	5	0	1873	0	CEP290	12	88471086	Frame_Shift_Del	DEL	A	TCGA-CZ-4856-01A-02D-1429-08	74753931	88471086	45380809	40	22835											
C14orf106	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45673409	45673409	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttccaataccagagttttctCctaagtctgtaaagagaagt	13	13	7	8	0	2	2	0	0	2	2	4	3	3	2	3	0	1	2	3	0	6	6	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	45673409	C	T	45673409	3	4	442	1	0	0	0	0	1	0	0	0	1738	855	30	2	100	2	C14orf106	14	45673409	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		45673409	61676131	41	22836											
MUDENG	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	57748924	57748924	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataattttgaattctgtgaaGcccatatacctttttacaat	13	17	4	7	0	1	2	0	2	1	0	1	2	1	2	2	0	3	0	2	0	7	9	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	57748924	G	A	57748924	3	1	442	1	0	0	0	0	1	0	0	0	9983	971	34	2	1080	2	MUDENG	14	57748924	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	12075515	57748924	49600616	42	22837											
WDR25	79446	hgsc.bcm.edu;ucsc.edu	37	chr14	100847481	100847481	+	Frame_Shift_Del	DEL	G	G	-																															atggctcctgtgaagacccaGggggctatcgccttccattg																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		-	100847481	G	-	100847481	7	5	442	1	0	1	0	1	0	0	0	0	17281	1000	35	0	222	0	WDR25	14	100847481	Frame_Shift_Del	DEL	G	TCGA-CZ-4856-01A-02D-1429-08	43098557	100847481	6502059	43	22838											
RPAP1	26015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	41822090	41822090	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgctgccgccggacagggGgcaagtcctgggtccagtgg	5	7	17	12	2	1	0	0	0	1	0	3	1	3	1	4	5	2	2	4	5	1	0	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	41822090	G	A	41822090	3	1	442	1	0	0	0	0	1	0	0	0	13543	1232	43	2	3222	2	RPAP1	15	41822090	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08		41822090	60709302	44	22839											
APH1B	83464	broad.mit.edu;hgsc.bcm.edu	37	chr15	63569840	63569840	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccatgactgcggccgtgttCttcggctgcgccttcattgc	3	12	12	14	4	2	1	1	1	1	0	3	1	2	1	3	2	3	2	3	2	0	4	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	63569840	C	T	63569840	2	4	442	1	0	0	0	0	0	0	0	1	772	912	32	2		2	APH1B	15	63569840	Silent	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	21747750	63569840	38961552	45	22840											
ATP2A1	487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	28909648	28909648	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaggaaaagatcatggCggtgatcaaggagtggggca	13	6	18	4	1	2	3	2	2	0	1	2	5	2	5	0	7	0	1	0	7	4	0	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	28909648	C	T	28909648	3	4	442	1	0	0	0	0	1	0	0	0	1136	768	27	1	1694	1	ATP2A1	16	28909648	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		28909648	61445105	46	22841											
RSPRY1	89970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57265168	57265168	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcaaatacccaccatctaTgaaatttagcacttttaatg	15	14	3	9	0	2	1	1	1	1	0	2	1	2	1	2	0	2	1	2	0	6	7	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		C	57265168	T	C	57265168	3	2	442	1	0	0	0	0	1	0	0	0	13715	1464	51	3	1512	3	RSPRY1	16	57265168	Missense_Mutation	SNP	T	TCGA-CZ-4856-01A-02D-1429-08	28355520	57265168	33089585	47	22842											
ZNF594	84622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	5086703	5086703	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgtgaattctctgatgtggGacaaggtgtgaactttgact	9	14	13	5	0	1	4	0	4	1	0	2	5	1	5	0	2	1	0	0	2	3	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	5086703	G	T	5086703	2	4	442	1	0	0	0	0	0	0	0	1	18023	1161	41	4		4	ZNF594	17	5086703	Silent	SNP	G	TCGA-CZ-4856-01A-02D-1429-08		5086703	76108507	48	22843											
SLC13A5	284111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	6594203	6594203	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcaaggtgatggctgccggGggcactgcgtgcaagggctc	7	7	17	10	2	1	1	1	1	0	0	2	1	1	1	1	5	3	4	1	5	2	0	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	6594203	G	A	6594203	2	1	442	1	0	0	0	0	0	0	0	1	14397	1219	43	2		2	SLC13A5	17	6594203	Silent	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	1507500	6594203	74601007	49	22844											
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu	37	chr17	11593688	11593688	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatctggtttgaagtgcagCgaacatggactcacctggaa	11	10	11	9	1	2	1	1	1	1	0	2	4	2	3	1	3	3	2	1	3	4	2	rs144649934		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	11593688	C	T	11593688	4	4	442	1	0	0	0	0	0	1	0	0	4608	760	27	1	4627	1	DNAH9	17	11593688	Nonsense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	4999485	11593688	69601522	50	22845											
POLDIP2	26073	broad.mit.edu	37	chr17	26681591	26681591	+	Frame_Shift_Del	DEL	A	-	-																															aggacgacacctcggtagccAaaaatgctatgaaggaaaag																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		-	26681591	-	-	26681591	7	5	442	1	0	1	0	1	0	0	0	0	12194	127	5	0	878	0	POLDIP2	17	26681591	Frame_Shift_Del	DEL	A	TCGA-CZ-4856-01A-02D-1429-08	15087903	26681591	54513619	51	22846											
AMAC1	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	33521121	33521121	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccagatgagcagctccagcGagggcaggttggaagcctgg	9	5	17	10	1	0	2	0	1	0	1	1	4	1	3	3	4	4	4	3	4	1	1	rs149963193	alternate_allele	TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	33521121	G	A	33521121	3	1	442	1	0	0	0	0	1	0	0	0	559	1059	37	1	814	1	AMAC1	17	33521121	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	6839530	33521121	47674089	52	22847											
SETBP1	26040	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	42618593	42618593	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccagtgttatctctccttGctgcatctgcagcaacgtcg	6	12	8	15	2	2	0	0	0	2	0	5	0	3	0	3	0	5	5	3	0	2	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	42618593	G	A	42618593	3	1	442	1	0	0	0	0	1	0	0	0	14131	1319	46	2	4351	2	SETBP1	18	42618593	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08		42618593	35458655	53	22848											
LYL1	4066	broad.mit.edu	37	chr19	13211728	13211728	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtggagagttgcagcagCgggggccgcagagtgcccag	8	4	20	9	2	0	2	0	0	0	2	0	3	0	2	2	4	4	4	2	4	0	1	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	13211728	T	T	13211728	2	4	442	1	0	0	0	0	0	0	0	1	9106	755	27	1		1	LYL1	19	13211728	Silent	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		13211728	45917255	54	22849											
CIC	23152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42797181	42797181	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccccccagaaagtgaaGgcagccatcgccagcattcc	12	4	10	15	1	0	2	0	1	0	1	2	2	1	2	6	2	2	2	6	2	3	1	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		C	42797181	G	C	42797181	3	2	442	1	0	0	0	0	1	0	0	0	3424	991	35	4	3601	4	CIC	19	42797181	Missense_Mutation	SNP	G	TCGA-CZ-4856-01A-02D-1429-08	29585453	42797181	16331802	55	22850											
ZNF749	388567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57954668	57954668	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcttacaggttgttggcAtggagccaaggatgaggagg	9	11	16	5	0	1	1	0	1	1	0	1	4	1	4	1	6	2	4	1	6	2	4	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		C	57954668	A	C	57954668	3	2	442	1	0	0	0	0	1	0	0	0	18130	217	8	5	162	5	ZNF749	19	57954668	Missense_Mutation	SNP	A	TCGA-CZ-4856-01A-02D-1429-08	15157487	57954668	1174315	56	22851											
PTPRT	11122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	40944543	40944543	+	Silent	SNP	C	C	A																															gaatcgaggctggaggcattCcgatagctcacgggcaccga																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	40944543	C	A	40944543	2	1	442	1	0	0	0	0	0	0	0	1	12814	842	30	4		4	PTPRT	20	40944543	Silent	SNP	C	TCGA-CZ-4856-01A-02D-1429-08		40944543	22080977	57	22852	320	2									
PTPRT	11122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	40944544	40944544	+	Missense_Mutation	SNP	C	C	A																															aatcgaggctggaggcattcCgatagctcacgggcaccgaa																								novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	40944544	C	A	40944544	3	1	442	1	0	0	0	0	1	0	0	0	12814	652	23	4	2508	4	PTPRT	20	40944544	Missense_Mutation	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	1	40944544	22080976	58	22853	320	2									
GGT5	2687	broad.mit.edu	37	chr22	24621029	24621029	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggatgggggctgcaaTggccgctctcaggtcaaagc	9	7	15	10	1	2	0	2	0	1	0	3	1	2	1	1	5	3	4	1	5	2	0	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		C	24621029	C	C	24621029	3	2	442	1	0	0	0	0	1	0	0	0	6362	1464	51	3	219	3	GGT5	22	24621029	Missense_Mutation	SNP	T	TCGA-CZ-4856-01A-02D-1429-08		24621029	26683537	59	22854											
ARMCX5	64860	broad.mit.edu	37	chrX	101858509	101858509	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgtcatcattggttgcAccctttaacaagaatgagtc	11	13	8	9	0	2	2	2	1	0	1	3	2	2	2	1	1	3	3	1	1	4	5	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		T	101858509	T	T	101858509	2	4	442	1	0	0	0	0	0	0	0	1	962	146	6	5		5	ARMCX5	23	101858509	Silent	SNP	A	TCGA-CZ-4856-01A-02D-1429-08		101858509	53412051	60	22855											
GPRASP2	114928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101971084	101971084	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgggctgaggaaaagtcCagtttgggggctgtggccag	8	9	17	7	0	0	1	0	1	0	0	1	2	1	2	2	5	1	3	2	5	3	2	novel		TCGA-CZ-4856-01A-02D-1429-08	TCGA-CZ-4856-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	85e26450-4cb1-4a91-ad86-a6d44890ee97	10b5b613-7abd-42dd-bb9d-a166c34e4222		A	101971084	C	A	101971084	2	1	442	1	0	0	0	0	0	0	0	1	6723	581	21	4		4	GPRASP2	23	101971084	Silent	SNP	C	TCGA-CZ-4856-01A-02D-1429-08	112575	101971084	53299476	61	22856											
UTS2	10911	hgsc.bcm.edu	37	chr1	7913400	7913400	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaattaaaggaaggcttggaTatgagttgaagtggccaaag	15	9	14	3	0	0	2	0	2	0	0	0	5	0	4	1	4	0	2	1	4	7	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	7913400	T	A	7913400	3	1	443	1	0	0	0	0	1	0	0	0	17103	1406	49	5	427	5	UTS2	1	7913400	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10		7913400	241337221	1	22857											
MTOR	2475	hgsc.bcm.edu;ucsc.edu	37	chr1	11189847	11189847	+	Missense_Mutation	SNP	A	A	G																															caaggagatggaacggaagaAgccctggacggcaggcaccg																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	11189847	A	G	11189847	3	3	443	1	0	0	0	0	1	0	0	0	9954	72	3	3	2063	3	MTOR	1	11189847	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	3276447	11189847	238060774	2	22858	321	2									
MTOR	2475	hgsc.bcm.edu;ucsc.edu	37	chr1	11189851	11189851	+	Silent	SNP	C	C	T																															gagatggaacggaagaagccCtggacggcaggcaccgtgta																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	11189851	C	T	11189851	2	4	443	1	0	0	0	0	0	0	0	1	9954	680	24	2		2	MTOR	1	11189851	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	4	11189851	238060770	3	22859	321	2									
ARID1A	8289	hgsc.bcm.edu;ucsc.edu	37	chr1	27106545	27106545	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggagtggtggtgggactgCttggagatgctccgggaaaa	8	9	19	5	1	0	1	0	0	0	1	1	5	1	4	1	6	2	2	1	6	2	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	27106545	C	A	27106545	4	1	443	1	0	0	0	0	0	1	0	0	913	805	28	4	6234	4	ARID1A	1	27106545	Nonsense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	15916694	27106545	222144076	4	22860											
LEPRE1	64175	hgsc.bcm.edu;ucsc.edu	37	chr1	43228105	43228105	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctcaggattgcccacgaaGaaggtgtgtgctgcagcaac	10	8	13	10	1	1	1	1	0	0	1	1	3	1	2	1	2	6	4	1	2	3	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	43228105	G	C	43228105	3	2	443	1	0	0	0	0	1	0	0	0	8729	933	33	4	1778	4	LEPRE1	1	43228105	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	16121560	43228105	206022516	5	22861											
ALG14	199857	hgsc.bcm.edu	37	chr1	95538433	95538433	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagctcctgcggccgcagCtagaacgagaacgcacacca	12	3	10	16	4	0	2	0	0	0	2	1	3	1	2	3	1	5	4	3	1	3	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	95538433	C	G	95538433	3	3	443	1	0	0	0	0	1	0	0	0	516	797	28	4	644	4	ALG14	1	95538433	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	52310328	95538433	153712188	6	22862											
CD101	9398	hgsc.bcm.edu	37	chr1	117560837	117560837	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtgatgttaaccaacaccTttgacctgtcctgtgtcgtg	9	13	9	10	1	0	2	0	2	0	0	2	2	1	2	4	0	2	1	4	0	3	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	117560837	T	C	117560837	3	2	443	1	0	0	0	0	1	0	0	0	2962	1609	56	3	1694	3	CD101	1	117560837	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	22022404	117560837	131689784	7	22863											
NOTCH2	4853	hgsc.bcm.edu;ucsc.edu	37	chr1	120478185	120478185	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gggctgattctggcactcatCcacttcatactcacagttga	9	12	8	12	0	4	2	3	2	1	0	5	2	5	2	1	2	1	3	1	2	1	4	rs185917176	by1000genomes;alternate_allele	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	120478185	C	G	120478185	3	3	443	1	0	0	0	0	1	0	0	0	10548	855	30	4	3902	4	NOTCH2	1	120478185	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	2917348	120478185	128772436	8	22864											
NES	10763	hgsc.bcm.edu	37	chr1	156642149	156642149	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaggcttaagttggcctaCagcctctttttctagaggtc	7	15	10	9	0	2	1	0	0	2	1	3	1	2	1	2	3	2	3	2	3	4	7	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	156642149	C	G	156642149	3	3	443	1	0	0	0	0	1	0	0	0	10337	478	17	4	3038	4	NES	1	156642149	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	36163964	156642149	92608472	9	22865											
KIAA1614	57710	hgsc.bcm.edu	37	chr1	180910302	180910302	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaaagctcttctcagccctgGgccagagttcccggcccaag	9	7	10	15	1	2	1	1	0	2	1	4	1	3	1	4	2	2	2	4	2	3	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	180910302	G	A	180910302	3	1	443	1	0	0	0	0	1	0	0	0	8248	1232	43	2	3066	2	KIAA1614	1	180910302	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	24268153	180910302	68340319	10	22866											
PTGS2	5743	hgsc.bcm.edu;ucsc.edu	37	chr1	186646828	186646828	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctcgcttatgatctgTcttgaaaaactgatgcgtga	9	13	10	9	2	2	4	0	4	2	0	3	4	2	4	1	1	2	1	1	1	3	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	186646828	T	C	186646828	3	2	443	1	0	0	0	0	1	0	0	0	12758	1667	58	3	1246	3	PTGS2	1	186646828	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	5736526	186646828	62603793	11	22867											
PIK3C2B	5287	hgsc.bcm.edu	37	chr1	204397328	204397328	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcccggggcagtgggtggaaGaaggtgtacaccaaatcaca	12	6	14	9	1	1	1	1	0	0	1	2	2	2	2	2	5	1	2	2	5	4	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	204397328	G	C	204397328	3	2	443	1	0	0	0	0	1	0	0	0	11910	933	33	4	501	4	PIK3C2B	1	204397328	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	17750500	204397328	44853293	12	22868											
PSEN2	5664	hgsc.bcm.edu;ucsc.edu	37	chr1	227076606	227076606	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctggaacttcggggcagtgGgcatggtgtgcatccactgg	6	10	16	9	1	1	0	0	0	1	0	3	1	2	1	1	6	2	3	1	6	1	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	227076606	G	A	227076606	3	1	443	1	0	0	0	0	1	0	0	0	12653	1232	43	2	661	2	PSEN2	1	227076606	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	22679278	227076606	22174015	13	22869											
EPC2	26122	hgsc.bcm.edu;ucsc.edu	37	chr2	149519487	149519487	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgcacttaaccttagaagTtgtggagaaaaggtaacatt	15	12	9	5	0	0	2	0	0	0	2	0	3	0	2	1	2	3	3	1	2	6	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	149519487	T	A	149519487	3	1	443	1	0	0	0	0	1	0	0	0	5161	1725	60	5	821	5	EPC2	2	149519487	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10		149519487	93679886	14	22870											
DPP4	1803	hgsc.bcm.edu;ucsc.edu	37	chr2	162865775	162865775	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaaattgcaattcgtttGttgtccacaaatcccatttt	10	15	4	12	1	0	0	0	0	0	0	3	0	2	0	4	0	1	3	4	0	3	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	162865775	G	A	162865775	2	1	443	1	0	0	0	0	0	0	0	1	4729	1368	48	2		2	DPP4	2	162865775	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	13346288	162865775	80333598	15	22871											
CPS1	1373	hgsc.bcm.edu;ucsc.edu	37	chr2	211541841	211541841	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgttgatagtggaatccCtctcctcactaattttcagg	9	14	8	10	0	3	1	2	1	1	0	5	2	4	2	2	2	1	2	2	2	3	5	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	211541841	C	G	211541841	3	3	443	1	0	0	0	0	1	0	0	0	3823	681	24	4	4553	4	CPS1	2	211541841	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	48676066	211541841	31657532	16	22872											
SERPINE2	5270	hgsc.bcm.edu;ucsc.edu	37	chr2	224862980	224862980	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcattcttaacaaacacGgcgttagccactgtcacaat	13	9	8	11	2	2	0	1	0	1	0	2	1	2	0	1	2	3	2	1	2	4	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	224862980	G	A	224862980	2	1	443	1	0	0	0	0	0	0	0	1	14114	1103	39	1		1	SERPINE2	2	224862980	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	13321139	224862980	18336393	17	22873											
HDLBP	3069	hgsc.bcm.edu;ucsc.edu	37	chr2	242179477	242179477	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgccgccccccttgcCgatgaggaatttgtggtatt	7	14	10	10	2	0	1	0	1	0	0	0	3	0	2	5	2	2	1	5	2	3	6	rs143103039		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	242179477	C	T	242179477	3	4	443	1	0	0	0	0	1	0	0	0	7025	652	23	1	1620	1	HDLBP	2	242179477	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	17316497	242179477	1019896	18	22874											
KIF15	56992	hgsc.bcm.edu;ucsc.edu	37	chr3	44816879	44816879	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctgcactccaaccctGagcccaagaccttcacgttt	8	9	7	17	2	1	2	1	1	0	1	3	2	3	2	5	1	3	3	5	1	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	44816879	G	T	44816879	4	4	443	1	0	0	0	0	0	1	0	0	8277	1291	45	4	206	4	KIF15	3	44816879	Nonsense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		44816879	153205551	19	22875											
PLXNB1	5364	hgsc.bcm.edu	37	chr3	48460339	48460339	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcacctggtgctgctggCaggtgacatggcactgggta	6	10	16	9	0	0	1	0	1	0	0	0	1	0	1	1	5	3	6	1	5	1	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	48460339	C	T	48460339	3	4	443	1	0	0	0	0	1	0	0	0	12123	710	25	2	3569	2	PLXNB1	3	48460339	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	3643460	48460339	149562091	20	22876											
TCTA	6988	hgsc.bcm.edu;ucsc.edu	37	chr3	49450062	49450062	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatacagtgaccgggttgtAtcaccgtccaggtgaggctt	9	10	13	9	2	1	2	1	2	0	0	2	3	2	2	3	3	1	3	3	3	3	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	49450062	A	C	49450062	3	2	443	1	0	0	0	0	1	0	0	0	15715	449	16	5	205	5	TCTA	3	49450062	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	989723	49450062	148572368	21	22877											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130289877	130289877	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggcacaaaactggaggtaAtttcagtgctccagaatgac	13	10	10	8	0	1	2	1	1	0	1	2	3	2	3	1	3	2	3	1	3	4	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	130289877	A	G	130289877	3	3	443	1	0	0	0	0	1	0	0	0	3703	101	4	3	2639	3	COL6A6	3	130289877	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	80839815	130289877	67732553	22	22878											
CCDC39	339829	hgsc.bcm.edu;ucsc.edu	37	chr3	180349355	180349355	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcttcagcttctcaatttTacttagccgctcgcgaaact	9	15	5	12	3	3	0	2	0	2	0	5	1	3	0	1	0	4	2	1	0	4	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	180349355	T	C	180349355	3	2	443	1	0	0	0	0	1	0	0	0	2811	1763	61	3	953	3	CCDC39	3	180349355	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	50059478	180349355	17673075	23	22879											
ATP13A4	84239	hgsc.bcm.edu	37	chr3	193174889	193174889	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaatgactgtcattctttgCagtgccgatgagaatgggaa	12	11	11	7	1	2	2	1	2	1	1	2	5	2	3	1	1	2	1	1	1	3	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	193174889	C	T	193174889	2	4	443	1	0	0	0	0	0	0	0	1	1126	697	25	2		2	ATP13A4	3	193174889	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	12825534	193174889	4847541	24	22880											
SRP72	6731	hgsc.bcm.edu	37	chr4	57335832	57335832	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctagtactacagatcaaCaaagatgacgtaactgccct	14	10	6	11	1	2	3	1	1	1	2	3	3	2	3	1	0	5	2	1	0	6	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	57335832	C	A	57335832	3	1	443	1	0	0	0	0	1	0	0	0	15158	477	17	4	129	4	SRP72	4	57335832	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10		57335832	133818444	25	22881											
SEC24D	9871	hgsc.bcm.edu;ucsc.edu	37	chr4	119736750	119736750	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaggaccattgagtgTggtgggtggtggtggaagaa	9	8	19	5	0	0	2	0	1	0	1	0	4	0	4	2	7	0	1	2	7	2	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	119736750	T	A	119736750	3	1	443	1	0	0	0	0	1	0	0	0	13999	1696	59	5	2645	5	SEC24D	4	119736750	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	62400918	119736750	71417526	26	22882											
PIK3R1	5295	hgsc.bcm.edu;ucsc.edu	37	chr5	67589208	67589208	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgacccattaaccttcaGttctgtggttgaattaataa	11	15	6	9	0	3	2	1	2	2	0	3	2	3	2	2	1	1	2	2	1	4	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	67589208	G	A	67589208	3	1	443	1	0	0	0	0	1	0	0	0	11918	1029	36	2	1360	2	PIK3R1	5	67589208	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		67589208	113326052	27	22883											
CAMK4	814	hgsc.bcm.edu;ucsc.edu	37	chr5	110712609	110712609	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagaaatcagtctggtcctaGaactcgtcacaggaggagaa	14	7	11	9	1	3	3	2	0	1	3	5	5	4	4	1	3	1	0	1	3	4	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	110712609	G	C	110712609	3	2	443	1	0	0	0	0	1	0	0	0	2605	943	33	4	369	4	CAMK4	5	110712609	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	43123401	110712609	70202651	28	22884											
COMMD10	51397	hgsc.bcm.edu;ucsc.edu	37	chr5	115469775	115469775	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttatagctagagaccgTtggatggcagcttaaccttc	9	14	9	9	1	1	1	0	0	1	1	2	3	1	2	2	2	3	4	2	2	4	7	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	115469775	T	A	115469775	3	1	443	1	0	0	0	0	1	0	0	0	3715	1725	60	5	428	5	COMMD10	5	115469775	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	4757166	115469775	65445485	29	22885											
GPX3	2878	hgsc.bcm.edu	37	chr5	150407659	150407659	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcctgtcctacatgaggCggcaggcagccctgggggtc	7	7	14	13	1	0	1	0	1	0	0	3	1	2	1	3	5	2	2	3	5	1	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	150407659	C	T	150407659	3	4	443	1	0	0	0	0	1	0	0	0	6741	759	27	1	667	1	GPX3	5	150407659	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	34937884	150407659	30507601	30	22886											
ADAM19	8728	hgsc.bcm.edu	37	chr5	156997963	156997963	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgataagttcatgctgcagCttggggctgccttcctcact	7	13	10	11	0	2	1	2	1	0	0	3	1	3	1	2	2	4	5	2	2	1	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	156997963	C	A	156997963	3	1	443	1	0	0	0	0	1	0	0	0	240	796	28	4	2724	4	ADAM19	5	156997963	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	6590304	156997963	23917297	31	22887											
HIST1H1C	3006	hgsc.bcm.edu;ucsc.edu	37	chr6	26056471	26056471	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcggcagccaacgcttttttCagagcagccagagaaactcc	11	7	10	13	2	1	2	1	0	0	2	2	3	2	2	3	1	5	3	3	1	2	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	26056471	C	T	26056471	2	4	443	1	0	0	0	0	0	0	0	1	7124	813	29	2		2	HIST1H1C	6	26056471	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10		26056471	145058596	32	22888											
AHI1	54806	hgsc.bcm.edu;ucsc.edu	37	chr6	135644325	135644325	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagccacatgattagctggAaaataaccttcctgtccctt	11	12	6	12	0	0	1	0	1	0	0	2	2	2	2	4	1	3	1	4	1	5	5	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	135644325	A	C	135644325	3	2	443	1	0	0	0	0	1	0	0	0	413	243	9	5	307	5	AHI1	6	135644325	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	109587854	135644325	35470742	33	22889											
SYNE1	23345	hgsc.bcm.edu;ucsc.edu	37	chr6	152639292	152639292	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcagttttcctatcttcTtggccagtggcttacccagt	6	15	8	12	0	3	0	1	0	2	0	4	0	4	0	3	2	1	2	3	2	2	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	152639292	T	G	152639292	3	3	443	1	0	0	0	0	1	0	0	0	15444	1609	56	5	10214	5	SYNE1	6	152639292	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	16994967	152639292	18475775	34	22890											
FBXO5	26271	hgsc.bcm.edu;ucsc.edu	37	chr6	153294238	153294238	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcccccttatcatcttctagGatcttcttccaagttgtgct	6	16	6	13	0	5	0	1	0	4	0	6	1	6	1	3	1	1	2	3	1	3	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	153294238	G	C	153294238	3	2	443	1	0	0	0	0	1	0	0	0	5758	1164	41	4	503	4	FBXO5	6	153294238	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	654946	153294238	17820829	35	22891											
DLL1	28514	hgsc.bcm.edu	37	chr6	170592784	170592784	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcagtgaggtccaccaccGctgggcccgggggcagctcg	5	6	15	15	3	1	1	1	1	1	0	4	1	2	1	4	4	1	3	4	4	0	0	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	170592784	G	T	170592784	3	4	443	1	0	0	0	0	1	0	0	0	4566	1087	38	4	600	4	DLL1	6	170592784	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	17298546	170592784	522283	36	22892											
EIF4H	7458	hgsc.bcm.edu	37	chr7	73604047	73604047	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggattcccttaaggaaGccttgacatacgatggtgca	12	10	11	8	1	0	1	0	1	0	0	1	4	1	3	2	3	3	1	2	3	4	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	73604047	G	C	73604047	3	2	443	1	0	0	0	0	1	0	0	0	5039	971	34	4	302	4	EIF4H	7	73604047	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		73604047	85534616	37	22893											
SAMD9	54809	hgsc.bcm.edu;ucsc.edu	37	chr7	92735216	92735216	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatagttcttctatttgAatagctggtccatgtgtgat	9	18	9	5	0	2	3	0	3	2	0	3	3	3	3	1	1	1	2	1	1	5	7	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	92735216	A	C	92735216	3	2	443	1	0	0	0	0	1	0	0	0	13828	242	9	5	4578	5	SAMD9	7	92735216	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	19131169	92735216	66403447	38	22894											
SMO	6608	hgsc.bcm.edu	37	chr7	128848598	128848598	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggtcccccttctgttcAggagtcatgactctgttctc	5	14	9	13	0	5	2	2	2	3	0	7	3	6	3	2	2	0	2	2	2	0	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	128848598	A	T	128848598	5	4	443	1	0	0	0	0	0	0	1	0	14802	202	7	5	1289	5	SMO	7	128848598	Splice_Site	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	36113382	128848598	30290065	39	22895											
SSPO	23145	hgsc.bcm.edu	37	chr7	149512019	149512019	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccttgccaggaaaattcCacccagtgcacaggtcaggc	10	6	10	15	1	1	0	1	0	0	0	2	1	2	1	4	3	2	1	4	3	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	149512019	C	G	149512019	2	3	443	1	0	0	0	0	0	0	0	1	15190	581	21	4		4	SSPO	7	149512019	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	20663421	149512019	9626644	40	22896											
MLL3	58508	hgsc.bcm.edu;ucsc.edu	37	chr7	151848093	151848093	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgctttctcgggaatcCtgaaaagcaaagagaaatgt	13	11	11	6	1	1	2	0	1	1	1	3	4	2	3	1	2	2	2	1	2	5	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	151848093	C	G	151848093	5	3	443	1	0	0	0	0	0	0	1	0	9622	695	24	4	2105	4	MLL3	7	151848093	Splice_Site	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	2336074	151848093	7290570	41	22897											
VPS13B	157680	hgsc.bcm.edu	37	chr8	100832149	100832149	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggatgtggtttttggaacagGaatgaacagctaagtcagtg	12	11	14	4	0	1	1	1	1	0	0	1	4	1	4	0	4	3	2	0	4	4	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	100832149	G	A	100832149	2	1	443	1	0	0	0	0	0	0	0	1	17189	1188	41	2		2	VPS13B	8	100832149	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		100832149	45531873	42	22898											
SPTAN1	6709	hgsc.bcm.edu;ucsc.edu	37	chr9	131374049	131374049	+	Silent	SNP	G	G	A																															ctgcatgccaacgctgaccgGatccgtggggttatcgacat																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	131374049	G	A	131374049	2	1	443	1	0	0	0	0	0	0	0	1	15118	1161	41	2		2	SPTAN1	9	131374049	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		131374049	9839382	43	22899	322	2									
SPTAN1	6709	hgsc.bcm.edu;ucsc.edu	37	chr9	131374053	131374053	+	Missense_Mutation	SNP	C	C	G																															atgccaacgctgaccggatcCgtggggttatcgacatgggc																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	131374053	C	G	131374053	3	3	443	1	0	0	0	0	1	0	0	0	15118	652	23	4	4980	4	SPTAN1	9	131374053	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	4	131374053	9839378	44	22900	322	2									
VAV2	7410	hgsc.bcm.edu	37	chr9	136633699	136633699	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tacctggccacagctgtgccGatgacgcggggcgtgaacac	8	6	14	13	4	0	2	0	2	0	0	0	3	0	2	3	3	4	1	3	3	2	1	rs61751477	bycluster;byfrequency;by1000genomes	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	136633699	G	C	136633699	3	2	443	1	0	0	0	0	1	0	0	0	17131	1048	37	4	190	4	VAV2	9	136633699	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	5259646	136633699	4579732	45	22901											
TACR2	6865	hgsc.bcm.edu;ucsc.edu	37	chr10	71166860	71166860	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggttgagacagcagtaGatgatgggattgtacatggt	10	12	15	4	0	0	3	0	2	0	2	0	5	0	4	0	3	2	4	0	3	2	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	71166860	G	T	71166860	2	4	443	1	0	0	0	0	0	0	0	1	15505	932	33	4		4	TACR2	10	71166860	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		71166860	64367887	46	22902											
GRID1	2894	hgsc.bcm.edu;ucsc.edu	37	chr10	87379671	87379671	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccatgctgcagggcaatCccgtaacccttgctgctgat	7	10	10	14	1	0	1	0	1	0	0	1	1	1	1	3	1	6	6	3	1	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	87379671	C	A	87379671	2	1	443	1	0	0	0	0	0	0	0	1	6771	842	30	4		4	GRID1	10	87379671	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	16212811	87379671	48155076	47	22903											
COL17A1	1308	hgsc.bcm.edu;ucsc.edu	37	chr10	105815754	105815755	+	Frame_Shift_Del	DEL	CT	CT	-																															cgcgccttcagcttcctcacCtcctccgctgcaacaaacag																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		-	105815755	CT	-	105815754	7	5	443	1	0	1	0	1	0	0	0	0	3674	680	24	0	3176	0	COL17A1	10	105815754	Frame_Shift_Del	DEL	CT	TCGA-CZ-4857-01A-01D-1373-10	18436083	105815754	29718993	48	22904											
SLC17A6	57084	hgsc.bcm.edu;ucsc.edu	37	chr11	22381043	22381043	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgcattatggatgtgtcatCtttgtcagaatactgcaggg	9	14	12	6	0	3	1	2	0	1	1	3	2	3	2	0	2	3	2	0	2	3	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	22381043	C	G	22381043	3	3	443	1	0	0	0	0	1	0	0	0	14423	903	32	4	557	4	SLC17A6	11	22381043	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10		22381043	112625473	49	22905											
RCOR2	283248	hgsc.bcm.edu	37	chr11	63681731	63681731	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggctctgggagctcAcctctctcttgggatctgca	6	10	11	14	0	5	1	1	0	4	1	6	3	5	3	2	3	2	3	2	3	0	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	63681731	A	T	63681731	5	4	443	1	0	0	0	0	0	0	1	0	13185	173	6	5	918	5	RCOR2	11	63681731	Splice_Site	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	41300688	63681731	71324785	50	22906											
GPR137	56834	hgsc.bcm.edu;ucsc.edu	37	chr11	64054436	64054436	+	Splice_Site	SNP	G	G	C																															gaagggcatctctgctcctaGgtggtgttcaaggccaaggt																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	64054436	G	C	64054436	5	2	443	1	0	0	0	0	0	0	1	0	6645	1014	35	4	545	4	GPR137	11	64054436	Splice_Site	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	372705	64054436	70952080	51	22907	323	2									
GPR137	56834	hgsc.bcm.edu;ucsc.edu	37	chr11	64054443	64054443	+	Missense_Mutation	SNP	T	T	G																															atctctgctcctaggtggtgTtcaaggccaaggtgaagcgt																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	64054443	T	G	64054443	3	3	443	1	0	0	0	0	1	0	0	0	6645	1725	60	5	552	5	GPR137	11	64054443	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	7	64054443	70952073	52	22908	323	2									
CHORDC1	26973	hgsc.bcm.edu	37	chr11	89956063	89956063	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgttcctcttaccgtcGgaattggtctcaggatcgaa	7	11	12	11	5	2	0	1	0	2	0	6	3	3	2	2	4	1	1	2	4	3	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	89956063	G	A	89956063	2	1	443	1	0	0	0	0	0	0	0	1	3365	1103	39	1		1	CHORDC1	11	89956063	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	25901620	89956063	45050453	53	22909											
OR8B12	219858	hgsc.bcm.edu;ucsc.edu	37	chr11	124412848	124412848	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcaagtactaaaggcttTggacctgccttctgtagaac	11	11	9	10	0	1	1	0	0	1	1	1	2	1	2	2	2	4	4	2	2	6	5	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	124412848	T	G	124412848	3	3	443	1	0	0	0	0	1	0	0	0	11226	1821	63	5	231	5	OR8B12	11	124412848	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	34456785	124412848	10593668	54	22910											
CLSTN3	9746	hgsc.bcm.edu;ucsc.edu	37	chr12	7288128	7288128	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccctttcctcattgacaatGacggtgagtccacccctggc	7	10	8	16	1	1	3	1	3	0	0	3	3	3	3	6	2	0	0	6	2	1	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	7288128	G	A	7288128	3	1	443	1	0	0	0	0	1	0	0	0	3563	1290	45	2	603	2	CLSTN3	12	7288128	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		7288128	126563767	55	22911											
TMEM117	84216	hgsc.bcm.edu;ucsc.edu	37	chr12	44782260	44782260	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagacatgggaatcactcgAgaaaacacccaggcttcagt	16	6	9	10	1	2	2	2	0	0	2	3	4	2	3	1	2	1	1	1	2	4	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	44782260	A	G	44782260	2	3	443	1	0	0	0	0	0	0	0	1	16030	291	11	3		3	TMEM117	12	44782260	Silent	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	37494132	44782260	89069635	56	22912											
KRT73	319101	hgsc.bcm.edu;ucsc.edu	37	chr12	53009994	53009994	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcgcacgctcctcagctcCgagtccagcctcaccctgtc	5	8	8	20	4	2	0	2	0	0	0	7	1	5	0	5	0	2	3	5	0	0	0	rs139888404		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	53009994	C	T	53009994	2	4	443	1	0	0	0	0	0	0	0	1	8486	639	23	1		1	KRT73	12	53009994	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	8227734	53009994	80841901	57	22913											
PCBP2	5094	hgsc.bcm.edu;ucsc.edu	37	chr12	53865471	53865471	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaaaatcaatgagatccGtcagatgtctggggcgcaga	12	7	12	10	3	3	3	2	1	1	3	4	4	4	3	2	2	0	1	2	2	3	0	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	53865471	G	A	53865471	3	1	443	1	0	0	0	0	1	0	0	0	11501	1145	40	1	994	1	PCBP2	12	53865471	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	855477	53865471	79986424	58	22914											
TPH2	121278	hgsc.bcm.edu;ucsc.edu	37	chr12	72425132	72425132	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccttccaggaagcctactTtgtttcagaaagttttgaag	11	13	8	9	0	1	2	1	1	0	1	2	3	2	3	3	1	2	2	3	1	4	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	72425132	T	G	72425132	3	3	443	1	0	0	0	0	1	0	0	0	16401	1841	64	5	1297	5	TPH2	12	72425132	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	18559661	72425132	61426763	59	22915											
ARL1	400	hgsc.bcm.edu;ucsc.edu	37	chr12	101790252	101790252	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccattttcggtccttcaagGcaggtaacccaagtgaattt	10	12	9	10	1	1	1	1	1	0	0	3	1	2	1	3	3	1	2	3	3	4	5	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	101790252	G	C	101790252	3	2	443	1	0	0	0	0	1	0	0	0	925	1203	42	4	113	4	ARL1	12	101790252	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	29365120	101790252	32061643	60	22916											
EP400	57634	hgsc.bcm.edu	37	chr12	132505639	132505639	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagcagcagcagccccgtTtcagacctctcaggcttccg	7	8	10	16	2	2	1	2	0	1	1	4	1	3	1	4	1	5	6	4	1	0	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	132505639	T	C	132505639	3	2	443	1	0	0	0	0	1	0	0	0	5149	1841	64	3	4546	3	EP400	12	132505639	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	30715387	132505639	1346256	61	22917											
ZNF268	10795	hgsc.bcm.edu;ucsc.edu	37	chr12	133779908	133779908	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaatcacagctcattataCatcagaggattcatacagga	16	11	6	8	0	4	1	4	0	0	1	4	3	4	3	0	2	3	1	0	2	5	5	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	133779908	C	T	133779908	3	4	443	1	0	0	0	0	1	0	0	0	17806	478	17	2		2	ZNF268	12	133779908	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	1274269	133779908	71987	62	22918											
EML5	161436	hgsc.bcm.edu;ucsc.edu	37	chr14	89128141	89128141	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacagcataaaccaagtaCacttgtccatgatgcccaag	14	9	6	12	0	1	1	1	1	0	0	2	1	2	1	3	0	4	2	3	0	5	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	89128141	C	A	89128141	3	1	443	1	0	0	0	0	1	0	0	0	5100	478	17	4	2477	4	EML5	14	89128141	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10		89128141	18221399	63	22919											
HERC2	8924	hgsc.bcm.edu	37	chr15	28366558	28366558	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accatagttgcttgtactacTttccggaaagccgcctccta	9	12	7	13	2	0	0	0	0	0	0	2	1	2	1	5	1	4	3	5	1	5	7	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	28366558	T	G	28366558	3	3	443	1	0	0	0	0	1	0	0	0	7058	1606	56	5	1330	5	HERC2	15	28366558	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10		28366558	74164834	64	22920											
SPRED1	161742	hgsc.bcm.edu;ucsc.edu	37	chr15	38632059	38632059	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctccctttgaagatctgaAtgccagaagagtctacatgc	11	12	8	10	0	3	5	0	2	3	3	4	5	3	5	2	0	3	0	2	0	4	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	38632059	A	G	38632059	3	3	443	1	0	0	0	0	1	0	0	0	15093	101	4	3	563	3	SPRED1	15	38632059	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	10265501	38632059	63899333	65	22921											
SECISBP2L	9728	hgsc.bcm.edu;ucsc.edu	37	chr15	49284777	49284777	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcatcttcatcttcttcTtcttcaagcatgccaggtac	7	16	4	14	0	8	0	3	0	5	0	9	0	9	0	2	1	3	2	2	1	2	6	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	49284777	T	A	49284777	3	1	443	1	0	0	0	0	1	0	0	0	14009	1606	56	5	339	5	SECISBP2L	15	49284777	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	10652718	49284777	53246615	66	22922											
TBC1D21	161514	hgsc.bcm.edu;ucsc.edu	37	chr15	74174089	74174089	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acggtggacagcatgaggagGtagaacactccagaccctgc	12	5	13	11	1	0	3	0	1	0	2	1	5	1	5	2	4	3	2	2	4	2	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	74174089	G	A	74174089	5	1	443	1	0	0	0	0	0	0	1	0	15609	1275	44	2	283	2	TBC1D21	15	74174089	Splice_Site	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	24889312	74174089	28357303	67	22923											
ARNT2	9915	hgsc.bcm.edu;ucsc.edu	37	chr15	80762590	80762590	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaatcgaaaggcgcagaCggaacaagatgactcagtac	16	5	12	8	3	1	4	1	2	0	2	2	6	1	5	0	2	2	2	0	2	5	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	80762590	C	T	80762590	3	4	443	1	0	0	0	0	1	0	0	0	966	527	19	1	240	1	ARNT2	15	80762590	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	6588501	80762590	21768802	68	22924											
SMG1	23049	hgsc.bcm.edu;ucsc.edu	37	chr16	18844384	18844384	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcggtggtctgctcaatAagaccgtccagttcatgcag	9	10	10	12	2	3	1	2	0	1	1	5	1	4	1	3	2	2	3	3	2	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	18844384	A	T	18844384	2	4	443	1	0	0	0	0	0	0	0	1	14797	349	13	5		5	SMG1	16	18844384	Silent	SNP	A	TCGA-CZ-4857-01A-01D-1373-10		18844384	71510369	69	22925											
TBC1D10B	26000	hgsc.bcm.edu	37	chr16	30370551	30370551	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccagggcagggtgcgggcGaagatgcacatgaaccactc	10	4	15	12	2	0	2	0	1	0	1	1	3	0	2	2	3	3	2	2	3	2	0	rs113035492	bycluster	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	30370551	G	A	30370551	2	1	443	1	0	0	0	0	0	0	0	1	15598	1049	37	1		1	TBC1D10B	16	30370551	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	11526167	30370551	59984202	70	22926											
FAM92B	339145	hgsc.bcm.edu;ucsc.edu	37	chr16	85135890	85135890	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatacacctccaccgctttgGcatggaaaaccatctcaata	14	9	5	13	1	1	0	1	0	1	0	3	1	2	1	4	2	2	2	4	2	6	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	85135890	G	A	85135890	3	1	443	1	0	0	0	0	1	0	0	0	5653	1203	42	2	345	2	FAM92B	16	85135890	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	54765339	85135890	5218863	71	22927											
ASPA	443	hgsc.bcm.edu;ucsc.edu	37	chr17	3392558	3392558	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttggtcctcagcctcaagggGttctgagagctgatatcttg	7	13	12	9	0	4	2	2	2	2	1	5	3	5	2	2	3	2	2	2	3	2	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	3392558	G	C	3392558	3	2	443	1	0	0	0	0	1	0	0	0	1050	1261	44	4	570	4	ASPA	17	3392558	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		3392558	77802652	72	22928											
LLGL1	3996	hgsc.bcm.edu	37	chr17	18136083	18136083	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaagcactcagtttccAgctgcccagccggcccggct	8	6	12	15	2	1	1	1	0	0	1	2	2	2	2	4	3	4	4	4	3	2	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	18136083	A	G	18136083	3	3	443	1	0	0	0	0	1	0	0	0	8833	188	7	3	373	3	LLGL1	17	18136083	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	14743525	18136083	63059127	73	22929											
GIT1	28964	hgsc.bcm.edu	37	chr17	27902653	27902656	+	Frame_Shift_Del	DEL	CAGT	CAGT	-																															cccagggagcctcaccccagCagtgggtccccactttgcgt																								novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	CAGT	CAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		-	27902656	CAGT	-	27902653	7	5	443	1	0	1	0	1	0	0	0	0	6396	697	25	0	480	0	GIT1	17	27902653	Frame_Shift_Del	DEL	CAGT	TCGA-CZ-4857-01A-01D-1373-10	9766570	27902653	53292557	74	22930											
EPN3	55040	hgsc.bcm.edu;ucsc.edu	37	chr17	48618639	48618639	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaacctccagaatccacagaGaccaaggaggggctggagca	15	3	12	11	0	0	2	0	0	0	2	2	5	2	4	4	4	2	2	4	4	3	0	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	48618639	G	A	48618639	2	1	443	1	0	0	0	0	0	0	0	1	5187	933	33	2		2	EPN3	17	48618639	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	20715986	48618639	32576571	75	22931											
MYO5B	4645	hgsc.bcm.edu;ucsc.edu	37	chr18	47369724	47369724	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaggatgtaggcggggaGacagggcactgtgcccgaca	10	5	18	8	2	0	2	0	0	0	2	0	5	0	3	1	5	1	3	1	5	2	2	rs67244969	bycluster;by1000genomes	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	47369724	G	T	47369724	3	4	443	1	0	0	0	0	1	0	0	0	10079	942	33	4	1076	4	MYO5B	18	47369724	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10		47369724	30707524	76	22932											
ADAMTS10	81794	hgsc.bcm.edu	37	chr19	8660979	8660979	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagaaagctggtgatgtagtCacggctgcaggatgaccaca	12	8	13	8	1	1	3	1	2	0	1	1	4	1	4	1	3	2	4	1	3	3	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	8660979	C	T	8660979	3	4	443	1	0	0	0	0	1	0	0	0	256	826	29	2	2060	2	ADAMTS10	19	8660979	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10		8660979	50468004	77	22933											
NOTCH3	4854	hgsc.bcm.edu	37	chr19	15298776	15298776	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctggcgcattcgtccaCgtccagctgacacgtggagc	6	8	13	14	5	0	1	0	1	0	0	3	2	2	2	2	2	3	3	2	2	0	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	15298776	C	T	15298776	3	4	443	1	0	0	0	0	1	0	0	0	10550	536	19	1	5539	1	NOTCH3	19	15298776	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	6637797	15298776	43830207	78	22934											
OR10H2	26538	hgsc.bcm.edu;ucsc.edu	37	chr19	15839750	15839750	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggaacaaagaactgaaGgttgccatgaagaggacctt	15	7	11	8	0	1	4	1	2	0	2	1	6	1	6	2	3	3	1	2	3	5	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	15839750	G	T	15839750	3	4	443	1	0	0	0	0	1	0	0	0	10906	991	35	4	899	4	OR10H2	19	15839750	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	540974	15839750	43289233	79	22935											
FAM129C	199786	hgsc.bcm.edu	37	chr19	17662616	17662616	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaaactgaggctgagcGggaaggaggggcttgtccca	10	6	18	7	1	0	3	0	3	0	0	1	6	1	6	1	6	2	2	1	6	2	1	rs76629753	bycluster;byfrequency;by1000genomes	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	17662616	G	A	17662616	3	1	443	1	0	0	0	0	1	0	0	0	5438	1116	39	1	1927	1	FAM129C	19	17662616	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	1822866	17662616	41466367	80	22936											
FCGRT	2217	hgsc.bcm.edu	37	chr19	50017140	50017140	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctgtttctgtctgcagaAagccacctctccctcctgta	6	13	7	15	0	4	1	0	0	4	1	6	1	5	1	4	0	2	4	4	0	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	50017140	A	C	50017140	3	2	443	1	0	0	0	0	1	0	0	0	5786	28	1	5	81	5	FCGRT	19	50017140	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	32354524	50017140	9111843	81	22937											
MED25	81857	hgsc.bcm.edu	37	chr19	50333063	50333063	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggggatccacttctccatTgtgtctccccggaagctgcc	5	10	11	15	2	2	0	0	0	2	0	5	2	3	2	5	3	2	1	5	3	1	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	50333063	T	C	50333063	2	2	443	1	0	0	0	0	0	0	0	1	9443	1800	63	3		3	MED25	19	50333063	Silent	SNP	T	TCGA-CZ-4857-01A-01D-1373-10	315923	50333063	8795920	82	22938											
ZNF473	25888	hgsc.bcm.edu;ucsc.edu	37	chr19	50550173	50550173	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggcaaagcttttgtcCtcagtgcccatctcaaccag	8	12	9	12	0	2	0	2	0	1	0	4	0	3	0	3	1	3	2	3	1	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	50550173	C	G	50550173	3	3	443	1	0	0	0	0	1	0	0	0	17930	681	24	4	2487	4	ZNF473	19	50550173	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	217110	50550173	8578810	83	22939											
C19orf63	0	hgsc.bcm.edu	37	chr19	50985427	50985427	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtacatcattcccgtcGtcctgttcctcatgatgtca	7	14	8	12	2	3	1	3	1	0	0	7	2	6	2	3	1	1	2	3	1	1	3	rs147229320		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	50985427	G	A	50985427	3	1	443	1	0	0	0	0	1	0	0	0	1945	1145	40	1	817	1	C19orf63	19	50985427	Missense_Mutation	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	435254	50985427	8143556	84	22940											
SIGLEC10	89790	hgsc.bcm.edu;ucsc.edu	37	chr19	51920109	51920109	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaagaagggggtggacAttcctcaaaggcccagttaa	14	6	14	7	0	1	2	1	0	0	2	2	4	2	3	2	5	0	1	2	5	4	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	51920109	A	C	51920109	3	2	443	1	0	0	0	0	1	0	0	0	14308	217	8	5	1612	5	SIGLEC10	19	51920109	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	934682	51920109	7208874	85	22941											
NLRP12	91662	hgsc.bcm.edu	37	chr19	54312936	54312936	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaagtgcagcacctgggcGctcctgcagcgcttcagaca	9	7	11	14	2	1	1	1	0	0	1	2	1	2	1	2	1	5	5	2	1	2	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	54312936	G	A	54312936	2	1	443	1	0	0	0	0	0	0	0	1	10474	1078	38	1		1	NLRP12	19	54312936	Silent	SNP	G	TCGA-CZ-4857-01A-01D-1373-10	2392827	54312936	4816047	86	22942											
NDUFA3	4696	hgsc.bcm.edu	37	chr19	54610140	54610140	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgtccgtgatgatgggaaCatgcccgacgtgcccagcca	8	6	12	15	4	0	2	0	2	0	0	1	4	1	3	5	1	4	0	5	1	1	0	rs144531279	alternate_allele	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	54610140	C	G	54610140	3	3	443	1	0	0	0	0	1	0	0	0	10265	477	17	4	200	4	NDUFA3	19	54610140	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	297204	54610140	4518843	87	22943											
TMX4	56255	hgsc.bcm.edu	37	chr20	7962927	7962927	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtcagcatgctgactttTacgctgcctcaaggagtctt	7	14	9	11	1	3	1	2	1	1	0	3	2	3	2	1	1	4	3	1	1	2	4	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	7962927	T	C	7962927	3	2	443	1	0	0	0	0	1	0	0	0	16268	1763	61	3	32	3	TMX4	20	7962927	Missense_Mutation	SNP	T	TCGA-CZ-4857-01A-01D-1373-10		7962927	55062593	88	22944											
MC3R	4159	hgsc.bcm.edu;ucsc.edu	37	chr20	54824473	54824473	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaatggtcattgtgtgcCtcatcaccatgttcttcgcc	8	13	8	12	1	4	0	3	0	1	0	5	0	4	0	3	1	1	2	3	1	2	3	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	54824473	C	A	54824473	3	1	443	1	0	0	0	0	1	0	0	0	9365	681	24	4	576	4	MC3R	20	54824473	Missense_Mutation	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	46861546	54824473	8201047	89	22945											
DGCR8	54487	hgsc.bcm.edu;ucsc.edu	37	chr22	20074764	20074764	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggcgaacagaggaaaaatAtggcggagacagcgaccatc	16	3	14	8	3	0	2	0	0	0	2	1	7	0	3	1	4	2	0	1	4	4	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	20074764	A	G	20074764	3	3	443	1	0	0	0	0	1	0	0	0	4464	449	16	3	806	3	DGCR8	22	20074764	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10		20074764	31229802	90	22946											
SGSM1	129049	hgsc.bcm.edu;ucsc.edu	37	chr22	25294340	25294340	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggacatggccctgcctgaAaaggacgatgttgtgatgga	10	9	14	8	1	0	2	0	2	0	0	0	6	0	5	2	4	1	1	2	4	2	1	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		T	25294340	A	T	25294340	3	4	443	1	0	0	0	0	1	0	0	0	14224	11	1	5	2667	5	SGSM1	22	25294340	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	5219576	25294340	26010226	91	22947											
ARSD	414	hgsc.bcm.edu	37	chrX	2832696	2832696	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagaatctgcagcctcacTggtcctctccagggtttctt	7	14	8	12	0	4	1	1	0	3	1	6	1	5	1	3	2	2	2	3	2	2	3	rs113031742	bycluster;by1000genomes	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		C	2832696	T	C	2832696	2	2	443	1	0	0	0	0	0	0	0	1	989	1567	55	3		3	ARSD	23	2832696	Silent	SNP	T	TCGA-CZ-4857-01A-01D-1373-10		2832696	152437864	92	22948											
TBL1X	6907	hgsc.bcm.edu;ucsc.edu	37	chrX	9660211	9660211	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatagcaacgggggctccAcccagctcgtgttgaggcac	10	6	13	12	2	0	2	0	1	0	1	2	2	1	2	2	3	3	5	2	3	3	2	novel		TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		G	9660211	A	G	9660211	3	3	443	1	0	0	0	0	1	0	0	0	15638	159	6	3	830	3	TBL1X	23	9660211	Missense_Mutation	SNP	A	TCGA-CZ-4857-01A-01D-1373-10	6827515	9660211	145610349	93	22949											
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140993877	140993877	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtacttttgagggttttgcCcagtctcctctccagattcc	6	15	8	12	0	2	2	0	1	2	1	5	2	3	2	4	1	2	2	4	1	1	6	rs176039	bycluster;byfrequency	TCGA-CZ-4857-01A-01D-1373-10	TCGA-CZ-4857-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	45c7eea2-42be-4cc7-b658-9cb273fae580	a465c09a-09bc-4057-a658-e29daf498813		A	140993877	C	A	140993877	2	1	443	1	0	0	0	0	0	0	0	1	9180	610	22	4		4	MAGEC1	23	140993877	Silent	SNP	C	TCGA-CZ-4857-01A-01D-1373-10	131333666	140993877	14276683	94	22950											
KLHL21	9903	hgsc.bcm.edu	37	chr1	6661906	6661906	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgatgctgtagcctccgccCaggtggtctgggaactcggc	6	8	14	13	3	1	0	0	0	1	0	3	2	2	1	3	4	3	2	3	4	2	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	6661906	C	A	6661906	2	1	444	1	0	0	0	0	0	0	0	1	8376	581	21	4		4	KLHL21	1	6661906	Silent	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		6661906	242588715	1	22951											
ZNF644	84146	hgsc.bcm.edu;ucsc.edu	37	chr1	91405509	91405509	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctctcctggtgaataaTcatatgttttagaagtgaat	11	17	7	6	0	3	3	1	2	2	1	5	3	4	3	1	1	0	1	1	1	6	5	rs146329330		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	91405509	T	C	91405509	3	2	444	1	0	0	0	0	1	0	0	0	18059	1435	50	3	2597	3	ZNF644	1	91405509	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	84743603	91405509	157845112	2	22952			1	37		2	2	28	N	T_C	5.930681e-05
ZNF644	84146	hgsc.bcm.edu;ucsc.edu	37	chr1	91405536	91405536	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagaagtgaattgcgatCtcgaaatgtccgtccacatt	11	14	8	8	3	1	2	0	1	1	1	4	4	3	2	2	0	1	0	2	0	4	4	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	91405536	C	A	91405536	3	1	444	1	0	0	0	0	1	0	0	0	18059	913	32	4	2624	4	ZNF644	1	91405536	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	27	91405536	157845085	3	22953			1	37		2	2	28	N	T_C	5.930681e-05
TMOD4	29765	hgsc.bcm.edu;ucsc.edu	37	chr1	151143913	151143913	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtcaactagccttacattgGcaatggggtcaccactcctc	9	11	8	13	0	2	0	2	0	0	0	4	0	3	0	3	3	3	1	3	3	4	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	151143913	G	A	151143913	3	1	444	1	0	0	0	0	1	0	0	0	16235	1203	42	2	331	2	TMOD4	1	151143913	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	59738377	151143913	98106708	4	22954											
ASH1L	55870	hgsc.bcm.edu;ucsc.edu	37	chr1	155319244	155319244	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcttctcataataatcAgcattcctggaacacaaagc	15	10	6	10	0	3	1	2	0	2	1	5	3	4	2	1	1	3	1	1	1	4	4	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	155319244	A	T	155319244	2	4	444	1	0	0	0	0	0	0	0	1	1041	175	7	5		5	ASH1L	1	155319244	Silent	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	4175331	155319244	93931377	5	22955											
ERO1LB	56605	hgsc.bcm.edu	37	chr1	236389662	236389662	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgacaattgagcgctcaaaaTatggagccacctttgacaaa	15	8	8	10	2	1	2	1	2	0	0	1	4	1	3	2	1	2	1	2	1	5	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	236389662	T	G	236389662	3	3	444	1	0	0	0	0	1	0	0	0	5240	1406	49	5	464	5	ERO1LB	1	236389662	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	81070418	236389662	12860959	6	22956											
SNTG2	54221	hgsc.bcm.edu;ucsc.edu	37	chr2	1204903	1204903	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcaaggtacaaagccggaAcggaaaaattaaggtgtgtg	15	8	12	6	2	1	0	1	0	1	0	2	2	1	2	1	4	3	1	1	4	7	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	1204903	A	C	1204903	3	2	444	1	0	0	0	0	1	0	0	0	14877	43	2	5	740	5	SNTG2	2	1204903	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10		1204903	241994470	7	22957											
PUM2	23369	hgsc.bcm.edu;ucsc.edu	37	chr2	20478380	20478380	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggatccatgtgatgaaaGtgatggcggtggcgtaagtg	10	10	17	4	2	0	4	0	4	0	0	1	5	1	5	1	4	0	1	1	4	2	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	20478380	G	T	20478380	3	4	444	1	0	0	0	0	1	0	0	0	12828	1029	36	4	1309	4	PUM2	2	20478380	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	19273477	20478380	222720993	8	22958											
DNAJC5G	285126	hgsc.bcm.edu;ucsc.edu	37	chr2	27500630	27500630	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttccccagccattccgCattgcttccccaccctcctt	4	12	3	22	1	0	0	0	0	0	0	5	0	5	0	9	0	2	2	9	0	0	5	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	27500630	C	T	27500630	3	4	444	1	0	0	0	0	1	0	0	0	4652	710	25	2	128	2	DNAJC5G	2	27500630	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	7022250	27500630	215698743	9	22959											
SULT6B1	391365	hgsc.bcm.edu;ucsc.edu	37	chr2	37410624	37410624	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcatagtggaggtgagttgCcaaaatccttggtgatggaa	11	11	14	5	0	1	2	1	2	0	0	2	4	2	4	2	4	1	1	2	4	4	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	37410624	C	T	37410624	3	4	444	1	0	0	0	0	1	0	0	0	15383	739	26	2	585	2	SULT6B1	2	37410624	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	9909994	37410624	205788749	10	22960											
SF3B1	23451	hgsc.bcm.edu	37	chr2	198266832	198266832	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcactgatggtccgaacTttctgctgctcatccacaag	11	10	8	12	1	2	1	1	1	1	0	4	2	4	1	2	1	4	3	2	1	3	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	198266832	T	C	198266832	2	2	444	1	0	0	0	0	0	0	0	1	14151	1606	56	3		3	SF3B1	2	198266832	Silent	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	160856208	198266832	44932541	11	22961											
ANO7	50636	hgsc.bcm.edu	37	chr2	242135132	242135132	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccagcagacttcgtcctcGtttgggaggaggacctgaag	8	9	13	11	2	0	2	0	1	0	1	4	5	2	5	3	3	1	2	3	3	1	2	rs149691575		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	242135132	G	A	242135132	3	1	444	1	0	0	0	0	1	0	0	0	702	1145	40	1	357	1	ANO7	2	242135132	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	43868300	242135132	1064241	12	22962											
DOCK3	1795	hgsc.bcm.edu	37	chr3	51400102	51400102	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgccccttccagtgccCgaggtaaggatggcagggtg	6	8	14	13	1	1	0	0	0	1	0	2	2	2	1	5	4	2	2	5	4	1	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	51400102	C	T	51400102	4	4	444	1	0	0	0	0	0	1	0	0	4688	644	23	1	5484	1	DOCK3	3	51400102	Nonsense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		51400102	146622328	13	22963											
FAM19A1	407738	hgsc.bcm.edu	37	chr3	68466561	68466561	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacaagaaaccggccttctTgcgtcgatggtaggtacctg	10	9	11	11	3	1	1	0	0	1	1	2	2	1	1	3	3	4	2	3	3	5	4	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	68466561	T	C	68466561	3	2	444	1	0	0	0	0	1	0	0	0	5531	1812	63	3	256	3	FAM19A1	3	68466561	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	17066459	68466561	129555869	14	22964											
AP2M1	1173	hgsc.bcm.edu;ucsc.edu	37	chr3	183899959	183899959	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggatcccaaccccactGaacacaagcggggtgcaggt	11	5	13	12	1	0	2	0	2	0	0	1	3	1	3	3	4	4	1	3	4	3	0	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	183899959	G	T	183899959	2	4	444	1	0	0	0	0	0	0	0	1	742	1277	45	4		4	AP2M1	3	183899959	Silent	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	115433398	183899959	14122471	15	22965											
FGFR3	2261	hgsc.bcm.edu	37	chr4	1806217	1806217	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggctcccccaccgtgcaCaagatctcccgcttcccgct	5	8	8	20	3	1	1	0	0	1	1	4	1	3	1	5	1	1	4	5	1	1	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	1806217	C	T	1806217	2	4	444	1	0	0	0	0	0	0	0	1	5867	477	17	2		2	FGFR3	4	1806217	Silent	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		1806217	189348059	16	22966											
MARCH1	55016	hgsc.bcm.edu	37	chr4	164449988	164449988	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcactaccacagcatctTtgatgtctgtgtttacatta	10	14	7	10	0	2	1	0	1	2	0	2	1	2	1	1	1	3	3	1	1	3	5	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	164449988	T	G	164449988	3	3	444	1	0	0	0	0	1	0	0	0	9298	1841	64	5	91	5	MARCH1	4	164449988	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	162643771	164449988	26704288	17	22967											
KLHL3	26249	hgsc.bcm.edu;ucsc.edu	37	chr5	136963990	136963990	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagagcagtcattacctgcGttgcgccggcacatgttcat	9	10	11	11	3	2	1	2	0	0	1	2	2	2	1	2	1	4	4	2	1	1	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	136963990	G	A	136963990	2	1	444	1	0	0	0	0	0	0	0	1	8383	1136	40	1		1	KLHL3	5	136963990	Silent	SNP	G	TCGA-CZ-4858-01A-01D-1373-10		136963990	43951270	18	22968											
PPARGC1B	133522	hgsc.bcm.edu	37	chr5	149210396	149210396	+	Frame_Shift_Del	DEL	G	G	-																															acacccagaaggaagggaccGcctggcgccaggcaggcctc																								novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		-	149210396	G	-	149210396	7	5	444	1	0	1	0	1	0	0	0	0	12301	1087	38	0	553	0	PPARGC1B	5	149210396	Frame_Shift_Del	DEL	G	TCGA-CZ-4858-01A-01D-1373-10	12246406	149210396	31704864	19	22969											
TCOF1	6949	hgsc.bcm.edu	37	chr5	149776067	149776067	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggtggtggacaccaccaAggagagcagcaggaagggct	13	3	17	8	0	0	1	0	0	0	1	0	5	0	3	2	6	2	3	2	6	3	0	rs55980697	bycluster;byfrequency;by1000genomes	TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	149776067	A	G	149776067	3	3	444	1	0	0	0	0	1	0	0	0	15707	72	3	3	4123	3	TCOF1	5	149776067	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	565671	149776067	31139193	20	22970											
SLIT3	6586	hgsc.bcm.edu	37	chr5	168138034	168138034	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccaccgaagactgcagTcacagtggagtgggttggtt	10	8	14	9	1	1	1	1	0	0	1	1	3	1	2	2	3	2	3	2	3	1	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	168138034	T	A	168138034	3	1	444	1	0	0	0	0	1	0	0	0	14743	1667	58	5	2034	5	SLIT3	5	168138034	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	18361967	168138034	12777226	21	22971											
ZNF354C	30832	hgsc.bcm.edu;ucsc.edu	37	chr5	178504125	178504125	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttgcagcaaggagaagatCcctgcatggtggaaagagaa	15	6	14	6	0	0	3	0	0	0	3	1	6	1	4	1	3	3	4	1	3	4	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	178504125	C	A	178504125	3	1	444	1	0	0	0	0	1	0	0	0	17865	855	30	4	218	4	ZNF354C	5	178504125	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	10366091	178504125	2411135	22	22972											
HLA-DQB1	3119	hgsc.bcm.edu	37	chr6	32634306	32634306	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgccctcagccagtagggAgctcagcatcgccagcatca	9	7	10	15	1	4	0	3	0	1	0	5	1	4	1	3	1	5	4	3	1	1	1	rs1049060	bycluster;byfrequency	TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	32634306	A	T	32634306	3	4	444	1	0	0	0	0	1	0	0	0	7206	304	11	5	726	5	HLA-DQB1	6	32634306	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10		32634306	138480761	23	22973											
AKAP9	10142	hgsc.bcm.edu	37	chr7	91700229	91700229	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatttaaaggtagaggaccGaaaacactttggagctgtag	15	10	11	5	1	0	1	0	0	0	1	0	4	0	3	1	3	2	3	1	3	7	6	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	91700229	G	A	91700229	3	1	444	1	0	0	0	0	1	0	0	0	459	1058	37	1	6628	1	AKAP9	7	91700229	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10		91700229	67438434	24	22974											
ARPC1B	10095	hgsc.bcm.edu;ucsc.edu	37	chr7	98984318	98984318	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccccttcagagattgccatCtgccccaacaaccatgaggt	10	9	7	15	0	2	2	1	1	1	1	3	3	3	2	6	1	4	0	6	1	2	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	98984318	C	G	98984318	3	3	444	1	0	0	0	0	1	0	0	0	970	903	32	4	81	4	ARPC1B	7	98984318	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	7284089	98984318	60154345	25	22975											
WDR91	29062	hgsc.bcm.edu;ucsc.edu	37	chr7	134894458	134894458	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatcccgaagggcagccAagtcatacacctgcattaac	15	7	7	12	1	1	0	1	0	0	0	2	1	2	0	3	1	4	2	3	1	6	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	134894458	A	G	134894458	3	3	444	1	0	0	0	0	1	0	0	0	17337	131	5	3	2126	3	WDR91	7	134894458	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	35910140	134894458	24244205	26	22976											
ABP1	26	hgsc.bcm.edu;ucsc.edu	37	chr7	150554954	150554954	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acaattatgattacatttggGactttatcttctaccccaac	12	15	4	10	0	2	1	0	1	2	0	2	2	2	2	2	1	3	0	2	1	6	7	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	150554954	G	A	150554954	3	1	444	1	0	0	0	0	1	0	0	0	98	1174	41	2	1398	2	ABP1	7	150554954	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	15660496	150554954	8583709	27	22977											
ERICH1	157697	hgsc.bcm.edu	37	chr8	623641	623641	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgtcaggtcttcctcgctAgcgtccgcaccatcttcctc	4	12	8	17	4	3	0	1	0	2	0	8	0	6	0	4	1	1	2	4	1	1	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	623641	A	G	623641	2	3	444	1	0	0	0	0	0	0	0	1	5230	407	15	3		3	ERICH1	8	623641	Silent	SNP	A	TCGA-CZ-4858-01A-01D-1373-10		623641	145740381	28	22978											
ZNF16	7564	hgsc.bcm.edu	37	chr8	146157099	146157099	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaggtttgagcttcgcctGaaggccttcccacactcact	8	11	9	13	1	1	3	1	3	0	0	3	3	2	3	3	2	1	2	3	2	1	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	146157099	G	A	146157099	2	1	444	1	0	0	0	0	0	0	0	1	17737	1281	45	2		2	ZNF16	8	146157099	Silent	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	145533458	146157099	206923	29	22979											
CER1	9350	hgsc.bcm.edu	37	chr9	14720359	14720359	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgttctgaacaactactTtttcacagccttcgtgggtt	7	16	9	9	1	2	1	1	1	1	0	3	1	2	1	1	2	4	3	1	2	3	7	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	14720359	T	G	14720359	3	3	444	1	0	0	0	0	1	0	0	0	3265	1841	64	5	274	5	CER1	9	14720359	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10		14720359	126493072	30	22980											
FRMPD1	22844	hgsc.bcm.edu	37	chr9	37729831	37729831	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctgcacctgctgcacgAagaggaactcatccagcagg	10	5	12	14	2	1	1	1	0	0	1	2	3	2	2	3	3	5	5	3	3	2	0	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	37729831	A	T	37729831	3	4	444	1	0	0	0	0	1	0	0	0	6057	246	9	5	745	5	FRMPD1	9	37729831	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	23009472	37729831	103483600	31	22981											
ROR2	4920	hgsc.bcm.edu	37	chr9	94493360	94493360	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggtgctgcagggcccacgGctggcactggtggcctgact	4	7	18	12	1	0	1	0	1	0	0	0	1	0	1	2	7	2	4	2	7	0	0	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	94493360	G	A	94493360	3	1	444	1	0	0	0	0	1	0	0	0	13529	1203	42	2	1828	2	ROR2	9	94493360	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	56763529	94493360	46720071	32	22982											
INVS	27130	hgsc.bcm.edu	37	chr9	103054941	103054941	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cactcaagagctcagaggagGaaggtgctctccggctggtt	9	8	14	10	1	3	2	2	0	1	2	4	4	3	4	1	5	2	4	1	5	2	1	rs76868679	bycluster;byfrequency;by1000genomes	TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	103054941	G	A	103054941	3	1	444	1	0	0	0	0	1	0	0	0	7787	1174	41	2	2452	2	INVS	9	103054941	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	8561581	103054941	38158490	33	22983											
IDI2	91734	hgsc.bcm.edu	37	chr10	1065491	1065491	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtgaagctccacaaacGgggtcacgtcatccaggtga	10	10	11	10	2	2	2	2	2	0	0	4	2	4	2	2	3	2	1	2	3	2	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	1065491	G	T	1065491	3	4	444	1	0	0	0	0	1	0	0	0	7500	1116	39	4	37	4	IDI2	10	1065491	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10		1065491	134469256	34	22984											
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89720744	89720744	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaagtctatgtgatcaaGaaatcgatagcatttgcagt	14	12	10	5	1	2	2	1	1	1	1	3	4	2	3	0	1	2	2	0	1	5	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	89720744	G	T	89720744	4	4	444	1	0	0	0	0	0	1	0	0	12740	943	33	4	925	4	PTEN	10	89720744	Nonsense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	88655253	89720744	45814003	35	22985											
FBXO3	26273	hgsc.bcm.edu;ucsc.edu	37	chr11	33763575	33763575	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatcatcctcgtcttccTcctcttcctcctcctcctct	4	16	1	20	1	5	0	2	0	3	0	13	0	12	0	7	0	0	0	7	0	1	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	33763575	T	A	33763575	3	1	444	1	0	0	0	0	1	0	0	0	5739	1551	54	5	124	5	FBXO3	11	33763575	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10		33763575	101242941	36	22986											
NR1H3	10062	hgsc.bcm.edu	37	chr11	47282968	47282968	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagcaacagtgtaacCggcgctccttttctgaccgg	7	9	10	15	3	1	1	0	1	1	0	2	1	2	1	4	2	4	3	4	2	2	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	47282968	C	A	47282968	2	1	444	1	0	0	0	0	0	0	0	1	10618	643	23	4		4	NR1H3	11	47282968	Silent	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	13519393	47282968	87723548	37	22987											
PIH1D2	120379	hgsc.bcm.edu;ucsc.edu	37	chr11	111941954	111941954	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttcacttggtccttttCtgctgcatgaagaacatcag	8	17	7	9	0	3	2	2	1	1	1	4	2	4	2	1	1	3	2	1	1	2	6	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	111941954	C	A	111941954	4	1	444	1	0	0	0	0	0	1	0	0	11907	922	32	4	662	4	PIH1D2	11	111941954	Nonsense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	64658986	111941954	23064562	38	22988											
NFRKB	4798	hgsc.bcm.edu;ucsc.edu	37	chr11	129739926	129739926	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcctgtagtgttgccTcctgtcccgaagaggtcctg	4	13	11	13	1	0	1	0	0	0	1	3	2	3	1	6	1	2	2	6	1	2	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	129739926	T	A	129739926	2	1	444	1	0	0	0	0	0	0	0	1	10384	1538	54	5		5	NFRKB	11	129739926	Silent	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	17797972	129739926	5266590	39	22989											
DDX47	51202	hgsc.bcm.edu	37	chr12	12974949	12974949	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaatacgaaaggtttcaacTtgagagctctcaaatacttg	16	11	7	7	1	2	1	2	1	1	1	3	3	2	1	0	1	4	2	0	1	7	5	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	12974949	T	C	12974949	2	2	444	1	0	0	0	0	0	0	0	1	4365	1606	56	3		3	DDX47	12	12974949	Silent	SNP	T	TCGA-CZ-4858-01A-01D-1373-10		12974949	120876946	40	22990											
SLCO1B1	10599	hgsc.bcm.edu;ucsc.edu	37	chr12	21370118	21370118	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaattactcagcccatttGggtgaatgcccaagagatga	14	9	10	8	0	1	4	1	2	0	2	1	5	1	4	2	1	3	0	2	1	4	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	21370118	G	T	21370118	3	4	444	1	0	0	0	0	1	0	0	0	14725	1339	47	4	1605	4	SLCO1B1	12	21370118	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	8395169	21370118	112481777	41	22991											
ACVR1B	91	hgsc.bcm.edu;ucsc.edu	37	chr12	52369222	52369222	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctactgcctgagctcggagGacctgcgcaacacccactgc	8	7	10	16	2	1	1	0	1	1	0	2	3	1	3	3	2	6	2	3	2	2	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	52369222	G	A	52369222	3	1	444	1	0	0	0	0	1	0	0	0	221	1174	41	2	271	2	ACVR1B	12	52369222	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	30999104	52369222	81482673	42	22992											
PLEKHG7	440107	hgsc.bcm.edu	37	chr12	93135275	93135275	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgtccctagacaagcctTggttttgtgaacagtctctt	7	15	8	11	0	2	2	0	1	2	1	4	2	3	2	2	1	2	1	2	1	3	5	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	93135275	T	C	93135275	2	2	444	1	0	0	0	0	0	0	0	1	12075	1799	63	3		3	PLEKHG7	12	93135275	Silent	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	40766053	93135275	40716620	43	22993											
REC8	9985	hgsc.bcm.edu	37	chr14	24646359	24646359	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctctggacagggtgaacggGagctcccagaggtcagccgc	8	6	15	12	2	2	2	1	1	1	1	4	4	3	4	2	4	3	1	2	4	1	0	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	24646359	G	A	24646359	3	1	444	1	0	0	0	0	1	0	0	0	13201	1175	41	2	664	2	REC8	14	24646359	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10		24646359	82703181	44	22994											
DIO2	1734	hgsc.bcm.edu;ucsc.edu	37	chr14	80669159	80669162	+	Frame_Shift_Del	DEL	ATGC	ATGC	-																															caattttctgtctctgcacaAtgcacacacgttcaaaggct																								novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	ATGC	ATGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		-	80669162	ATGC	-	80669159	7	5	444	1	0	1	0	1	0	0	0	0	4525	101	4	0	130	0	DIO2	14	80669159	Frame_Shift_Del	DEL	ATGC	TCGA-CZ-4858-01A-01D-1373-10	56022800	80669159	26680381	45	22995											
CLDN9	9080	hgsc.bcm.edu	37	chr16	3063371	3063371	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgaggggccagatggcttCgaccggcttagaactgctgg	8	7	15	11	3	0	2	0	0	0	2	1	4	0	2	3	5	2	3	3	5	2	2	rs144730563		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	3063371	C	T	3063371	3	4	444	1	0	0	0	0	1	0	0	0	3492	893	31	1	10	1	CLDN9	16	3063371	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		3063371	87291382	46	22996											
PHKB	5257	hgsc.bcm.edu	37	chr16	47628114	47628114	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgactccagtacttcatcAtaccacagaaggtatagttg	12	13	7	9	0	2	2	2	1	0	1	3	2	3	2	2	1	2	3	2	1	5	7	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	47628114	A	T	47628114	3	4	444	1	0	0	0	0	1	0	0	0	11845	217	8	5	1298	5	PHKB	16	47628114	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	44564743	47628114	42726639	47	22997											
TP53	7157	hgsc.bcm.edu	37	chr17	7578239	7578239	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttctgtcatccaaatactCcacacgcaaatttccttcca	11	13	3	14	1	2	0	1	0	1	0	6	0	6	0	4	0	1	2	4	0	3	4	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	7578239	C	A	7578239	4	1	444	1	0	0	0	0	0	1	0	0	16380	864	30	4	684	4	TP53	17	7578239	Nonsense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		7578239	73616971	48	22998											
DNAH9	1770	hgsc.bcm.edu;ucsc.edu	37	chr17	11725796	11725796	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gtgggaaacaagctaagagtCcgcagcaggaagttcccagc	13	5	13	10	1	0	1	0	0	0	1	2	3	2	3	2	2	4	4	2	2	4	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	11725796	C	G	11725796	2	3	444	1	0	0	0	0	0	0	0	1	4608	842	30	4		4	DNAH9	17	11725796	Silent	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	4147557	11725796	69469414	49	22999											
ZNF624	57547	hgsc.bcm.edu;ucsc.edu	37	chr17	16525940	16525940	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttttccacagacatcacActtatagggcttctctccac	9	12	6	14	0	2	1	1	0	1	1	5	1	4	1	2	2	0	2	2	2	2	5	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	16525940	A	C	16525940	3	2	444	1	0	0	0	0	1	0	0	0	18047	159	6	5	341	5	ZNF624	17	16525940	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	4800144	16525940	64669270	50	23000											
TANC2	26115	hgsc.bcm.edu	37	chr17	61473212	61473212	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactggacgatggccggcCagcagcaaggagtatttaag	11	7	15	8	2	0	1	0	1	0	0	0	4	0	3	2	4	2	3	2	4	3	3	rs113065000	by1000genomes	TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	61473212	C	T	61473212	4	4	444	1	0	0	0	0	0	1	0	0	15544	595	21	2	3000	2	TANC2	17	61473212	Nonsense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	44947272	61473212	19721998	51	23001											
TNRC6C	57690	hgsc.bcm.edu	37	chr17	76047332	76047332	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattgatgatggtacctcagCttggggggacccaagcaact	11	9	12	9	0	1	2	1	2	0	0	1	3	1	3	2	4	4	3	2	4	4	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	76047332	C	T	76047332	3	4	444	1	0	0	0	0	1	0	0	0	16341	797	28	2	2191	2	TNRC6C	17	76047332	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	14574120	76047332	5147878	52	23002											
RANBP3	8498	hgsc.bcm.edu	37	chr19	5933477	5933477	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcttcaaccggaagccActgctcctttcctctaaaag	9	10	9	13	1	2	0	1	0	1	0	4	1	4	1	4	3	3	2	4	3	4	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	5933477	A	T	5933477	3	4	444	1	0	0	0	0	1	0	0	0	13031	156	6	5	1331	5	RANBP3	19	5933477	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10		5933477	53195506	53	23003											
GPI	2821	hgsc.bcm.edu;ucsc.edu	37	chr19	34890920	34890920	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaacttcatcaagcagcaGcgcgaggccagagtccaata	14	6	9	12	2	3	1	3	0	0	1	4	2	4	1	2	1	4	2	2	1	4	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	34890920	G	A	34890920	2	1	444	1	0	0	0	0	0	0	0	1	6611	962	34	2		2	GPI	19	34890920	Silent	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	28957443	34890920	24238063	54	23004											
GSK3A	2931	hgsc.bcm.edu	37	chr19	42736734	42736734	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttcatcaaagaagctgTgcgcacaggcctctagtggg	10	8	13	10	1	3	1	2	0	1	1	3	1	3	1	1	2	2	4	1	2	3	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	42736734	T	A	42736734	3	1	444	1	0	0	0	0	1	0	0	0	6823	1696	59	5	264	5	GSK3A	19	42736734	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	7845814	42736734	16392249	55	23005											
FUT1	2523	hgsc.bcm.edu	37	chr19	49253511	49253511	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactcgggcaggaaggccGcctccggcttaaagatcttc	8	7	11	15	3	1	1	0	0	1	1	4	2	2	2	4	4	0	2	4	4	3	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	49253511	G	A	49253511	3	1	444	1	0	0	0	0	1	0	0	0	6101	1087	38	1	73	1	FUT1	19	49253511	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	6516777	49253511	9875472	56	23006											
ZNF772	400720	hgsc.bcm.edu	37	chr19	57984667	57984667	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttctccagtgtgaattTtccagtggcggatgagggaa	8	12	13	8	1	1	2	0	2	1	0	3	4	2	4	3	3	0	0	3	3	2	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	57984667	T	C	57984667	3	2	444	1	0	0	0	0	1	0	0	0	18144	1841	64	3	28	3	ZNF772	19	57984667	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10	8731156	57984667	1144316	57	23007											
PCNA	5111	hgsc.bcm.edu;ucsc.edu	37	chr20	5098199	5098199	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacttgcagaaaatttcaCtccgtcttttgcacaggaaa	12	12	6	11	1	2	1	1	0	1	1	4	2	4	2	2	1	2	2	2	1	3	4	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	5098199	C	G	5098199	3	3	444	1	0	0	0	0	1	0	0	0	11588	565	20	4	298	4	PCNA	20	5098199	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		5098199	57927321	58	23008											
STAU1	6780	hgsc.bcm.edu;ucsc.edu	37	chr20	47739735	47739735	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgggccagtcggctaatcGgattgatcccctggccatat	7	11	11	12	2	1	1	0	1	1	0	4	2	2	2	4	4	0	1	4	4	2	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	47739735	G	A	47739735	3	1	444	1	0	0	0	0	1	0	0	0	15273	1116	39	1	901	1	STAU1	20	47739735	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	42641536	47739735	15285785	59	23009											
LSM14B	149986	hgsc.bcm.edu;ucsc.edu	37	chr20	60705681	60705681	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgactttgatttcgagAgtgcaaatgcccagttcaac	11	11	11	8	1	1	3	1	2	0	1	2	4	1	3	1	1	3	2	1	1	2	3	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	60705681	A	G	60705681	3	3	444	1	0	0	0	0	1	0	0	0	9055	304	11	3	791	3	LSM14B	20	60705681	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10	12965946	60705681	2319839	60	23010											
NRIP1	8204	hgsc.bcm.edu;ucsc.edu	37	chr21	16337701	16337701	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttctgagagaagcagcTgtttcagaacattaaagctt	13	13	9	6	0	2	3	1	1	1	2	2	4	2	3	0	0	4	5	0	0	4	5	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	16337701	T	C	16337701	3	2	444	1	0	0	0	0	1	0	0	0	10652	1580	55	3	667	3	NRIP1	21	16337701	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01D-1373-10		16337701	31792194	61	23011											
SIK1	150094	hgsc.bcm.edu	37	chr21	44841005	44841005	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggacgtacagcaccacGcccaggctctgttgaggacc	10	5	11	15	2	1	1	0	1	1	0	1	3	1	3	4	3	2	4	4	3	1	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		T	44841005	G	T	44841005	2	4	444	1	0	0	0	0	0	0	0	1	14319	1074	38	4		4	SIK1	21	44841005	Silent	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	28503304	44841005	3288890	62	23012											
GNAZ	2781	hgsc.bcm.edu	37	chr22	23465575	23465575	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttcgacgcggtgacagAcgtcatcatacagaacaatc	12	9	9	11	4	3	3	2	1	1	2	5	4	3	3	0	1	2	0	0	1	3	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		G	23465575	A	G	23465575	3	3	444	1	0	0	0	0	1	0	0	0	6514	275	10	3	1031	3	GNAZ	22	23465575	Missense_Mutation	SNP	A	TCGA-CZ-4858-01A-01D-1373-10		23465575	27838991	63	23013											
CELSR1	9620	hgsc.bcm.edu	37	chr22	46832125	46832125	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctccagggcgatgaagtCgtgcttctcattgaagcggc	8	10	13	10	3	2	2	1	2	2	0	5	4	2	2	1	2	2	1	1	2	2	2	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	46832125	C	A	46832125	3	1	444	1	0	0	0	0	1	0	0	0	3221	884	31	4	4704	4	CELSR1	22	46832125	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10	23366550	46832125	4472441	64	23014											
PCYT1B	9468	hgsc.bcm.edu	37	chrX	24625963	24625963	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattccatcggcgtatactCtgacaggcctgtcagctgtg	8	12	10	11	2	2	1	1	1	1	0	4	1	3	1	2	2	2	2	2	2	3	4	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	24625963	C	A	24625963	3	1	444	1	0	0	0	0	1	0	0	0	11611	913	32	4	937	4	PCYT1B	23	24625963	Missense_Mutation	SNP	C	TCGA-CZ-4858-01A-01D-1373-10		24625963	130644597	65	23015											
BTK	695	hgsc.bcm.edu	37	chrX	100611135	100611135	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgagtctggaagcggtGgcgcatctccctcaggtagt	6	10	14	11	2	3	1	1	1	2	0	4	2	3	2	1	4	2	3	1	4	2	1	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		A	100611135	G	A	100611135	3	1	444	1	0	0	0	0	1	0	0	0	1557	1348	47	2	528	2	BTK	23	100611135	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	75985172	100611135	54659425	66	23016											
SLC25A5	292	hgsc.bcm.edu	37	chrX	118605012	118605012	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtatgatgaaatcaagaaGtacacataagttatttccta	16	14	6	5	0	1	3	1	2	0	1	2	3	2	3	1	0	1	3	1	0	8	7	rs80323990	byfrequency	TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	118605012	G	C	118605012	3	2	444	1	0	0	0	0	1	0	0	0	14514	1020	36	4	902	4	SLC25A5	23	118605012	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	17993877	118605012	36665548	67	23017											
FMR1	2332	hgsc.bcm.edu	37	chrX	147011504	147011504	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacataaggattttaaaaagGcagttggtgccttttctgta	12	14	9	6	0	1	0	0	0	1	0	1	1	1	1	1	3	1	3	1	3	5	7	novel		TCGA-CZ-4858-01A-01D-1373-10	TCGA-CZ-4858-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	6eda7bd3-d11c-4d23-b0d2-2081d2dc1bdb	9d62378d-3768-46e3-a3c6-1edc22bba5e0		C	147011504	G	C	147011504	3	2	444	1	0	0	0	0	1	0	0	0	5960	1203	42	4	479	4	FMR1	23	147011504	Missense_Mutation	SNP	G	TCGA-CZ-4858-01A-01D-1373-10	28406492	147011504	8259056	68	23018											
VHL	7428	hgsc.bcm.edu	37	chr3	10183771	10183771	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcttctgcaatcgcagTccgcgcgtcgtgctgcccgt	4	11	11	15	6	3	0	1	0	2	0	6	0	4	0	2	0	3	3	2	0	1	1	novel		TCGA-CZ-4858-01A-01W-1369-10	TCGA-CZ-4858-11A-01W-1370-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	cde56908-be1f-41e6-a22d-77201c5e6148	0ae37c07-fa56-4fd7-9b40-63bfede5bbc8		G	10183771	T	G	10183771	3	3	445	1	0	0	0	0	1	0	0	0	17161	1664	58	5	242	5	VHL	3	10183771	Missense_Mutation	SNP	T	TCGA-CZ-4858-01A-01W-1369-10		10183771	187838659	1	23019											
CDKN2A	1029	hgsc.bcm.edu	37	chr9	21971163	21971164	+	In_Frame_Ins	INS	-	-	AGC																															agttgggctccgcgccgtggINSagcagcagcagctccgccac																								novel		TCGA-CZ-4858-01A-01W-1369-10	TCGA-CZ-4858-11A-01W-1370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	cde56908-be1f-41e6-a22d-77201c5e6148	0ae37c07-fa56-4fd7-9b40-63bfede5bbc8		AGC	21971164	-	AGC	21971163	7	5	445	1	0	1	1	0	0	0	0	0	3161	1174	41	0	283	0	CDKN2A	9	21971163	In_Frame_Ins	INS	-	TCGA-CZ-4858-01A-01W-1369-10		21971163	119242268	2	23020											
ZBTB48	3104	hgsc.bcm.edu;ucsc.edu	37	chr1	6647268	6647280	+	Frame_Shift_Del	DEL	TCCTCCTGCTCCC	TCCTCCTGCTCCC	-																															gtgggcctctttttcagtgtTcctcctgctcccagcagttc																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	TCCTCCTGCTCCC	TCCTCCTGCTCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	6647280	TCCTCCTGCTCCC	-	6647268	7	5	446	1	0	1	0	1	0	0	0	0	17548	1783	62	0	1159	0	ZBTB48	1	6647268	Frame_Shift_Del	DEL	TCCTCCTGCTCCC	TCGA-CZ-4859-01A-02D-1429-08		6647268	242603353	1	23021											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	16260312	16260312	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagacacaaaggcctctgAtgttgacaccagctccagca	12	6	8	15	0	1	3	0	2	1	1	2	3	2	3	4	1	2	3	4	1	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	16260312	A	C	16260312	3	2	446	1	0	0	0	0	1	0	0	0	15039	333	12	5	7619	5	SPEN	1	16260312	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	9613044	16260312	232990309	2	23022											
CYP4A11	1579	broad.mit.edu;hgsc.bcm.edu	37	chr1	47399695	47399695	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggcaccggtgggtagAgcctcagtgcctccttaatg	6	10	13	12	1	1	1	1	0	0	1	2	1	2	1	5	3	3	2	5	3	2	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	47399695	A	G	47399695	3	3	446	1	0	0	0	0	1	0	0	0	4183	304	11	3	430	3	CYP4A11	1	47399695	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	31139383	47399695	201850926	3	23023											
JAK1	3716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	65344794	65344794	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcttggtgttctcgtcAtacagggcaaagaggttgtg	9	11	14	7	1	2	2	1	0	1	2	3	2	2	2	0	3	2	4	0	3	2	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	65344794	A	T	65344794	4	4	446	1	0	0	0	0	0	1	0	0	7937	224	8	5	3309	5	JAK1	1	65344794	Nonsense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	17945099	65344794	183905827	4	23024											
ABCD3	5825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94943864	94943864	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taagttaacgagtgcaattgGagctcaggtgagtctgcttt	10	13	12	6	1	2	1	1	1	1	0	2	3	2	2	0	2	4	4	0	2	3	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	94943864	G	A	94943864	3	1	446	1	0	0	0	0	1	0	0	0	62	1174	41	2	707	2	ABCD3	1	94943864	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	29599070	94943864	154306757	5	23025											
RPRD2	23248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	150444821	150444821	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggttggtttgatctgagcAcatcaggtagctcttttgac	7	15	12	7	0	3	3	1	3	2	0	3	3	3	3	0	3	2	5	0	3	1	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	150444821	A	G	150444821	3	3	446	1	0	0	0	0	1	0	0	0	13619	159	6	3	3439	3	RPRD2	1	150444821	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	55500957	150444821	98805800	6	23026											
KPRP	448834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152732829	152732829	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcggagcaccagcagatgCcttcctcctcctcggcggct	5	9	10	17	3	1	1	0	0	1	1	6	2	4	2	5	3	3	3	5	3	0	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	152732829	C	A	152732829	4	1	446	1	0	0	0	0	0	1	0	0	8436	747	26	4	767	4	KPRP	1	152732829	Nonsense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	2288008	152732829	96517792	7	23027											
NUP210L	91181	hgsc.bcm.edu;ucsc.edu	37	chr1	154026805	154026807	+	In_Frame_Del	DEL	TAT	TAT	-																															ccctgtaacttgccccctccTattaacaacagccacggtct																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	TAT	TAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	154026807	TAT	-	154026805	7	5	446	1	0	1	0	1	0	0	0	0	10761	1521	53	0	2348	0	NUP210L	1	154026805	In_Frame_Del	DEL	TAT	TCGA-CZ-4859-01A-02D-1429-08	1293976	154026805	95223816	8	23028											
CLK2	1196	broad.mit.edu;ucsc.edu	37	chr1	155238498	155238498	+	Splice_Site	DEL	C	-	-																															ttgttacgatttggcttgtaCatcgctcttgtagccagtcc																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	155238498	-	-	155238498	8	5	446	1	0	1	0	1	0	0	1	0	3537	492	17	0	1051	0	CLK2	1	155238498	Splice_Site	DEL	C	TCGA-CZ-4859-01A-02D-1429-08	1211693	155238498	94012123	9	23029											
MYOC	4653	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171605694	171605694	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatactcaaaaacctggcGgacatccgtgccaactgtgt	11	9	9	12	2	2	0	2	0	0	0	3	1	3	1	3	2	4	0	3	2	4	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	171605694	G	A	171605694	3	1	446	1	0	0	0	0	1	0	0	0	10086	1116	39	1	632	1	MYOC	1	171605694	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	16367196	171605694	77644927	10	23030											
TARBP1	6894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234536934	234536934	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctctactcacctctagaCaataatccttgagtgggtga	11	13	7	10	0	3	3	1	2	2	1	5	3	4	3	2	1	1	0	2	1	4	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	234536934	C	T	234536934	3	4	446	1	0	0	0	0	1	0	0	0	15554	478	17	2	825	2	TARBP1	1	234536934	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	62931240	234536934	14713687	11	23031											
RBM34	23029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235318310	235318311	+	Frame_Shift_Del	DEL	TG	TG	-																															tgactgacaactgtgtcttcTgtgtcatcaagtatttttct																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	235318311	TG	-	235318310	7	5	446	1	0	1	0	1	0	0	0	0	13133	1567	55	0	862	0	RBM34	1	235318310	Frame_Shift_Del	DEL	TG	TCGA-CZ-4859-01A-02D-1429-08	781376	235318310	13932311	12	23032											
APOB	338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	21225676	21225676	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctagtgtatatcccaggtttCcccggaaactggaatctggg	9	11	11	10	1	1	0	0	0	1	0	3	2	3	2	3	4	1	2	3	4	5	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	21225676	C	T	21225676	2	4	446	1	0	0	0	0	0	0	0	1	785	842	30	2		2	APOB	2	21225676	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08		21225676	221973697	13	23033											
IFT172	26160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27704017	27704017	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcaaaagtttgtagcatGtgaccttcttttccataggc	11	15	7	8	0	2	1	1	1	1	0	3	1	3	1	2	1	1	3	2	1	5	7	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	27704017	G	T	27704017	3	4	446	1	0	0	0	0	1	0	0	0	7557	1368	48	4	4732	4	IFT172	2	27704017	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	6478341	27704017	215495356	14	23034											
SLC3A1	6519	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44507853	44507853	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactttgacttttttcttcAggtattcaagataaactgga	11	17	7	6	0	3	3	2	2	1	1	3	4	3	4	0	2	1	1	0	2	4	8	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	44507853	A	G	44507853	5	3	446	1	0	0	0	0	0	0	1	0	14628	202	7	3	435	3	SLC3A1	2	44507853	Splice_Site	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	16803836	44507853	198691520	15	23035											
SLC4A5	57835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74477471	74477471	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccggctcgcacacaccTgataattgtcggtggcatcc	8	8	11	14	3	0	1	0	1	0	0	3	1	1	1	3	4	0	4	3	4	1	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	74477471	T	A	74477471	3	1	446	1	0	0	0	0	1	0	0	0	14659	1594	55	5	1821	5	SLC4A5	2	74477471	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	29969618	74477471	168721902	16	23036											
INPP4A	3631	hgsc.bcm.edu;ucsc.edu	37	chr2	99156037	99156037	+	Frame_Shift_Del	DEL	T	T	-																															taccggtttccaaccactgaTggtaaccatttgcggatcct																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	99156037	T	-	99156037	7	5	446	1	0	1	0	1	0	0	0	0	7752	1461	51	0	747	0	INPP4A	2	99156037	Frame_Shift_Del	DEL	T	TCGA-CZ-4859-01A-02D-1429-08	24678566	99156037	144043336	17	23037											
CYP27C1	339761	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	127961091	127961091	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataaatggccacatctttcGgtttcagaattctttgtctc	10	16	6	9	1	4	1	1	0	3	1	6	1	4	1	1	2	0	1	1	2	4	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	127961091	G	C	127961091	3	2	446	1	0	0	0	0	1	0	0	0	4160	1116	39	4	1111	4	CYP27C1	2	127961091	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	28805054	127961091	115238282	18	23038											
LRP1B	53353	hgsc.bcm.edu;ucsc.edu	37	chr2	141812795	141812796	+	Frame_Shift_Del	DEL	CC	CC	-																															gtgaacagccccctggcattCcatatggatcgacttcacat																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	141812796	CC	-	141812795	7	5	446	1	0	1	0	1	0	0	0	0	8955	855	30	0	12685	0	LRP1B	2	141812795	Frame_Shift_Del	DEL	CC	TCGA-CZ-4859-01A-02D-1429-08	13851704	141812795	101386578	19	23039											
TTN	7273	broad.mit.edu	37	chr2	179434729	179434729	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctcagcagaaactctgAactcataatcgtgattttct	12	14	5	10	1	4	3	2	2	3	1	6	3	4	3	0	0	3	1	0	0	3	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	179434729	C	C	179434729	3	2	446	1	0	0	0	0	1	0	0	0	16734	246	9	5	31997	5	TTN	2	179434729	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	37621934	179434729	63764644	20	23040											
SCN5A	6331	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38647616	38647616	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgaagaagatcatgtaGatcttccctgcggacctgag	12	9	11	9	1	2	5	1	2	1	3	3	6	3	6	2	1	2	2	2	1	3	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	38647616	G	T	38647616	2	4	446	1	0	0	0	0	0	0	0	1	13924	932	33	4		4	SCN5A	3	38647616	Silent	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		38647616	159374814	21	23041											
LIMD1	8994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	45637344	45637344	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggggtgaggtttcaggtGtgatgtccaaacccaatgtg	8	11	16	6	0	1	2	1	2	0	0	2	2	2	2	2	5	1	1	2	5	2	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	45637344	G	C	45637344	3	2	446	1	0	0	0	0	1	0	0	0	8798	1377	48	4	975	4	LIMD1	3	45637344	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	6989728	45637344	152385086	22	23042											
SPINK8	646424	broad.mit.edu	37	chr3	48362546	48362546	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctagctgacctctttcagagGccataggaagggggaagtct	10	9	13	9	0	3	2	1	1	2	1	3	4	3	4	2	4	1	1	2	4	4	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	48362546	T	T	48362546	3	4	446	1	0	0	0	0	1	0	0	0	15066	1203	42	4	223	4	SPINK8	3	48362546	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	2725202	48362546	149659884	23	23043											
FAM116A	0	broad.mit.edu	37	chr3	57678668	57678668	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaagggccggcgcctcgcgGccctcggcccctgccaccgc	4	3	13	21	6	0	0	0	0	0	0	2	0	0	0	7	4	1	0	7	4	1	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	57678668	A	A	57678668	2	1	446	1	0	0	0	0	0	0	0	1	5407	1190	42	2		2	FAM116A	3	57678668	Silent	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	9316122	57678668	140343762	24	23044											
WDR5B	54554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122133533	122133533	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttagtctgaaggttccaAatgtaaaccaggttatcctc	11	14	7	9	0	2	1	0	1	2	0	5	1	4	1	3	2	1	3	3	2	6	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	122133533	A	T	122133533	2	4	446	1	0	0	0	0	0	0	0	1	17308	10	1	5		5	WDR5B	3	122133533	Silent	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	64454865	122133533	75888897	25	23045											
ZIC4	84107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	147114035	147114035	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcaggttcatgcccccgtAgccatgcagggctgcggcag	6	7	14	14	3	2	0	2	0	0	0	2	0	2	0	3	3	4	5	3	3	1	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	147114035	A	G	147114035	3	3	446	1	0	0	0	0	1	0	0	0	17680	420	15	3	724	3	ZIC4	3	147114035	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	24980502	147114035	50908395	26	23046											
TNIK	23043	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	170945979	170945979	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacatccataaccttgatgGctgcaagctggcccgttttg	8	12	10	11	1	0	2	0	2	0	0	1	2	1	2	3	2	3	4	3	2	2	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	170945979	G	A	170945979	3	1	446	1	0	0	0	0	1	0	0	0	16312	1203	42	2	4051	2	TNIK	3	170945979	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	23831944	170945979	27076451	27	23047											
DNAJB11	51726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186299285	186299285	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaggaggtggtctgcgaCgaatgccctaatgtcaagta	11	8	12	10	2	2	0	1	0	1	0	2	3	2	1	2	3	2	1	2	3	4	2	rs138789127		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	186299285	C	T	186299285	2	4	446	1	0	0	0	0	0	0	0	1	4616	535	19	1		1	DNAJB11	3	186299285	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	15353306	186299285	11723145	28	23048											
AASDH	132949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57215942	57215942	+	Frame_Shift_Del	DEL	T	T	-																															ggctttctgatgtaaagatgTtccactggcttcctcttgat																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	57215942	T	-	57215942	7	5	446	1	0	1	0	1	0	0	0	0	22	1725	60	0	1341	0	AASDH	4	57215942	Frame_Shift_Del	DEL	T	TCGA-CZ-4859-01A-02D-1429-08		57215942	133938334	29	23049											
TMPRSS11A	339967	broad.mit.edu;ucsc.edu	37	chr4	68780433	68780433	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactctggcttctcggagaTcattttgggattccccttaa	7	15	8	11	1	4	1	2	0	2	1	6	3	5	2	2	3	0	1	2	3	1	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	68780433	C	C	68780433	3	2	446	1	0	0	0	0	1	0	0	0	16238	1435	50	3	296	3	TMPRSS11A	4	68780433	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	11564491	68780433	122373843	30	23050											
FAT1	2195	broad.mit.edu;hgsc.bcm.edu	37	chr4	187535488	187535488	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtcttcaggaatagtgtctGaatataaagtctgcaaagag	14	11	10	6	1	4	2	1	1	3	1	4	3	4	3	0	1	1	1	0	1	7	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	187535488	G	A	187535488	3	1	446	1	0	0	0	0	1	0	0	0	5689	1294	45	2	4744	2	FAT1	4	187535488	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	118755055	187535488	3618788	31	23051											
WDR70	55100	broad.mit.edu;hgsc.bcm.edu	37	chr5	37379472	37379472	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggtgtgcggccagccatGgagcgctctgggcccagcga	5	6	18	12	3	1	0	0	0	1	0	1	2	1	1	3	5	4	1	3	5	0	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	37379472	G	A	37379472	3	1	446	1	0	0	0	0	1	0	0	0	17320	1348	47	2	5	2	WDR70	5	37379472	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		37379472	143535788	32	23052											
PCDHGB7	56099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140798209	140798209	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgcctccaggcacctccatCctgagagtgaaggccactga	9	7	11	14	0	0	3	0	3	0	1	3	4	3	3	6	2	1	1	6	2	1	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	140798209	C	T	140798209	2	4	446	1	0	0	0	0	0	0	0	1	11568	845	30	2		2	PCDHGB7	5	140798209	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	103418737	140798209	40117051	33	23053											
PCDHGC5	56097	broad.mit.edu;ucsc.edu	37	chr5	140890569	140890569	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggcaccatgggattgagCgcccgctacggaccccagtt	7	6	13	15	4	0	1	0	1	0	0	0	3	0	3	5	3	2	3	5	3	1	3	rs143630962		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	140890569	T	T	140890569	2	4	446	1	0	0	0	0	0	0	0	1	11571	767	27	1		1	PCDHGC5	5	140890569	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	92360	140890569	40024691	34	23054											
G3BP1	10146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	151166245	151166245	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgagacagtattacacaCtgctgaaccaggccccagac	12	8	9	12	0	0	3	0	2	0	2	0	4	0	3	3	1	3	2	3	1	3	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	151166245	C	T	151166245	2	4	446	1	0	0	0	0	0	0	0	1	6141	564	20	2		2	G3BP1	5	151166245	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	10275676	151166245	29749015	35	23055											
DOCK2	1794	broad.mit.edu	37	chr5	169494626	169494626	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctccccatcaacccacTctccatgctcctgaacggga	9	7	6	19	1	2	1	1	1	1	0	5	3	4	2	6	1	3	1	6	1	2	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	169494626	A	A	169494626	3	1	446	1	0	0	0	0	1	0	0	0	4687	1551	54	5	4758	5	DOCK2	5	169494626	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	18328381	169494626	11420634	36	23056											
B3GALT4	8705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33246066	33246066	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaccccttctcccattagaGgatgtctttgtgggggtaag	7	12	12	10	0	2	1	0	0	2	1	3	2	2	2	3	3	0	2	3	3	2	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	33246066	G	T	33246066	3	4	446	1	0	0	0	0	1	0	0	0	1249	991	35	4	872	4	B3GALT4	6	33246066	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		33246066	137869001	37	23057											
PRIM2	5558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	57185282	57185282	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagttgaaaatcttggagTgagctatgtgaaaggaactg	14	11	12	4	0	2	3	1	3	1	0	2	5	2	5	0	2	2	2	0	2	5	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	57185282	T	A	57185282	3	1	446	1	0	0	0	0	1	0	0	0	12493	1696	59	5	188	5	PRIM2	6	57185282	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	23939216	57185282	113929785	38	23058											
IMPG1	3617	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	76715159	76715159	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctcactttcaattttgttgGaatcaaaagacaggaggtca	13	12	8	8	0	4	1	4	0	0	1	4	3	4	3	1	3	0	1	1	3	4	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	76715159	G	A	76715159	3	1	446	1	0	0	0	0	1	0	0	0	7728	1174	41	2	1445	2	IMPG1	6	76715159	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	19529877	76715159	94399908	39	23059											
AIM1	202	broad.mit.edu;hgsc.bcm.edu	37	chr6	106987378	106987378	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatacagaagaagcgtacAttggatccatgcggcctctg	11	8	13	9	2	1	2	0	0	1	2	2	4	2	4	2	3	4	1	2	3	4	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	106987378	A	G	106987378	3	3	446	1	0	0	0	0	1	0	0	0	430	217	8	3	3621	3	AIM1	6	106987378	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	30272219	106987378	64127689	40	23060											
TMEM195	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	15433778	15433778	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaggagtattaagaatcagTtccaaaggaccaaggttatt	15	11	9	6	0	1	1	1	0	0	1	2	3	2	3	2	3	0	3	2	3	7	6	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	15433778	T	C	15433778	2	2	446	1	0	0	0	0	0	0	0	1	16116	1722	60	3		3	TMEM195	7	15433778	Silent	SNP	T	TCGA-CZ-4859-01A-02D-1429-08		15433778	143704885	41	23061											
ABCB5	340273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	20739468	20739468	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttggaaataatgataaAaccacattaaagcatgatgc	18	11	7	5	0	0	2	0	2	0	0	0	3	0	3	1	1	3	2	1	1	6	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	20739468	A	G	20739468	2	3	446	1	0	0	0	0	0	0	0	1	44	11	1	3		3	ABCB5	7	20739468	Silent	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	5305690	20739468	138399195	42	23062											
POLM	27434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	44113448	44113448	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcaactaccaagtccacTctcacggccttccaggatgg	9	8	10	14	1	1	0	1	0	1	0	4	1	3	1	4	4	3	1	4	4	3	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	44113448	T	C	44113448	2	2	446	1	0	0	0	0	0	0	0	1	12206	1548	54	3		3	POLM	7	44113448	Silent	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	23373980	44113448	115025215	43	23063											
ABCA13	154664	broad.mit.edu;ucsc.edu	37	chr7	48682951	48682951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcaacattgcactgtttctGaccacttgaagctttatttt	10	17	5	9	0	2	2	1	2	1	0	2	2	2	2	1	0	3	3	1	0	3	7	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	48682951	A	A	48682951	3	1	446	1	0	0	0	0	1	0	0	0	31	1290	45	2	14972	2	ABCA13	7	48682951	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	4569503	48682951	110455712	44	23064											
RUNDC3B	154661	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	87445570	87445570	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagacacattaaatgtaatGagtgaaggtaagaaaacaaa	22	7	8	4	0	0	4	0	2	0	2	0	4	0	4	0	1	1	2	0	1	9	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	87445570	G	A	87445570	3	1	446	1	0	0	0	0	1	0	0	0	13747	1290	45	2	1311	2	RUNDC3B	7	87445570	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	38762619	87445570	71693093	45	23065											
MGAM	8972	hgsc.bcm.edu	37	chr7	141760115	141760115	+	Frame_Shift_Del	DEL	G	G	-																															gtatttctctccataggtctGgcctgattttcctgatgttg																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	141760115	G	-	141760115	7	5	446	1	0	1	0	1	0	0	0	0	9541	1357	47	0	4194	0	MGAM	7	141760115	Frame_Shift_Del	DEL	G	TCGA-CZ-4859-01A-02D-1429-08	54314545	141760115	17378548	46	23066											
IARS	3376	broad.mit.edu;ucsc.edu	37	chr9	95027315	95027315	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaacctgagcatagggcatGctgccactctcaaaccaaca	13	7	8	13	0	1	2	1	2	1	0	2	2	1	2	3	1	6	3	3	1	4	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	95027315	A	A	95027315	2	1	446	1	0	0	0	0	0	0	0	1	7473	1310	46	2		2	IARS	9	95027315	Silent	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		95027315	46186116	47	23067											
FAM120A	23196	broad.mit.edu	37	chr9	96320221	96320221	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccacctgccctgcccttctAccctgcctctgcgtaccccc	3	9	6	23	1	2	0	0	0	2	0	2	0	2	0	8	0	6	1	8	0	2	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	96320221	C	C	96320221	3	2	446	1	0	0	0	0	1	0	0	0	5415	391	14	5	2651	5	FAM120A	9	96320221	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	1292906	96320221	44893210	48	23068											
ANKRD30A	91074	broad.mit.edu	37	chr10	37478443	37478443	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgtgtttacccaaggctAcgcatcaaaaagaaatagat	16	10	8	7	1	1	2	1	0	0	2	1	2	1	2	1	1	2	3	1	1	7	4	rs71283286	alternate_allele	TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	37478443	G	G	37478443	3	3	446	1	0	0	0	0	1	0	0	0	658	391	14	3	2400	3	ANKRD30A	10	37478443	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08		37478443	98056304	49	23069											
NCOA4	8031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	51584968	51584968	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcagggaaaccagcccaAaggtgtggagattgaaaacc	14	6	12	9	0	1	2	1	1	0	1	1	4	1	3	3	3	3	0	3	3	4	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	51584968	A	C	51584968	3	2	446	1	0	0	0	0	1	0	0	0	10231	14	1	5	1145	5	NCOA4	10	51584968	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	14106525	51584968	83949779	50	23070											
PLCE1	51196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	95791726	95791726	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacttccctgataattgtgAtgatgtagaagaagacgctt	12	12	11	6	1	0	6	0	3	0	3	1	7	1	7	1	1	0	2	1	1	4	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	95791726	A	G	95791726	3	3	446	1	0	0	0	0	1	0	0	0	12034	333	12	3	925	3	PLCE1	10	95791726	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	44206758	95791726	39743021	51	23071											
SLC25A28	81894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	101373512	101373512	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcaatgtcttttttaacTtttcgtagcaggcaaaataa	13	15	5	8	1	2	0	1	0	1	0	3	0	2	0	0	1	2	3	0	1	6	7	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	101373512	T	G	101373512	3	3	446	1	0	0	0	0	1	0	0	0	14493	1609	56	5	645	5	SLC25A28	10	101373512	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	5581786	101373512	34161235	52	23072											
C10orf79	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	105924006	105924007	+	Frame_Shift_Ins	INS	-	-	A																															ttcaaactctttttgtttatINSatgcagcgtcaaactcatta																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	105924007	-	A	105924006	7	5	446	1	0	1	1	0	0	0	0	0	1618	1406	49	0	1965	0	C10orf79	10	105924006	Frame_Shift_Ins	INS	-	TCGA-CZ-4859-01A-02D-1429-08	4550494	105924006	29610741	53	23073	324	2									
C10orf79	0	hgsc.bcm.edu	37	chr10	105924008	105924008	+	Silent	SNP	T	T	C																															tcaaactctttttgtttataTgcagcgtcaaactcattatt																								rs146641264	byfrequency	TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	105924008	T	C	105924008	2	2	446	1	0	0	0	0	0	0	0	1	1618	1451	51	3		3	C10orf79	10	105924008	Silent	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	2	105924008	29610739	54	23074	324	2									
HBG1	3047	hgsc.bcm.edu	37	chr11	5271024	5271024	+	Frame_Shift_Del	DEL	A	A	-																															tagccttgtcctcctctgtgAaatgacccatggcgtctgga																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	5271024	A	-	5271024	7	5	446	1	0	1	0	1	0	0	0	0	6982	246	9	0	444	0	HBG1	11	5271024	Frame_Shift_Del	DEL	A	TCGA-CZ-4859-01A-02D-1429-08		5271024	129735492	55	23075											
HBG2	3048	hgsc.bcm.edu	37	chr11	5275948	5275948	+	Frame_Shift_Del	DEL	A	A	-																															tagccttgtcctcctctgtgAaatgacccatggcgtctgga																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	5275948	A	-	5275948	7	5	446	1	0	1	0	1	0	0	0	0	6983	246	9	0	444	0	HBG2	11	5275948	Frame_Shift_Del	DEL	A	TCGA-CZ-4859-01A-02D-1429-08	4924	5275948	129730568	56	23076											
GAS2	2620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	22707336	22707336	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgctaacaagcccacaaagGtaaaagatcccaatgcaaaa	20	5	6	10	0	0	1	0	0	0	1	1	1	1	1	2	1	4	3	2	1	8	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	22707336	G	C	22707336	5	2	446	1	0	0	0	0	0	0	1	0	6245	1275	44	4	274	4	GAS2	11	22707336	Splice_Site	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	17431388	22707336	112299180	57	23077											
KIF18A	81930	broad.mit.edu;ucsc.edu	37	chr11	28045366	28045366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggcaaatccagaatttaCgtctgcagttaacgaactgt	12	13	8	8	2	1	1	0	0	1	1	2	2	2	1	1	1	4	3	1	1	5	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	28045366	T	T	28045366	3	4	446	1	0	0	0	0	1	0	0	0	8280	536	19	1	168	1	KIF18A	11	28045366	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	5338030	28045366	106961150	58	23078											
TUT1	64852	broad.mit.edu;hgsc.bcm.edu	37	chr11	62348882	62348882	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaagaactctgtgaagacctCctgcatcagggccaccacta	12	7	9	13	0	2	3	1	1	1	2	3	4	3	3	4	1	2	1	4	1	4	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	62348882	C	G	62348882	3	3	446	1	0	0	0	0	1	0	0	0	16779	864	30	4	2087	4	TUT1	11	62348882	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	34303516	62348882	72657634	59	23079											
NOX4	50507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	89223701	89223701	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttccagaaaagcaggacAttcatggagagccagatgaa	15	8	11	7	0	1	4	1	1	0	3	2	6	2	5	2	2	2	2	2	2	3	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	89223701	A	G	89223701	2	3	446	1	0	0	0	0	0	0	0	1	10558	214	8	3		3	NOX4	11	89223701	Silent	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	26874819	89223701	45782815	60	23080											
APLP2	334	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	129999984	129999984	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgtccgtgctgagaacaaaGatcgcttacataccatccgt	12	10	8	11	3	0	2	0	1	0	2	3	3	2	2	3	0	4	2	3	0	4	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	129999984	G	C	129999984	3	2	446	1	0	0	0	0	1	0	0	0	779	942	33	4	1549	4	APLP2	11	129999984	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	40776283	129999984	5006532	61	23081											
TPI1	7167	broad.mit.edu;hgsc.bcm.edu	37	chr12	6979622	6979622	+	RNA	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcccagtaactgccctttcCctgcatatgcttctgatggt	7	13	8	13	0	1	1	0	1	1	0	2	1	2	1	3	1	5	3	3	1	2	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	6979622	C	T	6979622	1	4	446	0	1	0	0	0	0	0	0	0	16402	638	22	2		2	TPI1	12	6979622	RNA	SNP	C	TCGA-CZ-4859-01A-02D-1429-08		6979622	126872273	62	23082											
LRP1	4035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57590881	57590881	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaacactcatggcagctaTaagtgtctgtgtgtggaggg	10	11	13	7	0	3	0	2	0	1	0	3	1	3	1	0	3	2	2	0	3	3	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	57590881	T	A	57590881	4	1	446	1	0	0	0	0	0	1	0	0	8951	1413	49	5	9231	5	LRP1	12	57590881	Nonsense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	50611259	57590881	76261014	63	23083											
APPL2	55198	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	105589090	105589090	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacttgtaatgggagtcactGcttgcagagcggtctgattc	9	12	12	8	1	2	2	1	1	1	1	3	3	2	3	0	2	4	3	0	2	2	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	105589090	G	A	105589090	3	1	446	1	0	0	0	0	1	0	0	0	818	1319	46	2	836	2	APPL2	12	105589090	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	47998209	105589090	28262805	64	23084											
TRAFD1	10906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	112572550	112572550	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttccgtagcaaaaaagAaattcctgtgtttaacttta	14	15	5	7	1	0	1	0	0	0	1	2	1	2	1	2	0	2	3	2	0	8	8	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	112572550	A	G	112572550	3	3	446	1	0	0	0	0	1	0	0	0	16446	246	9	3	62	3	TRAFD1	12	112572550	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	6983460	112572550	21279345	65	23085											
PAN3	255967	broad.mit.edu;hgsc.bcm.edu	37	chr13	28750663	28750663	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtagcagctccccaagccttCtaaatgacagtgccaagcca	12	7	8	14	0	1	1	0	1	1	0	2	1	2	1	5	0	5	3	5	0	5	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	28750663	C	G	28750663	3	3	446	1	0	0	0	0	1	0	0	0	11415	912	32	4	596	4	PAN3	13	28750663	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08		28750663	86419215	66	23086											
DNAJC15	29103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	43652822	43652822	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggtcttattttaggtgtAaggtaggtgtgcagcataag	9	14	14	4	0	1	0	0	0	1	0	1	0	1	0	0	4	2	5	0	4	5	6	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	43652822	A	T	43652822	2	4	446	1	0	0	0	0	0	0	0	1	4634	349	13	5		5	DNAJC15	13	43652822	Silent	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	14902159	43652822	71517056	67	23087											
ITM2B	9445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	48830433	48830438	+	In_Frame_Del	DEL	GAAGAA	GAAGAA	-																															aagaaaatattaaaatctttGaagaagaagaagttgaattt																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	GAAGAA	GAAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	48830438	GAAGAA	-	48830433	7	5	446	1	0	1	0	1	0	0	0	0	7913	1291	45	0	377	0	ITM2B	13	48830433	In_Frame_Del	DEL	GAAGAA	TCGA-CZ-4859-01A-02D-1429-08	5177611	48830433	66339445	68	23088											
FAM155A	728215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	108518168	108518168	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgacgcactgcctgcaagtGgtcatctcgccgccttcctt	5	11	9	16	4	2	0	1	0	1	0	5	1	3	0	4	1	2	2	4	1	1	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	108518168	G	T	108518168	2	4	446	1	0	0	0	0	0	0	0	1	5465	1335	47	4		4	FAM155A	13	108518168	Silent	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	59687735	108518168	6651710	69	23089											
TMCO3	55002	hgsc.bcm.edu;ucsc.edu	37	chr13	114156172	114156173	+	Frame_Shift_Ins	INS	-	-	CTTCAGGA																															ttgtggtgtacttctgggacINScttcaggactaaatagtatt																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		CTTCAGGA	114156173	-	CTTCAGGA	114156172	7	5	446	1	0	1	1	0	0	0	0	0	15996	507	18	0	936	0	TMCO3	13	114156172	Frame_Shift_Ins	INS	-	TCGA-CZ-4859-01A-02D-1429-08	5638004	114156172	1013706	70	23090											
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64532268	64532268	+	Missense_Mutation	SNP	C	C	T																															atgtttgctcaagattgtgtCggctctgtgggagaaatggc																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	64532268	C	T	64532268	3	4	446	1	0	0	0	0	1	0	0	0	15445	893	31	1	10529	1	SYNE2	14	64532268	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08		64532268	42817272	71	23091	325	2									
SYNE2	23224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64532269	64532269	+	Silent	SNP	G	G	C																															tgtttgctcaagattgtgtcGgctctgtgggagaaatggct																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	64532269	G	C	64532269	2	2	446	1	0	0	0	0	0	0	0	1	15445	1103	39	4		4	SYNE2	14	64532269	Silent	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	1	64532269	42817271	72	23092	325	2									
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71444679	71444679	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcaaaaggaaggggatgTtcgacctaaatcttctagcg	15	8	11	7	2	2	0	0	0	2	0	3	3	2	2	1	3	2	2	1	3	7	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	71444679	T	A	71444679	3	1	446	1	0	0	0	0	1	0	0	0	11591	1725	60	5	1647	5	PCNX	14	71444679	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	6912410	71444679	35904861	73	23093											
ALDH1A2	8854	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	58257978	58257978	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaagttccagagttacTctcttcaaattacttcttcc	9	15	3	14	0	3	1	1	0	2	1	7	1	6	1	4	0	2	2	4	0	4	6	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	58257978	T	A	58257978	3	1	446	1	0	0	0	0	1	0	0	0	491	1548	54	5	734	5	ALDH1A2	15	58257978	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08		58257978	44273414	74	23094											
PIAS1	8554	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	68457098	68457098	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgactgcggatccagacAgtgaaatagctacaaccagc	14	7	10	10	1	0	3	0	2	0	1	1	4	1	4	2	1	5	2	2	1	4	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	68457098	A	G	68457098	3	3	446	1	0	0	0	0	1	0	0	0	11875	188	7	3	994	3	PIAS1	15	68457098	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	10199120	68457098	34074294	75	23095											
LMAN1L	79748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75108801	75108801	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccggggcaggggccatgtaGgctctgtccttggggggctg	3	8	19	11	1	1	0	0	0	1	0	2	0	2	0	3	8	0	4	3	8	1	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	75108801	G	A	75108801	3	1	446	1	0	0	0	0	1	0	0	0	8837	1000	35	2	374	2	LMAN1L	15	75108801	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	6651703	75108801	27422591	76	23096											
EME2	197342	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1825398	1825398	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtggccgtcagctggccgGaggtggaagaggtgagggcc	7	5	21	8	2	1	2	1	1	0	1	1	4	1	4	3	8	1	1	3	8	1	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	1825398	G	T	1825398	4	4	446	1	0	0	0	0	0	1	0	0	5089	1175	41	4	802	4	EME2	16	1825398	Nonsense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		1825398	88529355	77	23097											
TSC2	7249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2134519	2134519	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtgctgcctggtcggcCtcgggcgaagacagtcgggg	7	6	18	10	4	0	1	0	0	0	1	3	3	0	1	2	5	2	1	2	5	2	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	2134519	C	G	2134519	2	3	446	1	0	0	0	0	0	0	0	1	16605	668	24	4		4	TSC2	16	2134519	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	309121	2134519	88220234	78	23098											
KIAA0174	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71961673	71961673	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgaagacattgactttgAtgatctttcccggaggtttg	9	15	10	7	1	2	5	0	4	2	1	3	6	3	6	1	2	0	1	1	2	1	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	71961673	A	G	71961673	3	3	446	1	0	0	0	0	1	0	0	0	8158	333	12	3	1088	3	KIAA0174	16	71961673	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	69827154	71961673	18393080	79	23099											
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3945851	3945851	+	Frame_Shift_Del	DEL	A	A	-																															cttctgagatgacacttctgAatcttcagcatctaagtggt																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		-	3945851	A	-	3945851	7	5	446	1	0	1	0	1	0	0	0	0	18254	246	9	0	2775	0	ZZEF1	17	3945851	Frame_Shift_Del	DEL	A	TCGA-CZ-4859-01A-02D-1429-08		3945851	77249359	80	23100											
VTN	7448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26696549	26696549	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaaggcaaagagggaacCgttcttgaggtcggtgaagg	11	7	17	6	3	1	3	0	2	1	1	3	5	1	5	1	6	1	2	1	6	4	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	26696549	C	G	26696549	3	3	446	1	0	0	0	0	1	0	0	0	17236	652	23	4	952	4	VTN	17	26696549	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	22750698	26696549	54498661	81	23101											
SEZ6	124925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27287870	27287870	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctcaaagtgcaggtgtagCcgctggccctcaggagcctc	7	9	12	13	1	2	0	2	0	1	0	4	1	2	1	3	3	3	3	3	3	2	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	27287870	C	T	27287870	2	4	446	1	0	0	0	0	0	0	0	1	14144	726	26	2		2	SEZ6	17	27287870	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	591321	27287870	53907340	82	23102											
SUZ12	23512	broad.mit.edu;hgsc.bcm.edu	37	chr17	30310113	30310113	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaacatgggagactattcTtgatgggaaggtatggacta	13	10	13	5	0	1	2	0	1	1	1	1	5	1	4	0	4	2	2	0	4	5	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	30310113	T	A	30310113	3	1	446	1	0	0	0	0	1	0	0	0	15415	1609	56	5	1047	5	SUZ12	17	30310113	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	3022243	30310113	50885097	83	23103											
C17orf75	64149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	30660470	30660470	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccagtacttgtcggaaaAgaaaagggttacctcctttg	11	12	9	9	1	1	1	0	0	1	1	4	2	2	2	3	2	2	2	3	2	6	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	30660470	A	G	30660470	3	3	446	1	0	0	0	0	1	0	0	0	1880	72	3	3	257	3	C17orf75	17	30660470	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	350357	30660470	50534740	84	23104											
ERBB2	2064	hgsc.bcm.edu;ucsc.edu	37	chr17	37871549	37871550	+	Frame_Shift_Ins	INS	-	-	C																															cccctccagggacccagcctINSccaacactgccccgctccag																								novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	37871550	-	C	37871549	7	5	446	1	0	1	1	0	0	0	0	0	5206	1551	54	0	1197	0	ERBB2	17	37871549	Frame_Shift_Ins	INS	-	TCGA-CZ-4859-01A-02D-1429-08	7211079	37871549	43323661	85	23105											
ORMDL3	94103	broad.mit.edu;ucsc.edu	37	chr17	38079479	38079479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggtccggggtctcaaagGgtgtccccttcaccgtgtgc	4	10	13	14	2	2	0	2	0	1	0	5	0	4	0	5	4	1	0	5	4	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	38079479	T	T	38079479	3	4	446	1	0	0	0	0	1	0	0	0	11271	1232	43	4	257	4	ORMDL3	17	38079479	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	207930	38079479	43115731	86	23106											
NBR1	4077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41341626	41341626	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagagaacaagtggttaacGaaacggttgagaagcttgaa	16	8	12	5	2	1	3	1	2	0	2	1	6	1	3	0	2	4	3	0	2	6	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	41341626	G	A	41341626	3	1	446	1	0	0	0	0	1	0	0	0	10200	1059	37	1	528	1	NBR1	17	41341626	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	3262147	41341626	39853584	87	23107											
MAPT	4137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	44061288	44061288	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtcagccgggtccctcAactcaaaggtctgtgtcttg	6	10	11	14	2	5	0	3	0	2	0	6	0	6	0	3	2	2	0	3	2	2	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	44061288	A	G	44061288	3	3	446	1	0	0	0	0	1	0	0	0	9297	130	5	3	1136	3	MAPT	17	44061288	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	2719662	44061288	37133922	88	23108											
MED13	9969	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60129921	60129921	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatttataggtttttcatcTttttcataaggctttacaaa	11	21	4	5	0	3	0	2	0	1	0	3	0	3	0	0	2	1	2	0	2	6	11	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	60129921	T	C	60129921	2	2	446	1	0	0	0	0	0	0	0	1	9430	1606	56	3		3	MED13	17	60129921	Silent	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	16068633	60129921	21065289	89	23109											
ENPP7	339221	broad.mit.edu	37	chr17	77707422	77707422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgggacaacggcagcGtgcccatctggatcacagcc	8	6	15	12	2	2	0	1	0	1	0	2	2	2	2	2	5	4	1	2	5	1	0	rs145931726		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	77707422	A	A	77707422	3	1	446	1	0	0	0	0	1	0	0	0	5135	1145	40	1	376	1	ENPP7	17	77707422	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	17577501	77707422	3487788	90	23110											
ATP9B	374868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	76870367	76870367	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatacagttgctgtggttgGctgataaatatttgtcgaag	10	15	11	5	1	1	1	1	1	0	0	2	2	1	1	0	2	2	4	0	2	5	6	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	76870367	G	A	76870367	4	1	446	1	0	0	0	0	0	1	0	0	1199	1212	42	2	316	2	ATP9B	18	76870367	Nonsense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		76870367	1206881	91	23111											
ZNF556	80032	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2877284	2877284	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttttagcagaaatccaaggGtggagagaccatgtaaaagc	15	9	11	6	0	0	2	0	0	0	2	1	4	1	3	2	2	2	2	2	2	5	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	2877284	G	A	2877284	3	1	446	1	0	0	0	0	1	0	0	0	17986	1261	44	2	342	2	ZNF556	19	2877284	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		2877284	56251699	92	23112											
RFX1	5989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14083791	14083791	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgacctggctgccggacaCgtacatgggcatggagccac	9	5	14	13	3	0	0	0	0	0	0	0	4	0	2	3	4	3	3	3	4	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	14083791	C	G	14083791	3	3	446	1	0	0	0	0	1	0	0	0	13264	536	19	4	1913	4	RFX1	19	14083791	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	11206507	14083791	45045192	93	23113											
PRODH2	58510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36303397	36303397	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacaaactgcccatagacgGatgctcggagaaatgcgcct	12	6	10	13	3	0	2	0	0	0	2	1	4	0	3	3	2	4	1	3	2	3	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	36303397	G	T	36303397	3	4	446	1	0	0	0	0	1	0	0	0	12551	1174	41	4	1182	4	PRODH2	19	36303397	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	22219606	36303397	22825586	94	23114											
ZNF606	80095	broad.mit.edu;hgsc.bcm.edu	37	chr19	58512737	58512737	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggaacacagcaaatcccaAcctagtgacaaaagtgaaaa	20	4	7	10	0	0	2	0	2	0	0	1	3	1	3	2	1	3	1	2	1	8	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	58512737	A	C	58512737	5	2	446	1	0	0	0	0	0	0	1	0	18031	57	2	5		5	ZNF606	19	58512737	Splice_Site	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	22209340	58512737	616246	95	23115											
SIGLEC1	6614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3673709	3673709	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggcggctgtccacagtgCacagtaccagggccagctgc	7	5	15	14	2	0	0	0	0	0	0	1	0	1	0	3	3	4	4	3	3	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	3673709	C	T	3673709	3	4	446	1	0	0	0	0	1	0	0	0	14307	710	25	2	1583	2	SIGLEC1	20	3673709	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08		3673709	59351811	96	23116											
MKKS	8195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	10393730	10393730	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaggatctgagtactacTaaagtccactgggattcgac	13	9	11	8	1	1	1	0	1	1	0	3	5	2	4	1	3	2	1	1	3	5	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	10393730	T	C	10393730	3	2	446	1	0	0	0	0	1	0	0	0	9600	1522	53	3	1295	3	MKKS	20	10393730	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	6720021	10393730	52631790	97	23117											
SEL1L2	80343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	13830874	13830874	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggagcaaatgcgtagttTccagtttcatgacggcaaag	11	9	11	10	3	1	1	1	1	0	0	2	2	2	2	2	2	2	5	2	2	3	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	13830874	T	A	13830874	3	1	446	1	0	0	0	0	1	0	0	0	14013	1783	62	5	164	5	SEL1L2	20	13830874	Missense_Mutation	SNP	T	TCGA-CZ-4859-01A-02D-1429-08	3437144	13830874	49194646	98	23118											
RALY	22913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	32663747	32663747	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtccctgtgaagcgacccCgggtcacagtccctttggtc	5	9	12	15	3	1	1	1	1	0	0	4	2	3	1	4	3	1	0	4	3	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	32663747	C	G	32663747	3	3	446	1	0	0	0	0	1	0	0	0	13021	643	23	4	459	4	RALY	20	32663747	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	18832873	32663747	30361773	99	23119											
NCOA6	23054	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33329729	33329729	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaacttcttgggcagggActgcttttagttcaatgttt	7	19	9	6	0	2	0	1	0	1	0	2	1	2	1	0	2	2	4	0	2	3	8	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	33329729	A	G	33329729	3	3	446	1	0	0	0	0	1	0	0	0	10233	275	10	3	1880	3	NCOA6	20	33329729	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	665982	33329729	29695791	100	23120											
CABLES2	81928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60971621	60971621	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcatcttccagaaactccagGgagcagcgctgggacgtgac	10	6	13	12	2	1	2	0	1	1	1	3	4	3	4	2	2	3	3	2	2	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	60971621	G	A	60971621	2	1	446	1	0	0	0	0	0	0	0	1	2530	1219	43	2		2	CABLES2	20	60971621	Silent	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	27641892	60971621	2053899	101	23121											
CHAF1B	8208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37785583	37785583	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagggtcactctgaacaCactgcaagcctggagcaaga	12	5	12	12	1	2	2	1	1	1	1	2	4	2	4	2	3	4	2	2	3	3	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	37785583	C	G	37785583	3	3	446	1	0	0	0	0	1	0	0	0	3312	478	17	4	1505	4	CHAF1B	21	37785583	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08		37785583	10344312	102	23122											
AIFM3	150209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21331018	21331018	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagacgcccttcaggaGgttcctgggggagcgcgtgg	6	6	20	9	3	1	1	1	0	0	1	2	5	2	4	2	7	1	1	2	7	0	2	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	21331018	G	T	21331018	3	4	446	1	0	0	0	0	1	0	0	0	428	1000	35	4	1169	4	AIFM3	22	21331018	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		21331018	29973548	103	23123											
RAB36	9609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	23501360	23501360	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctcccagtcaggggccgCatgtgagcaggccgaagcag	8	7	14	12	2	2	1	1	1	1	0	3	2	2	1	3	3	2	3	3	3	1	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		G	23501360	C	G	23501360	3	3	446	1	0	0	0	0	1	0	0	0	12928	710	25	4	771	4	RAB36	22	23501360	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	2170342	23501360	27803206	104	23124											
EP300	2033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	41574358	41574358	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaccagttccagcaacccCaaggagttggctacccacca	13	6	7	15	0	0	0	0	0	0	0	1	1	1	1	6	2	4	4	6	2	4	4	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	41574358	C	A	41574358	3	1	446	1	0	0	0	0	1	0	0	0	5148	595	21	4	6765	4	EP300	22	41574358	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	18072998	41574358	9730208	105	23125											
HEPH	9843	broad.mit.edu	37	chrX	65474914	65474914	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagtggaacatcccagagagGtctggccctgggcccaatga	10	6	13	12	0	1	2	0	1	1	1	2	4	2	3	3	4	1	0	3	4	2	0	rs146719428		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454	.	.	Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	65474914	T	T	65474914	3	4	446	1	0	0	0	0	1	0	0	0	7054	1252	44	4	2825	4	HEPH	23	65474914	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08		65474914	89795646	106	23126											
BRWD3	254065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	79948521	79948521	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtcccaaaccaccaggCgtcatctattatactgcgga	12	8	7	14	2	2	0	1	0	1	0	3	1	3	1	3	2	3	0	3	2	4	3	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	79948521	C	T	79948521	3	4	446	1	0	0	0	0	1	0	0	0	1526	768	27	1	2283	1	BRWD3	23	79948521	Missense_Mutation	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	14473607	79948521	75322039	107	23127											
TEX13A	56157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	104464107	104464107	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgcccccaataggtgtActtttcctgatcagcatctc	7	14	6	14	0	3	1	1	1	2	0	5	1	4	1	3	1	3	2	3	1	3	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	104464107	A	C	104464107	3	2	446	1	0	0	0	0	1	0	0	0	15775	388	14	5	464	5	TEX13A	23	104464107	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	24515586	104464107	50806453	108	23128											
ANKRD58	0	broad.mit.edu	37	chrX	118893385	118893385	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagatggagagcggcagcgGgtgcaccaacctgaacaaca	13	3	15	10	2	0	3	0	1	0	2	0	5	0	3	2	4	6	2	2	4	3	0	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		T	118893385	T	T	118893385	3	4	446	1	0	0	0	0	1	0	0	0	684	1232	43	4	757	4	ANKRD58	23	118893385	Missense_Mutation	SNP	G	TCGA-CZ-4859-01A-02D-1429-08	14429278	118893385	36377175	109	23129											
STAG2	10735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	123184076	123184076	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctatttgcattgaagagAttggcatttggatgaagatg	12	13	13	3	0	0	4	0	2	0	2	0	7	0	5	0	2	2	3	0	2	3	5	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		C	123184076	A	C	123184076	3	2	446	1	0	0	0	0	1	0	0	0	15244	333	12	5	968	5	STAG2	23	123184076	Missense_Mutation	SNP	A	TCGA-CZ-4859-01A-02D-1429-08	4290691	123184076	32086484	110	23130											
CSAG1	158511	broad.mit.edu;hgsc.bcm.edu	37	chrX	151909172	151909172	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaaagggaaaagggaccCgtcaaggaagttccaggaac	16	3	12	10	1	1	0	1	0	0	0	2	4	2	4	3	4	1	1	3	4	7	1	novel		TCGA-CZ-4859-01A-02D-1429-08	TCGA-CZ-4859-11A-01D-1429-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	82c0b6e4-cb0f-4870-81c9-b45a93d6f5d3	3257f80f-9009-4ab9-a9b8-b93ad97bc18e		A	151909172	C	A	151909172	2	1	446	1	0	0	0	0	0	0	0	1	3926	639	23	4		4	CSAG1	23	151909172	Silent	SNP	C	TCGA-CZ-4859-01A-02D-1429-08	28725096	151909172	3361388	111	23131											
PLCH2	9651	hgsc.bcm.edu	37	chr1	2431088	2431088	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgctccaggctacagaCacgtgtacctagaagggatg	12	7	11	11	1	0	2	0	0	0	2	1	3	1	3	2	2	3	3	2	2	4	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	2431088	C	A	2431088	3	1	447	1	0	0	0	0	1	0	0	0	12038	478	17	4	2668	4	PLCH2	1	2431088	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		2431088	246819533	1	23132											
PRDM2	7799	hgsc.bcm.edu;ucsc.edu	37	chr1	14106783	14106783	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttatccagcggtgtcaaAcagaaggctgagggtacagg	12	8	14	7	1	1	2	1	1	0	1	2	3	2	2	1	4	3	2	1	4	4	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	14106783	A	G	14106783	2	3	447	1	0	0	0	0	0	0	0	1	12460	40	2	3		3	PRDM2	1	14106783	Silent	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	11675695	14106783	235143838	2	23133											
ARID1A	8289	hgsc.bcm.edu;ucsc.edu	37	chr1	27099430	27099430	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctctgacatgatggggCgcatgtcctatgagccaaat	11	10	10	10	1	1	3	0	3	1	0	2	3	2	3	3	2	2	1	3	2	3	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	27099430	C	T	27099430	3	4	447	1	0	0	0	0	1	0	0	0	913	768	27	1	3721	1	ARID1A	1	27099430	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	12992647	27099430	222151191	3	23134											
RNF19B	127544	hgsc.bcm.edu;ucsc.edu	37	chr1	33413940	33413940	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgataatgtatgcactgCatcgtgggcatggcttgatg	8	14	12	7	1	1	2	0	2	1	0	2	2	1	2	0	2	2	5	0	2	2	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	33413940	C	T	33413940	3	4	447	1	0	0	0	0	1	0	0	0	13473	710	25	2	1383	2	RNF19B	1	33413940	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	6314510	33413940	215836681	4	23135											
SNIP1	79753	hgsc.bcm.edu;ucsc.edu	37	chr1	38006224	38006225	+	Frame_Shift_Ins	INS	-	-	A																															ccactcccaggcctctcgttINSagacgttctcctttggtggg																								novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	38006225	-	A	38006224	7	5	447	1	0	1	1	0	0	0	0	0	14850	1754	61	0	738	0	SNIP1	1	38006224	Frame_Shift_Ins	INS	-	TCGA-CZ-4861-01A-01D-1373-10	4592284	38006224	211244397	5	23136											
PDE4DIP	9659	hgsc.bcm.edu	37	chr1	144856852	144856852	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggccagggaagctgcaCgctgatctcacaagagacac	13	5	11	12	1	2	2	2	1	1	1	3	4	2	3	1	2	2	3	1	2	3	0	rs150847495	byfrequency	TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	144856852	C	T	144856852	2	4	447	1	0	0	0	0	0	0	0	1	11643	523	19	1		1	PDE4DIP	1	144856852	Silent	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	106850628	144856852	104393769	6	23137											
POGK	57645	hgsc.bcm.edu	37	chr1	166818327	166818327	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtgaggggtaccccttcTacatggccatgggcttccca	7	9	13	12	0	1	1	0	1	1	0	2	2	2	2	4	5	2	2	4	5	2	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	166818327	T	A	166818327	3	1	447	1	0	0	0	0	1	0	0	0	12185	1522	53	5	525	5	POGK	1	166818327	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	21961475	166818327	82432294	7	23138											
CHIT1	1118	hgsc.bcm.edu	37	chr1	203186979	203186979	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccgcccagtcccttctgCttcagatagctgacctgtgc	5	10	9	17	1	2	2	1	1	1	1	3	2	3	2	5	0	3	2	5	0	1	3	rs140228721	alternate_allele	TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	203186979	C	G	203186979	3	3	447	1	0	0	0	0	1	0	0	0	3346	796	28	4	364	4	CHIT1	1	203186979	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	36368652	203186979	46063642	8	23139											
PIK3C2B	5287	hgsc.bcm.edu	37	chr1	204419062	204419062	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcctctgaggagctccccGgtggggggatgggcagagca	6	6	19	10	1	1	2	0	1	1	1	2	4	2	4	3	7	2	3	3	7	0	0	rs142362916	byfrequency;alternate_allele	TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	204419062	G	T	204419062	3	4	447	1	0	0	0	0	1	0	0	0	11910	1116	39	4	2838	4	PIK3C2B	1	204419062	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	1232083	204419062	44831559	9	23140											
USH2A	7399	hgsc.bcm.edu;ucsc.edu	37	chr1	216465660	216465660	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaattgaaagcgtaaactTgatcaccttggcggaaaggc	14	9	10	8	2	1	2	1	2	0	0	1	3	1	3	1	3	3	1	1	3	6	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	216465660	T	G	216465660	3	3	447	1	0	0	0	0	1	0	0	0	17035	1812	63	5	14177	5	USH2A	1	216465660	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	12046598	216465660	32784961	10	23141											
RYR2	6262	hgsc.bcm.edu;ucsc.edu	37	chr1	237664037	237664037	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgctcgtactgtaagctcaCcaaaccaacatctgttaaga	13	11	6	11	1	2	1	1	0	1	1	3	1	2	1	2	0	5	5	2	0	5	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	237664037	C	G	237664037	3	3	447	1	0	0	0	0	1	0	0	0	13771	507	18	4	2312	4	RYR2	1	237664037	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	21198377	237664037	11586584	11	23142											
CNGA3	1261	hgsc.bcm.edu	37	chr2	98994250	98994250	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggctccttcaccggcCaggggatcgccaggtaactg	7	6	15	13	2	1	0	1	0	0	0	3	1	2	1	4	6	1	3	4	6	1	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	98994250	C	A	98994250	3	1	447	1	0	0	0	0	1	0	0	0	3598	595	21	4	208	4	CNGA3	2	98994250	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		98994250	144205123	12	23143											
EPC2	26122	hgsc.bcm.edu;ucsc.edu	37	chr2	149528431	149528431	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttggataagttgaggtataGgcattgccttacaacactta	12	14	9	6	0	0	1	0	1	0	0	0	2	0	2	1	3	3	3	1	3	6	8	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	149528431	G	T	149528431	3	4	447	1	0	0	0	0	1	0	0	0	5161	1000	35	4	1335	4	EPC2	2	149528431	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	50534181	149528431	93670942	13	23144											
GALNT5	11227	hgsc.bcm.edu;ucsc.edu	37	chr2	158114714	158114714	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgcctctcattcagtgagatCaacactcgggtcatcaagga	11	9	9	12	2	5	1	5	1	1	1	7	3	5	2	1	2	1	0	1	2	2	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	158114714	C	G	158114714	3	3	447	1	0	0	0	0	1	0	0	0	6216	816	29	4	122	4	GALNT5	2	158114714	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	8586283	158114714	85084659	14	23145											
ADAM23	8745	hgsc.bcm.edu;ucsc.edu	37	chr2	207457434	207457434	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcattccaacttccttctaCcatcaaggccgggtgattga	10	12	7	12	1	3	2	2	2	1	0	5	2	5	2	4	2	2	0	4	2	3	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	207457434	C	T	207457434	2	4	447	1	0	0	0	0	0	0	0	1	245	518	18	2		2	ADAM23	2	207457434	Silent	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	49342720	207457434	35741939	15	23146											
CRELD1	78987	hgsc.bcm.edu	37	chr3	9984520	9984520	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgatgagtgtggcacagagGgagccaactgtggagctgac	10	8	16	7	0	0	4	0	3	0	1	0	6	0	6	1	3	3	2	1	3	1	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	9984520	G	T	9984520	4	4	447	1	0	0	0	0	0	1	0	0	3866	1233	43	4	783	4	CRELD1	3	9984520	Nonsense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10		9984520	188037910	16	23147											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10191479	10191479	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcccttccagtgtatactCtgaaagagcgatgcctccag	9	11	9	12	1	1	2	0	1	1	1	3	3	3	2	4	0	4	1	4	0	3	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	10191479	C	G	10191479	3	3	447	1	0	0	0	0	1	0	0	0	17161	912	32	4	482	4	VHL	3	10191479	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	206959	10191479	187830951	17	23148											
XPC	7508	hgsc.bcm.edu;ucsc.edu	37	chr3	14188813	14188813	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccgtagcgacgcttcaGcctctccctgatgagcagac	7	7	12	15	3	2	3	1	2	1	1	3	4	2	3	3	1	3	3	3	1	1	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	14188813	G	T	14188813	3	4	447	1	0	0	0	0	1	0	0	0	17440	962	34	4	249	4	XPC	3	14188813	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	3997334	14188813	183833617	18	23149											
SLC4A7	9497	hgsc.bcm.edu	37	chr3	27463253	27463253	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccgtaggaatttttctCatgaaattcatatcaaccta	13	13	5	10	1	3	1	3	1	1	0	4	2	3	2	2	1	1	2	2	1	6	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	27463253	C	A	27463253	3	1	447	1	0	0	0	0	1	0	0	0	14660	826	29	4	2455	4	SLC4A7	3	27463253	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	13274440	27463253	170559177	19	23150											
SETD2	29072	hgsc.bcm.edu	37	chr3	47098445	47098445	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacactgacagactgttGgtttgaatcccaaacactat	12	12	7	10	0	0	3	0	2	0	1	1	3	1	3	1	1	2	3	1	1	4	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	47098445	G	A	47098445	4	1	447	1	0	0	0	0	0	1	0	0	14133	1357	47	2	893	2	SETD2	3	47098445	Nonsense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	19635192	47098445	150923985	20	23151											
SETD2	29072	ucsc.edu	37	chr3	47163824	47163824	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgttttggaataatccaCagtcataactggcatagaca	14	12	7	8	0	1	1	1	0	0	1	2	2	2	2	1	2	2	2	1	2	5	6	rs9311404	bycluster;byfrequency;by1000genomes	TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	C	G	C	C	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	47163824	C	G	47163824	3	3	447	1	0	0	0	0	1	0	0	0	14133	478	17	4	5468	4	SETD2	3	47163824	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	65379	47163824	150858606	21	23152											
DOCK3	1795	hgsc.bcm.edu;ucsc.edu	37	chr3	51376390	51376390	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacaaatctgagattaacAaggaagaaatgtatatccgc	17	11	7	6	1	1	2	0	1	1	2	2	4	2	3	1	1	2	1	1	1	8	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	51376390	A	G	51376390	3	3	447	1	0	0	0	0	1	0	0	0	4688	131	5	3	3843	3	DOCK3	3	51376390	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	4212566	51376390	146646040	22	23153											
APPL1	26060	hgsc.bcm.edu	37	chr3	57280129	57280129	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgaagtaacagaagatgTgtacacatccagaaagaaac	19	7	9	6	0	0	5	0	1	0	4	1	5	1	5	1	0	3	3	1	0	7	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	57280129	T	G	57280129	3	3	447	1	0	0	0	0	1	0	0	0	817	1696	59	5	530	5	APPL1	3	57280129	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	5903739	57280129	140742301	23	23154											
CADM2	253559	hgsc.bcm.edu	37	chr3	85851255	85851255	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgaaggtggaactgcAattttgacctgcagggttga	9	13	14	5	0	0	3	0	3	0	0	0	4	0	4	1	3	3	5	1	3	3	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	85851255	A	C	85851255	2	2	447	1	0	0	0	0	0	0	0	1	2567	117	5	5		5	CADM2	3	85851255	Silent	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	28571126	85851255	112171175	24	23155											
CRYBG3	131544	hgsc.bcm.edu;ucsc.edu	37	chr3	97617751	97617751	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatagaatcttctgtcacaCtatttgaatctgacctagaa	13	15	5	8	0	4	4	1	2	3	2	4	4	4	4	1	0	0	0	1	0	7	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	97617751	C	A	97617751	3	1	447	1	0	0	0	0	1	0	0	0	3913	564	20	4	1920	4	CRYBG3	3	97617751	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	11766496	97617751	100404679	25	23156											
SI	6476	hgsc.bcm.edu	37	chr3	164732948	164732948	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggtgtttggccatttgAcaaagacatcattctgctgt	9	15	9	8	0	2	2	1	1	1	1	2	2	2	2	1	2	1	2	1	2	1	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	164732948	A	G	164732948	3	3	447	1	0	0	0	0	1	0	0	0	14299	275	10	3	1585	3	SI	3	164732948	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	67115197	164732948	33289482	26	23157											
GPR160	26996	hgsc.bcm.edu;ucsc.edu	37	chr3	169802564	169802564	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgttttacttaaagttcaGattccagcatatattgagat	13	17	6	5	0	1	2	1	1	0	2	2	3	2	2	1	0	2	3	1	0	5	9	rs148749842	alternate_allele	TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	169802564	G	A	169802564	2	1	447	1	0	0	0	0	0	0	0	1	6664	933	33	2		2	GPR160	3	169802564	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	5069616	169802564	28219866	27	23158											
ABCC5	10057	hgsc.bcm.edu;ucsc.edu	37	chr3	183706414	183706414	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagaccacacgtcttccAttgagagctcccccttcttg	9	10	7	15	1	2	2	0	1	2	2	4	4	4	2	4	0	1	1	4	0	0	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	183706414	A	C	183706414	3	2	447	1	0	0	0	0	1	0	0	0	56	217	8	5	4072	5	ABCC5	3	183706414	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	13903850	183706414	14316016	28	23159											
OSTalpha	0	hgsc.bcm.edu;ucsc.edu	37	chr3	195955792	195955792	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatctatgacccagcagacGtaagccgggagtaagggaca	13	5	13	10	2	1	2	0	1	1	1	1	4	1	4	2	2	2	4	2	2	3	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	195955792	G	A	195955792	5	1	447	1	0	0	0	0	0	0	1	0	11300	1159	40	1	656	1	OSTalpha	3	195955792	Splice_Site	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	12249378	195955792	2066638	29	23160											
SCARB2	950	hgsc.bcm.edu;ucsc.edu	37	chr4	77095296	77095296	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcccctctctgagttcttaCcattcttgcagatgctgaca	7	14	7	13	0	3	3	0	2	3	1	5	3	4	3	3	0	3	3	3	0	1	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	77095296	C	T	77095296	5	4	447	1	0	0	0	0	0	0	1	0	13884	521	18	2	465	2	SCARB2	4	77095296	Splice_Site	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		77095296	114058980	30	23161											
TET2	54790	hgsc.bcm.edu;ucsc.edu	37	chr4	106193890	106193890	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtactgagttcttttcGgcgaaaagtcaggatgttag	10	13	12	6	2	3	1	2	1	1	0	4	3	3	2	0	3	1	3	0	3	4	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	106193890	G	A	106193890	3	1	447	1	0	0	0	0	1	0	0	0	15769	1116	39	1	4471	1	TET2	4	106193890	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	29098594	106193890	84960386	31	23162											
NNT	23530	hgsc.bcm.edu	37	chr5	43675692	43675692	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggaaaacccatggaaaTttctggcacacatacggaaa	15	8	10	8	1	1	0	0	0	1	0	1	3	1	3	1	5	2	1	1	5	5	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	43675692	T	A	43675692	3	1	447	1	0	0	0	0	1	0	0	0	10510	1493	52	5	2780	5	NNT	5	43675692	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10		43675692	137239568	32	23163											
SLC34A1	6569	hgsc.bcm.edu	37	chr5	176824836	176824836	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtatccttctgtggtaccCggtgccctgcacacgcctgc	4	10	12	15	2	1	0	0	0	1	0	2	0	2	0	4	3	4	3	4	3	2	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	176824836	C	G	176824836	3	3	447	1	0	0	0	0	1	0	0	0	14569	652	23	4	1606	4	SLC34A1	5	176824836	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	133149144	176824836	4090424	33	23164											
F12	2161	hgsc.bcm.edu	37	chr5	176832389	176832389	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggccgcttggcatgttcAcacaggtccctcctttctgg	4	11	13	13	1	2	0	1	0	1	0	4	0	4	0	3	5	0	3	3	5	0	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	176832389	A	C	176832389	3	2	447	1	0	0	0	0	1	0	0	0	5339	159	6	5	1555	5	F12	5	176832389	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	7553	176832389	4082871	34	23165											
PGBD1	84547	hgsc.bcm.edu;ucsc.edu	37	chr6	28269595	28269595	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacaattcgtgagaacaggaCcgaaaaatgtccccttatga	16	8	8	9	2	0	2	0	2	0	1	2	5	1	3	3	1	2	0	3	1	6	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	28269595	C	T	28269595	3	4	447	1	0	0	0	0	1	0	0	0	11780	507	18	2	1986	2	PGBD1	6	28269595	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		28269595	142845472	35	23166											
CNR1	1268	hgsc.bcm.edu;ucsc.edu	37	chr6	88853921	88853921	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccatgattgcaagcagaGggccccagcagatgatcaac	14	5	10	12	0	1	4	1	2	0	2	1	4	1	4	3	1	4	3	3	1	2	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	88853921	G	T	88853921	3	4	447	1	0	0	0	0	1	0	0	0	3631	1000	35	4	349	4	CNR1	6	88853921	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	60584326	88853921	82261146	36	23167											
SMPD2	6610	hgsc.bcm.edu;ucsc.edu	37	chr6	109763200	109763200	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcattggcagtggcctctGtgtcttctccaaacatccaa	10	12	7	12	0	4	0	1	0	3	0	6	0	5	0	3	2	1	1	3	2	3	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	109763200	G	A	109763200	3	1	447	1	0	0	0	0	1	0	0	0	14807	1377	48	2	262	2	SMPD2	6	109763200	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	20909279	109763200	61351867	37	23168											
MTHFD1L	25902	hgsc.bcm.edu;ucsc.edu	37	chr6	151336687	151336687	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagattgacttggtgtgtgAgcttgcaaagcgggctggtg	7	12	17	5	1	0	3	0	3	0	1	0	4	0	3	0	3	3	3	0	3	1	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	151336687	A	T	151336687	3	4	447	1	0	0	0	0	1	0	0	0	9928	304	11	5	2538	5	MTHFD1L	6	151336687	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	41573487	151336687	19778380	38	23169											
SYNE1	23345	hgsc.bcm.edu;ucsc.edu	37	chr6	152776696	152776696	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttggtttccacatgcttCttccaatctccagttttctt	5	19	5	12	0	3	0	0	0	3	0	6	0	5	0	3	1	1	4	3	1	1	7	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	152776696	C	A	152776696	3	1	447	1	0	0	0	0	1	0	0	0	15444	912	32	4	24201	4	SYNE1	6	152776696	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	1440009	152776696	18338371	39	23170											
TWISTNB	221830	hgsc.bcm.edu;ucsc.edu	37	chr7	19738224	19738224	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatcatctgctagctttgtGgtaccactgtccacttcata	8	14	7	12	0	3	0	2	0	1	0	4	0	4	0	2	1	3	4	2	1	3	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	19738224	G	A	19738224	2	1	447	1	0	0	0	0	0	0	0	1	16783	1335	47	2		2	TWISTNB	7	19738224	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10		19738224	139400439	40	23171											
PKD1L1	168507	hgsc.bcm.edu;ucsc.edu	37	chr7	47925313	47925313	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagggtcagggctgtgggtgGgctgacttctctcagagcgg	5	9	19	8	1	3	2	2	1	1	1	4	3	3	2	0	5	1	2	0	5	0	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	47925313	G	A	47925313	3	1	447	1	0	0	0	0	1	0	0	0	11964	1232	43	2	5533	2	PKD1L1	7	47925313	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	28187089	47925313	111213350	41	23172											
ZKSCAN1	7586	hgsc.bcm.edu;ucsc.edu	37	chr7	99631799	99631799	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccttgatgcatttggcgcGttcctgaaaagttgtgtgta	7	15	11	8	2	0	2	0	2	0	0	2	2	2	2	2	1	1	4	2	1	3	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	99631799	G	A	99631799	2	1	447	1	0	0	0	0	0	0	0	1	17685	1132	40	1		1	ZKSCAN1	7	99631799	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	51706486	99631799	59506864	42	23173											
MKLN1	4289	hgsc.bcm.edu;ucsc.edu	37	chr7	131147981	131147982	+	Frame_Shift_Del	DEL	AT	AT	-																															ttctttaatttgtagttccaAtgacaggatttacacagaga																								novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		-	131147982	AT	-	131147981	7	5	447	1	0	1	0	1	0	0	0	0	9603	101	4	0	1614	0	MKLN1	7	131147981	Frame_Shift_Del	DEL	AT	TCGA-CZ-4861-01A-01D-1373-10	31516182	131147981	27990682	43	23174											
RUNX1T1	862	hgsc.bcm.edu	37	chr8	93004069	93004069	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtgcatggtcgcttgctTggatgttctgagtgcaaagg	8	13	14	6	1	1	1	0	1	1	0	2	2	1	2	0	3	3	5	0	3	2	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	93004069	T	G	93004069	2	3	447	1	0	0	0	0	0	0	0	1	13749	1799	63	5		5	RUNX1T1	8	93004069	Silent	SNP	T	TCGA-CZ-4861-01A-01D-1373-10		93004069	53359953	44	23175											
NUDCD1	84955	hgsc.bcm.edu	37	chr8	110255494	110255494	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtaatttggagcacaggcaAaaaattttttgtctctcttt	12	16	7	6	0	2	0	0	0	2	0	3	1	2	1	0	2	1	3	0	2	4	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	110255494	A	G	110255494	3	3	447	1	0	0	0	0	1	0	0	0	10722	14	1	3	259	3	NUDCD1	8	110255494	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	17251425	110255494	36108528	45	23176											
SYBU	55638	hgsc.bcm.edu;ucsc.edu	37	chr8	110588188	110588188	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggtgacactcctcctcaatCcagtcctctcgcatgcgggc	6	9	9	17	3	2	1	1	1	1	0	7	1	6	1	4	2	1	1	4	2	1	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	110588188	C	A	110588188	3	1	447	1	0	0	0	0	1	0	0	0	15426	856	30	4	1056	4	SYBU	8	110588188	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	332694	110588188	35775834	46	23177											
PTPRD	5789	hgsc.bcm.edu;ucsc.edu	37	chr9	8507401	8507401	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatacttgtttcagactcaGgttctgctttgaagtttagt	10	17	8	6	0	3	2	2	1	1	1	3	2	3	2	0	1	2	4	0	1	4	7	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	8507401	G	A	8507401	3	1	447	1	0	0	0	0	1	0	0	0	12801	1000	35	2	4329	2	PTPRD	9	8507401	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10		8507401	132706030	47	23178											
INVS	27130	hgsc.bcm.edu;ucsc.edu	37	chr9	103060232	103060232	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggttgttctcacgaaGggaaaatacatcatcctaca	13	12	7	9	1	3	0	3	0	1	0	5	2	4	1	1	2	2	2	1	2	5	5	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	103060232	G	T	103060232	3	4	447	1	0	0	0	0	1	0	0	0	7787	1000	35	4	3089	4	INVS	9	103060232	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	94552831	103060232	38153199	48	23179											
ARPC5L	81873	hgsc.bcm.edu;ucsc.edu	37	chr9	127637307	127637307	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaacttcaagagcagtgaGattgagcaggctgtgcagtc	13	8	12	8	0	1	3	1	2	0	2	2	4	1	3	0	1	4	4	0	1	2	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	127637307	G	T	127637307	3	4	447	1	0	0	0	0	1	0	0	0	975	933	33	4	286	4	ARPC5L	9	127637307	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	24577075	127637307	13576124	49	23180											
GAD2	2572	hgsc.bcm.edu;ucsc.edu	37	chr10	26534856	26534856	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattttttttacagagtcatTtttctctcaagaagggagct	10	18	7	6	0	3	2	2	0	1	2	4	3	3	3	0	1	2	1	0	1	4	7	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	26534856	T	C	26534856	3	2	447	1	0	0	0	0	1	0	0	0	6180	1841	64	3	877	3	GAD2	10	26534856	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10		26534856	108999891	50	23181											
C10orf35	219738	hgsc.bcm.edu;ucsc.edu	37	chr10	71391583	71391583	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccagccaccaagaggtagCattcctcgacaggtaggtac	12	6	10	13	1	0	1	0	0	0	1	2	2	1	1	4	3	3	4	4	3	4	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	71391583	C	G	71391583	3	3	447	1	0	0	0	0	1	0	0	0	1603	709	25	4	86	4	C10orf35	10	71391583	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	44856727	71391583	64143164	51	23182											
CC2D2B	387707	hgsc.bcm.edu;ucsc.edu	37	chr10	97791691	97791691	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacagaatttgctttagctGtatacattcacccataccca	13	12	5	11	0	1	2	1	0	0	2	1	2	1	2	2	0	4	3	2	0	5	7	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	97791691	G	T	97791691	3	4	447	1	0	0	0	0	1	0	0	0	2729	1377	48	4	1170	4	CC2D2B	10	97791691	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	26400108	97791691	37743056	52	23183											
DNHD1	144132	hgsc.bcm.edu	37	chr11	6567885	6567885	+	Missense_Mutation	SNP	A	A	C																															agcctcgcagcctagctgccAttgaggaggctgccctactg																								novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	6567885	A	C	6567885	3	2	447	1	0	0	0	0	1	0	0	0	4668	217	8	5	5799	5	DNHD1	11	6567885	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10		6567885	128438631	53	23184	326	2									
DNHD1	144132	hgsc.bcm.edu	37	chr11	6567893	6567895	+	In_Frame_Del	DEL	GGC	GGC	-																															agcctagctgccattgaggaGgctgccctactgcgctcacc																								novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		-	6567895	GGC	-	6567893	7	5	447	1	0	1	0	1	0	0	0	0	4668	991	35	0	5807	0	DNHD1	11	6567893	In_Frame_Del	DEL	GGC	TCGA-CZ-4861-01A-01D-1373-10	8	6567893	128438623	54	23185	326	2									
OR5P2	120065	hgsc.bcm.edu	37	chr11	7818386	7818387	+	Frame_Shift_Ins	INS	-	-	T																															tatgctgagattaccagataINSggatgatcatgaagaggatg																								novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	7818387	-	T	7818386	7	5	447	1	0	1	1	0	0	0	0	0	11178	420	15	0	868	0	OR5P2	11	7818386	Frame_Shift_Ins	INS	-	TCGA-CZ-4861-01A-01D-1373-10	1250493	7818386	127188130	55	23186											
TMX2	51075	hgsc.bcm.edu;ucsc.edu	37	chr11	57480238	57480238	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgccgctctgccacggtctgCccacccaacgcgaagacggt	7	5	11	18	6	2	1	0	0	2	1	2	2	2	1	4	2	3	1	4	2	2	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	57480238	C	T	57480238	3	4	447	1	0	0	0	0	1	0	0	0	16266	739	26	2	150	2	TMX2	11	57480238	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	49661852	57480238	77526278	56	23187											
ME3	10873	hgsc.bcm.edu;ucsc.edu	37	chr11	86198484	86198484	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtctctgagcagctccTggaacagacagcacccattg	10	7	12	12	0	1	2	0	1	1	1	3	4	2	3	2	2	4	3	2	2	1	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	86198484	T	G	86198484	5	3	447	1	0	0	0	0	0	0	1	0	9419	1594	55	5	1146	5	ME3	11	86198484	Splice_Site	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	28718246	86198484	48808032	57	23188											
CNTN5	53942	hgsc.bcm.edu;ucsc.edu	37	chr11	100211348	100211348	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagctggatatgggccacctAgcagtgaagtgagtgcaacc	11	7	14	9	0	0	2	0	2	0	0	0	4	0	3	3	2	4	3	3	2	4	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	100211348	A	G	100211348	3	3	447	1	0	0	0	0	1	0	0	0	3644	420	15	3	2962	3	CNTN5	11	100211348	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	14012864	100211348	34795168	58	23189											
ATM	472	hgsc.bcm.edu;ucsc.edu	37	chr11	108206594	108206594	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgatgacctgagacaagAtgctgtcatgcaacaggtct	11	9	11	10	1	2	4	1	3	1	2	2	5	2	4	2	1	3	2	2	1	2	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	108206594	A	G	108206594	3	3	447	1	0	0	0	0	1	0	0	0	1109	333	12	3	8392	3	ATM	11	108206594	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	7995246	108206594	26799922	59	23190											
ABCG4	64137	hgsc.bcm.edu;ucsc.edu	37	chr11	119031336	119031336	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaccatccccacttaccTgcaatggagctcctatctct	10	10	5	16	0	1	1	0	0	1	1	4	2	3	2	5	1	3	2	5	1	4	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	119031336	T	A	119031336	3	1	447	1	0	0	0	0	1	0	0	0	70	1580	55	5	1735	5	ABCG4	11	119031336	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	10824742	119031336	15975180	60	23191											
TECTA	7007	hgsc.bcm.edu;ucsc.edu	37	chr11	121000530	121000530	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcacagggggcttgtgcggcTtctacaatgccaacgccagt	8	8	13	12	2	1	0	0	0	1	0	1	0	1	0	2	3	4	3	2	3	3	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	121000530	T	A	121000530	3	1	447	1	0	0	0	0	1	0	0	0	15746	1609	56	5	2585	5	TECTA	11	121000530	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	1969194	121000530	14005986	61	23192											
WNK1	65125	hgsc.bcm.edu;ucsc.edu	37	chr12	1005370	1005370	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagagagtaccttggtgaAaccagagccgaatggcataa	14	7	11	9	1	0	3	0	1	0	2	1	5	1	3	4	2	3	2	4	2	4	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	1005370	A	T	1005370	3	4	447	1	0	0	0	0	1	0	0	0	17376	14	1	5	7313	5	WNK1	12	1005370	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10		1005370	132846525	62	23193											
C12orf41	0	hgsc.bcm.edu;ucsc.edu	37	chr12	49063049	49063049	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgggccagtcaggagaCtactgcctagagttacaaga	11	8	11	11	0	2	3	1	0	1	3	2	4	2	3	3	2	3	1	3	2	4	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	49063049	C	T	49063049	3	4	447	1	0	0	0	0	1	0	0	0	1687	565	20	2	782	2	C12orf41	12	49063049	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	48057679	49063049	84788846	63	23194											
SART3	9733	hgsc.bcm.edu;ucsc.edu	37	chr12	108931344	108931344	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatcagtggcctggatgaagCcggcattcaaagctttctcg	10	10	11	10	2	3	1	2	1	1	0	4	2	3	2	2	3	2	2	2	3	3	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	108931344	C	T	108931344	3	4	447	1	0	0	0	0	1	0	0	0	13849	739	26	2	1706	2	SART3	12	108931344	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	59868295	108931344	24920551	64	23195											
SELPLG	6404	hgsc.bcm.edu;ucsc.edu	37	chr12	109017991	109017991	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcaagcaggggacccaaGgctttctcggcttcatctgc	7	8	13	13	2	3	0	1	0	2	0	4	1	3	1	1	5	2	4	1	5	2	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	109017991	G	A	109017991	2	1	447	1	0	0	0	0	0	0	0	1	14022	987	35	2		2	SELPLG	12	109017991	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	86647	109017991	24833904	65	23196											
RNF219	79596	hgsc.bcm.edu;ucsc.edu	37	chr13	79190197	79190197	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttgagatgactttgataAcccatccaaatccagtgact	12	11	7	11	0	0	4	0	4	0	1	2	5	2	4	4	0	1	0	4	0	2	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	79190197	A	G	79190197	2	3	447	1	0	0	0	0	0	0	0	1	13484	40	2	3		3	RNF219	13	79190197	Silent	SNP	A	TCGA-CZ-4861-01A-01D-1373-10		79190197	35979681	66	23197											
SLITRK1	114798	hgsc.bcm.edu	37	chr13	84454708	84454708	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttgatctgccagttgcctGggatctttgtacctccgttt	4	18	9	10	1	2	1	0	1	2	0	3	2	3	2	4	1	3	3	4	1	1	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	84454708	G	A	84454708	3	1	447	1	0	0	0	0	1	0	0	0	14744	1348	47	2	1159	2	SLITRK1	13	84454708	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	5264511	84454708	30715170	67	23198											
ARID4A	5926	hgsc.bcm.edu;ucsc.edu	37	chr14	58831047	58831047	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcacatatattaaaagaaaAtgataggactcaaatgcagc	19	9	7	6	0	1	2	1	1	0	1	1	3	1	3	0	1	3	2	0	1	8	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	58831047	A	G	58831047	3	3	447	1	0	0	0	0	1	0	0	0	919	101	4	3	2314	3	ARID4A	14	58831047	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10		58831047	48518493	68	23199											
SIPA1L1	26037	hgsc.bcm.edu;ucsc.edu	37	chr14	72169179	72169179	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcagcggaaaatccacGcctagctggcaaagaagtga	13	5	14	9	2	0	2	0	1	0	1	1	3	1	3	2	4	2	3	2	4	5	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	72169179	G	A	72169179	2	1	447	1	0	0	0	0	0	0	0	1	14331	1074	38	1		1	SIPA1L1	14	72169179	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	13338132	72169179	35180361	69	23200											
GOLGA5	9950	hgsc.bcm.edu	37	chr14	93276655	93276655	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatcaagctctgcagacttTtcaggagagactgcatgaag	13	9	11	8	0	3	3	2	1	1	2	3	6	3	4	0	1	3	3	0	1	3	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	93276655	T	C	93276655	3	2	447	1	0	0	0	0	1	0	0	0	6556	1841	64	3	1063	3	GOLGA5	14	93276655	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	21107476	93276655	14072885	70	23201											
PLCB2	5330	hgsc.bcm.edu;ucsc.edu	37	chr15	40591379	40591379	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgaggacagaggctcatgagGaaactcttgtagacaggttc	12	8	13	8	1	2	3	1	1	1	2	3	6	2	5	0	4	1	3	0	4	2	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	40591379	G	T	40591379	3	4	447	1	0	0	0	0	1	0	0	0	12028	1165	41	4	3024	4	PLCB2	15	40591379	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10		40591379	61940013	71	23202											
DMXL2	23312	hgsc.bcm.edu;ucsc.edu	37	chr15	51790800	51790800	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtactagtagtagccaCtgtatcagccaaagctacaa	14	9	7	11	0	2	0	2	0	0	0	2	0	2	0	2	0	5	5	2	0	8	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	51790800	C	A	51790800	3	1	447	1	0	0	0	0	1	0	0	0	4595	565	20	4	4596	4	DMXL2	15	51790800	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	11199421	51790800	50740592	72	23203											
NEDD4	4734	hgsc.bcm.edu	37	chr15	56126438	56126438	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttacctctagttcatttTcatcaaaaattttgatgaga	12	17	5	7	0	5	2	3	2	2	1	5	3	5	2	1	0	1	1	1	0	4	7	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	56126438	T	G	56126438	3	3	447	1	0	0	0	0	1	0	0	0	10310	1783	62	5	413	5	NEDD4	15	56126438	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	4335638	56126438	46404954	73	23204											
LIPC	3990	hgsc.bcm.edu;ucsc.edu	37	chr15	58838059	58838059	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggagcacatgggcctgagCgtgggcatcaaacagcccat	10	5	14	12	2	1	1	1	1	0	0	1	2	1	2	2	3	4	2	2	3	1	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	58838059	C	T	58838059	2	4	447	1	0	0	0	0	0	0	0	1	8820	767	27	1		1	LIPC	15	58838059	Silent	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	2711621	58838059	43693333	74	23205											
APH1B	83464	hgsc.bcm.edu	37	chr15	63571478	63571478	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatctttggagcgtttGtctctgtctatatccaagaa	8	16	9	8	1	3	2	0	1	3	1	5	3	4	3	1	1	2	2	1	1	4	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	63571478	G	T	63571478	3	4	447	1	0	0	0	0	1	0	0	0	772	1377	48	4	238	4	APH1B	15	63571478	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	4733419	63571478	38959914	75	23206											
DNAH3	55567	hgsc.bcm.edu;ucsc.edu	37	chr16	21065766	21065766	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acatcgatgaccgtgagggcCccgagagtgagtcgagctcc	9	6	14	12	4	0	4	0	3	0	1	3	7	1	4	4	1	1	1	4	1	0	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	21065766	C	T	21065766	2	4	447	1	0	0	0	0	0	0	0	1	4603	610	22	2		2	DNAH3	16	21065766	Silent	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		21065766	69288987	76	23207											
CES2	8824	hgsc.bcm.edu;ucsc.edu	37	chr16	66972074	66972074	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagccacctctaggtccgCtgcgatttgcaccccctgag	7	8	9	17	2	1	1	0	1	1	0	2	2	2	1	6	1	3	2	6	1	2	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	66972074	C	A	66972074	3	1	447	1	0	0	0	0	1	0	0	0	3270	796	28	4	409	4	CES2	16	66972074	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	45906308	66972074	23382679	77	23208											
ADAMTS18	170692	hgsc.bcm.edu;ucsc.edu	37	chr16	77465292	77465292	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggtttctgagtctctgaaGcaccatcttttccaagtacc	8	13	8	12	1	3	2	0	2	3	0	5	2	4	2	3	1	2	3	3	1	3	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	77465292	G	T	77465292	3	4	447	1	0	0	0	0	1	0	0	0	263	971	34	4	3354	4	ADAMTS18	16	77465292	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	10493218	77465292	12889461	78	23209											
FANCA	2175	hgsc.bcm.edu;ucsc.edu	37	chr16	89807257	89807257	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcccatcaaggagaagaaGaaaaggaaaaccaatagctg	20	3	11	7	0	1	3	1	0	0	3	1	5	1	4	2	3	2	1	2	3	9	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	89807257	G	T	89807257	3	4	447	1	0	0	0	0	1	0	0	0	5662	933	33	4	608	4	FANCA	16	89807257	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	12341965	89807257	547496	79	23210											
USP6	9098	hgsc.bcm.edu	37	chr17	5066236	5066236	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagctttcattggaaatgcCtatattgctgtggattggca	10	14	11	6	0	1	1	1	0	0	1	1	3	1	3	1	3	3	3	1	3	3	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	5066236	C	A	5066236	2	1	447	1	0	0	0	0	0	0	0	1	17085	668	24	4		4	USP6	17	5066236	Silent	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		5066236	76128974	80	23211											
DNAH2	146754	hgsc.bcm.edu;ucsc.edu	37	chr17	7671377	7671377	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaattagccaaagagtatAaggtggggagaaacggcggg	16	5	15	5	2	0	2	0	0	0	2	0	3	0	2	1	5	2	1	1	5	7	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	7671377	A	G	7671377	3	3	447	1	0	0	0	0	1	0	0	0	4602	363	13	3	3921	3	DNAH2	17	7671377	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	2605141	7671377	73523833	81	23212											
TOP3A	7156	hgsc.bcm.edu;ucsc.edu	37	chr17	18205997	18205997	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacggcatggggtgtgatCtcagagaatcgggctcgcaa	9	8	15	9	3	1	3	1	2	1	1	4	4	1	3	0	4	0	3	0	4	2	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	18205997	C	A	18205997	3	1	447	1	0	0	0	0	1	0	0	0	16366	912	32	4	2521	4	TOP3A	17	18205997	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	10534620	18205997	62989213	82	23213											
EZH1	2145	hgsc.bcm.edu;ucsc.edu	37	chr17	40857163	40857163	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagactcctttatgaaggtGccccatccggccacatcaga	11	8	8	14	1	1	3	1	1	0	2	3	3	3	3	5	2	1	0	5	2	2	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	40857163	G	A	40857163	2	1	447	1	0	0	0	0	0	0	0	1	5333	1306	46	2		2	EZH1	17	40857163	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	22651166	40857163	40338047	83	23214											
ZCCHC2	54877	hgsc.bcm.edu;ucsc.edu	37	chr18	60242638	60242638	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggatttgggagattctaTcctgtatatccagcacctaa	11	12	9	9	0	1	1	0	0	1	1	3	3	3	2	3	2	1	3	3	2	4	6	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	60242638	T	C	60242638	2	2	447	1	0	0	0	0	0	0	0	1	17586	1442	50	3		3	ZCCHC2	18	60242638	Silent	SNP	T	TCGA-CZ-4861-01A-01D-1373-10		60242638	17834610	84	23215											
CDH19	28513	hgsc.bcm.edu;ucsc.edu	37	chr18	64172301	64172301	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgaatatggcactgtcgggGccaacttgcaaagactgcct	10	9	11	11	1	0	2	0	1	0	1	1	2	0	2	2	3	3	2	2	3	4	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	64172301	G	A	64172301	2	1	447	1	0	0	0	0	0	0	0	1	3104	1190	42	2		2	CDH19	18	64172301	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	3929663	64172301	13904947	85	23216											
SMARCA4	6597	hgsc.bcm.edu	37	chr19	11145751	11145751	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagatgttcggccgtggctcCcgccaccgcaaggaggtgga	8	6	15	12	4	0	1	0	0	0	1	2	3	1	3	4	5	0	3	4	5	2	1	rs143621108	alternate_allele	TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	11145751	C	A	11145751	2	1	447	1	0	0	0	0	0	0	0	1	14772	610	22	4		4	SMARCA4	19	11145751	Silent	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		11145751	47983232	86	23217											
ZNF441	126068	hgsc.bcm.edu;ucsc.edu	37	chr19	11892094	11892094	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtggaaaagcactttcTcatctgaaaagctttcagag	13	11	9	8	0	3	2	2	1	2	1	4	3	3	3	0	1	2	2	0	1	4	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	11892094	T	C	11892094	2	2	447	1	0	0	0	0	0	0	0	1	17913	1538	54	3		3	ZNF441	19	11892094	Silent	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	746343	11892094	47236889	87	23218											
CACNA1A	773	hgsc.bcm.edu;ucsc.edu	37	chr19	13419273	13419273	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacctgagggctcgtaacaCgctgattccaaaggatgtgc	11	9	11	10	2	0	2	0	2	0	0	2	3	1	3	2	2	3	3	2	2	3	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	13419273	C	T	13419273	3	4	447	1	0	0	0	0	1	0	0	0	2538	536	19	1	6033	1	CACNA1A	19	13419273	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	1527179	13419273	45709710	88	23219											
NLRP5	126206	hgsc.bcm.edu	37	chr19	56565046	56565046	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcgtgctgtgagagtctGtcctgtgtgatctcgaggag	5	11	16	9	3	2	2	0	2	2	1	4	5	3	3	2	1	1	1	2	1	0	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	56565046	G	A	56565046	2	1	447	1	0	0	0	0	0	0	0	1	10480	1364	48	2		2	NLRP5	19	56565046	Silent	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	43145773	56565046	2563937	89	23220											
PHF20	51230	hgsc.bcm.edu	37	chr20	34451134	34451134	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatctgttctgaaaaggggaAagtgtcagagaaaagtcttc	15	10	11	5	0	4	2	1	1	3	1	5	4	4	3	0	2	0	1	0	2	6	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	34451134	A	G	34451134	3	3	447	1	0	0	0	0	1	0	0	0	11831	14	1	3	638	3	PHF20	20	34451134	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10		34451134	28574386	90	23221											
TUBGCP6	85378	hgsc.bcm.edu	37	chr22	50682273	50682273	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacccgggtgtctctctcgaAcctgtcaccacaagggtcac	8	8	10	15	2	4	0	2	0	2	0	6	2	4	0	3	2	1	0	3	2	2	0	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	50682273	A	T	50682273	3	4	447	1	0	0	0	0	1	0	0	0	16769	43	2	5	4943	5	TUBGCP6	22	50682273	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10		50682273	622293	91	23222											
PDHA1	5160	hgsc.bcm.edu;ucsc.edu	37	chrX	19369447	19369447	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatcaaccccacagaccatCtcatcacagcctaccgggct	11	6	6	18	1	3	1	3	0	1	1	4	1	3	1	5	1	3	2	5	1	2	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	19369447	C	G	19369447	3	3	447	1	0	0	0	0	1	0	0	0	11664	913	32	4	493	4	PDHA1	23	19369447	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		19369447	135901113	92	23223											
MAGEB6	158809	hgsc.bcm.edu;ucsc.edu	37	chrX	26212893	26212893	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagaggaggtctgggagttCctgggtctgttggggatata	8	11	18	4	0	2	1	0	0	2	1	3	5	3	4	1	6	0	2	1	6	3	4	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	26212893	C	A	26212893	3	1	447	1	0	0	0	0	1	0	0	0	9179	854	30	4	932	4	MAGEB6	23	26212893	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	6843446	26212893	129057667	93	23224											
USP9X	8239	hgsc.bcm.edu;ucsc.edu	37	chrX	41025335	41025335	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcttgatccttctctgttAactgaaaatggaatgaagtg	12	13	9	7	0	1	3	0	3	1	0	3	4	2	4	1	1	2	2	1	1	5	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	41025335	A	G	41025335	2	3	447	1	0	0	0	0	0	0	0	1	17089	359	13	3		3	USP9X	23	41025335	Silent	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	14812442	41025335	114245225	94	23225											
SYP	6855	hgsc.bcm.edu	37	chrX	49049790	49049790	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcatgtgttccctgtcTggcggcagacaggcatctcc	5	11	11	14	1	2	1	0	0	2	1	4	1	3	1	3	3	1	4	3	3	0	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	49049790	T	C	49049790	3	2	447	1	0	0	0	0	1	0	0	0	15460	1580	55	3	395	3	SYP	23	49049790	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	8024455	49049790	106220770	95	23226											
MAGED1	9500	hgsc.bcm.edu;ucsc.edu	37	chrX	51637859	51637859	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgccgtcctgagctgctActgcacgcctcttggagcgt	4	10	12	15	3	1	1	0	1	1	0	2	2	2	2	4	1	6	3	4	1	1	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		G	51637859	A	G	51637859	3	3	447	1	0	0	0	0	1	0	0	0	9183	391	14	3	188	3	MAGED1	23	51637859	Missense_Mutation	SNP	A	TCGA-CZ-4861-01A-01D-1373-10	2588069	51637859	103632701	96	23227											
MED12	9968	hgsc.bcm.edu	37	chrX	70352801	70352801	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccctctacagccaggtgCaccaggtacagatctctggg	8	8	10	15	0	2	1	0	0	2	1	4	1	3	1	4	3	4	2	4	3	2	2	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	70352801	C	T	70352801	3	4	447	1	0	0	0	0	1	0	0	0	9428	710	25	2	4648	2	MED12	23	70352801	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10	18714942	70352801	84917759	97	23228											
RNF128	79589	hgsc.bcm.edu	37	chrX	105970574	105970574	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggggcgtctggagccgTcatctttaacttccccggga	7	9	14	11	3	3	1	1	0	2	1	4	4	4	3	3	4	2	0	3	4	1	3	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		C	105970574	T	C	105970574	3	2	447	1	0	0	0	0	1	0	0	0	13438	1667	58	3	843	3	RNF128	23	105970574	Missense_Mutation	SNP	T	TCGA-CZ-4861-01A-01D-1373-10	35617773	105970574	49299986	98	23229											
HCFC1	3054	hgsc.bcm.edu	37	chrX	153236183	153236183	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgatggccacggcgcGgtggccgtggcggggccgtg	2	7	19	13	6	0	1	0	1	0	0	1	1	1	1	4	7	0	0	4	7	0	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		T	153236183	G	T	153236183	3	4	447	1	0	0	0	0	1	0	0	0	6991	1116	39	4	6102	4	HCFC1	23	153236183	Missense_Mutation	SNP	G	TCGA-CZ-4861-01A-01D-1373-10	47265609	153236183	2034377	99	23230											
KDM5D	8284	hgsc.bcm.edu	37	chrY	21868427	21868427	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtcacctcaagcaggtccCcttccatcatgagctcctcc	7	9	8	17	0	3	1	3	1	0	0	7	1	7	1	6	2	2	2	6	2	1	1	novel		TCGA-CZ-4861-01A-01D-1373-10	TCGA-CZ-4861-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	b0fe8da0-5e6a-4893-ac30-fff975c80b50	3f6e4528-5418-418d-a5a6-2fe960a857fe		A	21868427	C	A	21868427	3	1	447	1	0	0	0	0	1	0	0	0	8136	623	22	4	458	4	KDM5D	24	21868427	Missense_Mutation	SNP	C	TCGA-CZ-4861-01A-01D-1373-10		21868427	37505139	100	23231											
NKAIN1	79570	hgsc.bcm.edu	37	chr1	31654716	31654716	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgacccacgtgtacagaGgctgcagctgtaaatgcgac	10	7	12	12	3	0	2	0	1	0	1	0	3	0	2	2	1	4	5	2	1	3	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	31654716	G	T	31654716	3	4	448	1	0	0	0	0	1	0	0	0	10435	1000	35	4	26	4	NKAIN1	1	31654716	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10		31654716	217595905	1	23232											
TMEM39B	55116	hgsc.bcm.edu	37	chr1	32557363	32557363	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atggcctccatggggccccgGgaggcggtcagtggcctggc	4	6	18	13	2	1	0	1	0	0	0	2	1	2	1	5	8	0	0	5	8	0	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	32557363	G	C	32557363	2	2	448	1	0	0	0	0	0	0	0	1	16161	1219	43	4		4	TMEM39B	1	32557363	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	902647	32557363	216693258	2	23233											
EIF2C1	26523	hgsc.bcm.edu	37	chr1	36358772	36358772	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcaagtggctagccatTgtgagctggcgaatgctgca	9	10	12	10	1	1	1	1	1	0	0	2	2	2	1	2	2	4	4	2	2	3	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	36358772	T	C	36358772	2	2	448	1	0	0	0	0	0	0	0	1	5005	1800	63	3		3	EIF2C1	1	36358772	Silent	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	3801409	36358772	212891849	3	23234											
RRAGC	64121	hgsc.bcm.edu	37	chr1	39305249	39305249	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcgtttcgtggcgtgccAttgtgtgtcagcgctttcag	4	14	14	9	4	2	0	2	0	0	0	3	0	2	0	1	2	2	2	1	2	0	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	39305249	A	G	39305249	2	3	448	1	0	0	0	0	0	0	0	1	13676	214	8	3		3	RRAGC	1	39305249	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	2946477	39305249	209945372	4	23235											
LGR6	59352	hgsc.bcm.edu	37	chr1	202273686	202273686	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctctgttctccctgcaGgaccctgacccgcgcaggca	5	9	10	17	2	2	1	0	1	2	0	4	2	2	2	3	2	1	4	3	2	0	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	202273686	G	A	202273686	5	1	448	1	0	0	0	0	0	0	1	0	8758	1014	35	2	1187	2	LGR6	1	202273686	Splice_Site	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	162968437	202273686	46976935	5	23236											
KDM5B	10765	hgsc.bcm.edu	37	chr1	202710614	202710614	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagccctacccctaggtcTatgagacgtctcatatcatc	9	10	7	15	1	3	1	2	1	2	1	5	2	3	1	4	1	2	0	4	1	4	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	202710614	T	G	202710614	2	3	448	1	0	0	0	0	0	0	0	1	8134	1512	53	5		5	KDM5B	1	202710614	Silent	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	436928	202710614	46540007	6	23237											
KCNS3	3790	hgsc.bcm.edu	37	chr2	18113361	18113362	+	Frame_Shift_Ins	INS	-	-	T																															gcatccccatctgctggtggINStgggccaccatcagcatgac																								novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	18113362	-	T	18113361	7	5	448	1	0	1	1	0	0	0	0	0	8090	1270	44	0	1088	0	KCNS3	2	18113361	Frame_Shift_Ins	INS	-	TCGA-CZ-4862-01A-01D-1373-10		18113361	225086012	7	23238											
LRP2	4036	hgsc.bcm.edu;ucsc.edu	37	chr2	170003359	170003359	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttcaaataatcgatagaaAggccagttggccaaccaagg	15	8	10	8	1	1	1	1	0	0	1	2	2	1	1	3	3	1	2	3	3	6	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	170003359	A	T	170003359	3	4	448	1	0	0	0	0	1	0	0	0	8956	72	3	5	1310	5	LRP2	2	170003359	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	151889998	170003359	73196014	8	23239											
TTLL4	9654	hgsc.bcm.edu;ucsc.edu	37	chr2	219612071	219612071	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagtggagtcagctccccaAgcgaaggcccctcctggtac	9	6	11	15	1	1	0	1	0	0	0	3	2	3	1	5	3	3	2	5	3	4	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	219612071	A	G	219612071	3	3	448	1	0	0	0	0	1	0	0	0	16728	72	3	3	2255	3	TTLL4	2	219612071	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	49608712	219612071	23587302	9	23240											
TMEM198	130612	hgsc.bcm.edu	37	chr2	220414473	220414473	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttccgagaccggcagaccgGgagctccctgagctccttca	7	7	11	16	3	1	3	1	1	0	2	4	5	4	4	5	2	2	3	5	2	0	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	220414473	G	A	220414473	3	1	448	1	0	0	0	0	1	0	0	0	16118	1232	43	2	994	2	TMEM198	2	220414473	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	802402	220414473	22784900	10	23241											
GPR35	2859	hgsc.bcm.edu	37	chr2	241570127	241570127	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgtgccctcctggagaCgatccgtcgcgccctgtaca	5	8	11	17	5	0	1	0	0	0	1	3	3	2	1	5	1	2	1	5	1	1	1	rs12468485	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	241570127	C	T	241570127	3	4	448	1	0	0	0	0	1	0	0	0	6690	536	19	1	760	1	GPR35	2	241570127	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	21155654	241570127	1629246	11	23242											
IL17RC	84818	hgsc.bcm.edu	37	chr3	9974300	9974300	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtctcccagacatccacAagcgctgggccctcgtgtgg	6	8	13	14	2	1	1	0	0	1	1	4	1	2	1	3	3	1	1	3	3	1	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	9974300	A	G	9974300	3	3	448	1	0	0	0	0	1	0	0	0	7641	131	5	3	1675	3	IL17RC	3	9974300	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		9974300	188048130	12	23243											
COL7A1	1294	hgsc.bcm.edu	37	chr3	48609842	48609842	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaggtctccagcaaggcCtccaggggctccctggtaag	8	6	12	15	0	1	0	0	0	1	0	4	0	3	0	5	5	1	3	5	5	2	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	48609842	C	T	48609842	3	4	448	1	0	0	0	0	1	0	0	0	3704	681	24	2	2005	2	COL7A1	3	48609842	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	38635542	48609842	149412588	13	23244											
APEH	327	hgsc.bcm.edu	37	chr3	49716331	49716331	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctgcctttgggatgctgGtcagctgacagccagagagt	7	11	13	10	0	2	2	1	1	1	1	2	4	2	3	2	2	4	2	2	2	0	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	49716331	G	C	49716331	3	2	448	1	0	0	0	0	1	0	0	0	768	1270	44	4	1153	4	APEH	3	49716331	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	1106489	49716331	148306099	14	23245											
ALAS1	211	hgsc.bcm.edu	37	chr3	52239907	52239907	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtactagaaatatttctGgaactagtaaattccatgtg	13	14	9	5	0	1	1	0	0	1	1	2	2	2	2	1	2	2	2	1	2	8	7	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	52239907	G	C	52239907	3	2	448	1	0	0	0	0	1	0	0	0	484	1349	47	4	871	4	ALAS1	3	52239907	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	2523576	52239907	145782523	15	23246											
PHF7	51533	hgsc.bcm.edu	37	chr3	52454991	52454991	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggaggaaagctgcatcttAtgttgtgaagacttatccca	11	11	12	7	0	1	2	0	1	1	1	2	4	2	4	1	3	2	3	1	3	4	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	52454991	A	G	52454991	2	3	448	1	0	0	0	0	0	0	0	1	11839	446	16	3		3	PHF7	3	52454991	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	215084	52454991	145567439	16	23247											
NFKBIZ	64332	hgsc.bcm.edu	37	chr3	101576021	101576021	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcctgtcttttgtgaaTgcaaaggtacaccagagttg	10	13	11	7	0	1	2	0	1	1	1	1	2	1	2	2	1	3	4	2	1	3	5	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	101576021	T	A	101576021	3	1	448	1	0	0	0	0	1	0	0	0	10383	1461	51	5	1967	5	NFKBIZ	3	101576021	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	49121030	101576021	96446409	17	23248											
FAM190A	0	hgsc.bcm.edu	37	chr4	91230368	91230368	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacaacaacagaacttacGggaactgttccctgtgcaat	15	8	8	10	1	0	2	0	0	0	2	1	3	1	3	1	1	6	2	1	1	7	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	91230368	G	A	91230368	2	1	448	1	0	0	0	0	0	0	0	1	5521	1103	39	1		1	FAM190A	4	91230368	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10		91230368	99923908	18	23249											
ERBB2IP	55914	hgsc.bcm.edu	37	chr5	65321792	65321792	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcataattacttacagcAgttgcccccagaggtaatgt	12	12	8	9	0	1	2	1	1	0	1	1	2	1	2	2	1	4	3	2	1	4	5	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	65321792	A	G	65321792	3	3	448	1	0	0	0	0	1	0	0	0	5207	188	7	3	1045	3	ERBB2IP	5	65321792	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		65321792	115593468	19	23250											
PDE8B	8622	hgsc.bcm.edu	37	chr5	76703260	76703260	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgaggatccactccatgaCcatcgaggctcccatcacaa	11	6	9	15	2	1	1	1	1	0	0	5	4	4	2	4	3	0	1	4	3	1	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	76703260	C	T	76703260	3	4	448	1	0	0	0	0	1	0	0	0	11654	507	18	2	1393	2	PDE8B	5	76703260	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	11381468	76703260	104212000	20	23251											
RAD50	10111	hgsc.bcm.edu	37	chr5	131927632	131927632	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatgaattaacctcactgTtgggatattttcccaacaaa	13	13	7	8	0	1	2	1	2	0	0	2	3	2	3	2	1	2	1	2	1	5	5	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	131927632	T	A	131927632	3	1	448	1	0	0	0	0	1	0	0	0	12986	1722	60	5	1741	5	RAD50	5	131927632	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	55224372	131927632	48987628	21	23252											
FAT2	2196	hgsc.bcm.edu	37	chr5	150924102	150924102	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggagtccctctggactccGggcctgggtgtggagaattg	5	9	16	11	2	1	1	0	0	1	1	3	4	3	3	4	5	0	0	4	5	1	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	150924102	G	T	150924102	2	4	448	1	0	0	0	0	0	0	0	1	5690	1115	39	4		4	FAT2	5	150924102	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	18996470	150924102	29991158	22	23253											
POLR1C	9533	hgsc.bcm.edu	37	chr6	43489006	43489006	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggaagtgccggcgcttcTtggatgaactagatgcggtt	7	11	16	7	3	1	2	0	1	1	1	1	4	1	4	1	5	3	2	1	5	3	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	43489006	T	G	43489006	3	3	448	1	0	0	0	0	1	0	0	0	12211	1606	56	5	1043	5	POLR1C	6	43489006	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10		43489006	127626061	23	23254											
DST	667	hgsc.bcm.edu;ucsc.edu	37	chr6	56418199	56418199	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaaggctgccttctcagAcccttgtgtttttaataaca	9	15	7	10	0	1	1	1	0	1	1	2	1	1	1	2	1	2	3	2	1	3	7	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	56418199	A	G	56418199	3	3	448	1	0	0	0	0	1	0	0	0	4783	275	10	3	8165	3	DST	6	56418199	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	12929193	56418199	114696868	24	23255											
SFRS18	0	hgsc.bcm.edu;ucsc.edu	37	chr6	99858629	99858629	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttcacctgatagtcaaaCtggttcactggccccactgc	8	12	7	14	0	4	1	3	1	1	0	4	1	4	1	3	2	2	1	3	2	2	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	99858629	C	T	99858629	2	4	448	1	0	0	0	0	0	0	0	1	14176	564	20	2		2	SFRS18	6	99858629	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	43440430	99858629	71256438	25	23256											
ITGB8	3696	hgsc.bcm.edu	37	chr7	20371478	20371478	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctgcatttgtctgcctgCaaaacgaccggcgaggtccc	7	8	11	15	4	1	0	0	0	1	0	2	2	2	0	4	2	4	3	4	2	2	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	20371478	C	T	20371478	4	4	448	1	0	0	0	0	0	1	0	0	7901	711	25	2	51	2	ITGB8	7	20371478	Nonsense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10		20371478	138767185	26	23257											
OGDH	4967	hgsc.bcm.edu;ucsc.edu	37	chr7	44687318	44687318	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggatgctgatctggactcCtccgtgcccgctgacattat	6	13	10	12	2	1	2	0	2	1	0	3	4	3	4	3	2	2	2	3	2	1	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	44687318	C	A	44687318	2	1	448	1	0	0	0	0	0	0	0	1	10839	668	24	4		4	OGDH	7	44687318	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	24315840	44687318	114451345	27	23258											
ZNF107	51427	hgsc.bcm.edu	37	chr7	64168486	64168486	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttactaaccataagataattTatactggagagaaaccccac	17	10	5	9	0	0	2	0	0	0	2	0	4	0	3	3	1	4	0	3	1	7	7	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	64168486	T	C	64168486	3	2	448	1	0	0	0	0	1	0	0	0	17714	1754	61	3	1810	3	ZNF107	7	64168486	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	19481168	64168486	94970177	28	23259											
ARHGEF10	9639	hgsc.bcm.edu;ucsc.edu	37	chr8	1881967	1881967	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaatattttcttttaagaTggatcctgggattcagaacc	12	15	8	6	0	2	3	1	1	1	2	3	5	3	5	2	2	1	0	2	2	4	6	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	1881967	T	G	1881967	3	3	448	1	0	0	0	0	1	0	0	0	894	1478	51	5	3179	5	ARHGEF10	8	1881967	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10		1881967	144482055	29	23260											
CSMD1	64478	hgsc.bcm.edu;ucsc.edu	37	chr8	3046465	3046465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacagttcaagttgtttcCgtatggctcagggtagccgg	8	13	12	8	2	2	0	2	0	0	0	3	0	3	0	2	3	2	6	2	3	5	7	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	3046465	C	T	3046465	3	4	448	1	0	0	0	0	1	0	0	0	3944	661	23	1	5371	1	CSMD1	8	3046465	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	1164498	3046465	143317557	30	23261											
TCEB1	6921	ucsc.edu	37	chr8	74858969	74858969	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttagtgtagcgaaccttgtAcgtaaaatacatgcatactt	13	13	8	7	2	0	0	0	0	0	0	0	1	0	0	1	0	6	5	1	0	8	8	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	A	T	A	A	Unknown	Valid	Somatic	.	WXS	PGM	.	.	SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	74858969	A	T	74858969	3	4	448	1	0	0	0	0	1	0	0	0	15678	391	14	5	107	5	TCEB1	8	74858969	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	71812504	74858969	71505053	31	23262											
RBM12B	389677	hgsc.bcm.edu	37	chr8	94746443	94746443	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgctctgggggtggccgAcggaaatgctcctgaggtgg	8	8	17	8	2	1	1	0	1	1	0	2	3	2	2	2	6	2	2	2	6	2	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	94746443	A	C	94746443	2	2	448	1	0	0	0	0	0	0	0	1	13116	262	10	5		5	RBM12B	8	94746443	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	19887474	94746443	51617579	32	23263											
C9orf3	84909	hgsc.bcm.edu	37	chr9	97823000	97823000	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccagaccagctggtcttgCttctggagcatctcttggag	6	13	11	11	0	3	1	0	0	3	1	5	3	4	3	2	3	3	3	2	3	0	4	rs187186964	by1000genomes;alternate_allele	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	97823000	C	T	97823000	3	4	448	1	0	0	0	0	1	0	0	0	2477	797	28	2	1885	2	C9orf3	9	97823000	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10		97823000	43390431	33	23264											
RAD23B	5887	hgsc.bcm.edu	37	chr9	110084347	110084348	+	Frame_Shift_Del	DEL	GG	GG	-																															gctcctcagtcttcagcagtGgctgcagctgcagcaactac																								novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		-	110084348	GG	-	110084347	7	5	448	1	0	1	0	1	0	0	0	0	12985	1335	47	0	791	0	RAD23B	9	110084347	Frame_Shift_Del	DEL	GG	TCGA-CZ-4862-01A-01D-1373-10	12261347	110084347	31129084	34	23265											
PTPN3	5774	hgsc.bcm.edu	37	chr9	112151594	112151594	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctgccaaaactgtgcacaGgtatgcggcaggggcccctg	9	6	13	13	1	0	0	0	0	0	0	0	0	0	0	4	4	4	3	4	4	3	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	112151594	G	C	112151594	2	2	448	1	0	0	0	0	0	0	0	1	12791	987	35	4		4	PTPN3	9	112151594	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	2067247	112151594	29061837	35	23266											
RALGPS1	9649	hgsc.bcm.edu	37	chr9	129974994	129974994	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcggggcacagacagaaAacacgtaagtcccttgaaag	14	6	11	10	2	0	3	0	1	0	2	1	3	1	3	1	2	2	2	1	2	4	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	129974994	A	C	129974994	3	2	448	1	0	0	0	0	1	0	0	0	13019	14	1	5	1500	5	RALGPS1	9	129974994	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	17823400	129974994	11238437	36	23267											
SFTPD	6441	hgsc.bcm.edu	37	chr10	81702585	81702585	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgtcccctttgggcccaaCtgggccagcttgtccaggca	6	10	11	14	0	0	0	0	0	0	0	2	0	2	0	5	3	2	2	5	3	1	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	81702585	C	T	81702585	3	4	448	1	0	0	0	0	1	0	0	0	14195	565	20	2	901	2	SFTPD	10	81702585	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10		81702585	53832162	37	23268											
CARS	833	hgsc.bcm.edu	37	chr11	3022346	3022346	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcagtcctgtgccccctcActggaagcttccattctggg	6	11	10	14	0	3	0	2	0	1	0	5	1	5	1	4	2	2	1	4	2	1	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	3022346	A	C	3022346	3	2	448	1	0	0	0	0	1	0	0	0	2657	172	6	5	5	5	CARS	11	3022346	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		3022346	131984170	38	23269											
OR51V1	283111	hgsc.bcm.edu	37	chr11	5221676	5221676	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagcactgtgtacacagtGgacagccccatgcacaggtc	10	6	10	15	0	0	0	0	0	0	0	1	1	0	1	3	2	4	3	3	2	1	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	5221676	G	C	5221676	2	2	448	1	0	0	0	0	0	0	0	1	11107	1335	47	4		4	OR51V1	11	5221676	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	2199330	5221676	129784840	39	23270											
TRIM34	53840	hgsc.bcm.edu	37	chr11	5653647	5653647	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagaacccttgagtctagActgtggccacagcctctgcc	9	8	10	14	0	2	3	0	1	2	2	2	4	2	3	4	1	3	0	4	1	2	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	5653647	A	T	5653647	3	4	448	1	0	0	0	0	1	0	0	0	16507	275	10	5	88	5	TRIM34	11	5653647	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	431971	5653647	129352869	40	23271											
PTPN5	84867	hgsc.bcm.edu	37	chr11	18751361	18751361	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaggcctcgctcctcagtcCcactctgtcgaggagacaga	8	8	10	15	2	3	2	2	0	1	2	7	4	5	2	3	2	0	1	3	2	0	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	18751361	C	T	18751361	3	4	448	1	0	0	0	0	1	0	0	0	12793	623	22	2	375	2	PTPN5	11	18751361	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	13097714	18751361	116255155	41	23272											
PDHX	8050	hgsc.bcm.edu	37	chr11	35016594	35016594	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaagagggaaatgccaaaCtgcagcagcgccagctcata	15	5	11	10	1	1	2	1	1	0	1	1	3	1	3	2	1	6	3	2	1	4	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	35016594	C	T	35016594	2	4	448	1	0	0	0	0	0	0	0	1	11667	564	20	2		2	PDHX	11	35016594	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	16265233	35016594	99989922	42	23273											
DSCAML1	57453	hgsc.bcm.edu	37	chr11	117299382	117299382	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agggtccagggtcaggtggcGagcctgggtgtggtaggttc	5	9	20	7	1	1	0	1	0	0	0	3	1	2	0	2	7	1	2	2	7	1	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	117299382	G	C	117299382	3	2	448	1	0	0	0	0	1	0	0	0	4769	1058	37	4	341	4	DSCAML1	11	117299382	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	82282788	117299382	17707134	43	23274											
NAV3	89795	hgsc.bcm.edu	37	chr12	78401149	78401149	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtgggcagagcacaggaAatggtgctgtccaactccct	10	7	13	11	0	0	1	0	0	0	1	2	2	2	2	2	3	3	4	2	3	2	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	78401149	A	C	78401149	3	2	448	1	0	0	0	0	1	0	0	0	10185	14	1	5	1861	5	NAV3	12	78401149	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		78401149	55450746	44	23275											
ELK3	2004	hgsc.bcm.edu	37	chr12	96641322	96641322	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatgactccgattcccTggagcccttgaacctgtcat	7	11	8	15	1	1	2	1	2	0	0	3	4	3	3	5	1	3	0	5	1	1	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	96641322	T	G	96641322	3	3	448	1	0	0	0	0	1	0	0	0	5060	1580	55	5	818	5	ELK3	12	96641322	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	18240173	96641322	37210573	45	23276											
RBM19	9904	hgsc.bcm.edu	37	chr12	114397159	114397159	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccaagtggctgcctgcgcCcgcctctgatgaactgacag	7	7	12	15	2	1	3	0	3	1	0	1	3	1	3	4	1	3	1	4	1	2	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	114397159	C	T	114397159	2	4	448	1	0	0	0	0	0	0	0	1	13123	610	22	2		2	RBM19	12	114397159	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	17755837	114397159	19454736	46	23277											
MYH6	4624	hgsc.bcm.edu	37	chr14	23865529	23865529	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaactcaatgcgcatgAgctggccccgggcttgggcc	6	9	13	13	2	2	2	1	2	1	0	2	2	2	2	3	3	3	3	3	3	2	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	23865529	A	C	23865529	3	2	448	1	0	0	0	0	1	0	0	0	10038	304	11	5	3506	5	MYH6	14	23865529	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		23865529	83484011	47	23278											
CTAGE5	4253	hgsc.bcm.edu	37	chr14	39783949	39783949	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgttccatttagaaagcgAgccaaagatcttgaagaaga	15	10	9	7	2	1	5	0	1	1	4	3	6	2	5	2	0	2	1	2	0	5	5	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	39783949	A	G	39783949	2	3	448	1	0	0	0	0	0	0	0	1	3994	291	11	3		3	CTAGE5	14	39783949	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	15918420	39783949	67565591	48	23279											
ZFYVE26	23503	hgsc.bcm.edu	37	chr14	68256097	68256097	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgccgttcggctgtctccaAaagctgcttgcaggttttcc	6	12	10	13	3	1	0	0	0	1	0	4	0	2	0	3	2	3	6	3	2	2	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	68256097	A	G	68256097	2	3	448	1	0	0	0	0	0	0	0	1	17667	11	1	3		3	ZFYVE26	14	68256097	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	28472148	68256097	39093443	49	23280											
SIPA1L1	26037	hgsc.bcm.edu	37	chr14	72055087	72055087	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctcccccagaaaagcTcttcgcagaatacgccagcg	11	5	8	17	3	1	2	0	0	1	2	3	2	2	2	4	0	4	3	4	0	4	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	72055087	T	C	72055087	2	2	448	1	0	0	0	0	0	0	0	1	14331	1538	54	3		3	SIPA1L1	14	72055087	Silent	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	3798990	72055087	35294453	50	23281											
C14orf153	0	hgsc.bcm.edu	37	chr14	104053676	104053676	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaatttttaagtaaaaatTttcagaagcacatgtattat	17	15	6	3	0	1	1	1	0	0	1	1	2	1	2	0	1	1	3	0	1	8	8	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	104053676	T	C	104053676	3	2	448	1	0	0	0	0	1	0	0	0	1753	1841	64	3	504	3	C14orf153	14	104053676	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	31998589	104053676	3295864	51	23282											
CCNDBP1	23582	hgsc.bcm.edu	37	chr15	43478362	43478362	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccccagatgaggcagcTgtgactgtgtcaagggaagc	10	6	13	12	0	1	3	1	2	0	1	1	4	1	4	3	2	2	2	3	2	2	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	43478362	T	A	43478362	2	1	448	1	0	0	0	0	0	0	0	1	2919	1567	55	5		5	CCNDBP1	15	43478362	Silent	SNP	T	TCGA-CZ-4862-01A-01D-1373-10		43478362	59053030	52	23283											
PRTG	283659	hgsc.bcm.edu	37	chr15	56032872	56032872	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaaagacagttcgctaaaGcaccacactcctataaggaa	18	6	6	11	1	0	1	0	0	0	1	2	2	1	2	2	1	1	3	2	1	7	4	rs77118243	byfrequency;by1000genomes	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	56032872	G	A	56032872	2	1	448	1	0	0	0	0	0	0	0	1	12640	963	34	2		2	PRTG	15	56032872	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	12554510	56032872	46498520	53	23284											
CGNL1	84952	hgsc.bcm.edu	37	chr15	57816814	57816814	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggcctcccgtacctcaacCctggagctccagaaccagct	9	6	9	17	1	1	1	1	0	0	1	3	3	3	2	6	2	5	3	6	2	3	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	57816814	C	T	57816814	2	4	448	1	0	0	0	0	0	0	0	1	3304	610	22	2		2	CGNL1	15	57816814	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	1783942	57816814	44714578	54	23285											
BNC1	646	hgsc.bcm.edu	37	chr15	83933199	83933199	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgactttggtcatgaccCtgctccaacatatattgttc	8	15	6	12	0	1	2	1	2	0	0	4	2	3	2	3	1	2	2	3	1	3	5	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	83933199	C	T	83933199	2	4	448	1	0	0	0	0	0	0	0	1	1474	680	24	2		2	BNC1	15	83933199	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	26116385	83933199	18598193	55	23286											
ZNF710	374655	hgsc.bcm.edu;ucsc.edu	37	chr15	90616441	90616441	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacctttgtacagaagcagActctcaagacccacatgatt	14	9	7	11	0	1	5	1	1	1	4	2	5	1	5	2	0	2	2	2	0	3	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	90616441	A	G	90616441	3	3	448	1	0	0	0	0	1	0	0	0	18114	275	10	3	1603	3	ZNF710	15	90616441	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	6683242	90616441	11914951	56	23287											
ABCA3	21	hgsc.bcm.edu	37	chr16	2376045	2376045	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acaagtgccctgcgcactgtCtcagtgacggtcttggcagc	7	9	12	13	2	2	1	1	1	2	0	3	1	2	1	1	2	3	2	1	2	1	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	2376045	C	G	2376045	3	3	448	1	0	0	0	0	1	0	0	0	33	912	32	4	4945	4	ABCA3	16	2376045	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10		2376045	87978708	57	23288											
UBN1	29855	hgsc.bcm.edu	37	chr16	4924863	4924863	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcagcagaaaaacttcAcgcccccatctccatttgcc	11	8	5	17	1	3	1	2	0	1	1	4	1	3	1	4	0	4	2	4	0	2	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	4924863	A	C	4924863	3	2	448	1	0	0	0	0	1	0	0	0	16891	159	6	5	2506	5	UBN1	16	4924863	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	2548818	4924863	85429890	58	23289											
SPN	6693	hgsc.bcm.edu	37	chr16	29675507	29675507	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggagcccctgttaccaCggcagctagctctctggaga	8	8	12	13	1	1	1	0	0	1	1	2	3	1	2	3	3	4	4	3	3	2	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	29675507	C	T	29675507	3	4	448	1	0	0	0	0	1	0	0	0	15074	536	19	1	460	1	SPN	16	29675507	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	24750644	29675507	60679246	59	23290											
MBTPS1	8720	hgsc.bcm.edu	37	chr16	84089720	84089720	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggtcaatggagagtagcTtctgatgtttccaaaggtta	11	12	11	7	0	2	2	1	1	1	1	3	3	3	2	2	3	1	4	2	3	4	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	84089720	T	C	84089720	3	2	448	1	0	0	0	0	1	0	0	0	9361	1609	56	3	314	3	MBTPS1	16	84089720	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	54414213	84089720	6265033	60	23291											
PIK3R5	23533	hgsc.bcm.edu	37	chr17	8792003	8792003	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgcgagagggccggcccCgaggcctgggaggatgcaag	7	3	20	11	4	0	1	0	0	0	1	0	5	0	3	4	6	1	1	4	6	1	0	rs9915880	bycluster;byfrequency;by2hit2allele;by1000genomes;alternate_allele	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	8792003	C	G	8792003	2	3	448	1	0	0	0	0	0	0	0	1	11922	639	23	4		4	PIK3R5	17	8792003	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10		8792003	72403207	61	23292											
SLC16A5	9121	hgsc.bcm.edu	37	chr17	73096580	73096580	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggacgagcagcaggcagcCctcctcatctccatcatcgg	8	7	11	15	2	3	0	2	0	1	0	6	2	4	1	3	3	3	3	3	3	0	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	73096580	C	T	73096580	2	4	448	1	0	0	0	0	0	0	0	1	14413	610	22	2		2	SLC16A5	17	73096580	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	64304577	73096580	8098630	62	23293											
NFATC1	4772	hgsc.bcm.edu	37	chr18	77211777	77211777	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtctggccacaacttcCtgcaggactccaaggtcatt	8	11	8	14	0	2	0	1	0	1	0	5	1	5	1	4	3	2	1	4	3	2	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	77211777	C	T	77211777	2	4	448	1	0	0	0	0	0	0	0	1	10361	680	24	2		2	NFATC1	18	77211777	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10		77211777	865471	63	23294											
ZNF333	84449	hgsc.bcm.edu	37	chr19	14829458	14829458	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactttaacctgattttgcAccagagaaaccacacaggag	15	8	8	10	0	0	2	0	1	0	1	0	5	0	3	3	1	4	1	3	1	3	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	14829458	A	C	14829458	3	2	448	1	0	0	0	0	1	0	0	0	17849	159	6	5	1361	5	ZNF333	19	14829458	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		14829458	44299525	64	23295											
B3GNT8	374907	hgsc.bcm.edu	37	chr19	41932063	41932063	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcccagagcagcaggtcActgtagcgacggctctccca	10	6	11	14	2	2	1	1	0	1	1	4	2	3	1	2	2	3	4	2	2	2	1	rs45563938	bycluster;byfrequency;by1000genomes	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	41932063	A	G	41932063	2	3	448	1	0	0	0	0	0	0	0	1	1263	156	6	3		3	B3GNT8	19	41932063	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	27102605	41932063	17196920	65	23296											
ZHX3	23051	hgsc.bcm.edu	37	chr20	39832082	39832082	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtagatgctagcatcaAggaaggcttgggaggttatg	10	13	14	4	0	1	1	1	0	0	1	1	3	1	3	0	4	2	5	0	4	5	6	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	39832082	A	G	39832082	3	3	448	1	0	0	0	0	1	0	0	0	17676	72	3	3	1403	3	ZHX3	20	39832082	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10		39832082	23193438	66	23297											
RBM38	55544	hgsc.bcm.edu	37	chr20	55968368	55968368	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgcagcagctgcaccccaCcttgatccagcggacttacg	8	7	11	15	2	0	1	0	1	0	0	1	2	1	2	4	2	6	4	4	2	1	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	55968368	C	G	55968368	3	3	448	1	0	0	0	0	1	0	0	0	13134	507	18	4	164	4	RBM38	20	55968368	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	16136286	55968368	7057152	67	23298											
CRYAA	1409	hgsc.bcm.edu;ucsc.edu	37	chr21	44589294	44589294	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttcgaccagtttttcggcGagggcctttttgagtatgac	6	15	12	8	3	0	2	0	2	0	0	2	4	0	2	2	2	0	3	2	2	1	6	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	44589294	G	A	44589294	3	1	448	1	0	0	0	0	1	0	0	0	3905	1059	37	1	87	1	CRYAA	21	44589294	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10		44589294	3540601	68	23299											
SAMM50	25813	hgsc.bcm.edu;ucsc.edu	37	chr22	44386258	44386258	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggaacttaattactgcGtccccatgggagtacagaca	11	10	11	9	1	0	1	0	0	0	1	1	3	1	3	2	3	4	2	2	3	4	4	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	44386258	G	A	44386258	3	1	448	1	0	0	0	0	1	0	0	0	13831	1145	40	1	1390	1	SAMM50	22	44386258	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10		44386258	6918308	69	23300											
PKDREJ	10343	hgsc.bcm.edu	37	chr22	46656257	46656257	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagcactgtgctgtccactTgaaagctaaacccacctgtc	11	10	7	13	0	0	1	0	1	0	0	2	1	1	1	3	0	4	3	3	0	4	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	46656257	T	C	46656257	3	2	448	1	0	0	0	0	1	0	0	0	11970	1812	63	3	3802	3	PKDREJ	22	46656257	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	2269999	46656257	4648309	70	23301											
HDAC10	83933	hgsc.bcm.edu	37	chr22	50685379	50685379	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagaggctggagtggctGctataccactgttcacctgt	8	10	12	11	0	1	1	1	0	0	1	1	2	1	2	2	3	3	5	2	3	2	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	50685379	G	A	50685379	3	1	448	1	0	0	0	0	1	0	0	0	7005	1319	46	2	594	2	HDAC10	22	50685379	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	4029122	50685379	619187	71	23302											
ARSD	414	hgsc.bcm.edu	37	chrX	2835993	2835993	+	Silent	SNP	G	G	A																															gtaccaagagatgaaaaacaGgcagcccacgccggccatgc																								novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	2835993	G	A	2835993	2	1	448	1	0	0	0	0	0	0	0	1	989	991	35	2		2	ARSD	23	2835993	Silent	SNP	G	TCGA-CZ-4862-01A-01D-1373-10		2835993	152434567	72	23303	327	2	1	38		4	3	55	N	G_C	9.318457e-09
ARSD	414	hgsc.bcm.edu	37	chrX	2835995	2835995	+	Missense_Mutation	SNP	C	C	A																															accaagagatgaaaaacaggCagcccacgccggccatgccg																								rs150899882	byfrequency	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		A	2835995	C	A	2835995	3	1	448	1	0	0	0	0	1	0	0	0	989	710	25	4	1245	4	ARSD	23	2835995	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	2	2835995	152434565	73	23304	327	2	1	38		4	3	55	N	G_C	9.318457e-09
ARSD	414	hgsc.bcm.edu	37	chrX	2836007	2836007	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaacaggcagcccacgccgGccatgccggtgactgctctc	9	5	11	16	3	1	1	0	1	1	0	2	1	1	1	4	3	4	2	4	3	2	0	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	2836007	G	C	2836007	3	2	448	1	0	0	0	0	1	0	0	0	989	1203	42	4	1257	4	ARSD	23	2836007	Missense_Mutation	SNP	G	TCGA-CZ-4862-01A-01D-1373-10	12	2836007	152434553	74	23305			1	38		4	3	55	N	G_C	9.318457e-09
ARSD	414	hgsc.bcm.edu	37	chrX	2836047	2836047	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggagacagagaagaaacCgcaggtctggccggcagcca	12	2	15	12	4	1	3	0	0	1	3	1	5	1	3	3	4	2	2	3	4	2	0	rs67359049	bycluster;byfrequency;by1000genomes	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	2836047	C	T	2836047	3	4	448	1	0	0	0	0	1	0	0	0	989	652	23	1	1297	1	ARSD	23	2836047	Missense_Mutation	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	40	2836047	152434513	75	23306			1	38		4	3	55	N	G_C	9.318457e-09
DMD	1756	hgsc.bcm.edu	37	chrX	31496341	31496341	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctcatccgtggcctctTgaagttcccggagtctttca	6	12	9	14	2	4	1	2	1	2	0	6	2	6	2	4	2	1	2	4	2	1	3	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		G	31496341	T	G	31496341	3	3	448	1	0	0	0	0	1	0	0	0	4580	1812	63	5	2436	5	DMD	23	31496341	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	28660294	31496341	123774219	76	23307											
HUWE1	10075	hgsc.bcm.edu	37	chrX	53577912	53577912	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctactgtgcccaaacAgacgctcatgcatgagctgt	10	9	11	11	1	1	2	1	1	0	1	1	2	1	2	1	1	6	4	1	1	2	1	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	53577912	A	T	53577912	3	4	448	1	0	0	0	0	1	0	0	0	7461	188	7	5	3869	5	HUWE1	23	53577912	Missense_Mutation	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	22081571	53577912	101692648	77	23308											
LRCH2	57631	hgsc.bcm.edu	37	chrX	114357118	114357118	+	Missense_Mutation	SNP	T	T	C																															cacccaactttttacaagcaTcaagaaaattttctacattt																								novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	114357118	T	C	114357118	3	2	448	1	0	0	0	0	1	0	0	0	8933	1435	50	3	155	3	LRCH2	23	114357118	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	60779206	114357118	40913442	78	23309	328	2									
LRCH2	57631	hgsc.bcm.edu	37	chrX	114357120	114357120	+	Silent	SNP	A	A	T																															cccaactttttacaagcatcAagaaaattttctacatttct																								novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	114357120	A	T	114357120	2	4	448	1	0	0	0	0	0	0	0	1	8933	117	5	5		5	LRCH2	23	114357120	Silent	SNP	A	TCGA-CZ-4862-01A-01D-1373-10	2	114357120	40913440	79	23310	328	2									
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140993864	140993864	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagagaactcagagtacttTtgagggttttgcccagtctc	9	13	11	8	0	2	4	1	2	1	2	3	5	2	4	1	1	3	2	1	1	2	5	rs34836042	bycluster	TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		C	140993864	T	C	140993864	3	2	448	1	0	0	0	0	1	0	0	0	9180	1841	64	3	680	3	MAGEC1	23	140993864	Missense_Mutation	SNP	T	TCGA-CZ-4862-01A-01D-1373-10	26636744	140993864	14276696	80	23311											
EMD	2010	hgsc.bcm.edu	37	chrX	153609311	153609311	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgccctgtttcagcctcCaggagctccctggacctgtc	5	10	9	17	1	1	0	1	0	0	0	4	2	3	2	6	2	3	2	6	2	1	2	novel		TCGA-CZ-4862-01A-01D-1373-10	TCGA-CZ-4862-11A-01D-1373-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			SOLID	d6c89ca7-bc39-4554-bcce-e355478d90ff	8f6f7243-65b1-4107-a05b-eaf77af0766a		T	153609311	C	T	153609311	2	4	448	1	0	0	0	0	0	0	0	1	5087	581	21	2		2	EMD	23	153609311	Silent	SNP	C	TCGA-CZ-4862-01A-01D-1373-10	12615447	153609311	1661249	81	23312											
MYCL1	4610	broad.mit.edu;hgsc.bcm.edu	37	chr1	40363317	40363317	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcacatcctcagtatcagaActgacaggtttggggtggca	10	10	12	9	0	3	2	3	1	0	1	4	2	4	2	1	4	1	3	1	4	2	2	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	40363317	A	C	40363317	3	2	449	1	0	0	0	0	1	0	0	0	10020	40	2	5	276	5	MYCL1	1	40363317	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10		40363317	208887304	1	23313											
TNNI3K	51086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	74954920	74954920	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgaagttagaagagtgtctCtgcaacattgaggtaaaagc	15	10	11	5	0	1	4	0	2	1	2	2	4	1	4	0	1	3	3	0	1	6	3	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	74954920	C	G	74954920	2	3	449	1	0	0	0	0	0	0	0	1	16328	900	32	4		4	TNNI3K	1	74954920	Silent	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	34591603	74954920	174295701	2	23314											
PKN2	5586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89271212	89271212	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagagctcctcaaatgaatAttaatattgccacttgggga	13	12	8	8	0	2	2	2	1	0	1	3	3	3	3	2	2	2	1	2	2	5	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	89271212	A	G	89271212	3	3	449	1	0	0	0	0	1	0	0	0	11980	449	16	3	1576	3	PKN2	1	89271212	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	14316292	89271212	159979409	3	23315											
PALMD	54873	broad.mit.edu;ucsc.edu	37	chr1	100155420	100155420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agatgggactgaggatccatCcttaacaggtaataaaaatg	16	9	10	6	0	0	2	0	1	0	1	2	4	2	4	2	3	1	1	2	3	5	3	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	100155420	T	T	100155420	3	4	449	1	0	0	0	0	1	0	0	0	11411	855	30	2	1630	2	PALMD	1	100155420	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	10884208	100155420	149095201	4	23316											
ATP1A1	476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	116932958	116932958	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaaactggaactctgactCagaaccggatgacagtggcc	14	7	10	10	1	2	3	1	2	1	1	2	5	2	5	2	3	3	0	2	3	4	1	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	116932958	C	A	116932958	3	1	449	1	0	0	0	0	1	0	0	0	1128	827	29	4	1197	4	ATP1A1	1	116932958	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	16777538	116932958	132317663	5	23317											
SLC19A2	10560	hgsc.bcm.edu;ucsc.edu	37	chr1	169437458	169437458	+	Frame_Shift_Del	DEL	C	C	-																															caccaaatactagggcatagCgttccatgctgaggtttgca																								novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		-	169437458	C	-	169437458	7	5	449	1	0	1	0	1	0	0	0	0	14431	768	27	0	245	0	SLC19A2	1	169437458	Frame_Shift_Del	DEL	C	TCGA-CZ-4863-01A-01D-1501-10	52504500	169437458	79813163	6	23318											
TNR	7143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	175348829	175348829	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccactcgaggtcaaggctggTtgctgtgcgagaaccaactc	9	8	12	12	2	1	1	1	0	0	1	3	3	1	1	2	3	4	3	2	3	3	1	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	175348829	T	C	175348829	3	2	449	1	0	0	0	0	1	0	0	0	16337	1725	60	3	2314	3	TNR	1	175348829	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10	5911371	175348829	73901792	7	23319											
SUCLG1	8802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	84660489	84660489	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaccaacgcacaaagaCtgccccaatccaacttgcgt	12	6	5	18	2	1	1	1	0	0	1	2	1	2	1	5	0	4	1	5	0	4	1	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	84660489	C	T	84660489	2	4	449	1	0	0	0	0	0	0	0	1	15365	564	20	2		2	SUCLG1	2	84660489	Silent	SNP	C	TCGA-CZ-4863-01A-01D-1501-10		84660489	158538884	8	23320											
XIRP2	129446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	167992508	167992508	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctgtgaaagattcagacaaGaaaggcaaggaaacatcttt	17	9	9	6	0	3	4	1	1	2	3	3	5	3	5	0	2	1	1	0	2	5	2	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	167992508	G	C	167992508	3	2	449	1	0	0	0	0	1	0	0	0	17429	933	33	4	504	4	XIRP2	2	167992508	Missense_Mutation	SNP	G	TCGA-CZ-4863-01A-01D-1501-10	83332019	167992508	75206865	9	23321											
SLC39A10	57181	hgsc.bcm.edu;ucsc.edu	37	chr2	196545001	196545001	+	Frame_Shift_Del	DEL	T	T	-																															gtgaaaatggaagattatccTtttttggtttggagaaactt																								novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		-	196545001	T	-	196545001	7	5	449	1	0	1	0	1	0	0	0	0	14615	1609	56	0	237	0	SLC39A10	2	196545001	Frame_Shift_Del	DEL	T	TCGA-CZ-4863-01A-01D-1501-10	28552493	196545001	46654372	10	23322											
GLB1L	79411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220101846	220101846	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactcagtgtatcagctgaaAgggaattgatatgtgtcctg	11	12	11	7	0	2	2	2	2	0	0	3	3	3	3	1	1	1	2	1	1	4	3	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	220101846	A	G	220101846	3	3	449	1	0	0	0	0	1	0	0	0	6428	72	3	3	55	3	GLB1L	2	220101846	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	23556845	220101846	23097527	11	23323											
TMEM198	130612	broad.mit.edu	37	chr2	220413932	220413932	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggattcggcagcaggaagaTcgcaaggagaaaaggcggaa	15	3	16	7	4	0	2	0	0	0	2	2	6	0	5	0	6	1	3	0	6	5	1	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	220413932	G	G	220413932	3	3	449	1	0	0	0	0	1	0	0	0	16118	1432	50	5	811	5	TMEM198	2	220413932	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10	312086	220413932	22785441	12	23324											
IQCF2	389123	broad.mit.edu;ucsc.edu	37	chr3	51897084	51897084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgcgcaggacactgctgCatgcagccctcagggcctgg	6	7	15	13	1	1	0	1	0	0	0	1	1	1	1	2	4	5	4	2	4	0	0	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	51897084	A	A	51897084	3	1	449	1	0	0	0	0	1	0	0	0	7808	710	25	4	203	4	IQCF2	3	51897084	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10		51897084	146125346	13	23325											
COL6A5	256076	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130098768	130098768	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttatcctccagaacagaCaatttccacgctgaagtcct	11	11	6	13	1	1	3	0	1	1	2	5	3	5	3	4	0	1	1	4	0	4	2	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	130098768	C	T	130098768	3	4	449	1	0	0	0	0	1	0	0	0	3702	478	17	2	1185	2	COL6A5	3	130098768	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	78201684	130098768	67923662	14	23326											
KLHL5	51088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39083717	39083717	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	catccaactgtcttggaattCgttcttttgctgatgcccaa	8	15	7	11	1	2	1	0	1	2	0	4	2	3	2	2	1	3	2	2	1	3	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	39083717	C	G	39083717	3	3	449	1	0	0	0	0	1	0	0	0	8392	884	31	4	990	4	KLHL5	4	39083717	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10		39083717	152070559	15	23327											
FAT1	2195	broad.mit.edu;ucsc.edu	37	chr4	187629281	187629281	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatttattttctcaaacaaAggtgtgttgtcattcaagtt	12	17	6	6	0	3	0	3	0	1	0	4	0	3	0	0	1	1	2	0	1	5	7	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	187629281	C	C	187629281	2	2	449	1	0	0	0	0	0	0	0	1	5689	59	3	5		5	FAT1	4	187629281	Silent	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	148545564	187629281	3524995	16	23328											
ADAMTS16	170690	broad.mit.edu;ucsc.edu	37	chr5	5242262	5242262	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagcccagctacactTgggccatcgtgcgctctgag	6	8	11	16	2	1	1	0	1	1	0	2	1	1	1	3	1	5	2	3	1	1	2	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	5242262	A	A	5242262	3	1	449	1	0	0	0	0	1	0	0	0	261	1812	63	5	2686	5	ADAMTS16	5	5242262	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10		5242262	175672998	17	23329											
DMXL1	1657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	118502425	118502425	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaggcaaacaaagatttgaAcattctgcagcattttttct	13	14	6	8	0	2	2	0	1	2	1	2	2	2	2	0	1	4	3	0	1	4	6	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	118502425	A	G	118502425	2	3	449	1	0	0	0	0	0	0	0	1	4594	40	2	3		3	DMXL1	5	118502425	Silent	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	113260163	118502425	62412835	18	23330											
UNC5A	90249	broad.mit.edu	37	chr5	176297519	176297519	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacccgcaactgtaccagTgacctctgtgtacacagtga	11	8	9	13	1	1	2	0	2	1	0	1	3	1	2	3	0	3	3	3	0	3	2	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	176297519	C	C	176297519	2	2	449	1	0	0	0	0	0	0	0	1	16990	1693	59	3		3	UNC5A	5	176297519	Silent	SNP	T	TCGA-CZ-4863-01A-01D-1501-10	57795094	176297519	4617741	19	23331											
ENPP5	59084	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46133254	46133254	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttttgtaaacagtaagAttaggatgagcgtgagttag	12	15	11	3	1	1	3	0	2	1	1	1	4	1	4	0	1	2	3	0	1	5	7	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	46133254	A	G	46133254	2	3	449	1	0	0	0	0	0	0	0	1	5133	330	12	3		3	ENPP5	6	46133254	Silent	SNP	A	TCGA-CZ-4863-01A-01D-1501-10		46133254	124981813	20	23332											
KBTBD2	25948	broad.mit.edu;ucsc.edu	37	chr7	32909724	32909724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagatggctttatgcggaCaaaaagcattggggtctttg	12	11	12	6	1	1	1	0	0	1	1	1	2	1	2	0	4	2	2	0	4	4	4	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	32909724	T	T	32909724	3	4	449	1	0	0	0	0	1	0	0	0	7993	478	17	2	770	2	KBTBD2	7	32909724	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10		32909724	126228939	21	23333											
FAM180A	389558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	135433271	135433271	+	Missense_Mutation	SNP	A	A	T																															acccctgctccacctgtggcAcatagaagcctcagcattgt																								novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	135433271	A	T	135433271	3	4	449	1	0	0	0	0	1	0	0	0	5507	159	6	5	475	5	FAM180A	7	135433271	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	102523547	135433271	23705392	22	23334	329	2									
FAM180A	389558	broad.mit.edu;ucsc.edu	37	chr7	135433272	135433272	+	Missense_Mutation	SNP	C	A	A																															cccctgctccacctgtggcaCatagaagcctcagcattgta																								novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	135433272	A	A	135433272	3	1	449	1	0	0	0	0	1	0	0	0	5507	478	17	4	476	4	FAM180A	7	135433272	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	1	135433272	23705391	23	23335	329	2									
EPHB6	2051	broad.mit.edu	37	chr7	142562259	142562259	+	Frame_Shift_Del	DEL	C	-	-																															cttctcctacacctgccctgCcgtgctccgatcctttgctt																								novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		-	142562259	-	-	142562259	7	5	449	1	0	1	0	1	0	0	0	0	5178	739	26	0	711	0	EPHB6	7	142562259	Frame_Shift_Del	DEL	C	TCGA-CZ-4863-01A-01D-1501-10	7128987	142562259	16576404	24	23336											
NOM1	64434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156761876	156761876	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaagttgaagacctcagTttaattttcacaaggtatgt	14	13	8	6	0	2	3	2	1	0	2	2	3	2	3	1	1	0	3	1	1	5	6	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	156761876	T	G	156761876	3	3	449	1	0	0	0	0	1	0	0	0	10530	1722	60	5	2432	5	NOM1	7	156761876	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10	14199617	156761876	2376787	25	23337											
TUSC3	7991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	15480643	15480643	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggagttccagacgctcaAtcttccgaatgaatggtgat	12	11	10	8	2	2	3	1	2	1	1	4	5	4	4	2	2	0	2	2	2	4	2	rs11545035	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	15480643	A	C	15480643	3	2	449	1	0	0	0	0	1	0	0	0	16777	101	4	5	199	5	TUSC3	8	15480643	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10		15480643	130883379	26	23338											
TRUB2	26995	broad.mit.edu	37	chr9	131083994	131083994	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtttaggagcgggaggcTtcctggcattgagacctgaa	8	10	15	8	1	0	2	0	2	0	1	1	5	1	4	2	4	1	4	2	4	2	4	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	131083994	C	C	131083994	3	2	449	1	0	0	0	0	1	0	0	0	16602	1609	56	3	898	3	TRUB2	9	131083994	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10		131083994	10129437	27	23339											
PFKFB3	5209	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6268194	6268194	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccgctcatgagacgcaatAgtgtcaccccgctagccagc	10	6	9	16	3	2	1	2	1	0	1	2	2	2	1	4	0	2	3	4	0	3	2	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	6268194	A	T	6268194	3	4	449	1	0	0	0	0	1	0	0	0	11762	420	15	5	1455	5	PFKFB3	10	6268194	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10		6268194	129266553	28	23340											
FAM175B	23172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	126523420	126523420	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggattcagacgacagtgaTtatgaaaatttgattgaccc	14	11	10	6	1	1	5	1	4	0	1	1	8	1	6	1	1	0	0	1	1	3	4	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	126523420	T	C	126523420	2	2	449	1	0	0	0	0	0	0	0	1	5498	1490	52	3		3	FAM175B	10	126523420	Silent	SNP	T	TCGA-CZ-4863-01A-01D-1501-10	120255226	126523420	9011327	29	23341											
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	62296732	62296732	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgaagccaggcatactgaaCttgggcattttcatcttggg	9	13	11	8	0	2	2	1	2	1	0	2	2	2	2	1	3	3	2	1	3	3	6	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	62296732	C	A	62296732	3	1	449	1	0	0	0	0	1	0	0	0	414	564	20	4	12635	4	AHNAK	11	62296732	Missense_Mutation	SNP	C	TCGA-CZ-4863-01A-01D-1501-10		62296732	72709784	30	23342											
C12orf11	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	27075598	27075598	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgatgaagtagctccacAtcataattggcagatgtgtt	11	14	10	6	0	1	3	1	2	0	1	2	3	2	3	1	1	1	4	1	1	3	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	27075598	A	G	27075598	2	3	449	1	0	0	0	0	0	0	0	1	1675	214	8	3		3	C12orf11	12	27075598	Silent	SNP	A	TCGA-CZ-4863-01A-01D-1501-10		27075598	106776297	31	23343											
CEP152	22995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	49048532	49048532	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tcttgctcattttgttcttgGattctgtggatttcttcttg	3	23	8	7	0	6	0	1	0	5	0	6	2	6	2	0	2	1	2	0	2	0	9	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		C	49048532	G	C	49048532	3	2	449	1	0	0	0	0	1	0	0	0	3248	1164	41	4	2079	4	CEP152	15	49048532	Missense_Mutation	SNP	G	TCGA-CZ-4863-01A-01D-1501-10		49048532	53482860	32	23344											
CTSH	1512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	79227327	79227327	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccaggcatacctgatttTtcacaggtgagacaaaattt	12	13	8	8	0	1	2	1	2	0	1	1	3	1	2	2	2	2	1	2	2	3	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	79227327	T	A	79227327	3	1	449	1	0	0	0	0	1	0	0	0	4036	1841	64	5	641	5	CTSH	15	79227327	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10	30178795	79227327	23304065	33	23345											
GLG1	2734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	74524933	74524933	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattccaaggttccccttcTcccctcgaactactttcatc	7	14	3	17	1	3	0	2	0	1	0	8	1	5	0	5	1	2	1	5	1	3	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	74524933	T	A	74524933	3	1	449	1	0	0	0	0	1	0	0	0	6436	1551	54	5	2280	5	GLG1	16	74524933	Missense_Mutation	SNP	T	TCGA-CZ-4863-01A-01D-1501-10		74524933	15829820	34	23346											
SLC38A8	146167	broad.mit.edu	37	chr16	84050801	84050801	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggagacagcaaaaaggacCcgggccacaatgatgaccat	16	4	11	10	1	0	3	0	2	0	1	0	5	0	4	3	3	1	1	3	3	3	0	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	84050801	A	A	84050801	2	1	449	1	0	0	0	0	0	0	0	1	14612	610	22	4		4	SLC38A8	16	84050801	Silent	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	9525868	84050801	6303952	35	23347											
SLC47A1	55244	hgsc.bcm.edu;ucsc.edu	37	chr17	19451355	19451355	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagcggagtgcgctcGtcctgctcctctgctgcttc	2	12	11	16	3	1	0	0	0	1	0	6	1	4	1	3	1	6	5	3	1	0	1	rs150632967	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	19451355	G	T	19451355	3	4	449	1	0	0	0	0	1	0	0	0	14649	1145	40	4	378	4	SLC47A1	17	19451355	Missense_Mutation	SNP	G	TCGA-CZ-4863-01A-01D-1501-10		19451355	61743855	36	23348											
CBX1	10951	broad.mit.edu;hgsc.bcm.edu	37	chr17	46148933	46148933	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaccaggtcagcctcatcaGagtttttcctgcagaataaa	12	10	9	10	0	3	2	3	0	0	2	4	3	4	3	3	2	2	2	3	2	3	3	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		A	46148933	G	A	46148933	3	1	449	1	0	0	0	0	1	0	0	0	2717	942	33	2	139	2	CBX1	17	46148933	Missense_Mutation	SNP	G	TCGA-CZ-4863-01A-01D-1501-10	26697578	46148933	35046277	37	23349											
MTMR4	9110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56573389	56573389	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgaggcactgcggtattaAgcagtttgtaacttggagaa	11	10	12	8	2	0	1	0	0	0	1	0	3	0	1	1	3	3	5	1	3	4	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	56573389	A	T	56573389	3	4	449	1	0	0	0	0	1	0	0	0	9946	72	3	5	1489	5	MTMR4	17	56573389	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	10424456	56573389	24621821	38	23350											
UHRF1	29128	broad.mit.edu	37	chr19	4941811	4941811	+	Frame_Shift_Del	DEL	G	-	-																															cgacgtgaacagactctgccGggtctgcgcctgccacctgt																								novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		-	4941811	-	-	4941811	7	5	449	1	0	1	0	1	0	0	0	0	16966	1116	39	0	1002	0	UHRF1	19	4941811	Frame_Shift_Del	DEL	G	TCGA-CZ-4863-01A-01D-1501-10		4941811	54187172	39	23351											
MUC16	94025	broad.mit.edu;ucsc.edu	37	chr19	9046549	9046549	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtgtgctggtctgtggAggatgagtgacccaggaagc	9	8	17	7	0	1	2	0	2	1	0	1	5	1	5	1	5	2	1	1	5	1	0	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		G	9046549	G	G	9046549	2	3	449	1	0	0	0	0	0	0	0	1	9973	291	11	3		3	MUC16	19	9046549	Silent	SNP	A	TCGA-CZ-4863-01A-01D-1501-10	4104738	9046549	50082434	40	23352											
CRTC1	23373	broad.mit.edu	37	chr19	18856654	18856654	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccttccaatcctcgggcCtggacaccagccggaccacc	7	5	8	21	2	0	0	0	0	0	0	3	2	2	2	9	3	1	0	9	3	1	1	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	18856654	T	T	18856654	2	4	449	1	0	0	0	0	0	0	0	1	3899	680	24	2		2	CRTC1	19	18856654	Silent	SNP	C	TCGA-CZ-4863-01A-01D-1501-10	9810105	18856654	40272329	41	23353											
NOX1	27035	broad.mit.edu;ucsc.edu	37	chrX	100105317	100105317	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatatactgccccacttccAtgctgaagccacgcttgttc	9	11	7	14	1	0	2	0	1	0	1	2	2	1	2	4	0	4	3	4	0	3	5	novel		TCGA-CZ-4863-01A-01D-1501-10	TCGA-CZ-4863-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4286d73b-1fb9-41a3-baba-46f23100586a	1b3a35ca-6f5c-41e2-95ab-f90ff0fcec8f		T	100105317	T	T	100105317	3	4	449	1	0	0	0	0	1	0	0	0	10556	217	8	5	758	5	NOX1	23	100105317	Missense_Mutation	SNP	A	TCGA-CZ-4863-01A-01D-1501-10		100105317	55165243	42	23354											
SPEN	23013	hgsc.bcm.edu;ucsc.edu	37	chr1	16254657	16254658	+	Frame_Shift_Del	DEL	CT	CT	-																															gagtgttcgaactccaggcaCttatcctgaggattccaggc																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	16254658	CT	-	16254657	7	5	450	1	0	1	0	1	0	0	0	0	15039	565	20	0	1964	0	SPEN	1	16254657	Frame_Shift_Del	DEL	CT	TCGA-CZ-4865-01A-02D-1501-10		16254657	232995964	1	23355											
SPEN	23013	hgsc.bcm.edu;ucsc.edu	37	chr1	16255323	16255323	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagcagagagaaagctgAcaaagagggaatagcgaaaa	20	3	13	5	1	0	5	0	2	0	3	0	8	0	6	0	1	3	2	0	1	6	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	16255323	A	C	16255323	3	2	450	1	0	0	0	0	1	0	0	0	15039	275	10	5	2630	5	SPEN	1	16255323	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	666	16255323	232995298	2	23356											
MED18	54797	hgsc.bcm.edu;ucsc.edu	37	chr1	28660959	28660959	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcacagtttggaaagcctCatccaccgccttcgtggttt	8	12	9	12	2	2	0	2	0	0	0	4	2	3	1	4	2	1	2	4	2	1	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	28660959	C	T	28660959	2	4	450	1	0	0	0	0	0	0	0	1	9436	813	29	2		2	MED18	1	28660959	Silent	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	12405636	28660959	220589662	3	23357											
SNRNP40	9410	hgsc.bcm.edu;ucsc.edu	37	chr1	31766074	31766074	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actatgcctcacatatcagtCggtcaaatcctgcagatgct	11	11	7	12	1	3	1	3	0	0	1	5	1	4	1	2	1	3	2	2	1	3	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	31766074	C	T	31766074	3	4	450	1	0	0	0	0	1	0	0	0	14858	884	31	1	846	1	SNRNP40	1	31766074	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	3105115	31766074	217484547	4	23358											
COL24A1	255631	hgsc.bcm.edu;ucsc.edu	37	chr1	86591606	86591606	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtactactaattttttaggtAgtaattgtactcctaattgc	11	18	6	6	0	0	0	0	0	0	0	1	0	1	0	1	1	4	4	1	1	8	12	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	86591606	A	G	86591606	3	3	450	1	0	0	0	0	1	0	0	0	3683	420	15	3	4963	3	COL24A1	1	86591606	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	54825532	86591606	162659015	5	23359											
PSMD4	5710	hgsc.bcm.edu;ucsc.edu	37	chr1	151236485	151236485	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaagatcaccttctgcaCgggcatccgcgtggcccatg	7	7	13	14	3	2	1	1	0	1	1	3	1	3	1	3	3	1	3	3	3	1	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	151236485	C	T	151236485	3	4	450	1	0	0	0	0	1	0	0	0	12702	536	19	1	273	1	PSMD4	1	151236485	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	64644879	151236485	98014136	6	23360											
FCRL4	83417	hgsc.bcm.edu;ucsc.edu	37	chr1	157557663	157557663	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaagattcaccttgaattTtaattattttgaaatttgat	14	19	5	3	0	1	5	1	4	0	1	1	5	1	5	1	0	0	0	1	0	5	8	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	157557663	T	C	157557663	3	2	450	1	0	0	0	0	1	0	0	0	5797	1841	64	3	1029	3	FCRL4	1	157557663	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	6321178	157557663	91692958	7	23361											
UCK2	7371	hgsc.bcm.edu;ucsc.edu	37	chr1	165859456	165859456	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacagtcttccgtgtgtgctAagatcgtgcagctcctgggg	6	11	13	11	2	1	1	0	0	1	1	4	1	3	1	2	2	3	3	2	2	1	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	165859456	A	T	165859456	4	4	450	1	0	0	0	0	0	1	0	0	16923	363	13	5	121	5	UCK2	1	165859456	Nonsense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	8301793	165859456	83391165	8	23362											
ILDR2	387597	hgsc.bcm.edu;ucsc.edu	37	chr1	166891956	166891956	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccaagtccccagacacaGggaactgcttgcttctcatc	9	10	7	15	0	2	1	1	0	2	1	6	2	3	2	3	1	3	2	3	1	2	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	166891956	G	A	166891956	3	1	450	1	0	0	0	0	1	0	0	0	7710	1000	35	2	846	2	ILDR2	1	166891956	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	1032500	166891956	82358665	9	23363											
DHX9	1660	hgsc.bcm.edu;ucsc.edu	37	chr1	182849640	182849640	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctccccacagagcttgatGcattagatgccaatgatgag	12	10	9	10	0	1	5	0	3	1	2	2	5	1	5	3	0	3	2	3	0	2	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	182849640	G	A	182849640	3	1	450	1	0	0	0	0	1	0	0	0	4516	1319	46	2	2603	2	DHX9	1	182849640	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	15957684	182849640	66400981	10	23364											
LYST	1130	hgsc.bcm.edu;ucsc.edu	37	chr1	235884146	235884146	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagagcggtgatgttaccAtattccagaagattagggag	12	10	13	6	1	1	4	1	1	0	3	2	5	2	5	2	2	2	1	2	2	4	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	235884146	A	G	235884146	2	3	450	1	0	0	0	0	0	0	0	1	9128	224	8	3		3	LYST	1	235884146	Silent	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	53034506	235884146	13366475	11	23365											
TMEM17	200728	hgsc.bcm.edu;ucsc.edu	37	chr2	62728623	62728623	+	Splice_Site	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccagccaactcaggaacCtgcaatgacacatatcaaga	17	5	7	12	0	2	2	2	1	0	1	2	3	2	3	3	1	5	1	3	1	6	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	62728623	C	G	62728623	5	3	450	1	0	0	0	0	0	0	1	0	16084	695	24	4	282	4	TMEM17	2	62728623	Splice_Site	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		62728623	180470750	12	23366											
POLR1A	25885	hgsc.bcm.edu;ucsc.edu	37	chr2	86292438	86292438	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaagggcttcaggatggaagGagaaaggagcttcacgcgcc	13	5	15	8	2	2	1	2	0	0	1	2	5	2	4	1	5	1	2	1	5	3	2	rs191928354	by1000genomes	TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	86292438	G	C	86292438	3	2	450	1	0	0	0	0	1	0	0	0	12209	1174	41	4	3229	4	POLR1A	2	86292438	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	23563815	86292438	156906935	13	23367											
KCTD18	130535	hgsc.bcm.edu;ucsc.edu	37	chr2	201371733	201371733	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcttctgccttgtggcCttccatttctcccccaggca	3	15	6	17	0	4	0	0	0	4	0	6	0	5	0	5	2	1	1	5	2	0	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	201371733	C	G	201371733	3	3	450	1	0	0	0	0	1	0	0	0	8105	681	24	4	1297	4	KCTD18	2	201371733	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	115079295	201371733	41827640	14	23368											
ITGB5	3693	hgsc.bcm.edu;ucsc.edu	37	chr3	124536468	124536468	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaaactgatgacttacAttgtatgcattaataatcag	16	12	8	5	0	1	3	1	2	0	1	1	4	1	4	0	1	3	2	0	1	6	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	124536468	A	G	124536468	2	3	450	1	0	0	0	0	0	0	0	1	7898	231	8	3		3	ITGB5	3	124536468	Silent	SNP	A	TCGA-CZ-4865-01A-02D-1501-10		124536468	73485962	15	23369											
MED12L	116931	hgsc.bcm.edu;ucsc.edu	37	chr3	150845653	150845653	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatgtttttgcatatttAgctaaatattctgtgccaat	11	17	8	5	0	1	0	0	0	1	0	1	2	1	1	1	1	3	3	1	1	6	8	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	150845653	A	T	150845653	3	4	450	1	0	0	0	0	1	0	0	0	9429	417	15	5	452	5	MED12L	3	150845653	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	26309185	150845653	47176777	16	23370											
UGT2B4	7363	hgsc.bcm.edu;ucsc.edu	37	chr4	70361487	70361487	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatccagtggctgaattcTgtgggccacaccagcacctt	8	11	9	13	0	2	1	1	1	1	0	3	1	3	1	4	2	1	2	4	2	1	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	70361487	T	C	70361487	2	2	450	1	0	0	0	0	0	0	0	1	16960	1567	55	3		3	UGT2B4	4	70361487	Silent	SNP	T	TCGA-CZ-4865-01A-02D-1501-10		70361487	120792789	17	23371											
G3BP2	9908	hgsc.bcm.edu;ucsc.edu	37	chr4	76572287	76572287	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaaagttgatgactatctGgatagcgaattattctacgg	14	12	9	6	2	2	2	0	2	2	0	2	4	2	3	0	2	2	1	0	2	7	6	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	76572287	G	A	76572287	3	1	450	1	0	0	0	0	1	0	0	0	6142	1348	47	2	477	2	G3BP2	4	76572287	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	6210800	76572287	114581989	18	23372											
DCHS2	54798	hgsc.bcm.edu;ucsc.edu	37	chr4	155157548	155157548	+	Frame_Shift_Del	DEL	A	A	-																															acactgacaaacacaactgcAaaagaaaaatgtttcttttc																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	155157548	A	-	155157548	7	5	450	1	0	1	0	1	0	0	0	0	4288	127	5	0	1863	0	DCHS2	4	155157548	Frame_Shift_Del	DEL	A	TCGA-CZ-4865-01A-02D-1501-10	78585261	155157548	35996728	19	23373											
GZMK	3003	hgsc.bcm.edu;ucsc.edu	37	chr5	54326407	54326407	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatcaaatgatatcatgctgGttaaggtaggtagtagcatt	14	13	10	4	0	2	1	2	1	0	0	2	1	2	1	0	3	2	6	0	3	7	6	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	54326407	G	A	54326407	3	1	450	1	0	0	0	0	1	0	0	0	6918	1261	44	2	368	2	GZMK	5	54326407	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10		54326407	126588853	20	23374											
AQPEP	206338	hgsc.bcm.edu;ucsc.edu	37	chr5	115350147	115350147	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaactttttgtaactgcGtgttggttgggccttgaaga	10	14	12	5	1	0	2	0	1	0	1	0	3	0	2	1	2	3	3	1	2	4	6	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	115350147	G	A	115350147	2	1	450	1	0	0	0	0	0	0	0	1	834	1132	40	1		1	AQPEP	5	115350147	Silent	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	61023740	115350147	65565113	21	23375											
FAM65B	9750	hgsc.bcm.edu;ucsc.edu	37	chr6	24843341	24843341	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gatgtttccttccgaagtgtCcagttccacaggcttgagct	7	13	10	11	1	0	1	0	1	0	0	4	3	4	1	4	1	1	4	4	1	1	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	24843341	C	G	24843341	3	3	450	1	0	0	0	0	1	0	0	0	5600	855	30	4	1587	4	FAM65B	6	24843341	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		24843341	146271726	22	23376											
PKHD1	5314	hgsc.bcm.edu;ucsc.edu	37	chr6	51609213	51609213	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaggatgcagtccattctgCctctgttttaggaaatacag	11	12	10	8	0	2	0	0	0	2	0	3	3	3	2	2	2	3	2	2	2	4	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	51609213	C	A	51609213	3	1	450	1	0	0	0	0	1	0	0	0	11971	739	26	4	2169	4	PKHD1	6	51609213	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	26765872	51609213	119505854	23	23377											
TTK	7272	hgsc.bcm.edu;ucsc.edu	37	chr6	80746291	80746291	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccaaatgcaaccagataCaacaagtgttgttaaagatt	19	9	6	7	0	0	2	0	0	0	2	0	2	0	2	2	0	5	3	2	0	8	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	80746291	C	A	80746291	3	1	450	1	0	0	0	0	1	0	0	0	16719	478	17	4	2086	4	TTK	6	80746291	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	29137078	80746291	90368776	24	23378											
FAM162B	221303	hgsc.bcm.edu;ucsc.edu	37	chr6	117083156	117083156	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacccttttggctgacactAtcacagcaaagcaggcgata	12	9	8	12	1	2	1	2	1	0	0	2	2	2	1	1	2	2	3	1	2	3	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	117083156	A	G	117083156	3	3	450	1	0	0	0	0	1	0	0	0	5475	449	16	3	122	3	FAM162B	6	117083156	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	36336865	117083156	54031911	25	23379											
AKAP12	9590	hgsc.bcm.edu;ucsc.edu	37	chr6	151670340	151670340	+	Frame_Shift_Del	DEL	A	A	-																															gcaaagaggaaggagaagagAaacaagaaaaagaacctagc																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	151670340	A	-	151670340	7	5	450	1	0	1	0	1	0	0	0	0	448	247	9	0	853	0	AKAP12	6	151670340	Frame_Shift_Del	DEL	A	TCGA-CZ-4865-01A-02D-1501-10	34587184	151670340	19444727	26	23380											
C6orf211	79624	hgsc.bcm.edu;ucsc.edu	37	chr6	151789551	151789551	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcagaataccaatgtacTaaattcattggaagacctaa	16	12	5	8	0	2	2	2	0	1	2	3	3	2	3	2	1	2	1	2	1	8	7	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	151789551	T	C	151789551	3	2	450	1	0	0	0	0	1	0	0	0	2354	1522	53	3	650	3	C6orf211	6	151789551	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	119211	151789551	19325516	27	23381											
PLG	5340	hgsc.bcm.edu;ucsc.edu	37	chr6	161134106	161134106	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcaggggccctggtgctatActactgatccagaaaagaga	12	7	12	10	1	0	3	0	1	0	2	1	4	1	3	2	3	3	2	2	3	5	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	161134106	A	T	161134106	3	4	450	1	0	0	0	0	1	0	0	0	12086	391	14	5	518	5	PLG	6	161134106	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	9344555	161134106	9980961	28	23382											
STK31	56164	hgsc.bcm.edu;ucsc.edu	37	chr7	23827642	23827642	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttgcccagggtctgcataCattgcataaggctgacataa	11	11	10	9	0	1	1	0	1	1	0	1	1	1	1	1	2	4	4	1	2	3	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	23827642	C	G	23827642	3	3	450	1	0	0	0	0	1	0	0	0	15297	478	17	4	2613	4	STK31	7	23827642	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		23827642	135311021	29	23383											
SFRP4	6424	hgsc.bcm.edu;ucsc.edu	37	chr7	37953984	37953984	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaactcaccggggcttaGgcgtttacagtcaacatcaa	14	8	9	10	2	3	1	3	0	0	1	3	1	3	1	1	3	3	2	1	3	6	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	37953984	G	C	37953984	3	2	450	1	0	0	0	0	1	0	0	0	14165	991	35	4	543	4	SFRP4	7	37953984	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	14126342	37953984	121184679	30	23384											
HECW1	23072	hgsc.bcm.edu;ucsc.edu	37	chr7	43351595	43351595	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatggtcagcagctcctaCtattccatcgggcactctca	8	11	7	15	1	3	0	3	0	1	0	7	0	5	0	2	2	3	3	2	2	2	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	43351595	C	A	43351595	4	1	450	1	0	0	0	0	0	1	0	0	7042	576	20	4	267	4	HECW1	7	43351595	Nonsense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	5397611	43351595	115787068	31	23385											
NCAPG2	54892	hgsc.bcm.edu;ucsc.edu	37	chr7	158457439	158457439	+	Frame_Shift_Del	DEL	A	A	-																															ctccatgggacatattttccAaaactgtgcaaaaagcacat																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	158457439	A	-	158457439	7	5	450	1	0	1	0	1	0	0	0	0	10208	130	5	0	2008	0	NCAPG2	7	158457439	Frame_Shift_Del	DEL	A	TCGA-CZ-4865-01A-02D-1501-10	115105844	158457439	681224	32	23386											
FUT10	84750	hgsc.bcm.edu;ucsc.edu	37	chr8	33246865	33246865	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattctcaaaagctaggatAaacttatactgtgcaatgat	15	12	7	7	0	1	1	1	1	1	0	2	2	1	2	0	1	4	3	0	1	8	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	33246865	A	G	33246865	2	3	450	1	0	0	0	0	0	0	0	1	6102	359	13	3		3	FUT10	8	33246865	Silent	SNP	A	TCGA-CZ-4865-01A-02D-1501-10		33246865	113117157	33	23387											
ITIH5	80760	hgsc.bcm.edu;ucsc.edu	37	chr10	7627983	7627983	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaatccaatgatactgaaaCggtcctggggtcggaggtca	13	8	12	8	2	1	2	1	2	0	0	4	3	3	3	2	5	2	0	2	5	5	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	7627983	C	T	7627983	3	4	450	1	0	0	0	0	1	0	0	0	7907	536	19	1	1990	1	ITIH5	10	7627983	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		7627983	127906764	34	23388											
AGAP7	653268	hgsc.bcm.edu	37	chr10	51485991	51485991	+	Frame_Shift_Del	DEL	C	C	-																															ctcctcaccttcaggcatctCccggtcacgaacgtggtgca																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	51485991	C	-	51485991	7	5	450	1	0	1	0	1	0	0	0	0	373	864	30	0	1808	0	AGAP7	10	51485991	Frame_Shift_Del	DEL	C	TCGA-CZ-4865-01A-02D-1501-10	43858008	51485991	84048756	35	23389											
KIF20B	9585	hgsc.bcm.edu;ucsc.edu	37	chr10	91497621	91497621	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaaacatagatttgctcaAtctcagggatctgtcaaatg	13	13	7	8	0	5	1	4	0	2	1	6	2	5	2	0	1	2	1	0	1	4	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	91497621	A	G	91497621	3	3	450	1	0	0	0	0	1	0	0	0	8287	101	4	3	2977	3	KIF20B	10	91497621	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	40011630	91497621	44037126	36	23390											
PLCE1	51196	hgsc.bcm.edu;ucsc.edu	37	chr10	95791806	95791806	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctgtaaaaatgacagaGaagttaagaaatctgtgtat	17	12	9	3	0	2	3	0	1	2	2	2	5	2	3	0	0	0	3	0	0	7	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	95791806	G	T	95791806	4	4	450	1	0	0	0	0	0	1	0	0	12034	943	33	4	1005	4	PLCE1	10	95791806	Nonsense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	4294185	95791806	39742941	37	23391											
OR5B12	390191	hgsc.bcm.edu;ucsc.edu	37	chr11	58207098	58207098	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaggaggagcatcacagAaaaagtgttcaactacattg	17	7	11	6	0	2	2	2	0	0	2	2	5	2	4	0	2	3	2	0	2	4	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	58207098	A	T	58207098	3	4	450	1	0	0	0	0	1	0	0	0	11148	246	9	5	421	5	OR5B12	11	58207098	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10		58207098	76799418	38	23392											
TMEM138	51524	hgsc.bcm.edu;ucsc.edu	37	chr11	61135391	61135391	+	RNA	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtatctcacatctcctTcagaacttacgctggaaaaa	12	13	6	10	1	3	1	2	0	2	1	5	2	3	2	1	1	2	2	1	1	5	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	61135391	T	A	61135391	1	1	450	0	1	0	0	0	0	0	0	0	16052	1798	62	5		5	TMEM138	11	61135391	RNA	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	2928293	61135391	73871125	39	23393											
AASDHPPT	60496	hgsc.bcm.edu;ucsc.edu	37	chr11	105967561	105967561	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgccgttcccatgacacCtgaagatccttcattttggg	8	13	8	12	1	2	3	1	2	1	1	4	3	4	3	4	1	1	1	4	1	1	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	105967561	C	T	105967561	3	4	450	1	0	0	0	0	1	0	0	0	23	681	24	2	879	2	AASDHPPT	11	105967561	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	44832170	105967561	29038955	40	23394											
MLL	4297	hgsc.bcm.edu;ucsc.edu	37	chr11	118375051	118375051	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagccgcagagtccacaCaagtaccccctccgacaaaa	14	4	7	16	2	1	1	1	0	0	1	3	2	3	1	5	0	2	2	5	0	5	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	118375051	C	A	118375051	3	1	450	1	0	0	0	0	1	0	0	0	9620	478	17	4	8541	4	MLL	11	118375051	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	12407490	118375051	16631465	41	23395											
GTSF1	121355	hgsc.bcm.edu;ucsc.edu	37	chr12	54856986	54856986	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatacaacttctgtcatcAcagcttgagatatgatgact	13	13	6	9	0	4	3	3	3	1	1	4	4	4	3	0	0	3	1	0	0	4	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	54856986	A	G	54856986	2	3	450	1	0	0	0	0	0	0	0	1	6886	157	6	3		3	GTSF1	12	54856986	Silent	SNP	A	TCGA-CZ-4865-01A-02D-1501-10		54856986	78994909	42	23396											
CDK2	1017	hgsc.bcm.edu;ucsc.edu	37	chr12	56360850	56360850	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtacggagttgtgtacAaagccagaaacaagttgacg	14	7	12	8	3	0	2	0	1	0	1	0	3	0	3	1	1	4	5	1	1	5	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	56360850	A	G	56360850	3	3	450	1	0	0	0	0	1	0	0	0	3136	131	5	3	60	3	CDK2	12	56360850	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10	1503864	56360850	77491045	43	23397											
HTR2A	3356	hgsc.bcm.edu;ucsc.edu	37	chr13	47409628	47409628	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacttgatagttagaaagtAggtgatcaccatgatggtta	13	13	11	4	0	1	5	1	4	0	1	1	5	1	5	1	2	0	3	1	2	5	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	47409628	A	G	47409628	3	3	450	1	0	0	0	0	1	0	0	0	7441	420	15	3	659	3	HTR2A	13	47409628	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10		47409628	67760250	44	23398											
TUBGCP3	10426	hgsc.bcm.edu;ucsc.edu	37	chr13	113158951	113158951	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgtacctcaaatgtgaTgtaatactgcatctgatgaa	14	12	9	6	0	2	3	1	3	1	0	2	4	2	3	1	0	3	3	1	0	6	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	113158951	T	C	113158951	3	2	450	1	0	0	0	0	1	0	0	0	16766	1464	51	3	579	3	TUBGCP3	13	113158951	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	65749323	113158951	2010927	45	23399											
MPP5	64398	hgsc.bcm.edu;ucsc.edu	37	chr14	67746078	67746078	+	Frame_Shift_Del	DEL	A	A	-																															gcgtattcggcaacaacaggAggacatgaggcgtaggagag																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	67746078	A	-	67746078	7	5	450	1	0	1	0	1	0	0	0	0	9737	304	11	0	193	0	MPP5	14	67746078	Frame_Shift_Del	DEL	A	TCGA-CZ-4865-01A-02D-1501-10		67746078	39603462	46	23400											
CCNK	8812	hgsc.bcm.edu;ucsc.edu	37	chr14	99969172	99969172	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacaccacaagtgccgcaaGtacagcagtcacagccgtct	12	6	8	15	2	2	0	1	0	1	0	2	0	2	0	3	0	5	3	3	0	4	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	99969172	G	C	99969172	3	2	450	1	0	0	0	0	1	0	0	0	2930	1029	36	4	888	4	CCNK	14	99969172	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	32223094	99969172	7380368	47	23401											
AAGAB	79719	hgsc.bcm.edu;ucsc.edu	37	chr15	67496448	67496448	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctcctcctccagtggtaaGactggctaattcttgaatat	10	14	7	10	0	2	2	0	1	2	1	5	2	4	2	3	2	0	2	3	2	4	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	67496448	G	A	67496448	3	1	450	1	0	0	0	0	1	0	0	0	15	942	33	2	205	2	AAGAB	15	67496448	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10		67496448	35034944	48	23402											
ULK3	25989	hgsc.bcm.edu;ucsc.edu	37	chr15	75134635	75134635	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacacctgaaagtctttcaGctgcacaatgtggggatgtc	10	11	10	10	0	3	1	2	1	1	0	4	2	3	2	1	2	2	2	1	2	2	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	75134635	G	C	75134635	3	2	450	1	0	0	0	0	1	0	0	0	16976	962	34	4	1249	4	ULK3	15	75134635	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	7638187	75134635	27396757	49	23403											
C15orf42	0	hgsc.bcm.edu;ucsc.edu	37	chr15	90128974	90128974	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtgaaggccggcccccCatcactggagttatttcccc	6	9	10	16	1	1	1	1	1	0	0	2	2	2	2	7	4	0	1	7	4	2	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	90128974	C	T	90128974	2	4	450	1	0	0	0	0	0	0	0	1	1796	581	21	2		2	C15orf42	15	90128974	Silent	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	14994339	90128974	12402418	50	23404											
RLTPR	146206	hgsc.bcm.edu	37	chr16	67680181	67680181	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagcacgtggctgcagcCatcaagaaggtcttccctcg	8	7	11	15	2	2	1	1	0	1	1	4	1	3	1	3	2	3	3	3	2	2	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	67680181	C	T	67680181	2	4	450	1	0	0	0	0	0	0	0	1	13396	581	21	2		2	RLTPR	16	67680181	Silent	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		67680181	22674572	51	23405											
GAN	8139	hgsc.bcm.edu;ucsc.edu	37	chr16	81398605	81398605	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctatgcagctatgaaaaaGaaaatctacgccatgggtgg	14	9	11	7	1	1	2	0	1	1	1	1	2	1	2	1	2	4	3	1	2	7	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	81398605	G	T	81398605	3	4	450	1	0	0	0	0	1	0	0	0	6232	933	33	4	1293	4	GAN	16	81398605	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	13718424	81398605	8956148	52	23406											
TP53	7157	hgsc.bcm.edu;ucsc.edu	37	chr17	7577559	7577559	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggttcatgccgcccatgcagGaactgttacacatgtagttg	9	11	11	10	1	1	0	1	0	0	0	1	1	1	1	2	2	4	5	2	2	3	4	rs28934573	bycluster;alternate_allele	TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	7577559	G	C	7577559	3	2	450	1	0	0	0	0	1	0	0	0	16380	1174	41	4	568	4	TP53	17	7577559	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10		7577559	73617651	53	23407											
PIK3R6	146850	hgsc.bcm.edu;ucsc.edu	37	chr17	8730539	8730539	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtgttgacgttgctctGgtaccacgggtctacgcggc	5	10	14	12	5	2	1	0	1	2	0	2	1	2	1	1	3	4	4	1	3	2	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	8730539	G	T	8730539	3	4	450	1	0	0	0	0	1	0	0	0	11923	1357	47	4	830	4	PIK3R6	17	8730539	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	1152980	8730539	72464671	54	23408											
MYH2	4620	hgsc.bcm.edu;ucsc.edu	37	chr17	10435069	10435069	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttaattttctgaaattcttCcttcatggtggccatctcct	7	19	5	10	0	4	1	1	1	3	0	6	1	5	1	3	2	0	0	3	2	2	7	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	10435069	C	A	10435069	4	1	450	1	0	0	0	0	0	1	0	0	10035	864	30	4	3323	4	MYH2	17	10435069	Nonsense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	1704530	10435069	70760141	55	23409											
NT5M	56953	hgsc.bcm.edu;ucsc.edu	37	chr17	17248196	17248196	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtctctgctgaccttcTcatagacgaccggccggaca	7	9	11	14	4	2	2	1	1	2	1	4	4	2	3	3	3	1	1	3	3	1	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	17248196	T	C	17248196	3	2	450	1	0	0	0	0	1	0	0	0	10694	1551	54	3	532	3	NT5M	17	17248196	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	6813127	17248196	63947014	56	23410											
TMEM106A	113277	hgsc.bcm.edu	37	chr17	41368531	41368531	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacacagctgaccctcgagGttctgcacctgtccctcgtg	6	10	10	15	2	1	2	0	2	1	0	4	3	2	2	3	1	2	3	3	1	0	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	41368531	G	A	41368531	3	1	450	1	0	0	0	0	1	0	0	0	16019	1261	44	2	507	2	TMEM106A	17	41368531	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	24120335	41368531	39826679	57	23411											
ABCC3	8714	hgsc.bcm.edu;ucsc.edu	37	chr17	48741447	48741447	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcacccctgcagatcaTcctggcgatctacttcctct	7	11	7	16	1	4	1	2	0	2	1	6	2	6	1	4	1	3	2	4	1	1	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	48741447	T	G	48741447	3	3	450	1	0	0	0	0	1	0	0	0	54	1435	50	5	1351	5	ABCC3	17	48741447	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	7372916	48741447	32453763	58	23412											
EIF4A3	9775	hgsc.bcm.edu;ucsc.edu	37	chr17	78110034	78110034	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgcaccttacctgtgtaTgtacaattctctgttattag	8	17	7	9	0	1	0	0	0	1	0	2	0	1	0	2	0	3	5	2	0	6	7	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	78110034	T	C	78110034	3	2	450	1	0	0	0	0	1	0	0	0	5026	1464	51	3	163	3	EIF4A3	17	78110034	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	29368587	78110034	3085176	59	23413											
NDC80	10403	hgsc.bcm.edu;ucsc.edu	37	chr18	2608738	2608738	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaaatgtgccagtgagcttGagtccttggagaaacacaag	15	8	11	7	0	0	3	0	2	0	1	1	4	1	3	2	1	3	1	2	1	4	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	2608738	G	C	2608738	3	2	450	1	0	0	0	0	1	0	0	0	10242	1291	45	4	1651	4	NDC80	18	2608738	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10		2608738	75468510	60	23414											
EPB41L3	23136	hgsc.bcm.edu;ucsc.edu	37	chr18	5428360	5428360	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgttccgtttgtatgaaatCtttagaaccttgggccaggc	8	15	10	8	1	1	2	0	1	1	1	2	2	2	2	3	2	1	3	3	2	4	7	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	5428360	C	T	5428360	2	4	450	1	0	0	0	0	0	0	0	1	5154	912	32	2		2	EPB41L3	18	5428360	Silent	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	2819622	5428360	72648888	61	23415											
OR7G3	390883	hgsc.bcm.edu;ucsc.edu	37	chr19	9236856	9236856	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccagaactaaggtacacCccaaaccctgttccataaaa	15	6	5	15	0	0	1	0	0	0	1	1	1	1	1	6	1	3	2	6	1	6	4	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	9236856	C	T	9236856	2	4	450	1	0	0	0	0	0	0	0	1	11224	610	22	2		2	OR7G3	19	9236856	Silent	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		9236856	49892127	62	23416											
GRIK5	2901	hgsc.bcm.edu;ucsc.edu	37	chr19	42566909	42566909	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccacactccccatctcaCctccttctctccacagatat	8	10	3	20	0	2	1	1	0	2	1	7	1	5	1	6	1	0	0	6	1	1	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	42566909	C	A	42566909	5	1	450	1	0	0	0	0	0	0	1	0	6777	521	18	4	2667	4	GRIK5	19	42566909	Splice_Site	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	33330053	42566909	16562074	63	23417											
NAA20	51126	hgsc.bcm.edu;ucsc.edu	37	chr20	20006327	20006327	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaggactctagtatgggAttcctttctacctacaatac	12	13	6	10	0	2	0	0	0	2	0	3	2	3	2	2	2	4	1	2	2	7	8	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	20006327	A	C	20006327	3	2	450	1	0	0	0	0	1	0	0	0	10120	333	12	5	116	5	NAA20	20	20006327	Missense_Mutation	SNP	A	TCGA-CZ-4865-01A-02D-1501-10		20006327	43019193	64	23418											
CEP250	11190	hgsc.bcm.edu;ucsc.edu	37	chr20	34053567	34053567	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtctctgtctggcgcaGggaccaatcccccagaggtg	6	9	13	13	1	2	1	0	0	2	1	4	2	3	2	3	3	0	2	3	3	1	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	34053567	G	C	34053567	5	2	450	1	0	0	0	0	0	0	1	0	3252	1014	35	4	253	4	CEP250	20	34053567	Splice_Site	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	14047240	34053567	28971953	65	23419											
LSM14B	149986	hgsc.bcm.edu;ucsc.edu	37	chr20	60708449	60708449	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctcggggcggattccgaGgaggcaggggcaatgggacc	7	6	19	9	3	1	0	0	0	1	0	3	4	2	3	2	8	0	3	2	8	1	2	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	60708449	G	A	60708449	3	1	450	1	0	0	0	0	1	0	0	0	9055	1001	35	2	1120	2	LSM14B	20	60708449	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	26654882	60708449	2317071	66	23420											
USP25	29761	hgsc.bcm.edu;ucsc.edu	37	chr21	17246743	17246743	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tatatagattccttgctgttCctcatctgtgcttatcagaa	9	17	6	9	0	3	2	2	0	1	2	5	2	5	2	2	0	2	3	2	0	5	7	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		T	17246743	C	T	17246743	2	4	450	1	0	0	0	0	0	0	0	1	17055	854	30	2		2	USP25	21	17246743	Silent	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		17246743	30883152	67	23421											
GGT1	2678	hgsc.bcm.edu	37	chr22	25007113	25007113	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctggtcattgtcggccTctgtctctggctgccctcag	2	13	13	13	1	4	0	2	0	2	0	6	0	4	0	2	4	2	2	2	4	0	1	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		C	25007113	T	C	25007113	3	2	450	1	0	0	0	0	1	0	0	0	6361	1551	54	3	67	3	GGT1	22	25007113	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10		25007113	26297453	68	23422											
REPS2	9185	hgsc.bcm.edu;ucsc.edu	37	chrX	17092279	17092279	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctcaaagcaagaccaagatCcaggtagtgttcgtttaatt	13	12	8	8	1	1	2	1	0	1	2	4	2	2	2	2	1	1	4	2	1	5	5	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	17092279	C	G	17092279	3	3	450	1	0	0	0	0	1	0	0	0	13231	855	30	4	1422	4	REPS2	23	17092279	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10		17092279	138178281	69	23423											
FAM47A	158724	hgsc.bcm.edu	37	chrX	34149658	34149693	+	In_Frame_Del	DEL	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	-																															atgggaggccccgggcggatAtgggacactccagtctctgg																								novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		-	34149693	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	-	34149658	7	5	450	1	0	1	0	1	0	0	0	0	5569	446	16	0	1641	0	FAM47A	23	34149658	In_Frame_Del	DEL	ATGGGACACTCCAGTCTCTGGAGGCTCCGGGCGGAG	TCGA-CZ-4865-01A-02D-1501-10	17057379	34149658	121120902	70	23424											
CXorf36	79742	hgsc.bcm.edu;ucsc.edu	37	chrX	45016973	45016973	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcatacctgtaggaggatgGggtgcgagttgacagccagc	9	8	16	8	1	0	1	0	1	0	0	0	4	0	3	2	4	5	3	2	4	2	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		A	45016973	G	A	45016973	3	1	450	1	0	0	0	0	1	0	0	0	4106	1232	43	2	654	2	CXorf36	23	45016973	Missense_Mutation	SNP	G	TCGA-CZ-4865-01A-02D-1501-10	10867315	45016973	110253587	71	23425											
NAP1L2	4674	hgsc.bcm.edu;ucsc.edu	37	chrX	72432980	72432980	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctactaatgcctcaaggTttttgcaacaagctttaact	11	15	5	10	0	2	0	1	0	1	0	2	0	2	0	1	1	6	3	1	1	6	7	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	72432980	T	G	72432980	3	3	450	1	0	0	0	0	1	0	0	0	10157	1725	60	5	37	5	NAP1L2	23	72432980	Missense_Mutation	SNP	T	TCGA-CZ-4865-01A-02D-1501-10	27416007	72432980	82837580	72	23426											
RLIM	51132	hgsc.bcm.edu;ucsc.edu	37	chrX	73812508	73812508	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gttctccgatggtctgggctCctgcttcttgccctcctctg	1	15	10	15	1	4	0	0	0	4	0	7	1	6	0	4	2	2	3	4	2	0	3	novel		TCGA-CZ-4865-01A-02D-1501-10	TCGA-CZ-4865-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f8eac30d-1155-44cc-a2ad-95427fecf4bf	e97e6356-82e8-49d3-ad59-f621e0cf6a85		G	73812508	C	G	73812508	3	3	450	1	0	0	0	0	1	0	0	0	13392	854	30	4	1236	4	RLIM	23	73812508	Missense_Mutation	SNP	C	TCGA-CZ-4865-01A-02D-1501-10	1379528	73812508	81458052	73	23427											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11189845	11189845	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacaaggagatggaacggaaGaagccctggacggcaggcac	14	2	16	9	2	0	2	0	0	0	2	0	7	0	5	1	6	2	2	1	6	4	0	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	11189845	G	C	11189845	3	2	451	1	0	0	0	0	1	0	0	0	9954	933	33	4	2061	4	MTOR	1	11189845	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		11189845	238060776	1	23428											
KIAA1522	57648	broad.mit.edu	37	chr1	33236584	33236584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaagggcctggcaggtcccCctgcttccccaggcaaggcc	6	5	12	18	0	0	0	0	0	0	0	2	0	2	0	7	5	1	3	7	5	2	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	33236584	T	T	33236584	3	4	451	1	0	0	0	0	1	0	0	0	8238	623	22	2	1826	2	KIAA1522	1	33236584	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	22046739	33236584	216014037	2	23429											
RPE65	6121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	68903915	68903915	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatctcctaacttcaggttgGggagcctttctggcattttt	6	17	9	9	0	3	0	1	0	2	0	4	1	3	1	2	4	2	2	2	4	2	7	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	68903915	G	C	68903915	2	2	451	1	0	0	0	0	0	0	0	1	13547	1219	43	4		4	RPE65	1	68903915	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	35667331	68903915	180346706	3	23430											
LRRIQ3	127255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	74540469	74540469	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaaatcaacaggataataTatattctgtgaaaataaaat	20	14	4	3	0	2	1	1	1	1	0	2	2	2	2	0	1	1	0	0	1	11	8	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	74540469	T	C	74540469	3	2	451	1	0	0	0	0	1	0	0	0	9030	1396	49	3	1013	3	LRRIQ3	1	74540469	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	5636554	74540469	174710152	4	23431											
COL24A1	255631	broad.mit.edu;ucsc.edu	37	chr1	86252141	86252141	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgggccgcctctgaTgccctaaataacacagataa	11	10	7	13	1	2	2	0	1	2	1	3	2	3	2	4	1	2	0	4	1	4	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	86252141	A	A	86252141	3	1	451	1	0	0	0	0	1	0	0	0	3683	1464	51	5	1241	5	COL24A1	1	86252141	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	11711672	86252141	162998480	5	23432											
TXNIP	10628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	145440274	145440274	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttctcattgctaggtgatGagatttccatccatgctgac	8	15	8	10	0	1	3	1	3	1	1	4	4	3	3	2	1	2	2	2	1	1	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	145440274	G	A	145440274	3	1	451	1	0	0	0	0	1	0	0	0	16802	1291	45	2	598	2	TXNIP	1	145440274	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	59188133	145440274	103810347	6	23433											
XPR1	9213	broad.mit.edu;ucsc.edu	37	chr1	180794054	180794054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaacttaatccgagaagcaAtttgtctcatcaacatctct	13	13	5	10	1	3	2	2	1	2	1	6	3	4	2	1	0	3	1	1	0	5	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	180794054	G	G	180794054	3	3	451	1	0	0	0	0	1	0	0	0	17450	101	4	3	959	3	XPR1	1	180794054	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	35353780	180794054	68456567	7	23434											
XPR1	9213	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	180849261	180849261	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgaacatctgaataacTgtggtgaattccgtgctgtg	12	12	11	6	1	1	4	0	3	1	1	2	4	2	4	1	1	3	1	1	1	5	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	180849261	T	C	180849261	3	2	451	1	0	0	0	0	1	0	0	0	17450	1580	55	3	1912	3	XPR1	1	180849261	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	55207	180849261	68401360	8	23435											
PCNXL2	80003	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	233270864	233270864	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagctcaagttaataaaCtggtaaaccgggttgcagaa	15	9	11	6	1	1	2	1	1	0	1	1	2	1	2	1	2	4	5	1	2	8	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	233270864	C	G	233270864	3	3	451	1	0	0	0	0	1	0	0	0	11592	564	20	4	2737	4	PCNXL2	1	233270864	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	52421603	233270864	15979757	9	23436											
OR2L2	26246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	248202228	248202228	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatgttcctatggccgggTtctccttgctgtctaccgca	4	14	10	13	2	2	0	0	0	2	0	4	0	3	0	4	2	3	5	4	2	2	5	rs138507569	by1000genomes	TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	248202228	T	C	248202228	3	2	451	1	0	0	0	0	1	0	0	0	11007	1725	60	3	661	3	OR2L2	1	248202228	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	14931364	248202228	1048393	10	23437											
CTNNA2	1496	broad.mit.edu	37	chr2	80136761	80136761	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgacgttcagcgaggccagGttccggccgtccctggagga	7	7	15	12	4	1	1	1	1	0	0	3	4	3	3	4	5	1	2	4	5	0	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	80136761	A	A	80136761	2	1	451	1	0	0	0	0	0	0	0	1	4013	1252	44	2		2	CTNNA2	2	80136761	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		80136761	163062612	11	23438											
CXCR4	7852	broad.mit.edu;ucsc.edu	37	chr2	136872770	136872770	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaaagccaggatgaggAtgactgtggtcttgagggcc	11	7	16	7	1	1	4	0	3	1	1	1	7	1	6	2	4	1	0	2	4	2	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	136872770	G	G	136872770	3	3	451	1	0	0	0	0	1	0	0	0	4093	333	12	3	334	3	CXCR4	2	136872770	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	56736009	136872770	106326603	12	23439											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179401957	179401957	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcacaattggtcctgtaggTttgtctggtttatctgttgg	6	18	11	6	0	3	0	1	0	2	0	4	0	4	0	1	4	0	4	1	4	3	6	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	179401957	T	G	179401957	3	3	451	1	0	0	0	0	1	0	0	0	16734	1722	60	5	8128	5	TTN	2	179401957	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	42529187	179401957	63797416	13	23440											
SLC4A3	6508	broad.mit.edu;ucsc.edu	37	chr2	220502504	220502504	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagccttcttcctgcgcaagTtcaggaacagccgcttcctg	7	11	9	14	2	2	0	1	0	1	0	4	1	4	1	4	1	4	3	4	1	3	5	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	220502504	C	C	220502504	3	2	451	1	0	0	0	0	1	0	0	0	14657	1725	60	3	2880	3	SLC4A3	2	220502504	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	41100547	220502504	22696869	14	23441											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52441418	52441418	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacagctcccacacacctgGcatggctattatgggccttg	8	9	9	15	0	0	0	0	0	0	0	1	0	1	0	4	3	1	3	4	3	2	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	52441418	G	C	52441418	3	2	451	1	0	0	0	0	1	0	0	0	1311	1203	42	4	1803	4	BAP1	3	52441418	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		52441418	145581012	15	23442											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52443568	52443568	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtgtacagccactcAcccctgacatttgctctgaa	8	10	8	15	0	2	2	1	2	1	0	2	2	2	2	4	1	3	2	4	1	2	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	52443568	A	T	52443568	5	4	451	1	0	0	0	0	0	0	1	0	1311	173	6	5	2125	5	BAP1	3	52443568	Splice_Site	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	2150	52443568	145578862	16	23443											
MUC4	4585	broad.mit.edu	37	chr3	195513812	195513812	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggggtggtgtcacctgTggatgctgaggaagggctag	9	8	19	5	0	1	2	1	1	0	1	1	4	1	4	1	6	1	2	1	6	3	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	195513812	A	A	195513812	3	1	451	1	0	0	0	0	1	0	0	0	9978	1696	59	5		5	MUC4	3	195513812	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	143070244	195513812	2508618	17	23444											
CPZ	8532	hgsc.bcm.edu;ucsc.edu	37	chr4	8613867	8613867	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagcatcatcaacggggcGgactggtacagcttcacggg	9	6	16	10	3	3	0	3	0	0	0	3	2	3	2	0	6	4	3	0	6	2	2	rs2302573	bycluster;byfrequency;by1000genomes	TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	8613867	G	A	8613867	2	1	451	1	0	0	0	0	0	0	0	1	3839	1103	39	1		1	CPZ	4	8613867	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		8613867	182540409	18	23445											
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	85722980	85722980	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgtgcaccagggattgtAaaatatttgccacggcaagt	11	11	11	8	1	0	0	0	0	0	0	0	1	0	1	2	2	2	3	2	2	4	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	85722980	A	G	85722980	3	3	451	1	0	0	0	0	1	0	0	0	17269	372	13	3	8143	3	WDFY3	4	85722980	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	77109113	85722980	105431296	19	23446											
PTPN13	5783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	87662898	87662898	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctaaaggtgtccttgtgtttGaagttcacaatggagtgcgc	9	13	12	7	1	1	1	1	1	0	0	2	2	2	2	1	2	1	2	1	2	4	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	87662898	G	C	87662898	3	2	451	1	0	0	0	0	1	0	0	0	12784	1291	45	4	2474	4	PTPN13	4	87662898	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	1939918	87662898	103491378	20	23447											
C4orf17	84103	hgsc.bcm.edu	37	chr4	100443802	100443802	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagcactgcagtccaggaGagccctgtaagaggaatgtc	11	7	12	11	0	0	2	0	0	0	2	3	4	2	3	3	2	3	3	3	2	2	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	100443802	G	A	100443802	2	1	451	1	0	0	0	0	0	0	0	1	2252	933	33	2		2	C4orf17	4	100443802	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	12780904	100443802	90710474	21	23448											
LEF1	51176	hgsc.bcm.edu	37	chr4	109084820	109084820	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaataactcgagtaggaGggtcccttgttgtagaggcc	9	9	14	9	2	0	1	0	0	0	1	2	4	1	3	3	4	1	3	3	4	4	5	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	109084820	G	A	109084820	2	1	451	1	0	0	0	0	0	0	0	1	8714	987	35	2		2	LEF1	4	109084820	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	8641018	109084820	82069456	22	23449											
HSPA4L	22824	broad.mit.edu;ucsc.edu	37	chr4	128732596	128732596	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttttttccttaagggagCttcactattcagaatgtttt	8	20	6	7	0	3	1	2	0	1	1	4	2	4	2	1	1	1	2	1	1	3	10	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	128732596	A	A	128732596	3	1	451	1	0	0	0	0	1	0	0	0	7413	796	28	4	1429	4	HSPA4L	4	128732596	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	19647776	128732596	62421680	23	23450											
EGFLAM	133584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	38427225	38427225	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaatttgagatcacatttcGgccagactcaggagatggtg	11	10	13	7	1	2	3	2	1	0	3	3	6	2	4	1	4	0	0	1	4	1	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	38427225	G	A	38427225	3	1	451	1	0	0	0	0	1	0	0	0	4966	1116	39	1	1993	1	EGFLAM	5	38427225	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		38427225	142488035	24	23451											
SLCO4C1	353189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	101597678	101597678	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaagcaaagatccatgatAgaagaaacccaatccaccaa	20	4	5	12	0	0	4	0	1	0	3	2	4	2	4	5	0	2	1	5	0	7	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	101597678	A	G	101597678	3	3	451	1	0	0	0	0	1	0	0	0	14732	420	15	3	1251	3	SLCO4C1	5	101597678	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	63170453	101597678	79317582	25	23452											
SLIT3	6586	hgsc.bcm.edu	37	chr5	168096839	168096839	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggcacaggcagtagggctCcccttggtctgagatgtggc	6	9	15	11	0	1	1	0	1	1	1	2	2	2	1	2	5	0	4	2	5	1	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	168096839	C	T	168096839	3	4	451	1	0	0	0	0	1	0	0	0	14743	864	30	2	294	2	SLIT3	5	168096839	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	66499161	168096839	12818421	26	23453											
DPCR1	135656	hgsc.bcm.edu	37	chr6	30918543	30918545	+	In_Frame_Del	DEL	TTG	TTG	-																															aaaatggagacaggactccaTtggccaatgagaagaccaca																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		-	30918545	TTG	-	30918543	7	5	451	1	0	1	0	1	0	0	0	0	4712	1490	52	0	2308	0	DPCR1	6	30918543	In_Frame_Del	DEL	TTG	TCGA-CZ-4866-01A-01D-1501-10		30918543	140196524	27	23454											
LY6G6F	259215	broad.mit.edu;hgsc.bcm.edu	37	chr6	31675443	31675444	+	Frame_Shift_Ins	INS	-	-	A																															ccaggctcagactgctggggINSaactattctttgtggttgga																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	31675444	-	A	31675443	7	5	451	1	0	1	1	0	0	0	0	0	9096	1161	41	0	267	0	LY6G6F	6	31675443	Frame_Shift_Ins	INS	-	TCGA-CZ-4866-01A-01D-1501-10	756900	31675443	139439624	28	23455											
TMEM63B	55362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	44107238	44107238	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacaaatgtgggggcgatGccgtgcactacctgtccttt	7	10	14	10	2	0	0	0	0	0	0	1	2	1	1	3	3	3	1	3	3	2	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	44107238	G	A	44107238	3	1	451	1	0	0	0	0	1	0	0	0	16190	1319	46	2	464	2	TMEM63B	6	44107238	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	12431795	44107238	127007829	29	23456											
TDRD6	221400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	46661744	46661744	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgtcattgcatctacAtggagcagattgtgatccta	11	12	10	8	0	2	2	1	1	1	1	3	4	3	4	1	2	3	2	1	2	2	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	46661744	A	T	46661744	3	4	451	1	0	0	0	0	1	0	0	0	15733	217	8	5	5881	5	TDRD6	6	46661744	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	2554506	46661744	124453323	30	23457											
SYNJ2	8871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	158517224	158517224	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctcagaccctttggactcagGaaccaggagccccaaaagag	13	5	10	13	0	2	2	2	0	0	2	2	5	2	5	4	3	2	0	4	3	3	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	158517224	G	A	158517224	3	1	451	1	0	0	0	0	1	0	0	0	15452	1174	41	2	4425	2	SYNJ2	6	158517224	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	111855480	158517224	12597843	31	23458											
AQP1	358	broad.mit.edu	37	chr7	30963232	30963232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcaactccagggtggagatGaagcccaaatagaaggggtc	14	6	13	8	0	1	3	1	1	0	2	3	4	2	3	2	4	2	0	2	4	5	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	30963232	A	A	30963232	3	1	451	1	0	0	0	0	1	0	0	0	821	1290	45	2	1069	2	AQP1	7	30963232	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		30963232	128175431	32	23459											
OGDH	4967	hgsc.bcm.edu;ucsc.edu	37	chr7	44713430	44713434	+	Frame_Shift_Del	DEL	TGACC	TGACC	-																															gtggagttcatgttcatcaaTgacctggagcagtgccagtg																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	TGACC	TGACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		-	44713434	TGACC	-	44713430	7	5	451	1	0	1	0	1	0	0	0	0	10839	1461	51	0	791	0	OGDH	7	44713430	Frame_Shift_Del	DEL	TGACC	TCGA-CZ-4866-01A-01D-1501-10	13750198	44713430	114425233	33	23460											
TNS3	64759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	47384598	47384598	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacttaaaattctgccatcGataatatcgaggtcctgggg	11	12	9	9	2	1	0	0	0	1	0	4	2	2	0	2	3	2	0	2	3	5	5	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	47384598	G	T	47384598	2	4	451	1	0	0	0	0	0	0	0	1	16343	1048	37	4		4	TNS3	7	47384598	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	2671168	47384598	111754065	34	23461											
ABCA13	154664	hgsc.bcm.edu	37	chr7	48563848	48563848	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatttcatcttcccaggggtCattctactctccaaggcaca	9	12	7	13	0	5	0	2	0	3	0	7	1	6	0	2	3	1	1	2	3	2	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	48563848	C	T	48563848	3	4	451	1	0	0	0	0	1	0	0	0	31	826	29	2	14099	2	ABCA13	7	48563848	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	1179250	48563848	110574815	35	23462											
ABCB1	5243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	87196210	87196210	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattttgtgtatttgtcttcCagctgccaggcaccaaaatg	10	14	8	9	0	1	0	0	0	1	0	2	0	2	0	3	1	2	3	3	1	4	5	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	87196210	C	A	87196210	4	1	451	1	0	0	0	0	0	1	0	0	40	603	21	4	3513	4	ABCB1	7	87196210	Nonsense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	38632362	87196210	71942453	36	23463											
AKAP9	10142	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	91631974	91631974	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagtgaaaatgaaaagtTctgtctttgatgaagacaaa	17	11	8	5	0	2	5	0	4	2	1	2	5	2	5	0	0	1	1	0	0	7	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	91631974	T	A	91631974	3	1	451	1	0	0	0	0	1	0	0	0	459	1783	62	5	2773	5	AKAP9	7	91631974	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	4435764	91631974	67506689	37	23464											
CCDC132	55610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92970752	92970752	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaggaagtttcagctgAtcctactgccacactcacag	10	12	7	12	0	3	1	3	1	0	0	4	2	4	2	2	1	3	2	2	1	2	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	92970752	A	G	92970752	3	3	451	1	0	0	0	0	1	0	0	0	2767	333	12	3	2204	3	CCDC132	7	92970752	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	1338778	92970752	66167911	38	23465											
GIGYF1	64599	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	100281055	100281055	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccctgagctccacttctcTgcgctcctggaactgagacc	6	9	9	17	2	1	2	0	2	1	1	4	4	3	3	4	1	3	2	4	1	1	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	100281055	T	A	100281055	4	1	451	1	0	0	0	0	0	1	0	0	6377	1588	55	5	1070	5	GIGYF1	7	100281055	Nonsense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	7310303	100281055	58857608	39	23466											
PNPLA8	50640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	108155935	108155935	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagtcagattaatagacaTaacttaaaaatcatttattt	18	15	3	5	0	2	2	2	0	0	2	2	2	2	2	0	0	2	0	0	0	8	8	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	108155935	T	C	108155935	3	2	451	1	0	0	0	0	1	0	0	0	12171	1406	49	3	2383	3	PNPLA8	7	108155935	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	7874880	108155935	50982728	40	23467											
ZNF800	168850	broad.mit.edu;hgsc.bcm.edu	37	chr7	127013601	127013601	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctacttcatactttttacTaggagagttagaagtgccat	12	14	8	7	0	1	2	1	0	0	2	1	3	1	2	1	1	5	2	1	1	6	8	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	127013601	T	C	127013601	3	2	451	1	0	0	0	0	1	0	0	0	18168	1522	53	3	213	3	ZNF800	7	127013601	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	18857666	127013601	32125062	41	23468											
EPHA1	2041	broad.mit.edu;hgsc.bcm.edu	37	chr7	143097036	143097036	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggttgtggaaagcgaggtaGaggccacggcgggtcaggcg	8	5	21	7	4	1	1	1	0	0	1	1	3	1	2	1	7	1	2	1	7	2	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	143097036	G	A	143097036	2	1	451	1	0	0	0	0	0	0	0	1	5165	929	33	2		2	EPHA1	7	143097036	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	16083435	143097036	16041627	42	23469											
GATA4	2626	broad.mit.edu;ucsc.edu	37	chr8	11615820	11615820	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacgttctcagtcagtgcgAtgtctggccatgggccctcc	6	10	12	13	2	3	1	2	0	2	1	5	2	4	1	3	2	1	1	3	2	0	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	11615820	C	C	11615820	3	2	451	1	0	0	0	0	1	0	0	0	6256	333	12	5	1187	5	GATA4	8	11615820	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10		11615820	134748202	43	23470											
PENK	5179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	57354188	57354188	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtctgaggaattggccagCgagtcgtcctcctctgcatc	7	10	12	12	2	2	1	0	1	2	0	6	3	4	2	3	3	2	1	3	3	1	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	57354188	C	T	57354188	2	4	451	1	0	0	0	0	0	0	0	1	11727	755	27	1		1	PENK	8	57354188	Silent	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	45738368	57354188	89009834	44	23471											
FRMPD1	22844	broad.mit.edu	37	chr9	37746529	37746529	+	Frame_Shift_Del	DEL	G	-	-																															ttccagcacctggtccagctGgccggcctgtgctttcagtt																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		-	37746529	-	-	37746529	7	5	451	1	0	1	0	1	0	0	0	0	6057	1335	47	0	4558	0	FRMPD1	9	37746529	Frame_Shift_Del	DEL	G	TCGA-CZ-4866-01A-01D-1501-10		37746529	103466902	45	23472											
KLF9	687	broad.mit.edu	37	chr9	73027890	73027890	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttccccttcgcagccacTccaggatggaggagggagag	8	8	14	11	1	0	1	0	0	0	1	3	5	2	4	4	4	1	2	4	4	0	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	73027890	C	C	73027890	2	2	451	1	0	0	0	0	0	0	0	1	8353	1538	54	3		3	KLF9	9	73027890	Silent	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	35281361	73027890	68185541	46	23473											
GOT1	2805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	101165548	101165549	+	Frame_Shift_Del	DEL	GA	GA	-																															aatctgcttccactgctccgGagttgggtcaatcccagttg																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		-	101165549	GA	-	101165548	7	5	451	1	0	1	0	1	0	0	0	0	6579	1174	41	0	654	0	GOT1	10	101165548	Frame_Shift_Del	DEL	GA	TCGA-CZ-4866-01A-01D-1501-10		101165548	34369199	47	23474											
OR52J3	119679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5068157	5068157	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgtgctccactacattaCgcaaccatcttgacatccca	10	11	5	15	1	2	1	0	1	2	0	4	1	4	1	3	0	4	2	3	0	3	3	rs149427006		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	5068157	C	T	5068157	2	4	451	1	0	0	0	0	0	0	0	1	11122	547	19	1		1	OR52J3	11	5068157	Silent	SNP	C	TCGA-CZ-4866-01A-01D-1501-10		5068157	129938359	48	23475											
SLC39A13	91252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47433931	47433931	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctgcagcagcagcaacaGctggggctgtgggtcattgc	8	7	15	11	0	1	0	1	0	0	0	1	0	1	0	1	3	8	6	1	3	1	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	47433931	G	A	47433931	2	1	451	1	0	0	0	0	0	0	0	1	14618	962	34	2		2	SLC39A13	11	47433931	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	42365774	47433931	87572585	49	23476											
MS4A2	2206	hgsc.bcm.edu;ucsc.edu	37	chr11	59860282	59860283	+	Frame_Shift_Ins	INS	-	-	T																															agttttctatttctggaatgINSttgtcaattatatctgaaag																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	59860283	-	T	59860282	7	5	451	1	0	1	1	0	0	0	0	0	9860	1377	48	0	353	0	MS4A2	11	59860282	Frame_Shift_Ins	INS	-	TCGA-CZ-4866-01A-01D-1501-10	12426351	59860282	75146234	50	23477											
SNX32	254122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65617711	65617711	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acagctctgtcactcgggaaGagtttgccaagatgaagcag	12	8	12	9	1	2	3	1	1	1	2	3	4	2	4	1	1	3	3	1	1	3	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	65617711	G	C	65617711	3	2	451	1	0	0	0	0	1	0	0	0	14904	943	33	4	357	4	SNX32	11	65617711	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	5757429	65617711	69388805	51	23478											
ARHGEF17	9828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	73066671	73066671	+	Frame_Shift_Del	DEL	C	C	-																															gtgtggccaaggaggcgaggCctgcctttctcaagttccta																								novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		-	73066671	C	-	73066671	7	5	451	1	0	1	0	1	0	0	0	0	900	739	26	0	3561	0	ARHGEF17	11	73066671	Frame_Shift_Del	DEL	C	TCGA-CZ-4866-01A-01D-1501-10	7448960	73066671	61939845	52	23479											
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103024178	103024178	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcttgataaaagtgcaaaGttaataaaagagaaaaaaat	23	9	6	3	0	1	2	0	1	1	1	1	3	1	2	0	0	1	2	0	0	9	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	103024178	G	T	103024178	3	4	451	1	0	0	0	0	1	0	0	0	4846	1020	36	4	3329	4	DYNC2H1	11	103024178	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	29957507	103024178	31982338	53	23480											
USP2	9099	broad.mit.edu;ucsc.edu	37	chr11	119229962	119229962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagccaacaaagcgcggtGcgtatctctggatctgggtc	9	10	12	10	3	2	0	0	0	2	0	4	1	2	1	1	3	4	1	1	3	5	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	119229962	A	A	119229962	3	1	451	1	0	0	0	0	1	0	0	0	17050	1319	46	2	813	2	USP2	11	119229962	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	16205784	119229962	15776554	54	23481											
OR8G2	26492	hgsc.bcm.edu	37	chr11	124096257	124096257	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catggaccaggggaaagtgtCctctgtgttttatactattg	9	14	11	7	0	1	0	0	0	1	0	2	2	2	2	2	3	1	1	2	3	4	5	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	124096257	C	T	124096257	3	4	451	1	0	0	0	0	1	0	0	0	11235	855	30	2	862	2	OR8G2	11	124096257	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	4866295	124096257	10910259	55	23482											
OR8B3	390271	broad.mit.edu;hgsc.bcm.edu	37	chr11	124266328	124266328	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatatatttcttctctgaAttttaatcagagctttcctc	11	18	4	8	0	3	3	1	1	2	2	6	3	4	3	1	0	1	1	1	0	5	7	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	124266328	A	T	124266328	3	4	451	1	0	0	0	0	1	0	0	0	11228	101	4	5	23	5	OR8B3	11	124266328	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	170071	124266328	10740188	56	23483											
WBP11	51729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	14943401	14943401	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgtttacctggaggtggaCcaggaggaaggcctgtaggt	9	9	17	6	0	0	0	0	0	0	0	0	4	0	4	3	7	1	2	3	7	3	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	14943401	C	A	14943401	3	1	451	1	0	0	0	0	1	0	0	0	17257	507	18	4	639	4	WBP11	12	14943401	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10		14943401	118908494	57	23484											
ANKRD33	341405	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52282005	52282005	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atctgttacctgcgttgcttCctggggagggatagtccacc	6	12	12	11	1	1	0	0	0	1	0	3	2	3	2	4	3	3	3	4	3	2	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	52282005	C	T	52282005	3	4	451	1	0	0	0	0	1	0	0	0	661	855	30	2	37	2	ANKRD33	12	52282005	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	37338604	52282005	81569890	58	23485											
CCT2	10576	broad.mit.edu;ucsc.edu	37	chr12	69985846	69985846	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttattgtaggcttcctGttggataaaaaaattggagt	13	16	9	3	0	0	0	0	0	0	0	1	2	1	2	1	3	0	3	1	3	7	9	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	69985846	T	T	69985846	2	4	451	1	0	0	0	0	0	0	0	1	2953	1364	48	4		4	CCT2	12	69985846	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	17703841	69985846	63866049	59	23486											
MGAT4C	25834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	86383258	86383258	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagaatgacactgtagaacGttttctcaggcatctcattt	12	13	7	9	1	2	3	2	1	2	2	4	3	2	3	0	1	1	3	0	1	4	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	86383258	G	A	86383258	3	1	451	1	0	0	0	0	1	0	0	0	9547	1145	40	1	1381	1	MGAT4C	12	86383258	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	16397412	86383258	47468637	60	23487											
ACACB	32	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109689927	109689927	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccaggtggagaattcccAcatcatcctcacaggagcaa	13	7	9	12	0	2	1	2	0	0	1	5	4	5	2	3	3	1	1	3	3	2	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	109689927	A	T	109689927	3	4	451	1	0	0	0	0	1	0	0	0	107	159	6	5	6029	5	ACACB	12	109689927	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	23306669	109689927	24161968	61	23488											
PIWIL1	9271	broad.mit.edu;ucsc.edu	37	chr12	130845828	130845828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagtgtgtggtggcccgaaCcttaggcaaacagcaaactg	11	8	12	10	1	1	0	1	0	0	0	1	1	1	0	2	3	4	2	2	3	4	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	130845828	A	A	130845828	3	1	451	1	0	0	0	0	1	0	0	0	11957	507	18	4	1823	4	PIWIL1	12	130845828	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	21155901	130845828	3006067	62	23489											
LRFN5	145581	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	42360818	42360818	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatacaaggctgtagtgtaaCgctgccccagtccgtgtcca	10	9	10	12	2	0	0	0	0	0	0	2	0	2	0	4	1	3	4	4	1	5	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	42360818	C	T	42360818	3	4	451	1	0	0	0	0	1	0	0	0	8941	536	19	1	1757	1	LRFN5	14	42360818	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10		42360818	64988722	63	23490											
DIO3	1735	broad.mit.edu	37	chr14	102028537	102028537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgagggtactgcagcaagGtgcacccggctgcgctctgg	7	6	16	12	3	1	0	0	0	1	0	1	1	1	0	1	4	6	6	1	4	2	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	102028537	T	T	102028537	3	4	451	1	0	0	0	0	1	0	0	0	4526	1261	44	4	706	4	DIO3	14	102028537	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	59667719	102028537	5321003	64	23491											
TGM5	9333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43531237	43531237	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatggctctgacagaggcagGgccacagcagtagacgcctg	10	5	15	11	1	1	3	0	1	1	2	1	4	1	3	2	3	1	4	2	3	1	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	43531237	G	A	43531237	3	1	451	1	0	0	0	0	1	0	0	0	15832	1232	43	2	1059	2	TGM5	15	43531237	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		43531237	59000155	65	23492											
ATP8B4	79895	broad.mit.edu;ucsc.edu	37	chr15	50211075	50211075	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccagatcttaatattggCtagtgataaacttgtaactg	13	13	8	7	0	1	2	0	1	1	1	1	3	1	2	1	1	2	2	1	1	6	7	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	50211075	A	A	50211075	3	1	451	1	0	0	0	0	1	0	0	0	1197	797	28	4	1622	4	ATP8B4	15	50211075	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	6679838	50211075	52320317	66	23493											
ERCC4	2072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	14041845	14041845	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacacttcacttccccagaCtacggattctctggtgcccc	7	12	6	16	1	2	1	1	0	1	1	4	2	3	2	4	2	3	0	4	2	2	5	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	14041845	C	G	14041845	3	3	451	1	0	0	0	0	1	0	0	0	5215	564	20	4	2434	4	ERCC4	16	14041845	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10		14041845	76312908	67	23494											
FBRS	64319	broad.mit.edu;hgsc.bcm.edu	37	chr16	30679940	30679940	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctctccaacggggcctttGgaggcctgggcagccccaca	6	6	12	17	1	1	0	0	0	1	0	2	1	1	1	6	5	2	1	6	5	1	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	30679940	G	A	30679940	3	1	451	1	0	0	0	0	1	0	0	0	5707	1349	47	2	608	2	FBRS	16	30679940	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	16638095	30679940	59674813	68	23495											
GLP2R	9340	hgsc.bcm.edu	37	chr17	9737136	9737136	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctcaggttacaggatccCtccttgaggaaacgactcgg	9	10	11	11	2	1	1	1	1	0	0	4	4	3	3	2	4	3	2	2	4	2	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	9737136	C	T	9737136	3	4	451	1	0	0	0	0	1	0	0	0	6453	681	24	2	208	2	GLP2R	17	9737136	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10		9737136	71458074	69	23496											
SMCR8	140775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18219207	18219207	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtactcggtgccgctctTccccttcgccagtcagggtg	4	10	13	14	3	2	0	1	0	1	0	5	1	3	1	4	3	2	2	4	3	1	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	18219207	T	A	18219207	3	1	451	1	0	0	0	0	1	0	0	0	14794	1783	62	5	106	5	SMCR8	17	18219207	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10	8482071	18219207	62976003	70	23497											
EME1	146956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48456585	48456585	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagggtagacgctgaagaGgtaagaacgtcctgttgcct	10	9	13	9	2	0	4	0	1	0	3	2	4	2	4	3	2	2	4	3	2	4	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	48456585	G	C	48456585	3	2	451	1	0	0	0	0	1	0	0	0	5088	1014	35	4	1287	4	EME1	17	48456585	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	30237378	48456585	32738625	71	23498											
PTPN2	5771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	12814354	12814354	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatcatctcctttttccaTctgcaagaaaggcaaaaaat	16	12	4	9	0	3	1	1	0	2	1	5	1	4	1	2	1	1	2	2	1	7	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	12814354	T	G	12814354	3	3	451	1	0	0	0	0	1	0	0	0	12787	1449	50	5	579	5	PTPN2	18	12814354	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10		12814354	65262894	72	23499											
MBD1	4152	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	47803544	47803544	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtatcgagtcagctcAactttgcttcggatcctgtc	7	12	9	13	2	2	0	2	0	0	0	6	2	3	1	2	2	3	3	2	2	2	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	47803544	A	C	47803544	2	2	451	1	0	0	0	0	0	0	0	1	9342	117	5	5		5	MBD1	18	47803544	Silent	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	34989190	47803544	30273704	73	23500											
ZNF607	84775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38190296	38190296	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcttctcaccagtgtgaaTactctgatgtcgactaagtc	9	12	10	10	1	2	2	1	2	2	0	5	3	2	2	1	1	1	1	1	1	3	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	38190296	T	A	38190296	3	1	451	1	0	0	0	0	1	0	0	0	18032	1406	49	5	1358	5	ZNF607	19	38190296	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10		38190296	20938687	74	23501											
ATP5SL	55101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	41942328	41942328	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccctgcttcaggatgaaaaAggcacctgcgccgtatggac	10	8	11	12	2	1	1	1	1	0	0	2	3	2	3	3	3	2	3	3	3	3	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		G	41942328	A	G	41942328	3	3	451	1	0	0	0	0	1	0	0	0	1164	72	3	3	524	3	ATP5SL	19	41942328	Missense_Mutation	SNP	A	TCGA-CZ-4866-01A-01D-1501-10	3752032	41942328	17186655	75	23502											
ZNF284	342909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44586259	44586259	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaaagagaagggaattcagGtaagaaccaagcaacgatgc	18	4	11	8	1	1	2	1	0	0	2	1	5	1	3	2	2	4	2	2	2	7	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	44586259	G	A	44586259	5	1	451	1	0	0	0	0	0	0	1	0	17820	1275	44	2	246	2	ZNF284	19	44586259	Splice_Site	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	2643931	44586259	14542724	76	23503											
GPR77	27202	broad.mit.edu	37	chr19	47844249	47844249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggctgggaaggtggccCgccggagggtgggtgccacc	4	5	22	10	2	0	0	0	0	0	0	0	2	0	2	4	8	1	1	4	8	1	0	rs144687097		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	47844249	T	T	47844249	3	4	451	1	0	0	0	0	1	0	0	0	6709	652	23	1	195	1	GPR77	19	47844249	Missense_Mutation	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	3257990	47844249	11284734	77	23504											
ZNF468	90333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53345371	53345371	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattgccttgccctgttgacGacaacgtcttcaacatgcat	9	13	7	12	2	2	1	1	1	1	0	2	2	2	1	2	0	5	2	2	0	3	5	rs148965254	bycluster;byfrequency;by1000genomes	TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	53345371	G	A	53345371	3	1	451	1	0	0	0	0	1	0	0	0	17927	1059	37	1	1396	1	ZNF468	19	53345371	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	5501122	53345371	5783612	78	23505											
LILRB3	11025	broad.mit.edu;hgsc.bcm.edu	37	chr19	54721109	54721109	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcttcagatgcagcagcCtgcagcgggggagagtgaga	10	5	18	8	1	1	3	1	1	0	3	1	6	1	3	1	3	5	4	1	3	0	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	54721109	C	A	54721109	5	1	451	1	0	0	0	0	0	0	1	0	8792	695	24	4	150	4	LILRB3	19	54721109	Splice_Site	SNP	C	TCGA-CZ-4866-01A-01D-1501-10	1375738	54721109	4407874	79	23506											
LAIR2	3904	broad.mit.edu;ucsc.edu	37	chr19	55019389	55019389	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagtgacttcctggagctGctggtgaaaggtaaggacgt	10	9	14	8	1	0	2	0	2	0	0	1	4	1	4	1	4	2	3	1	4	2	2	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	55019389	T	T	55019389	2	4	451	1	0	0	0	0	0	0	0	1	8603	1306	46	4		4	LAIR2	19	55019389	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	298280	55019389	4109594	80	23507											
ATP9A	10079	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	50292728	50292728	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctctgccagtgtaaagAacaacacccacaacagtacc	15	7	6	13	0	1	1	0	0	1	1	2	1	1	1	3	0	5	3	3	0	6	3	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		T	50292728	A	T	50292728	2	4	451	1	0	0	0	0	0	0	0	1	1198	233	9	5		5	ATP9A	20	50292728	Silent	SNP	A	TCGA-CZ-4866-01A-01D-1501-10		50292728	12732792	81	23508											
PHACTR3	116154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	58318178	58318178	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatgagatggaccaaacGcccccggcgcgtcctgaata	11	5	11	14	4	0	3	0	2	0	2	1	5	1	4	5	2	1	0	5	2	3	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	58318178	G	C	58318178	2	2	451	1	0	0	0	0	0	0	0	1	11811	1074	38	4		4	PHACTR3	20	58318178	Silent	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	8025450	58318178	4707342	82	23509											
BAGE3	85318	broad.mit.edu;hgsc.bcm.edu	37	chr21	11049593	11049593	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaggtctcccgggctgtcGcacactgcacagtttgcatc	8	9	11	13	2	1	1	0	0	1	1	4	1	1	1	1	2	2	5	1	2	1	1	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	11049593	G	A	11049593	3	1	451	1	0	0	0	0	1	0	0	0	1293	1087	38	1	25	1	BAGE3	21	11049593	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10		11049593	37080302	83	23510											
SETD4	54093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	37418187	37418187	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccggctccaaacaaacaGggcaggtatacgccttgggt	10	8	11	12	2	0	0	0	0	0	0	2	0	2	0	3	4	3	3	3	4	4	4	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		A	37418187	G	A	37418187	3	1	451	1	0	0	0	0	1	0	0	0	14135	1000	35	2	950	2	SETD4	21	37418187	Missense_Mutation	SNP	G	TCGA-CZ-4866-01A-01D-1501-10	26368594	37418187	10711708	84	23511											
FOXRED2	80020	broad.mit.edu;ucsc.edu	37	chr22	36894120	36894120	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcgccgcacgatggagcTggtcagctgtgtgatgggga	7	7	17	10	4	1	1	1	1	0	0	1	4	1	3	1	4	2	3	1	4	0	0	novel		TCGA-CZ-4866-01A-01D-1501-10	TCGA-CZ-4866-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a3a06421-7838-4ac2-b5d5-45d2ea651368	f3812874-ff21-40d4-b7b7-5e13b2455d07		C	36894120	C	C	36894120	3	2	451	1	0	0	0	0	1	0	0	0	6034	1580	55	3	770	3	FOXRED2	22	36894120	Missense_Mutation	SNP	T	TCGA-CZ-4866-01A-01D-1501-10		36894120	14410446	85	23512											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10394639	10394639	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatccacagggtggccatcGtcagtgagaaaggtgaagtg	11	8	15	7	1	1	3	1	3	0	1	3	4	2	3	2	3	0	0	2	3	2	0	rs145596547		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	10394639	G	A	10394639	3	1	452	1	0	0	0	0	1	0	0	0	8284	1145	40	1	4435	1	KIF1B	1	10394639	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		10394639	238855982	1	23513											
SPOCD1	90853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	32259422	32259422	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcataggagtttggcttagGgctttctggaagatattgtc	8	14	14	5	0	1	1	0	0	1	1	2	3	1	3	0	5	0	4	0	5	4	6	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	32259422	G	T	32259422	2	4	452	1	0	0	0	0	0	0	0	1	15079	1219	43	4		4	SPOCD1	1	32259422	Silent	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	21864783	32259422	216991199	2	23514											
CSF3R	1441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36931800	36931800	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatcgcctgggaggcccaGcctatggagattgggaggag	9	6	17	9	1	0	2	0	0	0	2	1	6	0	5	3	5	1	0	3	5	1	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	36931800	G	A	36931800	3	1	452	1	0	0	0	0	1	0	0	0	3937	985	34	2	106	2	CSF3R	1	36931800	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	4672378	36931800	212318821	3	23515											
SF3A3	10946	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38455225	38455225	+	Nonsense_Mutation	SNP	G	G	A																															cagctgggcactcacatcttGcatggcccgagtgcggtgat																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	38455225	G	A	38455225	4	1	452	1	0	0	0	0	0	1	0	0	14150	1328	46	2	1430	2	SF3A3	1	38455225	Nonsense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	1523425	38455225	210795396	4	23516	330	2									
SF3A3	10946	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	38455226	38455226	+	Missense_Mutation	SNP	C	C	T																															agctgggcactcacatcttgCatggcccgagtgcggtgatc																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	38455226	C	T	38455226	3	4	452	1	0	0	0	0	1	0	0	0	14150	710	25	2	1431	2	SF3A3	1	38455226	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	1	38455226	210795395	5	23517	330	2									
CDKN2C	1031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	51436156	51436156	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacaaaatggatttggaaGgactgcgctgcaggttggta	11	10	14	6	1	0	0	0	0	0	0	0	3	0	3	0	5	3	5	0	5	4	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	51436156	G	C	51436156	3	2	452	1	0	0	0	0	1	0	0	0	3165	1000	35	4	118	4	CDKN2C	1	51436156	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	12980930	51436156	197814465	6	23518											
EPS15	2060	hgsc.bcm.edu	37	chr1	51869130	51869130	+	Frame_Shift_Del	DEL	T	T	-																															ttgtcgagttcagaacaaacTttttcagtaacagctgtagt																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	51869130	T	-	51869130	7	5	452	1	0	1	0	1	0	0	0	0	5192	1606	56	0	974	0	EPS15	1	51869130	Frame_Shift_Del	DEL	T	TCGA-CZ-5451-01A-01D-1501-10	432974	51869130	197381491	7	23519											
FAM151A	338094	broad.mit.edu;ucsc.edu	37	chr1	55077410	55077410	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagcctgccacagcgtcAggctgtacctggggacacga	9	5	14	13	2	1	0	1	0	0	0	1	2	1	1	3	4	4	3	3	4	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	55077410	C	C	55077410	3	2	452	1	0	0	0	0	1	0	0	0	5458	188	7	5	960	5	FAM151A	1	55077410	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	3208280	55077410	194173211	8	23520											
USP24	23358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55619805	55619805	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaaccctcttaatatctTctatgcacttgatgatgtag	12	14	5	10	0	3	2	0	2	3	0	3	2	3	2	2	0	3	2	2	0	6	6	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	55619805	T	G	55619805	3	3	452	1	0	0	0	0	1	0	0	0	17054	1783	62	5	6279	5	USP24	1	55619805	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	542395	55619805	193630816	9	23521											
PDE4B	5142	broad.mit.edu	37	chr1	66827366	66827366	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaaagaaaaagcagcagCtcatgacccagataagtgga	20	4	10	7	0	1	4	1	1	0	3	1	5	1	5	1	1	3	3	1	1	5	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	66827366	A	A	66827366	3	1	452	1	0	0	0	0	1	0	0	0	11640	797	28	4	1302	4	PDE4B	1	66827366	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	11207561	66827366	182423255	10	23522											
ADAR	103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154574687	154574687	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagctcttccaggaactttAagatcctttgttcctgatct	9	15	6	11	0	2	2	0	1	2	1	5	3	5	3	3	1	2	2	3	1	3	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	154574687	A	T	154574687	4	4	452	1	0	0	0	0	0	1	0	0	281	372	13	5	3305	5	ADAR	1	154574687	Nonsense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	87747321	154574687	94675934	11	23523											
PTPRC	5788	broad.mit.edu;hgsc.bcm.edu	37	chr1	198687258	198687258	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacatgactgtctccatgAcatcagataatagtatgcat	14	11	8	8	0	2	3	1	2	1	1	3	4	2	4	1	1	2	2	1	1	4	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	198687258	A	T	198687258	3	4	452	1	0	0	0	0	1	0	0	0	12799	275	10	5	1541	5	PTPRC	1	198687258	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	44112571	198687258	50563363	12	23524											
RAB3GAP2	25782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	220346067	220346067	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttttcctttgaaagccaAacactcaggagcagagactg	12	10	8	11	0	1	2	1	1	0	1	3	4	3	3	3	1	3	1	3	1	2	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	220346067	A	G	220346067	2	3	452	1	0	0	0	0	0	0	0	1	12938	1	1	3		3	RAB3GAP2	1	220346067	Silent	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	21658809	220346067	28904554	13	23525											
GCKR	2646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27719812	27719812	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacatgtcattgagacccCggagcctggcaagtgggagg	10	7	14	10	1	2	1	2	1	0	1	2	4	2	3	3	4	2	1	3	4	2	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	27719812	C	T	27719812	3	4	452	1	0	0	0	0	1	0	0	0	6294	652	23	1	43	1	GCKR	2	27719812	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10		27719812	215479561	14	23526											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32693677	32693677	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagctacagcttcaactaAatttggctcataatgcagtg	12	13	7	9	0	3	0	3	0	0	0	3	0	3	0	0	1	5	4	0	1	5	6	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	32693677	A	T	32693677	3	4	452	1	0	0	0	0	1	0	0	0	1438	14	1	5	6067	5	BIRC6	2	32693677	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	4973865	32693677	210505696	15	23527											
CYP26B1	56603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	72362015	72362015	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggatggccttctccagccCcttctgcaggatctgccgag	5	9	11	16	2	3	0	0	0	3	0	4	3	3	2	6	3	3	1	6	3	0	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	72362015	C	T	72362015	3	4	452	1	0	0	0	0	1	0	0	0	4156	623	22	2	814	2	CYP26B1	2	72362015	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	39668338	72362015	170837358	16	23528											
MGAT4A	11320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	99256416	99256416	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaagtagatacctccgcagGtgggtttacatggattttaa	11	12	12	6	1	0	1	0	0	0	1	1	3	1	3	2	4	2	3	2	4	5	6	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	99256416	G	A	99256416	3	1	452	1	0	0	0	0	1	0	0	0	9545	1261	44	2	529	2	MGAT4A	2	99256416	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	26894401	99256416	143942957	17	23529											
KIF5C	3800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	149851037	149851037	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctcagcgaagagctggcaAagctccgagcccagggtaaa	12	4	13	12	3	1	1	1	0	0	1	2	3	2	1	2	2	4	5	2	2	4	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	149851037	A	G	149851037	3	3	452	1	0	0	0	0	1	0	0	0	8307	15	1	3	1996	3	KIF5C	2	149851037	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	50594621	149851037	93348336	18	23530											
DCAF17	80067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	172291646	172291646	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattccaggtcacctatagcCtatgagagaggaagaatata	15	9	9	8	0	1	3	1	1	0	2	2	5	2	4	3	2	1	0	3	2	7	6	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	172291646	C	G	172291646	2	3	452	1	0	0	0	0	0	0	0	1	4269	668	24	4		4	DCAF17	2	172291646	Silent	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	22440609	172291646	70907727	19	23531											
DNAJC10	54431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	183616891	183616891	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtacactagattgtacAgttcatgagggactctgtaa	11	14	10	6	0	2	2	1	1	1	1	2	3	2	3	0	2	2	4	0	2	4	7	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	183616891	A	G	183616891	2	3	452	1	0	0	0	0	0	0	0	1	4629	175	7	3		3	DNAJC10	2	183616891	Silent	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	11325245	183616891	59582482	20	23532											
SRGAP3	9901	broad.mit.edu	37	chr3	9068661	9068661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagctctcgactacaagcgGtatagcttgtcctgaatcct	9	11	9	12	2	1	1	0	1	1	0	4	2	3	1	2	1	4	4	2	1	5	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	9068661	A	A	9068661	3	1	452	1	0	0	0	0	1	0	0	0	15148	1261	44	2	1781	2	SRGAP3	3	9068661	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		9068661	188953769	21	23533											
SCAP	22937	broad.mit.edu	37	chr3	47461081	47461099	+	Frame_Shift_Del	DEL	AGCCAGGGCTCCCTCACCC	-	-																															ccactaggcacgggcatgggAgccagggctccctcacccaa																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	AGCCAGGGCTCCCTCACCC	AGCCAGGGCTCCCTCACCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	47461099	-	-	47461081	7	5	452	1	0	1	0	1	0	0	0	0	13879	291	11	0	2206	0	SCAP	3	47461081	Frame_Shift_Del	DEL	AGCCAGGGCTCCCTCACCC	TCGA-CZ-5451-01A-01D-1501-10	38392420	47461081	150561349	22	23534											
DHX30	22907	broad.mit.edu;ucsc.edu	37	chr3	47887677	47887677	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtggagagttcatggaTcgccccagaactccggctgc	7	8	12	14	2	1	2	1	0	0	2	3	4	2	3	4	3	2	2	4	3	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	47887677	G	G	47887677	3	3	452	1	0	0	0	0	1	0	0	0	4504	1435	50	5	1160	5	DHX30	3	47887677	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	426596	47887677	150134753	23	23535											
CADPS	8618	broad.mit.edu;ucsc.edu	37	chr3	62388785	62388785	+	Nonsense_Mutation	SNP	G	A	A																															cctaattagtgttttcaactGataaatatgaagctgtaagt																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	62388785	A	A	62388785	4	1	452	1	0	0	0	0	0	1	0	0	2570	1299	45	2	216	2	CADPS	3	62388785	Nonsense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	14501108	62388785	135633645	24	23536	331	2									
CADPS	8618	broad.mit.edu;ucsc.edu	37	chr3	62388786	62388786	+	Silent	SNP	A	G	G																															ctaattagtgttttcaactgAtaaatatgaagctgtaagtc																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	62388786	G	G	62388786	2	3	452	1	0	0	0	0	0	0	0	1	2570	340	12	3		3	CADPS	3	62388786	Silent	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	1	62388786	135633644	25	23537	331	2									
AGTR1	185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	148459496	148459496	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaggccctaaagaaggCttatgaaattcagaagaaca	17	8	10	6	0	1	4	1	1	0	3	1	5	1	5	1	3	1	1	1	3	8	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	148459496	C	G	148459496	3	3	452	1	0	0	0	0	1	0	0	0	401	797	28	4	676	4	AGTR1	3	148459496	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	86070710	148459496	49562934	26	23538											
CHRNA9	55584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	40337469	40337469	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgactgagactttattataGaggctcaggaaaaagatgaa	16	10	10	5	0	1	5	1	3	0	3	1	7	1	6	0	2	0	1	0	2	6	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	40337469	G	C	40337469	5	2	452	1	0	0	0	0	0	0	1	0	3389	956	33	4		4	CHRNA9	4	40337469	Splice_Site	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		40337469	150816807	27	23539											
SCARB2	950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77100845	77100845	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaagtgcacctgggacCactctatgacagtctgcgga	10	8	13	10	1	2	2	0	2	2	0	2	5	2	5	2	3	2	1	2	3	2	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	77100845	C	A	77100845	3	1	452	1	0	0	0	0	1	0	0	0	13884	595	21	4	1035	4	SCARB2	4	77100845	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	36763376	77100845	114053431	28	23540											
RASGEF1C	255426	broad.mit.edu;ucsc.edu	37	chr5	179546418	179546418	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtcgatgaagaactcaaTcacctgggccctctgcttct	9	10	8	14	2	4	2	2	1	2	1	5	3	4	2	2	1	2	1	2	1	3	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	179546418	G	G	179546418	3	3	452	1	0	0	0	0	1	0	0	0	13073	1435	50	5	593	5	RASGEF1C	5	179546418	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10		179546418	1368842	29	23541											
ZNF187	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	28244851	28244851	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaacatcagagatatcAccacaaagacaaactggctt	16	10	5	10	0	3	2	3	0	0	2	3	3	3	2	1	1	2	1	1	1	4	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	28244851	A	C	28244851	3	2	452	1	0	0	0	0	1	0	0	0	17752	159	6	5	1427	5	ZNF187	6	28244851	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10		28244851	142870216	30	23542											
PDSS2	57107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	107655484	107655484	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgctttagagataaggaGcaccaccaagcccctcaact	13	7	8	13	0	1	1	1	0	0	1	1	3	1	2	4	1	5	3	4	1	4	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	107655484	G	A	107655484	3	1	452	1	0	0	0	0	1	0	0	0	11694	971	34	2	878	2	PDSS2	6	107655484	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	79410633	107655484	63459583	31	23543											
LAMA4	3910	broad.mit.edu;ucsc.edu	37	chr6	112441542	112441542	+	Missense_Mutation	SNP	G	T	T																															tctaatcttcagttttttgtGaccaacattaaacatgtaaa																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	112441542	T	T	112441542	3	4	452	1	0	0	0	0	1	0	0	0	8608	1290	45	4	890	4	LAMA4	6	112441542	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	4786058	112441542	58673525	32	23544	332	2									
LAMA4	3910	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	112441543	112441543	+	Silent	SNP	A	A	T																															ctaatcttcagttttttgtgAccaacattaaacatgtaaac																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	112441543	A	T	112441543	2	4	452	1	0	0	0	0	0	0	0	1	8608	262	10	5		5	LAMA4	6	112441543	Silent	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	1	112441543	58673524	33	23545	332	2									
CENPW	387103	broad.mit.edu;ucsc.edu	37	chr6	126669610	126669610	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttatttttttccctcttacAggtaattctaaagaagagca	12	16	5	8	0	2	2	0	0	2	2	3	2	3	2	1	1	2	2	1	1	6	8	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	126669610	G	G	126669610	5	3	452	1	0	0	0	0	0	0	1	0	3244	202	7	3	249	3	CENPW	6	126669610	Splice_Site	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	14228067	126669610	44445457	34	23546											
THSD7A	221981	broad.mit.edu;ucsc.edu	37	chr7	11446611	11446611	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgggcagggtttggactggtCcatcagggaagggcatggtc	7	9	18	7	0	1	0	1	0	0	0	3	2	2	2	1	7	0	3	1	7	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	11446611	G	G	11446611	3	3	452	1	0	0	0	0	1	0	0	0	15878	855	30	4	1017	4	THSD7A	7	11446611	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10		11446611	147692052	35	23547											
SH2B2	10603	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	101952119	101952119	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaatggagccgaatacaTcttggagaccatcgactctc	13	8	10	10	2	2	2	0	0	2	2	4	7	2	3	2	2	2	0	2	2	3	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	101952119	T	G	101952119	3	3	452	1	0	0	0	0	1	0	0	0	14230	1435	50	5	997	5	SH2B2	7	101952119	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	90505508	101952119	57186544	36	23548											
DOCK4	9732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	111379463	111379463	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactgacctctggcactcGatggagcagaacttgtcaca	10	8	11	12	1	2	2	1	1	1	1	3	4	2	3	1	3	2	3	1	3	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	111379463	G	T	111379463	4	4	452	1	0	0	0	0	0	1	0	0	4689	1059	37	4	840	4	DOCK4	7	111379463	Nonsense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	9427344	111379463	47759200	37	23549											
GCC1	79571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	127224747	127224747	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actggtcaaagtagccaactGagtcttcagctggtgcagtc	10	10	11	10	0	3	1	2	1	1	0	4	1	3	1	1	2	4	3	1	2	3	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	127224747	G	A	127224747	4	1	452	1	0	0	0	0	0	1	0	0	6285	1299	45	2	1845	2	GCC1	7	127224747	Nonsense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	15845284	127224747	31913916	38	23550											
MRPS33	51650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	140710230	140710230	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatcacctgtagagtccAagaaatcggagcgtctgcat	11	10	10	10	2	3	2	2	0	1	2	5	3	4	3	2	1	2	2	2	1	3	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	140710230	A	C	140710230	2	2	452	1	0	0	0	0	0	0	0	1	9842	117	5	5		5	MRPS33	7	140710230	Silent	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	13485483	140710230	18428433	39	23551											
PREX2	80243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	69009342	69009342	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caatgtccacctggaatatgGtgtcgtgtatgagtacgaca	11	11	11	8	2	0	1	0	1	0	0	2	3	1	2	2	2	1	2	2	2	5	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	69009342	G	C	69009342	3	2	452	1	0	0	0	0	1	0	0	0	12479	1261	44	4	2545	4	PREX2	8	69009342	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		69009342	77354680	40	23552											
RNF139	11236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125498660	125498660	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagtgttaatgtacatctTaaggatggcaaatgaaactg	15	12	9	5	0	1	1	0	1	1	0	1	2	1	2	0	2	3	3	0	2	6	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	125498660	T	G	125498660	4	3	452	1	0	0	0	0	0	1	0	0	13444	1764	61	5	776	5	RNF139	8	125498660	Nonsense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	56489318	125498660	20865362	41	23553											
KIAA1797	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	20990252	20990253	+	Frame_Shift_Ins	INS	-	-	G																															aatggcccggctgggccagtINSaccaagcttccttggcagga																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	20990253	-	G	20990252	7	5	452	1	0	1	1	0	0	0	0	0	8258	1638	57	0	5297	0	KIAA1797	9	20990252	Frame_Shift_Ins	INS	-	TCGA-CZ-5451-01A-01D-1501-10		20990252	120223179	42	23554											
LRRC8A	56262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	131669449	131669449	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttaggttgaaccatgatTccggtgacagagctccgcta	9	12	10	10	2	0	4	0	3	0	1	2	4	2	4	3	2	2	3	3	2	3	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	131669449	T	A	131669449	2	1	452	1	0	0	0	0	0	0	0	1	9021	1771	62	5		5	LRRC8A	9	131669449	Silent	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	110679197	131669449	9543982	43	23555											
KCNMA1	3778	broad.mit.edu	37	chr10	78709126	78709126	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagcttcacttcgagtcTacaacagggagaagtgggta	11	9	13	8	1	2	1	1	0	1	1	3	3	2	1	0	3	3	3	0	3	4	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	78709126	C	C	78709126	5	2	452	1	0	0	0	0	0	0	1	0	8073	1536	53	3	1284	3	KCNMA1	10	78709126	Splice_Site	SNP	T	TCGA-CZ-5451-01A-01D-1501-10		78709126	56825621	44	23556											
FAM35A	54537	broad.mit.edu;hgsc.bcm.edu	37	chr10	88930275	88930275	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtacttcaagacttactGgcatatgtgtcctcaaaaca	12	13	7	9	0	2	1	2	0	0	1	3	1	3	1	1	1	3	3	1	1	6	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	88930275	G	C	88930275	2	2	452	1	0	0	0	0	0	0	0	1	5553	1335	47	4		4	FAM35A	10	88930275	Silent	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	10221149	88930275	46604472	45	23557											
NHLRC2	374354	hgsc.bcm.edu;ucsc.edu	37	chr10	115636591	115636591	+	Frame_Shift_Del	DEL	A	A	-																															aaattggaataaaactctatAaagattctttgccaccttca																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	115636591	A	-	115636591	7	5	452	1	0	1	0	1	0	0	0	0	10406	363	13	0	653	0	NHLRC2	10	115636591	Frame_Shift_Del	DEL	A	TCGA-CZ-5451-01A-01D-1501-10	26706316	115636591	19898156	46	23558											
OR52J3	119679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5068347	5068347	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaaacattcgtatcaatGgtatctatgggctttttgta	10	16	10	5	1	2	0	1	0	1	0	3	1	2	1	0	3	1	4	0	3	6	7	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	5068347	G	A	5068347	3	1	452	1	0	0	0	0	1	0	0	0	11122	1348	47	2	594	2	OR52J3	11	5068347	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		5068347	129938169	47	23559											
F2	2147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46747604	46747604	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaagcaccaggacttcaActcagctgtgcagctggtgg	10	7	13	11	0	2	0	2	0	0	0	2	2	2	1	1	3	6	5	1	3	2	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	46747604	A	G	46747604	3	3	452	1	0	0	0	0	1	0	0	0	5342	43	2	3	781	3	F2	11	46747604	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	41679257	46747604	88258912	48	23560											
CPSF7	79869	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61183665	61183665	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtggggggaagaaggctgGattgaggtgaagggcaggtg	9	7	23	2	0	0	3	0	2	0	1	0	5	0	5	0	9	0	2	0	9	3	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	61183665	G	T	61183665	3	4	452	1	0	0	0	0	1	0	0	0	3830	1174	41	4	554	4	CPSF7	11	61183665	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	14436061	61183665	73822851	49	23561											
PYGM	5837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	64514199	64514199	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accccagatctcccgggcatActgggcaatggtgcggtcac	8	7	12	14	2	2	1	1	0	1	1	3	1	2	1	3	4	2	2	3	4	2	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	64514199	A	G	64514199	3	3	452	1	0	0	0	0	1	0	0	0	12864	391	14	3	71	3	PYGM	11	64514199	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	3330534	64514199	70492317	50	23562											
PDGFD	80310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	103797665	103797665	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatactttttcacggttttcCctgaattgcatgtgcaggac	8	15	9	9	1	1	1	1	1	0	0	2	3	2	2	1	2	3	3	1	2	2	6	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	103797665	C	A	103797665	3	1	452	1	0	0	0	0	1	0	0	0	11660	623	22	4	158	4	PDGFD	11	103797665	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	39283466	103797665	31208851	51	23563											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108201113	108201113	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgttccctctggcttgaaAattctggagtttctgaagtc	7	17	9	8	0	3	2	0	2	3	0	5	3	4	3	1	2	0	3	1	2	3	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	108201113	A	T	108201113	3	4	452	1	0	0	0	0	1	0	0	0	1109	14	1	5	7674	5	ATM	11	108201113	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	4403448	108201113	26805403	52	23564											
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	108203617	108203617	+	Frame_Shift_Del	DEL	G	G	-																															ttagatgccactcagtggaaGactcagagaagtatgttttt																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	108203617	G	-	108203617	7	5	452	1	0	1	0	1	0	0	0	0	1109	933	33	0	8123	0	ATM	11	108203617	Frame_Shift_Del	DEL	G	TCGA-CZ-5451-01A-01D-1501-10	2504	108203617	26802899	53	23565											
TNFRSF1A	7132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6439822	6439822	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacattaaaccaatgaagagGagggataaaaggcaaagacc	20	5	10	6	0	0	3	0	1	0	2	0	5	0	5	2	3	2	1	2	3	8	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	6439822	G	T	6439822	2	4	452	1	0	0	0	0	0	0	0	1	16292	1161	41	4		4	TNFRSF1A	12	6439822	Silent	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		6439822	127412073	54	23566											
OR6C68	403284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55886972	55886972	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtaaacattaataaaGgtgtgtcagtgcttatttca	15	13	9	4	0	2	1	2	0	0	1	2	1	2	1	0	2	2	2	0	2	7	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	55886972	G	C	55886972	3	2	452	1	0	0	0	0	1	0	0	0	11196	1000	35	4	828	4	OR6C68	12	55886972	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	49447150	55886972	77964923	55	23567											
OR6C4	341418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55945508	55945508	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgatgacccaggtagatttCtgtgtctccaacattctgaa	10	13	8	10	0	3	4	0	3	3	1	4	4	3	4	2	1	1	1	2	1	3	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	55945508	C	G	55945508	3	3	452	1	0	0	0	0	1	0	0	0	11193	912	32	4	500	4	OR6C4	12	55945508	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	58536	55945508	77906387	56	23568											
PWP1	11137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	108082496	108082496	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagagagcccctggaggatgGtgacccagaggatgacagga	13	4	16	8	0	0	4	0	2	0	2	0	9	0	8	3	5	1	0	3	5	1	0	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	108082496	G	A	108082496	3	1	452	1	0	0	0	0	1	0	0	0	12845	1261	44	2	246	2	PWP1	12	108082496	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	52136988	108082496	25769399	57	23569											
KNTC1	9735	hgsc.bcm.edu;ucsc.edu	37	chr12	123028814	123028814	+	Frame_Shift_Del	DEL	G	G	-																															gtgaagttcctgtgataattGgggtaattgtttttataaag																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	123028814	G	-	123028814	7	5	452	1	0	1	0	1	0	0	0	0	8428	1348	47	0	693	0	KNTC1	12	123028814	Frame_Shift_Del	DEL	G	TCGA-CZ-5451-01A-01D-1501-10	14946318	123028814	10823081	58	23570											
ANKLE2	23141	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133327385	133327385	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcgggaccctttgatcaTcttgacagcttgcaatgctt	10	13	8	10	1	2	2	1	2	1	0	3	3	2	3	1	1	3	3	1	1	2	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	133327385	T	A	133327385	3	1	452	1	0	0	0	0	1	0	0	0	633	1435	50	5	2169	5	ANKLE2	12	133327385	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	10298571	133327385	524510	59	23571											
PNN	5411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	39645318	39645318	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctggccctttctggtccTggtggaggtagaggacgtgg	4	12	17	8	1	1	1	0	0	1	1	2	3	2	3	2	7	1	2	2	7	1	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	39645318	T	C	39645318	2	2	452	1	0	0	0	0	0	0	0	1	12160	1567	55	3		3	PNN	14	39645318	Silent	SNP	T	TCGA-CZ-5451-01A-01D-1501-10		39645318	67704222	60	23572											
FBXO34	55030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55817639	55817639	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagcaggtgctaccaaccTgagccttttgcatgtggcat	10	10	10	11	0	0	1	0	1	0	0	0	1	0	1	3	2	7	4	3	2	3	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	55817639	T	G	55817639	2	3	452	1	0	0	0	0	0	0	0	1	5744	1567	55	5		5	FBXO34	14	55817639	Silent	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	16172321	55817639	51531901	61	23573											
DYNC1H1	1778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102446833	102446833	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagttctcctgactctggatAtcttgaaacatggcaagcgc	11	11	9	10	1	3	2	0	2	3	0	4	3	3	3	1	2	2	2	1	2	4	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	102446833	A	G	102446833	3	3	452	1	0	0	0	0	1	0	0	0	4841	449	16	3	925	3	DYNC1H1	14	102446833	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	46629194	102446833	4902707	62	23574											
ATP8B4	79895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	50168715	50168715	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccacgctgttctggtcactCacatcctgtaaacagagtgt	9	12	8	12	1	3	1	2	0	1	1	5	1	5	1	2	1	1	3	2	1	2	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	50168715	C	T	50168715	2	4	452	1	0	0	0	0	0	0	0	1	1197	813	29	2		2	ATP8B4	15	50168715	Silent	SNP	C	TCGA-CZ-5451-01A-01D-1501-10		50168715	52362677	63	23575											
LASS3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	101009686	101009686	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcataagaaaacatcttagCagactgcaaaaaagaaagaa	23	5	7	6	0	1	4	0	0	1	4	1	4	1	4	0	0	4	3	0	0	9	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	101009686	C	G	101009686	3	3	452	1	0	0	0	0	1	0	0	0	8640	710	25	4	421	4	LASS3	15	101009686	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	50840971	101009686	1521706	64	23576											
C16orf89	146556	broad.mit.edu	37	chr16	5115948	5115948	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggtcacacgctcagcacCctgagctctggccaagccca	8	6	10	17	1	3	1	2	1	1	0	3	1	3	1	3	2	3	4	3	2	1	0	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	5115948	G	G	5115948	3	3	452	1	0	0	0	0	1	0	0	0	1842	623	22	4	1413	4	C16orf89	16	5115948	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10		5115948	85238805	65	23577											
ABCC12	94160	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	48149472	48149472	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggtcggagtagacagcgcGggccaggctaatcctctgcc	8	6	14	13	4	1	1	0	0	1	1	3	2	2	2	3	4	2	2	3	4	2	2	rs146005796		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	48149472	G	A	48149472	3	1	452	1	0	0	0	0	1	0	0	0	52	1116	39	1	2304	1	ABCC12	16	48149472	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	43033524	48149472	42205281	66	23578											
CNOT1	23019	hgsc.bcm.edu;ucsc.edu	37	chr16	58555162	58555168	+	Frame_Shift_Del	DEL	AAGGTAA	AAGGTAA	-																															ggtttttaatcagctcaatgAaggtaataagaagaccccaa																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	AAGGTAA	AAGGTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	58555168	AAGGTAA	-	58555162	7	5	452	1	0	1	0	1	0	0	0	0	3617	246	9	0	161	0	CNOT1	16	58555162	Frame_Shift_Del	DEL	AAGGTAA	TCGA-CZ-5451-01A-01D-1501-10	10405690	58555162	31799591	67	23579											
TUBB3	10381	broad.mit.edu;ucsc.edu	37	chr16	89986049	89986049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgatcacctgcagctccaTgctgtccagcctctgcttcc	5	11	8	17	1	2	1	1	1	1	0	5	1	5	1	5	0	5	4	5	0	0	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	89986049	C	C	89986049	3	2	452	1	0	0	0	0	1	0	0	0	16756	1464	51	3		3	TUBB3	16	89986049	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	31430887	89986049	368704	68	23580											
TUBB3	10381	broad.mit.edu	37	chr16	89986131	89986131	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcactgcgctaccacagcatCgtgaccctgccgcgggcgcg	6	5	13	17	6	0	1	0	1	0	0	1	1	0	1	3	1	4	3	3	1	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	89986131	G	G	89986131	3	3	452	1	0	0	0	0	1	0	0	0	16756	874	31	4		4	TUBB3	16	89986131	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10	82	89986131	368622	69	23581											
TUSC5	286753	broad.mit.edu;ucsc.edu	37	chr17	1198861	1198861	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctcggctgctcagcattaCcctcatcatcatgggcatcg	7	10	10	14	2	4	0	4	0	0	0	6	0	4	0	1	3	3	5	1	3	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	1198861	G	G	1198861	3	3	452	1	0	0	0	0	1	0	0	0	16778	507	18	4	470	4	TUSC5	17	1198861	Missense_Mutation	SNP	C	TCGA-CZ-5451-01A-01D-1501-10		1198861	79996349	70	23582											
MYO1C	4641	hgsc.bcm.edu;ucsc.edu	37	chr17	1382903	1382903	+	Frame_Shift_Del	DEL	G	G	-																															caccctggtcagatacttgaGctggttctcggtggtgacct																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	1382903	G	-	1382903	7	5	452	1	0	1	0	1	0	0	0	0	10070	971	34	0	2288	0	MYO1C	17	1382903	Frame_Shift_Del	DEL	G	TCGA-CZ-5451-01A-01D-1501-10	184042	1382903	79812307	71	23583											
SLC5A10	125206	broad.mit.edu;ucsc.edu	37	chr17	18874338	18874338	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccagcttttgaccagaTcggtggttacgggcagctgg	6	10	13	12	2	0	2	0	1	0	1	2	2	1	2	3	4	3	4	3	4	1	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	18874338	C	C	18874338	3	2	452	1	0	0	0	0	1	0	0	0	14664	1435	50	3	683	3	SLC5A10	17	18874338	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	17491435	18874338	62320872	72	23584											
SLC47A2	146802	broad.mit.edu;ucsc.edu	37	chr17	19619790	19619790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtccacatctcagtcccaaAgcctctgggaaccagcctgc	10	7	8	16	0	2	0	1	0	2	0	5	1	4	1	5	1	4	0	5	1	2	0	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	19619790	G	G	19619790	3	3	452	1	0	0	0	0	1	0	0	0	14650	72	3	3	1797	3	SLC47A2	17	19619790	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	745452	19619790	61575420	73	23585											
RARA	5914	broad.mit.edu;ucsc.edu	37	chr17	38508320	38508320	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccagctgggcaaatacactAcggtatggctttcccccggc	8	8	11	14	2	0	0	0	0	0	0	1	0	1	0	3	4	3	4	3	4	4	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	38508320	G	G	38508320	3	3	452	1	0	0	0	0	1	0	0	0	13054	391	14	3	809	3	RARA	17	38508320	Missense_Mutation	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	18888530	38508320	42686890	74	23586											
WFIKKN2	124857	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48916926	48916926	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagctgcgtggcggcccgcTacatggacgtgaaagggaag	10	5	17	9	4	0	2	0	1	0	1	0	4	0	4	1	4	3	2	1	4	3	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	48916926	T	A	48916926	3	1	452	1	0	0	0	0	1	0	0	0	17358	1522	53	5	283	5	WFIKKN2	17	48916926	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	10408606	48916926	32278284	75	23587											
HELZ	9931	broad.mit.edu;ucsc.edu	37	chr17	65141857	65141857	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacaaaaagaattaaggtAcctctgcattattataaaaa	19	13	4	5	0	1	1	0	0	1	1	1	1	1	1	1	1	3	2	1	1	11	7	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	65141857	G	G	65141857	5	3	452	1	0	0	0	0	0	0	1	0	7049	405	14	3	3109	3	HELZ	17	65141857	Splice_Site	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	16224931	65141857	16053353	76	23588											
BAHCC1	57597	broad.mit.edu	37	chr17	79423404	79423404	+	Frame_Shift_Del	DEL	A	-	-																															gggtggcccagctgaaacccAaggtcaagagcaaagggctg																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	79423404	-	-	79423404	7	5	452	1	0	1	0	1	0	0	0	0	1296	131	5	0	4544	0	BAHCC1	17	79423404	Frame_Shift_Del	DEL	A	TCGA-CZ-5451-01A-01D-1501-10	14281547	79423404	1771806	77	23589											
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7042148	7042148	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcaagtacttaccattGtgtaagtcagaatggaggtc	13	12	10	6	0	2	2	2	1	0	1	3	3	2	3	1	2	2	2	1	2	6	4	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	7042148	G	A	7042148	2	1	452	1	0	0	0	0	0	0	0	1	8605	1368	48	2		2	LAMA1	18	7042148	Silent	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		7042148	71035100	78	23590											
ROCK1	6093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	18546995	18546995	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctctttgctggccaactGcatctgaagctcattcctat	8	14	6	13	0	3	1	1	1	2	0	5	1	4	1	2	1	4	3	2	1	3	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	18546995	G	A	18546995	4	1	452	1	0	0	0	0	0	1	0	0	13519	1328	46	2	857	2	ROCK1	18	18546995	Nonsense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	11504847	18546995	59530253	79	23591											
ESCO1	114799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	19119910	19119910	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggcatactttgggtcttcagGaagaaccattattatcctgc	10	13	9	9	0	2	1	1	0	1	1	3	2	3	2	2	3	3	1	2	3	5	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	19119910	G	A	19119910	3	1	452	1	0	0	0	0	1	0	0	0	5248	1174	41	2	524	2	ESCO1	18	19119910	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	572915	19119910	58957338	80	23592											
ONECUT2	9480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	55143848	55143848	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctggagctcacaaccGtcagcaacttcttcatgaac	10	9	9	13	1	4	1	3	1	1	0	4	2	4	2	2	2	5	2	2	2	3	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	55143848	G	A	55143848	3	1	452	1	0	0	0	0	1	0	0	0	10869	1145	40	1	1414	1	ONECUT2	18	55143848	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	36023938	55143848	22933400	81	23593											
SERPINB8	5271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61650927	61650927	+	Frame_Shift_Del	DEL	C	C	-																															gcaatttgacagaaagtacaCaaggggaatgctctttaaaa																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		-	61650927	C	-	61650927	7	5	452	1	0	1	0	1	0	0	0	0	14109	478	17	0	553	0	SERPINB8	18	61650927	Frame_Shift_Del	DEL	C	TCGA-CZ-5451-01A-01D-1501-10	6507079	61650927	16426321	82	23594											
IL27RA	9466	broad.mit.edu;ucsc.edu	37	chr19	14157347	14157347	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaccactggagcatgtagTggactgggctcgagatgggg	9	7	18	7	1	0	1	0	0	0	1	1	5	0	4	1	6	2	3	1	6	2	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	14157347	C	C	14157347	3	2	452	1	0	0	0	0	1	0	0	0	7681	1696	59	3	1088	3	IL27RA	19	14157347	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10		14157347	44971636	83	23595											
CPAMD8	27151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17115085	17115085	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagattctccaacttaccaTacttctgaacttcaaaagac	14	12	4	11	0	3	3	1	2	2	2	4	4	3	3	2	0	4	0	2	0	6	5	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	17115085	T	C	17115085	3	2	452	1	0	0	0	0	1	0	0	0	3795	1406	49	3	5126	3	CPAMD8	19	17115085	Missense_Mutation	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	2957738	17115085	42013898	84	23596											
VASP	7408	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46024608	46024608	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctccacccccagcactTcccacctggtcggtcccgaa	6	6	6	23	2	0	0	0	0	0	0	4	1	3	0	8	2	1	1	8	2	1	1	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		G	46024608	T	G	46024608	2	3	452	1	0	0	0	0	0	0	0	1	17127	1770	62	5		5	VASP	19	46024608	Silent	SNP	T	TCGA-CZ-5451-01A-01D-1501-10	28909523	46024608	13104375	85	23597											
DHDH	27294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49439432	49439433	+	Frame_Shift_Ins	INS	-	-	A																															ggtcgcggaggcccgatcccINSgagccctcttccttatggag																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	49439433	-	A	49439432	7	5	452	1	0	1	1	0	0	0	0	0	4479	644	23	0	356	0	DHDH	19	49439432	Frame_Shift_Ins	INS	-	TCGA-CZ-5451-01A-01D-1501-10	3414824	49439432	9689551	86	23598	333	2									
DHDH	27294	hgsc.bcm.edu	37	chr19	49439433	49439433	+	Missense_Mutation	SNP	G	G	A																															ggtcgcggaggcccgatcccGagccctcttccttatggagg																								novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		A	49439433	G	A	49439433	3	1	452	1	0	0	0	0	1	0	0	0	4479	1058	37	1	357	1	DHDH	19	49439433	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10	1	49439433	9689550	87	23599	333	2									
PCSK2	5126	broad.mit.edu;hgsc.bcm.edu	37	chr20	17417410	17417410	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgaggcctcctccatcaGtcatatgccacagctgattg	9	10	8	14	1	2	1	2	1	0	0	5	2	4	1	4	1	2	1	4	1	1	2	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		T	17417410	G	T	17417410	3	4	452	1	0	0	0	0	1	0	0	0	11601	1029	36	4	797	4	PCSK2	20	17417410	Missense_Mutation	SNP	G	TCGA-CZ-5451-01A-01D-1501-10		17417410	45608110	88	23600											
ITCH	83737	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33012330	33012330	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagatccaaggatgaaacaAggtaagcattcactgattgc	15	8	9	9	0	1	3	1	2	0	1	2	4	2	4	2	2	3	2	2	2	4	3	novel		TCGA-CZ-5451-01A-01D-1501-10	TCGA-CZ-5451-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b1923d68-1d1e-4b59-b643-09e2c5969efd	9929ec38-d099-46f7-bcb4-7f6262394788		C	33012330	A	C	33012330	2	2	452	1	0	0	0	0	0	0	0	1	7868	86	3	5		5	ITCH	20	33012330	Silent	SNP	A	TCGA-CZ-5451-01A-01D-1501-10	15594920	33012330	30013190	89	23601											
TRIM45	80263	broad.mit.edu	37	chr1	117661045	117661045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagccctccgagaatgtcCggacatcagctgccactgcc	8	8	10	15	2	1	1	1	0	0	1	3	3	3	2	5	1	4	2	5	1	2	1	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	117661045	T	T	117661045	3	4	453	1	0	0	0	0	1	0	0	0	16519	652	23	1	929	1	TRIM45	1	117661045	Missense_Mutation	SNP	C	TCGA-CZ-5452-01A-01D-1501-10		117661045	131589576	1	23602											
LYST	1130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	235971939	235971939	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaattatataatttccactGaacaactatattgcctttct	13	17	3	8	0	1	1	0	1	1	0	2	1	2	1	2	0	3	1	2	0	8	9	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	235971939	G	A	235971939	4	1	453	1	0	0	0	0	0	1	0	0	9128	1299	45	2	9422	2	LYST	1	235971939	Nonsense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	118310894	235971939	13278682	2	23603											
CEP170	9859	broad.mit.edu	37	chr1	243362432	243362432	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagctcttttttcatccacCtcatcatccccccaccatga	10	12	2	17	0	4	1	3	1	1	0	6	1	6	1	6	0	1	1	6	0	1	3	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	243362432	A	A	243362432	3	1	453	1	0	0	0	0	1	0	0	0	3250	680	24	4	4279	4	CEP170	1	243362432	Missense_Mutation	SNP	C	TCGA-CZ-5452-01A-01D-1501-10	7390493	243362432	5888189	3	23604											
NT5C1B	93034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	18765441	18765441	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacttttccagaccctcttgCtcgtagattttcctgccgtc	5	16	6	14	2	1	2	0	0	1	2	5	2	3	2	4	0	3	2	4	0	2	7	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	18765441	C	T	18765441	2	4	453	1	0	0	0	0	0	0	0	1	10686	796	28	2		2	NT5C1B	2	18765441	Silent	SNP	C	TCGA-CZ-5452-01A-01D-1501-10		18765441	224433932	4	23605											
RASGRP3	25780	hgsc.bcm.edu;ucsc.edu	37	chr2	33747059	33747059	+	Frame_Shift_Del	DEL	A	A	-																															tgagaagagtcacacagaggAaaaaagtatccaagaaggga																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		-	33747059	A	-	33747059	7	5	453	1	0	1	0	1	0	0	0	0	13078	247	9	0	424	0	RASGRP3	2	33747059	Frame_Shift_Del	DEL	A	TCGA-CZ-5452-01A-01D-1501-10	14981618	33747059	209452314	5	23606											
C2orf57	165100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	232458055	232458055	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagtcacctcctgggtaaAgacaagatgtcacaaatggc	14	7	9	11	0	2	2	2	0	0	2	3	2	3	2	3	2	0	1	3	2	5	1	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		C	232458055	A	C	232458055	3	2	453	1	0	0	0	0	1	0	0	0	2178	69	3	5	395	5	C2orf57	2	232458055	Missense_Mutation	SNP	A	TCGA-CZ-5452-01A-01D-1501-10	198710996	232458055	10741318	6	23607											
BAP1	8314	ucsc.edu	37	chr3	52438499	52438499	+	Frame_Shift_Del	DEL	T	T	-																															agttggtgttctgcacgtcaTcctcctcgtcatcctcatag																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	T	T	T	-	T	T	Unknown	Valid	Somatic	.	WXS	PGM	.	.	Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		-	52438499	T	-	52438499	7	5	453	1	0	1	0	1	0	0	0	0	1311	1435	50	0	993	0	BAP1	3	52438499	Frame_Shift_Del	DEL	T	TCGA-CZ-5452-01A-01D-1501-10		52438499	145583931	7	23608											
C3orf63	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	56667432	56667432	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcaaggagatgtttattGttgaagtcacttgaggaaac	12	12	12	5	0	2	3	2	2	0	1	2	5	2	4	0	3	1	3	0	3	4	5	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	56667432	G	T	56667432	3	4	453	1	0	0	0	0	1	0	0	0	2239	1368	48	4	1713	4	C3orf63	3	56667432	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	4228933	56667432	141354998	8	23609											
PRKCI	5584	broad.mit.edu	37	chr3	169940502	169940503	+	Frame_Shift_Del	DEL	AG	-	-																															accatgtcccacacggtcgcAggcggcggcagcggggacca																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		-	169940503	-	-	169940502	7	5	453	1	0	1	0	1	0	0	0	0	12516	175	7	0	47	0	PRKCI	3	169940502	Frame_Shift_Del	DEL	AG	TCGA-CZ-5452-01A-01D-1501-10	113273070	169940502	28081928	9	23610											
DRD5	1816	broad.mit.edu	37	chr4	9783962	9783962	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaggcagtcgccgaggtGgccggttactggccctttgg	5	9	17	10	3	0	0	0	0	0	0	1	2	0	1	3	7	1	2	3	7	2	2	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	9783962	T	T	9783962	2	4	453	1	0	0	0	0	0	0	0	1	4760	1335	47	4		4	DRD5	4	9783962	Silent	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		9783962	181370314	10	23611											
ATP10D	57205	hgsc.bcm.edu	37	chr4	47560001	47560001	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagagtccctccctggacaGccattggcctgcaacctgtg	7	8	11	15	0	0	1	0	0	0	1	2	2	2	2	5	2	3	2	5	2	1	1	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	47560001	G	A	47560001	2	1	453	1	0	0	0	0	0	0	0	1	1118	962	34	2		2	ATP10D	4	47560001	Silent	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	37776039	47560001	143594275	11	23612											
MOCS2	4338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	52404436	52404436	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtctctgaacgaactcctGttatttcagcactttttgca	8	16	7	10	1	2	1	1	1	1	0	4	2	3	1	1	1	4	3	1	1	3	4	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	52404436	G	A	52404436	3	1	453	1	0	0	0	0	1	0	0	0	9691	1377	48	2	721	2	MOCS2	5	52404436	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		52404436	128510824	12	23613											
PCDHGA5	56110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140745027	140745027	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgtacatgatggtgattctgGagaaaatggtgagattgcat	12	12	13	4	1	1	4	0	3	1	2	1	6	1	4	0	3	2	2	0	3	3	3	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	140745027	G	A	140745027	3	1	453	1	0	0	0	0	1	0	0	0	11557	1174	41	2	1132	2	PCDHGA5	5	140745027	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	88340591	140745027	40170233	13	23614											
FAM71B	153745	broad.mit.edu;ucsc.edu	37	chr5	156592756	156592756	+	Silent	SNP	G	A	A																															acggccagtggcgagtttcaGgcgcagctgctgtttctcat																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	156592756	A	A	156592756	2	1	453	1	0	0	0	0	0	0	0	1	5608	991	35	2		2	FAM71B	5	156592756	Silent	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	15847729	156592756	24322504	14	23615	334	2									
FAM71B	153745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	156592758	156592758	+	Missense_Mutation	SNP	C	C	T																															ggccagtggcgagtttcaggCgcagctgctgtttctcatga																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	156592758	C	T	156592758	3	4	453	1	0	0	0	0	1	0	0	0	5608	768	27	1	1403	1	FAM71B	5	156592758	Missense_Mutation	SNP	C	TCGA-CZ-5452-01A-01D-1501-10	2	156592758	24322502	15	23616	334	2									
BTBD9	114781	broad.mit.edu;ucsc.edu	37	chr6	38160335	38160335	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcccaacgatacggatgaagGaggcaggctgcctttcaaaa	13	7	11	10	2	1	1	1	1	0	0	2	4	2	3	2	4	3	2	2	4	5	2	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	38160335	T	T	38160335	3	4	453	1	0	0	0	0	1	0	0	0	1548	1174	41	4	245	4	BTBD9	6	38160335	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		38160335	132954732	16	23617											
LAMA2	3908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	129371227	129371227	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaatcaaaacagcagcaatCcaaaccgtatgtattttagt	16	10	6	9	1	1	0	1	0	0	0	2	0	2	0	2	0	4	5	2	0	8	4	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	129371227	C	A	129371227	3	1	453	1	0	0	0	0	1	0	0	0	8606	855	30	4	283	4	LAMA2	6	129371227	Missense_Mutation	SNP	C	TCGA-CZ-5452-01A-01D-1501-10	91210892	129371227	41743840	17	23618											
KIAA0415	0	broad.mit.edu;ucsc.edu	37	chr7	4830337	4830337	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgagtacctgtcggtgaccTacgatcggaggtgcaccgtg	7	8	15	11	5	0	1	0	1	0	0	2	4	0	2	3	3	3	2	3	3	2	2	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		C	4830337	C	C	4830337	3	2	453	1	0	0	0	0	1	0	0	0	8175	1522	53	3	2034	3	KIAA0415	7	4830337	Missense_Mutation	SNP	T	TCGA-CZ-5452-01A-01D-1501-10		4830337	154308326	18	23619											
PI15	51050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	75756222	75756222	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttttcccctacaggtttggGatgaaaatcttgcaaaatcg	11	14	8	8	1	1	1	0	1	1	0	3	2	2	2	2	2	2	2	2	2	5	5	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	75756222	G	T	75756222	3	4	453	1	0	0	0	0	1	0	0	0	11868	1174	41	4	286	4	PI15	8	75756222	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		75756222	70607800	19	23620											
ALDH1A1	216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	75555088	75555088	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctccttcttctacctggcaGagctcctcctcagttgcagg	5	13	8	15	0	4	1	1	0	3	1	7	1	6	1	4	2	3	4	4	2	1	4	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	75555088	G	A	75555088	2	1	453	1	0	0	0	0	0	0	0	1	490	929	33	2		2	ALDH1A1	9	75555088	Silent	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		75555088	65658343	20	23621											
HEPHL1	341208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	93836116	93836116	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatggaatatccctaaaaGatccggtccagggccttctg	11	10	10	10	1	1	2	0	0	1	2	4	3	4	3	4	3	0	0	4	3	5	4	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	93836116	G	T	93836116	3	4	453	1	0	0	0	0	1	0	0	0	7055	942	33	4	2670	4	HEPHL1	11	93836116	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		93836116	41170400	21	23622											
KITLG	4254	hgsc.bcm.edu;ucsc.edu	37	chr12	88939566	88939566	+	Frame_Shift_Del	DEL	T	T	-																															ttacattattagtcacacgaTtcctgcagatcccttcagtt																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		-	88939566	T	-	88939566	7	5	453	1	0	1	0	1	0	0	0	0	8330	1493	52	0	761	0	KITLG	12	88939566	Frame_Shift_Del	DEL	T	TCGA-CZ-5452-01A-01D-1501-10		88939566	44912329	22	23623											
RBM19	9904	hgsc.bcm.edu;ucsc.edu	37	chr12	114364876	114364877	+	Frame_Shift_Ins	INS	-	-	T																															acttccttcagcttctcttcINStgttgtgtcaaaattgagat																								novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	114364877	-	T	114364876	7	5	453	1	0	1	1	0	0	0	0	0	13123	922	32	0	687	0	RBM19	12	114364876	Frame_Shift_Ins	INS	-	TCGA-CZ-5452-01A-01D-1501-10	25425310	114364876	19487019	23	23624											
RALGAPA1	253959	broad.mit.edu;hgsc.bcm.edu	37	chr14	36143766	36143766	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagaggtaatcaaaaacttGagcatgtatttcaggatcca	16	10	8	7	0	2	2	2	1	0	1	3	3	3	3	1	2	2	3	1	2	4	4	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	36143766	G	A	36143766	4	1	453	1	0	0	0	0	0	1	0	0	13015	1299	45	2	3083	2	RALGAPA1	14	36143766	Nonsense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		36143766	71205774	24	23625											
IQGAP1	8826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91020913	91020913	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataggtcgaaggtagatcagAttcaagagattgtgacagga	15	9	13	4	1	2	4	2	1	0	3	3	7	2	5	0	3	0	1	0	3	4	4	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		C	91020913	A	C	91020913	3	2	453	1	0	0	0	0	1	0	0	0	7814	333	12	5	3223	5	IQGAP1	15	91020913	Missense_Mutation	SNP	A	TCGA-CZ-5452-01A-01D-1501-10		91020913	11510479	25	23626											
GPATCH8	23131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42476146	42476146	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtttcctctccactttcCttgactggatcttctccagt	5	17	6	13	0	3	1	0	1	3	0	7	2	5	2	4	2	0	1	4	2	1	5	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	42476146	C	A	42476146	3	1	453	1	0	0	0	0	1	0	0	0	6594	681	24	4	1213	4	GPATCH8	17	42476146	Missense_Mutation	SNP	C	TCGA-CZ-5452-01A-01D-1501-10		42476146	38719064	26	23627											
C3	718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6712358	6712358	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagactgcacagtgtcctcGccctggactgccacggggac	8	6	13	14	2	0	1	0	0	0	1	2	4	1	3	3	3	2	1	3	3	0	0	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	6712358	G	A	6712358	2	1	453	1	0	0	0	0	0	0	0	1	2204	1074	38	1		1	C3	19	6712358	Silent	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		6712358	52416625	27	23628											
LIPE	3991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	42912472	42912472	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatggccggatggcaggcgtGaactgtggagagacgcggct	9	6	18	8	4	0	2	0	1	0	1	0	5	0	4	1	6	1	2	1	6	2	0	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		C	42912472	G	C	42912472	3	2	453	1	0	0	0	0	1	0	0	0	8821	1281	45	4	1840	4	LIPE	19	42912472	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	36200114	42912472	16216511	28	23629											
PSG3	5671	broad.mit.edu	37	chr19	43234081	43234081	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accctgggactgaccgggagGctctgaccatttagccacca	9	7	11	14	1	1	2	0	2	1	0	1	4	1	4	5	3	1	1	5	3	1	2	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		C	43234081	C	C	43234081	3	2	453	1	0	0	0	0	1	0	0	0	12658	1194	42	4	461	4	PSG3	19	43234081	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	321609	43234081	15894902	29	23630											
PTOV1	53635	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50358311	50358311	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgactcgctcaaggggctcTgccgcatcatgggcaacggc	7	6	14	14	4	3	0	2	0	1	0	4	1	3	0	1	4	2	4	1	4	2	0	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		A	50358311	T	A	50358311	3	1	453	1	0	0	0	0	1	0	0	0	12771	1580	55	5	553	5	PTOV1	19	50358311	Missense_Mutation	SNP	T	TCGA-CZ-5452-01A-01D-1501-10	7124230	50358311	8770672	30	23631											
ZNF160	90338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53577475	53577475	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcacagtccagggctctttCccttcctccaacatggagat	8	12	7	14	0	2	1	1	0	1	1	6	2	6	1	4	2	1	1	4	2	1	3	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	53577475	C	T	53577475	2	4	453	1	0	0	0	0	0	0	0	1	17738	842	30	2		2	ZNF160	19	53577475	Silent	SNP	C	TCGA-CZ-5452-01A-01D-1501-10	3219164	53577475	5551508	31	23632											
NLRP8	126205	broad.mit.edu;ucsc.edu	37	chr19	56467043	56467043	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccacgtgaatatccagcGcctgatagcgagtcccagag	11	6	12	12	3	0	3	0	2	0	1	2	5	2	3	4	0	3	0	4	0	3	2	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	56467043	T	T	56467043	3	4	453	1	0	0	0	0	1	0	0	0	10483	1087	38	4	1629	4	NLRP8	19	56467043	Missense_Mutation	SNP	G	TCGA-CZ-5452-01A-01D-1501-10	2889568	56467043	2661940	32	23633											
ZNF543	125919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57838032	57838032	+	Nonsense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcaaaccagagctgatctaCcagttggatcacagacagga	14	8	9	10	0	3	3	2	1	1	2	3	5	3	5	2	2	3	2	2	2	2	3	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		G	57838032	C	G	57838032	4	3	453	1	0	0	0	0	0	1	0	0	17975	518	18	4	187	4	ZNF543	19	57838032	Nonsense_Mutation	SNP	C	TCGA-CZ-5452-01A-01D-1501-10	1370989	57838032	1290951	33	23634											
RRBP1	6238	broad.mit.edu;ucsc.edu	37	chr20	17641024	17641024	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatctccttgcgctggttGgctagggcttcttcatatga	5	14	11	11	1	3	1	1	1	2	0	4	1	3	1	2	3	1	4	2	3	2	6	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	17641024	T	T	17641024	2	4	453	1	0	0	0	0	0	0	0	1	13680	1335	47	4		4	RRBP1	20	17641024	Silent	SNP	G	TCGA-CZ-5452-01A-01D-1501-10		17641024	45384496	34	23635											
OTC	5009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	38262963	38262963	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatgagcgcagcgaaattCggaatgcaccttcaggcagc	12	7	12	10	3	1	2	1	2	0	0	2	4	1	3	1	2	4	3	1	2	2	2	novel		TCGA-CZ-5452-01A-01D-1501-10	TCGA-CZ-5452-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	96bd68cb-5d8e-4de1-88ca-5f30fbdde036	fdf88258-9b8a-434a-b396-df5242420b20		T	38262963	C	T	38262963	2	4	453	1	0	0	0	0	0	0	0	1	11301	883	31	1		1	OTC	23	38262963	Silent	SNP	C	TCGA-CZ-5452-01A-01D-1501-10		38262963	117007597	35	23636											
GALE	2582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	24124241	24124241	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagaacttggacttgcCgtaagggttggtacaaccac	12	9	12	8	1	0	2	0	1	0	1	0	4	0	3	2	3	4	3	2	3	5	5	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	24124241	C	G	24124241	3	3	454	1	0	0	0	0	1	0	0	0	6202	652	23	4	602	4	GALE	1	24124241	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10		24124241	225126380	1	23637											
RUNX3	864	broad.mit.edu	37	chr1	25229102	25229102	+	Frame_Shift_Del	DEL	G	-	-																															tccgtgagggttggcagcgtGgggaaggagcggtcaaactg																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	25229102	-	-	25229102	7	5	454	1	0	1	0	1	0	0	0	0	13751	1335	47	0	492	0	RUNX3	1	25229102	Frame_Shift_Del	DEL	G	TCGA-CZ-5453-01A-01D-1501-10	1104861	25229102	224021519	2	23638											
CLSPN	63967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36214086	36214086	+	Frame_Shift_Del	DEL	T	T	-																															tcctgctgtagggaaaaaacTggtcccacggcctgtttgtc																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	36214086	T	-	36214086	7	5	454	1	0	1	0	1	0	0	0	0	3560	1580	55	0	1679	0	CLSPN	1	36214086	Frame_Shift_Del	DEL	T	TCGA-CZ-5453-01A-01D-1501-10	10984984	36214086	213036535	3	23639											
KIAA0467	0	broad.mit.edu	37	chr1	43880873	43880873	+	Frame_Shift_Del	DEL	C	-	-																															tgctgcagcagcagtacgatCcccagagccaggtatgtaag																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	43880873	-	-	43880873	7	5	454	1	0	1	0	1	0	0	0	0	8178	870	30	0		0	KIAA0467	1	43880873	Frame_Shift_Del	DEL	C	TCGA-CZ-5453-01A-01D-1501-10	7666787	43880873	205369748	4	23640											
IPO13	9670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44422057	44422057	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaacaactgcggcaggCagtgcagaatggggacatgg	12	4	17	8	1	0	1	0	0	0	1	0	3	0	3	0	6	4	4	0	6	3	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	44422057	C	T	44422057	3	4	454	1	0	0	0	0	1	0	0	0	7794	710	25	2	897	2	IPO13	1	44422057	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	541184	44422057	204828564	5	23641											
OSBPL9	114883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	52249639	52249639	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagatacaattcaatgctcaTatctggaccaaatcaaaatt	18	11	4	8	0	4	1	3	0	1	1	4	2	4	2	1	1	2	1	1	1	8	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	52249639	T	A	52249639	3	1	454	1	0	0	0	0	1	0	0	0	11284	1403	49	5	1740	5	OSBPL9	1	52249639	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	7827582	52249639	197000982	6	23642											
POLR3C	10623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	145597524	145597524	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccccttacctctcctgtaCgacggactccagagtggctg	6	10	9	16	2	1	1	0	0	1	1	4	3	3	2	5	2	2	2	5	2	2	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	145597524	C	T	145597524	3	4	454	1	0	0	0	0	1	0	0	0	12230	536	19	1	568	1	POLR3C	1	145597524	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	93347885	145597524	103653097	7	23643											
PBXIP1	57326	broad.mit.edu;hgsc.bcm.edu	37	chr1	154920626	154920626	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgagaagaggaggaccCccaggccaagcagaaccagg	14	1	13	13	0	0	3	0	1	0	3	0	6	0	5	5	4	2	1	5	4	3	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	154920626	C	T	154920626	3	4	454	1	0	0	0	0	1	0	0	0	11496	623	22	2	1593	2	PBXIP1	1	154920626	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	9323102	154920626	94329995	8	23644											
FCGR3B	2215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161595993	161595993	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttttactcccaacaagcccCctgcagaagtaggagccgct	10	9	8	14	1	0	1	0	0	0	1	1	2	1	2	4	1	5	3	4	1	5	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	161595993	C	T	161595993	2	4	454	1	0	0	0	0	0	0	0	1	5785	622	22	2		2	FCGR3B	1	161595993	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	6675367	161595993	87654628	9	23645											
SLC30A10	55532	broad.mit.edu	37	chr1	220057507	220057507	+	RNA	DEL	C	-	-																															cagcttttttgttggctcctCccccagctgccagatctcca																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	220057507	-	-	220057507	6	5	454	0	1	1	0	1	0	0	0	0	14556	870	30	0		0	SLC30A10	1	220057507	RNA	DEL	C	TCGA-CZ-5453-01A-01D-1501-10	58461514	220057507	29193114	10	23646											
EPHX1	2052	broad.mit.edu;ucsc.edu	37	chr1	226030115	226030115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctgcctatattctagAgaagttttccacctggacca	9	13	8	11	0	2	1	0	0	2	1	3	3	3	2	4	2	1	2	4	2	4	6	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	226030115	G	G	226030115	3	3	454	1	0	0	0	0	1	0	0	0	5179	304	11	3	1002	3	EPHX1	1	226030115	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	5972608	226030115	23220506	11	23647											
HADHB	3032	broad.mit.edu;ucsc.edu	37	chr2	26502013	26502013	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttcccagctccctgcggTttctgagttctccaccagtg	4	13	8	16	1	2	1	0	1	2	0	5	1	4	1	5	1	2	3	5	1	0	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	26502013	C	C	26502013	3	2	454	1	0	0	0	0	1	0	0	0	6944	1725	60	3	671	3	HADHB	2	26502013	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10		26502013	216697360	12	23648											
CAD	790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	27456649	27456649	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaaagagcatcccgtggtCatctccaagttcatccagga	11	9	8	13	1	3	1	2	0	1	1	7	2	6	2	4	2	1	2	4	2	2	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	27456649	C	T	27456649	2	4	454	1	0	0	0	0	0	0	0	1	2565	813	29	2		2	CAD	2	27456649	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	954636	27456649	215742724	13	23649											
TANK	10010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	162091890	162091890	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctaatcaagacagtgactCggtggtactaagtggcacag	12	9	11	9	1	1	2	1	1	0	1	3	2	2	2	1	3	1	2	1	3	4	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	162091890	C	T	162091890	3	4	454	1	0	0	0	0	1	0	0	0	15545	893	31	1	1198	1	TANK	2	162091890	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	134635241	162091890	81107483	14	23650											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52677265	52677265	+	Frame_Shift_Del	DEL	G	G	-																															taaacactctttttctcaccGgtaatacttgctagtgggat																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	52677265	G	-	52677265	7	5	454	1	0	1	0	1	0	0	0	0	11491	1130	39	0	3994	0	PBRM1	3	52677265	Frame_Shift_Del	DEL	G	TCGA-CZ-5453-01A-01D-1501-10		52677265	145345165	15	23651											
SLMAP	7871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	57913033	57913033	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccacacagaaaccctggcCctggatgcccatgttggctg	8	9	10	14	0	0	1	0	0	0	1	1	2	1	2	4	3	2	2	4	3	1	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	57913033	C	G	57913033	3	3	454	1	0	0	0	0	1	0	0	0	14751	623	22	4	2436	4	SLMAP	3	57913033	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	5235768	57913033	140109397	16	23652											
SLC9A10	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	111923204	111923204	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatgtaattgctaactcgAatatgttccaggcatgtgaa	13	14	8	6	1	0	1	0	1	0	0	2	2	1	1	1	1	2	4	1	1	6	6	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	111923204	A	C	111923204	3	2	454	1	0	0	0	0	1	0	0	0	14712	246	9	5	1552	5	SLC9A10	3	111923204	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	54010171	111923204	86099226	17	23653											
COL6A6	131873	hgsc.bcm.edu;ucsc.edu	37	chr3	130394072	130394072	+	Frame_Shift_Del	DEL	C	C	-																															tcctggaccacttaaagctaCcctcaaagaagatgtattac																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	130394072	C	-	130394072	7	5	454	1	0	1	0	1	0	0	0	0	3703	507	18	0	6765	0	COL6A6	3	130394072	Frame_Shift_Del	DEL	C	TCGA-CZ-5453-01A-01D-1501-10	18470868	130394072	67628358	18	23654											
BOD1L	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	13601273	13601274	+	Frame_Shift_Del	DEL	AG	AG	-																															cttggatggccttgccctgcAgagggcttgtggactgatgg																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	13601274	AG	-	13601273	7	5	454	1	0	1	0	1	0	0	0	0	1483	175	7	0	1972	0	BOD1L	4	13601273	Frame_Shift_Del	DEL	AG	TCGA-CZ-5453-01A-01D-1501-10		13601273	177553003	19	23655											
TMPRSS11F	389208	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68995527	68995527	+	Splice_Site	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagaaaagctgaatacttaCgcgtacatcatgaacccagg	15	8	9	9	2	1	3	1	3	0	1	1	4	1	3	1	1	5	2	1	1	7	3	rs148740696	alternate_allele	TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	68995527	C	T	68995527	5	4	454	1	0	0	0	0	0	0	1	0	16242	550	19	1	1344	1	TMPRSS11F	4	68995527	Splice_Site	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	55394254	68995527	122158749	20	23656											
TSPAN5	10098	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	99407929	99407929	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcccgtagcgctccaatgCaccctgcaaatcccaaaatg	11	9	6	15	2	0	0	0	0	0	0	3	0	3	0	4	0	3	4	4	0	5	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	99407929	C	T	99407929	3	4	454	1	0	0	0	0	1	0	0	0	16649	710	25	2	591	2	TSPAN5	4	99407929	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	30412402	99407929	91746347	21	23657											
BRD9	65980	broad.mit.edu;hgsc.bcm.edu	37	chr5	891953	891953	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctttagaggcttctccagGggcttgtcggcataatctgc	7	12	12	10	1	2	1	0	0	2	1	4	1	2	1	1	4	2	4	1	4	2	5	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	891953	G	A	891953	2	1	454	1	0	0	0	0	0	0	0	1	1507	1219	43	2		2	BRD9	5	891953	Silent	SNP	G	TCGA-CZ-5453-01A-01D-1501-10		891953	180023307	22	23658											
NNT	23530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	43702815	43702815	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattgcaggcatgccagtcCttgaggtctggaaatcaaag	11	11	11	8	0	2	1	1	1	1	0	3	2	3	2	2	3	2	2	2	3	3	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	43702815	C	A	43702815	3	1	454	1	0	0	0	0	1	0	0	0	10510	681	24	4	3166	4	NNT	5	43702815	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	42810862	43702815	137212445	23	23659											
GPR98	84059	broad.mit.edu;hgsc.bcm.edu	37	chr5	90149227	90149227	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcgaattccagagaggctActggatgtccaggatgcaga	12	9	12	8	1	0	2	0	0	0	2	3	6	2	4	2	3	2	2	2	3	2	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	90149227	A	G	90149227	2	3	454	1	0	0	0	0	0	0	0	1	6721	378	14	3		3	GPR98	5	90149227	Silent	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	46446412	90149227	90766033	24	23660											
SLCO4C1	353189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	101592957	101592957	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacatgtcattctgaattttGaaacaaggaagccacctaaa	16	11	6	8	0	2	2	1	2	1	0	2	3	2	3	2	1	3	0	2	1	7	5	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	101592957	G	C	101592957	4	2	454	1	0	0	0	0	0	1	0	0	14732	1294	45	4	867	4	SLCO4C1	5	101592957	Nonsense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	11443730	101592957	79322303	25	23661											
REEP2	51308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137776732	137776732	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggcaccctgtacccagcCtattcttcctacaaggccgt	7	12	7	15	1	1	0	0	0	1	0	2	0	2	0	5	2	3	2	5	2	4	6	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	137776732	C	T	137776732	2	4	454	1	0	0	0	0	0	0	0	1	13207	668	24	2		2	REEP2	5	137776732	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	36183775	137776732	43138528	26	23662											
LARP1	23367	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	154181675	154181676	+	Frame_Shift_Del	DEL	TT	TT	-																															aagaggaactggattttctgTttgacgaggagatggagcag																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	154181676	TT	-	154181675	7	5	454	1	0	1	0	1	0	0	0	0	8628	1725	60	0	1636	0	LARP1	5	154181675	Frame_Shift_Del	DEL	TT	TCGA-CZ-5453-01A-01D-1501-10	16404943	154181675	26733585	27	23663											
STC2	8614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	172745139	172745139	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggtgcagaagctcaagAtggagcacaggcttccccag	11	5	13	12	1	1	2	1	0	0	2	2	4	2	3	3	3	3	4	3	3	2	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	172745139	A	G	172745139	3	3	454	1	0	0	0	0	1	0	0	0	15277	333	12	3	292	3	STC2	5	172745139	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	18563464	172745139	8170121	28	23664											
CPLX2	10814	broad.mit.edu	37	chr5	175306022	175306022	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggcagcaggaggaggagcGtaaggccaagcacgcgcgca	11	1	18	11	5	0	0	0	0	0	0	0	3	0	3	1	5	3	5	1	5	2	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	175306022	C	C	175306022	3	2	454	1	0	0	0	0	1	0	0	0	3805	1145	40	4	149	4	CPLX2	5	175306022	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	2560883	175306022	5609238	29	23665											
ZKSCAN3	80317	hgsc.bcm.edu	37	chr6	28327609	28327635	+	In_Frame_Del	DEL	GGAGCAGATCCTGGAGCTGCTGGTGCT	GGAGCAGATCCTGGAGCTGCTGGTGCT	-																															cagcctgagatgcacagcaaGgagcagatcctggagctgct																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	GGAGCAGATCCTGGAGCTGCTGGTGCT	GGAGCAGATCCTGGAGCTGCTGGTGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	28327635	GGAGCAGATCCTGGAGCTGCTGGTGCT	-	28327609	7	5	454	1	0	1	0	1	0	0	0	0	17687	991	35	0	248	0	ZKSCAN3	6	28327609	In_Frame_Del	DEL	GGAGCAGATCCTGGAGCTGCTGGTGCT	TCGA-CZ-5453-01A-01D-1501-10		28327609	142787458	30	23666											
SNX8	29886	broad.mit.edu;ucsc.edu	37	chr7	2314823	2314823	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcatctcctggaagacCacgaagtcattgtaccgtct	11	9	10	11	2	3	1	1	0	2	1	4	4	3	3	3	2	2	2	3	2	3	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	2314823	T	T	2314823	2	4	454	1	0	0	0	0	0	0	0	1	14910	581	21	2		2	SNX8	7	2314823	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10		2314823	156823840	31	23667											
USP42	84132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6154957	6154957	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgtttatttttctagcccTaggtgatggcatcgctcctc	5	17	8	11	1	1	1	0	1	1	0	4	1	2	1	2	2	1	3	2	2	3	7	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	6154957	T	C	6154957	3	2	454	1	0	0	0	0	1	0	0	0	17072	1522	53	3	251	3	USP42	7	6154957	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	3840134	6154957	152983706	32	23668											
DLX6	1750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	96639202	96639202	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccccctccagggctcggCggccctgtcgccacgctcgc	3	5	12	21	6	0	0	0	0	0	0	4	1	1	0	5	3	0	2	5	3	0	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	96639202	C	T	96639202	3	4	454	1	0	0	0	0	1	0	0	0	4575	768	27	1	735	1	DLX6	7	96639202	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	90484245	96639202	62499461	33	23669											
POT1	25913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	124503402	124503402	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagtattaaaaaatatgtAcctttagaagaaatgatgct	17	12	6	6	0	0	3	0	1	0	2	0	3	0	3	2	0	2	3	2	0	9	6	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	124503402	A	T	124503402	5	4	454	1	0	0	0	0	0	0	1	0	12260	405	14	5	1404	5	POT1	7	124503402	Splice_Site	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	27864200	124503402	34635261	34	23670											
AKR1B1	231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134143812	134143812	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcaggagacggcttgcCatggctgctgcgctccccag	6	8	14	13	2	0	2	0	1	0	1	1	3	1	2	3	3	4	5	3	3	0	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	134143812	C	T	134143812	3	4	454	1	0	0	0	0	1	0	0	0	466	594	21	2	987	2	AKR1B1	7	134143812	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	9640410	134143812	24994851	35	23671											
EIF2C2	27161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141545588	141545588	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgccagcgtgactacaCaggtagaagtcgaactcggt	11	8	13	9	3	0	2	0	1	0	1	2	4	0	3	1	3	4	1	1	3	4	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	141545588	C	A	141545588	2	1	454	1	0	0	0	0	0	0	0	1	5006	465	17	4		4	EIF2C2	8	141545588	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10		141545588	4818434	36	23672											
MELK	9833	broad.mit.edu	37	chr9	36665415	36665415	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccagccttatgcagaacAcctgcaaataaattaaagaa	18	8	5	10	0	0	2	0	0	0	2	1	2	1	2	3	0	4	2	3	0	8	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	36665415	G	G	36665415	2	3	454	1	0	0	0	0	0	0	0	1	9470	146	6	3		3	MELK	9	36665415	Silent	SNP	A	TCGA-CZ-5453-01A-01D-1501-10		36665415	104548016	37	23673											
VPS13A	23230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79936445	79936445	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggatcttcagctgacttCgtaaaggatctagcaccatt	11	12	8	10	1	3	1	1	1	2	0	4	3	3	3	1	2	2	3	1	2	3	5	rs139782359		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	79936445	C	T	79936445	2	4	454	1	0	0	0	0	0	0	0	1	17188	883	31	1		1	VPS13A	9	79936445	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	43271030	79936445	61276986	38	23674											
CACNB2	783	hgsc.bcm.edu	37	chr10	18827236	18827237	+	Frame_Shift_Ins	INS	-	-	C																															ctccccaaccctctccttagINSccgtacattagccacttcaa																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	18827237	-	C	18827236	7	5	454	1	0	1	1	0	0	0	0	0	2553	971	34	0	1790	0	CACNB2	10	18827236	Frame_Shift_Ins	INS	-	TCGA-CZ-5453-01A-01D-1501-10		18827236	116707511	39	23675											
CCAR1	55749	broad.mit.edu;ucsc.edu	37	chr10	70502139	70502139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttgttttatagccagctGttgcactgcctacaagcctt	8	16	7	10	0	0	0	0	0	0	0	0	0	0	0	3	0	6	4	3	0	4	8	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	70502139	T	T	70502139	3	4	454	1	0	0	0	0	1	0	0	0	2730	1377	48	4	349	4	CCAR1	10	70502139	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	51674903	70502139	65032608	40	23676											
CAMK2G	818	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75574945	75574945	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcacgctgcgtcctccccaAtcacgtggacgtgtgggttt	5	11	12	13	4	1	0	1	0	0	0	3	1	3	1	3	2	2	3	3	2	1	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	75574945	A	G	75574945	3	3	454	1	0	0	0	0	1	0	0	0	2602	101	4	3	175	3	CAMK2G	10	75574945	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	5072806	75574945	59959802	41	23677											
ATE1	11101	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	123683801	123683801	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcgccatcctcggtctatGagatcctgataatcctgtac	8	13	7	13	2	1	2	0	2	1	1	6	3	4	2	4	1	1	1	4	1	3	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	123683801	G	A	123683801	2	1	454	1	0	0	0	0	0	0	0	1	1078	1277	45	2		2	ATE1	10	123683801	Silent	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	48108856	123683801	11850946	42	23678											
GPR26	2849	broad.mit.edu;ucsc.edu	37	chr10	125447555	125447555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgtgtactccttactgcGacaccagtaccgcaaaagct	10	11	7	13	2	0	0	0	0	0	0	1	1	1	0	3	0	5	4	3	0	5	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	125447555	A	A	125447555	3	1	454	1	0	0	0	0	1	0	0	0	6684	1058	37	1	903	1	GPR26	10	125447555	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	1763754	125447555	10087192	43	23679											
ZRANB1	54764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	126662823	126662823	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggaattggctacacgttTggacagtcgactgtatgcac	9	12	11	9	2	0	0	0	0	0	0	1	3	0	2	0	3	2	4	0	3	3	5	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	126662823	T	C	126662823	3	2	454	1	0	0	0	0	1	0	0	0	18221	1821	63	3	1301	3	ZRANB1	10	126662823	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	1215268	126662823	8871924	44	23680											
CDHR5	53841	hgsc.bcm.edu	37	chr11	618106	618106	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcttgtcctccgaggggcCgccacctggcatcgcagtgg	4	7	15	15	4	0	0	0	0	0	0	3	1	2	0	5	4	0	3	5	4	0	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	618106	C	T	618106	3	4	454	1	0	0	0	0	1	0	0	0	3122	652	23	1	579	1	CDHR5	11	618106	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10		618106	134388410	45	23681											
LSP1	4046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1908764	1908764	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcatgggaagtatgagaagGtgcttgtggaagggggcccg	9	7	20	5	1	0	1	0	1	0	1	0	4	0	3	1	6	1	3	1	6	4	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	1908764	G	T	1908764	3	4	454	1	0	0	0	0	1	0	0	0	9063	1261	44	4	1029	4	LSP1	11	1908764	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	1290658	1908764	133097752	46	23682											
ACP2	53	hgsc.bcm.edu;ucsc.edu	37	chr11	47267291	47267291	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgccacgagatgttcgggTtgaagcgctgcatcccgttg	6	10	14	11	4	0	2	0	1	0	1	2	3	1	2	2	1	3	6	2	1	1	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	47267291	T	A	47267291	3	1	454	1	0	0	0	0	1	0	0	0	163	1725	60	5	944	5	ACP2	11	47267291	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	45358527	47267291	87739225	47	23683											
TMEM133	83935	broad.mit.edu;ucsc.edu	37	chr11	100863191	100863191	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctatttaactttgcctcctAcccttttttgttaccttcca	6	19	3	13	0	0	0	0	0	0	0	2	0	2	0	5	0	4	2	5	0	4	10	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	100863191	G	G	100863191	3	3	454	1	0	0	0	0	1	0	0	0	16048	391	14	3	154	3	TMEM133	11	100863191	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	53595900	100863191	34143325	48	23684											
ANKK1	255239	broad.mit.edu	37	chr11	113270770	113270770	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccgcaacaaggtgggctgGacacccgcccacctggccgc	7	3	13	18	3	0	0	0	0	0	0	0	1	0	1	5	4	1	2	5	4	2	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	113270770	T	T	113270770	3	4	454	1	0	0	0	0	1	0	0	0	631	1183	41	4	2109	4	ANKK1	11	113270770	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	12407579	113270770	21735746	49	23685											
SLC15A4	121260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	129293991	129293991	+	Missense_Mutation	SNP	G	G	A																															ttctggaatcctcaaatgaaGactctgtaaaacatatgttg																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	129293991	G	A	129293991	3	1	454	1	0	0	0	0	1	0	0	0	14403	942	33	2	714	2	SLC15A4	12	129293991	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10		129293991	4557904	50	23686	335	2									
SLC15A4	121260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	129293993	129293993	+	Missense_Mutation	SNP	C	C	A																															ctggaatcctcaaatgaagaCtctgtaaaacatatgttgtc																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	129293993	C	A	129293993	3	1	454	1	0	0	0	0	1	0	0	0	14403	565	20	4	716	4	SLC15A4	12	129293993	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	2	129293993	4557902	51	23687	335	2									
ZMYM2	7750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20638656	20638656	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tttttggcgaagaatatgagGaacagcccagacctcgatct	12	10	10	9	2	1	3	0	1	1	2	2	6	1	4	2	2	2	0	2	2	4	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	20638656	G	C	20638656	3	2	454	1	0	0	0	0	1	0	0	0	17699	1175	41	4	3169	4	ZMYM2	13	20638656	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10		20638656	94531222	52	23688											
SLC46A3	283537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	29275084	29275084	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgactatcaatagcagcTtaacaggctctataaaataa	16	10	5	10	1	2	0	1	0	1	0	3	1	3	0	1	1	3	3	1	1	8	6	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	29275084	T	G	29275084	3	3	454	1	0	0	0	0	1	0	0	0	14648	1616	56	5	3	5	SLC46A3	13	29275084	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	8636428	29275084	85894794	53	23689											
SLITRK5	26050	broad.mit.edu;ucsc.edu	37	chr13	88329235	88329235	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctctggcttgaccctccTcaggctaaacctgaggagta	8	11	9	13	0	2	2	1	2	1	0	4	3	3	3	3	3	1	3	3	3	3	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	88329235	C	C	88329235	3	2	454	1	0	0	0	0	1	0	0	0	14748	1551	54	3	1594	3	SLITRK5	13	88329235	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	59054151	88329235	26840643	54	23690											
DNAJC3	5611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	96361504	96361504	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaatgtggagtaaatgcaGatgttgagaaacatcttgaa	15	11	11	4	0	1	4	0	3	1	2	1	6	1	5	0	1	2	3	0	1	5	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	96361504	G	A	96361504	3	1	454	1	0	0	0	0	1	0	0	0	4647	942	33	2	112	2	DNAJC3	13	96361504	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	8032269	96361504	18808374	55	23691											
ATP11A	23250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	113464970	113464970	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgacataaagcagacaatgCcatgaaccagtgtcctgttc	13	9	8	11	1	0	2	0	1	0	1	3	3	1	2	3	0	3	2	3	0	4	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	113464970	C	T	113464970	3	4	454	1	0	0	0	0	1	0	0	0	1119	739	26	2	389	2	ATP11A	13	113464970	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	17103466	113464970	1704908	56	23692											
POLE2	5427	broad.mit.edu;ucsc.edu	37	chr14	50136257	50136257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaacctggaatttgcttccGctttcatcagggtgagaacc	9	12	9	11	1	2	1	2	1	0	1	3	3	3	2	3	2	3	2	3	2	3	4	rs139370609	bycluster;byfrequency;by1000genomes	TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	50136257	A	A	50136257	2	1	454	1	0	0	0	0	0	0	0	1	12197	1078	38	1		1	POLE2	14	50136257	Silent	SNP	G	TCGA-CZ-5453-01A-01D-1501-10		50136257	57213283	57	23693											
C14orf43	0	broad.mit.edu	37	chr14	74205845	74205845	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtggcccagctggctgcagGccaaagtcctggggttgctg	6	8	16	11	0	0	0	0	0	0	0	1	0	1	0	3	5	3	5	3	5	1	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	74205845	A	A	74205845	2	1	454	1	0	0	0	0	0	0	0	1	1774	1190	42	2		2	C14orf43	14	74205845	Silent	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	24069588	74205845	33143695	58	23694											
ZSCAN29	146050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43661269	43661269	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaataactcttgtgatgaTttcgggggtgtcatcttctc	7	17	9	8	1	4	2	1	2	3	0	6	2	4	2	0	2	1	0	0	2	2	5	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	43661269	T	C	43661269	2	2	454	1	0	0	0	0	0	0	0	1	18235	1490	52	3		3	ZSCAN29	15	43661269	Silent	SNP	T	TCGA-CZ-5453-01A-01D-1501-10		43661269	58870123	59	23695											
CORO2B	10391	broad.mit.edu;hgsc.bcm.edu	37	chr15	69003112	69003112	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggcgggctgaagcggaaCatgacggaggcgctcctgga	9	4	19	9	4	0	2	0	2	0	0	1	6	1	5	1	6	2	2	1	6	2	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	69003112	C	T	69003112	2	4	454	1	0	0	0	0	0	0	0	1	3757	477	17	2		2	CORO2B	15	69003112	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	25341843	69003112	33528280	60	23696											
KIAA1024	23251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	79748707	79748707	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaagatgaaatgcactgTgaataaccagcaatcaaaga	20	6	8	7	0	1	5	1	2	0	3	1	5	1	5	1	0	3	2	1	0	6	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	79748707	T	A	79748707	3	1	454	1	0	0	0	0	1	0	0	0	8205	1696	59	5	220	5	KIAA1024	15	79748707	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	10745595	79748707	22782685	61	23697											
SEMA4B	10509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90768565	90768565	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcccccgggtgcacatcaTtgaggagctgcagatcttct	7	9	13	12	1	3	2	1	1	2	1	3	3	3	3	2	3	3	3	2	3	0	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	90768565	T	A	90768565	3	1	454	1	0	0	0	0	1	0	0	0	14034	1493	52	5	1499	5	SEMA4B	15	90768565	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	11019858	90768565	11762827	62	23698											
PIGQ	9091	hgsc.bcm.edu	37	chr16	633353	633353	+	Missense_Mutation	SNP	T	T	C																															actgccccatgcccaccctgTgtacccaggtccagagggtc																								rs71391136	alternate_allele	TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	633353	T	C	633353	3	2	454	1	0	0	0	0	1	0	0	0	11896	1696	59	3	2102	3	PIGQ	16	633353	Missense_Mutation	SNP	T	TCGA-CZ-5453-01A-01D-1501-10		633353	89721400	63	23699	336	2									
PIGQ	9091	hgsc.bcm.edu	37	chr16	633354	633354	+	Missense_Mutation	SNP	G	G	A																															ctgccccatgcccaccctgtGtacccaggtccagagggtcc																								rs710925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	633354	G	A	633354	3	1	454	1	0	0	0	0	1	0	0	0	11896	1377	48	2	2103	2	PIGQ	16	633354	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	1	633354	89721399	64	23700	336	2									
HIRIP3	8479	broad.mit.edu;hgsc.bcm.edu	37	chr16	30006455	30006455	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaagcggaacctttttctCtccgggtcgctacaaggggt	7	12	12	10	3	1	1	0	1	1	0	4	2	2	2	2	4	3	1	2	4	4	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	30006455	C	T	30006455	2	4	454	1	0	0	0	0	0	0	0	1	7121	912	32	2		2	HIRIP3	16	30006455	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	29373101	30006455	60348298	65	23701											
PAPD5	64282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	50261849	50261849	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtatccttggagtcctctCaggcagttgggaaaatgcaa	11	11	11	8	0	1	0	1	0	1	0	4	2	3	2	2	3	1	4	2	3	4	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	50261849	C	T	50261849	4	4	454	1	0	0	0	0	0	1	0	0	11425	827	29	2	1901	2	PAPD5	16	50261849	Nonsense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	20255394	50261849	40092904	66	23702											
RSPRY1	89970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57265167	57265167	+	Frame_Shift_Del	DEL	A	A	-																															cattcaaatacccaccatctAtgaaatttagcacttttaat																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	57265167	A	-	57265167	7	5	454	1	0	1	0	1	0	0	0	0	13715	449	16	0	1511	0	RSPRY1	16	57265167	Frame_Shift_Del	DEL	A	TCGA-CZ-5453-01A-01D-1501-10	7003318	57265167	33089586	67	23703											
SLC7A6	9057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	68328656	68328656	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctaccggaccttctgtcCatgatccacattgagcgttt	8	12	7	14	2	1	2	0	2	1	0	3	3	3	3	5	1	2	1	5	1	1	4	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	68328656	C	A	68328656	2	1	454	1	0	0	0	0	0	0	0	1	14703	581	21	4		4	SLC7A6	16	68328656	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	11063489	68328656	22026097	68	23704											
RUNDC3A	10900	hgsc.bcm.edu	37	chr17	42393884	42393884	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccagcaactccaagctctAccggaggtaagccccagcca	11	4	9	17	2	1	0	0	0	1	0	2	1	2	1	6	2	6	3	6	2	4	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	42393884	A	T	42393884	3	4	454	1	0	0	0	0	1	0	0	0	13746	391	14	5	1119	5	RUNDC3A	17	42393884	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10		42393884	38801326	69	23705											
AMZ2	51321	broad.mit.edu;hgsc.bcm.edu	37	chr17	66251944	66251944	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagaagctgaccggcgccCtctaaacctttgccctatct	9	9	9	14	2	2	2	0	1	2	1	2	3	2	3	4	2	3	1	4	2	5	3	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	66251944	C	A	66251944	3	1	454	1	0	0	0	0	1	0	0	0	597	681	24	4	872	4	AMZ2	17	66251944	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	23858060	66251944	14943266	70	23706											
FN3K	64122	broad.mit.edu;ucsc.edu	37	chr17	80706748	80706748	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtgaatgagtggcaggaTgactggccgacctttttcgc	8	10	14	9	2	0	3	0	3	0	0	1	5	0	4	2	4	0	1	2	4	1	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	80706748	C	C	80706748	2	2	454	1	0	0	0	0	0	0	0	1	5963	1461	51	3		3	FN3K	17	80706748	Silent	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	14454804	80706748	488462	71	23707											
PSTPIP2	9050	broad.mit.edu;hgsc.bcm.edu	37	chr18	43572169	43572169	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcggacttgttcgtacatCtaataaaaaaaggtcaatta	15	14	6	6	2	2	0	1	0	1	0	4	1	2	1	0	2	1	2	0	2	8	7	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	43572169	C	A	43572169	5	1	454	1	0	0	0	0	0	0	1	0	12724	927	32	4	279	4	PSTPIP2	18	43572169	Splice_Site	SNP	C	TCGA-CZ-5453-01A-01D-1501-10		43572169	34505079	72	23708											
ZNF236	7776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	74620408	74620408	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgacgagctgccgcagacGgcagaggtggtcgcagcgaa	10	3	17	11	6	0	2	0	0	0	2	1	5	0	2	1	3	4	4	1	3	1	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	74620408	G	A	74620408	2	1	454	1	0	0	0	0	0	0	0	1	17788	1103	39	1		1	ZNF236	18	74620408	Silent	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	31048239	74620408	3456840	73	23709											
MRPL54	116541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	3765311	3765311	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtacccctgaaaccggAtgctgagtaccctgaatggt	10	9	12	10	1	0	3	0	3	0	0	0	5	0	5	4	3	4	3	4	3	4	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	3765311	A	T	3765311	3	4	454	1	0	0	0	0	1	0	0	0	9818	333	12	5	272	5	MRPL54	19	3765311	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10		3765311	55363672	74	23710											
SMARCA4	6597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	11113809	11113809	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccaaagccgggcagctGgaggcctggctcgagatgaa	9	4	15	13	2	0	2	0	1	0	1	1	4	0	3	4	4	2	3	4	4	2	0	rs187681043	by1000genomes;alternate_allele	TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	11113809	G	T	11113809	2	4	454	1	0	0	0	0	0	0	0	1	14772	1335	47	4		4	SMARCA4	19	11113809	Silent	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	7348498	11113809	48015174	75	23711											
BRD4	23476	hgsc.bcm.edu;ucsc.edu	37	chr19	15376312	15376314	+	In_Frame_Del	DEL	GAC	GAC	-																															actgtcatgacaggggtctgGacgatgaggtccggggtgac																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	GAC	GAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	15376314	GAC	-	15376312	7	5	454	1	0	1	0	1	0	0	0	0	1504	1161	41	0	3465	0	BRD4	19	15376312	In_Frame_Del	DEL	GAC	TCGA-CZ-5453-01A-01D-1501-10	4262503	15376312	43752671	76	23712	337	2									
BRD4	23476	hgsc.bcm.edu	37	chr19	15376316	15376316	+	Missense_Mutation	SNP	A	A	T																															tcatgacaggggtctggacgAtgaggtccggggtgacggca																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	15376316	A	T	15376316	3	4	454	1	0	0	0	0	1	0	0	0	1504	333	12	5	3469	5	BRD4	19	15376316	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	4	15376316	43752667	77	23713	337	2									
OR10H3	26532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15852604	15852604	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccacccactgcattacaaCatgctaatgagtccccgtgg	10	9	8	14	1	0	1	0	1	0	0	1	1	1	1	4	1	5	2	4	1	3	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	15852604	C	T	15852604	2	4	454	1	0	0	0	0	0	0	0	1	10907	477	17	2		2	OR10H3	19	15852604	Silent	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	476288	15852604	43276379	78	23714											
OCEL1	79629	broad.mit.edu;hgsc.bcm.edu	37	chr19	17338790	17338790	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctggaggccctgctgagCtccctgcccccaccccaaag	7	5	10	19	0	0	1	0	1	0	0	1	2	1	2	6	2	4	3	6	2	1	0	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	17338790	C	G	17338790	3	3	454	1	0	0	0	0	1	0	0	0	10816	796	28	4	608	4	OCEL1	19	17338790	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	1486186	17338790	41790193	79	23715											
PDCD2L	84306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	34904640	34904640	+	Splice_Site	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttttctgcttctgtttttAgccttcctaatgatggtgat	5	21	8	7	0	2	2	0	2	2	0	3	2	3	2	2	1	2	3	2	1	2	8	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	34904640	A	C	34904640	5	2	454	1	0	0	0	0	0	0	1	0	11620	434	15	5	703	5	PDCD2L	19	34904640	Splice_Site	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	17565850	34904640	24224343	80	23716											
FOSB	2354	broad.mit.edu	37	chr19	45974531	45974531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctaaatgcaggaaccggcGgagggagctgaccgaccgac	12	3	15	11	4	0	1	0	1	0	0	0	6	0	4	3	4	4	3	3	4	3	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	45974531	A	A	45974531	3	1	454	1	0	0	0	0	1	0	0	0	5986	1116	39	1	537	1	FOSB	19	45974531	Missense_Mutation	SNP	G	TCGA-CZ-5453-01A-01D-1501-10	11069891	45974531	13154452	81	23717											
CCDC9	26093	broad.mit.edu	37	chr19	47763878	47763878	+	Frame_Shift_Del	DEL	G	-	-																															gtccttcccggaggtctcctGggacccctcggcccccaggg																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	47763878	-	-	47763878	7	5	454	1	0	1	0	1	0	0	0	0	2867	1348	47	0	258	0	CCDC9	19	47763878	Frame_Shift_Del	DEL	G	TCGA-CZ-5453-01A-01D-1501-10	1789347	47763878	11365105	82	23718											
TNNT1	7138	broad.mit.edu;hgsc.bcm.edu	37	chr19	55645562	55645562	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgatggaggcagccaggCagaccgggccctaggcccag	8	4	16	13	1	0	2	0	1	0	1	0	3	0	3	4	5	1	2	4	5	1	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	55645562	C	G	55645562	3	3	454	1	0	0	0	0	1	0	0	0	16329	710	25	4	226	4	TNNT1	19	55645562	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	7881684	55645562	3483421	83	23719											
KRTAP10-10	353333	hgsc.bcm.edu	37	chr21	46057625	46057625	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaggcctgctgtgtgccTgtctgctgtgtgcccgtctg	2	12	14	13	1	2	0	0	0	2	0	2	0	2	0	3	1	5	3	3	1	0	0	rs55677560	bycluster	TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	46057625	T	C	46057625	2	2	454	1	0	0	0	0	0	0	0	1	8506	1567	55	3		3	KRTAP10-10	21	46057625	Silent	SNP	T	TCGA-CZ-5453-01A-01D-1501-10		46057625	2072270	84	23720											
POTEH	23784	hgsc.bcm.edu	37	chr22	16287868	16287869	+	Frame_Shift_Ins	INS	-	-	C																															aggaggcagccggcattgaaINSccagcctcagccaccatctg																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		C	16287869	-	C	16287868	7	5	454	1	0	1	1	0	0	0	0	0	12267	30	2	0	1659	0	POTEH	22	16287868	Frame_Shift_Ins	INS	-	TCGA-CZ-5453-01A-01D-1501-10		16287868	35016698	85	23721											
SLC5A4	6527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32633231	32633231	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgcagggtcatcacttacCaaaccccatgagaataaaag	16	6	7	12	1	2	1	2	1	0	1	2	2	2	1	3	1	2	1	3	1	5	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	32633231	C	G	32633231	3	3	454	1	0	0	0	0	1	0	0	0	14669	608	21	4	1351	4	SLC5A4	22	32633231	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	16345363	32633231	18671335	86	23722											
BRD1	23774	broad.mit.edu;hgsc.bcm.edu	37	chr22	50187904	50187904	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcagctgctcctccaggcCcaggtgggctctgttggcgg	3	10	14	14	1	2	0	1	0	2	0	5	0	4	0	3	5	2	4	3	5	0	1	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		T	50187904	C	T	50187904	3	4	454	1	0	0	0	0	1	0	0	0	1501	623	22	2	1067	2	BRD1	22	50187904	Missense_Mutation	SNP	C	TCGA-CZ-5453-01A-01D-1501-10	17554673	50187904	1116662	87	23723											
MID1	4281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	10427708	10427708	+	Frame_Shift_Del	DEL	C	C	-																															tttgtcttcaacttcccaggCtcactgctgcggctgcccgc																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	10427708	C	-	10427708	7	5	454	1	0	1	0	1	0	0	0	0	9576	796	28	0	590	0	MID1	23	10427708	Frame_Shift_Del	DEL	C	TCGA-CZ-5453-01A-01D-1501-10		10427708	144842852	88	23724											
ZMAT1	84460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	101138798	101138799	+	Frame_Shift_Del	DEL	TG	TG	-																															tcttctgatgtttctgtttaTgacctgcttgatggtcagca																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	101138799	TG	-	101138798	7	5	454	1	0	1	0	1	0	0	0	0	17690	1464	51	0	319	0	ZMAT1	23	101138798	Frame_Shift_Del	DEL	TG	TCGA-CZ-5453-01A-01D-1501-10	90711090	101138798	54131762	89	23725	338	2									
ZMAT1	84460	broad.mit.edu;hgsc.bcm.edu	37	chrX	101138801	101138810	+	Frame_Shift_Del	DEL	CCTGCTTGAT	CCTGCTTGAT	-																															tctgatgtttctgtttatgaCctgcttgatggtcagcagta																								novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	CCTGCTTGAT	CCTGCTTGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		-	101138810	CCTGCTTGAT	-	101138801	7	5	454	1	0	1	0	1	0	0	0	0	17690	507	18	0	322	0	ZMAT1	23	101138801	Frame_Shift_Del	DEL	CCTGCTTGAT	TCGA-CZ-5453-01A-01D-1501-10	3	101138801	54131759	90	23726	338	2									
MAP7D3	79649	hgsc.bcm.edu	37	chrX	135328306	135328306	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagcatggatccatcgatTactaaaaaaaaaagaatata	21	10	5	5	1	0	1	0	0	0	1	2	3	1	2	1	1	2	1	1	1	10	5	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		A	135328306	T	A	135328306	2	1	454	1	0	0	0	0	0	0	0	1	9269	1768	61	5		5	MAP7D3	23	135328306	Silent	SNP	T	TCGA-CZ-5453-01A-01D-1501-10	34189505	135328306	19942254	91	23727											
RENBP	5973	broad.mit.edu;hgsc.bcm.edu	37	chrX	153205589	153205589	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagccacttggtagaagAggcgcagcagcacagggtcc	11	5	13	12	1	1	2	1	0	0	2	2	2	2	2	2	3	3	4	2	3	2	2	novel		TCGA-CZ-5453-01A-01D-1501-10	TCGA-CZ-5453-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	605079f6-2d6e-4c38-a214-b4c8875dd166	7f87fb18-2e76-4208-b76d-a3990c782aeb		G	153205589	A	G	153205589	3	3	454	1	0	0	0	0	1	0	0	0	13227	304	11	3	252	3	RENBP	23	153205589	Missense_Mutation	SNP	A	TCGA-CZ-5453-01A-01D-1501-10	17877283	153205589	2064971	92	23728											
GTDC1	79712	hgsc.bcm.edu;ucsc.edu	37	chr2	144899563	144899564	+	Frame_Shift_Del	DEL	GA	GA	-																															gcttcataaattttcccatgGaagtgagaaatgattccata																								novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		-	144899564	GA	-	144899563	7	5	455	1	0	1	0	1	0	0	0	0	6851	1174	41	0	997	0	GTDC1	2	144899563	Frame_Shift_Del	DEL	GA	TCGA-CZ-5454-01A-01D-1501-10		144899563	98299810	1	23729											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52696199	52696199	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcttcatcatcatcttCgtcatctgcttctcctttct	5	18	2	16	1	9	0	4	0	5	0	11	0	9	0	2	0	1	1	2	0	0	4	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	52696199	C	A	52696199	4	1	455	1	0	0	0	0	0	1	0	0	11491	893	31	4	4530	4	PBRM1	3	52696199	Nonsense_Mutation	SNP	C	TCGA-CZ-5454-01A-01D-1501-10		52696199	145326231	2	23730											
NR1I2	8856	broad.mit.edu;hgsc.bcm.edu	37	chr3	119528965	119528965	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccggaagggcgcctgcgaGatcacccggaagacccggcg	8	4	15	14	6	1	2	1	0	0	2	2	5	2	4	4	4	1	0	4	4	2	1	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	119528965	G	A	119528965	2	1	455	1	0	0	0	0	0	0	0	1	10620	933	33	2		2	NR1I2	3	119528965	Silent	SNP	G	TCGA-CZ-5454-01A-01D-1501-10	66832766	119528965	78493465	3	23731											
LMLN	89782	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	197748373	197748373	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccttattatggtggctcCgtggaaattgctgactactg	7	15	11	8	1	0	1	0	1	0	0	1	2	1	2	2	3	3	2	2	3	4	5	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	197748373	C	A	197748373	2	1	455	1	0	0	0	0	0	0	0	1	8847	639	23	4		4	LMLN	3	197748373	Silent	SNP	C	TCGA-CZ-5454-01A-01D-1501-10	78219408	197748373	274057	4	23732											
RFC1	5981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	39297338	39297338	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgggaaactgggtcatgtaCcccctcatcaactctccagg	9	9	10	13	0	4	0	3	0	1	0	5	1	4	1	3	3	3	1	3	3	3	1	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	39297338	C	T	39297338	2	4	455	1	0	0	0	0	0	0	0	1	13246	494	18	2		2	RFC1	4	39297338	Silent	SNP	C	TCGA-CZ-5454-01A-01D-1501-10		39297338	151856938	5	23733											
GALNT7	51809	broad.mit.edu;ucsc.edu	37	chr4	174216550	174216550	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgatttttcttaacagaacActtaaaagaaaaactggatg	17	13	6	5	0	1	3	0	1	1	2	1	4	1	4	0	1	3	0	0	1	6	5	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		G	174216550	G	G	174216550	3	3	455	1	0	0	0	0	1	0	0	0	6218	159	6	3	772	3	GALNT7	4	174216550	Missense_Mutation	SNP	A	TCGA-CZ-5454-01A-01D-1501-10	134919212	174216550	16937726	6	23734											
TTC37	9652	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	94876456	94876456	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaactgagtcaattttcTccatagttgatgaagctctt	11	14	8	8	0	3	3	1	3	2	0	4	4	3	4	1	1	2	2	1	1	4	5	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		G	94876456	T	G	94876456	2	3	455	1	0	0	0	0	0	0	0	1	16704	1559	54	5		5	TTC37	5	94876456	Silent	SNP	T	TCGA-CZ-5454-01A-01D-1501-10		94876456	86038804	7	23735											
TRAF3IP2	10758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	111913024	111913024	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaactgtcttcactgtccTccagaacttgagtgcgcagg	10	10	10	11	1	2	3	1	1	1	2	4	3	4	3	2	1	3	1	2	1	2	2	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	111913024	T	A	111913024	3	1	455	1	0	0	0	0	1	0	0	0	16440	1551	54	5	1463	5	TRAF3IP2	6	111913024	Missense_Mutation	SNP	T	TCGA-CZ-5454-01A-01D-1501-10		111913024	59202043	8	23736											
ARG1	383	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	131904255	131904256	+	Frame_Shift_Ins	INS	-	-	T																															aatgactgaagtggacagacINStaggaattggcaaggtgatg																								novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	131904256	-	T	131904255	7	5	455	1	0	1	1	0	0	0	0	0	857	564	20	0	638	0	ARG1	6	131904255	Frame_Shift_Ins	INS	-	TCGA-CZ-5454-01A-01D-1501-10	19991231	131904255	39210812	9	23737											
GPNMB	10457	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	23309735	23309735	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgtactgtgtgaacctcaCcctgggggatgacacaagcc	10	7	12	12	1	1	2	1	2	0	0	1	4	1	3	3	2	3	1	3	2	3	1	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	23309735	C	T	23309735	3	4	455	1	0	0	0	0	1	0	0	0	6620	507	18	2	1440	2	GPNMB	7	23309735	Missense_Mutation	SNP	C	TCGA-CZ-5454-01A-01D-1501-10		23309735	135828928	10	23738											
YTHDF3	253943	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	64099319	64099319	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcctgccaaacctcaaccGaaacttaaacccaagggcaa	17	4	6	14	1	1	0	1	0	0	0	1	1	1	0	5	1	6	1	5	1	8	1	rs61745071		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	64099319	G	A	64099319	3	1	455	1	0	0	0	0	1	0	0	0	17499	1058	37	1	763	1	YTHDF3	8	64099319	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10		64099319	82264703	11	23739											
STMN2	11075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	80549106	80549106	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcttttacccggaacctcGcaacatcaacatctatactt	11	13	4	13	2	2	0	1	0	1	0	3	1	2	1	2	1	6	2	2	1	6	6	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	80549106	G	A	80549106	3	1	455	1	0	0	0	0	1	0	0	0	15310	1087	38	1	95	1	STMN2	8	80549106	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10	16449787	80549106	65814916	12	23740											
RIPK2	8767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	90796294	90796294	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagttacagagtgtttcaaGtgccattcacctatgtgaca	12	12	8	9	0	2	2	2	1	0	1	2	2	2	2	2	0	2	2	2	0	3	4	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	90796294	G	T	90796294	3	4	455	1	0	0	0	0	1	0	0	0	13383	1029	36	4	986	4	RIPK2	8	90796294	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10	10247188	90796294	55567728	13	23741											
SEC61B	10952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	101984847	101984847	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctggtccgacccccagtgGcactaacgtgggatcctcag	7	7	12	15	2	1	0	1	0	0	0	3	2	3	1	5	3	1	1	5	3	1	1	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		C	101984847	G	C	101984847	3	2	455	1	0	0	0	0	1	0	0	0	14004	1203	42	4	29	4	SEC61B	9	101984847	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10		101984847	39228584	14	23742											
LRP4	4038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	46895081	46895081	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagtccactgccagcccGtcagtggtcttcagccctcg	6	8	9	18	2	3	0	2	0	1	0	5	0	4	0	5	1	3	0	5	1	0	1	rs17848229		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	46895081	G	A	46895081	2	1	455	1	0	0	0	0	0	0	0	1	8959	1136	40	1		1	LRP4	11	46895081	Silent	SNP	G	TCGA-CZ-5454-01A-01D-1501-10		46895081	88111435	15	23743											
LRTOMT	220074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	71816983	71816983	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacctccctccaccccaggGcccaggtagggaccatgtcc	7	6	9	19	0	0	0	0	0	0	0	3	1	3	1	8	3	1	1	8	3	2	2	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	71816983	G	A	71816983	3	1	455	1	0	0	0	0	1	0	0	0	9046	1217	42	2	696	2	LRTOMT	11	71816983	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10	24921902	71816983	63189533	16	23744											
PAPOLA	10914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	97009231	97009231	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaaagaaaatcccgacaaGtaagcccttttctaatttaa	16	10	4	11	1	1	1	0	0	1	1	2	2	2	1	3	0	1	1	3	0	7	6	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	97009231	G	A	97009231	5	1	455	1	0	0	0	0	0	0	1	0	11429	1043	36	2	1344	2	PAPOLA	14	97009231	Splice_Site	SNP	G	TCGA-CZ-5454-01A-01D-1501-10		97009231	10340309	17	23745											
C16orf73	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1884331	1884331	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgcacgagagtacactaaTtttcaatccactccttgctc	10	13	5	13	1	1	1	1	0	0	1	4	2	3	1	2	0	3	3	2	0	3	6	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	1884331	T	A	1884331	3	1	455	1	0	0	0	0	1	0	0	0	1832	1493	52	5	77	5	C16orf73	16	1884331	Missense_Mutation	SNP	T	TCGA-CZ-5454-01A-01D-1501-10		1884331	88470422	18	23746											
ATAD5	79915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	29182285	29182285	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagctgctgcgctggatGtgtacaatgcagtgagtacc	11	9	13	8	1	0	2	0	1	0	1	0	3	0	3	1	1	6	6	1	1	4	2	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	29182285	G	T	29182285	3	4	455	1	0	0	0	0	1	0	0	0	1076	1377	48	4	2601	4	ATAD5	17	29182285	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10		29182285	52012925	19	23747											
CDK12	51755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37682372	37682372	+	Frame_Shift_Del	DEL	T	T	-																															agcaccctctgccccagtgaTcctgccttcagcagaacaga																								novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		-	37682372	T	-	37682372	7	5	455	1	0	1	0	1	0	0	0	0	3128	1435	50	0	3613	0	CDK12	17	37682372	Frame_Shift_Del	DEL	T	TCGA-CZ-5454-01A-01D-1501-10	8500087	37682372	43512838	20	23748											
PSMD3	5709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38153787	38153787	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcgagaacagcaggacttgGagtttgccaaggagatggca	13	6	15	7	1	0	2	0	0	0	2	0	6	0	4	1	4	4	3	1	4	2	2	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		C	38153787	G	C	38153787	3	2	455	1	0	0	0	0	1	0	0	0	12701	1175	41	4	1604	4	PSMD3	17	38153787	Missense_Mutation	SNP	G	TCGA-CZ-5454-01A-01D-1501-10	471415	38153787	43041423	21	23749											
RNF43	54894	broad.mit.edu;ucsc.edu	37	chr17	56440700	56440700	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcttgtacacaaactccAtcagcttctcagcgtcatta	10	13	6	12	1	4	0	3	0	2	0	6	0	5	0	1	1	4	3	1	1	3	5	rs145164323	alternate_allele	TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		G	56440700	G	G	56440700	3	3	455	1	0	0	0	0	1	0	0	0	13497	217	8	3	1857	3	RNF43	17	56440700	Missense_Mutation	SNP	A	TCGA-CZ-5454-01A-01D-1501-10	18286913	56440700	24754510	22	23750											
DDX42	11325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61890626	61890626	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaattaagactgtcattAactatgatgtggcacgagac	13	12	8	8	1	2	3	2	1	0	2	2	4	2	3	0	1	1	1	0	1	4	4	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	61890626	A	T	61890626	3	4	455	1	0	0	0	0	1	0	0	0	4362	362	13	5	1768	5	DDX42	17	61890626	Missense_Mutation	SNP	A	TCGA-CZ-5454-01A-01D-1501-10	5449926	61890626	19304584	23	23751											
NLRP9	338321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56243947	56243947	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactcagataacccattcCtccggagatccccatgggaa	12	7	8	14	1	1	3	1	0	0	3	4	5	4	4	5	2	1	0	5	2	2	2	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	56243947	C	A	56243947	3	1	455	1	0	0	0	0	1	0	0	0	10484	681	24	4	1757	4	NLRP9	19	56243947	Missense_Mutation	SNP	C	TCGA-CZ-5454-01A-01D-1501-10		56243947	2885036	24	23752											
GGT7	2686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33437795	33437795	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggttggactgcaggtcCgggtgtaggcggccgcgggc	5	6	21	9	4	0	0	0	0	0	0	1	2	1	2	2	8	1	3	2	8	1	2	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		T	33437795	C	T	33437795	2	4	455	1	0	0	0	0	0	0	0	1	6364	639	23	1		1	GGT7	20	33437795	Silent	SNP	C	TCGA-CZ-5454-01A-01D-1501-10		33437795	29587725	25	23753											
SLC2A4RG	56731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	62373331	62373331	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccagtgaccagtcctcTccgtccaccccgtcaccccc	5	7	7	22	2	2	1	1	1	1	0	5	1	4	1	9	1	0	0	9	1	0	0	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	62373331	T	A	62373331	2	1	455	1	0	0	0	0	0	0	0	1	14549	1538	54	5		5	SLC2A4RG	20	62373331	Silent	SNP	T	TCGA-CZ-5454-01A-01D-1501-10	28935536	62373331	652189	26	23754											
RPL3	6122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	39713525	39713525	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctcagcaaagacagtcttGaaggtccggaggcctcgagg	10	7	14	10	2	2	2	1	1	1	1	4	4	3	3	2	4	2	2	2	4	2	1	novel		TCGA-CZ-5454-01A-01D-1501-10	TCGA-CZ-5454-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	d9fd1928-7b7d-4147-aeff-1618393ba26c	46d95289-69d8-4437-b2f3-5a3e5ccf7ef6		A	39713525	G	A	39713525	2	1	455	1	0	0	0	0	0	0	0	1	13581	1281	45	2		2	RPL3	22	39713525	Silent	SNP	G	TCGA-CZ-5454-01A-01D-1501-10		39713525	11591041	27	23755											
AIM1L	55057	hgsc.bcm.edu;ucsc.edu	37	chr1	26650663	26650663	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggttcttcagcagcccatCctcgtagtaccagatgcagc	8	10	9	14	1	2	1	1	0	1	1	4	1	3	1	3	1	5	5	3	1	2	4	rs189284478	by1000genomes	TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	26650663	C	T	26650663	3	4	456	1	0	0	0	0	1	0	0	0	431	855	30	2	280	2	AIM1L	1	26650663	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		26650663	222599958	1	23756											
MYBPHL	343263	hgsc.bcm.edu;ucsc.edu	37	chr1	109838957	109838957	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttggggcttcagagaagtCtcgttgggcaaaccccttgg	7	11	13	10	1	2	1	1	0	1	1	3	2	2	1	2	4	1	3	2	4	2	4	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		G	109838957	C	G	109838957	3	3	456	1	0	0	0	0	1	0	0	0	10015	913	32	4	310	4	MYBPHL	1	109838957	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10	83188294	109838957	139411664	2	23757											
ADCY10	55811	hgsc.bcm.edu;ucsc.edu	37	chr1	167829063	167829063	+	Frame_Shift_Del	DEL	A	A	-																															accagcttcaagatcttcatAaacaatatttccaattgttt																								novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		-	167829063	A	-	167829063	7	5	456	1	0	1	0	1	0	0	0	0	293	359	13	0	3026	0	ADCY10	1	167829063	Frame_Shift_Del	DEL	A	TCGA-CZ-5455-01A-01D-1501-10	57990106	167829063	81421558	3	23758											
CR2	1380	hgsc.bcm.edu;ucsc.edu	37	chr1	207651381	207651381	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccagtgccaatcggatcaCcaatggaaccctcccctggc	10	6	9	16	1	1	0	1	0	0	0	3	2	2	2	6	3	3	0	6	3	3	0	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	207651381	C	A	207651381	3	1	456	1	0	0	0	0	1	0	0	0	3842	506	18	4	3116	4	CR2	1	207651381	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10	39822318	207651381	41599240	4	23759											
ERMN	57471	hgsc.bcm.edu;ucsc.edu	37	chr2	158178112	158178112	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaaaccttctgctcctcatCatgtttagaatgtaacatgt	11	14	5	11	0	3	1	2	0	1	1	4	1	4	1	3	0	3	3	3	0	4	4	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	158178112	C	T	158178112	3	4	456	1	0	0	0	0	1	0	0	0	5235	826	29	2	332	2	ERMN	2	158178112	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		158178112	85021261	5	23760											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52637555	52637555	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcttttttcttcttctcGttttagtttatcttcctcta	4	24	2	11	1	6	0	0	0	6	0	8	0	7	0	2	0	0	2	2	0	3	11	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	52637555	G	A	52637555	4	1	456	1	0	0	0	0	0	1	0	0	11491	1153	40	1	2195	1	PBRM1	3	52637555	Nonsense_Mutation	SNP	G	TCGA-CZ-5455-01A-01D-1501-10		52637555	145384875	6	23761											
TBCK	93627	hgsc.bcm.edu	37	chr4	107168369	107168370	+	Frame_Shift_Ins	INS	-	-	G																															aagatgaaaacagactggcaINSggtttggtaaagggggtata																								novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		G	107168370	-	G	107168369	7	5	456	1	0	1	1	0	0	0	0	0	15635	175	7	0	1891	0	TBCK	4	107168369	Frame_Shift_Ins	INS	-	TCGA-CZ-5455-01A-01D-1501-10		107168369	83985907	7	23762											
ODZ3	0	hgsc.bcm.edu;ucsc.edu	37	chr4	183714250	183714250	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggacagctccaaacagtttAcctcaatgaaaagataatgt	16	10	7	8	0	1	2	1	1	0	1	2	3	2	3	2	1	3	2	2	1	6	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	183714250	A	T	183714250	3	4	456	1	0	0	0	0	1	0	0	0	10836	391	14	5	6523	5	ODZ3	4	183714250	Missense_Mutation	SNP	A	TCGA-CZ-5455-01A-01D-1501-10	76545881	183714250	7440026	8	23763											
SLC22A4	6583	hgsc.bcm.edu;ucsc.edu	37	chr5	131662990	131662990	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gttcattcctgaatctccccGatggctgatatcccagagaa	10	11	8	12	1	2	3	1	2	1	1	5	5	4	3	4	1	0	2	4	1	3	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		C	131662990	G	C	131662990	3	2	456	1	0	0	0	0	1	0	0	0	14458	1058	37	4	863	4	SLC22A4	5	131662990	Missense_Mutation	SNP	G	TCGA-CZ-5455-01A-01D-1501-10		131662990	49252270	9	23764											
PCDHGB2	56103	hgsc.bcm.edu;ucsc.edu	37	chr5	140741742	140741742	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcagcgaccgccgggaGccctctgacccccaggcaaa	9	3	11	18	3	2	1	1	1	1	0	2	4	2	2	6	2	2	1	6	2	1	0	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	140741742	G	A	140741742	2	1	456	1	0	0	0	0	0	0	0	1	11563	962	34	2		2	PCDHGB2	5	140741742	Silent	SNP	G	TCGA-CZ-5455-01A-01D-1501-10	9078752	140741742	40173518	10	23765											
MYLK4	340156	hgsc.bcm.edu;ucsc.edu	37	chr6	2689126	2689126	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagtatagaagctgttGaccgctccttgcttggctgt	7	13	10	11	1	1	2	1	1	0	1	2	2	2	2	2	1	2	6	2	1	3	5	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	2689126	G	T	2689126	2	4	456	1	0	0	0	0	0	0	0	1	10059	1277	45	4		4	MYLK4	6	2689126	Silent	SNP	G	TCGA-CZ-5455-01A-01D-1501-10		2689126	168425941	11	23766											
XPO5	57510	hgsc.bcm.edu;ucsc.edu	37	chr6	43492326	43492326	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagtgagtccttctgtatTtcagggatttgctccattac	7	16	8	10	0	2	1	1	1	1	0	5	2	5	2	3	1	2	2	3	1	2	5	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		C	43492326	T	C	43492326	2	2	456	1	0	0	0	0	0	0	0	1	17446	1838	64	3		3	XPO5	6	43492326	Silent	SNP	T	TCGA-CZ-5455-01A-01D-1501-10	40803200	43492326	127622741	12	23767											
PDCD2	5134	hgsc.bcm.edu;ucsc.edu	37	chr6	170892196	170892196	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttccacaacctcaggcaTaatctcatcttctgtttcta	9	16	3	13	0	5	0	2	0	4	0	7	0	6	0	2	1	1	2	2	1	3	6	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		C	170892196	T	C	170892196	3	2	456	1	0	0	0	0	1	0	0	0	11619	1406	49	3	472	3	PDCD2	6	170892196	Missense_Mutation	SNP	T	TCGA-CZ-5455-01A-01D-1501-10	127399870	170892196	222871	13	23768											
PION	54103	hgsc.bcm.edu;ucsc.edu	37	chr7	76959608	76959608	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccacactgttgttatagTggaagtgtggcttggcgtac	8	13	13	7	1	0	1	0	1	0	0	0	2	0	2	1	3	1	4	1	3	4	5	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		G	76959608	T	G	76959608	3	3	456	1	0	0	0	0	1	0	0	0	11934	1696	59	5	990	5	PION	7	76959608	Missense_Mutation	SNP	T	TCGA-CZ-5455-01A-01D-1501-10		76959608	82179055	14	23769											
PON3	5446	hgsc.bcm.edu;ucsc.edu	37	chr7	94991745	94991745	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatggcatcctgccaaaaTgtctcctgtggcaggatcga	10	9	12	10	1	1	0	0	0	1	0	4	3	2	2	3	4	1	2	3	4	2	0	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		C	94991745	T	C	94991745	3	2	456	1	0	0	0	0	1	0	0	0	12250	1464	51	3	237	3	PON3	7	94991745	Missense_Mutation	SNP	T	TCGA-CZ-5455-01A-01D-1501-10	18032137	94991745	64146918	15	23770											
CHCHD3	54927	hgsc.bcm.edu	37	chr7	132470404	132470404	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctgaaagtttttatccTcccttctcaagcatgctctg	8	16	5	12	0	3	1	1	1	3	0	6	1	5	1	2	0	2	3	2	0	3	5	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	132470404	T	A	132470404	2	1	456	1	0	0	0	0	0	0	0	1	3317	1538	54	5		5	CHCHD3	7	132470404	Silent	SNP	T	TCGA-CZ-5455-01A-01D-1501-10	37478659	132470404	26668259	16	23771											
PEBP4	157310	hgsc.bcm.edu;ucsc.edu	37	chr8	22777758	22777758	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgatcttctgtctgtagTtgttacaatcaggaacaacc	11	13	9	8	0	4	1	1	1	3	0	4	2	4	2	1	2	3	3	1	2	5	4	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		C	22777758	T	C	22777758	3	2	456	1	0	0	0	0	1	0	0	0	11714	1725	60	3	506	3	PEBP4	8	22777758	Missense_Mutation	SNP	T	TCGA-CZ-5455-01A-01D-1501-10		22777758	123586264	17	23772											
HOOK3	84376	hgsc.bcm.edu;ucsc.edu	37	chr8	42841800	42841800	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttattttgttcattcagggAgaaacttattcgtcttcagc	9	18	7	7	1	4	1	3	0	1	1	5	2	4	1	0	1	2	1	0	1	3	9	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		G	42841800	A	G	42841800	3	3	456	1	0	0	0	0	1	0	0	0	7284	304	11	3	1452	3	HOOK3	8	42841800	Missense_Mutation	SNP	A	TCGA-CZ-5455-01A-01D-1501-10	20064042	42841800	103522222	18	23773											
UBE2D1	7321	hgsc.bcm.edu;ucsc.edu	37	chr10	60128517	60128517	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaatggactcagaaatatGcaatgtaaaaatcaaaaaca	22	7	7	5	0	2	2	2	0	0	2	2	4	2	3	0	1	2	2	0	1	9	2	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		C	60128517	G	C	60128517	3	2	456	1	0	0	0	0	1	0	0	0	16847	1319	46	4	462	4	UBE2D1	10	60128517	Missense_Mutation	SNP	G	TCGA-CZ-5455-01A-01D-1501-10		60128517	75406230	19	23774											
ANK3	288	hgsc.bcm.edu;ucsc.edu	37	chr10	61835851	61835851	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctctagccagggtaccAgaggaaacttggatattgta	12	9	13	7	0	1	1	0	0	1	1	1	4	1	4	2	4	4	3	2	4	5	6	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	61835851	A	T	61835851	2	4	456	1	0	0	0	0	0	0	0	1	622	175	7	5		5	ANK3	10	61835851	Silent	SNP	A	TCGA-CZ-5455-01A-01D-1501-10	1707334	61835851	73698896	20	23775											
OR5A2	219981	hgsc.bcm.edu;ucsc.edu	37	chr11	59190140	59190140	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtactgagtggcacagccaAcaaaggaaatggttttctgc	13	9	11	8	0	1	1	0	1	1	0	1	2	1	2	1	3	4	3	1	3	4	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		G	59190140	A	G	59190140	3	3	456	1	0	0	0	0	1	0	0	0	11140	43	2	3	689	3	OR5A2	11	59190140	Missense_Mutation	SNP	A	TCGA-CZ-5455-01A-01D-1501-10		59190140	75816376	21	23776											
CORO1B	57175	hgsc.bcm.edu;ucsc.edu	37	chr11	67207622	67207622	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgctgacctccaggcccCgcttgggcatgctgcccata	6	9	10	16	1	0	1	0	1	0	0	1	1	1	1	5	2	3	4	5	2	1	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	67207622	C	T	67207622	3	4	456	1	0	0	0	0	1	0	0	0	3754	652	23	1	511	1	CORO1B	11	67207622	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10	8017482	67207622	67798894	22	23777											
MAML2	84441	hgsc.bcm.edu	37	chr11	95825401	95825401	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctgctgctgctgctgCtgctgctgctgctgttgctg	0	15	14	12	0	0	0	0	0	0	0	0	0	0	0	0	0	12	13	0	0	0	1	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	95825401	C	T	95825401	2	4	456	1	0	0	0	0	0	0	0	1	9206	796	28	2		2	MAML2	11	95825401	Silent	SNP	C	TCGA-CZ-5455-01A-01D-1501-10	28617779	95825401	39181115	23	23778											
VSIG10	54621	hgsc.bcm.edu;ucsc.edu	37	chr12	118506261	118506261	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctgtgaatgtggtcctgCttaggtatttcttttggcaa	7	17	10	7	0	2	1	0	1	2	0	3	1	3	1	1	3	1	3	1	3	4	5	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	118506261	C	T	118506261	2	4	456	1	0	0	0	0	0	0	0	1	17222	796	28	2		2	VSIG10	12	118506261	Silent	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		118506261	15345634	24	23779											
SYNE2	23224	hgsc.bcm.edu;ucsc.edu	37	chr14	64556348	64556348	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaaaagagtttcaaaaatCaaaactatcctattatcaaa	22	10	3	6	0	3	1	3	0	0	1	4	2	4	1	1	0	1	1	1	0	11	4	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		G	64556348	C	G	64556348	3	3	456	1	0	0	0	0	1	0	0	0	15445	816	29	4	11957	4	SYNE2	14	64556348	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		64556348	42793192	25	23780											
FBN1	2200	hgsc.bcm.edu;ucsc.edu	37	chr15	48725074	48725074	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgactcacctttgcacatcCtacggtcttctctgagcaca	9	12	6	14	1	3	2	1	2	2	0	5	2	4	2	2	1	3	2	2	1	1	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	48725074	C	T	48725074	3	4	456	1	0	0	0	0	1	0	0	0	5702	681	24	2	1935	2	FBN1	15	48725074	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		48725074	53806318	26	23781											
PTRF	284119	hgsc.bcm.edu;ucsc.edu	37	chr17	40556892	40556892	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttccacctggccctcgCggatcttcttgacgtggaag	6	10	11	14	3	2	1	0	1	2	0	4	3	3	3	3	3	0	1	3	3	1	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	40556892	C	A	40556892	3	1	456	1	0	0	0	0	1	0	0	0	12817	768	27	4	190	4	PTRF	17	40556892	Missense_Mutation	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		40556892	40638318	27	23782											
TRIM37	4591	hgsc.bcm.edu;ucsc.edu	37	chr17	57078981	57078981	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatccgggggctgtgtcatGaccatgaaggagtcgtgaaa	10	9	14	8	2	2	3	2	3	0	0	4	4	3	4	2	3	0	1	2	3	2	0	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	57078981	G	A	57078981	2	1	456	1	0	0	0	0	0	0	0	1	16510	1277	45	2		2	TRIM37	17	57078981	Silent	SNP	G	TCGA-CZ-5455-01A-01D-1501-10	16522089	57078981	24116229	28	23783											
ITGB4	3691	hgsc.bcm.edu;ucsc.edu	37	chr17	73752790	73752790	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctactgcccccaggctccGccttcactttgagcactccc	5	10	6	20	1	2	1	1	1	1	0	4	1	4	1	5	1	3	2	5	1	1	3	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		A	73752790	G	A	73752790	3	1	456	1	0	0	0	0	1	0	0	0	7897	1087	38	1	5208	1	ITGB4	17	73752790	Missense_Mutation	SNP	G	TCGA-CZ-5455-01A-01D-1501-10	16673809	73752790	7442420	29	23784											
LIPG	9388	hgsc.bcm.edu;ucsc.edu	37	chr18	47095827	47095827	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaaggacgatttttctctCgggaatgtccacttgatcgg	9	12	12	8	3	1	2	0	1	1	1	5	6	2	4	1	3	0	0	1	3	2	3	rs146146617		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	47095827	C	T	47095827	2	4	456	1	0	0	0	0	0	0	0	1	8823	871	31	1		1	LIPG	18	47095827	Silent	SNP	C	TCGA-CZ-5455-01A-01D-1501-10		47095827	30981421	30	23785											
ATP7A	538	hgsc.bcm.edu	37	chrX	77254041	77254041	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgcttttgacttcaactaAtgaattttatactaaaggga	13	14	7	7	1	1	2	1	2	0	0	1	3	1	3	1	1	2	1	1	1	7	8	novel		TCGA-CZ-5455-01A-01D-1501-10	TCGA-CZ-5455-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7066c3fa-4e8c-460c-ba68-a3508fdeb315	d3da7fdd-73e5-49ee-95fc-4d5ae03f0e84		T	77254041	A	T	77254041	3	4	456	1	0	0	0	0	1	0	0	0	1190	101	4	5	1417	5	ATP7A	23	77254041	Missense_Mutation	SNP	A	TCGA-CZ-5455-01A-01D-1501-10		77254041	78016519	31	23786											
VHL	7428	hgsc.bcm.edu	37	chr3	10183725	10183725	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccgtgctgcgctCggtgaactcgcgcgagccct	3	6	15	17	8	0	1	0	1	0	0	2	2	0	1	3	2	4	2	3	2	1	0	rs5030826		TCGA-CZ-5455-01A-01W-1528-10	TCGA-CZ-5455-11A-01W-1528-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	18d638e2-3061-4ea5-8ad5-93559d1eabb0	cd5529f7-7518-4681-8443-92e6d3d8ad6f		A	10183725	C	A	10183725	4	1	457	1	0	0	0	0	0	1	0	0	17161	893	31	4	196	4	VHL	3	10183725	Nonsense_Mutation	SNP	C	TCGA-CZ-5455-01A-01W-1528-10		10183725	187838705	1	23787											
CAMTA1	23261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	7797034	7797034	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctggaactggaagttgacCccttgaatgtggaccacttc	10	10	10	11	0	0	2	0	2	0	0	1	5	0	5	4	3	1	1	4	3	3	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	7797034	C	T	7797034	3	4	458	1	0	0	0	0	1	0	0	0	2613	623	22	2	3361	2	CAMTA1	1	7797034	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10		7797034	241453587	1	23788											
CASZ1	54897	broad.mit.edu	37	chr1	10711096	10711097	+	Frame_Shift_Ins	INS	-	G	G																															gttccggcttcacttgggccINSggggggaacctggctggggt																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	10711097	G	G	10711096	7	5	458	1	0	1	1	0	0	0	0	0	2685	639	23	0	2605	0	CASZ1	1	10711096	Frame_Shift_Ins	INS	-	TCGA-CZ-5456-01A-01D-1501-10	2914062	10711096	238539525	2	23789											
TMEM59	9528	broad.mit.edu;ucsc.edu	37	chr1	54509109	54509109	+	Silent	SNP	G	A	A																															gtccatgaagaggttatgaaGctctgtgcggagtccatcat																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	54509109	A	A	54509109	2	1	458	1	0	0	0	0	0	0	0	1	16184	962	34	2		2	TMEM59	1	54509109	Silent	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	43798013	54509109	194741512	3	23790	339	2									
TMEM59	9528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	54509110	54509110	+	Missense_Mutation	SNP	C	C	T																															tccatgaagaggttatgaagCtctgtgcggagtccatcatg																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	54509110	C	T	54509110	3	4	458	1	0	0	0	0	1	0	0	0	16184	797	28	2	512	2	TMEM59	1	54509110	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	1	54509110	194741511	4	23791	339	2									
NOTCH2	4853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	120458045	120458045	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacatctgaccagtcagAagcagagtggggtgatgaac	12	7	14	8	0	3	5	2	3	1	2	3	5	3	5	1	3	2	1	1	3	2	0	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	120458045	A	G	120458045	3	3	458	1	0	0	0	0	1	0	0	0	10548	246	9	3	119	3	NOTCH2	1	120458045	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10	65948935	120458045	128792576	5	23792											
ANKRD35	148741	broad.mit.edu;ucsc.edu	37	chr1	145558859	145558859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgtacacccctgatgatcGcatcgctgggtgggcacgca	8	7	13	13	4	0	2	0	2	0	0	2	3	0	2	2	2	1	5	2	2	1	1	rs150752253	byfrequency	TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	145558859	A	A	145558859	3	1	458	1	0	0	0	0	1	0	0	0	664	1087	38	1	504	1	ANKRD35	1	145558859	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	25100814	145558859	103691762	6	23793											
HRNR	388697	broad.mit.edu	37	chr1	152188024	152188024	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gctccatgttggccacagctCgatgactgtcctgatgcaga	8	10	11	12	1	0	3	0	2	0	1	3	4	2	3	3	1	2	4	3	1	0	1	rs142170860	alternate_allele	TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	152188024	G	G	152188024	2	3	458	1	0	0	0	0	0	0	0	1	7359	871	31	4		4	HRNR	1	152188024	Silent	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	6629165	152188024	97062597	7	23794											
FLG	2312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152283596	152283596	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcctggaccccgatgattGttcctgtcccacctgtgagt	5	13	10	13	1	0	2	0	2	0	0	3	4	3	3	6	1	0	1	6	1	0	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	152283596	G	T	152283596	3	4	458	1	0	0	0	0	1	0	0	0	5922	1386	48	4	8423	4	FLG	1	152283596	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	95572	152283596	96967025	8	23795											
ATP1A2	477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160091025	160091025	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctgggccgcaaataccAagtggacctgtccaaggtga	11	7	13	10	1	0	2	0	2	0	0	1	3	1	3	4	3	2	2	4	3	4	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	160091025	A	T	160091025	3	4	458	1	0	0	0	0	1	0	0	0	1129	130	5	5	171	5	ATP1A2	1	160091025	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10	7807429	160091025	89159596	9	23796											
SELE	6401	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169701065	169701065	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attcaccgtggccactgcagGatgtattggtacaggcagct	9	10	12	10	1	1	0	1	0	0	0	1	1	1	1	2	4	3	5	2	4	2	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	169701065	G	A	169701065	3	1	458	1	0	0	0	0	1	0	0	0	14015	1174	41	2	1432	2	SELE	1	169701065	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	9610040	169701065	79549556	10	23797											
PRRX1	5396	broad.mit.edu	37	chr1	170695367	170695367	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taacaatcctccaggtgtggTttcagaaccgaagagccaag	13	8	10	10	1	1	2	1	0	0	2	3	3	3	2	4	2	3	1	4	2	5	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	170695367	C	C	170695367	3	2	458	1	0	0	0	0	1	0	0	0	12614	1725	60	3	434	3	PRRX1	1	170695367	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10	994302	170695367	78555254	11	23798											
NFE2L2	4780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178098960	178098960	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctcgacttactccaagatCtatatcttgcctccaaagta	11	14	4	12	1	3	1	0	0	3	1	6	2	5	1	3	0	2	1	3	0	6	6	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	178098960	C	G	178098960	3	3	458	1	0	0	0	0	1	0	0	0	10368	913	32	4	1748	4	NFE2L2	2	178098960	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10		178098960	65100413	12	23799											
PDE11A	50940	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178936671	178936671	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaatatgggctgtggtggggGgcagggagcttgccttccgg	5	9	20	7	1	0	0	0	0	0	0	1	2	1	1	2	7	2	3	2	7	2	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	178936671	G	A	178936671	3	1	458	1	0	0	0	0	1	0	0	0	11631	1232	43	2	2387	2	PDE11A	2	178936671	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	837711	178936671	64262702	13	23800											
KIF1A	547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241724433	241724433	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgatattggtctctgcGtcatggcgcttctgggtgaa	5	14	15	7	2	3	2	1	2	2	0	4	2	3	2	0	4	1	1	0	4	2	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	241724433	G	C	241724433	3	2	458	1	0	0	0	0	1	0	0	0	8283	1136	40	4	4543	4	KIF1A	2	241724433	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	62787762	241724433	1474940	14	23801											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52588818	52588818	+	Frame_Shift_Del	DEL	G	G	-																															ccccccagggtgaagtggctGcatgctgcccatgctaacaa																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	52588818	G	-	52588818	7	5	458	1	0	1	0	1	0	0	0	0	11491	1328	46	0	554	0	PBRM1	3	52588818	Frame_Shift_Del	DEL	G	TCGA-CZ-5456-01A-01D-1501-10		52588818	145433612	15	23802											
CACNA1D	776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	53777118	53777118	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctggatatgctggtggttggGgtgtctctggtgtcatttgg	3	16	17	5	0	2	0	1	0	1	0	3	1	2	1	0	7	1	2	0	7	1	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	53777118	G	T	53777118	2	4	458	1	0	0	0	0	0	0	0	1	2541	1219	43	4		4	CACNA1D	3	53777118	Silent	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	1188300	53777118	144245312	16	23803											
RASA2	5922	broad.mit.edu	37	chr3	141295907	141295907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgtttctttgctgtagccGtagtatcacctcatactttt	6	19	6	10	2	3	0	2	0	1	0	4	0	3	0	2	0	3	5	2	0	4	9	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	141295907	A	A	141295907	3	1	458	1	0	0	0	0	1	0	0	0	13063	1145	40	1	1607	1	RASA2	3	141295907	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	87518789	141295907	56726523	17	23804											
KIAA1530	0	broad.mit.edu	37	chr4	1343562	1343562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcgaccacccgggccGtggaagggtggaatgagaag	10	3	19	9	3	0	1	0	1	0	1	0	5	0	3	3	6	0	1	3	6	3	0	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	1343562	A	A	1343562	3	1	458	1	0	0	0	0	1	0	0	0	8241	1145	40	1	355	1	KIAA1530	4	1343562	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10		1343562	189810714	18	23805											
SLIT2	9353	broad.mit.edu;ucsc.edu	37	chr4	20512749	20512749	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttccaaggactacgctcTctgaattcactgtaagtatt	10	14	7	10	1	2	1	1	1	1	0	4	2	3	2	1	1	1	4	1	1	5	6	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	20512749	C	C	20512749	2	2	458	1	0	0	0	0	0	0	0	1	14742	1538	54	3		3	SLIT2	4	20512749	Silent	SNP	T	TCGA-CZ-5456-01A-01D-1501-10	19169187	20512749	170641527	19	23806											
SRP72	6731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57349375	57349375	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aggagtagagtttaagctttCcaagaaacaactacaagcta	17	9	8	7	0	0	2	0	0	0	2	1	3	1	3	1	1	5	4	1	1	8	6	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	57349375	C	T	57349375	3	4	458	1	0	0	0	0	1	0	0	0	15158	855	30	2	930	2	SRP72	4	57349375	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	36836626	57349375	133804901	20	23807											
WDFY3	23001	hgsc.bcm.edu;ucsc.edu	37	chr4	85738690	85738690	+	Frame_Shift_Del	DEL	T	T	-																															gctgccggcattgagggtacTttactatattatgtgcacat																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	85738690	T	-	85738690	7	5	458	1	0	1	0	1	0	0	0	0	17269	1609	56	0	9105	0	WDFY3	4	85738690	Frame_Shift_Del	DEL	T	TCGA-CZ-5456-01A-01D-1501-10	28389315	85738690	105415586	21	23808											
SH3RF1	57630	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	170190302	170190302	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggcaagaccttcgcagaaGcatcaaggcgctctagacac	14	5	10	12	2	2	3	1	0	1	3	3	3	2	3	1	2	1	4	1	2	5	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	170190302	G	A	170190302	3	1	458	1	0	0	0	0	1	0	0	0	14260	971	34	2	2648	2	SH3RF1	4	170190302	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	84451612	170190302	20963974	22	23809											
GPM6A	2823	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	176556193	176556193	+	Frame_Shift_Del	DEL	C	C	-																															ggcccagttggcagacagaaCcataaggtagtgaacctaat																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	176556193	C	-	176556193	7	5	458	1	0	1	0	1	0	0	0	0	6615	507	18	0	140	0	GPM6A	4	176556193	Frame_Shift_Del	DEL	C	TCGA-CZ-5456-01A-01D-1501-10	6365891	176556193	14598083	23	23810											
PCDHB9	56127	broad.mit.edu;hgsc.bcm.edu	37	chr5	140569080	140569080	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgctgctcggtgcccgaggGtccttttccagggcatctgg	3	11	14	13	3	1	0	0	0	1	0	5	1	3	0	3	4	2	3	3	4	0	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	140569080	G	T	140569080	3	4	458	1	0	0	0	0	1	0	0	0	11549	1261	44	4	2190	4	PCDHB9	5	140569080	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10		140569080	40346180	24	23811											
CCDC99	0	broad.mit.edu;hgsc.bcm.edu	37	chr5	169026150	169026150	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagatgaattgaaactaaaAtatgaacctgaaggtatata	19	11	7	4	0	0	5	0	4	0	1	0	5	0	5	1	1	2	1	1	1	11	7	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	169026150	A	C	169026150	3	2	458	1	0	0	0	0	1	0	0	0	2876	98	4	5	1345	5	CCDC99	5	169026150	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10	28457070	169026150	11889110	25	23812											
MAML1	9794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	179201812	179201812	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaccgatctgatcgactcCctgctgaagaacaggacttc	11	8	8	14	2	1	3	0	2	1	1	4	6	2	4	2	1	2	1	2	1	2	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	179201812	C	G	179201812	2	3	458	1	0	0	0	0	0	0	0	1	9205	610	22	4		4	MAML1	5	179201812	Silent	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	10175662	179201812	1713448	26	23813											
CD2AP	23607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	47567071	47567071	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctagcatttcatcaaaaTttgaaactgagccagtatca	14	14	5	8	0	4	2	3	2	1	0	4	2	4	2	1	0	3	2	1	0	5	5	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	47567071	T	A	47567071	3	1	458	1	0	0	0	0	1	0	0	0	2994	1493	52	5	1359	5	CD2AP	6	47567071	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10		47567071	123547996	27	23814											
COL1A2	1278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	94051214	94051214	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtgcttggctcttagggtAtgactggtttccctggtgct	4	16	13	8	0	1	1	0	1	1	0	2	1	2	1	1	4	2	5	1	4	2	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	94051214	A	G	94051214	3	3	458	1	0	0	0	0	1	0	0	0	3678	449	16	3	2507	3	COL1A2	7	94051214	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10		94051214	65087449	28	23815											
POT1	25913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	124493109	124493109	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtacctccatgaagatgaaaCtctaaacttaacattgtctg	14	12	6	9	0	2	3	0	2	2	1	3	3	3	3	2	0	4	1	2	0	6	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	124493109	C	T	124493109	2	4	458	1	0	0	0	0	0	0	0	1	12260	564	20	2		2	POT1	7	124493109	Silent	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	30441895	124493109	34645554	29	23816											
MKLN1	4289	hgsc.bcm.edu;ucsc.edu	37	chr7	131122679	131122679	+	Frame_Shift_Del	DEL	A	A	-																															gtgacttctatcgttatgacAttgatacaaacacatggatg																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	131122679	A	-	131122679	7	5	458	1	0	1	0	1	0	0	0	0	9603	217	8	0	1167	0	MKLN1	7	131122679	Frame_Shift_Del	DEL	A	TCGA-CZ-5456-01A-01D-1501-10	6629570	131122679	28015984	30	23817											
EPHB6	2051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	142563322	142563322	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccaacccagcagcccccGtttgcccctgcctggagggc	5	6	10	20	1	0	0	0	0	0	0	1	1	1	1	7	2	5	2	7	2	1	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	142563322	G	A	142563322	3	1	458	1	0	0	0	0	1	0	0	0	5178	1145	40	1	1053	1	EPHB6	7	142563322	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	11440643	142563322	16575341	31	23818											
SLC7A2	6542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	17409424	17409424	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagcccccttcctgtagcGtttgaatatgtgggatgggg	9	11	13	8	1	0	1	0	1	0	0	1	2	1	2	3	3	2	2	3	3	5	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	17409424	G	A	17409424	2	1	458	1	0	0	0	0	0	0	0	1	14699	1132	40	1		1	SLC7A2	8	17409424	Silent	SNP	G	TCGA-CZ-5456-01A-01D-1501-10		17409424	128954598	32	23819											
ADRA1A	148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	26722260	26722260	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagggcagcaccgtggagGtgagcaggaggtcggccacc	10	3	18	10	2	0	2	0	1	0	1	1	4	0	4	3	6	2	3	3	6	1	0	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	26722260	G	C	26722260	3	2	458	1	0	0	0	0	1	0	0	0	334	1261	44	4	1472	4	ADRA1A	8	26722260	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	9312836	26722260	119641762	33	23820											
PENK	5179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	57354177	57354177	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gctcttttagcaggtctgagGaattggccagcgagtcgtcc	7	11	13	10	2	2	1	0	1	2	0	4	3	3	2	2	3	2	2	2	3	2	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	57354177	G	C	57354177	3	2	458	1	0	0	0	0	1	0	0	0	11727	1174	41	4	349	4	PENK	8	57354177	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	30631917	57354177	89009845	34	23821											
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	61757864	61757864	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaaggtgaaagcccagagCacacagccggtggtgcagga	14	3	15	9	1	0	3	0	1	0	2	0	4	0	4	2	4	4	2	2	4	3	0	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	61757864	C	T	61757864	2	4	458	1	0	0	0	0	0	0	0	1	3330	709	25	2		2	CHD7	8	61757864	Silent	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	4403687	61757864	84606158	35	23822											
RRS1	23212	broad.mit.edu;hgsc.bcm.edu	37	chr8	67342089	67342089	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggagcgcctccccaaGgagaaggtgccccggggctc	7	6	14	14	2	1	1	1	0	0	1	3	3	2	2	5	5	2	1	5	5	2	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	67342089	G	T	67342089	3	4	458	1	0	0	0	0	1	0	0	0	13694	991	35	4	725	4	RRS1	8	67342089	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	5584225	67342089	79021933	36	23823											
ZNF704	619279	hgsc.bcm.edu;ucsc.edu	37	chr8	81577290	81577298	+	In_Frame_Del	DEL	ATCACTGTA	ATCACTGTA	-																															tagtaaaagtcctcttctccAtcactgtagtcagagtctcc																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	ATCACTGTA	ATCACTGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	81577298	ATCACTGTA	-	81577290	7	5	458	1	0	1	0	1	0	0	0	0	18106	214	8	0	567	0	ZNF704	8	81577290	In_Frame_Del	DEL	ATCACTGTA	TCGA-CZ-5456-01A-01D-1501-10	14235201	81577290	64786732	37	23824											
PTPDC1	138639	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	96860800	96860800	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatactggcggccaaagcccTagcaaatttaaatgaatctg	15	9	8	9	1	1	1	0	1	1	0	1	1	1	1	2	2	3	1	2	2	8	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	96860800	T	A	96860800	3	1	458	1	0	0	0	0	1	0	0	0	12775	1522	53	5	2054	5	PTPDC1	9	96860800	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10		96860800	44352631	38	23825											
SETX	23064	broad.mit.edu;ucsc.edu	37	chr9	135202159	135202159	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttccaaagatttagaaagaCcagcaattcgtgaagtactc	15	11	7	8	1	0	4	0	1	0	3	3	4	1	4	2	0	2	2	2	0	6	5	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	135202159	A	A	135202159	3	1	458	1	0	0	0	0	1	0	0	0	14143	507	18	4	3275	4	SETX	9	135202159	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	38341359	135202159	6011272	39	23826											
PHYH	5264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	13325777	13325777	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgcccttctccatcaccagGtgcacccgggccttgttttc	4	12	8	17	2	2	0	1	0	1	0	5	0	2	0	5	2	1	2	5	2	0	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	13325777	G	T	13325777	3	4	458	1	0	0	0	0	1	0	0	0	11864	1252	44	4	287	4	PHYH	10	13325777	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10		13325777	122208970	40	23827											
EPC1	80314	hgsc.bcm.edu;ucsc.edu	37	chr10	32582523	32582529	+	Frame_Shift_Del	DEL	CTGACCA	CTGACCA	-																															tacaaatgaagttgtacctgCtgaccactgcctttttctag																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	CTGACCA	CTGACCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	32582529	CTGACCA	-	32582523	7	5	458	1	0	1	0	1	0	0	0	0	5160	796	28	0	2106	0	EPC1	10	32582523	Frame_Shift_Del	DEL	CTGACCA	TCGA-CZ-5456-01A-01D-1501-10	19256746	32582523	102952224	41	23828											
B4GALNT4	338707	broad.mit.edu	37	chr11	379925	379925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggctgcgctgcacgcgCgcaccggggactcgcgtttc	5	7	14	15	7	0	0	0	0	0	0	2	1	0	1	1	3	2	5	1	3	0	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	379925	T	T	379925	3	4	458	1	0	0	0	0	1	0	0	0	1269	768	27	1	2610	1	B4GALNT4	11	379925	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10		379925	134626591	42	23829											
SCUBE2	57758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	9091015	9091015	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagatgtgactacagccgTgatccttattcatgcagctc	9	12	9	11	1	1	3	1	2	0	1	3	3	2	3	2	0	5	3	2	0	2	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	9091015	T	A	9091015	3	1	458	1	0	0	0	0	1	0	0	0	13947	1696	59	5	2617	5	SCUBE2	11	9091015	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10	8711090	9091015	125915501	43	23830											
DENND5A	23258	broad.mit.edu;ucsc.edu	37	chr11	9161237	9161237	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagatgtcgatgcccttgAcaagggacgtctccagcgtg	8	9	13	11	3	2	2	1	1	1	1	4	4	2	3	2	1	2	0	2	1	1	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	9161237	G	G	9161237	3	3	458	1	0	0	0	0	1	0	0	0	4436	275	10	3	22	3	DENND5A	11	9161237	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10	70222	9161237	125845279	44	23831											
CASP1	834	broad.mit.edu;hgsc.bcm.edu	37	chr11	104897592	104897592	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaaaatttcctccacatCacaggaacaggcatattctt	13	10	7	11	1	2	0	1	0	1	0	4	2	4	2	2	3	1	1	2	3	4	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	104897592	C	A	104897592	3	1	458	1	0	0	0	0	1	0	0	0	2668	826	29	4	129	4	CASP1	11	104897592	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	95736355	104897592	30108924	45	23832											
CSDA	8531	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	10854562	10854562	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgactggttggatttacctcTttgccatcttgtgaaggagc	7	15	11	8	0	2	2	0	2	2	0	2	4	2	4	2	3	3	1	2	3	2	5	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	10854562	T	A	10854562	3	1	458	1	0	0	0	0	1	0	0	0	3927	1606	56	5	76	5	CSDA	12	10854562	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10		10854562	122997333	46	23833											
CLYBL	171425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	100543598	100543598	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttactttccaagggagtatGatcgacatgccattactgaa	12	13	8	8	1	0	2	0	2	0	0	2	4	1	3	2	1	3	1	2	1	5	5	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	100543598	G	A	100543598	3	1	458	1	0	0	0	0	1	0	0	0	3573	1290	45	2	984	2	CLYBL	13	100543598	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10		100543598	14626280	47	23834											
COL4A2	1284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	111144511	111144511	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgatggctggccgggagcTccgggcttaccaggtaaggt	7	8	17	9	2	0	1	0	1	0	0	1	3	1	2	3	6	2	4	3	6	2	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	111144511	T	C	111144511	2	2	458	1	0	0	0	0	0	0	0	1	3690	1538	54	3		3	COL4A2	13	111144511	Silent	SNP	T	TCGA-CZ-5456-01A-01D-1501-10	10600913	111144511	4025367	48	23835											
CLMN	79789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	95669872	95669872	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaatactccttttacctAgtttttcagcatgattctca	10	19	3	9	0	2	1	2	1	1	0	4	1	3	1	2	0	3	2	2	0	4	9	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	95669872	A	G	95669872	3	3	458	1	0	0	0	0	1	0	0	0	3542	420	15	3	1214	3	CLMN	14	95669872	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10		95669872	11679668	49	23836											
MTMR10	54893	broad.mit.edu;ucsc.edu	37	chr15	31260141	31260141	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaattgtggtatttttTcccaacatattcaaatgcaa	13	15	5	8	0	1	1	1	1	0	0	2	1	2	1	2	1	2	2	2	1	6	7	rs185348229	by1000genomes	TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	31260141	C	C	31260141	3	2	458	1	0	0	0	0	1	0	0	0	9939	1792	62	3	1830	3	MTMR10	15	31260141	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10		31260141	71271251	50	23837											
PIF1	80119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65114788	65114788	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagctcagcctcttcacagGcaggggccaccttggggctt	7	8	12	14	0	3	0	2	0	1	0	3	0	3	0	3	5	2	3	3	5	1	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	65114788	G	A	65114788	3	1	458	1	0	0	0	0	1	0	0	0	11883	1203	42	2	1389	2	PIF1	15	65114788	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	33854647	65114788	37416604	51	23838											
ACSBG1	23205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78485853	78485853	+	Frame_Shift_Del	DEL	G	G	-																															gcctcttccccaaaccttcaGgatcttttccagctgcttct																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	78485853	G	-	78485853	7	5	458	1	0	1	0	1	0	0	0	0	173	991	35	0	1556	0	ACSBG1	15	78485853	Frame_Shift_Del	DEL	G	TCGA-CZ-5456-01A-01D-1501-10	13371065	78485853	24045539	52	23839											
ARNT2	9915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	80762712	80762712	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgcacatgaagtccatGaggggtacagggaacaagtc	12	7	13	9	1	1	2	0	2	1	0	4	3	2	3	1	3	2	2	1	3	4	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	80762712	G	T	80762712	3	4	458	1	0	0	0	0	1	0	0	0	966	1290	45	4	362	4	ARNT2	15	80762712	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	2276859	80762712	21768680	53	23840											
PARN	5073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	14711480	14711480	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttattaaaatcaaatccctGgcttgctagaaagtcaatgc	14	13	6	8	0	2	1	2	0	0	1	3	1	3	1	1	1	2	2	1	1	7	5	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		A	14711480	G	A	14711480	4	1	458	1	0	0	0	0	0	1	0	0	11453	1357	47	2	1640	2	PARN	16	14711480	Nonsense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10		14711480	75643273	54	23841											
ZNF688	146542	broad.mit.edu	37	chr16	30581350	30581351	+	Frame_Shift_Ins	INS	-	C	C																															ccaggcctccggccccgccgINSccccccggagcaggagcggt																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	30581351	C	C	30581350	7	5	458	1	0	1	1	0	0	0	0	0	18092	1086	38	0	116	0	ZNF688	16	30581350	Frame_Shift_Ins	INS	-	TCGA-CZ-5456-01A-01D-1501-10	15869870	30581350	59773403	55	23842											
SAFB2	9667	broad.mit.edu;ucsc.edu	37	chr19	5613494	5613494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accggagttactttgaagttCaacgatgaagtttccaaagt	13	12	9	7	2	1	2	1	2	0	0	2	4	2	3	2	1	2	3	2	1	5	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	5613494	T	T	5613494	2	4	458	1	0	0	0	0	0	0	0	1	13809	825	29	2		2	SAFB2	19	5613494	Silent	SNP	C	TCGA-CZ-5456-01A-01D-1501-10		5613494	53515489	56	23843											
COL5A3	50509	broad.mit.edu;hgsc.bcm.edu	37	chr19	10087919	10087919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcaccgcgtctcctttatCgcctttactccccttgtgtc	4	15	5	17	3	2	0	1	0	1	0	6	0	3	0	5	0	1	0	5	0	2	5	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	10087919	C	T	10087919	3	4	458	1	0	0	0	0	1	0	0	0	3698	884	31	1	2059	1	COL5A3	19	10087919	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	4474425	10087919	49041064	57	23844											
MRPL4	51073	broad.mit.edu;ucsc.edu	37	chr19	10370469	10370469	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgctacccagggcccagcgGccaccccgtaccactgttga	8	5	10	18	3	0	1	0	1	0	0	0	1	0	1	6	2	3	3	6	2	2	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	10370469	T	T	10370469	3	4	458	1	0	0	0	0	1	0	0	0	9803	1203	42	4	1003	4	MRPL4	19	10370469	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	282550	10370469	48758514	58	23845											
MLL4	9757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36221724	36221724	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagctcacctggaggctgCagaggagaaccagaccattg	11	5	13	12	0	1	3	1	0	0	3	1	5	1	4	4	3	3	3	4	3	1	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	36221724	C	G	36221724	3	3	458	1	0	0	0	0	1	0	0	0	9623	710	25	4	5495	4	MLL4	19	36221724	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	25851255	36221724	22907259	59	23846											
ZNF331	55422	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	54080261	54080261	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctatcaacttagtcaacaTcagaaaatccatactggtga	15	10	7	9	0	3	2	3	1	0	1	4	2	4	2	1	2	3	1	1	2	7	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	54080261	T	G	54080261	3	3	458	1	0	0	0	0	1	0	0	0	17848	1432	50	5	457	5	ZNF331	19	54080261	Missense_Mutation	SNP	T	TCGA-CZ-5456-01A-01D-1501-10	17858537	54080261	5048722	60	23847											
ZNF805	390980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57752278	57752278	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtatggcgatggctttgacgGacccggcgcaggtgagtgga	7	8	18	8	4	0	2	0	2	0	0	0	5	0	4	1	6	0	3	1	6	1	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	57752278	G	T	57752278	3	4	458	1	0	0	0	0	1	0	0	0	18171	1174	41	4	21	4	ZNF805	19	57752278	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	3672017	57752278	1376705	61	23848											
DEFB126	81623	hgsc.bcm.edu	37	chr20	126314	126314	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcttcgatggctcctacccCcgtttctcccactggttgaa	5	13	8	15	2	2	1	0	1	2	0	5	2	3	1	4	2	1	3	4	2	2	4	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		G	126314	C	G	126314	3	3	458	1	0	0	0	0	1	0	0	0	4412	623	22	4	323	4	DEFB126	20	126314	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10		126314	62899206	62	23849											
PCK1	5105	broad.mit.edu	37	chr20	56140965	56140967	+	3'UTR	DEL	ATC	-	-																															aaattgacgccaccataataAtcatcaccacaccgtgagca																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	ATC	ATC	ATC	-	ATC	ATC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		-	56140967	-	-	56140965	6	5	458	0	1	1	0	1	0	0	0	0	11581	116	4	0		0	PCK1	20	56140965	3'UTR	DEL	ATC	TCGA-CZ-5456-01A-01D-1501-10	56014651	56140965	6884555	63	23850											
SLCO4A1	28231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	61299368	61299368	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgttgggcttcccaggtgtAccgagactgtagctgtatcc	6	13	12	10	1	0	1	0	0	0	1	2	2	2	1	3	2	2	6	3	2	3	6	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	61299368	A	T	61299368	3	4	458	1	0	0	0	0	1	0	0	0	14731	391	14	5	1673	5	SLCO4A1	20	61299368	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10	5158403	61299368	1726152	64	23851											
KRTAP19-8	728299	hgsc.bcm.edu	37	chr21	32410670	32410671	+	Frame_Shift_Ins	INS	-	-	C																															catagcccaacctgcggaagINSctgccatagccgcagccata																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	32410671	-	C	32410670	7	5	458	1	0	1	1	0	0	0	0	0	8535	962	34	0	102	0	KRTAP19-8	21	32410670	Frame_Shift_Ins	INS	-	TCGA-CZ-5456-01A-01D-1501-10		32410670	15719225	65	23852											
NEFH	4744	hgsc.bcm.edu	37	chr22	29885577	29885578	+	In_Frame_Ins	INS	-	-	AGAAGGCCAAGTCCCCTG																															ggaggaagcaaagtcccctgINSagaaggccaagtccccagag																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		AGAAGGCCAAGTCCCCTG	29885578	-	AGAAGGCCAAGTCCCCTG	29885577	7	5	458	1	0	1	1	0	0	0	0	0	10314	1291	45	0	1962	0	NEFH	22	29885577	In_Frame_Ins	INS	-	TCGA-CZ-5456-01A-01D-1501-10		29885577	21418989	66	23853											
DDX3X	1654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	41203543	41203544	+	Frame_Shift_Ins	INS	-	-	T																															ggtttatggtggtgccgataINSttggtcagcagattcgagac																								novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	41203544	-	T	41203543	7	5	458	1	0	1	1	0	0	0	0	0	4358	449	16	0	954	0	DDX3X	23	41203543	Frame_Shift_Ins	INS	-	TCGA-CZ-5456-01A-01D-1501-10		41203543	114067017	67	23854											
SLC7A3	84889	broad.mit.edu;ucsc.edu	37	chrX	70147708	70147708	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgggcaggagcccatccaAtgtagagaaatgcctcaggc	12	5	13	11	1	1	1	1	0	0	1	2	3	2	2	3	3	3	2	3	3	3	1	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		C	70147708	C	C	70147708	3	2	458	1	0	0	0	0	1	0	0	0	14700	101	4	5	904	5	SLC7A3	23	70147708	Missense_Mutation	SNP	A	TCGA-CZ-5456-01A-01D-1501-10	28944165	70147708	85122852	68	23855											
RAB33A	9363	broad.mit.edu;hgsc.bcm.edu	37	chrX	129306194	129306194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgggcaagacctgcctgaCcttccgcttctgcgggggta	5	9	14	13	3	1	2	0	1	1	1	2	2	2	2	4	3	2	3	4	3	2	3	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	129306194	C	T	129306194	3	4	458	1	0	0	0	0	1	0	0	0	12924	507	18	2	160	2	RAB33A	23	129306194	Missense_Mutation	SNP	C	TCGA-CZ-5456-01A-01D-1501-10	59158486	129306194	25964366	69	23856											
PASD1	139135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	150842545	150842545	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaccctggagaccccacagGattacatccggctttggcaa	10	7	10	14	1	0	1	0	0	0	1	1	3	1	2	4	4	1	3	4	4	2	2	novel		TCGA-CZ-5456-01A-01D-1501-10	TCGA-CZ-5456-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	45d5c746-60e3-4531-8db0-fd648811d45f	fe4271a8-7eda-4760-b5fb-c3f160edde4a		T	150842545	G	T	150842545	3	4	458	1	0	0	0	0	1	0	0	0	11471	1174	41	4	2116	4	PASD1	23	150842545	Missense_Mutation	SNP	G	TCGA-CZ-5456-01A-01D-1501-10	21536351	150842545	4428015	70	23857											
WDR8	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	3564112	3564112	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaccactaaccggtactGgacacaggaagcctaaaaaa	16	4	9	12	2	0	0	0	0	0	0	0	3	0	3	4	4	3	1	4	4	6	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	3564112	G	A	3564112	4	1	459	1	0	0	0	0	0	1	0	0	17328	1357	47	2	1344	2	WDR8	1	3564112	Nonsense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10		3564112	245686509	1	23858											
DNAJC11	55735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	6704634	6704634	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacttgactttgagagaaaCaccctgtggaactccaacgc	12	10	8	11	1	0	3	0	2	0	1	1	5	1	4	2	1	4	0	2	1	4	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	6704634	C	T	6704634	3	4	459	1	0	0	0	0	1	0	0	0	4630	478	17	2	626	2	DNAJC11	1	6704634	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	3140522	6704634	242545987	2	23859											
UBXN11	91544	broad.mit.edu	37	chr1	26608890	26608891	+	Frame_Shift_Del	DEL	CC	-	-																															gactggggccgggaccgggaCcgggacagggaccaggactg																								rs140364749	bycluster;by1000genomes;alternate_allele	TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	26608891	-	-	26608890	7	5	459	1	0	1	0	1	0	0	0	0	16912	507	18	0	103	0	UBXN11	1	26608890	Frame_Shift_Del	DEL	CC	TCGA-CZ-5457-01A-01D-1501-10	19904256	26608890	222641731	3	23860	340	2									
UBXN11	91544	broad.mit.edu	37	chr1	26608893	26608896	+	Frame_Shift_Del	DEL	GGAC	-	-																															tggggccgggaccgggaccgGgacagggaccaggactgaat																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	GGAC	GGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	26608896	-	-	26608893	7	5	459	1	0	1	0	1	0	0	0	0	16912	1232	43	0	106	0	UBXN11	1	26608893	Frame_Shift_Del	DEL	GGAC	TCGA-CZ-5457-01A-01D-1501-10	3	26608893	222641728	4	23861	340	2									
DDX20	11218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	112308358	112308358	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttttcttcctttttatgtaGatcccattccttctggtctg	4	22	5	10	0	3	1	0	0	3	1	6	1	6	1	3	1	0	1	3	1	2	9	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	112308358	G	A	112308358	5	1	459	1	0	0	0	0	0	0	1	0	4348	956	33	2	1354	2	DDX20	1	112308358	Splice_Site	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	85699465	112308358	136942263	5	23862											
CELF3	11189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151688472	151688472	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggatctgccccacaaacaGcttgatggcatccggctcct	8	8	10	15	2	1	1	0	1	1	0	3	2	3	2	4	3	3	3	4	3	1	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	151688472	G	A	151688472	2	1	459	1	0	0	0	0	0	0	0	1	3217	962	34	2		2	CELF3	1	151688472	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	39380114	151688472	97562149	6	23863											
ILDR2	387597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	166944470	166944470	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggactcttacctgttagccaGaagagagaaatccacctcag	13	8	9	11	0	2	3	1	0	1	3	3	5	3	4	4	1	2	1	4	1	4	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	166944470	G	A	166944470	2	1	459	1	0	0	0	0	0	0	0	1	7710	933	33	2		2	ILDR2	1	166944470	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	15255998	166944470	82306151	7	23864											
DPT	1805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	168698362	168698362	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccataatcgccatactggccCcaggccatggtgactagggg	9	7	12	13	1	0	1	0	1	0	0	1	1	0	1	5	5	1	0	5	5	3	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	168698362	C	T	168698362	4	4	459	1	0	0	0	0	0	1	0	0	4739	624	22	2	570	2	DPT	1	168698362	Nonsense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	1753892	168698362	80552259	8	23865											
SLC9A11	0	hgsc.bcm.edu	37	chr1	173517587	173517587	+	Frame_Shift_Del	DEL	T	T	-																															ccagttaacatttgtcaaaaTtttttctgttttaaataaag																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	173517587	T	-	173517587	7	5	459	1	0	1	0	1	0	0	0	0	14713	1493	52	0	2040	0	SLC9A11	1	173517587	Frame_Shift_Del	DEL	T	TCGA-CZ-5457-01A-01D-1501-10	4819225	173517587	75733034	9	23866											
KIF14	9928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200587322	200587322	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttcatctaaaggtacagaaGaggcaacaaaagagttttta	17	10	8	6	0	2	3	1	0	1	3	2	3	2	3	0	2	2	3	0	2	8	6	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	200587322	G	C	200587322	3	2	459	1	0	0	0	0	1	0	0	0	8276	942	33	4	4532	4	KIF14	1	200587322	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	27069735	200587322	48663299	10	23867											
REN	5972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204128614	204128614	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaccctgccaatggccTgttcaatgaagcccatgccc	8	8	11	14	0	1	2	1	2	0	0	1	2	1	2	5	2	3	1	5	2	3	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	204128614	T	A	204128614	3	1	459	1	0	0	0	0	1	0	0	0	13226	1580	55	5	642	5	REN	1	204128614	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	3541292	204128614	45122007	11	23868											
USH2A	7399	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	215955490	215955490	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagctcagtgatgttcccCgaaaacgttcaattccattt	12	12	7	10	2	2	2	2	1	0	1	4	3	4	2	3	0	2	3	3	0	4	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	215955490	C	T	215955490	3	4	459	1	0	0	0	0	1	0	0	0	17035	652	23	1	5050	1	USH2A	1	215955490	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	11826876	215955490	33295131	12	23869											
PRKD3	23683	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	37501595	37501595	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgccctggagaagtgcaAacacttgcttgaggagtaac	11	9	11	10	0	0	2	0	1	0	1	0	4	0	3	2	2	5	3	2	2	3	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	37501595	A	C	37501595	2	2	459	1	0	0	0	0	0	0	0	1	12522	1	1	5		5	PRKD3	2	37501595	Silent	SNP	A	TCGA-CZ-5457-01A-01D-1501-10		37501595	205697778	13	23870											
FIGN	55137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	164468066	164468066	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actagtcctgatggtgtgtcCgaatagttgctgagtacggg	8	12	14	7	2	0	2	0	2	0	0	2	3	2	2	2	2	2	3	2	2	4	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	164468066	C	T	164468066	2	4	459	1	0	0	0	0	0	0	0	1	5891	639	23	1		1	FIGN	2	164468066	Silent	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	126966471	164468066	78731307	14	23871											
NEUROD1	4760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	182542705	182542705	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggtaaaggcataattttTctcaaactcggcggacggtt	11	12	10	8	3	1	0	1	0	1	0	3	1	1	1	0	5	1	3	0	5	4	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	182542705	T	C	182542705	3	2	459	1	0	0	0	0	1	0	0	0	10348	1792	62	3	191	3	NEUROD1	2	182542705	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	18074639	182542705	60656668	15	23872											
ADAM23	8745	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	207413075	207413075	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagaaggaagagagcagtGaatgtgagtgtggcattgag	16	7	16	2	0	0	5	0	3	0	2	0	7	0	6	0	2	1	2	0	2	5	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	207413075	G	T	207413075	2	4	459	1	0	0	0	0	0	0	0	1	245	1277	45	4		4	ADAM23	2	207413075	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	24870370	207413075	35786298	16	23873											
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	212576841	212576841	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagtttatgaatttgtcaAtgttactggaatccacagtc	12	15	7	7	0	1	1	1	1	0	0	3	2	2	2	1	1	2	2	1	1	6	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	212576841	A	T	212576841	3	4	459	1	0	0	0	0	1	0	0	0	5209	101	4	5	2948	5	ERBB4	2	212576841	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	5163766	212576841	30622532	17	23874											
SPEG	10290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	220333895	220333895	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcgaagctggagaagaTgccatccattcccgaggagc	11	6	12	12	2	0	2	0	0	0	2	3	6	2	3	3	2	4	2	3	2	2	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	220333895	T	G	220333895	3	3	459	1	0	0	0	0	1	0	0	0	15037	1464	51	5	3571	5	SPEG	2	220333895	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	7757054	220333895	22865478	18	23875											
CUL3	8452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225360600	225360600	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcattaatatggtcatctgGaaagtggaaacttgcaatat	15	12	9	5	0	2	0	1	0	1	0	2	2	2	2	0	3	3	2	0	3	6	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	225360600	G	T	225360600	3	4	459	1	0	0	0	0	1	0	0	0	4056	1165	41	4	531	4	CUL3	2	225360600	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	5026705	225360600	17838773	19	23876											
USP40	55230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234468567	234468567	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taactgtaaagggatgattcGaacctgaatgagaaacaaac	18	8	9	6	1	0	3	0	3	0	1	1	6	0	4	1	1	4	1	1	1	7	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	234468567	G	A	234468567	4	1	459	1	0	0	0	0	0	1	0	0	17071	1066	37	1	3552	1	USP40	2	234468567	Nonsense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	9107967	234468567	8730806	20	23877											
SPCS1	28972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52741704	52741704	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcttttctggcccagcTgacacttcctccatggccca	5	13	6	17	0	2	1	0	1	2	0	5	1	5	1	5	2	1	1	5	2	0	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	52741704	T	G	52741704	3	3	459	1	0	0	0	0	1	0	0	0	15024	1594	55	5	400	5	SPCS1	3	52741704	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10		52741704	145280726	21	23878											
MUC4	4585	hgsc.bcm.edu	37	chr3	195506550	195506597	+	In_Frame_Del	DEL	GGTGGCGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGG	GGTGGCGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGG	-																															cggctggtgacaggaagagaGgtggcgtgacctgtggatac																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	GGTGGCGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGG	GGTGGCGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	195506597	GGTGGCGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGG	-	195506550	7	5	459	1	0	1	0	1	0	0	0	0	9978	987	35	0		0	MUC4	3	195506550	In_Frame_Del	DEL	GGTGGCGTGACCTGTGGATACTGAGGAAGTGTCGGTGACAGGAAGAGG	TCGA-CZ-5457-01A-01D-1501-10	142764846	195506550	2515880	22	23879											
KDR	3791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	55956163	55956163	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatctttataaatatccCgggccaagccaaagtcacag	13	9	8	11	1	2	0	1	0	1	0	3	1	3	1	3	2	1	0	3	2	6	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	55956163	C	T	55956163	3	4	459	1	0	0	0	0	1	0	0	0	8139	652	23	1	950	1	KDR	4	55956163	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10		55956163	135198113	23	23880											
ADH5	128	broad.mit.edu;hgsc.bcm.edu	37	chr4	99997942	99997942	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaggtgctaaaggatctatTttagcaacagagatatcagc	16	10	9	6	0	2	1	1	0	1	1	2	3	2	2	0	2	4	2	0	2	7	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	99997942	T	A	99997942	3	1	459	1	0	0	0	0	1	0	0	0	311	1838	64	5	667	5	ADH5	4	99997942	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	44041779	99997942	91156334	24	23881											
TKTL2	84076	broad.mit.edu;ucsc.edu	37	chr4	164393649	164393649	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaaccaataaggttgataTtggcttgagaaatggctccc	12	10	12	7	0	0	2	0	2	0	1	1	4	1	3	2	4	1	3	2	4	5	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	164393649	G	G	164393649	3	3	459	1	0	0	0	0	1	0	0	0	15935	1493	52	5	646	5	TKTL2	4	164393649	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	64395707	164393649	26760627	25	23882											
TRIO	7204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	14485224	14485224	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggaaaatgatccctgtaAatttgctctgacatcgagga	12	12	10	7	1	1	2	0	2	1	0	3	5	2	4	1	2	1	2	1	2	4	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	14485224	A	T	14485224	3	4	459	1	0	0	0	0	1	0	0	0	16551	14	1	5	6890	5	TRIO	5	14485224	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10		14485224	166430036	26	23883											
HCN1	348980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	45262062	45262062	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtggcttttctgcgtctggGtctgtgtttaagactgagga	5	15	14	7	2	3	2	0	1	3	1	3	3	3	3	0	3	1	2	0	3	1	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	45262062	G	C	45262062	3	2	459	1	0	0	0	0	1	0	0	0	6996	1252	44	4	42	4	HCN1	5	45262062	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	30776838	45262062	135653198	27	23884											
MSH3	4437	hgsc.bcm.edu	37	chr5	80057496	80057496	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtagcatttatcacaaaaAagtaagtgtgatagaaatct	17	12	7	5	0	2	2	1	1	1	1	2	2	2	2	0	0	1	3	0	0	8	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	80057496	A	C	80057496	3	2	459	1	0	0	0	0	1	0	0	0	9871	28	1	5	1945	5	MSH3	5	80057496	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	34795434	80057496	100857764	28	23885											
AQPEP	206338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	115327884	115327884	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggactaatgatatttgaTgaatcaggattgttgttgga	11	15	13	2	0	1	3	1	3	0	0	1	6	1	6	0	4	0	2	0	4	3	6	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	115327884	T	A	115327884	3	1	459	1	0	0	0	0	1	0	0	0	834	1461	51	5	1188	5	AQPEP	5	115327884	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	35270388	115327884	65587376	29	23886											
ARHGAP26	23092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	142150382	142150382	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgatagtccgcacttccGagagacgctcaagtcgcacg	9	7	10	15	6	1	1	1	0	0	1	5	4	3	1	3	0	0	3	3	0	2	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	142150382	G	T	142150382	3	4	459	1	0	0	0	0	1	0	0	0	875	1058	37	4	58	4	ARHGAP26	5	142150382	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	26822498	142150382	38764878	30	23887											
DOCK2	1794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	169145692	169145692	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cagtgctgaagacttacttgGatacctccagcagaggggag	11	8	13	9	0	0	3	0	1	0	2	1	5	1	5	2	3	4	2	2	3	3	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	169145692	G	C	169145692	3	2	459	1	0	0	0	0	1	0	0	0	4687	1174	41	4	2250	4	DOCK2	5	169145692	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	26995310	169145692	11769568	31	23888											
CUL9	23113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43188337	43188337	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgccagaggtcatctccaaGgtatcccctctcgtctgaga	8	10	9	14	2	4	2	1	1	3	2	8	3	5	2	4	2	0	1	4	2	2	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	43188337	G	A	43188337	2	1	459	1	0	0	0	0	0	0	0	1	4061	1014	35	2		2	CUL9	6	43188337	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10		43188337	127926730	32	23889											
ARID1B	57492	broad.mit.edu;hgsc.bcm.edu	37	chr6	157469827	157469827	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcccagggcccggtaTgggtatcagtgccaacaacc	9	5	13	14	2	1	0	1	0	0	0	1	0	1	0	4	4	4	2	4	4	4	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	157469827	T	A	157469827	3	1	459	1	0	0	0	0	1	0	0	0	914	1464	51	5	2655	5	ARID1B	6	157469827	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	114281490	157469827	13645240	33	23890											
TULP4	56995	broad.mit.edu;ucsc.edu	37	chr6	158924983	158924983	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagggcagcagaaagggcTggaaaagcaagcgctcccca	13	2	14	12	1	0	1	0	0	0	1	1	2	1	2	3	3	3	5	3	3	4	0	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	158924983	A	A	158924983	3	1	459	1	0	0	0	0	1	0	0	0	16775	1580	55	5	4338	5	TULP4	6	158924983	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	1455156	158924983	12190084	34	23891											
TTYH3	80727	broad.mit.edu	37	chr7	2698601	2698601	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aacgctaatttccagaacccCcgctgtgagaacaccccact	12	7	6	16	2	0	2	0	1	0	2	1	3	1	2	5	0	3	2	5	0	4	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	2698601	T	T	2698601	2	4	459	1	0	0	0	0	0	0	0	1	16740	610	22	2		2	TTYH3	7	2698601	Silent	SNP	C	TCGA-CZ-5457-01A-01D-1501-10		2698601	156440062	35	23892											
TPST1	8460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	65705728	65705728	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaaccagggtcattcccCgaatcctggccctgaagcag	11	6	11	13	1	1	1	1	1	0	0	3	3	3	2	5	3	2	1	5	3	3	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	65705728	C	T	65705728	4	4	459	1	0	0	0	0	0	1	0	0	16426	644	23	1	318	1	TPST1	7	65705728	Nonsense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	63007127	65705728	93432935	36	23893											
SPAG8	26206	hgsc.bcm.edu	37	chr9	35811508	35811508	+	Missense_Mutation	SNP	A	A	G																															aggaccagagccaggaccagAgccaggaccaggaccagagc																								rs28409023		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	35811508	A	G	35811508	3	3	459	1	0	0	0	0	1	0	0	0	14986	304	11	3	1197	3	SPAG8	9	35811508	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10		35811508	105401923	37	23894	341	2									
SPAG8	26206	hgsc.bcm.edu	37	chr9	35811509	35811509	+	Silent	SNP	G	G	A																															ggaccagagccaggaccagaGccaggaccaggaccagagcc																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	35811509	G	A	35811509	2	1	459	1	0	0	0	0	0	0	0	1	14986	958	34	2		2	SPAG8	9	35811509	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	1	35811509	105401922	38	23895	341	2									
OR13C2	392376	broad.mit.edu;hgsc.bcm.edu	37	chr9	107367525	107367525	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgatgggatatctcagaggGttgcagatagccacatagcg	12	9	13	7	1	1	3	1	1	1	2	2	4	1	4	1	2	3	2	1	2	3	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	107367525	G	A	107367525	2	1	459	1	0	0	0	0	0	0	0	1	10934	1252	44	2		2	OR13C2	9	107367525	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	71556016	107367525	33845906	39	23896											
NUP214	8021	hgsc.bcm.edu;ucsc.edu	37	chr9	134067639	134067640	+	Frame_Shift_Del	DEL	TC	TC	-																															tgacttcaaccccatctgctTctgggcagttcagcaagcct																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	134067640	TC	-	134067639	7	5	459	1	0	1	0	1	0	0	0	0	10762	1783	62	0	3725	0	NUP214	9	134067639	Frame_Shift_Del	DEL	TC	TCGA-CZ-5457-01A-01D-1501-10	26700114	134067639	7145792	40	23897											
EGFL7	51162	broad.mit.edu	37	chr9	139563044	139563044	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgggctcacggggaccCtgtctccgagtcgttcgtgc	3	10	14	14	5	2	0	1	0	1	0	6	2	3	1	3	3	1	2	3	3	0	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	139563044	G	G	139563044	3	3	459	1	0	0	0	0	1	0	0	0	4964	681	24	4	122	4	EGFL7	9	139563044	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	5495405	139563044	1650387	41	23898											
AGAP7	653268	hgsc.bcm.edu	37	chr10	51485991	51485991	+	Frame_Shift_Del	DEL	C	C	-																															ctcctcaccttcaggcatctCccggtcacgaacgtggtgca																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	51485991	C	-	51485991	7	5	459	1	0	1	0	1	0	0	0	0	373	864	30	0	1808	0	AGAP7	10	51485991	Frame_Shift_Del	DEL	C	TCGA-CZ-5457-01A-01D-1501-10		51485991	84048756	42	23899											
PLAU	5328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75676303	75676303	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccgcagtcacaccaaggaaGagaatggcctggccctctga	11	6	11	13	1	2	2	1	1	1	1	3	4	3	3	4	3	0	1	4	3	3	0	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	75676303	G	C	75676303	3	2	459	1	0	0	0	0	1	0	0	0	12022	943	33	4	1352	4	PLAU	10	75676303	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	24190312	75676303	59858444	43	23900											
TNKS2	80351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	93604754	93604754	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcccaagacaaaggaggacTtattcctttacataatgcag	14	10	8	9	0	0	1	0	0	0	1	1	3	1	3	2	2	3	1	2	2	5	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	93604754	T	C	93604754	3	2	459	1	0	0	0	0	1	0	0	0	16320	1609	56	3	2204	3	TNKS2	10	93604754	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	17928451	93604754	41929993	44	23901											
EIF4G2	1982	broad.mit.edu;hgsc.bcm.edu	37	chr11	10820873	10820873	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcttgaaagatagtagtAgttgtttttcctgctctaac	9	16	9	7	0	1	2	0	1	1	1	2	2	2	2	1	1	2	6	1	1	5	8	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	10820873	A	G	10820873	3	3	459	1	0	0	0	0	1	0	0	0	5037	420	15	3	312	3	EIF4G2	11	10820873	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10		10820873	124185643	45	23902											
KCNA4	3739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	30033589	30033589	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactcattgcgcaaagggtCaaagtactgagtcctctttt	11	13	8	9	1	3	1	2	1	1	0	4	1	4	1	1	1	3	2	1	1	4	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	30033589	C	A	30033589	3	1	459	1	0	0	0	0	1	0	0	0	8005	826	29	4	1328	4	KCNA4	11	30033589	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	19212716	30033589	104972927	46	23903											
CACNA1C	775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	2675675	2675675	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ttctactggctggtgattttCctggtgttcctcaacacgct	5	16	9	11	1	2	1	1	1	1	0	4	1	4	1	2	3	2	3	2	3	2	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	2675675	C	G	2675675	3	3	459	1	0	0	0	0	1	0	0	0	2540	854	30	4	1750	4	CACNA1C	12	2675675	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10		2675675	131176220	47	23904											
ERP27	121506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	15087884	15087884	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacacgcctgggaattttTgcaccatgctatggagtatg	10	12	11	8	1	0	1	0	1	0	0	0	3	0	3	2	2	2	3	2	2	3	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	15087884	T	C	15087884	3	2	459	1	0	0	0	0	1	0	0	0	5241	1812	63	3	602	3	ERP27	12	15087884	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	12412209	15087884	118764011	48	23905											
COL2A1	1280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	48388230	48388230	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggaccaggcggacccctttCaccagcttttccaggttttc	7	11	9	14	1	1	0	1	0	0	0	3	2	2	2	5	4	1	2	5	4	0	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	48388230	C	T	48388230	3	4	459	1	0	0	0	0	1	0	0	0	3687	835	29	2	3842	2	COL2A1	12	48388230	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	33300346	48388230	85463665	49	23906											
MLL2	8085	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	49436587	49436587	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccaggggttccacaacccaGatgctgttctcgttcagagc	8	9	11	13	1	2	2	1	0	1	2	4	2	3	2	3	2	3	4	3	2	1	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	49436587	G	C	49436587	3	2	459	1	0	0	0	0	1	0	0	0	9621	933	33	4	11010	4	MLL2	12	49436587	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	1048357	49436587	84415308	50	23907											
NUP37	79023	hgsc.bcm.edu;ucsc.edu	37	chr12	102471203	102471203	+	Frame_Shift_Del	DEL	C	C	-																															tgacattaatggcacttgttCtgattcaagagataaaatag																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	102471203	C	-	102471203	7	5	459	1	0	1	0	1	0	0	0	0	10764	922	32	0	377	0	NUP37	12	102471203	Frame_Shift_Del	DEL	C	TCGA-CZ-5457-01A-01D-1501-10	53034616	102471203	31380692	51	23908											
DAO	1610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109290797	109290797	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggtggacgccccttggAtgaagcacttcattctcacc	10	9	9	13	1	2	1	2	1	1	0	3	3	2	3	3	3	2	1	3	3	2	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	109290797	A	G	109290797	3	3	459	1	0	0	0	0	1	0	0	0	4231	333	12	3	654	3	DAO	12	109290797	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	6819594	109290797	24561098	52	23909											
P2RX4	5025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	121660766	121660766	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtaggagtctcaacaggcagGtgcgtagctttcaacgggtc	9	9	14	9	2	2	0	2	0	1	0	4	1	2	1	0	4	4	4	0	4	4	3	rs140643624		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	121660766	G	A	121660766	2	1	459	1	0	0	0	0	0	0	0	1	11342	1252	44	2		2	P2RX4	12	121660766	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	12369969	121660766	12191129	53	23910											
LTB4R	1241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24785139	24785139	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggttgccgcctgtgtcaCtatgtctgcggagtcagcat	5	12	13	11	2	3	0	2	0	1	0	3	1	3	1	2	2	3	3	2	2	1	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	24785139	C	T	24785139	2	4	459	1	0	0	0	0	0	0	0	1	9071	564	20	2		2	LTB4R	14	24785139	Silent	SNP	C	TCGA-CZ-5457-01A-01D-1501-10		24785139	82564401	54	23911											
VIPAR	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77916095	77916095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacttccaggtctagttctaCctaaaggtaaagaacacaag	16	9	7	9	0	2	1	0	0	2	1	3	1	3	1	2	2	3	2	2	2	9	6	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	77916095	C	T	77916095	3	4	459	1	0	0	0	0	1	0	0	0	17167	521	18	2	1201	2	VIPAR	14	77916095	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	53130956	77916095	29433445	55	23912											
THBS1	7057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	39881491	39881491	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacaactgcctgccctgccCcccacgcttcaccggctcac	6	7	6	22	2	2	0	2	0	0	0	2	0	2	0	6	1	5	2	6	1	2	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	39881491	C	A	39881491	3	1	459	1	0	0	0	0	1	0	0	0	15852	623	22	4	1904	4	THBS1	15	39881491	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10		39881491	62649901	56	23913											
TGM7	116179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43577100	43577100	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctatccacgttgtgcgCggaacggaaattggaaacaa	12	9	11	9	4	0	0	0	0	0	0	2	3	2	3	2	3	3	2	2	3	5	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	43577100	C	T	43577100	3	4	459	1	0	0	0	0	1	0	0	0	15834	768	27	1	1244	1	TGM7	15	43577100	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	3695609	43577100	58954292	57	23914											
ZNF280D	54816	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	56924221	56924221	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttcattttccttatctgaAactgttatgctttcttcact	7	21	4	9	0	4	1	2	1	2	0	5	1	5	1	1	0	2	3	1	0	3	7	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	56924221	A	C	56924221	2	2	459	1	0	0	0	0	0	0	0	1	17816	1	1	5		5	ZNF280D	15	56924221	Silent	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	13347121	56924221	45607171	58	23915											
BCL2A1	597	broad.mit.edu;hgsc.bcm.edu	37	chr15	80253460	80253460	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacagatctttcctgtaacTtctagaaaagtcatccagcc	12	12	5	12	0	4	2	2	0	2	2	6	2	6	2	3	0	2	1	3	0	4	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	80253460	T	A	80253460	3	1	459	1	0	0	0	0	1	0	0	0	1366	1606	56	5	54	5	BCL2A1	15	80253460	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	23329239	80253460	22277932	59	23916											
IFT140	9742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1616280	1616280	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagcagattttggaatcagGgctgttgtcagcctaggaga	11	10	14	6	0	2	2	2	0	0	2	2	5	2	3	1	3	2	3	1	3	3	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	1616280	G	A	1616280	3	1	459	1	0	0	0	0	1	0	0	0	7556	1232	43	2	2669	2	IFT140	16	1616280	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10		1616280	88738473	60	23917											
MKL2	57496	broad.mit.edu;ucsc.edu	37	chr16	14355166	14355166	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgacctgtcagactcaaaCttggacaacatggagtggtt	11	10	10	10	1	2	1	2	0	0	1	3	4	2	3	1	3	2	1	1	3	2	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	14355166	G	G	14355166	3	3	459	1	0	0	0	0	1	0	0	0	9602	564	20	4	3073	4	MKL2	16	14355166	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	12738886	14355166	75999587	61	23918											
ERI2	112479	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	20810063	20810063	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcattttttccttgcttttgCatatagataggtgaattcaa	10	19	6	6	0	2	2	2	1	0	1	3	2	3	2	1	1	2	2	1	1	5	10	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	20810063	C	T	20810063	3	4	459	1	0	0	0	0	1	0	0	0	5228	710	25	2	1287	2	ERI2	16	20810063	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	6454897	20810063	69544690	62	23919											
N4BP1	9683	hgsc.bcm.edu;ucsc.edu	37	chr16	48595382	48595382	+	Frame_Shift_Del	DEL	A	A	-																															aaaattctctgtcttcttggAatcttttattttctttttca																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	48595382	A	-	48595382	7	5	459	1	0	1	0	1	0	0	0	0	10109	246	9	0	1542	0	N4BP1	16	48595382	Frame_Shift_Del	DEL	A	TCGA-CZ-5457-01A-01D-1501-10	27785319	48595382	41759371	63	23920											
CES2	8824	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	66973125	66973125	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccctggttaccaggtgtcTacaggacctcaccgcagtgg	7	9	12	13	1	2	0	1	0	1	0	2	1	2	1	4	4	3	2	4	4	2	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	66973125	T	C	66973125	3	2	459	1	0	0	0	0	1	0	0	0	3270	1522	53	3	489	3	CES2	16	66973125	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	18377743	66973125	23381628	64	23921											
CDH3	1001	broad.mit.edu;hgsc.bcm.edu	37	chr16	68721619	68721619	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactcagacatctactggaCggcagaggtcaacgaggaag	13	6	13	9	2	3	3	2	1	1	2	3	6	3	5	0	4	2	1	0	4	3	1	rs145851551		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	68721619	C	T	68721619	3	4	459	1	0	0	0	0	1	0	0	0	3111	536	19	1	1821	1	CDH3	16	68721619	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	1748494	68721619	21633134	65	23922											
METT10D	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	2323880	2323880	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttccacagggaactcgtTtatgctggacctgtttggag	7	14	11	9	1	0	0	0	0	0	0	2	3	1	3	2	3	2	3	2	3	2	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	2323880	T	G	2323880	3	3	459	1	0	0	0	0	1	0	0	0	9490	1841	64	5	619	5	METT10D	17	2323880	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10		2323880	78871330	66	23923											
NUFIP2	57532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27613674	27613674	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaatctgtcccagaagaGatgggtgttagagtattagc	12	11	12	6	0	1	4	0	1	1	3	2	5	2	4	1	1	1	2	1	1	5	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	27613674	G	T	27613674	2	4	459	1	0	0	0	0	0	0	0	1	10749	932	33	4		4	NUFIP2	17	27613674	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	25289794	27613674	53581536	67	23924											
DLX3	1747	broad.mit.edu;hgsc.bcm.edu	37	chr17	48069215	48069215	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggaacggcggttctggAaccagattttcacctgggcc	8	10	12	11	2	2	1	1	0	1	1	2	3	2	3	3	5	2	1	3	5	2	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	48069215	A	T	48069215	3	4	459	1	0	0	0	0	1	0	0	0	4572	246	9	5	337	5	DLX3	17	48069215	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	20455541	48069215	33125995	68	23925											
CD300LB	124599	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72522164	72522164	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagtggcattgaaccgtcagGgacccctgctctggggctct	6	10	13	12	1	3	1	1	1	2	0	3	2	3	2	3	4	2	3	3	4	2	2	rs111972938	alternate_allele	TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	72522164	G	T	72522164	2	4	459	1	0	0	0	0	0	0	0	1	2999	1219	43	4		4	CD300LB	17	72522164	Silent	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	24452949	72522164	8673046	69	23926											
KCTD2	23510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73058235	73058235	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcagcatcggatcttcCtataactacggcaatgagga	12	10	8	11	2	3	1	2	1	1	0	5	3	4	3	1	3	3	2	1	3	4	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	73058235	C	G	73058235	2	3	459	1	0	0	0	0	0	0	0	1	8107	668	24	4		4	KCTD2	17	73058235	Silent	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	536071	73058235	8136975	70	23927											
RHBDF2	79651	broad.mit.edu;ucsc.edu	37	chr17	74468019	74468019	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagatgaacaggaagagcAcgatggccgagaggttgagg	14	4	16	7	2	0	5	0	2	0	3	0	8	0	6	1	4	2	2	1	4	2	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	74468019	T	T	74468019	3	4	459	1	0	0	0	0	1	0	0	0	13322	159	6	5	307	5	RHBDF2	17	74468019	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	1409784	74468019	6727191	71	23928											
SFRS2	0	broad.mit.edu	37	chr17	74732524	74732524	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgactccgactccgggatcGgctgcggcgacgccgcctag	6	5	14	16	8	0	0	0	0	0	0	3	4	2	1	4	3	1	1	4	3	1	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	74732524	A	A	74732524	4	1	459	1	0	0	0	0	0	1	0	0	14177	1124	39	1	284	1	SFRS2	17	74732524	Nonsense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10	264505	74732524	6462686	72	23929											
HGS	9146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79652641	79652641	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttctctctcagacaaggCgaccagccagctcctgttgg	8	11	9	13	1	2	1	1	0	2	1	5	2	3	1	3	2	2	2	3	2	1	3	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	79652641	C	T	79652641	3	4	459	1	0	0	0	0	1	0	0	0	7087	768	27	1	50	1	HGS	17	79652641	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	4920117	79652641	1542569	73	23930											
THOC4	0	broad.mit.edu;hgsc.bcm.edu	37	chr17	79846407	79846407	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaagtcacctctgtgcaggCctccgctgtgcgtcaatctg	6	10	12	13	2	4	0	2	0	2	0	5	1	5	1	3	2	2	2	3	2	2	0	rs150564817	alternate_allele	TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	79846407	C	A	79846407	3	1	459	1	0	0	0	0	1	0	0	0	15866	738	26	4	215	4	THOC4	17	79846407	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	193766	79846407	1348803	74	23931											
PLEKHJ1	55111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	2234235	2234235	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctctcagggtcctcaatGaagcctggggatggaacacc	9	9	11	12	0	2	1	2	1	1	0	5	3	4	3	4	4	2	0	4	4	3	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	2234235	G	T	2234235	3	4	459	1	0	0	0	0	1	0	0	0	12079	1281	45	4	227	4	PLEKHJ1	19	2234235	Missense_Mutation	SNP	G	TCGA-CZ-5457-01A-01D-1501-10		2234235	56894748	75	23932											
SLC25A23	79085	broad.mit.edu;hgsc.bcm.edu	37	chr19	6444201	6444201	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggaccagggccagcgggtAactggctatctggccgcagg	7	5	16	13	3	1	0	0	0	1	0	1	1	1	1	4	6	2	3	4	6	2	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	6444201	A	T	6444201	3	4	459	1	0	0	0	0	1	0	0	0	14488	362	13	5	231	5	SLC25A23	19	6444201	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10	4209966	6444201	52684782	76	23933											
MYO1F	4542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	8595162	8595162	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactgacgcagctcgggcCgctcctccagccccaggtag	7	5	13	16	3	0	1	0	1	0	0	3	2	2	2	5	3	3	4	5	3	2	1	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	8595162	C	T	8595162	3	4	459	1	0	0	0	0	1	0	0	0	10073	652	23	1	1082	1	MYO1F	19	8595162	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	2150961	8595162	50533821	77	23934											
JUNB	3726	broad.mit.edu;hgsc.bcm.edu	37	chr19	12903494	12903494	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggacaaggtgaagacgctCaaggccgagaacgcggggct	12	3	17	9	4	1	3	1	1	0	2	1	6	1	4	1	5	1	2	1	5	4	0	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		T	12903494	C	T	12903494	2	4	459	1	0	0	0	0	0	0	0	1	7970	813	29	2		2	JUNB	19	12903494	Silent	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	4308332	12903494	46225489	78	23935											
NPHS1	4868	hgsc.bcm.edu	37	chr19	36330419	36330420	+	Frame_Shift_Ins	INS	-	-	G																															gatgcagaacctctgtggcaINSggcccccatcaaagccaggc																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		G	36330420	-	G	36330419	7	5	459	1	0	1	1	0	0	0	0	0	10582	188	7	0	855	0	NPHS1	19	36330419	Frame_Shift_Ins	INS	-	TCGA-CZ-5457-01A-01D-1501-10	23426925	36330419	22798564	79	23936											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39034251	39034251	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagaggaacttctccaaagCcatgtcggtggctaagcagg	12	7	12	10	1	1	1	0	0	1	1	3	2	1	2	2	4	3	2	2	4	4	2	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	39034251	C	A	39034251	3	1	459	1	0	0	0	0	1	0	0	0	13770	739	26	4	12200	4	RYR1	19	39034251	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10	2703832	39034251	20094732	80	23937											
NAT14	57106	broad.mit.edu	37	chr19	55998035	55998035	+	Frame_Shift_Del	DEL	G	-	-																															ggtgacgtgtgtggggtcctGgctctggcccctggcacaaa																								novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		-	55998035	-	-	55998035	7	5	459	1	0	1	0	1	0	0	0	0	10175	1335	47	0	339	0	NAT14	19	55998035	Frame_Shift_Del	DEL	G	TCGA-CZ-5457-01A-01D-1501-10	16963784	55998035	3130948	81	23938											
PEG3	5178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57325755	57325755	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcttccagatgaagcTccttatgtttagtgaggact	8	16	8	9	0	2	3	0	2	2	1	4	4	4	4	2	1	1	2	2	1	3	6	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	57325755	T	C	57325755	3	2	459	1	0	0	0	0	1	0	0	0	11720	1551	54	3	715	3	PEG3	19	57325755	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	1327720	57325755	1803228	82	23939											
SAMHD1	25939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	35547877	35547877	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgacaggcttaattccatTagaattaataaggtgctcaa	15	12	7	7	0	1	2	1	1	0	1	2	2	2	2	1	2	1	2	1	2	6	5	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	35547877	T	C	35547877	3	2	459	1	0	0	0	0	1	0	0	0	13830	1754	61	3	1178	3	SAMHD1	20	35547877	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10		35547877	27477643	83	23940											
CHEK2	11200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	29121349	29121349	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaccagtagttgtcattcAcacattctgtaatataaaag	16	12	5	8	0	3	0	2	0	1	0	3	0	3	0	1	0	1	3	1	0	6	7	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	29121349	A	C	29121349	3	2	459	1	0	0	0	0	1	0	0	0	3335	159	6	5	1357	5	CHEK2	22	29121349	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01D-1501-10		29121349	22183217	84	23941											
RPS19BP1	91582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	39928457	39928457	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgcagtttctgggcctgaaTtgccttcgtcttccggggcc	3	12	12	14	3	2	1	0	1	2	0	4	1	3	1	5	3	1	2	5	3	1	4	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		C	39928457	T	C	39928457	3	2	459	1	0	0	0	0	1	0	0	0	13632	1493	52	3	298	3	RPS19BP1	22	39928457	Missense_Mutation	SNP	T	TCGA-CZ-5457-01A-01D-1501-10	10807108	39928457	11376109	85	23942											
ATRX	546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	76875909	76875909	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcctgttaaaataatcctCctccttgatcgtatagaatt	11	16	5	9	1	0	2	0	1	0	1	5	2	4	2	4	0	0	3	4	0	6	7	novel		TCGA-CZ-5457-01A-01D-1501-10	TCGA-CZ-5457-11A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	4c5e0bb3-90ce-4942-aa93-80ab4bfd9fb2	a9a305ba-8696-4646-8ab6-856a7572854f		A	76875909	C	A	76875909	3	1	459	1	0	0	0	0	1	0	0	0	1208	854	30	4	2316	4	ATRX	23	76875909	Missense_Mutation	SNP	C	TCGA-CZ-5457-01A-01D-1501-10		76875909	78394651	86	23943											
VHL	7428	hgsc.bcm.edu	37	chr3	10183800	10183800	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgctgcccgtatggctcaActtcgacggcgagccgcagc	6	7	13	15	6	1	0	1	0	0	0	2	2	1	0	2	2	5	4	2	2	2	2	rs143985153	alternate_allele	TCGA-CZ-5457-01A-01W-1528-10	TCGA-CZ-5457-11A-01W-1528-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	Illumina Miseq	.	.	PacBio RS	c1ee1be5-2a5d-44ac-baa2-ccb30e862ae0	699d8dc1-8145-4fa5-b480-c970b5ed6138		T	10183800	A	T	10183800	3	4	460	1	0	0	0	0	1	0	0	0	17161	43	2	5	271	5	VHL	3	10183800	Missense_Mutation	SNP	A	TCGA-CZ-5457-01A-01W-1528-10		10183800	187838630	1	23944											
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158644146	158644146	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaacttcatcagaggcttcAtgattggcattcacgaggtc	10	11	10	10	2	4	2	4	1	0	1	5	4	4	2	0	3	1	2	0	3	1	4	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	158644146	A	T	158644146	3	4	461	1	0	0	0	0	1	0	0	0	15117	214	8	5	6108	5	SPTA1	1	158644146	Missense_Mutation	SNP	A	TCGA-CZ-5458-01A-01D-1501-10		158644146	90606475	1	23945											
CRB1	23418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	197411309	197411309	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaggtgtgaaaaggacAttgatgagtgtgcctctgat	11	13	13	4	0	1	5	0	5	1	0	1	6	1	6	1	2	1	0	1	2	3	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	197411309	A	C	197411309	3	2	461	1	0	0	0	0	1	0	0	0	3848	217	8	5	3934	5	CRB1	1	197411309	Missense_Mutation	SNP	A	TCGA-CZ-5458-01A-01D-1501-10	38767163	197411309	51839312	2	23946											
NUAK2	81788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205275383	205275383	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggggctcccacagaatGtctgcaggaacttgccttga	10	8	13	10	0	1	3	0	1	1	2	2	4	2	4	2	3	3	2	2	3	2	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	205275383	G	T	205275383	3	4	461	1	0	0	0	0	1	0	0	0	10713	1377	48	4	1275	4	NUAK2	1	205275383	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10	7864074	205275383	43975238	3	23947											
SLC1A4	6509	broad.mit.edu	37	chr2	65217245	65217245	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcgacctggggctggaGgactcggggcctcctcctgt	4	8	15	14	2	0	0	0	0	0	0	4	3	3	2	5	6	1	1	5	6	0	0	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	65217245	C	C	65217245	3	2	461	1	0	0	0	0	1	0	0	0	14436	991	35	4	470	4	SLC1A4	2	65217245	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10		65217245	177982128	4	23948											
UNC50	25972	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	99232913	99232913	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgttatcctgacagacaCatttattggatatttagttg	12	16	8	5	0	0	3	0	1	0	2	1	4	1	4	1	1	0	2	1	1	4	8	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		G	99232913	C	G	99232913	3	3	461	1	0	0	0	0	1	0	0	0	16989	478	17	4	574	4	UNC50	2	99232913	Missense_Mutation	SNP	C	TCGA-CZ-5458-01A-01D-1501-10	34015668	99232913	143966460	5	23949											
RNF25	64320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	219532832	219532832	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttcatctgaaagtcctcggGgatttcggatagagatctgt	9	13	12	7	2	3	2	1	1	2	1	6	5	4	4	1	3	0	1	1	3	2	3	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	219532832	G	A	219532832	3	1	461	1	0	0	0	0	1	0	0	0	13487	1232	43	2	1150	2	RNF25	2	219532832	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10	120299919	219532832	23666541	6	23950											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188240	10188240	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagggacacacgatgggcTtctggttaaccaaactgaat	12	9	11	9	1	1	1	0	1	1	0	1	3	1	2	1	3	3	3	1	3	3	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	10188240	T	A	10188240	3	1	461	1	0	0	0	0	1	0	0	0	17161	1609	56	5	389	5	VHL	3	10188240	Missense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		10188240	187834190	7	23951											
NBEAL2	23218	broad.mit.edu;ucsc.edu	37	chr3	47037324	47037324	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcccgaagtgtcctttgcCgactctgcctgggtgagacc	5	11	12	13	2	1	1	0	1	1	1	2	4	2	1	5	1	3	0	5	1	1	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		G	47037324	G	G	47037324	2	3	461	1	0	0	0	0	0	0	0	1	10189	639	23	4		4	NBEAL2	3	47037324	Silent	SNP	C	TCGA-CZ-5458-01A-01D-1501-10	36849084	47037324	150985106	8	23952											
SLC35A5	55032	broad.mit.edu;ucsc.edu	37	chr3	112300127	112300127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatacgcacctaggcaagAaaggatccgagatctaagtg	15	6	12	8	2	1	2	0	0	1	2	2	5	2	4	2	3	1	2	2	3	6	3	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		G	112300127	G	G	112300127	3	3	461	1	0	0	0	0	1	0	0	0	14576	246	9	3	1181	3	SLC35A5	3	112300127	Missense_Mutation	SNP	A	TCGA-CZ-5458-01A-01D-1501-10	65262803	112300127	85722303	9	23953											
TRA2B	6434	broad.mit.edu;ucsc.edu	37	chr3	185643314	185643314	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gctgtggctgtgccgtctacGataatctcgactgtaagacc	8	11	11	11	3	2	1	0	0	2	1	3	3	2	1	2	1	2	3	2	1	3	3	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	185643314	C	C	185643314	3	2	461	1	0	0	0	0	1	0	0	0	16433	1058	37	4	623	4	TRA2B	3	185643314	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10	73343187	185643314	12379116	10	23954											
ETF1	2107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137848455	137848455	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctacttcttacttacctGatcaaacatatcagattgac	13	14	3	11	0	4	3	2	2	2	1	4	3	4	3	1	0	4	0	1	0	5	6	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	137848455	G	A	137848455	4	1	461	1	0	0	0	0	0	1	0	0	5268	1299	45	2	607	2	ETF1	5	137848455	Nonsense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10		137848455	43066805	11	23955											
EYS	346007	hgsc.bcm.edu;ucsc.edu	37	chr6	64436568	64436568	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagatggatcacttatggAtaaagctgagggaaggagag	16	7	15	3	0	1	3	1	1	0	2	1	8	1	6	0	4	1	1	0	4	5	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		G	64436568	A	G	64436568	3	3	461	1	0	0	0	0	1	0	0	0	5332	333	12	3	1365	3	EYS	6	64436568	Missense_Mutation	SNP	A	TCGA-CZ-5458-01A-01D-1501-10		64436568	106678499	12	23956											
NT5C3	51251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	33055308	33055308	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttagatatccaattttcaGaatgtgctcaacattggcca	13	14	6	8	0	2	2	2	0	0	2	3	2	3	2	2	1	2	1	2	1	5	6	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	33055308	G	A	33055308	2	1	461	1	0	0	0	0	0	0	0	1	10688	933	33	2		2	NT5C3	7	33055308	Silent	SNP	G	TCGA-CZ-5458-01A-01D-1501-10		33055308	126083355	13	23957											
UBE3C	9690	broad.mit.edu;ucsc.edu	37	chr7	157018150	157018150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaagaagttcaaggagatgGtccatttctggatggaatta	13	11	12	5	0	2	2	1	0	1	2	3	5	3	4	1	4	0	2	1	4	5	3	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	157018150	A	A	157018150	3	1	461	1	0	0	0	0	1	0	0	0	16880	1261	44	2	2216	2	UBE3C	7	157018150	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10	123962842	157018150	2120513	14	23958											
LEPROTL1	23484	broad.mit.edu	37	chr8	29994916	29994916	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaagcagagtgtccacTcaacccgtgctgaggctggc	8	7	12	14	1	1	2	1	1	0	1	2	2	2	2	3	2	4	4	3	2	2	0	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		G	29994916	G	G	29994916	2	3	461	1	0	0	0	0	0	0	0	1	8733	1538	54	5		5	LEPROTL1	8	29994916	Silent	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		29994916	116369106	15	23959											
NKAIN3	286183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	63831061	63831061	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcagtatttccatggaagAagaagacacatgtaagtact	16	10	9	6	0	1	3	1	0	0	3	2	5	2	4	1	1	1	3	1	1	6	4	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	63831061	A	T	63831061	3	4	461	1	0	0	0	0	1	0	0	0	10437	246	9	5	539	5	NKAIN3	8	63831061	Missense_Mutation	SNP	A	TCGA-CZ-5458-01A-01D-1501-10	33836145	63831061	82532961	16	23960											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110471954	110471954	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactccctgatggaactctgTttgaagcaagagcagaagtt	12	10	10	9	0	1	4	0	2	1	2	2	5	2	5	1	1	3	4	1	1	4	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	110471954	T	C	110471954	3	2	461	1	0	0	0	0	1	0	0	0	11972	1725	60	3	7321	3	PKHD1L1	8	110471954	Missense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10	46640893	110471954	35892068	17	23961											
KAT5	10524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65480531	65480531	+	Splice_Site	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccagagagagaggtggTgagtaggtcccccacttcac	9	8	12	12	0	2	3	1	1	1	2	4	5	3	3	3	3	0	1	3	3	1	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		G	65480531	T	G	65480531	5	3	461	1	0	0	0	0	0	0	1	0	7983	1710	59	5	396	5	KAT5	11	65480531	Splice_Site	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		65480531	69525985	18	23962											
CFL1	1072	hgsc.bcm.edu	37	chr11	65622863	65622863	+	Frame_Shift_Del	DEL	G	G	-																															gccccccagcttctctgccaGggtgcagcggtccttgacct																								novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		-	65622863	G	-	65622863	7	5	461	1	0	1	0	1	0	0	0	0	3290	991	35	0	59	0	CFL1	11	65622863	Frame_Shift_Del	DEL	G	TCGA-CZ-5458-01A-01D-1501-10	142332	65622863	69383653	19	23963											
STAT2	6773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56748290	56748290	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtggtcaatgggagctcTgatgcaggctttttgctgct	5	13	13	10	1	2	1	1	1	1	0	2	2	2	2	1	3	4	5	1	3	1	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	56748290	T	C	56748290	3	2	461	1	0	0	0	0	1	0	0	0	15266	1588	55	3	1881	3	STAT2	12	56748290	Missense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		56748290	77103605	20	23964											
RDH16	8608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	57345981	57345981	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatgcagttggtcaccaaCgacagatcctgtgtgcactt	9	11	9	12	1	1	1	1	0	0	1	3	2	3	1	3	1	3	3	3	1	1	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	57345981	C	T	57345981	2	4	461	1	0	0	0	0	0	0	0	1	13196	523	19	1		1	RDH16	12	57345981	Silent	SNP	C	TCGA-CZ-5458-01A-01D-1501-10	597691	57345981	76505914	21	23965											
MTUS2	23281	broad.mit.edu;ucsc.edu	37	chr13	30071435	30071435	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gggacagagcccgccgcttcGaagaggccttgaggaagaac	11	4	15	11	3	0	4	0	1	0	3	1	7	0	6	3	3	2	1	3	3	3	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	30071435	C	C	30071435	3	2	461	1	0	0	0	0	1	0	0	0	9966	1059	37	4	3770	4	MTUS2	13	30071435	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10		30071435	85098443	22	23966											
C14orf145	0	broad.mit.edu;ucsc.edu	37	chr14	81259370	81259370	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacgctcggcctcacatgTgtcaaagtgattctggatct	8	13	9	11	2	4	1	2	1	2	0	5	2	4	2	1	2	1	1	1	2	2	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	81259370	C	C	81259370	3	2	461	1	0	0	0	0	1	0	0	0	1749	1696	59	3	2038	3	C14orf145	14	81259370	Missense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		81259370	26090170	23	23967											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	33873834	33873834	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaattctgaacctcctctaCaaattgctgggtaagtacac	13	11	7	10	0	2	1	0	1	2	0	3	2	3	1	2	1	4	3	2	1	6	5	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	33873834	C	T	33873834	2	4	461	1	0	0	0	0	0	0	0	1	13772	489	17	2		2	RYR3	15	33873834	Silent	SNP	C	TCGA-CZ-5458-01A-01D-1501-10		33873834	68657558	24	23968											
ARPP19	10776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52844224	52844224	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgacctccgtcttatcCggagctgcagtaggaagttg	8	10	12	11	2	1	1	0	1	1	0	3	3	3	3	4	2	2	4	4	2	3	3	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	52844224	C	T	52844224	2	4	461	1	0	0	0	0	0	0	0	1	977	639	23	1		1	ARPP19	15	52844224	Silent	SNP	C	TCGA-CZ-5458-01A-01D-1501-10	18970390	52844224	49687168	25	23969											
RAB11FIP3	9727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	532561	532561	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagcgcgtacatgggctccGagagcacctacagtgagtgt	10	7	13	11	3	0	2	0	1	0	1	1	3	1	2	2	1	4	3	2	1	2	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	532561	G	A	532561	3	1	461	1	0	0	0	0	1	0	0	0	12897	1059	37	1	973	1	RAB11FIP3	16	532561	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10		532561	89822192	26	23970											
CNOT1	23019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	58564211	58564211	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaggaaaggcgctaaatatTtgaataaatcaatcagtagc	18	10	8	5	1	2	1	2	1	0	0	2	2	2	2	0	2	1	2	0	2	10	6	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	58564211	T	C	58564211	3	2	461	1	0	0	0	0	1	0	0	0	3617	1841	64	3	940	3	CNOT1	16	58564211	Missense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10	58031650	58564211	31790542	27	23971											
C16orf55	124045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89724745	89724745	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccaggaagccaggcaggcaGacagggagtcggagaagcct	12	2	16	11	1	0	2	0	0	0	2	1	5	0	4	3	5	2	2	3	5	2	0	rs149646248	alternate_allele	TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	89724745	G	C	89724745	3	2	461	1	0	0	0	0	1	0	0	0	1820	942	33	4	130	4	C16orf55	16	89724745	Missense_Mutation	SNP	G	TCGA-CZ-5458-01A-01D-1501-10	31160534	89724745	630008	28	23972											
MARCH10	162333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60813347	60813347	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttatcttactggtttcctTttcatctgtgaaaccagagg	8	17	7	9	0	3	2	1	1	2	1	4	2	4	2	2	2	2	1	2	2	3	6	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		A	60813347	T	A	60813347	4	1	461	1	0	0	0	0	0	1	0	0	9299	1850	64	5	568	5	MARCH10	17	60813347	Nonsense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		60813347	20381863	29	23973											
GALR1	2587	broad.mit.edu;ucsc.edu	37	chr18	74962847	74962847	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagttcatccactacttcTtcaccgtgtccatgctggtg	7	13	8	13	1	3	0	2	0	1	0	5	0	5	0	3	1	2	3	3	1	2	4	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		C	74962847	C	C	74962847	3	2	461	1	0	0	0	0	1	0	0	0	6227	1609	56	3	345	3	GALR1	18	74962847	Missense_Mutation	SNP	T	TCGA-CZ-5458-01A-01D-1501-10		74962847	3114401	30	23974											
LILRB1	10859	broad.mit.edu;hgsc.bcm.edu	37	chr19	55142960	55142960	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttccttccagggcacctccCcaagcccaccctctgggctg	5	9	8	19	0	1	0	0	0	1	0	4	0	4	0	7	2	1	2	7	2	1	2	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	55142960	C	T	55142960	3	4	461	1	0	0	0	0	1	0	0	0	8790	623	22	2	90	2	LILRB1	19	55142960	Missense_Mutation	SNP	C	TCGA-CZ-5458-01A-01D-1501-10		55142960	3986023	31	23975											
MAGT1	84061	broad.mit.edu;hgsc.bcm.edu	37	chrX	77150869	77150869	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgagcagcgccaccaccatGgtcacagagacacaccaaaa	16	3	8	14	1	1	2	1	1	0	1	1	3	1	2	4	1	2	1	4	1	2	0	novel		TCGA-CZ-5458-01A-01D-1501-10	TCGA-CZ-5458-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1737382a-a1c9-45e1-b009-a29be1d93749	3accf146-13ec-4425-8326-31363f8c1234		T	77150869	G	T	77150869	2	4	461	1	0	0	0	0	0	0	0	1	9196	1335	47	4		4	MAGT1	23	77150869	Silent	SNP	G	TCGA-CZ-5458-01A-01D-1501-10		77150869	78119691	32	23976											
LRRC7	57554	broad.mit.edu	37	chr1	70505476	70505476	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaagctagacggttagacagGgtatgtctggtgtttctctg	8	13	14	6	1	2	2	0	0	2	2	3	3	2	2	0	3	1	4	0	3	4	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	70505476	A	A	70505476	2	1	462	1	0	0	0	0	0	0	0	1	9020	1246	43	2		2	LRRC7	1	70505476	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10		70505476	178745145	1	23977											
HCN3	57657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	155254427	155254427	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaggcacctgtaggcatgcCcgacgtctggctcaccatgc	7	7	12	15	2	2	0	1	0	1	0	2	1	2	0	3	3	2	5	3	3	1	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	155254427	C	T	155254427	3	4	462	1	0	0	0	0	1	0	0	0	6998	623	22	2	982	2	HCN3	1	155254427	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	84748951	155254427	93996194	2	23978											
SCYL3	57147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	169833584	169833584	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacaccaactgattaagcAgaagaggcaccaaccttgaa	18	5	7	11	0	0	4	0	2	0	2	0	4	0	4	3	1	4	2	3	1	6	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	169833584	A	G	169833584	3	3	462	1	0	0	0	0	1	0	0	0	13951	188	7	3	1371	3	SCYL3	1	169833584	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	14579157	169833584	79417037	3	23979											
ZBTB37	84614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	173854993	173854993	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagtatacccggaaagatCagctggagtatcatatccgc	14	8	10	9	2	2	2	2	0	0	2	3	4	3	4	2	2	2	3	2	2	6	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	173854993	C	A	173854993	3	1	462	1	0	0	0	0	1	0	0	0	17537	827	29	4	1316	4	ZBTB37	1	173854993	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	4021409	173854993	75395628	4	23980											
PM20D1	148811	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205819199	205819199	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaacgcaccgctgagccAtgcttctctcgagctcctgc	7	8	9	17	4	1	1	0	1	1	0	4	2	2	1	3	0	5	5	3	0	1	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	205819199	A	T	205819199	3	4	462	1	0	0	0	0	1	0	0	0	12128	217	8	5	1558	5	PM20D1	1	205819199	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	31964206	205819199	43431422	5	23981											
CDC42BPA	8476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227192738	227192738	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggagcggcctggctcAgggcgggatttggtgataga	7	9	17	8	2	2	2	2	1	0	1	2	4	2	4	1	6	1	1	1	6	1	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	227192738	A	G	227192738	2	3	462	1	0	0	0	0	0	0	0	1	3072	175	7	3		3	CDC42BPA	1	227192738	Silent	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	21373539	227192738	22057883	6	23982											
RYR2	6262	broad.mit.edu	37	chr1	237955606	237955606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctttcttctgcatcattGgatactactgcttgaaagta	9	18	6	8	0	4	1	1	1	3	0	4	2	4	2	0	1	4	3	0	1	4	8	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	237955606	A	A	237955606	3	1	462	1	0	0	0	0	1	0	0	0	13771	1349	47	2	14139	2	RYR2	1	237955606	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	10762868	237955606	11295015	7	23983											
PROM2	150696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	95947697	95947697	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagacaccccagggaacctgCccccgtccatgaacctgtcg	9	5	9	18	2	0	2	0	1	0	1	2	3	1	3	7	1	3	0	7	1	2	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	95947697	C	A	95947697	3	1	462	1	0	0	0	0	1	0	0	0	12558	739	26	4	1626	4	PROM2	2	95947697	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		95947697	147251676	8	23984											
COBLL1	22837	broad.mit.edu;hgsc.bcm.edu	37	chr2	165551694	165551694	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaggatttgggaggcacTattttataagtagtcatgcc	11	13	10	7	0	1	0	1	0	0	0	2	2	2	2	2	3	1	2	2	3	5	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	165551694	T	C	165551694	3	2	462	1	0	0	0	0	1	0	0	0	3654	1512	53	3	1190	3	COBLL1	2	165551694	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	69603997	165551694	77647679	9	23985											
NOSTRIN	115677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	169707624	169707624	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggagaaggaaagaattCaacttttatgcaataactta	17	11	8	5	0	1	2	1	0	0	2	1	4	1	3	0	2	4	2	0	2	8	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	169707624	C	A	169707624	3	1	462	1	0	0	0	0	1	0	0	0	10546	827	29	4	870	4	NOSTRIN	2	169707624	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	4155930	169707624	73491749	10	23986											
SLC25A12	8604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	172725235	172725235	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccaagagctgcacgatCtttgggttactatttggatc	8	13	10	10	1	1	1	0	0	1	1	2	3	1	2	2	2	4	3	2	2	3	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	172725235	C	A	172725235	3	1	462	1	0	0	0	0	1	0	0	0	14476	912	32	4	1935	4	SLC25A12	2	172725235	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	3017611	172725235	70474138	11	23987											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179468956	179468956	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgactactttatctgatttgCactcatcactgattccatat	10	17	4	10	0	3	3	2	3	1	0	4	3	4	3	1	0	2	1	1	0	3	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	179468956	C	T	179468956	3	4	462	1	0	0	0	0	1	0	0	0	16734	710	25	2	53559	2	TTN	2	179468956	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	6743721	179468956	63730417	12	23988											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47125791	47125791	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtcttagtctgagaccAgcgttgaataattggaagta	13	11	11	6	1	2	2	0	2	2	1	2	4	2	3	1	1	2	3	1	1	5	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	47125791	A	G	47125791	3	3	462	1	0	0	0	0	1	0	0	0	14133	188	7	3	2255	3	SETD2	3	47125791	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10		47125791	150896639	13	23989											
MBD4	8930	broad.mit.edu;ucsc.edu	37	chr3	129152727	129152727	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatatagtagcgatgagAagcttccatggatcatgaaa	17	9	10	5	1	1	3	1	2	0	2	2	6	2	4	1	1	2	2	1	1	6	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	129152727	G	G	129152727	2	3	462	1	0	0	0	0	0	0	0	1	9346	233	9	3		3	MBD4	3	129152727	Silent	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	82026936	129152727	68869703	14	23990											
CRIPAK	285464	broad.mit.edu;ucsc.edu	37	chr4	1388536	1388536	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgcccacctgctcatgtGcccatgtggagtgcccacct	6	9	11	15	0	1	0	1	0	0	0	1	2	1	1	5	1	4	1	5	1	0	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	1388536	A	A	1388536	2	1	462	1	0	0	0	0	0	0	0	1	3877	1306	46	2		2	CRIPAK	4	1388536	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10		1388536	189765740	15	23991											
RBPJ	3516	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	26430436	26430436	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttaccttaaggatacagAaagaatgtatttgtgccttt	13	16	7	5	0	0	2	0	0	0	2	0	3	0	3	2	1	3	1	2	1	6	7	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	26430436	A	G	26430436	3	3	462	1	0	0	0	0	1	0	0	0	13163	246	9	3	974	3	RBPJ	4	26430436	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	25041900	26430436	164723840	16	23992											
LIN54	132660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	83857207	83857207	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgctatgacgtcgatcaGattctccctcctttcctttc	5	17	5	14	2	2	2	1	1	1	1	7	3	4	2	3	0	1	1	3	0	1	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	83857207	G	T	83857207	3	4	462	1	0	0	0	0	1	0	0	0	8809	942	33	4	489	4	LIN54	4	83857207	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	57426771	83857207	107297069	17	23993											
PDE5A	8654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	120446851	120446851	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatggcaccacagcagcCttgggtaaggaaagaagaaa	16	4	13	8	0	0	3	0	0	0	3	0	4	0	4	2	3	2	4	2	3	4	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	120446851	C	A	120446851	5	1	462	1	0	0	0	0	0	0	1	0	11644	695	24	4	1035	4	PDE5A	4	120446851	Splice_Site	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	36589644	120446851	70707425	18	23994											
KIAA1109	84162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	123274224	123274224	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcatgttttcatggtccaaAttttcgttcaaaatcttggg	9	16	9	7	1	3	0	2	0	1	0	5	0	4	0	1	3	0	3	1	3	3	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	123274224	A	T	123274224	3	4	462	1	0	0	0	0	1	0	0	0	8208	101	4	5	14329	5	KIAA1109	4	123274224	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	2827373	123274224	67880052	19	23995											
CCRN4L	25819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	139966177	139966177	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggccgacagttctgcaTcgctgttacccatctaaaag	10	10	9	12	2	3	0	1	0	2	0	4	1	3	0	2	1	2	4	2	1	3	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	139966177	T	C	139966177	3	2	462	1	0	0	0	0	1	0	0	0	2951	1435	50	3	855	3	CCRN4L	4	139966177	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	16691953	139966177	51188099	20	23996											
SORBS2	8470	broad.mit.edu;ucsc.edu	37	chr4	186545257	186545257	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgcgggctgacctgtgtctGatccttgatctgccgttact	4	15	11	11	2	2	3	0	3	2	0	3	3	3	3	3	1	3	2	3	1	1	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	186545257	C	C	186545257	3	2	462	1	0	0	0	0	1	0	0	0	14930	1280	45	4	2024	4	SORBS2	4	186545257	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	46579080	186545257	4609019	21	23997											
LMBRD2	92255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	36136613	36136613	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctatcccaattgtctgaAgctggttcctaagaaaggga	12	10	10	9	0	1	2	0	1	1	1	3	3	3	3	2	2	2	3	2	2	5	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	36136613	A	G	36136613	3	3	462	1	0	0	0	0	1	0	0	0	8843	72	3	3	1594	3	LMBRD2	5	36136613	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10		36136613	144778647	22	23998											
C5orf42	65250	broad.mit.edu	37	chr5	37122589	37122589	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcccttgaagtcatgtaaAgctgcataaaaaatacccag	15	11	6	9	0	1	1	1	1	0	0	2	1	2	1	2	0	3	3	2	0	7	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	37122589	G	G	37122589	3	3	462	1	0	0	0	0	1	0	0	0	2301	86	3	3	819	3	C5orf42	5	37122589	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	985976	37122589	143792671	23	23999											
DAB2	1601	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	39383077	39383077	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccattactcagcggagtAgacgagctactcgaattctc	10	9	10	12	3	2	1	1	0	1	1	4	4	2	2	1	2	4	2	1	2	4	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	39383077	A	G	39383077	2	3	462	1	0	0	0	0	0	0	0	1	4218	407	15	3		3	DAB2	5	39383077	Silent	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	2260488	39383077	141532183	24	24000											
NUDT12	83594	broad.mit.edu;hgsc.bcm.edu	37	chr5	102891795	102891795	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatcttgcttgagctacAaccccttcaaaaaaaagaaa	18	8	5	10	0	2	3	1	1	1	2	2	3	2	3	2	0	4	2	2	0	7	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	102891795	A	C	102891795	2	2	462	1	0	0	0	0	0	0	0	1	10728	117	5	5		5	NUDT12	5	102891795	Silent	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	63508718	102891795	78023465	25	24001											
MYOT	9499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137222571	137222571	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttatatcaagataacacTggaagagttactttactgat	15	13	7	6	0	1	3	1	1	0	2	1	4	1	4	0	1	4	2	0	1	7	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	137222571	T	A	137222571	2	1	462	1	0	0	0	0	0	0	0	1	10094	1567	55	5		5	MYOT	5	137222571	Silent	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	34330776	137222571	43692689	26	24002											
CTNNA1	1495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	138147874	138147874	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctttcttattttataggtGgaagatggtatcttgaagtt	9	19	10	3	0	3	2	0	1	3	1	3	3	3	3	0	3	0	2	0	3	6	8	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	138147874	G	T	138147874	2	4	462	1	0	0	0	0	0	0	0	1	4012	1335	47	4		4	CTNNA1	5	138147874	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	925303	138147874	42767386	27	24003											
RNF14	9604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141354483	141354483	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccatcctcttccccaccttCattcacacttagtggcaaat	9	13	3	16	0	3	0	2	0	1	0	6	0	6	0	5	1	0	1	5	1	2	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	141354483	C	T	141354483	3	4	462	1	0	0	0	0	1	0	0	0	13445	838	29	2	275	2	RNF14	5	141354483	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	3206609	141354483	39560777	28	24004											
EHMT2	10919	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	31848507	31848507	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaggcgatgcgtggaaatCgcaggtcttggtgcagcatg	10	8	16	7	3	1	1	0	0	1	1	2	3	1	2	0	4	3	3	0	4	2	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	31848507	C	T	31848507	3	4	462	1	0	0	0	0	1	0	0	0	4984	884	31	1	245	1	EHMT2	6	31848507	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		31848507	139266560	29	24005											
FKBPL	63943	broad.mit.edu;ucsc.edu	37	chr6	32096783	32096783	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagcaacaactgacaggcagCcagattggcatgaaggacag	15	5	12	9	0	0	3	0	2	0	1	0	4	0	4	1	3	4	3	1	3	4	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	32096783	G	G	32096783	3	3	462	1	0	0	0	0	1	0	0	0	5916	739	26	4	278	4	FKBPL	6	32096783	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	248276	32096783	139018284	30	24006											
XPO5	57510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43493658	43493658	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtggccatcatttcttcAtctgttatcagagagtagaa	10	15	8	8	0	6	2	3	0	3	2	6	3	6	2	1	1	0	2	1	1	3	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	43493658	A	G	43493658	2	3	462	1	0	0	0	0	0	0	0	1	17446	231	8	3		3	XPO5	6	43493658	Silent	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	11396875	43493658	127621409	31	24007											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56417328	56417328	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcttttatagtttcctttTgcttttgcaatgtttctgca	6	21	7	7	0	1	0	0	0	1	0	2	0	2	0	1	1	3	6	1	1	3	9	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	56417328	T	G	56417328	3	3	462	1	0	0	0	0	1	0	0	0	4783	1812	63	5	7294	5	DST	6	56417328	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	12923670	56417328	114697739	32	24008											
MAP3K4	4216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	161523807	161523807	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggacactaatcagccagagTaaaggtgagagaaagagtgt	16	6	13	6	1	1	4	1	1	0	3	1	6	1	5	1	2	1	1	1	2	4	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	161523807	T	C	161523807	2	2	462	1	0	0	0	0	0	0	0	1	9252	1635	57	3		3	MAP3K4	6	161523807	Silent	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	105106479	161523807	9591260	33	24009											
PHF14	9678	broad.mit.edu	37	chr7	11076624	11076624	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaatagagagaaatatgcGcatgattcaaattcaggaaa	19	10	8	4	1	2	3	2	1	0	2	2	5	2	4	0	1	1	1	0	1	7	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	11076624	C	C	11076624	3	2	462	1	0	0	0	0	1	0	0	0	11825	1087	38	4	1924	4	PHF14	7	11076624	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10		11076624	148062039	34	24010											
GPR141	353345	hgsc.bcm.edu;ucsc.edu	37	chr7	37780555	37780555	+	Frame_Shift_Del	DEL	T	T	-																															catcaactatatgatagtcaTttttgtcatagccgttgctg																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	37780555	T	-	37780555	7	5	462	1	0	1	0	1	0	0	0	0	6649	1493	52	0	562	0	GPR141	7	37780555	Frame_Shift_Del	DEL	T	TCGA-CZ-5459-01A-01D-1501-10	26703931	37780555	121358108	35	24011											
URGCP	55665	broad.mit.edu;hgsc.bcm.edu	37	chr7	43916855	43916855	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctggctgaagccctcaGccactgtgatgagctgcatg	7	9	13	12	0	1	3	1	3	0	0	2	3	2	3	3	2	4	3	3	2	1	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	43916855	G	T	43916855	3	4	462	1	0	0	0	0	1	0	0	0	17025	971	34	4	592	4	URGCP	7	43916855	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	6136300	43916855	115221808	36	24012											
CLIP2	7461	broad.mit.edu	37	chr7	73771615	73771615	+	Frame_Shift_Del	DEL	G	-	-																															cacaccttcctgcagctcacGgagacctcttcacgctacgc																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	73771615	-	-	73771615	7	5	462	1	0	1	0	1	0	0	0	0	3533	1103	39	0	1041	0	CLIP2	7	73771615	Frame_Shift_Del	DEL	G	TCGA-CZ-5459-01A-01D-1501-10	29854760	73771615	85367048	37	24013											
CUX1	1523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	101747717	101747717	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggaacagaagttacagAatgactttgcagaaaaggag	19	6	12	4	0	0	5	0	1	0	4	0	7	0	7	0	2	3	2	0	2	7	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	101747717	A	G	101747717	3	3	462	1	0	0	0	0	1	0	0	0	4064	246	9	3	597	3	CUX1	7	101747717	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	27976102	101747717	57390946	38	24014											
OR2F1	26211	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	143657717	143657717	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcctggttcttttgtcctaCatccagatcatctccaccat	7	15	5	14	0	3	1	1	0	2	1	6	1	5	1	5	1	2	1	5	1	1	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	143657717	C	T	143657717	2	4	462	1	0	0	0	0	0	0	0	1	10996	489	17	2		2	OR2F1	7	143657717	Silent	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	41910000	143657717	15480946	39	24015											
ATG9B	285973	broad.mit.edu	37	chr7	150714122	150714122	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggccaggcttgggactcaCcaggggcgaggtgcagttgc	7	6	18	10	1	1	0	1	0	0	0	1	3	1	1	2	6	2	3	2	6	0	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	150714122	T	T	150714122	5	4	462	1	0	0	0	0	0	0	1	0	1103	521	18	2	503	2	ATG9B	7	150714122	Splice_Site	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	7056405	150714122	8424541	40	24016											
MTUS1	57509	hgsc.bcm.edu	37	chr8	17573333	17573333	+	Frame_Shift_Del	DEL	A	A	-																															ggataccaaaggcttcaaatAaaaggatcctgaggaaccat																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	17573333	A	-	17573333	7	5	462	1	0	1	0	1	0	0	0	0	9965	362	13	0	1454	0	MTUS1	8	17573333	Frame_Shift_Del	DEL	A	TCGA-CZ-5459-01A-01D-1501-10		17573333	128790689	41	24017											
GFRA2	2675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	21563505	21563505	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcagggcagctggtgacCgtctggtaggaggctcgaca	7	7	16	11	3	1	1	0	1	1	0	3	3	2	2	2	5	1	5	2	5	1	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	21563505	C	T	21563505	2	4	462	1	0	0	0	0	0	0	0	1	6348	639	23	1		1	GFRA2	8	21563505	Silent	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	3990172	21563505	124800517	42	24018											
ARFGEF1	10565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	68178355	68178355	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctattcctgatgatgatgttGactccagggaatttaaactt	11	15	8	7	0	0	4	0	4	0	0	2	5	2	5	2	1	1	1	2	1	4	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	68178355	G	A	68178355	3	1	462	1	0	0	0	0	1	0	0	0	852	1294	45	2	3644	2	ARFGEF1	8	68178355	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	46614850	68178355	78185667	43	24019											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106814187	106814187	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcttcaaacatcttgcaTcaattcttccactgtcttag	10	16	3	12	0	6	0	2	0	4	0	7	0	7	0	1	0	2	1	1	0	3	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	106814187	T	G	106814187	3	3	462	1	0	0	0	0	1	0	0	0	17657	1435	50	5	1907	5	ZFPM2	8	106814187	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	38635832	106814187	39549835	44	24020											
NDUFB9	4715	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125562076	125562076	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctgcccgaaaggaaggTgatttgcccccactgtggtg	7	8	12	14	1	0	1	0	1	0	0	0	3	0	2	5	3	2	0	5	3	2	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	125562076	T	A	125562076	2	1	462	1	0	0	0	0	0	0	0	1	10288	1683	59	5		5	NDUFB9	8	125562076	Silent	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	18747889	125562076	20801946	45	24021											
KDM4C	23081	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	7013979	7013979	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttatttcctgtgcaaaGtgctgcgtacgggttcatgc	6	14	10	11	2	1	0	1	0	0	0	3	0	3	0	2	1	5	4	2	1	3	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	7013979	G	A	7013979	2	1	462	1	0	0	0	0	0	0	0	1	8130	1020	36	2		2	KDM4C	9	7013979	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10		7013979	134199452	46	24022											
UBAP2	55833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	33941709	33941709	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtatgggatcctgttatGcacagaactctggtcataag	10	13	11	7	0	2	1	1	0	1	1	3	2	3	2	1	3	2	3	1	3	4	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	33941709	G	T	33941709	3	4	462	1	0	0	0	0	1	0	0	0	16836	1319	46	4	1548	4	UBAP2	9	33941709	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	26927730	33941709	107271722	47	24023											
RC3H2	54542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	125639776	125639776	+	Frame_Shift_Del	DEL	A	A	-																															agctcttcctgagaatgggcAaatgtacaatttgttcctcg																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	125639776	A	-	125639776	7	5	462	1	0	1	0	1	0	0	0	0	13169	127	5	0	2406	0	RC3H2	9	125639776	Frame_Shift_Del	DEL	A	TCGA-CZ-5459-01A-01D-1501-10	91698067	125639776	15573655	48	24024											
TALDO1	6888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	763505	763505	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacaagaaatcctatgagcCcctggaagaccctggtgagg	12	6	12	11	1	0	4	0	2	0	2	1	6	1	5	4	3	1	0	4	3	4	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	763505	C	A	763505	3	1	462	1	0	0	0	0	1	0	0	0	15542	623	22	4	641	4	TALDO1	11	763505	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		763505	134243011	49	24025											
OR4C16	219428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	55339616	55339616	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaaaaccatgcaactgaatAataatgtgactgagttcatt	16	11	7	7	1	1	3	1	3	0	0	1	4	1	3	1	0	3	2	1	0	6	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	55339616	A	T	55339616	3	4	462	1	0	0	0	0	1	0	0	0	11049	362	13	5	15	5	OR4C16	11	55339616	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	54576111	55339616	79666900	50	24026											
PACS1	55690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65988247	65988247	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagcatcctcagcacgcCaaagcccaagctcaagtgag	15	4	9	13	1	2	2	2	1	0	1	3	2	3	2	3	0	4	3	3	0	4	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	65988247	C	T	65988247	3	4	462	1	0	0	0	0	1	0	0	0	11372	594	21	2	1218	2	PACS1	11	65988247	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	10648631	65988247	69018269	51	24027											
MYEOV	26579	broad.mit.edu;ucsc.edu	37	chr11	69063609	69063609	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgccctgactatgaaaGgggaagaagagcatgcctga	13	6	14	8	0	0	5	0	3	0	2	0	7	0	6	2	2	4	2	2	2	4	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	69063609	C	C	69063609	3	2	462	1	0	0	0	0	1	0	0	0	10025	1000	35	4	698	4	MYEOV	11	69063609	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	3075362	69063609	65942907	52	24028											
HYOU1	10525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118922276	118922276	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccgagagaagagtaccCgtttattgtgcttcaggctg	9	11	11	10	2	1	2	1	0	0	2	2	4	2	2	3	1	2	4	3	1	3	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	118922276	C	T	118922276	3	4	462	1	0	0	0	0	1	0	0	0	7470	652	23	1	1655	1	HYOU1	11	118922276	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	49858667	118922276	16084240	53	24029											
OR8B8	26493	hgsc.bcm.edu;ucsc.edu	37	chr11	124310727	124310727	+	Frame_Shift_Del	DEL	A	A	-																															atgctgttcttctttaagacAaagctcatcagcattttggg																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	124310727	A	-	124310727	7	5	462	1	0	1	0	1	0	0	0	0	11230	127	5	0	683	0	OR8B8	11	124310727	Frame_Shift_Del	DEL	A	TCGA-CZ-5459-01A-01D-1501-10	5388451	124310727	10695789	54	24030											
PFDN5	5204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53691896	53691896	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccaagcagatggagaaaaTccaaccagctcttcaggaga	17	5	9	10	0	2	3	1	0	1	3	3	5	3	3	3	2	4	2	3	2	5	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	53691896	T	G	53691896	3	3	462	1	0	0	0	0	1	0	0	0	11758	1435	50	5	368	5	PFDN5	12	53691896	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10		53691896	80159999	55	24031											
KITLG	4254	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	88910211	88910211	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatctattaaaaattctaaaGaattcttcaggagtaaagag	18	12	7	4	0	4	2	1	0	3	2	4	4	4	3	0	1	0	1	0	1	9	7	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	88910211	G	C	88910211	3	2	462	1	0	0	0	0	1	0	0	0	8330	933	33	4	421	4	KITLG	12	88910211	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	35218315	88910211	44941684	56	24032											
CIT	11113	broad.mit.edu	37	chr12	120128175	120128175	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggctctcgcgggtggctGgggccttcgggcggcgctgg	0	9	20	12	5	1	0	0	0	1	0	3	0	1	0	1	8	0	3	1	8	0	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	120128175	A	A	120128175	2	1	462	1	0	0	0	0	0	0	0	1	3438	1335	47	2		2	CIT	12	120128175	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	31217964	120128175	13723720	57	24033											
KDM2B	84678	hgsc.bcm.edu;ucsc.edu	37	chr12	121972425	121972429	+	Frame_Shift_Del	DEL	ACCAA	ACCAA	-																															cccaccccggaaaacatggtAccaaacggaagtgcctccaa																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	ACCAA	ACCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	121972429	ACCAA	-	121972425	7	5	462	1	0	1	0	1	0	0	0	0	8125	391	14	0	3376	0	KDM2B	12	121972425	Frame_Shift_Del	DEL	ACCAA	TCGA-CZ-5459-01A-01D-1501-10	1844250	121972425	11879470	58	24034											
KNTC1	9735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	123034395	123034395	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgtttcttctctggtccAaacaggaattagcacagtaa	12	13	8	8	0	2	0	0	0	2	0	4	1	3	1	1	2	2	3	1	2	5	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	123034395	A	G	123034395	3	3	462	1	0	0	0	0	1	0	0	0	8428	130	5	3	1116	3	KNTC1	12	123034395	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	1061970	123034395	10817500	59	24035											
NALCN	259232	broad.mit.edu;hgsc.bcm.edu	37	chr13	101763549	101763549	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcccctcaaatgatcCgctcagcatgcgctgtcggg	6	8	13	14	3	2	1	2	1	0	0	4	1	3	1	3	2	3	4	3	2	1	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	101763549	C	T	101763549	3	4	462	1	0	0	0	0	1	0	0	0	10148	661	23	1	3099	1	NALCN	13	101763549	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		101763549	13406329	60	24036											
METTL3	56339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	21967473	21967473	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agctacgatcacatcacaatCcagaccctggttgaagcctt	12	9	7	13	1	2	2	2	1	0	1	3	3	3	2	3	1	3	2	3	1	3	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	21967473	C	G	21967473	3	3	462	1	0	0	0	0	1	0	0	0	9501	855	30	4	259	4	METTL3	14	21967473	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		21967473	85382067	61	24037											
MDGA2	161357	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	47600945	47600945	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggacagtctaaacgacacCatcttatcaggaatattaca	15	11	6	9	1	3	0	1	0	2	0	3	3	3	2	1	2	2	0	1	2	6	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	47600945	C	T	47600945	3	4	462	1	0	0	0	0	1	0	0	0	9407	594	21	2	2232	2	MDGA2	14	47600945	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	25633472	47600945	59748595	62	24038											
PLEKHH1	57475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	68047714	68047714	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgcaccccggaaagtcTgagggtgggacacgcgtcgt	8	6	16	11	4	1	1	0	1	1	0	2	4	1	3	2	3	2	2	2	3	1	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	68047714	T	A	68047714	2	1	462	1	0	0	0	0	0	0	0	1	12076	1567	55	5		5	PLEKHH1	14	68047714	Silent	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	20446769	68047714	39301826	63	24039											
HEATR4	399671	broad.mit.edu	37	chr14	73989820	73989820	+	Frame_Shift_Del	DEL	G	-	-																															cagtgactgatagaagcaatGggggagaaaggtctttccct																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	73989820	-	-	73989820	7	5	462	1	0	1	0	1	0	0	0	0	7030	1363	47	0		0	HEATR4	14	73989820	Frame_Shift_Del	DEL	G	TCGA-CZ-5459-01A-01D-1501-10	5942106	73989820	33359720	64	24040											
THBS1	7057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	39882215	39882215	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccaatgcgacttaccaCtgcaaaaaggtagagccagg	13	6	12	10	1	0	1	0	0	0	1	0	2	0	1	3	3	4	2	3	3	5	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	39882215	C	A	39882215	3	1	462	1	0	0	0	0	1	0	0	0	15852	564	20	4	2182	4	THBS1	15	39882215	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		39882215	62649177	65	24041											
TP53BP1	7158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	43748191	43748191	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgcattagccatttttGagtcttctgttaatgaatta	9	19	7	6	0	2	2	0	2	2	0	2	2	2	2	1	0	2	3	1	0	4	7	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	43748191	G	T	43748191	4	4	462	1	0	0	0	0	0	1	0	0	16382	1294	45	4	3386	4	TP53BP1	15	43748191	Nonsense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	3865976	43748191	58783201	66	24042											
FBN1	2200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	48718059	48718059	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aataaccttgcattcatcgaTatctgtaatttaacaaatat	16	15	3	7	1	2	0	1	0	1	0	3	1	2	0	1	0	3	2	1	0	7	8	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	48718059	T	G	48718059	3	3	462	1	0	0	0	0	1	0	0	0	5702	1406	49	5	1440	5	FBN1	15	48718059	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	4969868	48718059	53813333	67	24043											
TMOD3	29766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52161517	52161517	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatatctggagaaagaagCattggagcataaagacaggg	16	8	12	5	0	2	3	1	0	1	3	2	5	2	4	0	3	2	2	0	3	5	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	52161517	C	A	52161517	3	1	462	1	0	0	0	0	1	0	0	0	16234	710	25	4	236	4	TMOD3	15	52161517	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	3443458	52161517	50369875	68	24044											
PPL	5493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4940260	4940260	+	Silent	SNP	T	T	G																															tcgtaactggggatgctgacTaggaactgcagcacgtggtc																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	4940260	T	G	4940260	2	3	462	1	0	0	0	0	0	0	0	1	12336	1509	53	5		5	PPL	16	4940260	Silent	SNP	T	TCGA-CZ-5459-01A-01D-1501-10		4940260	85414493	69	24045	342	2									
PPL	5493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	4940261	4940261	+	Missense_Mutation	SNP	A	A	G																															cgtaactggggatgctgactAggaactgcagcacgtggtca																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	4940261	A	G	4940261	3	3	462	1	0	0	0	0	1	0	0	0	12336	420	15	3	3053	3	PPL	16	4940261	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	1	4940261	85414492	70	24046	342	2									
PPL	5493	broad.mit.edu;ucsc.edu	37	chr16	4940294	4940294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtcatggccgcggtggAagtgctcgtaggctgccttg	4	10	17	10	4	1	0	1	0	0	0	2	1	1	1	2	5	2	3	2	5	2	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	4940294	G	G	4940294	3	3	462	1	0	0	0	0	1	0	0	0	12336	246	9	3	3086	3	PPL	16	4940294	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	33	4940294	85414459	71	24047											
TMED6	146456	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69385482	69385482	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatccagtctggtgggcaaAttgccaaaagcattccgtgc	10	10	11	10	1	1	0	0	0	1	0	3	0	3	0	3	2	3	3	3	2	4	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	69385482	A	T	69385482	3	4	462	1	0	0	0	0	1	0	0	0	16007	101	4	5	563	5	TMED6	16	69385482	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	64445188	69385482	20969271	72	24048											
PHLPP2	23035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71712811	71712811	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttgaaggaaattcccaagGaggaaagctgttgtagattt	13	12	12	4	0	0	2	0	1	0	1	1	5	1	5	1	3	1	4	1	3	5	5	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	71712811	G	T	71712811	3	4	462	1	0	0	0	0	1	0	0	0	11855	1174	41	4	2904	4	PHLPP2	16	71712811	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	2327329	71712811	18641942	73	24049											
CLDN7	1366	broad.mit.edu	37	chr17	7163812	7163812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcccaggatgactagggCagaccctgcccagccaataa	12	5	9	15	0	0	2	0	1	0	1	1	3	1	3	5	2	2	1	5	2	3	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	7163812	T	T	7163812	3	4	462	1	0	0	0	0	1	0	0	0	3490	710	25	2	122	2	CLDN7	17	7163812	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		7163812	74031398	74	24050											
SMCR8	140775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18219366	18219366	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttggcacttttgatctcaAttacttctccctgcgtatca	7	18	5	11	1	3	1	2	1	2	0	5	1	3	1	1	1	2	2	1	1	3	7	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	18219366	A	G	18219366	3	3	462	1	0	0	0	0	1	0	0	0	14794	101	4	3	265	3	SMCR8	17	18219366	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	11055554	18219366	62975844	75	24051											
RDM1	201299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34257695	34257695	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactagcaaggttttgtcacTctcgatgggaaccgcaaaag	12	9	10	10	2	2	0	1	0	1	0	3	2	2	1	1	2	2	3	1	2	5	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	34257695	T	A	34257695	3	1	462	1	0	0	0	0	1	0	0	0	13199	1551	54	5	916	5	RDM1	17	34257695	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	16038329	34257695	46937515	76	24052											
TOP2A	7153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38545832	38545832	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggtttctttgcccgtacaGattttgcccgaggagccaca	8	12	10	11	2	1	1	0	0	1	1	1	3	1	2	3	2	4	2	3	2	2	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	38545832	G	A	38545832	3	1	462	1	0	0	0	0	1	0	0	0	16364	942	33	2	64	2	TOP2A	17	38545832	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	4288137	38545832	42649378	77	24053											
KRT12	3859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39021170	39021171	+	Frame_Shift_Ins	INS	-	-	T																															cacccggcgcaggccattgaINStgtcggcctctacgccctgg																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	39021171	-	T	39021170	7	5	462	1	0	1	1	0	0	0	0	0	8449	333	12	0	813	0	KRT12	17	39021170	Frame_Shift_Ins	INS	-	TCGA-CZ-5459-01A-01D-1501-10	475338	39021170	42174040	78	24054											
GHDC	84514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40342212	40342212	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcctttaccttgtctcgAttttcctctgacagattcct	5	18	5	13	1	3	2	0	1	3	1	7	3	5	2	4	0	1	0	4	0	1	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	40342212	A	G	40342212	2	3	462	1	0	0	0	0	0	0	0	1	6369	330	12	3		3	GHDC	17	40342212	Silent	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	1321042	40342212	40852998	79	24055											
ACSF2	80221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48540792	48540792	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgatcctgcccaaccccCtgtaccattgcctgggttcc	6	10	9	16	0	0	1	0	1	0	0	2	2	2	2	7	2	4	2	7	2	2	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	48540792	C	A	48540792	3	1	462	1	0	0	0	0	1	0	0	0	175	680	24	4	955	4	ACSF2	17	48540792	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	8198580	48540792	32654418	80	24056											
KCNH6	81033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	61613155	61613155	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctcatgtgcaccttcgcGctcatagcgcactggctggc	5	11	11	14	3	2	0	2	0	0	0	3	0	2	0	1	2	3	5	1	2	1	3	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	61613155	G	A	61613155	2	1	462	1	0	0	0	0	0	0	0	1	8036	1074	38	1		1	KCNH6	17	61613155	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	13072363	61613155	19582055	81	24057											
ERN1	2081	hgsc.bcm.edu;ucsc.edu	37	chr17	62122827	62122827	+	Frame_Shift_Del	DEL	T	T	-																															atccagggattccttttctaTtctgtcgctcacgtcctgtg																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	62122827	T	-	62122827	7	5	462	1	0	1	0	1	0	0	0	0	5237	1493	52	0	400	0	ERN1	17	62122827	Frame_Shift_Del	DEL	T	TCGA-CZ-5459-01A-01D-1501-10	509672	62122827	19072383	82	24058											
CCDC46	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	64059172	64059172	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctttagtctctctgataActtgacagtcacgtatcagt	9	16	6	10	1	5	2	2	2	3	0	6	2	5	2	0	0	1	1	0	0	3	6	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	64059172	A	T	64059172	3	4	462	1	0	0	0	0	1	0	0	0	2817	43	2	5	2118	5	CCDC46	17	64059172	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	1936345	64059172	17136038	83	24059											
SRP68	6730	broad.mit.edu;hgsc.bcm.edu	37	chr17	74042206	74042206	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctgctgctgcagcagagcCctctgcagacctttggccat	6	9	12	14	0	1	2	0	0	1	2	1	2	1	2	3	2	6	6	3	2	0	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	74042206	C	T	74042206	2	4	462	1	0	0	0	0	0	0	0	1	15157	622	22	2		2	SRP68	17	74042206	Silent	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	9983034	74042206	7153004	84	24060											
SLC16A3	9123	broad.mit.edu;ucsc.edu	37	chr17	80194627	80194627	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccgctctgcagtgtgtgcgtGaaccgctttggctgccggcc	3	10	14	14	4	1	1	0	1	1	0	1	1	1	1	4	2	4	4	4	2	1	1	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		C	80194627	C	C	80194627	2	2	462	1	0	0	0	0	0	0	0	1	14411	1277	45	4		4	SLC16A3	17	80194627	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	6152421	80194627	1000583	85	24061											
ABHD3	171586	hgsc.bcm.edu;ucsc.edu	37	chr18	19239274	19239274	+	Frame_Shift_Del	DEL	A	A	-																															atcaaaggcgttttggacccAattttgcccaagtaatttag																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	19239274	A	-	19239274	7	5	462	1	0	1	0	1	0	0	0	0	83	126	5	0	546	0	ABHD3	18	19239274	Frame_Shift_Del	DEL	A	TCGA-CZ-5459-01A-01D-1501-10		19239274	58837974	86	24062											
CHST9	83539	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	24496329	24496329	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttaaatactgtctcacgActtgagcattggttctttca	9	16	6	10	1	3	1	2	1	2	0	4	2	3	1	1	1	2	2	1	1	3	7	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	24496329	A	G	24496329	3	3	462	1	0	0	0	0	1	0	0	0	3411	275	10	3	109	3	CHST9	18	24496329	Missense_Mutation	SNP	A	TCGA-CZ-5459-01A-01D-1501-10	5257055	24496329	53580919	87	24063											
ME2	4200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	48422198	48422198	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtgaaagaaaagatgttgtCccggttaagagtagtttcca	13	11	12	5	1	0	4	0	1	0	3	2	4	2	4	2	2	0	4	2	2	5	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	48422198	C	T	48422198	3	4	462	1	0	0	0	0	1	0	0	0	9418	855	30	2	10	2	ME2	18	48422198	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	23925869	48422198	29655050	88	24064											
C3	718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	6697533	6697533	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttggtggtggccaggctgCagaaggctggattgtggagt	6	11	18	6	0	1	1	0	0	1	1	1	3	1	3	1	7	1	3	1	7	1	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	6697533	C	T	6697533	3	4	462	1	0	0	0	0	1	0	0	0	2204	710	25	2	2457	2	C3	19	6697533	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		6697533	52431450	89	24065											
ZNF546	339327	hgsc.bcm.edu;ucsc.edu	37	chr19	40519822	40519824	+	In_Frame_Del	DEL	ATC	ATC	-																															aaaattcatgctagagagaaAtcatatgaatgtaaggaatg																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	40519824	ATC	-	40519822	7	5	462	1	0	1	0	1	0	0	0	0	17977	98	4	0	663	0	ZNF546	19	40519822	In_Frame_Del	DEL	ATC	TCGA-CZ-5459-01A-01D-1501-10	33822289	40519822	18609161	90	24066											
CEACAM6	4680	broad.mit.edu	37	chr19	42260806	42260806	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgacacaggattctatacCctacaagtcataaagtcaga	17	9	6	9	0	3	2	2	1	1	1	3	3	3	3	1	1	2	0	1	1	7	5	rs138986236	alternate_allele	TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	42260806	T	T	42260806	2	4	462	1	0	0	0	0	0	0	0	1	3196	610	22	2		2	CEACAM6	19	42260806	Silent	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	1740984	42260806	16868177	91	24067											
CCDC61	729440	broad.mit.edu;ucsc.edu	37	chr19	46511489	46511489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaaggaggaactgggcCgcctgcaagggctggatggc	9	5	17	10	1	0	1	0	1	0	0	0	4	0	4	2	6	2	2	2	6	3	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	46511489	T	T	46511489	3	4	462	1	0	0	0	0	1	0	0	0	2832	652	23	1	674	1	CCDC61	19	46511489	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	4250683	46511489	12617494	92	24068											
ZNF304	57343	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	57865150	57865150	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgggaggagtgggaactcCttgaggaggcacagagattc	10	7	16	8	1	0	2	0	1	0	1	3	7	1	6	1	5	1	1	1	5	1	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	57865150	C	T	57865150	3	4	462	1	0	0	0	0	1	0	0	0	17832	681	24	2	97	2	ZNF304	19	57865150	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	11353661	57865150	1263833	93	24069											
C20orf79	0	hgsc.bcm.edu	37	chr20	18794843	18794843	+	Frame_Shift_Del	DEL	T	T	-																															aaaatgaacccgcagaaggcTttccttgccggaaagttcaa																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	18794843	T	-	18794843	7	5	462	1	0	1	0	1	0	0	0	0	2119	1596	56	0	386	0	C20orf79	20	18794843	Frame_Shift_Del	DEL	T	TCGA-CZ-5459-01A-01D-1501-10		18794843	44230677	94	24070											
FOXA2	3170	broad.mit.edu	37	chr20	22562794	22562794	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctcaggcggcaggccCgggtggtggggcgggcccag	3	4	22	12	3	1	0	1	0	0	0	1	0	1	0	3	9	0	1	3	9	0	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	22562794	T	T	22562794	2	4	462	1	0	0	0	0	0	0	0	1	5990	639	23	1		1	FOXA2	20	22562794	Silent	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	3767951	22562794	40462726	95	24071											
C20orf117	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	35414908	35414908	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcactcgctgggggggagtgCcctctcctccccaccccagc	4	7	11	19	1	2	0	1	0	1	0	5	1	3	1	6	3	2	1	6	3	0	0	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	35414908	C	A	35414908	3	1	462	1	0	0	0	0	1	0	0	0	2083	739	26	4	85	4	C20orf117	20	35414908	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10	12852114	35414908	27610612	96	24072											
BRWD1	54014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	40559338	40559338	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttctctgtctctaggaaCaaattctgaaaaatgagtga	13	12	10	6	0	3	3	0	3	3	0	5	4	3	4	0	2	1	1	0	2	5	3	rs140524582		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	40559338	C	A	40559338	3	1	462	1	0	0	0	0	1	0	0	0	1525	478	17	4	389	4	BRWD1	21	40559338	Missense_Mutation	SNP	C	TCGA-CZ-5459-01A-01D-1501-10		40559338	7570557	97	24073											
PDXK	8566	hgsc.bcm.edu;ucsc.edu	37	chr21	45163648	45163649	+	Frame_Shift_Del	DEL	TG	TG	-																															ctggccatggtggtggacatTgtgcaggagctgaagcagca																								novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		-	45163649	TG	-	45163648	7	5	462	1	0	1	0	1	0	0	0	0	11697	1800	63	0	305	0	PDXK	21	45163648	Frame_Shift_Del	DEL	TG	TCGA-CZ-5459-01A-01D-1501-10	4604310	45163648	2966247	98	24074											
MMP11	4320	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24122848	24122848	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccccaagactcaccgaGaaggggatgtccacttcgac	10	8	9	14	2	2	2	1	0	1	2	5	5	4	3	4	2	0	0	4	2	2	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	24122848	G	T	24122848	4	4	462	1	0	0	0	0	0	1	0	0	9650	943	33	4	576	4	MMP11	22	24122848	Nonsense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10		24122848	27181718	99	24075											
TMPRSS6	164656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	37469600	37469600	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgctcttcgtcgctgccGttgagacaatcaggctgccc	6	10	10	15	3	2	1	1	1	1	1	4	2	2	1	2	1	3	4	2	1	1	2	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	37469600	G	A	37469600	2	1	462	1	0	0	0	0	0	0	0	1	16250	1136	40	1		1	TMPRSS6	22	37469600	Silent	SNP	G	TCGA-CZ-5459-01A-01D-1501-10	13346752	37469600	13834966	100	24076											
TMPRSS6	164656	broad.mit.edu	37	chr22	37499264	37499264	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacaacgttacctaggaaaTaccagagtagcacccccgcc	13	5	7	16	2	0	1	0	0	0	1	0	2	0	2	6	1	4	3	6	1	6	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		A	37499264	A	A	37499264	3	1	462	1	0	0	0	0	1	0	0	0	16250	1406	49	5	2282	5	TMPRSS6	22	37499264	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	29664	37499264	13805302	101	24077											
ARSH	347527	broad.mit.edu	37	chrX	2928175	2928175	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccttcctgaccggccGgtaccccatcagatcaggtg	6	8	12	15	2	2	2	2	1	0	1	3	2	3	2	6	4	2	2	6	4	1	2	rs143754233	byfrequency;alternate_allele	TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		T	2928175	T	T	2928175	3	4	462	1	0	0	0	0	1	0	0	0	993	1116	39	4	203	4	ARSH	23	2928175	Missense_Mutation	SNP	G	TCGA-CZ-5459-01A-01D-1501-10		2928175	152342385	102	24078											
NKRF	55922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	118724240	118724240	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagctaagcagtgatctTgtaaaaacactcgacaacgc	14	9	7	11	2	2	1	1	1	1	0	3	2	2	1	0	0	4	3	0	0	5	4	novel		TCGA-CZ-5459-01A-01D-1501-10	TCGA-CZ-5459-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5711cdaa-7368-4a4f-8639-5df60a2fedac	c1fea46c-46f7-4801-9572-53b18bf75f56		G	118724240	T	G	118724240	3	3	462	1	0	0	0	0	1	0	0	0	10447	1812	63	5	928	5	NKRF	23	118724240	Missense_Mutation	SNP	T	TCGA-CZ-5459-01A-01D-1501-10	115796065	118724240	36546320	103	24079											
ZMPSTE24	10269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40726535	40726535	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatatataaaacaacaactCatgtaccaccggagttagga	17	8	8	8	1	1	0	1	0	0	0	1	3	1	3	2	3	4	2	2	3	8	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	40726535	C	T	40726535	3	4	463	1	0	0	0	0	1	0	0	0	17697	826	29	2	154	2	ZMPSTE24	1	40726535	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10		40726535	208524086	1	24080											
PKN2	5586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	89236126	89236126	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagattcttcaggcagtccAgactaatgaattggcttttg	10	13	10	8	0	2	3	1	1	1	2	3	3	3	3	1	2	0	3	1	2	2	6	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	89236126	A	T	89236126	3	4	463	1	0	0	0	0	1	0	0	0	11980	188	7	5	610	5	PKN2	1	89236126	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	48509591	89236126	160014495	2	24081											
SLC16A4	9122	hgsc.bcm.edu;ucsc.edu	37	chr1	110921820	110921820	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactcttctgtctcatggcAgtgtgtttctgttgcatgtg	5	17	11	8	0	4	1	1	0	4	1	5	1	4	1	0	1	1	4	0	1	0	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	110921820	A	T	110921820	3	4	463	1	0	0	0	0	1	0	0	0	14412	188	7	5	794	5	SLC16A4	1	110921820	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	21685694	110921820	138328801	3	24082											
DHX9	1660	hgsc.bcm.edu;ucsc.edu	37	chr1	182825719	182825719	+	RNA	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctgggcagaagtaagTgttactgtttccccaatatt	11	12	10	8	0	0	1	0	0	0	1	1	1	1	1	2	1	3	6	2	1	5	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		C	182825719	T	C	182825719	1	2	463	0	1	0	0	0	0	0	0	0	4516	1711	59	3		3	DHX9	1	182825719	RNA	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	71903899	182825719	66424902	4	24083											
OR2W5	441932	broad.mit.edu	37	chr1	247655361	247655361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctggggtgggagaaagggGctggggagcctcaacgaggg	8	6	21	6	1	2	1	1	0	1	1	2	4	2	2	1	8	2	1	1	8	2	1	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	247655361	A	A	247655361	3	1	463	1	0	0	0	0	1	0	0	0	11034	1203	42	2	934	2	OR2W5	1	247655361	Missense_Mutation	SNP	G	TCGA-CZ-5460-01A-01D-1501-10	64829642	247655361	1595260	5	24084											
SLC30A6	55676	broad.mit.edu	37	chr2	32422862	32422862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatcttgctggagcatttgCtctttgtattacatatatgc	8	18	8	7	0	2	1	0	1	2	0	2	2	2	2	0	1	5	4	0	1	4	7	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	32422862	T	T	32422862	3	4	463	1	0	0	0	0	1	0	0	0	14561	797	28	2	670	2	SLC30A6	2	32422862	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10		32422862	210776511	6	24085											
IL18RAP	8807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	103068553	103068553	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagggattcacgtggaaccAgctcagaattacctctagga	12	9	10	10	1	4	1	3	0	1	1	4	4	4	4	2	3	3	1	2	3	4	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	103068553	A	G	103068553	3	3	463	1	0	0	0	0	1	0	0	0	7648	188	7	3	1750	3	IL18RAP	2	103068553	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	70645691	103068553	140130820	7	24086											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191593	10191593	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccacccaaatgtgcagAaagacctggagcggctgaca	15	4	11	11	1	0	4	0	1	0	3	0	5	0	5	3	2	2	2	3	2	3	0	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	10191593	A	T	10191593	4	4	463	1	0	0	0	0	0	1	0	0	17161	247	9	5	596	5	VHL	3	10191593	Nonsense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10		10191593	187830837	8	24087											
GOLGA4	2803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	37343778	37343778	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaaacagatgactaccCagggagaggaattacgggaa	16	5	12	8	1	1	3	1	1	0	2	1	6	1	5	1	3	3	1	1	3	5	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	37343778	C	A	37343778	3	1	463	1	0	0	0	0	1	0	0	0	6555	595	21	4	1297	4	GOLGA4	3	37343778	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	27152185	37343778	160678652	9	24088											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52584765	52584766	+	Frame_Shift_Ins	INS	-	-	TT																															caaactgggaggctcacctgINSttgtccatatggacttccac																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	-	-	-	TT	-	-	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		TT	52584766	-	TT	52584765	7	5	463	1	0	1	1	0	0	0	0	0	11491	1386	48	0	403	0	PBRM1	3	52584765	Frame_Shift_Ins	INS	-	TCGA-CZ-5460-01A-01D-1501-10	15240987	52584765	145437665	10	24089											
CASR	846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122002936	122002936	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttgaggccaagatccccaCcagcttccaccgcaagtggt	9	8	10	14	1	0	2	0	1	0	1	2	2	2	2	6	2	1	3	6	2	2	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	122002936	C	T	122002936	3	4	463	1	0	0	0	0	1	0	0	0	2682	507	18	2	2187	2	CASR	3	122002936	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	69418171	122002936	76019494	11	24090											
MUC4	4585	hgsc.bcm.edu	37	chr3	195508415	195508462	+	In_Frame_Del	DEL	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-																															tgaggaagtgtcggtgacagGcacaggggtggtgtcacctg																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	195508462	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	-	195508415	7	5	463	1	0	1	0	1	0	0	0	0	9978	1203	42	0		0	MUC4	3	195508415	In_Frame_Del	DEL	GCACAGGGGTGGTGTCACCTGTGGATGCTGAGGAAGGGCTGGTGACAT	TCGA-CZ-5460-01A-01D-1501-10	73505479	195508415	2514015	12	24091											
MUC4	4585	broad.mit.edu	37	chr3	195511888	195511888	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaagaggggtggcgtgaCctgtggatgctgaggaagtg	9	7	20	5	1	0	3	0	2	0	1	0	6	0	6	1	6	1	1	1	6	2	0	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	195511888	G	G	195511888	3	3	463	1	0	0	0	0	1	0	0	0	9978	507	18	4		4	MUC4	3	195511888	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	3473	195511888	2510542	13	24092											
INPP4B	8821	hgsc.bcm.edu;ucsc.edu	37	chr4	143067033	143067034	+	Frame_Shift_Ins	INS	-	-	T																															catctgttaatgaaggttccINSttttctccatcattgttgcc																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	143067034	-	T	143067033	7	5	463	1	0	1	1	0	0	0	0	0	7753	680	24	0	1130	0	INPP4B	4	143067033	Frame_Shift_Ins	INS	-	TCGA-CZ-5460-01A-01D-1501-10		143067033	48087243	14	24093											
FGG	2266	broad.mit.edu	37	chr4	155527857	155527857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaagaaaggaaaacatacCttggtaataaactccattga	18	10	6	7	0	1	2	0	1	1	1	2	3	2	3	2	2	3	1	2	2	8	6	rs192482410	by1000genomes;alternate_allele	TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	155527857	T	T	155527857	3	4	463	1	0	0	0	0	1	0	0	0	5870	695	24	2	259	2	FGG	4	155527857	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	12460824	155527857	35626419	15	24094											
AGA	175	broad.mit.edu;ucsc.edu	37	chr4	178357480	178357480	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtaccagcagcaatatgTcctgtcttatggattacaac	12	12	8	9	0	1	0	0	0	1	0	2	2	2	1	2	1	5	3	2	1	6	4	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	178357480	A	A	178357480	2	1	463	1	0	0	0	0	0	0	0	1	365	1654	58	5		5	AGA	4	178357480	Silent	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	22829623	178357480	12796796	16	24095											
CWC27	10283	broad.mit.edu;ucsc.edu	37	chr5	64082386	64082386	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttgatgacatcattccaagGgaaattaaaaggctgaaaaa	18	10	8	5	0	1	3	1	3	0	0	2	4	2	4	1	2	0	1	1	2	6	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	64082386	A	A	64082386	2	1	463	1	0	0	0	0	0	0	0	1	4070	1223	43	2		2	CWC27	5	64082386	Silent	SNP	G	TCGA-CZ-5460-01A-01D-1501-10		64082386	116832874	17	24096											
G3BP1	10146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	151179550	151179550	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaatattcctccccaaagggGacccagaccaagtaagagct	15	6	8	12	0	0	2	0	0	0	2	2	3	2	3	5	2	1	2	5	2	5	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	151179550	G	A	151179550	3	1	463	1	0	0	0	0	1	0	0	0	6141	1174	41	2	974	2	G3BP1	5	151179550	Missense_Mutation	SNP	G	TCGA-CZ-5460-01A-01D-1501-10	87097164	151179550	29735710	18	24097											
C6orf62	81688	broad.mit.edu	37	chr6	24719011	24719011	+	5'UTR	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttcctgctaatatgattGattagcgaaaatcacgacta	13	15	6	7	2	1	2	1	2	0	0	2	4	2	2	1	0	2	1	1	0	6	7	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	24719011	T	T	24719011	1	4	463	0	1	0	0	0	0	0	0	0	2368	1305	45	4		4	C6orf62	6	24719011	5'UTR	SNP	G	TCGA-CZ-5460-01A-01D-1501-10		24719011	146396056	19	24098											
DPCR1	135656	hgsc.bcm.edu;ucsc.edu	37	chr6	30918543	30918545	+	In_Frame_Del	DEL	TTG	TTG	-																															aaaatggagacaggactccaTtggccaatgagaagaccaca																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	30918545	TTG	-	30918543	7	5	463	1	0	1	0	1	0	0	0	0	4712	1490	52	0	2308	0	DPCR1	6	30918543	In_Frame_Del	DEL	TTG	TCGA-CZ-5460-01A-01D-1501-10	6199532	30918543	140196524	20	24099											
GJA10	84694	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90604723	90604723	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataggccaatatattctctAtgggtttcaaatgcaccccc	11	12	7	11	0	2	0	1	0	1	0	3	1	2	0	3	2	1	2	3	2	6	6	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	90604723	A	G	90604723	3	3	463	1	0	0	0	0	1	0	0	0	6401	449	16	3	538	3	GJA10	6	90604723	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	59686180	90604723	80510344	21	24100											
PLG	5340	hgsc.bcm.edu;ucsc.edu	37	chr6	161155095	161155095	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaatccaagaaaactttaCgactactgtgatgtccctca	15	10	5	11	1	1	2	1	1	0	1	3	3	3	2	2	0	3	0	2	0	6	3	rs113153850		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	161155095	C	T	161155095	2	4	463	1	0	0	0	0	0	0	0	1	12086	547	19	1		1	PLG	6	161155095	Silent	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	70550372	161155095	9959972	22	24101											
AHR	196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	17379447	17379448	+	Frame_Shift_Ins	INS	-	-	C																															tgcctttcaattgtccacagINScaagacccacaacaatataa																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		C	17379448	-	C	17379447	7	5	463	1	0	1	1	0	0	0	0	0	416	962	34	0	2036	0	AHR	7	17379447	Frame_Shift_Ins	INS	-	TCGA-CZ-5460-01A-01D-1501-10		17379447	141759216	23	24102											
TAX1BP1	8887	hgsc.bcm.edu	37	chr7	27856058	27856059	+	Frame_Shift_Ins	INS	-	-	A																															tttcaaaacatgctcagagcINSaaaatggttatgttctcaca																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	27856059	-	A	27856058	7	5	463	1	0	1	1	0	0	0	0	0	15593	711	25	0	1905	0	TAX1BP1	7	27856058	Frame_Shift_Ins	INS	-	TCGA-CZ-5460-01A-01D-1501-10	10476611	27856058	131282605	24	24103											
IFNA1	3439	broad.mit.edu	37	chr9	21440985	21440985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgacagagaagaaatacaGcccttgtgcctgggaggttg	11	9	13	8	0	1	3	0	1	1	2	1	5	1	4	2	2	3	1	2	2	3	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	21440985	A	A	21440985	3	1	463	1	0	0	0	0	1	0	0	0	7531	971	34	2	481	2	IFNA1	9	21440985	Missense_Mutation	SNP	G	TCGA-CZ-5460-01A-01D-1501-10		21440985	119772446	25	24104											
FRMPD1	22844	broad.mit.edu;ucsc.edu	37	chr9	37744613	37744613	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatcagcctccctggagAgtgtagacgacgtgtgctac	8	9	12	12	2	1	2	1	0	0	2	2	4	2	2	3	1	4	2	3	1	2	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	37744613	T	T	37744613	3	4	463	1	0	0	0	0	1	0	0	0	6057	304	11	5	2642	5	FRMPD1	9	37744613	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	16303628	37744613	103468818	26	24105											
PRUNE2	158471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79438564	79438564	+	Missense_Mutation	SNP	A	A	G																															ttacctcaaggttcatgctcAcagtactaatggccactttt																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	79438564	A	G	79438564	3	3	463	1	0	0	0	0	1	0	0	0	12643	159	6	3	8582	3	PRUNE2	9	79438564	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	41693951	79438564	61774867	27	24106	343	2									
PRUNE2	158471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79438565	79438565	+	Missense_Mutation	SNP	C	C	G																															tacctcaaggttcatgctcaCagtactaatggccactttta																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	79438565	C	G	79438565	3	3	463	1	0	0	0	0	1	0	0	0	12643	478	17	4	8583	4	PRUNE2	9	79438565	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	1	79438565	61774866	28	24107	343	2									
WNK2	65268	broad.mit.edu;ucsc.edu	37	chr9	95997112	95997112	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcccgagttcatggcgccCgagatgtacgaggagcacta	10	7	12	12	4	1	1	1	0	0	1	2	5	2	2	2	2	2	3	2	2	2	3	rs113308587	bycluster;byfrequency;by1000genomes	TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	95997112	T	T	95997112	2	4	463	1	0	0	0	0	0	0	0	1	17377	639	23	1		1	WNK2	9	95997112	Silent	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	16558547	95997112	45216319	29	24108											
ABCA1	19	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	107573110	107573110	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgtactgttcgttgtacatCcagggctgaagttccaggct	7	13	12	9	1	0	1	0	1	0	0	3	1	2	1	2	2	2	7	2	2	3	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	107573110	C	A	107573110	3	1	463	1	0	0	0	0	1	0	0	0	28	856	30	4	2727	4	ABCA1	9	107573110	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	11575998	107573110	33640321	30	24109											
SFMBT2	57713	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7217995	7217995	+	Missense_Mutation	SNP	T	T	A																															gagcagttctctgggcagttTtcagatatcagcacaggact																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	7217995	T	A	7217995	3	1	463	1	0	0	0	0	1	0	0	0	14160	1838	64	5	763	5	SFMBT2	10	7217995	Missense_Mutation	SNP	T	TCGA-CZ-5460-01A-01D-1501-10		7217995	128316752	31	24110	344	2									
SFMBT2	57713	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7217996	7217996	+	Missense_Mutation	SNP	T	T	G																															agcagttctctgggcagtttTcagatatcagcacaggacta																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	7217996	T	G	7217996	3	3	463	1	0	0	0	0	1	0	0	0	14160	1783	62	5	764	5	SFMBT2	10	7217996	Missense_Mutation	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	1	7217996	128316751	32	24111	344	2									
ANKRD1	27063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	92679944	92679944	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctgcctctcgttgtttCtcgcttttccactgttgctc	2	18	6	15	2	3	0	0	0	3	0	7	0	4	0	3	0	2	5	3	0	0	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	92679944	C	A	92679944	3	1	463	1	0	0	0	0	1	0	0	0	637	912	32	4	802	4	ANKRD1	10	92679944	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	85461948	92679944	42854803	33	24112											
GPAM	57678	broad.mit.edu;ucsc.edu	37	chr10	113932775	113932775	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacctttgtgaatttgaaTgttccaaaagaagctgttga	12	15	9	5	0	0	5	0	4	0	1	1	5	1	5	2	0	1	3	2	0	5	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		C	113932775	C	C	113932775	3	2	463	1	0	0	0	0	1	0	0	0	6588	1464	51	3	1936	3	GPAM	10	113932775	Missense_Mutation	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	21252831	113932775	21601972	34	24113											
SPTBN2	6712	broad.mit.edu	37	chr11	66463961	66463961	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtctctcagcttctcCgacaccagggctttcagctc	6	11	9	15	1	4	0	2	0	2	0	7	1	4	0	2	2	3	4	2	2	0	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	66463961	A	A	66463961	2	1	463	1	0	0	0	0	0	0	0	1	15121	639	23	4		4	SPTBN2	11	66463961	Silent	SNP	C	TCGA-CZ-5460-01A-01D-1501-10		66463961	68542555	35	24114											
CLPB	81570	broad.mit.edu;ucsc.edu	37	chr11	72012970	72012970	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctggccaccctcctcatgGccaacgtagcctggtggaga	8	7	12	14	1	1	1	1	0	0	1	2	2	2	1	5	4	3	2	5	4	2	1	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	72012970	A	A	72012970	2	1	463	1	0	0	0	0	0	0	0	1	3551	1190	42	2		2	CLPB	11	72012970	Silent	SNP	G	TCGA-CZ-5460-01A-01D-1501-10	5549009	72012970	62993546	36	24115											
CACNA1C	775	broad.mit.edu	37	chr12	2595320	2595320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccatggtccccctgctgCacatcgccctgcttgtgctg	4	10	11	16	1	0	0	0	0	0	0	2	0	1	0	4	2	4	4	4	2	0	1	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	2595320	T	T	2595320	3	4	463	1	0	0	0	0	1	0	0	0	2540	710	25	2	830	2	CACNA1C	12	2595320	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10		2595320	131256575	37	24116											
TAS2R50	259296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	11138584	11138584	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacctaatctgacacaaaatCaaaagaaaggtgtgttttag	17	10	7	7	0	2	2	1	1	1	1	2	2	2	2	1	1	0	1	1	1	7	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	11138584	C	T	11138584	2	4	463	1	0	0	0	0	0	0	0	1	15583	825	29	2		2	TAS2R50	12	11138584	Silent	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	8543264	11138584	122713311	38	24117											
ARID2	196528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	46245726	46245726	+	Frame_Shift_Del	DEL	G	G	-																															agaacccgtcctgccgacgaGgagccacaaacaccagcaat																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	46245726	G	-	46245726	7	5	463	1	0	1	0	1	0	0	0	0	915	1001	35	0	3878	0	ARID2	12	46245726	Frame_Shift_Del	DEL	G	TCGA-CZ-5460-01A-01D-1501-10	35107142	46245726	87606169	39	24118											
PTPRR	5801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	71033004	71033004	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtctgctctcatacaggCacagagcatggtgcacaaat	14	8	9	10	0	2	1	1	0	2	1	3	1	2	1	0	2	4	4	0	2	3	1	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	71033004	C	T	71033004	3	4	463	1	0	0	0	0	1	0	0	0	12812	710	25	2	43	2	PTPRR	12	71033004	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	24787278	71033004	62818891	40	24119											
WSB2	55884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	118481141	118481141	+	Missense_Mutation	SNP	T	T	A																															tgccccgccctttcgtctcaTttttgctacttcggcttttg																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	118481141	T	A	118481141	3	1	463	1	0	0	0	0	1	0	0	0	17404	1493	52	5	1018	5	WSB2	12	118481141	Missense_Mutation	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	47448137	118481141	15370754	41	24120	345	2									
WSB2	55884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	118481144	118481144	+	Missense_Mutation	SNP	T	T	A																															cccgccctttcgtctcatttTtgctacttcggcttttggct																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	118481144	T	A	118481144	3	1	463	1	0	0	0	0	1	0	0	0	17404	1841	64	5	1021	5	WSB2	12	118481144	Missense_Mutation	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	3	118481144	15370751	42	24121	345	2									
OR4N2	390429	broad.mit.edu	37	chr14	20296164	20296164	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtcccacaggtcatcaAgctggcctgcaccgacacat	10	8	9	14	1	2	1	2	1	0	0	3	2	3	1	3	2	2	2	3	2	1	0	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	20296164	G	G	20296164	3	3	463	1	0	0	0	0	1	0	0	0	11077	72	3	3	559	3	OR4N2	14	20296164	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10		20296164	87053376	43	24122											
OSGEP	55644	broad.mit.edu;ucsc.edu	37	chr14	20916148	20916148	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaccagcattgcaaacacAgtttcctgtcagggacagat	12	10	8	11	0	2	1	1	0	1	1	3	2	3	2	2	1	4	3	2	1	2	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	20916148	G	G	20916148	2	3	463	1	0	0	0	0	0	0	0	1	11287	175	7	3		3	OSGEP	14	20916148	Silent	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	619984	20916148	86433392	44	24123											
SERPINA10	51156	broad.mit.edu;ucsc.edu	37	chr14	94756558	94756560	+	In_Frame_Del	DEL	TGA	-	-																															ctgcaagtggagccctctctTgatctgggtttcagtcggcc																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	94756560	-	-	94756558	7	5	463	1	0	1	0	1	0	0	0	0	14089	1821	63	0	977	0	SERPINA10	14	94756558	In_Frame_Del	DEL	TGA	TCGA-CZ-5460-01A-01D-1501-10	73840410	94756558	12592982	45	24124											
SERPINA1	5265	broad.mit.edu;ucsc.edu	37	chr14	94844824	94844824	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccacttttcccatgaagaGgggagacttggtattttgtt	9	14	10	8	0	0	3	0	1	0	2	1	4	1	3	2	3	0	2	2	3	2	7	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		C	94844824	C	C	94844824	3	2	463	1	0	0	0	0	1	0	0	0	14088	1000	35	4	41	4	SERPINA1	14	94844824	Missense_Mutation	SNP	G	TCGA-CZ-5460-01A-01D-1501-10	88266	94844824	12504716	46	24125											
DUOX1	53905	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	45434244	45434244	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgctccctctgttgttcgtGactattttgagggcagtgga	5	15	13	8	1	1	2	0	2	1	0	3	3	2	3	1	2	1	4	1	2	1	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	45434244	G	A	45434244	3	1	463	1	0	0	0	0	1	0	0	0	4800	1290	45	2	1810	2	DUOX1	15	45434244	Missense_Mutation	SNP	G	TCGA-CZ-5460-01A-01D-1501-10		45434244	57097148	47	24126											
PYGO1	26108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	55838992	55838992	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacattctgacttagtgcAttattataagatggattacc	12	16	7	6	0	1	3	0	2	1	1	1	4	1	4	1	1	2	1	1	1	5	7	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	55838992	A	G	55838992	2	3	463	1	0	0	0	0	0	0	0	1	12865	214	8	3		3	PYGO1	15	55838992	Silent	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	10404748	55838992	46692400	48	24127											
ARHGDIG	398	broad.mit.edu	37	chr16	332799	332799	+	Frame_Shift_Del	DEL	G	-	-																															tggggtctctgcatctgccaGgactggaaggactgaacccc																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	332799	-	-	332799	7	5	463	1	0	1	0	1	0	0	0	0	892	991	35	0	685	0	ARHGDIG	16	332799	Frame_Shift_Del	DEL	G	TCGA-CZ-5460-01A-01D-1501-10		332799	90021954	49	24128											
ACSM2A	123876	broad.mit.edu	37	chr16	20486684	20486684	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggctcttgtcttccagAcactctccagttatccaatc	8	13	5	15	0	3	1	0	0	3	1	7	1	5	1	4	1	0	2	4	1	2	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	20486684	G	G	20486684	3	3	463	1	0	0	0	0	1	0	0	0	183	289	10	3	917	3	ACSM2A	16	20486684	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	20153885	20486684	69868069	50	24129											
PDPR	55066	broad.mit.edu	37	chr16	70180077	70180077	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctgtggatgtgctgtcTgagttgtcctatgcccctat	5	14	12	10	1	1	1	0	1	1	0	2	3	2	2	3	1	3	3	3	1	2	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		C	70180077	C	C	70180077	2	2	463	1	0	0	0	0	0	0	0	1	11689	1567	55	3		3	PDPR	16	70180077	Silent	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	49693393	70180077	20174676	51	24130											
NUDT7	283927	broad.mit.edu;ucsc.edu	37	chr16	77775489	77775489	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttttagacagatacatTgataactccatttgtgggtt	10	16	8	7	0	0	3	0	1	0	2	1	3	1	3	1	1	3	2	1	1	3	7	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	77775489	G	G	77775489	3	3	463	1	0	0	0	0	1	0	0	0	10744	1821	63	5	373	5	NUDT7	16	77775489	Missense_Mutation	SNP	T	TCGA-CZ-5460-01A-01D-1501-10	7595412	77775489	12579264	52	24131											
SPDYE4	388333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	8658873	8658873	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgcgttggtattgccaCgagaagaggccggcacggct	9	8	15	9	4	0	3	0	1	0	2	0	4	0	3	2	4	2	4	2	4	3	3	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	8658873	C	T	8658873	2	4	463	1	0	0	0	0	0	0	0	1	15032	523	19	1		1	SPDYE4	17	8658873	Silent	SNP	C	TCGA-CZ-5460-01A-01D-1501-10		8658873	72536337	53	24132											
ZNF287	57336	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	16456102	16456102	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacagtcatcacacttatAgggtttctctccagtatgaa	11	12	6	12	0	3	1	2	1	1	0	5	1	4	1	2	1	0	2	2	1	4	4	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	16456102	A	T	16456102	3	4	463	1	0	0	0	0	1	0	0	0	17824	420	15	5	935	5	ZNF287	17	16456102	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10	7797229	16456102	64739108	54	24133											
GDPD1	284161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	57334552	57334552	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaggcctttcctaacaCtcccattaacatcgatatca	11	14	4	12	1	1	1	1	1	0	0	4	2	3	1	3	1	2	0	3	1	3	6	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	57334552	C	T	57334552	3	4	463	1	0	0	0	0	1	0	0	0	6323	565	20	2	455	2	GDPD1	17	57334552	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	40878450	57334552	23860658	55	24134											
ZNF100	163227	broad.mit.edu;hgsc.bcm.edu	37	chr19	21909967	21909967	+	Frame_Shift_Del	DEL	A	A	-																															agtaaggtatgagaatcggtAaaaagctttgccacattctt																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	21909967	A	-	21909967	7	5	463	1	0	1	0	1	0	0	0	0	17712	362	13	0	485	0	ZNF100	19	21909967	Frame_Shift_Del	DEL	A	TCGA-CZ-5460-01A-01D-1501-10		21909967	37219016	56	24135											
LRFN1	57622	broad.mit.edu	37	chr19	39805558	39805558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttccaaggatcaggtggCggaggttgcccaggccgcgg	6	8	17	10	3	1	0	1	0	0	0	2	2	2	2	3	7	1	2	3	7	1	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	39805558	T	T	39805558	3	4	463	1	0	0	0	0	1	0	0	0	8937	768	27	1	1904	1	LRFN1	19	39805558	Missense_Mutation	SNP	C	TCGA-CZ-5460-01A-01D-1501-10	17895591	39805558	19323425	57	24136											
B3GNT8	374907	broad.mit.edu;ucsc.edu	37	chr19	41932579	41932579	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggtgccccgagggctgggGtaggccttgctgagccggga	4	6	21	10	2	0	1	0	1	0	0	0	3	0	2	4	7	3	3	4	7	1	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		A	41932579	A	A	41932579	2	1	463	1	0	0	0	0	0	0	0	1	1263	1256	44	2		2	B3GNT8	19	41932579	Silent	SNP	G	TCGA-CZ-5460-01A-01D-1501-10	2127021	41932579	17196404	58	24137											
NPAS1	4861	broad.mit.edu	37	chr19	47539293	47539293	+	Frame_Shift_Del	DEL	G	-	-																															tcagaggtgctggagcaactGgggctgcggacgccgacgcc																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	47539293	-	-	47539293	7	5	463	1	0	1	0	1	0	0	0	0	10562	1335	47	0	612	0	NPAS1	19	47539293	Frame_Shift_Del	DEL	G	TCGA-CZ-5460-01A-01D-1501-10	5606714	47539293	11589690	59	24138											
ZNF831	128611	broad.mit.edu	37	chr20	57766859	57766860	+	Frame_Shift_Del	DEL	GG	-	-																															tgccaagaacctggatgtgaGgaccgaagctgctccctgtc																								novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		-	57766860	-	-	57766859	7	5	463	1	0	1	0	1	0	0	0	0	18184	1000	35	0	787	0	ZNF831	20	57766859	Frame_Shift_Del	DEL	GG	TCGA-CZ-5460-01A-01D-1501-10		57766859	5258661	60	24139											
BRWD1	54014	broad.mit.edu;ucsc.edu	37	chr21	40568695	40568695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttccataggtcctgagTcttctgccattccacctgcg	5	13	8	15	1	2	1	0	1	2	0	5	1	5	1	6	1	2	0	6	1	1	4	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		C	40568695	C	C	40568695	2	2	463	1	0	0	0	0	0	0	0	1	1525	1664	58	3		3	BRWD1	21	40568695	Silent	SNP	T	TCGA-CZ-5460-01A-01D-1501-10		40568695	7561200	61	24140											
MID1IP1	58526	broad.mit.edu	37	chrX	38664279	38664279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcattggcgccgtgaacaAcatggaccagacggtgatgg	10	8	13	10	3	1	3	1	2	0	1	1	4	1	4	2	4	2	0	2	4	2	2	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		G	38664279	G	G	38664279	3	3	463	1	0	0	0	0	1	0	0	0	9577	43	2	3	82	3	MID1IP1	23	38664279	Missense_Mutation	SNP	A	TCGA-CZ-5460-01A-01D-1501-10		38664279	116606281	62	24141											
MAGEA5	4104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	151283746	151283746	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttggcccctcctcttcttgGttgctggagcccttaatgga	4	14	10	13	0	2	0	0	0	2	0	3	2	3	2	4	4	2	2	4	4	1	5	novel		TCGA-CZ-5460-01A-01D-1501-10	TCGA-CZ-5460-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a6de1551-2a1a-4a43-ba7f-caa436f5f6dd	ce595188-1b2d-46f1-b1d0-a44d2294d9a0		T	151283746	G	T	151283746	3	4	463	1	0	0	0	0	1	0	0	0	9169	1252	44	4	111	4	MAGEA5	23	151283746	Missense_Mutation	SNP	G	TCGA-CZ-5460-01A-01D-1501-10	112619467	151283746	3986814	63	24142											
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39893209	39893209	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgacttcttatctgtcAcagagaaaaagcttgctaac	12	14	6	9	0	4	2	1	1	3	1	4	3	4	2	0	0	3	2	0	0	4	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	39893209	A	T	39893209	3	4	464	1	0	0	0	0	1	0	0	0	9144	159	6	5	16590	5	MACF1	1	39893209	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10		39893209	209357412	1	24143											
ABCA4	24	broad.mit.edu	37	chr1	94514511	94514511	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcttctctggttgaacAccctgcaccaatcagaagcc	9	12	6	14	0	4	2	1	1	3	1	5	2	4	2	3	1	3	2	3	1	3	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	94514511	C	C	94514511	3	2	464	1	0	0	0	0	1	0	0	0	34	159	6	5	4297	5	ABCA4	1	94514511	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10	54621302	94514511	154736110	2	24144											
CELSR2	1952	broad.mit.edu;hgsc.bcm.edu	37	chr1	109794802	109794802	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggcacagattgtggtgAatgtcaccgacgccaacacc	12	6	10	13	3	1	2	1	1	0	1	1	3	1	2	3	2	1	1	3	2	2	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	109794802	A	T	109794802	3	4	464	1	0	0	0	0	1	0	0	0	3222	246	9	5	2103	5	CELSR2	1	109794802	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10	15280291	109794802	139455819	3	24145											
FMO5	2330	hgsc.bcm.edu;ucsc.edu	37	chr1	146656103	146656103	+	Frame_Shift_Del	DEL	A	A	-																															aggcccctttattccgggacAatttctcagactttctttgt																								novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		-	146656103	A	-	146656103	7	5	464	1	0	1	0	1	0	0	0	0	5958	130	5	0	35	0	FMO5	1	146656103	Frame_Shift_Del	DEL	A	TCGA-CZ-5461-01A-01D-1501-10	36861301	146656103	102594518	4	24146											
NPR1	4881	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153659728	153659728	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccatgggaacctcaagtCatccaactgcgtggtagatg	10	10	10	11	1	2	1	2	0	0	1	4	2	4	2	3	2	3	1	3	2	4	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	153659728	C	T	153659728	3	4	464	1	0	0	0	0	1	0	0	0	10594	838	29	2	2038	2	NPR1	1	153659728	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	7003625	153659728	95590893	5	24147											
OTOF	9381	broad.mit.edu	37	chr2	26717855	26717855	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactccttcatggatgtgtaCttcttgtcgtcacccacctc	6	14	7	14	1	3	0	2	0	1	0	6	2	4	1	3	1	1	1	3	1	1	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	26717855	T	T	26717855	2	4	464	1	0	0	0	0	0	0	0	1	11303	564	20	2		2	OTOF	2	26717855	Silent	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		26717855	216481518	6	24148											
C2orf3	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	75893178	75893178	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctggtagacatgctgctAcctgttaatcaaaacacatg	12	13	7	9	0	2	1	1	0	1	1	2	1	2	1	1	1	4	4	1	1	5	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	75893178	A	G	75893178	3	3	464	1	0	0	0	0	1	0	0	0	2162	405	14	3	248	3	C2orf3	2	75893178	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10	49175323	75893178	167306195	7	24149											
TTN	7273	hgsc.bcm.edu	37	chr2	179506014	179506016	+	In_Frame_Del	DEL	TTC	TTC	-																															tttttaggttctactttaggTtcttcttcttcaggtctttt																								novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		-	179506016	TTC	-	179506014	7	5	464	1	0	1	0	1	0	0	0	0	16734	1722	60	0	67678	0	TTN	2	179506014	In_Frame_Del	DEL	TTC	TCGA-CZ-5461-01A-01D-1501-10	103612836	179506014	63693359	8	24150											
RUFY4	285180	hgsc.bcm.edu	37	chr2	218935328	218935328	+	RNA	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacatcatttccaagtaccCatggcagaagagggagccat	13	8	9	11	0	2	2	2	0	0	2	3	3	3	3	3	2	2	2	3	2	3	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	218935328	C	A	218935328	1	1	464	0	1	0	0	0	0	0	0	0	13743	609	21	4		4	RUFY4	2	218935328	RNA	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	39429314	218935328	24264045	9	24151											
RQCD1	9125	hgsc.bcm.edu;ucsc.edu	37	chr2	219447710	219447710	+	Frame_Shift_Del	DEL	A	A	-																															ttaggaaattgtaaatatttAtccatctatcaacccaccca																								novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		-	219447710	A	-	219447710	7	5	464	1	0	1	0	1	0	0	0	0	13672	449	16	0	231	0	RQCD1	2	219447710	Frame_Shift_Del	DEL	A	TCGA-CZ-5461-01A-01D-1501-10	512382	219447710	23751663	10	24152	346	2									
RQCD1	9125	hgsc.bcm.edu	37	chr2	219447712	219447712	+	Missense_Mutation	SNP	C	C	T																															aggaaattgtaaatatttatCcatctatcaacccacccacc																								novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	219447712	C	T	219447712	3	4	464	1	0	0	0	0	1	0	0	0	13672	855	30	2	233	2	RQCD1	2	219447712	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	2	219447712	23751661	11	24153	346	2									
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47144880	47144880	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagctgtgattcatgaaacGagagcaatttcctttttgag	12	13	9	7	1	1	4	1	3	0	1	2	5	2	4	1	0	3	2	1	0	2	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	47144880	G	A	47144880	3	1	464	1	0	0	0	0	1	0	0	0	14133	1058	37	1	2881	1	SETD2	3	47144880	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10		47144880	150877550	12	24154											
CELSR3	1951	broad.mit.edu;ucsc.edu	37	chr3	48682160	48682160	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcactcaccactatgaccaGgacaacagggccagcaaagc	14	3	10	14	0	1	1	1	1	0	0	1	2	1	2	3	3	3	2	3	3	3	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	48682160	T	T	48682160	3	4	464	1	0	0	0	0	1	0	0	0	3223	991	35	4	1904	4	CELSR3	3	48682160	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	1537280	48682160	149340270	13	24155											
PBRM1	55193	broad.mit.edu;ucsc.edu	37	chr3	52712615	52712615	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcatggcacacggcaatcTacacattagcaaaggagaaa	16	7	9	9	1	2	1	1	0	1	1	2	2	2	1	0	3	2	4	0	3	5	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	52712615	C	C	52712615	5	2	464	1	0	0	0	0	0	0	1	0	11491	1536	53	3	4879	3	PBRM1	3	52712615	Splice_Site	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	4030455	52712615	145309815	14	24156											
LXN	56925	broad.mit.edu	37	chr3	158390257	158390257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgggtagttggtcggcGggatttccattccggatgag	6	11	17	7	3	0	1	0	1	0	0	3	3	2	3	2	6	0	3	2	6	1	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	158390257	A	A	158390257	3	1	464	1	0	0	0	0	1	0	0	0	9089	1116	39	1	681	1	LXN	3	158390257	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	105677642	158390257	39632173	15	24157											
MRPS18C	51023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	84379580	84379580	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtagattataagaatgtaCaggtgagatctggttttact	13	15	10	3	0	1	3	0	1	1	3	1	4	1	3	0	2	2	3	0	2	6	6	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	84379580	C	A	84379580	3	1	464	1	0	0	0	0	1	0	0	0	9830	479	17	4	242	4	MRPS18C	4	84379580	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		84379580	106774696	16	24158											
EDIL3	10085	broad.mit.edu;ucsc.edu	37	chr5	83402565	83402565	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggataccatttttggagtcCaaaaagagctcggtgagtag	12	10	13	6	1	0	2	0	1	0	1	2	4	1	4	2	3	2	2	2	3	4	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	83402565	A	A	83402565	4	1	464	1	0	0	0	0	0	1	0	0	4915	603	21	4	913	4	EDIL3	5	83402565	Nonsense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		83402565	97512695	17	24159											
MEGF10	84466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	126774247	126774247	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctggctggacagggctcTactgcactcagagtaagtga	9	9	12	11	0	2	2	1	1	1	1	3	3	3	3	1	3	2	4	1	3	2	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	126774247	T	C	126774247	3	2	464	1	0	0	0	0	1	0	0	0	9460	1522	53	3	2283	3	MEGF10	5	126774247	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	43371682	126774247	54141013	18	24160											
BPHL	670	hgsc.bcm.edu;ucsc.edu	37	chr6	3152714	3152714	+	RNA	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaaagtatttttaattccTtttttaggctgcatttgatg	9	19	6	7	0	0	1	0	1	0	0	1	1	1	1	2	1	1	3	2	1	4	9	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	3152714	T	G	3152714	1	3	464	0	1	0	0	0	0	0	0	0	1489	1624	56	5		5	BPHL	6	3152714	RNA	SNP	T	TCGA-CZ-5461-01A-01D-1501-10		3152714	167962353	19	24161											
COL21A1	81578	broad.mit.edu;hgsc.bcm.edu	37	chr6	55933843	55933843	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatctcctaaccaatgcataCcttttttccttgaatcccgg	9	15	4	13	1	1	1	0	1	1	0	4	1	3	1	5	1	3	1	5	1	5	7	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	55933843	C	A	55933843	5	1	464	1	0	0	0	0	0	0	1	0	3680	521	18	4	817	4	COL21A1	6	55933843	Splice_Site	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	52781129	55933843	115181224	20	24162											
TTK	7272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	80744856	80744856	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagatcatccgactttatgAttagtaagaattctttttaa	14	17	5	5	1	2	3	1	1	1	2	3	4	3	3	1	0	0	1	1	0	6	9	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	80744856	A	C	80744856	3	2	464	1	0	0	0	0	1	0	0	0	16719	333	12	5	1823	5	TTK	6	80744856	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10	24811013	80744856	90370211	21	24163											
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	152565703	152565703	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagttcttgcatggacggcTgctcgacctgtagcttgtca	7	12	12	10	2	2	1	1	0	1	1	3	3	2	2	1	2	3	6	1	2	1	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	152565703	T	C	152565703	3	2	464	1	0	0	0	0	1	0	0	0	15444	1580	55	3	6969	3	SYNE1	6	152565703	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	71820847	152565703	18549364	22	24164											
TRIM50	135892	broad.mit.edu	37	chr7	72732707	72732707	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaggccatggagtggaacTtctggaaggcaagagagagg	12	6	18	5	0	1	2	0	0	1	2	1	7	1	6	1	7	1	1	1	7	3	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	72732707	A	A	72732707	3	1	464	1	0	0	0	0	1	0	0	0	16525	1623	56	5	747	5	TRIM50	7	72732707	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10		72732707	86405956	23	24165											
POMZP3	22932	broad.mit.edu	37	chr7	76247559	76247559	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgaactggagtgtatctgGcccgggtcgaggaactttga	8	11	15	7	2	1	2	0	2	1	0	2	5	1	4	1	4	2	1	1	4	3	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	76247559	T	T	76247559	3	4	464	1	0	0	0	0	1	0	0	0	12247	1203	42	4	296	4	POMZP3	7	76247559	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	3514852	76247559	82891104	24	24166											
SDR16C5	195814	broad.mit.edu;ucsc.edu	37	chr8	57228627	57228627	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaatcgcaggtataggCgtgcactcttgtggctccag	7	10	13	11	2	1	0	0	0	1	0	3	0	2	0	1	3	2	6	1	3	3	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	57228627	G	G	57228627	3	3	464	1	0	0	0	0	1	0	0	0	13973	768	27	4	673	4	SDR16C5	8	57228627	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		57228627	89135395	25	24167											
TP53INP1	94241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	95952145	95952145	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtggcctcactgagaccaGggcaggagttatgcacagca	10	6	15	10	0	1	1	1	1	0	1	1	3	1	2	2	4	2	4	2	4	1	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	95952145	G	T	95952145	3	4	464	1	0	0	0	0	1	0	0	0	16387	1000	35	4	340	4	TP53INP1	8	95952145	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	38723518	95952145	50411877	26	24168											
C8orf37	157657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	96272706	96272706	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaacttaccttttaccaaGgccttcaatggaagctctga	11	12	6	12	0	3	1	2	1	1	0	3	2	3	2	3	2	4	1	3	2	6	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	96272706	G	T	96272706	3	4	464	1	0	0	0	0	1	0	0	0	2423	1000	35	4	341	4	C8orf37	8	96272706	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	320561	96272706	50091316	27	24169											
FBXO43	286151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	101146397	101146398	+	Frame_Shift_Ins	INS	-	-	T																															taaatacttaccttaacataINSttcttcctgtttactactta																								novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	101146398	-	T	101146397	7	5	464	1	0	1	1	0	0	0	0	0	5752	449	16	0	264	0	FBXO43	8	101146397	Frame_Shift_Ins	INS	-	TCGA-CZ-5461-01A-01D-1501-10	4873691	101146397	45217625	28	24170											
TG	7038	broad.mit.edu;ucsc.edu	37	chr8	134107431	134107431	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccagaagcctgccaatgtCctcaatgatgcccagaccaa	12	6	8	15	1	1	3	1	1	0	2	2	3	2	3	6	0	3	0	6	0	4	0	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	134107431	A	A	134107431	2	1	464	1	0	0	0	0	0	0	0	1	15812	842	30	4		4	TG	8	134107431	Silent	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	32961034	134107431	12256591	29	24171											
PLEC	5339	broad.mit.edu;ucsc.edu	37	chr8	144991673	144991673	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtcagtgatacaacgctCcatcagctgcaggtaggtga	10	8	14	9	1	2	2	2	2	0	0	3	2	3	2	1	4	4	4	1	4	3	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	144991673	A	A	144991673	4	1	464	1	0	0	0	0	0	1	0	0	12052	864	30	4	1331	4	PLEC	8	144991673	Nonsense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	10884242	144991673	1372349	30	24172											
LPPR1	54886	hgsc.bcm.edu;ucsc.edu	37	chr9	104048510	104048510	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacttcgaaggatcataaGattcacaggtgagtacaaga	15	10	9	7	1	2	3	2	1	0	2	3	5	2	4	0	2	2	1	0	2	5	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	104048510	G	T	104048510	3	4	464	1	0	0	0	0	1	0	0	0	8924	942	33	4	387	4	LPPR1	9	104048510	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10		104048510	37164921	31	24173											
SUV39H2	79723	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	14941677	14941677	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgtgtctcattttgtgaAtcacagcgtaagaagacata	14	12	8	7	1	2	3	2	1	1	2	3	3	2	3	0	0	1	1	0	0	5	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	14941677	A	G	14941677	3	3	464	1	0	0	0	0	1	0	0	0	15412	101	4	3	815	3	SUV39H2	10	14941677	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10		14941677	120593070	32	24174											
ARHGAP21	57584	broad.mit.edu	37	chr10	25010766	25010766	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgctggctccgcgcttacCtcgcaggccttgagcttgtc	5	10	11	15	4	0	1	0	1	0	0	3	1	1	1	3	2	3	5	3	2	2	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	25010766	G	G	25010766	3	3	464	1	0	0	0	0	1	0	0	0	871	695	24	4	5913	4	ARHGAP21	10	25010766	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	10069089	25010766	110523981	33	24175											
RAB18	22931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	27822869	27822869	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttaggaaaatcgtgaaGtcgatagaaatgaaggcctg	15	11	11	4	2	0	3	0	2	0	1	2	5	0	4	1	2	0	0	1	2	8	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	27822869	G	C	27822869	3	2	464	1	0	0	0	0	1	0	0	0	12905	1029	36	4	413	4	RAB18	10	27822869	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	2812103	27822869	107711878	34	24176											
ANUBL1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	46121548	46121548	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatttctgcttgtgctccCggccagtgaggcaagaaaac	9	11	10	11	1	2	2	0	1	2	1	3	2	3	2	2	2	3	3	2	2	4	3	rs149725835		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	46121548	C	T	46121548	3	4	464	1	0	0	0	0	1	0	0	0	713	652	23	1	476	1	ANUBL1	10	46121548	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	18298679	46121548	89413199	35	24177											
FAM21A	387680	broad.mit.edu;hgsc.bcm.edu	37	chr10	51829431	51829431	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgcctgcataatgtcttcaAtgacttccttatgctctcta	8	16	5	12	1	3	1	1	1	2	0	6	1	4	1	2	0	2	2	2	0	4	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	51829431	A	G	51829431	3	3	464	1	0	0	0	0	1	0	0	0	5540	101	4	3	261	3	FAM21A	10	51829431	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10	5707883	51829431	83705316	36	24178											
SGPL1	8879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	72631655	72631655	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggaggcttcctcatcgTctttatggagaaagcaggat	9	12	12	8	1	3	1	1	0	2	1	5	4	4	3	1	4	1	2	1	4	2	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	72631655	T	C	72631655	3	2	464	1	0	0	0	0	1	0	0	0	14220	1667	58	3	1009	3	SGPL1	10	72631655	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	20802224	72631655	62903092	37	24179											
VWCE	220001	broad.mit.edu;hgsc.bcm.edu	37	chr11	61048292	61048292	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcactgggaacacccaggCtctgtccagcgactccttga	9	7	10	15	1	1	1	0	1	1	0	3	3	3	2	3	2	3	2	3	2	1	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	61048292	C	G	61048292	3	3	464	1	0	0	0	0	1	0	0	0	17244	796	28	4	1716	4	VWCE	11	61048292	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		61048292	73958224	38	24180											
DLG2	1740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	83544667	83544667	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatactcaccgataggatcTggtctcctctctggagctcc	8	11	8	14	1	4	0	1	0	3	0	7	3	5	2	3	3	2	1	3	3	2	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	83544667	T	A	83544667	3	1	464	1	0	0	0	0	1	0	0	0	4555	1580	55	5	1313	5	DLG2	11	83544667	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	22496375	83544667	51461849	39	24181											
PHLDB1	23187	broad.mit.edu;hgsc.bcm.edu	37	chr11	118484605	118484605	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgccagacccagaccatGgtgcaggtgagtgggatcag	10	6	16	9	0	1	3	1	1	0	2	1	5	1	5	3	4	2	1	3	4	0	0	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	118484605	G	T	118484605	3	4	464	1	0	0	0	0	1	0	0	0	11851	1348	47	4	56	4	PHLDB1	11	118484605	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	34939938	118484605	16521911	40	24182											
CDON	50937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	125891274	125891274	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatgaatcttaacatgtTccaggtttccatccaatgtt	10	15	6	10	0	1	2	0	2	1	0	4	2	4	2	4	1	1	3	4	1	3	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	125891274	T	A	125891274	3	1	464	1	0	0	0	0	1	0	0	0	3170	1783	62	5	3648	5	CDON	11	125891274	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	7406669	125891274	9115242	41	24183											
CACNA1C	775	broad.mit.edu	37	chr12	2794921	2794921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctctcctaccaggatgacGaaaatcggcaactgacgctc	11	7	10	13	3	1	2	0	2	1	0	4	4	1	3	2	3	2	3	2	3	4	1	rs71458011		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	2794921	A	A	2794921	3	1	464	1	0	0	0	0	1	0	0	0	2540	1059	37	1	6476	1	CACNA1C	12	2794921	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10		2794921	131056974	42	24184											
TAS2R8	50836	broad.mit.edu	37	chr12	10959049	10959049	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaagggttcaaagtatggTattttactcacatggaacat	13	13	9	6	0	3	0	3	0	0	0	3	1	3	1	0	3	2	3	0	3	6	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	10959049	C	C	10959049	3	2	464	1	0	0	0	0	1	0	0	0	15586	1628	57	3	401	3	TAS2R8	12	10959049	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	8164128	10959049	122892846	43	24185											
HDAC7	51564	broad.mit.edu;ucsc.edu	37	chr12	48185052	48185052	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacacttaccccaaccccaCcacagggcagcatcacaaac	14	3	5	19	0	1	0	1	0	0	0	1	0	1	0	5	1	4	3	5	1	3	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	48185052	G	G	48185052	3	3	464	1	0	0	0	0	1	0	0	0	7012	507	18	4	1046	4	HDAC7	12	48185052	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	37226003	48185052	85666843	44	24186											
IKZF4	64375	hgsc.bcm.edu;ucsc.edu	37	chr12	56428493	56428493	+	Frame_Shift_Del	DEL	A	A	-																															cctggcctttgtgggtgcagAgcatctgcgtcccctccgcc																								novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		-	56428493	A	-	56428493	7	5	464	1	0	1	0	1	0	0	0	0	7617	304	11	0	1166	0	IKZF4	12	56428493	Frame_Shift_Del	DEL	A	TCGA-CZ-5461-01A-01D-1501-10	8243441	56428493	77423402	45	24187											
PIWIL1	9271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	130847573	130847573	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagctgcaatgagtacatGcccagccggatcatcgtgta	12	9	10	10	2	1	1	1	1	0	0	2	2	1	2	2	1	5	4	2	1	5	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	130847573	G	A	130847573	3	1	464	1	0	0	0	0	1	0	0	0	11957	1319	46	2	2145	2	PIWIL1	12	130847573	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	74419080	130847573	3004322	46	24188											
CSNK1A1L	122011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	37679100	37679100	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaacagaaattaaagaggtcTtcgaggctgggtcccagaag	14	7	13	7	1	1	3	0	0	1	3	3	5	2	3	1	3	1	1	1	3	5	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	37679100	T	C	37679100	2	2	464	1	0	0	0	0	0	0	0	1	3951	1606	56	3		3	CSNK1A1L	13	37679100	Silent	SNP	T	TCGA-CZ-5461-01A-01D-1501-10		37679100	77490778	47	24189											
LIG4	3981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	108861063	108861063	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagctaaacaagaaactaCttttgctccatgaaaccgaa	16	9	5	11	1	1	2	1	1	0	1	2	3	2	2	2	0	6	2	2	0	7	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	108861063	C	T	108861063	3	4	464	1	0	0	0	0	1	0	0	0	8783	565	20	2	185	2	LIG4	13	108861063	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	71181963	108861063	6308815	48	24190											
RTL1	388015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	101350371	101350371	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtagagctttggccCattctaatgccaagccggac	9	9	10	13	1	1	1	0	0	1	1	1	2	1	2	4	2	4	3	4	2	3	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	101350371	C	T	101350371	4	4	464	1	0	0	0	0	0	1	0	0	13726	595	21	2	3325	2	RTL1	14	101350371	Nonsense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		101350371	5999169	49	24191											
DYNC1H1	1778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	102452696	102452696	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcagcagcgcaacctcGgtgtctcggggcgcattttc	6	9	14	12	4	1	0	0	0	1	0	4	0	1	0	1	4	4	4	1	4	1	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	102452696	G	A	102452696	3	1	464	1	0	0	0	0	1	0	0	0	4841	1116	39	1	2164	1	DYNC1H1	14	102452696	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	1102325	102452696	4896844	50	24192											
TMOD2	29767	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	52098676	52098676	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttaccaagcaagggccaCgaacaagggtggcagctgcc	12	5	13	11	1	0	0	0	0	0	0	0	1	0	0	3	3	5	4	3	3	5	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	52098676	C	T	52098676	4	4	464	1	0	0	0	0	0	1	0	0	16233	528	19	1	1009	1	TMOD2	15	52098676	Nonsense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		52098676	50432716	51	24193											
NTRK3	4916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	88423631	88423631	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctttcaggaggcatccagCgaatggggagcatggtgtgt	8	10	16	7	1	1	0	1	0	0	0	2	3	2	2	1	5	3	3	1	5	1	1	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	88423631	C	T	88423631	3	4	464	1	0	0	0	0	1	0	0	0	10708	768	27	1	323	1	NTRK3	15	88423631	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	36324955	88423631	14107761	52	24194											
PGPEP1L	145814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	99512702	99512702	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaccctccacagctacgCgcttgcagactgccttcatg	8	8	8	17	3	1	1	1	0	0	1	2	2	2	1	3	0	4	3	3	0	1	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	99512702	C	T	99512702	3	4	464	1	0	0	0	0	1	0	0	0	11804	768	27	1	275	1	PGPEP1L	15	99512702	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	11089071	99512702	3018690	53	24195											
ACSM5	54988	broad.mit.edu;hgsc.bcm.edu	37	chr16	20451155	20451155	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatagtccttactccagccTactcctctcatgacccagag	9	12	5	15	0	1	2	1	1	1	1	5	2	4	2	5	0	3	0	5	0	4	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	20451155	T	C	20451155	3	2	464	1	0	0	0	0	1	0	0	0	187	1522	53	3	1616	3	ACSM5	16	20451155	Missense_Mutation	SNP	T	TCGA-CZ-5461-01A-01D-1501-10		20451155	69903598	54	24196											
CDH16	1014	broad.mit.edu;ucsc.edu	37	chr16	66950224	66950224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggtccagggccctggtcaCcagcaggaagccagaatctg	9	6	13	13	1	2	1	1	0	1	1	4	2	3	2	4	4	2	1	4	4	2	0	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	66950224	T	T	66950224	3	4	464	1	0	0	0	0	1	0	0	0	3101	507	18	2	2311	2	CDH16	16	66950224	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	46499069	66950224	23404529	55	24197											
PMFBP1	83449	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	72158692	72158692	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtcctcaaggaggttctCttttaaggcggccatctcct	7	13	9	12	2	3	0	1	0	2	0	7	1	4	1	3	4	0	1	3	4	2	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	72158692	C	A	72158692	4	1	464	1	0	0	0	0	0	1	0	0	12134	922	32	4	540	4	PMFBP1	16	72158692	Nonsense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	5208468	72158692	18196061	56	24198											
WFDC1	58189	broad.mit.edu	37	chr16	84328656	84328656	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttgctacttctcctcCacgccggctctgccaagaat	6	11	7	17	2	3	1	0	0	3	1	5	1	4	1	5	1	3	2	5	1	3	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	84328656	A	A	84328656	3	1	464	1	0	0	0	0	1	0	0	0	17345	594	21	4	81	4	WFDC1	16	84328656	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	12169964	84328656	6026097	57	24199											
NCOR1	9611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15965052	15965052	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttctcaaattttcttctaaCctggcagcttcatgcttact	8	17	4	12	0	4	0	2	0	3	0	5	0	4	0	1	1	4	3	1	1	3	7	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	15965052	C	A	15965052	3	1	464	1	0	0	0	0	1	0	0	0	10235	506	18	4	1818	4	NCOR1	17	15965052	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10		15965052	65230158	58	24200											
GGNBP2	79893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	34935726	34935726	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagctcaagaagaagttctGacctgcttgggaattcatct	12	12	9	8	0	4	3	2	1	2	2	4	4	4	4	1	1	2	3	1	1	5	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	34935726	G	T	34935726	2	4	464	1	0	0	0	0	0	0	0	1	6359	1277	45	4		4	GGNBP2	17	34935726	Silent	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	18970674	34935726	46259484	59	24201											
ATP6V0A1	535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40639358	40639358	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcaccgaccttgactcCatccagtttgcactcagaag	9	10	7	15	1	2	2	2	1	0	1	4	3	4	2	5	0	1	2	5	0	1	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	40639358	C	T	40639358	2	4	464	1	0	0	0	0	0	0	0	1	1168	581	21	2		2	ATP6V0A1	17	40639358	Silent	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	5703632	40639358	40555852	60	24202											
NBR1	4077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	41343513	41343513	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaactccataggaaaattCacctgtggaattcaatccat	15	12	5	9	0	2	0	2	0	0	0	4	2	4	2	3	2	1	0	3	2	7	4	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	41343513	C	T	41343513	3	4	464	1	0	0	0	0	1	0	0	0	10200	826	29	2	1022	2	NBR1	17	41343513	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	704155	41343513	39851697	61	24203											
RGS9	8787	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	63154436	63154436	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgttctgcaatggatcGtccagcggctttggatctcc	6	13	12	10	2	2	1	0	1	2	0	5	3	3	3	2	3	2	3	2	3	1	2	rs115440141	byfrequency;by1000genomes;alternate_allele	TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	63154436	G	T	63154436	3	4	464	1	0	0	0	0	1	0	0	0	13315	1145	40	4	188	4	RGS9	17	63154436	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	21810923	63154436	18040774	62	24204											
STXBP2	6813	broad.mit.edu;ucsc.edu	37	chr19	7712373	7712373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaggtgaccagggccaccGagggcaagtgggaggtgctc	9	4	18	10	2	0	1	0	1	0	0	1	4	0	2	3	5	1	2	3	5	1	0	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	7712373	A	A	7712373	3	1	464	1	0	0	0	0	1	0	0	0	15354	1059	37	1	1742	1	STXBP2	19	7712373	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10		7712373	51416610	63	24205											
ZFP14	57677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36832152	36832152	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttctcaccagtatgaatTctcaggtgttgactaagtgt	9	15	10	7	0	2	2	2	2	2	0	4	2	2	2	1	2	0	3	1	2	3	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	36832152	T	C	36832152	2	2	464	1	0	0	0	0	0	0	0	1	17638	1780	62	3		3	ZFP14	19	36832152	Silent	SNP	T	TCGA-CZ-5461-01A-01D-1501-10	29119779	36832152	22296831	64	24206											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	39028524	39028524	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctcccttccacctaggagaGaaggtcatggcggatgatga	10	8	12	11	1	1	3	1	2	0	1	3	6	3	5	4	4	0	0	4	4	2	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	39028524	G	C	39028524	3	2	464	1	0	0	0	0	1	0	0	0	13770	933	33	4	11947	4	RYR1	19	39028524	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	2196372	39028524	20100459	65	24207											
KLK13	26085	hgsc.bcm.edu;ucsc.edu	37	chr19	51559915	51559915	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttcacggatccacaggaCgtatcttgagacacgggtgt	9	11	12	9	3	2	1	1	1	1	1	3	4	3	3	1	3	0	2	1	3	1	3	rs150383488		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	51559915	C	T	51559915	3	4	464	1	0	0	0	0	1	0	0	0	8401	536	19	1	74	1	KLK13	19	51559915	Missense_Mutation	SNP	C	TCGA-CZ-5461-01A-01D-1501-10	12531391	51559915	7569068	66	24208											
USP29	57663	broad.mit.edu;ucsc.edu	37	chr19	57642541	57642541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtgttgtcagccatatcgGgagctccccaaattcaggcc	9	9	10	13	1	2	0	2	0	0	0	4	1	3	1	4	2	2	2	4	2	2	3	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	57642541	A	A	57642541	3	1	464	1	0	0	0	0	1	0	0	0	17058	1232	43	2	2500	2	USP29	19	57642541	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	6082626	57642541	1486442	67	24209											
GCFC1	0	broad.mit.edu;ucsc.edu	37	chr21	34142136	34142136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtacttactttcagctgatGagttgagttctgtcttaatc	8	17	9	7	0	3	3	1	3	2	0	4	3	3	3	0	1	3	4	0	1	3	6	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		A	34142136	A	A	34142136	3	1	464	1	0	0	0	0	1	0	0	0	6289	1294	45	2	2478	2	GCFC1	21	34142136	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10		34142136	13987759	68	24210											
CCNB3	85417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50053811	50053811	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagcgacactcagctttgtGggagaagcccagcactgaga	12	7	12	10	1	1	2	1	1	0	2	1	5	1	2	1	1	4	2	1	1	2	2	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		T	50053811	G	T	50053811	3	4	464	1	0	0	0	0	1	0	0	0	2914	1357	47	4	2656	4	CCNB3	23	50053811	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10		50053811	105216749	69	24211											
PHF6	84295	broad.mit.edu;ucsc.edu	37	chrX	133551239	133551239	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggtgctactattggatGtgaaataaaagcctgtgtta	11	13	11	6	0	0	1	0	1	0	0	0	2	0	2	2	2	3	2	2	2	6	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		C	133551239	C	C	133551239	3	2	464	1	0	0	0	0	1	0	0	0	11838	1377	48	4	1010	4	PHF6	23	133551239	Missense_Mutation	SNP	G	TCGA-CZ-5461-01A-01D-1501-10	83497428	133551239	21719321	70	24212											
RPS4Y1	6192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrY	2709666	2709666	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgtcgcagagtttcgccAtggtaagaccgatagttcct	8	12	10	11	4	0	2	0	0	0	2	4	3	2	2	4	1	0	4	4	1	2	5	novel		TCGA-CZ-5461-01A-01D-1501-10	TCGA-CZ-5461-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79feee74-7b14-48d9-9be7-8d7671c79c83	278cfc27-dcdc-4b5e-a12b-56730002f95d		G	2709666	A	G	2709666	3	3	464	1	0	0	0	0	1	0	0	0	13648	217	8	3	3	3	RPS4Y1	24	2709666	Missense_Mutation	SNP	A	TCGA-CZ-5461-01A-01D-1501-10		2709666	56663900	71	24213											
WDR65	149465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43647495	43647495	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatggccattgttagaatcGacactcagaacaaccctgtc	13	10	7	11	1	1	2	1	0	0	2	3	3	1	2	2	1	2	1	2	1	5	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	43647495	G	T	43647495	3	4	465	1	0	0	0	0	1	0	0	0	17315	1058	37	4	454	4	WDR65	1	43647495	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10		43647495	205603126	1	24214											
BCL9	607	broad.mit.edu;ucsc.edu	37	chr1	147091598	147091598	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgccacattctctgccccCgaggggcatggctccccacc	6	7	9	19	1	1	0	0	0	1	0	3	1	2	0	6	3	2	2	6	3	0	1	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		G	147091598	G	G	147091598	3	3	465	1	0	0	0	0	1	0	0	0	1381	652	23	4	1655	4	BCL9	1	147091598	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	103444103	147091598	102159023	2	24215											
INSRR	3645	broad.mit.edu;ucsc.edu	37	chr1	156812296	156812296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagataccacacccaggagaCgcacctgggacagacaaagg	15	2	12	12	1	0	3	0	0	0	3	0	6	0	4	3	3	1	1	3	3	2	1	rs138327752	bycluster;byfrequency;by1000genomes	TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	156812296	T	T	156812296	3	4	465	1	0	0	0	0	1	0	0	0	7774	536	19	1	781	1	INSRR	1	156812296	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	9720698	156812296	92438325	3	24216											
SPTA1	6708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158618345	158618345	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcaaagccctcatgccgtCgctgaagagcctgaacactg	10	9	9	13	2	2	3	2	2	0	1	3	3	2	3	3	0	4	1	3	0	3	1	rs148714399	by1000genomes	TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	158618345	C	T	158618345	3	4	465	1	0	0	0	0	1	0	0	0	15117	884	31	1	3699	1	SPTA1	1	158618345	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	1806049	158618345	90632276	4	24217											
RGL1	23179	broad.mit.edu;ucsc.edu	37	chr1	183891372	183891372	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagttgacgagccaggataAaacccccgctgtgatccaga	12	6	11	12	2	0	3	0	2	0	1	1	5	1	4	4	1	2	3	4	1	2	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		G	183891372	G	G	183891372	3	3	465	1	0	0	0	0	1	0	0	0	13278	14	1	3	2192	3	RGL1	1	183891372	Missense_Mutation	SNP	A	TCGA-CZ-5462-01A-01D-1501-10	25273027	183891372	65359249	5	24218											
HMCN1	83872	broad.mit.edu;ucsc.edu	37	chr1	185953431	185953431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaccaataacaaaactacctCtgtggttgtgcatggtaaga	14	10	9	8	0	1	1	0	0	1	1	1	2	1	1	2	2	4	3	2	2	6	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	185953431	T	T	185953431	3	4	465	1	0	0	0	0	1	0	0	0	7220	913	32	2	2995	2	HMCN1	1	185953431	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	2062059	185953431	63297190	6	24219											
DISP1	84976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	223179160	223179160	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgggggaggctggttgtaGgtcttgcccaaataattcac	10	11	13	7	0	2	0	1	0	1	0	2	1	2	1	1	5	1	3	1	5	4	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	223179160	G	T	223179160	3	4	465	1	0	0	0	0	1	0	0	0	4539	1000	35	4	4447	4	DISP1	1	223179160	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	37225729	223179160	26071461	7	24220											
SLC9A4	389015	broad.mit.edu;ucsc.edu	37	chr2	103120043	103120043	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttggcatcgtttttggatTtatttctgcatttatcacac	7	20	7	7	1	2	0	1	0	1	0	3	1	2	1	0	2	1	4	0	2	2	8	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	103120043	A	A	103120043	3	1	465	1	0	0	0	0	1	0	0	0	14718	1841	64	5	867	5	SLC9A4	2	103120043	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10		103120043	140079330	8	24221											
NCKAP5	344148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	133540313	133540313	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccatgctgactgctgaaGctgcctgagctccccaggga	7	8	11	15	0	0	3	0	3	0	0	2	4	2	4	4	1	5	4	4	1	1	0	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	133540313	G	A	133540313	2	1	465	1	0	0	0	0	0	0	0	1	10223	962	34	2		2	NCKAP5	2	133540313	Silent	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	30420270	133540313	109659060	9	24222											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179406075	179406075	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagaccctcttgcattaaTggctgtgacacggtgttcat	8	12	9	12	1	2	2	1	1	1	1	2	2	2	2	2	2	1	3	2	2	1	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	179406075	T	A	179406075	3	1	465	1	0	0	0	0	1	0	0	0	16734	1464	51	5	10302	5	TTN	2	179406075	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10	45865762	179406075	63793298	10	24223											
TTN	7273	broad.mit.edu;ucsc.edu	37	chr2	179516238	179516238	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggcaccttcttttcaggAacaacctccttgggcacctc	9	10	8	14	0	2	1	1	0	1	1	4	2	3	2	4	3	2	2	4	3	2	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	179516238	T	T	179516238	2	4	465	1	0	0	0	0	0	0	0	1	16734	233	9	5		5	TTN	2	179516238	Silent	SNP	A	TCGA-CZ-5462-01A-01D-1501-10	110163	179516238	63683135	11	24224											
BARD1	580	broad.mit.edu;hgsc.bcm.edu	37	chr2	215632207	215632207	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacgttgaactacttacaCagcatttctggaggctccat	10	14	7	10	1	1	1	0	1	1	0	2	2	2	2	1	2	5	3	1	2	4	6	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	215632207	C	T	215632207	3	4	465	1	0	0	0	0	1	0	0	0	1312	492	17	2	790	2	BARD1	2	215632207	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	36115969	215632207	27567166	12	24225											
CXCR6	10663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	45988547	45988547	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggcaatttccactgtggttCttgccacccagatgacactg	9	11	9	12	0	1	2	0	1	1	1	2	2	2	2	3	2	1	2	3	2	1	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	45988547	C	T	45988547	3	4	465	1	0	0	0	0	1	0	0	0	4095	913	32	2	576	2	CXCR6	3	45988547	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		45988547	152033883	13	24226											
IL20RB	53833	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	136710849	136710849	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatggagccaggggctgcaTactgtgtgaaggcccagaca	10	6	14	11	0	0	2	0	1	0	1	0	3	0	3	3	4	3	2	3	4	2	1	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		C	136710849	T	C	136710849	3	2	465	1	0	0	0	0	1	0	0	0	7669	1406	49	3	619	3	IL20RB	3	136710849	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10	90722302	136710849	61311581	14	24227											
MUC4	4585	broad.mit.edu	37	chr3	195506839	195506839	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccggtaacaggaagagggGtggcgtgacctgtggatgct	8	7	19	7	2	0	2	0	1	0	1	0	4	0	4	2	7	2	2	2	7	2	1	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	195506839	T	T	195506839	3	4	465	1	0	0	0	0	1	0	0	0	9978	1261	44	4		4	MUC4	3	195506839	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	58795990	195506839	2515591	15	24228											
AFAP1	60312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	7783208	7783208	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggacagcttgtcagcagaCagcctagaggcctttctgtc	9	9	12	11	0	2	2	1	0	1	2	3	4	2	3	2	2	3	2	2	2	1	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	7783208	C	A	7783208	2	1	465	1	0	0	0	0	0	0	0	1	353	465	17	4		4	AFAP1	4	7783208	Silent	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		7783208	183371068	16	24229											
PCDH7	5099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	30724917	30724917	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgcagggcagcactacgGtgattgtgcaggtggctgat	7	10	16	8	1	0	2	0	2	0	0	0	2	0	2	0	4	5	6	0	4	1	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	30724917	G	T	30724917	3	4	465	1	0	0	0	0	1	0	0	0	11516	1261	44	4	1875	4	PCDH7	4	30724917	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	22941709	30724917	160429359	17	24230											
EPHA5	2044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	66197808	66197808	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgatctgtaggccccaGatcctagtgggctatgttct	7	13	10	11	0	2	2	0	1	2	1	3	2	3	2	3	2	1	3	3	2	4	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	66197808	G	T	66197808	3	4	465	1	0	0	0	0	1	0	0	0	5170	942	33	4	230	4	EPHA5	4	66197808	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	35472891	66197808	124956468	18	24231											
TMPRSS11D	9407	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	68725379	68725379	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattcagaaatcttgaagtcGaagttacacgtgctggcctt	11	12	10	8	2	2	2	1	1	1	1	3	4	2	2	1	1	2	2	1	1	4	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	68725379	G	A	68725379	3	1	465	1	0	0	0	0	1	0	0	0	16240	1059	37	1	1266	1	TMPRSS11D	4	68725379	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	2527571	68725379	122428897	19	24232											
DMP1	1758	broad.mit.edu	37	chr4	88583134	88583134	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaatgaagaccccagtgaCagcactcagtcagaggaggg	14	4	13	10	0	2	4	2	2	0	2	2	5	2	5	2	2	1	2	2	2	2	0	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	88583134	T	T	88583134	2	4	465	1	0	0	0	0	0	0	0	1	4583	477	17	2		2	DMP1	4	88583134	Silent	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	19857755	88583134	102571142	20	24233											
INTU	27152	broad.mit.edu;ucsc.edu	37	chr4	128632123	128632123	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgttgccttagaaacagtgCaaggaatctttattactcct	12	13	7	9	1	1	1	0	0	1	1	2	2	2	2	2	1	4	2	2	1	6	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	128632123	A	A	128632123	3	1	465	1	0	0	0	0	1	0	0	0	7786	711	25	4	2479	4	INTU	4	128632123	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	40048989	128632123	62522153	21	24234											
ANKRD34B	340120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79855596	79855596	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccgttttcccagatttGtcctgtatgttgggatcggc	6	14	12	9	2	0	2	0	0	0	2	3	3	2	3	3	2	1	3	3	2	1	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	79855596	G	T	79855596	3	4	465	1	0	0	0	0	1	0	0	0	663	1368	48	4	1305	4	ANKRD34B	5	79855596	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10		79855596	101059664	22	24235											
RASA1	5921	broad.mit.edu;hgsc.bcm.edu	37	chr5	86564707	86564707	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccccttacctgccccctttgGgggcgggcctcgggacagtg	3	8	14	16	2	0	0	0	0	0	0	1	1	0	1	6	4	2	0	6	4	1	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	86564707	G	A	86564707	3	1	465	1	0	0	0	0	1	0	0	0	13062	1232	43	2	441	2	RASA1	5	86564707	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	6709111	86564707	94350553	23	24236											
KIF4B	285643	broad.mit.edu;hgsc.bcm.edu	37	chr5	154394373	154394373	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgagtcctgctgactcCaatctagaggaaacattaag	12	11	10	8	0	1	3	0	2	1	1	3	4	3	4	2	1	2	1	2	1	4	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	154394373	C	T	154394373	2	4	465	1	0	0	0	0	0	0	0	1	8304	581	21	2		2	KIF4B	5	154394373	Silent	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	67829666	154394373	26520887	24	24237											
UBR2	23304	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	42637945	42637945	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtgttcccataatgtgtTggggtagctgcgcgtacacc	6	12	12	11	3	0	0	0	0	0	0	2	0	1	0	2	2	3	5	2	2	3	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	42637945	T	A	42637945	3	1	465	1	0	0	0	0	1	0	0	0	16901	1812	63	5	4281	5	UBR2	6	42637945	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10		42637945	128477122	25	24238											
ASCC3	10973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	101110412	101110412	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttatttctcgacctttgtaCctagataccaagaaagcgta	12	13	6	10	2	1	2	0	0	1	2	2	3	1	2	3	0	3	2	3	0	7	7	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	101110412	C	T	101110412	3	4	465	1	0	0	0	0	1	0	0	0	1033	521	18	2	4433	2	ASCC3	6	101110412	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	58472467	101110412	70004655	26	24239											
HACE1	57531	broad.mit.edu;ucsc.edu	37	chr6	105233140	105233140	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttgtttttcatcaattCtgtggctattaaaactagcc	9	19	5	8	0	4	0	2	0	2	0	4	0	4	0	1	1	2	2	1	1	5	8	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	105233140	A	A	105233140	4	1	465	1	0	0	0	0	0	1	0	0	6940	922	32	4	1652	4	HACE1	6	105233140	Nonsense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	4122728	105233140	65881927	27	24240											
LAMA2	3908	hgsc.bcm.edu;ucsc.edu	37	chr6	129419358	129419358	+	Frame_Shift_Del	DEL	C	C	-																															gattgtgaaggcagctaactCcccccggcctggaaactgga																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	129419358	C	-	129419358	7	5	465	1	0	1	0	1	0	0	0	0	8606	855	30	0	451	0	LAMA2	6	129419358	Frame_Shift_Del	DEL	C	TCGA-CZ-5462-01A-01D-1501-10	24186218	129419358	41695709	28	24241											
ETV1	2115	broad.mit.edu;ucsc.edu	37	chr7	13975450	13975450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagatgcatgatgcagtgggGacactggcgtgctggatggt	8	9	18	6	1	0	2	0	1	0	1	0	5	0	4	0	5	3	3	0	5	0	0	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	13975450	A	A	13975450	3	1	465	1	0	0	0	0	1	0	0	0	5277	1174	41	2	1024	2	ETV1	7	13975450	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10		13975450	145163213	29	24242											
AMPH	273	broad.mit.edu;ucsc.edu	37	chr7	38431539	38431539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtggtctccttgggctctGcacctatagttatttcgttt	4	17	10	10	2	2	0	0	0	2	0	4	0	2	0	2	3	1	4	2	3	3	6	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	38431539	A	A	38431539	3	1	465	1	0	0	0	0	1	0	0	0	588	1319	46	2	411	2	AMPH	7	38431539	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	24456089	38431539	120707124	30	24243											
ABCA13	154664	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	48314043	48314043	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggatgtaaacagtgtaGgcaattccatttatcactta	16	12	7	6	0	1	0	1	0	0	0	2	1	2	1	1	2	1	3	1	2	8	6	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	48314043	G	A	48314043	3	1	465	1	0	0	0	0	1	0	0	0	31	1000	35	2	4675	2	ABCA13	7	48314043	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	9882504	48314043	110824620	31	24244											
GTF2I	2969	broad.mit.edu	37	chr7	74167453	74167453	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatgaaagactctcgaaagTtgaaaaagctagacagctaa	19	8	8	6	1	1	4	0	2	1	2	2	5	1	4	0	0	2	3	0	0	7	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	74167453	A	A	74167453	3	1	465	1	0	0	0	0	1	0	0	0	6867	1725	60	5	2695	5	GTF2I	7	74167453	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10	25853410	74167453	84971210	32	24245											
ZAN	7455	hgsc.bcm.edu;ucsc.edu	37	chr7	100386875	100386875	+	Frame_Shift_Del	DEL	A	A	-																															atggccgtcccctacaggccAaatgaacacctgcgggtcac																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	100386875	A	-	100386875	7	5	465	1	0	1	0	1	0	0	0	0	17512	117	5	0	7412	0	ZAN	7	100386875	Frame_Shift_Del	DEL	A	TCGA-CZ-5462-01A-01D-1501-10	26219422	100386875	58751788	33	24246											
PIK3CG	5294	broad.mit.edu;ucsc.edu	37	chr7	106509653	106509653	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttcgagcagaaatgcccaaCcagcttcgcaagcaattgga	13	7	10	11	2	0	1	0	0	0	1	2	3	0	2	2	1	5	5	2	1	4	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	106509653	A	A	106509653	3	1	465	1	0	0	0	0	1	0	0	0	11916	506	18	4	1649	4	PIK3CG	7	106509653	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	6122778	106509653	52629010	34	24247											
PLXNA4	91584	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	131982903	131982903	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccttggagaaggccatatCccggaggactgggccggggt	7	7	17	10	2	0	1	0	0	0	1	2	4	2	3	4	7	0	0	4	7	2	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	131982903	C	A	131982903	3	1	465	1	0	0	0	0	1	0	0	0	12122	855	30	4	4350	4	PLXNA4	7	131982903	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	25473250	131982903	27155760	35	24248											
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	61732614	61732614	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtggaggttgaccggataAtggactttgcacgtagcaca	11	10	13	7	2	0	1	0	1	0	0	0	4	0	4	1	4	2	4	1	4	2	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	61732614	A	T	61732614	3	4	465	1	0	0	0	0	1	0	0	0	3330	101	4	5	2692	5	CHD7	8	61732614	Missense_Mutation	SNP	A	TCGA-CZ-5462-01A-01D-1501-10		61732614	84631408	36	24249											
NOV	4856	broad.mit.edu;ucsc.edu	37	chr8	120435157	120435157	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgcaccagcctgcacaccTacaagcccaggttctgtggg	9	7	10	15	0	1	0	0	0	1	0	1	0	1	0	4	2	5	3	4	2	2	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	120435157	A	A	120435157	3	1	465	1	0	0	0	0	1	0	0	0	10553	1522	53	5	877	5	NOV	8	120435157	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10	58702543	120435157	25928865	37	24250											
TMEM71	137835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	133764200	133764200	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaggggatctatggagcCgcattcaaaagaatggtaac	13	9	12	7	1	3	1	2	0	1	1	3	3	3	3	1	4	2	2	1	4	5	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	133764200	C	T	133764200	3	4	465	1	0	0	0	0	1	0	0	0	16199	652	23	1	770	1	TMEM71	8	133764200	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	13329043	133764200	12599822	38	24251											
ZFAT	57623	broad.mit.edu	37	chr8	135521987	135521987	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacggccgtggggtccagtcGgtcgccttaagaggaagaag	9	6	16	10	4	0	2	0	0	0	2	3	3	1	3	3	5	0	0	3	5	3	1	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	135521987	A	A	135521987	4	1	465	1	0	0	0	0	0	1	0	0	17631	1124	39	1	372	1	ZFAT	8	135521987	Nonsense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	1757787	135521987	10842035	39	24252											
DMRT3	58524	hgsc.bcm.edu;ucsc.edu	37	chr9	990589	990589	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctgtgggatcagcctttCgagtcccagacacgttgagg	7	10	14	10	2	2	2	1	1	1	1	4	4	3	3	2	3	1	1	2	3	0	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	990589	C	T	990589	4	4	465	1	0	0	0	0	0	1	0	0	4587	876	31	1	1009	1	DMRT3	9	990589	Nonsense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		990589	140222842	40	24253											
SYK	6850	broad.mit.edu;ucsc.edu	37	chr9	93636536	93636536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtactgtgtcattcaatccGtatgagccagaacttgcacc	11	11	8	11	1	2	2	2	1	0	1	3	2	3	2	3	0	4	3	3	0	4	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	93636536	A	A	93636536	2	1	465	1	0	0	0	0	0	0	0	1	15437	1132	40	1		1	SYK	9	93636536	Silent	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	92645947	93636536	47576895	41	24254											
AKNA	80709	broad.mit.edu;ucsc.edu	37	chr9	117139678	117139678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttgaggagctctctccagCctcctcaacctccagacttc	7	10	6	18	0	2	2	1	1	1	1	7	3	5	3	6	1	3	1	6	1	1	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	117139678	T	T	117139678	3	4	465	1	0	0	0	0	1	0	0	0	463	739	26	2	3990	2	AKNA	9	117139678	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	23503142	117139678	24073753	42	24255											
ECHDC3	79746	broad.mit.edu;ucsc.edu	37	chr10	11797428	11797428	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgatgcacatccggaacCaccccgttcccgtcattgcc	8	9	7	17	3	2	1	2	1	0	0	4	2	4	2	6	1	3	2	6	1	1	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		G	11797428	G	G	11797428	3	3	465	1	0	0	0	0	1	0	0	0	4895	594	21	4	426	4	ECHDC3	10	11797428	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		11797428	123737319	43	24256											
SFTPD	6441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	81702178	81702178	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccttttgggcctggcttGccctgaggtcctatgttccc	2	15	10	14	0	1	1	0	1	1	0	4	1	3	1	5	3	1	2	5	3	1	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	81702178	G	A	81702178	2	1	465	1	0	0	0	0	0	0	0	1	14195	1306	46	2		2	SFTPD	10	81702178	Silent	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	69904750	81702178	53832569	44	24257											
CPXM2	119587	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	125526488	125526488	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgacgggtattttgactcaCcgtggcattttccgacagaa	10	12	10	9	3	1	3	1	2	0	1	2	4	2	3	2	2	0	2	2	2	2	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	125526488	C	T	125526488	5	4	465	1	0	0	0	0	0	0	1	0	3838	521	18	2	810	2	CPXM2	10	125526488	Splice_Site	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	43824310	125526488	10008259	45	24258											
C11orf41	0	hgsc.bcm.edu;ucsc.edu	37	chr11	33565134	33565134	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagagcatcgccctcctcCatggatgtatatgattcctt	8	13	9	11	1	0	2	0	2	0	1	4	4	3	3	4	1	1	2	4	1	2	4	rs78046896	bycluster;by1000genomes	TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	33565134	C	T	33565134	2	4	465	1	0	0	0	0	0	0	0	1	1640	581	21	2		2	C11orf41	11	33565134	Silent	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		33565134	101441382	46	24259											
PRPF19	27339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60671329	60671329	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtgctccggcacttcgttAgagactgtagagaaaaggct	10	9	14	8	2	0	2	0	0	0	2	2	4	1	2	1	3	1	5	1	3	4	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	60671329	A	T	60671329	2	4	465	1	0	0	0	0	0	0	0	1	12566	407	15	5		5	PRPF19	11	60671329	Silent	SNP	A	TCGA-CZ-5462-01A-01D-1501-10	27106195	60671329	74335187	47	24260											
DDB1	1642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61081631	61081631	+	Silent	SNP	T	T	A																															ggggacagtccattgctgtcTcctaatggggtgatgtccaa																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	61081631	T	A	61081631	2	1	465	1	0	0	0	0	0	0	0	1	4323	1538	54	5		5	DDB1	11	61081631	Silent	SNP	T	TCGA-CZ-5462-01A-01D-1501-10	410302	61081631	73924885	48	24261	347	2									
DDB1	1642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	61081632	61081632	+	Missense_Mutation	SNP	C	C	T																															gggacagtccattgctgtctCctaatggggtgatgtccaag																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	61081632	C	T	61081632	3	4	465	1	0	0	0	0	1	0	0	0	4323	855	30	2	1838	2	DDB1	11	61081632	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	1	61081632	73924884	49	24262	347	2									
ANO1	55107	hgsc.bcm.edu;ucsc.edu	37	chr11	70017025	70017025	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgtcaccctgtttgtcGcctccttccccctggcccca	2	12	7	20	2	1	0	1	0	0	0	5	0	3	0	7	1	0	2	7	1	0	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	70017025	G	A	70017025	3	1	465	1	0	0	0	0	1	0	0	0	695	1087	38	1	2316	1	ANO1	11	70017025	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	8935393	70017025	64989491	50	24263											
BIRC2	329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102221673	102221673	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatgccaagtggtttccaAggtaattgttttgaaaaagg	14	12	10	5	0	0	1	0	1	0	0	1	1	1	1	2	3	2	3	2	3	6	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		G	102221673	A	G	102221673	3	3	465	1	0	0	0	0	1	0	0	0	1435	86	3	3	1000	3	BIRC2	11	102221673	Missense_Mutation	SNP	A	TCGA-CZ-5462-01A-01D-1501-10	32204648	102221673	32784843	51	24264											
RAPGEF3	10411	broad.mit.edu;ucsc.edu	37	chr12	48137448	48137448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtggtctggccggcagaTgtcataggggactgaagagg	9	8	18	6	1	2	4	1	2	1	2	2	5	2	5	1	6	0	1	1	6	2	1	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		C	48137448	C	C	48137448	3	2	465	1	0	0	0	0	1	0	0	0	13047	1464	51	3	1125	3	RAPGEF3	12	48137448	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10		48137448	85714447	52	24265											
MYCBP2	23077	hgsc.bcm.edu	37	chr13	77714290	77714290	+	Frame_Shift_Del	DEL	T	T	-																															gcactgtccttggccacaaaTtttcgaacctgagaaaggca																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	77714290	T	-	77714290	7	5	465	1	0	1	0	1	0	0	0	0	10018	1490	52	0	6758	0	MYCBP2	13	77714290	Frame_Shift_Del	DEL	T	TCGA-CZ-5462-01A-01D-1501-10		77714290	37455588	53	24266											
FAM70B	0	broad.mit.edu;hgsc.bcm.edu	37	chr13	114514719	114514719	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttattgcagccctgcagccGcttcccagttgcgccctcct	4	12	8	17	2	0	0	0	0	0	0	2	0	2	0	5	0	5	4	5	0	1	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	114514719	G	A	114514719	3	1	465	1	0	0	0	0	1	0	0	0	5606	1087	38	1	858	1	FAM70B	13	114514719	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	36800429	114514719	655159	54	24267											
SEC23A	10484	hgsc.bcm.edu;ucsc.edu	37	chr14	39502467	39502467	+	Frame_Shift_Del	DEL	T	T	-																															gcagcactggacacagcaagTttcttcaagtgatccataaa																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	39502467	T	-	39502467	7	5	465	1	0	1	0	1	0	0	0	0	13993	1722	60	0	27	0	SEC23A	14	39502467	Frame_Shift_Del	DEL	T	TCGA-CZ-5462-01A-01D-1501-10		39502467	67847073	55	24268											
PCNX	22990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71514655	71514655	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgactatgaagctttttcagAgaccatgctgttggatctct	9	15	9	8	0	2	3	1	2	1	1	3	5	2	4	1	1	2	3	1	1	2	4	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		C	71514655	A	C	71514655	3	2	465	1	0	0	0	0	1	0	0	0	11591	304	11	5	4378	5	PCNX	14	71514655	Missense_Mutation	SNP	A	TCGA-CZ-5462-01A-01D-1501-10	32012188	71514655	35834885	56	24269											
ADAM10	102	broad.mit.edu;ucsc.edu	37	chr15	58925453	58925453	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatgtgagagactttgggaGgtacatgagacccatagttc	12	11	12	6	0	0	3	0	2	0	2	1	6	0	4	1	2	1	2	1	2	3	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	58925453	T	T	58925453	3	4	465	1	0	0	0	0	1	0	0	0	234	1000	35	4	1160	4	ADAM10	15	58925453	Missense_Mutation	SNP	G	TCGA-CZ-5462-01A-01D-1501-10		58925453	43605939	57	24270											
ACSBG1	23205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	78526760	78526760	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcacaatcatgtcctgccgGctctcctgtggggtctctct	4	13	9	15	1	5	0	2	0	3	0	8	0	6	0	3	3	1	1	3	3	1	0	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	78526760	G	A	78526760	2	1	465	1	0	0	0	0	0	0	0	1	173	1194	42	2		2	ACSBG1	15	78526760	Silent	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	19601307	78526760	24004632	58	24271											
ANKRD11	29123	hgsc.bcm.edu;ucsc.edu	37	chr16	89349043	89349043	+	Frame_Shift_Del	DEL	C	C	-																															cgtgaagctgtcagaggagaCctcgctgattttatcgttgg																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	89349043	C	-	89349043	7	5	465	1	0	1	0	1	0	0	0	0	639	507	18	0	4104	0	ANKRD11	16	89349043	Frame_Shift_Del	DEL	C	TCGA-CZ-5462-01A-01D-1501-10		89349043	1005710	59	24272											
CTNS	1497	broad.mit.edu;ucsc.edu	37	chr17	3563239	3563239	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggggcagcttcagcctcCtgcagatgttcctccagtcc	5	9	11	16	1	1	1	1	0	0	1	5	1	5	1	6	2	3	4	6	2	0	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	3563239	A	A	3563239	3	1	465	1	0	0	0	0	1	0	0	0	4021	680	24	4	974	4	CTNS	17	3563239	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		3563239	77631971	60	24273											
CA10	56934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	50149723	50149723	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctccttgtatgcccaccagCcttcatggatttttggtgaa	7	14	8	12	0	1	1	1	1	0	0	2	2	2	2	5	2	2	1	5	2	2	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	50149723	C	T	50149723	3	4	465	1	0	0	0	0	1	0	0	0	2511	739	26	2	926	2	CA10	17	50149723	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10	46586484	50149723	31045487	61	24274											
ZNF24	7572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	32919802	32919802	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtcctcaccacagtgccTtagggaatggagctcccagg	8	8	12	13	0	1	0	1	0	0	0	3	2	3	2	4	4	2	1	4	4	2	1	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	32919802	T	A	32919802	3	1	465	1	0	0	0	0	1	0	0	0	17791	1608	56	5	555	5	ZNF24	18	32919802	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10		32919802	45157446	62	24275											
COL5A3	50509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10116391	10116391	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacggccacacggtgccacCtgcaaggggacggcctcagt	8	5	14	14	3	1	1	1	1	0	0	1	2	1	2	4	5	2	1	4	5	1	0	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	10116391	C	T	10116391	5	4	465	1	0	0	0	0	0	0	1	0	3698	695	24	2	5056	2	COL5A3	19	10116391	Splice_Site	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		10116391	49012592	63	24276											
LTBP4	8425	hgsc.bcm.edu;ucsc.edu	37	chr19	41129556	41129556	+	Frame_Shift_Del	DEL	G	G	-																															accaggtgtgcaagagtggcGtgtgtgtgaacacggccccg																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	41129556	G	-	41129556	7	5	465	1	0	1	0	1	0	0	0	0	9076	1145	40	0	4207	0	LTBP4	19	41129556	Frame_Shift_Del	DEL	G	TCGA-CZ-5462-01A-01D-1501-10	31013165	41129556	17999427	64	24277											
C20orf114	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	31873889	31873889	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgggaagatggccggcCcgtggaccttcacccttctc	6	8	11	16	2	2	1	1	0	1	1	3	3	2	3	5	4	0	0	5	4	1	2	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	31873889	C	A	31873889	3	1	465	1	0	0	0	0	1	0	0	0	2082	623	22	4	12	4	C20orf114	20	31873889	Missense_Mutation	SNP	C	TCGA-CZ-5462-01A-01D-1501-10		31873889	31151631	65	24278											
PTPRT	11122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	40713330	40713330	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctagtactcacaggcagtgGaccacagtacgtccctccct	9	8	8	16	1	1	0	1	0	0	0	3	1	3	1	4	2	2	3	4	2	3	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		T	40713330	G	T	40713330	2	4	465	1	0	0	0	0	0	0	0	1	12814	1161	41	4		4	PTPRT	20	40713330	Silent	SNP	G	TCGA-CZ-5462-01A-01D-1501-10	8839441	40713330	22312190	66	24279											
TRAPPC10	7109	broad.mit.edu;ucsc.edu	37	chr21	45513966	45513966	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctacagcaagcagtcggTgttcttcgtctgggaactca	9	11	10	11	2	4	0	1	0	3	0	6	1	4	1	0	2	4	3	0	2	3	3	rs142768361		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		C	45513966	C	C	45513966	3	2	465	1	0	0	0	0	1	0	0	0	16456	1696	59	3	3098	3	TRAPPC10	21	45513966	Missense_Mutation	SNP	T	TCGA-CZ-5462-01A-01D-1501-10		45513966	2615929	67	24280											
PITPNB	23760	hgsc.bcm.edu;ucsc.edu	37	chr22	28256199	28256199	+	Frame_Shift_Del	DEL	G	G	-																															cagcttataggcacacatctGgggacagtcagggctgtttg																								novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		-	28256199	G	-	28256199	7	5	465	1	0	1	0	1	0	0	0	0	11948	1357	47	0	262	0	PITPNB	22	28256199	Frame_Shift_Del	DEL	G	TCGA-CZ-5462-01A-01D-1501-10		28256199	23048367	68	24281											
ACOT9	23597	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	23754070	23754070	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagattccctgtttcttgggGttctggggtccttgagtcag	5	15	13	8	0	3	2	1	1	2	1	5	2	5	2	2	4	0	2	2	4	1	5	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		A	23754070	G	A	23754070	2	1	465	1	0	0	0	0	0	0	0	1	157	1252	44	2		2	ACOT9	23	23754070	Silent	SNP	G	TCGA-CZ-5462-01A-01D-1501-10		23754070	131516490	69	24282											
KLF8	11279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	56292017	56292017	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttacatgtcattcacacTatcccctcagtcagtctgcc	9	13	4	15	0	6	0	4	0	2	0	7	0	7	0	3	0	2	0	3	0	2	3	novel		TCGA-CZ-5462-01A-01D-1501-10	TCGA-CZ-5462-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	74eed0c6-b3cc-4666-8ef0-194e1bbe1048	58ebedb1-02e5-437b-b5ec-c463a50b1f10		C	56292017	T	C	56292017	2	2	465	1	0	0	0	0	0	0	0	1	8352	1509	53	3		3	KLF8	23	56292017	Silent	SNP	T	TCGA-CZ-5462-01A-01D-1501-10	32537947	56292017	98978543	70	24283											
CLCN6	1185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11896171	11896171	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtaacgagaaggagttcatGaagggcaaccagctcatcag	14	6	13	8	1	3	2	3	1	0	1	3	4	3	3	1	3	3	4	1	3	4	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	11896171	G	A	11896171	3	1	466	1	0	0	0	0	1	0	0	0	3467	1290	45	2	2021	2	CLCN6	1	11896171	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10		11896171	237354450	1	24284											
C1orf168	199920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	57189298	57189298	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtttttcttctcttttcAttctgttcttttctaagttt	5	26	3	7	0	6	0	1	0	5	0	7	0	6	0	0	0	0	3	0	0	2	12	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	57189298	A	C	57189298	3	2	466	1	0	0	0	0	1	0	0	0	2012	217	8	5	265	5	C1orf168	1	57189298	Missense_Mutation	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	45293127	57189298	192061323	2	24285											
SGIP1	84251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	67161174	67161174	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagttttatttgacttttgAaggtaagtagtgcatagcat	13	16	9	3	0	0	2	0	2	0	0	0	2	0	2	0	1	2	5	0	1	6	8	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		G	67161174	A	G	67161174	3	3	466	1	0	0	0	0	1	0	0	0	14208	246	9	3	1698	3	SGIP1	1	67161174	Missense_Mutation	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	9971876	67161174	182089447	3	24286											
ELTD1	64123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	79387344	79387344	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcaaaatgtgtcaggtgaTtacagcggcatgaggtgtgg	10	11	15	5	1	1	2	1	2	0	0	1	2	1	2	0	4	3	2	0	4	3	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	79387344	T	C	79387344	3	2	466	1	0	0	0	0	1	0	0	0	5084	1493	52	3	889	3	ELTD1	1	79387344	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10	12226170	79387344	169863277	4	24287											
VANGL1	81839	broad.mit.edu;hgsc.bcm.edu	37	chr1	116226627	116226627	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcagctgctcggcgcaggGactcaagccacaacgagttg	9	6	13	13	3	1	0	1	0	0	0	2	2	1	1	1	2	5	5	1	2	2	1	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	116226627	G	T	116226627	3	4	466	1	0	0	0	0	1	0	0	0	17118	1174	41	4	1027	4	VANGL1	1	116226627	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	36839283	116226627	133023994	5	24288											
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186286645	186286645	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctagaaggaggatcctggctGgtggaggggagatctgactc	9	8	17	7	0	1	3	0	1	1	2	3	7	2	6	1	7	0	1	1	7	2	1	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	186286645	G	T	186286645	2	4	466	1	0	0	0	0	0	0	0	1	16415	1335	47	4		4	TPR	1	186286645	Silent	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	70060018	186286645	62963976	6	24289											
CR1	1378	broad.mit.edu;hgsc.bcm.edu	37	chr1	207790124	207790124	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggagcagccctgcccctcGctgtgaactttctgttcctg	4	13	10	14	1	1	1	0	1	1	0	3	2	2	2	4	1	4	3	4	1	1	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	207790124	G	T	207790124	3	4	466	1	0	0	0	0	1	0	0	0	3840	1087	38	4	7028	4	CR1	1	207790124	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	21503479	207790124	41460497	7	24290											
SLC3A1	6519	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44547384	44547385	+	Frame_Shift_Ins	INS	-	-	A																															ttgaagttatatcaagatttINSaagtctacttcatgccaatg																								novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	44547385	-	A	44547384	7	5	466	1	0	1	1	0	0	0	0	0	14628	1764	61	0	1702	0	SLC3A1	2	44547384	Frame_Shift_Ins	INS	-	TCGA-CZ-5463-01A-01D-1501-10		44547384	198651989	8	24291											
CCDC74A	90557	hgsc.bcm.edu	37	chr2	132288327	132288327	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcttgcgggcggtagcgcCgacactgtgcgctctcctgc	3	9	14	15	6	2	0	0	0	2	0	3	1	2	0	2	2	4	2	2	2	1	2	rs138376646	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	132288327	C	T	132288327	2	4	466	1	0	0	0	0	0	0	0	1	2847	639	23	1		1	CCDC74A	2	132288327	Silent	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	87740943	132288327	110911046	9	24292											
DNAJC10	54431	broad.mit.edu	37	chr2	183605974	183605974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttatcacttttaaggatcGtttggctcatcatcggtggc	7	16	9	9	2	3	0	3	0	0	0	5	1	3	1	0	4	0	2	0	4	2	5	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	183605974	A	A	183605974	3	1	466	1	0	0	0	0	1	0	0	0	4629	1145	40	1	1124	1	DNAJC10	2	183605974	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	51317647	183605974	59593399	10	24293											
ATG3	64422	broad.mit.edu;ucsc.edu	37	chr3	112256693	112256693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcaccgccagcatcagtTttggctttacaagcttctac	8	14	6	13	1	4	0	2	0	2	0	4	0	4	0	2	1	4	4	2	1	3	7	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		G	112256693	G	G	112256693	3	3	466	1	0	0	0	0	1	0	0	0	1095	1838	64	5	405	5	ATG3	3	112256693	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10		112256693	85765737	11	24294											
RABL3	285282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	120461341	120461341	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccagtaccttcacccgaTccagggacgccatcttgcca	10	7	7	17	2	2	0	1	0	1	0	3	2	3	1	6	1	2	1	6	1	1	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	120461341	T	C	120461341	3	2	466	1	0	0	0	0	1	0	0	0	12974	1435	50	3	728	3	RABL3	3	120461341	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10	8204648	120461341	77561089	12	24295											
RFC4	5984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	186508151	186508151	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtttgtcaaaagagccactCtgacaggcagcaaatactcc	14	8	8	11	0	2	2	1	1	1	1	3	2	3	2	2	1	3	3	2	1	4	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	186508151	C	T	186508151	2	4	466	1	0	0	0	0	0	0	0	1	13249	912	32	2		2	RFC4	3	186508151	Silent	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	66046810	186508151	11514279	13	24296											
GAR1	54433	broad.mit.edu;ucsc.edu	37	chr4	110737330	110737330	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggagagagaatgtcttttCgaggcggaggtcgtggaggc	9	8	19	5	3	1	2	0	0	1	2	3	8	1	4	0	6	0	0	0	6	1	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	110737330	T	T	110737330	4	4	466	1	0	0	0	0	0	1	0	0	6240	876	31	1	12	1	GAR1	4	110737330	Nonsense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10		110737330	80416946	14	24297											
MAML3	55534	broad.mit.edu;ucsc.edu	37	chr4	140640694	140640694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccactgggtatctgctgcTgtgctgggggctggctgaac	4	11	16	10	0	1	1	0	1	1	0	1	1	1	1	1	4	5	6	1	4	2	1	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	140640694	C	C	140640694	3	2	466	1	0	0	0	0	1	0	0	0	9207	1580	55	3	220	3	MAML3	4	140640694	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10	29903364	140640694	50513582	15	24298											
GUCY1A3	2982	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	156634339	156634339	+	Frame_Shift_Del	DEL	T	T	-																															tgtgtggacagattagaagaTtttacaggacgagggctcta																								novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		-	156634339	T	-	156634339	7	5	466	1	0	1	0	1	0	0	0	0	6894	1490	52	0	1209	0	GUCY1A3	4	156634339	Frame_Shift_Del	DEL	T	TCGA-CZ-5463-01A-01D-1501-10	15993645	156634339	34519937	16	24299											
C5orf54	63920	hgsc.bcm.edu;ucsc.edu	37	chr5	159821900	159821903	+	Frame_Shift_Del	DEL	TCTC	TCTC	-																															gaagagaaattcttctacgaTctctctttcttttatatagc																								novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	TCTC	TCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		-	159821903	TCTC	-	159821900	7	5	466	1	0	1	0	1	0	0	0	0	2310	1435	50	0	1190	0	C5orf54	5	159821900	Frame_Shift_Del	DEL	TCTC	TCGA-CZ-5463-01A-01D-1501-10		159821900	21093360	17	24300											
RPL26L1	51121	broad.mit.edu;hgsc.bcm.edu	37	chr5	172386880	172386880	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgtagagggtcaccatgAagttcaatcccttcgttacc	9	13	8	11	1	2	2	2	1	0	1	4	2	3	2	3	1	1	3	3	1	4	5	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	172386880	A	C	172386880	3	2	466	1	0	0	0	0	1	0	0	0	13576	247	9	5	6	5	RPL26L1	5	172386880	Missense_Mutation	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	12564980	172386880	8528380	18	24301											
SLC34A1	6569	hgsc.bcm.edu;ucsc.edu	37	chr5	176815364	176815365	+	Frame_Shift_Ins	INS	-	-	T																															agatctggtgccacccagacINStccttacaggtgagtcccag																								novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	176815365	-	T	176815364	7	5	466	1	0	1	1	0	0	0	0	0	14569	564	20	0	953	0	SLC34A1	5	176815364	Frame_Shift_Ins	INS	-	TCGA-CZ-5463-01A-01D-1501-10	4428484	176815364	4099896	19	24302											
OR2J2	26707	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	29141585	29141585	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggactcccatctccacaCaccaatgtacttcttccttt	8	13	4	16	1	2	0	0	0	2	0	5	1	4	1	4	1	1	1	4	1	2	4	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	29141585	C	A	29141585	3	1	466	1	0	0	0	0	1	0	0	0	11003	478	17	4	175	4	OR2J2	6	29141585	Missense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10		29141585	141973482	20	24303											
KCNK5	8645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	39162007	39162007	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagtagtagaggccctcgAtgtagttccacccctcagtc	9	9	11	12	1	1	1	1	0	0	1	4	3	2	2	4	2	0	4	4	2	3	4	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		G	39162007	A	G	39162007	3	3	466	1	0	0	0	0	1	0	0	0	8069	333	12	3	935	3	KCNK5	6	39162007	Missense_Mutation	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	10020422	39162007	131953060	21	24304											
KLHL32	114792	broad.mit.edu;ucsc.edu	37	chr6	97423877	97423877	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctctcctttgtagtattCaagaaatgctgacaggccag	10	13	9	9	0	2	2	1	1	1	1	3	2	2	2	2	1	2	4	2	1	4	5	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	97423877	A	A	97423877	3	1	466	1	0	0	0	0	1	0	0	0	8386	827	29	4	34	4	KLHL32	6	97423877	Missense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	58261870	97423877	73691190	22	24305											
BCLAF1	9774	broad.mit.edu;hgsc.bcm.edu	37	chr6	136599666	136599666	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgagaagaaacggatCttctttttggactcctggaa	11	14	9	7	1	3	2	0	1	3	2	4	6	4	5	1	3	1	0	1	3	3	4	rs147857152	alternate_allele	TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	136599666	C	A	136599666	3	1	466	1	0	0	0	0	1	0	0	0	1383	913	32	4	2449	4	BCLAF1	6	136599666	Missense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	39175789	136599666	34515401	23	24306											
CCDC129	223075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	31617614	31617614	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagaacctcagtgagtgccGccaaagagcatcgaagaaga	17	4	11	9	2	1	5	1	1	0	4	2	6	1	5	3	0	3	1	3	0	5	0	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	31617614	G	A	31617614	3	1	466	1	0	0	0	0	1	0	0	0	2764	1087	38	1	762	1	CCDC129	7	31617614	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10		31617614	127521049	24	24307											
AP4M1	9179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99700547	99700547	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggggaccatctcccgcaaTgtggctctggtatacgaact	9	9	12	11	2	2	0	0	0	2	0	3	3	2	1	2	4	2	3	2	4	4	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	99700547	T	C	99700547	2	2	466	1	0	0	0	0	0	0	0	1	753	1461	51	3		3	AP4M1	7	99700547	Silent	SNP	T	TCGA-CZ-5463-01A-01D-1501-10	68082933	99700547	59438116	25	24308											
PPP1R3A	5506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	113518058	113518058	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgcccagagcttactaatCcttcattttcatgccttgct	8	16	5	12	0	2	1	2	0	0	1	3	1	3	1	3	0	5	2	3	0	2	7	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	113518058	C	A	113518058	3	1	466	1	0	0	0	0	1	0	0	0	12373	855	30	4	283	4	PPP1R3A	7	113518058	Missense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	13817511	113518058	45620605	26	24309											
KCND2	3751	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	119915447	119915447	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggctgcagcgcctagtcGttaccgttttgtgcgtagtg	4	13	13	11	4	0	0	0	0	0	0	1	0	0	0	3	1	4	5	3	1	3	5	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	119915447	G	A	119915447	3	1	466	1	0	0	0	0	1	0	0	0	8019	1145	40	1	763	1	KCND2	7	119915447	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	6397389	119915447	39223216	27	24310											
GALNT11	63917	broad.mit.edu;hgsc.bcm.edu	37	chr7	151791383	151791383	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgacctggacagttttgcTttttgtttatttcaacttca	7	19	7	8	1	2	0	2	0	0	0	2	2	2	1	1	1	3	3	1	1	2	8	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	151791383	T	A	151791383	3	1	466	1	0	0	0	0	1	0	0	0	6209	1609	56	5	73	5	GALNT11	7	151791383	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10	31875936	151791383	7347280	28	24311											
NXNL2	158046	broad.mit.edu;hgsc.bcm.edu	37	chr9	91159434	91159434	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggactgggtggaggcggCcgatatcttccagaatttct	8	10	13	10	2	2	1	0	0	2	1	3	4	3	3	3	5	0	0	3	5	2	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	91159434	C	A	91159434	3	1	466	1	0	0	0	0	1	0	0	0	10789	739	26	4	449	4	NXNL2	9	91159434	Missense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10		91159434	50053997	29	24312											
MED27	9442	broad.mit.edu	37	chr9	134955076	134955076	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcctggaagtgcgcaatAaaggccttctcccggccctc	7	10	10	14	2	1	0	0	0	1	0	4	1	2	1	4	3	1	1	4	3	4	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		G	134955076	G	G	134955076	2	3	466	1	0	0	0	0	0	0	0	1	9445	359	13	3		3	MED27	9	134955076	Silent	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	43795642	134955076	6258355	30	24313											
TPRN	286262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140093554	140093554	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcaacgtgggccccaggAggcaactagcctcctcctcc	7	8	9	17	1	2	0	1	0	1	0	5	1	5	1	6	3	3	1	6	3	3	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	140093554	A	T	140093554	3	4	466	1	0	0	0	0	1	0	0	0	16420	304	11	5	621	5	TPRN	9	140093554	Missense_Mutation	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	5138478	140093554	1119877	31	24314											
MARCH5	54708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	94110949	94110949	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattctgaattatccagaAcaagaagaagcataaaactg	21	8	6	6	0	1	4	0	1	1	3	2	4	2	4	1	0	3	1	1	0	10	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	94110949	A	T	94110949	3	4	466	1	0	0	0	0	1	0	0	0	9304	40	2	5	844	5	MARCH5	10	94110949	Missense_Mutation	SNP	A	TCGA-CZ-5463-01A-01D-1501-10		94110949	41423798	32	24315											
MUC6	4588	broad.mit.edu;ucsc.edu	37	chr11	1023622	1023622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgccatggccgtcctgcGtgtgcgtgttgtagaagccg	5	10	14	12	5	0	1	0	0	0	1	2	1	1	1	4	1	3	2	4	1	2	2	rs138887092	by1000genomes	TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	1023622	A	A	1023622	3	1	466	1	0	0	0	0	1	0	0	0	9980	1145	40	1	3938	1	MUC6	11	1023622	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10		1023622	133982894	33	24316											
OR4S2	219431	broad.mit.edu;ucsc.edu	37	chr11	55418663	55418663	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccatctcctatgtggggtGcatgttgcaactgtttggag	8	13	12	8	0	1	0	0	0	1	0	2	1	1	1	2	3	4	4	2	3	3	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	55418663	T	T	55418663	3	4	466	1	0	0	0	0	1	0	0	0	11083	1319	46	4	286	4	OR4S2	11	55418663	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	54395041	55418663	79587853	34	24317											
MMP8	4317	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102595498	102595498	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catttacctgaacagtttttGtatttttctctttagaagat	10	20	5	6	0	1	3	0	1	1	2	2	3	1	3	1	0	2	2	1	0	5	9	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	102595498	G	T	102595498	3	4	466	1	0	0	0	0	1	0	0	0	9668	1377	48	4	1354	4	MMP8	11	102595498	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	47176835	102595498	32411018	35	24318											
MMP12	4321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102736586	102736586	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatcaatttttttcacaaAgttaggaaaaccaaaagaat	18	12	5	6	0	2	1	2	0	0	1	2	2	2	2	1	1	2	2	1	1	8	4	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	102736586	A	C	102736586	2	2	466	1	0	0	0	0	0	0	0	1	9651	72	3	5		5	MMP12	11	102736586	Silent	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	141088	102736586	32269930	36	24319											
B4GALNT3	283358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	667220	667220	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggaaactttgaacgctCagctggacttcaggctggca	11	9	12	9	1	2	1	2	1	0	0	2	3	2	3	0	4	3	4	0	4	3	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	667220	C	A	667220	4	1	466	1	0	0	0	0	0	1	0	0	1268	838	29	4	2639	4	B4GALNT3	12	667220	Nonsense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10		667220	133184675	37	24320											
LPCAT3	10162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7090783	7090783	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccctccgtcaaagtagtcAacagccaaacctgagcagag	13	7	8	13	1	2	2	2	1	0	1	4	2	4	2	4	0	4	2	4	0	4	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	7090783	A	C	7090783	2	2	466	1	0	0	0	0	0	0	0	1	8912	117	5	5		5	LPCAT3	12	7090783	Silent	SNP	A	TCGA-CZ-5463-01A-01D-1501-10	6423563	7090783	126761112	38	24321											
CD163L1	283316	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7526111	7526111	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagctgcctgcacacaaTgcctgctatggctgtggtga	7	9	12	13	0	0	1	0	1	0	0	0	1	0	1	3	2	5	4	3	2	2	1	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	7526111	T	A	7526111	3	1	466	1	0	0	0	0	1	0	0	0	2968	1464	51	5	850	5	CD163L1	12	7526111	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10	435328	7526111	126325784	39	24322											
ZMYM2	7750	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	20660011	20660011	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttatttgcaaccagaaTgctctagttctacagatagc	11	16	6	8	0	2	2	0	0	2	2	2	2	2	2	1	0	5	3	1	0	6	8	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	20660011	T	C	20660011	3	2	466	1	0	0	0	0	1	0	0	0	17699	1464	51	3	4081	3	ZMYM2	13	20660011	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10		20660011	94509867	40	24323											
ZC3H13	23091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	46543242	46543242	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcaaaagtattattggtgGtattggtgggggtggcagag	9	12	18	2	0	0	1	0	0	0	1	0	1	0	1	0	7	0	4	0	7	5	5	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	46543242	G	C	46543242	3	2	466	1	0	0	0	0	1	0	0	0	17564	1261	44	4	1273	4	ZC3H13	13	46543242	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	25883231	46543242	68626636	41	24324											
CLDN10	9071	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	96230215	96230215	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaagtatcatggtggagaaGattttaaaacaacaaaccct	18	9	7	7	0	1	2	1	0	0	2	1	3	1	2	1	2	3	1	1	2	7	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	96230215	G	C	96230215	3	2	466	1	0	0	0	0	1	0	0	0	3472	942	33	4	870	4	CLDN10	13	96230215	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	49686973	96230215	18939663	42	24325											
MAX	4149	hgsc.bcm.edu;ucsc.edu	37	chr14	65560495	65560495	+	Frame_Shift_Del	DEL	T	T	-																															tctttgatgtggtccctacgTtttcgttccagtgcattatg																								novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		-	65560495	T	-	65560495	7	5	466	1	0	1	0	1	0	0	0	0	9339	1722	60	0	732	0	MAX	14	65560495	Frame_Shift_Del	DEL	T	TCGA-CZ-5463-01A-01D-1501-10		65560495	41789045	43	24326											
VPS13C	54832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	62214721	62214721	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccacattctaaggtaacttGaatggattctacaacaacac	15	10	6	10	0	2	1	0	1	2	0	2	2	2	2	1	2	4	1	1	2	6	6	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		C	62214721	G	C	62214721	3	2	466	1	0	0	0	0	1	0	0	0	17190	1299	45	4	4567	4	VPS13C	15	62214721	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10		62214721	40316671	44	24327											
ZNF609	23060	hgsc.bcm.edu;ucsc.edu	37	chr15	64967099	64967099	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacagcagcgagcccaggCtcttcctcaggcttgaccgc	7	8	10	16	2	3	1	2	1	1	0	4	2	4	1	3	2	3	3	3	2	0	3	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	64967099	C	A	64967099	2	1	466	1	0	0	0	0	0	0	0	1	18034	784	28	4		4	ZNF609	15	64967099	Silent	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	2752378	64967099	37564293	45	24328											
SLCO3A1	28232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	92669422	92669422	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtccactgcttgctacGtctccttcctcttcctgggc	2	15	9	15	1	2	0	0	0	2	0	6	0	5	0	4	2	3	2	4	2	1	4	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	92669422	G	A	92669422	3	1	466	1	0	0	0	0	1	0	0	0	14730	1145	40	1	1328	1	SLCO3A1	15	92669422	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	27702323	92669422	9861970	46	24329											
C16orf3	750	hgsc.bcm.edu;ucsc.edu	37	chr16	90095480	90095480	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcccagcatgtgagctgcTgcccgtctccctgtccgctt	3	12	10	16	2	1	1	0	1	1	0	4	1	3	1	4	0	4	4	4	0	0	1	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	90095480	T	A	90095480	3	1	466	1	0	0	0	0	1	0	0	0	1812	1580	55	5	86	5	C16orf3	16	90095480	Missense_Mutation	SNP	T	TCGA-CZ-5463-01A-01D-1501-10		90095480	259273	47	24330											
ZMYND15	84225	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4647403	4647403	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacctggtgccccagtcctGtaaggagagcggagtggggg	7	6	17	11	1	0	1	0	0	0	1	1	3	1	2	5	5	2	1	5	5	1	1	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	4647403	G	T	4647403	5	4	466	1	0	0	0	0	0	0	1	0	17707	1391	48	4	1522	4	ZMYND15	17	4647403	Splice_Site	SNP	G	TCGA-CZ-5463-01A-01D-1501-10		4647403	76547807	48	24331											
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7577124	7577124	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggacaggcacaaacacgcaCctcaaagctgttccgtccca	13	5	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs121912657	alternate_allele	TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	7577124	C	T	7577124	3	4	466	1	0	0	0	0	1	0	0	0	16380	507	18	2	472	2	TP53	17	7577124	Missense_Mutation	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	2929721	7577124	73618086	49	24332											
TMEM98	26022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	31260288	31260288	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacccccacattgaggcCattctggagaatgaagactg	13	7	9	12	0	1	4	0	2	1	2	1	5	1	4	4	2	1	0	4	2	3	2	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	31260288	C	A	31260288	2	1	466	1	0	0	0	0	0	0	0	1	16224	581	21	4		4	TMEM98	17	31260288	Silent	SNP	C	TCGA-CZ-5463-01A-01D-1501-10	23683164	31260288	49934922	50	24333											
ZNF677	342926	broad.mit.edu;hgsc.bcm.edu	37	chr19	53740523	53740523	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacattcagtacatttgtaaGgtttctctccagtatgagtt	10	16	7	8	0	2	1	1	1	1	0	4	1	3	1	1	1	1	5	1	1	3	7	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		T	53740523	G	T	53740523	3	4	466	1	0	0	0	0	1	0	0	0	18083	1000	35	4	301	4	ZNF677	19	53740523	Missense_Mutation	SNP	G	TCGA-CZ-5463-01A-01D-1501-10		53740523	5388460	51	24334											
NLRP7	199713	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55450708	55450708	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtccccgatgtcccaggcGtggccgtccctgtcctcccc	3	8	10	20	4	0	0	0	0	0	0	5	1	5	0	8	2	0	0	8	2	0	0	novel		TCGA-CZ-5463-01A-01D-1501-10	TCGA-CZ-5463-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3732539b-eb77-485b-81a1-83be956a9a87	d9a813ec-eb29-45c1-9324-55d38bf59c12		A	55450708	G	A	55450708	2	1	466	1	0	0	0	0	0	0	0	1	10482	1136	40	1		1	NLRP7	19	55450708	Silent	SNP	G	TCGA-CZ-5463-01A-01D-1501-10	1710185	55450708	3678275	52	24335											
CATSPER4	378807	broad.mit.edu;ucsc.edu	37	chr1	26524568	26524568	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcctcttcttcatgctGgtcagtgcctgcccccgccc	3	12	7	19	1	5	0	3	0	2	0	6	0	6	0	5	1	3	1	5	1	0	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	26524568	A	A	26524568	2	1	467	1	0	0	0	0	0	0	0	1	2690	1362	47	2		2	CATSPER4	1	26524568	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		26524568	222726053	1	24336											
PUM1	9698	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	31447563	31447563	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaattagttgctgcagcggCagcggcagcttgctgctgga	7	10	15	9	2	0	1	0	1	0	0	0	2	0	2	0	3	7	8	0	3	2	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	31447563	C	T	31447563	3	4	467	1	0	0	0	0	1	0	0	0	12827	710	25	2	2177	2	PUM1	1	31447563	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	4922995	31447563	217803058	2	24337											
COL9A2	1298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	40777201	40777201	+	Frame_Shift_Del	DEL	G	G	-																															cgcactgccttccagaccctGgatggttcccgggcgaccct																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	40777201	G	-	40777201	7	5	467	1	0	1	0	1	0	0	0	0	3708	1357	47	0	1671	0	COL9A2	1	40777201	Frame_Shift_Del	DEL	G	TCGA-CZ-5465-01A-01D-1806-10	9329638	40777201	208473420	3	24338											
USP24	23358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	55642115	55642115	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatcagactcggaaagAccttagtaaaatgcatgaaa	16	10	7	8	1	2	3	2	1	1	2	4	4	2	4	1	1	1	2	1	1	5	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	55642115	A	T	55642115	2	4	467	1	0	0	0	0	0	0	0	1	17054	289	10	5		5	USP24	1	55642115	Silent	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	14864914	55642115	193608506	4	24339											
CD101	9398	broad.mit.edu;ucsc.edu	37	chr1	117561137	117561137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaacaaccgccccccgaggGcttctgccatctctcaccca	9	6	6	20	2	3	0	1	0	2	0	4	1	3	0	6	1	3	1	6	1	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	117561137	T	T	117561137	3	4	467	1	0	0	0	0	1	0	0	0	2962	1203	42	4	1994	4	CD101	1	117561137	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	61919022	117561137	131689484	5	24340											
FCGR3B	2215	broad.mit.edu;hgsc.bcm.edu	37	chr1	161599725	161599725	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccactgtgtggaattgtcCtcaggggagtaggctccctg	8	10	13	10	0	1	0	1	0	0	0	3	2	3	2	3	4	1	2	3	4	3	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	161599725	C	T	161599725	2	4	467	1	0	0	0	0	0	0	0	1	5785	680	24	2		2	FCGR3B	1	161599725	Silent	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	44038588	161599725	87650896	6	24341											
CENPL	91687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	173780412	173780412	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaggatgcactaggagttGactctggtgcactgtaagaa	11	11	13	6	0	1	3	0	2	1	1	1	5	1	5	0	3	2	4	0	3	3	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	173780412	G	C	173780412	4	2	467	1	0	0	0	0	0	1	0	0	3236	1294	45	4	1166	4	CENPL	1	173780412	Nonsense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	12180687	173780412	75470209	7	24342											
CFHR3	10878	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196749100	196749100	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactcccagatgcatccgtGtcagtaagtacaccgctctg	9	10	8	14	2	2	1	1	0	1	1	4	1	4	1	3	0	3	4	3	0	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	196749100	G	T	196749100	3	4	467	1	0	0	0	0	1	0	0	0	3286	1377	48	4	437	4	CFHR3	1	196749100	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	22968688	196749100	52501521	8	24343											
SRGAP2	23380	broad.mit.edu;hgsc.bcm.edu	37	chr1	206516309	206516309	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgacatctacctgaataatAtcattcctcgatttgtacaa	13	14	5	9	1	2	2	1	2	1	0	4	3	3	2	2	0	2	1	2	0	6	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	206516309	A	G	206516309	3	3	467	1	0	0	0	0	1	0	0	0	15147	449	16	3	112	3	SRGAP2	1	206516309	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	9767209	206516309	42734312	9	24344											
USH2A	7399	broad.mit.edu;ucsc.edu	37	chr1	215848923	215848923	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgacgattcaaaccagaGtactccaggaacccgtcact	14	7	7	13	2	2	2	2	1	0	1	3	4	3	3	3	1	4	1	3	1	4	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	215848923	T	T	215848923	4	4	467	1	0	0	0	0	0	1	0	0	17035	1024	36	4	3318	4	USH2A	1	215848923	Nonsense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	9332614	215848923	33401698	10	24345											
SPATA17	128153	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	217947704	217947704	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatacaattcacccttcaGaaaagagcctgatccatggg	15	9	7	10	0	2	3	2	1	0	2	3	3	3	3	3	1	2	0	3	1	6	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	217947704	G	T	217947704	3	4	467	1	0	0	0	0	1	0	0	0	15003	942	33	4	574	4	SPATA17	1	217947704	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	2098781	217947704	31302917	11	24346											
TRIM11	81559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	228582654	228582654	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccgttccgaggaattgtAatagctccccaggaagacca	11	7	11	12	2	0	1	0	0	0	1	2	4	2	3	5	3	1	3	5	3	4	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	228582654	A	T	228582654	3	4	467	1	0	0	0	0	1	0	0	0	16486	362	13	5	251	5	TRIM11	1	228582654	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	10634950	228582654	20667967	12	24347											
C1orf101	257044	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	244715945	244715945	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatgatgaaagacggagTgtggctcatgtgatcttatc	11	12	13	5	1	2	5	1	4	1	1	3	6	2	6	0	2	0	1	0	2	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	244715945	T	A	244715945	3	1	467	1	0	0	0	0	1	0	0	0	1976	1693	59	5	892	5	C1orf101	1	244715945	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	16133291	244715945	4534676	13	24348											
OR2L8	391190	broad.mit.edu;hgsc.bcm.edu	37	chr1	248112361	248112361	+	Frame_Shift_Del	DEL	A	A	-																															tactgagtcagctctccctcAttgacctaaattacatctcc																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	248112361	A	-	248112361	7	5	467	1	0	1	0	1	0	0	0	0	11009	217	8	0	204	0	OR2L8	1	248112361	Frame_Shift_Del	DEL	A	TCGA-CZ-5465-01A-01D-1806-10	3396416	248112361	1138260	14	24349											
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32605236	32605236	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggcacagcagctcttaTcagcatgtttagaaaaggta	13	12	9	7	0	2	1	1	0	1	1	2	1	2	1	0	2	3	6	0	2	6	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	32605236	T	C	32605236	3	2	467	1	0	0	0	0	1	0	0	0	1438	1435	50	3	533	3	BIRC6	2	32605236	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10		32605236	210594137	15	24350											
EIF2AK2	5610	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	37347219	37347219	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcgcctcttcttttttcaatCcattgttccaaggtcccttt	5	19	4	13	1	3	0	1	0	2	0	7	0	6	0	4	1	0	1	4	1	2	7	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	37347219	C	G	37347219	3	3	467	1	0	0	0	0	1	0	0	0	4997	856	30	4	544	4	EIF2AK2	2	37347219	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	4741983	37347219	205852154	16	24351											
LRPPRC	10128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44209499	44209499	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattggaaatcttcctagaaGaaaaagtggactcctcttga	14	11	9	7	0	2	3	0	1	2	2	4	6	4	5	2	2	0	0	2	2	5	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	44209499	G	T	44209499	3	4	467	1	0	0	0	0	1	0	0	0	8965	942	33	4	4108	4	LRPPRC	2	44209499	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	6862280	44209499	198989874	17	24352											
BCL11A	53335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	60780394	60780394	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggggtttgccttgcttGcggcgagacatggtgggctg	3	12	18	8	2	0	1	0	0	0	1	0	2	0	1	1	5	4	4	1	5	0	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	60780394	G	A	60780394	2	1	467	1	0	0	0	0	0	0	0	1	1363	1306	46	2		2	BCL11A	2	60780394	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	16570895	60780394	182418979	18	24353											
ANAPC1	64682	broad.mit.edu;hgsc.bcm.edu	37	chr2	112539971	112539971	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccgggcttcagagttcCtgttagcaacagtctgagcc	9	9	11	12	1	2	2	1	1	1	1	3	2	3	2	3	1	4	4	3	1	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	112539971	C	G	112539971	3	3	467	1	0	0	0	0	1	0	0	0	598	681	24	4	681	4	ANAPC1	2	112539971	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	51759577	112539971	130659402	19	24354											
CLASP1	23332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	122206531	122206531	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagatgaatctcttacttTagactctcttgagagctgga	12	13	8	8	0	2	4	0	2	2	3	4	6	2	5	0	1	2	1	0	1	4	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	122206531	T	C	122206531	2	2	467	1	0	0	0	0	0	0	0	1	3454	1741	61	3		3	CLASP1	2	122206531	Silent	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	9666560	122206531	120992842	20	24355											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179569401	179569401	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcagttcctttgtaccacGaaagcttgatttctggataa	10	16	7	8	1	2	1	1	1	1	0	3	3	3	2	2	1	2	3	2	1	3	7	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	179569401	G	A	179569401	3	1	467	1	0	0	0	0	1	0	0	0	16734	1059	37	1	74763	1	TTN	2	179569401	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	57362870	179569401	63629972	21	24356											
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	212587123	212587123	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattctgttacttacgtggaCatttcttgacacagaatgct	10	16	7	8	1	2	2	0	1	2	1	2	3	2	3	0	1	3	2	0	1	4	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	212587123	C	A	212587123	3	1	467	1	0	0	0	0	1	0	0	0	5209	478	17	4	3136	4	ERBB4	2	212587123	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	33017722	212587123	30612250	22	24357											
ABCA12	26154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215876834	215876834	+	Frame_Shift_Del	DEL	T	T	-																															ccatcatcttttctactggcTtttgatctttcctcgggaaa																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	215876834	T	-	215876834	7	5	467	1	0	1	0	1	0	0	0	0	30	1609	56	0	5957	0	ABCA12	2	215876834	Frame_Shift_Del	DEL	T	TCGA-CZ-5465-01A-01D-1806-10	3289711	215876834	27322539	23	24358											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191480	10191480	+	Frame_Shift_Del	DEL	T	T	-																															tgcccttccagtgtatactcTgaaagagcgatgcctccagg																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	10191480	T	-	10191480	7	5	467	1	0	1	0	1	0	0	0	0	17161	1580	55	0	483	0	VHL	3	10191480	Frame_Shift_Del	DEL	T	TCGA-CZ-5465-01A-01D-1806-10		10191480	187830950	24	24359											
SEMA3B	7869	hgsc.bcm.edu	37	chr3	50310781	50310781	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagagcgagaacccagacgaCgacaaaatctacttcttctt	14	8	8	11	3	3	3	0	0	3	3	3	7	3	3	1	0	3	0	1	0	4	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	50310781	C	T	50310781	3	4	467	1	0	0	0	0	1	0	0	0	14027	535	19	1	742	1	SEMA3B	3	50310781	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	40119301	50310781	147711649	25	24360											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52696199	52696199	+	Frame_Shift_Del	DEL	C	C	-																															cccatcttcatcatcatcttCgtcatctgcttctcctttct																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	52696199	C	-	52696199	7	5	467	1	0	1	0	1	0	0	0	0	11491	893	31	0	4530	0	PBRM1	3	52696199	Frame_Shift_Del	DEL	C	TCGA-CZ-5465-01A-01D-1806-10	2385418	52696199	145326231	26	24361											
PROS1	5627	broad.mit.edu	37	chr3	93643084	93643084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagatgttttgaacttacCtaagtattttggataaaaat	14	17	7	3	0	0	2	0	2	0	1	0	4	0	3	1	1	2	2	1	1	7	9	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	93643084	T	T	93643084	3	4	467	1	0	0	0	0	1	0	0	0	12560	695	24	2	1823	2	PROS1	3	93643084	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	40946885	93643084	104379346	27	24362											
DRD3	1814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	113858457	113858457	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctggcatagacaaggaCagtcactccaaagggcaggt	13	7	12	9	0	2	1	1	0	1	1	3	3	3	2	1	4	0	2	1	4	3	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	113858457	C	G	113858457	3	3	467	1	0	0	0	0	1	0	0	0	4758	478	17	4	601	4	DRD3	3	113858457	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	20215373	113858457	84163973	28	24363											
GAP43	2596	broad.mit.edu;hgsc.bcm.edu	37	chr3	115395305	115395305	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcctccaaggctgaagatgCcccagccaaggaggagccta	11	5	12	13	0	0	2	0	1	0	1	2	4	2	4	6	3	3	1	6	3	4	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	115395305	C	T	115395305	3	4	467	1	0	0	0	0	1	0	0	0	6235	739	26	2	624	2	GAP43	3	115395305	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	1536848	115395305	82627125	29	24364											
C3orf1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	119217644	119217644	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgtgcctatttccccgaGtctttgctgccgaagctgtg	5	14	10	12	2	1	0	0	0	1	0	2	2	2	0	4	0	4	2	4	0	2	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	119217644	G	C	119217644	3	2	467	1	0	0	0	0	1	0	0	0	2206	1029	36	4	66	4	C3orf1	3	119217644	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	3822339	119217644	78804786	30	24365											
PARP14	54625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	122437546	122437546	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaattgaggcgatgatcaaGagagttcgattggccaaaga	15	8	13	5	2	1	4	1	2	0	2	2	8	1	4	1	2	0	1	1	2	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	122437546	G	T	122437546	3	4	467	1	0	0	0	0	1	0	0	0	11458	933	33	4	4602	4	PARP14	3	122437546	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	3219902	122437546	75584884	31	24366											
IGSF10	285313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	151161389	151161389	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgagacaactgtttggttTgcaagaatccaggtaactgt	11	13	10	7	0	1	2	0	1	1	2	2	3	2	2	1	2	3	4	1	2	4	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	151161389	T	A	151161389	2	1	467	1	0	0	0	0	0	0	0	1	7597	1799	63	5		5	IGSF10	3	151161389	Silent	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	28723843	151161389	46861041	32	24367											
OCIAD2	132299	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48887578	48887578	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcacaggtaaggaggcAgtgcctagaagagaagcaaa	15	6	12	8	0	1	2	1	0	0	2	2	4	2	3	2	3	2	3	2	3	5	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	48887578	A	G	48887578	3	3	467	1	0	0	0	0	1	0	0	0	10818	188	7	3	80	3	OCIAD2	4	48887578	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10		48887578	142266698	33	24368											
LPHN3	23284	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	62813877	62813877	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctactccaagcgtacaatGacaggttattggtcaacaca	14	9	8	10	1	1	1	1	1	0	0	2	1	2	1	1	2	5	3	1	2	6	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	62813877	G	A	62813877	3	1	467	1	0	0	0	0	1	0	0	0	8917	1290	45	2	2538	2	LPHN3	4	62813877	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	13926299	62813877	128340399	34	24369											
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	134073481	134073481	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctcggtgtccttcatctTcctgctggccatgatcgtgc	3	13	12	13	2	2	1	1	1	1	0	6	1	4	1	3	3	2	2	3	3	0	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	134073481	T	G	134073481	3	3	467	1	0	0	0	0	1	0	0	0	11507	1783	62	5	2188	5	PCDH10	4	134073481	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	71259604	134073481	57080795	35	24370											
SC4MOL	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	166254730	166254730	+	Frame_Shift_Del	DEL	T	T	-																															tcttattctgtttacctggaTttttatttcaatttatacct																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	166254730	T	-	166254730	7	5	467	1	0	1	0	1	0	0	0	0	13867	1493	52	0	210	0	SC4MOL	4	166254730	Frame_Shift_Del	DEL	T	TCGA-CZ-5465-01A-01D-1806-10	32181249	166254730	24899546	36	24371											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32090803	32090803	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgccccagatggccaagTctccctcaatcatgacactg	9	9	7	16	0	3	2	2	1	1	1	5	2	4	2	5	1	1	0	5	1	2	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	32090803	T	G	32090803	3	3	467	1	0	0	0	0	1	0	0	0	11701	1667	58	5	7323	5	PDZD2	5	32090803	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10		32090803	148824457	37	24372											
TBC1D22B	55633	hgsc.bcm.edu	37	chr6	37250060	37250060	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcggatcagaacgcttctgGggcccccccaatgactgtcc	7	8	10	16	2	2	2	1	1	1	1	4	3	3	3	4	3	1	1	4	3	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	37250060	G	A	37250060	3	1	467	1	0	0	0	0	1	0	0	0	15611	1232	43	2	535	2	TBC1D22B	6	37250060	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		37250060	133865007	38	24373											
ENPP3	5169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	131971248	131971248	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtggcatgtaaagaccgagGtgattgctgctgggattttg	8	13	15	5	1	0	2	0	1	0	1	0	4	0	3	1	3	2	4	1	3	2	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	131971248	G	C	131971248	3	2	467	1	0	0	0	0	1	0	0	0	5131	1261	44	4	246	4	ENPP3	6	131971248	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	94721188	131971248	39143819	39	24374											
RMND1	55005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	151726969	151726969	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaagtttttcattcatGacctatgtaagaaaaatttc	13	16	6	6	0	2	3	2	2	0	1	3	3	2	3	1	0	1	3	1	0	5	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	151726969	G	T	151726969	2	4	467	1	0	0	0	0	0	0	0	1	13398	1277	45	4		4	RMND1	6	151726969	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	19755721	151726969	19388098	40	24375											
TBP	6908	hgsc.bcm.edu	37	chr6	170871043	170871043	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcaacaGcaacagcagcagcagcagca	16	0	11	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	11	0	0	2	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	170871043	G	A	170871043	2	1	467	1	0	0	0	0	0	0	0	1	15643	962	34	2		2	TBP	6	170871043	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	19144074	170871043	244024	41	24376											
TBP	6908	hgsc.bcm.edu	37	chr6	170871097	170871097	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcagcaGcagcagcaacaggcagtggc	13	1	14	13	0	0	0	0	0	0	0	0	0	0	0	0	2	10	10	0	2	1	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	170871097	G	A	170871097	2	1	467	1	0	0	0	0	0	0	0	1	15643	962	34	2		2	TBP	6	170871097	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	54	170871097	243970	42	24377											
SCRN1	9805	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	29980329	29980330	+	Frame_Shift_Ins	INS	-	-	C																															ctaagctgtctttgccagcaINSccgcagtctagatgatcctc																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	29980330	-	C	29980329	7	5	467	1	0	1	1	0	0	0	0	0	13940	146	6	0	552	0	SCRN1	7	29980329	Frame_Shift_Ins	INS	-	TCGA-CZ-5465-01A-01D-1806-10		29980329	129158334	43	24378											
POU6F2	11281	broad.mit.edu	37	chr7	39500265	39500265	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccagactcaggtgggacagGctctcagtgctacagagggc	9	6	14	12	0	2	2	2	0	1	2	3	3	2	3	1	4	2	2	1	4	1	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	39500265	T	T	39500265	3	4	467	1	0	0	0	0	1	0	0	0	12285	1203	42	4	1556	4	POU6F2	7	39500265	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	9519936	39500265	119638398	44	24379											
AEBP1	165	hgsc.bcm.edu;ucsc.edu	37	chr7	44153688	44153688	+	Missense_Mutation	SNP	G	G	A																															cgaggtggagcccgagtttgGgaccaaggtggagcccgagt																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	44153688	G	A	44153688	3	1	467	1	0	0	0	0	1	0	0	0	349	1232	43	2	3387	2	AEBP1	7	44153688	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	4653423	44153688	114984975	45	24380	348	4									
AEBP1	165	hgsc.bcm.edu	37	chr7	44153693	44153693	+	Missense_Mutation	SNP	A	A	G																															tggagcccgagtttgggaccAaggtggagcccgagtttgag																								rs140163558		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	44153693	A	G	44153693	3	3	467	1	0	0	0	0	1	0	0	0	349	131	5	3	3392	3	AEBP1	7	44153693	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	5	44153693	114984970	46	24381	348	4									
AEBP1	165	hgsc.bcm.edu;ucsc.edu	37	chr7	44153696	44153696	+	Missense_Mutation	SNP	G	G	T																															agcccgagtttgggaccaagGtggagcccgagtttgagacc																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	44153696	G	T	44153696	3	4	467	1	0	0	0	0	1	0	0	0	349	1261	44	4	3395	4	AEBP1	7	44153696	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	3	44153696	114984967	47	24382	348	4									
AEBP1	165	hgsc.bcm.edu	37	chr7	44153704	44153704	+	Silent	SNP	C	C	T																															tttgggaccaaggtggagccCgagtttgagacccagttgga																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	44153704	C	T	44153704	2	4	467	1	0	0	0	0	0	0	0	1	349	639	23	1		1	AEBP1	7	44153704	Silent	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	8	44153704	114984959	48	24383	348	4									
MET	4233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116411638	116411638	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggattgattgctggtgttgtCtcaatatcaacagcactgtt	9	15	10	7	0	2	1	2	1	1	0	3	2	2	2	0	2	3	4	0	2	3	5	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	116411638	C	G	116411638	2	3	467	1	0	0	0	0	0	0	0	1	9485	900	32	4		4	MET	7	116411638	Silent	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	72257934	116411638	42727025	49	24384											
IQUB	154865	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123119948	123119948	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgagtctctttttccagAagttcacacagagcagcttt	10	14	7	10	0	3	3	1	1	2	2	5	3	4	3	1	0	2	3	1	0	1	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	123119948	A	C	123119948	2	2	467	1	0	0	0	0	0	0	0	1	7820	233	9	5		5	IQUB	7	123119948	Silent	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	6708310	123119948	36018715	50	24385											
ZC3HAV1	56829	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	138764225	138764225	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtatttaccgttaacaaGtgctactcttgggtcagcat	9	16	8	8	1	2	0	1	0	1	0	2	0	2	0	1	1	5	4	1	1	5	7	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	138764225	G	A	138764225	3	1	467	1	0	0	0	0	1	0	0	0	17574	1029	36	2	1290	2	ZC3HAV1	7	138764225	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	15644277	138764225	20374438	51	24386											
PDLIM2	64236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	22452072	22452072	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctatggagggaatgagAttgtcactggaagctttgga	10	12	15	4	0	1	1	1	1	0	1	1	6	1	5	0	4	2	2	0	4	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	22452072	A	T	22452072	3	4	467	1	0	0	0	0	1	0	0	0	11680	330	12	5	1127	5	PDLIM2	8	22452072	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10		22452072	123911950	52	24387											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110460595	110460595	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatttgagtacccgcttaaTattcaaaatattaatccaag	15	14	5	7	1	1	1	1	1	0	0	2	1	2	1	2	0	1	3	2	0	9	8	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	110460595	T	C	110460595	2	2	467	1	0	0	0	0	0	0	0	1	11972	1403	49	3		3	PKHD1L1	8	110460595	Silent	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	88008523	110460595	35903427	53	24388											
FER1L6	654463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	125052244	125052244	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctcactgccagacaacAaaggtaaccagggtaaccaa	15	7	7	12	0	1	1	1	0	1	1	2	1	1	1	3	2	4	2	3	2	5	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	125052244	A	T	125052244	2	4	467	1	0	0	0	0	0	0	0	1	5815	117	5	5		5	FER1L6	8	125052244	Silent	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	14591649	125052244	21311778	54	24389											
FLJ43860	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	142444934	142444934	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcccacctatgaagagTgtcacccaggtcttgatgtg	8	10	10	13	0	2	3	1	2	1	1	3	3	3	3	4	1	0	0	4	1	2	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	142444934	T	C	142444934	2	2	467	1	0	0	0	0	0	0	0	1	5930	1683	59	3		3	FLJ43860	8	142444934	Silent	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	17392690	142444934	3919088	55	24390											
RANBP6	26953	broad.mit.edu;hgsc.bcm.edu	37	chr9	6013478	6013478	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaccatcagcttcacaacTtgttctgtatattccacaaa	13	12	5	11	0	3	0	2	0	1	0	4	1	4	1	2	1	3	3	2	1	5	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	6013478	T	G	6013478	3	3	467	1	0	0	0	0	1	0	0	0	13033	1606	56	5	1191	5	RANBP6	9	6013478	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10		6013478	135199953	56	24391											
ALDOB	229	hgsc.bcm.edu;ucsc.edu	37	chr9	104192206	104192207	+	Frame_Shift_Ins	INS	-	-	TT																															ctgccggcggttctcttcagINStgttttccaccttgatcctc																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		TT	104192207	-	TT	104192206	7	5	467	1	0	1	1	0	0	0	0	0	508	1029	36	0	967	0	ALDOB	9	104192206	Frame_Shift_Ins	INS	-	TCGA-CZ-5465-01A-01D-1806-10	98178728	104192206	37021225	57	24392											
C5	727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	123719562	123719562	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgaacgaatgaattctcaCcagttttgtagatatccaga	15	12	7	7	1	1	4	1	2	1	2	3	5	2	4	2	0	1	2	2	0	6	5	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	123719562	C	T	123719562	5	4	467	1	0	0	0	0	0	0	1	0	2280	521	18	2	279	2	C5	9	123719562	Splice_Site	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	19527356	123719562	17493869	58	24393											
URM1	81605	broad.mit.edu;hgsc.bcm.edu	37	chr9	131151698	131151698	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggctgggtaatcctccgcCccactccagccccacactga	7	7	9	18	1	0	1	0	1	0	0	3	1	3	1	7	2	1	2	7	2	1	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	131151698	C	G	131151698	3	3	467	1	0	0	0	0	1	0	0	0	17026	623	22	4	361	4	URM1	9	131151698	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	7432136	131151698	10061733	59	24394											
KIAA1984	84960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139697161	139697161	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacaagctgcagaacctcGtggtcaactactgctcagag	11	8	11	11	1	2	2	2	0	0	2	3	3	2	3	1	2	6	3	1	2	4	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	139697161	G	A	139697161	3	1	467	1	0	0	0	0	1	0	0	0	8266	1145	40	1	611	1	KIAA1984	9	139697161	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	8545463	139697161	1516270	60	24395											
USP6NL	9712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	11543102	11543102	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagctttagctactcacacTatacaggtcccttgtttctt	8	17	5	11	0	2	0	1	0	1	0	3	0	3	0	1	1	4	3	1	1	5	9	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	11543102	T	C	11543102	3	2	467	1	0	0	0	0	1	0	0	0	17086	1522	53	3	2140	3	USP6NL	10	11543102	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10		11543102	123991645	61	24396											
BMS1	9790	broad.mit.edu;hgsc.bcm.edu	37	chr10	43318590	43318590	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttaattctgccttggaaGtggccaaatttgaaggtgct	9	15	11	6	0	1	1	0	1	1	0	1	2	1	2	2	3	2	2	2	3	4	5	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	43318590	G	C	43318590	3	2	467	1	0	0	0	0	1	0	0	0	1472	1029	36	4	3231	4	BMS1	10	43318590	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	31775488	43318590	92216157	62	24397											
TMEM26	219623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	63212753	63212753	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgcggctccttcttcacCtcggtcactcgccagacccc	5	9	7	20	4	3	1	2	0	1	1	6	1	4	1	6	2	1	1	6	2	1	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	63212753	C	A	63212753	3	1	467	1	0	0	0	0	1	0	0	0	16150	680	24	4	1043	4	TMEM26	10	63212753	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	19894163	63212753	72321994	63	24398											
CCNJ	54619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97810064	97810064	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcagttaagtctcagaCggtattttgctgacttgatt	8	15	8	10	1	2	3	2	2	1	1	3	3	2	3	2	1	1	3	2	1	2	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	97810064	C	T	97810064	3	4	467	1	0	0	0	0	1	0	0	0	2928	527	19	1	127	1	CCNJ	10	97810064	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	34597311	97810064	37724683	64	24399											
MUC2	4583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	1092095	1092095	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctagagctgtgctgcctctGgtctgactggatcaatgagg	7	11	13	10	0	3	3	1	2	2	1	3	4	3	4	2	3	3	2	2	3	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	1092095	G	A	1092095	4	1	467	1	0	0	0	0	0	1	0	0	9975	1357	47	2	4032	2	MUC2	11	1092095	Nonsense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		1092095	133914421	65	24400											
SLC5A12	159963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	26695022	26695022	+	Frame_Shift_Del	DEL	A	A	-																															tcttagaccaaaagcaaaatAaattacaaactggtctaatt																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	26695022	A	-	26695022	7	5	467	1	0	1	0	1	0	0	0	0	14666	372	13	0	230	0	SLC5A12	11	26695022	Frame_Shift_Del	DEL	A	TCGA-CZ-5465-01A-01D-1806-10	25602927	26695022	108311494	66	24401											
SLC15A3	51296	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60711236	60711236	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagcacctggaagttggcGatgtcctcttgcggggaagc	8	8	14	11	2	1	0	0	0	1	0	2	3	2	2	3	4	3	2	3	4	2	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	60711236	G	A	60711236	2	1	467	1	0	0	0	0	0	0	0	1	14402	1048	37	1		1	SLC15A3	11	60711236	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	34016214	60711236	74295280	67	24402											
NRXN2	9379	broad.mit.edu;ucsc.edu	37	chr11	64453329	64453329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgcggaaggccagtgtgAtctcatcagtgctgctctgg	6	10	16	9	1	3	1	2	1	2	0	4	2	3	2	1	4	3	2	1	4	1	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	64453329	G	G	64453329	3	3	467	1	0	0	0	0	1	0	0	0	10666	333	12	3	4538	3	NRXN2	11	64453329	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	3742093	64453329	70553187	68	24403											
EFEMP2	30008	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65635794	65635794	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctggatgtagggctccaCgcagcggttggtgtccacgc	6	8	15	12	3	0	0	0	0	0	0	2	2	2	1	3	4	1	4	3	4	1	2	rs113167523	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	65635794	C	T	65635794	3	4	467	1	0	0	0	0	1	0	0	0	4942	536	19	1	397	1	EFEMP2	11	65635794	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	1182465	65635794	69370722	69	24404											
PITPNM1	9600	broad.mit.edu;ucsc.edu	37	chr11	67265791	67265791	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtggctgtaagggctcAggctgtaggagggggaaatg	9	8	18	6	1	1	0	1	0	0	0	2	2	1	2	0	6	0	5	0	6	3	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	67265791	C	C	67265791	3	2	467	1	0	0	0	0	1	0	0	0	11950	188	7	5	2303	5	PITPNM1	11	67265791	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	1629997	67265791	67740725	70	24405											
MLL	4297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118390456	118390456	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaagccagaggaggccaAtgaaccccccttgaaccctc	12	4	8	17	0	0	3	0	2	0	1	1	4	0	4	7	2	3	0	7	2	4	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	118390456	A	G	118390456	3	3	467	1	0	0	0	0	1	0	0	0	9620	101	4	3	11387	3	MLL	11	118390456	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10	51124665	118390456	16616060	71	24406											
CCND2	894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	4385304	4385304	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgtctgcatgttcctggcctCcaaactcaaagagaccagcc	10	9	8	14	0	2	1	1	0	1	1	4	2	4	1	5	1	3	2	5	1	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	4385304	C	G	4385304	3	3	467	1	0	0	0	0	1	0	0	0	2917	855	30	4	335	4	CCND2	12	4385304	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10		4385304	129466591	72	24407											
LRRK2	120892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	40689408	40689408	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaaagctggagcttcacCagaatgcactcacgagcttt	12	10	9	10	1	2	2	2	1	0	1	2	4	2	3	1	1	4	4	1	1	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	40689408	C	A	40689408	3	1	467	1	0	0	0	0	1	0	0	0	9033	595	21	4	3148	4	LRRK2	12	40689408	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	36304104	40689408	93162487	73	24408											
PRICKLE1	144165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	42853975	42853975	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttttattctgtataaatTtctcatagttatcgggggtg	9	18	8	6	1	2	0	1	0	2	0	4	0	2	0	0	2	0	2	0	2	6	8	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	42853975	T	G	42853975	3	3	467	1	0	0	0	0	1	0	0	0	12488	1841	64	5	367	5	PRICKLE1	12	42853975	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	2164567	42853975	90997920	74	24409											
LETMD1	25875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	51449970	51449970	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatacatgatatcttggctcTgagagagtgtttctctaacc	11	14	8	8	0	3	3	0	2	3	1	4	4	3	3	1	1	2	2	1	1	4	5	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	51449970	T	G	51449970	3	3	467	1	0	0	0	0	1	0	0	0	8736	1580	55	5	726	5	LETMD1	12	51449970	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	8595995	51449970	82401925	75	24410											
SP1	6667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53776832	53776832	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctacaggggtctgatgcTctgaacatccagcaaaacca	12	7	11	11	0	2	2	0	2	2	0	3	2	3	2	2	3	5	3	2	3	4	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	53776832	T	G	53776832	2	3	467	1	0	0	0	0	0	0	0	1	14961	1538	54	5		5	SP1	12	53776832	Silent	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	2326862	53776832	80075063	76	24411											
TMTC3	160418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	88560118	88560118	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatacaggtttgataaccCagctgctgtaagcccaactc	11	12	7	11	0	0	1	0	1	0	0	1	1	0	1	2	1	6	4	2	1	5	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	88560118	C	T	88560118	3	4	467	1	0	0	0	0	1	0	0	0	16261	594	21	2	831	2	TMTC3	12	88560118	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	34783286	88560118	45291777	77	24412											
TMTC3	160418	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	88584363	88584363	+	Frame_Shift_Del	DEL	G	G	-																															gctgtaccgtcaagcaataaGcatgaggcccgacttcaagc																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	88584363	G	-	88584363	7	5	467	1	0	1	0	1	0	0	0	0	16261	971	34	0	1712	0	TMTC3	12	88584363	Frame_Shift_Del	DEL	G	TCGA-CZ-5465-01A-01D-1806-10	24245	88584363	45267532	78	24413											
UHRF1BP1L	23074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	100452921	100452921	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacttattggccgtccttTtccacttttcatcccttcat	8	17	3	13	1	2	0	2	0	0	0	5	0	5	0	4	1	1	0	4	1	3	7	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	100452921	T	G	100452921	3	3	467	1	0	0	0	0	1	0	0	0	16968	1850	64	5	2292	5	UHRF1BP1L	12	100452921	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	11868558	100452921	33398974	79	24414											
LRRC43	254050	hgsc.bcm.edu	37	chr12	122685176	122685176	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagggaaggagaaagacaGgacggggaaaggagagaaag	20	0	19	2	1	0	3	0	0	0	3	0	10	0	7	0	6	0	0	0	6	5	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	122685176	G	A	122685176	3	1	467	1	0	0	0	0	1	0	0	0	9001	1000	35	2	1623	2	LRRC43	12	122685176	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	22232255	122685176	11166719	80	24415											
NALCN	259232	broad.mit.edu;hgsc.bcm.edu	37	chr13	101717877	101717877	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctcccacgcagtagccGcagcaggaacttgacgcgga	10	4	12	15	4	0	1	0	1	0	0	1	3	1	3	3	2	4	4	3	2	2	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	101717877	G	A	101717877	3	1	467	1	0	0	0	0	1	0	0	0	10148	1086	38	1	753	1	NALCN	13	101717877	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		101717877	13452001	81	24416											
IL25	64806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23842465	23842465	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccagcaaagggcaggaCacctctgaggagctgctgag	10	5	14	12	0	1	2	0	2	1	0	1	4	1	4	3	3	4	4	3	3	1	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	23842465	C	A	23842465	3	1	467	1	0	0	0	0	1	0	0	0	7678	477	17	4	153	4	IL25	14	23842465	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10		23842465	83507075	82	24417											
C14orf39	317761	broad.mit.edu	37	chr14	60938407	60938407	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgagtattttagttggTactgcttcaaaacttcttta	9	20	6	6	0	3	1	1	1	2	0	3	1	3	1	0	1	3	4	0	1	6	10	rs1956551	bycluster;alternate_allele	TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	60938407	A	A	60938407	3	1	467	1	0	0	0	0	1	0	0	0	1772	1638	57	5	1441	5	C14orf39	14	60938407	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	37095942	60938407	46411133	83	24418											
RHOJ	57381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	63735887	63735887	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtatgacaccgcgggacagGtacatttttattatcttgat	10	15	9	7	2	1	2	0	2	1	0	1	3	1	3	1	2	1	2	1	2	4	7	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	63735887	G	C	63735887	5	2	467	1	0	0	0	0	0	0	1	0	13343	1275	44	4	244	4	RHOJ	14	63735887	Splice_Site	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	2797480	63735887	43613653	84	24419											
MLH3	27030	hgsc.bcm.edu;ucsc.edu	37	chr14	75513395	75513396	+	Frame_Shift_Ins	INS	-	-	AT																															tctgttgttctgaggctctgINSataagaacatctgaatcttt																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		AT	75513396	-	AT	75513395	7	5	467	1	0	1	1	0	0	0	0	0	9618	1280	45	0	1445	0	MLH3	14	75513395	Frame_Shift_Ins	INS	-	TCGA-CZ-5465-01A-01D-1806-10	11777508	75513395	31836145	85	24420											
CCPG1	9236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	55669238	55669238	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcttcaacaatgacaacTtcttgatttccaatttcttc	10	17	3	11	0	4	2	1	2	3	0	6	2	5	2	1	0	2	1	1	0	4	7	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	55669238	T	G	55669238	3	3	467	1	0	0	0	0	1	0	0	0	2938	1606	56	5	1926	5	CCPG1	15	55669238	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10		55669238	46862154	86	24421											
AP3B2	8120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83349701	83349701	+	Frame_Shift_Del	DEL	T	T	-																															ggttacagagtttccggtagTttttgtgaatcaggtcgatg																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	83349701	T	-	83349701	7	5	467	1	0	1	0	1	0	0	0	0	745	1725	60	0	2593	0	AP3B2	15	83349701	Frame_Shift_Del	DEL	T	TCGA-CZ-5465-01A-01D-1806-10	27680463	83349701	19181691	87	24422											
RGMA	56963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	93616253	93616253	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcggcctgttaccactaGcctctccctggaagaagagt	9	9	10	13	1	1	2	0	0	1	2	3	3	1	3	4	2	3	2	4	2	4	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	93616253	G	C	93616253	3	2	467	1	0	0	0	0	1	0	0	0	13282	962	34	4	1342	4	RGMA	15	93616253	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	10266552	93616253	8915139	88	24423											
SEC14L5	9717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	5040871	5040871	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggagaagatcgccatgaAgcagtacaccgccaacgtca	13	6	10	12	3	1	3	1	1	0	2	2	4	1	3	3	1	3	2	3	1	4	2	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	5040871	A	G	5040871	3	3	467	1	0	0	0	0	1	0	0	0	13987	72	3	3	463	3	SEC14L5	16	5040871	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10		5040871	85313882	89	24424											
C16orf62	57020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	19641134	19641134	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggaatacacctgcaagCatttcacggtatgtgtgact	10	11	12	8	1	1	1	1	1	0	0	1	2	1	2	1	3	3	3	1	3	4	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	19641134	C	G	19641134	3	3	467	1	0	0	0	0	1	0	0	0	1825	710	25	4	1616	4	C16orf62	16	19641134	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	14600263	19641134	70713619	90	24425											
ATXN2L	11273	broad.mit.edu;ucsc.edu	37	chr16	28847500	28847500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagccgatgacaggattcgtGagttctcattagctggggga	9	10	15	7	2	1	2	1	2	1	0	3	6	1	4	1	3	2	2	1	3	1	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	28847500	A	A	28847500	3	1	467	1	0	0	0	0	1	0	0	0	1212	1291	45	2	3228	2	ATXN2L	16	28847500	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	9206366	28847500	61507253	91	24426											
DNAH2	146754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	7727491	7727491	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgttcatcctgtcccctgGtgtggaccccaccagtgccc	4	10	10	17	1	1	0	1	0	0	0	3	1	3	1	7	2	1	1	7	2	0	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	7727491	G	C	7727491	3	2	467	1	0	0	0	0	1	0	0	0	4602	1261	44	4	11829	4	DNAH2	17	7727491	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		7727491	73467719	92	24427											
MYO15A	51168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	18055188	18055188	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggaaagtgttcatgaagCggccagaccctcatgaggag	11	6	15	9	2	2	3	2	2	0	1	2	5	2	5	2	3	1	1	2	3	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	18055188	C	T	18055188	3	4	467	1	0	0	0	0	1	0	0	0	10063	759	27	1	7970	1	MYO15A	17	18055188	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	10327697	18055188	63140022	93	24428											
COASY	80347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	40715086	40715086	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgttgtccgcgactggcctCggtgctgctatactccgatt	4	13	11	13	4	0	0	0	0	0	0	3	2	2	0	3	2	3	3	3	2	2	4	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	40715086	C	T	40715086	3	4	467	1	0	0	0	0	1	0	0	0	3652	893	31	1	539	1	COASY	17	40715086	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	22659898	40715086	40480124	94	24429											
ADAM11	4185	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	42854119	42854119	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctctctccacagtgcccgCctaacctgcacaagctggac	8	7	7	19	1	1	0	0	0	1	0	3	1	2	1	5	1	4	2	5	1	2	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	42854119	C	G	42854119	3	3	467	1	0	0	0	0	1	0	0	0	235	739	26	4	1647	4	ADAM11	17	42854119	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	2139033	42854119	38341091	95	24430											
BRIP1	83990	broad.mit.edu;hgsc.bcm.edu	37	chr17	59820468	59820468	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctcactcactttaccaCgacaaactgctaccaggaga	13	7	6	15	1	2	1	2	0	0	1	2	4	2	1	3	1	4	1	3	1	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	59820468	C	T	59820468	3	4	467	1	0	0	0	0	1	0	0	0	1514	536	19	1	1484	1	BRIP1	17	59820468	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	16966349	59820468	21374742	96	24431											
SCN4A	6329	broad.mit.edu;hgsc.bcm.edu	37	chr17	62029159	62029159	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaacttgatgcgcccGatggcaatctgcaggttgtt	8	11	11	11	2	1	1	0	1	1	0	1	2	1	1	2	2	4	4	2	2	2	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	62029159	G	T	62029159	2	4	467	1	0	0	0	0	0	0	0	1	13922	1048	37	4		4	SCN4A	17	62029159	Silent	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	2208691	62029159	19166051	97	24432											
PTPRM	5797	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	7955120	7955120	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctggtttgtctttcagaAccacccgttcctattgcccc	5	16	6	14	1	3	1	1	0	2	1	4	1	4	1	5	1	2	2	5	1	2	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	7955120	A	T	7955120	3	4	467	1	0	0	0	0	1	0	0	0	12808	57	2	5	866	5	PTPRM	18	7955120	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10		7955120	70122128	98	24433											
ABCA7	10347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	1044699	1044699	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagctggcaggacgcacacGctgatgtggggcacctggtg	8	6	16	11	2	0	1	0	1	0	0	0	2	0	2	1	5	1	5	1	5	0	0	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	1044699	G	A	1044699	3	1	467	1	0	0	0	0	1	0	0	0	37	1087	38	1	1209	1	ABCA7	19	1044699	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		1044699	58084284	99	24434											
ZNF507	22847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	32843992	32843992	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgaaacccaagaacttTgtgagattccggctaaagta	13	11	8	9	1	1	3	0	2	1	2	2	4	2	3	2	1	2	2	2	1	6	5	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	32843992	T	A	32843992	3	1	467	1	0	0	0	0	1	0	0	0	17952	1812	63	5	258	5	ZNF507	19	32843992	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	31799293	32843992	26284991	100	24435											
ZNF132	7691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	58948571	58948571	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggacagctgagccacagggCcaagaagtatgctgacaaag	14	4	14	9	0	0	3	0	2	0	1	0	4	0	4	2	2	3	3	2	2	4	1	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	58948571	C	T	58948571	4	4	467	1	0	0	0	0	0	1	0	0	17721	740	26	2	2053	2	ZNF132	19	58948571	Nonsense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	26104579	58948571	180412	101	24436											
FERMT1	55612	broad.mit.edu;ucsc.edu	37	chr20	6069695	6069695	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatgtgtctttaaagataAaccaatattgtttgaaagct	14	15	8	4	0	1	2	0	1	1	1	1	3	1	3	1	1	2	2	1	1	7	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	6069695	C	C	6069695	3	2	467	1	0	0	0	0	1	0	0	0	5817	14	1	5	876	5	FERMT1	20	6069695	Missense_Mutation	SNP	A	TCGA-CZ-5465-01A-01D-1806-10		6069695	56955825	102	24437											
PLK1S1	55857	broad.mit.edu	37	chr20	21143043	21143043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggaacatattgaagttgagGaaaaaagagccagcccgcca	16	5	12	8	1	0	3	0	2	0	1	0	5	0	5	3	2	3	1	3	2	6	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	21143043	A	A	21143043	3	1	467	1	0	0	0	0	1	0	0	0	12095	1175	41	2	955	2	PLK1S1	20	21143043	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	15073348	21143043	41882477	103	24438											
TTC3	7267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	38539860	38539860	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgttttgcccacaggtaTcttggaacataatacaccaa	12	14	6	9	0	1	0	0	0	1	0	1	1	1	1	2	2	3	2	2	2	5	8	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		A	38539860	T	A	38539860	3	1	467	1	0	0	0	0	1	0	0	0	16696	1435	50	5	4535	5	TTC3	21	38539860	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10		38539860	9590035	104	24439											
MIOX	55586	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50927866	50927867	+	Frame_Shift_Ins	INS	-	-	C																															agtttaacaagttctcactgINSccccctgaggtaggtggggg																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	50927867	-	C	50927866	7	5	467	1	0	1	1	0	0	0	0	0	9590	1306	46	0	657	0	MIOX	22	50927866	Frame_Shift_Ins	INS	-	TCGA-CZ-5465-01A-01D-1806-10		50927866	376700	105	24440											
CSF2RA	1438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	1413322	1413322	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcagaagctgtcgtacctgGactttcagtaccagctggac	10	10	10	11	1	2	1	2	0	0	1	3	3	2	3	2	2	4	4	2	2	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	1413322	G	T	1413322	3	4	467	1	0	0	0	0	1	0	0	0	3934	1174	41	4	770	4	CSF2RA	23	1413322	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10		1413322	153857238	106	24441											
FAM47A	158724	broad.mit.edu	37	chrX	34148882	34148882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtcttgggaggctccgagCggagactggacgtccgacga	8	6	17	10	5	1	1	0	0	1	1	3	8	3	3	2	4	1	1	2	4	0	1	rs5973089	byfrequency;by1000genomes	TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		T	34148882	T	T	34148882	3	4	467	1	0	0	0	0	1	0	0	0	5569	768	27	1	865	1	FAM47A	23	34148882	Missense_Mutation	SNP	C	TCGA-CZ-5465-01A-01D-1806-10	32735560	34148882	121121678	107	24442											
KDM6A	7403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	44879876	44879878	+	In_Frame_Del	DEL	GGT	GGT	-																															gcaattaaagcatttcaggaGgtgctttatgttgatcccag																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		-	44879878	GGT	-	44879876	7	5	467	1	0	1	0	1	0	0	0	0	8137	991	35	0	487	0	KDM6A	23	44879876	In_Frame_Del	DEL	GGT	TCGA-CZ-5465-01A-01D-1806-10	10730994	44879876	110390684	108	24443											
PORCN	64840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48378842	48378842	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacttttggatgctggaTcttctaccgtctcataggct	6	15	10	10	1	4	0	2	0	3	0	5	2	4	2	1	4	2	2	1	4	2	5	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		G	48378842	T	G	48378842	3	3	467	1	0	0	0	0	1	0	0	0	12258	1435	50	5	1418	5	PORCN	23	48378842	Missense_Mutation	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	3498966	48378842	106891718	109	24444											
SHROOM4	57477	hgsc.bcm.edu	37	chrX	50350758	50350759	+	In_Frame_Ins	INS	-	-	TGCTGCTGCTGT																															cctcctcctcctgttgcttcINStgctgctgctgttgctgctt																								novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		TGCTGCTGCTGT	50350759	-	TGCTGCTGCTGT	50350758	7	5	467	1	0	1	1	0	0	0	0	0	14298	912	32	0	1113	0	SHROOM4	23	50350758	In_Frame_Ins	INS	-	TCGA-CZ-5465-01A-01D-1806-10	1971916	50350758	104919802	110	24445											
OPHN1	4983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	67413751	67413751	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctttggtctcaataatattGatgcacttcctgacaaactt	11	15	5	10	0	1	2	1	2	1	0	3	2	2	2	2	1	2	1	2	1	4	6	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	67413751	G	C	67413751	3	2	467	1	0	0	0	0	1	0	0	0	10875	1280	45	4	1270	4	OPHN1	23	67413751	Missense_Mutation	SNP	G	TCGA-CZ-5465-01A-01D-1806-10	17062993	67413751	87856809	111	24446											
TRMT2B	79979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	100297051	100297051	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcctgccaggaaccatcTagtggtccaagatggcttgg	8	11	11	11	0	1	1	0	0	1	1	3	2	3	2	4	4	2	1	4	4	3	3	novel		TCGA-CZ-5465-01A-01D-1806-10	TCGA-CZ-5465-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	062b7e63-bb4e-4eaa-9aa4-f2af44c2ab37	d0b450b6-994f-4b30-881c-bb9fa4fdc729		C	100297051	T	C	100297051	2	2	467	1	0	0	0	0	0	0	0	1	16565	1509	53	3		3	TRMT2B	23	100297051	Silent	SNP	T	TCGA-CZ-5465-01A-01D-1806-10	32883300	100297051	54973509	112	24447											
MFSD2A	84879	broad.mit.edu;ucsc.edu	37	chr1	40435189	40435189	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgcagggacgaggccagCagctctggctgctcagaaac	9	7	13	12	1	3	1	1	0	2	1	3	3	3	2	1	3	5	5	1	3	1	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	40435189	A	A	40435189	3	1	468	1	0	0	0	0	1	0	0	0	9530	709	25	4	1635	4	MFSD2A	1	40435189	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		40435189	208815432	1	24448											
CDC20	991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43825663	43825663	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagaacagactgaaagtaCtctacagccaaaaggccact	17	6	7	11	0	2	3	1	1	1	2	2	3	2	3	2	1	4	1	2	1	6	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	43825663	C	T	43825663	3	4	468	1	0	0	0	0	1	0	0	0	3059	565	20	2	465	2	CDC20	1	43825663	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	3390474	43825663	205424958	2	24449											
PRKACB	5567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	84679863	84679863	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatcccacttcagttcaGatctcaaggaccttctacgg	9	11	6	15	1	4	1	3	0	2	1	7	2	6	2	3	2	1	1	3	2	2	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	84679863	G	T	84679863	3	4	468	1	0	0	0	0	1	0	0	0	12500	942	33	4	1031	4	PRKACB	1	84679863	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	40854200	84679863	164570758	3	24450											
SLC35A3	23443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	100472612	100472612	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgtatcagttaaaaattcTtacaacagcattattttctg	14	15	4	8	1	3	0	1	0	2	0	3	0	3	0	0	0	3	3	0	0	7	7	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	100472612	T	C	100472612	3	2	468	1	0	0	0	0	1	0	0	0	14574	1609	56	3	375	3	SLC35A3	1	100472612	Missense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	15792749	100472612	148778009	4	24451											
HRNR	388697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	152191542	152191542	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctagagtcatgttggcCggagcttgatgactgccctg	7	11	14	9	1	1	4	1	3	0	1	1	5	1	5	2	2	3	3	2	2	1	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	152191542	C	T	152191542	3	4	468	1	0	0	0	0	1	0	0	0	7359	652	23	1	5993	1	HRNR	1	152191542	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	51718930	152191542	97059079	5	24452											
KIF14	9928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200587085	200587085	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccttcccaatacttctaTgatacaagtttcctgttccc	8	17	3	13	0	1	1	0	1	1	0	5	1	5	1	4	0	2	2	4	0	5	8	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	200587085	T	C	200587085	3	2	468	1	0	0	0	0	1	0	0	0	8276	1464	51	3	4295	3	KIF14	1	200587085	Missense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	48395543	200587085	48663536	6	24453											
KDM5B	10765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202733213	202733213	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggacaacccattcgacGtctcagattatgagttctgg	10	12	10	9	2	2	2	1	1	2	1	4	4	2	3	1	2	1	2	1	2	2	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	202733213	G	A	202733213	3	1	468	1	0	0	0	0	1	0	0	0	8134	1145	40	1	3950	1	KDM5B	1	202733213	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	2146128	202733213	46517408	7	24454											
NUAK2	81788	broad.mit.edu;ucsc.edu	37	chr1	205290624	205290624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgcaggttgtgcttgtGgtggtgccgcttcaccgcct	2	12	15	12	3	1	0	1	0	0	0	1	0	1	0	4	3	3	4	4	3	0	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	205290624	A	A	205290624	3	1	468	1	0	0	0	0	1	0	0	0	10713	1348	47	2	1781	2	NUAK2	1	205290624	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	2557411	205290624	43959997	8	24455											
OR11L1	391189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	248004727	248004727	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatcatcagggaaggcaGaaagcctgtgctgacccctg	12	6	13	10	0	2	2	2	1	0	1	2	4	2	4	3	3	2	2	3	3	3	0	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	248004727	G	T	248004727	3	4	468	1	0	0	0	0	1	0	0	0	10930	933	33	4	500	4	OR11L1	1	248004727	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	42714103	248004727	1245894	9	24456											
RANBP2	5903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109381095	109381095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgctcattaaagaatgcttCaactgctaagaaatgtgtat	14	13	7	7	0	2	2	2	0	0	2	2	2	2	2	0	0	4	4	0	0	7	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	109381095	C	T	109381095	3	4	468	1	0	0	0	0	1	0	0	0	13030	838	29	2	4178	2	RANBP2	2	109381095	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		109381095	133818278	10	24457											
RANBP2	5903	broad.mit.edu	37	chr2	109383602	109383602	+	Missense_Mutation	SNP	G	A	A																															ataagggttcaggtacaggtGcggccggtgcctcagacaca																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	109383602	A	A	109383602	3	1	468	1	0	0	0	0	1	0	0	0	13030	1319	46	2	6685	2	RANBP2	2	109383602	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	2507	109383602	133815771	11	24458	349	3									
RANBP2	5903	broad.mit.edu	37	chr2	109383603	109383603	+	Missense_Mutation	SNP	C	T	T																															taagggttcaggtacaggtgCggccggtgcctcagacacaa																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	109383603	T	T	109383603	3	4	468	1	0	0	0	0	1	0	0	0	13030	768	27	1	6686	1	RANBP2	2	109383603	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	1	109383603	133815770	12	24459	349	3									
RANBP2	5903	broad.mit.edu	37	chr2	109383605	109383605	+	Missense_Mutation	SNP	G	A	A																															agggttcaggtacaggtgcgGccggtgcctcagacacaaca																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	109383605	A	A	109383605	3	1	468	1	0	0	0	0	1	0	0	0	13030	1203	42	2	6688	2	RANBP2	2	109383605	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	2	109383605	133815768	13	24460	349	3									
ARL6IP6	151188	hgsc.bcm.edu;ucsc.edu	37	chr2	153591619	153591620	+	Frame_Shift_Del	DEL	CT	CT	-																															aggaatgtttcctcctactcCtctttcacctgccaggttca																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		-	153591620	CT	-	153591619	7	5	468	1	0	1	0	1	0	0	0	0	945	681	24	0	576	0	ARL6IP6	2	153591619	Frame_Shift_Del	DEL	CT	TCGA-CZ-5466-01A-01D-1501-10	44208014	153591619	89607754	14	24461											
CAV3	859	broad.mit.edu;ucsc.edu	37	chr3	8787538	8787538	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcatcaaggtggtgctGcggaaggaggtctaaagcca	12	6	15	8	1	2	0	1	0	1	0	2	2	2	2	1	5	5	3	1	5	4	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	8787538	A	A	8787538	2	1	468	1	0	0	0	0	0	0	0	1	2695	1306	46	2		2	CAV3	3	8787538	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		8787538	189234892	15	24462											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52643533	52643533	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcctgatgactcatgactGacacaaaaagattgtggata	15	10	8	8	0	1	5	1	4	0	1	2	6	2	6	1	1	0	0	1	1	3	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	52643533	G	T	52643533	4	4	468	1	0	0	0	0	0	1	0	0	11491	1294	45	4	2597	4	PBRM1	3	52643533	Nonsense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	43855995	52643533	145378897	16	24463											
PDGFRA	5156	broad.mit.edu;ucsc.edu	37	chr4	55155210	55155210	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaaatgctggaacagtgagCcggagaagagaccctccttt	12	8	12	9	1	0	4	0	2	0	2	1	7	1	5	3	2	3	1	3	2	3	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	55155210	G	G	55155210	3	3	468	1	0	0	0	0	1	0	0	0	11661	739	26	4	2887	4	PDGFRA	4	55155210	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		55155210	135999066	17	24464											
CCDC158	339965	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	77292666	77292666	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctctgagttggcaaggacTaactgcttttccagctcttc	8	13	9	11	0	2	1	0	1	2	0	4	2	3	2	1	2	4	5	1	2	2	5	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	77292666	T	G	77292666	3	3	468	1	0	0	0	0	1	0	0	0	2790	1519	53	5	2352	5	CCDC158	4	77292666	Missense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	22137456	77292666	113861610	18	24465											
SLC9A3	6550	broad.mit.edu;ucsc.edu	37	chr5	475720	475720	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtgacactagccaggAactcgatccccccactcatc	9	8	7	17	1	1	1	1	1	0	0	4	3	2	2	5	2	2	0	5	2	2	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	475720	T	T	475720	3	4	468	1	0	0	0	0	1	0	0	0	14715	246	9	5	309	5	SLC9A3	5	475720	Missense_Mutation	SNP	A	TCGA-CZ-5466-01A-01D-1501-10		475720	180439540	19	24466											
APC	324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112178912	112178912	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtccttctagacttccaAtcaataggtcaggaacctgg	13	10	8	10	0	3	1	2	0	1	1	5	2	5	2	3	3	1	0	3	3	6	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	112178912	A	G	112178912	3	3	468	1	0	0	0	0	1	0	0	0	763	101	4	3	7679	3	APC	5	112178912	Missense_Mutation	SNP	A	TCGA-CZ-5466-01A-01D-1501-10	111703192	112178912	68736348	20	24467											
APBB3	10307	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139942267	139942267	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttagcccctggctccatgCtctggatgtaggattcccca	6	11	9	15	0	1	0	0	0	1	0	3	2	3	2	6	3	2	3	6	3	2	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	139942267	C	T	139942267	3	4	468	1	0	0	0	0	1	0	0	0	762	797	28	2	1185	2	APBB3	5	139942267	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	27763355	139942267	40972993	21	24468											
PCDHB1	29930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140432455	140432455	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcgagaaaacaacagtcCtgcggtttttattggcaaag	12	12	10	7	2	0	1	0	0	0	1	2	2	1	1	1	2	3	3	1	2	5	5	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	140432455	C	T	140432455	3	4	468	1	0	0	0	0	1	0	0	0	11534	681	24	2	1402	2	PCDHB1	5	140432455	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	490188	140432455	40482805	22	24469											
DOCK2	1794	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	169474616	169474616	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggattcccctccttcctgCgggtgagtttgggggtgact	4	12	15	10	1	0	2	0	2	0	0	3	3	3	3	4	4	1	1	4	4	0	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	169474616	C	T	169474616	3	4	468	1	0	0	0	0	1	0	0	0	4687	759	27	1	4227	1	DOCK2	5	169474616	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	29042161	169474616	11440644	23	24470											
DBN1	1627	broad.mit.edu;ucsc.edu	37	chr5	176894265	176894265	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttccataccttggcctgCtcccagaactgctctcggtt	5	12	10	14	1	1	1	0	0	1	1	4	1	3	1	4	3	4	4	4	3	2	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	176894265	A	A	176894265	3	1	468	1	0	0	0	0	1	0	0	0	4252	796	28	4	1439	4	DBN1	5	176894265	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	7419649	176894265	4020995	24	24471											
SLC22A7	10864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43272449	43272449	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaagagatgcccatgaagCaggtccagaactaagtggga	15	5	14	7	0	0	3	0	1	0	2	1	6	1	5	2	3	3	1	2	3	4	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	43272449	C	T	43272449	4	4	468	1	0	0	0	0	0	1	0	0	14461	711	25	2	1671	2	SLC22A7	6	43272449	Nonsense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		43272449	127842618	25	24472											
KIAA1009	22832	hgsc.bcm.edu	37	chr6	84896316	84896316	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agagctaaaaaattcagtttCttttctttcggccactttct	10	17	5	9	1	4	1	1	0	3	1	5	1	4	1	1	1	1	2	1	1	3	7	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	84896316	C	T	84896316	3	4	468	1	0	0	0	0	1	0	0	0	8203	922	32	2	3140	2	KIAA1009	6	84896316	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	41623867	84896316	86218751	26	24473											
MDN1	23195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	90358035	90358035	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catttccaatcacagccaaaGattcaaatgcaagctgtgaa	16	9	6	10	0	2	2	2	1	0	1	3	2	3	2	2	0	3	2	2	0	5	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	90358035	G	C	90358035	3	2	468	1	0	0	0	0	1	0	0	0	9415	942	33	4	590	4	MDN1	6	90358035	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	5461719	90358035	80757032	27	24474											
ZUFSP	221302	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	116981933	116981933	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttccaaatgcaagtcAacatgttcctgaagaatatg	13	14	6	8	0	2	2	1	1	1	1	4	2	4	2	2	0	2	2	2	0	6	5	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	116981933	A	C	116981933	2	2	468	1	0	0	0	0	0	0	0	1	18245	117	5	5		5	ZUFSP	6	116981933	Silent	SNP	A	TCGA-CZ-5466-01A-01D-1501-10	26623898	116981933	54133134	28	24475											
TNFAIP3	7128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	138201233	138201233	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgctgcctcagggaaagtCagtcccacagcgtccaggtt	8	8	12	13	1	2	0	2	0	0	0	4	1	4	1	3	2	3	3	3	2	1	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	138201233	C	T	138201233	2	4	468	1	0	0	0	0	0	0	0	1	16273	813	29	2		2	TNFAIP3	6	138201233	Silent	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	21219300	138201233	32913834	29	24476											
SUN1	23353	broad.mit.edu;ucsc.edu	37	chr7	905604	905604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaggtggcagcatcttgaGtactcgctgttctgaaactt	9	14	10	8	1	2	2	0	2	2	0	3	2	2	2	0	2	3	5	0	2	3	5	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	905604	T	T	905604	3	4	468	1	0	0	0	0	1	0	0	0	15390	1029	36	4	2125	4	SUN1	7	905604	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		905604	158233059	30	24477											
RABGEF1	27342	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	66260561	66260561	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaatgtggccgaaaggAtgcaaactcgtgggaaaggt	14	6	13	8	2	0	0	0	0	0	0	1	3	0	2	2	4	2	1	2	4	4	0	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	66260561	A	T	66260561	3	4	468	1	0	0	0	0	1	0	0	0	12968	333	12	5	591	5	RABGEF1	7	66260561	Missense_Mutation	SNP	A	TCGA-CZ-5466-01A-01D-1501-10	65354957	66260561	92878102	31	24478											
AHCYL2	23382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	129045730	129045730	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagcaagtggtagtctgtgGctatggagaggtgaagttta	12	11	15	3	0	1	2	0	1	1	1	1	3	1	2	0	4	1	4	0	4	6	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	129045730	G	A	129045730	3	1	468	1	0	0	0	0	1	0	0	0	411	1203	42	2	1352	2	AHCYL2	7	129045730	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	62785169	129045730	30092933	32	24479											
RECK	8434	hgsc.bcm.edu;ucsc.edu	37	chr9	36091316	36091317	+	Frame_Shift_Ins	INS	-	-	T																															ttgggctgtagaaaccttacINSttactgtactaattttaaca																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	36091317	-	T	36091316	7	5	468	1	0	1	1	0	0	0	0	0	13202	565	20	0	1099	0	RECK	9	36091316	Frame_Shift_Ins	INS	-	TCGA-CZ-5466-01A-01D-1501-10		36091316	105122115	33	24480											
C11orf41	0	broad.mit.edu;ucsc.edu	37	chr11	33628343	33628343	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcggacaggagccaggAgtcatcggcagtcctcaacg	10	5	12	14	3	2	0	2	0	0	0	5	3	3	3	3	4	2	1	3	4	1	0	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	33628343	G	G	33628343	3	3	468	1	0	0	0	0	1	0	0	0	1640	304	11	3	4213	3	C11orf41	11	33628343	Missense_Mutation	SNP	A	TCGA-CZ-5466-01A-01D-1501-10		33628343	101378173	34	24481											
AGBL2	79841	broad.mit.edu;ucsc.edu	37	chr11	47713657	47713657	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaaattgttactcacacTctgacagctttttgcagatt	11	15	7	8	0	2	3	1	2	1	2	2	4	2	3	0	0	3	3	0	0	2	5	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	47713657	C	C	47713657	2	2	468	1	0	0	0	0	0	0	0	1	376	1548	54	3		3	AGBL2	11	47713657	Silent	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	14085314	47713657	87292859	35	24482											
SLC22A9	114571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	63175623	63175623	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttttggcaacactgggctTaggagcgtctgctcttgcca	6	12	13	10	1	2	0	0	0	2	0	2	1	2	1	1	4	4	4	1	4	2	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	63175623	T	A	63175623	4	1	468	1	0	0	0	0	0	1	0	0	14463	1764	61	5	1358	5	SLC22A9	11	63175623	Nonsense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	15461966	63175623	71830893	36	24483											
TMEM25	84866	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	118404209	118404209	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttgcactgggcaccctcGtggggttcagcaccttggtg	4	10	15	12	1	1	0	1	0	0	0	2	0	1	0	2	5	2	5	2	5	0	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	118404209	G	T	118404209	3	4	468	1	0	0	0	0	1	0	0	0	16149	1145	40	4	762	4	TMEM25	11	118404209	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	55228586	118404209	16602307	37	24484											
HSPA8	3312	broad.mit.edu	37	chr11	122930276	122930276	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctgaatcttggggataCgagtagaaccaccaaccagg	12	8	11	10	1	2	2	0	1	2	1	2	4	2	3	3	3	3	2	3	3	5	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	122930276	G	G	122930276	3	3	468	1	0	0	0	0	1	0	0	0	7416	536	19	4	935	4	HSPA8	11	122930276	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	4526067	122930276	12076240	38	24485											
ZBTB44	29068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	130131008	130131008	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgggccaggtaattctAaagtccgggtattttctgct	9	13	11	8	1	2	1	0	0	2	1	3	1	3	1	2	3	1	3	2	3	4	6	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	130131008	A	T	130131008	4	4	468	1	0	0	0	0	0	1	0	0	17544	372	13	5	620	5	ZBTB44	11	130131008	Nonsense_Mutation	SNP	A	TCGA-CZ-5466-01A-01D-1501-10	7200732	130131008	4875508	39	24486											
CLSTN3	9746	broad.mit.edu;ucsc.edu	37	chr12	7295478	7295478	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctaggagaccctttgtcGatccaccactacttccatgg	9	10	7	15	1	0	1	0	0	0	1	3	3	2	1	5	2	1	0	5	2	2	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	7295478	T	T	7295478	2	4	468	1	0	0	0	0	0	0	0	1	3563	1045	37	4		4	CLSTN3	12	7295478	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		7295478	126556417	40	24487											
DNM1L	10059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	32886681	32886681	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggcaattgaactggcttaTatcaacacaaaacatccaga	16	9	7	9	0	1	2	1	1	0	1	2	2	2	2	1	2	3	2	1	2	7	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	32886681	T	C	32886681	2	2	468	1	0	0	0	0	0	0	0	1	4671	1413	49	3		3	DNM1L	12	32886681	Silent	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	25591203	32886681	100965214	41	24488											
SLC4A8	9498	broad.mit.edu;ucsc.edu	37	chr12	51897852	51897852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaattgggggagacaagtttCccttagagagcaggaagtta	14	9	13	5	0	0	2	0	0	0	2	1	5	1	3	1	3	1	3	1	3	5	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	51897852	A	A	51897852	3	1	468	1	0	0	0	0	1	0	0	0	14661	855	30	4	3265	4	SLC4A8	12	51897852	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	19011171	51897852	81954043	42	24489											
MFSD5	84975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53647588	53647588	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttgctgtgctcatcgtcgtCttctctctcttcatgttgac	3	18	7	13	2	5	1	2	1	3	0	9	1	5	1	0	0	2	3	0	0	0	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	53647588	C	G	53647588	2	3	468	1	0	0	0	0	0	0	0	1	9534	900	32	4		4	MFSD5	12	53647588	Silent	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	1749736	53647588	80204307	43	24490											
METTL7B	196410	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56076036	56076036	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccggagagtactgagaccGgtaagcagggtgggaagggg	10	5	20	6	2	0	2	0	1	0	2	1	5	1	3	2	6	2	3	2	6	3	2	rs144071589		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	56076036	G	A	56076036	2	1	468	1	0	0	0	0	0	0	0	1	9506	1130	39	1		1	METTL7B	12	56076036	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	2428448	56076036	77775859	44	24491											
ITGA7	3679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56096858	56096858	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggtcgatgtccactctgTagcagtcagtctcctccagg	6	11	10	14	1	3	0	1	0	2	0	7	1	5	0	4	2	1	2	4	2	1	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	56096858	T	C	56096858	3	2	468	1	0	0	0	0	1	0	0	0	7881	1638	57	3	3376	3	ITGA7	12	56096858	Missense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	20822	56096858	77755037	45	24492											
AVIL	10677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58201174	58201174	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tggcgtggctccgttcccatCctgactcgaacctgcacagc	6	9	10	16	3	0	1	0	1	0	0	4	2	3	1	4	2	3	3	4	2	1	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	58201174	C	G	58201174	3	3	468	1	0	0	0	0	1	0	0	0	1227	854	30	4	1060	4	AVIL	12	58201174	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	2104316	58201174	75650721	46	24493											
DIS3	22894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	73347935	73347935	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagggattctcttatcagCaggtgtaaagagatgtcttc	10	13	11	7	1	3	1	1	0	2	1	6	4	3	2	0	2	1	2	0	2	3	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	73347935	C	G	73347935	3	3	468	1	0	0	0	0	1	0	0	0	4535	710	25	4	1806	4	DIS3	13	73347935	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		73347935	41821943	47	24494											
SAMD4A	23034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55203899	55203899	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccgatcatgcccccctGtctccacaaagcagtgtagc	9	8	7	17	1	2	0	1	0	1	0	4	1	3	0	6	0	3	2	6	0	2	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	55203899	G	A	55203899	2	1	468	1	0	0	0	0	0	0	0	1	13823	1364	48	2		2	SAMD4A	14	55203899	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		55203899	52145641	48	24495											
DDX24	57062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94519372	94519372	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtcttcttccagctcaatCtccagggcagctgctgcctg	6	12	9	14	0	4	0	1	0	3	0	6	0	5	0	3	1	4	4	3	1	1	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	94519372	C	T	94519372	2	4	468	1	0	0	0	0	0	0	0	1	4351	912	32	2		2	DDX24	14	94519372	Silent	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	39315473	94519372	12830168	49	24496											
MKRN3	7681	broad.mit.edu;ucsc.edu	37	chr15	23811842	23811842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactctcgtttgctgtgcagCgtggtatggacaaggtgtgt	7	13	14	7	2	1	0	0	0	1	0	2	1	1	1	0	3	4	4	0	3	3	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	23811842	T	T	23811842	3	4	468	1	0	0	0	0	1	0	0	0	9608	768	27	1	915	1	MKRN3	15	23811842	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		23811842	78719550	50	24497											
PRTG	283659	hgsc.bcm.edu;ucsc.edu	37	chr15	55931919	55931919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagttaatgatttgtgcagCggtgaatgcaggcctcctcc	8	12	12	9	1	0	2	0	2	0	0	2	2	2	2	3	2	3	4	3	2	3	3	rs144541725	by1000genomes	TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	55931919	C	T	55931919	3	4	468	1	0	0	0	0	1	0	0	0	12640	768	27	1	1239	1	PRTG	15	55931919	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	32120077	55931919	46599473	51	24498											
CCNB2	9133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	59408907	59408907	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttcagccagtttcccggAagaagcttcaattagttggg	10	11	12	8	1	2	1	2	0	0	1	3	2	3	2	2	3	2	4	2	3	4	5	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	59408907	A	T	59408907	4	4	468	1	0	0	0	0	0	1	0	0	2913	247	9	5	638	5	CCNB2	15	59408907	Nonsense_Mutation	SNP	A	TCGA-CZ-5466-01A-01D-1501-10	3476988	59408907	43122485	52	24499											
ZNF609	23060	broad.mit.edu;ucsc.edu	37	chr15	64967175	64967175	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaagcccattcagcccaagCccactgttatgggagaacct	11	8	8	14	0	2	1	2	0	0	1	2	2	2	1	4	1	4	1	4	1	4	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	64967175	G	G	64967175	3	3	468	1	0	0	0	0	1	0	0	0	18034	739	26	4	2136	4	ZNF609	15	64967175	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	5558268	64967175	37564217	53	24500											
NOMO2	283820	broad.mit.edu	37	chr16	18573208	18573208	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gggcgctcacctcgatgagcGagtagttgatctccacgtcc	7	9	12	13	4	2	2	1	2	1	0	5	4	3	2	3	1	1	3	3	1	1	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	18573208	C	C	18573208	3	2	468	1	0	0	0	0	1	0	0	0	10532	1059	37	4	3780	4	NOMO2	16	18573208	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		18573208	71781545	54	24501											
KIF1C	10749	broad.mit.edu	37	chr17	4924146	4924146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaaagaaaaggaagaagcCgatcttctgctggagcagca	15	5	13	8	2	2	2	0	0	2	2	2	6	2	5	1	3	4	3	1	3	5	1	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	4924146	T	T	4924146	2	4	468	1	0	0	0	0	0	0	0	1	8285	639	23	1		1	KIF1C	17	4924146	Silent	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		4924146	76271064	55	24502											
ABCA6	23460	broad.mit.edu	37	chr17	67124895	67124895	+	Silent	SNP	G	T	T																															aggagaaacacaaccaaattGgtgaggacagctttctttaa																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	67124895	T	T	67124895	2	4	468	1	0	0	0	0	0	0	0	1	36	1335	47	4		4	ABCA6	17	67124895	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	62200749	67124895	14070315	56	24503	350	2									
ABCA6	23460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	67124896	67124896	+	Missense_Mutation	SNP	G	G	T																															ggagaaacacaaccaaattgGtgaggacagctttctttaac																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	67124896	G	T	67124896	3	4	468	1	0	0	0	0	1	0	0	0	36	1261	44	4	3998	4	ABCA6	17	67124896	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	1	67124896	14070314	57	24504	350	2									
DSEL	92126	broad.mit.edu;ucsc.edu	37	chr18	65180323	65180323	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agggcttattacactggcttGagggtgatggagcaaacacc	11	9	13	8	0	0	2	0	2	0	0	0	3	0	3	1	4	3	3	1	4	3	3	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	65180323	C	C	65180323	4	2	468	1	0	0	0	0	0	1	0	0	4775	1294	45	4	2119	4	DSEL	18	65180323	Nonsense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		65180323	12896925	58	24505											
ZNF426	79088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	9643586	9643586	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accaagagattagactgggtTtgatgatctgacctcctgag	11	11	11	8	0	1	6	0	4	1	2	2	7	2	6	3	1	0	1	3	1	2	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	9643586	T	G	9643586	3	3	468	1	0	0	0	0	1	0	0	0	17899	1841	64	5	1416	5	ZNF426	19	9643586	Missense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10		9643586	49485397	59	24506											
ZFP112	7771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44840845	44840845	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctctccagctgggataTtaggtctggcttgaagggct	6	14	12	9	0	3	1	0	1	3	0	5	2	3	2	1	4	1	3	1	4	3	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		G	44840845	T	G	44840845	3	3	468	1	0	0	0	0	1	0	0	0	17637	1493	52	5	2580	5	ZFP112	19	44840845	Missense_Mutation	SNP	T	TCGA-CZ-5466-01A-01D-1501-10	35197259	44840845	14288138	60	24507											
SLC24A3	57419	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	19665938	19665938	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatgaaaatgaggacaatgaGaatgatgaggaggaagagga	20	5	15	1	0	0	6	0	5	0	2	0	11	0	10	0	4	0	0	0	4	6	0	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		C	19665938	G	C	19665938	3	2	468	1	0	0	0	0	1	0	0	0	14469	933	33	4	1303	4	SLC24A3	20	19665938	Missense_Mutation	SNP	G	TCGA-CZ-5466-01A-01D-1501-10		19665938	43359582	61	24508											
YWHAB	7529	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	43533772	43533772	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtagcctggcaaaaacGgtgagaaagaccctttgtga	12	8	12	9	1	0	3	0	2	0	2	0	4	0	3	3	2	2	2	3	2	4	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	43533772	G	A	43533772	2	1	468	1	0	0	0	0	0	0	0	1	17500	1130	39	1		1	YWHAB	20	43533772	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	23867834	43533772	19491748	62	24509											
PRIC285	0	broad.mit.edu	37	chr20	62192230	62192230	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagacccaggttttgcagcCgctcattcttgaccacaggc	8	9	9	15	1	2	2	1	1	1	1	2	2	2	2	4	2	2	3	4	2	0	4	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	62192230	A	A	62192230	3	1	468	1	0	0	0	0	1	0	0	0	12487	652	23	4	770	4	PRIC285	20	62192230	Missense_Mutation	SNP	C	TCGA-CZ-5466-01A-01D-1501-10	18658458	62192230	833290	63	24510											
CABIN1	23523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24456572	24456572	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccagcctgcccaacccgCtgctgagggactgcagcaac	9	4	11	17	1	0	1	0	1	0	0	0	2	0	2	4	1	7	5	4	1	2	0	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	24456572	C	T	24456572	2	4	468	1	0	0	0	0	0	0	0	1	2528	796	28	2		2	CABIN1	22	24456572	Silent	SNP	C	TCGA-CZ-5466-01A-01D-1501-10		24456572	26847994	64	24511											
C22orf30	0	hgsc.bcm.edu;ucsc.edu	37	chr22	32109361	32109361	+	Frame_Shift_Del	DEL	A	A	-																															gctttccgaggggcaccaagAaggcaaggacttgtgcatga																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		-	32109361	A	-	32109361	7	5	468	1	0	1	0	1	0	0	0	0	2142	233	9	0	2015	0	C22orf30	22	32109361	Frame_Shift_Del	DEL	A	TCGA-CZ-5466-01A-01D-1501-10	7652789	32109361	19195205	65	24512											
APOBEC3B	9582	broad.mit.edu;hgsc.bcm.edu	37	chr22	39380188	39380188	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctatgaagtgaaaataaaGaggggccgctcaaatctcct	14	9	10	8	1	2	3	1	2	1	1	3	3	2	3	2	2	1	2	2	2	7	2	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		A	39380188	G	A	39380188	2	1	468	1	0	0	0	0	0	0	0	1	790	933	33	2		2	APOBEC3B	22	39380188	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	7270827	39380188	11924378	66	24513											
STAG2	10735	hgsc.bcm.edu;ucsc.edu	37	chrX	123195628	123195629	+	Frame_Shift_Del	DEL	AG	AG	-																															tttttttttttagcactaacAgataggcaagagagtgctct																								novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	AG	AG	AG	-	AG	AG	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		-	123195629	AG	-	123195628	7	5	468	1	0	1	0	1	0	0	0	0	15244	175	7	0	1600	0	STAG2	23	123195628	Frame_Shift_Del	DEL	AG	TCGA-CZ-5466-01A-01D-1501-10		123195628	32074932	67	24514											
SLC25A14	9016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	129483276	129483276	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatggcaccattaaaattggGatttaccaaagcttgaagcg	14	11	9	7	1	0	1	0	1	0	0	0	2	0	2	2	2	3	2	2	2	6	6	novel		TCGA-CZ-5466-01A-01D-1501-10	TCGA-CZ-5466-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a486ba5e-9159-4b88-9c08-1db2d861ae5a	fd4d5274-674a-4cc7-acc9-355d73b1382f		T	129483276	G	T	129483276	2	4	468	1	0	0	0	0	0	0	0	1	14478	1161	41	4		4	SLC25A14	23	129483276	Silent	SNP	G	TCGA-CZ-5466-01A-01D-1501-10	6287648	129483276	25787284	68	24515											
VHL	7428	hgsc.bcm.edu	37	chr3	10183781	10183782	+	Frame_Shift_Ins	INS	-	-	T																															caatcgcagtccgcgcgtcgINStgctgcccgtatggctcaac																								novel		TCGA-CZ-5466-01A-01W-1528-10	TCGA-CZ-5466-11A-01W-1529-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina MiSeq	fa54a534-2a32-474c-8f7b-e38400f0e17b	8f2f6551-1769-408d-8c13-50f6d6ff45d5		T	10183782	-	T	10183781	7	5	469	1	0	1	1	0	0	0	0	0	17161	1145	40	0	252	0	VHL	3	10183781	Frame_Shift_Ins	INS	-	TCGA-CZ-5466-01A-01W-1528-10		10183781	187838649	1	24516											
KIAA1751	85452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1920343	1920343	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacctgctgtgtcccgggTccacgtcatcctcagcttcc	4	12	9	16	2	2	0	2	0	0	0	6	0	6	0	5	1	3	3	5	1	1	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	1920343	T	A	1920343	3	1	470	1	0	0	0	0	1	0	0	0	8256	1667	58	5	2215	5	KIAA1751	1	1920343	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10		1920343	247330278	1	24517											
CLCN6	1185	broad.mit.edu;ucsc.edu	37	chr1	11894635	11894635	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggaatgggagacagaggTggaaatggacaagtaaggcc	14	6	16	5	0	1	2	0	0	1	2	1	6	1	5	1	6	0	1	1	6	4	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	11894635	G	G	11894635	3	3	470	1	0	0	0	0	1	0	0	0	3467	1696	59	5	1857	5	CLCN6	1	11894635	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	9974292	11894635	237355986	2	24518											
DOCK7	85440	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	62961314	62961314	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcattttcacagtatcAgaaagaatcatatggagatt	14	14	6	7	0	4	3	4	0	0	3	5	4	5	3	1	1	0	1	1	1	4	6	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	62961314	A	T	62961314	2	4	470	1	0	0	0	0	0	0	0	1	4692	175	7	5		5	DOCK7	1	62961314	Silent	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	51066679	62961314	186289307	3	24519											
TMEM167B	56900	broad.mit.edu;hgsc.bcm.edu	37	chr1	109635584	109635584	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctacttcaagaaagtacCtcgtctcaaaacctggctgc	11	10	7	13	1	2	1	2	0	1	1	4	1	2	1	3	1	5	2	3	1	6	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	109635584	C	G	109635584	3	3	470	1	0	0	0	0	1	0	0	0	16081	681	24	4	89	4	TMEM167B	1	109635584	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	46674270	109635584	139615037	4	24520											
C1orf25	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	185108635	185108635	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatatctgtagaagtcactgAcactatgccaaggtttctta	12	13	8	8	0	3	2	1	1	2	1	3	3	3	2	1	1	1	2	1	1	6	5	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		C	185108635	A	C	185108635	3	2	470	1	0	0	0	0	1	0	0	0	2034	275	10	5	1043	5	C1orf25	1	185108635	Missense_Mutation	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	75473051	185108635	64141986	5	24521											
SIPA1L2	57568	broad.mit.edu;ucsc.edu	37	chr1	232607212	232607212	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttggagtaaaaggaagTgccccaggctcctggaagac	11	9	12	9	0	0	1	0	0	0	1	1	4	1	4	3	4	1	2	3	4	4	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	232607212	A	A	232607212	2	1	470	1	0	0	0	0	0	0	0	1	14332	1683	59	5		5	SIPA1L2	1	232607212	Silent	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	47498577	232607212	16643409	6	24522											
GREB1	9687	broad.mit.edu;ucsc.edu	37	chr2	11706697	11706697	+	Missense_Mutation	SNP	G	T	T																															tttctcctcgtgggggtcaaGtcccccagcctgccggacca																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	11706697	T	T	11706697	3	4	470	1	0	0	0	0	1	0	0	0	6760	1020	36	4	379	4	GREB1	2	11706697	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		11706697	231492676	7	24523	351	2									
GREB1	9687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	11706699	11706699	+	Missense_Mutation	SNP	C	C	A																															tctcctcgtgggggtcaagtCccccagcctgccggaccatc																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	11706699	C	A	11706699	3	1	470	1	0	0	0	0	1	0	0	0	6760	855	30	4	381	4	GREB1	2	11706699	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	2	11706699	231492674	8	24524	351	2									
LAPTM4A	9741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	20237323	20237323	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctccataaaccagcatTgaactgattataaacataag	17	11	5	8	0	0	2	0	2	0	0	1	2	1	2	2	0	5	2	2	0	7	6	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	20237323	T	G	20237323	2	3	470	1	0	0	0	0	0	0	0	1	8624	1799	63	5		5	LAPTM4A	2	20237323	Silent	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	8530624	20237323	222962050	9	24525											
KLRAQ1	0	hgsc.bcm.edu;ucsc.edu	37	chr2	48692136	48692136	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagacaccaggtaaaggAtgaagtacatgtttttattt	14	13	10	4	0	0	2	0	1	0	1	0	4	0	3	1	3	1	3	1	3	6	7	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	48692136	A	G	48692136	1	3	470	0	1	0	0	0	0	0	0	0	8413	348	12	3		3	KLRAQ1	2	48692136	RNA	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	28454813	48692136	194507237	10	24526											
ANAPC1	64682	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	112625654	112625654	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtgggtgcagcatgctgaAcatagtaggtaaaggttctc	11	11	13	6	0	1	1	0	1	1	0	2	1	1	1	0	3	4	6	0	3	6	5	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		C	112625654	A	C	112625654	3	2	470	1	0	0	0	0	1	0	0	0	598	43	2	5	5371	5	ANAPC1	2	112625654	Missense_Mutation	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	63933518	112625654	130573719	11	24527											
NEB	4703	broad.mit.edu;ucsc.edu	37	chr2	152553192	152553192	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacttgggcttgtagcagaaCaggagagtctgtaacttggg	10	10	15	6	0	1	2	0	0	1	2	1	4	1	2	0	3	3	4	0	3	3	5	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	152553192	A	A	152553192	3	1	470	1	0	0	0	0	1	0	0	0	10302	478	17	4	24822	4	NEB	2	152553192	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	39927538	152553192	90646181	12	24528											
BAZ2B	29994	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	160205332	160205332	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtcaataattctccaccaaCcaaactgcatttctaagtca	14	11	4	12	0	4	0	2	0	2	0	5	0	4	0	3	1	3	1	3	1	5	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	160205332	C	A	160205332	3	1	470	1	0	0	0	0	1	0	0	0	1332	507	18	4	1388	4	BAZ2B	2	160205332	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	7652140	160205332	82994041	13	24529											
C2orf67	0	broad.mit.edu	37	chr2	210887820	210887820	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcttgacctttcaacCtgatcctttttttcatcttg	5	19	6	11	0	3	2	2	2	1	0	4	2	4	2	3	0	2	2	3	0	1	6	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	210887820	G	G	210887820	3	3	470	1	0	0	0	0	1	0	0	0	2186	680	24	4	150	4	C2orf67	2	210887820	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	50682488	210887820	32311553	14	24530											
GLT8D1	55830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52729443	52729443	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttacatacttactctacaTtgagtttcatccatttttcc	10	18	3	10	0	2	1	1	1	1	0	4	1	4	1	2	0	4	2	2	0	4	8	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		C	52729443	T	C	52729443	3	2	470	1	0	0	0	0	1	0	0	0	6469	1493	52	3	321	3	GLT8D1	3	52729443	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10		52729443	145292987	15	24531											
ARHGEF3	50650	broad.mit.edu;hgsc.bcm.edu	37	chr3	56789107	56789107	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctccgtttcgtgctcgaggGggcggcatttctggaccagg	4	11	15	11	4	2	0	0	0	2	0	5	2	2	1	2	5	1	3	2	5	0	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		C	56789107	G	C	56789107	3	2	470	1	0	0	0	0	1	0	0	0	904	1232	43	4	1335	4	ARHGEF3	3	56789107	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	4059664	56789107	141233323	16	24532											
NLGN1	22871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	173322838	173322838	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatatgtgcaagaccagagCgaagactgcctatatttaaa	15	10	8	8	1	1	3	1	0	0	3	1	4	1	3	2	0	3	1	2	0	7	5	rs140286287		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	173322838	C	T	173322838	2	4	470	1	0	0	0	0	0	0	0	1	10461	767	27	1		1	NLGN1	3	173322838	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	116533731	173322838	24699592	17	24533											
PDGFRA	5156	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	55131181	55131181	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgctgtttttaacaatgagGtggttgaccttcaatggact	9	15	11	6	0	1	2	1	2	0	0	1	3	1	3	1	3	2	3	1	3	3	5	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	55131181	G	T	55131181	3	4	470	1	0	0	0	0	1	0	0	0	11661	1261	44	4	738	4	PDGFRA	4	55131181	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		55131181	136023095	18	24534											
ANKRD17	26057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	73985963	73985963	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgaggagggaactggaGgggcattaacatcagcacct	11	8	13	9	0	2	1	1	1	1	0	2	4	2	4	1	5	3	2	1	5	2	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	73985963	G	T	73985963	3	4	470	1	0	0	0	0	1	0	0	0	646	1000	35	4	3926	4	ANKRD17	4	73985963	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	18854782	73985963	117168313	19	24535											
ANKRD55	79722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55412459	55412459	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctgctctcttgggagagGagtttgacacacgccgtgtg	7	10	13	11	2	1	2	0	1	1	1	2	4	1	3	2	2	1	2	2	2	0	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	55412459	G	T	55412459	2	4	470	1	0	0	0	0	0	0	0	1	681	1161	41	4		4	ANKRD55	5	55412459	Silent	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		55412459	125502801	20	24536											
VCAN	1462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	82835015	82835015	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccattttaccaacagcaGaagtggaaggtacgaaagct	15	7	9	10	1	0	1	0	0	0	1	0	3	0	2	3	2	5	3	3	2	6	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	82835015	G	T	82835015	4	4	470	1	0	0	0	0	0	1	0	0	17137	943	33	4	6219	4	VCAN	5	82835015	Nonsense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	27422556	82835015	98080245	21	24537											
C6orf27	0	broad.mit.edu	37	chr6	31744362	31744362	+	Frame_Shift_Del	DEL	T	-	-																															agaggggggcggcctgggggTggctgctccaggaagagctg																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		-	31744362	-	-	31744362	7	5	470	1	0	1	0	1	0	0	0	0	2362	1683	59	0	2543	0	C6orf27	6	31744362	Frame_Shift_Del	DEL	T	TCGA-CZ-5467-01A-01D-1501-10		31744362	139370705	22	24538											
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	56469946	56469946	+	Intron	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaaatgtgtattcccttcCcacgatgtaatgtctgaagt	11	14	7	9	1	2	1	1	1	1	0	4	2	4	1	2	0	0	2	2	0	5	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	56469946	C	T	56469946	1	4	470	0	1	0	0	0	0	0	0	0	4783	638	22	2		2	DST	6	56469946	Intron	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	24725584	56469946	114645121	23	24539											
LAMA2	3908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	129588336	129588336	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgctttggtcatgcggagtCctgtgatgacgtcactggag	6	12	15	8	2	2	2	2	2	0	0	3	4	3	4	1	3	2	1	1	3	0	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	129588336	C	A	129588336	3	1	470	1	0	0	0	0	1	0	0	0	8606	855	30	4	2356	4	LAMA2	6	129588336	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	73118390	129588336	41526731	24	24540											
GGCT	79017	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	30538534	30538534	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttctattacaacatacattCcacttttaaccccttcttgc	10	16	1	14	0	2	0	0	0	2	0	3	0	3	0	3	0	5	0	3	0	5	9	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	30538534	C	T	30538534	3	4	470	1	0	0	0	0	1	0	0	0	6355	855	30	2	266	2	GGCT	7	30538534	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10		30538534	128600129	25	24541											
GRB10	2887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	50737542	50737542	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgaggttctaaactgctgGtcttcctcctgaaggcgcct	7	12	11	11	1	2	2	0	2	2	0	4	3	4	2	3	3	2	2	3	3	3	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	50737542	G	A	50737542	2	1	470	1	0	0	0	0	0	0	0	1	6756	1252	44	2		2	GRB10	7	50737542	Silent	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	20199008	50737542	108401121	26	24542											
C7orf66	154907	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	108524166	108524166	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagatatgtatccctcatgAattctagttctgtatctctg	9	17	7	8	0	4	2	1	2	3	1	6	3	5	2	1	0	0	3	1	0	5	6	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	108524166	A	G	108524166	2	3	470	1	0	0	0	0	0	0	0	1	2412	242	9	3		3	C7orf66	7	108524166	Silent	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	57786624	108524166	50614497	27	24543											
GOLM1	51280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	88692459	88692459	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcagctccacggcgcctctCtctgcagccgccctgcggac	4	8	10	19	4	3	0	1	0	2	0	5	1	4	1	4	2	4	2	4	2	0	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	88692459	C	T	88692459	2	4	470	1	0	0	0	0	0	0	0	1	6567	912	32	2		2	GOLM1	9	88692459	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10		88692459	52520972	28	24544											
BMI1	648	broad.mit.edu	37	chr10	22605369	22605369	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctctcggagtctgtgcAgaaaggcttccagatgctgg	8	9	15	9	1	2	2	0	0	2	2	4	4	3	4	1	4	3	4	1	4	1	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	22605369	G	G	22605369	3	3	470	1	0	0	0	0	1	0	0	0	1455	188	7	3		3	BMI1	10	22605369	Missense_Mutation	SNP	A	TCGA-CZ-5467-01A-01D-1501-10		22605369	112929378	29	24545											
ARMC4	55130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	28274097	28274097	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgagttttctttcattgtAttataatcagagcccaggat	11	17	7	6	0	3	2	2	1	1	1	3	3	3	3	1	1	1	2	1	1	3	8	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	28274097	A	G	28274097	2	3	470	1	0	0	0	0	0	0	0	1	953	446	16	3		3	ARMC4	10	28274097	Silent	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	5668728	28274097	107260650	30	24546											
ALDH18A1	5832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	97373858	97373858	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggaagagccacgtggaaTgatcagatctatcattttgt	11	12	11	7	1	3	3	2	1	1	2	3	5	3	5	1	2	1	0	1	2	3	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		C	97373858	T	C	97373858	3	2	470	1	0	0	0	0	1	0	0	0	489	1464	51	3	741	3	ALDH18A1	10	97373858	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	69099761	97373858	38160889	31	24547											
HPSE2	60495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	100904018	100904018	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaatatgagattactgtaaGtattggagaattgctccttt	12	17	8	4	0	0	2	0	1	0	2	1	4	1	2	1	1	2	3	1	1	6	8	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	100904018	G	A	100904018	3	1	470	1	0	0	0	0	1	0	0	0	7345	1029	36	2	1269	2	HPSE2	10	100904018	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	3530160	100904018	34630729	32	24548											
TRAF6	7189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	36514141	36514141	+	Frame_Shift_Del	DEL	G	G	-																															tactgaatgtgcatggaattGgggctgtagggcagtctaga																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		-	36514141	G	-	36514141	7	5	470	1	0	1	0	1	0	0	0	0	16444	1348	47	0	860	0	TRAF6	11	36514141	Frame_Shift_Del	DEL	G	TCGA-CZ-5467-01A-01D-1501-10		36514141	98492375	33	24549											
OR5J2	282775	hgsc.bcm.edu;ucsc.edu	37	chr11	55944758	55944759	+	Frame_Shift_Ins	INS	-	-	T																															atttcctacatcttcattgcINSttttgctagcctaaggatcc																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	55944759	-	T	55944758	7	5	470	1	0	1	1	0	0	0	0	0	11165	797	28	0	667	0	OR5J2	11	55944758	Frame_Shift_Ins	INS	-	TCGA-CZ-5467-01A-01D-1501-10	19430617	55944758	79061758	34	24550											
INCENP	3619	broad.mit.edu	37	chr11	61897352	61897352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacagtggtcggggagaacgGctccgtcctgcggcgtgtga	6	8	17	10	5	0	2	0	1	0	1	3	3	2	2	2	5	3	1	2	5	2	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	61897352	A	A	61897352	3	1	470	1	0	0	0	0	1	0	0	0	7733	1203	42	2	363	2	INCENP	11	61897352	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	5952594	61897352	73109164	35	24551											
ARHGAP20	57569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	110451792	110451792	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggccttccacctcgggctgGtcaagatcatagtcactgag	9	9	11	12	1	3	2	3	1	0	1	5	2	4	2	3	3	0	1	3	3	2	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	110451792	G	T	110451792	3	4	470	1	0	0	0	0	1	0	0	0	870	1252	44	4	1701	4	ARHGAP20	11	110451792	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	48554440	110451792	24554724	36	24552											
ACVR1B	91	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52374764	52374764	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcacagggttacccctcTttgtccagcgcacagtggcc	6	10	11	14	1	2	0	1	0	1	0	3	0	3	0	4	3	2	3	4	3	1	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	52374764	T	G	52374764	3	3	470	1	0	0	0	0	1	0	0	0	221	1609	56	5	606	5	ACVR1B	12	52374764	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10		52374764	81477131	37	24553											
ITGB7	3695	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53594099	53594099	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagggggctggctggcaggaCcccagcatggacaggtgagg	8	4	20	9	0	0	1	0	1	0	0	0	4	0	3	2	8	1	4	2	8	0	0	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	53594099	C	T	53594099	2	4	470	1	0	0	0	0	0	0	0	1	7900	494	18	2		2	ITGB7	12	53594099	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	1219335	53594099	80257796	38	24554											
NT5DC3	51559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104179176	104179176	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtttgaatgtattgctcCgtgttcatgattttgagctc	7	18	10	6	1	1	3	1	3	0	0	3	3	2	3	1	1	2	5	1	1	2	6	rs61752308	alternate_allele	TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	104179176	C	A	104179176	2	1	470	1	0	0	0	0	0	0	0	1	10692	639	23	4		4	NT5DC3	12	104179176	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	50585077	104179176	29672719	39	24555											
GPC5	2262	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	92345927	92345927	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctcactaagccttgtaTgggatactgcctcaatgtca	9	11	10	11	1	3	0	3	0	0	0	3	1	3	1	2	2	3	2	2	2	4	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	92345927	T	A	92345927	3	1	470	1	0	0	0	0	1	0	0	0	6601	1464	51	5	822	5	GPC5	13	92345927	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10		92345927	22823951	40	24556											
GPC6	10082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	94482723	94482723	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaactgaagattcaggttacCcgcgccttcattgctgccag	10	10	9	12	2	2	2	2	1	0	1	2	2	2	2	3	1	4	2	3	1	3	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	94482723	C	T	94482723	2	4	470	1	0	0	0	0	0	0	0	1	6602	610	22	2		2	GPC6	13	94482723	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	2136796	94482723	20687155	41	24557											
SAMD4A	23034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	55218223	55218223	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtattcagaagctcaaaGaaagacaaaatctcctgaag	18	8	7	8	0	4	4	3	1	1	3	5	4	4	4	1	0	1	2	1	0	7	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	55218223	G	T	55218223	4	4	470	1	0	0	0	0	0	1	0	0	13823	943	33	4	1159	4	SAMD4A	14	55218223	Nonsense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		55218223	52131317	42	24558											
RYR3	6263	broad.mit.edu;ucsc.edu	37	chr15	33916176	33916176	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctcttgggtaccacccaGttcctctcccaagcctcttt	6	13	6	16	0	3	0	0	0	3	0	6	1	4	0	5	1	2	2	5	1	2	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	33916176	T	T	33916176	3	4	470	1	0	0	0	0	1	0	0	0	13772	1020	36	4	2604	4	RYR3	15	33916176	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		33916176	68615216	43	24559											
RPUSD2	27079	broad.mit.edu;ucsc.edu	37	chr15	40866002	40866002	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctacaactcagttgccTggggtccttctcgaggccgg	6	10	11	14	2	3	0	1	0	2	0	5	1	4	0	4	4	3	1	4	4	2	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	40866002	G	G	40866002	3	3	470	1	0	0	0	0	1	0	0	0	13669	1580	55	5	1190	5	RPUSD2	15	40866002	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	6949826	40866002	61665390	44	24560											
PRTG	283659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	55964783	55964783	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgctgccacctcacagaaAtggtggtacagttcagaggc	10	9	11	11	0	2	2	2	0	0	2	2	2	2	2	2	3	3	3	2	3	2	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	55964783	A	G	55964783	3	3	470	1	0	0	0	0	1	0	0	0	12640	101	4	3	1591	3	PRTG	15	55964783	Missense_Mutation	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	15098781	55964783	46566609	45	24561											
MT1X	4501	broad.mit.edu;ucsc.edu	37	chr16	56717110	56717110	+	Missense_Mutation	SNP	G	A	A																															ctgtgccggctcctgcaaatGcaaagagtgcaaatgcacct																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	56717110	A	A	56717110	3	1	470	1	0	0	0	0	1	0	0	0	9904	1319	46	2	68	2	MT1X	16	56717110	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		56717110	33637643	46	24562	352	2									
MT1X	4501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	56717111	56717111	+	Silent	SNP	C	C	T																															tgtgccggctcctgcaaatgCaaagagtgcaaatgcacctc																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	56717111	C	T	56717111	2	4	470	1	0	0	0	0	0	0	0	1	9904	718	25	2		2	MT1X	16	56717111	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	1	56717111	33637642	47	24563	352	2									
MPHOSPH6	10200	hgsc.bcm.edu;ucsc.edu	37	chr16	82185072	82185074	+	In_Frame_Del	DEL	AGA	AGA	-																															tgaatgacattcttccatagAgaagatcttcacatagtaag																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		-	82185074	AGA	-	82185072	7	5	470	1	0	1	0	1	0	0	0	0	9726	304	11	0	282	0	MPHOSPH6	16	82185072	In_Frame_Del	DEL	AGA	TCGA-CZ-5467-01A-01D-1501-10	25467961	82185072	8169681	48	24564											
ZCCHC14	23174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	87493727	87493727	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctgacaggggcctcagttCttggagtgatctgagggaac	8	10	15	8	0	3	3	1	3	2	0	3	5	3	5	1	4	2	2	1	4	1	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		G	87493727	C	G	87493727	3	3	470	1	0	0	0	0	1	0	0	0	17582	913	32	4	2727	4	ZCCHC14	16	87493727	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	5308655	87493727	2861026	49	24565											
SARM1	23098	broad.mit.edu;ucsc.edu	37	chr17	26686415	26686415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataaacggatcacccgcaaCgtcacttgtcaggtaaggac	13	8	9	11	3	3	0	3	0	0	0	3	2	3	2	1	3	2	2	1	3	5	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	26686415	T	T	26686415	2	4	470	1	0	0	0	0	0	0	0	1	13844	535	19	1		1	SARM1	17	26686415	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10		26686415	54508795	50	24566											
TAF15	8148	hgsc.bcm.edu	37	chr17	34171703	34171726	+	In_Frame_Del	DEL	GAGGAGGCGGCTATGGAGGAGACC	GAGGAGGCGGCTATGGAGGAGACC	-																															cggcggctatggtggggacaGaggaggcggctatggaggag																								novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	GAGGAGGCGGCTATGGAGGAGACC	GAGGAGGCGGCTATGGAGGAGACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		-	34171726	GAGGAGGCGGCTATGGAGGAGACC	-	34171703	7	5	470	1	0	1	0	1	0	0	0	0	15517	942	33	0	1458	0	TAF15	17	34171703	In_Frame_Del	DEL	GAGGAGGCGGCTATGGAGGAGACC	TCGA-CZ-5467-01A-01D-1501-10	7485288	34171703	47023507	51	24567											
HOXB6	3216	broad.mit.edu;ucsc.edu	37	chr17	46673821	46673821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggcactgagctgagacGcgctgagcagtttgctctcc	6	9	12	14	3	1	3	0	3	1	1	3	4	1	3	2	1	3	6	2	1	0	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	46673821	A	A	46673821	3	1	470	1	0	0	0	0	1	0	0	0	7305	1087	38	1	49	1	HOXB6	17	46673821	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	12502118	46673821	34521389	52	24568											
RPS6KB1	6198	broad.mit.edu;hgsc.bcm.edu	37	chr17	58022845	58022845	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccaaaaatccgatcacctCgaagatttattggcagccca	15	8	6	12	2	1	1	1	0	0	1	3	3	2	1	4	1	2	1	4	1	5	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	58022845	C	T	58022845	4	4	470	1	0	0	0	0	0	1	0	0	13658	876	31	1	1360	1	RPS6KB1	17	58022845	Nonsense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	11349024	58022845	23172365	53	24569											
CHST9	83539	broad.mit.edu;hgsc.bcm.edu	37	chr18	24496333	24496333	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaatactgtctcacgacttGagcattggttctttcatcgg	9	15	8	9	2	3	1	2	1	2	0	5	2	3	1	0	2	2	2	0	2	3	6	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		C	24496333	G	C	24496333	3	2	470	1	0	0	0	0	1	0	0	0	3411	1299	45	4	113	4	CHST9	18	24496333	Missense_Mutation	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		24496333	53580915	54	24570											
ZBTB7C	201501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	45567044	45567044	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatcatcatcatcttcGtcgtcgtcatcgtcctcctt	5	16	4	16	4	6	0	5	0	1	0	13	0	9	0	3	0	0	0	3	0	0	2	rs144374638		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	45567044	G	A	45567044	2	1	470	1	0	0	0	0	0	0	0	1	17554	1136	40	1		1	ZBTB7C	18	45567044	Silent	SNP	G	TCGA-CZ-5467-01A-01D-1501-10	21070711	45567044	32510204	55	24571											
DBP	1628	broad.mit.edu	37	chr19	49134131	49134131	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctggtatcgggacagcAcggcgcggtagtgggacagc	7	5	19	10	4	0	0	0	0	0	0	1	2	0	2	1	6	2	3	1	6	2	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	49134131	T	T	49134131	3	4	470	1	0	0	0	0	1	0	0	0	4256	159	6	5	40	5	DBP	19	49134131	Missense_Mutation	SNP	A	TCGA-CZ-5467-01A-01D-1501-10		49134131	9994852	56	24572											
NLRP2	55655	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	55489137	55489137	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggataacacggaaagaaCgaccacctctagacgtggac	15	4	11	11	3	1	2	0	0	1	2	1	6	1	5	2	3	2	0	2	3	4	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	55489137	C	T	55489137	4	4	470	1	0	0	0	0	0	1	0	0	10477	528	19	1	353	1	NLRP2	19	55489137	Nonsense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	6355006	55489137	3639846	57	24573											
NLRP9	338321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56243988	56243988	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatacaaatgtatatgtccaAattccctctgcagccaaagc	15	10	5	11	0	1	0	0	0	1	0	3	0	3	0	3	0	4	2	3	0	7	4	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	56243988	A	T	56243988	2	4	470	1	0	0	0	0	0	0	0	1	10484	10	1	5		5	NLRP9	19	56243988	Silent	SNP	A	TCGA-CZ-5467-01A-01D-1501-10	754851	56243988	2884995	58	24574											
TRPC4AP	26133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33595391	33595391	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaggaacatctggtctgCataggaggtggtccctcgga	9	8	14	10	1	2	0	0	0	2	0	4	3	3	3	1	6	3	2	1	6	2	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	33595391	C	T	33595391	3	4	470	1	0	0	0	0	1	0	0	0	16580	710	25	2	769	2	TRPC4AP	20	33595391	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10		33595391	29430129	59	24575											
SFRS15	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	33074137	33074137	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccacagcagcaaaagcAtcagagctgggcaactgtgg	13	5	13	10	0	1	2	1	1	0	1	1	2	1	2	1	2	6	5	1	2	3	0	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	33074137	A	T	33074137	3	4	470	1	0	0	0	0	1	0	0	0	14173	214	8	5	2951	5	SFRS15	21	33074137	Missense_Mutation	SNP	A	TCGA-CZ-5467-01A-01D-1501-10		33074137	15055758	60	24576											
MICAL3	57553	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	18376628	18376628	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaggctctccatttccaGgtgaatatcttttgtttcgc	7	15	7	12	1	2	1	0	1	2	0	5	1	3	1	3	2	0	2	3	2	2	5	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	18376628	G	A	18376628	2	1	470	1	0	0	0	0	0	0	0	1	9571	991	35	2		2	MICAL3	22	18376628	Silent	SNP	G	TCGA-CZ-5467-01A-01D-1501-10		18376628	32927938	61	24577											
RFPL2	10739	broad.mit.edu;hgsc.bcm.edu	37	chr22	32589043	32589043	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caacagcaaagtagatcctcCccatggggctccttctgcag	10	8	9	14	0	1	1	0	0	1	1	4	1	4	1	4	2	3	4	4	2	3	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	32589043	C	T	32589043	2	4	470	1	0	0	0	0	0	0	0	1	13256	610	22	2		2	RFPL2	22	32589043	Silent	SNP	C	TCGA-CZ-5467-01A-01D-1501-10	14212415	32589043	18715523	62	24578											
CFP	5199	broad.mit.edu	37	chrX	47487501	47487501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttgctcatcctcctcacCaggacagcactgctggtcct	6	10	8	17	0	2	0	2	0	0	0	5	1	5	1	5	2	3	3	5	2	0	1	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		T	47487501	T	T	47487501	3	4	470	1	0	0	0	0	1	0	0	0	3293	608	21	2	1034	2	CFP	23	47487501	Missense_Mutation	SNP	C	TCGA-CZ-5467-01A-01D-1501-10		47487501	107783059	63	24579											
KDM5C	8242	broad.mit.edu;hgsc.bcm.edu	37	chrX	53246339	53246339	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacatcaggctgcagtcTcttggcccgccggccatagc	7	8	10	16	2	3	0	2	0	1	0	4	0	3	0	3	3	2	2	3	3	1	2	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	53246339	T	A	53246339	4	1	470	1	0	0	0	0	0	1	0	0	8135	1559	54	5	4225	5	KDM5C	23	53246339	Nonsense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	5758838	53246339	102024221	64	24580											
ZNF449	203523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	134483227	134483227	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactggagaatgtcagaacTttctggaccctggtaaggca	11	10	11	9	0	2	2	1	0	1	2	2	4	2	3	1	4	2	2	1	4	4	3	novel		TCGA-CZ-5467-01A-01D-1501-10	TCGA-CZ-5467-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	99c640a3-660f-4723-bf82-36fcb3134356	7021632c-f0b7-406b-b839-984c10966fe5		A	134483227	T	A	134483227	3	1	470	1	0	0	0	0	1	0	0	0	17919	1609	56	5	553	5	ZNF449	23	134483227	Missense_Mutation	SNP	T	TCGA-CZ-5467-01A-01D-1501-10	81236888	134483227	20787333	65	24581											
KLHL17	339451	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	900441	900441	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcgagaagtacaacccgaGgaccaacaagtgggtggccg	13	4	13	11	3	0	1	0	0	0	1	1	4	0	2	3	3	3	1	3	3	5	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	900441	G	A	900441	3	1	471	1	0	0	0	0	1	0	0	0	8372	1000	35	2	1845	2	KLHL17	1	900441	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		900441	248350180	1	24582											
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	19471346	19471346	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatccagctcacaggtacaGtagccatggatgatgtccac	12	8	9	12	0	1	1	1	1	0	0	3	2	3	2	3	2	3	3	3	2	3	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	19471346	G	A	19471346	2	1	471	1	0	0	0	0	0	0	0	1	16903	1024	36	2		2	UBR4	1	19471346	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	18570905	19471346	229779275	2	24583											
WDR65	149465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	43649511	43649511	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaaggaacctaccaatGgctcaaagagcctggatgtc	12	8	11	10	0	2	1	2	0	0	1	3	3	2	3	3	4	3	1	3	4	5	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	43649511	G	A	43649511	3	1	471	1	0	0	0	0	1	0	0	0	17315	1348	47	2	734	2	WDR65	1	43649511	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	24178165	43649511	205601110	3	24584											
MUTYH	4595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45796197	45796197	+	Frame_Shift_Del	DEL	C	C	-																															aggagacttaccatacaggtCcctggctgttggccctgata																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		-	45796197	C	-	45796197	7	5	471	1	0	1	0	1	0	0	0	0	9993	842	30	0	148	0	MUTYH	1	45796197	Frame_Shift_Del	DEL	C	TCGA-CZ-5468-01A-01D-1501-10	2146686	45796197	203454424	4	24585											
TOE1	114034	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	45808092	45808092	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagtcagtacggaccctaTtcctggagctaatccgagcc	9	8	10	14	2	1	0	1	0	0	0	3	3	3	2	5	2	3	2	5	2	3	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	45808092	T	G	45808092	3	3	471	1	0	0	0	0	1	0	0	0	16348	1493	52	5	551	5	TOE1	1	45808092	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	11895	45808092	203442529	5	24586											
ABCA4	24	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94466632	94466632	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacagcatgcggcgtgcCtgggggtccatccctgtggt	4	10	14	13	2	0	0	0	0	0	0	3	0	3	0	4	4	3	1	4	4	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	94466632	C	A	94466632	3	1	471	1	0	0	0	0	1	0	0	0	34	680	24	4	529	4	ABCA4	1	94466632	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	48658540	94466632	154783989	6	24587											
ABCA4	24	broad.mit.edu;hgsc.bcm.edu	37	chr1	94568687	94568687	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcaagatatcccttattcGtattcctcttcctacatatg	9	18	3	11	1	2	1	1	0	1	1	6	1	5	1	3	0	1	1	3	0	6	9	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	94568687	G	A	94568687	4	1	471	1	0	0	0	0	0	1	0	0	34	1153	40	1	6551	1	ABCA4	1	94568687	Nonsense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	102055	94568687	154681934	7	24588											
ADORA3	140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	112031474	112031474	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggttccctgtgtccctcagGgccacatgattggtgctgtt	4	14	12	11	0	1	1	1	1	0	0	3	1	3	1	3	3	1	3	3	3	0	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	112031474	G	C	112031474	2	2	471	1	0	0	0	0	0	0	0	1	329	1219	43	4		4	ADORA3	1	112031474	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	17462787	112031474	137219147	8	24589											
RPRD2	23248	broad.mit.edu;ucsc.edu	37	chr1	150445629	150445629	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccccccttgggtccctCacacagagacaccatcagcc	8	6	8	19	0	2	1	2	0	0	1	3	2	3	1	6	2	1	0	6	2	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	150445629	A	A	150445629	4	1	471	1	0	0	0	0	0	1	0	0	13619	838	29	4	4247	4	RPRD2	1	150445629	Nonsense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	38414155	150445629	98804992	9	24590											
DENND4B	9909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	153913052	153913052	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcgggcacagaggaatgtAggggcactgccagtgcagtg	10	5	17	9	1	0	1	0	0	0	1	0	2	0	2	1	4	3	4	1	4	2	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	153913052	A	T	153913052	3	4	471	1	0	0	0	0	1	0	0	0	4434	420	15	5	3209	5	DENND4B	1	153913052	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	3467423	153913052	95337569	10	24591											
FLAD1	80308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154960848	154960848	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccaccaaagccctaggaGgggaaggctgggagaagcta	13	3	15	10	0	0	1	0	0	0	1	0	4	0	3	3	5	3	2	3	5	5	2	rs145054820	bycluster;byfrequency;by1000genomes	TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	154960848	G	A	154960848	3	1	471	1	0	0	0	0	1	0	0	0	5920	1000	35	2	721	2	FLAD1	1	154960848	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	1047796	154960848	94289773	11	24592											
GBA	2629	broad.mit.edu;hgsc.bcm.edu	37	chr1	155205090	155205090	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactctctgggagccctcAggaatgaacttgctgaatgt	9	10	10	12	0	2	2	1	2	1	0	3	4	2	4	2	2	3	1	2	2	3	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	155205090	A	T	155205090	2	4	471	1	0	0	0	0	0	0	0	1	6266	175	7	5		5	GBA	1	155205090	Silent	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	244242	155205090	94045531	12	24593											
TNR	7143	broad.mit.edu;ucsc.edu	37	chr1	175355202	175355202	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtggcagaatcgctctcGttggtccctcggacggcact	5	10	14	12	4	1	1	0	0	1	1	5	2	2	2	1	5	0	4	1	5	1	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	175355202	A	A	175355202	2	1	471	1	0	0	0	0	0	0	0	1	16337	1136	40	1		1	TNR	1	175355202	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	20150112	175355202	73895419	13	24594											
CFHR3	10878	broad.mit.edu;hgsc.bcm.edu	37	chr1	196762628	196762628	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgggaagggatagtggaataCcccagatgcgaataaggcag	14	5	15	7	2	0	1	0	0	0	1	0	5	0	4	2	4	2	1	2	4	6	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	196762628	C	T	196762628	2	4	471	1	0	0	0	0	0	0	0	1	3286	518	18	2		2	CFHR3	1	196762628	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	21407426	196762628	52487993	14	24595											
KDM5B	10765	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	202725626	202725626	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccaaaattctttctcaaCaagctctgtggggaccatct	10	13	6	12	0	5	0	1	0	5	0	7	1	5	1	2	2	2	1	2	2	4	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	202725626	C	A	202725626	3	1	471	1	0	0	0	0	1	0	0	0	8134	478	17	4	3490	4	KDM5B	1	202725626	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	5962998	202725626	46524995	15	24596											
CDC42BPA	8476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	227288695	227288695	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaataatgtgattcttacctTtctcttctggttttttccaa	9	20	4	8	0	3	1	0	1	3	0	5	1	4	1	2	1	1	1	2	1	4	8	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	227288695	T	C	227288695	2	2	471	1	0	0	0	0	0	0	0	1	3072	1838	64	3		3	CDC42BPA	1	227288695	Silent	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	24563069	227288695	21961926	16	24597											
PXDN	7837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	1642647	1642647	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtctgtgatggtcttctGcatttccagaacaaactctc	9	13	9	10	0	4	2	0	1	4	1	6	3	5	2	1	2	3	1	1	2	2	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	1642647	G	C	1642647	3	2	471	1	0	0	0	0	1	0	0	0	12849	1328	46	4	274	4	PXDN	2	1642647	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		1642647	241556726	17	24598											
ROCK2	9475	hgsc.bcm.edu;ucsc.edu	37	chr2	11389808	11389814	+	Frame_Shift_Del	DEL	GGCAAAG	GGCAAAG	-																															tgaaccacccaggggctattGgcaaaggccataatatctct																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	GGCAAAG	GGCAAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		-	11389814	GGCAAAG	-	11389808	7	5	471	1	0	1	0	1	0	0	0	0	13520	1335	47	0	3845	0	ROCK2	2	11389808	Frame_Shift_Del	DEL	GGCAAAG	TCGA-CZ-5468-01A-01D-1501-10	9747161	11389808	231809565	18	24599											
BRE	9577	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	28532988	28532988	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaggaatccagctctgcCtgacatccaggcatcctctc	8	8	11	14	0	2	1	0	1	2	0	6	3	5	3	4	4	2	2	4	4	1	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	28532988	C	T	28532988	2	4	471	1	0	0	0	0	0	0	0	1	1509	668	24	2		2	BRE	2	28532988	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	17143180	28532988	214666385	19	24600											
NRXN1	9378	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	50733648	50733648	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttacctgtcatggcctgttGgtcatccactgttaacttta	7	17	7	10	0	2	0	2	0	0	0	3	0	3	0	3	2	2	2	3	2	3	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	50733648	G	T	50733648	3	4	471	1	0	0	0	0	1	0	0	0	10665	1357	47	4	2348	4	NRXN1	2	50733648	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	22200660	50733648	192465725	20	24601											
USP34	9736	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	61431456	61431456	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgcggaggccgaatatTgcttttccctcctattagct	7	12	11	11	3	0	0	0	0	0	0	2	2	2	1	3	3	2	2	3	3	4	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	61431456	T	C	61431456	3	2	471	1	0	0	0	0	1	0	0	0	17064	1812	63	3	1349	3	USP34	2	61431456	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	10697808	61431456	181767917	21	24602											
B3GNT2	10678	broad.mit.edu	37	chr2	62450343	62450343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaccaggtccatctctacCccattgatgacgtttatact	9	13	6	13	1	1	3	0	3	1	0	3	3	2	3	4	1	2	1	4	1	3	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	62450343	T	T	62450343	3	4	471	1	0	0	0	0	1	0	0	0	1257	623	22	2	990	2	B3GNT2	2	62450343	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	1018887	62450343	180749030	22	24603											
C2orf65	130951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	74808954	74808954	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatagtctgaaggtcaatgtCagttcccagaatagaactct	13	12	8	8	0	4	3	2	1	2	2	5	3	5	3	1	1	1	1	1	1	7	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	74808954	C	T	74808954	3	4	471	1	0	0	0	0	1	0	0	0	2184	826	29	2	1004	2	C2orf65	2	74808954	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	12358611	74808954	168390419	23	24604											
KIAA1310	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	97285435	97285435	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggccaagcgggcaagccGgtcagactgcagggctttga	8	7	16	10	2	1	2	1	1	0	1	1	2	1	2	2	4	3	4	2	4	2	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	97285435	G	T	97285435	2	4	471	1	0	0	0	0	0	0	0	1	8222	1115	39	4		4	KIAA1310	2	97285435	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	22476481	97285435	145913938	24	24605											
INPP4A	3631	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	99155379	99155379	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctgtcgatgagagctTgacggaggcgttaggaatcc	8	11	13	9	3	1	2	0	2	1	1	4	6	3	4	2	3	1	2	2	3	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	99155379	T	G	99155379	3	3	471	1	0	0	0	0	1	0	0	0	7752	1821	63	5	631	5	INPP4A	2	99155379	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	1869944	99155379	144043994	25	24606											
FHL2	2274	broad.mit.edu;ucsc.edu	37	chr2	105977880	105977880	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaaggagatgtattttgTgccaccaagtcctgttaaca	12	12	8	9	0	1	1	1	0	0	1	2	2	2	1	3	1	2	2	3	1	4	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	105977880	C	C	105977880	3	2	471	1	0	0	0	0	1	0	0	0	5879	1696	59	3	143	3	FHL2	2	105977880	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	6822501	105977880	137221493	26	24607											
GCC2	9648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109100625	109100625	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatgcccaacaaaccacattGatgaatatggaaatagctga	17	8	8	8	0	0	3	0	3	0	0	0	5	0	4	2	1	4	1	2	1	6	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	109100625	G	C	109100625	3	2	471	1	0	0	0	0	1	0	0	0	6286	1281	45	4	3521	4	GCC2	2	109100625	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	3122745	109100625	134098748	27	24608											
WDR33	55339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	128477700	128477700	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccttgtggtcccatttgTccctggggtccaggaggcct	4	11	14	12	0	0	0	0	0	0	0	3	2	3	2	5	6	0	0	5	6	0	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	128477700	T	A	128477700	2	1	471	1	0	0	0	0	0	0	0	1	17286	1654	58	5		5	WDR33	2	128477700	Silent	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	19377075	128477700	114721673	28	24609											
NFE2L2	4780	broad.mit.edu	37	chr2	178095480	178095480	+	3'UTR	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagtataatagtacaaaaaAactagctcagaaaaggtcaa	21	9	6	5	0	2	1	2	0	0	1	2	1	2	1	0	1	3	3	0	1	12	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	178095480	T	T	178095480	1	4	471	0	1	0	0	0	0	0	0	0	10368	29	1	5		5	NFE2L2	2	178095480	3'UTR	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	49617780	178095480	65103893	29	24610											
ABCA12	26154	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	215838696	215838696	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacattttctgagcaggagcAaacaccaaaattagtgatgg	15	9	10	7	0	1	2	0	2	1	0	1	4	1	3	1	2	3	2	1	2	4	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	215838696	A	C	215838696	3	2	471	1	0	0	0	0	1	0	0	0	30	130	5	5	2320	5	ABCA12	2	215838696	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	37743216	215838696	27360677	30	24611											
RNF25	64320	hgsc.bcm.edu	37	chr2	219529592	219529592	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgcactgggctggtacAgctcctggaaggaagaatgg	9	9	14	9	0	1	1	0	0	1	1	3	3	2	3	1	5	3	4	1	5	4	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	219529592	A	G	219529592	3	3	471	1	0	0	0	0	1	0	0	0	13487	188	7	3	716	3	RNF25	2	219529592	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	3690896	219529592	23669781	31	24612											
DOCK10	55619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225668898	225668898	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagttccattgttctgggtgGactgcacaaatttaaatgca	11	13	10	7	0	1	0	0	0	1	0	2	2	2	1	1	2	2	4	1	2	3	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	225668898	G	T	225668898	3	4	471	1	0	0	0	0	1	0	0	0	4685	1174	41	4	2433	4	DOCK10	2	225668898	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	6139306	225668898	17530475	32	24613											
UGT1A8	54576	broad.mit.edu;hgsc.bcm.edu	37	chr2	234526756	234526757	+	Frame_Shift_Ins	INS	-	-	A																															taatgaccgaaaattagtagINSaatacttaaaggagagttct																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	234526757	-	A	234526756	7	5	471	1	0	1	1	0	0	0	0	0	16950	943	33	0	405	0	UGT1A8	2	234526756	Frame_Shift_Ins	INS	-	TCGA-CZ-5468-01A-01D-1501-10	8857858	234526756	8672617	33	24614											
CAND2	23066	broad.mit.edu	37	chr3	12856884	12856884	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggatggctggaggccatGgaggaacccacccagaccgg	11	3	16	11	1	0	1	0	0	0	1	0	5	0	5	4	7	1	1	4	7	2	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	12856884	T	T	12856884	3	4	471	1	0	0	0	0	1	0	0	0	2616	1348	47	4	1281	4	CAND2	3	12856884	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		12856884	185165546	34	24615											
TTC21A	199223	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	39179047	39179047	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcagatccccaaggcgcGtatgcagttgaagcgcctgg	10	6	14	11	3	0	2	0	1	0	1	1	3	1	2	3	2	3	4	3	2	4	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	39179047	G	T	39179047	3	4	471	1	0	0	0	0	1	0	0	0	16686	1145	40	4	3647	4	TTC21A	3	39179047	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	26322163	39179047	158843383	35	24616											
CADPS	8618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	62385148	62385148	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagtcccccaccttcaCtcactgatgctgtggcttcc	5	11	7	18	0	2	1	2	1	0	0	4	1	4	1	5	1	2	3	5	1	0	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	62385148	C	A	62385148	3	1	471	1	0	0	0	0	1	0	0	0	2570	565	20	4	70	4	CADPS	3	62385148	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	23206101	62385148	135637282	36	24617											
ZPLD1	131368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	102181210	102181210	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcagctgtccaagccactaAtttggatggcaggtaatttc	10	12	10	9	0	0	0	0	0	0	0	2	1	1	1	2	3	3	4	2	3	3	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	102181210	A	C	102181210	3	2	471	1	0	0	0	0	1	0	0	0	18220	101	4	5	738	5	ZPLD1	3	102181210	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	39796062	102181210	95841220	37	24618											
LXN	56925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	158387254	158387254	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttctagcggttccttcAtggacttaagtctttgataa	8	16	9	8	1	3	1	1	1	2	0	4	2	4	2	1	2	2	2	1	2	3	7	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	158387254	A	G	158387254	3	3	471	1	0	0	0	0	1	0	0	0	9089	217	8	3	346	3	LXN	3	158387254	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	56206044	158387254	39635176	38	24619											
BCHE	590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	165503969	165503969	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggaaaaaatgatgtccAgaatcgacattgttgagcac	14	12	9	6	1	0	3	0	2	0	1	2	5	1	4	1	1	1	2	1	1	4	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	165503969	A	T	165503969	3	4	471	1	0	0	0	0	1	0	0	0	1358	188	7	5	168	5	BCHE	3	165503969	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	7116715	165503969	32518461	39	24620											
ZBBX	79740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167000224	167000224	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgaaaggcaactggagcTttctttaacagagttggaaa	14	10	12	5	0	1	2	0	1	1	1	1	5	1	5	0	4	3	3	0	4	4	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	167000224	T	G	167000224	3	3	471	1	0	0	0	0	1	0	0	0	17515	1609	56	5	475	5	ZBBX	3	167000224	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	1496255	167000224	31022206	40	24621											
ECT2	1894	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	172502507	172502507	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttttcagataaaccaagCaaaaccagaatgtggacggc	15	9	9	8	1	1	2	1	0	0	2	1	3	1	3	2	2	3	2	2	2	6	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	172502507	C	G	172502507	3	3	471	1	0	0	0	0	1	0	0	0	4901	710	25	4	1704	4	ECT2	3	172502507	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	5502283	172502507	25519923	41	24622											
CPZ	8532	broad.mit.edu;ucsc.edu	37	chr4	8609117	8609117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acttctccaagcacccccagGaggagaagatgttttctccc	10	9	8	14	0	2	2	0	0	2	2	4	4	2	3	4	2	1	2	4	2	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	8609117	A	A	8609117	3	1	471	1	0	0	0	0	1	0	0	0	3839	1175	41	2	1218	2	CPZ	4	8609117	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		8609117	182545159	42	24623											
PRKG2	5593	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	82126026	82126026	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatggccacagtctgcttcGacagctgctcccgcagctcc	7	8	9	17	2	1	0	0	0	1	0	4	1	3	0	3	1	4	5	3	1	1	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	82126026	G	A	82126026	3	1	471	1	0	0	0	0	1	0	0	0	12525	1059	37	1	2184	1	PRKG2	4	82126026	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	73516909	82126026	109028250	43	24624											
HERC3	8916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	89607937	89607937	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggatgtggaggagacttTctgcctcaacttcacggtaa	10	10	13	8	1	3	1	2	0	1	1	3	5	3	4	1	5	2	1	1	5	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	89607937	T	A	89607937	3	1	471	1	0	0	0	0	1	0	0	0	7059	1783	62	5	2636	5	HERC3	4	89607937	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	7481911	89607937	101546339	44	24625											
C4orf29	80167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	128905506	128905506	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataatagactctttgaattCagaaagatgattggaaatcg	16	12	8	5	1	2	5	1	2	1	3	3	6	2	6	0	1	0	0	0	1	5	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	128905506	C	A	128905506	3	1	471	1	0	0	0	0	1	0	0	0	2259	825	29	4	111	4	C4orf29	4	128905506	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	39297569	128905506	62248770	45	24626											
ACSL1	2180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	185694256	185694256	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgctttcacaaaagcTgaacaatcgctcactatgtt	11	14	6	10	1	3	1	2	1	1	0	4	1	3	1	0	0	3	5	0	0	5	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	185694256	T	C	185694256	2	2	471	1	0	0	0	0	0	0	0	1	177	1567	55	3		3	ACSL1	4	185694256	Silent	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	56788750	185694256	5460020	46	24627											
ANKRD55	79722	broad.mit.edu;ucsc.edu	37	chr5	55407454	55407454	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcattgacttctgaggtgTcctcctctctgtatcggtcc	4	16	9	12	1	3	2	1	2	2	0	8	2	6	2	3	2	0	1	3	2	1	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	55407454	C	C	55407454	3	2	471	1	0	0	0	0	1	0	0	0	681	1667	58	3	735	3	ANKRD55	5	55407454	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10		55407454	125507806	47	24628											
VCAN	1462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	82815673	82815673	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaggaattccctgtaacTgaaacaccattggtaactgc	13	10	7	11	0	0	1	0	1	0	0	2	2	2	2	3	2	4	2	3	2	5	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	82815673	T	G	82815673	2	3	471	1	0	0	0	0	0	0	0	1	17137	1567	55	5		5	VCAN	5	82815673	Silent	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	27408219	82815673	98099587	48	24629											
ANKRD32	84250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	93987546	93987546	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaagccatacatatgaaaAtcaggtacaactttccaaat	17	10	6	8	0	1	1	1	1	0	0	2	2	2	2	2	2	4	1	2	2	8	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	93987546	A	C	93987546	3	2	471	1	0	0	0	0	1	0	0	0	660	101	4	5	900	5	ANKRD32	5	93987546	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	11171873	93987546	86927714	49	24630											
APC	324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	112176941	112176941	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaaggctgaattaagaaagGcaaaagaaaataaggaatca	24	5	9	3	0	1	3	1	1	0	2	1	4	1	4	0	3	0	2	0	3	11	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	112176941	G	T	112176941	3	4	471	1	0	0	0	0	1	0	0	0	763	1203	42	4	5708	4	APC	5	112176941	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	18189395	112176941	68738319	50	24631											
SEC24A	10802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	134002663	134002663	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgtaccccagcccttatTtaattcagctgtcaaccaag	12	11	6	12	0	2	1	2	0	0	1	2	1	2	1	4	0	4	2	4	0	5	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	134002663	T	A	134002663	3	1	471	1	0	0	0	0	1	0	0	0	13996	1841	64	5	726	5	SEC24A	5	134002663	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	21825722	134002663	46912597	51	24632											
TRPC7	57113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	135561036	135561036	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cctcatgccagcctggtagcGagtcttctggataaaacaaa	12	9	9	11	1	3	0	1	0	2	0	3	2	3	1	3	2	4	1	3	2	4	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	135561036	G	C	135561036	3	2	471	1	0	0	0	0	1	0	0	0	16583	1058	37	4	331	4	TRPC7	5	135561036	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	1558373	135561036	45354224	52	24633											
RBM27	54439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	145643071	145643071	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagatgatgagcaaaccacaGacatcaggtgcatatgttct	14	9	9	9	0	2	4	1	2	1	2	2	4	2	4	1	1	3	3	1	1	2	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	145643071	G	C	145643071	3	2	471	1	0	0	0	0	1	0	0	0	13129	933	33	4	2262	4	RBM27	5	145643071	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	10082035	145643071	35272189	53	24634											
UBLCP1	134510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	158697539	158697539	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatgttttccattagggaAgaaaacctactgaaaatttc	15	14	6	6	0	0	2	0	1	0	1	2	3	1	3	2	1	2	1	2	1	9	7	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	158697539	A	T	158697539	3	4	471	1	0	0	0	0	1	0	0	0	16890	69	3	5	350	5	UBLCP1	5	158697539	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	13054468	158697539	22217721	54	24635											
DRD1	1812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	174869226	174869226	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacagaagggcaaaatgcAgttcaagatgaagaaaggta	18	5	11	7	0	1	4	1	1	0	3	1	4	1	4	1	2	1	4	1	2	7	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	174869226	A	T	174869226	3	4	471	1	0	0	0	0	1	0	0	0	4756	188	7	5	467	5	DRD1	5	174869226	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	16171687	174869226	6046034	55	24636											
DPCR1	135656	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	30916609	30916609	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctcccacttctgaagAaaactccagcaaccaaggga	13	6	8	14	0	1	2	0	1	1	1	4	3	4	3	4	2	3	2	4	2	5	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	30916609	A	T	30916609	3	4	471	1	0	0	0	0	1	0	0	0	4712	246	9	5	374	5	DPCR1	6	30916609	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10		30916609	140198458	56	24637											
PHF3	23469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	64395089	64395089	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaaaaagtgtaaaatccaAacatacaaaacctgtaattc	20	9	4	8	0	1	0	1	0	0	0	3	0	2	0	2	0	3	2	2	0	9	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	64395089	A	T	64395089	3	4	471	1	0	0	0	0	1	0	0	0	11836	14	1	5	1476	5	PHF3	6	64395089	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	33478480	64395089	106719978	57	24638											
ASCC3	10973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	101248212	101248212	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttaggatcaaagcacataAgtccttctgaaacttctaaa	15	11	5	10	0	3	1	1	1	2	0	4	2	4	2	2	1	2	1	2	1	6	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	101248212	A	T	101248212	3	4	471	1	0	0	0	0	1	0	0	0	1033	72	3	5	5665	5	ASCC3	6	101248212	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	36853123	101248212	69866855	58	24639											
REV3L	5980	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	111694884	111694885	+	Frame_Shift_Ins	INS	-	-	T																															gggaaccagaaatatttttaINStttggttgatgtttattgga																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	111694885	-	T	111694884	7	5	471	1	0	1	1	0	0	0	0	0	13242	446	16	0	4798	0	REV3L	6	111694884	Frame_Shift_Ins	INS	-	TCGA-CZ-5468-01A-01D-1501-10	10446672	111694884	59420183	59	24640											
CDK13	8621	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	40134425	40134425	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagatgcacaactataactAtggtggtaacttacaggaaa	18	9	8	6	0	0	1	0	0	0	1	0	2	0	2	0	3	5	2	0	3	8	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	40134425	A	G	40134425	3	3	471	1	0	0	0	0	1	0	0	0	3129	449	16	3	4439	3	CDK13	7	40134425	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10		40134425	119004238	60	24641											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82595299	82595299	+	Frame_Shift_Del	DEL	C	C	-																															cttttcttcagcaatttgtaCttgagatttaagtaagtcat																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		-	82595299	C	-	82595299	7	5	471	1	0	1	0	1	0	0	0	0	11583	565	20	0	11728	0	PCLO	7	82595299	Frame_Shift_Del	DEL	C	TCGA-CZ-5468-01A-01D-1501-10	42460874	82595299	76543364	61	24642											
ZNF804B	219578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	88966113	88966113	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcccctgcatttagtagctGctacccccttccacccatct	7	12	4	18	0	1	0	0	0	1	0	3	0	3	0	6	0	4	4	6	0	3	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	88966113	G	A	88966113	3	1	471	1	0	0	0	0	1	0	0	0	18170	1319	46	2	3831	2	ZNF804B	7	88966113	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	6370814	88966113	70172550	62	24643											
CNPY4	245812	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	99722440	99722440	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggaggaggaggaggaagagGaggaagaggaagggggagac	16	0	24	1	0	0	3	0	0	0	3	0	12	0	11	0	10	0	0	0	10	3	0	rs187806620	by1000genomes;alternate_allele	TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	99722440	G	C	99722440	3	2	471	1	0	0	0	0	1	0	0	0	3630	1175	41	4	698	4	CNPY4	7	99722440	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	10756327	99722440	59416223	63	24644											
PSMC2	5701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	103008447	103008447	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggaagctgtaaataaggtCattaagtcttatgccaaatt	14	14	8	5	0	2	0	1	0	1	0	2	1	2	1	1	2	2	2	1	2	7	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	103008447	C	T	103008447	2	4	471	1	0	0	0	0	0	0	0	1	12688	813	29	2		2	PSMC2	7	103008447	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	3286007	103008447	56130216	64	24645											
RELN	5649	hgsc.bcm.edu;ucsc.edu	37	chr7	103293088	103293088	+	Frame_Shift_Del	DEL	A	A	-																															ggagaacaggcaagacatggAaaaagtctacagcccagaca																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		-	103293088	A	-	103293088	7	5	471	1	0	1	0	1	0	0	0	0	13222	246	9	0	8917	0	RELN	7	103293088	Frame_Shift_Del	DEL	A	TCGA-CZ-5468-01A-01D-1501-10	284641	103293088	55845575	65	24646											
ASB15	142685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	123267202	123267202	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcggatgatggggcgtcgGtgctgtttgaggcagcagga	6	9	20	6	3	0	2	0	2	0	0	1	4	0	4	0	7	2	4	0	7	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	123267202	G	T	123267202	3	4	471	1	0	0	0	0	1	0	0	0	1019	1261	44	4	758	4	ASB15	7	123267202	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	19974114	123267202	35871461	66	24647											
CCDC136	64753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	128434749	128434749	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgcccctctccctgcaggGctcctggaggatgaacggct	5	8	14	14	1	1	1	0	1	1	0	3	3	2	3	4	5	3	3	4	5	1	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	128434749	G	A	128434749	2	1	471	1	0	0	0	0	0	0	0	1	2770	1217	42	2		2	CCDC136	7	128434749	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	5167547	128434749	30703914	67	24648											
UBN2	254048	broad.mit.edu;hgsc.bcm.edu	37	chr7	138958118	138958118	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccaggaaaacgtgtcatAggaccaagaaagaaattcca	20	5	8	8	1	1	2	1	0	0	2	2	4	2	4	3	2	2	0	3	2	7	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	138958118	A	G	138958118	3	3	471	1	0	0	0	0	1	0	0	0	16892	410	15	3	1829	3	UBN2	7	138958118	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	10523369	138958118	20180545	68	24649											
C8orf79	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	12879542	12879542	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattgcagagaaaaagagaGgttgtgattgattggatcct	13	12	12	4	0	1	4	1	2	0	2	2	7	2	5	1	2	1	2	1	2	2	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	12879542	G	C	12879542	3	2	471	1	0	0	0	0	1	0	0	0	2438	1000	35	4	1364	4	C8orf79	8	12879542	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		12879542	133484480	69	24650											
COPS5	10987	hgsc.bcm.edu;ucsc.edu	37	chr8	67968826	67968826	+	Frame_Shift_Del	DEL	G	G	-																															actcagaaggtccttcatcaGgaggtttgtagccctaaaca																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		-	67968826	G	-	67968826	7	5	471	1	0	1	0	1	0	0	0	0	3736	1000	35	0	433	0	COPS5	8	67968826	Frame_Shift_Del	DEL	G	TCGA-CZ-5468-01A-01D-1501-10	55089284	67968826	78395196	70	24651											
ZHX1	11244	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	124265779	124265779	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatatgtgatttgttaacaAgttcatcaaggtcttgctca	11	15	7	8	0	4	1	3	1	1	0	4	1	4	1	1	1	2	3	1	1	4	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	124265779	A	T	124265779	3	4	471	1	0	0	0	0	1	0	0	0	17674	72	3	5	217	5	ZHX1	8	124265779	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	56296953	124265779	22098243	71	24652											
ZFAT	57623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	135622881	135622881	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttacacttcttttctagttCaaggtcagactcgttaccta	9	16	5	11	1	4	1	2	0	2	1	5	1	4	1	1	1	2	2	1	1	5	8	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	135622881	C	G	135622881	3	3	471	1	0	0	0	0	1	0	0	0	17631	835	29	4	3317	4	ZFAT	8	135622881	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	11357102	135622881	10741141	72	24653											
EIF2C2	27161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141559351	141559351	+	Missense_Mutation	SNP	G	G	C																															gcacggctggccctggatggGcatgccggcgtctctcgaga																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	141559351	G	C	141559351	3	2	471	1	0	0	0	0	1	0	0	0	5006	1203	42	4	1161	4	EIF2C2	8	141559351	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	5936470	141559351	4804671	73	24654	353	2									
EIF2C2	27161	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	141559352	141559352	+	Missense_Mutation	SNP	C	C	A																															cacggctggccctggatgggCatgccggcgtctctcgagat																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	141559352	C	A	141559352	3	1	471	1	0	0	0	0	1	0	0	0	5006	710	25	4	1162	4	EIF2C2	8	141559352	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	1	141559352	4804670	74	24655	353	2									
TYRP1	7306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	12708083	12708083	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcccccagtcaccaacAcagaaatgtttgttactgct	10	11	7	13	0	2	1	1	0	1	1	2	1	2	1	3	1	3	3	3	1	3	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	12708083	A	G	12708083	3	3	471	1	0	0	0	0	1	0	0	0	16815	159	6	3	1370	3	TYRP1	9	12708083	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10		12708083	128505348	75	24656											
NOL6	65083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	33469655	33469655	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcagcccgtccttgtccTgtaggatttcctggaggggc	4	12	14	11	1	1	0	1	0	0	0	4	2	4	2	4	5	1	2	4	5	1	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	33469655	T	A	33469655	3	1	471	1	0	0	0	0	1	0	0	0	10525	1580	55	5	2959	5	NOL6	9	33469655	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	20761572	33469655	107743776	76	24657											
C9orf41	138199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	77632363	77632363	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccgctcatgcatactggTgctaaaacataaaaggtgtt	13	10	8	10	1	1	0	1	0	0	0	1	0	1	0	1	2	4	4	1	2	5	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	77632363	T	C	77632363	3	2	471	1	0	0	0	0	1	0	0	0	2482	1710	59	3	1025	3	C9orf41	9	77632363	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	44162708	77632363	63581068	77	24658											
DIP2C	22982	broad.mit.edu;ucsc.edu	37	chr10	409187	409187	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcctcttccgtggagtcagGcctctgctcagccacgatca	6	10	10	15	2	5	0	3	0	2	0	7	2	7	1	4	2	2	1	4	2	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	409187	T	T	409187	3	4	471	1	0	0	0	0	1	0	0	0	4529	1203	42	4	2196	4	DIP2C	10	409187	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		409187	135125560	78	24659											
KIN	22944	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	7829795	7829795	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcacctcgtcccggcaCtgcttctggcacatctggca	6	9	8	18	2	3	0	1	0	2	0	5	0	4	0	3	3	1	4	3	3	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	7829795	C	T	7829795	2	4	471	1	0	0	0	0	0	0	0	1	8315	564	20	2		2	KIN	10	7829795	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	7420608	7829795	127704952	79	24660											
CCNY	219771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	35819094	35819094	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacaaacacaacccagagCagaagcagatttaccggttc	16	6	8	11	1	0	4	0	1	0	3	1	4	0	4	2	1	5	3	2	1	4	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	35819094	C	G	35819094	3	3	471	1	0	0	0	0	1	0	0	0	2936	711	25	4	528	4	CCNY	10	35819094	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	27989299	35819094	99715653	80	24661											
ZMYND17	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75185797	75185797	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagctcatcatagtcccCtgggcgagtaagaaatgtct	12	9	9	11	1	3	1	2	0	1	1	4	2	4	1	3	1	1	2	3	1	4	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	75185797	C	T	75185797	3	4	471	1	0	0	0	0	1	0	0	0	17708	681	24	2	553	2	ZMYND17	10	75185797	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	39366703	75185797	60348950	81	24662											
OR51T1	401665	hgsc.bcm.edu;ucsc.edu	37	chr11	4903098	4903098	+	Frame_Shift_Del	DEL	C	C	-																															aaagaatcttaattatttttCtttcctcatagttcagtgtc																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		-	4903098	C	-	4903098	7	5	471	1	0	1	0	1	0	0	0	0	11106	913	32	0	52	0	OR51T1	11	4903098	Frame_Shift_Del	DEL	C	TCGA-CZ-5468-01A-01D-1501-10		4903098	130103418	82	24663											
MRGPRX3	117195	broad.mit.edu;hgsc.bcm.edu	37	chr11	18159570	18159570	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccccatcatttacttctTcgtgggctcctttaggcagc	7	13	7	14	1	2	0	1	0	1	0	4	0	3	0	3	2	3	2	3	2	3	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	18159570	T	A	18159570	3	1	471	1	0	0	0	0	1	0	0	0	9768	1783	62	5	823	5	MRGPRX3	11	18159570	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	13256472	18159570	116846946	83	24664											
NAV2	89797	hgsc.bcm.edu;ucsc.edu	37	chr11	20104550	20104550	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gactgacagtcttgtatattCagttacgcagctccttcaag	10	13	8	10	1	3	1	2	1	1	0	4	2	4	1	1	0	2	4	1	0	4	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	20104550	C	G	20104550	3	3	471	1	0	0	0	0	1	0	0	0	10184	827	29	4	5543	4	NAV2	11	20104550	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	1944980	20104550	114901966	84	24665											
VPS37C	55048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	60899492	60899492	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaccaggactgggggcccTgcctccccgcaaggggtacc	8	5	13	15	1	0	0	0	0	0	0	1	1	1	1	6	5	3	2	6	5	3	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	60899492	T	G	60899492	2	3	471	1	0	0	0	0	0	0	0	1	17206	1579	55	5		5	VPS37C	11	60899492	Silent	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	40794942	60899492	74107024	85	24666											
GAB2	9846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	77931466	77931466	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgttcgtgccactgggaaCgggagatgcagacactgggt	9	8	15	9	2	0	2	0	0	0	2	1	4	0	3	1	3	3	2	1	3	1	1	rs145573768		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	77931466	C	T	77931466	3	4	471	1	0	0	0	0	1	0	0	0	6149	536	19	1	252	1	GAB2	11	77931466	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	17031974	77931466	57075050	86	24667											
RNF26	79102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	119205888	119205888	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggtgctggacgtgctgaCcttggtgttggacctcaact	5	12	13	11	1	1	1	1	1	0	0	1	3	1	3	3	4	3	3	3	4	1	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	119205888	C	A	119205888	3	1	471	1	0	0	0	0	1	0	0	0	13488	507	18	4	58	4	RNF26	11	119205888	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	41274422	119205888	15800628	87	24668											
IGSF9B	22997	broad.mit.edu	37	chr11	133789678	133789678	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggggtctccggtcggagCaattcctcccccgtccttcg	3	10	13	15	4	1	0	0	0	1	0	7	1	4	1	5	5	1	1	5	5	1	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	133789678	T	T	133789678	2	4	471	1	0	0	0	0	0	0	0	1	7606	709	25	2		2	IGSF9B	11	133789678	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	14583790	133789678	1216838	88	24669											
AMN1	196394	hgsc.bcm.edu;ucsc.edu	37	chr12	31850290	31850290	+	RNA	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctttataattgttttaaaAttacctctaatttcttcgca	12	20	2	7	1	3	0	0	0	3	0	4	0	3	0	1	0	1	2	1	0	6	10	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	31850290	A	G	31850290	1	3	471	0	1	0	0	0	0	0	0	0	581	116	4	3		3	AMN1	12	31850290	RNA	SNP	A	TCGA-CZ-5468-01A-01D-1501-10		31850290	102001605	89	24670											
KRT2	3849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53043743	53043743	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagcagctgtgcgcttattGatttcatcctcatacctatt	8	16	6	11	1	3	1	3	1	0	0	4	1	4	1	2	0	4	3	2	0	3	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	53043743	G	A	53043743	2	1	471	1	0	0	0	0	0	0	0	1	8457	1280	45	2		2	KRT2	12	53043743	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	21193453	53043743	80808152	90	24671											
NXPH4	11247	broad.mit.edu	37	chr12	57618903	57618903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgtccatcaaggcggcGcgcgccaaaaagatcttcgg	11	5	12	13	6	2	1	1	0	1	1	4	1	3	1	3	3	1	0	3	3	4	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	57618903	A	A	57618903	2	1	471	1	0	0	0	0	0	0	0	1	10793	1074	38	1		1	NXPH4	12	57618903	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	4575160	57618903	76232992	91	24672											
MARS	4141	broad.mit.edu;hgsc.bcm.edu	37	chr12	57881962	57881962	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagagcagaggtgctcaTcagcactgtaggcccggaag	10	5	16	10	1	2	2	2	0	0	2	2	3	2	3	1	4	3	5	1	4	2	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	57881962	T	A	57881962	3	1	471	1	0	0	0	0	1	0	0	0	9316	1435	50	5	91	5	MARS	12	57881962	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	263059	57881962	75969933	92	24673											
CLIP1	6249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	122831951	122831951	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaactccctctggagttTgtcagctttggtcttttcaa	6	18	7	10	0	5	0	2	0	3	0	6	1	6	1	1	2	2	2	1	2	2	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	122831951	T	C	122831951	3	2	471	1	0	0	0	0	1	0	0	0	3532	1821	63	3	2907	3	CLIP1	12	122831951	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	64949989	122831951	11019944	93	24674											
MED4	29079	broad.mit.edu	37	chr13	48669155	48669155	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgctgttaccacccgcCactcccaaaccgcctcccag	7	7	7	20	3	0	0	0	0	0	0	2	0	2	0	7	0	3	2	7	0	2	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	48669155	T	T	48669155	2	4	471	1	0	0	0	0	0	0	0	1	9450	581	21	2		2	MED4	13	48669155	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10		48669155	66500723	94	24675											
OLFM4	10562	hgsc.bcm.edu;ucsc.edu	37	chr13	53624868	53624868	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctataacgatggttaccttCtgaattatgatctttctgtc	9	18	6	8	1	4	2	0	2	4	0	5	3	4	2	1	1	2	1	1	1	5	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	53624868	C	T	53624868	2	4	471	1	0	0	0	0	0	0	0	1	10855	912	32	2		2	OLFM4	13	53624868	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	4955713	53624868	61545010	95	24676											
CTAGE5	4253	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	39763224	39763224	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atggcggatatttcaaaaagGatacagtctctagaagatga	16	10	10	5	1	2	3	1	1	1	2	3	5	2	5	0	3	1	0	0	3	6	4	rs141828907	alternate_allele	TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	39763224	G	A	39763224	2	1	471	1	0	0	0	0	0	0	0	1	3994	1165	41	2		2	CTAGE5	14	39763224	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		39763224	67586316	96	24677											
SGPP1	81537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	64152863	64152863	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaatatgtaaggaacaaaaAatgtgatggagaaaccaacc	22	6	8	5	0	0	2	0	1	0	1	0	4	0	3	2	2	3	1	2	2	10	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	64152863	A	C	64152863	3	2	471	1	0	0	0	0	1	0	0	0	14221	14	1	5	43	5	SGPP1	14	64152863	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	24389639	64152863	43196677	97	24678											
CASC5	57082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	40949238	40949238	+	Splice_Site	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttttttttccttccccAgaggatcaagctcctccttc	5	17	5	14	0	1	1	1	0	0	1	6	2	5	2	5	1	1	2	5	1	1	7	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	40949238	A	T	40949238	5	4	471	1	0	0	0	0	0	0	1	0	2663	202	7	5	6651	5	CASC5	15	40949238	Splice_Site	SNP	A	TCGA-CZ-5468-01A-01D-1501-10		40949238	61582154	98	24679											
EIF3J	8669	broad.mit.edu	37	chr15	44829409	44829410	+	In_Frame_Ins	INS	-	ACT	ACT																															gagatggcggcggcggcggcINSggcggcgggggactcggact																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		ACT	44829410	ACT	ACT	44829409	7	5	471	1	0	1	1	0	0	0	0	0	5020	768	27	0	19	0	EIF3J	15	44829409	In_Frame_Ins	INS	-	TCGA-CZ-5468-01A-01D-1501-10	3880171	44829409	57701983	99	24680											
PYGO1	26108	broad.mit.edu;ucsc.edu	37	chr15	55841181	55841181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcctcctaacccatccagtCcactatcaccacctaaaaaa	14	8	2	17	0	1	0	1	0	0	0	5	0	5	0	7	0	1	0	7	0	5	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	55841181	T	T	55841181	3	4	471	1	0	0	0	0	1	0	0	0	12865	855	30	2	1205	2	PYGO1	15	55841181	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	11011772	55841181	46690211	100	24681											
TLN2	83660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	63092888	63092888	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacctcgctcctcaagactGtaaaggcagtggaggatgag	11	8	12	10	1	2	2	2	1	0	1	4	4	3	4	2	3	0	3	2	3	3	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	63092888	G	A	63092888	3	1	471	1	0	0	0	0	1	0	0	0	15947	1377	48	2	6583	2	TLN2	15	63092888	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	7251707	63092888	39438504	101	24682											
ZNF609	23060	hgsc.bcm.edu	37	chr15	64968215	64968215	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactctcaccaaggccccCagcctgacagacctggtgaa	11	5	8	17	0	1	3	1	2	1	1	2	3	1	3	6	2	2	0	6	2	3	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	64968215	C	A	64968215	2	1	471	1	0	0	0	0	0	0	0	1	18034	581	21	4		4	ZNF609	15	64968215	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	1875327	64968215	37563177	102	24683											
MAN2C1	4123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	75648339	75648339	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtcccgaagggtcaagtGgccagcagggtctggtcgct	6	9	16	10	2	2	0	1	0	1	0	4	1	3	0	2	4	1	3	2	4	2	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	75648339	G	T	75648339	3	4	471	1	0	0	0	0	1	0	0	0	9218	1348	47	4	95	4	MAN2C1	15	75648339	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	10680124	75648339	26883053	103	24684											
RHBDF1	64285	broad.mit.edu;ucsc.edu	37	chr16	109255	109255	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgtcacttgcccggcgtgCaggaagagggatagccacag	10	6	15	10	2	1	1	1	0	0	1	1	3	1	3	2	3	3	1	2	3	2	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	109255	T	T	109255	2	4	471	1	0	0	0	0	0	0	0	1	13321	697	25	2		2	RHBDF1	16	109255	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10		109255	90245498	104	24685											
CLCN7	1186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	1515299	1515299	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatcatccagctccacgCtgctcatatgtccgactcgg	7	11	8	15	3	3	0	3	0	0	0	7	1	6	0	3	1	2	4	3	1	1	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	1515299	C	T	1515299	3	4	471	1	0	0	0	0	1	0	0	0	3468	797	28	2	2331	2	CLCN7	16	1515299	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	1406044	1515299	88839454	105	24686											
RAB26	25837	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	2200042	2200042	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatctccaccgtaggcaTtgacttccgggtgagtggag	7	11	12	11	2	2	2	1	2	1	0	4	3	3	3	3	3	0	2	3	3	1	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	2200042	T	A	2200042	3	1	471	1	0	0	0	0	1	0	0	0	12915	1493	52	5	302	5	RAB26	16	2200042	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	684743	2200042	88154711	106	24687											
UBN1	29855	broad.mit.edu;ucsc.edu	37	chr16	4925034	4925034	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagcagctctcacaagAccccagcctcgtcctcttct	8	8	6	19	1	3	1	1	0	3	1	6	1	4	1	5	0	4	3	5	0	1	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	4925034	G	G	4925034	3	3	471	1	0	0	0	0	1	0	0	0	16891	275	10	3	2677	3	UBN1	16	4925034	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	2724992	4925034	85429719	107	24688											
MYH11	4629	broad.mit.edu;ucsc.edu	37	chr16	15826565	15826565	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctcctgctccctcttggcCcttggtgggaggaacacagt	6	10	11	14	0	1	0	0	0	1	0	3	2	3	2	4	4	2	1	4	4	1	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	15826565	G	G	15826565	3	3	471	1	0	0	0	0	1	0	0	0	10031	637	22	4	2506	4	MYH11	16	15826565	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	10901531	15826565	74528188	108	24689											
XYLT1	64131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	17202837	17202837	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctctgctccatgtaggcAttgcggaggggcccattgtg	7	10	14	10	1	1	0	0	0	1	0	2	1	2	1	2	4	3	4	2	4	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	17202837	A	G	17202837	2	3	471	1	0	0	0	0	0	0	0	1	17462	214	8	3		3	XYLT1	16	17202837	Silent	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	1376272	17202837	73151916	109	24690											
TMC5	79838	broad.mit.edu;hgsc.bcm.edu	37	chr16	19460864	19460864	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccttcctcttccctccagTgaaccctgcttatgtaggtg	5	14	7	15	0	1	1	0	1	1	0	5	1	5	1	5	1	2	2	5	1	3	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	19460864	T	G	19460864	3	3	471	1	0	0	0	0	1	0	0	0	15987	1710	59	5	969	5	TMC5	16	19460864	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	2258027	19460864	70893889	110	24691											
KIAA0174	0	broad.mit.edu;hgsc.bcm.edu	37	chr16	71951006	71951006	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgatctgggctgctcctcGactccagtcagaagtggctg	7	11	12	11	1	2	2	1	1	1	1	5	3	4	2	2	2	1	3	2	2	1	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	71951006	G	A	71951006	3	1	471	1	0	0	0	0	1	0	0	0	8158	1058	37	1	336	1	KIAA0174	16	71951006	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	52490142	71951006	18403747	111	24692											
CNTNAP4	85445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	76501348	76501348	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcaaagtggtagatcTgatttcagttcagcaggggt	10	10	14	7	1	3	2	2	1	1	1	3	2	3	2	0	4	2	4	0	4	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	76501348	T	A	76501348	3	1	471	1	0	0	0	0	1	0	0	0	3649	1580	55	5	1634	5	CNTNAP4	16	76501348	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	4550342	76501348	13853405	112	24693											
CDK12	51755	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	37646824	37646824	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttagtccaaaagaaactcTtccttcaaaacctgtgaaga	15	11	6	9	0	2	3	1	1	1	2	4	3	4	3	3	0	2	1	3	0	7	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	37646824	T	G	37646824	3	3	471	1	0	0	0	0	1	0	0	0	3128	1609	56	5	1956	5	CDK12	17	37646824	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10		37646824	43548386	113	24694											
CD300LG	146894	broad.mit.edu;ucsc.edu	37	chr17	41931340	41931340	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgcagggagctcccgccCccccatgcagctggactcca	6	6	10	19	1	0	0	0	0	0	0	3	2	3	2	6	2	4	4	6	2	0	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	41931340	G	G	41931340	3	3	471	1	0	0	0	0	1	0	0	0	3002	623	22	4	661	4	CD300LG	17	41931340	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	4284516	41931340	39263870	114	24695											
HLF	3131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	53345220	53345220	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttatgggacaaaacccttcCctatgacggagatactttcc	11	11	7	12	1	0	2	0	1	0	1	2	4	2	3	3	2	2	0	3	2	5	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	53345220	C	T	53345220	3	4	471	1	0	0	0	0	1	0	0	0	7214	623	22	2	230	2	HLF	17	53345220	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	11413880	53345220	27849990	115	24696											
MPO	4353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	56349016	56349016	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgcctgcccctcctcacCgatcaccatcccggagcttc	6	7	7	21	4	2	0	2	0	0	0	5	3	4	1	7	1	2	1	7	1	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	56349016	C	T	56349016	3	4	471	1	0	0	0	0	1	0	0	0	9732	666	23	1	215	1	MPO	17	56349016	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	3003796	56349016	24846194	116	24697											
MARCH10	162333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60814440	60814440	+	Silent	SNP	C	C	A																															ctaaatgatgcctttcttggCcctcctacagtggtgggtgt																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	60814440	C	A	60814440	2	1	471	1	0	0	0	0	0	0	0	1	9299	726	26	4		4	MARCH10	17	60814440	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	4465424	60814440	20380770	117	24698	354	2									
MARCH10	162333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	60814441	60814441	+	Missense_Mutation	SNP	C	C	G																															taaatgatgcctttcttggcCctcctacagtggtgggtgtg																								novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	60814441	C	G	60814441	3	3	471	1	0	0	0	0	1	0	0	0	9299	623	22	4	1662	4	MARCH10	17	60814441	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	1	60814441	20380769	118	24699	354	2									
SDK2	54549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	71420174	71420174	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggagccgtttctgtccagGcggatacgaggatggctctc	7	9	15	10	3	2	0	0	0	2	0	4	4	3	3	2	5	2	2	2	5	1	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	71420174	G	A	71420174	2	1	471	1	0	0	0	0	0	0	0	1	13971	1190	42	2		2	SDK2	17	71420174	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	10605733	71420174	9775036	119	24700											
RNF213	57674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78321744	78321744	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttcatcaatgtcaaagcAcatcatttccagaagaggca	16	9	7	9	0	4	2	4	0	0	2	5	2	5	2	1	1	1	3	1	1	4	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	78321744	A	G	78321744	2	3	471	1	0	0	0	0	0	0	0	1	13479	146	6	3		3	RNF213	17	78321744	Silent	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	6901570	78321744	2873466	120	24701											
MBD1	4152	hgsc.bcm.edu;ucsc.edu	37	chr18	47799227	47799227	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcctgcctcttcctcTggggccaatttggaggcaga	5	10	11	15	0	2	1	0	0	2	1	4	2	4	2	6	4	1	1	6	4	1	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	47799227	T	A	47799227	2	1	471	1	0	0	0	0	0	0	0	1	9342	1567	55	5		5	MBD1	18	47799227	Silent	SNP	T	TCGA-CZ-5468-01A-01D-1501-10		47799227	30278021	121	24702											
CDH7	1005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	63530103	63530103	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtcctacctgctggccTcagtacaggagccctgatag	8	10	10	13	0	1	1	1	1	0	0	2	2	2	2	4	2	4	2	4	2	4	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	63530103	T	A	63530103	3	1	471	1	0	0	0	0	1	0	0	0	3115	1551	54	5	1852	5	CDH7	18	63530103	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	15730876	63530103	14547145	122	24703											
ZNF536	9745	broad.mit.edu	37	chr19	30936491	30936491	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggatgagcggcgtggctcGggcagtgaccaggagtccca	7	6	17	11	3	0	2	0	2	0	0	2	4	1	4	2	5	1	2	2	5	0	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	30936491	A	A	30936491	2	1	471	1	0	0	0	0	0	0	0	1	17973	1103	39	1		1	ZNF536	19	30936491	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		30936491	28192492	123	24704											
CCDC97	90324	broad.mit.edu	37	chr19	41826334	41826334	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagttcaccagccgcatgcaCcagcgcttcctagatggcaa	10	7	10	14	2	1	1	1	0	0	1	2	2	2	1	4	1	3	5	4	1	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	41826334	T	T	41826334	2	4	471	1	0	0	0	0	0	0	0	1	2875	506	18	2		2	CCDC97	19	41826334	Silent	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	10889843	41826334	17302649	124	24705											
PSG8	440533	broad.mit.edu;hgsc.bcm.edu	37	chr19	43262176	43262176	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggagattcagggtgaatggGtcactgcggctggcactcac	9	8	15	9	1	3	2	3	1	0	1	3	3	3	2	0	5	1	2	0	5	1	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	43262176	G	T	43262176	3	4	471	1	0	0	0	0	1	0	0	0	12663	1252	44	4	626	4	PSG8	19	43262176	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	1435842	43262176	15866807	125	24706											
PVRL2	5819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45391608	45391608	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcctaccagggcaaaggctTtgtcatgtcccgggccatgt	7	11	11	12	1	1	0	1	0	0	0	3	0	3	0	4	3	1	2	4	3	2	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	45391608	T	C	45391608	3	2	471	1	0	0	0	0	1	0	0	0	12842	1841	64	3	2025	3	PVRL2	19	45391608	Missense_Mutation	SNP	T	TCGA-CZ-5468-01A-01D-1501-10	2129432	45391608	13737375	126	24707											
RELB	5971	broad.mit.edu	37	chr19	45525450	45525450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgcggctccggcctcAcgtcagcccccggcacaggt	5	5	14	17	4	2	0	2	0	0	0	3	0	3	0	4	5	2	2	4	5	0	0	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	45525450	G	G	45525450	3	3	471	1	0	0	0	0	1	0	0	0	13219	159	6	3	654	3	RELB	19	45525450	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	133842	45525450	13603533	127	24708											
SYMPK	8189	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46319803	46319803	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgccgctggcctccaaGatggtcatgatggagttagg	7	11	14	9	1	1	2	1	1	0	1	2	3	2	3	3	4	2	3	3	4	2	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	46319803	G	T	46319803	2	4	471	1	0	0	0	0	0	0	0	1	15438	932	33	4		4	SYMPK	19	46319803	Silent	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	794353	46319803	12809180	128	24709											
ZNF600	162966	broad.mit.edu;hgsc.bcm.edu	37	chr19	53269213	53269213	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtgtgaattctggtatgtCttgccaggtatgaattacgc	9	14	11	7	1	2	2	0	2	2	0	2	2	2	2	1	2	2	2	1	2	5	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	53269213	C	G	53269213	3	3	471	1	0	0	0	0	1	0	0	0	18029	913	32	4	376	4	ZNF600	19	53269213	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	6949410	53269213	5859770	129	24710			1	39		3	3	534	C		2.853887e-06
ZNF600	162966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53269727	53269727	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttatgaattagaagatCtgaattttgaccaaaggtct	14	14	8	5	0	2	6	0	4	2	2	2	6	2	6	1	1	0	0	1	1	6	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	53269727	C	A	53269727	3	1	471	1	0	0	0	0	1	0	0	0	18029	913	32	4	890	4	ZNF600	19	53269727	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	514	53269727	5859256	130	24711			1	39		3	3	534	C		2.853887e-06
ZNF600	162966	broad.mit.edu;hgsc.bcm.edu	37	chr19	53269746	53269746	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaattttgaccaaaggtCttcccacattcattacactt	11	15	4	11	0	3	2	1	2	2	0	4	2	4	2	2	1	1	0	2	1	3	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	53269746	C	A	53269746	3	1	471	1	0	0	0	0	1	0	0	0	18029	912	32	4	909	4	ZNF600	19	53269746	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	19	53269746	5859237	131	24712			1	39		3	3	534	C		2.853887e-06
UBOX5	22888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	3103217	3103217	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagattttctacttcgtaaCcatcagctgatatctagatt	11	16	6	8	1	3	3	1	2	2	2	4	4	3	3	1	0	3	2	1	0	4	8	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	3103217	C	T	3103217	3	4	471	1	0	0	0	0	1	0	0	0	16893	507	18	2	1569	2	UBOX5	20	3103217	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10		3103217	59922303	132	24713											
TMX4	56255	hgsc.bcm.edu	37	chr20	7963240	7963240	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgcaactgttcagctctAtgagcctcctctgatctccg	6	13	7	15	1	4	2	1	2	3	0	7	2	6	2	4	0	4	3	4	0	2	2	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	7963240	A	T	7963240	3	4	471	1	0	0	0	0	1	0	0	0	16268	446	16	5	345	5	TMX4	20	7963240	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	4860023	7963240	55062280	133	24714											
ABHD12	26090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	25282909	25282909	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatttgtgcctgtagccaAggtctgaatgaaagggcaca	11	11	12	7	0	1	2	0	2	1	0	1	2	1	2	2	2	2	3	2	2	5	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		C	25282909	A	C	25282909	3	2	471	1	0	0	0	0	1	0	0	0	76	72	3	5	163	5	ABHD12	20	25282909	Missense_Mutation	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	17319669	25282909	37742611	134	24715											
PHF20	51230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34459730	34459730	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctccccttgtggaattaCaagagatttcgactgtggaa	10	13	9	9	1	1	1	0	0	1	1	3	5	1	3	2	2	1	0	2	2	4	4	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	34459730	C	A	34459730	3	1	471	1	0	0	0	0	1	0	0	0	11831	479	17	4	1291	4	PHF20	20	34459730	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10	9176821	34459730	28565790	135	24716											
LIPI	149998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	15579141	15579141	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttaaaagagattacctgatCtcaggcacacaactagaagc	16	8	8	9	0	1	3	1	1	1	2	2	4	1	3	1	1	3	2	1	1	6	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		T	15579141	C	T	15579141	3	4	471	1	0	0	0	0	1	0	0	0	8825	913	32	2	1381	2	LIPI	21	15579141	Missense_Mutation	SNP	C	TCGA-CZ-5468-01A-01D-1501-10		15579141	32550754	136	24717											
RWDD2B	10069	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	30380357	30380357	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactctgtggcattcagtatAcaaacatctccatgacaatg	13	11	6	11	0	3	1	1	1	2	0	4	1	3	1	1	1	2	2	1	1	4	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		G	30380357	A	G	30380357	2	3	471	1	0	0	0	0	0	0	0	1	13758	389	14	3		3	RWDD2B	21	30380357	Silent	SNP	A	TCGA-CZ-5468-01A-01D-1501-10	14801216	30380357	17749538	137	24718											
DSCAM	1826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	41741148	41741148	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttaatatacaaggctcccGtggatgtgatgagaaatcta	13	12	9	7	1	1	2	0	2	1	1	2	4	2	3	1	2	1	1	1	2	6	5	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	41741148	G	A	41741148	3	1	471	1	0	0	0	0	1	0	0	0	4768	1145	40	1	5625	1	DSCAM	21	41741148	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	11360791	41741148	6388747	138	24719											
PPIL2	23759	broad.mit.edu;ucsc.edu	37	chr22	22024876	22024876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccacaaacaaattttcGtcgtttaccttttgaccact	10	15	3	13	2	1	1	0	1	1	0	4	1	1	1	3	0	2	1	3	0	3	6	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	22024876	A	A	22024876	3	1	471	1	0	0	0	0	1	0	0	0	12329	1145	40	1	114	1	PPIL2	22	22024876	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		22024876	29279690	139	24720											
ENTHD1	150350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40283658	40283658	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctaacatcagagaactagagGgaccccaagggtcgttagaa	15	6	11	9	1	1	3	1	0	0	3	2	5	1	4	2	2	2	1	2	2	6	3	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	40283658	G	A	40283658	3	1	471	1	0	0	0	0	1	0	0	0	5137	1232	43	2	1752	2	ENTHD1	22	40283658	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10	18258782	40283658	11020908	140	24721											
MXRA5	25878	broad.mit.edu;hgsc.bcm.edu	37	chrX	3235733	3235733	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgatgcggccctccacggGggacacagtttgccacaccc	7	6	13	15	2	0	1	0	1	0	0	1	2	1	2	4	4	2	1	4	4	0	1	novel		TCGA-CZ-5468-01A-01D-1501-10	TCGA-CZ-5468-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	50c6b5a2-cd0e-4adf-b85f-0f9c1847477f	8cfcc68d-a85b-4f22-af99-5cc68d65559f		A	3235733	G	A	3235733	3	1	471	1	0	0	0	0	1	0	0	0	10003	1232	43	2	2505	2	MXRA5	23	3235733	Missense_Mutation	SNP	G	TCGA-CZ-5468-01A-01D-1501-10		3235733	152034827	141	24722											
HSPG2	3339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22222714	22222714	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcatcatcagaaaggtaCgaatgtgtccagcgcatttg	11	11	9	10	2	3	1	3	0	0	1	5	2	5	1	2	1	2	2	2	1	3	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	22222714	C	T	22222714	2	4	472	1	0	0	0	0	0	0	0	1	7430	523	19	1		1	HSPG2	1	22222714	Silent	SNP	C	TCGA-CZ-5469-01A-01D-1501-10		22222714	227027907	1	24723											
TINAGL1	64129	broad.mit.edu;ucsc.edu	37	chr1	32050373	32050373	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttgaccaaggcaactGtgcaggctcctgggccttct	6	10	11	14	0	2	1	0	1	2	0	3	1	3	1	4	3	2	3	4	3	2	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	32050373	T	T	32050373	3	4	472	1	0	0	0	0	1	0	0	0	15921	1377	48	4	695	4	TINAGL1	1	32050373	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	9827659	32050373	217200248	2	24724											
THRAP3	9967	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	36755253	36755253	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaagacctctgagagcCgagacaagctgggagcgaaa	16	3	13	9	2	1	4	0	1	1	4	1	8	1	5	2	1	3	1	2	1	4	0	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	36755253	C	T	36755253	4	4	472	1	0	0	0	0	0	1	0	0	15873	644	23	1	1643	1	THRAP3	1	36755253	Nonsense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	4704880	36755253	212495368	3	24725											
AMPD2	271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110170727	110170727	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ggacacccacatccatgcctCgtcctgcatgaaccagaagc	11	6	8	16	1	0	2	0	1	0	1	3	3	2	3	5	1	4	1	5	1	2	0	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		G	110170727	C	G	110170727	3	3	472	1	0	0	0	0	1	0	0	0	586	893	31	4	1344	4	AMPD2	1	110170727	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	73415474	110170727	139079894	4	24726											
DCST2	127579	broad.mit.edu;ucsc.edu	37	chr1	155002622	155002622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgtgggcagccctgccGtggagcgcacagcctccatg	6	6	14	15	2	0	0	0	0	0	0	1	1	1	1	4	2	4	3	4	2	0	0	rs138904334		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	155002622	A	A	155002622	3	1	472	1	0	0	0	0	1	0	0	0	4303	1145	40	1	1242	1	DCST2	1	155002622	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	44831895	155002622	94247999	5	24727											
GON4L	54856	broad.mit.edu;hgsc.bcm.edu	37	chr1	155764938	155764938	+	Silent	SNP	T	T	C																															ggatcatcatcatcatctgcTtcatctaggaaaaaaaagtg																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	155764938	T	C	155764938	2	2	472	1	0	0	0	0	0	0	0	1	6572	1606	56	3		3	GON4L	1	155764938	Silent	SNP	T	TCGA-CZ-5469-01A-01D-1501-10	762316	155764938	93485683	6	24728	355	2									
GON4L	54856	broad.mit.edu;hgsc.bcm.edu	37	chr1	155764940	155764940	+	Missense_Mutation	SNP	C	C	T																															atcatcatcatcatctgcttCatctaggaaaaaaaagtgtt																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	155764940	C	T	155764940	3	4	472	1	0	0	0	0	1	0	0	0	6572	835	29	2	5275	2	GON4L	1	155764940	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	2	155764940	93485681	7	24729	355	2									
PSEN2	5664	broad.mit.edu;hgsc.bcm.edu	37	chr1	227073330	227073330	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatgatcagcgtcatcGtggttatgaccatcttcttg	8	15	8	10	2	6	2	4	2	2	0	7	2	6	2	1	1	1	1	1	1	1	3	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	227073330	G	T	227073330	3	4	472	1	0	0	0	0	1	0	0	0	12653	1145	40	4	458	4	PSEN2	1	227073330	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	71308390	227073330	22177291	8	24730											
CEP68	23177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	65300044	65300044	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtggccattctcagaccCagatgttgaagggcagcttc	8	9	12	12	1	1	3	1	1	1	2	3	3	1	3	3	3	1	3	3	3	1	3	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	65300044	C	A	65300044	3	1	472	1	0	0	0	0	1	0	0	0	3258	594	21	4	1820	4	CEP68	2	65300044	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10		65300044	177899329	9	24731											
ANKRD23	200539	broad.mit.edu	37	chr2	97505515	97505515	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcagcagtagcttcatggcTttgtagctgccgtgccgcac	7	10	12	12	2	1	0	1	0	0	0	1	0	1	0	2	1	6	8	2	1	2	4	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	97505515	C	C	97505515	2	2	472	1	0	0	0	0	0	0	0	1	652	1606	56	3		3	ANKRD23	2	97505515	Silent	SNP	T	TCGA-CZ-5469-01A-01D-1501-10	32205471	97505515	145693858	10	24732											
VHL	7428	hgsc.bcm.edu	37	chr3	10183797	10183797	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtgctgcccgtatggcTcaacttcgacggcgagccgc	5	8	13	15	7	1	0	1	0	0	0	3	2	1	0	2	2	4	3	2	2	2	2	rs5030807	bycluster	TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PacBio	.	.	Illumina MiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	10183797	T	A	10183797	3	1	472	1	0	0	0	0	1	0	0	0	17161	1551	54	5	268	5	VHL	3	10183797	Missense_Mutation	SNP	T	TCGA-CZ-5469-01A-01D-1501-10		10183797	187838633	11	24733											
CDC25A	993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	48215854	48215854	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctttgtacttccaggtgGagactcctcttgagatcgtt	6	15	9	11	1	2	2	0	1	2	2	5	4	4	2	3	2	1	2	3	2	1	5	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	48215854	G	T	48215854	3	4	472	1	0	0	0	0	1	0	0	0	3062	1174	41	4	752	4	CDC25A	3	48215854	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	38032057	48215854	149806576	12	24734											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu	37	chr3	52441261	52441261	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgataggcacatagctgacaAagtggaacgcctccatggtc	12	8	11	10	1	0	2	0	2	0	0	2	3	1	3	2	3	2	2	2	3	4	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	52441261	A	C	52441261	3	2	472	1	0	0	0	0	1	0	0	0	1311	14	1	5	1724	5	BAP1	3	52441261	Missense_Mutation	SNP	A	TCGA-CZ-5469-01A-01D-1501-10	4225407	52441261	145581169	13	24735											
PLXND1	23129	broad.mit.edu;ucsc.edu	37	chr3	129308262	129308262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacgctggccacggccaCggaggtgaggcccggggcgc	5	4	19	13	5	0	2	0	2	0	0	0	3	0	3	3	7	0	2	3	7	0	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	129308262	T	T	129308262	3	4	472	1	0	0	0	0	1	0	0	0	12127	536	19	1	4497	1	PLXND1	3	129308262	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	76867001	129308262	68714168	14	24736											
DNAJC13	23317	hgsc.bcm.edu;ucsc.edu	37	chr3	132211264	132211275	+	In_Frame_Del	DEL	GATGATAGAGAA	GATGATAGAGAA	-																															ttttatgattgtaggcgcctGatgatagagaagattgctgc																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	GATGATAGAGAA	GATGATAGAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		-	132211275	GATGATAGAGAA	-	132211264	7	5	472	1	0	1	0	1	0	0	0	0	4632	1277	45	0	3756	0	DNAJC13	3	132211264	In_Frame_Del	DEL	GATGATAGAGAA	TCGA-CZ-5469-01A-01D-1501-10	2903002	132211264	65811166	15	24737											
TXNDC6	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	138023808	138023808	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcgaagccctcagtcctgGtgaggatcaggaggtggctt	7	9	14	11	1	2	1	2	1	0	0	4	4	3	3	3	5	1	1	3	5	1	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	138023808	G	C	138023808	3	2	472	1	0	0	0	0	1	0	0	0	16799	1261	44	4	288	4	TXNDC6	3	138023808	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	5812544	138023808	59998622	16	24738											
ZBBX	79740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	167000169	167000169	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaagcagctctagatgatGattgagcagctgcacttctt	11	11	10	9	0	2	5	0	3	2	2	2	5	2	5	0	0	5	5	0	0	2	4	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	167000169	G	A	167000169	3	1	472	1	0	0	0	0	1	0	0	0	17515	1294	45	2	420	2	ZBBX	3	167000169	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	28976361	167000169	31022261	17	24739											
MUC4	4585	broad.mit.edu	37	chr3	195515059	195515059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagaggtggcgtgacctGtggatgctgaggaagtgtcg	9	8	19	5	2	0	3	0	2	0	1	1	7	0	5	1	4	1	1	1	4	2	0	rs71321846		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	195515059	A	A	195515059	3	1	472	1	0	0	0	0	1	0	0	0	9978	1377	48	2		2	MUC4	3	195515059	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	28514890	195515059	2507371	18	24740											
PCDHA11	56138	broad.mit.edu	37	chr5	140250599	140250599	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacaacgcgtgccctggaCgaggcagactcgccgcgcca	9	3	13	16	6	0	1	0	0	0	1	1	3	0	2	3	2	3	2	3	2	1	0	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	140250599	T	T	140250599	2	4	472	1	0	0	0	0	0	0	0	1	11521	535	19	1		1	PCDHA11	5	140250599	Silent	SNP	C	TCGA-CZ-5469-01A-01D-1501-10		140250599	40664661	19	24741											
HLA-C	3107	broad.mit.edu	37	chr6	31237140	31237140	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgatgagagactcatcAgagccctgggcactgttgct	10	9	12	10	0	2	4	2	2	0	2	2	5	2	4	1	1	2	3	1	1	1	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	31237140	T	T	31237140	2	4	472	1	0	0	0	0	0	0	0	1	7197	175	7	5		5	HLA-C	6	31237140	Silent	SNP	A	TCGA-CZ-5469-01A-01D-1501-10		31237140	139877927	20	24742											
RIMS1	22999	broad.mit.edu	37	chr6	72892128	72892128	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaggcgggaaagccgaagGcttgagaaagggcgatcaca	15	3	16	7	3	1	1	1	1	0	1	1	6	1	2	1	4	1	1	1	4	4	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	72892128	T	T	72892128	3	4	472	1	0	0	0	0	1	0	0	0	13369	1194	42	4	976	4	RIMS1	6	72892128	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	41654988	72892128	98222939	21	24743											
SNAP91	9892	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	84302945	84302945	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcagcatctggcttaggcGctgcagcaacttcaggagtg	9	8	14	10	1	2	0	1	0	1	0	2	2	2	1	0	3	5	6	0	3	2	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	84302945	G	A	84302945	3	1	472	1	0	0	0	0	1	0	0	0	14835	1087	38	1	1037	1	SNAP91	6	84302945	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	11410817	84302945	86812122	22	24744											
HIVEP2	3097	broad.mit.edu	37	chr6	143093080	143093080	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgggtggcaacttctcCgcggggagctgggaaagggt	6	11	17	7	2	1	0	0	0	1	0	2	2	1	2	1	6	2	2	1	6	2	3	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	143093080	T	T	143093080	2	4	472	1	0	0	0	0	0	0	0	1	7187	639	23	1		1	HIVEP2	6	143093080	Silent	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	58790135	143093080	28021987	23	24745											
SRPK2	6733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	104844182	104844182	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggcggtggtggtggtGgtggcggtggaggaggagga	6	7	26	2	2	0	0	0	0	0	0	0	4	0	4	0	13	0	0	0	13	1	0	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	104844182	G	C	104844182	3	2	472	1	0	0	0	0	1	0	0	0	15161	1348	47	4	2033	4	SRPK2	7	104844182	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10		104844182	54294481	24	24746											
WNT2	7472	broad.mit.edu;ucsc.edu	37	chr7	116918296	116918296	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtcctgacagcgcacggcGcagcaccagtggaacttaca	11	5	11	14	3	0	1	0	1	0	0	1	2	1	2	2	2	4	3	2	2	2	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	116918296	C	C	116918296	3	2	472	1	0	0	0	0	1	0	0	0	17385	1079	38	4	90	4	WNT2	7	116918296	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	12074114	116918296	42220367	25	24747											
AKR1B10	57016	broad.mit.edu	37	chr7	134212620	134212620	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaacagagagcaggacGtgagacttctacctgctcac	13	6	10	12	1	2	2	1	1	1	2	2	5	2	3	1	1	5	3	1	1	2	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	134212620	A	A	134212620	1	1	472	1	0	0	0	0	0	0	0	0	467	1160	40	1		1	AKR1B10	7	134212620	Translation_Start_Site	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	17294324	134212620	24926043	26	24748											
RRS1	23212	broad.mit.edu	37	chr8	67341565	67341565	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agctacaggccctggcgcggGacaacacgcaactgctcatc	10	5	11	15	3	1	0	1	0	0	0	2	1	1	1	1	3	5	3	1	3	3	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	67341565	C	C	67341565	3	2	472	1	0	0	0	0	1	0	0	0	13694	1174	41	4	201	4	RRS1	8	67341565	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10		67341565	79022457	27	24749											
STAU2	27067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	74440017	74440017	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcacacactctttgccaCtttgtctatcacagtagtga	10	13	7	11	0	4	1	2	1	2	0	4	1	4	1	1	1	1	1	1	1	2	4	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	74440017	C	A	74440017	3	1	472	1	0	0	0	0	1	0	0	0	15274	565	20	4	285	4	STAU2	8	74440017	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	7098452	74440017	71924005	28	24750											
ABCC2	1244	hgsc.bcm.edu;ucsc.edu	37	chr10	101567974	101568006	+	Frame_Shift_Del	DEL	CTCCATGCTCCAGGTAGGTCGGCATTCTCACTG	CTCCATGCTCCAGGTAGGTCGGCATTCTCACTG	-																															atgcttcccatgatgatctcCtccatgctccaggtaggtcg																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	CTCCATGCTCCAGGTAGGTCGGCATTCTCACTG	CTCCATGCTCCAGGTAGGTCGGCATTCTCACTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		-	101568006	CTCCATGCTCCAGGTAGGTCGGCATTCTCACTG	-	101567974	7	5	472	1	0	1	0	1	0	0	0	0	53	668	24	0	1853	0	ABCC2	10	101567974	Frame_Shift_Del	DEL	CTCCATGCTCCAGGTAGGTCGGCATTCTCACTG	TCGA-CZ-5469-01A-01D-1501-10		101567974	33966773	29	24751											
LRRC55	219527	broad.mit.edu	37	chr11	56958045	56958045	+	RNA	DEL	G	-	-																															ctggttaacatgtatgtgatGgggtatctctgcatctgtat																								rs34507924		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		-	56958045	-	-	56958045	6	5	472	0	1	1	0	1	0	0	0	0	9011	1363	47	0		0	LRRC55	11	56958045	RNA	DEL	G	TCGA-CZ-5469-01A-01D-1501-10		56958045	78048471	30	24752											
NANOG	79923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7947298	7947298	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagcacctacctacccCagcctttactcttcctacca	8	10	3	20	0	2	0	1	0	1	0	3	0	3	0	8	0	6	1	8	0	4	6	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	7947298	C	T	7947298	2	4	472	1	0	0	0	0	0	0	0	1	10150	581	21	2		2	NANOG	12	7947298	Silent	SNP	C	TCGA-CZ-5469-01A-01D-1501-10		7947298	125904597	31	24753											
KRT73	319101	hgsc.bcm.edu;ucsc.edu	37	chr12	53011976	53011977	+	Frame_Shift_Ins	INS	-	-	T																															tcaggggtgccaggaggctcINSttgttgatggtgacctgatg																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	53011977	-	T	53011976	7	5	472	1	0	1	1	0	0	0	0	0	8486	912	32	0	1325	0	KRT73	12	53011976	Frame_Shift_Ins	INS	-	TCGA-CZ-5469-01A-01D-1501-10	45064678	53011976	80839919	32	24754											
EIF2B1	1967	broad.mit.edu;hgsc.bcm.edu	37	chr12	124116921	124116921	+	Missense_Mutation	SNP	G	G	A																															tcttcaagaactccagcaacGtccggatggcagccactgct																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	124116921	G	A	124116921	3	1	472	1	0	0	0	0	1	0	0	0	5000	1145	40	1	863	1	EIF2B1	12	124116921	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	71104945	124116921	9734974	33	24755	356	2									
EIF2B1	1967	broad.mit.edu;hgsc.bcm.edu	37	chr12	124116922	124116922	+	Missense_Mutation	SNP	T	T	A																															cttcaagaactccagcaacgTccggatggcagccactgctg																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	124116922	T	A	124116922	3	1	472	1	0	0	0	0	1	0	0	0	5000	1667	58	5	864	5	EIF2B1	12	124116922	Missense_Mutation	SNP	T	TCGA-CZ-5469-01A-01D-1501-10	1	124116922	9734973	34	24756	356	2									
OCA2	4948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	28267703	28267703	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagctttccttgatccggaTataggctgaacaaaatctgt	12	12	9	8	1	1	3	0	2	1	1	3	4	3	4	2	2	2	2	2	2	5	4	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		G	28267703	T	G	28267703	3	3	472	1	0	0	0	0	1	0	0	0	10815	1406	49	5	2002	5	OCA2	15	28267703	Missense_Mutation	SNP	T	TCGA-CZ-5469-01A-01D-1501-10		28267703	74263689	35	24757											
AKAP13	11214	broad.mit.edu;ucsc.edu	37	chr15	86118435	86118435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggagactgttctgtgaggCatcatcgagagttggacatc	10	11	13	7	1	2	3	1	1	1	2	4	6	2	4	0	3	0	3	0	3	0	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	86118435	T	T	86118435	3	4	472	1	0	0	0	0	1	0	0	0	449	710	25	2	754	2	AKAP13	15	86118435	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	57850732	86118435	16412957	36	24758											
FLYWCH1	84256	broad.mit.edu;hgsc.bcm.edu	37	chr16	2983245	2983245	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaaggtgtattggacctGccgggaccacgcgctgcacg	8	6	15	12	4	0	0	0	0	0	0	0	3	0	3	3	4	2	3	3	4	2	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	2983245	G	A	2983245	3	1	472	1	0	0	0	0	1	0	0	0	5947	1319	46	2	918	2	FLYWCH1	16	2983245	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10		2983245	87371508	37	24759											
OR2C1	4993	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3406081	3406081	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaactcaaccatcatcttGctttcccgcctggaggcccg	7	9	10	15	2	3	0	2	0	1	0	4	2	4	2	4	3	3	1	4	3	2	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	3406081	G	A	3406081	2	1	472	1	0	0	0	0	0	0	0	1	10992	1310	46	2		2	OR2C1	16	3406081	Silent	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	422836	3406081	86948672	38	24760											
SCNN1B	6338	broad.mit.edu	37	chr16	23360188	23360188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgtaggcttcaagaccAtggacttccctgccgtcacc	7	10	8	16	2	3	1	2	0	1	1	5	2	4	2	5	2	1	2	5	2	2	3	rs150466803		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		G	23360188	G	G	23360188	3	3	472	1	0	0	0	0	1	0	0	0	13930	217	8	3	270	3	SCNN1B	16	23360188	Missense_Mutation	SNP	A	TCGA-CZ-5469-01A-01D-1501-10	19954107	23360188	66994565	39	24761											
KIAA0513	9764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	85120766	85120766	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggctgtgattggcaacctgGatgaaggtgcgtctggggga	8	9	18	6	1	1	2	0	2	1	0	1	4	1	4	1	6	2	2	1	6	2	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	85120766	G	C	85120766	3	2	472	1	0	0	0	0	1	0	0	0	8181	1174	41	4	1222	4	KIAA0513	16	85120766	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10	61760578	85120766	5233987	40	24762											
SEZ6	124925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27286442	27286442	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgtagggctctggccagttgGgagagagtaccacgccagcc	8	6	15	12	2	1	1	0	0	1	1	1	3	1	2	4	3	2	4	4	3	2	3	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	27286442	G	A	27286442	3	1	472	1	0	0	0	0	1	0	0	0	14144	1232	43	2	1213	2	SEZ6	17	27286442	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10		27286442	53908768	41	24763											
CASKIN2	57513	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	73500959	73500959	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagggtgcgggggttcttCggcaggaggctgcggtgtcc	5	8	20	8	3	1	1	0	0	1	1	3	2	2	2	1	7	2	3	1	7	1	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	73500959	C	T	73500959	3	4	472	1	0	0	0	0	1	0	0	0	2667	893	31	1	2522	1	CASKIN2	17	73500959	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	46214517	73500959	7694251	42	24764											
POLI	11201	broad.mit.edu;ucsc.edu	37	chr18	51809261	51809261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgggtatcaatagtgtgcGtgatctccaaaccttttcac	10	13	8	10	1	3	1	2	1	1	0	4	1	3	1	2	1	2	1	2	1	4	4	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	51809261	A	A	51809261	3	1	472	1	0	0	0	0	1	0	0	0	12203	1145	40	1	873	1	POLI	18	51809261	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10		51809261	26267987	43	24765											
OR10H5	284433	broad.mit.edu	37	chr19	15905371	15905371	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcgccttctgtggacaCaaggagatccaccatttctt	9	11	7	14	1	2	1	0	0	2	1	4	3	3	2	4	2	0	0	4	2	1	3	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	15905371	A	A	15905371	3	1	472	1	0	0	0	0	1	0	0	0	10909	477	17	4	515	4	OR10H5	19	15905371	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10		15905371	43223612	44	24766											
MYH14	79784	broad.mit.edu	37	chr19	50733855	50733855	+	Frame_Shift_Del	DEL	G	-	-																															cacatcttctaccagctgctGgggggcgctggagagcagct																								novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		-	50733855	-	-	50733855	7	5	472	1	0	1	0	1	0	0	0	0	10033	1335	47	0	978	0	MYH14	19	50733855	Frame_Shift_Del	DEL	G	TCGA-CZ-5469-01A-01D-1501-10	34828484	50733855	8395128	45	24767											
ZNF649	65251	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52394722	52394722	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtgagctctctcgtgttCagtgagcctgtacttcttgt	4	17	10	10	1	4	2	1	2	3	0	6	2	4	2	1	0	3	3	1	0	1	4	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	52394722	C	T	52394722	3	4	472	1	0	0	0	0	1	0	0	0	18063	835	29	2	854	2	ZNF649	19	52394722	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	1660867	52394722	6734261	46	24768											
PREX1	57580	broad.mit.edu;hgsc.bcm.edu	37	chr20	47244458	47244458	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcaacccgtggctccGtgccaagatggccgcctgct	6	6	14	15	3	0	1	0	0	0	1	1	1	1	1	5	3	4	4	5	3	2	0	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	47244458	G	A	47244458	3	1	472	1	0	0	0	0	1	0	0	0	12478	1144	40	1	181	1	PREX1	20	47244458	Missense_Mutation	SNP	G	TCGA-CZ-5469-01A-01D-1501-10		47244458	15781062	47	24769											
KRTAP15-1	254950	broad.mit.edu;hgsc.bcm.edu	37	chr21	31812784	31812784	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccaactgggctcctctCtctacaatggctgtcaggag	7	10	10	14	0	3	0	1	0	2	0	5	1	4	1	3	3	3	2	3	3	3	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	31812784	C	A	31812784	3	1	472	1	0	0	0	0	1	0	0	0	8526	913	32	4	141	4	KRTAP15-1	21	31812784	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10		31812784	16317111	48	24770											
MED15	51586	broad.mit.edu;ucsc.edu	37	chr22	20929497	20929497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtcaagctccatcccttTgggcagacagcccatggcac	8	7	9	17	1	1	1	1	0	0	1	3	1	3	1	4	2	2	3	4	2	1	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	20929497	C	C	20929497	3	2	472	1	0	0	0	0	1	0	0	0	9433	1821	63	3	1284	3	MED15	22	20929497	Missense_Mutation	SNP	T	TCGA-CZ-5469-01A-01D-1501-10		20929497	30375069	49	24771											
CENPM	79019	broad.mit.edu	37	chr22	42335169	42335169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagcacgcgcaccaggCgctgcgccatggtggcccta	6	6	13	16	4	1	0	0	0	1	0	1	0	1	0	3	3	3	4	3	3	1	1	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		A	42335169	A	A	42335169	3	1	472	1	0	0	0	0	1	0	0	0	3237	768	27	4	112	4	CENPM	22	42335169	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	21405672	42335169	8969397	50	24772											
MED12	9968	broad.mit.edu	37	chrX	70360569	70360569	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgtccaggcaggcgtccgTtcaacagccatcctacctga	8	7	11	15	3	1	1	1	1	0	0	4	1	4	1	5	3	3	2	5	3	2	2	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	70360569	C	C	70360569	2	2	472	1	0	0	0	0	0	0	0	1	9428	1712	60	3		3	MED12	23	70360569	Silent	SNP	T	TCGA-CZ-5469-01A-01D-1501-10		70360569	84909991	51	24773											
NHSL2	340527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	71358471	71358471	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggacgaacctcaccaggCacggagtggcccaaaccctc	10	3	11	17	3	1	0	1	0	0	0	2	3	1	2	5	4	2	1	5	4	2	0	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		T	71358471	C	T	71358471	3	4	472	1	0	0	0	0	1	0	0	0	10412	710	25	2	1095	2	NHSL2	23	71358471	Missense_Mutation	SNP	C	TCGA-CZ-5469-01A-01D-1501-10	997902	71358471	83912089	52	24774											
KIAA2022	340533	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	73963362	73963362	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactctcgcttggggcaggTagtaaagacgctgggaaaaa	13	7	14	7	2	1	2	0	0	1	2	2	3	1	3	0	4	0	5	0	4	5	3	novel		TCGA-CZ-5469-01A-01D-1501-10	TCGA-CZ-5469-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	3df654a0-48b0-45ff-bfe1-b5f78f63b30d	774be195-fc56-42e0-ad6f-260df24d5f23		C	73963362	T	C	73963362	3	2	472	1	0	0	0	0	1	0	0	0	8269	1638	57	3	3528	3	KIAA2022	23	73963362	Missense_Mutation	SNP	T	TCGA-CZ-5469-01A-01D-1501-10	2604891	73963362	81307198	53	24775											
MEGF6	1953	broad.mit.edu	37	chr1	3519151	3519152	+	Frame_Shift_Del	DEL	CA	-	-																															cagggtcagctcctgctcagCacacacgtggggcctggaac																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	3519152	-	-	3519151	7	5	473	1	0	1	0	1	0	0	0	0	9462	710	25	0	4624	0	MEGF6	1	3519151	Frame_Shift_Del	DEL	CA	TCGA-CZ-5470-01A-01D-1501-10		3519151	245731470	1	24776											
DAB1	1600	broad.mit.edu	37	chr1	57481090	57481090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggacgggaggacagcgcCcattgcaacgtaacctggga	12	4	15	10	3	0	0	0	0	0	0	0	5	0	4	2	4	4	2	2	4	3	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	57481090	T	T	57481090	3	4	473	1	0	0	0	0	1	0	0	0	4217	623	22	2	769	2	DAB1	1	57481090	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	53961939	57481090	191769531	2	24777											
JUN	3725	broad.mit.edu;hgsc.bcm.edu	37	chr1	59248705	59248705	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaggaacgaggcgttgaggGcatcgtcatagaaggtcgtt	10	8	17	6	4	1	2	1	1	0	1	3	5	1	4	0	5	1	3	0	5	3	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	59248705	G	T	59248705	3	4	473	1	0	0	0	0	1	0	0	0	7969	1203	42	4	961	4	JUN	1	59248705	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	1767615	59248705	190001916	3	24778											
MTMR11	10903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	149908474	149908474	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccaaattccttctccttaCccccatctctggctcctcct	5	13	2	21	0	2	0	0	0	2	0	7	0	5	0	8	1	1	1	8	1	2	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	149908474	C	T	149908474	5	4	473	1	0	0	0	0	0	0	1	0	9940	521	18	2	2169	2	MTMR11	1	149908474	Splice_Site	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	90659769	149908474	99342147	4	24779											
USF1	7391	hgsc.bcm.edu;ucsc.edu	37	chr1	161011524	161011524	+	Frame_Shift_Del	DEL	C	C	-																															ctgtactccccgatgtggtaCcccctgccccatctcccact																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	161011524	C	-	161011524	7	5	473	1	0	1	0	1	0	0	0	0	17031	507	18	0	567	0	USF1	1	161011524	Frame_Shift_Del	DEL	C	TCGA-CZ-5470-01A-01D-1501-10	11103050	161011524	88239097	5	24780											
KCNT2	343450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	196254849	196254849	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagcagcaaaaggcagtcGaaacataaaggccaagttag	17	4	10	10	1	0	0	0	0	0	0	1	1	0	0	2	2	3	4	2	2	7	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	196254849	G	A	196254849	4	1	473	1	0	0	0	0	0	1	0	0	8092	1066	37	1	796	1	KCNT2	1	196254849	Nonsense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	35243325	196254849	52995772	6	24781											
KIF14	9928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	200555334	200555334	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccagaattcttgcatggcGgatgctatggtcttctaaag	9	14	10	8	1	3	1	0	0	3	1	4	2	4	2	1	3	2	2	1	3	4	6	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	200555334	G	C	200555334	3	2	473	1	0	0	0	0	1	0	0	0	8276	1116	39	4	1858	4	KIF14	1	200555334	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	4300485	200555334	48695287	7	24782											
RNF144A	9781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	7164573	7164573	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcaaagtctacatcgagcgaGacgaaggctgcgcgcagatg	12	5	14	10	5	1	2	0	0	1	2	2	5	1	2	0	1	3	3	0	1	3	1	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	7164573	G	C	7164573	3	2	473	1	0	0	0	0	1	0	0	0	13447	942	33	4	601	4	RNF144A	2	7164573	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10		7164573	236034800	8	24783											
KIF1A	547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	241686667	241686667	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtaccttttcaaaatgctGgtcatcaaaggagattttag	12	14	9	6	0	3	1	3	0	0	1	3	2	3	1	1	3	2	2	1	3	5	5	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	241686667	G	A	241686667	4	1	473	1	0	0	0	0	0	1	0	0	8283	1357	47	2	2410	2	KIF1A	2	241686667	Nonsense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	234522094	241686667	1512706	9	24784											
CHL1	10752	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	367660	367660	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcaacaggttccaacaaTcataaaacagtcaaaagtcc	18	8	5	10	0	3	0	3	0	0	0	5	0	5	0	2	1	3	2	2	1	7	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	367660	T	A	367660	3	1	473	1	0	0	0	0	1	0	0	0	3349	1435	50	5	116	5	CHL1	3	367660	Missense_Mutation	SNP	T	TCGA-CZ-5470-01A-01D-1501-10		367660	197654770	10	24785											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188200	10188200	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcttgtcccgataggtCacctttggctcttcagagat	6	15	9	11	1	3	1	2	0	1	1	4	3	4	1	2	2	1	2	2	2	1	5	rs5030811	bycluster;alternate_allele	TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	10188200	C	A	10188200	3	1	473	1	0	0	0	0	1	0	0	0	17161	826	29	4	349	4	VHL	3	10188200	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	9820540	10188200	187834230	11	24786											
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	47163209	47163209	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttctggtcttcctcttcTttcaggcaatatggaattcc	7	17	7	10	0	5	0	1	0	4	0	7	2	7	1	2	3	0	1	2	3	3	6	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	47163209	T	A	47163209	4	1	473	1	0	0	0	0	0	1	0	0	14133	1617	56	5	4853	5	SETD2	3	47163209	Nonsense_Mutation	SNP	T	TCGA-CZ-5470-01A-01D-1501-10	36975009	47163209	150859221	12	24787											
BAP1	8314	hgsc.bcm.edu;ucsc.edu	37	chr3	52443623	52443647	+	In_Frame_Del	DEL	ACCTGCGATGAGGAAAGGAAAGCAG	ACCTGCGATGAGGAAAGGAAAGCAG	-																															tccacttgcacccccttgacAcctgcgatgaggaaaggaaa																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	ACCTGCGATGAGGAAAGGAAAGCAG	ACCTGCGATGAGGAAAGGAAAGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	52443647	ACCTGCGATGAGGAAAGGAAAGCAG	-	52443623	7	5	473	1	0	1	0	1	0	0	0	0	1311	173	6	0	2180	0	BAP1	3	52443623	In_Frame_Del	DEL	ACCTGCGATGAGGAAAGGAAAGCAG	TCGA-CZ-5470-01A-01D-1501-10	5280414	52443623	145578807	13	24788											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52610659	52610659	+	Frame_Shift_Del	DEL	T	T	-																															ctctgtttcttctgggtgaaTgaagatggggccataaaaat																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	52610659	T	-	52610659	7	5	473	1	0	1	0	1	0	0	0	0	11491	1464	51	0	1347	0	PBRM1	3	52610659	Frame_Shift_Del	DEL	T	TCGA-CZ-5470-01A-01D-1501-10	167036	52610659	145411771	14	24789											
PROS1	5627	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	93598122	93598122	+	Frame_Shift_Del	DEL	A	A	-																															atggacgaatattcaaggtcAcatttacatgccaaccctca																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	93598122	A	-	93598122	7	5	473	1	0	1	0	1	0	0	0	0	12560	159	6	0	513	0	PROS1	3	93598122	Frame_Shift_Del	DEL	A	TCGA-CZ-5470-01A-01D-1501-10	40987463	93598122	104424308	15	24790											
NFKBIZ	64332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	101573504	101573504	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaatgcacttcacatgctgGatattaaagagcacaatgga	15	10	9	7	0	1	2	1	1	0	1	1	4	1	4	0	2	3	3	0	2	5	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	101573504	G	T	101573504	3	4	473	1	0	0	0	0	1	0	0	0	10383	1174	41	4	1442	4	NFKBIZ	3	101573504	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	7975382	101573504	96448926	16	24791											
ALCAM	214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	105266275	105266275	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagaaaactgatcccagtGgactatctaaaacaataatc	19	8	5	9	0	1	2	0	1	1	1	3	3	2	3	1	1	2	0	1	1	8	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	105266275	G	A	105266275	3	1	473	1	0	0	0	0	1	0	0	0	487	1349	47	2	1324	2	ALCAM	3	105266275	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	3692771	105266275	92756155	17	24792											
FEM1C	56929	broad.mit.edu;ucsc.edu	37	chr5	114860153	114860153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttagctatttccttctcaTccagcaagtcactagcagtt	9	16	5	11	0	2	0	2	0	1	0	5	0	4	0	2	0	3	4	2	0	4	7	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	114860153	C	C	114860153	3	2	473	1	0	0	0	0	1	0	0	0	5811	1435	50	3	151	3	FEM1C	5	114860153	Missense_Mutation	SNP	T	TCGA-CZ-5470-01A-01D-1501-10		114860153	66055107	18	24793											
ANKHD1	54882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	139905891	139905891	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacttggacagcacagactgCaacagtgagagtagcagtgg	14	6	13	8	0	0	2	0	1	0	2	0	4	0	3	0	2	5	4	0	2	3	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	139905891	C	T	139905891	2	4	473	1	0	0	0	0	0	0	0	1	628	718	25	2		2	ANKHD1	5	139905891	Silent	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	25045738	139905891	41009369	19	24794											
PCDH12	51294	broad.mit.edu	37	chr5	141337114	141337114	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggaaaccaggcagggatcCcactgtcggcacagctgctc	11	5	12	13	1	0	0	0	0	0	0	3	2	1	2	2	4	3	4	2	4	2	0	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	141337114	A	A	141337114	3	1	473	1	0	0	0	0	1	0	0	0	11510	624	22	4	3267	4	PCDH12	5	141337114	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	1431223	141337114	39578146	20	24795											
LCP2	3937	broad.mit.edu;hgsc.bcm.edu	37	chr5	169694070	169694070	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcgtggttggtctggggtgGgggcagtggctgcataaaga	6	11	19	5	1	1	1	0	0	1	1	2	1	1	1	0	7	1	4	0	7	2	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	169694070	G	A	169694070	3	1	473	1	0	0	0	0	1	0	0	0	8692	1232	43	2	1022	2	LCP2	5	169694070	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	28356956	169694070	11221190	21	24796											
HIVEP1	3096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	12125187	12125187	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccaaaattcttctctatCagaatccttgcccataactc	12	12	4	13	0	3	1	1	0	2	1	6	2	4	1	3	0	3	0	3	0	5	5	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	12125187	C	A	12125187	4	1	473	1	0	0	0	0	0	1	0	0	7186	838	29	4	5169	4	HIVEP1	6	12125187	Nonsense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10		12125187	158989880	22	24797											
FTSJD2	23070	broad.mit.edu;ucsc.edu	37	chr6	37447813	37447813	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctactatggccggctcttCtgggagtggggggatggcat	5	11	17	8	1	2	0	0	0	2	0	2	2	2	2	1	7	2	3	1	7	2	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		G	37447813	G	G	37447813	3	3	473	1	0	0	0	0	1	0	0	0	6091	912	32	4	2490	4	FTSJD2	6	37447813	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	25322626	37447813	133667254	23	24798											
FZD9	8326	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	72849270	72849270	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagggcctggagaacacGggctgcacgctggtcttcct	7	7	15	12	2	1	1	0	0	1	1	2	3	2	2	2	5	2	3	2	5	1	1	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	72849270	G	A	72849270	2	1	473	1	0	0	0	0	0	0	0	1	6137	1103	39	1		1	FZD9	7	72849270	Silent	SNP	G	TCGA-CZ-5470-01A-01D-1501-10		72849270	86289393	24	24799											
PCLO	27445	hgsc.bcm.edu	37	chr7	82784434	82784463	+	In_Frame_Del	DEL	TTTGTTGAGCCAGGCTGTTGAGATGGGGGC	TTTGTTGAGCCAGGCTGTTGAGATGGGGGC	-																															caggctgttgaggtgggggtTttgttgagccaggctgttga																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	TTTGTTGAGCCAGGCTGTTGAGATGGGGGC	TTTGTTGAGCCAGGCTGTTGAGATGGGGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	82784463	TTTGTTGAGCCAGGCTGTTGAGATGGGGGC	-	82784434	7	5	473	1	0	1	0	1	0	0	0	0	11583	1841	64	0	14018	0	PCLO	7	82784434	In_Frame_Del	DEL	TTTGTTGAGCCAGGCTGTTGAGATGGGGGC	TCGA-CZ-5470-01A-01D-1501-10	9935164	82784434	76354229	25	24800											
TRRAP	8295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	98507681	98507681	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttctcttcccgttaggtTttcgttctcaaattccacac	8	17	4	12	2	2	0	1	0	2	0	7	0	4	0	2	1	0	3	2	1	3	7	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	98507681	T	C	98507681	2	2	473	1	0	0	0	0	0	0	0	1	16600	1828	64	3		3	TRRAP	7	98507681	Silent	SNP	T	TCGA-CZ-5470-01A-01D-1501-10	15723247	98507681	60630982	26	24801											
ZNF655	79027	broad.mit.edu;hgsc.bcm.edu	37	chr7	99169358	99169358	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccagctggaacaggatCtacaggtctttgatctggaa	10	11	10	10	0	4	1	0	1	4	0	5	4	4	4	1	4	3	1	1	4	3	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	99169358	C	A	99169358	3	1	473	1	0	0	0	0	1	0	0	0	18067	912	32	4	612	4	ZNF655	7	99169358	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	661677	99169358	59969305	27	24802											
OR6V1	346517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	142749937	142749937	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagctcatcttgattactGccatggcgacgtcatcaacc	9	10	8	14	3	4	1	3	1	1	0	4	3	4	1	3	1	4	1	3	1	2	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	142749937	G	A	142749937	3	1	473	1	0	0	0	0	1	0	0	0	11211	1319	46	2	502	2	OR6V1	7	142749937	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	43580579	142749937	16388726	28	24803											
CLCN1	1180	hgsc.bcm.edu;ucsc.edu	37	chr7	143020428	143020428	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtccacattgccagcatCtgtgctgctgtcctcagcaa	7	12	8	14	1	2	0	1	0	1	0	5	0	4	0	3	0	5	4	3	0	1	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	143020428	C	A	143020428	2	1	473	1	0	0	0	0	0	0	0	1	3462	903	32	4		4	CLCN1	7	143020428	Silent	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	270491	143020428	16118235	29	24804											
MSR1	4481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	16035394	16035394	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccatccccctctacttaCtcggaggaagcaaagctgtc	10	8	8	15	1	1	0	0	0	1	0	4	2	2	2	3	2	5	2	3	2	4	2	rs150131889	byfrequency;alternate_allele	TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	16035394	C	T	16035394	5	4	473	1	0	0	0	0	0	0	1	0	9886	579	20	2	1335	2	MSR1	8	16035394	Splice_Site	SNP	C	TCGA-CZ-5470-01A-01D-1501-10		16035394	130328628	30	24805											
LRP12	29967	hgsc.bcm.edu;ucsc.edu	37	chr8	105503470	105503470	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgaggcaaaggagctgcaaCcccaccagatgctcctgcca	11	6	10	14	0	0	2	0	1	0	1	1	3	1	3	5	2	5	4	5	2	2	1	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	105503470	C	T	105503470	3	4	473	1	0	0	0	0	1	0	0	0	8954	507	18	2	572	2	LRP12	8	105503470	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	89468076	105503470	40860552	31	24806											
RGP1	9827	broad.mit.edu;hgsc.bcm.edu	37	chr9	35751400	35751400	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatggctgccacatcctgcCgcagcctccgtgagaattct	8	10	9	14	2	1	1	0	1	1	1	3	2	3	1	5	1	3	2	5	1	2	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	35751400	C	T	35751400	3	4	473	1	0	0	0	0	1	0	0	0	13286	652	23	1	771	1	RGP1	9	35751400	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10		35751400	105462031	32	24807											
LOC286238	286238	broad.mit.edu;ucsc.edu	37	chr9	91262512	91262512	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtctcagcagtgagtaaGgggttggattaagcaccatg	11	9	14	7	0	1	1	1	1	1	0	2	2	1	2	1	4	2	4	1	4	2	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	91262512	C	C	91262512	3	2	473	1	0	0	0	0	1	0	0	0	8874	1000	35	4	211	4	LOC286238	9	91262512	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	55511112	91262512	49950919	33	24808											
SLC2A8	29988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130169437	130169437	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcttgcctccgctttctGcatcttcagtgtccttttca	3	17	7	14	1	4	0	2	0	2	0	6	0	6	0	3	1	2	3	3	1	0	5	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	130169437	G	A	130169437	3	1	473	1	0	0	0	0	1	0	0	0	14553	1319	46	2	1381	2	SLC2A8	9	130169437	Missense_Mutation	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	38906925	130169437	11043994	34	24809											
ITGB1	3688	broad.mit.edu;hgsc.bcm.edu	37	chr10	33199315	33199315	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaccttggtaatgttaaaaTaggaacattcctgtgtgcat	12	14	8	7	0	0	0	0	0	0	0	1	1	1	1	2	2	3	3	2	2	6	6	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	33199315	T	C	33199315	3	2	473	1	0	0	0	0	1	0	0	0	7890	1406	49	3	646	3	ITGB1	10	33199315	Missense_Mutation	SNP	T	TCGA-CZ-5470-01A-01D-1501-10		33199315	102335432	35	24810											
IFT46	56912	hgsc.bcm.edu;ucsc.edu	37	chr11	118427645	118427647	+	In_Frame_Del	DEL	TCA	TCA	-																															ccagaggggctccatgctctTcatcatcatcatcagaatca																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	118427647	TCA	-	118427645	7	5	473	1	0	1	0	1	0	0	0	0	7560	1783	62	0	789	0	IFT46	11	118427645	In_Frame_Del	DEL	TCA	TCGA-CZ-5470-01A-01D-1501-10		118427645	16578871	36	24811											
WNK1	65125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	977348	977348	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgtgagatacaggtccAtcctatgtttgaaccatctc	10	13	8	10	0	2	2	1	2	1	1	5	3	4	2	3	1	2	1	3	1	3	3	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		G	977348	A	G	977348	3	3	473	1	0	0	0	0	1	0	0	0	17376	217	8	3	2749	3	WNK1	12	977348	Missense_Mutation	SNP	A	TCGA-CZ-5470-01A-01D-1501-10		977348	132874547	37	24812											
ZNF385A	25946	hgsc.bcm.edu;ucsc.edu	37	chr12	54764794	54764794	+	Frame_Shift_Del	DEL	C	C	-																															ctgggcaggagcctctggttCccccggggtgggaggcccca																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	54764794	C	-	54764794	7	5	473	1	0	1	0	1	0	0	0	0	17875	864	30	0	421	0	ZNF385A	12	54764794	Frame_Shift_Del	DEL	C	TCGA-CZ-5470-01A-01D-1501-10	53787446	54764794	79087101	38	24813											
GALNT9	50614	broad.mit.edu	37	chr12	132682466	132682466	+	Frame_Shift_Del	DEL	C	-	-																															aaggctgtggagcccagaggCcccagctgcagcagtccatc																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	132682466	-	-	132682466	7	5	473	1	0	1	0	1	0	0	0	0	6220	726	26	0	283	0	GALNT9	12	132682466	Frame_Shift_Del	DEL	C	TCGA-CZ-5470-01A-01D-1501-10	77917672	132682466	1169429	39	24814											
PLEKHO2	80301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	65157277	65157277	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accaccagccctggtgacagGgtggagacccctgtggggga	8	5	16	12	0	0	2	0	1	0	1	0	4	0	3	5	5	1	0	5	5	0	0	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	65157277	G	A	65157277	2	1	473	1	0	0	0	0	0	0	0	1	12085	1223	43	2		2	PLEKHO2	15	65157277	Silent	SNP	G	TCGA-CZ-5470-01A-01D-1501-10		65157277	37374115	40	24815											
ARIH1	25820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	72847625	72847625	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacagtatttcactggccTtgaatgtggacataagtttt	10	16	8	7	0	1	1	1	1	0	0	1	2	1	2	1	2	1	2	1	2	4	7	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		G	72847625	T	G	72847625	3	3	473	1	0	0	0	0	1	0	0	0	923	1609	56	5	616	5	ARIH1	15	72847625	Missense_Mutation	SNP	T	TCGA-CZ-5470-01A-01D-1501-10	7690348	72847625	29683767	41	24816											
DAPK3	1613	hgsc.bcm.edu;ucsc.edu	37	chr19	3964350	3964350	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgggttgggcacgttcttgtCcagcagcatgatgttttccg	5	14	13	9	2	1	1	0	1	1	0	3	1	3	1	2	2	2	6	2	2	0	5	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	WXS	454			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	3964350	C	T	3964350	3	4	473	1	0	0	0	0	1	0	0	0	4237	855	30	2	943	2	DAPK3	19	3964350	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10		3964350	55164633	42	24817											
GZF1	64412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	23350858	23350858	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctttcggataaattgcTgtcttttgcagaaaatggcc	11	13	9	8	1	1	1	0	0	1	1	2	2	1	2	1	2	3	3	1	2	5	5	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		G	23350858	T	G	23350858	3	3	473	1	0	0	0	0	1	0	0	0	6914	1580	55	5	1934	5	GZF1	20	23350858	Missense_Mutation	SNP	T	TCGA-CZ-5470-01A-01D-1501-10		23350858	39674662	43	24818											
CHMP4B	128866	hgsc.bcm.edu;ucsc.edu	37	chr20	32436409	32436409	+	Frame_Shift_Del	DEL	G	G	-																															accgaggtgctcaagaacatGggctatgccgccaaggccat																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		-	32436409	G	-	32436409	7	5	473	1	0	1	0	1	0	0	0	0	3357	1348	47	0	333	0	CHMP4B	20	32436409	Frame_Shift_Del	DEL	G	TCGA-CZ-5470-01A-01D-1501-10	9085551	32436409	30589111	44	24819											
CACNA1I	8911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40062013	40062013	+	Splice_Site	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgacaacctgggccaggTgagcaccaccgtcctagccc	8	6	10	17	2	0	1	0	1	0	0	2	2	1	1	6	2	3	1	6	2	2	2	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	40062013	T	A	40062013	5	1	473	1	0	0	0	0	0	0	1	0	2546	1710	59	5	4196	5	CACNA1I	22	40062013	Splice_Site	SNP	T	TCGA-CZ-5470-01A-01D-1501-10		40062013	11242553	45	24820											
NDP	4693	broad.mit.edu;ucsc.edu	37	chrX	43809267	43809267	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcgcacctggccaggagCaccatctggggaaagaaaag	12	4	12	13	1	1	1	0	0	1	1	2	3	1	3	4	4	1	2	4	4	3	0	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	43809267	A	A	43809267	2	1	473	1	0	0	0	0	0	0	0	1	10250	697	25	4		4	NDP	23	43809267	Silent	SNP	C	TCGA-CZ-5470-01A-01D-1501-10		43809267	111461293	46	24821											
CCDC120	90060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	48923285	48923285	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctctgtctagccccacaCgctcgctgcccaggagtgcc	5	9	10	17	2	2	0	0	0	2	0	4	1	2	1	4	1	3	2	4	1	1	1	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	48923285	C	T	48923285	3	4	473	1	0	0	0	0	1	0	0	0	2756	536	19	1	891	1	CCDC120	23	48923285	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	5114018	48923285	106347275	47	24822											
TRO	7216	hgsc.bcm.edu	37	chrX	54949288	54949289	+	Frame_Shift_Ins	INS	-	-	C																															ataacttggcaggctttaaaINScctgccagtcattacccaga																								novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		C	54949289	-	C	54949288	7	5	473	1	0	1	1	0	0	0	0	0	16573	43	2	0	329	0	TRO	23	54949288	Frame_Shift_Ins	INS	-	TCGA-CZ-5470-01A-01D-1501-10	6026003	54949288	100321272	48	24823											
TAF1	6872	broad.mit.edu	37	chrX	70607246	70607246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgtggttggccagcagtgtCccttgtttgaagttcctggg	4	15	14	8	0	0	1	0	1	0	0	2	1	2	1	3	3	1	4	3	3	1	5	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		T	70607246	T	T	70607246	3	4	473	1	0	0	0	0	1	0	0	0	15512	855	30	2	2480	2	TAF1	23	70607246	Missense_Mutation	SNP	C	TCGA-CZ-5470-01A-01D-1501-10	15657958	70607246	84663314	49	24824											
MAGEC1	9947	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	140993373	140993373	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagtcgttctgagggggaGgactcctcggatcctctcca	7	9	13	12	2	2	2	0	1	2	1	7	5	4	5	3	4	0	1	3	4	0	1	novel		TCGA-CZ-5470-01A-01D-1501-10	TCGA-CZ-5470-11A-01D-1501-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9a7ca9e-c36e-46c1-926f-4a57a0584cb0	d0636c20-cd70-4fdf-b273-4756d9effbf1		A	140993373	G	A	140993373	2	1	473	1	0	0	0	0	0	0	0	1	9180	991	35	2		2	MAGEC1	23	140993373	Silent	SNP	G	TCGA-CZ-5470-01A-01D-1501-10	70386127	140993373	14277187	50	24825											
EXOSC10	5394	hgsc.bcm.edu;ucsc.edu	37	chr1	11147603	11147603	+	Frame_Shift_Del	DEL	T	T	-																															gtcttccgtccgagtagaaaTttgcatcaggcaggtcagtc																								novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		-	11147603	T	-	11147603	7	5	474	1	0	1	0	1	0	0	0	0	5314	1493	52	0	1734	0	EXOSC10	1	11147603	Frame_Shift_Del	DEL	T	TCGA-CZ-5982-01A-11D-1669-08		11147603	238103018	1	24826											
HSPG2	3339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22178652	22178652	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcctgccctgccaccaCgcagctcagatccagggtct	6	7	12	16	1	2	1	1	0	1	1	3	1	3	1	5	2	3	2	5	2	0	0	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	22178652	C	T	22178652	3	4	474	1	0	0	0	0	1	0	0	0	7430	536	19	1	6556	1	HSPG2	1	22178652	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	11031049	22178652	227071969	2	24827											
RNF115	27246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	145684607	145684607	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggacaactggaaaacaCaggccctcccccagctgaca	13	6	8	14	0	0	1	0	1	0	0	1	3	1	3	3	3	3	1	3	3	4	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		G	145684607	C	G	145684607	3	3	474	1	0	0	0	0	1	0	0	0	13432	478	17	4	622	4	RNF115	1	145684607	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	123505955	145684607	103566014	3	24828											
C1orf110	339512	broad.mit.edu;ucsc.edu	37	chr1	162824983	162824983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttagatggattcacagaatCtttctcttgggcttgtggtt	7	17	10	7	0	3	2	1	0	2	2	4	3	3	3	0	3	0	2	0	3	2	6	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	162824983	T	T	162824983	3	4	474	1	0	0	0	0	1	0	0	0	1983	913	32	2	431	2	C1orf110	1	162824983	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	17140376	162824983	86425638	4	24829											
SMG7	9887	broad.mit.edu;ucsc.edu	37	chr1	183515189	183515189	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgcctgtgaaacagccctActaccttcagacccaagacc	12	8	6	15	0	1	3	1	1	0	2	1	3	1	3	5	0	5	0	5	0	5	4	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	183515189	T	T	183515189	3	4	474	1	0	0	0	0	1	0	0	0	14800	391	14	5	2525	5	SMG7	1	183515189	Missense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08	20690206	183515189	65735432	5	24830											
UGT1A4	54657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	234627516	234627516	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctggccacaggactgcTgctcctcctcagtgtccagc	5	8	12	16	1	1	0	1	0	0	0	4	1	4	1	4	3	3	3	4	3	0	0	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		C	234627516	T	C	234627516	3	2	474	1	0	0	0	0	1	0	0	0	16946	1580	55	3	52	3	UGT1A4	2	234627516	Missense_Mutation	SNP	T	TCGA-CZ-5982-01A-11D-1669-08		234627516	8571857	6	24831											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191499	10191499	+	Frame_Shift_Del	DEL	G	-	-																															ctgaaagagcgatgcctccaGgttgtccggagcctagtcaa																								novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		-	10191499	-	-	10191499	7	5	474	1	0	1	0	1	0	0	0	0	17161	991	35	0	502	0	VHL	3	10191499	Frame_Shift_Del	DEL	G	TCGA-CZ-5982-01A-11D-1669-08		10191499	187830931	7	24832											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52598158	52598158	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctgcttgtcgctctcattGtagcggctctcacaaagcag	8	12	9	12	2	3	0	2	0	3	0	6	0	3	0	0	1	3	5	0	1	2	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	52598158	G	T	52598158	4	4	474	1	0	0	0	0	0	1	0	0	11491	1372	48	4	1149	4	PBRM1	3	52598158	Nonsense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08	42406659	52598158	145424272	8	24833											
APPL1	26060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	57283562	57283562	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgttttcagatcacctcTttcgatggaaaaaagttagt	12	16	7	6	1	3	1	2	0	1	1	4	3	3	2	1	1	0	2	1	1	5	6	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	57283562	T	A	57283562	2	1	474	1	0	0	0	0	0	0	0	1	817	1596	56	5		5	APPL1	3	57283562	Silent	SNP	T	TCGA-CZ-5982-01A-11D-1669-08	4685404	57283562	140738868	9	24834											
TOPBP1	11073	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	133342007	133342007	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attggtggccatattgtctaCatcattttcttctaaaatca	11	17	5	8	0	5	0	2	0	3	0	5	0	5	0	1	2	1	0	1	2	4	8	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	133342007	C	T	133342007	3	4	474	1	0	0	0	0	1	0	0	0	16368	478	17	2	1502	2	TOPBP1	3	133342007	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	76058445	133342007	64680423	10	24835											
DLG1	1739	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	196842954	196842954	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaacaacttttctaggttcCctaaaaattaaaaaaaattg	19	12	4	6	0	1	1	0	0	1	1	2	1	2	1	1	1	2	1	1	1	10	7	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		G	196842954	C	G	196842954	3	3	474	1	0	0	0	0	1	0	0	0	4554	637	22	4	1484	4	DLG1	3	196842954	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	63500947	196842954	1179476	11	24836											
ARSK	153642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	94918640	94918640	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcgtgtggaagcgtggaCaagagatgttgctttcttac	10	13	12	6	2	1	1	0	0	1	1	2	4	1	3	0	2	3	2	0	2	4	4	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	94918640	C	A	94918640	3	1	474	1	0	0	0	0	1	0	0	0	996	478	17	4	451	4	ARSK	5	94918640	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08		94918640	85996620	12	24837											
UBR2	23304	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	42604791	42604791	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagaaatgtctcgctgtaCtgatgcagtgtcatggtggt	10	12	12	7	1	2	2	1	1	1	1	3	2	2	2	0	2	2	3	0	2	3	1	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	42604791	C	T	42604791	2	4	474	1	0	0	0	0	0	0	0	1	16901	564	20	2		2	UBR2	6	42604791	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08		42604791	128510276	13	24838											
TCP10	6953	hgsc.bcm.edu	37	chr6	167789488	167789488	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgccgtctgctcctgcagCgtggtggcctgggaagcctg	3	9	16	13	2	1	0	0	0	1	0	2	1	2	1	4	3	5	3	4	3	1	0	rs9355636		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	167789488	C	T	167789488	2	4	474	1	0	0	0	0	0	0	0	1	15709	755	27	1		1	TCP10	6	167789488	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	125184697	167789488	3325579	14	24839											
MPP6	51678	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	24720095	24720095	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagacgttacgtgccatgCacaaggctgtggtggatgca	10	9	14	8	2	0	1	0	0	0	1	0	3	0	2	1	3	4	4	1	3	3	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	24720095	C	T	24720095	3	4	474	1	0	0	0	0	1	0	0	0	9738	710	25	2	1440	2	MPP6	7	24720095	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08		24720095	134418568	15	24840											
CDK13	8621	broad.mit.edu;hgsc.bcm.edu	37	chr7	39991366	39991366	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctacagccgccacagctccTacgagcggggcggcgacgtg	7	4	15	15	6	0	0	0	0	0	0	1	2	1	0	3	3	5	2	3	3	2	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		C	39991366	T	C	39991366	3	2	474	1	0	0	0	0	1	0	0	0	3129	1522	53	3	1128	3	CDK13	7	39991366	Missense_Mutation	SNP	T	TCGA-CZ-5982-01A-11D-1669-08	15271271	39991366	119147297	16	24841											
FBXL13	222235	hgsc.bcm.edu;ucsc.edu	37	chr7	102665597	102665597	+	Frame_Shift_Del	DEL	A	A	-																															tcagaagaacttcgttcaggAaaattggattcttctgcagc																								novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		-	102665597	A	-	102665597	7	5	474	1	0	1	0	1	0	0	0	0	5709	243	9	0	1859	0	FBXL13	7	102665597	Frame_Shift_Del	DEL	A	TCGA-CZ-5982-01A-11D-1669-08	62674231	102665597	56473066	17	24842											
EBF2	64641	broad.mit.edu	37	chr8	25899690	25899690	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgtcatagagcgccaggAcgaagtgaaagaagttggat	13	7	14	7	2	1	3	1	1	0	2	1	6	1	5	2	2	1	1	2	2	4	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		G	25899690	G	G	25899690	3	3	474	1	0	0	0	0	1	0	0	0	4881	275	10	3	1578	3	EBF2	8	25899690	Missense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08		25899690	120464332	18	24843											
ZNF395	55893	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28206286	28206286	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccggcaggccgtgcaccActggtcccggtgctcgatgc	5	6	13	17	4	0	0	0	0	0	0	2	1	1	0	5	4	3	3	5	4	0	0	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		G	28206286	A	G	28206286	3	3	474	1	0	0	0	0	1	0	0	0	17880	159	6	3	53	3	ZNF395	8	28206286	Missense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08	2306596	28206286	118157736	19	24844											
HMBOX1	79618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	28906483	28906483	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcgaagaagcagcaatccTggagagtcatgggatagatg	13	9	13	6	1	1	3	1	0	0	3	3	6	2	4	1	2	2	2	1	2	4	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	28906483	T	A	28906483	3	1	474	1	0	0	0	0	1	0	0	0	7218	1580	55	5	1073	5	HMBOX1	8	28906483	Missense_Mutation	SNP	T	TCGA-CZ-5982-01A-11D-1669-08	700197	28906483	117457539	20	24845											
GPR124	25960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	37696506	37696506	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccagggaggtggggggCgccggggcagggctgcaccc	4	5	20	12	2	0	0	0	0	0	0	1	1	1	1	3	8	1	3	3	8	0	1	rs147055217	byfrequency	TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	37696506	C	T	37696506	2	4	474	1	0	0	0	0	0	0	0	1	6638	755	27	1		1	GPR124	8	37696506	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	8790023	37696506	108667516	21	24846											
KIAA0146	23514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	48353095	48353095	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggacactgtccggatctTccctccctggtgagtgcgca	6	9	11	15	2	1	1	0	1	1	0	4	3	4	3	4	3	1	1	4	3	0	1	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	48353095	T	A	48353095	3	1	474	1	0	0	0	0	1	0	0	0	8157	1783	62	5	1118	5	KIAA0146	8	48353095	Missense_Mutation	SNP	T	TCGA-CZ-5982-01A-11D-1669-08	10656589	48353095	98010927	22	24847											
C9orf125	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104238212	104238212	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagactggagaagagcccgAtgtgtttcacgaggttcggc	9	8	16	8	3	1	3	1	0	0	3	2	7	1	3	1	4	1	2	1	4	1	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		C	104238212	A	C	104238212	3	2	474	1	0	0	0	0	1	0	0	0	2454	333	12	5	52	5	C9orf125	9	104238212	Missense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08		104238212	36975219	23	24848											
PRKG1	5592	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	53921672	53921672	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttttaaacatttgattggagGgctggatgatgtttctaata	11	17	10	3	0	1	2	0	2	1	0	1	4	1	4	0	3	1	2	0	3	4	7	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	53921672	G	A	53921672	3	1	474	1	0	0	0	0	1	0	0	0	12524	1232	43	2	1329	2	PRKG1	10	53921672	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08		53921672	81613075	24	24849											
SIRT1	23411	hgsc.bcm.edu;ucsc.edu	37	chr10	69672600	69672600	+	Frame_Shift_Del	DEL	A	A	-																															tgaatcaaaaggttgtatggAagaaaaaccacaggaagtac																								novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		-	69672600	A	-	69672600	7	5	474	1	0	1	0	1	0	0	0	0	14339	246	9	0	1757	0	SIRT1	10	69672600	Frame_Shift_Del	DEL	A	TCGA-CZ-5982-01A-11D-1669-08	15750928	69672600	65862147	25	24850											
SORCS3	22986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	107015522	107015522	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagtttgagctgaagccgggGgtacaagtcattgtgtatgt	9	12	14	6	1	1	2	1	2	0	0	1	2	1	2	1	2	3	4	1	2	4	4	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	107015522	G	T	107015522	2	4	474	1	0	0	0	0	0	0	0	1	14934	1219	43	4		4	SORCS3	10	107015522	Silent	SNP	G	TCGA-CZ-5982-01A-11D-1669-08	37342922	107015522	28519225	26	24851											
NDUFS3	4722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	47602127	47602127	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaagcagctctcagcttttGgagagtatgtggctgaaatc	11	11	11	8	0	1	2	1	1	1	1	3	3	1	2	0	2	3	5	0	2	3	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	47602127	G	T	47602127	4	4	474	1	0	0	0	0	0	1	0	0	10293	1349	47	4	194	4	NDUFS3	11	47602127	Nonsense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08		47602127	87404389	27	24852											
EEF1G	1937	broad.mit.edu	37	chr11	62339115	62339115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccactgcaccacctgggctGctgcctctggagtacttccc	5	9	9	18	0	1	0	0	0	1	0	2	1	2	1	5	2	4	4	5	2	1	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	62339115	A	A	62339115	3	1	474	1	0	0	0	0	1	0	0	0	4928	1319	46	2	1066	2	EEF1G	11	62339115	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08	14736988	62339115	72667401	28	24853											
RTN3	10313	broad.mit.edu	37	chr11	63517659	63517659	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtacagaagtcagaagaaggCcatccattcaagtgagttga	15	8	11	7	0	2	5	2	2	0	3	3	5	3	5	2	1	1	2	2	1	5	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	63517659	A	A	63517659	2	1	474	1	0	0	0	0	0	0	0	1	13729	726	26	4		4	RTN3	11	63517659	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	1178544	63517659	71488857	29	24854											
RIMKLB	57494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	8906537	8906537	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttggctgatctaagccAtcttattcgccatgaagcgc	9	12	8	12	2	2	2	0	2	2	0	3	2	2	2	3	1	2	1	3	1	3	4	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		G	8906537	A	G	8906537	3	3	474	1	0	0	0	0	1	0	0	0	13368	217	8	3	559	3	RIMKLB	12	8906537	Missense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08		8906537	124945358	30	24855											
BRCA2	675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	32945126	32945126	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcatctggattatacataTttcgcaatgaaagagaggaa	16	11	8	6	1	2	2	1	1	1	1	3	5	2	4	0	2	1	1	0	2	6	4	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	32945126	T	A	32945126	3	1	474	1	0	0	0	0	1	0	0	0	1499	1493	52	5	8595	5	BRCA2	13	32945126	Missense_Mutation	SNP	T	TCGA-CZ-5982-01A-11D-1669-08		32945126	82224752	31	24856											
SLC15A1	6564	broad.mit.edu;ucsc.edu	37	chr13	99361816	99361824	+	Splice_Site	DEL	CGTCACCTA	-	-																															ctcaaccaacccaacccaccCgtcacctacgtgaaattgaa																								novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	CGTCACCTA	CGTCACCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		-	99361824	-	-	99361816	8	5	474	1	0	1	0	1	0	0	1	0	14400	667	23	0		0	SLC15A1	13	99361816	Splice_Site	DEL	CGTCACCTA	TCGA-CZ-5982-01A-11D-1669-08	66416690	99361816	15808062	32	24857											
C14orf4	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	77492045	77492045	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccggaatgttttgggggtgCacttggtccatgcccgggtg	4	12	16	9	2	0	0	0	0	0	0	2	1	2	1	3	5	2	2	3	5	1	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		G	77492045	C	G	77492045	2	3	474	1	0	0	0	0	0	0	0	1	1773	697	25	4		4	C14orf4	14	77492045	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08		77492045	29857495	33	24858											
WDR93	56964	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	90276249	90276249	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctctaggattccctcttgGggtcgctgctcttcctcagg	3	15	10	13	1	4	0	1	0	3	0	8	1	6	1	2	4	1	2	2	4	1	5	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	90276249	G	T	90276249	3	4	474	1	0	0	0	0	1	0	0	0	17339	1232	43	4	1389	4	WDR93	15	90276249	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08		90276249	12255143	34	24859											
ITGAX	3687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31373943	31373943	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccctcaggttactccaccGagctggccctctggaaaggg	7	7	12	15	1	2	0	1	0	1	0	3	2	3	1	5	4	2	2	5	4	2	1	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	31373943	G	A	31373943	3	1	474	1	0	0	0	0	1	0	0	0	7889	1059	37	1	1274	1	ITGAX	16	31373943	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08		31373943	58980810	35	24860											
IRX5	10265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	54967655	54967655	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccggggtctcatttcaatgGattaaaccagaccgtgttga	10	12	10	9	2	2	2	2	1	1	1	4	3	3	3	3	3	1	1	3	3	3	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	54967655	G	T	54967655	3	4	474	1	0	0	0	0	1	0	0	0	7847	1174	41	4	1332	4	IRX5	16	54967655	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08	23593712	54967655	35387098	36	24861											
RNF213	57674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	78328249	78328249	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttgtacagcctctttcTtgcgggtatccaagatgcgc	6	13	10	12	2	2	1	0	0	2	1	3	1	3	1	3	1	4	2	3	1	3	5	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		C	78328249	T	C	78328249	2	2	474	1	0	0	0	0	0	0	0	1	13479	1606	56	3		3	RNF213	17	78328249	Silent	SNP	T	TCGA-CZ-5982-01A-11D-1669-08		78328249	2866961	37	24862											
HMSD	284293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	61627535	61627535	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatatattgttattctatttCgataatattttaaacagttt	14	21	3	3	1	1	0	0	0	1	0	2	1	1	0	0	0	1	2	0	0	9	12	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	61627535	C	T	61627535	2	4	474	1	0	0	0	0	0	0	0	1	7246	883	31	1		1	HMSD	18	61627535	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08		61627535	16449713	38	24863											
SALL3	27164	broad.mit.edu	37	chr18	76752286	76752286	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggacttccccgagccttcgCccgccagctcccccagcgag	6	5	10	20	4	0	0	0	0	0	0	3	3	2	1	7	1	3	1	7	1	0	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	76752286	A	A	76752286	3	1	474	1	0	0	0	0	1	0	0	0	13814	739	26	4	301	4	SALL3	18	76752286	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	15124751	76752286	1324962	39	24864											
ARID3A	1820	hgsc.bcm.edu	37	chr19	971949	971950	+	In_Frame_Ins	INS	-	-	GCA																															aggaggcggcggcggcggcgINSgcagcagcagcaacgcaggc																								novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		GCA	971950	-	GCA	971949	7	5	474	1	0	1	1	0	0	0	0	0	916	1116	39	0	1696	0	ARID3A	19	971949	In_Frame_Ins	INS	-	TCGA-CZ-5982-01A-11D-1669-08		971949	58157034	40	24865											
ZNF181	339318	broad.mit.edu;hgsc.bcm.edu	37	chr19	35232767	35232767	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttatgaatgtattaaatGtgggaagaccttcagctgta	13	13	9	6	0	1	2	1	1	0	1	1	3	1	3	2	1	1	3	2	1	7	5	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	35232767	G	A	35232767	3	1	474	1	0	0	0	0	1	0	0	0	17748	1377	48	2	1495	2	ZNF181	19	35232767	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08	34260818	35232767	23896216	41	24866											
FBL	2091	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40330954	40330954	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcatcttcctttcctcgAcaaatgaagacacctgggtg	10	11	9	11	1	1	2	0	1	1	1	4	3	3	2	3	1	1	1	3	1	2	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	40330954	A	T	40330954	4	4	474	1	0	0	0	0	0	1	0	0	5696	273	10	5	692	5	FBL	19	40330954	Nonsense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08	5098187	40330954	18798029	42	24867											
FAM71E1	112703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	50979507	50979507	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggagcagagggagaaagcGagggggcgggactacgcgca	12	1	21	7	4	0	2	0	0	0	2	0	7	0	4	0	5	3	2	0	5	2	1	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	50979507	G	A	50979507	3	1	474	1	0	0	0	0	1	0	0	0	5611	1058	37	1	572	1	FAM71E1	19	50979507	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08	10648553	50979507	8149476	43	24868											
PHF20	51230	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34457385	34457385	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattcaaactctcaaactttGcaaccaataacattggaact	16	11	4	10	0	2	0	2	0	1	0	3	2	2	1	1	1	6	1	1	1	6	4	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	34457385	G	T	34457385	3	4	474	1	0	0	0	0	1	0	0	0	11831	1310	46	4	856	4	PHF20	20	34457385	Missense_Mutation	SNP	G	TCGA-CZ-5982-01A-11D-1669-08		34457385	28568135	44	24869											
SALL4	57167	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	50407915	50407915	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctttgggtttgacatcCaccgcggagatgttcggtgg	5	13	14	9	4	1	2	0	1	1	1	4	3	2	2	2	4	0	2	2	4	0	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	50407915	C	A	50407915	2	1	474	1	0	0	0	0	0	0	0	1	13815	581	21	4		4	SALL4	20	50407915	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	15950530	50407915	12617605	45	24870											
SON	6651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34922737	34922737	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggggccccctgtgacTccagtgctggagttacctgg	5	10	14	12	0	0	1	0	1	0	0	1	2	1	2	4	4	3	3	4	4	1	2	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	34922737	T	A	34922737	2	1	474	1	0	0	0	0	0	0	0	1	14928	1538	54	5		5	SON	21	34922737	Silent	SNP	T	TCGA-CZ-5982-01A-11D-1669-08		34922737	13207158	46	24871											
PNPLA3	80339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	44322959	44322959	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caatgtccaccagctcatctCcggcaaaataggcatctctc	11	9	6	15	1	3	0	1	0	2	0	7	0	4	0	3	2	1	3	3	2	4	1	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	44322959	C	A	44322959	3	1	474	1	0	0	0	0	1	0	0	0	12166	855	30	4	338	4	PNPLA3	22	44322959	Missense_Mutation	SNP	C	TCGA-CZ-5982-01A-11D-1669-08		44322959	6981607	47	24872											
FBLN1	2192	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	45931087	45931087	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgatgtaccagatattgaCgagtgtgagagtggtattca	12	13	12	4	1	1	4	1	3	0	2	1	6	1	4	1	1	1	2	1	1	4	6	rs144704783		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	45931087	C	T	45931087	2	4	474	1	0	0	0	0	0	0	0	1	5698	535	19	1		1	FBLN1	22	45931087	Silent	SNP	C	TCGA-CZ-5982-01A-11D-1669-08	1608128	45931087	5373479	48	24873											
CXorf38	159013	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	40506319	40506319	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagtttccccagtgcacAtctccatttctgttgacatg	7	13	8	13	1	2	1	0	1	2	0	4	1	3	1	3	1	1	4	3	1	0	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		T	40506319	A	T	40506319	3	4	474	1	0	0	0	0	1	0	0	0	4107	214	8	5	688	5	CXorf38	23	40506319	Missense_Mutation	SNP	A	TCGA-CZ-5982-01A-11D-1669-08		40506319	114764241	49	24874											
UPRT	139596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	74517350	74517350	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtatgaaggagtgaaatTtgagaagggaaattgtgggg	15	9	16	1	0	0	3	0	3	0	1	0	6	0	5	0	4	0	1	0	4	6	3	novel		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		A	74517350	T	A	74517350	3	1	474	1	0	0	0	0	1	0	0	0	17013	1841	64	5	538	5	UPRT	23	74517350	Missense_Mutation	SNP	T	TCGA-CZ-5982-01A-11D-1669-08	34011031	74517350	80753210	50	24875											
TEX13A	56157	hgsc.bcm.edu	37	chrX	104464282	104464282	+	Frame_Shift_Del	DEL	C	C	-																															gcagccacaacctccaacatCccctctgctcttcttctgct																								rs140438281		TCGA-CZ-5982-01A-11D-1669-08	TCGA-CZ-5982-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	2c3c0f78-1c0a-48df-856e-0afbc2b5bceb	27bc1b1e-8214-4a64-95e7-9f94a435ed49		-	104464282	C	-	104464282	7	5	474	1	0	1	0	1	0	0	0	0	15775	855	30	0	639	0	TEX13A	23	104464282	Frame_Shift_Del	DEL	C	TCGA-CZ-5982-01A-11D-1669-08	29946932	104464282	50806278	51	24876											
KIAA1751	85452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	1919956	1919956	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagccccagctcacctcatCttctcagtgaaaagctcttg	9	11	6	15	0	6	1	4	1	3	0	7	1	6	1	3	0	3	2	3	0	2	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		G	1919956	C	G	1919956	3	3	475	1	0	0	0	0	1	0	0	0	8256	912	32	4	2057	4	KIAA1751	1	1919956	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08		1919956	247330665	1	24877											
EPHA8	2046	broad.mit.edu	37	chr1	22913109	22913109	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgtgcagccctggacccGccgtcctcagcctgcacccg	5	6	10	20	4	1	0	1	0	0	0	2	1	2	1	7	1	5	2	7	1	1	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	22913109	A	A	22913109	2	1	475	1	0	0	0	0	0	0	0	1	5173	1074	38	1		1	EPHA8	1	22913109	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	20993153	22913109	226337512	2	24878											
AGL	178	hgsc.bcm.edu;ucsc.edu	37	chr1	100336394	100336394	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagtagatgtcaacaaagcGgttgagcaatttagaagact	16	9	10	6	1	1	4	1	1	0	3	1	4	1	4	0	1	3	3	0	1	7	4	rs181804327	by1000genomes	TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	100336394	G	A	100336394	2	1	475	1	0	0	0	0	0	0	0	1	384	1103	39	1		1	AGL	1	100336394	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	77423285	100336394	148914227	3	24879											
CFHR4	10877	broad.mit.edu;hgsc.bcm.edu	37	chr1	196883638	196883638	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcagaattttgtgatatGcctgtttttgagaattccag	9	18	9	5	0	1	3	1	2	0	2	2	4	2	3	2	0	1	2	2	0	3	7	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	196883638	G	T	196883638	3	4	475	1	0	0	0	0	1	0	0	0	3287	1319	46	4	467	4	CFHR4	1	196883638	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	96547244	196883638	52366983	4	24880											
PPM1B	5495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	44436369	44436369	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagtcgagataacatgagTattgtactagtttgcttttc	11	15	10	5	1	0	2	0	1	0	1	2	4	0	3	0	1	3	4	0	1	5	8	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		C	44436369	T	C	44436369	2	2	475	1	0	0	0	0	0	0	0	1	12338	1635	57	3		3	PPM1B	2	44436369	Silent	SNP	T	TCGA-CZ-5984-01A-11D-1669-08		44436369	198763004	5	24881											
GLS	2744	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	191792206	191792206	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagggcagtttgctttcCatgtaagtaattgtttaatc	9	17	8	7	0	1	0	1	0	1	0	4	0	2	0	1	1	1	6	1	1	3	7	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	191792206	C	T	191792206	3	4	475	1	0	0	0	0	1	0	0	0	6463	594	21	2	1469	2	GLS	2	191792206	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08	147355837	191792206	51407167	6	24882											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191622	10191623	+	Frame_Shift_Ins	INS	-	-	A																															agcggctgacacaggagcgcINSattgcacatcaacggatggg																								novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	10191623	-	A	10191622	7	5	475	1	0	1	1	0	0	0	0	0	17161	697	25	0	625	0	VHL	3	10191622	Frame_Shift_Ins	INS	-	TCGA-CZ-5984-01A-11D-1669-08		10191622	187830808	7	24883											
NPNT	255743	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	106848542	106848542	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgtatcgggccaaacaaGtgcaagtgtcatcctggtta	12	10	11	8	1	1	0	1	0	0	0	3	1	2	0	2	2	2	3	2	2	6	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	106848542	G	T	106848542	3	4	475	1	0	0	0	0	1	0	0	0	10590	1020	36	4	287	4	NPNT	4	106848542	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		106848542	84305734	8	24884											
ADAMTS19	171019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	129015567	129015567	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgtaagacgaggcctctggGagaagatctctgccaaaggt	12	8	13	8	1	2	3	0	0	2	3	3	5	2	3	2	3	1	1	2	3	3	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	129015567	G	A	129015567	3	1	475	1	0	0	0	0	1	0	0	0	264	1175	41	2	2665	2	ADAMTS19	5	129015567	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		129015567	51899693	9	24885											
KIF20A	10112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137522079	137522079	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcactggggcaggaaaacttCgtcaagccttgaccacttgt	10	9	11	11	1	1	1	1	1	0	0	2	2	1	2	2	3	2	2	2	3	3	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	137522079	C	T	137522079	3	4	475	1	0	0	0	0	1	0	0	0	8286	884	31	1	2380	1	KIF20A	5	137522079	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08	8506512	137522079	43393181	10	24886											
PCDHA5	56143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140201426	140201426	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctggcttctccttgcctaCtggaaggcagggagcggcca	6	9	13	13	1	2	0	0	0	2	0	3	2	2	2	3	5	3	2	3	5	2	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	140201426	C	T	140201426	2	4	475	1	0	0	0	0	0	0	0	1	11527	576	20	2		2	PCDHA5	5	140201426	Silent	SNP	C	TCGA-CZ-5984-01A-11D-1669-08	2679347	140201426	40713834	11	24887											
PCDHB15	56121	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140625765	140625765	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggatcgcgaggagcaggccGagctcagattaaccttgaca	11	7	13	10	3	1	2	1	1	0	1	2	6	1	4	2	3	3	2	2	3	1	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	140625765	G	A	140625765	3	1	475	1	0	0	0	0	1	0	0	0	11540	1059	37	1	621	1	PCDHB15	5	140625765	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	424339	140625765	40289495	12	24888											
PCDHGB5	56101	broad.mit.edu;hgsc.bcm.edu	37	chr5	140778135	140778135	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaataagtgagtctgcacaGcctggcacaagatttatact	14	10	8	9	0	1	2	0	1	1	1	1	2	1	2	1	1	3	2	1	1	5	4	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	140778135	G	T	140778135	3	4	475	1	0	0	0	0	1	0	0	0	11566	962	34	4	443	4	PCDHGB5	5	140778135	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	152370	140778135	40137125	13	24889											
SRF	6722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43146557	43146557	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgtaggtggcgtcccccaGgtgttcctgacagcatcatc	8	10	11	12	1	1	1	1	1	0	0	4	1	3	1	3	3	1	3	3	3	2	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	43146557	G	A	43146557	2	1	475	1	0	0	0	0	0	0	0	1	15144	991	35	2		2	SRF	6	43146557	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		43146557	127968510	14	24890											
COL12A1	1303	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	75861721	75861721	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcttgggtcctgaagttctGttggcgaatgaaattcaaag	11	12	12	6	1	2	2	1	2	1	0	3	3	3	2	1	2	1	3	1	2	4	4	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	75861721	G	T	75861721	3	4	475	1	0	0	0	0	1	0	0	0	3669	1386	48	4	5517	4	COL12A1	6	75861721	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	32715164	75861721	95253346	15	24891											
SHPRH	257218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146273498	146273498	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattacctggaataatagaAttgtgtaacttttccattac	14	16	5	6	0	0	1	0	0	0	1	1	2	1	2	2	1	3	1	2	1	8	9	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	146273498	A	T	146273498	3	4	475	1	0	0	0	0	1	0	0	0	14293	98	4	5	4457	5	SHPRH	6	146273498	Missense_Mutation	SNP	A	TCGA-CZ-5984-01A-11D-1669-08	70411777	146273498	24841569	16	24892											
EVX1	2128	hgsc.bcm.edu	37	chr7	27285647	27285648	+	In_Frame_Ins	INS	-	-	CCTGCC																															ccctaccccttcccatcgcaINScctgcccctgccctactact																								novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		CCTGCC	27285648	-	CCTGCC	27285647	7	5	475	1	0	1	1	0	0	0	0	0	5294	159	6	0	837	0	EVX1	7	27285647	In_Frame_Ins	INS	-	TCGA-CZ-5984-01A-11D-1669-08		27285647	131853016	17	24893											
BMPER	168667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	34085973	34085973	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattctctcctgtccccagcAccttagtcacatacccccag	8	10	4	19	0	2	0	1	0	1	0	5	0	4	0	6	0	2	1	6	0	2	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		G	34085973	A	G	34085973	3	3	475	1	0	0	0	0	1	0	0	0	1468	159	6	3	658	3	BMPER	7	34085973	Missense_Mutation	SNP	A	TCGA-CZ-5984-01A-11D-1669-08	6800326	34085973	125052690	18	24894											
LRWD1	222229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	102106463	102106463	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccagttccccaagctcGaggaactcagcctggagggc	8	7	13	13	1	1	0	1	0	0	0	3	3	2	2	4	3	4	2	4	3	2	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	102106463	G	T	102106463	4	4	475	1	0	0	0	0	0	1	0	0	9047	1059	37	4	286	4	LRWD1	7	102106463	Nonsense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	68020490	102106463	57032200	19	24895											
FOXP2	93986	broad.mit.edu	37	chr7	114269973	114269973	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaacaacagcagcagcaAcaacaacaacaacagcagca	21	0	6	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	6	0	0	7	0	rs149757187		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		G	114269973	G	G	114269973	2	3	475	1	0	0	0	0	0	0	0	1	6027	40	2	3		3	FOXP2	7	114269973	Silent	SNP	A	TCGA-CZ-5984-01A-11D-1669-08	12163510	114269973	44868690	20	24896											
ZFPM2	23414	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	106811085	106811085	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggaaaatgaagacagtgcCcatcagatttccagcctgtg	13	8	11	9	0	1	3	1	1	0	2	2	5	2	4	3	1	2	0	3	1	3	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	106811085	C	A	106811085	2	1	475	1	0	0	0	0	0	0	0	1	17657	610	22	4		4	ZFPM2	8	106811085	Silent	SNP	C	TCGA-CZ-5984-01A-11D-1669-08		106811085	39552937	21	24897											
DNAJB5	25822	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34997035	34997035	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccaggcgctgtgtggcTgcactgtgaacattcccact	6	12	10	13	1	0	1	0	1	0	0	2	1	2	1	2	2	2	3	2	2	1	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		C	34997035	T	C	34997035	3	2	475	1	0	0	0	0	1	0	0	0	4623	1580	55	3	1056	3	DNAJB5	9	34997035	Missense_Mutation	SNP	T	TCGA-CZ-5984-01A-11D-1669-08		34997035	106216396	22	24898											
GCNT1	2650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	79118095	79118095	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcgttaatggaaagctGacaaacacagggactgtcaa	15	7	12	7	1	1	1	1	1	0	0	2	4	1	3	0	3	2	2	0	3	4	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	79118095	G	T	79118095	2	4	475	1	0	0	0	0	0	0	0	1	6300	1277	45	4		4	GCNT1	9	79118095	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	44121060	79118095	62095336	23	24899											
C9orf103	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86258688	86258688	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattatggaaaccctaaaaaTgaaatgacaatgattttgta	19	12	6	4	0	0	3	0	3	0	0	0	4	0	4	1	1	1	1	1	1	9	5	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		C	86258688	T	C	86258688	3	2	475	1	0	0	0	0	1	0	0	0	2446	1464	51	3	429	3	C9orf103	9	86258688	Missense_Mutation	SNP	T	TCGA-CZ-5984-01A-11D-1669-08	7140593	86258688	54954743	24	24900											
CSGALNACT2	55454	hgsc.bcm.edu;ucsc.edu	37	chr10	43654206	43654207	+	Frame_Shift_Ins	INS	-	-	T																															agggcacacagtatgaactcINSttttttaagaaagcagacct																								novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	43654207	-	T	43654206	7	5	475	1	0	1	1	0	0	0	0	0	3939	900	32	0	711	0	CSGALNACT2	10	43654206	Frame_Shift_Ins	INS	-	TCGA-CZ-5984-01A-11D-1669-08		43654206	91880541	25	24901											
ANXA7	310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	75155821	75155821	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcactgctataatccaaaGaaacaggagagaaaacagga	19	6	8	8	0	1	2	1	0	0	2	2	5	2	4	1	2	3	1	1	2	6	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	75155821	G	A	75155821	3	1	475	1	0	0	0	0	1	0	0	0	723	942	33	2	1020	2	ANXA7	10	75155821	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	31501615	75155821	60378926	26	24902											
WAPAL	23063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	88259942	88259942	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtgtaatctctagtccgtCcaactgtccctctaaaactg	10	12	6	13	1	2	0	0	0	2	0	6	0	5	0	3	0	2	1	3	0	5	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	88259942	C	A	88259942	3	1	475	1	0	0	0	0	1	0	0	0	17247	855	30	4	2582	4	WAPAL	10	88259942	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08	13104121	88259942	47274805	27	24903											
PNLIPRP3	119548	hgsc.bcm.edu;ucsc.edu	37	chr10	118220558	118220558	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggatgccaactttgttgacGttattcatacaaatgcagct	11	13	8	9	2	1	1	1	1	0	0	1	2	1	2	1	1	5	4	1	1	4	5	rs114674677	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	118220558	G	T	118220558	3	4	475	1	0	0	0	0	1	0	0	0	12152	1145	40	4	668	4	PNLIPRP3	10	118220558	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	29960616	118220558	17314189	28	24904											
ALDH3B2	222	broad.mit.edu	37	chr11	67433825	67433825	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacctcagccaggacctTctctgtgccctggctgattt	6	11	9	15	0	2	1	1	1	1	0	3	2	2	2	4	2	3	2	4	2	0	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		C	67433825	C	C	67433825	3	2	475	1	0	0	0	0	1	0	0	0	500	1792	62	3	982	3	ALDH3B2	11	67433825	Missense_Mutation	SNP	T	TCGA-CZ-5984-01A-11D-1669-08		67433825	67572691	29	24905											
SMUG1	23583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	54577492	54577492	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcccaggaagagtactTccttggggccctggcagtag	8	9	13	11	0	1	1	1	0	0	1	2	2	2	2	3	4	2	3	3	4	3	4	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		C	54577492	T	C	54577492	3	2	475	1	0	0	0	0	1	0	0	0	14820	1783	62	3	587	3	SMUG1	12	54577492	Missense_Mutation	SNP	T	TCGA-CZ-5984-01A-11D-1669-08		54577492	79274403	30	24906											
COQ6	51004	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	74420179	74420179	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaaaatcctgttgctcGaagcaggtccaaagaaagta	17	7	9	8	1	0	2	0	0	0	2	3	3	2	2	2	1	2	4	2	1	7	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	74420179	G	T	74420179	4	4	475	1	0	0	0	0	0	1	0	0	3749	1059	37	4	211	4	COQ6	14	74420179	Nonsense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		74420179	32929361	31	24907											
ALDH6A1	4329	broad.mit.edu;hgsc.bcm.edu	37	chr14	74531621	74531621	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatggggacattcactccCacctaaaacagaacaaatcc	16	6	7	12	0	1	1	1	0	0	1	3	3	3	3	3	3	2	0	3	3	5	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	74531621	C	A	74531621	2	1	475	1	0	0	0	0	0	0	0	1	503	581	21	4		4	ALDH6A1	14	74531621	Silent	SNP	C	TCGA-CZ-5984-01A-11D-1669-08	111442	74531621	32817919	32	24908											
TTC7B	145567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	91123577	91123577	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggatggtggcatcgtctgGcttcaggcggatacactctt	7	11	14	9	2	3	0	1	0	2	0	4	2	3	2	0	6	1	2	0	6	1	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	91123577	G	A	91123577	3	1	475	1	0	0	0	0	1	0	0	0	16712	1203	42	2	1289	2	TTC7B	14	91123577	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	16591956	91123577	16225963	33	24909											
TM6SF1	53346	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	83791521	83791521	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaaatagggaagtatggaaCacgaatttgccctgcttttt	12	14	9	6	1	0	0	0	0	0	0	0	3	0	2	1	2	3	2	1	2	7	6	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		G	83791521	C	G	83791521	3	3	475	1	0	0	0	0	1	0	0	0	15971	478	17	4	516	4	TM6SF1	15	83791521	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08		83791521	18739871	34	24910											
PRKCB	5579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	24046821	24046821	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacacggagcgccgcggccGcatctacatccaggcccaca	9	3	10	19	5	1	0	0	0	1	0	2	1	2	1	5	3	2	1	5	3	1	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	24046821	G	A	24046821	3	1	475	1	0	0	0	0	1	0	0	0	12510	1087	38	1	500	1	PRKCB	16	24046821	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		24046821	66307932	35	24911											
RAB34	83871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27041908	27041908	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acacggaagaagaattctcgGacattctcacctgacacaga	15	7	8	11	2	2	4	1	1	2	3	4	6	2	6	1	2	0	0	1	2	3	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	27041908	G	A	27041908	2	1	475	1	0	0	0	0	0	0	0	1	12926	1161	41	2		2	RAB34	17	27041908	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		27041908	54153302	36	24912											
CACNA1G	8913	broad.mit.edu;hgsc.bcm.edu	37	chr17	48703992	48703992	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggaggagggctccgtccagCgactccaaggatcccttggc	7	6	14	14	3	0	0	0	0	0	0	4	4	4	3	4	5	1	1	4	5	1	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	48703992	C	A	48703992	3	1	475	1	0	0	0	0	1	0	0	0	2544	767	27	4	7431	4	CACNA1G	17	48703992	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08	21662084	48703992	32491218	37	24913											
ARHGDIA	396	hgsc.bcm.edu;ucsc.edu	37	chr17	79826812	79826814	+	In_Frame_Del	DEL	GTC	GTC	-																															caggacaggtggtcggtcttGtcgtcgtctgtgaagcggga																								novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	GTC	GTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		-	79826814	GTC	-	79826812	7	5	475	1	0	1	0	1	0	0	0	0	890	1368	48	0	63	0	ARHGDIA	17	79826812	In_Frame_Del	DEL	GTC	TCGA-CZ-5984-01A-11D-1669-08	31122820	79826812	1368398	38	24914											
ST8SIA5	29906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	44268797	44268797	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgccactggtgtccacctCatacttgagctttgtcccca	7	12	8	14	0	1	1	1	1	0	0	3	2	3	1	5	1	3	1	5	1	1	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	44268797	C	T	44268797	3	4	475	1	0	0	0	0	1	0	0	0	15236	835	29	2	749	2	ST8SIA5	18	44268797	Missense_Mutation	SNP	C	TCGA-CZ-5984-01A-11D-1669-08		44268797	33808451	39	24915											
SALL3	27164	broad.mit.edu;ucsc.edu	37	chr18	76753965	76753965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagactcgatgcaaacGtcggaaacctcgaagctgca	12	7	10	12	4	0	1	0	0	0	1	3	4	0	2	1	1	6	4	1	1	4	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	76753965	A	A	76753965	2	1	475	1	0	0	0	0	0	0	0	1	13814	1132	40	1		1	SALL3	18	76753965	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	32485168	76753965	1323283	40	24916											
COL5A3	50509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	10090547	10090547	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccagggtgccctggtcGcccatctttaccttggtgac	4	12	11	14	1	1	1	0	1	1	0	3	1	2	1	4	3	2	0	4	3	1	3	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	10090547	G	A	10090547	4	1	475	1	0	0	0	0	0	1	0	0	3698	1095	38	1	2681	1	COL5A3	19	10090547	Nonsense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		10090547	49038436	41	24917											
ZNF335	63925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44586316	44586316	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcgctgtcgactcctcaGctcctgggtggggtgggacc	4	9	14	14	2	1	0	1	0	0	0	5	2	3	1	4	4	1	2	4	4	0	0	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		T	44586316	G	T	44586316	3	4	475	1	0	0	0	0	1	0	0	0	17851	971	34	4	1725	4	ZNF335	20	44586316	Missense_Mutation	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		44586316	18439204	42	24918											
C21orf70	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	46363676	46363676	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgcagaagctggagctGgacgtgaggagtgtcacttc	8	10	16	7	1	1	2	1	1	0	1	2	5	1	5	0	4	3	3	0	4	1	2	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	46363676	G	A	46363676	2	1	475	1	0	0	0	0	0	0	0	1	2133	1335	47	2		2	C21orf70	21	46363676	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08		46363676	1766219	43	24919											
SLC19A1	6573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	46951439	46951439	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagttgaagacccaccagagGgaccacaggcgcagctgcgg	11	3	15	12	2	0	3	0	1	0	2	0	5	0	4	3	3	2	3	3	3	1	1	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		A	46951439	G	A	46951439	2	1	475	1	0	0	0	0	0	0	0	1	14430	1219	43	2		2	SLC19A1	21	46951439	Silent	SNP	G	TCGA-CZ-5984-01A-11D-1669-08	587763	46951439	1178456	44	24920											
KDELR3	11015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38877247	38877247	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctctatctatctggaaTcagtggctatcctgccccag	7	14	7	13	0	4	0	1	0	3	0	6	1	5	1	3	2	1	1	3	2	4	4	novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		C	38877247	T	C	38877247	3	2	475	1	0	0	0	0	1	0	0	0	8121	1435	50	3	396	3	KDELR3	22	38877247	Missense_Mutation	SNP	T	TCGA-CZ-5984-01A-11D-1669-08		38877247	12427319	45	24921											
TOB2	10766	hgsc.bcm.edu;ucsc.edu	37	chr22	41832766	41832766	+	Frame_Shift_Del	DEL	C	C	-																															ccccaccacttgctgccccgCcccccttcttcatcttagtg																								novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		-	41832766	C	-	41832766	7	5	475	1	0	1	0	1	0	0	0	0	16347	739	26	0	454	0	TOB2	22	41832766	Frame_Shift_Del	DEL	C	TCGA-CZ-5984-01A-11D-1669-08	2955519	41832766	9471800	46	24922											
UBE2A	7319	hgsc.bcm.edu	37	chrX	118715555	118715560	+	In_Frame_Del	DEL	AAATGG	AAATGG	-																															gtctctaagatgttccatccAaatggcaagtatcactttta																								novel		TCGA-CZ-5984-01A-11D-1669-08	TCGA-CZ-5984-11A-01D-1669-08	AAATGG	AAATGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	89e8e486-0c93-4056-88ed-83fd0d5a7f2c	671ebef6-9c6d-48b6-909c-7cfe2c2e44d0		-	118715560	AAATGG	-	118715555	7	5	475	1	0	1	0	1	0	0	0	0	16843	117	5	0	251	0	UBE2A	23	118715555	In_Frame_Del	DEL	AAATGG	TCGA-CZ-5984-01A-11D-1669-08		118715555	36555005	47	24923											
PADI6	353238	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	17727910	17727910	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgccgggtgccctttgccttCaaatggtggaagatggtacc	7	10	13	11	2	1	1	1	0	0	1	1	2	1	2	4	4	3	1	4	4	3	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	17727910	C	T	17727910	4	4	476	1	0	0	0	0	0	1	0	0	11381	825	29	2	2124	2	PADI6	1	17727910	Nonsense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08		17727910	231522711	1	24924											
EPHA8	2046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22895795	22895795	+	Missense_Mutation	SNP	C	C	A																															tttacagtgaatttgctggaCacgtcgaccatccacgggga																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	22895795	C	A	22895795	3	1	476	1	0	0	0	0	1	0	0	0	5173	477	17	4	114	4	EPHA8	1	22895795	Missense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	5167885	22895795	226354826	2	24925	357	2									
EPHA8	2046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22895796	22895796	+	Missense_Mutation	SNP	A	A	C																															ttacagtgaatttgctggacAcgtcgaccatccacggggac																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	22895796	A	C	22895796	3	2	476	1	0	0	0	0	1	0	0	0	5173	159	6	5	115	5	EPHA8	1	22895796	Missense_Mutation	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	1	22895796	226354825	3	24926	357	2									
ST3GAL3	6487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	44365370	44365370	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggcaggactttaagtggTtgaaatacatcgtctacaag	13	11	11	6	1	1	1	0	1	1	0	2	2	1	2	0	3	2	2	0	3	5	5	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	44365370	T	C	44365370	2	2	476	1	0	0	0	0	0	0	0	1	15217	1722	60	3		3	ST3GAL3	1	44365370	Silent	SNP	T	TCGA-CZ-5985-01A-11D-1669-08	21469574	44365370	204885251	4	24927											
PODN	127435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	53535790	53535790	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcggtattgacctgcGtgagttcccgggggacctgc	4	10	16	11	3	0	2	0	2	0	0	1	3	1	3	3	4	2	2	3	4	1	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	53535790	G	T	53535790	3	4	476	1	0	0	0	0	1	0	0	0	12178	1145	40	4	413	4	PODN	1	53535790	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	9170420	53535790	195714831	5	24928											
GPR61	83873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110086219	110086219	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaaggagctcccagtgtccCcccaggctgttcactccagt	7	8	11	15	0	1	0	1	0	0	0	4	2	4	2	5	3	1	3	5	3	1	1	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	110086219	C	T	110086219	3	4	476	1	0	0	0	0	1	0	0	0	6702	623	22	2	577	2	GPR61	1	110086219	Missense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	56550429	110086219	139164402	6	24929											
KCNC4	3749	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	110768698	110768698	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgacccccgaggagcgccggGccctgcgacgctccaccact	6	3	12	20	6	0	0	0	0	0	0	1	4	1	1	6	2	2	1	6	2	0	0	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	110768698	G	A	110768698	3	1	476	1	0	0	0	0	1	0	0	0	8017	1203	42	2	1861	2	KCNC4	1	110768698	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	682479	110768698	138481923	7	24930											
MTMR11	10903	broad.mit.edu;hgsc.bcm.edu	37	chr1	149901022	149901022	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattagacagaaccctcctcTaccccagatccccctctgcc	9	8	5	19	0	2	3	0	0	2	3	4	4	4	3	7	0	3	0	7	0	3	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	149901022	T	A	149901022	3	1	476	1	0	0	0	0	1	0	0	0	9940	1535	53	5	43	5	MTMR11	1	149901022	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08	39132324	149901022	99349599	8	24931											
ARHGEF11	9826	hgsc.bcm.edu;ucsc.edu	37	chr1	156914213	156914214	+	Frame_Shift_Del	DEL	TA	TA	-																															atggatcatttttctggttgTaagatccaggctctgttaag																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		-	156914214	TA	-	156914213	7	5	476	1	0	1	0	1	0	0	0	0	896	1638	57	0	1728	0	ARHGEF11	1	156914213	Frame_Shift_Del	DEL	TA	TCGA-CZ-5985-01A-11D-1669-08	7013191	156914213	92336408	9	24932											
HMCN1	83872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186099138	186099138	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacacagtgaacttgttatTgaaagagtgtcaaaagagga	16	9	12	4	0	1	4	1	2	0	2	1	6	1	6	0	2	1	1	0	2	5	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		G	186099138	T	G	186099138	3	3	476	1	0	0	0	0	1	0	0	0	7220	1800	63	5	13279	5	HMCN1	1	186099138	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08	29184925	186099138	63151483	10	24933											
KIF26B	55083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	245583033	245583033	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggcacatcggtggccgcCtccttctttgcacggtaaga	8	9	11	13	3	1	1	0	0	1	1	3	1	2	1	3	4	1	3	3	4	1	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	245583033	C	T	245583033	2	4	476	1	0	0	0	0	0	0	0	1	8295	668	24	2		2	KIF26B	1	245583033	Silent	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	59483895	245583033	3667588	11	24934											
AHCTF1	25909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247081660	247081660	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactagtcacttgagctcTtaagtctcgcatacttccac	10	12	5	14	1	3	1	1	1	2	0	5	1	4	1	2	0	2	2	2	0	3	5	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		G	247081660	T	G	247081660	2	3	476	1	0	0	0	0	0	0	0	1	408	1617	56	5		5	AHCTF1	1	247081660	Silent	SNP	T	TCGA-CZ-5985-01A-11D-1669-08	1498627	247081660	2168961	12	24935											
MEMO1	51072	broad.mit.edu	37	chr2	32093458	32093458	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtgagtgctccagctgcaTaactcactgaactgtcttgc	8	11	9	13	1	2	2	1	2	1	0	3	2	3	2	2	0	6	3	2	0	2	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	32093458	A	A	32093458	3	1	476	1	0	0	0	0	1	0	0	0	9471	1406	49	5	31	5	MEMO1	2	32093458	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08		32093458	211105915	13	24936											
POLR1B	84172	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	113308515	113308515	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactacttggaaaatggcaCtgttatgttgaactttattt	11	16	7	7	0	0	1	0	1	0	0	0	2	0	2	1	2	2	3	1	2	6	7	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	113308515	C	A	113308515	3	1	476	1	0	0	0	0	1	0	0	0	12210	565	20	4	716	4	POLR1B	2	113308515	Missense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	81215057	113308515	129890858	14	24937											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10183858	10183859	+	Frame_Shift_Ins	INS	-	-	CA																															ctggcacgggccgccgcatcINScacagctaccgaggtacggg																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		CA	10183859	-	CA	10183858	7	5	476	1	0	1	1	0	0	0	0	0	17161	845	30	0	329	0	VHL	3	10183858	Frame_Shift_Ins	INS	-	TCGA-CZ-5985-01A-11D-1669-08		10183858	187838572	15	24938											
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52439311	52439311	+	Splice_Site	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcctcctctgcaccatCtgagacagggcaagaacaca	12	5	9	15	1	2	2	0	1	2	2	3	3	3	2	4	1	3	2	4	1	2	0	rs9848343	bycluster;alternate_allele	TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	52439311	C	A	52439311	5	1	476	1	0	0	0	0	0	0	1	0	1311	927	32	4	1286	4	BAP1	3	52439311	Splice_Site	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	42255453	52439311	145583119	16	24939											
TMF1	7110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	69073260	69073260	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttctcttcaagttcatcAttttgatttgttaatttaac	10	20	3	8	0	4	1	3	1	1	0	5	1	4	1	1	0	1	2	1	0	3	9	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	69073260	A	C	69073260	3	2	476	1	0	0	0	0	1	0	0	0	16227	214	8	5	205	5	TMF1	3	69073260	Missense_Mutation	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	16633949	69073260	128949170	17	24940											
MYLK	4638	hgsc.bcm.edu	37	chr3	123411691	123411691	+	Silent	SNP	G	G	A																															ttctcgatggagacggagcaGagtgagcctggggaggaaga																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	123411691	G	A	123411691	2	1	476	1	0	0	0	0	0	0	0	1	10056	929	33	2		2	MYLK	3	123411691	Silent	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	54338431	123411691	74610739	18	24941	358	2									
MYLK	4638	hgsc.bcm.edu;ucsc.edu	37	chr3	123411694	123411694	+	Frame_Shift_Del	DEL	T	T	-																															tcgatggagacggagcagagTgagcctggggaggaagaatt																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		-	123411694	T	-	123411694	7	5	476	1	0	1	0	1	0	0	0	0	10056	1683	59	0	2355	0	MYLK	3	123411694	Frame_Shift_Del	DEL	T	TCGA-CZ-5985-01A-11D-1669-08	3	123411694	74610736	19	24942	358	2									
MUC4	4585	broad.mit.edu	37	chr3	195511144	195511144	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggatgccgaggaaacgttgGtgacaggaagacgggtggtg	10	7	19	5	3	0	2	0	1	0	1	0	6	0	5	1	6	2	1	1	6	2	1	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	195511144	T	T	195511144	3	4	476	1	0	0	0	0	1	0	0	0	9978	1261	44	4		4	MUC4	3	195511144	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	72099450	195511144	2511286	20	24943											
ATP8A1	10396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	42581897	42581897	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgagcccacagaacaGacaagagacatggcaattaa	17	5	10	9	0	0	4	0	1	0	3	0	5	0	4	1	2	2	2	1	2	4	1	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	42581897	G	T	42581897	2	4	476	1	0	0	0	0	0	0	0	1	1192	929	33	4		4	ATP8A1	4	42581897	Silent	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		42581897	148572379	21	24944											
EMCN	51705	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	101331487	101331487	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcaagctgtcagttcttGgtttttccttgtgcagagtg	5	17	10	9	0	3	1	2	0	1	1	5	1	5	1	2	1	2	4	2	1	1	5	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	101331487	G	T	101331487	2	4	476	1	0	0	0	0	0	0	0	1	5086	1335	47	4		4	EMCN	4	101331487	Silent	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	58749590	101331487	89822789	22	24945											
BDH2	56898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	104016427	104016427	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatgactttggcaccttcTcttgcaaaagcctagtagac	10	12	8	11	0	1	2	0	1	1	1	2	2	1	2	2	1	2	4	2	1	5	6	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	104016427	T	A	104016427	3	1	476	1	0	0	0	0	1	0	0	0	1391	1548	54	5	685	5	BDH2	4	104016427	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08	2684940	104016427	87137849	23	24946											
TLL1	7092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	166929189	166929189	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcatgcactatgccaggaaCaccttctcaaggttggagtc	11	10	9	11	0	2	0	2	0	1	0	4	2	2	2	2	3	3	2	2	3	3	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	166929189	C	T	166929189	2	4	476	1	0	0	0	0	0	0	0	1	15944	477	17	2		2	TLL1	4	166929189	Silent	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	62912762	166929189	24225087	24	24947											
NIPBL	25836	broad.mit.edu;hgsc.bcm.edu	37	chr5	37044460	37044460	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttatagacgcaaaatgaTttcatggttatctgcaatgt	12	16	7	6	1	3	2	1	1	2	1	3	2	3	2	0	1	1	3	0	1	6	5	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	37044460	T	A	37044460	3	1	476	1	0	0	0	0	1	0	0	0	10428	1490	52	5	6254	5	NIPBL	5	37044460	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08		37044460	143870800	25	24948											
AGGF1	55109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	76342255	76342255	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcgcaaatatgaaaaaGaaggccaaaataggcattca	20	8	7	6	1	1	2	1	1	0	1	2	2	1	2	1	2	0	2	1	2	9	4	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	76342255	G	T	76342255	3	4	476	1	0	0	0	0	1	0	0	0	382	933	33	4	976	4	AGGF1	5	76342255	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	39297795	76342255	104573005	26	24949											
HSPA9	3313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	137903401	137903401	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattttttgctgtgtgcccCaagtaattttctggaaaaga	10	15	9	7	0	1	1	0	0	1	1	1	2	1	2	2	1	2	3	2	1	4	6	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	137903401	C	T	137903401	2	4	476	1	0	0	0	0	0	0	0	1	7417	593	21	2		2	HSPA9	5	137903401	Silent	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	61561146	137903401	43011859	27	24950											
CD83	9308	broad.mit.edu	37	chr6	14118278	14118278	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggatccgcaggttccctaCacggtctcctgggtcaaggt	6	10	13	12	2	2	0	1	0	1	0	5	1	4	1	3	5	1	2	3	5	2	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	14118278	A	A	14118278	4	1	476	1	0	0	0	0	0	1	0	0	3041	489	17	4	141	4	CD83	6	14118278	Nonsense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08		14118278	156996789	28	24951											
SDK1	221935	broad.mit.edu;ucsc.edu	37	chr7	4169711	4169711	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccagcacgcccctcatcctgGagcgcaccaaagacgatggt	10	5	10	16	3	1	1	1	0	0	1	2	3	2	2	5	2	2	2	5	2	1	0	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	4169711	C	C	4169711	3	2	476	1	0	0	0	0	1	0	0	0	13970	1175	41	4	4217	4	SDK1	7	4169711	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		4169711	154968952	29	24952											
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	82785211	82785211	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtacctggaggttgtGatttaattttttctggttgt	5	21	10	5	0	1	1	0	1	1	0	2	2	2	2	2	3	1	3	2	3	2	9	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	82785211	G	T	82785211	4	4	476	1	0	0	0	0	0	1	0	0	11583	1294	45	4	14795	4	PCLO	7	82785211	Nonsense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	78615500	82785211	76353452	30	24953											
MLL5	55904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	104752397	104752397	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgttcacctaaaaacagaGctccaacaaaaacagctatc	17	7	6	11	0	1	1	1	0	0	1	3	1	2	1	2	1	5	3	2	1	7	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	104752397	G	T	104752397	3	4	476	1	0	0	0	0	1	0	0	0	9624	962	34	4	4292	4	MLL5	7	104752397	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	21967186	104752397	54386266	31	24954											
ZNF398	57541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	148875840	148875840	+	Frame_Shift_Del	DEL	T	T	-																															ccagcagcagcaaaggatgcTttttcagatgtggctttcaa																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		-	148875840	T	-	148875840	7	5	476	1	0	1	0	1	0	0	0	0	17884	1596	56	0	898	0	ZNF398	7	148875840	Frame_Shift_Del	DEL	T	TCGA-CZ-5985-01A-11D-1669-08	44123443	148875840	10262823	32	24955											
LRRC19	64922	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	26999658	26999658	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ataataatatcatggagaggGgccaaaagaggattgtgatg	16	9	13	3	0	1	3	1	1	0	2	1	5	1	4	1	4	0	0	1	4	5	4	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	26999658	G	A	26999658	3	1	476	1	0	0	0	0	1	0	0	0	8975	1232	43	2	1093	2	LRRC19	9	26999658	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		26999658	114213773	33	24956											
C9orf25	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	34402709	34402709	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggagggcctctaccttgttCgggccatgacattgttcttc	5	13	12	11	1	2	1	0	1	2	0	4	2	2	2	3	3	1	2	3	3	1	6	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	34402709	C	T	34402709	3	4	476	1	0	0	0	0	1	0	0	0	2476	884	31	1	316	1	C9orf25	9	34402709	Missense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	7403051	34402709	106810722	34	24957											
GAPVD1	26130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	128099711	128099711	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaggagctctgatatagtAtcttctgtccggagacccat	10	11	10	10	1	3	2	0	1	3	1	4	4	4	3	2	2	2	3	2	2	3	4	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	128099711	A	T	128099711	2	4	476	1	0	0	0	0	0	0	0	1	6239	436	16	5		5	GAPVD1	9	128099711	Silent	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	93697002	128099711	13113720	35	24958											
RBM17	84991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	6147033	6147033	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagacagcgggagctggaaaGacaaaaggaaatagaagaaa	21	2	14	4	1	0	4	0	0	0	4	0	8	0	7	0	3	2	1	0	3	7	1	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	6147033	G	A	6147033	3	1	476	1	0	0	0	0	1	0	0	0	13121	942	33	2	390	2	RBM17	10	6147033	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		6147033	129387714	36	24959											
CDH23	64072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	73537549	73537549	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagacacgctcaacaccaGcctcatcaccatccaggcac	12	4	5	20	1	3	1	3	0	0	1	4	1	4	1	5	1	2	2	5	1	1	0	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	73537549	G	T	73537549	3	4	476	1	0	0	0	0	1	0	0	0	3108	971	34	4	5453	4	CDH23	10	73537549	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	67390516	73537549	61997198	37	24960											
CDH23	64072	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	73574721	73574721	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttgcagctgatacagactGagctggacgaggagccagga	11	7	14	9	1	1	3	0	2	1	1	1	7	1	6	1	3	5	3	1	3	1	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	73574721	G	A	73574721	3	1	476	1	0	0	0	0	1	0	0	0	3108	1291	45	2	10445	2	CDH23	10	73574721	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	37172	73574721	61960026	38	24961											
DNTT	1791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	98064450	98064450	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggttcagggttgaaaatGagctcaggtaggacagcatc	13	8	14	6	0	2	2	2	2	0	0	3	3	2	3	0	4	2	5	0	4	4	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	98064450	G	T	98064450	4	4	476	1	0	0	0	0	0	1	0	0	4680	1291	45	4	198	4	DNTT	10	98064450	Nonsense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	24489729	98064450	37470297	39	24962											
SPRYD5	0	broad.mit.edu	37	chr11	55653110	55653110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacctcaacactgacatttGtttgaagaacatggctttca	14	12	6	9	0	2	3	2	2	0	1	2	3	2	3	1	1	3	2	1	1	4	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	55653110	A	A	55653110	3	1	476	1	0	0	0	0	1	0	0	0	15112	1377	48	2	208	2	SPRYD5	11	55653110	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		55653110	79353406	40	24963											
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117309653	117309653	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaggtcagggtgatggaCgaagctgaggttttggagac	10	9	16	6	1	1	3	1	2	0	1	2	6	2	4	1	5	1	2	1	5	1	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	117309653	C	A	117309653	2	1	476	1	0	0	0	0	0	0	0	1	4769	523	19	4		4	DSCAML1	11	117309653	Silent	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	61656543	117309653	17696863	41	24964											
SLC2A14	144195	broad.mit.edu;hgsc.bcm.edu	37	chr12	7967055	7967055	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccacgggtctcagggaCtttgaagaaggtaaaggcca	11	7	13	10	1	1	2	1	1	1	1	2	3	1	3	3	4	1	1	3	4	4	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	7967055	C	T	7967055	3	4	476	1	0	0	0	0	1	0	0	0	14545	565	20	2	146	2	SLC2A14	12	7967055	Missense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08		7967055	125884840	42	24965											
SLITRK6	84189	broad.mit.edu;ucsc.edu	37	chr13	86368849	86368849	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagcgtccgtaagagatcGtaaaatagtatcagccgtat	14	9	9	9	4	1	1	1	0	0	1	3	2	2	1	2	0	2	4	2	0	6	5	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	86368849	A	A	86368849	4	1	476	1	0	0	0	0	0	1	0	0	14749	1153	40	1	734	1	SLITRK6	13	86368849	Nonsense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		86368849	28801029	43	24966											
NDN	4692	broad.mit.edu;hgsc.bcm.edu	37	chr15	23931882	23931882	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcgcaaactccatggtGtgcaggctggttagcctcag	9	8	12	12	1	1	0	1	0	0	0	2	0	2	0	3	3	4	4	3	3	2	1	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	23931882	G	A	23931882	2	1	476	1	0	0	0	0	0	0	0	1	10247	1368	48	2		2	NDN	15	23931882	Silent	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		23931882	78599510	44	24967											
ATF7IP2	80063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	10524570	10524570	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtagagatgctgaataaGtcaaggaatgttgaagcgct	15	9	12	5	1	1	3	1	2	0	1	1	5	1	4	0	1	2	4	0	1	7	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	10524570	G	C	10524570	3	2	476	1	0	0	0	0	1	0	0	0	1088	1020	36	4	95	4	ATF7IP2	16	10524570	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		10524570	79830183	45	24968											
ACSM5	54988	hgsc.bcm.edu;ucsc.edu	37	chr16	20435331	20435332	+	Frame_Shift_Ins	INS	-	-	A																															ctctcttctctgcctggcctINSaatggatcttgcatttttgt																								novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	20435332	-	A	20435331	7	5	476	1	0	1	1	0	0	0	0	0	187	1509	53	0	879	0	ACSM5	16	20435331	Frame_Shift_Ins	INS	-	TCGA-CZ-5985-01A-11D-1669-08	9910761	20435331	69919422	46	24969											
GTF3C1	2975	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	27504025	27504025	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggttctccaccaccgaaaaAatgtaacgcctagaaaacag	17	6	7	11	2	1	1	0	0	1	1	2	2	1	1	4	1	2	2	4	1	7	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	27504025	A	C	27504025	3	2	476	1	0	0	0	0	1	0	0	0	6872	10	1	5	3523	5	GTF3C1	16	27504025	Missense_Mutation	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	7068694	27504025	62850728	47	24970											
C16orf53	0	broad.mit.edu	37	chr16	29831005	29831005	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagcctggactcggaggAccccagccccgccagccccc	6	4	10	21	2	1	0	1	0	0	0	2	3	1	3	8	3	3	0	8	3	0	1	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	29831005	C	C	29831005	3	2	476	1	0	0	0	0	1	0	0	0	1818	275	10	5	705	5	C16orf53	16	29831005	Missense_Mutation	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	2326980	29831005	60523748	48	24971											
SPG7	6687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	89595969	89595969	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgggatgactggaagggaAggtggattcagtgcttttgt	8	11	17	5	1	1	1	1	1	0	0	1	5	1	5	1	5	1	1	1	5	2	3	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	89595969	A	T	89595969	3	4	476	1	0	0	0	0	1	0	0	0	15045	69	3	5	865	5	SPG7	16	89595969	Missense_Mutation	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	59764964	89595969	758784	49	24972											
C19orf57	79173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14000172	14000172	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtgtctggaatgccctgCtgagccccgggctcctggag	4	9	16	12	1	1	1	0	1	1	0	2	3	2	3	4	4	3	2	4	4	1	0	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	14000172	C	T	14000172	2	4	476	1	0	0	0	0	0	0	0	1	1939	796	28	2		2	C19orf57	19	14000172	Silent	SNP	C	TCGA-CZ-5985-01A-11D-1669-08		14000172	45128811	50	24973											
SLC8A2	6543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47969450	47969450	+	Silent	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaagtacaccactgcccGtgccgccttgtcacccagcg	9	6	8	18	3	1	0	1	0	0	0	1	0	1	0	5	0	4	1	5	0	2	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	47969450	G	T	47969450	2	4	476	1	0	0	0	0	0	0	0	1	14709	1144	40	4		4	SLC8A2	19	47969450	Silent	SNP	G	TCGA-CZ-5985-01A-11D-1669-08	33969278	47969450	11159533	51	24974											
HRC	3270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49658118	49658118	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgggcctgcccaccatgcTctgcaaagacctcctcacct	8	7	7	19	1	2	1	1	0	1	1	3	1	3	1	6	1	3	2	6	1	1	0	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	49658118	T	C	49658118	3	2	476	1	0	0	0	0	1	0	0	0	7352	1551	54	3	1746	3	HRC	19	49658118	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08	1688668	49658118	9470865	52	24975											
ZNF615	284370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	52497620	52497620	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggagaaagctttcccacAcatactgcatacatgaggtt	12	11	8	10	0	1	2	0	1	1	1	2	3	2	2	1	2	4	3	1	2	3	4	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		G	52497620	A	G	52497620	3	3	476	1	0	0	0	0	1	0	0	0	18039	159	6	3	1490	3	ZNF615	19	52497620	Missense_Mutation	SNP	A	TCGA-CZ-5985-01A-11D-1669-08	2839502	52497620	6631363	53	24976											
PREX1	57580	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47266686	47266686	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaggccacacagcgggtggGgctccaggggggcttgtttg	5	7	18	11	1	0	0	0	0	0	0	1	0	1	0	3	7	1	3	3	7	0	2	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	47266686	G	A	47266686	3	1	476	1	0	0	0	0	1	0	0	0	12478	1232	43	2	2171	2	PREX1	20	47266686	Missense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		47266686	15758834	54	24977											
TMPRSS15	5651	broad.mit.edu;hgsc.bcm.edu	37	chr21	19716370	19716370	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtccagttggggtagaaatGtaaaatcctgtaaaaatatc	15	11	10	5	0	0	1	0	0	0	1	3	1	2	1	2	3	0	4	2	3	8	5	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	19716370	G	T	19716370	4	4	476	1	0	0	0	0	0	1	0	0	16245	1372	48	4	1940	4	TMPRSS15	21	19716370	Nonsense_Mutation	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		19716370	28413525	55	24978											
DEPDC5	9681	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	32198825	32198825	+	Splice_Site	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagcggatgatagataatgGtaatgctctctggtttgtgc	9	13	13	6	1	1	2	0	1	1	1	2	3	1	3	0	3	3	4	0	3	3	4	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		C	32198825	G	C	32198825	5	2	476	1	0	0	0	0	0	0	1	0	4442	1275	44	4	1136	4	DEPDC5	22	32198825	Splice_Site	SNP	G	TCGA-CZ-5985-01A-11D-1669-08		32198825	19105741	56	24979											
HUWE1	10075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	53615356	53615356	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttacctcaaaaagtagcgTtaaaagcaagattctagtag	16	11	7	7	1	3	1	1	0	2	1	3	1	3	1	1	0	3	4	1	0	9	6	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		A	53615356	T	A	53615356	3	1	476	1	0	0	0	0	1	0	0	0	7461	1725	60	5	8716	5	HUWE1	23	53615356	Missense_Mutation	SNP	T	TCGA-CZ-5985-01A-11D-1669-08		53615356	101655204	57	24980											
ARHGEF6	9459	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135829736	135829736	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgacccctgaataaaggtCatcaggatcaaatatctatg	15	11	7	8	0	4	2	3	2	1	0	4	3	4	3	2	2	0	0	2	2	6	4	novel		TCGA-CZ-5985-01A-11D-1669-08	TCGA-CZ-5985-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ad5eae3d-2f73-49d2-be47-5891e7772bc6	9cb6f5df-835c-4a8b-8524-2a889e3049af		T	135829736	C	T	135829736	3	4	476	1	0	0	0	0	1	0	0	0	910	826	29	2	2145	2	ARHGEF6	23	135829736	Missense_Mutation	SNP	C	TCGA-CZ-5985-01A-11D-1669-08	82214380	135829736	19440824	58	24981											
VPS13D	55187	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	12408985	12408985	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattgtgaggaacagacttGagacaccaatggaactaaga	16	8	10	7	0	1	4	1	2	0	3	1	7	1	6	1	2	2	0	1	2	4	3	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	12408985	G	A	12408985	3	1	477	1	0	0	0	0	1	0	0	0	17191	1291	45	2	9349	2	VPS13D	1	12408985	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		12408985	236841636	1	24982											
PADI3	51702	broad.mit.edu;ucsc.edu	37	chr1	17609393	17609393	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catccccaagccctttgggcCcatcatcaatggctgctgct	7	10	8	16	0	2	0	2	0	0	0	3	0	3	0	4	2	3	3	4	2	2	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	17609393	G	G	17609393	3	3	477	1	0	0	0	0	1	0	0	0	11379	623	22	4	1876	4	PADI3	1	17609393	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	5200408	17609393	231641228	2	24983											
C1orf135	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	26162026	26162026	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caaacaagaactttccaagtCctcggtgaaggaaaaagcca	17	6	8	10	1	0	2	0	1	0	1	3	3	2	3	3	2	3	0	3	2	7	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	26162026	C	T	26162026	3	4	477	1	0	0	0	0	1	0	0	0	1999	855	30	2	545	2	C1orf135	1	26162026	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	8552633	26162026	223088595	3	24984											
CSMD2	114784	broad.mit.edu;hgsc.bcm.edu	37	chr1	34180251	34180251	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaggcacgtgatgcgggcGgtgccctccagacggtaccc	6	5	14	16	4	0	2	0	1	0	1	1	2	1	2	4	4	3	2	4	4	1	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	34180251	G	A	34180251	2	1	477	1	0	0	0	0	0	0	0	1	3945	1103	39	1		1	CSMD2	1	34180251	Silent	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	8018225	34180251	215070370	4	24985											
LRRIQ3	127255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	74507410	74507410	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaaaactctttcatactcCgctccaatcgtatgtctttt	11	15	3	12	2	3	0	1	0	2	0	6	0	5	0	2	0	2	2	2	0	6	5	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	74507410	C	T	74507410	3	4	477	1	0	0	0	0	1	0	0	0	9030	652	23	1	677	1	LRRIQ3	1	74507410	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	40327159	74507410	174743211	5	24986											
NFASC	23114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	204971726	204971726	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtttctgttccccaggcAaccatacgaaaaaaactgtc	13	9	8	11	1	1	0	0	0	1	0	3	2	2	0	3	2	3	3	3	2	5	3	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	204971726	A	T	204971726	3	4	477	1	0	0	0	0	1	0	0	0	10359	130	5	5	3650	5	NFASC	1	204971726	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	130464316	204971726	44278895	6	24987											
RAD51AP2	729475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	17696802	17696802	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttctcttcatctcaaaatCttttactattgtcagagctt	9	20	3	9	0	5	1	3	0	3	1	7	1	5	1	0	0	2	1	0	0	4	8	rs140673266	by1000genomes;alternate_allele	TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	17696802	C	G	17696802	3	3	477	1	0	0	0	0	1	0	0	0	12989	913	32	4	610	4	RAD51AP2	2	17696802	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08		17696802	225502571	7	24988											
YIPF4	84272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	32526479	32526479	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggccaagtccttggagttaTaggatattcattacttcctc	9	15	8	9	0	1	0	1	0	0	0	4	2	3	2	3	3	1	1	3	3	5	7	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	32526479	T	C	32526479	3	2	477	1	0	0	0	0	1	0	0	0	17479	1406	49	3	530	3	YIPF4	2	32526479	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	14829677	32526479	210672894	8	24989											
TTLL4	9654	broad.mit.edu;ucsc.edu	37	chr2	219609908	219609908	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccctcatctacagtctcTttcccaacgttccccctacc	7	11	3	20	1	3	0	1	0	2	0	6	0	5	0	5	0	4	1	5	0	3	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	219609908	A	A	219609908	3	1	477	1	0	0	0	0	1	0	0	0	16728	1609	56	5	1752	5	TTLL4	2	219609908	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	187083429	219609908	23589465	9	24990											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188319	10188344	+	In_Frame_Del	DEL	AGGTACTGACGTTTTACTTTTTAAAA	AGGTACTGACGTTTTACTTTTTAAAA	-																															tttgccaatatcacactgccAggtactgacgttttactttt																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	AGGTACTGACGTTTTACTTTTTAAAA	AGGTACTGACGTTTTACTTTTTAAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	10188344	AGGTACTGACGTTTTACTTTTTAAAA	-	10188319	7	5	477	1	0	1	0	1	0	0	0	0	17161	202	7	0	468	0	VHL	3	10188319	In_Frame_Del	DEL	AGGTACTGACGTTTTACTTTTTAAAA	TCGA-CZ-5986-01A-11D-1669-08		10188319	187834111	10	24991											
SLC22A13	9390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38307442	38307442	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtgtgttctcaacttcCtgtctcccttctactttttt	3	21	5	12	0	3	0	1	0	3	0	6	0	4	0	2	0	3	2	2	0	2	7	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	38307442	C	A	38307442	3	1	477	1	0	0	0	0	1	0	0	0	14446	680	24	4	93	4	SLC22A13	3	38307442	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	28119123	38307442	159714988	11	24992											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52692236	52692236	+	Frame_Shift_Del	DEL	A	A	-																															actttagaaggcagtttctgAaaaagttcgctaatgagacg																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	52692236	A	-	52692236	7	5	477	1	0	1	0	1	0	0	0	0	11491	243	9	0	4380	0	PBRM1	3	52692236	Frame_Shift_Del	DEL	A	TCGA-CZ-5986-01A-11D-1669-08	14384794	52692236	145330194	12	24993											
MUC20	200958	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	195453061	195453061	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcacagttagcaggaatccCcttgaagaaacctcagccct	12	8	8	13	0	2	2	2	1	0	1	3	3	3	3	4	1	3	2	4	1	4	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	195453061	C	A	195453061	2	1	477	1	0	0	0	0	0	0	0	1	9976	610	22	4		4	MUC20	3	195453061	Silent	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	142760825	195453061	2569369	13	24994											
WHSC1	7468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	1980470	1980470	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggagcaccaggacgggaCagccttcagctgcaccccgg	10	4	13	14	2	1	0	1	0	0	0	1	3	1	3	4	4	4	3	4	4	1	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	1980470	C	T	1980470	3	4	477	1	0	0	0	0	1	0	0	0	17361	478	17	2	4090	2	WHSC1	4	1980470	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08		1980470	189173806	14	24995											
HERC3	8916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	89577067	89577067	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttcttctggactcatctAtgcatttggttgtggagcaa	7	15	10	9	0	4	0	1	0	3	0	4	2	4	2	1	3	2	3	1	3	2	5	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	89577067	A	G	89577067	3	3	477	1	0	0	0	0	1	0	0	0	7059	449	16	3	976	3	HERC3	4	89577067	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	87596597	89577067	101577209	15	24996											
SLC10A7	84068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	147438224	147438224	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtccactgttaaagaatAttgttgcaacagcaatgtag	15	12	8	6	0	0	1	0	0	0	1	1	1	1	1	1	0	3	5	1	0	8	6	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	147438224	A	G	147438224	3	3	477	1	0	0	0	0	1	0	0	0	14381	449	16	3	962	3	SLC10A7	4	147438224	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	57861157	147438224	43716052	16	24997											
FAM169A	26049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	74097435	74097435	+	Missense_Mutation	SNP	G	G	A																															cttcggaagtgcttgcaaagGcatcttttagagaatcaatc																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	74097435	G	A	74097435	3	1	477	1	0	0	0	0	1	0	0	0	5487	1203	42	2	1100	2	FAM169A	5	74097435	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		74097435	106817825	17	24998	359	2									
FAM169A	26049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	74097436	74097436	+	Missense_Mutation	SNP	C	C	T																															ttcggaagtgcttgcaaaggCatcttttagagaatcaatct																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	74097436	C	T	74097436	3	4	477	1	0	0	0	0	1	0	0	0	5487	710	25	2	1101	2	FAM169A	5	74097436	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	1	74097436	106817824	18	24999	359	2									
ANKRD32	84250	hgsc.bcm.edu;ucsc.edu	37	chr5	94030788	94030789	+	Frame_Shift_Ins	INS	-	-	A																															attttagcttccaaagggttINSaactcatctaaatgaactgc																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	94030789	-	A	94030788	7	5	477	1	0	1	1	0	0	0	0	0	660	1764	61	0	3026	0	ANKRD32	5	94030788	Frame_Shift_Ins	INS	-	TCGA-CZ-5986-01A-11D-1669-08	19933352	94030788	86884472	19	25000											
PDLIM4	8572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	131606692	131606692	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcctgggatctccatatGgacaaccccctcgctttcca	9	9	7	16	1	1	0	0	0	1	0	4	2	2	2	5	2	2	1	5	2	3	2	rs141857035	byfrequency;alternate_allele	TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	131606692	G	C	131606692	3	2	477	1	0	0	0	0	1	0	0	0	11682	1349	47	4	426	4	PDLIM4	5	131606692	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	37575904	131606692	49308568	20	25001											
PCDHGA1	56114	broad.mit.edu;hgsc.bcm.edu	37	chr5	140712348	140712348	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtggcggcggccgcGgtctcctgcgtcttcctggc	0	10	17	14	5	2	0	0	0	2	0	4	0	3	0	3	7	1	0	3	7	0	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	140712348	G	A	140712348	2	1	477	1	0	0	0	0	0	0	0	1	11550	1103	39	1		1	PCDHGA1	5	140712348	Silent	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	9105656	140712348	40202912	21	25002											
PMS2	5395	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	6048687	6048687	+	RNA	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcctcggggactgggaaaGttccctccagggctcccaca	7	6	12	16	2	0	0	0	0	0	0	4	2	3	2	5	4	0	2	5	4	1	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	6048687	G	C	6048687	1	2	477	0	1	0	0	0	0	0	0	0	12143	1044	36	4		4	PMS2	7	6048687	RNA	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		6048687	153089976	22	25003											
ANKRD7	56311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	117864901	117864901	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccatgaataagcttttcaGcttctggaagaggaagaatg	13	10	11	7	1	2	3	1	1	1	2	2	5	2	5	1	2	2	2	1	2	5	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	117864901	G	A	117864901	3	1	477	1	0	0	0	0	1	0	0	0	686	971	34	2	19	2	ANKRD7	7	117864901	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	111816214	117864901	41273762	23	25004											
WDR91	29062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	134891906	134891906	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcattttcttcttgaaccTggttagtcctctgacactcc	6	17	5	13	0	4	2	1	2	3	0	6	2	6	2	3	1	1	1	3	1	2	6	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	134891906	T	A	134891906	3	1	477	1	0	0	0	0	1	0	0	0	17337	1580	55	5	1731	5	WDR91	7	134891906	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	17027005	134891906	24246757	24	25005											
ADCK2	90956	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	140373652	140373652	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaagctgcatgtccgagtGacgccccacccgtggactca	8	7	10	16	3	1	1	1	1	0	0	3	3	3	2	5	1	2	2	5	1	1	0	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	140373652	G	A	140373652	2	1	477	1	0	0	0	0	0	0	0	1	289	1277	45	2		2	ADCK2	7	140373652	Silent	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	5481746	140373652	18765011	25	25006											
MLL3	58508	hgsc.bcm.edu;ucsc.edu	37	chr7	151836874	151836875	+	Frame_Shift_Del	DEL	CC	CC	-																															cgagcagcatacaggcccagCccctaaaaaaaagtgtgtac																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	CC	CC	CC	-	CC	CC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	151836875	CC	-	151836874	7	5	477	1	0	1	0	1	0	0	0	0	9622	726	26	0	405	0	MLL3	7	151836874	Frame_Shift_Del	DEL	CC	TCGA-CZ-5986-01A-11D-1669-08	11463222	151836874	7301789	26	25007											
NECAB1	64168	broad.mit.edu;hgsc.bcm.edu	37	chr8	91962067	91962067	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagctttcaaatgaatctcGctacatgatctatgagttct	12	14	7	8	1	4	3	1	3	3	0	5	4	4	3	0	0	2	3	0	0	5	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	91962067	G	A	91962067	3	1	477	1	0	0	0	0	1	0	0	0	10304	1087	38	1	935	1	NECAB1	8	91962067	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		91962067	54401955	27	25008											
TLN1	7094	broad.mit.edu	37	chr9	35718904	35718904	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgcagcaggttctgacGgggctgtggagagtgaacac	8	9	16	8	1	1	3	0	2	1	1	1	4	1	3	0	4	4	5	0	4	1	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	35718904	T	T	35718904	3	4	477	1	0	0	0	0	1	0	0	0	15946	1116	39	4	5889	4	TLN1	9	35718904	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		35718904	105494527	28	25009											
GOLGA2	2801	hgsc.bcm.edu;ucsc.edu	37	chr9	131019384	131019384	+	Frame_Shift_Del	DEL	C	C	-																															cacctcatcattctcgtcagCccggtaaaaaaaaggaatgc																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	131019384	C	-	131019384	7	5	477	1	0	1	0	1	0	0	0	0	6552	739	26	0	41	0	GOLGA2	9	131019384	Frame_Shift_Del	DEL	C	TCGA-CZ-5986-01A-11D-1669-08	95300480	131019384	10194047	29	25010											
PKD2L1	9033	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	102089625	102089625	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aactgtccccctatctggtaCctctgatgccttgacagata	9	12	7	13	0	2	3	0	2	2	1	3	3	3	3	4	1	3	1	4	1	4	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	102089625	C	T	102089625	5	4	477	1	0	0	0	0	0	0	1	0	11967	521	18	2	2245	2	PKD2L1	10	102089625	Splice_Site	SNP	C	TCGA-CZ-5986-01A-11D-1669-08		102089625	33445122	30	25011											
TRIM6	117854	hgsc.bcm.edu;ucsc.edu	37	chr11	5624941	5624943	+	In_Frame_Del	DEL	GGA	GGA	-																															ggtcaccacacgttcctcgtGgaggaggttgcccaggagta																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	5624943	GGA	-	5624941	7	5	477	1	0	1	0	1	0	0	0	0	16532	1335	47	0	489	0	TRIM6	11	5624941	In_Frame_Del	DEL	GGA	TCGA-CZ-5986-01A-11D-1669-08		5624941	129381575	31	25012											
CTR9	9646	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	10785039	10785039	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatacagaagtggaagctaTgcaagcagagagctgctatc	15	8	11	7	0	0	2	0	0	0	2	1	4	0	3	0	1	6	5	0	1	7	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	10785039	T	A	10785039	3	1	477	1	0	0	0	0	1	0	0	0	4024	1464	51	5	941	5	CTR9	11	10785039	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	5160098	10785039	124221477	32	25013											
CAT	847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	34478280	34478280	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaaccggaatccagttaaTtactttgctgaggttgaaca	13	13	8	7	1	0	2	0	2	0	0	1	3	1	3	2	2	4	3	2	2	6	5	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	34478280	T	C	34478280	2	2	477	1	0	0	0	0	0	0	0	1	2686	1490	52	3		3	CAT	11	34478280	Silent	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	23693241	34478280	100528236	33	25014											
PRDM11	56981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	45245952	45245952	+	Silent	SNP	G	G	A																															ctgattttcaaggatgttctGgaggcctcactggaatctgc																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	45245952	G	A	45245952	2	1	477	1	0	0	0	0	0	0	0	1	12454	1335	47	2		2	PRDM11	11	45245952	Silent	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	10767672	45245952	89760564	34	25015	360	2									
PRDM11	56981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	45245953	45245953	+	Missense_Mutation	SNP	G	G	A																															tgattttcaaggatgttctgGaggcctcactggaatctgcg																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	45245953	G	A	45245953	3	1	477	1	0	0	0	0	1	0	0	0	12454	1175	41	2	1056	2	PRDM11	11	45245953	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	1	45245953	89760563	35	25016	360	2									
ATM	472	hgsc.bcm.edu;ucsc.edu	37	chr11	108127063	108127063	+	Frame_Shift_Del	DEL	C	C	-																															gtcagaattattccagaaagCcaaggtaggagaatttatac																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	108127063	C	-	108127063	7	5	477	1	0	1	0	1	0	0	0	0	1109	739	26	0	2296	0	ATM	11	108127063	Frame_Shift_Del	DEL	C	TCGA-CZ-5986-01A-11D-1669-08	62881110	108127063	26879453	36	25017											
OR10G4	390264	broad.mit.edu;hgsc.bcm.edu	37	chr11	123886863	123886863	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgcagacacctcagccaaCgtgatggtcatctttgtgga	9	11	11	10	1	3	2	2	1	1	1	3	3	3	3	2	2	3	1	2	2	1	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	123886863	C	A	123886863	3	1	477	1	0	0	0	0	1	0	0	0	10901	535	19	4	584	4	OR10G4	11	123886863	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	15759800	123886863	11119653	37	25018											
NCAPD3	23310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	134079245	134079245	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattgtggcttttctttcaAggaaaactttggcagaagcc	11	13	9	8	0	2	1	1	0	1	1	2	2	2	2	1	3	2	2	1	3	4	5	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	134079245	A	T	134079245	3	4	477	1	0	0	0	0	1	0	0	0	10206	69	3	5	3926	5	NCAPD3	11	134079245	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	10192382	134079245	927271	38	25019											
RERG	85004	broad.mit.edu;ucsc.edu	37	chr12	15262351	15262351	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcatctaggatgttcttaAgtggcagcacttcctcaaaa	11	13	7	10	0	4	0	2	0	3	0	6	1	5	1	1	2	1	3	1	2	4	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	15262351	C	C	15262351	3	2	477	1	0	0	0	0	1	0	0	0	13234	72	3	5	310	5	RERG	12	15262351	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08		15262351	118589544	39	25020											
SOX5	6660	broad.mit.edu;ucsc.edu	37	chr12	23818447	23818447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagctgcagccagtgtccGttgatcaggagggaatacgg	9	7	16	9	2	1	1	1	1	0	0	2	3	2	3	2	4	4	4	2	4	2	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	23818447	A	A	23818447	3	1	477	1	0	0	0	0	1	0	0	0	14956	1144	40	1	1475	1	SOX5	12	23818447	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	8556096	23818447	110033448	40	25021											
OR6C6	283365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	55688731	55688731	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataaaaaataattgagttgCacaattattataagaaatgg	20	12	7	2	0	0	2	0	1	0	1	0	3	0	2	0	1	1	2	0	1	9	7	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	55688731	C	T	55688731	3	4	477	1	0	0	0	0	1	0	0	0	11194	710	25	2	660	2	OR6C6	12	55688731	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	31870284	55688731	78163164	41	25022											
ANKRD52	283373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56647514	56647514	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtccataccattctggAtgaggatctgggagcgtgtg	8	10	14	9	1	2	1	0	1	2	0	3	4	3	4	3	4	2	0	3	4	1	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	56647514	A	T	56647514	3	4	477	1	0	0	0	0	1	0	0	0	678	333	12	5	2333	5	ANKRD52	12	56647514	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	958783	56647514	77204381	42	25023											
BTBD11	121551	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	107713793	107713793	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacacggtcaacaacgactCggagatctggggtctcctgc	9	7	12	13	3	3	1	1	0	2	1	5	3	3	1	1	4	3	1	1	4	2	0	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	107713793	C	T	107713793	3	4	477	1	0	0	0	0	1	0	0	0	1539	893	31	1	1078	1	BTBD11	12	107713793	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	51066279	107713793	26138102	43	25024											
GOLGA3	2802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133351815	133351815	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttcttcagctccgacactTttgcctggagcataaattta	9	15	7	10	1	2	0	1	0	1	0	3	2	3	1	2	1	3	3	2	1	3	7	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	133351815	T	A	133351815	3	1	477	1	0	0	0	0	1	0	0	0	6554	1841	64	5	453	5	GOLGA3	12	133351815	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	25638022	133351815	500080	44	25025											
ATP11A	23250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	113508719	113508719	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcctgcaagctcttccgcagGaacacgcagctgctggagct	8	7	12	14	2	1	0	0	0	1	0	2	2	2	2	2	2	6	7	2	2	2	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	113508719	G	A	113508719	2	1	477	1	0	0	0	0	0	0	0	1	1119	1165	41	2		2	ATP11A	13	113508719	Silent	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		113508719	1661159	45	25026											
JUB	0	hgsc.bcm.edu;ucsc.edu	37	chr14	23444255	23444260	+	In_Frame_Del	DEL	TTGCAA	TTGCAA	-																															ggatgccatccaggcacttgTtgcaaacaatgcatcggaaa																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	TTGCAA	TTGCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	23444260	TTGCAA	-	23444255	7	5	477	1	0	1	0	1	0	0	0	0	7968	1725	60	0	334	0	JUB	14	23444255	In_Frame_Del	DEL	TTGCAA	TCGA-CZ-5986-01A-11D-1669-08		23444255	83905285	46	25027											
BBS4	585	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	73029249	73029249	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcctctgggctctaaTcaagctctaggacaggcaat	11	8	10	12	0	4	0	1	0	3	0	4	1	4	1	1	3	3	4	1	3	4	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	73029249	T	G	73029249	3	3	477	1	0	0	0	0	1	0	0	0	1339	1432	50	5	1453	5	BBS4	15	73029249	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08		73029249	29502143	47	25028											
AP3B2	8120	broad.mit.edu;hgsc.bcm.edu	37	chr15	83349316	83349316	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagagctgcgccaccgccatCaccaccgcggcgctgcggct	6	5	12	18	6	1	1	1	0	0	1	1	1	1	1	5	2	3	3	5	2	1	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	83349316	C	T	83349316	2	4	477	1	0	0	0	0	0	0	0	1	745	813	29	2		2	AP3B2	15	83349316	Silent	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	10320067	83349316	19182076	48	25029											
IQGAP1	8826	hgsc.bcm.edu;ucsc.edu	37	chr15	91035819	91035819	+	Frame_Shift_Del	DEL	G	G	-																															accgacagaggagaaaggccGaactagtgaaactgcaacag																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		-	91035819	G	-	91035819	7	5	477	1	0	1	0	1	0	0	0	0	7814	1059	37	0	4642	0	IQGAP1	15	91035819	Frame_Shift_Del	DEL	G	TCGA-CZ-5986-01A-11D-1669-08	7686503	91035819	11495573	49	25030											
RSPRY1	89970	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	57255221	57255221	+	Missense_Mutation	SNP	G	G	C																															ctcttttgaaagtgtgcgttGcaccttttgtgtggatgccg																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	57255221	G	C	57255221	3	2	477	1	0	0	0	0	1	0	0	0	13715	1319	46	4	1089	4	RSPRY1	16	57255221	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		57255221	33099532	50	25031	361	2									
RSPRY1	89970	broad.mit.edu;ucsc.edu	37	chr16	57255223	57255223	+	Missense_Mutation	SNP	A	T	T																															cttttgaaagtgtgcgttgcAccttttgtgtggatgccggg																								novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	57255223	T	T	57255223	3	4	477	1	0	0	0	0	1	0	0	0	13715	159	6	5	1091	5	RSPRY1	16	57255223	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	2	57255223	33099530	51	25032	361	2									
PHLPP2	23035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71683884	71683884	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggcttggggaggatccAagggtagaggtatgtacagc	9	8	19	5	0	0	1	0	0	0	1	1	3	1	3	1	7	2	4	1	7	4	4	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	71683884	A	C	71683884	3	2	477	1	0	0	0	0	1	0	0	0	11855	130	5	5	1094	5	PHLPP2	16	71683884	Missense_Mutation	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	14428661	71683884	18670869	52	25033											
SEZ6	124925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27284413	27284413	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggggctgccagcctggCgatcatggcaggtgaggatg	7	8	17	9	1	1	1	1	1	0	0	1	3	1	2	2	6	2	2	2	6	0	1	rs117736100	by1000genomes	TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	27284413	C	T	27284413	3	4	477	1	0	0	0	0	1	0	0	0	14144	768	27	1	574	1	SEZ6	17	27284413	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08		27284413	53910797	53	25034											
MED16	10025	broad.mit.edu;hgsc.bcm.edu	37	chr19	884992	884992	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgatgctgctggtctggctgGacgcgcacaaaagcacctgc	8	7	13	13	3	1	0	0	0	1	0	1	2	1	1	1	3	4	5	1	3	2	0	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	884992	G	A	884992	3	1	477	1	0	0	0	0	1	0	0	0	9434	1174	41	2	1781	2	MED16	19	884992	Missense_Mutation	SNP	G	TCGA-CZ-5986-01A-11D-1669-08		884992	58243991	54	25035											
DNMT1	1786	broad.mit.edu	37	chr19	10246885	10246885	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggccagcccagtggttgTgccggttcccggtgtggggc	4	8	18	11	2	0	1	0	0	0	1	1	1	1	1	4	6	2	2	4	6	0	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		C	10246885	C	C	10246885	3	2	477	1	0	0	0	0	1	0	0	0	4675	1696	59	3	346	3	DNMT1	19	10246885	Missense_Mutation	SNP	T	TCGA-CZ-5986-01A-11D-1669-08	9361893	10246885	48882098	55	25036											
IL27RA	9466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	14157046	14157046	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtccagaaggaattacCtgctgctgctccctaattcc	9	11	8	13	0	0	2	0	1	0	1	3	3	3	3	4	1	4	3	4	1	4	3	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	14157046	C	G	14157046	2	3	477	1	0	0	0	0	0	0	0	1	7681	668	24	4		4	IL27RA	19	14157046	Silent	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	3910161	14157046	44971937	56	25037											
KIAA1683	80726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18377009	18377009	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtctttgccatcgcaggCcccgggcatacctggggcag	5	7	16	13	2	1	0	0	0	1	0	2	0	1	0	4	6	2	3	4	6	1	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	18377009	C	T	18377009	2	4	477	1	0	0	0	0	0	0	0	1	8251	726	26	2		2	KIAA1683	19	18377009	Silent	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	4219963	18377009	40751974	57	25038											
CEACAM5	1048	broad.mit.edu;hgsc.bcm.edu	37	chr19	42213711	42213711	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacttgtccacaatctgccCcagcatctttttggctacag	8	13	6	14	0	2	0	0	0	2	0	3	0	3	0	3	1	4	2	3	1	3	5	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	42213711	C	A	42213711	2	1	477	1	0	0	0	0	0	0	0	1	3195	610	22	4		4	CEACAM5	19	42213711	Silent	SNP	C	TCGA-CZ-5986-01A-11D-1669-08	23836702	42213711	16915272	58	25039											
GPR4	2828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	46094945	46094945	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtacagcaggtcggcgatGctgaggttcatcaggtagac	10	9	14	8	2	2	2	2	1	0	1	3	3	2	2	0	4	3	5	0	4	2	3	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		A	46094945	G	A	46094945	2	1	477	1	0	0	0	0	0	0	0	1	6694	1310	46	2		2	GPR4	19	46094945	Silent	SNP	G	TCGA-CZ-5986-01A-11D-1669-08	3881234	46094945	13034038	59	25040											
NLRP4	147945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	56363605	56363605	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaaaaaagcatcccgggaAgaacttgcaaacctcttgat	15	8	8	10	1	2	2	1	1	1	1	3	3	3	3	2	1	4	2	2	1	6	2	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		G	56363605	A	G	56363605	2	3	477	1	0	0	0	0	0	0	0	1	10479	69	3	3		3	NLRP4	19	56363605	Silent	SNP	A	TCGA-CZ-5986-01A-11D-1669-08	10268660	56363605	2765378	60	25041											
GGT7	2686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33447323	33447323	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgccaagtacatccagcaCctcagccaggtcgggccgat	9	6	12	14	2	1	0	1	0	0	0	3	1	2	0	5	3	4	2	5	3	2	1	novel		TCGA-CZ-5986-01A-11D-1669-08	TCGA-CZ-5986-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	0abded91-5a5f-4923-bcf0-7fdda64ae232	a6338f94-6519-4637-9948-0990b8e3598a		T	33447323	C	T	33447323	3	4	477	1	0	0	0	0	1	0	0	0	6364	507	18	2	1087	2	GGT7	20	33447323	Missense_Mutation	SNP	C	TCGA-CZ-5986-01A-11D-1669-08		33447323	29578197	61	25042											
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	11217322	11217322	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcctcccactcgtgcagTttctcataccaggtagcctg	7	11	8	15	1	1	0	1	0	1	0	5	0	3	0	4	1	3	4	4	1	2	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	11217322	T	A	11217322	3	1	478	1	0	0	0	0	1	0	0	0	9954	1722	60	5	3409	5	MTOR	1	11217322	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08		11217322	238033299	1	25043											
USP48	84196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	22079531	22079531	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctttaacaaatcctgatGgatcaatgtatcgcctatta	13	13	7	8	1	1	1	1	1	0	0	3	2	2	2	2	2	1	2	2	2	6	5	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	22079531	G	T	22079531	3	4	478	1	0	0	0	0	1	0	0	0	17078	1348	47	4	2717	4	USP48	1	22079531	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	10862209	22079531	227171090	2	25044											
CA14	23632	broad.mit.edu	37	chr1	150234002	150234002	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggatatgaccagcctggcaCcgagcctttggacctgcaca	9	7	11	14	2	0	1	0	1	0	0	0	4	0	3	5	3	3	2	5	3	1	2	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	150234002	A	A	150234002	3	1	478	1	0	0	0	0	1	0	0	0	2515	507	18	4	231	4	CA14	1	150234002	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	128154471	150234002	99016619	3	25045											
CADM3	57863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159163732	159163732	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctcggtgacattccaggTtacccgggaggatgatgggg	8	8	16	9	2	0	2	0	2	0	0	2	4	1	4	2	6	2	2	2	6	1	2	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	159163732	T	G	159163732	3	3	478	1	0	0	0	0	1	0	0	0	2568	1725	60	5	717	5	CADM3	1	159163732	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08	8929730	159163732	90086889	4	25046											
ATP1A2	477	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	160100072	160100072	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggggggacttggggagCgtgtgctgggtgagaggcca	6	7	22	6	1	0	1	0	1	0	1	0	4	0	3	1	7	3	2	1	7	0	1	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	160100072	C	T	160100072	3	4	478	1	0	0	0	0	1	0	0	0	1129	768	27	1	1688	1	ATP1A2	1	160100072	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	936340	160100072	89150549	5	25047											
SH2D1B	117157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	162368719	162368719	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagagattttaccacaaaTgtttccaactctaatttcaa	14	14	5	8	0	2	2	1	1	1	1	3	3	3	2	2	0	2	1	2	0	5	5	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	162368719	T	G	162368719	2	3	478	1	0	0	0	0	0	0	0	1	14233	1451	51	5		5	SH2D1B	1	162368719	Silent	SNP	T	TCGA-CZ-5987-01A-11D-1669-08	2268647	162368719	86881902	6	25048											
KIAA1614	57710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	180910371	180910371	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcagttgcagcccgccccgCctggcctgacgtcacagtcc	6	6	11	18	3	1	1	1	1	0	0	2	1	2	1	6	1	3	3	6	1	0	1	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	180910371	C	T	180910371	3	4	478	1	0	0	0	0	1	0	0	0	8248	739	26	2	3135	2	KIAA1614	1	180910371	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	18541652	180910371	68340250	7	25049											
C1orf26	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	185143987	185143987	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagaagatcagtttcaaaatCcctataaaatcccgtgacac	16	9	5	11	1	2	3	2	1	0	2	4	3	4	3	2	0	0	1	2	0	6	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	185143987	C	T	185143987	2	4	478	1	0	0	0	0	0	0	0	1	2035	845	30	2		2	C1orf26	1	185143987	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	4233616	185143987	64106634	8	25050											
C2orf29	55571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	101885790	101885790	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctgtattgaattcagtaGgatacgagaagctgctggtc	11	13	11	6	1	2	2	1	1	1	1	3	4	2	3	0	2	3	4	0	2	5	6	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	101885790	G	C	101885790	3	2	478	1	0	0	0	0	1	0	0	0	2161	1000	35	4	1474	4	C2orf29	2	101885790	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08		101885790	141313583	9	25051											
BAZ2B	29994	broad.mit.edu;hgsc.bcm.edu	37	chr2	160289320	160289320	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcttcctcatcttcttcTtcatcatcttcctcttcatc	5	20	0	16	0	11	0	5	0	6	0	14	0	13	0	2	0	0	0	2	0	0	6	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	160289320	T	G	160289320	3	3	478	1	0	0	0	0	1	0	0	0	1332	1606	56	5	4774	5	BAZ2B	2	160289320	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08	58403530	160289320	82910053	10	25052											
AGPS	8540	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	178326666	178326666	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtcatgaaccagattccctgGagttcagtactgtaggagga	11	10	12	8	0	2	2	2	1	0	1	3	5	3	5	2	3	2	3	2	3	3	4	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	178326666	G	C	178326666	3	2	478	1	0	0	0	0	1	0	0	0	394	1175	41	4	950	4	AGPS	2	178326666	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	18037346	178326666	64872707	11	25053											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10191570	10191570	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgctctacgaagatcTggaagaccacccaaatgtgc	12	7	10	12	2	2	2	0	0	2	2	3	4	2	3	2	2	2	1	2	2	4	1	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	10191570	T	C	10191570	3	2	478	1	0	0	0	0	1	0	0	0	17161	1580	55	3	573	3	VHL	3	10191570	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08		10191570	187830860	12	25054											
PDCD6IP	10015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	33855050	33855050	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttttctttcattctatccaGatctgcttgacatttacctg	7	19	5	10	0	4	2	1	1	3	1	5	2	5	2	2	0	2	2	2	0	2	8	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	33855050	G	A	33855050	5	1	478	1	0	0	0	0	0	0	1	0	11624	956	33	2	274	2	PDCD6IP	3	33855050	Splice_Site	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	23663480	33855050	164167380	13	25055											
SUCLG2	8801	broad.mit.edu;hgsc.bcm.edu	37	chr3	67578587	67578587	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaccttcttttggagttTgttttgtcgctagattgtac	6	19	8	8	1	2	1	1	0	1	1	3	2	2	2	1	1	1	4	1	1	2	9	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	67578587	T	C	67578587	3	2	478	1	0	0	0	0	1	0	0	0	15366	1812	63	3	1088	3	SUCLG2	3	67578587	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08	33723537	67578587	130443843	14	25056											
VPS8	23355	broad.mit.edu;ucsc.edu	37	chr3	184633149	184633149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccaacttgcaggtttttGaatttctaattcgcctgcat	8	17	6	10	1	1	1	0	1	1	0	3	1	2	1	2	1	3	3	2	1	3	7	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	184633149	A	A	184633149	3	1	478	1	0	0	0	0	1	0	0	0	17217	1291	45	2	2371	2	VPS8	3	184633149	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	117054562	184633149	13389281	15	25057											
DCLK2	166614	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	151169528	151169528	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaaatcctgagtcacccCtgggtgtcagtaagtaccca	11	8	10	12	0	2	1	2	1	0	0	3	2	3	2	4	2	1	2	4	2	3	2	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	151169528	C	A	151169528	2	1	478	1	0	0	0	0	0	0	0	1	4292	668	24	4		4	DCLK2	4	151169528	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		151169528	39984748	16	25058											
OSMR	9180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	38921794	38921794	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccccaacctggagatgttAtaggctatgttgtggactgg	10	11	12	8	0	0	1	0	0	0	1	0	3	0	2	3	4	2	3	3	4	5	4	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	38921794	A	G	38921794	3	3	478	1	0	0	0	0	1	0	0	0	11292	449	16	3	1743	3	OSMR	5	38921794	Missense_Mutation	SNP	A	TCGA-CZ-5987-01A-11D-1669-08		38921794	141993466	17	25059											
RPS18	6222	broad.mit.edu;hgsc.bcm.edu	37	chr6	33240437	33240437	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaaaagttccagcatatTttgcgagtactcaacaccaa	14	10	6	11	1	1	1	1	1	0	0	2	2	2	1	3	0	4	3	3	0	6	5	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	33240437	T	C	33240437	2	2	478	1	0	0	0	0	0	0	0	1	13630	1829	64	3		3	RPS18	6	33240437	Silent	SNP	T	TCGA-CZ-5987-01A-11D-1669-08		33240437	137874630	18	25060											
ABCC10	89845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	43400901	43400901	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaacggctgcttaactttGctgggagcttccatgaagcc	8	11	11	11	1	0	2	0	2	0	0	1	3	1	3	2	2	6	4	2	2	3	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	43400901	G	C	43400901	3	2	478	1	0	0	0	0	1	0	0	0	50	1319	46	4	1056	4	ABCC10	6	43400901	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	10160464	43400901	127714166	19	25061											
GRM3	2913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	86468364	86468364	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacttcccagtgcagcgacCcctgtgcccccaatgaaatg	9	7	8	17	1	0	1	0	1	0	0	1	2	1	1	6	0	3	1	6	0	2	1	rs17856664	alternate_allele	TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	86468364	C	A	86468364	3	1	478	1	0	0	0	0	1	0	0	0	6798	623	22	4	1544	4	GRM3	7	86468364	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		86468364	72670299	20	25062											
HEPACAM2	253012	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92844896	92844896	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttagccattggtaagctAgccgagtgcccccttccaca	8	12	8	13	1	0	0	0	0	0	0	1	1	1	0	5	1	4	2	5	1	3	7	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	92844896	A	G	92844896	3	3	478	1	0	0	0	0	1	0	0	0	7053	420	15	3	887	3	HEPACAM2	7	92844896	Missense_Mutation	SNP	A	TCGA-CZ-5987-01A-11D-1669-08	6376532	92844896	66293767	21	25063											
AASS	10157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121719654	121719654	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtggtgggtgcctaccatTcagcagcctccaactgggta	8	9	13	11	0	1	0	1	0	0	0	2	1	2	0	4	3	5	2	4	3	3	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	121719654	T	G	121719654	3	3	478	1	0	0	0	0	1	0	0	0	24	1783	62	5	403	5	AASS	7	121719654	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08	28874758	121719654	37419009	22	25064											
PRDM14	63978	broad.mit.edu	37	chr8	70982083	70982083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcacggcctcacttggccGgggtagagccatcccgggac	7	5	15	14	3	1	1	1	0	0	1	2	2	2	2	4	6	1	2	4	6	1	2	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	70982083	A	A	70982083	3	1	478	1	0	0	0	0	1	0	0	0	12457	1115	39	1	1730	1	PRDM14	8	70982083	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08		70982083	75381939	23	25065											
LRRCC1	85444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	86048083	86048083	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcagaagagtattcaaatAgaacttctcaagcacgaaaa	20	7	7	7	1	2	3	2	0	1	3	3	4	2	3	0	0	3	3	0	0	9	4	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	86048083	A	G	86048083	3	3	478	1	0	0	0	0	1	0	0	0	9026	410	15	3	2268	3	LRRCC1	8	86048083	Missense_Mutation	SNP	A	TCGA-CZ-5987-01A-11D-1669-08	15066000	86048083	60315939	24	25066											
DAPK1	1612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	90311963	90311963	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagttctctggaaatcctGtgtatttctgctgttatgac	7	16	11	7	0	2	1	0	1	2	0	4	3	3	3	1	2	1	4	1	2	3	4	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	90311963	G	T	90311963	3	4	478	1	0	0	0	0	1	0	0	0	4235	1377	48	4	2537	4	DAPK1	9	90311963	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08		90311963	50901468	25	25067											
DENND1A	57706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	126143757	126143757	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagctgctccaccgagtctGgggccggggccagggccgga	5	5	18	13	3	1	1	0	1	1	0	2	3	2	2	5	6	2	2	5	6	0	0	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	126143757	G	T	126143757	3	4	478	1	0	0	0	0	1	0	0	0	4426	1348	47	4	49	4	DENND1A	9	126143757	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	35831794	126143757	15069674	26	25068											
TUBAL3	79861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	5435755	5435755	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcccaccttgaaaccagTtggacaccaatctacaaact	14	8	6	13	0	1	1	0	1	1	0	1	3	1	2	4	1	4	1	4	1	4	3	rs181652174	by1000genomes;alternate_allele	TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	5435755	T	C	5435755	3	2	478	1	0	0	0	0	1	0	0	0	16750	1725	60	3	278	3	TUBAL3	10	5435755	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08		5435755	130098992	27	25069											
UBE2D1	7321	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	60128479	60128479	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctttttgtgtatctacaGatacaacagacatgcaagag	14	12	7	8	0	1	3	0	0	1	3	2	3	2	3	1	0	4	2	1	0	5	5	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	60128479	G	T	60128479	5	4	478	1	0	0	0	0	0	0	1	0	16847	956	33	4	424	4	UBE2D1	10	60128479	Splice_Site	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	54692724	60128479	75406268	28	25070											
PLCE1	51196	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96058297	96058298	+	Frame_Shift_Ins	INS	-	-	C																															caggtattctcagaaactgaINScccagcacaccgcctgtcag																								novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	96058298	-	C	96058297	7	5	478	1	0	1	1	0	0	0	0	0	12034	275	10	0	5705	0	PLCE1	10	96058297	Frame_Shift_Ins	INS	-	TCGA-CZ-5987-01A-11D-1669-08	35929818	96058297	39476450	29	25071											
FGFR2	2263	broad.mit.edu;hgsc.bcm.edu	37	chr10	123353230	123353230	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaatgacttaccttctggCtctaatgtggtatcctcaac	10	15	6	10	0	3	1	1	1	2	0	4	1	4	1	2	2	2	2	2	2	6	5	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	123353230	C	T	123353230	2	4	478	1	0	0	0	0	0	0	0	1	5866	796	28	2		2	FGFR2	10	123353230	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	27294933	123353230	12181517	30	25072											
CATSPER1	117144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	65793079	65793079	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatagtcagatatcccacGctggtaggaccccacagagg	11	7	12	11	1	1	3	1	1	0	2	2	4	2	4	3	3	0	2	3	3	3	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	65793079	G	T	65793079	3	4	478	1	0	0	0	0	1	0	0	0	2687	1087	38	4	1618	4	CATSPER1	11	65793079	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08		65793079	69213437	31	25073											
ACSM4	341392	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	7469736	7469736	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtccatattttgcagattCgcctctgaagagcacagctg	9	11	11	10	1	1	3	0	1	1	2	3	3	2	3	2	1	3	3	2	1	2	4	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	7469736	C	T	7469736	2	4	478	1	0	0	0	0	0	0	0	1	186	883	31	1		1	ACSM4	12	7469736	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		7469736	126382159	32	25074											
PZP	5858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9322148	9322148	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgctggtccacattgtcagGaaaattggtgagatccttca	10	12	10	9	0	2	1	2	1	0	1	4	3	4	2	2	3	1	1	2	3	2	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	9322148	G	A	9322148	3	1	478	1	0	0	0	0	1	0	0	0	12871	1174	41	2	2653	2	PZP	12	9322148	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	1852412	9322148	124529747	33	25075											
C12orf10	60314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53693593	53693593	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctgtatacccggcaccgCatgctcggtccagagtccgt	6	8	10	17	4	0	1	0	0	0	1	3	1	2	1	6	2	2	4	6	2	2	2	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	53693593	C	T	53693593	2	4	478	1	0	0	0	0	0	0	0	1	1674	697	25	2		2	C12orf10	12	53693593	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	44371445	53693593	80158302	34	25076											
ACACB	32	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	109577276	109577276	+	Silent	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttcctggttaaaaatCtgggggaaaatgacggactc	12	11	10	8	1	1	1	0	1	1	0	3	3	2	3	2	4	0	1	2	4	5	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	109577276	C	A	109577276	2	1	478	1	0	0	0	0	0	0	0	1	107	903	32	4		4	ACACB	12	109577276	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	55883683	109577276	24274619	35	25077											
FAM48A	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	37593524	37593524	+	Frame_Shift_Del	DEL	A	A	-																															cttgaagtattttttaaaccAaatggaacacctgttaaata																								novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		-	37593524	A	-	37593524	7	5	478	1	0	1	0	1	0	0	0	0	5572	127	5	0	532	0	FAM48A	13	37593524	Frame_Shift_Del	DEL	A	TCGA-CZ-5987-01A-11D-1669-08		37593524	77576354	36	25078											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34129174	34129174	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatggtggtgatgcttcTgtccctcctggaaggttggg	5	12	16	8	0	1	1	0	1	1	0	3	3	3	3	2	6	1	2	2	6	1	2	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	34129174	T	C	34129174	3	2	478	1	0	0	0	0	1	0	0	0	13772	1580	55	3	11986	3	RYR3	15	34129174	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08		34129174	68402218	37	25079											
RYR3	6263	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	34130917	34130917	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccaatttggtatccatgatGacactatggaggctgagagg	11	10	12	8	0	0	3	0	3	0	1	1	5	1	4	2	4	0	2	2	4	3	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	34130917	G	A	34130917	3	1	478	1	0	0	0	0	1	0	0	0	13772	1290	45	2	13090	2	RYR3	15	34130917	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	1743	34130917	68400475	38	25080											
IRX5	10265	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	54966436	54966436	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctacgaccacacacccggCatggcgggctccttggggta	7	6	12	16	3	0	0	0	0	0	0	1	1	1	0	4	5	1	3	4	5	2	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	54966436	C	A	54966436	2	1	478	1	0	0	0	0	0	0	0	1	7847	697	25	4		4	IRX5	16	54966436	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		54966436	35388317	39	25081											
CPNE7	27132	broad.mit.edu	37	chr16	89657660	89657660	+	Frame_Shift_Del	DEL	A	-	-																															cggccgaggagagcaccgggAaagcctctgtaggtgcccgg																								novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		-	89657660	-	-	89657660	7	5	478	1	0	1	0	1	0	0	0	0	3817	247	9	0	1577	0	CPNE7	16	89657660	Frame_Shift_Del	DEL	A	TCGA-CZ-5987-01A-11D-1669-08	34691224	89657660	697093	40	25082											
DNAH2	146754	broad.mit.edu;ucsc.edu	37	chr17	7721647	7721647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtggtcggctgttgatgCgcattggcgataaggaggtg	7	10	18	6	3	0	1	0	1	0	0	1	3	0	2	0	6	1	3	0	6	1	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	7721647	T	T	7721647	3	4	478	1	0	0	0	0	1	0	0	0	4602	768	27	1	10675	1	DNAH2	17	7721647	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		7721647	73473563	41	25083											
SSH2	85464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	27959837	27959837	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctcctttcagttgaatcTgcccaactccttgactgatg	7	15	7	12	0	3	3	1	3	2	0	5	3	4	3	3	0	2	1	3	0	2	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	27959837	T	C	27959837	3	2	478	1	0	0	0	0	1	0	0	0	15186	1580	55	3	1981	3	SSH2	17	27959837	Missense_Mutation	SNP	T	TCGA-CZ-5987-01A-11D-1669-08	20238190	27959837	53235373	42	25084											
RAPGEFL1	51195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	38340547	38340547	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatgcttctccatttcttGgacacctaccaggggctgct	6	12	9	14	0	2	0	0	0	2	0	3	1	2	1	4	3	3	3	4	3	1	4	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		C	38340547	G	C	38340547	3	2	478	1	0	0	0	0	1	0	0	0	13051	1339	47	4	65	4	RAPGEFL1	17	38340547	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	10380710	38340547	42854663	43	25085											
KRT37	8688	broad.mit.edu;hgsc.bcm.edu	37	chr17	39579096	39579096	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgggcctccaggtcGgccttggccagggtcgcgtc	2	9	15	15	3	0	0	0	0	0	0	5	0	2	0	5	5	1	1	5	5	0	1	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	39579096	G	A	39579096	2	1	478	1	0	0	0	0	0	0	0	1	8474	1103	39	1		1	KRT37	17	39579096	Silent	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	1238549	39579096	41616114	44	25086											
PRKCA	5578	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	64731699	64731699	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggatgatgacgtggagtgCaccatggtagaaaagcgagt	13	7	15	6	2	0	3	0	2	0	1	0	6	0	5	1	3	2	2	1	3	3	1	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	64731699	C	T	64731699	2	4	478	1	0	0	0	0	0	0	0	1	12509	718	25	2		2	PRKCA	17	64731699	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	25152603	64731699	16463511	45	25087											
KIF19	124602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	72350319	72350319	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagaggaaggagatcctgaCtggcaccaagtgcatctggg	12	6	15	8	0	1	3	0	1	1	2	2	6	2	4	2	4	1	2	2	4	2	0	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	72350319	C	A	72350319	3	1	478	1	0	0	0	0	1	0	0	0	8282	565	20	4	2397	4	KIF19	17	72350319	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	7618620	72350319	8844891	46	25088											
CDH7	1005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	63477170	63477170	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaaaattcaggatatcaaCgacaatgaacccaaattttt	18	11	4	8	1	3	1	3	1	0	0	3	3	3	2	1	1	2	0	1	1	7	4	rs143932384		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	63477170	C	T	63477170	2	4	478	1	0	0	0	0	0	0	0	1	3115	535	19	1		1	CDH7	18	63477170	Silent	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		63477170	14600078	47	25089											
REXO1	57455	hgsc.bcm.edu	37	chr19	1825928	1825930	+	In_Frame_Del	DEL	CTC	CTC	-																															agccccttctcctcactcttCtcttccttggggggctaaga																								rs149465929	bycluster;by1000genomes	TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		-	1825930	CTC	-	1825928	7	5	478	1	0	1	0	1	0	0	0	0	13243	912	32	0	1795	0	REXO1	19	1825928	In_Frame_Del	DEL	CTC	TCGA-CZ-5987-01A-11D-1669-08		1825928	57303055	48	25090											
ZNF233	353355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	44777290	44777290	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagatgagaactatgtaatAaagctacaaggggagagttc	17	8	12	4	0	0	3	0	1	0	3	1	6	0	3	0	2	3	3	0	2	8	5	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		G	44777290	A	G	44777290	3	3	478	1	0	0	0	0	1	0	0	0	17785	352	13	3	491	3	ZNF233	19	44777290	Missense_Mutation	SNP	A	TCGA-CZ-5987-01A-11D-1669-08	42951362	44777290	14351693	49	25091											
TRAPPC6A	79090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	45666460	45666460	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcaggcttaggatttcGgaatcaccacctggaactta	11	9	11	10	2	1	0	1	0	0	0	2	4	1	3	2	5	1	2	2	5	4	3	rs146982912		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	45666460	G	A	45666460	3	1	478	1	0	0	0	0	1	0	0	0	16462	1116	39	1	13	1	TRAPPC6A	19	45666460	Missense_Mutation	SNP	G	TCGA-CZ-5987-01A-11D-1669-08	889170	45666460	13462523	50	25092											
ESF1	51575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	13695697	13695697	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttccgttctctttgccgggCcttctcctcaaggatttttt	3	19	7	12	2	3	0	1	0	2	0	6	1	4	1	4	2	1	1	4	2	1	7	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	13695697	C	T	13695697	3	4	478	1	0	0	0	0	1	0	0	0	5251	739	26	2	179	2	ESF1	20	13695697	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		13695697	49329823	51	25093											
SLA2	84174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	35261962	35261962	+	Frame_Shift_Del	DEL	C	C	-																															tcacccatgggagactttggCcacgtggacgctggggatgt																								novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		-	35261962	C	-	35261962	7	5	478	1	0	1	0	1	0	0	0	0	14366	739	26	0	543	0	SLA2	20	35261962	Frame_Shift_Del	DEL	C	TCGA-CZ-5987-01A-11D-1669-08	21566265	35261962	27763558	52	25094											
CDH22	64405	broad.mit.edu;hgsc.bcm.edu	37	chr20	44806600	44806600	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaccaaccaggatgagaaCgcagaccaagagggcgatga	15	3	12	11	2	1	4	1	2	0	3	1	7	1	5	3	2	2	1	3	2	3	0	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	44806600	C	T	44806600	3	4	478	1	0	0	0	0	1	0	0	0	3107	536	19	1	594	1	CDH22	20	44806600	Missense_Mutation	SNP	C	TCGA-CZ-5987-01A-11D-1669-08	9544638	44806600	18218920	53	25095											
ARFGEF2	10564	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	47569395	47569395	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttactcagatgctgaacgtcAttttcacccgcatggaaaac	12	11	7	11	2	3	2	3	1	0	1	3	3	3	3	1	1	4	2	1	1	4	3	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		T	47569395	A	T	47569395	3	4	478	1	0	0	0	0	1	0	0	0	853	217	8	5	595	5	ARFGEF2	20	47569395	Missense_Mutation	SNP	A	TCGA-CZ-5987-01A-11D-1669-08	2762795	47569395	15456125	54	25096											
THOC5	8563	hgsc.bcm.edu;ucsc.edu	37	chr22	29914993	29914997	+	Frame_Shift_Del	DEL	ACCTA	ACCTA	-																															cactgccccatcatcagcttAcctagggatgcaaactgttt																								novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	ACCTA	ACCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		-	29914997	ACCTA	-	29914993	7	5	478	1	0	1	0	1	0	0	0	0	15867	405	14	0	584	0	THOC5	22	29914993	Frame_Shift_Del	DEL	ACCTA	TCGA-CZ-5987-01A-11D-1669-08		29914993	21389573	55	25097											
TEX11	56159	broad.mit.edu	37	chrX	69871299	69871299	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgacaaataaaatttataCctctttcagagttgccctct	13	14	5	9	0	3	2	1	1	2	1	3	2	3	2	2	0	2	1	2	0	5	6	novel		TCGA-CZ-5987-01A-11D-1669-08	TCGA-CZ-5987-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	84a1a8d2-54c6-4771-9092-27c5f7fc4e5c	a36b2e09-a18e-4b92-ba23-cb501698161c		A	69871299	A	A	69871299	5	1	478	1	0	0	0	0	0	0	1	0	15773	521	18	4	1349	4	TEX11	23	69871299	Splice_Site	SNP	C	TCGA-CZ-5987-01A-11D-1669-08		69871299	85399261	56	25098											
KIAA0754	643314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	39877862	39877862	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagtcaaactgaggggaAtggtgaggagtgcattgaga	12	8	16	5	0	1	3	1	3	0	1	1	6	1	5	0	4	3	2	0	4	2	1	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	39877862	A	C	39877862	3	2	479	1	0	0	0	0	1	0	0	0	8192	101	4	5	1927	5	KIAA0754	1	39877862	Missense_Mutation	SNP	A	TCGA-CZ-5988-01A-11D-1669-08		39877862	209372759	1	25099											
BCAR3	8412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	94032907	94032907	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatcgcgctgttgccaaaTggttcagcatgatttcacag	10	12	10	9	2	2	2	2	2	0	0	3	2	2	2	1	1	2	4	1	1	2	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	94032907	T	C	94032907	3	2	479	1	0	0	0	0	1	0	0	0	1349	1464	51	3	257	3	BCAR3	1	94032907	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08	54155045	94032907	155217714	2	25100											
SEMA6C	10500	broad.mit.edu;hgsc.bcm.edu	37	chr1	151105698	151105698	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcacgccctccggaggCggcaggaaggtggtgtagag	7	4	21	9	3	0	1	0	0	0	1	1	3	1	3	2	8	0	3	2	8	2	1	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	151105698	C	T	151105698	2	4	479	1	0	0	0	0	0	0	0	1	14043	755	27	1		1	SEMA6C	1	151105698	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	57072791	151105698	98144923	3	25101											
ADAR	103	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	154574192	154574192	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcagaggagtcagacacaTtgaagagatagtcgcagatt	14	7	14	6	1	1	5	1	1	0	4	2	7	1	6	0	2	0	2	0	2	2	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	154574192	T	A	154574192	3	1	479	1	0	0	0	0	1	0	0	0	281	1493	52	5	2810	5	ADAR	1	154574192	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08	3468494	154574192	94676429	4	25102											
OR6N1	128372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	158735823	158735823	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcagatgatctgcacatagGagcagaggatcagcaggaag	14	6	14	7	0	2	3	1	1	1	2	2	6	2	6	0	3	4	4	0	3	2	1	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	158735823	G	A	158735823	3	1	479	1	0	0	0	0	1	0	0	0	11206	1174	41	2	291	2	OR6N1	1	158735823	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	4161631	158735823	90514798	5	25103											
OR2G2	81470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247752396	247752396	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagcattcgggacctgcttCtcccacctgacagtggtcac	9	9	9	14	1	2	1	1	1	1	0	4	2	2	2	3	2	2	2	3	2	1	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	247752396	C	T	247752396	2	4	479	1	0	0	0	0	0	0	0	1	10998	912	32	2		2	OR2G2	1	247752396	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	89016573	247752396	1498225	6	25104											
ASB3	51130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	53955964	53955964	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctccttttctaagaagcaaTtttatgatctcagcattttc	10	17	5	9	0	2	2	1	1	2	1	5	2	3	2	1	0	2	3	1	0	4	7	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	53955964	T	G	53955964	3	3	479	1	0	0	0	0	1	0	0	0	1024	1490	52	5	1091	5	ASB3	2	53955964	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08		53955964	189243409	7	25105											
SPTBN1	6711	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	54870209	54870209	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtaaatggttgaagcaTcaagcatttatggcagaact	15	10	9	7	0	1	2	1	1	0	1	1	2	1	2	0	2	3	5	0	2	6	4	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	54870209	T	C	54870209	2	2	479	1	0	0	0	0	0	0	0	1	15120	1432	50	3		3	SPTBN1	2	54870209	Silent	SNP	T	TCGA-CZ-5988-01A-11D-1669-08	914245	54870209	188329164	8	25106											
CNNM3	26505	hgsc.bcm.edu;ucsc.edu	37	chr2	97492576	97492576	+	Frame_Shift_Del	DEL	C	C	-																															ttcttccatcttaggagacaCcgtggtgaagaggaagcctg																								novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		-	97492576	C	-	97492576	7	5	479	1	0	1	0	1	0	0	0	0	3614	507	18	0	1386	0	CNNM3	2	97492576	Frame_Shift_Del	DEL	C	TCGA-CZ-5988-01A-11D-1669-08	42622367	97492576	145706797	9	25107											
SULT1C3	442038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	108872055	108872055	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgtggccagaaatcccaagGattgcctggtgtcctactac	10	10	10	11	0	0	1	0	0	0	1	2	2	2	2	4	3	3	0	4	3	4	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	108872055	G	A	108872055	3	1	479	1	0	0	0	0	1	0	0	0	15377	1174	41	2	441	2	SULT1C3	2	108872055	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	11379479	108872055	134327318	10	25108											
ATF2	1386	broad.mit.edu;hgsc.bcm.edu	37	chr2	175957974	175957974	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	acttgtactttgggtctgtgGagttgtgtgagctggagaag	7	14	16	4	0	1	2	0	1	1	1	1	4	1	3	0	3	2	3	0	3	2	4	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	175957974	G	C	175957974	3	2	479	1	0	0	0	0	1	0	0	0	1080	1174	41	4	529	4	ATF2	2	175957974	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	67085919	175957974	67241399	11	25109											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179433486	179433486	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcaattaccagatctttGgcaactattggaactgcaag	12	11	9	9	0	2	1	1	0	1	1	2	2	2	2	1	3	4	3	1	3	6	4	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	179433486	G	A	179433486	2	1	479	1	0	0	0	0	0	0	0	1	16734	1335	47	2		2	TTN	2	179433486	Silent	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	3475512	179433486	63765887	12	25110											
CCDC54	84692	hgsc.bcm.edu;ucsc.edu	37	chr3	107096611	107096612	+	Frame_Shift_Ins	INS	-	-	TA																															gtaatcaagatgatgatagtINStatgacggaaaaatgaatct																								novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		TA	107096612	-	TA	107096611	7	5	479	1	0	1	1	0	0	0	0	0	2824	1722	60	0	179	0	CCDC54	3	107096611	Frame_Shift_Ins	INS	-	TCGA-CZ-5988-01A-11D-1669-08		107096611	90925819	13	25111											
COL6A6	131873	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	130293121	130293121	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgggcagcaggataaataCaggtaccccacaggtgctgc	12	6	12	11	0	0	0	0	0	0	0	0	1	0	1	2	4	5	4	2	4	4	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	130293121	C	G	130293121	3	3	479	1	0	0	0	0	1	0	0	0	3703	478	17	4	3325	4	COL6A6	3	130293121	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	23196510	130293121	67729309	14	25112											
NCAPG	64151	broad.mit.edu;hgsc.bcm.edu	37	chr4	17819616	17819616	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attgctttgtattggtgtgcCctttgtgaatatttgaaatc	8	19	9	5	0	0	2	0	2	0	0	1	2	0	2	1	1	2	2	1	1	4	7	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	17819616	C	G	17819616	2	3	479	1	0	0	0	0	0	0	0	1	10207	610	22	4		4	NCAPG	4	17819616	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		17819616	173334660	15	25113											
POLR2B	5431	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57860916	57860916	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttataggaaaaattccaAttatgttgcggtcaacttac	13	15	6	7	1	1	0	1	0	0	0	2	1	2	1	1	2	3	1	1	2	8	7	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	57860916	A	G	57860916	3	3	479	1	0	0	0	0	1	0	0	0	12215	101	4	3	478	3	POLR2B	4	57860916	Missense_Mutation	SNP	A	TCGA-CZ-5988-01A-11D-1669-08	40041300	57860916	133293360	16	25114											
EXOSC9	5393	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	122722621	122722621	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgcgaacgccgcttcctActccgtgccatcgaagagaa	11	7	9	14	5	0	1	0	0	0	1	3	4	2	1	4	0	5	1	4	0	5	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	122722621	A	G	122722621	2	3	479	1	0	0	0	0	0	0	0	1	5321	378	14	3		3	EXOSC9	4	122722621	Silent	SNP	A	TCGA-CZ-5988-01A-11D-1669-08	64861705	122722621	68431655	17	25115											
KLHL2	11275	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	166239048	166239048	+	Frame_Shift_Del	DEL	A	A	-																															tcctgtaacttggcgtcagtAgaatattataacccaacaac																								novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		-	166239048	A	-	166239048	7	5	479	1	0	1	0	1	0	0	0	0	8374	407	15	0	1776	0	KLHL2	4	166239048	Frame_Shift_Del	DEL	A	TCGA-CZ-5988-01A-11D-1669-08	43516427	166239048	24915228	18	25116											
FBXO4	26272	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	41934379	41934379	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgaagttgtagatgggttCatctatgttgcaaatgctga	10	15	12	4	0	2	3	1	2	1	1	2	3	2	3	0	1	2	6	0	1	4	5	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	41934379	C	T	41934379	2	4	479	1	0	0	0	0	0	0	0	1	5748	825	29	2		2	FBXO4	5	41934379	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		41934379	138980881	19	25117											
MAST4	375449	broad.mit.edu	37	chr5	66438350	66438350	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttcttcatgttcacacAggttttcaaaagtaagtgaa	13	15	7	6	0	4	1	3	1	1	0	4	1	4	1	0	1	0	4	0	1	4	7	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	66438350	T	T	66438350	3	4	479	1	0	0	0	0	1	0	0	0	9327	179	7	5	2931	5	MAST4	5	66438350	Missense_Mutation	SNP	A	TCGA-CZ-5988-01A-11D-1669-08	24503971	66438350	114476910	20	25118											
KIAA1244	57221	broad.mit.edu	37	chr6	138628466	138628466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atggagacccttgttcagtgCcctggaaacagtgcatggcg	9	9	13	10	1	1	1	1	0	0	1	1	3	1	2	2	3	3	2	2	3	1	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	138628466	T	T	138628466	3	4	479	1	0	0	0	0	1	0	0	0	8217	739	26	2	3995	2	KIAA1244	6	138628466	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		138628466	32486601	21	25119											
TBP	6908	hgsc.bcm.edu	37	chr6	170871085	170871085	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcagcaGcagcagcagcagcagcagca	14	0	13	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	13	0	0	0	0	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	170871085	G	A	170871085	2	1	479	1	0	0	0	0	0	0	0	1	15643	962	34	2		2	TBP	6	170871085	Silent	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	32242619	170871085	243982	22	25120											
PON3	5446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	95019500	95019500	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcccactaggaagtataTcaatatcttcagagccactt	13	10	6	12	0	3	1	2	0	1	1	3	2	3	2	3	1	2	1	3	1	6	6	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	95019500	T	A	95019500	3	1	479	1	0	0	0	0	1	0	0	0	12250	1435	50	5	925	5	PON3	7	95019500	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08		95019500	64119163	23	25121											
SLC26A5	375611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	103048401	103048401	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccatcagcccgacgcctAgggaacacacgttgaggttt	12	7	10	12	3	1	1	1	1	0	0	1	3	1	2	3	2	3	2	3	2	3	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	103048401	A	G	103048401	3	3	479	1	0	0	0	0	1	0	0	0	14522	420	15	3	1542	3	SLC26A5	7	103048401	Missense_Mutation	SNP	A	TCGA-CZ-5988-01A-11D-1669-08	8028901	103048401	56090262	24	25122											
PPP1R3A	5506	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	113558913	113558913	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatgtcttcagaagaatCagaacctcgtctacttggtt	11	14	8	8	1	4	3	2	0	2	3	5	3	4	3	1	1	2	2	1	1	6	6	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	113558913	C	A	113558913	3	1	479	1	0	0	0	0	1	0	0	0	12373	826	29	4	3245	4	PPP1R3A	7	113558913	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	10510512	113558913	45579750	25	25123											
NOM1	64434	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	156752728	156752728	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaactttcaccgaaaaaGatattgaactgatcttgtta	14	14	7	6	1	2	3	1	2	1	1	2	5	2	4	1	1	2	1	1	1	6	6	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	156752728	G	T	156752728	3	4	479	1	0	0	0	0	1	0	0	0	10530	942	33	4	1506	4	NOM1	7	156752728	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	43193815	156752728	2385935	26	25124											
TEX15	56154	broad.mit.edu;ucsc.edu	37	chr8	30700538	30700538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtaattttttaaggtctGcaaattcagcctgatccaat	11	15	6	9	0	2	1	1	1	1	0	3	1	3	1	3	1	2	2	3	1	4	5	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	30700538	A	A	30700538	3	1	479	1	0	0	0	0	1	0	0	0	15778	1319	46	2	2389	2	TEX15	8	30700538	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08		30700538	115663484	27	25125											
PCSK5	5125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	78774010	78774010	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcgttgtgcgcatcaccatCacccaccccaggagaggaga	10	6	11	14	2	2	2	2	0	0	2	3	4	2	2	4	2	1	2	4	2	0	1	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	78774010	C	T	78774010	2	4	479	1	0	0	0	0	0	0	0	1	11603	816	29	2		2	PCSK5	9	78774010	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		78774010	62439421	28	25126											
OR52J3	119679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	5068193	5068193	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccaagtgttggtgggcatTagcatgtgcattgtaattcg	8	14	12	7	1	0	0	0	0	0	0	2	0	1	0	1	2	2	5	1	2	3	5	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	5068193	T	C	5068193	2	2	479	1	0	0	0	0	0	0	0	1	11122	1742	61	3		3	OR52J3	11	5068193	Silent	SNP	T	TCGA-CZ-5988-01A-11D-1669-08		5068193	129938323	29	25127											
OR2AG2	338755	hgsc.bcm.edu;ucsc.edu	37	chr11	6789789	6789789	+	Frame_Shift_Del	DEL	T	T	-																															gactcttgggctcatgagggTcatgtatttcagaggatgac																								novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		-	6789789	T	-	6789789	7	5	479	1	0	1	0	1	0	0	0	0	10985	1667	58	0	554	0	OR2AG2	11	6789789	Frame_Shift_Del	DEL	T	TCGA-CZ-5988-01A-11D-1669-08	1721596	6789789	128216727	30	25128											
ATG2A	23130	broad.mit.edu;hgsc.bcm.edu	37	chr11	64681821	64681821	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctcacctggaccccggCggggctgcaaggtgagctgg	5	6	16	14	2	1	1	1	1	0	0	1	2	1	2	4	6	3	3	4	6	1	0	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	64681821	C	T	64681821	3	4	479	1	0	0	0	0	1	0	0	0	1093	768	27	1	5653	1	ATG2A	11	64681821	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	57892032	64681821	70324695	31	25129											
CEP164	22897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	117263006	117263006	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctgctcctcattggaggCcaagcaccgggaggtaagat	9	8	13	11	1	2	1	1	0	1	1	3	3	3	3	3	4	2	4	3	4	2	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	117263006	C	T	117263006	3	4	479	1	0	0	0	0	1	0	0	0	3249	739	26	2	2410	2	CEP164	11	117263006	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	52581185	117263006	17743510	32	25130											
SLITRK5	26050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	88329824	88329824	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcacgggcggccacccAcacgcgcacgtgcatcaccg	7	2	14	18	7	1	0	1	0	0	0	1	0	1	0	3	4	1	3	3	4	0	0	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	88329824	A	G	88329824	2	3	479	1	0	0	0	0	0	0	0	1	14748	146	6	3		3	SLITRK5	13	88329824	Silent	SNP	A	TCGA-CZ-5988-01A-11D-1669-08		88329824	26840054	33	25131											
PTPN21	11099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	88983493	88983493	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cataaaacaccactccaaaaTagacggtaggttccaatgca	17	7	6	11	1	0	1	0	0	0	1	2	1	2	1	3	2	2	3	3	2	7	4	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	88983493	T	C	88983493	3	2	479	1	0	0	0	0	1	0	0	0	12788	1406	49	3	3299	3	PTPN21	14	88983493	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08		88983493	18366047	34	25132											
CHD9	80205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	53358659	53358659	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagaagaagattccagaaTtaaagatcaggaagacaaag	23	5	9	4	0	1	6	1	0	0	6	2	7	2	7	1	1	0	0	1	1	9	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	53358659	T	C	53358659	3	2	479	1	0	0	0	0	1	0	0	0	3332	1493	52	3	8648	3	CHD9	16	53358659	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08		53358659	36996094	35	25133											
SMTNL2	342527	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	4500589	4500589	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agccccacgcagaggcagaaGaacttcgagctggctttcac	11	6	11	13	2	1	3	1	0	0	3	2	4	1	3	2	2	3	4	2	2	2	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	4500589	G	C	4500589	3	2	479	1	0	0	0	0	1	0	0	0	14818	933	33	4	1256	4	SMTNL2	17	4500589	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08		4500589	76694621	36	25134											
ADORA2B	136	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	15848766	15848766	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctttgccatcaccatcagCctgggcttctgcactgactt	6	12	7	16	0	3	1	2	1	1	0	3	1	3	1	4	1	3	2	4	1	0	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	15848766	C	T	15848766	2	4	479	1	0	0	0	0	0	0	0	1	328	738	26	2		2	ADORA2B	17	15848766	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	11348177	15848766	65346444	37	25135											
OR1I1	126370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	15198107	15198107	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctattatcctccaccacCgtccccaagatgctagcgaa	11	8	5	17	2	0	1	0	0	0	1	3	2	3	1	7	0	2	1	7	0	5	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	15198107	C	T	15198107	2	4	479	1	0	0	0	0	0	0	0	1	10958	639	23	1		1	OR1I1	19	15198107	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		15198107	43930876	38	25136											
NR2F6	2063	broad.mit.edu;hgsc.bcm.edu	37	chr19	17346354	17346354	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagccatactcggccgaGtcgacctgcaggcggcccag	8	4	14	15	4	0	0	0	0	0	0	2	2	0	0	4	4	3	2	4	4	1	1	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	17346354	G	A	17346354	2	1	479	1	0	0	0	0	0	0	0	1	10629	1020	36	2		2	NR2F6	19	17346354	Silent	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	2148247	17346354	41782629	39	25137											
FFAR2	2867	broad.mit.edu;ucsc.edu	37	chr19	35941423	35941423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcactcaacgccagtctggaCcccctgctcttctatttctc	6	13	5	17	1	6	0	2	0	4	0	7	1	6	1	3	1	2	1	3	1	2	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	35941423	T	T	35941423	2	4	479	1	0	0	0	0	0	0	0	1	5828	506	18	2		2	FFAR2	19	35941423	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	18595069	35941423	23187560	40	25138											
IZUMO1	284359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	49246716	49246716	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcacccccgcaatcgtagGactttcgacaagcgtgaacc	10	8	8	15	4	1	1	1	1	1	0	4	3	1	2	3	1	2	2	3	1	4	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	49246716	G	T	49246716	3	4	479	1	0	0	0	0	1	0	0	0	7933	1174	41	4	587	4	IZUMO1	19	49246716	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	13305293	49246716	9882267	41	25139											
CD33	945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	51728801	51728801	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacttctttcggatggagaGaggaagtaccaaatacagtt	14	11	10	6	1	1	1	0	0	1	1	2	5	1	4	1	3	3	2	1	3	5	6	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	51728801	G	T	51728801	3	4	479	1	0	0	0	0	1	0	0	0	3005	942	33	4	371	4	CD33	19	51728801	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	2482085	51728801	7400182	42	25140											
C20orf112	140688	broad.mit.edu;hgsc.bcm.edu	37	chr20	31035602	31035602	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagaggccccgcctttcaTgctgaggtccgtgggccctg	4	9	15	13	2	1	2	1	1	0	1	2	2	2	2	5	4	1	2	5	4	1	2	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		C	31035602	T	C	31035602	3	2	479	1	0	0	0	0	1	0	0	0	2081	1464	51	3	206	3	C20orf112	20	31035602	Missense_Mutation	SNP	T	TCGA-CZ-5988-01A-11D-1669-08		31035602	31989918	43	25141											
ZNFX1	57169	broad.mit.edu;hgsc.bcm.edu	37	chr20	47874193	47874193	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcttcctcctcatccccttCtgcctgggctaagagagaga	7	12	8	14	0	3	2	1	0	2	2	6	4	6	2	5	1	1	1	5	1	1	4	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	47874193	C	G	47874193	3	3	479	1	0	0	0	0	1	0	0	0	18204	922	32	4	3359	4	ZNFX1	20	47874193	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	16838591	47874193	15151327	44	25142											
PRIC285	0	broad.mit.edu;hgsc.bcm.edu	37	chr20	62193088	62193088	+	Silent	SNP	C	C	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggcttcagctccatccttctCaggagcagtcctgagggtag	7	10	12	12	0	2	1	2	1	1	0	6	2	5	2	3	3	2	4	3	3	1	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		G	62193088	C	G	62193088	2	3	479	1	0	0	0	0	0	0	0	1	12487	813	29	4		4	PRIC285	20	62193088	Silent	SNP	C	TCGA-CZ-5988-01A-11D-1669-08	14318895	62193088	832432	45	25143											
SON	6651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34924766	34924766	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaacgctccatgatgtccCcaatggctgatcgatctatg	10	11	9	11	2	1	3	0	3	1	0	4	4	3	3	3	1	1	2	3	1	3	1	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	34924766	C	A	34924766	3	1	479	1	0	0	0	0	1	0	0	0	14928	623	22	4	3239	4	SON	21	34924766	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		34924766	13205129	46	25144											
SUSD2	56241	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	24579610	24579610	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcgtgcgggcacctggctGgctggtgagccctcctccct	2	9	13	17	2	0	1	0	1	0	0	3	1	2	1	5	4	2	3	5	4	0	0	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		T	24579610	G	T	24579610	2	4	479	1	0	0	0	0	0	0	0	1	15407	1335	47	4		4	SUSD2	22	24579610	Silent	SNP	G	TCGA-CZ-5988-01A-11D-1669-08		24579610	26724956	47	25145											
CNKSR2	22866	broad.mit.edu	37	chrX	21450761	21450761	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaaacagaaaatctaaaaaCcctttctcacaagttgaatg	18	9	6	8	0	2	2	1	1	2	1	3	3	2	3	1	1	2	1	1	1	8	3	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	21450761	A	A	21450761	3	1	479	1	0	0	0	0	1	0	0	0	3607	507	18	4	270	4	CNKSR2	23	21450761	Missense_Mutation	SNP	C	TCGA-CZ-5988-01A-11D-1669-08		21450761	133819799	48	25146											
MTMR8	55613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	63488824	63488824	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attgatacccataaagccaaGaggattggtcaaaggacttc	15	9	9	8	0	1	2	1	1	0	1	2	4	1	4	2	3	2	0	2	3	5	5	novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		A	63488824	G	A	63488824	3	1	479	1	0	0	0	0	1	0	0	0	9949	942	33	2	410	2	MTMR8	23	63488824	Missense_Mutation	SNP	G	TCGA-CZ-5988-01A-11D-1669-08	42038063	63488824	91781736	49	25147											
RBMX	27316	hgsc.bcm.edu	37	chrX	135956571	135956572	+	Frame_Shift_Ins	INS	-	-	GG																															gactgcttccaccataagatINSggcgggggccctcgtgtagg																								novel		TCGA-CZ-5988-01A-11D-1669-08	TCGA-CZ-5988-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	668172b3-1e6f-4362-8432-3651925b86a6	6cd200bc-7468-4a2f-aab4-51e803c2418b		GG	135956572	-	GG	135956571	7	5	479	1	0	1	1	0	0	0	0	0	13153	1451	51	0	328	0	RBMX	23	135956571	Frame_Shift_Ins	INS	-	TCGA-CZ-5988-01A-11D-1669-08	72467747	135956571	19313989	50	25148											
ATG4C	84938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	63300488	63300488	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcctcattactgccaatctTttgtagatgtcagcataaag	12	14	6	9	0	3	1	2	0	1	1	4	1	4	1	2	0	3	2	2	0	5	5	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		G	63300488	T	G	63300488	3	3	480	1	0	0	0	0	1	0	0	0	1098	1841	64	5	1084	5	ATG4C	1	63300488	Missense_Mutation	SNP	T	TCGA-CZ-5989-01A-11D-1669-08		63300488	185950133	1	25149											
OR2G2	81470	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	247752195	247752195	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggcatcgccaagtggaTcatttcatctgcgaggtccc	7	11	12	11	2	3	0	2	0	1	0	5	2	4	1	2	3	1	1	2	3	1	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	247752195	T	C	247752195	2	2	480	1	0	0	0	0	0	0	0	1	10998	1432	50	3		3	OR2G2	1	247752195	Silent	SNP	T	TCGA-CZ-5989-01A-11D-1669-08	184451707	247752195	1498426	2	25150											
FBLN7	129804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	112944841	112944841	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcttccgcatggccacaGcctctgcccccggccgagct	4	7	10	20	4	2	0	0	0	2	0	3	1	3	0	6	2	3	3	6	2	0	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	112944841	G	A	112944841	3	1	480	1	0	0	0	0	1	0	0	0	5701	971	34	2	1108	2	FBLN7	2	112944841	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08		112944841	130254532	3	25151											
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	chr3	10188202	10188212	+	Frame_Shift_Del	DEL	CCTTTGGCTCT	CCTTTGGCTCT	-																															ttgcttgtcccgataggtcaCctttggctcttcagagatgc																								novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	CCTTTGGCTCT	CCTTTGGCTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		-	10188212	CCTTTGGCTCT	-	10188202	7	5	480	1	0	1	0	1	0	0	0	0	17161	506	18	0	351	0	VHL	3	10188202	Frame_Shift_Del	DEL	CCTTTGGCTCT	TCGA-CZ-5989-01A-11D-1669-08		10188202	187834228	4	25152											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52598238	52598238	+	Frame_Shift_Del	DEL	C	C	-																															gaagtccttgaatgacaacaCagcacactttcctgaaagag																								novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		-	52598238	C	-	52598238	7	5	480	1	0	1	0	1	0	0	0	0	11491	478	17	0	1229	0	PBRM1	3	52598238	Frame_Shift_Del	DEL	C	TCGA-CZ-5989-01A-11D-1669-08	42410036	52598238	145424192	5	25153											
ZBTB38	253461	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	141163046	141163046	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacctggtacctatgttgttCagaatccacacagctctgaa	11	11	7	12	0	2	2	1	1	1	1	3	2	3	2	3	1	2	4	3	1	4	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	141163046	C	T	141163046	4	4	480	1	0	0	0	0	0	1	0	0	17538	827	29	2	1818	2	ZBTB38	3	141163046	Nonsense_Mutation	SNP	C	TCGA-CZ-5989-01A-11D-1669-08	88564808	141163046	56859384	6	25154											
SPON2	10417	hgsc.bcm.edu;ucsc.edu	37	chr4	1161269	1161270	+	Frame_Shift_Ins	INS	-	-	T																															ggctctggtcttagacgcagINSttatcagggacgcactcagc																								novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	1161270	-	T	1161269	7	5	480	1	0	1	1	0	0	0	0	0	15084	1020	36	0	12	0	SPON2	4	1161269	Frame_Shift_Ins	INS	-	TCGA-CZ-5989-01A-11D-1669-08		1161269	189993007	7	25155											
ACOX3	8310	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	8416611	8416611	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatcttttgaatatatgtGagatgtctttcagaaccaga	14	14	8	5	0	3	5	1	2	2	4	3	6	3	5	1	0	1	0	1	0	5	5	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	8416611	G	A	8416611	2	1	480	1	0	0	0	0	0	0	0	1	160	1277	45	2		2	ACOX3	4	8416611	Silent	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	7255342	8416611	182737665	8	25156											
RAPGEF2	9693	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	160260314	160260314	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaggctgatcagcaaagccGctacatcatgatcagtaagg	14	8	10	9	1	3	2	3	2	0	0	3	2	3	2	1	2	3	4	1	2	4	3	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	160260314	G	A	160260314	3	1	480	1	0	0	0	0	1	0	0	0	13046	1087	38	1	1909	1	RAPGEF2	4	160260314	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	151843703	160260314	30893962	9	25157											
RICTOR	253260	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	38950756	38950756	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttggctctgtatcttcaTtgatatcaaggaaaaatgtg	12	15	9	5	0	4	1	2	1	2	0	4	2	4	2	0	2	0	3	0	2	5	5	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	38950756	T	C	38950756	3	2	480	1	0	0	0	0	1	0	0	0	13360	1493	52	3	1964	3	RICTOR	5	38950756	Missense_Mutation	SNP	T	TCGA-CZ-5989-01A-11D-1669-08		38950756	141964504	10	25158											
PCDHB1	29930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140431290	140431290	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgcatttccggctccacCgcaagacgggagatttgttt	10	11	10	10	3	0	2	0	0	0	2	2	3	2	2	3	2	1	4	3	2	2	3	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	140431290	C	A	140431290	3	1	480	1	0	0	0	0	1	0	0	0	11534	652	23	4	237	4	PCDHB1	5	140431290	Missense_Mutation	SNP	C	TCGA-CZ-5989-01A-11D-1669-08	101480534	140431290	40483970	11	25159											
PRSS16	10279	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	27222582	27222582	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagccttgtcagtagcccagGctgtggctcagacgaactcc	8	8	11	14	1	2	1	2	0	0	1	3	2	3	1	3	2	3	3	3	2	2	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	27222582	G	A	27222582	3	1	480	1	0	0	0	0	1	0	0	0	12618	1203	42	2	1299	2	PRSS16	6	27222582	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08		27222582	143892485	12	25160											
PFDN6	10471	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33257668	33257668	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagaagctacagggagAagtggagaaatatcaacagc	18	4	12	7	0	1	4	1	0	0	4	1	6	1	4	1	2	4	1	1	2	7	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		G	33257668	A	G	33257668	3	3	480	1	0	0	0	0	1	0	0	0	11759	246	9	3	37	3	PFDN6	6	33257668	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08	6035086	33257668	137857399	13	25161											
RFPL4B	442247	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	112671198	112671198	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggcattttcgggaggaTgtgaccctggatgcagccac	7	9	13	12	2	0	1	0	1	0	0	2	4	1	4	3	4	2	2	3	4	0	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	112671198	T	C	112671198	2	2	480	1	0	0	0	0	0	0	0	1	13258	1461	51	3		3	RFPL4B	6	112671198	Silent	SNP	T	TCGA-CZ-5989-01A-11D-1669-08	79413530	112671198	58443869	14	25162											
TRIM55	84675	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	67064733	67064733	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaacagagtttccaggagaAgatgaaaacccagaaaaagc	20	4	9	8	0	0	5	0	1	0	4	1	6	1	5	2	1	3	1	2	1	6	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	67064733	A	C	67064733	3	2	480	1	0	0	0	0	1	0	0	0	16528	69	3	5	1137	5	TRIM55	8	67064733	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08		67064733	79299289	15	25163											
ZBTB10	65986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	81411971	81411971	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagccctaaccaaaacaaTactacccacttagatattgc	17	8	4	12	0	0	1	0	0	0	1	0	2	0	1	3	0	6	0	3	0	9	6	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	81411971	T	C	81411971	2	2	480	1	0	0	0	0	0	0	0	1	17522	1403	49	3		3	ZBTB10	8	81411971	Silent	SNP	T	TCGA-CZ-5989-01A-11D-1669-08	14347238	81411971	64952051	16	25164											
TSNARE1	203062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	143310906	143310906	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagggcagtgactccagctGataggaagcagcacttgatc	11	7	13	10	0	0	3	0	3	0	0	2	4	1	4	1	2	3	5	1	2	2	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	143310906	G	A	143310906	3	1	480	1	0	0	0	0	1	0	0	0	16629	1294	45	2	64	2	TSNARE1	8	143310906	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	61898935	143310906	3053116	17	25165											
PBX3	5090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	128724472	128724472	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttaccaagggtcccaagtCggagccaatgtgcaatcaca	12	8	9	12	1	2	0	1	0	1	0	4	1	3	1	3	2	3	1	3	2	5	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	128724472	C	T	128724472	2	4	480	1	0	0	0	0	0	0	0	1	11494	871	31	1		1	PBX3	9	128724472	Silent	SNP	C	TCGA-CZ-5989-01A-11D-1669-08		128724472	12488959	18	25166											
VAV2	7410	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	136674238	136674238	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcagcagttcctcttgTcatcttcagtcatgcccatt	7	13	8	13	0	5	0	3	0	2	0	6	0	6	0	2	1	2	4	2	1	0	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	136674238	T	A	136674238	3	1	480	1	0	0	0	0	1	0	0	0	17131	1667	58	5	2142	5	VAV2	9	136674238	Missense_Mutation	SNP	T	TCGA-CZ-5989-01A-11D-1669-08	7949766	136674238	4539193	19	25167											
THNSL1	79896	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	25312229	25312229	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtatacatgttaaaacggAtaaacatgcacagcgatttc	16	11	7	7	2	0	0	0	0	0	0	1	2	0	1	0	1	5	3	0	1	7	6	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		G	25312229	A	G	25312229	3	3	480	1	0	0	0	0	1	0	0	0	15861	333	12	3	79	3	THNSL1	10	25312229	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08		25312229	110222518	20	25168											
CYP2C8	1558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	96805619	96805619	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtccatatctcagagtggtGcttgttgtctctgttccagc	6	15	10	10	0	2	1	1	0	2	1	6	1	4	1	2	1	2	3	2	1	1	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	96805619	G	A	96805619	2	1	480	1	0	0	0	0	0	0	0	1	4167	1310	46	2		2	CYP2C8	10	96805619	Silent	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	71493390	96805619	38729128	21	25169											
GBF1	8729	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	104129688	104129688	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgagcagtctagtgttcggGgcccatccactgaaaaccaa	11	8	10	12	1	1	2	0	2	1	0	3	2	2	2	3	2	2	2	3	2	4	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	104129688	G	T	104129688	3	4	480	1	0	0	0	0	1	0	0	0	6271	1232	43	4	3381	4	GBF1	10	104129688	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	7324069	104129688	31405059	22	25170											
MUC6	4588	broad.mit.edu	37	chr11	1025856	1025856	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccccggagttcccacaGatgacgttctctgtcaggat	8	10	11	12	2	2	3	1	2	1	1	4	5	3	5	3	2	0	2	3	2	0	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	1025856	T	T	1025856	2	4	480	1	0	0	0	0	0	0	0	1	9980	932	33	4		4	MUC6	11	1025856	Silent	SNP	G	TCGA-CZ-5989-01A-11D-1669-08		1025856	133980660	23	25171											
ABCC9	10060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	22015946	22015946	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctactgtagcatttaatagCcaaggcttttgagctgcata	11	14	8	8	0	1	1	0	1	1	0	1	1	1	1	1	1	5	5	1	1	6	8	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	22015946	C	A	22015946	3	1	480	1	0	0	0	0	1	0	0	0	59	740	26	4	2595	4	ABCC9	12	22015946	Missense_Mutation	SNP	C	TCGA-CZ-5989-01A-11D-1669-08		22015946	111835949	24	25172											
KRT78	196374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53242514	53242514	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggcccaccactccactcCccaaaccgcacccccagcct	9	3	4	25	1	0	0	0	0	0	0	2	0	2	0	10	1	2	1	10	1	1	0	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	53242514	C	T	53242514	2	4	480	1	0	0	0	0	0	0	0	1	8491	610	22	2		2	KRT78	12	53242514	Silent	SNP	C	TCGA-CZ-5989-01A-11D-1669-08	31226568	53242514	80609381	25	25173											
SPRYD4	283377	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	56863103	56863103	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgttgatgatcgttcctgGgtgttcacctatgcccagcg	5	13	13	10	2	1	2	1	2	0	0	3	2	2	2	3	2	2	3	3	2	1	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	56863103	G	A	56863103	4	1	480	1	0	0	0	0	0	1	0	0	15111	1241	43	2	372	2	SPRYD4	12	56863103	Nonsense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	3620589	56863103	76988792	26	25174											
MAP3K9	4293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	71267589	71267589	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcagacatacccctcttagGgcaatgatgttggggtgctt	8	13	11	9	0	2	2	1	1	1	1	2	2	2	2	2	3	2	3	2	3	3	5	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	71267589	G	A	71267589	2	1	480	1	0	0	0	0	0	0	0	1	9257	1219	43	2		2	MAP3K9	14	71267589	Silent	SNP	G	TCGA-CZ-5989-01A-11D-1669-08		71267589	36081951	27	25175											
PLA2G4F	255189	hgsc.bcm.edu;ucsc.edu	37	chr15	42434287	42434287	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtatcgactgagggccacCagccgataaaagtcctgggg	10	8	13	10	2	0	1	0	1	0	0	2	3	1	1	4	3	1	1	4	3	3	3	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	42434287	C	T	42434287	2	4	480	1	0	0	0	0	0	0	0	1	12006	581	21	2		2	PLA2G4F	15	42434287	Silent	SNP	C	TCGA-CZ-5989-01A-11D-1669-08		42434287	60097105	28	25176											
CELF6	60677	broad.mit.edu;ucsc.edu	37	chr15	72597100	72597100	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttacctcctcggccctcActggcagctggcttcacttg	6	11	9	15	1	2	0	2	0	0	0	4	0	3	0	3	3	2	4	3	3	2	3	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	72597100	C	C	72597100	3	2	480	1	0	0	0	0	1	0	0	0	3220	156	6	5	1104	5	CELF6	15	72597100	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08	30162813	72597100	29934292	29	25177											
UNC45A	55898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	91478784	91478784	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctacaggccagctcagTggagcagctgcggaaggagg	9	6	15	11	1	2	0	1	0	1	0	3	3	2	3	1	5	5	3	1	5	2	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	91478784	T	A	91478784	3	1	480	1	0	0	0	0	1	0	0	0	16987	1696	59	5	68	5	UNC45A	15	91478784	Missense_Mutation	SNP	T	TCGA-CZ-5989-01A-11D-1669-08	18881684	91478784	11052608	30	25178											
MYLK3	91807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	46781877	46781877	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggaaccccatcagcccCgcccgggcccggtgcccggg	4	3	16	18	4	1	0	1	0	0	0	1	1	1	1	7	5	3	0	7	5	1	0	rs143624767		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	46781877	C	T	46781877	3	4	480	1	0	0	0	0	1	0	0	0	10058	652	23	1	2282	1	MYLK3	16	46781877	Missense_Mutation	SNP	C	TCGA-CZ-5989-01A-11D-1669-08		46781877	43572876	31	25179											
NOD2	64127	hgsc.bcm.edu;ucsc.edu	37	chr16	50763736	50763736	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttttccaggttgtccAataactgcatcacctaccta	9	15	4	13	0	3	0	1	0	2	0	5	0	5	0	4	1	3	2	4	1	4	7	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	50763736	A	T	50763736	3	4	480	1	0	0	0	0	1	0	0	0	10517	130	5	5	3016	5	NOD2	16	50763736	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08	3981859	50763736	39591017	32	25180											
ZNF23	7571	broad.mit.edu	37	chr16	71487199	71487199	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggagatgagccccccAgctcacttcctccctccagt	7	8	8	18	0	1	2	1	1	0	1	4	3	4	2	7	1	2	1	7	1	0	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	71487199	T	T	71487199	3	4	480	1	0	0	0	0	1	0	0	0	17782	188	7	5	1850	5	ZNF23	16	71487199	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08	20723463	71487199	18867554	33	25181											
TRPV1	7442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	3486632	3486632	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgtgggaaggaacgcttacCcctcggaaaaagaagtagac	15	6	12	8	2	0	2	0	0	0	2	1	5	0	5	2	3	2	2	2	3	7	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	3486632	C	T	3486632	2	4	480	1	0	0	0	0	0	0	0	1	16594	637	22	2		2	TRPV1	17	3486632	Silent	SNP	C	TCGA-CZ-5989-01A-11D-1669-08		3486632	77708578	34	25182											
XYLT2	64132	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	48432223	48432223	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccccaccagcgttccgaCtacctgcaccgggaggtggt	6	7	11	17	3	0	0	0	0	0	0	2	2	2	1	7	3	3	2	7	3	1	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	48432223	C	A	48432223	3	1	480	1	0	0	0	0	1	0	0	0	17463	564	20	4	827	4	XYLT2	17	48432223	Missense_Mutation	SNP	C	TCGA-CZ-5989-01A-11D-1669-08	44945591	48432223	32762987	35	25183											
ABCA9	10350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	67023934	67023934	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccattcttgaaagtgtGtgattatagacagtgactga	12	13	10	6	0	2	5	1	4	1	1	2	5	2	5	1	0	1	0	1	0	3	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		A	67023934	G	A	67023934	2	1	480	1	0	0	0	0	0	0	0	1	39	1368	48	2		2	ABCA9	17	67023934	Silent	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	18591711	67023934	14171276	36	25184											
SRP68	6730	broad.mit.edu;hgsc.bcm.edu	37	chr17	74041394	74041394	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaagctttgaacaccagaGtcttgaggcctatctctttc	9	14	8	10	0	2	3	0	2	2	1	4	3	2	3	2	1	2	2	2	1	3	5	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	74041394	G	T	74041394	3	4	480	1	0	0	0	0	1	0	0	0	15157	1029	36	4	530	4	SRP68	17	74041394	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08	7017460	74041394	7153816	37	25185											
CCBE1	147372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	57103282	57103282	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgctgaagagtgagtcCggtgcccgaacaccttttcc	7	10	10	14	2	1	3	0	2	1	1	3	4	3	3	5	1	3	1	5	1	2	2	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	57103282	C	T	57103282	3	4	480	1	0	0	0	0	1	0	0	0	2731	652	23	1	145	1	CCBE1	18	57103282	Missense_Mutation	SNP	C	TCGA-CZ-5989-01A-11D-1669-08		57103282	20973966	38	25186											
COL5A3	50509	broad.mit.edu	37	chr19	10073521	10073521	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcgacggaatgtgctatAccagcctccaggcttttcct	7	11	8	15	2	0	0	0	0	0	0	3	2	2	1	5	2	3	2	5	2	3	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		T	10073521	T	T	10073521	3	4	480	1	0	0	0	0	1	0	0	0	3698	391	14	5	424	5	COL5A3	19	10073521	Missense_Mutation	SNP	A	TCGA-CZ-5989-01A-11D-1669-08		10073521	49055462	39	25187											
EIF6	3692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	33872048	33872048	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggggatggtatcggagaGctcgccctcgaacacactgt	9	7	13	12	4	0	1	0	0	0	1	3	4	0	2	1	4	2	2	1	4	2	1	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	33872048	G	C	33872048	3	2	480	1	0	0	0	0	1	0	0	0	5045	971	34	4	633	4	EIF6	20	33872048	Missense_Mutation	SNP	G	TCGA-CZ-5989-01A-11D-1669-08		33872048	29153472	40	25188											
TOMM34	10953	hgsc.bcm.edu;ucsc.edu	37	chr20	43572209	43572210	+	In_Frame_Ins	INS	-	-	TTA																															gtactgcttcaggaccaaatINSagcagagtgctctgaaggga																								novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		TTA	43572210	-	TTA	43572209	7	5	480	1	0	1	1	0	0	0	0	0	16356	1406	49	0	227	0	TOMM34	20	43572209	In_Frame_Ins	INS	-	TCGA-CZ-5989-01A-11D-1669-08	9700161	43572209	19453311	41	25189											
NCOA3	8202	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	46252829	46252829	+	Splice_Site	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtcaaataaaagagcaaggTaataaaaacactcatgtctt	19	9	6	7	1	3	1	2	0	1	1	3	1	3	1	0	1	2	2	0	1	8	4	novel		TCGA-CZ-5989-01A-11D-1669-08	TCGA-CZ-5989-11A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	852e1614-35c0-4ba7-a29c-e8e2a91aa1b7	4848f879-d959-44d1-8732-e7817c136370		C	46252829	T	C	46252829	5	2	480	1	0	0	0	0	0	0	1	0	10230	1652	57	3	264	3	NCOA3	20	46252829	Splice_Site	SNP	T	TCGA-CZ-5989-01A-11D-1669-08	2680620	46252829	16772691	42	25190											
RLF	6018	hgsc.bcm.edu;ucsc.edu	37	chr1	40705015	40705015	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagcactctgagcacacAcagtacccctgcatggttca	10	8	10	13	0	2	1	1	1	1	0	2	2	2	2	2	2	4	5	2	2	1	2	rs1044739	alternate_allele	TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	40705015	A	G	40705015	2	3	481	1	0	0	0	0	0	0	0	1	13391	146	6	3		3	RLF	1	40705015	Silent	SNP	A	TCGA-DV-5565-01A-01D-1534-10		40705015	208545606	1	25191											
MIER1	57708	hgsc.bcm.edu;ucsc.edu	37	chr1	67442342	67442342	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggaaaaaatctgaacgttAtgatttctttgctcagcaaa	14	13	8	6	1	3	2	1	2	2	0	3	3	3	3	0	1	3	3	0	1	6	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	67442342	A	G	67442342	3	3	481	1	0	0	0	0	1	0	0	0	9580	449	16	3	1289	3	MIER1	1	67442342	Missense_Mutation	SNP	A	TCGA-DV-5565-01A-01D-1534-10	26737327	67442342	181808279	2	25192											
LAMC1	3915	hgsc.bcm.edu;ucsc.edu	37	chr1	183094629	183094629	+	Frame_Shift_Del	DEL	C	C	-																															cctcacgtgactggccaggaCtgtggtgcttgtgaccctgg																								novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		-	183094629	C	-	183094629	7	5	481	1	0	1	0	1	0	0	0	0	8614	564	20	0	2803	0	LAMC1	1	183094629	Frame_Shift_Del	DEL	C	TCGA-DV-5565-01A-01D-1534-10	115652287	183094629	66155992	3	25193											
KDM5B	10765	hgsc.bcm.edu;ucsc.edu	37	chr1	202710756	202710756	+	Frame_Shift_Del	DEL	T	T	-																															catcaaattcaaagctgacaTctagcaagtcctgcagctcc																								novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		-	202710756	T	-	202710756	7	5	481	1	0	1	0	1	0	0	0	0	8134	1435	50	0	1986	0	KDM5B	1	202710756	Frame_Shift_Del	DEL	T	TCGA-DV-5565-01A-01D-1534-10	19616127	202710756	46539865	4	25194											
IL10	3586	hgsc.bcm.edu;ucsc.edu	37	chr1	206944318	206944318	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttcacatgcgccttgatGtctgggtcttggttctcagc	5	14	12	10	1	4	1	2	1	3	0	5	2	4	1	1	2	2	2	1	2	0	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	206944318	G	A	206944318	2	1	481	1	0	0	0	0	0	0	0	1	7619	1368	48	2		2	IL10	1	206944318	Silent	SNP	G	TCGA-DV-5565-01A-01D-1534-10	4233562	206944318	42306303	5	25195											
RAD51AP2	729475	hgsc.bcm.edu;ucsc.edu	37	chr2	17697759	17697759	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttaacataggtttcatatTatcttctaatagtcttgaag	12	18	5	6	0	4	1	1	1	3	0	4	1	4	1	0	1	1	1	0	1	7	10	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	17697759	T	A	17697759	3	1	481	1	0	0	0	0	1	0	0	0	12989	1754	61	5	1567	5	RAD51AP2	2	17697759	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10		17697759	225501614	6	25196											
PLB1	151056	hgsc.bcm.edu;ucsc.edu	37	chr2	28851970	28851970	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actccctgcagctcccaaggGctttcgtcaacgtggtggag	7	9	12	13	2	1	0	1	0	0	0	4	1	3	1	2	3	3	3	2	3	2	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	28851970	G	A	28851970	3	1	481	1	0	0	0	0	1	0	0	0	12024	1203	42	2	3979	2	PLB1	2	28851970	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	11154211	28851970	214347403	7	25197											
IL1F8	0	hgsc.bcm.edu;ucsc.edu	37	chr2	113788714	113788714	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagaatcacgaatagcatagGatttgggtgctgcctcccct	10	10	11	10	1	1	1	1	0	0	1	2	4	2	2	3	2	3	2	3	2	4	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	113788714	G	C	113788714	3	2	481	1	0	0	0	0	1	0	0	0	7656	1174	41	4	695	4	IL1F8	2	113788714	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	84936744	113788714	129410659	8	25198											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179667069	179667069	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcaggaactggaaaacCtgaagagcaagaacaattca	18	5	8	10	0	2	3	2	1	0	2	2	5	2	5	2	2	4	1	2	2	7	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	179667069	C	T	179667069	5	4	481	1	0	0	0	0	0	0	1	0	16734	695	24	2	111337	2	TTN	2	179667069	Splice_Site	SNP	C	TCGA-DV-5565-01A-01D-1534-10	65878355	179667069	63532304	9	25199											
ZNF860	344787	hgsc.bcm.edu;ucsc.edu	37	chr3	32031883	32031883	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaaattttttagacgtCgttcatatctcgtagttcat	9	17	8	7	3	3	1	2	0	1	1	5	1	3	1	0	1	0	4	0	1	4	7	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	32031883	C	A	32031883	3	1	481	1	0	0	0	0	1	0	0	0	18193	884	31	4	1314	4	ZNF860	3	32031883	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10		32031883	165990547	10	25200											
C4orf14	0	hgsc.bcm.edu	37	chr4	57842799	57842800	+	Frame_Shift_Del	DEL	GC	GC	-																															ccactccatagccggtcttgGcgctgatcagccgcacgtcc																								novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		-	57842800	GC	-	57842799	7	5	481	1	0	1	0	1	0	0	0	0	2251	1203	42	0	1171	0	C4orf14	4	57842799	Frame_Shift_Del	DEL	GC	TCGA-DV-5565-01A-01D-1534-10		57842799	133311477	11	25201											
ANKRD17	26057	hgsc.bcm.edu;ucsc.edu	37	chr4	74017194	74017194	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catttcatctgttttatgctCttgatccgcgcctgcttcca	5	17	6	13	2	3	1	1	1	2	0	5	1	5	1	3	0	2	3	3	0	1	5	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	74017194	C	T	74017194	3	4	481	1	0	0	0	0	1	0	0	0	646	922	32	2	6641	2	ANKRD17	4	74017194	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10	16174395	74017194	117137082	12	25202											
AFF1	4299	hgsc.bcm.edu;ucsc.edu	37	chr4	88029399	88029399	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactcagacagttcctcaGactcagagagcgagagcagt	12	7	12	10	1	3	5	3	1	0	4	4	7	4	5	1	0	2	2	1	0	0	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	88029399	G	T	88029399	3	4	481	1	0	0	0	0	1	0	0	0	356	942	33	4	1524	4	AFF1	4	88029399	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	14012205	88029399	103124877	13	25203											
FBN2	2201	hgsc.bcm.edu;ucsc.edu	37	chr5	127613688	127613688	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttggcattaccttacatTcatcaatatctgtggaccaa	11	14	7	9	0	3	0	2	0	1	0	3	1	3	1	2	3	2	2	2	3	5	5	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	127613688	T	G	127613688	3	3	481	1	0	0	0	0	1	0	0	0	5703	1783	62	5	1415	5	FBN2	5	127613688	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10		127613688	53301572	14	25204											
HMMR	3161	hgsc.bcm.edu	37	chr5	162917425	162917426	+	Frame_Shift_Ins	INS	-	-	A																															aactccgctgtcagcttgctINSaaaaaaaaacaaagtgagac																								novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	162917426	-	A	162917425	7	5	481	1	0	1	1	0	0	0	0	0	7242	1509	53	0	2058	0	HMMR	5	162917425	Frame_Shift_Ins	INS	-	TCGA-DV-5565-01A-01D-1534-10	35303737	162917425	17997835	15	25205											
STX1A	6804	hgsc.bcm.edu;ucsc.edu	37	chr7	73123410	73123410	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atccatgaagcggtctcggtCcacggtgacagcgacatcat	10	8	11	12	4	2	2	1	2	1	0	5	3	4	2	2	3	2	0	2	3	1	0	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	73123410	C	G	73123410	3	3	481	1	0	0	0	0	1	0	0	0	15344	855	30	4	829	4	STX1A	7	73123410	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10		73123410	86015253	16	25206											
AKAP9	10142	hgsc.bcm.edu;ucsc.edu	37	chr7	91722542	91722542	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaatggtggttgctgaaCtgaagagtgagcttgcacaa	14	9	13	5	0	0	5	0	3	0	2	0	5	0	5	0	2	4	4	0	2	5	2	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	91722542	C	A	91722542	3	1	481	1	0	0	0	0	1	0	0	0	459	564	20	4	9644	4	AKAP9	7	91722542	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10	18599132	91722542	67416121	17	25207											
ST7	7982	hgsc.bcm.edu;ucsc.edu	37	chr7	116849867	116849867	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctagaaatgaaaagcttaatCctacccccagaacatatcct	16	9	4	12	0	0	3	0	1	0	2	2	3	2	3	4	0	3	1	4	0	8	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	116849867	C	G	116849867	3	3	481	1	0	0	0	0	1	0	0	0	15230	845	30	4	1331	4	ST7	7	116849867	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10	25127325	116849867	42288796	18	25208											
LEP	3952	hgsc.bcm.edu;ucsc.edu	37	chr7	127894682	127894682	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacttgccctgggccagtGgcctggagaccttggacagc	6	7	14	14	0	0	1	0	0	0	1	0	3	0	2	5	4	2	0	5	4	0	2	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	127894682	G	A	127894682	3	1	481	1	0	0	0	0	1	0	0	0	8727	1348	47	2	376	2	LEP	7	127894682	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	11044815	127894682	31243981	19	25209											
C8orf42	157695	hgsc.bcm.edu;ucsc.edu	37	chr8	444511	444511	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccctttggacttgggagaTttacatctttccaggagatg	9	14	10	8	0	1	2	0	0	1	2	2	5	2	3	2	3	2	0	2	3	2	6	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	444511	T	C	444511	2	2	481	1	0	0	0	0	0	0	0	1	2428	1490	52	3		3	C8orf42	8	444511	Silent	SNP	T	TCGA-DV-5565-01A-01D-1534-10		444511	145919511	20	25210											
DPYS	1807	hgsc.bcm.edu;ucsc.edu	37	chr8	105440278	105440278	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggggatcttggtaaaaTcatccttcccaagagctttc	10	13	8	10	0	2	1	1	0	1	1	5	2	4	2	2	3	1	2	2	3	3	5	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	105440278	T	C	105440278	3	2	481	1	0	0	0	0	1	0	0	0	4746	1435	50	3	553	3	DPYS	8	105440278	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10	104995767	105440278	40923744	21	25211											
ENY2	56943	hgsc.bcm.edu;ucsc.edu	37	chr8	110355657	110355657	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacctgacagtgtaaagAaggagctcctacaaagaata	16	8	10	7	0	0	3	0	1	0	2	1	4	1	4	2	2	3	3	2	2	8	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	110355657	A	C	110355657	3	2	481	1	0	0	0	0	1	0	0	0	5146	247	9	5	271	5	ENY2	8	110355657	Missense_Mutation	SNP	A	TCGA-DV-5565-01A-01D-1534-10	4915379	110355657	36008365	22	25212											
C9orf93	0	hgsc.bcm.edu;ucsc.edu	37	chr9	15723685	15723685	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaatgatgttaaggaaaagGcatgtaatgaacttgattct	15	13	10	3	0	1	4	0	4	1	0	1	5	1	5	0	2	1	3	0	2	6	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	15723685	G	A	15723685	3	1	481	1	0	0	0	0	1	0	0	0	2506	1203	42	2	1478	2	C9orf93	9	15723685	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10		15723685	125489746	23	25213											
IFNA6	3443	hgsc.bcm.edu;ucsc.edu	37	chr9	21350656	21350656	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacctcatggaggacagaGatggcttcagccttctggaa	11	9	11	10	0	4	1	3	0	1	1	4	5	4	4	2	4	1	1	2	4	1	2	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	21350656	G	T	21350656	2	4	481	1	0	0	0	0	0	0	0	1	7541	932	33	4		4	IFNA6	9	21350656	Silent	SNP	G	TCGA-DV-5565-01A-01D-1534-10	5626971	21350656	119862775	24	25214											
PRUNE2	158471	hgsc.bcm.edu;ucsc.edu	37	chr9	79324116	79324116	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtctaggttcccaggacctGaactgattcgatttcgagat	9	13	10	9	2	1	3	0	2	1	1	4	6	2	4	2	2	1	1	2	2	2	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	79324116	G	C	79324116	4	2	481	1	0	0	0	0	0	1	0	0	12643	1294	45	4	6240	4	PRUNE2	9	79324116	Nonsense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	57973460	79324116	61889315	25	25215											
COL27A1	85301	hgsc.bcm.edu;ucsc.edu	37	chr9	116931547	116931547	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtccccttgagcgatcTgacaaccaggcctagcccca	9	7	10	15	1	1	2	0	2	1	0	2	4	2	3	6	2	3	0	6	2	2	2	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	116931547	T	A	116931547	3	1	481	1	0	0	0	0	1	0	0	0	3685	1580	55	5	1722	5	COL27A1	9	116931547	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10	37607431	116931547	24281884	26	25216											
PDCL	5082	hgsc.bcm.edu;ucsc.edu	37	chr9	125585437	125585437	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctgctctgtctccaacTgcttgaagcggcgccagtca	6	10	9	16	2	4	1	1	1	3	0	5	1	4	1	3	1	4	2	3	1	2	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	125585437	T	G	125585437	3	3	481	1	0	0	0	0	1	0	0	0	11626	1580	55	5	701	5	PDCL	9	125585437	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10	8653890	125585437	15627994	27	25217											
CDHR5	53841	hgsc.bcm.edu;ucsc.edu	37	chr11	619336	619336	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctcctgttcggaaacttGtatctcaatgactgtggttg	7	14	12	8	1	1	1	1	1	1	0	4	2	2	2	1	3	1	4	1	3	3	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	619336	G	C	619336	3	2	481	1	0	0	0	0	1	0	0	0	3122	1386	48	4	1205	4	CDHR5	11	619336	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10		619336	134387180	28	25218											
QSER1	79832	hgsc.bcm.edu;ucsc.edu	37	chr11	32953537	32953537	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttccaactgctttggcatttGagcgcctgggcagttctgta	6	14	11	10	1	1	1	0	1	1	0	2	1	2	1	2	2	3	5	2	2	2	5	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	32953537	G	C	32953537	3	2	481	1	0	0	0	0	1	0	0	0	12884	1291	45	4	352	4	QSER1	11	32953537	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	32334201	32953537	102052979	29	25219											
NARS2	79731	hgsc.bcm.edu	37	chr11	78277313	78277313	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctctttatatttgatgggGaaatcctgccaataaatgaa	13	14	7	7	0	1	2	0	2	1	0	3	3	2	3	2	2	1	0	2	2	7	5	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	78277313	G	T	78277313	3	4	481	1	0	0	0	0	1	0	0	0	10171	1165	41	4	1099	4	NARS2	11	78277313	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	45323776	78277313	56729203	30	25220											
SLC37A4	2542	hgsc.bcm.edu;ucsc.edu	37	chr11	118899998	118899998	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaaaggagaaggtcttgcGattgaagtaatacaggctgt	14	9	13	5	1	1	2	0	1	1	1	1	5	1	2	0	3	2	2	0	3	5	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	118899998	G	A	118899998	3	1	481	1	0	0	0	0	1	0	0	0	14602	1058	37	1	1310	1	SLC37A4	11	118899998	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	40622685	118899998	16106518	31	25221											
CCDC15	80071	hgsc.bcm.edu;ucsc.edu	37	chr11	124910539	124910539	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgatgtccctgggggtAattcaactcttcgagtcgca	7	12	11	11	2	2	1	1	1	1	0	5	2	3	1	2	2	1	2	2	2	2	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	124910539	A	T	124910539	3	4	481	1	0	0	0	0	1	0	0	0	2784	362	13	5	2846	5	CCDC15	11	124910539	Missense_Mutation	SNP	A	TCGA-DV-5565-01A-01D-1534-10	6010541	124910539	10095977	32	25222											
PABPC3	5042	hgsc.bcm.edu;ucsc.edu	37	chr13	25670499	25670499	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggctcctccaactacGcgtatgtgaacttccagcat	9	9	8	15	3	0	1	0	1	0	0	3	1	3	1	4	1	5	3	4	1	4	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	25670499	G	A	25670499	3	1	481	1	0	0	0	0	1	0	0	0	11365	1087	38	1	165	1	PABPC3	13	25670499	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10		25670499	89499379	33	25223											
PAK6	56924	hgsc.bcm.edu;ucsc.edu	37	chr15	40568170	40568170	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctggagcggatgctggtgCgggacccccaagagagagcc	8	5	16	12	2	0	2	0	0	0	2	1	6	1	5	4	4	4	1	4	4	1	0	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	40568170	C	T	40568170	3	4	481	1	0	0	0	0	1	0	0	0	11404	759	27	1	1951	1	PAK6	15	40568170	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10		40568170	61963222	34	25224											
SNX29	92017	hgsc.bcm.edu;ucsc.edu	37	chr16	12155455	12155455	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggtgctgcacaatgacTccgacatcctcttccctgtc	8	11	8	14	1	1	2	0	2	1	0	5	3	4	2	3	1	2	2	3	1	2	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	12155455	T	C	12155455	3	2	481	1	0	0	0	0	1	0	0	0	14900	1551	54	3	42	3	SNX29	16	12155455	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10		12155455	78199298	35	25225											
ATP2C2	9914	hgsc.bcm.edu;ucsc.edu	37	chr16	84472822	84472822	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccatcgtcgtcatggtgaCgctggtcctgggagtgctgc	4	10	15	12	3	1	1	1	1	0	0	4	2	2	2	2	3	2	2	2	3	0	0	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	84472822	C	T	84472822	3	4	481	1	0	0	0	0	1	0	0	0	1144	536	19	1	1083	1	ATP2C2	16	84472822	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10	72317367	84472822	5881931	36	25226											
OR1G1	8390	hgsc.bcm.edu;ucsc.edu	37	chr17	3030271	3030271	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaccagctcattggtgaagGggtctgtgcaggacagactc	9	9	13	10	0	3	2	2	1	1	1	4	3	3	3	1	4	2	2	1	4	1	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	3030271	G	C	3030271	3	2	481	1	0	0	0	0	1	0	0	0	10957	1232	43	4	370	4	OR1G1	17	3030271	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10		3030271	78164939	37	25227											
UBB	7314	hgsc.bcm.edu	37	chr17	16285911	16285911	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcctgaggggtggctgttaAttcttcagtcatggcattcg	6	13	13	9	2	3	1	2	1	1	0	4	1	3	1	1	4	0	3	1	4	1	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		G	16285911	A	G	16285911	2	3	481	1	0	0	0	0	0	0	0	1	16840	108	4	3		3	UBB	17	16285911	Silent	SNP	A	TCGA-DV-5565-01A-01D-1534-10	13255640	16285911	64909299	38	25228											
ABHD15	116236	hgsc.bcm.edu;ucsc.edu	37	chr17	27889659	27889659	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcccgcctctgcaaggctcCcccacgacgacggcccccaa	7	5	8	21	4	1	0	0	0	1	0	3	2	3	0	6	2	1	2	6	2	2	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	27889659	C	A	27889659	4	1	481	1	0	0	0	0	0	1	0	0	81	632	22	4	83	4	ABHD15	17	27889659	Nonsense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10	11603748	27889659	53305551	39	25229											
ANKRD12	23253	hgsc.bcm.edu	37	chr18	9254693	9254693	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaaagttaaaagaaaattGaaaaatcagaataaaaataa	26	7	6	2	0	1	3	1	1	0	2	1	3	1	3	0	1	0	2	0	1	12	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	9254693	G	A	9254693	2	1	481	1	0	0	0	0	0	0	0	1	640	1281	45	2		2	ANKRD12	18	9254693	Silent	SNP	G	TCGA-DV-5565-01A-01D-1534-10		9254693	68822555	40	25230											
KIAA1632	0	hgsc.bcm.edu;ucsc.edu	37	chr18	43440143	43440143	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggacgccaggctctggcagGctgctgttaaaaggggcagc	8	6	16	11	2	1	0	0	0	1	0	1	1	1	1	1	6	2	6	1	6	2	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	43440143	G	T	43440143	3	4	481	1	0	0	0	0	1	0	0	0	8249	1203	42	4	824	4	KIAA1632	18	43440143	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	34185450	43440143	34637105	41	25231											
RTTN	25914	hgsc.bcm.edu;ucsc.edu	37	chr18	67684795	67684795	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatcatttgttgcccaTcttctccagatgatatattc	10	16	5	10	0	4	3	2	1	2	2	6	3	4	3	2	0	1	1	2	0	3	6	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	67684795	T	A	67684795	3	1	481	1	0	0	0	0	1	0	0	0	13739	1435	50	5	427	5	RTTN	18	67684795	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10	24244652	67684795	10392453	42	25232											
OR1M1	125963	hgsc.bcm.edu;ucsc.edu	37	chr19	9203934	9203934	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacccatggaaccaagaaAccaaaccagtgcatctcaat	17	5	5	14	0	1	1	1	0	1	1	2	2	1	2	4	1	4	1	4	1	5	0	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	9203934	A	T	9203934	3	4	481	1	0	0	0	0	1	0	0	0	10968	43	2	5	16	5	OR1M1	19	9203934	Missense_Mutation	SNP	A	TCGA-DV-5565-01A-01D-1534-10		9203934	49925049	43	25233											
EMR2	30817	hgsc.bcm.edu;ucsc.edu	37	chr19	14854320	14854320	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctgatccctttggacCatttcccatattgctcccgg	6	15	6	14	1	0	1	0	1	0	0	4	2	4	2	5	2	1	1	5	2	1	5	rs141428388		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	14854320	C	A	14854320	3	1	481	1	0	0	0	0	1	0	0	0	5105	595	21	4	104	4	EMR2	19	14854320	Missense_Mutation	SNP	C	TCGA-DV-5565-01A-01D-1534-10	5650386	14854320	44274663	44	25234											
ZNF302	55900	hgsc.bcm.edu	37	chr19	35175650	35175650	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaatgtcgtgaatgtgggaaGacttttagccatggttcatc	10	13	12	6	1	1	2	1	1	0	1	3	4	1	3	1	2	1	1	1	2	4	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	35175650	G	A	35175650	2	1	481	1	0	0	0	0	0	0	0	1	17831	933	33	2		2	ZNF302	19	35175650	Silent	SNP	G	TCGA-DV-5565-01A-01D-1534-10	20321330	35175650	23953333	45	25235											
SIPA1L3	23094	hgsc.bcm.edu;ucsc.edu	37	chr19	38609984	38609984	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagacgctcctcctttcgGcccccccatccccagtggaa	8	7	7	19	2	0	1	0	0	0	1	4	2	3	2	7	2	0	1	7	2	2	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		C	38609984	G	C	38609984	3	2	481	1	0	0	0	0	1	0	0	0	14333	1203	42	4	2356	4	SIPA1L3	19	38609984	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	3434334	38609984	20518999	46	25236											
KIF3B	9371	hgsc.bcm.edu;ucsc.edu	37	chr20	30898460	30898460	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcactcacattccatatcggGactcaaagcttaccaggctc	11	9	7	14	1	2	0	2	0	0	0	5	1	3	1	2	2	2	3	2	2	3	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	30898460	G	T	30898460	3	4	481	1	0	0	0	0	1	0	0	0	8301	1174	41	4	882	4	KIF3B	20	30898460	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10		30898460	32127060	47	25237											
PLCG1	5335	hgsc.bcm.edu;ucsc.edu	37	chr20	39802104	39802104	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatggccgaggcattgtGtgtccttttgtggagattga	9	13	14	5	1	0	3	0	1	0	2	1	5	1	3	2	3	0	1	2	3	2	4	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	39802104	G	A	39802104	2	1	481	1	0	0	0	0	0	0	0	1	12035	1364	48	2		2	PLCG1	20	39802104	Silent	SNP	G	TCGA-DV-5565-01A-01D-1534-10	8903644	39802104	23223416	48	25238											
MYBL2	4605	hgsc.bcm.edu;ucsc.edu	37	chr20	42340179	42340179	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggaggtgctgcgttctgagGctggcatcgaactcatcatc	8	10	13	10	2	3	1	2	1	1	0	5	3	3	2	0	4	3	4	0	4	1	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		T	42340179	G	T	42340179	3	4	481	1	0	0	0	0	1	0	0	0	10010	1203	42	4	1699	4	MYBL2	20	42340179	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	2538075	42340179	20685341	49	25239											
MYT1	4661	hgsc.bcm.edu;ucsc.edu	37	chr20	62839567	62839567	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacccagtcccaagcctgagTactctgttattgtggaggtc	8	11	10	12	0	1	1	0	1	1	0	3	2	2	2	3	2	2	2	3	2	3	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	62839567	T	A	62839567	3	1	481	1	0	0	0	0	1	0	0	0	10106	1638	57	5	1036	5	MYT1	20	62839567	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10	20499388	62839567	185953	50	25240											
UBASH3A	53347	hgsc.bcm.edu;ucsc.edu	37	chr21	43867186	43867186	+	Frame_Shift_Del	DEL	G	G	-																															gatcccttccctgggcatgtGcttctgtgaagaaaataaag																								novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		-	43867186	G	-	43867186	7	5	481	1	0	1	0	1	0	0	0	0	16838	1319	46	0	1926	0	UBASH3A	21	43867186	Frame_Shift_Del	DEL	G	TCGA-DV-5565-01A-01D-1534-10		43867186	4262709	51	25241											
CLTCL1	8218	hgsc.bcm.edu;ucsc.edu	37	chr22	19175147	19175147	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtacagataggccgcaaTgcacctgaactccatcagct	11	9	8	13	1	1	2	1	1	0	1	2	2	2	2	3	1	4	4	3	1	4	3	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	19175147	T	A	19175147	3	1	481	1	0	0	0	0	1	0	0	0	3567	1464	51	5	410	5	CLTCL1	22	19175147	Missense_Mutation	SNP	T	TCGA-DV-5565-01A-01D-1534-10		19175147	32129419	52	25242											
FOXRED2	80020	hgsc.bcm.edu;ucsc.edu	37	chr22	36894108	36894108	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagcctcattcacgcgccGcacgatggagctggtcagct	9	7	12	13	4	3	1	3	0	0	1	3	3	3	2	2	2	3	3	2	2	1	1	novel		TCGA-DV-5565-01A-01D-1534-10	TCGA-DV-5565-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ee24d408-6043-4ca0-8bde-f29e798cc479	aa2bc3bd-65b8-4cc1-b6e5-ece86aa84888		A	36894108	G	A	36894108	3	1	481	1	0	0	0	0	1	0	0	0	6034	1086	38	1	758	1	FOXRED2	22	36894108	Missense_Mutation	SNP	G	TCGA-DV-5565-01A-01D-1534-10	17718961	36894108	14410458	53	25243											
RBM15	64783	hgsc.bcm.edu;ucsc.edu	37	chr1	110888165	110888165	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtctctctcacagggttTggttttcagataggagttag	7	16	11	7	0	4	1	2	0	3	1	6	2	4	2	0	3	0	3	0	3	2	5	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	110888165	T	C	110888165	2	2	482	1	0	0	0	0	0	0	0	1	13118	1809	63	3		3	RBM15	1	110888165	Silent	SNP	T	TCGA-DV-5566-01A-01D-1534-10		110888165	138362456	1	25244											
EMX1	2016	hgsc.bcm.edu;ucsc.edu	37	chr2	73161028	73161028	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcacatcaaccggtggcGcattgccacgaagcaggcca	11	5	10	15	3	2	0	2	0	0	0	2	1	2	0	4	3	3	2	4	3	2	1	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	73161028	G	A	73161028	3	1	482	1	0	0	0	0	1	0	0	0	5107	1087	38	1	828	1	EMX1	2	73161028	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10		73161028	170038345	2	25245											
MYL1	4632	hgsc.bcm.edu;ucsc.edu	37	chr2	211159133	211159133	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttcaaactcaattttcttgGcattcagctctgtaagaaat	12	15	6	8	0	5	1	3	0	2	1	5	1	5	1	0	1	2	4	0	1	4	6	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	211159133	G	A	211159133	3	1	482	1	0	0	0	0	1	0	0	0	10043	1203	42	2	282	2	MYL1	2	211159133	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10	137998105	211159133	32040240	3	25246											
WDR69	164781	hgsc.bcm.edu;ucsc.edu	37	chr2	228758531	228758531	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatcacaggaagctatgAtcggacgtgcaagctctggg	10	10	12	9	2	2	1	1	1	1	0	3	3	2	3	0	3	3	3	0	3	4	3	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	228758531	A	C	228758531	3	2	482	1	0	0	0	0	1	0	0	0	17318	333	12	5	356	5	WDR69	2	228758531	Missense_Mutation	SNP	A	TCGA-DV-5566-01A-01D-1534-10	17599398	228758531	14440842	4	25247											
PBRM1	55193	hgsc.bcm.edu;ucsc.edu	37	chr3	52692298	52692298	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactatggcttcaagaagctGctccaggatctccttcaagt	11	11	8	11	0	3	1	2	0	1	1	5	2	4	2	2	2	3	3	2	2	5	3	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	52692298	G	A	52692298	4	1	482	1	0	0	0	0	0	1	0	0	11491	1328	46	2	4442	2	PBRM1	3	52692298	Nonsense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10		52692298	145330132	5	25248											
IGSF11	152404	hgsc.bcm.edu;ucsc.edu	37	chr3	118621765	118621765	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggaggaaatctcagtgtGaaatgctttggcagaagaac	14	8	13	6	1	1	3	1	1	1	2	2	6	1	5	0	3	2	2	0	3	4	1	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	118621765	G	T	118621765	3	4	482	1	0	0	0	0	1	0	0	0	7598	1290	45	4	401	4	IGSF11	3	118621765	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10	65929467	118621765	79400665	6	25249											
CLK4	57396	hgsc.bcm.edu;ucsc.edu	37	chr5	178045711	178045711	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccttcacagtagtcattcCtgtattcgtcaacgtatctc	9	15	5	12	2	4	0	3	0	1	0	8	0	6	0	2	0	1	3	2	0	4	6	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	178045711	C	T	178045711	3	4	482	1	0	0	0	0	1	0	0	0	3539	681	24	2	1259	2	CLK4	5	178045711	Missense_Mutation	SNP	C	TCGA-DV-5566-01A-01D-1534-10		178045711	2869549	7	25250											
TREML2	79865	hgsc.bcm.edu;ucsc.edu	37	chr6	41162231	41162231	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagagccctgtggtgggCgatctggtgctgaggtcccc	5	8	17	11	1	1	2	0	1	1	1	2	3	2	2	3	5	2	2	3	5	0	0	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	41162231	C	T	41162231	2	4	482	1	0	0	0	0	0	0	0	1	16472	755	27	1		1	TREML2	6	41162231	Silent	SNP	C	TCGA-DV-5566-01A-01D-1534-10		41162231	129952836	8	25251											
ELOVL4	6785	hgsc.bcm.edu;ucsc.edu	37	chr6	80636042	80636043	+	Frame_Shift_Ins	INS	-	-	TC																															aacaggagataaagagtgctINStatacttagtgtaggccaag																								novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		TC	80636043	-	TC	80636042	7	5	482	1	0	1	1	0	0	0	0	0	5076	1609	56	0	807	0	ELOVL4	6	80636042	Frame_Shift_Ins	INS	-	TCGA-DV-5566-01A-01D-1534-10	39473811	80636042	90479025	9	25252											
ANKRD6	22881	hgsc.bcm.edu;ucsc.edu	37	chr6	90340623	90340627	+	Frame_Shift_Del	DEL	ATCAG	ATCAG	-																															agaagcacgaagccaagccaAtcagaaagcccagcaagata																								novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	ATCAG	ATCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		-	90340627	ATCAG	-	90340623	7	5	482	1	0	1	0	1	0	0	0	0	685	101	4	0	2127	0	ANKRD6	6	90340623	Frame_Shift_Del	DEL	ATCAG	TCGA-DV-5566-01A-01D-1534-10	9704581	90340623	80774444	10	25253											
MAN1A1	4121	hgsc.bcm.edu;ucsc.edu	37	chr6	119623209	119623209	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcttcaaattcatgttTcatttccataataaaaagtg	13	17	4	7	0	4	0	3	0	1	0	5	0	5	0	1	0	1	2	1	0	5	7	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		G	119623209	T	G	119623209	3	3	482	1	0	0	0	0	1	0	0	0	9210	1792	62	5	1241	5	MAN1A1	6	119623209	Missense_Mutation	SNP	T	TCGA-DV-5566-01A-01D-1534-10	29282586	119623209	51491858	11	25254											
KIAA1244	57221	hgsc.bcm.edu	37	chr6	138584327	138584327	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgcagagaagccacacggtCccttaccctgacataactaa	13	7	8	13	1	0	2	0	1	0	1	1	3	1	2	3	1	4	1	3	1	4	3	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	138584327	C	T	138584327	2	4	482	1	0	0	0	0	0	0	0	1	8217	842	30	2		2	KIAA1244	6	138584327	Silent	SNP	C	TCGA-DV-5566-01A-01D-1534-10	18961118	138584327	32530740	12	25255											
SYNE1	23345	hgsc.bcm.edu;ucsc.edu	37	chr6	152470618	152470618	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaatgttacatacaggcagGcggatcagtttcttatggta	11	13	10	7	1	3	0	2	0	1	0	3	1	3	1	0	4	2	4	0	4	5	5	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	152470618	G	A	152470618	2	1	482	1	0	0	0	0	0	0	0	1	15444	1190	42	2		2	SYNE1	6	152470618	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10	13886291	152470618	18644449	13	25256											
PLG	5340	hgsc.bcm.edu;ucsc.edu	37	chr6	161139489	161139489	+	Splice_Site	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagaaaacttcccctgcaaGtaagtcccctccggtctcat	10	9	6	16	1	1	1	1	0	1	1	5	1	4	1	6	1	2	2	6	1	4	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	161139489	G	T	161139489	5	4	482	1	0	0	0	0	0	0	1	0	12086	1043	36	4	985	4	PLG	6	161139489	Splice_Site	SNP	G	TCGA-DV-5566-01A-01D-1534-10	8668871	161139489	9975578	14	25257											
CREB3L2	64764	hgsc.bcm.edu;ucsc.edu	37	chr7	137593138	137593138	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccctctgagtcactgccgtGactgctcggaggggtgggcg	4	8	17	12	3	2	2	1	2	1	0	3	3	2	3	2	4	2	1	2	4	0	0	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	137593138	G	A	137593138	3	1	482	1	0	0	0	0	1	0	0	0	3857	1290	45	2	966	2	CREB3L2	7	137593138	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10		137593138	21545525	15	25258											
TM2D2	83877	hgsc.bcm.edu;ucsc.edu	37	chr8	38853913	38853913	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccagcagcaaagccgcctGgccgcacagaagtaagtaac	13	3	10	15	2	0	1	0	0	0	1	0	1	0	1	5	1	4	5	5	1	4	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	38853913	G	A	38853913	4	1	482	1	0	0	0	0	0	1	0	0	15963	1357	47	2	712	2	TM2D2	8	38853913	Nonsense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10		38853913	107510109	16	25259											
C8orf47	203111	hgsc.bcm.edu;ucsc.edu	37	chr8	99101670	99101670	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcagggacagaggccgagtCtctaaaaggaaatgctgaag	15	5	14	7	1	1	2	0	1	1	1	2	5	1	4	1	3	2	2	1	3	4	1	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	99101670	C	T	99101670	3	4	482	1	0	0	0	0	1	0	0	0	2432	913	32	2	431	2	C8orf47	8	99101670	Missense_Mutation	SNP	C	TCGA-DV-5566-01A-01D-1534-10	60247757	99101670	47262352	17	25260											
VPS13A	23230	hgsc.bcm.edu;ucsc.edu	37	chr9	79897064	79897064	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcctctttggatattcatTtacacactgaagcacttctg	9	17	5	10	0	3	1	1	1	2	0	4	2	4	2	1	1	2	1	1	1	3	7	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		G	79897064	T	G	79897064	3	3	482	1	0	0	0	0	1	0	0	0	17188	1838	64	5	3106	5	VPS13A	9	79897064	Missense_Mutation	SNP	T	TCGA-DV-5566-01A-01D-1534-10		79897064	61316367	18	25261											
COL17A1	1308	hgsc.bcm.edu;ucsc.edu	37	chr10	105830254	105830254	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggatggggagtgtgttggaGgaattccgggtggggctcac	6	9	21	5	1	1	0	1	0	0	0	2	4	2	4	1	8	0	2	1	8	1	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	105830254	G	T	105830254	2	4	482	1	0	0	0	0	0	0	0	1	3674	987	35	4		4	COL17A1	10	105830254	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10		105830254	29704493	19	25262											
OR5T2	219464	hgsc.bcm.edu	37	chr11	55999588	55999588	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttttataatttatttTttagtatgaaaatatacttt	13	22	2	4	0	1	1	1	1	0	0	1	1	1	1	1	0	1	1	1	0	9	12	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	55999588	T	C	55999588	2	2	482	1	0	0	0	0	0	0	0	1	11182	1855	64	3		3	OR5T2	11	55999588	Silent	SNP	T	TCGA-DV-5566-01A-01D-1534-10		55999588	79006928	20	25263											
MMP8	4317	hgsc.bcm.edu;ucsc.edu	37	chr11	102593358	102593358	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtgccattcttccttgtaGactgatactggttgcttggt	6	17	10	8	0	1	2	0	1	1	1	2	2	2	2	2	2	3	3	2	2	3	8	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	102593358	G	A	102593358	3	1	482	1	0	0	0	0	1	0	0	0	9668	942	33	2	1290	2	MMP8	11	102593358	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10	46593770	102593358	32413158	21	25264											
SLCO1B3	28234	hgsc.bcm.edu;ucsc.edu	37	chr12	21014049	21014049	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccttatcattcaatggaaCatcacctgagatagtagaaa	17	10	6	8	0	3	2	3	1	0	2	3	4	3	3	2	1	2	1	2	1	7	4	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	21014049	C	T	21014049	3	4	482	1	0	0	0	0	1	0	0	0	14726	478	17	2	472	2	SLCO1B3	12	21014049	Missense_Mutation	SNP	C	TCGA-DV-5566-01A-01D-1534-10		21014049	112837846	22	25265											
GALNT6	11226	hgsc.bcm.edu;ucsc.edu	37	chr12	51758021	51758021	+	Silent	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggactctgcccctctggacGggcttggcgaactcaaaagt	8	9	12	12	2	3	0	1	0	2	0	3	3	3	2	2	4	2	1	2	4	3	1	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	51758021	G	C	51758021	2	2	482	1	0	0	0	0	0	0	0	1	6217	1103	39	4		4	GALNT6	12	51758021	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10	30743972	51758021	82093874	23	25266											
KRT6A	3853	hgsc.bcm.edu	37	chr12	52881649	52881649	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacgccaagaccactgccaTaggagtagctgcttcctcca	11	7	8	15	1	0	1	0	0	0	1	2	2	2	2	5	1	4	3	5	1	4	3	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	52881649	T	C	52881649	3	2	482	1	0	0	0	0	1	0	0	0	8480	1406	49	3	148	3	KRT6A	12	52881649	Missense_Mutation	SNP	T	TCGA-DV-5566-01A-01D-1534-10	1123628	52881649	80970246	24	25267											
SACS	26278	hgsc.bcm.edu;ucsc.edu	37	chr13	23906942	23906942	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggagtacatcacattgcttGaattttggatttacctgtgc	9	16	9	7	0	1	1	1	1	0	0	1	3	1	3	1	2	4	2	1	2	3	7	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	23906942	G	A	23906942	2	1	482	1	0	0	0	0	0	0	0	1	13806	1281	45	2		2	SACS	13	23906942	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10		23906942	91262936	25	25268											
SUGT1	10910	hgsc.bcm.edu;ucsc.edu	37	chr13	53239772	53239772	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcttttttttttttaatagGtatgactggtatcaaacaga	11	20	6	4	0	2	2	1	1	1	1	2	2	2	2	0	2	1	2	0	2	5	10	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	53239772	G	A	53239772	2	1	482	1	0	0	0	0	0	0	0	1	15370	1275	44	2		2	SUGT1	13	53239772	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10	29332830	53239772	61930106	26	25269											
PSMA6	5687	hgsc.bcm.edu;ucsc.edu	37	chr14	35777217	35777217	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaatatgcttttaaggctAttaaccagggtggccttaca	12	12	9	8	0	0	1	0	0	0	1	0	1	0	1	2	3	3	2	2	3	6	6	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	35777217	A	C	35777217	3	2	482	1	0	0	0	0	1	0	0	0	12673	449	16	5	100	5	PSMA6	14	35777217	Missense_Mutation	SNP	A	TCGA-DV-5566-01A-01D-1534-10		35777217	71572323	27	25270											
PSKH1	5681	hgsc.bcm.edu;ucsc.edu	37	chr16	67942857	67942857	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccggtcccccgactgctGgccacacggagcctccctca	5	5	10	21	3	1	0	1	0	0	0	3	2	3	1	7	3	2	1	7	3	0	0	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	67942857	G	A	67942857	3	1	482	1	0	0	0	0	1	0	0	0	12666	1348	47	2	207	2	PSKH1	16	67942857	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10		67942857	22411896	28	25271											
TNFRSF13B	23495	hgsc.bcm.edu;ucsc.edu	37	chr17	16852092	16852092	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgtgctccaatccttggtaCcttcccgagttgtctgaatt	6	15	8	12	1	1	1	0	1	1	0	4	2	4	1	4	1	2	3	4	1	3	5	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		G	16852092	C	G	16852092	3	3	482	1	0	0	0	0	1	0	0	0	16286	506	18	4	488	4	TNFRSF13B	17	16852092	Missense_Mutation	SNP	C	TCGA-DV-5566-01A-01D-1534-10		16852092	64343118	29	25272											
IKZF3	22806	hgsc.bcm.edu;ucsc.edu	37	chr17	37948930	37948930	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagcagactatttaccagtAtggcttcgcttatgaaccat	13	12	7	9	1	0	2	0	1	0	1	1	2	0	2	2	1	3	4	2	1	6	6	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	37948930	A	T	37948930	3	4	482	1	0	0	0	0	1	0	0	0	7616	446	16	5	1129	5	IKZF3	17	37948930	Missense_Mutation	SNP	A	TCGA-DV-5566-01A-01D-1534-10	21096838	37948930	43246280	30	25273											
KRT12	3859	hgsc.bcm.edu;ucsc.edu	37	chr17	39021185	39021185	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattgatgtcggcctctacgCcctggcgcagggccagttca	6	9	12	14	3	2	1	1	1	1	0	3	1	2	1	3	3	1	2	3	3	1	3	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	39021185	C	A	39021185	3	1	482	1	0	0	0	0	1	0	0	0	8449	739	26	4	828	4	KRT12	17	39021185	Missense_Mutation	SNP	C	TCGA-DV-5566-01A-01D-1534-10	1072255	39021185	42174025	31	25274											
CD300LF	146722	hgsc.bcm.edu;ucsc.edu	37	chr17	72700848	72700848	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcctcgacaccaccactTcaagtaggtctcccagcctg	9	8	7	17	1	2	0	1	0	1	0	5	1	3	0	5	1	2	2	5	1	2	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	72700848	T	A	72700848	4	1	482	1	0	0	0	0	0	1	0	0	3001	1792	62	5	745	5	CD300LF	17	72700848	Nonsense_Mutation	SNP	T	TCGA-DV-5566-01A-01D-1534-10	33679663	72700848	8494362	32	25275											
QTRT1	81890	hgsc.bcm.edu	37	chr19	10818183	10818183	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctgttgcaggtcaatcCgctggctggaccggtgcatt	5	10	14	12	2	1	0	1	0	0	0	2	1	2	1	3	5	2	5	3	5	1	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	10818183	C	T	10818183	3	4	482	1	0	0	0	0	1	0	0	0	12887	652	23	1	556	1	QTRT1	19	10818183	Missense_Mutation	SNP	C	TCGA-DV-5566-01A-01D-1534-10		10818183	48310800	33	25276											
ZNF540	163255	hgsc.bcm.edu;ucsc.edu	37	chr19	38103228	38103228	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccgtcatcagaaaattcaTactggtgtaaaaccctacga	15	9	6	11	2	3	1	3	0	0	1	3	2	3	1	2	1	3	1	2	1	6	4	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	38103228	T	C	38103228	2	2	482	1	0	0	0	0	0	0	0	1	17974	1403	49	3		3	ZNF540	19	38103228	Silent	SNP	T	TCGA-DV-5566-01A-01D-1534-10	27285045	38103228	21025755	34	25277											
ZNF606	80095	hgsc.bcm.edu;ucsc.edu	37	chr19	58490014	58490014	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactgattacatttatagggTttctcaccagtgtgaattct	10	16	7	8	0	2	2	1	2	2	0	3	2	2	2	1	1	1	1	1	1	4	6	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	58490014	T	A	58490014	3	1	482	1	0	0	0	0	1	0	0	0	18031	1722	60	5	348	5	ZNF606	19	58490014	Missense_Mutation	SNP	T	TCGA-DV-5566-01A-01D-1534-10	20386786	58490014	638969	35	25278											
DSN1	79980	hgsc.bcm.edu;ucsc.edu	37	chr20	35381212	35381212	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgacaagatccagatccAgatccatgtatggcaggtgg	12	8	11	10	0	0	4	0	1	0	3	3	4	3	4	3	3	0	2	3	3	2	1	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		T	35381212	A	T	35381212	2	4	482	1	0	0	0	0	0	0	0	1	4780	175	7	5		5	DSN1	20	35381212	Silent	SNP	A	TCGA-DV-5566-01A-01D-1534-10		35381212	27644308	36	25279											
ACO2	50	hgsc.bcm.edu;ucsc.edu	37	chr22	41914522	41914522	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgaattcaaggatcacttGgtgcctgaccctggctgcca	9	10	11	11	0	2	2	2	2	0	0	2	4	2	3	3	3	2	1	3	3	2	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	41914522	G	A	41914522	2	1	482	1	0	0	0	0	0	0	0	1	147	1339	47	2		2	ACO2	22	41914522	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10		41914522	9390044	37	25280											
MAP3K15	389840	hgsc.bcm.edu;ucsc.edu	37	chrX	19398361	19398361	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatatccgcgaggcccttgGtcaattatctcaggtgccat	8	11	9	13	2	2	0	2	0	1	0	4	1	3	0	4	3	1	0	4	3	3	3	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		C	19398361	G	C	19398361	3	2	482	1	0	0	0	0	1	0	0	0	9249	1252	44	4	1519	4	MAP3K15	23	19398361	Missense_Mutation	SNP	G	TCGA-DV-5566-01A-01D-1534-10		19398361	135872199	38	25281											
PNCK	139728	hgsc.bcm.edu;ucsc.edu	37	chrX	152936428	152936428	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttctgggggtctcgctccaGaaggtgccggatgaagtctt	6	11	14	10	2	3	2	0	1	3	1	5	3	4	3	2	4	1	1	2	4	2	2	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	152936428	G	A	152936428	2	1	482	1	0	0	0	0	0	0	0	1	12145	933	33	2		2	PNCK	23	152936428	Silent	SNP	G	TCGA-DV-5566-01A-01D-1534-10	133538067	152936428	2334132	39	25282											
FLNA	2316	hgsc.bcm.edu;ucsc.edu	37	chrX	153583340	153583340	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacctctgagccatcaggCgtgcacacggtgcacgtcac	8	7	10	16	3	3	1	2	1	1	0	4	1	4	1	3	2	3	2	3	2	0	0	novel		TCGA-DV-5566-01A-01D-1534-10	TCGA-DV-5566-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	39a321cd-dbdf-474b-aead-6e69795470e0	cef01d29-8954-400d-b504-33ce7cc529ab		A	153583340	C	A	153583340	2	1	482	1	0	0	0	0	0	0	0	1	5933	755	27	4		4	FLNA	23	153583340	Silent	SNP	C	TCGA-DV-5566-01A-01D-1534-10	646912	153583340	1687220	40	25283											
MIA3	375056	hgsc.bcm.edu;ucsc.edu	37	chr1	222802075	222802075	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcacagcaataacctcAactctatgccagctgctgaa	12	10	6	13	0	3	1	2	1	1	0	3	1	3	1	2	0	6	4	2	0	5	3	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		T	222802075	A	T	222802075	3	4	483	1	0	0	0	0	1	0	0	0	9565	130	5	5	1527	5	MIA3	1	222802075	Missense_Mutation	SNP	A	TCGA-DV-5568-01A-01D-1534-10		222802075	26448546	1	25284											
SLCO4C1	353189	hgsc.bcm.edu;ucsc.edu	37	chr5	101575087	101575087	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatataattggtccaggaaTtgtccctaaaagaattatgg	16	12	8	5	0	0	1	0	0	0	1	2	2	2	2	2	3	0	0	2	3	8	6	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		C	101575087	T	C	101575087	3	2	483	1	0	0	0	0	1	0	0	0	14732	1493	52	3	300	3	SLCO4C1	5	101575087	Missense_Mutation	SNP	T	TCGA-DV-5568-01A-01D-1534-10		101575087	79340173	2	25285											
SRRT	51593	hgsc.bcm.edu;ucsc.edu	37	chr7	100479850	100479850	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatttcttcctggcgcacaAagatgaggagtggtgagtgc	9	10	15	7	1	1	3	0	2	1	1	2	5	2	5	1	4	1	1	1	4	1	2	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		C	100479850	A	C	100479850	3	2	483	1	0	0	0	0	1	0	0	0	15173	14	1	5	589	5	SRRT	7	100479850	Missense_Mutation	SNP	A	TCGA-DV-5568-01A-01D-1534-10		100479850	58658813	3	25286											
ZFHX4	79776	hgsc.bcm.edu;ucsc.edu	37	chr8	77762484	77762484	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctttggtttccaaaggtgCctgtccctgatgtgatgatg	6	14	11	10	0	0	3	0	3	0	0	2	3	2	3	4	2	1	1	4	2	1	2	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		G	77762484	C	G	77762484	3	3	483	1	0	0	0	0	1	0	0	0	17634	739	26	4	3880	4	ZFHX4	8	77762484	Missense_Mutation	SNP	C	TCGA-DV-5568-01A-01D-1534-10		77762484	68601538	4	25287											
PTEN	5728	hgsc.bcm.edu;ucsc.edu	37	chr10	89711910	89711910	+	Nonsense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcagaggcgctatgtgtaTtattatagctacctgttaaa	12	14	9	6	1	1	1	1	0	0	1	1	1	1	1	1	1	2	4	1	1	8	7	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		G	89711910	T	G	89711910	4	3	483	1	0	0	0	0	0	1	0	0	12740	1500	52	5	550	5	PTEN	10	89711910	Nonsense_Mutation	SNP	T	TCGA-DV-5568-01A-01D-1534-10		89711910	45822837	5	25288											
STARD13	90627	hgsc.bcm.edu;ucsc.edu	37	chr13	33716508	33716508	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgttcaacgtatttagtCgtctaaaaggaaagaaaaat	17	12	7	5	2	2	1	1	0	1	1	3	2	2	2	0	1	1	2	0	1	8	6	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		A	33716508	C	A	33716508	3	1	483	1	0	0	0	0	1	0	0	0	15257	884	31	4	3059	4	STARD13	13	33716508	Missense_Mutation	SNP	C	TCGA-DV-5568-01A-01D-1534-10		33716508	81453370	6	25289											
OR4M1	441670	hgsc.bcm.edu	37	chr14	20249071	20249071	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacaccttcccagaggagtTagtgatgatctgtagtagtg	11	11	11	8	0	1	3	0	2	1	1	2	4	2	4	2	1	1	3	2	1	4	4	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		C	20249071	T	C	20249071	3	2	483	1	0	0	0	0	1	0	0	0	11075	1764	61	3	592	3	OR4M1	14	20249071	Missense_Mutation	SNP	T	TCGA-DV-5568-01A-01D-1534-10		20249071	87100469	7	25290											
ARHGAP5	394	hgsc.bcm.edu;ucsc.edu	37	chr14	32562855	32562855	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccacctccttatagtccaAttggggatgatgtacagttg	10	12	9	10	0	0	1	0	1	0	0	2	2	2	2	4	2	1	2	4	2	4	5	rs141239257	alternate_allele	TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		T	32562855	A	T	32562855	3	4	483	1	0	0	0	0	1	0	0	0	886	101	4	5	2982	5	ARHGAP5	14	32562855	Missense_Mutation	SNP	A	TCGA-DV-5568-01A-01D-1534-10	12313784	32562855	74786685	8	25291											
PLEKHG3	26030	hgsc.bcm.edu;ucsc.edu	37	chr14	65207861	65207861	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctccagaagtcctggaGacacagcttgatgcccacca	12	7	9	13	0	1	3	0	1	1	2	3	5	2	3	4	1	2	1	4	1	2	1	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		T	65207861	G	T	65207861	3	4	483	1	0	0	0	0	1	0	0	0	12070	933	33	4	1508	4	PLEKHG3	14	65207861	Missense_Mutation	SNP	G	TCGA-DV-5568-01A-01D-1534-10	32645006	65207861	42141679	9	25292											
CHRNB4	1143	hgsc.bcm.edu;ucsc.edu	37	chr15	78922278	78922278	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tagacagacacctcataggtCccgtcggcgctgggcagggt	8	7	14	12	3	1	2	1	0	0	2	3	2	2	2	2	4	0	2	2	4	2	2	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		T	78922278	C	T	78922278	2	4	483	1	0	0	0	0	0	0	0	1	3393	842	30	2		2	CHRNB4	15	78922278	Silent	SNP	C	TCGA-DV-5568-01A-01D-1534-10		78922278	23609114	10	25293											
RHOT2	89941	hgsc.bcm.edu;ucsc.edu	37	chr16	720318	720318	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggaggccgtgctcccCatcatgagccagtttcccga	7	9	10	15	2	1	1	1	1	0	0	4	3	4	2	6	2	2	2	6	2	0	1	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		T	720318	C	T	720318	2	4	483	1	0	0	0	0	0	0	0	1	13346	581	21	2		2	RHOT2	16	720318	Silent	SNP	C	TCGA-DV-5568-01A-01D-1534-10		720318	89634435	11	25294											
DSG2	1829	hgsc.bcm.edu;ucsc.edu	37	chr18	29101062	29101062	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatttatgtcatgatttcagCtaacaggttacgctttggat	10	17	8	6	1	2	1	2	1	0	0	2	2	2	2	0	2	3	3	0	2	4	7	novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		G	29101062	C	G	29101062	3	3	483	1	0	0	0	0	1	0	0	0	4777	811	28	4	397	4	DSG2	18	29101062	Missense_Mutation	SNP	C	TCGA-DV-5568-01A-01D-1534-10		29101062	48976186	12	25295											
AIFM1	9131	hgsc.bcm.edu	37	chrX	129270128	129270129	+	Frame_Shift_Ins	INS	-	-	C																															actcaacattgggctccaggINScccacagctgccactatgtg																								novel		TCGA-DV-5568-01A-01D-1534-10	TCGA-DV-5568-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	ecb100d4-24da-40d9-aee1-2901cf3a655a	e16d4001-e9a2-4872-9226-d48dee1c1349		C	129270129	-	C	129270128	7	5	483	1	0	1	1	0	0	0	0	0	426	1190	42	0	664	0	AIFM1	23	129270128	Frame_Shift_Ins	INS	-	TCGA-DV-5568-01A-01D-1534-10		129270128	26000432	13	25296											
GJA5	2702	hgsc.bcm.edu;ucsc.edu	37	chr1	147231205	147231205	+	Nonsense_Mutation	SNP	C	C	A																															acaccggaaatcagcctgctCatccccccaggaagactcag																								novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	147231205	C	A	147231205	4	1	484	1	0	0	0	0	0	1	0	0	6404	835	29	4	938	4	GJA5	1	147231205	Nonsense_Mutation	SNP	C	TCGA-DV-5569-01A-01D-1534-10		147231205	102019416	1	25297	362	2									
GJA5	2702	hgsc.bcm.edu;ucsc.edu	37	chr1	147231208	147231208	+	Missense_Mutation	SNP	C	C	T																															ccggaaatcagcctgctcatCcccccaggaagactcagcag																								novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		T	147231208	C	T	147231208	3	4	484	1	0	0	0	0	1	0	0	0	6404	855	30	2	941	2	GJA5	1	147231208	Missense_Mutation	SNP	C	TCGA-DV-5569-01A-01D-1534-10	3	147231208	102019413	2	25298	362	2									
SNRNP200	23020	hgsc.bcm.edu;ucsc.edu	37	chr2	96945256	96945256	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaaagggcggttggcgtggCccaccatctgaagcacgtca	9	6	14	12	3	2	1	1	1	1	0	2	1	2	1	2	4	1	3	2	4	2	1	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		T	96945256	C	T	96945256	3	4	484	1	0	0	0	0	1	0	0	0	14854	739	26	2	1384	2	SNRNP200	2	96945256	Missense_Mutation	SNP	C	TCGA-DV-5569-01A-01D-1534-10		96945256	146254117	3	25299											
ANKRD36	375248	hgsc.bcm.edu	37	chr2	97817617	97817617	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgtgtttttcttctagaTtatttcaaaactatacatcc	11	20	3	7	0	3	1	1	0	2	1	4	1	4	1	1	0	2	1	1	0	7	10	rs77391458	bycluster;byfrequency	TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		C	97817617	T	C	97817617	3	2	484	1	0	0	0	0	1	0	0	0	665	1507	52	3	1153	3	ANKRD36	2	97817617	Missense_Mutation	SNP	T	TCGA-DV-5569-01A-01D-1534-10	872361	97817617	145381756	4	25300											
CCDC71	64925	hgsc.bcm.edu;ucsc.edu	37	chr3	49200640	49200641	+	In_Frame_Ins	INS	-	-	TTGGCC																															tggcccatgctgccatgactINSttggccttggccttgacctg																								novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		TTGGCC	49200641	-	TTGGCC	49200640	7	5	484	1	0	1	1	0	0	0	0	0	2844	1606	56	0	405	0	CCDC71	3	49200640	In_Frame_Ins	INS	-	TCGA-DV-5569-01A-01D-1534-10		49200640	148821790	5	25301											
CAMK2D	817	hgsc.bcm.edu;ucsc.edu	37	chr4	114378599	114378599	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgcattgtctttggcattCcactgccatccatgtactgt	7	15	7	12	0	1	0	0	0	1	0	3	0	3	0	3	1	3	3	3	1	1	4	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	114378599	C	A	114378599	3	1	484	1	0	0	0	0	1	0	0	0	2601	855	30	4	194	4	CAMK2D	4	114378599	Missense_Mutation	SNP	C	TCGA-DV-5569-01A-01D-1534-10		114378599	76775677	6	25302											
HNRNPH1	3187	hgsc.bcm.edu;ucsc.edu	37	chr5	179043167	179043167	+	Silent	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccaccgtagccgcctccGtaacccccactcagctgctg	6	7	9	19	3	1	0	1	0	0	0	2	0	2	0	7	1	4	4	7	1	2	2	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	179043167	G	A	179043167	2	1	484	1	0	0	0	0	0	0	0	1	7266	1140	40	1		1	HNRNPH1	5	179043167	Silent	SNP	G	TCGA-DV-5569-01A-01D-1534-10		179043167	1872093	7	25303											
BTNL3	10917	hgsc.bcm.edu;ucsc.edu	37	chr5	180431709	180431709	+	Intron	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcccacgtgagcacggaaCtgcctgctctctctgcttgc	5	12	9	15	2	2	1	0	1	2	0	4	2	3	2	2	1	6	3	2	1	1	2	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		G	180431709	C	G	180431709	1	3	484	0	1	0	0	0	0	0	0	0	1566	580	20	4		4	BTNL3	5	180431709	Intron	SNP	C	TCGA-DV-5569-01A-01D-1534-10	1388542	180431709	483551	8	25304											
SMPD2	6610	hgsc.bcm.edu;ucsc.edu	37	chr6	109763241	109763241	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggagcttacccagcacAtctacactctcaatggctac	11	9	6	15	0	2	0	1	0	2	0	4	1	3	1	2	2	5	3	2	2	4	3	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		G	109763241	A	G	109763241	3	3	484	1	0	0	0	0	1	0	0	0	14807	217	8	3	303	3	SMPD2	6	109763241	Missense_Mutation	SNP	A	TCGA-DV-5569-01A-01D-1534-10		109763241	61351826	9	25305											
TAX1BP1	8887	hgsc.bcm.edu;ucsc.edu	37	chr7	27788296	27788296	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccaaaagattgggttggTatattcaaggtaagaaagct	15	11	10	5	0	1	2	1	0	0	2	2	2	2	2	1	3	1	4	1	3	7	6	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		G	27788296	T	G	27788296	2	3	484	1	0	0	0	0	0	0	0	1	15593	1625	57	5		5	TAX1BP1	7	27788296	Silent	SNP	T	TCGA-DV-5569-01A-01D-1534-10		27788296	131350367	10	25306											
RGS22	26166	hgsc.bcm.edu	37	chr8	101076166	101076180	+	In_Frame_Del	DEL	TCTTCTTCTTCTCCT	TCTTCTTCTTCTCCT	-																															cttgtagagatacagacaccTcttcttcttctccttcttct																								novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	TCTTCTTCTTCTCCT	TCTTCTTCTTCTCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		-	101076180	TCTTCTTCTTCTCCT	-	101076166	7	5	484	1	0	1	0	1	0	0	0	0	13307	1551	54	0	3044	0	RGS22	8	101076166	In_Frame_Del	DEL	TCTTCTTCTTCTCCT	TCGA-DV-5569-01A-01D-1534-10		101076166	45287856	11	25307											
MYOF	26509	hgsc.bcm.edu;ucsc.edu	37	chr10	95139669	95139669	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgcatccaggcgatgaCtaatatcctcccagtatgaa	12	9	7	13	2	1	2	1	2	0	0	4	3	4	2	4	1	0	2	4	1	4	3	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		T	95139669	C	T	95139669	3	4	484	1	0	0	0	0	1	0	0	0	10089	565	20	2	4369	2	MYOF	10	95139669	Missense_Mutation	SNP	C	TCGA-DV-5569-01A-01D-1534-10		95139669	40395078	12	25308											
MUC5B	727897	hgsc.bcm.edu	37	chr11	1272694	1272694	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgtgatggtgcccaccGgttccacggccaccgcctcc	5	6	10	20	4	0	1	0	1	0	0	2	1	2	1	9	3	1	1	9	3	0	1	rs191989562	by1000genomes	TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	1272694	G	A	1272694	3	1	484	1	0	0	0	0	1	0	0	0	9979	1116	39	1	14715	1	MUC5B	11	1272694	Missense_Mutation	SNP	G	TCGA-DV-5569-01A-01D-1534-10		1272694	133733822	13	25309											
SLC22A25	387601	hgsc.bcm.edu;ucsc.edu	37	chr11	62985134	62985134	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcagtatacgaggatggtggGagcaaaggccgcacaggtgc	11	5	17	8	2	0	0	0	0	0	0	0	3	0	2	1	5	3	4	1	5	3	2	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	62985134	G	A	62985134	3	1	484	1	0	0	0	0	1	0	0	0	14456	1174	41	2	1091	2	SLC22A25	11	62985134	Missense_Mutation	SNP	G	TCGA-DV-5569-01A-01D-1534-10	61712440	62985134	72021382	14	25310											
DYNC2H1	79659	hgsc.bcm.edu;ucsc.edu	37	chr11	103229004	103229004	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggattttgggcagatccAtaacagctggttccaaattt	11	13	10	7	0	0	2	0	1	0	1	2	3	2	3	2	3	2	3	2	3	2	5	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		G	103229004	A	G	103229004	3	3	484	1	0	0	0	0	1	0	0	0	4846	217	8	3	12428	3	DYNC2H1	11	103229004	Missense_Mutation	SNP	A	TCGA-DV-5569-01A-01D-1534-10	40243870	103229004	31777512	15	25311											
DHRS4L2	317749	hgsc.bcm.edu	37	chr14	24470690	24470691	+	Frame_Shift_Ins	INS	-	-	A																															aacattagggtgaactgcctINSgcacctggacttatcaagac																								novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	24470691	-	A	24470690	7	5	484	1	0	1	1	0	0	0	0	0	4494	1580	55	0	651	0	DHRS4L2	14	24470690	Frame_Shift_Ins	INS	-	TCGA-DV-5569-01A-01D-1534-10		24470690	82878850	16	25312											
C14orf49	0	hgsc.bcm.edu;ucsc.edu	37	chr14	95932291	95932291	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccttggccttcactgcatCgtactcagccttcattctct	5	14	7	15	1	4	0	3	0	1	0	6	0	4	0	3	2	3	2	3	2	1	5	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		T	95932291	C	T	95932291	3	4	484	1	0	0	0	0	1	0	0	0	1776	884	31	1	2383	1	C14orf49	14	95932291	Missense_Mutation	SNP	C	TCGA-DV-5569-01A-01D-1534-10	71461601	95932291	11417249	17	25313											
NCOR1	9611	hgsc.bcm.edu	37	chr17	15974762	15974762	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attatcggccgtgtgctctgGaccacttctggagttttccg	5	14	11	11	3	2	0	0	0	2	0	4	2	3	2	3	3	1	2	3	3	1	4	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		A	15974762	G	A	15974762	2	1	484	1	0	0	0	0	0	0	0	1	10235	1161	41	2		2	NCOR1	17	15974762	Silent	SNP	G	TCGA-DV-5569-01A-01D-1534-10		15974762	65220448	18	25314											
ATAD5	79915	hgsc.bcm.edu;ucsc.edu	37	chr17	29161956	29161961	+	In_Frame_Del	DEL	CAATGT	CAATGT	-																															ggaagagataccagactctaCaatgtcaatttgtgttcctt																								rs72427574	bycluster;by1000genomes	TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	CAATGT	CAATGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		-	29161961	CAATGT	-	29161956	7	5	484	1	0	1	0	1	0	0	0	0	1076	478	17	0	863	0	ATAD5	17	29161956	In_Frame_Del	DEL	CAATGT	TCGA-DV-5569-01A-01D-1534-10	13187194	29161956	52033254	19	25315											
TTLL6	284076	hgsc.bcm.edu;ucsc.edu	37	chr17	46882287	46882303	+	Frame_Shift_Del	DEL	CTTTCCAAAGTCGGGCA	CTTTCCAAAGTCGGGCA	-																															cggagttttccccttcctggCtttccaaagtcgggcactgt																								novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	CTTTCCAAAGTCGGGCA	CTTTCCAAAGTCGGGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		-	46882303	CTTTCCAAAGTCGGGCA	-	46882287	7	5	484	1	0	1	0	1	0	0	0	0	16730	797	28	0	2642	0	TTLL6	17	46882287	Frame_Shift_Del	DEL	CTTTCCAAAGTCGGGCA	TCGA-DV-5569-01A-01D-1534-10	17720331	46882287	34312923	20	25316											
MUC16	94025	hgsc.bcm.edu	37	chr19	9018158	9018158	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggtcagtctgcagccagAgtacagaaggccaacactgg	13	5	12	11	0	2	2	1	0	1	2	2	2	2	2	2	3	4	2	2	3	4	1	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		T	9018158	A	T	9018158	3	4	484	1	0	0	0	0	1	0	0	0	9973	304	11	5	5983	5	MUC16	19	9018158	Missense_Mutation	SNP	A	TCGA-DV-5569-01A-01D-1534-10		9018158	50110825	21	25317											
BGN	633	hgsc.bcm.edu;ucsc.edu	37	chrX	152773750	152773750	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaccaaagtgggtgtcaaCgacttctgtcccatgggctt	9	11	10	11	1	3	0	2	0	1	0	4	1	4	0	2	2	1	1	2	2	2	2	novel		TCGA-DV-5569-01A-01D-1534-10	TCGA-DV-5569-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	efb1fd3e-9e43-426c-a5d2-3d58edb3dc49	5d5cc5e6-23a7-4fd8-9a5d-76dc79fbe327		T	152773750	C	T	152773750	2	4	484	1	0	0	0	0	0	0	0	1	1418	535	19	1		1	BGN	23	152773750	Silent	SNP	C	TCGA-DV-5569-01A-01D-1534-10		152773750	2496810	22	25318											
DEM1	0	hgsc.bcm.edu	37	chr1	40981245	40981246	+	Frame_Shift_Ins	INS	-	-	G																															tggaggaggcttggaagtgcINScggacgtgtacctatgcaga																								novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		G	40981246	-	G	40981245	7	5	485	1	0	1	1	0	0	0	0	0	4425	747	26	0	1031	0	DEM1	1	40981245	Frame_Shift_Ins	INS	-	TCGA-DV-5574-01A-01D-1534-10		40981245	208269376	1	25319											
RFX5	5993	hgsc.bcm.edu	37	chr1	151317012	151317012	+	Silent	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaagactctcacagtacttCctgagtgagaggggagcaga	12	7	13	9	0	1	4	1	2	1	3	3	6	2	5	1	2	2	3	1	2	2	2	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	151317012	C	A	151317012	2	1	485	1	0	0	0	0	0	0	0	1	13268	869	30	4		4	RFX5	1	151317012	Silent	SNP	C	TCGA-DV-5574-01A-01D-1534-10	110335767	151317012	97933609	2	25320											
PLEKHA3	65977	hgsc.bcm.edu;ucsc.edu	37	chr2	179368497	179368497	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcataggacctgttcaCtgttcaaaaaatacacttaa	14	13	5	9	0	4	0	3	0	1	0	4	1	4	1	1	1	1	2	1	1	6	6	rs139167699		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		T	179368497	C	T	179368497	2	4	485	1	0	0	0	0	0	0	0	1	12057	564	20	2		2	PLEKHA3	2	179368497	Silent	SNP	C	TCGA-DV-5574-01A-01D-1534-10		179368497	63830876	3	25321											
CUL3	8452	hgsc.bcm.edu	37	chr2	225422498	225422498	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactaagaccactgttatTcttacgctggatttcttgaa	13	14	6	8	1	2	2	0	1	2	1	2	3	2	3	1	1	2	2	1	1	6	6	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	225422498	T	A	225422498	3	1	485	1	0	0	0	0	1	0	0	0	4056	1783	62	5	2224	5	CUL3	2	225422498	Missense_Mutation	SNP	T	TCGA-DV-5574-01A-01D-1534-10	46054001	225422498	17776875	4	25322											
WDR69	164781	hgsc.bcm.edu	37	chr2	228754594	228754594	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgtcagtgcgttagtaGaagaaatccagaaggcagaa	15	8	12	6	1	1	5	1	1	0	4	2	5	2	5	1	1	1	3	1	1	6	2	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		T	228754594	G	T	228754594	4	4	485	1	0	0	0	0	0	1	0	0	17318	943	33	4	146	4	WDR69	2	228754594	Nonsense_Mutation	SNP	G	TCGA-DV-5574-01A-01D-1534-10	3332096	228754594	14444779	5	25323											
CNTN6	27255	hgsc.bcm.edu;ucsc.edu	37	chr3	1269542	1269542	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acattgattttactatgagtTatcactacaggttggatgga	12	15	9	5	0	1	2	1	2	0	0	1	4	1	4	0	3	2	2	0	3	4	7	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		C	1269542	T	C	1269542	3	2	485	1	0	0	0	0	1	0	0	0	3645	1754	61	3	233	3	CNTN6	3	1269542	Missense_Mutation	SNP	T	TCGA-DV-5574-01A-01D-1534-10		1269542	196752888	6	25324											
LMOD3	56203	hgsc.bcm.edu;ucsc.edu	37	chr3	69169051	69169056	+	In_Frame_Del	DEL	TCTTCT	TCTTCT	-																															cttcgtcgtcatcatcatcaTcttcttcttcttcatcttct																								novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	TCTTCT	TCTTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		-	69169056	TCTTCT	-	69169051	7	5	485	1	0	1	0	1	0	0	0	0	8858	1435	50	0	1235	0	LMOD3	3	69169051	In_Frame_Del	DEL	TCTTCT	TCGA-DV-5574-01A-01D-1534-10	67899509	69169051	128853379	7	25325											
MUC4	4585	hgsc.bcm.edu	37	chr3	195513772	195513772	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtgtgacctgtggatactGaggaagcgtcggtgacagga	9	9	17	6	2	0	3	0	3	0	0	1	6	0	6	1	5	2	0	1	5	2	1	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	195513772	G	A	195513772	3	1	485	1	0	0	0	0	1	0	0	0	9978	1294	45	2		2	MUC4	3	195513772	Missense_Mutation	SNP	G	TCGA-DV-5574-01A-01D-1534-10	126344721	195513772	2508658	8	25326											
KIF4B	285643	hgsc.bcm.edu	37	chr5	154393562	154393562	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtggttggtactgataaatCcttcacctacgattttgtgt	8	16	10	7	1	1	1	1	1	0	0	2	2	2	1	2	3	2	2	2	3	4	7	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		T	154393562	C	T	154393562	3	4	485	1	0	0	0	0	1	0	0	0	8304	855	30	2	145	2	KIF4B	5	154393562	Missense_Mutation	SNP	C	TCGA-DV-5574-01A-01D-1534-10		154393562	26521698	9	25327											
CCM2	83605	hgsc.bcm.edu;ucsc.edu	37	chr7	45067353	45067353	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaatctctccaaagaaaTtcctcaaacagaatttcaca	17	9	3	12	0	3	3	2	0	1	3	6	3	5	3	3	0	1	0	3	0	5	2	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		G	45067353	T	G	45067353	3	3	485	1	0	0	0	0	1	0	0	0	2908	1493	52	5	86	5	CCM2	7	45067353	Missense_Mutation	SNP	T	TCGA-DV-5574-01A-01D-1534-10		45067353	114071310	10	25328											
SBDS	51119	hgsc.bcm.edu;ucsc.edu	37	chr7	66453385	66453385	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttctcatctccttcttcTacatctttcagattgagtac	9	18	3	11	0	6	2	2	1	5	1	8	2	6	2	1	0	2	1	1	0	3	7	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		C	66453385	T	C	66453385	2	2	485	1	0	0	0	0	0	0	0	1	13859	1509	53	3		3	SBDS	7	66453385	Silent	SNP	T	TCGA-DV-5574-01A-01D-1534-10	21386032	66453385	92685278	11	25329											
UBR5	51366	hgsc.bcm.edu	37	chr8	103274282	103274282	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacaggatcaaaaaaagcaAaatcatgccaattgacctaa	20	8	5	8	0	2	1	2	1	0	0	2	2	2	2	2	1	3	1	2	1	8	3	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		T	103274282	A	T	103274282	3	4	485	1	0	0	0	0	1	0	0	0	16904	14	1	5	716	5	UBR5	8	103274282	Missense_Mutation	SNP	A	TCGA-DV-5574-01A-01D-1534-10		103274282	43089740	12	25330											
NOXA1	10811	hgsc.bcm.edu;ucsc.edu	37	chr9	140320783	140320783	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccaacttccagctggcaagGtgagtacaggggtgccttgt	8	9	14	10	0	0	1	0	1	0	0	1	1	1	1	3	4	4	3	3	4	3	3	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	140320783	G	A	140320783	5	1	485	1	0	0	0	0	0	0	1	0	10560	1275	44	2	267	2	NOXA1	9	140320783	Splice_Site	SNP	G	TCGA-DV-5574-01A-01D-1534-10		140320783	892648	13	25331											
SLC16A9	220963	hgsc.bcm.edu	37	chr10	61412636	61412653	+	In_Frame_Del	DEL	CCTCCCAGCAGGACGCAG	CCTCCCAGCAGGACGCAG	-																															ctgccagcagcagaataaaaCctcccagcaggacgcagaag																								novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	CCTCCCAGCAGGACGCAG	CCTCCCAGCAGGACGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		-	61412653	CCTCCCAGCAGGACGCAG	-	61412636	7	5	485	1	0	1	0	1	0	0	0	0	14417	507	18	0	109	0	SLC16A9	10	61412636	In_Frame_Del	DEL	CCTCCCAGCAGGACGCAG	TCGA-DV-5574-01A-01D-1534-10		61412636	74122111	14	25332											
SBF2	81846	hgsc.bcm.edu	37	chr11	9875241	9875241	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgtatcatagctctcAgctacacttcctgcaatact	9	14	4	14	0	3	0	2	0	2	0	6	0	4	0	1	0	5	4	1	0	5	5	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		C	9875241	A	C	9875241	2	2	485	1	0	0	0	0	0	0	0	1	13861	175	7	5		5	SBF2	11	9875241	Silent	SNP	A	TCGA-DV-5574-01A-01D-1534-10		9875241	125131275	15	25333											
AVIL	10677	hgsc.bcm.edu	37	chr12	58207097	58207097	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggctgcctcccaggtagTcgtccagctgtgtggtatat	6	11	13	11	1	0	0	0	0	0	0	3	0	2	0	3	3	2	4	3	3	3	3	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	58207097	T	A	58207097	3	1	485	1	0	0	0	0	1	0	0	0	1227	1667	58	5	2276	5	AVIL	12	58207097	Missense_Mutation	SNP	T	TCGA-DV-5574-01A-01D-1534-10		58207097	75644798	16	25334											
TSPAN8	7103	hgsc.bcm.edu	37	chr12	71526584	71526584	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccccaatcagcagctccattGaccaaaccgcagcatttaaa	14	7	5	15	1	1	1	1	1	0	0	2	1	2	1	5	0	4	4	5	0	4	3	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	71526584	G	A	71526584	2	1	485	1	0	0	0	0	0	0	0	1	16652	1277	45	2		2	TSPAN8	12	71526584	Silent	SNP	G	TCGA-DV-5574-01A-01D-1534-10	13319487	71526584	62325311	17	25335											
PABPC3	5042	hgsc.bcm.edu	37	chr13	25671206	25671206	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaagataggatcaccagAtaccaggttgttaatcttta	15	11	8	7	0	2	2	1	0	1	2	2	3	2	3	2	2	2	3	2	2	6	6	rs76614854		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		G	25671206	A	G	25671206	2	3	485	1	0	0	0	0	0	0	0	1	11365	330	12	3		3	PABPC3	13	25671206	Silent	SNP	A	TCGA-DV-5574-01A-01D-1534-10		25671206	89498672	18	25336											
PABPC3	5042	hgsc.bcm.edu	37	chr13	25671742	25671742	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttcttcacaggttccacGagtcatgtcaacgcagcgtg	9	10	10	12	3	4	0	3	0	1	0	5	1	5	0	1	1	3	3	1	1	1	3	rs140135080	byfrequency	TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	25671742	G	A	25671742	3	1	485	1	0	0	0	0	1	0	0	0	11365	1058	37	1	1408	1	PABPC3	13	25671742	Missense_Mutation	SNP	G	TCGA-DV-5574-01A-01D-1534-10	536	25671742	89498136	19	25337											
DICER1	23405	hgsc.bcm.edu	37	chr14	95597894	95597894	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcttttgtccaagatgcAtttacttctaggtttgagta	8	18	7	8	0	2	2	0	1	2	1	4	2	3	2	1	1	2	3	1	1	4	8	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		T	95597894	A	T	95597894	3	4	485	1	0	0	0	0	1	0	0	0	4521	214	8	5	5474	5	DICER1	14	95597894	Missense_Mutation	SNP	A	TCGA-DV-5574-01A-01D-1534-10		95597894	11751646	20	25338											
PALB2	79728	hgsc.bcm.edu	37	chr16	23647298	23647298	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttatttcagttactggtGatctagcaggatttttgcta	8	19	8	6	0	3	1	1	1	2	0	3	2	3	2	0	2	3	3	0	2	4	8	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	23647298	G	A	23647298	3	1	485	1	0	0	0	0	1	0	0	0	11406	1294	45	2	3031	2	PALB2	16	23647298	Missense_Mutation	SNP	G	TCGA-DV-5574-01A-01D-1534-10		23647298	66707455	21	25339											
BPIL3	0	hgsc.bcm.edu;ucsc.edu	37	chr20	31627270	31627270	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccacagcaccctggagAtgttcgcagctcggtggcgg	7	7	13	14	3	0	1	0	0	0	1	3	2	1	1	3	4	2	4	3	4	0	1	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		C	31627270	A	C	31627270	3	2	485	1	0	0	0	0	1	0	0	0	1493	333	12	5	1056	5	BPIL3	20	31627270	Missense_Mutation	SNP	A	TCGA-DV-5574-01A-01D-1534-10		31627270	31398250	22	25340											
PIWIL3	440822	hgsc.bcm.edu;ucsc.edu	37	chr22	25155858	25155869	+	In_Frame_Del	DEL	TGCTCCTCCTCT	TGCTCCTCCTCT	-																															tgagactgtgctcctcctccTgctcctcctcttgctgctct																								novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	TGCTCCTCCTCT	TGCTCCTCCTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		-	25155869	TGCTCCTCCTCT	-	25155858	7	5	485	1	0	1	0	1	0	0	0	0	11959	1567	55	0	2523	0	PIWIL3	22	25155858	In_Frame_Del	DEL	TGCTCCTCCTCT	TCGA-DV-5574-01A-01D-1534-10		25155858	26148708	23	25341											
SYN3	8224	hgsc.bcm.edu;ucsc.edu	37	chr22	32934079	32934079	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgttggccttccagttcCcagagatggaggttctcctg	5	13	12	11	0	1	1	0	0	1	1	4	3	3	2	4	3	0	3	4	3	0	4	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	32934079	C	A	32934079	3	1	485	1	0	0	0	0	1	0	0	0	15441	623	22	4	831	4	SYN3	22	32934079	Missense_Mutation	SNP	C	TCGA-DV-5574-01A-01D-1534-10	7778221	32934079	18370487	24	25342											
RPGR	6103	hgsc.bcm.edu;ucsc.edu	37	chrX	38144799	38144799	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttaaggtttgttacttCaattccaagtaatgtggtaa	13	16	7	5	0	1	0	1	0	0	0	2	0	2	0	1	2	1	4	1	2	6	8	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	38144799	C	A	38144799	3	1	485	1	0	0	0	0	1	0	0	0	13550	825	29	4	568	4	RPGR	23	38144799	Missense_Mutation	SNP	C	TCGA-DV-5574-01A-01D-1534-10		38144799	117125761	25	25343											
SLC25A5	292	hgsc.bcm.edu;ucsc.edu	37	chrX	118603864	118603864	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctactttgcagggaatctgGcatcgggtggtgccgcaggg	6	10	16	9	2	2	0	0	0	2	0	3	1	2	1	1	5	3	3	1	5	2	2	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	118603864	G	A	118603864	3	1	485	1	0	0	0	0	1	0	0	0	14514	1203	42	2	358	2	SLC25A5	23	118603864	Missense_Mutation	SNP	G	TCGA-DV-5574-01A-01D-1534-10	80459065	118603864	36666696	26	25344											
MAGEC1	9947	hgsc.bcm.edu	37	chrX	140995291	140995291	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcctcagagtcctcttgagGgagaggactccctgtcttct	6	13	10	12	0	4	3	1	1	3	2	7	5	7	4	3	2	0	0	3	2	0	3	novel		TCGA-DV-5574-01A-01D-1534-10	TCGA-DV-5574-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	84a62ab5-e442-4358-9d24-572cdf7eb44e	d20fbb8f-5cd8-4dba-9d7e-8840569b2809		A	140995291	G	A	140995291	3	1	485	1	0	0	0	0	1	0	0	0	9180	1233	43	2	2107	2	MAGEC1	23	140995291	Missense_Mutation	SNP	G	TCGA-DV-5574-01A-01D-1534-10	22391427	140995291	14275269	27	25345											
RNPC3	55599	hgsc.bcm.edu;ucsc.edu	37	chr1	104070330	104070330	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttcagaaacatacagcttTtgccacattccctaatgaaa	14	12	5	10	0	1	2	1	1	0	1	2	2	2	2	2	0	4	2	2	0	4	6	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		C	104070330	T	C	104070330	3	2	486	1	0	0	0	0	1	0	0	0	13510	1841	64	3	212	3	RNPC3	1	104070330	Missense_Mutation	SNP	T	TCGA-DV-5575-01A-01D-1534-10		104070330	145180291	1	25346											
HMCN1	83872	hgsc.bcm.edu;ucsc.edu	37	chr1	185939611	185939611	+	Frame_Shift_Del	DEL	C	C	-																															aagagcaactggcaagataaCtctggatgttggctgtaagc																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		-	185939611	C	-	185939611	7	5	486	1	0	1	0	1	0	0	0	0	7220	565	20	0	2415	0	HMCN1	1	185939611	Frame_Shift_Del	DEL	C	TCGA-DV-5575-01A-01D-1534-10	81869281	185939611	63311010	2	25347											
IGFN1	91156	hgsc.bcm.edu	37	chr1	201180222	201180222	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatggggtcagtgaatgaGgcaggttataggaaggattt	13	10	16	2	0	1	2	1	2	0	0	1	5	1	4	0	6	0	2	0	6	5	3	rs28465285		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	201180222	G	A	201180222	2	1	486	1	0	0	0	0	0	0	0	1	7590	991	35	2		2	IGFN1	1	201180222	Silent	SNP	G	TCGA-DV-5575-01A-01D-1534-10	15240611	201180222	48070399	3	25348			1	40		2	2	22	N	G_A	2.442087e-05
IGFN1	91156	hgsc.bcm.edu	37	chr1	201180243	201180243	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggttataggaaggatttAggggctcctaagggaatggg	11	9	17	4	0	0	0	0	0	0	0	1	3	1	3	1	7	0	3	1	7	6	5	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	201180243	A	G	201180243	2	3	486	1	0	0	0	0	0	0	0	1	7590	417	15	3		3	IGFN1	1	201180243	Silent	SNP	A	TCGA-DV-5575-01A-01D-1534-10	21	201180243	48070378	4	25349			1	40		2	2	22	N	G_A	2.442087e-05
OR2T4	127074	hgsc.bcm.edu	37	chr1	248525308	248525308	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtgacactagcaggttcAgaatttttccttctagccac	10	13	7	11	1	2	2	1	1	1	1	3	2	3	2	2	1	3	2	2	1	4	7	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	248525308	A	G	248525308	2	3	486	1	0	0	0	0	0	0	0	1	11027	175	7	3		3	OR2T4	1	248525308	Silent	SNP	A	TCGA-DV-5575-01A-01D-1534-10	47345065	248525308	725313	5	25350											
ASAP2	8853	hgsc.bcm.edu	37	chr2	9543400	9543400	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agattggccacattgatggaGatcctggtcgcaaaggcgca	11	8	13	9	2	0	3	0	1	0	2	2	4	1	3	2	4	0	2	2	4	1	2	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		C	9543400	G	C	9543400	3	2	486	1	0	0	0	0	1	0	0	0	1011	942	33	4	3075	4	ASAP2	2	9543400	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10		9543400	233655973	6	25351											
REV1	51455	hgsc.bcm.edu;ucsc.edu	37	chr2	100019183	100019183	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagctagattgggtgcTggaggtctcacacagccagc	8	8	13	12	0	1	1	1	0	1	1	3	2	2	2	2	3	4	3	2	3	1	2	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	100019183	T	G	100019183	2	3	486	1	0	0	0	0	0	0	0	1	13241	1567	55	5		5	REV1	2	100019183	Silent	SNP	T	TCGA-DV-5575-01A-01D-1534-10	90475783	100019183	143180190	7	25352											
SAG	6295	hgsc.bcm.edu	37	chr2	234240287	234240287	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccgtcttccccttgcagtGgaacaggtggccaatgtggt	6	11	12	12	1	1	0	0	0	1	0	3	1	3	1	4	4	2	1	4	4	2	2	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	234240287	G	A	234240287	2	1	486	1	0	0	0	0	0	0	0	1	13810	1362	47	2		2	SAG	2	234240287	Silent	SNP	G	TCGA-DV-5575-01A-01D-1534-10	134221104	234240287	8959086	8	25353											
IMPG2	50939	hgsc.bcm.edu;ucsc.edu	37	chr3	101023037	101023037	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agattcactaaaatttgtgcCcatttcaaatatacttgtga	14	15	5	7	0	2	2	2	1	0	1	2	2	2	2	1	0	2	0	1	0	5	7	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	101023037	C	T	101023037	3	4	486	1	0	0	0	0	1	0	0	0	7729	623	22	2	3339	2	IMPG2	3	101023037	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10		101023037	96999393	9	25354											
TEC	100124696	hgsc.bcm.edu;ucsc.edu	37	chr4	48139497	48139497	+	Missense_Mutation	SNP	G	G	T																															tgcgcagcagatcttcgaaaGaaggccttccctctggtttc																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	48139497	G	T	48139497	3	4	486	1	0	0	0	0	1	0	0	0	15741	942	33	4	67	4	TEC	4	48139497	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10		48139497	143014779	10	25355	363	2									
TEC	100124696	hgsc.bcm.edu;ucsc.edu	37	chr4	48139499	48139499	+	Silent	SNP	A	A	G																															cgcagcagatcttcgaaagaAggccttccctctggtttcta																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	48139499	A	G	48139499	2	3	486	1	0	0	0	0	0	0	0	1	15741	59	3	3		3	TEC	4	48139499	Silent	SNP	A	TCGA-DV-5575-01A-01D-1534-10	2	48139499	143014777	11	25356	363	2									
IBSP	3381	hgsc.bcm.edu;ucsc.edu	37	chr4	88732929	88732929	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cgccaatgaatacgacaatgGatatgaaatctatgaaagtg	17	9	9	6	2	1	3	0	3	1	0	1	5	1	4	1	1	1	0	1	1	8	3	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		C	88732929	G	C	88732929	3	2	486	1	0	0	0	0	1	0	0	0	7475	1174	41	4	843	4	IBSP	4	88732929	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10	40593430	88732929	102421347	12	25357											
TFR2	7036	hgsc.bcm.edu;ucsc.edu	37	chr7	100218519	100218519	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccagacatccccgctaagCgcattggctgccccttgcag	7	9	9	16	2	0	1	0	0	0	1	2	1	2	1	5	1	3	4	5	1	1	4	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	100218519	C	G	100218519	2	3	486	1	0	0	0	0	0	0	0	1	15810	755	27	4		4	TFR2	7	100218519	Silent	SNP	C	TCGA-DV-5575-01A-01D-1534-10		100218519	58920144	13	25358											
RIMS2	9699	hgsc.bcm.edu;ucsc.edu	37	chr8	105025708	105025708	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tagacagccatatcacagatCcagatcaacagaacaacggc	17	5	7	12	1	2	4	2	0	0	4	3	4	3	4	2	1	4	0	2	1	5	2	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	105025708	C	T	105025708	3	4	486	1	0	0	0	0	1	0	0	0	13370	855	30	2	3349	2	RIMS2	8	105025708	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10		105025708	41338314	14	25359											
TATDN1	83940	hgsc.bcm.edu;ucsc.edu	37	chr8	125527986	125527986	+	Splice_Site	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagccaacaaatttccttaCttgagttgagtatctttggg	12	14	8	7	0	1	2	0	2	1	0	2	2	2	2	2	1	3	2	2	1	5	6	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	125527986	C	T	125527986	5	4	486	1	0	0	0	0	0	0	1	0	15590	579	20	2	531	2	TATDN1	8	125527986	Splice_Site	SNP	C	TCGA-DV-5575-01A-01D-1534-10	20502278	125527986	20836036	15	25360											
GPR172A	0	hgsc.bcm.edu	37	chr8	145584534	145584535	+	Frame_Shift_Ins	INS	-	-	G																															ccagctccctgctgcatggcINSgggggccggccggcattgct																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	145584535	-	G	145584534	7	5	486	1	0	1	1	0	0	0	0	0	6669	755	27	0	1211	0	GPR172A	8	145584534	Frame_Shift_Ins	INS	-	TCGA-DV-5575-01A-01D-1534-10	20056548	145584534	779488	16	25361											
KIAA0020	9933	hgsc.bcm.edu;ucsc.edu	37	chr9	2807851	2807851	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcgatttacactagcccAggacttcaggttcttcatac	10	12	6	13	1	3	0	2	0	1	0	4	2	3	1	2	2	3	1	2	2	3	7	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	2807851	A	T	2807851	3	4	486	1	0	0	0	0	1	0	0	0	8152	188	7	5	177	5	KIAA0020	9	2807851	Missense_Mutation	SNP	A	TCGA-DV-5575-01A-01D-1534-10		2807851	138405580	17	25362											
POLR1E	64425	hgsc.bcm.edu;ucsc.edu	37	chr9	37495950	37495950	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agctttcaggaacgtcacgtCagaagaaatactgaagatga	16	8	10	7	2	3	5	3	2	0	3	3	6	3	6	0	1	3	1	0	1	5	2	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	37495950	C	T	37495950	3	4	486	1	0	0	0	0	1	0	0	0	12213	838	29	2	749	2	POLR1E	9	37495950	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10	34688099	37495950	103717481	18	25363											
OR1L4	254973	hgsc.bcm.edu	37	chr9	125486717	125486717	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcatgctattgggttcttGcagcatctcccacctacatt	8	14	6	13	0	3	0	1	0	2	0	4	0	3	0	2	1	4	4	2	1	2	6	rs76170289		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	125486717	G	A	125486717	3	1	486	1	0	0	0	0	1	0	0	0	10965	1319	46	2	451	2	OR1L4	9	125486717	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10	87990767	125486717	15726714	19	25364											
USP6NL	9712	hgsc.bcm.edu;ucsc.edu	37	chr10	11504703	11504703	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcgtctcaggtctgtatgTataactaacttctgaccatg	9	14	8	10	1	3	1	1	1	3	0	4	1	3	1	1	1	3	2	1	1	4	5	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		C	11504703	T	C	11504703	3	2	486	1	0	0	0	0	1	0	0	0	17086	1638	57	3	266	3	USP6NL	10	11504703	Missense_Mutation	SNP	T	TCGA-DV-5575-01A-01D-1534-10		11504703	124030044	20	25365											
OR52J3	119679	hgsc.bcm.edu	37	chr11	5068656	5068656	+	Nonsense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgaggaccaaacagattCgagaacgagtgctctatgtt	12	9	13	7	2	1	3	0	1	1	2	2	6	1	4	1	2	3	2	1	2	3	3	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	5068656	C	T	5068656	4	4	486	1	0	0	0	0	0	1	0	0	11122	876	31	1	903	1	OR52J3	11	5068656	Nonsense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10		5068656	129937860	21	25366											
HARBI1	283254	hgsc.bcm.edu;ucsc.edu	37	chr11	46625224	46625224	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatccatcccatgctccagGgagatgttgtggaggacaca	11	8	11	11	0	0	1	0	0	0	1	3	4	3	3	3	3	1	2	3	3	0	1	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	46625224	G	A	46625224	2	1	486	1	0	0	0	0	0	0	0	1	6958	1219	43	2		2	HARBI1	11	46625224	Silent	SNP	G	TCGA-DV-5575-01A-01D-1534-10	41556568	46625224	88381292	22	25367											
USP2	9099	hgsc.bcm.edu;ucsc.edu	37	chr11	119229755	119229755	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgatcgaggttctcaGggttggacttaggtctcagt	9	12	14	6	1	2	2	2	1	2	1	5	5	2	3	0	4	0	2	0	4	2	3	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	119229755	G	T	119229755	3	4	486	1	0	0	0	0	1	0	0	0	17050	1000	35	4	698	4	USP2	11	119229755	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10	72604531	119229755	15776761	23	25368											
VSIG10	54621	hgsc.bcm.edu;ucsc.edu	37	chr12	118511660	118511677	+	In_Frame_Del	DEL	TGATCACCTCGGGCTGGG	TGATCACCTCGGGCTGGG	-																															atggcggctgctaggctggaTgatcacctcgggctgggtaa																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	TGATCACCTCGGGCTGGG	TGATCACCTCGGGCTGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		-	118511677	TGATCACCTCGGGCTGGG	-	118511660	7	5	486	1	0	1	0	1	0	0	0	0	17222	1464	51	0	579	0	VSIG10	12	118511660	In_Frame_Del	DEL	TGATCACCTCGGGCTGGG	TCGA-DV-5575-01A-01D-1534-10		118511660	15340235	24	25369											
GPC6	10082	hgsc.bcm.edu;ucsc.edu	37	chr13	95034756	95034756	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggacgagagcgtgacagCgggcacgtccaacgaggagg	12	2	17	10	5	0	2	0	1	0	1	1	6	1	4	1	4	3	1	1	4	2	0	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	95034756	C	G	95034756	3	3	486	1	0	0	0	0	1	0	0	0	6602	768	27	4	1267	4	GPC6	13	95034756	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10		95034756	20135122	25	25370											
DLGAP5	9787	hgsc.bcm.edu;ucsc.edu	37	chr14	55625420	55625420	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcaattcttccagcatcatCctgttttggtttacttgcta	7	18	6	10	0	2	0	1	0	1	0	4	0	4	0	2	1	4	5	2	1	3	8	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	55625420	C	A	55625420	3	1	486	1	0	0	0	0	1	0	0	0	4563	855	30	4	966	4	DLGAP5	14	55625420	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10		55625420	51724120	26	25371											
PRKCH	5583	hgsc.bcm.edu;ucsc.edu	37	chr14	62014499	62014499	+	Frame_Shift_Del	DEL	G	G	-																															accatgcgcttgggcagcctGactcagggaggcgagcacgc																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		-	62014499	G	-	62014499	7	5	486	1	0	1	0	1	0	0	0	0	12515	1277	45	0	1850	0	PRKCH	14	62014499	Frame_Shift_Del	DEL	G	TCGA-DV-5575-01A-01D-1534-10	6389079	62014499	45335041	27	25372											
TMEM85	0	hgsc.bcm.edu;ucsc.edu	37	chr15	34520009	34520009	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatgatggtgtgtatgatggCctggcgacccattcaggcac	8	11	13	9	1	1	2	1	2	0	0	1	3	1	2	2	4	0	2	2	4	2	3	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	34520009	C	T	34520009	3	4	486	1	0	0	0	0	1	0	0	0	16206	739	26	2	327	2	TMEM85	15	34520009	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10		34520009	68011383	28	25373											
IQGAP1	8826	hgsc.bcm.edu;ucsc.edu	37	chr15	91021009	91021009	+	Missense_Mutation	SNP	G	G	T																															atgccctgagacagatcttgGccccagtcgtgaaggaaatt																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		T	91021009	G	T	91021009	3	4	486	1	0	0	0	0	1	0	0	0	7814	1203	42	4	3319	4	IQGAP1	15	91021009	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10	56501000	91021009	11510383	29	25374	364	2									
IQGAP1	8826	hgsc.bcm.edu;ucsc.edu	37	chr15	91021010	91021010	+	Missense_Mutation	SNP	C	C	A																															tgccctgagacagatcttggCcccagtcgtgaaggaaatta																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	91021010	C	A	91021010	3	1	486	1	0	0	0	0	1	0	0	0	7814	739	26	4	3320	4	IQGAP1	15	91021010	Missense_Mutation	SNP	C	TCGA-DV-5575-01A-01D-1534-10	1	91021010	11510382	30	25375	364	2									
RAB11FIP3	9727	hgsc.bcm.edu;ucsc.edu	37	chr16	546818	546826	+	Frame_Shift_Del	DEL	GCACAGTCC	GCACAGTCC	-																															tcctgtttattttgttttctGcacagtccgacaaagcggct																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	GCACAGTCC	GCACAGTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		-	546826	GCACAGTCC	-	546818	7	5	486	1	0	1	0	1	0	0	0	0	12897	1334	46	0		0	RAB11FIP3	16	546818	Frame_Shift_Del	DEL	GCACAGTCC	TCGA-DV-5575-01A-01D-1534-10		546818	89807935	31	25376											
KCTD19	146212	hgsc.bcm.edu;ucsc.edu	37	chr16	67327544	67327545	+	In_Frame_Ins	INS	-	-	GCTCCA																															gctctggccccttgtctttcINSgctccagctccagcccctgc																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		GCTCCA	67327545	-	GCTCCA	67327544	7	5	486	1	0	1	1	0	0	0	0	0	8106	871	31	0	679	0	KCTD19	16	67327544	In_Frame_Ins	INS	-	TCGA-DV-5575-01A-01D-1534-10	66780726	67327544	23027209	32	25377											
RAI1	10743	hgsc.bcm.edu	37	chr17	17700038	17700040	+	In_Frame_Del	DEL	AGG	AGG	-																															tggcaatgggggagatgggaAggaggagaggcctgagggtt																								rs149716029	by1000genomes	TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		-	17700040	AGG	-	17700038	7	5	486	1	0	1	0	1	0	0	0	0	13009	72	3	0	3778	0	RAI1	17	17700038	In_Frame_Del	DEL	AGG	TCGA-DV-5575-01A-01D-1534-10		17700038	63495172	33	25378											
PPAP2C	8612	hgsc.bcm.edu;ucsc.edu	37	chr19	282291	282291	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgcccacttccaacagAgtcgtgcctgcacatacagc	9	7	9	16	2	0	1	0	0	0	1	2	1	1	1	4	0	6	1	4	0	2	2	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	282291	A	G	282291	3	3	486	1	0	0	0	0	1	0	0	0	12292	304	11	3	314	3	PPAP2C	19	282291	Missense_Mutation	SNP	A	TCGA-DV-5575-01A-01D-1534-10		282291	58846692	34	25379											
EMR2	30817	hgsc.bcm.edu;ucsc.edu	37	chr19	14877799	14877799	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcctctacctgtgcagaGcttcgggtcctcaggtttga	5	11	14	11	1	2	2	1	1	1	1	4	2	3	2	3	4	3	3	3	4	1	3	rs74182236		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		C	14877799	G	C	14877799	3	2	486	1	0	0	0	0	1	0	0	0	5105	971	34	4	2057	4	EMR2	19	14877799	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10	14595508	14877799	44251184	35	25380											
ZNF831	128611	hgsc.bcm.edu	37	chr20	57769147	57769147	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaggggcacagttgggggggGacaagggggacaggatggcc	10	3	22	6	0	0	0	0	0	0	0	0	3	0	3	1	10	0	2	1	10	2	1	novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		A	57769147	G	A	57769147	3	1	486	1	0	0	0	0	1	0	0	0	18184	1174	41	2	3075	2	ZNF831	20	57769147	Missense_Mutation	SNP	G	TCGA-DV-5575-01A-01D-1534-10		57769147	5256373	36	25381											
TCEAL6	158931	hgsc.bcm.edu	37	chrX	101395780	101395781	+	Frame_Shift_Ins	INS	-	-	G																															tgacaccccgttgtccccttINSgggcgaatggatcctgtaca																								novel		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		G	101395781	-	G	101395780	7	5	486	1	0	1	1	0	0	0	0	0	15674	1812	63	0	31	0	TCEAL6	23	101395780	Frame_Shift_Ins	INS	-	TCGA-DV-5575-01A-01D-1534-10		101395780	53874780	37	25382											
GPR50	9248	hgsc.bcm.edu;ucsc.edu	37	chrX	150349558	150349569	+	In_Frame_Del	DEL	CACCACTGGCCA	CACCACTGGCCA	-																															gccaccagccaccctaaaccCaccactggccacatcaagcc																								rs68058591		TCGA-DV-5575-01A-01D-1534-10	TCGA-DV-5575-10A-01D-1535-10	CACCACTGGCCA	CACCACTGGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	eb2d0a1a-b684-484a-86a4-bd40c8ac7ce8	bf9f5144-b35f-493d-b2b0-e4ebbe29fe88		-	150349569	CACCACTGGCCA	-	150349558	7	5	486	1	0	1	0	1	0	0	0	0	6697	581	21	0	1509	0	GPR50	23	150349558	In_Frame_Del	DEL	CACCACTGGCCA	TCGA-DV-5575-01A-01D-1534-10	48953778	150349558	4921002	38	25383											
ICMT	23463	hgsc.bcm.edu;ucsc.edu	37	chr1	6295024	6295024	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaccccaggaaacaagctCggatggctatctgaaaggaa	16	5	10	10	1	1	1	0	1	1	0	2	4	1	4	2	4	3	2	2	4	6	1	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	6295024	C	T	6295024	3	4	487	1	0	0	0	0	1	0	0	0	7485	884	31	1	664	1	ICMT	1	6295024	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10		6295024	242955597	1	25384											
NTRK1	4914	hgsc.bcm.edu;ucsc.edu	37	chr1	156845424	156845424	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgggctccaaggccaCatcatcgagaacccacaata	12	6	9	14	1	2	1	1	0	1	1	4	2	3	1	3	3	1	2	3	3	4	1	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	156845424	C	A	156845424	3	1	487	1	0	0	0	0	1	0	0	0	10706	477	17	4	1643	4	NTRK1	1	156845424	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10	150550400	156845424	92405197	2	25385											
CACNA1E	777	hgsc.bcm.edu;ucsc.edu	37	chr1	181705481	181705481	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagaggatgaggaggaggtGgagaagaagaagcagaagaa	19	2	19	1	0	0	7	0	1	0	6	0	12	0	10	0	5	1	1	0	5	5	0	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	181705481	G	A	181705481	2	1	487	1	0	0	0	0	0	0	0	1	2542	1335	47	2		2	CACNA1E	1	181705481	Silent	SNP	G	TCGA-DV-5576-01A-01D-1534-10	24860057	181705481	67545140	3	25386											
CDCA7	83879	hgsc.bcm.edu;ucsc.edu	37	chr2	174224187	174224187	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacgatgaatcattttgcGgtttctcagagagtgagata	11	13	11	6	2	2	4	2	3	1	2	3	7	2	4	0	1	1	1	0	1	2	4	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	174224187	G	A	174224187	3	1	487	1	0	0	0	0	1	0	0	0	3090	1116	39	1	362	1	CDCA7	2	174224187	Missense_Mutation	SNP	G	TCGA-DV-5576-01A-01D-1534-10		174224187	68975186	4	25387											
TTN	7273	hgsc.bcm.edu;ucsc.edu	37	chr2	179422465	179422465	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgcggaattggtattcttCtcctgtggtcagtttcatga	7	16	11	7	1	4	1	2	1	2	0	5	3	4	2	1	3	1	2	1	3	2	5	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	179422465	C	T	179422465	3	4	487	1	0	0	0	0	1	0	0	0	16734	922	32	2	20503	2	TTN	2	179422465	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10	5198278	179422465	63776908	5	25388											
BARD1	580	hgsc.bcm.edu;ucsc.edu	37	chr2	215645503	215645523	+	In_Frame_Del	DEL	TGGTGAAGAACATTCAGGCAA	TGGTGAAGAACATTCAGGCAA	-																															actttacgtttgcatgaaggTggtgaagaacattcaggcaa																								rs28997575	bycluster;byfrequency;by1000genomes	TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	TGGTGAAGAACATTCAGGCAA	TGGTGAAGAACATTCAGGCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		-	215645523	TGGTGAAGAACATTCAGGCAA	-	215645503	7	5	487	1	0	1	0	1	0	0	0	0	1312	1683	59	0	1270	0	BARD1	2	215645503	In_Frame_Del	DEL	TGGTGAAGAACATTCAGGCAA	TCGA-DV-5576-01A-01D-1534-10	36223038	215645503	27553870	6	25389											
LNP1	348801	hgsc.bcm.edu	37	chr3	100170598	100170598	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaattccatcatctgactgCcatcctagaaggcattctca	12	11	6	12	0	3	3	2	1	2	2	6	3	5	3	3	1	1	1	3	1	3	3	rs78633312		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	100170598	C	T	100170598	2	4	487	1	0	0	0	0	0	0	0	1	8863	747	26	2		2	LNP1	3	100170598	Silent	SNP	C	TCGA-DV-5576-01A-01D-1534-10		100170598	97851832	7	25390											
HHLA2	11148	hgsc.bcm.edu	37	chr3	108081191	108081195	+	Frame_Shift_Del	DEL	CCGAG	CCGAG	-																															tctcctttttttttttagaaCcgagccaagaaacagcttcc																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	CCGAG	CCGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		-	108081195	CCGAG	-	108081191	7	5	487	1	0	1	0	1	0	0	0	0	7095	507	18	0	1024	0	HHLA2	3	108081191	Frame_Shift_Del	DEL	CCGAG	TCGA-DV-5576-01A-01D-1534-10	7910593	108081191	89941239	8	25391											
HIST1H2BM	8342	hgsc.bcm.edu;ucsc.edu	37	chr6	27782814	27782832	+	Frame_Shift_Del	DEL	TTTCCACCATGCCTGAACC	TTTCCACCATGCCTGAACC	-																															aaggttgtcttttattttgtTttccaccatgcctgaaccag																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	TTTCCACCATGCCTGAACC	TTTCCACCATGCCTGAACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		-	27782832	TTTCCACCATGCCTGAACC	-	27782814	7	5	487	1	0	1	0	1	0	0	0	0	7152	1856	64	0		0	HIST1H2BM	6	27782814	Frame_Shift_Del	DEL	TTTCCACCATGCCTGAACC	TCGA-DV-5576-01A-01D-1534-10		27782814	143332253	9	25392											
DPCR1	135656	hgsc.bcm.edu	37	chr6	30917574	30917574	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagagcctacagaaaatAgagaaaggacagccaatgag	19	3	11	8	0	0	4	0	1	0	3	0	6	0	5	2	1	4	1	2	1	6	2	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		G	30917574	A	G	30917574	3	3	487	1	0	0	0	0	1	0	0	0	4712	412	15	3	1339	3	DPCR1	6	30917574	Missense_Mutation	SNP	A	TCGA-DV-5576-01A-01D-1534-10	3134760	30917574	140197493	10	25393											
GPRC6A	222545	hgsc.bcm.edu	37	chr6	117113761	117113762	+	Frame_Shift_Ins	INS	-	-	GG																															tggcttcattgtaattctcaINStatttgcctttgaaagcaaa																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		GG	117113762	-	GG	117113761	7	5	487	1	0	1	1	0	0	0	0	0	6728	224	8	0	459	0	GPRC6A	6	117113761	Frame_Shift_Ins	INS	-	TCGA-DV-5576-01A-01D-1534-10	86196187	117113761	54001306	11	25394											
SAMD9L	219285	hgsc.bcm.edu	37	chr7	92761054	92761054	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacaaattgcaagacctctcGgagttgtttttttagcgtgg	9	15	10	7	2	1	1	0	0	1	1	2	2	1	2	1	2	3	3	1	2	4	7	rs4729075	alternate_allele	TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		C	92761054	G	C	92761054	3	2	487	1	0	0	0	0	1	0	0	0	13829	1124	39	4	527	4	SAMD9L	7	92761054	Missense_Mutation	SNP	G	TCGA-DV-5576-01A-01D-1534-10		92761054	66377609	12	25395											
AGK	55750	hgsc.bcm.edu;ucsc.edu	37	chr7	141336815	141336815	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccactttttcagcactcttAaggtaaatgtgatttacagt	11	15	6	9	0	2	1	1	1	1	0	2	1	2	1	1	1	2	2	1	1	4	6	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	141336815	A	T	141336815	4	4	487	1	0	0	0	0	0	1	0	0	383	363	13	5	762	5	AGK	7	141336815	Nonsense_Mutation	SNP	A	TCGA-DV-5576-01A-01D-1534-10	48575761	141336815	17801848	13	25396											
IFNK	56832	hgsc.bcm.edu	37	chr9	27524364	27524365	+	Frame_Shift_Ins	INS	-	-	TGTT																															aacctgatatgattcaaaagINStgtttgtggcttgagatcct																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		TGTT	27524365	-	TGTT	27524364	7	5	487	1	0	1	1	0	0	0	0	0	7551	1020	36	0	32	0	IFNK	9	27524364	Frame_Shift_Ins	INS	-	TCGA-DV-5576-01A-01D-1534-10		27524364	113689067	14	25397											
OR4C15	81309	hgsc.bcm.edu	37	chr11	55322611	55322635	+	Frame_Shift_Del	DEL	TCTCTGAGAACACACAGTTCTGAAG	TCTCTGAGAACACACAGTTCTGAAG	-																															cctatgctgtcatcttgctcTctctgagaacacacagttct																								rs72140406		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	TCTCTGAGAACACACAGTTCTGAAG	TCTCTGAGAACACACAGTTCTGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		-	55322635	TCTCTGAGAACACACAGTTCTGAAG	-	55322611	7	5	487	1	0	1	0	1	0	0	0	0	11048	1551	54	0	831	0	OR4C15	11	55322611	Frame_Shift_Del	DEL	TCTCTGAGAACACACAGTTCTGAAG	TCGA-DV-5576-01A-01D-1534-10		55322611	79683905	15	25398											
SLC3A2	6520	hgsc.bcm.edu;ucsc.edu	37	chr11	62650410	62650410	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattctggaccttactcccaActaccggggtgagaactcgt	9	10	9	13	2	1	1	0	1	1	1	3	3	2	2	3	3	4	0	3	3	4	3	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		G	62650410	A	G	62650410	3	3	487	1	0	0	0	0	1	0	0	0	14629	43	2	3	1054	3	SLC3A2	11	62650410	Missense_Mutation	SNP	A	TCGA-DV-5576-01A-01D-1534-10	7327799	62650410	72356106	16	25399											
ADAMTS17	170691	hgsc.bcm.edu;ucsc.edu	37	chr15	100649280	100649281	+	In_Frame_Ins	INS	-	-	CTCCTT																															tcggccaccagcagtggggaINSctccttcccgaggggcgagc																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		CTCCTT	100649281	-	CTCCTT	100649280	7	5	487	1	0	1	1	0	0	0	0	0	262	275	10	0	1393	0	ADAMTS17	15	100649280	In_Frame_Ins	INS	-	TCGA-DV-5576-01A-01D-1534-10		100649280	1882112	17	25400											
TOP2A	7153	hgsc.bcm.edu;ucsc.edu	37	chr17	38557157	38557157	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgttatttacaatttcaCgcacatcaaagttggggatt	12	15	8	6	1	2	1	2	1	0	0	2	2	2	2	0	2	1	3	0	2	4	6	rs192926120	by1000genomes	TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	38557157	C	T	38557157	3	4	487	1	0	0	0	0	1	0	0	0	16364	536	19	1	2046	1	TOP2A	17	38557157	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10		38557157	42638053	18	25401											
KRTAP4-1	85285	hgsc.bcm.edu;ucsc.edu	37	chr17	39341039	39341039	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcagctggggcggcagcagGtctcttggcagaggccttga	7	7	17	10	1	1	2	0	1	1	1	2	2	1	2	1	6	3	5	1	6	0	2	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	39341039	G	A	39341039	3	1	487	1	0	0	0	0	1	0	0	0	8548	1261	44	2	323	2	KRTAP4-1	17	39341039	Missense_Mutation	SNP	G	TCGA-DV-5576-01A-01D-1534-10	783882	39341039	41854171	19	25402											
ACSF2	80221	hgsc.bcm.edu;ucsc.edu	37	chr17	48551039	48551039	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttacagagatgtcgccacaAtgaatgagcagggcttctgc	11	9	11	10	1	1	3	0	2	1	1	2	4	1	3	1	1	3	2	1	1	3	2	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		G	48551039	A	G	48551039	3	3	487	1	0	0	0	0	1	0	0	0	175	101	4	3	1539	3	ACSF2	17	48551039	Missense_Mutation	SNP	A	TCGA-DV-5576-01A-01D-1534-10	9210000	48551039	32644171	20	25403											
TM6SF2	53345	hgsc.bcm.edu	37	chr19	19381023	19381023	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccaggtagaggaggtaGtgaacagtgccatcccagta	12	7	14	8	0	0	2	0	1	0	1	1	3	1	3	3	4	2	3	3	4	4	3	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	19381023	G	A	19381023	2	1	487	1	0	0	0	0	0	0	0	1	15972	1020	36	2		2	TM6SF2	19	19381023	Silent	SNP	G	TCGA-DV-5576-01A-01D-1534-10		19381023	39747960	21	25404											
ZNF208	7757	hgsc.bcm.edu	37	chr19	22156286	22156286	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtttctctccagtatgaattCtcttatgttccataaggttt	8	19	6	8	0	2	1	0	1	2	0	6	1	4	1	2	1	0	4	2	1	4	7	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	22156286	C	T	22156286	3	4	487	1	0	0	0	0	1	0	0	0	17765	913	32	2	2296	2	ZNF208	19	22156286	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10	2775263	22156286	36972697	22	25405											
ZNF676	163223	hgsc.bcm.edu	37	chr19	22363631	22363631	+	Silent	SNP	G	G	A																															tgaattctcttatgttccatGagctttgaggacgagttgga																								rs75683199	bycluster;byfrequency	TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	22363631	G	A	22363631	2	1	487	1	0	0	0	0	0	0	0	1	18082	1277	45	2		2	ZNF676	19	22363631	Silent	SNP	G	TCGA-DV-5576-01A-01D-1534-10	207345	22363631	36765352	23	25406	365	2									
ZNF676	163223	hgsc.bcm.edu	37	chr19	22363634	22363634	+	Missense_Mutation	SNP	C	C	A																															attctcttatgttccatgagCtttgaggacgagttggaagc																								rs76456473	bycluster;byfrequency	TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	22363634	C	A	22363634	3	1	487	1	0	0	0	0	1	0	0	0	18082	796	28	4	885	4	ZNF676	19	22363634	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10	3	22363634	36765349	24	25407	365	2									
CEACAM3	1084	hgsc.bcm.edu;ucsc.edu	37	chr19	42301763	42301763	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtcgagagacaatatacAccaatgcatccctgctgatc	12	8	9	12	2	0	2	0	1	0	1	3	4	1	2	2	1	3	2	2	1	4	2	rs61737014	byfrequency;by1000genomes	TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		C	42301763	A	C	42301763	3	2	487	1	0	0	0	0	1	0	0	0	3193	159	6	5	313	5	CEACAM3	19	42301763	Missense_Mutation	SNP	A	TCGA-DV-5576-01A-01D-1534-10	19938129	42301763	16827220	25	25408											
STK35	140901	hgsc.bcm.edu;ucsc.edu	37	chr20	2097952	2097952	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttgaaagatatgttagcTgctaacccacaggaccggcc	11	9	9	12	1	1	2	0	1	1	1	1	3	1	3	3	2	3	3	3	2	4	4	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		A	2097952	T	A	2097952	2	1	487	1	0	0	0	0	0	0	0	1	15302	1567	55	5		5	STK35	20	2097952	Silent	SNP	T	TCGA-DV-5576-01A-01D-1534-10		2097952	60927568	26	25409											
RPGR	6103	hgsc.bcm.edu	37	chrX	38145700	38145700	+	Missense_Mutation	SNP	T	T	C																															ctttcccttctccttcctccTcttccccctccccttcctcc																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		C	38145700	T	C	38145700	3	2	487	1	0	0	0	0	1	0	0	0	13550	1551	54	3	1469	3	RPGR	23	38145700	Missense_Mutation	SNP	T	TCGA-DV-5576-01A-01D-1534-10		38145700	117124860	27	25410	366	2									
RPGR	6103	hgsc.bcm.edu	37	chrX	38145704	38145704	+	Missense_Mutation	SNP	C	C	T																															cccttctccttcctcctcttCcccctccccttcctcctctt																								novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	38145704	C	T	38145704	3	4	487	1	0	0	0	0	1	0	0	0	13550	864	30	2	1473	2	RPGR	23	38145704	Missense_Mutation	SNP	C	TCGA-DV-5576-01A-01D-1534-10	4	38145704	117124856	28	25411	366	2									
ATRX	546	hgsc.bcm.edu;ucsc.edu	37	chrX	76938884	76938884	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccacatttctctaacttggGgttcagaccacaacttttat	10	15	5	11	0	2	1	1	0	1	1	4	1	3	1	2	2	2	1	2	2	3	6	novel		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		T	76938884	G	T	76938884	3	4	487	1	0	0	0	0	1	0	0	0	1208	1232	43	4	5722	4	ATRX	23	76938884	Missense_Mutation	SNP	G	TCGA-DV-5576-01A-01D-1534-10	38793180	76938884	78331676	29	25412											
GPR50	9248	hgsc.bcm.edu;ucsc.edu	37	chrX	150349558	150349569	+	In_Frame_Del	DEL	CACCACTGGCCA	CACCACTGGCCA	-																															gccaccagccaccctaaaccCaccactggccacatcaagcc																								rs68058591		TCGA-DV-5576-01A-01D-1534-10	TCGA-DV-5576-10A-01D-1535-10	CACCACTGGCCA	CACCACTGGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	dc677d8e-ec39-4038-a86c-8290dacd377b	827b7591-b763-4d3f-beb3-c8c53b03bc21		-	150349569	CACCACTGGCCA	-	150349558	7	5	487	1	0	1	0	1	0	0	0	0	6697	581	21	0	1509	0	GPR50	23	150349558	In_Frame_Del	DEL	CACCACTGGCCA	TCGA-DV-5576-01A-01D-1534-10	73410674	150349558	4921002	30	25413											
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10425659	10425659	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcagtggctatgattcaGgagacatcgaaagcctggtg	12	8	14	7	1	1	3	1	1	0	2	2	5	1	3	1	3	2	2	1	3	2	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		C	10425659	G	C	10425659	3	2	488	1	0	0	0	0	1	0	0	0	8284	1001	35	4	6214	4	KIF1B	1	10425659	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		10425659	238824962	1	25414											
OR10J1	26476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159410089	159410089	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattcaggttacccttctgtGctagaaaggtgccccacttc	8	13	8	12	0	2	1	1	0	1	1	3	1	2	1	3	2	3	2	3	2	4	6	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	159410089	G	T	159410089	3	4	488	1	0	0	0	0	1	0	0	0	10910	1319	46	4	543	4	OR10J1	1	159410089	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	148984430	159410089	89840532	2	25415											
PRG4	23572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186277944	186277944	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaagcacccaaaaaaccCacttctaccaaaaagccaaa	21	3	2	15	0	1	0	0	0	1	0	1	0	1	0	5	0	4	1	5	0	8	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	186277944	C	G	186277944	2	3	488	1	0	0	0	0	0	0	0	1	12483	581	21	4		4	PRG4	1	186277944	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08	26867855	186277944	62972677	3	25416											
TMCC2	9911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205238192	205238192	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccagcggaccaaggccGccattgaccacctgcaccag	10	3	9	19	2	0	1	0	1	0	0	0	2	0	2	8	2	2	1	8	2	1	1	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	205238192	G	A	205238192	3	1	488	1	0	0	0	0	1	0	0	0	15992	1087	38	1	872	1	TMCC2	1	205238192	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	18960248	205238192	44012429	4	25417											
C1orf124	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	231487063	231487063	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcaggtataccatacttTtcacgatgaggtggatgagt	11	12	10	8	1	2	2	2	2	0	0	2	4	2	3	1	3	2	1	1	3	3	5	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	231487063	T	G	231487063	3	3	488	1	0	0	0	0	1	0	0	0	1992	1841	64	5	478	5	C1orf124	1	231487063	Missense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08	26248871	231487063	17763558	5	25418											
CCDC85A	114800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	56419911	56419911	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccatcgacagccaggccagCctgtgccaactcacagcctc	9	6	8	18	1	1	0	1	0	0	0	4	1	2	0	6	1	5	0	6	1	1	0	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	56419911	C	T	56419911	2	4	488	1	0	0	0	0	0	0	0	1	2859	738	26	2		2	CCDC85A	2	56419911	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08		56419911	186779462	6	25419											
GCC2	9648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109099526	109099526	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttaatttcaggaacatgcCactactgtaaatgaacttga	14	14	6	7	0	1	2	1	2	0	0	1	3	1	3	1	1	4	1	1	1	6	6	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	109099526	C	T	109099526	2	4	488	1	0	0	0	0	0	0	0	1	6286	581	21	2		2	GCC2	2	109099526	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08	52679615	109099526	134099847	7	25420											
XIRP2	129446	broad.mit.edu	37	chr2	168105254	168105254	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactggcaacctccctgtCagatatggaatgtaaaatta	14	11	8	8	0	1	2	1	1	0	1	2	3	2	3	2	2	2	2	2	2	7	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	168105254	A	A	168105254	4	1	488	1	0	0	0	0	0	1	0	0	17429	838	29	4	7382	4	XIRP2	2	168105254	Nonsense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	59005728	168105254	75094119	8	25421											
ITGA4	3676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	182396472	182396472	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccagtgttcatatccAactggaaggccggccatcca	12	7	10	12	1	1	1	1	0	0	1	3	2	3	2	5	3	2	1	5	3	4	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	182396472	A	G	182396472	3	3	488	1	0	0	0	0	1	0	0	0	7878	130	5	3	2851	3	ITGA4	2	182396472	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08	14291218	182396472	60802901	9	25422											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191492	10191492	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatactctgaaagagcgatGcctccaggttgtccggagcc	9	9	12	11	2	1	2	0	1	1	1	3	4	3	3	4	2	4	2	4	2	3	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	10191492	T	T	10191492	3	4	488	1	0	0	0	0	1	0	0	0	17161	1319	46	4	495	4	VHL	3	10191492	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		10191492	187830938	10	25423											
NDUFAF3	25915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49059963	49059963	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcccgcactcggtggtgCagtggaacgtgagtcctggc	5	9	15	12	3	0	1	0	1	0	0	3	2	2	2	2	4	3	3	2	4	1	0	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	49059963	C	A	49059963	3	1	488	1	0	0	0	0	1	0	0	0	10276	711	25	4	268	4	NDUFAF3	3	49059963	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	38868471	49059963	148962467	11	25424											
TP63	8626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	189586470	189586470	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcagaaagcagcaagtttCggacagtacaaagaacggtg	16	6	11	8	2	1	2	1	0	0	2	2	3	1	3	0	2	4	4	0	2	5	2	rs147148566		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	189586470	C	T	189586470	3	4	488	1	0	0	0	0	1	0	0	0	16391	893	31	1	1170	1	TP63	3	189586470	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	140526507	189586470	8435960	12	25425											
GPR78	27201	broad.mit.edu;hgsc.bcm.edu	37	chr4	8583134	8583134	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccttctcaggcgctgcacTtggctgctcgtggcttggct	2	12	14	13	2	1	0	1	0	1	0	3	0	1	0	1	5	2	6	1	5	0	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	8583134	T	A	8583134	3	1	488	1	0	0	0	0	1	0	0	0	6710	1609	56	5	427	5	GPR78	4	8583134	Missense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08		8583134	182571142	13	25426											
TAPT1	202018	broad.mit.edu;hgsc.bcm.edu	37	chr4	16165153	16165153	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagacaggttttcttctgtGgaaaggcctgtgataaaata	12	12	11	6	0	2	2	0	1	2	1	2	3	2	3	1	3	0	2	1	3	4	5	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	16165153	G	T	16165153	2	4	488	1	0	0	0	0	0	0	0	1	15553	1335	47	4		4	TAPT1	4	16165153	Silent	SNP	G	TCGA-EU-5904-01A-11D-1669-08	7582019	16165153	174989123	14	25427											
NCAPG	64151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	17819025	17819026	+	Frame_Shift_Ins	INS	-	-	AA																															gttctcaatgccttgttttcINSaataactcctctcagtgaac																								novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		AA	17819026	-	AA	17819025	7	5	488	1	0	1	1	0	0	0	0	0	10207	838	29	0	939	0	NCAPG	4	17819025	Frame_Shift_Ins	INS	-	TCGA-EU-5904-01A-11D-1669-08	1653872	17819025	173335251	15	25428											
PCDHGA5	56110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140745223	140745223	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccacatccccttgaaagtAgcagacgttaatgacaaccc	14	7	7	13	1	0	3	0	2	0	1	1	3	1	3	4	0	3	3	4	0	4	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	140745223	A	G	140745223	2	3	488	1	0	0	0	0	0	0	0	1	11557	407	15	3		3	PCDHGA5	5	140745223	Silent	SNP	A	TCGA-EU-5904-01A-11D-1669-08		140745223	40170037	16	25429											
ALDH5A1	7915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24528317	24528317	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaaaatttctttgagccTaccctgctgtgcaatgtcac	11	12	8	10	0	2	1	1	1	1	0	2	2	2	2	2	1	4	2	2	1	5	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		C	24528317	T	C	24528317	2	2	488	1	0	0	0	0	0	0	0	1	502	1509	53	3		3	ALDH5A1	6	24528317	Silent	SNP	T	TCGA-EU-5904-01A-11D-1669-08		24528317	146586750	17	25430											
CNTLN	54875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	17416024	17416024	+	Nonsense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtagcaatattattttatTacgagaacggattatatcct	15	15	6	5	2	0	1	0	0	0	1	1	3	1	2	1	1	3	2	1	1	10	8	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	17416024	T	A	17416024	4	1	488	1	0	0	0	0	0	1	0	0	3639	1764	61	5	3051	5	CNTLN	9	17416024	Nonsense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08		17416024	123797407	18	25431											
EHMT1	79813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140671279	140671279	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggccctggagggcagggcCgacaccacaacgggcaggta	9	3	16	13	3	0	0	0	0	0	0	1	2	0	1	3	6	1	3	3	6	2	1	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	140671279	C	T	140671279	2	4	488	1	0	0	0	0	0	0	0	1	4983	639	23	1		1	EHMT1	9	140671279	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08	123255255	140671279	542152	19	25432											
DIP2C	22982	broad.mit.edu;ucsc.edu	37	chr10	409240	409240	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcagcacggtcaccgagAacacggctatcctgcgggga	9	5	14	13	5	1	1	1	0	0	1	2	3	2	2	2	4	4	3	2	4	2	1	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	409240	T	T	409240	3	4	488	1	0	0	0	0	1	0	0	0	4529	246	9	5	2249	5	DIP2C	10	409240	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		409240	135125507	20	25433											
APBB1IP	54518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26789847	26789847	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggacaatccaggcacagaAagagtccttgcagaatcaac	16	5	10	10	0	1	3	1	0	0	3	3	5	3	4	2	2	2	2	2	2	4	1	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	26789847	A	T	26789847	3	4	488	1	0	0	0	0	1	0	0	0	760	14	1	5	270	5	APBB1IP	10	26789847	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08	26380607	26789847	108744900	21	25434											
NRP1	8829	broad.mit.edu;hgsc.bcm.edu	37	chr10	33619643	33619643	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcccacttacttgcagtCtctgtcctccaaatcgaagt	9	13	5	14	1	1	0	0	0	1	0	6	1	4	0	3	0	2	1	3	0	3	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	33619643	C	A	33619643	3	1	488	1	0	0	0	0	1	0	0	0	10660	913	32	4	2605	4	NRP1	10	33619643	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	6829796	33619643	101915104	22	25435											
SC5DL	6309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	121175086	121175086	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaatcaagtccgtcgagAgattaagtttactgtccagg	12	11	10	8	2	2	2	2	0	0	2	5	4	4	2	2	1	1	1	2	1	4	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	121175086	A	T	121175086	3	4	488	1	0	0	0	0	1	0	0	0	13868	304	11	5	233	5	SC5DL	11	121175086	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		121175086	13831430	23	25436											
KLRG1	10219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9144837	9144837	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcttgttcttgccttgtgGcaatagctttggggcttctg	3	18	11	9	0	3	0	0	0	3	0	3	0	3	0	1	3	2	4	1	3	2	8	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	9144837	G	A	9144837	3	1	488	1	0	0	0	0	1	0	0	0	8421	1203	42	2	124	2	KLRG1	12	9144837	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		9144837	124707058	24	25437											
C12orf41	0	broad.mit.edu;ucsc.edu	37	chr12	49073492	49073492	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtctgagaccccagctCtgtcttagcatatgagctca	9	11	10	11	0	4	2	1	2	3	1	4	4	4	3	2	1	3	3	2	1	2	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	49073492	A	A	49073492	4	1	488	1	0	0	0	0	0	1	0	0	1687	922	32	4	1134	4	C12orf41	12	49073492	Nonsense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	39928655	49073492	84778403	25	25438											
TSFM	10102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58190297	58190297	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcagtatgtgcagcctcaGggggtgtcggtagtagactt	7	10	17	7	1	1	1	1	0	0	1	2	1	1	1	1	4	2	5	1	4	3	4	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	58190297	G	A	58190297	2	1	488	1	0	0	0	0	0	0	0	1	16614	991	35	2		2	TSFM	12	58190297	Silent	SNP	G	TCGA-EU-5904-01A-11D-1669-08	9116805	58190297	75661598	26	25439											
RCBTB2	1102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	49086880	49086880	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcacctctccatcagatgtTagcaccaaagaatggtaaga	14	9	7	11	0	3	3	2	0	1	3	4	3	3	3	3	1	1	3	3	1	4	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		C	49086880	T	C	49086880	2	2	488	1	0	0	0	0	0	0	0	1	13174	1741	61	3		3	RCBTB2	13	49086880	Silent	SNP	T	TCGA-EU-5904-01A-11D-1669-08		49086880	66082998	27	25440											
MYO16	23026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	109817265	109817265	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaggttttgaaactaacatGaacataagtagccgagatga	16	11	9	5	1	0	4	0	3	0	1	0	5	0	4	1	1	4	2	1	1	6	6	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	109817265	G	A	109817265	3	1	488	1	0	0	0	0	1	0	0	0	10064	1290	45	2	5241	2	MYO16	13	109817265	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	60730385	109817265	5352613	28	25441											
LRP10	26020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23344975	23344975	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttcagcaatggcaaggCtgtcactgtggagacactgt	10	9	11	11	0	2	1	2	0	0	1	2	2	2	1	1	3	1	3	1	3	2	1	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	23344975	C	G	23344975	3	3	488	1	0	0	0	0	1	0	0	0	8952	797	28	4	836	4	LRP10	14	23344975	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08		23344975	84004565	29	25442											
MLH3	27030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75515759	75515759	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtctttggttttagggagCtgaagaaccatggaaccaga	12	10	12	7	1	1	3	0	1	1	2	1	5	1	5	2	3	3	2	2	3	4	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	75515759	C	G	75515759	3	3	488	1	0	0	0	0	1	0	0	0	9618	796	28	4	3809	4	MLH3	14	75515759	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	52170784	75515759	31833781	30	25443											
PPP4R4	57718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94741786	94741786	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tactcccttaccgagtacttCccgtgggacaggtaactcag	9	10	9	13	2	1	0	1	0	0	0	3	2	3	1	3	2	4	2	3	2	4	5	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	94741786	C	T	94741786	3	4	488	1	0	0	0	0	1	0	0	0	12407	855	30	2	2692	2	PPP4R4	14	94741786	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	19226027	94741786	12607754	31	25444											
KIAA1199	57214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81172060	81172060	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatgctacctcttcaggcaAgctggtcattaaagaccacg	12	9	8	12	1	3	1	2	0	1	1	3	1	3	1	2	2	3	3	2	2	5	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	81172060	A	G	81172060	3	3	488	1	0	0	0	0	1	0	0	0	8213	72	3	3	255	3	KIAA1199	15	81172060	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		81172060	21359332	32	25445											
GLYR1	84656	hgsc.bcm.edu;ucsc.edu	37	chr16	4867698	4867698	+	Frame_Shift_Del	DEL	C	C	-																															ccaaggcccaaaaatcctatCctgaaacagagagagactga																								novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		-	4867698	C	-	4867698	7	5	488	1	0	1	0	1	0	0	0	0	6483	869	30	0	882	0	GLYR1	16	4867698	Frame_Shift_Del	DEL	C	TCGA-EU-5904-01A-11D-1669-08		4867698	85487055	33	25446											
HSF4	3299	broad.mit.edu	37	chr16	67199696	67199696	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgaccacgtcgagttccagCacccgagcttcgtgcgcggc	6	6	13	16	7	0	0	0	0	0	0	3	3	1	0	3	1	3	3	3	1	0	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	67199696	A	A	67199696	3	1	488	1	0	0	0	0	1	0	0	0	7398	710	25	4	317	4	HSF4	16	67199696	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	62331998	67199696	23155057	34	25447											
CIRH1A	84916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69199341	69199341	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctccaaagggatactcCtatcacacacatcagttttc	11	12	6	12	0	2	0	2	0	0	0	5	1	4	1	2	2	1	2	2	2	3	5	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	69199341	C	G	69199341	3	3	488	1	0	0	0	0	1	0	0	0	3434	681	24	4	1799	4	CIRH1A	16	69199341	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	1999645	69199341	21155412	35	25448											
KIAA0100	9703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26961748	26961748	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	catgggtgtgttgccatagaGacgacgggaacgctggatgt	9	9	16	7	3	0	1	0	0	0	1	0	5	0	3	1	3	2	2	1	3	2	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		C	26961748	G	C	26961748	3	2	488	1	0	0	0	0	1	0	0	0	8154	942	33	4	3946	4	KIAA0100	17	26961748	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		26961748	54233462	36	25449											
ROCK1	6093	broad.mit.edu	37	chr18	18535179	18535179	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctctatacacatctccttgGgttacaggtctaacgtgaaa	11	12	8	10	1	3	1	0	1	3	0	4	1	3	1	1	2	3	2	1	2	5	5	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	18535179	A	A	18535179	2	1	488	1	0	0	0	0	0	0	0	1	13519	1219	43	2		2	ROCK1	18	18535179	Silent	SNP	G	TCGA-EU-5904-01A-11D-1669-08		18535179	59542069	37	25450											
ATP4A	495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36046491	36046491	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gatcacacaggcacgggcatCcctggggaggagatgggagg	10	4	18	9	1	1	1	1	0	0	1	2	5	2	3	1	7	0	2	1	7	0	0	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		G	36046491	C	G	36046491	3	3	488	1	0	0	0	0	1	0	0	0	1145	869	30	4	1135	4	ATP4A	19	36046491	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08		36046491	23082492	38	25451											
TUBA8	51807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	18609612	18609612	+	Silent	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaacagctctctgtggcCgagataaccagctcctgctt	9	9	9	14	2	1	1	0	0	1	1	3	3	2	1	3	1	5	3	3	1	2	2	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		A	18609612	C	A	18609612	2	1	488	1	0	0	0	0	0	0	0	1	16749	639	23	4		4	TUBA8	22	18609612	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08		18609612	32694954	39	25452											
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21115600	21115600	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgagcttaccagatttgTctttctgaatagctttatcc	10	17	6	8	0	2	3	0	2	2	1	3	3	3	3	2	0	3	2	2	0	5	7	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		C	21115600	T	C	21115600	3	2	488	1	0	0	0	0	1	0	0	0	11873	1667	58	3	3657	3	PI4KA	22	21115600	Missense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08	2505988	21115600	30188966	40	25453											
XPNPEP2	7512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	128895243	128895243	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattggcaacttcctgtgtGtgcatgagtgtaggtgtctc	6	14	13	8	0	1	1	0	1	1	0	3	1	2	1	1	2	2	4	1	2	2	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		T	128895243	G	T	128895243	3	4	488	1	0	0	0	0	1	0	0	0	17442	1377	48	4	1660	4	XPNPEP2	23	128895243	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		128895243	26375317	41	25454											
FAM58A	92002	broad.mit.edu;hgsc.bcm.edu	37	chrX	152860113	152860113	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagcgggagtccaattccagGggctcaccgcttgggttaaa	10	8	13	10	2	1	0	1	0	0	0	3	1	3	1	3	4	1	3	3	4	4	3	novel		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442		C	152860113	G	C	152860113	3	2	488	1	0	0	0	0	1	0	0	0	5590	1219	43	4	437	4	FAM58A	23	152860113	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	23964870	152860113	2410447	42	25455											
PHACTR4	65979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28785764	28785764	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataaatttaaagagacttCagaaggtgagatattaaggg	17	11	11	2	0	1	4	1	2	0	3	1	6	1	4	0	2	0	0	0	2	7	6	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	28785764	C	A	28785764	4	1	489	1	0	0	0	0	0	1	0	0	11812	838	29	4	241	4	PHACTR4	1	28785764	Nonsense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		28785764	220464857	1	25456											
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35579780	35579780	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actatttgtatgtctggggaAatgttggcaaattttcgaaa	12	15	10	4	1	1	0	0	0	1	0	2	2	1	1	0	3	0	3	0	3	5	6	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	35579780	A	T	35579780	3	4	489	1	0	0	0	0	1	0	0	0	17698	11	1	5	2383	5	ZMYM1	1	35579780	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	6794016	35579780	213670841	2	25457											
GBP1	2633	broad.mit.edu;hgsc.bcm.edu	37	chr1	89525013	89525013	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatactacagttggtccaTagcctgctggttgatggttc	8	13	12	8	0	0	1	0	1	0	0	2	2	1	2	2	4	4	4	2	4	3	6	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	89525013	T	C	89525013	3	2	489	1	0	0	0	0	1	0	0	0	6273	1406	49	3	1395	3	GBP1	1	89525013	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	53945233	89525013	159725608	3	25458											
BTBD8	284697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	92554272	92554272	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggcttctaagggaagaatTccatacagatgttaccttct	12	13	8	8	0	2	2	0	0	2	2	3	3	3	3	2	2	2	2	2	2	6	7	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	92554272	T	G	92554272	3	3	489	1	0	0	0	0	1	0	0	0	1547	1783	62	5	173	5	BTBD8	1	92554272	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	3029259	92554272	156696349	4	25459											
PRUNE	58497	hgsc.bcm.edu;ucsc.edu	37	chr1	150981137	150981138	+	Frame_Shift_Ins	INS	-	-	TGCT																															tacctgcagggttgtcgagcINStgctctgcaggtaacgaatc																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		TGCT	150981138	-	TGCT	150981137	7	5	489	1	0	1	1	0	0	0	0	0	12642	797	28	0	31	0	PRUNE	1	150981137	Frame_Shift_Ins	INS	-	TCGA-EU-5905-01A-11D-1669-08	58426865	150981137	98269484	5	25460											
ADAMTS4	9507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161166010	161166010	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagcccatcatcctccacAatggcacagctccgagccgg	9	6	10	16	2	1	0	1	0	0	0	4	2	4	1	5	3	3	2	5	3	1	0	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	161166010	A	T	161166010	2	4	489	1	0	0	0	0	0	0	0	1	268	126	5	5		5	ADAMTS4	1	161166010	Silent	SNP	A	TCGA-EU-5905-01A-11D-1669-08	10184873	161166010	88084611	6	25461											
CCT4	10575	hgsc.bcm.edu;ucsc.edu	37	chr2	62104113	62104114	+	Frame_Shift_Ins	INS	-	-	T																															aatcttggccttttcaactcINStggttatgccagaatttgac																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	62104114	-	T	62104113	7	5	489	1	0	1	1	0	0	0	0	0	2955	913	32	0	932	0	CCT4	2	62104113	Frame_Shift_Ins	INS	-	TCGA-EU-5905-01A-11D-1669-08		62104113	181095260	7	25462											
MPHOSPH10	10199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71361866	71361866	+	Frame_Shift_Del	DEL	T	T	-																															ggaaactgaagatacaggtgTtttaaatgtaaagaaaaatt																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		-	71361866	T	-	71361866	7	5	489	1	0	1	0	1	0	0	0	0	9725	1725	60	0	1051	0	MPHOSPH10	2	71361866	Frame_Shift_Del	DEL	T	TCGA-EU-5905-01A-11D-1669-08	9257753	71361866	171837507	8	25463	367	2									
MPHOSPH10	10199	hgsc.bcm.edu	37	chr2	71361870	71361870	+	Missense_Mutation	SNP	A	A	C																															actgaagatacaggtgttttAaatgtaaagaaaaattctga																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	71361870	A	C	71361870	3	2	489	1	0	0	0	0	1	0	0	0	9725	359	13	5	1055	5	MPHOSPH10	2	71361870	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	4	71361870	171837503	9	25464	367	2									
FIGN	55137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	164466509	164466509	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttagtacagtgtccagttgCatcagaaattcggttctcat	10	14	9	8	1	2	1	2	0	1	1	5	1	3	1	1	1	2	5	1	1	3	5	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	164466509	C	G	164466509	3	3	489	1	0	0	0	0	1	0	0	0	5891	710	25	4	450	4	FIGN	2	164466509	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	93104639	164466509	78732864	10	25465											
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188260	10188260	+	Frame_Shift_Del	DEL	T	T	-																															ttctggttaaccaaactgaaTtatttgtgccatctctcaat																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		-	10188260	T	-	10188260	7	5	489	1	0	1	0	1	0	0	0	0	17161	1490	52	0	409	0	VHL	3	10188260	Frame_Shift_Del	DEL	T	TCGA-EU-5905-01A-11D-1669-08		10188260	187834170	11	25466											
ACVR2B	93	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38519652	38519652	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgtacgagccacccccgAcagcccccaccctgctcacg	8	4	7	22	4	2	0	2	0	0	0	2	2	2	0	6	0	4	2	6	0	1	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	38519652	A	G	38519652	3	3	489	1	0	0	0	0	1	0	0	0	224	275	10	3	405	3	ACVR2B	3	38519652	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	28331392	38519652	159502778	12	25467											
LMOD3	56203	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	69168594	69168595	+	Frame_Shift_Ins	INS	-	-	T																															ttctattttcacgcaacatgINSttagccaaggcaaatgctac																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	69168595	-	T	69168594	7	5	489	1	0	1	1	0	0	0	0	0	8858	1368	48	0	778	0	LMOD3	3	69168594	Frame_Shift_Ins	INS	-	TCGA-EU-5905-01A-11D-1669-08	30648942	69168594	128853836	13	25468											
CCDC37	348807	broad.mit.edu;hgsc.bcm.edu	37	chr3	126142411	126142411	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaggagcagaacctgtcgCtgatccagaacagccaggag	12	5	14	10	1	0	3	0	1	0	2	2	6	1	6	3	3	4	2	3	3	2	0	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	126142411	C	A	126142411	3	1	489	1	0	0	0	0	1	0	0	0	2809	796	28	4	1256	4	CCDC37	3	126142411	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	56973817	126142411	71880019	14	25469											
STAG1	10274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	136170989	136170989	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggtcatgtctgctaaatagCctggaaatgaaaaacagggc	14	8	12	7	0	2	1	1	1	1	0	2	2	2	2	1	3	3	1	1	3	6	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	136170989	C	T	136170989	2	4	489	1	0	0	0	0	0	0	0	1	15243	753	26	2		2	STAG1	3	136170989	Silent	SNP	C	TCGA-EU-5905-01A-11D-1669-08	10028578	136170989	61851441	15	25470											
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32059357	32059357	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcacagagccaagagttgGattaggcattggtgcctgct	9	11	12	9	0	1	2	1	0	1	2	2	3	1	3	2	3	3	3	2	3	2	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	32059357	G	T	32059357	3	4	489	1	0	0	0	0	1	0	0	0	11701	1174	41	4	2259	4	PDZD2	5	32059357	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		32059357	148855903	16	25471											
DDX4	54514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55056036	55056036	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtttgctttagaaatggatGatggaccttctcgaagagat	11	14	11	5	1	1	3	0	1	1	2	2	7	1	5	1	2	1	2	1	2	3	4	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	55056036	G	A	55056036	3	1	489	1	0	0	0	0	1	0	0	0	4360	1290	45	2	146	2	DDX4	5	55056036	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	22996679	55056036	125859224	17	25472											
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141248528	141248528	+	Nonsense_Mutation	SNP	G	G	T																															tggccagagtgatgactggtGaggcgaagttgggtgtgttg																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	141248528	G	T	141248528	4	4	489	1	0	0	0	0	0	1	0	0	11506	1294	45	4	3304	4	PCDH1	5	141248528	Nonsense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	86192492	141248528	39666732	18	25473	368	2									
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141248529	141248529	+	Missense_Mutation	SNP	A	A	T																															ggccagagtgatgactggtgAggcgaagttgggtgtgttgt																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	141248529	A	T	141248529	3	4	489	1	0	0	0	0	1	0	0	0	11506	304	11	5	3305	5	PCDH1	5	141248529	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	1	141248529	39666731	19	25474	368	2									
CUTA	51596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33384503	33384503	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtacggaaagttccccTgttccacaggcaatgcaatt	11	9	10	11	1	0	0	0	0	0	0	2	1	2	1	3	3	2	6	3	3	4	4	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	33384503	T	C	33384503	3	2	489	1	0	0	0	0	1	0	0	0	4062	1580	55	3	79	3	CUTA	6	33384503	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08		33384503	137730564	20	25475											
GNMT	27232	hgsc.bcm.edu;ucsc.edu	37	chr6	42929965	42929969	+	Frame_Shift_Del	DEL	GCTGG	GCTGG	-																															ctcagggtggactccattatGctggtggaagagggcttcag																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	GCTGG	GCTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		-	42929969	GCTGG	-	42929965	7	5	489	1	0	1	0	1	0	0	0	0	6540	1319	46	0	228	0	GNMT	6	42929965	Frame_Shift_Del	DEL	GCTGG	TCGA-EU-5905-01A-11D-1669-08	9545462	42929965	128185102	21	25476											
SGK1	6446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	134494169	134494169	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctgctcacctctccacCattaatgtagtctaggacaa	10	10	5	16	0	3	0	1	0	2	0	4	1	3	1	5	1	1	2	5	1	4	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	134494169	C	G	134494169	3	3	489	1	0	0	0	0	1	0	0	0	14209	594	21	4	782	4	SGK1	6	134494169	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	91564204	134494169	36620898	22	25477											
MYB	4602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	135516962	135516962	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagacctcatggagacaGtgcacctgtttcctgtttgg	8	11	10	12	0	1	2	1	0	0	2	2	3	2	2	4	2	1	3	4	2	0	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	135516962	G	A	135516962	3	1	489	1	0	0	0	0	1	0	0	0	10007	1029	36	2	1059	2	MYB	6	135516962	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	1022793	135516962	35598105	23	25478											
BCLAF1	9774	broad.mit.edu;hgsc.bcm.edu	37	chr6	136597333	136597333	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttctctattgcctttcaGtgaaactttggacttgtact	8	18	6	9	0	2	1	1	1	1	0	3	2	2	2	1	1	3	1	1	1	3	7	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	136597333	G	T	136597333	3	4	489	1	0	0	0	0	1	0	0	0	1383	1020	36	4	1468	4	BCLAF1	6	136597333	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	1080371	136597333	34517734	24	25479											
RAB32	10981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146865253	146865253	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcctgcagctgtgggacatCgcgggtaagcgcggccgcga	6	5	17	13	7	0	0	0	0	0	0	1	2	0	1	2	3	3	3	2	3	1	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	146865253	C	T	146865253	2	4	489	1	0	0	0	0	0	0	0	1	12923	874	31	1		1	RAB32	6	146865253	Silent	SNP	C	TCGA-EU-5905-01A-11D-1669-08	10267920	146865253	24249814	25	25480											
WBSCR17	64409	broad.mit.edu;ucsc.edu	37	chr7	71175760	71175760	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacagcttgcccgctacacCaaggaaggcttcctgcactt	9	8	9	15	2	0	0	0	0	0	0	1	2	1	1	3	2	4	4	3	2	3	4	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	71175760	A	A	71175760	2	1	489	1	0	0	0	0	0	0	0	1	17263	581	21	4		4	WBSCR17	7	71175760	Silent	SNP	C	TCGA-EU-5905-01A-11D-1669-08		71175760	87962903	26	25481											
SGK223	157285	broad.mit.edu	37	chr8	8175907	8175907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accagctcgcgccgaggcccCcacagcaggcactgcagcac	9	2	11	19	3	0	0	0	0	0	0	1	1	0	0	4	2	4	5	4	2	0	0	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	8175907	A	A	8175907	3	1	489	1	0	0	0	0	1	0	0	0	14212	624	22	4	234	4	SGK223	8	8175907	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		8175907	138188115	27	25482											
INTS9	55756	broad.mit.edu;ucsc.edu	37	chr8	28625776	28625776	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatctggatgagcgtctcagCctcctggagcaggacgatat	10	9	12	10	2	2	1	1	1	2	0	4	5	3	4	2	3	3	1	2	3	2	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	28625776	G	G	28625776	3	3	489	1	0	0	0	0	1	0	0	0	7785	739	26	4	116	4	INTS9	8	28625776	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	20449869	28625776	117738246	28	25483											
CPNE3	8895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87568470	87568470	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgacttcagcgccatggaGtttctggatggtgatggtgg	6	12	16	7	1	2	2	1	2	1	0	2	4	2	4	1	5	1	2	1	5	0	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	87568470	G	C	87568470	3	2	489	1	0	0	0	0	1	0	0	0	3813	1020	36	4	1449	4	CPNE3	8	87568470	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	58942694	87568470	58795552	29	25484											
UBR5	51366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	103327008	103327008	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgctggcaattgaggatgCatcactacacgtggatgctg	10	10	12	9	1	1	1	1	1	0	0	1	3	1	3	0	3	4	4	0	3	2	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	103327008	C	T	103327008	3	4	489	1	0	0	0	0	1	0	0	0	16904	710	25	2	6721	2	UBR5	8	103327008	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	15758538	103327008	43037014	30	25485											
KCNQ3	3786	hgsc.bcm.edu	37	chr8	133492523	133492523	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggggtcttggccaggagcCcgatgccctgcggggtcctc	3	7	17	14	3	1	0	0	0	1	0	3	2	2	1	4	6	3	0	4	6	0	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	133492523	C	G	133492523	3	3	489	1	0	0	0	0	1	0	0	0	8084	623	22	4	2421	4	KCNQ3	8	133492523	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	30165515	133492523	12871499	31	25486											
ZNF79	7633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130206351	130206351	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagagcaagccctttcTgaagcttcattccaagaccc	11	8	6	16	0	2	3	1	1	1	2	3	3	3	3	5	0	3	2	5	0	3	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	130206351	T	C	130206351	2	2	489	1	0	0	0	0	0	0	0	1	18160	1567	55	3		3	ZNF79	9	130206351	Silent	SNP	T	TCGA-EU-5905-01A-11D-1669-08		130206351	11007080	32	25487											
TBC1D13	54662	hgsc.bcm.edu;ucsc.edu	37	chr9	131550656	131550656	+	Frame_Shift_Del	DEL	T	T	-																															tgaaggagccctcaattgcaTtggaaaagctgcgggaactc																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		-	131550656	T	-	131550656	7	5	489	1	0	1	0	1	0	0	0	0	15601	1490	52	0	73	0	TBC1D13	9	131550656	Frame_Shift_Del	DEL	T	TCGA-EU-5905-01A-11D-1669-08	1344305	131550656	9662775	33	25488											
GPSM1	26086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139250844	139250844	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaggaattcttcgacctcAtcgccagctcccagagccgc	8	7	9	17	4	2	1	1	0	1	1	5	4	3	2	5	1	2	1	5	1	1	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	139250844	A	T	139250844	3	4	489	1	0	0	0	0	1	0	0	0	6734	217	8	5	1880	5	GPSM1	9	139250844	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	7700188	139250844	1962587	34	25489											
TMEM203	94107	broad.mit.edu;hgsc.bcm.edu	37	chr9	140099456	140099456	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccggcacctcggtgaggCtagttgacccgacaggcgcg	6	7	14	14	5	1	2	0	2	1	0	3	3	1	2	3	4	0	3	3	4	1	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	140099456	C	A	140099456	3	1	489	1	0	0	0	0	1	0	0	0	16127	808	28	4	3	4	TMEM203	9	140099456	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	848612	140099456	1113975	35	25490											
ZNF518A	9849	hgsc.bcm.edu;ucsc.edu	37	chr10	97917981	97917981	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgttgaatcctccaaccaAggatcattaccttttcataa	12	13	4	12	0	2	1	2	1	0	0	4	2	4	2	5	1	2	1	5	1	5	5	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	97917981	A	C	97917981	3	2	489	1	0	0	0	0	1	0	0	0	17961	69	3	5	1904	5	ZNF518A	10	97917981	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08		97917981	37616766	36	25491											
INPP5F	22876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	121567515	121567515	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcgcatctaccagataatGtgggccaataatggtgactc	13	10	9	9	1	1	2	0	1	1	1	3	2	1	2	2	2	1	1	2	2	5	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	121567515	G	C	121567515	3	2	489	1	0	0	0	0	1	0	0	0	7758	1377	48	4	1562	4	INPP5F	10	121567515	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	23649534	121567515	13967232	37	25492											
ESAM	90952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124623594	124623594	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaccatcacaggcacagcaCccatgcggctcaagccagag	12	3	10	16	1	2	1	2	0	0	1	2	1	2	1	3	2	3	4	3	2	1	0	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	124623594	C	A	124623594	3	1	489	1	0	0	0	0	1	0	0	0	5247	507	18	4	55	4	ESAM	11	124623594	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		124623594	10382922	38	25493											
PDE3A	5139	broad.mit.edu;hgsc.bcm.edu	37	chr12	20832968	20832968	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttatttattttagaaaaGaagactttcaaaaggagaaa	19	14	6	2	0	1	4	1	0	0	4	1	5	1	4	0	1	0	0	0	1	9	7	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	20832968	G	T	20832968	3	4	489	1	0	0	0	0	1	0	0	0	11637	933	33	4	3251	4	PDE3A	12	20832968	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		20832968	113018927	39	25494											
KRT71	112802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52940112	52940112	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgcgataggtggcgatcTccatgtccagggccagcttc	6	10	13	12	2	1	0	0	0	1	0	4	2	2	0	3	3	2	2	3	3	1	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	52940112	T	A	52940112	3	1	489	1	0	0	0	0	1	0	0	0	8484	1551	54	5	300	5	KRT71	12	52940112	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	32107144	52940112	80911783	40	25495											
ACSS3	79611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	81536908	81536908	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcggttcctttggctcccgGtcgtgaccttgattgggatg	3	13	15	10	3	0	2	0	2	0	0	3	3	2	3	3	5	0	2	3	5	0	4	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	81536908	G	A	81536908	3	1	489	1	0	0	0	0	1	0	0	0	190	1261	44	2	821	2	ACSS3	12	81536908	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	28596796	81536908	52314987	41	25496											
MSI1	4440	broad.mit.edu	37	chr12	120805861	120805861	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccagcactttatccacccCcgcctggtccatgaaagtga	9	8	8	16	2	0	2	0	2	0	0	2	2	2	2	6	1	1	1	6	1	2	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	120805861	G	G	120805861	3	3	489	1	0	0	0	0	1	0	0	0	9875	623	22	4	915	4	MSI1	12	120805861	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	39268953	120805861	13046034	42	25497											
TINF2	26277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24709719	24709719	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagacttcccagtggaggCtgctcttgtgcccatggcta	6	12	11	12	0	1	1	0	0	1	1	2	2	2	2	2	3	2	3	2	3	2	4	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	24709719	C	G	24709719	3	3	489	1	0	0	0	0	1	0	0	0	15922	797	28	4	408	4	TINF2	14	24709719	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		24709719	82639821	43	25498											
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31090216	31090216	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctctgcccgaaggagttTgactctctgcctgccctccg	4	11	9	17	2	2	1	0	1	2	0	5	3	4	2	5	1	3	1	5	1	1	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	31090216	T	A	31090216	3	1	489	1	0	0	0	0	1	0	0	0	18061	1809	63	5	2573	5	ZNF646	16	31090216	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08		31090216	59264537	44	25499											
FUS	2521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31201624	31201624	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtggaggctatggaggTggtggcagtggtggtggtgg	4	9	24	4	1	0	0	0	0	0	0	0	2	0	2	1	11	0	2	1	11	1	1	rs76570520	alternate_allele	TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	31201624	T	C	31201624	2	2	489	1	0	0	0	0	0	0	0	1	6100	1683	59	3		3	FUS	16	31201624	Silent	SNP	T	TCGA-EU-5905-01A-11D-1669-08	111408	31201624	59153129	45	25500											
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49670001	49670001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcatgcagaccacacagCggaagcccgtgagtgagttg	10	7	13	11	2	1	3	0	2	1	1	1	4	1	4	2	1	4	3	2	1	1	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	49670001	C	T	49670001	3	4	489	1	0	0	0	0	1	0	0	0	17897	768	27	1	812	1	ZNF423	16	49670001	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	18468377	49670001	40684752	46	25501											
PHLPP2	23035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71683569	71683569	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggatggagtggctggctTaggggcatccttgatagtgg	8	10	18	5	0	0	2	0	1	0	1	1	4	1	4	1	7	0	3	1	7	2	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	71683569	T	C	71683569	3	2	489	1	0	0	0	0	1	0	0	0	11855	1763	61	3	779	3	PHLPP2	16	71683569	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	22013568	71683569	18671184	47	25502											
PRKAR1A	5573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66525084	66525084	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtttgaagatgggcagaaGattgtggtgcagggagaacc	12	8	16	5	0	0	5	0	1	0	4	0	6	0	5	1	3	2	3	1	3	3	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	66525084	G	C	66525084	3	2	489	1	0	0	0	0	1	0	0	0	12505	933	33	4	873	4	PRKAR1A	17	66525084	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		66525084	14670126	48	25503											
ACTG1	71	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79477756	79477756	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatggaggggcccgactcgTcgtactcctgcttgctaatc	6	10	12	13	4	0	0	0	0	0	0	4	3	1	1	2	3	3	3	2	3	2	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	79477756	T	C	79477756	3	2	489	1	0	0	0	0	1	0	0	0	196	1667	58	3	43	3	ACTG1	17	79477756	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	12952672	79477756	1717454	49	25504											
DPP9	91039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4704158	4704158	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccatgaagccgttcttGccgccgtcgcggcagtggaa	7	8	12	14	5	2	1	1	1	1	0	3	2	2	2	4	2	2	2	4	2	2	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	4704158	G	A	4704158	2	1	489	1	0	0	0	0	0	0	0	1	4733	1306	46	2		2	DPP9	19	4704158	Silent	SNP	G	TCGA-EU-5905-01A-11D-1669-08		4704158	54424825	50	25505											
DAND5	199699	broad.mit.edu;ucsc.edu	37	chr19	13084386	13084386	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactggcagctcagcctccCgtcgacgggtgaagatatcc	8	8	11	14	3	2	2	2	1	0	1	5	3	4	2	3	2	2	2	3	2	2	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	13084386	G	G	13084386	3	3	489	1	0	0	0	0	1	0	0	0	4230	652	23	4	514	4	DAND5	19	13084386	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	8380228	13084386	46044597	51	25506											
MYO9B	4650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17212688	17212688	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaggacgccattgccaGcctgcggctggacggcacca	9	5	12	15	3	1	0	1	0	0	0	1	2	1	2	4	4	3	2	4	4	1	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	17212688	G	A	17212688	3	1	489	1	0	0	0	0	1	0	0	0	10085	971	34	2	163	2	MYO9B	19	17212688	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	4128302	17212688	41916295	52	25507											
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38948875	38948875	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgagggctggggcggcAacggggtcggcgatgacctc	5	4	20	12	6	0	1	0	1	0	0	2	3	0	1	2	8	1	2	2	8	1	0	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	38948875	A	G	38948875	3	3	489	1	0	0	0	0	1	0	0	0	13770	130	5	3	2180	3	RYR1	19	38948875	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	21736187	38948875	20180108	53	25508											
CSRP2BP	57325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	18125954	18125954	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcggattgctcagcagatGgcaaggagcagtatgaaagg	12	8	15	6	1	1	2	1	1	0	1	2	4	1	4	0	4	3	6	0	4	3	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	18125954	G	T	18125954	3	4	489	1	0	0	0	0	1	0	0	0	3968	1348	47	4	343	4	CSRP2BP	20	18125954	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		18125954	44899566	54	25509											
LSM14B	149986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60701436	60701436	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttccgagggatggcgccctAcggcccgctggcggccagct	4	7	15	15	5	0	0	0	0	0	0	1	2	1	1	4	5	2	2	4	5	1	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		G	60701436	A	G	60701436	3	3	489	1	0	0	0	0	1	0	0	0	9055	391	14	3	378	3	LSM14B	20	60701436	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	42575482	60701436	2324084	55	25510											
SLCO4A1	28231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	61300316	61300316	+	Silent	SNP	G	G	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcgccttcggctgggtGatcgacaaggcctgtctgct	5	10	12	14	3	1	1	0	1	1	0	4	2	1	1	3	3	1	2	3	3	1	1	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	61300316	G	T	61300316	2	4	489	1	0	0	0	0	0	0	0	1	14731	1277	45	4		4	SLCO4A1	20	61300316	Silent	SNP	G	TCGA-EU-5905-01A-11D-1669-08	598880	61300316	1725204	56	25511											
KCNQ2	3785	broad.mit.edu	37	chr20	62050979	62050979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccgcggtacctagagcGtccggggcagcatccacaca	8	7	12	14	4	0	1	0	0	0	1	3	1	3	1	4	3	3	4	4	3	2	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	62050979	A	A	62050979	3	1	489	1	0	0	0	0	1	0	0	0	8083	1145	40	1	1348	1	KCNQ2	20	62050979	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	750663	62050979	974541	57	25512											
TIAM1	7074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	32624302	32624302	+	Silent	SNP	C	C	A																															gtggtgctcatctccagctcCcgccggaagttctcgtacac																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	32624302	C	A	32624302	2	1	489	1	0	0	0	0	0	0	0	1	15889	610	22	4		4	TIAM1	21	32624302	Silent	SNP	C	TCGA-EU-5905-01A-11D-1669-08		32624302	15505593	58	25513	369	2									
TIAM1	7074	hgsc.bcm.edu;ucsc.edu	37	chr21	32624303	32624303	+	Missense_Mutation	SNP	C	C	A																															tggtgctcatctccagctccCgccggaagttctcgtacacc																								novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	32624303	C	A	32624303	3	1	489	1	0	0	0	0	1	0	0	0	15889	652	23	4	3705	4	TIAM1	21	32624303	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	1	32624303	15505592	59	25514	369	2									
GCFC1	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34120909	34120909	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttgtaggatgtgtagtaTtttgaacgccatgcttcaaa	10	16	9	6	1	2	1	1	1	1	0	2	2	2	2	1	1	2	4	1	1	5	7	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		C	34120909	T	C	34120909	2	2	489	1	0	0	0	0	0	0	0	1	6289	1490	52	3		3	GCFC1	21	34120909	Silent	SNP	T	TCGA-EU-5905-01A-11D-1669-08	1496606	34120909	14008986	60	25515											
MCM3AP	8888	broad.mit.edu;ucsc.edu	37	chr21	47705106	47705106	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagagaaggttgaccaaatCgaaatggcggcttagatgga	16	7	13	5	2	0	3	0	1	0	2	1	6	0	4	1	4	0	2	1	4	5	2	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	47705106	A	A	47705106	3	1	489	1	0	0	0	0	1	0	0	0	9388	884	31	4	5959	4	MCM3AP	21	47705106	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	13584197	47705106	424789	61	25516											
CCNB3	85417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50054338	50054338	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccccaaattggaaccagcCcatatgtgtttagcaccacc	11	9	6	15	0	0	0	0	0	0	0	1	1	1	1	6	1	3	2	6	1	4	4	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		A	50054338	C	A	50054338	3	1	489	1	0	0	0	0	1	0	0	0	2914	623	22	4	3183	4	CCNB3	23	50054338	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		50054338	105216222	62	25517											
VGLL1	51442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135638638	135638638	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttagagacacctgggaaAtactcacttacaccaccaaa	16	7	7	11	0	1	1	1	0	0	1	1	4	1	2	3	1	2	1	3	1	5	3	novel		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d		T	135638638	A	T	135638638	3	4	489	1	0	0	0	0	1	0	0	0	17157	98	4	5	731	5	VGLL1	23	135638638	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	85584300	135638638	19631922	63	25518											
RSC1A1	6248	hgsc.bcm.edu;ucsc.edu	37	chr1	15987206	15987206	+	Frame_Shift_Del	DEL	T	T	-																															attggtgcattggatctcacTttagataatcccttgatgga																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		-	15987206	T	-	15987206	7	5	490	1	0	1	0	1	0	0	0	0	13700	1596	56	0	845	0	RSC1A1	1	15987206	Frame_Shift_Del	DEL	T	TCGA-EU-5906-01A-11D-1669-08		15987206	233263415	1	25519											
C8A	731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	57351710	57351710	+	Silent	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcattaatggagcttccAgatcagtacaattatggcat	13	12	8	8	0	2	1	2	0	0	1	3	2	3	2	1	2	2	3	1	2	4	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	57351710	A	T	57351710	2	4	490	1	0	0	0	0	0	0	0	1	2416	175	7	5		5	C8A	1	57351710	Silent	SNP	A	TCGA-EU-5906-01A-11D-1669-08	41364504	57351710	191898911	2	25520											
CTH	1491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70896063	70896063	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagccttcataatagacttcGtttcttgcaaaactgtaagt	13	14	6	8	1	2	1	1	0	1	1	3	1	2	1	1	0	3	3	1	0	6	7	rs147044875		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	70896063	G	A	70896063	3	1	490	1	0	0	0	0	1	0	0	0	4009	1145	40	1	736	1	CTH	1	70896063	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	13544353	70896063	178354558	3	25521											
C1orf31	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234509989	234509989	+	Nonsense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaacagcttcatcgcagtaGgaatggcagccccatctatg	11	8	9	13	1	2	0	1	0	1	0	3	1	2	1	3	2	3	4	3	2	4	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	234509989	G	T	234509989	4	4	490	1	0	0	0	0	0	1	0	0	2037	1001	35	4	142	4	C1orf31	1	234509989	Nonsense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	163613926	234509989	14740632	4	25522											
MAP4K4	9448	broad.mit.edu	37	chr2	102486844	102486844	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaagtgagccggccatgacCccatccaaggagggcactct	11	5	12	13	1	1	2	0	2	1	0	2	4	2	3	5	3	1	1	5	3	2	0	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	102486844	G	G	102486844	2	3	490	1	0	0	0	0	0	0	0	1	9262	610	22	4		4	MAP4K4	2	102486844	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08		102486844	140712529	5	25523											
ZEB2	9839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	145157472	145157472	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctgagcagatggatgaaCtcctaaagggctggtggctc	10	9	13	9	0	1	3	0	2	1	1	3	4	2	4	1	4	2	3	1	4	3	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	145157472	C	G	145157472	3	3	490	1	0	0	0	0	1	0	0	0	17623	565	20	4	2374	4	ZEB2	2	145157472	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	42670628	145157472	98041901	6	25524											
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179422748	179422748	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatttcatatctcccagcGtcagctgtaacactttcttt	8	16	6	11	1	4	1	2	1	2	0	5	1	4	1	1	0	3	2	1	0	2	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	179422748	G	C	179422748	3	2	490	1	0	0	0	0	1	0	0	0	16734	1136	40	4	20786	4	TTN	2	179422748	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	34265276	179422748	63776625	7	25525											
TTN	7273	broad.mit.edu;ucsc.edu	37	chr2	179439235	179439235	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactaaagctttgctcacaGtctgccagagaataccattt	12	12	7	10	0	2	1	1	0	1	1	2	2	2	1	2	0	5	3	2	0	5	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	179439235	T	T	179439235	3	4	490	1	0	0	0	0	1	0	0	0	16734	1029	36	4	36503	4	TTN	2	179439235	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	16487	179439235	63760138	8	25526											
CUL3	8452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225342980	225342980	+	Silent	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attatccgcactatagcagcTtctatctcatgttttctgtc	8	17	5	11	1	3	0	1	0	3	0	6	0	4	0	1	0	2	4	1	0	4	7	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	225342980	T	C	225342980	2	2	490	1	0	0	0	0	0	0	0	1	4056	1606	56	3		3	CUL3	2	225342980	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	45903745	225342980	17856393	9	25527											
GBX2	2637	broad.mit.edu	37	chr2	237076427	237076435	+	In_Frame_Del	DEL	GGCGGCGGC	-	-																															gcgcggcctggggcagcgcgGgcggcggcggcggcggcggc																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	GGCGGCGGC	GGCGGCGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		-	237076435	-	-	237076427	7	5	490	1	0	1	0	1	0	0	0	0	6281	1232	43	0	866	0	GBX2	2	237076427	In_Frame_Del	DEL	GGCGGCGGC	TCGA-EU-5906-01A-11D-1669-08	11733447	237076427	6122946	10	25528											
VHL	7428	hgsc.bcm.edu	37	chr3	10191572	10191572	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggtcgctctacgaagatctgGaagaccacccaaatgtgcag	12	7	11	11	2	2	2	0	0	2	2	3	4	2	3	2	2	2	2	2	2	4	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	10191572	G	C	10191572	3	2	490	1	0	0	0	0	1	0	0	0	17161	1175	41	4	575	4	VHL	3	10191572	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		10191572	187830858	11	25529											
OXSM	54995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	25835880	25835880	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgatctcaactatgtTccactaaaggcacaggaatg	14	11	8	8	0	1	1	1	1	1	0	3	3	2	2	1	2	1	2	1	2	6	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	25835880	T	G	25835880	2	3	490	1	0	0	0	0	0	0	0	1	11335	1770	62	5		5	OXSM	3	25835880	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	15644308	25835880	172186550	12	25530											
USP4	7375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49337921	49337921	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagtaggtctgcagtgaggGtcagcaggaaccaggaaaac	13	6	15	7	0	2	2	1	2	1	0	2	4	2	4	1	4	4	3	1	4	4	1	rs142071789	alternate_allele	TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	49337921	G	A	49337921	2	1	490	1	0	0	0	0	0	0	0	1	17070	1252	44	2		2	USP4	3	49337921	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08	23502041	49337921	148684509	13	25531											
FILIP1L	11259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	99568696	99568696	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggatttcccagagtcttgAtttaatttgttttttaggaa	9	19	9	4	0	1	2	0	1	1	1	2	4	2	4	1	2	0	1	1	2	3	8	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	99568696	A	G	99568696	2	3	490	1	0	0	0	0	0	0	0	1	5895	330	12	3		3	FILIP1L	3	99568696	Silent	SNP	A	TCGA-EU-5906-01A-11D-1669-08	50230775	99568696	98453734	14	25532											
POLQ	10721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121208546	121208546	+	Missense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaggtaaacgggtcttcacAaagactaggattagacagag	16	8	11	6	1	2	3	1	0	1	3	2	4	2	4	0	3	1	1	0	3	6	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	121208546	A	T	121208546	3	4	490	1	0	0	0	0	1	0	0	0	12208	130	5	5	4600	5	POLQ	3	121208546	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	21639850	121208546	76813884	15	25533											
GABRG1	2565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	46043110	46043110	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttggcaatgcgtatgtgtatCcttccttccctccaagatcc	7	14	7	13	1	0	1	0	0	0	1	5	1	5	1	5	1	1	3	5	1	4	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	46043110	C	T	46043110	2	4	490	1	0	0	0	0	0	0	0	1	6171	854	30	2		2	GABRG1	4	46043110	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08		46043110	145111166	16	25534											
TEC	100124696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48170607	48170607	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctaaagaccacctaccttcTttgtttctggtgctggaggt	7	14	10	10	0	2	1	0	0	2	1	2	2	2	2	3	3	2	3	3	3	3	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	48170607	T	G	48170607	3	3	490	1	0	0	0	0	1	0	0	0	15741	1609	56	5	1456	5	TEC	4	48170607	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	2127497	48170607	142983669	17	25535											
SPINK2	6691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57677912	57677912	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgtcactgccacacacagGgttaaagtgtctgggacatc	11	9	10	11	0	2	0	1	0	1	0	3	1	2	1	1	2	1	1	1	2	2	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	57677912	G	C	57677912	3	2	490	1	0	0	0	0	1	0	0	0	15061	1232	43	4	114	4	SPINK2	4	57677912	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	9507305	57677912	133476364	18	25536											
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33637849	33637849	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatatttccctccaaactttGgcctgcaaatgaaacagaca	15	10	5	11	0	0	2	0	1	0	1	2	2	2	2	3	1	3	1	3	1	5	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	33637849	G	C	33637849	3	2	490	1	0	0	0	0	1	0	0	0	257	1348	47	4	3115	4	ADAMTS12	5	33637849	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		33637849	147277411	19	25537											
ERBB2IP	55914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	65350483	65350483	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacagagagttccactcaGcgggaagaactcctccaatg	13	7	9	12	1	1	2	1	0	0	2	4	4	4	3	3	1	3	1	3	1	4	2	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	65350483	G	A	65350483	3	1	490	1	0	0	0	0	1	0	0	0	5207	971	34	2	3411	2	ERBB2IP	5	65350483	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	31712634	65350483	115564777	20	25538											
SERINC5	256987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79473191	79473191	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcctgagcacatggcccCcaacagcagaagtttaaaga	14	6	9	12	0	0	3	0	1	0	2	1	3	1	3	3	1	4	4	3	1	4	2	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	79473191	C	G	79473191	3	3	490	1	0	0	0	0	1	0	0	0	14085	623	22	4	1056	4	SERINC5	5	79473191	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	14122708	79473191	101442069	21	25539											
CSNK1A1	1452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	148904678	148904678	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgaagaggtcttcgaggCtaggtcccagaagatccatg	12	9	12	8	1	1	4	0	1	1	3	4	5	3	4	2	3	0	1	2	3	4	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	148904678	C	A	148904678	3	1	490	1	0	0	0	0	1	0	0	0	3950	797	28	4	846	4	CSNK1A1	5	148904678	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	69431487	148904678	32010582	22	25540											
SLC36A1	206358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150856274	150856274	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggtacctgcaatttggaGctaatatccaaggcagcata	12	10	11	8	0	0	0	0	0	0	0	1	1	1	1	2	4	4	5	2	4	6	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	150856274	G	A	150856274	3	1	490	1	0	0	0	0	1	0	0	0	14595	971	34	2	976	2	SLC36A1	5	150856274	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	1951596	150856274	30058986	23	25541											
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178557016	178557016	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtactcccactccacgcCcatggcaatgaaggttttgg	8	11	9	13	1	1	1	0	1	1	0	3	1	3	1	3	3	1	3	3	3	3	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	178557016	C	T	178557016	3	4	490	1	0	0	0	0	1	0	0	0	265	623	22	2	1289	2	ADAMTS2	5	178557016	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	27700742	178557016	2358244	24	25542											
GFOD1	54438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	13365468	13365468	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcacaccccgccctccAgcaccatctggaaggtgcag	9	5	10	17	1	1	0	0	0	1	0	2	1	2	1	5	2	4	4	5	2	1	0	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	13365468	A	G	13365468	3	3	490	1	0	0	0	0	1	0	0	0	6343	188	7	3	496	3	GFOD1	6	13365468	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08		13365468	157749599	25	25543											
CDC40	51362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	110501714	110501714	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagggtccgaatcggactcgGacagtgagagcagtcggtgt	9	7	16	9	4	0	1	0	1	0	1	4	5	1	3	1	4	1	1	1	4	1	0	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	110501714	G	A	110501714	3	1	490	1	0	0	0	0	1	0	0	0	3070	1174	41	2	69	2	CDC40	6	110501714	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	97136246	110501714	60613353	26	25544											
AKAP12	9590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	151671390	151671390	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggtgacgcccaagaagCgtgttagacggccttcggaa	11	7	14	9	4	0	4	0	1	0	3	1	5	0	5	2	3	1	1	2	3	4	2	rs143476871	alternate_allele	TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	151671390	C	A	151671390	3	1	490	1	0	0	0	0	1	0	0	0	448	768	27	4	1903	4	AKAP12	6	151671390	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	41169676	151671390	19443677	27	25545											
INTS1	26173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	1523722	1523722	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaacagagcgctcagcaCggcgtccgacgcggcactcg	9	3	14	15	7	1	1	1	0	0	1	3	3	2	2	1	3	3	3	1	3	1	0	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	1523722	C	A	1523722	3	1	490	1	0	0	0	0	1	0	0	0	7775	536	19	4	3322	4	INTS1	7	1523722	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		1523722	157614941	28	25546											
ANKIB1	54467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92027037	92027038	+	Frame_Shift_Del	DEL	AT	AT	-																															taccaattgctttgaaacagAtattccagaaggcggcagca																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		-	92027038	AT	-	92027037	7	5	490	1	0	1	0	1	0	0	0	0	630	347	12	0	2466	0	ANKIB1	7	92027037	Frame_Shift_Del	DEL	AT	TCGA-EU-5906-01A-11D-1669-08	90503315	92027037	67111626	29	25547											
GPR85	54329	broad.mit.edu	37	chr7	112724827	112724827	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaagtctcatgatctagaTataagaacaaggaaaagata	19	9	8	5	0	3	4	2	1	2	3	4	5	3	5	0	1	1	0	0	1	9	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	112724827	C	C	112724827	1	2	490	1	0	0	0	0	0	0	0	0	6715	1421	49	3		3	GPR85	7	112724827	Translation_Start_Site	SNP	T	TCGA-EU-5906-01A-11D-1669-08	20697790	112724827	46413836	30	25548											
NUDCD1	84955	hgsc.bcm.edu;ucsc.edu	37	chr8	110346160	110346161	+	Frame_Shift_Del	DEL	AG	AG	-																															ggtaacaaggcagcggctcaAgagagagcttgtaaccctcg																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		-	110346161	AG	-	110346160	7	5	490	1	0	1	0	1	0	0	0	0	10722	72	3	0	1746	0	NUDCD1	8	110346160	Frame_Shift_Del	DEL	AG	TCGA-EU-5906-01A-11D-1669-08		110346160	36017862	31	25549											
WISP1	8840	hgsc.bcm.edu;ucsc.edu	37	chr8	134233012	134233013	+	Frame_Shift_Del	DEL	TG	TG	-																															tgagcatacctggccactgcTgtgagcagtgggtatgtgag																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		-	134233013	TG	-	134233012	7	5	490	1	0	1	0	1	0	0	0	0	17371	1580	55	0	548	0	WISP1	8	134233012	Frame_Shift_Del	DEL	TG	TCGA-EU-5906-01A-11D-1669-08	23886852	134233012	12131010	32	25550											
UBQLN1	29979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86279973	86279973	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcccggggcttccgttgCtaatgtctgtaaaccctgct	6	11	12	12	2	1	0	0	0	1	0	2	1	2	0	3	3	3	5	3	3	3	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	86279973	C	T	86279973	3	4	490	1	0	0	0	0	1	0	0	0	16895	797	28	2	361	2	UBQLN1	9	86279973	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		86279973	54933458	33	25551											
NOL8	55035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95062258	95062258	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaacgagggtcttcctgccaGacaatctttccaggtttcac	10	11	8	12	1	3	1	1	0	2	1	5	2	5	1	3	2	2	1	3	2	2	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	95062258	G	C	95062258	2	2	490	1	0	0	0	0	0	0	0	1	10527	929	33	4		4	NOL8	9	95062258	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08	8782285	95062258	46151173	34	25552											
BAAT	570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104130484	104130484	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgcggggcaggtcttcaTagttatggtaagccaaggcc	8	11	14	8	1	2	0	1	0	1	0	2	0	2	0	2	5	2	4	2	5	4	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	104130484	T	A	104130484	3	1	490	1	0	0	0	0	1	0	0	0	1280	1406	49	5	677	5	BAAT	9	104130484	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	9068226	104130484	37082947	35	25553											
SCAI	286205	broad.mit.edu;hgsc.bcm.edu	37	chr9	127789180	127789180	+	Silent	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagatagctggtttccgaTgtgcgtaagctatgagaaaa	12	12	11	6	2	1	2	1	1	0	2	2	4	2	2	1	1	3	4	1	1	5	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	127789180	T	G	127789180	2	3	490	1	0	0	0	0	0	0	0	1	13871	1451	51	5		5	SCAI	9	127789180	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	23658696	127789180	13424251	36	25554											
UBE2D1	7321	broad.mit.edu;hgsc.bcm.edu	37	chr10	60124536	60124536	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttttatgtttagattgcTttcacaacaaaaatttacca	13	18	4	6	0	1	1	1	0	0	1	1	1	1	1	1	0	3	3	1	0	6	9	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	60124536	T	A	60124536	2	1	490	1	0	0	0	0	0	0	0	1	16847	1596	56	5		5	UBE2D1	10	60124536	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08		60124536	75410211	37	25555											
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61835232	61835232	+	Missense_Mutation	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatattgacgacccaagggAtgtatagagtgcacttgcgg	12	9	13	7	2	0	3	0	1	0	2	0	5	0	4	1	2	2	2	1	2	4	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	61835232	A	G	61835232	3	3	490	1	0	0	0	0	1	0	0	0	622	333	12	3	8067	3	ANK3	10	61835232	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	1710696	61835232	73699515	38	25556											
CYP2E1	1571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	135347393	135347393	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattctcatgaaataccctgAgattgaaggtaggcaagtga	14	10	11	6	0	1	4	1	4	1	1	2	6	1	4	1	2	1	2	1	2	5	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	135347393	A	C	135347393	3	2	490	1	0	0	0	0	1	0	0	0	4170	304	11	5	981	5	CYP2E1	10	135347393	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	73512161	135347393	187354	39	25557											
NUP98	4928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3797242	3797242	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcctccactgctagtactgGttccaaaatctaaaaataag	14	11	6	10	0	1	0	0	0	1	0	4	0	4	0	3	1	2	3	3	1	8	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	3797242	G	A	3797242	3	1	490	1	0	0	0	0	1	0	0	0	10773	1261	44	2	5225	2	NUP98	11	3797242	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		3797242	131209274	40	25558											
P2RX3	5024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57117325	57117325	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccccatcttgcgggtagggGacgtggtcaagtttgcgggg	5	9	18	9	3	2	0	1	0	1	0	2	1	2	1	2	6	2	2	2	6	2	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	57117325	G	A	57117325	3	1	490	1	0	0	0	0	1	0	0	0	11341	1174	41	2	684	2	P2RX3	11	57117325	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	53320083	57117325	77889191	41	25559											
ALDH3B1	221	broad.mit.edu;hgsc.bcm.edu	37	chr11	67789230	67789230	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacgacccccagagctcccCaaacctgggccgcatcatca	10	4	8	19	3	2	1	2	0	0	1	3	3	3	1	6	1	2	2	6	1	1	0	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	67789230	C	G	67789230	3	3	490	1	0	0	0	0	1	0	0	0	499	594	21	4	860	4	ALDH3B1	11	67789230	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	10671905	67789230	67217286	42	25560											
PRB3	5544	broad.mit.edu	37	chr12	11420500	11420500	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgcctccttgtgggggtGgtccttctggctttcccgga	1	15	14	11	1	1	0	0	0	1	0	4	1	4	1	4	5	1	2	4	5	0	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	11420500	T	T	11420500	3	4	490	1	0	0	0	0	1	0	0	0	12446	1348	47	4	254	4	PRB3	12	11420500	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		11420500	122431395	43	25561											
TUBA1A	7846	broad.mit.edu	37	chr12	49579013	49579013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaatggctgtggtgttgCtcagcatgcacacagctctc	8	10	11	12	0	2	0	1	0	1	0	3	0	2	0	0	2	5	7	0	2	1	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	49579013	T	T	49579013	3	4	490	1	0	0	0	0	1	0	0	0	16742	797	28	2	223	2	TUBA1A	12	49579013	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	38158513	49579013	84272882	44	25562											
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53685545	53685545	+	Silent	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctacgggctgtgcccaacCcagccagagcgagcccagga	9	3	13	16	2	0	1	0	0	0	1	0	3	0	2	5	2	6	1	5	2	2	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	53685545	C	G	53685545	2	3	490	1	0	0	0	0	0	0	0	1	5253	610	22	4		4	ESPL1	12	53685545	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08	4106532	53685545	80166350	45	25563											
GPR109A	0	broad.mit.edu;hgsc.bcm.edu	37	chr12	123187634	123187634	+	Missense_Mutation	SNP	A	A	T																															cagccactgccaggttgaacAggaaaatccggctggatttc																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	123187634	A	T	123187634	3	4	490	1	0	0	0	0	1	0	0	0	6625	188	7	5	898	5	GPR109A	12	123187634	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	69502089	123187634	10664261	46	25564	370	2									
GPR109A	0	broad.mit.edu;hgsc.bcm.edu	37	chr12	123187635	123187635	+	Silent	SNP	G	G	A																															agccactgccaggttgaacaGgaaaatccggctggatttcc																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	123187635	G	A	123187635	2	1	490	1	0	0	0	0	0	0	0	1	6625	991	35	2		2	GPR109A	12	123187635	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08	1	123187635	10664260	47	25565	370	2									
GOLGA3	2802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133354283	133354283	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctcggcctgcagcttctGcaccaggtgttccttggcct	3	11	12	15	1	1	0	0	0	1	0	3	0	2	0	5	4	3	4	5	4	0	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	133354283	G	T	133354283	3	4	490	1	0	0	0	0	1	0	0	0	6554	1328	46	4	829	4	GOLGA3	12	133354283	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	10166648	133354283	497612	48	25566											
NFATC4	4776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24839730	24839730	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggaaggaggtggctggcatgGactacctggcagtgccctcc	7	7	16	11	0	0	0	0	0	0	0	1	3	1	3	3	7	2	3	3	7	2	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	24839730	G	A	24839730	3	1	490	1	0	0	0	0	1	0	0	0	10365	1174	41	2	1325	2	NFATC4	14	24839730	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		24839730	82509810	49	25567											
FANCM	57697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45639810	45639810	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaatgaggcaaagtagccTaaagaaagattggttcttat	16	10	11	4	0	1	3	0	1	1	2	1	4	1	4	1	3	1	3	1	3	7	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	45639810	T	C	45639810	3	2	490	1	0	0	0	0	1	0	0	0	5671	1522	53	3	2067	3	FANCM	14	45639810	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	20800080	45639810	61709730	50	25568											
ZFYVE1	53349	broad.mit.edu	37	chr14	73465019	73465019	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taataaagtcttcttcatttGttacctgcaaaaaaaaaaaa	19	13	3	6	0	3	0	1	0	2	0	3	0	3	0	1	0	2	2	1	0	10	6	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	73465019	T	T	73465019	3	4	490	1	0	0	0	0	1	0	0	0	17662	1377	48	4	1885	4	ZFYVE1	14	73465019	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	27825209	73465019	33884521	51	25569											
PSMC1	5700	broad.mit.edu;hgsc.bcm.edu	37	chr14	90730154	90730154	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatttgtagacaaggatcTgctggaacctggctgctcgg	8	12	12	9	1	2	1	1	0	1	1	3	3	2	3	1	4	3	4	1	4	3	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	90730154	T	A	90730154	3	1	490	1	0	0	0	0	1	0	0	0	12687	1580	55	5	446	5	PSMC1	14	90730154	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	17265135	90730154	16619386	52	25570											
DDX24	57062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94528593	94528593	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttttagatttccagtctGctctttatcaagattttcct	7	20	5	9	0	3	2	1	0	2	2	5	2	5	2	2	0	1	2	2	0	3	7	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	94528593	G	A	94528593	4	1	490	1	0	0	0	0	0	1	0	0	4351	1328	46	2	1514	2	DDX24	14	94528593	Nonsense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	3798439	94528593	12820947	53	25571											
LYSMD4	145748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	100269896	100269896	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcaaagcatataagtctTgttctctgatgaagttgttg	11	17	8	5	0	3	2	1	2	2	0	4	2	3	2	0	0	1	4	0	0	4	7	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	100269896	T	G	100269896	3	3	490	1	0	0	0	0	1	0	0	0	9127	1812	63	5	571	5	LYSMD4	15	100269896	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08		100269896	2261496	54	25572											
TOP3A	7156	broad.mit.edu	37	chr17	18196163	18196163	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgttcggggatagctgatGtacctaaaaccaaggcaaac	13	9	10	9	1	1	1	0	1	1	0	2	2	1	2	2	3	4	4	2	3	6	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	18196163	A	A	18196163	2	1	490	1	0	0	0	0	0	0	0	1	16366	1372	48	2		2	TOP3A	17	18196163	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08		18196163	62999047	55	25573											
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu	37	chr17	27493028	27493028	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gctgagctcgctgagctctgGaatgggctgcaccttgagcc	6	9	14	12	1	1	3	0	3	1	0	2	4	1	4	2	2	4	6	2	2	1	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	27493028	G	C	27493028	3	2	490	1	0	0	0	0	1	0	0	0	10065	1174	41	4	5397	4	MYO18A	17	27493028	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	9296865	27493028	53702182	56	25574											
ZGLP1	100125288	broad.mit.edu	37	chr19	10419249	10419249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggagaagggcagtggggtCacgttttcttgggtgactcc	6	10	18	7	1	2	2	1	1	1	1	3	3	3	2	1	6	0	2	1	6	1	3	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	10419249	T	T	10419249	3	4	490	1	0	0	0	0	1	0	0	0	17672	826	29	2	722	2	ZGLP1	19	10419249	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		10419249	48709734	57	25575											
PODNL1	79883	broad.mit.edu	37	chr19	14043756	14043756	+	Frame_Shift_Del	DEL	A	-	-																															gctggttgcgttgcagctgcAgggtgcgcaggccagtgggc																								novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		-	14043756	-	-	14043756	7	5	490	1	0	1	0	1	0	0	0	0	12179	188	7	0	241	0	PODNL1	19	14043756	Frame_Shift_Del	DEL	A	TCGA-EU-5906-01A-11D-1669-08	3624507	14043756	45085227	58	25576											
MAP1S	55201	broad.mit.edu;hgsc.bcm.edu	37	chr19	17837059	17837059	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccgcgtggatgccgtgcTggtgacccaccctggcgccg	4	6	16	15	5	0	1	0	1	0	0	0	3	0	3	5	4	2	1	5	4	0	0	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	17837059	T	C	17837059	3	2	490	1	0	0	0	0	1	0	0	0	9234	1580	55	3	884	3	MAP1S	19	17837059	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	3793303	17837059	41291924	59	25577											
ZNF808	388558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53057358	53057358	+	Nonsense_Mutation	SNP	A	A	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaattcatagtggagagAaaacatacaagtgtaatgag	18	9	10	4	0	1	3	1	1	0	2	1	5	1	4	0	1	2	1	0	1	8	5	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	53057358	A	T	53057358	4	4	490	1	0	0	0	0	0	1	0	0	18172	247	9	5	1199	5	ZNF808	19	53057358	Nonsense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	35220299	53057358	6071625	60	25578											
NLRP5	126206	broad.mit.edu	37	chr19	56539568	56539568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtcctgctgggctgtcccGttcccctgggggtgaagcag	4	9	16	12	1	0	1	0	1	0	0	3	1	3	1	4	4	2	4	4	4	1	1	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	56539568	A	A	56539568	3	1	490	1	0	0	0	0	1	0	0	0	10480	1145	40	1	1995	1	NLRP5	19	56539568	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	3482210	56539568	2589415	61	25579											
PIGT	51604	broad.mit.edu	37	chr20	44044813	44044813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatggcggcggctatgcCgcttgctctgctcgtcctgt	3	11	14	13	4	1	0	0	0	1	0	3	0	2	0	2	4	3	5	2	4	1	2	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		T	44044813	T	T	44044813	3	4	490	1	0	0	0	0	1	0	0	0	11899	652	23	1	19	1	PIGT	20	44044813	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		44044813	18980707	62	25580											
NRIP1	8204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	16338673	16338673	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgtgcaccttcattttggGctggtttctctcctggtggg	2	17	12	10	0	3	0	1	0	2	0	5	0	4	0	2	4	1	3	2	4	0	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	16338673	G	A	16338673	3	1	490	1	0	0	0	0	1	0	0	0	10652	1203	42	2	1639	2	NRIP1	21	16338673	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		16338673	31791222	63	25581											
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21161667	21161667	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccttcatgtagtacagaGtgtcacgcagcatcttgaac	11	10	8	12	1	3	2	2	1	1	1	3	2	3	2	1	0	3	4	1	0	3	4	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	21161667	G	A	21161667	3	1	490	1	0	0	0	0	1	0	0	0	11873	1029	36	2	5341	2	PI4KA	22	21161667	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		21161667	30142899	64	25582											
SF3A1	10291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30740940	30740940	+	Silent	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttggtgtactgttccacTagcttcgtgaagtagttgaa	9	14	10	8	1	0	2	0	2	0	0	2	2	1	2	2	1	2	5	2	1	5	7	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		A	30740940	T	A	30740940	2	1	490	1	0	0	0	0	0	0	0	1	14148	1509	53	5		5	SF3A1	22	30740940	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	9579273	30740940	20563626	65	25583											
ADSL	158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40742592	40742592	+	Silent	SNP	C	C	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcgatcatggttcgccCgacagctaccgctcacctct	7	8	11	15	4	3	0	2	0	1	0	4	3	3	1	3	3	2	3	3	3	1	2	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		G	40742592	C	G	40742592	2	3	490	1	0	0	0	0	0	0	0	1	346	639	23	4		4	ADSL	22	40742592	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08	10001652	40742592	10561974	66	25584											
NCAPH2	29781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50960640	50960640	+	Missense_Mutation	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtactggacacacgtgaAggagcagttggaaactctcc	11	8	11	11	1	1	1	0	1	1	0	2	4	1	4	2	3	3	3	2	3	3	2	novel		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f		C	50960640	A	C	50960640	3	2	490	1	0	0	0	0	1	0	0	0	10210	72	3	5	1286	5	NCAPH2	22	50960640	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	10218048	50960640	343926	67	25585											
SPEN	23013	broad.mit.edu;hgsc.bcm.edu	37	chr1	16256217	16256217	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactgaagaaaaaattggcaTtgacatcgatcacacgcaga	17	8	8	8	2	1	4	1	2	0	2	2	5	1	4	0	1	1	2	0	1	5	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	16256217	T	C	16256217	3	2	491	1	0	0	0	0	1	0	0	0	15039	1493	52	3	3524	3	SPEN	1	16256217	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08		16256217	232994404	1	25586											
RAP1GAP	5909	broad.mit.edu	37	chr1	21924516	21924516	+	Frame_Shift_Del	DEL	C	-	-																															gatctcgggacacgcagggtCccccaacttgccggcgtctg																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		-	21924516	-	-	21924516	7	5	491	1	0	1	0	1	0	0	0	0	13039	855	30	0	78	0	RAP1GAP	1	21924516	Frame_Shift_Del	DEL	C	TCGA-EU-5907-01A-11D-1669-08	5668299	21924516	227326105	2	25587											
ATG4C	84938	broad.mit.edu;hgsc.bcm.edu	37	chr1	63269471	63269471	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tttgaatatggaggctacagGaacagatgaagttgacaagc	15	9	12	5	0	0	4	0	3	0	1	0	6	0	6	0	3	3	2	0	3	6	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	63269471	G	C	63269471	3	2	491	1	0	0	0	0	1	0	0	0	1098	1174	41	4	16	4	ATG4C	1	63269471	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	41344955	63269471	185981150	3	25588											
PI4KB	5298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151280208	151280208	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgctctttggtggggaGcgtggccagccgcttgccga	3	12	15	11	3	2	0	0	0	2	0	2	2	2	1	3	4	4	2	3	4	0	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	151280208	G	C	151280208	3	2	491	1	0	0	0	0	1	0	0	0	11874	971	34	4	1462	4	PI4KB	1	151280208	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	88010737	151280208	97970413	4	25589											
DDX18	8886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	118577223	118577223	+	Splice_Site	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttgtcttttaaaaccaaAgatacgaaaaaagcaaaaac	21	10	4	6	1	1	1	0	0	1	1	1	2	1	1	1	0	4	1	1	0	9	5	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	118577223	A	G	118577223	5	3	491	1	0	0	0	0	0	0	1	0	4345	86	3	3	379	3	DDX18	2	118577223	Splice_Site	SNP	A	TCGA-EU-5907-01A-11D-1669-08		118577223	124622150	5	25590											
THSD7B	80731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	138414637	138414637	+	Silent	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcatatttacttacaggaGgcaaatgttatcactacaca	15	13	5	8	0	2	0	2	0	0	0	2	1	2	1	0	2	3	2	0	2	7	7	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	138414637	G	A	138414637	2	1	491	1	0	0	0	0	0	0	0	1	15879	1000	35	2		2	THSD7B	2	138414637	Silent	SNP	G	TCGA-EU-5907-01A-11D-1669-08	19837414	138414637	104784736	6	25591											
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238249156	238249156	+	Silent	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctcgttgagctcggtGgacttgtccactaatttgaa	7	13	11	10	2	0	2	0	2	0	0	4	3	2	3	2	3	1	3	2	3	2	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	238249156	G	C	238249156	2	2	491	1	0	0	0	0	0	0	0	1	3701	1335	47	4		4	COL6A3	2	238249156	Silent	SNP	G	TCGA-EU-5907-01A-11D-1669-08	99834519	238249156	4950217	7	25592											
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10183787	10183787	+	Frame_Shift_Del	DEL	C	-	-																															gcagtccgcgcgtcgtgctgCccgtatggctcaacttcgac																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		-	10183787	-	-	10183787	7	5	491	1	0	1	0	1	0	0	0	0	17161	739	26	0	258	0	VHL	3	10183787	Frame_Shift_Del	DEL	C	TCGA-EU-5907-01A-11D-1669-08		10183787	187838643	8	25593											
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52661325	52661325	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taccagtatcagaggtggctGaagagatcatgctgtctccg	10	10	12	9	1	3	3	2	1	1	2	4	4	3	3	2	2	2	3	2	2	3	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	52661325	G	C	52661325	4	2	491	1	0	0	0	0	0	1	0	0	11491	1294	45	4	3467	4	PBRM1	3	52661325	Nonsense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	42477538	52661325	145361105	9	25594											
TMEM108	66000	hgsc.bcm.edu	37	chr3	133099097	133099097	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggctggtaattcatcacGccctgtcccgcctgcacctg	6	9	11	15	2	2	0	2	0	0	0	3	0	3	0	4	3	1	3	4	3	1	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	133099097	G	A	133099097	3	1	491	1	0	0	0	0	1	0	0	0	16023	1087	38	1	548	1	TMEM108	3	133099097	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	80437772	133099097	64923333	10	25595											
SLIT2	9353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	20541152	20541152	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttctttgtatgataatCaaattactacagttgcacca	12	16	5	8	0	2	1	1	1	1	0	2	1	2	1	1	0	4	4	1	0	5	7	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	20541152	C	A	20541152	3	1	491	1	0	0	0	0	1	0	0	0	14742	827	29	4	1995	4	SLIT2	4	20541152	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		20541152	170613124	11	25596											
MTTP	4547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	100532310	100532310	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgttgcagcaaaattgtcCgtcgagttctgaaggaaatg	12	12	11	6	2	1	1	0	1	1	0	3	3	2	2	1	1	2	4	1	1	5	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	100532310	C	T	100532310	3	4	491	1	0	0	0	0	1	0	0	0	9964	652	23	1	1830	1	MTTP	4	100532310	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	79991158	100532310	90621966	12	25597											
GOLPH3	64083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32126321	32126321	+	Silent	SNP	C	C	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcaccccgagcagagttaCttggtgaacgccgccaccac	9	7	10	15	3	1	2	1	1	0	1	1	3	1	2	5	1	3	3	5	1	2	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	32126321	C	T	32126321	2	4	491	1	0	0	0	0	0	0	0	1	6568	564	20	2		2	GOLPH3	5	32126321	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08		32126321	148788939	13	25598											
FOXD1	2297	broad.mit.edu	37	chr5	72743654	72743654	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacgaagcagtcgttgagCgagaggttgtggcggatgct	8	10	17	6	4	0	3	0	2	0	1	1	6	0	4	0	3	3	4	0	3	1	3	rs1052207		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	72743654	T	T	72743654	2	4	491	1	0	0	0	0	0	0	0	1	5996	755	27	1		1	FOXD1	5	72743654	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08	40617333	72743654	108171606	14	25599											
UNC5A	90249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176305475	176305475	+	Splice_Site	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctctctgcatccccatcaGgagatccccttttatcacat	8	13	4	16	0	3	1	2	0	1	1	7	2	6	1	5	1	1	1	5	1	1	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	176305475	G	A	176305475	5	1	491	1	0	0	0	0	0	0	1	0	16990	1014	35	2	2069	2	UNC5A	5	176305475	Splice_Site	SNP	G	TCGA-EU-5907-01A-11D-1669-08	103561821	176305475	4609785	15	25600											
MRPL2	51069	broad.mit.edu;hgsc.bcm.edu	37	chr6	43024130	43024130	+	Missense_Mutation	SNP	T	T	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaaacgcagaaagtcaaTcattcgataacgttgcttgt	13	10	9	9	4	2	1	2	0	0	1	3	3	2	2	1	1	3	3	1	1	4	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	43024130	T	G	43024130	3	3	491	1	0	0	0	0	1	0	0	0	9785	1435	50	5	618	5	MRPL2	6	43024130	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08		43024130	128090937	16	25601											
MET	4233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116380121	116380121	+	Missense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accaaaatggctacacactgGttatcactgggaagaaggta	15	8	10	8	0	1	1	1	0	0	1	1	2	1	2	1	4	1	3	1	4	7	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	116380121	G	C	116380121	3	2	491	1	0	0	0	0	1	0	0	0	9485	1261	44	4	1520	4	MET	7	116380121	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		116380121	42758542	17	25602											
AASS	10157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121717991	121717991	+	Frame_Shift_Del	DEL	T	T	-																															ataagccacaagatcaatcgTtttatgttctaaatgtccag																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		-	121717991	T	-	121717991	7	5	491	1	0	1	0	1	0	0	0	0	24	1725	60	0	225	0	AASS	7	121717991	Frame_Shift_Del	DEL	T	TCGA-EU-5907-01A-11D-1669-08	5337870	121717991	37420672	18	25603											
ATP6V1B2	526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	20075680	20075680	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagtatgcgtgctatgctaTtggaaaggatgtgcaagcca	11	12	12	6	1	0	0	0	0	0	0	0	2	0	2	1	2	5	4	1	2	6	5	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	20075680	T	C	20075680	3	2	491	1	0	0	0	0	1	0	0	0	1179	1493	52	3	1333	3	ATP6V1B2	8	20075680	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08		20075680	126288342	19	25604											
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110477389	110477389	+	Silent	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtgcaaagtttgttgaCgtccagtattctcacacacc	10	12	9	10	1	1	1	1	1	1	0	3	2	2	2	2	1	1	4	2	1	2	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	110477389	C	T	110477389	2	4	491	1	0	0	0	0	0	0	0	1	11972	535	19	1		1	PKHD1L1	8	110477389	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08	90401709	110477389	35886633	20	25605											
MYO3A	53904	broad.mit.edu;ucsc.edu	37	chr10	26463158	26463158	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatatgcagccaggaggaagGcagaggccgtctgaggcatg	11	5	17	8	1	1	2	0	1	1	1	1	5	1	4	2	5	2	3	2	5	2	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	26463158	T	T	26463158	3	4	491	1	0	0	0	0	1	0	0	0	10076	1203	42	4	4075	4	MYO3A	10	26463158	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		26463158	109071589	21	25606											
ZMIZ1	57178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	81065919	81065919	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggccggtgcccatcaagtCggacttacacatcaaggacg	10	6	12	13	4	2	0	2	0	0	0	3	2	2	2	2	4	2	0	2	4	3	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	81065919	C	T	81065919	3	4	491	1	0	0	0	0	1	0	0	0	17695	893	31	1	2556	1	ZMIZ1	10	81065919	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	54602761	81065919	54468828	22	25607											
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89692880	89692893	+	Frame_Shift_Del	DEL	ATTCACTGTAAAGC	ATTCACTGTAAAGC	-																															atgacaatcatgttgcagcaAttcactgtaaagctggaaag																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	ATTCACTGTAAAGC	ATTCACTGTAAAGC	ATTCACTGTAAAGC	-	ATTCACTGTAAAGC	ATTCACTGTAAAGC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		-	89692893	ATTCACTGTAAAGC	-	89692880	7	5	491	1	0	1	0	1	0	0	0	0	12740	101	4	0	382	0	PTEN	10	89692880	Frame_Shift_Del	DEL	ATTCACTGTAAAGC	TCGA-EU-5907-01A-11D-1669-08	8626961	89692880	45841867	23	25608											
EIF3A	8661	broad.mit.edu;hgsc.bcm.edu	37	chr10	120832959	120832959	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctaacccacatacctctcaGgagtttgaatattatctaga	13	13	5	10	0	3	2	1	1	3	1	4	3	3	3	2	1	2	1	2	1	6	6	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	120832959	G	A	120832959	3	1	491	1	0	0	0	0	1	0	0	0	5012	1000	35	2	3857	2	EIF3A	10	120832959	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	31140079	120832959	14701788	24	25609											
HPS5	11234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18303659	18303659	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacattgatgggggaaggcCcatcactgaggctcccattt	9	9	11	12	0	1	2	1	2	0	0	2	3	2	3	3	4	0	1	3	4	1	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	18303659	C	G	18303659	3	3	491	1	0	0	0	0	1	0	0	0	7342	623	22	4	230	4	HPS5	11	18303659	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		18303659	116702857	25	25610											
SLC22A9	114571	hgsc.bcm.edu	37	chr11	63137795	63137796	+	In_Frame_Ins	INS	-	-	CGCGCG																															tgaggccagagaagtgtcgtINScgctttgttcatcctcagtg																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		CGCGCG	63137796	-	CGCGCG	63137795	7	5	491	1	0	1	1	0	0	0	0	0	14463	1654	58	0	269	0	SLC22A9	11	63137795	In_Frame_Ins	INS	-	TCGA-EU-5907-01A-11D-1669-08	44834136	63137795	71868721	26	25611											
TMEM123	114908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102272803	102272803	+	Missense_Mutation	SNP	T	T	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagaccatccctggtgttgTtgtattagatgccgctgtag	7	14	12	8	1	0	2	0	1	0	2	1	3	1	2	3	1	1	5	3	1	3	5	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	102272803	T	C	102272803	3	2	491	1	0	0	0	0	1	0	0	0	16035	1725	60	3	346	3	TMEM123	11	102272803	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08	39135008	102272803	32733713	27	25612											
SPSB2	84727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6981774	6981774	+	Nonsense_Mutation	SNP	C	C	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgcgtgcccctctgctCtaggggccagctgatctccc	4	9	12	16	1	3	1	0	1	3	0	4	1	3	1	4	3	4	3	4	3	1	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	6981774	C	A	6981774	4	1	491	1	0	0	0	0	0	1	0	0	15114	922	32	4	507	4	SPSB2	12	6981774	Nonsense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		6981774	126870121	28	25613											
PLEKHG7	440107	broad.mit.edu;ucsc.edu	37	chr12	93134670	93134670	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatctgcaaactcatgaataTctcctagatgtggatttatg	12	15	7	7	0	3	2	1	1	2	1	4	3	3	3	1	1	2	1	1	1	6	5	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	93134670	C	C	93134670	2	2	491	1	0	0	0	0	0	0	0	1	12075	1442	50	3		3	PLEKHG7	12	93134670	Silent	SNP	T	TCGA-EU-5907-01A-11D-1669-08	86152896	93134670	40717225	29	25614											
CHST11	50515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104851282	104851282	+	Frame_Shift_Del	DEL	C	C	-																															tcctttatcctggtcatcttCtatttccaaagtatgttgca																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		-	104851282	C	-	104851282	7	5	491	1	0	1	0	1	0	0	0	0	3399	912	32	0	95	0	CHST11	12	104851282	Frame_Shift_Del	DEL	C	TCGA-EU-5907-01A-11D-1669-08	11716612	104851282	29000613	30	25615											
C13orf30	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	43362794	43362794	+	Silent	SNP	A	A	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcaaccaagagagcctcAgccaaggtagctcctcaaag	14	6	9	12	0	3	1	3	0	0	1	4	3	4	1	4	1	4	2	4	1	5	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	43362794	A	C	43362794	2	2	491	1	0	0	0	0	0	0	0	1	1725	175	7	5		5	C13orf30	13	43362794	Silent	SNP	A	TCGA-EU-5907-01A-11D-1669-08		43362794	71807084	31	25616											
RABGGTA	5875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24737807	24737807	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactggtcgttgagggaggCagcaggcaggtcacagagct	10	6	16	9	1	1	2	1	1	0	1	2	3	1	3	0	5	3	5	0	5	1	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	24737807	C	G	24737807	3	3	491	1	0	0	0	0	1	0	0	0	12969	710	25	4	816	4	RABGGTA	14	24737807	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		24737807	82611733	32	25617											
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24885001	24885001	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcctgctccccttacaCgccaacctatgcccacctgg	6	10	5	20	1	1	0	0	0	1	0	3	0	2	0	7	1	4	1	7	1	3	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	24885001	C	T	24885001	3	4	491	1	0	0	0	0	1	0	0	0	10796	536	19	1	4076	1	NYNRIN	14	24885001	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	147194	24885001	82464539	33	25618											
PHF23	79142	broad.mit.edu;ucsc.edu	37	chr17	7139291	7139291	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccatgacccgcatctcgcCttcactggagctggcatctc	6	10	9	16	2	3	1	1	1	2	0	6	2	4	2	3	2	1	3	3	2	0	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	7139291	G	G	7139291	3	3	491	1	0	0	0	0	1	0	0	0	11835	681	24	4	264	4	PHF23	17	7139291	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		7139291	74055919	34	25619											
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10366258	10366258	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgacaaatgcgaagtcaTatgggttggtggtgatcaga	11	10	15	5	1	2	3	2	2	0	1	2	4	2	3	0	4	1	2	0	4	3	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	10366258	T	A	10366258	3	1	491	1	0	0	0	0	1	0	0	0	10037	1406	49	5	5007	5	MYH4	17	10366258	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08	3226967	10366258	70828952	35	25620			1	41		3	3	627	N	T_C	5.099894e-07
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10366705	10366705	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcaccaaaatggatcCtgatgaatttacccttaaaa	14	11	7	9	0	0	2	0	2	0	0	1	3	1	3	3	2	1	1	3	2	6	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	10366705	C	G	10366705	3	3	491	1	0	0	0	0	1	0	0	0	10037	681	24	4	5192	4	MYH4	17	10366705	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	447	10366705	70828505	36	25621			1	41		3	3	627	N	T_C	5.099894e-07
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10366884	10366884	+	Missense_Mutation	SNP	T	T	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacaaagcgagaggagttgTcattcctcacggtcttggca	10	11	11	9	2	3	1	2	0	1	1	4	3	4	2	1	3	2	2	1	3	2	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	10366884	T	A	10366884	3	1	491	1	0	0	0	0	1	0	0	0	10037	1667	58	5	5226	5	MYH4	17	10366884	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08	179	10366884	70828326	37	25622			1	41		3	3	627	N	T_C	5.099894e-07
KRT23	25984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39086293	39086293	+	Nonsense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggttgtctaaggtccttcGgaggccctcgacttcaattt	7	13	10	11	2	2	0	1	0	1	0	5	2	3	1	2	4	0	1	2	4	2	5	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	39086293	G	A	39086293	4	1	491	1	0	0	0	0	0	1	0	0	8460	1124	39	1	757	1	KRT23	17	39086293	Nonsense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	28719409	39086293	42108917	38	25623											
NGFR	4804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	47587945	47587945	+	Missense_Mutation	SNP	C	C	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccgtggtgacccgaggcaCcaccgacaacctcatccctg	8	5	10	18	3	1	1	1	1	0	0	2	3	2	1	6	2	1	1	6	2	1	0	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	47587945	C	A	47587945	3	1	491	1	0	0	0	0	1	0	0	0	10396	507	18	4	754	4	NGFR	17	47587945	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	8501652	47587945	33607265	39	25624											
ABCA5	23461	broad.mit.edu;hgsc.bcm.edu	37	chr17	67280186	67280186	+	Nonsense_Mutation	SNP	G	G	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaaatgacacccaaatttGaatgactgtctagggcagaa	17	8	9	7	0	1	5	0	3	1	2	1	5	1	5	1	1	0	1	1	1	6	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		C	67280186	G	C	67280186	4	2	491	1	0	0	0	0	0	1	0	0	35	1294	45	4	2716	4	ABCA5	17	67280186	Nonsense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	19692241	67280186	13915024	40	25625											
TMC8	147138	broad.mit.edu;hgsc.bcm.edu	37	chr17	76137117	76137117	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtggatgccgcgggactgcGttccccttgccctggacagc	4	8	14	15	4	0	0	0	0	0	0	1	3	1	3	4	3	4	1	4	3	0	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	76137117	G	A	76137117	3	1	491	1	0	0	0	0	1	0	0	0	15990	1145	40	1	2163	1	TMC8	17	76137117	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	8856931	76137117	5058093	41	25626											
TK1	7083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76170949	76170960	+	In_Frame_Del	DEL	CCGGCAGGCTGG	CCGGCAGGCTGG	-																															agttctctttgttgtccggcCcggcaggctggcctgaggcc																								novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	CCGGCAGGCTGG	CCGGCAGGCTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		-	76170960	CCGGCAGGCTGG	-	76170949	7	5	491	1	0	1	0	1	0	0	0	0	15931	623	22	0	112	0	TK1	17	76170949	In_Frame_Del	DEL	CCGGCAGGCTGG	TCGA-EU-5907-01A-11D-1669-08	33832	76170949	5024261	42	25627											
IL12RB1	3594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18191685	18191685	+	Silent	SNP	C	C	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctcaggagacttctctgtCtggttcctggcccaggattc	6	12	10	13	0	3	1	1	0	2	1	6	3	4	2	3	4	0	1	3	4	0	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	18191685	C	T	18191685	2	4	491	1	0	0	0	0	0	0	0	1	7626	912	32	2		2	IL12RB1	19	18191685	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08		18191685	40937298	43	25628											
PRX	57716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40901528	40901528	+	Missense_Mutation	SNP	C	C	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcccttcctcaatttccaCggcgggcagctgtggggtga	5	9	13	14	3	1	1	1	1	0	0	3	1	3	1	4	4	1	2	4	4	1	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	40901528	C	T	40901528	3	4	491	1	0	0	0	0	1	0	0	0	12644	536	19	1	1658	1	PRX	19	40901528	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	22709843	40901528	18227455	44	25629											
SLC8A2	6543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47969097	47969097	+	Missense_Mutation	SNP	C	C	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggtgcttgatcttgcggctCtcgccggctgggatgacgta	5	11	15	10	4	2	2	0	2	2	0	3	3	2	3	1	4	2	4	1	4	1	3	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	47969097	C	G	47969097	3	3	491	1	0	0	0	0	1	0	0	0	14709	912	32	4	2237	4	SLC8A2	19	47969097	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	7067569	47969097	11159886	45	25630											
EPB41L1	2036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34776292	34776292	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgagggcatcgacatcatGttaggcgtttgtgccaatgg	8	12	13	8	2	2	1	1	1	1	0	3	2	2	1	1	3	1	3	1	3	2	2	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	34776292	G	T	34776292	3	4	491	1	0	0	0	0	1	0	0	0	5152	1377	48	4	927	4	EPB41L1	20	34776292	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		34776292	28249228	46	25631											
PIGT	51604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44045233	44045233	+	Silent	SNP	A	A	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacgggagctgcacctgtcAttcacacaaggcttttggag	9	10	11	11	1	2	0	2	0	0	0	2	2	2	2	1	3	3	3	1	3	2	4	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		G	44045233	A	G	44045233	2	3	491	1	0	0	0	0	0	0	0	1	11899	204	8	3		3	PIGT	20	44045233	Silent	SNP	A	TCGA-EU-5907-01A-11D-1669-08	9268941	44045233	18980287	47	25632											
PIGT	51604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44045300	44045300	+	Missense_Mutation	SNP	G	G	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcaggccccatcaggtgcaGagctgtgggtctggttccaa	7	9	14	11	0	2	1	1	0	1	1	3	1	3	1	3	4	3	4	3	4	1	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		A	44045300	G	A	44045300	3	1	491	1	0	0	0	0	1	0	0	0	11899	943	33	2	337	2	PIGT	20	44045300	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	67	44045300	18980220	48	25633											
B4GALT5	9334	broad.mit.edu	37	chr20	48330184	48330184	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaagagcgcggcgagcAgcgagcggcgcggcagccgc	10	0	19	12	8	0	3	0	0	0	3	0	5	0	3	1	3	5	2	1	3	2	0	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	48330184	T	T	48330184	3	4	491	1	0	0	0	0	1	0	0	0	1274	188	7	5	1158	5	B4GALT5	20	48330184	Missense_Mutation	SNP	A	TCGA-EU-5907-01A-11D-1669-08	4284884	48330184	14695336	49	25634											
EIF3L	51386	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38274117	38274117	+	Missense_Mutation	SNP	G	G	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaacctcgtgtggaccagcgGtatctcagccctggatggtg	7	9	14	11	2	1	0	1	0	1	0	3	3	1	2	3	4	3	1	3	4	2	1	novel		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb		T	38274117	G	T	38274117	3	4	491	1	0	0	0	0	1	0	0	0	5022	1261	44	4	1556	4	EIF3L	22	38274117	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		38274117	13030449	50	25635											
